PSIBLAST 2.11.0+


Reference: Stephen F. Altschul, Thomas L. Madden, Alejandro A.
Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J.
Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of
protein database search programs", Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Stephen F.
Altschul, John C. Wootton, E. Michael Gertz, Richa Agarwala,
Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005)
"Protein database searches using compositionally adjusted
substitution matrices", FEBS J. 272:5101-5109.


Reference for composition-based statistics starting in round 2:
Alejandro A. Schaffer, L. Aravind, Thomas L. Madden, Sergei
Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and
Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST
protein database searches with composition-based statistics and
other refinements", Nucleic Acids Res. 29:2994-3005.



Database: uniprot_sprot.fasta
           570,830 sequences; 206,533,160 total letters

Results from round 1


Query= YP_009725299.1 nsp3 [Severe acute respiratory syndrome coronavirus
2]

Length=1945
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

sp|P0DTC1|R1A_SARS2 Replicase polyprotein 1a OS=Severe acute resp...  4035    0.0   
sp|P0DTD1|R1AB_SARS2 Replicase polyprotein 1ab OS=Severe acute re...  4024    0.0   
sp|P0C6U8|R1A_SARS Replicase polyprotein 1a OS=Severe acute respi...  3066    0.0   
sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute res...  3056    0.0   
sp|P0C6T7|R1A_BCRP3 Replicase polyprotein 1a OS=Bat coronavirus R...  3055    0.0   
sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus...  3044    0.0   
sp|P0C6F8|R1A_BCHK3 Replicase polyprotein 1a OS=Bat coronavirus H...  3030    0.0   
sp|P0C6F5|R1A_BC279 Replicase polyprotein 1a OS=Bat coronavirus 2...  3023    0.0   
sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus...  3022    0.0   
sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus...  3015    0.0   
sp|P0C6T5|R1A_BCHK5 Replicase polyprotein 1a OS=Bat coronavirus H...  710     0.0   
sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus...  709     0.0   
sp|P0C6T6|R1A_BCHK9 Replicase polyprotein 1a OS=Bat coronavirus H...  684     0.0   
sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus...  681     0.0   
sp|K9N638|R1A_MERS1 Replicase polyprotein 1a OS=Middle East respi...  678     0.0   
sp|K9N7C7|R1AB_MERS1 Replicase polyprotein 1ab OS=Middle East res...  678     0.0   
sp|P0C6U0|R1A_CVBM Replicase polyprotein 1a OS=Bovine coronavirus...  508     1e-145
sp|P0C6T9|R1A_CVBLU Replicase polyprotein 1a OS=Bovine coronaviru...  508     1e-145
sp|P0C6T8|R1A_CVBEN Replicase polyprotein 1a OS=Bovine coronaviru...  507     2e-145
sp|P0C6W9|R1AB_CVBM Replicase polyprotein 1ab OS=Bovine coronavir...  508     2e-145
sp|P0C6W8|R1AB_CVBLU Replicase polyprotein 1ab OS=Bovine coronavi...  506     5e-145
sp|P0C6U1|R1A_CVBQ Replicase polyprotein 1a OS=Bovine coronavirus...  506     6e-145
sp|P0C6W7|R1AB_CVBEN Replicase polyprotein 1ab OS=Bovine coronavi...  506     6e-145
sp|P0C6X0|R1AB_CVBQ Replicase polyprotein 1ab OS=Bovine coronavir...  505     1e-144
sp|P0C6U7|R1A_CVHOC Replicase polyprotein 1a OS=Human coronavirus...  500     3e-143
sp|P0C6X6|R1AB_CVHOC Replicase polyprotein 1ab OS=Human coronavir...  499     8e-143
sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavi...  481     1e-136
sp|P0C6V1|R1A_CVMJH Replicase polyprotein 1a OS=Murine coronaviru...  480     1e-136
sp|P0C6U4|R1A_CVHN2 Replicase polyprotein 1a OS=Human coronavirus...  478     6e-136
sp|P0C6V0|R1A_CVMA5 Replicase polyprotein 1a OS=Murine coronaviru...  478     6e-136
sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavi...  478     7e-136
sp|P0C6U3|R1A_CVHN1 Replicase polyprotein 1a OS=Human coronavirus...  477     1e-135
sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavir...  477     1e-135
sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavir...  477     1e-135
sp|P0C6U5|R1A_CVHN5 Replicase polyprotein 1a OS=Human coronavirus...  475     4e-135
sp|P0C6U9|R1A_CVM2 Replicase polyprotein 1a OS=Murine coronavirus...  475     5e-135
sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavir...  475     8e-135
sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavir...  474     2e-134
sp|P0C6T4|R1A_BCHK4 Replicase polyprotein 1a OS=Bat coronavirus H...  404     2e-112
sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus...  404     3e-112
sp|P0C6F7|R1A_BC133 Replicase polyprotein 1a OS=Bat coronavirus 1...  402     7e-112
sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus...  402     1e-111
sp|P0C6F6|R1A_BC512 Replicase polyprotein 1a OS=Bat coronavirus 5...  205     2e-51 
sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus...  205     3e-51 
sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavir...  200     7e-50 
sp|P0C6U2|R1A_CVH22 Replicase polyprotein 1a OS=Human coronavirus...  200     8e-50 
sp|P0C6Y4|R1AB_PEDV7 Replicase polyprotein 1ab OS=Porcine epidemi...  181     6e-44 
sp|P0C6V6|R1A_PEDV7 Replicase polyprotein 1a OS=Porcine epidemic ...  180     8e-44 
sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavir...  176     1e-42 
sp|P0C6U6|R1A_CVHNL Replicase polyprotein 1a OS=Human coronavirus...  176     2e-42 
sp|P0C6V4|R1A_IBVBC Replicase polyprotein 1a OS=Avian infectious ...  167     7e-40 
sp|P0C6V3|R1A_IBVB Replicase polyprotein 1a OS=Avian infectious b...  167     7e-40 
sp|P0C6Y1|R1AB_IBVB Replicase polyprotein 1ab OS=Avian infectious...  167     8e-40 
sp|P0C6Y2|R1AB_IBVBC Replicase polyprotein 1ab OS=Avian infectiou...  167     8e-40 
sp|P0C6Y3|R1AB_IBVM Replicase polyprotein 1ab OS=Avian infectious...  162     3e-38 
sp|P0C6V5|R1A_IBVM Replicase polyprotein 1a OS=Avian infectious b...  161     6e-38 
sp|P0C6V2|R1A_CVPPU Replicase polyprotein 1a OS=Porcine transmiss...  160     1e-37 
sp|P0C6Y5|R1AB_CVPPU Replicase polyprotein 1ab OS=Porcine transmi...  160     1e-37 
sp|Q98VG9|R1AB_FIPV Replicase polyprotein 1ab OS=Feline coronavir...  153     1e-35 
sp|Q8ZXT3|Y1111_PYRAE Uncharacterized protein PAE1111 OS=Pyrobacu...  72.8    5e-13 
sp|Q4J9D2|Y1252_SULAC Uncharacterized protein Saci_1252 OS=Sulfol...  72.4    7e-13 
sp|Q97UU4|Y2899_SACS2 Uncharacterized protein SSO2899 OS=Saccharo...  71.6    1e-12 
sp|Q9WYX8|Y508_THEMA Uncharacterized protein TM_0508 OS=Thermotog...  76.3    2e-12 
sp|Q96XY5|Y2383_SULTO Uncharacterized protein STK_23830 OS=Sulfur...  65.1    2e-10 
sp|P0C6F3|R1A_BEV Replicase polyprotein 1a OS=Berne virus OX=1115...  65.5    6e-09 
sp|P0C6V7|R1AB_BEV Replicase polyprotein 1ab OS=Berne virus OX=11...  65.5    7e-09 
sp|Q8CAS9|PARP9_MOUSE Protein mono-ADP-ribosyltransferase PARP9 O...  63.5    2e-08 
sp|P36327|POLN_EEVV3 Polyprotein P1234 OS=Venezuelan equine encep...  63.2    3e-08 
sp|P27282|POLN_EEVVT Polyprotein P1234 OS=Venezuelan equine encep...  62.4    5e-08 
sp|P36328|POLN_EEVVP Polyprotein P1234 OS=Venezuelan equine encep...  62.4    5e-08 
sp|A7MG20|YMDB_CROS8 O-acetyl-ADP-ribose deacetylase OS=Cronobact...  58.2    6e-08 
sp|E1SDF1|YMDB1_PANVC O-acetyl-ADP-ribose deacetylase 1 OS=Pantoe...  56.6    2e-07 
sp|A8AI35|YMDB_CITK8 O-acetyl-ADP-ribose deacetylase OS=Citrobact...  56.6    2e-07 
sp|C9Y0V8|YMDB_CROTZ O-acetyl-ADP-ribose deacetylase OS=Cronobact...  56.2    3e-07 
sp|P0A8D6|YMDB_ECOLI O-acetyl-ADP-ribose deacetylase OS=Escherich...  55.8    3e-07 
sp|P0A8D7|YMDB_ECOL6 O-acetyl-ADP-ribose deacetylase OS=Escherich...  55.8    3e-07 
sp|P0A8D8|YMDB_ECO57 O-acetyl-ADP-ribose deacetylase OS=Escherich...  55.8    3e-07 
sp|Q8V294|POLN_EEVVC Polyprotein P1234 OS=Venezuelan equine encep...  59.3    5e-07 
sp|B5F961|YMDB_SALA4 O-acetyl-ADP-ribose deacetylase OS=Salmonell...  54.3    1e-06 
sp|Q460N5|PAR14_HUMAN Protein mono-ADP-ribosyltransferase PARP14 ...  57.4    2e-06 
sp|A4W960|YMDB_ENT38 O-acetyl-ADP-ribose deacetylase OS=Enterobac...  53.9    2e-06 
sp|B7LT90|YMDB_ESCF3 O-acetyl-ADP-ribose deacetylase OS=Escherich...  53.9    2e-06 
sp|P67341|YMDB_SALTY O-acetyl-ADP-ribose deacetylase OS=Salmonell...  53.5    2e-06 
sp|P67342|YMDB_SALTI O-acetyl-ADP-ribose deacetylase OS=Salmonell...  53.5    2e-06 
sp|D3RKJ0|YMDB_KLEVT O-acetyl-ADP-ribose deacetylase OS=Klebsiell...  53.1    2e-06 
sp|B5XXK9|YMDB_KLEP3 O-acetyl-ADP-ribose deacetylase OS=Klebsiell...  53.1    2e-06 
sp|Q0T5Z6|YMDB_SHIF8 O-acetyl-ADP-ribose deacetylase OS=Shigella ...  53.1    3e-06 
sp|Q9WJC7|POLN_EEVVM Polyprotein P1234 OS=Venezuelan equine encep...  56.6    3e-06 
sp|B4T2X8|YMDB_SALNS O-acetyl-ADP-ribose deacetylase OS=Salmonell...  53.1    3e-06 
sp|Q32E73|YMDB_SHIDS O-acetyl-ADP-ribose deacetylase OS=Shigella ...  52.4    5e-06 
sp|D5CE05|YMDB_ENTCC O-acetyl-ADP-ribose deacetylase OS=Enterobac...  52.0    7e-06 
sp|Q8EYT0|Y4133_LEPIN Macro domain-containing protein LA_4133 OS=...  52.0    7e-06 
sp|Q72M93|Y3295_LEPIC Macro domain-containing protein LIC_13295 O...  52.0    7e-06 
sp|B5RBF3|YMDB_SALG2 O-acetyl-ADP-ribose deacetylase OS=Salmonell...  51.6    1e-05 
sp|P0C6F4|R1A_BRV1 Replicase polyprotein 1a OS=Breda virus 1 OX=3...  53.5    3e-05 
sp|P0C6V8|R1AB_BRV1 Replicase polyprotein 1ab OS=Breda virus 1 OX...  53.5    3e-05 
sp|D2TT52|YMDB_CITRI O-acetyl-ADP-ribose deacetylase OS=Citrobact...  50.1    3e-05 
sp|Q2EMV9|PAR14_MOUSE Protein mono-ADP-ribosyltransferase PARP14 ...  52.8    5e-05 
sp|Q8Q0F9|Y177_METMA Macro domain-containing protein MM_0177 OS=M...  49.3    6e-05 
sp|Q8RHQ2|Y1951_FUSNN Uncharacterized protein FN1951 OS=Fusobacte...  48.1    1e-04 
sp|Q8IXQ6|PARP9_HUMAN Protein mono-ADP-ribosyltransferase PARP9 O...  51.2    1e-04 
sp|Q87JZ5|Y4103_VIBPA Macro domain-containing protein VPA0103 OS=...  47.8    2e-04 
sp|Q8BCR0|POLN_RUBVN Non-structural polyprotein p200 OS=Rubella v...  50.8    2e-04 
sp|Q8TQD0|Y1614_METAC Macro domain-containing protein MA_1614 OS=...  48.1    2e-04 
sp|Q8RB30|Y995_CALS4 Macro domain-containing protein TTE0995 OS=C...  47.4    2e-04 
sp|E1PL40|YMDB2_PANVC O-acetyl-ADP-ribose deacetylase 2 OS=Pantoe...  47.4    2e-04 
sp|P13889|POLN_RUBVT Non-structural polyprotein p200 OS=Rubella v...  49.7    4e-04 
sp|Q8Y2K1|Y334_RALN1 Macro domain-containing protein RSc0334 OS=R...  46.2    6e-04 
sp|O40955|POLN_RUBVR Non-structural polyprotein p200 OS=Rubella v...  48.5    7e-04 
sp|Q9EYI6|Y189_STRNO Macro domain-containing protein in sno 5'reg...  45.4    0.001 
sp|Q93SX7|Y189_ACISE Macro domain-containing protein OS=Acinetoba...  45.1    0.002 
sp|Q97AU0|Y719_THEVO Uncharacterized protein TV0719 OS=Thermoplas...  45.1    0.002 
sp|Q8KAE4|Y2219_CHLTE Macro domain-containing protein CT2219 OS=C...  44.7    0.002 
sp|Q985D2|Y7730_RHILO Macro domain-containing protein mll7730 OS=...  44.7    0.002 
sp|Q88SK6|Y3408_LACPL Macro domain-containing protein lp_3408 OS=...  43.9    0.003 
sp|O59182|Y1513_PYRHO Uncharacterized protein PH1513 OS=Pyrococcu...  43.5    0.006 
sp|P27283|POLN_SINDO Polyprotein P1234 OS=Sindbis virus subtype O...  45.4    0.007 
sp|Q9V0Y3|Y656_PYRAB Uncharacterized protein PYRAB06560 OS=Pyroco...  43.1    0.007 
sp|Q99IE7|POLN_RUBVO Non-structural polyprotein p200 OS=Rubella v...  45.4    0.007 
sp|Q99IE5|POLN_RUBVV Non-structural polyprotein p200 OS=Rubella v...  45.4    0.007 
sp|Q8P5Z8|Y3184_XANCP Macro domain-containing protein XCC3184 OS=...  42.7    0.008 
sp|Q8PHB6|Y3343_XANAC Macro domain-containing protein XAC3343 OS=...  42.7    0.009 
sp|Q6X2U2|POLN_RUBVC Non-structural polyprotein p200 OS=Rubella v...  45.1    0.009 
sp|Q6X2U4|POLN_RUBVB Non-structural polyprotein p200 OS=Rubella v...  45.1    0.010 
sp|Q9HJ67|Y1105_THEAC Uncharacterized protein Ta1105 OS=Thermopla...  42.7    0.011 
sp|Q6PAV8|MACD2_XENLA ADP-ribose glycohydrolase MACROD2 OS=Xenopu...  43.5    0.020 
sp|Q9J6K9|POLN_RUBVD Non-structural polyprotein p200 OS=Rubella v...  43.9    0.021 
sp|Q86500|POLN_RUBVM Non-structural polyprotein p200 OS=Rubella v...  43.9    0.022 
sp|Q7MTZ7|MACRO_PORGI Macro domain-containing protein PG1779 OS=P...  41.2    0.028 
sp|Q86924|POLN_AURAV Polyprotein P1234 OS=Aura virus OX=44158 PE=...  43.5    0.028 
sp|Q9ZBG3|Y6450_STRCO Macro domain-containing protein SCO6450 OS=...  41.2    0.031 
sp|Q8K4G6|MACD1_RAT ADP-ribose glycohydrolase MACROD1 (Fragment) ...  42.0    0.035 
sp|P03317|POLN_SINDV Polyprotein P1234 OS=Sindbis virus OX=11034 ...  42.7    0.054 
sp|Q9BQ69|MACD1_HUMAN ADP-ribose glycohydrolase MACROD1 OS=Homo s...  41.6    0.054 
sp|O28751|Y1521_ARCFU ADP-ribose glycohydrolase AF_1521 OS=Archae...  40.4    0.071 
sp|Q44020|YGB2_CUPNE Macro domain-containing protein in gbd 3'reg...  40.0    0.072 
sp|Q306W6|POLN_EEEV1 Polyprotein P1234 OS=Eastern equine encephal...  42.0    0.074 
sp|Q9YBE9|Y1648_AERPE Uncharacterized protein APE_1648.1 OS=Aerop...  40.0    0.087 
sp|P13896|POLN_WEEV Polyprotein P1234 OS=Western equine encephali...  41.2    0.13  
sp|Q2KHU5|MACD1_BOVIN ADP-ribose glycohydrolase MACROD1 OS=Bos ta...  39.7    0.27  
sp|Q922B1|MACD1_MOUSE ADP-ribose glycohydrolase MACROD1 OS=Mus mu...  39.3    0.30  
sp|Q6QLN1|POLN_AHEV Non-structural polyprotein pORF1 OS=Avian hep...  40.0    0.30  
sp|Q306W8|POLN_EEEV8 Polyprotein P1234 OS=Eastern equine encephal...  40.0    0.30  
sp|Q9HXU7|Y3693_PSEAE Macro domain-containing protein PA3693 OS=P...  38.1    0.36  
sp|A1Z1Q3|MACD2_HUMAN ADP-ribose glycohydrolase MACROD2 OS=Homo s...  39.3    0.37  
sp|Q3UYG8|MACD2_MOUSE ADP-ribose glycohydrolase MACROD2 OS=Mus mu...  39.3    0.38  
sp|Q9KHE2|Y189_STRGR Macro domain-containing protein in non 5'reg...  36.6    0.97  
sp|Q8Y3S3|Y2759_LISMO Macro domain-containing protein lmo2759 OS=...  36.6    1.0   
sp|Q7TZB9|Y1934_MYCBO Uncharacterized protein Mb1934c OS=Mycobact...  37.7    1.0   
sp|P9WK29|Y1899_MYCTU Uncharacterized protein Rv1899c OS=Mycobact...  37.7    1.0   
sp|P9WK28|Y1899_MYCTO Uncharacterized protein MT1950 OS=Mycobacte...  37.7    1.1   
sp|Q4QXJ8|POLN_EEEVF Polyprotein P1234 OS=Eastern equine encephal...  38.1    1.1   
sp|Q926Y8|Y2902_LISIN Macro domain-containing protein lin2902 OS=...  36.6    1.2   
sp|Q71W03|Y2748_LISMF Macro domain-containing protein LMOf2365_27...  36.2    1.3   
sp|A0A0D2UG83|H2AY_CAPO3 Histone macroH2A1.1 OS=Capsaspora owczar...  37.4    1.3   
sp|B4S3G9|PDXJ_PROA2 Pyridoxine 5'-phosphate synthase OS=Prosthec...  36.6    1.6   
sp|P26627|R1AB_CVMJD Replicase polyprotein 1ab (Fragment) OS=Muri...  37.4    1.7   
sp|B0C385|RPOC2_ACAM1 DNA-directed RNA polymerase subunit beta' O...  37.0    2.5   
sp|Q5JER1|Y1890_THEKO Uncharacterized protein TK1890 OS=Thermococ...  34.7    4.3   
sp|Q8U0P9|Y1536_PYRFU Uncharacterized protein PF1536 OS=Pyrococcu...  35.0    4.3   
sp|Q9RS39|Y2288_DEIRA Macro domain-containing protein DR_2288 OS=...  33.9    6.9   
sp|P24886|NU4LM_CAEEL NADH-ubiquinone oxidoreductase chain 4L OS=...  32.0    8.2   


>sp|P0DTC1|R1A_SARS2 Replicase polyprotein 1a OS=Severe acute 
respiratory syndrome coronavirus 2 OX=2697049 PE=1 SV=1
Length=4405

 Score = 4035 bits (10464),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 1945/1945 (100%), Positives = 1945/1945 (100%), Gaps = 0/1945 (0%)

Query  1     APTKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADA  60
             APTKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADA
Sbjct  819   APTKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADA  878

Query  61    VIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE  120
             VIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE
Sbjct  879   VIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE  938

Query  121   EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQ  180
             EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQ
Sbjct  939   EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQ  998

Query  181   TTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVV  240
             TTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVV
Sbjct  999   TTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVV  1058

Query  241   NAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVV  300
             NAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVV
Sbjct  1059  NAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVV  1118

Query  301   GPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVF  360
             GPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVF
Sbjct  1119  GPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVF  1178

Query  361   DKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEE  420
             DKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEE
Sbjct  1179  DKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEE  1238

Query  421   VTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVLTA  480
             VTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVLTA
Sbjct  1239  VTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVLTA  1298

Query  481   VVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPS  540
             VVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPS
Sbjct  1299  VVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPS  1358

Query  541   IISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDY  600
             IISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDY
Sbjct  1359  IISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDY  1418

Query  601   GARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVS  660
             GARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVS
Sbjct  1419  GARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVS  1478

Query  661   SPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVYYT  720
             SPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVYYT
Sbjct  1479  SPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVYYT  1538

Query  721   SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTY  780
             SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTY
Sbjct  1539  SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTY  1598

Query  781   LDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKY  840
             LDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKY
Sbjct  1599  LDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKY  1658

Query  841   PQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYC  900
             PQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYC
Sbjct  1659  PQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYC  1718

Query  901   NKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQ  960
             NKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQ
Sbjct  1719  NKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQ  1778

Query  961   FKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKH  1020
             FKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKH
Sbjct  1779  FKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKH  1838

Query  1021  ITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDN  1080
             ITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDN
Sbjct  1839  ITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDN  1898

Query  1081  YYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVT  1140
             YYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVT
Sbjct  1899  YYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVT  1958

Query  1141  FFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKP  1200
             FFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKP
Sbjct  1959  FFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKP  2018

Query  1201  VETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILK  1260
             VETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILK
Sbjct  2019  VETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILK  2078

Query  1261  PANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTI  1320
             PANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTI
Sbjct  2079  PANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTI  2138

Query  1321  ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTI  1380
             ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTI
Sbjct  2139  ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTI  2198

Query  1381  AKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLG  1440
             AKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLG
Sbjct  2199  AKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLG  2258

Query  1441  MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDL  1500
             MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDL
Sbjct  2259  MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDL  2318

Query  1501  TAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPIS  1560
             TAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPIS
Sbjct  2319  TAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPIS  2378

Query  1561  AMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYA  1620
             AMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYA
Sbjct  2379  AMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYA  2438

Query  1621  NGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKN  1680
             NGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKN
Sbjct  2439  NGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKN  2498

Query  1681  GSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSAS  1740
             GSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSAS
Sbjct  2499  GSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSAS  2558

Query  1741  VYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEA  1800
             VYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEA
Sbjct  2559  VYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEA  2618

Query  1801  ELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYN  1860
             ELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYN
Sbjct  2619  ELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYN  2678

Query  1861  KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNL  1920
             KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNL
Sbjct  2679  KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNL  2738

Query  1921  PFKLTCATTRQVVNVVTTKIALKGG  1945
             PFKLTCATTRQVVNVVTTKIALKGG
Sbjct  2739  PFKLTCATTRQVVNVVTTKIALKGG  2763


>sp|P0DTD1|R1AB_SARS2 Replicase polyprotein 1ab OS=Severe acute 
respiratory syndrome coronavirus 2 OX=2697049 GN=rep PE=1 
SV=1
Length=7096

 Score = 4024 bits (10436),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 1945/1945 (100%), Positives = 1945/1945 (100%), Gaps = 0/1945 (0%)

Query  1     APTKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADA  60
             APTKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADA
Sbjct  819   APTKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADA  878

Query  61    VIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE  120
             VIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE
Sbjct  879   VIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE  938

Query  121   EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQ  180
             EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQ
Sbjct  939   EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQ  998

Query  181   TTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVV  240
             TTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVV
Sbjct  999   TTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVV  1058

Query  241   NAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVV  300
             NAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVV
Sbjct  1059  NAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVV  1118

Query  301   GPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVF  360
             GPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVF
Sbjct  1119  GPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVF  1178

Query  361   DKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEE  420
             DKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEE
Sbjct  1179  DKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEE  1238

Query  421   VTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVLTA  480
             VTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVLTA
Sbjct  1239  VTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVLTA  1298

Query  481   VVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPS  540
             VVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPS
Sbjct  1299  VVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPS  1358

Query  541   IISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDY  600
             IISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDY
Sbjct  1359  IISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDY  1418

Query  601   GARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVS  660
             GARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVS
Sbjct  1419  GARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVS  1478

Query  661   SPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVYYT  720
             SPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVYYT
Sbjct  1479  SPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVYYT  1538

Query  721   SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTY  780
             SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTY
Sbjct  1539  SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTY  1598

Query  781   LDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKY  840
             LDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKY
Sbjct  1599  LDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKY  1658

Query  841   PQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYC  900
             PQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYC
Sbjct  1659  PQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYC  1718

Query  901   NKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQ  960
             NKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQ
Sbjct  1719  NKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQ  1778

Query  961   FKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKH  1020
             FKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKH
Sbjct  1779  FKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKH  1838

Query  1021  ITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDN  1080
             ITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDN
Sbjct  1839  ITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDN  1898

Query  1081  YYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVT  1140
             YYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVT
Sbjct  1899  YYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVT  1958

Query  1141  FFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKP  1200
             FFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKP
Sbjct  1959  FFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKP  2018

Query  1201  VETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILK  1260
             VETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILK
Sbjct  2019  VETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILK  2078

Query  1261  PANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTI  1320
             PANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTI
Sbjct  2079  PANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTI  2138

Query  1321  ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTI  1380
             ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTI
Sbjct  2139  ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTI  2198

Query  1381  AKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLG  1440
             AKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLG
Sbjct  2199  AKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLG  2258

Query  1441  MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDL  1500
             MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDL
Sbjct  2259  MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDL  2318

Query  1501  TAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPIS  1560
             TAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPIS
Sbjct  2319  TAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPIS  2378

Query  1561  AMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYA  1620
             AMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYA
Sbjct  2379  AMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYA  2438

Query  1621  NGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKN  1680
             NGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKN
Sbjct  2439  NGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKN  2498

Query  1681  GSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSAS  1740
             GSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSAS
Sbjct  2499  GSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSAS  2558

Query  1741  VYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEA  1800
             VYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEA
Sbjct  2559  VYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEA  2618

Query  1801  ELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYN  1860
             ELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYN
Sbjct  2619  ELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYN  2678

Query  1861  KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNL  1920
             KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNL
Sbjct  2679  KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNL  2738

Query  1921  PFKLTCATTRQVVNVVTTKIALKGG  1945
             PFKLTCATTRQVVNVVTTKIALKGG
Sbjct  2739  PFKLTCATTRQVVNVVTTKIALKGG  2763


>sp|P0C6U8|R1A_SARS Replicase polyprotein 1a OS=Severe acute respiratory 
syndrome coronavirus OX=694009 GN=1a PE=1 SV=1
Length=4382

 Score = 3066 bits (7949),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 1480/1952 (76%), Positives = 1682/1952 (86%), Gaps = 37/1952 (2%)

Query  1     APTK-VTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             AP K VTFG+DTV EVQGYK+V ITFELDER+DKVLNEKCS YTVE GTEV EFACVVA+
Sbjct  819   APIKGVTFGEDTVWEVQGYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE  878

Query  60    AVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCE  119
             AV+KTLQPVS+LLT +GIDLDEWS+AT+YLFD++GE   +S MYCSFYPPDE+EE+    
Sbjct  879   AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDAGEENFSSRMYCSFYPPDEEEEDDAEC  938

Query  120   EEEFEPSTQ-YEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSED  178
             EEE    T  +EYGTEDDYQG PLEFGA++  ++ EEE+EEDWLDD ++Q+         
Sbjct  939   EEEEIDETCEHEYGTEDDYQGLPLEFGASAETVRVEEEEEEDWLDDTTEQS---------  989

Query  179   NQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTV  238
                       E++P+ E           VN F+GYLKLTDNV IK  DIV+EA+   P V
Sbjct  990   ----------EIEPEPEPT-----PEEPVNQFTGYLKLTDNVAIKCVDIVKEAQSANPMV  1034

Query  239   VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLH  298
             +VNAAN++LKHGGGVAGALNKATN AMQ ESDDYI  NGPL VGGSC+LSGHNLAK CLH
Sbjct  1035  IVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGSCLLSGHNLAKKCLH  1094

Query  299   VVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLA  358
             VVGPN+N GEDIQLLK+AYENFN  ++LLAPLLSAGIFGA P+ SL+VCV TVRT VY+A
Sbjct  1095  VVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSLQVCVQTVRTQVYIA  1154

Query  359   VFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESK---PSVEQRKQDDK-KI  414
             V DK LY+++V  +L+    +       E PK+E  P   +SK    SV Q+  D K KI
Sbjct  1155  VNDKALYEQVVMDYLDNLKPR------VEAPKQEEPPNTEDSKTEEKSVVQKPVDVKPKI  1208

Query  415   KACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQ  474
             KAC++EVTTTLEETKFLT  LLL+ DING L+ DS  ++   D++FL+KDAPY+VGDV+ 
Sbjct  1209  KACIDEVTTTLEETKFLTNKLLLFADINGKLYHDSQNMLRGEDMSFLEKDAPYMVGDVIT  1268

Query  475   EGVLTAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSA  534
              G +T VVIP+KKAGGTTEML++AL+KVP D YITTYPGQG  GYT+EEAKT LKKCKSA
Sbjct  1269  SGDITCVVIPSKKAGGTTEMLSRALKKVPVDEYITTYPGQGCAGYTLEEAKTALKKCKSA  1328

Query  535   FYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQ  594
             FY+LPS   N K+EILGTVSWNLREMLAHAEETRKLMP+C++ +AI++TIQRKYKGIKIQ
Sbjct  1329  FYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQRKYKGIKIQ  1388

Query  595   EGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVP  654
             EG+VDYG RF+FYTSK  VAS+I  LN LNE LVTMP+GYVTHG NLEEAAR MRSLK P
Sbjct  1389  EGIVDYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKAP  1448

Query  655   ATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGD  714
             A VSVSSPDAVT YNGYLTSSSKT EEHF+ET+SLAGSY+DWSYSGQ T+LG+EFLKRGD
Sbjct  1449  AVVSVSSPDAVTTYNGYLTSSSKTSEEHFVETVSLAGSYRDWSYSGQRTELGVEFLKRGD  1508

Query  715   KSVYYT-SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYG  773
             K VY+T  +P  FHLDGEV++ D LK+LLSLREV+TIKVFTTVDN NLHTQ+VDMSMTYG
Sbjct  1509  KIVYHTLESPVEFHLDGEVLSLDKLKSLLSLREVKTIKVFTTVDNTNLHTQLVDMSMTYG  1568

Query  774   QQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALN  833
             QQFGPTYLDGADVTKIKPH +HEGKTF+VLP+DDTLR EAFEYYHT D SFLGRYMSALN
Sbjct  1569  QQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYMSALN  1628

Query  834   HTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFC  893
             HTKKWK+PQV GLTSIKWADNNCYL++ LL LQQ+E+KFN PALQ+AYYRARAG+AANFC
Sbjct  1629  HTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFC  1688

Query  894   ALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYM  953
             ALILAY NKTVGELGDVRETM++L QHANL+S KRVLNVVCK CGQ+ TTL GVEAVMYM
Sbjct  1689  ALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYM  1748

Query  954   GTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNY  1013
             GTLSY+  K GV IPC CG+ AT+YLVQQES FVMMSAPPA+Y+L+ GTF CA+EYTGNY
Sbjct  1749  GTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLCANEYTGNY  1808

Query  1014  QCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTE  1073
             QCGHY HIT+KETLY IDGA LTK SEYKGP+TDVFYKE SYTTTIKPV+YKLDGV  TE
Sbjct  1809  QCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIKPVSYKLDGVTYTE  1868

Query  1074  IDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPA  1133
             I+PKLD YYKKDN+Y+TEQPIDLVP QP PNASFDNFK  C N KFADDLNQ+TG+ KPA
Sbjct  1869  IEPKLDGYYKKDNAYYTEQPIDLVPTQPLPNASFDNFKLTCSNTKFADDLNQMTGFTKPA  1928

Query  1134  SRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIR  1193
             SREL VTFFPDLNGDVVAIDY+HY+ SFKKGAKLLHKPIVWH+N AT K T+KPNTWC+R
Sbjct  1929  SRELSVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIVWHINQATTKTTFKPNTWCLR  1988

Query  1194  CLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEV  1253
             CLWSTKPV+TSNSF+VL  ED QGMDNLACE  +P SEEVVENPTIQK+V+EC+VKTTEV
Sbjct  1989  CLWSTKPVDTSNSFEVLAVEDTQGMDNLACESQQPTSEEVVENPTIQKEVIECDVKTTEV  2048

Query  1254  VGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVN  1313
             VG++ILKP++  +K+T+E+GH DLMAAYV+N+S+TIKKPNELS  LGLKT+ATHG+AA+N
Sbjct  2049  VGNVILKPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAIN  2108

Query  1314  SVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIK  1373
             SVPW  I  Y KPFL +   TT+N   R   RV  NYMPY FTLL QLCTFT+STNSRI+
Sbjct  2109  SVPWSKILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFTKSTNSRIR  2168

Query  1374  ASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALG  1433
             AS+PTTIAKN+VKSV K CL+A  NY+KSP FSKL  I +W LLLS+CLGSLI  TAA G
Sbjct  2169  ASLPTTIAKNSVKSVAKLCLDAGINYVKSPKFSKLFTIAMWLLLLSICLGSLICVTAAFG  2228

Query  1434  VLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITI  1493
             VL+SN G PSYC G RE YLNS+NVT   +C GS PCS+CLSGLDSLD+YP+LETIQ+TI
Sbjct  2229  VLLSNFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETIQVTI  2288

Query  1494  SSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINL  1553
             SS+K DLT  GL AEW LAY+LFT+FFY+LGL+AIMQ+FF YFA HFISNSWLMW II++
Sbjct  2289  SSYKLDLTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMWFIISI  2348

Query  1554  VQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVR  1613
             VQMAP+SAMVRMYIFFASFYY+WKSYVH++DGC SSTCMMCYKRNRATRVECTTIVNG++
Sbjct  2349  VQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMK  2408

Query  1614  RSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIV  1673
             RSFYVYANGG+GFCK HNWNC+NCDTFC GSTFISDEVARDLSLQFKRPINPTDQSSYIV
Sbjct  2409  RSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIV  2468

Query  1674  DSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEE  1733
             DSV VKNG++HLYFDKAGQKTYERH LSHFVNLDNLRANNTKGSLPINVIVFDGKSKC+E
Sbjct  2469  DSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCDE  2528

Query  1734  SSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKT  1793
             S++KSASVYYSQLMCQPILLLDQALVSDVGDS EV+VKMFDAYV+TFS+TF+VPMEKLK 
Sbjct  2529  SASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLKA  2588

Query  1794  LVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCN  1853
             LVATA +ELAK V+LD VLSTF+SAARQG VD+DV+TKDV+ECLKLSH SD+EVTGDSCN
Sbjct  2589  LVATAHSELAKGVALDGVLSTFVSAARQGVVDTDVDTKDVIECLKLSHHSDLEVTGDSCN  2648

Query  1854  NYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRS  1913
             N+MLTYNKVENMTPRDLGACIDC+ARHINAQVAKSHN++LIWNVKD+MSLSEQLRKQIRS
Sbjct  2649  NFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQLRKQIRS  2708

Query  1914  AAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             AAKKNN+PF+LTCATTRQVVNV+TTKI+LKGG
Sbjct  2709  AAKKNNIPFRLTCATTRQVVNVITTKISLKGG  2740


>sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute 
respiratory syndrome coronavirus OX=694009 GN=rep PE=1 SV=1
Length=7073

 Score = 3056 bits (7924),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 1480/1952 (76%), Positives = 1682/1952 (86%), Gaps = 37/1952 (2%)

Query  1     APTK-VTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             AP K VTFG+DTV EVQGYK+V ITFELDER+DKVLNEKCS YTVE GTEV EFACVVA+
Sbjct  819   APIKGVTFGEDTVWEVQGYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE  878

Query  60    AVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCE  119
             AV+KTLQPVS+LLT +GIDLDEWS+AT+YLFD++GE   +S MYCSFYPPDE+EE+    
Sbjct  879   AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDAGEENFSSRMYCSFYPPDEEEEDDAEC  938

Query  120   EEEFEPSTQ-YEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSED  178
             EEE    T  +EYGTEDDYQG PLEFGA++  ++ EEE+EEDWLDD ++Q+         
Sbjct  939   EEEEIDETCEHEYGTEDDYQGLPLEFGASAETVRVEEEEEEDWLDDTTEQS---------  989

Query  179   NQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTV  238
                       E++P+ E           VN F+GYLKLTDNV IK  DIV+EA+   P V
Sbjct  990   ----------EIEPEPEPT-----PEEPVNQFTGYLKLTDNVAIKCVDIVKEAQSANPMV  1034

Query  239   VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLH  298
             +VNAAN++LKHGGGVAGALNKATN AMQ ESDDYI  NGPL VGGSC+LSGHNLAK CLH
Sbjct  1035  IVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGSCLLSGHNLAKKCLH  1094

Query  299   VVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLA  358
             VVGPN+N GEDIQLLK+AYENFN  ++LLAPLLSAGIFGA P+ SL+VCV TVRT VY+A
Sbjct  1095  VVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSLQVCVQTVRTQVYIA  1154

Query  359   VFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESK---PSVEQRKQDDK-KI  414
             V DK LY+++V  +L+    +       E PK+E  P   +SK    SV Q+  D K KI
Sbjct  1155  VNDKALYEQVVMDYLDNLKPR------VEAPKQEEPPNTEDSKTEEKSVVQKPVDVKPKI  1208

Query  415   KACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQ  474
             KAC++EVTTTLEETKFLT  LLL+ DING L+ DS  ++   D++FL+KDAPY+VGDV+ 
Sbjct  1209  KACIDEVTTTLEETKFLTNKLLLFADINGKLYHDSQNMLRGEDMSFLEKDAPYMVGDVIT  1268

Query  475   EGVLTAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSA  534
              G +T VVIP+KKAGGTTEML++AL+KVP D YITTYPGQG  GYT+EEAKT LKKCKSA
Sbjct  1269  SGDITCVVIPSKKAGGTTEMLSRALKKVPVDEYITTYPGQGCAGYTLEEAKTALKKCKSA  1328

Query  535   FYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQ  594
             FY+LPS   N K+EILGTVSWNLREMLAHAEETRKLMP+C++ +AI++TIQRKYKGIKIQ
Sbjct  1329  FYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQRKYKGIKIQ  1388

Query  595   EGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVP  654
             EG+VDYG RF+FYTSK  VAS+I  LN LNE LVTMP+GYVTHG NLEEAAR MRSLK P
Sbjct  1389  EGIVDYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKAP  1448

Query  655   ATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGD  714
             A VSVSSPDAVT YNGYLTSSSKT EEHF+ET+SLAGSY+DWSYSGQ T+LG+EFLKRGD
Sbjct  1449  AVVSVSSPDAVTTYNGYLTSSSKTSEEHFVETVSLAGSYRDWSYSGQRTELGVEFLKRGD  1508

Query  715   KSVYYT-SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYG  773
             K VY+T  +P  FHLDGEV++ D LK+LLSLREV+TIKVFTTVDN NLHTQ+VDMSMTYG
Sbjct  1509  KIVYHTLESPVEFHLDGEVLSLDKLKSLLSLREVKTIKVFTTVDNTNLHTQLVDMSMTYG  1568

Query  774   QQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALN  833
             QQFGPTYLDGADVTKIKPH +HEGKTF+VLP+DDTLR EAFEYYHT D SFLGRYMSALN
Sbjct  1569  QQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYMSALN  1628

Query  834   HTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFC  893
             HTKKWK+PQV GLTSIKWADNNCYL++ LL LQQ+E+KFN PALQ+AYYRARAG+AANFC
Sbjct  1629  HTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFC  1688

Query  894   ALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYM  953
             ALILAY NKTVGELGDVRETM++L QHANL+S KRVLNVVCK CGQ+ TTL GVEAVMYM
Sbjct  1689  ALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYM  1748

Query  954   GTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNY  1013
             GTLSY+  K GV IPC CG+ AT+YLVQQES FVMMSAPPA+Y+L+ GTF CA+EYTGNY
Sbjct  1749  GTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLCANEYTGNY  1808

Query  1014  QCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTE  1073
             QCGHY HIT+KETLY IDGA LTK SEYKGP+TDVFYKE SYTTTIKPV+YKLDGV  TE
Sbjct  1809  QCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIKPVSYKLDGVTYTE  1868

Query  1074  IDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPA  1133
             I+PKLD YYKKDN+Y+TEQPIDLVP QP PNASFDNFK  C N KFADDLNQ+TG+ KPA
Sbjct  1869  IEPKLDGYYKKDNAYYTEQPIDLVPTQPLPNASFDNFKLTCSNTKFADDLNQMTGFTKPA  1928

Query  1134  SRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIR  1193
             SREL VTFFPDLNGDVVAIDY+HY+ SFKKGAKLLHKPIVWH+N AT K T+KPNTWC+R
Sbjct  1929  SRELSVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIVWHINQATTKTTFKPNTWCLR  1988

Query  1194  CLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEV  1253
             CLWSTKPV+TSNSF+VL  ED QGMDNLACE  +P SEEVVENPTIQK+V+EC+VKTTEV
Sbjct  1989  CLWSTKPVDTSNSFEVLAVEDTQGMDNLACESQQPTSEEVVENPTIQKEVIECDVKTTEV  2048

Query  1254  VGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVN  1313
             VG++ILKP++  +K+T+E+GH DLMAAYV+N+S+TIKKPNELS  LGLKT+ATHG+AA+N
Sbjct  2049  VGNVILKPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAIN  2108

Query  1314  SVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIK  1373
             SVPW  I  Y KPFL +   TT+N   R   RV  NYMPY FTLL QLCTFT+STNSRI+
Sbjct  2109  SVPWSKILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFTKSTNSRIR  2168

Query  1374  ASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALG  1433
             AS+PTTIAKN+VKSV K CL+A  NY+KSP FSKL  I +W LLLS+CLGSLI  TAA G
Sbjct  2169  ASLPTTIAKNSVKSVAKLCLDAGINYVKSPKFSKLFTIAMWLLLLSICLGSLICVTAAFG  2228

Query  1434  VLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITI  1493
             VL+SN G PSYC G RE YLNS+NVT   +C GS PCS+CLSGLDSLD+YP+LETIQ+TI
Sbjct  2229  VLLSNFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETIQVTI  2288

Query  1494  SSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINL  1553
             SS+K DLT  GL AEW LAY+LFT+FFY+LGL+AIMQ+FF YFA HFISNSWLMW II++
Sbjct  2289  SSYKLDLTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMWFIISI  2348

Query  1554  VQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVR  1613
             VQMAP+SAMVRMYIFFASFYY+WKSYVH++DGC SSTCMMCYKRNRATRVECTTIVNG++
Sbjct  2349  VQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMK  2408

Query  1614  RSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIV  1673
             RSFYVYANGG+GFCK HNWNC+NCDTFC GSTFISDEVARDLSLQFKRPINPTDQSSYIV
Sbjct  2409  RSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIV  2468

Query  1674  DSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEE  1733
             DSV VKNG++HLYFDKAGQKTYERH LSHFVNLDNLRANNTKGSLPINVIVFDGKSKC+E
Sbjct  2469  DSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCDE  2528

Query  1734  SSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKT  1793
             S++KSASVYYSQLMCQPILLLDQALVSDVGDS EV+VKMFDAYV+TFS+TF+VPMEKLK 
Sbjct  2529  SASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLKA  2588

Query  1794  LVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCN  1853
             LVATA +ELAK V+LD VLSTF+SAARQG VD+DV+TKDV+ECLKLSH SD+EVTGDSCN
Sbjct  2589  LVATAHSELAKGVALDGVLSTFVSAARQGVVDTDVDTKDVIECLKLSHHSDLEVTGDSCN  2648

Query  1854  NYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRS  1913
             N+MLTYNKVENMTPRDLGACIDC+ARHINAQVAKSHN++LIWNVKD+MSLSEQLRKQIRS
Sbjct  2649  NFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQLRKQIRS  2708

Query  1914  AAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             AAKKNN+PF+LTCATTRQVVNV+TTKI+LKGG
Sbjct  2709  AAKKNNIPFRLTCATTRQVVNVITTKISLKGG  2740


>sp|P0C6T7|R1A_BCRP3 Replicase polyprotein 1a OS=Bat coronavirus 
Rp3/2004 OX=349344 GN=1a PE=3 SV=1
Length=4380

 Score = 3055 bits (7920),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 1464/1953 (75%), Positives = 1677/1953 (86%), Gaps = 41/1953 (2%)

Query  1     APTK-VTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             APTK VTFG+DTV+EVQGYK+V ITFELDER+DKVLNEKCS YTVE GTEV EFACVVA+
Sbjct  819   APTKGVTFGEDTVVEVQGYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE  878

Query  60    AVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCE  119
             AV+KTLQPVS+LLT +GIDLDEWS+AT+YLFD+SGE KL+S MYCSFYPPDE+E+  + E
Sbjct  879   AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDSGEEKLSSRMYCSFYPPDEEEDCEEYE  938

Query  120   EEEFEP--STQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSE  177
             EEE     + ++EYGTE+DY+G PLEFGA++  +Q EE++EEDWLDD  +     +    
Sbjct  939   EEEEVSERTCEHEYGTEEDYKGLPLEFGASTDIIQVEEQEEEDWLDDAVEAEPEPE----  994

Query  178   DNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPT  237
                                     +    VN  +GYLKLTDNV IK  DIVEEA+   P 
Sbjct  995   -----------------------PLHEEPVNQLTGYLKLTDNVAIKCVDIVEEAQNANPM  1031

Query  238   VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCL  297
             V+VNAAN++LKHGGGVAGALNKATN AMQ ESD YI  NGPL VGGSC+LSGHNLAK CL
Sbjct  1032  VIVNAANIHLKHGGGVAGALNKATNGAMQKESDHYIKLNGPLTVGGSCLLSGHNLAKKCL  1091

Query  298   HVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYL  357
             HVVGPN+N GEDIQLLK+AYENFN  ++LLAPLLSAGIFGA P+ SL++CV TVRT VY+
Sbjct  1092  HVVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSLQMCVQTVRTQVYI  1151

Query  358   AVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKP---FITESKPSVEQRKQDDK-K  413
              V DK LY+++V  +L+    K       E PK+EV P   +    + SV Q+  D K K
Sbjct  1152  VVNDKVLYEQVVMDYLDSLKPK------VEAPKQEVLPKAEYPKVDEKSVVQKTIDVKPK  1205

Query  414   IKACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVV  473
             IKAC++EVTTTLEETKFLT  LLL+ DING L+ DS  ++   D++FL+KDAPY+VGDV+
Sbjct  1206  IKACIDEVTTTLEETKFLTNKLLLFTDINGKLYQDSKNMLRGEDMSFLEKDAPYMVGDVI  1265

Query  474   QEGVLTAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKS  533
               G +T VVIP+KKAGGTTEML++AL+KVP + YITTYPGQG  GYT+EEAKT LKKCKS
Sbjct  1266  TSGDITCVVIPSKKAGGTTEMLSRALKKVPINEYITTYPGQGCAGYTLEEAKTALKKCKS  1325

Query  534   AFYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKI  593
             AFY+LPS   N K+EILGTVSWNLREMLAHAEETRKLMPVC++ +AI++TIQRKYKGIKI
Sbjct  1326  AFYVLPSETPNAKEEILGTVSWNLREMLAHAEETRKLMPVCMDVRAIMATIQRKYKGIKI  1385

Query  594   QEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKV  653
             QEG+VDYG RF+FYTSK  VAS+I  LN LNE LVTMP+GYVTHG NLEEAAR MRSLK 
Sbjct  1386  QEGIVDYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKA  1445

Query  654   PATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRG  713
             PA VSVSSPDAVT YNGYLTSSSKT E+HF+ET+SLAGSY+DWSYSGQ T+LG+EFLKRG
Sbjct  1446  PAIVSVSSPDAVTTYNGYLTSSSKTSEDHFVETVSLAGSYRDWSYSGQRTELGVEFLKRG  1505

Query  714   DKSVYYT-SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTY  772
             +K VY+T  +P  FHLDGEV+  D LK+LLSLREV+TIKVFTTVDN NLHTQ+VDMSMTY
Sbjct  1506  EKIVYHTLESPVKFHLDGEVLPLDKLKSLLSLREVKTIKVFTTVDNTNLHTQLVDMSMTY  1565

Query  773   GQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSAL  832
             GQQ GPTYL+GADVTKIKPH +HEGKTF+VLP+DDTLR EAFEYYHT D SFLGRYMSAL
Sbjct  1566  GQQLGPTYLEGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYMSAL  1625

Query  833   NHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANF  892
             NHTKKWK+PQV GLTSIKWADNNCYL++ LL LQQIE+KFN PALQ+AYYRARAG+AANF
Sbjct  1626  NHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQIEVKFNAPALQEAYYRARAGDAANF  1685

Query  893   CALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMY  952
             CALILAY NKTVGELGDVRETM++L QHANL+S KRVLNVVCK CGQ+ TTL GVEAVMY
Sbjct  1686  CALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMY  1745

Query  953   MGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGN  1012
             MGTLSY+  K GV IPC CG+ AT+YLVQQES FVMMSAPPA+Y+L+ GTF CA+EYTGN
Sbjct  1746  MGTLSYDNLKMGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLCANEYTGN  1805

Query  1013  YQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCT  1072
             YQCGHY HIT+KETLY IDGA LTK SEYKGP+TDVFYKE SYTTTIKPV+YKLDGV  T
Sbjct  1806  YQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIKPVSYKLDGVTYT  1865

Query  1073  EIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKP  1132
             EI+PKLD YYKKDN+Y+TEQPIDL+P QP PNASFDNFK  C N KFADDLNQ+TG+ KP
Sbjct  1866  EIEPKLDGYYKKDNAYYTEQPIDLIPTQPLPNASFDNFKLTCSNTKFADDLNQMTGFTKP  1925

Query  1133  ASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCI  1192
             ASREL VTFFPDLNGDVVAIDY+HY+ SFKKGAKLLHKPIVWH+N AT K T+KPNTWC+
Sbjct  1926  ASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIVWHINQATTKTTFKPNTWCL  1985

Query  1193  RCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTE  1252
             RCLWSTKPV+TSNSF+VL  ED QGMDNLACE  +P  EEVVENPTIQK+V+EC+VKTTE
Sbjct  1986  RCLWSTKPVDTSNSFEVLAVEDTQGMDNLACESQQPTPEEVVENPTIQKEVIECDVKTTE  2045

Query  1253  VVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAV  1312
             VVG++ILKP++  +K+T+E+ H DLMAAYV+N+S+TIKKPNELS  LGLKT+ATHG+AA+
Sbjct  2046  VVGNVILKPSDEGVKVTQELDHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAI  2105

Query  1313  NSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRI  1372
             NSVPW  I  Y KPFL +   TT+N   R + R+  NYMPY  TLL QLCTFT+STNSRI
Sbjct  2106  NSVPWGKILAYVKPFLGQAAVTTSNCAKRLVQRMFNNYMPYVLTLLFQLCTFTKSTNSRI  2165

Query  1373  KASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAAL  1432
             +AS+PTTIAKN+V+ + + CL+A  NY+KSP FSKL  I +W LLLS+CLGSLIY TAAL
Sbjct  2166  RASLPTTIAKNSVRGIVRLCLDAGINYVKSPKFSKLFTIAMWLLLLSICLGSLIYVTAAL  2225

Query  1433  GVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQIT  1492
             GVL+SN G PSYC+G RE YLNS+NVT   +C GS PCSVCLSGLDSLD+YP+LETIQ+T
Sbjct  2226  GVLLSNFGAPSYCSGVRESYLNSSNVTTMDFCEGSFPCSVCLSGLDSLDSYPALETIQVT  2285

Query  1493  ISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIIN  1552
             ISS+K DLT  GL AEWF AY+LFT+FFY+LGL+AIMQ+FF YFA HFISNSWLMW II+
Sbjct  2286  ISSYKLDLTILGLAAEWFFAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMWFIIS  2345

Query  1553  LVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGV  1612
             +VQMAP+SAMVRMYIFFASFYY+WKSYVH++DGC SSTCMMCYKRNRATRVECTTIVNG+
Sbjct  2346  IVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGM  2405

Query  1613  RRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYI  1672
             +RSFYVYANGG+GFCK HNWNC+NCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSY+
Sbjct  2406  KRSFYVYANGGRGFCKTHNWNCLNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYV  2465

Query  1673  VDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCE  1732
             VDSV VKNG++HLYFDKAGQKTYERH LSHFVNLDNLRANNTKGSLPINVIVFDGKSKC+
Sbjct  2466  VDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCD  2525

Query  1733  ESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLK  1792
             ES+AKSASVYYSQLMCQPILLLDQALVSDVGDS EV+VKMFDAYV+TFS+TF+VPMEKLK
Sbjct  2526  ESAAKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLK  2585

Query  1793  TLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSC  1852
              LVATA +ELAK V+LD VLSTF+SA+RQG VD+DV+TKDV+ECLKLSH SD+EVTGDSC
Sbjct  2586  ALVATAHSELAKGVALDGVLSTFVSASRQGVVDTDVDTKDVIECLKLSHHSDLEVTGDSC  2645

Query  1853  NNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIR  1912
             NN+MLTYNKVENMTPRDLGACIDC+ARHINAQVA+SHN++LIWNVKD+MSLSEQLRKQIR
Sbjct  2646  NNFMLTYNKVENMTPRDLGACIDCNARHINAQVARSHNVSLIWNVKDYMSLSEQLRKQIR  2705

Query  1913  SAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             SAAKKNN+PF+LTCATTRQVVNV+TTKI+LKGG
Sbjct  2706  SAAKKNNIPFRLTCATTRQVVNVITTKISLKGG  2738


>sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus 
Rp3/2004 OX=349344 GN=rep PE=3 SV=1
Length=7071

 Score = 3044 bits (7891),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 1464/1953 (75%), Positives = 1677/1953 (86%), Gaps = 41/1953 (2%)

Query  1     APTK-VTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             APTK VTFG+DTV+EVQGYK+V ITFELDER+DKVLNEKCS YTVE GTEV EFACVVA+
Sbjct  819   APTKGVTFGEDTVVEVQGYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE  878

Query  60    AVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCE  119
             AV+KTLQPVS+LLT +GIDLDEWS+AT+YLFD+SGE KL+S MYCSFYPPDE+E+  + E
Sbjct  879   AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDSGEEKLSSRMYCSFYPPDEEEDCEEYE  938

Query  120   EEEFEP--STQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSE  177
             EEE     + ++EYGTE+DY+G PLEFGA++  +Q EE++EEDWLDD  +     +    
Sbjct  939   EEEEVSERTCEHEYGTEEDYKGLPLEFGASTDIIQVEEQEEEDWLDDAVEAEPEPE----  994

Query  178   DNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPT  237
                                     +    VN  +GYLKLTDNV IK  DIVEEA+   P 
Sbjct  995   -----------------------PLHEEPVNQLTGYLKLTDNVAIKCVDIVEEAQNANPM  1031

Query  238   VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCL  297
             V+VNAAN++LKHGGGVAGALNKATN AMQ ESD YI  NGPL VGGSC+LSGHNLAK CL
Sbjct  1032  VIVNAANIHLKHGGGVAGALNKATNGAMQKESDHYIKLNGPLTVGGSCLLSGHNLAKKCL  1091

Query  298   HVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYL  357
             HVVGPN+N GEDIQLLK+AYENFN  ++LLAPLLSAGIFGA P+ SL++CV TVRT VY+
Sbjct  1092  HVVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSLQMCVQTVRTQVYI  1151

Query  358   AVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKP---FITESKPSVEQRKQDDK-K  413
              V DK LY+++V  +L+    K       E PK+EV P   +    + SV Q+  D K K
Sbjct  1152  VVNDKVLYEQVVMDYLDSLKPK------VEAPKQEVLPKAEYPKVDEKSVVQKTIDVKPK  1205

Query  414   IKACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVV  473
             IKAC++EVTTTLEETKFLT  LLL+ DING L+ DS  ++   D++FL+KDAPY+VGDV+
Sbjct  1206  IKACIDEVTTTLEETKFLTNKLLLFTDINGKLYQDSKNMLRGEDMSFLEKDAPYMVGDVI  1265

Query  474   QEGVLTAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKS  533
               G +T VVIP+KKAGGTTEML++AL+KVP + YITTYPGQG  GYT+EEAKT LKKCKS
Sbjct  1266  TSGDITCVVIPSKKAGGTTEMLSRALKKVPINEYITTYPGQGCAGYTLEEAKTALKKCKS  1325

Query  534   AFYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKI  593
             AFY+LPS   N K+EILGTVSWNLREMLAHAEETRKLMPVC++ +AI++TIQRKYKGIKI
Sbjct  1326  AFYVLPSETPNAKEEILGTVSWNLREMLAHAEETRKLMPVCMDVRAIMATIQRKYKGIKI  1385

Query  594   QEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKV  653
             QEG+VDYG RF+FYTSK  VAS+I  LN LNE LVTMP+GYVTHG NLEEAAR MRSLK 
Sbjct  1386  QEGIVDYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKA  1445

Query  654   PATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRG  713
             PA VSVSSPDAVT YNGYLTSSSKT E+HF+ET+SLAGSY+DWSYSGQ T+LG+EFLKRG
Sbjct  1446  PAIVSVSSPDAVTTYNGYLTSSSKTSEDHFVETVSLAGSYRDWSYSGQRTELGVEFLKRG  1505

Query  714   DKSVYYT-SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTY  772
             +K VY+T  +P  FHLDGEV+  D LK+LLSLREV+TIKVFTTVDN NLHTQ+VDMSMTY
Sbjct  1506  EKIVYHTLESPVKFHLDGEVLPLDKLKSLLSLREVKTIKVFTTVDNTNLHTQLVDMSMTY  1565

Query  773   GQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSAL  832
             GQQ GPTYL+GADVTKIKPH +HEGKTF+VLP+DDTLR EAFEYYHT D SFLGRYMSAL
Sbjct  1566  GQQLGPTYLEGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYMSAL  1625

Query  833   NHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANF  892
             NHTKKWK+PQV GLTSIKWADNNCYL++ LL LQQIE+KFN PALQ+AYYRARAG+AANF
Sbjct  1626  NHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQIEVKFNAPALQEAYYRARAGDAANF  1685

Query  893   CALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMY  952
             CALILAY NKTVGELGDVRETM++L QHANL+S KRVLNVVCK CGQ+ TTL GVEAVMY
Sbjct  1686  CALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMY  1745

Query  953   MGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGN  1012
             MGTLSY+  K GV IPC CG+ AT+YLVQQES FVMMSAPPA+Y+L+ GTF CA+EYTGN
Sbjct  1746  MGTLSYDNLKMGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLCANEYTGN  1805

Query  1013  YQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCT  1072
             YQCGHY HIT+KETLY IDGA LTK SEYKGP+TDVFYKE SYTTTIKPV+YKLDGV  T
Sbjct  1806  YQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIKPVSYKLDGVTYT  1865

Query  1073  EIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKP  1132
             EI+PKLD YYKKDN+Y+TEQPIDL+P QP PNASFDNFK  C N KFADDLNQ+TG+ KP
Sbjct  1866  EIEPKLDGYYKKDNAYYTEQPIDLIPTQPLPNASFDNFKLTCSNTKFADDLNQMTGFTKP  1925

Query  1133  ASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCI  1192
             ASREL VTFFPDLNGDVVAIDY+HY+ SFKKGAKLLHKPIVWH+N AT K T+KPNTWC+
Sbjct  1926  ASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIVWHINQATTKTTFKPNTWCL  1985

Query  1193  RCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTE  1252
             RCLWSTKPV+TSNSF+VL  ED QGMDNLACE  +P  EEVVENPTIQK+V+EC+VKTTE
Sbjct  1986  RCLWSTKPVDTSNSFEVLAVEDTQGMDNLACESQQPTPEEVVENPTIQKEVIECDVKTTE  2045

Query  1253  VVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAV  1312
             VVG++ILKP++  +K+T+E+ H DLMAAYV+N+S+TIKKPNELS  LGLKT+ATHG+AA+
Sbjct  2046  VVGNVILKPSDEGVKVTQELDHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAI  2105

Query  1313  NSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRI  1372
             NSVPW  I  Y KPFL +   TT+N   R + R+  NYMPY  TLL QLCTFT+STNSRI
Sbjct  2106  NSVPWGKILAYVKPFLGQAAVTTSNCAKRLVQRMFNNYMPYVLTLLFQLCTFTKSTNSRI  2165

Query  1373  KASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAAL  1432
             +AS+PTTIAKN+V+ + + CL+A  NY+KSP FSKL  I +W LLLS+CLGSLIY TAAL
Sbjct  2166  RASLPTTIAKNSVRGIVRLCLDAGINYVKSPKFSKLFTIAMWLLLLSICLGSLIYVTAAL  2225

Query  1433  GVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQIT  1492
             GVL+SN G PSYC+G RE YLNS+NVT   +C GS PCSVCLSGLDSLD+YP+LETIQ+T
Sbjct  2226  GVLLSNFGAPSYCSGVRESYLNSSNVTTMDFCEGSFPCSVCLSGLDSLDSYPALETIQVT  2285

Query  1493  ISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIIN  1552
             ISS+K DLT  GL AEWF AY+LFT+FFY+LGL+AIMQ+FF YFA HFISNSWLMW II+
Sbjct  2286  ISSYKLDLTILGLAAEWFFAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMWFIIS  2345

Query  1553  LVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGV  1612
             +VQMAP+SAMVRMYIFFASFYY+WKSYVH++DGC SSTCMMCYKRNRATRVECTTIVNG+
Sbjct  2346  IVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGM  2405

Query  1613  RRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYI  1672
             +RSFYVYANGG+GFCK HNWNC+NCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSY+
Sbjct  2406  KRSFYVYANGGRGFCKTHNWNCLNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYV  2465

Query  1673  VDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCE  1732
             VDSV VKNG++HLYFDKAGQKTYERH LSHFVNLDNLRANNTKGSLPINVIVFDGKSKC+
Sbjct  2466  VDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCD  2525

Query  1733  ESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLK  1792
             ES+AKSASVYYSQLMCQPILLLDQALVSDVGDS EV+VKMFDAYV+TFS+TF+VPMEKLK
Sbjct  2526  ESAAKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLK  2585

Query  1793  TLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSC  1852
              LVATA +ELAK V+LD VLSTF+SA+RQG VD+DV+TKDV+ECLKLSH SD+EVTGDSC
Sbjct  2586  ALVATAHSELAKGVALDGVLSTFVSASRQGVVDTDVDTKDVIECLKLSHHSDLEVTGDSC  2645

Query  1853  NNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIR  1912
             NN+MLTYNKVENMTPRDLGACIDC+ARHINAQVA+SHN++LIWNVKD+MSLSEQLRKQIR
Sbjct  2646  NNFMLTYNKVENMTPRDLGACIDCNARHINAQVARSHNVSLIWNVKDYMSLSEQLRKQIR  2705

Query  1913  SAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             SAAKKNN+PF+LTCATTRQVVNV+TTKI+LKGG
Sbjct  2706  SAAKKNNIPFRLTCATTRQVVNVITTKISLKGG  2738


>sp|P0C6F8|R1A_BCHK3 Replicase polyprotein 1a OS=Bat coronavirus 
HKU3 OX=442736 GN=1a PE=3 SV=1
Length=4376

 Score = 3030 bits (7855),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 1462/1951 (75%), Positives = 1671/1951 (86%), Gaps = 41/1951 (2%)

Query  1     APTK-VTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             AP K VTFG+DTV+EVQGYK+V ITFELD R+DKVLNEKCS YTVE GTEV EFACVVA+
Sbjct  819   APVKGVTFGEDTVLEVQGYKNVKITFELDVRVDKVLNEKCSVYTVESGTEVTEFACVVAE  878

Query  60    AVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCE  119
             AV+KTLQPVS+LLTP+GIDLDEWS+AT+YLFD++GE KL+S MYCSFYPPDE+E+    E
Sbjct  879   AVVKTLQPVSDLLTPMGIDLDEWSVATFYLFDDAGEEKLSSRMYCSFYPPDEEEDCE--E  936

Query  120   EEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQ-PEEEQEEDWLDDDSQQTVGQQDGSED  178
              E+ E + ++EYGTEDDY+G PLEFGA++      EEE+EEDWLDD  +     +     
Sbjct  937   CEDEEETCEHEYGTEDDYKGLPLEFGASTETPHVEEEEEEEDWLDDAIEAEPEPE-----  991

Query  179   NQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTV  238
                                    +    VN F GYLKLTDNV IK  DIV+EA+  KPTV
Sbjct  992   ----------------------PLPEEPVNQFVGYLKLTDNVAIKCIDIVKEAQSAKPTV  1029

Query  239   VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLH  298
             +VNAAN +LKHGGGVAGALNKATN AMQ ESD+YI  NGPL VGGSC+LSGHNLA+ CLH
Sbjct  1030  IVNAANTHLKHGGGVAGALNKATNGAMQNESDEYIRQNGPLTVGGSCLLSGHNLAEKCLH  1089

Query  299   VVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLA  358
             VVGPN+N GED+QLLK AYENFN  +VLLAPLLSAGIFGA P+ SL++CV+ VRT VYLA
Sbjct  1090  VVGPNLNAGEDVQLLKRAYENFNSQDVLLAPLLSAGIFGAKPLQSLKMCVEIVRTQVYLA  1149

Query  359   VFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITES---KPSVEQRKQDDKKIK  415
             V DK+LYD++V  +L+    K       E P +E +P + E    +P  E+      KIK
Sbjct  1150  VNDKSLYDQIVLDYLDSLKPK------VESPNKEEEPKLEEPKAVQPVAEKPVDVKPKIK  1203

Query  416   ACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQE  475
             AC++EVTTTLEETKFLT  LLL+ DING L+ DS  ++   D++FL+KDAPYIVGDV+  
Sbjct  1204  ACIDEVTTTLEETKFLTNKLLLFADINGKLYQDSQNMLRGEDMSFLEKDAPYIVGDVITS  1263

Query  476   GVLTAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAF  535
             G +T V+IP KK+GGTTEMLA+AL++VP   YITTYPGQG  GYT+EEAKT LKKCKSAF
Sbjct  1264  GDITCVIIPAKKSGGTTEMLARALKEVPVAEYITTYPGQGCAGYTLEEAKTALKKCKSAF  1323

Query  536   YILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQE  595
             Y+LPS   NEK+E+LGTVSWNLREMLAHAEETRKLMP+C++ +AI++TIQRKYKGIK+QE
Sbjct  1324  YVLPSETPNEKEEVLGTVSWNLREMLAHAEETRKLMPICLDVRAIMATIQRKYKGIKVQE  1383

Query  596   GVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPA  655
             G+VDYG RF+FYTSK  VAS+I  LN LNE LVTMP+GYVTHGLNLEEAAR MRSLK PA
Sbjct  1384  GIVDYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGLNLEEAARCMRSLKAPA  1443

Query  656   TVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDK  715
              VSVSSPDAVTAYNGYLTSSSKTPEE+F+ET SLAGSY+DWSYSGQ T+LG+EFLKRGDK
Sbjct  1444  VVSVSSPDAVTAYNGYLTSSSKTPEEYFVETTSLAGSYRDWSYSGQRTELGVEFLKRGDK  1503

Query  716   SVYYTS-NPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQ  774
              VY+T+ +P  FHLDGEV+  D LK+LLSLREV+TIKVFTTVDN NLHT +VDMSMTYGQ
Sbjct  1504  IVYHTTGSPIEFHLDGEVLPLDKLKSLLSLREVKTIKVFTTVDNTNLHTHIVDMSMTYGQ  1563

Query  775   QFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNH  834
             QFGPTYLDGADVTKIKPH +HEGKTF+VLP+DDTLR EAFEYYHT D SFLGRYMSALNH
Sbjct  1564  QFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTIDESFLGRYMSALNH  1623

Query  835   TKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCA  894
             TKKWK+PQV GLTSIKWADNNCYL++ LL LQQ+E+KFN PALQ+AYYRARAG+AANFCA
Sbjct  1624  TKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQVEVKFNAPALQEAYYRARAGDAANFCA  1683

Query  895   LILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMG  954
             LILAY NKTVGELGDVRETM++L QHANL+S KRVLNVVCK CGQ+ TTLKGVEAVMYMG
Sbjct  1684  LILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLKGVEAVMYMG  1743

Query  955   TLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQ  1014
             TLSY++ K GV IPC CG+ AT+YLVQQES FVMMSAPPA+Y+L+ G F CA+EYTGNYQ
Sbjct  1744  TLSYDELKTGVSIPCVCGRNATQYLVQQESSFVMMSAPPAEYKLQQGAFLCANEYTGNYQ  1803

Query  1015  CGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEI  1074
             CGHY HIT+KETLY +DGA LTK SEYKGP+TDVFYKE SYTT IKPV+YKLDGV  TEI
Sbjct  1804  CGHYTHITAKETLYRVDGAHLTKMSEYKGPVTDVFYKETSYTTAIKPVSYKLDGVTYTEI  1863

Query  1075  DPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPAS  1134
             +PKLD YYKK N+Y+TEQPIDLVP QP PNASFDNFK  C N KFADDLNQ+TG+KKPAS
Sbjct  1864  EPKLDGYYKKGNAYYTEQPIDLVPTQPMPNASFDNFKLTCSNTKFADDLNQMTGFKKPAS  1923

Query  1135  RELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRC  1194
             REL VTFFPDLNGDVVAIDY+HY+ SFKKGAKL+HKPI+WH+N  TNK TYKPN WC+RC
Sbjct  1924  RELTVTFFPDLNGDVVAIDYRHYSTSFKKGAKLVHKPILWHINQTTNKTTYKPNIWCLRC  1983

Query  1195  LWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVV  1254
             LWSTKPV+TSNSF+VL  ED QGMDNLACE     SEEVVENPT+QK+++EC+VKTTEVV
Sbjct  1984  LWSTKPVDTSNSFEVLVVEDTQGMDNLACESQTTTSEEVVENPTVQKEIIECDVKTTEVV  2043

Query  1255  GDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNS  1314
             G++ILKP+   +K+T+E+GH DLMAAYV+ +S+TIKKPNELS  LGLKTLATHG AA+NS
Sbjct  2044  GNVILKPSEEGVKVTQELGHEDLMAAYVEETSITIKKPNELSLALGLKTLATHGAAAINS  2103

Query  1315  VPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKA  1374
             VPW  I  Y KPFL +    T+N + +C+ RV +NYMPY  TLL QLCTFT+STNSRIKA
Sbjct  2104  VPWSKILAYVKPFLGQTAVITSNCIKKCVQRVFSNYMPYVITLLFQLCTFTKSTNSRIKA  2163

Query  1375  SMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGV  1434
             S+PTTIAKN+VKSV K CL+   NY+KSP FSKL  I++W LLLS+CLGSL Y TA LGV
Sbjct  2164  SLPTTIAKNSVKSVAKLCLDVCINYVKSPKFSKLFTIVMWLLLLSICLGSLTYVTAVLGV  2223

Query  1435  LMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITIS  1494
              +S+LG+PSYC G RE Y+NS+NVT   +C G  PCSVCLSGLDSLD+YP+LETIQ+TIS
Sbjct  2224  CLSSLGVPSYCDGVRELYINSSNVTTMDFCQGYFPCSVCLSGLDSLDSYPALETIQVTIS  2283

Query  1495  SFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLV  1554
             S+K DLT  GL AEW LAY+LFT+FFY+LGL+AIMQ FF YFA HFISNSWLMW II++V
Sbjct  2284  SYKLDLTFLGLAAEWLLAYMLFTKFFYLLGLSAIMQAFFGYFASHFISNSWLMWFIISIV  2343

Query  1555  QMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRR  1614
             QMAP+SAMVRMYIFFASFYYVWKSYVH++DGC SSTCMMCYKRNRATRVECTTIVNGV+R
Sbjct  2344  QMAPVSAMVRMYIFFASFYYVWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGVKR  2403

Query  1615  SFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVD  1674
             SFYVYANGG+GFCK HNWNC+NCDTFCAGSTFISDEVARDLSLQFKRPINPTDQS+Y+VD
Sbjct  2404  SFYVYANGGRGFCKAHNWNCLNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSAYVVD  2463

Query  1675  SVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEES  1734
             SVTVKNG++HLYFDKAGQKTYERH LSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEES
Sbjct  2464  SVTVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEES  2523

Query  1735  SAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTL  1794
             +AKSASVYYSQLMCQPILLLDQALVSDVGDS EV+VKMFDAYV+TFS+TF+VPMEKLK L
Sbjct  2524  AAKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLKAL  2583

Query  1795  VATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNN  1854
             VATA +ELAK V+LD VLSTF+SAARQG VD+DV+TKDV+ECLKLSH SDIEVTGDSCNN
Sbjct  2584  VATAHSELAKGVALDGVLSTFVSAARQGVVDTDVDTKDVIECLKLSHHSDIEVTGDSCNN  2643

Query  1855  YMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSA  1914
             +MLTYNKVENMTPRDLGACIDC+ARHINAQVAKSHN++L+WNVKD+MSLSEQLRKQIRSA
Sbjct  2644  FMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLVWNVKDYMSLSEQLRKQIRSA  2703

Query  1915  AKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             AKKNN+PF+LTCATTRQVVNV+TTKI+LKGG
Sbjct  2704  AKKNNIPFRLTCATTRQVVNVITTKISLKGG  2734


>sp|P0C6F5|R1A_BC279 Replicase polyprotein 1a OS=Bat coronavirus 
279/2005 OX=389167 GN=1a PE=3 SV=1
Length=4388

 Score = 3023 bits (7837),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 1459/1956 (75%), Positives = 1663/1956 (85%), Gaps = 39/1956 (2%)

Query  1     APTK-VTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             AP K VTFG+DTV+EVQGYK+V ITFELDER+DKVLNEKCS YTVE GTEV EFACVVA+
Sbjct  819   APVKGVTFGEDTVLEVQGYKNVKITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE  878

Query  60    AVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCE  119
             AV+KTLQPVS+LLT +GIDLDEWS+AT+YLFD++GE KL+S MYCSFYPPDE+E+  + E
Sbjct  879   AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDAGEEKLSSRMYCSFYPPDEEEDCEEYE  938

Query  120   EEEFEPSTQ--YEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSE  177
             +EE  P     +EYGTEDDY+G PLEFGA++                + QQ   +++   
Sbjct  939   DEEEIPEETCEHEYGTEDDYKGLPLEFGAST----------------EIQQVDEEEEEDW  982

Query  178   DNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPT  237
               +    +   E                 VN F+GYLKLTDNV IK  DIV+EA+  KPT
Sbjct  983   LEEAIAAKPEPEPL-----------PEEPVNQFTGYLKLTDNVAIKCVDIVKEAQHAKPT  1031

Query  238   VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCL  297
             V+VNAANV+LKHGGGVAGALNKATN AMQ ESDDYI  NGPL VGGSC+LSGHNLAK C+
Sbjct  1032  VIVNAANVHLKHGGGVAGALNKATNGAMQQESDDYIKKNGPLTVGGSCLLSGHNLAKKCM  1091

Query  298   HVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYL  357
             HVVGPN+N GED+QLLK+AY NFN  +VLLAPLLSAGIFGA P+ SL++CV+TVRT VY 
Sbjct  1092  HVVGPNLNAGEDVQLLKAAYANFNSQDVLLAPLLSAGIFGAKPLQSLKMCVETVRTQVYF  1151

Query  358   AVFDKNLYDKLVSSFLEMKSEKQVE---QKIAEIPKEEVKPFITESKPSVEQ----RKQD  410
             AV D++LYD +V  +L+    K VE   Q+  E+ ++     +T+    +E+     K  
Sbjct  1152  AVNDQDLYDHVVLGYLDSLKPK-VETPTQENLELKEQPAVETLTQENLELEELPVIEKPV  1210

Query  411   DKKIKACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVG  470
             D K KA +EEV T+LEETKFLT  LLL+ DING L+ DS  ++   D+ FL+KDAPYIVG
Sbjct  1211  DVKFKARIEEVNTSLEETKFLTSRLLLFADINGKLYQDSQNMLRGEDMFFLEKDAPYIVG  1270

Query  471   DVVQEGVLTAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKK  530
             DV+  G +T V+IP KKAGGTTEMLAKAL+KVP   YITTYPGQG  GYT+EEAKT L+K
Sbjct  1271  DVISSGDITCVIIPAKKAGGTTEMLAKALKKVPVSEYITTYPGQGCAGYTLEEAKTALRK  1330

Query  531   CKSAFYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKG  590
             CKS FY+LPS   N+K+EILGTVSWNLREMLAHAEETRKLM +C++ KA++STI R+YKG
Sbjct  1331  CKSVFYVLPSKTPNDKEEILGTVSWNLREMLAHAEETRKLMLICMDVKALMSTIHRRYKG  1390

Query  591   IKIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRS  650
             IK+QEG+VDYG RF+FYTSK  VAS+I  LN LNE LVTMP+GYVTHGLNLEEAAR MRS
Sbjct  1391  IKVQEGIVDYGVRFFFYTSKEPVASIITKLNLLNEPLVTMPIGYVTHGLNLEEAARCMRS  1450

Query  651   LKVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFL  710
             LK PA VSVSSPDAVT YNGYLTSSSKT EEHFIET+SLAG Y+DWSYSGQ T+LG+EFL
Sbjct  1451  LKAPAVVSVSSPDAVTTYNGYLTSSSKTSEEHFIETVSLAGMYRDWSYSGQRTELGVEFL  1510

Query  711   KRGDKSVYYT-SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMS  769
             KRGDK VY+T  +P  FHLDGEV+  D LK+LLSLREVRTIKVFTTVDN NLHTQ+VDMS
Sbjct  1511  KRGDKVVYHTVGSPIQFHLDGEVLLLDKLKSLLSLREVRTIKVFTTVDNTNLHTQIVDMS  1570

Query  770   MTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYM  829
             MTYGQQFGPTYLDGADVTKIKPH  HEGKTF+VLP+DDTLR EAFEYYHT D SFLGRYM
Sbjct  1571  MTYGQQFGPTYLDGADVTKIKPHAKHEGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYM  1630

Query  830   SALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEA  889
             SALNHTKKWK+PQ+ GLTSIKWADNNCYL++ LL LQQIE+KFN PALQ+AYYRARAG+A
Sbjct  1631  SALNHTKKWKFPQIGGLTSIKWADNNCYLSSVLLALQQIEVKFNAPALQEAYYRARAGDA  1690

Query  890   ANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEA  949
             ANFCALILAY N+TVGELGDVRETM++L QHANL+S KRVLNVVCKTCGQ+ TTL GVEA
Sbjct  1691  ANFCALILAYSNRTVGELGDVRETMTHLLQHANLESAKRVLNVVCKTCGQKSTTLTGVEA  1750

Query  950   VMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEY  1009
             VMYMGTLSYE+ K GV IPC CG+ AT+YLVQQES FVMMSAPP++Y L+ G F CA+EY
Sbjct  1751  VMYMGTLSYEELKTGVTIPCICGRDATQYLVQQESSFVMMSAPPSEYTLQQGAFLCANEY  1810

Query  1010  TGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGV  1069
             TG+YQCGHY H+T KETLY IDGA LTK SEYKGP+TDVFYKE SYTTTIKPV+YKLDGV
Sbjct  1811  TGSYQCGHYTHVTVKETLYRIDGAYLTKMSEYKGPVTDVFYKEISYTTTIKPVSYKLDGV  1870

Query  1070  VCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGY  1129
             + TEI PKLD YYKKDN+Y+TEQPIDLVP QP PNASFDNFK  C N KFADDLNQ+TG+
Sbjct  1871  IYTEIQPKLDEYYKKDNAYYTEQPIDLVPTQPLPNASFDNFKLTCSNTKFADDLNQMTGF  1930

Query  1130  KKPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNT  1189
             KKPASREL VTFFPDLNGDVVAIDY+HY+ SFKKGAKLLHKPI+WH+N  TNK TYKPNT
Sbjct  1931  KKPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIIWHINQTTNKTTYKPNT  1990

Query  1190  WCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVK  1249
             WC+RCLWSTKPVETSNSF+VL+ ED QGMDNLACE   P SEEVVENPTIQK+V+EC+VK
Sbjct  1991  WCLRCLWSTKPVETSNSFEVLEVEDTQGMDNLACESQTPTSEEVVENPTIQKEVIECDVK  2050

Query  1250  TTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGL  1309
             T EVVG++ILKP+   +K+T+E+GH DLMAAYV+ +S+TIKKPNELS  LGL+TLATHG 
Sbjct  2051  TIEVVGNVILKPSEEGVKVTQELGHEDLMAAYVEETSITIKKPNELSLALGLRTLATHGA  2110

Query  1310  AAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTN  1369
             AA+NSVPW  I  Y KPFL +   TTTN + RC+ RV  NYMPY  TLL QLCTFTRSTN
Sbjct  2111  AAINSVPWSKILAYVKPFLGQAAVTTTNCIKRCVQRVFNNYMPYVITLLFQLCTFTRSTN  2170

Query  1370  SRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYST  1429
             SRI+AS+PTTIAKN+VKSV K CL+   NY+KSP FSKL  I +W LLLS+CLGSLIY T
Sbjct  2171  SRIRASLPTTIAKNSVKSVAKLCLDVCINYVKSPKFSKLFTIAMWLLLLSICLGSLIYVT  2230

Query  1430  AALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETI  1489
             AA GVL+SNLG+PSYC G RE Y+NS+NVT   +C GS  CSVCL+GLDSLD+YP+LETI
Sbjct  2231  AAFGVLLSNLGIPSYCDGVRESYVNSSNVTTMDFCEGSFLCSVCLNGLDSLDSYPALETI  2290

Query  1490  QITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWL  1549
             Q+TISS+K DLT+ GL AEWFLAY+LFT+FFY+LGL+AIMQ+FF YFA HFISNSWLMW 
Sbjct  2291  QVTISSYKLDLTSLGLAAEWFLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMWF  2350

Query  1550  IINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIV  1609
             II++VQMAP+SAMVRMYIFFA  YYVWKSYVH++DGC SSTCMMCYKRNRATRVECTTIV
Sbjct  2351  IISIVQMAPVSAMVRMYIFFAFCYYVWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIV  2410

Query  1610  NGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQS  1669
             NG++RSFYVYANGG+GFCK HNWNC+NCDTFCAGSTFISDEVARDLSLQFKRPINPTDQS
Sbjct  2411  NGMKRSFYVYANGGRGFCKAHNWNCLNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQS  2470

Query  1670  SYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKS  1729
             SY+VDSV VKNG++HLYFDKAGQKTYERH LSHFVNLDNLRANNTKGSLPINVIVFDGKS
Sbjct  2471  SYVVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKS  2530

Query  1730  KCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPME  1789
             KC+ES+AKSASVYYSQLMCQPILLLDQALVSDVGDS EV+VKMFDAYV+TFS+TF+VPME
Sbjct  2531  KCDESAAKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPME  2590

Query  1790  KLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTG  1849
             KLK LVATA +ELAK V+LD VLSTF+SAARQG VD+DV+TKDV+ECLKLSH SD+EVTG
Sbjct  2591  KLKALVATAHSELAKGVALDGVLSTFVSAARQGVVDTDVDTKDVIECLKLSHHSDLEVTG  2650

Query  1850  DSCNNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRK  1909
             DSCNN+MLTYNKVENMTPRDLGACIDC+ARHINAQVAKSHN++LIWNVKD+MSLSEQLRK
Sbjct  2651  DSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQLRK  2710

Query  1910  QIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             QIRSAAKKNN+PF+LTCATTRQVVN +TTKI+LKGG
Sbjct  2711  QIRSAAKKNNIPFRLTCATTRQVVNAITTKISLKGG  2746


>sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus 
HKU3 OX=442736 GN=rep PE=3 SV=1
Length=7067

 Score = 3022 bits (7834),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 1462/1951 (75%), Positives = 1671/1951 (86%), Gaps = 41/1951 (2%)

Query  1     APTK-VTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             AP K VTFG+DTV+EVQGYK+V ITFELD R+DKVLNEKCS YTVE GTEV EFACVVA+
Sbjct  819   APVKGVTFGEDTVLEVQGYKNVKITFELDVRVDKVLNEKCSVYTVESGTEVTEFACVVAE  878

Query  60    AVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCE  119
             AV+KTLQPVS+LLTP+GIDLDEWS+AT+YLFD++GE KL+S MYCSFYPPDE+E+    E
Sbjct  879   AVVKTLQPVSDLLTPMGIDLDEWSVATFYLFDDAGEEKLSSRMYCSFYPPDEEEDCE--E  936

Query  120   EEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQ-PEEEQEEDWLDDDSQQTVGQQDGSED  178
              E+ E + ++EYGTEDDY+G PLEFGA++      EEE+EEDWLDD  +     +     
Sbjct  937   CEDEEETCEHEYGTEDDYKGLPLEFGASTETPHVEEEEEEEDWLDDAIEAEPEPE-----  991

Query  179   NQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTV  238
                                    +    VN F GYLKLTDNV IK  DIV+EA+  KPTV
Sbjct  992   ----------------------PLPEEPVNQFVGYLKLTDNVAIKCIDIVKEAQSAKPTV  1029

Query  239   VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLH  298
             +VNAAN +LKHGGGVAGALNKATN AMQ ESD+YI  NGPL VGGSC+LSGHNLA+ CLH
Sbjct  1030  IVNAANTHLKHGGGVAGALNKATNGAMQNESDEYIRQNGPLTVGGSCLLSGHNLAEKCLH  1089

Query  299   VVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLA  358
             VVGPN+N GED+QLLK AYENFN  +VLLAPLLSAGIFGA P+ SL++CV+ VRT VYLA
Sbjct  1090  VVGPNLNAGEDVQLLKRAYENFNSQDVLLAPLLSAGIFGAKPLQSLKMCVEIVRTQVYLA  1149

Query  359   VFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITES---KPSVEQRKQDDKKIK  415
             V DK+LYD++V  +L+    K       E P +E +P + E    +P  E+      KIK
Sbjct  1150  VNDKSLYDQIVLDYLDSLKPK------VESPNKEEEPKLEEPKAVQPVAEKPVDVKPKIK  1203

Query  416   ACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQE  475
             AC++EVTTTLEETKFLT  LLL+ DING L+ DS  ++   D++FL+KDAPYIVGDV+  
Sbjct  1204  ACIDEVTTTLEETKFLTNKLLLFADINGKLYQDSQNMLRGEDMSFLEKDAPYIVGDVITS  1263

Query  476   GVLTAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAF  535
             G +T V+IP KK+GGTTEMLA+AL++VP   YITTYPGQG  GYT+EEAKT LKKCKSAF
Sbjct  1264  GDITCVIIPAKKSGGTTEMLARALKEVPVAEYITTYPGQGCAGYTLEEAKTALKKCKSAF  1323

Query  536   YILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQE  595
             Y+LPS   NEK+E+LGTVSWNLREMLAHAEETRKLMP+C++ +AI++TIQRKYKGIK+QE
Sbjct  1324  YVLPSETPNEKEEVLGTVSWNLREMLAHAEETRKLMPICLDVRAIMATIQRKYKGIKVQE  1383

Query  596   GVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPA  655
             G+VDYG RF+FYTSK  VAS+I  LN LNE LVTMP+GYVTHGLNLEEAAR MRSLK PA
Sbjct  1384  GIVDYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGLNLEEAARCMRSLKAPA  1443

Query  656   TVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDK  715
              VSVSSPDAVTAYNGYLTSSSKTPEE+F+ET SLAGSY+DWSYSGQ T+LG+EFLKRGDK
Sbjct  1444  VVSVSSPDAVTAYNGYLTSSSKTPEEYFVETTSLAGSYRDWSYSGQRTELGVEFLKRGDK  1503

Query  716   SVYYTS-NPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQ  774
              VY+T+ +P  FHLDGEV+  D LK+LLSLREV+TIKVFTTVDN NLHT +VDMSMTYGQ
Sbjct  1504  IVYHTTGSPIEFHLDGEVLPLDKLKSLLSLREVKTIKVFTTVDNTNLHTHIVDMSMTYGQ  1563

Query  775   QFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNH  834
             QFGPTYLDGADVTKIKPH +HEGKTF+VLP+DDTLR EAFEYYHT D SFLGRYMSALNH
Sbjct  1564  QFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTIDESFLGRYMSALNH  1623

Query  835   TKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCA  894
             TKKWK+PQV GLTSIKWADNNCYL++ LL LQQ+E+KFN PALQ+AYYRARAG+AANFCA
Sbjct  1624  TKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQVEVKFNAPALQEAYYRARAGDAANFCA  1683

Query  895   LILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMG  954
             LILAY NKTVGELGDVRETM++L QHANL+S KRVLNVVCK CGQ+ TTLKGVEAVMYMG
Sbjct  1684  LILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLKGVEAVMYMG  1743

Query  955   TLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQ  1014
             TLSY++ K GV IPC CG+ AT+YLVQQES FVMMSAPPA+Y+L+ G F CA+EYTGNYQ
Sbjct  1744  TLSYDELKTGVSIPCVCGRNATQYLVQQESSFVMMSAPPAEYKLQQGAFLCANEYTGNYQ  1803

Query  1015  CGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEI  1074
             CGHY HIT+KETLY +DGA LTK SEYKGP+TDVFYKE SYTT IKPV+YKLDGV  TEI
Sbjct  1804  CGHYTHITAKETLYRVDGAHLTKMSEYKGPVTDVFYKETSYTTAIKPVSYKLDGVTYTEI  1863

Query  1075  DPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPAS  1134
             +PKLD YYKK N+Y+TEQPIDLVP QP PNASFDNFK  C N KFADDLNQ+TG+KKPAS
Sbjct  1864  EPKLDGYYKKGNAYYTEQPIDLVPTQPMPNASFDNFKLTCSNTKFADDLNQMTGFKKPAS  1923

Query  1135  RELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRC  1194
             REL VTFFPDLNGDVVAIDY+HY+ SFKKGAKL+HKPI+WH+N  TNK TYKPN WC+RC
Sbjct  1924  RELTVTFFPDLNGDVVAIDYRHYSTSFKKGAKLVHKPILWHINQTTNKTTYKPNIWCLRC  1983

Query  1195  LWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVV  1254
             LWSTKPV+TSNSF+VL  ED QGMDNLACE     SEEVVENPT+QK+++EC+VKTTEVV
Sbjct  1984  LWSTKPVDTSNSFEVLVVEDTQGMDNLACESQTTTSEEVVENPTVQKEIIECDVKTTEVV  2043

Query  1255  GDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNS  1314
             G++ILKP+   +K+T+E+GH DLMAAYV+ +S+TIKKPNELS  LGLKTLATHG AA+NS
Sbjct  2044  GNVILKPSEEGVKVTQELGHEDLMAAYVEETSITIKKPNELSLALGLKTLATHGAAAINS  2103

Query  1315  VPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKA  1374
             VPW  I  Y KPFL +    T+N + +C+ RV +NYMPY  TLL QLCTFT+STNSRIKA
Sbjct  2104  VPWSKILAYVKPFLGQTAVITSNCIKKCVQRVFSNYMPYVITLLFQLCTFTKSTNSRIKA  2163

Query  1375  SMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGV  1434
             S+PTTIAKN+VKSV K CL+   NY+KSP FSKL  I++W LLLS+CLGSL Y TA LGV
Sbjct  2164  SLPTTIAKNSVKSVAKLCLDVCINYVKSPKFSKLFTIVMWLLLLSICLGSLTYVTAVLGV  2223

Query  1435  LMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITIS  1494
              +S+LG+PSYC G RE Y+NS+NVT   +C G  PCSVCLSGLDSLD+YP+LETIQ+TIS
Sbjct  2224  CLSSLGVPSYCDGVRELYINSSNVTTMDFCQGYFPCSVCLSGLDSLDSYPALETIQVTIS  2283

Query  1495  SFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLV  1554
             S+K DLT  GL AEW LAY+LFT+FFY+LGL+AIMQ FF YFA HFISNSWLMW II++V
Sbjct  2284  SYKLDLTFLGLAAEWLLAYMLFTKFFYLLGLSAIMQAFFGYFASHFISNSWLMWFIISIV  2343

Query  1555  QMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRR  1614
             QMAP+SAMVRMYIFFASFYYVWKSYVH++DGC SSTCMMCYKRNRATRVECTTIVNGV+R
Sbjct  2344  QMAPVSAMVRMYIFFASFYYVWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGVKR  2403

Query  1615  SFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVD  1674
             SFYVYANGG+GFCK HNWNC+NCDTFCAGSTFISDEVARDLSLQFKRPINPTDQS+Y+VD
Sbjct  2404  SFYVYANGGRGFCKAHNWNCLNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSAYVVD  2463

Query  1675  SVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEES  1734
             SVTVKNG++HLYFDKAGQKTYERH LSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEES
Sbjct  2464  SVTVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEES  2523

Query  1735  SAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTL  1794
             +AKSASVYYSQLMCQPILLLDQALVSDVGDS EV+VKMFDAYV+TFS+TF+VPMEKLK L
Sbjct  2524  AAKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLKAL  2583

Query  1795  VATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNN  1854
             VATA +ELAK V+LD VLSTF+SAARQG VD+DV+TKDV+ECLKLSH SDIEVTGDSCNN
Sbjct  2584  VATAHSELAKGVALDGVLSTFVSAARQGVVDTDVDTKDVIECLKLSHHSDIEVTGDSCNN  2643

Query  1855  YMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSA  1914
             +MLTYNKVENMTPRDLGACIDC+ARHINAQVAKSHN++L+WNVKD+MSLSEQLRKQIRSA
Sbjct  2644  FMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLVWNVKDYMSLSEQLRKQIRSA  2703

Query  1915  AKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             AKKNN+PF+LTCATTRQVVNV+TTKI+LKGG
Sbjct  2704  AKKNNIPFRLTCATTRQVVNVITTKISLKGG  2734


>sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus 
279/2005 OX=389167 GN=rep PE=3 SV=1
Length=7079

 Score = 3015 bits (7816),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 1459/1956 (75%), Positives = 1663/1956 (85%), Gaps = 39/1956 (2%)

Query  1     APTK-VTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             AP K VTFG+DTV+EVQGYK+V ITFELDER+DKVLNEKCS YTVE GTEV EFACVVA+
Sbjct  819   APVKGVTFGEDTVLEVQGYKNVKITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE  878

Query  60    AVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCE  119
             AV+KTLQPVS+LLT +GIDLDEWS+AT+YLFD++GE KL+S MYCSFYPPDE+E+  + E
Sbjct  879   AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDAGEEKLSSRMYCSFYPPDEEEDCEEYE  938

Query  120   EEEFEPSTQ--YEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSE  177
             +EE  P     +EYGTEDDY+G PLEFGA++                + QQ   +++   
Sbjct  939   DEEEIPEETCEHEYGTEDDYKGLPLEFGAST----------------EIQQVDEEEEEDW  982

Query  178   DNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPT  237
               +    +   E                 VN F+GYLKLTDNV IK  DIV+EA+  KPT
Sbjct  983   LEEAIAAKPEPEPL-----------PEEPVNQFTGYLKLTDNVAIKCVDIVKEAQHAKPT  1031

Query  238   VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCL  297
             V+VNAANV+LKHGGGVAGALNKATN AMQ ESDDYI  NGPL VGGSC+LSGHNLAK C+
Sbjct  1032  VIVNAANVHLKHGGGVAGALNKATNGAMQQESDDYIKKNGPLTVGGSCLLSGHNLAKKCM  1091

Query  298   HVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYL  357
             HVVGPN+N GED+QLLK+AY NFN  +VLLAPLLSAGIFGA P+ SL++CV+TVRT VY 
Sbjct  1092  HVVGPNLNAGEDVQLLKAAYANFNSQDVLLAPLLSAGIFGAKPLQSLKMCVETVRTQVYF  1151

Query  358   AVFDKNLYDKLVSSFLEMKSEKQVE---QKIAEIPKEEVKPFITESKPSVEQ----RKQD  410
             AV D++LYD +V  +L+    K VE   Q+  E+ ++     +T+    +E+     K  
Sbjct  1152  AVNDQDLYDHVVLGYLDSLKPK-VETPTQENLELKEQPAVETLTQENLELEELPVIEKPV  1210

Query  411   DKKIKACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVG  470
             D K KA +EEV T+LEETKFLT  LLL+ DING L+ DS  ++   D+ FL+KDAPYIVG
Sbjct  1211  DVKFKARIEEVNTSLEETKFLTSRLLLFADINGKLYQDSQNMLRGEDMFFLEKDAPYIVG  1270

Query  471   DVVQEGVLTAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKK  530
             DV+  G +T V+IP KKAGGTTEMLAKAL+KVP   YITTYPGQG  GYT+EEAKT L+K
Sbjct  1271  DVISSGDITCVIIPAKKAGGTTEMLAKALKKVPVSEYITTYPGQGCAGYTLEEAKTALRK  1330

Query  531   CKSAFYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKG  590
             CKS FY+LPS   N+K+EILGTVSWNLREMLAHAEETRKLM +C++ KA++STI R+YKG
Sbjct  1331  CKSVFYVLPSKTPNDKEEILGTVSWNLREMLAHAEETRKLMLICMDVKALMSTIHRRYKG  1390

Query  591   IKIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRS  650
             IK+QEG+VDYG RF+FYTSK  VAS+I  LN LNE LVTMP+GYVTHGLNLEEAAR MRS
Sbjct  1391  IKVQEGIVDYGVRFFFYTSKEPVASIITKLNLLNEPLVTMPIGYVTHGLNLEEAARCMRS  1450

Query  651   LKVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFL  710
             LK PA VSVSSPDAVT YNGYLTSSSKT EEHFIET+SLAG Y+DWSYSGQ T+LG+EFL
Sbjct  1451  LKAPAVVSVSSPDAVTTYNGYLTSSSKTSEEHFIETVSLAGMYRDWSYSGQRTELGVEFL  1510

Query  711   KRGDKSVYYT-SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMS  769
             KRGDK VY+T  +P  FHLDGEV+  D LK+LLSLREVRTIKVFTTVDN NLHTQ+VDMS
Sbjct  1511  KRGDKVVYHTVGSPIQFHLDGEVLLLDKLKSLLSLREVRTIKVFTTVDNTNLHTQIVDMS  1570

Query  770   MTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYM  829
             MTYGQQFGPTYLDGADVTKIKPH  HEGKTF+VLP+DDTLR EAFEYYHT D SFLGRYM
Sbjct  1571  MTYGQQFGPTYLDGADVTKIKPHAKHEGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYM  1630

Query  830   SALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEA  889
             SALNHTKKWK+PQ+ GLTSIKWADNNCYL++ LL LQQIE+KFN PALQ+AYYRARAG+A
Sbjct  1631  SALNHTKKWKFPQIGGLTSIKWADNNCYLSSVLLALQQIEVKFNAPALQEAYYRARAGDA  1690

Query  890   ANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEA  949
             ANFCALILAY N+TVGELGDVRETM++L QHANL+S KRVLNVVCKTCGQ+ TTL GVEA
Sbjct  1691  ANFCALILAYSNRTVGELGDVRETMTHLLQHANLESAKRVLNVVCKTCGQKSTTLTGVEA  1750

Query  950   VMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEY  1009
             VMYMGTLSYE+ K GV IPC CG+ AT+YLVQQES FVMMSAPP++Y L+ G F CA+EY
Sbjct  1751  VMYMGTLSYEELKTGVTIPCICGRDATQYLVQQESSFVMMSAPPSEYTLQQGAFLCANEY  1810

Query  1010  TGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGV  1069
             TG+YQCGHY H+T KETLY IDGA LTK SEYKGP+TDVFYKE SYTTTIKPV+YKLDGV
Sbjct  1811  TGSYQCGHYTHVTVKETLYRIDGAYLTKMSEYKGPVTDVFYKEISYTTTIKPVSYKLDGV  1870

Query  1070  VCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGY  1129
             + TEI PKLD YYKKDN+Y+TEQPIDLVP QP PNASFDNFK  C N KFADDLNQ+TG+
Sbjct  1871  IYTEIQPKLDEYYKKDNAYYTEQPIDLVPTQPLPNASFDNFKLTCSNTKFADDLNQMTGF  1930

Query  1130  KKPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNT  1189
             KKPASREL VTFFPDLNGDVVAIDY+HY+ SFKKGAKLLHKPI+WH+N  TNK TYKPNT
Sbjct  1931  KKPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIIWHINQTTNKTTYKPNT  1990

Query  1190  WCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVK  1249
             WC+RCLWSTKPVETSNSF+VL+ ED QGMDNLACE   P SEEVVENPTIQK+V+EC+VK
Sbjct  1991  WCLRCLWSTKPVETSNSFEVLEVEDTQGMDNLACESQTPTSEEVVENPTIQKEVIECDVK  2050

Query  1250  TTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGL  1309
             T EVVG++ILKP+   +K+T+E+GH DLMAAYV+ +S+TIKKPNELS  LGL+TLATHG 
Sbjct  2051  TIEVVGNVILKPSEEGVKVTQELGHEDLMAAYVEETSITIKKPNELSLALGLRTLATHGA  2110

Query  1310  AAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTN  1369
             AA+NSVPW  I  Y KPFL +   TTTN + RC+ RV  NYMPY  TLL QLCTFTRSTN
Sbjct  2111  AAINSVPWSKILAYVKPFLGQAAVTTTNCIKRCVQRVFNNYMPYVITLLFQLCTFTRSTN  2170

Query  1370  SRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYST  1429
             SRI+AS+PTTIAKN+VKSV K CL+   NY+KSP FSKL  I +W LLLS+CLGSLIY T
Sbjct  2171  SRIRASLPTTIAKNSVKSVAKLCLDVCINYVKSPKFSKLFTIAMWLLLLSICLGSLIYVT  2230

Query  1430  AALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETI  1489
             AA GVL+SNLG+PSYC G RE Y+NS+NVT   +C GS  CSVCL+GLDSLD+YP+LETI
Sbjct  2231  AAFGVLLSNLGIPSYCDGVRESYVNSSNVTTMDFCEGSFLCSVCLNGLDSLDSYPALETI  2290

Query  1490  QITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWL  1549
             Q+TISS+K DLT+ GL AEWFLAY+LFT+FFY+LGL+AIMQ+FF YFA HFISNSWLMW 
Sbjct  2291  QVTISSYKLDLTSLGLAAEWFLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMWF  2350

Query  1550  IINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIV  1609
             II++VQMAP+SAMVRMYIFFA  YYVWKSYVH++DGC SSTCMMCYKRNRATRVECTTIV
Sbjct  2351  IISIVQMAPVSAMVRMYIFFAFCYYVWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIV  2410

Query  1610  NGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQS  1669
             NG++RSFYVYANGG+GFCK HNWNC+NCDTFCAGSTFISDEVARDLSLQFKRPINPTDQS
Sbjct  2411  NGMKRSFYVYANGGRGFCKAHNWNCLNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQS  2470

Query  1670  SYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKS  1729
             SY+VDSV VKNG++HLYFDKAGQKTYERH LSHFVNLDNLRANNTKGSLPINVIVFDGKS
Sbjct  2471  SYVVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKS  2530

Query  1730  KCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPME  1789
             KC+ES+AKSASVYYSQLMCQPILLLDQALVSDVGDS EV+VKMFDAYV+TFS+TF+VPME
Sbjct  2531  KCDESAAKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPME  2590

Query  1790  KLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTG  1849
             KLK LVATA +ELAK V+LD VLSTF+SAARQG VD+DV+TKDV+ECLKLSH SD+EVTG
Sbjct  2591  KLKALVATAHSELAKGVALDGVLSTFVSAARQGVVDTDVDTKDVIECLKLSHHSDLEVTG  2650

Query  1850  DSCNNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRK  1909
             DSCNN+MLTYNKVENMTPRDLGACIDC+ARHINAQVAKSHN++LIWNVKD+MSLSEQLRK
Sbjct  2651  DSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQLRK  2710

Query  1910  QIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             QIRSAAKKNN+PF+LTCATTRQVVN +TTKI+LKGG
Sbjct  2711  QIRSAAKKNNIPFRLTCATTRQVVNAITTKISLKGG  2746


>sp|P0C6T5|R1A_BCHK5 Replicase polyprotein 1a OS=Bat coronavirus 
HKU5 OX=694008 GN=1a PE=3 SV=1
Length=4481

 Score = 710 bits (1832),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 477/1462 (33%), Positives = 751/1462 (51%), Gaps = 98/1462 (7%)

Query  573   VCVETKAIVSTIQRKYKGIKIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPL  632
             +C +  A    ++ +   +  +   VD G ++Y Y+SK  +  +I   N   + +  MP+
Sbjct  1379  ICTDQSANAKLLKGRGVDLTKKTQTVD-GVKYYLYSSKDPLTDIITAANAC-KGICAMPI  1436

Query  633   GYVTHGLNLEEAARYMRSLKVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGS  692
             GYVTHGL+L +A + ++ + VP    ++S D V   N  +  + +TPE+ FI T+   G 
Sbjct  1437  GYVTHGLDLAQAGQQVKKITVPYVCLLASKDQVPILNSDV--AVQTPEQSFINTVIANGG  1494

Query  693   YKDWSY-SGQSTQLGIEF---LKRGDKSVYYTSNPTTFHLDGEV-ITFDNL---KTLLSL  744
             Y  W   +G+    G+ +   L   D+++ Y  N   + + G++ + FD+L   +T L+ 
Sbjct  1495  YHCWHLVTGELIVKGVSYRKLLNWSDQTICYADN-KFYVVKGQIALPFDSLEKCRTYLTS  1553

Query  745   R--EVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYV  802
             R  + + + V  T+D +N  T V++ + TY  Q G  +  G+D++   P     G+  Y+
Sbjct  1554  RAAQQKNVDVLVTIDGVNFRTVVLNNTTTYRVQLGSVFYKGSDISDTIPTEKMSGEAVYL  1613

Query  803   LPN-DDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATA  861
               N  +  +    E Y T D +FL RY S L   KKWKY   +G+ S+K   NNCY+   
Sbjct  1614  ADNLSEAEKAVLSEVYGTADTAFLHRYYSLLALVKKWKYTVHDGVKSLKLNSNNCYVNVT  1673

Query  862   LLTLQQI-ELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQH  920
             +L L  + E+KF  PALQ AY + + G++  F ALI+AY + T GE  D    +  +   
Sbjct  1674  MLMLDMLKEIKFIVPALQAAYLKHKGGDSTEFIALIMAYGDCTYGEPDDASRLLHTILSK  1733

Query  921   ANLDS-CKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYL  979
             A L +  K V    C  CG Q TT  G++A +Y+G  S ++     +  C CG    + L
Sbjct  1734  AELTTQAKMVWRQWCNVCGVQDTTTTGLKACIYVGMNSLDELHATHEECCQCGDVRKRQL  1793

Query  980   VQQESPFVMMSAPPAQYELKHGTFTCASEYTG-------NYQCGHYKHITSKETL-YCID  1031
             V+  +P++++S       +   + +   +YT            GHY H+  K+ L Y  D
Sbjct  1794  VEHNAPWLLLSGLNEAKVMTPTSQSAGPDYTAFNVFQGVETSVGHYLHVRVKDNLLYKYD  1853

Query  1032  GALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTE  1091
                L+K+S+ K  +TDV+Y +  Y+     V Y LDG    ++DP L  +Y KD  YFT+
Sbjct  1854  SGSLSKTSDMKCKMTDVYYPKQRYSADCNVVVYSLDGNTWADVDPDLSAFYMKDGKYFTK  1913

Query  1092  QPI------DLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGY--KKPASRELKVTFFP  1143
             +P+       ++    Y N+          +   +   N L G+   KP S++L  +FFP
Sbjct  1914  KPVIEYSPATILSGSVYTNSCLVGHDGTIGSDAISSSFNNLLGFDNSKPVSKKLTYSFFP  1973

Query  1144  DLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKPVET  1203
             D  GDV+  +Y  Y P +K GA L  KPI+W  N+  + A  K N   +R ++   PV  
Sbjct  1974  DFEGDVILTEYSTYDPIYKNGAMLHGKPILWVNNSKFDSALNKFNRATLRQVYDIAPVTL  2033

Query  1204  SNSFDVLKSEDAQGMDNLAC-EDLKPVSE-EVVENPTIQKDVLECNVKTTEVVGD---II  1258
              N + VL+    Q ++  A  ED KP S  +V E+   +  +++C       V D    +
Sbjct  2034  ENKYTVLQDNQIQQVEVEAPKEDAKPQSPVQVAEDIDNKLPIIKCKGLKKPFVKDGYSFV  2093

Query  1259  LKPANNSLKITEEVGHTDLMAAYVD-NSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPW  1317
               P    + + + +G  DL A YVD N  L + K N  S +  + T+    L+ + +   
Sbjct  2094  NDP--QGVNVIDTLGIDDLRALYVDRNLRLIVLKENNWSALFNIHTVEKGDLSVIAASGS  2151

Query  1318  DT----IANYAKPFLNKVVSTTTNIVT---RCLNRVCTNYMP------YFFTLLLQLC--  1362
              T    I   A     +  S T N+ T   + L R+  N +         F LL  L   
Sbjct  2152  ITRRVKILLGASSLFAQFASVTVNVTTAMGKALGRMTRNVITNTGIIGQGFALLKMLLIL  2211

Query  1363  --TFTRSTN-SRIKASMPTTIAKNTVKS-VGKFCLEASFNYLKSPNFSKLINIIIWFLLL  1418
               TF +S N S +K  +        V + V K C  A+++ L    F ++       LL 
Sbjct  2212  PFTFWKSKNQSTVKVEVGALRTAGIVTTNVVKQCASAAYDVLVV-KFKRIDWKSTLRLLF  2270

Query  1419  SVC------------------LGSLIYSTAALGVLM------SNLGMPSYCTGYREGYLN  1454
              +C                  L S +    A G+L       S LG+ S C G  E Y N
Sbjct  2271  LICTTGLLLSSLYYLFLFHQVLTSDVMLDGAEGMLATYRELRSYLGIHSLCDGMVEAYRN  2330

Query  1455  STNVTIATYCTG-SIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAY  1513
               +  +  +C+  S  C+ CL G DSL  Y + + IQ  ++S+  ++     V E+ LAY
Sbjct  2331  -VSYDVNDFCSNRSALCNWCLIGQDSLTRYSAFQMIQTHVTSYVINIDWVWFVMEFALAY  2389

Query  1514  ILFTRFFYVLGLAAIMQLFFSYFA--VHFISNSWLMWLIINLVQMAPISAMVRMYIFFAS  1571
             +L+T  F VL L    Q FFSY    V++ S ++L+      V   P+  +VR+Y F A 
Sbjct  2390  VLYTSTFNVLLLVVSSQYFFSYTGAFVNWRSYNYLVSGYFFCVTHIPLLGLVRIYNFLAC  2449

Query  1572  FYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHN  1631
              +++ + Y HV++GC  + C++CYKRNR TRVE +T+V G +R+FY+ ANGG  FC  HN
Sbjct  2450  LWFLRRFYNHVINGCKDTACLLCYKRNRLTRVEASTVVCGSKRTFYIVANGGTSFCCRHN  2509

Query  1632  WNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAG  1691
             WNCV+CDT   G+TFI +EVA DL+   +R + PTD+S Y V+SVTVK+  + L++ + G
Sbjct  2510  WNCVDCDTAGIGNTFICEEVANDLTTSLRRLVKPTDKSHYYVESVTVKDSVVQLHYSREG  2569

Query  1692  QKTYERHSLSHFVNLDNLRAN---NTKGSLP-INVIVFDGKSKCEESSAKSASVYYSQLM  1747
                YER+ L +F NLD L+      T   +P  N +++D   + +E+ A+SA VYYSQ++
Sbjct  2570  ASCYERYPLCYFTNLDKLKFKEVCKTPTGIPEHNFLIYDSSDRGQENLARSACVYYSQVL  2629

Query  1748  CQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVS  1807
              +P+LL+D  +V+ VGDS E+A KM D+YVN+F S F V  +KL  LVATA   + +   
Sbjct  2630  SKPMLLVDSNMVTTVGDSREIASKMLDSYVNSFISLFGVNRDKLDKLVATARDCVKRGDD  2689

Query  1808  LDNVLSTFISAAR-QGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMT  1866
                V+ TF  AAR    V+SDVET  +V+ L+ +++ D+++T +  NNY+ +Y K +++ 
Sbjct  2690  FQTVIKTFTDAARGPAGVESDVETSSIVDALQYAYKHDLQLTTEGFNNYVPSYIKPDSVA  2749

Query  1867  PRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTC  1926
               DLG  ID +A  +N    ++ N A IWN  D+M LS+ L++QIR A +K N+PF+LT 
Sbjct  2750  TADLGCLIDLNAASVNQTSIRNANGACIWNSSDYMKLSDSLKRQIRIACRKCNIPFRLTT  2809

Query  1927  ATTRQVVNVVTTKIA---LKGG  1945
             +  R   N+++ K +   L GG
Sbjct  2810  SRLRSADNILSVKFSATKLSGG  2831


 Score = 139 bits (350),  Expect = 2e-31, Method: Compositional matrix adjust.
 Identities = 66/158 (42%), Positives = 102/158 (65%), Gaps = 0/158 (0%)

Query  213   YLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDY  272
             ++ L ++V +   D +  A+  +  ++VNAAN +LKHGGG+A A+++A+   +Q ESDDY
Sbjct  1192  HIVLNNDVTLVFGDAIAVARATEDCILVNAANTHLKHGGGIAAAIDRASGGLVQAESDDY  1251

Query  273   IATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLS  332
             +   GPL VG S +L GH LA   LHVVGP+    +DIQLLK  Y+ FN++ ++++PL+S
Sbjct  1252  VNFYGPLNVGDSTLLKGHGLATGILHVVGPDARANQDIQLLKRCYKAFNKYPLVVSPLIS  1311

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVS  370
             AGIF  +P  SL   +  V T  Y+ V  + +Y+ L +
Sbjct  1312  AGIFCVEPRVSLEYLLSVVHTKTYVVVNSEKVYNDLAA  1349


 Score = 50.1 bits (118),  Expect = 3e-04, Method: Compositional matrix adjust.
 Identities = 55/209 (26%), Positives = 94/209 (45%), Gaps = 10/209 (5%)

Query  2     PTKVTFGDDTVIEVQGYKSVNITFELDERIDKVL-NEKCSAYTVELGTEVNEFACVVADA  60
             P  V FG +   E+   +SV++ +++   +D +L   + + +TVE    V +F  VV D 
Sbjct  854   PKGVKFGGEQTKEITAVRSVSVDYDVHPVLDALLAGSELATFTVEKDLPVKDFVDVVKDE  913

Query  61    VIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE  120
             VI+ L  +       G DL++++    Y+++  G+   +S M  S  P +E EEE D + 
Sbjct  914   VIELLSKLLRGYNVDGFDLEDFADTPCYVYNAEGDLAWSSTMTFSVNPVEEVEEECDDDY  973

Query  121   EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQ  180
              E E  ++     ED+       + A   A+ P E+ + D L  +   +    D +E   
Sbjct  974   VEDEYLSEEMLVEEDEN-----SWAAAVEAVIPMEDVQLDTLVAEIDVSEPADDVAEQAS  1028

Query  181   TTTIQTIVEVQPQLEMELTPVVQTIEVNS  209
             T      VEV     +E + V    EV S
Sbjct  1029  TEE----VEVPSACVLEASQVANAAEVES  1053


>sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus 
HKU5 OX=694008 GN=rep PE=3 SV=1
Length=7182

 Score = 709 bits (1830),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 477/1462 (33%), Positives = 751/1462 (51%), Gaps = 98/1462 (7%)

Query  573   VCVETKAIVSTIQRKYKGIKIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPL  632
             +C +  A    ++ +   +  +   VD G ++Y Y+SK  +  +I   N   + +  MP+
Sbjct  1379  ICTDQSANAKLLKGRGVDLTKKTQTVD-GVKYYLYSSKDPLTDIITAANAC-KGICAMPI  1436

Query  633   GYVTHGLNLEEAARYMRSLKVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGS  692
             GYVTHGL+L +A + ++ + VP    ++S D V   N  +  + +TPE+ FI T+   G 
Sbjct  1437  GYVTHGLDLAQAGQQVKKITVPYVCLLASKDQVPILNSDV--AVQTPEQSFINTVIANGG  1494

Query  693   YKDWSY-SGQSTQLGIEF---LKRGDKSVYYTSNPTTFHLDGEV-ITFDNL---KTLLSL  744
             Y  W   +G+    G+ +   L   D+++ Y  N   + + G++ + FD+L   +T L+ 
Sbjct  1495  YHCWHLVTGELIVKGVSYRKLLNWSDQTICYADN-KFYVVKGQIALPFDSLEKCRTYLTS  1553

Query  745   R--EVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYV  802
             R  + + + V  T+D +N  T V++ + TY  Q G  +  G+D++   P     G+  Y+
Sbjct  1554  RAAQQKNVDVLVTIDGVNFRTVVLNNTTTYRVQLGSVFYKGSDISDTIPTEKMSGEAVYL  1613

Query  803   LPN-DDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATA  861
               N  +  +    E Y T D +FL RY S L   KKWKY   +G+ S+K   NNCY+   
Sbjct  1614  ADNLSEAEKAVLSEVYGTADTAFLHRYYSLLALVKKWKYTVHDGVKSLKLNSNNCYVNVT  1673

Query  862   LLTLQQI-ELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQH  920
             +L L  + E+KF  PALQ AY + + G++  F ALI+AY + T GE  D    +  +   
Sbjct  1674  MLMLDMLKEIKFIVPALQAAYLKHKGGDSTEFIALIMAYGDCTYGEPDDASRLLHTILSK  1733

Query  921   ANLDS-CKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYL  979
             A L +  K V    C  CG Q TT  G++A +Y+G  S ++     +  C CG    + L
Sbjct  1734  AELTTQAKMVWRQWCNVCGVQDTTTTGLKACIYVGMNSLDELHATHEECCQCGDVRKRQL  1793

Query  980   VQQESPFVMMSAPPAQYELKHGTFTCASEYTG-------NYQCGHYKHITSKETL-YCID  1031
             V+  +P++++S       +   + +   +YT            GHY H+  K+ L Y  D
Sbjct  1794  VEHNAPWLLLSGLNEAKVMTPTSQSAGPDYTAFNVFQGVETSVGHYLHVRVKDNLLYKYD  1853

Query  1032  GALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTE  1091
                L+K+S+ K  +TDV+Y +  Y+     V Y LDG    ++DP L  +Y KD  YFT+
Sbjct  1854  SGSLSKTSDMKCKMTDVYYPKQRYSADCNVVVYSLDGNTWADVDPDLSAFYMKDGKYFTK  1913

Query  1092  QPI------DLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGY--KKPASRELKVTFFP  1143
             +P+       ++    Y N+          +   +   N L G+   KP S++L  +FFP
Sbjct  1914  KPVIEYSPATILSGSVYTNSCLVGHDGTIGSDAISSSFNNLLGFDNSKPVSKKLTYSFFP  1973

Query  1144  DLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKPVET  1203
             D  GDV+  +Y  Y P +K GA L  KPI+W  N+  + A  K N   +R ++   PV  
Sbjct  1974  DFEGDVILTEYSTYDPIYKNGAMLHGKPILWVNNSKFDSALNKFNRATLRQVYDIAPVTL  2033

Query  1204  SNSFDVLKSEDAQGMDNLAC-EDLKPVSE-EVVENPTIQKDVLECNVKTTEVVGD---II  1258
              N + VL+    Q ++  A  ED KP S  +V E+   +  +++C       V D    +
Sbjct  2034  ENKYTVLQDNQIQQVEVEAPKEDAKPQSPVQVAEDIDNKLPIIKCKGLKKPFVKDGYSFV  2093

Query  1259  LKPANNSLKITEEVGHTDLMAAYVD-NSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPW  1317
               P    + + + +G  DL A YVD N  L + K N  S +  + T+    L+ + +   
Sbjct  2094  NDP--QGVNVIDTLGIDDLRALYVDRNLRLIVLKENNWSALFNIHTVEKGDLSVIAASGS  2151

Query  1318  DT----IANYAKPFLNKVVSTTTNIVT---RCLNRVCTNYMP------YFFTLLLQLC--  1362
              T    I   A     +  S T N+ T   + L R+  N +         F LL  L   
Sbjct  2152  ITRRVKILLGASSLFAQFASVTVNVTTAMGKALGRMTRNVITNTGIIGQGFALLKMLLIL  2211

Query  1363  --TFTRSTN-SRIKASMPTTIAKNTVKS-VGKFCLEASFNYLKSPNFSKLINIIIWFLLL  1418
               TF +S N S +K  +        V + V K C  A+++ L    F ++       LL 
Sbjct  2212  PFTFWKSKNQSTVKVEVGALRTAGIVTTNVVKQCASAAYDVLVV-KFKRIDWKSTLRLLF  2270

Query  1419  SVC------------------LGSLIYSTAALGVLM------SNLGMPSYCTGYREGYLN  1454
              +C                  L S +    A G+L       S LG+ S C G  E Y N
Sbjct  2271  LICTTGLLLSSLYYLFLFHQVLTSDVMLDGAEGMLATYRELRSYLGIHSLCDGMVEAYRN  2330

Query  1455  STNVTIATYCTG-SIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAY  1513
               +  +  +C+  S  C+ CL G DSL  Y + + IQ  ++S+  ++     V E+ LAY
Sbjct  2331  -VSYDVNDFCSNRSALCNWCLIGQDSLTRYSAFQMIQTHVTSYVINIDWVWFVMEFALAY  2389

Query  1514  ILFTRFFYVLGLAAIMQLFFSYFA--VHFISNSWLMWLIINLVQMAPISAMVRMYIFFAS  1571
             +L+T  F VL L    Q FFSY    V++ S ++L+      V   P+  +VR+Y F A 
Sbjct  2390  VLYTSTFNVLLLVVSSQYFFSYTGAFVNWRSYNYLVSGYFFCVTHIPLLGLVRIYNFLAC  2449

Query  1572  FYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHN  1631
              +++ + Y HV++GC  + C++CYKRNR TRVE +T+V G +R+FY+ ANGG  FC  HN
Sbjct  2450  LWFLRRFYNHVINGCKDTACLLCYKRNRLTRVEASTVVCGSKRTFYIVANGGTSFCCRHN  2509

Query  1632  WNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAG  1691
             WNCV+CDT   G+TFI +EVA DL+   +R + PTD+S Y V+SVTVK+  + L++ + G
Sbjct  2510  WNCVDCDTAGIGNTFICEEVANDLTTSLRRLVKPTDKSHYYVESVTVKDSVVQLHYSREG  2569

Query  1692  QKTYERHSLSHFVNLDNLRAN---NTKGSLP-INVIVFDGKSKCEESSAKSASVYYSQLM  1747
                YER+ L +F NLD L+      T   +P  N +++D   + +E+ A+SA VYYSQ++
Sbjct  2570  ASCYERYPLCYFTNLDKLKFKEVCKTPTGIPEHNFLIYDSSDRGQENLARSACVYYSQVL  2629

Query  1748  CQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVS  1807
              +P+LL+D  +V+ VGDS E+A KM D+YVN+F S F V  +KL  LVATA   + +   
Sbjct  2630  SKPMLLVDSNMVTTVGDSREIASKMLDSYVNSFISLFGVNRDKLDKLVATARDCVKRGDD  2689

Query  1808  LDNVLSTFISAAR-QGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMT  1866
                V+ TF  AAR    V+SDVET  +V+ L+ +++ D+++T +  NNY+ +Y K +++ 
Sbjct  2690  FQTVIKTFTDAARGPAGVESDVETSSIVDALQYAYKHDLQLTTEGFNNYVPSYIKPDSVA  2749

Query  1867  PRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTC  1926
               DLG  ID +A  +N    ++ N A IWN  D+M LS+ L++QIR A +K N+PF+LT 
Sbjct  2750  TADLGCLIDLNAASVNQTSIRNANGACIWNSSDYMKLSDSLKRQIRIACRKCNIPFRLTT  2809

Query  1927  ATTRQVVNVVTTKIA---LKGG  1945
             +  R   N+++ K +   L GG
Sbjct  2810  SRLRSADNILSVKFSATKLSGG  2831


 Score = 139 bits (350),  Expect = 3e-31, Method: Compositional matrix adjust.
 Identities = 66/158 (42%), Positives = 102/158 (65%), Gaps = 0/158 (0%)

Query  213   YLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDY  272
             ++ L ++V +   D +  A+  +  ++VNAAN +LKHGGG+A A+++A+   +Q ESDDY
Sbjct  1192  HIVLNNDVTLVFGDAIAVARATEDCILVNAANTHLKHGGGIAAAIDRASGGLVQAESDDY  1251

Query  273   IATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLS  332
             +   GPL VG S +L GH LA   LHVVGP+    +DIQLLK  Y+ FN++ ++++PL+S
Sbjct  1252  VNFYGPLNVGDSTLLKGHGLATGILHVVGPDARANQDIQLLKRCYKAFNKYPLVVSPLIS  1311

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVS  370
             AGIF  +P  SL   +  V T  Y+ V  + +Y+ L +
Sbjct  1312  AGIFCVEPRVSLEYLLSVVHTKTYVVVNSEKVYNDLAA  1349


 Score = 50.1 bits (118),  Expect = 3e-04, Method: Compositional matrix adjust.
 Identities = 55/209 (26%), Positives = 94/209 (45%), Gaps = 10/209 (5%)

Query  2     PTKVTFGDDTVIEVQGYKSVNITFELDERIDKVL-NEKCSAYTVELGTEVNEFACVVADA  60
             P  V FG +   E+   +SV++ +++   +D +L   + + +TVE    V +F  VV D 
Sbjct  854   PKGVKFGGEQTKEITAVRSVSVDYDVHPVLDALLAGSELATFTVEKDLPVKDFVDVVKDE  913

Query  61    VIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE  120
             VI+ L  +       G DL++++    Y+++  G+   +S M  S  P +E EEE D + 
Sbjct  914   VIELLSKLLRGYNVDGFDLEDFADTPCYVYNAEGDLAWSSTMTFSVNPVEEVEEECDDDY  973

Query  121   EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQ  180
              E E  ++     ED+       + A   A+ P E+ + D L  +   +    D +E   
Sbjct  974   VEDEYLSEEMLVEEDEN-----SWAAAVEAVIPMEDVQLDTLVAEIDVSEPADDVAEQAS  1028

Query  181   TTTIQTIVEVQPQLEMELTPVVQTIEVNS  209
             T      VEV     +E + V    EV S
Sbjct  1029  TEE----VEVPSACVLEASQVANAAEVES  1053


>sp|P0C6T6|R1A_BCHK9 Replicase polyprotein 1a OS=Bat coronavirus 
HKU9 OX=694006 GN=1a PE=3 SV=1
Length=4248

 Score = 684 bits (1764),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 456/1449 (31%), Positives = 732/1449 (51%), Gaps = 106/1449 (7%)

Query  549   ILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDY-GARFYFY  607
             ++  VS +   M+   +E   L+PV ++  A +  ++R       +EG+    G  FY Y
Sbjct  1216  LVDVVSMSFSAMVNFGKEKGLLIPVVIDYPAFLKVLKR----FSPKEGLFSSNGYEFYGY  1271

Query  608   TSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVSSPDAVTA  667
             +    +  +   LN L   L+ +P G++ +G  L  +A  MR L VP TV V S  +V  
Sbjct  1272  SRDKPLHEVSKDLNSLGRPLIMIPFGFIVNGQTLAVSAVSMRGLTVPHTVVVPSESSVPL  1331

Query  668   YNGYLT---SSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIE----FLKRGDKSVYYT  720
             Y  Y     S   T  + F+  I L G+ +DW     +  +  +      KRG+  + + 
Sbjct  1332  YRAYFNGVFSGDTTAVQDFVVDILLNGA-RDWDVLQTTCTVDRKVYKTICKRGNTYLCF-  1389

Query  721   SNPTTFHLDGEVI-TFDNLKTLLSLREVRT------IKVFTTVDNINLHTQVVDMSMTYG  773
              +   + + G+V+  F  +    +  E +       IKV TTVD IN  T +V  + +Y 
Sbjct  1390  DDTNLYAITGDVVLKFATVSKARAYLETKLCAPEPLIKVLTTVDGINYSTVLVSTAQSYR  1449

Query  774   QQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAF-EYYHTTDPSFLGRYMSAL  832
              Q G  + DG D +   P  + EG   Y   N  +  V A  EYY   D + + R MS  
Sbjct  1450  AQIGTVFCDGHDWSNKNPMPTDEGTHLYKQDNFSSAEVTAIREYYGVDDSNIIARAMSIR  1509

Query  833   NHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANF  892
                + W Y  V+G   +   D+NCYL  A+  LQ I++ F+ P +  AY   + G     
Sbjct  1510  KTVQTWPYTVVDGRVLLAQRDSNCYLNVAISLLQDIDVSFSTPWVCRAYDALKGGNPLPM  1569

Query  893   CALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMY  952
               +++A    T G   D    +S +  H  + + +RV+  VC+ CG  Q    G +A  +
Sbjct  1570  AEVLIALGKATPGVSDDAHMVLSAVLNHGTV-TARRVMQTVCEHCGVSQMVFTGTDACTF  1628

Query  953   MGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELK-HGTFTCASEYTG  1011
              G++  +     V + C CG+ A +Y+ +Q+SP+++MS  P Q  L   G +  A  + G
Sbjct  1629  YGSVVLDDLYAPVSVVCQCGRPAIRYVSEQKSPWLLMSCTPTQVPLDTSGIWKTAIVFRG  1688

Query  1012  NYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVC  1071
                 GHY +  +   +   D     ++S+ K P TD+ Y   S+T+  K  TY LDGV  
Sbjct  1689  PVTAGHYMYAVNGTLISVYDANTRRRTSDLKLPATDILYGPTSFTSDSKVETYYLDGVKR  1748

Query  1072  TEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFV-CDNIKFADDLNQLTGYK  1130
             T IDP    Y K+ + YFT  PI++V   P    S+D F    C N + A+  N+     
Sbjct  1749  TTIDPDFSKYVKRGDYYFTTAPIEVVA-APKLVTSYDGFYLSSCQNPQLAESFNKAINAT  1807

Query  1131  KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTW  1190
             K    +L +T +P++ GDVVAI   +   +   G+  + KP+++           +PNTW
Sbjct  1808  KTGPMKL-LTMYPNVAGDVVAISDDNVV-AHPYGSLHMGKPVLF---------VTRPNTW  1856

Query  1191  C-IRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENP-TIQKDVLECNV  1248
               +  L ST  V T N++DVL              D  PV+ E  E P +++  +    +
Sbjct  1857  KKLVPLLSTVVVNTPNTYDVLAV------------DPLPVNNETSEEPISVKAPIPLYGL  1904

Query  1249  KTTEVVGDIILKPANNS-LKITEEVGHTDLMAAYVDN-SSLTIKKPNELSRVLGLKTLAT  1306
             K T V+      P N   L   +E   TDL   YV+      + K + LS+VLGL+   +
Sbjct  1905  KATMVLNGTTYVPGNKGHLLCLKEFTLTDLQTFYVEGVQPFVLLKASHLSKVLGLRV--S  1962

Query  1307  HGLAAVNSVPWDTIANYAKPFLNKVVSTTT--NIVTRCLNRV------------CTNYMP  1352
                  VN +    +  YA   L   V+T+    +VTR + +             C   + 
Sbjct  1963  DSSLHVNHLSKGVVYAYAATRLTTRVTTSLLGGLVTRSVRKTADFVRSTNPGSKCVGLLC  2022

Query  1353  YFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSP----NFSKL  1408
              F+ L ++     +     +K S    IA NT   V    L    NYL+S     ++S+L
Sbjct  2023  LFYQLFMRFWLLVKKP-PIVKVS--GIIAYNTGCGVTTCVL----NYLRSRCGNISWSRL  2075

Query  1409  INII-----IWFLL--LSVCLGSLIYSTAALGVLMSNLGMPSYCTGYRE--GYLNSTNVT  1459
             + ++     IWF+   L++C           GV +S    PS  T ++   G +   +  
Sbjct  2076  LKLLRYMLYIWFVWTCLTIC-----------GVWLSEPYAPSLVTRFKYFLGIVMPCDYV  2124

Query  1460  IATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRF  1519
             +           +C++G+DSLD YP+L   Q    S  ++ T   ++ E F AY+L+T  
Sbjct  2125  LVNETGTGWLHHLCMAGMDSLD-YPALRMQQHRYGS-PYNYTYILMLLEAFFAYLLYTPA  2182

Query  1520  FYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSY  1579
               ++G+ A++ L   Y  +  + NSWL+  +  ++++ P ++M+RMYI  A  +  +K +
Sbjct  2183  LPIVGILAVLHLIVLYLPIP-LGNSWLVVFLYYIIRLVPFTSMLRMYIVIAFLWLCYKGF  2241

Query  1580  VHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDT  1639
             +HV  GCN+  C+MCYK+N A R+EC+T+VNGV+R FYV ANGG  FC  HNWNCV+CDT
Sbjct  2242  LHVRYGCNNVACLMCYKKNVAKRIECSTVVNGVKRMFYVNANGGTHFCTKHNWNCVSCDT  2301

Query  1640  FCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHS  1699
             +   STFI  +VA DLS QFKRPI  TD++ Y V SV V+NG ++ YF+  GQ++YER  
Sbjct  2302  YTVDSTFICRQVALDLSAQFKRPIIHTDEAYYEVTSVEVRNGYVYCYFESDGQRSYERFP  2361

Query  1700  LSHFVNLDNLRANNTKGSLP-INVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQAL  1758
             +  F N+  L  +  KG+ P  NV+VFD  ++ EE++ K+A++YY+QL C+PILL+D+ +
Sbjct  2362  MDAFTNVSKLHYSELKGAAPAFNVLVFDATNRIEENAVKTAAIYYAQLACKPILLVDKRM  2421

Query  1759  VSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISA  1818
             V  VGD A +A  MF+AY   +   +++ M+K+K L +TA  +++  +++++VL  F+ +
Sbjct  2422  VGVVGDDATIARAMFEAYAQNYLLKYSIAMDKVKHLYSTALQQISSGMTVESVLKVFVGS  2481

Query  1819  ARQGFVD--SDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDC  1876
              R    D  SDV+T D+V C++L HQ   E T DS NN + TY K + ++  ++G  +  
Sbjct  2482  TRAEAKDLESDVDTNDLVSCIRLCHQEGWEWTTDSWNNLVPTYIKQDTLSTLEVGQFMTA  2541

Query  1877  SARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVV  1936
             +A+++NA +AK   + LIW   DF+ LSE +R+Q++ AA+K  L   +T ++ +  V  +
Sbjct  2542  NAKYVNANIAKGAAVNLIWRYADFIKLSESMRRQLKVAARKTGLNLLVTTSSLKADVPCM  2601

Query  1937  TTKIALKGG  1945
              T   + GG
Sbjct  2602  VTPFKIIGG  2610


 Score = 194 bits (493),  Expect = 4e-48, Method: Compositional matrix adjust.
 Identities = 134/397 (34%), Positives = 202/397 (51%), Gaps = 62/397 (16%)

Query  3     TKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADAVI  62
             +KVTFGD+ V  +    +VN ++++ E +D +L++  + + VE GT++ + ACVV  AV 
Sbjct  775   SKVTFGDEEVHTIPNTVTVNFSYDVCEGLDAILDKVMAPFQVEEGTKLEDLACVVQKAVY  834

Query  63    KTLQPV----SELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSF--YPPDEDEEEG  116
             + L  +       L P  I+L+++  +  +++ +  E  L   MY S     P +DE   
Sbjct  835   ERLSDLFSDCPAELRP--INLEDFLTSECFVYSKDYEKILMPEMYFSLEDAVPVDDEMVD  892

Query  117   DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
             D E+                              ++   + ++ WL D         +G+
Sbjct  893   DIED-----------------------------TVEQASDSDDQWLGD---------EGA  914

Query  177   EDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKP  236
             ED       TI +V     M  TP           GY K+ ++VYIK ADIV+EA+    
Sbjct  915   EDCD----NTIQDVDVATSMT-TP----------CGYTKIAEHVYIKCADIVQEARNYSY  959

Query  237   TVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKH-  295
              V+VNAANV L HGGGVAGALN+ATNNAMQ ES +YI  NG L+ GG  +LS H LA H 
Sbjct  960   AVLVNAANVNLHHGGGVAGALNRATNNAMQKESSEYIKANGSLQPGGHVLLSSHGLASHG  1019

Query  296   CLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNV  355
              LHVVGP+   G+D+ LL + Y  +   + +L PL+SAGIFG     SL   V  V    
Sbjct  1020  ILHVVGPDKRLGQDLALLDAVYAAYTGFDSVLTPLVSAGIFGFTVEESLCSLVKNVACTT  1079

Query  356   YLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEE  392
             Y+ V+D+ LY++ +++  ++   +   Q +  I   E
Sbjct  1080  YVVVYDRQLYERALATSFDVPGPQSSVQHVPAIDWAE  1116


>sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus 
HKU9 OX=694006 GN=rep PE=1 SV=1
Length=6930

 Score = 681 bits (1756),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 456/1449 (31%), Positives = 732/1449 (51%), Gaps = 106/1449 (7%)

Query  549   ILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDY-GARFYFY  607
             ++  VS +   M+   +E   L+PV ++  A +  ++R       +EG+    G  FY Y
Sbjct  1216  LVDVVSMSFSAMVNFGKEKGLLIPVVIDYPAFLKVLKR----FSPKEGLFSSNGYEFYGY  1271

Query  608   TSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVSSPDAVTA  667
             +    +  +   LN L   L+ +P G++ +G  L  +A  MR L VP TV V S  +V  
Sbjct  1272  SRDKPLHEVSKDLNSLGRPLIMIPFGFIVNGQTLAVSAVSMRGLTVPHTVVVPSESSVPL  1331

Query  668   YNGYLT---SSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIE----FLKRGDKSVYYT  720
             Y  Y     S   T  + F+  I L G+ +DW     +  +  +      KRG+  + + 
Sbjct  1332  YRAYFNGVFSGDTTAVQDFVVDILLNGA-RDWDVLQTTCTVDRKVYKTICKRGNTYLCF-  1389

Query  721   SNPTTFHLDGEVI-TFDNLKTLLSLREVRT------IKVFTTVDNINLHTQVVDMSMTYG  773
              +   + + G+V+  F  +    +  E +       IKV TTVD IN  T +V  + +Y 
Sbjct  1390  DDTNLYAITGDVVLKFATVSKARAYLETKLCAPEPLIKVLTTVDGINYSTVLVSTAQSYR  1449

Query  774   QQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAF-EYYHTTDPSFLGRYMSAL  832
              Q G  + DG D +   P  + EG   Y   N  +  V A  EYY   D + + R MS  
Sbjct  1450  AQIGTVFCDGHDWSNKNPMPTDEGTHLYKQDNFSSAEVTAIREYYGVDDSNIIARAMSIR  1509

Query  833   NHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANF  892
                + W Y  V+G   +   D+NCYL  A+  LQ I++ F+ P +  AY   + G     
Sbjct  1510  KTVQTWPYTVVDGRVLLAQRDSNCYLNVAISLLQDIDVSFSTPWVCRAYDALKGGNPLPM  1569

Query  893   CALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMY  952
               +++A    T G   D    +S +  H  + + +RV+  VC+ CG  Q    G +A  +
Sbjct  1570  AEVLIALGKATPGVSDDAHMVLSAVLNHGTV-TARRVMQTVCEHCGVSQMVFTGTDACTF  1628

Query  953   MGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELK-HGTFTCASEYTG  1011
              G++  +     V + C CG+ A +Y+ +Q+SP+++MS  P Q  L   G +  A  + G
Sbjct  1629  YGSVVLDDLYAPVSVVCQCGRPAIRYVSEQKSPWLLMSCTPTQVPLDTSGIWKTAIVFRG  1688

Query  1012  NYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVC  1071
                 GHY +  +   +   D     ++S+ K P TD+ Y   S+T+  K  TY LDGV  
Sbjct  1689  PVTAGHYMYAVNGTLISVYDANTRRRTSDLKLPATDILYGPTSFTSDSKVETYYLDGVKR  1748

Query  1072  TEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFV-CDNIKFADDLNQLTGYK  1130
             T IDP    Y K+ + YFT  PI++V   P    S+D F    C N + A+  N+     
Sbjct  1749  TTIDPDFSKYVKRGDYYFTTAPIEVVA-APKLVTSYDGFYLSSCQNPQLAESFNKAINAT  1807

Query  1131  KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTW  1190
             K    +L +T +P++ GDVVAI   +   +   G+  + KP+++           +PNTW
Sbjct  1808  KTGPMKL-LTMYPNVAGDVVAISDDNVV-AHPYGSLHMGKPVLF---------VTRPNTW  1856

Query  1191  C-IRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENP-TIQKDVLECNV  1248
               +  L ST  V T N++DVL              D  PV+ E  E P +++  +    +
Sbjct  1857  KKLVPLLSTVVVNTPNTYDVLAV------------DPLPVNNETSEEPISVKAPIPLYGL  1904

Query  1249  KTTEVVGDIILKPANNS-LKITEEVGHTDLMAAYVDN-SSLTIKKPNELSRVLGLKTLAT  1306
             K T V+      P N   L   +E   TDL   YV+      + K + LS+VLGL+   +
Sbjct  1905  KATMVLNGTTYVPGNKGHLLCLKEFTLTDLQTFYVEGVQPFVLLKASHLSKVLGLRV--S  1962

Query  1307  HGLAAVNSVPWDTIANYAKPFLNKVVSTTT--NIVTRCLNRV------------CTNYMP  1352
                  VN +    +  YA   L   V+T+    +VTR + +             C   + 
Sbjct  1963  DSSLHVNHLSKGVVYAYAATRLTTRVTTSLLGGLVTRSVRKTADFVRSTNPGSKCVGLLC  2022

Query  1353  YFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSP----NFSKL  1408
              F+ L ++     +     +K S    IA NT   V    L    NYL+S     ++S+L
Sbjct  2023  LFYQLFMRFWLLVKKP-PIVKVS--GIIAYNTGCGVTTCVL----NYLRSRCGNISWSRL  2075

Query  1409  INII-----IWFLL--LSVCLGSLIYSTAALGVLMSNLGMPSYCTGYRE--GYLNSTNVT  1459
             + ++     IWF+   L++C           GV +S    PS  T ++   G +   +  
Sbjct  2076  LKLLRYMLYIWFVWTCLTIC-----------GVWLSEPYAPSLVTRFKYFLGIVMPCDYV  2124

Query  1460  IATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRF  1519
             +           +C++G+DSLD YP+L   Q    S  ++ T   ++ E F AY+L+T  
Sbjct  2125  LVNETGTGWLHHLCMAGMDSLD-YPALRMQQHRYGS-PYNYTYILMLLEAFFAYLLYTPA  2182

Query  1520  FYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSY  1579
               ++G+ A++ L   Y  +  + NSWL+  +  ++++ P ++M+RMYI  A  +  +K +
Sbjct  2183  LPIVGILAVLHLIVLYLPIP-LGNSWLVVFLYYIIRLVPFTSMLRMYIVIAFLWLCYKGF  2241

Query  1580  VHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDT  1639
             +HV  GCN+  C+MCYK+N A R+EC+T+VNGV+R FYV ANGG  FC  HNWNCV+CDT
Sbjct  2242  LHVRYGCNNVACLMCYKKNVAKRIECSTVVNGVKRMFYVNANGGTHFCTKHNWNCVSCDT  2301

Query  1640  FCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHS  1699
             +   STFI  +VA DLS QFKRPI  TD++ Y V SV V+NG ++ YF+  GQ++YER  
Sbjct  2302  YTVDSTFICRQVALDLSAQFKRPIIHTDEAYYEVTSVEVRNGYVYCYFESDGQRSYERFP  2361

Query  1700  LSHFVNLDNLRANNTKGSLP-INVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQAL  1758
             +  F N+  L  +  KG+ P  NV+VFD  ++ EE++ K+A++YY+QL C+PILL+D+ +
Sbjct  2362  MDAFTNVSKLHYSELKGAAPAFNVLVFDATNRIEENAVKTAAIYYAQLACKPILLVDKRM  2421

Query  1759  VSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISA  1818
             V  VGD A +A  MF+AY   +   +++ M+K+K L +TA  +++  +++++VL  F+ +
Sbjct  2422  VGVVGDDATIARAMFEAYAQNYLLKYSIAMDKVKHLYSTALQQISSGMTVESVLKVFVGS  2481

Query  1819  ARQGFVD--SDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDC  1876
              R    D  SDV+T D+V C++L HQ   E T DS NN + TY K + ++  ++G  +  
Sbjct  2482  TRAEAKDLESDVDTNDLVSCIRLCHQEGWEWTTDSWNNLVPTYIKQDTLSTLEVGQFMTA  2541

Query  1877  SARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVV  1936
             +A+++NA +AK   + LIW   DF+ LSE +R+Q++ AA+K  L   +T ++ +  V  +
Sbjct  2542  NAKYVNANIAKGAAVNLIWRYADFIKLSESMRRQLKVAARKTGLNLLVTTSSLKADVPCM  2601

Query  1937  TTKIALKGG  1945
              T   + GG
Sbjct  2602  VTPFKIIGG  2610


 Score = 194 bits (492),  Expect = 7e-48, Method: Compositional matrix adjust.
 Identities = 134/397 (34%), Positives = 202/397 (51%), Gaps = 62/397 (16%)

Query  3     TKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADAVI  62
             +KVTFGD+ V  +    +VN ++++ E +D +L++  + + VE GT++ + ACVV  AV 
Sbjct  775   SKVTFGDEEVHTIPNTVTVNFSYDVCEGLDAILDKVMAPFQVEEGTKLEDLACVVQKAVY  834

Query  63    KTLQPV----SELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYP--PDEDEEEG  116
             + L  +       L P  I+L+++  +  +++ +  E  L   MY S     P +DE   
Sbjct  835   ERLSDLFSDCPAELRP--INLEDFLTSECFVYSKDYEKILMPEMYFSLEDAVPVDDEMVD  892

Query  117   DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
             D E+                              ++   + ++ WL D         +G+
Sbjct  893   DIED-----------------------------TVEQASDSDDQWLGD---------EGA  914

Query  177   EDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKP  236
             ED       TI +V     M  TP           GY K+ ++VYIK ADIV+EA+    
Sbjct  915   EDCD----NTIQDVDVATSMT-TP----------CGYTKIAEHVYIKCADIVQEARNYSY  959

Query  237   TVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKH-  295
              V+VNAANV L HGGGVAGALN+ATNNAMQ ES +YI  NG L+ GG  +LS H LA H 
Sbjct  960   AVLVNAANVNLHHGGGVAGALNRATNNAMQKESSEYIKANGSLQPGGHVLLSSHGLASHG  1019

Query  296   CLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNV  355
              LHVVGP+   G+D+ LL + Y  +   + +L PL+SAGIFG     SL   V  V    
Sbjct  1020  ILHVVGPDKRLGQDLALLDAVYAAYTGFDSVLTPLVSAGIFGFTVEESLCSLVKNVACTT  1079

Query  356   YLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEE  392
             Y+ V+D+ LY++ +++  ++   +   Q +  I   E
Sbjct  1080  YVVVYDRQLYERALATSFDVPGPQSSVQHVPAIDWAE  1116


>sp|K9N638|R1A_MERS1 Replicase polyprotein 1a OS=Middle East respiratory 
syndrome-related coronavirus (isolate United Kingdom/H123990006/2012) 
OX=1263720 GN=1a PE=1 SV=1
Length=4391

 Score = 678 bits (1750),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 489/1608 (30%), Positives = 783/1608 (49%), Gaps = 139/1608 (9%)

Query  441   INGNLHPDSATLVSDIDITFLKKDAPYIVGD-VVQEGVLTA-----VVIPTKKAGGTTEM  494
             I G ++  S   V      ++    P  VGD V+ +G   A     VV P  +A     +
Sbjct  1156  IAGAINAASKGAVQKESDEYILAKGPLQVGDSVLLQGHSLAKNILHVVGPDARAKQDVSL  1215

Query  495   LAK---ALRKVPTDNYITTYPGQGLNG--------YTVEEAKTVLKKCKSAFYILPSIIS  543
             L+K   A+   P    +T     G+ G        Y + EAKT +    ++  +  S+  
Sbjct  1216  LSKCYKAMNAYPL--VVTPLVSAGIFGVKPAVSFDYLIREAKTRVLVVVNSQDVYKSLTI  1273

Query  544   NEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDYGAR  603
              +  + L      LR  +  A++    + VC +  A    ++ K      +   VD G +
Sbjct  1274  VDIPQSLTFSYDGLRGAIRKAKDYGFTVFVCTDNSANTKVLRNKGVDYTKKFLTVD-GVQ  1332

Query  604   FYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVSSPD  663
             +Y YTSK T+  ++   N  +  +++MPLGYV+HGL+L +A   +R + VP    +++ +
Sbjct  1333  YYCYTSKDTLDDILQQANK-SVGIISMPLGYVSHGLDLIQAGSVVRRVNVPYVCLLANKE  1391

Query  664   AVTAYNGYLTSSSK--TPEEHFIETISLAGSYKDWSYSG-----QSTQLGIEFLKRGDKS  716
                     L S      P E FI+ +   G Y  W         Q  +L  + L   D++
Sbjct  1392  Q----EAILMSEDVKLNPSEDFIKHVRTNGGYNSWHLVEGELLVQDLRLN-KLLHWSDQT  1446

Query  717   VYYTSNPTTFHLDGEVITFDNLKTLLSLREVRT-----IKVFTTVDNINLHTQVVDMSMT  771
             + Y  +      +     F+ L    +  + RT     I+V  TVD +N  T V++   T
Sbjct  1447  ICYKDSVFYVVKNSTAFPFETLSACRAYLDSRTTQQLTIEVLVTVDGVNFRTVVLNNKNT  1506

Query  772   YGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAF-EYYHTTDPSFLGRYMS  830
             Y  Q G  + +GAD++   P     G + Y+  N      +A  E Y   DP+FL R+ S
Sbjct  1507  YRSQLGCVFFNGADISDTIPDEKQNGHSLYLADNLTADETKALKELYGPVDPTFLHRFYS  1566

Query  831   ALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQI-ELKFNPPALQDAYYRARAGEA  889
                   KWK    + + S+K +DNNCYL   ++TL  + ++KF  PALQ A+ + + G++
Sbjct  1567  LKAAVHKWKMVVCDKVRSLKLSDNNCYLNAVIMTLDLLKDIKFVIPALQHAFMKHKGGDS  1626

Query  890   ANFCALILAYCNKTVGELGDVRETMSYLFQHANLD-SCKRVLNVVCKTCGQQQTTLKGVE  948
              +F ALI+AY N T G   D    +  +   A L  S + V    C  CG +   L+G++
Sbjct  1627  TDFIALIMAYGNCTFGAPDDASRLLHTVLAKAELCCSARMVWREWCNVCGIKDVVLQGLK  1686

Query  949   AVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGT---FTC  1005
             A  Y+G  + E  +  +   C CG +  + +V+  +P++++S  P +  +   T   F  
Sbjct  1687  ACCYVGVQTVEDLRARMTYVCQCGGERHRQIVEHTTPWLLLSGTPNEKLVTTSTAPDFVA  1746

Query  1006  ASEYTG-NYQCGHYKHITSKETLYC-IDGALLTKSSEYKGPITDVFYKENSYTTTIKPVT  1063
              + + G     GHY H   K  L    D   ++K+S++K  +TDV +    Y++    V 
Sbjct  1747  FNVFQGIETAVGHYVHARLKGGLILKFDSGTVSKTSDWKCKVTDVLFPGQKYSSDCNVVR  1806

Query  1064  YKLDGVVCTEIDPKLDNYYKKDNSYFT-EQPIDLVPNQPYPNASFDNFKFVCDNIKFADD  1122
             Y LDG   TE+DP L  +Y KD  YFT E P+   P      + + N   V  + +   D
Sbjct  1807  YSLDGNFRTEVDPDLSAFYVKDGKYFTSEPPVTYSPATILAGSVYTNSCLVSSDGQPGGD  1866

Query  1123  -----LNQLTGY--KKPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWH  1175
                   N L G+   KP +++   +F P  +GDV+  ++  Y P +K GA    KPI+W 
Sbjct  1867  AISLSFNNLLGFDSSKPVTKKYTYSFLPKEDGDVLLAEFDTYDPIYKNGAMYKGKPILW-  1925

Query  1176  VNNATNKATY-----KPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVS  1230
                  NKA+Y     K N   +R ++   P+E  N F  L  E              PV 
Sbjct  1926  ----VNKASYDTNLNKFNRASLRQIFDVAPIELENKFTPLSVEST------------PVE  1969

Query  1231  EEVVENPTIQKD--VLECNVKTTEVVGDIILKPANNS-LKITEEVGHTDLMAAYVD-NSS  1286
                V+   +Q++  +++C       V D +   A++S   + E +   DL   YVD    
Sbjct  1970  PPTVDVVALQQEMTIVKCKGLNKPFVKDNVSFVADDSGTPVVEYLSKEDLHTLYVDPKYQ  2029

Query  1287  LTIKKPNELSRVLGLKTLATHGL---AAVNSVPWDTIANYAKPFLNK----VVSTTTNIV  1339
             + + K N LS +L L T+ +  +   AA  S+       +   F  K       T T  V
Sbjct  2030  VIVLKDNVLSSMLRLHTVESGDINVVAASGSLTRKVKLLFRASFYFKEFATRTFTATTAV  2089

Query  1340  TRCLNRV-------------CTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTT---IAKN  1383
               C+  V             C +++   F L L   + ++   + +K S   T   +  N
Sbjct  2090  GSCIKSVVRHLGVTKGILTGCFSFVKMLFMLPLAYFSDSKLGTTEVKVSALKTAGVVTGN  2149

Query  1384  TVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSN-----  1438
              VK      ++ S + L+  ++   + +++      V L S+ +      VL S+     
Sbjct  2150  VVKQCCTAAVDLSMDKLRRVDWKSTLRLLLMLCTTMVLLSSVYHLYVFNQVLSSDVMFED  2209

Query  1439  --------------LGMPSYCTGYREGYLNSTNVTIATYCTG-SIPCSVCLSGLDSLDTY  1483
                           LG+ S C G    Y  + +  + T+C   S  C+ CL   DS+  Y
Sbjct  2210  AQGLKKFYKEVRAYLGISSACDGLASAY-RANSFDVPTFCANRSAMCNWCLISQDSITHY  2268

Query  1484  PSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISN  1543
             P+L+ +Q  +S +  ++       E  LAY+L+T  F  L LA  +  FF+  ++     
Sbjct  2269  PALKMVQTHLSHYVLNIDWLWFAFETGLAYMLYTSAFNWLLLAGTLHYFFAQTSIFVDWR  2328

Query  1544  SW------LMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKR  1597
             S+        WL  ++    P++ +VRMY   A  + + K Y HV++GC  + C++CYKR
Sbjct  2329  SYNYAVSSAFWLFTHI----PMAGLVRMYNLLACLWLLRKFYQHVINGCKDTACLLCYKR  2384

Query  1598  NRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSL  1657
             NR TRVE +T+V G +R+FY+ ANGG  FC+ HNWNCV+CDT   G+TFI +EVA DL+ 
Sbjct  2385  NRLTRVEASTVVCGGKRTFYITANGGISFCRRHNWNCVDCDTAGVGNTFICEEVANDLTT  2444

Query  1658  QFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLR----ANN  1713
               +RPIN TD+S Y VDSVTVK   +   + + GQ  YER  L  F NLD L+       
Sbjct  2445  ALRRPINATDRSHYYVDSVTVKETVVQFNYRRDGQPFYERFPLCAFTNLDKLKFKEVCKT  2504

Query  1714  TKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMF  1773
             T G    N I++D   + +ES A+SA VYYSQ++C+ ILL+D +LV+ VGDS+E+A KMF
Sbjct  2505  TTGIPEYNFIIYDSSDRGQESLARSACVYYSQVLCKSILLVDSSLVTSVGDSSEIATKMF  2564

Query  1774  DAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAAR-QGFVDSDVETKD  1832
             D++VN+F S +NV  +KL+ L++TA   + +  +  +VL+TFI AAR    V+SDVET +
Sbjct  2565  DSFVNSFVSLYNVTRDKLEKLISTARDGVRRGDNFHSVLTTFIDAARGPAGVESDVETNE  2624

Query  1833  VVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIA  1892
             +V+ ++ +H+ DI++T +S NNY+ +Y K ++++  DLG+ IDC+A  +N  V ++ N A
Sbjct  2625  IVDSVQYAHKHDIQITNESYNNYVPSYVKPDSVSTSDLGSLIDCNAASVNQIVLRNSNGA  2684

Query  1893  LIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKI  1940
              IWN   +M LS+ L++QIR A +K NL F+LT +  R   N+++ + 
Sbjct  2685  CIWNAAAYMKLSDALKRQIRIACRKCNLAFRLTTSKLRANDNILSVRF  2732


 Score = 170 bits (431),  Expect = 7e-41, Method: Compositional matrix adjust.
 Identities = 131/418 (31%), Positives = 199/418 (48%), Gaps = 57/418 (14%)

Query  4     KVTFGDDTVIEVQGYKSVNITFELDERIDKVL-NEKCSAYTVELGTEVNEFACVVADAVI  62
             KV FG D V EV   +SV + + +   +D +L +     + V+    + EFA VV + V 
Sbjct  858   KVAFGGDQVHEVAAVRSVTVEYNIHAVLDTLLASSSLRTFVVDKSLSIEEFADVVKEQVS  917

Query  63    KTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE--  120
               L  +   +     DLD++  A  Y F+  G+   +S M  S +P + DEE  + E   
Sbjct  918   DLLVKLLRGMPIPDFDLDDFIDAPCYCFNAEGDASWSSTMIFSLHPVECDEECSEVEASD  977

Query  121   -EEFEPSTQYEYGTE----------DDY-----QGKPL-EFGATSAALQPEEEQEEDWLD  163
              EE E     E  TE          D++     +  PL E    + ++Q E +  E  ++
Sbjct  978   LEEGESECISETSTEQVDVSHEISDDEWAAAVDEAFPLDEAEDVTESVQEEAQPVEVPVE  1037

Query  164   DDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEM-------------ELTPVV-----QTI  205
             D +Q  +         +T  +   VEV PQ+               E+ PV      QT 
Sbjct  1038  DIAQVVIADTL----QETPVVSDTVEVPPQVVKLPSEPQTIQPEVKEVAPVYEADTEQTQ  1093

Query  206   EVNSFSGYLK---------------LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHG  250
              V      L+               +T+ V I   D ++ AK    +V+VNAAN +LKHG
Sbjct  1094  SVTVKPKRLRKKRNVDPLSNFEHKVITECVTIVLGDAIQVAKCYGESVLVNAANTHLKHG  1153

Query  251   GGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDI  310
             GG+AGA+N A+  A+Q ESD+YI   GPL+VG S +L GH+LAK+ LHVVGP+    +D+
Sbjct  1154  GGIAGAINAASKGAVQKESDEYILAKGPLQVGDSVLLQGHSLAKNILHVVGPDARAKQDV  1213

Query  311   QLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL  368
              LL   Y+  N + +++ PL+SAGIFG  P  S    +   +T V + V  +++Y  L
Sbjct  1214  SLLSKCYKAMNAYPLVVTPLVSAGIFGVKPAVSFDYLIREAKTRVLVVVNSQDVYKSL  1271


>sp|K9N7C7|R1AB_MERS1 Replicase polyprotein 1ab OS=Middle East 
respiratory syndrome-related coronavirus (isolate United Kingdom/H123990006/2012) 
OX=1263720 GN=rep PE=1 SV=1
Length=7078

 Score = 678 bits (1749),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 489/1608 (30%), Positives = 783/1608 (49%), Gaps = 139/1608 (9%)

Query  441   INGNLHPDSATLVSDIDITFLKKDAPYIVGD-VVQEGVLTA-----VVIPTKKAGGTTEM  494
             I G ++  S   V      ++    P  VGD V+ +G   A     VV P  +A     +
Sbjct  1156  IAGAINAASKGAVQKESDEYILAKGPLQVGDSVLLQGHSLAKNILHVVGPDARAKQDVSL  1215

Query  495   LAK---ALRKVPTDNYITTYPGQGLNG--------YTVEEAKTVLKKCKSAFYILPSIIS  543
             L+K   A+   P    +T     G+ G        Y + EAKT +    ++  +  S+  
Sbjct  1216  LSKCYKAMNAYPL--VVTPLVSAGIFGVKPAVSFDYLIREAKTRVLVVVNSQDVYKSLTI  1273

Query  544   NEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDYGAR  603
              +  + L      LR  +  A++    + VC +  A    ++ K      +   VD G +
Sbjct  1274  VDIPQSLTFSYDGLRGAIRKAKDYGFTVFVCTDNSANTKVLRNKGVDYTKKFLTVD-GVQ  1332

Query  604   FYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVSSPD  663
             +Y YTSK T+  ++   N  +  +++MPLGYV+HGL+L +A   +R + VP    +++ +
Sbjct  1333  YYCYTSKDTLDDILQQANK-SVGIISMPLGYVSHGLDLIQAGSVVRRVNVPYVCLLANKE  1391

Query  664   AVTAYNGYLTSSSK--TPEEHFIETISLAGSYKDWSYSG-----QSTQLGIEFLKRGDKS  716
                     L S      P E FI+ +   G Y  W         Q  +L  + L   D++
Sbjct  1392  Q----EAILMSEDVKLNPSEDFIKHVRTNGGYNSWHLVEGELLVQDLRLN-KLLHWSDQT  1446

Query  717   VYYTSNPTTFHLDGEVITFDNLKTLLSLREVRT-----IKVFTTVDNINLHTQVVDMSMT  771
             + Y  +      +     F+ L    +  + RT     I+V  TVD +N  T V++   T
Sbjct  1447  ICYKDSVFYVVKNSTAFPFETLSACRAYLDSRTTQQLTIEVLVTVDGVNFRTVVLNNKNT  1506

Query  772   YGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAF-EYYHTTDPSFLGRYMS  830
             Y  Q G  + +GAD++   P     G + Y+  N      +A  E Y   DP+FL R+ S
Sbjct  1507  YRSQLGCVFFNGADISDTIPDEKQNGHSLYLADNLTADETKALKELYGPVDPTFLHRFYS  1566

Query  831   ALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQI-ELKFNPPALQDAYYRARAGEA  889
                   KWK    + + S+K +DNNCYL   ++TL  + ++KF  PALQ A+ + + G++
Sbjct  1567  LKAAVHKWKMVVCDKVRSLKLSDNNCYLNAVIMTLDLLKDIKFVIPALQHAFMKHKGGDS  1626

Query  890   ANFCALILAYCNKTVGELGDVRETMSYLFQHANLD-SCKRVLNVVCKTCGQQQTTLKGVE  948
              +F ALI+AY N T G   D    +  +   A L  S + V    C  CG +   L+G++
Sbjct  1627  TDFIALIMAYGNCTFGAPDDASRLLHTVLAKAELCCSARMVWREWCNVCGIKDVVLQGLK  1686

Query  949   AVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGT---FTC  1005
             A  Y+G  + E  +  +   C CG +  + +V+  +P++++S  P +  +   T   F  
Sbjct  1687  ACCYVGVQTVEDLRARMTYVCQCGGERHRQIVEHTTPWLLLSGTPNEKLVTTSTAPDFVA  1746

Query  1006  ASEYTG-NYQCGHYKHITSKETLYC-IDGALLTKSSEYKGPITDVFYKENSYTTTIKPVT  1063
              + + G     GHY H   K  L    D   ++K+S++K  +TDV +    Y++    V 
Sbjct  1747  FNVFQGIETAVGHYVHARLKGGLILKFDSGTVSKTSDWKCKVTDVLFPGQKYSSDCNVVR  1806

Query  1064  YKLDGVVCTEIDPKLDNYYKKDNSYFT-EQPIDLVPNQPYPNASFDNFKFVCDNIKFADD  1122
             Y LDG   TE+DP L  +Y KD  YFT E P+   P      + + N   V  + +   D
Sbjct  1807  YSLDGNFRTEVDPDLSAFYVKDGKYFTSEPPVTYSPATILAGSVYTNSCLVSSDGQPGGD  1866

Query  1123  -----LNQLTGY--KKPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWH  1175
                   N L G+   KP +++   +F P  +GDV+  ++  Y P +K GA    KPI+W 
Sbjct  1867  AISLSFNNLLGFDSSKPVTKKYTYSFLPKEDGDVLLAEFDTYDPIYKNGAMYKGKPILW-  1925

Query  1176  VNNATNKATY-----KPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVS  1230
                  NKA+Y     K N   +R ++   P+E  N F  L  E              PV 
Sbjct  1926  ----VNKASYDTNLNKFNRASLRQIFDVAPIELENKFTPLSVEST------------PVE  1969

Query  1231  EEVVENPTIQKD--VLECNVKTTEVVGDIILKPANNS-LKITEEVGHTDLMAAYVD-NSS  1286
                V+   +Q++  +++C       V D +   A++S   + E +   DL   YVD    
Sbjct  1970  PPTVDVVALQQEMTIVKCKGLNKPFVKDNVSFVADDSGTPVVEYLSKEDLHTLYVDPKYQ  2029

Query  1287  LTIKKPNELSRVLGLKTLATHGL---AAVNSVPWDTIANYAKPFLNK----VVSTTTNIV  1339
             + + K N LS +L L T+ +  +   AA  S+       +   F  K       T T  V
Sbjct  2030  VIVLKDNVLSSMLRLHTVESGDINVVAASGSLTRKVKLLFRASFYFKEFATRTFTATTAV  2089

Query  1340  TRCLNRV-------------CTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTT---IAKN  1383
               C+  V             C +++   F L L   + ++   + +K S   T   +  N
Sbjct  2090  GSCIKSVVRHLGVTKGILTGCFSFVKMLFMLPLAYFSDSKLGTTEVKVSALKTAGVVTGN  2149

Query  1384  TVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSN-----  1438
              VK      ++ S + L+  ++   + +++      V L S+ +      VL S+     
Sbjct  2150  VVKQCCTAAVDLSMDKLRRVDWKSTLRLLLMLCTTMVLLSSVYHLYVFNQVLSSDVMFED  2209

Query  1439  --------------LGMPSYCTGYREGYLNSTNVTIATYCTG-SIPCSVCLSGLDSLDTY  1483
                           LG+ S C G    Y  + +  + T+C   S  C+ CL   DS+  Y
Sbjct  2210  AQGLKKFYKEVRAYLGISSACDGLASAY-RANSFDVPTFCANRSAMCNWCLISQDSITHY  2268

Query  1484  PSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISN  1543
             P+L+ +Q  +S +  ++       E  LAY+L+T  F  L LA  +  FF+  ++     
Sbjct  2269  PALKMVQTHLSHYVLNIDWLWFAFETGLAYMLYTSAFNWLLLAGTLHYFFAQTSIFVDWR  2328

Query  1544  SW------LMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKR  1597
             S+        WL  ++    P++ +VRMY   A  + + K Y HV++GC  + C++CYKR
Sbjct  2329  SYNYAVSSAFWLFTHI----PMAGLVRMYNLLACLWLLRKFYQHVINGCKDTACLLCYKR  2384

Query  1598  NRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSL  1657
             NR TRVE +T+V G +R+FY+ ANGG  FC+ HNWNCV+CDT   G+TFI +EVA DL+ 
Sbjct  2385  NRLTRVEASTVVCGGKRTFYITANGGISFCRRHNWNCVDCDTAGVGNTFICEEVANDLTT  2444

Query  1658  QFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLR----ANN  1713
               +RPIN TD+S Y VDSVTVK   +   + + GQ  YER  L  F NLD L+       
Sbjct  2445  ALRRPINATDRSHYYVDSVTVKETVVQFNYRRDGQPFYERFPLCAFTNLDKLKFKEVCKT  2504

Query  1714  TKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMF  1773
             T G    N I++D   + +ES A+SA VYYSQ++C+ ILL+D +LV+ VGDS+E+A KMF
Sbjct  2505  TTGIPEYNFIIYDSSDRGQESLARSACVYYSQVLCKSILLVDSSLVTSVGDSSEIATKMF  2564

Query  1774  DAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAAR-QGFVDSDVETKD  1832
             D++VN+F S +NV  +KL+ L++TA   + +  +  +VL+TFI AAR    V+SDVET +
Sbjct  2565  DSFVNSFVSLYNVTRDKLEKLISTARDGVRRGDNFHSVLTTFIDAARGPAGVESDVETNE  2624

Query  1833  VVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIA  1892
             +V+ ++ +H+ DI++T +S NNY+ +Y K ++++  DLG+ IDC+A  +N  V ++ N A
Sbjct  2625  IVDSVQYAHKHDIQITNESYNNYVPSYVKPDSVSTSDLGSLIDCNAASVNQIVLRNSNGA  2684

Query  1893  LIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKI  1940
              IWN   +M LS+ L++QIR A +K NL F+LT +  R   N+++ + 
Sbjct  2685  CIWNAAAYMKLSDALKRQIRIACRKCNLAFRLTTSKLRANDNILSVRF  2732


 Score = 170 bits (431),  Expect = 1e-40, Method: Compositional matrix adjust.
 Identities = 131/418 (31%), Positives = 199/418 (48%), Gaps = 57/418 (14%)

Query  4     KVTFGDDTVIEVQGYKSVNITFELDERIDKVL-NEKCSAYTVELGTEVNEFACVVADAVI  62
             KV FG D V EV   +SV + + +   +D +L +     + V+    + EFA VV + V 
Sbjct  858   KVAFGGDQVHEVAAVRSVTVEYNIHAVLDTLLASSSLRTFVVDKSLSIEEFADVVKEQVS  917

Query  63    KTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE--  120
               L  +   +     DLD++  A  Y F+  G+   +S M  S +P + DEE  + E   
Sbjct  918   DLLVKLLRGMPIPDFDLDDFIDAPCYCFNAEGDASWSSTMIFSLHPVECDEECSEVEASD  977

Query  121   -EEFEPSTQYEYGTE----------DDY-----QGKPL-EFGATSAALQPEEEQEEDWLD  163
              EE E     E  TE          D++     +  PL E    + ++Q E +  E  ++
Sbjct  978   LEEGESECISETSTEQVDVSHEISDDEWAAAVDEAFPLDEAEDVTESVQEEAQPVEVPVE  1037

Query  164   DDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEM-------------ELTPVV-----QTI  205
             D +Q  +         +T  +   VEV PQ+               E+ PV      QT 
Sbjct  1038  DIAQVVIADTL----QETPVVSDTVEVPPQVVKLPSEPQTIQPEVKEVAPVYEADTEQTQ  1093

Query  206   EVNSFSGYLK---------------LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHG  250
              V      L+               +T+ V I   D ++ AK    +V+VNAAN +LKHG
Sbjct  1094  SVTVKPKRLRKKRNVDPLSNFEHKVITECVTIVLGDAIQVAKCYGESVLVNAANTHLKHG  1153

Query  251   GGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDI  310
             GG+AGA+N A+  A+Q ESD+YI   GPL+VG S +L GH+LAK+ LHVVGP+    +D+
Sbjct  1154  GGIAGAINAASKGAVQKESDEYILAKGPLQVGDSVLLQGHSLAKNILHVVGPDARAKQDV  1213

Query  311   QLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL  368
              LL   Y+  N + +++ PL+SAGIFG  P  S    +   +T V + V  +++Y  L
Sbjct  1214  SLLSKCYKAMNAYPLVVTPLVSAGIFGVKPAVSFDYLIREAKTRVLVVVNSQDVYKSL  1271


>sp|P0C6U0|R1A_CVBM Replicase polyprotein 1a OS=Bovine coronavirus 
(strain Mebus) OX=11132 GN=1a PE=3 SV=1
Length=4383

 Score = 508 bits (1308),  Expect = 1e-145, Method: Compositional matrix adjust.
 Identities = 365/1233 (30%), Positives = 605/1233 (49%), Gaps = 84/1233 (7%)

Query  750   IKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTL  809
             + +  TVD +N   + V +  ++G+  G  + DG +VTK K   +++GK F+   N  + 
Sbjct  1565  VDILLTVDGVNFTNRFVPVGESFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSE  1624

Query  810   RVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIE  869
              ++A       D   L  Y + L +  KW+        + K A+NNC++  + L LQ + 
Sbjct  1625  DLKAVRSSFNFDQKELLAYYNMLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLN  1684

Query  870   LKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRV  929
             LKF     Q+A+   R+G  A F +L+LA      G+  D R+ +  +F   +L      
Sbjct  1685  LKFKIVQWQEAWLEFRSGRPARFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICD  1744

Query  930   LNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM  989
               + CK CG +Q    GV+AVM+ GTLS E  + G  + C+CGK+   + V+ + PF++ 
Sbjct  1745  FEIACK-CGVKQEQRTGVDAVMHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLIC  1802

Query  990   SAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVF  1049
             S  PA  +L  G  + A+ + G+ + GHY H+  +++    D + + K ++  G ++D  
Sbjct  1803  SNTPASVKLPKGVGS-ANIFKGD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCL  1860

Query  1050  YKENSYTTTIKPV--TYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNAS  1106
             Y +N    T K V  TY LD V   E  P L  YY     Y+T++ I          +  
Sbjct  1861  YLKN-LKQTFKSVLTTYYLDDVKKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGV  1919

Query  1107  FDNFKFVCDNIKFADDLNQLTGYKKPAS-RELKVTFFPDLNGDVVAIDYKHYTPSFKKGA  1165
             + NFK +   +   D LN   G+       E KVT +P   GDVV      Y   +++G 
Sbjct  1920  YTNFKLIGHTV--CDILNAKLGFDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGC  1977

Query  1166  KLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLAC  1223
                 KP++W  H   + N  TY          ++   +   N FDVLK +D     +++ 
Sbjct  1978  ITFGKPVIWLSHEQASLNSLTY----------FNRPLLVDENKFDVLKVDDVDDGGDISE  2027

Query  1224  EDLK-PVSEEVVENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYV  1282
              D K P    +++   ++K          +V   +I+    + +K  + +   D+   ++
Sbjct  2028  SDAKEPKEINIIKLSGVKKPF--------KVEDSVIVNDDTSEIKYVKSLSIVDVYDMWL  2079

Query  1283  DNSSLTIKKPNELSRVLGLKTL---ATHGLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNI  1338
                   ++  N LSR + + T+      G+  V S+P D +     KP  N VV    N 
Sbjct  2080  TGCRCVVRTANALSRAVNVPTIRKFIKFGMTLV-SIPIDLLNLREIKPVFN-VVKAVRNK  2137

Query  1339  VTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFN  1398
             ++ C N     ++ + F LL      +       K    T +A      +     + +F 
Sbjct  2138  ISACFN-----FIKWLFVLLFGWIKISADN----KVIYTTEVASKLTCKLVALAFKNAFL  2188

Query  1399  YLKSPNFSKLINII--IWFLLLSVCLGSLIYSTAAL---GVLMSNLG-----------MP  1442
               K    ++   II  I+ L  +    ++I+S   L   G L + +G           + 
Sbjct  2189  TFKWSVVARGACIIATIFLLWFNFIYANVIFSDFYLPKIGFLPTFVGKIAQWIKNTFSLV  2248

Query  1443  SYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTA  1502
             + C  Y    +   N     YC GSI C  CL+G D LD Y +++ +Q     ++ D  A
Sbjct  2249  TICDLYSIQDVGFKN----QYCNGSIACQFCLAGFDMLDNYKAIDVVQ-----YEADRRA  2299

Query  1503  F-------GLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNS--WLMWLIINL  1553
             F        +V E  ++Y L+T +FY L     +Q+  ++    F+ ++  W + L+++L
Sbjct  2300  FVDYTGVLKIVIELIVSYALYTAWFYPLFALISIQILTTWLPELFMLSTLHWSVRLLVSL  2359

Query  1554  VQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVR  1613
               M P    +R YI  ASF  ++  + HV  GC+ S C+ CYKRNR+ RV+C+TIV G+ 
Sbjct  2360  ANMLPAHVFMRFYIIIASFIKLFSLFRHVAYGCSKSGCLFCYKRNRSLRVKCSTIVGGMI  2419

Query  1614  RSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIV  1673
             R +   ANGG GFC  H WNC++CD++  G+TFI+ E A DLS + KRPI PTD + + V
Sbjct  2420  RYYDAMANGGTGFCSKHQWNCIDCDSYKPGNTFITVEAALDLSKELKRPIQPTDVAYHTV  2479

Query  1674  DSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEE  1733
               V      + L++D+ GQ+TY+  + S FV+  NL  +  K    ++V+V +  +  ++
Sbjct  2480  TDVKQVGCYMRLFYDRDGQRTYDDVNASLFVDYSNLLHSKVKSVPNMHVVVVENDA--DK  2537

Query  1734  SSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKT  1793
             ++  +A+V+Y+Q + +PIL++D+ L++       V   MFD YV+TF S F+V  + L  
Sbjct  2538  ANFLNAAVFYAQSLFRPILMVDKNLITTANTGTSVTETMFDVYVDTFLSMFDVDKKSLNA  2597

Query  1794  LVATAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSC  1852
             L+ATA + + +   +  VL TF+S AR+   +DSDV+TK + + +  +  + +E+T +SC
Sbjct  2598  LIATAHSSIKQGTQICKVLDTFLSCARKSCSIDSDVDTKCLADSVMSAVSAGLELTDESC  2657

Query  1853  NNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIR  1912
             NN + TY K +N+   DLG  I  SA+H+   VAK   ++ IW+V  F  LS   + +++
Sbjct  2658  NNLVPTYLKGDNIVAADLGVLIQNSAKHVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLK  2717

Query  1913  SAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              A  K  L  KLT       V+V+TT  +LKGG
Sbjct  2718  KACCKTGLKLKLTYNKQMANVSVLTTPFSLKGG  2750


 Score = 83.6 bits (205),  Expect = 2e-14, Method: Compositional matrix adjust.
 Identities = 51/153 (33%), Positives = 80/153 (52%), Gaps = 2/153 (1%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             +T NV     DI++ +K+VK  VVVN AN ++ HGGGVA A+  A       E+ D + +
Sbjct  1273  ITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVKS  1332

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNK--GEDIQLLKSAYENFNQHEVLLAPLLSA  333
              G    G   V +G  L K  L+VVGP+      +   LL+  Y++ N+++ ++  L+SA
Sbjct  1333  KGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLISA  1392

Query  334   GIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             GIF      SL   + T +  V L   ++  +D
Sbjct  1393  GIFSVPSDVSLTYLLGTAKKQVVLVSNNQEDFD  1425


 Score = 62.4 bits (150),  Expect = 6e-08, Method: Compositional matrix adjust.
 Identities = 32/98 (33%), Positives = 55/98 (56%), Gaps = 3/98 (3%)

Query  19   KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADAVIKTLQPVSELL---TPL  75
            K++ + +ELD+  + +LN  C  + V+   ++ EF  VV DA+ + L P  EL      +
Sbjct  871  KTIKVFYELDKDFNTILNTACGVFEVDDTVDMEEFYAVVIDAIEEKLSPCKELEGVGAKV  930

Query  76   GIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
               L +    + +LFDE+GE  LA  +YC+F  P++D+
Sbjct  931  SAFLQKLEDNSLFLFDEAGEEVLAPKLYCAFTAPEDDD  968


>sp|P0C6T9|R1A_CVBLU Replicase polyprotein 1a OS=Bovine coronavirus 
(strain 98TXSF-110-LUN) OX=233264 GN=1a PE=3 SV=1
Length=4383

 Score = 508 bits (1308),  Expect = 1e-145, Method: Compositional matrix adjust.
 Identities = 368/1232 (30%), Positives = 602/1232 (49%), Gaps = 82/1232 (7%)

Query  750   IKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTL  809
             + +  TVD +N   + V +   +G+  G  + DG +VTK K   +++GK F+   N  + 
Sbjct  1565  VDILLTVDGVNFTNRFVPVGENFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSE  1624

Query  810   RVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIE  869
              ++A       D   L  Y + L +  KW+        + K A+NNC++  + L LQ + 
Sbjct  1625  DLKAVRSSFNFDQKELLAYYNMLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLN  1684

Query  870   LKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRV  929
             LKF     Q+A+   R+G  A F +L+LA      G+  D R+ +  +F   +L      
Sbjct  1685  LKFKIVQWQEAWLEFRSGRPARFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICD  1744

Query  930   LNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM  989
               + CK CG +Q    GV+AVM+ GTLS E  + G  + C+CGK+   + V+ + PF++ 
Sbjct  1745  FEIACK-CGVKQEQRTGVDAVMHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLIC  1802

Query  990   SAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVF  1049
             S  PA  +L  G  + A+ + G+ + GHY H+  +++    D + + K ++  G ++D  
Sbjct  1803  SNTPASVKLPKGVGS-ANIFKGD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCL  1860

Query  1050  YKENSYTTTIKPV--TYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNAS  1106
             Y +N    T K V  TY LD V   E  P L  YY     Y+T++ I          +  
Sbjct  1861  YLKN-LKQTFKSVLTTYYLDDVKKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGV  1919

Query  1107  FDNFKFVCDNIKFADDLNQLTGYKKPAS-RELKVTFFPDLNGDVVAIDYKHYTPSFKKGA  1165
             + NFK +   I   D LN   G+       E KVT +P   GDVV      Y   +++G 
Sbjct  1920  YTNFKLIGHTI--CDILNAKLGFDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGC  1977

Query  1166  KLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLAC  1223
                 KP++W  H   + N  TY          ++   +   N FDVLK +D     +++ 
Sbjct  1978  ITFGKPVIWLSHEQASLNSLTY----------FNRPLLVDENKFDVLKVDDVDDGGDISE  2027

Query  1224  EDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVD  1283
              D K       E+  I    L    K  +V   +I+    + +K  + +   D+   ++ 
Sbjct  2028  SDAK-------ESKEINIIKLSGVKKPFKVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLT  2080

Query  1284  NSSLTIKKPNELSRVLGLKTL---ATHGLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNIV  1339
                  ++  N+LS  + + T+      G+  V S+P D +     KP  N VV    N +
Sbjct  2081  GCRYVVRTANDLSMAVNVPTIRKFIKFGMTLV-SIPIDLLNLREIKPVFN-VVKAVRNKI  2138

Query  1340  TRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNY  1399
             + C N     ++ + F LL      +       K    T +A      +     + +F  
Sbjct  2139  SACFN-----FIKWLFVLLFGWIKISADN----KVIYTTEVASKLTCKLVALAFKNAFLT  2189

Query  1400  LKSPNFSKLINII--IWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTN  1457
              K    ++   II  I+ L  +    ++I+S   L      +G      G    ++ ST 
Sbjct  2190  FKWSVVARGACIIATIFLLWFNFIYANVIFSDFYL----PKIGFLPTFVGKIAQWIKSTF  2245

Query  1458  --VTIA------------TYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAF  1503
               VTI              YC GSI C  CL+G D LD Y +++ +Q     ++ D  AF
Sbjct  2246  SLVTICDLYSIQDVGFKNQYCNGSIACQFCLAGFDMLDNYKAIDVVQ-----YEADRRAF  2300

Query  1504  -------GLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNS--WLMWLIINLV  1554
                     +V E  ++Y L+T +FY L     +Q+  ++    F+ ++  W + L+++L 
Sbjct  2301  VDYTGVLKIVIELIVSYALYTAWFYPLFALISIQILTTWLPELFMLSTLHWSVRLLVSLA  2360

Query  1555  QMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRR  1614
              M P    +R YI  ASF  ++  + HV  GC+   C+ CYKRNR+ RV+C+TIV G+ R
Sbjct  2361  NMLPAHVFMRFYIIIASFIKLFSLFRHVAYGCSKPGCLFCYKRNRSLRVKCSTIVGGMIR  2420

Query  1615  SFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVD  1674
              + V ANGG GFC  H WNC++CD++  G+TFI+ E A DLS + KRPI PTD + + V 
Sbjct  2421  YYDVMANGGTGFCSKHQWNCIDCDSYKPGNTFITVEAALDLSKELKRPIQPTDVAYHTVT  2480

Query  1675  SVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEES  1734
              V      + L++++ GQ+TY+  + S FV+  NL  +  KG   ++V+V +  +  +++
Sbjct  2481  DVKQVGCYMRLFYERDGQRTYDDVNASLFVDYSNLLHSKVKGVPNMHVVVVENDA--DKA  2538

Query  1735  SAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTL  1794
             +  +A+V+Y+Q + +PIL++D+ L++       V   MFD YV+TF S F+V  + L  L
Sbjct  2539  NFLNAAVFYAQSLFRPILMVDKNLITTANTGTSVTETMFDVYVDTFLSMFDVDKKSLNAL  2598

Query  1795  VATAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCN  1853
             +ATA + + +   +  VL TF+S AR+   +DSDV+TK + + +  +  + +E+T +SCN
Sbjct  2599  IATAHSSIKQGTQICKVLDTFLSCARKSCSIDSDVDTKCLADSVMSAVSAGLELTDESCN  2658

Query  1854  NYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRS  1913
             N + TY K +N+   DLG  I  SA+H+   VAK   ++ IW+V  F  LS   + +++ 
Sbjct  2659  NLVPTYLKGDNIVAADLGVLIQNSAKHVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLKK  2718

Query  1914  AAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             A  K  L  KLT       V+V+TT  +LKGG
Sbjct  2719  ACCKTGLKLKLTYNKQMANVSVLTTPFSLKGG  2750


 Score = 82.8 bits (203),  Expect = 4e-14, Method: Compositional matrix adjust.
 Identities = 51/153 (33%), Positives = 79/153 (52%), Gaps = 2/153 (1%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             +T NV     DI++ +K+VK  VVVN AN ++ HGGGVA A+  A       E+ D + +
Sbjct  1273  ITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVKS  1332

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNK--GEDIQLLKSAYENFNQHEVLLAPLLSA  333
              G    G   V +G  L K  L+VVGP+      +   LL+  Y++ N+++ ++  L+SA
Sbjct  1333  KGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLISA  1392

Query  334   GIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             GIF      SL   + T    V L   ++  +D
Sbjct  1393  GIFSVPSDVSLTYLLGTAEKQVVLVSNNQEDFD  1425


 Score = 65.9 bits (159),  Expect = 4e-09, Method: Compositional matrix adjust.
 Identities = 40/118 (34%), Positives = 66/118 (56%), Gaps = 5/118 (4%)

Query  1    APTKVTFGDD-TVIEVQGY-KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVA  58
            A  +VTF +  TV E+    K++ + +ELD+  + +LN  C  + V+   ++ EF  VV 
Sbjct  851  AGRRVTFKEQPTVNEIASTPKTIKVFYELDKDFNTILNTACGVFEVDDTVDMEEFYAVVV  910

Query  59   DAVIKTLQPVSELL---TPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
            DA+ + L P  EL      +   L +    + +LFDE+GE  LAS +YC+F  P++D+
Sbjct  911  DAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLFLFDEAGEEVLASKLYCAFTAPEDDD  968


>sp|P0C6T8|R1A_CVBEN Replicase polyprotein 1a OS=Bovine coronavirus 
(strain 98TXSF-110-ENT) OX=233262 GN=1a PE=3 SV=1
Length=4383

 Score = 507 bits (1306),  Expect = 2e-145, Method: Compositional matrix adjust.
 Identities = 368/1232 (30%), Positives = 603/1232 (49%), Gaps = 82/1232 (7%)

Query  750   IKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTL  809
             + +  TVD +N   + V +  ++G+  G  + DG +VTK K   +++GK F+   N  + 
Sbjct  1565  VDILLTVDGVNFTNRFVPVGESFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSE  1624

Query  810   RVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIE  869
              ++A       D   L  Y + L +  KW+        + K A+NNC++  + L LQ + 
Sbjct  1625  DLKAVRSSFNFDQKELLAYYNMLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLN  1684

Query  870   LKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRV  929
             LKF     Q+A+   R+G  A F +L+LA      G+  D R+ +  +F   +L      
Sbjct  1685  LKFKIVQWQEAWLEFRSGRPARFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICD  1744

Query  930   LNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM  989
               + CK CG +Q    GV+AVM+ GTLS E  + G  + C+CGK+   + V+ + PF++ 
Sbjct  1745  FEIACK-CGVKQEQRTGVDAVMHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLIC  1802

Query  990   SAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVF  1049
             S  PA  +L  G  + A+ + G+ + GHY H+  +++    D + + K ++  G ++D  
Sbjct  1803  SNTPASVKLPKGVGS-ANIFKGD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCL  1860

Query  1050  YKENSYTTTIKPV--TYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNAS  1106
             Y +N    T K V  TY LD V   E +P L  YY     Y+T++ I          +  
Sbjct  1861  YLKN-LKQTFKSVLTTYYLDDVKKIEYNPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGV  1919

Query  1107  FDNFKFVCDNIKFADDLNQLTGYKKPAS-RELKVTFFPDLNGDVVAIDYKHYTPSFKKGA  1165
             + NFK +   I   D LN   G+       E KVT +P   GDVV      Y   +++G 
Sbjct  1920  YTNFKLIGHTI--CDILNAKLGFDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGC  1977

Query  1166  KLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLAC  1223
                 KP++W  H   + N  TY          ++   +   N FDVLK +D     +++ 
Sbjct  1978  ITFGKPVIWLSHEQASLNSLTY----------FNRPLLVDENKFDVLKVDDVDDGGDISE  2027

Query  1224  EDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVD  1283
              D K       E+  I    L    K  +V   +I+    + +K  + +   D+   ++ 
Sbjct  2028  SDAK-------ESKEINIIKLSGVKKPFKVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLT  2080

Query  1284  NSSLTIKKPNELSRVLGLKTL---ATHGLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNIV  1339
                  ++  N LS  + + T+      G+  V S+P D +     KP  N VV    N +
Sbjct  2081  GCRYVVRTANALSMAVNVPTIRKFIKFGMTLV-SIPIDLLNLREIKPVFN-VVKAVRNKI  2138

Query  1340  TRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNY  1399
             + C N     ++ + F LL      +       K    T +A      +     + +F  
Sbjct  2139  SACFN-----FIKWLFVLLFGWIKISADN----KVIYTTEVASKLTCKLVALAFKNAFLT  2189

Query  1400  LKSPNFSKLINII--IWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTN  1457
              K    ++   II  I+ L  +    ++I+S   L      +G      G    ++ ST 
Sbjct  2190  FKWSVVARGACIIATIFLLWFNFIYANVIFSDFYL----PKIGFLPTFVGKIAQWIKSTF  2245

Query  1458  --VTIA------------TYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAF  1503
               VTI              YC GSI C  CL+G D LD Y +++ +Q     ++ D  AF
Sbjct  2246  SLVTICDLYSIQDVGFKNQYCNGSIACQFCLAGFDMLDNYKAIDVVQ-----YEADRRAF  2300

Query  1504  -------GLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNS--WLMWLIINLV  1554
                     +V E  ++Y L+T +FY L     +Q+  ++    F+ ++  W + L+++L 
Sbjct  2301  VDYTGVLKIVIELIVSYALYTAWFYPLFALISIQILTTWLPELFMLSTLHWSVRLLVSLA  2360

Query  1555  QMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRR  1614
              M P    +R YI  ASF  ++  + HV  GC+   C+ CYKRNR+ RV+C+TIV G+ R
Sbjct  2361  NMLPAHVFMRFYIIIASFIKLFILFRHVAYGCSKPGCLFCYKRNRSLRVKCSTIVGGMIR  2420

Query  1615  SFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVD  1674
              + V ANGG GFC  H WNC++CD++  G+TFI+ E A DLS + KRPI PTD + + V 
Sbjct  2421  YYDVMANGGTGFCSKHQWNCIDCDSYKPGNTFITVEAALDLSKELKRPIQPTDVAYHTVT  2480

Query  1675  SVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEES  1734
              V      + L++++ GQ+TY+  + S FV+  NL  +  KG   ++V+V +  +  +++
Sbjct  2481  DVKQVGCYMRLFYERDGQRTYDDVNASLFVDYSNLLHSKVKGVPNMHVVVVENDA--DKA  2538

Query  1735  SAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTL  1794
             +  +A+V+Y+Q + +PIL++D+ L++       V   MFD YV+TF S F+V  + L  L
Sbjct  2539  NFLNAAVFYAQSLFRPILMVDKNLITTANTGTSVTETMFDVYVDTFLSMFDVDKKSLNAL  2598

Query  1795  VATAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCN  1853
             +ATA + + +   +  VL TF+S AR+   +DSDV+TK + + +  +  + +E+T +SCN
Sbjct  2599  IATAHSSIKQGTQICKVLDTFLSCARKSCSIDSDVDTKCLADSVMSAVSAGLELTDESCN  2658

Query  1854  NYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRS  1913
             N + TY K +N+   DLG  I  SA+H+   VAK   ++ IW+V  F  LS   + +++ 
Sbjct  2659  NLVPTYLKGDNIVAADLGVLIQNSAKHVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLKK  2718

Query  1914  AAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             A  K  L  KLT       V+V+TT  +LKGG
Sbjct  2719  ACCKTGLKLKLTYNKQMANVSVLTTPFSLKGG  2750


 Score = 82.8 bits (203),  Expect = 4e-14, Method: Compositional matrix adjust.
 Identities = 51/153 (33%), Positives = 79/153 (52%), Gaps = 2/153 (1%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             +T NV     DI++ +K+VK  VVVN AN ++ HGGGVA A+  A       E+ D + +
Sbjct  1273  ITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVKS  1332

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNK--GEDIQLLKSAYENFNQHEVLLAPLLSA  333
              G    G   V +G  L K  L+VVGP+      +   LL+  Y++ N+++ ++  L+SA
Sbjct  1333  KGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLISA  1392

Query  334   GIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             GIF      SL   + T    V L   ++  +D
Sbjct  1393  GIFSVPSDVSLTYLLGTAEKQVVLVSNNQEDFD  1425


 Score = 65.5 bits (158),  Expect = 6e-09, Method: Compositional matrix adjust.
 Identities = 40/118 (34%), Positives = 66/118 (56%), Gaps = 5/118 (4%)

Query  1    APTKVTFGDD-TVIEVQGY-KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVA  58
            A  +VTF +  TV E+    K++ + +ELD+  + +LN  C  + V+   ++ EF  VV 
Sbjct  851  AGRRVTFKEQPTVNEIASTPKTIKVFYELDKDFNTILNTACGVFEVDDTVDMEEFYAVVI  910

Query  59   DAVIKTLQPVSELL---TPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
            DA+ + L P  EL      +   L +    + +LFDE+GE  LAS +YC+F  P++D+
Sbjct  911  DAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLFLFDEAGEEVLASKLYCAFTAPEDDD  968


>sp|P0C6W9|R1AB_CVBM Replicase polyprotein 1ab OS=Bovine coronavirus 
(strain Mebus) OX=11132 GN=rep PE=3 SV=1
Length=7094

 Score = 508 bits (1307),  Expect = 2e-145, Method: Compositional matrix adjust.
 Identities = 365/1233 (30%), Positives = 605/1233 (49%), Gaps = 84/1233 (7%)

Query  750   IKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTL  809
             + +  TVD +N   + V +  ++G+  G  + DG +VTK K   +++GK F+   N  + 
Sbjct  1565  VDILLTVDGVNFTNRFVPVGESFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSE  1624

Query  810   RVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIE  869
              ++A       D   L  Y + L +  KW+        + K A+NNC++  + L LQ + 
Sbjct  1625  DLKAVRSSFNFDQKELLAYYNMLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLN  1684

Query  870   LKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRV  929
             LKF     Q+A+   R+G  A F +L+LA      G+  D R+ +  +F   +L      
Sbjct  1685  LKFKIVQWQEAWLEFRSGRPARFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICD  1744

Query  930   LNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM  989
               + CK CG +Q    GV+AVM+ GTLS E  + G  + C+CGK+   + V+ + PF++ 
Sbjct  1745  FEIACK-CGVKQEQRTGVDAVMHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLIC  1802

Query  990   SAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVF  1049
             S  PA  +L  G  + A+ + G+ + GHY H+  +++    D + + K ++  G ++D  
Sbjct  1803  SNTPASVKLPKGVGS-ANIFKGD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCL  1860

Query  1050  YKENSYTTTIKPV--TYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNAS  1106
             Y +N    T K V  TY LD V   E  P L  YY     Y+T++ I          +  
Sbjct  1861  YLKN-LKQTFKSVLTTYYLDDVKKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGV  1919

Query  1107  FDNFKFVCDNIKFADDLNQLTGYKKPAS-RELKVTFFPDLNGDVVAIDYKHYTPSFKKGA  1165
             + NFK +   +   D LN   G+       E KVT +P   GDVV      Y   +++G 
Sbjct  1920  YTNFKLIGHTV--CDILNAKLGFDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGC  1977

Query  1166  KLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLAC  1223
                 KP++W  H   + N  TY          ++   +   N FDVLK +D     +++ 
Sbjct  1978  ITFGKPVIWLSHEQASLNSLTY----------FNRPLLVDENKFDVLKVDDVDDGGDISE  2027

Query  1224  EDLK-PVSEEVVENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYV  1282
              D K P    +++   ++K          +V   +I+    + +K  + +   D+   ++
Sbjct  2028  SDAKEPKEINIIKLSGVKKPF--------KVEDSVIVNDDTSEIKYVKSLSIVDVYDMWL  2079

Query  1283  DNSSLTIKKPNELSRVLGLKTLATH---GLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNI  1338
                   ++  N LSR + + T+      G+  V S+P D +     KP  N VV    N 
Sbjct  2080  TGCRCVVRTANALSRAVNVPTIRKFIKFGMTLV-SIPIDLLNLREIKPVFN-VVKAVRNK  2137

Query  1339  VTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFN  1398
             ++ C N     ++ + F LL      +       K    T +A      +     + +F 
Sbjct  2138  ISACFN-----FIKWLFVLLFGWIKISADN----KVIYTTEVASKLTCKLVALAFKNAFL  2188

Query  1399  YLKSPNFSKLINII--IWFLLLSVCLGSLIYSTAAL---GVLMSNLG-----------MP  1442
               K    ++   II  I+ L  +    ++I+S   L   G L + +G           + 
Sbjct  2189  TFKWSVVARGACIIATIFLLWFNFIYANVIFSDFYLPKIGFLPTFVGKIAQWIKNTFSLV  2248

Query  1443  SYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTA  1502
             + C  Y    +   N     YC GSI C  CL+G D LD Y +++ +Q     ++ D  A
Sbjct  2249  TICDLYSIQDVGFKN----QYCNGSIACQFCLAGFDMLDNYKAIDVVQ-----YEADRRA  2299

Query  1503  F-------GLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNS--WLMWLIINL  1553
             F        +V E  ++Y L+T +FY L     +Q+  ++    F+ ++  W + L+++L
Sbjct  2300  FVDYTGVLKIVIELIVSYALYTAWFYPLFALISIQILTTWLPELFMLSTLHWSVRLLVSL  2359

Query  1554  VQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVR  1613
               M P    +R YI  ASF  ++  + HV  GC+ S C+ CYKRNR+ RV+C+TIV G+ 
Sbjct  2360  ANMLPAHVFMRFYIIIASFIKLFSLFRHVAYGCSKSGCLFCYKRNRSLRVKCSTIVGGMI  2419

Query  1614  RSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIV  1673
             R +   ANGG GFC  H WNC++CD++  G+TFI+ E A DLS + KRPI PTD + + V
Sbjct  2420  RYYDAMANGGTGFCSKHQWNCIDCDSYKPGNTFITVEAALDLSKELKRPIQPTDVAYHTV  2479

Query  1674  DSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEE  1733
               V      + L++D+ GQ+TY+  + S FV+  NL  +  K    ++V+V +  +  ++
Sbjct  2480  TDVKQVGCYMRLFYDRDGQRTYDDVNASLFVDYSNLLHSKVKSVPNMHVVVVENDA--DK  2537

Query  1734  SSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKT  1793
             ++  +A+V+Y+Q + +PIL++D+ L++       V   MFD YV+TF S F+V  + L  
Sbjct  2538  ANFLNAAVFYAQSLFRPILMVDKNLITTANTGTSVTETMFDVYVDTFLSMFDVDKKSLNA  2597

Query  1794  LVATAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSC  1852
             L+ATA + + +   +  VL TF+S AR+   +DSDV+TK + + +  +  + +E+T +SC
Sbjct  2598  LIATAHSSIKQGTQICKVLDTFLSCARKSCSIDSDVDTKCLADSVMSAVSAGLELTDESC  2657

Query  1853  NNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIR  1912
             NN + TY K +N+   DLG  I  SA+H+   VAK   ++ IW+V  F  LS   + +++
Sbjct  2658  NNLVPTYLKGDNIVAADLGVLIQNSAKHVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLK  2717

Query  1913  SAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              A  K  L  KLT       V+V+TT  +LKGG
Sbjct  2718  KACCKTGLKLKLTYNKQMANVSVLTTPFSLKGG  2750


 Score = 83.6 bits (205),  Expect = 2e-14, Method: Compositional matrix adjust.
 Identities = 51/153 (33%), Positives = 80/153 (52%), Gaps = 2/153 (1%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             +T NV     DI++ +K+VK  VVVN AN ++ HGGGVA A+  A       E+ D + +
Sbjct  1273  ITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVKS  1332

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNK--GEDIQLLKSAYENFNQHEVLLAPLLSA  333
              G    G   V +G  L K  L+VVGP+      +   LL+  Y++ N+++ ++  L+SA
Sbjct  1333  KGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLISA  1392

Query  334   GIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             GIF      SL   + T +  V L   ++  +D
Sbjct  1393  GIFSVPSDVSLTYLLGTAKKQVVLVSNNQEDFD  1425


 Score = 62.4 bits (150),  Expect = 6e-08, Method: Compositional matrix adjust.
 Identities = 32/98 (33%), Positives = 55/98 (56%), Gaps = 3/98 (3%)

Query  19   KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADAVIKTLQPVSELL---TPL  75
            K++ + +ELD+  + +LN  C  + V+   ++ EF  VV DA+ + L P  EL      +
Sbjct  871  KTIKVFYELDKDFNTILNTACGVFEVDDTVDMEEFYAVVIDAIEEKLSPCKELEGVGAKV  930

Query  76   GIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
               L +    + +LFDE+GE  LA  +YC+F  P++D+
Sbjct  931  SAFLQKLEDNSLFLFDEAGEEVLAPKLYCAFTAPEDDD  968


>sp|P0C6W8|R1AB_CVBLU Replicase polyprotein 1ab OS=Bovine coronavirus 
(strain 98TXSF-110-LUN) OX=233264 GN=rep PE=3 SV=1
Length=7094

 Score = 506 bits (1304),  Expect = 5e-145, Method: Compositional matrix adjust.
 Identities = 368/1232 (30%), Positives = 602/1232 (49%), Gaps = 82/1232 (7%)

Query  750   IKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTL  809
             + +  TVD +N   + V +   +G+  G  + DG +VTK K   +++GK F+   N  + 
Sbjct  1565  VDILLTVDGVNFTNRFVPVGENFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSE  1624

Query  810   RVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIE  869
              ++A       D   L  Y + L +  KW+        + K A+NNC++  + L LQ + 
Sbjct  1625  DLKAVRSSFNFDQKELLAYYNMLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLN  1684

Query  870   LKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRV  929
             LKF     Q+A+   R+G  A F +L+LA      G+  D R+ +  +F   +L      
Sbjct  1685  LKFKIVQWQEAWLEFRSGRPARFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICD  1744

Query  930   LNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM  989
               + CK CG +Q    GV+AVM+ GTLS E  + G  + C+CGK+   + V+ + PF++ 
Sbjct  1745  FEIACK-CGVKQEQRTGVDAVMHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLIC  1802

Query  990   SAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVF  1049
             S  PA  +L  G  + A+ + G+ + GHY H+  +++    D + + K ++  G ++D  
Sbjct  1803  SNTPASVKLPKGVGS-ANIFKGD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCL  1860

Query  1050  YKENSYTTTIKPV--TYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNAS  1106
             Y +N    T K V  TY LD V   E  P L  YY     Y+T++ I          +  
Sbjct  1861  YLKN-LKQTFKSVLTTYYLDDVKKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGV  1919

Query  1107  FDNFKFVCDNIKFADDLNQLTGYKKPAS-RELKVTFFPDLNGDVVAIDYKHYTPSFKKGA  1165
             + NFK +   I   D LN   G+       E KVT +P   GDVV      Y   +++G 
Sbjct  1920  YTNFKLIGHTI--CDILNAKLGFDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGC  1977

Query  1166  KLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLAC  1223
                 KP++W  H   + N  TY          ++   +   N FDVLK +D     +++ 
Sbjct  1978  ITFGKPVIWLSHEQASLNSLTY----------FNRPLLVDENKFDVLKVDDVDDGGDISE  2027

Query  1224  EDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVD  1283
              D K       E+  I    L    K  +V   +I+    + +K  + +   D+   ++ 
Sbjct  2028  SDAK-------ESKEINIIKLSGVKKPFKVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLT  2080

Query  1284  NSSLTIKKPNELSRVLGLKTLATH---GLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNIV  1339
                  ++  N+LS  + + T+      G+  V S+P D +     KP  N VV    N +
Sbjct  2081  GCRYVVRTANDLSMAVNVPTIRKFIKFGMTLV-SIPIDLLNLREIKPVFN-VVKAVRNKI  2138

Query  1340  TRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNY  1399
             + C N     ++ + F LL      +       K    T +A      +     + +F  
Sbjct  2139  SACFN-----FIKWLFVLLFGWIKISADN----KVIYTTEVASKLTCKLVALAFKNAFLT  2189

Query  1400  LKSPNFSKLINII--IWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTN  1457
              K    ++   II  I+ L  +    ++I+S   L      +G      G    ++ ST 
Sbjct  2190  FKWSVVARGACIIATIFLLWFNFIYANVIFSDFYL----PKIGFLPTFVGKIAQWIKSTF  2245

Query  1458  --VTIA------------TYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAF  1503
               VTI              YC GSI C  CL+G D LD Y +++ +Q     ++ D  AF
Sbjct  2246  SLVTICDLYSIQDVGFKNQYCNGSIACQFCLAGFDMLDNYKAIDVVQ-----YEADRRAF  2300

Query  1504  -------GLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNS--WLMWLIINLV  1554
                     +V E  ++Y L+T +FY L     +Q+  ++    F+ ++  W + L+++L 
Sbjct  2301  VDYTGVLKIVIELIVSYALYTAWFYPLFALISIQILTTWLPELFMLSTLHWSVRLLVSLA  2360

Query  1555  QMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRR  1614
              M P    +R YI  ASF  ++  + HV  GC+   C+ CYKRNR+ RV+C+TIV G+ R
Sbjct  2361  NMLPAHVFMRFYIIIASFIKLFSLFRHVAYGCSKPGCLFCYKRNRSLRVKCSTIVGGMIR  2420

Query  1615  SFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVD  1674
              + V ANGG GFC  H WNC++CD++  G+TFI+ E A DLS + KRPI PTD + + V 
Sbjct  2421  YYDVMANGGTGFCSKHQWNCIDCDSYKPGNTFITVEAALDLSKELKRPIQPTDVAYHTVT  2480

Query  1675  SVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEES  1734
              V      + L++++ GQ+TY+  + S FV+  NL  +  KG   ++V+V +  +  +++
Sbjct  2481  DVKQVGCYMRLFYERDGQRTYDDVNASLFVDYSNLLHSKVKGVPNMHVVVVENDA--DKA  2538

Query  1735  SAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTL  1794
             +  +A+V+Y+Q + +PIL++D+ L++       V   MFD YV+TF S F+V  + L  L
Sbjct  2539  NFLNAAVFYAQSLFRPILMVDKNLITTANTGTSVTETMFDVYVDTFLSMFDVDKKSLNAL  2598

Query  1795  VATAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCN  1853
             +ATA + + +   +  VL TF+S AR+   +DSDV+TK + + +  +  + +E+T +SCN
Sbjct  2599  IATAHSSIKQGTQICKVLDTFLSCARKSCSIDSDVDTKCLADSVMSAVSAGLELTDESCN  2658

Query  1854  NYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRS  1913
             N + TY K +N+   DLG  I  SA+H+   VAK   ++ IW+V  F  LS   + +++ 
Sbjct  2659  NLVPTYLKGDNIVAADLGVLIQNSAKHVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLKK  2718

Query  1914  AAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             A  K  L  KLT       V+V+TT  +LKGG
Sbjct  2719  ACCKTGLKLKLTYNKQMANVSVLTTPFSLKGG  2750


 Score = 82.4 bits (202),  Expect = 5e-14, Method: Compositional matrix adjust.
 Identities = 51/153 (33%), Positives = 79/153 (52%), Gaps = 2/153 (1%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             +T NV     DI++ +K+VK  VVVN AN ++ HGGGVA A+  A       E+ D + +
Sbjct  1273  ITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVKS  1332

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNK--GEDIQLLKSAYENFNQHEVLLAPLLSA  333
              G    G   V +G  L K  L+VVGP+      +   LL+  Y++ N+++ ++  L+SA
Sbjct  1333  KGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLISA  1392

Query  334   GIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             GIF      SL   + T    V L   ++  +D
Sbjct  1393  GIFSVPSDVSLTYLLGTAEKQVVLVSNNQEDFD  1425


 Score = 65.9 bits (159),  Expect = 4e-09, Method: Compositional matrix adjust.
 Identities = 40/118 (34%), Positives = 66/118 (56%), Gaps = 5/118 (4%)

Query  1    APTKVTFGDD-TVIEVQGY-KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVA  58
            A  +VTF +  TV E+    K++ + +ELD+  + +LN  C  + V+   ++ EF  VV 
Sbjct  851  AGRRVTFKEQPTVNEIASTPKTIKVFYELDKDFNTILNTACGVFEVDDTVDMEEFYAVVV  910

Query  59   DAVIKTLQPVSELL---TPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
            DA+ + L P  EL      +   L +    + +LFDE+GE  LAS +YC+F  P++D+
Sbjct  911  DAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLFLFDEAGEEVLASKLYCAFTAPEDDD  968


>sp|P0C6U1|R1A_CVBQ Replicase polyprotein 1a OS=Bovine coronavirus 
(strain Quebec) OX=11133 GN=1a PE=3 SV=1
Length=4383

 Score = 506 bits (1303),  Expect = 6e-145, Method: Compositional matrix adjust.
 Identities = 364/1233 (30%), Positives = 605/1233 (49%), Gaps = 84/1233 (7%)

Query  750   IKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTL  809
             + +  TVD +N   + V +  ++G+  G  + DG +VTK K   +++GK F+   N  + 
Sbjct  1565  VDILLTVDGVNFTNRFVPVGESFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSE  1624

Query  810   RVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIE  869
              ++A       D   L  Y + L +  KW+        + K A+NNC++  + L LQ + 
Sbjct  1625  DLKAVRSSFNFDQKELLAYYNMLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLN  1684

Query  870   LKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRV  929
             LKF     Q+A+   R+G  A F +L+LA      G+  D R+ +  +F   +L      
Sbjct  1685  LKFKIVQWQEAWLEFRSGRPARFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICD  1744

Query  930   LNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM  989
               + CK CG +Q    GV+AVM+ GTLS E  + G  + C+CGK+   + V+ + PF++ 
Sbjct  1745  FEIACK-CGVKQEQRTGVDAVMHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLIC  1802

Query  990   SAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVF  1049
             S  PA  +L  G  + A+ + G+ + GHY H+  +++    D + + K ++  G ++D  
Sbjct  1803  SNTPASVKLPKGVGS-ANIFKGD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCL  1860

Query  1050  YKENSYTTTIKPV--TYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNAS  1106
             Y +N    T K V  TY LD V   E  P L  YY     Y+T++ I          +  
Sbjct  1861  YLKN-LKQTFKSVLTTYYLDDVKKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGV  1919

Query  1107  FDNFKFVCDNIKFADDLNQLTGYKKPAS-RELKVTFFPDLNGDVVAIDYKHYTPSFKKGA  1165
             + NFK +   +   D LN   G+       E KVT +P   GDVV      Y   +++G 
Sbjct  1920  YTNFKLIGHTV--CDILNAKLGFDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGC  1977

Query  1166  KLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLAC  1223
                 KP++W  H   + N  TY          ++   +   N FDVLK +D     +++ 
Sbjct  1978  ITFGKPVIWLSHEQASLNSLTY----------FNRPLLVDENKFDVLKVDDVDDGGDISE  2027

Query  1224  EDLK-PVSEEVVENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYV  1282
              D K P    +++   ++K          +V   +I+    + +K  + +   D+   ++
Sbjct  2028  SDAKEPKEINIIKLSGVKKPF--------KVEDSVIVNDDTSEIKYVKSLSIVDVYDMWL  2079

Query  1283  DNSSLTIKKPNELSRVLGLKTL---ATHGLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNI  1338
                   ++  N LSR + + T+      G+  V S+P D +     KP  N VV    N 
Sbjct  2080  TGCRCVVRTANALSRAVNVPTIRKFIKFGMTLV-SIPIDLLNLREIKPVFN-VVKAVRNK  2137

Query  1339  VTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFN  1398
             ++ C N     ++ + F LL      +       K    T +A      +     + +F 
Sbjct  2138  ISACFN-----FIKWLFVLLFGWIKISADN----KVIYTTEVASKLTCKLVALAFKNAFL  2188

Query  1399  YLKSPNFSKLINII--IWFLLLSVCLGSLIYSTAAL---GVLMSNLG-----------MP  1442
               K    ++   II  I+ L  +    ++I+S   L   G L + +G           + 
Sbjct  2189  TFKWSVVARGACIIATIFLLWFNFIYANVIFSDFYLPKIGFLPTFVGKIVQWIKNTFSLV  2248

Query  1443  SYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTA  1502
             + C  Y    +   N     YC GSI C  CL+G D LD Y +++ +Q     ++ D  A
Sbjct  2249  TICDLYSIQDVGFKN----QYCNGSIACQFCLAGFDMLDNYKAIDVVQ-----YEADRRA  2299

Query  1503  F-------GLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNS--WLMWLIINL  1553
             F        +V E  ++Y L+T +FY L     +Q+  ++     + ++  W + L+++L
Sbjct  2300  FVDYTGVLKIVIELIVSYALYTAWFYPLFALISIQILTTWLPELLMLSTLHWSVRLLVSL  2359

Query  1554  VQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVR  1613
               M P    +R YI  ASF  ++  + HV  GC+ S C+ CYKRNR+ RV+C+TIV G+ 
Sbjct  2360  ANMLPAHVFMRFYIIIASFIKLFSLFRHVAYGCSKSGCLFCYKRNRSLRVKCSTIVGGMI  2419

Query  1614  RSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIV  1673
             R + V ANGG GFC  H WNC++CD++  G+TFI+ E A DLS + KRPI PTD + + V
Sbjct  2420  RYYDVMANGGTGFCSKHQWNCIDCDSYKPGNTFITVEAALDLSKELKRPIQPTDVAYHTV  2479

Query  1674  DSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEE  1733
               V      + L++D+ GQ+TY+  + S FV+  NL  +  K    ++V+V +  +  ++
Sbjct  2480  TDVKQVGCYMRLFYDRDGQRTYDDVNASLFVDYSNLLHSKVKSVPNMHVVVVENDA--DK  2537

Query  1734  SSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKT  1793
             ++  +A+V+Y+Q + +PIL++D+ L++       V   MFD YV+TF S F+V  + L  
Sbjct  2538  ANFLNAAVFYAQSLFRPILMVDKILITTANTGTSVTETMFDVYVDTFLSMFDVDKKSLNA  2597

Query  1794  LVATAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSC  1852
             L+ATA + + +   +  VL TF+S AR+   +DSDV+TK + + +  +  + +E+T +SC
Sbjct  2598  LIATAHSSIKQGTQICKVLDTFLSCARKSCSIDSDVDTKCLADSVMSAVSAGLELTDESC  2657

Query  1853  NNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIR  1912
             NN + TY K +N+   DLG  I  SA+H+   VAK   ++ IW+V  F  LS   + +++
Sbjct  2658  NNLVPTYLKGDNIVAADLGVLIQNSAKHVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLK  2717

Query  1913  SAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              A  K  L  +LT       V+V+TT  +LKGG
Sbjct  2718  KACCKTGLKLELTYNKQMANVSVLTTPFSLKGG  2750


 Score = 84.0 bits (206),  Expect = 2e-14, Method: Compositional matrix adjust.
 Identities = 51/153 (33%), Positives = 80/153 (52%), Gaps = 2/153 (1%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             +T NV     DI++ +K+VK  VVVN AN ++ HGGGVA A+  A       E+ D + +
Sbjct  1273  ITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVKS  1332

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNK--GEDIQLLKSAYENFNQHEVLLAPLLSA  333
              G    G   V +G  L K  L+VVGP+      +   LL+  Y++ N+++ ++  L+SA
Sbjct  1333  KGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLISA  1392

Query  334   GIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             GIF      SL   + T +  V L   ++  +D
Sbjct  1393  GIFSVPSDVSLTYLLGTAKKQVVLVSNNQEDFD  1425


 Score = 61.6 bits (148),  Expect = 8e-08, Method: Compositional matrix adjust.
 Identities = 32/98 (33%), Positives = 55/98 (56%), Gaps = 3/98 (3%)

Query  19   KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADAVIKTLQPVSELL---TPL  75
            K++ + +ELD+  + +LN  C  + V+   ++ EF  VV DA+ + L P  EL      +
Sbjct  871  KTIKVFYELDKDFNTILNTACGEFEVDDTVDMEEFYAVVIDAIEEKLSPCKELEGVGAKV  930

Query  76   GIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
               L +    + +LFDE+GE  LA  +YC+F  P++D+
Sbjct  931  SAFLQKLEDNSLFLFDEAGEEVLAPKLYCAFTAPEDDD  968


>sp|P0C6W7|R1AB_CVBEN Replicase polyprotein 1ab OS=Bovine coronavirus 
(strain 98TXSF-110-ENT) OX=233262 GN=rep PE=3 SV=1
Length=7094

 Score = 506 bits (1303),  Expect = 6e-145, Method: Compositional matrix adjust.
 Identities = 368/1232 (30%), Positives = 603/1232 (49%), Gaps = 82/1232 (7%)

Query  750   IKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTL  809
             + +  TVD +N   + V +  ++G+  G  + DG +VTK K   +++GK F+   N  + 
Sbjct  1565  VDILLTVDGVNFTNRFVPVGESFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSE  1624

Query  810   RVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIE  869
              ++A       D   L  Y + L +  KW+        + K A+NNC++  + L LQ + 
Sbjct  1625  DLKAVRSSFNFDQKELLAYYNMLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLN  1684

Query  870   LKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRV  929
             LKF     Q+A+   R+G  A F +L+LA      G+  D R+ +  +F   +L      
Sbjct  1685  LKFKIVQWQEAWLEFRSGRPARFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICD  1744

Query  930   LNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM  989
               + CK CG +Q    GV+AVM+ GTLS E  + G  + C+CGK+   + V+ + PF++ 
Sbjct  1745  FEIACK-CGVKQEQRTGVDAVMHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLIC  1802

Query  990   SAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVF  1049
             S  PA  +L  G  + A+ + G+ + GHY H+  +++    D + + K ++  G ++D  
Sbjct  1803  SNTPASVKLPKGVGS-ANIFKGD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCL  1860

Query  1050  YKENSYTTTIKPV--TYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNAS  1106
             Y +N    T K V  TY LD V   E +P L  YY     Y+T++ I          +  
Sbjct  1861  YLKN-LKQTFKSVLTTYYLDDVKKIEYNPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGV  1919

Query  1107  FDNFKFVCDNIKFADDLNQLTGYKKPAS-RELKVTFFPDLNGDVVAIDYKHYTPSFKKGA  1165
             + NFK +   I   D LN   G+       E KVT +P   GDVV      Y   +++G 
Sbjct  1920  YTNFKLIGHTI--CDILNAKLGFDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGC  1977

Query  1166  KLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLAC  1223
                 KP++W  H   + N  TY          ++   +   N FDVLK +D     +++ 
Sbjct  1978  ITFGKPVIWLSHEQASLNSLTY----------FNRPLLVDENKFDVLKVDDVDDGGDISE  2027

Query  1224  EDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVD  1283
              D K       E+  I    L    K  +V   +I+    + +K  + +   D+   ++ 
Sbjct  2028  SDAK-------ESKEINIIKLSGVKKPFKVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLT  2080

Query  1284  NSSLTIKKPNELSRVLGLKTLATH---GLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNIV  1339
                  ++  N LS  + + T+      G+  V S+P D +     KP  N VV    N +
Sbjct  2081  GCRYVVRTANALSMAVNVPTIRKFIKFGMTLV-SIPIDLLNLREIKPVFN-VVKAVRNKI  2138

Query  1340  TRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNY  1399
             + C N     ++ + F LL      +       K    T +A      +     + +F  
Sbjct  2139  SACFN-----FIKWLFVLLFGWIKISADN----KVIYTTEVASKLTCKLVALAFKNAFLT  2189

Query  1400  LKSPNFSKLINII--IWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTN  1457
              K    ++   II  I+ L  +    ++I+S   L      +G      G    ++ ST 
Sbjct  2190  FKWSVVARGACIIATIFLLWFNFIYANVIFSDFYL----PKIGFLPTFVGKIAQWIKSTF  2245

Query  1458  --VTIA------------TYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAF  1503
               VTI              YC GSI C  CL+G D LD Y +++ +Q     ++ D  AF
Sbjct  2246  SLVTICDLYSIQDVGFKNQYCNGSIACQFCLAGFDMLDNYKAIDVVQ-----YEADRRAF  2300

Query  1504  -------GLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNS--WLMWLIINLV  1554
                     +V E  ++Y L+T +FY L     +Q+  ++    F+ ++  W + L+++L 
Sbjct  2301  VDYTGVLKIVIELIVSYALYTAWFYPLFALISIQILTTWLPELFMLSTLHWSVRLLVSLA  2360

Query  1555  QMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRR  1614
              M P    +R YI  ASF  ++  + HV  GC+   C+ CYKRNR+ RV+C+TIV G+ R
Sbjct  2361  NMLPAHVFMRFYIIIASFIKLFILFRHVAYGCSKPGCLFCYKRNRSLRVKCSTIVGGMIR  2420

Query  1615  SFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVD  1674
              + V ANGG GFC  H WNC++CD++  G+TFI+ E A DLS + KRPI PTD + + V 
Sbjct  2421  YYDVMANGGTGFCSKHQWNCIDCDSYKPGNTFITVEAALDLSKELKRPIQPTDVAYHTVT  2480

Query  1675  SVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEES  1734
              V      + L++++ GQ+TY+  + S FV+  NL  +  KG   ++V+V +  +  +++
Sbjct  2481  DVKQVGCYMRLFYERDGQRTYDDVNASLFVDYSNLLHSKVKGVPNMHVVVVENDA--DKA  2538

Query  1735  SAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTL  1794
             +  +A+V+Y+Q + +PIL++D+ L++       V   MFD YV+TF S F+V  + L  L
Sbjct  2539  NFLNAAVFYAQSLFRPILMVDKNLITTANTGTSVTETMFDVYVDTFLSMFDVDKKSLNAL  2598

Query  1795  VATAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCN  1853
             +ATA + + +   +  VL TF+S AR+   +DSDV+TK + + +  +  + +E+T +SCN
Sbjct  2599  IATAHSSIKQGTQICKVLDTFLSCARKSCSIDSDVDTKCLADSVMSAVSAGLELTDESCN  2658

Query  1854  NYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRS  1913
             N + TY K +N+   DLG  I  SA+H+   VAK   ++ IW+V  F  LS   + +++ 
Sbjct  2659  NLVPTYLKGDNIVAADLGVLIQNSAKHVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLKK  2718

Query  1914  AAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             A  K  L  KLT       V+V+TT  +LKGG
Sbjct  2719  ACCKTGLKLKLTYNKQMANVSVLTTPFSLKGG  2750


 Score = 82.4 bits (202),  Expect = 5e-14, Method: Compositional matrix adjust.
 Identities = 51/153 (33%), Positives = 79/153 (52%), Gaps = 2/153 (1%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             +T NV     DI++ +K+VK  VVVN AN ++ HGGGVA A+  A       E+ D + +
Sbjct  1273  ITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVKS  1332

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNK--GEDIQLLKSAYENFNQHEVLLAPLLSA  333
              G    G   V +G  L K  L+VVGP+      +   LL+  Y++ N+++ ++  L+SA
Sbjct  1333  KGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLISA  1392

Query  334   GIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             GIF      SL   + T    V L   ++  +D
Sbjct  1393  GIFSVPSDVSLTYLLGTAEKQVVLVSNNQEDFD  1425


 Score = 65.5 bits (158),  Expect = 6e-09, Method: Compositional matrix adjust.
 Identities = 40/118 (34%), Positives = 66/118 (56%), Gaps = 5/118 (4%)

Query  1    APTKVTFGDD-TVIEVQGY-KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVA  58
            A  +VTF +  TV E+    K++ + +ELD+  + +LN  C  + V+   ++ EF  VV 
Sbjct  851  AGRRVTFKEQPTVNEIASTPKTIKVFYELDKDFNTILNTACGVFEVDDTVDMEEFYAVVI  910

Query  59   DAVIKTLQPVSELL---TPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
            DA+ + L P  EL      +   L +    + +LFDE+GE  LAS +YC+F  P++D+
Sbjct  911  DAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLFLFDEAGEEVLASKLYCAFTAPEDDD  968


>sp|P0C6X0|R1AB_CVBQ Replicase polyprotein 1ab OS=Bovine coronavirus 
(strain Quebec) OX=11133 GN=rep PE=3 SV=1
Length=7059

 Score = 505 bits (1301),  Expect = 1e-144, Method: Compositional matrix adjust.
 Identities = 364/1233 (30%), Positives = 605/1233 (49%), Gaps = 84/1233 (7%)

Query  750   IKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTL  809
             + +  TVD +N   + V +  ++G+  G  + DG +VTK K   +++GK F+   N  + 
Sbjct  1565  VDILLTVDGVNFTNRFVPVGESFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSE  1624

Query  810   RVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIE  869
              ++A       D   L  Y + L +  KW+        + K A+NNC++  + L LQ + 
Sbjct  1625  DLKAVRSSFNFDQKELLAYYNMLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLN  1684

Query  870   LKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRV  929
             LKF     Q+A+   R+G  A F +L+LA      G+  D R+ +  +F   +L      
Sbjct  1685  LKFKIVQWQEAWLEFRSGRPARFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICD  1744

Query  930   LNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM  989
               + CK CG +Q    GV+AVM+ GTLS E  + G  + C+CGK+   + V+ + PF++ 
Sbjct  1745  FEIACK-CGVKQEQRTGVDAVMHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLIC  1802

Query  990   SAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVF  1049
             S  PA  +L  G  + A+ + G+ + GHY H+  +++    D + + K ++  G ++D  
Sbjct  1803  SNTPASVKLPKGVGS-ANIFKGD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCL  1860

Query  1050  YKENSYTTTIKPV--TYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNAS  1106
             Y +N    T K V  TY LD V   E  P L  YY     Y+T++ I          +  
Sbjct  1861  YLKN-LKQTFKSVLTTYYLDDVKKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGV  1919

Query  1107  FDNFKFVCDNIKFADDLNQLTGYKKPAS-RELKVTFFPDLNGDVVAIDYKHYTPSFKKGA  1165
             + NFK +   +   D LN   G+       E KVT +P   GDVV      Y   +++G 
Sbjct  1920  YTNFKLIGHTV--CDILNAKLGFDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGC  1977

Query  1166  KLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLAC  1223
                 KP++W  H   + N  TY          ++   +   N FDVLK +D     +++ 
Sbjct  1978  ITFGKPVIWLSHEQASLNSLTY----------FNRPLLVDENKFDVLKVDDVDDGGDISE  2027

Query  1224  EDLK-PVSEEVVENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYV  1282
              D K P    +++   ++K          +V   +I+    + +K  + +   D+   ++
Sbjct  2028  SDAKEPKEINIIKLSGVKKPF--------KVEDSVIVNDDTSEIKYVKSLSIVDVYDMWL  2079

Query  1283  DNSSLTIKKPNELSRVLGLKTLATH---GLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNI  1338
                   ++  N LSR + + T+      G+  V S+P D +     KP  N VV    N 
Sbjct  2080  TGCRCVVRTANALSRAVNVPTIRKFIKFGMTLV-SIPIDLLNLREIKPVFN-VVKAVRNK  2137

Query  1339  VTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFN  1398
             ++ C N     ++ + F LL      +       K    T +A      +     + +F 
Sbjct  2138  ISACFN-----FIKWLFVLLFGWIKISADN----KVIYTTEVASKLTCKLVALAFKNAFL  2188

Query  1399  YLKSPNFSKLINII--IWFLLLSVCLGSLIYSTAAL---GVLMSNLG-----------MP  1442
               K    ++   II  I+ L  +    ++I+S   L   G L + +G           + 
Sbjct  2189  TFKWSVVARGACIIATIFLLWFNFIYANVIFSDFYLPKIGFLPTFVGKIVQWIKNTFSLV  2248

Query  1443  SYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTA  1502
             + C  Y    +   N     YC GSI C  CL+G D LD Y +++ +Q     ++ D  A
Sbjct  2249  TICDLYSIQDVGFKN----QYCNGSIACQFCLAGFDMLDNYKAIDVVQ-----YEADRRA  2299

Query  1503  F-------GLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNS--WLMWLIINL  1553
             F        +V E  ++Y L+T +FY L     +Q+  ++     + ++  W + L+++L
Sbjct  2300  FVDYTGVLKIVIELIVSYALYTAWFYPLFALISIQILTTWLPELLMLSTLHWSVRLLVSL  2359

Query  1554  VQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVR  1613
               M P    +R YI  ASF  ++  + HV  GC+ S C+ CYKRNR+ RV+C+TIV G+ 
Sbjct  2360  ANMLPAHVFMRFYIIIASFIKLFSLFRHVAYGCSKSGCLFCYKRNRSLRVKCSTIVGGMI  2419

Query  1614  RSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIV  1673
             R + V ANGG GFC  H WNC++CD++  G+TFI+ E A DLS + KRPI PTD + + V
Sbjct  2420  RYYDVMANGGTGFCSKHQWNCIDCDSYKPGNTFITVEAALDLSKELKRPIQPTDVAYHTV  2479

Query  1674  DSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEE  1733
               V      + L++D+ GQ+TY+  + S FV+  NL  +  K    ++V+V +  +  ++
Sbjct  2480  TDVKQVGCYMRLFYDRDGQRTYDDVNASLFVDYSNLLHSKVKSVPNMHVVVVENDA--DK  2537

Query  1734  SSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKT  1793
             ++  +A+V+Y+Q + +PIL++D+ L++       V   MFD YV+TF S F+V  + L  
Sbjct  2538  ANFLNAAVFYAQSLFRPILMVDKILITTANTGTSVTETMFDVYVDTFLSMFDVDKKSLNA  2597

Query  1794  LVATAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSC  1852
             L+ATA + + +   +  VL TF+S AR+   +DSDV+TK + + +  +  + +E+T +SC
Sbjct  2598  LIATAHSSIKQGTQICKVLDTFLSCARKSCSIDSDVDTKCLADSVMSAVSAGLELTDESC  2657

Query  1853  NNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIR  1912
             NN + TY K +N+   DLG  I  SA+H+   VAK   ++ IW+V  F  LS   + +++
Sbjct  2658  NNLVPTYLKGDNIVAADLGVLIQNSAKHVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLK  2717

Query  1913  SAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              A  K  L  +LT       V+V+TT  +LKGG
Sbjct  2718  KACCKTGLKLELTYNKQMANVSVLTTPFSLKGG  2750


 Score = 83.6 bits (205),  Expect = 2e-14, Method: Compositional matrix adjust.
 Identities = 51/153 (33%), Positives = 80/153 (52%), Gaps = 2/153 (1%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             +T NV     DI++ +K+VK  VVVN AN ++ HGGGVA A+  A       E+ D + +
Sbjct  1273  ITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVKS  1332

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNK--GEDIQLLKSAYENFNQHEVLLAPLLSA  333
              G    G   V +G  L K  L+VVGP+      +   LL+  Y++ N+++ ++  L+SA
Sbjct  1333  KGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLISA  1392

Query  334   GIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             GIF      SL   + T +  V L   ++  +D
Sbjct  1393  GIFSVPSDVSLTYLLGTAKKQVVLVSNNQEDFD  1425


 Score = 62.0 bits (149),  Expect = 8e-08, Method: Compositional matrix adjust.
 Identities = 32/98 (33%), Positives = 55/98 (56%), Gaps = 3/98 (3%)

Query  19   KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADAVIKTLQPVSELL---TPL  75
            K++ + +ELD+  + +LN  C  + V+   ++ EF  VV DA+ + L P  EL      +
Sbjct  871  KTIKVFYELDKDFNTILNTACGEFEVDDTVDMEEFYAVVIDAIEEKLSPCKELEGVGAKV  930

Query  76   GIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
               L +    + +LFDE+GE  LA  +YC+F  P++D+
Sbjct  931  SAFLQKLEDNSLFLFDEAGEEVLAPKLYCAFTAPEDDD  968


>sp|P0C6U7|R1A_CVHOC Replicase polyprotein 1a OS=Human coronavirus 
OC43 OX=31631 GN=1a PE=1 SV=1
Length=4383

 Score = 500 bits (1288),  Expect = 3e-143, Method: Compositional matrix adjust.
 Identities = 363/1233 (29%), Positives = 599/1233 (49%), Gaps = 84/1233 (7%)

Query  750   IKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTL  809
             + +  TVD +N   + V +  ++G+  G  + DG +VTK K   +++GK F+   N  + 
Sbjct  1565  VDILLTVDGVNFTNRFVPVGESFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSE  1624

Query  810   RVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIE  869
              ++A       D   L  Y + L +  KW+        + K A+NNC++  + L LQ + 
Sbjct  1625  DLKAVRSSFNFDQKELLAYYNMLVNCFKWQVVVNGKYFTFKQANNNCFVNVSCLMLQSLH  1684

Query  870   LKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRV  929
             L F     Q+A+   R+G  A F AL+LA      G+  D R+ +  +F   +L      
Sbjct  1685  LTFKIVQWQEAWLEFRSGRPARFVALVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICD  1744

Query  930   LNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM  989
               + CK CG +Q    G++AVM+ GTLS E  + G  + C+CGK+   + V+ + PF++ 
Sbjct  1745  FEIACK-CGVKQEQRTGLDAVMHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLIC  1802

Query  990   SAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVF  1049
             S  PA  +L  G  + A+ + G+   GHY H+  +++    D + + K ++  G ++D  
Sbjct  1803  SNTPASVKLPKGVGS-ANIFIGD-NVGHYVHVKCEQSYQLYDASNVKKVTDVTGKLSDCL  1860

Query  1050  YKENSYTTTIKPV--TYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNAS  1106
             Y +N    T K V  TY LD V   E  P L  YY     Y+T++ I          +  
Sbjct  1861  YLKN-LKQTFKSVLTTYYLDDVKKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGV  1919

Query  1107  FDNFKFVCDNIKFADDLNQLTGYKKPAS-RELKVTFFPDLNGDVVAIDYKHYTPSFKKGA  1165
             + NFK +   +   D LN   G+       E K+T +P   GDVV  +   Y   +++G 
Sbjct  1920  YTNFKLIGHTV--CDSLNSKLGFDSSKEFVEYKITEWPTATGDVVLANDDLYVKRYERGC  1977

Query  1166  KLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLAC  1223
                 KP++W  H   + N  TY          ++   +   N FDVLK +D     + + 
Sbjct  1978  ITFGKPVIWLSHEKASLNSLTY----------FNRPLLVDDNKFDVLKVDDVDDSGDSSE  2027

Query  1224  EDLKPVSE-EVVENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYV  1282
                K   E  +++   ++K          +V   +I+    +  K  + +   D+   ++
Sbjct  2028  SGAKETKEINIIKLSGVKKPF--------KVEDSVIVNDDTSETKYVKSLSIVDVYDMWL  2079

Query  1283  DNSSLTIKKPNELSRVLGLKTL---ATHGLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNI  1338
                   ++  N LSR + + T+      G+  V S+P D +     KP +N VV    N 
Sbjct  2080  TGCKYVVRTANALSRAVNVPTIRKFIKFGMTLV-SIPIDLLNLREIKPAVN-VVKAVRNK  2137

Query  1339  VTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFN  1398
              + C N     ++ + F LL      +       K    T IA      +     + +F 
Sbjct  2138  TSACFN-----FIKWLFVLLFGWIKISADN----KVIYTTEIASKLTCKLVALAFKNAFL  2188

Query  1399  YLKSPNFSKLINII--IWFLLLSVCLGSLIYSTAAL---GVLMSNLG-----------MP  1442
               K    ++   II  I+ L  +    ++I+S   L   G L + +G           + 
Sbjct  2189  TFKWSMVARGACIIATIFLLWFNFIYANVIFSDFYLPKIGFLPTFVGKIAQWIKNTFSLV  2248

Query  1443  SYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTA  1502
             + C  Y    +   N     YC GSI C  CL+G D LD Y +++ +Q     ++ D  A
Sbjct  2249  TICDLYSIQDVGFKN----QYCNGSIACQFCLAGFDMLDNYKAIDVVQ-----YEADRRA  2299

Query  1503  F-------GLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNS--WLMWLIINL  1553
             F        +V E  ++Y L+T +FY L     +Q+  ++    F+ ++  W   L++ L
Sbjct  2300  FVDYTGVLKIVIELIVSYALYTAWFYPLFALISIQILTTWLPELFMLSTLHWSFRLLVAL  2359

Query  1554  VQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVR  1613
               M P    +R YI  ASF  ++  + HV  GC+ S C+ CYKRNR+ RV+C+TIV G+ 
Sbjct  2360  ANMLPAHVFMRFYIIIASFIKLFSLFKHVAYGCSKSGCLFCYKRNRSLRVKCSTIVGGMI  2419

Query  1614  RSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIV  1673
             R + V ANGG GFC  H WNC++CD++  G+TFI+ E A DLS + KRPI PTD + + V
Sbjct  2420  RYYDVMANGGTGFCSKHQWNCIDCDSYKPGNTFITVEAALDLSKELKRPIQPTDVAYHTV  2479

Query  1674  DSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEE  1733
               V     S+ L++D+ GQ+ Y+  + S FV+  NL  +  K    ++V+V +  +  ++
Sbjct  2480  TDVKQVGCSMRLFYDRDGQRIYDDVNASLFVDYSNLLHSKVKSVPNMHVVVVENDA--DK  2537

Query  1734  SSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKT  1793
             ++  +A+V+Y+Q + +PIL++D+ L++       V   MFD YV+TF S F+V  + L  
Sbjct  2538  ANFLNAAVFYAQSLFRPILMVDKNLITTANTGTSVTETMFDVYVDTFLSMFDVDKKSLNA  2597

Query  1794  LVATAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSC  1852
             L+ATA + + +   +  VL TF+S AR+   +DSDV+TK + + +  +  + +E+T +SC
Sbjct  2598  LIATAHSSIKQGTQIYKVLDTFLSCARKSCSIDSDVDTKCLADSVMSAVSAGLELTDESC  2657

Query  1853  NNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIR  1912
             NN + TY K +N+   DLG  I  SA+H+   VAK   ++ IW+V  F   S   + +++
Sbjct  2658  NNLVPTYLKSDNIVAADLGVLIQNSAKHVQGNVAKIAGVSCIWSVDAFNQFSSDFQHKLK  2717

Query  1913  SAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              A  K  L  KLT       V+V+TT  +LKGG
Sbjct  2718  KACCKTGLKLKLTYNKQMANVSVLTTPFSLKGG  2750


 Score = 80.5 bits (197),  Expect = 2e-13, Method: Compositional matrix adjust.
 Identities = 51/153 (33%), Positives = 79/153 (52%), Gaps = 2/153 (1%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             +T NV     DI++ +K VK  VVVN AN ++ HGGGVA A+  A       E+ + + +
Sbjct  1273  ITPNVCFVKGDIIKVSKLVKAEVVVNPANGHMVHGGGVAKAIAVAAGQQFVKETTNMVKS  1332

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNK--GEDIQLLKSAYENFNQHEVLLAPLLSA  333
              G    G   V +G  L K  L+VVGP+      +   LL+  Y++FN ++ ++  L+SA
Sbjct  1333  KGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYVLLERVYKHFNNYDCVVTTLISA  1392

Query  334   GIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             GIF      SL   + T +  V L   ++  +D
Sbjct  1393  GIFSVPSDVSLTYLLGTAKKQVVLVSNNQEDFD  1425


 Score = 59.3 bits (142),  Expect = 4e-07, Method: Compositional matrix adjust.
 Identities = 38/118 (32%), Positives = 61/118 (52%), Gaps = 5/118 (4%)

Query  1    APTKVTFGDD-TVIEVQGY-KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVA  58
            A  +VTF +  TV E+    K + + +ELD   + +LN  C  + V+   ++ EF  VV 
Sbjct  851  AGRRVTFKEQPTVKEIISMPKIIKVFYELDNDFNTILNTACGVFEVDDTVDMEEFYAVVI  910

Query  59   DAVIKTLQPVSELL---TPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
            DA+ + L P  EL      +   L +      +LFDE+GE   A  +YC+F  P++D+
Sbjct  911  DAIEEKLSPCKELEGVGAKVSAFLQKLEDNPLFLFDEAGEEVFAPKLYCAFTAPEDDD  968


>sp|P0C6X6|R1AB_CVHOC Replicase polyprotein 1ab OS=Human coronavirus 
OC43 OX=31631 GN=rep PE=1 SV=1
Length=7095

 Score = 499 bits (1286),  Expect = 8e-143, Method: Compositional matrix adjust.
 Identities = 363/1233 (29%), Positives = 599/1233 (49%), Gaps = 84/1233 (7%)

Query  750   IKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTL  809
             + +  TVD +N   + V +  ++G+  G  + DG +VTK K   +++GK F+   N  + 
Sbjct  1565  VDILLTVDGVNFTNRFVPVGESFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSE  1624

Query  810   RVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIE  869
              ++A       D   L  Y + L +  KW+        + K A+NNC++  + L LQ + 
Sbjct  1625  DLKAVRSSFNFDQKELLAYYNMLVNCFKWQVVVNGKYFTFKQANNNCFVNVSCLMLQSLH  1684

Query  870   LKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRV  929
             L F     Q+A+   R+G  A F AL+LA      G+  D R+ +  +F   +L      
Sbjct  1685  LTFKIVQWQEAWLEFRSGRPARFVALVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICD  1744

Query  930   LNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM  989
               + CK CG +Q    G++AVM+ GTLS E  + G  + C+CGK+   + V+ + PF++ 
Sbjct  1745  FEIACK-CGVKQEQRTGLDAVMHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLIC  1802

Query  990   SAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVF  1049
             S  PA  +L  G  + A+ + G+   GHY H+  +++    D + + K ++  G ++D  
Sbjct  1803  SNTPASVKLPKGVGS-ANIFIGD-NVGHYVHVKCEQSYQLYDASNVKKVTDVTGKLSDCL  1860

Query  1050  YKENSYTTTIKPV--TYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNAS  1106
             Y +N    T K V  TY LD V   E  P L  YY     Y+T++ I          +  
Sbjct  1861  YLKN-LKQTFKSVLTTYYLDDVKKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGV  1919

Query  1107  FDNFKFVCDNIKFADDLNQLTGYKKPASR-ELKVTFFPDLNGDVVAIDYKHYTPSFKKGA  1165
             + NFK +   +   D LN   G+       E K+T +P   GDVV  +   Y   +++G 
Sbjct  1920  YTNFKLIGHTV--CDSLNSKLGFDSSKEFVEYKITEWPTATGDVVLANDDLYVKRYERGC  1977

Query  1166  KLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLAC  1223
                 KP++W  H   + N  TY          ++   +   N FDVLK +D     + + 
Sbjct  1978  ITFGKPVIWLSHEKASLNSLTY----------FNRPLLVDDNKFDVLKVDDVDDSGDSSE  2027

Query  1224  EDLKPVSE-EVVENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYV  1282
                K   E  +++   ++K          +V   +I+    +  K  + +   D+   ++
Sbjct  2028  SGAKETKEINIIKLSGVKKPF--------KVEDSVIVNDDTSETKYVKSLSIVDVYDMWL  2079

Query  1283  DNSSLTIKKPNELSRVLGLKTLATH---GLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNI  1338
                   ++  N LSR + + T+      G+  V S+P D +     KP +N VV    N 
Sbjct  2080  TGCKYVVRTANALSRAVNVPTIRKFIKFGMTLV-SIPIDLLNLREIKPAVN-VVKAVRNK  2137

Query  1339  VTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFN  1398
              + C N     ++ + F LL      +       K    T IA      +     + +F 
Sbjct  2138  TSACFN-----FIKWLFVLLFGWIKISADN----KVIYTTEIASKLTCKLVALAFKNAFL  2188

Query  1399  YLKSPNFSKLINII--IWFLLLSVCLGSLIYSTAAL---GVLMSNLG-----------MP  1442
               K    ++   II  I+ L  +    ++I+S   L   G L + +G           + 
Sbjct  2189  TFKWSMVARGACIIATIFLLWFNFIYANVIFSDFYLPKIGFLPTFVGKIAQWIKNTFSLV  2248

Query  1443  SYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTA  1502
             + C  Y    +   N     YC GSI C  CL+G D LD Y +++ +Q     ++ D  A
Sbjct  2249  TICDLYSIQDVGFKN----QYCNGSIACQFCLAGFDMLDNYKAIDVVQ-----YEADRRA  2299

Query  1503  F-------GLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNS--WLMWLIINL  1553
             F        +V E  ++Y L+T +FY L     +Q+  ++    F+ ++  W   L++ L
Sbjct  2300  FVDYTGVLKIVIELIVSYALYTAWFYPLFALISIQILTTWLPELFMLSTLHWSFRLLVAL  2359

Query  1554  VQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVR  1613
               M P    +R YI  ASF  ++  + HV  GC+ S C+ CYKRNR+ RV+C+TIV G+ 
Sbjct  2360  ANMLPAHVFMRFYIIIASFIKLFSLFKHVAYGCSKSGCLFCYKRNRSLRVKCSTIVGGMI  2419

Query  1614  RSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIV  1673
             R + V ANGG GFC  H WNC++CD++  G+TFI+ E A DLS + KRPI PTD + + V
Sbjct  2420  RYYDVMANGGTGFCSKHQWNCIDCDSYKPGNTFITVEAALDLSKELKRPIQPTDVAYHTV  2479

Query  1674  DSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEE  1733
               V     S+ L++D+ GQ+ Y+  + S FV+  NL  +  K    ++V+V +  +  ++
Sbjct  2480  TDVKQVGCSMRLFYDRDGQRIYDDVNASLFVDYSNLLHSKVKSVPNMHVVVVENDA--DK  2537

Query  1734  SSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKT  1793
             ++  +A+V+Y+Q + +PIL++D+ L++       V   MFD YV+TF S F+V  + L  
Sbjct  2538  ANFLNAAVFYAQSLFRPILMVDKNLITTANTGTSVTETMFDVYVDTFLSMFDVDKKSLNA  2597

Query  1794  LVATAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSC  1852
             L+ATA + + +   +  VL TF+S AR+   +DSDV+TK + + +  +  + +E+T +SC
Sbjct  2598  LIATAHSSIKQGTQIYKVLDTFLSCARKSCSIDSDVDTKCLADSVMSAVSAGLELTDESC  2657

Query  1853  NNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIR  1912
             NN + TY K +N+   DLG  I  SA+H+   VAK   ++ IW+V  F   S   + +++
Sbjct  2658  NNLVPTYLKSDNIVAADLGVLIQNSAKHVQGNVAKIAGVSCIWSVDAFNQFSSDFQHKLK  2717

Query  1913  SAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              A  K  L  KLT       V+V+TT  +LKGG
Sbjct  2718  KACCKTGLKLKLTYNKQMANVSVLTTPFSLKGG  2750


 Score = 80.1 bits (196),  Expect = 3e-13, Method: Compositional matrix adjust.
 Identities = 51/153 (33%), Positives = 79/153 (52%), Gaps = 2/153 (1%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             +T NV     DI++ +K VK  VVVN AN ++ HGGGVA A+  A       E+ + + +
Sbjct  1273  ITPNVCFVKGDIIKVSKLVKAEVVVNPANGHMVHGGGVAKAIAVAAGQQFVKETTNMVKS  1332

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNK--GEDIQLLKSAYENFNQHEVLLAPLLSA  333
              G    G   V +G  L K  L+VVGP+      +   LL+  Y++FN ++ ++  L+SA
Sbjct  1333  KGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYVLLERVYKHFNNYDCVVTTLISA  1392

Query  334   GIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             GIF      SL   + T +  V L   ++  +D
Sbjct  1393  GIFSVPSDVSLTYLLGTAKKQVVLVSNNQEDFD  1425


 Score = 59.7 bits (143),  Expect = 4e-07, Method: Compositional matrix adjust.
 Identities = 38/118 (32%), Positives = 61/118 (52%), Gaps = 5/118 (4%)

Query  1    APTKVTFGDD-TVIEVQGY-KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVA  58
            A  +VTF +  TV E+    K + + +ELD   + +LN  C  + V+   ++ EF  VV 
Sbjct  851  AGRRVTFKEQPTVKEIISMPKIIKVFYELDNDFNTILNTACGVFEVDDTVDMEEFYAVVI  910

Query  59   DAVIKTLQPVSELL---TPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
            DA+ + L P  EL      +   L +      +LFDE+GE   A  +YC+F  P++D+
Sbjct  911  DAIEEKLSPCKELEGVGAKVSAFLQKLEDNPLFLFDEAGEEVFAPKLYCAFTAPEDDD  968


>sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavirus 
(strain JHM) OX=11144 GN=rep PE=1 SV=1
Length=7180

 Score = 481 bits (1237),  Expect = 1e-136, Method: Compositional matrix adjust.
 Identities = 364/1266 (29%), Positives = 587/1266 (46%), Gaps = 105/1266 (8%)

Query  750   IKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTL  809
             + V  TVD +N  +  V     +G+  G  + DG +VTK++    H+GK F+        
Sbjct  1610  VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIHKGKVFFQYSGLSAA  1669

Query  810   RVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIE  869
              + A +     D   L +Y S L   K W         + K ++NNCY+  A L LQ + 
Sbjct  1670  DLAAVKDAFGFDEPQLLQYYSMLGMCK-WPVVVCGNYFAFKQSNNNCYINVACLMLQHLS  1728

Query  870   LKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRV  929
             LKF     +      R+G+   F +L+LA  +    E  D  + +    + A+L      
Sbjct  1729  LKFPKWQWRRPGNEFRSGKPLRFVSLVLAKGSFKFNEPSDSTDFIRVELREADLSGATCD  1788

Query  930   LNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM  989
             L  +CK CG +Q   KGV+AVM+ GTL      KG  I CTCG +   +  Q   PF++ 
Sbjct  1789  LEFICK-CGVKQEQRKGVDAVMHFGTLDKSGLVKGYNIACTCGDKLV-HCTQFNVPFLIC  1846

Query  990   SAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVF  1049
             S  P   +L       A+ +TG    GHY H+  K      D   ++K SE KG  TD  
Sbjct  1847  SNTPEGKKLPDDVVA-ANIFTGG-SVGHYTHVKCKPKYQLYDACNVSKVSEAKGNFTDCL  1904

Query  1050  YKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNAS--  1106
             Y +N   T +    TY LD V C    P L  YY +   Y+T +PI     + +      
Sbjct  1905  YLKNLKQTFSSVLTTYYLDDVKCVAYKPDLSQYYCESGKYYT-KPIIKAQFRTFEKVEGV  1963

Query  1107  FDNFKFVCDNIKFADDLNQLTGYK-KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGA  1165
             + NFK V  +I  A+ LN   G+       E K+T +P   GDVV      Y   +  G 
Sbjct  1964  YTNFKLVGHDI--AEKLNAKLGFDCNSPFMEYKITEWPTATGDVVLASDDLYVSRYSGGC  2021

Query  1166  KLLHKPIVW--HVNNATNKATY--KPNTWCIRCLWSTKPVETSNSFD-------------  1208
                 KP++W  H   +    TY  +P+  C    ++  PV+ S   D             
Sbjct  2022  VTFGKPVIWRGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDRRPVPSAVLVTGA  2080

Query  1209  -------VLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVG------  1255
                     + +E     +  AC     V +++V     +  V    VK  ++ G      
Sbjct  2081  ASGADASAISTEPGTAKEQKACAS-DSVEDQIVMEAQKKSSVTTVAVKEVKLNGVKKPVK  2139

Query  1256  ---DIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATH---GL  1309
                 +++    +  K+ + +   D+   ++      +   NELSR++   T+  +   G+
Sbjct  2140  WNCSVVVNDPTSETKVVKSLSIVDVYDMFLTGCRYVVWTANELSRLINSPTVREYVKWGM  2199

Query  1310  AAVNSVPWDTI--ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRS  1367
             + +  +P + +   +  + F+   V     I        C   + +F         F   
Sbjct  2200  SKL-IIPANLLLLRDEKQEFVAPKVVKAKAIA-------CYGAVKWFLLYCFSWIKF---  2248

Query  1368  TNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLIN--------IIIWF--LL  1417
              N+  K    T +A    K   K C  A  N L++ N+S +           ++WF  L 
Sbjct  2249  -NTDNKVIYTTEVAS---KLTFKLCCLAFKNALQTFNWSVVSRGFFLVATVFLLWFNFLY  2304

Query  1418  LSVCLGSL---------IYSTAALGVLMSNLGMPSYCTGYRE---GYLNSTNVTIATYCT  1465
              +V L            ++    +  + +  G+ + C  Y+    GY +S       +C 
Sbjct  2305  ANVILSDFYLPNIGPLPMFVGQIVAWVKTTFGVLTICDFYQVTDLGYRSS-------FCN  2357

Query  1466  GSIPCSVCLSGLDSLDTYPSLETIQITIS---SFKWDLTAFGLVAEWFLAYILFTRFFYV  1522
             GS+ C +C SG D LD Y S+  +Q  +    SF + ++ F LV E  + Y L+T  FY 
Sbjct  2358  GSMVCELCFSGFDMLDNYESINVVQHVVDRRVSFDY-ISLFKLVVELVIGYSLYTVCFYP  2416

Query  1523  LGLAAIMQLFFSYFAVHFISNS--WLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYV  1580
             L +   MQL  ++    F+  +  W   L + +  M P   ++R YI   + Y V+    
Sbjct  2417  LFVLVGMQLLTTWLPEFFMLGTMHWSARLFVFVANMLPAFTLLRFYIVVTAMYKVYCLCR  2476

Query  1581  HVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTF  1640
             HV+ GC+   C+ CYKRNR+ RV+C+T+V G  R + V ANGG GFC  H WNC+NC+++
Sbjct  2477  HVMYGCSKPGCLFCYKRNRSVRVKCSTVVGGSLRYYDVMANGGTGFCTKHQWNCLNCNSW  2536

Query  1641  CAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSL  1700
               G+TFI+ E A DLS + KRP+NPTD + Y V  V     S+ L++++ GQ+ Y+  S 
Sbjct  2537  KPGNTFITHEAAADLSKELKRPVNPTDSAYYSVIEVKQVGCSMRLFYERDGQRVYDDVSA  2596

Query  1701  SHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVS  1760
             S FV+++ L  +  KG    +V+V + ++  +++   +A+V+Y+Q + +P+L++++ L++
Sbjct  2597  SLFVDMNGLLHSKVKGVPETHVVVVENEA--DKAGFLNAAVFYAQSLYRPMLMVEKKLIT  2654

Query  1761  DVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAAR  1820
                    V+  MFD YV +     +V  + L + V  A   L + V L+ V+ TF+  AR
Sbjct  2655  TANTGLSVSRTMFDLYVYSLLRHLDVDRKSLTSFVNAAHNSLKEGVQLEQVMDTFVGCAR  2714

Query  1821  QGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSAR  1879
             +   +DSDVETK + + +  +  + +EVT +SCNN + TY K + +   DLG  I  +A+
Sbjct  2715  RKCAIDSDVETKSITKSVMAAVNAGVEVTDESCNNLVPTYVKSDTIVAADLGVLIQNNAK  2774

Query  1880  HINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTK  1939
             H+ + VAK+ N+A IW+V  F  LS  L+ ++R A  K  L  KLT       V ++TT 
Sbjct  2775  HVQSNVAKAANVACIWSVDAFNQLSADLQHRLRKACVKTGLKIKLTYNKQEANVPILTTP  2834

Query  1940  IALKGG  1945
              +LKGG
Sbjct  2835  FSLKGG  2840


 Score = 73.6 bits (179),  Expect = 2e-11, Method: Compositional matrix adjust.
 Identities = 48/116 (41%), Positives = 60/116 (52%), Gaps = 4/116 (3%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F D   V EV   + + I F LD   D VL++ CS + V+    ++E   VV D
Sbjct  832  AGKKVVFNDKPKVKEVPSTRKIKIIFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLD  891

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDED  112
            AV  TL P  E   + T +   L+       YLFDE GE  +AS MYCSF  PDED
Sbjct  892  AVESTLSPCKEHGVIGTKVCALLERLVDDYVYLFDEGGEEVIASRMYCSFSAPDED  947


 Score = 58.9 bits (141),  Expect = 6e-07, Method: Compositional matrix adjust.
 Identities = 52/153 (34%), Positives = 82/153 (54%), Gaps = 2/153 (1%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             +T NV     D+++  ++V   V+VN AN  + HG GVAGA+ KA   A   E+ D +  
Sbjct  1319  ITPNVCFVKGDVIKVLRRVGAEVIVNPANGRMAHGAGVAGAIAKAAGKAFINETADMVKA  1378

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNV--NKGEDIQLLKSAYENFNQHEVLLAPLLSA  333
              G  +VGG    +G  L K  L++VGP+   +  E   LL+ AY++ N+ + ++  L+SA
Sbjct  1379  QGVCQVGGCYESTGGKLCKKVLNIVGPDARGHGNECYSLLERAYQHINKCDNVVTTLISA  1438

Query  334   GIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             GIF      SL   +  V  NV L   +++ +D
Sbjct  1439  GIFSVPTDVSLTYLLGVVTKNVILVSNNQDDFD  1471


 Score = 39.3 bits (90),  Expect = 0.56, Method: Compositional matrix adjust.
 Identities = 53/217 (24%), Positives = 86/217 (40%), Gaps = 33/217 (15%)

Query  778   PTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLR-VEAFEYYHTTDPSFLGRYMSALNHTK  836
             P  ++  D+ K++     E +T    P D T   V AF+  ++   S      S   H K
Sbjct  1047  PDQVEAFDIEKVEDSILSELQTELNAPADKTYEDVLAFDAIYSETLSAFYAVPSDETHFK  1106

Query  837   KWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALI  896
                   V G  S      NC+L + L+ +Q + L+F    +Q  +   +AG    F   +
Sbjct  1107  ------VCGFYSPAIERTNCWLRSTLIVMQSLPLEFKDLGMQKLWLSYKAGYDQCFVDKL  1160

Query  897   LAYCNKTV-----GELGDVRETMSYLFQHANLDSC--KRVLNVVCKTCGQQQTTLKGVEA  949
             +    K++     G + D     +Y F    L  C  K   N  C  CG  +  L+G++A
Sbjct  1161  VKSAPKSIILPQGGYVAD----FAYFF----LSQCSFKVHANWRCLKCG-MELKLQGLDA  1211

Query  950   VMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPF  986
             V + G +        V   C CG   T  L+  + P+
Sbjct  1212  VFFYGDV--------VSHMCKCGNSMT--LLSADIPY  1238


>sp|P0C6V1|R1A_CVMJH Replicase polyprotein 1a OS=Murine coronavirus 
(strain JHM) OX=11144 GN=1a PE=1 SV=1
Length=4474

 Score = 480 bits (1236),  Expect = 1e-136, Method: Compositional matrix adjust.
 Identities = 365/1274 (29%), Positives = 585/1274 (46%), Gaps = 121/1274 (9%)

Query  750   IKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTL  809
             + V  TVD +N  +  V     +G+  G  + DG +VTK++    H+GK F+        
Sbjct  1610  VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIHKGKVFFQYSGLSAA  1669

Query  810   RVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIE  869
              + A +     D   L +Y S L   K W         + K ++NNCY+  A L LQ + 
Sbjct  1670  DLAAVKDAFGFDEPQLLQYYSMLGMCK-WPVVVCGNYFAFKQSNNNCYINVACLMLQHLS  1728

Query  870   LKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRV  929
             LKF     +      R+G+   F +L+LA  +    E  D  + +    + A+L      
Sbjct  1729  LKFPKWQWRRPGNEFRSGKPLRFVSLVLAKGSFKFNEPSDSTDFIRVELREADLSGATCD  1788

Query  930   LNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM  989
             L  +CK CG +Q   KGV+AVM+ GTL      KG  I CTCG +   +  Q   PF++ 
Sbjct  1789  LEFICK-CGVKQEQRKGVDAVMHFGTLDKSGLVKGYNIACTCGDKLV-HCTQFNVPFLIC  1846

Query  990   SAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVF  1049
             S  P   +L       A+ +TG    GHY H+  K      D   ++K SE KG  TD  
Sbjct  1847  SNTPEGKKLPDDVVA-ANIFTGG-SVGHYTHVKCKPKYQLYDACNVSKVSEAKGNFTDCL  1904

Query  1050  YKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNAS--  1106
             Y +N   T +    TY LD V C    P L  YY +   Y+T +PI     + +      
Sbjct  1905  YLKNLKQTFSSVLTTYYLDDVKCVAYKPDLSQYYCESGKYYT-KPIIKAQFRTFEKVEGV  1963

Query  1107  FDNFKFVCDNIKFADDLNQLTGYK-KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGA  1165
             + NFK V  +I  A+ LN   G+       E K+T +P   GDVV      Y   +  G 
Sbjct  1964  YTNFKLVGHDI--AEKLNAKLGFDCNSPFMEYKITEWPTATGDVVLASDDLYVSRYSGGC  2021

Query  1166  KLLHKPIVW--HVNNATNKATY--KPNTWCIRCLWSTKPVETSNSFD-------------  1208
                 KP++W  H   +    TY  +P+  C    ++  PV+ S   D             
Sbjct  2022  VTFGKPVIWRGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDRRPVPSAVLVTGA  2080

Query  1209  -------VLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVG------  1255
                     + +E     +  AC     V +++V     +  V    VK  ++ G      
Sbjct  2081  ASGADASAISTEPGTAKEQKACAS-DSVEDQIVMEAQKKSSVTTVAVKEVKLNGVKKPVK  2139

Query  1256  ---DIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAV  1312
                 +++    +  K+ + +   D+   ++      +   NELSR+             +
Sbjct  2140  WNCSVVVNDPTSETKVVKSLSIVDVYDMFLTGCRYVVWTANELSRL-------------I  2186

Query  1313  NSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNR-------------VCTNYMPYFFTLLL  1359
             NS    T+  Y K  ++K++     ++ R   +              C   + +F     
Sbjct  2187  NS---PTVREYVKWGMSKLIIPANLLLLRDEKQEFVAPKVVKAKAIACYGAVKWFLLYCF  2243

Query  1360  QLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLIN--------I  1411
                 F    N+  K    T +A    K   K C  A  N L++ N+S +           
Sbjct  2244  SWIKF----NTDNKVIYTTEVAS---KLTFKLCCLAFKNALQTFNWSVVSRGFFLVATVF  2296

Query  1412  IIWF--LLLSVCLGSL---------IYSTAALGVLMSNLGMPSYCTGYRE---GYLNSTN  1457
             ++WF  L  +V L            ++    +  + +  G+ + C  Y+    GY +S  
Sbjct  2297  LLWFNFLYANVILSDFYLPNIGPLPMFVGQIVAWVKTTFGVLTICDFYQVTDLGYRSS--  2354

Query  1458  VTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITIS---SFKWDLTAFGLVAEWFLAYI  1514
                  +C GS+ C +C SG D LD Y S+  +Q  +    SF + ++ F LV E  + Y 
Sbjct  2355  -----FCNGSMVCELCFSGFDMLDNYESINVVQHVVDRRVSFDY-ISLFKLVVELVIGYS  2408

Query  1515  LFTRFFYVLGLAAIMQLFFSYFAVHFISNS--WLMWLIINLVQMAPISAMVRMYIFFASF  1572
             L+T  FY L +   MQL  ++    F+  +  W   L + +  M P   ++R YI   + 
Sbjct  2409  LYTVCFYPLFVLVGMQLLTTWLPEFFMLGTMHWSARLFVFVANMLPAFTLLRFYIVVTAM  2468

Query  1573  YYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNW  1632
             Y V+    HV+ GC+   C+ CYKRNR+ RV+C+T+V G  R + V ANGG GFC  H W
Sbjct  2469  YKVYCLCRHVMYGCSKPGCLFCYKRNRSVRVKCSTVVGGSLRYYDVMANGGTGFCTKHQW  2528

Query  1633  NCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQ  1692
             NC+NC+++  G+TFI+ E A DLS + KRP+NPTD + Y V  V     S+ L++++ GQ
Sbjct  2529  NCLNCNSWKPGNTFITHEAAADLSKELKRPVNPTDSAYYSVIEVKQVGCSMRLFYERDGQ  2588

Query  1693  KTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPIL  1752
             + Y+  S S FV+++ L  +  KG    +V+V + ++  +++   +A+V+Y+Q + +P+L
Sbjct  2589  RVYDDVSASLFVDMNGLLHSKVKGVPETHVVVVENEA--DKAGFLNAAVFYAQSLYRPML  2646

Query  1753  LLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVL  1812
             ++++ L++       V+  MFD YV +     +V  + L + V  A   L + V L+ V+
Sbjct  2647  MVEKKLITTANTGLSVSRTMFDLYVYSLLRHLDVDRKSLTSFVNAAHNSLKEGVQLEQVM  2706

Query  1813  STFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLG  1871
              TF+  AR+   +DSDVETK + + +  +  + +EVT +SCNN + TY K + +   DLG
Sbjct  2707  DTFVGCARRKCAIDSDVETKSITKSVMAAVNAGVEVTDESCNNLVPTYVKSDTIVAADLG  2766

Query  1872  ACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQ  1931
               I  +A+H+ + VAK+ N+A IW+V  F  LS  L+ ++R A  K  L  KLT      
Sbjct  2767  VLIQNNAKHVQSNVAKAANVACIWSVDAFNQLSADLQHRLRKACVKTGLKIKLTYNKQEA  2826

Query  1932  VVNVVTTKIALKGG  1945
              V ++TT  +LKGG
Sbjct  2827  NVPILTTPFSLKGG  2840


 Score = 73.2 bits (178),  Expect = 3e-11, Method: Compositional matrix adjust.
 Identities = 48/116 (41%), Positives = 60/116 (52%), Gaps = 4/116 (3%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F D   V EV   + + I F LD   D VL++ CS + V+    ++E   VV D
Sbjct  832  AGKKVVFNDKPKVKEVPSTRKIKIIFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLD  891

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDED  112
            AV  TL P  E   + T +   L+       YLFDE GE  +AS MYCSF  PDED
Sbjct  892  AVESTLSPCKEHGVIGTKVCALLERLVDDYVYLFDEGGEEVIASRMYCSFSAPDED  947


 Score = 58.9 bits (141),  Expect = 6e-07, Method: Compositional matrix adjust.
 Identities = 52/153 (34%), Positives = 82/153 (54%), Gaps = 2/153 (1%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             +T NV     D+++  ++V   V+VN AN  + HG GVAGA+ KA   A   E+ D +  
Sbjct  1319  ITPNVCFVKGDVIKVLRRVGAEVIVNPANGRMAHGAGVAGAIAKAAGKAFINETADMVKA  1378

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNV--NKGEDIQLLKSAYENFNQHEVLLAPLLSA  333
              G  +VGG    +G  L K  L++VGP+   +  E   LL+ AY++ N+ + ++  L+SA
Sbjct  1379  QGVCQVGGCYESTGGKLCKKVLNIVGPDARGHGNECYSLLERAYQHINKCDNVVTTLISA  1438

Query  334   GIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             GIF      SL   +  V  NV L   +++ +D
Sbjct  1439  GIFSVPTDVSLTYLLGVVTKNVILVSNNQDDFD  1471


 Score = 38.9 bits (89),  Expect = 0.67, Method: Compositional matrix adjust.
 Identities = 53/217 (24%), Positives = 86/217 (40%), Gaps = 33/217 (15%)

Query  778   PTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLR-VEAFEYYHTTDPSFLGRYMSALNHTK  836
             P  ++  D+ K++     E +T    P D T   V AF+  ++   S      S   H K
Sbjct  1047  PDQVEAFDIEKVEDSILSELQTELNAPADKTYEDVLAFDAIYSETLSAFYAVPSDETHFK  1106

Query  837   KWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALI  896
                   V G  S      NC+L + L+ +Q + L+F    +Q  +   +AG    F   +
Sbjct  1107  ------VCGFYSPAIERTNCWLRSTLIVMQSLPLEFKDLGMQKLWLSYKAGYDQCFVDKL  1160

Query  897   LAYCNKTV-----GELGDVRETMSYLFQHANLDSC--KRVLNVVCKTCGQQQTTLKGVEA  949
             +    K++     G + D     +Y F    L  C  K   N  C  CG  +  L+G++A
Sbjct  1161  VKSAPKSIILPQGGYVAD----FAYFF----LSQCSFKVHANWRCLKCG-MELKLQGLDA  1211

Query  950   VMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPF  986
             V + G +        V   C CG   T  L+  + P+
Sbjct  1212  VFFYGDV--------VSHMCKCGNSMT--LLSADIPY  1238


>sp|P0C6U4|R1A_CVHN2 Replicase polyprotein 1a OS=Human coronavirus 
HKU1 (isolate N2) OX=443240 GN=1a PE=3 SV=1
Length=4441

 Score = 478 bits (1230),  Expect = 6e-136, Method: Compositional matrix adjust.
 Identities = 361/1233 (29%), Positives = 583/1233 (47%), Gaps = 79/1233 (6%)

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
             + I V  TVD +N  +  + +   +G+  G  + DG DVTK+K  + +  K  Y   N  
Sbjct  1620  KKIDVLLTVDGVNFKSISLTVGEVFGKILGNVFCDGIDVTKLKCSDFYADKILYQYENLS  1679

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNG-LTSIKWADNNCYLATALLTLQ  866
                + A +     D   L  Y + L    KW    VNG   S + + NNCY+  A L LQ
Sbjct  1680  LADISAVQSSFGFDQQQLLAYYNFLT-VCKWSVV-VNGPFFSFEQSHNNCYVNVACLMLQ  1737

Query  867   QIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSC  926
              I LKFN    Q+A+Y  RAG      AL+LA  +    E  D  + +  + + A+L   
Sbjct  1738  HINLKFNKWQWQEAWYEFRAGRPHRLVALVLAKGHFKFDEPSDATDFIRVVLKQADLSGA  1797

Query  927   KRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPF  986
                L ++C  CG +Q +  GV+AVM+ GTL+      G +I C C  +   +  +   PF
Sbjct  1798  ICELELICD-CGIKQESRVGVDAVMHFGTLAKTDLFNGYKIGCNCAGRIV-HCTKLNVPF  1855

Query  987   VMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPIT  1046
             ++ S  P   +L       A+ + G    GHY H+         D   + K +   G +T
Sbjct  1856  LICSNTPLSKDLPDDV-VAANMFMG-VGVGHYTHLKCGSPYQHYDACSVKKYTGVSGCLT  1913

Query  1047  DVFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP--  1103
             D  Y +N + T T     Y LD V     +P L  YY  +  Y+T +PI     +P+   
Sbjct  1914  DCLYLKNLTQTFTSMLTNYFLDDVEMVAYNPDLSQYYCDNGKYYT-KPIIKAQFKPFAKV  1972

Query  1104  NASFDNFKFVCDNIKFADDLNQLTGYKKPASR-ELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
             +  + NFK V  +I     LN   G+       E KVT +P   GDVV      Y   + 
Sbjct  1973  DGVYTNFKLVGHDI--CAQLNDKLGFNVDLPFVEYKVTVWPVATGDVVLASDDLYVKRYF  2030

Query  1163  KGAKLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDN  1220
             KG +   KP++W  H   + N  TY          ++    ++ N + VL       +D+
Sbjct  2031  KGCETFGKPVIWLCHDEASLNSLTY----------FNKPSFKSENRYSVLS------VDS  2074

Query  1221  LACEDLKPVSEEVVENPTIQKDV-LECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMA  1279
             ++ E    V   V+E+    K+V L+   KT ++   II+   N+S+K+ + +   D+  
Sbjct  2075  VSEESQGNVVTSVMESQISTKEVKLKGVRKTVKIEDAIIVNDENSSIKVVKSLSLVDVWD  2134

Query  1280  AYVDNSSLTIKKPNELSRVLGLKTL---ATHGLAAVNSVPWDTIANYAKPFLNKVVSTTT  1336
              Y+      +   NELSR++   T+     +G+  + ++P D +        N+ +    
Sbjct  2135  MYLTGCDYVVWVANELSRLVKSPTVREYIRYGIKPI-TIPIDLLCLRDD---NQTLLVPK  2190

Query  1337  NIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCL--E  1394
                 R +      ++ + F  +  L  FT          + +    N       FCL  +
Sbjct  2191  IFKARAIEFY--GFLKWLFIYVFSLLHFTNDKTIFYTTEIASKFTFNL------FCLALK  2242

Query  1395  ASFNYLKSPNFSKLINII-----IWF--LLLSVCLGSL---------IYSTAALGVLMSN  1438
              +F   +   F K   ++      WF  L ++V              I+    +  + + 
Sbjct  2243  NAFQTFRWSIFIKGFLVVATVFLFWFNFLYINVIFSDFYLPNISVFPIFVGRIVMWIKAT  2302

Query  1439  LGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISS---  1495
              G+ + C  Y +  +  T    + +C GS  C +C SG D LDTY +++ +Q  +     
Sbjct  2303  FGLVTICDFYSKLGVGFT----SHFCNGSFICELCYSGFDMLDTYAAIDFVQYEVDRRVL  2358

Query  1496  FKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINL  1553
             F + ++   L+ E  + Y L+T +FY L     +QLF ++    F+  +  WL+  I+ +
Sbjct  2359  FDY-VSLVKLIVELVIGYSLYTVWFYPLFCLIGLQLFTTWLPDLFMLETMHWLIRFIVFV  2417

Query  1554  VQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVR  1613
               M P   ++R YI   + Y V     H+V GCN + C+ CYKRN + RV+C+TIV GV 
Sbjct  2418  ANMLPAFVLLRFYIVVTAMYKVVGFIRHIVYGCNKAGCLFCYKRNCSVRVKCSTIVGGVI  2477

Query  1614  RSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIV  1673
             R + + ANGG GFC  H WNC NC +F  G+TFI+ E A +LS + KRP+NPTD S Y+V
Sbjct  2478  RYYDITANGGTGFCVKHQWNCFNCHSFKPGNTFITVEAAIELSKELKRPVNPTDASHYVV  2537

Query  1674  DSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEE  1733
               +      + L++D+ GQ+ Y+    S FV+++NL  +  K    + V+V   +S  + 
Sbjct  2538  TDIKQVGCMMRLFYDRDGQRVYDDVDASLFVDINNLLHSKVKVVPNLYVVV--VESDADR  2595

Query  1734  SSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKT  1793
             ++  +A V+Y+Q + +PILL+D+ L++   +   V   MFD YV+TF S F+V  +    
Sbjct  2596  ANFLNAVVFYAQSLYRPILLVDKKLITTACNGISVTQTMFDVYVDTFMSHFDVDRKSFNN  2655

Query  1794  LVATAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSC  1852
              V  A A L + V L+ VL TF+   R+   +DSDVET+ + + +  +  + +E T ++ 
Sbjct  2656  FVNIAHASLREGVQLEKVLDTFVGCVRKCCSIDSDVETRFITKSMISAVAAGLEFTDENY  2715

Query  1853  NNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIR  1912
             NN + TY K +N+   DLG  I   A+H+   VAK+ NI+ IW +  F  L+  L+ +++
Sbjct  2716  NNLVPTYLKSDNIVAADLGVLIQNGAKHVQGNVAKAANISCIWFIDTFNQLTADLQHKLK  2775

Query  1913  SAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              A  K  L  KLT       V ++TT  +LKGG
Sbjct  2776  KACVKTGLKLKLTFNKQEASVPILTTPFSLKGG  2808


 Score = 82.0 bits (201),  Expect = 7e-14, Method: Compositional matrix adjust.
 Identities = 53/155 (34%), Positives = 79/155 (51%), Gaps = 2/155 (1%)

Query  214   LKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYI  273
             L +T NV     DI+  A+ VK  V+VN AN ++ HGGGVA A+  A       E+   +
Sbjct  1328  LCITPNVCFVKGDIINVARLVKADVIVNPANGHMLHGGGVAKAIAVAAGKKFSKETAAMV  1387

Query  274   ATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKG--EDIQLLKSAYENFNQHEVLLAPLL  331
              + G  +VG   V +G  L K  L++VGP+  +   +   LL  AY++ N ++  L+ L+
Sbjct  1388  KSKGVCQVGDCYVSTGGKLCKTILNIVGPDARQDGRQSYVLLARAYKHLNNYDCCLSTLI  1447

Query  332   SAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             SAGIF      SL   +  V   V L   +K  +D
Sbjct  1448  SAGIFSVPADVSLTYLLGVVDKQVILVSNNKEDFD  1482


 Score = 63.5 bits (153),  Expect = 2e-08, Method: Compositional matrix adjust.
 Identities = 38/117 (32%), Positives = 62/117 (53%), Gaps = 4/117 (3%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F +   V+E+    +V + F+LD   D +L + CS + VE G  V++F  VV D
Sbjct  809  AGRKVNFNEKPVVMEIPSLMTVKVMFDLDSTFDDILGKVCSEFEVEKGVTVDDFVAVVCD  868

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
            A+   L    +   +   +   L++ +    YLFDE+G+  +AS MYC+F   D ++
Sbjct  869  AIENALNSCKDHPVVGYQVRAFLNKLNENVVYLFDEAGDEAMASRMYCTFAIEDVED  925


 Score = 45.1 bits (105),  Expect = 0.009, Method: Compositional matrix adjust.
 Identities = 37/148 (25%), Positives = 64/148 (43%), Gaps = 16/148 (11%)

Query  840   YPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAY  899
             Y +VNGL S      NC+L + LL +Q++  KF   A+++ +   + G   +F   +L  
Sbjct  1115  YFKVNGLWSPTITHTNCWLRSVLLVMQKLPFKFKDLAIENMWLSYKVGYNQSFVDYLLTT  1174

Query  900   CNKTV--GELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLS  957
               K +   + G V +   +     ++++     N  C  CG     L G++AV + G + 
Sbjct  1175  IPKAIVLPQGGYVADFAYWFLNQFDINA---YANWCCLKCG-FSFDLNGLDAVFFYGDI-  1229

Query  958   YEQFKKGVQIPCTCGKQATKYLVQQESP  985
                    V   C CG   T  L+  + P
Sbjct  1230  -------VSHVCKCGHNMT--LIAADLP  1248


>sp|P0C6V0|R1A_CVMA5 Replicase polyprotein 1a OS=Murine coronavirus 
(strain A59) OX=11142 GN=1a PE=1 SV=1
Length=4468

 Score = 478 bits (1230),  Expect = 6e-136, Method: Compositional matrix adjust.
 Identities = 372/1269 (29%), Positives = 592/1269 (47%), Gaps = 115/1269 (9%)

Query  750   IKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTL  809
             + V  TVD +N  +  V     +G+  G  + DG +VTK++    ++GK F+   +    
Sbjct  1611  VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIYKGKVFFQYSDLSEA  1670

Query  810   RVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIE  869
              + A +     D   L +Y + L   K W         + K ++NNCY+  A L LQ + 
Sbjct  1671  DLVAVKDAFGFDEPQLLKYYTMLGMCK-WPVVVCGNYFAFKQSNNNCYINVACLMLQHLS  1729

Query  870   LKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRV  929
             LKF     Q+A+   R+G+   F +L+LA  +    E  D  + M  + + A+L      
Sbjct  1730  LKFPKWQWQEAWNEFRSGKPLRFVSLVLAKGSFKFNEPSDSIDFMRVVLREADLSGATCN  1789

Query  930   LNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM  989
             L  VCK CG +Q   KGV+AVM+ GTL      +G  I CTCG +   +  Q   PF++ 
Sbjct  1790  LEFVCK-CGVKQEQRKGVDAVMHFGTLDKGDLVRGYNIACTCGSKLV-HCTQFNVPFLIC  1847

Query  990   SAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVF  1049
             S  P   +L       A+ +TG    GHY H+  K      D   + K SE KG  TD  
Sbjct  1848  SNTPEGRKLPDDVVA-ANIFTGG-SVGHYTHVKCKPKYQLYDACNVNKVSEAKGNFTDCL  1905

Query  1050  YKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP--NAS  1106
             Y +N   T +    T+ LD V C E  P L  YY +   Y+T +PI     + +   +  
Sbjct  1906  YLKNLKQTFSSVLTTFYLDDVKCVEYKPDLSQYYCESGKYYT-KPIIKAQFRTFEKVDGV  1964

Query  1107  FDNFKFVCDNIKFADDLNQLTGYK-KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGA  1165
             + NFK V  +I  A+ LN   G+       E K+T +P   GDVV      Y   +  G 
Sbjct  1965  YTNFKLVGHSI--AEKLNAKLGFDCNSPFVEYKITEWPTATGDVVLASDDLYVSRYSSGC  2022

Query  1166  KLLHKPIVW--HVNNATNKATY--KPNTWCIRCLWSTKPVETSNSFDV-----------L  1210
                 KP+VW  H   +    TY  +P+  C    ++  PV+ S   D            +
Sbjct  2023  ITFGKPVVWLGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDKGPVPAAVLVTGV  2081

Query  1211  KSEDAQGMDNLACEDLKPVSE--------EVVENPTIQ-KDVLECNV----KTTEVVGDI  1257
                DA     +A E     S         EV + P++   DV E  +    K  +V G +
Sbjct  2082  PGADASAGAGIAKEQKACASASVEDQVVTEVRQEPSVSAADVKEVKLNGVKKPVKVEGSV  2141

Query  1258  ILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPW  1317
             ++    +  K+ + +   D+   ++      +   NELSR+             VNS   
Sbjct  2142  VVNDPTSETKVVKSLSIVDVYDMFLTGCKYVVWTANELSRL-------------VNS---  2185

Query  1318  DTIANYAKPFLNKVVSTTTNIVTRCLNR-------------VCTNYMPYFFTLLLQLCTF  1364
              T+  Y K  + K+V+    ++ R   +              C   + +F         F
Sbjct  2186  PTVREYVKWGMGKIVTPAKLLLLRDEKQEFVAPKVVKAKAIACYCAVKWFLLYCFSWIKF  2245

Query  1365  TRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLIN--------IIIW--  1414
                 N+  K    T +A    K   K C  A  N L++ N+S +           ++W  
Sbjct  2246  ----NTDNKVIYTTEVAS---KLTFKLCCLAFKNALQTFNWSVVSRGFFLVATVFLLWFN  2298

Query  1415  FLLLSVCLGSL---------IYSTAALGVLMSNLGMPSYCTGYRE---GYLNSTNVTIAT  1462
             FL  +V L             +    +    +  G+ + C  Y+    GY +S       
Sbjct  2299  FLYANVILSDFYLPNIGPLPTFVGQIVAWFKTTFGVSTICDFYQVTDLGYRSS-------  2351

Query  1463  YCTGSIPCSVCLSGLDSLDTYPSLETIQITIS---SFKWDLTAFGLVAEWFLAYILFTRF  1519
             +C GS+ C +C SG D LD Y ++  +Q  +    SF + ++ F LV E  + Y L+T  
Sbjct  2352  FCNGSMVCELCFSGFDMLDNYDAINVVQHVVDRRLSFDY-ISLFKLVVELVIGYSLYTVC  2410

Query  1520  FYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWK  1577
             FY L +   MQL  ++    F+  +  W   L + +  M P   ++R YI   + Y V+ 
Sbjct  2411  FYPLFVLIGMQLLTTWLPEFFMLETMHWSARLFVFVANMLPAFTLLRFYIVVTAMYKVYC  2470

Query  1578  SYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNC  1637
                HV+ GC+   C+ CYKRNR+ RV+C+T+V G  R + V ANGG GFC  H WNC+NC
Sbjct  2471  LCRHVMYGCSKPGCLFCYKRNRSVRVKCSTVVGGSLRYYDVMANGGTGFCTKHQWNCLNC  2530

Query  1638  DTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYER  1697
             +++  G+TFI+ E A DLS + KRP+NPTD + Y V  V     S+ L++++ GQ+ Y+ 
Sbjct  2531  NSWKPGNTFITHEAAADLSKELKRPVNPTDSAYYSVTEVKQVGCSMRLFYERDGQRVYDD  2590

Query  1698  HSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQA  1757
              + S FV+++ L  +  KG    +V+V + ++  +++    A+V+Y+Q + +P+L++++ 
Sbjct  2591  VNASLFVDMNGLLHSKVKGVPETHVVVVENEA--DKAGFLGAAVFYAQSLYRPMLMVEKK  2648

Query  1758  LVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFIS  1817
             L++       V+  MFD YV++  +  +V  + L + V  A   L + V L+ V+ TFI 
Sbjct  2649  LITTANTGLSVSRTMFDLYVDSLLNVLDVDRKSLTSFVNAAHNSLKEGVQLEQVMDTFIG  2708

Query  1818  AARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDC  1876
              AR+   +DSDVETK + + +  +  + ++ T +SCNN + TY K + +   DLG  I  
Sbjct  2709  CARRKCAIDSDVETKSITKSVMSAVNAGVDFTDESCNNLVPTYVKSDTIVAADLGVLIQN  2768

Query  1877  SARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVV  1936
             +A+H+ A VAK+ N+A IW+V  F  LS  L+ ++R A  K  L  KLT       V ++
Sbjct  2769  NAKHVQANVAKAANVACIWSVDAFNQLSADLQHRLRKACSKTGLKIKLTYNKQEANVPIL  2828

Query  1937  TTKIALKGG  1945
             TT  +LKGG
Sbjct  2829  TTPFSLKGG  2837


 Score = 79.0 bits (193),  Expect = 6e-13, Method: Compositional matrix adjust.
 Identities = 67/252 (27%), Positives = 118/252 (47%), Gaps = 20/252 (8%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             +T NV     D+++  + V   V+VN AN  + HG GVAGA+ +   +A   E+ D +  
Sbjct  1320  ITPNVCFVKGDVIKVVRLVNAEVIVNPANGRMAHGAGVAGAIAEKAGSAFIKETSDMVKA  1379

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYENFNQHEVLLAPLLS  332
              G  +VG     +G  L K  L++VGP+  +G   Q   LL+ AY++ N+ + ++  L+S
Sbjct  1380  QGVCQVGECYESAGGKLCKKVLNIVGPDA-RGHGKQCYSLLERAYQHINKCDNVVTTLIS  1438

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   +  V  NV L   +++ +D +       +   K +  ++A+    
Sbjct  1439  AGIFSVPTDVSLTYLLGVVTKNVILVSNNQDDFDVIEKCQVTSVAGTKALSLQLAKNLCR  1498

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
             +VK F+T +  S+          ++C       L+E + L  ++ L      ++  N + 
Sbjct  1499  DVK-FVTNACSSLFS--------ESCFVSSYDVLQEVEALRHDIQLDDDARVFVQANMDC  1549

Query  446   HPDSATLVSDID  457
              P    LV+  D
Sbjct  1550  LPTDWRLVNKFD  1561


 Score = 70.5 bits (171),  Expect = 2e-10, Method: Compositional matrix adjust.
 Identities = 44/117 (38%), Positives = 62/117 (53%), Gaps = 4/117 (3%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F D   V ++   + + ITF LD   D VL++ CS + V+    ++E   VV D
Sbjct  832  AGKKVEFNDKPKVRKIPSTRKIKITFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLD  891

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
            AV  TL P  E   + T +   LD  +    YLFDE G+  +A  MYCSF  PD+++
Sbjct  892  AVESTLSPCKEHDVIGTKVCALLDRLAGDYVYLFDEGGDEVIAPRMYCSFSAPDDED  948


>sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavirus 
(strain A59) OX=11142 GN=rep PE=1 SV=1
Length=7176

 Score = 478 bits (1231),  Expect = 7e-136, Method: Compositional matrix adjust.
 Identities = 372/1269 (29%), Positives = 592/1269 (47%), Gaps = 115/1269 (9%)

Query  750   IKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTL  809
             + V  TVD +N  +  V     +G+  G  + DG +VTK++    ++GK F+   +    
Sbjct  1611  VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIYKGKVFFQYSDLSEA  1670

Query  810   RVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIE  869
              + A +     D   L +Y + L   K W         + K ++NNCY+  A L LQ + 
Sbjct  1671  DLVAVKDAFGFDEPQLLKYYTMLGMCK-WPVVVCGNYFAFKQSNNNCYINVACLMLQHLS  1729

Query  870   LKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRV  929
             LKF     Q+A+   R+G+   F +L+LA  +    E  D  + M  + + A+L      
Sbjct  1730  LKFPKWQWQEAWNEFRSGKPLRFVSLVLAKGSFKFNEPSDSIDFMRVVLREADLSGATCN  1789

Query  930   LNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM  989
             L  VCK CG +Q   KGV+AVM+ GTL      +G  I CTCG +   +  Q   PF++ 
Sbjct  1790  LEFVCK-CGVKQEQRKGVDAVMHFGTLDKGDLVRGYNIACTCGSKLV-HCTQFNVPFLIC  1847

Query  990   SAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVF  1049
             S  P   +L       A+ +TG    GHY H+  K      D   + K SE KG  TD  
Sbjct  1848  SNTPEGRKLPDDVVA-ANIFTGG-SVGHYTHVKCKPKYQLYDACNVNKVSEAKGNFTDCL  1905

Query  1050  YKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP--NAS  1106
             Y +N   T +    T+ LD V C E  P L  YY +   Y+T +PI     + +   +  
Sbjct  1906  YLKNLKQTFSSVLTTFYLDDVKCVEYKPDLSQYYCESGKYYT-KPIIKAQFRTFEKVDGV  1964

Query  1107  FDNFKFVCDNIKFADDLNQLTGYK-KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGA  1165
             + NFK V  +I  A+ LN   G+       E K+T +P   GDVV      Y   +  G 
Sbjct  1965  YTNFKLVGHSI--AEKLNAKLGFDCNSPFVEYKITEWPTATGDVVLASDDLYVSRYSSGC  2022

Query  1166  KLLHKPIVW--HVNNATNKATY--KPNTWCIRCLWSTKPVETSNSFDV-----------L  1210
                 KP+VW  H   +    TY  +P+  C    ++  PV+ S   D            +
Sbjct  2023  ITFGKPVVWLGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDKGPVPAAVLVTGV  2081

Query  1211  KSEDAQGMDNLACEDLKPVSE--------EVVENPTIQ-KDVLECNV----KTTEVVGDI  1257
                DA     +A E     S         EV + P++   DV E  +    K  +V G +
Sbjct  2082  PGADASAGAGIAKEQKACASASVEDQVVTEVRQEPSVSAADVKEVKLNGVKKPVKVEGSV  2141

Query  1258  ILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPW  1317
             ++    +  K+ + +   D+   ++      +   NELSR+             VNS   
Sbjct  2142  VVNDPTSETKVVKSLSIVDVYDMFLTGCKYVVWTANELSRL-------------VNS---  2185

Query  1318  DTIANYAKPFLNKVVSTTTNIVTRCLNR-------------VCTNYMPYFFTLLLQLCTF  1364
              T+  Y K  + K+V+    ++ R   +              C   + +F         F
Sbjct  2186  PTVREYVKWGMGKIVTPAKLLLLRDEKQEFVAPKVVKAKAIACYCAVKWFLLYCFSWIKF  2245

Query  1365  TRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLIN--------IIIW--  1414
                 N+  K    T +A    K   K C  A  N L++ N+S +           ++W  
Sbjct  2246  ----NTDNKVIYTTEVAS---KLTFKLCCLAFKNALQTFNWSVVSRGFFLVATVFLLWFN  2298

Query  1415  FLLLSVCLGSL---------IYSTAALGVLMSNLGMPSYCTGYRE---GYLNSTNVTIAT  1462
             FL  +V L             +    +    +  G+ + C  Y+    GY +S       
Sbjct  2299  FLYANVILSDFYLPNIGPLPTFVGQIVAWFKTTFGVSTICDFYQVTDLGYRSS-------  2351

Query  1463  YCTGSIPCSVCLSGLDSLDTYPSLETIQITIS---SFKWDLTAFGLVAEWFLAYILFTRF  1519
             +C GS+ C +C SG D LD Y ++  +Q  +    SF + ++ F LV E  + Y L+T  
Sbjct  2352  FCNGSMVCELCFSGFDMLDNYDAINVVQHVVDRRLSFDY-ISLFKLVVELVIGYSLYTVC  2410

Query  1520  FYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWK  1577
             FY L +   MQL  ++    F+  +  W   L + +  M P   ++R YI   + Y V+ 
Sbjct  2411  FYPLFVLIGMQLLTTWLPEFFMLETMHWSARLFVFVANMLPAFTLLRFYIVVTAMYKVYC  2470

Query  1578  SYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNC  1637
                HV+ GC+   C+ CYKRNR+ RV+C+T+V G  R + V ANGG GFC  H WNC+NC
Sbjct  2471  LCRHVMYGCSKPGCLFCYKRNRSVRVKCSTVVGGSLRYYDVMANGGTGFCTKHQWNCLNC  2530

Query  1638  DTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYER  1697
             +++  G+TFI+ E A DLS + KRP+NPTD + Y V  V     S+ L++++ GQ+ Y+ 
Sbjct  2531  NSWKPGNTFITHEAAADLSKELKRPVNPTDSAYYSVTEVKQVGCSMRLFYERDGQRVYDD  2590

Query  1698  HSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQA  1757
              + S FV+++ L  +  KG    +V+V + ++  +++    A+V+Y+Q + +P+L++++ 
Sbjct  2591  VNASLFVDMNGLLHSKVKGVPETHVVVVENEA--DKAGFLGAAVFYAQSLYRPMLMVEKK  2648

Query  1758  LVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFIS  1817
             L++       V+  MFD YV++  +  +V  + L + V  A   L + V L+ V+ TFI 
Sbjct  2649  LITTANTGLSVSRTMFDLYVDSLLNVLDVDRKSLTSFVNAAHNSLKEGVQLEQVMDTFIG  2708

Query  1818  AARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDC  1876
              AR+   +DSDVETK + + +  +  + ++ T +SCNN + TY K + +   DLG  I  
Sbjct  2709  CARRKCAIDSDVETKSITKSVMSAVNAGVDFTDESCNNLVPTYVKSDTIVAADLGVLIQN  2768

Query  1877  SARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVV  1936
             +A+H+ A VAK+ N+A IW+V  F  LS  L+ ++R A  K  L  KLT       V ++
Sbjct  2769  NAKHVQANVAKAANVACIWSVDAFNQLSADLQHRLRKACSKTGLKIKLTYNKQEANVPIL  2828

Query  1937  TTKIALKGG  1945
             TT  +LKGG
Sbjct  2829  TTPFSLKGG  2837


 Score = 79.0 bits (193),  Expect = 6e-13, Method: Compositional matrix adjust.
 Identities = 67/252 (27%), Positives = 118/252 (47%), Gaps = 20/252 (8%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             +T NV     D+++  + V   V+VN AN  + HG GVAGA+ +   +A   E+ D +  
Sbjct  1320  ITPNVCFVKGDVIKVVRLVNAEVIVNPANGRMAHGAGVAGAIAEKAGSAFIKETSDMVKA  1379

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYENFNQHEVLLAPLLS  332
              G  +VG     +G  L K  L++VGP+  +G   Q   LL+ AY++ N+ + ++  L+S
Sbjct  1380  QGVCQVGECYESAGGKLCKKVLNIVGPDA-RGHGKQCYSLLERAYQHINKCDNVVTTLIS  1438

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   +  V  NV L   +++ +D +       +   K +  ++A+    
Sbjct  1439  AGIFSVPTDVSLTYLLGVVTKNVILVSNNQDDFDVIEKCQVTSVAGTKALSLQLAKNLCR  1498

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
             +VK F+T +  S+          ++C       L+E + L  ++ L      ++  N + 
Sbjct  1499  DVK-FVTNACSSLFS--------ESCFVSSYDVLQEVEALRHDIQLDDDARVFVQANMDC  1549

Query  446   HPDSATLVSDID  457
              P    LV+  D
Sbjct  1550  LPTDWRLVNKFD  1561


 Score = 70.5 bits (171),  Expect = 2e-10, Method: Compositional matrix adjust.
 Identities = 44/117 (38%), Positives = 62/117 (53%), Gaps = 4/117 (3%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F D   V ++   + + ITF LD   D VL++ CS + V+    ++E   VV D
Sbjct  832  AGKKVEFNDKPKVRKIPSTRKIKITFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLD  891

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
            AV  TL P  E   + T +   LD  +    YLFDE G+  +A  MYCSF  PD+++
Sbjct  892  AVESTLSPCKEHDVIGTKVCALLDRLAGDYVYLFDEGGDEVIAPRMYCSFSAPDDED  948


>sp|P0C6U3|R1A_CVHN1 Replicase polyprotein 1a OS=Human coronavirus 
HKU1 (isolate N1) OX=443239 GN=1a PE=1 SV=1
Length=4471

 Score = 477 bits (1228),  Expect = 1e-135, Method: Compositional matrix adjust.
 Identities = 361/1233 (29%), Positives = 583/1233 (47%), Gaps = 79/1233 (6%)

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
             + I V  TVD +N  +  + +   +G+  G  + DG DVTK+K  + +  K  Y   N  
Sbjct  1650  KKIDVLLTVDGVNFKSISLTVGEVFGKILGNVFCDGIDVTKLKCSDFYADKILYQYENLS  1709

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNG-LTSIKWADNNCYLATALLTLQ  866
                + A +     D   L  Y + L    KW    VNG   S + + NNCY+  A L LQ
Sbjct  1710  LADISAVQSSFGFDQQQLLAYYNFLT-VCKWSVV-VNGPFFSFEQSHNNCYVNVACLMLQ  1767

Query  867   QIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSC  926
              I LKFN    Q+A+Y  RAG      AL+LA  +    E  D  + +  + + A+L   
Sbjct  1768  HINLKFNKWQWQEAWYEFRAGRPHRLVALVLAKGHFKFDEPSDATDFIRVVLKQADLSGA  1827

Query  927   KRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPF  986
                L ++C  CG +Q +  GV+AVM+ GTL+      G +I C C  +   +  +   PF
Sbjct  1828  ICELELICD-CGIKQESRVGVDAVMHFGTLAKTDLFNGYKIGCNCAGRIV-HCTKLNVPF  1885

Query  987   VMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPIT  1046
             ++ S  P   +L       A+ + G    GHY H+         D   + K +   G +T
Sbjct  1886  LICSNTPLSKDLPDDV-VAANMFMG-VGVGHYTHLKCGSPYQHYDACSVKKYTGVSGCLT  1943

Query  1047  DVFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP--  1103
             D  Y +N + T T     Y LD V     +P L  YY  +  Y+T +PI     +P+   
Sbjct  1944  DCLYLKNLTQTFTSMLTNYFLDDVEMVAYNPDLSQYYCDNGKYYT-KPIIKAQFKPFAKV  2002

Query  1104  NASFDNFKFVCDNIKFADDLNQLTGYKKPASR-ELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
             +  + NFK V  +I     LN   G+       E KVT +P   GDVV      Y   + 
Sbjct  2003  DGVYTNFKLVGHDI--CAQLNDKLGFNVDLPFVEYKVTVWPVATGDVVLASDDLYVKRYF  2060

Query  1163  KGAKLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDN  1220
             KG +   KP++W  H   + N  TY          ++    ++ N + VL       +D+
Sbjct  2061  KGCETFGKPVIWFCHDEASLNSLTY----------FNKPSFKSENRYSVLS------VDS  2104

Query  1221  LACEDLKPVSEEVVENPTIQKDV-LECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMA  1279
             ++ E    V   V+E+    K+V L+   KT ++   II+   N+S+K+ + +   D+  
Sbjct  2105  VSEESQGNVVTSVMESQISTKEVKLKGVRKTVKIEDAIIVNDENSSIKVVKSLSLVDVWD  2164

Query  1280  AYVDNSSLTIKKPNELSRVLGLKTL---ATHGLAAVNSVPWDTIANYAKPFLNKVVSTTT  1336
              Y+      +   NELSR++   T+     +G+  + ++P D +        N+ +    
Sbjct  2165  MYLTGCDYVVWVANELSRLVKSPTVREYIRYGIKPI-TIPIDLLCLRDD---NQTLLVPK  2220

Query  1337  NIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCL--E  1394
                 R +      ++ + F  +  L  FT          + +    N       FCL  +
Sbjct  2221  IFKARAIEFY--GFLKWLFIYVFSLLHFTNDKTIFYTTEIASKFTFNL------FCLALK  2272

Query  1395  ASFNYLKSPNFSKLINII-----IWF--LLLSVCLGSL---------IYSTAALGVLMSN  1438
              +F   +   F K   ++      WF  L ++V              I+    +  + + 
Sbjct  2273  NAFQTFRWSIFIKGFLVVATVFLFWFNFLYINVIFSDFYLPNISVFPIFVGRIVMWIKAT  2332

Query  1439  LGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISS---  1495
              G+ + C  Y +  +  T    + +C GS  C +C SG D LDTY +++ +Q  +     
Sbjct  2333  FGLVTICDFYSKLGVGFT----SHFCNGSFICELCHSGFDMLDTYAAIDFVQYEVDRRVL  2388

Query  1496  FKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINL  1553
             F + ++   L+ E  + Y L+T +FY L     +QLF ++    F+  +  WL+  I+ +
Sbjct  2389  FDY-VSLVKLIVELVIGYSLYTVWFYPLFCLIGLQLFTTWLPDLFMLETMHWLIRFIVFV  2447

Query  1554  VQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVR  1613
               M P   ++R YI   + Y V     H+V GCN + C+ CYKRN + RV+C+TIV GV 
Sbjct  2448  ANMLPAFVLLRFYIVVTAMYKVVGFIRHIVYGCNKAGCLFCYKRNCSVRVKCSTIVGGVI  2507

Query  1614  RSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIV  1673
             R + + ANGG GFC  H WNC NC +F  G+TFI+ E A +LS + KRP+NPTD S Y+V
Sbjct  2508  RYYDITANGGTGFCVKHQWNCFNCHSFKPGNTFITVEAAIELSKELKRPVNPTDASHYVV  2567

Query  1674  DSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEE  1733
               +      + L++D+ GQ+ Y+    S FV+++NL  +  K    + V+V   +S  + 
Sbjct  2568  TDIKQVGCMMRLFYDRDGQRVYDDVDASLFVDINNLLHSKVKVVPNLYVVV--VESDADR  2625

Query  1734  SSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKT  1793
             ++  +A V+Y+Q + +PILL+D+ L++   +   V   MFD YV+TF S F+V  +    
Sbjct  2626  ANFLNAVVFYAQSLYRPILLVDKKLITTACNGISVTQTMFDVYVDTFMSHFDVDRKSFNN  2685

Query  1794  LVATAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSC  1852
              V  A A L + V L+ VL TF+   R+   +DSDVET+ + + +  +  + +E T ++ 
Sbjct  2686  FVNIAHASLREGVQLEKVLDTFVGCVRKCCSIDSDVETRFITKSMISAVAAGLEFTDENY  2745

Query  1853  NNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIR  1912
             NN + TY K +N+   DLG  I   A+H+   VAK+ NI+ IW +  F  L+  L+ +++
Sbjct  2746  NNLVPTYLKSDNIVAADLGVLIQNGAKHVQGNVAKAANISCIWFIDAFNQLTADLQHKLK  2805

Query  1913  SAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              A  K  L  KLT       V ++TT  +LKGG
Sbjct  2806  KACVKTGLKLKLTFNKQEASVPILTTPFSLKGG  2838


 Score = 82.0 bits (201),  Expect = 7e-14, Method: Compositional matrix adjust.
 Identities = 53/155 (34%), Positives = 79/155 (51%), Gaps = 2/155 (1%)

Query  214   LKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYI  273
             L +T NV     DI+  A+ VK  V+VN AN ++ HGGGVA A+  A       E+   +
Sbjct  1358  LCITPNVCFVKGDIINVARLVKADVIVNPANGHMLHGGGVAKAIAVAAGKKFSKETAAMV  1417

Query  274   ATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKG--EDIQLLKSAYENFNQHEVLLAPLL  331
              + G  +VG   V +G  L K  L++VGP+  +   +   LL  AY++ N ++  L+ L+
Sbjct  1418  KSKGVCQVGDCYVSTGGKLCKTILNIVGPDARQDGRQSYVLLARAYKHLNNYDCCLSTLI  1477

Query  332   SAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             SAGIF      SL   +  V   V L   +K  +D
Sbjct  1478  SAGIFSVPADVSLTYLLGVVDKQVILVSNNKEDFD  1512


 Score = 64.7 bits (156),  Expect = 1e-08, Method: Compositional matrix adjust.
 Identities = 39/117 (33%), Positives = 62/117 (53%), Gaps = 4/117 (3%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F +   V+E+    +V + F+LD   D +L + CS + VE G  V++F  VV D
Sbjct  809  AGRKVNFNEKPVVMEIPSLMTVKVMFDLDSTFDDILGKVCSEFEVEKGVTVDDFVAVVCD  868

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
            A+   L    E   +   +   L++ +    YLFDE+G+  +AS MYC+F   D ++
Sbjct  869  AIENALNSCKEHPVVGYQVRAFLNKLNENVVYLFDEAGDEAMASRMYCTFAIEDVED  925


 Score = 44.3 bits (103),  Expect = 0.018, Method: Compositional matrix adjust.
 Identities = 36/148 (24%), Positives = 64/148 (43%), Gaps = 16/148 (11%)

Query  840   YPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAY  899
             Y +VNGL S      NC+L + LL +Q++  KF   A+++ +   + G   +F   +L  
Sbjct  1145  YFKVNGLWSPTITHTNCWLRSVLLVMQKLPFKFKDLAIENMWLSYKVGYNQSFVDYLLTT  1204

Query  900   CNKTV--GELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLS  957
               K +   + G V +   +     ++++     N  C  CG     L G++A+ + G + 
Sbjct  1205  IPKAIVLPQGGFVADFAYWFLNQFDINA---YANWCCLKCG-FSFDLNGLDALFFYGDI-  1259

Query  958   YEQFKKGVQIPCTCGKQATKYLVQQESP  985
                    V   C CG   T  L+  + P
Sbjct  1260  -------VSHVCKCGHNMT--LIAADLP  1278


>sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavirus 
HKU1 (isolate N1) OX=443239 GN=rep PE=3 SV=1
Length=7182

 Score = 477 bits (1228),  Expect = 1e-135, Method: Compositional matrix adjust.
 Identities = 360/1231 (29%), Positives = 583/1231 (47%), Gaps = 75/1231 (6%)

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
             + I V  TVD +N  +  + +   +G+  G  + DG DVTK+K  + +  K  Y   N  
Sbjct  1650  KKIDVLLTVDGVNFKSISLTVGEVFGKILGNVFCDGIDVTKLKCSDFYADKILYQYENLS  1709

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNG-LTSIKWADNNCYLATALLTLQ  866
                + A +     D   L  Y + L    KW    VNG   S + + NNCY+  A L LQ
Sbjct  1710  LADISAVQSSFGFDQQQLLAYYNFLT-VCKWSVV-VNGPFFSFEQSHNNCYVNVACLMLQ  1767

Query  867   QIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSC  926
              I LKFN    Q+A+Y  RAG      AL+LA  +    E  D  + +  + + A+L   
Sbjct  1768  HINLKFNKWQWQEAWYEFRAGRPHRLVALVLAKGHFKFDEPSDATDFIRVVLKQADLSGA  1827

Query  927   KRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPF  986
                L ++C  CG +Q +  GV+AVM+ GTL+      G +I C C  +   +  +   PF
Sbjct  1828  ICELELICD-CGIKQESRVGVDAVMHFGTLAKTDLFNGYKIGCNCAGRIV-HCTKLNVPF  1885

Query  987   VMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPIT  1046
             ++ S  P   +L       A+ + G    GHY H+         D   + K +   G +T
Sbjct  1886  LICSNTPLSKDLPDDV-VAANMFMG-VGVGHYTHLKCGSPYQHYDACSVKKYTGVSGCLT  1943

Query  1047  DVFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP--  1103
             D  Y +N + T T     Y LD V     +P L  YY  +  Y+T +PI     +P+   
Sbjct  1944  DCLYLKNLTQTFTSMLTNYFLDDVEMVAYNPDLSQYYCDNGKYYT-KPIIKAQFKPFAKV  2002

Query  1104  NASFDNFKFVCDNIKFADDLNQLTGYKKPASR-ELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
             +  + NFK V  +I     LN   G+       E KVT +P   GDVV      Y   + 
Sbjct  2003  DGVYTNFKLVGHDI--CAQLNDKLGFNVDLPFVEYKVTVWPVATGDVVLASDDLYVKRYF  2060

Query  1163  KGAKLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDN  1220
             KG +   KP++W  H   + N  TY          ++    ++ N + VL       +D+
Sbjct  2061  KGCETFGKPVIWFCHDEASLNSLTY----------FNKPSFKSENRYSVLS------VDS  2104

Query  1221  LACEDLKPVSEEVVENPTIQKDV-LECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMA  1279
             ++ E    V   V+E+    K+V L+   KT ++   II+   N+S+K+ + +   D+  
Sbjct  2105  VSEESQGNVVTSVMESQISTKEVKLKGVRKTVKIEDAIIVNDENSSIKVVKSLSLVDVWD  2164

Query  1280  AYVDNSSLTIKKPNELSRVLG---LKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTT  1336
              Y+      +   NELSR++    ++    +G+  + ++P D +        N+ +    
Sbjct  2165  MYLTGCDYVVWVANELSRLVKSPTVREYIRYGIKPI-TIPIDLLCLRDD---NQTLLVPK  2220

Query  1337  NIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEAS  1396
                 R +      ++ + F  +  L  FT            T IA     ++    L+ +
Sbjct  2221  IFKARAIEFY--GFLKWLFIYVFSLLHFTNDKT----IFYTTEIASKFTFNLFCLALKNA  2274

Query  1397  FNYLKSPNFSKLINII-----IWF--LLLSVCLGSL---------IYSTAALGVLMSNLG  1440
             F   +   F K   ++      WF  L ++V              I+    +  + +  G
Sbjct  2275  FQTFRWSIFIKGFLVVATVFLFWFNFLYINVIFSDFYLPNISVFPIFVGRIVMWIKATFG  2334

Query  1441  MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISS---FK  1497
             + + C  Y +  +  T    + +C GS  C +C SG D LDTY +++ +Q  +     F 
Sbjct  2335  LVTICDFYSKLGVGFT----SHFCNGSFICELCHSGFDMLDTYAAIDFVQYEVDRRVLFD  2390

Query  1498  WDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQ  1555
             + ++   L+ E  + Y L+T +FY L     +QLF ++    F+  +  WL+  I+ +  
Sbjct  2391  Y-VSLVKLIVELVIGYSLYTVWFYPLFCLIGLQLFTTWLPDLFMLETMHWLIRFIVFVAN  2449

Query  1556  MAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRS  1615
             M P   ++R YI   + Y V     H+V GCN + C+ CYKRN + RV+C+TIV GV R 
Sbjct  2450  MLPAFVLLRFYIVVTAMYKVVGFIRHIVYGCNKAGCLFCYKRNCSVRVKCSTIVGGVIRY  2509

Query  1616  FYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDS  1675
             + + ANGG GFC  H WNC NC +F  G+TFI+ E A +LS + KRP+NPTD S Y+V  
Sbjct  2510  YDITANGGTGFCVKHQWNCFNCHSFKPGNTFITVEAAIELSKELKRPVNPTDASHYVVTD  2569

Query  1676  VTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESS  1735
             +      + L++D+ GQ+ Y+    S FV+++NL  +  K    + V+V +  S  + ++
Sbjct  2570  IKQVGCMMRLFYDRDGQRVYDDVDASLFVDINNLLHSKVKVVPNLYVVVVE--SDADRAN  2627

Query  1736  AKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLV  1795
               +A V+Y+Q + +PILL+D+ L++   +   V   MFD YV+TF S F+V  +     V
Sbjct  2628  FLNAVVFYAQSLYRPILLVDKKLITTACNGISVTQTMFDVYVDTFMSHFDVDRKSFNNFV  2687

Query  1796  ATAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNN  1854
               A A L + V L+ VL TF+   R+   +DSDVET+ + + +  +  + +E T ++ NN
Sbjct  2688  NIAHASLREGVQLEKVLDTFVGCVRKCCSIDSDVETRFITKSMISAVAAGLEFTDENYNN  2747

Query  1855  YMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSA  1914
              + TY K +N+   DLG  I   A+H+   VAK+ NI+ IW +  F  L+  L+ +++ A
Sbjct  2748  LVPTYLKSDNIVAADLGVLIQNGAKHVQGNVAKAANISCIWFIDAFNQLTADLQHKLKKA  2807

Query  1915  AKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
               K  L  KLT       V ++TT  +LKGG
Sbjct  2808  CVKTGLKLKLTFNKQEASVPILTTPFSLKGG  2838


 Score = 82.0 bits (201),  Expect = 7e-14, Method: Compositional matrix adjust.
 Identities = 53/155 (34%), Positives = 79/155 (51%), Gaps = 2/155 (1%)

Query  214   LKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYI  273
             L +T NV     DI+  A+ VK  V+VN AN ++ HGGGVA A+  A       E+   +
Sbjct  1358  LCITPNVCFVKGDIINVARLVKADVIVNPANGHMLHGGGVAKAIAVAAGKKFSKETAAMV  1417

Query  274   ATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKG--EDIQLLKSAYENFNQHEVLLAPLL  331
              + G  +VG   V +G  L K  L++VGP+  +   +   LL  AY++ N ++  L+ L+
Sbjct  1418  KSKGVCQVGDCYVSTGGKLCKTILNIVGPDARQDGRQSYVLLARAYKHLNNYDCCLSTLI  1477

Query  332   SAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             SAGIF      SL   +  V   V L   +K  +D
Sbjct  1478  SAGIFSVPADVSLTYLLGVVDKQVILVSNNKEDFD  1512


 Score = 65.1 bits (157),  Expect = 8e-09, Method: Compositional matrix adjust.
 Identities = 39/117 (33%), Positives = 62/117 (53%), Gaps = 4/117 (3%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F +   V+E+    +V + F+LD   D +L + CS + VE G  V++F  VV D
Sbjct  809  AGRKVNFNEKPVVMEIPSLMTVKVMFDLDSTFDDILGKVCSEFEVEKGVTVDDFVAVVCD  868

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
            A+   L    E   +   +   L++ +    YLFDE+G+  +AS MYC+F   D ++
Sbjct  869  AIENALNSCKEHPVVGYQVRAFLNKLNENVVYLFDEAGDEAMASRMYCTFAIEDVED  925


 Score = 44.3 bits (103),  Expect = 0.018, Method: Compositional matrix adjust.
 Identities = 36/148 (24%), Positives = 64/148 (43%), Gaps = 16/148 (11%)

Query  840   YPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAY  899
             Y +VNGL S      NC+L + LL +Q++  KF   A+++ +   + G   +F   +L  
Sbjct  1145  YFKVNGLWSPTITHTNCWLRSVLLVMQKLPFKFKDLAIENMWLSYKVGYNQSFVDYLLTT  1204

Query  900   CNKTV--GELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLS  957
               K +   + G V +   +     ++++     N  C  CG     L G++A+ + G + 
Sbjct  1205  IPKAIVLPQGGFVADFAYWFLNQFDINA---YANWCCLKCG-FSFDLNGLDALFFYGDI-  1259

Query  958   YEQFKKGVQIPCTCGKQATKYLVQQESP  985
                    V   C CG   T  L+  + P
Sbjct  1260  -------VSHVCKCGHNMT--LIAADLP  1278


>sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavirus 
HKU1 (isolate N2) OX=443240 GN=rep PE=3 SV=1
Length=7152

 Score = 477 bits (1228),  Expect = 1e-135, Method: Compositional matrix adjust.
 Identities = 361/1233 (29%), Positives = 583/1233 (47%), Gaps = 79/1233 (6%)

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
             + I V  TVD +N  +  + +   +G+  G  + DG DVTK+K  + +  K  Y   N  
Sbjct  1620  KKIDVLLTVDGVNFKSISLTVGEVFGKILGNVFCDGIDVTKLKCSDFYADKILYQYENLS  1679

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNG-LTSIKWADNNCYLATALLTLQ  866
                + A +     D   L  Y + L    KW    VNG   S + + NNCY+  A L LQ
Sbjct  1680  LADISAVQSSFGFDQQQLLAYYNFLT-VCKWSVV-VNGPFFSFEQSHNNCYVNVACLMLQ  1737

Query  867   QIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSC  926
              I LKFN    Q+A+Y  RAG      AL+LA  +    E  D  + +  + + A+L   
Sbjct  1738  HINLKFNKWQWQEAWYEFRAGRPHRLVALVLAKGHFKFDEPSDATDFIRVVLKQADLSGA  1797

Query  927   KRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPF  986
                L ++C  CG +Q +  GV+AVM+ GTL+      G +I C C  +   +  +   PF
Sbjct  1798  ICELELICD-CGIKQESRVGVDAVMHFGTLAKTDLFNGYKIGCNCAGRIV-HCTKLNVPF  1855

Query  987   VMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPIT  1046
             ++ S  P   +L       A+ + G    GHY H+         D   + K +   G +T
Sbjct  1856  LICSNTPLSKDLPDDV-VAANMFMG-VGVGHYTHLKCGSPYQHYDACSVKKYTGVSGCLT  1913

Query  1047  DVFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP--  1103
             D  Y +N + T T     Y LD V     +P L  YY  +  Y+T +PI     +P+   
Sbjct  1914  DCLYLKNLTQTFTSMLTNYFLDDVEMVAYNPDLSQYYCDNGKYYT-KPIIKAQFKPFAKV  1972

Query  1104  NASFDNFKFVCDNIKFADDLNQLTGYKKPASR-ELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
             +  + NFK V  +I     LN   G+       E KVT +P   GDVV      Y   + 
Sbjct  1973  DGVYTNFKLVGHDI--CAQLNDKLGFNVDLPFVEYKVTVWPVATGDVVLASDDLYVKRYF  2030

Query  1163  KGAKLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDN  1220
             KG +   KP++W  H   + N  TY          ++    ++ N + VL       +D+
Sbjct  2031  KGCETFGKPVIWLCHDEASLNSLTY----------FNKPSFKSENRYSVLS------VDS  2074

Query  1221  LACEDLKPVSEEVVENPTIQKDV-LECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMA  1279
             ++ E    V   V+E+    K+V L+   KT ++   II+   N+S+K+ + +   D+  
Sbjct  2075  VSEESQGNVVTSVMESQISTKEVKLKGVRKTVKIEDAIIVNDENSSIKVVKSLSLVDVWD  2134

Query  1280  AYVDNSSLTIKKPNELSRVLGLKTL---ATHGLAAVNSVPWDTIANYAKPFLNKVVSTTT  1336
              Y+      +   NELSR++   T+     +G+  + ++P D +        N+ +    
Sbjct  2135  MYLTGCDYVVWVANELSRLVKSPTVREYIRYGIKPI-TIPIDLLCLRDD---NQTLLVPK  2190

Query  1337  NIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCL--E  1394
                 R +      ++ + F  +  L  FT          + +    N       FCL  +
Sbjct  2191  IFKARAIEFY--GFLKWLFIYVFSLLHFTNDKTIFYTTEIASKFTFNL------FCLALK  2242

Query  1395  ASFNYLKSPNFSKLINII-----IWF--LLLSVCLGSL---------IYSTAALGVLMSN  1438
              +F   +   F K   ++      WF  L ++V              I+    +  + + 
Sbjct  2243  NAFQTFRWSIFIKGFLVVATVFLFWFNFLYINVIFSDFYLPNISVFPIFVGRIVMWIKAT  2302

Query  1439  LGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISS---  1495
              G+ + C  Y +  +  T    + +C GS  C +C SG D LDTY +++ +Q  +     
Sbjct  2303  FGLVTICDFYSKLGVGFT----SHFCNGSFICELCYSGFDMLDTYAAIDFVQYEVDRRVL  2358

Query  1496  FKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINL  1553
             F + ++   L+ E  + Y L+T +FY L     +QLF ++    F+  +  WL+  I+ +
Sbjct  2359  FDY-VSLVKLIVELVIGYSLYTVWFYPLFCLIGLQLFTTWLPDLFMLETMHWLIRFIVFV  2417

Query  1554  VQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVR  1613
               M P   ++R YI   + Y V     H+V GCN + C+ CYKRN + RV+C+TIV GV 
Sbjct  2418  ANMLPAFVLLRFYIVVTAMYKVVGFIRHIVYGCNKAGCLFCYKRNCSVRVKCSTIVGGVI  2477

Query  1614  RSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIV  1673
             R + + ANGG GFC  H WNC NC +F  G+TFI+ E A +LS + KRP+NPTD S Y+V
Sbjct  2478  RYYDITANGGTGFCVKHQWNCFNCHSFKPGNTFITVEAAIELSKELKRPVNPTDASHYVV  2537

Query  1674  DSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEE  1733
               +      + L++D+ GQ+ Y+    S FV+++NL  +  K    + V+V +  S  + 
Sbjct  2538  TDIKQVGCMMRLFYDRDGQRVYDDVDASLFVDINNLLHSKVKVVPNLYVVVVE--SDADR  2595

Query  1734  SSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKT  1793
             ++  +A V+Y+Q + +PILL+D+ L++   +   V   MFD YV+TF S F+V  +    
Sbjct  2596  ANFLNAVVFYAQSLYRPILLVDKKLITTACNGISVTQTMFDVYVDTFMSHFDVDRKSFNN  2655

Query  1794  LVATAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSC  1852
              V  A A L + V L+ VL TF+   R+   +DSDVET+ + + +  +  + +E T ++ 
Sbjct  2656  FVNIAHASLREGVQLEKVLDTFVGCVRKCCSIDSDVETRFITKSMISAVAAGLEFTDENY  2715

Query  1853  NNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIR  1912
             NN + TY K +N+   DLG  I   A+H+   VAK+ NI+ IW +  F  L+  L+ +++
Sbjct  2716  NNLVPTYLKSDNIVAADLGVLIQNGAKHVQGNVAKAANISCIWFIDTFNQLTADLQHKLK  2775

Query  1913  SAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              A  K  L  KLT       V ++TT  +LKGG
Sbjct  2776  KACVKTGLKLKLTFNKQEASVPILTTPFSLKGG  2808


 Score = 82.0 bits (201),  Expect = 7e-14, Method: Compositional matrix adjust.
 Identities = 53/155 (34%), Positives = 79/155 (51%), Gaps = 2/155 (1%)

Query  214   LKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYI  273
             L +T NV     DI+  A+ VK  V+VN AN ++ HGGGVA A+  A       E+   +
Sbjct  1328  LCITPNVCFVKGDIINVARLVKADVIVNPANGHMLHGGGVAKAIAVAAGKKFSKETAAMV  1387

Query  274   ATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKG--EDIQLLKSAYENFNQHEVLLAPLL  331
              + G  +VG   V +G  L K  L++VGP+  +   +   LL  AY++ N ++  L+ L+
Sbjct  1388  KSKGVCQVGDCYVSTGGKLCKTILNIVGPDARQDGRQSYVLLARAYKHLNNYDCCLSTLI  1447

Query  332   SAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             SAGIF      SL   +  V   V L   +K  +D
Sbjct  1448  SAGIFSVPADVSLTYLLGVVDKQVILVSNNKEDFD  1482


 Score = 63.9 bits (154),  Expect = 2e-08, Method: Compositional matrix adjust.
 Identities = 38/117 (32%), Positives = 62/117 (53%), Gaps = 4/117 (3%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F +   V+E+    +V + F+LD   D +L + CS + VE G  V++F  VV D
Sbjct  809  AGRKVNFNEKPVVMEIPSLMTVKVMFDLDSTFDDILGKVCSEFEVEKGVTVDDFVAVVCD  868

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
            A+   L    +   +   +   L++ +    YLFDE+G+  +AS MYC+F   D ++
Sbjct  869  AIENALNSCKDHPVVGYQVRAFLNKLNENVVYLFDEAGDEAMASRMYCTFAIEDVED  925


 Score = 45.4 bits (106),  Expect = 0.008, Method: Compositional matrix adjust.
 Identities = 37/148 (25%), Positives = 64/148 (43%), Gaps = 16/148 (11%)

Query  840   YPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAY  899
             Y +VNGL S      NC+L + LL +Q++  KF   A+++ +   + G   +F   +L  
Sbjct  1115  YFKVNGLWSPTITHTNCWLRSVLLVMQKLPFKFKDLAIENMWLSYKVGYNQSFVDYLLTT  1174

Query  900   CNKTV--GELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLS  957
               K +   + G V +   +     ++++     N  C  CG     L G++AV + G + 
Sbjct  1175  IPKAIVLPQGGYVADFAYWFLNQFDINA---YANWCCLKCG-FSFDLNGLDAVFFYGDI-  1229

Query  958   YEQFKKGVQIPCTCGKQATKYLVQQESP  985
                    V   C CG   T  L+  + P
Sbjct  1230  -------VSHVCKCGHNMT--LIAADLP  1248


>sp|P0C6U5|R1A_CVHN5 Replicase polyprotein 1a OS=Human coronavirus 
HKU1 (isolate N5) OX=443241 GN=1a PE=3 SV=1
Length=4421

 Score = 475 bits (1223),  Expect = 4e-135, Method: Compositional matrix adjust.
 Identities = 361/1233 (29%), Positives = 582/1233 (47%), Gaps = 79/1233 (6%)

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
             + I V  TVD +N  +  + +   +G+  G  + DG DVTK+K  + +  K  Y   N  
Sbjct  1600  KKIDVLLTVDGVNFKSISLTVGEVFGKILGNVFCDGIDVTKLKCSDFYADKILYQYENLS  1659

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNG-LTSIKWADNNCYLATALLTLQ  866
                + A +     D   L  Y + L    KW    VNG   S + + NNCY+  A L LQ
Sbjct  1660  LADISAVQSSFGFDQQQLLAYYNFLT-VCKWSVV-VNGPFFSFEQSHNNCYVNVACLMLQ  1717

Query  867   QIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSC  926
              I LKFN    Q+A+Y  RAG      AL+LA  +    E  D  + +  + + A+L   
Sbjct  1718  HINLKFNKWQWQEAWYEFRAGRPHRLVALVLAKGHFKFDEPSDATDFIRVVLKQADLSGA  1777

Query  927   KRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPF  986
                L ++C  CG +Q +  GV+AVM+ GTL+      G +I C C  +   +  +   PF
Sbjct  1778  ICELELICD-CGIKQESRVGVDAVMHFGTLAKTDLFNGYKIGCNCAGRIV-HCTKLNVPF  1835

Query  987   VMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPIT  1046
             ++ S  P   +L       A+ + G    GHY H+         D   + K +   G +T
Sbjct  1836  LICSNTPLSKDLPDDV-VAANMFMG-VGVGHYTHLKCGSPYQHYDACSVKKYTGVSGCLT  1893

Query  1047  DVFYKENSYTTTIKPVT-YKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP--  1103
             D  Y +N   T    +T Y LD V     +P L  YY  +  Y+T +PI     +P+   
Sbjct  1894  DCLYLKNLTQTFTSMLTNYFLDDVEMVAYNPDLSQYYCDNGKYYT-KPIIKAQFKPFAKV  1952

Query  1104  NASFDNFKFVCDNIKFADDLNQLTGYKKPASR-ELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
             +  + NFK V  +I     LN   G+       E KVT +P   GDVV      Y   + 
Sbjct  1953  DGVYTNFKLVGHDI--CAQLNDKLGFNVDLPFVEYKVTVWPVATGDVVLASDDLYVKRYF  2010

Query  1163  KGAKLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDN  1220
             KG +   KP++W  H   + N  TY          ++    ++ N + VL       +D+
Sbjct  2011  KGCETFGKPVIWFCHDEASLNSLTY----------FNKPSFKSENRYSVLS------VDS  2054

Query  1221  LACEDLKPVSEEVVENPTIQKDV-LECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMA  1279
             ++ E    V   V+E+    K+V L+   KT ++   II+   N+S+K+ + +   D+  
Sbjct  2055  VSEESQGNVVTSVMESQISTKEVKLKGVRKTVKIEDAIIVNDENSSIKVVKSLSLVDVWD  2114

Query  1280  AYVDNSSLTIKKPNELSRVLGLKTL---ATHGLAAVNSVPWDTIANYAKPFLNKVVSTTT  1336
              Y+      +   NELSR++   T+     +G+  + ++P D +        N+ +    
Sbjct  2115  MYLTGCDYVVWVANELSRLVKSPTVREYIRYGIKPI-TIPIDLLCLRDD---NQTLLVPK  2170

Query  1337  NIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCL--E  1394
                 R +      ++ + F  +  L  FT          + +    N       FCL  +
Sbjct  2171  IFKARAIEFY--GFLKWLFIYVFSLLHFTNDKTIFYTTEIASKFTFNL------FCLALK  2222

Query  1395  ASFNYLKSPNFSKLINII-----IWF--LLLSVCLGSL---------IYSTAALGVLMSN  1438
              +F   +   F K   ++      WF  L ++V              I+    +  + + 
Sbjct  2223  NAFQTFRWSIFIKGFLVVATVFLFWFNFLYINVIFSDFYLPNISVFPIFVGRIVMWIKAT  2282

Query  1439  LGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISS---  1495
              G+ + C  Y +  +  T    + +C GS  C +C SG D LDTY +++ +Q  +     
Sbjct  2283  FGLVTICDFYSKLGVGFT----SHFCNGSFICELCHSGFDMLDTYAAIDFVQYEVDRRVL  2338

Query  1496  FKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINL  1553
             F + ++   L+ E  + Y L+T +FY L     +QLF ++    F+  +  WL+  I+ +
Sbjct  2339  FDY-VSLVKLIVELVIGYSLYTVWFYPLFCLIGLQLFTTWLPDLFMLETMHWLIRFIVFV  2397

Query  1554  VQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVR  1613
               M P   ++R YI   + Y V     H+V GCN + C+ CYKRN + RV+C+TIV GV 
Sbjct  2398  ANMLPAFVLLRFYIVVTAMYKVVGFIRHIVYGCNKAGCLFCYKRNCSVRVKCSTIVGGVI  2457

Query  1614  RSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIV  1673
             R + + ANGG GFC  H WNC NC +F  G+TFI+ E A +LS + KRP+NPTD S Y+V
Sbjct  2458  RYYDITANGGTGFCVKHQWNCFNCHSFKPGNTFITVEAAIELSKELKRPVNPTDASHYVV  2517

Query  1674  DSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEE  1733
               +      + L++D+ GQ+ Y+    S FV+++NL  +  K    + V+V   +S  + 
Sbjct  2518  TDIKQVGCMMRLFYDRDGQRVYDDVDASLFVDINNLLHSKVKVVPNLYVVV--VESDADR  2575

Query  1734  SSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKT  1793
             ++  +A V+Y+Q + +PILL+D+ L++   +   V   MFD YV+TF S F+V  +    
Sbjct  2576  ANFLNAVVFYAQSLYRPILLVDKKLITTACNGISVTQIMFDVYVDTFMSHFDVDRKSFNN  2635

Query  1794  LVATAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSC  1852
              V  A A L + V L+ VL TF+   R+   +DSDVET+ + + +  +  + +E T ++ 
Sbjct  2636  FVNIAHASLREGVQLEKVLDTFVGCVRKCCSIDSDVETRFITKSMISAVAAGLEFTDENY  2695

Query  1853  NNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIR  1912
             NN + TY K +N+   DLG  I   A+H+   VAK  NI+ IW +  F  L+  L+ +++
Sbjct  2696  NNLVPTYLKSDNIVAADLGVLIQNGAKHVQGNVAKVANISCIWFIDAFNQLTADLQHKLK  2755

Query  1913  SAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              A  K  L  KLT       V ++TT  +LKGG
Sbjct  2756  KACVKTGLKLKLTFNKQEASVPILTTPFSLKGG  2788


 Score = 82.0 bits (201),  Expect = 6e-14, Method: Compositional matrix adjust.
 Identities = 53/155 (34%), Positives = 79/155 (51%), Gaps = 2/155 (1%)

Query  214   LKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYI  273
             L +T NV     DI+  A+ VK  V+VN AN ++ HGGGVA A+  A       E+   +
Sbjct  1308  LCITPNVCFVKGDIINVARLVKADVIVNPANGHMLHGGGVAKAIAVAAGKKFSKETAAMV  1367

Query  274   ATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKG--EDIQLLKSAYENFNQHEVLLAPLL  331
              + G  +VG   V +G  L K  L++VGP+  +   +   LL  AY++ N ++  L+ L+
Sbjct  1368  KSKGVCQVGDCYVSTGGKLCKTILNIVGPDARQDGRQSYVLLARAYKHLNNYDCCLSTLI  1427

Query  332   SAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             SAGIF      SL   +  V   V L   +K  +D
Sbjct  1428  SAGIFSVPADVSLTYLLGVVDKQVILVSNNKEDFD  1462


 Score = 65.1 bits (157),  Expect = 9e-09, Method: Compositional matrix adjust.
 Identities = 39/117 (33%), Positives = 62/117 (53%), Gaps = 4/117 (3%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F +   V+E+    +V + F+LD   D +L + CS + VE G  V++F  VV D
Sbjct  809  AGRKVNFNEKPVVMEIPSLMTVKVMFDLDSTFDDILGKVCSEFEVEKGVTVDDFVAVVCD  868

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
            A+   L    E   +   +   L++ +    YLFDE+G+  +AS MYC+F   D ++
Sbjct  869  AIENALNSCKEHPVVGYQVRAFLNKLNENVVYLFDEAGDEAMASRMYCTFAIEDVED  925


 Score = 45.4 bits (106),  Expect = 0.008, Method: Compositional matrix adjust.
 Identities = 37/148 (25%), Positives = 64/148 (43%), Gaps = 16/148 (11%)

Query  840   YPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAY  899
             Y +VNGL S      NC+L + LL +Q++  KF   A+++ +   + G   +F   +L  
Sbjct  1095  YFKVNGLWSPTITHTNCWLRSVLLVMQKLPFKFKDLAIENMWLSYKVGYNQSFVDYLLTT  1154

Query  900   CNKTV--GELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLS  957
               K +   + G V +   +     ++++     N  C  CG     L G++AV + G + 
Sbjct  1155  IPKAIVLPQGGYVADFAYWFLNQFDINA---YANWCCLKCG-FSFDLNGLDAVFFYGDI-  1209

Query  958   YEQFKKGVQIPCTCGKQATKYLVQQESP  985
                    V   C CG   T  L+  + P
Sbjct  1210  -------VSHVCKCGHNMT--LIAADLP  1228


>sp|P0C6U9|R1A_CVM2 Replicase polyprotein 1a OS=Murine coronavirus 
(strain 2) OX=76344 GN=1a PE=3 SV=1
Length=4416

 Score = 475 bits (1223),  Expect = 5e-135, Method: Compositional matrix adjust.
 Identities = 371/1288 (29%), Positives = 606/1288 (47%), Gaps = 120/1288 (9%)

Query  731   EVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIK  790
             +V +   ++ LL+      + V  TVD +N  +  V     +G+  G  + DG +VTK++
Sbjct  1543  KVASVSQIRALLA----NKVDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVR  1598

Query  791   PHNSHEGKTFYV---LPNDDTLRV-EAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGL  846
                 H+GK F+    L   D + V +AF +    +P  L +Y + L   K W        
Sbjct  1599  CSAIHKGKVFFQYSGLSAADLVAVTDAFGF---DEPQLL-KYYNMLGMCK-WPVVVCGNY  1653

Query  847   TSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGE  906
              + K ++NNCY+  A L LQ + LKF+    Q+A+   R+G+   F +L+LA  +    E
Sbjct  1654  FAFKQSNNNCYINVACLMLQHLSLKFHKWQWQEAWNEFRSGKPLRFVSLVLAKGSFKFNE  1713

Query  907   LGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQ  966
               D  + M  + + A+L         VCK CG +Q   KGV+AVM+ GTL      KG  
Sbjct  1714  PSDSTDFMRVVLREADLSGATCDFEFVCK-CGVKQEQRKGVDAVMHFGTLDKGDLAKGYT  1772

Query  967   IPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKET  1026
             I CTCG +   +  Q   PF++ S  P   +L       A+ +TG    GHY H+  K  
Sbjct  1773  IACTCGNKLV-HCTQLNVPFLICSNKPEGKKLPDDVVA-ANIFTGG-SLGHYTHVKCKPK  1829

Query  1027  LYCIDGALLTKSSEYKGPITDVFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKD  1085
                 D   ++K SE KG  TD  Y +N   T + K  T+ LD V C E +P L  YY + 
Sbjct  1830  YQLYDACNVSKVSEAKGNFTDCLYLKNLKQTFSSKLTTFYLDDVKCVEYNPDLSQYYCES  1889

Query  1086  NSYFTEQPIDLVPNQPYPNAS--FDNFKFVCDNIKFADDLNQLTGYK-KPASRELKVTFF  1142
               Y+T +PI     + +      + NFK V  +I  A+  N   G+       E K+T +
Sbjct  1890  GKYYT-KPIIKAQFRTFEKVEGVYTNFKLVGHSI--AEKFNAKLGFDCNSPFTEYKITEW  1946

Query  1143  PDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVW--HVNNATNKATY--KPNTWCIRCLWST  1198
             P   GDVV      Y   +  G     KP++W  H   +    TY  +P+  C    ++ 
Sbjct  1947  PTATGDVVLASDDLYVSRYSGGCVTFGKPVIWLGHEEASLKSLTYFNRPSVVCEN-KFNV  2005

Query  1199  KPVETSNSFD-------VLKSEDAQG-------------------MDNLACEDLKPVSEE  1232
              PV+ S   D       VL +    G                   +D +    L  +S  
Sbjct  2006  LPVDVSEPTDKGPVPAAVLVTGALSGAATAPGTAKEQKVCASDSVVDQVVSGFLSDLSGA  2065

Query  1233  VVENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKP  1292
              V+   ++ + ++   K  +V   +++    +  K+ + +   D+   ++      +   
Sbjct  2066  TVDVKEVKLNGVK---KPIKVEDSVVVNDPTSETKVVKSLSIVDVYDMFLTGCRYVVWMA  2122

Query  1293  NELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNR-------  1345
             NELSR+             VNS    T+  Y K  + K+V     ++ R   +       
Sbjct  2123  NELSRL-------------VNS---PTVREYVKWGMTKIVIPAKLVLLRDEKQEFVAPKV  2166

Query  1346  ------VCTNYMPYFFTLLLQLCTF--------TRSTNSRIKASMPTTIAKNTVKSVGKF  1391
                    C + + +FF        F        T    S++  ++     KN +++    
Sbjct  2167  VKAKVIACYSAVKWFFLYCFSWIKFNTDNKVIYTTEVASKLTFNLCCLAFKNALQTFNWN  2226

Query  1392  CLEASFNYLKSPNFSKLINIIIWFLLLS-VCLGSLIYSTAALGVLMS----NLGMPSYCT  1446
              +   F +L +  F    N +   ++LS   L ++ +    +G +++      G+ + C 
Sbjct  2227  VVSRGF-FLVATVFLLWFNFLYANVILSDFYLPNIGFFPTFVGQIVAWVKTTFGIFTLCD  2285

Query  1447  GYR---EGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITIS---SFKWDL  1500
              Y+    GY +S       +C GS+ C +C SG D LD Y ++  +Q  +    SF + +
Sbjct  2286  LYQVSDVGYRSS-------FCNGSMVCELCFSGFDMLDNYDAINVVQHVVDRRVSFDY-I  2337

Query  1501  TAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQMAP  1558
             + F LV E  + Y L+T  FY L     MQL  ++    F+  +  W     + +  M P
Sbjct  2338  SLFKLVVELVIGYSLYTVCFYPLFGLIGMQLLTTWLPEFFMLETMHWSARFFVFVANMLP  2397

Query  1559  ISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYV  1618
                ++R YI   + Y ++    HV+ GC+   C+ CYKRNR+ RV+C+T+V G  R + V
Sbjct  2398  AFTLLRFYIVVTAMYKIFCLCRHVMYGCSRPGCLFCYKRNRSVRVKCSTVVGGTLRYYDV  2457

Query  1619  YANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTV  1678
              ANGG GFC  H WNC+NC  F  G+TFI+ E A DLS + KRP+NPTD + Y+V  V  
Sbjct  2458  MANGGTGFCAKHQWNCLNCSAFGPGNTFITHEAAADLSKELKRPVNPTDSAYYLVTEVKQ  2517

Query  1679  KNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKS  1738
                S+ L++++ GQ+ Y+  S S FV+++ L  +  KG    +V+V + ++  +++   +
Sbjct  2518  VGCSMRLFYERDGQRVYDDVSASLFVDMNGLLHSKVKGVPETHVVVVENEA--DKAGFLN  2575

Query  1739  ASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATA  1798
             A+V+Y+Q + +P+LL+++ L++       V+  MFD YV++     +V  + L + V  A
Sbjct  2576  AAVFYAQSLYRPMLLVEKKLITTANTGLSVSQTMFDLYVDSLLGVLDVDRKSLTSFVNAA  2635

Query  1799  EAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYML  1857
                L + V L+ V+ TFI  AR+   +DSDVETK + + +  +  + ++ T +SCNN + 
Sbjct  2636  HNSLKEGVQLEQVMDTFIGCARRKCAIDSDVETKSITKSIMSAVNAGVDFTDESCNNLVP  2695

Query  1858  TYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKK  1917
             TY K + +   DLG  I  +A+H+ A VAK+ N+A IW+V  F  LS  L+ ++R A  K
Sbjct  2696  TYVKSDTIVAADLGVLIQNNAKHVQANVAKAANVACIWSVDAFNQLSADLQHRLRKACSK  2755

Query  1918  NNLPFKLTCATTRQVVNVVTTKIALKGG  1945
               L  KLT       V ++TT  +LKGG
Sbjct  2756  TGLKIKLTYNKQEANVPILTTPFSLKGG  2783


 Score = 70.5 bits (171),  Expect = 2e-10, Method: Compositional matrix adjust.
 Identities = 60/183 (33%), Positives = 83/183 (45%), Gaps = 21/183 (11%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F D   V E+   + + I F LD   D VL++ CS + V+    ++E   VV D
Sbjct  832  AGKKVEFNDKPKVKEIPSTRKIKINFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLD  891

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEG  116
            AV  TL P  E   + T +   L+  +    YLFDE GE  +A  MYCSF  PD++    
Sbjct  892  AVESTLSPCKEHDVIGTKVCALLNRLAEDYVYLFDEGGEEVIAPKMYCSFSAPDDE----  947

Query  117  DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
            DC   +   + + +    DD           SAAL   + QEED +    Q  V + D  
Sbjct  948  DCVAADVVDADENQGDDADD-----------SAALV-TDTQEEDGV-AKGQVGVAESDAR  994

Query  177  EDN  179
             D 
Sbjct  995  LDQ  997


 Score = 58.5 bits (140),  Expect = 8e-07, Method: Compositional matrix adjust.
 Identities = 52/154 (34%), Positives = 82/154 (53%), Gaps = 4/154 (3%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             +T NV     D+++  ++V   V+VN AN  + HG GVAGA+ KA   +   E+ D +  
Sbjct  1267  ITPNVCFVKGDVIKVLRRVGAEVIVNPANGRMAHGAGVAGAIAKAAGKSFIKETADMVKN  1326

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYENFNQHEVLLAPLLS  332
              G  +VG     +G NL K  L++VGP+  +G   Q    L+ AY++ N+ + ++  L+S
Sbjct  1327  QGVCQVGECYESTGGNLCKTVLNIVGPDA-RGHGKQCYSFLERAYQHINKCDDVVTTLIS  1385

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             AGIF      SL   +  V  NV L   +K+ +D
Sbjct  1386  AGIFSVPTDVSLTYLIGVVTKNVILVSNNKDDFD  1419


>sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavirus 
(strain 2) OX=76344 GN=rep PE=3 SV=1
Length=7124

 Score = 475 bits (1222),  Expect = 8e-135, Method: Compositional matrix adjust.
 Identities = 375/1285 (29%), Positives = 604/1285 (47%), Gaps = 114/1285 (9%)

Query  731   EVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIK  790
             +V +   ++ LL+      + V  TVD +N  +  V     +G+  G  + DG +VTK++
Sbjct  1543  KVASVSQIRALLA----NKVDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVR  1598

Query  791   PHNSHEGKTFYV---LPNDDTLRV-EAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGL  846
                 H+GK F+    L   D + V +AF +    +P  L +Y + L   K W        
Sbjct  1599  CSAIHKGKVFFQYSGLSAADLVAVTDAFGF---DEPQLL-KYYNMLGMCK-WPVVVCGNY  1653

Query  847   TSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGE  906
              + K ++NNCY+  A L LQ + LKF+    Q+A+   R+G+   F +L+LA  +    E
Sbjct  1654  FAFKQSNNNCYINVACLMLQHLSLKFHKWQWQEAWNEFRSGKPLRFVSLVLAKGSFKFNE  1713

Query  907   LGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQ  966
               D  + M  + + A+L         VCK CG +Q   KGV+AVM+ GTL      KG  
Sbjct  1714  PSDSTDFMRVVLREADLSGATCDFEFVCK-CGVKQEQRKGVDAVMHFGTLDKGDLAKGYT  1772

Query  967   IPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKET  1026
             I CTCG +   +  Q   PF++ S  P   +L       A+ +TG    GHY H+  K  
Sbjct  1773  IACTCGNKLV-HCTQLNVPFLICSNKPEGKKLPDDVVA-ANIFTGG-SLGHYTHVKCKPK  1829

Query  1027  LYCIDGALLTKSSEYKGPITDVFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKD  1085
                 D   ++K SE KG  TD  Y +N   T + K  T+ LD V C E +P L  YY + 
Sbjct  1830  YQLYDACNVSKVSEAKGNFTDCLYLKNLKQTFSSKLTTFYLDDVKCVEYNPDLSQYYCES  1889

Query  1086  NSYFTEQPIDLVPNQPYPNAS--FDNFKFVCDNIKFADDLNQLTGYK-KPASRELKVTFF  1142
               Y+T +PI     + +      + NFK V  +I  A+  N   G+       E K+T +
Sbjct  1890  GKYYT-KPIIKAQFRTFEKVEGVYTNFKLVGHSI--AEKFNAKLGFDCNSPFTEYKITEW  1946

Query  1143  PDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVW--HVNNATNKATY--KPNTWCIRCLWST  1198
             P   GDVV      Y   +  G     KP++W  H   +    TY  +P+  C    ++ 
Sbjct  1947  PTATGDVVLASDDLYVSRYSGGCVTFGKPVIWLGHEEASLKSLTYFNRPSVVC-ENKFNV  2005

Query  1199  KPVETSNSFD-------VLKSEDAQG---MDNLACEDLKPVSEEVVEN---------PTI  1239
              PV+ S   D       VL +    G       A E     S+ VV+             
Sbjct  2006  LPVDVSEPTDKGPVPAAVLVTGALSGAATAPGTAKEQKVCASDSVVDQVVSGFLSDLSGA  2065

Query  1240  QKDVLECNV----KTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNEL  1295
               DV E  +    K  +V   +++    +  K+ + +   D+   ++      +   NEL
Sbjct  2066  TVDVKEVKLNGVKKPIKVEDSVVVNDPTSETKVVKSLSIVDVYDMFLTGCRYVVWMANEL  2125

Query  1296  SRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNR----------  1345
             SR+             VNS    T+  Y K  + K+V     ++ R   +          
Sbjct  2126  SRL-------------VNS---PTVREYVKWGMTKIVIPAKLVLLRDEKQEFVAPKVVKA  2169

Query  1346  ---VCTNYMPYFFTLLLQLCTF--------TRSTNSRIKASMPTTIAKNTVKSVGKFCLE  1394
                 C + + +FF        F        T    S++  ++     KN +++     + 
Sbjct  2170  KVIACYSAVKWFFLYCFSWIKFNTDNKVIYTTEVASKLTFNLCCLAFKNALQTFNWNVVS  2229

Query  1395  ASFNYLKSPNFSKLINIIIWFLLLS-VCLGSLIYSTAALGVLMS----NLGMPSYCTGYR  1449
               F +L +  F    N +   ++LS   L ++ +    +G +++      G+ + C  Y+
Sbjct  2230  RGF-FLVATVFLLWFNFLYANVILSDFYLPNIGFFPTFVGQIVAWVKTTFGIFTLCDLYQ  2288

Query  1450  ---EGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITIS---SFKWDLTAF  1503
                 GY +S       +C GS+ C +C SG D LD Y ++  +Q  +    SF + ++ F
Sbjct  2289  VSDVGYRSS-------FCNGSMVCELCFSGFDMLDNYDAINVVQHVVDRRVSFDY-ISLF  2340

Query  1504  GLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQMAPISA  1561
              LV E  + Y L+T  FY L     MQL  ++    F+  +  W     + +  M P   
Sbjct  2341  KLVVELVIGYSLYTVCFYPLFGLIGMQLLTTWLPEFFMLETMHWSARFFVFVANMLPAFT  2400

Query  1562  MVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYAN  1621
             ++R YI   + Y ++    HV+ GC+   C+ CYKRNR+ RV+C+T+V G  R + V AN
Sbjct  2401  LLRFYIVVTAMYKIFCLCRHVMYGCSRPGCLFCYKRNRSVRVKCSTVVGGTLRYYDVMAN  2460

Query  1622  GGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNG  1681
             GG GFC  H WNC+NC  F  G+TFI+ E A DLS + KRP+NPTD + Y+V  V     
Sbjct  2461  GGTGFCAKHQWNCLNCSAFGPGNTFITHEAAADLSKELKRPVNPTDSAYYLVTEVKQVGC  2520

Query  1682  SIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASV  1741
             S+ L++++ GQ+ Y+  S S FV+++ L  +  KG    +V+V + ++  +++   +A+V
Sbjct  2521  SMRLFYERDGQRVYDDVSASLFVDMNGLLHSKVKGVPETHVVVVENEA--DKAGFLNAAV  2578

Query  1742  YYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAE  1801
             +Y+Q + +P+LL+++ L++       V+  MFD YV++     +V  + L + V  A   
Sbjct  2579  FYAQSLYRPMLLVEKKLITTANTGLSVSQTMFDLYVDSLLGVLDVDRKSLTSFVNAAHNS  2638

Query  1802  LAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYN  1860
             L + V L+ V+ TFI  AR+   +DSDVETK + + +  +  + ++ T +SCNN + TY 
Sbjct  2639  LKEGVQLEQVMDTFIGCARRKCAIDSDVETKSITKSIMSAVNAGVDFTDESCNNLVPTYV  2698

Query  1861  KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNL  1920
             K + +   DLG  I  +A+H+ A VAK+ N+A IW+V  F  LS  L+ ++R A  K  L
Sbjct  2699  KSDTIVAADLGVLIQNNAKHVQANVAKAANVACIWSVDAFNQLSADLQHRLRKACSKTGL  2758

Query  1921  PFKLTCATTRQVVNVVTTKIALKGG  1945
               KLT       V ++TT  +LKGG
Sbjct  2759  KIKLTYNKQEANVPILTTPFSLKGG  2783


 Score = 70.1 bits (170),  Expect = 2e-10, Method: Compositional matrix adjust.
 Identities = 60/182 (33%), Positives = 83/182 (46%), Gaps = 21/182 (12%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F D   V E+   + + I F LD   D VL++ CS + V+    ++E   VV D
Sbjct  832  AGKKVEFNDKPKVKEIPSTRKIKINFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLD  891

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEG  116
            AV  TL P  E   + T +   L+  +    YLFDE GE  +A  MYCSF  PD++    
Sbjct  892  AVESTLSPCKEHDVIGTKVCALLNRLAEDYVYLFDEGGEEVIAPKMYCSFSAPDDE----  947

Query  117  DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
            DC   +   + + +    DD           SAAL   + QEED +    Q  V + D  
Sbjct  948  DCVAADVVDADENQGDDADD-----------SAALV-TDTQEEDGV-AKGQVGVAESDAR  994

Query  177  ED  178
             D
Sbjct  995  LD  996


 Score = 58.5 bits (140),  Expect = 8e-07, Method: Compositional matrix adjust.
 Identities = 52/154 (34%), Positives = 82/154 (53%), Gaps = 4/154 (3%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             +T NV     D+++  ++V   V+VN AN  + HG GVAGA+ KA   +   E+ D +  
Sbjct  1267  ITPNVCFVKGDVIKVLRRVGAEVIVNPANGRMAHGAGVAGAIAKAAGKSFIKETADMVKN  1326

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYENFNQHEVLLAPLLS  332
              G  +VG     +G NL K  L++VGP+  +G   Q    L+ AY++ N+ + ++  L+S
Sbjct  1327  QGVCQVGECYESTGGNLCKTVLNIVGPDA-RGHGKQCYSFLERAYQHINKCDDVVTTLIS  1385

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             AGIF      SL   +  V  NV L   +K+ +D
Sbjct  1386  AGIFSVPTDVSLTYLIGVVTKNVILVSNNKDDFD  1419


>sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavirus 
HKU1 (isolate N5) OX=443241 GN=rep PE=3 SV=1
Length=7132

 Score = 474 bits (1219),  Expect = 2e-134, Method: Compositional matrix adjust.
 Identities = 361/1233 (29%), Positives = 582/1233 (47%), Gaps = 79/1233 (6%)

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
             + I V  TVD +N  +  + +   +G+  G  + DG DVTK+K  + +  K  Y   N  
Sbjct  1600  KKIDVLLTVDGVNFKSISLTVGEVFGKILGNVFCDGIDVTKLKCSDFYADKILYQYENLS  1659

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNG-LTSIKWADNNCYLATALLTLQ  866
                + A +     D   L  Y + L    KW    VNG   S + + NNCY+  A L LQ
Sbjct  1660  LADISAVQSSFGFDQQQLLAYYNFLT-VCKWSVV-VNGPFFSFEQSHNNCYVNVACLMLQ  1717

Query  867   QIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSC  926
              I LKFN    Q+A+Y  RAG      AL+LA  +    E  D  + +  + + A+L   
Sbjct  1718  HINLKFNKWQWQEAWYEFRAGRPHRLVALVLAKGHFKFDEPSDATDFIRVVLKQADLSGA  1777

Query  927   KRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPF  986
                L ++C  CG +Q +  GV+AVM+ GTL+      G +I C C  +   +  +   PF
Sbjct  1778  ICELELICD-CGIKQESRVGVDAVMHFGTLAKTDLFNGYKIGCNCAGRIV-HCTKLNVPF  1835

Query  987   VMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPIT  1046
             ++ S  P   +L       A+ + G    GHY H+         D   + K +   G +T
Sbjct  1836  LICSNTPLSKDLPDDV-VAANMFMG-VGVGHYTHLKCGSPYQHYDACSVKKYTGVSGCLT  1893

Query  1047  DVFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP--  1103
             D  Y +N + T T     Y LD V     +P L  YY  +  Y+T +PI     +P+   
Sbjct  1894  DCLYLKNLTQTFTSMLTNYFLDDVEMVAYNPDLSQYYCDNGKYYT-KPIIKAQFKPFAKV  1952

Query  1104  NASFDNFKFVCDNIKFADDLNQLTGYKKPASR-ELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
             +  + NFK V  +I     LN   G+       E KVT +P   GDVV      Y   + 
Sbjct  1953  DGVYTNFKLVGHDI--CAQLNDKLGFNVDLPFVEYKVTVWPVATGDVVLASDDLYVKRYF  2010

Query  1163  KGAKLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDN  1220
             KG +   KP++W  H   + N  TY          ++    ++ N + VL       +D+
Sbjct  2011  KGCETFGKPVIWFCHDEASLNSLTY----------FNKPSFKSENRYSVLS------VDS  2054

Query  1221  LACEDLKPVSEEVVENPTIQKDV-LECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMA  1279
             ++ E    V   V+E+    K+V L+   KT ++   II+   N+S+K+ + +   D+  
Sbjct  2055  VSEESQGNVVTSVMESQISTKEVKLKGVRKTVKIEDAIIVNDENSSIKVVKSLSLVDVWD  2114

Query  1280  AYVDNSSLTIKKPNELSRVLGLKTL---ATHGLAAVNSVPWDTIANYAKPFLNKVVSTTT  1336
              Y+      +   NELSR++   T+     +G+  + ++P D +        N+ +    
Sbjct  2115  MYLTGCDYVVWVANELSRLVKSPTVREYIRYGIKPI-TIPIDLLCLRDD---NQTLLVPK  2170

Query  1337  NIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCL--E  1394
                 R +      ++ + F  +  L  FT          + +    N       FCL  +
Sbjct  2171  IFKARAIEFY--GFLKWLFIYVFSLLHFTNDKTIFYTTEIASKFTFNL------FCLALK  2222

Query  1395  ASFNYLKSPNFSKLINII-----IWF--LLLSVCLGSL---------IYSTAALGVLMSN  1438
              +F   +   F K   ++      WF  L ++V              I+    +  + + 
Sbjct  2223  NAFQTFRWSIFIKGFLVVATVFLFWFNFLYINVIFSDFYLPNISVFPIFVGRIVMWIKAT  2282

Query  1439  LGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISS---  1495
              G+ + C  Y +  +  T    + +C GS  C +C SG D LDTY +++ +Q  +     
Sbjct  2283  FGLVTICDFYSKLGVGFT----SHFCNGSFICELCHSGFDMLDTYAAIDFVQYEVDRRVL  2338

Query  1496  FKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINL  1553
             F + ++   L+ E  + Y L+T +FY L     +QLF ++    F+  +  WL+  I+ +
Sbjct  2339  FDY-VSLVKLIVELVIGYSLYTVWFYPLFCLIGLQLFTTWLPDLFMLETMHWLIRFIVFV  2397

Query  1554  VQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVR  1613
               M P   ++R YI   + Y V     H+V GCN + C+ CYKRN + RV+C+TIV GV 
Sbjct  2398  ANMLPAFVLLRFYIVVTAMYKVVGFIRHIVYGCNKAGCLFCYKRNCSVRVKCSTIVGGVI  2457

Query  1614  RSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIV  1673
             R + + ANGG GFC  H WNC NC +F  G+TFI+ E A +LS + KRP+NPTD S Y+V
Sbjct  2458  RYYDITANGGTGFCVKHQWNCFNCHSFKPGNTFITVEAAIELSKELKRPVNPTDASHYVV  2517

Query  1674  DSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEE  1733
               +      + L++D+ GQ+ Y+    S FV+++NL  +  K    + V+V +  S  + 
Sbjct  2518  TDIKQVGCMMRLFYDRDGQRVYDDVDASLFVDINNLLHSKVKVVPNLYVVVVE--SDADR  2575

Query  1734  SSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKT  1793
             ++  +A V+Y+Q + +PILL+D+ L++   +   V   MFD YV+TF S F+V  +    
Sbjct  2576  ANFLNAVVFYAQSLYRPILLVDKKLITTACNGISVTQIMFDVYVDTFMSHFDVDRKSFNN  2635

Query  1794  LVATAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSC  1852
              V  A A L + V L+ VL TF+   R+   +DSDVET+ + + +  +  + +E T ++ 
Sbjct  2636  FVNIAHASLREGVQLEKVLDTFVGCVRKCCSIDSDVETRFITKSMISAVAAGLEFTDENY  2695

Query  1853  NNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIR  1912
             NN + TY K +N+   DLG  I   A+H+   VAK  NI+ IW +  F  L+  L+ +++
Sbjct  2696  NNLVPTYLKSDNIVAADLGVLIQNGAKHVQGNVAKVANISCIWFIDAFNQLTADLQHKLK  2755

Query  1913  SAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              A  K  L  KLT       V ++TT  +LKGG
Sbjct  2756  KACVKTGLKLKLTFNKQEASVPILTTPFSLKGG  2788


 Score = 82.0 bits (201),  Expect = 7e-14, Method: Compositional matrix adjust.
 Identities = 53/155 (34%), Positives = 79/155 (51%), Gaps = 2/155 (1%)

Query  214   LKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYI  273
             L +T NV     DI+  A+ VK  V+VN AN ++ HGGGVA A+  A       E+   +
Sbjct  1308  LCITPNVCFVKGDIINVARLVKADVIVNPANGHMLHGGGVAKAIAVAAGKKFSKETAAMV  1367

Query  274   ATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKG--EDIQLLKSAYENFNQHEVLLAPLL  331
              + G  +VG   V +G  L K  L++VGP+  +   +   LL  AY++ N ++  L+ L+
Sbjct  1368  KSKGVCQVGDCYVSTGGKLCKTILNIVGPDARQDGRQSYVLLARAYKHLNNYDCCLSTLI  1427

Query  332   SAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYD  366
             SAGIF      SL   +  V   V L   +K  +D
Sbjct  1428  SAGIFSVPADVSLTYLLGVVDKQVILVSNNKEDFD  1462


 Score = 65.1 bits (157),  Expect = 8e-09, Method: Compositional matrix adjust.
 Identities = 39/117 (33%), Positives = 62/117 (53%), Gaps = 4/117 (3%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F +   V+E+    +V + F+LD   D +L + CS + VE G  V++F  VV D
Sbjct  809  AGRKVNFNEKPVVMEIPSLMTVKVMFDLDSTFDDILGKVCSEFEVEKGVTVDDFVAVVCD  868

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE  113
            A+   L    E   +   +   L++ +    YLFDE+G+  +AS MYC+F   D ++
Sbjct  869  AIENALNSCKEHPVVGYQVRAFLNKLNENVVYLFDEAGDEAMASRMYCTFAIEDVED  925


 Score = 45.1 bits (105),  Expect = 0.009, Method: Compositional matrix adjust.
 Identities = 37/148 (25%), Positives = 64/148 (43%), Gaps = 16/148 (11%)

Query  840   YPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAY  899
             Y +VNGL S      NC+L + LL +Q++  KF   A+++ +   + G   +F   +L  
Sbjct  1095  YFKVNGLWSPTITHTNCWLRSVLLVMQKLPFKFKDLAIENMWLSYKVGYNQSFVDYLLTT  1154

Query  900   CNKTV--GELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLS  957
               K +   + G V +   +     ++++     N  C  CG     L G++AV + G + 
Sbjct  1155  IPKAIVLPQGGYVADFAYWFLNQFDINA---YANWCCLKCG-FSFDLNGLDAVFFYGDI-  1209

Query  958   YEQFKKGVQIPCTCGKQATKYLVQQESP  985
                    V   C CG   T  L+  + P
Sbjct  1210  -------VSHVCKCGHNMT--LIAADLP  1228


>sp|P0C6T4|R1A_BCHK4 Replicase polyprotein 1a OS=Bat coronavirus 
HKU4 OX=694007 GN=1a PE=1 SV=1
Length=4434

 Score = 404 bits (1038),  Expect = 2e-112, Method: Compositional matrix adjust.
 Identities = 217/544 (40%), Positives = 332/544 (61%), Gaps = 15/544 (3%)

Query  1412  IIWFLLLSVCLGSLIYSTAALGVLM------SNLGMPSYCTGYREGYLNSTNVTIATYCT  1465
             I   +L +  L S +    A G+L       S LG+ + C G    Y N T+  +  +C+
Sbjct  2236  IYHLVLFNQVLSSDVMLEDATGILAIYKEVRSYLGIRTLCDGLVVEYRN-TSFDVMEFCS  2294

Query  1466  G-SIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLG  1524
               S+ C  CL G DSL  Y +L+ +Q  I+S+  ++       E+FLAY+L+T  F VL 
Sbjct  2295  NRSVLCQWCLIGQDSLTRYSALQMLQTHITSYVLNIDWIWFALEFFLAYVLYTSSFNVLL  2354

Query  1525  LAAIMQLFFSYFA--VHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHV  1582
             L    Q FF+Y +  V++ + ++++  +  LV   P+  +VR+Y F A  +++ K Y HV
Sbjct  2355  LVVTAQYFFAYTSAFVNWRAYNYIVSGLFFLVTHIPLHGLVRVYNFLACLWFLRKFYSHV  2414

Query  1583  VDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCA  1642
             ++GC  + C++CYKRNR TRVE +TIV G +R+FY+ ANGG  +C  HNWNCV CDT   
Sbjct  2415  INGCKDTACLLCYKRNRLTRVEASTIVCGTKRTFYIAANGGTSYCCKHNWNCVECDTAGV  2474

Query  1643  GSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSH  1702
             G+TFI  EVA DL+   +R I PTDQS Y VDSV VK+  + L++++ G   YER+ L +
Sbjct  2475  GNTFICTEVANDLTTTLRRLIKPTDQSHYYVDSVVVKDAVVELHYNRDGSSCYERYPLCY  2534

Query  1703  FVNLDNLRAN---NTKGSLP-INVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQAL  1758
             F NL+ L+      T   +P  N +++D   + +E+ A+SA VYYSQ++C+P+LL+D  L
Sbjct  2535  FTNLEKLKFKEVCKTPTGIPEHNFLIYDTNDRGQENLARSACVYYSQVLCKPMLLVDVNL  2594

Query  1759  VSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISA  1818
             V+ VGDS E+A+KM D+++N+F S F+V  +KL+ L+ TA   + +     NVL TF  A
Sbjct  2595  VTTVGDSREIAIKMLDSFINSFISLFSVSRDKLEKLINTARDCVRRGDDFQNVLKTFTDA  2654

Query  1819  AR-QGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCS  1877
             AR    V+SDVET  VV+ L+ +H++DI++T +  NNY+  Y K +++   DLG  ID  
Sbjct  2655  ARGHAGVESDVETTMVVDALQYAHKNDIQLTTECYNNYVPGYIKPDSINTLDLGCLIDLK  2714

Query  1878  ARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVT  1937
             A  +N    ++ N A +WN  D+M LS+  ++QIR A +K N+PF+LT +  R   N+++
Sbjct  2715  AASVNQTSMRNANGACVWNSGDYMKLSDSFKRQIRIACRKCNIPFRLTTSKLRAADNILS  2774

Query  1938  TKIA  1941
              K +
Sbjct  2775  VKFS  2778


 Score = 305 bits (781),  Expect = 7e-82, Method: Compositional matrix adjust.
 Identities = 225/771 (29%), Positives = 370/771 (48%), Gaps = 46/771 (6%)

Query  573   VCVETKAIVSTIQRKYKGIKIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPL  632
             +C E  A V  ++ K      +   VD G  +Y Y+++  +  +I   N  +  +  MP 
Sbjct  1345  ICTEYSANVKFLRTKGVDTTKKIQTVD-GVSYYLYSARDALTDVIAAANGCS-GICAMPF  1402

Query  633   GYVTHGLNLEEAARYMRSLKVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGS  692
             GYVTHGL+L ++  Y+R +KVP    ++S + +   N  +  + +TPE  FI  ++  G 
Sbjct  1403  GYVTHGLDLAQSGNYVRQVKVPYVCLLASKEQIPIMNSDV--AIQTPETAFINNVTSNGG  1460

Query  693   YKDWSY-SGQSTQLGI---EFLKRGDKSVYYTSNPTTFHLDGEVITFDNL---KTLLSLR  745
             Y  W   SG      +   + L    +++ Y  N      +   + F +L   +  L+ R
Sbjct  1461  YHSWHLVSGDLIVKDVCYKKLLHWSGQTICYADNKFYVVKNDVALPFSDLEACRAYLTSR  1520

Query  746   EVR--TIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVL  803
               +   I+V  T+D +N  T +++ + T+ +Q G T+  G D++   P     G++ +V 
Sbjct  1521  AAQQVNIEVLVTIDGVNFRTVILNDTTTFRKQLGATFYKGVDISDAFPTVKMGGESLFVA  1580

Query  804   PN-DDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATAL  862
              N  ++ +V   EYY T+D +FL RY S     ++WK+   +G+ S+K ++ NCY+   +
Sbjct  1581  DNLSESEKVVLKEYYGTSDVTFLQRYYSLQPLVQQWKFVVHDGVKSLKLSNYNCYINATI  1640

Query  863   LTLQQI-ELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHA  921
             + +  + ++KF  PALQ+AY R + G+  +F ALI+AY + T     D  + +  L   A
Sbjct  1641  MMIDMLHDIKFVVPALQNAYLRYKGGDPYDFLALIMAYGDCTFDNPDDEAKLLHTLLAKA  1700

Query  922   NLD-SCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLV  980
              L  S K V    C  CG +     G+ A +Y G  S E+ +      C CG    + LV
Sbjct  1701  ELTVSAKMVWREWCTVCGIRDIEYTGMRACVYAGVNSMEELQSVFNETCVCGSVKHRQLV  1760

Query  981   QQESPFVMMSAPPAQYELKHGT-----FTCASEYTG-NYQCGHYKHITSKETL-YCIDGA  1033
             +  +P++++S      E+K  T     +   + + G     GHY HI  K+ L Y  D  
Sbjct  1761  EHSAPWLLVSG---LNEVKVSTSTDPIYRAFNVFQGVETSVGHYVHIRVKDGLFYKYDSG  1817

Query  1034  LLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQP  1093
              LTK+S+ K  +T V+Y    YT     V Y LDGV   E++P L NYY KD  Y+T +P
Sbjct  1818  SLTKTSDMKCKMTSVWYPTVRYTADCNVVVYDLDGVTKVEVNPDLSNYYMKDGKYYTSKP  1877

Query  1094  -IDLVPNQPYPNASFDNFKFV-CDNIKFADDL----NQLTGYK--KPASRELKVTFFPDL  1145
              I   P    P + + N   V  D    +D +    N L G+   KP S++L  +  P+ 
Sbjct  1878  TIKYSPATILPGSVYSNSCLVGVDGTPGSDTISKFFNDLLGFDETKPISKKLTYSLLPNE  1937

Query  1146  NGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKPVETSN  1205
             +GDV+  ++ +Y P +KKG  L  KPI+W  N   + A  KPN   +R L+   P+   N
Sbjct  1938  DGDVLLSEFSNYNPVYKKGVMLKGKPILWVNNGVCDSALNKPNRASLRQLYDVAPIVLDN  1997

Query  1206  SFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTE---VVGDIILKPA  1262
              + VL+   +Q       E   PV ++V   P   + ++E   K      V G+      
Sbjct  1998  KYTVLQDNTSQ-----LVEHNVPVVDDV---PITTRKLIEVKCKGLNKPFVKGNFSFVND  2049

Query  1263  NNSLKITEEVGHTDLMAAYVD-NSSLTIKKPNELSRVLGLKTLATHGLAAV  1312
              N + + + +G T+L A YVD N+   + + N  S +  L T+ +  L  V
Sbjct  2050  PNGVTVVDTLGLTELRALYVDINTRYIVLRDNNWSSLFKLHTVESGDLQIV  2100


 Score = 137 bits (345),  Expect = 9e-31, Method: Compositional matrix adjust.
 Identities = 76/181 (42%), Positives = 107/181 (59%), Gaps = 5/181 (3%)

Query  163   DDDSQQTVGQQDGSEDNQTTTIQTIVE-VQPQLEMELTPVVQTIEVNSFSGYLK--LTDN  219
             D+ S+  V Q    + N+    +T VE VQP+   +L P          S Y    + ++
Sbjct  1107  DEASENQVHQVSDLQGNELLCSETKVEIVQPR--QDLKPRRSRKSKVDLSKYKHTVINNS  1164

Query  220   VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
             V +   D ++ A  +   ++VNAAN +LKHGGG+AG +NKA+   +Q ESD+YI+ NGPL
Sbjct  1165  VTLVLGDAIQIASLLPKCILVNAANRHLKHGGGIAGVINKASGGDVQEESDEYISNNGPL  1224

Query  280   KVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGAD  339
              VG S +L GH LA   LHVVGP+    ED  LLK  Y+ FN+H +++ PL+SAGIF  D
Sbjct  1225  HVGDSVLLKGHGLADAILHVVGPDARNNEDAALLKRCYKAFNKHTIVVTPLISAGIFSVD  1284

Query  340   P  340
             P
Sbjct  1285  P  1285


 Score = 62.4 bits (150),  Expect = 5e-08, Method: Compositional matrix adjust.
 Identities = 56/219 (26%), Positives = 91/219 (42%), Gaps = 25/219 (11%)

Query  4     KVTFGDDTVIEVQGYKSVNITFELDERIDKVLNE-KCSAYTVELGTEVNEFACVVADAVI  62
             KVTFGD   +EV  Y+SV+IT+++   +D +L+  K + +TVE    V +F  V+ D V+
Sbjct  852   KVTFGDVNTVEVTAYRSVSITYDIHPVLDALLSSSKLATFTVEKDLLVEDFVDVIKDEVL  911

Query  63    KTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYP--------------  108
               L P+       G D++++     Y++++ G+   +S+M  S  P              
Sbjct  912   TLLTPLLRGYDIDGFDVEDFIDVPCYVYNQDGDCAWSSNMTFSINPVEDVEEVEEFIEDD  971

Query  109   ------PDEDEEEGDCEE-EEFEPSTQYEYGTEDDYQGKPLEFGATSA---ALQPEEEQE  158
                   P  D+EE      EE  P         +  +  PLE    S     ++  E QE
Sbjct  972   YLSDELPIADDEEAWARAVEEVMPLDDILVAEIELEEDPPLETALESVEAEVVETAEAQE  1031

Query  159   EDWLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEME  197
                   DS  +     G  D     +  + E    LE+E
Sbjct  1032  PSVESIDSTPSTSTVVGENDLSVKPMSRVAETDDVLELE  1070


>sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus 
HKU4 OX=694007 GN=rep PE=1 SV=1
Length=7119

 Score = 404 bits (1037),  Expect = 3e-112, Method: Compositional matrix adjust.
 Identities = 217/544 (40%), Positives = 332/544 (61%), Gaps = 15/544 (3%)

Query  1412  IIWFLLLSVCLGSLIYSTAALGVLM------SNLGMPSYCTGYREGYLNSTNVTIATYCT  1465
             I   +L +  L S +    A G+L       S LG+ + C G    Y N T+  +  +C+
Sbjct  2236  IYHLVLFNQVLSSDVMLEDATGILAIYKEVRSYLGIRTLCDGLVVEYRN-TSFDVMEFCS  2294

Query  1466  G-SIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLG  1524
               S+ C  CL G DSL  Y +L+ +Q  I+S+  ++       E+FLAY+L+T  F VL 
Sbjct  2295  NRSVLCQWCLIGQDSLTRYSALQMLQTHITSYVLNIDWIWFALEFFLAYVLYTSSFNVLL  2354

Query  1525  LAAIMQLFFSYFA--VHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHV  1582
             L    Q FF+Y +  V++ + ++++  +  LV   P+  +VR+Y F A  +++ K Y HV
Sbjct  2355  LVVTAQYFFAYTSAFVNWRAYNYIVSGLFFLVTHIPLHGLVRVYNFLACLWFLRKFYSHV  2414

Query  1583  VDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCA  1642
             ++GC  + C++CYKRNR TRVE +TIV G +R+FY+ ANGG  +C  HNWNCV CDT   
Sbjct  2415  INGCKDTACLLCYKRNRLTRVEASTIVCGTKRTFYIAANGGTSYCCKHNWNCVECDTAGV  2474

Query  1643  GSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSH  1702
             G+TFI  EVA DL+   +R I PTDQS Y VDSV VK+  + L++++ G   YER+ L +
Sbjct  2475  GNTFICTEVANDLTTTLRRLIKPTDQSHYYVDSVVVKDAVVELHYNRDGSSCYERYPLCY  2534

Query  1703  FVNLDNLRAN---NTKGSLP-INVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQAL  1758
             F NL+ L+      T   +P  N +++D   + +E+ A+SA VYYSQ++C+P+LL+D  L
Sbjct  2535  FTNLEKLKFKEVCKTPTGIPEHNFLIYDTNDRGQENLARSACVYYSQVLCKPMLLVDVNL  2594

Query  1759  VSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISA  1818
             V+ VGDS E+A+KM D+++N+F S F+V  +KL+ L+ TA   + +     NVL TF  A
Sbjct  2595  VTTVGDSREIAIKMLDSFINSFISLFSVSRDKLEKLINTARDCVRRGDDFQNVLKTFTDA  2654

Query  1819  AR-QGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCS  1877
             AR    V+SDVET  VV+ L+ +H++DI++T +  NNY+  Y K +++   DLG  ID  
Sbjct  2655  ARGHAGVESDVETTMVVDALQYAHKNDIQLTTECYNNYVPGYIKPDSINTLDLGCLIDLK  2714

Query  1878  ARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVT  1937
             A  +N    ++ N A +WN  D+M LS+  ++QIR A +K N+PF+LT +  R   N+++
Sbjct  2715  AASVNQTSMRNANGACVWNSGDYMKLSDSFKRQIRIACRKCNIPFRLTTSKLRAADNILS  2774

Query  1938  TKIA  1941
              K +
Sbjct  2775  VKFS  2778


 Score = 304 bits (778),  Expect = 2e-81, Method: Compositional matrix adjust.
 Identities = 225/771 (29%), Positives = 370/771 (48%), Gaps = 46/771 (6%)

Query  573   VCVETKAIVSTIQRKYKGIKIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPL  632
             +C E  A V  ++ K      +   VD G  +Y Y+++  +  +I   N  +  +  MP 
Sbjct  1345  ICTEYSANVKFLRTKGVDTTKKIQTVD-GVSYYLYSARDALTDVIAAANGCS-GICAMPF  1402

Query  633   GYVTHGLNLEEAARYMRSLKVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGS  692
             GYVTHGL+L ++  Y+R +KVP    ++S + +   N  +  + +TPE  FI  ++  G 
Sbjct  1403  GYVTHGLDLAQSGNYVRQVKVPYVCLLASKEQIPIMNSDV--AIQTPETAFINNVTSNGG  1460

Query  693   YKDWSY-SGQSTQLGI---EFLKRGDKSVYYTSNPTTFHLDGEVITFDNL---KTLLSLR  745
             Y  W   SG      +   + L    +++ Y  N      +   + F +L   +  L+ R
Sbjct  1461  YHSWHLVSGDLIVKDVCYKKLLHWSGQTICYADNKFYVVKNDVALPFSDLEACRAYLTSR  1520

Query  746   EVR--TIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVL  803
               +   I+V  T+D +N  T +++ + T+ +Q G T+  G D++   P     G++ +V 
Sbjct  1521  AAQQVNIEVLVTIDGVNFRTVILNDTTTFRKQLGATFYKGVDISDAFPTVKMGGESLFVA  1580

Query  804   PN-DDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATAL  862
              N  ++ +V   EYY T+D +FL RY S     ++WK+   +G+ S+K ++ NCY+   +
Sbjct  1581  DNLSESEKVVLKEYYGTSDVTFLQRYYSLQPLVQQWKFVVHDGVKSLKLSNYNCYINATI  1640

Query  863   LTLQQI-ELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHA  921
             + +  + ++KF  PALQ+AY R + G+  +F ALI+AY + T     D  + +  L   A
Sbjct  1641  MMIDMLHDIKFVVPALQNAYLRYKGGDPYDFLALIMAYGDCTFDNPDDEAKLLHTLLAKA  1700

Query  922   NLD-SCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLV  980
              L  S K V    C  CG +     G+ A +Y G  S E+ +      C CG    + LV
Sbjct  1701  ELTVSAKMVWREWCTVCGIRDIEYTGMRACVYAGVNSMEELQSVFNETCVCGSVKHRQLV  1760

Query  981   QQESPFVMMSAPPAQYELKHGT-----FTCASEYTG-NYQCGHYKHITSKETL-YCIDGA  1033
             +  +P++++S      E+K  T     +   + + G     GHY HI  K+ L Y  D  
Sbjct  1761  EHSAPWLLVSG---LNEVKVSTSTDPIYRAFNVFQGVETSVGHYVHIRVKDGLFYKYDSG  1817

Query  1034  LLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQP  1093
              LTK+S+ K  +T V+Y    YT     V Y LDGV   E++P L NYY KD  Y+T +P
Sbjct  1818  SLTKTSDMKCKMTSVWYPTVRYTADCNVVVYDLDGVTKVEVNPDLSNYYMKDGKYYTSKP  1877

Query  1094  -IDLVPNQPYPNASFDNFKFV-CDNIKFADDL----NQLTGYK--KPASRELKVTFFPDL  1145
              I   P    P + + N   V  D    +D +    N L G+   KP S++L  +  P+ 
Sbjct  1878  TIKYSPATILPGSVYSNSCLVGVDGTPGSDTISKFFNDLLGFDETKPISKKLTYSLLPNE  1937

Query  1146  NGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKPVETSN  1205
             +GDV+  ++ +Y P +KKG  L  KPI+W  N   + A  KPN   +R L+   P+   N
Sbjct  1938  DGDVLLSEFSNYNPVYKKGVMLKGKPILWVNNGVCDSALNKPNRASLRQLYDVAPIVLDN  1997

Query  1206  SFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTE---VVGDIILKPA  1262
              + VL+   +Q       E   PV ++V   P   + ++E   K      V G+      
Sbjct  1998  KYTVLQDNTSQ-----LVEHNVPVVDDV---PITTRKLIEVKCKGLNKPFVKGNFSFVND  2049

Query  1263  NNSLKITEEVGHTDLMAAYVD-NSSLTIKKPNELSRVLGLKTLATHGLAAV  1312
              N + + + +G T+L A YVD N+   + + N  S +  L T+ +  L  V
Sbjct  2050  PNGVTVVDTLGLTELRALYVDINTRYIVLRDNNWSSLFKLHTVESGDLQIV  2100


 Score = 137 bits (346),  Expect = 9e-31, Method: Compositional matrix adjust.
 Identities = 76/181 (42%), Positives = 107/181 (59%), Gaps = 5/181 (3%)

Query  163   DDDSQQTVGQQDGSEDNQTTTIQTIVE-VQPQLEMELTPVVQTIEVNSFSGYLK--LTDN  219
             D+ S+  V Q    + N+    +T VE VQP+   +L P          S Y    + ++
Sbjct  1107  DEASENQVHQVSDLQGNELLCSETKVEIVQPR--QDLKPRRSRKSKVDLSKYKHTVINNS  1164

Query  220   VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
             V +   D ++ A  +   ++VNAAN +LKHGGG+AG +NKA+   +Q ESD+YI+ NGPL
Sbjct  1165  VTLVLGDAIQIASLLPKCILVNAANRHLKHGGGIAGVINKASGGDVQEESDEYISNNGPL  1224

Query  280   KVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGAD  339
              VG S +L GH LA   LHVVGP+    ED  LLK  Y+ FN+H +++ PL+SAGIF  D
Sbjct  1225  HVGDSVLLKGHGLADAILHVVGPDARNNEDAALLKRCYKAFNKHTIVVTPLISAGIFSVD  1284

Query  340   P  340
             P
Sbjct  1285  P  1285


 Score = 62.0 bits (149),  Expect = 7e-08, Method: Compositional matrix adjust.
 Identities = 56/219 (26%), Positives = 91/219 (42%), Gaps = 25/219 (11%)

Query  4     KVTFGDDTVIEVQGYKSVNITFELDERIDKVLNE-KCSAYTVELGTEVNEFACVVADAVI  62
             KVTFGD   +EV  Y+SV+IT+++   +D +L+  K + +TVE    V +F  V+ D V+
Sbjct  852   KVTFGDVNTVEVTAYRSVSITYDIHPVLDALLSSSKLATFTVEKDLLVEDFVDVIKDEVL  911

Query  63    KTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYP--------------  108
               L P+       G D++++     Y++++ G+   +S+M  S  P              
Sbjct  912   TLLTPLLRGYDIDGFDVEDFIDVPCYVYNQDGDCAWSSNMTFSINPVEDVEEVEEFIEDD  971

Query  109   ------PDEDEEEGDCEE-EEFEPSTQYEYGTEDDYQGKPLEFGATSA---ALQPEEEQE  158
                   P  D+EE      EE  P         +  +  PLE    S     ++  E QE
Sbjct  972   YLSDELPIADDEEAWARAVEEVMPLDDILVAEIELEEDPPLETALESVEAEVVETAEAQE  1031

Query  159   EDWLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEME  197
                   DS  +     G  D     +  + E    LE+E
Sbjct  1032  PSVESIDSTPSTSTVVGENDLSVKPMSRVAETDDVLELE  1070


>sp|P0C6F7|R1A_BC133 Replicase polyprotein 1a OS=Bat coronavirus 
133/2005 OX=389230 GN=1a PE=3 SV=1
Length=4441

 Score = 402 bits (1033),  Expect = 7e-112, Method: Compositional matrix adjust.
 Identities = 209/513 (41%), Positives = 320/513 (62%), Gaps = 9/513 (2%)

Query  1437  SNLGMPSYCTGYREGYLNSTNVTIATYCTG-SIPCSVCLSGLDSLDTYPSLETIQITISS  1495
             S LG+ + C G    Y N T+  +  +C+  S+ C  CL G DSL  Y +L+ +Q  I+S
Sbjct  2274  SYLGIRTLCDGLAVEYRN-TSFDVVDFCSNRSVLCQWCLIGQDSLTRYSALQMLQTHITS  2332

Query  1496  FKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFA--VHFISNSWLMWLIINL  1553
             +  ++       E+FLAY+L+T  F VL L    Q FF+Y +  V++ + ++++  +  L
Sbjct  2333  YVLNIDWIWFALEFFLAYVLYTSSFNVLLLVVTAQYFFAYTSAFVNWRAYNYIVSGLFFL  2392

Query  1554  VQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVR  1613
             V   P+  +VR+Y F A  +++ K Y HV++GC  + C++CYKRNR TRVE +TIV G +
Sbjct  2393  VTHIPLHGLVRVYNFLACLWFLRKFYSHVINGCKDTACLLCYKRNRLTRVEASTIVCGTK  2452

Query  1614  RSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIV  1673
             R+FY+ ANGG  +C  HNWNCV CDT   G+TFI  EVA DL+   +R I PTDQS Y V
Sbjct  2453  RTFYIAANGGTSYCCKHNWNCVECDTAGVGNTFICTEVANDLTTTLRRLIKPTDQSHYYV  2512

Query  1674  DSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRAN---NTKGSLP-INVIVFDGKS  1729
             DSV VK+  + L++++ G   YER+ L +F NL+ L+      T   +P  N +++D   
Sbjct  2513  DSVVVKDAVVELHYNRDGSSCYERYPLCYFTNLEKLKFKEVCKTPTGIPEHNFLIYDTND  2572

Query  1730  KCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPME  1789
             + +E+ A+SA VYYSQ++C+P+LL+D  LV+ VGDS E+A+KM D+++N+F S F+V  +
Sbjct  2573  RGQENLARSACVYYSQVLCKPMLLVDVNLVTTVGDSREIAIKMLDSFINSFISLFSVSRD  2632

Query  1790  KLKTLVATAEAELAKNVSLDNVLSTFISAAR-QGFVDSDVETKDVVECLKLSHQSDIEVT  1848
             KL+ L+ TA   + +      VL TF  AAR    V+SDVET  VV+ L+ +H++DI++T
Sbjct  2633  KLEKLINTARDCVRRGDDFQTVLKTFTDAARGHAGVESDVETTMVVDALQYAHKNDIQLT  2692

Query  1849  GDSCNNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLR  1908
              +  NNY+  Y K +++   DLG  ID  A  +N    ++ N A +WN  D+M LS+  +
Sbjct  2693  TECYNNYVPGYIKPDSINTLDLGCLIDLKAASVNQTSMRNANGACVWNSGDYMKLSDSFK  2752

Query  1909  KQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIA  1941
             +QIR A +K N+PF+LT +  R   N+++ K +
Sbjct  2753  RQIRIACRKCNIPFRLTTSKLRAADNILSVKFS  2785


 Score = 302 bits (773),  Expect = 8e-81, Method: Compositional matrix adjust.
 Identities = 225/771 (29%), Positives = 367/771 (48%), Gaps = 46/771 (6%)

Query  573   VCVETKAIVSTIQRKYKGIKIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPL  632
             +C E  A V  ++ K      +   VD G  +Y Y+++  +  +I   N     +  MP 
Sbjct  1352  ICTEYSANVKFLRTKGVDTTKKIQTVD-GVSYYLYSARDALTDVIAAANGC-PGICAMPF  1409

Query  633   GYVTHGLNLEEAARYMRSLKVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGS  692
             GYVTHGL+L ++  Y+R +KVP    ++S + +   N  +  + +TPE  FI  ++  G 
Sbjct  1410  GYVTHGLDLAQSGNYVRQVKVPYVCLLASKEQIPIMNSDV--AIQTPETAFINNVTSNGG  1467

Query  693   YKDWSY-SGQSTQLGI---EFLKRGDKSVYYTSNPTTFHLDGEVITFDNL---KTLLSLR  745
             Y  W   SG      +   + L    +++ Y  N      +   + F +L   +  L+ R
Sbjct  1468  YHSWHLVSGDLIVKDVCYKKLLHWSGQTICYADNKFYVVKNDVALPFSDLEACRAYLTSR  1527

Query  746   EVR--TIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVL  803
               +   I+V  T+D +N  T +++ + T+ +Q G T+  G D++   P     G++ +V 
Sbjct  1528  AAQQVNIEVLVTIDGVNFRTVILNDATTFRKQLGATFYKGVDISDALPTVKMGGESLFVA  1587

Query  804   PN-DDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATAL  862
              N  ++  V   EYY T+D +FL RY S     ++WK+   +G+ S+K ++ NCY+   +
Sbjct  1588  DNLSESEEVVLKEYYGTSDVTFLQRYYSLQPLVQQWKFVVHDGVKSLKLSNYNCYINATI  1647

Query  863   LTLQQI-ELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHA  921
             + +  + ++KF  PALQ+AY R + G+  +F ALI+AY + T     D  + +  L   A
Sbjct  1648  MMIDMLHDIKFVVPALQNAYLRYKGGDPYDFLALIMAYGDCTFDNPDDEAKLLHTLLAKA  1707

Query  922   NLD-SCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLV  980
              L  S K V    C  CG +     G+ A +Y G  S E+ +      C CG    + LV
Sbjct  1708  ELTVSAKMVWREWCTVCGIRDIEYTGMRACVYAGVNSMEELQSVFNETCVCGSVKHRQLV  1767

Query  981   QQESPFVMMSAPPAQYELKHGTFTCASEYTGNY------QCGHYKHITSKETL-YCIDGA  1033
             +  +P++++S      E+K  T T       N         GHY H+  K+ L Y  D  
Sbjct  1768  EHSTPWLLVSG---LNEVKVSTSTDPVYRAFNVFQGVETSVGHYVHVRVKDGLFYKYDSG  1824

Query  1034  LLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQP  1093
              LTK+S+ K  +T V+Y +  YT     V Y LDGV   E++P L NYY KD  Y+T +P
Sbjct  1825  SLTKTSDMKCKMTSVWYPKVRYTADCNVVVYDLDGVTKVEVNPDLSNYYMKDGKYYTSKP  1884

Query  1094  -IDLVPNQPYPNASFDNFKFV-CDNIKFADDL----NQLTGYK--KPASRELKVTFFPDL  1145
              I   P    P + + N   V  D    +D +    N L G+   KP S++L  +  P+ 
Sbjct  1885  TIKYSPATILPGSVYSNSCLVGVDGTPGSDTISKFFNDLLGFDETKPISKKLTYSLLPNE  1944

Query  1146  NGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKPVETSN  1205
             +GDV+  ++ +Y P +KKG  L  KPI+W  N   + A  KPN   +R L+   P+   N
Sbjct  1945  DGDVLLSEFNNYNPVYKKGVMLKGKPILWVNNGVCDSALNKPNRASLRQLYDVAPIVLDN  2004

Query  1206  SFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTE---VVGDIILKPA  1262
              + VL+   +Q +     E   PV E+V       + ++E   K      V G+      
Sbjct  2005  KYTVLQDNTSQLI-----EPNVPVVEDV---SITTRKLIEVKCKGLNKPFVKGNFSFVND  2056

Query  1263  NNSLKITEEVGHTDLMAAYVD-NSSLTIKKPNELSRVLGLKTLATHGLAAV  1312
              N + + + +G T+L A YVD N+   + + N  S +  L T+ +  L  V
Sbjct  2057  PNGVTVVDTLGLTELRALYVDINTRYIVLRDNNWSSLFKLHTVESGDLQIV  2107


 Score = 128 bits (322),  Expect = 5e-28, Method: Compositional matrix adjust.
 Identities = 71/176 (40%), Positives = 107/176 (61%), Gaps = 8/176 (5%)

Query  173   QDGSEDNQT-------TTIQTIVE-VQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKN  224
             QD + +NQ         T +T VE VQP+ ++    + ++    S   +  + ++V +  
Sbjct  1117  QDEASENQVHQVPDLQCTSETKVEIVQPRQDLRPRRLRKSKVDLSKYKHTVINNSVTLVL  1176

Query  225   ADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGS  284
              D ++ A  +   V+VNAAN +LKHGGG+AGA+NKA+   +Q ESD+YI+ +GPL VG S
Sbjct  1177  GDAIQIASLLPKCVLVNAANRHLKHGGGIAGAINKASGGDVQEESDEYISNSGPLHVGDS  1236

Query  285   CVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADP  340
              +L G+ LA   L VVGP+    ED  LLK  Y+ FN+H +++ PL+S+GIF  DP
Sbjct  1237  VLLKGYGLADAILRVVGPDARNNEDAALLKRCYKTFNKHTIVVTPLISSGIFSVDP  1292


 Score = 58.9 bits (141),  Expect = 7e-07, Method: Compositional matrix adjust.
 Identities = 34/106 (32%), Positives = 60/106 (57%), Gaps = 1/106 (1%)

Query  4    KVTFGDDTVIEVQGYKSVNITFELDERIDKVLNE-KCSAYTVELGTEVNEFACVVADAVI  62
            KVTFGD   +EV  Y+SV+IT+++   +D +L+  K + +TVE    V +F  V+ D V+
Sbjct  852  KVTFGDVNTVEVTAYRSVSITYDIHPVLDALLSSSKLATFTVEKDLLVEDFVDVIKDEVL  911

Query  63   KTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYP  108
              L P+       G D++++     Y++++ G+   +S+M  S  P
Sbjct  912  TLLTPLLRGYDIDGFDVEDFIDVPCYVYNQDGDCAWSSNMTFSINP  957


>sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus 
133/2005 OX=389230 GN=rep PE=3 SV=1
Length=7126

 Score = 402 bits (1032),  Expect = 1e-111, Method: Compositional matrix adjust.
 Identities = 209/513 (41%), Positives = 320/513 (62%), Gaps = 9/513 (2%)

Query  1437  SNLGMPSYCTGYREGYLNSTNVTIATYCTG-SIPCSVCLSGLDSLDTYPSLETIQITISS  1495
             S LG+ + C G    Y N T+  +  +C+  S+ C  CL G DSL  Y +L+ +Q  I+S
Sbjct  2274  SYLGIRTLCDGLAVEYRN-TSFDVVDFCSNRSVLCQWCLIGQDSLTRYSALQMLQTHITS  2332

Query  1496  FKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFA--VHFISNSWLMWLIINL  1553
             +  ++       E+FLAY+L+T  F VL L    Q FF+Y +  V++ + ++++  +  L
Sbjct  2333  YVLNIDWIWFALEFFLAYVLYTSSFNVLLLVVTAQYFFAYTSAFVNWRAYNYIVSGLFFL  2392

Query  1554  VQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVR  1613
             V   P+  +VR+Y F A  +++ K Y HV++GC  + C++CYKRNR TRVE +TIV G +
Sbjct  2393  VTHIPLHGLVRVYNFLACLWFLRKFYSHVINGCKDTACLLCYKRNRLTRVEASTIVCGTK  2452

Query  1614  RSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIV  1673
             R+FY+ ANGG  +C  HNWNCV CDT   G+TFI  EVA DL+   +R I PTDQS Y V
Sbjct  2453  RTFYIAANGGTSYCCKHNWNCVECDTAGVGNTFICTEVANDLTTTLRRLIKPTDQSHYYV  2512

Query  1674  DSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRAN---NTKGSLP-INVIVFDGKS  1729
             DSV VK+  + L++++ G   YER+ L +F NL+ L+      T   +P  N +++D   
Sbjct  2513  DSVVVKDAVVELHYNRDGSSCYERYPLCYFTNLEKLKFKEVCKTPTGIPEHNFLIYDTND  2572

Query  1730  KCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPME  1789
             + +E+ A+SA VYYSQ++C+P+LL+D  LV+ VGDS E+A+KM D+++N+F S F+V  +
Sbjct  2573  RGQENLARSACVYYSQVLCKPMLLVDVNLVTTVGDSREIAIKMLDSFINSFISLFSVSRD  2632

Query  1790  KLKTLVATAEAELAKNVSLDNVLSTFISAAR-QGFVDSDVETKDVVECLKLSHQSDIEVT  1848
             KL+ L+ TA   + +      VL TF  AAR    V+SDVET  VV+ L+ +H++DI++T
Sbjct  2633  KLEKLINTARDCVRRGDDFQTVLKTFTDAARGHAGVESDVETTMVVDALQYAHKNDIQLT  2692

Query  1849  GDSCNNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLR  1908
              +  NNY+  Y K +++   DLG  ID  A  +N    ++ N A +WN  D+M LS+  +
Sbjct  2693  TECYNNYVPGYIKPDSINTLDLGCLIDLKAASVNQTSMRNANGACVWNSGDYMKLSDSFK  2752

Query  1909  KQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIA  1941
             +QIR A +K N+PF+LT +  R   N+++ K +
Sbjct  2753  RQIRIACRKCNIPFRLTTSKLRAADNILSVKFS  2785


 Score = 301 bits (770),  Expect = 2e-80, Method: Compositional matrix adjust.
 Identities = 225/771 (29%), Positives = 367/771 (48%), Gaps = 46/771 (6%)

Query  573   VCVETKAIVSTIQRKYKGIKIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPL  632
             +C E  A V  ++ K      +   VD G  +Y Y+++  +  +I   N     +  MP 
Sbjct  1352  ICTEYSANVKFLRTKGVDTTKKIQTVD-GVSYYLYSARDALTDVIAAANGC-PGICAMPF  1409

Query  633   GYVTHGLNLEEAARYMRSLKVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGS  692
             GYVTHGL+L ++  Y+R +KVP    ++S + +   N  +  + +TPE  FI  ++  G 
Sbjct  1410  GYVTHGLDLAQSGNYVRQVKVPYVCLLASKEQIPIMNSDV--AIQTPETAFINNVTSNGG  1467

Query  693   YKDWSY-SGQSTQLGI---EFLKRGDKSVYYTSNPTTFHLDGEVITFDNL---KTLLSLR  745
             Y  W   SG      +   + L    +++ Y  N      +   + F +L   +  L+ R
Sbjct  1468  YHSWHLVSGDLIVKDVCYKKLLHWSGQTICYADNKFYVVKNDVALPFSDLEACRAYLTSR  1527

Query  746   EVR--TIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVL  803
               +   I+V  T+D +N  T +++ + T+ +Q G T+  G D++   P     G++ +V 
Sbjct  1528  AAQQVNIEVLVTIDGVNFRTVILNDATTFRKQLGATFYKGVDISDALPTVKMGGESLFVA  1587

Query  804   PN-DDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATAL  862
              N  ++  V   EYY T+D +FL RY S     ++WK+   +G+ S+K ++ NCY+   +
Sbjct  1588  DNLSESEEVVLKEYYGTSDVTFLQRYYSLQPLVQQWKFVVHDGVKSLKLSNYNCYINATI  1647

Query  863   LTLQQI-ELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHA  921
             + +  + ++KF  PALQ+AY R + G+  +F ALI+AY + T     D  + +  L   A
Sbjct  1648  MMIDMLHDIKFVVPALQNAYLRYKGGDPYDFLALIMAYGDCTFDNPDDEAKLLHTLLAKA  1707

Query  922   NLD-SCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLV  980
              L  S K V    C  CG +     G+ A +Y G  S E+ +      C CG    + LV
Sbjct  1708  ELTVSAKMVWREWCTVCGIRDIEYTGMRACVYAGVNSMEELQSVFNETCVCGSVKHRQLV  1767

Query  981   QQESPFVMMSAPPAQYELKHGTFTCASEYTGNY------QCGHYKHITSKETL-YCIDGA  1033
             +  +P++++S      E+K  T T       N         GHY H+  K+ L Y  D  
Sbjct  1768  EHSTPWLLVSG---LNEVKVSTSTDPVYRAFNVFQGVETSVGHYVHVRVKDGLFYKYDSG  1824

Query  1034  LLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQP  1093
              LTK+S+ K  +T V+Y +  YT     V Y LDGV   E++P L NYY KD  Y+T +P
Sbjct  1825  SLTKTSDMKCKMTSVWYPKVRYTADCNVVVYDLDGVTKVEVNPDLSNYYMKDGKYYTSKP  1884

Query  1094  -IDLVPNQPYPNASFDNFKFV-CDNIKFADDL----NQLTGYK--KPASRELKVTFFPDL  1145
              I   P    P + + N   V  D    +D +    N L G+   KP S++L  +  P+ 
Sbjct  1885  TIKYSPATILPGSVYSNSCLVGVDGTPGSDTISKFFNDLLGFDETKPISKKLTYSLLPNE  1944

Query  1146  NGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKPVETSN  1205
             +GDV+  ++ +Y P +KKG  L  KPI+W  N   + A  KPN   +R L+   P+   N
Sbjct  1945  DGDVLLSEFNNYNPVYKKGVMLKGKPILWVNNGVCDSALNKPNRASLRQLYDVAPIVLDN  2004

Query  1206  SFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTE---VVGDIILKPA  1262
              + VL+   +Q +     E   PV E+V       + ++E   K      V G+      
Sbjct  2005  KYTVLQDNTSQLI-----EPNVPVVEDV---SITTRKLIEVKCKGLNKPFVKGNFSFVND  2056

Query  1263  NNSLKITEEVGHTDLMAAYVD-NSSLTIKKPNELSRVLGLKTLATHGLAAV  1312
              N + + + +G T+L A YVD N+   + + N  S +  L T+ +  L  V
Sbjct  2057  PNGVTVVDTLGLTELRALYVDINTRYIVLRDNNWSSLFKLHTVESGDLQIV  2107


 Score = 128 bits (322),  Expect = 5e-28, Method: Compositional matrix adjust.
 Identities = 71/176 (40%), Positives = 107/176 (61%), Gaps = 8/176 (5%)

Query  173   QDGSEDNQT-------TTIQTIVE-VQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKN  224
             QD + +NQ         T +T VE VQP+ ++    + ++    S   +  + ++V +  
Sbjct  1117  QDEASENQVHQVPDLQCTSETKVEIVQPRQDLRPRRLRKSKVDLSKYKHTVINNSVTLVL  1176

Query  225   ADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGS  284
              D ++ A  +   V+VNAAN +LKHGGG+AGA+NKA+   +Q ESD+YI+ +GPL VG S
Sbjct  1177  GDAIQIASLLPKCVLVNAANRHLKHGGGIAGAINKASGGDVQEESDEYISNSGPLHVGDS  1236

Query  285   CVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADP  340
              +L G+ LA   L VVGP+    ED  LLK  Y+ FN+H +++ PL+S+GIF  DP
Sbjct  1237  VLLKGYGLADAILRVVGPDARNNEDAALLKRCYKTFNKHTIVVTPLISSGIFSVDP  1292


 Score = 58.5 bits (140),  Expect = 7e-07, Method: Compositional matrix adjust.
 Identities = 34/106 (32%), Positives = 60/106 (57%), Gaps = 1/106 (1%)

Query  4    KVTFGDDTVIEVQGYKSVNITFELDERIDKVLNE-KCSAYTVELGTEVNEFACVVADAVI  62
            KVTFGD   +EV  Y+SV+IT+++   +D +L+  K + +TVE    V +F  V+ D V+
Sbjct  852  KVTFGDVNTVEVTAYRSVSITYDIHPVLDALLSSSKLATFTVEKDLLVEDFVDVIKDEVL  911

Query  63   KTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYP  108
              L P+       G D++++     Y++++ G+   +S+M  S  P
Sbjct  912  TLLTPLLRGYDIDGFDVEDFIDVPCYVYNQDGDCAWSSNMTFSINP  957


>sp|P0C6F6|R1A_BC512 Replicase polyprotein 1a OS=Bat coronavirus 
512/2005 OX=693999 GN=1a PE=3 SV=1
Length=4128

 Score = 205 bits (522),  Expect = 2e-51, Method: Compositional matrix adjust.
 Identities = 166/602 (28%), Positives = 277/602 (46%), Gaps = 64/602 (11%)

Query  1353  YFFTLLLQLCTFTRSTNSRIKASMP---TTIAKNTVK---SVGKFCLEASFNYLKSPNFS  1406
             Y F+LL       +  + ++ A +P     I K +VK      KF     F Y+K     
Sbjct  1984  YLFSLLAICFRALKKRDMKVMAGVPERTGIILKRSVKYNYKALKFFFRLKFQYIKV----  2039

Query  1407  KLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTG  1466
                     FL  S+ L +L Y+   + +  + +G P  C  Y +GY NST      YC G
Sbjct  2040  --------FLKFSLVLYTL-YALMFMFIRFTPVGTP-ICKRYTDGYANST-FDKNDYC-G  2087

Query  1467  SIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLA  1526
             ++ C +CL G + L  +     I       K  L    L   + +  I+F  FF  +G+ 
Sbjct  2088  NVLCKICLYGYEELSDFTHTRVIW---QHLKDPLIGNILPLFYLVFLIIFGGFFVRIGIT  2144

Query  1527  AIMQLFFSY--FAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVD  1584
               +  + +    A+ +  N WL+ L+       P ++M  + +       +     HV+ 
Sbjct  2145  YFIMQYINAAGVALGYQDNVWLLHLL-------PFNSMGNIIVVAFIVTRILLFLKHVLF  2197

Query  1585  GCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGS  1644
             GC+  +C+ C K  + TRV   TI+ GV +SFYV ANGGK FCK HN+ CV+CD++  G 
Sbjct  2198  GCDKPSCIACSKSAKLTRVPLQTILQGVTKSFYVNANGGKKFCKKHNFFCVDCDSYGYGC  2257

Query  1645  TFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFV  1704
             TFI+D +A +LS   K  + PT  ++ I+D V   NG  +LY      K     + + + 
Sbjct  2258  TFINDVIAPELSNVTKLNVIPTGPATIIIDKVEFSNGFYYLYSGSTFWKYNFDITEAKYA  2317

Query  1705  NLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGD  1764
               D L+  N    +  + +VF+  S    +  K+A VY+SQL+C+PI L+D AL++ +  
Sbjct  2318  CKDVLKNCN----ILTDFVVFN-NSGSNVTQVKNACVYFSQLLCKPIKLVDSALLASL--  2370

Query  1765  SAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGFV  1824
             + + +  +  A+V   S++F   +     +                      +  R+   
Sbjct  2371  NVDFSANLHKAFVEVLSNSFGKDLSNCSNM----------------------NECRESLG  2408

Query  1825  DSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKV-ENMTPRDLGACIDCSARHINA  1883
              SDV  ++    +  +H+ D+ ++  S NN +++Y K  E +   D+  C+   A+ +N 
Sbjct  2409  LSDVPEEEFSAAVSEAHRYDVLISDVSFNNLIVSYAKPEEKLAVHDIANCMRVGAKVVNH  2468

Query  1884  QVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALK  1943
              V    N+ ++W  KDF++LSE+ RK I    K   + F LT    R  + + T  +A K
Sbjct  2469  NVLTKDNVPVVWLAKDFIALSEEARKYIVRTTKTKGINFMLTFNDRRMHLTIPTISVANK  2528

Query  1944  GG  1945
              G
Sbjct  2529  KG  2530


 Score = 74.7 bits (182),  Expect = 1e-11, Method: Compositional matrix adjust.
 Identities = 65/204 (32%), Positives = 94/204 (46%), Gaps = 16/204 (8%)

Query  239   VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLH  298
             VVNAAN  L HGGG+A AL+  T   +QV S+ Y++ NG +KVG   ++         L+
Sbjct  1323  VVNAANEQLSHGGGIAKALDDLTKGELQVLSNQYVSRNGSIKVGSGVLIKCKE--HSILN  1380

Query  299   VVGPNVNKGEDIQLLKSAYEN-FNQHEVLLAPLLSAGIFGADPIHSLR---VCVDTVRTN  354
             VVGP   K    +LL  AY   F Q  V L PLLS GIF      SL     CV      
Sbjct  1381  VVGPRKGK-HAAELLTKAYTFVFKQKGVPLMPLLSVGIFKVPITESLAAFLACVGDRVCK  1439

Query  355   VYLAVFDKNL-YDKLVSSFLEMKSEKQVE-----QKIAEIPKEEVKPFITESKPSVEQRK  408
              +     + L     V+SF   ++E+ VE     Q++  +  E+  P +    P    R 
Sbjct  1440  CFCYTDKERLAIQNFVTSF---QTEQPVEPLPVIQEVKGVQLEKPVPDVKVENPCEPFRI  1496

Query  409   QDDKKIKACVEEVTTTLEETKFLT  432
             + D K       +  +L+ T+ ++
Sbjct  1497  EGDAKFYDLTPSMVQSLQVTRLVS  1520


 Score = 60.8 bits (146),  Expect = 2e-07, Method: Compositional matrix adjust.
 Identities = 52/196 (27%), Positives = 83/196 (42%), Gaps = 12/196 (6%)

Query  743   SLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYV  802
             +L E + ++V  T D  + HT  +  S TYGQQ G   ++   VT +KP +  +  +  V
Sbjct  1634  TLFEAKPVQVVVTQDQRSFHTVELSTSQTYGQQLGDCVVEDKKVTNLKPVSKDKVVS--V  1691

Query  803   LPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTK-KWKYPQVNGLTSIKWADNNCYLATA  861
             +PN     V+  ++Y   D          L+HT   +    VNG   ++ +DNNC++   
Sbjct  1692  VPN-----VDWDKHYGFVDAGIF----HTLDHTMFVFDNNVVNGKRVLRTSDNNCWINAV  1742

Query  862   LLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHA  921
              L LQ    KF P  LQ  +     G+ A F   +        GE  D   T++ + +  
Sbjct  1743  CLQLQFANAKFKPKGLQQLWESYCTGDVAMFVHWLYWITGVEKGEPSDAENTLNIISRFL  1802

Query  922   NLDSCKRVLNVVCKTC  937
                    +L     TC
Sbjct  1803  KPQGSVEMLRATSTTC  1818


>sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus 
512/2005 OX=693999 GN=rep PE=3 SV=1
Length=6793

 Score = 205 bits (521),  Expect = 3e-51, Method: Compositional matrix adjust.
 Identities = 169/607 (28%), Positives = 281/607 (46%), Gaps = 74/607 (12%)

Query  1353  YFFTLLLQLCTFTRSTNSRIKASMPT---TIAKNTVK---SVGKFCLEASFNYLKSPNFS  1406
             Y F+LL       +  + ++ A +P     I K +VK      KF     F Y+K     
Sbjct  1984  YLFSLLAICFRALKKRDMKVMAGVPERTGIILKRSVKYNYKALKFFFRLKFQYIKV----  2039

Query  1407  KLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTG  1466
                     FL  S+ L +L Y+   + +  + +G P  C  Y +GY NST      YC G
Sbjct  2040  --------FLKFSLVLYTL-YALMFMFIRFTPVGTP-ICKRYTDGYANST-FDKNDYC-G  2087

Query  1467  SIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLA  1526
             ++ C +CL G + L  +     I       K  L    L   + +  I+F  FF  +G+ 
Sbjct  2088  NVLCKICLYGYEELSDFTHTRVIW---QHLKDPLIGNILPLFYLVFLIIFGGFFVRIGIT  2144

Query  1527  AIMQLFFSY--FAVHFISNSWLMWLII-----NLVQMAPISAMVRMYIFFASFYYVWKSY  1579
               +  + +    A+ +  N WL+ L+      N++ +A I  + R+ +F           
Sbjct  2145  YFIMQYINAAGVALGYQDNVWLLHLLPFNSMGNIIVVAFI--VTRILLFLK---------  2193

Query  1580  VHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDT  1639
              HV+ GC+  +C+ C K  + TRV   TI+ GV +SFYV ANGGK FCK HN+ CV+CD+
Sbjct  2194  -HVLFGCDKPSCIACSKSAKLTRVPLQTILQGVTKSFYVNANGGKKFCKKHNFFCVDCDS  2252

Query  1640  FCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHS  1699
             +  G TFI+D +A +LS   K  + PT  ++ I+D V   NG  +LY      K     +
Sbjct  2253  YGYGCTFINDVIAPELSNVTKLNVIPTGPATIIIDKVEFSNGFYYLYSGSTFWKYNFDIT  2312

Query  1700  LSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALV  1759
              + +   D L+  N    +  + +VF+  S    +  K+A VY+SQL+C+PI L+D AL+
Sbjct  2313  EAKYACKDVLKNCN----ILTDFVVFN-NSGSNVTQVKNACVYFSQLLCKPIKLVDSALL  2367

Query  1760  SDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAA  1819
             + +  + + +  +  A+V   S++F   +     +                      +  
Sbjct  2368  ASL--NVDFSANLHKAFVEVLSNSFGKDLSNCSNM----------------------NEC  2403

Query  1820  RQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKV-ENMTPRDLGACIDCSA  1878
             R+    SDV  ++    +  +H+ D+ ++  S NN +++Y K  E +   D+  C+   A
Sbjct  2404  RESLGLSDVPEEEFSAAVSEAHRYDVLISDVSFNNLIVSYAKPEEKLAVHDIANCMRVGA  2463

Query  1879  RHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTT  1938
             + +N  V    N+ ++W  KDF++LSE+ RK I    K   + F LT    R  + + T 
Sbjct  2464  KVVNHNVLTKDNVPVVWLAKDFIALSEEARKYIVRTTKTKGINFMLTFNDRRMHLTIPTI  2523

Query  1939  KIALKGG  1945
              +A K G
Sbjct  2524  SVANKKG  2530


 Score = 74.7 bits (182),  Expect = 1e-11, Method: Compositional matrix adjust.
 Identities = 66/206 (32%), Positives = 97/206 (47%), Gaps = 20/206 (10%)

Query  239   VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSG--HNLAKHC  296
             VVNAAN  L HGGG+A AL+  T   +QV S+ Y++ NG +KVG   ++    H++    
Sbjct  1323  VVNAANEQLSHGGGIAKALDDLTKGELQVLSNQYVSRNGSIKVGSGVLIKCKEHSI----  1378

Query  297   LHVVGPNVNKGEDIQLLKSAYEN-FNQHEVLLAPLLSAGIFGADPIHSLR---VCVDTVR  352
             L+VVGP   K    +LL  AY   F Q  V L PLLS GIF      SL     CV    
Sbjct  1379  LNVVGPRKGK-HAAELLTKAYTFVFKQKGVPLMPLLSVGIFKVPITESLAAFLACVGDRV  1437

Query  353   TNVYLAVFDKNL-YDKLVSSFLEMKSEKQVE-----QKIAEIPKEEVKPFITESKPSVEQ  406
                +     + L     V+SF   ++E+ VE     Q++  +  E+  P +    P    
Sbjct  1438  CKCFCYTDKERLAIQNFVTSF---QTEQPVEPLPVIQEVKGVQLEKPVPDVKVENPCEPF  1494

Query  407   RKQDDKKIKACVEEVTTTLEETKFLT  432
             R + D K       +  +L+ T+ ++
Sbjct  1495  RIEGDAKFYDLTPSMVQSLQVTRLVS  1520


 Score = 60.5 bits (145),  Expect = 2e-07, Method: Compositional matrix adjust.
 Identities = 54/206 (26%), Positives = 87/206 (42%), Gaps = 12/206 (6%)

Query  743   SLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYV  802
             +L E + ++V  T D  + HT  +  S TYGQQ G   ++   VT +KP +  +  +  V
Sbjct  1634  TLFEAKPVQVVVTQDQRSFHTVELSTSQTYGQQLGDCVVEDKKVTNLKPVSKDKVVS--V  1691

Query  803   LPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTK-KWKYPQVNGLTSIKWADNNCYLATA  861
             +PN     V+  ++Y   D          L+HT   +    VNG   ++ +DNNC++   
Sbjct  1692  VPN-----VDWDKHYGFVDAGIF----HTLDHTMFVFDNNVVNGKRVLRTSDNNCWINAV  1742

Query  862   LLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHA  921
              L LQ    KF P  LQ  +     G+ A F   +        GE  D   T++ + +  
Sbjct  1743  CLQLQFANAKFKPKGLQQLWESYCTGDVAMFVHWLYWITGVEKGEPSDAENTLNIISRFL  1802

Query  922   NLDSCKRVLNVVCKTCGQQQTTLKGV  947
                    +L     TC    +T + V
Sbjct  1803  KPQGSVEMLRATSTTCDGTCSTKRVV  1828


>sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavirus 
229E OX=11137 GN=rep PE=1 SV=1
Length=6758

 Score = 200 bits (509),  Expect = 7e-50, Method: Compositional matrix adjust.
 Identities = 177/617 (29%), Positives = 281/617 (46%), Gaps = 94/617 (15%)

Query  1354  FFTLLLQLCTFTRST----NSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLI  1409
             FFT LL + T  ++     + +I A  P        +S+ K+ L+AS   LKS       
Sbjct  1936  FFTWLLSMFTLCKTAVTTGDVKIMAKAPQRTGVVLKRSL-KYNLKASAAVLKSK------  1988

Query  1410  NIIIWFLLLSVC-LGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSI  1468
                 W+LL     L  LIY+  ++ +L    G  ++C+    GY  S N     YC GS+
Sbjct  1989  ----WWLLAKFTKLLLLIYTLYSVVLLCVRFGPFNFCSETVNGYAKS-NFVKDDYCDGSL  2043

Query  1469  PCSVCLSGLDSLDTYPSLETI--QITISSFKWDLTAFGLVAEWFL---AYILFTRFFYVL  1523
              C +CL G   L  +  L+ +   IT   F  ++  F ++    +    Y+     ++V 
Sbjct  2044  GCKMCLFGYQELSQFSHLDVVWKHITDPLFS-NMQPFIVMVLLLIFGDNYLRCFLLYFVA  2102

Query  1524  GLAAIMQLFFSY----FAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSY  1579
              + + + +F  Y    + +HFI    +   ++  V +  + + VR               
Sbjct  2103  QMISTVGVFLGYKETNWFLHFIPFDVICDELLVTVIVIKVISFVR---------------  2147

Query  1580  VHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDT  1639
              HV+ GC +  C+ C K  R  R    TIVNGV+RSFYV ANGG  FCK H + CV+CD+
Sbjct  2148  -HVLFGCENPDCIACSKSARLKRFPVNTIVNGVQRSFYVNANGGSKFCKKHRFFCVDCDS  2206

Query  1640  FCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLY---------FDKA  1690
             +  GSTFI+ EV+R+L    K  + PT  +  ++D V  +NG   LY         FD  
Sbjct  2207  YGYGSTFITPEVSRELGNITKTNVQPTGPAYVMIDKVEFENGFYRLYSCETFWRYNFDIT  2266

Query  1691  GQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQP  1750
               K   +    +   LD+    N  G+   NV           +  K+ASVY+SQL+C+P
Sbjct  2267  ESKYSCKEVFKNCNVLDDFIVFNNNGT---NV-----------TQVKNASVYFSQLLCRP  2312

Query  1751  ILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSL-D  1809
             I L+D  L+S +  S +    +  AY++   ++F    + L   ++ AE + A  +S+ D
Sbjct  2313  IKLVDSELLSTL--SVDFNGVLHKAYIDVLRNSFG---KDLNANMSLAECKRALGLSISD  2367

Query  1810  NVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKV-ENMTPR  1868
             +  ++ IS A                     H+ D+ ++  S NN++ +Y K  E ++  
Sbjct  2368  HEFTSAISNA---------------------HRCDVLLSDLSFNNFVSSYAKPEEKLSAY  2406

Query  1869  DLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCAT  1928
             DL  C+   A+ +NA V       ++W+ KDF SLS + RK I   +K   L F LT   
Sbjct  2407  DLACCMRAGAKVVNANVLTKDQTPIVWHAKDFNSLSAEGRKYIVKTSKAKGLTFLLTINE  2466

Query  1929  TRQVVNVVTTKIALKGG  1945
              + V  +  T I  K G
Sbjct  2467  NQAVTQIPATSIVAKQG  2483


 Score = 75.1 bits (183),  Expect = 9e-12, Method: Compositional matrix adjust.
 Identities = 70/246 (28%), Positives = 110/246 (45%), Gaps = 18/246 (7%)

Query  173   QDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVN---------SFSGYLKLTDNVYIK  223
             Q  + D   T      +   ++E+ +TP+  T++             + +L + DNV   
Sbjct  1226  QPWTNDALNTICIKDADYNAKVEISVTPIKNTVDTTPKEEFVVKEKLNAFL-VHDNVAFY  1284

Query  224   NADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGG  283
               D+      V    +VNAAN  L HGGG+A AL+  T   +Q  S ++I   G +KVG 
Sbjct  1285  QGDVDTVVNGVDFDFIVNAANENLAHGGGLAKALDVYTKGKLQRLSKEHIGLAGKVKVGT  1344

Query  284   SCVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHS  343
               ++   +L     +VVGP   K E   L+K+     N+    L P+LS GIFG     S
Sbjct  1345  GVMVECDSL--RIFNVVGPRKGKHERDLLIKAYNTINNEQGTPLTPILSCGIFGIKLETS  1402

Query  344   LRVCVDTVRTN-VYLAVFDKNLYDKL---VSSFLEMKSEKQ--VEQKIAEIPKEEVKPFI  397
             L V +D   T  V + V+      K+   VS  + ++  +Q  +E K   + K   KP+ 
Sbjct  1403  LEVLLDVCNTKEVKVFVYTDTEVCKVKDFVSGLVNVQKVEQPKIEPKPVSVIKVAPKPYR  1462

Query  398   TESKPS  403
              + K S
Sbjct  1463  VDGKFS  1468


 Score = 52.8 bits (125),  Expect = 4e-05, Method: Compositional matrix adjust.
 Identities = 74/339 (22%), Positives = 137/339 (40%), Gaps = 30/339 (9%)

Query  742   LSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFY  801
             L   E + I +  T D +N+H   V    ++ QQ G       D++   P + +  +   
Sbjct  1595  LKAAEAKVITIKVTEDGVNVHDVTVTTDKSFEQQVGVIADKDKDLSGAVPSDLNTSELL-  1653

Query  802   VLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTK-KWKYPQVNGLTSIKWADNNCYLAT  860
                    + V+  E+Y   D        + ++H+   ++   VNG+  +K +DNNC++  
Sbjct  1654  ----TKAIDVDWVEFYGFKD----AVTFATVDHSAFAYESAVVNGIRVLKTSDNNCWVNA  1705

Query  861   ALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQH  920
               + LQ  +  F    L  A+ +   G+   F A +        G+ GD  +T++ L ++
Sbjct  1706  VCIALQYSKPHFISQGLDAAWNKFVLGDVEIFVAFVYYVARLMKGDKGDAEDTLTKLSKY  1765

Query  921   -ANLDSCKRVLNVVCKTCGQQ-QTTLKGVEAVMYMGTLSYEQFKKGVQIP-CTCGKQATK  977
              AN    +      C  C  + + ++  + + +   ++     + GVQ+  C  G +   
Sbjct  1766  LANEAQVQLEHYSSCVECDAKFKNSVASINSAIVCASVK----RDGVQVGYCVHGIKYYS  1821

Query  978   YLVQQESPFVMMSA----PPAQYELKHGTFTCASEYTGNYQCGHYK-HITSKETLYCIDG  1032
              +       +++S     P AQ  L  G    A  ++G    GHY  + T+K+++Y  DG
Sbjct  1822  RVRSVRGRAIIVSVEQLEPCAQSRLLSGVAYTA--FSGPVDKGHYTVYDTAKKSMY--DG  1877

Query  1033  ALLTKSSEYKGPITDVF----YKENSYTTTIKPVTYKLD  1067
                 K       +T V     Y     T   KPV  +LD
Sbjct  1878  DRFVKHDLSLLSVTSVVMVGGYVAPVNTVKPKPVINQLD  1916


 Score = 49.3 bits (116),  Expect = 5e-04, Method: Compositional matrix adjust.
 Identities = 62/267 (23%), Positives = 110/267 (41%), Gaps = 18/267 (7%)

Query  840   YPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAY  899
             + ++NGL  +K  DNNC++ + +L +Q   +     A+Q  +   R  +    C      
Sbjct  1038  FEELNGLKILKQLDNNCWVNSVMLQIQLTGILDGDYAMQ-FFKMGRVAKMIERC-YTAEQ  1095

Query  900   CNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYE  959
             C +  G +GDV   M  L +  +L +   V++  C +C   +    G  AV++  T + +
Sbjct  1096  CIR--GAMGDVGLCMYRLLK--DLHTGFMVMDYKC-SCTSGRLEESG--AVLFC-TPTKK  1147

Query  960   QFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYK  1019
              F  G  + C   +  T   +Q    FV     P           C+S + G   CGHY+
Sbjct  1148  AFPYGTCLNCNAPRMCTIRQLQGTIIFVQQKPEPVNPVSFVVKPVCSSIFRGAVSCGHYQ  1207

Query  1020  HITSKETLYCIDGALLTKSSEYKG-PITDVFYKENSYTT----TIKPVTYKLDGVVCTE-  1073
                  + L C+DG  + K   +    +  +  K+  Y      ++ P+   +D     E 
Sbjct  1208  TNIYSQNL-CVDGFGVNKIQPWTNDALNTICIKDADYNAKVEISVTPIKNTVDTTPKEEF  1266

Query  1074  -IDPKLDNYYKKDNSYFTEQPIDLVPN  1099
              +  KL+ +   DN  F +  +D V N
Sbjct  1267  VVKEKLNAFLVHDNVAFYQGDVDTVVN  1293


>sp|P0C6U2|R1A_CVH22 Replicase polyprotein 1a OS=Human coronavirus 
229E OX=11137 GN=1a PE=1 SV=1
Length=4085

 Score = 200 bits (508),  Expect = 8e-50, Method: Compositional matrix adjust.
 Identities = 177/617 (29%), Positives = 281/617 (46%), Gaps = 94/617 (15%)

Query  1354  FFTLLLQLCTFTRST----NSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLI  1409
             FFT LL + T  ++     + +I A  P        +S+ K+ L+AS   LKS       
Sbjct  1936  FFTWLLSMFTLCKTAVTTGDVKIMAKAPQRTGVVLKRSL-KYNLKASAAVLKSK------  1988

Query  1410  NIIIWFLLLSVC-LGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSI  1468
                 W+LL     L  LIY+  ++ +L    G  ++C+    GY  S N     YC GS+
Sbjct  1989  ----WWLLAKFTKLLLLIYTLYSVVLLCVRFGPFNFCSETVNGYAKS-NFVKDDYCDGSL  2043

Query  1469  PCSVCLSGLDSLDTYPSLETI--QITISSFKWDLTAFGLVAEWFL---AYILFTRFFYVL  1523
              C +CL G   L  +  L+ +   IT   F  ++  F ++    +    Y+     ++V 
Sbjct  2044  GCKMCLFGYQELSQFSHLDVVWKHITDPLFS-NMQPFIVMVLLLIFGDNYLRCFLLYFVA  2102

Query  1524  GLAAIMQLFFSY----FAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSY  1579
              + + + +F  Y    + +HFI    +   ++  V +  + + VR               
Sbjct  2103  QMISTVGVFLGYKETNWFLHFIPFDVICDELLVTVIVIKVISFVR---------------  2147

Query  1580  VHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDT  1639
              HV+ GC +  C+ C K  R  R    TIVNGV+RSFYV ANGG  FCK H + CV+CD+
Sbjct  2148  -HVLFGCENPDCIACSKSARLKRFPVNTIVNGVQRSFYVNANGGSKFCKKHRFFCVDCDS  2206

Query  1640  FCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLY---------FDKA  1690
             +  GSTFI+ EV+R+L    K  + PT  +  ++D V  +NG   LY         FD  
Sbjct  2207  YGYGSTFITPEVSRELGNITKTNVQPTGPAYVMIDKVEFENGFYRLYSCETFWRYNFDIT  2266

Query  1691  GQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQP  1750
               K   +    +   LD+    N  G+   NV           +  K+ASVY+SQL+C+P
Sbjct  2267  ESKYSCKEVFKNCNVLDDFIVFNNNGT---NV-----------TQVKNASVYFSQLLCRP  2312

Query  1751  ILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSL-D  1809
             I L+D  L+S +  S +    +  AY++   ++F    + L   ++ AE + A  +S+ D
Sbjct  2313  IKLVDSELLSTL--SVDFNGVLHKAYIDVLRNSFG---KDLNANMSLAECKRALGLSISD  2367

Query  1810  NVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKV-ENMTPR  1868
             +  ++ IS A                     H+ D+ ++  S NN++ +Y K  E ++  
Sbjct  2368  HEFTSAISNA---------------------HRCDVLLSDLSFNNFVSSYAKPEEKLSAY  2406

Query  1869  DLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCAT  1928
             DL  C+   A+ +NA V       ++W+ KDF SLS + RK I   +K   L F LT   
Sbjct  2407  DLACCMRAGAKVVNANVLTKDQTPIVWHAKDFNSLSAEGRKYIVKTSKAKGLTFLLTINE  2466

Query  1929  TRQVVNVVTTKIALKGG  1945
              + V  +  T I  K G
Sbjct  2467  NQAVTQIPATSIVAKQG  2483


 Score = 74.3 bits (181),  Expect = 1e-11, Method: Compositional matrix adjust.
 Identities = 70/246 (28%), Positives = 110/246 (45%), Gaps = 18/246 (7%)

Query  173   QDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVN---------SFSGYLKLTDNVYIK  223
             Q  + D   T      +   ++E+ +TP+  T++             + +L + DNV   
Sbjct  1226  QPWTNDALNTICIKDADYNAKVEISVTPIKNTVDTTPKEEFVVKEKLNAFL-VHDNVAFY  1284

Query  224   NADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGG  283
               D+      V    +VNAAN  L HGGG+A AL+  T   +Q  S ++I   G +KVG 
Sbjct  1285  QGDVDTVVNGVDFDFIVNAANENLAHGGGLAKALDVYTKGKLQRLSKEHIGLAGKVKVGT  1344

Query  284   SCVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHS  343
               ++   +L     +VVGP   K E   L+K+     N+    L P+LS GIFG     S
Sbjct  1345  GVMVECDSL--RIFNVVGPRKGKHERDLLIKAYNTINNEQGTPLTPILSCGIFGIKLETS  1402

Query  344   LRVCVDTVRTN-VYLAVFDKNLYDKL---VSSFLEMKSEKQ--VEQKIAEIPKEEVKPFI  397
             L V +D   T  V + V+      K+   VS  + ++  +Q  +E K   + K   KP+ 
Sbjct  1403  LEVLLDVCNTKEVKVFVYTDTEVCKVKDFVSGLVNVQKVEQPKIEPKPVSVIKVAPKPYR  1462

Query  398   TESKPS  403
              + K S
Sbjct  1463  VDGKFS  1468


 Score = 53.5 bits (127),  Expect = 3e-05, Method: Compositional matrix adjust.
 Identities = 74/339 (22%), Positives = 137/339 (40%), Gaps = 30/339 (9%)

Query  742   LSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFY  801
             L   E + I +  T D +N+H   V    ++ QQ G       D++   P + +  +   
Sbjct  1595  LKAAEAKVITIKVTEDGVNVHDVTVTTDKSFEQQVGVIADKDKDLSGAVPSDLNTSELL-  1653

Query  802   VLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTK-KWKYPQVNGLTSIKWADNNCYLAT  860
                    + V+  E+Y   D        + ++H+   ++   VNG+  +K +DNNC++  
Sbjct  1654  ----TKAIDVDWVEFYGFKD----AVTFATVDHSAFAYESAVVNGIRVLKTSDNNCWVNA  1705

Query  861   ALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQH  920
               + LQ  +  F    L  A+ +   G+   F A +        G+ GD  +T++ L ++
Sbjct  1706  VCIALQYSKPHFISQGLDAAWNKFVLGDVEIFVAFVYYVARLMKGDKGDAEDTLTKLSKY  1765

Query  921   -ANLDSCKRVLNVVCKTCGQQ-QTTLKGVEAVMYMGTLSYEQFKKGVQIP-CTCGKQATK  977
              AN    +      C  C  + + ++  + + +   ++     + GVQ+  C  G +   
Sbjct  1766  LANEAQVQLEHYSSCVECDAKFKNSVASINSAIVCASVK----RDGVQVGYCVHGIKYYS  1821

Query  978   YLVQQESPFVMMSA----PPAQYELKHGTFTCASEYTGNYQCGHYK-HITSKETLYCIDG  1032
              +       +++S     P AQ  L  G    A  ++G    GHY  + T+K+++Y  DG
Sbjct  1822  RVRSVRGRAIIVSVEQLEPCAQSRLLSGVAYTA--FSGPVDKGHYTVYDTAKKSMY--DG  1877

Query  1033  ALLTKSSEYKGPITDVF----YKENSYTTTIKPVTYKLD  1067
                 K       +T V     Y     T   KPV  +LD
Sbjct  1878  DRFVKHDLSLLSVTSVVMVGGYVAPVNTVKPKPVINQLD  1916


 Score = 49.7 bits (117),  Expect = 4e-04, Method: Compositional matrix adjust.
 Identities = 62/267 (23%), Positives = 110/267 (41%), Gaps = 18/267 (7%)

Query  840   YPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAY  899
             + ++NGL  +K  DNNC++ + +L +Q   +     A+Q  +   R  +    C      
Sbjct  1038  FEELNGLKILKQLDNNCWVNSVMLQIQLTGILDGDYAMQ-FFKMGRVAKMIERC-YTAEQ  1095

Query  900   CNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYE  959
             C +  G +GDV   M  L +  +L +   V++  C +C   +    G  AV++  T + +
Sbjct  1096  CIR--GAMGDVGLCMYRLLK--DLHTGFMVMDYKC-SCTSGRLEESG--AVLFC-TPTKK  1147

Query  960   QFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYK  1019
              F  G  + C   +  T   +Q    FV     P           C+S + G   CGHY+
Sbjct  1148  AFPYGTCLNCNAPRMCTIRQLQGTIIFVQQKPEPVNPVSFVVKPVCSSIFRGAVSCGHYQ  1207

Query  1020  HITSKETLYCIDGALLTKSSEYKG-PITDVFYKENSYTT----TIKPVTYKLDGVVCTE-  1073
                  + L C+DG  + K   +    +  +  K+  Y      ++ P+   +D     E 
Sbjct  1208  TNIYSQNL-CVDGFGVNKIQPWTNDALNTICIKDADYNAKVEISVTPIKNTVDTTPKEEF  1266

Query  1074  -IDPKLDNYYKKDNSYFTEQPIDLVPN  1099
              +  KL+ +   DN  F +  +D V N
Sbjct  1267  VVKEKLNAFLVHDNVAFYQGDVDTVVN  1293


>sp|P0C6Y4|R1AB_PEDV7 Replicase polyprotein 1ab OS=Porcine epidemic 
diarrhea virus (strain CV777) OX=229032 GN=rep PE=1 SV=1
Length=6781

 Score = 181 bits (458),  Expect = 6e-44, Method: Compositional matrix adjust.
 Identities = 150/545 (28%), Positives = 244/545 (45%), Gaps = 59/545 (11%)

Query  1412  IIWFLLLS-VCLG-SLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIP  1469
             + WF +L    LG   +Y+   + +  + +G P  C     GY NS+      YC  S+ 
Sbjct  2020  LYWFKVLGKFSLGIYALYALLFMTIRFTPIGSP-VCDDVVAGYANSS-FDKNEYCN-SVI  2076

Query  1470  CSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIM  1529
             C VCL G   L  +   + +        W      L+            FFY+  LA   
Sbjct  2077  CKVCLYGYQELSDFSHTQVV--------WQHLRDPLIGN-------VMPFFYLAFLAIFG  2121

Query  1530  QLFFSYFAVHFIS---NSWLMWL----IINLVQMAPISAMVRMYIFFASFYYVWKSYVHV  1582
              ++     ++FI    NS  ++L     I  +Q+ P        + F     V     HV
Sbjct  2122  GVYVKAITLYFIFQYLNSLGVFLGLQQSIWFLQLVPFDVFGDEIVVFFIVTRVLMFIKHV  2181

Query  1583  VDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCA  1642
               GC+ ++C+ C K  R  RV   TI  G  +SFYV+ANGG  FCK HN+ C+NCD++  
Sbjct  2182  CLGCDKASCVACSKSARLKRVPVQTIFQGTSKSFYVHANGGSKFCKKHNFFCLNCDSYGP  2241

Query  1643  GSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSH  1702
             G TFI+D +A ++    K  + PT  ++ ++D V   NG  +LY      K     + S 
Sbjct  2242  GCTFINDVIATEVGNVVKLNVQPTGPATILIDKVEFSNGFYYLYSGDTFWKYNFDITDSK  2301

Query  1703  FVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDV  1762
             +   + L+      S+  + IVF+       +  K+A VY+SQ++C+P+ L+D AL++ +
Sbjct  2302  YTCKEALK----NCSIITDFIVFNNNGS-NVNQVKNACVYFSQMLCKPVKLVDSALLASL  2356

Query  1763  GDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNV-LSTFISAARQ  1821
               S +    +  A+V+  S++F   +     +      +    +  D+V L TF +A  +
Sbjct  2357  --SVDFGASLHSAFVSVLSNSFGKDLSSCNDM-----QDCKSTLGFDDVPLDTFNAAVAE  2409

Query  1822  GFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTP-RDLGACIDCSARH  1880
                               +H+ D+ +T  S NN+  +Y K E   P  D+  C+   A+ 
Sbjct  2410  ------------------AHRYDVLLTDMSFNNFTTSYAKPEEKFPVHDIATCMRVGAKI  2451

Query  1881  INAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKI  1940
             +N  V    +I ++W V+DF++LSE+ RK I    K   + F LT    R    + T  I
Sbjct  2452  VNHNVLVKDSIPVVWLVRDFIALSEETRKYIIRTTKVKGITFMLTFNDCRMHTTIPTVCI  2511

Query  1941  ALKGG  1945
             A K G
Sbjct  2512  ANKKG  2516


 Score = 71.6 bits (174),  Expect = 9e-11, Method: Compositional matrix adjust.
 Identities = 56/165 (34%), Positives = 74/165 (45%), Gaps = 10/165 (6%)

Query  175   GSEDNQTTTIQTIVEVQPQLEMELTPVVQTIE---VNSFSGYLKLTDNVYIKNADIVEEA  231
             G    +  T+ TI          L P V ++    V  F  Y     NV     D   + 
Sbjct  1255  GRHQIKYDTLNTICVKDVNWTAPLVPAVDSVVEPVVKPFYSY----KNVDFYQGDF-SDL  1309

Query  232   KKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHN  291
              K+    VVNAAN  L HGGG+A A++  T   +Q  S+DYI  +GP+KVG   +L    
Sbjct  1310  VKLPCDFVVNAANEKLSHGGGIAKAIDVYTKGMLQKCSNDYIKAHGPIKVGRGVMLEA--  1367

Query  292   LAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIF  336
             L     +VVGP   K     L+K+    F    V L PL+S GIF
Sbjct  1368  LGLKVFNVVGPRKGKHAPELLVKAYKSVFANSGVALTPLISVGIF  1412


 Score = 47.4 bits (111),  Expect = 0.002, Method: Compositional matrix adjust.
 Identities = 85/344 (25%), Positives = 138/344 (40%), Gaps = 38/344 (11%)

Query  730   GEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKI  789
             G V T D+++   + + V  IKV  T D  ++    V+ + TYGQQ GP  ++   VT  
Sbjct  1616  GFVSTPDDVERFYANKSV-VIKV--TEDTRSVKAVKVESTATYGQQIGPCLVNDTVVTDN  1672

Query  790   KPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQ--VNGLT  847
             KP  +       V+PN +      ++ ++  D +  G +   L+HT  + +P   VNG  
Sbjct  1673  KPVVADVVAK--VVPNAN------WDSHYGFDKA--GEF-HMLDHTG-FTFPSEVVNGRR  1720

Query  848   SIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGEL  907
              IK  DNNC++    L LQ    +F    LQ  +     G+ A F   +        G+ 
Sbjct  1721  VIKTTDNNCWVNVTCLQLQFARFRFKSAGLQAMWESYCTGDVAMFVHWLYWLTGVDKGQP  1780

Query  908   GDVRETMSYLFQH---ANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKG  964
              D    ++ L ++   A   + +RV +  C  C ++  T   V A +          K G
Sbjct  1781  SDSENALNMLSKYIVPAGSVTIERVTHDGC-CCSKRVVTAPVVNASV---------LKLG  1830

Query  965   VQ---IPCTCGKQATKYLVQQESPFVMMSAP---PAQYELKHGTFTCASEYTGNYQCGHY  1018
             V+    P          +V+  +  V +  P   P+   LK  ++T   +  GN   GHY
Sbjct  1831  VEDGLCPHGLNYIGKVVVVKGTTIVVNVGKPVVAPSHLFLKGVSYTTFLD-NGNGVVGHY  1889

Query  1019  KHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPV  1062
               +    T    DG           P+T+V   E +      PV
Sbjct  1890  T-VFDHGTGMVHDGDAFVPGDLNVSPVTNVVVSEQTAVVIKDPV  1932


>sp|P0C6V6|R1A_PEDV7 Replicase polyprotein 1a OS=Porcine epidemic 
diarrhea virus (strain CV777) OX=229032 GN=1a PE=1 SV=1
Length=4117

 Score = 180 bits (457),  Expect = 8e-44, Method: Compositional matrix adjust.
 Identities = 150/545 (28%), Positives = 244/545 (45%), Gaps = 59/545 (11%)

Query  1412  IIWFLLLS-VCLG-SLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIP  1469
             + WF +L    LG   +Y+   + +  + +G P  C     GY NS+      YC  S+ 
Sbjct  2020  LYWFKVLGKFSLGIYALYALLFMTIRFTPIGSP-VCDDVVAGYANSS-FDKNEYCN-SVI  2076

Query  1470  CSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIM  1529
             C VCL G   L  +   + +        W      L+            FFY+  LA   
Sbjct  2077  CKVCLYGYQELSDFSHTQVV--------WQHLRDPLIGN-------VMPFFYLAFLAIFG  2121

Query  1530  QLFFSYFAVHFIS---NSWLMWL----IINLVQMAPISAMVRMYIFFASFYYVWKSYVHV  1582
              ++     ++FI    NS  ++L     I  +Q+ P        + F     V     HV
Sbjct  2122  GVYVKAITLYFIFQYLNSLGVFLGLQQSIWFLQLVPFDVFGDEIVVFFIVTRVLMFIKHV  2181

Query  1583  VDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCA  1642
               GC+ ++C+ C K  R  RV   TI  G  +SFYV+ANGG  FCK HN+ C+NCD++  
Sbjct  2182  CLGCDKASCVACSKSARLKRVPVQTIFQGTSKSFYVHANGGSKFCKKHNFFCLNCDSYGP  2241

Query  1643  GSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSH  1702
             G TFI+D +A ++    K  + PT  ++ ++D V   NG  +LY      K     + S 
Sbjct  2242  GCTFINDVIATEVGNVVKLNVQPTGPATILIDKVEFSNGFYYLYSGDTFWKYNFDITDSK  2301

Query  1703  FVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDV  1762
             +   + L+      S+  + IVF+       +  K+A VY+SQ++C+P+ L+D AL++ +
Sbjct  2302  YTCKEALK----NCSIITDFIVFNNNGS-NVNQVKNACVYFSQMLCKPVKLVDSALLASL  2356

Query  1763  GDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNV-LSTFISAARQ  1821
               S +    +  A+V+  S++F   +     +      +    +  D+V L TF +A  +
Sbjct  2357  --SVDFGASLHSAFVSVLSNSFGKDLSSCNDM-----QDCKSTLGFDDVPLDTFNAAVAE  2409

Query  1822  GFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTP-RDLGACIDCSARH  1880
                               +H+ D+ +T  S NN+  +Y K E   P  D+  C+   A+ 
Sbjct  2410  ------------------AHRYDVLLTDMSFNNFTTSYAKPEEKFPVHDIATCMRVGAKI  2451

Query  1881  INAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKI  1940
             +N  V    +I ++W V+DF++LSE+ RK I    K   + F LT    R    + T  I
Sbjct  2452  VNHNVLVKDSIPVVWLVRDFIALSEETRKYIIRTTKVKGITFMLTFNDCRMHTTIPTVCI  2511

Query  1941  ALKGG  1945
             A K G
Sbjct  2512  ANKKG  2516


 Score = 71.2 bits (173),  Expect = 1e-10, Method: Compositional matrix adjust.
 Identities = 56/165 (34%), Positives = 74/165 (45%), Gaps = 10/165 (6%)

Query  175   GSEDNQTTTIQTIVEVQPQLEMELTPVVQTIE---VNSFSGYLKLTDNVYIKNADIVEEA  231
             G    +  T+ TI          L P V ++    V  F  Y     NV     D   + 
Sbjct  1255  GRHQIKYDTLNTICVKDVNWTAPLVPAVDSVVEPVVKPFYSY----KNVDFYQGDF-SDL  1309

Query  232   KKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHN  291
              K+    VVNAAN  L HGGG+A A++  T   +Q  S+DYI  +GP+KVG   +L    
Sbjct  1310  VKLPCDFVVNAANEKLSHGGGIAKAIDVYTKGMLQKCSNDYIKAHGPIKVGRGVMLEA--  1367

Query  292   LAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIF  336
             L     +VVGP   K     L+K+    F    V L PL+S GIF
Sbjct  1368  LGLKVFNVVGPRKGKHAPELLVKAYKSVFANSGVALTPLISVGIF  1412


 Score = 48.1 bits (113),  Expect = 0.001, Method: Compositional matrix adjust.
 Identities = 88/347 (25%), Positives = 141/347 (41%), Gaps = 44/347 (13%)

Query  730   GEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKI  789
             G V T D+++   + + V  IKV  T D  ++    V+ + TYGQQ GP  ++   VT  
Sbjct  1616  GFVSTPDDVERFYANKSV-VIKV--TEDTRSVKAVKVESTATYGQQIGPCLVNDTVVTDN  1672

Query  790   KPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQ--VNGLT  847
             KP  +       V+PN +      ++ ++  D +  G +   L+HT  + +P   VNG  
Sbjct  1673  KPVVADVVAK--VVPNAN------WDSHYGFDKA--GEF-HMLDHTG-FTFPSEVVNGRR  1720

Query  848   SIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGEL  907
              IK  DNNC++    L LQ    +F    LQ  +     G+ A F   +        G+ 
Sbjct  1721  VIKTTDNNCWVNVTCLQLQFARFRFKSAGLQAMWESYCTGDVAMFVHWLYWLTGVDKGQP  1780

Query  908   GDVRETMSYLFQH---ANLDSCKRVLNVVCKTCGQQQTTLKGVEA-VMYMGT--------  955
              D    ++ L ++   A   + +RV +  C  C ++  T   V A V+ +G         
Sbjct  1781  SDSENALNMLSKYIVPAGSVTIERVTHDGC-CCSKRVVTAPVVNASVLKLGVEDGLCPHG  1839

Query  956   LSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQC  1015
             L+Y    K V +      + T  +V    P V     P+   LK  ++T   +  GN   
Sbjct  1840  LNY--IGKVVVV------KGTTIVVNVGKPVV----APSHLFLKGVSYTTFLD-NGNGVV  1886

Query  1016  GHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPV  1062
             GHY  +    T    DG           P+T+V   E +      PV
Sbjct  1887  GHYT-VFDHGTGMVHDGDAFVPGDLNVSPVTNVVVSEQTAVVIKDPV  1932


>sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavirus 
NL63 OX=277944 GN=rep PE=1 SV=1
Length=6729

 Score = 176 bits (447),  Expect = 1e-42, Method: Compositional matrix adjust.
 Identities = 145/515 (28%), Positives = 228/515 (44%), Gaps = 66/515 (13%)

Query  1445  CTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISS-FKWDLTAF  1503
             C     GY  ST      YC  S+ C +CL      +       +   I       L  F
Sbjct  1999  CGDIVSGYEKST-FNKDIYCGNSMVCKMCLFSYQEFNDLDHTSLVWKHIRDPILISLQPF  2057

Query  1504  GLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMV  1563
              ++    +   ++ RF  +  +A  +  F S+   H     W +          P   + 
Sbjct  2058  VILVILLIFGNMYLRFGLLYFVAQFISTFGSFLGFH--QKQWFL-------HFVPFDVLC  2108

Query  1564  RMYIFFASFYYVWKSYV---HVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYA  1620
                 F A+F  V K  +   H++ GCN++ C+ C K  R  RV   TI+NG+ +SFYV A
Sbjct  2109  NE--FLATFI-VCKIVLFVRHIIVGCNNADCVACSKSARLKRVPLQTIINGMHKSFYVNA  2165

Query  1621  NGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKN  1680
             NGG  FC  HN+ CVNCD+F  G+TFI+ ++AR+L    K  + PT  +  I+D V   N
Sbjct  2166  NGGTCFCNKHNFFCVNCDSFGPGNTFINGDIARELGNVVKTAVQPTAPAYVIIDKVDFVN  2225

Query  1681  GSIHLY---------FDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKC  1731
             G   LY         FD    K   +  L +   L+N    N  GS   N+         
Sbjct  2226  GFYRLYSGDTFWRYDFDITESKYSCKEVLKNCNVLENFIVYNNSGS---NI---------  2273

Query  1732  EESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKL  1791
               +  K+A VY+SQL+C+PI L++  L+S +  S +    +  AYV+   ++F       
Sbjct  2274  --TQIKNACVYFSQLLCEPIKLVNSELLSTL--SVDFNGVLHKAYVDVLCNSF-------  2322

Query  1792  KTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDS  1851
                      EL  N+S+    +T       G   SD    D V  +  +H+ D+ ++  S
Sbjct  2323  -------FKELTANMSMAECKATL------GLTVSD---DDFVSAVANAHRYDVLLSDLS  2366

Query  1852  CNNYMLTYNKVEN-MTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQ  1910
              NN+ ++Y K E+ ++  D+  C+   ++ +N  V    +I ++W VKDF +LS++ +K 
Sbjct  2367  FNNFFISYAKPEDKLSVYDIACCMRAGSKVVNHNVLIKESIPIVWGVKDFNTLSQEGKKY  2426

Query  1911  IRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             +    K   L F LT    + +  V  T I  K G
Sbjct  2427  LVKTTKAKGLTFLLTFNDNQAITQVPATSIVAKQG  2461


 Score = 80.5 bits (197),  Expect = 2e-13, Method: Compositional matrix adjust.
 Identities = 55/144 (38%), Positives = 74/144 (51%), Gaps = 6/144 (4%)

Query  202   VQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKAT  261
             ++  EV  F+ Y     NV     DI      V    VVNAAN  L HGGGVA A++  T
Sbjct  1252  IEAGEVKPFAVY----KNVKFYLGDISHLVNCVSFDFVVNAANENLLHGGGVARAIDILT  1307

Query  262   NNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFN  321
                +Q  S DYI++NGPLKVG   +L       +  +VVGP   K E   L+++      
Sbjct  1308  EGQLQSLSKDYISSNGPLKVGAGVMLECEKF--NVFNVVGPRTGKHEHSLLVEAYNSILF  1365

Query  322   QHEVLLAPLLSAGIFGADPIHSLR  345
             ++ + L PLLS GIFG    +SL+
Sbjct  1366  ENGIPLMPLLSCGIFGVRIENSLK  1389


 Score = 49.7 bits (117),  Expect = 4e-04, Method: Compositional matrix adjust.
 Identities = 50/174 (29%), Positives = 72/174 (41%), Gaps = 16/174 (9%)

Query  755   TVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLP-NDDTLRVEA  813
             T D IN+   VV+ S + G+Q G    DG D        S EG    VLP N DT+   A
Sbjct  1587  TEDGINVKDVVVESSKSLGKQLGVVS-DGVD--------SFEG----VLPINTDTVLSVA  1633

Query  814   FEYYHTTDPSFLGRYMSALNHTKKWKYPQ--VNGLTSIKWADNNCYLATALLTLQQIELK  871
              E        F    + A    K + YP   V G   +   DNNC++    + LQ ++  
Sbjct  1634  PEVDWVAFYGFEKAALFASLDVKPYGYPNDFVGGFRVLGTTDNNCWVNATCIILQYLKPT  1693

Query  872   FNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDS  925
             F    L   + +   G+   F + I      + G+ GD  E +S L ++   DS
Sbjct  1694  FKSKGLNVLWNKFVTGDVGPFVSFIYFITMSSKGQKGDAEEALSKLSEYLISDS  1747


 Score = 37.0 bits (84),  Expect = 2.4, Method: Compositional matrix adjust.
 Identities = 42/176 (24%), Positives = 72/176 (41%), Gaps = 13/176 (7%)

Query  845   GLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTV  904
             G+  +  +DNNC+++T L+ LQ  +L  +   +Q      + G+  +         +   
Sbjct  1051  GVRVLDQSDNNCWISTTLVQLQLTKLLDDSIEMQ----LFKVGKVDSIVQKCYELSHLIS  1106

Query  905   GELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKG  964
             G LGD  + +S L +     +C     + C  CG++     G    ++      + F+KG
Sbjct  1107  GSLGDSGKLLSELLKEKY--TCSITFEMSCD-CGKKFDDQVG---CLFWIMPYTKLFQKG  1160

Query  965   VQIPCTCGKQATKYLVQQESPFVMMSAP-PAQYELKHGTFTCASEYTGNYQCGHYK  1019
                 C C K  T  LV  +   V +  P P   +       C+S Y G    GHY+
Sbjct  1161  E--CCICHKMQTYKLVSMKGTGVFVQDPAPIDIDAFPVKPICSSVYLGVKGSGHYQ  1214


>sp|P0C6U6|R1A_CVHNL Replicase polyprotein 1a OS=Human coronavirus 
NL63 OX=277944 GN=1a PE=1 SV=1
Length=4060

 Score = 176 bits (445),  Expect = 2e-42, Method: Compositional matrix adjust.
 Identities = 145/515 (28%), Positives = 228/515 (44%), Gaps = 66/515 (13%)

Query  1445  CTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISS-FKWDLTAF  1503
             C     GY  ST      YC  S+ C +CL      +       +   I       L  F
Sbjct  1999  CGDIVSGYEKST-FNKDIYCGNSMVCKMCLFSYQEFNDLDHTSLVWKHIRDPILISLQPF  2057

Query  1504  GLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMV  1563
              ++    +   ++ RF  +  +A  +  F S+   H     W +          P   + 
Sbjct  2058  VILVILLIFGNMYLRFGLLYFVAQFISTFGSFLGFH--QKQWFL-------HFVPFDVLC  2108

Query  1564  RMYIFFASFYYVWKSYV---HVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYA  1620
                 F A+F  V K  +   H++ GCN++ C+ C K  R  RV   TI+NG+ +SFYV A
Sbjct  2109  NE--FLATFI-VCKIVLFVRHIIVGCNNADCVACSKSARLKRVPLQTIINGMHKSFYVNA  2165

Query  1621  NGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKN  1680
             NGG  FC  HN+ CVNCD+F  G+TFI+ ++AR+L    K  + PT  +  I+D V   N
Sbjct  2166  NGGTCFCNKHNFFCVNCDSFGPGNTFINGDIARELGNVVKTAVQPTAPAYVIIDKVDFVN  2225

Query  1681  GSIHLY---------FDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKC  1731
             G   LY         FD    K   +  L +   L+N    N  GS   N+         
Sbjct  2226  GFYRLYSGDTFWRYDFDITESKYSCKEVLKNCNVLENFIVYNNSGS---NI---------  2273

Query  1732  EESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKL  1791
               +  K+A VY+SQL+C+PI L++  L+S +  S +    +  AYV+   ++F       
Sbjct  2274  --TQIKNACVYFSQLLCEPIKLVNSELLSTL--SVDFNGVLHKAYVDVLCNSF-------  2322

Query  1792  KTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDS  1851
                      EL  N+S+    +T       G   SD    D V  +  +H+ D+ ++  S
Sbjct  2323  -------FKELTANMSMAECKATL------GLTVSD---DDFVSAVANAHRYDVLLSDLS  2366

Query  1852  CNNYMLTYNKVEN-MTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQ  1910
              NN+ ++Y K E+ ++  D+  C+   ++ +N  V    +I ++W VKDF +LS++ +K 
Sbjct  2367  FNNFFISYAKPEDKLSVYDIACCMRAGSKVVNHNVLIKESIPIVWGVKDFNTLSQEGKKY  2426

Query  1911  IRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             +    K   L F LT    + +  V  T I  K G
Sbjct  2427  LVKTTKAKGLTFLLTFNDNQAITQVPATSIVAKQG  2461


 Score = 80.5 bits (197),  Expect = 2e-13, Method: Compositional matrix adjust.
 Identities = 59/171 (35%), Positives = 84/171 (49%), Gaps = 9/171 (5%)

Query  175   GSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKV  234
             G  D + +++ T+  V        +  ++  EV  F+ Y     NV     DI      V
Sbjct  1228  GVFDIKNSSVNTVCFVDVDFH---SVEIEAGEVKPFAVY----KNVKFYLGDISHLVNCV  1280

Query  235   KPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAK  294
                 VVNAAN  L HGGGVA A++  T   +Q  S DYI++NGPLKVG   +L       
Sbjct  1281  SFDFVVNAANENLLHGGGVARAIDILTEGQLQSLSKDYISSNGPLKVGAGVMLECEKF--  1338

Query  295   HCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLR  345
             +  +VVGP   K E   L+++      ++ + L PLLS GIFG    +SL+
Sbjct  1339  NVFNVVGPRTGKHEHSLLVEAYNSILFENGIPLMPLLSCGIFGVRIENSLK  1389


 Score = 50.4 bits (119),  Expect = 2e-04, Method: Compositional matrix adjust.
 Identities = 50/174 (29%), Positives = 72/174 (41%), Gaps = 16/174 (9%)

Query  755   TVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLP-NDDTLRVEA  813
             T D IN+   VV+ S + G+Q G    DG D        S EG    VLP N DT+   A
Sbjct  1587  TEDGINVKDVVVESSKSLGKQLGVVS-DGVD--------SFEG----VLPINTDTVLSVA  1633

Query  814   FEYYHTTDPSFLGRYMSALNHTKKWKYPQ--VNGLTSIKWADNNCYLATALLTLQQIELK  871
              E        F    + A    K + YP   V G   +   DNNC++    + LQ ++  
Sbjct  1634  PEVDWVAFYGFEKAALFASLDVKPYGYPNDFVGGFRVLGTTDNNCWVNATCIILQYLKPT  1693

Query  872   FNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDS  925
             F    L   + +   G+   F + I      + G+ GD  E +S L ++   DS
Sbjct  1694  FKSKGLNVLWNKFVTGDVGPFVSFIYFITMSSKGQKGDAEEALSKLSEYLISDS  1747


 Score = 37.4 bits (85),  Expect = 2.3, Method: Compositional matrix adjust.
 Identities = 42/176 (24%), Positives = 72/176 (41%), Gaps = 13/176 (7%)

Query  845   GLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTV  904
             G+  +  +DNNC+++T L+ LQ  +L  +   +Q      + G+  +         +   
Sbjct  1051  GVRVLDQSDNNCWISTTLVQLQLTKLLDDSIEMQ----LFKVGKVDSIVQKCYELSHLIS  1106

Query  905   GELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKG  964
             G LGD  + +S L +     +C     + C  CG++     G    ++      + F+KG
Sbjct  1107  GSLGDSGKLLSELLKEKY--TCSITFEMSCD-CGKKFDDQVG---CLFWIMPYTKLFQKG  1160

Query  965   VQIPCTCGKQATKYLVQQESPFVMMSAP-PAQYELKHGTFTCASEYTGNYQCGHYK  1019
                 C C K  T  LV  +   V +  P P   +       C+S Y G    GHY+
Sbjct  1161  E--CCICHKMQTYKLVSMKGTGVFVQDPAPIDIDAFPVKPICSSVYLGVKGSGHYQ  1214


>sp|P0C6V4|R1A_IBVBC Replicase polyprotein 1a OS=Avian infectious 
bronchitis virus (strain Beaudette CK) OX=160235 GN=1a PE=3 
SV=1
Length=3951

 Score = 167 bits (423),  Expect = 7e-40, Method: Compositional matrix adjust.
 Identities = 169/707 (24%), Positives = 301/707 (43%), Gaps = 96/707 (14%)

Query  1262  ANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTIA  1321
             A N +K+ +++G   +     ++    + KPN L R+  +   A  G + V +     I 
Sbjct  1626  AENFVKMGDKIGGVTMGLWRAEH----LNKPN-LERIFNIAKKAIVGSSVVTTQCGKLIG  1680

Query  1322  NYAKPFLNKVVSTTTNIVTRCLNRVC--------TNYMPYFF-TLLLQLCTFTRSTNSRI  1372
               A    +KV       +T  +  +C            P F  TL+  L  F +++   +
Sbjct  1681  KAATFIADKVGGGVVRNITDSIKGLCGITRGHFERKMSPQFLKTLMFFLFYFLKASVKSV  1740

Query  1373  KASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAAL  1432
              AS  T + K  + ++                      +I+WF+  S     ++++   +
Sbjct  1741  VASYKTVLCKVVLATL----------------------LIVWFVYTS---NPVMFTGIRV  1775

Query  1433  GVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQIT  1492
                +  L   S C  Y++   +S +V    YC     C VCL   DSL  Y    +++  
Sbjct  1776  ---LDFLFEGSLCGPYKDYGKDSFDVL--RYCADDFICRVCLHDKDSLHLYKHAYSVEQV  1830

Query  1493  ISSFKWDLTAFGLVAEWFLAYILFTRFFY--VLGLAAIMQLFFSYFAVHFISNSWLMWLI  1550
                      A G +  W   Y++F   F   V G   I      Y   + + NS ++   
Sbjct  1831  YKD-----AASGFIFNWNWLYLVFLILFVKPVAGFVII-----CYCVKYLVLNSTVLQTG  1880

Query  1551  INLVQMAPISAMVRMYIFFASFYYVWKSY-----VHVVDGCNSSTCMMCYKRNRATRVEC  1605
             +  +    +  +   + F  + +Y W  Y     VH +  C   TC +C +  R+ R E 
Sbjct  1881  VCFLDWF-VQTVFSHFNFMGAGFYFWLFYKIYIQVHHILYCKDVTCEVCKRVARSNRQEV  1939

Query  1606  TTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINP  1665
             + +V G ++  +VY N G  FCK HNW C NCD +   +TF+S EVA +LS + KR + P
Sbjct  1940  SVVVGGRKQIVHVYTNSGYNFCKRHNWYCRNCDDYGHQNTFMSPEVAGELSEKLKRHVKP  1999

Query  1666  TDQSSYIVDSVTVKNGSIHLYFDKAG-QKTYERHSLSHFVNLDNL-RANNTKGSLPINVI  1723
             T  + ++VD   + +  ++L +  A   K     ++  F   D L +A   K +L    I
Sbjct  2000  TAYAYHVVDEACLVDDFVNLKYKAATPGKDSASSAVKCFSVTDFLKKAVFLKEALKCEQI  2059

Query  1724  VFDGKSKCEESS------AKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYV  1777
               DG   C   S      AK+A++YY+Q +C+PIL+LDQAL        ++ V+      
Sbjct  2060  SNDGFIVCNTQSAHALEEAKNAAIYYAQYLCKPILILDQALYE------QLVVE------  2107

Query  1778  NTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECL  1837
                      P+   K+++    + L+  +S+D     + +   +  + S  + ++ V+  
Sbjct  2108  ---------PVS--KSVIDKVCSILSSIISVDTAALNYKAGTLRDALLSITKDEEAVDMA  2156

Query  1838  KLSHQSDIEVTGDSCNNYMLTYN-KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWN  1896
                H  D++ TGD   N + +Y      +TPRD G  I+  A   N +V  +  +  +W 
Sbjct  2157  IFCHNHDVDYTGDGFTNVIPSYGIDTGKLTPRDRGFLINADASIANLRVKNAPPV--VWK  2214

Query  1897  VKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALK  1943
               + + LS+   K + SA  K+ + F +T +  +QV+   T K+ ++
Sbjct  2215  FSELIKLSDSCLKYLISATVKSGVRFFITKSGAKQVIACHTQKLLVE  2261


 Score = 67.8 bits (164),  Expect = 1e-09, Method: Compositional matrix adjust.
 Identities = 57/243 (23%), Positives = 107/243 (44%), Gaps = 15/243 (6%)

Query  752   VFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRV  811
             ++ T D +   + V+    + GQ FG  Y     V      +  + +  YV   D ++  
Sbjct  1180  IYLTEDGVKYRSIVLKPGDSLGQ-FGQVYAKNKIV--FTADDVEDKEILYVPTTDKSI--  1234

Query  812   EAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELK  871
                EYY      ++  Y+  L   +KW     +    ++W D NC++++A++ LQ  +++
Sbjct  1235  --LEYYGLDAQKYV-IYLQTL--AQKWNVQYRDNFLILEWRDGNCWISSAIVLLQAAKIR  1289

Query  872   FNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVL-  930
             F    L +A+ +   G+  +F A   A C   VG+  D    ++ L +H + D     L 
Sbjct  1290  FK-GFLTEAWAKLLGGDPTDFVAWCYASCTAKVGDFSDANWLLANLAEHFDADYTNAFLK  1348

Query  931   -NVVCKTCGQQQTTLKGVEA-VMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVM  988
               V C  CG +   L+G+EA +  +   +   FK       TCG   T  +++   P+++
Sbjct  1349  KRVSC-NCGIKSYELRGLEACIQPVRATNLLHFKTQYSNCPTCGANNTDEVIEASLPYLL  1407

Query  989   MSA  991
             + A
Sbjct  1408  LFA  1410


 Score = 53.9 bits (128),  Expect = 2e-05, Method: Compositional matrix adjust.
 Identities = 53/192 (28%), Positives = 87/192 (45%), Gaps = 20/192 (10%)

Query  167   QQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVV---QTIEVNSFSGYLKLTDNVYIK  223
             ++ V Q+DG++  Q    + I  V+PQ E +         T E   F  Y     ++ + 
Sbjct  971   EEVVSQKDGAQIKQ----EPIQVVKPQREKKAKKFKVKPATCEKPKFLEYKTCVGDLTVV  1026

Query  224   NADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGG  283
              A  ++E K+     +VNAAN ++ HG GVA A+            +DY+  +GP +   
Sbjct  1027  IAKALDEFKEF---CIVNAANEHMTHGSGVAKAIADFCGLDFVEYCEDYVKKHGPQQ---  1080

Query  284   SCVLSGHNLAKHCL-HVVGPNVNKGEDIQLLKSAYENFNQHEVL--LAPLLSAGIFGADP  340
               V         C+ +VVGP        + L +AY+N     V+  + P+LS GIFG D 
Sbjct  1081  RLVTPSFVKGIQCVNNVVGPRHGDNNLHEKLVAAYKNVLVDGVVNYVVPVLSLGIFGVD-  1139

Query  341   IHSLRVCVDTVR  352
                 ++ +D +R
Sbjct  1140  ---FKMSIDAMR  1148


>sp|P0C6V3|R1A_IBVB Replicase polyprotein 1a OS=Avian infectious 
bronchitis virus (strain Beaudette) OX=11122 GN=1a PE=1 SV=1
Length=3951

 Score = 167 bits (423),  Expect = 7e-40, Method: Compositional matrix adjust.
 Identities = 169/707 (24%), Positives = 301/707 (43%), Gaps = 96/707 (14%)

Query  1262  ANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTIA  1321
             A N +K+ +++G   +     ++    + KPN L R+  +   A  G + V +     I 
Sbjct  1626  AENFVKMGDKIGGVTMGLWRAEH----LNKPN-LERIFNIAKKAIVGSSVVTTQCGKLIG  1680

Query  1322  NYAKPFLNKVVSTTTNIVTRCLNRVC--------TNYMPYFF-TLLLQLCTFTRSTNSRI  1372
               A    +KV       +T  +  +C            P F  TL+  L  F +++   +
Sbjct  1681  KAATFIADKVGGGVVRNITDSIKGLCGITRGHFERKMSPQFLKTLMFFLFYFLKASVKSV  1740

Query  1373  KASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAAL  1432
              AS  T + K  + ++                      +I+WF+  S     ++++   +
Sbjct  1741  VASYKTVLCKVVLATL----------------------LIVWFVYTS---NPVMFTGIRV  1775

Query  1433  GVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQIT  1492
                +  L   S C  Y++   +S +V    YC     C VCL   DSL  Y    +++  
Sbjct  1776  ---LDFLFEGSLCGPYKDYGKDSFDVL--RYCADDFICRVCLHDKDSLHLYKHAYSVEQV  1830

Query  1493  ISSFKWDLTAFGLVAEWFLAYILFTRFFY--VLGLAAIMQLFFSYFAVHFISNSWLMWLI  1550
                      A G +  W   Y++F   F   V G   I      Y   + + NS ++   
Sbjct  1831  YKD-----AASGFIFNWNWLYLVFLILFVKPVAGFVII-----CYCVKYLVLNSTVLQTG  1880

Query  1551  INLVQMAPISAMVRMYIFFASFYYVWKSY-----VHVVDGCNSSTCMMCYKRNRATRVEC  1605
             +  +    +  +   + F  + +Y W  Y     VH +  C   TC +C +  R+ R E 
Sbjct  1881  VCFLDWF-VQTVFSHFNFMGAGFYFWLFYKIYIQVHHILYCKDVTCEVCKRVARSNRQEV  1939

Query  1606  TTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINP  1665
             + +V G ++  +VY N G  FCK HNW C NCD +   +TF+S EVA +LS + KR + P
Sbjct  1940  SVVVGGRKQIVHVYTNSGYNFCKRHNWYCRNCDDYGHQNTFMSPEVAGELSEKLKRHVKP  1999

Query  1666  TDQSSYIVDSVTVKNGSIHLYFDKAG-QKTYERHSLSHFVNLDNL-RANNTKGSLPINVI  1723
             T  + ++VD   + +  ++L +  A   K     ++  F   D L +A   K +L    I
Sbjct  2000  TAYAYHVVDEACLVDDFVNLKYKAATPGKDSASSAVKCFSVTDFLKKAVFLKEALKCEQI  2059

Query  1724  VFDGKSKCEESS------AKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYV  1777
               DG   C   S      AK+A++YY+Q +C+PIL+LDQAL        ++ V+      
Sbjct  2060  SNDGFIVCNTQSAHALEEAKNAAIYYAQYLCKPILILDQALYE------QLVVE------  2107

Query  1778  NTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECL  1837
                      P+   K+++    + L+  +S+D     + +   +  + S  + ++ V+  
Sbjct  2108  ---------PVS--KSVIDKVCSILSSIISVDTAALNYKAGTLRDALLSITKDEEAVDMA  2156

Query  1838  KLSHQSDIEVTGDSCNNYMLTYN-KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWN  1896
                H  D++ TGD   N + +Y      +TPRD G  I+  A   N +V  +  +  +W 
Sbjct  2157  IFCHNHDVDYTGDGFTNVIPSYGIDTGKLTPRDRGFLINADASIANLRVKNAPPV--VWK  2214

Query  1897  VKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALK  1943
               + + LS+   K + SA  K+ + F +T +  +QV+   T K+ ++
Sbjct  2215  FSELIKLSDSCLKYLISATVKSGVRFFITKSGAKQVIACHTQKLLVE  2261


 Score = 67.8 bits (164),  Expect = 1e-09, Method: Compositional matrix adjust.
 Identities = 57/243 (23%), Positives = 107/243 (44%), Gaps = 15/243 (6%)

Query  752   VFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRV  811
             ++ T D +   + V+    + GQ FG  Y     V      +  + +  YV   D ++  
Sbjct  1180  IYLTEDGVKYRSIVLKPGDSLGQ-FGQVYAKNKIV--FTADDVEDKEILYVPTTDKSI--  1234

Query  812   EAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELK  871
                EYY      ++  Y+  L   +KW     +    ++W D NC++++A++ LQ  +++
Sbjct  1235  --LEYYGLDAQKYV-IYLQTL--AQKWNVQYRDNFLILEWRDGNCWISSAIVLLQAAKIR  1289

Query  872   FNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVL-  930
             F    L +A+ +   G+  +F A   A C   VG+  D    ++ L +H + D     L 
Sbjct  1290  FK-GFLTEAWAKLLGGDPTDFVAWCYASCTAKVGDFSDANWLLANLAEHFDADYTNAFLK  1348

Query  931   -NVVCKTCGQQQTTLKGVEA-VMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVM  988
               V C  CG +   L+G+EA +  +   +   FK       TCG   T  +++   P+++
Sbjct  1349  KRVSC-NCGIKSYELRGLEACIQPVRATNLLHFKTQYSNCPTCGANNTDEVIEASLPYLL  1407

Query  989   MSA  991
             + A
Sbjct  1408  LFA  1410


 Score = 53.9 bits (128),  Expect = 2e-05, Method: Compositional matrix adjust.
 Identities = 53/192 (28%), Positives = 87/192 (45%), Gaps = 20/192 (10%)

Query  167   QQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVV---QTIEVNSFSGYLKLTDNVYIK  223
             ++ V Q+DG++  Q    + I  V+PQ E +         T E   F  Y     ++ + 
Sbjct  971   EEVVSQKDGAQIKQ----EPIQVVKPQREKKAKKFKVKPATCEKPKFLEYKTCVGDLTVV  1026

Query  224   NADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGG  283
              A  ++E K+     +VNAAN ++ HG GVA A+            +DY+  +GP +   
Sbjct  1027  IAKALDEFKEF---CIVNAANEHMTHGSGVAKAIADFCGLDFVEYCEDYVKKHGPQQ---  1080

Query  284   SCVLSGHNLAKHCL-HVVGPNVNKGEDIQLLKSAYENFNQHEVL--LAPLLSAGIFGADP  340
               V         C+ +VVGP        + L +AY+N     V+  + P+LS GIFG D 
Sbjct  1081  RLVTPSFVKGIQCVNNVVGPRHGDNNLHEKLVAAYKNVLVDGVVNYVVPVLSLGIFGVD-  1139

Query  341   IHSLRVCVDTVR  352
                 ++ +D +R
Sbjct  1140  ---FKMSIDAMR  1148


>sp|P0C6Y1|R1AB_IBVB Replicase polyprotein 1ab OS=Avian infectious 
bronchitis virus (strain Beaudette) OX=11122 GN=rep PE=1 
SV=1
Length=6629

 Score = 167 bits (423),  Expect = 8e-40, Method: Compositional matrix adjust.
 Identities = 169/707 (24%), Positives = 301/707 (43%), Gaps = 96/707 (14%)

Query  1262  ANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTIA  1321
             A N +K+ +++G   +     ++    + KPN L R+  +   A  G + V +     I 
Sbjct  1626  AENFVKMGDKIGGVTMGLWRAEH----LNKPN-LERIFNIAKKAIVGSSVVTTQCGKLIG  1680

Query  1322  NYAKPFLNKVVSTTTNIVTRCLNRVC--------TNYMPYFF-TLLLQLCTFTRSTNSRI  1372
               A    +KV       +T  +  +C            P F  TL+  L  F +++   +
Sbjct  1681  KAATFIADKVGGGVVRNITDSIKGLCGITRGHFERKMSPQFLKTLMFFLFYFLKASVKSV  1740

Query  1373  KASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAAL  1432
              AS  T + K  + ++                      +I+WF+  S     ++++   +
Sbjct  1741  VASYKTVLCKVVLATL----------------------LIVWFVYTS---NPVMFTGIRV  1775

Query  1433  GVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQIT  1492
                +  L   S C  Y++   +S +V    YC     C VCL   DSL  Y    +++  
Sbjct  1776  ---LDFLFEGSLCGPYKDYGKDSFDVL--RYCADDFICRVCLHDKDSLHLYKHAYSVEQV  1830

Query  1493  ISSFKWDLTAFGLVAEWFLAYILFTRFFY--VLGLAAIMQLFFSYFAVHFISNSWLMWLI  1550
                      A G +  W   Y++F   F   V G   I      Y   + + NS ++   
Sbjct  1831  YKD-----AASGFIFNWNWLYLVFLILFVKPVAGFVII-----CYCVKYLVLNSTVLQTG  1880

Query  1551  INLVQMAPISAMVRMYIFFASFYYVWKSY-----VHVVDGCNSSTCMMCYKRNRATRVEC  1605
             +  +    +  +   + F  + +Y W  Y     VH +  C   TC +C +  R+ R E 
Sbjct  1881  VCFLDWF-VQTVFSHFNFMGAGFYFWLFYKIYIQVHHILYCKDVTCEVCKRVARSNRQEV  1939

Query  1606  TTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINP  1665
             + +V G ++  +VY N G  FCK HNW C NCD +   +TF+S EVA +LS + KR + P
Sbjct  1940  SVVVGGRKQIVHVYTNSGYNFCKRHNWYCRNCDDYGHQNTFMSPEVAGELSEKLKRHVKP  1999

Query  1666  TDQSSYIVDSVTVKNGSIHLYFDKAGQ-KTYERHSLSHFVNLDNL-RANNTKGSLPINVI  1723
             T  + ++VD   + +  ++L +  A   K     ++  F   D L +A   K +L    I
Sbjct  2000  TAYAYHVVDEACLVDDFVNLKYKAATPGKDSASSAVKCFSVTDFLKKAVFLKEALKCEQI  2059

Query  1724  VFDGKSKCEESS------AKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYV  1777
               DG   C   S      AK+A++YY+Q +C+PIL+LDQAL        ++ V+      
Sbjct  2060  SNDGFIVCNTQSAHALEEAKNAAIYYAQYLCKPILILDQALYE------QLVVE------  2107

Query  1778  NTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECL  1837
                      P+   K+++    + L+  +S+D     + +   +  + S  + ++ V+  
Sbjct  2108  ---------PVS--KSVIDKVCSILSSIISVDTAALNYKAGTLRDALLSITKDEEAVDMA  2156

Query  1838  KLSHQSDIEVTGDSCNNYMLTYN-KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWN  1896
                H  D++ TGD   N + +Y      +TPRD G  I+  A   N +V  +  +  +W 
Sbjct  2157  IFCHNHDVDYTGDGFTNVIPSYGIDTGKLTPRDRGFLINADASIANLRVKNAPPV--VWK  2214

Query  1897  VKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALK  1943
               + + LS+   K + SA  K+ + F +T +  +QV+   T K+ ++
Sbjct  2215  FSELIKLSDSCLKYLISATVKSGVRFFITKSGAKQVIACHTQKLLVE  2261


 Score = 67.4 bits (163),  Expect = 2e-09, Method: Compositional matrix adjust.
 Identities = 57/243 (23%), Positives = 107/243 (44%), Gaps = 15/243 (6%)

Query  752   VFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRV  811
             ++ T D +   + V+    + GQ FG  Y     V      +  + +  YV   D ++  
Sbjct  1180  IYLTEDGVKYRSIVLKPGDSLGQ-FGQVYAKNKIV--FTADDVEDKEILYVPTTDKSI--  1234

Query  812   EAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELK  871
                EYY      ++  Y+  L   +KW     +    ++W D NC++++A++ LQ  +++
Sbjct  1235  --LEYYGLDAQKYV-IYLQTL--AQKWNVQYRDNFLILEWRDGNCWISSAIVLLQAAKIR  1289

Query  872   FNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVL-  930
             F    L +A+ +   G+  +F A   A C   VG+  D    ++ L +H + D     L 
Sbjct  1290  FK-GFLTEAWAKLLGGDPTDFVAWCYASCTAKVGDFSDANWLLANLAEHFDADYTNAFLK  1348

Query  931   -NVVCKTCGQQQTTLKGVEA-VMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVM  988
               V C  CG +   L+G+EA +  +   +   FK       TCG   T  +++   P+++
Sbjct  1349  KRVSC-NCGIKSYELRGLEACIQPVRATNLLHFKTQYSNCPTCGANNTDEVIEASLPYLL  1407

Query  989   MSA  991
             + A
Sbjct  1408  LFA  1410


 Score = 53.9 bits (128),  Expect = 2e-05, Method: Compositional matrix adjust.
 Identities = 53/192 (28%), Positives = 87/192 (45%), Gaps = 20/192 (10%)

Query  167   QQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQ---TIEVNSFSGYLKLTDNVYIK  223
             ++ V Q+DG++  Q    + I  V+PQ E +         T E   F  Y     ++ + 
Sbjct  971   EEVVSQKDGAQIKQ----EPIQVVKPQREKKAKKFKVKPATCEKPKFLEYKTCVGDLTVV  1026

Query  224   NADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGG  283
              A  ++E K+     +VNAAN ++ HG GVA A+            +DY+  +GP +   
Sbjct  1027  IAKALDEFKEF---CIVNAANEHMTHGSGVAKAIADFCGLDFVEYCEDYVKKHGPQQ---  1080

Query  284   SCVLSGHNLAKHCL-HVVGPNVNKGEDIQLLKSAYENFNQHEVL--LAPLLSAGIFGADP  340
               V         C+ +VVGP        + L +AY+N     V+  + P+LS GIFG D 
Sbjct  1081  RLVTPSFVKGIQCVNNVVGPRHGDNNLHEKLVAAYKNVLVDGVVNYVVPVLSLGIFGVD-  1139

Query  341   IHSLRVCVDTVR  352
                 ++ +D +R
Sbjct  1140  ---FKMSIDAMR  1148


>sp|P0C6Y2|R1AB_IBVBC Replicase polyprotein 1ab OS=Avian infectious 
bronchitis virus (strain Beaudette CK) OX=160235 GN=rep 
PE=3 SV=1
Length=6629

 Score = 167 bits (423),  Expect = 8e-40, Method: Compositional matrix adjust.
 Identities = 169/707 (24%), Positives = 301/707 (43%), Gaps = 96/707 (14%)

Query  1262  ANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTIA  1321
             A N +K+ +++G   +     ++    + KPN L R+  +   A  G + V +     I 
Sbjct  1626  AENFVKMGDKIGGVTMGLWRAEH----LNKPN-LERIFNIAKKAIVGSSVVTTQCGKLIG  1680

Query  1322  NYAKPFLNKVVSTTTNIVTRCLNRVC--------TNYMPYFF-TLLLQLCTFTRSTNSRI  1372
               A    +KV       +T  +  +C            P F  TL+  L  F +++   +
Sbjct  1681  KAATFIADKVGGGVVRNITDSIKGLCGITRGHFERKMSPQFLKTLMFFLFYFLKASVKSV  1740

Query  1373  KASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAAL  1432
              AS  T + K  + ++                      +I+WF+  S     ++++   +
Sbjct  1741  VASYKTVLCKVVLATL----------------------LIVWFVYTS---NPVMFTGIRV  1775

Query  1433  GVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQIT  1492
                +  L   S C  Y++   +S +V    YC     C VCL   DSL  Y    +++  
Sbjct  1776  ---LDFLFEGSLCGPYKDYGKDSFDVL--RYCADDFICRVCLHDKDSLHLYKHAYSVEQV  1830

Query  1493  ISSFKWDLTAFGLVAEWFLAYILFTRFFY--VLGLAAIMQLFFSYFAVHFISNSWLMWLI  1550
                      A G +  W   Y++F   F   V G   I      Y   + + NS ++   
Sbjct  1831  YKD-----AASGFIFNWNWLYLVFLILFVKPVAGFVII-----CYCVKYLVLNSTVLQTG  1880

Query  1551  INLVQMAPISAMVRMYIFFASFYYVWKSY-----VHVVDGCNSSTCMMCYKRNRATRVEC  1605
             +  +    +  +   + F  + +Y W  Y     VH +  C   TC +C +  R+ R E 
Sbjct  1881  VCFLDWF-VQTVFSHFNFMGAGFYFWLFYKIYIQVHHILYCKDVTCEVCKRVARSNRQEV  1939

Query  1606  TTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINP  1665
             + +V G ++  +VY N G  FCK HNW C NCD +   +TF+S EVA +LS + KR + P
Sbjct  1940  SVVVGGRKQIVHVYTNSGYNFCKRHNWYCRNCDDYGHQNTFMSPEVAGELSEKLKRHVKP  1999

Query  1666  TDQSSYIVDSVTVKNGSIHLYFDKAGQ-KTYERHSLSHFVNLDNL-RANNTKGSLPINVI  1723
             T  + ++VD   + +  ++L +  A   K     ++  F   D L +A   K +L    I
Sbjct  2000  TAYAYHVVDEACLVDDFVNLKYKAATPGKDSASSAVKCFSVTDFLKKAVFLKEALKCEQI  2059

Query  1724  VFDGKSKCEESS------AKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYV  1777
               DG   C   S      AK+A++YY+Q +C+PIL+LDQAL        ++ V+      
Sbjct  2060  SNDGFIVCNTQSAHALEEAKNAAIYYAQYLCKPILILDQALYE------QLVVE------  2107

Query  1778  NTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECL  1837
                      P+   K+++    + L+  +S+D     + +   +  + S  + ++ V+  
Sbjct  2108  ---------PVS--KSVIDKVCSILSSIISVDTAALNYKAGTLRDALLSITKDEEAVDMA  2156

Query  1838  KLSHQSDIEVTGDSCNNYMLTYN-KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWN  1896
                H  D++ TGD   N + +Y      +TPRD G  I+  A   N +V  +  +  +W 
Sbjct  2157  IFCHNHDVDYTGDGFTNVIPSYGIDTGKLTPRDRGFLINADASIANLRVKNAPPV--VWK  2214

Query  1897  VKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALK  1943
               + + LS+   K + SA  K+ + F +T +  +QV+   T K+ ++
Sbjct  2215  FSELIKLSDSCLKYLISATVKSGVRFFITKSGAKQVIACHTQKLLVE  2261


 Score = 67.4 bits (163),  Expect = 1e-09, Method: Compositional matrix adjust.
 Identities = 57/243 (23%), Positives = 107/243 (44%), Gaps = 15/243 (6%)

Query  752   VFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRV  811
             ++ T D +   + V+    + GQ FG  Y     V      +  + +  YV   D ++  
Sbjct  1180  IYLTEDGVKYRSIVLKPGDSLGQ-FGQVYAKNKIV--FTADDVEDKEILYVPTTDKSI--  1234

Query  812   EAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELK  871
                EYY      ++  Y+  L   +KW     +    ++W D NC++++A++ LQ  +++
Sbjct  1235  --LEYYGLDAQKYV-IYLQTL--AQKWNVQYRDNFLILEWRDGNCWISSAIVLLQAAKIR  1289

Query  872   FNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVL-  930
             F    L +A+ +   G+  +F A   A C   VG+  D    ++ L +H + D     L 
Sbjct  1290  FK-GFLTEAWAKLLGGDPTDFVAWCYASCTAKVGDFSDANWLLANLAEHFDADYTNAFLK  1348

Query  931   -NVVCKTCGQQQTTLKGVEA-VMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVM  988
               V C  CG +   L+G+EA +  +   +   FK       TCG   T  +++   P+++
Sbjct  1349  KRVSC-NCGIKSYELRGLEACIQPVRATNLLHFKTQYSNCPTCGANNTDEVIEASLPYLL  1407

Query  989   MSA  991
             + A
Sbjct  1408  LFA  1410


 Score = 53.9 bits (128),  Expect = 2e-05, Method: Compositional matrix adjust.
 Identities = 53/192 (28%), Positives = 87/192 (45%), Gaps = 20/192 (10%)

Query  167   QQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQ---TIEVNSFSGYLKLTDNVYIK  223
             ++ V Q+DG++  Q    + I  V+PQ E +         T E   F  Y     ++ + 
Sbjct  971   EEVVSQKDGAQIKQ----EPIQVVKPQREKKAKKFKVKPATCEKPKFLEYKTCVGDLTVV  1026

Query  224   NADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGG  283
              A  ++E K+     +VNAAN ++ HG GVA A+            +DY+  +GP +   
Sbjct  1027  IAKALDEFKEF---CIVNAANEHMTHGSGVAKAIADFCGLDFVEYCEDYVKKHGPQQ---  1080

Query  284   SCVLSGHNLAKHCL-HVVGPNVNKGEDIQLLKSAYENFNQHEVL--LAPLLSAGIFGADP  340
               V         C+ +VVGP        + L +AY+N     V+  + P+LS GIFG D 
Sbjct  1081  RLVTPSFVKGIQCVNNVVGPRHGDNNLHEKLVAAYKNVLVDGVVNYVVPVLSLGIFGVD-  1139

Query  341   IHSLRVCVDTVR  352
                 ++ +D +R
Sbjct  1140  ---FKMSIDAMR  1148


>sp|P0C6Y3|R1AB_IBVM Replicase polyprotein 1ab OS=Avian infectious 
bronchitis virus (strain M41) OX=11127 GN=rep PE=1 SV=1
Length=6631

 Score = 162 bits (409),  Expect = 3e-38, Method: Compositional matrix adjust.
 Identities = 142/549 (26%), Positives = 244/549 (44%), Gaps = 60/549 (11%)

Query  1411  IIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPC  1470
             +I+WF+  S     ++++   +   +  L   S C  Y +   +S +V    YC G   C
Sbjct  1759  LIVWFIYTS---NPVVFTGIRV---LDFLFEGSLCGPYNDYGKDSFDVL--RYCAGDFTC  1810

Query  1471  SVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFY--VLGLAAI  1528
              VCL   DSL  Y    +++           A G+   W   Y++F   F   V G   I
Sbjct  1811  RVCLHDRDSLHLYKHAYSVEQIYKD-----AASGINFNWNWLYLVFLILFVKPVAGFVII  1865

Query  1529  MQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSY-----VHVV  1583
                   Y   + + +S ++   +  +    +  +   + F  + +Y W  Y     VH +
Sbjct  1866  -----CYCVKYLVLSSTVLQTGVGFLDWF-VKTVFTHFNFMGAGFYFWLFYKIYVQVHHI  1919

Query  1584  DGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAG  1643
               C   TC +C +  R+ R E + +V G ++  +VY N G  FCK HNW C NCD +   
Sbjct  1920  LYCKDVTCEVCKRVARSNRQEVSVVVGGRKQIVHVYTNSGYNFCKRHNWYCRNCDDYGHQ  1979

Query  1644  STFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKA-GQKTYERHSLSH  1702
             +TF+S EVA +LS + KR + PT  + ++V    V +  ++L +  A   K     ++  
Sbjct  1980  NTFMSPEVAGELSEKLKRHVKPTAYAYHVVYEACVVDDFVNLKYKAAIPGKDNASSAVKC  2039

Query  1703  FVNLDNL-RANNTKGSLPINVIVFDGKSKCEESS------AKSASVYYSQLMCQPILLLD  1755
             F   D L +A   K +L    I  DG   C   S      AK+A+VYY+Q +C+PIL+LD
Sbjct  2040  FSVTDFLKKAVFLKEALKCEQISNDGFIVCNTQSAHALEEAKNAAVYYAQYLCKPILILD  2099

Query  1756  QALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTF  1815
             QAL                     +      P+   K+++    + L+  +S+D     +
Sbjct  2100  QAL---------------------YEQLIVEPVS--KSVIDKVCSILSNIISVDTAALNY  2136

Query  1816  ISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYN-KVENMTPRDLGACI  1874
              +   +  + S  + ++ V+     H  ++E TGD   N + +Y    + +TPRD G  I
Sbjct  2137  KAGTLRDALLSITKDEEAVDMAIFCHNHEVEYTGDGFTNVIPSYGMDTDKLTPRDRGFLI  2196

Query  1875  DCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVN  1934
             +  A   N +V  +  +  +W   D + LS+   K + SA  K+   F +T +  +QV++
Sbjct  2197  NADASIANLRVKNAPPV--VWKFSDLIKLSDSCLKYLISATVKSGGRFFITKSGAKQVIS  2254

Query  1935  VVTTKIALK  1943
               T K+ ++
Sbjct  2255  CHTQKLLVE  2263


 Score = 72.4 bits (176),  Expect = 5e-11, Method: Compositional matrix adjust.
 Identities = 57/242 (24%), Positives = 108/242 (45%), Gaps = 13/242 (5%)

Query  752   VFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRV  811
             ++ T D +   + V+    + GQ FG  +   A    +   +  E K    +P  D   +
Sbjct  1182  IYLTEDGVKYRSVVLKPGDSLGQ-FGQVF---ARNKVVFSADDVEDKEILFIPTTDKTIL  1237

Query  812   EAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELK  871
             E    Y+  D      Y+  L   +KW     +    ++W D NC++++A++ LQ  +++
Sbjct  1238  E----YYGLDAQKYVTYLQTL--AQKWDVQYRDNFVILEWRDGNCWISSAIVLLQAAKIR  1291

Query  872   FNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVL-  930
             F    L +A+ +   G+  +F A   A CN  VG+  D    ++ L +H + D    +L 
Sbjct  1292  FK-GFLAEAWAKLLGGDPTDFVAWCYASCNAKVGDFSDANWLLANLAEHFDADYTNALLK  1350

Query  931   NVVCKTCGQQQTTLKGVEA-VMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM  989
               V   CG +   L+G+EA +  +   +   FK       TCG  +T  +++   P++++
Sbjct  1351  KCVSCNCGVKSYELRGLEACIQPVRAPNLLHFKTQYSNCPTCGASSTDEVIEASLPYLLL  1410

Query  990   SA  991
              A
Sbjct  1411  FA  1412


 Score = 51.6 bits (122),  Expect = 9e-05, Method: Compositional matrix adjust.
 Identities = 50/180 (28%), Positives = 80/180 (44%), Gaps = 28/180 (16%)

Query  191   QPQLEMELTPVVQ---------------TIEVNSFSGYLKLTDNVYIKNADIVEEAKKVK  235
             +PQ+E E T VV+               T E   F  Y     ++ +  A  ++E K+  
Sbjct  981   EPQVEQEPTLVVKAQREKKAKKFKVKPATCEKPKFLEYKTCVGDLAVVIAKALDEFKEF-  1039

Query  236   PTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKH  295
                +VNAAN ++ HGGGVA A+             DY+  +GP +     V         
Sbjct  1040  --CIVNAANEHMSHGGGVAKAIADFCGPDFVEYCADYVKKHGPQQ---KLVTPSFVKGIQ  1094

Query  296   CL-HVVGPNVNKGEDIQLLKSAYENFNQHEVL--LAPLLSAGIFGADPIHSLRVCVDTVR  352
             C+ +VVGP        + L +AY++     V+  + P+LS+GIFG D     ++ +D +R
Sbjct  1095  CVNNVVGPRHGDSNLREKLVAAYKSVLVGGVVNYVVPVLSSGIFGVD----FKISIDAMR  1150


>sp|P0C6V5|R1A_IBVM Replicase polyprotein 1a OS=Avian infectious 
bronchitis virus (strain M41) OX=11127 GN=1a PE=1 SV=1
Length=3953

 Score = 161 bits (407),  Expect = 6e-38, Method: Compositional matrix adjust.
 Identities = 142/549 (26%), Positives = 244/549 (44%), Gaps = 60/549 (11%)

Query  1411  IIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPC  1470
             +I+WF+  S     ++++   +   +  L   S C  Y +   +S +V    YC G   C
Sbjct  1759  LIVWFIYTS---NPVVFTGIRV---LDFLFEGSLCGPYNDYGKDSFDVL--RYCAGDFTC  1810

Query  1471  SVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFY--VLGLAAI  1528
              VCL   DSL  Y    +++           A G+   W   Y++F   F   V G   I
Sbjct  1811  RVCLHDRDSLHLYKHAYSVEQIYKD-----AASGINFNWNWLYLVFLILFVKPVAGFVII  1865

Query  1529  MQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSY-----VHVV  1583
                   Y   + + +S ++   +  +    +  +   + F  + +Y W  Y     VH +
Sbjct  1866  -----CYCVKYLVLSSTVLQTGVGFLDWF-VKTVFTHFNFMGAGFYFWLFYKIYVQVHHI  1919

Query  1584  DGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAG  1643
               C   TC +C +  R+ R E + +V G ++  +VY N G  FCK HNW C NCD +   
Sbjct  1920  LYCKDVTCEVCKRVARSNRQEVSVVVGGRKQIVHVYTNSGYNFCKRHNWYCRNCDDYGHQ  1979

Query  1644  STFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKA-GQKTYERHSLSH  1702
             +TF+S EVA +LS + KR + PT  + ++V    V +  ++L +  A   K     ++  
Sbjct  1980  NTFMSPEVAGELSEKLKRHVKPTAYAYHVVYEACVVDDFVNLKYKAAIPGKDNASSAVKC  2039

Query  1703  FVNLDNL-RANNTKGSLPINVIVFDGKSKCEESS------AKSASVYYSQLMCQPILLLD  1755
             F   D L +A   K +L    I  DG   C   S      AK+A+VYY+Q +C+PIL+LD
Sbjct  2040  FSVTDFLKKAVFLKEALKCEQISNDGFIVCNTQSAHALEEAKNAAVYYAQYLCKPILILD  2099

Query  1756  QALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTF  1815
             QAL                     +      P+   K+++    + L+  +S+D     +
Sbjct  2100  QAL---------------------YEQLIVEPVS--KSVIDKVCSILSNIISVDTAALNY  2136

Query  1816  ISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYN-KVENMTPRDLGACI  1874
              +   +  + S  + ++ V+     H  ++E TGD   N + +Y    + +TPRD G  I
Sbjct  2137  KAGTLRDALLSITKDEEAVDMAIFCHNHEVEYTGDGFTNVIPSYGMDTDKLTPRDRGFLI  2196

Query  1875  DCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVN  1934
             +  A   N +V  +  +  +W   D + LS+   K + SA  K+   F +T +  +QV++
Sbjct  2197  NADASIANLRVKNAPPV--VWKFSDLIKLSDSCLKYLISATVKSGGRFFITKSGAKQVIS  2254

Query  1935  VVTTKIALK  1943
               T K+ ++
Sbjct  2255  CHTQKLLVE  2263


 Score = 72.8 bits (177),  Expect = 4e-11, Method: Compositional matrix adjust.
 Identities = 57/242 (24%), Positives = 108/242 (45%), Gaps = 13/242 (5%)

Query  752   VFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRV  811
             ++ T D +   + V+    + GQ FG  +   A    +   +  E K    +P  D   +
Sbjct  1182  IYLTEDGVKYRSVVLKPGDSLGQ-FGQVF---ARNKVVFSADDVEDKEILFIPTTDKTIL  1237

Query  812   EAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELK  871
             E    Y+  D      Y+  L   +KW     +    ++W D NC++++A++ LQ  +++
Sbjct  1238  E----YYGLDAQKYVTYLQTL--AQKWDVQYRDNFVILEWRDGNCWISSAIVLLQAAKIR  1291

Query  872   FNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVL-  930
             F    L +A+ +   G+  +F A   A CN  VG+  D    ++ L +H + D    +L 
Sbjct  1292  FK-GFLAEAWAKLLGGDPTDFVAWCYASCNAKVGDFSDANWLLANLAEHFDADYTNALLK  1350

Query  931   NVVCKTCGQQQTTLKGVEA-VMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM  989
               V   CG +   L+G+EA +  +   +   FK       TCG  +T  +++   P++++
Sbjct  1351  KCVSCNCGVKSYELRGLEACIQPVRAPNLLHFKTQYSNCPTCGASSTDEVIEASLPYLLL  1410

Query  990   SA  991
              A
Sbjct  1411  FA  1412


 Score = 51.6 bits (122),  Expect = 9e-05, Method: Compositional matrix adjust.
 Identities = 50/180 (28%), Positives = 80/180 (44%), Gaps = 28/180 (16%)

Query  191   QPQLEMELTPVVQ---------------TIEVNSFSGYLKLTDNVYIKNADIVEEAKKVK  235
             +PQ+E E T VV+               T E   F  Y     ++ +  A  ++E K+  
Sbjct  981   EPQVEQEPTLVVKAQREKKAKKFKVKPATCEKPKFLEYKTCVGDLAVVIAKALDEFKEF-  1039

Query  236   PTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKH  295
                +VNAAN ++ HGGGVA A+             DY+  +GP +     V         
Sbjct  1040  --CIVNAANEHMSHGGGVAKAIADFCGPDFVEYCADYVKKHGPQQ---KLVTPSFVKGIQ  1094

Query  296   CL-HVVGPNVNKGEDIQLLKSAYENFNQHEVL--LAPLLSAGIFGADPIHSLRVCVDTVR  352
             C+ +VVGP        + L +AY++     V+  + P+LS+GIFG D     ++ +D +R
Sbjct  1095  CVNNVVGPRHGDSNLREKLVAAYKSVLVGGVVNYVVPVLSSGIFGVD----FKISIDAMR  1150


>sp|P0C6V2|R1A_CVPPU Replicase polyprotein 1a OS=Porcine transmissible 
gastroenteritis coronavirus (strain Purdue) OX=11151 
GN=1a PE=1 SV=1
Length=4017

 Score = 160 bits (405),  Expect = 1e-37, Method: Compositional matrix adjust.
 Identities = 133/496 (27%), Positives = 222/496 (45%), Gaps = 67/496 (14%)

Query  1445  CTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWD----L  1500
             C G  + Y NS+ +  A  C  SI C  CL+  D L  +  L+      S   W+    L
Sbjct  1921  CNGAVQAYKNSSFIKSAV-CGNSILCKACLASYDELADFQHLQVTWDFKSDPLWNRLVQL  1979

Query  1501  TAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPIS  1560
             + F  +A +   Y+   R F +  ++  + L+ SYF   ++  SW +    ++V    IS
Sbjct  1980  SYFAFLAVFGNNYV---RCFLMYFVSQYLNLWLSYFG--YVEYSWFL----HVVNFESIS  2030

Query  1561  AMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYA  1620
             A   + +         K   H+V  C++ +C  C +  R TR+    +VNG  ++ YV+A
Sbjct  2031  AEFVIVVIVVKAVLALK---HIVFACSNPSCKTCSRTARQTRIPIQVVVNGSMKTVYVHA  2087

Query  1621  NGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKN  1680
             NG   FCK HN+ C NCD++   +TFI DE+ RDLS   K+ +  TD+S   V  V   +
Sbjct  2088  NGTGKFCKKHNFYCKNCDSYGFENTFICDEIVRDLSNSVKQTVYATDRSHQEVTKVECSD  2147

Query  1681  GSIHLY---------FDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKC  1731
             G    Y         +D   +K   +  L   + LD+    +  GS   NV         
Sbjct  2148  GFYRFYVGDEFTSYDYDVKHKKYSSQEVLKSMLLLDDFIVYSPSGSALANV---------  2198

Query  1732  EESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKL  1791
                  ++A VY+SQL+ +PI +++  L+ D+  S +    +F+A  N   ++FNV + + 
Sbjct  2199  -----RNACVYFSQLIGKPIKIVNSDLLEDL--SVDFKGALFNAKKNVIKNSFNVDVSEC  2251

Query  1792  KTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDS  1851
             K L      E  +  +L+   STF  A                     +H+  I +T  S
Sbjct  2252  KNL-----DECYRACNLNVSFSTFEMAVNN------------------AHRFGILITDRS  2288

Query  1852  CNNYMLTYNK--VENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRK  1909
              NN+  +  K     ++  D+G C+   A+ +NA+V      +++W  +DF +LS   +K
Sbjct  2289  FNNFWPSKVKPGSSGVSAMDIGKCMTSDAKIVNAKVLTQRGKSVVWLSQDFAALSSTAQK  2348

Query  1910  QIRSAAKKNNLPFKLT  1925
              +     +  + F LT
Sbjct  2349  VLVKTFVEEGVNFSLT  2364


 Score = 60.5 bits (145),  Expect = 2e-07, Method: Compositional matrix adjust.
 Identities = 69/288 (24%), Positives = 123/288 (43%), Gaps = 38/288 (13%)

Query  168   QTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADI  227
             + V QQ   E+N+++  +  ++  P+ +  + P  +  +++ + G L +  N        
Sbjct  1293  EKVEQQPIVEENKSSIEKEEIQ-SPKNDDLILPFYKAGKLSFYQGALDVLINF-------  1344

Query  228   VEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVL  287
                   ++P V+VNAAN  LKH GGVA A++  T   +   S DY+  N  +  G +   
Sbjct  1345  ------LEPDVIVNAANGDLKHMGGVARAIDVFTGGKLTERSKDYLKKNKSIAPGNAVFF  1398

Query  288   SGHNLAKH--CLHVVGPNVNKGEDIQLLKSAYENFNQHE-VLLAPLLSAGIFGADPIHSL  344
                N+ +H   L+ VGP          L + Y+   + E  +L PL+S GIF        
Sbjct  1399  --ENVIEHLSVLNAVGPRNGDSRVEAKLCNVYKAIAKCEGKILTPLISVGIF--------  1448

Query  345   RVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKI--AEIPKEEVKPFITESKP  402
                   VR    L    K + D+ ++ F+    E+Q  +      IP    +  +   + 
Sbjct  1449  -----NVRLETSLQCLLKTVNDRGLNVFVYTDQERQTIENFFSCSIPVNVTEDNVNHERV  1503

Query  403   SVEQRKQDDKKIKACV----EEVTTTLEETKFLTENLLLYIDINGNLH  446
             SV   K   +++K  V    ++VT  L     + + ++  IDI+   H
Sbjct  1504  SVSFDKTYGEQLKGTVVIKDKDVTNQLPSAFDVGQKVIKAIDIDWQAH  1551


 Score = 50.4 bits (119),  Expect = 2e-04, Method: Compositional matrix adjust.
 Identities = 58/235 (25%), Positives = 95/235 (40%), Gaps = 34/235 (14%)

Query  838   WKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALIL  897
             +K   +NG   +K  DNNC++      LQ  +  FN     +A+ + + G+  +F  L  
Sbjct  1075  FKTTNLNGKIILKQGDNNCWINACCYQLQAFDF-FN----NEAWEKFKKGDVMDFVNLCY  1129

Query  898   AYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLS  957
             A      G  GD    +  +    +  + K VL   C  CG+++  L+   AV  +  L 
Sbjct  1130  AATTLARGHSGDAEYLLELMLN--DYSTAKIVLAAKCG-CGEKEIVLE--RAVFKLTPLK  1184

Query  958   YEQFKKGVQIPC----TCGKQATKY-------LVQQESPFVMMSAPPAQYELKHGTFTCA  1006
              E F  GV   C    TC   + +        ++ +++P  M    P  + +        
Sbjct  1185  -ESFNYGVCGDCMQVNTCRFLSVEGSGVFVHDILSKQTPEAMFVVKPVMHAV--------  1235

Query  1007  SEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKP  1061
               YTG  Q GHY  +   E  YC+DG +  K  + +   + +F   N  T   KP
Sbjct  1236  --YTGTTQNGHY-MVDDIEHGYCVDG-MGIKPLKKRCYTSTLFINANVMTRAEKP  1286


 Score = 36.2 bits (82),  Expect = 4.1, Method: Compositional matrix adjust.
 Identities = 61/286 (21%), Positives = 107/286 (37%), Gaps = 29/286 (10%)

Query  749   TIKVFTTVDNINLHTQVVDMSMTYGQQF-GPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
             +I V  T DN+N     V    TYG+Q  G   +   DVT   P     G+         
Sbjct  1488  SIPVNVTEDNVNHERVSVSFDKTYGEQLKGTVVIKDKDVTNQLPSAFDVGQKVI-----K  1542

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSI--KWADNNCYLATALLTL  865
              + ++   +Y   D +      SA +H   +K+  V     I  K  DNNC++    L L
Sbjct  1543  AIDIDWQAHYGFRDAA----AFSASSH-DAYKFEVVTHSNFIVHKQTDNNCWINAICLAL  1597

Query  866   QQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDS  925
             Q+++ ++  P ++  +      +   F  ++        GE GD  E M +       + 
Sbjct  1598  QRLKPQWKFPGVRGLWNEFLERKTQGFVHMLYHISGVKKGEPGDA-ELMLHKLGDLMDND  1656

Query  926   CKRVL--NVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQE  983
             C+ ++     C  C + +  +  V A      L+      G    C  G      + Q +
Sbjct  1657  CEIIVTHTTACDKCAKVEKFVGPVVA----APLAIH----GTDETCVHGVSVNVKVTQIK  1708

Query  984   SPFVMMS--APPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETL  1027
                 + S   P     L+   + C   Y+G+ + GHY +  ++  L
Sbjct  1709  GTVAITSLIGPIIGEVLEATGYIC---YSGSNRNGHYTYYDNRNGL  1751


>sp|P0C6Y5|R1AB_CVPPU Replicase polyprotein 1ab OS=Porcine transmissible 
gastroenteritis coronavirus (strain Purdue) OX=11151 
GN=rep PE=1 SV=1
Length=6684

 Score = 160 bits (404),  Expect = 1e-37, Method: Compositional matrix adjust.
 Identities = 133/496 (27%), Positives = 222/496 (45%), Gaps = 67/496 (14%)

Query  1445  CTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWD----L  1500
             C G  + Y NS+ +  A  C  SI C  CL+  D L  +  L+      S   W+    L
Sbjct  1921  CNGAVQAYKNSSFIKSAV-CGNSILCKACLASYDELADFQHLQVTWDFKSDPLWNRLVQL  1979

Query  1501  TAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPIS  1560
             + F  +A +   Y+   R F +  ++  + L+ SYF   ++  SW +    ++V    IS
Sbjct  1980  SYFAFLAVFGNNYV---RCFLMYFVSQYLNLWLSYFG--YVEYSWFL----HVVNFESIS  2030

Query  1561  AMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYA  1620
             A   + +         K   H+V  C++ +C  C +  R TR+    +VNG  ++ YV+A
Sbjct  2031  AEFVIVVIVVKAVLALK---HIVFACSNPSCKTCSRTARQTRIPIQVVVNGSMKTVYVHA  2087

Query  1621  NGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKN  1680
             NG   FCK HN+ C NCD++   +TFI DE+ RDLS   K+ +  TD+S   V  V   +
Sbjct  2088  NGTGKFCKKHNFYCKNCDSYGFENTFICDEIVRDLSNSVKQTVYATDRSHQEVTKVECSD  2147

Query  1681  GSIHLY---------FDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKC  1731
             G    Y         +D   +K   +  L   + LD+    +  GS   NV         
Sbjct  2148  GFYRFYVGDEFTSYDYDVKHKKYSSQEVLKSMLLLDDFIVYSPSGSALANV---------  2198

Query  1732  EESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKL  1791
                  ++A VY+SQL+ +PI +++  L+ D+  S +    +F+A  N   ++FNV + + 
Sbjct  2199  -----RNACVYFSQLIGKPIKIVNSDLLEDL--SVDFKGALFNAKKNVIKNSFNVDVSEC  2251

Query  1792  KTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDS  1851
             K L      E  +  +L+   STF  A                     +H+  I +T  S
Sbjct  2252  KNL-----DECYRACNLNVSFSTFEMAVNN------------------AHRFGILITDRS  2288

Query  1852  CNNYMLTYNK--VENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRK  1909
              NN+  +  K     ++  D+G C+   A+ +NA+V      +++W  +DF +LS   +K
Sbjct  2289  FNNFWPSKVKPGSSGVSAMDIGKCMTSDAKIVNAKVLTQRGKSVVWLSQDFAALSSTAQK  2348

Query  1910  QIRSAAKKNNLPFKLT  1925
              +     +  + F LT
Sbjct  2349  VLVKTFVEEGVNFSLT  2364


 Score = 61.2 bits (147),  Expect = 1e-07, Method: Compositional matrix adjust.
 Identities = 69/288 (24%), Positives = 123/288 (43%), Gaps = 38/288 (13%)

Query  168   QTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADI  227
             + V QQ   E+N+++  +  ++  P+ +  + P  +  +++ + G L +  N        
Sbjct  1293  EKVEQQPIVEENKSSIEKEEIQ-SPKNDDLILPFYKAGKLSFYQGALDVLINF-------  1344

Query  228   VEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVL  287
                   ++P V+VNAAN  LKH GGVA A++  T   +   S DY+  N  +  G +   
Sbjct  1345  ------LEPDVIVNAANGDLKHMGGVARAIDVFTGGKLTERSKDYLKKNKSIAPGNAVFF  1398

Query  288   SGHNLAKH--CLHVVGPNVNKGEDIQLLKSAYENFNQHE-VLLAPLLSAGIFGADPIHSL  344
                N+ +H   L+ VGP          L + Y+   + E  +L PL+S GIF        
Sbjct  1399  --ENVIEHLSVLNAVGPRNGDSRVEAKLCNVYKAIAKCEGKILTPLISVGIF--------  1448

Query  345   RVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKI--AEIPKEEVKPFITESKP  402
                   VR    L    K + D+ ++ F+    E+Q  +      IP    +  +   + 
Sbjct  1449  -----NVRLETSLQCLLKTVNDRGLNVFVYTDQERQTIENFFSCSIPVNVTEDNVNHERV  1503

Query  403   SVEQRKQDDKKIKACV----EEVTTTLEETKFLTENLLLYIDINGNLH  446
             SV   K   +++K  V    ++VT  L     + + ++  IDI+   H
Sbjct  1504  SVSFDKTYGEQLKGTVVIKDKDVTNQLPSAFDVGQKVIKAIDIDWQAH  1551


 Score = 49.7 bits (117),  Expect = 4e-04, Method: Compositional matrix adjust.
 Identities = 58/235 (25%), Positives = 95/235 (40%), Gaps = 34/235 (14%)

Query  838   WKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALIL  897
             +K   +NG   +K  DNNC++      LQ  +  FN     +A+ + + G+  +F  L  
Sbjct  1075  FKTTNLNGKIILKQGDNNCWINACCYQLQAFDF-FN----NEAWEKFKKGDVMDFVNLCY  1129

Query  898   AYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLS  957
             A      G  GD    +  +    +  + K VL   C  CG+++  L+   AV  +  L 
Sbjct  1130  AATTLARGHSGDAEYLLELMLN--DYSTAKIVLAAKCG-CGEKEIVLE--RAVFKLTPLK  1184

Query  958   YEQFKKGVQIPC----TCGKQATKY-------LVQQESPFVMMSAPPAQYELKHGTFTCA  1006
              E F  GV   C    TC   + +        ++ +++P  M    P  + +        
Sbjct  1185  -ESFNYGVCGDCMQVNTCRFLSVEGSGVFVHDILSKQTPEAMFVVKPVMHAV--------  1235

Query  1007  SEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKP  1061
               YTG  Q GHY  +   E  YC+DG +  K  + +   + +F   N  T   KP
Sbjct  1236  --YTGTTQNGHY-MVDDIEHGYCVDG-MGIKPLKKRCYTSTLFINANVMTRAEKP  1286


 Score = 35.8 bits (81),  Expect = 6.9, Method: Compositional matrix adjust.
 Identities = 61/286 (21%), Positives = 107/286 (37%), Gaps = 29/286 (10%)

Query  749   TIKVFTTVDNINLHTQVVDMSMTYGQQF-GPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
             +I V  T DN+N     V    TYG+Q  G   +   DVT   P     G+         
Sbjct  1488  SIPVNVTEDNVNHERVSVSFDKTYGEQLKGTVVIKDKDVTNQLPSAFDVGQKVI-----K  1542

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSI--KWADNNCYLATALLTL  865
              + ++   +Y   D +      SA +H   +K+  V     I  K  DNNC++    L L
Sbjct  1543  AIDIDWQAHYGFRDAAAF----SASSH-DAYKFEVVTHSNFIVHKQTDNNCWINAICLAL  1597

Query  866   QQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDS  925
             Q+++ ++  P ++  +      +   F  ++        GE GD  E M +       + 
Sbjct  1598  QRLKPQWKFPGVRGLWNEFLERKTQGFVHMLYHISGVKKGEPGDA-ELMLHKLGDLMDND  1656

Query  926   CKRVL--NVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQE  983
             C+ ++     C  C + +  +  V A      L+      G    C  G      + Q +
Sbjct  1657  CEIIVTHTTACDKCAKVEKFVGPVVA----APLAIH----GTDETCVHGVSVNVKVTQIK  1708

Query  984   SPFVMMS--APPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETL  1027
                 + S   P     L+   + C   Y+G+ + GHY +  ++  L
Sbjct  1709  GTVAITSLIGPIIGEVLEATGYIC---YSGSNRNGHYTYYDNRNGL  1751


>sp|Q98VG9|R1AB_FIPV Replicase polyprotein 1ab OS=Feline coronavirus 
(strain FIPV WSU-79/1146) OX=33734 GN=rep PE=1 SV=2
Length=6709

 Score = 153 bits (386),  Expect = 1e-35, Method: Compositional matrix adjust.
 Identities = 151/587 (26%), Positives = 248/587 (42%), Gaps = 80/587 (14%)

Query  1354  FFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIII  1413
             F  LL+      +S   ++K   P  + +N    V       + NY++  N   L   I 
Sbjct  1868  FKYLLVVFMCLRKSKMPKVKVK-PPHVFRNLGAKV------RTLNYVRQLNKPALWRYIK  1920

Query  1414  WFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVC  1473
               LLL + L    Y   ++ V+         C+G  + Y NS+ V  +  C  SI C  C
Sbjct  1921  LVLLL-IALYHFFYLFVSIPVVHK-----LACSGSVQAYSNSSFVK-SEVCGNSILCKAC  1973

Query  1474  LSGLDSLDTYPSLETIQITISSFKWD----LTAFGLVAEWFLAYILFTRFFYVLGLAAIM  1529
             L+  D L  +  L+      S   W+    L+ F  +A +   Y+     ++V   +  +
Sbjct  1974  LASYDELADFDHLQVSWDYKSDPLWNRVIQLSYFIFLAVFGNNYVRCLLMYFV---SQYL  2030

Query  1530  QLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSS  1589
              L+ SYF   ++  SW +    ++V    IS    + +         K   H+   CN+ 
Sbjct  2031  NLWLSYFG--YVKYSWFL----HVVNFESISVEFVIIVVVFKAVLALK---HIFLPCNNP  2081

Query  1590  TCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISD  1649
             +C  C K  R TR+    +VNG  ++ YV+ANG    CK HN+ C NCD++    TFI D
Sbjct  2082  SCKTCSKIARQTRIPIQVVVNGSMKTVYVHANGTGKLCKKHNFYCKNCDSYGFDHTFICD  2141

Query  1650  EVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLY---------FDKAGQKTYERHSL  1700
             E+ RDLS   K+ +  TD+S   V  V   +G    Y         +D   +K   +  L
Sbjct  2142  EIVRDLSNSIKQTVYATDRSYQEVTKVECTDGFYRFYVGEEFTAYDYDVKHKKYSSQEVL  2201

Query  1701  SHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVS  1760
                  LD+    N  GS                +S ++  VY+SQL+ +PI +++  L+ 
Sbjct  2202  KTMFLLDDFIVYNPSGS--------------SLASVRNVCVYFSQLIGRPIKIVNSELLE  2247

Query  1761  DVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAAR  1820
             D+  S +    +F+A  N   ++FNV + + K L      E  K  +LD   STF  A  
Sbjct  2248  DL--SVDFKGALFNAKKNVIKNSFNVDVSECKNL-----EECYKLCNLDVTFSTFEMAIN  2300

Query  1821  QGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNK--VENMTPRDLGACIDCSA  1878
                                +H+  I +T  S NN+  +  K     ++  D+G C+   A
Sbjct  2301  N------------------AHRFGILITDRSFNNFWPSKIKPGSSGVSAMDIGKCMTFDA  2342

Query  1879  RHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLT  1925
             + +NA+V      +++W  +DF +LS   +K +     +  + F LT
Sbjct  2343  KIVNAKVLTQRGKSVVWLSQDFSTLSSTAQKVLVKTFVEEGVNFSLT  2389


 Score = 53.5 bits (127),  Expect = 3e-05, Method: Compositional matrix adjust.
 Identities = 55/231 (24%), Positives = 105/231 (45%), Gaps = 27/231 (12%)

Query  234   VKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLA  293
             ++P V+VNAAN  L+H GGVA A++  T   +   S +Y+ ++  +  G + +    N+ 
Sbjct  1356  LEPDVLVNAANGDLRHVGGVARAIDVFTGGKLTKRSKEYLKSSKAIAPGNAVLF--ENVL  1413

Query  294   KH--CLHVVGPNVNKGEDIQLLKSAYENFNQHE-VLLAPLLSAGIFGADPIHSLRVCVDT  350
             +H   L+ VGP          L + Y+   + +  +L PL+S GIF              
Sbjct  1414  EHLSVLNAVGPRNGDSRVEGKLCNVYKAIAKCDGKILTPLISVGIF-------------K  1460

Query  351   VRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKI--AEIPKEEVKPFITESKPSVEQRK  408
             V+  V L    K + D+ ++ F+    E+   +      IP +  +  + + + SV   K
Sbjct  1461  VKLEVSLQCLLKTVTDRDLNVFVYTDQERVTIENFFNGTIPIKVTEDTVNQKRVSVALDK  1520

Query  409   QDDKKIKACV----EEVTTTLEETKFLTENLLLYIDINGNLH---PDSATL  452
                +++K  V    ++VT  L     + E ++  +D++ N +   P++A  
Sbjct  1521  TYGEQLKGTVVIKDKDVTNQLPSVSDVGEKVVKALDVDWNAYYGFPNAAAF  1571


 Score = 43.1 bits (100),  Expect = 0.036, Method: Compositional matrix adjust.
 Identities = 49/198 (25%), Positives = 80/198 (40%), Gaps = 14/198 (7%)

Query  749   TIKVFTTVDNINLHTQVVDMSMTYGQQF-GPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
             TI +  T D +N     V +  TYG+Q  G   +   DVT   P  S  G+         
Sbjct  1499  TIPIKVTEDTVNQKRVSVALDKTYGEQLKGTVVIKDKDVTNQLPSVSDVGEKVV-----K  1553

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQV--NGLTSIKWADNNCYLATALLTL  865
              L V+   YY   + +      SA +H   +++  V  N     K  DNNC++    L L
Sbjct  1554  ALDVDWNAYYGFPNAAAF----SASSH-DAYEFDVVTHNNFIVHKQTDNNCWVNAICLAL  1608

Query  866   QQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDS  925
             Q+++  +  P ++  +      + A F  ++      T G+ GD   T+  L    + DS
Sbjct  1609  QRLKPTWKFPGVKSLWDAFLTRKTAGFVHMLYHISGLTKGQPGDAELTLHKLVDLMSSDS  1668

Query  926   CKRVLN-VVCKTCGQQQT  942
                V +   C  C + +T
Sbjct  1669  AVTVTHTTACDKCAKVET  1686


 Score = 42.0 bits (97),  Expect = 0.077, Method: Compositional matrix adjust.
 Identities = 70/277 (25%), Positives = 108/277 (39%), Gaps = 26/277 (9%)

Query  838   WKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALIL  897
             +K   +NG   +K  DNNC++      LQ  +  FN   L D + +       +FC   L
Sbjct  1099  FKTTNLNGKIILKQQDNNCWINACCYQLQAFDF-FNHD-LWDGFKKDDVMPFVDFCYAAL  1156

Query  898   AYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLS  957
                    G+   + ETM   +  A     K  L+  C  CG ++  L   E  ++  T  
Sbjct  1157  TLKQGDSGDAEYLLETMLNDYSTA-----KVTLSAKCG-CGVKEIVL---ERTVFKLTPL  1207

Query  958   YEQFKKGVQIPCTCGKQATKYLVQQESPFVM----MSAPPAQYELKHGTFTCASEYTGNY  1013
               +FK GV   C          V+    FV        P +Q+ +   T T  + YTG  
Sbjct  1208  RNEFKYGVCGDCKQINMCKFASVEGSGVFVHDRIEKQTPVSQFIV---TPTMHAVYTGTT  1264

Query  1014  QCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYT----TTIKPVTYKLDGV  1069
             Q GHY  I      YC+DG +  K  ++K   + +F   N  T    T ++P     D  
Sbjct  1265  QSGHY-MIEDCIHDYCVDG-MGIKPRKHKFYTSTLFLNANVMTAKSKTMVEPPVPVEDKC  1322

Query  1070  V--CTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPN  1104
             V  C      +  +YK     F +  +D++ N   P+
Sbjct  1323  VEDCQSPKDLILPFYKAGKVSFYQGDLDVLINFLEPD  1359


>sp|Q8ZXT3|Y1111_PYRAE Uncharacterized protein PAE1111 OS=Pyrobaculum 
aerophilum (strain ATCC 51768 / DSM 7523 / JCM 9630 
/ CIP 104966 / NBRC 100827 / IM2) OX=178306 GN=PAE1111 PE=4 
SV=1
Length=182

 Score = 72.8 bits (177),  Expect = 5e-13, Method: Composition-based stats.
 Identities = 55/170 (32%), Positives = 83/170 (49%), Gaps = 23/170 (14%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            V +   DI E    V+   +VNAAN YL+HGGGVAGA+ +     +Q ES +++  +GP+
Sbjct  10   VVLMRGDITE----VEADAIVNAANSYLEHGGGVAGAIVRKGGQVIQEESREWVRKHGPV  65

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQLLKSAYEN--FNQHEVLLA----PLLS  332
             VG   V S   L AK+ +H VGP     E I+ L  A +N      E+ L     P +S
Sbjct  66   PVGDVAVTSAGRLKAKYVIHAVGPRCGV-EPIEKLAEAVKNALLKAEELGLVSIALPAIS  124

Query  333  AGIFG----------ADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSF  372
             GIFG          A  I  +   + ++R  + + ++ +  Y K +  F
Sbjct  125  TGIFGCPYDAAAEQMATAIREVAPALRSIR-RILVVLYGEEAYQKFLEVF  173


>sp|Q4J9D2|Y1252_SULAC Uncharacterized protein Saci_1252 OS=Sulfolobus 
acidocaldarius (strain ATCC 33909 / DSM 639 / JCM 8929 
/ NBRC 15157 / NCIMB 11770) OX=330779 GN=Saci_1252 PE=4 
SV=1
Length=181

 Score = 72.4 bits (176),  Expect = 7e-13, Method: Composition-based stats.
 Identities = 45/124 (36%), Positives = 71/124 (57%), Gaps = 10/124 (8%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            V ++N DI     KV+   +VNAAN YL HGGGVA A+ ++    +Q ESD+Y+  NGP+
Sbjct  13   VILENGDIT----KVEADAIVNAANSYLSHGGGVALAIVRSGGYIIQEESDEYVRRNGPV  68

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQL---LKSAYENFNQHEV--LLAPLLSA  333
             VG   V +   L A++ +H VGP      D +L   ++ + E  ++ ++  +  P +S 
Sbjct  69   PVGEVAVTTAGKLKARYVIHAVGPRYGIEGDDKLESAIRRSLEKADELKLSSIALPAIST  128

Query  334  GIFG  337
            GI+G
Sbjct  129  GIYG  132


>sp|Q97UU4|Y2899_SACS2 Uncharacterized protein SSO2899 OS=Saccharolobus 
solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 
/ P2) OX=273057 GN=SSO2899 PE=4 SV=1
Length=177

 Score = 71.6 bits (174),  Expect = 1e-12, Method: Composition-based stats.
 Identities = 53/167 (32%), Positives = 85/167 (51%), Gaps = 19/167 (11%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            +Y+   DI E    ++   +VNAAN YL+HGGGVA A+ +     +Q ESD+Y+   GP+
Sbjct  10   IYLIKGDITE----IEADAIVNAANSYLQHGGGVAYAIVRKGGYIIQKESDEYVKKFGPV  65

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVN-KGEDIQLLKSAYENFNQHEVL-----LAPLLS  332
             VG   V S   L AK+ +H VGP    +GED +L  + +++  + + L       P +S
Sbjct  66   PVGEVAVTSAGKLKAKYVIHAVGPRYGIEGED-KLESAIFKSLLKADELSLSSIAMPAIS  124

Query  333  AGIFGADPIHSLRVCVDTVR-------TNVYLAVFDKNLYDKLVSSF  372
             GI+G       R+  + ++         V + ++ K+ YD   S F
Sbjct  125  TGIYGYPFEICARIMANVLKGYKPKTLRKVMICLYTKDAYDVFKSIF  171


>sp|Q9WYX8|Y508_THEMA Uncharacterized protein TM_0508 OS=Thermotoga 
maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 
100826 / MSB8) OX=243274 GN=TM_0508 PE=3 SV=1
Length=599

 Score = 76.3 bits (186),  Expect = 2e-12, Method: Compositional matrix adjust.
 Identities = 51/128 (40%), Positives = 67/128 (52%), Gaps = 13/128 (10%)

Query  219  NVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGP  278
             + I   DI  E    +   +VNAAN YLKHGGGVAGA+ +A  + +Q ESD  +   G 
Sbjct  428  KIRIVKGDITRE----EVDAIVNAANEYLKHGGGVAGAIVRAGGSVIQEESDRIVQERGR  483

Query  279  LKVGGSCVLSGHNL-AKHCLHVVGP---NVNKGEDIQLLKSAYEN-FNQHEVLLA----P  329
            +  G + V S   L AK+ +H VGP     + GED  L K+ Y      HE+ L     P
Sbjct  484  VPTGEAVVTSAGKLKAKYVIHTVGPVWRGGSHGEDELLYKAVYNALLRAHELKLKSISMP  543

Query  330  LLSAGIFG  337
             +S GIFG
Sbjct  544  AISTGIFG  551


>sp|Q96XY5|Y2383_SULTO Uncharacterized protein STK_23830 OS=Sulfurisphaera 
tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 
/ 7) OX=273063 GN=STK_23830 PE=4 SV=1
Length=182

 Score = 65.1 bits (157),  Expect = 2e-10, Method: Composition-based stats.
 Identities = 54/187 (29%), Positives = 89/187 (48%), Gaps = 28/187 (15%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            V I   DI E    ++   +VNAAN YL+HGGGVA A+ +     +Q ES +Y+   GP+
Sbjct  3    VKIIKGDITE----IEAEAIVNAANSYLEHGGGVARAIVEKGGYIIQKESREYVRKYGPV  58

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVL-----LAPLLSA  333
              GG  V S   L AK+ +H VGP      + +L ++      + E L       P +S 
Sbjct  59   PTGGVAVTSAGKLKAKYVIHAVGPRYGIEGEEKLEEAIRNALRKAEELKLSSIALPAIST  118

Query  334  GIFGADPIHSLRVCVDTV-------RTN------VYLAVFDKNLYDKLVSSF-LEMKSEK  379
            GI+G    +   +C + +        TN      + ++++ +  Y+  V+ F  E+  EK
Sbjct  119  GIYG----YPYEICAEKMVKVIKEEYTNFKHLNTIIVSLYSEEAYNIFVNIFERELAKEK  174

Query  380  QVEQKIA  386
             +  K++
Sbjct  175  NITLKMS  181


>sp|P0C6F3|R1A_BEV Replicase polyprotein 1a OS=Berne virus OX=11156 
GN=1a PE=1 SV=1
Length=4569

 Score = 65.5 bits (158),  Expect = 6e-09, Method: Compositional matrix adjust.
 Identities = 48/143 (34%), Positives = 75/143 (52%), Gaps = 14/143 (10%)

Query  239   VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAK--HC  296
             VVN AN  LKHGGG+A  ++      +Q  S++YI  N  + V  +    G  L K  + 
Sbjct  1715  VVNPANSQLKHGGGIAKVISCMCGPKLQAWSNNYITKNKTVPVTKAIKSPGFQLGKKVNI  1774

Query  297   LHVVGPNVNKGEDIQLLKSAYENF-----NQHEVLLAPLLSAGIFGADPIHSLRVCVDTV  351
             +H VGP V+ G+  Q L  A+ +      +QH +L + +LS GIFG     ++    +T 
Sbjct  1775  IHAVGPRVSDGDVFQKLDQAWRSVFDLCEDQHTILTS-MLSTGIFGC----TVNDSFNTF  1829

Query  352   RTNVYLAVFDKNLYDKLVSSFLE  374
              +NV  A  DK+L   +V++ +E
Sbjct  1830  LSNV--ARLDKSLVVFVVTNMVE  1850


>sp|P0C6V7|R1AB_BEV Replicase polyprotein 1ab OS=Berne virus OX=11156 
GN=rep PE=1 SV=1
Length=6857

 Score = 65.5 bits (158),  Expect = 7e-09, Method: Compositional matrix adjust.
 Identities = 48/147 (33%), Positives = 77/147 (52%), Gaps = 14/147 (10%)

Query  239   VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAK--HC  296
             VVN AN  LKHGGG+A  ++      +Q  S++YI  N  + V  +    G  L K  + 
Sbjct  1715  VVNPANSQLKHGGGIAKVISCMCGPKLQAWSNNYITKNKTVPVTKAIKSPGFQLGKKVNI  1774

Query  297   LHVVGPNVNKGEDIQLLKSAYENF-----NQHEVLLAPLLSAGIFGADPIHSLRVCVDTV  351
             +H VGP V+ G+  Q L  A+ +      +QH +L + +LS GIFG     ++    +T 
Sbjct  1775  IHAVGPRVSDGDVFQKLDQAWRSVFDLCEDQHTILTS-MLSTGIFGC----TVNDSFNTF  1829

Query  352   RTNVYLAVFDKNLYDKLVSSFLEMKSE  378
              +NV  A  DK+L   +V++ +E  ++
Sbjct  1830  LSNV--ARLDKSLVVFVVTNMVEQYNQ  1854


>sp|Q8CAS9|PARP9_MOUSE Protein mono-ADP-ribosyltransferase PARP9 
OS=Mus musculus OX=10090 GN=Parp9 PE=1 SV=2
Length=866

 Score = 63.5 bits (153),  Expect = 2e-08, Method: Compositional matrix adjust.
 Identities = 48/142 (34%), Positives = 64/142 (45%), Gaps = 16/142 (11%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKH-CL  297
            VVNAAN  L HG G+AG+L K     +Q ES   IA  G + VGG  +     L  H  +
Sbjct  137  VVNAANENLLHGSGLAGSLVKTGGFEIQEESKRIIANVGKISVGGIAITGAGRLPCHLII  196

Query  298  HVVGPN---VNKGEDIQLLKSAYENFNQH--------EVLLAPLLSAGIFGADPIHSLRV  346
            H VGP     N    I+LLK A  N   +        + +  P LS+GIF       L +
Sbjct  197  HAVGPRWTVTNSQTAIELLKFAIRNILDYVTKYDLRIKTVAIPALSSGIFQ----FPLDL  252

Query  347  CVDTVRTNVYLAVFDKNLYDKL  368
            C   +   + L   DK ++  L
Sbjct  253  CTSIILETIRLYFQDKQMFGNL  274


>sp|P36327|POLN_EEVV3 Polyprotein P1234 OS=Venezuelan equine encephalitis 
virus (strain 3880) OX=36382 PE=3 SV=3
Length=2485

 Score = 63.2 bits (152),  Expect = 3e-08, Method: Compositional matrix adjust.
 Identities = 47/140 (34%), Positives = 70/140 (50%), Gaps = 26/140 (19%)

Query  238   VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCL  297
             V++NAAN   + GGGV GAL K    +  ++         P++VG + ++ G   AKH +
Sbjct  1347  VIINAANSKGQPGGGVCGALYKKFPESFDLQ---------PIEVGKARLVKG--AAKHII  1395

Query  298   HVVGPNVNKGEDIQ---LLKSAYE------NFNQHEVLLAPLLSAGIFGAD------PIH  342
             H VGPN NK  +I+    L  AYE      N N ++ +  PLLS GIF  +       ++
Sbjct  1396  HAVGPNFNKVSEIEGDKQLAEAYESIAKIVNDNNYKSVAIPLLSTGIFSGNKDRLTQSLN  1455

Query  343   SLRVCVDTVRTNVYLAVFDK  362
              L   +DT   +V +   DK
Sbjct  1456  HLLTALDTTDADVAIYCRDK  1475


>sp|P27282|POLN_EEVVT Polyprotein P1234 OS=Venezuelan equine encephalitis 
virus (strain Trinidad donkey) OX=11038 PE=1 SV=3
Length=2493

 Score = 62.4 bits (150),  Expect = 5e-08, Method: Compositional matrix adjust.
 Identities = 46/140 (33%), Positives = 70/140 (50%), Gaps = 26/140 (19%)

Query  238   VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCL  297
             V++NAAN   + GGGV GAL K    +  ++         P++VG + ++ G   AKH +
Sbjct  1347  VIINAANSKGQPGGGVCGALYKKFPESFDLQ---------PIEVGKARLVKG--AAKHII  1395

Query  298   HVVGPNVNKGEDIQ---LLKSAYE------NFNQHEVLLAPLLSAGIFGAD------PIH  342
             H VGPN NK  +++    L  AYE      N N ++ +  PLLS GIF  +       ++
Sbjct  1396  HAVGPNFNKVSEVEGDKQLAEAYESIAKIVNDNNYKSVAIPLLSTGIFSGNKDRLTQSLN  1455

Query  343   SLRVCVDTVRTNVYLAVFDK  362
              L   +DT   +V +   DK
Sbjct  1456  HLLTALDTTDADVAIYCRDK  1475


>sp|P36328|POLN_EEVVP Polyprotein P1234 OS=Venezuelan equine encephalitis 
virus (strain P676) OX=36385 PE=1 SV=2
Length=2493

 Score = 62.4 bits (150),  Expect = 5e-08, Method: Compositional matrix adjust.
 Identities = 46/140 (33%), Positives = 70/140 (50%), Gaps = 26/140 (19%)

Query  238   VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCL  297
             V++NAAN   + GGGV GAL K    +  ++         P++VG + ++ G   AKH +
Sbjct  1347  VIINAANSKGQPGGGVCGALYKKFPESFDLQ---------PIEVGKARLVKG--AAKHII  1395

Query  298   HVVGPNVNKGEDIQ---LLKSAYE------NFNQHEVLLAPLLSAGIFGAD------PIH  342
             H VGPN NK  +++    L  AYE      N N ++ +  PLLS GIF  +       ++
Sbjct  1396  HAVGPNFNKVSEVEGDKQLAEAYESIAKIVNDNNYKSVAIPLLSTGIFSGNKDRLTQSLN  1455

Query  343   SLRVCVDTVRTNVYLAVFDK  362
              L   +DT   +V +   DK
Sbjct  1456  HLLTALDTTDADVAIYCRDK  1475


>sp|A7MG20|YMDB_CROS8 O-acetyl-ADP-ribose deacetylase OS=Cronobacter 
sakazakii (strain ATCC BAA-894) OX=290339 GN=ymdB PE=3 
SV=1
Length=180

 Score = 58.2 bits (139),  Expect = 6e-08, Method: Composition-based stats.
 Identities = 47/158 (30%), Positives = 71/158 (45%), Gaps = 21/158 (13%)

Query  238  VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHC  296
            V+VNAAN  L  GGGV GA+++A   A+           G  + G + +    +L AK  
Sbjct  19   VIVNAANPSLMGGGGVDGAIHRAAGPALLAACRQVRQQQGECQPGHAVITEAGDLAAKAV  78

Query  297  LHVVGPNVNKGED--IQLLKSAYEN------FNQHEVLLAPLLSAGIFGADPIHSLRVCV  348
            +H VGP    G+D   QLL  AY N       N +  +  P +S GI+G     + ++  
Sbjct  79   VHTVGPVWRGGQDNEPQLLADAYRNSLQLVAANGYNSVAFPAISTGIYGYPKAAAAQIAF  138

Query  349  DTVR---------TNVYLAVFDKN---LYDKLVSSFLE  374
            +TV            VY   +D+    LY +L+  + E
Sbjct  139  ETVSDYLTRHPQPKQVYFVCYDEENFLLYQRLLGQYDE  176


>sp|E1SDF1|YMDB1_PANVC O-acetyl-ADP-ribose deacetylase 1 OS=Pantoea 
vagans (strain C9-1) OX=712898 GN=ymdB1 PE=3 SV=1
Length=171

 Score = 56.6 bits (135),  Expect = 2e-07, Method: Compositional matrix adjust.
 Identities = 46/152 (30%), Positives = 71/152 (47%), Gaps = 18/152 (12%)

Query  233  KVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL  292
            KV    +VNAAN  L  GGGV GA+++A    +  E        G  KVG + +    NL
Sbjct  13   KVSAEAIVNAANSSLLGGGGVDGAIHRAGGPVILAECQLIRNRQGGCKVGDAVITGAGNL  72

Query  293  -AKHCLHVVGPNVNKG--EDIQLLKSAYE------NFNQHEVLLAPLLSAGIFGADPIHS  343
             A + +H VGP  + G  ++  LLK AY+      +++  + +  P +S GI+G     +
Sbjct  73   PADYVIHTVGPRWSDGRHDEDALLKRAYQSCFKLVDYHGIKTVSFPNISTGIYGFPKERA  132

Query  344  LRVCVDTVR---------TNVYLAVFDKNLYD  366
              + +D ++          NV L  FD   YD
Sbjct  133  ATIALDVIKHCIAENRTLENVNLVCFDAENYD  164


>sp|A8AI35|YMDB_CITK8 O-acetyl-ADP-ribose deacetylase OS=Citrobacter 
koseri (strain ATCC BAA-895 / CDC 4225-83 / SGSC4696) 
OX=290338 GN=ymdB PE=3 SV=1
Length=177

 Score = 56.6 bits (135),  Expect = 2e-07, Method: Composition-based stats.
 Identities = 49/178 (28%), Positives = 84/178 (47%), Gaps = 29/178 (16%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +   +++++ DI +    +   V+VNAAN  L  GGGV GA+++A    +          
Sbjct  1    MKSRIHVQHGDITQ----LTVDVIVNAANASLLGGGGVDGAIHRAAGPTLLEACKKVRQQ  56

Query  276  NGPLKVGGSCV-LSGHNLAKHCLHVVGPNVNKGE--DIQLLKSAYENFNQHEVLLA----  328
             G    G + + L+G+  AK  +H VGP    G+  + QLL+ AY  FN  +++LA    
Sbjct  57   QGECPAGHAVITLAGNLPAKAVIHTVGPVWRGGDHNESQLLEDAY--FNSLQLVLANGYR  114

Query  329  ----PLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVS  370
                P +S G +G     +  + V+TV            VY   +D+    LY++L++
Sbjct  115  SVAFPAISTGAYGYPRPAAAEIAVNTVADFLARHALPEQVYFVCYDEETARLYERLLT  172


>sp|C9Y0V8|YMDB_CROTZ O-acetyl-ADP-ribose deacetylase OS=Cronobacter 
turicensis (strain DSM 18703 / CCUG 55852 / LMG 23827 
/ z3032) OX=693216 GN=ymdB PE=3 SV=1
Length=176

 Score = 56.2 bits (134),  Expect = 3e-07, Method: Composition-based stats.
 Identities = 46/163 (28%), Positives = 72/163 (44%), Gaps = 21/163 (13%)

Query  233  KVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL  292
            ++   V+VNAAN  L  GGGV GA+++A   ++           G  + G + +    +L
Sbjct  14   RIDTDVIVNAANPSLMGGGGVDGAIHRAAGPSLLAACKVVRQQQGECQPGHAVITEAGDL  73

Query  293  -AKHCLHVVGPNVNKGED--IQLLKSAYEN------FNQHEVLLAPLLSAGIFGADPIHS  343
             AK  +H VGP    G D   QLL  AY N       N +  +  P +S GI+G     +
Sbjct  74   AAKAVIHTVGPIWRGGHDNEPQLLADAYRNSLELVTANGYNSVAFPAISTGIYGYPKAAA  133

Query  344  LRVCVDTVR---------TNVYLAVFDKN---LYDKLVSSFLE  374
             ++  +TV            VY   +D+    LY +L+  + E
Sbjct  134  AQIAFETVSDYLTRRPQPKQVYFVCYDEENFLLYQRLLGQYDE  176


>sp|P0A8D6|YMDB_ECOLI O-acetyl-ADP-ribose deacetylase OS=Escherichia 
coli (strain K12) OX=83333 GN=ymdB PE=1 SV=1
Length=177

 Score = 55.8 bits (133),  Expect = 3e-07, Method: Composition-based stats.
 Identities = 50/172 (29%), Positives = 79/172 (46%), Gaps = 25/172 (15%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            +++   DI     K+   V+VNAAN  L  GGGV GA+++A   A+           G  
Sbjct  5    IHVVQGDIT----KLAVDVIVNAANPSLMGGGGVDGAIHRAAGPALLDACLKVRQQQGDC  60

Query  280  KVGGSCV-LSGHNLAKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVLLAPL  330
              G + + L+G   AK  +H VGP    GE  + QLL+ AY N       N +  +  P 
Sbjct  61   PTGHAVITLAGDLPAKAVVHTVGPVWRGGEQNEDQLLQDAYLNSLRLVAANSYTSVAFPA  120

Query  331  LSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDK---NLYDKLVS  370
            +S G++G     +  + V TV            VY   +D+   +LY++L++
Sbjct  121  ISTGVYGYPRAAAAEIAVKTVSEFITRHALPEQVYFVCYDEENAHLYERLLT  172


>sp|P0A8D7|YMDB_ECOL6 O-acetyl-ADP-ribose deacetylase OS=Escherichia 
coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) OX=199310 
GN=ymdB PE=3 SV=1
Length=177

 Score = 55.8 bits (133),  Expect = 3e-07, Method: Composition-based stats.
 Identities = 50/172 (29%), Positives = 79/172 (46%), Gaps = 25/172 (15%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            +++   DI     K+   V+VNAAN  L  GGGV GA+++A   A+           G  
Sbjct  5    IHVVQGDIT----KLAVDVIVNAANPSLMGGGGVDGAIHRAAGPALLDACLKVRQQQGDC  60

Query  280  KVGGSCV-LSGHNLAKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVLLAPL  330
              G + + L+G   AK  +H VGP    GE  + QLL+ AY N       N +  +  P 
Sbjct  61   PTGHAVITLAGDLPAKAVVHTVGPVWRGGEQNEDQLLQDAYLNSLRLVAANSYTSVAFPA  120

Query  331  LSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDK---NLYDKLVS  370
            +S G++G     +  + V TV            VY   +D+   +LY++L++
Sbjct  121  ISTGVYGYPRAAAAEIAVKTVSEFITRHALPEQVYFVCYDEENAHLYERLLT  172


>sp|P0A8D8|YMDB_ECO57 O-acetyl-ADP-ribose deacetylase OS=Escherichia 
coli O157:H7 OX=83334 GN=ymdB PE=3 SV=1
Length=177

 Score = 55.8 bits (133),  Expect = 3e-07, Method: Composition-based stats.
 Identities = 50/172 (29%), Positives = 79/172 (46%), Gaps = 25/172 (15%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            +++   DI     K+   V+VNAAN  L  GGGV GA+++A   A+           G  
Sbjct  5    IHVVQGDIT----KLAVDVIVNAANPSLMGGGGVDGAIHRAAGPALLDACLKVRQQQGDC  60

Query  280  KVGGSCV-LSGHNLAKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVLLAPL  330
              G + + L+G   AK  +H VGP    GE  + QLL+ AY N       N +  +  P 
Sbjct  61   PTGHAVITLAGDLPAKAVVHTVGPVWRGGEQNEDQLLQDAYLNSLRLVAANSYTSVAFPA  120

Query  331  LSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDK---NLYDKLVS  370
            +S G++G     +  + V TV            VY   +D+   +LY++L++
Sbjct  121  ISTGVYGYPRAAAAEIAVKTVSEFITRHALPEQVYFVCYDEENAHLYERLLT  172


>sp|Q8V294|POLN_EEVVC Polyprotein P1234 OS=Venezuelan equine encephalitis 
virus (strain CPA201) OX=376610 PE=3 SV=3
Length=2497

 Score = 59.3 bits (142),  Expect = 5e-07, Method: Compositional matrix adjust.
 Identities = 44/140 (31%), Positives = 69/140 (49%), Gaps = 26/140 (19%)

Query  238   VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCL  297
             V+VNAAN   + G GV GAL +    +  ++         P++VG + ++ G+  +KH +
Sbjct  1347  VIVNAANSKGQPGSGVCGALYRKYPESFDLQ---------PIEVGKARLVKGN--SKHLI  1395

Query  298   HVVGPNVNKGEDIQ---LLKSAYE------NFNQHEVLLAPLLSAGIFGAD------PIH  342
             H VGPN NK  +++    L  AYE      N N +  +  PLLS GIF  +       ++
Sbjct  1396  HAVGPNFNKVSEVEGDKQLAEAYESIARIINDNNYRSVAIPLLSTGIFAGNKDRLMQSLN  1455

Query  343   SLRVCVDTVRTNVYLAVFDK  362
              L   +DT   +V +   DK
Sbjct  1456  HLLTALDTTDADVAIYCRDK  1475


>sp|B5F961|YMDB_SALA4 O-acetyl-ADP-ribose deacetylase OS=Salmonella 
agona (strain SL483) OX=454166 GN=ymdB PE=3 SV=1
Length=179

 Score = 54.3 bits (129),  Expect = 1e-06, Method: Composition-based stats.
 Identities = 48/176 (27%), Positives = 76/176 (43%), Gaps = 25/176 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +T  + +   DI +    +    +VNAAN  L  GGGV GA+++A   A+          
Sbjct  1    MTSRLQVIQGDITQ----LSVDAIVNAANASLMGGGGVDGAIHRAAGPALLDACKLIRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G  + G + +     L AK  +H VGP    GE  + +LL++AY N       N    +
Sbjct  57   QGECQTGHAVITPAGKLSAKAVIHTVGPVWRGGEYQEAELLEAAYRNCLLLAEANHFRSI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVS  370
              P +S G++G     +  V V TV            VY   +D+    LY +L++
Sbjct  117  AFPAISTGVYGYPRAQAAEVAVRTVSDFITRYALPEQVYFVCYDEETARLYARLLT  172


>sp|Q460N5|PAR14_HUMAN Protein mono-ADP-ribosyltransferase PARP14 
OS=Homo sapiens OX=9606 GN=PARP14 PE=1 SV=3
Length=1801

 Score = 57.4 bits (137),  Expect = 2e-06, Method: Compositional matrix adjust.
 Identities = 40/124 (32%), Positives = 61/124 (49%), Gaps = 14/124 (11%)

Query  238  VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLA-KHC  296
            VVVNA+N  LKH GG+A AL+KA    +Q + D  +   G L  G + +     L   H 
Sbjct  818  VVVNASNEDLKHYGGLAAALSKAAGPELQADCDQIVKREGRLLPGNATISKAGKLPYHHV  877

Query  297  LHVVGPNVNKGED---IQLLKSAYE------NFNQHEVLLAPLLSAGIFGADPIHSLRVC  347
            +H VGP  +  E    + LL+ A +         ++  +  P +S+G+FG      L  C
Sbjct  878  IHAVGPRWSGYEAPRCVYLLRRAVQLSLCLAEKYKYRSIAIPAISSGVFG----FPLGRC  933

Query  348  VDTV  351
            V+T+
Sbjct  934  VETI  937


>sp|A4W960|YMDB_ENT38 O-acetyl-ADP-ribose deacetylase OS=Enterobacter 
sp. (strain 638) OX=399742 GN=ymdB PE=3 SV=1
Length=180

 Score = 53.9 bits (128),  Expect = 2e-06, Method: Composition-based stats.
 Identities = 46/164 (28%), Positives = 74/164 (45%), Gaps = 21/164 (13%)

Query  227  IVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCV  286
            +V +   ++  V+VNAAN  L  GGGV GA+++A    +           G    G + +
Sbjct  8    VVGDITTMEVDVIVNAANPSLMGGGGVDGAIHRAAGPQLLEACKTVRQQQGECAPGHAVI  67

Query  287  -LSGHNLAKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVLLAPLLSAGIFG  337
             ++G   AK  +H VGP    GE  + + L+ AY N       N ++ L  P +S G++G
Sbjct  68   TIAGDLPAKAVIHAVGPVWQGGENHEARTLQDAYLNCLRLAAANGYKTLAFPAISTGVYG  127

Query  338  ADPIHSLRVCVDTVR---------TNVYLAVFDK---NLYDKLV  369
                 +  + VDTV            VY   +D+    LY +L+
Sbjct  128  YPKAAAAEIAVDTVSEFLTRKPLPERVYFVCYDEENAQLYQRLL  171


>sp|B7LT90|YMDB_ESCF3 O-acetyl-ADP-ribose deacetylase OS=Escherichia 
fergusonii (strain ATCC 35469 / DSM 13698 / CCUG 18766 
/ IAM 14443 / JCM 21226 / LMG 7866 / NBRC 102419 / NCTC 12128 
/ CDC 0568-73) OX=585054 GN=ymdB PE=3 SV=2
Length=177

 Score = 53.9 bits (128),  Expect = 2e-06, Method: Composition-based stats.
 Identities = 47/176 (27%), Positives = 77/176 (44%), Gaps = 25/176 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +   +++   DI + A  V    +VNAAN  L  GGGV GA+++A    +          
Sbjct  1    MKSRIHVLQGDITQLAVDV----IVNAANSSLMGGGGVDGAIHRAAGPELLEACQKVRRQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G    G + +    NL A+  +H VGP    GE  + QLL  AY N       N ++ +
Sbjct  57   QGECPTGHAVITIAGNLPARAVIHTVGPVWRDGEHNEDQLLHDAYLNSLKLAQANGYKSI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVS  370
              P +S G++G     +  + V TV            +Y   +D+    LY++L++
Sbjct  117  AFPAISTGVYGFPRAAAAEIAVKTVSDFITRHALPEQIYFVCYDEENSRLYNRLLT  172


>sp|P67341|YMDB_SALTY O-acetyl-ADP-ribose deacetylase OS=Salmonella 
typhimurium (strain LT2 / SGSC1412 / ATCC 700720) OX=99287 
GN=ymdB PE=3 SV=1
Length=179

 Score = 53.5 bits (127),  Expect = 2e-06, Method: Composition-based stats.
 Identities = 48/176 (27%), Positives = 75/176 (43%), Gaps = 25/176 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +T  + +   DI +    +    +VNAAN  L  GGGV GA+++A   A+          
Sbjct  1    MTSRLQVIQGDITQ----LSVDAIVNAANASLMGGGGVDGAIHRAAGPALLDACKLIRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G  + G + +     L AK  +H VGP    GE  + +LL+ AY N       N    +
Sbjct  57   QGECQTGHAVITPAGKLSAKAVIHTVGPVWRGGEHQEAELLEEAYRNCLLLAEANHFRSI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVS  370
              P +S G++G     +  V V TV            VY   +D+    LY +L++
Sbjct  117  AFPAISTGVYGYPRAQAAEVAVRTVSDFITRYALPEQVYFVCYDEETARLYARLLT  172


>sp|P67342|YMDB_SALTI O-acetyl-ADP-ribose deacetylase OS=Salmonella 
typhi OX=90370 GN=ymdB PE=3 SV=1
Length=179

 Score = 53.5 bits (127),  Expect = 2e-06, Method: Composition-based stats.
 Identities = 48/176 (27%), Positives = 75/176 (43%), Gaps = 25/176 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +T  + +   DI +    +    +VNAAN  L  GGGV GA+++A   A+          
Sbjct  1    MTSRLQVIQGDITQ----LSVDAIVNAANASLMGGGGVDGAIHRAAGPALLDACKLIRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G  + G + +     L AK  +H VGP    GE  + +LL+ AY N       N    +
Sbjct  57   QGECQTGHAVITPAGKLSAKAVIHTVGPVWRGGEHQEAELLEEAYRNCLLLAEANHFRSI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVS  370
              P +S G++G     +  V V TV            VY   +D+    LY +L++
Sbjct  117  AFPAISTGVYGYPRAQAAEVAVRTVSDFITRYALPEQVYFVCYDEETARLYARLLT  172


>sp|D3RKJ0|YMDB_KLEVT O-acetyl-ADP-ribose deacetylase OS=Klebsiella 
variicola (strain At-22) OX=640131 GN=ymdB PE=3 SV=1
Length=175

 Score = 53.1 bits (126),  Expect = 2e-06, Method: Composition-based stats.
 Identities = 45/156 (29%), Positives = 73/156 (47%), Gaps = 21/156 (13%)

Query  238  VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCV-LSGHNLAKHC  296
            V+VNAAN  L  GGGV GA+++A   A+       +   G    G + + ++G   A   
Sbjct  19   VIVNAANPSLLGGGGVDGAIHRAAGPALLAACKQVLQQQGECPPGHAVITIAGDLPASAV  78

Query  297  LHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVLLAPLLSAGIFGADPIHSLRVCV  348
            +H VGP  + G+  + Q L  AY+N       N +  +  P +S G++G     +  + V
Sbjct  79   IHTVGPVWHGGDRMEAQTLADAYKNSLQLAAANNYRSIAFPAISTGVYGYPKEEAAEIAV  138

Query  349  DTV-----RTN----VYLAVFDKN---LYDKLVSSF  372
             TV     R N    V    FD+    +Y +L++S+
Sbjct  139  RTVTAFLTRYNPLERVLFVCFDEETAAIYRRLLASY  174


>sp|B5XXK9|YMDB_KLEP3 O-acetyl-ADP-ribose deacetylase OS=Klebsiella 
pneumoniae (strain 342) OX=507522 GN=ymdB PE=3 SV=1
Length=175

 Score = 53.1 bits (126),  Expect = 2e-06, Method: Composition-based stats.
 Identities = 45/156 (29%), Positives = 73/156 (47%), Gaps = 21/156 (13%)

Query  238  VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCV-LSGHNLAKHC  296
            V+VNAAN  L  GGGV GA+++A   A+       +   G    G + + ++G   A   
Sbjct  19   VIVNAANPSLLGGGGVDGAIHRAAGPALLAACKQVLQQQGECPPGHAVITIAGDLPASAV  78

Query  297  LHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVLLAPLLSAGIFGADPIHSLRVCV  348
            +H VGP  + G+  + Q L  AY+N       N +  +  P +S G++G     +  + V
Sbjct  79   IHTVGPVWHGGDRMEAQTLADAYKNSLQLAAANNYRSIAFPAISTGVYGYPKEEAAEIAV  138

Query  349  DTV-----RTN----VYLAVFDKN---LYDKLVSSF  372
             TV     R N    V    FD+    +Y +L++S+
Sbjct  139  RTVTAFLTRYNPLERVLFVCFDEETAAIYRRLLASY  174


>sp|Q0T5Z6|YMDB_SHIF8 O-acetyl-ADP-ribose deacetylase OS=Shigella 
flexneri serotype 5b (strain 8401) OX=373384 GN=ymdB PE=3 
SV=1
Length=177

 Score = 53.1 bits (126),  Expect = 3e-06, Method: Composition-based stats.
 Identities = 49/172 (28%), Positives = 78/172 (45%), Gaps = 25/172 (15%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            +++   DI     K+   V+VNAAN  L  GGGV GA+++A   A+           G  
Sbjct  5    IHVVQGDIT----KLAVDVIVNAANPSLMGGGGVDGAIHRAAGPALLDACLKVRQQQGDC  60

Query  280  KVGGSCV-LSGHNLAKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVLLAPL  330
              G + + L+G   AK  +H VGP    GE  + QLL+ AY N       N +  +  P 
Sbjct  61   PTGHAVITLAGDLPAKAVVHTVGPVWRGGEQNEDQLLQDAYLNSLRLVAANSYTSVAFPA  120

Query  331  LSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDK---NLYDKLVS  370
            +S G++      +  + V TV            VY   +D+   +LY++L++
Sbjct  121  ISTGVYSYPRAAAAEIAVKTVSEFITRHALPEQVYFVCYDEENAHLYERLLT  172


>sp|Q9WJC7|POLN_EEVVM Polyprotein P1234 OS=Venezuelan equine encephalitis 
virus (strain Mena II) OX=36384 PE=3 SV=3
Length=2499

 Score = 56.6 bits (135),  Expect = 3e-06, Method: Compositional matrix adjust.
 Identities = 43/140 (31%), Positives = 68/140 (49%), Gaps = 26/140 (19%)

Query  238   VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCL  297
             V+VNAAN   + G GV GAL +    +  ++         P++VG + ++ G   +KH +
Sbjct  1347  VIVNAANSKGQPGSGVCGALYRKYPESFDLQ---------PIEVGKARLVKGS--SKHII  1395

Query  298   HVVGPNVNKGEDIQ---LLKSAYE------NFNQHEVLLAPLLSAGIFGAD------PIH  342
             H VGPN +K  +++    L  AYE      N N +  +  PLLS GIF  +       ++
Sbjct  1396  HAVGPNFSKVSEVEGDKQLAEAYESIAKIINDNNYRSVAIPLLSTGIFAGNKDRLMQSLN  1455

Query  343   SLRVCVDTVRTNVYLAVFDK  362
              L   +DT   +V +   DK
Sbjct  1456  HLLTALDTTDADVAIYCRDK  1475


>sp|B4T2X8|YMDB_SALNS O-acetyl-ADP-ribose deacetylase OS=Salmonella 
newport (strain SL254) OX=423368 GN=ymdB PE=3 SV=1
Length=179

 Score = 53.1 bits (126),  Expect = 3e-06, Method: Composition-based stats.
 Identities = 47/176 (27%), Positives = 75/176 (43%), Gaps = 25/176 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +T  + +   DI +    +    +VNAAN  L  GGGV GA+++A   A+          
Sbjct  1    MTSRLQVIQGDITQ----LSVDAIVNAANASLMGGGGVDGAIHRAAGPALLDACKLIRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G  + G + +     L AK  +H VGP    GE  + +LL+ AY N       N    +
Sbjct  57   QGECQTGHAVITPAGKLSAKAVIHTVGPVWRGGEHQEAELLEEAYRNCLLLAEANHFRSI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVS  370
              P +S G++G     +  + V TV            VY   +D+    LY +L++
Sbjct  117  AFPAISTGVYGYPRAQAAEIAVRTVSDFITRYALPEQVYFVCYDEETARLYARLLT  172


>sp|Q32E73|YMDB_SHIDS O-acetyl-ADP-ribose deacetylase OS=Shigella 
dysenteriae serotype 1 (strain Sd197) OX=300267 GN=ymdB 
PE=3 SV=1
Length=177

 Score = 52.4 bits (124),  Expect = 5e-06, Method: Composition-based stats.
 Identities = 48/172 (28%), Positives = 77/172 (45%), Gaps = 25/172 (15%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            +++   DI     K+   V+VN  N  L  GGGV GA+++A   A+           G  
Sbjct  5    IHVVQGDIT----KLAVDVIVNVTNPSLMGGGGVDGAIHRAAGPALLDACLKVRQQQGDC  60

Query  280  KVGGSCV-LSGHNLAKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVLLAPL  330
              G + + L+G   AK  +H VGP    GE  + QLL+ AY N       N +  +  P 
Sbjct  61   PTGHAVITLAGDLPAKAVVHTVGPVWRGGEQNEDQLLQDAYLNSLRLVAANSYTSVAFPA  120

Query  331  LSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDK---NLYDKLVS  370
            +S G++G     +  + V TV            VY   +D+   +LY++L++
Sbjct  121  ISTGVYGYPRAAAAEIAVKTVSEFITRHALPEQVYFVCYDEENAHLYERLLT  172


>sp|D5CE05|YMDB_ENTCC O-acetyl-ADP-ribose deacetylase OS=Enterobacter 
cloacae subsp. cloacae (strain ATCC 13047 / DSM 30054 
/ NBRC 13535 / NCTC 10005 / WDCM 00083 / NCDC 279-56) OX=716541 
GN=ymdB PE=3 SV=1
Length=180

 Score = 52.0 bits (123),  Expect = 7e-06, Method: Composition-based stats.
 Identities = 38/123 (31%), Positives = 60/123 (49%), Gaps = 9/123 (7%)

Query  238  VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCV-LSGHNLAKHC  296
            V+VNAAN  L  GGGV GA+++A    +           G    G + + L+G   AK  
Sbjct  19   VIVNAANPSLMGGGGVDGAIHRAAGPQLLEACKTVRQQQGECPPGHAVITLAGDLPAKAV  78

Query  297  LHVVGPNVNKGE--DIQLLKSAYENF------NQHEVLLAPLLSAGIFGADPIHSLRVCV  348
            +H VGP  + G+  +  +L+ AY N       N ++ +  P +S G++G     +  + V
Sbjct  79   IHAVGPIWHGGDRHEASILEEAYRNCLRLAADNGYKTMAFPAISTGVYGYPKAAAATIAV  138

Query  349  DTV  351
            DTV
Sbjct  139  DTV  141


>sp|Q8EYT0|Y4133_LEPIN Macro domain-containing protein LA_4133 
OS=Leptospira interrogans serogroup Icterohaemorrhagiae serovar 
Lai (strain 56601) OX=189518 GN=LA_4133 PE=4 SV=1
Length=175

 Score = 52.0 bits (123),  Expect = 7e-06, Method: Compositional matrix adjust.
 Identities = 52/172 (30%), Positives = 82/172 (48%), Gaps = 31/172 (18%)

Query  227  IVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCV  286
            I E+  +++   +VNAAN  L  GGGV GA+++A    +  E        G  KVG + +
Sbjct  8    IKEDITQLEVDAIVNAANSSLLGGGGVDGAIHRAGGPEILEECYKIREKQGECKVGEAVI  67

Query  287  LSGHNL-AKHCLHVVGP---NVNKGEDIQLLKSAYENFNQHEVLLA----------PLLS  332
             +   L AK  +H VGP     NK ED +LL +AY+N     +LLA          P +S
Sbjct  68   TTAGRLNAKFIIHTVGPIWSGGNKNED-ELLSNAYKN----SLLLAKNHSLKTIAFPNIS  122

Query  333  AGIFGADPIHSLRVCVDTVR---------TNVYLAVFD-KNL--YDKLVSSF  372
             GI+      + ++ + +V            V+   FD +NL  Y+KL+ ++
Sbjct  123  TGIYHFPKERAAKIAIQSVTEFLKQDNQIQTVFFVCFDFENLEIYNKLLQTY  174


>sp|Q72M93|Y3295_LEPIC Macro domain-containing protein LIC_13295 
OS=Leptospira interrogans serogroup Icterohaemorrhagiae serovar 
copenhageni (strain Fiocruz L1-130) OX=267671 GN=LIC_13295 
PE=4 SV=1
Length=175

 Score = 52.0 bits (123),  Expect = 7e-06, Method: Compositional matrix adjust.
 Identities = 52/172 (30%), Positives = 82/172 (48%), Gaps = 31/172 (18%)

Query  227  IVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCV  286
            I E+  +++   +VNAAN  L  GGGV GA+++A    +  E        G  KVG + +
Sbjct  8    IKEDITQLEVDAIVNAANSSLLGGGGVDGAIHRAGGPEILEECYKIREKQGECKVGEAVI  67

Query  287  LSGHNL-AKHCLHVVGP---NVNKGEDIQLLKSAYENFNQHEVLLA----------PLLS  332
             +   L AK  +H VGP     NK ED +LL +AY+N     +LLA          P +S
Sbjct  68   TTAGRLNAKFIIHTVGPIWSGGNKNED-ELLSNAYKN----SLLLAKNHSLKTIAFPNIS  122

Query  333  AGIFGADPIHSLRVCVDTVR---------TNVYLAVFD-KNL--YDKLVSSF  372
             GI+      + ++ + +V            V+   FD +NL  Y+KL+ ++
Sbjct  123  TGIYHFPKERAAKIAIQSVTKFLKQDNQIQTVFFVCFDFENLEIYNKLLQTY  174


>sp|B5RBF3|YMDB_SALG2 O-acetyl-ADP-ribose deacetylase OS=Salmonella 
gallinarum (strain 287/91 / NCTC 13346) OX=550538 GN=ymdB 
PE=3 SV=1
Length=179

 Score = 51.6 bits (122),  Expect = 1e-05, Method: Composition-based stats.
 Identities = 47/176 (27%), Positives = 75/176 (43%), Gaps = 25/176 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +T  + +   DI +    +    +VNAAN  L  GGGV GA+++A   A+          
Sbjct  1    MTSRLQVIQGDITQ----LSVDAIVNAANASLMGGGGVDGAIHRAAGPALLDACKLIRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G  + G + +     L AK  +H VGP    GE  + +LL+ AY +       N    +
Sbjct  57   QGECQTGHAVITPAGKLSAKAVIHTVGPVWRGGEHQEAELLEEAYRSCLLLAEANHFRSI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVS  370
              P +S G++G     +  V V TV            VY   +D+    LY +L++
Sbjct  117  AFPAISTGVYGYPRAQAAEVAVRTVSDFITRYALPEQVYFVCYDEETARLYARLLT  172


>sp|P0C6F4|R1A_BRV1 Replicase polyprotein 1a OS=Breda virus 1 
OX=360393 GN=1a PE=3 SV=1
Length=4445

 Score = 53.5 bits (127),  Expect = 3e-05, Method: Compositional matrix adjust.
 Identities = 35/106 (33%), Positives = 50/106 (47%), Gaps = 6/106 (6%)

Query  239   VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAK--HC  296
             VVN AN  LKHGGG+A  ++      +   S++YI     L V  +    G  L K    
Sbjct  1669  VVNPANNQLKHGGGIAKVISCMCGPKLTSWSNNYIKQYKKLGVTCAIRSPGFQLGKGVQI  1728

Query  297   LHVVGPNVNKGEDIQLL----KSAYENFNQHEVLLAPLLSAGIFGA  338
             +HVVGP     + +  L    +S ++N      +L  +LS GIFG 
Sbjct  1729  IHVVGPKSADSDVVNKLEASWRSVFQNVKPDTTVLTSMLSTGIFGC  1774


>sp|P0C6V8|R1AB_BRV1 Replicase polyprotein 1ab OS=Breda virus 
1 OX=360393 GN=rep PE=2 SV=1
Length=6733

 Score = 53.5 bits (127),  Expect = 3e-05, Method: Compositional matrix adjust.
 Identities = 35/106 (33%), Positives = 50/106 (47%), Gaps = 6/106 (6%)

Query  239   VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAK--HC  296
             VVN AN  LKHGGG+A  ++      +   S++YI     L V  +    G  L K    
Sbjct  1669  VVNPANNQLKHGGGIAKVISCMCGPKLTSWSNNYIKQYKKLGVTCAIRSPGFQLGKGVQI  1728

Query  297   LHVVGPNVNKGEDIQLL----KSAYENFNQHEVLLAPLLSAGIFGA  338
             +HVVGP     + +  L    +S ++N      +L  +LS GIFG 
Sbjct  1729  IHVVGPKSADSDVVNKLEASWRSVFQNVKPDTTVLTSMLSTGIFGC  1774


>sp|D2TT52|YMDB_CITRI O-acetyl-ADP-ribose deacetylase OS=Citrobacter 
rodentium (strain ICC168) OX=637910 GN=ymdB PE=3 SV=2
Length=177

 Score = 50.1 bits (118),  Expect = 3e-05, Method: Composition-based stats.
 Identities = 45/176 (26%), Positives = 76/176 (43%), Gaps = 25/176 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +   +++ + DI      V    +VNAAN  L  GGGV GA+++A    +          
Sbjct  1    MNSRIHVIHGDIT----TVAVDAIVNAANPSLMGGGGVDGAIHRAAGPELLEACMTVRRQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G    G + + +   L AK  +H VGP    GE  + QLL  AY N       N ++ +
Sbjct  57   QGECPPGHAVITAAGRLPAKAVIHTVGPIWRGGEHNEAQLLHDAYLNSLNLALANGYQSI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVS  370
              P +S G++G     +  + V+T+            +Y   +D+    LY +L++
Sbjct  117  AFPAISTGVYGYPRAAAAEIAVNTISEFITRRASPEQIYFVCYDEETTRLYQRLLT  172


>sp|Q2EMV9|PAR14_MOUSE Protein mono-ADP-ribosyltransferase PARP14 
OS=Mus musculus OX=10090 GN=Parp14 PE=1 SV=3
Length=1817

 Score = 52.8 bits (125),  Expect = 5e-05, Method: Compositional matrix adjust.
 Identities = 39/125 (31%), Positives = 59/125 (47%), Gaps = 16/125 (13%)

Query  238  VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLA-KHC  296
            VVVNAAN  LKH  G+A AL+KA    +Q E D  +   G +  G + +     L   H 
Sbjct  829  VVVNAANENLKHISGLAQALSKAAGPELQTECDQIVKEGGVVLPGNAVISKAGKLPCHHV  888

Query  297  LHVVGPNVNKGEDI--------QLLKSAYENFNQHEV--LLAPLLSAGIFGADPIHSLRV  346
            +H VGP   KG+ +        ++++ +     +H    +  P +SAGIF       L +
Sbjct  889  IHAVGPRW-KGDKVLECVSLLKKVVRQSLSLAEEHRCRSIAMPAVSAGIFD----FPLEL  943

Query  347  CVDTV  351
            CV  +
Sbjct  944  CVANI  948


>sp|Q8Q0F9|Y177_METMA Macro domain-containing protein MM_0177 
OS=Methanosarcina mazei (strain ATCC BAA-159 / DSM 3647 / Goe1 
/ Go1 / JCM 11833 / OCM 88) OX=192952 GN=MM_0177 PE=4 SV=1
Length=187

 Score = 49.3 bits (116),  Expect = 6e-05, Method: Compositional matrix adjust.
 Identities = 51/165 (31%), Positives = 76/165 (46%), Gaps = 28/165 (17%)

Query  218  DNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNG  277
            D + I   DIV    K++   +VNAAN  L  GGGV GA+++A   A+  E       NG
Sbjct  19   DRIRIFEGDIV----KMRVDAIVNAANNTLLGGGGVDGAIHRAAGPALLEECK---TLNG  71

Query  278  PLKVGGSCVLSGHNL-AKHCLHVVGP---NVNKGEDIQLLKSAYENFNQH------EVLL  327
                G + + SG+ L AK+ +H VGP      KGED +LL S Y    +       + + 
Sbjct  72   -CPTGEAKITSGYLLPAKYIIHTVGPVWQGGEKGED-ELLASCYRKSLELARDYKIKTIA  129

Query  328  APLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN  363
             P +S G +G     +  + V  V+           VYL  ++K+
Sbjct  130  FPAISTGAYGFPSERAAGIAVSQVKEFLQKNEIPETVYLVCYNKD  174


>sp|Q8RHQ2|Y1951_FUSNN Uncharacterized protein FN1951 OS=Fusobacterium 
nucleatum subsp. nucleatum (strain ATCC 25586 / DSM 
15643 / BCRC 10681 / CIP 101130 / JCM 8532 / KCTC 2640 / LMG 
13131 / VPI 4355) OX=190304 GN=FN1951 PE=4 SV=1
Length=175

 Score = 48.1 bits (113),  Expect = 1e-04, Method: Composition-based stats.
 Identities = 31/82 (38%), Positives = 45/82 (55%), Gaps = 7/82 (9%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLA-KHCL  297
            +VNAAN  L+ GGGV GA+ KA  + +  E  +     G    G + +  G+NL  K+ +
Sbjct  22   IVNAANSSLEMGGGVCGAIFKAAGSELAQECKEI----GGCNTGEAVITKGYNLPNKYII  77

Query  298  HVVGPNVNKGE--DIQLLKSAY  317
            H VGP  + GE  + + L SAY
Sbjct  78   HTVGPRYSTGENREAERLASAY  99


>sp|Q8IXQ6|PARP9_HUMAN Protein mono-ADP-ribosyltransferase PARP9 
OS=Homo sapiens OX=9606 GN=PARP9 PE=1 SV=2
Length=854

 Score = 51.2 bits (121),  Expect = 1e-04, Method: Compositional matrix adjust.
 Identities = 44/142 (31%), Positives = 65/142 (46%), Gaps = 16/142 (11%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCL  297
            VVNAAN  L HGGG+A AL KA    +Q ES  ++A  G +  G   V     L  K  +
Sbjct  135  VVNAANEDLLHGGGLALALVKAGGFEIQEESKQFVARYGKVSAGEIAVTGAGRLPCKQII  194

Query  298  HVVGPNVNKGE------DIQLLKSAYENF----NQH-EVLLAPLLSAGIFGADPIHSLRV  346
            H VGP   + +       +Q    +  N+    N H + +  P LS+GIF       L +
Sbjct  195  HAVGPRWMEWDKQGCTGKLQRAIVSILNYVIYKNTHIKTVAIPALSSGIFQ----FPLNL  250

Query  347  CVDTVRTNVYLAVFDKNLYDKL  368
            C  T+   + +++  K +   L
Sbjct  251  CTKTIVETIRVSLQGKPMMSNL  272


>sp|Q87JZ5|Y4103_VIBPA Macro domain-containing protein VPA0103 
OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633) 
OX=223926 GN=VPA0103 PE=4 SV=1
Length=170

 Score = 47.8 bits (112),  Expect = 2e-04, Method: Composition-based stats.
 Identities = 41/138 (30%), Positives = 65/138 (47%), Gaps = 14/138 (10%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQ---VESDDYIATNGPLKVGGSCVLSGHNL-AK  294
            +VNAAN  +  GGGV GA+++A   A+       DD      P   G + +    NL A+
Sbjct  19   IVNAANPRMLGGGGVDGAIHRAAGPALINACYAVDDVDGIRCPF--GDARITEAGNLNAR  76

Query  295  HCLHVVGPNVNKGEDIQ-LLKSAYEN------FNQHEVLLAPLLSAGIFGADPIHSLRVC  347
            + +H VGP  +K  D + +L+SAY+        N  + +  P +S G++G  P  +  V 
Sbjct  77   YVIHAVGPIYDKFADPKTVLESAYQRSLDLALANHCQSVALPAISCGVYGYPPQEAAEVA  136

Query  348  VDTVRTNVYLAVFDKNLY  365
            +   +   Y A  D   Y
Sbjct  137  MAVCQRPEY-AALDMRFY  153


>sp|Q8BCR0|POLN_RUBVN Non-structural polyprotein p200 OS=Rubella 
virus (strain RN-UK86) OX=376267 PE=3 SV=1
Length=2116

 Score = 50.8 bits (120),  Expect = 2e-04, Method: Compositional matrix adjust.
 Identities = 43/154 (28%), Positives = 62/154 (40%), Gaps = 18/154 (12%)

Query  213  YLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDY  272
            Y +    V+++  DI++     K  VVVNAAN  L  G GV GA+      A+  +    
Sbjct  812  YARAAGPVHLRVRDIMDPPPGCK--VVVNAANEGLLAGSGVCGAIFANATAALAADCRRL  869

Query  273  IATNGPLKVGGSCVLSGHNLA-KHCLHVVGPNVNKG-----EDIQLLKSAYENF------  320
                 P   G +    GH     H +H V P   +      E   LL+ AY +       
Sbjct  870  ----APCPTGEAVATPGHGCGYTHIIHAVAPRRPRDPAALEEGEALLERAYRSIVALAAA  925

Query  321  NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTN  354
             +   +  PLL AG++G     SLR  +   RT 
Sbjct  926  RRWACVACPLLGAGVYGWSAAESLRAALAATRTE  959


>sp|Q8TQD0|Y1614_METAC Macro domain-containing protein MA_1614 
OS=Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 
/ JCM 12185 / C2A) OX=188937 GN=MA_1614 PE=4 SV=1
Length=195

 Score = 48.1 bits (113),  Expect = 2e-04, Method: Compositional matrix adjust.
 Identities = 51/166 (31%), Positives = 78/166 (47%), Gaps = 22/166 (13%)

Query  200  PVVQTIEVNSFSGYLKLTDN---VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGA  256
            P  + ++ NS    L ++ N   + I   DI E    +K   +VNAAN  L  GGGV GA
Sbjct  6    PYKKELKRNSRKRSLNMSQNSERIRIIERDITE----LKVDAIVNAANNTLLGGGGVDGA  61

Query  257  LNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGP---NVNKGEDIQL  312
            +++A    +  E       NG    G + +  G+ L AK+ +H VGP      KGED + 
Sbjct  62   IHRAAGPGLLEECR---TLNG-CPTGEAKITKGYLLPAKYVIHTVGPIWQEGTKGED-EF  116

Query  313  LKSAY----ENFNQHEV--LLAPLLSAGIFGADPIHSLRVCVDTVR  352
            L S Y    E   +++V  +  P +S G +G     + R+ V  V+
Sbjct  117  LASCYRKSLELARKYDVKTIAFPTISTGAYGFPSERAARIAVSQVK  162


>sp|Q8RB30|Y995_CALS4 Macro domain-containing protein TTE0995 
OS=Caldanaerobacter subterraneus subsp. tengcongensis (strain 
DSM 15242 / JCM 11007 / NBRC 100824 / MB4) OX=273068 GN=TTE0995 
PE=4 SV=1
Length=175

 Score = 47.4 bits (111),  Expect = 2e-04, Method: Composition-based stats.
 Identities = 47/154 (31%), Positives = 67/154 (44%), Gaps = 31/154 (20%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCL  297
            +VNAAN  L  GGGV GA++KA   A+  E        G    G + +    NL AK+ +
Sbjct  20   IVNAANSSLIGGGGVDGAIHKAGGPAIAEELKVIREKQGGCPTGHAVITGAGNLKAKYVI  79

Query  298  HVVGP---NVNKGEDIQLLKSAY-------ENFNQHEVLLAPLLSAGIFGADPIHSLRVC  347
            H VGP     N  ED  LL SAY       + +N   +   P +S G +G     + R+ 
Sbjct  80   HAVGPIWKGGNHNED-NLLASAYIESLKLADEYNVKTIAF-PSISTGAYGFPVERAARIA  137

Query  348  VDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQV  381
            +                  ++VS +LE  S K+V
Sbjct  138  L------------------RVVSDYLEGSSIKEV  153


>sp|E1PL40|YMDB2_PANVC O-acetyl-ADP-ribose deacetylase 2 OS=Pantoea 
vagans (strain C9-1) OX=712898 GN=ymdB2 PE=3 SV=1
Length=171

 Score = 47.4 bits (111),  Expect = 2e-04, Method: Compositional matrix adjust.
 Identities = 44/146 (30%), Positives = 66/146 (45%), Gaps = 18/146 (12%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCL  297
            ++N AN  L  GGGV GA+++A    +  E     +  G  KVG + +     L A + +
Sbjct  19   IINVANSSLLGGGGVDGAIHRAGGPVILAECQAIRSRQGGCKVGEAVITGAGTLPADYVI  78

Query  298  HVVGPNVNKG---EDIQLLK---SAYENFNQHEV--LLAPLLSAGIFG-------ADPIH  342
            H VGP  + G   ED QL     S ++    H +  +  P +S GI+G       A  + 
Sbjct  79   HTVGPRWSDGRHNEDTQLKSVYLSCFKLVGHHGIKTVSFPNISTGIYGFPKKRAAAIALD  138

Query  343  SLRVCVDTVRT--NVYLAVFDKNLYD  366
             ++ C+   RT   V L  FD   YD
Sbjct  139  VIKHCIAENRTIEKVNLVCFDAENYD  164


>sp|P13889|POLN_RUBVT Non-structural polyprotein p200 OS=Rubella 
virus (strain Therien) OX=11045 PE=3 SV=5
Length=2116

 Score = 49.7 bits (117),  Expect = 4e-04, Method: Compositional matrix adjust.
 Identities = 43/154 (28%), Positives = 61/154 (40%), Gaps = 18/154 (12%)

Query  213  YLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDY  272
            Y +    V+++  DI++     K  VVVNAAN  L  G GV GA+      A+       
Sbjct  812  YARAAGPVHLRVRDIMDPPPGCK--VVVNAANEGLLAGSGVCGAIFANATAALAANCRRL  869

Query  273  IATNGPLKVGGSCVLSGHNLA-KHCLHVVGPNVNKG-----EDIQLLKSAYENF------  320
                 P   G +    GH     H +H V P   +      E   LL+ AY +       
Sbjct  870  ----APCPTGEAVATPGHGCGYTHIIHAVAPRRPRDPAALEEGEALLERAYRSIVALAAA  925

Query  321  NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTN  354
             +   +  PLL AG++G     SLR  +   RT 
Sbjct  926  RRWACVACPLLGAGVYGWSAAESLRAALAATRTE  959


>sp|Q8Y2K1|Y334_RALN1 Macro domain-containing protein RSc0334 
OS=Ralstonia nicotianae (strain GMI1000) OX=267608 GN=RSc0334 
PE=4 SV=1
Length=171

 Score = 46.2 bits (108),  Expect = 6e-04, Method: Composition-based stats.
 Identities = 40/123 (33%), Positives = 63/123 (51%), Gaps = 13/123 (11%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCL  297
            +VNAAN  L  GGGV GA+++A    +    +   A +G  + G + +  G  L A++ +
Sbjct  23   IVNAANSALLGGGGVDGAIHRAAGPELL---EACRALHG-CRTGQAKITPGFLLPARYII  78

Query  298  HVVGPNVNKG--EDIQLLKSAYEN----FNQHEV--LLAPLLSAGIFGADPIHSLRVCVD  349
            H VGP    G  ++  LL + Y N      QH+V  +  P +S G++G  P  +  + V 
Sbjct  79   HTVGPIWRGGRQDEAALLAACYRNSLALAKQHDVRTIAFPCISTGVYGFPPQLAAPIAVR  138

Query  350  TVR  352
            TVR
Sbjct  139  TVR  141


>sp|O40955|POLN_RUBVR Non-structural polyprotein p200 OS=Rubella 
virus (strain RA27/3 vaccine) OX=11044 PE=1 SV=1
Length=2116

 Score = 48.5 bits (114),  Expect = 7e-04, Method: Compositional matrix adjust.
 Identities = 43/154 (28%), Positives = 60/154 (39%), Gaps = 18/154 (12%)

Query  213  YLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDY  272
            Y +    V+++  DI++     K  VVVNAAN  L  G GV GA+      A+  +    
Sbjct  812  YARAAGPVHLRVRDIMDPPPGCK--VVVNAANEGLLAGSGVCGAIFANATAALAADCRRL  869

Query  273  IATNGPLKVGGSCVLSGHNLA-KHCLHVVGPNVNKG-----EDIQLLKSAYENFNQHEVL  326
                 P   G +    GH     H +H V P   +      E   LL+ AY +       
Sbjct  870  ----APCPTGEAVATPGHGCGYTHIIHAVAPRRPRDPAALEEGEALLERAYRSIVALAAA  925

Query  327  LA------PLLSAGIFGADPIHSLRVCVDTVRTN  354
                    PLL AG++G     SLR  +   RT 
Sbjct  926  RRWARVACPLLGAGVYGWSAAESLRAALAATRTE  959


>sp|Q9EYI6|Y189_STRNO Macro domain-containing protein in sno 5'region 
OS=Streptomyces nogalater OX=38314 PE=4 SV=1
Length=181

 Score = 45.4 bits (106),  Expect = 0.001, Method: Composition-based stats.
 Identities = 47/144 (33%), Positives = 67/144 (47%), Gaps = 16/144 (11%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT--NGPLKVGGSCVLSGHNL-AKH  295
            +VNAAN  L  GGGV GA+++    A+  E     A+     L  G +   +  +L A+ 
Sbjct  19   LVNAANSSLLGGGGVDGAIHRRGGPAILAECRALRASRYGEGLPTGRAVATTAGDLDARW  78

Query  296  CLHVVGPNVNKGED-IQLLKSAY-ENFNQHEVLLA-----PLLSAGIFGADPIHSLRVCV  348
             +H VGP  +  ED   LL S Y E+      L A     P LS G++      + R+ V
Sbjct  79   VIHTVGPVWSSTEDRSDLLASCYRESLRLAGELGARTVAFPALSTGVYRWPMGDAARIAV  138

Query  349  DTVRTN------VYLAVFDKNLYD  366
            +TVRT       V   +FD + YD
Sbjct  139  ETVRTTPTAVEEVRFVLFDTHAYD  162


>sp|Q93SX7|Y189_ACISE Macro domain-containing protein OS=Acinetobacter 
sp. (strain ED45-25) OX=194927 PE=4 SV=1
Length=183

 Score = 45.1 bits (105),  Expect = 0.002, Method: Compositional matrix adjust.
 Identities = 44/140 (31%), Positives = 61/140 (44%), Gaps = 21/140 (15%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            V++  ADI   A       +VN+AN  L  GGG+   ++K     M+ E        G  
Sbjct  4    VHLIQADITAFAVHA----IVNSANKSLLGGGGLDYVIHKKAGPLMKEECVRLNQEKGGC  59

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYENFNQHEVLLAPLLSAGIF  336
              G + V +  NL AK+ +H VGP    GE  + QLL  AY N               +F
Sbjct  60   PTGQAEVTTAGNLPAKYLIHAVGPRWLDGEHNEPQLLCDAYSN--------------ALF  105

Query  337  GADPIHSLRVCVDTVRTNVY  356
             A+ IH+L V    + T VY
Sbjct  106  KANEIHALTVSFPCISTGVY  125


>sp|Q97AU0|Y719_THEVO Uncharacterized protein TV0719 OS=Thermoplasma 
volcanium (strain ATCC 51530 / DSM 4299 / JCM 9571 / 
NBRC 15438 / GSS1) OX=273116 GN=TV0719 PE=4 SV=1
Length=186

 Score = 45.1 bits (105),  Expect = 0.002, Method: Compositional matrix adjust.
 Identities = 39/110 (35%), Positives = 57/110 (52%), Gaps = 12/110 (11%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGP--LKVGGSCVLSGHNL-AKH  295
            +VNAAN  L  GGGV GA++      + +E  +   T  P  L  G + + SG  L AK+
Sbjct  26   IVNAANPSLMGGGGVDGAIHLKGGKTIDLECAELRRTKWPKGLPPGEADITSGGKLKAKY  85

Query  296  CLHVVGPNVNKG--EDIQLLKSAY----ENFNQHEV--LLAPLLSAGIFG  337
             +H VGP + +G  ED + L S+Y    E    H +  +  P +S GI+G
Sbjct  86   VIHTVGP-IYRGQEEDAETLYSSYYRSLEIAKIHGIKCIAFPAISTGIYG  134


>sp|Q8KAE4|Y2219_CHLTE Macro domain-containing protein CT2219 
OS=Chlorobaculum tepidum (strain ATCC 49652 / DSM 12025 / NBRC 
103806 / TLS) OX=194439 GN=CT2219 PE=4 SV=1
Length=172

 Score = 44.7 bits (104),  Expect = 0.002, Method: Composition-based stats.
 Identities = 45/148 (30%), Positives = 66/148 (45%), Gaps = 19/148 (13%)

Query  216  LTDNVYIK--NADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYI  273
            + DNV I    ADI      +    +VNAAN  L  GGGV GA+++A    +     +  
Sbjct  1    MPDNVLIHAIKADITS----LTVDAIVNAANTSLLGGGGVDGAIHRAAGPKLLEACREL-  55

Query  274  ATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN-----FNQHEV  325
               G    G + +  G+ L A   +H VGP  + G   + +LL S Y N        H  
Sbjct  56   ---GGCLTGEAKITKGYRLPATFVIHTVGPVWHGGNHGEAELLASCYRNSLKLAIEHHCR  112

Query  326  LLA-PLLSAGIFGADPIHSLRVCVDTVR  352
             +A P +S GI+G     +  + + TVR
Sbjct  113  TIAFPSISTGIYGYPVEQAAAIAITTVR  140


>sp|Q985D2|Y7730_RHILO Macro domain-containing protein mll7730 
OS=Mesorhizobium japonicum (strain LMG 29417 / CECT 9101 / 
MAFF 303099) OX=266835 GN=mll7730 PE=4 SV=1
Length=176

 Score = 44.7 bits (104),  Expect = 0.002, Method: Composition-based stats.
 Identities = 48/147 (33%), Positives = 69/147 (47%), Gaps = 19/147 (13%)

Query  215  KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
            K  D + I   DI     K+    +VNAAN  L  GGGV GA+++A    ++VE      
Sbjct  3    KALDRIRIHTGDIT----KLDVDAIVNAANTLLLGGGGVDGAIHRAAGRELEVECR---M  55

Query  275  TNGPLKVGGSCVLSGHNL-AKHCLHVVGP---NVNKGEDIQLLKSAYEN------FNQHE  324
             NG  KVG + +  G+ L A+H +H VGP      KGE  +LL S Y +       N   
Sbjct  56   LNG-CKVGDAKITKGYKLPARHIIHTVGPVWQGGGKGE-AELLASCYRSSLELAAANDCR  113

Query  325  VLLAPLLSAGIFGADPIHSLRVCVDTV  351
             +  P +S G++      +  + V TV
Sbjct  114  SVAFPAISTGVYRYPKDEATGIAVGTV  140


>sp|Q88SK6|Y3408_LACPL Macro domain-containing protein lp_3408 
OS=Lactiplantibacillus plantarum (strain ATCC BAA-793 / NCIMB 
8826 / WCFS1) OX=220668 GN=lp_3408 PE=4 SV=1
Length=172

 Score = 43.9 bits (102),  Expect = 0.003, Method: Composition-based stats.
 Identities = 36/116 (31%), Positives = 57/116 (49%), Gaps = 19/116 (16%)

Query  233  KVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL---KVGGSCVLSG  289
            K+    +VNAAN  L  GGGV GA+++A   A+       +A   PL     G + +  G
Sbjct  13   KMTVDAIVNAANTSLLGGGGVDGAIHRAAGPAL-------LAACRPLHGCATGEAKITPG  65

Query  290  HNL-AKHCLHVVGPNVNKGE--DIQLLKSAYENF------NQHEVLLAPLLSAGIF  336
              L AK+ +H  GP    G+  ++QLL ++Y N       N  + +  P +S G++
Sbjct  66   FRLPAKYVIHTPGPVWQGGQHNELQLLANSYRNSLNLAAENHCQTVAFPSISTGVY  121


>sp|O59182|Y1513_PYRHO Uncharacterized protein PH1513 OS=Pyrococcus 
horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 
/ NBRC 100139 / OT-3) OX=70601 GN=PH1513 PE=4 SV=1
Length=190

 Score = 43.5 bits (101),  Expect = 0.006, Method: Composition-based stats.
 Identities = 45/165 (27%), Positives = 75/165 (45%), Gaps = 35/165 (21%)

Query  233  KVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQ------------------VESDDYIA  274
            K +   +VNAAN YL+HGGGVA A+ KA +  +                   +E  + + 
Sbjct  14   KFRAEAIVNAANKYLEHGGGVAYAIAKAASGDVSEYTRISKEEMRRQLGKDWIEHGEVVV  73

Query  275  TNGPLKVGGSCVLSGHNLAKHCLHVVGP------NVNKGEDIQL-LKSAYENFNQHEV--  325
            T  P+K+         N  K+ +H VGP      + +K E ++L +  A +  ++  V  
Sbjct  74   TP-PMKL-------KENGVKYVIHTVGPYCGGVWSKDKEEKLKLAILGALKKADELGVKS  125

Query  326  LLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVS  370
            +  P +SAGI+G      +R   + V+  + +A   K +Y  L S
Sbjct  126  IAFPAISAGIYGCPLKEVVRTFKEVVKEFLKVANHVKEVYLVLYS  170


>sp|P27283|POLN_SINDO Polyprotein P1234 OS=Sindbis virus subtype 
Ockelbo (strain Edsbyn 82-5) OX=31699 PE=3 SV=2
Length=2515

 Score = 45.4 bits (106),  Expect = 0.007, Method: Compositional matrix adjust.
 Identities = 47/167 (28%), Positives = 75/167 (45%), Gaps = 34/167 (20%)

Query  225   ADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGS  284
             AD  EEA       VVNAAN   + G GV  A+ K   N+          T+   + G +
Sbjct  1359  ADCQEEA-------VVNAANPLGRPGEGVCRAIYKRWPNSF---------TDSATETGTA  1402

Query  285   CVLSGHNLAKHCLHVVGPNVNK---GEDIQLLKSAYEN----FNQHEV--LLAPLLSAGI  335
              +   H   K  +H VGP+  K    E ++LL++AY       N+H +  +  PLLS GI
Sbjct  1403  KLTVCH--GKKVIHAVGPDFRKHPEAEALKLLQNAYHAVADLVNEHNIKSVAIPLLSTGI  1460

Query  336   FGAD------PIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMK  376
             + A        ++ L   +D    +V +   DK   ++ + + L++K
Sbjct  1461  YAAGKDRLEVSLNCLTTALDRTDADVTIYCLDKKWKER-IDAVLQLK  1506


>sp|Q9V0Y3|Y656_PYRAB Uncharacterized protein PYRAB06560 OS=Pyrococcus 
abyssi (strain GE5 / Orsay) OX=272844 GN=PYRAB06560 
PE=4 SV=2
Length=183

 Score = 43.1 bits (100),  Expect = 0.007, Method: Composition-based stats.
 Identities = 44/162 (27%), Positives = 81/162 (50%), Gaps = 28/162 (17%)

Query  233  KVKPTVVVNAANVYLKHGGGVAGALNKA----TNNAMQVESDDYIATNGP--LKVGGSCV  286
            + K   +VNAAN YL+HGGGVA A+ KA     +  +++  ++     G   ++ G   V
Sbjct  11   RFKAEAIVNAANKYLEHGGGVAYAIAKAASGDVSEYIRISKEEMRKQIGRDWIEHGEVVV  70

Query  287  LSGHNLA----KHCLHVVGP------NVNKGEDIQL-LKSAYENFNQHEV--LLAPLLSA  333
                NLA    K+ +H VGP      + +K + ++L +  A +  ++  V  +  P +SA
Sbjct  71   TPPLNLAKNGVKYVIHTVGPYCGGKWDEDKRKKLELAILGALKKADELGVRSIAFPAISA  130

Query  334  GIFGA---DPIHSLRVCVDTVR------TNVYLAVFDKNLYD  366
            GI+G    + + + ++ V+         T+VYL ++ +  Y+
Sbjct  131  GIYGCPLEEVVKTFKLVVNEFLKSAKNVTDVYLVLYSERDYE  172


>sp|Q99IE7|POLN_RUBVO Non-structural polyprotein p200 OS=Rubella 
virus (strain TO-336 vaccine) OX=376265 PE=3 SV=1
Length=2116

 Score = 45.4 bits (106),  Expect = 0.007, Method: Compositional matrix adjust.
 Identities = 40/151 (26%), Positives = 60/151 (40%), Gaps = 18/151 (12%)

Query  199  TPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALN  258
            TP     + +    Y +    V+++  DI++     K  VVVNAAN  L  G GV GA+ 
Sbjct  798  TPTKADPDSDIVESYARAAGPVHLRVRDIMDPPPGCK--VVVNAANEGLLAGSGVCGAIF  855

Query  259  KATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLA-KHCLHVVGPNVNKG-----EDIQL  312
                 A+  +         P   G +    GH     H +H V P   +      E   L
Sbjct  856  ANATAALAADCRRL----APCPTGEAVATPGHGCGYTHIIHAVAPRRPRDPAALEEGEAL  911

Query  313  LKSAYENF------NQHEVLLAPLLSAGIFG  337
            L+ AY +        +   +  PLL AG++G
Sbjct  912  LERAYRSIVALAAARRWACVACPLLGAGVYG  942


>sp|Q99IE5|POLN_RUBVV Non-structural polyprotein p200 OS=Rubella 
virus (strain TO-336) OX=376264 PE=3 SV=1
Length=2116

 Score = 45.4 bits (106),  Expect = 0.007, Method: Compositional matrix adjust.
 Identities = 40/151 (26%), Positives = 60/151 (40%), Gaps = 18/151 (12%)

Query  199  TPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALN  258
            TP     + +    Y +    V+++  DI++     K  VVVNAAN  L  G GV GA+ 
Sbjct  798  TPTKADPDSDIVESYARAAGPVHLRVRDIMDPPPGCK--VVVNAANEGLLAGSGVCGAIF  855

Query  259  KATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLA-KHCLHVVGPNVNKG-----EDIQL  312
                 A+  +         P   G +    GH     H +H V P   +      E   L
Sbjct  856  ANATAALAADCRRL----APCPTGEAVATPGHGCGYTHIIHAVAPRRPRDPAALEEGEAL  911

Query  313  LKSAYENF------NQHEVLLAPLLSAGIFG  337
            L+ AY +        +   +  PLL AG++G
Sbjct  912  LERAYRSIVALAAARRWACVACPLLGAGVYG  942


>sp|Q8P5Z8|Y3184_XANCP Macro domain-containing protein XCC3184 
OS=Xanthomonas campestris pv. campestris (strain ATCC 33913 
/ DSM 3586 / NCPPB 528 / LMG 568 / P 25) OX=190485 GN=XCC3184 
PE=4 SV=1
Length=179

 Score = 42.7 bits (99),  Expect = 0.008, Method: Composition-based stats.
 Identities = 38/127 (30%), Positives = 59/127 (46%), Gaps = 13/127 (10%)

Query  238  VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGP---LKVGGSCVLSGHNL-A  293
            V+VNAAN  L  GGGV GA+++A    + +E+ + +    P      G   +  G +L A
Sbjct  17   VIVNAANESLLGGGGVDGAIHRAAGPRL-LEACEALPEVRPGVRCPTGEIRITDGFDLKA  75

Query  294  KHCLHVVGPNVNKG---EDIQLLKSAYENFNQHEVLLA-----PLLSAGIFGADPIHSLR  345
            +H  H VGP    G   E  QL    +++    E ++      P +S GI+G     + R
Sbjct  76   RHIFHTVGPVWRDGKHNEPEQLANCYWQSLKLAEQMMLHSIAFPAISCGIYGYPLYQAAR  135

Query  346  VCVDTVR  352
            + V   R
Sbjct  136  IAVTETR  142


>sp|Q8PHB6|Y3343_XANAC Macro domain-containing protein XAC3343 
OS=Xanthomonas axonopodis pv. citri (strain 306) OX=190486 
GN=XAC3343 PE=4 SV=2
Length=179

 Score = 42.7 bits (99),  Expect = 0.009, Method: Composition-based stats.
 Identities = 40/128 (31%), Positives = 62/128 (48%), Gaps = 15/128 (12%)

Query  238  VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGP---LKVGGSCVLSGHNL-A  293
            V+VNAAN  L  GGGV GA+++A    + +E+ + +    P      G   +  G +L A
Sbjct  17   VIVNAANESLLGGGGVDGAIHRAAGPRL-LEACEALPQVRPGVRCPTGEIRITDGFDLKA  75

Query  294  KHCLHVVGPNVNKG---EDIQLLKSAYENFNQHEVLLA-----PLLSAGIFGADPIH-SL  344
            +H  H VGP    G   E  QL    +++    E ++      P +S GI+G  P+H + 
Sbjct  76   RHIFHTVGPVWRDGRHNEPEQLANCYWQSLKLAEQMMLHSIAFPAISCGIYGY-PLHQAA  134

Query  345  RVCVDTVR  352
            R+ V   R
Sbjct  135  RIAVTETR  142


>sp|Q6X2U2|POLN_RUBVC Non-structural polyprotein p200 OS=Rubella 
virus (strain BRDII) OX=376263 PE=3 SV=1
Length=2116

 Score = 45.1 bits (105),  Expect = 0.009, Method: Compositional matrix adjust.
 Identities = 44/165 (27%), Positives = 69/165 (42%), Gaps = 22/165 (13%)

Query  189  EVQPQLEME----LTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAAN  244
            + +P++  E     TP     + +    Y +    V+++  +I++     K  VVVNAAN
Sbjct  784  DAEPEVACEPGGPATPARADPDSDIVESYARAAGPVHLRVRNIMDPPPGCK--VVVNAAN  841

Query  245  VYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLA-KHCLHVVGPN  303
              L  G GV GA+  A+  A   E    +A   P   G +    GH     H +H V P 
Sbjct  842  EGLLAGSGVCGAIF-ASAAASLAEDCRRLA---PCPTGEAVATPGHGCGYAHIIHAVAPR  897

Query  304  VNKG-----EDIQLLKSAYENF------NQHEVLLAPLLSAGIFG  337
              +      +   LL+ AY +        +   +  PLL AGI+G
Sbjct  898  RPQDPAALEQSEALLERAYRSIVALAAARRWTCVACPLLGAGIYG  942


>sp|Q6X2U4|POLN_RUBVB Non-structural polyprotein p200 OS=Rubella 
virus (strain BRD1) OX=376262 PE=3 SV=1
Length=2116

 Score = 45.1 bits (105),  Expect = 0.010, Method: Compositional matrix adjust.
 Identities = 44/165 (27%), Positives = 69/165 (42%), Gaps = 22/165 (13%)

Query  189  EVQPQLEME----LTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAAN  244
            + +P++  E     TP     + +    Y +    V+++  +I++     K  VVVNAAN
Sbjct  784  DAEPEVACEPGGPATPTRADPDSDIVESYARAAGPVHLRVRNIMDPPPGCK--VVVNAAN  841

Query  245  VYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLA-KHCLHVVGPN  303
              L  G GV GA+  A+  A   E    +A   P   G +    GH     H +H V P 
Sbjct  842  EGLLAGSGVCGAIF-ASAAATLAEDCRRLA---PCPTGEAVATPGHGCGYTHIIHAVAPR  897

Query  304  VNKG-----EDIQLLKSAYENF------NQHEVLLAPLLSAGIFG  337
              +      +   LL+ AY +        +   +  PLL AGI+G
Sbjct  898  RPQDPAALEQSEALLERAYRSVVALAAARRWACVACPLLGAGIYG  942


>sp|Q9HJ67|Y1105_THEAC Uncharacterized protein Ta1105 OS=Thermoplasma 
acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 
/ NBRC 15155 / AMRC-C165) OX=273075 GN=Ta1105 PE=4 SV=2
Length=196

 Score = 42.7 bits (99),  Expect = 0.011, Method: Composition-based stats.
 Identities = 40/128 (31%), Positives = 59/128 (46%), Gaps = 19/128 (15%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAM-----QVESDDYIATNGPLKVGGSCVLSGHNL-  292
            +VNAAN  L  GGGV GA++ A    +     ++  + Y   NG L  G + +  G+ L 
Sbjct  26   IVNAANSSLMGGGGVDGAIHSAAGPELNGELVKIRRERY--PNG-LPPGEAVITRGYRLK  82

Query  293  AKHCLHVVGP---NVNKGEDIQLLKS------AYENFNQHEVLLAPLLSAGIFGADPIHS  343
            A H +H VGP       GED  L +S          F  H++   P LS G +G     +
Sbjct  83   ASHIIHTVGPVWMGGRNGEDDVLYRSYRSCLDLAREFGIHDIAF-PALSTGAYGFPFDRA  141

Query  344  LRVCVDTV  351
             R+ + +V
Sbjct  142  ERIAIRSV  149


>sp|Q6PAV8|MACD2_XENLA ADP-ribose glycohydrolase MACROD2 OS=Xenopus 
laevis OX=8355 GN=macrod2 PE=2 SV=1
Length=418

 Score = 43.5 bits (101),  Expect = 0.020, Method: Compositional matrix adjust.
 Identities = 37/126 (29%), Positives = 60/126 (48%), Gaps = 16/126 (13%)

Query  238  VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHC  296
             +VNAAN  L  GGGV G +++A+  ++  E  +     G  + G + +  G+ L AK+ 
Sbjct  84   AIVNAANTSLLGGGGVDGCIHRASGPSLLAECREL----GGCETGQAKITCGYELPAKYV  139

Query  297  LHVVGPNVNKGE----DIQLLKSAYENF------NQHEVLLAPLLSAGIFGADPIHSLRV  346
            +H VGP + +G       Q L S Y +       N    +  P +S GI+G     +  V
Sbjct  140  IHTVGP-IARGHITPNHKQDLASCYNSSLTLATENDIRTIAFPCISTGIYGYPNEPAANV  198

Query  347  CVDTVR  352
             + TV+
Sbjct  199  ALTTVK  204


>sp|Q9J6K9|POLN_RUBVD Non-structural polyprotein p200 OS=Rubella 
virus (strain Cendehill) OX=376266 PE=3 SV=2
Length=2116

 Score = 43.9 bits (102),  Expect = 0.021, Method: Compositional matrix adjust.
 Identities = 38/137 (28%), Positives = 56/137 (41%), Gaps = 18/137 (13%)

Query  213  YLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDY  272
            Y +    V+++  DI++     K  VVVNAAN  L  G GV GA+      A+  +    
Sbjct  812  YARAAGPVHLRVRDIMDPPPGCK--VVVNAANEGLLAGSGVCGAIFANATAALAADCRRL  869

Query  273  IATNGPLKVGGSCVLSGHNLA-KHCLHVVGPNVNKG-----EDIQLLKSAYENF------  320
                 P   G +    GH     H +H V P   +      E   LL+ AY +       
Sbjct  870  ----APCPTGEAVATPGHGCGYTHIIHAVAPRRPRDPAALEEGEALLERAYRSIVALAAA  925

Query  321  NQHEVLLAPLLSAGIFG  337
             +   +  PLL AG++G
Sbjct  926  RRWAYVACPLLGAGVYG  942


>sp|Q86500|POLN_RUBVM Non-structural polyprotein p200 OS=Rubella 
virus (strain M33) OX=11043 PE=1 SV=2
Length=2116

 Score = 43.9 bits (102),  Expect = 0.022, Method: Compositional matrix adjust.
 Identities = 38/137 (28%), Positives = 55/137 (40%), Gaps = 18/137 (13%)

Query  213  YLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDY  272
            Y +    V+++  DI++     K  VVVNAAN  L  G GV GA+      A+  +    
Sbjct  812  YARAAGPVHLRVRDIMDPPPGCK--VVVNAANEGLLAGSGVCGAIFANATAALAADCRRL  869

Query  273  IATNGPLKVGGSCVLSGHNLA-KHCLHVVGPNVNKG-----EDIQLLKSAYENFNQHEVL  326
                 P  +G +    GH     H +H V P   +      E   LL+ AY +       
Sbjct  870  ----APCPIGEAVATPGHGCGYTHIIHAVAPRRPRDPAALEEGEALLERAYRSIVALAAA  925

Query  327  LA------PLLSAGIFG  337
                    PLL AG++G
Sbjct  926  RRWARVACPLLGAGVYG  942


>sp|Q7MTZ7|MACRO_PORGI Macro domain-containing protein PG1779 
OS=Porphyromonas gingivalis (strain ATCC BAA-308 / W83) OX=242619 
GN=PG_1779 PE=2 SV=1
Length=164

 Score = 41.2 bits (95),  Expect = 0.028, Method: Composition-based stats.
 Identities = 36/122 (30%), Positives = 59/122 (48%), Gaps = 13/122 (11%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCL  297
            +VNAAN  L  GGGV GA+++A    +  E       NG    G S +  G+NL A++ +
Sbjct  19   IVNAANHTLLGGGGVDGAIHRAAGPELLEECR---TLNG-CPTGESKITGGYNLPAQYVI  74

Query  298  HVVGPNVNKGE--DIQLLKSAYENF------NQHEVLLAPLLSAGIFGADPIHSLRVCVD  349
            H VGP  + G+  + +LL S Y            + +  P +S G++      + R+ + 
Sbjct  75   HTVGPVWHGGQHGEPELLASCYRTSLSIALDKGLKSIAFPCISTGVYRYPKDQAARIALA  134

Query  350  TV  351
            T+
Sbjct  135  TI  136


>sp|Q86924|POLN_AURAV Polyprotein P1234 OS=Aura virus OX=44158 
PE=3 SV=3
Length=2499

 Score = 43.5 bits (101),  Expect = 0.028, Method: Compositional matrix adjust.
 Identities = 55/183 (30%), Positives = 85/183 (46%), Gaps = 35/183 (19%)

Query  225   ADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGS  284
             AD  EEA       VVNAAN   K G GV  A+ K    + +         N   +V  +
Sbjct  1357  ADCTEEA-------VVNAANARGKPGDGVCRAIFKKWPKSFE---------NATTEVETA  1400

Query  285   CVLSGHNLAKHCLHVVGPNVNK---GEDIQLLKSAYEN----FNQHEV--LLAPLLSAGI  335
              +   HN  K  +H VGP+  K    E  +LL++AY +     N+  +  +  PLLS GI
Sbjct  1401  VMKPCHN--KVVIHAVGPDFRKYTLEEATKLLQNAYHDVAKIVNEKGISSVAIPLLSTGI  1458

Query  336   F--GADPIH-SLR---VCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIP  389
             +  GAD +  SLR     +D    +V +   DK  +++ ++  + M+ E+  E K  +I 
Sbjct  1459  YAAGADRLDLSLRCLFTALDRTDADVTIYCLDKK-WEQRIADAIRMR-EQVTELKDPDIE  1516

Query  390   KEE  392
              +E
Sbjct  1517  IDE  1519


>sp|Q9ZBG3|Y6450_STRCO Macro domain-containing protein SCO6450 
OS=Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145) 
OX=100226 GN=SCO6450 PE=4 SV=1
Length=169

 Score = 41.2 bits (95),  Expect = 0.031, Method: Composition-based stats.
 Identities = 43/148 (29%), Positives = 67/148 (45%), Gaps = 16/148 (11%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATN--GPLKVGGSCVLSGHNL-AKH  295
            +VNAAN  L  GGGV GA+++    A+  E     A +    L  G +   +  +L A+ 
Sbjct  19   IVNAANSSLLGGGGVDGAIHRRGGPAILAECRRLRAGHLGKGLPTGRAVATTAGDLDARW  78

Query  296  CLHVVGPNVNKGEDIQ-LLKSAY-ENFNQHEVLLA-----PLLSAGIFGADPIHSLRVCV  348
             +H VGP  +  ED   LL S Y E+    + L A     P +S G++      + R+ V
Sbjct  79   VIHTVGPVWSATEDRSGLLASCYRESLRTADELGARTVAFPAISTGVYRWPMDDAARIAV  138

Query  349  DTVRTN------VYLAVFDKNLYDKLVS  370
            +TV T       +   +FD   Y+   +
Sbjct  139  ETVATTKTSVTEIRFVLFDARAYEAFAA  166


>sp|Q8K4G6|MACD1_RAT ADP-ribose glycohydrolase MACROD1 (Fragment) 
OS=Rattus norvegicus OX=10116 GN=Macrod1 PE=2 SV=2
Length=258

 Score = 42.0 bits (97),  Expect = 0.035, Method: Compositional matrix adjust.
 Identities = 43/150 (29%), Positives = 70/150 (47%), Gaps = 22/150 (15%)

Query  215  KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
            +L + + +   DI     K++   +VNAAN  L  GGGV G +++A  + +     D   
Sbjct  82   QLNEKISLFRGDIT----KLEVDAIVNAANNSLLGGGGVDGCIHRAAGSLLT----DECR  133

Query  275  TNGPLKVGGSCVLSGHNL-AKHCLHVVGP-NVNKGEDIQL--LKSAYENFNQHEVLLA--  328
            T    + G + +  G+ L AKH +H VGP  V +    Q   L+S Y   +  ++LL   
Sbjct  134  TLQNCETGKAKITCGYRLPAKHVIHTVGPIAVGQPTASQAAELRSCY--LSSLDLLLEHR  191

Query  329  ------PLLSAGIFGADPIHSLRVCVDTVR  352
                  P +S G+FG     +  V + T+R
Sbjct  192  LRSVAFPCISTGVFGYPNEEAAEVVLATLR  221


>sp|P03317|POLN_SINDV Polyprotein P1234 OS=Sindbis virus OX=11034 
PE=1 SV=2
Length=2513

 Score = 42.7 bits (99),  Expect = 0.054, Method: Compositional matrix adjust.
 Identities = 50/184 (27%), Positives = 80/184 (43%), Gaps = 33/184 (18%)

Query  225   ADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGS  284
             AD  EEA       VVNAAN   + G GV  A+ K    +      D     G  ++   
Sbjct  1359  ADCQEEA-------VVNAANPLGRPGEGVCRAIYKRWPTSFT----DSATETGTARMT-V  1406

Query  285   CVLSGHNLAKHCLHVVGPNVNK---GEDIQLLKSAYEN----FNQHEV--LLAPLLSAGI  335
             C      L K  +H VGP+  K    E ++LL++AY       N+H +  +  PLLS GI
Sbjct  1407  C------LGKKVIHAVGPDFRKHPEAEALKLLQNAYHAVADLVNEHNIKSVAIPLLSTGI  1460

Query  336   FGAD------PIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIP  389
             + A        ++ L   +D    +V +   DK   +++ ++    +S  +++ +  EI 
Sbjct  1461  YAAGKDRLEVSLNCLTTALDRTDADVTIYCLDKKWKERIDAALQLKESVTELKDEDMEID  1520

Query  390   KEEV  393
              E V
Sbjct  1521  DELV  1524


>sp|Q9BQ69|MACD1_HUMAN ADP-ribose glycohydrolase MACROD1 OS=Homo 
sapiens OX=9606 GN=MACROD1 PE=1 SV=2
Length=325

 Score = 41.6 bits (96),  Expect = 0.054, Method: Composition-based stats.
 Identities = 42/151 (28%), Positives = 70/151 (46%), Gaps = 24/151 (16%)

Query  215  KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
            +L + + +  +DI     K++   +VNAAN  L  GGGV G +++A    +     D   
Sbjct  149  QLNEKISLLRSDIT----KLEVDAIVNAANSSLLGGGGVDGCIHRAAGPLLT----DECR  200

Query  275  TNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE----DIQLLKSAYENFNQHEVLLA-  328
            T    K G + +  G+ L AK+ +H VGP +  GE        L+S Y   +  ++LL  
Sbjct  201  TLQSCKTGKAKITGGYRLPAKYVIHTVGP-IAYGEPSASQAAELRSCY--LSSLDLLLEH  257

Query  329  -------PLLSAGIFGADPIHSLRVCVDTVR  352
                   P +S G+FG     +  + + T+R
Sbjct  258  RLRSVAFPCISTGVFGYPCEAAAEIVLATLR  288


>sp|O28751|Y1521_ARCFU ADP-ribose glycohydrolase AF_1521 OS=Archaeoglobus 
fulgidus (strain ATCC 49558 / DSM 4304 / JCM 9628 
/ NBRC 100126 / VC-16) OX=224325 GN=AF_1521 PE=1 SV=2
Length=192

 Score = 40.4 bits (93),  Expect = 0.071, Method: Composition-based stats.
 Identities = 43/152 (28%), Positives = 68/152 (45%), Gaps = 30/152 (20%)

Query  239  VVNAANVYLKHGGGVAGALNKA-----------TNNAMQVE-SDDYIATNGPLKVGGSCV  286
            +VNAAN  L+HGGGVA A+ KA           +  AM+ +   DYI  +G + V  +  
Sbjct  29   IVNAANKRLEHGGGVAYAIAKACAGDAGLYTEISKKAMREQFGRDYI-DHGEVVVTPAMN  87

Query  287  LSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENF---------NQHEVLLAPLLSAGIFG  337
            L    + K+  H VGP  +     +L +  Y+ F            E +  P +SAGI+G
Sbjct  88   LEERGI-KYVFHTVGPICSGMWSEELKEKLYKAFLGPLEKAEEMGVESIAFPAVSAGIYG  146

Query  338  ADPIHSLRVCVDTVRT-------NVYLAVFDK  362
             D    +   ++ V+         V L ++D+
Sbjct  147  CDLEKVVETFLEAVKNFKGSAVKEVALVIYDR  178


>sp|Q44020|YGB2_CUPNE Macro domain-containing protein in gbd 3'region 
OS=Cupriavidus necator OX=106590 PE=4 SV=1
Length=173

 Score = 40.0 bits (92),  Expect = 0.072, Method: Composition-based stats.
 Identities = 39/109 (36%), Positives = 58/109 (53%), Gaps = 11/109 (10%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCL  297
            +VNAAN  L  GGGV GA++ A  +A++        T G    G + + +G +L A + +
Sbjct  21   IVNAANSGLLGGGGVDGAIHGAGGSAIKEACRAIRDTQGGCPTGEAVITTGGHLPAPYVI  80

Query  298  HVVGP---NVNKGEDIQLLKSAYEN----FNQHEV--LLAPLLSAGIFG  337
            H VGP     ++GED +LL +AY N      QH +  L  P +S GI+ 
Sbjct  81   HAVGPVWQGGDQGED-ELLANAYRNSIRLAAQHHLRRLAFPNISTGIYA  128


>sp|Q306W6|POLN_EEEV1 Polyprotein P1234 OS=Eastern equine encephalitis 
virus (strain PE-0.0155) OX=374596 PE=1 SV=3
Length=2471

 Score = 42.0 bits (97),  Expect = 0.074, Method: Compositional matrix adjust.
 Identities = 50/186 (27%), Positives = 76/186 (41%), Gaps = 54/186 (29%)

Query  238   VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKH--  295
             V+VNAAN   + G GV GAL K    A             P+  G +      +L KH  
Sbjct  1345  VIVNAANNKGQPGAGVCGALYKKWPGAFD---------KAPIATGTA------HLVKHTP  1389

Query  296   -CLHVVGPNVNKGEDI---QLLKSAY---------ENFNQHEVLLAPLLSAGIF--GADP  340
               +H VGPN ++  ++   Q L   Y         E +N+  +   PLLS G++  G D 
Sbjct  1390  NIIHAVGPNFSRMSEVEGNQKLSEVYMDIAKIINKERYNKVSI---PLLSTGVYAGGKDR  1446

Query  341   I----HSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPF  396
             +    + L   +DT   +V +   DK               E +++  IA   KE V+  
Sbjct  1447  VMQSLNHLFTAMDTTDADVTIYCLDKQW-------------ETRIKDAIAR--KESVEEL  1491

Query  397   ITESKP  402
             + + KP
Sbjct  1492  VEDDKP  1497


>sp|Q9YBE9|Y1648_AERPE Uncharacterized protein APE_1648.1 OS=Aeropyrum 
pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / 
NBRC 100138 / K1) OX=272557 GN=APE_1648.1 PE=4 SV=2
Length=189

 Score = 40.0 bits (92),  Expect = 0.087, Method: Composition-based stats.
 Identities = 24/67 (36%), Positives = 37/67 (55%), Gaps = 5/67 (7%)

Query  233  KVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL  292
            KV+   VVN AN  +  GGG AGAL +A  + ++ E+        P+ VG + + SG +L
Sbjct  20   KVRAEAVVNPANSLMIMGGGAAGALKRAGGSVIEEEA----MRKAPVPVGEAVITSGGSL  75

Query  293  -AKHCLH  298
             A+  +H
Sbjct  76   PARFVIH  82


>sp|P13896|POLN_WEEV Polyprotein P1234 OS=Western equine encephalitis 
virus OX=11039 PE=3 SV=3
Length=2467

 Score = 41.2 bits (95),  Expect = 0.13, Method: Compositional matrix adjust.
 Identities = 44/157 (28%), Positives = 66/157 (42%), Gaps = 33/157 (21%)

Query  239   VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKH---  295
             +VNAAN   + G GV GAL +    A   +         P+ VG +       L KH   
Sbjct  1346  IVNAANSKGQPGSGVCGALYRKWPAAFDRQ---------PIAVGTA------RLVKHEPL  1390

Query  296   CLHVVGPNVNKGEDIQ---LLKSAYE------NFNQHEVLLAPLLSAGIF--GADPI---  341
              +H VGPN +K  + +    L +AY       N  +   +  PLLS GI+  G D +   
Sbjct  1391  IIHAVGPNFSKMPEPEGDLKLAAAYMSIASIVNAERITKISVPLLSTGIYSGGKDRVMQS  1450

Query  342   -HSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKS  377
              H L    DT   +V +   DK    +++ +    +S
Sbjct  1451  LHHLFTAFDTTDADVTIYCLDKQWETRIIEAIHRKES  1487


>sp|Q2KHU5|MACD1_BOVIN ADP-ribose glycohydrolase MACROD1 OS=Bos 
taurus OX=9913 GN=MACROD1 PE=2 SV=1
Length=325

 Score = 39.7 bits (91),  Expect = 0.27, Method: Composition-based stats.
 Identities = 39/134 (29%), Positives = 63/134 (47%), Gaps = 20/134 (15%)

Query  215  KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
            +L + + +   DI     K++   +VNAAN  L  GGGV G +++A    +     D   
Sbjct  149  QLNEKISLFRGDIT----KLEVDAIVNAANSSLLGGGGVDGCIHRAAGPLLT----DECR  200

Query  275  TNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE----DIQLLKSAY----ENFNQHEV  325
            T    + G + +  G+ L AK+ +H VGP +  GE        L+S Y    +   +H +
Sbjct  201  TLQNCETGKAKITCGYRLPAKYVIHTVGP-IAHGEPSASQAAELRSCYLSSLDLLLEHRL  259

Query  326  LLA--PLLSAGIFG  337
              A  P +S G+FG
Sbjct  260  RSAAFPCISTGVFG  273


>sp|Q922B1|MACD1_MOUSE ADP-ribose glycohydrolase MACROD1 OS=Mus 
musculus OX=10090 GN=Macrod1 PE=1 SV=2
Length=323

 Score = 39.3 bits (90),  Expect = 0.30, Method: Composition-based stats.
 Identities = 41/150 (27%), Positives = 70/150 (47%), Gaps = 22/150 (15%)

Query  215  KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
            +L + + +   DI     K++   +VNAAN  L  GGGV G +++A  + +     D   
Sbjct  147  QLNEKISLYRGDIT----KLEVDAIVNAANSSLLGGGGVDGCIHRAAGSLLT----DECR  198

Query  275  TNGPLKVGGSCVLSGHNL-AKHCLHVVGP-NVNKGEDIQL--LKSAYENFNQHEVLLA--  328
            T    + G + +  G+ L AK+ +H VGP  V +    Q   L+S Y   +  ++LL   
Sbjct  199  TLQNCETGKAKITCGYRLPAKYVIHTVGPIAVGQPTASQAAELRSCY--LSSLDLLLEHR  256

Query  329  ------PLLSAGIFGADPIHSLRVCVDTVR  352
                  P +S G+FG     +  V + ++R
Sbjct  257  LRSVAFPCISTGVFGYPNEEAAEVVLASLR  286


>sp|Q6QLN1|POLN_AHEV Non-structural polyprotein pORF1 OS=Avian 
hepatitis E virus (isolate Chicken/California/Meng) OX=516993 
GN=ORF1 PE=3 SV=1
Length=1531

 Score = 40.0 bits (92),  Expect = 0.30, Method: Compositional matrix adjust.
 Identities = 37/161 (23%), Positives = 63/161 (39%), Gaps = 26/161 (16%)

Query  239  VVNAANVYLKHGGGVAGALNK-------ATNNAMQVESDDYIATNGPLKVGGSCVLSGHN  291
            +VN AN   + GGG+ G  ++              + +   I   GP KV          
Sbjct  640  LVNPANRDHQPGGGLCGMFHRRWPHLWPVCGEVQDLPTGPVIFQQGPPKV----------  689

Query  292  LAKHCLHVVGPNVNKGEDIQLLKSAYENFNQ-HEVLLAPLLSAGIFGADPIHSLRVCVDT  350
                 +H  GP+     D   L+  Y   +Q H  + +PL+SAGI+ A    S      T
Sbjct  690  -----IHAPGPDYRIKPDPDGLRRVYAVVHQAHGTVASPLISAGIYRAPARESFEAWAAT  744

Query  351  VRTNVYLAV---FDKNLYDKLVSSFLEMKSEKQVEQKIAEI  388
             R    L V     +++ D +++       E  V++ +A++
Sbjct  745  ARDGDLLVVQRSMAQHIRDFVLNEGRHRPRELHVDRAMADM  785


>sp|Q306W8|POLN_EEEV8 Polyprotein P1234 OS=Eastern equine encephalitis 
virus (strain PE-3.0815) OX=374597 PE=1 SV=3
Length=2474

 Score = 40.0 bits (92),  Expect = 0.30, Method: Compositional matrix adjust.
 Identities = 49/182 (27%), Positives = 74/182 (41%), Gaps = 48/182 (26%)

Query  239   VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKH---  295
             +VNAAN   + G GV GAL K    A             P+  G +      +L KH   
Sbjct  1346  IVNAANNKGQPGAGVCGALYKKWPGAFD---------KVPIATGTA------HLVKHTPN  1390

Query  296   CLHVVGPNVNKGEDI---QLLKSAYE------NFNQHEVLLAPLLSAGIF--GADPI---  341
              +H VGPN ++  ++   Q L   Y       N  ++  +  PLLS GI+  G D +   
Sbjct  1391  IIHAVGPNFSRVSEVEGNQKLSEVYMDIAKIINRERYNKVSIPLLSTGIYAGGKDRVMQS  1450

Query  342   -HSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITES  400
              + L   +DT   +V +   DK               E +++  IA   KE V+  + + 
Sbjct  1451  LNHLFTAMDTTDADVTIYCLDKQW-------------EARIKDAIAR--KESVEELVEDD  1495

Query  401   KP  402
             KP
Sbjct  1496  KP  1497


>sp|Q9HXU7|Y3693_PSEAE Macro domain-containing protein PA3693 
OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 
104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) OX=208964 
GN=PA3693 PE=4 SV=1
Length=173

 Score = 38.1 bits (87),  Expect = 0.36, Method: Composition-based stats.
 Identities = 37/112 (33%), Positives = 51/112 (46%), Gaps = 21/112 (19%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL---KVGGSCVLSGHNL-AK  294
            +VNAAN  L  GGGV GA+++A    +       +A    L   K G + +  G  L A 
Sbjct  19   IVNAANSSLLGGGGVDGAIHRAAGAEL-------VAACRLLHGCKTGEAKITRGFRLPAA  71

Query  295  HCLHVVGPNVNKGE--DIQLLKSAY-------ENFNQHEVLLAPLLSAGIFG  337
            H +H VGP    G+  + +LL S Y       E      V   P +S GI+G
Sbjct  72   HVIHTVGPVWRGGDNGEAELLASCYRRSLALAEQAGAASVAF-PAISCGIYG  122


>sp|A1Z1Q3|MACD2_HUMAN ADP-ribose glycohydrolase MACROD2 OS=Homo 
sapiens OX=9606 GN=MACROD2 PE=1 SV=2
Length=425

 Score = 39.3 bits (90),  Expect = 0.37, Method: Compositional matrix adjust.
 Identities = 39/132 (30%), Positives = 65/132 (49%), Gaps = 18/132 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            LT+ V +   DI      ++   +VNAAN  L  GGGV G +++A    +  E  +    
Sbjct  68   LTEKVSLYRGDIT----LLEVDAIVNAANASLLGGGGVDGCIHRAAGPCLLAECRNL---  120

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGP------NVNKGEDI-QLLKSAYENFNQHEV--  325
            NG    G + +  G++L AK+ +H VGP      N +  ED+    KS+ +   ++ +  
Sbjct  121  NG-CDTGHAKITCGYDLPAKYVIHTVGPIARGHINGSHKEDLANCYKSSLKLVKENNIRS  179

Query  326  LLAPLLSAGIFG  337
            +  P +S GI+G
Sbjct  180  VAFPCISTGIYG  191


>sp|Q3UYG8|MACD2_MOUSE ADP-ribose glycohydrolase MACROD2 OS=Mus 
musculus OX=10090 GN=Macrod2 PE=1 SV=1
Length=475

 Score = 39.3 bits (90),  Expect = 0.38, Method: Compositional matrix adjust.
 Identities = 38/112 (34%), Positives = 55/112 (49%), Gaps = 18/112 (16%)

Query  238  VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHC  296
             +VNAAN  L  GGGV G +++A    +  E  +    NG  + G + +  G++L AK+ 
Sbjct  86   AIVNAANASLLGGGGVDGCIHRAAGPCLLAECRNL---NG-CETGHAKITCGYDLPAKYV  141

Query  297  LHVVGP------NVNKGEDI-----QLLKSAYENFNQHEVLLAPLLSAGIFG  337
            +H VGP      N +  ED+       LK   EN N   V   P +S GI+G
Sbjct  142  IHTVGPIARGHINGSHKEDLANCYQSSLKLVKEN-NLRSVAF-PCISTGIYG  191


>sp|Q9KHE2|Y189_STRGR Macro domain-containing protein in non 5'region 
OS=Streptomyces griseus OX=1911 PE=4 SV=1
Length=177

 Score = 36.6 bits (83),  Expect = 0.97, Method: Composition-based stats.
 Identities = 43/145 (30%), Positives = 62/145 (43%), Gaps = 17/145 (12%)

Query  238  VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT--NGPLKVGGSCVLSGHNL-AK  294
            V+VNAAN  L  GGGV GA+++     +     +  A+     L  G +   +   L A+
Sbjct  23   VIVNAANSSLLGGGGVDGAIHRRGGPDILAACRELRASRYGKGLPTGQAVATTAGRLDAR  82

Query  295  HCLHVVGPNVNKGEDIQ-LLKSAY-ENFNQHEVLLA-----PLLSAGIFGADPIHSLRVC  347
              +H VGP  +  +D   LL S Y E+      L A     P +S GI+G       R+ 
Sbjct  83   WIVHTVGPVFSGAQDRSALLASCYRESLRLAAELGARSIAFPAISTGIYGWPMDDGARIA  142

Query  348  VDTVRT-------NVYLAVFDKNLY  365
            V TV          V   +FD + Y
Sbjct  143  VRTVLAETVEPVEEVRFVLFDAHAY  167


>sp|Q8Y3S3|Y2759_LISMO Macro domain-containing protein lmo2759 
OS=Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 
/ EGD-e) OX=169963 GN=lmo2759 PE=4 SV=1
Length=176

 Score = 36.6 bits (83),  Expect = 1.0, Method: Compositional matrix adjust.
 Identities = 48/175 (27%), Positives = 76/175 (43%), Gaps = 27/175 (15%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            + I   DI E+    +  V+VNAAN  L  GGGV GA+++A    +  E  + I   G  
Sbjct  3    ITIVKGDITEQ----EVDVIVNAANSGLLGGGGVDGAIHQAAGPDLLKECQEVINRIGSC  58

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLA--------PL  330
              G + + S  +L A + +H VGP    GE  +  K A   +   ++           P 
Sbjct  59   PAGEAVITSAGDLKATYIIHAVGPIWKDGEHQEANKLASCYWKALDLAAGKDLTSIAFPN  118

Query  331  LSAGIFGADPIHSLRVCVDTVR-----------TNVYLAVFDK---NLYDKLVSS  371
            +S G++G     +  V + TVR             +    FD+    LY+KL++S
Sbjct  119  ISTGVYGFPKKLAAEVALYTVRKWAEEEYDTSIKEIRFVCFDEENLKLYNKLINS  173


>sp|Q7TZB9|Y1934_MYCBO Uncharacterized protein Mb1934c OS=Mycobacterium 
bovis (strain ATCC BAA-935 / AF2122/97) OX=233413 
GN=lppD PE=4 SV=1
Length=358

 Score = 37.7 bits (86),  Expect = 1.0, Method: Composition-based stats.
 Identities = 24/83 (29%), Positives = 44/83 (53%), Gaps = 6/83 (7%)

Query  218  DNVYIKNADIVE-EAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATN  276
            DNV +   ++ + +  K++   + NAAN  L+H GGVA A+ +A    +Q ES +     
Sbjct  184  DNVSMIELEVHQADVTKLELDAITNAANTRLRHAGGVAAAIARAGGPELQRESTE----K  239

Query  277  GPLKVGGSC-VLSGHNLAKHCLH  298
             P+ +G +    +G   A++ +H
Sbjct  240  APIGLGEAVETTAGDMPARYVIH  262


>sp|P9WK29|Y1899_MYCTU Uncharacterized protein Rv1899c OS=Mycobacterium 
tuberculosis (strain ATCC 25618 / H37Rv) OX=83332 
GN=Rv1899c PE=1 SV=1
Length=359

 Score = 37.7 bits (86),  Expect = 1.0, Method: Composition-based stats.
 Identities = 24/83 (29%), Positives = 44/83 (53%), Gaps = 6/83 (7%)

Query  218  DNVYIKNADIVE-EAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATN  276
            DNV +   ++ + +  K++   + NAAN  L+H GGVA A+ +A    +Q ES +     
Sbjct  185  DNVSMIELEVHQADVTKLELDAITNAANTRLRHAGGVAAAIARAGGPELQRESTE----K  240

Query  277  GPLKVGGSC-VLSGHNLAKHCLH  298
             P+ +G +    +G   A++ +H
Sbjct  241  APIGLGEAVETTAGDMPARYVIH  263


>sp|P9WK28|Y1899_MYCTO Uncharacterized protein MT1950 OS=Mycobacterium 
tuberculosis (strain CDC 1551 / Oshkosh) OX=83331 GN=MT1950 
PE=4 SV=1
Length=374

 Score = 37.7 bits (86),  Expect = 1.1, Method: Composition-based stats.
 Identities = 24/83 (29%), Positives = 44/83 (53%), Gaps = 6/83 (7%)

Query  218  DNVYIKNADIVE-EAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATN  276
            DNV +   ++ + +  K++   + NAAN  L+H GGVA A+ +A    +Q ES +     
Sbjct  200  DNVSMIELEVHQADVTKLELDAITNAANTRLRHAGGVAAAIARAGGPELQRESTE----K  255

Query  277  GPLKVGGSC-VLSGHNLAKHCLH  298
             P+ +G +    +G   A++ +H
Sbjct  256  APIGLGEAVETTAGDMPARYVIH  278


>sp|Q4QXJ8|POLN_EEEVF Polyprotein P1234 OS=Eastern equine encephalitis 
virus (strain Florida 91-469) OX=374598 PE=1 SV=3
Length=2494

 Score = 38.1 bits (87),  Expect = 1.1, Method: Compositional matrix adjust.
 Identities = 43/167 (26%), Positives = 70/167 (42%), Gaps = 39/167 (23%)

Query  238   VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKH--  295
             V+VNAAN   + G GV GAL +    A   +         P+  G +      +L KH  
Sbjct  1345  VIVNAANNKGQPGSGVCGALYRKWPGAFDKQ---------PVATGKA------HLVKHSP  1389

Query  296   -CLHVVGPNVNK---GEDIQLLKSAY---------ENFNQHEVLLAPLLSAGIF--GADP  340
               +H VGPN ++    E  Q L   Y         E F +  +   PLLS GI+  G D 
Sbjct  1390  NVIHAVGPNFSRLSENEGDQKLSEVYMDIARIINNERFTKVSI---PLLSTGIYAGGKDR  1446

Query  341   I----HSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQ  383
             +    + L   +DT   ++ +   DK    ++  +    +S +++ +
Sbjct  1447  VMQSLNHLFTAMDTTDADITIYCLDKQWESRIKEAITRKESVEELTE  1493


>sp|Q926Y8|Y2902_LISIN Macro domain-containing protein lin2902 
OS=Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 
11262) OX=272626 GN=lin2902 PE=4 SV=1
Length=176

 Score = 36.6 bits (83),  Expect = 1.2, Method: Compositional matrix adjust.
 Identities = 45/157 (29%), Positives = 69/157 (44%), Gaps = 23/157 (15%)

Query  238  VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKH-C  296
            V+VNAAN  L  GGGV GA+++A    +  E  + I   G    G + + S  +L  H  
Sbjct  17   VIVNAANPGLLGGGGVDGAIHQAAGPDLLKECQEVINRIGSCPAGEAVITSAGDLKAHFI  76

Query  297  LHVVGPNVNKGEDIQLLKSAYENFNQHEV--------LLAPLLSAGIFGADPIHSLRVCV  348
            +H VGP    GE  +  K A   +   ++        +  P +S G++G     +  V +
Sbjct  77   IHAVGPIWKDGEHQEANKLASCYWKALDLAAGKDLTSIAFPNISTGVYGFPKKLAAEVAL  136

Query  349  DTVR-----------TNVYLAVFDKN---LYDKLVSS  371
             TVR             V    FD+    LY+KL++S
Sbjct  137  YTVRKWAEEEYDSSIKEVRFVCFDEENLTLYNKLINS  173


>sp|Q71W03|Y2748_LISMF Macro domain-containing protein LMOf2365_2748 
OS=Listeria monocytogenes serotype 4b (strain F2365) 
OX=265669 GN=LMOf2365_2748 PE=4 SV=1
Length=176

 Score = 36.2 bits (82),  Expect = 1.3, Method: Compositional matrix adjust.
 Identities = 44/157 (28%), Positives = 69/157 (44%), Gaps = 23/157 (15%)

Query  238  VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHC  296
            V+VNAAN  L  GGGV GA+++A    +  E  + I   G    G + + S  +L A + 
Sbjct  17   VIVNAANPGLLGGGGVDGAIHQAAGPDLLKECQEVINRIGTCPAGEAVITSAGDLQASYI  76

Query  297  LHVVGPNVNKGEDIQLLKSAYENFNQHEVLLA--------PLLSAGIFGADPIHSLRVCV  348
            +H VGP    GE  +  K A   +   ++           P +S G++G     +  V +
Sbjct  77   IHAVGPIWKDGEHQEANKLASCYWKALDLAAGKELTSIAFPNISTGVYGFPKKLAAEVAL  136

Query  349  DTVRT-----------NVYLAVFDKN---LYDKLVSS  371
             TVR             +    FD+    LY+KL++S
Sbjct  137  YTVRKWAEEEYDTSIEEIRFVCFDEENLKLYNKLINS  173


>sp|A0A0D2UG83|H2AY_CAPO3 Histone macroH2A1.1 OS=Capsaspora owczarzaki 
(strain ATCC 30864) OX=595528 GN=CAOG_004778 PE=1 SV=1
Length=368

 Score = 37.4 bits (85),  Expect = 1.3, Method: Compositional matrix adjust.
 Identities = 29/91 (32%), Positives = 46/91 (51%), Gaps = 5/91 (5%)

Query  214  LKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYI  273
            L L   +Y+ N D+ E    V+   VV+  N  +   G V GA+  A    +  E + Y+
Sbjct  191  LHLGQTLYVVNGDLTE----VRCDAVVHPTNGTMSFAGQVGGAIRAAAGAGVDAEVNSYM  246

Query  274  ATNGPLKVGGSCVLSGHNL-AKHCLHVVGPN  303
            + +  L+V  + + SGHNL +K  +HV  PN
Sbjct  247  SEHSQLQVTKAAITSGHNLPSKWIVHVHSPN  277


>sp|B4S3G9|PDXJ_PROA2 Pyridoxine 5'-phosphate synthase OS=Prosthecochloris 
aestuarii (strain DSM 271 / SK 413) OX=290512 GN=pdxJ 
PE=3 SV=1
Length=236

 Score = 36.6 bits (83),  Expect = 1.6, Method: Composition-based stats.
 Identities = 33/119 (28%), Positives = 49/119 (41%), Gaps = 16/119 (13%)

Query  1203  TSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDII-LKP  1261
             T   FD+++  D        C  +KPV +  +E     +   E   +      +I+ L  
Sbjct  100   TEGGFDIIRHYDT------LCRYIKPVQDAGIEVSIFIEPEEEAIERAASAGAEIVELHT  153

Query  1262  ANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTI  1320
                SLK T     T+LM          I+K    +R  GL+ +A HGL   N VP+ TI
Sbjct  154   GPYSLKKTPAELETELM---------RIRKAATFARSRGLRVVAGHGLDYFNIVPFRTI  203


>sp|P26627|R1AB_CVMJD Replicase polyprotein 1ab (Fragment) OS=Murine 
coronavirus (strain defective JHM) OX=11143 GN=rep PE=3 
SV=1
Length=500

 Score = 37.4 bits (85),  Expect = 1.7, Method: Compositional matrix adjust.
 Identities = 45/181 (25%), Positives = 73/181 (40%), Gaps = 15/181 (8%)

Query  778  PTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLR-VEAFEYYHTTDPSFLGRYMSALNHTK  836
            P  ++  D+ K++     E +T    P D T   V AF+  ++   S      S   H K
Sbjct  316  PDQVEAFDIEKVEDSILSELQTELNAPADKTYEDVLAFDAIYSETLSAFYAVPSDETHFK  375

Query  837  KWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALI  896
                  V G  S      NC+L + L+ +Q + L+F    +Q  +   +AG    F   +
Sbjct  376  ------VCGFYSPAIERTNCWLRSTLIVMQSLPLEFKDLGMQKLWLSYKAGYDQCFVDKL  429

Query  897  LAYCNKT-VGELGDVRETMSYLFQHANLDSC--KRVLNVVCKTCGQQQTTLKGVEAVMYM  953
            +    K+ +   G      +Y F    L  C  K   N  C  CG  +  L+G++AV + 
Sbjct  430  VKSAPKSIILPQGGYVADFAYFF----LSQCSFKVHANWRCLKCG-MELKLQGLDAVFFY  484

Query  954  G  954
            G
Sbjct  485  G  485


>sp|B0C385|RPOC2_ACAM1 DNA-directed RNA polymerase subunit beta' 
OS=Acaryochloris marina (strain MBIC 11017) OX=329726 GN=rpoC2 
PE=3 SV=1
Length=1330

 Score = 37.0 bits (84),  Expect = 2.5, Method: Compositional matrix adjust.
 Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 12/82 (15%)

Query  227  IVEEAKKVKPTVVVNAANVYLKHGGGVAG--ALNKATNNAMQVESDDYI----------A  274
            +VEE +++ P  VV    +  K GG V G  + N+AT   + +  DD I          A
Sbjct  860  LVEEGQQIDPGAVVARTEIKAKQGGKVRGIRSGNEATRRILLMTDDDLITIETQGKATSA  919

Query  275  TNGPLKVGGSCVLSGHNLAKHC  296
            + G L   G  V +G  +A+ C
Sbjct  920  SEGELLRAGDEVAAGVTVAESC  941


>sp|Q5JER1|Y1890_THEKO Uncharacterized protein TK1890 OS=Thermococcus 
kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 
OX=69014 GN=TK1890 PE=4 SV=1
Length=180

 Score = 34.7 bits (78),  Expect = 4.3, Method: Composition-based stats.
 Identities = 40/159 (25%), Positives = 74/159 (47%), Gaps = 32/159 (20%)

Query  239  VVNAANVYLKHGGGVAGALN-----------KATNNAMQVE-SDDYIATNGPLKVGGSCV  286
            +VNAAN YL+HGGGVA A+            + +  AM+ +   D+I  +G + V  +  
Sbjct  19   IVNAANRYLEHGGGVAYAIAKAAAGDPREYIRISKEAMREQLGKDHI-EHGEVVVTPAMR  77

Query  287  LSGHNLAKHCLHVVGPNV----NKGEDIQLLKSAYENFNQHE-----VLLAPLLSAGIFG  337
            L  H + ++ +H VGP      ++ +  +L K+      + E      +  P +SAGI+G
Sbjct  78   LEKHGI-RYVIHTVGPYCGGIWDEDKKEKLRKAILGALRKAEELGVKTIAFPAVSAGIYG  136

Query  338  A---DPIHSLRVCVDTVR------TNVYLAVFDKNLYDK  367
                + + + +  +D           VYL ++ +  Y++
Sbjct  137  CPLEEVVKTFKEVIDEFEREAGSVERVYLVLYSEKDYER  175


>sp|Q8U0P9|Y1536_PYRFU Uncharacterized protein PF1536 OS=Pyrococcus 
furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1) 
OX=186497 GN=PF1536 PE=4 SV=1
Length=183

 Score = 35.0 bits (79),  Expect = 4.3, Method: Composition-based stats.
 Identities = 44/165 (27%), Positives = 76/165 (46%), Gaps = 32/165 (19%)

Query  233  KVKPTVVVNAANVYLKHGGGVAGALN-----------KATNNAMQVE-SDDYIATNGPLK  280
            K +   +VNAAN YL+HGGGVA A+            + +  AM+ +   D+I  +G + 
Sbjct  11   KFRAEAIVNAANKYLEHGGGVAYAIAKAAAGDVREYIRISKEAMREQLGKDWI-DHGEVV  69

Query  281  VGGSCVLSGHNLAKHCLHVVGP------NVNKGEDIQL-LKSAYENFNQHEV--LLAPLL  331
            V     L   N  K+ +H VGP      + +K   ++L +  A +  ++  V  +  P +
Sbjct  70   VTPPLQLE-KNGVKYVIHTVGPYCGGSWDEDKKSKLKLAILGALKKADELGVKSIAFPAI  128

Query  332  SAGIFGADPIHSLRVCVDTVRT---------NVYLAVFDKNLYDK  367
            SAGI+G      +   V+ V+           V+L ++ +  Y+K
Sbjct  129  SAGIYGCPLEKVVETFVEVVKEFLPSAKSLREVFLVLYSQEDYEK  173


>sp|Q9RS39|Y2288_DEIRA Macro domain-containing protein DR_2288 
OS=Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / 
JCM 16871 / CCUG 27074 / LMG 4051 / NBRC 15346 / NCIMB 9279 
/ VKM B-1422 / R1) OX=243230 GN=DR_2288 PE=4 SV=1
Length=170

 Score = 33.9 bits (76),  Expect = 6.9, Method: Composition-based stats.
 Identities = 39/138 (28%), Positives = 60/138 (43%), Gaps = 22/138 (16%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL----AK  294
            VV AAN  L  GGGV G +++A    +       I   G    G + +    +L     K
Sbjct  18   VVTAANKQLMGGGGVDGVIHRAAGPRLL----QAIRPIGGTPTGTAVITPAFDLERQGVK  73

Query  295  HCLHVVGPNVNKGE--DIQLLKSAYENF------NQHEVLLAPLLSAGIFG-----ADPI  341
            + +H VGP    G+  + +LL  AY         N    +  P +S G++G     A PI
Sbjct  74   YVIHAVGPIWRGGQHGEAELLAGAYRESLRLGVENGCRSVAFPSISTGVYGYPLDRAAPI  133

Query  342  HSLRVCVDTVRTNVYLAV  359
             +L    D +R++  L+V
Sbjct  134  -ALATIQDFLRSHPDLSV  150


>sp|P24886|NU4LM_CAEEL NADH-ubiquinone oxidoreductase chain 4L 
OS=Caenorhabditis elegans OX=6239 GN=ndfl-4 PE=3 SV=2
Length=77

 Score = 32.0 bits (71),  Expect = 8.2, Method: Composition-based stats.
 Identities = 17/43 (40%), Positives = 24/43 (56%), Gaps = 2/43 (5%)

Query  1496  FKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAV  1538
             FKW    F L++  F+   LF +F YVLG   +M  +F  F+V
Sbjct  13    FKWQRLIFILISLEFMMLSLFLKFSYVLG--EMMFFYFMCFSV  53



Lambda      K        H        a         alpha
   0.317    0.132    0.390    0.792     4.96 

Gapped
Lambda      K        H        a         alpha    sigma
   0.267   0.0410    0.140     1.90     42.6     43.6 

Effective search space used: 236670339240
Results from round 2


Query= YP_009725299.1 nsp3 [Severe acute respiratory syndrome coronavirus
2]

Length=1945
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value
Sequences used in model and found again:

sp|P0DTD1|R1AB_SARS2 Replicase polyprotein 1ab OS=Severe acute re...  2604    0.0   
sp|P0DTC1|R1A_SARS2 Replicase polyprotein 1a OS=Severe acute resp...  2603    0.0   
sp|P0C6U8|R1A_SARS Replicase polyprotein 1a OS=Severe acute respi...  2518    0.0   
sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute res...  2515    0.0   
sp|P0C6T7|R1A_BCRP3 Replicase polyprotein 1a OS=Bat coronavirus R...  2501    0.0   
sp|P0C6F8|R1A_BCHK3 Replicase polyprotein 1a OS=Bat coronavirus H...  2499    0.0   
sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus...  2497    0.0   
sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus...  2497    0.0   
sp|P0C6F5|R1A_BC279 Replicase polyprotein 1a OS=Bat coronavirus 2...  2489    0.0   
sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus...  2485    0.0   
sp|P0C6T5|R1A_BCHK5 Replicase polyprotein 1a OS=Bat coronavirus H...  1716    0.0   
sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus...  1716    0.0   
sp|P0C6T6|R1A_BCHK9 Replicase polyprotein 1a OS=Bat coronavirus H...  1666    0.0   
sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus...  1662    0.0   
sp|K9N638|R1A_MERS1 Replicase polyprotein 1a OS=Middle East respi...  1579    0.0   
sp|K9N7C7|R1AB_MERS1 Replicase polyprotein 1ab OS=Middle East res...  1579    0.0   
sp|P0C6T4|R1A_BCHK4 Replicase polyprotein 1a OS=Bat coronavirus H...  1510    0.0   
sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus...  1510    0.0   
sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus...  1494    0.0   
sp|P0C6F7|R1A_BC133 Replicase polyprotein 1a OS=Bat coronavirus 1...  1494    0.0   
sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavi...  1304    0.0   
sp|P0C6V0|R1A_CVMA5 Replicase polyprotein 1a OS=Murine coronaviru...  1303    0.0   
sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavi...  1302    0.0   
sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavir...  1302    0.0   
sp|P0C6V1|R1A_CVMJH Replicase polyprotein 1a OS=Murine coronaviru...  1301    0.0   
sp|P0C6U9|R1A_CVM2 Replicase polyprotein 1a OS=Murine coronavirus...  1300    0.0   
sp|P0C6W7|R1AB_CVBEN Replicase polyprotein 1ab OS=Bovine coronavi...  1235    0.0   
sp|P0C6W8|R1AB_CVBLU Replicase polyprotein 1ab OS=Bovine coronavi...  1234    0.0   
sp|P0C6T8|R1A_CVBEN Replicase polyprotein 1a OS=Bovine coronaviru...  1234    0.0   
sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavir...  1233    0.0   
sp|P0C6X0|R1AB_CVBQ Replicase polyprotein 1ab OS=Bovine coronavir...  1233    0.0   
sp|P0C6W9|R1AB_CVBM Replicase polyprotein 1ab OS=Bovine coronavir...  1233    0.0   
sp|P0C6T9|R1A_CVBLU Replicase polyprotein 1a OS=Bovine coronaviru...  1233    0.0   
sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavir...  1232    0.0   
sp|P0C6U4|R1A_CVHN2 Replicase polyprotein 1a OS=Human coronavirus...  1231    0.0   
sp|P0C6U0|R1A_CVBM Replicase polyprotein 1a OS=Bovine coronavirus...  1231    0.0   
sp|P0C6U1|R1A_CVBQ Replicase polyprotein 1a OS=Bovine coronavirus...  1231    0.0   
sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavir...  1230    0.0   
sp|P0C6U3|R1A_CVHN1 Replicase polyprotein 1a OS=Human coronavirus...  1230    0.0   
sp|P0C6U5|R1A_CVHN5 Replicase polyprotein 1a OS=Human coronavirus...  1228    0.0   
sp|P0C6X6|R1AB_CVHOC Replicase polyprotein 1ab OS=Human coronavir...  1214    0.0   
sp|P0C6U7|R1A_CVHOC Replicase polyprotein 1a OS=Human coronavirus...  1213    0.0   
sp|P0C6Y2|R1AB_IBVBC Replicase polyprotein 1ab OS=Avian infectiou...  770     0.0   
sp|P0C6Y1|R1AB_IBVB Replicase polyprotein 1ab OS=Avian infectious...  770     0.0   
sp|P0C6V4|R1A_IBVBC Replicase polyprotein 1a OS=Avian infectious ...  769     0.0   
sp|P0C6V3|R1A_IBVB Replicase polyprotein 1a OS=Avian infectious b...  769     0.0   
sp|P0C6Y3|R1AB_IBVM Replicase polyprotein 1ab OS=Avian infectious...  745     0.0   
sp|P0C6V5|R1A_IBVM Replicase polyprotein 1a OS=Avian infectious b...  745     0.0   
sp|P0C6F6|R1A_BC512 Replicase polyprotein 1a OS=Bat coronavirus 5...  574     4e-167
sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus...  573     7e-167
sp|P0C6U2|R1A_CVH22 Replicase polyprotein 1a OS=Human coronavirus...  554     2e-160
sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavir...  554     2e-160
sp|P0C6V6|R1A_PEDV7 Replicase polyprotein 1a OS=Porcine epidemic ...  537     4e-155
sp|P0C6Y4|R1AB_PEDV7 Replicase polyprotein 1ab OS=Porcine epidemi...  537     4e-155
sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavir...  525     6e-151
sp|P0C6U6|R1A_CVHNL Replicase polyprotein 1a OS=Human coronavirus...  524     6e-151
sp|Q98VG9|R1AB_FIPV Replicase polyprotein 1ab OS=Feline coronavir...  509     9e-146
sp|P0C6V2|R1A_CVPPU Replicase polyprotein 1a OS=Porcine transmiss...  507     2e-145
sp|P0C6Y5|R1AB_CVPPU Replicase polyprotein 1ab OS=Porcine transmi...  507     2e-145
sp|A7MG20|YMDB_CROS8 O-acetyl-ADP-ribose deacetylase OS=Cronobact...  200     3e-57 
sp|C9Y0V8|YMDB_CROTZ O-acetyl-ADP-ribose deacetylase OS=Cronobact...  198     6e-57 
sp|B7LT90|YMDB_ESCF3 O-acetyl-ADP-ribose deacetylase OS=Escherich...  195     1e-55 
sp|D2TT52|YMDB_CITRI O-acetyl-ADP-ribose deacetylase OS=Citrobact...  195     1e-55 
sp|B4T2X8|YMDB_SALNS O-acetyl-ADP-ribose deacetylase OS=Salmonell...  194     2e-55 
sp|B5F961|YMDB_SALA4 O-acetyl-ADP-ribose deacetylase OS=Salmonell...  194     2e-55 
sp|P67341|YMDB_SALTY O-acetyl-ADP-ribose deacetylase OS=Salmonell...  194     3e-55 
sp|P67342|YMDB_SALTI O-acetyl-ADP-ribose deacetylase OS=Salmonell...  194     3e-55 
sp|B5RBF3|YMDB_SALG2 O-acetyl-ADP-ribose deacetylase OS=Salmonell...  192     8e-55 
sp|P0A8D6|YMDB_ECOLI O-acetyl-ADP-ribose deacetylase OS=Escherich...  190     4e-54 
sp|P0A8D7|YMDB_ECOL6 O-acetyl-ADP-ribose deacetylase OS=Escherich...  190     4e-54 
sp|P0A8D8|YMDB_ECO57 O-acetyl-ADP-ribose deacetylase OS=Escherich...  190     4e-54 
sp|A8AI35|YMDB_CITK8 O-acetyl-ADP-ribose deacetylase OS=Citrobact...  190     5e-54 
sp|Q0T5Z6|YMDB_SHIF8 O-acetyl-ADP-ribose deacetylase OS=Shigella ...  189     1e-53 
sp|A4W960|YMDB_ENT38 O-acetyl-ADP-ribose deacetylase OS=Enterobac...  185     3e-52 
sp|D5CE05|YMDB_ENTCC O-acetyl-ADP-ribose deacetylase OS=Enterobac...  185     3e-52 
sp|Q32E73|YMDB_SHIDS O-acetyl-ADP-ribose deacetylase OS=Shigella ...  184     5e-52 
sp|D3RKJ0|YMDB_KLEVT O-acetyl-ADP-ribose deacetylase OS=Klebsiell...  184     6e-52 
sp|B5XXK9|YMDB_KLEP3 O-acetyl-ADP-ribose deacetylase OS=Klebsiell...  184     6e-52 
sp|E1SDF1|YMDB1_PANVC O-acetyl-ADP-ribose deacetylase 1 OS=Pantoe...  180     8e-51 
sp|Q8EYT0|Y4133_LEPIN Macro domain-containing protein LA_4133 OS=...  176     3e-49 
sp|Q72M93|Y3295_LEPIC Macro domain-containing protein LIC_13295 O...  176     3e-49 
sp|Q96XY5|Y2383_SULTO Uncharacterized protein STK_23830 OS=Sulfur...  171     3e-47 
sp|Q8RB30|Y995_CALS4 Macro domain-containing protein TTE0995 OS=C...  168     3e-46 
sp|Q97UU4|Y2899_SACS2 Uncharacterized protein SSO2899 OS=Saccharo...  167     5e-46 
sp|E1PL40|YMDB2_PANVC O-acetyl-ADP-ribose deacetylase 2 OS=Pantoe...  166     9e-46 
sp|Q8ZXT3|Y1111_PYRAE Uncharacterized protein PAE1111 OS=Pyrobacu...  164     5e-45 
sp|Q8TQD0|Y1614_METAC Macro domain-containing protein MA_1614 OS=...  164     7e-45 
sp|Q8KAE4|Y2219_CHLTE Macro domain-containing protein CT2219 OS=C...  163     2e-44 
sp|Q8Q0F9|Y177_METMA Macro domain-containing protein MM_0177 OS=M...  163     2e-44 
sp|Q93SX7|Y189_ACISE Macro domain-containing protein OS=Acinetoba...  159     4e-43 
sp|Q4J9D2|Y1252_SULAC Uncharacterized protein Saci_1252 OS=Sulfol...  158     7e-43 
sp|Q9EYI6|Y189_STRNO Macro domain-containing protein in sno 5'reg...  154     2e-41 
sp|Q87JZ5|Y4103_VIBPA Macro domain-containing protein VPA0103 OS=...  149     6e-40 
sp|Q8Y2K1|Y334_RALN1 Macro domain-containing protein RSc0334 OS=R...  149     9e-40 
sp|Q9WYX8|Y508_THEMA Uncharacterized protein TM_0508 OS=Thermotog...  161     1e-39 
sp|Q97AU0|Y719_THEVO Uncharacterized protein TV0719 OS=Thermoplas...  147     6e-39 
sp|Q8RHQ2|Y1951_FUSNN Uncharacterized protein FN1951 OS=Fusobacte...  143     1e-37 
sp|Q8IXQ6|PARP9_HUMAN Protein mono-ADP-ribosyltransferase PARP9 O...  139     6e-32 
sp|Q8CAS9|PARP9_MOUSE Protein mono-ADP-ribosyltransferase PARP9 O...  139     6e-32 
sp|Q460N5|PAR14_HUMAN Protein mono-ADP-ribosyltransferase PARP14 ...  140     8e-32 
sp|Q2EMV9|PAR14_MOUSE Protein mono-ADP-ribosyltransferase PARP14 ...  139     2e-31 
sp|P0C6F3|R1A_BEV Replicase polyprotein 1a OS=Berne virus OX=1115...  139     2e-31 
sp|P0C6V7|R1AB_BEV Replicase polyprotein 1ab OS=Berne virus OX=11...  139     3e-31 
sp|Q8BCR0|POLN_RUBVN Non-structural polyprotein p200 OS=Rubella v...  129     2e-28 
sp|P13889|POLN_RUBVT Non-structural polyprotein p200 OS=Rubella v...  129     3e-28 
sp|P36328|POLN_EEVVP Polyprotein P1234 OS=Venezuelan equine encep...  127     1e-27 
sp|P36327|POLN_EEVV3 Polyprotein P1234 OS=Venezuelan equine encep...  127     1e-27 
sp|P27282|POLN_EEVVT Polyprotein P1234 OS=Venezuelan equine encep...  127     1e-27 
sp|P0C6F4|R1A_BRV1 Replicase polyprotein 1a OS=Breda virus 1 OX=3...  126     3e-27 
sp|P0C6V8|R1AB_BRV1 Replicase polyprotein 1ab OS=Breda virus 1 OX...  126     3e-27 
sp|Q8V294|POLN_EEVVC Polyprotein P1234 OS=Venezuelan equine encep...  124     6e-27 
sp|Q9WJC7|POLN_EEVVM Polyprotein P1234 OS=Venezuelan equine encep...  124     7e-27 
sp|O40955|POLN_RUBVR Non-structural polyprotein p200 OS=Rubella v...  121     5e-26 

Sequences not found previously or not previously below threshold:

sp|Q9ZBG3|Y6450_STRCO Macro domain-containing protein SCO6450 OS=...  156     4e-42
sp|Q9KHE2|Y189_STRGR Macro domain-containing protein in non 5'reg...  154     2e-41
sp|Q7MTZ7|MACRO_PORGI Macro domain-containing protein PG1779 OS=P...  152     5e-41
sp|Q9HXU7|Y3693_PSEAE Macro domain-containing protein PA3693 OS=P...  149     8e-40
sp|Q8Y3S3|Y2759_LISMO Macro domain-containing protein lmo2759 OS=...  146     7e-39
sp|Q8P5Z8|Y3184_XANCP Macro domain-containing protein XCC3184 OS=...  146     9e-39
sp|Q8PHB6|Y3343_XANAC Macro domain-containing protein XAC3343 OS=...  146     1e-38
sp|Q71W03|Y2748_LISMF Macro domain-containing protein LMOf2365_27...  146     1e-38
sp|Q926Y8|Y2902_LISIN Macro domain-containing protein lin2902 OS=...  146     1e-38
sp|Q88SK6|Y3408_LACPL Macro domain-containing protein lp_3408 OS=...  145     2e-38
sp|Q44020|YGB2_CUPNE Macro domain-containing protein in gbd 3'reg...  143     9e-38
sp|Q6PAV8|MACD2_XENLA ADP-ribose glycohydrolase MACROD2 OS=Xenopu...  150     3e-37
sp|Q985D2|Y7730_RHILO Macro domain-containing protein mll7730 OS=...  139     4e-36
sp|A1Z1Q3|MACD2_HUMAN ADP-ribose glycohydrolase MACROD2 OS=Homo s...  146     5e-36
sp|Q3UYG8|MACD2_MOUSE ADP-ribose glycohydrolase MACROD2 OS=Mus mu...  147     8e-36
sp|Q8K4G6|MACD1_RAT ADP-ribose glycohydrolase MACROD1 (Fragment) ...  140     1e-35
sp|Q9RS39|Y2288_DEIRA Macro domain-containing protein DR_2288 OS=...  136     2e-35
sp|Q9BQ69|MACD1_HUMAN ADP-ribose glycohydrolase MACROD1 OS=Homo s...  141     3e-35
sp|Q922B1|MACD1_MOUSE ADP-ribose glycohydrolase MACROD1 OS=Mus mu...  141     5e-35
sp|Q2KHU5|MACD1_BOVIN ADP-ribose glycohydrolase MACROD1 OS=Bos ta...  139     1e-34
sp|Q9HJ67|Y1105_THEAC Uncharacterized protein Ta1105 OS=Thermopla...  133     6e-34
sp|O59182|Y1513_PYRHO Uncharacterized protein PH1513 OS=Pyrococcu...  115     1e-27
sp|Q9V0Y3|Y656_PYRAB Uncharacterized protein PYRAB06560 OS=Pyroco...  114     3e-27
sp|Q6X2U2|POLN_RUBVC Non-structural polyprotein p200 OS=Rubella v...  125     4e-27
sp|Q99IE5|POLN_RUBVV Non-structural polyprotein p200 OS=Rubella v...  124     5e-27
sp|Q99IE7|POLN_RUBVO Non-structural polyprotein p200 OS=Rubella v...  124     5e-27
sp|Q6X2U4|POLN_RUBVB Non-structural polyprotein p200 OS=Rubella v...  124     6e-27
sp|Q9J6K9|POLN_RUBVD Non-structural polyprotein p200 OS=Rubella v...  119     2e-25
sp|O28751|Y1521_ARCFU ADP-ribose glycohydrolase AF_1521 OS=Archae...  106     2e-24
sp|Q86500|POLN_RUBVM Non-structural polyprotein p200 OS=Rubella v...  111     4e-23
sp|P0DC29|ADPRH_STRPQ Protein-ADP-ribose hydrolase OS=Streptococc...  101     3e-22
sp|P0DC28|ADPRH_STRP3 Protein-ADP-ribose hydrolase OS=Streptococc...  101     3e-22
sp|Q99ZI6|ADPRH_STRP1 Protein-ADP-ribose hydrolase OS=Streptococc...  101     3e-22
sp|P0DN70|ADPRH_STRPG Protein-ADP-ribose hydrolase OS=Streptococc...  101     6e-22
sp|Q8P0X2|ADPRH_STRP8 Protein-ADP-ribose hydrolase OS=Streptococc...  101     6e-22
sp|Q5XC09|ADPRH_STRP6 Protein-ADP-ribose hydrolase OS=Streptococc...  101     6e-22
sp|Q8U0P9|Y1536_PYRFU Uncharacterized protein PF1536 OS=Pyrococcu...  97.9    1e-21
sp|Q5JER1|Y1890_THEKO Uncharacterized protein TK1890 OS=Thermococ...  97.6    1e-21
sp|Q8NYB7|ADPRH_STAAW Protein-ADP-ribose hydrolase OS=Staphylococ...  97.9    8e-21
sp|Q6GCE6|ADPRH_STAAS Protein-ADP-ribose hydrolase OS=Staphylococ...  97.9    8e-21
sp|Q5HIW9|ADPRH_STAAC Protein-ADP-ribose hydrolase OS=Staphylococ...  97.6    9e-21
sp|Q93RG0|ADPRH_TREMD Protein-ADP-ribose hydrolase OS=Treponema m...  97.6    1e-20
sp|Q4QXJ8|POLN_EEEVF Polyprotein P1234 OS=Eastern equine encephal...  104     1e-20
sp|Q6GJZ1|ADPRH_STAAR Protein-ADP-ribose hydrolase OS=Staphylococ...  97.2    1e-20
sp|A7T167|GDAP2_NEMVE Protein GDAP2 homolog OS=Nematostella vecte...  100     3e-20
sp|P67344|ADPRH_STAAN Protein-ADP-ribose hydrolase OS=Staphylococ...  95.6    4e-20
sp|P67343|ADPRH_STAAM Protein-ADP-ribose hydrolase OS=Staphylococ...  95.6    4e-20
sp|O67112|Y987_AQUAE Uncharacterized protein aq_987 OS=Aquifex ae...  92.2    6e-20
sp|P13896|POLN_WEEV Polyprotein P1234 OS=Western equine encephali...  99.9    2e-19
sp|P27283|POLN_SINDO Polyprotein P1234 OS=Sindbis virus subtype O...  98.3    6e-19
sp|Q306W6|POLN_EEEV1 Polyprotein P1234 OS=Eastern equine encephal...  98.3    7e-19
sp|P03317|POLN_SINDV Polyprotein P1234 OS=Sindbis virus OX=11034 ...  97.9    9e-19
sp|Q7TZB9|Y1934_MYCBO Uncharacterized protein Mb1934c OS=Mycobact...  93.7    1e-18
sp|P9WK29|Y1899_MYCTU Uncharacterized protein Rv1899c OS=Mycobact...  93.7    1e-18
sp|P9WK28|Y1899_MYCTO Uncharacterized protein MT1950 OS=Mycobacte...  93.7    1e-18
sp|Q86924|POLN_AURAV Polyprotein P1234 OS=Aura virus OX=44158 PE=...  96.4    2e-18
sp|Q306W8|POLN_EEEV8 Polyprotein P1234 OS=Eastern equine encephal...  95.6    4e-18
sp|O75367|H2AY_HUMAN Core histone macro-H2A.1 OS=Homo sapiens OX=...  90.6    1e-17
sp|Q02874|H2AY_RAT Core histone macro-H2A.1 OS=Rattus norvegicus ...  90.2    1e-17
sp|Q2KIX2|GDAP2_BOVIN Ganglioside-induced differentiation-associa...  91.8    2e-17
sp|O93327|H2AY_CHICK Core histone macro-H2A.1 OS=Gallus gallus OX...  90.2    2e-17
sp|Q9QZQ8|H2AY_MOUSE Core histone macro-H2A.1 OS=Mus musculus OX=...  89.9    2e-17
sp|Q8JUX6|POLN_CHIKS Polyprotein P1234 OS=Chikungunya virus (stra...  92.9    3e-17
sp|Q5XXP4|POLN_CHIK3 Polyprotein P1234 OS=Chikungunya virus (stra...  92.6    4e-17
sp|Q5XGM5|GDAP2_XENLA Ganglioside-induced differentiation-associa...  89.1    1e-16
sp|Q9DBL2|GDAP2_MOUSE Ganglioside-induced differentiation-associa...  89.1    1e-16
sp|O90370|POLN_ONNVI Polyprotein P1234 OS=O'nyong-nyong virus (st...  90.2    2e-16
sp|Q9NXN4|GDAP2_HUMAN Ganglioside-induced differentiation-associa...  87.9    2e-16
sp|P87515|POLN_BFV Polyprotein P1234 OS=Barmah forest virus OX=11...  89.5    3e-16
sp|Q5CZL1|GDAP2_XENTR Ganglioside-induced differentiation-associa...  87.5    4e-16
sp|O90368|POLN_ONNVS Polyprotein P1234 OS=O'nyong-nyong virus (st...  89.1    4e-16
sp|P13886|POLN_ONNVG Polyprotein P1234 OS=O'nyong-nyong virus (st...  89.1    4e-16
sp|Q8QZ73|POLN_MAYAB Polyprotein P1234 OS=Mayaro virus (strain Br...  88.7    6e-16
sp|Q66H63|GDAP2_RAT Ganglioside-induced differentiation-associate...  86.4    9e-16
sp|Q9YBE9|Y1648_AERPE Uncharacterized protein APE_1648.1 OS=Aerop...  80.2    1e-15
sp|P13887|POLN_RRVN Polyprotein P1234 OS=Ross river virus (strain...  86.8    2e-15
sp|P13888|POLN_RRVT Polyprotein nsP1234 (Fragment) OS=Ross river ...  85.6    4e-15
sp|Q66HX8|GDAP2_DANRE Ganglioside-induced differentiation-associa...  82.9    1e-14
sp|Q4R678|GDAP2_MACFA Ganglioside-induced differentiation-associa...  80.6    5e-14
sp|Q5Y389|POLN_GETV Polyprotein P1234 OS=Getah virus OX=59300 PE=...  81.4    1e-13
sp|Q6QLN1|POLN_AHEV Non-structural polyprotein pORF1 OS=Avian hep...  81.0    1e-13
sp|Q9JGL0|POLN_SAGV Polyprotein P1234 OS=Sagiyama virus OX=59303 ...  81.0    1e-13
sp|Q8QL53|POLN_SLDV Polyprotein P1234 OS=Sleeping disease virus O...  80.2    2e-13
sp|Q8JJX1|POLN_SPDV Polyprotein P1234 OS=Salmon pancreas disease ...  80.2    2e-13
sp|Q460N3|PAR15_HUMAN Protein mono-ADP-ribosyltransferase PARP15 ...  74.8    6e-12
sp|Q8CCK0|H2AW_MOUSE Core histone macro-H2A.2 OS=Mus musculus OX=...  69.4    9e-11
sp|Q9P0M6|H2AW_HUMAN Core histone macro-H2A.2 OS=Homo sapiens OX=...  69.4    1e-10
sp|Q7JUR6|GDAP2_DROME Protein GDAP2 homolog OS=Drosophila melanog...  69.8    2e-10
sp|Q9YLR1|POLN_HEVUS Non-structural polyprotein pORF1 OS=Hepatiti...  69.8    2e-10
sp|Q292F9|GDAP2_DROPS Protein GDAP2 homolog OS=Drosophila pseudoo...  67.9    6e-10
sp|A0A0D2UG83|H2AY_CAPO3 Histone macroH2A1.1 OS=Capsaspora owczar...  65.2    2e-09
sp|Q81862|POLN_HEVCH Non-structural polyprotein pORF1 OS=Hepatiti...  66.0    4e-09
sp|P33424|POLN_HEVPA Non-structural polyprotein pORF1 OS=Hepatiti...  66.0    4e-09
sp|P29324|POLN_HEVBU Non-structural polyprotein pORF1 OS=Hepatiti...  66.0    4e-09
sp|Q9WC28|POLN_HEVHY Non-structural polyprotein pORF1 OS=Hepatiti...  63.7    2e-08
sp|Q6J8G2|POLN_HEVMG Non-structural polyprotein pORF1 OS=Hepatiti...  63.7    2e-08
sp|Q04610|POLN_HEVMY Non-structural polyprotein pORF1 OS=Hepatiti...  62.5    5e-08
sp|Q9IVZ9|POLN_HEVCT Non-structural polyprotein pORF1 OS=Hepatiti...  62.1    6e-08
sp|Q03495|POLN_HEVME Non-structural polyprotein pORF1 OS=Hepatiti...  62.1    7e-08
sp|Q9M041|BH140_ARATH Transcription factor bHLH140 OS=Arabidopsis...  61.0    1e-07
sp|P08411|POLN_SFV Polyprotein P1234 OS=Semliki forest virus OX=1...  54.0    2e-05
sp|Q54PT1|GDAP2_DICDI Protein GDAP2 homolog OS=Dictyostelium disc...  53.3    2e-05
sp|P26627|R1AB_CVMJD Replicase polyprotein 1ab (Fragment) OS=Muri...  52.9    2e-05
sp|Q008X6|R1AB_WBV24 Replicase polyprotein 1ab OS=White bream vir...  52.1    8e-05
sp|Q008X5|R1A_WBV24 Replicase polyprotein 1a OS=White bream virus...  51.7    8e-05
sp|Q5A1V3|POA1_CANAL ADP-ribose 1''-phosphate phosphatase OS=Cand...  40.9    0.032
sp|Q9Z1Q1|NEST_MESAU Nestin (Fragments) OS=Mesocricetus auratus O...  41.7    0.086
sp|Q8IRB5|CLSPN_DROME Claspin OS=Drosophila melanogaster OX=7227 ...  40.9    0.16 
sp|F1QGD2|ZDH24_DANRE Probable palmitoyltransferase ZDHHC24 OS=Da...  40.2    0.17 
sp|Q67ES1|TR113_RAT Taste receptor type 2 member 113 OS=Rattus no...  39.8    0.24 
sp|P46565|SRG8_CAEEL Serpentine receptor class gamma-8 OS=Caenorh...  39.4    0.29 
sp|Q03F26|TIG_PEDPA Trigger factor OS=Pediococcus pentosaceus (st...  39.8    0.29 
sp|Q864G6|MSHR_ALOSE Melanocyte-stimulating hormone receptor OS=A...  39.4    0.31 
sp|P29402|CALX1_ARATH Calnexin homolog 1 OS=Arabidopsis thaliana ...  39.8    0.33 
sp|Q03QN6|TIG_LEVBA Trigger factor OS=Levilactobacillus brevis (s...  39.4    0.36 
sp|Q12019|MDN1_YEAST Midasin OS=Saccharomyces cerevisiae (strain ...  39.4    0.47 
sp|Q9V4C8|HCF_DROME Host cell factor OS=Drosophila melanogaster O...  39.4    0.49 
sp|Q33568|CYB_TRYBO Cytochrome b OS=Trypanoplasma borreli OX=5710...  38.2    0.68 
sp|A5E287|POA1_LODEL ADP-ribose 1''-phosphate phosphatase OS=Lodd...  36.7    0.78 
sp|A5N5W0|PANB_CLOK5 3-methyl-2-oxobutanoate hydroxymethyltransfe...  37.9    0.81 
sp|Q58990|Y1595_METJA UPF0104 membrane protein MJ1595 OS=Methanoc...  37.9    0.88 
sp|Q5AS82|GMT1_EMENI GDP-mannose transporter 1 OS=Emericella nidu...  37.5    1.4  
sp|Q6CRE9|FYV8_KLULA Protein FYV8 OS=Kluyveromyces lactis (strain...  37.5    1.6  
sp|Q8Y4A9|PRMC_LISMO Release factor glutamine methyltransferase O...  36.7    1.8  
sp|Q9Y2T5|GPR52_HUMAN G-protein coupled receptor 52 OS=Homo sapie...  36.7    2.4  
sp|A0A452G813|CSCL1_CAPHI CSC1-like protein 1 OS=Capra hircus OX=...  37.1    2.5  
sp|Q6YQV9|EFG_ONYPE Elongation factor G OS=Onion yellows phytopla...  36.7    2.9  
sp|Q97KC9|SYE_CLOAB Glutamate--tRNA ligase OS=Clostridium acetobu...  35.9    4.0  
sp|P51937|NU1M_DROSU NADH-ubiquinone oxidoreductase chain 1 OS=Dr...  35.5    4.1  
sp|P07710|NU1M_DROYA NADH-ubiquinone oxidoreductase chain 1 OS=Dr...  35.5    5.2  
sp|B2V5H4|SYE_CLOBA Glutamate--tRNA ligase OS=Clostridium botulin...  35.5    6.2  
sp|P18929|NU1M_DROME NADH-ubiquinone oxidoreductase chain 1 OS=Dr...  34.8    7.8  
sp|A1EGX6|FSCB_MOUSE Fibrous sheath CABYR-binding protein OS=Mus ...  35.2    8.4  
sp|Q39994|CALX_HELTU Calnexin homolog OS=Helianthus tuberosus OX=...  35.2    8.7  
sp|P84294|NU1M_DROPE NADH-ubiquinone oxidoreductase chain 1 OS=Dr...  34.8    8.9  
sp|Q6Q487|CALX_ASPFU Calnexin homolog OS=Aspergillus fumigatus (s...  34.8    8.9  


>sp|P0DTD1|R1AB_SARS2 Replicase polyprotein 1ab OS=Severe acute 
respiratory syndrome coronavirus 2 OX=2697049 GN=rep PE=1 
SV=1
Length=7096

 Score = 2604 bits (6749),  Expect = 0.0, Method: Composition-based stats.
 Identities = 1945/1945 (100%), Positives = 1945/1945 (100%), Gaps = 0/1945 (0%)

Query  1     APTKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADA  60
             APTKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADA
Sbjct  819   APTKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADA  878

Query  61    VIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE  120
             VIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE
Sbjct  879   VIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE  938

Query  121   EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQ  180
             EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQ
Sbjct  939   EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQ  998

Query  181   TTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVV  240
             TTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVV
Sbjct  999   TTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVV  1058

Query  241   NAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVV  300
             NAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVV
Sbjct  1059  NAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVV  1118

Query  301   GPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVF  360
             GPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVF
Sbjct  1119  GPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVF  1178

Query  361   DKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEE  420
             DKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEE
Sbjct  1179  DKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEE  1238

Query  421   VTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVLTA  480
             VTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVLTA
Sbjct  1239  VTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVLTA  1298

Query  481   VVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPS  540
             VVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPS
Sbjct  1299  VVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPS  1358

Query  541   IISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDY  600
             IISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDY
Sbjct  1359  IISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDY  1418

Query  601   GARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVS  660
             GARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVS
Sbjct  1419  GARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVS  1478

Query  661   SPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVYYT  720
             SPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVYYT
Sbjct  1479  SPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVYYT  1538

Query  721   SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTY  780
             SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTY
Sbjct  1539  SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTY  1598

Query  781   LDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKY  840
             LDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKY
Sbjct  1599  LDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKY  1658

Query  841   PQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYC  900
             PQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYC
Sbjct  1659  PQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYC  1718

Query  901   NKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQ  960
             NKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQ
Sbjct  1719  NKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQ  1778

Query  961   FKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKH  1020
             FKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKH
Sbjct  1779  FKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKH  1838

Query  1021  ITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDN  1080
             ITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDN
Sbjct  1839  ITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDN  1898

Query  1081  YYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVT  1140
             YYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVT
Sbjct  1899  YYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVT  1958

Query  1141  FFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKP  1200
             FFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKP
Sbjct  1959  FFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKP  2018

Query  1201  VETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILK  1260
             VETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILK
Sbjct  2019  VETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILK  2078

Query  1261  PANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTI  1320
             PANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTI
Sbjct  2079  PANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTI  2138

Query  1321  ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTI  1380
             ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTI
Sbjct  2139  ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTI  2198

Query  1381  AKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLG  1440
             AKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLG
Sbjct  2199  AKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLG  2258

Query  1441  MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDL  1500
             MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDL
Sbjct  2259  MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDL  2318

Query  1501  TAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPIS  1560
             TAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPIS
Sbjct  2319  TAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPIS  2378

Query  1561  AMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYA  1620
             AMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYA
Sbjct  2379  AMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYA  2438

Query  1621  NGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKN  1680
             NGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKN
Sbjct  2439  NGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKN  2498

Query  1681  GSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSAS  1740
             GSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSAS
Sbjct  2499  GSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSAS  2558

Query  1741  VYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEA  1800
             VYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEA
Sbjct  2559  VYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEA  2618

Query  1801  ELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYN  1860
             ELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYN
Sbjct  2619  ELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYN  2678

Query  1861  KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNL  1920
             KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNL
Sbjct  2679  KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNL  2738

Query  1921  PFKLTCATTRQVVNVVTTKIALKGG  1945
             PFKLTCATTRQVVNVVTTKIALKGG
Sbjct  2739  PFKLTCATTRQVVNVVTTKIALKGG  2763


>sp|P0DTC1|R1A_SARS2 Replicase polyprotein 1a OS=Severe acute 
respiratory syndrome coronavirus 2 OX=2697049 PE=1 SV=1
Length=4405

 Score = 2603 bits (6747),  Expect = 0.0, Method: Composition-based stats.
 Identities = 1945/1945 (100%), Positives = 1945/1945 (100%), Gaps = 0/1945 (0%)

Query  1     APTKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADA  60
             APTKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADA
Sbjct  819   APTKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADA  878

Query  61    VIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE  120
             VIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE
Sbjct  879   VIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE  938

Query  121   EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQ  180
             EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQ
Sbjct  939   EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQ  998

Query  181   TTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVV  240
             TTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVV
Sbjct  999   TTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVV  1058

Query  241   NAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVV  300
             NAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVV
Sbjct  1059  NAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVV  1118

Query  301   GPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVF  360
             GPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVF
Sbjct  1119  GPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVF  1178

Query  361   DKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEE  420
             DKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEE
Sbjct  1179  DKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEE  1238

Query  421   VTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVLTA  480
             VTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVLTA
Sbjct  1239  VTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVLTA  1298

Query  481   VVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPS  540
             VVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPS
Sbjct  1299  VVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPS  1358

Query  541   IISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDY  600
             IISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDY
Sbjct  1359  IISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDY  1418

Query  601   GARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVS  660
             GARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVS
Sbjct  1419  GARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVS  1478

Query  661   SPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVYYT  720
             SPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVYYT
Sbjct  1479  SPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVYYT  1538

Query  721   SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTY  780
             SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTY
Sbjct  1539  SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTY  1598

Query  781   LDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKY  840
             LDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKY
Sbjct  1599  LDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKY  1658

Query  841   PQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYC  900
             PQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYC
Sbjct  1659  PQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYC  1718

Query  901   NKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQ  960
             NKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQ
Sbjct  1719  NKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQ  1778

Query  961   FKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKH  1020
             FKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKH
Sbjct  1779  FKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKH  1838

Query  1021  ITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDN  1080
             ITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDN
Sbjct  1839  ITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDN  1898

Query  1081  YYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVT  1140
             YYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVT
Sbjct  1899  YYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVT  1958

Query  1141  FFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKP  1200
             FFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKP
Sbjct  1959  FFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKP  2018

Query  1201  VETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILK  1260
             VETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILK
Sbjct  2019  VETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILK  2078

Query  1261  PANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTI  1320
             PANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTI
Sbjct  2079  PANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTI  2138

Query  1321  ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTI  1380
             ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTI
Sbjct  2139  ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTI  2198

Query  1381  AKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLG  1440
             AKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLG
Sbjct  2199  AKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLG  2258

Query  1441  MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDL  1500
             MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDL
Sbjct  2259  MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDL  2318

Query  1501  TAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPIS  1560
             TAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPIS
Sbjct  2319  TAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPIS  2378

Query  1561  AMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYA  1620
             AMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYA
Sbjct  2379  AMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYA  2438

Query  1621  NGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKN  1680
             NGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKN
Sbjct  2439  NGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKN  2498

Query  1681  GSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSAS  1740
             GSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSAS
Sbjct  2499  GSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSAS  2558

Query  1741  VYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEA  1800
             VYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEA
Sbjct  2559  VYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEA  2618

Query  1801  ELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYN  1860
             ELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYN
Sbjct  2619  ELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYN  2678

Query  1861  KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNL  1920
             KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNL
Sbjct  2679  KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNL  2738

Query  1921  PFKLTCATTRQVVNVVTTKIALKGG  1945
             PFKLTCATTRQVVNVVTTKIALKGG
Sbjct  2739  PFKLTCATTRQVVNVVTTKIALKGG  2763


>sp|P0C6U8|R1A_SARS Replicase polyprotein 1a OS=Severe acute respiratory 
syndrome coronavirus OX=694009 GN=1a PE=1 SV=1
Length=4382

 Score = 2518 bits (6527),  Expect = 0.0, Method: Composition-based stats.
 Identities = 1472/1948 (76%), Positives = 1671/1948 (86%), Gaps = 29/1948 (1%)

Query  1     APTK-VTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             AP K VTFG+DTV EVQGYK+V ITFELDER+DKVLNEKCS YTVE GTEV EFACVVA+
Sbjct  819   APIKGVTFGEDTVWEVQGYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE  878

Query  60    AVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCE  119
             AV+KTLQPVS+LLT +GIDLDEWS+AT+YLFD++GE   +S MYCSFYPPDE+EE+    
Sbjct  879   AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDAGEENFSSRMYCSFYPPDEEEEDDAEC  938

Query  120   EEEFEPSTQ-YEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSED  178
             EEE    T  +EYGTEDDYQG PLEFGA++  ++ EEE+EEDWLDD ++Q+         
Sbjct  939   EEEEIDETCEHEYGTEDDYQGLPLEFGASAETVRVEEEEEEDWLDDTTEQSE--------  990

Query  179   NQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTV  238
                                         VN F+GYLKLTDNV IK  DIV+EA+   P V
Sbjct  991   ----------------IEPEPEPTPEEPVNQFTGYLKLTDNVAIKCVDIVKEAQSANPMV  1034

Query  239   VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLH  298
             +VNAAN++LKHGGGVAGALNKATN AMQ ESDDYI  NGPL VGGSC+LSGHNLAK CLH
Sbjct  1035  IVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGSCLLSGHNLAKKCLH  1094

Query  299   VVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLA  358
             VVGPN+N GEDIQLLK+AYENFN  ++LLAPLLSAGIFGA P+ SL+VCV TVRT VY+A
Sbjct  1095  VVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSLQVCVQTVRTQVYIA  1154

Query  359   VFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACV  418
             V DK LY+++V  +L+    +    K  E P    +   TE K  V++      KIKAC+
Sbjct  1155  VNDKALYEQVVMDYLDNLKPRVEAPKQEEPPN--TEDSKTEEKSVVQKPVDVKPKIKACI  1212

Query  419   EEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVL  478
             +EVTTTLEETKFLT  LLL+ DING L+ DS  ++   D++FL+KDAPY+VGDV+  G +
Sbjct  1213  DEVTTTLEETKFLTNKLLLFADINGKLYHDSQNMLRGEDMSFLEKDAPYMVGDVITSGDI  1272

Query  479   TAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYIL  538
             T VVIP+KKAGGTTEML++AL+KVP D YITTYPGQG  GYT+EEAKT LKKCKSAFY+L
Sbjct  1273  TCVVIPSKKAGGTTEMLSRALKKVPVDEYITTYPGQGCAGYTLEEAKTALKKCKSAFYVL  1332

Query  539   PSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVV  598
             PS   N K+EILGTVSWNLREMLAHAEETRKLMP+C++ +AI++TIQRKYKGIKIQEG+V
Sbjct  1333  PSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQRKYKGIKIQEGIV  1392

Query  599   DYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVS  658
             DYG RF+FYTSK  VAS+I  LN LNE LVTMP+GYVTHG NLEEAAR MRSLK PA VS
Sbjct  1393  DYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKAPAVVS  1452

Query  659   VSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVY  718
             VSSPDAVT YNGYLTSSSKT EEHF+ET+SLAGSY+DWSYSGQ T+LG+EFLKRGDK VY
Sbjct  1453  VSSPDAVTTYNGYLTSSSKTSEEHFVETVSLAGSYRDWSYSGQRTELGVEFLKRGDKIVY  1512

Query  719   YT-SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFG  777
             +T  +P  FHLDGEV++ D LK+LLSLREV+TIKVFTTVDN NLHTQ+VDMSMTYGQQFG
Sbjct  1513  HTLESPVEFHLDGEVLSLDKLKSLLSLREVKTIKVFTTVDNTNLHTQLVDMSMTYGQQFG  1572

Query  778   PTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKK  837
             PTYLDGADVTKIKPH +HEGKTF+VLP+DDTLR EAFEYYHT D SFLGRYMSALNHTKK
Sbjct  1573  PTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYMSALNHTKK  1632

Query  838   WKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALIL  897
             WK+PQV GLTSIKWADNNCYL++ LL LQQ+E+KFN PALQ+AYYRARAG+AANFCALIL
Sbjct  1633  WKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALIL  1692

Query  898   AYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLS  957
             AY NKTVGELGDVRETM++L QHANL+S KRVLNVVCK CGQ+ TTL GVEAVMYMGTLS
Sbjct  1693  AYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLS  1752

Query  958   YEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGH  1017
             Y+  K GV IPC CG+ AT+YLVQQES FVMMSAPPA+Y+L+ GTF CA+EYTGNYQCGH
Sbjct  1753  YDNLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGH  1812

Query  1018  YKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPK  1077
             Y HIT+KETLY IDGA LTK SEYKGP+TDVFYKE SYTTTIKPV+YKLDGV  TEI+PK
Sbjct  1813  YTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIKPVSYKLDGVTYTEIEPK  1872

Query  1078  LDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASREL  1137
             LD YYKKDN+Y+TEQPIDLVP QP PNASFDNFK  C N KFADDLNQ+TG+ KPASREL
Sbjct  1873  LDGYYKKDNAYYTEQPIDLVPTQPLPNASFDNFKLTCSNTKFADDLNQMTGFTKPASREL  1932

Query  1138  KVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWS  1197
              VTFFPDLNGDVVAIDY+HY+ SFKKGAKLLHKPIVWH+N AT K T+KPNTWC+RCLWS
Sbjct  1933  SVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIVWHINQATTKTTFKPNTWCLRCLWS  1992

Query  1198  TKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDI  1257
             TKPV+TSNSF+VL  ED QGMDNLACE  +P SEEVVENPTIQK+V+EC+VKTTEVVG++
Sbjct  1993  TKPVDTSNSFEVLAVEDTQGMDNLACESQQPTSEEVVENPTIQKEVIECDVKTTEVVGNV  2052

Query  1258  ILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPW  1317
             ILKP++  +K+T+E+GH DLMAAYV+N+S+TIKKPNELS  LGLKT+ATHG+AA+NSVPW
Sbjct  2053  ILKPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAINSVPW  2112

Query  1318  DTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMP  1377
               I  Y KPFL +   TT+N   R   RV  NYMPY FTLL QLCTFT+STNSRI+AS+P
Sbjct  2113  SKILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFTKSTNSRIRASLP  2172

Query  1378  TTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMS  1437
             TTIAKN+VKSV K CL+A  NY+KSP FSKL  I +W LLLS+CLGSLI  TAA GVL+S
Sbjct  2173  TTIAKNSVKSVAKLCLDAGINYVKSPKFSKLFTIAMWLLLLSICLGSLICVTAAFGVLLS  2232

Query  1438  NLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFK  1497
             N G PSYC G RE YLNS+NVT   +C GS PCS+CLSGLDSLD+YP+LETIQ+TISS+K
Sbjct  2233  NFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETIQVTISSYK  2292

Query  1498  WDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMA  1557
              DLT  GL AEW LAY+LFT+FFY+LGL+AIMQ+FF YFA HFISNSWLMW II++VQMA
Sbjct  2293  LDLTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMWFIISIVQMA  2352

Query  1558  PISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFY  1617
             P+SAMVRMYIFFASFYY+WKSYVH++DGC SSTCMMCYKRNRATRVECTTIVNG++RSFY
Sbjct  2353  PVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMKRSFY  2412

Query  1618  VYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVT  1677
             VYANGG+GFCK HNWNC+NCDTFC GSTFISDEVARDLSLQFKRPINPTDQSSYIVDSV 
Sbjct  2413  VYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVA  2472

Query  1678  VKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAK  1737
             VKNG++HLYFDKAGQKTYERH LSHFVNLDNLRANNTKGSLPINVIVFDGKSKC+ES++K
Sbjct  2473  VKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCDESASK  2532

Query  1738  SASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVAT  1797
             SASVYYSQLMCQPILLLDQALVSDVGDS EV+VKMFDAYV+TFS+TF+VPMEKLK LVAT
Sbjct  2533  SASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLKALVAT  2592

Query  1798  AEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYML  1857
             A +ELAK V+LD VLSTF+SAARQG VD+DV+TKDV+ECLKLSH SD+EVTGDSCNN+ML
Sbjct  2593  AHSELAKGVALDGVLSTFVSAARQGVVDTDVDTKDVIECLKLSHHSDLEVTGDSCNNFML  2652

Query  1858  TYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKK  1917
             TYNKVENMTPRDLGACIDC+ARHINAQVAKSHN++LIWNVKD+MSLSEQLRKQIRSAAKK
Sbjct  2653  TYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQLRKQIRSAAKK  2712

Query  1918  NNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             NN+PF+LTCATTRQVVNV+TTKI+LKGG
Sbjct  2713  NNIPFRLTCATTRQVVNVITTKISLKGG  2740


>sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute 
respiratory syndrome coronavirus OX=694009 GN=rep PE=1 SV=1
Length=7073

 Score = 2515 bits (6518),  Expect = 0.0, Method: Composition-based stats.
 Identities = 1472/1948 (76%), Positives = 1671/1948 (86%), Gaps = 29/1948 (1%)

Query  1     APTK-VTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             AP K VTFG+DTV EVQGYK+V ITFELDER+DKVLNEKCS YTVE GTEV EFACVVA+
Sbjct  819   APIKGVTFGEDTVWEVQGYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE  878

Query  60    AVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCE  119
             AV+KTLQPVS+LLT +GIDLDEWS+AT+YLFD++GE   +S MYCSFYPPDE+EE+    
Sbjct  879   AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDAGEENFSSRMYCSFYPPDEEEEDDAEC  938

Query  120   EEEFEPSTQ-YEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSED  178
             EEE    T  +EYGTEDDYQG PLEFGA++  ++ EEE+EEDWLDD ++Q+         
Sbjct  939   EEEEIDETCEHEYGTEDDYQGLPLEFGASAETVRVEEEEEEDWLDDTTEQSE--------  990

Query  179   NQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTV  238
                                         VN F+GYLKLTDNV IK  DIV+EA+   P V
Sbjct  991   ----------------IEPEPEPTPEEPVNQFTGYLKLTDNVAIKCVDIVKEAQSANPMV  1034

Query  239   VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLH  298
             +VNAAN++LKHGGGVAGALNKATN AMQ ESDDYI  NGPL VGGSC+LSGHNLAK CLH
Sbjct  1035  IVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGSCLLSGHNLAKKCLH  1094

Query  299   VVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLA  358
             VVGPN+N GEDIQLLK+AYENFN  ++LLAPLLSAGIFGA P+ SL+VCV TVRT VY+A
Sbjct  1095  VVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSLQVCVQTVRTQVYIA  1154

Query  359   VFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACV  418
             V DK LY+++V  +L+    +    K  E P    +   TE K  V++      KIKAC+
Sbjct  1155  VNDKALYEQVVMDYLDNLKPRVEAPKQEEPPN--TEDSKTEEKSVVQKPVDVKPKIKACI  1212

Query  419   EEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVL  478
             +EVTTTLEETKFLT  LLL+ DING L+ DS  ++   D++FL+KDAPY+VGDV+  G +
Sbjct  1213  DEVTTTLEETKFLTNKLLLFADINGKLYHDSQNMLRGEDMSFLEKDAPYMVGDVITSGDI  1272

Query  479   TAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYIL  538
             T VVIP+KKAGGTTEML++AL+KVP D YITTYPGQG  GYT+EEAKT LKKCKSAFY+L
Sbjct  1273  TCVVIPSKKAGGTTEMLSRALKKVPVDEYITTYPGQGCAGYTLEEAKTALKKCKSAFYVL  1332

Query  539   PSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVV  598
             PS   N K+EILGTVSWNLREMLAHAEETRKLMP+C++ +AI++TIQRKYKGIKIQEG+V
Sbjct  1333  PSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQRKYKGIKIQEGIV  1392

Query  599   DYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVS  658
             DYG RF+FYTSK  VAS+I  LN LNE LVTMP+GYVTHG NLEEAAR MRSLK PA VS
Sbjct  1393  DYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKAPAVVS  1452

Query  659   VSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVY  718
             VSSPDAVT YNGYLTSSSKT EEHF+ET+SLAGSY+DWSYSGQ T+LG+EFLKRGDK VY
Sbjct  1453  VSSPDAVTTYNGYLTSSSKTSEEHFVETVSLAGSYRDWSYSGQRTELGVEFLKRGDKIVY  1512

Query  719   YT-SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFG  777
             +T  +P  FHLDGEV++ D LK+LLSLREV+TIKVFTTVDN NLHTQ+VDMSMTYGQQFG
Sbjct  1513  HTLESPVEFHLDGEVLSLDKLKSLLSLREVKTIKVFTTVDNTNLHTQLVDMSMTYGQQFG  1572

Query  778   PTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKK  837
             PTYLDGADVTKIKPH +HEGKTF+VLP+DDTLR EAFEYYHT D SFLGRYMSALNHTKK
Sbjct  1573  PTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYMSALNHTKK  1632

Query  838   WKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALIL  897
             WK+PQV GLTSIKWADNNCYL++ LL LQQ+E+KFN PALQ+AYYRARAG+AANFCALIL
Sbjct  1633  WKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALIL  1692

Query  898   AYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLS  957
             AY NKTVGELGDVRETM++L QHANL+S KRVLNVVCK CGQ+ TTL GVEAVMYMGTLS
Sbjct  1693  AYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLS  1752

Query  958   YEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGH  1017
             Y+  K GV IPC CG+ AT+YLVQQES FVMMSAPPA+Y+L+ GTF CA+EYTGNYQCGH
Sbjct  1753  YDNLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGH  1812

Query  1018  YKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPK  1077
             Y HIT+KETLY IDGA LTK SEYKGP+TDVFYKE SYTTTIKPV+YKLDGV  TEI+PK
Sbjct  1813  YTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIKPVSYKLDGVTYTEIEPK  1872

Query  1078  LDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASREL  1137
             LD YYKKDN+Y+TEQPIDLVP QP PNASFDNFK  C N KFADDLNQ+TG+ KPASREL
Sbjct  1873  LDGYYKKDNAYYTEQPIDLVPTQPLPNASFDNFKLTCSNTKFADDLNQMTGFTKPASREL  1932

Query  1138  KVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWS  1197
              VTFFPDLNGDVVAIDY+HY+ SFKKGAKLLHKPIVWH+N AT K T+KPNTWC+RCLWS
Sbjct  1933  SVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIVWHINQATTKTTFKPNTWCLRCLWS  1992

Query  1198  TKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDI  1257
             TKPV+TSNSF+VL  ED QGMDNLACE  +P SEEVVENPTIQK+V+EC+VKTTEVVG++
Sbjct  1993  TKPVDTSNSFEVLAVEDTQGMDNLACESQQPTSEEVVENPTIQKEVIECDVKTTEVVGNV  2052

Query  1258  ILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPW  1317
             ILKP++  +K+T+E+GH DLMAAYV+N+S+TIKKPNELS  LGLKT+ATHG+AA+NSVPW
Sbjct  2053  ILKPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAINSVPW  2112

Query  1318  DTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMP  1377
               I  Y KPFL +   TT+N   R   RV  NYMPY FTLL QLCTFT+STNSRI+AS+P
Sbjct  2113  SKILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFTKSTNSRIRASLP  2172

Query  1378  TTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMS  1437
             TTIAKN+VKSV K CL+A  NY+KSP FSKL  I +W LLLS+CLGSLI  TAA GVL+S
Sbjct  2173  TTIAKNSVKSVAKLCLDAGINYVKSPKFSKLFTIAMWLLLLSICLGSLICVTAAFGVLLS  2232

Query  1438  NLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFK  1497
             N G PSYC G RE YLNS+NVT   +C GS PCS+CLSGLDSLD+YP+LETIQ+TISS+K
Sbjct  2233  NFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETIQVTISSYK  2292

Query  1498  WDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMA  1557
              DLT  GL AEW LAY+LFT+FFY+LGL+AIMQ+FF YFA HFISNSWLMW II++VQMA
Sbjct  2293  LDLTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMWFIISIVQMA  2352

Query  1558  PISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFY  1617
             P+SAMVRMYIFFASFYY+WKSYVH++DGC SSTCMMCYKRNRATRVECTTIVNG++RSFY
Sbjct  2353  PVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMKRSFY  2412

Query  1618  VYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVT  1677
             VYANGG+GFCK HNWNC+NCDTFC GSTFISDEVARDLSLQFKRPINPTDQSSYIVDSV 
Sbjct  2413  VYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVA  2472

Query  1678  VKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAK  1737
             VKNG++HLYFDKAGQKTYERH LSHFVNLDNLRANNTKGSLPINVIVFDGKSKC+ES++K
Sbjct  2473  VKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCDESASK  2532

Query  1738  SASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVAT  1797
             SASVYYSQLMCQPILLLDQALVSDVGDS EV+VKMFDAYV+TFS+TF+VPMEKLK LVAT
Sbjct  2533  SASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLKALVAT  2592

Query  1798  AEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYML  1857
             A +ELAK V+LD VLSTF+SAARQG VD+DV+TKDV+ECLKLSH SD+EVTGDSCNN+ML
Sbjct  2593  AHSELAKGVALDGVLSTFVSAARQGVVDTDVDTKDVIECLKLSHHSDLEVTGDSCNNFML  2652

Query  1858  TYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKK  1917
             TYNKVENMTPRDLGACIDC+ARHINAQVAKSHN++LIWNVKD+MSLSEQLRKQIRSAAKK
Sbjct  2653  TYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQLRKQIRSAAKK  2712

Query  1918  NNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             NN+PF+LTCATTRQVVNV+TTKI+LKGG
Sbjct  2713  NNIPFRLTCATTRQVVNVITTKISLKGG  2740


>sp|P0C6T7|R1A_BCRP3 Replicase polyprotein 1a OS=Bat coronavirus 
Rp3/2004 OX=349344 GN=1a PE=3 SV=1
Length=4380

 Score = 2501 bits (6481),  Expect = 0.0, Method: Composition-based stats.
 Identities = 1459/1949 (75%), Positives = 1670/1949 (86%), Gaps = 33/1949 (2%)

Query  1     APTK-VTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             APTK VTFG+DTV+EVQGYK+V ITFELDER+DKVLNEKCS YTVE GTEV EFACVVA+
Sbjct  819   APTKGVTFGEDTVVEVQGYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE  878

Query  60    AVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCE  119
             AV+KTLQPVS+LLT +GIDLDEWS+AT+YLFD+SGE KL+S MYCSFYPPDE+E+  + E
Sbjct  879   AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDSGEEKLSSRMYCSFYPPDEEEDCEEYE  938

Query  120   EEEFEP--STQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSE  177
             EEE     + ++EYGTE+DY+G PLEFGA++  +Q EE++EEDWLDD             
Sbjct  939   EEEEVSERTCEHEYGTEEDYKGLPLEFGASTDIIQVEEQEEEDWLDDAV-----------  987

Query  178   DNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPT  237
                                     +    VN  +GYLKLTDNV IK  DIVEEA+   P 
Sbjct  988   ----------------EAEPEPEPLHEEPVNQLTGYLKLTDNVAIKCVDIVEEAQNANPM  1031

Query  238   VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCL  297
             V+VNAAN++LKHGGGVAGALNKATN AMQ ESD YI  NGPL VGGSC+LSGHNLAK CL
Sbjct  1032  VIVNAANIHLKHGGGVAGALNKATNGAMQKESDHYIKLNGPLTVGGSCLLSGHNLAKKCL  1091

Query  298   HVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYL  357
             HVVGPN+N GEDIQLLK+AYENFN  ++LLAPLLSAGIFGA P+ SL++CV TVRT VY+
Sbjct  1092  HVVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSLQMCVQTVRTQVYI  1151

Query  358   AVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKAC  417
              V DK LY+++V  +L+    K    K   +PK E      + K  V++      KIKAC
Sbjct  1152  VVNDKVLYEQVVMDYLDSLKPKVEAPKQEVLPKAEYPK--VDEKSVVQKTIDVKPKIKAC  1209

Query  418   VEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGV  477
             ++EVTTTLEETKFLT  LLL+ DING L+ DS  ++   D++FL+KDAPY+VGDV+  G 
Sbjct  1210  IDEVTTTLEETKFLTNKLLLFTDINGKLYQDSKNMLRGEDMSFLEKDAPYMVGDVITSGD  1269

Query  478   LTAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYI  537
             +T VVIP+KKAGGTTEML++AL+KVP + YITTYPGQG  GYT+EEAKT LKKCKSAFY+
Sbjct  1270  ITCVVIPSKKAGGTTEMLSRALKKVPINEYITTYPGQGCAGYTLEEAKTALKKCKSAFYV  1329

Query  538   LPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGV  597
             LPS   N K+EILGTVSWNLREMLAHAEETRKLMPVC++ +AI++TIQRKYKGIKIQEG+
Sbjct  1330  LPSETPNAKEEILGTVSWNLREMLAHAEETRKLMPVCMDVRAIMATIQRKYKGIKIQEGI  1389

Query  598   VDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATV  657
             VDYG RF+FYTSK  VAS+I  LN LNE LVTMP+GYVTHG NLEEAAR MRSLK PA V
Sbjct  1390  VDYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKAPAIV  1449

Query  658   SVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSV  717
             SVSSPDAVT YNGYLTSSSKT E+HF+ET+SLAGSY+DWSYSGQ T+LG+EFLKRG+K V
Sbjct  1450  SVSSPDAVTTYNGYLTSSSKTSEDHFVETVSLAGSYRDWSYSGQRTELGVEFLKRGEKIV  1509

Query  718   YYT-SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQF  776
             Y+T  +P  FHLDGEV+  D LK+LLSLREV+TIKVFTTVDN NLHTQ+VDMSMTYGQQ 
Sbjct  1510  YHTLESPVKFHLDGEVLPLDKLKSLLSLREVKTIKVFTTVDNTNLHTQLVDMSMTYGQQL  1569

Query  777   GPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTK  836
             GPTYL+GADVTKIKPH +HEGKTF+VLP+DDTLR EAFEYYHT D SFLGRYMSALNHTK
Sbjct  1570  GPTYLEGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYMSALNHTK  1629

Query  837   KWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALI  896
             KWK+PQV GLTSIKWADNNCYL++ LL LQQIE+KFN PALQ+AYYRARAG+AANFCALI
Sbjct  1630  KWKFPQVGGLTSIKWADNNCYLSSVLLALQQIEVKFNAPALQEAYYRARAGDAANFCALI  1689

Query  897   LAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTL  956
             LAY NKTVGELGDVRETM++L QHANL+S KRVLNVVCK CGQ+ TTL GVEAVMYMGTL
Sbjct  1690  LAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTL  1749

Query  957   SYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCG  1016
             SY+  K GV IPC CG+ AT+YLVQQES FVMMSAPPA+Y+L+ GTF CA+EYTGNYQCG
Sbjct  1750  SYDNLKMGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCG  1809

Query  1017  HYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDP  1076
             HY HIT+KETLY IDGA LTK SEYKGP+TDVFYKE SYTTTIKPV+YKLDGV  TEI+P
Sbjct  1810  HYTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIKPVSYKLDGVTYTEIEP  1869

Query  1077  KLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASRE  1136
             KLD YYKKDN+Y+TEQPIDL+P QP PNASFDNFK  C N KFADDLNQ+TG+ KPASRE
Sbjct  1870  KLDGYYKKDNAYYTEQPIDLIPTQPLPNASFDNFKLTCSNTKFADDLNQMTGFTKPASRE  1929

Query  1137  LKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLW  1196
             L VTFFPDLNGDVVAIDY+HY+ SFKKGAKLLHKPIVWH+N AT K T+KPNTWC+RCLW
Sbjct  1930  LSVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIVWHINQATTKTTFKPNTWCLRCLW  1989

Query  1197  STKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGD  1256
             STKPV+TSNSF+VL  ED QGMDNLACE  +P  EEVVENPTIQK+V+EC+VKTTEVVG+
Sbjct  1990  STKPVDTSNSFEVLAVEDTQGMDNLACESQQPTPEEVVENPTIQKEVIECDVKTTEVVGN  2049

Query  1257  IILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVP  1316
             +ILKP++  +K+T+E+ H DLMAAYV+N+S+TIKKPNELS  LGLKT+ATHG+AA+NSVP
Sbjct  2050  VILKPSDEGVKVTQELDHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAINSVP  2109

Query  1317  WDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASM  1376
             W  I  Y KPFL +   TT+N   R + R+  NYMPY  TLL QLCTFT+STNSRI+AS+
Sbjct  2110  WGKILAYVKPFLGQAAVTTSNCAKRLVQRMFNNYMPYVLTLLFQLCTFTKSTNSRIRASL  2169

Query  1377  PTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLM  1436
             PTTIAKN+V+ + + CL+A  NY+KSP FSKL  I +W LLLS+CLGSLIY TAALGVL+
Sbjct  2170  PTTIAKNSVRGIVRLCLDAGINYVKSPKFSKLFTIAMWLLLLSICLGSLIYVTAALGVLL  2229

Query  1437  SNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSF  1496
             SN G PSYC+G RE YLNS+NVT   +C GS PCSVCLSGLDSLD+YP+LETIQ+TISS+
Sbjct  2230  SNFGAPSYCSGVRESYLNSSNVTTMDFCEGSFPCSVCLSGLDSLDSYPALETIQVTISSY  2289

Query  1497  KWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQM  1556
             K DLT  GL AEWF AY+LFT+FFY+LGL+AIMQ+FF YFA HFISNSWLMW II++VQM
Sbjct  2290  KLDLTILGLAAEWFFAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMWFIISIVQM  2349

Query  1557  APISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSF  1616
             AP+SAMVRMYIFFASFYY+WKSYVH++DGC SSTCMMCYKRNRATRVECTTIVNG++RSF
Sbjct  2350  APVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMKRSF  2409

Query  1617  YVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSV  1676
             YVYANGG+GFCK HNWNC+NCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSY+VDSV
Sbjct  2410  YVYANGGRGFCKTHNWNCLNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYVVDSV  2469

Query  1677  TVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSA  1736
              VKNG++HLYFDKAGQKTYERH LSHFVNLDNLRANNTKGSLPINVIVFDGKSKC+ES+A
Sbjct  2470  AVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCDESAA  2529

Query  1737  KSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVA  1796
             KSASVYYSQLMCQPILLLDQALVSDVGDS EV+VKMFDAYV+TFS+TF+VPMEKLK LVA
Sbjct  2530  KSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLKALVA  2589

Query  1797  TAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYM  1856
             TA +ELAK V+LD VLSTF+SA+RQG VD+DV+TKDV+ECLKLSH SD+EVTGDSCNN+M
Sbjct  2590  TAHSELAKGVALDGVLSTFVSASRQGVVDTDVDTKDVIECLKLSHHSDLEVTGDSCNNFM  2649

Query  1857  LTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAK  1916
             LTYNKVENMTPRDLGACIDC+ARHINAQVA+SHN++LIWNVKD+MSLSEQLRKQIRSAAK
Sbjct  2650  LTYNKVENMTPRDLGACIDCNARHINAQVARSHNVSLIWNVKDYMSLSEQLRKQIRSAAK  2709

Query  1917  KNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             KNN+PF+LTCATTRQVVNV+TTKI+LKGG
Sbjct  2710  KNNIPFRLTCATTRQVVNVITTKISLKGG  2738


>sp|P0C6F8|R1A_BCHK3 Replicase polyprotein 1a OS=Bat coronavirus 
HKU3 OX=442736 GN=1a PE=3 SV=1
Length=4376

 Score = 2499 bits (6476),  Expect = 0.0, Method: Composition-based stats.
 Identities = 1462/1948 (75%), Positives = 1665/1948 (85%), Gaps = 35/1948 (2%)

Query  1     APTK-VTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             AP K VTFG+DTV+EVQGYK+V ITFELD R+DKVLNEKCS YTVE GTEV EFACVVA+
Sbjct  819   APVKGVTFGEDTVLEVQGYKNVKITFELDVRVDKVLNEKCSVYTVESGTEVTEFACVVAE  878

Query  60    AVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCE  119
             AV+KTLQPVS+LLTP+GIDLDEWS+AT+YLFD++GE KL+S MYCSFYPPDE  EE   E
Sbjct  879   AVVKTLQPVSDLLTPMGIDLDEWSVATFYLFDDAGEEKLSSRMYCSFYPPDE--EEDCEE  936

Query  120   EEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEE-DWLDDDSQQTVGQQDGSED  178
              E+ E + ++EYGTEDDY+G PLEFGA++     EEE+EE DWLDD  +           
Sbjct  937   CEDEEETCEHEYGTEDDYKGLPLEFGASTETPHVEEEEEEEDWLDDAIEAE---------  987

Query  179   NQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTV  238
                                    +    VN F GYLKLTDNV IK  DIV+EA+  KPTV
Sbjct  988   ------------------PEPEPLPEEPVNQFVGYLKLTDNVAIKCIDIVKEAQSAKPTV  1029

Query  239   VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLH  298
             +VNAAN +LKHGGGVAGALNKATN AMQ ESD+YI  NGPL VGGSC+LSGHNLA+ CLH
Sbjct  1030  IVNAANTHLKHGGGVAGALNKATNGAMQNESDEYIRQNGPLTVGGSCLLSGHNLAEKCLH  1089

Query  299   VVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLA  358
             VVGPN+N GED+QLLK AYENFN  +VLLAPLLSAGIFGA P+ SL++CV+ VRT VYLA
Sbjct  1090  VVGPNLNAGEDVQLLKRAYENFNSQDVLLAPLLSAGIFGAKPLQSLKMCVEIVRTQVYLA  1149

Query  359   VFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACV  418
             V DK+LYD++V  +L+    K       E PK E    +   +P  E+      KIKAC+
Sbjct  1150  VNDKSLYDQIVLDYLDSLKPKVESPNKEEEPKLEEPKAV---QPVAEKPVDVKPKIKACI  1206

Query  419   EEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVL  478
             +EVTTTLEETKFLT  LLL+ DING L+ DS  ++   D++FL+KDAPYIVGDV+  G +
Sbjct  1207  DEVTTTLEETKFLTNKLLLFADINGKLYQDSQNMLRGEDMSFLEKDAPYIVGDVITSGDI  1266

Query  479   TAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYIL  538
             T V+IP KK+GGTTEMLA+AL++VP   YITTYPGQG  GYT+EEAKT LKKCKSAFY+L
Sbjct  1267  TCVIIPAKKSGGTTEMLARALKEVPVAEYITTYPGQGCAGYTLEEAKTALKKCKSAFYVL  1326

Query  539   PSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVV  598
             PS   NEK+E+LGTVSWNLREMLAHAEETRKLMP+C++ +AI++TIQRKYKGIK+QEG+V
Sbjct  1327  PSETPNEKEEVLGTVSWNLREMLAHAEETRKLMPICLDVRAIMATIQRKYKGIKVQEGIV  1386

Query  599   DYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVS  658
             DYG RF+FYTSK  VAS+I  LN LNE LVTMP+GYVTHGLNLEEAAR MRSLK PA VS
Sbjct  1387  DYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGLNLEEAARCMRSLKAPAVVS  1446

Query  659   VSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVY  718
             VSSPDAVTAYNGYLTSSSKTPEE+F+ET SLAGSY+DWSYSGQ T+LG+EFLKRGDK VY
Sbjct  1447  VSSPDAVTAYNGYLTSSSKTPEEYFVETTSLAGSYRDWSYSGQRTELGVEFLKRGDKIVY  1506

Query  719   YT-SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFG  777
             +T  +P  FHLDGEV+  D LK+LLSLREV+TIKVFTTVDN NLHT +VDMSMTYGQQFG
Sbjct  1507  HTTGSPIEFHLDGEVLPLDKLKSLLSLREVKTIKVFTTVDNTNLHTHIVDMSMTYGQQFG  1566

Query  778   PTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKK  837
             PTYLDGADVTKIKPH +HEGKTF+VLP+DDTLR EAFEYYHT D SFLGRYMSALNHTKK
Sbjct  1567  PTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTIDESFLGRYMSALNHTKK  1626

Query  838   WKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALIL  897
             WK+PQV GLTSIKWADNNCYL++ LL LQQ+E+KFN PALQ+AYYRARAG+AANFCALIL
Sbjct  1627  WKFPQVGGLTSIKWADNNCYLSSVLLALQQVEVKFNAPALQEAYYRARAGDAANFCALIL  1686

Query  898   AYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLS  957
             AY NKTVGELGDVRETM++L QHANL+S KRVLNVVCK CGQ+ TTLKGVEAVMYMGTLS
Sbjct  1687  AYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLKGVEAVMYMGTLS  1746

Query  958   YEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGH  1017
             Y++ K GV IPC CG+ AT+YLVQQES FVMMSAPPA+Y+L+ G F CA+EYTGNYQCGH
Sbjct  1747  YDELKTGVSIPCVCGRNATQYLVQQESSFVMMSAPPAEYKLQQGAFLCANEYTGNYQCGH  1806

Query  1018  YKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPK  1077
             Y HIT+KETLY +DGA LTK SEYKGP+TDVFYKE SYTT IKPV+YKLDGV  TEI+PK
Sbjct  1807  YTHITAKETLYRVDGAHLTKMSEYKGPVTDVFYKETSYTTAIKPVSYKLDGVTYTEIEPK  1866

Query  1078  LDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASREL  1137
             LD YYKK N+Y+TEQPIDLVP QP PNASFDNFK  C N KFADDLNQ+TG+KKPASREL
Sbjct  1867  LDGYYKKGNAYYTEQPIDLVPTQPMPNASFDNFKLTCSNTKFADDLNQMTGFKKPASREL  1926

Query  1138  KVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWS  1197
              VTFFPDLNGDVVAIDY+HY+ SFKKGAKL+HKPI+WH+N  TNK TYKPN WC+RCLWS
Sbjct  1927  TVTFFPDLNGDVVAIDYRHYSTSFKKGAKLVHKPILWHINQTTNKTTYKPNIWCLRCLWS  1986

Query  1198  TKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDI  1257
             TKPV+TSNSF+VL  ED QGMDNLACE     SEEVVENPT+QK+++EC+VKTTEVVG++
Sbjct  1987  TKPVDTSNSFEVLVVEDTQGMDNLACESQTTTSEEVVENPTVQKEIIECDVKTTEVVGNV  2046

Query  1258  ILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPW  1317
             ILKP+   +K+T+E+GH DLMAAYV+ +S+TIKKPNELS  LGLKTLATHG AA+NSVPW
Sbjct  2047  ILKPSEEGVKVTQELGHEDLMAAYVEETSITIKKPNELSLALGLKTLATHGAAAINSVPW  2106

Query  1318  DTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMP  1377
               I  Y KPFL +    T+N + +C+ RV +NYMPY  TLL QLCTFT+STNSRIKAS+P
Sbjct  2107  SKILAYVKPFLGQTAVITSNCIKKCVQRVFSNYMPYVITLLFQLCTFTKSTNSRIKASLP  2166

Query  1378  TTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMS  1437
             TTIAKN+VKSV K CL+   NY+KSP FSKL  I++W LLLS+CLGSL Y TA LGV +S
Sbjct  2167  TTIAKNSVKSVAKLCLDVCINYVKSPKFSKLFTIVMWLLLLSICLGSLTYVTAVLGVCLS  2226

Query  1438  NLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFK  1497
             +LG+PSYC G RE Y+NS+NVT   +C G  PCSVCLSGLDSLD+YP+LETIQ+TISS+K
Sbjct  2227  SLGVPSYCDGVRELYINSSNVTTMDFCQGYFPCSVCLSGLDSLDSYPALETIQVTISSYK  2286

Query  1498  WDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMA  1557
              DLT  GL AEW LAY+LFT+FFY+LGL+AIMQ FF YFA HFISNSWLMW II++VQMA
Sbjct  2287  LDLTFLGLAAEWLLAYMLFTKFFYLLGLSAIMQAFFGYFASHFISNSWLMWFIISIVQMA  2346

Query  1558  PISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFY  1617
             P+SAMVRMYIFFASFYYVWKSYVH++DGC SSTCMMCYKRNRATRVECTTIVNGV+RSFY
Sbjct  2347  PVSAMVRMYIFFASFYYVWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGVKRSFY  2406

Query  1618  VYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVT  1677
             VYANGG+GFCK HNWNC+NCDTFCAGSTFISDEVARDLSLQFKRPINPTDQS+Y+VDSVT
Sbjct  2407  VYANGGRGFCKAHNWNCLNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSAYVVDSVT  2466

Query  1678  VKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAK  1737
             VKNG++HLYFDKAGQKTYERH LSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEES+AK
Sbjct  2467  VKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESAAK  2526

Query  1738  SASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVAT  1797
             SASVYYSQLMCQPILLLDQALVSDVGDS EV+VKMFDAYV+TFS+TF+VPMEKLK LVAT
Sbjct  2527  SASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLKALVAT  2586

Query  1798  AEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYML  1857
             A +ELAK V+LD VLSTF+SAARQG VD+DV+TKDV+ECLKLSH SDIEVTGDSCNN+ML
Sbjct  2587  AHSELAKGVALDGVLSTFVSAARQGVVDTDVDTKDVIECLKLSHHSDIEVTGDSCNNFML  2646

Query  1858  TYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKK  1917
             TYNKVENMTPRDLGACIDC+ARHINAQVAKSHN++L+WNVKD+MSLSEQLRKQIRSAAKK
Sbjct  2647  TYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLVWNVKDYMSLSEQLRKQIRSAAKK  2706

Query  1918  NNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             NN+PF+LTCATTRQVVNV+TTKI+LKGG
Sbjct  2707  NNIPFRLTCATTRQVVNVITTKISLKGG  2734


>sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus 
HKU3 OX=442736 GN=rep PE=3 SV=1
Length=7067

 Score = 2497 bits (6472),  Expect = 0.0, Method: Composition-based stats.
 Identities = 1462/1948 (75%), Positives = 1665/1948 (85%), Gaps = 35/1948 (2%)

Query  1     APTK-VTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             AP K VTFG+DTV+EVQGYK+V ITFELD R+DKVLNEKCS YTVE GTEV EFACVVA+
Sbjct  819   APVKGVTFGEDTVLEVQGYKNVKITFELDVRVDKVLNEKCSVYTVESGTEVTEFACVVAE  878

Query  60    AVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCE  119
             AV+KTLQPVS+LLTP+GIDLDEWS+AT+YLFD++GE KL+S MYCSFYPPDE  EE   E
Sbjct  879   AVVKTLQPVSDLLTPMGIDLDEWSVATFYLFDDAGEEKLSSRMYCSFYPPDE--EEDCEE  936

Query  120   EEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEE-DWLDDDSQQTVGQQDGSED  178
              E+ E + ++EYGTEDDY+G PLEFGA++     EEE+EE DWLDD  +           
Sbjct  937   CEDEEETCEHEYGTEDDYKGLPLEFGASTETPHVEEEEEEEDWLDDAIEAE---------  987

Query  179   NQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTV  238
                                    +    VN F GYLKLTDNV IK  DIV+EA+  KPTV
Sbjct  988   ------------------PEPEPLPEEPVNQFVGYLKLTDNVAIKCIDIVKEAQSAKPTV  1029

Query  239   VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLH  298
             +VNAAN +LKHGGGVAGALNKATN AMQ ESD+YI  NGPL VGGSC+LSGHNLA+ CLH
Sbjct  1030  IVNAANTHLKHGGGVAGALNKATNGAMQNESDEYIRQNGPLTVGGSCLLSGHNLAEKCLH  1089

Query  299   VVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLA  358
             VVGPN+N GED+QLLK AYENFN  +VLLAPLLSAGIFGA P+ SL++CV+ VRT VYLA
Sbjct  1090  VVGPNLNAGEDVQLLKRAYENFNSQDVLLAPLLSAGIFGAKPLQSLKMCVEIVRTQVYLA  1149

Query  359   VFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACV  418
             V DK+LYD++V  +L+    K       E PK E    +   +P  E+      KIKAC+
Sbjct  1150  VNDKSLYDQIVLDYLDSLKPKVESPNKEEEPKLEEPKAV---QPVAEKPVDVKPKIKACI  1206

Query  419   EEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVL  478
             +EVTTTLEETKFLT  LLL+ DING L+ DS  ++   D++FL+KDAPYIVGDV+  G +
Sbjct  1207  DEVTTTLEETKFLTNKLLLFADINGKLYQDSQNMLRGEDMSFLEKDAPYIVGDVITSGDI  1266

Query  479   TAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYIL  538
             T V+IP KK+GGTTEMLA+AL++VP   YITTYPGQG  GYT+EEAKT LKKCKSAFY+L
Sbjct  1267  TCVIIPAKKSGGTTEMLARALKEVPVAEYITTYPGQGCAGYTLEEAKTALKKCKSAFYVL  1326

Query  539   PSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVV  598
             PS   NEK+E+LGTVSWNLREMLAHAEETRKLMP+C++ +AI++TIQRKYKGIK+QEG+V
Sbjct  1327  PSETPNEKEEVLGTVSWNLREMLAHAEETRKLMPICLDVRAIMATIQRKYKGIKVQEGIV  1386

Query  599   DYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVS  658
             DYG RF+FYTSK  VAS+I  LN LNE LVTMP+GYVTHGLNLEEAAR MRSLK PA VS
Sbjct  1387  DYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGLNLEEAARCMRSLKAPAVVS  1446

Query  659   VSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVY  718
             VSSPDAVTAYNGYLTSSSKTPEE+F+ET SLAGSY+DWSYSGQ T+LG+EFLKRGDK VY
Sbjct  1447  VSSPDAVTAYNGYLTSSSKTPEEYFVETTSLAGSYRDWSYSGQRTELGVEFLKRGDKIVY  1506

Query  719   YT-SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFG  777
             +T  +P  FHLDGEV+  D LK+LLSLREV+TIKVFTTVDN NLHT +VDMSMTYGQQFG
Sbjct  1507  HTTGSPIEFHLDGEVLPLDKLKSLLSLREVKTIKVFTTVDNTNLHTHIVDMSMTYGQQFG  1566

Query  778   PTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKK  837
             PTYLDGADVTKIKPH +HEGKTF+VLP+DDTLR EAFEYYHT D SFLGRYMSALNHTKK
Sbjct  1567  PTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTIDESFLGRYMSALNHTKK  1626

Query  838   WKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALIL  897
             WK+PQV GLTSIKWADNNCYL++ LL LQQ+E+KFN PALQ+AYYRARAG+AANFCALIL
Sbjct  1627  WKFPQVGGLTSIKWADNNCYLSSVLLALQQVEVKFNAPALQEAYYRARAGDAANFCALIL  1686

Query  898   AYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLS  957
             AY NKTVGELGDVRETM++L QHANL+S KRVLNVVCK CGQ+ TTLKGVEAVMYMGTLS
Sbjct  1687  AYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLKGVEAVMYMGTLS  1746

Query  958   YEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGH  1017
             Y++ K GV IPC CG+ AT+YLVQQES FVMMSAPPA+Y+L+ G F CA+EYTGNYQCGH
Sbjct  1747  YDELKTGVSIPCVCGRNATQYLVQQESSFVMMSAPPAEYKLQQGAFLCANEYTGNYQCGH  1806

Query  1018  YKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPK  1077
             Y HIT+KETLY +DGA LTK SEYKGP+TDVFYKE SYTT IKPV+YKLDGV  TEI+PK
Sbjct  1807  YTHITAKETLYRVDGAHLTKMSEYKGPVTDVFYKETSYTTAIKPVSYKLDGVTYTEIEPK  1866

Query  1078  LDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASREL  1137
             LD YYKK N+Y+TEQPIDLVP QP PNASFDNFK  C N KFADDLNQ+TG+KKPASREL
Sbjct  1867  LDGYYKKGNAYYTEQPIDLVPTQPMPNASFDNFKLTCSNTKFADDLNQMTGFKKPASREL  1926

Query  1138  KVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWS  1197
              VTFFPDLNGDVVAIDY+HY+ SFKKGAKL+HKPI+WH+N  TNK TYKPN WC+RCLWS
Sbjct  1927  TVTFFPDLNGDVVAIDYRHYSTSFKKGAKLVHKPILWHINQTTNKTTYKPNIWCLRCLWS  1986

Query  1198  TKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDI  1257
             TKPV+TSNSF+VL  ED QGMDNLACE     SEEVVENPT+QK+++EC+VKTTEVVG++
Sbjct  1987  TKPVDTSNSFEVLVVEDTQGMDNLACESQTTTSEEVVENPTVQKEIIECDVKTTEVVGNV  2046

Query  1258  ILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPW  1317
             ILKP+   +K+T+E+GH DLMAAYV+ +S+TIKKPNELS  LGLKTLATHG AA+NSVPW
Sbjct  2047  ILKPSEEGVKVTQELGHEDLMAAYVEETSITIKKPNELSLALGLKTLATHGAAAINSVPW  2106

Query  1318  DTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMP  1377
               I  Y KPFL +    T+N + +C+ RV +NYMPY  TLL QLCTFT+STNSRIKAS+P
Sbjct  2107  SKILAYVKPFLGQTAVITSNCIKKCVQRVFSNYMPYVITLLFQLCTFTKSTNSRIKASLP  2166

Query  1378  TTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMS  1437
             TTIAKN+VKSV K CL+   NY+KSP FSKL  I++W LLLS+CLGSL Y TA LGV +S
Sbjct  2167  TTIAKNSVKSVAKLCLDVCINYVKSPKFSKLFTIVMWLLLLSICLGSLTYVTAVLGVCLS  2226

Query  1438  NLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFK  1497
             +LG+PSYC G RE Y+NS+NVT   +C G  PCSVCLSGLDSLD+YP+LETIQ+TISS+K
Sbjct  2227  SLGVPSYCDGVRELYINSSNVTTMDFCQGYFPCSVCLSGLDSLDSYPALETIQVTISSYK  2286

Query  1498  WDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMA  1557
              DLT  GL AEW LAY+LFT+FFY+LGL+AIMQ FF YFA HFISNSWLMW II++VQMA
Sbjct  2287  LDLTFLGLAAEWLLAYMLFTKFFYLLGLSAIMQAFFGYFASHFISNSWLMWFIISIVQMA  2346

Query  1558  PISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFY  1617
             P+SAMVRMYIFFASFYYVWKSYVH++DGC SSTCMMCYKRNRATRVECTTIVNGV+RSFY
Sbjct  2347  PVSAMVRMYIFFASFYYVWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGVKRSFY  2406

Query  1618  VYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVT  1677
             VYANGG+GFCK HNWNC+NCDTFCAGSTFISDEVARDLSLQFKRPINPTDQS+Y+VDSVT
Sbjct  2407  VYANGGRGFCKAHNWNCLNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSAYVVDSVT  2466

Query  1678  VKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAK  1737
             VKNG++HLYFDKAGQKTYERH LSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEES+AK
Sbjct  2467  VKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESAAK  2526

Query  1738  SASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVAT  1797
             SASVYYSQLMCQPILLLDQALVSDVGDS EV+VKMFDAYV+TFS+TF+VPMEKLK LVAT
Sbjct  2527  SASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLKALVAT  2586

Query  1798  AEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYML  1857
             A +ELAK V+LD VLSTF+SAARQG VD+DV+TKDV+ECLKLSH SDIEVTGDSCNN+ML
Sbjct  2587  AHSELAKGVALDGVLSTFVSAARQGVVDTDVDTKDVIECLKLSHHSDIEVTGDSCNNFML  2646

Query  1858  TYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKK  1917
             TYNKVENMTPRDLGACIDC+ARHINAQVAKSHN++L+WNVKD+MSLSEQLRKQIRSAAKK
Sbjct  2647  TYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLVWNVKDYMSLSEQLRKQIRSAAKK  2706

Query  1918  NNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             NN+PF+LTCATTRQVVNV+TTKI+LKGG
Sbjct  2707  NNIPFRLTCATTRQVVNVITTKISLKGG  2734


>sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus 
Rp3/2004 OX=349344 GN=rep PE=3 SV=1
Length=7071

 Score = 2497 bits (6471),  Expect = 0.0, Method: Composition-based stats.
 Identities = 1459/1949 (75%), Positives = 1670/1949 (86%), Gaps = 33/1949 (2%)

Query  1     APTK-VTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             APTK VTFG+DTV+EVQGYK+V ITFELDER+DKVLNEKCS YTVE GTEV EFACVVA+
Sbjct  819   APTKGVTFGEDTVVEVQGYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE  878

Query  60    AVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCE  119
             AV+KTLQPVS+LLT +GIDLDEWS+AT+YLFD+SGE KL+S MYCSFYPPDE+E+  + E
Sbjct  879   AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDSGEEKLSSRMYCSFYPPDEEEDCEEYE  938

Query  120   EEEFEP--STQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSE  177
             EEE     + ++EYGTE+DY+G PLEFGA++  +Q EE++EEDWLDD             
Sbjct  939   EEEEVSERTCEHEYGTEEDYKGLPLEFGASTDIIQVEEQEEEDWLDDAV-----------  987

Query  178   DNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPT  237
                                     +    VN  +GYLKLTDNV IK  DIVEEA+   P 
Sbjct  988   ----------------EAEPEPEPLHEEPVNQLTGYLKLTDNVAIKCVDIVEEAQNANPM  1031

Query  238   VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCL  297
             V+VNAAN++LKHGGGVAGALNKATN AMQ ESD YI  NGPL VGGSC+LSGHNLAK CL
Sbjct  1032  VIVNAANIHLKHGGGVAGALNKATNGAMQKESDHYIKLNGPLTVGGSCLLSGHNLAKKCL  1091

Query  298   HVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYL  357
             HVVGPN+N GEDIQLLK+AYENFN  ++LLAPLLSAGIFGA P+ SL++CV TVRT VY+
Sbjct  1092  HVVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSLQMCVQTVRTQVYI  1151

Query  358   AVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKAC  417
              V DK LY+++V  +L+    K    K   +PK E      + K  V++      KIKAC
Sbjct  1152  VVNDKVLYEQVVMDYLDSLKPKVEAPKQEVLPKAEYPK--VDEKSVVQKTIDVKPKIKAC  1209

Query  418   VEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGV  477
             ++EVTTTLEETKFLT  LLL+ DING L+ DS  ++   D++FL+KDAPY+VGDV+  G 
Sbjct  1210  IDEVTTTLEETKFLTNKLLLFTDINGKLYQDSKNMLRGEDMSFLEKDAPYMVGDVITSGD  1269

Query  478   LTAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYI  537
             +T VVIP+KKAGGTTEML++AL+KVP + YITTYPGQG  GYT+EEAKT LKKCKSAFY+
Sbjct  1270  ITCVVIPSKKAGGTTEMLSRALKKVPINEYITTYPGQGCAGYTLEEAKTALKKCKSAFYV  1329

Query  538   LPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGV  597
             LPS   N K+EILGTVSWNLREMLAHAEETRKLMPVC++ +AI++TIQRKYKGIKIQEG+
Sbjct  1330  LPSETPNAKEEILGTVSWNLREMLAHAEETRKLMPVCMDVRAIMATIQRKYKGIKIQEGI  1389

Query  598   VDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATV  657
             VDYG RF+FYTSK  VAS+I  LN LNE LVTMP+GYVTHG NLEEAAR MRSLK PA V
Sbjct  1390  VDYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAARCMRSLKAPAIV  1449

Query  658   SVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSV  717
             SVSSPDAVT YNGYLTSSSKT E+HF+ET+SLAGSY+DWSYSGQ T+LG+EFLKRG+K V
Sbjct  1450  SVSSPDAVTTYNGYLTSSSKTSEDHFVETVSLAGSYRDWSYSGQRTELGVEFLKRGEKIV  1509

Query  718   YYT-SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQF  776
             Y+T  +P  FHLDGEV+  D LK+LLSLREV+TIKVFTTVDN NLHTQ+VDMSMTYGQQ 
Sbjct  1510  YHTLESPVKFHLDGEVLPLDKLKSLLSLREVKTIKVFTTVDNTNLHTQLVDMSMTYGQQL  1569

Query  777   GPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTK  836
             GPTYL+GADVTKIKPH +HEGKTF+VLP+DDTLR EAFEYYHT D SFLGRYMSALNHTK
Sbjct  1570  GPTYLEGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYMSALNHTK  1629

Query  837   KWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALI  896
             KWK+PQV GLTSIKWADNNCYL++ LL LQQIE+KFN PALQ+AYYRARAG+AANFCALI
Sbjct  1630  KWKFPQVGGLTSIKWADNNCYLSSVLLALQQIEVKFNAPALQEAYYRARAGDAANFCALI  1689

Query  897   LAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTL  956
             LAY NKTVGELGDVRETM++L QHANL+S KRVLNVVCK CGQ+ TTL GVEAVMYMGTL
Sbjct  1690  LAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTL  1749

Query  957   SYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCG  1016
             SY+  K GV IPC CG+ AT+YLVQQES FVMMSAPPA+Y+L+ GTF CA+EYTGNYQCG
Sbjct  1750  SYDNLKMGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCG  1809

Query  1017  HYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDP  1076
             HY HIT+KETLY IDGA LTK SEYKGP+TDVFYKE SYTTTIKPV+YKLDGV  TEI+P
Sbjct  1810  HYTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIKPVSYKLDGVTYTEIEP  1869

Query  1077  KLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYKKPASRE  1136
             KLD YYKKDN+Y+TEQPIDL+P QP PNASFDNFK  C N KFADDLNQ+TG+ KPASRE
Sbjct  1870  KLDGYYKKDNAYYTEQPIDLIPTQPLPNASFDNFKLTCSNTKFADDLNQMTGFTKPASRE  1929

Query  1137  LKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLW  1196
             L VTFFPDLNGDVVAIDY+HY+ SFKKGAKLLHKPIVWH+N AT K T+KPNTWC+RCLW
Sbjct  1930  LSVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIVWHINQATTKTTFKPNTWCLRCLW  1989

Query  1197  STKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGD  1256
             STKPV+TSNSF+VL  ED QGMDNLACE  +P  EEVVENPTIQK+V+EC+VKTTEVVG+
Sbjct  1990  STKPVDTSNSFEVLAVEDTQGMDNLACESQQPTPEEVVENPTIQKEVIECDVKTTEVVGN  2049

Query  1257  IILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVP  1316
             +ILKP++  +K+T+E+ H DLMAAYV+N+S+TIKKPNELS  LGLKT+ATHG+AA+NSVP
Sbjct  2050  VILKPSDEGVKVTQELDHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAINSVP  2109

Query  1317  WDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASM  1376
             W  I  Y KPFL +   TT+N   R + R+  NYMPY  TLL QLCTFT+STNSRI+AS+
Sbjct  2110  WGKILAYVKPFLGQAAVTTSNCAKRLVQRMFNNYMPYVLTLLFQLCTFTKSTNSRIRASL  2169

Query  1377  PTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLM  1436
             PTTIAKN+V+ + + CL+A  NY+KSP FSKL  I +W LLLS+CLGSLIY TAALGVL+
Sbjct  2170  PTTIAKNSVRGIVRLCLDAGINYVKSPKFSKLFTIAMWLLLLSICLGSLIYVTAALGVLL  2229

Query  1437  SNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSF  1496
             SN G PSYC+G RE YLNS+NVT   +C GS PCSVCLSGLDSLD+YP+LETIQ+TISS+
Sbjct  2230  SNFGAPSYCSGVRESYLNSSNVTTMDFCEGSFPCSVCLSGLDSLDSYPALETIQVTISSY  2289

Query  1497  KWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQM  1556
             K DLT  GL AEWF AY+LFT+FFY+LGL+AIMQ+FF YFA HFISNSWLMW II++VQM
Sbjct  2290  KLDLTILGLAAEWFFAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMWFIISIVQM  2349

Query  1557  APISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSF  1616
             AP+SAMVRMYIFFASFYY+WKSYVH++DGC SSTCMMCYKRNRATRVECTTIVNG++RSF
Sbjct  2350  APVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMKRSF  2409

Query  1617  YVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSV  1676
             YVYANGG+GFCK HNWNC+NCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSY+VDSV
Sbjct  2410  YVYANGGRGFCKTHNWNCLNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYVVDSV  2469

Query  1677  TVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSA  1736
              VKNG++HLYFDKAGQKTYERH LSHFVNLDNLRANNTKGSLPINVIVFDGKSKC+ES+A
Sbjct  2470  AVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCDESAA  2529

Query  1737  KSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVA  1796
             KSASVYYSQLMCQPILLLDQALVSDVGDS EV+VKMFDAYV+TFS+TF+VPMEKLK LVA
Sbjct  2530  KSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLKALVA  2589

Query  1797  TAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYM  1856
             TA +ELAK V+LD VLSTF+SA+RQG VD+DV+TKDV+ECLKLSH SD+EVTGDSCNN+M
Sbjct  2590  TAHSELAKGVALDGVLSTFVSASRQGVVDTDVDTKDVIECLKLSHHSDLEVTGDSCNNFM  2649

Query  1857  LTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAK  1916
             LTYNKVENMTPRDLGACIDC+ARHINAQVA+SHN++LIWNVKD+MSLSEQLRKQIRSAAK
Sbjct  2650  LTYNKVENMTPRDLGACIDCNARHINAQVARSHNVSLIWNVKDYMSLSEQLRKQIRSAAK  2709

Query  1917  KNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             KNN+PF+LTCATTRQVVNV+TTKI+LKGG
Sbjct  2710  KNNIPFRLTCATTRQVVNVITTKISLKGG  2738


>sp|P0C6F5|R1A_BC279 Replicase polyprotein 1a OS=Bat coronavirus 
279/2005 OX=389167 GN=1a PE=3 SV=1
Length=4388

 Score = 2489 bits (6451),  Expect = 0.0, Method: Composition-based stats.
 Identities = 1456/1955 (74%), Positives = 1660/1955 (85%), Gaps = 37/1955 (2%)

Query  1     APTK-VTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             AP K VTFG+DTV+EVQGYK+V ITFELDER+DKVLNEKCS YTVE GTEV EFACVVA+
Sbjct  819   APVKGVTFGEDTVLEVQGYKNVKITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE  878

Query  60    AVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCE  119
             AV+KTLQPVS+LLT +GIDLDEWS+AT+YLFD++GE KL+S MYCSFYPPDE+E+  + E
Sbjct  879   AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDAGEEKLSSRMYCSFYPPDEEEDCEEYE  938

Query  120   EEEFEPSTQ--YEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSE  177
             +EE  P     +EYGTEDDY+G PLEFGA++                  QQ   +++   
Sbjct  939   DEEEIPEETCEHEYGTEDDYKGLPLEFGASTE----------------IQQVDEEEEEDW  982

Query  178   DNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPT  237
               +    +                +    VN F+GYLKLTDNV IK  DIV+EA+  KPT
Sbjct  983   LEEAIAAK-----------PEPEPLPEEPVNQFTGYLKLTDNVAIKCVDIVKEAQHAKPT  1031

Query  238   VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCL  297
             V+VNAANV+LKHGGGVAGALNKATN AMQ ESDDYI  NGPL VGGSC+LSGHNLAK C+
Sbjct  1032  VIVNAANVHLKHGGGVAGALNKATNGAMQQESDDYIKKNGPLTVGGSCLLSGHNLAKKCM  1091

Query  298   HVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYL  357
             HVVGPN+N GED+QLLK+AY NFN  +VLLAPLLSAGIFGA P+ SL++CV+TVRT VY 
Sbjct  1092  HVVGPNLNAGEDVQLLKAAYANFNSQDVLLAPLLSAGIFGAKPLQSLKMCVETVRTQVYF  1151

Query  358   AVFDKNLYDKLVSSFLEMKSEK--QVEQKIAEIPKEEVKPFITESKPSVEQ----RKQDD  411
             AV D++LYD +V  +L+    K     Q+  E+ ++     +T+    +E+     K  D
Sbjct  1152  AVNDQDLYDHVVLGYLDSLKPKVETPTQENLELKEQPAVETLTQENLELEELPVIEKPVD  1211

Query  412   KKIKACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGD  471
              K KA +EEV T+LEETKFLT  LLL+ DING L+ DS  ++   D+ FL+KDAPYIVGD
Sbjct  1212  VKFKARIEEVNTSLEETKFLTSRLLLFADINGKLYQDSQNMLRGEDMFFLEKDAPYIVGD  1271

Query  472   VVQEGVLTAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKC  531
             V+  G +T V+IP KKAGGTTEMLAKAL+KVP   YITTYPGQG  GYT+EEAKT L+KC
Sbjct  1272  VISSGDITCVIIPAKKAGGTTEMLAKALKKVPVSEYITTYPGQGCAGYTLEEAKTALRKC  1331

Query  532   KSAFYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGI  591
             KS FY+LPS   N+K+EILGTVSWNLREMLAHAEETRKLM +C++ KA++STI R+YKGI
Sbjct  1332  KSVFYVLPSKTPNDKEEILGTVSWNLREMLAHAEETRKLMLICMDVKALMSTIHRRYKGI  1391

Query  592   KIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSL  651
             K+QEG+VDYG RF+FYTSK  VAS+I  LN LNE LVTMP+GYVTHGLNLEEAAR MRSL
Sbjct  1392  KVQEGIVDYGVRFFFYTSKEPVASIITKLNLLNEPLVTMPIGYVTHGLNLEEAARCMRSL  1451

Query  652   KVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLK  711
             K PA VSVSSPDAVT YNGYLTSSSKT EEHFIET+SLAG Y+DWSYSGQ T+LG+EFLK
Sbjct  1452  KAPAVVSVSSPDAVTTYNGYLTSSSKTSEEHFIETVSLAGMYRDWSYSGQRTELGVEFLK  1511

Query  712   RGDKSVYYT-SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSM  770
             RGDK VY+T  +P  FHLDGEV+  D LK+LLSLREVRTIKVFTTVDN NLHTQ+VDMSM
Sbjct  1512  RGDKVVYHTVGSPIQFHLDGEVLLLDKLKSLLSLREVRTIKVFTTVDNTNLHTQIVDMSM  1571

Query  771   TYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMS  830
             TYGQQFGPTYLDGADVTKIKPH  HEGKTF+VLP+DDTLR EAFEYYHT D SFLGRYMS
Sbjct  1572  TYGQQFGPTYLDGADVTKIKPHAKHEGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYMS  1631

Query  831   ALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAA  890
             ALNHTKKWK+PQ+ GLTSIKWADNNCYL++ LL LQQIE+KFN PALQ+AYYRARAG+AA
Sbjct  1632  ALNHTKKWKFPQIGGLTSIKWADNNCYLSSVLLALQQIEVKFNAPALQEAYYRARAGDAA  1691

Query  891   NFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAV  950
             NFCALILAY N+TVGELGDVRETM++L QHANL+S KRVLNVVCKTCGQ+ TTL GVEAV
Sbjct  1692  NFCALILAYSNRTVGELGDVRETMTHLLQHANLESAKRVLNVVCKTCGQKSTTLTGVEAV  1751

Query  951   MYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYT  1010
             MYMGTLSYE+ K GV IPC CG+ AT+YLVQQES FVMMSAPP++Y L+ G F CA+EYT
Sbjct  1752  MYMGTLSYEELKTGVTIPCICGRDATQYLVQQESSFVMMSAPPSEYTLQQGAFLCANEYT  1811

Query  1011  GNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVV  1070
             G+YQCGHY H+T KETLY IDGA LTK SEYKGP+TDVFYKE SYTTTIKPV+YKLDGV+
Sbjct  1812  GSYQCGHYTHVTVKETLYRIDGAYLTKMSEYKGPVTDVFYKEISYTTTIKPVSYKLDGVI  1871

Query  1071  CTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYK  1130
              TEI PKLD YYKKDN+Y+TEQPIDLVP QP PNASFDNFK  C N KFADDLNQ+TG+K
Sbjct  1872  YTEIQPKLDEYYKKDNAYYTEQPIDLVPTQPLPNASFDNFKLTCSNTKFADDLNQMTGFK  1931

Query  1131  KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTW  1190
             KPASREL VTFFPDLNGDVVAIDY+HY+ SFKKGAKLLHKPI+WH+N  TNK TYKPNTW
Sbjct  1932  KPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIIWHINQTTNKTTYKPNTW  1991

Query  1191  CIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKT  1250
             C+RCLWSTKPVETSNSF+VL+ ED QGMDNLACE   P SEEVVENPTIQK+V+EC+VKT
Sbjct  1992  CLRCLWSTKPVETSNSFEVLEVEDTQGMDNLACESQTPTSEEVVENPTIQKEVIECDVKT  2051

Query  1251  TEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLA  1310
              EVVG++ILKP+   +K+T+E+GH DLMAAYV+ +S+TIKKPNELS  LGL+TLATHG A
Sbjct  2052  IEVVGNVILKPSEEGVKVTQELGHEDLMAAYVEETSITIKKPNELSLALGLRTLATHGAA  2111

Query  1311  AVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNS  1370
             A+NSVPW  I  Y KPFL +   TTTN + RC+ RV  NYMPY  TLL QLCTFTRSTNS
Sbjct  2112  AINSVPWSKILAYVKPFLGQAAVTTTNCIKRCVQRVFNNYMPYVITLLFQLCTFTRSTNS  2171

Query  1371  RIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTA  1430
             RI+AS+PTTIAKN+VKSV K CL+   NY+KSP FSKL  I +W LLLS+CLGSLIY TA
Sbjct  2172  RIRASLPTTIAKNSVKSVAKLCLDVCINYVKSPKFSKLFTIAMWLLLLSICLGSLIYVTA  2231

Query  1431  ALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQ  1490
             A GVL+SNLG+PSYC G RE Y+NS+NVT   +C GS  CSVCL+GLDSLD+YP+LETIQ
Sbjct  2232  AFGVLLSNLGIPSYCDGVRESYVNSSNVTTMDFCEGSFLCSVCLNGLDSLDSYPALETIQ  2291

Query  1491  ITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLI  1550
             +TISS+K DLT+ GL AEWFLAY+LFT+FFY+LGL+AIMQ+FF YFA HFISNSWLMW I
Sbjct  2292  VTISSYKLDLTSLGLAAEWFLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMWFI  2351

Query  1551  INLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVN  1610
             I++VQMAP+SAMVRMYIFFA  YYVWKSYVH++DGC SSTCMMCYKRNRATRVECTTIVN
Sbjct  2352  ISIVQMAPVSAMVRMYIFFAFCYYVWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVN  2411

Query  1611  GVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSS  1670
             G++RSFYVYANGG+GFCK HNWNC+NCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSS
Sbjct  2412  GMKRSFYVYANGGRGFCKAHNWNCLNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSS  2471

Query  1671  YIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSK  1730
             Y+VDSV VKNG++HLYFDKAGQKTYERH LSHFVNLDNLRANNTKGSLPINVIVFDGKSK
Sbjct  2472  YVVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSK  2531

Query  1731  CEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEK  1790
             C+ES+AKSASVYYSQLMCQPILLLDQALVSDVGDS EV+VKMFDAYV+TFS+TF+VPMEK
Sbjct  2532  CDESAAKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEK  2591

Query  1791  LKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGD  1850
             LK LVATA +ELAK V+LD VLSTF+SAARQG VD+DV+TKDV+ECLKLSH SD+EVTGD
Sbjct  2592  LKALVATAHSELAKGVALDGVLSTFVSAARQGVVDTDVDTKDVIECLKLSHHSDLEVTGD  2651

Query  1851  SCNNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQ  1910
             SCNN+MLTYNKVENMTPRDLGACIDC+ARHINAQVAKSHN++LIWNVKD+MSLSEQLRKQ
Sbjct  2652  SCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQLRKQ  2711

Query  1911  IRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             IRSAAKKNN+PF+LTCATTRQVVN +TTKI+LKGG
Sbjct  2712  IRSAAKKNNIPFRLTCATTRQVVNAITTKISLKGG  2746


>sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus 
279/2005 OX=389167 GN=rep PE=3 SV=1
Length=7079

 Score = 2485 bits (6441),  Expect = 0.0, Method: Composition-based stats.
 Identities = 1457/1955 (75%), Positives = 1661/1955 (85%), Gaps = 37/1955 (2%)

Query  1     APTK-VTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             AP K VTFG+DTV+EVQGYK+V ITFELDER+DKVLNEKCS YTVE GTEV EFACVVA+
Sbjct  819   APVKGVTFGEDTVLEVQGYKNVKITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE  878

Query  60    AVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCE  119
             AV+KTLQPVS+LLT +GIDLDEWS+AT+YLFD++GE KL+S MYCSFYPPDE+E+  + E
Sbjct  879   AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDAGEEKLSSRMYCSFYPPDEEEDCEEYE  938

Query  120   EEEFEPSTQ--YEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSE  177
             +EE  P     +EYGTEDDY+G PLEFGA++                  QQ   +++   
Sbjct  939   DEEEIPEETCEHEYGTEDDYKGLPLEFGASTE----------------IQQVDEEEEEDW  982

Query  178   DNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPT  237
               +    +   E            +    VN F+GYLKLTDNV IK  DIV+EA+  KPT
Sbjct  983   LEEAIAAKPEPE-----------PLPEEPVNQFTGYLKLTDNVAIKCVDIVKEAQHAKPT  1031

Query  238   VVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCL  297
             V+VNAANV+LKHGGGVAGALNKATN AMQ ESDDYI  NGPL VGGSC+LSGHNLAK C+
Sbjct  1032  VIVNAANVHLKHGGGVAGALNKATNGAMQQESDDYIKKNGPLTVGGSCLLSGHNLAKKCM  1091

Query  298   HVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYL  357
             HVVGPN+N GED+QLLK+AY NFN  +VLLAPLLSAGIFGA P+ SL++CV+TVRT VY 
Sbjct  1092  HVVGPNLNAGEDVQLLKAAYANFNSQDVLLAPLLSAGIFGAKPLQSLKMCVETVRTQVYF  1151

Query  358   AVFDKNLYDKLVSSFLEMKSEK--QVEQKIAEIPKEEVKPFITESKPSVEQ----RKQDD  411
             AV D++LYD +V  +L+    K     Q+  E+ ++     +T+    +E+     K  D
Sbjct  1152  AVNDQDLYDHVVLGYLDSLKPKVETPTQENLELKEQPAVETLTQENLELEELPVIEKPVD  1211

Query  412   KKIKACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGD  471
              K KA +EEV T+LEETKFLT  LLL+ DING L+ DS  ++   D+ FL+KDAPYIVGD
Sbjct  1212  VKFKARIEEVNTSLEETKFLTSRLLLFADINGKLYQDSQNMLRGEDMFFLEKDAPYIVGD  1271

Query  472   VVQEGVLTAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKC  531
             V+  G +T V+IP KKAGGTTEMLAKAL+KVP   YITTYPGQG  GYT+EEAKT L+KC
Sbjct  1272  VISSGDITCVIIPAKKAGGTTEMLAKALKKVPVSEYITTYPGQGCAGYTLEEAKTALRKC  1331

Query  532   KSAFYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGI  591
             KS FY+LPS   N+K+EILGTVSWNLREMLAHAEETRKLM +C++ KA++STI R+YKGI
Sbjct  1332  KSVFYVLPSKTPNDKEEILGTVSWNLREMLAHAEETRKLMLICMDVKALMSTIHRRYKGI  1391

Query  592   KIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSL  651
             K+QEG+VDYG RF+FYTSK  VAS+I  LN LNE LVTMP+GYVTHGLNLEEAAR MRSL
Sbjct  1392  KVQEGIVDYGVRFFFYTSKEPVASIITKLNLLNEPLVTMPIGYVTHGLNLEEAARCMRSL  1451

Query  652   KVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLK  711
             K PA VSVSSPDAVT YNGYLTSSSKT EEHFIET+SLAG Y+DWSYSGQ T+LG+EFLK
Sbjct  1452  KAPAVVSVSSPDAVTTYNGYLTSSSKTSEEHFIETVSLAGMYRDWSYSGQRTELGVEFLK  1511

Query  712   RGDKSVYYT-SNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSM  770
             RGDK VY+T  +P  FHLDGEV+  D LK+LLSLREVRTIKVFTTVDN NLHTQ+VDMSM
Sbjct  1512  RGDKVVYHTVGSPIQFHLDGEVLLLDKLKSLLSLREVRTIKVFTTVDNTNLHTQIVDMSM  1571

Query  771   TYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMS  830
             TYGQQFGPTYLDGADVTKIKPH  HEGKTF+VLP+DDTLR EAFEYYHT D SFLGRYMS
Sbjct  1572  TYGQQFGPTYLDGADVTKIKPHAKHEGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYMS  1631

Query  831   ALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAA  890
             ALNHTKKWK+PQ+ GLTSIKWADNNCYL++ LL LQQIE+KFN PALQ+AYYRARAG+AA
Sbjct  1632  ALNHTKKWKFPQIGGLTSIKWADNNCYLSSVLLALQQIEVKFNAPALQEAYYRARAGDAA  1691

Query  891   NFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAV  950
             NFCALILAY N+TVGELGDVRETM++L QHANL+S KRVLNVVCKTCGQ+ TTL GVEAV
Sbjct  1692  NFCALILAYSNRTVGELGDVRETMTHLLQHANLESAKRVLNVVCKTCGQKSTTLTGVEAV  1751

Query  951   MYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYT  1010
             MYMGTLSYE+ K GV IPC CG+ AT+YLVQQES FVMMSAPP++Y L+ G F CA+EYT
Sbjct  1752  MYMGTLSYEELKTGVTIPCICGRDATQYLVQQESSFVMMSAPPSEYTLQQGAFLCANEYT  1811

Query  1011  GNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVV  1070
             G+YQCGHY H+T KETLY IDGA LTK SEYKGP+TDVFYKE SYTTTIKPV+YKLDGV+
Sbjct  1812  GSYQCGHYTHVTVKETLYRIDGAYLTKMSEYKGPVTDVFYKEISYTTTIKPVSYKLDGVI  1871

Query  1071  CTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKFVCDNIKFADDLNQLTGYK  1130
              TEI PKLD YYKKDN+Y+TEQPIDLVP QP PNASFDNFK  C N KFADDLNQ+TG+K
Sbjct  1872  YTEIQPKLDEYYKKDNAYYTEQPIDLVPTQPLPNASFDNFKLTCSNTKFADDLNQMTGFK  1931

Query  1131  KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTW  1190
             KPASREL VTFFPDLNGDVVAIDY+HY+ SFKKGAKLLHKPI+WH+N  TNK TYKPNTW
Sbjct  1932  KPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIIWHINQTTNKTTYKPNTW  1991

Query  1191  CIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKT  1250
             C+RCLWSTKPVETSNSF+VL+ ED QGMDNLACE   P SEEVVENPTIQK+V+EC+VKT
Sbjct  1992  CLRCLWSTKPVETSNSFEVLEVEDTQGMDNLACESQTPTSEEVVENPTIQKEVIECDVKT  2051

Query  1251  TEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLA  1310
              EVVG++ILKP+   +K+T+E+GH DLMAAYV+ +S+TIKKPNELS  LGL+TLATHG A
Sbjct  2052  IEVVGNVILKPSEEGVKVTQELGHEDLMAAYVEETSITIKKPNELSLALGLRTLATHGAA  2111

Query  1311  AVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNS  1370
             A+NSVPW  I  Y KPFL +   TTTN + RC+ RV  NYMPY  TLL QLCTFTRSTNS
Sbjct  2112  AINSVPWSKILAYVKPFLGQAAVTTTNCIKRCVQRVFNNYMPYVITLLFQLCTFTRSTNS  2171

Query  1371  RIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTA  1430
             RI+AS+PTTIAKN+VKSV K CL+   NY+KSP FSKL  I +W LLLS+CLGSLIY TA
Sbjct  2172  RIRASLPTTIAKNSVKSVAKLCLDVCINYVKSPKFSKLFTIAMWLLLLSICLGSLIYVTA  2231

Query  1431  ALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQ  1490
             A GVL+SNLG+PSYC G RE Y+NS+NVT   +C GS  CSVCL+GLDSLD+YP+LETIQ
Sbjct  2232  AFGVLLSNLGIPSYCDGVRESYVNSSNVTTMDFCEGSFLCSVCLNGLDSLDSYPALETIQ  2291

Query  1491  ITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLI  1550
             +TISS+K DLT+ GL AEWFLAY+LFT+FFY+LGL+AIMQ+FF YFA HFISNSWLMW I
Sbjct  2292  VTISSYKLDLTSLGLAAEWFLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMWFI  2351

Query  1551  INLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVN  1610
             I++VQMAP+SAMVRMYIFFA  YYVWKSYVH++DGC SSTCMMCYKRNRATRVECTTIVN
Sbjct  2352  ISIVQMAPVSAMVRMYIFFAFCYYVWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVN  2411

Query  1611  GVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSS  1670
             G++RSFYVYANGG+GFCK HNWNC+NCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSS
Sbjct  2412  GMKRSFYVYANGGRGFCKAHNWNCLNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSS  2471

Query  1671  YIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSK  1730
             Y+VDSV VKNG++HLYFDKAGQKTYERH LSHFVNLDNLRANNTKGSLPINVIVFDGKSK
Sbjct  2472  YVVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSK  2531

Query  1731  CEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEK  1790
             C+ES+AKSASVYYSQLMCQPILLLDQALVSDVGDS EV+VKMFDAYV+TFS+TF+VPMEK
Sbjct  2532  CDESAAKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEK  2591

Query  1791  LKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGD  1850
             LK LVATA +ELAK V+LD VLSTF+SAARQG VD+DV+TKDV+ECLKLSH SD+EVTGD
Sbjct  2592  LKALVATAHSELAKGVALDGVLSTFVSAARQGVVDTDVDTKDVIECLKLSHHSDLEVTGD  2651

Query  1851  SCNNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQ  1910
             SCNN+MLTYNKVENMTPRDLGACIDC+ARHINAQVAKSHN++LIWNVKD+MSLSEQLRKQ
Sbjct  2652  SCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQLRKQ  2711

Query  1911  IRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
             IRSAAKKNN+PF+LTCATTRQVVN +TTKI+LKGG
Sbjct  2712  IRSAAKKNNIPFRLTCATTRQVVNAITTKISLKGG  2746


>sp|P0C6T5|R1A_BCHK5 Replicase polyprotein 1a OS=Bat coronavirus 
HKU5 OX=694008 GN=1a PE=3 SV=1
Length=4481

 Score = 1716 bits (4444),  Expect = 0.0, Method: Composition-based stats.
 Identities = 571/2049 (28%), Positives = 934/2049 (46%), Gaps = 181/2049 (9%)

Query  2     PTKVTFGDDTVIEVQGYKSVNITFELDERIDKVL-NEKCSAYTVELGTEVNEFACVVADA  60
             P  V FG +   E+   +SV++ +++   +D +L   + + +TVE    V +F  VV D 
Sbjct  854   PKGVKFGGEQTKEITAVRSVSVDYDVHPVLDALLAGSELATFTVEKDLPVKDFVDVVKDE  913

Query  61    VIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE  120
             VI+ L  +       G DL++++    Y+++  G+   +S M  S  P +E EEE D + 
Sbjct  914   VIELLSKLLRGYNVDGFDLEDFADTPCYVYNAEGDLAWSSTMTFSVNPVEEVEEECDDDY  973

Query  121   EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQ  180
              E E  ++     ED+       + A   A+ P E+ + D L  +   +    D +E   
Sbjct  974   VEDEYLSEEMLVEEDEN-----SWAAAVEAVIPMEDVQLDTLVAEIDVSEPADDVAEQAS  1028

Query  181   TTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVV  240
             T      VEV     +E + V    EV S    +  +  ++                   
Sbjct  1029  T----EEVEVPSACVLEASQVANAAEVESCEAEVSSSIPLH--------------EDA--  1068

Query  241   NAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVV  300
             NAA            A + A        ++     +    VG        +     +   
Sbjct  1069  NAA-----------KANDCAEGMPALDSTETVSKLSVDTPVGDVTQDDATSSNATVIS--  1115

Query  301   GPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTN---VYL  357
                          +  +   +   ++  P          P  +L   V+ +R+      +
Sbjct  1116  -------------EDVHTATHSKGLVAVP-------EVVPEKALGTSVERMRSTSEWTVV  1155

Query  358   AVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQ--RKQDDKKIK  415
                 K     +V +       ++V++  AE P +  K  +  +  ++         +  +
Sbjct  1156  ETSLKQETAVIVKN-DSSAKPQRVKKPKAENPLKNFKHIVLNNDVTLVFGDAIAVARATE  1214

Query  416   ACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGD-VVQ  474
              C+               +L     I   +   S  LV      ++    P  VGD  + 
Sbjct  1215  DCIL--------VNAANTHLKHGGGIAAAIDRASGGLVQAESDDYVNFYGPLNVGDSTLL  1266

Query  475   EGVLTA-----VVIPTKKAGGTTEMLA---KALRKVPTDNYITTYPGQGLN--------G  518
             +G   A     VV P  +A    ++L    KA  K P    ++     G+          
Sbjct  1267  KGHGLATGILHVVGPDARANQDIQLLKRCYKAFNKYPL--VVSPLISAGIFCVEPRVSLE  1324

Query  519   YTVEEAKTVLKKCKSAFYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETK  578
             Y +    T      ++  +   + + +    L       R ++ +A+       +C +  
Sbjct  1325  YLLSVVHTKTYVVVNSEKVYNDLAAPKPPTGLTYSHEGWRGIIRNAKSFGFTCFICTDQS  1384

Query  579   AIVSTIQRKYKGIKIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHG  638
             A    ++ +   +  +   VD G ++Y Y+SK  +  +I   N   + +  MP+GYVTHG
Sbjct  1385  ANAKLLKGRGVDLTKKTQTVD-GVKYYLYSSKDPLTDIITAANAC-KGICAMPIGYVTHG  1442

Query  639   LNLEEAARYMRSLKVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSY  698
             L+L +A + ++ + VP    ++S D V   N  +  + +TPE+ FI T+   G Y  W  
Sbjct  1443  LDLAQAGQQVKKITVPYVCLLASKDQVPILNSDV--AVQTPEQSFINTVIANGGYHCWHL  1500

Query  699   -SGQSTQLGI---EFLKRGDKSVYYTSNPTTFHLDGEVITFDNLKTLLSLR-----EVRT  749
              +G+    G+   + L   D+++ Y  N          + FD+L+   +       + + 
Sbjct  1501  VTGELIVKGVSYRKLLNWSDQTICYADNKFYVVKGQIALPFDSLEKCRTYLTSRAAQQKN  1560

Query  750   IKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD-T  808
             + V  T+D +N  T V++ + TY  Q G  +  G+D++   P     G+  Y+  N    
Sbjct  1561  VDVLVTIDGVNFRTVVLNNTTTYRVQLGSVFYKGSDISDTIPTEKMSGEAVYLADNLSEA  1620

Query  809   LRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQI  868
              +    E Y T D +FL RY S L   KKWKY   +G+ S+K   NNCY+   +L L  +
Sbjct  1621  EKAVLSEVYGTADTAFLHRYYSLLALVKKWKYTVHDGVKSLKLNSNNCYVNVTMLMLDML  1680

Query  869   -ELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDS-C  926
              E+KF  PALQ AY + + G++  F ALI+AY + T GE  D    +  +   A L +  
Sbjct  1681  KEIKFIVPALQAAYLKHKGGDSTEFIALIMAYGDCTYGEPDDASRLLHTILSKAELTTQA  1740

Query  927   KRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPF  986
             K V    C  CG Q TT  G++A +Y+G  S ++     +  C CG    + LV+  +P+
Sbjct  1741  KMVWRQWCNVCGVQDTTTTGLKACIYVGMNSLDELHATHEECCQCGDVRKRQLVEHNAPW  1800

Query  987   VMMSAPPAQYELKHGT------FTCASEYTG-NYQCGHYKHITSKETL-YCIDGALLTKS  1038
             +++S       +   +      +T  + + G     GHY H+  K+ L Y  D   L+K+
Sbjct  1801  LLLSGLNEAKVMTPTSQSAGPDYTAFNVFQGVETSVGHYLHVRVKDNLLYKYDSGSLSKT  1860

Query  1039  SEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQP-IDLV  1097
             S+ K  +TDV+Y +  Y+     V Y LDG    ++DP L  +Y KD  YFT++P I+  
Sbjct  1861  SDMKCKMTDVYYPKQRYSADCNVVVYSLDGNTWADVDPDLSAFYMKDGKYFTKKPVIEYS  1920

Query  1098  PNQPYPNASFDNFKFVCDN-----IKFADDLNQLTGYK--KPASRELKVTFFPDLNGDVV  1150
             P      + + N   V  +        +   N L G+   KP S++L  +FFPD  GDV+
Sbjct  1921  PATILSGSVYTNSCLVGHDGTIGSDAISSSFNNLLGFDNSKPVSKKLTYSFFPDFEGDVI  1980

Query  1151  AIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVL  1210
               +Y  Y P +K GA L  KPI+W  N+  + A  K N   +R ++   PV   N + VL
Sbjct  1981  LTEYSTYDPIYKNGAMLHGKPILWVNNSKFDSALNKFNRATLRQVYDIAPVTLENKYTVL  2040

Query  1211  KSEDAQGMDNLAC-EDLKPVSE-EVVENPTIQKDVLECNVKTTEVVGD-IILKPANNSLK  1267
             +    Q ++  A  ED KP S  +V E+   +  +++C       V D          + 
Sbjct  2041  QDNQIQQVEVEAPKEDAKPQSPVQVAEDIDNKLPIIKCKGLKKPFVKDGYSFVNDPQGVN  2100

Query  1268  ITEEVGHTDLMAAYVD-NSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDT----IAN  1322
             + + +G  DL A YVD N  L + K N  S +  + T+    L+ + +    T    I  
Sbjct  2101  VIDTLGIDDLRALYVDRNLRLIVLKENNWSALFNIHTVEKGDLSVIAASGSITRRVKILL  2160

Query  1323  YAKPFLNKVVSTTTNIVT---RCLNRVCTNYMP------YFFTLLLQL----CTFTRSTN  1369
              A     +  S T N+ T   + L R+  N +         F LL  L     TF +S N
Sbjct  2161  GASSLFAQFASVTVNVTTAMGKALGRMTRNVITNTGIIGQGFALLKMLLILPFTFWKSKN  2220

Query  1370  -SRIKASMPTTIAKNTVKS-VGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVC------  1421
              S +K  +        V + V K C  A+++ L    F ++       LL  +C      
Sbjct  2221  QSTVKVEVGALRTAGIVTTNVVKQCASAAYDVLVV-KFKRIDWKSTLRLLFLICTTGLLL  2279

Query  1422  ------------LGSLIYSTAALGVLM------SNLGMPSYCTGYREGYLNSTNVTIATY  1463
                         L S +    A G+L       S LG+ S C G  E Y N  +  +  +
Sbjct  2280  SSLYYLFLFHQVLTSDVMLDGAEGMLATYRELRSYLGIHSLCDGMVEAYRN-VSYDVNDF  2338

Query  1464  CTG-SIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYV  1522
             C+  S  C+ CL G DSL  Y + + IQ  ++S+  ++     V E+ LAY+L+T  F V
Sbjct  2339  CSNRSALCNWCLIGQDSLTRYSAFQMIQTHVTSYVINIDWVWFVMEFALAYVLYTSTFNV  2398

Query  1523  LGLAAIMQLFFSYFA--VHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYV  1580
             L L    Q FFSY    V++ S ++L+      V   P+  +VR+Y F A  +++ + Y 
Sbjct  2399  LLLVVSSQYFFSYTGAFVNWRSYNYLVSGYFFCVTHIPLLGLVRIYNFLACLWFLRRFYN  2458

Query  1581  HVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTF  1640
             HV++GC  + C++CYKRNR TRVE +T+V G +R+FY+ ANGG  FC  HNWNCV+CDT 
Sbjct  2459  HVINGCKDTACLLCYKRNRLTRVEASTVVCGSKRTFYIVANGGTSFCCRHNWNCVDCDTA  2518

Query  1641  CAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSL  1700
               G+TFI +EVA DL+   +R + PTD+S Y V+SVTVK+  + L++ + G   YER+ L
Sbjct  2519  GIGNTFICEEVANDLTTSLRRLVKPTDKSHYYVESVTVKDSVVQLHYSREGASCYERYPL  2578

Query  1701  SHFVNLDNLRANN----TKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQ  1756
              +F NLD L+         G    N +++D   + +E+ A+SA VYYSQ++ +P+LL+D 
Sbjct  2579  CYFTNLDKLKFKEVCKTPTGIPEHNFLIYDSSDRGQENLARSACVYYSQVLSKPMLLVDS  2638

Query  1757  ALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFI  1816
              +V+ VGDS E+A KM D+YVN+F S F V  +KL  LVATA   + +      V+ TF 
Sbjct  2639  NMVTTVGDSREIASKMLDSYVNSFISLFGVNRDKLDKLVATARDCVKRGDDFQTVIKTFT  2698

Query  1817  SAAR-QGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACID  1875
              AAR    V+SDVET  +V+ L+ +++ D+++T +  NNY+ +Y K +++   DLG  ID
Sbjct  2699  DAARGPAGVESDVETSSIVDALQYAYKHDLQLTTEGFNNYVPSYIKPDSVATADLGCLID  2758

Query  1876  CSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNV  1935
              +A  +N    ++ N A IWN  D+M LS+ L++QIR A +K N+PF+LT +  R   N+
Sbjct  2759  LNAASVNQTSIRNANGACIWNSSDYMKLSDSLKRQIRIACRKCNIPFRLTTSRLRSADNI  2818

Query  1936  VTTKIALKG  1944
             ++ K +   
Sbjct  2819  LSVKFSATK  2827


>sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus 
HKU5 OX=694008 GN=rep PE=3 SV=1
Length=7182

 Score = 1716 bits (4443),  Expect = 0.0, Method: Composition-based stats.
 Identities = 571/2049 (28%), Positives = 934/2049 (46%), Gaps = 181/2049 (9%)

Query  2     PTKVTFGDDTVIEVQGYKSVNITFELDERIDKVL-NEKCSAYTVELGTEVNEFACVVADA  60
             P  V FG +   E+   +SV++ +++   +D +L   + + +TVE    V +F  VV D 
Sbjct  854   PKGVKFGGEQTKEITAVRSVSVDYDVHPVLDALLAGSELATFTVEKDLPVKDFVDVVKDE  913

Query  61    VIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE  120
             VI+ L  +       G DL++++    Y+++  G+   +S M  S  P +E EEE D + 
Sbjct  914   VIELLSKLLRGYNVDGFDLEDFADTPCYVYNAEGDLAWSSTMTFSVNPVEEVEEECDDDY  973

Query  121   EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQ  180
              E E  ++     ED+       + A   A+ P E+ + D L  +   +    D +E   
Sbjct  974   VEDEYLSEEMLVEEDEN-----SWAAAVEAVIPMEDVQLDTLVAEIDVSEPADDVAEQAS  1028

Query  181   TTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVV  240
             T      VEV     +E + V    EV S    +  +  ++                   
Sbjct  1029  T----EEVEVPSACVLEASQVANAAEVESCEAEVSSSIPLH--------------EDA--  1068

Query  241   NAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVV  300
             NAA            A + A        ++     +    VG        +     +   
Sbjct  1069  NAA-----------KANDCAEGMPALDSTETVSKLSVDTPVGDVTQDDATSSNATVIS--  1115

Query  301   GPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTN---VYL  357
                          +  +   +   ++  P          P  +L   V+ +R+      +
Sbjct  1116  -------------EDVHTATHSKGLVAVP-------EVVPEKALGTSVERMRSTSEWTVV  1155

Query  358   AVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQ--RKQDDKKIK  415
                 K     +V +       ++V++  AE P +  K  +  +  ++         +  +
Sbjct  1156  ETSLKQETAVIVKN-DSSAKPQRVKKPKAENPLKNFKHIVLNNDVTLVFGDAIAVARATE  1214

Query  416   ACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGD-VVQ  474
              C+               +L     I   +   S  LV      ++    P  VGD  + 
Sbjct  1215  DCIL--------VNAANTHLKHGGGIAAAIDRASGGLVQAESDDYVNFYGPLNVGDSTLL  1266

Query  475   EGVLTA-----VVIPTKKAGGTTEMLA---KALRKVPTDNYITTYPGQGLN--------G  518
             +G   A     VV P  +A    ++L    KA  K P    ++     G+          
Sbjct  1267  KGHGLATGILHVVGPDARANQDIQLLKRCYKAFNKYPL--VVSPLISAGIFCVEPRVSLE  1324

Query  519   YTVEEAKTVLKKCKSAFYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETK  578
             Y +    T      ++  +   + + +    L       R ++ +A+       +C +  
Sbjct  1325  YLLSVVHTKTYVVVNSEKVYNDLAAPKPPTGLTYSHEGWRGIIRNAKSFGFTCFICTDQS  1384

Query  579   AIVSTIQRKYKGIKIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHG  638
             A    ++ +   +  +   VD G ++Y Y+SK  +  +I   N   + +  MP+GYVTHG
Sbjct  1385  ANAKLLKGRGVDLTKKTQTVD-GVKYYLYSSKDPLTDIITAANAC-KGICAMPIGYVTHG  1442

Query  639   LNLEEAARYMRSLKVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSY  698
             L+L +A + ++ + VP    ++S D V   N  +  + +TPE+ FI T+   G Y  W  
Sbjct  1443  LDLAQAGQQVKKITVPYVCLLASKDQVPILNSDV--AVQTPEQSFINTVIANGGYHCWHL  1500

Query  699   -SGQSTQLGI---EFLKRGDKSVYYTSNPTTFHLDGEVITFDNLKTLLSLR-----EVRT  749
              +G+    G+   + L   D+++ Y  N          + FD+L+   +       + + 
Sbjct  1501  VTGELIVKGVSYRKLLNWSDQTICYADNKFYVVKGQIALPFDSLEKCRTYLTSRAAQQKN  1560

Query  750   IKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD-T  808
             + V  T+D +N  T V++ + TY  Q G  +  G+D++   P     G+  Y+  N    
Sbjct  1561  VDVLVTIDGVNFRTVVLNNTTTYRVQLGSVFYKGSDISDTIPTEKMSGEAVYLADNLSEA  1620

Query  809   LRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQI  868
              +    E Y T D +FL RY S L   KKWKY   +G+ S+K   NNCY+   +L L  +
Sbjct  1621  EKAVLSEVYGTADTAFLHRYYSLLALVKKWKYTVHDGVKSLKLNSNNCYVNVTMLMLDML  1680

Query  869   -ELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDS-C  926
              E+KF  PALQ AY + + G++  F ALI+AY + T GE  D    +  +   A L +  
Sbjct  1681  KEIKFIVPALQAAYLKHKGGDSTEFIALIMAYGDCTYGEPDDASRLLHTILSKAELTTQA  1740

Query  927   KRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPF  986
             K V    C  CG Q TT  G++A +Y+G  S ++     +  C CG    + LV+  +P+
Sbjct  1741  KMVWRQWCNVCGVQDTTTTGLKACIYVGMNSLDELHATHEECCQCGDVRKRQLVEHNAPW  1800

Query  987   VMMSAPPAQYELKHGT------FTCASEYTG-NYQCGHYKHITSKETL-YCIDGALLTKS  1038
             +++S       +   +      +T  + + G     GHY H+  K+ L Y  D   L+K+
Sbjct  1801  LLLSGLNEAKVMTPTSQSAGPDYTAFNVFQGVETSVGHYLHVRVKDNLLYKYDSGSLSKT  1860

Query  1039  SEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQP-IDLV  1097
             S+ K  +TDV+Y +  Y+     V Y LDG    ++DP L  +Y KD  YFT++P I+  
Sbjct  1861  SDMKCKMTDVYYPKQRYSADCNVVVYSLDGNTWADVDPDLSAFYMKDGKYFTKKPVIEYS  1920

Query  1098  PNQPYPNASFDNFKFVCDN-----IKFADDLNQLTGYK--KPASRELKVTFFPDLNGDVV  1150
             P      + + N   V  +        +   N L G+   KP S++L  +FFPD  GDV+
Sbjct  1921  PATILSGSVYTNSCLVGHDGTIGSDAISSSFNNLLGFDNSKPVSKKLTYSFFPDFEGDVI  1980

Query  1151  AIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVL  1210
               +Y  Y P +K GA L  KPI+W  N+  + A  K N   +R ++   PV   N + VL
Sbjct  1981  LTEYSTYDPIYKNGAMLHGKPILWVNNSKFDSALNKFNRATLRQVYDIAPVTLENKYTVL  2040

Query  1211  KSEDAQGMDNLAC-EDLKPVSE-EVVENPTIQKDVLECNVKTTEVVGD-IILKPANNSLK  1267
             +    Q ++  A  ED KP S  +V E+   +  +++C       V D          + 
Sbjct  2041  QDNQIQQVEVEAPKEDAKPQSPVQVAEDIDNKLPIIKCKGLKKPFVKDGYSFVNDPQGVN  2100

Query  1268  ITEEVGHTDLMAAYVD-NSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDT----IAN  1322
             + + +G  DL A YVD N  L + K N  S +  + T+    L+ + +    T    I  
Sbjct  2101  VIDTLGIDDLRALYVDRNLRLIVLKENNWSALFNIHTVEKGDLSVIAASGSITRRVKILL  2160

Query  1323  YAKPFLNKVVSTTTNIVT---RCLNRVCTNYMP------YFFTLLLQL----CTFTRSTN  1369
              A     +  S T N+ T   + L R+  N +         F LL  L     TF +S N
Sbjct  2161  GASSLFAQFASVTVNVTTAMGKALGRMTRNVITNTGIIGQGFALLKMLLILPFTFWKSKN  2220

Query  1370  -SRIKASMPTTIAKNTVKS-VGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVC------  1421
              S +K  +        V + V K C  A+++ L    F ++       LL  +C      
Sbjct  2221  QSTVKVEVGALRTAGIVTTNVVKQCASAAYDVLVV-KFKRIDWKSTLRLLFLICTTGLLL  2279

Query  1422  ------------LGSLIYSTAALGVLM------SNLGMPSYCTGYREGYLNSTNVTIATY  1463
                         L S +    A G+L       S LG+ S C G  E Y N  +  +  +
Sbjct  2280  SSLYYLFLFHQVLTSDVMLDGAEGMLATYRELRSYLGIHSLCDGMVEAYRN-VSYDVNDF  2338

Query  1464  CTG-SIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYV  1522
             C+  S  C+ CL G DSL  Y + + IQ  ++S+  ++     V E+ LAY+L+T  F V
Sbjct  2339  CSNRSALCNWCLIGQDSLTRYSAFQMIQTHVTSYVINIDWVWFVMEFALAYVLYTSTFNV  2398

Query  1523  LGLAAIMQLFFSYFA--VHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYV  1580
             L L    Q FFSY    V++ S ++L+      V   P+  +VR+Y F A  +++ + Y 
Sbjct  2399  LLLVVSSQYFFSYTGAFVNWRSYNYLVSGYFFCVTHIPLLGLVRIYNFLACLWFLRRFYN  2458

Query  1581  HVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTF  1640
             HV++GC  + C++CYKRNR TRVE +T+V G +R+FY+ ANGG  FC  HNWNCV+CDT 
Sbjct  2459  HVINGCKDTACLLCYKRNRLTRVEASTVVCGSKRTFYIVANGGTSFCCRHNWNCVDCDTA  2518

Query  1641  CAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSL  1700
               G+TFI +EVA DL+   +R + PTD+S Y V+SVTVK+  + L++ + G   YER+ L
Sbjct  2519  GIGNTFICEEVANDLTTSLRRLVKPTDKSHYYVESVTVKDSVVQLHYSREGASCYERYPL  2578

Query  1701  SHFVNLDNLRANN----TKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQ  1756
              +F NLD L+         G    N +++D   + +E+ A+SA VYYSQ++ +P+LL+D 
Sbjct  2579  CYFTNLDKLKFKEVCKTPTGIPEHNFLIYDSSDRGQENLARSACVYYSQVLSKPMLLVDS  2638

Query  1757  ALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFI  1816
              +V+ VGDS E+A KM D+YVN+F S F V  +KL  LVATA   + +      V+ TF 
Sbjct  2639  NMVTTVGDSREIASKMLDSYVNSFISLFGVNRDKLDKLVATARDCVKRGDDFQTVIKTFT  2698

Query  1817  SAAR-QGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACID  1875
              AAR    V+SDVET  +V+ L+ +++ D+++T +  NNY+ +Y K +++   DLG  ID
Sbjct  2699  DAARGPAGVESDVETSSIVDALQYAYKHDLQLTTEGFNNYVPSYIKPDSVATADLGCLID  2758

Query  1876  CSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNV  1935
              +A  +N    ++ N A IWN  D+M LS+ L++QIR A +K N+PF+LT +  R   N+
Sbjct  2759  LNAASVNQTSIRNANGACIWNSSDYMKLSDSLKRQIRIACRKCNIPFRLTTSRLRSADNI  2818

Query  1936  VTTKIALKG  1944
             ++ K +   
Sbjct  2819  LSVKFSATK  2827


>sp|P0C6T6|R1A_BCHK9 Replicase polyprotein 1a OS=Bat coronavirus 
HKU9 OX=694006 GN=1a PE=3 SV=1
Length=4248

 Score = 1666 bits (4314),  Expect = 0.0, Method: Composition-based stats.
 Identities = 604/1996 (30%), Positives = 965/1996 (48%), Gaps = 213/1996 (11%)

Query  3     TKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADAVI  62
             +KVTFGD+ V  +    +VN ++++ E +D +L++  + + VE GT++ + ACVV  AV 
Sbjct  775   SKVTFGDEEVHTIPNTVTVNFSYDVCEGLDAILDKVMAPFQVEEGTKLEDLACVVQKAVY  834

Query  63    KTLQP----VSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSF--YPPDEDEEEG  116
             + L          L P  I+L+++  +  +++ +  E  L   MY S     P +DE   
Sbjct  835   ERLSDLFSDCPAELRP--INLEDFLTSECFVYSKDYEKILMPEMYFSLEDAVPVDDEMVD  892

Query  117   DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
             D E+                              ++   + ++ WL D+  +        
Sbjct  893   DIED-----------------------------TVEQASDSDDQWLGDEGAE--------  915

Query  177   EDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKP  236
                      TI +V     M               GY K+ ++VYIK ADIV+EA+    
Sbjct  916   -----DCDNTIQDVDVATSMTTP-----------CGYTKIAEHVYIKCADIVQEARNYSY  959

Query  237   TVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKH-  295
              V+VNAANV L HGGGVAGALN+ATNNAMQ ES +YI  NG L+ GG  +LS H LA H 
Sbjct  960   AVLVNAANVNLHHGGGVAGALNRATNNAMQKESSEYIKANGSLQPGGHVLLSSHGLASHG  1019

Query  296   CLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNV  355
              LHVVGP+   G+D+ LL + Y  +   + +L PL+SAGIFG     SL   V  V    
Sbjct  1020  ILHVVGPDKRLGQDLALLDAVYAAYTGFDSVLTPLVSAGIFGFTVEESLCSLVKNVACTT  1079

Query  356   YLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIK  415
             Y+ V+D+ LY++ +++  ++   +   Q +  I   E    +   +  V+Q +       
Sbjct  1080  YVVVYDRQLYERALATSFDVPGPQSSVQHVPAIDWAEA---VEVQESIVDQVETPSLGAV  1136

Query  416   ACVEEVTTT-LEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQ  474
               V+    + L ET    EN++  +       PD                   +V DV  
Sbjct  1137  DTVDSNADSGLNETARSPENVVGSV-------PDD------------------VVADV--  1169

Query  475   EGVLTAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSA  534
                 + V           +++ + ++KV  D        Q     TVE+    +      
Sbjct  1170  ---ESCV----------RDLVRQVVKKVKRDKRPPPIVPQ----QTVEQQPQEISSPGDC  1212

Query  535   FYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQ  594
               +L           +  VS +   M+   +E   L+PV ++  A +  ++R       +
Sbjct  1213  NTVL-----------VDVVSMSFSAMVNFGKEKGLLIPVVIDYPAFLKVLKR----FSPK  1257

Query  595   EGVVDY-GARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKV  653
             EG+    G  FY Y+    +  +   LN L   L+ +P G++ +G  L  +A  MR L V
Sbjct  1258  EGLFSSNGYEFYGYSRDKPLHEVSKDLNSLGRPLIMIPFGFIVNGQTLAVSAVSMRGLTV  1317

Query  654   PATVSVSSPDAVTAYNGYLT---SSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIE--  708
             P TV V S  +V  Y  Y     S   T  + F+  I L G+ +DW     +  +  +  
Sbjct  1318  PHTVVVPSESSVPLYRAYFNGVFSGDTTAVQDFVVDILLNGA-RDWDVLQTTCTVDRKVY  1376

Query  709   --FLKRGDKSVYYTSNPTTFHLDGE-VITFDNLKTLLSLREVR------TIKVFTTVDNI  759
                 KRG+  + +  +   + + G+ V+ F  +    +  E +       IKV TTVD I
Sbjct  1377  KTICKRGNTYLCF-DDTNLYAITGDVVLKFATVSKARAYLETKLCAPEPLIKVLTTVDGI  1435

Query  760   NLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAF-EYYH  818
             N  T +V  + +Y  Q G  + DG D +   P  + EG   Y   N  +  V A  EYY 
Sbjct  1436  NYSTVLVSTAQSYRAQIGTVFCDGHDWSNKNPMPTDEGTHLYKQDNFSSAEVTAIREYYG  1495

Query  819   TTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQ  878
               D + + R MS     + W Y  V+G   +   D+NCYL  A+  LQ I++ F+ P + 
Sbjct  1496  VDDSNIIARAMSIRKTVQTWPYTVVDGRVLLAQRDSNCYLNVAISLLQDIDVSFSTPWVC  1555

Query  879   DAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCG  938
              AY   + G       +++A    T G   D    +S +  H  + + +RV+  VC+ CG
Sbjct  1556  RAYDALKGGNPLPMAEVLIALGKATPGVSDDAHMVLSAVLNHGTV-TARRVMQTVCEHCG  1614

Query  939   QQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYEL  998
               Q    G +A  + G++  +     V + C CG+ A +Y+ +Q+SP+++MS  P Q  L
Sbjct  1615  VSQMVFTGTDACTFYGSVVLDDLYAPVSVVCQCGRPAIRYVSEQKSPWLLMSCTPTQVPL  1674

Query  999   -KHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTT  1057
                G +  A  + G    GHY +  +   +   D     ++S+ K P TD+ Y   S+T+
Sbjct  1675  DTSGIWKTAIVFRGPVTAGHYMYAVNGTLISVYDANTRRRTSDLKLPATDILYGPTSFTS  1734

Query  1058  TIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKF-VCDN  1116
               K  TY LDGV  T IDP    Y K+ + YFT  PI++V   P    S+D F    C N
Sbjct  1735  DSKVETYYLDGVKRTTIDPDFSKYVKRGDYYFTTAPIEVV-AAPKLVTSYDGFYLSSCQN  1793

Query  1117  IKFADDLNQLTGYKKPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHV  1176
              + A+  N+     K    +L +T +P++ GDVVAI   +   +   G+  + KP+++  
Sbjct  1794  PQLAESFNKAINATKTGPMKL-LTMYPNVAGDVVAISDDNVV-AHPYGSLHMGKPVLF--  1849

Query  1177  NNATNKATYKPNTW-CIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVE  1235
                      +PNTW  +  L ST  V T N++DVL              D  PV+ E  E
Sbjct  1850  -------VTRPNTWKKLVPLLSTVVVNTPNTYDVLAV------------DPLPVNNETSE  1890

Query  1236  NP-TIQKDVLECNVKTTEVVGDIILKPANNS-LKITEEVGHTDLMAAYVDN-SSLTIKKP  1292
              P +++  +    +K T V+      P N   L   +E   TDL   YV+      + K 
Sbjct  1891  EPISVKAPIPLYGLKATMVLNGTTYVPGNKGHLLCLKEFTLTDLQTFYVEGVQPFVLLKA  1950

Query  1293  NELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTT--NIVTRCLNRV----  1346
             + LS+VLGL+   +     VN +    +  YA   L   V+T+    +VTR + +     
Sbjct  1951  SHLSKVLGLRV--SDSSLHVNHLSKGVVYAYAATRLTTRVTTSLLGGLVTRSVRKTADFV  2008

Query  1347  --------CTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFN  1398
                     C   +  F+ L ++     +     +K S    IA NT   V    L    N
Sbjct  2009  RSTNPGSKCVGLLCLFYQLFMRFWLLVKKP-PIVKVS--GIIAYNTGCGVTTCVL----N  2061

Query  1399  YLKSP----NFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYRE--GY  1452
             YL+S     ++S+L+ ++ + L +      L       GV +S    PS  T ++   G 
Sbjct  2062  YLRSRCGNISWSRLLKLLRYMLYIWFVWTCLT----ICGVWLSEPYAPSLVTRFKYFLGI  2117

Query  1453  LNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLA  1512
             +   +  +           +C++G+DSLD YP+L   Q    S  ++ T   ++ E F A
Sbjct  2118  VMPCDYVLVNETGTGWLHHLCMAGMDSLD-YPALRMQQHRYGSP-YNYTYILMLLEAFFA  2175

Query  1513  YILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASF  1572
             Y+L+T    ++G+ A++ L   Y  +  + NSWL+  +  ++++ P ++M+RMYI  A  
Sbjct  2176  YLLYTPALPIVGILAVLHLIVLYLPIP-LGNSWLVVFLYYIIRLVPFTSMLRMYIVIAFL  2234

Query  1573  YYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNW  1632
             +  +K ++HV  GCN+  C+MCYK+N A R+EC+T+VNGV+R FYV ANGG  FC  HNW
Sbjct  2235  WLCYKGFLHVRYGCNNVACLMCYKKNVAKRIECSTVVNGVKRMFYVNANGGTHFCTKHNW  2294

Query  1633  NCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQ  1692
             NCV+CDT+   STFI  +VA DLS QFKRPI  TD++ Y V SV V+NG ++ YF+  GQ
Sbjct  2295  NCVSCDTYTVDSTFICRQVALDLSAQFKRPIIHTDEAYYEVTSVEVRNGYVYCYFESDGQ  2354

Query  1693  KTYERHSLSHFVNLDNLRANNTKGSLP-INVIVFDGKSKCEESSAKSASVYYSQLMCQPI  1751
             ++YER  +  F N+  L  +  KG+ P  NV+VFD  ++ EE++ K+A++YY+QL C+PI
Sbjct  2355  RSYERFPMDAFTNVSKLHYSELKGAAPAFNVLVFDATNRIEENAVKTAAIYYAQLACKPI  2414

Query  1752  LLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNV  1811
             LL+D+ +V  VGD A +A  MF+AY   +   +++ M+K+K L +TA  +++  +++++V
Sbjct  2415  LLVDKRMVGVVGDDATIARAMFEAYAQNYLLKYSIAMDKVKHLYSTALQQISSGMTVESV  2474

Query  1812  LSTFISAARQGFVD--SDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRD  1869
             L  F+ + R    D  SDV+T D+V C++L HQ   E T DS NN + TY K + ++  +
Sbjct  2475  LKVFVGSTRAEAKDLESDVDTNDLVSCIRLCHQEGWEWTTDSWNNLVPTYIKQDTLSTLE  2534

Query  1870  LGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATT  1929
             +G  +  +A+++NA +AK   + LIW   DF+ LSE +R+Q++ AA+K  L   +T ++ 
Sbjct  2535  VGQFMTANAKYVNANIAKGAAVNLIWRYADFIKLSESMRRQLKVAARKTGLNLLVTTSSL  2594

Query  1930  RQVVNVVTTKIALKGG  1945
             +  V  + T   + GG
Sbjct  2595  KADVPCMVTPFKIIGG  2610


>sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus 
HKU9 OX=694006 GN=rep PE=1 SV=1
Length=6930

 Score = 1662 bits (4304),  Expect = 0.0, Method: Composition-based stats.
 Identities = 604/1996 (30%), Positives = 965/1996 (48%), Gaps = 213/1996 (11%)

Query  3     TKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADAVI  62
             +KVTFGD+ V  +    +VN ++++ E +D +L++  + + VE GT++ + ACVV  AV 
Sbjct  775   SKVTFGDEEVHTIPNTVTVNFSYDVCEGLDAILDKVMAPFQVEEGTKLEDLACVVQKAVY  834

Query  63    KTLQP----VSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSF--YPPDEDEEEG  116
             + L          L P  I+L+++  +  +++ +  E  L   MY S     P +DE   
Sbjct  835   ERLSDLFSDCPAELRP--INLEDFLTSECFVYSKDYEKILMPEMYFSLEDAVPVDDEMVD  892

Query  117   DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
             D E+                              ++   + ++ WL D+  +        
Sbjct  893   DIED-----------------------------TVEQASDSDDQWLGDEGAE--------  915

Query  177   EDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKP  236
                      TI +V     M               GY K+ ++VYIK ADIV+EA+    
Sbjct  916   -----DCDNTIQDVDVATSMTTP-----------CGYTKIAEHVYIKCADIVQEARNYSY  959

Query  237   TVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKH-  295
              V+VNAANV L HGGGVAGALN+ATNNAMQ ES +YI  NG L+ GG  +LS H LA H 
Sbjct  960   AVLVNAANVNLHHGGGVAGALNRATNNAMQKESSEYIKANGSLQPGGHVLLSSHGLASHG  1019

Query  296   CLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNV  355
              LHVVGP+   G+D+ LL + Y  +   + +L PL+SAGIFG     SL   V  V    
Sbjct  1020  ILHVVGPDKRLGQDLALLDAVYAAYTGFDSVLTPLVSAGIFGFTVEESLCSLVKNVACTT  1079

Query  356   YLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIK  415
             Y+ V+D+ LY++ +++  ++   +   Q +  I   E    +   +  V+Q +       
Sbjct  1080  YVVVYDRQLYERALATSFDVPGPQSSVQHVPAIDWAEA---VEVQESIVDQVETPSLGAV  1136

Query  416   ACVEEVTTT-LEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQ  474
               V+    + L ET    EN++  +       PD                   +V DV  
Sbjct  1137  DTVDSNADSGLNETARSPENVVGSV-------PDD------------------VVADV--  1169

Query  475   EGVLTAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSA  534
                 + V           +++ + ++KV  D        Q     TVE+    +      
Sbjct  1170  ---ESCV----------RDLVRQVVKKVKRDKRPPPIVPQ----QTVEQQPQEISSPGDC  1212

Query  535   FYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQ  594
               +L           +  VS +   M+   +E   L+PV ++  A +  ++R       +
Sbjct  1213  NTVL-----------VDVVSMSFSAMVNFGKEKGLLIPVVIDYPAFLKVLKR----FSPK  1257

Query  595   EGVVDY-GARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKV  653
             EG+    G  FY Y+    +  +   LN L   L+ +P G++ +G  L  +A  MR L V
Sbjct  1258  EGLFSSNGYEFYGYSRDKPLHEVSKDLNSLGRPLIMIPFGFIVNGQTLAVSAVSMRGLTV  1317

Query  654   PATVSVSSPDAVTAYNGYLT---SSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIE--  708
             P TV V S  +V  Y  Y     S   T  + F+  I L G+ +DW     +  +  +  
Sbjct  1318  PHTVVVPSESSVPLYRAYFNGVFSGDTTAVQDFVVDILLNGA-RDWDVLQTTCTVDRKVY  1376

Query  709   --FLKRGDKSVYYTSNPTTFHLDGE-VITFDNLKTLLSLREVR------TIKVFTTVDNI  759
                 KRG+  + +  +   + + G+ V+ F  +    +  E +       IKV TTVD I
Sbjct  1377  KTICKRGNTYLCF-DDTNLYAITGDVVLKFATVSKARAYLETKLCAPEPLIKVLTTVDGI  1435

Query  760   NLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAF-EYYH  818
             N  T +V  + +Y  Q G  + DG D +   P  + EG   Y   N  +  V A  EYY 
Sbjct  1436  NYSTVLVSTAQSYRAQIGTVFCDGHDWSNKNPMPTDEGTHLYKQDNFSSAEVTAIREYYG  1495

Query  819   TTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQ  878
               D + + R MS     + W Y  V+G   +   D+NCYL  A+  LQ I++ F+ P + 
Sbjct  1496  VDDSNIIARAMSIRKTVQTWPYTVVDGRVLLAQRDSNCYLNVAISLLQDIDVSFSTPWVC  1555

Query  879   DAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCG  938
              AY   + G       +++A    T G   D    +S +  H  + + +RV+  VC+ CG
Sbjct  1556  RAYDALKGGNPLPMAEVLIALGKATPGVSDDAHMVLSAVLNHGTV-TARRVMQTVCEHCG  1614

Query  939   QQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYEL  998
               Q    G +A  + G++  +     V + C CG+ A +Y+ +Q+SP+++MS  P Q  L
Sbjct  1615  VSQMVFTGTDACTFYGSVVLDDLYAPVSVVCQCGRPAIRYVSEQKSPWLLMSCTPTQVPL  1674

Query  999   -KHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTT  1057
                G +  A  + G    GHY +  +   +   D     ++S+ K P TD+ Y   S+T+
Sbjct  1675  DTSGIWKTAIVFRGPVTAGHYMYAVNGTLISVYDANTRRRTSDLKLPATDILYGPTSFTS  1734

Query  1058  TIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPNASFDNFKF-VCDN  1116
               K  TY LDGV  T IDP    Y K+ + YFT  PI++V   P    S+D F    C N
Sbjct  1735  DSKVETYYLDGVKRTTIDPDFSKYVKRGDYYFTTAPIEVV-AAPKLVTSYDGFYLSSCQN  1793

Query  1117  IKFADDLNQLTGYKKPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHV  1176
              + A+  N+     K    +L +T +P++ GDVVAI   +   +   G+  + KP+++  
Sbjct  1794  PQLAESFNKAINATKTGPMKL-LTMYPNVAGDVVAISDDNVV-AHPYGSLHMGKPVLF--  1849

Query  1177  NNATNKATYKPNTW-CIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVE  1235
                      +PNTW  +  L ST  V T N++DVL              D  PV+ E  E
Sbjct  1850  -------VTRPNTWKKLVPLLSTVVVNTPNTYDVLAV------------DPLPVNNETSE  1890

Query  1236  NP-TIQKDVLECNVKTTEVVGDIILKPANNS-LKITEEVGHTDLMAAYVDN-SSLTIKKP  1292
              P +++  +    +K T V+      P N   L   +E   TDL   YV+      + K 
Sbjct  1891  EPISVKAPIPLYGLKATMVLNGTTYVPGNKGHLLCLKEFTLTDLQTFYVEGVQPFVLLKA  1950

Query  1293  NELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTT--NIVTRCLNRV----  1346
             + LS+VLGL+   +     VN +    +  YA   L   V+T+    +VTR + +     
Sbjct  1951  SHLSKVLGLRV--SDSSLHVNHLSKGVVYAYAATRLTTRVTTSLLGGLVTRSVRKTADFV  2008

Query  1347  --------CTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFN  1398
                     C   +  F+ L ++     +     +K S    IA NT   V    L    N
Sbjct  2009  RSTNPGSKCVGLLCLFYQLFMRFWLLVKKP-PIVKVS--GIIAYNTGCGVTTCVL----N  2061

Query  1399  YLKSP----NFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYRE--GY  1452
             YL+S     ++S+L+ ++ + L +      L       GV +S    PS  T ++   G 
Sbjct  2062  YLRSRCGNISWSRLLKLLRYMLYIWFVWTCLT----ICGVWLSEPYAPSLVTRFKYFLGI  2117

Query  1453  LNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLA  1512
             +   +  +           +C++G+DSLD YP+L   Q    S  ++ T   ++ E F A
Sbjct  2118  VMPCDYVLVNETGTGWLHHLCMAGMDSLD-YPALRMQQHRYGSP-YNYTYILMLLEAFFA  2175

Query  1513  YILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASF  1572
             Y+L+T    ++G+ A++ L   Y  +  + NSWL+  +  ++++ P ++M+RMYI  A  
Sbjct  2176  YLLYTPALPIVGILAVLHLIVLYLPIP-LGNSWLVVFLYYIIRLVPFTSMLRMYIVIAFL  2234

Query  1573  YYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNW  1632
             +  +K ++HV  GCN+  C+MCYK+N A R+EC+T+VNGV+R FYV ANGG  FC  HNW
Sbjct  2235  WLCYKGFLHVRYGCNNVACLMCYKKNVAKRIECSTVVNGVKRMFYVNANGGTHFCTKHNW  2294

Query  1633  NCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQ  1692
             NCV+CDT+   STFI  +VA DLS QFKRPI  TD++ Y V SV V+NG ++ YF+  GQ
Sbjct  2295  NCVSCDTYTVDSTFICRQVALDLSAQFKRPIIHTDEAYYEVTSVEVRNGYVYCYFESDGQ  2354

Query  1693  KTYERHSLSHFVNLDNLRANNTKGSLP-INVIVFDGKSKCEESSAKSASVYYSQLMCQPI  1751
             ++YER  +  F N+  L  +  KG+ P  NV+VFD  ++ EE++ K+A++YY+QL C+PI
Sbjct  2355  RSYERFPMDAFTNVSKLHYSELKGAAPAFNVLVFDATNRIEENAVKTAAIYYAQLACKPI  2414

Query  1752  LLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNV  1811
             LL+D+ +V  VGD A +A  MF+AY   +   +++ M+K+K L +TA  +++  +++++V
Sbjct  2415  LLVDKRMVGVVGDDATIARAMFEAYAQNYLLKYSIAMDKVKHLYSTALQQISSGMTVESV  2474

Query  1812  LSTFISAARQGFVD--SDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRD  1869
             L  F+ + R    D  SDV+T D+V C++L HQ   E T DS NN + TY K + ++  +
Sbjct  2475  LKVFVGSTRAEAKDLESDVDTNDLVSCIRLCHQEGWEWTTDSWNNLVPTYIKQDTLSTLE  2534

Query  1870  LGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATT  1929
             +G  +  +A+++NA +AK   + LIW   DF+ LSE +R+Q++ AA+K  L   +T ++ 
Sbjct  2535  VGQFMTANAKYVNANIAKGAAVNLIWRYADFIKLSESMRRQLKVAARKTGLNLLVTTSSL  2594

Query  1930  RQVVNVVTTKIALKGG  1945
             +  V  + T   + GG
Sbjct  2595  KADVPCMVTPFKIIGG  2610


>sp|K9N638|R1A_MERS1 Replicase polyprotein 1a OS=Middle East respiratory 
syndrome-related coronavirus (isolate United Kingdom/H123990006/2012) 
OX=1263720 GN=1a PE=1 SV=1
Length=4391

 Score = 1579 bits (4089),  Expect = 0.0, Method: Composition-based stats.
 Identities = 491/1724 (28%), Positives = 815/1724 (47%), Gaps = 138/1724 (8%)

Query  338   ADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPF-  396
                    +V +        +      +  ++V    E ++ +   +++A + + + +   
Sbjct  1034  VPVEDIAQVVIADTLQETPVVSDTVEVPPQVVKLPSEPQTIQPEVKEVAPVYEADTEQTQ  1093

Query  397   -ITESKPSVEQRKQDDK----KIKACVEEVT----TTLEETKFLTENLLLYI--------  439
              +T     + +++  D     + K   E VT      ++  K   E++L+          
Sbjct  1094  SVTVKPKRLRKKRNVDPLSNFEHKVITECVTIVLGDAIQVAKCYGESVLVNAANTHLKHG  1153

Query  440   -DINGNLHPDSATLVSDIDITFLKKDAPYIVGD-VVQEGVLTA-----VVIPTKKAGGTT  492
               I G ++  S   V      ++    P  VGD V+ +G   A     VV P  +A    
Sbjct  1154  GGIAGAINAASKGAVQKESDEYILAKGPLQVGDSVLLQGHSLAKNILHVVGPDARAKQDV  1213

Query  493   EMLAK---ALRKVPTDNYITTYPGQGLNG--------YTVEEAKTVLKKCKSAFYILPSI  541
              +L+K   A+   P    +T     G+ G        Y + EAKT +    ++  +  S+
Sbjct  1214  SLLSKCYKAMNAYPL--VVTPLVSAGIFGVKPAVSFDYLIREAKTRVLVVVNSQDVYKSL  1271

Query  542   ISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDYG  601
                +  + L      LR  +  A++    + VC +  A    ++ K      +   VD G
Sbjct  1272  TIVDIPQSLTFSYDGLRGAIRKAKDYGFTVFVCTDNSANTKVLRNKGVDYTKKFLTVD-G  1330

Query  602   ARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVSS  661
              ++Y YTSK T+  ++   N  +  +++MPLGYV+HGL+L +A   +R + VP    +++
Sbjct  1331  VQYYCYTSKDTLDDILQQANK-SVGIISMPLGYVSHGLDLIQAGSVVRRVNVPYVCLLAN  1389

Query  662   PDAVTAYNGYLTSSSK--TPEEHFIETISLAGSYKDWSYS-GQSTQLGI---EFLKRGDK  715
              +        L S      P E FI+ +   G Y  W    G+     +   + L   D+
Sbjct  1390  KEQ----EAILMSEDVKLNPSEDFIKHVRTNGGYNSWHLVEGELLVQDLRLNKLLHWSDQ  1445

Query  716   SVYYTSNPTTFHLDGEVITFDNLKTLLSLREVRT-----IKVFTTVDNINLHTQVVDMSM  770
             ++ Y  +      +     F+ L    +  + RT     I+V  TVD +N  T V++   
Sbjct  1446  TICYKDSVFYVVKNSTAFPFETLSACRAYLDSRTTQQLTIEVLVTVDGVNFRTVVLNNKN  1505

Query  771   TYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAF-EYYHTTDPSFLGRYM  829
             TY  Q G  + +GAD++   P     G + Y+  N      +A  E Y   DP+FL R+ 
Sbjct  1506  TYRSQLGCVFFNGADISDTIPDEKQNGHSLYLADNLTADETKALKELYGPVDPTFLHRFY  1565

Query  830   SALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQI-ELKFNPPALQDAYYRARAGE  888
             S      KWK    + + S+K +DNNCYL   ++TL  + ++KF  PALQ A+ + + G+
Sbjct  1566  SLKAAVHKWKMVVCDKVRSLKLSDNNCYLNAVIMTLDLLKDIKFVIPALQHAFMKHKGGD  1625

Query  889   AANFCALILAYCNKTVGELGDVRETMSYLFQHANLD-SCKRVLNVVCKTCGQQQTTLKGV  947
             + +F ALI+AY N T G   D    +  +   A L  S + V    C  CG +   L+G+
Sbjct  1626  STDFIALIMAYGNCTFGAPDDASRLLHTVLAKAELCCSARMVWREWCNVCGIKDVVLQGL  1685

Query  948   EAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGT---FT  1004
             +A  Y+G  + E  +  +   C CG +  + +V+  +P++++S  P +  +   T   F 
Sbjct  1686  KACCYVGVQTVEDLRARMTYVCQCGGERHRQIVEHTTPWLLLSGTPNEKLVTTSTAPDFV  1745

Query  1005  CASEYTG-NYQCGHYKHITSKETLYC-IDGALLTKSSEYKGPITDVFYKENSYTTTIKPV  1062
               + + G     GHY H   K  L    D   ++K+S++K  +TDV +    Y++    V
Sbjct  1746  AFNVFQGIETAVGHYVHARLKGGLILKFDSGTVSKTSDWKCKVTDVLFPGQKYSSDCNVV  1805

Query  1063  TYKLDGVVCTEIDPKLDNYYKKDNSYFT-EQPIDLVPNQPYPNASFDNFKFVCDNIKFAD  1121
              Y LDG   TE+DP L  +Y KD  YFT E P+   P      + + N   V  + +   
Sbjct  1806  RYSLDGNFRTEVDPDLSAFYVKDGKYFTSEPPVTYSPATILAGSVYTNSCLVSSDGQPGG  1865

Query  1122  D-----LNQLTGYK--KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVW  1174
             D      N L G+   KP +++   +F P  +GDV+  ++  Y P +K GA    KPI+W
Sbjct  1866  DAISLSFNNLLGFDSSKPVTKKYTYSFLPKEDGDVLLAEFDTYDPIYKNGAMYKGKPILW  1925

Query  1175  HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVV  1234
                 + +    K N   +R ++   P+E  N F  L  E              PV    V
Sbjct  1926  VNKASYDTNLNKFNRASLRQIFDVAPIELENKFTPLSVEST------------PVEPPTV  1973

Query  1235  ENPTIQKD--VLECNVKTTEVV-GDIILKPANNSLKITEEVGHTDLMAAYVD-NSSLTIK  1290
             +   +Q++  +++C       V  ++     ++   + E +   DL   YVD    + + 
Sbjct  1974  DVVALQQEMTIVKCKGLNKPFVKDNVSFVADDSGTPVVEYLSKEDLHTLYVDPKYQVIVL  2033

Query  1291  KPNELSRVLGLKTLATHGLAAV---NSVPWDTIANYAKPFLNK----VVSTTTNIVTRCL  1343
             K N LS +L L T+ +  +  V    S+       +   F  K       T T  V  C+
Sbjct  2034  KDNVLSSMLRLHTVESGDINVVAASGSLTRKVKLLFRASFYFKEFATRTFTATTAVGSCI  2093

Query  1344  NRV-------------CTNYMPYFFTLLLQLCTFTRSTNSRIKASM---PTTIAKNTVKS  1387
               V             C +++   F L L   + ++   + +K S       +  N VK 
Sbjct  2094  KSVVRHLGVTKGILTGCFSFVKMLFMLPLAYFSDSKLGTTEVKVSALKTAGVVTGNVVKQ  2153

Query  1388  VGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMS----------  1437
                  ++ S + L+  ++   + +++      V L S+ +      VL S          
Sbjct  2154  CCTAAVDLSMDKLRRVDWKSTLRLLLMLCTTMVLLSSVYHLYVFNQVLSSDVMFEDAQGL  2213

Query  1438  ---------NLGMPSYCTGYREGYLNSTNVTIATYCTG-SIPCSVCLSGLDSLDTYPSLE  1487
                       LG+ S C G    Y  + +  + T+C   S  C+ CL   DS+  YP+L+
Sbjct  2214  KKFYKEVRAYLGISSACDGLASAYR-ANSFDVPTFCANRSAMCNWCLISQDSITHYPALK  2272

Query  1488  TIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVH--FISNSW  1545
              +Q  +S +  ++       E  LAY+L+T  F  L LA  +  FF+  ++   + S ++
Sbjct  2273  MVQTHLSHYVLNIDWLWFAFETGLAYMLYTSAFNWLLLAGTLHYFFAQTSIFVDWRSYNY  2332

Query  1546  LMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVEC  1605
              +     L    P++ +VRMY   A  + + K Y HV++GC  + C++CYKRNR TRVE 
Sbjct  2333  AVSSAFWLFTHIPMAGLVRMYNLLACLWLLRKFYQHVINGCKDTACLLCYKRNRLTRVEA  2392

Query  1606  TTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINP  1665
             +T+V G +R+FY+ ANGG  FC+ HNWNCV+CDT   G+TFI +EVA DL+   +RPIN 
Sbjct  2393  STVVCGGKRTFYITANGGISFCRRHNWNCVDCDTAGVGNTFICEEVANDLTTALRRPINA  2452

Query  1666  TDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANN----TKGSLPIN  1721
             TD+S Y VDSVTVK   +   + + GQ  YER  L  F NLD L+       T G    N
Sbjct  2453  TDRSHYYVDSVTVKETVVQFNYRRDGQPFYERFPLCAFTNLDKLKFKEVCKTTTGIPEYN  2512

Query  1722  VIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFS  1781
              I++D   + +ES A+SA VYYSQ++C+ ILL+D +LV+ VGDS+E+A KMFD++VN+F 
Sbjct  2513  FIIYDSSDRGQESLARSACVYYSQVLCKSILLVDSSLVTSVGDSSEIATKMFDSFVNSFV  2572

Query  1782  STFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAAR-QGFVDSDVETKDVVECLKLS  1840
             S +NV  +KL+ L++TA   + +  +  +VL+TFI AAR    V+SDVET ++V+ ++ +
Sbjct  2573  SLYNVTRDKLEKLISTARDGVRRGDNFHSVLTTFIDAARGPAGVESDVETNEIVDSVQYA  2632

Query  1841  HQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDF  1900
             H+ DI++T +S NNY+ +Y K ++++  DLG+ IDC+A  +N  V ++ N A IWN   +
Sbjct  2633  HKHDIQITNESYNNYVPSYVKPDSVSTSDLGSLIDCNAASVNQIVLRNSNGACIWNAAAY  2692

Query  1901  MSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKG  1944
             M LS+ L++QIR A +K NL F+LT +  R   N+++ +     
Sbjct  2693  MKLSDALKRQIRIACRKCNLAFRLTTSKLRANDNILSVRFTANK  2736


 Score = 342 bits (877),  Expect = 3e-93, Method: Composition-based stats.
 Identities = 131/419 (31%), Positives = 199/419 (47%), Gaps = 57/419 (14%)

Query  3     TKVTFGDDTVIEVQGYKSVNITFELDERIDKVL-NEKCSAYTVELGTEVNEFACVVADAV  61
              KV FG D V EV   +SV + + +   +D +L +     + V+    + EFA VV + V
Sbjct  857   KKVAFGGDQVHEVAAVRSVTVEYNIHAVLDTLLASSSLRTFVVDKSLSIEEFADVVKEQV  916

Query  62    IKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE-  120
                L  +   +     DLD++  A  Y F+  G+   +S M  S +P + DEE  + E  
Sbjct  917   SDLLVKLLRGMPIPDFDLDDFIDAPCYCFNAEGDASWSSTMIFSLHPVECDEECSEVEAS  976

Query  121   --EEFEPSTQYEYGTE----------DDY-----QGKPL-EFGATSAALQPEEEQEEDWL  162
               EE E     E  TE          D++     +  PL E    + ++Q E +  E  +
Sbjct  977   DLEEGESECISETSTEQVDVSHEISDDEWAAAVDEAFPLDEAEDVTESVQEEAQPVEVPV  1036

Query  163   DDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEM-------------ELTPVV-----QT  204
             +D +Q  +         +T  +   VEV PQ+               E+ PV      QT
Sbjct  1037  EDIAQVVIADT----LQETPVVSDTVEVPPQVVKLPSEPQTIQPEVKEVAPVYEADTEQT  1092

Query  205   IEVNSFSGYLK---------------LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKH  249
               V      L+               +T+ V I   D ++ AK    +V+VNAAN +LKH
Sbjct  1093  QSVTVKPKRLRKKRNVDPLSNFEHKVITECVTIVLGDAIQVAKCYGESVLVNAANTHLKH  1152

Query  250   GGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGED  309
             GGG+AGA+N A+  A+Q ESD+YI   GPL+VG S +L GH+LAK+ LHVVGP+    +D
Sbjct  1153  GGGIAGAINAASKGAVQKESDEYILAKGPLQVGDSVLLQGHSLAKNILHVVGPDARAKQD  1212

Query  310   IQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL  368
             + LL   Y+  N + +++ PL+SAGIFG  P  S    +   +T V + V  +++Y  L
Sbjct  1213  VSLLSKCYKAMNAYPLVVTPLVSAGIFGVKPAVSFDYLIREAKTRVLVVVNSQDVYKSL  1271


>sp|K9N7C7|R1AB_MERS1 Replicase polyprotein 1ab OS=Middle East 
respiratory syndrome-related coronavirus (isolate United Kingdom/H123990006/2012) 
OX=1263720 GN=rep PE=1 SV=1
Length=7078

 Score = 1579 bits (4089),  Expect = 0.0, Method: Composition-based stats.
 Identities = 491/1724 (28%), Positives = 815/1724 (47%), Gaps = 138/1724 (8%)

Query  338   ADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPF-  396
                    +V +        +      +  ++V    E ++ +   +++A + + + +   
Sbjct  1034  VPVEDIAQVVIADTLQETPVVSDTVEVPPQVVKLPSEPQTIQPEVKEVAPVYEADTEQTQ  1093

Query  397   -ITESKPSVEQRKQDDK----KIKACVEEVT----TTLEETKFLTENLLLYI--------  439
              +T     + +++  D     + K   E VT      ++  K   E++L+          
Sbjct  1094  SVTVKPKRLRKKRNVDPLSNFEHKVITECVTIVLGDAIQVAKCYGESVLVNAANTHLKHG  1153

Query  440   -DINGNLHPDSATLVSDIDITFLKKDAPYIVGD-VVQEGVLTA-----VVIPTKKAGGTT  492
               I G ++  S   V      ++    P  VGD V+ +G   A     VV P  +A    
Sbjct  1154  GGIAGAINAASKGAVQKESDEYILAKGPLQVGDSVLLQGHSLAKNILHVVGPDARAKQDV  1213

Query  493   EMLAK---ALRKVPTDNYITTYPGQGLNG--------YTVEEAKTVLKKCKSAFYILPSI  541
              +L+K   A+   P    +T     G+ G        Y + EAKT +    ++  +  S+
Sbjct  1214  SLLSKCYKAMNAYPL--VVTPLVSAGIFGVKPAVSFDYLIREAKTRVLVVVNSQDVYKSL  1271

Query  542   ISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDYG  601
                +  + L      LR  +  A++    + VC +  A    ++ K      +   VD G
Sbjct  1272  TIVDIPQSLTFSYDGLRGAIRKAKDYGFTVFVCTDNSANTKVLRNKGVDYTKKFLTVD-G  1330

Query  602   ARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVSS  661
              ++Y YTSK T+  ++   N  +  +++MPLGYV+HGL+L +A   +R + VP    +++
Sbjct  1331  VQYYCYTSKDTLDDILQQANK-SVGIISMPLGYVSHGLDLIQAGSVVRRVNVPYVCLLAN  1389

Query  662   PDAVTAYNGYLTSSSK--TPEEHFIETISLAGSYKDWSYS-GQSTQLGI---EFLKRGDK  715
              +        L S      P E FI+ +   G Y  W    G+     +   + L   D+
Sbjct  1390  KEQ----EAILMSEDVKLNPSEDFIKHVRTNGGYNSWHLVEGELLVQDLRLNKLLHWSDQ  1445

Query  716   SVYYTSNPTTFHLDGEVITFDNLKTLLSLREVRT-----IKVFTTVDNINLHTQVVDMSM  770
             ++ Y  +      +     F+ L    +  + RT     I+V  TVD +N  T V++   
Sbjct  1446  TICYKDSVFYVVKNSTAFPFETLSACRAYLDSRTTQQLTIEVLVTVDGVNFRTVVLNNKN  1505

Query  771   TYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAF-EYYHTTDPSFLGRYM  829
             TY  Q G  + +GAD++   P     G + Y+  N      +A  E Y   DP+FL R+ 
Sbjct  1506  TYRSQLGCVFFNGADISDTIPDEKQNGHSLYLADNLTADETKALKELYGPVDPTFLHRFY  1565

Query  830   SALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQI-ELKFNPPALQDAYYRARAGE  888
             S      KWK    + + S+K +DNNCYL   ++TL  + ++KF  PALQ A+ + + G+
Sbjct  1566  SLKAAVHKWKMVVCDKVRSLKLSDNNCYLNAVIMTLDLLKDIKFVIPALQHAFMKHKGGD  1625

Query  889   AANFCALILAYCNKTVGELGDVRETMSYLFQHANLD-SCKRVLNVVCKTCGQQQTTLKGV  947
             + +F ALI+AY N T G   D    +  +   A L  S + V    C  CG +   L+G+
Sbjct  1626  STDFIALIMAYGNCTFGAPDDASRLLHTVLAKAELCCSARMVWREWCNVCGIKDVVLQGL  1685

Query  948   EAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGT---FT  1004
             +A  Y+G  + E  +  +   C CG +  + +V+  +P++++S  P +  +   T   F 
Sbjct  1686  KACCYVGVQTVEDLRARMTYVCQCGGERHRQIVEHTTPWLLLSGTPNEKLVTTSTAPDFV  1745

Query  1005  CASEYTG-NYQCGHYKHITSKETLYC-IDGALLTKSSEYKGPITDVFYKENSYTTTIKPV  1062
               + + G     GHY H   K  L    D   ++K+S++K  +TDV +    Y++    V
Sbjct  1746  AFNVFQGIETAVGHYVHARLKGGLILKFDSGTVSKTSDWKCKVTDVLFPGQKYSSDCNVV  1805

Query  1063  TYKLDGVVCTEIDPKLDNYYKKDNSYFT-EQPIDLVPNQPYPNASFDNFKFVCDNIKFAD  1121
              Y LDG   TE+DP L  +Y KD  YFT E P+   P      + + N   V  + +   
Sbjct  1806  RYSLDGNFRTEVDPDLSAFYVKDGKYFTSEPPVTYSPATILAGSVYTNSCLVSSDGQPGG  1865

Query  1122  D-----LNQLTGYK--KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVW  1174
             D      N L G+   KP +++   +F P  +GDV+  ++  Y P +K GA    KPI+W
Sbjct  1866  DAISLSFNNLLGFDSSKPVTKKYTYSFLPKEDGDVLLAEFDTYDPIYKNGAMYKGKPILW  1925

Query  1175  HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVV  1234
                 + +    K N   +R ++   P+E  N F  L  E              PV    V
Sbjct  1926  VNKASYDTNLNKFNRASLRQIFDVAPIELENKFTPLSVEST------------PVEPPTV  1973

Query  1235  ENPTIQKD--VLECNVKTTEVV-GDIILKPANNSLKITEEVGHTDLMAAYVD-NSSLTIK  1290
             +   +Q++  +++C       V  ++     ++   + E +   DL   YVD    + + 
Sbjct  1974  DVVALQQEMTIVKCKGLNKPFVKDNVSFVADDSGTPVVEYLSKEDLHTLYVDPKYQVIVL  2033

Query  1291  KPNELSRVLGLKTLATHGLAAV---NSVPWDTIANYAKPFLNK----VVSTTTNIVTRCL  1343
             K N LS +L L T+ +  +  V    S+       +   F  K       T T  V  C+
Sbjct  2034  KDNVLSSMLRLHTVESGDINVVAASGSLTRKVKLLFRASFYFKEFATRTFTATTAVGSCI  2093

Query  1344  NRV-------------CTNYMPYFFTLLLQLCTFTRSTNSRIKASM---PTTIAKNTVKS  1387
               V             C +++   F L L   + ++   + +K S       +  N VK 
Sbjct  2094  KSVVRHLGVTKGILTGCFSFVKMLFMLPLAYFSDSKLGTTEVKVSALKTAGVVTGNVVKQ  2153

Query  1388  VGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMS----------  1437
                  ++ S + L+  ++   + +++      V L S+ +      VL S          
Sbjct  2154  CCTAAVDLSMDKLRRVDWKSTLRLLLMLCTTMVLLSSVYHLYVFNQVLSSDVMFEDAQGL  2213

Query  1438  ---------NLGMPSYCTGYREGYLNSTNVTIATYCTG-SIPCSVCLSGLDSLDTYPSLE  1487
                       LG+ S C G    Y  + +  + T+C   S  C+ CL   DS+  YP+L+
Sbjct  2214  KKFYKEVRAYLGISSACDGLASAYR-ANSFDVPTFCANRSAMCNWCLISQDSITHYPALK  2272

Query  1488  TIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVH--FISNSW  1545
              +Q  +S +  ++       E  LAY+L+T  F  L LA  +  FF+  ++   + S ++
Sbjct  2273  MVQTHLSHYVLNIDWLWFAFETGLAYMLYTSAFNWLLLAGTLHYFFAQTSIFVDWRSYNY  2332

Query  1546  LMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVEC  1605
              +     L    P++ +VRMY   A  + + K Y HV++GC  + C++CYKRNR TRVE 
Sbjct  2333  AVSSAFWLFTHIPMAGLVRMYNLLACLWLLRKFYQHVINGCKDTACLLCYKRNRLTRVEA  2392

Query  1606  TTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINP  1665
             +T+V G +R+FY+ ANGG  FC+ HNWNCV+CDT   G+TFI +EVA DL+   +RPIN 
Sbjct  2393  STVVCGGKRTFYITANGGISFCRRHNWNCVDCDTAGVGNTFICEEVANDLTTALRRPINA  2452

Query  1666  TDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANN----TKGSLPIN  1721
             TD+S Y VDSVTVK   +   + + GQ  YER  L  F NLD L+       T G    N
Sbjct  2453  TDRSHYYVDSVTVKETVVQFNYRRDGQPFYERFPLCAFTNLDKLKFKEVCKTTTGIPEYN  2512

Query  1722  VIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFS  1781
              I++D   + +ES A+SA VYYSQ++C+ ILL+D +LV+ VGDS+E+A KMFD++VN+F 
Sbjct  2513  FIIYDSSDRGQESLARSACVYYSQVLCKSILLVDSSLVTSVGDSSEIATKMFDSFVNSFV  2572

Query  1782  STFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAAR-QGFVDSDVETKDVVECLKLS  1840
             S +NV  +KL+ L++TA   + +  +  +VL+TFI AAR    V+SDVET ++V+ ++ +
Sbjct  2573  SLYNVTRDKLEKLISTARDGVRRGDNFHSVLTTFIDAARGPAGVESDVETNEIVDSVQYA  2632

Query  1841  HQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDF  1900
             H+ DI++T +S NNY+ +Y K ++++  DLG+ IDC+A  +N  V ++ N A IWN   +
Sbjct  2633  HKHDIQITNESYNNYVPSYVKPDSVSTSDLGSLIDCNAASVNQIVLRNSNGACIWNAAAY  2692

Query  1901  MSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKG  1944
             M LS+ L++QIR A +K NL F+LT +  R   N+++ +     
Sbjct  2693  MKLSDALKRQIRIACRKCNLAFRLTTSKLRANDNILSVRFTANK  2736


 Score = 342 bits (877),  Expect = 4e-93, Method: Composition-based stats.
 Identities = 131/419 (31%), Positives = 199/419 (47%), Gaps = 57/419 (14%)

Query  3     TKVTFGDDTVIEVQGYKSVNITFELDERIDKVL-NEKCSAYTVELGTEVNEFACVVADAV  61
              KV FG D V EV   +SV + + +   +D +L +     + V+    + EFA VV + V
Sbjct  857   KKVAFGGDQVHEVAAVRSVTVEYNIHAVLDTLLASSSLRTFVVDKSLSIEEFADVVKEQV  916

Query  62    IKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEE-  120
                L  +   +     DLD++  A  Y F+  G+   +S M  S +P + DEE  + E  
Sbjct  917   SDLLVKLLRGMPIPDFDLDDFIDAPCYCFNAEGDASWSSTMIFSLHPVECDEECSEVEAS  976

Query  121   --EEFEPSTQYEYGTE----------DDY-----QGKPL-EFGATSAALQPEEEQEEDWL  162
               EE E     E  TE          D++     +  PL E    + ++Q E +  E  +
Sbjct  977   DLEEGESECISETSTEQVDVSHEISDDEWAAAVDEAFPLDEAEDVTESVQEEAQPVEVPV  1036

Query  163   DDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEM-------------ELTPVV-----QT  204
             +D +Q  +         +T  +   VEV PQ+               E+ PV      QT
Sbjct  1037  EDIAQVVIADT----LQETPVVSDTVEVPPQVVKLPSEPQTIQPEVKEVAPVYEADTEQT  1092

Query  205   IEVNSFSGYLK---------------LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKH  249
               V      L+               +T+ V I   D ++ AK    +V+VNAAN +LKH
Sbjct  1093  QSVTVKPKRLRKKRNVDPLSNFEHKVITECVTIVLGDAIQVAKCYGESVLVNAANTHLKH  1152

Query  250   GGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGED  309
             GGG+AGA+N A+  A+Q ESD+YI   GPL+VG S +L GH+LAK+ LHVVGP+    +D
Sbjct  1153  GGGIAGAINAASKGAVQKESDEYILAKGPLQVGDSVLLQGHSLAKNILHVVGPDARAKQD  1212

Query  310   IQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL  368
             + LL   Y+  N + +++ PL+SAGIFG  P  S    +   +T V + V  +++Y  L
Sbjct  1213  VSLLSKCYKAMNAYPLVVTPLVSAGIFGVKPAVSFDYLIREAKTRVLVVVNSQDVYKSL  1271


>sp|P0C6T4|R1A_BCHK4 Replicase polyprotein 1a OS=Bat coronavirus 
HKU4 OX=694007 GN=1a PE=1 SV=1
Length=4434

 Score = 1510 bits (3909),  Expect = 0.0, Method: Composition-based stats.
 Identities = 473/1597 (30%), Positives = 761/1597 (48%), Gaps = 106/1597 (7%)

Query  441   INGNLHPDSATLVSDIDITFLKKDAPYIVGD-VVQEGVLTA-----VVIPTKKAGGTTEM  494
             I G ++  S   V +    ++  + P  VGD V+ +G   A     VV P  +      +
Sbjct  1198  IAGVINKASGGDVQEESDEYISNNGPLHVGDSVLLKGHGLADAILHVVGPDARNNEDAAL  1257

Query  495   LAKALRKVPTDN-YITTYPGQGLNG--------YTVEEAKTVLKKCKSAFYILPSIISNE  545
             L +  +        +T     G+          Y +    T      +   I  ++ +  
Sbjct  1258  LKRCYKAFNKHTIVVTPLISAGIFSVDPKVSFEYLLANVTTTTYVVVNNEDIYNTLATPS  1317

Query  546   KQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDYGARFY  605
             K + L       R  +  A+       +C E  A V  ++ K      +   VD G  +Y
Sbjct  1318  KPDGLVYSFEGWRGTVRTAKNYGFTCFICTEYSANVKFLRTKGVDTTKKIQTVD-GVSYY  1376

Query  606   FYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVSSPDAV  665
              Y+++  +  +I   N  +  +  MP GYVTHGL+L ++  Y+R +KVP    ++S + +
Sbjct  1377  LYSARDALTDVIAAANGCS-GICAMPFGYVTHGLDLAQSGNYVRQVKVPYVCLLASKEQI  1435

Query  666   TAYNGYLTSSSKTPEEHFIETISLAGSYKDWSY-SGQSTQLGI---EFLKRGDKSVYYTS  721
                N  +  + +TPE  FI  ++  G Y  W   SG      +   + L    +++ Y  
Sbjct  1436  PIMNSDV--AIQTPETAFINNVTSNGGYHSWHLVSGDLIVKDVCYKKLLHWSGQTICYAD  1493

Query  722   NPTTFHLDGEVITFDNLKTLLSLREVR-----TIKVFTTVDNINLHTQVVDMSMTYGQQF  776
             N      +   + F +L+   +    R      I+V  T+D +N  T +++ + T+ +Q 
Sbjct  1494  NKFYVVKNDVALPFSDLEACRAYLTSRAAQQVNIEVLVTIDGVNFRTVILNDTTTFRKQL  1553

Query  777   GPTYLDGADVTKIKPHNSHEGKTFYVLPNDD-TLRVEAFEYYHTTDPSFLGRYMSALNHT  835
             G T+  G D++   P     G++ +V  N   + +V   EYY T+D +FL RY S     
Sbjct  1554  GATFYKGVDISDAFPTVKMGGESLFVADNLSESEKVVLKEYYGTSDVTFLQRYYSLQPLV  1613

Query  836   KKWKYPQVNGLTSIKWADNNCYLATALLTLQQI-ELKFNPPALQDAYYRARAGEAANFCA  894
             ++WK+   +G+ S+K ++ NCY+   ++ +  + ++KF  PALQ+AY R + G+  +F A
Sbjct  1614  QQWKFVVHDGVKSLKLSNYNCYINATIMMIDMLHDIKFVVPALQNAYLRYKGGDPYDFLA  1673

Query  895   LILAYCNKTVGELGDVRETMSYLFQHANLD-SCKRVLNVVCKTCGQQQTTLKGVEAVMYM  953
             LI+AY + T     D  + +  L   A L  S K V    C  CG +     G+ A +Y 
Sbjct  1674  LIMAYGDCTFDNPDDEAKLLHTLLAKAELTVSAKMVWREWCTVCGIRDIEYTGMRACVYA  1733

Query  954   GTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHG--TFTCASEYTG  1011
             G  S E+ +      C CG    + LV+  +P++++S              +   + + G
Sbjct  1734  GVNSMEELQSVFNETCVCGSVKHRQLVEHSAPWLLVSGLNEVKVSTSTDPIYRAFNVFQG  1793

Query  1012  -NYQCGHYKHITSKETL-YCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGV  1069
                  GHY HI  K+ L Y  D   LTK+S+ K  +T V+Y    YT     V Y LDGV
Sbjct  1794  VETSVGHYVHIRVKDGLFYKYDSGSLTKTSDMKCKMTSVWYPTVRYTADCNVVVYDLDGV  1853

Query  1070  VCTEIDPKLDNYYKKDNSYFTEQP-IDLVPNQPYPNASFDNFKFVCDNIKFADD-----L  1123
                E++P L NYY KD  Y+T +P I   P    P + + N   V  +     D      
Sbjct  1854  TKVEVNPDLSNYYMKDGKYYTSKPTIKYSPATILPGSVYSNSCLVGVDGTPGSDTISKFF  1913

Query  1124  NQLTGYK--KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATN  1181
             N L G+   KP S++L  +  P+ +GDV+  ++ +Y P +KKG  L  KPI+W  N   +
Sbjct  1914  NDLLGFDETKPISKKLTYSLLPNEDGDVLLSEFSNYNPVYKKGVMLKGKPILWVNNGVCD  1973

Query  1182  KATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQK  1241
              A  KPN   +R L+   P+   N + VL+   +Q +     E   PV ++V   P   +
Sbjct  1974  SALNKPNRASLRQLYDVAPIVLDNKYTVLQDNTSQLV-----EHNVPVVDDV---PITTR  2025

Query  1242  DVLECNVKTTE---VVGDIILKPANNSLKITEEVGHTDLMAAYVD-NSSLTIKKPNELSR  1297
              ++E   K      V G+       N + + + +G T+L A YVD N+   + + N  S 
Sbjct  2026  KLIEVKCKGLNKPFVKGNFSFVNDPNGVTVVDTLGLTELRALYVDINTRYIVLRDNNWSS  2085

Query  1298  VLGLKTLATHGLAAVNSVPWDT----IANYAKPFLNKVVSTTTNIVTRCLNRVCTNY---  1350
             +  L T+ +  L  V +    T    +   A          T    T         +   
Sbjct  2086  LFKLHTVESGDLQIVAAGGSVTRRARVLLGASSLFASFAKITVTATTAACKTAGRGFCKF  2145

Query  1351  -------------MPYFFTLLLQLCTFTRSTNSRIKAS---MPTTIAKNTVKSVGKFCLE  1394
                          +   F L        +     I  S       +  N VK  G     
Sbjct  2146  VVNYGVLQNMFVFLKMLFFLPFNYLWPKKQPTVDIGVSGLRTAGIVTTNIVKQCGTAAYY  2205

Query  1395  ASFNYLKSPNFSKLINI-------------IIWFLLLSVCLGSLIYSTAALGVLM-----  1436
                   K  ++   + +             I   +L +  L S +    A G+L      
Sbjct  2206  MLLGKFKRVDWKATLRLFLLLCTTILLLSSIYHLVLFNQVLSSDVMLEDATGILAIYKEV  2265

Query  1437  -SNLGMPSYCTGYREGYLNSTNVTIATYCTG-SIPCSVCLSGLDSLDTYPSLETIQITIS  1494
              S LG+ + C G    Y N T+  +  +C+  S+ C  CL G DSL  Y +L+ +Q  I+
Sbjct  2266  RSYLGIRTLCDGLVVEYRN-TSFDVMEFCSNRSVLCQWCLIGQDSLTRYSALQMLQTHIT  2324

Query  1495  SFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFA--VHFISNSWLMWLIIN  1552
             S+  ++       E+FLAY+L+T  F VL L    Q FF+Y +  V++ + ++++  +  
Sbjct  2325  SYVLNIDWIWFALEFFLAYVLYTSSFNVLLLVVTAQYFFAYTSAFVNWRAYNYIVSGLFF  2384

Query  1553  LVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGV  1612
             LV   P+  +VR+Y F A  +++ K Y HV++GC  + C++CYKRNR TRVE +TIV G 
Sbjct  2385  LVTHIPLHGLVRVYNFLACLWFLRKFYSHVINGCKDTACLLCYKRNRLTRVEASTIVCGT  2444

Query  1613  RRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYI  1672
             +R+FY+ ANGG  +C  HNWNCV CDT   G+TFI  EVA DL+   +R I PTDQS Y 
Sbjct  2445  KRTFYIAANGGTSYCCKHNWNCVECDTAGVGNTFICTEVANDLTTTLRRLIKPTDQSHYY  2504

Query  1673  VDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANN----TKGSLPINVIVFDGK  1728
             VDSV VK+  + L++++ G   YER+ L +F NL+ L+         G    N +++D  
Sbjct  2505  VDSVVVKDAVVELHYNRDGSSCYERYPLCYFTNLEKLKFKEVCKTPTGIPEHNFLIYDTN  2564

Query  1729  SKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPM  1788
              + +E+ A+SA VYYSQ++C+P+LL+D  LV+ VGDS E+A+KM D+++N+F S F+V  
Sbjct  2565  DRGQENLARSACVYYSQVLCKPMLLVDVNLVTTVGDSREIAIKMLDSFINSFISLFSVSR  2624

Query  1789  EKLKTLVATAEAELAKNVSLDNVLSTFISAAR-QGFVDSDVETKDVVECLKLSHQSDIEV  1847
             +KL+ L+ TA   + +     NVL TF  AAR    V+SDVET  VV+ L+ +H++DI++
Sbjct  2625  DKLEKLINTARDCVRRGDDFQNVLKTFTDAARGHAGVESDVETTMVVDALQYAHKNDIQL  2684

Query  1848  TGDSCNNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQL  1907
             T +  NNY+  Y K +++   DLG  ID  A  +N    ++ N A +WN  D+M LS+  
Sbjct  2685  TTECYNNYVPGYIKPDSINTLDLGCLIDLKAASVNQTSMRNANGACVWNSGDYMKLSDSF  2744

Query  1908  RKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKG  1944
             ++QIR A +K N+PF+LT +  R   N+++ K +   
Sbjct  2745  KRQIRIACRKCNIPFRLTTSKLRAADNILSVKFSATK  2781


 Score = 243 bits (621),  Expect = 5e-63, Method: Composition-based stats.
 Identities = 121/468 (26%), Positives = 197/468 (42%), Gaps = 103/468 (22%)

Query  3     TKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNE-KCSAYTVEL---------------  46
              KVTFGD   +EV  Y+SV+IT+++   +D +L+  K + +TVE                
Sbjct  851   KKVTFGDVNTVEVTAYRSVSITYDIHPVLDALLSSSKLATFTVEKDLLVEDFVDVIKDEV  910

Query  47    --------------GTEVNEFACVVADAVIKTLQPVS-------ELLTPLGIDLDEWSMA  85
                           G +V +F  V    V       +        +     ++  E  + 
Sbjct  911   LTLLTPLLRGYDIDGFDVEDFIDVPC-YVYNQDGDCAWSSNMTFSINPVEDVEEVEEFIE  969

Query  86    TYYLFDE----SGEFKLASHMYCSFYPPDEDEEEGDCEEEEFEPSTQY---------EYG  132
               YL DE      E   A  +      P +D    + E EE  P             E  
Sbjct  970   DDYLSDELPIADDEEAWARAV--EEVMPLDDILVAEIELEEDPPLETALESVEAEVVETA  1027

Query  133   TEDDYQGKPLEFGATSAALQPEEE----------QEEDWL--------------------  162
                +   + ++   +++ +  E +          + +D L                    
Sbjct  1028  EAQEPSVESIDSTPSTSTVVGENDLSVKPMSRVAETDDVLELETAVVGGPVSDVTAIVTN  1087

Query  163   -------------------DDDSQQTVGQQDGSEDNQTTTIQTIVE-VQPQLEMELTPVV  202
                                D+ S+  V Q    + N+    +T VE VQP+ +++     
Sbjct  1088  DIVSVEQAQQCGVSSLPIQDEASENQVHQVSDLQGNELLCSETKVEIVQPRQDLKPRRSR  1147

Query  203   QTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATN  262
             ++    S   +  + ++V +   D ++ A  +   ++VNAAN +LKHGGG+AG +NKA+ 
Sbjct  1148  KSKVDLSKYKHTVINNSVTLVLGDAIQIASLLPKCILVNAANRHLKHGGGIAGVINKASG  1207

Query  263   NAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQ  322
               +Q ESD+YI+ NGPL VG S +L GH LA   LHVVGP+    ED  LLK  Y+ FN+
Sbjct  1208  GDVQEESDEYISNNGPLHVGDSVLLKGHGLADAILHVVGPDARNNEDAALLKRCYKAFNK  1267

Query  323   HEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVS  370
             H +++ PL+SAGIF  DP  S    +  V T  Y+ V ++++Y+ L +
Sbjct  1268  HTIVVTPLISAGIFSVDPKVSFEYLLANVTTTTYVVVNNEDIYNTLAT  1315


>sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus 
HKU4 OX=694007 GN=rep PE=1 SV=1
Length=7119

 Score = 1510 bits (3909),  Expect = 0.0, Method: Composition-based stats.
 Identities = 473/1597 (30%), Positives = 761/1597 (48%), Gaps = 106/1597 (7%)

Query  441   INGNLHPDSATLVSDIDITFLKKDAPYIVGD-VVQEGVLTA-----VVIPTKKAGGTTEM  494
             I G ++  S   V +    ++  + P  VGD V+ +G   A     VV P  +      +
Sbjct  1198  IAGVINKASGGDVQEESDEYISNNGPLHVGDSVLLKGHGLADAILHVVGPDARNNEDAAL  1257

Query  495   LAKALRKVPTDN-YITTYPGQGLNG--------YTVEEAKTVLKKCKSAFYILPSIISNE  545
             L +  +        +T     G+          Y +    T      +   I  ++ +  
Sbjct  1258  LKRCYKAFNKHTIVVTPLISAGIFSVDPKVSFEYLLANVTTTTYVVVNNEDIYNTLATPS  1317

Query  546   KQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDYGARFY  605
             K + L       R  +  A+       +C E  A V  ++ K      +   VD G  +Y
Sbjct  1318  KPDGLVYSFEGWRGTVRTAKNYGFTCFICTEYSANVKFLRTKGVDTTKKIQTVD-GVSYY  1376

Query  606   FYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVSSPDAV  665
              Y+++  +  +I   N  +  +  MP GYVTHGL+L ++  Y+R +KVP    ++S + +
Sbjct  1377  LYSARDALTDVIAAANGCS-GICAMPFGYVTHGLDLAQSGNYVRQVKVPYVCLLASKEQI  1435

Query  666   TAYNGYLTSSSKTPEEHFIETISLAGSYKDWSY-SGQSTQLGI---EFLKRGDKSVYYTS  721
                N  +  + +TPE  FI  ++  G Y  W   SG      +   + L    +++ Y  
Sbjct  1436  PIMNSDV--AIQTPETAFINNVTSNGGYHSWHLVSGDLIVKDVCYKKLLHWSGQTICYAD  1493

Query  722   NPTTFHLDGEVITFDNLKTLLSLREVR-----TIKVFTTVDNINLHTQVVDMSMTYGQQF  776
             N      +   + F +L+   +    R      I+V  T+D +N  T +++ + T+ +Q 
Sbjct  1494  NKFYVVKNDVALPFSDLEACRAYLTSRAAQQVNIEVLVTIDGVNFRTVILNDTTTFRKQL  1553

Query  777   GPTYLDGADVTKIKPHNSHEGKTFYVLPNDD-TLRVEAFEYYHTTDPSFLGRYMSALNHT  835
             G T+  G D++   P     G++ +V  N   + +V   EYY T+D +FL RY S     
Sbjct  1554  GATFYKGVDISDAFPTVKMGGESLFVADNLSESEKVVLKEYYGTSDVTFLQRYYSLQPLV  1613

Query  836   KKWKYPQVNGLTSIKWADNNCYLATALLTLQQI-ELKFNPPALQDAYYRARAGEAANFCA  894
             ++WK+   +G+ S+K ++ NCY+   ++ +  + ++KF  PALQ+AY R + G+  +F A
Sbjct  1614  QQWKFVVHDGVKSLKLSNYNCYINATIMMIDMLHDIKFVVPALQNAYLRYKGGDPYDFLA  1673

Query  895   LILAYCNKTVGELGDVRETMSYLFQHANLD-SCKRVLNVVCKTCGQQQTTLKGVEAVMYM  953
             LI+AY + T     D  + +  L   A L  S K V    C  CG +     G+ A +Y 
Sbjct  1674  LIMAYGDCTFDNPDDEAKLLHTLLAKAELTVSAKMVWREWCTVCGIRDIEYTGMRACVYA  1733

Query  954   GTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHG--TFTCASEYTG  1011
             G  S E+ +      C CG    + LV+  +P++++S              +   + + G
Sbjct  1734  GVNSMEELQSVFNETCVCGSVKHRQLVEHSAPWLLVSGLNEVKVSTSTDPIYRAFNVFQG  1793

Query  1012  -NYQCGHYKHITSKETL-YCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGV  1069
                  GHY HI  K+ L Y  D   LTK+S+ K  +T V+Y    YT     V Y LDGV
Sbjct  1794  VETSVGHYVHIRVKDGLFYKYDSGSLTKTSDMKCKMTSVWYPTVRYTADCNVVVYDLDGV  1853

Query  1070  VCTEIDPKLDNYYKKDNSYFTEQP-IDLVPNQPYPNASFDNFKFVCDNIKFADD-----L  1123
                E++P L NYY KD  Y+T +P I   P    P + + N   V  +     D      
Sbjct  1854  TKVEVNPDLSNYYMKDGKYYTSKPTIKYSPATILPGSVYSNSCLVGVDGTPGSDTISKFF  1913

Query  1124  NQLTGYK--KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATN  1181
             N L G+   KP S++L  +  P+ +GDV+  ++ +Y P +KKG  L  KPI+W  N   +
Sbjct  1914  NDLLGFDETKPISKKLTYSLLPNEDGDVLLSEFSNYNPVYKKGVMLKGKPILWVNNGVCD  1973

Query  1182  KATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQK  1241
              A  KPN   +R L+   P+   N + VL+   +Q +     E   PV ++V   P   +
Sbjct  1974  SALNKPNRASLRQLYDVAPIVLDNKYTVLQDNTSQLV-----EHNVPVVDDV---PITTR  2025

Query  1242  DVLECNVKTTE---VVGDIILKPANNSLKITEEVGHTDLMAAYVD-NSSLTIKKPNELSR  1297
              ++E   K      V G+       N + + + +G T+L A YVD N+   + + N  S 
Sbjct  2026  KLIEVKCKGLNKPFVKGNFSFVNDPNGVTVVDTLGLTELRALYVDINTRYIVLRDNNWSS  2085

Query  1298  VLGLKTLATHGLAAVNSVPWDT----IANYAKPFLNKVVSTTTNIVTRCLNRVCTNY---  1350
             +  L T+ +  L  V +    T    +   A          T    T         +   
Sbjct  2086  LFKLHTVESGDLQIVAAGGSVTRRARVLLGASSLFASFAKITVTATTAACKTAGRGFCKF  2145

Query  1351  -------------MPYFFTLLLQLCTFTRSTNSRIKAS---MPTTIAKNTVKSVGKFCLE  1394
                          +   F L        +     I  S       +  N VK  G     
Sbjct  2146  VVNYGVLQNMFVFLKMLFFLPFNYLWPKKQPTVDIGVSGLRTAGIVTTNIVKQCGTAAYY  2205

Query  1395  ASFNYLKSPNFSKLINI-------------IIWFLLLSVCLGSLIYSTAALGVLM-----  1436
                   K  ++   + +             I   +L +  L S +    A G+L      
Sbjct  2206  MLLGKFKRVDWKATLRLFLLLCTTILLLSSIYHLVLFNQVLSSDVMLEDATGILAIYKEV  2265

Query  1437  -SNLGMPSYCTGYREGYLNSTNVTIATYCTG-SIPCSVCLSGLDSLDTYPSLETIQITIS  1494
              S LG+ + C G    Y N T+  +  +C+  S+ C  CL G DSL  Y +L+ +Q  I+
Sbjct  2266  RSYLGIRTLCDGLVVEYRN-TSFDVMEFCSNRSVLCQWCLIGQDSLTRYSALQMLQTHIT  2324

Query  1495  SFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFA--VHFISNSWLMWLIIN  1552
             S+  ++       E+FLAY+L+T  F VL L    Q FF+Y +  V++ + ++++  +  
Sbjct  2325  SYVLNIDWIWFALEFFLAYVLYTSSFNVLLLVVTAQYFFAYTSAFVNWRAYNYIVSGLFF  2384

Query  1553  LVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGV  1612
             LV   P+  +VR+Y F A  +++ K Y HV++GC  + C++CYKRNR TRVE +TIV G 
Sbjct  2385  LVTHIPLHGLVRVYNFLACLWFLRKFYSHVINGCKDTACLLCYKRNRLTRVEASTIVCGT  2444

Query  1613  RRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYI  1672
             +R+FY+ ANGG  +C  HNWNCV CDT   G+TFI  EVA DL+   +R I PTDQS Y 
Sbjct  2445  KRTFYIAANGGTSYCCKHNWNCVECDTAGVGNTFICTEVANDLTTTLRRLIKPTDQSHYY  2504

Query  1673  VDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANN----TKGSLPINVIVFDGK  1728
             VDSV VK+  + L++++ G   YER+ L +F NL+ L+         G    N +++D  
Sbjct  2505  VDSVVVKDAVVELHYNRDGSSCYERYPLCYFTNLEKLKFKEVCKTPTGIPEHNFLIYDTN  2564

Query  1729  SKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPM  1788
              + +E+ A+SA VYYSQ++C+P+LL+D  LV+ VGDS E+A+KM D+++N+F S F+V  
Sbjct  2565  DRGQENLARSACVYYSQVLCKPMLLVDVNLVTTVGDSREIAIKMLDSFINSFISLFSVSR  2624

Query  1789  EKLKTLVATAEAELAKNVSLDNVLSTFISAAR-QGFVDSDVETKDVVECLKLSHQSDIEV  1847
             +KL+ L+ TA   + +     NVL TF  AAR    V+SDVET  VV+ L+ +H++DI++
Sbjct  2625  DKLEKLINTARDCVRRGDDFQNVLKTFTDAARGHAGVESDVETTMVVDALQYAHKNDIQL  2684

Query  1848  TGDSCNNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQL  1907
             T +  NNY+  Y K +++   DLG  ID  A  +N    ++ N A +WN  D+M LS+  
Sbjct  2685  TTECYNNYVPGYIKPDSINTLDLGCLIDLKAASVNQTSMRNANGACVWNSGDYMKLSDSF  2744

Query  1908  RKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKG  1944
             ++QIR A +K N+PF+LT +  R   N+++ K +   
Sbjct  2745  KRQIRIACRKCNIPFRLTTSKLRAADNILSVKFSATK  2781


 Score = 243 bits (620),  Expect = 6e-63, Method: Composition-based stats.
 Identities = 121/468 (26%), Positives = 197/468 (42%), Gaps = 103/468 (22%)

Query  3     TKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNE-KCSAYTVEL---------------  46
              KVTFGD   +EV  Y+SV+IT+++   +D +L+  K + +TVE                
Sbjct  851   KKVTFGDVNTVEVTAYRSVSITYDIHPVLDALLSSSKLATFTVEKDLLVEDFVDVIKDEV  910

Query  47    --------------GTEVNEFACVVADAVIKTLQPVS-------ELLTPLGIDLDEWSMA  85
                           G +V +F  V    V       +        +     ++  E  + 
Sbjct  911   LTLLTPLLRGYDIDGFDVEDFIDVPC-YVYNQDGDCAWSSNMTFSINPVEDVEEVEEFIE  969

Query  86    TYYLFDE----SGEFKLASHMYCSFYPPDEDEEEGDCEEEEFEPSTQY---------EYG  132
               YL DE      E   A  +      P +D    + E EE  P             E  
Sbjct  970   DDYLSDELPIADDEEAWARAV--EEVMPLDDILVAEIELEEDPPLETALESVEAEVVETA  1027

Query  133   TEDDYQGKPLEFGATSAALQPEEE----------QEEDWL--------------------  162
                +   + ++   +++ +  E +          + +D L                    
Sbjct  1028  EAQEPSVESIDSTPSTSTVVGENDLSVKPMSRVAETDDVLELETAVVGGPVSDVTAIVTN  1087

Query  163   -------------------DDDSQQTVGQQDGSEDNQTTTIQTIVE-VQPQLEMELTPVV  202
                                D+ S+  V Q    + N+    +T VE VQP+ +++     
Sbjct  1088  DIVSVEQAQQCGVSSLPIQDEASENQVHQVSDLQGNELLCSETKVEIVQPRQDLKPRRSR  1147

Query  203   QTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATN  262
             ++    S   +  + ++V +   D ++ A  +   ++VNAAN +LKHGGG+AG +NKA+ 
Sbjct  1148  KSKVDLSKYKHTVINNSVTLVLGDAIQIASLLPKCILVNAANRHLKHGGGIAGVINKASG  1207

Query  263   NAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQ  322
               +Q ESD+YI+ NGPL VG S +L GH LA   LHVVGP+    ED  LLK  Y+ FN+
Sbjct  1208  GDVQEESDEYISNNGPLHVGDSVLLKGHGLADAILHVVGPDARNNEDAALLKRCYKAFNK  1267

Query  323   HEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVS  370
             H +++ PL+SAGIF  DP  S    +  V T  Y+ V ++++Y+ L +
Sbjct  1268  HTIVVTPLISAGIFSVDPKVSFEYLLANVTTTTYVVVNNEDIYNTLAT  1315


>sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus 
133/2005 OX=389230 GN=rep PE=3 SV=1
Length=7126

 Score = 1494 bits (3868),  Expect = 0.0, Method: Composition-based stats.
 Identities = 464/1597 (29%), Positives = 754/1597 (47%), Gaps = 106/1597 (7%)

Query  441   INGNLHPDSATLVSDIDITFLKKDAPYIVGD-VVQEGVLTA-----VVIPTKKAGGTTEM  494
             I G ++  S   V +    ++    P  VGD V+ +G   A     VV P  +      +
Sbjct  1205  IAGAINKASGGDVQEESDEYISNSGPLHVGDSVLLKGYGLADAILRVVGPDARNNEDAAL  1264

Query  495   LAKALRKVPTDN-YITTYPGQGLNG--------YTVEEAKTVLKKCKSAFYILPSIISNE  545
             L +  +        +T     G+          Y +    T      +   I  ++ +  
Sbjct  1265  LKRCYKTFNKHTIVVTPLISSGIFSVDPKVSFEYLLANVTTTTYVVVNNEDIYNTLATPS  1324

Query  546   KQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDYGARFY  605
             K + L       R  +  A+       +C E  A V  ++ K      +   VD G  +Y
Sbjct  1325  KPDGLVYSFEGWRGTVRTAKNYGFTCFICTEYSANVKFLRTKGVDTTKKIQTVD-GVSYY  1383

Query  606   FYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVSSPDAV  665
              Y+++  +  +I   N     +  MP GYVTHGL+L ++  Y+R +KVP    ++S + +
Sbjct  1384  LYSARDALTDVIAAANGC-PGICAMPFGYVTHGLDLAQSGNYVRQVKVPYVCLLASKEQI  1442

Query  666   TAYNGYLTSSSKTPEEHFIETISLAGSYKDWSY-SGQSTQLGI---EFLKRGDKSVYYTS  721
                N  +  + +TPE  FI  ++  G Y  W   SG      +   + L    +++ Y  
Sbjct  1443  PIMNSDV--AIQTPETAFINNVTSNGGYHSWHLVSGDLIVKDVCYKKLLHWSGQTICYAD  1500

Query  722   NPTTFHLDGEVITFDNLKTLLSLREVR-----TIKVFTTVDNINLHTQVVDMSMTYGQQF  776
             N      +   + F +L+   +    R      I+V  T+D +N  T +++ + T+ +Q 
Sbjct  1501  NKFYVVKNDVALPFSDLEACRAYLTSRAAQQVNIEVLVTIDGVNFRTVILNDATTFRKQL  1560

Query  777   GPTYLDGADVTKIKPHNSHEGKTFYVLPNDD-TLRVEAFEYYHTTDPSFLGRYMSALNHT  835
             G T+  G D++   P     G++ +V  N   +  V   EYY T+D +FL RY S     
Sbjct  1561  GATFYKGVDISDALPTVKMGGESLFVADNLSESEEVVLKEYYGTSDVTFLQRYYSLQPLV  1620

Query  836   KKWKYPQVNGLTSIKWADNNCYLATALLTLQQI-ELKFNPPALQDAYYRARAGEAANFCA  894
             ++WK+   +G+ S+K ++ NCY+   ++ +  + ++KF  PALQ+AY R + G+  +F A
Sbjct  1621  QQWKFVVHDGVKSLKLSNYNCYINATIMMIDMLHDIKFVVPALQNAYLRYKGGDPYDFLA  1680

Query  895   LILAYCNKTVGELGDVRETMSYLFQHANLD-SCKRVLNVVCKTCGQQQTTLKGVEAVMYM  953
             LI+AY + T     D  + +  L   A L  S K V    C  CG +     G+ A +Y 
Sbjct  1681  LIMAYGDCTFDNPDDEAKLLHTLLAKAELTVSAKMVWREWCTVCGIRDIEYTGMRACVYA  1740

Query  954   GTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHG--TFTCASEYTG  1011
             G  S E+ +      C CG    + LV+  +P++++S              +   + + G
Sbjct  1741  GVNSMEELQSVFNETCVCGSVKHRQLVEHSTPWLLVSGLNEVKVSTSTDPVYRAFNVFQG  1800

Query  1012  -NYQCGHYKHITSKETL-YCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGV  1069
                  GHY H+  K+ L Y  D   LTK+S+ K  +T V+Y +  YT     V Y LDGV
Sbjct  1801  VETSVGHYVHVRVKDGLFYKYDSGSLTKTSDMKCKMTSVWYPKVRYTADCNVVVYDLDGV  1860

Query  1070  VCTEIDPKLDNYYKKDNSYFTEQP-IDLVPNQPYPNASFDNFKFVCDNIKFADD-----L  1123
                E++P L NYY KD  Y+T +P I   P    P + + N   V  +     D      
Sbjct  1861  TKVEVNPDLSNYYMKDGKYYTSKPTIKYSPATILPGSVYSNSCLVGVDGTPGSDTISKFF  1920

Query  1124  NQLTGYK--KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATN  1181
             N L G+   KP S++L  +  P+ +GDV+  ++ +Y P +KKG  L  KPI+W  N   +
Sbjct  1921  NDLLGFDETKPISKKLTYSLLPNEDGDVLLSEFNNYNPVYKKGVMLKGKPILWVNNGVCD  1980

Query  1182  KATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQK  1241
              A  KPN   +R L+   P+   N + VL+   +Q ++        P    V +     +
Sbjct  1981  SALNKPNRASLRQLYDVAPIVLDNKYTVLQDNTSQLIE--------PNVPVVEDVSITTR  2032

Query  1242  DVLECNVKTTE---VVGDIILKPANNSLKITEEVGHTDLMAAYVD-NSSLTIKKPNELSR  1297
              ++E   K      V G+       N + + + +G T+L A YVD N+   + + N  S 
Sbjct  2033  KLIEVKCKGLNKPFVKGNFSFVNDPNGVTVVDTLGLTELRALYVDINTRYIVLRDNNWSS  2092

Query  1298  VLGLKTLATHGLAAVNSVPWDT----IANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPY  1353
             +  L T+ +  L  V +    T    +   A          T    T        ++  +
Sbjct  2093  LFKLHTVESGDLQIVANGGSVTRRARVLLGASSLFASFAKITVTATTAACKTAGRSFCKF  2152

Query  1354  FFTL----------------LLQLCTFTRSTNSRIKAS---MPTTIAKNTVKSVGKFCLE  1394
                                         +     +  S       +  N VK  G     
Sbjct  2153  VVNYGVLQNMFLFLKMLFFLPFNYLWPKKQPTVDVGVSGLRTAGVVTTNIVKQCGTAAYY  2212

Query  1395  ASFNYLKSPNFSKLINI-------------IIWFLLLSVCLGSLIYSTAALGVLM-----  1436
                   K  ++   + +             I   ++ +  L S +    A G+L      
Sbjct  2213  MLLGKFKRVDWKATLRLFLLLCTTILLLSSIYHLVIFNQVLSSDVMLEDATGILAMYKEV  2272

Query  1437  -SNLGMPSYCTGYREGYLNSTNVTIATYCTG-SIPCSVCLSGLDSLDTYPSLETIQITIS  1494
              S LG+ + C G    Y N T+  +  +C+  S+ C  CL G DSL  Y +L+ +Q  I+
Sbjct  2273  RSYLGIRTLCDGLAVEYRN-TSFDVVDFCSNRSVLCQWCLIGQDSLTRYSALQMLQTHIT  2331

Query  1495  SFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFA--VHFISNSWLMWLIIN  1552
             S+  ++       E+FLAY+L+T  F VL L    Q FF+Y +  V++ + ++++  +  
Sbjct  2332  SYVLNIDWIWFALEFFLAYVLYTSSFNVLLLVVTAQYFFAYTSAFVNWRAYNYIVSGLFF  2391

Query  1553  LVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGV  1612
             LV   P+  +VR+Y F A  +++ K Y HV++GC  + C++CYKRNR TRVE +TIV G 
Sbjct  2392  LVTHIPLHGLVRVYNFLACLWFLRKFYSHVINGCKDTACLLCYKRNRLTRVEASTIVCGT  2451

Query  1613  RRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYI  1672
             +R+FY+ ANGG  +C  HNWNCV CDT   G+TFI  EVA DL+   +R I PTDQS Y 
Sbjct  2452  KRTFYIAANGGTSYCCKHNWNCVECDTAGVGNTFICTEVANDLTTTLRRLIKPTDQSHYY  2511

Query  1673  VDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANN----TKGSLPINVIVFDGK  1728
             VDSV VK+  + L++++ G   YER+ L +F NL+ L+         G    N +++D  
Sbjct  2512  VDSVVVKDAVVELHYNRDGSSCYERYPLCYFTNLEKLKFKEVCKTPTGIPEHNFLIYDTN  2571

Query  1729  SKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPM  1788
              + +E+ A+SA VYYSQ++C+P+LL+D  LV+ VGDS E+A+KM D+++N+F S F+V  
Sbjct  2572  DRGQENLARSACVYYSQVLCKPMLLVDVNLVTTVGDSREIAIKMLDSFINSFISLFSVSR  2631

Query  1789  EKLKTLVATAEAELAKNVSLDNVLSTFISAAR-QGFVDSDVETKDVVECLKLSHQSDIEV  1847
             +KL+ L+ TA   + +      VL TF  AAR    V+SDVET  VV+ L+ +H++DI++
Sbjct  2632  DKLEKLINTARDCVRRGDDFQTVLKTFTDAARGHAGVESDVETTMVVDALQYAHKNDIQL  2691

Query  1848  TGDSCNNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQL  1907
             T +  NNY+  Y K +++   DLG  ID  A  +N    ++ N A +WN  D+M LS+  
Sbjct  2692  TTECYNNYVPGYIKPDSINTLDLGCLIDLKAASVNQTSMRNANGACVWNSGDYMKLSDSF  2751

Query  1908  RKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKG  1944
             ++QIR A +K N+PF+LT +  R   N+++ K +   
Sbjct  2752  KRQIRIACRKCNIPFRLTTSKLRAADNILSVKFSATK  2788


 Score = 201 bits (512),  Expect = 3e-50, Method: Composition-based stats.
 Identities = 79/225 (35%), Positives = 125/225 (56%), Gaps = 5/225 (2%)

Query  147   TSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQTTTIQTIVE-VQPQLEMELTPVVQTI  205
             +    Q          D+ S+  V Q    +     T +T VE VQP+ ++    + ++ 
Sbjct  1102  SVEQAQQCGVSSLPIQDEASENQVHQVPDLQ----CTSETKVEIVQPRQDLRPRRLRKSK  1157

Query  206   EVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAM  265
                S   +  + ++V +   D ++ A  +   V+VNAAN +LKHGGG+AGA+NKA+   +
Sbjct  1158  VDLSKYKHTVINNSVTLVLGDAIQIASLLPKCVLVNAANRHLKHGGGIAGAINKASGGDV  1217

Query  266   QVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEV  325
             Q ESD+YI+ +GPL VG S +L G+ LA   L VVGP+    ED  LLK  Y+ FN+H +
Sbjct  1218  QEESDEYISNSGPLHVGDSVLLKGYGLADAILRVVGPDARNNEDAALLKRCYKTFNKHTI  1277

Query  326   LLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVS  370
             ++ PL+S+GIF  DP  S    +  V T  Y+ V ++++Y+ L +
Sbjct  1278  VVTPLISSGIFSVDPKVSFEYLLANVTTTTYVVVNNEDIYNTLAT  1322


 Score = 165 bits (418),  Expect = 3e-39, Method: Composition-based stats.
 Identities = 55/260 (21%), Positives = 98/260 (38%), Gaps = 31/260 (12%)

Query  3     TKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNE-KCSAYTVELGTEVNEFACVVADAV  61
              KVTFGD   +EV  Y+SV+IT+++   +D +L+  K + +TVE    V +F  V+ D V
Sbjct  851   KKVTFGDVNTVEVTAYRSVSITYDIHPVLDALLSSSKLATFTVEKDLLVEDFVDVIKDEV  910

Query  62    IKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYP-------------  108
             +  L P+       G D++++     Y++++ G+   +S+M  S  P             
Sbjct  911   LTLLTPLLRGYDIDGFDVEDFIDVPCYVYNQDGDCAWSSNMTFSINPVEDVEEVEEFIED  970

Query  109   -------PDEDEEEGDCEE-EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEED  160
                    P  D+EE      EE  P         +  +  PLE    S     E E  E 
Sbjct  971   DYLSDELPIADDEEAWTRAVEEVMPLDDILVAEIELEEDLPLETALESV----EAEVGES  1026

Query  161   WLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNV  220
               D+       +        T +  +   V  + ++ + P+ +  E              
Sbjct  1027  ISDELCVVETAKAQEPSVESTDSTPSTSTVVSENDLSVKPMSRVAETGDVLEVET-----  1081

Query  221   YIKNADIVEEAKKVKPTVVV  240
              +    + +    V    +V
Sbjct  1082  AVVGGPVSDVTASVVTNDIV  1101


>sp|P0C6F7|R1A_BC133 Replicase polyprotein 1a OS=Bat coronavirus 
133/2005 OX=389230 GN=1a PE=3 SV=1
Length=4441

 Score = 1494 bits (3867),  Expect = 0.0, Method: Composition-based stats.
 Identities = 464/1597 (29%), Positives = 754/1597 (47%), Gaps = 106/1597 (7%)

Query  441   INGNLHPDSATLVSDIDITFLKKDAPYIVGD-VVQEGVLTA-----VVIPTKKAGGTTEM  494
             I G ++  S   V +    ++    P  VGD V+ +G   A     VV P  +      +
Sbjct  1205  IAGAINKASGGDVQEESDEYISNSGPLHVGDSVLLKGYGLADAILRVVGPDARNNEDAAL  1264

Query  495   LAKALRKVPTDN-YITTYPGQGLNG--------YTVEEAKTVLKKCKSAFYILPSIISNE  545
             L +  +        +T     G+          Y +    T      +   I  ++ +  
Sbjct  1265  LKRCYKTFNKHTIVVTPLISSGIFSVDPKVSFEYLLANVTTTTYVVVNNEDIYNTLATPS  1324

Query  546   KQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDYGARFY  605
             K + L       R  +  A+       +C E  A V  ++ K      +   VD G  +Y
Sbjct  1325  KPDGLVYSFEGWRGTVRTAKNYGFTCFICTEYSANVKFLRTKGVDTTKKIQTVD-GVSYY  1383

Query  606   FYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVSSPDAV  665
              Y+++  +  +I   N     +  MP GYVTHGL+L ++  Y+R +KVP    ++S + +
Sbjct  1384  LYSARDALTDVIAAANGC-PGICAMPFGYVTHGLDLAQSGNYVRQVKVPYVCLLASKEQI  1442

Query  666   TAYNGYLTSSSKTPEEHFIETISLAGSYKDWSY-SGQSTQLGI---EFLKRGDKSVYYTS  721
                N  +  + +TPE  FI  ++  G Y  W   SG      +   + L    +++ Y  
Sbjct  1443  PIMNSDV--AIQTPETAFINNVTSNGGYHSWHLVSGDLIVKDVCYKKLLHWSGQTICYAD  1500

Query  722   NPTTFHLDGEVITFDNLKTLLSLREVR-----TIKVFTTVDNINLHTQVVDMSMTYGQQF  776
             N      +   + F +L+   +    R      I+V  T+D +N  T +++ + T+ +Q 
Sbjct  1501  NKFYVVKNDVALPFSDLEACRAYLTSRAAQQVNIEVLVTIDGVNFRTVILNDATTFRKQL  1560

Query  777   GPTYLDGADVTKIKPHNSHEGKTFYVLPNDD-TLRVEAFEYYHTTDPSFLGRYMSALNHT  835
             G T+  G D++   P     G++ +V  N   +  V   EYY T+D +FL RY S     
Sbjct  1561  GATFYKGVDISDALPTVKMGGESLFVADNLSESEEVVLKEYYGTSDVTFLQRYYSLQPLV  1620

Query  836   KKWKYPQVNGLTSIKWADNNCYLATALLTLQQI-ELKFNPPALQDAYYRARAGEAANFCA  894
             ++WK+   +G+ S+K ++ NCY+   ++ +  + ++KF  PALQ+AY R + G+  +F A
Sbjct  1621  QQWKFVVHDGVKSLKLSNYNCYINATIMMIDMLHDIKFVVPALQNAYLRYKGGDPYDFLA  1680

Query  895   LILAYCNKTVGELGDVRETMSYLFQHANLD-SCKRVLNVVCKTCGQQQTTLKGVEAVMYM  953
             LI+AY + T     D  + +  L   A L  S K V    C  CG +     G+ A +Y 
Sbjct  1681  LIMAYGDCTFDNPDDEAKLLHTLLAKAELTVSAKMVWREWCTVCGIRDIEYTGMRACVYA  1740

Query  954   GTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHG--TFTCASEYTG  1011
             G  S E+ +      C CG    + LV+  +P++++S              +   + + G
Sbjct  1741  GVNSMEELQSVFNETCVCGSVKHRQLVEHSTPWLLVSGLNEVKVSTSTDPVYRAFNVFQG  1800

Query  1012  -NYQCGHYKHITSKETL-YCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGV  1069
                  GHY H+  K+ L Y  D   LTK+S+ K  +T V+Y +  YT     V Y LDGV
Sbjct  1801  VETSVGHYVHVRVKDGLFYKYDSGSLTKTSDMKCKMTSVWYPKVRYTADCNVVVYDLDGV  1860

Query  1070  VCTEIDPKLDNYYKKDNSYFTEQP-IDLVPNQPYPNASFDNFKFVCDNIKFADD-----L  1123
                E++P L NYY KD  Y+T +P I   P    P + + N   V  +     D      
Sbjct  1861  TKVEVNPDLSNYYMKDGKYYTSKPTIKYSPATILPGSVYSNSCLVGVDGTPGSDTISKFF  1920

Query  1124  NQLTGYK--KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATN  1181
             N L G+   KP S++L  +  P+ +GDV+  ++ +Y P +KKG  L  KPI+W  N   +
Sbjct  1921  NDLLGFDETKPISKKLTYSLLPNEDGDVLLSEFNNYNPVYKKGVMLKGKPILWVNNGVCD  1980

Query  1182  KATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQK  1241
              A  KPN   +R L+   P+   N + VL+   +Q ++        P    V +     +
Sbjct  1981  SALNKPNRASLRQLYDVAPIVLDNKYTVLQDNTSQLIE--------PNVPVVEDVSITTR  2032

Query  1242  DVLECNVKTTE---VVGDIILKPANNSLKITEEVGHTDLMAAYVD-NSSLTIKKPNELSR  1297
              ++E   K      V G+       N + + + +G T+L A YVD N+   + + N  S 
Sbjct  2033  KLIEVKCKGLNKPFVKGNFSFVNDPNGVTVVDTLGLTELRALYVDINTRYIVLRDNNWSS  2092

Query  1298  VLGLKTLATHGLAAVNSVPWDT----IANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPY  1353
             +  L T+ +  L  V +    T    +   A          T    T        ++  +
Sbjct  2093  LFKLHTVESGDLQIVANGGSVTRRARVLLGASSLFASFAKITVTATTAACKTAGRSFCKF  2152

Query  1354  FFTL----------------LLQLCTFTRSTNSRIKAS---MPTTIAKNTVKSVGKFCLE  1394
                                         +     +  S       +  N VK  G     
Sbjct  2153  VVNYGVLQNMFLFLKMLFFLPFNYLWPKKQPTVDVGVSGLRTAGVVTTNIVKQCGTAAYY  2212

Query  1395  ASFNYLKSPNFSKLINI-------------IIWFLLLSVCLGSLIYSTAALGVLM-----  1436
                   K  ++   + +             I   ++ +  L S +    A G+L      
Sbjct  2213  MLLGKFKRVDWKATLRLFLLLCTTILLLSSIYHLVIFNQVLSSDVMLEDATGILAMYKEV  2272

Query  1437  -SNLGMPSYCTGYREGYLNSTNVTIATYCTG-SIPCSVCLSGLDSLDTYPSLETIQITIS  1494
              S LG+ + C G    Y N T+  +  +C+  S+ C  CL G DSL  Y +L+ +Q  I+
Sbjct  2273  RSYLGIRTLCDGLAVEYRN-TSFDVVDFCSNRSVLCQWCLIGQDSLTRYSALQMLQTHIT  2331

Query  1495  SFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFA--VHFISNSWLMWLIIN  1552
             S+  ++       E+FLAY+L+T  F VL L    Q FF+Y +  V++ + ++++  +  
Sbjct  2332  SYVLNIDWIWFALEFFLAYVLYTSSFNVLLLVVTAQYFFAYTSAFVNWRAYNYIVSGLFF  2391

Query  1553  LVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGV  1612
             LV   P+  +VR+Y F A  +++ K Y HV++GC  + C++CYKRNR TRVE +TIV G 
Sbjct  2392  LVTHIPLHGLVRVYNFLACLWFLRKFYSHVINGCKDTACLLCYKRNRLTRVEASTIVCGT  2451

Query  1613  RRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYI  1672
             +R+FY+ ANGG  +C  HNWNCV CDT   G+TFI  EVA DL+   +R I PTDQS Y 
Sbjct  2452  KRTFYIAANGGTSYCCKHNWNCVECDTAGVGNTFICTEVANDLTTTLRRLIKPTDQSHYY  2511

Query  1673  VDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANN----TKGSLPINVIVFDGK  1728
             VDSV VK+  + L++++ G   YER+ L +F NL+ L+         G    N +++D  
Sbjct  2512  VDSVVVKDAVVELHYNRDGSSCYERYPLCYFTNLEKLKFKEVCKTPTGIPEHNFLIYDTN  2571

Query  1729  SKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPM  1788
              + +E+ A+SA VYYSQ++C+P+LL+D  LV+ VGDS E+A+KM D+++N+F S F+V  
Sbjct  2572  DRGQENLARSACVYYSQVLCKPMLLVDVNLVTTVGDSREIAIKMLDSFINSFISLFSVSR  2631

Query  1789  EKLKTLVATAEAELAKNVSLDNVLSTFISAAR-QGFVDSDVETKDVVECLKLSHQSDIEV  1847
             +KL+ L+ TA   + +      VL TF  AAR    V+SDVET  VV+ L+ +H++DI++
Sbjct  2632  DKLEKLINTARDCVRRGDDFQTVLKTFTDAARGHAGVESDVETTMVVDALQYAHKNDIQL  2691

Query  1848  TGDSCNNYMLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQL  1907
             T +  NNY+  Y K +++   DLG  ID  A  +N    ++ N A +WN  D+M LS+  
Sbjct  2692  TTECYNNYVPGYIKPDSINTLDLGCLIDLKAASVNQTSMRNANGACVWNSGDYMKLSDSF  2751

Query  1908  RKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKG  1944
             ++QIR A +K N+PF+LT +  R   N+++ K +   
Sbjct  2752  KRQIRIACRKCNIPFRLTTSKLRAADNILSVKFSATK  2788


 Score = 201 bits (512),  Expect = 3e-50, Method: Composition-based stats.
 Identities = 79/225 (35%), Positives = 125/225 (56%), Gaps = 5/225 (2%)

Query  147   TSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQTTTIQTIVE-VQPQLEMELTPVVQTI  205
             +    Q          D+ S+  V Q    +     T +T VE VQP+ ++    + ++ 
Sbjct  1102  SVEQAQQCGVSSLPIQDEASENQVHQVPDLQ----CTSETKVEIVQPRQDLRPRRLRKSK  1157

Query  206   EVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAM  265
                S   +  + ++V +   D ++ A  +   V+VNAAN +LKHGGG+AGA+NKA+   +
Sbjct  1158  VDLSKYKHTVINNSVTLVLGDAIQIASLLPKCVLVNAANRHLKHGGGIAGAINKASGGDV  1217

Query  266   QVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEV  325
             Q ESD+YI+ +GPL VG S +L G+ LA   L VVGP+    ED  LLK  Y+ FN+H +
Sbjct  1218  QEESDEYISNSGPLHVGDSVLLKGYGLADAILRVVGPDARNNEDAALLKRCYKTFNKHTI  1277

Query  326   LLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVS  370
             ++ PL+S+GIF  DP  S    +  V T  Y+ V ++++Y+ L +
Sbjct  1278  VVTPLISSGIFSVDPKVSFEYLLANVTTTTYVVVNNEDIYNTLAT  1322


 Score = 165 bits (418),  Expect = 2e-39, Method: Composition-based stats.
 Identities = 55/260 (21%), Positives = 98/260 (38%), Gaps = 31/260 (12%)

Query  3     TKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNE-KCSAYTVELGTEVNEFACVVADAV  61
              KVTFGD   +EV  Y+SV+IT+++   +D +L+  K + +TVE    V +F  V+ D V
Sbjct  851   KKVTFGDVNTVEVTAYRSVSITYDIHPVLDALLSSSKLATFTVEKDLLVEDFVDVIKDEV  910

Query  62    IKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYP-------------  108
             +  L P+       G D++++     Y++++ G+   +S+M  S  P             
Sbjct  911   LTLLTPLLRGYDIDGFDVEDFIDVPCYVYNQDGDCAWSSNMTFSINPVEDVEEVEEFIED  970

Query  109   -------PDEDEEEGDCEE-EEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEED  160
                    P  D+EE      EE  P         +  +  PLE    S     E E  E 
Sbjct  971   DYLSDELPIADDEEAWTRAVEEVMPLDDILVAEIELEEDLPLETALESV----EAEVGES  1026

Query  161   WLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNV  220
               D+       +        T +  +   V  + ++ + P+ +  E              
Sbjct  1027  ISDELCVVETAKAQEPSVESTDSTPSTSTVVSENDLSVKPMSRVAETGDVLEVET-----  1081

Query  221   YIKNADIVEEAKKVKPTVVV  240
              +    + +    V    +V
Sbjct  1082  AVVGGPVSDVTASVVTNDIV  1101


>sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavirus 
(strain A59) OX=11142 GN=rep PE=1 SV=1
Length=7176

 Score = 1304 bits (3375),  Expect = 0.0, Method: Composition-based stats.
 Identities = 371/1328 (28%), Positives = 604/1328 (45%), Gaps = 120/1328 (9%)

Query  695   DWSYSGQ-STQLGIEFLKR----GDKSVYYTSNPTTFHLDG--EVITFDNLKTLLSLREV  747
             DW    +  +  G+  +K     G   V        +  +G  +  +   ++ LL+ +  
Sbjct  1553  DWRLVNKFDSVDGVRTIKYFECPGGIFVSSQGKKFGYVQNGSFKEASVSQIRALLANK--  1610

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
               + V  TVD +N  +  V     +G+  G  + DG +VTK++    ++GK F+   +  
Sbjct  1611  --VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIYKGKVFFQYSDLS  1668

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQ  867
                + A +     D   L +Y + L    KW         + K ++NNCY+  A L LQ 
Sbjct  1669  EADLVAVKDAFGFDEPQLLKYYTMLGMC-KWPVVVCGNYFAFKQSNNNCYINVACLMLQH  1727

Query  868   IELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCK  927
             + LKF     Q+A+   R+G+   F +L+LA  +    E  D  + M  + + A+L    
Sbjct  1728  LSLKFPKWQWQEAWNEFRSGKPLRFVSLVLAKGSFKFNEPSDSIDFMRVVLREADLSGAT  1787

Query  928   RVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFV  987
               L  VCK CG +Q   KGV+AVM+ GTL      +G  I CTCG +   +  Q   PF+
Sbjct  1788  CNLEFVCK-CGVKQEQRKGVDAVMHFGTLDKGDLVRGYNIACTCGSKLV-HCTQFNVPFL  1845

Query  988   MMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITD  1047
             + S  P   +L       A+ +TG    GHY H+  K      D   + K SE KG  TD
Sbjct  1846  ICSNTPEGRKLPDDV-VAANIFTG-GSVGHYTHVKCKPKYQLYDACNVNKVSEAKGNFTD  1903

Query  1048  VFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP--N  1104
               Y +N   T +    T+ LD V C E  P L  YY +   Y+T +PI     + +   +
Sbjct  1904  CLYLKNLKQTFSSVLTTFYLDDVKCVEYKPDLSQYYCESGKYYT-KPIIKAQFRTFEKVD  1962

Query  1105  ASFDNFKFVCDNIKFADDLNQLTGYK-KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKK  1163
               + NFK V  +I  A+ LN   G+       E K+T +P   GDVV      Y   +  
Sbjct  1963  GVYTNFKLVGHSI--AEKLNAKLGFDCNSPFVEYKITEWPTATGDVVLASDDLYVSRYSS  2020

Query  1164  GAKLLHKPIVW--HVNNATNKATY--KPNTWCIRCLWSTKPVETSNSFDV----------  1209
             G     KP+VW  H   +    TY  +P+  C    ++  PV+ S   D           
Sbjct  2021  GCITFGKPVVWLGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDKGPVPAAVLVT  2079

Query  1210  -LKSEDAQGMDNLACEDLKP--------VSEEVVENPTIQK-DVLECNV----KTTEVVG  1255
              +   DA     +A E            V  EV + P++   DV E  +    K  +V G
Sbjct  2080  GVPGADASAGAGIAKEQKACASASVEDQVVTEVRQEPSVSAADVKEVKLNGVKKPVKVEG  2139

Query  1256  DIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSV  1315
              +++    +  K+ + +   D+   ++      +   NELSR++   T            
Sbjct  2140  SVVVNDPTSETKVVKSLSIVDVYDMFLTGCKYVVWTANELSRLVNSPT------------  2187

Query  1316  PWDTIANYAKPFLNKVVSTTTNIVTRCLNR-------------VCTNYMPYFFTLLLQLC  1362
                 +  Y K  + K+V+    ++ R   +              C   + +F        
Sbjct  2188  ----VREYVKWGMGKIVTPAKLLLLRDEKQEFVAPKVVKAKAIACYCAVKWFLLYCFSWI  2243

Query  1363  TFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLI-----NIIIWF--  1415
              F    N+  K    T +A      +     + +         S+         ++WF  
Sbjct  2244  KF----NTDNKVIYTTEVASKLTFKLCCLAFKNALQTFNWSVVSRGFFLVATVFLLWFNF  2299

Query  1416  LLLSVCLGSLI---------YSTAALGVLMSNLGMPSYCTGYRE---GYLNSTNVTIATY  1463
             L  +V L             +    +    +  G+ + C  Y+    GY +S       +
Sbjct  2300  LYANVILSDFYLPNIGPLPTFVGQIVAWFKTTFGVSTICDFYQVTDLGYRSS-------F  2352

Query  1464  CTGSIPCSVCLSGLDSLDTYPSLETIQITIS---SFKWDLTAFGLVAEWFLAYILFTRFF  1520
             C GS+ C +C SG D LD Y ++  +Q  +    SF + ++ F LV E  + Y L+T  F
Sbjct  2353  CNGSMVCELCFSGFDMLDNYDAINVVQHVVDRRLSFDY-ISLFKLVVELVIGYSLYTVCF  2411

Query  1521  YVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKS  1578
             Y L +   MQL  ++    F+  +  W   L + +  M P   ++R YI   + Y V+  
Sbjct  2412  YPLFVLIGMQLLTTWLPEFFMLETMHWSARLFVFVANMLPAFTLLRFYIVVTAMYKVYCL  2471

Query  1579  YVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCD  1638
               HV+ GC+   C+ CYKRNR+ RV+C+T+V G  R + V ANGG GFC  H WNC+NC+
Sbjct  2472  CRHVMYGCSKPGCLFCYKRNRSVRVKCSTVVGGSLRYYDVMANGGTGFCTKHQWNCLNCN  2531

Query  1639  TFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERH  1698
             ++  G+TFI+ E A DLS + KRP+NPTD + Y V  V     S+ L++++ GQ+ Y+  
Sbjct  2532  SWKPGNTFITHEAAADLSKELKRPVNPTDSAYYSVTEVKQVGCSMRLFYERDGQRVYDDV  2591

Query  1699  SLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQAL  1758
             + S FV+++ L  +  KG    +V+V + ++  +++    A+V+Y+Q + +P+L++++ L
Sbjct  2592  NASLFVDMNGLLHSKVKGVPETHVVVVENEA--DKAGFLGAAVFYAQSLYRPMLMVEKKL  2649

Query  1759  VSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISA  1818
             ++       V+  MFD YV++  +  +V  + L + V  A   L + V L+ V+ TFI  
Sbjct  2650  ITTANTGLSVSRTMFDLYVDSLLNVLDVDRKSLTSFVNAAHNSLKEGVQLEQVMDTFIGC  2709

Query  1819  ARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCS  1877
             AR+   +DSDVETK + + +  +  + ++ T +SCNN + TY K + +   DLG  I  +
Sbjct  2710  ARRKCAIDSDVETKSITKSVMSAVNAGVDFTDESCNNLVPTYVKSDTIVAADLGVLIQNN  2769

Query  1878  ARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVT  1937
             A+H+ A VAK+ N+A IW+V  F  LS  L+ ++R A  K  L  KLT       V ++T
Sbjct  2770  AKHVQANVAKAANVACIWSVDAFNQLSADLQHRLRKACSKTGLKIKLTYNKQEANVPILT  2829

Query  1938  TKIALKGG  1945
             T  +LKGG
Sbjct  2830  TPFSLKGG  2837


 Score = 236 bits (601),  Expect = 1e-60, Method: Composition-based stats.
 Identities = 65/252 (26%), Positives = 116/252 (46%), Gaps = 18/252 (7%)

Query  215   KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
              +T NV     D+++  + V   V+VN AN  + HG GVAGA+ +   +A   E+ D + 
Sbjct  1319  CITPNVCFVKGDVIKVVRLVNAEVIVNPANGRMAHGAGVAGAIAEKAGSAFIKETSDMVK  1378

Query  275   TNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKG--EDIQLLKSAYENFNQHEVLLAPLLS  332
               G  +VG     +G  L K  L++VGP+      +   LL+ AY++ N+ + ++  L+S
Sbjct  1379  AQGVCQVGECYESAGGKLCKKVLNIVGPDARGHGKQCYSLLERAYQHINKCDNVVTTLIS  1438

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   +  V  NV L   +++ +D +       +   K +  ++A+    
Sbjct  1439  AGIFSVPTDVSLTYLLGVVTKNVILVSNNQDDFDVIEKCQVTSVAGTKALSLQLAKNLCR  1498

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
             +VK F+T +  S+          ++C       L+E + L  ++ L      ++  N + 
Sbjct  1499  DVK-FVTNACSSLFS--------ESCFVSSYDVLQEVEALRHDIQLDDDARVFVQANMDC  1549

Query  446   HPDSATLVSDID  457
              P    LV+  D
Sbjct  1550  LPTDWRLVNKFD  1561


 Score = 169 bits (428),  Expect = 2e-40, Method: Composition-based stats.
 Identities = 61/233 (26%), Positives = 96/233 (41%), Gaps = 23/233 (10%)

Query  1     APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             A  KV F D   V ++   + + ITF LD   D VL++ CS + V+    ++E   VV D
Sbjct  832   AGKKVEFNDKPKVRKIPSTRKIKITFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLD  891

Query  60    AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEG  116
             AV  TL P  E   + T +   LD  +    YLFDE G+  +A  MYCSF  PD++    
Sbjct  892   AVESTLSPCKEHDVIGTKVCALLDRLAGDYVYLFDEGGDEVIAPRMYCSFSAPDDE----  947

Query  117   DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
             DC   +   + + +    +D            +A+   + QEED +   ++  V      
Sbjct  948   DCVAADVVDADENQDDDAED------------SAVLVADTQEEDGV---AKGQVEADSEI  992

Query  177   EDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVE  229
                 T + + + E             +  EV   S    + +      AD V+
Sbjct  993   CVAHTGSQEELAEPDAVGSQTPIASAEETEVGEASDREGIAEAKATVCADAVD  1045


 Score = 47.9 bits (112),  Expect = 0.001, Method: Composition-based stats.
 Identities = 32/149 (21%), Positives = 57/149 (38%), Gaps = 16/149 (11%)

Query  845   GLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTV  904
             G  S      NC+L + L+ +Q + L+F    +Q  +   +AG    F   ++    K++
Sbjct  1110  GFYSPAIERTNCWLRSTLIVMQSLPLEFKDLEMQKLWLSYKAGYDQCFVDKLVKSVPKSI  1169

Query  905   GEL--GDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFK  962
                  G V +   +        S K   N  C  C   +  L+G++A+ + G        
Sbjct  1170  ILPQGGYVADFAYFFLSQ---CSFKAYANWRCLECDM-ELKLQGLDAMFFYG--------  1217

Query  963   KGVQIPCTCGKQATKYLVQQESPFVMMSA  991
               V   C CG   T  L+  + P+ +   
Sbjct  1218  DVVSHMCKCGNSMT--LLSADIPYTLHFG  1244


>sp|P0C6V0|R1A_CVMA5 Replicase polyprotein 1a OS=Murine coronavirus 
(strain A59) OX=11142 GN=1a PE=1 SV=1
Length=4468

 Score = 1303 bits (3372),  Expect = 0.0, Method: Composition-based stats.
 Identities = 371/1328 (28%), Positives = 604/1328 (45%), Gaps = 120/1328 (9%)

Query  695   DWSYSGQ-STQLGIEFLKR----GDKSVYYTSNPTTFHLDG--EVITFDNLKTLLSLREV  747
             DW    +  +  G+  +K     G   V        +  +G  +  +   ++ LL+ +  
Sbjct  1553  DWRLVNKFDSVDGVRTIKYFECPGGIFVSSQGKKFGYVQNGSFKEASVSQIRALLANK--  1610

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
               + V  TVD +N  +  V     +G+  G  + DG +VTK++    ++GK F+   +  
Sbjct  1611  --VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIYKGKVFFQYSDLS  1668

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQ  867
                + A +     D   L +Y + L    KW         + K ++NNCY+  A L LQ 
Sbjct  1669  EADLVAVKDAFGFDEPQLLKYYTMLGMC-KWPVVVCGNYFAFKQSNNNCYINVACLMLQH  1727

Query  868   IELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCK  927
             + LKF     Q+A+   R+G+   F +L+LA  +    E  D  + M  + + A+L    
Sbjct  1728  LSLKFPKWQWQEAWNEFRSGKPLRFVSLVLAKGSFKFNEPSDSIDFMRVVLREADLSGAT  1787

Query  928   RVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFV  987
               L  VCK CG +Q   KGV+AVM+ GTL      +G  I CTCG +   +  Q   PF+
Sbjct  1788  CNLEFVCK-CGVKQEQRKGVDAVMHFGTLDKGDLVRGYNIACTCGSKLV-HCTQFNVPFL  1845

Query  988   MMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITD  1047
             + S  P   +L       A+ +TG    GHY H+  K      D   + K SE KG  TD
Sbjct  1846  ICSNTPEGRKLPDDV-VAANIFTG-GSVGHYTHVKCKPKYQLYDACNVNKVSEAKGNFTD  1903

Query  1048  VFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP--N  1104
               Y +N   T +    T+ LD V C E  P L  YY +   Y+T +PI     + +   +
Sbjct  1904  CLYLKNLKQTFSSVLTTFYLDDVKCVEYKPDLSQYYCESGKYYT-KPIIKAQFRTFEKVD  1962

Query  1105  ASFDNFKFVCDNIKFADDLNQLTGYK-KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKK  1163
               + NFK V  +I  A+ LN   G+       E K+T +P   GDVV      Y   +  
Sbjct  1963  GVYTNFKLVGHSI--AEKLNAKLGFDCNSPFVEYKITEWPTATGDVVLASDDLYVSRYSS  2020

Query  1164  GAKLLHKPIVW--HVNNATNKATY--KPNTWCIRCLWSTKPVETSNSFDV----------  1209
             G     KP+VW  H   +    TY  +P+  C    ++  PV+ S   D           
Sbjct  2021  GCITFGKPVVWLGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDKGPVPAAVLVT  2079

Query  1210  -LKSEDAQGMDNLACEDLKP--------VSEEVVENPTIQK-DVLECNV----KTTEVVG  1255
              +   DA     +A E            V  EV + P++   DV E  +    K  +V G
Sbjct  2080  GVPGADASAGAGIAKEQKACASASVEDQVVTEVRQEPSVSAADVKEVKLNGVKKPVKVEG  2139

Query  1256  DIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSV  1315
              +++    +  K+ + +   D+   ++      +   NELSR++   T            
Sbjct  2140  SVVVNDPTSETKVVKSLSIVDVYDMFLTGCKYVVWTANELSRLVNSPT------------  2187

Query  1316  PWDTIANYAKPFLNKVVSTTTNIVTRCLNR-------------VCTNYMPYFFTLLLQLC  1362
                 +  Y K  + K+V+    ++ R   +              C   + +F        
Sbjct  2188  ----VREYVKWGMGKIVTPAKLLLLRDEKQEFVAPKVVKAKAIACYCAVKWFLLYCFSWI  2243

Query  1363  TFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLI-----NIIIWF--  1415
              F    N+  K    T +A      +     + +         S+         ++WF  
Sbjct  2244  KF----NTDNKVIYTTEVASKLTFKLCCLAFKNALQTFNWSVVSRGFFLVATVFLLWFNF  2299

Query  1416  LLLSVCLGSLI---------YSTAALGVLMSNLGMPSYCTGYRE---GYLNSTNVTIATY  1463
             L  +V L             +    +    +  G+ + C  Y+    GY +S       +
Sbjct  2300  LYANVILSDFYLPNIGPLPTFVGQIVAWFKTTFGVSTICDFYQVTDLGYRSS-------F  2352

Query  1464  CTGSIPCSVCLSGLDSLDTYPSLETIQITIS---SFKWDLTAFGLVAEWFLAYILFTRFF  1520
             C GS+ C +C SG D LD Y ++  +Q  +    SF + ++ F LV E  + Y L+T  F
Sbjct  2353  CNGSMVCELCFSGFDMLDNYDAINVVQHVVDRRLSFDY-ISLFKLVVELVIGYSLYTVCF  2411

Query  1521  YVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKS  1578
             Y L +   MQL  ++    F+  +  W   L + +  M P   ++R YI   + Y V+  
Sbjct  2412  YPLFVLIGMQLLTTWLPEFFMLETMHWSARLFVFVANMLPAFTLLRFYIVVTAMYKVYCL  2471

Query  1579  YVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCD  1638
               HV+ GC+   C+ CYKRNR+ RV+C+T+V G  R + V ANGG GFC  H WNC+NC+
Sbjct  2472  CRHVMYGCSKPGCLFCYKRNRSVRVKCSTVVGGSLRYYDVMANGGTGFCTKHQWNCLNCN  2531

Query  1639  TFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERH  1698
             ++  G+TFI+ E A DLS + KRP+NPTD + Y V  V     S+ L++++ GQ+ Y+  
Sbjct  2532  SWKPGNTFITHEAAADLSKELKRPVNPTDSAYYSVTEVKQVGCSMRLFYERDGQRVYDDV  2591

Query  1699  SLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQAL  1758
             + S FV+++ L  +  KG    +V+V + ++  +++    A+V+Y+Q + +P+L++++ L
Sbjct  2592  NASLFVDMNGLLHSKVKGVPETHVVVVENEA--DKAGFLGAAVFYAQSLYRPMLMVEKKL  2649

Query  1759  VSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISA  1818
             ++       V+  MFD YV++  +  +V  + L + V  A   L + V L+ V+ TFI  
Sbjct  2650  ITTANTGLSVSRTMFDLYVDSLLNVLDVDRKSLTSFVNAAHNSLKEGVQLEQVMDTFIGC  2709

Query  1819  ARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCS  1877
             AR+   +DSDVETK + + +  +  + ++ T +SCNN + TY K + +   DLG  I  +
Sbjct  2710  ARRKCAIDSDVETKSITKSVMSAVNAGVDFTDESCNNLVPTYVKSDTIVAADLGVLIQNN  2769

Query  1878  ARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVT  1937
             A+H+ A VAK+ N+A IW+V  F  LS  L+ ++R A  K  L  KLT       V ++T
Sbjct  2770  AKHVQANVAKAANVACIWSVDAFNQLSADLQHRLRKACSKTGLKIKLTYNKQEANVPILT  2829

Query  1938  TKIALKGG  1945
             T  +LKGG
Sbjct  2830  TPFSLKGG  2837


 Score = 235 bits (600),  Expect = 1e-60, Method: Composition-based stats.
 Identities = 65/252 (26%), Positives = 116/252 (46%), Gaps = 18/252 (7%)

Query  215   KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
              +T NV     D+++  + V   V+VN AN  + HG GVAGA+ +   +A   E+ D + 
Sbjct  1319  CITPNVCFVKGDVIKVVRLVNAEVIVNPANGRMAHGAGVAGAIAEKAGSAFIKETSDMVK  1378

Query  275   TNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKG--EDIQLLKSAYENFNQHEVLLAPLLS  332
               G  +VG     +G  L K  L++VGP+      +   LL+ AY++ N+ + ++  L+S
Sbjct  1379  AQGVCQVGECYESAGGKLCKKVLNIVGPDARGHGKQCYSLLERAYQHINKCDNVVTTLIS  1438

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   +  V  NV L   +++ +D +       +   K +  ++A+    
Sbjct  1439  AGIFSVPTDVSLTYLLGVVTKNVILVSNNQDDFDVIEKCQVTSVAGTKALSLQLAKNLCR  1498

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
             +VK F+T +  S+          ++C       L+E + L  ++ L      ++  N + 
Sbjct  1499  DVK-FVTNACSSLFS--------ESCFVSSYDVLQEVEALRHDIQLDDDARVFVQANMDC  1549

Query  446   HPDSATLVSDID  457
              P    LV+  D
Sbjct  1550  LPTDWRLVNKFD  1561


 Score = 169 bits (428),  Expect = 2e-40, Method: Composition-based stats.
 Identities = 61/233 (26%), Positives = 96/233 (41%), Gaps = 23/233 (10%)

Query  1     APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             A  KV F D   V ++   + + ITF LD   D VL++ CS + V+    ++E   VV D
Sbjct  832   AGKKVEFNDKPKVRKIPSTRKIKITFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLD  891

Query  60    AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEG  116
             AV  TL P  E   + T +   LD  +    YLFDE G+  +A  MYCSF  PD++    
Sbjct  892   AVESTLSPCKEHDVIGTKVCALLDRLAGDYVYLFDEGGDEVIAPRMYCSFSAPDDE----  947

Query  117   DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
             DC   +   + + +    +D            +A+   + QEED +   ++  V      
Sbjct  948   DCVAADVVDADENQDDDAED------------SAVLVADTQEEDGV---AKGQVEADSEI  992

Query  177   EDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVE  229
                 T + + + E             +  EV   S    + +      AD V+
Sbjct  993   CVAHTGSQEELAEPDAVGSQTPIASAEETEVGEASDREGIAEAKATVCADAVD  1045


 Score = 47.9 bits (112),  Expect = 0.001, Method: Composition-based stats.
 Identities = 32/149 (21%), Positives = 57/149 (38%), Gaps = 16/149 (11%)

Query  845   GLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTV  904
             G  S      NC+L + L+ +Q + L+F    +Q  +   +AG    F   ++    K++
Sbjct  1110  GFYSPAIERTNCWLRSTLIVMQSLPLEFKDLEMQKLWLSYKAGYDQCFVDKLVKSVPKSI  1169

Query  905   GEL--GDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFK  962
                  G V +   +        S K   N  C  C   +  L+G++A+ + G        
Sbjct  1170  ILPQGGYVADFAYFFLSQ---CSFKAYANWRCLECDM-ELKLQGLDAMFFYG--------  1217

Query  963   KGVQIPCTCGKQATKYLVQQESPFVMMSA  991
               V   C CG   T  L+  + P+ +   
Sbjct  1218  DVVSHMCKCGNSMT--LLSADIPYTLHFG  1244


>sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavirus 
(strain JHM) OX=11144 GN=rep PE=1 SV=1
Length=7180

 Score = 1302 bits (3370),  Expect = 0.0, Method: Composition-based stats.
 Identities = 365/1333 (27%), Positives = 598/1333 (45%), Gaps = 126/1333 (9%)

Query  695   DWSYSGQ-STQLGIEFLKR----GDKSVYYTSNPTTFHLDG--EVITFDNLKTLLSLREV  747
             DW    +  +  G+  +K     G+  V        +  +G  +  +   ++ LL+ +  
Sbjct  1552  DWRLVNKFDSVDGVRTIKYFECPGEVFVSSQGKKFGYVQNGSFKEASVSQIRALLANK--  1609

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
               + V  TVD +N  +  V     +G+  G  + DG +VTK++    H+GK F+      
Sbjct  1610  --VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIHKGKVFFQYSGLS  1667

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQ  867
                + A +     D   L +Y S L    KW         + K ++NNCY+  A L LQ 
Sbjct  1668  AADLAAVKDAFGFDEPQLLQYYSMLGMC-KWPVVVCGNYFAFKQSNNNCYINVACLMLQH  1726

Query  868   IELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCK  927
             + LKF     +      R+G+   F +L+LA  +    E  D  + +    + A+L    
Sbjct  1727  LSLKFPKWQWRRPGNEFRSGKPLRFVSLVLAKGSFKFNEPSDSTDFIRVELREADLSGAT  1786

Query  928   RVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFV  987
               L  +CK CG +Q   KGV+AVM+ GTL      KG  I CTCG +   +  Q   PF+
Sbjct  1787  CDLEFICK-CGVKQEQRKGVDAVMHFGTLDKSGLVKGYNIACTCGDKLV-HCTQFNVPFL  1844

Query  988   MMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITD  1047
             + S  P   +L       A+ +TG    GHY H+  K      D   ++K SE KG  TD
Sbjct  1845  ICSNTPEGKKLPDDV-VAANIFTG-GSVGHYTHVKCKPKYQLYDACNVSKVSEAKGNFTD  1902

Query  1048  VFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPN--  1104
               Y +N   T +    TY LD V C    P L  YY +   Y+T +PI     + +    
Sbjct  1903  CLYLKNLKQTFSSVLTTYYLDDVKCVAYKPDLSQYYCESGKYYT-KPIIKAQFRTFEKVE  1961

Query  1105  ASFDNFKFVCDNIKFADDLNQLTGYK-KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKK  1163
               + NFK V  +I  A+ LN   G+       E K+T +P   GDVV      Y   +  
Sbjct  1962  GVYTNFKLVGHDI--AEKLNAKLGFDCNSPFMEYKITEWPTATGDVVLASDDLYVSRYSG  2019

Query  1164  GAKLLHKPIVW--HVNNATNKATY--KPNTWCIRCLWSTKPVETSNSFD-----------  1208
             G     KP++W  H   +    TY  +P+  C    ++  PV+ S   D           
Sbjct  2020  GCVTFGKPVIWRGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDRRPVPSAVLVT  2078

Query  1209  ---------VLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVG----  1255
                       + +E     +  AC     V +++V     +  V    VK  ++ G    
Sbjct  2079  GAASGADASAISTEPGTAKEQKACAS-DSVEDQIVMEAQKKSSVTTVAVKEVKLNGVKKP  2137

Query  1256  -----DIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLA  1310
                   +++    +  K+ + +   D+   ++      +   NELSR++   T       
Sbjct  2138  VKWNCSVVVNDPTSETKVVKSLSIVDVYDMFLTGCRYVVWTANELSRLINSPT-------  2190

Query  1311  AVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNR-------------VCTNYMPYFFTL  1357
                      +  Y K  ++K++     ++ R   +              C   + +F   
Sbjct  2191  ---------VREYVKWGMSKLIIPANLLLLRDEKQEFVAPKVVKAKAIACYGAVKWFLLY  2241

Query  1358  LLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLI-----NII  1412
                   F    N+  K    T +A      +     + +         S+         +
Sbjct  2242  CFSWIKF----NTDNKVIYTTEVASKLTFKLCCLAFKNALQTFNWSVVSRGFFLVATVFL  2297

Query  1413  IWF--LLLSVCLGSL---------IYSTAALGVLMSNLGMPSYCTGYRE---GYLNSTNV  1458
             +WF  L  +V L            ++    +  + +  G+ + C  Y+    GY +S   
Sbjct  2298  LWFNFLYANVILSDFYLPNIGPLPMFVGQIVAWVKTTFGVLTICDFYQVTDLGYRSS---  2354

Query  1459  TIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITIS---SFKWDLTAFGLVAEWFLAYIL  1515
                 +C GS+ C +C SG D LD Y S+  +Q  +    SF + ++ F LV E  + Y L
Sbjct  2355  ----FCNGSMVCELCFSGFDMLDNYESINVVQHVVDRRVSFDY-ISLFKLVVELVIGYSL  2409

Query  1516  FTRFFYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQMAPISAMVRMYIFFASFY  1573
             +T  FY L +   MQL  ++    F+  +  W   L + +  M P   ++R YI   + Y
Sbjct  2410  YTVCFYPLFVLVGMQLLTTWLPEFFMLGTMHWSARLFVFVANMLPAFTLLRFYIVVTAMY  2469

Query  1574  YVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWN  1633
              V+    HV+ GC+   C+ CYKRNR+ RV+C+T+V G  R + V ANGG GFC  H WN
Sbjct  2470  KVYCLCRHVMYGCSKPGCLFCYKRNRSVRVKCSTVVGGSLRYYDVMANGGTGFCTKHQWN  2529

Query  1634  CVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQK  1693
             C+NC+++  G+TFI+ E A DLS + KRP+NPTD + Y V  V     S+ L++++ GQ+
Sbjct  2530  CLNCNSWKPGNTFITHEAAADLSKELKRPVNPTDSAYYSVIEVKQVGCSMRLFYERDGQR  2589

Query  1694  TYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILL  1753
              Y+  S S FV+++ L  +  KG    +V+V + ++  +++   +A+V+Y+Q + +P+L+
Sbjct  2590  VYDDVSASLFVDMNGLLHSKVKGVPETHVVVVENEA--DKAGFLNAAVFYAQSLYRPMLM  2647

Query  1754  LDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLS  1813
             +++ L++       V+  MFD YV +     +V  + L + V  A   L + V L+ V+ 
Sbjct  2648  VEKKLITTANTGLSVSRTMFDLYVYSLLRHLDVDRKSLTSFVNAAHNSLKEGVQLEQVMD  2707

Query  1814  TFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGA  1872
             TF+  AR+   +DSDVETK + + +  +  + +EVT +SCNN + TY K + +   DLG 
Sbjct  2708  TFVGCARRKCAIDSDVETKSITKSVMAAVNAGVEVTDESCNNLVPTYVKSDTIVAADLGV  2767

Query  1873  CIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQV  1932
              I  +A+H+ + VAK+ N+A IW+V  F  LS  L+ ++R A  K  L  KLT       
Sbjct  2768  LIQNNAKHVQSNVAKAANVACIWSVDAFNQLSADLQHRLRKACVKTGLKIKLTYNKQEAN  2827

Query  1933  VNVVTTKIALKGG  1945
             V ++TT  +LKGG
Sbjct  2828  VPILTTPFSLKGG  2840


 Score = 197 bits (500),  Expect = 7e-49, Method: Composition-based stats.
 Identities = 68/252 (27%), Positives = 117/252 (46%), Gaps = 18/252 (7%)

Query  215   KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
              +T NV     D+++  ++V   V+VN AN  + HG GVAGA+ KA   A   E+ D + 
Sbjct  1318  CITPNVCFVKGDVIKVLRRVGAEVIVNPANGRMAHGAGVAGAIAKAAGKAFINETADMVK  1377

Query  275   TNGPLKVGGSCVLSGHNLAKHCLHVVGP--NVNKGEDIQLLKSAYENFNQHEVLLAPLLS  332
               G  +VGG    +G  L K  L++VGP    +  E   LL+ AY++ N+ + ++  L+S
Sbjct  1378  AQGVCQVGGCYESTGGKLCKKVLNIVGPDARGHGNECYSLLERAYQHINKCDNVVTTLIS  1437

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   +  V  NV L   +++ +D +       +   K +  ++A+    
Sbjct  1438  AGIFSVPTDVSLTYLLGVVTKNVILVSNNQDDFDVIEKCQVTSVAGTKALSFQLAKNLCR  1497

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
             +VK F+T +  S+          ++        L+E + L  ++ L      ++  N + 
Sbjct  1498  DVK-FVTNACSSLFS--------ESSFVSSYDVLQEVEALRHDIQLDDDARVFVQANMDC  1548

Query  446   HPDSATLVSDID  457
              P    LV+  D
Sbjct  1549  LPTDWRLVNKFD  1560


 Score = 159 bits (403),  Expect = 2e-37, Method: Composition-based stats.
 Identities = 63/233 (27%), Positives = 91/233 (39%), Gaps = 24/233 (10%)

Query  1     APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             A  KV F D   V EV   + + I F LD   D VL++ CS + V+    ++E   VV D
Sbjct  832   AGKKVVFNDKPKVKEVPSTRKIKIIFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLD  891

Query  60    AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEG  116
             AV  TL P  E   + T +   L+       YLFDE GE  +AS MYCSF  PDED    
Sbjct  892   AVESTLSPCKEHGVIGTKVCALLERLVDDYVYLFDEGGEEVIASRMYCSFSAPDED----  947

Query  117   DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
              C   +   + + +               A    +   + QEED +   +++ V   D  
Sbjct  948   -CVATDVVYADENQD------------DDADDPVVLVADTQEEDGV---AREQVDSADSE  991

Query  177   EDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVE  229
                  T  Q + E             +  EV        + +      AD ++
Sbjct  992   ICVAHTGGQEMTEPDVVGSQTPIASAEETEVGEACDREGIAEVKATVCADALD  1044


 Score = 53.3 bits (126),  Expect = 4e-05, Method: Composition-based stats.
 Identities = 46/205 (22%), Positives = 79/205 (39%), Gaps = 23/205 (11%)

Query  785   DVTKIKPHNSHEGKTFYVLPNDDT-LRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQV  843
             D+ K++     E +T    P D T   V AF+  +      L  + +  +    +K    
Sbjct  1054  DIEKVEDSILSELQTELNAPADKTYEDVLAFDAIY---SETLSAFYAVPSDETHFKVC--  1108

Query  844   NGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKT  903
              G  S      NC+L + L+ +Q + L+F    +Q  +   +AG    F   ++    K+
Sbjct  1109  -GFYSPAIERTNCWLRSTLIVMQSLPLEFKDLGMQKLWLSYKAGYDQCFVDKLVKSAPKS  1167

Query  904   VGEL--GDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQF  961
             +     G V +   +        S K   N  C  CG  +  L+G++AV + G       
Sbjct  1168  IILPQGGYVADFAYFFLSQ---CSFKVHANWRCLKCGM-ELKLQGLDAVFFYG-------  1216

Query  962   KKGVQIPCTCGKQATKYLVQQESPF  986
                V   C CG   T  L+  + P+
Sbjct  1217  -DVVSHMCKCGNSMT--LLSADIPY  1238


>sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavirus 
(strain 2) OX=76344 GN=rep PE=3 SV=1
Length=7124

 Score = 1302 bits (3368),  Expect = 0.0, Method: Composition-based stats.
 Identities = 373/1327 (28%), Positives = 602/1327 (45%), Gaps = 119/1327 (9%)

Query  695   DWSYSGQ-STQLGIEFLKR----GDKSVYYTSNPTTFHLDG--EVITFDNLKTLLSLREV  747
             DW    +  +  G+  +K     G+  V        +  +G  +V +   ++ LL+ +  
Sbjct  1500  DWRLVNKFDSVDGVRTVKYFECPGEIFVSSQGKKFGYVQNGSFKVASVSQIRALLANK--  1557

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
               + V  TVD +N  +  V     +G+  G  + DG +VTK++    H+GK F+      
Sbjct  1558  --VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIHKGKVFFQYSGLS  1615

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQ  867
                + A       D   L +Y + L    KW         + K ++NNCY+  A L LQ 
Sbjct  1616  AADLVAVTDAFGFDEPQLLKYYNMLGMC-KWPVVVCGNYFAFKQSNNNCYINVACLMLQH  1674

Query  868   IELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCK  927
             + LKF+    Q+A+   R+G+   F +L+LA  +    E  D  + M  + + A+L    
Sbjct  1675  LSLKFHKWQWQEAWNEFRSGKPLRFVSLVLAKGSFKFNEPSDSTDFMRVVLREADLSGAT  1734

Query  928   RVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFV  987
                  VCK CG +Q   KGV+AVM+ GTL      KG  I CTCG +   +  Q   PF+
Sbjct  1735  CDFEFVCK-CGVKQEQRKGVDAVMHFGTLDKGDLAKGYTIACTCGNKLV-HCTQLNVPFL  1792

Query  988   MMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITD  1047
             + S  P   +L       A+ +TG    GHY H+  K      D   ++K SE KG  TD
Sbjct  1793  ICSNKPEGKKLPDDV-VAANIFTG-GSLGHYTHVKCKPKYQLYDACNVSKVSEAKGNFTD  1850

Query  1048  VFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPN--  1104
               Y +N   T + K  T+ LD V C E +P L  YY +   Y+T +PI     + +    
Sbjct  1851  CLYLKNLKQTFSSKLTTFYLDDVKCVEYNPDLSQYYCESGKYYT-KPIIKAQFRTFEKVE  1909

Query  1105  ASFDNFKFVCDNIKFADDLNQLTGYK-KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKK  1163
               + NFK V  +I  A+  N   G+       E K+T +P   GDVV      Y   +  
Sbjct  1910  GVYTNFKLVGHSI--AEKFNAKLGFDCNSPFTEYKITEWPTATGDVVLASDDLYVSRYSG  1967

Query  1164  GAKLLHKPIVW--HVNNATNKATY--KPNTWCIRCLWSTKPVETSNSFD-------VLKS  1212
             G     KP++W  H   +    TY  +P+  C    ++  PV+ S   D       VL +
Sbjct  1968  GCVTFGKPVIWLGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDKGPVPAAVLVT  2026

Query  1213  EDAQGMD---NLACEDLKPVSEEVVEN---------PTIQKDVLECNV----KTTEVVGD  1256
                 G       A E     S+ VV+               DV E  +    K  +V   
Sbjct  2027  GALSGAATAPGTAKEQKVCASDSVVDQVVSGFLSDLSGATVDVKEVKLNGVKKPIKVEDS  2086

Query  1257  IILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVP  1316
             +++    +  K+ + +   D+   ++      +   NELSR++   T             
Sbjct  2087  VVVNDPTSETKVVKSLSIVDVYDMFLTGCRYVVWMANELSRLVNSPT-------------  2133

Query  1317  WDTIANYAKPFLNKVVSTTTNIVTRCLNR-------------VCTNYMPYFFTLLLQLCT  1363
                +  Y K  + K+V     ++ R   +              C + + +FF        
Sbjct  2134  ---VREYVKWGMTKIVIPAKLVLLRDEKQEFVAPKVVKAKVIACYSAVKWFFLYCFSWIK  2190

Query  1364  FTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLI-----NIIIWF--L  1416
             F    N+  K    T +A     ++     + +         S+         ++WF  L
Sbjct  2191  F----NTDNKVIYTTEVASKLTFNLCCLAFKNALQTFNWNVVSRGFFLVATVFLLWFNFL  2246

Query  1417  LLSVCLGSLI---------YSTAALGVLMSNLGMPSYCTGYRE---GYLNSTNVTIATYC  1464
               +V L             +    +  + +  G+ + C  Y+    GY +S       +C
Sbjct  2247  YANVILSDFYLPNIGFFPTFVGQIVAWVKTTFGIFTLCDLYQVSDVGYRSS-------FC  2299

Query  1465  TGSIPCSVCLSGLDSLDTYPSLETIQITIS---SFKWDLTAFGLVAEWFLAYILFTRFFY  1521
              GS+ C +C SG D LD Y ++  +Q  +    SF + ++ F LV E  + Y L+T  FY
Sbjct  2300  NGSMVCELCFSGFDMLDNYDAINVVQHVVDRRVSFDY-ISLFKLVVELVIGYSLYTVCFY  2358

Query  1522  VLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSY  1579
              L     MQL  ++    F+  +  W     + +  M P   ++R YI   + Y ++   
Sbjct  2359  PLFGLIGMQLLTTWLPEFFMLETMHWSARFFVFVANMLPAFTLLRFYIVVTAMYKIFCLC  2418

Query  1580  VHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDT  1639
              HV+ GC+   C+ CYKRNR+ RV+C+T+V G  R + V ANGG GFC  H WNC+NC  
Sbjct  2419  RHVMYGCSRPGCLFCYKRNRSVRVKCSTVVGGTLRYYDVMANGGTGFCAKHQWNCLNCSA  2478

Query  1640  FCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHS  1699
             F  G+TFI+ E A DLS + KRP+NPTD + Y+V  V     S+ L++++ GQ+ Y+  S
Sbjct  2479  FGPGNTFITHEAAADLSKELKRPVNPTDSAYYLVTEVKQVGCSMRLFYERDGQRVYDDVS  2538

Query  1700  LSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALV  1759
              S FV+++ L  +  KG    +V+V + ++  +++   +A+V+Y+Q + +P+LL+++ L+
Sbjct  2539  ASLFVDMNGLLHSKVKGVPETHVVVVENEA--DKAGFLNAAVFYAQSLYRPMLLVEKKLI  2596

Query  1760  SDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAA  1819
             +       V+  MFD YV++     +V  + L + V  A   L + V L+ V+ TFI  A
Sbjct  2597  TTANTGLSVSQTMFDLYVDSLLGVLDVDRKSLTSFVNAAHNSLKEGVQLEQVMDTFIGCA  2656

Query  1820  RQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSA  1878
             R+   +DSDVETK + + +  +  + ++ T +SCNN + TY K + +   DLG  I  +A
Sbjct  2657  RRKCAIDSDVETKSITKSIMSAVNAGVDFTDESCNNLVPTYVKSDTIVAADLGVLIQNNA  2716

Query  1879  RHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTT  1938
             +H+ A VAK+ N+A IW+V  F  LS  L+ ++R A  K  L  KLT       V ++TT
Sbjct  2717  KHVQANVAKAANVACIWSVDAFNQLSADLQHRLRKACSKTGLKIKLTYNKQEANVPILTT  2776

Query  1939  KIALKGG  1945
               +LKGG
Sbjct  2777  PFSLKGG  2783


 Score = 192 bits (488),  Expect = 2e-47, Method: Composition-based stats.
 Identities = 66/252 (26%), Positives = 115/252 (46%), Gaps = 18/252 (7%)

Query  215   KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
              +T NV     D+++  ++V   V+VN AN  + HG GVAGA+ KA   +   E+ D + 
Sbjct  1266  CITPNVCFVKGDVIKVLRRVGAEVIVNPANGRMAHGAGVAGAIAKAAGKSFIKETADMVK  1325

Query  275   TNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKG--EDIQLLKSAYENFNQHEVLLAPLLS  332
               G  +VG     +G NL K  L++VGP+      +    L+ AY++ N+ + ++  L+S
Sbjct  1326  NQGVCQVGECYESTGGNLCKTVLNIVGPDARGHGKQCYSFLERAYQHINKCDDVVTTLIS  1385

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   +  V  NV L   +K+ +D +       +   K +  ++A+    
Sbjct  1386  AGIFSVPTDVSLTYLIGVVTKNVILVSNNKDDFDVIEKCQVTSIAGTKALSLQLAKNLCR  1445

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
             +VK F T +  S+           +C       L+E + L  ++ L      ++  + + 
Sbjct  1446  DVK-FETNACDSLFSD--------SCFVSSYDVLQEVELLRHDIQLDDDARVFVQAHMDN  1496

Query  446   HPDSATLVSDID  457
              P    LV+  D
Sbjct  1497  LPADWRLVNKFD  1508


 Score = 172 bits (436),  Expect = 2e-41, Method: Composition-based stats.
 Identities = 64/242 (26%), Positives = 91/242 (38%), Gaps = 26/242 (11%)

Query  1     APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             A  KV F D   V E+   + + I F LD   D VL++ CS + V+    ++E   VV D
Sbjct  832   AGKKVEFNDKPKVKEIPSTRKIKINFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLD  891

Query  60    AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEG  116
             AV  TL P  E   + T +   L+  +    YLFDE GE  +A  MYCSF  PD++    
Sbjct  892   AVESTLSPCKEHDVIGTKVCALLNRLAEDYVYLFDEGGEEVIAPKMYCSFSAPDDE----  947

Query  117   DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
             DC   +   + + +    DD                  + QEED +    Q  V + D  
Sbjct  948   DCVAADVVDADENQGDDADDSAAL------------VTDTQEEDGV-AKGQVGVAESDAR  994

Query  177   EDNQTTTIQTIVEVQPQLEMELTPVVQT----IEVNSFSG-YLKLTDNVYIKNADIVEEA  231
              D         VE     E+             +V +F   Y +     Y    D     
Sbjct  995   LDQVEAFDIEKVEDPILNELSAELNAPADKTYEDVLAFDAIYSEALSAFYAVPGDETHFK  1054

Query  232   KK  233
               
Sbjct  1055  VC  1056


 Score = 47.9 bits (112),  Expect = 0.001, Method: Composition-based stats.
 Identities = 45/239 (19%), Positives = 81/239 (34%), Gaps = 28/239 (12%)

Query  756   VDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDT-LRVEAF  814
              D +      V  S     Q      +  D+ K++    +E       P D T   V AF
Sbjct  978   EDGVAKGQVGVAESDARLDQV-----EAFDIEKVEDPILNELSAELNAPADKTYEDVLAF  1032

Query  815   EYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNP  874
             +  +      L  + +       +K     G  S      NC+L + L+ +Q + L+F  
Sbjct  1033  DAIY---SEALSAFYAVPGDETHFKVC---GFYSPAIERTNCWLRSTLIVMQSLPLEFKD  1086

Query  875   PALQDAYYRARAGEAANFCALILAYCNKTVGEL--GDVRETMSYLFQHANLDSCKRVLNV  932
               +Q  +   ++     F   ++    K++     G V +   +        S K   N 
Sbjct  1087  LEMQKLWLSYKSSYNKEFVDKLVKSVPKSIILPQGGYVADFAYFFLSQ---CSFKAYANW  1143

Query  933   VCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSA  991
              C  C      L+G++A+ + G          V   C CG   T  L+  + P+ +   
Sbjct  1144  RCLKCDM-DLKLQGLDAMFFYG--------DVVSHVCKCGTGMT--LLSADIPYTLHFG  1191


>sp|P0C6V1|R1A_CVMJH Replicase polyprotein 1a OS=Murine coronavirus 
(strain JHM) OX=11144 GN=1a PE=1 SV=1
Length=4474

 Score = 1301 bits (3366),  Expect = 0.0, Method: Composition-based stats.
 Identities = 365/1333 (27%), Positives = 598/1333 (45%), Gaps = 126/1333 (9%)

Query  695   DWSYSGQ-STQLGIEFLKR----GDKSVYYTSNPTTFHLDG--EVITFDNLKTLLSLREV  747
             DW    +  +  G+  +K     G+  V        +  +G  +  +   ++ LL+ +  
Sbjct  1552  DWRLVNKFDSVDGVRTIKYFECPGEVFVSSQGKKFGYVQNGSFKEASVSQIRALLANK--  1609

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
               + V  TVD +N  +  V     +G+  G  + DG +VTK++    H+GK F+      
Sbjct  1610  --VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIHKGKVFFQYSGLS  1667

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQ  867
                + A +     D   L +Y S L    KW         + K ++NNCY+  A L LQ 
Sbjct  1668  AADLAAVKDAFGFDEPQLLQYYSMLGMC-KWPVVVCGNYFAFKQSNNNCYINVACLMLQH  1726

Query  868   IELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCK  927
             + LKF     +      R+G+   F +L+LA  +    E  D  + +    + A+L    
Sbjct  1727  LSLKFPKWQWRRPGNEFRSGKPLRFVSLVLAKGSFKFNEPSDSTDFIRVELREADLSGAT  1786

Query  928   RVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFV  987
               L  +CK CG +Q   KGV+AVM+ GTL      KG  I CTCG +   +  Q   PF+
Sbjct  1787  CDLEFICK-CGVKQEQRKGVDAVMHFGTLDKSGLVKGYNIACTCGDKLV-HCTQFNVPFL  1844

Query  988   MMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITD  1047
             + S  P   +L       A+ +TG    GHY H+  K      D   ++K SE KG  TD
Sbjct  1845  ICSNTPEGKKLPDDV-VAANIFTG-GSVGHYTHVKCKPKYQLYDACNVSKVSEAKGNFTD  1902

Query  1048  VFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPN--  1104
               Y +N   T +    TY LD V C    P L  YY +   Y+T +PI     + +    
Sbjct  1903  CLYLKNLKQTFSSVLTTYYLDDVKCVAYKPDLSQYYCESGKYYT-KPIIKAQFRTFEKVE  1961

Query  1105  ASFDNFKFVCDNIKFADDLNQLTGYK-KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKK  1163
               + NFK V  +I  A+ LN   G+       E K+T +P   GDVV      Y   +  
Sbjct  1962  GVYTNFKLVGHDI--AEKLNAKLGFDCNSPFMEYKITEWPTATGDVVLASDDLYVSRYSG  2019

Query  1164  GAKLLHKPIVW--HVNNATNKATY--KPNTWCIRCLWSTKPVETSNSFD-----------  1208
             G     KP++W  H   +    TY  +P+  C    ++  PV+ S   D           
Sbjct  2020  GCVTFGKPVIWRGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDRRPVPSAVLVT  2078

Query  1209  ---------VLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVG----  1255
                       + +E     +  AC     V +++V     +  V    VK  ++ G    
Sbjct  2079  GAASGADASAISTEPGTAKEQKACAS-DSVEDQIVMEAQKKSSVTTVAVKEVKLNGVKKP  2137

Query  1256  -----DIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLA  1310
                   +++    +  K+ + +   D+   ++      +   NELSR++   T       
Sbjct  2138  VKWNCSVVVNDPTSETKVVKSLSIVDVYDMFLTGCRYVVWTANELSRLINSPT-------  2190

Query  1311  AVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNR-------------VCTNYMPYFFTL  1357
                      +  Y K  ++K++     ++ R   +              C   + +F   
Sbjct  2191  ---------VREYVKWGMSKLIIPANLLLLRDEKQEFVAPKVVKAKAIACYGAVKWFLLY  2241

Query  1358  LLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLI-----NII  1412
                   F    N+  K    T +A      +     + +         S+         +
Sbjct  2242  CFSWIKF----NTDNKVIYTTEVASKLTFKLCCLAFKNALQTFNWSVVSRGFFLVATVFL  2297

Query  1413  IWF--LLLSVCLGSL---------IYSTAALGVLMSNLGMPSYCTGYRE---GYLNSTNV  1458
             +WF  L  +V L            ++    +  + +  G+ + C  Y+    GY +S   
Sbjct  2298  LWFNFLYANVILSDFYLPNIGPLPMFVGQIVAWVKTTFGVLTICDFYQVTDLGYRSS---  2354

Query  1459  TIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITIS---SFKWDLTAFGLVAEWFLAYIL  1515
                 +C GS+ C +C SG D LD Y S+  +Q  +    SF + ++ F LV E  + Y L
Sbjct  2355  ----FCNGSMVCELCFSGFDMLDNYESINVVQHVVDRRVSFDY-ISLFKLVVELVIGYSL  2409

Query  1516  FTRFFYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQMAPISAMVRMYIFFASFY  1573
             +T  FY L +   MQL  ++    F+  +  W   L + +  M P   ++R YI   + Y
Sbjct  2410  YTVCFYPLFVLVGMQLLTTWLPEFFMLGTMHWSARLFVFVANMLPAFTLLRFYIVVTAMY  2469

Query  1574  YVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWN  1633
              V+    HV+ GC+   C+ CYKRNR+ RV+C+T+V G  R + V ANGG GFC  H WN
Sbjct  2470  KVYCLCRHVMYGCSKPGCLFCYKRNRSVRVKCSTVVGGSLRYYDVMANGGTGFCTKHQWN  2529

Query  1634  CVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQK  1693
             C+NC+++  G+TFI+ E A DLS + KRP+NPTD + Y V  V     S+ L++++ GQ+
Sbjct  2530  CLNCNSWKPGNTFITHEAAADLSKELKRPVNPTDSAYYSVIEVKQVGCSMRLFYERDGQR  2589

Query  1694  TYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILL  1753
              Y+  S S FV+++ L  +  KG    +V+V + ++  +++   +A+V+Y+Q + +P+L+
Sbjct  2590  VYDDVSASLFVDMNGLLHSKVKGVPETHVVVVENEA--DKAGFLNAAVFYAQSLYRPMLM  2647

Query  1754  LDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLS  1813
             +++ L++       V+  MFD YV +     +V  + L + V  A   L + V L+ V+ 
Sbjct  2648  VEKKLITTANTGLSVSRTMFDLYVYSLLRHLDVDRKSLTSFVNAAHNSLKEGVQLEQVMD  2707

Query  1814  TFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGA  1872
             TF+  AR+   +DSDVETK + + +  +  + +EVT +SCNN + TY K + +   DLG 
Sbjct  2708  TFVGCARRKCAIDSDVETKSITKSVMAAVNAGVEVTDESCNNLVPTYVKSDTIVAADLGV  2767

Query  1873  CIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQV  1932
              I  +A+H+ + VAK+ N+A IW+V  F  LS  L+ ++R A  K  L  KLT       
Sbjct  2768  LIQNNAKHVQSNVAKAANVACIWSVDAFNQLSADLQHRLRKACVKTGLKIKLTYNKQEAN  2827

Query  1933  VNVVTTKIALKGG  1945
             V ++TT  +LKGG
Sbjct  2828  VPILTTPFSLKGG  2840


 Score = 197 bits (500),  Expect = 8e-49, Method: Composition-based stats.
 Identities = 68/252 (27%), Positives = 117/252 (46%), Gaps = 18/252 (7%)

Query  215   KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
              +T NV     D+++  ++V   V+VN AN  + HG GVAGA+ KA   A   E+ D + 
Sbjct  1318  CITPNVCFVKGDVIKVLRRVGAEVIVNPANGRMAHGAGVAGAIAKAAGKAFINETADMVK  1377

Query  275   TNGPLKVGGSCVLSGHNLAKHCLHVVGP--NVNKGEDIQLLKSAYENFNQHEVLLAPLLS  332
               G  +VGG    +G  L K  L++VGP    +  E   LL+ AY++ N+ + ++  L+S
Sbjct  1378  AQGVCQVGGCYESTGGKLCKKVLNIVGPDARGHGNECYSLLERAYQHINKCDNVVTTLIS  1437

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   +  V  NV L   +++ +D +       +   K +  ++A+    
Sbjct  1438  AGIFSVPTDVSLTYLLGVVTKNVILVSNNQDDFDVIEKCQVTSVAGTKALSFQLAKNLCR  1497

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
             +VK F+T +  S+          ++        L+E + L  ++ L      ++  N + 
Sbjct  1498  DVK-FVTNACSSLFS--------ESSFVSSYDVLQEVEALRHDIQLDDDARVFVQANMDC  1548

Query  446   HPDSATLVSDID  457
              P    LV+  D
Sbjct  1549  LPTDWRLVNKFD  1560


 Score = 159 bits (402),  Expect = 2e-37, Method: Composition-based stats.
 Identities = 63/233 (27%), Positives = 91/233 (39%), Gaps = 24/233 (10%)

Query  1     APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             A  KV F D   V EV   + + I F LD   D VL++ CS + V+    ++E   VV D
Sbjct  832   AGKKVVFNDKPKVKEVPSTRKIKIIFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLD  891

Query  60    AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEG  116
             AV  TL P  E   + T +   L+       YLFDE GE  +AS MYCSF  PDED    
Sbjct  892   AVESTLSPCKEHGVIGTKVCALLERLVDDYVYLFDEGGEEVIASRMYCSFSAPDED----  947

Query  117   DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
              C   +   + + +               A    +   + QEED +   +++ V   D  
Sbjct  948   -CVATDVVYADENQD------------DDADDPVVLVADTQEEDGV---AREQVDSADSE  991

Query  177   EDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVE  229
                  T  Q + E             +  EV        + +      AD ++
Sbjct  992   ICVAHTGGQEMTEPDVVGSQTPIASAEETEVGEACDREGIAEVKATVCADALD  1044


 Score = 52.9 bits (125),  Expect = 4e-05, Method: Composition-based stats.
 Identities = 46/205 (22%), Positives = 79/205 (39%), Gaps = 23/205 (11%)

Query  785   DVTKIKPHNSHEGKTFYVLPNDDT-LRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQV  843
             D+ K++     E +T    P D T   V AF+  +      L  + +  +    +K    
Sbjct  1054  DIEKVEDSILSELQTELNAPADKTYEDVLAFDAIY---SETLSAFYAVPSDETHFKVC--  1108

Query  844   NGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKT  903
              G  S      NC+L + L+ +Q + L+F    +Q  +   +AG    F   ++    K+
Sbjct  1109  -GFYSPAIERTNCWLRSTLIVMQSLPLEFKDLGMQKLWLSYKAGYDQCFVDKLVKSAPKS  1167

Query  904   VGEL--GDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQF  961
             +     G V +   +        S K   N  C  CG  +  L+G++AV + G       
Sbjct  1168  IILPQGGYVADFAYFFLSQ---CSFKVHANWRCLKCGM-ELKLQGLDAVFFYG-------  1216

Query  962   KKGVQIPCTCGKQATKYLVQQESPF  986
                V   C CG   T  L+  + P+
Sbjct  1217  -DVVSHMCKCGNSMT--LLSADIPY  1238


>sp|P0C6U9|R1A_CVM2 Replicase polyprotein 1a OS=Murine coronavirus 
(strain 2) OX=76344 GN=1a PE=3 SV=1
Length=4416

 Score = 1300 bits (3363),  Expect = 0.0, Method: Composition-based stats.
 Identities = 373/1327 (28%), Positives = 602/1327 (45%), Gaps = 119/1327 (9%)

Query  695   DWSYSGQ-STQLGIEFLKR----GDKSVYYTSNPTTFHLDG--EVITFDNLKTLLSLREV  747
             DW    +  +  G+  +K     G+  V        +  +G  +V +   ++ LL+ +  
Sbjct  1500  DWRLVNKFDSVDGVRTVKYFECPGEIFVSSQGKKFGYVQNGSFKVASVSQIRALLANK--  1557

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
               + V  TVD +N  +  V     +G+  G  + DG +VTK++    H+GK F+      
Sbjct  1558  --VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIHKGKVFFQYSGLS  1615

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQ  867
                + A       D   L +Y + L    KW         + K ++NNCY+  A L LQ 
Sbjct  1616  AADLVAVTDAFGFDEPQLLKYYNMLGMC-KWPVVVCGNYFAFKQSNNNCYINVACLMLQH  1674

Query  868   IELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCK  927
             + LKF+    Q+A+   R+G+   F +L+LA  +    E  D  + M  + + A+L    
Sbjct  1675  LSLKFHKWQWQEAWNEFRSGKPLRFVSLVLAKGSFKFNEPSDSTDFMRVVLREADLSGAT  1734

Query  928   RVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFV  987
                  VCK CG +Q   KGV+AVM+ GTL      KG  I CTCG +   +  Q   PF+
Sbjct  1735  CDFEFVCK-CGVKQEQRKGVDAVMHFGTLDKGDLAKGYTIACTCGNKLV-HCTQLNVPFL  1792

Query  988   MMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITD  1047
             + S  P   +L       A+ +TG    GHY H+  K      D   ++K SE KG  TD
Sbjct  1793  ICSNKPEGKKLPDDV-VAANIFTG-GSLGHYTHVKCKPKYQLYDACNVSKVSEAKGNFTD  1850

Query  1048  VFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYPN--  1104
               Y +N   T + K  T+ LD V C E +P L  YY +   Y+T +PI     + +    
Sbjct  1851  CLYLKNLKQTFSSKLTTFYLDDVKCVEYNPDLSQYYCESGKYYT-KPIIKAQFRTFEKVE  1909

Query  1105  ASFDNFKFVCDNIKFADDLNQLTGYK-KPASRELKVTFFPDLNGDVVAIDYKHYTPSFKK  1163
               + NFK V  +I  A+  N   G+       E K+T +P   GDVV      Y   +  
Sbjct  1910  GVYTNFKLVGHSI--AEKFNAKLGFDCNSPFTEYKITEWPTATGDVVLASDDLYVSRYSG  1967

Query  1164  GAKLLHKPIVW--HVNNATNKATY--KPNTWCIRCLWSTKPVETSNSFD-------VLKS  1212
             G     KP++W  H   +    TY  +P+  C    ++  PV+ S   D       VL +
Sbjct  1968  GCVTFGKPVIWLGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDKGPVPAAVLVT  2026

Query  1213  EDAQGMD---NLACEDLKPVSEEVVEN---------PTIQKDVLECNV----KTTEVVGD  1256
                 G       A E     S+ VV+               DV E  +    K  +V   
Sbjct  2027  GALSGAATAPGTAKEQKVCASDSVVDQVVSGFLSDLSGATVDVKEVKLNGVKKPIKVEDS  2086

Query  1257  IILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVP  1316
             +++    +  K+ + +   D+   ++      +   NELSR++   T             
Sbjct  2087  VVVNDPTSETKVVKSLSIVDVYDMFLTGCRYVVWMANELSRLVNSPT-------------  2133

Query  1317  WDTIANYAKPFLNKVVSTTTNIVTRCLNR-------------VCTNYMPYFFTLLLQLCT  1363
                +  Y K  + K+V     ++ R   +              C + + +FF        
Sbjct  2134  ---VREYVKWGMTKIVIPAKLVLLRDEKQEFVAPKVVKAKVIACYSAVKWFFLYCFSWIK  2190

Query  1364  FTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLI-----NIIIWF--L  1416
             F    N+  K    T +A     ++     + +         S+         ++WF  L
Sbjct  2191  F----NTDNKVIYTTEVASKLTFNLCCLAFKNALQTFNWNVVSRGFFLVATVFLLWFNFL  2246

Query  1417  LLSVCLGSLI---------YSTAALGVLMSNLGMPSYCTGYRE---GYLNSTNVTIATYC  1464
               +V L             +    +  + +  G+ + C  Y+    GY +S       +C
Sbjct  2247  YANVILSDFYLPNIGFFPTFVGQIVAWVKTTFGIFTLCDLYQVSDVGYRSS-------FC  2299

Query  1465  TGSIPCSVCLSGLDSLDTYPSLETIQITIS---SFKWDLTAFGLVAEWFLAYILFTRFFY  1521
              GS+ C +C SG D LD Y ++  +Q  +    SF + ++ F LV E  + Y L+T  FY
Sbjct  2300  NGSMVCELCFSGFDMLDNYDAINVVQHVVDRRVSFDY-ISLFKLVVELVIGYSLYTVCFY  2358

Query  1522  VLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSY  1579
              L     MQL  ++    F+  +  W     + +  M P   ++R YI   + Y ++   
Sbjct  2359  PLFGLIGMQLLTTWLPEFFMLETMHWSARFFVFVANMLPAFTLLRFYIVVTAMYKIFCLC  2418

Query  1580  VHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDT  1639
              HV+ GC+   C+ CYKRNR+ RV+C+T+V G  R + V ANGG GFC  H WNC+NC  
Sbjct  2419  RHVMYGCSRPGCLFCYKRNRSVRVKCSTVVGGTLRYYDVMANGGTGFCAKHQWNCLNCSA  2478

Query  1640  FCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHS  1699
             F  G+TFI+ E A DLS + KRP+NPTD + Y+V  V     S+ L++++ GQ+ Y+  S
Sbjct  2479  FGPGNTFITHEAAADLSKELKRPVNPTDSAYYLVTEVKQVGCSMRLFYERDGQRVYDDVS  2538

Query  1700  LSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALV  1759
              S FV+++ L  +  KG    +V+V + ++  +++   +A+V+Y+Q + +P+LL+++ L+
Sbjct  2539  ASLFVDMNGLLHSKVKGVPETHVVVVENEA--DKAGFLNAAVFYAQSLYRPMLLVEKKLI  2596

Query  1760  SDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAA  1819
             +       V+  MFD YV++     +V  + L + V  A   L + V L+ V+ TFI  A
Sbjct  2597  TTANTGLSVSQTMFDLYVDSLLGVLDVDRKSLTSFVNAAHNSLKEGVQLEQVMDTFIGCA  2656

Query  1820  RQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSA  1878
             R+   +DSDVETK + + +  +  + ++ T +SCNN + TY K + +   DLG  I  +A
Sbjct  2657  RRKCAIDSDVETKSITKSIMSAVNAGVDFTDESCNNLVPTYVKSDTIVAADLGVLIQNNA  2716

Query  1879  RHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTT  1938
             +H+ A VAK+ N+A IW+V  F  LS  L+ ++R A  K  L  KLT       V ++TT
Sbjct  2717  KHVQANVAKAANVACIWSVDAFNQLSADLQHRLRKACSKTGLKIKLTYNKQEANVPILTT  2776

Query  1939  KIALKGG  1945
               +LKGG
Sbjct  2777  PFSLKGG  2783


 Score = 192 bits (488),  Expect = 2e-47, Method: Composition-based stats.
 Identities = 66/252 (26%), Positives = 115/252 (46%), Gaps = 18/252 (7%)

Query  215   KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
              +T NV     D+++  ++V   V+VN AN  + HG GVAGA+ KA   +   E+ D + 
Sbjct  1266  CITPNVCFVKGDVIKVLRRVGAEVIVNPANGRMAHGAGVAGAIAKAAGKSFIKETADMVK  1325

Query  275   TNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKG--EDIQLLKSAYENFNQHEVLLAPLLS  332
               G  +VG     +G NL K  L++VGP+      +    L+ AY++ N+ + ++  L+S
Sbjct  1326  NQGVCQVGECYESTGGNLCKTVLNIVGPDARGHGKQCYSFLERAYQHINKCDDVVTTLIS  1385

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   +  V  NV L   +K+ +D +       +   K +  ++A+    
Sbjct  1386  AGIFSVPTDVSLTYLIGVVTKNVILVSNNKDDFDVIEKCQVTSIAGTKALSLQLAKNLCR  1445

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
             +VK F T +  S+           +C       L+E + L  ++ L      ++  + + 
Sbjct  1446  DVK-FETNACDSLFSD--------SCFVSSYDVLQEVELLRHDIQLDDDARVFVQAHMDN  1496

Query  446   HPDSATLVSDID  457
              P    LV+  D
Sbjct  1497  LPADWRLVNKFD  1508


 Score = 172 bits (435),  Expect = 2e-41, Method: Composition-based stats.
 Identities = 64/242 (26%), Positives = 91/242 (38%), Gaps = 26/242 (11%)

Query  1     APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
             A  KV F D   V E+   + + I F LD   D VL++ CS + V+    ++E   VV D
Sbjct  832   AGKKVEFNDKPKVKEIPSTRKIKINFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLD  891

Query  60    AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEG  116
             AV  TL P  E   + T +   L+  +    YLFDE GE  +A  MYCSF  PD++    
Sbjct  892   AVESTLSPCKEHDVIGTKVCALLNRLAEDYVYLFDEGGEEVIAPKMYCSFSAPDDE----  947

Query  117   DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
             DC   +   + + +    DD                  + QEED +    Q  V + D  
Sbjct  948   DCVAADVVDADENQGDDADDSAAL------------VTDTQEEDGV-AKGQVGVAESDAR  994

Query  177   EDNQTTTIQTIVEVQPQLEMELTPVVQT----IEVNSFSG-YLKLTDNVYIKNADIVEEA  231
              D         VE     E+             +V +F   Y +     Y    D     
Sbjct  995   LDQVEAFDIEKVEDPILNELSAELNAPADKTYEDVLAFDAIYSEALSAFYAVPGDETHFK  1054

Query  232   KK  233
               
Sbjct  1055  VC  1056


 Score = 47.9 bits (112),  Expect = 0.001, Method: Composition-based stats.
 Identities = 45/239 (19%), Positives = 81/239 (34%), Gaps = 28/239 (12%)

Query  756   VDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDT-LRVEAF  814
              D +      V  S     Q      +  D+ K++    +E       P D T   V AF
Sbjct  978   EDGVAKGQVGVAESDARLDQV-----EAFDIEKVEDPILNELSAELNAPADKTYEDVLAF  1032

Query  815   EYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNP  874
             +  +      L  + +       +K     G  S      NC+L + L+ +Q + L+F  
Sbjct  1033  DAIY---SEALSAFYAVPGDETHFKVC---GFYSPAIERTNCWLRSTLIVMQSLPLEFKD  1086

Query  875   PALQDAYYRARAGEAANFCALILAYCNKTVGEL--GDVRETMSYLFQHANLDSCKRVLNV  932
               +Q  +   ++     F   ++    K++     G V +   +        S K   N 
Sbjct  1087  LEMQKLWLSYKSSYNKEFVDKLVKSVPKSIILPQGGYVADFAYFFLSQ---CSFKAYANW  1143

Query  933   VCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSA  991
              C  C      L+G++A+ + G          V   C CG   T  L+  + P+ +   
Sbjct  1144  RCLKCDM-DLKLQGLDAMFFYG--------DVVSHVCKCGTGMT--LLSADIPYTLHFG  1191


>sp|P0C6W7|R1AB_CVBEN Replicase polyprotein 1ab OS=Bovine coronavirus 
(strain 98TXSF-110-ENT) OX=233262 GN=rep PE=3 SV=1
Length=7094

 Score = 1235 bits (3196),  Expect = 0.0, Method: Composition-based stats.
 Identities = 362/1266 (29%), Positives = 603/1266 (48%), Gaps = 78/1266 (6%)

Query  713   GDKSVYYTSNPTTFHLDGEV--ITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSM  770
             G   +        +   G     T   +K L     +  + +  TVD +N   + V +  
Sbjct  1530  GGIDICSQDKVFGYVQQGSFNKATVAQIKALF----LDKVDILLTVDGVNFTNRFVPVGE  1585

Query  771   TYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMS  830
             ++G+  G  + DG +VTK K   +++GK F+   N  +  ++A       D   L  Y +
Sbjct  1586  SFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSEDLKAVRSSFNFDQKELLAYYN  1645

Query  831   ALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAA  890
              L +  KW+        + K A+NNC++  + L LQ + LKF     Q+A+   R+G  A
Sbjct  1646  MLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLNLKFKIVQWQEAWLEFRSGRPA  1705

Query  891   NFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAV  950
              F +L+LA      G+  D R+ +  +F   +L        + CK CG +Q    GV+AV
Sbjct  1706  RFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICDFEIACK-CGVKQEQRTGVDAV  1764

Query  951   MYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYT  1010
             M+ GTLS E  + G  + C+CGK+   + V+ + PF++ S  PA  +L  G  + A+ + 
Sbjct  1765  MHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLICSNTPASVKLPKGVGS-ANIFK  1822

Query  1011  GNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKEN-SYTTTIKPVTYKLDGV  1069
             G+ + GHY H+  +++    D + + K ++  G ++D  Y +N   T      TY LD V
Sbjct  1823  GD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCLYLKNLKQTFKSVLTTYYLDDV  1881

Query  1070  VCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNASFDNFKFVCDNIKFADDLNQLTG  1128
                E +P L  YY     Y+T++ I          +  + NFK +   I   D LN   G
Sbjct  1882  KKIEYNPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGVYTNFKLIGHTI--CDILNAKLG  1939

Query  1129  YKKPA-SRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVW--HVNNATNKATY  1185
             +       E KVT +P   GDVV      Y   +++G     KP++W  H   + N  TY
Sbjct  1940  FDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGCITFGKPVIWLSHEQASLNSLTY  1999

Query  1186  KPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLK-PVSEEVVENPTIQKDVL  1244
                       ++   +   N FDVLK +D     +++  D K      +++   ++K   
Sbjct  2000  ----------FNRPLLVDENKFDVLKVDDVDDGGDISESDAKESKEINIIKLSGVKKPF-  2048

Query  1245  ECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTL  1304
                    +V   +I+    + +K  + +   D+   ++      ++  N LS  + + T+
Sbjct  2049  -------KVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLTGCRYVVRTANALSMAVNVPTI  2101

Query  1305  ---ATHGLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQ  1360
                   G+  V S+P D +     KP  N VV    N ++      C N++ + F LL  
Sbjct  2102  RKFIKFGMTLV-SIPIDLLNLREIKPVFN-VVKAVRNKIS-----ACFNFIKWLFVLLFG  2154

Query  1361  LCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINII--IWFLLL  1418
                 +       K    T +A      +     + +F   K    ++   II  I+ L  
Sbjct  2155  WIKISADN----KVIYTTEVASKLTCKLVALAFKNAFLTFKWSVVARGACIIATIFLLWF  2210

Query  1419  SVCLGSLIYSTAALG--------------VLMSNLGMPSYCTGYREGYLNSTNVTIATYC  1464
             +    ++I+S   L                + S   + + C  Y    +         YC
Sbjct  2211  NFIYANVIFSDFYLPKIGFLPTFVGKIAQWIKSTFSLVTICDLYSIQDVGF----KNQYC  2266

Query  1465  TGSIPCSVCLSGLDSLDTYPSLETIQITISS--FKWDLTAFGLVAEWFLAYILFTRFFYV  1522
              GSI C  CL+G D LD Y +++ +Q       F        +V E  ++Y L+T +FY 
Sbjct  2267  NGSIACQFCLAGFDMLDNYKAIDVVQYEADRRAFVDYTGVLKIVIELIVSYALYTAWFYP  2326

Query  1523  LGLAAIMQLFFSYFAVHFISN--SWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYV  1580
             L     +Q+  ++    F+ +   W + L+++L  M P    +R YI  ASF  ++  + 
Sbjct  2327  LFALISIQILTTWLPELFMLSTLHWSVRLLVSLANMLPAHVFMRFYIIIASFIKLFILFR  2386

Query  1581  HVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTF  1640
             HV  GC+   C+ CYKRNR+ RV+C+TIV G+ R + V ANGG GFC  H WNC++CD++
Sbjct  2387  HVAYGCSKPGCLFCYKRNRSLRVKCSTIVGGMIRYYDVMANGGTGFCSKHQWNCIDCDSY  2446

Query  1641  CAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSL  1700
               G+TFI+ E A DLS + KRPI PTD + + V  V      + L++++ GQ+TY+  + 
Sbjct  2447  KPGNTFITVEAALDLSKELKRPIQPTDVAYHTVTDVKQVGCYMRLFYERDGQRTYDDVNA  2506

Query  1701  SHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVS  1760
             S FV+  NL  +  KG   ++V+V +  +  ++++  +A+V+Y+Q + +PIL++D+ L++
Sbjct  2507  SLFVDYSNLLHSKVKGVPNMHVVVVENDA--DKANFLNAAVFYAQSLFRPILMVDKNLIT  2564

Query  1761  DVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAAR  1820
                    V   MFD YV+TF S F+V  + L  L+ATA + + +   +  VL TF+S AR
Sbjct  2565  TANTGTSVTETMFDVYVDTFLSMFDVDKKSLNALIATAHSSIKQGTQICKVLDTFLSCAR  2624

Query  1821  QGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSAR  1879
             +   +DSDV+TK + + +  +  + +E+T +SCNN + TY K +N+   DLG  I  SA+
Sbjct  2625  KSCSIDSDVDTKCLADSVMSAVSAGLELTDESCNNLVPTYLKGDNIVAADLGVLIQNSAK  2684

Query  1880  HINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTK  1939
             H+   VAK   ++ IW+V  F  LS   + +++ A  K  L  KLT       V+V+TT 
Sbjct  2685  HVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLKKACCKTGLKLKLTYNKQMANVSVLTTP  2744

Query  1940  IALKGG  1945
              +LKGG
Sbjct  2745  FSLKGG  2750


 Score = 200 bits (509),  Expect = 6e-50, Method: Composition-based stats.
 Identities = 59/251 (24%), Positives = 110/251 (44%), Gaps = 17/251 (7%)

Query  215   KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
              +T NV     DI++ +K+VK  VVVN AN ++ HGGGVA A+  A       E+ D + 
Sbjct  1272  CITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVK  1331

Query  275   TNGPLKVGGSCVLSGHNLAKHCLHVVGPNVN--KGEDIQLLKSAYENFNQHEVLLAPLLS  332
             + G    G   V +G  L K  L+VVGP+      +   LL+  Y++ N+++ ++  L+S
Sbjct  1332  SKGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLIS  1391

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   + T    V L   ++  +D +       ++  K++ ++++     
Sbjct  1392  AGIFSVPSDVSLTYLLGTAEKQVVLVSNNQEDFDLISKCQITAVEGTKKLAERLSFNVGR  1451

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
              +      +K  +                    L++   L  ++ L      ++  N ++
Sbjct  1452  SIVYETDANKLILSNDVA--------FVSTFNVLQDVLSLRHDIALDDDARTFVQSNVDV  1503

Query  446   HPDSATLVSDI  456
              P+   +V+  
Sbjct  1504  VPEGWRVVNKF  1514


 Score = 148 bits (373),  Expect = 5e-34, Method: Composition-based stats.
 Identities = 47/183 (26%), Positives = 84/183 (46%), Gaps = 5/183 (3%)

Query  1     APTKVTFGDD-TVIEVQGY-KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVA  58
             A  +VTF +  TV E+    K++ + +ELD+  + +LN  C  + V+   ++ EF  VV 
Sbjct  851   AGRRVTFKEQPTVNEIASTPKTIKVFYELDKDFNTILNTACGVFEVDDTVDMEEFYAVVI  910

Query  59    DAVIKTLQPVSEL---LTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEE  115
             DA+ + L P  EL      +   L +    + +LFDE+GE  LAS +YC+F  P++D+  
Sbjct  911   DAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLFLFDEAGEEVLASKLYCAFTAPEDDDFL  970

Query  116   GDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDG  175
              +   EE +   +    T        +      ++   E+  ++    + S   V +   
Sbjct  971   EESGVEEDDVEGEETDLTVTSAGEPCVASEQEESSEILEDTLDDGPCVETSDSQVEEDVE  1030

Query  176   SED  178
               D
Sbjct  1031  MSD  1033


 Score = 54.0 bits (128),  Expect = 2e-05, Method: Composition-based stats.
 Identities = 41/196 (21%), Positives = 72/196 (37%), Gaps = 22/196 (11%)

Query  839   KYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILA  898
             ++ +V  L   K   NNC+L + L  +Q++  +F    LQD +   +   +  F   ++ 
Sbjct  1057  EFVKVLDLYVPKATRNNCWLRSVLAVMQKLPCQFKDKNLQDLWVLYKQQYSQLFVDTLVN  1116

Query  899   Y--CNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTL  956
                 N  V + G V +   +      L   + V    C  C      LKG++A+ + G  
Sbjct  1117  KIPANIVVPQGGYVADFAYWFL---TLCDWQCVAYWKCIKCDL-ALKLKGLDAMFFYG--  1170

Query  957   SYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCG  1016
                     V   C CG+     L+  + PF       A + LK   F         Y+  
Sbjct  1171  ------DVVSHVCKCGESMV--LIDVDVPFT------AHFALKDKLFCAFITKRSVYKAA  1216

Query  1017  HYKHITSKETLYCIDG  1032
                 +    ++  +DG
Sbjct  1217  CVVDVNDSHSMAVVDG  1232


>sp|P0C6W8|R1AB_CVBLU Replicase polyprotein 1ab OS=Bovine coronavirus 
(strain 98TXSF-110-LUN) OX=233264 GN=rep PE=3 SV=1
Length=7094

 Score = 1234 bits (3193),  Expect = 0.0, Method: Composition-based stats.
 Identities = 362/1266 (29%), Positives = 602/1266 (48%), Gaps = 78/1266 (6%)

Query  713   GDKSVYYTSNPTTFHLDGEV--ITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSM  770
             G   +        +   G     T   +K L     +  + +  TVD +N   + V +  
Sbjct  1530  GGIDICSQDKVFGYVQQGSFNKATVAQIKALF----LDKVDILLTVDGVNFTNRFVPVGE  1585

Query  771   TYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMS  830
              +G+  G  + DG +VTK K   +++GK F+   N  +  ++A       D   L  Y +
Sbjct  1586  NFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSEDLKAVRSSFNFDQKELLAYYN  1645

Query  831   ALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAA  890
              L +  KW+        + K A+NNC++  + L LQ + LKF     Q+A+   R+G  A
Sbjct  1646  MLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLNLKFKIVQWQEAWLEFRSGRPA  1705

Query  891   NFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAV  950
              F +L+LA      G+  D R+ +  +F   +L        + CK CG +Q    GV+AV
Sbjct  1706  RFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICDFEIACK-CGVKQEQRTGVDAV  1764

Query  951   MYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYT  1010
             M+ GTLS E  + G  + C+CGK+   + V+ + PF++ S  PA  +L  G  + A+ + 
Sbjct  1765  MHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLICSNTPASVKLPKGVGS-ANIFK  1822

Query  1011  GNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKEN-SYTTTIKPVTYKLDGV  1069
             G+ + GHY H+  +++    D + + K ++  G ++D  Y +N   T      TY LD V
Sbjct  1823  GD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCLYLKNLKQTFKSVLTTYYLDDV  1881

Query  1070  VCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNASFDNFKFVCDNIKFADDLNQLTG  1128
                E  P L  YY     Y+T++ I          +  + NFK +   I   D LN   G
Sbjct  1882  KKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGVYTNFKLIGHTI--CDILNAKLG  1939

Query  1129  YKKPA-SRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVW--HVNNATNKATY  1185
             +       E KVT +P   GDVV      Y   +++G     KP++W  H   + N  TY
Sbjct  1940  FDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGCITFGKPVIWLSHEQASLNSLTY  1999

Query  1186  KPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLK-PVSEEVVENPTIQKDVL  1244
                       ++   +   N FDVLK +D     +++  D K      +++   ++K   
Sbjct  2000  ----------FNRPLLVDENKFDVLKVDDVDDGGDISESDAKESKEINIIKLSGVKKPF-  2048

Query  1245  ECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTL  1304
                    +V   +I+    + +K  + +   D+   ++      ++  N+LS  + + T+
Sbjct  2049  -------KVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLTGCRYVVRTANDLSMAVNVPTI  2101

Query  1305  ---ATHGLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQ  1360
                   G+  V S+P D +     KP  N VV    N ++      C N++ + F LL  
Sbjct  2102  RKFIKFGMTLV-SIPIDLLNLREIKPVFN-VVKAVRNKIS-----ACFNFIKWLFVLLFG  2154

Query  1361  LCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINII--IWFLLL  1418
                 +       K    T +A      +     + +F   K    ++   II  I+ L  
Sbjct  2155  WIKISADN----KVIYTTEVASKLTCKLVALAFKNAFLTFKWSVVARGACIIATIFLLWF  2210

Query  1419  SVCLGSLIYSTAALG--------------VLMSNLGMPSYCTGYREGYLNSTNVTIATYC  1464
             +    ++I+S   L                + S   + + C  Y    +         YC
Sbjct  2211  NFIYANVIFSDFYLPKIGFLPTFVGKIAQWIKSTFSLVTICDLYSIQDVGF----KNQYC  2266

Query  1465  TGSIPCSVCLSGLDSLDTYPSLETIQITISS--FKWDLTAFGLVAEWFLAYILFTRFFYV  1522
              GSI C  CL+G D LD Y +++ +Q       F        +V E  ++Y L+T +FY 
Sbjct  2267  NGSIACQFCLAGFDMLDNYKAIDVVQYEADRRAFVDYTGVLKIVIELIVSYALYTAWFYP  2326

Query  1523  LGLAAIMQLFFSYFAVHFISN--SWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYV  1580
             L     +Q+  ++    F+ +   W + L+++L  M P    +R YI  ASF  ++  + 
Sbjct  2327  LFALISIQILTTWLPELFMLSTLHWSVRLLVSLANMLPAHVFMRFYIIIASFIKLFSLFR  2386

Query  1581  HVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTF  1640
             HV  GC+   C+ CYKRNR+ RV+C+TIV G+ R + V ANGG GFC  H WNC++CD++
Sbjct  2387  HVAYGCSKPGCLFCYKRNRSLRVKCSTIVGGMIRYYDVMANGGTGFCSKHQWNCIDCDSY  2446

Query  1641  CAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSL  1700
               G+TFI+ E A DLS + KRPI PTD + + V  V      + L++++ GQ+TY+  + 
Sbjct  2447  KPGNTFITVEAALDLSKELKRPIQPTDVAYHTVTDVKQVGCYMRLFYERDGQRTYDDVNA  2506

Query  1701  SHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVS  1760
             S FV+  NL  +  KG   ++V+V +  +  ++++  +A+V+Y+Q + +PIL++D+ L++
Sbjct  2507  SLFVDYSNLLHSKVKGVPNMHVVVVENDA--DKANFLNAAVFYAQSLFRPILMVDKNLIT  2564

Query  1761  DVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAAR  1820
                    V   MFD YV+TF S F+V  + L  L+ATA + + +   +  VL TF+S AR
Sbjct  2565  TANTGTSVTETMFDVYVDTFLSMFDVDKKSLNALIATAHSSIKQGTQICKVLDTFLSCAR  2624

Query  1821  QGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSAR  1879
             +   +DSDV+TK + + +  +  + +E+T +SCNN + TY K +N+   DLG  I  SA+
Sbjct  2625  KSCSIDSDVDTKCLADSVMSAVSAGLELTDESCNNLVPTYLKGDNIVAADLGVLIQNSAK  2684

Query  1880  HINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTK  1939
             H+   VAK   ++ IW+V  F  LS   + +++ A  K  L  KLT       V+V+TT 
Sbjct  2685  HVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLKKACCKTGLKLKLTYNKQMANVSVLTTP  2744

Query  1940  IALKGG  1945
              +LKGG
Sbjct  2745  FSLKGG  2750


 Score = 200 bits (509),  Expect = 7e-50, Method: Composition-based stats.
 Identities = 59/251 (24%), Positives = 110/251 (44%), Gaps = 17/251 (7%)

Query  215   KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
              +T NV     DI++ +K+VK  VVVN AN ++ HGGGVA A+  A       E+ D + 
Sbjct  1272  CITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVK  1331

Query  275   TNGPLKVGGSCVLSGHNLAKHCLHVVGPNVN--KGEDIQLLKSAYENFNQHEVLLAPLLS  332
             + G    G   V +G  L K  L+VVGP+      +   LL+  Y++ N+++ ++  L+S
Sbjct  1332  SKGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLIS  1391

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   + T    V L   ++  +D +       ++  K++ ++++     
Sbjct  1392  AGIFSVPSDVSLTYLLGTAEKQVVLVSNNQEDFDLISKCQITAVEGTKKLAERLSFNVGR  1451

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
              +      +K  +                    L++   L  ++ L      ++  N ++
Sbjct  1452  SIVYETDANKLILSNDVA--------FVSTFNVLQDVLSLRHDIALDDDARTFVQSNVDV  1503

Query  446   HPDSATLVSDI  456
              P+   +V+  
Sbjct  1504  VPEGWRVVNKF  1514


 Score = 148 bits (373),  Expect = 5e-34, Method: Composition-based stats.
 Identities = 47/183 (26%), Positives = 84/183 (46%), Gaps = 5/183 (3%)

Query  1     APTKVTFGDD-TVIEVQGY-KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVA  58
             A  +VTF +  TV E+    K++ + +ELD+  + +LN  C  + V+   ++ EF  VV 
Sbjct  851   AGRRVTFKEQPTVNEIASTPKTIKVFYELDKDFNTILNTACGVFEVDDTVDMEEFYAVVV  910

Query  59    DAVIKTLQPVSEL---LTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEE  115
             DA+ + L P  EL      +   L +    + +LFDE+GE  LAS +YC+F  P++D+  
Sbjct  911   DAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLFLFDEAGEEVLASKLYCAFTAPEDDDFL  970

Query  116   GDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDG  175
              +   EE +   +    T        +      ++   E+  ++    + S   V +   
Sbjct  971   EESGVEEDDVEGEETDLTVTSAGEPCVASEQEESSEILEDTLDDGPCVETSDSQVEEDVE  1030

Query  176   SED  178
               D
Sbjct  1031  MSD  1033


 Score = 54.0 bits (128),  Expect = 2e-05, Method: Composition-based stats.
 Identities = 41/196 (21%), Positives = 72/196 (37%), Gaps = 22/196 (11%)

Query  839   KYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILA  898
             ++ +V  L   K   NNC+L + L  +Q++  +F    LQD +   +   +  F   ++ 
Sbjct  1057  EFVKVLDLYVPKATRNNCWLRSVLAVMQKLPCQFKDKNLQDLWVLYKQQYSQLFVDTLVN  1116

Query  899   Y--CNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTL  956
                 N  V + G V +   +      L   + V    C  C      LKG++A+ + G  
Sbjct  1117  KIPANIVVPQGGYVADFAYWFL---TLCDWQCVAYWKCIKCDL-ALKLKGLDAMFFYG--  1170

Query  957   SYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCG  1016
                     V   C CG+     L+  + PF       A + LK   F         Y+  
Sbjct  1171  ------DVVSHVCKCGESMV--LIDVDVPFT------AHFALKDKLFCAFITKRSVYKAA  1216

Query  1017  HYKHITSKETLYCIDG  1032
                 +    ++  +DG
Sbjct  1217  CVVDVNDSHSMAVVDG  1232


>sp|P0C6T8|R1A_CVBEN Replicase polyprotein 1a OS=Bovine coronavirus 
(strain 98TXSF-110-ENT) OX=233262 GN=1a PE=3 SV=1
Length=4383

 Score = 1234 bits (3192),  Expect = 0.0, Method: Composition-based stats.
 Identities = 362/1266 (29%), Positives = 603/1266 (48%), Gaps = 78/1266 (6%)

Query  713   GDKSVYYTSNPTTFHLDGEV--ITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSM  770
             G   +        +   G     T   +K L     +  + +  TVD +N   + V +  
Sbjct  1530  GGIDICSQDKVFGYVQQGSFNKATVAQIKALF----LDKVDILLTVDGVNFTNRFVPVGE  1585

Query  771   TYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMS  830
             ++G+  G  + DG +VTK K   +++GK F+   N  +  ++A       D   L  Y +
Sbjct  1586  SFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSEDLKAVRSSFNFDQKELLAYYN  1645

Query  831   ALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAA  890
              L +  KW+        + K A+NNC++  + L LQ + LKF     Q+A+   R+G  A
Sbjct  1646  MLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLNLKFKIVQWQEAWLEFRSGRPA  1705

Query  891   NFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAV  950
              F +L+LA      G+  D R+ +  +F   +L        + CK CG +Q    GV+AV
Sbjct  1706  RFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICDFEIACK-CGVKQEQRTGVDAV  1764

Query  951   MYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYT  1010
             M+ GTLS E  + G  + C+CGK+   + V+ + PF++ S  PA  +L  G  + A+ + 
Sbjct  1765  MHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLICSNTPASVKLPKGVGS-ANIFK  1822

Query  1011  GNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKEN-SYTTTIKPVTYKLDGV  1069
             G+ + GHY H+  +++    D + + K ++  G ++D  Y +N   T      TY LD V
Sbjct  1823  GD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCLYLKNLKQTFKSVLTTYYLDDV  1881

Query  1070  VCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNASFDNFKFVCDNIKFADDLNQLTG  1128
                E +P L  YY     Y+T++ I          +  + NFK +   I   D LN   G
Sbjct  1882  KKIEYNPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGVYTNFKLIGHTI--CDILNAKLG  1939

Query  1129  YKKPA-SRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVW--HVNNATNKATY  1185
             +       E KVT +P   GDVV      Y   +++G     KP++W  H   + N  TY
Sbjct  1940  FDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGCITFGKPVIWLSHEQASLNSLTY  1999

Query  1186  KPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLK-PVSEEVVENPTIQKDVL  1244
                       ++   +   N FDVLK +D     +++  D K      +++   ++K   
Sbjct  2000  ----------FNRPLLVDENKFDVLKVDDVDDGGDISESDAKESKEINIIKLSGVKKPF-  2048

Query  1245  ECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTL  1304
                    +V   +I+    + +K  + +   D+   ++      ++  N LS  + + T+
Sbjct  2049  -------KVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLTGCRYVVRTANALSMAVNVPTI  2101

Query  1305  ---ATHGLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQ  1360
                   G+  V S+P D +     KP  N VV    N ++      C N++ + F LL  
Sbjct  2102  RKFIKFGMTLV-SIPIDLLNLREIKPVFN-VVKAVRNKIS-----ACFNFIKWLFVLLFG  2154

Query  1361  LCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINII--IWFLLL  1418
                 +       K    T +A      +     + +F   K    ++   II  I+ L  
Sbjct  2155  WIKISADN----KVIYTTEVASKLTCKLVALAFKNAFLTFKWSVVARGACIIATIFLLWF  2210

Query  1419  SVCLGSLIYSTAALG--------------VLMSNLGMPSYCTGYREGYLNSTNVTIATYC  1464
             +    ++I+S   L                + S   + + C  Y    +         YC
Sbjct  2211  NFIYANVIFSDFYLPKIGFLPTFVGKIAQWIKSTFSLVTICDLYSIQDVGF----KNQYC  2266

Query  1465  TGSIPCSVCLSGLDSLDTYPSLETIQITISS--FKWDLTAFGLVAEWFLAYILFTRFFYV  1522
              GSI C  CL+G D LD Y +++ +Q       F        +V E  ++Y L+T +FY 
Sbjct  2267  NGSIACQFCLAGFDMLDNYKAIDVVQYEADRRAFVDYTGVLKIVIELIVSYALYTAWFYP  2326

Query  1523  LGLAAIMQLFFSYFAVHFISN--SWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYV  1580
             L     +Q+  ++    F+ +   W + L+++L  M P    +R YI  ASF  ++  + 
Sbjct  2327  LFALISIQILTTWLPELFMLSTLHWSVRLLVSLANMLPAHVFMRFYIIIASFIKLFILFR  2386

Query  1581  HVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTF  1640
             HV  GC+   C+ CYKRNR+ RV+C+TIV G+ R + V ANGG GFC  H WNC++CD++
Sbjct  2387  HVAYGCSKPGCLFCYKRNRSLRVKCSTIVGGMIRYYDVMANGGTGFCSKHQWNCIDCDSY  2446

Query  1641  CAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSL  1700
               G+TFI+ E A DLS + KRPI PTD + + V  V      + L++++ GQ+TY+  + 
Sbjct  2447  KPGNTFITVEAALDLSKELKRPIQPTDVAYHTVTDVKQVGCYMRLFYERDGQRTYDDVNA  2506

Query  1701  SHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVS  1760
             S FV+  NL  +  KG   ++V+V +  +  ++++  +A+V+Y+Q + +PIL++D+ L++
Sbjct  2507  SLFVDYSNLLHSKVKGVPNMHVVVVENDA--DKANFLNAAVFYAQSLFRPILMVDKNLIT  2564

Query  1761  DVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAAR  1820
                    V   MFD YV+TF S F+V  + L  L+ATA + + +   +  VL TF+S AR
Sbjct  2565  TANTGTSVTETMFDVYVDTFLSMFDVDKKSLNALIATAHSSIKQGTQICKVLDTFLSCAR  2624

Query  1821  QGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSAR  1879
             +   +DSDV+TK + + +  +  + +E+T +SCNN + TY K +N+   DLG  I  SA+
Sbjct  2625  KSCSIDSDVDTKCLADSVMSAVSAGLELTDESCNNLVPTYLKGDNIVAADLGVLIQNSAK  2684

Query  1880  HINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTK  1939
             H+   VAK   ++ IW+V  F  LS   + +++ A  K  L  KLT       V+V+TT 
Sbjct  2685  HVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLKKACCKTGLKLKLTYNKQMANVSVLTTP  2744

Query  1940  IALKGG  1945
              +LKGG
Sbjct  2745  FSLKGG  2750


 Score = 200 bits (508),  Expect = 7e-50, Method: Composition-based stats.
 Identities = 59/251 (24%), Positives = 110/251 (44%), Gaps = 17/251 (7%)

Query  215   KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
              +T NV     DI++ +K+VK  VVVN AN ++ HGGGVA A+  A       E+ D + 
Sbjct  1272  CITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVK  1331

Query  275   TNGPLKVGGSCVLSGHNLAKHCLHVVGPNVN--KGEDIQLLKSAYENFNQHEVLLAPLLS  332
             + G    G   V +G  L K  L+VVGP+      +   LL+  Y++ N+++ ++  L+S
Sbjct  1332  SKGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLIS  1391

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   + T    V L   ++  +D +       ++  K++ ++++     
Sbjct  1392  AGIFSVPSDVSLTYLLGTAEKQVVLVSNNQEDFDLISKCQITAVEGTKKLAERLSFNVGR  1451

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
              +      +K  +                    L++   L  ++ L      ++  N ++
Sbjct  1452  SIVYETDANKLILSNDVA--------FVSTFNVLQDVLSLRHDIALDDDARTFVQSNVDV  1503

Query  446   HPDSATLVSDI  456
              P+   +V+  
Sbjct  1504  VPEGWRVVNKF  1514


 Score = 148 bits (373),  Expect = 5e-34, Method: Composition-based stats.
 Identities = 47/183 (26%), Positives = 84/183 (46%), Gaps = 5/183 (3%)

Query  1     APTKVTFGDD-TVIEVQGY-KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVA  58
             A  +VTF +  TV E+    K++ + +ELD+  + +LN  C  + V+   ++ EF  VV 
Sbjct  851   AGRRVTFKEQPTVNEIASTPKTIKVFYELDKDFNTILNTACGVFEVDDTVDMEEFYAVVI  910

Query  59    DAVIKTLQPVSEL---LTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEE  115
             DA+ + L P  EL      +   L +    + +LFDE+GE  LAS +YC+F  P++D+  
Sbjct  911   DAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLFLFDEAGEEVLASKLYCAFTAPEDDDFL  970

Query  116   GDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDG  175
              +   EE +   +    T        +      ++   E+  ++    + S   V +   
Sbjct  971   EESGVEEDDVEGEETDLTVTSAGEPCVASEQEESSEILEDTLDDGPCVETSDSQVEEDVE  1030

Query  176   SED  178
               D
Sbjct  1031  MSD  1033


 Score = 54.0 bits (128),  Expect = 2e-05, Method: Composition-based stats.
 Identities = 41/196 (21%), Positives = 72/196 (37%), Gaps = 22/196 (11%)

Query  839   KYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILA  898
             ++ +V  L   K   NNC+L + L  +Q++  +F    LQD +   +   +  F   ++ 
Sbjct  1057  EFVKVLDLYVPKATRNNCWLRSVLAVMQKLPCQFKDKNLQDLWVLYKQQYSQLFVDTLVN  1116

Query  899   Y--CNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTL  956
                 N  V + G V +   +      L   + V    C  C      LKG++A+ + G  
Sbjct  1117  KIPANIVVPQGGYVADFAYWFL---TLCDWQCVAYWKCIKCDL-ALKLKGLDAMFFYG--  1170

Query  957   SYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCG  1016
                     V   C CG+     L+  + PF       A + LK   F         Y+  
Sbjct  1171  ------DVVSHVCKCGESMV--LIDVDVPFT------AHFALKDKLFCAFITKRSVYKAA  1216

Query  1017  HYKHITSKETLYCIDG  1032
                 +    ++  +DG
Sbjct  1217  CVVDVNDSHSMAVVDG  1232


>sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavirus 
HKU1 (isolate N2) OX=443240 GN=rep PE=3 SV=1
Length=7152

 Score = 1233 bits (3190),  Expect = 0.0, Method: Composition-based stats.
 Identities = 364/1290 (28%), Positives = 593/1290 (46%), Gaps = 82/1290 (6%)

Query  694   KDWSYSGQ-STQLGIEFLKR----GDKSVYYTSNPTTFHLDGEV--ITFDNLKTLLSLRE  746
             KDW    +     G++ +K         +        +  DG     T + +  LL+   
Sbjct  1563  KDWRLINKFDVINGVKTVKYFECPNSIYICSQGKDFGYVCDGSFYKATVNQVCVLLA---  1619

Query  747   VRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPND  806
              + I V  TVD +N  +  + +   +G+  G  + DG DVTK+K  + +  K  Y   N 
Sbjct  1620  -KKIDVLLTVDGVNFKSISLTVGEVFGKILGNVFCDGIDVTKLKCSDFYADKILYQYENL  1678

Query  807   DTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQ  866
                 + A +     D   L  Y + L    KW         S + + NNCY+  A L LQ
Sbjct  1679  SLADISAVQSSFGFDQQQLLAYYNFL-TVCKWSVVVNGPFFSFEQSHNNCYVNVACLMLQ  1737

Query  867   QIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSC  926
              I LKFN    Q+A+Y  RAG      AL+LA  +    E  D  + +  + + A+L   
Sbjct  1738  HINLKFNKWQWQEAWYEFRAGRPHRLVALVLAKGHFKFDEPSDATDFIRVVLKQADLSGA  1797

Query  927   KRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPF  986
                L ++C  CG +Q +  GV+AVM+ GTL+      G +I C C  +   +  +   PF
Sbjct  1798  ICELELICD-CGIKQESRVGVDAVMHFGTLAKTDLFNGYKIGCNCAGRIV-HCTKLNVPF  1855

Query  987   VMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPIT  1046
             ++ S  P   +L       A+ + G    GHY H+         D   + K +   G +T
Sbjct  1856  LICSNTPLSKDLPDDV-VAANMFMG-VGVGHYTHLKCGSPYQHYDACSVKKYTGVSGCLT  1913

Query  1047  DVFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP--  1103
             D  Y +N + T T     Y LD V     +P L  YY  +  Y+T +PI     +P+   
Sbjct  1914  DCLYLKNLTQTFTSMLTNYFLDDVEMVAYNPDLSQYYCDNGKYYT-KPIIKAQFKPFAKV  1972

Query  1104  NASFDNFKFVCDNIKFADDLNQLTGYKKP-ASRELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
             +  + NFK V  +I     LN   G+       E KVT +P   GDVV      Y   + 
Sbjct  1973  DGVYTNFKLVGHDI--CAQLNDKLGFNVDLPFVEYKVTVWPVATGDVVLASDDLYVKRYF  2030

Query  1163  KGAKLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDN  1220
             KG +   KP++W  H   + N  TY          ++    ++ N + VL        D+
Sbjct  2031  KGCETFGKPVIWLCHDEASLNSLTY----------FNKPSFKSENRYSVLSV------DS  2074

Query  1221  LACEDLKPVSEEVVENPTIQKDV-LECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMA  1279
             ++ E    V   V+E+    K+V L+   KT ++   II+   N+S+K+ + +   D+  
Sbjct  2075  VSEESQGNVVTSVMESQISTKEVKLKGVRKTVKIEDAIIVNDENSSIKVVKSLSLVDVWD  2134

Query  1280  AYVDNSSLTIKKPNELSRVLGLKTL---ATHGLAAVNSVPWDTIANYAKPFLNKVVSTTT  1336
              Y+      +   NELSR++   T+     +G+  + ++P D +        N+ +    
Sbjct  2135  MYLTGCDYVVWVANELSRLVKSPTVREYIRYGIKPI-TIPIDLLCLRDD---NQTLLVPK  2190

Query  1337  NIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEAS  1396
                 R +      ++ + F  +  L  FT          + +    N         L+ +
Sbjct  2191  IFKARAIE--FYGFLKWLFIYVFSLLHFTNDKTIFYTTEIASKFTFNLFC----LALKNA  2244

Query  1397  FNYLKSPNFSKLIN-----IIIWF--LLLSVCLGSL---------IYSTAALGVLMSNLG  1440
             F   +   F K         + WF  L ++V              I+    +  + +  G
Sbjct  2245  FQTFRWSIFIKGFLVVATVFLFWFNFLYINVIFSDFYLPNISVFPIFVGRIVMWIKATFG  2304

Query  1441  MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKW--  1498
             + + C  Y +  +  T+     +C GS  C +C SG D LDTY +++ +Q  +       
Sbjct  2305  LVTICDFYSKLGVGFTS----HFCNGSFICELCYSGFDMLDTYAAIDFVQYEVDRRVLFD  2360

Query  1499  DLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQM  1556
              ++   L+ E  + Y L+T +FY L     +QLF ++    F+  +  WL+  I+ +  M
Sbjct  2361  YVSLVKLIVELVIGYSLYTVWFYPLFCLIGLQLFTTWLPDLFMLETMHWLIRFIVFVANM  2420

Query  1557  APISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSF  1616
              P   ++R YI   + Y V     H+V GCN + C+ CYKRN + RV+C+TIV GV R +
Sbjct  2421  LPAFVLLRFYIVVTAMYKVVGFIRHIVYGCNKAGCLFCYKRNCSVRVKCSTIVGGVIRYY  2480

Query  1617  YVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSV  1676
              + ANGG GFC  H WNC NC +F  G+TFI+ E A +LS + KRP+NPTD S Y+V  +
Sbjct  2481  DITANGGTGFCVKHQWNCFNCHSFKPGNTFITVEAAIELSKELKRPVNPTDASHYVVTDI  2540

Query  1677  TVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSA  1736
                   + L++D+ GQ+ Y+    S FV+++NL  +  K    + V+V +  +  + ++ 
Sbjct  2541  KQVGCMMRLFYDRDGQRVYDDVDASLFVDINNLLHSKVKVVPNLYVVVVESDA--DRANF  2598

Query  1737  KSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVA  1796
              +A V+Y+Q + +PILL+D+ L++   +   V   MFD YV+TF S F+V  +     V 
Sbjct  2599  LNAVVFYAQSLYRPILLVDKKLITTACNGISVTQTMFDVYVDTFMSHFDVDRKSFNNFVN  2658

Query  1797  TAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNY  1855
              A A L + V L+ VL TF+   R+   +DSDVET+ + + +  +  + +E T ++ NN 
Sbjct  2659  IAHASLREGVQLEKVLDTFVGCVRKCCSIDSDVETRFITKSMISAVAAGLEFTDENYNNL  2718

Query  1856  MLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAA  1915
             + TY K +N+   DLG  I   A+H+   VAK+ NI+ IW +  F  L+  L+ +++ A 
Sbjct  2719  VPTYLKSDNIVAADLGVLIQNGAKHVQGNVAKAANISCIWFIDTFNQLTADLQHKLKKAC  2778

Query  1916  KKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              K  L  KLT       V ++TT  +LKGG
Sbjct  2779  VKTGLKLKLTFNKQEASVPILTTPFSLKGG  2808


 Score = 207 bits (526),  Expect = 7e-52, Method: Composition-based stats.
 Identities = 64/254 (25%), Positives = 107/254 (42%), Gaps = 17/254 (7%)

Query  214   LKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYI  273
             L +T NV     DI+  A+ VK  V+VN AN ++ HGGGVA A+  A       E+   +
Sbjct  1328  LCITPNVCFVKGDIINVARLVKADVIVNPANGHMLHGGGVAKAIAVAAGKKFSKETAAMV  1387

Query  274   ATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKG--EDIQLLKSAYENFNQHEVLLAPLL  331
              + G  +VG   V +G  L K  L++VGP+  +   +   LL  AY++ N ++  L+ L+
Sbjct  1388  KSKGVCQVGDCYVSTGGKLCKTILNIVGPDARQDGRQSYVLLARAYKHLNNYDCCLSTLI  1447

Query  332   SAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPK  390
             SAGIF      SL   +  V   V L   +K  +D +       +   K +  ++     
Sbjct  1448  SAGIFSVPADVSLTYLLGVVDKQVILVSNNKEDFDIIQKCQITSVVGTKALAVRLTANVG  1507

Query  391   EEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLLYIDI------NGN  444
               +K      K  +            C    ++ ++E   L  ++ L  D+         
Sbjct  1508  RVIKFETDAYKLFLSGD--------DCFVSNSSVIQEVLLLRHDIQLNNDVRDYLLSKMT  1559

Query  445   LHPDSATLVSDIDI  458
               P    L++  D+
Sbjct  1560  SLPKDWRLINKFDV  1573


 Score = 147 bits (370),  Expect = 1e-33, Method: Composition-based stats.
 Identities = 47/194 (24%), Positives = 84/194 (43%), Gaps = 6/194 (3%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F +   V+E+    +V + F+LD   D +L + CS + VE G  V++F  VV D
Sbjct  809  AGRKVNFNEKPVVMEIPSLMTVKVMFDLDSTFDDILGKVCSEFEVEKGVTVDDFVAVVCD  868

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEG  116
            A+   L    +   +   +   L++ +    YLFDE+G+  +AS MYC+F   D ++   
Sbjct  869  AIENALNSCKDHPVVGYQVRAFLNKLNENVVYLFDEAGDEAMASRMYCTFAIEDVEDVIS  928

Query  117  DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
                E+          T +D +            +  + + E+    D+  + V   D  
Sbjct  929  SEAVEDTIDGVVE--DTINDDEDVVTGDNDDEDVVTGDNDDEDVVTGDNDDEDVVTGDND  986

Query  177  EDNQTTTIQTIVEV  190
            +++  T      +V
Sbjct  987  DEDVVTGDNDDEDV  1000


 Score = 58.3 bits (139),  Expect = 1e-06, Method: Composition-based stats.
 Identities = 42/197 (21%), Positives = 72/197 (37%), Gaps = 21/197 (11%)

Query  782   DGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYP  841
             D  D   +   +  + ++ Y       L V         D      ++S  +  +   Y 
Sbjct  1064  DNDDQIVVTGDDVDDIESVYDFDTYKALLV-------FNDVYNDALFVSYGSSVETETYF  1116

Query  842   QVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCN  901
             +VNGL S      NC+L + LL +Q++  KF   A+++ +   + G   +F   +L    
Sbjct  1117  KVNGLWSPTITHTNCWLRSVLLVMQKLPFKFKDLAIENMWLSYKVGYNQSFVDYLLTTIP  1176

Query  902   KTVGEL--GDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYE  959
             K +     G V +   +     +        N  C  CG     L G++AV + G +   
Sbjct  1177  KAIVLPQGGYVADFAYWFLNQFD---INAYANWCCLKCGF-SFDLNGLDAVFFYGDI---  1229

Query  960   QFKKGVQIPCTCGKQAT  976
                  V   C CG   T
Sbjct  1230  -----VSHVCKCGHNMT  1241


>sp|P0C6X0|R1AB_CVBQ Replicase polyprotein 1ab OS=Bovine coronavirus 
(strain Quebec) OX=11133 GN=rep PE=3 SV=1
Length=7059

 Score = 1233 bits (3190),  Expect = 0.0, Method: Composition-based stats.
 Identities = 359/1266 (28%), Positives = 602/1266 (48%), Gaps = 78/1266 (6%)

Query  713   GDKSVYYTSNPTTFHLDGEV--ITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSM  770
             G   +        +   G     T   +K L     +  + +  TVD +N   + V +  
Sbjct  1530  GGIDICSQDKVFGYVQQGSFNKATVAQIKALF----LDKVDILLTVDGVNFTNRFVPVGE  1585

Query  771   TYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMS  830
             ++G+  G  + DG +VTK K   +++GK F+   N  +  ++A       D   L  Y +
Sbjct  1586  SFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSEDLKAVRSSFNFDQKELLAYYN  1645

Query  831   ALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAA  890
              L +  KW+        + K A+NNC++  + L LQ + LKF     Q+A+   R+G  A
Sbjct  1646  MLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLNLKFKIVQWQEAWLEFRSGRPA  1705

Query  891   NFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAV  950
              F +L+LA      G+  D R+ +  +F   +L        + CK CG +Q    GV+AV
Sbjct  1706  RFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICDFEIACK-CGVKQEQRTGVDAV  1764

Query  951   MYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYT  1010
             M+ GTLS E  + G  + C+CGK+   + V+ + PF++ S  PA  +L  G  + A+ + 
Sbjct  1765  MHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLICSNTPASVKLPKGVGS-ANIFK  1822

Query  1011  GNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKEN-SYTTTIKPVTYKLDGV  1069
             G+ + GHY H+  +++    D + + K ++  G ++D  Y +N   T      TY LD V
Sbjct  1823  GD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCLYLKNLKQTFKSVLTTYYLDDV  1881

Query  1070  VCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNASFDNFKFVCDNIKFADDLNQLTG  1128
                E  P L  YY     Y+T++ I          +  + NFK +   +   D LN   G
Sbjct  1882  KKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGVYTNFKLIGHTV--CDILNAKLG  1939

Query  1129  YKKPA-SRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVW--HVNNATNKATY  1185
             +       E KVT +P   GDVV      Y   +++G     KP++W  H   + N  TY
Sbjct  1940  FDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGCITFGKPVIWLSHEQASLNSLTY  1999

Query  1186  KPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLK-PVSEEVVENPTIQKDVL  1244
                       ++   +   N FDVLK +D     +++  D K P    +++   ++K   
Sbjct  2000  ----------FNRPLLVDENKFDVLKVDDVDDGGDISESDAKEPKEINIIKLSGVKKPF-  2048

Query  1245  ECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTL  1304
                    +V   +I+    + +K  + +   D+   ++      ++  N LSR + + T+
Sbjct  2049  -------KVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLTGCRCVVRTANALSRAVNVPTI  2101

Query  1305  ---ATHGLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQ  1360
                   G+  V S+P D +     KP  N VV    N ++      C N++ + F LL  
Sbjct  2102  RKFIKFGMTLV-SIPIDLLNLREIKPVFN-VVKAVRNKIS-----ACFNFIKWLFVLLFG  2154

Query  1361  LCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINII--IWFLLL  1418
                 +       K    T +A      +     + +F   K    ++   II  I+ L  
Sbjct  2155  WIKISADN----KVIYTTEVASKLTCKLVALAFKNAFLTFKWSVVARGACIIATIFLLWF  2210

Query  1419  SVCLGSLIY--------------STAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYC  1464
             +    ++I+                  +  + +   + + C  Y    +         YC
Sbjct  2211  NFIYANVIFSDFYLPKIGFLPTFVGKIVQWIKNTFSLVTICDLYSIQDVGF----KNQYC  2266

Query  1465  TGSIPCSVCLSGLDSLDTYPSLETIQITISS--FKWDLTAFGLVAEWFLAYILFTRFFYV  1522
              GSI C  CL+G D LD Y +++ +Q       F        +V E  ++Y L+T +FY 
Sbjct  2267  NGSIACQFCLAGFDMLDNYKAIDVVQYEADRRAFVDYTGVLKIVIELIVSYALYTAWFYP  2326

Query  1523  LGLAAIMQLFFSYFAVHFISN--SWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYV  1580
             L     +Q+  ++     + +   W + L+++L  M P    +R YI  ASF  ++  + 
Sbjct  2327  LFALISIQILTTWLPELLMLSTLHWSVRLLVSLANMLPAHVFMRFYIIIASFIKLFSLFR  2386

Query  1581  HVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTF  1640
             HV  GC+ S C+ CYKRNR+ RV+C+TIV G+ R + V ANGG GFC  H WNC++CD++
Sbjct  2387  HVAYGCSKSGCLFCYKRNRSLRVKCSTIVGGMIRYYDVMANGGTGFCSKHQWNCIDCDSY  2446

Query  1641  CAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSL  1700
               G+TFI+ E A DLS + KRPI PTD + + V  V      + L++D+ GQ+TY+  + 
Sbjct  2447  KPGNTFITVEAALDLSKELKRPIQPTDVAYHTVTDVKQVGCYMRLFYDRDGQRTYDDVNA  2506

Query  1701  SHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVS  1760
             S FV+  NL  +  K    ++V+V +  +  ++++  +A+V+Y+Q + +PIL++D+ L++
Sbjct  2507  SLFVDYSNLLHSKVKSVPNMHVVVVENDA--DKANFLNAAVFYAQSLFRPILMVDKILIT  2564

Query  1761  DVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAAR  1820
                    V   MFD YV+TF S F+V  + L  L+ATA + + +   +  VL TF+S AR
Sbjct  2565  TANTGTSVTETMFDVYVDTFLSMFDVDKKSLNALIATAHSSIKQGTQICKVLDTFLSCAR  2624

Query  1821  QGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSAR  1879
             +   +DSDV+TK + + +  +  + +E+T +SCNN + TY K +N+   DLG  I  SA+
Sbjct  2625  KSCSIDSDVDTKCLADSVMSAVSAGLELTDESCNNLVPTYLKGDNIVAADLGVLIQNSAK  2684

Query  1880  HINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTK  1939
             H+   VAK   ++ IW+V  F  LS   + +++ A  K  L  +LT       V+V+TT 
Sbjct  2685  HVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLKKACCKTGLKLELTYNKQMANVSVLTTP  2744

Query  1940  IALKGG  1945
              +LKGG
Sbjct  2745  FSLKGG  2750


 Score = 201 bits (512),  Expect = 3e-50, Method: Composition-based stats.
 Identities = 59/251 (24%), Positives = 111/251 (44%), Gaps = 17/251 (7%)

Query  215   KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
              +T NV     DI++ +K+VK  VVVN AN ++ HGGGVA A+  A       E+ D + 
Sbjct  1272  CITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVK  1331

Query  275   TNGPLKVGGSCVLSGHNLAKHCLHVVGPNVN--KGEDIQLLKSAYENFNQHEVLLAPLLS  332
             + G    G   V +G  L K  L+VVGP+      +   LL+  Y++ N+++ ++  L+S
Sbjct  1332  SKGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLIS  1391

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   + T +  V L   ++  +D +       ++  K++ ++++     
Sbjct  1392  AGIFSVPSDVSLTYLLGTAKKQVVLVSNNQEDFDLISKCQITAVEGTKKLAERLSFNVGR  1451

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
              +      +K  +                    L++   L  ++ L      ++  N ++
Sbjct  1452  SIVYETDANKLILSNDVA--------FVSTFNVLQDVLSLRHDIALDDDARTFVQSNVDV  1503

Query  446   HPDSATLVSDI  456
              P+   +V+  
Sbjct  1504  VPEGWRVVNKF  1514


 Score = 146 bits (367),  Expect = 2e-33, Method: Composition-based stats.
 Identities = 54/193 (28%), Positives = 86/193 (45%), Gaps = 7/193 (4%)

Query  1     APTKVTFGDD-TVIEVQGY-KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVA  58
             A   VTF +  TV E+    K++ + +ELD+  + +LN  C  + V+   ++ EF  VV 
Sbjct  851   AGRCVTFKEQPTVNEIASTPKTIKVFYELDKDFNTILNTACGEFEVDDTVDMEEFYAVVI  910

Query  59    DAVIKTLQPVSEL---LTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE--  113
             DA+ + L P  EL      +   L +    + +LFDE+GE  LA  +YC+F  P++D+  
Sbjct  911   DAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLFLFDEAGEEVLAPKLYCAFTAPEDDDFL  970

Query  114   EEGDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQ  173
             EE   EE++ E        T         E   +S  L+   +        DSQ     Q
Sbjct  971   EESGVEEDDVEGEETDLTVTSAGEPCVASEQEESSEILEDTLDDGPCVETSDSQVEEDVQ  1030

Query  174   DGSEDNQTTTIQT  186
                  +  + IQ 
Sbjct  1031  MSDFGDLESVIQD  1043


 Score = 54.0 bits (128),  Expect = 2e-05, Method: Composition-based stats.
 Identities = 41/196 (21%), Positives = 72/196 (37%), Gaps = 22/196 (11%)

Query  839   KYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILA  898
             ++ +V  L   K   NNC+L + L  +Q++  +F    LQD +   +   +  F   ++ 
Sbjct  1057  EFVKVLDLYVPKATRNNCWLRSVLAVMQKLPCQFKDKNLQDLWVLYKQQYSQLFVDTLVN  1116

Query  899   Y--CNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTL  956
                 N  V + G V +   +      L   + V    C  C      LKG++A+ + G  
Sbjct  1117  KIPANIVVPQGGYVADFAYWFL---TLCDWQCVAYWKCIKCDL-ALKLKGLDAMFFYG--  1170

Query  957   SYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCG  1016
                     V   C CG+     L+  + PF       A + LK   F         Y+  
Sbjct  1171  ------DVVSHVCKCGESMV--LIDVDVPFT------AHFALKDKLFCAFITKRSVYKAA  1216

Query  1017  HYKHITSKETLYCIDG  1032
                 +    ++  +DG
Sbjct  1217  CVVDVNDSHSMAVVDG  1232


>sp|P0C6W9|R1AB_CVBM Replicase polyprotein 1ab OS=Bovine coronavirus 
(strain Mebus) OX=11132 GN=rep PE=3 SV=1
Length=7094

 Score = 1233 bits (3190),  Expect = 0.0, Method: Composition-based stats.
 Identities = 362/1266 (29%), Positives = 603/1266 (48%), Gaps = 78/1266 (6%)

Query  713   GDKSVYYTSNPTTFHLDGEV--ITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSM  770
             G   +        +   G     T   +K L     +  + +  TVD +N   + V +  
Sbjct  1530  GGIDICSQDKVFGYVQQGSFNKATVAQIKALF----LDKVDILLTVDGVNFTNRFVPVGE  1585

Query  771   TYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMS  830
             ++G+  G  + DG +VTK K   +++GK F+   N  +  ++A       D   L  Y +
Sbjct  1586  SFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSEDLKAVRSSFNFDQKELLAYYN  1645

Query  831   ALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAA  890
              L +  KW+        + K A+NNC++  + L LQ + LKF     Q+A+   R+G  A
Sbjct  1646  MLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLNLKFKIVQWQEAWLEFRSGRPA  1705

Query  891   NFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAV  950
              F +L+LA      G+  D R+ +  +F   +L        + CK CG +Q    GV+AV
Sbjct  1706  RFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICDFEIACK-CGVKQEQRTGVDAV  1764

Query  951   MYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYT  1010
             M+ GTLS E  + G  + C+CGK+   + V+ + PF++ S  PA  +L  G  + A+ + 
Sbjct  1765  MHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLICSNTPASVKLPKGVGS-ANIFK  1822

Query  1011  GNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKEN-SYTTTIKPVTYKLDGV  1069
             G+ + GHY H+  +++    D + + K ++  G ++D  Y +N   T      TY LD V
Sbjct  1823  GD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCLYLKNLKQTFKSVLTTYYLDDV  1881

Query  1070  VCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNASFDNFKFVCDNIKFADDLNQLTG  1128
                E  P L  YY     Y+T++ I          +  + NFK +   +   D LN   G
Sbjct  1882  KKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGVYTNFKLIGHTV--CDILNAKLG  1939

Query  1129  YKKPA-SRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVW--HVNNATNKATY  1185
             +       E KVT +P   GDVV      Y   +++G     KP++W  H   + N  TY
Sbjct  1940  FDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGCITFGKPVIWLSHEQASLNSLTY  1999

Query  1186  KPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLK-PVSEEVVENPTIQKDVL  1244
                       ++   +   N FDVLK +D     +++  D K P    +++   ++K   
Sbjct  2000  ----------FNRPLLVDENKFDVLKVDDVDDGGDISESDAKEPKEINIIKLSGVKKPF-  2048

Query  1245  ECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTL  1304
                    +V   +I+    + +K  + +   D+   ++      ++  N LSR + + T+
Sbjct  2049  -------KVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLTGCRCVVRTANALSRAVNVPTI  2101

Query  1305  ---ATHGLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQ  1360
                   G+  V S+P D +     KP  N VV    N ++      C N++ + F LL  
Sbjct  2102  RKFIKFGMTLV-SIPIDLLNLREIKPVFN-VVKAVRNKIS-----ACFNFIKWLFVLLFG  2154

Query  1361  LCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINII--IWFLLL  1418
                 +       K    T +A      +     + +F   K    ++   II  I+ L  
Sbjct  2155  WIKISADN----KVIYTTEVASKLTCKLVALAFKNAFLTFKWSVVARGACIIATIFLLWF  2210

Query  1419  SVCLGSLIYSTAALG--------------VLMSNLGMPSYCTGYREGYLNSTNVTIATYC  1464
             +    ++I+S   L                + +   + + C  Y    +         YC
Sbjct  2211  NFIYANVIFSDFYLPKIGFLPTFVGKIAQWIKNTFSLVTICDLYSIQDVGF----KNQYC  2266

Query  1465  TGSIPCSVCLSGLDSLDTYPSLETIQITISS--FKWDLTAFGLVAEWFLAYILFTRFFYV  1522
              GSI C  CL+G D LD Y +++ +Q       F        +V E  ++Y L+T +FY 
Sbjct  2267  NGSIACQFCLAGFDMLDNYKAIDVVQYEADRRAFVDYTGVLKIVIELIVSYALYTAWFYP  2326

Query  1523  LGLAAIMQLFFSYFAVHFISN--SWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYV  1580
             L     +Q+  ++    F+ +   W + L+++L  M P    +R YI  ASF  ++  + 
Sbjct  2327  LFALISIQILTTWLPELFMLSTLHWSVRLLVSLANMLPAHVFMRFYIIIASFIKLFSLFR  2386

Query  1581  HVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTF  1640
             HV  GC+ S C+ CYKRNR+ RV+C+TIV G+ R +   ANGG GFC  H WNC++CD++
Sbjct  2387  HVAYGCSKSGCLFCYKRNRSLRVKCSTIVGGMIRYYDAMANGGTGFCSKHQWNCIDCDSY  2446

Query  1641  CAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSL  1700
               G+TFI+ E A DLS + KRPI PTD + + V  V      + L++D+ GQ+TY+  + 
Sbjct  2447  KPGNTFITVEAALDLSKELKRPIQPTDVAYHTVTDVKQVGCYMRLFYDRDGQRTYDDVNA  2506

Query  1701  SHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVS  1760
             S FV+  NL  +  K    ++V+V +  +  ++++  +A+V+Y+Q + +PIL++D+ L++
Sbjct  2507  SLFVDYSNLLHSKVKSVPNMHVVVVENDA--DKANFLNAAVFYAQSLFRPILMVDKNLIT  2564

Query  1761  DVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAAR  1820
                    V   MFD YV+TF S F+V  + L  L+ATA + + +   +  VL TF+S AR
Sbjct  2565  TANTGTSVTETMFDVYVDTFLSMFDVDKKSLNALIATAHSSIKQGTQICKVLDTFLSCAR  2624

Query  1821  QGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSAR  1879
             +   +DSDV+TK + + +  +  + +E+T +SCNN + TY K +N+   DLG  I  SA+
Sbjct  2625  KSCSIDSDVDTKCLADSVMSAVSAGLELTDESCNNLVPTYLKGDNIVAADLGVLIQNSAK  2684

Query  1880  HINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTK  1939
             H+   VAK   ++ IW+V  F  LS   + +++ A  K  L  KLT       V+V+TT 
Sbjct  2685  HVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLKKACCKTGLKLKLTYNKQMANVSVLTTP  2744

Query  1940  IALKGG  1945
              +LKGG
Sbjct  2745  FSLKGG  2750


 Score = 201 bits (511),  Expect = 4e-50, Method: Composition-based stats.
 Identities = 59/251 (24%), Positives = 111/251 (44%), Gaps = 17/251 (7%)

Query  215   KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
              +T NV     DI++ +K+VK  VVVN AN ++ HGGGVA A+  A       E+ D + 
Sbjct  1272  CITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVK  1331

Query  275   TNGPLKVGGSCVLSGHNLAKHCLHVVGPNVN--KGEDIQLLKSAYENFNQHEVLLAPLLS  332
             + G    G   V +G  L K  L+VVGP+      +   LL+  Y++ N+++ ++  L+S
Sbjct  1332  SKGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLIS  1391

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   + T +  V L   ++  +D +       ++  K++ ++++     
Sbjct  1392  AGIFSVPSDVSLTYLLGTAKKQVVLVSNNQEDFDLISKCQITAVEGTKKLAERLSFNVGR  1451

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
              +      +K  +                    L++   L  ++ L      ++  N ++
Sbjct  1452  SIVYETDANKLILSNDVA--------FVSTFNVLQDVLSLRHDIALDDDARTFVQSNVDV  1503

Query  446   HPDSATLVSDI  456
              P+   +V+  
Sbjct  1504  VPEGWRVVNKF  1514


 Score = 145 bits (365),  Expect = 4e-33, Method: Composition-based stats.
 Identities = 46/183 (25%), Positives = 82/183 (45%), Gaps = 5/183 (3%)

Query  1     APTKVTFGDD-TVIEVQGY-KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVA  58
             A   VTF +  TV E+    K++ + +ELD+  + +LN  C  + V+   ++ EF  VV 
Sbjct  851   AGRCVTFKEQPTVNEIASTPKTIKVFYELDKDFNTILNTACGVFEVDDTVDMEEFYAVVI  910

Query  59    DAVIKTLQPVSEL---LTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEE  115
             DA+ + L P  EL      +   L +    + +LFDE+GE  LA  +YC+F  P++D+  
Sbjct  911   DAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLFLFDEAGEEVLAPKLYCAFTAPEDDDFL  970

Query  116   GDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDG  175
              +   EE +   +    T        +      ++   E+  ++    + S   V +   
Sbjct  971   EESGVEEDDVEGEETDLTVTSAGEPCVASEQEESSEILEDTLDDGPCVETSDSQVEEDVQ  1030

Query  176   SED  178
               D
Sbjct  1031  MSD  1033


 Score = 54.0 bits (128),  Expect = 2e-05, Method: Composition-based stats.
 Identities = 41/196 (21%), Positives = 72/196 (37%), Gaps = 22/196 (11%)

Query  839   KYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILA  898
             ++ +V  L   K   NNC+L + L  +Q++  +F    LQD +   +   +  F   ++ 
Sbjct  1057  EFVKVLDLYVPKATRNNCWLRSVLAVMQKLPCQFKDKNLQDLWVLYKQQYSQLFVDTLVN  1116

Query  899   Y--CNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTL  956
                 N  V + G V +   +      L   + V    C  C      LKG++A+ + G  
Sbjct  1117  KIPANIVVPQGGYVADFAYWFL---TLCDWQCVAYWKCIKCDL-ALKLKGLDAMFFYG--  1170

Query  957   SYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCG  1016
                     V   C CG+     L+  + PF       A + LK   F         Y+  
Sbjct  1171  ------DVVSHVCKCGESMV--LIDVDVPFT------AHFALKDKLFCAFITKRSVYKAA  1216

Query  1017  HYKHITSKETLYCIDG  1032
                 +    ++  +DG
Sbjct  1217  CVVDVNDSHSMAVVDG  1232


>sp|P0C6T9|R1A_CVBLU Replicase polyprotein 1a OS=Bovine coronavirus 
(strain 98TXSF-110-LUN) OX=233264 GN=1a PE=3 SV=1
Length=4383

 Score = 1233 bits (3189),  Expect = 0.0, Method: Composition-based stats.
 Identities = 362/1266 (29%), Positives = 602/1266 (48%), Gaps = 78/1266 (6%)

Query  713   GDKSVYYTSNPTTFHLDGEV--ITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSM  770
             G   +        +   G     T   +K L     +  + +  TVD +N   + V +  
Sbjct  1530  GGIDICSQDKVFGYVQQGSFNKATVAQIKALF----LDKVDILLTVDGVNFTNRFVPVGE  1585

Query  771   TYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMS  830
              +G+  G  + DG +VTK K   +++GK F+   N  +  ++A       D   L  Y +
Sbjct  1586  NFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSEDLKAVRSSFNFDQKELLAYYN  1645

Query  831   ALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAA  890
              L +  KW+        + K A+NNC++  + L LQ + LKF     Q+A+   R+G  A
Sbjct  1646  MLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLNLKFKIVQWQEAWLEFRSGRPA  1705

Query  891   NFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAV  950
              F +L+LA      G+  D R+ +  +F   +L        + CK CG +Q    GV+AV
Sbjct  1706  RFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICDFEIACK-CGVKQEQRTGVDAV  1764

Query  951   MYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYT  1010
             M+ GTLS E  + G  + C+CGK+   + V+ + PF++ S  PA  +L  G  + A+ + 
Sbjct  1765  MHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLICSNTPASVKLPKGVGS-ANIFK  1822

Query  1011  GNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKEN-SYTTTIKPVTYKLDGV  1069
             G+ + GHY H+  +++    D + + K ++  G ++D  Y +N   T      TY LD V
Sbjct  1823  GD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCLYLKNLKQTFKSVLTTYYLDDV  1881

Query  1070  VCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNASFDNFKFVCDNIKFADDLNQLTG  1128
                E  P L  YY     Y+T++ I          +  + NFK +   I   D LN   G
Sbjct  1882  KKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGVYTNFKLIGHTI--CDILNAKLG  1939

Query  1129  YKKPA-SRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVW--HVNNATNKATY  1185
             +       E KVT +P   GDVV      Y   +++G     KP++W  H   + N  TY
Sbjct  1940  FDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGCITFGKPVIWLSHEQASLNSLTY  1999

Query  1186  KPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLK-PVSEEVVENPTIQKDVL  1244
                       ++   +   N FDVLK +D     +++  D K      +++   ++K   
Sbjct  2000  ----------FNRPLLVDENKFDVLKVDDVDDGGDISESDAKESKEINIIKLSGVKKPF-  2048

Query  1245  ECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTL  1304
                    +V   +I+    + +K  + +   D+   ++      ++  N+LS  + + T+
Sbjct  2049  -------KVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLTGCRYVVRTANDLSMAVNVPTI  2101

Query  1305  ---ATHGLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQ  1360
                   G+  V S+P D +     KP  N VV    N ++      C N++ + F LL  
Sbjct  2102  RKFIKFGMTLV-SIPIDLLNLREIKPVFN-VVKAVRNKIS-----ACFNFIKWLFVLLFG  2154

Query  1361  LCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINII--IWFLLL  1418
                 +       K    T +A      +     + +F   K    ++   II  I+ L  
Sbjct  2155  WIKISADN----KVIYTTEVASKLTCKLVALAFKNAFLTFKWSVVARGACIIATIFLLWF  2210

Query  1419  SVCLGSLIYSTAALG--------------VLMSNLGMPSYCTGYREGYLNSTNVTIATYC  1464
             +    ++I+S   L                + S   + + C  Y    +         YC
Sbjct  2211  NFIYANVIFSDFYLPKIGFLPTFVGKIAQWIKSTFSLVTICDLYSIQDVGF----KNQYC  2266

Query  1465  TGSIPCSVCLSGLDSLDTYPSLETIQITISS--FKWDLTAFGLVAEWFLAYILFTRFFYV  1522
              GSI C  CL+G D LD Y +++ +Q       F        +V E  ++Y L+T +FY 
Sbjct  2267  NGSIACQFCLAGFDMLDNYKAIDVVQYEADRRAFVDYTGVLKIVIELIVSYALYTAWFYP  2326

Query  1523  LGLAAIMQLFFSYFAVHFISN--SWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYV  1580
             L     +Q+  ++    F+ +   W + L+++L  M P    +R YI  ASF  ++  + 
Sbjct  2327  LFALISIQILTTWLPELFMLSTLHWSVRLLVSLANMLPAHVFMRFYIIIASFIKLFSLFR  2386

Query  1581  HVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTF  1640
             HV  GC+   C+ CYKRNR+ RV+C+TIV G+ R + V ANGG GFC  H WNC++CD++
Sbjct  2387  HVAYGCSKPGCLFCYKRNRSLRVKCSTIVGGMIRYYDVMANGGTGFCSKHQWNCIDCDSY  2446

Query  1641  CAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSL  1700
               G+TFI+ E A DLS + KRPI PTD + + V  V      + L++++ GQ+TY+  + 
Sbjct  2447  KPGNTFITVEAALDLSKELKRPIQPTDVAYHTVTDVKQVGCYMRLFYERDGQRTYDDVNA  2506

Query  1701  SHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVS  1760
             S FV+  NL  +  KG   ++V+V +  +  ++++  +A+V+Y+Q + +PIL++D+ L++
Sbjct  2507  SLFVDYSNLLHSKVKGVPNMHVVVVENDA--DKANFLNAAVFYAQSLFRPILMVDKNLIT  2564

Query  1761  DVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAAR  1820
                    V   MFD YV+TF S F+V  + L  L+ATA + + +   +  VL TF+S AR
Sbjct  2565  TANTGTSVTETMFDVYVDTFLSMFDVDKKSLNALIATAHSSIKQGTQICKVLDTFLSCAR  2624

Query  1821  QGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSAR  1879
             +   +DSDV+TK + + +  +  + +E+T +SCNN + TY K +N+   DLG  I  SA+
Sbjct  2625  KSCSIDSDVDTKCLADSVMSAVSAGLELTDESCNNLVPTYLKGDNIVAADLGVLIQNSAK  2684

Query  1880  HINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTK  1939
             H+   VAK   ++ IW+V  F  LS   + +++ A  K  L  KLT       V+V+TT 
Sbjct  2685  HVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLKKACCKTGLKLKLTYNKQMANVSVLTTP  2744

Query  1940  IALKGG  1945
              +LKGG
Sbjct  2745  FSLKGG  2750


 Score = 200 bits (508),  Expect = 8e-50, Method: Composition-based stats.
 Identities = 59/251 (24%), Positives = 110/251 (44%), Gaps = 17/251 (7%)

Query  215   KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
              +T NV     DI++ +K+VK  VVVN AN ++ HGGGVA A+  A       E+ D + 
Sbjct  1272  CITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVK  1331

Query  275   TNGPLKVGGSCVLSGHNLAKHCLHVVGPNVN--KGEDIQLLKSAYENFNQHEVLLAPLLS  332
             + G    G   V +G  L K  L+VVGP+      +   LL+  Y++ N+++ ++  L+S
Sbjct  1332  SKGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLIS  1391

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   + T    V L   ++  +D +       ++  K++ ++++     
Sbjct  1392  AGIFSVPSDVSLTYLLGTAEKQVVLVSNNQEDFDLISKCQITAVEGTKKLAERLSFNVGR  1451

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
              +      +K  +                    L++   L  ++ L      ++  N ++
Sbjct  1452  SIVYETDANKLILSNDVA--------FVSTFNVLQDVLSLRHDIALDDDARTFVQSNVDV  1503

Query  446   HPDSATLVSDI  456
              P+   +V+  
Sbjct  1504  VPEGWRVVNKF  1514


 Score = 148 bits (372),  Expect = 6e-34, Method: Composition-based stats.
 Identities = 47/183 (26%), Positives = 84/183 (46%), Gaps = 5/183 (3%)

Query  1     APTKVTFGDD-TVIEVQGY-KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVA  58
             A  +VTF +  TV E+    K++ + +ELD+  + +LN  C  + V+   ++ EF  VV 
Sbjct  851   AGRRVTFKEQPTVNEIASTPKTIKVFYELDKDFNTILNTACGVFEVDDTVDMEEFYAVVV  910

Query  59    DAVIKTLQPVSEL---LTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEE  115
             DA+ + L P  EL      +   L +    + +LFDE+GE  LAS +YC+F  P++D+  
Sbjct  911   DAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLFLFDEAGEEVLASKLYCAFTAPEDDDFL  970

Query  116   GDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDG  175
              +   EE +   +    T        +      ++   E+  ++    + S   V +   
Sbjct  971   EESGVEEDDVEGEETDLTVTSAGEPCVASEQEESSEILEDTLDDGPCVETSDSQVEEDVE  1030

Query  176   SED  178
               D
Sbjct  1031  MSD  1033


 Score = 54.0 bits (128),  Expect = 2e-05, Method: Composition-based stats.
 Identities = 41/196 (21%), Positives = 72/196 (37%), Gaps = 22/196 (11%)

Query  839   KYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILA  898
             ++ +V  L   K   NNC+L + L  +Q++  +F    LQD +   +   +  F   ++ 
Sbjct  1057  EFVKVLDLYVPKATRNNCWLRSVLAVMQKLPCQFKDKNLQDLWVLYKQQYSQLFVDTLVN  1116

Query  899   Y--CNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTL  956
                 N  V + G V +   +      L   + V    C  C      LKG++A+ + G  
Sbjct  1117  KIPANIVVPQGGYVADFAYWFL---TLCDWQCVAYWKCIKCDL-ALKLKGLDAMFFYG--  1170

Query  957   SYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCG  1016
                     V   C CG+     L+  + PF       A + LK   F         Y+  
Sbjct  1171  ------DVVSHVCKCGESMV--LIDVDVPFT------AHFALKDKLFCAFITKRSVYKAA  1216

Query  1017  HYKHITSKETLYCIDG  1032
                 +    ++  +DG
Sbjct  1217  CVVDVNDSHSMAVVDG  1232


>sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavirus 
HKU1 (isolate N1) OX=443239 GN=rep PE=3 SV=1
Length=7182

 Score = 1232 bits (3188),  Expect = 0.0, Method: Composition-based stats.
 Identities = 364/1290 (28%), Positives = 593/1290 (46%), Gaps = 82/1290 (6%)

Query  694   KDWSYSGQ-STQLGIEFLKR----GDKSVYYTSNPTTFHLDGEV--ITFDNLKTLLSLRE  746
             KDW    +     G++ +K         +        +  DG     T + +  LL+   
Sbjct  1593  KDWRLINKFDVINGVKTVKYFECPNSIYICSQGKDFGYVCDGSFYKATVNQVCVLLA---  1649

Query  747   VRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPND  806
              + I V  TVD +N  +  + +   +G+  G  + DG DVTK+K  + +  K  Y   N 
Sbjct  1650  -KKIDVLLTVDGVNFKSISLTVGEVFGKILGNVFCDGIDVTKLKCSDFYADKILYQYENL  1708

Query  807   DTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQ  866
                 + A +     D   L  Y + L    KW         S + + NNCY+  A L LQ
Sbjct  1709  SLADISAVQSSFGFDQQQLLAYYNFL-TVCKWSVVVNGPFFSFEQSHNNCYVNVACLMLQ  1767

Query  867   QIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSC  926
              I LKFN    Q+A+Y  RAG      AL+LA  +    E  D  + +  + + A+L   
Sbjct  1768  HINLKFNKWQWQEAWYEFRAGRPHRLVALVLAKGHFKFDEPSDATDFIRVVLKQADLSGA  1827

Query  927   KRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPF  986
                L ++C  CG +Q +  GV+AVM+ GTL+      G +I C C  +   +  +   PF
Sbjct  1828  ICELELICD-CGIKQESRVGVDAVMHFGTLAKTDLFNGYKIGCNCAGRIV-HCTKLNVPF  1885

Query  987   VMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPIT  1046
             ++ S  P   +L       A+ + G    GHY H+         D   + K +   G +T
Sbjct  1886  LICSNTPLSKDLPDDV-VAANMFMG-VGVGHYTHLKCGSPYQHYDACSVKKYTGVSGCLT  1943

Query  1047  DVFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP--  1103
             D  Y +N + T T     Y LD V     +P L  YY  +  Y+T +PI     +P+   
Sbjct  1944  DCLYLKNLTQTFTSMLTNYFLDDVEMVAYNPDLSQYYCDNGKYYT-KPIIKAQFKPFAKV  2002

Query  1104  NASFDNFKFVCDNIKFADDLNQLTGYKKP-ASRELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
             +  + NFK V  +I     LN   G+       E KVT +P   GDVV      Y   + 
Sbjct  2003  DGVYTNFKLVGHDI--CAQLNDKLGFNVDLPFVEYKVTVWPVATGDVVLASDDLYVKRYF  2060

Query  1163  KGAKLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDN  1220
             KG +   KP++W  H   + N  TY          ++    ++ N + VL        D+
Sbjct  2061  KGCETFGKPVIWFCHDEASLNSLTY----------FNKPSFKSENRYSVLSV------DS  2104

Query  1221  LACEDLKPVSEEVVENPTIQKDV-LECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMA  1279
             ++ E    V   V+E+    K+V L+   KT ++   II+   N+S+K+ + +   D+  
Sbjct  2105  VSEESQGNVVTSVMESQISTKEVKLKGVRKTVKIEDAIIVNDENSSIKVVKSLSLVDVWD  2164

Query  1280  AYVDNSSLTIKKPNELSRVLGLKTL---ATHGLAAVNSVPWDTIANYAKPFLNKVVSTTT  1336
              Y+      +   NELSR++   T+     +G+  + ++P D +        N+ +    
Sbjct  2165  MYLTGCDYVVWVANELSRLVKSPTVREYIRYGIKPI-TIPIDLLCLRDD---NQTLLVPK  2220

Query  1337  NIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEAS  1396
                 R +      ++ + F  +  L  FT          + +    N         L+ +
Sbjct  2221  IFKARAIE--FYGFLKWLFIYVFSLLHFTNDKTIFYTTEIASKFTFNLFC----LALKNA  2274

Query  1397  FNYLKSPNFSKLIN-----IIIWF--LLLSVCLGSL---------IYSTAALGVLMSNLG  1440
             F   +   F K         + WF  L ++V              I+    +  + +  G
Sbjct  2275  FQTFRWSIFIKGFLVVATVFLFWFNFLYINVIFSDFYLPNISVFPIFVGRIVMWIKATFG  2334

Query  1441  MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKW--  1498
             + + C  Y +  +  T+     +C GS  C +C SG D LDTY +++ +Q  +       
Sbjct  2335  LVTICDFYSKLGVGFTS----HFCNGSFICELCHSGFDMLDTYAAIDFVQYEVDRRVLFD  2390

Query  1499  DLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQM  1556
              ++   L+ E  + Y L+T +FY L     +QLF ++    F+  +  WL+  I+ +  M
Sbjct  2391  YVSLVKLIVELVIGYSLYTVWFYPLFCLIGLQLFTTWLPDLFMLETMHWLIRFIVFVANM  2450

Query  1557  APISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSF  1616
              P   ++R YI   + Y V     H+V GCN + C+ CYKRN + RV+C+TIV GV R +
Sbjct  2451  LPAFVLLRFYIVVTAMYKVVGFIRHIVYGCNKAGCLFCYKRNCSVRVKCSTIVGGVIRYY  2510

Query  1617  YVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSV  1676
              + ANGG GFC  H WNC NC +F  G+TFI+ E A +LS + KRP+NPTD S Y+V  +
Sbjct  2511  DITANGGTGFCVKHQWNCFNCHSFKPGNTFITVEAAIELSKELKRPVNPTDASHYVVTDI  2570

Query  1677  TVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSA  1736
                   + L++D+ GQ+ Y+    S FV+++NL  +  K    + V+V +  +  + ++ 
Sbjct  2571  KQVGCMMRLFYDRDGQRVYDDVDASLFVDINNLLHSKVKVVPNLYVVVVESDA--DRANF  2628

Query  1737  KSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVA  1796
              +A V+Y+Q + +PILL+D+ L++   +   V   MFD YV+TF S F+V  +     V 
Sbjct  2629  LNAVVFYAQSLYRPILLVDKKLITTACNGISVTQTMFDVYVDTFMSHFDVDRKSFNNFVN  2688

Query  1797  TAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNY  1855
              A A L + V L+ VL TF+   R+   +DSDVET+ + + +  +  + +E T ++ NN 
Sbjct  2689  IAHASLREGVQLEKVLDTFVGCVRKCCSIDSDVETRFITKSMISAVAAGLEFTDENYNNL  2748

Query  1856  MLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAA  1915
             + TY K +N+   DLG  I   A+H+   VAK+ NI+ IW +  F  L+  L+ +++ A 
Sbjct  2749  VPTYLKSDNIVAADLGVLIQNGAKHVQGNVAKAANISCIWFIDAFNQLTADLQHKLKKAC  2808

Query  1916  KKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              K  L  KLT       V ++TT  +LKGG
Sbjct  2809  VKTGLKLKLTFNKQEASVPILTTPFSLKGG  2838


 Score = 207 bits (526),  Expect = 6e-52, Method: Composition-based stats.
 Identities = 66/265 (25%), Positives = 111/265 (42%), Gaps = 18/265 (7%)

Query  203   QTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATN  262
              + E+    G L +T NV     DI+  A+ VK  V+VN AN ++ HGGGVA A+  A  
Sbjct  1348  SSFELPQLYG-LCITPNVCFVKGDIINVARLVKADVIVNPANGHMLHGGGVAKAIAVAAG  1406

Query  263   NAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKG--EDIQLLKSAYENF  320
                  E+   + + G  +VG   V +G  L K  L++VGP+  +   +   LL  AY++ 
Sbjct  1407  KKFSKETAAMVKSKGVCQVGDCYVSTGGKLCKTILNIVGPDARQDGRQSYVLLARAYKHL  1466

Query  321   NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEK  379
             N ++  L+ L+SAGIF      SL   +  V   V L   +K  +D +       +   K
Sbjct  1467  NNYDCCLSTLISAGIFSVPADVSLTYLLGVVDKQVILVSNNKEDFDIIQKCQITSVVGTK  1526

Query  380   QVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLLYI  439
              +  ++       +K      K  +            C    ++ ++E   L  ++ L  
Sbjct  1527  ALAVRLTANVGRVIKFETDAYKLFLSGD--------DCFVSNSSVIQEVLLLRHDIQLNN  1578

Query  440   DI------NGNLHPDSATLVSDIDI  458
             D+           P    L++  D+
Sbjct  1579  DVRDYLLSKMTSLPKDWRLINKFDV  1603


 Score = 147 bits (370),  Expect = 1e-33, Method: Composition-based stats.
 Identities = 48/194 (25%), Positives = 84/194 (43%), Gaps = 6/194 (3%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F +   V+E+    +V + F+LD   D +L + CS + VE G  V++F  VV D
Sbjct  809  AGRKVNFNEKPVVMEIPSLMTVKVMFDLDSTFDDILGKVCSEFEVEKGVTVDDFVAVVCD  868

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEG  116
            A+   L    E   +   +   L++ +    YLFDE+G+  +AS MYC+F   D ++   
Sbjct  869  AIENALNSCKEHPVVGYQVRAFLNKLNENVVYLFDEAGDEAMASRMYCTFAIEDVEDVIS  928

Query  117  DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
                E+          T +D +            +  + + E+    D+  + V   D  
Sbjct  929  SEAVEDTIDGVVE--DTINDDEDVVTGDNDDEDVVTGDNDDEDVVTGDNDDEDVVTGDND  986

Query  177  EDNQTTTIQTIVEV  190
            +++  T      +V
Sbjct  987  DEDVVTGDNDDEDV  1000


 Score = 56.7 bits (135),  Expect = 3e-06, Method: Composition-based stats.
 Identities = 41/197 (21%), Positives = 72/197 (37%), Gaps = 21/197 (11%)

Query  782   DGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYP  841
             D  D   +   +  + ++ Y       L V         D      ++S  +  +   Y 
Sbjct  1094  DNDDQIVVTGDDVDDIESIYDFDTYKALLV-------FNDVYNDALFVSYGSSVETETYF  1146

Query  842   QVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCN  901
             +VNGL S      NC+L + LL +Q++  KF   A+++ +   + G   +F   +L    
Sbjct  1147  KVNGLWSPTITHTNCWLRSVLLVMQKLPFKFKDLAIENMWLSYKVGYNQSFVDYLLTTIP  1206

Query  902   KTVGEL--GDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYE  959
             K +     G V +   +     +        N  C  CG     L G++A+ + G +   
Sbjct  1207  KAIVLPQGGFVADFAYWFLNQFD---INAYANWCCLKCGF-SFDLNGLDALFFYGDI---  1259

Query  960   QFKKGVQIPCTCGKQAT  976
                  V   C CG   T
Sbjct  1260  -----VSHVCKCGHNMT  1271


>sp|P0C6U4|R1A_CVHN2 Replicase polyprotein 1a OS=Human coronavirus 
HKU1 (isolate N2) OX=443240 GN=1a PE=3 SV=1
Length=4441

 Score = 1231 bits (3186),  Expect = 0.0, Method: Composition-based stats.
 Identities = 364/1290 (28%), Positives = 593/1290 (46%), Gaps = 82/1290 (6%)

Query  694   KDWSYSGQ-STQLGIEFLKR----GDKSVYYTSNPTTFHLDGEV--ITFDNLKTLLSLRE  746
             KDW    +     G++ +K         +        +  DG     T + +  LL+   
Sbjct  1563  KDWRLINKFDVINGVKTVKYFECPNSIYICSQGKDFGYVCDGSFYKATVNQVCVLLA---  1619

Query  747   VRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPND  806
              + I V  TVD +N  +  + +   +G+  G  + DG DVTK+K  + +  K  Y   N 
Sbjct  1620  -KKIDVLLTVDGVNFKSISLTVGEVFGKILGNVFCDGIDVTKLKCSDFYADKILYQYENL  1678

Query  807   DTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQ  866
                 + A +     D   L  Y + L    KW         S + + NNCY+  A L LQ
Sbjct  1679  SLADISAVQSSFGFDQQQLLAYYNFL-TVCKWSVVVNGPFFSFEQSHNNCYVNVACLMLQ  1737

Query  867   QIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSC  926
              I LKFN    Q+A+Y  RAG      AL+LA  +    E  D  + +  + + A+L   
Sbjct  1738  HINLKFNKWQWQEAWYEFRAGRPHRLVALVLAKGHFKFDEPSDATDFIRVVLKQADLSGA  1797

Query  927   KRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPF  986
                L ++C  CG +Q +  GV+AVM+ GTL+      G +I C C  +   +  +   PF
Sbjct  1798  ICELELICD-CGIKQESRVGVDAVMHFGTLAKTDLFNGYKIGCNCAGRIV-HCTKLNVPF  1855

Query  987   VMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPIT  1046
             ++ S  P   +L       A+ + G    GHY H+         D   + K +   G +T
Sbjct  1856  LICSNTPLSKDLPDDV-VAANMFMG-VGVGHYTHLKCGSPYQHYDACSVKKYTGVSGCLT  1913

Query  1047  DVFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP--  1103
             D  Y +N + T T     Y LD V     +P L  YY  +  Y+T +PI     +P+   
Sbjct  1914  DCLYLKNLTQTFTSMLTNYFLDDVEMVAYNPDLSQYYCDNGKYYT-KPIIKAQFKPFAKV  1972

Query  1104  NASFDNFKFVCDNIKFADDLNQLTGYKKP-ASRELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
             +  + NFK V  +I     LN   G+       E KVT +P   GDVV      Y   + 
Sbjct  1973  DGVYTNFKLVGHDI--CAQLNDKLGFNVDLPFVEYKVTVWPVATGDVVLASDDLYVKRYF  2030

Query  1163  KGAKLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDN  1220
             KG +   KP++W  H   + N  TY          ++    ++ N + VL        D+
Sbjct  2031  KGCETFGKPVIWLCHDEASLNSLTY----------FNKPSFKSENRYSVLSV------DS  2074

Query  1221  LACEDLKPVSEEVVENPTIQKDV-LECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMA  1279
             ++ E    V   V+E+    K+V L+   KT ++   II+   N+S+K+ + +   D+  
Sbjct  2075  VSEESQGNVVTSVMESQISTKEVKLKGVRKTVKIEDAIIVNDENSSIKVVKSLSLVDVWD  2134

Query  1280  AYVDNSSLTIKKPNELSRVLGLKTL---ATHGLAAVNSVPWDTIANYAKPFLNKVVSTTT  1336
              Y+      +   NELSR++   T+     +G+  + ++P D +        N+ +    
Sbjct  2135  MYLTGCDYVVWVANELSRLVKSPTVREYIRYGIKPI-TIPIDLLCLRDD---NQTLLVPK  2190

Query  1337  NIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEAS  1396
                 R +      ++ + F  +  L  FT          + +    N         L+ +
Sbjct  2191  IFKARAIE--FYGFLKWLFIYVFSLLHFTNDKTIFYTTEIASKFTFNLFC----LALKNA  2244

Query  1397  FNYLKSPNFSKLIN-----IIIWF--LLLSVCLGSL---------IYSTAALGVLMSNLG  1440
             F   +   F K         + WF  L ++V              I+    +  + +  G
Sbjct  2245  FQTFRWSIFIKGFLVVATVFLFWFNFLYINVIFSDFYLPNISVFPIFVGRIVMWIKATFG  2304

Query  1441  MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKW--  1498
             + + C  Y +  +  T+     +C GS  C +C SG D LDTY +++ +Q  +       
Sbjct  2305  LVTICDFYSKLGVGFTS----HFCNGSFICELCYSGFDMLDTYAAIDFVQYEVDRRVLFD  2360

Query  1499  DLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQM  1556
              ++   L+ E  + Y L+T +FY L     +QLF ++    F+  +  WL+  I+ +  M
Sbjct  2361  YVSLVKLIVELVIGYSLYTVWFYPLFCLIGLQLFTTWLPDLFMLETMHWLIRFIVFVANM  2420

Query  1557  APISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSF  1616
              P   ++R YI   + Y V     H+V GCN + C+ CYKRN + RV+C+TIV GV R +
Sbjct  2421  LPAFVLLRFYIVVTAMYKVVGFIRHIVYGCNKAGCLFCYKRNCSVRVKCSTIVGGVIRYY  2480

Query  1617  YVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSV  1676
              + ANGG GFC  H WNC NC +F  G+TFI+ E A +LS + KRP+NPTD S Y+V  +
Sbjct  2481  DITANGGTGFCVKHQWNCFNCHSFKPGNTFITVEAAIELSKELKRPVNPTDASHYVVTDI  2540

Query  1677  TVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSA  1736
                   + L++D+ GQ+ Y+    S FV+++NL  +  K    + V+V +  +  + ++ 
Sbjct  2541  KQVGCMMRLFYDRDGQRVYDDVDASLFVDINNLLHSKVKVVPNLYVVVVESDA--DRANF  2598

Query  1737  KSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVA  1796
              +A V+Y+Q + +PILL+D+ L++   +   V   MFD YV+TF S F+V  +     V 
Sbjct  2599  LNAVVFYAQSLYRPILLVDKKLITTACNGISVTQTMFDVYVDTFMSHFDVDRKSFNNFVN  2658

Query  1797  TAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNY  1855
              A A L + V L+ VL TF+   R+   +DSDVET+ + + +  +  + +E T ++ NN 
Sbjct  2659  IAHASLREGVQLEKVLDTFVGCVRKCCSIDSDVETRFITKSMISAVAAGLEFTDENYNNL  2718

Query  1856  MLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAA  1915
             + TY K +N+   DLG  I   A+H+   VAK+ NI+ IW +  F  L+  L+ +++ A 
Sbjct  2719  VPTYLKSDNIVAADLGVLIQNGAKHVQGNVAKAANISCIWFIDTFNQLTADLQHKLKKAC  2778

Query  1916  KKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              K  L  KLT       V ++TT  +LKGG
Sbjct  2779  VKTGLKLKLTFNKQEASVPILTTPFSLKGG  2808


 Score = 206 bits (525),  Expect = 9e-52, Method: Composition-based stats.
 Identities = 64/254 (25%), Positives = 107/254 (42%), Gaps = 17/254 (7%)

Query  214   LKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYI  273
             L +T NV     DI+  A+ VK  V+VN AN ++ HGGGVA A+  A       E+   +
Sbjct  1328  LCITPNVCFVKGDIINVARLVKADVIVNPANGHMLHGGGVAKAIAVAAGKKFSKETAAMV  1387

Query  274   ATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKG--EDIQLLKSAYENFNQHEVLLAPLL  331
              + G  +VG   V +G  L K  L++VGP+  +   +   LL  AY++ N ++  L+ L+
Sbjct  1388  KSKGVCQVGDCYVSTGGKLCKTILNIVGPDARQDGRQSYVLLARAYKHLNNYDCCLSTLI  1447

Query  332   SAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPK  390
             SAGIF      SL   +  V   V L   +K  +D +       +   K +  ++     
Sbjct  1448  SAGIFSVPADVSLTYLLGVVDKQVILVSNNKEDFDIIQKCQITSVVGTKALAVRLTANVG  1507

Query  391   EEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLLYIDI------NGN  444
               +K      K  +            C    ++ ++E   L  ++ L  D+         
Sbjct  1508  RVIKFETDAYKLFLSGD--------DCFVSNSSVIQEVLLLRHDIQLNNDVRDYLLSKMT  1559

Query  445   LHPDSATLVSDIDI  458
               P    L++  D+
Sbjct  1560  SLPKDWRLINKFDV  1573


 Score = 146 bits (369),  Expect = 1e-33, Method: Composition-based stats.
 Identities = 47/194 (24%), Positives = 84/194 (43%), Gaps = 6/194 (3%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F +   V+E+    +V + F+LD   D +L + CS + VE G  V++F  VV D
Sbjct  809  AGRKVNFNEKPVVMEIPSLMTVKVMFDLDSTFDDILGKVCSEFEVEKGVTVDDFVAVVCD  868

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEG  116
            A+   L    +   +   +   L++ +    YLFDE+G+  +AS MYC+F   D ++   
Sbjct  869  AIENALNSCKDHPVVGYQVRAFLNKLNENVVYLFDEAGDEAMASRMYCTFAIEDVEDVIS  928

Query  117  DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
                E+          T +D +            +  + + E+    D+  + V   D  
Sbjct  929  SEAVEDTIDGVVE--DTINDDEDVVTGDNDDEDVVTGDNDDEDVVTGDNDDEDVVTGDND  986

Query  177  EDNQTTTIQTIVEV  190
            +++  T      +V
Sbjct  987  DEDVVTGDNDDEDV  1000


 Score = 58.3 bits (139),  Expect = 1e-06, Method: Composition-based stats.
 Identities = 42/197 (21%), Positives = 72/197 (37%), Gaps = 21/197 (11%)

Query  782   DGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYP  841
             D  D   +   +  + ++ Y       L V         D      ++S  +  +   Y 
Sbjct  1064  DNDDQIVVTGDDVDDIESVYDFDTYKALLV-------FNDVYNDALFVSYGSSVETETYF  1116

Query  842   QVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCN  901
             +VNGL S      NC+L + LL +Q++  KF   A+++ +   + G   +F   +L    
Sbjct  1117  KVNGLWSPTITHTNCWLRSVLLVMQKLPFKFKDLAIENMWLSYKVGYNQSFVDYLLTTIP  1176

Query  902   KTVGEL--GDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYE  959
             K +     G V +   +     +        N  C  CG     L G++AV + G +   
Sbjct  1177  KAIVLPQGGYVADFAYWFLNQFD---INAYANWCCLKCGF-SFDLNGLDAVFFYGDI---  1229

Query  960   QFKKGVQIPCTCGKQAT  976
                  V   C CG   T
Sbjct  1230  -----VSHVCKCGHNMT  1241


>sp|P0C6U0|R1A_CVBM Replicase polyprotein 1a OS=Bovine coronavirus 
(strain Mebus) OX=11132 GN=1a PE=3 SV=1
Length=4383

 Score = 1231 bits (3186),  Expect = 0.0, Method: Composition-based stats.
 Identities = 362/1266 (29%), Positives = 603/1266 (48%), Gaps = 78/1266 (6%)

Query  713   GDKSVYYTSNPTTFHLDGEV--ITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSM  770
             G   +        +   G     T   +K L     +  + +  TVD +N   + V +  
Sbjct  1530  GGIDICSQDKVFGYVQQGSFNKATVAQIKALF----LDKVDILLTVDGVNFTNRFVPVGE  1585

Query  771   TYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMS  830
             ++G+  G  + DG +VTK K   +++GK F+   N  +  ++A       D   L  Y +
Sbjct  1586  SFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSEDLKAVRSSFNFDQKELLAYYN  1645

Query  831   ALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAA  890
              L +  KW+        + K A+NNC++  + L LQ + LKF     Q+A+   R+G  A
Sbjct  1646  MLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLNLKFKIVQWQEAWLEFRSGRPA  1705

Query  891   NFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAV  950
              F +L+LA      G+  D R+ +  +F   +L        + CK CG +Q    GV+AV
Sbjct  1706  RFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICDFEIACK-CGVKQEQRTGVDAV  1764

Query  951   MYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYT  1010
             M+ GTLS E  + G  + C+CGK+   + V+ + PF++ S  PA  +L  G  + A+ + 
Sbjct  1765  MHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLICSNTPASVKLPKGVGS-ANIFK  1822

Query  1011  GNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKEN-SYTTTIKPVTYKLDGV  1069
             G+ + GHY H+  +++    D + + K ++  G ++D  Y +N   T      TY LD V
Sbjct  1823  GD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCLYLKNLKQTFKSVLTTYYLDDV  1881

Query  1070  VCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNASFDNFKFVCDNIKFADDLNQLTG  1128
                E  P L  YY     Y+T++ I          +  + NFK +   +   D LN   G
Sbjct  1882  KKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGVYTNFKLIGHTV--CDILNAKLG  1939

Query  1129  YKKPA-SRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVW--HVNNATNKATY  1185
             +       E KVT +P   GDVV      Y   +++G     KP++W  H   + N  TY
Sbjct  1940  FDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGCITFGKPVIWLSHEQASLNSLTY  1999

Query  1186  KPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLK-PVSEEVVENPTIQKDVL  1244
                       ++   +   N FDVLK +D     +++  D K P    +++   ++K   
Sbjct  2000  ----------FNRPLLVDENKFDVLKVDDVDDGGDISESDAKEPKEINIIKLSGVKKPF-  2048

Query  1245  ECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTL  1304
                    +V   +I+    + +K  + +   D+   ++      ++  N LSR + + T+
Sbjct  2049  -------KVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLTGCRCVVRTANALSRAVNVPTI  2101

Query  1305  ---ATHGLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQ  1360
                   G+  V S+P D +     KP  N VV    N ++      C N++ + F LL  
Sbjct  2102  RKFIKFGMTLV-SIPIDLLNLREIKPVFN-VVKAVRNKIS-----ACFNFIKWLFVLLFG  2154

Query  1361  LCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINII--IWFLLL  1418
                 +       K    T +A      +     + +F   K    ++   II  I+ L  
Sbjct  2155  WIKISADN----KVIYTTEVASKLTCKLVALAFKNAFLTFKWSVVARGACIIATIFLLWF  2210

Query  1419  SVCLGSLIYSTAALG--------------VLMSNLGMPSYCTGYREGYLNSTNVTIATYC  1464
             +    ++I+S   L                + +   + + C  Y    +         YC
Sbjct  2211  NFIYANVIFSDFYLPKIGFLPTFVGKIAQWIKNTFSLVTICDLYSIQDVGF----KNQYC  2266

Query  1465  TGSIPCSVCLSGLDSLDTYPSLETIQITISS--FKWDLTAFGLVAEWFLAYILFTRFFYV  1522
              GSI C  CL+G D LD Y +++ +Q       F        +V E  ++Y L+T +FY 
Sbjct  2267  NGSIACQFCLAGFDMLDNYKAIDVVQYEADRRAFVDYTGVLKIVIELIVSYALYTAWFYP  2326

Query  1523  LGLAAIMQLFFSYFAVHFISN--SWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYV  1580
             L     +Q+  ++    F+ +   W + L+++L  M P    +R YI  ASF  ++  + 
Sbjct  2327  LFALISIQILTTWLPELFMLSTLHWSVRLLVSLANMLPAHVFMRFYIIIASFIKLFSLFR  2386

Query  1581  HVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTF  1640
             HV  GC+ S C+ CYKRNR+ RV+C+TIV G+ R +   ANGG GFC  H WNC++CD++
Sbjct  2387  HVAYGCSKSGCLFCYKRNRSLRVKCSTIVGGMIRYYDAMANGGTGFCSKHQWNCIDCDSY  2446

Query  1641  CAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSL  1700
               G+TFI+ E A DLS + KRPI PTD + + V  V      + L++D+ GQ+TY+  + 
Sbjct  2447  KPGNTFITVEAALDLSKELKRPIQPTDVAYHTVTDVKQVGCYMRLFYDRDGQRTYDDVNA  2506

Query  1701  SHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVS  1760
             S FV+  NL  +  K    ++V+V +  +  ++++  +A+V+Y+Q + +PIL++D+ L++
Sbjct  2507  SLFVDYSNLLHSKVKSVPNMHVVVVENDA--DKANFLNAAVFYAQSLFRPILMVDKNLIT  2564

Query  1761  DVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAAR  1820
                    V   MFD YV+TF S F+V  + L  L+ATA + + +   +  VL TF+S AR
Sbjct  2565  TANTGTSVTETMFDVYVDTFLSMFDVDKKSLNALIATAHSSIKQGTQICKVLDTFLSCAR  2624

Query  1821  QGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSAR  1879
             +   +DSDV+TK + + +  +  + +E+T +SCNN + TY K +N+   DLG  I  SA+
Sbjct  2625  KSCSIDSDVDTKCLADSVMSAVSAGLELTDESCNNLVPTYLKGDNIVAADLGVLIQNSAK  2684

Query  1880  HINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTK  1939
             H+   VAK   ++ IW+V  F  LS   + +++ A  K  L  KLT       V+V+TT 
Sbjct  2685  HVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLKKACCKTGLKLKLTYNKQMANVSVLTTP  2744

Query  1940  IALKGG  1945
              +LKGG
Sbjct  2745  FSLKGG  2750


 Score = 201 bits (510),  Expect = 4e-50, Method: Composition-based stats.
 Identities = 59/251 (24%), Positives = 111/251 (44%), Gaps = 17/251 (7%)

Query  215   KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
              +T NV     DI++ +K+VK  VVVN AN ++ HGGGVA A+  A       E+ D + 
Sbjct  1272  CITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVK  1331

Query  275   TNGPLKVGGSCVLSGHNLAKHCLHVVGPNVN--KGEDIQLLKSAYENFNQHEVLLAPLLS  332
             + G    G   V +G  L K  L+VVGP+      +   LL+  Y++ N+++ ++  L+S
Sbjct  1332  SKGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLIS  1391

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   + T +  V L   ++  +D +       ++  K++ ++++     
Sbjct  1392  AGIFSVPSDVSLTYLLGTAKKQVVLVSNNQEDFDLISKCQITAVEGTKKLAERLSFNVGR  1451

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
              +      +K  +                    L++   L  ++ L      ++  N ++
Sbjct  1452  SIVYETDANKLILSNDVA--------FVSTFNVLQDVLSLRHDIALDDDARTFVQSNVDV  1503

Query  446   HPDSATLVSDI  456
              P+   +V+  
Sbjct  1504  VPEGWRVVNKF  1514


 Score = 144 bits (364),  Expect = 5e-33, Method: Composition-based stats.
 Identities = 46/183 (25%), Positives = 82/183 (45%), Gaps = 5/183 (3%)

Query  1     APTKVTFGDD-TVIEVQGY-KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVA  58
             A   VTF +  TV E+    K++ + +ELD+  + +LN  C  + V+   ++ EF  VV 
Sbjct  851   AGRCVTFKEQPTVNEIASTPKTIKVFYELDKDFNTILNTACGVFEVDDTVDMEEFYAVVI  910

Query  59    DAVIKTLQPVSEL---LTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEE  115
             DA+ + L P  EL      +   L +    + +LFDE+GE  LA  +YC+F  P++D+  
Sbjct  911   DAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLFLFDEAGEEVLAPKLYCAFTAPEDDDFL  970

Query  116   GDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDG  175
              +   EE +   +    T        +      ++   E+  ++    + S   V +   
Sbjct  971   EESGVEEDDVEGEETDLTVTSAGEPCVASEQEESSEILEDTLDDGPCVETSDSQVEEDVQ  1030

Query  176   SED  178
               D
Sbjct  1031  MSD  1033


 Score = 54.0 bits (128),  Expect = 2e-05, Method: Composition-based stats.
 Identities = 41/196 (21%), Positives = 72/196 (37%), Gaps = 22/196 (11%)

Query  839   KYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILA  898
             ++ +V  L   K   NNC+L + L  +Q++  +F    LQD +   +   +  F   ++ 
Sbjct  1057  EFVKVLDLYVPKATRNNCWLRSVLAVMQKLPCQFKDKNLQDLWVLYKQQYSQLFVDTLVN  1116

Query  899   Y--CNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTL  956
                 N  V + G V +   +      L   + V    C  C      LKG++A+ + G  
Sbjct  1117  KIPANIVVPQGGYVADFAYWFL---TLCDWQCVAYWKCIKCDL-ALKLKGLDAMFFYG--  1170

Query  957   SYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCG  1016
                     V   C CG+     L+  + PF       A + LK   F         Y+  
Sbjct  1171  ------DVVSHVCKCGESMV--LIDVDVPFT------AHFALKDKLFCAFITKRSVYKAA  1216

Query  1017  HYKHITSKETLYCIDG  1032
                 +    ++  +DG
Sbjct  1217  CVVDVNDSHSMAVVDG  1232


>sp|P0C6U1|R1A_CVBQ Replicase polyprotein 1a OS=Bovine coronavirus 
(strain Quebec) OX=11133 GN=1a PE=3 SV=1
Length=4383

 Score = 1231 bits (3184),  Expect = 0.0, Method: Composition-based stats.
 Identities = 359/1266 (28%), Positives = 602/1266 (48%), Gaps = 78/1266 (6%)

Query  713   GDKSVYYTSNPTTFHLDGEV--ITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSM  770
             G   +        +   G     T   +K L     +  + +  TVD +N   + V +  
Sbjct  1530  GGIDICSQDKVFGYVQQGSFNKATVAQIKALF----LDKVDILLTVDGVNFTNRFVPVGE  1585

Query  771   TYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMS  830
             ++G+  G  + DG +VTK K   +++GK F+   N  +  ++A       D   L  Y +
Sbjct  1586  SFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSEDLKAVRSSFNFDQKELLAYYN  1645

Query  831   ALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAA  890
              L +  KW+        + K A+NNC++  + L LQ + LKF     Q+A+   R+G  A
Sbjct  1646  MLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLNLKFKIVQWQEAWLEFRSGRPA  1705

Query  891   NFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAV  950
              F +L+LA      G+  D R+ +  +F   +L        + CK CG +Q    GV+AV
Sbjct  1706  RFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICDFEIACK-CGVKQEQRTGVDAV  1764

Query  951   MYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYT  1010
             M+ GTLS E  + G  + C+CGK+   + V+ + PF++ S  PA  +L  G  + A+ + 
Sbjct  1765  MHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLICSNTPASVKLPKGVGS-ANIFK  1822

Query  1011  GNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKEN-SYTTTIKPVTYKLDGV  1069
             G+ + GHY H+  +++    D + + K ++  G ++D  Y +N   T      TY LD V
Sbjct  1823  GD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCLYLKNLKQTFKSVLTTYYLDDV  1881

Query  1070  VCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNASFDNFKFVCDNIKFADDLNQLTG  1128
                E  P L  YY     Y+T++ I          +  + NFK +   +   D LN   G
Sbjct  1882  KKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGVYTNFKLIGHTV--CDILNAKLG  1939

Query  1129  YKKPA-SRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVW--HVNNATNKATY  1185
             +       E KVT +P   GDVV      Y   +++G     KP++W  H   + N  TY
Sbjct  1940  FDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGCITFGKPVIWLSHEQASLNSLTY  1999

Query  1186  KPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLK-PVSEEVVENPTIQKDVL  1244
                       ++   +   N FDVLK +D     +++  D K P    +++   ++K   
Sbjct  2000  ----------FNRPLLVDENKFDVLKVDDVDDGGDISESDAKEPKEINIIKLSGVKKPF-  2048

Query  1245  ECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTL  1304
                    +V   +I+    + +K  + +   D+   ++      ++  N LSR + + T+
Sbjct  2049  -------KVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLTGCRCVVRTANALSRAVNVPTI  2101

Query  1305  ---ATHGLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQ  1360
                   G+  V S+P D +     KP  N VV    N ++      C N++ + F LL  
Sbjct  2102  RKFIKFGMTLV-SIPIDLLNLREIKPVFN-VVKAVRNKIS-----ACFNFIKWLFVLLFG  2154

Query  1361  LCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINII--IWFLLL  1418
                 +       K    T +A      +     + +F   K    ++   II  I+ L  
Sbjct  2155  WIKISADN----KVIYTTEVASKLTCKLVALAFKNAFLTFKWSVVARGACIIATIFLLWF  2210

Query  1419  SVCLGSLIY--------------STAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYC  1464
             +    ++I+                  +  + +   + + C  Y    +         YC
Sbjct  2211  NFIYANVIFSDFYLPKIGFLPTFVGKIVQWIKNTFSLVTICDLYSIQDVGF----KNQYC  2266

Query  1465  TGSIPCSVCLSGLDSLDTYPSLETIQITISS--FKWDLTAFGLVAEWFLAYILFTRFFYV  1522
              GSI C  CL+G D LD Y +++ +Q       F        +V E  ++Y L+T +FY 
Sbjct  2267  NGSIACQFCLAGFDMLDNYKAIDVVQYEADRRAFVDYTGVLKIVIELIVSYALYTAWFYP  2326

Query  1523  LGLAAIMQLFFSYFAVHFISN--SWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYV  1580
             L     +Q+  ++     + +   W + L+++L  M P    +R YI  ASF  ++  + 
Sbjct  2327  LFALISIQILTTWLPELLMLSTLHWSVRLLVSLANMLPAHVFMRFYIIIASFIKLFSLFR  2386

Query  1581  HVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTF  1640
             HV  GC+ S C+ CYKRNR+ RV+C+TIV G+ R + V ANGG GFC  H WNC++CD++
Sbjct  2387  HVAYGCSKSGCLFCYKRNRSLRVKCSTIVGGMIRYYDVMANGGTGFCSKHQWNCIDCDSY  2446

Query  1641  CAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSL  1700
               G+TFI+ E A DLS + KRPI PTD + + V  V      + L++D+ GQ+TY+  + 
Sbjct  2447  KPGNTFITVEAALDLSKELKRPIQPTDVAYHTVTDVKQVGCYMRLFYDRDGQRTYDDVNA  2506

Query  1701  SHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVS  1760
             S FV+  NL  +  K    ++V+V +  +  ++++  +A+V+Y+Q + +PIL++D+ L++
Sbjct  2507  SLFVDYSNLLHSKVKSVPNMHVVVVENDA--DKANFLNAAVFYAQSLFRPILMVDKILIT  2564

Query  1761  DVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAAR  1820
                    V   MFD YV+TF S F+V  + L  L+ATA + + +   +  VL TF+S AR
Sbjct  2565  TANTGTSVTETMFDVYVDTFLSMFDVDKKSLNALIATAHSSIKQGTQICKVLDTFLSCAR  2624

Query  1821  QGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSAR  1879
             +   +DSDV+TK + + +  +  + +E+T +SCNN + TY K +N+   DLG  I  SA+
Sbjct  2625  KSCSIDSDVDTKCLADSVMSAVSAGLELTDESCNNLVPTYLKGDNIVAADLGVLIQNSAK  2684

Query  1880  HINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTK  1939
             H+   VAK   ++ IW+V  F  LS   + +++ A  K  L  +LT       V+V+TT 
Sbjct  2685  HVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLKKACCKTGLKLELTYNKQMANVSVLTTP  2744

Query  1940  IALKGG  1945
              +LKGG
Sbjct  2745  FSLKGG  2750


 Score = 201 bits (511),  Expect = 3e-50, Method: Composition-based stats.
 Identities = 59/251 (24%), Positives = 111/251 (44%), Gaps = 17/251 (7%)

Query  215   KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
              +T NV     DI++ +K+VK  VVVN AN ++ HGGGVA A+  A       E+ D + 
Sbjct  1272  CITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVK  1331

Query  275   TNGPLKVGGSCVLSGHNLAKHCLHVVGPNVN--KGEDIQLLKSAYENFNQHEVLLAPLLS  332
             + G    G   V +G  L K  L+VVGP+      +   LL+  Y++ N+++ ++  L+S
Sbjct  1332  SKGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLIS  1391

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   + T +  V L   ++  +D +       ++  K++ ++++     
Sbjct  1392  AGIFSVPSDVSLTYLLGTAKKQVVLVSNNQEDFDLISKCQITAVEGTKKLAERLSFNVGR  1451

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
              +      +K  +                    L++   L  ++ L      ++  N ++
Sbjct  1452  SIVYETDANKLILSNDVA--------FVSTFNVLQDVLSLRHDIALDDDARTFVQSNVDV  1503

Query  446   HPDSATLVSDI  456
              P+   +V+  
Sbjct  1504  VPEGWRVVNKF  1514


 Score = 146 bits (367),  Expect = 3e-33, Method: Composition-based stats.
 Identities = 54/193 (28%), Positives = 86/193 (45%), Gaps = 7/193 (4%)

Query  1     APTKVTFGDD-TVIEVQGY-KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVA  58
             A   VTF +  TV E+    K++ + +ELD+  + +LN  C  + V+   ++ EF  VV 
Sbjct  851   AGRCVTFKEQPTVNEIASTPKTIKVFYELDKDFNTILNTACGEFEVDDTVDMEEFYAVVI  910

Query  59    DAVIKTLQPVSEL---LTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDE--  113
             DA+ + L P  EL      +   L +    + +LFDE+GE  LA  +YC+F  P++D+  
Sbjct  911   DAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLFLFDEAGEEVLAPKLYCAFTAPEDDDFL  970

Query  114   EEGDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQ  173
             EE   EE++ E        T         E   +S  L+   +        DSQ     Q
Sbjct  971   EESGVEEDDVEGEETDLTVTSAGEPCVASEQEESSEILEDTLDDGPCVETSDSQVEEDVQ  1030

Query  174   DGSEDNQTTTIQT  186
                  +  + IQ 
Sbjct  1031  MSDFGDLESVIQD  1043


 Score = 54.0 bits (128),  Expect = 2e-05, Method: Composition-based stats.
 Identities = 41/196 (21%), Positives = 72/196 (37%), Gaps = 22/196 (11%)

Query  839   KYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILA  898
             ++ +V  L   K   NNC+L + L  +Q++  +F    LQD +   +   +  F   ++ 
Sbjct  1057  EFVKVLDLYVPKATRNNCWLRSVLAVMQKLPCQFKDKNLQDLWVLYKQQYSQLFVDTLVN  1116

Query  899   Y--CNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTL  956
                 N  V + G V +   +      L   + V    C  C      LKG++A+ + G  
Sbjct  1117  KIPANIVVPQGGYVADFAYWFL---TLCDWQCVAYWKCIKCDL-ALKLKGLDAMFFYG--  1170

Query  957   SYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCG  1016
                     V   C CG+     L+  + PF       A + LK   F         Y+  
Sbjct  1171  ------DVVSHVCKCGESMV--LIDVDVPFT------AHFALKDKLFCAFITKRSVYKAA  1216

Query  1017  HYKHITSKETLYCIDG  1032
                 +    ++  +DG
Sbjct  1217  CVVDVNDSHSMAVVDG  1232


>sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavirus 
HKU1 (isolate N5) OX=443241 GN=rep PE=3 SV=1
Length=7132

 Score = 1230 bits (3183),  Expect = 0.0, Method: Composition-based stats.
 Identities = 364/1290 (28%), Positives = 592/1290 (46%), Gaps = 82/1290 (6%)

Query  694   KDWSYSGQ-STQLGIEFLKR----GDKSVYYTSNPTTFHLDGEV--ITFDNLKTLLSLRE  746
             KDW    +     G++ +K         +        +  DG     T + +  LL+   
Sbjct  1543  KDWRLINKFDVINGVKTVKYFECPNSIYICSQGKDFGYVCDGSFYKATVNQVCVLLA---  1599

Query  747   VRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPND  806
              + I V  TVD +N  +  + +   +G+  G  + DG DVTK+K  + +  K  Y   N 
Sbjct  1600  -KKIDVLLTVDGVNFKSISLTVGEVFGKILGNVFCDGIDVTKLKCSDFYADKILYQYENL  1658

Query  807   DTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQ  866
                 + A +     D   L  Y + L    KW         S + + NNCY+  A L LQ
Sbjct  1659  SLADISAVQSSFGFDQQQLLAYYNFL-TVCKWSVVVNGPFFSFEQSHNNCYVNVACLMLQ  1717

Query  867   QIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSC  926
              I LKFN    Q+A+Y  RAG      AL+LA  +    E  D  + +  + + A+L   
Sbjct  1718  HINLKFNKWQWQEAWYEFRAGRPHRLVALVLAKGHFKFDEPSDATDFIRVVLKQADLSGA  1777

Query  927   KRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPF  986
                L ++C  CG +Q +  GV+AVM+ GTL+      G +I C C  +   +  +   PF
Sbjct  1778  ICELELICD-CGIKQESRVGVDAVMHFGTLAKTDLFNGYKIGCNCAGRIV-HCTKLNVPF  1835

Query  987   VMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPIT  1046
             ++ S  P   +L       A+ + G    GHY H+         D   + K +   G +T
Sbjct  1836  LICSNTPLSKDLPDDV-VAANMFMG-VGVGHYTHLKCGSPYQHYDACSVKKYTGVSGCLT  1893

Query  1047  DVFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP--  1103
             D  Y +N + T T     Y LD V     +P L  YY  +  Y+T +PI     +P+   
Sbjct  1894  DCLYLKNLTQTFTSMLTNYFLDDVEMVAYNPDLSQYYCDNGKYYT-KPIIKAQFKPFAKV  1952

Query  1104  NASFDNFKFVCDNIKFADDLNQLTGYKKP-ASRELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
             +  + NFK V  +I     LN   G+       E KVT +P   GDVV      Y   + 
Sbjct  1953  DGVYTNFKLVGHDI--CAQLNDKLGFNVDLPFVEYKVTVWPVATGDVVLASDDLYVKRYF  2010

Query  1163  KGAKLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDN  1220
             KG +   KP++W  H   + N  TY          ++    ++ N + VL        D+
Sbjct  2011  KGCETFGKPVIWFCHDEASLNSLTY----------FNKPSFKSENRYSVLSV------DS  2054

Query  1221  LACEDLKPVSEEVVENPTIQKDV-LECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMA  1279
             ++ E    V   V+E+    K+V L+   KT ++   II+   N+S+K+ + +   D+  
Sbjct  2055  VSEESQGNVVTSVMESQISTKEVKLKGVRKTVKIEDAIIVNDENSSIKVVKSLSLVDVWD  2114

Query  1280  AYVDNSSLTIKKPNELSRVLGLKTL---ATHGLAAVNSVPWDTIANYAKPFLNKVVSTTT  1336
              Y+      +   NELSR++   T+     +G+  + ++P D +        N+ +    
Sbjct  2115  MYLTGCDYVVWVANELSRLVKSPTVREYIRYGIKPI-TIPIDLLCLRDD---NQTLLVPK  2170

Query  1337  NIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEAS  1396
                 R +      ++ + F  +  L  FT          + +    N         L+ +
Sbjct  2171  IFKARAIE--FYGFLKWLFIYVFSLLHFTNDKTIFYTTEIASKFTFNLFC----LALKNA  2224

Query  1397  FNYLKSPNFSKLIN-----IIIWF--LLLSVCLGSL---------IYSTAALGVLMSNLG  1440
             F   +   F K         + WF  L ++V              I+    +  + +  G
Sbjct  2225  FQTFRWSIFIKGFLVVATVFLFWFNFLYINVIFSDFYLPNISVFPIFVGRIVMWIKATFG  2284

Query  1441  MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKW--  1498
             + + C  Y +  +  T+     +C GS  C +C SG D LDTY +++ +Q  +       
Sbjct  2285  LVTICDFYSKLGVGFTS----HFCNGSFICELCHSGFDMLDTYAAIDFVQYEVDRRVLFD  2340

Query  1499  DLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQM  1556
              ++   L+ E  + Y L+T +FY L     +QLF ++    F+  +  WL+  I+ +  M
Sbjct  2341  YVSLVKLIVELVIGYSLYTVWFYPLFCLIGLQLFTTWLPDLFMLETMHWLIRFIVFVANM  2400

Query  1557  APISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSF  1616
              P   ++R YI   + Y V     H+V GCN + C+ CYKRN + RV+C+TIV GV R +
Sbjct  2401  LPAFVLLRFYIVVTAMYKVVGFIRHIVYGCNKAGCLFCYKRNCSVRVKCSTIVGGVIRYY  2460

Query  1617  YVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSV  1676
              + ANGG GFC  H WNC NC +F  G+TFI+ E A +LS + KRP+NPTD S Y+V  +
Sbjct  2461  DITANGGTGFCVKHQWNCFNCHSFKPGNTFITVEAAIELSKELKRPVNPTDASHYVVTDI  2520

Query  1677  TVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSA  1736
                   + L++D+ GQ+ Y+    S FV+++NL  +  K    + V+V +  +  + ++ 
Sbjct  2521  KQVGCMMRLFYDRDGQRVYDDVDASLFVDINNLLHSKVKVVPNLYVVVVESDA--DRANF  2578

Query  1737  KSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVA  1796
              +A V+Y+Q + +PILL+D+ L++   +   V   MFD YV+TF S F+V  +     V 
Sbjct  2579  LNAVVFYAQSLYRPILLVDKKLITTACNGISVTQIMFDVYVDTFMSHFDVDRKSFNNFVN  2638

Query  1797  TAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNY  1855
              A A L + V L+ VL TF+   R+   +DSDVET+ + + +  +  + +E T ++ NN 
Sbjct  2639  IAHASLREGVQLEKVLDTFVGCVRKCCSIDSDVETRFITKSMISAVAAGLEFTDENYNNL  2698

Query  1856  MLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAA  1915
             + TY K +N+   DLG  I   A+H+   VAK  NI+ IW +  F  L+  L+ +++ A 
Sbjct  2699  VPTYLKSDNIVAADLGVLIQNGAKHVQGNVAKVANISCIWFIDAFNQLTADLQHKLKKAC  2758

Query  1916  KKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              K  L  KLT       V ++TT  +LKGG
Sbjct  2759  VKTGLKLKLTFNKQEASVPILTTPFSLKGG  2788


 Score = 207 bits (526),  Expect = 7e-52, Method: Composition-based stats.
 Identities = 64/254 (25%), Positives = 107/254 (42%), Gaps = 17/254 (7%)

Query  214   LKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYI  273
             L +T NV     DI+  A+ VK  V+VN AN ++ HGGGVA A+  A       E+   +
Sbjct  1308  LCITPNVCFVKGDIINVARLVKADVIVNPANGHMLHGGGVAKAIAVAAGKKFSKETAAMV  1367

Query  274   ATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKG--EDIQLLKSAYENFNQHEVLLAPLL  331
              + G  +VG   V +G  L K  L++VGP+  +   +   LL  AY++ N ++  L+ L+
Sbjct  1368  KSKGVCQVGDCYVSTGGKLCKTILNIVGPDARQDGRQSYVLLARAYKHLNNYDCCLSTLI  1427

Query  332   SAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPK  390
             SAGIF      SL   +  V   V L   +K  +D +       +   K +  ++     
Sbjct  1428  SAGIFSVPADVSLTYLLGVVDKQVILVSNNKEDFDIIQKCQITSVVGTKALAVRLTANVG  1487

Query  391   EEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLLYIDI------NGN  444
               +K      K  +            C    ++ ++E   L  ++ L  D+         
Sbjct  1488  RVIKFETDAYKLFLSGD--------DCFVSNSSVIQEVLLLRHDIQLNNDVRDYLLSKMT  1539

Query  445   LHPDSATLVSDIDI  458
               P    L++  D+
Sbjct  1540  SLPKDWRLINKFDV  1553


 Score = 147 bits (370),  Expect = 1e-33, Method: Composition-based stats.
 Identities = 48/194 (25%), Positives = 84/194 (43%), Gaps = 6/194 (3%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F +   V+E+    +V + F+LD   D +L + CS + VE G  V++F  VV D
Sbjct  809  AGRKVNFNEKPVVMEIPSLMTVKVMFDLDSTFDDILGKVCSEFEVEKGVTVDDFVAVVCD  868

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEG  116
            A+   L    E   +   +   L++ +    YLFDE+G+  +AS MYC+F   D ++   
Sbjct  869  AIENALNSCKEHPVVGYQVRAFLNKLNENVVYLFDEAGDEAMASRMYCTFAIEDVEDVIS  928

Query  117  DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
                E+          T +D +            +  + + E+    D+  + V   D  
Sbjct  929  SEAVEDTIDGVVE--DTINDDEDVVTGDNDDEDVVTGDNDDEDVVTGDNDDEDVVTGDND  986

Query  177  EDNQTTTIQTIVEV  190
            +++  T      +V
Sbjct  987  DEDVVTGDNDDEDV  1000


 Score = 59.0 bits (141),  Expect = 6e-07, Method: Composition-based stats.
 Identities = 42/201 (21%), Positives = 72/201 (36%), Gaps = 21/201 (10%)

Query  778   PTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKK  837
                 D  D   +   +  + ++ Y       L V         D      ++S  +  + 
Sbjct  1040  SVTGDNDDQIVVTGDDVDDIESIYDFDTYKALLV-------FNDVYNDALFVSYGSSVET  1092

Query  838   WKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALIL  897
               Y +VNGL S      NC+L + LL +Q++  KF   A+++ +   + G   +F   +L
Sbjct  1093  ETYFKVNGLWSPTITHTNCWLRSVLLVMQKLPFKFKDLAIENMWLSYKVGYNQSFVDYLL  1152

Query  898   AYCNKTVGEL--GDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGT  955
                 K +     G V +   +     +        N  C  CG     L G++AV + G 
Sbjct  1153  TTIPKAIVLPQGGYVADFAYWFLNQFD---INAYANWCCLKCGF-SFDLNGLDAVFFYGD  1208

Query  956   LSYEQFKKGVQIPCTCGKQAT  976
             +        V   C CG   T
Sbjct  1209  I--------VSHVCKCGHNMT  1221


>sp|P0C6U3|R1A_CVHN1 Replicase polyprotein 1a OS=Human coronavirus 
HKU1 (isolate N1) OX=443239 GN=1a PE=1 SV=1
Length=4471

 Score = 1230 bits (3182),  Expect = 0.0, Method: Composition-based stats.
 Identities = 364/1290 (28%), Positives = 593/1290 (46%), Gaps = 82/1290 (6%)

Query  694   KDWSYSGQ-STQLGIEFLKR----GDKSVYYTSNPTTFHLDGEV--ITFDNLKTLLSLRE  746
             KDW    +     G++ +K         +        +  DG     T + +  LL+   
Sbjct  1593  KDWRLINKFDVINGVKTVKYFECPNSIYICSQGKDFGYVCDGSFYKATVNQVCVLLA---  1649

Query  747   VRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPND  806
              + I V  TVD +N  +  + +   +G+  G  + DG DVTK+K  + +  K  Y   N 
Sbjct  1650  -KKIDVLLTVDGVNFKSISLTVGEVFGKILGNVFCDGIDVTKLKCSDFYADKILYQYENL  1708

Query  807   DTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQ  866
                 + A +     D   L  Y + L    KW         S + + NNCY+  A L LQ
Sbjct  1709  SLADISAVQSSFGFDQQQLLAYYNFL-TVCKWSVVVNGPFFSFEQSHNNCYVNVACLMLQ  1767

Query  867   QIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSC  926
              I LKFN    Q+A+Y  RAG      AL+LA  +    E  D  + +  + + A+L   
Sbjct  1768  HINLKFNKWQWQEAWYEFRAGRPHRLVALVLAKGHFKFDEPSDATDFIRVVLKQADLSGA  1827

Query  927   KRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPF  986
                L ++C  CG +Q +  GV+AVM+ GTL+      G +I C C  +   +  +   PF
Sbjct  1828  ICELELICD-CGIKQESRVGVDAVMHFGTLAKTDLFNGYKIGCNCAGRIV-HCTKLNVPF  1885

Query  987   VMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPIT  1046
             ++ S  P   +L       A+ + G    GHY H+         D   + K +   G +T
Sbjct  1886  LICSNTPLSKDLPDDV-VAANMFMG-VGVGHYTHLKCGSPYQHYDACSVKKYTGVSGCLT  1943

Query  1047  DVFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP--  1103
             D  Y +N + T T     Y LD V     +P L  YY  +  Y+T +PI     +P+   
Sbjct  1944  DCLYLKNLTQTFTSMLTNYFLDDVEMVAYNPDLSQYYCDNGKYYT-KPIIKAQFKPFAKV  2002

Query  1104  NASFDNFKFVCDNIKFADDLNQLTGYKKP-ASRELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
             +  + NFK V  +I     LN   G+       E KVT +P   GDVV      Y   + 
Sbjct  2003  DGVYTNFKLVGHDI--CAQLNDKLGFNVDLPFVEYKVTVWPVATGDVVLASDDLYVKRYF  2060

Query  1163  KGAKLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDN  1220
             KG +   KP++W  H   + N  TY          ++    ++ N + VL        D+
Sbjct  2061  KGCETFGKPVIWFCHDEASLNSLTY----------FNKPSFKSENRYSVLSV------DS  2104

Query  1221  LACEDLKPVSEEVVENPTIQKDV-LECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMA  1279
             ++ E    V   V+E+    K+V L+   KT ++   II+   N+S+K+ + +   D+  
Sbjct  2105  VSEESQGNVVTSVMESQISTKEVKLKGVRKTVKIEDAIIVNDENSSIKVVKSLSLVDVWD  2164

Query  1280  AYVDNSSLTIKKPNELSRVLGLKTL---ATHGLAAVNSVPWDTIANYAKPFLNKVVSTTT  1336
              Y+      +   NELSR++   T+     +G+  + ++P D +        N+ +    
Sbjct  2165  MYLTGCDYVVWVANELSRLVKSPTVREYIRYGIKPI-TIPIDLLCLRDD---NQTLLVPK  2220

Query  1337  NIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEAS  1396
                 R +      ++ + F  +  L  FT          + +    N         L+ +
Sbjct  2221  IFKARAIE--FYGFLKWLFIYVFSLLHFTNDKTIFYTTEIASKFTFNLFC----LALKNA  2274

Query  1397  FNYLKSPNFSKLIN-----IIIWF--LLLSVCLGSL---------IYSTAALGVLMSNLG  1440
             F   +   F K         + WF  L ++V              I+    +  + +  G
Sbjct  2275  FQTFRWSIFIKGFLVVATVFLFWFNFLYINVIFSDFYLPNISVFPIFVGRIVMWIKATFG  2334

Query  1441  MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKW--  1498
             + + C  Y +  +  T+     +C GS  C +C SG D LDTY +++ +Q  +       
Sbjct  2335  LVTICDFYSKLGVGFTS----HFCNGSFICELCHSGFDMLDTYAAIDFVQYEVDRRVLFD  2390

Query  1499  DLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQM  1556
              ++   L+ E  + Y L+T +FY L     +QLF ++    F+  +  WL+  I+ +  M
Sbjct  2391  YVSLVKLIVELVIGYSLYTVWFYPLFCLIGLQLFTTWLPDLFMLETMHWLIRFIVFVANM  2450

Query  1557  APISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSF  1616
              P   ++R YI   + Y V     H+V GCN + C+ CYKRN + RV+C+TIV GV R +
Sbjct  2451  LPAFVLLRFYIVVTAMYKVVGFIRHIVYGCNKAGCLFCYKRNCSVRVKCSTIVGGVIRYY  2510

Query  1617  YVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSV  1676
              + ANGG GFC  H WNC NC +F  G+TFI+ E A +LS + KRP+NPTD S Y+V  +
Sbjct  2511  DITANGGTGFCVKHQWNCFNCHSFKPGNTFITVEAAIELSKELKRPVNPTDASHYVVTDI  2570

Query  1677  TVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSA  1736
                   + L++D+ GQ+ Y+    S FV+++NL  +  K    + V+V +  +  + ++ 
Sbjct  2571  KQVGCMMRLFYDRDGQRVYDDVDASLFVDINNLLHSKVKVVPNLYVVVVESDA--DRANF  2628

Query  1737  KSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVA  1796
              +A V+Y+Q + +PILL+D+ L++   +   V   MFD YV+TF S F+V  +     V 
Sbjct  2629  LNAVVFYAQSLYRPILLVDKKLITTACNGISVTQTMFDVYVDTFMSHFDVDRKSFNNFVN  2688

Query  1797  TAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNY  1855
              A A L + V L+ VL TF+   R+   +DSDVET+ + + +  +  + +E T ++ NN 
Sbjct  2689  IAHASLREGVQLEKVLDTFVGCVRKCCSIDSDVETRFITKSMISAVAAGLEFTDENYNNL  2748

Query  1856  MLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAA  1915
             + TY K +N+   DLG  I   A+H+   VAK+ NI+ IW +  F  L+  L+ +++ A 
Sbjct  2749  VPTYLKSDNIVAADLGVLIQNGAKHVQGNVAKAANISCIWFIDAFNQLTADLQHKLKKAC  2808

Query  1916  KKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              K  L  KLT       V ++TT  +LKGG
Sbjct  2809  VKTGLKLKLTFNKQEASVPILTTPFSLKGG  2838


 Score = 206 bits (525),  Expect = 8e-52, Method: Composition-based stats.
 Identities = 66/265 (25%), Positives = 111/265 (42%), Gaps = 18/265 (7%)

Query  203   QTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATN  262
              + E+    G L +T NV     DI+  A+ VK  V+VN AN ++ HGGGVA A+  A  
Sbjct  1348  SSFELPQLYG-LCITPNVCFVKGDIINVARLVKADVIVNPANGHMLHGGGVAKAIAVAAG  1406

Query  263   NAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKG--EDIQLLKSAYENF  320
                  E+   + + G  +VG   V +G  L K  L++VGP+  +   +   LL  AY++ 
Sbjct  1407  KKFSKETAAMVKSKGVCQVGDCYVSTGGKLCKTILNIVGPDARQDGRQSYVLLARAYKHL  1466

Query  321   NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEK  379
             N ++  L+ L+SAGIF      SL   +  V   V L   +K  +D +       +   K
Sbjct  1467  NNYDCCLSTLISAGIFSVPADVSLTYLLGVVDKQVILVSNNKEDFDIIQKCQITSVVGTK  1526

Query  380   QVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLLYI  439
              +  ++       +K      K  +            C    ++ ++E   L  ++ L  
Sbjct  1527  ALAVRLTANVGRVIKFETDAYKLFLSGD--------DCFVSNSSVIQEVLLLRHDIQLNN  1578

Query  440   DI------NGNLHPDSATLVSDIDI  458
             D+           P    L++  D+
Sbjct  1579  DVRDYLLSKMTSLPKDWRLINKFDV  1603


 Score = 146 bits (369),  Expect = 1e-33, Method: Composition-based stats.
 Identities = 48/194 (25%), Positives = 84/194 (43%), Gaps = 6/194 (3%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F +   V+E+    +V + F+LD   D +L + CS + VE G  V++F  VV D
Sbjct  809  AGRKVNFNEKPVVMEIPSLMTVKVMFDLDSTFDDILGKVCSEFEVEKGVTVDDFVAVVCD  868

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEG  116
            A+   L    E   +   +   L++ +    YLFDE+G+  +AS MYC+F   D ++   
Sbjct  869  AIENALNSCKEHPVVGYQVRAFLNKLNENVVYLFDEAGDEAMASRMYCTFAIEDVEDVIS  928

Query  117  DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
                E+          T +D +            +  + + E+    D+  + V   D  
Sbjct  929  SEAVEDTIDGVVE--DTINDDEDVVTGDNDDEDVVTGDNDDEDVVTGDNDDEDVVTGDND  986

Query  177  EDNQTTTIQTIVEV  190
            +++  T      +V
Sbjct  987  DEDVVTGDNDDEDV  1000


 Score = 56.7 bits (135),  Expect = 3e-06, Method: Composition-based stats.
 Identities = 41/197 (21%), Positives = 72/197 (37%), Gaps = 21/197 (11%)

Query  782   DGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYP  841
             D  D   +   +  + ++ Y       L V         D      ++S  +  +   Y 
Sbjct  1094  DNDDQIVVTGDDVDDIESIYDFDTYKALLV-------FNDVYNDALFVSYGSSVETETYF  1146

Query  842   QVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCN  901
             +VNGL S      NC+L + LL +Q++  KF   A+++ +   + G   +F   +L    
Sbjct  1147  KVNGLWSPTITHTNCWLRSVLLVMQKLPFKFKDLAIENMWLSYKVGYNQSFVDYLLTTIP  1206

Query  902   KTVGEL--GDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYE  959
             K +     G V +   +     +        N  C  CG     L G++A+ + G +   
Sbjct  1207  KAIVLPQGGFVADFAYWFLNQFD---INAYANWCCLKCGF-SFDLNGLDALFFYGDI---  1259

Query  960   QFKKGVQIPCTCGKQAT  976
                  V   C CG   T
Sbjct  1260  -----VSHVCKCGHNMT  1271


>sp|P0C6U5|R1A_CVHN5 Replicase polyprotein 1a OS=Human coronavirus 
HKU1 (isolate N5) OX=443241 GN=1a PE=3 SV=1
Length=4421

 Score = 1228 bits (3177),  Expect = 0.0, Method: Composition-based stats.
 Identities = 364/1290 (28%), Positives = 592/1290 (46%), Gaps = 82/1290 (6%)

Query  694   KDWSYSGQ-STQLGIEFLKR----GDKSVYYTSNPTTFHLDGEV--ITFDNLKTLLSLRE  746
             KDW    +     G++ +K         +        +  DG     T + +  LL+   
Sbjct  1543  KDWRLINKFDVINGVKTVKYFECPNSIYICSQGKDFGYVCDGSFYKATVNQVCVLLA---  1599

Query  747   VRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPND  806
              + I V  TVD +N  +  + +   +G+  G  + DG DVTK+K  + +  K  Y   N 
Sbjct  1600  -KKIDVLLTVDGVNFKSISLTVGEVFGKILGNVFCDGIDVTKLKCSDFYADKILYQYENL  1658

Query  807   DTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQ  866
                 + A +     D   L  Y + L    KW         S + + NNCY+  A L LQ
Sbjct  1659  SLADISAVQSSFGFDQQQLLAYYNFL-TVCKWSVVVNGPFFSFEQSHNNCYVNVACLMLQ  1717

Query  867   QIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSC  926
              I LKFN    Q+A+Y  RAG      AL+LA  +    E  D  + +  + + A+L   
Sbjct  1718  HINLKFNKWQWQEAWYEFRAGRPHRLVALVLAKGHFKFDEPSDATDFIRVVLKQADLSGA  1777

Query  927   KRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPF  986
                L ++C  CG +Q +  GV+AVM+ GTL+      G +I C C  +   +  +   PF
Sbjct  1778  ICELELICD-CGIKQESRVGVDAVMHFGTLAKTDLFNGYKIGCNCAGRIV-HCTKLNVPF  1835

Query  987   VMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPIT  1046
             ++ S  P   +L       A+ + G    GHY H+         D   + K +   G +T
Sbjct  1836  LICSNTPLSKDLPDDV-VAANMFMG-VGVGHYTHLKCGSPYQHYDACSVKKYTGVSGCLT  1893

Query  1047  DVFYKEN-SYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP--  1103
             D  Y +N + T T     Y LD V     +P L  YY  +  Y+T +PI     +P+   
Sbjct  1894  DCLYLKNLTQTFTSMLTNYFLDDVEMVAYNPDLSQYYCDNGKYYT-KPIIKAQFKPFAKV  1952

Query  1104  NASFDNFKFVCDNIKFADDLNQLTGYKKP-ASRELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
             +  + NFK V  +I     LN   G+       E KVT +P   GDVV      Y   + 
Sbjct  1953  DGVYTNFKLVGHDI--CAQLNDKLGFNVDLPFVEYKVTVWPVATGDVVLASDDLYVKRYF  2010

Query  1163  KGAKLLHKPIVW--HVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDN  1220
             KG +   KP++W  H   + N  TY          ++    ++ N + VL        D+
Sbjct  2011  KGCETFGKPVIWFCHDEASLNSLTY----------FNKPSFKSENRYSVLSV------DS  2054

Query  1221  LACEDLKPVSEEVVENPTIQKDV-LECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMA  1279
             ++ E    V   V+E+    K+V L+   KT ++   II+   N+S+K+ + +   D+  
Sbjct  2055  VSEESQGNVVTSVMESQISTKEVKLKGVRKTVKIEDAIIVNDENSSIKVVKSLSLVDVWD  2114

Query  1280  AYVDNSSLTIKKPNELSRVLGLKTL---ATHGLAAVNSVPWDTIANYAKPFLNKVVSTTT  1336
              Y+      +   NELSR++   T+     +G+  + ++P D +        N+ +    
Sbjct  2115  MYLTGCDYVVWVANELSRLVKSPTVREYIRYGIKPI-TIPIDLLCLRDD---NQTLLVPK  2170

Query  1337  NIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEAS  1396
                 R +      ++ + F  +  L  FT          + +    N         L+ +
Sbjct  2171  IFKARAIE--FYGFLKWLFIYVFSLLHFTNDKTIFYTTEIASKFTFNLFC----LALKNA  2224

Query  1397  FNYLKSPNFSKLIN-----IIIWF--LLLSVCLGSL---------IYSTAALGVLMSNLG  1440
             F   +   F K         + WF  L ++V              I+    +  + +  G
Sbjct  2225  FQTFRWSIFIKGFLVVATVFLFWFNFLYINVIFSDFYLPNISVFPIFVGRIVMWIKATFG  2284

Query  1441  MPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKW--  1498
             + + C  Y +  +  T+     +C GS  C +C SG D LDTY +++ +Q  +       
Sbjct  2285  LVTICDFYSKLGVGFTS----HFCNGSFICELCHSGFDMLDTYAAIDFVQYEVDRRVLFD  2340

Query  1499  DLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFI--SNSWLMWLIINLVQM  1556
              ++   L+ E  + Y L+T +FY L     +QLF ++    F+  +  WL+  I+ +  M
Sbjct  2341  YVSLVKLIVELVIGYSLYTVWFYPLFCLIGLQLFTTWLPDLFMLETMHWLIRFIVFVANM  2400

Query  1557  APISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSF  1616
              P   ++R YI   + Y V     H+V GCN + C+ CYKRN + RV+C+TIV GV R +
Sbjct  2401  LPAFVLLRFYIVVTAMYKVVGFIRHIVYGCNKAGCLFCYKRNCSVRVKCSTIVGGVIRYY  2460

Query  1617  YVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSV  1676
              + ANGG GFC  H WNC NC +F  G+TFI+ E A +LS + KRP+NPTD S Y+V  +
Sbjct  2461  DITANGGTGFCVKHQWNCFNCHSFKPGNTFITVEAAIELSKELKRPVNPTDASHYVVTDI  2520

Query  1677  TVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSA  1736
                   + L++D+ GQ+ Y+    S FV+++NL  +  K    + V+V +  +  + ++ 
Sbjct  2521  KQVGCMMRLFYDRDGQRVYDDVDASLFVDINNLLHSKVKVVPNLYVVVVESDA--DRANF  2578

Query  1737  KSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVA  1796
              +A V+Y+Q + +PILL+D+ L++   +   V   MFD YV+TF S F+V  +     V 
Sbjct  2579  LNAVVFYAQSLYRPILLVDKKLITTACNGISVTQIMFDVYVDTFMSHFDVDRKSFNNFVN  2638

Query  1797  TAEAELAKNVSLDNVLSTFISAARQGF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNY  1855
              A A L + V L+ VL TF+   R+   +DSDVET+ + + +  +  + +E T ++ NN 
Sbjct  2639  IAHASLREGVQLEKVLDTFVGCVRKCCSIDSDVETRFITKSMISAVAAGLEFTDENYNNL  2698

Query  1856  MLTYNKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAA  1915
             + TY K +N+   DLG  I   A+H+   VAK  NI+ IW +  F  L+  L+ +++ A 
Sbjct  2699  VPTYLKSDNIVAADLGVLIQNGAKHVQGNVAKVANISCIWFIDAFNQLTADLQHKLKKAC  2758

Query  1916  KKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              K  L  KLT       V ++TT  +LKGG
Sbjct  2759  VKTGLKLKLTFNKQEASVPILTTPFSLKGG  2788


 Score = 206 bits (525),  Expect = 9e-52, Method: Composition-based stats.
 Identities = 64/254 (25%), Positives = 107/254 (42%), Gaps = 17/254 (7%)

Query  214   LKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYI  273
             L +T NV     DI+  A+ VK  V+VN AN ++ HGGGVA A+  A       E+   +
Sbjct  1308  LCITPNVCFVKGDIINVARLVKADVIVNPANGHMLHGGGVAKAIAVAAGKKFSKETAAMV  1367

Query  274   ATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKG--EDIQLLKSAYENFNQHEVLLAPLL  331
              + G  +VG   V +G  L K  L++VGP+  +   +   LL  AY++ N ++  L+ L+
Sbjct  1368  KSKGVCQVGDCYVSTGGKLCKTILNIVGPDARQDGRQSYVLLARAYKHLNNYDCCLSTLI  1427

Query  332   SAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPK  390
             SAGIF      SL   +  V   V L   +K  +D +       +   K +  ++     
Sbjct  1428  SAGIFSVPADVSLTYLLGVVDKQVILVSNNKEDFDIIQKCQITSVVGTKALAVRLTANVG  1487

Query  391   EEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLLYIDI------NGN  444
               +K      K  +            C    ++ ++E   L  ++ L  D+         
Sbjct  1488  RVIKFETDAYKLFLSGD--------DCFVSNSSVIQEVLLLRHDIQLNNDVRDYLLSKMT  1539

Query  445   LHPDSATLVSDIDI  458
               P    L++  D+
Sbjct  1540  SLPKDWRLINKFDV  1553


 Score = 147 bits (370),  Expect = 1e-33, Method: Composition-based stats.
 Identities = 48/194 (25%), Positives = 84/194 (43%), Gaps = 6/194 (3%)

Query  1    APTKVTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVAD  59
            A  KV F +   V+E+    +V + F+LD   D +L + CS + VE G  V++F  VV D
Sbjct  809  AGRKVNFNEKPVVMEIPSLMTVKVMFDLDSTFDDILGKVCSEFEVEKGVTVDDFVAVVCD  868

Query  60   AVIKTLQPVSE---LLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEG  116
            A+   L    E   +   +   L++ +    YLFDE+G+  +AS MYC+F   D ++   
Sbjct  869  AIENALNSCKEHPVVGYQVRAFLNKLNENVVYLFDEAGDEAMASRMYCTFAIEDVEDVIS  928

Query  117  DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
                E+          T +D +            +  + + E+    D+  + V   D  
Sbjct  929  SEAVEDTIDGVVE--DTINDDEDVVTGDNDDEDVVTGDNDDEDVVTGDNDDEDVVTGDND  986

Query  177  EDNQTTTIQTIVEV  190
            +++  T      +V
Sbjct  987  DEDVVTGDNDDEDV  1000


 Score = 58.7 bits (140),  Expect = 7e-07, Method: Composition-based stats.
 Identities = 42/201 (21%), Positives = 72/201 (36%), Gaps = 21/201 (10%)

Query  778   PTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKK  837
                 D  D   +   +  + ++ Y       L V         D      ++S  +  + 
Sbjct  1040  SVTGDNDDQIVVTGDDVDDIESIYDFDTYKALLV-------FNDVYNDALFVSYGSSVET  1092

Query  838   WKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALIL  897
               Y +VNGL S      NC+L + LL +Q++  KF   A+++ +   + G   +F   +L
Sbjct  1093  ETYFKVNGLWSPTITHTNCWLRSVLLVMQKLPFKFKDLAIENMWLSYKVGYNQSFVDYLL  1152

Query  898   AYCNKTVGEL--GDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGT  955
                 K +     G V +   +     +        N  C  CG     L G++AV + G 
Sbjct  1153  TTIPKAIVLPQGGYVADFAYWFLNQFD---INAYANWCCLKCGF-SFDLNGLDAVFFYGD  1208

Query  956   LSYEQFKKGVQIPCTCGKQAT  976
             +        V   C CG   T
Sbjct  1209  I--------VSHVCKCGHNMT  1221


>sp|P0C6X6|R1AB_CVHOC Replicase polyprotein 1ab OS=Human coronavirus 
OC43 OX=31631 GN=rep PE=1 SV=1
Length=7095

 Score = 1214 bits (3141),  Expect = 0.0, Method: Composition-based stats.
 Identities = 361/1265 (29%), Positives = 595/1265 (47%), Gaps = 76/1265 (6%)

Query  713   GDKSVYYTSNPTTFHLDGEV--ITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSM  770
             G   +        +   G     T   +K L     +  + +  TVD +N   + V +  
Sbjct  1530  GGIDICSQDKVFGYVQQGIFNKATVAQIKALF----LDKVDILLTVDGVNFTNRFVPVGE  1585

Query  771   TYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMS  830
             ++G+  G  + DG +VTK K   +++GK F+   N  +  ++A       D   L  Y +
Sbjct  1586  SFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSEDLKAVRSSFNFDQKELLAYYN  1645

Query  831   ALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAA  890
              L +  KW+        + K A+NNC++  + L LQ + L F     Q+A+   R+G  A
Sbjct  1646  MLVNCFKWQVVVNGKYFTFKQANNNCFVNVSCLMLQSLHLTFKIVQWQEAWLEFRSGRPA  1705

Query  891   NFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAV  950
              F AL+LA      G+  D R+ +  +F   +L        + CK CG +Q    G++AV
Sbjct  1706  RFVALVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICDFEIACK-CGVKQEQRTGLDAV  1764

Query  951   MYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYT  1010
             M+ GTLS E  + G  + C+CGK+   + V+ + PF++ S  PA  +L  G  + A+ + 
Sbjct  1765  MHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLICSNTPASVKLPKGVGS-ANIFI  1822

Query  1011  GNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKEN-SYTTTIKPVTYKLDGV  1069
             G+   GHY H+  +++    D + + K ++  G ++D  Y +N   T      TY LD V
Sbjct  1823  GD-NVGHYVHVKCEQSYQLYDASNVKKVTDVTGKLSDCLYLKNLKQTFKSVLTTYYLDDV  1881

Query  1070  VCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNASFDNFKFVCDNIKFADDLNQLTG  1128
                E  P L  YY     Y+T++ I          +  + NFK +   +   D LN   G
Sbjct  1882  KKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGVYTNFKLIGHTV--CDSLNSKLG  1939

Query  1129  YKKPA-SRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVW--HVNNATNKATY  1185
             +       E K+T +P   GDVV  +   Y   +++G     KP++W  H   + N  TY
Sbjct  1940  FDSSKEFVEYKITEWPTATGDVVLANDDLYVKRYERGCITFGKPVIWLSHEKASLNSLTY  1999

Query  1186  KPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLE  1245
                       ++   +   N FDVLK +D     + +    K    E  E   I+   ++
Sbjct  2000  ----------FNRPLLVDDNKFDVLKVDDVDDSGDSSESGAK----ETKEINIIKLSGVK  2045

Query  1246  CNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTL-  1304
                K  +V   +I+    +  K  + +   D+   ++      ++  N LSR + + T+ 
Sbjct  2046  ---KPFKVEDSVIVNDDTSETKYVKSLSIVDVYDMWLTGCKYVVRTANALSRAVNVPTIR  2102

Query  1305  --ATHGLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQL  1361
                  G+  V S+P D +     KP +N  V       T      C N++ + F LL   
Sbjct  2103  KFIKFGMTLV-SIPIDLLNLREIKPAVN--VVKAVRNKTSA----CFNFIKWLFVLLFGW  2155

Query  1362  CTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINII--IWFLLLS  1419
                +       K    T IA      +     + +F   K    ++   II  I+ L  +
Sbjct  2156  IKISADN----KVIYTTEIASKLTCKLVALAFKNAFLTFKWSMVARGACIIATIFLLWFN  2211

Query  1420  VCLGSLIYSTAALG--------------VLMSNLGMPSYCTGYREGYLNSTNVTIATYCT  1465
                 ++I+S   L                + +   + + C  Y    +         YC 
Sbjct  2212  FIYANVIFSDFYLPKIGFLPTFVGKIAQWIKNTFSLVTICDLYSIQDVGF----KNQYCN  2267

Query  1466  GSIPCSVCLSGLDSLDTYPSLETIQITISS--FKWDLTAFGLVAEWFLAYILFTRFFYVL  1523
             GSI C  CL+G D LD Y +++ +Q       F        +V E  ++Y L+T +FY L
Sbjct  2268  GSIACQFCLAGFDMLDNYKAIDVVQYEADRRAFVDYTGVLKIVIELIVSYALYTAWFYPL  2327

Query  1524  GLAAIMQLFFSYFAVHFISN--SWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVH  1581
                  +Q+  ++    F+ +   W   L++ L  M P    +R YI  ASF  ++  + H
Sbjct  2328  FALISIQILTTWLPELFMLSTLHWSFRLLVALANMLPAHVFMRFYIIIASFIKLFSLFKH  2387

Query  1582  VVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFC  1641
             V  GC+ S C+ CYKRNR+ RV+C+TIV G+ R + V ANGG GFC  H WNC++CD++ 
Sbjct  2388  VAYGCSKSGCLFCYKRNRSLRVKCSTIVGGMIRYYDVMANGGTGFCSKHQWNCIDCDSYK  2447

Query  1642  AGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLS  1701
              G+TFI+ E A DLS + KRPI PTD + + V  V     S+ L++D+ GQ+ Y+  + S
Sbjct  2448  PGNTFITVEAALDLSKELKRPIQPTDVAYHTVTDVKQVGCSMRLFYDRDGQRIYDDVNAS  2507

Query  1702  HFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSD  1761
              FV+  NL  +  K    ++V+V +  +  ++++  +A+V+Y+Q + +PIL++D+ L++ 
Sbjct  2508  LFVDYSNLLHSKVKSVPNMHVVVVENDA--DKANFLNAAVFYAQSLFRPILMVDKNLITT  2565

Query  1762  VGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQ  1821
                   V   MFD YV+TF S F+V  + L  L+ATA + + +   +  VL TF+S AR+
Sbjct  2566  ANTGTSVTETMFDVYVDTFLSMFDVDKKSLNALIATAHSSIKQGTQIYKVLDTFLSCARK  2625

Query  1822  GF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSARH  1880
                +DSDV+TK + + +  +  + +E+T +SCNN + TY K +N+   DLG  I  SA+H
Sbjct  2626  SCSIDSDVDTKCLADSVMSAVSAGLELTDESCNNLVPTYLKSDNIVAADLGVLIQNSAKH  2685

Query  1881  INAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKI  1940
             +   VAK   ++ IW+V  F   S   + +++ A  K  L  KLT       V+V+TT  
Sbjct  2686  VQGNVAKIAGVSCIWSVDAFNQFSSDFQHKLKKACCKTGLKLKLTYNKQMANVSVLTTPF  2745

Query  1941  ALKGG  1945
             +LKGG
Sbjct  2746  SLKGG  2750


 Score = 197 bits (501),  Expect = 6e-49, Method: Composition-based stats.
 Identities = 59/251 (24%), Positives = 109/251 (43%), Gaps = 17/251 (7%)

Query  215   KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
              +T NV     DI++ +K VK  VVVN AN ++ HGGGVA A+  A       E+ + + 
Sbjct  1272  CITPNVCFVKGDIIKVSKLVKAEVVVNPANGHMVHGGGVAKAIAVAAGQQFVKETTNMVK  1331

Query  275   TNGPLKVGGSCVLSGHNLAKHCLHVVGPNVN--KGEDIQLLKSAYENFNQHEVLLAPLLS  332
             + G    G   V +G  L K  L+VVGP+      +   LL+  Y++FN ++ ++  L+S
Sbjct  1332  SKGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYVLLERVYKHFNNYDCVVTTLIS  1391

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   + T +  V L   ++  +D +       ++  K++  +++     
Sbjct  1392  AGIFSVPSDVSLTYLLGTAKKQVVLVSNNQEDFDLISKCQITAVEGTKKLAARLSFNVGR  1451

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
              +      +K  +                    L++   L  ++ L      ++  N ++
Sbjct  1452  SIVYETDANKLILINDVA--------FVSTFNVLQDVLSLRHDIALDDDARTFVQSNVDV  1503

Query  446   HPDSATLVSDI  456
              P+   +V+  
Sbjct  1504  LPEGWRVVNKF  1514


 Score = 148 bits (374),  Expect = 4e-34, Method: Composition-based stats.
 Identities = 45/183 (25%), Positives = 80/183 (44%), Gaps = 5/183 (3%)

Query  1     APTKVTFGDD-TVIEVQGY-KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVA  58
             A  +VTF +  TV E+    K + + +ELD   + +LN  C  + V+   ++ EF  VV 
Sbjct  851   AGRRVTFKEQPTVKEIISMPKIIKVFYELDNDFNTILNTACGVFEVDDTVDMEEFYAVVI  910

Query  59    DAVIKTLQPVSEL---LTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEE  115
             DA+ + L P  EL      +   L +      +LFDE+GE   A  +YC+F  P++D+  
Sbjct  911   DAIEEKLSPCKELEGVGAKVSAFLQKLEDNPLFLFDEAGEEVFAPKLYCAFTAPEDDDFL  970

Query  116   GDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDG  175
              + + EE +   +    T        +      ++   E+  ++    + S   V +   
Sbjct  971   EESDVEEDDVEGEETDLTITSAGQPCVASEQEESSEVLEDTLDDGPSVETSDSQVEEDVE  1030

Query  176   SED  178
               D
Sbjct  1031  MSD  1033


 Score = 53.6 bits (127),  Expect = 2e-05, Method: Composition-based stats.
 Identities = 41/196 (21%), Positives = 73/196 (37%), Gaps = 22/196 (11%)

Query  839   KYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILA  898
             ++ +V GL   K   NNC+L + L  +Q++  +F    LQD +   +   +  F   ++ 
Sbjct  1057  EFVKVLGLYVPKATRNNCWLRSVLAVMQKLPCQFKDKNLQDLWVLYKQQYSQLFVDTLVN  1116

Query  899   Y--CNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTL  956
                 N  + + G V +   +      L   + V    C  C      LKG++A+ + G  
Sbjct  1117  KIPANIVLPQGGYVADFAYWFL---TLCDWQCVAYWKCIKCDL-ALKLKGLDAMFFYG--  1170

Query  957   SYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCG  1016
                     V   C CG+     L+  + PF       A + LK   F         Y+  
Sbjct  1171  ------DVVSHICKCGESMV--LIDVDVPFT------AHFALKDKLFCAFITKRIVYKAA  1216

Query  1017  HYKHITSKETLYCIDG  1032
                 +    ++  +DG
Sbjct  1217  CVVDVNDSHSMAVVDG  1232


>sp|P0C6U7|R1A_CVHOC Replicase polyprotein 1a OS=Human coronavirus 
OC43 OX=31631 GN=1a PE=1 SV=1
Length=4383

 Score = 1213 bits (3138),  Expect = 0.0, Method: Composition-based stats.
 Identities = 361/1265 (29%), Positives = 595/1265 (47%), Gaps = 76/1265 (6%)

Query  713   GDKSVYYTSNPTTFHLDGEV--ITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSM  770
             G   +        +   G     T   +K L     +  + +  TVD +N   + V +  
Sbjct  1530  GGIDICSQDKVFGYVQQGIFNKATVAQIKALF----LDKVDILLTVDGVNFTNRFVPVGE  1585

Query  771   TYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMS  830
             ++G+  G  + DG +VTK K   +++GK F+   N  +  ++A       D   L  Y +
Sbjct  1586  SFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSEDLKAVRSSFNFDQKELLAYYN  1645

Query  831   ALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAA  890
              L +  KW+        + K A+NNC++  + L LQ + L F     Q+A+   R+G  A
Sbjct  1646  MLVNCFKWQVVVNGKYFTFKQANNNCFVNVSCLMLQSLHLTFKIVQWQEAWLEFRSGRPA  1705

Query  891   NFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAV  950
              F AL+LA      G+  D R+ +  +F   +L        + CK CG +Q    G++AV
Sbjct  1706  RFVALVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICDFEIACK-CGVKQEQRTGLDAV  1764

Query  951   MYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYT  1010
             M+ GTLS E  + G  + C+CGK+   + V+ + PF++ S  PA  +L  G  + A+ + 
Sbjct  1765  MHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLICSNTPASVKLPKGVGS-ANIFI  1822

Query  1011  GNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKEN-SYTTTIKPVTYKLDGV  1069
             G+   GHY H+  +++    D + + K ++  G ++D  Y +N   T      TY LD V
Sbjct  1823  GD-NVGHYVHVKCEQSYQLYDASNVKKVTDVTGKLSDCLYLKNLKQTFKSVLTTYYLDDV  1881

Query  1070  VCTEIDPKLDNYYKKDNSYFTEQPIDL-VPNQPYPNASFDNFKFVCDNIKFADDLNQLTG  1128
                E  P L  YY     Y+T++ I          +  + NFK +   +   D LN   G
Sbjct  1882  KKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGVYTNFKLIGHTV--CDSLNSKLG  1939

Query  1129  YKKPA-SRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVW--HVNNATNKATY  1185
             +       E K+T +P   GDVV  +   Y   +++G     KP++W  H   + N  TY
Sbjct  1940  FDSSKEFVEYKITEWPTATGDVVLANDDLYVKRYERGCITFGKPVIWLSHEKASLNSLTY  1999

Query  1186  KPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLE  1245
                       ++   +   N FDVLK +D     + +    K    E  E   I+   ++
Sbjct  2000  ----------FNRPLLVDDNKFDVLKVDDVDDSGDSSESGAK----ETKEINIIKLSGVK  2045

Query  1246  CNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTL-  1304
                K  +V   +I+    +  K  + +   D+   ++      ++  N LSR + + T+ 
Sbjct  2046  ---KPFKVEDSVIVNDDTSETKYVKSLSIVDVYDMWLTGCKYVVRTANALSRAVNVPTIR  2102

Query  1305  --ATHGLAAVNSVPWDTI-ANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQL  1361
                  G+  V S+P D +     KP +N  V       T      C N++ + F LL   
Sbjct  2103  KFIKFGMTLV-SIPIDLLNLREIKPAVN--VVKAVRNKTSA----CFNFIKWLFVLLFGW  2155

Query  1362  CTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINII--IWFLLLS  1419
                +       K    T IA      +     + +F   K    ++   II  I+ L  +
Sbjct  2156  IKISADN----KVIYTTEIASKLTCKLVALAFKNAFLTFKWSMVARGACIIATIFLLWFN  2211

Query  1420  VCLGSLIYSTAALG--------------VLMSNLGMPSYCTGYREGYLNSTNVTIATYCT  1465
                 ++I+S   L                + +   + + C  Y    +         YC 
Sbjct  2212  FIYANVIFSDFYLPKIGFLPTFVGKIAQWIKNTFSLVTICDLYSIQDVGF----KNQYCN  2267

Query  1466  GSIPCSVCLSGLDSLDTYPSLETIQITISS--FKWDLTAFGLVAEWFLAYILFTRFFYVL  1523
             GSI C  CL+G D LD Y +++ +Q       F        +V E  ++Y L+T +FY L
Sbjct  2268  GSIACQFCLAGFDMLDNYKAIDVVQYEADRRAFVDYTGVLKIVIELIVSYALYTAWFYPL  2327

Query  1524  GLAAIMQLFFSYFAVHFISN--SWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVH  1581
                  +Q+  ++    F+ +   W   L++ L  M P    +R YI  ASF  ++  + H
Sbjct  2328  FALISIQILTTWLPELFMLSTLHWSFRLLVALANMLPAHVFMRFYIIIASFIKLFSLFKH  2387

Query  1582  VVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFC  1641
             V  GC+ S C+ CYKRNR+ RV+C+TIV G+ R + V ANGG GFC  H WNC++CD++ 
Sbjct  2388  VAYGCSKSGCLFCYKRNRSLRVKCSTIVGGMIRYYDVMANGGTGFCSKHQWNCIDCDSYK  2447

Query  1642  AGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLS  1701
              G+TFI+ E A DLS + KRPI PTD + + V  V     S+ L++D+ GQ+ Y+  + S
Sbjct  2448  PGNTFITVEAALDLSKELKRPIQPTDVAYHTVTDVKQVGCSMRLFYDRDGQRIYDDVNAS  2507

Query  1702  HFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSD  1761
              FV+  NL  +  K    ++V+V +  +  ++++  +A+V+Y+Q + +PIL++D+ L++ 
Sbjct  2508  LFVDYSNLLHSKVKSVPNMHVVVVENDA--DKANFLNAAVFYAQSLFRPILMVDKNLITT  2565

Query  1762  VGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQ  1821
                   V   MFD YV+TF S F+V  + L  L+ATA + + +   +  VL TF+S AR+
Sbjct  2566  ANTGTSVTETMFDVYVDTFLSMFDVDKKSLNALIATAHSSIKQGTQIYKVLDTFLSCARK  2625

Query  1822  GF-VDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSARH  1880
                +DSDV+TK + + +  +  + +E+T +SCNN + TY K +N+   DLG  I  SA+H
Sbjct  2626  SCSIDSDVDTKCLADSVMSAVSAGLELTDESCNNLVPTYLKSDNIVAADLGVLIQNSAKH  2685

Query  1881  INAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKI  1940
             +   VAK   ++ IW+V  F   S   + +++ A  K  L  KLT       V+V+TT  
Sbjct  2686  VQGNVAKIAGVSCIWSVDAFNQFSSDFQHKLKKACCKTGLKLKLTYNKQMANVSVLTTPF  2745

Query  1941  ALKGG  1945
             +LKGG
Sbjct  2746  SLKGG  2750


 Score = 197 bits (500),  Expect = 7e-49, Method: Composition-based stats.
 Identities = 59/251 (24%), Positives = 109/251 (43%), Gaps = 17/251 (7%)

Query  215   KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
              +T NV     DI++ +K VK  VVVN AN ++ HGGGVA A+  A       E+ + + 
Sbjct  1272  CITPNVCFVKGDIIKVSKLVKAEVVVNPANGHMVHGGGVAKAIAVAAGQQFVKETTNMVK  1331

Query  275   TNGPLKVGGSCVLSGHNLAKHCLHVVGPNVN--KGEDIQLLKSAYENFNQHEVLLAPLLS  332
             + G    G   V +G  L K  L+VVGP+      +   LL+  Y++FN ++ ++  L+S
Sbjct  1332  SKGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYVLLERVYKHFNNYDCVVTTLIS  1391

Query  333   AGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSFLEMKSEKQVEQKIAEIPKE  391
             AGIF      SL   + T +  V L   ++  +D +       ++  K++  +++     
Sbjct  1392  AGIFSVPSDVSLTYLLGTAKKQVVLVSNNQEDFDLISKCQITAVEGTKKLAARLSFNVGR  1451

Query  392   EVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL------YIDINGNL  445
              +      +K  +                    L++   L  ++ L      ++  N ++
Sbjct  1452  SIVYETDANKLILINDVA--------FVSTFNVLQDVLSLRHDIALDDDARTFVQSNVDV  1503

Query  446   HPDSATLVSDI  456
              P+   +V+  
Sbjct  1504  LPEGWRVVNKF  1514


 Score = 148 bits (373),  Expect = 4e-34, Method: Composition-based stats.
 Identities = 45/183 (25%), Positives = 80/183 (44%), Gaps = 5/183 (3%)

Query  1     APTKVTFGDD-TVIEVQGY-KSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVA  58
             A  +VTF +  TV E+    K + + +ELD   + +LN  C  + V+   ++ EF  VV 
Sbjct  851   AGRRVTFKEQPTVKEIISMPKIIKVFYELDNDFNTILNTACGVFEVDDTVDMEEFYAVVI  910

Query  59    DAVIKTLQPVSEL---LTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEE  115
             DA+ + L P  EL      +   L +      +LFDE+GE   A  +YC+F  P++D+  
Sbjct  911   DAIEEKLSPCKELEGVGAKVSAFLQKLEDNPLFLFDEAGEEVFAPKLYCAFTAPEDDDFL  970

Query  116   GDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDG  175
              + + EE +   +    T        +      ++   E+  ++    + S   V +   
Sbjct  971   EESDVEEDDVEGEETDLTITSAGQPCVASEQEESSEVLEDTLDDGPSVETSDSQVEEDVE  1030

Query  176   SED  178
               D
Sbjct  1031  MSD  1033


 Score = 53.6 bits (127),  Expect = 2e-05, Method: Composition-based stats.
 Identities = 41/196 (21%), Positives = 73/196 (37%), Gaps = 22/196 (11%)

Query  839   KYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILA  898
             ++ +V GL   K   NNC+L + L  +Q++  +F    LQD +   +   +  F   ++ 
Sbjct  1057  EFVKVLGLYVPKATRNNCWLRSVLAVMQKLPCQFKDKNLQDLWVLYKQQYSQLFVDTLVN  1116

Query  899   Y--CNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTL  956
                 N  + + G V +   +      L   + V    C  C      LKG++A+ + G  
Sbjct  1117  KIPANIVLPQGGYVADFAYWFL---TLCDWQCVAYWKCIKCDL-ALKLKGLDAMFFYG--  1170

Query  957   SYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCG  1016
                     V   C CG+     L+  + PF       A + LK   F         Y+  
Sbjct  1171  ------DVVSHICKCGESMV--LIDVDVPFT------AHFALKDKLFCAFITKRIVYKAA  1216

Query  1017  HYKHITSKETLYCIDG  1032
                 +    ++  +DG
Sbjct  1217  CVVDVNDSHSMAVVDG  1232


>sp|P0C6Y2|R1AB_IBVBC Replicase polyprotein 1ab OS=Avian infectious 
bronchitis virus (strain Beaudette CK) OX=160235 GN=rep 
PE=3 SV=1
Length=6629

 Score = 770 bits (1987),  Expect = 0.0, Method: Composition-based stats.
 Identities = 259/1236 (21%), Positives = 465/1236 (38%), Gaps = 188/1236 (15%)

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
             +   ++ T D +   + V+    + G QFG  Y     V      +  + +  YV   D 
Sbjct  1176  KQKTIYLTEDGVKYRSIVLKPGDSLG-QFGQVYAKNKIV--FTADDVEDKEILYVPTTDK  1232

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQ  867
             ++       Y+  D      Y+  L   +KW     +    ++W D NC++++A++ LQ 
Sbjct  1233  SIL-----EYYGLDAQKYVIYLQTL--AQKWNVQYRDNFLILEWRDGNCWISSAIVLLQA  1285

Query  868   IELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCK  927
              +++F    L +A+ +   G+  +F A   A C   VG+  D    ++ L +H + D   
Sbjct  1286  AKIRFK-GFLTEAWAKLLGGDPTDFVAWCYASCTAKVGDFSDANWLLANLAEHFDADYTN  1344

Query  928   RVLNV-VCKTCGQQQTTLKGVEAVM-YMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESP  985
               L   V   CG +   L+G+EA +  +   +   FK       TCG   T  +++   P
Sbjct  1345  AFLKKRVSCNCGIKSYELRGLEACIQPVRATNLLHFKTQYSNCPTCGANNTDEVIEASLP  1404

Query  986   FVMMSAP--PAQYELKHGTFTCASEYTGNYQCGH-YKHITSKETLYCIDGALLTKSSEYK  1042
             ++++ A   PA  +           + G+   GH Y            D     +    K
Sbjct  1405  YLLLFATDGPATVDCDEDAVGT-VVFVGSTNSGHCYTQA----AGQAFDNLAKDRKFGKK  1459

Query  1043  GPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPY  1102
              P     Y   ++         K        +   + N                      
Sbjct  1460  SPYITAMYTRFAFKNETSLPVAKQSKGKSKSVKEDVSNL------------------ATS  1501

Query  1103  PNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
               ASFDN            D  Q   Y       LKV   PD        ++  Y     
Sbjct  1502  SKASFDNL----------TDFEQW--YDSNIYESLKVQESPD--------NFDKYVSF--  1539

Query  1163  KGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLA  1222
                              T + +  P T  +R + S     + + F    + D        
Sbjct  1540  ----------------TTKEDSKLPLTLKVRGIKSVVDFRSKDGFIYKLTPDTD------  1577

Query  1223  CEDLKPVSEEVVENPTIQKDVLECNVK---------TTEVVGDIILKPANNSLKITEEVG  1273
                  PV   V++  +++   +E N           +  +      + A N +K+ +++G
Sbjct  1578  ENSKAPVYYPVLDAISLKAIWVEGNANFVVGHPNYYSKSLHIPTFWENAENFVKMGDKIG  1637

Query  1274  HTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVS  1333
                +     ++    + KPN L R+  +   A  G + V +     I   A    +KV  
Sbjct  1638  GVTMGLWRAEH----LNKPN-LERIFNIAKKAIVGSSVVTTQCGKLIGKAATFIADKVGG  1692

Query  1334  TTTNIVTRCLNRVC--------TNYMPYFF-TLLLQLCTFTRSTNSRIKASMPTTIAKNT  1384
                  +T  +  +C            P F  TL+  L  F +++   + AS  T + K  
Sbjct  1693  GVVRNITDSIKGLCGITRGHFERKMSPQFLKTLMFFLFYFLKASVKSVVASYKTVLCKVV  1752

Query  1385  VKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSY  1444
             + ++                      +I+WF+  S     ++++   +   +  L   S 
Sbjct  1753  LATL----------------------LIVWFVYTS---NPVMFTGIRV---LDFLFEGSL  1784

Query  1445  CTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFG  1504
             C  Y++   +S    +  YC     C VCL   DSL  Y    +++           A G
Sbjct  1785  CGPYKDYGKDS--FDVLRYCADDFICRVCLHDKDSLHLYKHAYSVEQVYKD-----AASG  1837

Query  1505  LVAEWFLAYILFTRFFY--VLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAM  1562
              +  W   Y++F   F   V G   I      Y   + + NS ++   +  +    +  +
Sbjct  1838  FIFNWNWLYLVFLILFVKPVAGFVII-----CYCVKYLVLNSTVLQTGVCFLDWF-VQTV  1891

Query  1563  VRMYIFFASFYYVWKSY-----VHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFY  1617
                + F  + +Y W  Y     VH +  C   TC +C +  R+ R E + +V G ++  +
Sbjct  1892  FSHFNFMGAGFYFWLFYKIYIQVHHILYCKDVTCEVCKRVARSNRQEVSVVVGGRKQIVH  1951

Query  1618  VYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVT  1677
             VY N G  FCK HNW C NCD +   +TF+S EVA +LS + KR + PT  + ++VD   
Sbjct  1952  VYTNSGYNFCKRHNWYCRNCDDYGHQNTFMSPEVAGELSEKLKRHVKPTAYAYHVVDEAC  2011

Query  1678  VKNGSIHLYFD-KAGQKTYERHSLSHFVNLDNL-RANNTKGSLPINVIVFDGKSKCEESS  1735
             + +  ++L +      K     ++  F   D L +A   K +L    I  DG   C   S
Sbjct  2012  LVDDFVNLKYKAATPGKDSASSAVKCFSVTDFLKKAVFLKEALKCEQISNDGFIVCNTQS  2071

Query  1736  ------AKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPME  1789
                   AK+A++YY+Q +C+PIL+LDQAL                     +      P+ 
Sbjct  2072  AHALEEAKNAAIYYAQYLCKPILILDQAL---------------------YEQLVVEPVS  2110

Query  1790  KLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTG  1849
               K+++    + L+  +S+D     + +   +  + S  + ++ V+     H  D++ TG
Sbjct  2111  --KSVIDKVCSILSSIISVDTAALNYKAGTLRDALLSITKDEEAVDMAIFCHNHDVDYTG  2168

Query  1850  DSCNNYMLTY-NKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLR  1908
             D   N + +Y      +TPRD G  I+  A   N +V  +    ++W   + + LS+   
Sbjct  2169  DGFTNVIPSYGIDTGKLTPRDRGFLINADASIANLRVKNAP--PVVWKFSELIKLSDSCL  2226

Query  1909  KQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKG  1944
             K + SA  K+ + F +T +  +QV+   T K+ ++ 
Sbjct  2227  KYLISATVKSGVRFFITKSGAKQVIACHTQKLLVEK  2262


 Score = 148 bits (374),  Expect = 4e-34, Method: Composition-based stats.
 Identities = 69/327 (21%), Positives = 119/327 (36%), Gaps = 29/327 (9%)

Query  108   PPDEDEEEGDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDS-  166
             P +          E+     Q     E D             A +  EE +E  L     
Sbjct  910   PVENSTGSSKTMTEQVVVEDQELPVVEQDQDVVVYTPTDLEVAKETAEEVDEFILIFAVP  969

Query  167   -QQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVV---QTIEVNSFSGYLKLTDNVYI  222
              ++ V Q+DG++  Q    + I  V+PQ E +         T E   F  Y     ++ +
Sbjct  970   KEEVVSQKDGAQIKQ----EPIQVVKPQREKKAKKFKVKPATCEKPKFLEYKTCVGDLTV  1025

Query  223   KNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVG  282
               A  ++E K+     +VNAAN ++ HG GVA A+            +DY+  +GP +  
Sbjct  1026  VIAKALDEFKEF---CIVNAANEHMTHGSGVAKAIADFCGLDFVEYCEDYVKKHGPQQ--  1080

Query  283   GSCVLSGHNLAKHCL-HVVGPNVNKGEDIQLLKSAYENFNQHEVL--LAPLLSAGIFGAD  339
                V         C+ +VVGP        + L +AY+N     V+  + P+LS GIFG D
Sbjct  1081  -RLVTPSFVKGIQCVNNVVGPRHGDNNLHEKLVAAYKNVLVDGVVNYVVPVLSLGIFGVD  1139

Query  340   ---PIHSLRVCVDTVRTNVYLAVFDKNLYDKL------VSSFL--EMKSEKQVEQKIAEI  388
                 I ++R   +     V L    +   D         + +L  +    + +  K  + 
Sbjct  1140  FKMSIDAMREAFEGCTIRVLLFSLSQEHIDYFDVTCKQKTIYLTEDGVKYRSIVLKPGDS  1199

Query  389   PKEEVKPFITESKPSVEQRKQDDKKIK  415
               +  + +            +D + + 
Sbjct  1200  LGQFGQVYAKNKIVFTADDVEDKEILY  1226


 Score = 37.1 bits (84),  Expect = 2.4, Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 26/68 (38%), Gaps = 4/68 (6%)

Query  2    PTKVTFGDDTVIEV--QGYKSVNITFELD-ERIDKVLNEKCS-AYTVELGTEVNEFACVV  57
               VTFG+ TV E+       + ++ E   E  + +  +       V+    V +   V+
Sbjct  674  GKTVTFGETTVQEIPPPDVVPIKVSIECCGEPWNTIFKKAYKEPIEVDTDLTVEQLLSVI  733

Query  58   ADAVIKTL  65
             + +   L
Sbjct  734  YEKMCDDL  741


>sp|P0C6Y1|R1AB_IBVB Replicase polyprotein 1ab OS=Avian infectious 
bronchitis virus (strain Beaudette) OX=11122 GN=rep PE=1 
SV=1
Length=6629

 Score = 770 bits (1987),  Expect = 0.0, Method: Composition-based stats.
 Identities = 259/1236 (21%), Positives = 465/1236 (38%), Gaps = 188/1236 (15%)

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
             +   ++ T D +   + V+    + G QFG  Y     V      +  + +  YV   D 
Sbjct  1176  KQKTIYLTEDGVKYRSIVLKPGDSLG-QFGQVYAKNKIV--FTADDVEDKEILYVPTTDK  1232

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQ  867
             ++       Y+  D      Y+  L   +KW     +    ++W D NC++++A++ LQ 
Sbjct  1233  SIL-----EYYGLDAQKYVIYLQTL--AQKWNVQYRDNFLILEWRDGNCWISSAIVLLQA  1285

Query  868   IELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCK  927
              +++F    L +A+ +   G+  +F A   A C   VG+  D    ++ L +H + D   
Sbjct  1286  AKIRFK-GFLTEAWAKLLGGDPTDFVAWCYASCTAKVGDFSDANWLLANLAEHFDADYTN  1344

Query  928   RVLNV-VCKTCGQQQTTLKGVEAVM-YMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESP  985
               L   V   CG +   L+G+EA +  +   +   FK       TCG   T  +++   P
Sbjct  1345  AFLKKRVSCNCGIKSYELRGLEACIQPVRATNLLHFKTQYSNCPTCGANNTDEVIEASLP  1404

Query  986   FVMMSAP--PAQYELKHGTFTCASEYTGNYQCGH-YKHITSKETLYCIDGALLTKSSEYK  1042
             ++++ A   PA  +           + G+   GH Y            D     +    K
Sbjct  1405  YLLLFATDGPATVDCDEDAVGT-VVFVGSTNSGHCYTQA----AGQAFDNLAKDRKFGKK  1459

Query  1043  GPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPY  1102
              P     Y   ++         K        +   + N                      
Sbjct  1460  SPYITAMYTRFAFKNETSLPVAKQSKGKSKSVKEDVSNL------------------ATS  1501

Query  1103  PNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
               ASFDN            D  Q   Y       LKV   PD        ++  Y     
Sbjct  1502  SKASFDNL----------TDFEQW--YDSNIYESLKVQESPD--------NFDKYVSF--  1539

Query  1163  KGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLA  1222
                              T + +  P T  +R + S     + + F    + D        
Sbjct  1540  ----------------TTKEDSKLPLTLKVRGIKSVVDFRSKDGFIYKLTPDTD------  1577

Query  1223  CEDLKPVSEEVVENPTIQKDVLECNVK---------TTEVVGDIILKPANNSLKITEEVG  1273
                  PV   V++  +++   +E N           +  +      + A N +K+ +++G
Sbjct  1578  ENSKAPVYYPVLDAISLKAIWVEGNANFVVGHPNYYSKSLHIPTFWENAENFVKMGDKIG  1637

Query  1274  HTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVS  1333
                +     ++    + KPN L R+  +   A  G + V +     I   A    +KV  
Sbjct  1638  GVTMGLWRAEH----LNKPN-LERIFNIAKKAIVGSSVVTTQCGKLIGKAATFIADKVGG  1692

Query  1334  TTTNIVTRCLNRVC--------TNYMPYFF-TLLLQLCTFTRSTNSRIKASMPTTIAKNT  1384
                  +T  +  +C            P F  TL+  L  F +++   + AS  T + K  
Sbjct  1693  GVVRNITDSIKGLCGITRGHFERKMSPQFLKTLMFFLFYFLKASVKSVVASYKTVLCKVV  1752

Query  1385  VKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSY  1444
             + ++                      +I+WF+  S     ++++   +   +  L   S 
Sbjct  1753  LATL----------------------LIVWFVYTS---NPVMFTGIRV---LDFLFEGSL  1784

Query  1445  CTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFG  1504
             C  Y++   +S    +  YC     C VCL   DSL  Y    +++           A G
Sbjct  1785  CGPYKDYGKDS--FDVLRYCADDFICRVCLHDKDSLHLYKHAYSVEQVYKD-----AASG  1837

Query  1505  LVAEWFLAYILFTRFFY--VLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAM  1562
              +  W   Y++F   F   V G   I      Y   + + NS ++   +  +    +  +
Sbjct  1838  FIFNWNWLYLVFLILFVKPVAGFVII-----CYCVKYLVLNSTVLQTGVCFLDWF-VQTV  1891

Query  1563  VRMYIFFASFYYVWKSY-----VHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFY  1617
                + F  + +Y W  Y     VH +  C   TC +C +  R+ R E + +V G ++  +
Sbjct  1892  FSHFNFMGAGFYFWLFYKIYIQVHHILYCKDVTCEVCKRVARSNRQEVSVVVGGRKQIVH  1951

Query  1618  VYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVT  1677
             VY N G  FCK HNW C NCD +   +TF+S EVA +LS + KR + PT  + ++VD   
Sbjct  1952  VYTNSGYNFCKRHNWYCRNCDDYGHQNTFMSPEVAGELSEKLKRHVKPTAYAYHVVDEAC  2011

Query  1678  VKNGSIHLYFD-KAGQKTYERHSLSHFVNLDNL-RANNTKGSLPINVIVFDGKSKCEESS  1735
             + +  ++L +      K     ++  F   D L +A   K +L    I  DG   C   S
Sbjct  2012  LVDDFVNLKYKAATPGKDSASSAVKCFSVTDFLKKAVFLKEALKCEQISNDGFIVCNTQS  2071

Query  1736  ------AKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPME  1789
                   AK+A++YY+Q +C+PIL+LDQAL                     +      P+ 
Sbjct  2072  AHALEEAKNAAIYYAQYLCKPILILDQAL---------------------YEQLVVEPVS  2110

Query  1790  KLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTG  1849
               K+++    + L+  +S+D     + +   +  + S  + ++ V+     H  D++ TG
Sbjct  2111  --KSVIDKVCSILSSIISVDTAALNYKAGTLRDALLSITKDEEAVDMAIFCHNHDVDYTG  2168

Query  1850  DSCNNYMLTY-NKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLR  1908
             D   N + +Y      +TPRD G  I+  A   N +V  +    ++W   + + LS+   
Sbjct  2169  DGFTNVIPSYGIDTGKLTPRDRGFLINADASIANLRVKNAP--PVVWKFSELIKLSDSCL  2226

Query  1909  KQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKG  1944
             K + SA  K+ + F +T +  +QV+   T K+ ++ 
Sbjct  2227  KYLISATVKSGVRFFITKSGAKQVIACHTQKLLVEK  2262


 Score = 148 bits (374),  Expect = 4e-34, Method: Composition-based stats.
 Identities = 69/327 (21%), Positives = 119/327 (36%), Gaps = 29/327 (9%)

Query  108   PPDEDEEEGDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDS-  166
             P +          E+     Q     E D             A +  EE +E  L     
Sbjct  910   PVENSTGSSKTMTEQVVVEDQELPVVEQDQDVVVYTPTDLEVAKETAEEVDEFILIFAVP  969

Query  167   -QQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVV---QTIEVNSFSGYLKLTDNVYI  222
              ++ V Q+DG++  Q    + I  V+PQ E +         T E   F  Y     ++ +
Sbjct  970   KEEVVSQKDGAQIKQ----EPIQVVKPQREKKAKKFKVKPATCEKPKFLEYKTCVGDLTV  1025

Query  223   KNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVG  282
               A  ++E K+     +VNAAN ++ HG GVA A+            +DY+  +GP +  
Sbjct  1026  VIAKALDEFKEF---CIVNAANEHMTHGSGVAKAIADFCGLDFVEYCEDYVKKHGPQQ--  1080

Query  283   GSCVLSGHNLAKHCL-HVVGPNVNKGEDIQLLKSAYENFNQHEVL--LAPLLSAGIFGAD  339
                V         C+ +VVGP        + L +AY+N     V+  + P+LS GIFG D
Sbjct  1081  -RLVTPSFVKGIQCVNNVVGPRHGDNNLHEKLVAAYKNVLVDGVVNYVVPVLSLGIFGVD  1139

Query  340   ---PIHSLRVCVDTVRTNVYLAVFDKNLYDKL------VSSFL--EMKSEKQVEQKIAEI  388
                 I ++R   +     V L    +   D         + +L  +    + +  K  + 
Sbjct  1140  FKMSIDAMREAFEGCTIRVLLFSLSQEHIDYFDVTCKQKTIYLTEDGVKYRSIVLKPGDS  1199

Query  389   PKEEVKPFITESKPSVEQRKQDDKKIK  415
               +  + +            +D + + 
Sbjct  1200  LGQFGQVYAKNKIVFTADDVEDKEILY  1226


 Score = 37.1 bits (84),  Expect = 2.4, Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 26/68 (38%), Gaps = 4/68 (6%)

Query  2    PTKVTFGDDTVIEV--QGYKSVNITFELD-ERIDKVLNEKCS-AYTVELGTEVNEFACVV  57
               VTFG+ TV E+       + ++ E   E  + +  +       V+    V +   V+
Sbjct  674  GKTVTFGETTVQEIPPPDVVPIKVSIECCGEPWNTIFKKAYKEPIEVDTDLTVEQLLSVI  733

Query  58   ADAVIKTL  65
             + +   L
Sbjct  734  YEKMCDDL  741


>sp|P0C6V4|R1A_IBVBC Replicase polyprotein 1a OS=Avian infectious 
bronchitis virus (strain Beaudette CK) OX=160235 GN=1a PE=3 
SV=1
Length=3951

 Score = 769 bits (1986),  Expect = 0.0, Method: Composition-based stats.
 Identities = 259/1236 (21%), Positives = 465/1236 (38%), Gaps = 188/1236 (15%)

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
             +   ++ T D +   + V+    + G QFG  Y     V      +  + +  YV   D 
Sbjct  1176  KQKTIYLTEDGVKYRSIVLKPGDSLG-QFGQVYAKNKIV--FTADDVEDKEILYVPTTDK  1232

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQ  867
             ++       Y+  D      Y+  L   +KW     +    ++W D NC++++A++ LQ 
Sbjct  1233  SIL-----EYYGLDAQKYVIYLQTL--AQKWNVQYRDNFLILEWRDGNCWISSAIVLLQA  1285

Query  868   IELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCK  927
              +++F    L +A+ +   G+  +F A   A C   VG+  D    ++ L +H + D   
Sbjct  1286  AKIRFK-GFLTEAWAKLLGGDPTDFVAWCYASCTAKVGDFSDANWLLANLAEHFDADYTN  1344

Query  928   RVLNV-VCKTCGQQQTTLKGVEAVM-YMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESP  985
               L   V   CG +   L+G+EA +  +   +   FK       TCG   T  +++   P
Sbjct  1345  AFLKKRVSCNCGIKSYELRGLEACIQPVRATNLLHFKTQYSNCPTCGANNTDEVIEASLP  1404

Query  986   FVMMSAP--PAQYELKHGTFTCASEYTGNYQCGH-YKHITSKETLYCIDGALLTKSSEYK  1042
             ++++ A   PA  +           + G+   GH Y            D     +    K
Sbjct  1405  YLLLFATDGPATVDCDEDAVGT-VVFVGSTNSGHCYTQA----AGQAFDNLAKDRKFGKK  1459

Query  1043  GPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPY  1102
              P     Y   ++         K        +   + N                      
Sbjct  1460  SPYITAMYTRFAFKNETSLPVAKQSKGKSKSVKEDVSNL------------------ATS  1501

Query  1103  PNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
               ASFDN            D  Q   Y       LKV   PD        ++  Y     
Sbjct  1502  SKASFDNL----------TDFEQW--YDSNIYESLKVQESPD--------NFDKYVSF--  1539

Query  1163  KGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLA  1222
                              T + +  P T  +R + S     + + F    + D        
Sbjct  1540  ----------------TTKEDSKLPLTLKVRGIKSVVDFRSKDGFIYKLTPDTD------  1577

Query  1223  CEDLKPVSEEVVENPTIQKDVLECNVK---------TTEVVGDIILKPANNSLKITEEVG  1273
                  PV   V++  +++   +E N           +  +      + A N +K+ +++G
Sbjct  1578  ENSKAPVYYPVLDAISLKAIWVEGNANFVVGHPNYYSKSLHIPTFWENAENFVKMGDKIG  1637

Query  1274  HTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVS  1333
                +     ++    + KPN L R+  +   A  G + V +     I   A    +KV  
Sbjct  1638  GVTMGLWRAEH----LNKPN-LERIFNIAKKAIVGSSVVTTQCGKLIGKAATFIADKVGG  1692

Query  1334  TTTNIVTRCLNRVC--------TNYMPYFF-TLLLQLCTFTRSTNSRIKASMPTTIAKNT  1384
                  +T  +  +C            P F  TL+  L  F +++   + AS  T + K  
Sbjct  1693  GVVRNITDSIKGLCGITRGHFERKMSPQFLKTLMFFLFYFLKASVKSVVASYKTVLCKVV  1752

Query  1385  VKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSY  1444
             + ++                      +I+WF+  S     ++++   +   +  L   S 
Sbjct  1753  LATL----------------------LIVWFVYTS---NPVMFTGIRV---LDFLFEGSL  1784

Query  1445  CTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFG  1504
             C  Y++   +S    +  YC     C VCL   DSL  Y    +++           A G
Sbjct  1785  CGPYKDYGKDS--FDVLRYCADDFICRVCLHDKDSLHLYKHAYSVEQVYKD-----AASG  1837

Query  1505  LVAEWFLAYILFTRFFY--VLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAM  1562
              +  W   Y++F   F   V G   I      Y   + + NS ++   +  +    +  +
Sbjct  1838  FIFNWNWLYLVFLILFVKPVAGFVII-----CYCVKYLVLNSTVLQTGVCFLDWF-VQTV  1891

Query  1563  VRMYIFFASFYYVWKSY-----VHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFY  1617
                + F  + +Y W  Y     VH +  C   TC +C +  R+ R E + +V G ++  +
Sbjct  1892  FSHFNFMGAGFYFWLFYKIYIQVHHILYCKDVTCEVCKRVARSNRQEVSVVVGGRKQIVH  1951

Query  1618  VYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVT  1677
             VY N G  FCK HNW C NCD +   +TF+S EVA +LS + KR + PT  + ++VD   
Sbjct  1952  VYTNSGYNFCKRHNWYCRNCDDYGHQNTFMSPEVAGELSEKLKRHVKPTAYAYHVVDEAC  2011

Query  1678  VKNGSIHLYFD-KAGQKTYERHSLSHFVNLDNL-RANNTKGSLPINVIVFDGKSKCEESS  1735
             + +  ++L +      K     ++  F   D L +A   K +L    I  DG   C   S
Sbjct  2012  LVDDFVNLKYKAATPGKDSASSAVKCFSVTDFLKKAVFLKEALKCEQISNDGFIVCNTQS  2071

Query  1736  ------AKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPME  1789
                   AK+A++YY+Q +C+PIL+LDQAL                     +      P+ 
Sbjct  2072  AHALEEAKNAAIYYAQYLCKPILILDQAL---------------------YEQLVVEPVS  2110

Query  1790  KLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTG  1849
               K+++    + L+  +S+D     + +   +  + S  + ++ V+     H  D++ TG
Sbjct  2111  --KSVIDKVCSILSSIISVDTAALNYKAGTLRDALLSITKDEEAVDMAIFCHNHDVDYTG  2168

Query  1850  DSCNNYMLTY-NKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLR  1908
             D   N + +Y      +TPRD G  I+  A   N +V  +    ++W   + + LS+   
Sbjct  2169  DGFTNVIPSYGIDTGKLTPRDRGFLINADASIANLRVKNAP--PVVWKFSELIKLSDSCL  2226

Query  1909  KQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKG  1944
             K + SA  K+ + F +T +  +QV+   T K+ ++ 
Sbjct  2227  KYLISATVKSGVRFFITKSGAKQVIACHTQKLLVEK  2262


 Score = 148 bits (374),  Expect = 4e-34, Method: Composition-based stats.
 Identities = 69/327 (21%), Positives = 119/327 (36%), Gaps = 29/327 (9%)

Query  108   PPDEDEEEGDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDS-  166
             P +          E+     Q     E D             A +  EE +E  L     
Sbjct  910   PVENSTGSSKTMTEQVVVEDQELPVVEQDQDVVVYTPTDLEVAKETAEEVDEFILIFAVP  969

Query  167   -QQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVV---QTIEVNSFSGYLKLTDNVYI  222
              ++ V Q+DG++  Q    + I  V+PQ E +         T E   F  Y     ++ +
Sbjct  970   KEEVVSQKDGAQIKQ----EPIQVVKPQREKKAKKFKVKPATCEKPKFLEYKTCVGDLTV  1025

Query  223   KNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVG  282
               A  ++E K+     +VNAAN ++ HG GVA A+            +DY+  +GP +  
Sbjct  1026  VIAKALDEFKEF---CIVNAANEHMTHGSGVAKAIADFCGLDFVEYCEDYVKKHGPQQ--  1080

Query  283   GSCVLSGHNLAKHCL-HVVGPNVNKGEDIQLLKSAYENFNQHEVL--LAPLLSAGIFGAD  339
                V         C+ +VVGP        + L +AY+N     V+  + P+LS GIFG D
Sbjct  1081  -RLVTPSFVKGIQCVNNVVGPRHGDNNLHEKLVAAYKNVLVDGVVNYVVPVLSLGIFGVD  1139

Query  340   ---PIHSLRVCVDTVRTNVYLAVFDKNLYDKL------VSSFL--EMKSEKQVEQKIAEI  388
                 I ++R   +     V L    +   D         + +L  +    + +  K  + 
Sbjct  1140  FKMSIDAMREAFEGCTIRVLLFSLSQEHIDYFDVTCKQKTIYLTEDGVKYRSIVLKPGDS  1199

Query  389   PKEEVKPFITESKPSVEQRKQDDKKIK  415
               +  + +            +D + + 
Sbjct  1200  LGQFGQVYAKNKIVFTADDVEDKEILY  1226


 Score = 37.1 bits (84),  Expect = 2.4, Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 26/68 (38%), Gaps = 4/68 (6%)

Query  2    PTKVTFGDDTVIEV--QGYKSVNITFELD-ERIDKVLNEKCS-AYTVELGTEVNEFACVV  57
               VTFG+ TV E+       + ++ E   E  + +  +       V+    V +   V+
Sbjct  674  GKTVTFGETTVQEIPPPDVVPIKVSIECCGEPWNTIFKKAYKEPIEVDTDLTVEQLLSVI  733

Query  58   ADAVIKTL  65
             + +   L
Sbjct  734  YEKMCDDL  741


>sp|P0C6V3|R1A_IBVB Replicase polyprotein 1a OS=Avian infectious 
bronchitis virus (strain Beaudette) OX=11122 GN=1a PE=1 SV=1
Length=3951

 Score = 769 bits (1986),  Expect = 0.0, Method: Composition-based stats.
 Identities = 259/1236 (21%), Positives = 465/1236 (38%), Gaps = 188/1236 (15%)

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
             +   ++ T D +   + V+    + G QFG  Y     V      +  + +  YV   D 
Sbjct  1176  KQKTIYLTEDGVKYRSIVLKPGDSLG-QFGQVYAKNKIV--FTADDVEDKEILYVPTTDK  1232

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQ  867
             ++       Y+  D      Y+  L   +KW     +    ++W D NC++++A++ LQ 
Sbjct  1233  SIL-----EYYGLDAQKYVIYLQTL--AQKWNVQYRDNFLILEWRDGNCWISSAIVLLQA  1285

Query  868   IELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCK  927
              +++F    L +A+ +   G+  +F A   A C   VG+  D    ++ L +H + D   
Sbjct  1286  AKIRFK-GFLTEAWAKLLGGDPTDFVAWCYASCTAKVGDFSDANWLLANLAEHFDADYTN  1344

Query  928   RVLNV-VCKTCGQQQTTLKGVEAVM-YMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESP  985
               L   V   CG +   L+G+EA +  +   +   FK       TCG   T  +++   P
Sbjct  1345  AFLKKRVSCNCGIKSYELRGLEACIQPVRATNLLHFKTQYSNCPTCGANNTDEVIEASLP  1404

Query  986   FVMMSAP--PAQYELKHGTFTCASEYTGNYQCGH-YKHITSKETLYCIDGALLTKSSEYK  1042
             ++++ A   PA  +           + G+   GH Y            D     +    K
Sbjct  1405  YLLLFATDGPATVDCDEDAVGT-VVFVGSTNSGHCYTQA----AGQAFDNLAKDRKFGKK  1459

Query  1043  GPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPY  1102
              P     Y   ++         K        +   + N                      
Sbjct  1460  SPYITAMYTRFAFKNETSLPVAKQSKGKSKSVKEDVSNL------------------ATS  1501

Query  1103  PNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
               ASFDN            D  Q   Y       LKV   PD        ++  Y     
Sbjct  1502  SKASFDNL----------TDFEQW--YDSNIYESLKVQESPD--------NFDKYVSF--  1539

Query  1163  KGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLA  1222
                              T + +  P T  +R + S     + + F    + D        
Sbjct  1540  ----------------TTKEDSKLPLTLKVRGIKSVVDFRSKDGFIYKLTPDTD------  1577

Query  1223  CEDLKPVSEEVVENPTIQKDVLECNVK---------TTEVVGDIILKPANNSLKITEEVG  1273
                  PV   V++  +++   +E N           +  +      + A N +K+ +++G
Sbjct  1578  ENSKAPVYYPVLDAISLKAIWVEGNANFVVGHPNYYSKSLHIPTFWENAENFVKMGDKIG  1637

Query  1274  HTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVS  1333
                +     ++    + KPN L R+  +   A  G + V +     I   A    +KV  
Sbjct  1638  GVTMGLWRAEH----LNKPN-LERIFNIAKKAIVGSSVVTTQCGKLIGKAATFIADKVGG  1692

Query  1334  TTTNIVTRCLNRVC--------TNYMPYFF-TLLLQLCTFTRSTNSRIKASMPTTIAKNT  1384
                  +T  +  +C            P F  TL+  L  F +++   + AS  T + K  
Sbjct  1693  GVVRNITDSIKGLCGITRGHFERKMSPQFLKTLMFFLFYFLKASVKSVVASYKTVLCKVV  1752

Query  1385  VKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSY  1444
             + ++                      +I+WF+  S     ++++   +   +  L   S 
Sbjct  1753  LATL----------------------LIVWFVYTS---NPVMFTGIRV---LDFLFEGSL  1784

Query  1445  CTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFG  1504
             C  Y++   +S    +  YC     C VCL   DSL  Y    +++           A G
Sbjct  1785  CGPYKDYGKDS--FDVLRYCADDFICRVCLHDKDSLHLYKHAYSVEQVYKD-----AASG  1837

Query  1505  LVAEWFLAYILFTRFFY--VLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAM  1562
              +  W   Y++F   F   V G   I      Y   + + NS ++   +  +    +  +
Sbjct  1838  FIFNWNWLYLVFLILFVKPVAGFVII-----CYCVKYLVLNSTVLQTGVCFLDWF-VQTV  1891

Query  1563  VRMYIFFASFYYVWKSY-----VHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFY  1617
                + F  + +Y W  Y     VH +  C   TC +C +  R+ R E + +V G ++  +
Sbjct  1892  FSHFNFMGAGFYFWLFYKIYIQVHHILYCKDVTCEVCKRVARSNRQEVSVVVGGRKQIVH  1951

Query  1618  VYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVT  1677
             VY N G  FCK HNW C NCD +   +TF+S EVA +LS + KR + PT  + ++VD   
Sbjct  1952  VYTNSGYNFCKRHNWYCRNCDDYGHQNTFMSPEVAGELSEKLKRHVKPTAYAYHVVDEAC  2011

Query  1678  VKNGSIHLYFD-KAGQKTYERHSLSHFVNLDNL-RANNTKGSLPINVIVFDGKSKCEESS  1735
             + +  ++L +      K     ++  F   D L +A   K +L    I  DG   C   S
Sbjct  2012  LVDDFVNLKYKAATPGKDSASSAVKCFSVTDFLKKAVFLKEALKCEQISNDGFIVCNTQS  2071

Query  1736  ------AKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPME  1789
                   AK+A++YY+Q +C+PIL+LDQAL                     +      P+ 
Sbjct  2072  AHALEEAKNAAIYYAQYLCKPILILDQAL---------------------YEQLVVEPVS  2110

Query  1790  KLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTG  1849
               K+++    + L+  +S+D     + +   +  + S  + ++ V+     H  D++ TG
Sbjct  2111  --KSVIDKVCSILSSIISVDTAALNYKAGTLRDALLSITKDEEAVDMAIFCHNHDVDYTG  2168

Query  1850  DSCNNYMLTY-NKVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLR  1908
             D   N + +Y      +TPRD G  I+  A   N +V  +    ++W   + + LS+   
Sbjct  2169  DGFTNVIPSYGIDTGKLTPRDRGFLINADASIANLRVKNAP--PVVWKFSELIKLSDSCL  2226

Query  1909  KQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKG  1944
             K + SA  K+ + F +T +  +QV+   T K+ ++ 
Sbjct  2227  KYLISATVKSGVRFFITKSGAKQVIACHTQKLLVEK  2262


 Score = 148 bits (374),  Expect = 4e-34, Method: Composition-based stats.
 Identities = 69/327 (21%), Positives = 119/327 (36%), Gaps = 29/327 (9%)

Query  108   PPDEDEEEGDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDS-  166
             P +          E+     Q     E D             A +  EE +E  L     
Sbjct  910   PVENSTGSSKTMTEQVVVEDQELPVVEQDQDVVVYTPTDLEVAKETAEEVDEFILIFAVP  969

Query  167   -QQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVV---QTIEVNSFSGYLKLTDNVYI  222
              ++ V Q+DG++  Q    + I  V+PQ E +         T E   F  Y     ++ +
Sbjct  970   KEEVVSQKDGAQIKQ----EPIQVVKPQREKKAKKFKVKPATCEKPKFLEYKTCVGDLTV  1025

Query  223   KNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVG  282
               A  ++E K+     +VNAAN ++ HG GVA A+            +DY+  +GP +  
Sbjct  1026  VIAKALDEFKEF---CIVNAANEHMTHGSGVAKAIADFCGLDFVEYCEDYVKKHGPQQ--  1080

Query  283   GSCVLSGHNLAKHCL-HVVGPNVNKGEDIQLLKSAYENFNQHEVL--LAPLLSAGIFGAD  339
                V         C+ +VVGP        + L +AY+N     V+  + P+LS GIFG D
Sbjct  1081  -RLVTPSFVKGIQCVNNVVGPRHGDNNLHEKLVAAYKNVLVDGVVNYVVPVLSLGIFGVD  1139

Query  340   ---PIHSLRVCVDTVRTNVYLAVFDKNLYDKL------VSSFL--EMKSEKQVEQKIAEI  388
                 I ++R   +     V L    +   D         + +L  +    + +  K  + 
Sbjct  1140  FKMSIDAMREAFEGCTIRVLLFSLSQEHIDYFDVTCKQKTIYLTEDGVKYRSIVLKPGDS  1199

Query  389   PKEEVKPFITESKPSVEQRKQDDKKIK  415
               +  + +            +D + + 
Sbjct  1200  LGQFGQVYAKNKIVFTADDVEDKEILY  1226


 Score = 37.1 bits (84),  Expect = 2.4, Method: Composition-based stats.
 Identities = 13/68 (19%), Positives = 26/68 (38%), Gaps = 4/68 (6%)

Query  2    PTKVTFGDDTVIEV--QGYKSVNITFELD-ERIDKVLNEKCS-AYTVELGTEVNEFACVV  57
               VTFG+ TV E+       + ++ E   E  + +  +       V+    V +   V+
Sbjct  674  GKTVTFGETTVQEIPPPDVVPIKVSIECCGEPWNTIFKKAYKEPIEVDTDLTVEQLLSVI  733

Query  58   ADAVIKTL  65
             + +   L
Sbjct  734  YEKMCDDL  741


>sp|P0C6Y3|R1AB_IBVM Replicase polyprotein 1ab OS=Avian infectious 
bronchitis virus (strain M41) OX=11127 GN=rep PE=1 SV=1
Length=6631

 Score = 745 bits (1924),  Expect = 0.0, Method: Composition-based stats.
 Identities = 255/1236 (21%), Positives = 467/1236 (38%), Gaps = 188/1236 (15%)

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
             +   ++ T D +   + V+    + G QFG  +     V      +  E K    +P  D
Sbjct  1178  KQKTIYLTEDGVKYRSVVLKPGDSLG-QFGQVFARNKVV---FSADDVEDKEILFIPTTD  1233

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQ  867
                +E    Y+  D      Y+  L   +KW     +    ++W D NC++++A++ LQ 
Sbjct  1234  KTILE----YYGLDAQKYVTYLQTL--AQKWDVQYRDNFVILEWRDGNCWISSAIVLLQA  1287

Query  868   IELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCK  927
              +++F    L +A+ +   G+  +F A   A CN  VG+  D    ++ L +H + D   
Sbjct  1288  AKIRFK-GFLAEAWAKLLGGDPTDFVAWCYASCNAKVGDFSDANWLLANLAEHFDADYTN  1346

Query  928   RVLN-VVCKTCGQQQTTLKGVEAVM-YMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESP  985
              +L   V   CG +   L+G+EA +  +   +   FK       TCG  +T  +++   P
Sbjct  1347  ALLKKCVSCNCGVKSYELRGLEACIQPVRAPNLLHFKTQYSNCPTCGASSTDEVIEASLP  1406

Query  986   FVMMSAP--PAQYELKHGTFTCASEYTGNYQCGH-YKHITSKETLYCIDGALLTKSSEYK  1042
             ++++ A   PA  +           + G+   GH Y     K      D     +    K
Sbjct  1407  YLLLFATDGPATVDCDENAVGT-VVFIGSTNSGHCYTQADGKA----FDNLAKDRKFGRK  1461

Query  1043  GPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPY  1102
              P     Y   S  +    +  +        +   + N                      
Sbjct  1462  SPYITAMYTRFSLRSENPLLVVEHSKGKAKVVKEDVSNL------------------ATS  1503

Query  1103  PNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
               ASFD+            D  Q   Y       LKV   PD        +   Y     
Sbjct  1504  SKASFDDL----------TDFEQW--YDSNIYESLKVQETPD--------NLDEYVSF--  1541

Query  1163  KGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLA  1222
                              T + +  P T  +R + S     + + F    + D        
Sbjct  1542  ----------------TTKEDSKLPLTLKVRGIKSVVDFRSKDGFTYKLTPDTD------  1579

Query  1223  CEDLKPVSEEVVENPTIQKDVLECNVK---------TTEVVGDIILKPANNSLKITEEVG  1273
                  PV   V+++ +++   +E +           +  +      + A + +K+  ++ 
Sbjct  1580  ENSKTPVYYPVLDSISLRAIWVEGSANFVVGHPNYYSKSLRIPTFWENAESFVKMGYKID  1639

Query  1274  HTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVS  1333
                +     ++    + KPN L R+  +   A  G + V +     +   A    +KV  
Sbjct  1640  GVTMGLWRAEH----LNKPN-LERIFNIAKKAIVGSSVVTTQCGKILVKAATYVADKVGD  1694

Query  1334  TTTNIVTRCLNRVC---------TNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNT  1384
                  +T  +  +C            + +  TL+     F ++++  + +S    + K  
Sbjct  1695  GVVRNITDRIKGLCGFTRGHFEKKMSLQFLKTLVFFFFYFLKASSKSLVSSYKIVLCKVV  1754

Query  1385  VKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSY  1444
               ++                      +I+WF+  S     ++++   +   +  L   S 
Sbjct  1755  FATL----------------------LIVWFIYTS---NPVVFTGIRV---LDFLFEGSL  1786

Query  1445  CTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFG  1504
             C  Y +   +S    +  YC G   C VCL   DSL  Y    +++           A G
Sbjct  1787  CGPYNDYGKDS--FDVLRYCAGDFTCRVCLHDRDSLHLYKHAYSVEQIYKD-----AASG  1839

Query  1505  LVAEWFLAYILFTRFFY--VLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAM  1562
             +   W   Y++F   F   V G   I      Y   + + +S ++   +  +    +  +
Sbjct  1840  INFNWNWLYLVFLILFVKPVAGFVII-----CYCVKYLVLSSTVLQTGVGFLDWF-VKTV  1893

Query  1563  VRMYIFFASFYYVWKSY-----VHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFY  1617
                + F  + +Y W  Y     VH +  C   TC +C +  R+ R E + +V G ++  +
Sbjct  1894  FTHFNFMGAGFYFWLFYKIYVQVHHILYCKDVTCEVCKRVARSNRQEVSVVVGGRKQIVH  1953

Query  1618  VYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVT  1677
             VY N G  FCK HNW C NCD +   +TF+S EVA +LS + KR + PT  + ++V    
Sbjct  1954  VYTNSGYNFCKRHNWYCRNCDDYGHQNTFMSPEVAGELSEKLKRHVKPTAYAYHVVYEAC  2013

Query  1678  VKNGSIHLYFDKA-GQKTYERHSLSHFVNLDNL-RANNTKGSLPINVIVFDGKSKCEESS  1735
             V +  ++L +  A   K     ++  F   D L +A   K +L    I  DG   C   S
Sbjct  2014  VVDDFVNLKYKAAIPGKDNASSAVKCFSVTDFLKKAVFLKEALKCEQISNDGFIVCNTQS  2073

Query  1736  ------AKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPME  1789
                   AK+A+VYY+Q +C+PIL+LDQAL                     +      P+ 
Sbjct  2074  AHALEEAKNAAVYYAQYLCKPILILDQAL---------------------YEQLIVEPVS  2112

Query  1790  KLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTG  1849
               K+++    + L+  +S+D     + +   +  + S  + ++ V+     H  ++E TG
Sbjct  2113  --KSVIDKVCSILSNIISVDTAALNYKAGTLRDALLSITKDEEAVDMAIFCHNHEVEYTG  2170

Query  1850  DSCNNYMLTYN-KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLR  1908
             D   N + +Y    + +TPRD G  I+  A   N +V  +    ++W   D + LS+   
Sbjct  2171  DGFTNVIPSYGMDTDKLTPRDRGFLINADASIANLRVKNAP--PVVWKFSDLIKLSDSCL  2228

Query  1909  KQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKG  1944
             K + SA  K+   F +T +  +QV++  T K+ ++ 
Sbjct  2229  KYLISATVKSGGRFFITKSGAKQVISCHTQKLLVEK  2264


 Score = 149 bits (376),  Expect = 2e-34, Method: Composition-based stats.
 Identities = 55/262 (21%), Positives = 98/262 (37%), Gaps = 15/262 (6%)

Query  116   GDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDG  175
              D   E+     Q      +  Q   +   A    ++   E+ ++++   +         
Sbjct  918   CDAMAEQAIVEEQEIVPVVEQSQDVVVFTPADLEVVKETAEEVDEFILISAVPKEEVVSQ  977

Query  176   SEDNQTTTIQTIVEVQPQLEMELTPVV---QTIEVNSFSGYLKLTDNVYIKNADIVEEAK  232
              ++      +  + V+ Q E +         T E   F  Y     ++ +  A  ++E K
Sbjct  978   EKEEPQVEQEPTLVVKAQREKKAKKFKVKPATCEKPKFLEYKTCVGDLAVVIAKALDEFK  1037

Query  233   KVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL  292
             +     +VNAAN ++ HGGGVA A+             DY+  +GP +     V      
Sbjct  1038  EF---CIVNAANEHMSHGGGVAKAIADFCGPDFVEYCADYVKKHGPQQ---KLVTPSFVK  1091

Query  293   AKHCL-HVVGPNVNKGEDIQLLKSAYENFNQHEVL--LAPLLSAGIFGAD---PIHSLRV  346
                C+ +VVGP        + L +AY++     V+  + P+LS+GIFG D    I ++R 
Sbjct  1092  GIQCVNNVVGPRHGDSNLREKLVAAYKSVLVGGVVNYVVPVLSSGIFGVDFKISIDAMRE  1151

Query  347   CVDTVRTNVYLAVFDKNLYDKL  368
                     V L    +   D  
Sbjct  1152  AFKGCAIRVLLFSLSQEHIDYF  1173


 Score = 37.5 bits (85),  Expect = 1.9, Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 26/68 (38%), Gaps = 4/68 (6%)

Query  2    PTKVTFGDDTVIEV--QGYKSVNITFELD-ERIDKVLNEKCS-AYTVELGTEVNEFACVV  57
               VTFG+ TV E+       + ++ E   E  + +  +       VE    V +   VV
Sbjct  674  GKTVTFGETTVQEIPPPDVVFIKVSIECCGEPWNTIFKKAYKEPIEVETDLTVEQLLSVV  733

Query  58   ADAVIKTL  65
             + +   L
Sbjct  734  YEKMCDDL  741


>sp|P0C6V5|R1A_IBVM Replicase polyprotein 1a OS=Avian infectious 
bronchitis virus (strain M41) OX=11127 GN=1a PE=1 SV=1
Length=3953

 Score = 745 bits (1923),  Expect = 0.0, Method: Composition-based stats.
 Identities = 255/1236 (21%), Positives = 467/1236 (38%), Gaps = 188/1236 (15%)

Query  748   RTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDD  807
             +   ++ T D +   + V+    + G QFG  +     V      +  E K    +P  D
Sbjct  1178  KQKTIYLTEDGVKYRSVVLKPGDSLG-QFGQVFARNKVV---FSADDVEDKEILFIPTTD  1233

Query  808   TLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQ  867
                +E    Y+  D      Y+  L   +KW     +    ++W D NC++++A++ LQ 
Sbjct  1234  KTILE----YYGLDAQKYVTYLQTL--AQKWDVQYRDNFVILEWRDGNCWISSAIVLLQA  1287

Query  868   IELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCK  927
              +++F    L +A+ +   G+  +F A   A CN  VG+  D    ++ L +H + D   
Sbjct  1288  AKIRFK-GFLAEAWAKLLGGDPTDFVAWCYASCNAKVGDFSDANWLLANLAEHFDADYTN  1346

Query  928   RVLN-VVCKTCGQQQTTLKGVEAVM-YMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESP  985
              +L   V   CG +   L+G+EA +  +   +   FK       TCG  +T  +++   P
Sbjct  1347  ALLKKCVSCNCGVKSYELRGLEACIQPVRAPNLLHFKTQYSNCPTCGASSTDEVIEASLP  1406

Query  986   FVMMSAP--PAQYELKHGTFTCASEYTGNYQCGH-YKHITSKETLYCIDGALLTKSSEYK  1042
             ++++ A   PA  +           + G+   GH Y     K      D     +    K
Sbjct  1407  YLLLFATDGPATVDCDENAVGT-VVFIGSTNSGHCYTQADGKA----FDNLAKDRKFGRK  1461

Query  1043  GPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPY  1102
              P     Y   S  +    +  +        +   + N                      
Sbjct  1462  SPYITAMYTRFSLRSENPLLVVEHSKGKAKVVKEDVSNL------------------ATS  1503

Query  1103  PNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVTFFPDLNGDVVAIDYKHYTPSFK  1162
               ASFD+            D  Q   Y       LKV   PD        +   Y     
Sbjct  1504  SKASFDDL----------TDFEQW--YDSNIYESLKVQETPD--------NLDEYVSF--  1541

Query  1163  KGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLA  1222
                              T + +  P T  +R + S     + + F    + D        
Sbjct  1542  ----------------TTKEDSKLPLTLKVRGIKSVVDFRSKDGFTYKLTPDTD------  1579

Query  1223  CEDLKPVSEEVVENPTIQKDVLECNVK---------TTEVVGDIILKPANNSLKITEEVG  1273
                  PV   V+++ +++   +E +           +  +      + A + +K+  ++ 
Sbjct  1580  ENSKTPVYYPVLDSISLRAIWVEGSANFVVGHPNYYSKSLRIPTFWENAESFVKMGYKID  1639

Query  1274  HTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVS  1333
                +     ++    + KPN L R+  +   A  G + V +     +   A    +KV  
Sbjct  1640  GVTMGLWRAEH----LNKPN-LERIFNIAKKAIVGSSVVTTQCGKILVKAATYVADKVGD  1694

Query  1334  TTTNIVTRCLNRVC---------TNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNT  1384
                  +T  +  +C            + +  TL+     F ++++  + +S    + K  
Sbjct  1695  GVVRNITDRIKGLCGFTRGHFEKKMSLQFLKTLVFFFFYFLKASSKSLVSSYKIVLCKVV  1754

Query  1385  VKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSY  1444
               ++                      +I+WF+  S     ++++   +   +  L   S 
Sbjct  1755  FATL----------------------LIVWFIYTS---NPVVFTGIRV---LDFLFEGSL  1786

Query  1445  CTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFG  1504
             C  Y +   +S    +  YC G   C VCL   DSL  Y    +++           A G
Sbjct  1787  CGPYNDYGKDS--FDVLRYCAGDFTCRVCLHDRDSLHLYKHAYSVEQIYKD-----AASG  1839

Query  1505  LVAEWFLAYILFTRFFY--VLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAM  1562
             +   W   Y++F   F   V G   I      Y   + + +S ++   +  +    +  +
Sbjct  1840  INFNWNWLYLVFLILFVKPVAGFVII-----CYCVKYLVLSSTVLQTGVGFLDWF-VKTV  1893

Query  1563  VRMYIFFASFYYVWKSY-----VHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFY  1617
                + F  + +Y W  Y     VH +  C   TC +C +  R+ R E + +V G ++  +
Sbjct  1894  FTHFNFMGAGFYFWLFYKIYVQVHHILYCKDVTCEVCKRVARSNRQEVSVVVGGRKQIVH  1953

Query  1618  VYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVT  1677
             VY N G  FCK HNW C NCD +   +TF+S EVA +LS + KR + PT  + ++V    
Sbjct  1954  VYTNSGYNFCKRHNWYCRNCDDYGHQNTFMSPEVAGELSEKLKRHVKPTAYAYHVVYEAC  2013

Query  1678  VKNGSIHLYFDKA-GQKTYERHSLSHFVNLDNL-RANNTKGSLPINVIVFDGKSKCEESS  1735
             V +  ++L +  A   K     ++  F   D L +A   K +L    I  DG   C   S
Sbjct  2014  VVDDFVNLKYKAAIPGKDNASSAVKCFSVTDFLKKAVFLKEALKCEQISNDGFIVCNTQS  2073

Query  1736  ------AKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPME  1789
                   AK+A+VYY+Q +C+PIL+LDQAL                     +      P+ 
Sbjct  2074  AHALEEAKNAAVYYAQYLCKPILILDQAL---------------------YEQLIVEPVS  2112

Query  1790  KLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTG  1849
               K+++    + L+  +S+D     + +   +  + S  + ++ V+     H  ++E TG
Sbjct  2113  --KSVIDKVCSILSNIISVDTAALNYKAGTLRDALLSITKDEEAVDMAIFCHNHEVEYTG  2170

Query  1850  DSCNNYMLTYN-KVENMTPRDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLR  1908
             D   N + +Y    + +TPRD G  I+  A   N +V  +    ++W   D + LS+   
Sbjct  2171  DGFTNVIPSYGMDTDKLTPRDRGFLINADASIANLRVKNAP--PVVWKFSDLIKLSDSCL  2228

Query  1909  KQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKG  1944
             K + SA  K+   F +T +  +QV++  T K+ ++ 
Sbjct  2229  KYLISATVKSGGRFFITKSGAKQVISCHTQKLLVEK  2264


 Score = 149 bits (376),  Expect = 2e-34, Method: Composition-based stats.
 Identities = 55/262 (21%), Positives = 98/262 (37%), Gaps = 15/262 (6%)

Query  116   GDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDG  175
              D   E+     Q      +  Q   +   A    ++   E+ ++++   +         
Sbjct  918   CDAMAEQAIVEEQEIVPVVEQSQDVVVFTPADLEVVKETAEEVDEFILISAVPKEEVVSQ  977

Query  176   SEDNQTTTIQTIVEVQPQLEMELTPVV---QTIEVNSFSGYLKLTDNVYIKNADIVEEAK  232
              ++      +  + V+ Q E +         T E   F  Y     ++ +  A  ++E K
Sbjct  978   EKEEPQVEQEPTLVVKAQREKKAKKFKVKPATCEKPKFLEYKTCVGDLAVVIAKALDEFK  1037

Query  233   KVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL  292
             +     +VNAAN ++ HGGGVA A+             DY+  +GP +     V      
Sbjct  1038  EF---CIVNAANEHMSHGGGVAKAIADFCGPDFVEYCADYVKKHGPQQ---KLVTPSFVK  1091

Query  293   AKHCL-HVVGPNVNKGEDIQLLKSAYENFNQHEVL--LAPLLSAGIFGAD---PIHSLRV  346
                C+ +VVGP        + L +AY++     V+  + P+LS+GIFG D    I ++R 
Sbjct  1092  GIQCVNNVVGPRHGDSNLREKLVAAYKSVLVGGVVNYVVPVLSSGIFGVDFKISIDAMRE  1151

Query  347   CVDTVRTNVYLAVFDKNLYDKL  368
                     V L    +   D  
Sbjct  1152  AFKGCAIRVLLFSLSQEHIDYF  1173


 Score = 37.5 bits (85),  Expect = 1.9, Method: Composition-based stats.
 Identities = 15/68 (22%), Positives = 26/68 (38%), Gaps = 4/68 (6%)

Query  2    PTKVTFGDDTVIEV--QGYKSVNITFELD-ERIDKVLNEKCS-AYTVELGTEVNEFACVV  57
               VTFG+ TV E+       + ++ E   E  + +  +       VE    V +   VV
Sbjct  674  GKTVTFGETTVQEIPPPDVVFIKVSIECCGEPWNTIFKKAYKEPIEVETDLTVEQLLSVV  733

Query  58   ADAVIKTL  65
             + +   L
Sbjct  734  YEKMCDDL  741


>sp|P0C6F6|R1A_BC512 Replicase polyprotein 1a OS=Bat coronavirus 
512/2005 OX=693999 GN=1a PE=3 SV=1
Length=4128

 Score = 574 bits (1478),  Expect = 4e-167, Method: Composition-based stats.
 Identities = 193/780 (25%), Positives = 328/780 (42%), Gaps = 79/780 (10%)

Query  1182  KATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQK  1241
              +T    T   + + ST  V  S    VLK     G+D+  C    P+ + VV       
Sbjct  1814  TSTTCDGTCSTKRVVSTPVVNAS----VLKV----GLDDGNCVHGLPLVDRVVSVNGTVI  1865

Query  1242  DVLECNVKTTEVVG-DIILKPANNSLKITEEVGHTDLMAAYVDNSSLT----IKKPNELS  1296
                  +     VV  + +L    +     +          +   + L     + KP +L+
Sbjct  1866  ITNVGDTPGKPVVATENLLLDGVSYTVFQDSTTGVGHYTVFDKEAKLMFDGDVLKPCDLN  1925

Query  1297  RVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIVT--RCLNRVCTNYMPYF  1354
                    +  +    V   P   +   A  FL+ +   +    T    ++R     + Y 
Sbjct  1926  VSPVTSVVVCNNKKIVVQDPVKRVELDASKFLDTMNVASEKFFTFGDFVSRNIIVLIVYL  1985

Query  1355  FTLLLQLCTFTRSTNSRIKASMP---TTIAKNTVK---SVGKFCLEASFNYLKSPNFSKL  1408
             F+LL       +  + ++ A +P     I K +VK      KF     F Y+K       
Sbjct  1986  FSLLAICFRALKKRDMKVMAGVPERTGIILKRSVKYNYKALKFFFRLKFQYIKV------  2039

Query  1409  INIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSI  1468
                   FL  S+ L +L Y+   + +  + +G P  C  Y +GY NST      YC   +
Sbjct  2040  ------FLKFSLVLYTL-YALMFMFIRFTPVGTP-ICKRYTDGYANST-FDKNDYCGN-V  2089

Query  1469  PCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAI  1528
              C +CL G + L  +     I   +      L    L   + +  I+F  FF  +G+   
Sbjct  2090  LCKICLYGYEELSDFTHTRVIWQHLKDP---LIGNILPLFYLVFLIIFGGFFVRIGITYF  2146

Query  1529  MQLFFSY--FAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGC  1586
             +  + +    A+ +  N WL+ L+       P ++M  + +       +     HV+ GC
Sbjct  2147  IMQYINAAGVALGYQDNVWLLHLL-------PFNSMGNIIVVAFIVTRILLFLKHVLFGC  2199

Query  1587  NSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTF  1646
             +  +C+ C K  + TRV   TI+ GV +SFYV ANGGK FCK HN+ CV+CD++  G TF
Sbjct  2200  DKPSCIACSKSAKLTRVPLQTILQGVTKSFYVNANGGKKFCKKHNFFCVDCDSYGYGCTF  2259

Query  1647  ISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNL  1706
             I+D +A +LS   K  + PT  ++ I+D V   NG  +LY      K     + + +   
Sbjct  2260  INDVIAPELSNVTKLNVIPTGPATIIIDKVEFSNGFYYLYSGSTFWKYNFDITEAKYACK  2319

Query  1707  DNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSA  1766
             D L+  N    +  + +VF   S    +  K+A VY+SQL+C+PI L+D AL++ +    
Sbjct  2320  DVLKNCN----ILTDFVVF-NNSGSNVTQVKNACVYFSQLLCKPIKLVDSALLASLN--V  2372

Query  1767  EVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDS  1826
             + +  +  A+V   S++F   +     +                      +  R+    S
Sbjct  2373  DFSANLHKAFVEVLSNSFGKDLSNCSNM----------------------NECRESLGLS  2410

Query  1827  DVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKV-ENMTPRDLGACIDCSARHINAQV  1885
             DV  ++    +  +H+ D+ ++  S NN +++Y K  E +   D+  C+   A+ +N  V
Sbjct  2411  DVPEEEFSAAVSEAHRYDVLISDVSFNNLIVSYAKPEEKLAVHDIANCMRVGAKVVNHNV  2470

Query  1886  AKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
                 N+ ++W  KDF++LSE+ RK I    K   + F LT    R  + + T  +A K G
Sbjct  2471  LTKDNVPVVWLAKDFIALSEEARKYIVRTTKTKGINFMLTFNDRRMHLTIPTISVANKKG  2530


 Score = 237 bits (603),  Expect = 6e-61, Method: Composition-based stats.
 Identities = 88/404 (22%), Positives = 141/404 (35%), Gaps = 45/404 (11%)

Query  708   EFLKRGDKSVYYTSNPTTF------HLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINL  761
             +FLK     +    + + F       + G V     +    +L E + ++V  T D  + 
Sbjct  1596  KFLKLKGSLLVVVEDSSVFNKISHASVAGYVAKPALVD---TLFEAKPVQVVVTQDQRSF  1652

Query  762   HTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTD  821
             HT  +  S TYGQQ G   ++   VT +KP +  +     V+PN     V+  ++Y   D
Sbjct  1653  HTVELSTSQTYGQQLGDCVVEDKKVTNLKPVSKDK--VVSVVPN-----VDWDKHYGFVD  1705

Query  822   PSFLGRYMSALNHTK-KWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDA  880
                       L+HT   +    VNG   ++ +DNNC++    L LQ    KF P  LQ  
Sbjct  1706  AGI----FHTLDHTMFVFDNNVVNGKRVLRTSDNNCWINAVCLQLQFANAKFKPKGLQQL  1761

Query  881   YYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQ  940
             +     G+ A F   +        GE  D   T++ + +         +L     TC   
Sbjct  1762  WESYCTGDVAMFVHWLYWITGVEKGEPSDAENTLNIISRFLKPQGSVEMLRATSTTCDGT  1821

Query  941   QTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVM--MSAPP-----  993
              +T + V   +   ++       G    C  G      +V      ++  +   P     
Sbjct  1822  CSTKRVVSTPVVNASVLKVGLDDG---NCVHGLPLVDRVVSVNGTVIITNVGDTPGKPVV  1878

Query  994   --AQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYK  1051
                   L   ++T   + T     GHY  +  KE     DG +L        P+T V   
Sbjct  1879  ATENLLLDGVSYTVFQDST--TGVGHYT-VFDKEAKLMFDGDVLKPCDLNVSPVTSVVVC  1935

Query  1052  ENSYTTTIKPVTYKLDGVVCTEIDPK--LDNYYKKDNSYFTEQP  1093
              N       PV          E+D    LD        +FT   
Sbjct  1936  NNKKIVVQDPV-------KRVELDASKFLDTMNVASEKFFTFGD  1972


 Score = 179 bits (453),  Expect = 2e-43, Method: Composition-based stats.
 Identities = 73/265 (28%), Positives = 108/265 (41%), Gaps = 19/265 (7%)

Query  175   GSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKV  234
             G    +  TI T+       E+       + +V  F  Y     N+     ++      V
Sbjct  1268  GRHPIKFNTINTLCYKDVDWEVS----NGSCDVKPFLTYK----NIEFYQGELSALLS-V  1318

Query  235   KPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAK  294
                 VVNAAN  L HGGG+A AL+  T   +QV S+ Y++ NG +KVG   ++       
Sbjct  1319  NHDFVVNAANEQLSHGGGIAKALDDLTKGELQVLSNQYVSRNGSIKVGSGVLIKCKE--H  1376

Query  295   HCLHVVGPNVNKGEDIQLLKSAYE-NFNQHEVLLAPLLSAGIFGADPIHSLR---VCVDT  350
               L+VVGP   K    +LL  AY   F Q  V L PLLS GIF      SL     CV  
Sbjct  1377  SILNVVGPRKGKH-AAELLTKAYTFVFKQKGVPLMPLLSVGIFKVPITESLAAFLACVGD  1435

Query  351   VRTNVYLAVFDKNL-YDKLVSSFLEMK--SEKQVEQKIAEIPKEEVKPFITESKPSVEQR  407
                  +     + L     V+SF   +      V Q++  +  E+  P +    P    R
Sbjct  1436  RVCKCFCYTDKERLAIQNFVTSFQTEQPVEPLPVIQEVKGVQLEKPVPDVKVENPCEPFR  1495

Query  408   KQDDKKIKACVEEVTTTLEETKFLT  432
              + D K       +  +L+ T+ ++
Sbjct  1496  IEGDAKFYDLTPSMVQSLQVTRLVS  1520


 Score = 70.2 bits (170),  Expect = 2e-10, Method: Composition-based stats.
 Identities = 36/188 (19%), Positives = 60/188 (32%), Gaps = 14/188 (7%)

Query  833   NHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANF  892
                  + Y    GL  +  + NNC++++AL+ LQ   L  +   +Q       AG  +  
Sbjct  1080  PDVFAFSYASYGGLKVLNQSSNNCWVSSALVQLQLTGL-LDSDEMQL----FNAGRVSPM  1134

Query  893   CALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMY  952
                         G LGDV   +  L +  +  S    ++  C   G +        A+  
Sbjct  1135  VKRCYESQRAIFGSLGDVSACLESLLKDRDGMSITCTIDCGCGP-GVRVYE----NAIFR  1189

Query  953   MGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM-SAPPAQYELKHGTFTCASEYTG  1011
                L        +     C K     + Q +   +    A     +       CA+ Y G
Sbjct  1190  FTPLKT---AFPMGRCLICSKTLMHTITQMKGTGIFCRDATALDVDTLVVKPLCAAVYVG  1246

Query  1012  NYQCGHYK  1019
                 GHY 
Sbjct  1247  AQDGGHYL  1254


 Score = 39.4 bits (90),  Expect = 0.52, Method: Composition-based stats.
 Identities = 38/211 (18%), Positives = 81/211 (38%), Gaps = 22/211 (10%)

Query  5     VTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADAVIK  63
             VT  D+  V  +     V + +E +   D+ L + C      +GT++      V      
Sbjct  900   VTISDEVQVRTIDPVYKVRLEYEFE---DETLVKVC---EKAIGTKLK-----VTGDWSN  948

Query  64    TLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEEEEF  123
              L+ + + +  +   LD   +  Y+++DE G   L   +  S +P   D E  D +  + 
Sbjct  949   LLETLEKAMDVVRQHLD---VPDYFVYDEEGGTDLNLTIMVSQWPLSSDSE-DDFKAVDD  1004

Query  124   EPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEE-DWLDDDSQQTVGQQDGSEDNQTT  182
             EP+        D+      E  A +  +Q +  Q+E + + D   +   +     +  + 
Sbjct  1005  EPN-----ANTDETVDTFAEDVAETQNVQQDVTQDEVEAVCDLVVKATEEGPIEHEELSE  1059

Query  183   TIQTIVEVQPQLEMELTPVVQTIEVNSFSGY  213
               + + +    +E +   V   +   S++ Y
Sbjct  1060  DQKEVQQALAFIEDKPVVVKPDVFAFSYASY  1090


>sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus 
512/2005 OX=693999 GN=rep PE=3 SV=1
Length=6793

 Score = 573 bits (1477),  Expect = 7e-167, Method: Composition-based stats.
 Identities = 193/780 (25%), Positives = 328/780 (42%), Gaps = 79/780 (10%)

Query  1182  KATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLACEDLKPVSEEVVENPTIQK  1241
              +T    T   + + ST  V  S    VLK     G+D+  C    P+ + VV       
Sbjct  1814  TSTTCDGTCSTKRVVSTPVVNAS----VLKV----GLDDGNCVHGLPLVDRVVSVNGTVI  1865

Query  1242  DVLECNVKTTEVVG-DIILKPANNSLKITEEVGHTDLMAAYVDNSSLT----IKKPNELS  1296
                  +     VV  + +L    +     +          +   + L     + KP +L+
Sbjct  1866  ITNVGDTPGKPVVATENLLLDGVSYTVFQDSTTGVGHYTVFDKEAKLMFDGDVLKPCDLN  1925

Query  1297  RVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIVT--RCLNRVCTNYMPYF  1354
                    +  +    V   P   +   A  FL+ +   +    T    ++R     + Y 
Sbjct  1926  VSPVTSVVVCNNKKIVVQDPVKRVELDASKFLDTMNVASEKFFTFGDFVSRNIIVLIVYL  1985

Query  1355  FTLLLQLCTFTRSTNSRIKASMP---TTIAKNTVK---SVGKFCLEASFNYLKSPNFSKL  1408
             F+LL       +  + ++ A +P     I K +VK      KF     F Y+K       
Sbjct  1986  FSLLAICFRALKKRDMKVMAGVPERTGIILKRSVKYNYKALKFFFRLKFQYIKV------  2039

Query  1409  INIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSI  1468
                   FL  S+ L +L Y+   + +  + +G P  C  Y +GY NST      YC   +
Sbjct  2040  ------FLKFSLVLYTL-YALMFMFIRFTPVGTP-ICKRYTDGYANST-FDKNDYCGN-V  2089

Query  1469  PCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAI  1528
              C +CL G + L  +     I   +      L    L   + +  I+F  FF  +G+   
Sbjct  2090  LCKICLYGYEELSDFTHTRVIWQHLKDP---LIGNILPLFYLVFLIIFGGFFVRIGITYF  2146

Query  1529  MQLFFSY--FAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGC  1586
             +  + +    A+ +  N WL+ L+       P ++M  + +       +     HV+ GC
Sbjct  2147  IMQYINAAGVALGYQDNVWLLHLL-------PFNSMGNIIVVAFIVTRILLFLKHVLFGC  2199

Query  1587  NSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTF  1646
             +  +C+ C K  + TRV   TI+ GV +SFYV ANGGK FCK HN+ CV+CD++  G TF
Sbjct  2200  DKPSCIACSKSAKLTRVPLQTILQGVTKSFYVNANGGKKFCKKHNFFCVDCDSYGYGCTF  2259

Query  1647  ISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNL  1706
             I+D +A +LS   K  + PT  ++ I+D V   NG  +LY      K     + + +   
Sbjct  2260  INDVIAPELSNVTKLNVIPTGPATIIIDKVEFSNGFYYLYSGSTFWKYNFDITEAKYACK  2319

Query  1707  DNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSA  1766
             D L+  N    +  + +VF   S    +  K+A VY+SQL+C+PI L+D AL++ +    
Sbjct  2320  DVLKNCN----ILTDFVVF-NNSGSNVTQVKNACVYFSQLLCKPIKLVDSALLASLN--V  2372

Query  1767  EVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDS  1826
             + +  +  A+V   S++F   +     +                      +  R+    S
Sbjct  2373  DFSANLHKAFVEVLSNSFGKDLSNCSNM----------------------NECRESLGLS  2410

Query  1827  DVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKV-ENMTPRDLGACIDCSARHINAQV  1885
             DV  ++    +  +H+ D+ ++  S NN +++Y K  E +   D+  C+   A+ +N  V
Sbjct  2411  DVPEEEFSAAVSEAHRYDVLISDVSFNNLIVSYAKPEEKLAVHDIANCMRVGAKVVNHNV  2470

Query  1886  AKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
                 N+ ++W  KDF++LSE+ RK I    K   + F LT    R  + + T  +A K G
Sbjct  2471  LTKDNVPVVWLAKDFIALSEEARKYIVRTTKTKGINFMLTFNDRRMHLTIPTISVANKKG  2530


 Score = 236 bits (602),  Expect = 8e-61, Method: Composition-based stats.
 Identities = 88/404 (22%), Positives = 141/404 (35%), Gaps = 45/404 (11%)

Query  708   EFLKRGDKSVYYTSNPTTF------HLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINL  761
             +FLK     +    + + F       + G V     +    +L E + ++V  T D  + 
Sbjct  1596  KFLKLKGSLLVVVEDSSVFNKISHASVAGYVAKPALVD---TLFEAKPVQVVVTQDQRSF  1652

Query  762   HTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTD  821
             HT  +  S TYGQQ G   ++   VT +KP +  +     V+PN     V+  ++Y   D
Sbjct  1653  HTVELSTSQTYGQQLGDCVVEDKKVTNLKPVSKDK--VVSVVPN-----VDWDKHYGFVD  1705

Query  822   PSFLGRYMSALNHTK-KWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDA  880
                       L+HT   +    VNG   ++ +DNNC++    L LQ    KF P  LQ  
Sbjct  1706  AGI----FHTLDHTMFVFDNNVVNGKRVLRTSDNNCWINAVCLQLQFANAKFKPKGLQQL  1761

Query  881   YYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQ  940
             +     G+ A F   +        GE  D   T++ + +         +L     TC   
Sbjct  1762  WESYCTGDVAMFVHWLYWITGVEKGEPSDAENTLNIISRFLKPQGSVEMLRATSTTCDGT  1821

Query  941   QTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVM--MSAPP-----  993
              +T + V   +   ++       G    C  G      +V      ++  +   P     
Sbjct  1822  CSTKRVVSTPVVNASVLKVGLDDG---NCVHGLPLVDRVVSVNGTVIITNVGDTPGKPVV  1878

Query  994   --AQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYK  1051
                   L   ++T   + T     GHY  +  KE     DG +L        P+T V   
Sbjct  1879  ATENLLLDGVSYTVFQDST--TGVGHYT-VFDKEAKLMFDGDVLKPCDLNVSPVTSVVVC  1935

Query  1052  ENSYTTTIKPVTYKLDGVVCTEIDPK--LDNYYKKDNSYFTEQP  1093
              N       PV          E+D    LD        +FT   
Sbjct  1936  NNKKIVVQDPV-------KRVELDASKFLDTMNVASEKFFTFGD  1972


 Score = 178 bits (452),  Expect = 3e-43, Method: Composition-based stats.
 Identities = 73/265 (28%), Positives = 108/265 (41%), Gaps = 19/265 (7%)

Query  175   GSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKV  234
             G    +  TI T+       E+       + +V  F  Y     N+     ++      V
Sbjct  1268  GRHPIKFNTINTLCYKDVDWEVS----NGSCDVKPFLTYK----NIEFYQGELSALLS-V  1318

Query  235   KPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAK  294
                 VVNAAN  L HGGG+A AL+  T   +QV S+ Y++ NG +KVG   ++       
Sbjct  1319  NHDFVVNAANEQLSHGGGIAKALDDLTKGELQVLSNQYVSRNGSIKVGSGVLIKCKE--H  1376

Query  295   HCLHVVGPNVNKGEDIQLLKSAYE-NFNQHEVLLAPLLSAGIFGADPIHSLR---VCVDT  350
               L+VVGP   K    +LL  AY   F Q  V L PLLS GIF      SL     CV  
Sbjct  1377  SILNVVGPRKGKH-AAELLTKAYTFVFKQKGVPLMPLLSVGIFKVPITESLAAFLACVGD  1435

Query  351   VRTNVYLAVFDKNL-YDKLVSSFLEMK--SEKQVEQKIAEIPKEEVKPFITESKPSVEQR  407
                  +     + L     V+SF   +      V Q++  +  E+  P +    P    R
Sbjct  1436  RVCKCFCYTDKERLAIQNFVTSFQTEQPVEPLPVIQEVKGVQLEKPVPDVKVENPCEPFR  1495

Query  408   KQDDKKIKACVEEVTTTLEETKFLT  432
              + D K       +  +L+ T+ ++
Sbjct  1496  IEGDAKFYDLTPSMVQSLQVTRLVS  1520


 Score = 70.2 bits (170),  Expect = 2e-10, Method: Composition-based stats.
 Identities = 36/188 (19%), Positives = 60/188 (32%), Gaps = 14/188 (7%)

Query  833   NHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANF  892
                  + Y    GL  +  + NNC++++AL+ LQ   L  +   +Q       AG  +  
Sbjct  1080  PDVFAFSYASYGGLKVLNQSSNNCWVSSALVQLQLTGL-LDSDEMQL----FNAGRVSPM  1134

Query  893   CALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMY  952
                         G LGDV   +  L +  +  S    ++  C   G +        A+  
Sbjct  1135  VKRCYESQRAIFGSLGDVSACLESLLKDRDGMSITCTIDCGCGP-GVRVYE----NAIFR  1189

Query  953   MGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMM-SAPPAQYELKHGTFTCASEYTG  1011
                L        +     C K     + Q +   +    A     +       CA+ Y G
Sbjct  1190  FTPLKT---AFPMGRCLICSKTLMHTITQMKGTGIFCRDATALDVDTLVVKPLCAAVYVG  1246

Query  1012  NYQCGHYK  1019
                 GHY 
Sbjct  1247  AQDGGHYL  1254


 Score = 39.4 bits (90),  Expect = 0.56, Method: Composition-based stats.
 Identities = 38/211 (18%), Positives = 81/211 (38%), Gaps = 22/211 (10%)

Query  5     VTFGDD-TVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADAVIK  63
             VT  D+  V  +     V + +E +   D+ L + C      +GT++      V      
Sbjct  900   VTISDEVQVRTIDPVYKVRLEYEFE---DETLVKVC---EKAIGTKLK-----VTGDWSN  948

Query  64    TLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEEEEF  123
              L+ + + +  +   LD   +  Y+++DE G   L   +  S +P   D E  D +  + 
Sbjct  949   LLETLEKAMDVVRQHLD---VPDYFVYDEEGGTDLNLTIMVSQWPLSSDSE-DDFKAVDD  1004

Query  124   EPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEE-DWLDDDSQQTVGQQDGSEDNQTT  182
             EP+        D+      E  A +  +Q +  Q+E + + D   +   +     +  + 
Sbjct  1005  EPN-----ANTDETVDTFAEDVAETQNVQQDVTQDEVEAVCDLVVKATEEGPIEHEELSE  1059

Query  183   TIQTIVEVQPQLEMELTPVVQTIEVNSFSGY  213
               + + +    +E +   V   +   S++ Y
Sbjct  1060  DQKEVQQALAFIEDKPVVVKPDVFAFSYASY  1090


>sp|P0C6U2|R1A_CVH22 Replicase polyprotein 1a OS=Human coronavirus 
229E OX=11137 GN=1a PE=1 SV=1
Length=4085

 Score = 554 bits (1426),  Expect = 2e-160, Method: Composition-based stats.
 Identities = 169/654 (26%), Positives = 282/654 (43%), Gaps = 66/654 (10%)

Query  1306  THGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVC-------TNYMPYFFTLL  1358
              H L+ ++      +  Y  P          N +     +          N++  FFT L
Sbjct  1882  KHDLSLLSVTSVVMVGGYVAPVNTVKPKPVINQLDEKAQKFFDFGDFLIHNFV-IFFTWL  1940

Query  1359  LQLCTFTRST----NSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIW  1414
             L + T  ++     + +I A  P        +S+ K+ L+AS   LKS           W
Sbjct  1941  LSMFTLCKTAVTTGDVKIMAKAPQRTGVVLKRSL-KYNLKASAAVLKSK----------W  1989

Query  1415  FLLLSVC-LGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVC  1473
             +LL     L  LIY+  ++ +L    G  ++C+    GY  S N     YC GS+ C +C
Sbjct  1990  WLLAKFTKLLLLIYTLYSVVLLCVRFGPFNFCSETVNGYAKS-NFVKDDYCDGSLGCKMC  2048

Query  1474  LSGLDSLDTYPSLETIQITISSFKW-DLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLF  1532
             L G   L  +  L+ +   I+   + ++  F ++    +    + R F +  +A ++   
Sbjct  2049  LFGYQELSQFSHLDVVWKHITDPLFSNMQPFIVMVLLLIFGDNYLRCFLLYFVAQMISTV  2108

Query  1533  FSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCM  1592
               +    +   +W +          P   +    +       V     HV+ GC +  C+
Sbjct  2109  GVFLG--YKETNWFLHF-------IPFDVICDELLVTVIVIKVISFVRHVLFGCENPDCI  2159

Query  1593  MCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVA  1652
              C K  R  R    TIVNGV+RSFYV ANGG  FCK H + CV+CD++  GSTFI+ EV+
Sbjct  2160  ACSKSARLKRFPVNTIVNGVQRSFYVNANGGSKFCKKHRFFCVDCDSYGYGSTFITPEVS  2219

Query  1653  RDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRAN  1712
             R+L    K  + PT  +  ++D V  +NG   LY  +   +     + S +   +  +  
Sbjct  2220  RELGNITKTNVQPTGPAYVMIDKVEFENGFYRLYSCETFWRYNFDITESKYSCKEVFKNC  2279

Query  1713  NTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKM  1772
             N       + IVF+       +  K+ASVY+SQL+C+PI L+D  L+S +  S +    +
Sbjct  2280  NV----LDDFIVFNNNG-TNVTQVKNASVYFSQLLCRPIKLVDSELLSTL--SVDFNGVL  2332

Query  1773  FDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKD  1832
               AY++   ++F      L   ++ AE + A  +S+                       +
Sbjct  2333  HKAYIDVLRNSFGKD---LNANMSLAECKRALGLSI--------------------SDHE  2369

Query  1833  VVECLKLSHQSDIEVTGDSCNNYMLTYNKV-ENMTPRDLGACIDCSARHINAQVAKSHNI  1891
                 +  +H+ D+ ++  S NN++ +Y K  E ++  DL  C+   A+ +NA V      
Sbjct  2370  FTSAISNAHRCDVLLSDLSFNNFVSSYAKPEEKLSAYDLACCMRAGAKVVNANVLTKDQT  2429

Query  1892  ALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              ++W+ KDF SLS + RK I   +K   L F LT    + V  +  T I  K G
Sbjct  2430  PIVWHAKDFNSLSAEGRKYIVKTSKAKGLTFLLTINENQAVTQIPATSIVAKQG  2483


 Score = 267 bits (681),  Expect = 4e-70, Method: Composition-based stats.
 Identities = 127/770 (16%), Positives = 260/770 (34%), Gaps = 71/770 (9%)

Query  323   HEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEK-QV  381
                +    +S G +  + I+S  +CVD    N      +  L    +         +  V
Sbjct  1193  CSSIFRGAVSCGHYQTN-IYSQNLCVDGFGVNKIQPWTNDALNTICIKDADYNAKVEISV  1251

Query  382   EQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLE---ETKFLTENLLLY  438
                   +     + F+ + K +      +    +  V+ V   ++         ENL   
Sbjct  1252  TPIKNTVDTTPKEEFVVKEKLNAFLVHDNVAFYQGDVDTVVNGVDFDFIVNAANENLAHG  1311

Query  439   IDINGNLHPDSATLVSDIDITFLKKDAPYIVGD-VVQEGVLT---AVVIPTKKAGGTTEM  494
               +   L   +   +  +    +       VG  V+ E        VV P +K     ++
Sbjct  1312  GGLAKALDVYTKGKLQRLSKEHIGLAGKVKVGTGVMVECDSLRIFNVVGP-RKGKHERDL  1370

Query  495   LAKALRKVPTDN--YITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPSIISNEKQEILGT  552
             L KA   +  +    +T     G+ G  +E +  VL    +   +    +       +  
Sbjct  1371  LIKAYNTINNEQGTPLTPILSCGIFGIKLETSLEVLLDVCNTKEV---KVFVYTDTEVCK  1427

Query  553   VSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDYGARFYFYTSKTT  612
             V   +  ++   +  +  +         VS I+     +  +   VD    ++       
Sbjct  1428  VKDFVSGLVNVQKVEQPKI-----EPKPVSVIK-----VAPKPYRVDGKFSYF-------  1470

Query  613   VASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVSSPDAVTAYNGYL  672
                L+   +D  + +V     +    L L++    + +  +   +S +  D V       
Sbjct  1471  TEDLLCVADD--KPIVL----FTDSMLTLDDRGLALDN-ALSGVLSAAIKDCVDINKAIP  1523

Query  673   TSS-SKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVYY--TSNPTTFHLD  729
             + +  K      +  + +  S KD        +   +  +     V            L 
Sbjct  1524  SGNLIKFDIGSVVVYMCVVPSEKDKHLDNNVQRCTRKLNRLMCDIVCTIPADYILPLVLS  1583

Query  730   GEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKI  789
                     +   L   E + I +  T D +N+H   V    ++ QQ G       D++  
Sbjct  1584  SLTCNVSFVGE-LKAAEAKVITIKVTEDGVNVHDVTVTTDKSFEQQVGVIADKDKDLSGA  1642

Query  790   KPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTK-KWKYPQVNGLTS  848
              P + +  +          + V+  E+Y   D        + ++H+   ++   VNG+  
Sbjct  1643  VPSDLNTSELL-----TKAIDVDWVEFYGFKD----AVTFATVDHSAFAYESAVVNGIRV  1693

Query  849   IKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELG  908
             +K +DNNC++    + LQ  +  F    L  A+ +   G+   F A +        G+ G
Sbjct  1694  LKTSDNNCWVNAVCIALQYSKPHFISQGLDAAWNKFVLGDVEIFVAFVYYVARLMKGDKG  1753

Query  909   DVRETMSYLFQH-ANLDSCKRVLNVVCKTCGQQ-QTTLKGVEAVMYMGTLSYEQFKKGVQ  966
             D  +T++ L ++ AN    +      C  C  + + ++  + + +   ++  +  + G  
Sbjct  1754  DAEDTLTKLSKYLANEAQVQLEHYSSCVECDAKFKNSVASINSAIVCASVKRDGVQVGY-  1812

Query  967   IPCTCGKQATKYLVQQESPFVMMSA----PPAQYELKHGTFTCASEYTGNYQCGHYK-HI  1021
               C  G +    +       +++S     P AQ  L  G    A  ++G    GHY  + 
Sbjct  1813  --CVHGIKYYSRVRSVRGRAIIVSVEQLEPCAQSRLLSGVAYTA--FSGPVDKGHYTVYD  1868

Query  1022  TSKETLYCIDGALLTKSSEYKGPITDVF----YKENSYTTTIKPVTYKLD  1067
             T+K+++Y  DG    K       +T V     Y     T   KPV  +LD
Sbjct  1869  TAKKSMY--DGDRFVKHDLSLLSVTSVVMVGGYVAPVNTVKPKPVINQLD  1916


 Score = 187 bits (475),  Expect = 5e-46, Method: Composition-based stats.
 Identities = 69/249 (28%), Positives = 108/249 (43%), Gaps = 16/249 (6%)

Query  173   QDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLK--------LTDNVYIKN  224
             Q  + D   T      +   ++E+ +TP+  T++      ++         + DNV    
Sbjct  1226  QPWTNDALNTICIKDADYNAKVEISVTPIKNTVDTTPKEEFVVKEKLNAFLVHDNVAFYQ  1285

Query  225   ADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGS  284
              D+      V    +VNAAN  L HGGG+A AL+  T   +Q  S ++I   G +KVG  
Sbjct  1286  GDVDTVVNGVDFDFIVNAANENLAHGGGLAKALDVYTKGKLQRLSKEHIGLAGKVKVGTG  1345

Query  285   CVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSL  344
              ++   +L     +VVGP   K E   L+K+     N+    L P+LS GIFG     SL
Sbjct  1346  VMVECDSL--RIFNVVGPRKGKHERDLLIKAYNTINNEQGTPLTPILSCGIFGIKLETSL  1403

Query  345   RVCVDTVRTN-VYLAVFDKNLYDK---LVSSFLEMKSEKQ--VEQKIAEIPKEEVKPFIT  398
              V +D   T  V + V+      K    VS  + ++  +Q  +E K   + K   KP+  
Sbjct  1404  EVLLDVCNTKEVKVFVYTDTEVCKVKDFVSGLVNVQKVEQPKIEPKPVSVIKVAPKPYRV  1463

Query  399   ESKPSVEQR  407
             + K S    
Sbjct  1464  DGKFSYFTE  1472


 Score = 104 bits (260),  Expect = 7e-21, Method: Composition-based stats.
 Identities = 55/273 (20%), Positives = 97/273 (36%), Gaps = 28/273 (10%)

Query  839   KYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILA  898
              + ++NGL  +K  DNNC++ + +L +Q   +     A+Q      + G  A        
Sbjct  1037  PFEELNGLKILKQLDNNCWVNSVMLQIQLTGILDGDYAMQF----FKMGRVAKMIERCYT  1092

Query  899   YCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSY  958
                   G +GDV   M  L +  +L +   V++  C     +        AV++      
Sbjct  1093  AEQCIRGAMGDVGLCMYRLLK--DLHTGFMVMDYKCSCTSGRLEES---GAVLFCTPTKK  1147

Query  959   EQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTF----TCASEYTGNYQ  1014
                         C       + Q +   + +   P    +   +F     C+S + G   
Sbjct  1148  ---AFPYGTCLNCNAPRMCTIRQLQGTIIFVQQKPE--PVNPVSFVVKPVCSSIFRGAVS  1202

Query  1015  CGHYKHITSKETLYCIDGALLTKS------SEYKGPITDVFYKENSYTTTIKPVTYKLDG  1068
             CGHY+     + L C+DG  + K       +     I D  Y      +   P+   +D 
Sbjct  1203  CGHYQTNIYSQNL-CVDGFGVNKIQPWTNDALNTICIKDADYNAKVEISVT-PIKNTVDT  1260

Query  1069  VVCTE--IDPKLDNYYKKDNSYFTEQPIDLVPN  1099
                 E  +  KL+ +   DN  F +  +D V N
Sbjct  1261  TPKEEFVVKEKLNAFLVHDNVAFYQGDVDTVVN  1293


>sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavirus 
229E OX=11137 GN=rep PE=1 SV=1
Length=6758

 Score = 554 bits (1426),  Expect = 2e-160, Method: Composition-based stats.
 Identities = 169/654 (26%), Positives = 282/654 (43%), Gaps = 66/654 (10%)

Query  1306  THGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVC-------TNYMPYFFTLL  1358
              H L+ ++      +  Y  P          N +     +          N++  FFT L
Sbjct  1882  KHDLSLLSVTSVVMVGGYVAPVNTVKPKPVINQLDEKAQKFFDFGDFLIHNFV-IFFTWL  1940

Query  1359  LQLCTFTRST----NSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIW  1414
             L + T  ++     + +I A  P        +S+ K+ L+AS   LKS           W
Sbjct  1941  LSMFTLCKTAVTTGDVKIMAKAPQRTGVVLKRSL-KYNLKASAAVLKSK----------W  1989

Query  1415  FLLLSVC-LGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVC  1473
             +LL     L  LIY+  ++ +L    G  ++C+    GY  S N     YC GS+ C +C
Sbjct  1990  WLLAKFTKLLLLIYTLYSVVLLCVRFGPFNFCSETVNGYAKS-NFVKDDYCDGSLGCKMC  2048

Query  1474  LSGLDSLDTYPSLETIQITISSFKW-DLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLF  1532
             L G   L  +  L+ +   I+   + ++  F ++    +    + R F +  +A ++   
Sbjct  2049  LFGYQELSQFSHLDVVWKHITDPLFSNMQPFIVMVLLLIFGDNYLRCFLLYFVAQMISTV  2108

Query  1533  FSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCM  1592
               +    +   +W +          P   +    +       V     HV+ GC +  C+
Sbjct  2109  GVFLG--YKETNWFLHF-------IPFDVICDELLVTVIVIKVISFVRHVLFGCENPDCI  2159

Query  1593  MCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFISDEVA  1652
              C K  R  R    TIVNGV+RSFYV ANGG  FCK H + CV+CD++  GSTFI+ EV+
Sbjct  2160  ACSKSARLKRFPVNTIVNGVQRSFYVNANGGSKFCKKHRFFCVDCDSYGYGSTFITPEVS  2219

Query  1653  RDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLDNLRAN  1712
             R+L    K  + PT  +  ++D V  +NG   LY  +   +     + S +   +  +  
Sbjct  2220  RELGNITKTNVQPTGPAYVMIDKVEFENGFYRLYSCETFWRYNFDITESKYSCKEVFKNC  2279

Query  1713  NTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAEVAVKM  1772
             N       + IVF+       +  K+ASVY+SQL+C+PI L+D  L+S +  S +    +
Sbjct  2280  NV----LDDFIVFNNNG-TNVTQVKNASVYFSQLLCRPIKLVDSELLSTL--SVDFNGVL  2332

Query  1773  FDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSDVETKD  1832
               AY++   ++F      L   ++ AE + A  +S+                       +
Sbjct  2333  HKAYIDVLRNSFGKD---LNANMSLAECKRALGLSI--------------------SDHE  2369

Query  1833  VVECLKLSHQSDIEVTGDSCNNYMLTYNKV-ENMTPRDLGACIDCSARHINAQVAKSHNI  1891
                 +  +H+ D+ ++  S NN++ +Y K  E ++  DL  C+   A+ +NA V      
Sbjct  2370  FTSAISNAHRCDVLLSDLSFNNFVSSYAKPEEKLSAYDLACCMRAGAKVVNANVLTKDQT  2429

Query  1892  ALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
              ++W+ KDF SLS + RK I   +K   L F LT    + V  +  T I  K G
Sbjct  2430  PIVWHAKDFNSLSAEGRKYIVKTSKAKGLTFLLTINENQAVTQIPATSIVAKQG  2483


 Score = 267 bits (681),  Expect = 5e-70, Method: Composition-based stats.
 Identities = 127/770 (16%), Positives = 260/770 (34%), Gaps = 71/770 (9%)

Query  323   HEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEK-QV  381
                +    +S G +  + I+S  +CVD    N      +  L    +         +  V
Sbjct  1193  CSSIFRGAVSCGHYQTN-IYSQNLCVDGFGVNKIQPWTNDALNTICIKDADYNAKVEISV  1251

Query  382   EQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLE---ETKFLTENLLLY  438
                   +     + F+ + K +      +    +  V+ V   ++         ENL   
Sbjct  1252  TPIKNTVDTTPKEEFVVKEKLNAFLVHDNVAFYQGDVDTVVNGVDFDFIVNAANENLAHG  1311

Query  439   IDINGNLHPDSATLVSDIDITFLKKDAPYIVGD-VVQEGVLT---AVVIPTKKAGGTTEM  494
               +   L   +   +  +    +       VG  V+ E        VV P +K     ++
Sbjct  1312  GGLAKALDVYTKGKLQRLSKEHIGLAGKVKVGTGVMVECDSLRIFNVVGP-RKGKHERDL  1370

Query  495   LAKALRKVPTDN--YITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPSIISNEKQEILGT  552
             L KA   +  +    +T     G+ G  +E +  VL    +   +    +       +  
Sbjct  1371  LIKAYNTINNEQGTPLTPILSCGIFGIKLETSLEVLLDVCNTKEV---KVFVYTDTEVCK  1427

Query  553   VSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDYGARFYFYTSKTT  612
             V   +  ++   +  +  +         VS I+     +  +   VD    ++       
Sbjct  1428  VKDFVSGLVNVQKVEQPKI-----EPKPVSVIK-----VAPKPYRVDGKFSYF-------  1470

Query  613   VASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVSSPDAVTAYNGYL  672
                L+   +D  + +V     +    L L++    + +  +   +S +  D V       
Sbjct  1471  TEDLLCVADD--KPIVL----FTDSMLTLDDRGLALDN-ALSGVLSAAIKDCVDINKAIP  1523

Query  673   TSS-SKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVYY--TSNPTTFHLD  729
             + +  K      +  + +  S KD        +   +  +     V            L 
Sbjct  1524  SGNLIKFDIGSVVVYMCVVPSEKDKHLDNNVQRCTRKLNRLMCDIVCTIPADYILPLVLS  1583

Query  730   GEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKI  789
                     +   L   E + I +  T D +N+H   V    ++ QQ G       D++  
Sbjct  1584  SLTCNVSFVGE-LKAAEAKVITIKVTEDGVNVHDVTVTTDKSFEQQVGVIADKDKDLSGA  1642

Query  790   KPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTK-KWKYPQVNGLTS  848
              P + +  +          + V+  E+Y   D        + ++H+   ++   VNG+  
Sbjct  1643  VPSDLNTSELL-----TKAIDVDWVEFYGFKD----AVTFATVDHSAFAYESAVVNGIRV  1693

Query  849   IKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELG  908
             +K +DNNC++    + LQ  +  F    L  A+ +   G+   F A +        G+ G
Sbjct  1694  LKTSDNNCWVNAVCIALQYSKPHFISQGLDAAWNKFVLGDVEIFVAFVYYVARLMKGDKG  1753

Query  909   DVRETMSYLFQH-ANLDSCKRVLNVVCKTCGQQ-QTTLKGVEAVMYMGTLSYEQFKKGVQ  966
             D  +T++ L ++ AN    +      C  C  + + ++  + + +   ++  +  + G  
Sbjct  1754  DAEDTLTKLSKYLANEAQVQLEHYSSCVECDAKFKNSVASINSAIVCASVKRDGVQVGY-  1812

Query  967   IPCTCGKQATKYLVQQESPFVMMSA----PPAQYELKHGTFTCASEYTGNYQCGHYK-HI  1021
               C  G +    +       +++S     P AQ  L  G    A  ++G    GHY  + 
Sbjct  1813  --CVHGIKYYSRVRSVRGRAIIVSVEQLEPCAQSRLLSGVAYTA--FSGPVDKGHYTVYD  1868

Query  1022  TSKETLYCIDGALLTKSSEYKGPITDVF----YKENSYTTTIKPVTYKLD  1067
             T+K+++Y  DG    K       +T V     Y     T   KPV  +LD
Sbjct  1869  TAKKSMY--DGDRFVKHDLSLLSVTSVVMVGGYVAPVNTVKPKPVINQLD  1916


 Score = 187 bits (475),  Expect = 5e-46, Method: Composition-based stats.
 Identities = 69/249 (28%), Positives = 108/249 (43%), Gaps = 16/249 (6%)

Query  173   QDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLK--------LTDNVYIKN  224
             Q  + D   T      +   ++E+ +TP+  T++      ++         + DNV    
Sbjct  1226  QPWTNDALNTICIKDADYNAKVEISVTPIKNTVDTTPKEEFVVKEKLNAFLVHDNVAFYQ  1285

Query  225   ADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGS  284
              D+      V    +VNAAN  L HGGG+A AL+  T   +Q  S ++I   G +KVG  
Sbjct  1286  GDVDTVVNGVDFDFIVNAANENLAHGGGLAKALDVYTKGKLQRLSKEHIGLAGKVKVGTG  1345

Query  285   CVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSL  344
              ++   +L     +VVGP   K E   L+K+     N+    L P+LS GIFG     SL
Sbjct  1346  VMVECDSL--RIFNVVGPRKGKHERDLLIKAYNTINNEQGTPLTPILSCGIFGIKLETSL  1403

Query  345   RVCVDTVRTN-VYLAVFDKNLYDK---LVSSFLEMKSEKQ--VEQKIAEIPKEEVKPFIT  398
              V +D   T  V + V+      K    VS  + ++  +Q  +E K   + K   KP+  
Sbjct  1404  EVLLDVCNTKEVKVFVYTDTEVCKVKDFVSGLVNVQKVEQPKIEPKPVSVIKVAPKPYRV  1463

Query  399   ESKPSVEQR  407
             + K S    
Sbjct  1464  DGKFSYFTE  1472


 Score = 104 bits (260),  Expect = 8e-21, Method: Composition-based stats.
 Identities = 55/273 (20%), Positives = 97/273 (36%), Gaps = 28/273 (10%)

Query  839   KYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILA  898
              + ++NGL  +K  DNNC++ + +L +Q   +     A+Q      + G  A        
Sbjct  1037  PFEELNGLKILKQLDNNCWVNSVMLQIQLTGILDGDYAMQF----FKMGRVAKMIERCYT  1092

Query  899   YCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSY  958
                   G +GDV   M  L +  +L +   V++  C     +        AV++      
Sbjct  1093  AEQCIRGAMGDVGLCMYRLLK--DLHTGFMVMDYKCSCTSGRLEES---GAVLFCTPTKK  1147

Query  959   EQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTF----TCASEYTGNYQ  1014
                         C       + Q +   + +   P    +   +F     C+S + G   
Sbjct  1148  ---AFPYGTCLNCNAPRMCTIRQLQGTIIFVQQKPE--PVNPVSFVVKPVCSSIFRGAVS  1202

Query  1015  CGHYKHITSKETLYCIDGALLTKS------SEYKGPITDVFYKENSYTTTIKPVTYKLDG  1068
             CGHY+     + L C+DG  + K       +     I D  Y      +   P+   +D 
Sbjct  1203  CGHYQTNIYSQNL-CVDGFGVNKIQPWTNDALNTICIKDADYNAKVEISVT-PIKNTVDT  1260

Query  1069  VVCTE--IDPKLDNYYKKDNSYFTEQPIDLVPN  1099
                 E  +  KL+ +   DN  F +  +D V N
Sbjct  1261  TPKEEFVVKEKLNAFLVHDNVAFYQGDVDTVVN  1293


>sp|P0C6V6|R1A_PEDV7 Replicase polyprotein 1a OS=Porcine epidemic 
diarrhea virus (strain CV777) OX=229032 GN=1a PE=1 SV=1
Length=4117

 Score = 537 bits (1383),  Expect = 4e-155, Method: Composition-based stats.
 Identities = 166/743 (22%), Positives = 295/743 (40%), Gaps = 62/743 (8%)

Query  1210  LKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILKPANNSLKIT  1269
             L  ED      L       V +       + K V+  +    + V         N   + 
Sbjct  1829  LGVEDGLCPHGLNYIGKVVVVKGTTIVVNVGKPVVAPSHLFLKGVSYTTFLDNGNG--VV  1886

Query  1270  EEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLN  1329
                   D     V +    +     +S V  +  + +   A V   P       A   L+
Sbjct  1887  GHYTVFDHGTGMVHDGDAFVPGDLNVSPVTNV--VVSEQTAVVIKDPVKKAELDATKLLD  1944

Query  1330  KVVSTTTNIVT--RCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKS  1387
              +   +    +    ++R       Y  ++L       R  + ++ A +P       ++ 
Sbjct  1945  TMNYASERFFSFGDFMSRNLITVFLYILSILGLCFRAFRKRDVKVLAGVPQR-TGIILRK  2003

Query  1388  VGKFCLEASFNYLKSPNFSKLINIIIWFLLLS-VCLG-SLIYSTAALGVLMSNLGMPSYC  1445
               ++  +A   + K          + WF +L    LG   +Y+   + +  + +G P  C
Sbjct  2004  SMRYNAKALGVFFKLK--------LYWFKVLGKFSLGIYALYALLFMTIRFTPIGSP-VC  2054

Query  1446  TGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKW-DLTAFG  1504
                  GY NS+      YC  S+ C VCL G   L  +   + +   +      ++  F 
Sbjct  2055  DDVVAGYANSS-FDKNEYC-NSVICKVCLYGYQELSDFSHTQVVWQHLRDPLIGNVMPFF  2112

Query  1505  LVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVR  1564
              +A   +   ++ +   +  +   +     +           +   I  +Q+ P      
Sbjct  2113  YLAFLAIFGGVYVKAITLYFIFQYLNSLGVFLG---------LQQSIWFLQLVPFDVFGD  2163

Query  1565  MYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGK  1624
               + F     V     HV  GC+ ++C+ C K  R  RV   TI  G  +SFYV+ANGG 
Sbjct  2164  EIVVFFIVTRVLMFIKHVCLGCDKASCVACSKSARLKRVPVQTIFQGTSKSFYVHANGGS  2223

Query  1625  GFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIH  1684
              FCK HN+ C+NCD++  G TFI+D +A ++    K  + PT  ++ ++D V   NG  +
Sbjct  2224  KFCKKHNFFCLNCDSYGPGCTFINDVIATEVGNVVKLNVQPTGPATILIDKVEFSNGFYY  2283

Query  1685  LYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYS  1744
             LY      K     + S +   + L+      S+  + IVF+       +  K+A VY+S
Sbjct  2284  LYSGDTFWKYNFDITDSKYTCKEALK----NCSIITDFIVFNNNG-SNVNQVKNACVYFS  2338

Query  1745  QLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAK  1804
             Q++C+P+ L+D AL++ +  S +    +  A+V+  S++F   +     +      +   
Sbjct  2339  QMLCKPVKLVDSALLASL--SVDFGASLHSAFVSVLSNSFGKDLSSCNDM-----QDCKS  2391

Query  1805  NVSLDNV-LSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVE  1863
              +  D+V L TF +A  +                  +H+ D+ +T  S NN+  +Y K E
Sbjct  2392  TLGFDDVPLDTFNAAVAE------------------AHRYDVLLTDMSFNNFTTSYAKPE  2433

Query  1864  NMTP-RDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPF  1922
                P  D+  C+   A+ +N  V    +I ++W V+DF++LSE+ RK I    K   + F
Sbjct  2434  EKFPVHDIATCMRVGAKIVNHNVLVKDSIPVVWLVRDFIALSEETRKYIIRTTKVKGITF  2493

Query  1923  KLTCATTRQVVNVVTTKIALKGG  1945
              LT    R    + T  IA K G
Sbjct  2494  MLTFNDCRMHTTIPTVCIANKKG  2516


 Score = 280 bits (715),  Expect = 4e-74, Method: Composition-based stats.
 Identities = 140/736 (19%), Positives = 255/736 (35%), Gaps = 85/736 (12%)

Query  365   YDKLVSSFL-EMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTT  423
             YD L +  + ++     +   +  + +  VKPF +        +      +K   + V  
Sbjct  1261  YDTLNTICVKDVNWTAPLVPAVDSVVEPVVKPFYSYKNVD-FYQGDFSDLVKLPCDFVVN  1319

Query  424   TLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVG-DVVQEG---VLT  479
                E       +   ID+       +  ++      ++K   P  VG  V+ E     + 
Sbjct  1320  AANEKLSHGGGIAKAIDV------YTKGMLQKCSNDYIKAHGPIKVGRGVMLEALGLKVF  1373

Query  480   AVVIPTKKAGGTTEMLAKALRKVPTDN--YITTYPGQGLNGYTVEEAKTVLKKCKSAFYI  537
              VV P +K     E+L KA + V  ++   +T     G+    +EE+ +    C    + 
Sbjct  1374  NVVGP-RKGKHAPELLVKAYKSVFANSGVALTPLISVGIFSVPLEESLSAFLACVGDRHC  1432

Query  538   LPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGV  597
                   ++++E +      L + +   E      PV  + +      Q   K +      
Sbjct  1433  KCFCYGDKEREAIIKYMDGLVDAI-FKEALVDTTPVQEDVQ------QVSQKPVLPNFEP  1485

Query  598   VD-YGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPAT  656
                 GA  ++  +   + SL      L          +    L+     + +  +   A 
Sbjct  1486  FRIEGAHAFYECNPEGLMSLGADKLVL----------FTNSNLDFCSVGKCLNDVTSGAL  1535

Query  657   -----VSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLK  711
                  V   S   V A N  +T          +  +   G   D +Y     +  ++  K
Sbjct  1536  LEAINVFKKSNKTVPAGNC-VTLDCANMISITMVVLPFDG---DANYDKNYARAVVKVSK  1591

Query  712   RGDKSVYYTSNPTTFHLD------GEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQV  765
                K V    + T +         G V T D+++   +    +++ +  T D  ++    
Sbjct  1592  LKGKLVLAVDDATLYSKLSHLSVLGFVSTPDDVERFYAN---KSVVIKVTEDTRSVKAVK  1648

Query  766   VDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFL  825
             V+ + TYGQQ GP  ++   VT  KP  +       V+PN +      ++ ++  D +  
Sbjct  1649  VESTATYGQQIGPCLVNDTVVTDNKPVVADV--VAKVVPNAN------WDSHYGFDKAGE  1700

Query  826   GRYMSALNHTK-KWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRA  884
                   L+HT   +    VNG   IK  DNNC++    L LQ    +F    LQ  +   
Sbjct  1701  ---FHMLDHTGFTFPSEVVNGRRVIKTTDNNCWVNVTCLQLQFARFRFKSAGLQAMWESY  1757

Query  885   RAGEAANFCALILAYCNKTVGELGDVRETMSYLFQH---ANLDSCKRVLNVVCKTCGQQQ  941
               G+ A F   +        G+  D    ++ L ++   A   + +RV +  C  C ++ 
Sbjct  1758  CTGDVAMFVHWLYWLTGVDKGQPSDSENALNMLSKYIVPAGSVTIERVTHDGC-CCSKRV  1816

Query  942   TTLKGVEAVMYMGTLSYEQFKKGVQ---IPCTCGKQATKYLVQQESPFVMMSAP---PAQ  995
              T   V A +          K GV+    P          +V+  +  V +  P   P+ 
Sbjct  1817  VTAPVVNASV---------LKLGVEDGLCPHGLNYIGKVVVVKGTTIVVNVGKPVVAPSH  1867

Query  996   YELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSY  1055
               LK  ++T   +  GN   GHY  +    T    DG           P+T+V   E + 
Sbjct  1868  LFLKGVSYTTFLD-NGNGVVGHYT-VFDHGTGMVHDGDAFVPGDLNVSPVTNVVVSEQTA  1925

Query  1056  TTTIKPVTY-KLDGVV  1070
                  PV   +LD   
Sbjct  1926  VVIKDPVKKAELDATK  1941


 Score = 167 bits (422),  Expect = 8e-40, Method: Composition-based stats.
 Identities = 69/277 (25%), Positives = 106/277 (38%), Gaps = 19/277 (7%)

Query  175   GSEDNQTTTIQTIVEVQPQLEMELTPVVQTIE---VNSFSGYLKLTDNVYIKNADIVEEA  231
             G    +  T+ TI          L P V ++    V  F  Y     NV     D  +  
Sbjct  1255  GRHQIKYDTLNTICVKDVNWTAPLVPAVDSVVEPVVKPFYSYK----NVDFYQGDFSDLV  1310

Query  232   KKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHN  291
             K +    VVNAAN  L HGGG+A A++  T   +Q  S+DYI  +GP+KVG   +L    
Sbjct  1311  K-LPCDFVVNAANEKLSHGGGIAKAIDVYTKGMLQKCSNDYIKAHGPIKVGRGVMLEA--  1367

Query  292   LAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTV  351
             L     +VVGP   K     L+K+    F    V L PL+S GIF      SL   +  V
Sbjct  1368  LGLKVFNVVGPRKGKHAPELLVKAYKSVFANSGVALTPLISVGIFSVPLEESLSAFLACV  1427

Query  352   -RTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPS---VEQR  407
                +     +     + ++     +      E  +   P +E    +++          R
Sbjct  1428  GDRHCKCFCYGDKEREAIIKYMDGLVDAIFKEALVDTTPVQEDVQQVSQKPVLPNFEPFR  1487

Query  408   KQDDKKIKACVEEVTTTLEETKFLTENLLLYIDINGN  444
              +       C  E   +L       + L+L+ + N +
Sbjct  1488  IEGAHAFYECNPEGLMSLG-----ADKLVLFTNSNLD  1519


 Score = 65.6 bits (158),  Expect = 6e-09, Method: Composition-based stats.
 Identities = 50/259 (19%), Positives = 88/259 (34%), Gaps = 27/259 (10%)

Query  837   KWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALI  896
              + +    GL  ++ + NNC++ + L+ LQ + +  +P     A     AG         
Sbjct  1072  AFDFVSYGGLKVLRQSHNNCWVTSTLVQLQLLGIVDDP-----AMELFSAGRVGPMVRKC  1126

Query  897   LAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTL  956
                    +G LGDV   +  L +  +L + K   +VVC  CG  +   +G     +  T 
Sbjct  1127  YESQKAILGSLGDVSACLESLTK--DLHTLKITCSVVCG-CGTGERIYEG---CAFRMTP  1180

Query  957   SYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFT--CASEYTGNYQ  1014
             + E F         C +             +          L        CA+ + G   
Sbjct  1181  TLEPF--PYGACAQCAQVLMHTFKSIVGTGIFCRDT-TALSLDSLVVKPLCAAAFIGKDS  1237

Query  1015  CGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEI  1074
              GHY      +    IDG    +       +  +  K+ ++T    P+   +D VV   +
Sbjct  1238  -GHYVTNF-YDAAMAIDG--YGRHQIKYDTLNTICVKDVNWTA---PLVPAVDSVVEPVV  1290

Query  1075  DPKLDNYYKKDNSYFTEQP  1093
              P    +Y   N  F +  
Sbjct  1291  KP----FYSYKNVDFYQGD  1305


>sp|P0C6Y4|R1AB_PEDV7 Replicase polyprotein 1ab OS=Porcine epidemic 
diarrhea virus (strain CV777) OX=229032 GN=rep PE=1 SV=1
Length=6781

 Score = 537 bits (1384),  Expect = 4e-155, Method: Composition-based stats.
 Identities = 166/743 (22%), Positives = 295/743 (40%), Gaps = 62/743 (8%)

Query  1210  LKSEDAQGMDNLACEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILKPANNSLKIT  1269
             L  ED      L       V +       + K V+  +    + V         N   + 
Sbjct  1829  LGVEDGLCPHGLNYIGKVVVVKGTTIVVNVGKPVVAPSHLFLKGVSYTTFLDNGNG--VV  1886

Query  1270  EEVGHTDLMAAYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLN  1329
                   D     V +    +     +S V  +  + +   A V   P       A   L+
Sbjct  1887  GHYTVFDHGTGMVHDGDAFVPGDLNVSPVTNV--VVSEQTAVVIKDPVKKAELDATKLLD  1944

Query  1330  KVVSTTTNIVT--RCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKS  1387
              +   +    +    ++R       Y  ++L       R  + ++ A +P       ++ 
Sbjct  1945  TMNYASERFFSFGDFMSRNLITVFLYILSILGLCFRAFRKRDVKVLAGVPQR-TGIILRK  2003

Query  1388  VGKFCLEASFNYLKSPNFSKLINIIIWFLLLS-VCLG-SLIYSTAALGVLMSNLGMPSYC  1445
               ++  +A   + K          + WF +L    LG   +Y+   + +  + +G P  C
Sbjct  2004  SMRYNAKALGVFFKLK--------LYWFKVLGKFSLGIYALYALLFMTIRFTPIGSP-VC  2054

Query  1446  TGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKW-DLTAFG  1504
                  GY NS+      YC  S+ C VCL G   L  +   + +   +      ++  F 
Sbjct  2055  DDVVAGYANSS-FDKNEYC-NSVICKVCLYGYQELSDFSHTQVVWQHLRDPLIGNVMPFF  2112

Query  1505  LVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVR  1564
              +A   +   ++ +   +  +   +     +           +   I  +Q+ P      
Sbjct  2113  YLAFLAIFGGVYVKAITLYFIFQYLNSLGVFLG---------LQQSIWFLQLVPFDVFGD  2163

Query  1565  MYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGK  1624
               + F     V     HV  GC+ ++C+ C K  R  RV   TI  G  +SFYV+ANGG 
Sbjct  2164  EIVVFFIVTRVLMFIKHVCLGCDKASCVACSKSARLKRVPVQTIFQGTSKSFYVHANGGS  2223

Query  1625  GFCKLHNWNCVNCDTFCAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIH  1684
              FCK HN+ C+NCD++  G TFI+D +A ++    K  + PT  ++ ++D V   NG  +
Sbjct  2224  KFCKKHNFFCLNCDSYGPGCTFINDVIATEVGNVVKLNVQPTGPATILIDKVEFSNGFYY  2283

Query  1685  LYFDKAGQKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYS  1744
             LY      K     + S +   + L+      S+  + IVF+       +  K+A VY+S
Sbjct  2284  LYSGDTFWKYNFDITDSKYTCKEALK----NCSIITDFIVFNNNG-SNVNQVKNACVYFS  2338

Query  1745  QLMCQPILLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAK  1804
             Q++C+P+ L+D AL++ +  S +    +  A+V+  S++F   +     +      +   
Sbjct  2339  QMLCKPVKLVDSALLASL--SVDFGASLHSAFVSVLSNSFGKDLSSCNDM-----QDCKS  2391

Query  1805  NVSLDNV-LSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVE  1863
              +  D+V L TF +A  +                  +H+ D+ +T  S NN+  +Y K E
Sbjct  2392  TLGFDDVPLDTFNAAVAE------------------AHRYDVLLTDMSFNNFTTSYAKPE  2433

Query  1864  NMTP-RDLGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPF  1922
                P  D+  C+   A+ +N  V    +I ++W V+DF++LSE+ RK I    K   + F
Sbjct  2434  EKFPVHDIATCMRVGAKIVNHNVLVKDSIPVVWLVRDFIALSEETRKYIIRTTKVKGITF  2493

Query  1923  KLTCATTRQVVNVVTTKIALKGG  1945
              LT    R    + T  IA K G
Sbjct  2494  MLTFNDCRMHTTIPTVCIANKKG  2516


 Score = 280 bits (715),  Expect = 4e-74, Method: Composition-based stats.
 Identities = 140/736 (19%), Positives = 255/736 (35%), Gaps = 85/736 (12%)

Query  365   YDKLVSSFL-EMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTT  423
             YD L +  + ++     +   +  + +  VKPF +        +      +K   + V  
Sbjct  1261  YDTLNTICVKDVNWTAPLVPAVDSVVEPVVKPFYSYKNVD-FYQGDFSDLVKLPCDFVVN  1319

Query  424   TLEETKFLTENLLLYIDINGNLHPDSATLVSDIDITFLKKDAPYIVG-DVVQEG---VLT  479
                E       +   ID+       +  ++      ++K   P  VG  V+ E     + 
Sbjct  1320  AANEKLSHGGGIAKAIDV------YTKGMLQKCSNDYIKAHGPIKVGRGVMLEALGLKVF  1373

Query  480   AVVIPTKKAGGTTEMLAKALRKVPTDN--YITTYPGQGLNGYTVEEAKTVLKKCKSAFYI  537
              VV P +K     E+L KA + V  ++   +T     G+    +EE+ +    C    + 
Sbjct  1374  NVVGP-RKGKHAPELLVKAYKSVFANSGVALTPLISVGIFSVPLEESLSAFLACVGDRHC  1432

Query  538   LPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGV  597
                   ++++E +      L + +   E      PV  + +      Q   K +      
Sbjct  1433  KCFCYGDKEREAIIKYMDGLVDAI-FKEALVDTTPVQEDVQ------QVSQKPVLPNFEP  1485

Query  598   VD-YGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPAT  656
                 GA  ++  +   + SL      L          +    L+     + +  +   A 
Sbjct  1486  FRIEGAHAFYECNPEGLMSLGADKLVL----------FTNSNLDFCSVGKCLNDVTSGAL  1535

Query  657   -----VSVSSPDAVTAYNGYLTSSSKTPEEHFIETISLAGSYKDWSYSGQSTQLGIEFLK  711
                  V   S   V A N  +T          +  +   G   D +Y     +  ++  K
Sbjct  1536  LEAINVFKKSNKTVPAGNC-VTLDCANMISITMVVLPFDG---DANYDKNYARAVVKVSK  1591

Query  712   RGDKSVYYTSNPTTFHLD------GEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQV  765
                K V    + T +         G V T D+++   +    +++ +  T D  ++    
Sbjct  1592  LKGKLVLAVDDATLYSKLSHLSVLGFVSTPDDVERFYAN---KSVVIKVTEDTRSVKAVK  1648

Query  766   VDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFL  825
             V+ + TYGQQ GP  ++   VT  KP  +       V+PN +      ++ ++  D +  
Sbjct  1649  VESTATYGQQIGPCLVNDTVVTDNKPVVADV--VAKVVPNAN------WDSHYGFDKAGE  1700

Query  826   GRYMSALNHTK-KWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRA  884
                   L+HT   +    VNG   IK  DNNC++    L LQ    +F    LQ  +   
Sbjct  1701  ---FHMLDHTGFTFPSEVVNGRRVIKTTDNNCWVNVTCLQLQFARFRFKSAGLQAMWESY  1757

Query  885   RAGEAANFCALILAYCNKTVGELGDVRETMSYLFQH---ANLDSCKRVLNVVCKTCGQQQ  941
               G+ A F   +        G+  D    ++ L ++   A   + +RV +  C  C ++ 
Sbjct  1758  CTGDVAMFVHWLYWLTGVDKGQPSDSENALNMLSKYIVPAGSVTIERVTHDGC-CCSKRV  1816

Query  942   TTLKGVEAVMYMGTLSYEQFKKGVQ---IPCTCGKQATKYLVQQESPFVMMSAP---PAQ  995
              T   V A +          K GV+    P          +V+  +  V +  P   P+ 
Sbjct  1817  VTAPVVNASV---------LKLGVEDGLCPHGLNYIGKVVVVKGTTIVVNVGKPVVAPSH  1867

Query  996   YELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSY  1055
               LK  ++T   +  GN   GHY  +    T    DG           P+T+V   E + 
Sbjct  1868  LFLKGVSYTTFLD-NGNGVVGHYT-VFDHGTGMVHDGDAFVPGDLNVSPVTNVVVSEQTA  1925

Query  1056  TTTIKPVTY-KLDGVV  1070
                  PV   +LD   
Sbjct  1926  VVIKDPVKKAELDATK  1941


 Score = 167 bits (422),  Expect = 9e-40, Method: Composition-based stats.
 Identities = 69/277 (25%), Positives = 106/277 (38%), Gaps = 19/277 (7%)

Query  175   GSEDNQTTTIQTIVEVQPQLEMELTPVVQTIE---VNSFSGYLKLTDNVYIKNADIVEEA  231
             G    +  T+ TI          L P V ++    V  F  Y     NV     D  +  
Sbjct  1255  GRHQIKYDTLNTICVKDVNWTAPLVPAVDSVVEPVVKPFYSYK----NVDFYQGDFSDLV  1310

Query  232   KKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHN  291
             K +    VVNAAN  L HGGG+A A++  T   +Q  S+DYI  +GP+KVG   +L    
Sbjct  1311  K-LPCDFVVNAANEKLSHGGGIAKAIDVYTKGMLQKCSNDYIKAHGPIKVGRGVMLEA--  1367

Query  292   LAKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTV  351
             L     +VVGP   K     L+K+    F    V L PL+S GIF      SL   +  V
Sbjct  1368  LGLKVFNVVGPRKGKHAPELLVKAYKSVFANSGVALTPLISVGIFSVPLEESLSAFLACV  1427

Query  352   -RTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPS---VEQR  407
                +     +     + ++     +      E  +   P +E    +++          R
Sbjct  1428  GDRHCKCFCYGDKEREAIIKYMDGLVDAIFKEALVDTTPVQEDVQQVSQKPVLPNFEPFR  1487

Query  408   KQDDKKIKACVEEVTTTLEETKFLTENLLLYIDINGN  444
              +       C  E   +L       + L+L+ + N +
Sbjct  1488  IEGAHAFYECNPEGLMSLG-----ADKLVLFTNSNLD  1519


 Score = 65.6 bits (158),  Expect = 6e-09, Method: Composition-based stats.
 Identities = 50/259 (19%), Positives = 88/259 (34%), Gaps = 27/259 (10%)

Query  837   KWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALI  896
              + +    GL  ++ + NNC++ + L+ LQ + +  +P     A     AG         
Sbjct  1072  AFDFVSYGGLKVLRQSHNNCWVTSTLVQLQLLGIVDDP-----AMELFSAGRVGPMVRKC  1126

Query  897   LAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTL  956
                    +G LGDV   +  L +  +L + K   +VVC  CG  +   +G     +  T 
Sbjct  1127  YESQKAILGSLGDVSACLESLTK--DLHTLKITCSVVCG-CGTGERIYEG---CAFRMTP  1180

Query  957   SYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAPPAQYELKHGTFT--CASEYTGNYQ  1014
             + E F         C +             +          L        CA+ + G   
Sbjct  1181  TLEPF--PYGACAQCAQVLMHTFKSIVGTGIFCRDT-TALSLDSLVVKPLCAAAFIGKDS  1237

Query  1015  CGHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEI  1074
              GHY      +    IDG    +       +  +  K+ ++T    P+   +D VV   +
Sbjct  1238  -GHYVTNF-YDAAMAIDG--YGRHQIKYDTLNTICVKDVNWTA---PLVPAVDSVVEPVV  1290

Query  1075  DPKLDNYYKKDNSYFTEQP  1093
              P    +Y   N  F +  
Sbjct  1291  KP----FYSYKNVDFYQGD  1305


>sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavirus 
NL63 OX=277944 GN=rep PE=1 SV=1
Length=6729

 Score = 525 bits (1351),  Expect = 6e-151, Method: Composition-based stats.
 Identities = 153/659 (23%), Positives = 272/659 (41%), Gaps = 59/659 (9%)

Query  1293  NELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMP  1352
             ++LS +     +   G    N     TI +     ++K+ +               N + 
Sbjct  1856  SDLSTLAVTAIVVVGGCVTSN---VPTIVSEKISVMDKLDTGAQKFFQ--FGDFVMNNIV  1910

Query  1353  YFFTLLLQLCTFTRST----NSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKL  1408
              F T LL + +  R++    + ++ A  P        +S  K+ + ++   +K       
Sbjct  1911  LFLTWLLSMFSLLRTSIMKHDIKVIAKAPKRTGVILTRS-FKYNIRSALFVIKQK-----  1964

Query  1409  INIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSI  1468
               +I+   L    L           ++  +      C     GY  ST      YC  S+
Sbjct  1965  WCVIV--TLFKFLLLLYAIYALVFMIVQFSPFNSLLCGDIVSGYEKST-FNKDIYCGNSM  2021

Query  1469  PCSVCLSGLDSLDTYPSLETIQITISSF-KWDLTAFGLVAEWFLAYILFTRFFYVLGLAA  1527
              C +CL      +       +   I       L  F ++    +   ++ RF  +  +A 
Sbjct  2022  VCKMCLFSYQEFNDLDHTSLVWKHIRDPILISLQPFVILVILLIFGNMYLRFGLLYFVAQ  2081

Query  1528  IMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCN  1587
              +  F S+   H     W +          P   +   ++       +     H++ GCN
Sbjct  2082  FISTFGSFLGFH--QKQWFLHF-------VPFDVLCNEFLATFIVCKIVLFVRHIIVGCN  2132

Query  1588  SSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFI  1647
             ++ C+ C K  R  RV   TI+NG+ +SFYV ANGG  FC  HN+ CVNCD+F  G+TFI
Sbjct  2133  NADCVACSKSARLKRVPLQTIINGMHKSFYVNANGGTCFCNKHNFFCVNCDSFGPGNTFI  2192

Query  1648  SDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLD  1707
             + ++AR+L    K  + PT  +  I+D V   NG   LY      +     + S +   +
Sbjct  2193  NGDIARELGNVVKTAVQPTAPAYVIIDKVDFVNGFYRLYSGDTFWRYDFDITESKYSCKE  2252

Query  1708  NLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAE  1767
              L+  N       N IV++  S    +  K+A VY+SQL+C+PI L++  L+S +  S +
Sbjct  2253  VLKNCNV----LENFIVYNN-SGSNITQIKNACVYFSQLLCEPIKLVNSELLSTL--SVD  2305

Query  1768  VAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSD  1827
                 +  AYV+   ++F    ++L   ++ AE +    ++                    
Sbjct  2306  FNGVLHKAYVDVLCNSF---FKELTANMSMAECKATLGLT--------------------  2342

Query  1828  VETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKV-ENMTPRDLGACIDCSARHINAQVA  1886
             V   D V  +  +H+ D+ ++  S NN+ ++Y K  + ++  D+  C+   ++ +N  V 
Sbjct  2343  VSDDDFVSAVANAHRYDVLLSDLSFNNFFISYAKPEDKLSVYDIACCMRAGSKVVNHNVL  2402

Query  1887  KSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
                +I ++W VKDF +LS++ +K +    K   L F LT    + +  V  T I  K G
Sbjct  2403  IKESIPIVWGVKDFNTLSQEGKKYLVKTTKAKGLTFLLTFNDNQAITQVPATSIVAKQG  2461


 Score = 181 bits (458),  Expect = 7e-44, Method: Composition-based stats.
 Identities = 79/396 (20%), Positives = 137/396 (35%), Gaps = 27/396 (7%)

Query  749   TIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDT  808
              + +  T D IN+   VV+ S + G+Q G    DG D        S EG    +  N DT
Sbjct  1581  NVVLKITEDGINVKDVVVESSKSLGKQLGVVS-DGVD--------SFEGV---LPINTDT  1628

Query  809   LRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQ--VNGLTSIKWADNNCYLATALLTLQ  866
             +   A E        F    + A    K + YP   V G   +   DNNC++    + LQ
Sbjct  1629  VLSVAPEVDWVAFYGFEKAALFASLDVKPYGYPNDFVGGFRVLGTTDNNCWVNATCIILQ  1688

Query  867   QIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDS-  925
              ++  F    L   + +   G+   F + I      + G+ GD  E +S L ++   DS 
Sbjct  1689  YLKPTFKSKGLNVLWNKFVTGDVGPFVSFIYFITMSSKGQKGDAEEALSKLSEYLISDSI  1748

Query  926   CKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESP  985
                     C  C   ++T+  V++ +   ++  +    G    C    +    +      
Sbjct  1749  VTLEQYSTCDIC---KSTVVEVKSAIVCASVLKDGCDVGF---CPHRHKLRSRVKFVNGR  1802

Query  986   FVM--MSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKG  1043
              V+  +  P      K       + ++G++  GHY  +         DGA L  S     
Sbjct  1803  VVITNVGEPIISQPSKLLNGIAYTTFSGSFDNGHYV-VYDAANNAVYDGARLFSSDLSTL  1861

Query  1044  PITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP  1103
              +T +       T+   P        V  ++D     +++  +  F    I L       
Sbjct  1862  AVTAIVVVGGCVTSN-VPTIVSEKISVMDKLDTGAQKFFQFGD--FVMNNIVLFLTWLLS  1918

Query  1104  NASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKV  1139
               S      +  +IK      + TG     S +  +
Sbjct  1919  MFSLLRTSIMKHDIKVIAKAPKRTGVILTRSFKYNI  1954


 Score = 174 bits (441),  Expect = 5e-42, Method: Composition-based stats.
 Identities = 78/309 (25%), Positives = 126/309 (41%), Gaps = 27/309 (9%)

Query  175   GSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKV  234
             G  D + +++ T+  V        +  ++  EV  F+ Y     NV     DI      V
Sbjct  1228  GVFDIKNSSVNTVCFVDVDFH---SVEIEAGEVKPFAVYK----NVKFYLGDISHLVNCV  1280

Query  235   KPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAK  294
                 VVNAAN  L HGGGVA A++  T   +Q  S DYI++NGPLKVG   +L       
Sbjct  1281  SFDFVVNAANENLLHGGGVARAIDILTEGQLQSLSKDYISSNGPLKVGAGVMLECEKF--  1338

Query  295   HCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTN  354
             +  +VVGP   K E   L+++      ++ + L PLLS GIFG    +SL+         
Sbjct  1339  NVFNVVGPRTGKHEHSLLVEAYNSILFENGIPLMPLLSCGIFGVRIENSLKALFSC----  1394

Query  355   VYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKI  414
                        +K +  F+   +E+Q   K   +   ++ P I +       R + +   
Sbjct  1395  ---------DINKPLQVFVYSSNEEQAVLKF--LDGLDLTPVIDDVDVVKPFRVEGNFSF  1443

Query  415   KACVEEVTTTLEETKFLTENLLLYIDINGNLHPDS-ATLVSDIDITFLKKDAPYIVGDVV  473
               C         +   L  N +L +D  G L       ++    + +L        G++V
Sbjct  1444  FDCGVNALDG--DIYLLFTNSILMLDKQGQLLDTKLNGILQQAALDYLATVKTVPAGNLV  1501

Query  474   QEGVLTAVV  482
             +  V +  +
Sbjct  1502  KLFVESCTI  1510


 Score = 73.7 bits (179),  Expect = 2e-11, Method: Composition-based stats.
 Identities = 43/192 (22%), Positives = 77/192 (40%), Gaps = 15/192 (8%)

Query  830   SALNHTKKWKYPQVN--GLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAG  887
               L+  + + +   +  G+  +  +DNNC+++T L+ LQ  +L  +   +Q      + G
Sbjct  1034  HVLSIKQPFSFSFRDELGVRVLDQSDNNCWISTTLVQLQLTKLLDDSIEMQL----FKVG  1089

Query  888   EAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGV  947
             +  +         +   G LGD  + +S L +     +C     + C  CG++     G 
Sbjct  1090  KVDSIVQKCYELSHLISGSLGDSGKLLSELLK--EKYTCSITFEMSCD-CGKKFDDQVG-  1145

Query  948   EAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAP-PAQYELKHGTFTCA  1006
                ++      + F+KG    C C K  T  LV  +   V +  P P   +       C+
Sbjct  1146  --CLFWIMPYTKLFQKG--ECCICHKMQTYKLVSMKGTGVFVQDPAPIDIDAFPVKPICS  1201

Query  1007  SEYTGNYQCGHY  1018
             S Y G    GHY
Sbjct  1202  SVYLGVKGSGHY  1213


>sp|P0C6U6|R1A_CVHNL Replicase polyprotein 1a OS=Human coronavirus 
NL63 OX=277944 GN=1a PE=1 SV=1
Length=4060

 Score = 524 bits (1350),  Expect = 6e-151, Method: Composition-based stats.
 Identities = 153/659 (23%), Positives = 272/659 (41%), Gaps = 59/659 (9%)

Query  1293  NELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMP  1352
             ++LS +     +   G    N     TI +     ++K+ +               N + 
Sbjct  1856  SDLSTLAVTAIVVVGGCVTSN---VPTIVSEKISVMDKLDTGAQKFFQ--FGDFVMNNIV  1910

Query  1353  YFFTLLLQLCTFTRST----NSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKL  1408
              F T LL + +  R++    + ++ A  P        +S  K+ + ++   +K       
Sbjct  1911  LFLTWLLSMFSLLRTSIMKHDIKVIAKAPKRTGVILTRS-FKYNIRSALFVIKQK-----  1964

Query  1409  INIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSI  1468
               +I+   L    L           ++  +      C     GY  ST      YC  S+
Sbjct  1965  WCVIV--TLFKFLLLLYAIYALVFMIVQFSPFNSLLCGDIVSGYEKST-FNKDIYCGNSM  2021

Query  1469  PCSVCLSGLDSLDTYPSLETIQITISSF-KWDLTAFGLVAEWFLAYILFTRFFYVLGLAA  1527
              C +CL      +       +   I       L  F ++    +   ++ RF  +  +A 
Sbjct  2022  VCKMCLFSYQEFNDLDHTSLVWKHIRDPILISLQPFVILVILLIFGNMYLRFGLLYFVAQ  2081

Query  1528  IMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCN  1587
              +  F S+   H     W +          P   +   ++       +     H++ GCN
Sbjct  2082  FISTFGSFLGFH--QKQWFLHF-------VPFDVLCNEFLATFIVCKIVLFVRHIIVGCN  2132

Query  1588  SSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCAGSTFI  1647
             ++ C+ C K  R  RV   TI+NG+ +SFYV ANGG  FC  HN+ CVNCD+F  G+TFI
Sbjct  2133  NADCVACSKSARLKRVPLQTIINGMHKSFYVNANGGTCFCNKHNFFCVNCDSFGPGNTFI  2192

Query  1648  SDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSHFVNLD  1707
             + ++AR+L    K  + PT  +  I+D V   NG   LY      +     + S +   +
Sbjct  2193  NGDIARELGNVVKTAVQPTAPAYVIIDKVDFVNGFYRLYSGDTFWRYDFDITESKYSCKE  2252

Query  1708  NLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDVGDSAE  1767
              L+  N       N IV++  S    +  K+A VY+SQL+C+PI L++  L+S +  S +
Sbjct  2253  VLKNCNV----LENFIVYNN-SGSNITQIKNACVYFSQLLCEPIKLVNSELLSTL--SVD  2305

Query  1768  VAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQGFVDSD  1827
                 +  AYV+   ++F    ++L   ++ AE +    ++                    
Sbjct  2306  FNGVLHKAYVDVLCNSF---FKELTANMSMAECKATLGLT--------------------  2342

Query  1828  VETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKV-ENMTPRDLGACIDCSARHINAQVA  1886
             V   D V  +  +H+ D+ ++  S NN+ ++Y K  + ++  D+  C+   ++ +N  V 
Sbjct  2343  VSDDDFVSAVANAHRYDVLLSDLSFNNFFISYAKPEDKLSVYDIACCMRAGSKVVNHNVL  2402

Query  1887  KSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIALKGG  1945
                +I ++W VKDF +LS++ +K +    K   L F LT    + +  V  T I  K G
Sbjct  2403  IKESIPIVWGVKDFNTLSQEGKKYLVKTTKAKGLTFLLTFNDNQAITQVPATSIVAKQG  2461


 Score = 180 bits (457),  Expect = 7e-44, Method: Composition-based stats.
 Identities = 79/396 (20%), Positives = 137/396 (35%), Gaps = 27/396 (7%)

Query  749   TIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDT  808
              + +  T D IN+   VV+ S + G+Q G    DG D        S EG    +  N DT
Sbjct  1581  NVVLKITEDGINVKDVVVESSKSLGKQLGVVS-DGVD--------SFEGV---LPINTDT  1628

Query  809   LRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQ--VNGLTSIKWADNNCYLATALLTLQ  866
             +   A E        F    + A    K + YP   V G   +   DNNC++    + LQ
Sbjct  1629  VLSVAPEVDWVAFYGFEKAALFASLDVKPYGYPNDFVGGFRVLGTTDNNCWVNATCIILQ  1688

Query  867   QIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDS-  925
              ++  F    L   + +   G+   F + I      + G+ GD  E +S L ++   DS 
Sbjct  1689  YLKPTFKSKGLNVLWNKFVTGDVGPFVSFIYFITMSSKGQKGDAEEALSKLSEYLISDSI  1748

Query  926   CKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESP  985
                     C  C   ++T+  V++ +   ++  +    G    C    +    +      
Sbjct  1749  VTLEQYSTCDIC---KSTVVEVKSAIVCASVLKDGCDVGF---CPHRHKLRSRVKFVNGR  1802

Query  986   FVM--MSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKG  1043
              V+  +  P      K       + ++G++  GHY  +         DGA L  S     
Sbjct  1803  VVITNVGEPIISQPSKLLNGIAYTTFSGSFDNGHYV-VYDAANNAVYDGARLFSSDLSTL  1861

Query  1044  PITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPYP  1103
              +T +       T+   P        V  ++D     +++  +  F    I L       
Sbjct  1862  AVTAIVVVGGCVTSN-VPTIVSEKISVMDKLDTGAQKFFQFGD--FVMNNIVLFLTWLLS  1918

Query  1104  NASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKV  1139
               S      +  +IK      + TG     S +  +
Sbjct  1919  MFSLLRTSIMKHDIKVIAKAPKRTGVILTRSFKYNI  1954


 Score = 174 bits (441),  Expect = 5e-42, Method: Composition-based stats.
 Identities = 78/309 (25%), Positives = 126/309 (41%), Gaps = 27/309 (9%)

Query  175   GSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKV  234
             G  D + +++ T+  V        +  ++  EV  F+ Y     NV     DI      V
Sbjct  1228  GVFDIKNSSVNTVCFVDVDFH---SVEIEAGEVKPFAVYK----NVKFYLGDISHLVNCV  1280

Query  235   KPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAK  294
                 VVNAAN  L HGGGVA A++  T   +Q  S DYI++NGPLKVG   +L       
Sbjct  1281  SFDFVVNAANENLLHGGGVARAIDILTEGQLQSLSKDYISSNGPLKVGAGVMLECEKF--  1338

Query  295   HCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTN  354
             +  +VVGP   K E   L+++      ++ + L PLLS GIFG    +SL+         
Sbjct  1339  NVFNVVGPRTGKHEHSLLVEAYNSILFENGIPLMPLLSCGIFGVRIENSLKALFSC----  1394

Query  355   VYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKI  414
                        +K +  F+   +E+Q   K  +    ++ P I +       R + +   
Sbjct  1395  ---------DINKPLQVFVYSSNEEQAVLKFLDGL--DLTPVIDDVDVVKPFRVEGNFSF  1443

Query  415   KACVEEVTTTLEETKFLTENLLLYIDINGNLHPDS-ATLVSDIDITFLKKDAPYIVGDVV  473
               C         +   L  N +L +D  G L       ++    + +L        G++V
Sbjct  1444  FDCGVNALDG--DIYLLFTNSILMLDKQGQLLDTKLNGILQQAALDYLATVKTVPAGNLV  1501

Query  474   QEGVLTAVV  482
             +  V +  +
Sbjct  1502  KLFVESCTI  1510


 Score = 73.7 bits (179),  Expect = 2e-11, Method: Composition-based stats.
 Identities = 43/192 (22%), Positives = 76/192 (40%), Gaps = 15/192 (8%)

Query  830   SALNHTKKWKYPQVN--GLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAG  887
               L+  + + +   +  G+  +  +DNNC+++T L+ LQ  +L  +   +Q      + G
Sbjct  1034  HVLSIKQPFSFSFRDELGVRVLDQSDNNCWISTTLVQLQLTKLLDDSIEMQL----FKVG  1089

Query  888   EAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGV  947
             +  +         +   G LGD  + +S L +     S      + C  CG++     G 
Sbjct  1090  KVDSIVQKCYELSHLISGSLGDSGKLLSELLKEKYTCSIT--FEMSCD-CGKKFDDQVG-  1145

Query  948   EAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMSAP-PAQYELKHGTFTCA  1006
                ++      + F+KG    C C K  T  LV  +   V +  P P   +       C+
Sbjct  1146  --CLFWIMPYTKLFQKG--ECCICHKMQTYKLVSMKGTGVFVQDPAPIDIDAFPVKPICS  1201

Query  1007  SEYTGNYQCGHY  1018
             S Y G    GHY
Sbjct  1202  SVYLGVKGSGHY  1213


>sp|Q98VG9|R1AB_FIPV Replicase polyprotein 1ab OS=Feline coronavirus 
(strain FIPV WSU-79/1146) OX=33734 GN=rep PE=1 SV=2
Length=6709

 Score = 509 bits (1310),  Expect = 9e-146, Method: Composition-based stats.
 Identities = 152/620 (25%), Positives = 256/620 (41%), Gaps = 84/620 (14%)

Query  1345  RVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPN  1404
             ++    +  F  LL+      +S   ++K   P  + +N    V       + NY++  N
Sbjct  1859  KILRFLLEVFKYLLVVFMCLRKSKMPKVKVK-PPHVFRNLGAKV------RTLNYVRQLN  1911

Query  1405  FSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYC  1464
                L   I   LLL + L    Y   ++ V+         C+G  + Y NS+    +  C
Sbjct  1912  KPALWRYIKLVLLL-IALYHFFYLFVSIPVVHK-----LACSGSVQAYSNSS-FVKSEVC  1964

Query  1465  TGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWD----LTAFGLVAEWFLAYILFTRFF  1520
               SI C  CL+  D L  +  L+      S   W+    L+ F  +A +   Y+     +
Sbjct  1965  GNSILCKACLASYDELADFDHLQVSWDYKSDPLWNRVIQLSYFIFLAVFGNNYVRCLLMY  2024

Query  1521  YVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYV  1580
                 ++  + L+ SYF   ++  SW +    ++V    IS    + +         K   
Sbjct  2025  ---FVSQYLNLWLSYFG--YVKYSWFL----HVVNFESISVEFVIIVVVFKAVLALK---  2072

Query  1581  HVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTF  1640
             H+   CN+ +C  C K  R TR+    +VNG  ++ YV+ANG    CK HN+ C NCD++
Sbjct  2073  HIFLPCNNPSCKTCSKIARQTRIPIQVVVNGSMKTVYVHANGTGKLCKKHNFYCKNCDSY  2132

Query  1641  CAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLY---------FDKAG  1691
                 TFI DE+ RDLS   K+ +  TD+S   V  V   +G    Y         +D   
Sbjct  2133  GFDHTFICDEIVRDLSNSIKQTVYATDRSYQEVTKVECTDGFYRFYVGEEFTAYDYDVKH  2192

Query  1692  QKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPI  1751
             +K   +  L     LD+    N  GS                +S ++  VY+SQL+ +PI
Sbjct  2193  KKYSSQEVLKTMFLLDDFIVYNPSGS--------------SLASVRNVCVYFSQLIGRPI  2238

Query  1752  LLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNV  1811
              +++  L+ D+  S +    +F+A  N   ++FNV + + K L      E  K  +LD  
Sbjct  2239  KIVNSELLEDL--SVDFKGALFNAKKNVIKNSFNVDVSECKNL-----EECYKLCNLDVT  2291

Query  1812  LSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKV--ENMTPRD  1869
              STF  A                     +H+  I +T  S NN+  +  K     ++  D
Sbjct  2292  FSTFEMAINN------------------AHRFGILITDRSFNNFWPSKIKPGSSGVSAMD  2333

Query  1870  LGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATT  1929
             +G C+   A+ +NA+V      +++W  +DF +LS   +K +     +  + F LT    
Sbjct  2334  IGKCMTFDAKIVNAKVLTQRGKSVVWLSQDFSTLSSTAQKVLVKTFVEEGVNFSLTFNAV  2393

Query  1930  RQVVNVV----TTKIALKGG  1945
                 ++     T  ++ K G
Sbjct  2394  GSDEDLPYERFTESVSAKSG  2413


 Score = 200 bits (507),  Expect = 1e-49, Method: Composition-based stats.
 Identities = 62/290 (21%), Positives = 119/290 (41%), Gaps = 25/290 (9%)

Query  181   TTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVV  240
             T   +T+VE    +E +     Q+ +      Y      V     D+      ++P V+V
Sbjct  1305  TAKSKTMVEPPVPVEDKCVEDCQSPKDLILPFYK--AGKVSFYQGDLDVLINFLEPDVLV  1362

Query  241   NAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVV  300
             NAAN  L+H GGVA A++  T   +   S +Y+ ++  +  G + +          L+ V
Sbjct  1363  NAANGDLRHVGGVARAIDVFTGGKLTKRSKEYLKSSKAIAPGNAVLFENVLEHLSVLNAV  1422

Query  301   GPNVNKGEDIQLLKSAYENFNQHE-VLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAV  359
             GP          L + Y+   + +  +L PL+S GIF              V+  V L  
Sbjct  1423  GPRNGDSRVEGKLCNVYKAIAKCDGKILTPLISVGIFK-------------VKLEVSLQC  1469

Query  360   FDKNLYDKLVSSFLEMKSEKQVEQKI--AEIPKEEVKPFITESKPSVEQRKQDDKKIKAC  417
               K + D+ ++ F+    E+   +      IP +  +  + + + SV   K   +++K  
Sbjct  1470  LLKTVTDRDLNVFVYTDQERVTIENFFNGTIPIKVTEDTVNQKRVSVALDKTYGEQLKGT  1529

Query  418   V----EEVTTTLEETKFLTENLLLYIDINGNLH---PDSATLVSDIDITF  460
             V    ++VT  L     + E ++  +D++ N +   P++A   +     +
Sbjct  1530  VVIKDKDVTNQLPSVSDVGEKVVKALDVDWNAYYGFPNAAAFSASSHDAY  1579


 Score = 160 bits (405),  Expect = 9e-38, Method: Composition-based stats.
 Identities = 66/346 (19%), Positives = 109/346 (32%), Gaps = 36/346 (10%)

Query  736   DNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQF-GPTYLDGADVTKIKPHNS  794
             D  +  +      TI +  T D +N     V +  TYG+Q  G   +   DVT   P  S
Sbjct  1486  DQERVTIENFFNGTIPIKVTEDTVNQKRVSVALDKTYGEQLKGTVVIKDKDVTNQLPSVS  1545

Query  795   HEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADN  854
               G+          L V+   YY   + +             ++     N     K  DN
Sbjct  1546  DVGEKV-----VKALDVDWNAYYGFPNAAAFSASSH---DAYEFDVVTHNNFIVHKQTDN  1597

Query  855   NCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETM  914
             NC++    L LQ+++  +  P ++  +      + A F  ++      T G+ GD   T+
Sbjct  1598  NCWVNAICLALQRLKPTWKFPGVKSLWDAFLTRKTAGFVHMLYHISGLTKGQPGDAELTL  1657

Query  915   SYLFQHANLDSCKRVLNVV-CKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGK  973
               L    + DS   V +   C  C  +  T  G         ++      G    C  G 
Sbjct  1658  HKLVDLMSSDSAVTVTHTTACDKC-AKVETFTG-------PVVAAPLLVCGTDEICVHGV  1709

Query  974   QATKYLVQQESPFVMMS--APPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCID  1031
                  +        + S   P     +    + C   YTG    GHY +  ++  L   D
Sbjct  1710  HVNVKVTSIRGTVAITSLIGPVVGDVIDATGYIC---YTGLNSRGHYTYYDNRNGLMV-D  1765

Query  1032  GALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPK  1077
                     +    +T                +  +      EI PK
Sbjct  1766  ADKAYHFEKNLLQVTTAI------------ASNFVANTPKKEIMPK  1799


 Score = 140 bits (353),  Expect = 1e-31, Method: Composition-based stats.
 Identities = 67/367 (18%), Positives = 120/367 (33%), Gaps = 48/367 (13%)

Query  756   VDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFE  815
             V ++   T  V     + +Q      +      + P           L + +     + +
Sbjct  1025  VSSVEGETVSVVDVEDFVEQVSLVEENNVLTPAVNPDE--------QLSSVEKKDEVSAK  1076

Query  816   YYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPP  875
                                   +K   +NG   +K  DNNC++      LQ  +  FN  
Sbjct  1077  NDPWAAAVDEQEAEQPKPSLTPFKTTNLNGKIILKQQDNNCWINACCYQLQAFDF-FN--  1133

Query  876   ALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVVCK  935
                D +   +  +   F     A      G+ GD    +  +    +  + K  L+  C 
Sbjct  1134  --HDLWDGFKKDDVMPFVDFCYAALTLKQGDSGDAEYLLETMLN--DYSTAKVTLSAKCG  1189

Query  936   TCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPC----TCGKQATKYL-------VQQES  984
              CG ++  L+    V  +  L   +FK GV   C     C   + +         +++++
Sbjct  1190  -CGVKEIVLE--RTVFKLTPL-RNEFKYGVCGDCKQINMCKFASVEGSGVFVHDRIEKQT  1245

Query  985   PFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYKGP  1044
             P       P  + +          YTG  Q GHY         YC+DG +  K  ++K  
Sbjct  1246  PVSQFIVTPTMHAV----------YTGTTQSGHYMIEDCI-HDYCVDG-MGIKPRKHKFY  1293

Query  1045  ITDVFYKENSYTTTIK-----PVTYKLDGVVCTEIDPKLD-NYYKKDNSYFTEQPIDLVP  1098
              + +F   N  T   K     PV  +   V   +    L   +YK     F +  +D++ 
Sbjct  1294  TSTLFLNANVMTAKSKTMVEPPVPVEDKCVEDCQSPKDLILPFYKAGKVSFYQGDLDVLI  1353

Query  1099  NQPYPNA  1105
             N   P+ 
Sbjct  1354  NFLEPDV  1360


>sp|P0C6V2|R1A_CVPPU Replicase polyprotein 1a OS=Porcine transmissible 
gastroenteritis coronavirus (strain Purdue) OX=11151 
GN=1a PE=1 SV=1
Length=4017

 Score = 507 bits (1305),  Expect = 2e-145, Method: Composition-based stats.
 Identities = 147/612 (24%), Positives = 257/612 (42%), Gaps = 80/612 (13%)

Query  1345  RVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPN  1404
             ++    +  F  LL+       +   ++K   P    K+    V       + NY++  N
Sbjct  1834  KILRLLLEVFKYLLVLFMCLRSTKMPKVKVK-PPLAFKDFGAKV------RTLNYMRQLN  1886

Query  1405  FSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYC  1464
                +       LLL + + +  Y   ++ V+         C G  + Y NS+    +  C
Sbjct  1887  KPSVWRYAKLVLLL-IAIYNFFYLFVSIPVVHK-----LTCNGAVQAYKNSS-FIKSAVC  1939

Query  1465  TGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWD----LTAFGLVAEWFLAYILFTRFF  1520
               SI C  CL+  D L  +  L+      S   W+    L+ F  +A +   Y+   R F
Sbjct  1940  GNSILCKACLASYDELADFQHLQVTWDFKSDPLWNRLVQLSYFAFLAVFGNNYV---RCF  1996

Query  1521  YVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYV  1580
              +  ++  + L+ SYF   ++  SW +    ++V    ISA   + +         K   
Sbjct  1997  LMYFVSQYLNLWLSYFG--YVEYSWFL----HVVNFESISAEFVIVVIVVKAVLALK---  2047

Query  1581  HVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTF  1640
             H+V  C++ +C  C +  R TR+    +VNG  ++ YV+ANG   FCK HN+ C NCD++
Sbjct  2048  HIVFACSNPSCKTCSRTARQTRIPIQVVVNGSMKTVYVHANGTGKFCKKHNFYCKNCDSY  2107

Query  1641  CAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLY---------FDKAG  1691
                +TFI DE+ RDLS   K+ +  TD+S   V  V   +G    Y         +D   
Sbjct  2108  GFENTFICDEIVRDLSNSVKQTVYATDRSHQEVTKVECSDGFYRFYVGDEFTSYDYDVKH  2167

Query  1692  QKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPI  1751
             +K   +  L   + LD+    +  GS   NV              ++A VY+SQL+ +PI
Sbjct  2168  KKYSSQEVLKSMLLLDDFIVYSPSGSALANV--------------RNACVYFSQLIGKPI  2213

Query  1752  LLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNV  1811
              +++  L+ D+  S +    +F+A  N   ++FNV + + K L      E  +  +L+  
Sbjct  2214  KIVNSDLLEDL--SVDFKGALFNAKKNVIKNSFNVDVSECKNL-----DECYRACNLNVS  2266

Query  1812  LSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKV--ENMTPRD  1869
              STF  A                     +H+  I +T  S NN+  +  K     ++  D
Sbjct  2267  FSTFEMAVNN------------------AHRFGILITDRSFNNFWPSKVKPGSSGVSAMD  2308

Query  1870  LGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATT  1929
             +G C+   A+ +NA+V      +++W  +DF +LS   +K +     +  + F LT    
Sbjct  2309  IGKCMTSDAKIVNAKVLTQRGKSVVWLSQDFAALSSTAQKVLVKTFVEEGVNFSLTFNAV  2368

Query  1930  RQVVNVVTTKIA  1941
                 ++   +  
Sbjct  2369  GSDDDLPYERFT  2380


 Score = 216 bits (549),  Expect = 1e-54, Method: Composition-based stats.
 Identities = 82/409 (20%), Positives = 147/409 (36%), Gaps = 46/409 (11%)

Query  56    VVADAVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKL--------ASHMYCSFY  107
             +V +  +  L P+ E     G+  D   + T       G                     
Sbjct  1171  IVLERAVFKLTPLKESFN-YGVCGDCMQVNTCRFLSVEGSGVFVHDILSKQTPEAMFVVK  1229

Query  108   PPDEDEEEGDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEE---EQEEDWLDD  164
             P       G  +   +           D    KPL+    ++ L        + E    +
Sbjct  1230  PVMHAVYTGTTQNGHYMVDDIEHGYCVDGMGIKPLKKRCYTSTLFINANVMTRAEKPKQE  1289

Query  165   DSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKN  224
                + V QQ   E+N+++  +  ++  P+ +  + P  +  +++ + G L +  N     
Sbjct  1290  FKVEKVEQQPIVEENKSSIEKEEIQ-SPKNDDLILPFYKAGKLSFYQGALDVLINF----  1344

Query  225   ADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGS  284
                      ++P V+VNAAN  LKH GGVA A++  T   +   S DY+  N  +  G +
Sbjct  1345  ---------LEPDVIVNAANGDLKHMGGVARAIDVFTGGKLTERSKDYLKKNKSIAPGNA  1395

Query  285   CVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQH-EVLLAPLLSAGIFGADPIHS  343
                         L+ VGP          L + Y+   +    +L PL+S GIF       
Sbjct  1396  VFFENVIEHLSVLNAVGPRNGDSRVEAKLCNVYKAIAKCEGKILTPLISVGIF-------  1448

Query  344   LRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKI--AEIPKEEVKPFITESK  401
                    VR    L    K + D+ ++ F+    E+Q  +      IP    +  +   +
Sbjct  1449  ------NVRLETSLQCLLKTVNDRGLNVFVYTDQERQTIENFFSCSIPVNVTEDNVNHER  1502

Query  402   PSVEQRKQDDKKIKACV----EEVTTTLEETKFLTENLLLYIDINGNLH  446
              SV   K   +++K  V    ++VT  L     + + ++  IDI+   H
Sbjct  1503  VSVSFDKTYGEQLKGTVVIKDKDVTNQLPSAFDVGQKVIKAIDIDWQAH  1551


 Score = 174 bits (440),  Expect = 6e-42, Method: Composition-based stats.
 Identities = 75/352 (21%), Positives = 124/352 (35%), Gaps = 62/352 (18%)

Query  792   HNSHEGKTFYVLPNDDTL-RVEAFEYYHTTDP----SFLGRYMSALNHTKKWKYPQVNGL  846
              +  E +T  V     T   V+  E     DP      +            +K   +NG 
Sbjct  1024  SSQEEVETVEVADITSTEEDVDIVEVSAKDDPWAAAVDVQEAEQFNPSLPPFKTTNLNGK  1083

Query  847   TSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGE  906
               +K  DNNC++      LQ  +  FN     +A+ + + G+  +F  L  A      G 
Sbjct  1084  IILKQGDNNCWINACCYQLQAFDF-FN----NEAWEKFKKGDVMDFVNLCYAATTLARGH  1138

Query  907   LGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQ  966
              GD    +  +    +  + K VL   C  CG+++  L+   AV  +  L  E F  GV 
Sbjct  1139  SGDAEYLLELMLN--DYSTAKIVLAAKCG-CGEKEIVLE--RAVFKLTPLK-ESFNYGVC  1192

Query  967   IPC----TCGKQATKY-------LVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQC  1015
               C    TC   + +        ++ +++P  M    P  + +          YTG  Q 
Sbjct  1193  GDCMQVNTCRFLSVEGSGVFVHDILSKQTPEAMFVVKPVMHAV----------YTGTTQN  1242

Query  1016  GHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEID  1075
             GHY  +   E  YC+DG +  K  + +   + +F   N  T   KP       V   E  
Sbjct  1243  GHY-MVDDIEHGYCVDG-MGIKPLKKRCYTSTLFINANVMTRAEKPKQEF--KVEKVEQQ  1298

Query  1076  PKLDN---------------------YYKKDNSYFTEQPIDLVPNQPYPNAS  1106
             P ++                      +YK     F +  +D++ N   P+  
Sbjct  1299  PIVEENKSSIEKEEIQSPKNDDLILPFYKAGKLSFYQGALDVLINFLEPDVI  1350


 Score = 151 bits (381),  Expect = 6e-35, Method: Composition-based stats.
 Identities = 69/385 (18%), Positives = 119/385 (31%), Gaps = 33/385 (9%)

Query  718   YYTSNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQF-  776
                       L+  V T D  +  +      +I V  T DN+N     V    TYG+Q  
Sbjct  1458  CLLKTVNDRGLNVFVYT-DQERQTIENFFSCSIPVNVTEDNVNHERVSVSFDKTYGEQLK  1516

Query  777   GPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTK  836
             G   +   DVT   P     G+          + ++   +Y   D +             
Sbjct  1517  GTVVIKDKDVTNQLPSAFDVGQKVI-----KAIDIDWQAHYGFRDAAAFSASSH---DAY  1568

Query  837   KWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALI  896
             K++    +     K  DNNC++    L LQ+++ ++  P ++  +      +   F  ++
Sbjct  1569  KFEVVTHSNFIVHKQTDNNCWINAICLALQRLKPQWKFPGVRGLWNEFLERKTQGFVHML  1628

Query  897   LAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVV-CKTCGQQQTTLKGVEAVMYMGT  955
                     GE GD    +  L    + D    V +   C  C  +     G      +  
Sbjct  1629  YHISGVKKGEPGDAELMLHKLGDLMDNDCEIIVTHTTACDKC-AKVEKFVGPVVAAPLAI  1687

Query  956   LSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMS--APPAQYELKHGTFTCASEYTGNY  1013
                     G    C  G      + Q +    + S   P     L+   + C   Y+G+ 
Sbjct  1688  -------HGTDETCVHGVSVNVKVTQIKGTVAITSLIGPIIGEVLEATGYIC---YSGSN  1737

Query  1014  QCGHYKH-------ITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKL  1066
             + GHY +       +   E  Y  +  LL  ++        V  K  +          K+
Sbjct  1738  RNGHYTYYDNRNGLVVDAEKAYHFNRDLLQVTTAIASNF--VVKKPQAEERPKNCAFNKV  1795

Query  1067  DGVVCTEIDPKLDNYYKKDNSYFTE  1091
                     + KL       N   TE
Sbjct  1796  AASPKIVQEQKLLAIESGANYALTE  1820


>sp|P0C6Y5|R1AB_CVPPU Replicase polyprotein 1ab OS=Porcine transmissible 
gastroenteritis coronavirus (strain Purdue) OX=11151 
GN=rep PE=1 SV=1
Length=6684

 Score = 507 bits (1306),  Expect = 2e-145, Method: Composition-based stats.
 Identities = 147/612 (24%), Positives = 257/612 (42%), Gaps = 80/612 (13%)

Query  1345  RVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPN  1404
             ++    +  F  LL+       +   ++K   P    K+    V       + NY++  N
Sbjct  1834  KILRLLLEVFKYLLVLFMCLRSTKMPKVKVK-PPLAFKDFGAKV------RTLNYMRQLN  1886

Query  1405  FSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYC  1464
                +       LLL + + +  Y   ++ V+         C G  + Y NS+    +  C
Sbjct  1887  KPSVWRYAKLVLLL-IAIYNFFYLFVSIPVVHK-----LTCNGAVQAYKNSS-FIKSAVC  1939

Query  1465  TGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWD----LTAFGLVAEWFLAYILFTRFF  1520
               SI C  CL+  D L  +  L+      S   W+    L+ F  +A +   Y+   R F
Sbjct  1940  GNSILCKACLASYDELADFQHLQVTWDFKSDPLWNRLVQLSYFAFLAVFGNNYV---RCF  1996

Query  1521  YVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYV  1580
              +  ++  + L+ SYF   ++  SW +    ++V    ISA   + +         K   
Sbjct  1997  LMYFVSQYLNLWLSYFG--YVEYSWFL----HVVNFESISAEFVIVVIVVKAVLALK---  2047

Query  1581  HVVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTF  1640
             H+V  C++ +C  C +  R TR+    +VNG  ++ YV+ANG   FCK HN+ C NCD++
Sbjct  2048  HIVFACSNPSCKTCSRTARQTRIPIQVVVNGSMKTVYVHANGTGKFCKKHNFYCKNCDSY  2107

Query  1641  CAGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLY---------FDKAG  1691
                +TFI DE+ RDLS   K+ +  TD+S   V  V   +G    Y         +D   
Sbjct  2108  GFENTFICDEIVRDLSNSVKQTVYATDRSHQEVTKVECSDGFYRFYVGDEFTSYDYDVKH  2167

Query  1692  QKTYERHSLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPI  1751
             +K   +  L   + LD+    +  GS   NV              ++A VY+SQL+ +PI
Sbjct  2168  KKYSSQEVLKSMLLLDDFIVYSPSGSALANV--------------RNACVYFSQLIGKPI  2213

Query  1752  LLLDQALVSDVGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNV  1811
              +++  L+ D+  S +    +F+A  N   ++FNV + + K L      E  +  +L+  
Sbjct  2214  KIVNSDLLEDL--SVDFKGALFNAKKNVIKNSFNVDVSECKNL-----DECYRACNLNVS  2266

Query  1812  LSTFISAARQGFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKV--ENMTPRD  1869
              STF  A                     +H+  I +T  S NN+  +  K     ++  D
Sbjct  2267  FSTFEMAVNN------------------AHRFGILITDRSFNNFWPSKVKPGSSGVSAMD  2308

Query  1870  LGACIDCSARHINAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATT  1929
             +G C+   A+ +NA+V      +++W  +DF +LS   +K +     +  + F LT    
Sbjct  2309  IGKCMTSDAKIVNAKVLTQRGKSVVWLSQDFAALSSTAQKVLVKTFVEEGVNFSLTFNAV  2368

Query  1930  RQVVNVVTTKIA  1941
                 ++   +  
Sbjct  2369  GSDDDLPYERFT  2380


 Score = 216 bits (550),  Expect = 1e-54, Method: Composition-based stats.
 Identities = 82/409 (20%), Positives = 147/409 (36%), Gaps = 46/409 (11%)

Query  56    VVADAVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKL--------ASHMYCSFY  107
             +V +  +  L P+ E     G+  D   + T       G                     
Sbjct  1171  IVLERAVFKLTPLKESFN-YGVCGDCMQVNTCRFLSVEGSGVFVHDILSKQTPEAMFVVK  1229

Query  108   PPDEDEEEGDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEE---EQEEDWLDD  164
             P       G  +   +           D    KPL+    ++ L        + E    +
Sbjct  1230  PVMHAVYTGTTQNGHYMVDDIEHGYCVDGMGIKPLKKRCYTSTLFINANVMTRAEKPKQE  1289

Query  165   DSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKN  224
                + V QQ   E+N+++  +  ++  P+ +  + P  +  +++ + G L +  N     
Sbjct  1290  FKVEKVEQQPIVEENKSSIEKEEIQ-SPKNDDLILPFYKAGKLSFYQGALDVLINF----  1344

Query  225   ADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGS  284
                      ++P V+VNAAN  LKH GGVA A++  T   +   S DY+  N  +  G +
Sbjct  1345  ---------LEPDVIVNAANGDLKHMGGVARAIDVFTGGKLTERSKDYLKKNKSIAPGNA  1395

Query  285   CVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQH-EVLLAPLLSAGIFGADPIHS  343
                         L+ VGP          L + Y+   +    +L PL+S GIF       
Sbjct  1396  VFFENVIEHLSVLNAVGPRNGDSRVEAKLCNVYKAIAKCEGKILTPLISVGIF-------  1448

Query  344   LRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKI--AEIPKEEVKPFITESK  401
                    VR    L    K + D+ ++ F+    E+Q  +      IP    +  +   +
Sbjct  1449  ------NVRLETSLQCLLKTVNDRGLNVFVYTDQERQTIENFFSCSIPVNVTEDNVNHER  1502

Query  402   PSVEQRKQDDKKIKACV----EEVTTTLEETKFLTENLLLYIDINGNLH  446
              SV   K   +++K  V    ++VT  L     + + ++  IDI+   H
Sbjct  1503  VSVSFDKTYGEQLKGTVVIKDKDVTNQLPSAFDVGQKVIKAIDIDWQAH  1551


 Score = 174 bits (441),  Expect = 6e-42, Method: Composition-based stats.
 Identities = 75/352 (21%), Positives = 124/352 (35%), Gaps = 62/352 (18%)

Query  792   HNSHEGKTFYVLPNDDTL-RVEAFEYYHTTDP----SFLGRYMSALNHTKKWKYPQVNGL  846
              +  E +T  V     T   V+  E     DP      +            +K   +NG 
Sbjct  1024  SSQEEVETVEVADITSTEEDVDIVEVSAKDDPWAAAVDVQEAEQFNPSLPPFKTTNLNGK  1083

Query  847   TSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGE  906
               +K  DNNC++      LQ  +  FN     +A+ + + G+  +F  L  A      G 
Sbjct  1084  IILKQGDNNCWINACCYQLQAFDF-FN----NEAWEKFKKGDVMDFVNLCYAATTLARGH  1138

Query  907   LGDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQ  966
              GD    +  +    +  + K VL   C  CG+++  L+   AV  +  L  E F  GV 
Sbjct  1139  SGDAEYLLELMLN--DYSTAKIVLAAKCG-CGEKEIVLE--RAVFKLTPLK-ESFNYGVC  1192

Query  967   IPC----TCGKQATKY-------LVQQESPFVMMSAPPAQYELKHGTFTCASEYTGNYQC  1015
               C    TC   + +        ++ +++P  M    P  + +          YTG  Q 
Sbjct  1193  GDCMQVNTCRFLSVEGSGVFVHDILSKQTPEAMFVVKPVMHAV----------YTGTTQN  1242

Query  1016  GHYKHITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKLDGVVCTEID  1075
             GHY  +   E  YC+DG +  K  + +   + +F   N  T   KP       V   E  
Sbjct  1243  GHY-MVDDIEHGYCVDG-MGIKPLKKRCYTSTLFINANVMTRAEKPKQEF--KVEKVEQQ  1298

Query  1076  PKLDN---------------------YYKKDNSYFTEQPIDLVPNQPYPNAS  1106
             P ++                      +YK     F +  +D++ N   P+  
Sbjct  1299  PIVEENKSSIEKEEIQSPKNDDLILPFYKAGKLSFYQGALDVLINFLEPDVI  1350


 Score = 151 bits (381),  Expect = 6e-35, Method: Composition-based stats.
 Identities = 69/385 (18%), Positives = 119/385 (31%), Gaps = 33/385 (9%)

Query  718   YYTSNPTTFHLDGEVITFDNLKTLLSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQF-  776
                       L+  V T D  +  +      +I V  T DN+N     V    TYG+Q  
Sbjct  1458  CLLKTVNDRGLNVFVYT-DQERQTIENFFSCSIPVNVTEDNVNHERVSVSFDKTYGEQLK  1516

Query  777   GPTYLDGADVTKIKPHNSHEGKTFYVLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTK  836
             G   +   DVT   P     G+          + ++   +Y   D +             
Sbjct  1517  GTVVIKDKDVTNQLPSAFDVGQKVI-----KAIDIDWQAHYGFRDAAAFSASSH---DAY  1568

Query  837   KWKYPQVNGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALI  896
             K++    +     K  DNNC++    L LQ+++ ++  P ++  +      +   F  ++
Sbjct  1569  KFEVVTHSNFIVHKQTDNNCWINAICLALQRLKPQWKFPGVRGLWNEFLERKTQGFVHML  1628

Query  897   LAYCNKTVGELGDVRETMSYLFQHANLDSCKRVLNVV-CKTCGQQQTTLKGVEAVMYMGT  955
                     GE GD    +  L    + D    V +   C  C  +     G      +  
Sbjct  1629  YHISGVKKGEPGDAELMLHKLGDLMDNDCEIIVTHTTACDKC-AKVEKFVGPVVAAPLAI  1687

Query  956   LSYEQFKKGVQIPCTCGKQATKYLVQQESPFVMMS--APPAQYELKHGTFTCASEYTGNY  1013
                     G    C  G      + Q +    + S   P     L+   + C   Y+G+ 
Sbjct  1688  -------HGTDETCVHGVSVNVKVTQIKGTVAITSLIGPIIGEVLEATGYIC---YSGSN  1737

Query  1014  QCGHYKH-------ITSKETLYCIDGALLTKSSEYKGPITDVFYKENSYTTTIKPVTYKL  1066
             + GHY +       +   E  Y  +  LL  ++        V  K  +          K+
Sbjct  1738  RNGHYTYYDNRNGLVVDAEKAYHFNRDLLQVTTAIASNF--VVKKPQAEERPKNCAFNKV  1795

Query  1067  DGVVCTEIDPKLDNYYKKDNSYFTE  1091
                     + KL       N   TE
Sbjct  1796  AASPKIVQEQKLLAIESGANYALTE  1820


>sp|A7MG20|YMDB_CROS8 O-acetyl-ADP-ribose deacetylase OS=Cronobacter 
sakazakii (strain ATCC BAA-894) OX=290339 GN=ymdB PE=3 
SV=1
Length=180

 Score = 200 bits (507),  Expect = 3e-57, Method: Composition-based stats.
 Identities = 49/183 (27%), Positives = 78/183 (43%), Gaps = 25/183 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            ++  + +   DI      +   V+VNAAN  L  GGGV GA+++A   A+          
Sbjct  1    MSGRINVVQGDIT----LIDVDVIVNAANPSLMGGGGVDGAIHRAAGPALLAACRQVRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGED--IQLLKSAYEN------FNQHEVL  326
             G  + G + +    +L AK  +H VGP    G+D   QLL  AY N       N +  +
Sbjct  57   QGECQPGHAVITEAGDLAAKAVVHTVGPVWRGGQDNEPQLLADAYRNSLQLVAANGYNSV  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSSFLE  374
              P +S GI+G     + ++  +TV            VY   +D+    LY +L+  + E
Sbjct  117  AFPAISTGIYGYPKAAAAQIAFETVSDYLTRHPQPKQVYFVCYDEENFLLYQRLLGQYDE  176

Query  375  MKS  377
               
Sbjct  177  QPG  179


>sp|C9Y0V8|YMDB_CROTZ O-acetyl-ADP-ribose deacetylase OS=Cronobacter 
turicensis (strain DSM 18703 / CCUG 55852 / LMG 23827 
/ z3032) OX=693216 GN=ymdB PE=3 SV=1
Length=176

 Score = 198 bits (504),  Expect = 6e-57, Method: Composition-based stats.
 Identities = 48/180 (27%), Positives = 78/180 (43%), Gaps = 25/180 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            ++  + +   DI     ++   V+VNAAN  L  GGGV GA+++A   ++          
Sbjct  1    MSGRINVVQGDIT----RIDTDVIVNAANPSLMGGGGVDGAIHRAAGPSLLAACKVVRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGED--IQLLKSAYEN------FNQHEVL  326
             G  + G + +    +L AK  +H VGP    G D   QLL  AY N       N +  +
Sbjct  57   QGECQPGHAVITEAGDLAAKAVIHTVGPIWRGGHDNEPQLLADAYRNSLELVTANGYNSV  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSSFLE  374
              P +S GI+G     + ++  +TV            VY   +D+    LY +L+  + E
Sbjct  117  AFPAISTGIYGYPKAAAAQIAFETVSDYLTRRPQPKQVYFVCYDEENFLLYQRLLGQYDE  176


>sp|B7LT90|YMDB_ESCF3 O-acetyl-ADP-ribose deacetylase OS=Escherichia 
fergusonii (strain ATCC 35469 / DSM 13698 / CCUG 18766 
/ IAM 14443 / JCM 21226 / LMG 7866 / NBRC 102419 / NCTC 12128 
/ CDC 0568-73) OX=585054 GN=ymdB PE=3 SV=2
Length=177

 Score = 195 bits (494),  Expect = 1e-55, Method: Composition-based stats.
 Identities = 47/177 (27%), Positives = 77/177 (44%), Gaps = 25/177 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +   +++   DI + A      V+VNAAN  L  GGGV GA+++A    +          
Sbjct  1    MKSRIHVLQGDITQLA----VDVIVNAANSSLMGGGGVDGAIHRAAGPELLEACQKVRRQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G    G + +    NL A+  +H VGP    GE  + QLL  AY N       N ++ +
Sbjct  57   QGECPTGHAVITIAGNLPARAVIHTVGPVWRDGEHNEDQLLHDAYLNSLKLAQANGYKSI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSS  371
              P +S G++G     +  + V TV            +Y   +D+    LY++L++ 
Sbjct  117  AFPAISTGVYGFPRAAAAEIAVKTVSDFITRHALPEQIYFVCYDEENSRLYNRLLTQ  173


>sp|D2TT52|YMDB_CITRI O-acetyl-ADP-ribose deacetylase OS=Citrobacter 
rodentium (strain ICC168) OX=637910 GN=ymdB PE=3 SV=2
Length=177

 Score = 195 bits (494),  Expect = 1e-55, Method: Composition-based stats.
 Identities = 45/177 (25%), Positives = 76/177 (43%), Gaps = 25/177 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +   +++ + DI   A       +VNAAN  L  GGGV GA+++A    +          
Sbjct  1    MNSRIHVIHGDITTVA----VDAIVNAANPSLMGGGGVDGAIHRAAGPELLEACMTVRRQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G    G + + +   L AK  +H VGP    GE  + QLL  AY N       N ++ +
Sbjct  57   QGECPPGHAVITAAGRLPAKAVIHTVGPIWRGGEHNEAQLLHDAYLNSLNLALANGYQSI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSS  371
              P +S G++G     +  + V+T+            +Y   +D+    LY +L++ 
Sbjct  117  AFPAISTGVYGYPRAAAAEIAVNTISEFITRRASPEQIYFVCYDEETTRLYQRLLTQ  173


>sp|B4T2X8|YMDB_SALNS O-acetyl-ADP-ribose deacetylase OS=Salmonella 
newport (strain SL254) OX=423368 GN=ymdB PE=3 SV=1
Length=179

 Score = 194 bits (493),  Expect = 2e-55, Method: Composition-based stats.
 Identities = 47/177 (27%), Positives = 75/177 (42%), Gaps = 25/177 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +T  + +   DI +    +    +VNAAN  L  GGGV GA+++A   A+          
Sbjct  1    MTSRLQVIQGDITQ----LSVDAIVNAANASLMGGGGVDGAIHRAAGPALLDACKLIRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G  + G + +     L AK  +H VGP    GE  + +LL+ AY N       N    +
Sbjct  57   QGECQTGHAVITPAGKLSAKAVIHTVGPVWRGGEHQEAELLEEAYRNCLLLAEANHFRSI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSS  371
              P +S G++G     +  + V TV            VY   +D+    LY +L++ 
Sbjct  117  AFPAISTGVYGYPRAQAAEIAVRTVSDFITRYALPEQVYFVCYDEETARLYARLLTQ  173


>sp|B5F961|YMDB_SALA4 O-acetyl-ADP-ribose deacetylase OS=Salmonella 
agona (strain SL483) OX=454166 GN=ymdB PE=3 SV=1
Length=179

 Score = 194 bits (493),  Expect = 2e-55, Method: Composition-based stats.
 Identities = 48/177 (27%), Positives = 76/177 (43%), Gaps = 25/177 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +T  + +   DI +    +    +VNAAN  L  GGGV GA+++A   A+          
Sbjct  1    MTSRLQVIQGDITQ----LSVDAIVNAANASLMGGGGVDGAIHRAAGPALLDACKLIRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G  + G + +     L AK  +H VGP    GE  + +LL++AY N       N    +
Sbjct  57   QGECQTGHAVITPAGKLSAKAVIHTVGPVWRGGEYQEAELLEAAYRNCLLLAEANHFRSI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSS  371
              P +S G++G     +  V V TV            VY   +D+    LY +L++ 
Sbjct  117  AFPAISTGVYGYPRAQAAEVAVRTVSDFITRYALPEQVYFVCYDEETARLYARLLTQ  173


>sp|P67341|YMDB_SALTY O-acetyl-ADP-ribose deacetylase OS=Salmonella 
typhimurium (strain LT2 / SGSC1412 / ATCC 700720) OX=99287 
GN=ymdB PE=3 SV=1
Length=179

 Score = 194 bits (492),  Expect = 3e-55, Method: Composition-based stats.
 Identities = 48/177 (27%), Positives = 75/177 (42%), Gaps = 25/177 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +T  + +   DI +    +    +VNAAN  L  GGGV GA+++A   A+          
Sbjct  1    MTSRLQVIQGDITQ----LSVDAIVNAANASLMGGGGVDGAIHRAAGPALLDACKLIRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G  + G + +     L AK  +H VGP    GE  + +LL+ AY N       N    +
Sbjct  57   QGECQTGHAVITPAGKLSAKAVIHTVGPVWRGGEHQEAELLEEAYRNCLLLAEANHFRSI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSS  371
              P +S G++G     +  V V TV            VY   +D+    LY +L++ 
Sbjct  117  AFPAISTGVYGYPRAQAAEVAVRTVSDFITRYALPEQVYFVCYDEETARLYARLLTQ  173


>sp|P67342|YMDB_SALTI O-acetyl-ADP-ribose deacetylase OS=Salmonella 
typhi OX=90370 GN=ymdB PE=3 SV=1
Length=179

 Score = 194 bits (492),  Expect = 3e-55, Method: Composition-based stats.
 Identities = 48/177 (27%), Positives = 75/177 (42%), Gaps = 25/177 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +T  + +   DI +    +    +VNAAN  L  GGGV GA+++A   A+          
Sbjct  1    MTSRLQVIQGDITQ----LSVDAIVNAANASLMGGGGVDGAIHRAAGPALLDACKLIRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G  + G + +     L AK  +H VGP    GE  + +LL+ AY N       N    +
Sbjct  57   QGECQTGHAVITPAGKLSAKAVIHTVGPVWRGGEHQEAELLEEAYRNCLLLAEANHFRSI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSS  371
              P +S G++G     +  V V TV            VY   +D+    LY +L++ 
Sbjct  117  AFPAISTGVYGYPRAQAAEVAVRTVSDFITRYALPEQVYFVCYDEETARLYARLLTQ  173


>sp|B5RBF3|YMDB_SALG2 O-acetyl-ADP-ribose deacetylase OS=Salmonella 
gallinarum (strain 287/91 / NCTC 13346) OX=550538 GN=ymdB 
PE=3 SV=1
Length=179

 Score = 192 bits (488),  Expect = 8e-55, Method: Composition-based stats.
 Identities = 47/177 (27%), Positives = 75/177 (42%), Gaps = 25/177 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +T  + +   DI +    +    +VNAAN  L  GGGV GA+++A   A+          
Sbjct  1    MTSRLQVIQGDITQ----LSVDAIVNAANASLMGGGGVDGAIHRAAGPALLDACKLIRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G  + G + +     L AK  +H VGP    GE  + +LL+ AY +       N    +
Sbjct  57   QGECQTGHAVITPAGKLSAKAVIHTVGPVWRGGEHQEAELLEEAYRSCLLLAEANHFRSI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSS  371
              P +S G++G     +  V V TV            VY   +D+    LY +L++ 
Sbjct  117  AFPAISTGVYGYPRAQAAEVAVRTVSDFITRYALPEQVYFVCYDEETARLYARLLTQ  173


>sp|P0A8D6|YMDB_ECOLI O-acetyl-ADP-ribose deacetylase OS=Escherichia 
coli (strain K12) OX=83333 GN=ymdB PE=1 SV=1
Length=177

 Score = 190 bits (483),  Expect = 4e-54, Method: Composition-based stats.
 Identities = 49/177 (28%), Positives = 78/177 (44%), Gaps = 25/177 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +   +++   DI + A      V+VNAAN  L  GGGV GA+++A   A+          
Sbjct  1    MKTRIHVVQGDITKLA----VDVIVNAANPSLMGGGGVDGAIHRAAGPALLDACLKVRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G    G + +    +L AK  +H VGP    GE  + QLL+ AY N       N +  +
Sbjct  57   QGDCPTGHAVITLAGDLPAKAVVHTVGPVWRGGEQNEDQLLQDAYLNSLRLVAANSYTSV  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSS  371
              P +S G++G     +  + V TV            VY   +D+    LY++L++ 
Sbjct  117  AFPAISTGVYGYPRAAAAEIAVKTVSEFITRHALPEQVYFVCYDEENAHLYERLLTQ  173


>sp|P0A8D7|YMDB_ECOL6 O-acetyl-ADP-ribose deacetylase OS=Escherichia 
coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) OX=199310 
GN=ymdB PE=3 SV=1
Length=177

 Score = 190 bits (483),  Expect = 4e-54, Method: Composition-based stats.
 Identities = 49/177 (28%), Positives = 78/177 (44%), Gaps = 25/177 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +   +++   DI + A      V+VNAAN  L  GGGV GA+++A   A+          
Sbjct  1    MKTRIHVVQGDITKLA----VDVIVNAANPSLMGGGGVDGAIHRAAGPALLDACLKVRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G    G + +    +L AK  +H VGP    GE  + QLL+ AY N       N +  +
Sbjct  57   QGDCPTGHAVITLAGDLPAKAVVHTVGPVWRGGEQNEDQLLQDAYLNSLRLVAANSYTSV  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSS  371
              P +S G++G     +  + V TV            VY   +D+    LY++L++ 
Sbjct  117  AFPAISTGVYGYPRAAAAEIAVKTVSEFITRHALPEQVYFVCYDEENAHLYERLLTQ  173


>sp|P0A8D8|YMDB_ECO57 O-acetyl-ADP-ribose deacetylase OS=Escherichia 
coli O157:H7 OX=83334 GN=ymdB PE=3 SV=1
Length=177

 Score = 190 bits (483),  Expect = 4e-54, Method: Composition-based stats.
 Identities = 49/177 (28%), Positives = 78/177 (44%), Gaps = 25/177 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +   +++   DI + A      V+VNAAN  L  GGGV GA+++A   A+          
Sbjct  1    MKTRIHVVQGDITKLA----VDVIVNAANPSLMGGGGVDGAIHRAAGPALLDACLKVRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G    G + +    +L AK  +H VGP    GE  + QLL+ AY N       N +  +
Sbjct  57   QGDCPTGHAVITLAGDLPAKAVVHTVGPVWRGGEQNEDQLLQDAYLNSLRLVAANSYTSV  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSS  371
              P +S G++G     +  + V TV            VY   +D+    LY++L++ 
Sbjct  117  AFPAISTGVYGYPRAAAAEIAVKTVSEFITRHALPEQVYFVCYDEENAHLYERLLTQ  173


>sp|A8AI35|YMDB_CITK8 O-acetyl-ADP-ribose deacetylase OS=Citrobacter 
koseri (strain ATCC BAA-895 / CDC 4225-83 / SGSC4696) 
OX=290338 GN=ymdB PE=3 SV=1
Length=177

 Score = 190 bits (482),  Expect = 5e-54, Method: Composition-based stats.
 Identities = 47/177 (27%), Positives = 79/177 (45%), Gaps = 25/177 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +   +++++ DI +    +   V+VNAAN  L  GGGV GA+++A    +          
Sbjct  1    MKSRIHVQHGDITQ----LTVDVIVNAANASLLGGGGVDGAIHRAAGPTLLEACKKVRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G    G + +    NL AK  +H VGP    G+  + QLL+ AY N       N +  +
Sbjct  57   QGECPAGHAVITLAGNLPAKAVIHTVGPVWRGGDHNESQLLEDAYFNSLQLVLANGYRSV  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSS  371
              P +S G +G     +  + V+TV            VY   +D+    LY++L++ 
Sbjct  117  AFPAISTGAYGYPRPAAAEIAVNTVADFLARHALPEQVYFVCYDEETARLYERLLTQ  173


>sp|Q0T5Z6|YMDB_SHIF8 O-acetyl-ADP-ribose deacetylase OS=Shigella 
flexneri serotype 5b (strain 8401) OX=373384 GN=ymdB PE=3 
SV=1
Length=177

 Score = 189 bits (479),  Expect = 1e-53, Method: Composition-based stats.
 Identities = 48/177 (27%), Positives = 77/177 (44%), Gaps = 25/177 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +   +++   DI + A      V+VNAAN  L  GGGV GA+++A   A+          
Sbjct  1    MKTRIHVVQGDITKLA----VDVIVNAANPSLMGGGGVDGAIHRAAGPALLDACLKVRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G    G + +    +L AK  +H VGP    GE  + QLL+ AY N       N +  +
Sbjct  57   QGDCPTGHAVITLAGDLPAKAVVHTVGPVWRGGEQNEDQLLQDAYLNSLRLVAANSYTSV  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSS  371
              P +S G++      +  + V TV            VY   +D+    LY++L++ 
Sbjct  117  AFPAISTGVYSYPRAAAAEIAVKTVSEFITRHALPEQVYFVCYDEENAHLYERLLTQ  173


>sp|A4W960|YMDB_ENT38 O-acetyl-ADP-ribose deacetylase OS=Enterobacter 
sp. (strain 638) OX=399742 GN=ymdB PE=3 SV=1
Length=180

 Score = 185 bits (469),  Expect = 3e-52, Method: Composition-based stats.
 Identities = 47/175 (27%), Positives = 75/175 (43%), Gaps = 25/175 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +   + +   DI      ++  V+VNAAN  L  GGGV GA+++A    +          
Sbjct  1    MKPQIEVVVGDITT----MEVDVIVNAANPSLMGGGGVDGAIHRAAGPQLLEACKTVRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G    G + +    +L AK  +H VGP    GE  + + L+ AY N       N ++ L
Sbjct  57   QGECAPGHAVITIAGDLPAKAVIHAVGPVWQGGENHEARTLQDAYLNCLRLAAANGYKTL  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLV  369
              P +S G++G     +  + VDTV            VY   +D+    LY +L+
Sbjct  117  AFPAISTGVYGYPKAAAAEIAVDTVSEFLTRKPLPERVYFVCYDEENAQLYQRLL  171


>sp|D5CE05|YMDB_ENTCC O-acetyl-ADP-ribose deacetylase OS=Enterobacter 
cloacae subsp. cloacae (strain ATCC 13047 / DSM 30054 
/ NBRC 13535 / NCTC 10005 / WDCM 00083 / NCDC 279-56) OX=716541 
GN=ymdB PE=3 SV=1
Length=180

 Score = 185 bits (469),  Expect = 3e-52, Method: Composition-based stats.
 Identities = 45/177 (25%), Positives = 76/177 (43%), Gaps = 25/177 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +   + + + DI      +   V+VNAAN  L  GGGV GA+++A    +          
Sbjct  1    MKPQIDVIHGDITT----MHVDVIVNAANPSLMGGGGVDGAIHRAAGPQLLEACKTVRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G    G + +    +L AK  +H VGP  + G+  +  +L+ AY N       N ++ +
Sbjct  57   QGECPPGHAVITLAGDLPAKAVIHAVGPIWHGGDRHEASILEEAYRNCLRLAADNGYKTM  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSS  371
              P +S G++G     +  + VDTV            V    FD+    LY +L++ 
Sbjct  117  AFPAISTGVYGYPKAAAATIAVDTVYRYLSLKPMPEKVTFVCFDEETLHLYQRLLTQ  173


>sp|Q32E73|YMDB_SHIDS O-acetyl-ADP-ribose deacetylase OS=Shigella 
dysenteriae serotype 1 (strain Sd197) OX=300267 GN=ymdB 
PE=3 SV=1
Length=177

 Score = 184 bits (467),  Expect = 5e-52, Method: Composition-based stats.
 Identities = 47/177 (27%), Positives = 76/177 (43%), Gaps = 25/177 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            +   +++   DI + A      V+VN  N  L  GGGV GA+++A   A+          
Sbjct  1    MKTRIHVVQGDITKLA----VDVIVNVTNPSLMGGGGVDGAIHRAAGPALLDACLKVRQQ  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVL  326
             G    G + +    +L AK  +H VGP    GE  + QLL+ AY N       N +  +
Sbjct  57   QGDCPTGHAVITLAGDLPAKAVVHTVGPVWRGGEQNEDQLLQDAYLNSLRLVAANSYTSV  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSS  371
              P +S G++G     +  + V TV            VY   +D+    LY++L++ 
Sbjct  117  AFPAISTGVYGYPRAAAAEIAVKTVSEFITRHALPEQVYFVCYDEENAHLYERLLTQ  173


>sp|D3RKJ0|YMDB_KLEVT O-acetyl-ADP-ribose deacetylase OS=Klebsiella 
variicola (strain At-22) OX=640131 GN=ymdB PE=3 SV=1
Length=175

 Score = 184 bits (467),  Expect = 6e-52, Method: Composition-based stats.
 Identities = 45/172 (26%), Positives = 75/172 (44%), Gaps = 25/172 (15%)

Query  222  IKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKV  281
            +   DI      ++  V+VNAAN  L  GGGV GA+++A   A+       +   G    
Sbjct  7    VILGDITT----LEVDVIVNAANPSLLGGGGVDGAIHRAAGPALLAACKQVLQQQGECPP  62

Query  282  GGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVLLAPLLS  332
            G + +    +L A   +H VGP  + G+  + Q L  AY+N       N +  +  P +S
Sbjct  63   GHAVITIAGDLPASAVIHTVGPVWHGGDRMEAQTLADAYKNSLQLAAANNYRSIAFPAIS  122

Query  333  AGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSSF  372
             G++G     +  + V TV            V    FD+    +Y +L++S+
Sbjct  123  TGVYGYPKEEAAEIAVRTVTAFLTRYNPLERVLFVCFDEETAAIYRRLLASY  174


>sp|B5XXK9|YMDB_KLEP3 O-acetyl-ADP-ribose deacetylase OS=Klebsiella 
pneumoniae (strain 342) OX=507522 GN=ymdB PE=3 SV=1
Length=175

 Score = 184 bits (467),  Expect = 6e-52, Method: Composition-based stats.
 Identities = 45/172 (26%), Positives = 75/172 (44%), Gaps = 25/172 (15%)

Query  222  IKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKV  281
            +   DI      ++  V+VNAAN  L  GGGV GA+++A   A+       +   G    
Sbjct  7    VILGDITT----LEVDVIVNAANPSLLGGGGVDGAIHRAAGPALLAACKQVLQQQGECPP  62

Query  282  GGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVLLAPLLS  332
            G + +    +L A   +H VGP  + G+  + Q L  AY+N       N +  +  P +S
Sbjct  63   GHAVITIAGDLPASAVIHTVGPVWHGGDRMEAQTLADAYKNSLQLAAANNYRSIAFPAIS  122

Query  333  AGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN---LYDKLVSSF  372
             G++G     +  + V TV            V    FD+    +Y +L++S+
Sbjct  123  TGVYGYPKEEAAEIAVRTVTAFLTRYNPLERVLFVCFDEETAAIYRRLLASY  174


>sp|E1SDF1|YMDB1_PANVC O-acetyl-ADP-ribose deacetylase 1 OS=Pantoea 
vagans (strain C9-1) OX=712898 GN=ymdB1 PE=3 SV=1
Length=171

 Score = 180 bits (457),  Expect = 8e-51, Method: Composition-based stats.
 Identities = 47/170 (28%), Positives = 76/170 (45%), Gaps = 22/170 (13%)

Query  218  DNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNG  277
              + +   DI +    V    +VNAAN  L  GGGV GA+++A    +  E        G
Sbjct  2    KKITVIQGDITK----VSAEAIVNAANSSLLGGGGVDGAIHRAGGPVILAECQLIRNRQG  57

Query  278  PLKVGGSCVLSGHNL-AKHCLHVVGPNVNKG--EDIQLLKSAYEN------FNQHEVLLA  328
              KVG + +    NL A + +H VGP  + G  ++  LLK AY++      ++  + +  
Sbjct  58   GCKVGDAVITGAGNLPADYVIHTVGPRWSDGRHDEDALLKRAYQSCFKLVDYHGIKTVSF  117

Query  329  PLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKNLYDKLV  369
            P +S GI+G     +  + +D ++          NV L  FD   YD  +
Sbjct  118  PNISTGIYGFPKERAATIALDVIKHCIAENRTLENVNLVCFDAENYDLYL  167


>sp|Q8EYT0|Y4133_LEPIN Macro domain-containing protein LA_4133 
OS=Leptospira interrogans serogroup Icterohaemorrhagiae serovar 
Lai (strain 56601) OX=189518 GN=LA_4133 PE=4 SV=1
Length=175

 Score = 176 bits (447),  Expect = 3e-49, Method: Composition-based stats.
 Identities = 45/178 (25%), Positives = 81/178 (46%), Gaps = 25/178 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            + + + +   DI +    ++   +VNAAN  L  GGGV GA+++A    +  E       
Sbjct  1    MNNKIKLIKEDITQ----LEVDAIVNAANSSLLGGGGVDGAIHRAGGPEILEECYKIREK  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKG--EDIQLLKSAYEN----FNQH--EVL  326
             G  KVG + + +   L AK  +H VGP  + G   + +LL +AY+N       H  + +
Sbjct  57   QGECKVGEAVITTAGRLNAKFIIHTVGPIWSGGNKNEDELLSNAYKNSLLLAKNHSLKTI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVRT---------NVYLAVFD---KNLYDKLVSSF  372
              P +S GI+      + ++ + +V            V+   FD     +Y+KL+ ++
Sbjct  117  AFPNISTGIYHFPKERAAKIAIQSVTEFLKQDNQIQTVFFVCFDFENLEIYNKLLQTY  174


>sp|Q72M93|Y3295_LEPIC Macro domain-containing protein LIC_13295 
OS=Leptospira interrogans serogroup Icterohaemorrhagiae serovar 
copenhageni (strain Fiocruz L1-130) OX=267671 GN=LIC_13295 
PE=4 SV=1
Length=175

 Score = 176 bits (446),  Expect = 3e-49, Method: Composition-based stats.
 Identities = 45/178 (25%), Positives = 81/178 (46%), Gaps = 25/178 (14%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            + + + +   DI +    ++   +VNAAN  L  GGGV GA+++A    +  E       
Sbjct  1    MNNKIKLIKEDITQ----LEVDAIVNAANSSLLGGGGVDGAIHRAGGPEILEECYKIREK  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKG--EDIQLLKSAYEN----FNQH--EVL  326
             G  KVG + + +   L AK  +H VGP  + G   + +LL +AY+N       H  + +
Sbjct  57   QGECKVGEAVITTAGRLNAKFIIHTVGPIWSGGNKNEDELLSNAYKNSLLLAKNHSLKTI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVRT---------NVYLAVFD---KNLYDKLVSSF  372
              P +S GI+      + ++ + +V            V+   FD     +Y+KL+ ++
Sbjct  117  AFPNISTGIYHFPKERAAKIAIQSVTKFLKQDNQIQTVFFVCFDFENLEIYNKLLQTY  174


>sp|Q96XY5|Y2383_SULTO Uncharacterized protein STK_23830 OS=Sulfurisphaera 
tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 
/ 7) OX=273063 GN=STK_23830 PE=4 SV=1
Length=182

 Score = 171 bits (432),  Expect = 3e-47, Method: Composition-based stats.
 Identities = 53/184 (29%), Positives = 85/184 (46%), Gaps = 22/184 (12%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            V I   DI E    ++   +VNAAN YL+HGGGVA A+ +     +Q ES +Y+   GP+
Sbjct  3    VKIIKGDITE----IEAEAIVNAANSYLEHGGGVARAIVEKGGYIIQKESREYVRKYGPV  58

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQLLKSAYENF------NQHEVLLAPLLS  332
              GG  V S   L AK+ +H VGP     E  + L+ A  N        +   +  P +S
Sbjct  59   PTGGVAVTSAGKLKAKYVIHAVGPRYGI-EGEEKLEEAIRNALRKAEELKLSSIALPAIS  117

Query  333  AGIFGADPIHSLRVCVDTVRT---------NVYLAVFDKNLYDKLVSSF-LEMKSEKQVE  382
             GI+G          V  ++           + ++++ +  Y+  V+ F  E+  EK + 
Sbjct  118  TGIYGYPYEICAEKMVKVIKEEYTNFKHLNTIIVSLYSEEAYNIFVNIFERELAKEKNIT  177

Query  383  QKIA  386
             K++
Sbjct  178  LKMS  181


>sp|Q8RB30|Y995_CALS4 Macro domain-containing protein TTE0995 
OS=Caldanaerobacter subterraneus subsp. tengcongensis (strain 
DSM 15242 / JCM 11007 / NBRC 100824 / MB4) OX=273068 GN=TTE0995 
PE=4 SV=1
Length=175

 Score = 168 bits (424),  Expect = 3e-46, Method: Composition-based stats.
 Identities = 43/179 (24%), Positives = 76/179 (42%), Gaps = 21/179 (12%)

Query  216  LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
            + + + +   +IV++    +   +VNAAN  L  GGGV GA++KA   A+  E       
Sbjct  1    MKEKIKLIKGNIVDQ----EVDAIVNAANSSLIGGGGVDGAIHKAGGPAIAEELKVIREK  56

Query  276  NGPLKVGGSCVLSGHNL-AKHCLHVVGPNV--NKGEDIQLLKSAY----ENFNQH--EVL  326
             G    G + +    NL AK+ +H VGP        +  LL SAY    +  +++  + +
Sbjct  57   QGGCPTGHAVITGAGNLKAKYVIHAVGPIWKGGNHNEDNLLASAYIESLKLADEYNVKTI  116

Query  327  LAPLLSAGIFGADPIHSLRVCVDTVR--------TNVYLAVFDKNLYDKLVSSFLEMKS  377
              P +S G +G     + R+ +  V           V   +F    Y+    ++ E+  
Sbjct  117  AFPSISTGAYGFPVERAARIALRVVSDYLEGSSIKEVRFVLFSDRDYEVYSKAYEELDK  175


>sp|Q97UU4|Y2899_SACS2 Uncharacterized protein SSO2899 OS=Saccharolobus 
solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 
/ P2) OX=273057 GN=SSO2899 PE=4 SV=1
Length=177

 Score = 167 bits (423),  Expect = 5e-46, Method: Composition-based stats.
 Identities = 49/171 (29%), Positives = 83/171 (49%), Gaps = 17/171 (10%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            +Y+   DI E    ++   +VNAAN YL+HGGGVA A+ +     +Q ESD+Y+   GP+
Sbjct  10   IYLIKGDITE----IEADAIVNAANSYLQHGGGVAYAIVRKGGYIIQKESDEYVKKFGPV  65

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQLLKSAYENFNQHE-----VLLAPLLSA  333
             VG   V S   L AK+ +H VGP      + +L  + +++  + +      +  P +S 
Sbjct  66   PVGEVAVTSAGKLKAKYVIHAVGPRYGIEGEDKLESAIFKSLLKADELSLSSIAMPAIST  125

Query  334  GIFGADPIHSLRVCVDTVR-------TNVYLAVFDKNLYDKLVSSFLEMKS  377
            GI+G       R+  + ++         V + ++ K+ YD   S F  +  
Sbjct  126  GIYGYPFEICARIMANVLKGYKPKTLRKVMICLYTKDAYDVFKSIFNSILK  176


>sp|E1PL40|YMDB2_PANVC O-acetyl-ADP-ribose deacetylase 2 OS=Pantoea 
vagans (strain C9-1) OX=712898 GN=ymdB2 PE=3 SV=1
Length=171

 Score = 166 bits (420),  Expect = 9e-46, Method: Composition-based stats.
 Identities = 44/170 (26%), Positives = 71/170 (42%), Gaps = 22/170 (13%)

Query  218  DNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNG  277
            + + +   DI   A       ++N AN  L  GGGV GA+++A    +  E     +  G
Sbjct  2    NKITVIQGDITNIAS----EAIINVANSSLLGGGGVDGAIHRAGGPVILAECQAIRSRQG  57

Query  278  PLKVGGSCVLSGHNL-AKHCLHVVGPNVNKG---EDIQLLK---SAYENFNQHEV--LLA  328
              KVG + +     L A + +H VGP  + G   ED QL     S ++    H +  +  
Sbjct  58   GCKVGEAVITGAGTLPADYVIHTVGPRWSDGRHNEDTQLKSVYLSCFKLVGHHGIKTVSF  117

Query  329  PLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKNLYDKLV  369
            P +S GI+G     +  + +D ++           V L  FD   YD  +
Sbjct  118  PNISTGIYGFPKKRAAAIALDVIKHCIAENRTIEKVNLVCFDAENYDLYL  167


>sp|Q8ZXT3|Y1111_PYRAE Uncharacterized protein PAE1111 OS=Pyrobaculum 
aerophilum (strain ATCC 51768 / DSM 7523 / JCM 9630 
/ CIP 104966 / NBRC 100827 / IM2) OX=178306 GN=PAE1111 PE=4 
SV=1
Length=182

 Score = 164 bits (416),  Expect = 5e-45, Method: Composition-based stats.
 Identities = 51/169 (30%), Positives = 77/169 (46%), Gaps = 21/169 (12%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            V +   DI E    V+   +VNAAN YL+HGGGVAGA+ +     +Q ES +++  +GP+
Sbjct  10   VVLMRGDITE----VEADAIVNAANSYLEHGGGVAGAIVRKGGQVIQEESREWVRKHGPV  65

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQLLKSAYENFNQHE------VLLAPLLS  332
             VG   V S   L AK+ +H VGP     E I+ L  A +N            +  P +S
Sbjct  66   PVGDVAVTSAGRLKAKYVIHAVGPRCG-VEPIEKLAEAVKNALLKAEELGLVSIALPAIS  124

Query  333  AGIFGADPIHSLRVCVDTVRT---------NVYLAVFDKNLYDKLVSSF  372
             GIFG     +       +R           + + ++ +  Y K +  F
Sbjct  125  TGIFGCPYDAAAEQMATAIREVAPALRSIRRILVVLYGEEAYQKFLEVF  173


>sp|Q8TQD0|Y1614_METAC Macro domain-containing protein MA_1614 
OS=Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 
/ JCM 12185 / C2A) OX=188937 GN=MA_1614 PE=4 SV=1
Length=195

 Score = 164 bits (416),  Expect = 7e-45, Method: Composition-based stats.
 Identities = 48/202 (24%), Positives = 82/202 (41%), Gaps = 29/202 (14%)

Query  196  MELTPVVQTIEVNSFSGYLKLTDN---VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGG  252
                P  + ++ NS    L ++ N   + I   DI E    +K   +VNAAN  L  GGG
Sbjct  2    DPQKPYKKELKRNSRKRSLNMSQNSERIRIIERDITE----LKVDAIVNAANNTLLGGGG  57

Query  253  VAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--D  309
            V GA+++A    +  E             G + +  G+ L AK+ +H VGP   +G   +
Sbjct  58   VDGAIHRAAGPGLLEECRTLN----GCPTGEAKITKGYLLPAKYVIHTVGPIWQEGTKGE  113

Query  310  IQLLKSAYEN----FNQHE--VLLAPLLSAGIFGADPIHSLRVCVDTVR---------TN  354
             + L S Y        +++   +  P +S G +G     + R+ V  V+           
Sbjct  114  DEFLASCYRKSLELARKYDVKTIAFPTISTGAYGFPSERAARIAVSQVKEFLKVNELPEI  173

Query  355  VYLAVFDKNLYDKLVSSFLEMK  376
            V+L  ++K     +  +  E  
Sbjct  174  VFLVCYNKEACKNIKKALEENL  195


>sp|Q8KAE4|Y2219_CHLTE Macro domain-containing protein CT2219 
OS=Chlorobaculum tepidum (strain ATCC 49652 / DSM 12025 / NBRC 
103806 / TLS) OX=194439 GN=CT2219 PE=4 SV=1
Length=172

 Score = 163 bits (411),  Expect = 2e-44, Method: Composition-based stats.
 Identities = 47/178 (26%), Positives = 74/178 (42%), Gaps = 31/178 (17%)

Query  216  LTDNV--YIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYI  273
            + DNV  +   ADI      +    +VNAAN  L  GGGV GA+++A    +     +  
Sbjct  1    MPDNVLIHAIKADITS----LTVDAIVNAANTSLLGGGGVDGAIHRAAGPKLLEACREL-  55

Query  274  ATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYENFNQ------HE  324
               G    G + +  G+ L A   +H VGP  + G   + +LL S Y N  +        
Sbjct  56   ---GGCLTGEAKITKGYRLPATFVIHTVGPVWHGGNHGEAELLASCYRNSLKLAIEHHCR  112

Query  325  VLLAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVF---DKNLYDKLVS  370
             +  P +S GI+G     +  + + TVR           V    F   D ++Y K ++
Sbjct  113  TIAFPSISTGIYGYPVEQAAAIAITTVREMLADERGIEKVIFCCFSDRDLDVYQKALA  170


>sp|Q8Q0F9|Y177_METMA Macro domain-containing protein MM_0177 
OS=Methanosarcina mazei (strain ATCC BAA-159 / DSM 3647 / Goe1 
/ Go1 / JCM 11833 / OCM 88) OX=192952 GN=MM_0177 PE=4 SV=1
Length=187

 Score = 163 bits (412),  Expect = 2e-44, Method: Composition-based stats.
 Identities = 46/164 (28%), Positives = 73/164 (45%), Gaps = 26/164 (16%)

Query  218  DNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNG  277
            D + I   DIV+    ++   +VNAAN  L  GGGV GA+++A   A+  E         
Sbjct  19   DRIRIFEGDIVK----MRVDAIVNAANNTLLGGGGVDGAIHRAAGPALLEECKTLN----  70

Query  278  PLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVLLA  328
                G + + SG+ L AK+ +H VGP    GE  + +LL S Y          + + +  
Sbjct  71   GCPTGEAKITSGYLLPAKYIIHTVGPVWQGGEKGEDELLASCYRKSLELARDYKIKTIAF  130

Query  329  PLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKN  363
            P +S G +G     +  + V  V+           VYL  ++K+
Sbjct  131  PAISTGAYGFPSERAAGIAVSQVKEFLQKNEIPETVYLVCYNKD  174


>sp|Q93SX7|Y189_ACISE Macro domain-containing protein OS=Acinetobacter 
sp. (strain ED45-25) OX=194927 PE=4 SV=1
Length=183

 Score = 159 bits (402),  Expect = 4e-43, Method: Composition-based stats.
 Identities = 43/179 (24%), Positives = 69/179 (39%), Gaps = 22/179 (12%)

Query  218  DNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNG  277
              V++  ADI   A       +VN+AN  L  GGG+   ++K     M+ E        G
Sbjct  2    KKVHLIQADITAFAVH----AIVNSANKSLLGGGGLDYVIHKKAGPLMKEECVRLNQEKG  57

Query  278  PLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYENFN------QHEVLLA  328
                G + V +  NL AK+ +H VGP    GE  + QLL  AY N            +  
Sbjct  58   GCPTGQAEVTTAGNLPAKYLIHAVGPRWLDGEHNEPQLLCDAYSNALFKANEIHALTVSF  117

Query  329  PLLSAGIFGADPIHSLRVCVDTVRT---------NVYLAVFDKNLYDKLVSSFLEMKSE  378
            P +S G++G  P  +  + + T+ +          V+    +   Y    +    +   
Sbjct  118  PCISTGVYGFPPQKAAEIAIGTILSMLPQYDHVAEVFFICREDENYLIYKNILSNIDDP  176


>sp|Q4J9D2|Y1252_SULAC Uncharacterized protein Saci_1252 OS=Sulfolobus 
acidocaldarius (strain ATCC 33909 / DSM 639 / JCM 8929 
/ NBRC 15157 / NCIMB 11770) OX=330779 GN=Saci_1252 PE=4 
SV=1
Length=181

 Score = 158 bits (399),  Expect = 7e-43, Method: Composition-based stats.
 Identities = 47/170 (28%), Positives = 77/170 (45%), Gaps = 17/170 (10%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            V ++N DI +    V+   +VNAAN YL HGGGVA A+ ++    +Q ESD+Y+  NGP+
Sbjct  13   VILENGDITK----VEADAIVNAANSYLSHGGGVALAIVRSGGYIIQEESDEYVRRNGPV  68

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQLLKSAYENFNQHE-----VLLAPLLSA  333
             VG   V +   L A++ +H VGP      D +L  +   +  + +      +  P +S 
Sbjct  69   PVGEVAVTTAGKLKARYVIHAVGPRYGIEGDDKLESAIRRSLEKADELKLSSIALPAIST  128

Query  334  GIFGADPIHSLRVCVDTVRT-------NVYLAVFDKNLYDKLVSSFLEMK  376
            GI+G       R+    ++         + + V+    Y      F    
Sbjct  129  GIYGYPYEICARIMSKVMKEYKPKFLKRILVVVYGDQAYSVFKKVFDNSL  178


>sp|Q9ZBG3|Y6450_STRCO Macro domain-containing protein SCO6450 
OS=Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145) 
OX=100226 GN=SCO6450 PE=4 SV=1
Length=169

 Score = 156 bits (393),  Expect = 4e-42, Method: Composition-based stats.
 Identities = 42/167 (25%), Positives = 69/167 (41%), Gaps = 20/167 (12%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATN--G  277
            + +   DI  +        +VNAAN  L  GGGV GA+++    A+  E     A +   
Sbjct  4    ITLVQGDITRQ----SADAIVNAANSSLLGGGGVDGAIHRRGGPAILAECRRLRAGHLGK  59

Query  278  PLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQ-LLKSAYENFNQ------HEVLLAP  329
             L  G +   +  +L A+  +H VGP  +  ED   LL S Y    +         +  P
Sbjct  60   GLPTGRAVATTAGDLDARWVIHTVGPVWSATEDRSGLLASCYRESLRTADELGARTVAFP  119

Query  330  LLSAGIFGADPIHSLRVCVDTVR------TNVYLAVFDKNLYDKLVS  370
             +S G++      + R+ V+TV       T +   +FD   Y+   +
Sbjct  120  AISTGVYRWPMDDAARIAVETVATTKTSVTEIRFVLFDARAYEAFAA  166


>sp|Q9KHE2|Y189_STRGR Macro domain-containing protein in non 5'region 
OS=Streptomyces griseus OX=1911 PE=4 SV=1
Length=177

 Score = 154 bits (388),  Expect = 2e-41, Method: Composition-based stats.
 Identities = 43/173 (25%), Positives = 68/173 (39%), Gaps = 21/173 (12%)

Query  213  YLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDY  272
               ++  V +   DI ++       V+VNAAN  L  GGGV GA+++     +     + 
Sbjct  2    STSVSPVVRLVRGDITDQ----SVDVIVNAANSSLLGGGGVDGAIHRRGGPDILAACREL  57

Query  273  IATN--GPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGED-IQLLKSAYE------NFNQ  322
             A+     L  G +   +   L A+  +H VGP  +  +D   LL S Y           
Sbjct  58   RASRYGKGLPTGQAVATTAGRLDARWIVHTVGPVFSGAQDRSALLASCYRESLRLAAELG  117

Query  323  HEVLLAPLLSAGIFGADPIHSLRVCVDTV-------RTNVYLAVFDKNLYDKL  368
               +  P +S GI+G       R+ V TV          V   +FD + Y + 
Sbjct  118  ARSIAFPAISTGIYGWPMDDGARIAVRTVLAETVEPVEEVRFVLFDAHAYVEF  170


>sp|Q9EYI6|Y189_STRNO Macro domain-containing protein in sno 5'region 
OS=Streptomyces nogalater OX=38314 PE=4 SV=1
Length=181

 Score = 154 bits (388),  Expect = 2e-41, Method: Composition-based stats.
 Identities = 46/165 (28%), Positives = 70/165 (42%), Gaps = 20/165 (12%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYI-ATNGP  278
            + +   DI  +        +VNAAN  L  GGGV GA+++    A+  E      +  G 
Sbjct  4    ITLVQGDITRQ----HADALVNAANSSLLGGGGVDGAIHRRGGPAILAECRALRASRYGE  59

Query  279  -LKVGGSCVLSGHNL-AKHCLHVVGPNVNKGED-IQLLKSAYENFNQ------HEVLLAP  329
             L  G +   +  +L A+  +H VGP  +  ED   LL S Y    +         +  P
Sbjct  60   GLPTGRAVATTAGDLDARWVIHTVGPVWSSTEDRSDLLASCYRESLRLAGELGARTVAFP  119

Query  330  LLSAGIFGADPIHSLRVCVDTVRT------NVYLAVFDKNLYDKL  368
             LS G++      + R+ V+TVRT       V   +FD + YD  
Sbjct  120  ALSTGVYRWPMGDAARIAVETVRTTPTAVEEVRFVLFDTHAYDTF  164


>sp|Q7MTZ7|MACRO_PORGI Macro domain-containing protein PG1779 
OS=Porphyromonas gingivalis (strain ATCC BAA-308 / W83) OX=242619 
GN=PG_1779 PE=2 SV=1
Length=164

 Score = 152 bits (384),  Expect = 5e-41, Method: Composition-based stats.
 Identities = 39/170 (23%), Positives = 71/170 (42%), Gaps = 24/170 (14%)

Query  218  DNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNG  277
              + I   DI     + +   +VNAAN  L  GGGV GA+++A    +  E         
Sbjct  2    GKITITVGDIT----RFEGDAIVNAANHTLLGGGGVDGAIHRAAGPELLEECRTLN----  53

Query  278  PLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN------FNQHEVLLA  328
                G S +  G+NL A++ +H VGP  + G+  + +LL S Y            + +  
Sbjct  54   GCPTGESKITGGYNLPAQYVIHTVGPVWHGGQHGEPELLASCYRTSLSIALDKGLKSIAF  113

Query  329  PLLSAGIFGADPIHSLRVCVDTVRT-------NVYLAVFDKNLYDKLVSS  371
            P +S G++      + R+ + T+         +V +  F +   +  ++ 
Sbjct  114  PCISTGVYRYPKDQAARIALATIGEIIADRPIDVTIVCFSEADKEFYITQ  163


>sp|Q87JZ5|Y4103_VIBPA Macro domain-containing protein VPA0103 
OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633) 
OX=223926 GN=VPA0103 PE=4 SV=1
Length=170

 Score = 149 bits (376),  Expect = 6e-40, Method: Composition-based stats.
 Identities = 41/155 (26%), Positives = 68/155 (44%), Gaps = 14/155 (9%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNG-P  278
            + +   DI           +VNAAN  +  GGGV GA+++A   A+          +G  
Sbjct  4    ISLVQGDITT----AHVDAIVNAANPRMLGGGGVDGAIHRAAGPALINACYAVDDVDGIR  59

Query  279  LKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQ-LLKSAYEN------FNQHEVLLAPL  330
               G + +    NL A++ +H VGP  +K  D + +L+SAY+        N  + +  P 
Sbjct  60   CPFGDARITEAGNLNARYVIHAVGPIYDKFADPKTVLESAYQRSLDLALANHCQSVALPA  119

Query  331  LSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLY  365
            +S G++G  P  +  V +   +   Y A  D   Y
Sbjct  120  ISCGVYGYPPQEAAEVAMAVCQRPEY-AALDMRFY  153


>sp|Q9HXU7|Y3693_PSEAE Macro domain-containing protein PA3693 
OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 
104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) OX=208964 
GN=PA3693 PE=4 SV=1
Length=173

 Score = 149 bits (376),  Expect = 8e-40, Method: Composition-based stats.
 Identities = 44/180 (24%), Positives = 73/180 (41%), Gaps = 30/180 (17%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            V +   DI     ++    +VNAAN  L  GGGV GA+++A    +          +G  
Sbjct  4    VRVWQGDIT----RLAVDAIVNAANSSLLGGGGVDGAIHRAAGAELVAACRLL---HG-C  55

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYENF------NQHEVLLAPL  330
            K G + +  G  L A H +H VGP    G+  + +LL S Y              +  P 
Sbjct  56   KTGEAKITRGFRLPAAHVIHTVGPVWRGGDNGEAELLASCYRRSLALAEQAGAASVAFPA  115

Query  331  LSAGIFGADPIHSLRVCVDTV---------RTNVYLAVFDKNLYDKLVSSFLEMKSEKQV  381
            +S GI+G     +  + V+ V            + L  FD ++ ++    +  +  E+ V
Sbjct  116  ISCGIYGYPLEQAAAIAVEEVCRQRPAHSSLEEIVLVAFDSSMAER----YQRLLGERPV  171


>sp|Q8Y2K1|Y334_RALN1 Macro domain-containing protein RSc0334 
OS=Ralstonia nicotianae (strain GMI1000) OX=267608 GN=RSc0334 
PE=4 SV=1
Length=171

 Score = 149 bits (376),  Expect = 9e-40, Method: Composition-based stats.
 Identities = 46/165 (28%), Positives = 73/165 (44%), Gaps = 26/165 (16%)

Query  224  NADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGG  283
             ADI   A       +VNAAN  L  GGGV GA+++A    +          +G  + G 
Sbjct  12   RADITTLA----CDAIVNAANSALLGGGGVDGAIHRAAGPELLEACRAL---HG-CRTGQ  63

Query  284  SCVLSGHNL-AKHCLHVVGPNVNKG--EDIQLLKSAYEN----FNQHE--VLLAPLLSAG  334
            + +  G  L A++ +H VGP    G  ++  LL + Y N      QH+   +  P +S G
Sbjct  64   AKITPGFLLPARYIIHTVGPIWRGGRQDEAALLAACYRNSLALAKQHDVRTIAFPCISTG  123

Query  335  IFGADPIHSLRVCVDTVRT------NVYLAVF---DKNLYDKLVS  370
            ++G  P  +  + V TVR       ++    F   D  LY+  ++
Sbjct  124  VYGFPPQLAAPIAVRTVREHGADLDDIVFCCFSAADLALYETALN  168


>sp|Q9WYX8|Y508_THEMA Uncharacterized protein TM_0508 OS=Thermotoga 
maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 
100826 / MSB8) OX=243274 GN=TM_0508 PE=3 SV=1
Length=599

 Score = 161 bits (406),  Expect = 1e-39, Method: Composition-based stats.
 Identities = 52/157 (33%), Positives = 73/157 (46%), Gaps = 15/157 (10%)

Query  205  IEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNA  264
             EV     Y      + I   DI  E    +   +VNAAN YLKHGGGVAGA+ +A  + 
Sbjct  416  AEVRKELEYKG--KKIRIVKGDITRE----EVDAIVNAANEYLKHGGGVAGAIVRAGGSV  469

Query  265  MQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNK---GEDIQLLKSAYENF  320
            +Q ESD  +   G +  G + V S   L AK+ +H VGP       GED  L K+ Y   
Sbjct  470  IQEESDRIVQERGRVPTGEAVVTSAGKLKAKYVIHTVGPVWRGGSHGEDELLYKAVYNAL  529

Query  321  -----NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVR  352
                  + + +  P +S GIFG     ++ +    +R
Sbjct  530  LRAHELKLKSISMPAISTGIFGFPKERAVGIFSKAIR  566


>sp|Q97AU0|Y719_THEVO Uncharacterized protein TV0719 OS=Thermoplasma 
volcanium (strain ATCC 51530 / DSM 4299 / JCM 9571 / 
NBRC 15438 / GSS1) OX=273116 GN=TV0719 PE=4 SV=1
Length=186

 Score = 147 bits (371),  Expect = 6e-39, Method: Composition-based stats.
 Identities = 43/169 (25%), Positives = 69/169 (41%), Gaps = 22/169 (13%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGP-  278
            + I   DI +    V    +VNAAN  L  GGGV GA++      + +E  +   T  P 
Sbjct  11   IEIIEGDITD----VNCEAIVNAANPSLMGGGGVDGAIHLKGGKTIDLECAELRRTKWPK  66

Query  279  -LKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQ--LLKSAYEN-----FNQHEVLLAP  329
             L  G + + SG  L AK+ +H VGP     E+    L  S Y +      +  + +  P
Sbjct  67   GLPPGEADITSGGKLKAKYVIHTVGPIYRGQEEDAETLYSSYYRSLEIAKIHGIKCIAFP  126

Query  330  LLSAGIFGADPIHSLRVCVDTVRT--------NVYLAVFDKNLYDKLVS  370
             +S GI+G     +  + +  V           +   ++ +  Y   VS
Sbjct  127  AISTGIYGYPFEEASVIALKAVTDFLSNKEGYIIKFVLYGQARYQTFVS  175


>sp|Q8Y3S3|Y2759_LISMO Macro domain-containing protein lmo2759 
OS=Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 
/ EGD-e) OX=169963 GN=lmo2759 PE=4 SV=1
Length=176

 Score = 146 bits (369),  Expect = 7e-39, Method: Composition-based stats.
 Identities = 49/175 (28%), Positives = 75/175 (43%), Gaps = 27/175 (15%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            + I   DI E+    +  V+VNAAN  L  GGGV GA+++A    +  E  + I   G  
Sbjct  3    ITIVKGDITEQ----EVDVIVNAANSGLLGGGGVDGAIHQAAGPDLLKECQEVINRIGSC  58

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAY------ENFNQHEVLLAPL  330
              G + + S  +L A + +H VGP    GE  +   L S Y              +  P 
Sbjct  59   PAGEAVITSAGDLKATYIIHAVGPIWKDGEHQEANKLASCYWKALDLAAGKDLTSIAFPN  118

Query  331  LSAGIFGADPIHSLRVCVDTVR-----------TNVYLAVFDKN---LYDKLVSS  371
            +S G++G     +  V + TVR             +    FD+    LY+KL++S
Sbjct  119  ISTGVYGFPKKLAAEVALYTVRKWAEEEYDTSIKEIRFVCFDEENLKLYNKLINS  173


>sp|Q8P5Z8|Y3184_XANCP Macro domain-containing protein XCC3184 
OS=Xanthomonas campestris pv. campestris (strain ATCC 33913 
/ DSM 3586 / NCPPB 528 / LMG 568 / P 25) OX=190485 GN=XCC3184 
PE=4 SV=1
Length=179

 Score = 146 bits (369),  Expect = 9e-39, Method: Composition-based stats.
 Identities = 38/167 (23%), Positives = 66/167 (40%), Gaps = 24/167 (14%)

Query  219  NVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDY--IATN  276
             + +   DI +    +   V+VNAAN  L  GGGV GA+++A    +    +    +   
Sbjct  2    RIEVWQGDITQ----LDVDVIVNAANESLLGGGGVDGAIHRAAGPRLLEACEALPEVRPG  57

Query  277  GPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKG--EDIQLLKSAYENFNQHE------VLL  327
                 G   +  G +L A+H  H VGP    G   + + L + Y    +         + 
Sbjct  58   VRCPTGEIRITDGFDLKARHIFHTVGPVWRDGKHNEPEQLANCYWQSLKLAEQMMLHSIA  117

Query  328  APLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKNLY  365
             P +S GI+G     + R+ V   R          ++ L  +++  Y
Sbjct  118  FPAISCGIYGYPLYQAARIAVTETRDWQRSHKVPKHIVLVAYNEATY  164


>sp|Q8PHB6|Y3343_XANAC Macro domain-containing protein XAC3343 
OS=Xanthomonas axonopodis pv. citri (strain 306) OX=190486 
GN=XAC3343 PE=4 SV=2
Length=179

 Score = 146 bits (368),  Expect = 1e-38, Method: Composition-based stats.
 Identities = 39/167 (23%), Positives = 66/167 (40%), Gaps = 24/167 (14%)

Query  219  NVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDY--IATN  276
             + +   DI E    +   V+VNAAN  L  GGGV GA+++A    +    +    +   
Sbjct  2    RIEVWQGDITE----LDVDVIVNAANESLLGGGGVDGAIHRAAGPRLLEACEALPQVRPG  57

Query  277  GPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKG--EDIQLLKSAYENFNQHE------VLL  327
                 G   +  G +L A+H  H VGP    G   + + L + Y    +         + 
Sbjct  58   VRCPTGEIRITDGFDLKARHIFHTVGPVWRDGRHNEPEQLANCYWQSLKLAEQMMLHSIA  117

Query  328  APLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKNLY  365
             P +S GI+G     + R+ V   R          ++ L  +++  Y
Sbjct  118  FPAISCGIYGYPLHQAARIAVTETRDWQRSHKVPKHIVLVAYNEATY  164


>sp|Q71W03|Y2748_LISMF Macro domain-containing protein LMOf2365_2748 
OS=Listeria monocytogenes serotype 4b (strain F2365) 
OX=265669 GN=LMOf2365_2748 PE=4 SV=1
Length=176

 Score = 146 bits (368),  Expect = 1e-38, Method: Composition-based stats.
 Identities = 48/175 (27%), Positives = 75/175 (43%), Gaps = 27/175 (15%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            + +   DI E+       V+VNAAN  L  GGGV GA+++A    +  E  + I   G  
Sbjct  3    ITVVKGDITEQ----DVDVIVNAANPGLLGGGGVDGAIHQAAGPDLLKECQEVINRIGTC  58

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAY------ENFNQHEVLLAPL  330
              G + + S  +L A + +H VGP    GE  +   L S Y          +   +  P 
Sbjct  59   PAGEAVITSAGDLQASYIIHAVGPIWKDGEHQEANKLASCYWKALDLAAGKELTSIAFPN  118

Query  331  LSAGIFGADPIHSLRVCVDTVR-----------TNVYLAVFDKN---LYDKLVSS  371
            +S G++G     +  V + TVR             +    FD+    LY+KL++S
Sbjct  119  ISTGVYGFPKKLAAEVALYTVRKWAEEEYDTSIEEIRFVCFDEENLKLYNKLINS  173


>sp|Q926Y8|Y2902_LISIN Macro domain-containing protein lin2902 
OS=Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 
11262) OX=272626 GN=lin2902 PE=4 SV=1
Length=176

 Score = 146 bits (368),  Expect = 1e-38, Method: Composition-based stats.
 Identities = 49/176 (28%), Positives = 74/176 (42%), Gaps = 27/176 (15%)

Query  219  NVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGP  278
            ++ +   DI E+       V+VNAAN  L  GGGV GA+++A    +  E  + I   G 
Sbjct  2    DITVVKGDITEQ----NVDVIVNAANPGLLGGGGVDGAIHQAAGPDLLKECQEVINRIGS  57

Query  279  LKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAY------ENFNQHEVLLAP  329
               G + + S  +L A   +H VGP    GE  +   L S Y              +  P
Sbjct  58   CPAGEAVITSAGDLKAHFIIHAVGPIWKDGEHQEANKLASCYWKALDLAAGKDLTSIAFP  117

Query  330  LLSAGIFGADPIHSLRVCVDTVR-----------TNVYLAVFDKN---LYDKLVSS  371
             +S G++G     +  V + TVR             V    FD+    LY+KL++S
Sbjct  118  NISTGVYGFPKKLAAEVALYTVRKWAEEEYDSSIKEVRFVCFDEENLTLYNKLINS  173


>sp|Q88SK6|Y3408_LACPL Macro domain-containing protein lp_3408 
OS=Lactiplantibacillus plantarum (strain ATCC BAA-793 / NCIMB 
8826 / WCFS1) OX=220668 GN=lp_3408 PE=4 SV=1
Length=172

 Score = 145 bits (366),  Expect = 2e-38, Method: Composition-based stats.
 Identities = 38/170 (22%), Positives = 72/170 (42%), Gaps = 27/170 (16%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            + + + DI +    +    +VNAAN  L  GGGV GA+++A   A+          +G  
Sbjct  4    IKVIHGDITK----MTVDAIVNAANTSLLGGGGVDGAIHRAAGPALLAACRPL---HG-C  55

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYENF------NQHEVLLAPL  330
              G + +  G  L AK+ +H  GP    G+  ++QLL ++Y N       N  + +  P 
Sbjct  56   ATGEAKITPGFRLPAKYVIHTPGPVWQGGQHNELQLLANSYRNSLNLAAENHCQTVAFPS  115

Query  331  LSAGIFGADPIHSLRVCVDTVR----------TNVYLAVFDKNLYDKLVS  370
            +S G++      +  + + T++            + +  FD    +   +
Sbjct  116  ISTGVYHFPLSIAAPLALKTLQATAQTTAHTVQTITIVCFDDQTQNVFST  165


>sp|Q44020|YGB2_CUPNE Macro domain-containing protein in gbd 3'region 
OS=Cupriavidus necator OX=106590 PE=4 SV=1
Length=173

 Score = 143 bits (361),  Expect = 9e-38, Method: Composition-based stats.
 Identities = 43/166 (26%), Positives = 73/166 (44%), Gaps = 22/166 (13%)

Query  218  DNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNG  277
            +++ + + DI     +++   +VNAAN  L  GGGV GA++ A  +A++        T G
Sbjct  4    EHLQVVHGDIT----RMEVDAIVNAANSGLLGGGGVDGAIHGAGGSAIKEACRAIRDTQG  59

Query  278  PLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYENF------NQHEVLLA  328
                G + + +G +L A + +H VGP    G+  + +LL +AY N       +    L  
Sbjct  60   GCPTGEAVITTGGHLPAPYVIHAVGPVWQGGDQGEDELLANAYRNSIRLAAQHHLRRLAF  119

Query  329  PLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKNLY  365
            P +S GI+      +  + +  VR           V    FD   Y
Sbjct  120  PNISTGIYAFPRERAADIAIAAVREALAAAPEIEQVTFVCFDDENY  165


>sp|Q8RHQ2|Y1951_FUSNN Uncharacterized protein FN1951 OS=Fusobacterium 
nucleatum subsp. nucleatum (strain ATCC 25586 / DSM 
15643 / BCRC 10681 / CIP 101130 / JCM 8532 / KCTC 2640 / LMG 
13131 / VPI 4355) OX=190304 GN=FN1951 PE=4 SV=1
Length=175

 Score = 143 bits (360),  Expect = 1e-37, Method: Composition-based stats.
 Identities = 43/171 (25%), Positives = 75/171 (44%), Gaps = 25/171 (15%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            + + + DI +     +   +VNAAN  L+ GGGV GA+ KA  + +  E  +     G  
Sbjct  6    IKLISGDITKIP---EVEAIVNAANSSLEMGGGVCGAIFKAAGSELAQECKEI----GGC  58

Query  280  KVGGSCVLSGHNLA-KHCLHVVGPNVNKGE--DIQLLKSAY----ENFNQHEV--LLAPL  330
              G + +  G+NL  K+ +H VGP  + GE  + + L SAY    +  N+  +  +  P 
Sbjct  59   NTGEAVITKGYNLPNKYIIHTVGPRYSTGENREAERLASAYYESLKLANEKGIRRIAFPS  118

Query  331  LSAGIFGADPIHSLRVCVDTVRT---------NVYLAVFDKNLYDKLVSSF  372
            +S GI+        ++ + T            ++ L V D+  Y      +
Sbjct  119  ISTGIYRFPVDEGAKIALTTAIKFLDKNPSSFDLILWVLDEKTYIVYKEKY  169


>sp|Q6PAV8|MACD2_XENLA ADP-ribose glycohydrolase MACROD2 OS=Xenopus 
laevis OX=8355 GN=macrod2 PE=2 SV=1
Length=418

 Score = 150 bits (378),  Expect = 3e-37, Method: Composition-based stats.
 Identities = 55/280 (20%), Positives = 99/280 (35%), Gaps = 34/280 (12%)

Query  161  WLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNV  220
            W ++  +     +D         +          E++                  L + V
Sbjct  11   WKEEKERLLNMTRDERRKEYREYVSLDKIPSLMEELKSKASSDDESPEEIQVKNSLCEKV  70

Query  221  YIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLK  280
                 DI +    ++   +VNAAN  L  GGGV G +++A+  ++  E  +     G  +
Sbjct  71   SFYKGDITQ----LEVDAIVNAANTSLLGGGGVDGCIHRASGPSLLAECREL----GGCE  122

Query  281  VGGSCVLSGHNL-AKHCLHVVGPNVNKG---EDIQLLKSAYENF------NQHEVLLAPL  330
             G + +  G+ L AK+ +H VGP           Q L S Y +       N    +  P 
Sbjct  123  TGQAKITCGYELPAKYVIHTVGPIARGHITPNHKQDLASCYNSSLTLATENDIRTIAFPC  182

Query  331  LSAGIFGADPIHSLRVCVDTVRT----------NVYLAVFDK---NLYDKLVSSFLEMKS  377
            +S GI+G     +  V + TV+            V   VF +    +Y + ++ F     
Sbjct  183  ISTGIYGYPNEPAANVALTTVKEFLKKNRDKIDRVIFCVFLEVDFKIYKRKLNEFFPKDG  242

Query  378  EKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKAC  417
                E +  +  + +     TE KP     K+  +K +  
Sbjct  243  GDDEEGEKGDSDEMKED---TEGKPQSPPMKKIKEKKEDT  279


>sp|Q985D2|Y7730_RHILO Macro domain-containing protein mll7730 
OS=Mesorhizobium japonicum (strain LMG 29417 / CECT 9101 / 
MAFF 303099) OX=266835 GN=mll7730 PE=4 SV=1
Length=176

 Score = 139 bits (349),  Expect = 4e-36, Method: Composition-based stats.
 Identities = 49/182 (27%), Positives = 77/182 (42%), Gaps = 29/182 (16%)

Query  215  KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIA  274
            K  D + I   DI +    +    +VNAAN  L  GGGV GA+++A    ++VE      
Sbjct  3    KALDRIRIHTGDITK----LDVDAIVNAANTLLLGGGGVDGAIHRAAGRELEVECRMLN-  57

Query  275  TNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKG--EDIQLLKSAYEN------FNQHEV  325
                 KVG + +  G+ L A+H +H VGP    G   + +LL S Y +       N    
Sbjct  58   ---GCKVGDAKITKGYKLPARHIIHTVGPVWQGGGKGEAELLASCYRSSLELAAANDCRS  114

Query  326  LLAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDK---NLYDKLVSSFL  373
            +  P +S G++      +  + V TV            V    FD+    LY + V++  
Sbjct  115  VAFPAISTGVYRYPKDEATGIAVGTVSMVIEEKAMPETVIFCCFDEQTAQLYLRAVAALR  174

Query  374  EM  375
            + 
Sbjct  175  KG  176


>sp|A1Z1Q3|MACD2_HUMAN ADP-ribose glycohydrolase MACROD2 OS=Homo 
sapiens OX=9606 GN=MACROD2 PE=1 SV=2
Length=425

 Score = 146 bits (368),  Expect = 5e-36, Method: Composition-based stats.
 Identities = 53/239 (22%), Positives = 98/239 (41%), Gaps = 23/239 (10%)

Query  203  QTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATN  262
             T E +     L  T+ V +   DI      ++   +VNAAN  L  GGGV G +++A  
Sbjct  57   NTQETSQVKKSL--TEKVSLYRGDIT----LLEVDAIVNAANASLLGGGGVDGCIHRAAG  110

Query  263  NAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNK---GEDIQLLKSAYE  318
              +  E  +          G + +  G++L AK+ +H VGP       G   + L + Y+
Sbjct  111  PCLLAECRNLN----GCDTGHAKITCGYDLPAKYVIHTVGPIARGHINGSHKEDLANCYK  166

Query  319  NF------NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSF  372
            +       N    +  P +S GI+G     +  + ++T++   +LA     +   +   F
Sbjct  167  SSLKLVKENNIRSVAFPCISTGIYGFPNEPAAVIALNTIKE--WLAKNHHEVDRIIFCVF  224

Query  373  LEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFL  431
            LE+   K  ++K+ E    +      E     E   ++  + K  VEE+    ++   +
Sbjct  225  LEVD-FKIYKKKMNEFFSVDDNNEEEEDVEMKEDSDENGPEEKQSVEEMEEQSQDADGV  282


>sp|Q3UYG8|MACD2_MOUSE ADP-ribose glycohydrolase MACROD2 OS=Mus 
musculus OX=10090 GN=Macrod2 PE=1 SV=1
Length=475

 Score = 147 bits (370),  Expect = 8e-36, Method: Composition-based stats.
 Identities = 43/184 (23%), Positives = 78/184 (42%), Gaps = 22/184 (12%)

Query  203  QTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATN  262
             T E       L  ++ V +   DI      ++   +VNAAN  L  GGGV G +++A  
Sbjct  57   NTQEAPQMKKSL--SEKVSLYRGDIT----LLEVDAIVNAANASLLGGGGVDGCIHRAAG  110

Query  263  NAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNK---GEDIQLLKSAYE  318
              +  E  +        + G + +  G++L AK+ +H VGP       G   + L + Y+
Sbjct  111  PCLLAECRNLN----GCETGHAKITCGYDLPAKYVIHTVGPIARGHINGSHKEDLANCYQ  166

Query  319  NF------NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSF  372
            +       N    +  P +S GI+G     +  + + T++   +LA   + +   +   F
Sbjct  167  SSLKLVKENNLRSVAFPCISTGIYGFPNEPAAVIALGTIKE--WLAKNHQEVDRIIFCVF  224

Query  373  LEMK  376
            LE+ 
Sbjct  225  LEVD  228


>sp|Q8K4G6|MACD1_RAT ADP-ribose glycohydrolase MACROD1 (Fragment) 
OS=Rattus norvegicus OX=10116 GN=Macrod1 PE=2 SV=2
Length=258

 Score = 140 bits (352),  Expect = 1e-35, Method: Composition-based stats.
 Identities = 50/245 (20%), Positives = 94/245 (38%), Gaps = 22/245 (9%)

Query  144  FGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQ  203
            +   + A + +     DW +  S          E++        ++  P  +     +  
Sbjct  11   WAPLAMAAKVDLSTSTDWKEAKSFLKGLSDKQREEHYFCKDFIKLKKIPMWKETAKGLAG  70

Query  204  TIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNN  263
             +E   +    +L + + +   DI +    ++   +VNAAN  L  GGGV G +++A  +
Sbjct  71   KVENPKYKKDKQLNEKISLFRGDITK----LEVDAIVNAANNSLLGGGGVDGCIHRAAGS  126

Query  264  AMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKG---EDIQLLKSAYEN  319
             +  E           + G + +  G+ L AKH +H VGP             L+S Y +
Sbjct  127  LLTDECRTLQN----CETGKAKITCGYRLPAKHVIHTVGPIAVGQPTASQAAELRSCYLS  182

Query  320  F------NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSF  372
                   ++   +  P +S G+FG     +  V + T+R         K+  D+L +  F
Sbjct  183  SLDLLLEHRLRSVAFPCISTGVFGYPNEEAAEVVLATLRE---WLEQHKDKVDRLIICVF  239

Query  373  LEMKS  377
            LE   
Sbjct  240  LEKDE  244


>sp|Q9RS39|Y2288_DEIRA Macro domain-containing protein DR_2288 
OS=Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / 
JCM 16871 / CCUG 27074 / LMG 4051 / NBRC 15346 / NCIMB 9279 
/ VKM B-1422 / R1) OX=243230 GN=DR_2288 PE=4 SV=1
Length=170

 Score = 136 bits (342),  Expect = 2e-35, Method: Composition-based stats.
 Identities = 35/177 (20%), Positives = 69/177 (39%), Gaps = 31/177 (18%)

Query  219  NVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGP  278
             + +   DI  +        VV AAN  L  GGGV G +++A    +       I   G 
Sbjct  2    PLELVQGDIAHQ----PVDAVVTAANKQLMGGGGVDGVIHRAAGPRLLQA----IRPIGG  53

Query  279  LKVGGSCVLSGHNL----AKHCLHVVGPNVNKGE--DIQLLKSAYENF------NQHEVL  326
               G + +    +L     K+ +H VGP    G+  + +LL  AY         N    +
Sbjct  54   TPTGTAVITPAFDLERQGVKYVIHAVGPIWRGGQHGEAELLAGAYRESLRLGVENGCRSV  113

Query  327  LAPLLSAGIFGADPIHSLRVCVDTV--------RTNVYLAVFDKN---LYDKLVSSF  372
              P +S G++G     +  + + T+          +V + ++  +   ++++ ++  
Sbjct  114  AFPSISTGVYGYPLDRAAPIALATIQDFLRSHPDLSVRMVLYGADALHVFERALAQL  170


>sp|Q9BQ69|MACD1_HUMAN ADP-ribose glycohydrolase MACROD1 OS=Homo 
sapiens OX=9606 GN=MACROD1 PE=1 SV=2
Length=325

 Score = 141 bits (355),  Expect = 3e-35, Method: Composition-based stats.
 Identities = 50/245 (20%), Positives = 95/245 (39%), Gaps = 22/245 (9%)

Query  144  FGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQ  203
            +   + A + +     DW +  S          E++        ++  P  +     V  
Sbjct  78   WAPLAMAAKVDLSTSTDWKEAKSFLKGLSDKQREEHYFCKDFVRLKKIPTWKEMAKGVAV  137

Query  204  TIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNN  263
             +E   +    +L + + +  +DI +    ++   +VNAAN  L  GGGV G +++A   
Sbjct  138  KVEEPRYKKDKQLNEKISLLRSDITK----LEVDAIVNAANSSLLGGGGVDGCIHRAAGP  193

Query  264  AMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKG---EDIQLLKSAYEN  319
             +  E     +     K G + +  G+ L AK+ +H VGP             L+S Y +
Sbjct  194  LLTDECRTLQS----CKTGKAKITGGYRLPAKYVIHTVGPIAYGEPSASQAAELRSCYLS  249

Query  320  F------NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSF  372
                   ++   +  P +S G+FG     +  + + T+R         K+  D+L +  F
Sbjct  250  SLDLLLEHRLRSVAFPCISTGVFGYPCEAAAEIVLATLRE---WLEQHKDKVDRLIICVF  306

Query  373  LEMKS  377
            LE   
Sbjct  307  LEKDE  311


>sp|Q922B1|MACD1_MOUSE ADP-ribose glycohydrolase MACROD1 OS=Mus 
musculus OX=10090 GN=Macrod1 PE=1 SV=2
Length=323

 Score = 141 bits (354),  Expect = 5e-35, Method: Composition-based stats.
 Identities = 48/245 (20%), Positives = 94/245 (38%), Gaps = 22/245 (9%)

Query  144  FGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQ  203
            +   + A + +     DW +  S          E++        ++  P  +     +  
Sbjct  76   WAPLAMAAKVDLSTSTDWKEAKSFLKGLSDKQREEHYFCKDFIKLKKIPTWKETAKGLAV  135

Query  204  TIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNN  263
             +E   +    +L + + +   DI +    ++   +VNAAN  L  GGGV G +++A  +
Sbjct  136  KVEDPKYKKDKQLNEKISLYRGDITK----LEVDAIVNAANSSLLGGGGVDGCIHRAAGS  191

Query  264  AMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKG---EDIQLLKSAYEN  319
             +  E           + G + +  G+ L AK+ +H VGP             L+S Y +
Sbjct  192  LLTDECRTLQN----CETGKAKITCGYRLPAKYVIHTVGPIAVGQPTASQAAELRSCYLS  247

Query  320  F------NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSF  372
                   ++   +  P +S G+FG     +  V + ++R         K+  D+L +  F
Sbjct  248  SLDLLLEHRLRSVAFPCISTGVFGYPNEEAAEVVLASLRE---WLEQHKDKVDRLIICVF  304

Query  373  LEMKS  377
            LE   
Sbjct  305  LEKDE  309


>sp|Q2KHU5|MACD1_BOVIN ADP-ribose glycohydrolase MACROD1 OS=Bos 
taurus OX=9913 GN=MACROD1 PE=2 SV=1
Length=325

 Score = 139 bits (351),  Expect = 1e-34, Method: Composition-based stats.
 Identities = 49/245 (20%), Positives = 92/245 (38%), Gaps = 22/245 (9%)

Query  144  FGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQ  203
            +   + A + +     DW +  S          E++        ++  P  +     V  
Sbjct  78   WAPLAMAAKVDLSTSTDWKEAKSFLKGLSDKQREEHYFCRDFVRLKKIPTWKETAKGVTV  137

Query  204  TIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNN  263
             +E   +    +L + + +   DI +    ++   +VNAAN  L  GGGV G +++A   
Sbjct  138  KVEEPKYKKDKQLNEKISLFRGDITK----LEVDAIVNAANSSLLGGGGVDGCIHRAAGP  193

Query  264  AMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKG---EDIQLLKSAYEN  319
             +  E           + G + +  G+ L AK+ +H VGP  +          L+S Y +
Sbjct  194  LLTDECRTLQN----CETGKAKITCGYRLPAKYVIHTVGPIAHGEPSASQAAELRSCYLS  249

Query  320  F------NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKL-VSSF  372
                   ++      P +S G+FG     +  V +  +R         K+  D+L +  F
Sbjct  250  SLDLLLEHRLRSAAFPCISTGVFGYPNEAAAEVVLTALRE---WLEQHKDKVDRLIICVF  306

Query  373  LEMKS  377
            LE   
Sbjct  307  LEKDE  311


>sp|Q9HJ67|Y1105_THEAC Uncharacterized protein Ta1105 OS=Thermoplasma 
acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 
/ NBRC 15155 / AMRC-C165) OX=273075 GN=Ta1105 PE=4 SV=2
Length=196

 Score = 133 bits (334),  Expect = 6e-34, Method: Composition-based stats.
 Identities = 39/176 (22%), Positives = 69/176 (39%), Gaps = 24/176 (14%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGP-  278
            + ++  DI E         +VNAAN  L  GGGV GA++ A    +  E         P 
Sbjct  11   LAVEVGDITES----DAEAIVNAANSSLMGGGGVDGAIHSAAGPELNGELVKIRRERYPN  66

Query  279  -LKVGGSCVLSGHNL-AKHCLHVVGPNVNKGE--DIQLLKSAYEN----FNQHEV--LLA  328
             L  G + +  G+ L A H +H VGP    G   +  +L  +Y +      +  +  +  
Sbjct  67   GLPPGEAVITRGYRLKASHIIHTVGPVWMGGRNGEDDVLYRSYRSCLDLAREFGIHDIAF  126

Query  329  PLLSAGIFGADPIHSLRVCVDTVRT---------NVYLAVFDKNLYDKLVSSFLEM  375
            P LS G +G     + R+ + +V            V    + ++   + +    ++
Sbjct  127  PALSTGAYGFPFDRAERIAIRSVIDFLKDESAGYTVRFVFYTEDQGKRFLFILSDL  182


>sp|Q8IXQ6|PARP9_HUMAN Protein mono-ADP-ribosyltransferase PARP9 
OS=Homo sapiens OX=9606 GN=PARP9 PE=1 SV=2
Length=854

 Score = 139 bits (351),  Expect = 6e-32, Method: Composition-based stats.
 Identities = 47/189 (25%), Positives = 73/189 (39%), Gaps = 20/189 (11%)

Query  197  ELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGA  256
                   +  +  F   L     + +   D+   A       VVNAAN  L HGGG+A A
Sbjct  97   SPVQEGNSKSLQVFRKMLTPRIELSVWKDDLTTHA----VDAVVNAANEDLLHGGGLALA  152

Query  257  LNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGED---IQL  312
            L KA    +Q ES  ++A  G +  G   V     L  K  +H VGP   + +       
Sbjct  153  LVKAGGFEIQEESKQFVARYGKVSAGEIAVTGAGRLPCKQIIHAVGPRWMEWDKQGCTGK  212

Query  313  LKSAYENFNQH--------EVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNL  364
            L+ A  +   +        + +  P LS+GIF       L +C  T+   + +++  K +
Sbjct  213  LQRAIVSILNYVIYKNTHIKTVAIPALSSGIFQFP----LNLCTKTIVETIRVSLQGKPM  268

Query  365  YDKLVSSFL  373
               L    L
Sbjct  269  MSNLKEIHL  277


 Score = 54.8 bits (130),  Expect = 8e-06, Method: Composition-based stats.
 Identities = 39/220 (18%), Positives = 67/220 (30%), Gaps = 38/220 (17%)

Query  205  IEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNA  264
                SF+  +     + I    I    +     V+VN+ N +    G VA ++ +     
Sbjct  304  ETTPSFNAMVVNNLTLQIVQGHI----EWQTADVIVNSVNPHDITVGPVAKSILQQAGVE  359

Query  265  MQVE-----SDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVV------GPNVNKGEDIQL  312
            M+ E     +  +  +   L      V  G NL  K+  HV+       P + K    + 
Sbjct  360  MKSEFLATKAKQFQRSQLVL------VTKGFNLFCKYIYHVLWHSEFPKPQILKHAMKEC  413

Query  313  LKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRT----------NVYLAVF--  360
            L+   E       +  P L  G        +  +  D V T           V   +F  
Sbjct  414  LEKCIE--QNITSISFPALGTGNMEIKKETAAEILFDEVLTFAKDHVKHQLTVKFVIFPT  471

Query  361  DKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITES  400
            D  +Y    S     K  K +      +P+   +      
Sbjct  472  DLEIYKAFSSEM--AKRSKMLSLNNYSVPQSTREEKRENG  509


>sp|Q8CAS9|PARP9_MOUSE Protein mono-ADP-ribosyltransferase PARP9 
OS=Mus musculus OX=10090 GN=Parp9 PE=1 SV=2
Length=866

 Score = 139 bits (351),  Expect = 6e-32, Method: Composition-based stats.
 Identities = 50/171 (29%), Positives = 71/171 (42%), Gaps = 17/171 (10%)

Query  229  EEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLS  288
            ++  +     VVNAAN  L HG G+AG+L K     +Q ES   IA  G + VGG  +  
Sbjct  127  DDLTRHVVDAVVNAANENLLHGSGLAGSLVKTGGFEIQEESKRIIANVGKISVGGIAITG  186

Query  289  GHNLAKH-CLHVVGPNV---NKGEDIQLLKSAYENFNQH--------EVLLAPLLSAGIF  336
               L  H  +H VGP     N    I+LLK A  N   +        + +  P LS+GIF
Sbjct  187  AGRLPCHLIIHAVGPRWTVTNSQTAIELLKFAIRNILDYVTKYDLRIKTVAIPALSSGIF  246

Query  337  GADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAE  387
                   L +C   +   + L   DK ++  L    L + +E         
Sbjct  247  QFP----LDLCTSIILETIRLYFQDKQMFGNLREIHL-VSNEDPTVASFKS  292


 Score = 42.9 bits (99),  Expect = 0.042, Method: Composition-based stats.
 Identities = 23/123 (19%), Positives = 45/123 (37%), Gaps = 14/123 (11%)

Query  237  TVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKH  295
             V+VN+  +     G VA ++ +     M+ E D    +    +V    V  G  L  ++
Sbjct  339  DVIVNSGYMQDFKSGRVAQSILRQAGVEMEKELDKVNLSTDYQEV---WVTKGFKLSCQY  395

Query  296  CLHVVGPNVNKG-EDIQLLKSAYENFNQH------EVLLAPLLSAGIFGADPIHSLRVCV  348
              HV     +      Q+LK A ++  +         +  P L  G+       + ++  
Sbjct  396  VFHVA---WHSQINKYQILKDAMKSCLEKCLKPDINSISFPALGTGLMDLKKSTAAQIMF  452

Query  349  DTV  351
            + V
Sbjct  453  EEV  455


>sp|Q460N5|PAR14_HUMAN Protein mono-ADP-ribosyltransferase PARP14 
OS=Homo sapiens OX=9606 GN=PARP14 PE=1 SV=3
Length=1801

 Score = 140 bits (353),  Expect = 8e-32, Method: Composition-based stats.
 Identities = 64/277 (23%), Positives = 107/277 (39%), Gaps = 24/277 (9%)

Query  220   VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
             + ++  D      ++   VVVNA+N  LKH GG+A AL+KA    +Q + D  +   G L
Sbjct  804   LIVQQGD----LARLPVDVVVNASNEDLKHYGGLAAALSKAAGPELQADCDQIVKREGRL  859

Query  280   KVGGSCVLSGHNLA-KHCLHVVGPNVNKGEDIQ---LLKSAYE------NFNQHEVLLAP  329
               G + +     L   H +H VGP  +  E  +   LL+ A +         ++  +  P
Sbjct  860   LPGNATISKAGKLPYHHVIHAVGPRWSGYEAPRCVYLLRRAVQLSLCLAEKYKYRSIAIP  919

Query  330   LLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIP  389
              +S+G+FG      +   V  ++ N       K     L   +L   SEK VE   AE  
Sbjct  920   AISSGVFGFPLGRCVETIVSAIKENFQF----KKDGHCLKEIYLVDVSEKTVE-AFAEAV  974

Query  390   KEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLE---ETKFLTENLLLY-IDINGNL  445
             K   K  + ++              K   E+ +       +   + E +     D+  N 
Sbjct  975   KTVFKATLPDTAAPPGLPPAAAGPGKTSWEKGSLVSPGGLQMLLVKEGVQNAKTDVVVNS  1034

Query  446   HPDSATLVSD-IDITFLKKDAPYIVGDVVQEGVLTAV  481
              P    L    +  + L+K  P +  ++   G   AV
Sbjct  1035  VPLDLVLSRGPLSKSLLEKAGPELQEELDTVGQGVAV  1071


 Score = 66.7 bits (161),  Expect = 3e-09, Method: Composition-based stats.
 Identities = 37/240 (15%), Positives = 77/240 (32%), Gaps = 28/240 (12%)

Query  201   VVQTIEVNSFSGYLKLTDNVYIKN--ADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALN  258
                T+       Y     ++  +    DI +E    +  V+VN+ +       GV+ A+ 
Sbjct  1208  FYGTVSSPDSGVYEMKIGSIIFQVASGDITKE----EADVIVNSTSNSFNLKAGVSKAIL  1263

Query  259   KATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQLLKSAY  317
             +     ++ E                 +  G  L  K+ +HV+G N  K     +L+   
Sbjct  1264  ECAGQNVERECSQQAQQRK----NDYIITGGGFLRCKNIIHVIGGNDVKSSVSSVLQECE  1319

Query  318   ENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTV-----------RTNVYLAVFDKNLYD  366
             +    +  +  P +  G     P       +D +              V + +F   + D
Sbjct  1320  K--KNYSSICLPAIGTGNAKQHPDKVAEAIIDAIEDFVQKGSAQSVKKVKVVIFLPQVLD  1377

Query  367   KLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITES----KPSVEQRKQDDKKIKACVEEVT  422
                ++  + +  +   Q+           F  +S       V ++K +    + C E VT
Sbjct  1378  VFYANMKKREGTQLSSQQSVMSKLASFLGFSKQSPQKKNHLVLEKKTESATFRVCGENVT  1437


 Score = 59.4 bits (142),  Expect = 4e-07, Method: Composition-based stats.
 Identities = 29/135 (21%), Positives = 48/135 (36%), Gaps = 11/135 (8%)

Query  227   IVEEAKKVKPTVVVNAANVYL-KHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSC  285
             + E  +  K  VVVN+  + L    G ++ +L +     +Q E D  +     + +G   
Sbjct  1019  VKEGVQNAKTDVVVNSVPLDLVLSRGPLSKSLLEKAGPELQEELDT-VGQGVAVSMGTVL  1077

Query  286   VLSGHNL-AKHCLHVVGPNVNKG--------EDIQLLKSAYENFNQHEVLLAPLLSAGIF  336
               S  NL  ++ LHVV P    G        EDI             + +  P +  G  
Sbjct  1078  KTSSWNLDCRYVLHVVAPEWRNGSTSSLKIMEDIIRECMEITESLSLKSIAFPAIGTGNL  1137

Query  337   GADPIHSLRVCVDTV  351
             G        + +  V
Sbjct  1138  GFPKNIFAELIISEV  1152


>sp|Q2EMV9|PAR14_MOUSE Protein mono-ADP-ribosyltransferase PARP14 
OS=Mus musculus OX=10090 GN=Parp14 PE=1 SV=3
Length=1817

 Score = 139 bits (350),  Expect = 2e-31, Method: Composition-based stats.
 Identities = 64/269 (24%), Positives = 104/269 (39%), Gaps = 22/269 (8%)

Query  229   EEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLS  288
             E+  +    VVVNAAN  LKH  G+A AL+KA    +Q E D  +   G +  G + +  
Sbjct  820   EDLSRFPVDVVVNAANENLKHISGLAQALSKAAGPELQTECDQIVKEGGVVLPGNAVISK  879

Query  289   GHNL-AKHCLHVVGPNVNKG---EDIQLLKSAYENF------NQHEVLLAPLLSAGIFGA  338
                L   H +H VGP        E + LLK            ++   +  P +SAGIF  
Sbjct  880   AGKLPCHHVIHAVGPRWKGDKVLECVSLLKKVVRQSLSLAEEHRCRSIAMPAVSAGIFDF  939

Query  339   DPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFIT  398
                  L +CV  + + +      K     L   +L      +V +  AE  K   K  ++
Sbjct  940   P----LELCVANIVSAIKEHFQHKRDTHTLKKIYLVGL-PAKVARAFAEAVKTTYKDSLS  994

Query  399   ES------KPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLLYIDINGNLHPDSATL  452
              +      K  V   K   K+    V      +   +   +N   +  +N ++ PD    
Sbjct  995   HTAFPSSLKALVPLGKTPQKQGSLLVSPEGLRIRLVEEGVQNATTHAIVN-SISPDLKLN  1053

Query  453   VSDIDITFLKKDAPYIVGDVVQEGVLTAV  481
                +   FL+K  P +  ++ + G   +V
Sbjct  1054  KGPLSQAFLEKAGPKLQEELTRSGQGVSV  1082


 Score = 62.5 bits (150),  Expect = 5e-08, Method: Composition-based stats.
 Identities = 53/330 (16%), Positives = 105/330 (32%), Gaps = 55/330 (17%)

Query  220   VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
               +   +I++E       V+VN+  +      GV+ A+ +     ++ E       +   
Sbjct  1240  FQVATGNIIKEV----ADVIVNSTTLTFDLKSGVSKAILEGAGQNVEQECSLLAKQSN--  1293

Query  280   KVGGSCVLSGHNL--AKHCLHVVGPNVNKGEDIQLLKSAYENFNQHEVLLAPLLSAGIFG  337
                   +++G  L   K+ +HVVG N  K     +L+   +    +  +  P +  G   
Sbjct  1294  ---HGYIVTGGGLLQCKNIIHVVGGNDVKKSVSCVLEECEQ--RNYSSICLPAIGTGNAQ  1348

Query  338   ADPIHSLRVCVDTVRT-----------NVYLAVFDKNLYDKLVSSFLEMKSE--------  378
              DP    +  +D +              V + +F  ++      +  E +          
Sbjct  1349  QDPNVVAKAIIDAIEEFVQKKSVQAVKRVKVVIFQPHILQFFYDNMKEREGSPAPPKQSP  1408

Query  379   -KQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKAC---VEEVTTTLEETKFLTEN  434
              KQ             K    +    V ++K +    + C   V+ V  T+   K L   
Sbjct  1409  AKQSVMSKIASFLGFPKQASPKKNTLVLEKKIEHTVFQVCGSGVDSVNKTISWLKELITK  1468

Query  435   LLLYIDINGNLHPDSATLVSDIDITFLKKDAPYI------------VGDVVQEGVLTAVV  482
               L        + +    VSD D+   +K                    +   G+   V+
Sbjct  1469  EQL-------SYTNDDECVSDFDMEEYEKLNEIQKELNITIEMNQKKTSIQVSGISRDVI  1521

Query  483   IPTKKAGGTTEMLAKALRKVPTDNYITTYP  512
                 +  G  + +  A  K    +YI+TY 
Sbjct  1522  KARDEIEGMIKSIRLAKEKESQADYISTYV  1551


 Score = 56.7 bits (135),  Expect = 3e-06, Method: Composition-based stats.
 Identities = 60/328 (18%), Positives = 107/328 (33%), Gaps = 43/328 (13%)

Query  197   ELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLK-HGGGVAG  255
              L  +V   +     G L ++    ++   + E  +      +VN+ +  LK + G ++ 
Sbjct  1001  SLKALVPLGKTPQKQGSLLVSPE-GLRIRLVEEGVQNATTHAIVNSISPDLKLNKGPLSQ  1059

Query  256   ALNKATNNAMQVESDDYIATNGP-LKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQLL  313
             A  +     +Q E     +  G  + VG     SG NL ++H  HVV P          L
Sbjct  1060  AFLEKAGPKLQEELT--RSGQGVSVDVGTILQTSGCNLNSRHVFHVVPPPWKSNNSAWSL  1117

Query  314   KSAYENFNQH---------EVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNL  364
             K                  + +  P +  G          ++ +  V      +  ++  
Sbjct  1118  KIMKNIIRDCLKTTENLSLQSIAFPAIGTGNLRFPKPEFAKLIISEVLK---FSSRNQLK  1174

Query  365   YDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKK-IKACVEEVTT  423
               + V  FL    + +  Q  +     +         PS +  K +D + I   +   T 
Sbjct  1175  TLQEV-QFLLHPKDHENIQAFS-----DEFDKRNNGDPSDKNPKAEDTQGIYGSLSSPTL  1228

Query  424   TLEETKFLTENLLLYIDINGNLHPDSAT-LVSDIDITFLKKDAPYIVGDVVQEGVLTAVV  482
              + E        +L+    GN+  + A  +V+   +TF  K     V   + EG      
Sbjct  1229  GMHEMNI---GPILFQVATGNIIKEVADVIVNSTTLTFDLKSG---VSKAILEG------  1276

Query  483   IPTKKAGGTTEMLAKALRKVPTDNYITT  510
                  AG   E     L K     YI T
Sbjct  1277  -----AGQNVEQECSLLAKQSNHGYIVT  1299


>sp|P0C6F3|R1A_BEV Replicase polyprotein 1a OS=Berne virus OX=11156 
GN=1a PE=1 SV=1
Length=4569

 Score = 139 bits (351),  Expect = 2e-31, Method: Composition-based stats.
 Identities = 55/225 (24%), Positives = 89/225 (40%), Gaps = 24/225 (11%)

Query  168   QTVGQQDGSEDNQTTTIQTIVEVQPQ-LEMELTPVVQTIEV-------NSFSGYLKLTDN  219
               V  ++   D  +   +  V+   +  E  L+P                +  +     N
Sbjct  1632  VKVNAKNEKLDIGSQCERVFVDYDVKKNEWTLSPEEGEDSDDNLDLPFEQYYEFKIGQTN  1691

Query  220   VYIKNADIVEEAKKVK----PTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             V +   D     + +K       VVN AN  LKHGGG+A  ++      +Q  S++YI  
Sbjct  1692  VVLVQDDFKSVFEFLKSEQGVDYVVNPANSQLKHGGGIAKVISCMCGPKLQAWSNNYITK  1751

Query  276   NGPLKVGGSCVLSGHNLAK--HCLHVVGPNVNKGEDIQLLKSAYENF----NQHEVLLAP  329
             N  + V  +    G  L K  + +H VGP V+ G+  Q L  A+ +          +L  
Sbjct  1752  NKTVPVTKAIKSPGFQLGKKVNIIHAVGPRVSDGDVFQKLDQAWRSVFDLCEDQHTILTS  1811

Query  330   LLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLE  374
             +LS GIFG     S    +  V      A  DK+L   +V++ +E
Sbjct  1812  MLSTGIFGCTVNDSFNTFLSNV------ARLDKSLVVFVVTNMVE  1850


>sp|P0C6V7|R1AB_BEV Replicase polyprotein 1ab OS=Berne virus OX=11156 
GN=rep PE=1 SV=1
Length=6857

 Score = 139 bits (349),  Expect = 3e-31, Method: Composition-based stats.
 Identities = 55/225 (24%), Positives = 89/225 (40%), Gaps = 24/225 (11%)

Query  168   QTVGQQDGSEDNQTTTIQTIVEVQPQ-LEMELTPVVQTIEV-------NSFSGYLKLTDN  219
               V  ++   D  +   +  V+   +  E  L+P                +  +     N
Sbjct  1632  VKVNAKNEKLDIGSQCERVFVDYDVKKNEWTLSPEEGEDSDDNLDLPFEQYYEFKIGQTN  1691

Query  220   VYIKNADIVEEAKKVK----PTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
             V +   D     + +K       VVN AN  LKHGGG+A  ++      +Q  S++YI  
Sbjct  1692  VVLVQDDFKSVFEFLKSEQGVDYVVNPANSQLKHGGGIAKVISCMCGPKLQAWSNNYITK  1751

Query  276   NGPLKVGGSCVLSGHNLAK--HCLHVVGPNVNKGEDIQLLKSAYENF----NQHEVLLAP  329
             N  + V  +    G  L K  + +H VGP V+ G+  Q L  A+ +          +L  
Sbjct  1752  NKTVPVTKAIKSPGFQLGKKVNIIHAVGPRVSDGDVFQKLDQAWRSVFDLCEDQHTILTS  1811

Query  330   LLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLE  374
             +LS GIFG     S    +  V      A  DK+L   +V++ +E
Sbjct  1812  MLSTGIFGCTVNDSFNTFLSNV------ARLDKSLVVFVVTNMVE  1850


>sp|Q8BCR0|POLN_RUBVN Non-structural polyprotein p200 OS=Rubella 
virus (strain RN-UK86) OX=376267 PE=3 SV=1
Length=2116

 Score = 129 bits (325),  Expect = 2e-28, Method: Composition-based stats.
 Identities = 47/198 (24%), Positives = 71/198 (36%), Gaps = 18/198 (9%)

Query  169  TVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIV  228
                   S +         +EV  +     T      + +    Y +    V+++  DI+
Sbjct  768  GDPDSPTSAEPADRARHAELEVVYEPSGPPTSTKADPDSDIVESYARAAGPVHLRVRDIM  827

Query  229  EEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLS  288
            +     K  VVVNAAN  L  G GV GA+      A+  +         P   G +    
Sbjct  828  DPPPGCK--VVVNAANEGLLAGSGVCGAIFANATAALAADCRRL----APCPTGEAVATP  881

Query  289  GHNLA-KHCLHVVGPNVNKG-----EDIQLLKSAYENF------NQHEVLLAPLLSAGIF  336
            GH     H +H V P   +      E   LL+ AY +        +   +  PLL AG++
Sbjct  882  GHGCGYTHIIHAVAPRRPRDPAALEEGEALLERAYRSIVALAAARRWACVACPLLGAGVY  941

Query  337  GADPIHSLRVCVDTVRTN  354
            G     SLR  +   RT 
Sbjct  942  GWSAAESLRAALAATRTE  959


>sp|P13889|POLN_RUBVT Non-structural polyprotein p200 OS=Rubella 
virus (strain Therien) OX=11045 PE=3 SV=5
Length=2116

 Score = 129 bits (323),  Expect = 3e-28, Method: Composition-based stats.
 Identities = 46/180 (26%), Positives = 68/180 (38%), Gaps = 18/180 (10%)

Query  187  IVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVY  246
             +EV  +     T      + +    Y +    V+++  DI++     K  VVVNAAN  
Sbjct  786  ELEVACEPSGPPTSTRADPDSDIVESYARAAGPVHLRVRDIMDPPPGCK--VVVNAANEG  843

Query  247  LKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLA-KHCLHVVGPNVN  305
            L  G GV GA+      A+            P   G +    GH     H +H V P   
Sbjct  844  LLAGSGVCGAIFANATAALAANCRRL----APCPTGEAVATPGHGCGYTHIIHAVAPRRP  899

Query  306  KG-----EDIQLLKSAYENF------NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTN  354
            +      E   LL+ AY +        +   +  PLL AG++G     SLR  +   RT 
Sbjct  900  RDPAALEEGEALLERAYRSIVALAAARRWACVACPLLGAGVYGWSAAESLRAALAATRTE  959


>sp|P36328|POLN_EEVVP Polyprotein P1234 OS=Venezuelan equine encephalitis 
virus (strain P676) OX=36385 PE=1 SV=2
Length=2493

 Score = 127 bits (318),  Expect = 1e-27, Method: Composition-based stats.
 Identities = 61/272 (22%), Positives = 104/272 (38%), Gaps = 40/272 (15%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
                + ++   DI    +     V++NAAN   + GGGV GAL K    +  ++       
Sbjct  1329  CAPSYHVVRGDIATATEG----VIINAANSKGQPGGGVCGALYKKFPESFDLQ-------  1377

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYE------NFNQHEVL  326
               P++VG + ++ G   AKH +H VGPN NK  +++    L  AYE      N N ++ +
Sbjct  1378  --PIEVGKARLVKG--AAKHIIHAVGPNFNKVSEVEGDKQLAEAYESIAKIVNDNNYKSV  1433

Query  327   LAPLLSAGIFGADPI------HSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQ  380
               PLLS GIF  +        + L   +DT   +V +   DK     L  +   +   + 
Sbjct  1434  AIPLLSTGIFSGNKDRLTQSLNHLLTALDTTDADVAIYCRDKKWEMTLKEA---VARREA  1490

Query  381   VEQKIAEIPKEEVKPF----ITESKPSVEQRKQDDKKIKACVE--EVTTTLEETKFLTEN  434
             VE+          +P         K S+  RK             E T   +  K + E 
Sbjct  1491  VEEICISDDSSVTEPDAELVRVHPKSSLAGRKGYSTSDGKTFSYLEGTKFHQAAKDIAE-  1549

Query  435   LLLYIDINGNLHPDSATLVSDIDITFLKKDAP  466
             +     +    +      +    ++ ++   P
Sbjct  1550  INAMWPVATEANEQVCMYILGESMSSIRSKCP  1581


>sp|P36327|POLN_EEVV3 Polyprotein P1234 OS=Venezuelan equine encephalitis 
virus (strain 3880) OX=36382 PE=3 SV=3
Length=2485

 Score = 127 bits (318),  Expect = 1e-27, Method: Composition-based stats.
 Identities = 62/272 (23%), Positives = 104/272 (38%), Gaps = 40/272 (15%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
                + ++   DI    +     V++NAAN   + GGGV GAL K    +  ++       
Sbjct  1329  CAPSYHVVRGDIATATEG----VIINAANSKGQPGGGVCGALYKKFPESFDLQ-------  1377

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYE------NFNQHEVL  326
               P++VG + ++ G   AKH +H VGPN NK  +I+    L  AYE      N N ++ +
Sbjct  1378  --PIEVGKARLVKG--AAKHIIHAVGPNFNKVSEIEGDKQLAEAYESIAKIVNDNNYKSV  1433

Query  327   LAPLLSAGIFGADPI------HSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQ  380
               PLLS GIF  +        + L   +DT   +V +   DK     L  +   +   + 
Sbjct  1434  AIPLLSTGIFSGNKDRLTQSLNHLLTALDTTDADVAIYCRDKKWEMTLKEA---VARREA  1490

Query  381   VEQKIAEIPKEEVKPF----ITESKPSVEQRKQDDKKIKACVE--EVTTTLEETKFLTEN  434
             VE+          +P         K S+  RK             E T   +  K + E 
Sbjct  1491  VEEICISDDSSVTEPDAELVRVHPKSSLAGRKGYSTSDGKTFSYLEGTKFHQAAKDIAE-  1549

Query  435   LLLYIDINGNLHPDSATLVSDIDITFLKKDAP  466
             +     +    +      +    ++ ++   P
Sbjct  1550  INAMWPVATEANEQVCMYILGESMSSIRSKCP  1581


>sp|P27282|POLN_EEVVT Polyprotein P1234 OS=Venezuelan equine encephalitis 
virus (strain Trinidad donkey) OX=11038 PE=1 SV=3
Length=2493

 Score = 127 bits (318),  Expect = 1e-27, Method: Composition-based stats.
 Identities = 61/272 (22%), Positives = 104/272 (38%), Gaps = 40/272 (15%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
                + ++   DI    +     V++NAAN   + GGGV GAL K    +  ++       
Sbjct  1329  CAPSYHVVRGDIATATEG----VIINAANSKGQPGGGVCGALYKKFPESFDLQ-------  1377

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYE------NFNQHEVL  326
               P++VG + ++ G   AKH +H VGPN NK  +++    L  AYE      N N ++ +
Sbjct  1378  --PIEVGKARLVKG--AAKHIIHAVGPNFNKVSEVEGDKQLAEAYESIAKIVNDNNYKSV  1433

Query  327   LAPLLSAGIFGADPI------HSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQ  380
               PLLS GIF  +        + L   +DT   +V +   DK     L  +   +   + 
Sbjct  1434  AIPLLSTGIFSGNKDRLTQSLNHLLTALDTTDADVAIYCRDKKWEMTLKEA---VARREA  1490

Query  381   VEQKIAEIPKEEVKPF----ITESKPSVEQRKQDDKKIKACVE--EVTTTLEETKFLTEN  434
             VE+          +P         K S+  RK             E T   +  K + E 
Sbjct  1491  VEEICISDDSSVTEPDAELVRVHPKSSLAGRKGYSTSDGKTFSYLEGTKFHQAAKDIAE-  1549

Query  435   LLLYIDINGNLHPDSATLVSDIDITFLKKDAP  466
             +     +    +      +    ++ ++   P
Sbjct  1550  INAMWPVATEANEQVCMYILGESMSSIRSKCP  1581


>sp|O59182|Y1513_PYRHO Uncharacterized protein PH1513 OS=Pyrococcus 
horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 
/ NBRC 100139 / OT-3) OX=70601 GN=PH1513 PE=4 SV=1
Length=190

 Score = 115 bits (287),  Expect = 1e-27, Method: Composition-based stats.
 Identities = 42/180 (23%), Positives = 73/180 (41%), Gaps = 32/180 (18%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESD----DYIAT  275
              I   DI +     +   +VNAAN YL+HGGGVA A+ KA +  +   +     +    
Sbjct  5    FKIVRGDITK----FRAEAIVNAANKYLEHGGGVAYAIAKAASGDVSEYTRISKEEMRRQ  60

Query  276  NGP--LKVGGSCVLSGHNL----AKHCLHVVGP----NVNKGEDIQLLKSAYENFNQHE-  324
             G   ++ G   V     L     K+ +H VGP      +K ++ +L  +      + + 
Sbjct  61   LGKDWIEHGEVVVTPPMKLKENGVKYVIHTVGPYCGGVWSKDKEEKLKLAILGALKKADE  120

Query  325  ----VLLAPLLSAGIFGADPIHSLRVCVDTVRT---------NVYLAVFDKNLYDKLVSS  371
                 +  P +SAGI+G      +R   + V+           VYL ++ +  Y   + +
Sbjct  121  LGVKSIAFPAISAGIYGCPLKEVVRTFKEVVKEFLKVANHVKEVYLVLYSERDYKLALET  180


>sp|P0C6F4|R1A_BRV1 Replicase polyprotein 1a OS=Breda virus 1 
OX=360393 GN=1a PE=3 SV=1
Length=4445

 Score = 126 bits (315),  Expect = 3e-27, Method: Composition-based stats.
 Identities = 39/158 (25%), Positives = 63/158 (40%), Gaps = 10/158 (6%)

Query  204   TIEVNSFSGYLKLTDNVYIKNADIVEEAKKVK----PTVVVNAANVYLKHGGGVAGALNK  259
              +  N +  +     +V +   D       +K       VVN AN  LKHGGG+A  ++ 
Sbjct  1630  ELPFNQYYEFKVGRASVVLVQDDFKSVYDFLKSEQGVDYVVNPANNQLKHGGGIAKVISC  1689

Query  260   ATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAK--HCLHVVGPNVNKGEDIQLLKS--  315
                  +   S++YI     L V  +    G  L K    +HVVGP     + +  L++  
Sbjct  1690  MCGPKLTSWSNNYIKQYKKLGVTCAIRSPGFQLGKGVQIIHVVGPKSADSDVVNKLEASW  1749

Query  316   --AYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTV  351
                ++N      +L  +LS GIFG     S    +  +
Sbjct  1750  RSVFQNVKPDTTVLTSMLSTGIFGCSVTDSATTLLSNL  1787


>sp|Q9V0Y3|Y656_PYRAB Uncharacterized protein PYRAB06560 OS=Pyrococcus 
abyssi (strain GE5 / Orsay) OX=272844 GN=PYRAB06560 
PE=4 SV=2
Length=183

 Score = 114 bits (284),  Expect = 3e-27, Method: Composition-based stats.
 Identities = 44/181 (24%), Positives = 72/181 (40%), Gaps = 32/181 (18%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESD----DYIAT  275
              + + DI     + K   +VNAAN YL+HGGGVA A+ KA +  +         +    
Sbjct  2    FRVVHGDIT----RFKAEAIVNAANKYLEHGGGVAYAIAKAASGDVSEYIRISKEEMRKQ  57

Query  276  NGP--LKVGGSCVLSGHNLA----KHCLHVVGPNVN---KGEDIQLLKSAYENFNQH---  323
             G   ++ G   V    NLA    K+ +H VGP        +  + L+ A     +    
Sbjct  58   IGRDWIEHGEVVVTPPLNLAKNGVKYVIHTVGPYCGGKWDEDKRKKLELAILGALKKADE  117

Query  324  ---EVLLAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKNLYDKLVSS  371
                 +  P +SAGI+G      ++     V          T+VYL ++ +  Y+  +  
Sbjct  118  LGVRSIAFPAISAGIYGCPLEEVVKTFKLVVNEFLKSAKNVTDVYLVLYSERDYEVALKV  177

Query  372  F  372
             
Sbjct  178  L  178


>sp|P0C6V8|R1AB_BRV1 Replicase polyprotein 1ab OS=Breda virus 
1 OX=360393 GN=rep PE=2 SV=1
Length=6733

 Score = 126 bits (315),  Expect = 3e-27, Method: Composition-based stats.
 Identities = 39/158 (25%), Positives = 63/158 (40%), Gaps = 10/158 (6%)

Query  204   TIEVNSFSGYLKLTDNVYIKNADIVEEAKKVK----PTVVVNAANVYLKHGGGVAGALNK  259
              +  N +  +     +V +   D       +K       VVN AN  LKHGGG+A  ++ 
Sbjct  1630  ELPFNQYYEFKVGRASVVLVQDDFKSVYDFLKSEQGVDYVVNPANNQLKHGGGIAKVISC  1689

Query  260   ATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAK--HCLHVVGPNVNKGEDIQLLKS--  315
                  +   S++YI     L V  +    G  L K    +HVVGP     + +  L++  
Sbjct  1690  MCGPKLTSWSNNYIKQYKKLGVTCAIRSPGFQLGKGVQIIHVVGPKSADSDVVNKLEASW  1749

Query  316   --AYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTV  351
                ++N      +L  +LS GIFG     S    +  +
Sbjct  1750  RSVFQNVKPDTTVLTSMLSTGIFGCSVTDSATTLLSNL  1787


>sp|Q6X2U2|POLN_RUBVC Non-structural polyprotein p200 OS=Rubella 
virus (strain BRDII) OX=376263 PE=3 SV=1
Length=2116

 Score = 125 bits (313),  Expect = 4e-27, Method: Composition-based stats.
 Identities = 41/181 (23%), Positives = 66/181 (36%), Gaps = 18/181 (10%)

Query  170  VGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVE  229
                  S +          EV  +     TP     + +    Y +    V+++  +I++
Sbjct  769  DPASPISAEPADRARDAEPEVACEPGGPATPARADPDSDIVESYARAAGPVHLRVRNIMD  828

Query  230  EAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSG  289
                 K  VVVNAAN  L  G GV GA+  +   ++  +         P   G +    G
Sbjct  829  PPPGCK--VVVNAANEGLLAGSGVCGAIFASAAASLAEDCRRL----APCPTGEAVATPG  882

Query  290  HNLA-KHCLHVVGPNVNKG-----EDIQLLKSAYENF------NQHEVLLAPLLSAGIFG  337
            H     H +H V P   +      +   LL+ AY +        +   +  PLL AGI+G
Sbjct  883  HGCGYAHIIHAVAPRRPQDPAALEQSEALLERAYRSIVALAAARRWTCVACPLLGAGIYG  942

Query  338  A  338
             
Sbjct  943  W  943


>sp|Q99IE5|POLN_RUBVV Non-structural polyprotein p200 OS=Rubella 
virus (strain TO-336) OX=376264 PE=3 SV=1
Length=2116

 Score = 124 bits (312),  Expect = 5e-27, Method: Composition-based stats.
 Identities = 43/169 (25%), Positives = 65/169 (38%), Gaps = 18/169 (11%)

Query  187  IVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVY  246
             +EV  +     TP     + +    Y +    V+++  DI++     K  VVVNAAN  
Sbjct  786  ELEVAYEPSDPPTPTKADPDSDIVESYARAAGPVHLRVRDIMDPPPGCK--VVVNAANEG  843

Query  247  LKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLA-KHCLHVVGPNVN  305
            L  G GV GA+      A+  +         P   G +    GH     H +H V P   
Sbjct  844  LLAGSGVCGAIFANATAALAADCRRL----APCPTGEAVATPGHGCGYTHIIHAVAPRRP  899

Query  306  KG-----EDIQLLKSAYENF------NQHEVLLAPLLSAGIFGADPIHS  343
            +      E   LL+ AY +        +   +  PLL AG++G     S
Sbjct  900  RDPAALEEGEALLERAYRSIVALAAARRWACVACPLLGAGVYGWSAAES  948


>sp|Q99IE7|POLN_RUBVO Non-structural polyprotein p200 OS=Rubella 
virus (strain TO-336 vaccine) OX=376265 PE=3 SV=1
Length=2116

 Score = 124 bits (312),  Expect = 5e-27, Method: Composition-based stats.
 Identities = 43/169 (25%), Positives = 65/169 (38%), Gaps = 18/169 (11%)

Query  187  IVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVY  246
             +EV  +     TP     + +    Y +    V+++  DI++     K  VVVNAAN  
Sbjct  786  ELEVAYEPSDPPTPTKADPDSDIVESYARAAGPVHLRVRDIMDPPPGCK--VVVNAANEG  843

Query  247  LKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLA-KHCLHVVGPNVN  305
            L  G GV GA+      A+  +         P   G +    GH     H +H V P   
Sbjct  844  LLAGSGVCGAIFANATAALAADCRRL----APCPTGEAVATPGHGCGYTHIIHAVAPRRP  899

Query  306  KG-----EDIQLLKSAYENF------NQHEVLLAPLLSAGIFGADPIHS  343
            +      E   LL+ AY +        +   +  PLL AG++G     S
Sbjct  900  RDPAALEEGEALLERAYRSIVALAAARRWACVACPLLGAGVYGWSAAES  948


>sp|Q6X2U4|POLN_RUBVB Non-structural polyprotein p200 OS=Rubella 
virus (strain BRD1) OX=376262 PE=3 SV=1
Length=2116

 Score = 124 bits (312),  Expect = 6e-27, Method: Composition-based stats.
 Identities = 41/183 (22%), Positives = 65/183 (36%), Gaps = 18/183 (10%)

Query  168  QTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADI  227
                    S +          EV  +     TP     + +    Y +    V+++  +I
Sbjct  767  AGDPASPISAEPADRARDAEPEVACEPGGPATPTRADPDSDIVESYARAAGPVHLRVRNI  826

Query  228  VEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVL  287
            ++     K  VVVNAAN  L  G GV GA+  +    +  +         P   G +   
Sbjct  827  MDPPPGCK--VVVNAANEGLLAGSGVCGAIFASAAATLAEDCRRL----APCPTGEAVAT  880

Query  288  SGHNLA-KHCLHVVGPNVNKG-----EDIQLLKSAYENF------NQHEVLLAPLLSAGI  335
             GH     H +H V P   +      +   LL+ AY +        +   +  PLL AGI
Sbjct  881  PGHGCGYTHIIHAVAPRRPQDPAALEQSEALLERAYRSVVALAAARRWACVACPLLGAGI  940

Query  336  FGA  338
            +G 
Sbjct  941  YGW  943


>sp|Q8V294|POLN_EEVVC Polyprotein P1234 OS=Venezuelan equine encephalitis 
virus (strain CPA201) OX=376610 PE=3 SV=3
Length=2497

 Score = 124 bits (312),  Expect = 6e-27, Method: Composition-based stats.
 Identities = 56/269 (21%), Positives = 105/269 (39%), Gaps = 34/269 (13%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
                + ++   DI    +     V+VNAAN   + G GV GAL +    +  ++       
Sbjct  1329  CAPSYHVVRGDIATATEG----VIVNAANSKGQPGSGVCGALYRKYPESFDLQ-------  1377

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYE------NFNQHEVL  326
               P++VG + ++ G+  +KH +H VGPN NK  +++    L  AYE      N N +  +
Sbjct  1378  --PIEVGKARLVKGN--SKHLIHAVGPNFNKVSEVEGDKQLAEAYESIARIINDNNYRSV  1433

Query  327   LAPLLSAGIFGADPI------HSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQ  380
               PLLS GIF  +        + L   +DT   +V +   DK     L       ++ ++
Sbjct  1434  AIPLLSTGIFAGNKDRLMQSLNHLLTALDTTDADVAIYCRDKKWEVTLKEVVARREAVEE  1493

Query  381   V-EQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVE--EVTTTLEETKFLTENLLL  437
             +   + + + + + +      K S+  RK             E T   +  K + E +  
Sbjct  1494  ICISEDSSVAEPDAELVRVHPKSSLAGRKGYSTSDGKTFSYLEGTKFHQAAKDMAE-INA  1552

Query  438   YIDINGNLHPDSATLVSDIDITFLKKDAP  466
                     +      +    ++ ++   P
Sbjct  1553  MWPAATEANEQVCLYILGESMSSIRSKCP  1581


>sp|Q9WJC7|POLN_EEVVM Polyprotein P1234 OS=Venezuelan equine encephalitis 
virus (strain Mena II) OX=36384 PE=3 SV=3
Length=2499

 Score = 124 bits (311),  Expect = 7e-27, Method: Composition-based stats.
 Identities = 50/211 (24%), Positives = 90/211 (43%), Gaps = 31/211 (15%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
                + ++   DI    +     V+VNAAN   + G GV GAL +    +  ++       
Sbjct  1329  CAPSYHVVRGDIATATEG----VIVNAANSKGQPGSGVCGALYRKYPESFDLQ-------  1377

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYE------NFNQHEVL  326
               P++VG + ++ G   +KH +H VGPN +K  +++    L  AYE      N N +  +
Sbjct  1378  --PIEVGKARLVKGS--SKHIIHAVGPNFSKVSEVEGDKQLAEAYESIAKIINDNNYRSV  1433

Query  327   LAPLLSAGIFGADPI------HSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQ  380
               PLLS GIF  +        + L   +DT   +V +   DK     L       ++ ++
Sbjct  1434  AIPLLSTGIFAGNKDRLMQSLNHLLTALDTTDADVAIYCRDKKWEVTLKEVVARREAVEE  1493

Query  381   V-EQKIAEIPKEEVKPFITESKPSVEQRKQD  410
             +   + + + + + +      K S+  RK  
Sbjct  1494  ICISEDSSVAEPDAELVRVHPKSSLAGRKGY  1524


>sp|O40955|POLN_RUBVR Non-structural polyprotein p200 OS=Rubella 
virus (strain RA27/3 vaccine) OX=11044 PE=1 SV=1
Length=2116

 Score = 121 bits (304),  Expect = 5e-26, Method: Composition-based stats.
 Identities = 46/180 (26%), Positives = 69/180 (38%), Gaps = 18/180 (10%)

Query  187  IVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVY  246
             +EV  +     T      + +    Y +    V+++  DI++     K  VVVNAAN  
Sbjct  786  ELEVAYEPSGPPTSTKADPDSDIVESYARAAGPVHLRVRDIMDPPPGCK--VVVNAANEG  843

Query  247  LKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLA-KHCLHVVGPNVN  305
            L  G GV GA+      A+  +         P   G +    GH     H +H V P   
Sbjct  844  LLAGSGVCGAIFANATAALAADCRRL----APCPTGEAVATPGHGCGYTHIIHAVAPRRP  899

Query  306  KG-----EDIQLLKSAYENF------NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTN  354
            +      E   LL+ AY +        +   +  PLL AG++G     SLR  +   RT 
Sbjct  900  RDPAALEEGEALLERAYRSIVALAAARRWARVACPLLGAGVYGWSAAESLRAALAATRTE  959


>sp|Q9J6K9|POLN_RUBVD Non-structural polyprotein p200 OS=Rubella 
virus (strain Cendehill) OX=376266 PE=3 SV=2
Length=2116

 Score = 119 bits (298),  Expect = 2e-25, Method: Composition-based stats.
 Identities = 43/186 (23%), Positives = 67/186 (36%), Gaps = 20/186 (11%)

Query  170  VGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVE  229
            V        ++    +  V  +P      T      ++     Y +    V+++  DI++
Sbjct  771  VPPTPAEPADRARDAELEVAYEPSGPPTSTKADPDSDIVE--SYARAAGPVHLRVRDIMD  828

Query  230  EAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSG  289
                 K  VVVNAAN  L  G GV GA+      A+  +         P   G +    G
Sbjct  829  PPPGCK--VVVNAANEGLLAGSGVCGAIFANATAALAADCRRL----APCPTGEAVATPG  882

Query  290  HNLA-KHCLHVVGPNVNKG-----EDIQLLKSAYENF------NQHEVLLAPLLSAGIFG  337
            H     H +H V P   +      E   LL+ AY +        +   +  PLL AG++G
Sbjct  883  HGCGYTHIIHAVAPRRPRDPAALEEGEALLERAYRSIVALAAARRWAYVACPLLGAGVYG  942

Query  338  ADPIHS  343
                 S
Sbjct  943  WSAAES  948


>sp|O28751|Y1521_ARCFU ADP-ribose glycohydrolase AF_1521 OS=Archaeoglobus 
fulgidus (strain ATCC 49558 / DSM 4304 / JCM 9628 
/ NBRC 100126 / VC-16) OX=224325 GN=AF_1521 PE=1 SV=2
Length=192

 Score = 106 bits (264),  Expect = 2e-24, Method: Composition-based stats.
 Identities = 43/179 (24%), Positives = 69/179 (39%), Gaps = 30/179 (17%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVES----DDYIAT  275
            + +   DI +         +VNAAN  L+HGGGVA A+ KA      + +          
Sbjct  14   LKLAQGDITQ----YPAKAIVNAANKRLEHGGGVAYAIAKACAGDAGLYTEISKKAMREQ  69

Query  276  NGP--LKVGGSCVLSGHNL----AKHCLHVVGPNVNKGEDIQLLKSAYENFN--------  321
             G   +  G   V    NL     K+  H VGP  +     +L +  Y+ F         
Sbjct  70   FGRDYIDHGEVVVTPAMNLEERGIKYVFHTVGPICSGMWSEELKEKLYKAFLGPLEKAEE  129

Query  322  -QHEVLLAPLLSAGIFGADPIHSLRVCVDTVR-------TNVYLAVFDKNLYDKLVSSF  372
               E +  P +SAGI+G D    +   ++ V+         V L ++D+   +  +  F
Sbjct  130  MGVESIAFPAVSAGIYGCDLEKVVETFLEAVKNFKGSAVKEVALVIYDRKSAEVALKVF  188


>sp|Q86500|POLN_RUBVM Non-structural polyprotein p200 OS=Rubella 
virus (strain M33) OX=11043 PE=1 SV=2
Length=2116

 Score = 111 bits (278),  Expect = 4e-23, Method: Composition-based stats.
 Identities = 43/186 (23%), Positives = 68/186 (37%), Gaps = 20/186 (11%)

Query  170  VGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDNVYIKNADIVE  229
            V        ++    +  V  +P      T      ++     Y +    V+++  DI++
Sbjct  771  VPPTTAEPADRARHAELEVVYEPSGPPTSTKADPDSDIVE--SYARAAGPVHLRVRDIMD  828

Query  230  EAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSG  289
                 K  VVVNAAN  L  G GV GA+      A+  +         P  +G +    G
Sbjct  829  PPPGCK--VVVNAANEGLLAGSGVCGAIFANATAALAADCRRL----APCPIGEAVATPG  882

Query  290  HNLA-KHCLHVVGPNVNKG-----EDIQLLKSAYENF------NQHEVLLAPLLSAGIFG  337
            H     H +H V P   +      E   LL+ AY +        +   +  PLL AG++G
Sbjct  883  HGCGYTHIIHAVAPRRPRDPAALEEGEALLERAYRSIVALAAARRWARVACPLLGAGVYG  942

Query  338  ADPIHS  343
                 S
Sbjct  943  WSAAES  948


>sp|P0DC29|ADPRH_STRPQ Protein-ADP-ribose hydrolase OS=Streptococcus 
pyogenes serotype M3 (strain SSI-1) OX=193567 GN=SPs1056 
PE=3 SV=1
Length=270

 Score = 101 bits (252),  Expect = 3e-22, Method: Composition-based stats.
 Identities = 31/150 (21%), Positives = 59/150 (39%), Gaps = 22/150 (15%)

Query  222  IKNADIVEEAKKVKPTVVVNAANVYLKH-----GGGVAGALNKATNNAMQVESDDYIATN  276
            + + DI    + +    +VNAAN  L        G +  A++    + +++     +   
Sbjct  88   LYHGDI----RYLAVDAIVNAANSELLGCFIPNHGCIDNAIHTFAGSRLRLACQAIMTEQ  143

Query  277  G-PLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQ-----LLKSAYENF------NQH  323
            G    +G + + S ++L A + +H VGP + KG  +      LL   Y +          
Sbjct  144  GRKEAIGQAKLTSAYHLPASYIIHTVGPRITKGHHVSPIRADLLARCYRSSLDLAVKAGL  203

Query  324  EVLLAPLLSAGIFGADPIHSLRVCVDTVRT  353
              L    +S G FG     + ++ + TV  
Sbjct  204  TSLAFCSISTGEFGFPKKEAAQIAIKTVLK  233


>sp|P0DC28|ADPRH_STRP3 Protein-ADP-ribose hydrolase OS=Streptococcus 
pyogenes serotype M3 (strain ATCC BAA-595 / MGAS315) 
OX=198466 GN=SpyM3_0856 PE=3 SV=1
Length=270

 Score = 101 bits (252),  Expect = 3e-22, Method: Composition-based stats.
 Identities = 31/150 (21%), Positives = 59/150 (39%), Gaps = 22/150 (15%)

Query  222  IKNADIVEEAKKVKPTVVVNAANVYLKH-----GGGVAGALNKATNNAMQVESDDYIATN  276
            + + DI    + +    +VNAAN  L        G +  A++    + +++     +   
Sbjct  88   LYHGDI----RYLAVDAIVNAANSELLGCFIPNHGCIDNAIHTFAGSRLRLACQAIMTEQ  143

Query  277  G-PLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQ-----LLKSAYENF------NQH  323
            G    +G + + S ++L A + +H VGP + KG  +      LL   Y +          
Sbjct  144  GRKEAIGQAKLTSAYHLPASYIIHTVGPRITKGHHVSPIRADLLARCYRSSLDLAVKAGL  203

Query  324  EVLLAPLLSAGIFGADPIHSLRVCVDTVRT  353
              L    +S G FG     + ++ + TV  
Sbjct  204  TSLAFCSISTGEFGFPKKEAAQIAIKTVLK  233


>sp|Q99ZI6|ADPRH_STRP1 Protein-ADP-ribose hydrolase OS=Streptococcus 
pyogenes serotype M1 OX=301447 GN=SPy_1216 PE=3 SV=1
Length=270

 Score = 101 bits (252),  Expect = 3e-22, Method: Composition-based stats.
 Identities = 31/150 (21%), Positives = 59/150 (39%), Gaps = 22/150 (15%)

Query  222  IKNADIVEEAKKVKPTVVVNAANVYLKH-----GGGVAGALNKATNNAMQVESDDYIATN  276
            + + DI    + +    +VNAAN  L        G +  A++    + +++     +   
Sbjct  88   LYHGDI----RYLAVDAIVNAANSELLGCFSPNHGCIDNAIHTFAGSRLRLACQAIMTEQ  143

Query  277  G-PLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQ-----LLKSAYENF------NQH  323
            G    +G + + S ++L A + +H VGP + KG  +      LL   Y +          
Sbjct  144  GRKEAIGQAKLTSAYHLPASYIIHTVGPRITKGHHVSPIRADLLARCYRSSLDLAVKAGL  203

Query  324  EVLLAPLLSAGIFGADPIHSLRVCVDTVRT  353
              L    +S G FG     + ++ + TV  
Sbjct  204  TSLAFCSISTGEFGFPKKEAAQIAIKTVLK  233


>sp|P0DN70|ADPRH_STRPG Protein-ADP-ribose hydrolase OS=Streptococcus 
pyogenes serotype M5 (strain Manfredo) OX=160491 GN=SpyM50868 
PE=1 SV=1
Length=270

 Score = 101 bits (250),  Expect = 6e-22, Method: Composition-based stats.
 Identities = 31/150 (21%), Positives = 59/150 (39%), Gaps = 22/150 (15%)

Query  222  IKNADIVEEAKKVKPTVVVNAANVYLKH-----GGGVAGALNKATNNAMQVESDDYIATN  276
            + + DI    + +    +VNAAN  L        G +  A++    + +++     +   
Sbjct  88   LYHGDI----RYLAVDAIVNAANSELLGCFIPNHGCIDNAIHTFAGSRLRLACQAIMTEQ  143

Query  277  G-PLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQ-----LLKSAYENF------NQH  323
            G    +G + + S ++L A + +H VGP + KG  +      LL   Y +          
Sbjct  144  GRKEAIGQAKLTSAYHLPASYIIHTVGPRITKGRHVSPIRADLLARCYRSSLDLAVKAGL  203

Query  324  EVLLAPLLSAGIFGADPIHSLRVCVDTVRT  353
              L    +S G FG     + ++ + TV  
Sbjct  204  TSLAFCSISTGEFGFPKKEAAQIAIKTVLK  233


>sp|Q8P0X2|ADPRH_STRP8 Protein-ADP-ribose hydrolase OS=Streptococcus 
pyogenes serotype M18 (strain MGAS8232) OX=186103 GN=spyM18_1168 
PE=3 SV=1
Length=270

 Score = 101 bits (250),  Expect = 6e-22, Method: Composition-based stats.
 Identities = 31/150 (21%), Positives = 59/150 (39%), Gaps = 22/150 (15%)

Query  222  IKNADIVEEAKKVKPTVVVNAANVYLKH-----GGGVAGALNKATNNAMQVESDDYIATN  276
            + + DI    + +    +VNAAN  L        G +  A++    + +++     +   
Sbjct  88   LYHGDI----RYLAVDAIVNAANSELLGCFIPNHGCIDNAIHTFAGSRLRLACQAIMTEQ  143

Query  277  G-PLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQ-----LLKSAYENF------NQH  323
            G    +G + + S ++L A + +H VGP + KG  +      LL   Y +          
Sbjct  144  GRKEAIGQAKLTSAYHLPASYIIHTVGPRITKGRHVSPIRADLLARCYRSSLDLAVKAGL  203

Query  324  EVLLAPLLSAGIFGADPIHSLRVCVDTVRT  353
              L    +S G FG     + ++ + TV  
Sbjct  204  TSLAFCSISTGEFGFPKKEAAQIAIKTVLK  233


>sp|Q5XC09|ADPRH_STRP6 Protein-ADP-ribose hydrolase OS=Streptococcus 
pyogenes serotype M6 (strain ATCC BAA-946 / MGAS10394) 
OX=286636 GN=M6_Spy0919 PE=3 SV=1
Length=270

 Score = 101 bits (250),  Expect = 6e-22, Method: Composition-based stats.
 Identities = 31/150 (21%), Positives = 59/150 (39%), Gaps = 22/150 (15%)

Query  222  IKNADIVEEAKKVKPTVVVNAANVYLKH-----GGGVAGALNKATNNAMQVESDDYIATN  276
            + + DI    + +    +VNAAN  L        G +  A++    + +++     +   
Sbjct  88   LYHGDI----RYLAVDAIVNAANSELLGCFIPNHGCIDNAIHTFAGSRLRLACQAIMTEQ  143

Query  277  G-PLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQ-----LLKSAYENF------NQH  323
            G    +G + + S ++L A + +H VGP + KG  +      LL   Y +          
Sbjct  144  GRKEAIGQAKLTSAYHLPASYIIHTVGPRITKGRHVSPIRADLLARCYRSSLDLAVKAGL  203

Query  324  EVLLAPLLSAGIFGADPIHSLRVCVDTVRT  353
              L    +S G FG     + ++ + TV  
Sbjct  204  TSLAFCSISTGEFGFPKKEAAQIAIKTVLK  233


>sp|Q8U0P9|Y1536_PYRFU Uncharacterized protein PF1536 OS=Pyrococcus 
furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1) 
OX=186497 GN=PF1536 PE=4 SV=1
Length=183

 Score = 97.9 bits (242),  Expect = 1e-21, Method: Composition-based stats.
 Identities = 43/178 (24%), Positives = 71/178 (40%), Gaps = 32/178 (18%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVE---SDD-YIAT  275
            + +   DI +     +   +VNAAN YL+HGGGVA A+ KA    ++     S +     
Sbjct  2    IKVVKGDITK----FRAEAIVNAANKYLEHGGGVAYAIAKAAAGDVREYIRISKEAMREQ  57

Query  276  NGP--LKVGGSCVLSGHNL----AKHCLHVVGPNVNKG---EDIQLLKSAYENFNQH---  323
             G   +  G   V     L     K+ +H VGP        +    LK A     +    
Sbjct  58   LGKDWIDHGEVVVTPPLQLEKNGVKYVIHTVGPYCGGSWDEDKKSKLKLAILGALKKADE  117

Query  324  ---EVLLAPLLSAGIFGADPIHSLRVCVDTVRT---------NVYLAVFDKNLYDKLV  369
               + +  P +SAGI+G      +   V+ V+           V+L ++ +  Y+K +
Sbjct  118  LGVKSIAFPAISAGIYGCPLEKVVETFVEVVKEFLPSAKSLREVFLVLYSQEDYEKAL  175


>sp|Q5JER1|Y1890_THEKO Uncharacterized protein TK1890 OS=Thermococcus 
kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 
OX=69014 GN=TK1890 PE=4 SV=1
Length=180

 Score = 97.6 bits (241),  Expect = 1e-21, Method: Composition-based stats.
 Identities = 42/176 (24%), Positives = 69/176 (39%), Gaps = 32/176 (18%)

Query  222  IKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVE---SDD-YIATNG  277
            I   DI     +     +VNAAN YL+HGGGVA A+ KA     +     S +      G
Sbjct  6    IVKGDIT----RFPAEAIVNAANRYLEHGGGVAYAIAKAAAGDPREYIRISKEAMREQLG  61

Query  278  P--LKVGGSCVLSGHNLAKH----CLHVVGPNVN---KGEDIQLLKSAYENFNQH-----  323
               ++ G   V     L KH     +H VGP        +  + L+ A     +      
Sbjct  62   KDHIEHGEVVVTPAMRLEKHGIRYVIHTVGPYCGGIWDEDKKEKLRKAILGALRKAEELG  121

Query  324  -EVLLAPLLSAGIFGADPIHSLRVCVDTVR---------TNVYLAVFDKNLYDKLV  369
             + +  P +SAGI+G      ++   + +            VYL ++ +  Y++ +
Sbjct  122  VKTIAFPAVSAGIYGCPLEEVVKTFKEVIDEFEREAGSVERVYLVLYSEKDYERAL  177


>sp|Q8NYB7|ADPRH_STAAW Protein-ADP-ribose hydrolase OS=Staphylococcus 
aureus (strain MW2) OX=196620 GN=MW0302 PE=3 SV=1
Length=266

 Score = 97.9 bits (242),  Expect = 8e-21, Method: Composition-based stats.
 Identities = 34/151 (23%), Positives = 64/151 (42%), Gaps = 21/151 (14%)

Query  218  DNVYIKNADIVEEAKKVKPTVVVNAANVYLKH-----GGGVAGALNKATNNAMQVESDDY  272
            DN+++   DI      +K   +VNAAN             +   ++      ++++  + 
Sbjct  85   DNIFVWQGDITT----LKIDAIVNAANSRFLGCMQANHDCIDNIIHTKAGVQVRLDCAEI  140

Query  273  IATNGPLK-VGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQ----LLKSAY----ENFNQ  322
            I   G  + VG + +  G+NL AK+ +H VGP + +    +    LL   Y    +  +Q
Sbjct  141  IRQQGRNEGVGKAKITRGYNLPAKYIIHTVGPQIRRLPVSKMNQDLLAKCYLSCLKLADQ  200

Query  323  HEV--LLAPLLSAGIFGADPIHSLRVCVDTV  351
            H +  +    +S G+F      +  + V TV
Sbjct  201  HSLNHVAFCCISTGVFAFPQDEAAEIAVRTV  231


>sp|Q6GCE6|ADPRH_STAAS Protein-ADP-ribose hydrolase OS=Staphylococcus 
aureus (strain MSSA476) OX=282459 GN=SAS0302 PE=3 SV=1
Length=266

 Score = 97.9 bits (242),  Expect = 8e-21, Method: Composition-based stats.
 Identities = 34/151 (23%), Positives = 64/151 (42%), Gaps = 21/151 (14%)

Query  218  DNVYIKNADIVEEAKKVKPTVVVNAANVYLKH-----GGGVAGALNKATNNAMQVESDDY  272
            DN+++   DI      +K   +VNAAN             +   ++      ++++  + 
Sbjct  85   DNIFVWQGDITT----LKIDAIVNAANSRFLGCMQANHDCIDNIIHTKAGVQVRLDCAEI  140

Query  273  IATNGPLK-VGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQ----LLKSAY----ENFNQ  322
            I   G  + VG + +  G+NL AK+ +H VGP + +    +    LL   Y    +  +Q
Sbjct  141  IRQQGRNEGVGKAKITRGYNLPAKYIIHTVGPQIRRLPVSKMNQDLLAKCYLSCLKLADQ  200

Query  323  HEV--LLAPLLSAGIFGADPIHSLRVCVDTV  351
            H +  +    +S G+F      +  + V TV
Sbjct  201  HSLNHVAFCCISTGVFAFPQDEAAEIAVRTV  231


>sp|Q5HIW9|ADPRH_STAAC Protein-ADP-ribose hydrolase OS=Staphylococcus 
aureus (strain COL) OX=93062 GN=SACOL0396 PE=3 SV=1
Length=266

 Score = 97.6 bits (241),  Expect = 9e-21, Method: Composition-based stats.
 Identities = 34/151 (23%), Positives = 64/151 (42%), Gaps = 21/151 (14%)

Query  218  DNVYIKNADIVEEAKKVKPTVVVNAANVYLKH-----GGGVAGALNKATNNAMQVESDDY  272
            DN+++   DI      +K   +VNAAN             +   ++      ++++  + 
Sbjct  85   DNIFVWQGDITT----LKIDAIVNAANSRFLGCMQANHDCIDNIIHTKAGVQVRLDCAEI  140

Query  273  IATNGPLK-VGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQ----LLKSAY----ENFNQ  322
            I   G  + VG + +  G+NL AK+ +H VGP + +    +    LL   Y    +  +Q
Sbjct  141  IRQQGRNEGVGKAKITRGYNLSAKYIIHTVGPQIRRLPVSKMNQDLLAKCYLSCLKLADQ  200

Query  323  HEV--LLAPLLSAGIFGADPIHSLRVCVDTV  351
            H +  +    +S G+F      +  + V TV
Sbjct  201  HSLNHVAFCCISTGVFAFPQDEAAEIAVRTV  231


>sp|Q93RG0|ADPRH_TREMD Protein-ADP-ribose hydrolase OS=Treponema 
medium OX=58231 PE=3 SV=1
Length=261

 Score = 97.6 bits (241),  Expect = 1e-20, Method: Composition-based stats.
 Identities = 38/182 (21%), Positives = 67/182 (37%), Gaps = 32/182 (18%)

Query  217  TDNVYIKNADIVEEAKKVKPTVVVNAANVYLKH-----GGGVAGALNKATNNAMQVESDD  271
              + Y+   DI      +K   +VNAAN  +          +   ++      ++     
Sbjct  84   NGDWYVWRGDITT----LKVDAIVNAANSGMTGCWQPCHACIDNCIHTFAGVQLRTVCAG  139

Query  272  YIATNG-PLKVGGSCVLSGHNL-AKHCLHVVGPNVNK---GEDIQLLKSAYENF------  320
             +   G     G + +    NL  K+ LH VGP ++      D  LL ++Y +       
Sbjct  140  IMQEQGHEEPTGTAKITPAFNLPCKYVLHTVGPIISGQLTDRDCTLLANSYTSCLNLAAE  199

Query  321  NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRT---------NVYLAVF---DKNLYDKL  368
            N  + +    +S G+F      +  + V TV            +   VF   D+ LY+KL
Sbjct  200  NGVKSIAFCCISTGVFRFPAQKAAEIAVATVEDWKAKNNSAMKIVFNVFSEKDEALYNKL  259

Query  369  VS  370
            +S
Sbjct  260  MS  261


>sp|Q4QXJ8|POLN_EEEVF Polyprotein P1234 OS=Eastern equine encephalitis 
virus (strain Florida 91-469) OX=374598 PE=1 SV=3
Length=2494

 Score = 104 bits (258),  Expect = 1e-20, Method: Composition-based stats.
 Identities = 52/268 (19%), Positives = 94/268 (35%), Gaps = 47/268 (18%)

Query  221   YIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLK  280
              +   DI +        V+VNAAN   + G GV GAL +    A   +         P+ 
Sbjct  1332  RVVRGDITKS----NDEVIVNAANNKGQPGSGVCGALYRKWPGAFDKQ---------PVA  1378

Query  281   VGGSCVLSGHNLAKHCLHVVGPNVNK---GEDIQLLKSAYE------NFNQHEVLLAPLL  331
              G + ++     + + +H VGPN ++    E  Q L   Y       N  +   +  PLL
Sbjct  1379  TGKAHLVKH---SPNVIHAVGPNFSRLSENEGDQKLSEVYMDIARIINNERFTKVSIPLL  1435

Query  332   SAGIFGA------DPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKI  385
             S GI+          ++ L   +DT   ++ +   DK    ++  +    +S +++ +  
Sbjct  1436  STGIYAGGKDRVMQSLNHLFTAMDTTDADITIYCLDKQWESRIKEAITRKESVEELTEDD  1495

Query  386   AEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLLYIDINGNL  445
               +  E V         S+  R            +V + LE T+F        I     +
Sbjct  1496  RPVDIELV---RVHPLSSLAGRPGYS----TTEGKVYSYLEGTRF--HQTAKDIAEIYAM  1546

Query  446   HPDSATL-------VSDIDITFLKKDAP  466
              P+           V    +  ++   P
Sbjct  1547  WPNKQEANEQICLYVLGESMNSIRSKCP  1574


>sp|Q6GJZ1|ADPRH_STAAR Protein-ADP-ribose hydrolase OS=Staphylococcus 
aureus (strain MRSA252) OX=282458 GN=SAR0322 PE=3 SV=1
Length=266

 Score = 97.2 bits (240),  Expect = 1e-20, Method: Composition-based stats.
 Identities = 32/151 (21%), Positives = 61/151 (40%), Gaps = 21/151 (14%)

Query  218  DNVYIKNADIVEEAKKVKPTVVVNAANVYLKH-----GGGVAGALNKATNNAMQVESDDY  272
            DN+++   DI      +K   +VNAAN             +   ++      ++++  + 
Sbjct  85   DNIFVWQGDITT----LKIDAIVNAANSRFLGCMQANHDCIDNIIHTKAGVQVRLDCAEI  140

Query  273  IATNGPLK-VGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQL----LKSAYENFNQHEV-  325
            I   G  + VG + +  G+NL AK+ +H VGP + +    +L    L   Y +  +    
Sbjct  141  IRQQGRNEGVGKAKITRGYNLPAKYIIHTVGPQIRRLPVSKLNQDLLAKCYLSCLKLADQ  200

Query  326  -----LLAPLLSAGIFGADPIHSLRVCVDTV  351
                 +    +S G+F      +  + V TV
Sbjct  201  QSLNHIAFCCISTGVFAFPQDEAAEIAVRTV  231


>sp|A7T167|GDAP2_NEMVE Protein GDAP2 homolog OS=Nematostella vectensis 
OX=45351 GN=gdap2 PE=3 SV=1
Length=502

 Score = 100 bits (249),  Expect = 3e-20, Method: Composition-based stats.
 Identities = 46/251 (18%), Positives = 87/251 (35%), Gaps = 40/251 (16%)

Query  192  PQLEMELTPVVQTIE--------VNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAA  243
            P+      P  +           ++ F    ++   V + N DI + A       +VN  
Sbjct  17   PKWSTTPVPNYEPGSNESQSSSFLSPFPVDEEINAKVVLWNGDITKLA----ADAIVNTT  72

Query  244  NVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGP  302
            N  L   G ++  +++A    +  E           + G + +  G+NL A++ +H VGP
Sbjct  73   NESLSDRGALSERVHRAAGPELMQEC---RQQLLGCRTGEAKISEGYNLPARYVIHTVGP  129

Query  303  NVN---KGEDIQLLKSAYENF------NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRT  353
              N   K      L S Y N       N+   +   +++    G  P     + + TVR 
Sbjct  130  RYNTKYKTAAESALFSCYRNTMRLVRENKISTIGVCVVNTTKRGYPPEDGAHIALRTVRR  189

Query  354  ----------NVYLAVFDKN--LYDKLVSSFLEMKSEKQ---VEQKIAEIPKEEVKPFIT  398
                       V   V      +Y K++  +      ++   +     +I  EE +P I 
Sbjct  190  FLEKYGSAVDTVAFVVEGAEAVVYAKVMPIYFPRDKLEEAHALTLMPDDIGNEEGEPIIP  249

Query  399  ESKPSVEQRKQ  409
            E +  +  +  
Sbjct  250  ERQIRIVPKPP  260


>sp|P67344|ADPRH_STAAN Protein-ADP-ribose hydrolase OS=Staphylococcus 
aureus (strain N315) OX=158879 GN=SA0314 PE=1 SV=1
Length=266

 Score = 95.6 bits (236),  Expect = 4e-20, Method: Composition-based stats.
 Identities = 34/151 (23%), Positives = 63/151 (42%), Gaps = 21/151 (14%)

Query  218  DNVYIKNADIVEEAKKVKPTVVVNAANVYLKH-----GGGVAGALNKATNNAMQVESDDY  272
            DN+++   DI      +K   +VNAAN             +   ++      ++++  + 
Sbjct  85   DNIFVWQGDITT----LKIDAIVNAANSRFLGCMQANHDCIDNIIHTKAGVQVRLDCAEI  140

Query  273  IATNGPLK-VGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQ----LLKSAY----ENFNQ  322
            I   G  + VG +    G+NL AK+ +H VGP + +    +    LL   Y    +  +Q
Sbjct  141  IRQQGRNEGVGKAKKTRGYNLPAKYIIHTVGPQIRRLPVSKMNQDLLAKCYLSCLKLADQ  200

Query  323  HEV--LLAPLLSAGIFGADPIHSLRVCVDTV  351
            H +  +    +S G+F      +  + V TV
Sbjct  201  HSLNHVAFCCISTGVFAFPQDEAAEIAVRTV  231


>sp|P67343|ADPRH_STAAM Protein-ADP-ribose hydrolase OS=Staphylococcus 
aureus (strain Mu50 / ATCC 700699) OX=158878 GN=SAV0325 
PE=1 SV=1
Length=266

 Score = 95.6 bits (236),  Expect = 4e-20, Method: Composition-based stats.
 Identities = 34/151 (23%), Positives = 63/151 (42%), Gaps = 21/151 (14%)

Query  218  DNVYIKNADIVEEAKKVKPTVVVNAANVYLKH-----GGGVAGALNKATNNAMQVESDDY  272
            DN+++   DI      +K   +VNAAN             +   ++      ++++  + 
Sbjct  85   DNIFVWQGDITT----LKIDAIVNAANSRFLGCMQANHDCIDNIIHTKAGVQVRLDCAEI  140

Query  273  IATNGPLK-VGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQ----LLKSAY----ENFNQ  322
            I   G  + VG +    G+NL AK+ +H VGP + +    +    LL   Y    +  +Q
Sbjct  141  IRQQGRNEGVGKAKKTRGYNLPAKYIIHTVGPQIRRLPVSKMNQDLLAKCYLSCLKLADQ  200

Query  323  HEV--LLAPLLSAGIFGADPIHSLRVCVDTV  351
            H +  +    +S G+F      +  + V TV
Sbjct  201  HSLNHVAFCCISTGVFAFPQDEAAEIAVRTV  231


>sp|O67112|Y987_AQUAE Uncharacterized protein aq_987 OS=Aquifex 
aeolicus (strain VF5) OX=224324 GN=aq_987 PE=4 SV=1
Length=165

 Score = 92.2 bits (227),  Expect = 6e-20, Method: Composition-based stats.
 Identities = 31/165 (19%), Positives = 63/165 (38%), Gaps = 27/165 (16%)

Query  219  NVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGP  278
            ++ +    I E    V   V+VN AN     GGGVA  + +     ++ E+ +      P
Sbjct  2    DIKVVKGSITE----VDADVIVNPANSRGLMGGGVAVVIKRLGGEEIEREAVE----KAP  53

Query  279  LKVGGSCVLSGHNLA-KHCLHVVGPNVNK---GEDIQLLKSAYENFNQ------HEVLLA  328
            + VG + + +   L  K  +H   P + +       + ++ A     +       +++  
Sbjct  54   IPVGSAVLTTAGKLKFKGVIHA--PTMEEPAMPSSEEKVRKATRAALELADKECFKIVAI  111

Query  329  PLLSAGIFGADPIHSLRVCVDTVR-------TNVYLAVFDKNLYD  366
            P +  G+ G     + R  V+ +R         V L   D+ + +
Sbjct  112  PGMGTGVGGVPKEVAARAMVEEIRKFEPKCLEKVILVDIDEEMVE  156


>sp|P13896|POLN_WEEV Polyprotein P1234 OS=Western equine encephalitis 
virus OX=11039 PE=3 SV=3
Length=2467

 Score = 99.9 bits (247),  Expect = 2e-19, Method: Composition-based stats.
 Identities = 47/192 (24%), Positives = 78/192 (41%), Gaps = 32/192 (17%)

Query  221   YIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLK  280
              +   DI + A +     +VNAAN   + G GV GAL +    A   +         P+ 
Sbjct  1332  RVIRGDISKSADQ----AIVNAANSKGQPGSGVCGALYRKWPAAFDRQ---------PIA  1378

Query  281   VGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYE------NFNQHEVLLAPLL  331
             VG + ++    L    +H VGPN +K  + +    L +AY       N  +   +  PLL
Sbjct  1379  VGTARLVKHEPL---IIHAVGPNFSKMPEPEGDLKLAAAYMSIASIVNAERITKISVPLL  1435

Query  332   SAGIFGA------DPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQV-EQK  384
             S GI+          +H L    DT   +V +   DK    +++ +    +S + + + K
Sbjct  1436  STGIYSGGKDRVMQSLHHLFTAFDTTDADVTIYCLDKQWETRIIEAIHRKESVEILDDDK  1495

Query  385   IAEIPKEEVKPF  396
               +I    V P 
Sbjct  1496  PVDIDLVRVHPN  1507


>sp|P27283|POLN_SINDO Polyprotein P1234 OS=Sindbis virus subtype 
Ockelbo (strain Edsbyn 82-5) OX=31699 PE=3 SV=2
Length=2515

 Score = 98.3 bits (243),  Expect = 6e-19, Method: Composition-based stats.
 Identities = 51/257 (20%), Positives = 98/257 (38%), Gaps = 36/257 (14%)

Query  229   EEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLS  288
             E     +   VVNAAN   + G GV  A+ K   N+    + +          G + +  
Sbjct  1356  ENIADCQEEAVVNAANPLGRPGEGVCRAIYKRWPNSFTDSATE---------TGTAKLTV  1406

Query  289   GHNLAKHCLHVVGPNVNKG---EDIQLLKSAYEN----FNQH--EVLLAPLLSAGIFGAD  339
              H   K  +H VGP+  K    E ++LL++AY       N+H  + +  PLLS GI+ A 
Sbjct  1407  CH--GKKVIHAVGPDFRKHPEAEALKLLQNAYHAVADLVNEHNIKSVAIPLLSTGIYAAG  1464

Query  340   PI------HSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEV  393
                     + L   +D    +V +   DK   +++      +   K+   ++ +   E  
Sbjct  1465  KDRLEVSLNCLTTALDRTDADVTIYCLDKKWKERI----DAVLQLKESVTELKDEDMEID  1520

Query  394   KPFI-TESKPSVEQRK---QDDKKIKACVEEVTTTLEETKFLTENLLLYIDINGNLHPDS  449
                +       ++ RK       K+ +   E T   +  K + E  +L+ + +   +   
Sbjct  1521  DELVWIHPDSCLKGRKGFSTTKGKLYSYF-EGTKFHQAAKDMAEIKVLFPN-DQESNEQL  1578

Query  450   ATLVSDIDITFLKKDAP  466
                +    +  +++  P
Sbjct  1579  CAYILGETMEAIREKCP  1595


>sp|Q306W6|POLN_EEEV1 Polyprotein P1234 OS=Eastern equine encephalitis 
virus (strain PE-0.0155) OX=374596 PE=1 SV=3
Length=2471

 Score = 98.3 bits (243),  Expect = 7e-19, Method: Composition-based stats.
 Identities = 54/268 (20%), Positives = 95/268 (35%), Gaps = 47/268 (18%)

Query  221   YIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLK  280
              +   DI +        V+VNAAN   + G GV GAL K    A             P+ 
Sbjct  1332  RVIRGDISKS----TDEVIVNAANNKGQPGAGVCGALYKKWPGAFDKA---------PIA  1378

Query  281   VGGSCVLSGHNLAKHCLHVVGPNVNK---GEDIQLLKSAYE------NFNQHEVLLAPLL  331
              G + ++       + +H VGPN ++    E  Q L   Y       N  ++  +  PLL
Sbjct  1379  TGTAHLVKH---TPNIIHAVGPNFSRMSEVEGNQKLSEVYMDIAKIINKERYNKVSIPLL  1435

Query  332   SAGIFGA------DPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKI  385
             S G++          ++ L   +DT   +V +   DK    ++  +    +S +++ +  
Sbjct  1436  STGVYAGGKDRVMQSLNHLFTAMDTTDADVTIYCLDKQWETRIKDAIARKESVEELVEDD  1495

Query  386   AEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLLYIDINGNL  445
               +  E V       + S+  R            +V + LE T+F        I     +
Sbjct  1496  KPVDIELV---RVHPQSSLVGRPGYSTNE----GKVHSYLEGTRF--HQTAKDIAEIYAM  1546

Query  446   HPDSATL-------VSDIDITFLKKDAP  466
              P+           V    +T ++   P
Sbjct  1547  WPNKQEANEQICLYVLGESMTSIRSKCP  1574


>sp|P03317|POLN_SINDV Polyprotein P1234 OS=Sindbis virus OX=11034 
PE=1 SV=2
Length=2513

 Score = 97.9 bits (242),  Expect = 9e-19, Method: Composition-based stats.
 Identities = 50/257 (19%), Positives = 96/257 (37%), Gaps = 36/257 (14%)

Query  229   EEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLS  288
             E     +   VVNAAN   + G GV  A+ K    +    + +          G + +  
Sbjct  1356  ENIADCQEEAVVNAANPLGRPGEGVCRAIYKRWPTSFTDSATE---------TGTARMTV  1406

Query  289   GHNLAKHCLHVVGPNVNKG---EDIQLLKSAYEN----FNQH--EVLLAPLLSAGIFGAD  339
                L K  +H VGP+  K    E ++LL++AY       N+H  + +  PLLS GI+ A 
Sbjct  1407  C--LGKKVIHAVGPDFRKHPEAEALKLLQNAYHAVADLVNEHNIKSVAIPLLSTGIYAAG  1464

Query  340   PI------HSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEV  393
                     + L   +D    +V +   DK   +++          K+   ++ +   E  
Sbjct  1465  KDRLEVSLNCLTTALDRTDADVTIYCLDKKWKERI----DAALQLKESVTELKDEDMEID  1520

Query  394   KPFI-TESKPSVEQRK---QDDKKIKACVEEVTTTLEETKFLTENLLLYIDINGNLHPDS  449
                +       ++ RK       K+ +   E T   +  K + E  +L+ + +   +   
Sbjct  1521  DELVWIHPDSCLKGRKGFSTTKGKLYSYF-EGTKFHQAAKDMAEIKVLFPN-DQESNEQL  1578

Query  450   ATLVSDIDITFLKKDAP  466
                +    +  +++  P
Sbjct  1579  CAYILGETMEAIREKCP  1595


>sp|Q7TZB9|Y1934_MYCBO Uncharacterized protein Mb1934c OS=Mycobacterium 
bovis (strain ATCC BAA-935 / AF2122/97) OX=233413 
GN=lppD PE=4 SV=1
Length=358

 Score = 93.7 bits (231),  Expect = 1e-18, Method: Composition-based stats.
 Identities = 35/156 (22%), Positives = 63/156 (40%), Gaps = 16/156 (10%)

Query  208  NSFSGYLKLTDNVYIKNADIVE-EAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQ  266
            +         DNV +   ++ + +  K++   + NAAN  L+H GGVA A+ +A    +Q
Sbjct  174  SPRPPSTCRGDNVSMIELEVHQADVTKLELDAITNAANTRLRHAGGVAAAIARAGGPELQ  233

Query  267  VESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVV-----GPNVNK---GEDIQLLKSAY  317
             ES +      P+ +G +   +  ++ A++ +H       GP   +         L+ A 
Sbjct  234  RESTE----KAPIGLGEAVETTAGDMPARYVIHAATMELGGPTSGEIITAATAATLRKAD  289

Query  318  ENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRT  353
            E       L       G+ G     + R+ V  VR 
Sbjct  290  E--LGCRSLALVAFGTGVGGFPLDDAARLMVGAVRR  323


>sp|P9WK29|Y1899_MYCTU Uncharacterized protein Rv1899c OS=Mycobacterium 
tuberculosis (strain ATCC 25618 / H37Rv) OX=83332 
GN=Rv1899c PE=1 SV=1
Length=359

 Score = 93.7 bits (231),  Expect = 1e-18, Method: Composition-based stats.
 Identities = 35/156 (22%), Positives = 63/156 (40%), Gaps = 16/156 (10%)

Query  208  NSFSGYLKLTDNVYIKNADIVE-EAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQ  266
            +         DNV +   ++ + +  K++   + NAAN  L+H GGVA A+ +A    +Q
Sbjct  175  SPRPPSTCRGDNVSMIELEVHQADVTKLELDAITNAANTRLRHAGGVAAAIARAGGPELQ  234

Query  267  VESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVV-----GPNVNK---GEDIQLLKSAY  317
             ES +      P+ +G +   +  ++ A++ +H       GP   +         L+ A 
Sbjct  235  RESTE----KAPIGLGEAVETTAGDMPARYVIHAATMELGGPTSGEIITAATAATLRKAD  290

Query  318  ENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRT  353
            E       L       G+ G     + R+ V  VR 
Sbjct  291  E--LGCRSLALVAFGTGVGGFPLDDAARLMVGAVRR  324


>sp|P9WK28|Y1899_MYCTO Uncharacterized protein MT1950 OS=Mycobacterium 
tuberculosis (strain CDC 1551 / Oshkosh) OX=83331 GN=MT1950 
PE=4 SV=1
Length=374

 Score = 93.7 bits (231),  Expect = 1e-18, Method: Composition-based stats.
 Identities = 35/156 (22%), Positives = 63/156 (40%), Gaps = 16/156 (10%)

Query  208  NSFSGYLKLTDNVYIKNADIVE-EAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQ  266
            +         DNV +   ++ + +  K++   + NAAN  L+H GGVA A+ +A    +Q
Sbjct  190  SPRPPSTCRGDNVSMIELEVHQADVTKLELDAITNAANTRLRHAGGVAAAIARAGGPELQ  249

Query  267  VESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVV-----GPNVNK---GEDIQLLKSAY  317
             ES +      P+ +G +   +  ++ A++ +H       GP   +         L+ A 
Sbjct  250  RESTE----KAPIGLGEAVETTAGDMPARYVIHAATMELGGPTSGEIITAATAATLRKAD  305

Query  318  ENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRT  353
            E       L       G+ G     + R+ V  VR 
Sbjct  306  E--LGCRSLALVAFGTGVGGFPLDDAARLMVGAVRR  339


>sp|Q86924|POLN_AURAV Polyprotein P1234 OS=Aura virus OX=44158 
PE=3 SV=3
Length=2499

 Score = 96.4 bits (238),  Expect = 2e-18, Method: Composition-based stats.
 Identities = 51/250 (20%), Positives = 89/250 (36%), Gaps = 32/250 (13%)

Query  234   VKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLA  293
                  VVNAAN   K G GV  A+ K    + +  + +         V  + +   HN  
Sbjct  1359  CTEEAVVNAANARGKPGDGVCRAIFKKWPKSFENATTE---------VETAVMKPCHN--  1407

Query  294   KHCLHVVGPNVNKG---EDIQLLKSAY----ENFNQHEV--LLAPLLSAGIFGADPI---  341
             K  +H VGP+  K    E  +LL++AY    +  N+  +  +  PLLS GI+ A      
Sbjct  1408  KVVIHAVGPDFRKYTLEEATKLLQNAYHDVAKIVNEKGISSVAIPLLSTGIYAAGADRLD  1467

Query  342   ---HSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFIT  398
                  L   +D    +V +   DK    ++  +      E+  E K  +I  +E      
Sbjct  1468  LSLRCLFTALDRTDADVTIYCLDKKWEQRIADAIR--MREQVTELKDPDIEIDEGL-TRV  1524

Query  399   ESKPSVEQRKQDDKKIKACVE--EVTTTLEETKFLTENLLLYIDINGNLHPDSATLVSDI  456
                  ++       +        E T   +  K + E   L+ D+    +          
Sbjct  1525  HPDSCLKDHIGYSTQYGKLYSYFEGTKFHQTAKDIAEIRALFPDVQ-AANEQICLYTLGE  1583

Query  457   DITFLKKDAP  466
              +  +++  P
Sbjct  1584  PMESIREKCP  1593


>sp|Q306W8|POLN_EEEV8 Polyprotein P1234 OS=Eastern equine encephalitis 
virus (strain PE-3.0815) OX=374597 PE=1 SV=3
Length=2474

 Score = 95.6 bits (236),  Expect = 4e-18, Method: Composition-based stats.
 Identities = 46/246 (19%), Positives = 80/246 (33%), Gaps = 43/246 (17%)

Query  221   YIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLK  280
              +   DI +         +VNAAN   + G GV GAL K    A             P+ 
Sbjct  1332  RVIRGDISKS----TDEAIVNAANNKGQPGAGVCGALYKKWPGAFDKV---------PIA  1378

Query  281   VGGSCVLSGHNLAKHCLHVVGPNVNKGEDI---QLLKSAYENFNQ------HEVLLAPLL  331
              G + ++       + +H VGPN ++  ++   Q L   Y +  +      +  +  PLL
Sbjct  1379  TGTAHLVKH---TPNIIHAVGPNFSRVSEVEGNQKLSEVYMDIAKIINRERYNKVSIPLL  1435

Query  332   SAGIFGA------DPIHSLRVCVDTVRTNVYLAVFDKNLYDKL---------VSSFLEMK  376
             S GI+          ++ L   +DT   +V +   DK    ++         V   +E  
Sbjct  1436  STGIYAGGKDRVMQSLNHLFTAMDTTDADVTIYCLDKQWEARIKDAIARKESVEELVEDD  1495

Query  377   SEKQVEQ---KIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTE  433
                 +E                   E K           +    + E+       +   E
Sbjct  1496  KPVDIELVRVHPLSSLVGRPGYSTDEGKVHSYLEGTRFHQTAKDIAEIYAMWPNKQEANE  1555

Query  434   NLLLYI  439
              + LY+
Sbjct  1556  QICLYV  1561


>sp|O75367|H2AY_HUMAN Core histone macro-H2A.1 OS=Homo sapiens 
OX=9606 GN=MACROH2A1 PE=1 SV=5
Length=369

 Score = 90.6 bits (223),  Expect = 1e-17, Method: Composition-based stats.
 Identities = 38/184 (21%), Positives = 65/184 (35%), Gaps = 22/184 (12%)

Query  211  SGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESD  270
            +  L L   + +  ADI      +    VV+  N     GG V   L K           
Sbjct  188  TKSLFLGQKLQVVQADIAS----IDSDAVVHPTNTDFYIGGEVGNTLEKKGGKEFVEAVL  243

Query  271  DYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQLLKSAYEN------FNQH  323
            +    NGPL+V G+ V +GH L AK  +H   P     +  +LL+   +N        + 
Sbjct  244  ELRKKNGPLEVAGAAVSAGHGLPAKFVIHCNSPVWGADKCEELLEKTVKNCLALADDKKL  303

Query  324  EVLLAPLLSAGIFGADPIHSLRVCVDTVR-----------TNVYLAVFDKNLYDKLVSSF  372
            + +  P + +G  G     + ++ +  +              VY  +FD       V   
Sbjct  304  KSIAFPSIGSGRNGFPKQTAAQLILKAISSYFVSTMSSSIKTVYFVLFDSESIGIYVQEM  363

Query  373  LEMK  376
             ++ 
Sbjct  364  AKLD  367


>sp|Q02874|H2AY_RAT Core histone macro-H2A.1 OS=Rattus norvegicus 
OX=10116 GN=Macroh2a1 PE=1 SV=5
Length=368

 Score = 90.2 bits (222),  Expect = 1e-17, Method: Composition-based stats.
 Identities = 38/184 (21%), Positives = 65/184 (35%), Gaps = 22/184 (12%)

Query  211  SGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESD  270
            +  L L   + +  ADI      +    VV+  N     GG V   L K           
Sbjct  187  TKSLFLGQKLQVVQADIAS----IDSDAVVHPTNADFYIGGEVGSTLEKKGGKEFVEAVL  242

Query  271  DYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQLLKSAYEN------FNQH  323
            +    NGPL+V G+ V +GH L AK  +H   P     +  +LL+   +N        + 
Sbjct  243  ELRKKNGPLEVAGAAVSAGHGLPAKFVIHCNSPVWGADKCEELLEKTVKNCLALADDRKL  302

Query  324  EVLLAPLLSAGIFGADPIHSLRVCVDTVR-----------TNVYLAVFDKNLYDKLVSSF  372
            + +  P + +G  G     + ++ +  +              VY  +FD       V   
Sbjct  303  KSIAFPSIGSGRNGFPKQTAAQLILKAISSYFVSTMSSSIKTVYFVLFDSESIGIYVQEM  362

Query  373  LEMK  376
             ++ 
Sbjct  363  AKLD  366


>sp|Q2KIX2|GDAP2_BOVIN Ganglioside-induced differentiation-associated 
protein 2 OS=Bos taurus OX=9913 GN=GDAP2 PE=2 SV=1
Length=497

 Score = 91.8 bits (226),  Expect = 2e-17, Method: Composition-based stats.
 Identities = 53/324 (16%), Positives = 105/324 (32%), Gaps = 47/324 (15%)

Query  160  DWLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDN  219
            D L   SQ        S  N         E+  +   E T        + F     +   
Sbjct  2    DPLGAPSQFVDVDTLPSWGNSCEDQLNASEIAAETYQEET------IRSPFLYNKDINGK  55

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            V +   D+      +  T +VN +N  L     V+ ++       ++ +           
Sbjct  56   VVLWKGDV----ALLNCTAIVNTSNESLTDKNPVSESIFMLAGPDLKEDLQKLR----GC  107

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVN---KGEDIQLLKSAYENFNQH------EVLLAP  329
            + G + +  G NL A+  +H VGP      +      L S Y N  Q         +   
Sbjct  108  RTGEAKLTKGFNLAARFIIHTVGPKYKSRYRTAAESSLYSCYRNVLQLAKEQSMSSVGFC  167

Query  330  LLSAGIFGADPIHSLRVCVDTVR----------TNVYLAV--FDKNLYDKLVSSFLEMKS  377
            ++++   G     +  + + TVR            V  AV   ++  Y KL+  +     
Sbjct  168  VINSAKRGYPLEDATHIALRTVRRFLEIHGETLEKVVFAVSELEEATYQKLLPLYF----  223

Query  378  EKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL  437
             + ++++   +P         E +P V +R+    +     E+     EE + L  +L  
Sbjct  224  PRSLKEESRSLPCLPADIGNAEGEPVVPERQIRISEKPGAPED--NQEEEDEGLGVDLSF  281

Query  438  -----YIDINGNLHPDSATLVSDI  456
                 +  + G++      ++   
Sbjct  282  IGSHAFARMEGDIDKQRRLILQGQ  305


>sp|O93327|H2AY_CHICK Core histone macro-H2A.1 OS=Gallus gallus 
OX=9031 GN=MACROH2A1 PE=1 SV=4
Length=369

 Score = 90.2 bits (222),  Expect = 2e-17, Method: Composition-based stats.
 Identities = 37/184 (20%), Positives = 64/184 (35%), Gaps = 22/184 (12%)

Query  211  SGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESD  270
            +  L L   + +  ADI      +    VV+  N     GG V   L K           
Sbjct  188  TKSLFLGQKLQVVQADI----ATIDSDAVVHPTNSDFYTGGEVGSTLEKKGGKEFVEAVI  243

Query  271  DYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQLLKSAYENF------NQH  323
            +    NGPL + G+ V +GH L AK  +H   P     +  +LL+   +N        + 
Sbjct  244  ELRKKNGPLDIAGAVVSAGHGLPAKFVIHCNSPGWGSDKCEELLEKTVKNCLALADEKKL  303

Query  324  EVLLAPLLSAGIFGADPIHSLRVCVDTVR-----------TNVYLAVFDKNLYDKLVSSF  372
            + +  P + +G  G     + ++ +  +              VY  +FD       V   
Sbjct  304  KSIAFPSIGSGRNGFPKQTAAQLILKAISSYFVSTMSSSIKTVYFVLFDSESIGIYVQEM  363

Query  373  LEMK  376
             ++ 
Sbjct  364  AKLD  367


>sp|Q9QZQ8|H2AY_MOUSE Core histone macro-H2A.1 OS=Mus musculus 
OX=10090 GN=Macroh2a1 PE=1 SV=4
Length=369

 Score = 89.9 bits (221),  Expect = 2e-17, Method: Composition-based stats.
 Identities = 37/184 (20%), Positives = 65/184 (35%), Gaps = 22/184 (12%)

Query  211  SGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESD  270
            +  L L   + +  ADI      +    VV+  N     GG V   L K           
Sbjct  188  TKSLFLGQKLQVVQADIAS----IDSDAVVHPTNTDFYTGGEVGNTLEKKGGKEFVEAVL  243

Query  271  DYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQLLKSAYEN------FNQH  323
            +    NGPL+V G+ + +GH L AK  +H   P     +  +LL+   +N        + 
Sbjct  244  ELRKKNGPLEVAGAAISAGHGLPAKFVIHCNSPVWGADKCEELLEKTVKNCLALADDRKL  303

Query  324  EVLLAPLLSAGIFGADPIHSLRVCVDTVR-----------TNVYLAVFDKNLYDKLVSSF  372
            + +  P + +G  G     + ++ +  +              VY  +FD       V   
Sbjct  304  KSIAFPSIGSGRNGFPKQTAAQLILKAISSYFVSTMSSSIKTVYFMLFDSESIGIYVQEM  363

Query  373  LEMK  376
             ++ 
Sbjct  364  AKLD  367


>sp|Q8JUX6|POLN_CHIKS Polyprotein P1234 OS=Chikungunya virus (strain 
S27-African prototype) OX=371094 PE=1 SV=1
Length=2474

 Score = 92.9 bits (229),  Expect = 3e-17, Method: Composition-based stats.
 Identities = 49/230 (21%), Positives = 86/230 (37%), Gaps = 38/230 (17%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
                +  +K  DI +         VVNAAN     G GV  A+ K    +           
Sbjct  1333  CAPSYRVKRMDIAKN----DEECVVNAANPRGLPGDGVCKAVYKKWPESF---------K  1379

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGP---NVNKGEDIQLLKSAYENFNQH------EVL  326
             N    VG +  +         +H VGP   N ++ E  + L +AY    +         +
Sbjct  1380  NSATPVGTAKTVMCGTYP--VIHAVGPNFSNYSESEGDRELAAAYREVAKEVTRLGVNSV  1437

Query  327   LAPLLSAGIFGA------DPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQ  380
               PLLS G++          ++ L   +D+   +V +   DK  ++K +S  ++M+++ +
Sbjct  1438  AIPLLSTGVYSGGKDRLTQSLNHLFTAMDSTDADVVIYCRDKE-WEKKISEAIQMRTQVE  1496

Query  381   VEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKF  430
             +  +   I  + V         S+  RK       A      + LE T+F
Sbjct  1497  LLDEHISIDCDVV---RVHPDSSLAGRKGYSTTEGAL----YSYLEGTRF  1539


>sp|Q5XXP4|POLN_CHIK3 Polyprotein P1234 OS=Chikungunya virus (strain 
37997) OX=371095 PE=1 SV=1
Length=2474

 Score = 92.6 bits (228),  Expect = 4e-17, Method: Composition-based stats.
 Identities = 45/230 (20%), Positives = 86/230 (37%), Gaps = 38/230 (17%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
                +  +K  DI +         VVNAAN     G GV  A+ K    +           
Sbjct  1333  CAPSYRVKRMDIAKN----DEECVVNAANPRGLPGDGVCKAVYKKWPESF---------K  1379

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGP---NVNKGEDIQLLKSAYENFNQH------EVL  326
             N    VG +  +         +H VGP   N ++ E  + L +AY    +         +
Sbjct  1380  NSATPVGTAKTVMCGTYP--VIHAVGPNFSNYSESEGDRELAAAYREVAKEVTRLGVNSV  1437

Query  327   LAPLLSAGIFGA------DPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQ  380
               PLLS G++          ++ L   +D+   +V +   DK  ++K ++  ++M+++ +
Sbjct  1438  AIPLLSTGVYSGGKDRLTQSLNHLFTALDSTDADVVIYCRDKE-WEKKIAEAIQMRTQVE  1496

Query  381   VEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKF  430
             +  +   +  + +         S+  RK            + + LE T+F
Sbjct  1497  LLDEHISVDCDII---RVHPDSSLAGRKGYS----TTEGSLYSYLEGTRF  1539


>sp|Q5XGM5|GDAP2_XENLA Ganglioside-induced differentiation-associated 
protein 2 OS=Xenopus laevis OX=8355 PE=2 SV=1
Length=496

 Score = 89.1 bits (219),  Expect = 1e-16, Method: Composition-based stats.
 Identities = 47/295 (16%), Positives = 94/295 (32%), Gaps = 39/295 (13%)

Query  160  DWLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDN  219
            D L   S                      E  P    +  P       + F     + + 
Sbjct  2    DPLGARSCFVDADILPCW---ADVSNEEGEDVPDGGRKDVP--DGGSHSPFPYRKDINEK  56

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            V +   D+      +  T +VN +N  L     V+ ++ + +   +  E    +      
Sbjct  57   VILWKGDV----ALLNCTALVNTSNETLTDKNPVSDSIFRYSGPELLEE----MQKLKGC  108

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVN---KGEDIQLLKSAYENFNQH------EVLLAP  329
            + G + +  G NL A++ +H VGP      +      L S Y N  Q         +   
Sbjct  109  RTGEAKLTKGFNLAARYIIHTVGPKYKTKYRTAAESSLYSCYRNVLQLAKEQGMASVGFC  168

Query  330  LLSAGIFGADPIHSLRVCVDTVR----------TNVYLAVFDKNL--YDKLVSSFLEMKS  377
            +++          +  + + TVR            V  AV ++    Y +L+  +     
Sbjct  169  VITTQKRCYPLDDATHIALRTVRRFLEVHGQALEKVVFAVTEEEEGTYRRLLPLYF----  224

Query  378  EKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLT  432
             + +E++   I         ++ +P V +R+    +     EE +      K L+
Sbjct  225  PRSLEEEQRSILLLPQDIGNSDGEPVVPERQIRISEKPGVQEEDSEEEGLVKDLS  279


>sp|Q9DBL2|GDAP2_MOUSE Ganglioside-induced differentiation-associated 
protein 2 OS=Mus musculus OX=10090 GN=Gdap2 PE=1 SV=1
Length=498

 Score = 89.1 bits (219),  Expect = 1e-16, Method: Composition-based stats.
 Identities = 46/271 (17%), Positives = 90/271 (33%), Gaps = 40/271 (15%)

Query  160  DWLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDN  219
            D L   SQ        S  +         EV    +       +    + F     +   
Sbjct  2    DPLGAPSQFVDVDTLLSWGDSYED-----EVDCA-DSTAEAFQEDASRSPFVYSRDVNGK  55

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            V +   D+      +  T +VN +N  L     V+ ++       ++ +    +      
Sbjct  56   VVLWKGDV----ALLNCTAIVNTSNESLTDKNPVSESIFMLAGPDLKED----LQKLKGC  107

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVN---KGEDIQLLKSAYENFNQH------EVLLAP  329
            + G + +  G NL A+  +H VGP      +      L S Y N  Q         +   
Sbjct  108  RTGEAKLTKGFNLAARFIIHTVGPKYKSRYRTAAESSLYSCYRNVLQLAKEQSMSSVGFC  167

Query  330  LLSAGIFGADPIHSLRVCVDTVR----------TNVYLAV--FDKNLYDKLVSSFLEMKS  377
            ++++   G     +  + + TVR            V  AV   ++  Y KL+  +     
Sbjct  168  VINSAKRGYPLEDATHIALRTVRRFLEIHGENIEKVVFAVSELEEATYQKLLPLYF----  223

Query  378  EKQVEQKIAEIPKEEVKPFITESKPSVEQRK  408
             + ++++I  +P         E +P V +R+
Sbjct  224  PRSLKEEIRSLPYLPADIGNAEGEPVVPERQ  254


>sp|O90370|POLN_ONNVI Polyprotein P1234 OS=O'nyong-nyong virus 
(strain Igbo Ora) OX=79899 PE=3 SV=1
Length=2513

 Score = 90.2 bits (222),  Expect = 2e-16, Method: Composition-based stats.
 Identities = 46/231 (20%), Positives = 86/231 (37%), Gaps = 40/231 (17%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
                +  +K  DI +         VVNAAN     G GV  A+ +    +           
Sbjct  1333  CAPSYRVKRMDIAKN----TEECVVNAANPRGVPGDGVCKAVYRKWPESF---------R  1379

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYENFNQH------EVL  326
             N    VG +  +         +H VGPN +   + +    L SAY    +         +
Sbjct  1380  NSATPVGTAKTIMCGQYP--VIHAVGPNFSNYSEAEGDRELASAYREVAKEVSRLGVSSV  1437

Query  327   LAPLLSAGIFGA------DPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQ  380
               PLLS G++          ++ L   +D+   +V +   DK  ++K ++  + ++S+ +
Sbjct  1438  AIPLLSTGVYSGGKDRLLQSLNHLFAAMDSTDADVVIYCRDKE-WEKKITEAISLRSQVE  1496

Query  381   VEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVE-EVTTTLEETKF  430
             +      +  + V         S+       +K  + VE  + + LE T+F
Sbjct  1497  LLDDHISVDCDIV---RVHPDSSLA-----GRKGYSTVEGALYSYLEGTRF  1539


>sp|Q9NXN4|GDAP2_HUMAN Ganglioside-induced differentiation-associated 
protein 2 OS=Homo sapiens OX=9606 GN=GDAP2 PE=1 SV=1
Length=497

 Score = 87.9 bits (216),  Expect = 2e-16, Method: Composition-based stats.
 Identities = 50/324 (15%), Positives = 104/324 (32%), Gaps = 47/324 (15%)

Query  160  DWLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDN  219
            D L   SQ        S  +         +     +       +    + F     +   
Sbjct  2    DPLGAPSQFVDVDTLPSWGDSC------QDELNSSDTTAEIFQEDTVRSPFLYNKDVNGK  55

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            V +   D+      +  T +VN +N  L     V+ ++       ++ +    +      
Sbjct  56   VVLWKGDV----ALLNCTAIVNTSNESLTDKNPVSESIFMLAGPDLKED----LQKLKGC  107

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVN---KGEDIQLLKSAYENFNQH------EVLLAP  329
            + G + +  G NL A+  +H VGP      +      L S Y N  Q         +   
Sbjct  108  RTGEAKLTKGFNLAARFIIHTVGPKYKSRYRTAAESSLYSCYRNVLQLAKEQSMSSVGFC  167

Query  330  LLSAGIFGADPIHSLRVCVDTVR----------TNVYLAVFD--KNLYDKLVSSFLEMKS  377
            ++++   G     +  + + TVR            V  AV D  +  Y KL+  +     
Sbjct  168  VINSAKRGYPLEDATHIALRTVRRFLEIHGETIEKVVFAVSDLEEGTYQKLLPLYF----  223

Query  378  EKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL  437
             + ++++   +P         E +P V +R+    +     E+     EE + L  +L  
Sbjct  224  PRSLKEENRSLPYLPADIGNAEGEPVVPERQIRISEKPGAPED--NQEEEDEGLGVDLSF  281

Query  438  -----YIDINGNLHPDSATLVSDI  456
                 +  + G++      ++   
Sbjct  282  IGSHAFARMEGDIDKQRKLILQGQ  305


>sp|P87515|POLN_BFV Polyprotein P1234 OS=Barmah forest virus OX=11020 
PE=3 SV=3
Length=2411

 Score = 89.5 bits (220),  Expect = 3e-16, Method: Composition-based stats.
 Identities = 54/266 (20%), Positives = 88/266 (33%), Gaps = 43/266 (16%)

Query  221   YIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLK  280
              +K  DI           VVNAAN     G GV GA+ +   +A            G + 
Sbjct  1336  RVKRGDISN----APEDAVVNAANQQGVKGAGVCGAIYRKWPDAF-----------GDVA  1380

Query  281   VGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYENF------NQHEVLLAPLL  331
                   +S     K  +H VGPN +K  + +    L SAY          +   +  PLL
Sbjct  1381  TPTGTAVSKSVQDKLVIHAVGPNFSKCSEEEGDRDLASAYRAAAEIVMDKKITTVAVPLL  1440

Query  332   SAGIFGA------DPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKI  385
             S GI+          ++ L    D    +V +   DK    K+  +     S + V+  +
Sbjct  1441  STGIYAGGKNRVEQSLNHLFTAFDNTDADVTIYCMDKTWEKKIKEAIDHRTSVEMVQDDV  1500

Query  386   AEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLLY-IDINGN  444
                 + E +        S+  RK            V + LE TKF    + +  + +   
Sbjct  1501  ----QLEEELVRVHPLSSLAGRKGYSTD----SGRVFSYLEGTKFHQTAVDIAEMQVLWP  1552

Query  445   LHPDSA----TLVSDIDITFLKKDAP  466
                +S            +  ++   P
Sbjct  1553  ALKESNEQIVAYTLGESMDQIRGKCP  1578


>sp|Q5CZL1|GDAP2_XENTR Ganglioside-induced differentiation-associated 
protein 2 OS=Xenopus tropicalis OX=8364 PE=2 SV=1
Length=496

 Score = 87.5 bits (215),  Expect = 4e-16, Method: Composition-based stats.
 Identities = 43/247 (17%), Positives = 91/247 (37%), Gaps = 44/247 (18%)

Query  208  NSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQV  267
            + F     +   V +   D+      +  T +VN +N  L     V+ ++ + +   +  
Sbjct  45   SPFPYRNDINKKVILWRGDV----ALLSCTALVNTSNETLTDKNPVSDSIFRYSGPELSE  100

Query  268  ESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVN---KGEDIQLLKSAYENFNQH  323
            E    +      + G + +  G NL A++ +H VGP      +      L S Y N  Q 
Sbjct  101  E----MQKLKGCRTGEAKLTKGFNLAARYIIHTVGPKYKTKYRTAAESSLYSCYRNVLQL  156

Query  324  ------EVLLAPLLSAGIFGADPIHSLRVCVDTVR----------TNVYLAVFDKNL--Y  365
                    +   +++       P  S  + + TVR            V  AV ++    Y
Sbjct  157  AKEQGMASVGFCVIATQKRCYPPEDSTHIALRTVRRFLEAHGAALEKVVFAVTEQEEGTY  216

Query  366  DKLVSSFLEMKSEKQVEQKIAEIP-------KEEVKPFITESKPSVEQRK---QDDKKIK  415
             +L+  +      + +E++   IP         E +P + E +  + ++     DD + +
Sbjct  217  RRLLPLYF----PRSLEEEQRSIPFLPQDIGNAEGEPVVPERQIRISEKPGGQDDDSEEE  272

Query  416  ACVEEVT  422
              V++++
Sbjct  273  GLVKDLS  279


>sp|O90368|POLN_ONNVS Polyprotein P1234 OS=O'nyong-nyong virus 
(strain SG650) OX=374989 PE=1 SV=1
Length=2513

 Score = 89.1 bits (219),  Expect = 4e-16, Method: Composition-based stats.
 Identities = 45/231 (19%), Positives = 85/231 (37%), Gaps = 40/231 (17%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
                +  +K  DI +         VVNAAN     G GV  A+ +    +           
Sbjct  1333  CAPSYRVKRMDIAKN----TEECVVNAANPRGVPGDGVCKAVYRKWPESF---------R  1379

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYENFNQH------EVL  326
             N    VG +  +         +H VGPN +   + +    L S Y    +         +
Sbjct  1380  NSATPVGTAKTIMCGQYP--VIHAVGPNFSNYSEAEGDRELASVYREVAKEVSRLGVSSV  1437

Query  327   LAPLLSAGIFGA------DPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQ  380
               PLLS G++          ++ L   +D+   +V +   DK  ++K ++  + ++S+ +
Sbjct  1438  AIPLLSTGVYSGGKDRLLQSLNHLFTAMDSTDADVVIYCRDKE-WEKKITEAISLRSQVE  1496

Query  381   VEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVE-EVTTTLEETKF  430
             +      +  + V         S+       +K  + VE  + + LE T+F
Sbjct  1497  LLDDHISVDCDIV---RVHPDSSLA-----GRKGYSTVEGALYSYLEGTRF  1539


>sp|P13886|POLN_ONNVG Polyprotein P1234 OS=O'nyong-nyong virus 
(strain Gulu) OX=11028 PE=3 SV=2
Length=2514

 Score = 89.1 bits (219),  Expect = 4e-16, Method: Composition-based stats.
 Identities = 45/231 (19%), Positives = 85/231 (37%), Gaps = 40/231 (17%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
                +  +K  DI +         VVNAAN     G GV  A+ +    +           
Sbjct  1333  CAPSYRVKRMDIAKN----TEECVVNAANPRGVPGDGVCKAVYRKWPESF---------R  1379

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYENFNQH------EVL  326
             N    VG +  +         +H VGPN +   + +    L S Y    +         +
Sbjct  1380  NSATPVGTAKTIMCGQYP--VIHAVGPNFSNYSEAEGDRELASVYREVAKEVSRLGVSSV  1437

Query  327   LAPLLSAGIFGA------DPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQ  380
               PLLS G++          ++ L   +D+   +V +   DK  ++K ++  + ++S+ +
Sbjct  1438  AIPLLSTGVYSGGKDRLLQSLNHLFAAMDSTDADVVIYCRDKE-WEKKITEAISLRSQVE  1496

Query  381   VEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVE-EVTTTLEETKF  430
             +      +  + V         S+       +K  + VE  + + LE T+F
Sbjct  1497  LLDDHISVDCDIV---RVHPDSSLA-----GRKGYSTVEGALYSYLEGTRF  1539


>sp|Q8QZ73|POLN_MAYAB Polyprotein P1234 OS=Mayaro virus (strain 
Brazil) OX=374990 PE=1 SV=3
Length=2437

 Score = 88.7 bits (218),  Expect = 6e-16, Method: Composition-based stats.
 Identities = 51/250 (20%), Positives = 82/250 (33%), Gaps = 41/250 (16%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
                   +K ADI    +      VVNAAN   + G GV  A+ +    A           
Sbjct  1334  CAPAYAVKRADIATAIE----DAVVNAANHRGQVGDGVCRAVARKWPQAF---------R  1380

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYE---------NFNQHEVL  326
             N    VG +  +       + +H VGPN N   + +  +             N      +
Sbjct  1381  NAATPVGTAKTVKCDE--TYIIHAVGPNFNNTSEAEGDRDLAAAYRAVAAEINRLSISSV  1438

Query  327   LAPLLSAGIFGADPIH------SLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQ  380
               PLLS GIF A           L   +DT    V +   DK    K+ +      + + 
Sbjct  1439  AIPLLSTGIFSAGKDRVHQSLSHLLAAMDTTEARVTIYCRDKTWEQKIKTVLQNRSATEL  1498

Query  381   V--EQKIAEIPKEEVKPFITESKP-------SVEQRKQDDKKIKACVE--EVTTTLEETK  429
             V  E +                +P       ++    +  K  +A ++  E+TT     +
Sbjct  1499  VSDELQFEVNLTRVHPDSSLVGRPGYSTTDGTLYSYMEGTKFHQAALDMAEITTLWPRVQ  1558

Query  430   FLTENLLLYI  439
                E++ LY 
Sbjct  1559  DANEHICLYA  1568


>sp|Q66H63|GDAP2_RAT Ganglioside-induced differentiation-associated-protein 
2 OS=Rattus norvegicus OX=10116 GN=Gdap2 PE=2 
SV=1
Length=497

 Score = 86.4 bits (212),  Expect = 9e-16, Method: Composition-based stats.
 Identities = 44/271 (16%), Positives = 89/271 (33%), Gaps = 40/271 (15%)

Query  160  DWLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVVQTIEVNSFSGYLKLTDN  219
            D L   SQ        S  +         EV    +       +    + F     +   
Sbjct  2    DPLGAPSQFVDVDTLVSWGDSYED-----EVNSS-DSTAEAFQEDSNRSPFLYNRDINGK  55

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            V +   D+      +  T +VN +N  L     V+ ++       ++ +    +      
Sbjct  56   VVLWKGDV----ALLNCTAIVNTSNESLTDKNPVSESIFMLAGPDLKED----LQKLKGC  107

Query  280  KVGGSCVLSGHNL-AKHCLHVVGPNVN---KGEDIQLLKSAYENFNQH------EVLLAP  329
            + G + +  G NL A+  +H VGP      +      L S Y N  Q         +   
Sbjct  108  RTGEAKLTKGFNLAARFIIHTVGPKYKSRYRTAAESSLYSCYRNVLQLAKEQSMSSVGFC  167

Query  330  LLSAGIFGADPIHSLRVCVDTVR----------TNVYLAV--FDKNLYDKLVSSFLEMKS  377
            ++++   G     +  + + TVR            V  A+   ++  Y KL+  +     
Sbjct  168  VINSAKRGYPLEDATHIALRTVRRFLEIHGETIEKVVFAISELEEATYQKLLPLYF----  223

Query  378  EKQVEQKIAEIPKEEVKPFITESKPSVEQRK  408
             + ++++   +P         E +P V +R+
Sbjct  224  PRSLKEESQSLPSLPADIGNAEGEPVVPERQ  254


>sp|Q9YBE9|Y1648_AERPE Uncharacterized protein APE_1648.1 OS=Aeropyrum 
pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / 
NBRC 100138 / K1) OX=272557 GN=APE_1648.1 PE=4 SV=2
Length=189

 Score = 80.2 bits (196),  Expect = 1e-15, Method: Composition-based stats.
 Identities = 35/175 (20%), Positives = 67/175 (38%), Gaps = 23/175 (13%)

Query  220  VYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPL  279
            + +   D+ +    V+   VVN AN  +  GGG AGAL +A  + ++ E+        P+
Sbjct  11   LAVSMGDLTK----VRAEAVVNPANSLMIMGGGAAGALKRAGGSVIEEEAM----RKAPV  62

Query  280  KVGGSCVLSGHNL-AKHCLHV-----VGPNVNKGEDIQLLKSAYENFNQHEV--LLAPLL  331
             VG + + SG +L A+  +H       G  +      +   +A    ++  +  +  P +
Sbjct  63   PVGEAVITSGGSLPARFVIHAPTMEEPGMRIPLVNAFKASYAALRLASEAGIESVAMPAM  122

Query  332  SAGIFGADPIHSLR---VCVDTVRTN----VYLAVFDKNLYDKLVSSFLEMKSEK  379
             AG+ G       R   +    +R      + L    +  Y  +     E    +
Sbjct  123  GAGVGGLSVAEVAREAAMAASILRGKWPRYIILVARGEEAYRGMEKGVREALGVE  177


>sp|P13887|POLN_RRVN Polyprotein P1234 OS=Ross river virus (strain 
NB5092) OX=11031 PE=3 SV=2
Length=2480

 Score = 86.8 bits (213),  Expect = 2e-15, Method: Composition-based stats.
 Identities = 50/250 (20%), Positives = 92/250 (37%), Gaps = 41/250 (16%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
                +  ++  DI   A+      VVNAAN     G GV  A+ +   ++           
Sbjct  1331  CAPSYRVRRTDISGHAE----EAVVNAANAKGTVGVGVCRAVARKWPDSF---------K  1377

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYE------NFNQHEVL  326
                  VG + ++  + +  + +H VGPN +   + +    L +AY       N +  + +
Sbjct  1378  GAATPVGTAKLVQANGM--NVIHAVGPNFSTVTEAEGDRELAAAYRAVAGIINASNIKSV  1435

Query  327   LAPLLSAGIFGA------DPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQ  380
               PLLS G+F          ++ L   +DT   +V +   DK    K+  +     + + 
Sbjct  1436  AIPLLSTGVFSGGKDRVMQSLNHLFTAMDTTDADVVIYCRDKAWEKKIQEAIDRRTAVEL  1495

Query  381   VEQKIA-EIPKEEVKPF----------ITESKPSVEQRKQDDKKIKACVEEVTTTLEETK  429
             V + I+ E     V P           IT+ K           +    + E++T   + +
Sbjct  1496  VSEDISLESDLIRVHPDSCLVGRKGYSITDGKLHSYLEGTRFHQTAVDMAEISTLWPKLQ  1555

Query  430   FLTENLLLYI  439
                E + LY 
Sbjct  1556  DANEQICLYA  1565


>sp|P13888|POLN_RRVT Polyprotein nsP1234 (Fragment) OS=Ross river 
virus (strain T48) OX=11032 PE=1 SV=2
Length=1149

 Score = 85.6 bits (210),  Expect = 4e-15, Method: Composition-based stats.
 Identities = 50/249 (20%), Positives = 92/249 (37%), Gaps = 41/249 (16%)

Query  217  TDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATN  276
              +  ++  DI   A+      VVNAAN     G GV  A+ +   ++            
Sbjct  1    APSYRVRRTDISGHAE----EAVVNAANAKGTVGDGVCRAVARKWPDSF---------KG  47

Query  277  GPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYE------NFNQHEVLL  327
                VG + ++  + +  + +H VGPN +   + +    L +AY       N +  + + 
Sbjct  48   AATPVGTAKLVQANGM--NVIHAVGPNFSTVTEAEGDRELAAAYRAVAGIINASNIKSVA  105

Query  328  APLLSAGIFGA------DPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQV  381
             PLLS G+F          ++ L   +DT   +V +   DK    K+  +     + + V
Sbjct  106  IPLLSTGVFSGGKDRVMQSLNHLFTAMDTTDADVVIYCRDKAWEKKIQEAIDRRTAVELV  165

Query  382  EQKIA-EIPKEEVKPF----------ITESKPSVEQRKQDDKKIKACVEEVTTTLEETKF  430
             + I+ E     V P           IT+ K           +    + E++T   + + 
Sbjct  166  SEDISLESDLIRVHPDSCLVGRKGYSITDGKLHSYLEGTRFHQTAVDMAEISTLWPKLQD  225

Query  431  LTENLLLYI  439
              E + LY 
Sbjct  226  ANEQICLYA  234


>sp|Q66HX8|GDAP2_DANRE Ganglioside-induced differentiation-associated 
protein 2 OS=Danio rerio OX=7955 GN=gdap2 PE=2 SV=1
Length=504

 Score = 82.9 bits (203),  Expect = 1e-14, Method: Composition-based stats.
 Identities = 38/223 (17%), Positives = 85/223 (38%), Gaps = 34/223 (15%)

Query  208  NSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQV  267
            + F+    + + + + N D+      +  T +VN +N  L     ++ ++++     ++ 
Sbjct  55   SPFTFRQDINNKIVLFNGDV----ALLNCTAIVNTSNETLTDKNPISDSIHRHAGPELR-  109

Query  268  ESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVN---KGEDIQLLKSAYENFNQH  323
              D+ +   G  + G + +  G +L A+  +H VGP      +      L S Y N  Q 
Sbjct  110  --DELLKLKG-CRTGEAKMTEGFDLAARFIIHTVGPKYKAKYRTAAESSLYSCYRNVLQL  166

Query  324  E------VLLAPLLSAGIFGADPIHSLRVCVDTVR----------TNVYLAVFD--KNLY  365
                    +   ++S          +  + + TVR            +  AV D  + +Y
Sbjct  167  AKEHAMVSVGFCVISTVKRAYPVEDATHIALRTVRRFLENHGENIETLVFAVSDVEEPVY  226

Query  366  DKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRK  408
             KL+  +      +  +++   +P        +E +P V +R+
Sbjct  227  RKLLPLYY----PRSKQEERISLPLLPADIGNSEGEPVVPERQ  265


>sp|Q4R678|GDAP2_MACFA Ganglioside-induced differentiation-associated 
protein 2 OS=Macaca fascicularis OX=9541 GN=GDAP2 PE=2 
SV=1
Length=461

 Score = 80.6 bits (197),  Expect = 5e-14, Method: Composition-based stats.
 Identities = 43/255 (17%), Positives = 89/255 (35%), Gaps = 37/255 (15%)

Query  229  EEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLS  288
            +E      T +VN +N  L     V+ ++       ++ +    +      + G + +  
Sbjct  25   DELNSSDTTAIVNTSNESLTDKNPVSESIFMLAGPDLKED----LQKLKGCRTGEAKLTK  80

Query  289  GHNL-AKHCLHVVGPNVN---KGEDIQLLKSAYENFNQH------EVLLAPLLSAGIFGA  338
            G NL A+  +H VGP      +      L S Y N  Q         +   ++++   G 
Sbjct  81   GFNLAARFIIHTVGPKYKSRYRTAAESSLYSCYRNVLQLAKEQSMSSVGFCVINSAKRGY  140

Query  339  DPIHSLRVCVDTVR----------TNVYLAVFD--KNLYDKLVSSFLEMKSEKQVEQKIA  386
                +  + + TVR            V  AV D  +  Y KL+  +      + ++++  
Sbjct  141  PLEDATHIALRTVRRFLEIHGETIEKVVFAVSDLEEATYQKLLPLYF----PRSLKEENR  196

Query  387  EIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLL-----YIDI  441
             +P         E +P V +R+    +     E+     EE + L  +L       +  +
Sbjct  197  SLPYLPADIGNAEGEPVVPERQIRISEKPGAPED--NQEEEDEGLGVDLSFIGSHAFARM  254

Query  442  NGNLHPDSATLVSDI  456
             G++      ++   
Sbjct  255  EGDIDKQRKLILQGQ  269


>sp|Q5Y389|POLN_GETV Polyprotein P1234 OS=Getah virus OX=59300 
PE=1 SV=3
Length=2467

 Score = 81.4 bits (199),  Expect = 1e-13, Method: Composition-based stats.
 Identities = 46/230 (20%), Positives = 78/230 (34%), Gaps = 38/230 (17%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
                +  ++ ADI           VVNAAN       GV  A+ K   ++           
Sbjct  1332  CAPSYRVRRADI----SGHSEEAVVNAANAKGTVSDGVCRAVAKKWPSSF---------K  1378

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYENF------NQHEVL  326
                  VG + ++    +    +H VGPN +   + +    L +AY         N  + +
Sbjct  1379  GAATPVGTAKMIRADGM--TVIHAVGPNFSTVTEAEGDRELAAAYRAVASIISTNNIKSV  1436

Query  327   LAPLLSAGIFGA------DPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQ  380
               PLLS G F          ++ L   +D    +V +   DKN   K+     E    + 
Sbjct  1437  AVPLLSTGTFSGGKDRVMQSLNHLFTALDATDADVVIYCRDKNWEKKI----QEAIDRRT  1492

Query  381   VEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKF  430
               + ++E    E           +  R        A   ++ + LE T+F
Sbjct  1493  AIELVSEDVTLETDLVRVHPDSCLVGRNGYS----ATDGKLYSYLEGTRF  1538


>sp|Q6QLN1|POLN_AHEV Non-structural polyprotein pORF1 OS=Avian 
hepatitis E virus (isolate Chicken/California/Meng) OX=516993 
GN=ORF1 PE=3 SV=1
Length=1531

 Score = 81.0 bits (198),  Expect = 1e-13, Method: Composition-based stats.
 Identities = 53/287 (18%), Positives = 97/287 (34%), Gaps = 29/287 (10%)

Query  141  PLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTP  200
            P+     + +  P      + + +  Q +        ++Q   +    EV     M L P
Sbjct  555  PVNCAPPAVSAGPVPAPPGNPVIESVQGSGAGGPEVSESQ-PGLTPTREV---TNMPLPP  610

Query  201  VVQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKA  260
                 EV        L     +   ++++ A       +VN AN   + GGG+ G  ++ 
Sbjct  611  QRGQEEVL-----AVLPSGARVIVGNLLDVA----ADWLVNPANRDHQPGGGLCGMFHRR  661

Query  261  TNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENF  320
                +     +       L  G      G       +H  GP+     D   L+  Y   
Sbjct  662  W-PHLWPVCGEVQD----LPTGPVIFQQG---PPKVIHAPGPDYRIKPDPDGLRRVYAVV  713

Query  321  NQ-HEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVF---DKNLYDKLVSSFLEMK  376
            +Q H  + +PL+SAGI+ A    S      T R    L V     +++ D +++      
Sbjct  714  HQAHGTVASPLISAGIYRAPARESFEAWAATARDGDLLVVQRSMAQHIRDFVLNEGRHRP  773

Query  377  SEKQVEQKIAEIPK----EEVKPFITESKPSVEQRKQDDKKIKACVE  419
             E  V++ +A++       E +P+    K            + A V 
Sbjct  774  RELHVDRAMADMVNYGLATEPEPYNELVKGVEVAPMTVKYALIAGVP  820


>sp|Q9JGL0|POLN_SAGV Polyprotein P1234 OS=Sagiyama virus OX=59303 
PE=3 SV=3
Length=2467

 Score = 81.0 bits (198),  Expect = 1e-13, Method: Composition-based stats.
 Identities = 46/230 (20%), Positives = 78/230 (34%), Gaps = 38/230 (17%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
                +  ++ ADI           VVNAAN       GV  A+ K   ++           
Sbjct  1332  CAPSYRVRRADI----SGHGEEAVVNAANAKGTVSDGVCRAVAKKWPSSF---------K  1378

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYENF------NQHEVL  326
                  VG + ++    +    +H VGPN +   + +    L +AY         N  + +
Sbjct  1379  GAATPVGTAKMIRADGM--TVIHAVGPNFSTVTEAEGDRELAAAYRAVASIISTNNIKSV  1436

Query  327   LAPLLSAGIFGA------DPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQ  380
               PLLS G F          ++ L   +D    +V +   DKN   K+     E    + 
Sbjct  1437  AVPLLSTGTFSGGKDRVMQSLNHLFTALDATDADVVIYCRDKNWEKKI----QEAIDRRT  1492

Query  381   VEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKF  430
               + ++E    E           +  R        A   ++ + LE T+F
Sbjct  1493  AIELVSEDVTLETDLVRVHPDSCLVGRNGYS----ATDGKLYSYLEGTRF  1538


>sp|Q8QL53|POLN_SLDV Polyprotein P1234 OS=Sleeping disease virus 
OX=78540 PE=3 SV=1
Length=2593

 Score = 80.2 bits (196),  Expect = 2e-13, Method: Composition-based stats.
 Identities = 40/173 (23%), Positives = 63/173 (36%), Gaps = 37/173 (21%)

Query  211   SGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESD  270
              GY  L  N+              +  V+VNAAN   + G GV GAL  A  +A      
Sbjct  1422  PGYRVLNKNI-----------ITAEEEVLVNAANSNGRPGDGVCGALYGAFGDAF-----  1465

Query  271   DYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDI---QLLKSAYEN------FN  321
                  NG +  G + ++ G  L    +H  G +  + ++    + L++AY         N
Sbjct  1466  ----PNGAIGAGNAVLVRG--LEATIIHAAGADFREVDEETGARQLRAAYRAAATLVTAN  1519

Query  322   QHEVLLAPLLSAGIFGADPIH------SLRVCVDTVRTNVYLAVFDKNLYDKL  368
                    PLLS  IF            +L    DT   +V +     N+  ++
Sbjct  1520  GITSAAIPLLSTHIFSNGRNRLEQSFGALVEAFDTTECDVTIYCLANNMAARI  1572


>sp|Q8JJX1|POLN_SPDV Polyprotein P1234 OS=Salmon pancreas disease 
virus OX=84589 PE=3 SV=1
Length=2601

 Score = 80.2 bits (196),  Expect = 2e-13, Method: Composition-based stats.
 Identities = 36/150 (24%), Positives = 58/150 (39%), Gaps = 26/150 (17%)

Query  234   VKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLA  293
              +  V+VNAAN   + G GV GAL  A  +A           NG +  G + ++ G  L 
Sbjct  1435  AEEEVLVNAANSNGRPGDGVCGALYGAFGDAF---------PNGAIGAGNAVLVRG--LE  1483

Query  294   KHCLHVVGPNVNKGEDI---QLLKSAYEN------FNQHEVLLAPLLSAGIFGADPIH--  342
                +H  G +  + ++    + L++AY         N       PLLS  IF        
Sbjct  1484  ATIIHAAGADFREVDEETGARQLRAAYRAAATLVTANGITSAAIPLLSTHIFSNGRNRLE  1543

Query  343   ----SLRVCVDTVRTNVYLAVFDKNLYDKL  368
                 +L    DT   +V +     N+  ++
Sbjct  1544  QSFSALVEAFDTTECDVTIYCLANNMAARI  1573


>sp|Q460N3|PAR15_HUMAN Protein mono-ADP-ribosyltransferase PARP15 
OS=Homo sapiens OX=9606 GN=PARP15 PE=1 SV=2
Length=678

 Score = 74.8 bits (182),  Expect = 6e-12, Method: Composition-based stats.
 Identities = 38/231 (16%), Positives = 78/231 (34%), Gaps = 31/231 (13%)

Query  219  NVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGG-VAGALNKATNNAMQVESDDYIATNG  277
            N+ + + D++     +   V+VN+  + L+ GGG ++ A  +     +Q E DD      
Sbjct  90   NLKLISGDVL----YIWADVIVNSVPMNLQLGGGPLSRAFLQKAGPMLQKELDD-RRRET  144

Query  278  PLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDI--QLLKSAYE------NFNQHEVLLA  328
              KVG   + SG NL  K  LH V P  N G +   Q++ +  +             +  
Sbjct  145  EEKVGNIFMTSGCNLDCKAVLHAVAPYWNNGAETSWQIMANIIKKCLTTVEVLSFSSITF  204

Query  329  PLLSAGIFGADPIHSLRVCVDTVRT---------------NVYLAVFDKNLYDKLVSSFL  373
            P++  G          ++ +  V                 +  +   D       +  F 
Sbjct  205  PMIGTGSLQFPKAVFAKLILSEVFEYSSSTRPITSPLQEVHFLVYTNDDEGCQAFLDEFT  264

Query  374  EMKSEKQVEQKIA-EIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTT  423
                    + +I      + V   +++   +  + K      +    ++ T
Sbjct  265  NWSRINPNKARIPMAGDTQGVVGTVSKPCFTAYEMKIGAITFQVATGDIAT  315


>sp|Q8CCK0|H2AW_MOUSE Core histone macro-H2A.2 OS=Mus musculus 
OX=10090 GN=Macroh2a2 PE=1 SV=3
Length=372

 Score = 69.4 bits (168),  Expect = 9e-11, Method: Composition-based stats.
 Identities = 35/187 (19%), Positives = 64/187 (34%), Gaps = 23/187 (12%)

Query  211  SGYLKLTDNVYIKNADIVEEAKKVKPTVVVNA--ANVYLKHGGGVAGALNKATNNAMQVE  268
            S  L L   + +  +DI      ++   +V+   A + LK   G   AL KA        
Sbjct  188  SKSLVLGQKLSLTQSDISHIGS-MRVEGIVHPTTAEIDLKEEIG--KALEKAGGKEFLET  244

Query  269  SDDYIATNGPLKVGGSCVL-SGHNLAKHCLHVVGPNVNKGEDIQLLKSAYEN------FN  321
              +   + GPL+V  + V  S    AK  +H   P     +  + L+   +N        
Sbjct  245  VKELRKSQGPLEVAEAAVSQSSGLAAKFVIHCHIPQWGSDKCEEQLEETIKNCLSAAEDK  304

Query  322  QHEVLLAPLLSAGIFGADPIHSLRVCVDTVR-----------TNVYLAVFDKNLYDKLVS  370
            + + +  P   +G        + +V +  +             NVY  +FD       V 
Sbjct  305  KLKSVAFPPFPSGRNCFPKQTAAQVTLKAISAHFDDSSSSSLKNVYFLLFDSESIGIYVQ  364

Query  371  SFLEMKS  377
               ++ +
Sbjct  365  EMAKLDT  371


>sp|Q9P0M6|H2AW_HUMAN Core histone macro-H2A.2 OS=Homo sapiens 
OX=9606 GN=MACROH2A2 PE=1 SV=3
Length=372

 Score = 69.4 bits (168),  Expect = 1e-10, Method: Composition-based stats.
 Identities = 35/186 (19%), Positives = 63/186 (34%), Gaps = 23/186 (12%)

Query  211  SGYLKLTDNVYIKNADIVEEAKKVKPTVVVNA--ANVYLKHGGGVAGALNKATNNAMQVE  268
            S  L L   + +  +DI      ++   +V+   A + LK   G   AL KA        
Sbjct  188  SKSLVLGQKLSLTQSDISHIGS-MRVEGIVHPTTAEIDLKEDIG--KALEKAGGKEFLET  244

Query  269  SDDYIATNGPLKVGGSCVL-SGHNLAKHCLHVVGPNVNKGEDIQLLKSAYEN------FN  321
              +   + GPL+V  + V  S    AK  +H   P     +  + L+   +N        
Sbjct  245  VKELRKSQGPLEVAEAAVSQSSGLAAKFVIHCHIPQWGSDKCEEQLEETIKNCLSAAEDK  304

Query  322  QHEVLLAPLLSAGIFGADPIHSLRVCVDTVR-----------TNVYLAVFDKNLYDKLVS  370
            + + +  P   +G        + +V +  +             NVY  +FD       V 
Sbjct  305  KLKSVAFPPFPSGRNCFPKQTAAQVTLKAISAHFDDSSASSLKNVYFLLFDSESIGIYVQ  364

Query  371  SFLEMK  376
               ++ 
Sbjct  365  EMAKLD  370


>sp|Q7JUR6|GDAP2_DROME Protein GDAP2 homolog OS=Drosophila melanogaster 
OX=7227 GN=Gdap2 PE=2 SV=1
Length=540

 Score = 69.8 bits (169),  Expect = 2e-10, Method: Composition-based stats.
 Identities = 32/233 (14%), Positives = 69/233 (30%), Gaps = 34/233 (15%)

Query  203  QTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATN  262
                 + F     + +   I + D+      ++   + N ++  L     ++  +     
Sbjct  52   PRHNRSPFPLCKDVNNRFVIWDGDMTT----LEVDAITNTSDETLTESNSISERIFAVAG  107

Query  263  NAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVN---KGEDIQLLKSAYE  318
            N ++ E    +      + G   +  G+NL AK+ LH V P      K      L   Y 
Sbjct  108  NQLREELSTTVK---ECRTGDVRITRGYNLPAKYVLHTVAPAYREKFKTAAENTLHCCYR  164

Query  319  NF------NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRT-------NVYLAVFDKNL-  364
            N            +    +SA         +  + + T+R         V +     +  
Sbjct  165  NVLCKAKELNLHTIALCNISAHQKSFPADVAAHIALRTIRRYLDKCTLQVVILCVGSSER  224

Query  365  --YDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIK  415
              Y+ L   +      ++          +  K      +    Q    D++I+
Sbjct  225  GTYEVLAPLYFPRDQLEE-----RSALWQLPKD--IGGEFGEPQHPDPDRQIR  270


>sp|Q9YLR1|POLN_HEVUS Non-structural polyprotein pORF1 OS=Hepatitis 
E virus genotype 3 (isolate Human/United States/US2) OX=509615 
GN=ORF1 PE=3 SV=1
Length=1708

 Score = 69.8 bits (169),  Expect = 2e-10, Method: Composition-based stats.
 Identities = 40/211 (19%), Positives = 67/211 (32%), Gaps = 28/211 (13%)

Query  139  GKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMEL  198
            G P      S         EE  +D  S  +V +  G          T   V        
Sbjct  729  GLPYPTPPVSDIWVLPPPSEESHVDAASVPSVPEPAGL---------TSPIVLTPPPPPP  779

Query  199  TPVVQTIEVNSFSGYL--KLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGA  256
                        +  L     D   +    + E         +VNA+N   + GGG+  A
Sbjct  780  PVRKPATSPPPRTRRLLYTYPDGAKVYAGSLXES----DCDWLVNASNPGHRPGGGLCHA  835

Query  257  LNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVNKGEDIQLLKS  315
              +    A    S ++I   G         L+ + L  +  +H V P+    ++ + L++
Sbjct  836  FYQRFPEAF--YSTEFIMREG---------LAAYTLTPRPIIHAVAPDYRVEQNPKRLEA  884

Query  316  AYEN-FNQHEVLLAPLLSAGIFGADPIHSLR  345
            AY    ++      PLL +GI+      S  
Sbjct  885  AYRETCSRRGTAAYPLLGSGIYQVPVSLSFD  915


>sp|Q292F9|GDAP2_DROPS Protein GDAP2 homolog OS=Drosophila pseudoobscura 
pseudoobscura OX=46245 GN=GA15091 PE=3 SV=1
Length=542

 Score = 67.9 bits (164),  Expect = 6e-10, Method: Composition-based stats.
 Identities = 31/233 (13%), Positives = 69/233 (30%), Gaps = 34/233 (15%)

Query  203  QTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATN  262
                 + F     + + + I + D+      +    + N ++  L     ++  +     
Sbjct  54   PRHNRSPFPLSKDVNNRLVIWDGDMTT----LDVDAITNTSDETLTESNIISERILAVAG  109

Query  263  NAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCLHVVGPNVN---KGEDIQLLKSAYE  318
            N ++ E    +      + G   +  G+NL AK+ LH V P      K      L   Y 
Sbjct  110  NQLREELSTNVK---ECRTGDVRITRGYNLPAKYVLHTVAPTYREKFKTAAENTLHCCYR  166

Query  319  NF------NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRT-------NVYLAV---FDK  362
            N            +    +S          +  + + T+R         V +      ++
Sbjct  167  NVLCKAKELNLHTIALCNISVHQKSFPADVAAHIALRTIRRYLDKCTLQVVILCVNSNER  226

Query  363  NLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIK  415
              Y+ L   +      ++          +  K      +    Q    D++I+
Sbjct  227  GTYEVLAPLYFPRDQLEE-----RSALWQLPKD--IGGEFGEPQHPDPDRQIR  272


>sp|A0A0D2UG83|H2AY_CAPO3 Histone macroH2A1.1 OS=Capsaspora owczarzaki 
(strain ATCC 30864) OX=595528 GN=CAOG_004778 PE=1 SV=1
Length=368

 Score = 65.2 bits (157),  Expect = 2e-09, Method: Composition-based stats.
 Identities = 38/184 (21%), Positives = 67/184 (36%), Gaps = 23/184 (13%)

Query  211  SGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESD  270
               L L   +Y+ N D+ E    V+   VV+  N  +   G V GA+  A    +  E +
Sbjct  188  KKTLHLGQTLYVVNGDLTE----VRCDAVVHPTNGTMSFAGQVGGAIRAAAGAGVDAEVN  243

Query  271  DYIATNGPLKVGGSCVLSGHNLA-KHCLHVVGPNV-NKGEDIQLLKSAYENF------NQ  322
             Y++ +  L+V  + + SGHNL  K  +HV  PN  N       L     N         
Sbjct  244  SYMSEHSQLQVTKAAITSGHNLPSKWIVHVHSPNYSNAATATDALTQTIRNALTLADTKS  303

Query  323  HEVLLAPLLSAGIFGADPIHSLRVCVDTVR-----------TNVYLAVFDKNLYDKLVSS  371
             + +  P + +G        + +  +  +              VY  +FD+   +   + 
Sbjct  304  IKTIAFPSIGSGNNHFPKHIAAQTILQAISAYFMSIMSSSIKEVYFVLFDQESINVYNAE  363

Query  372  FLEM  375
             +  
Sbjct  364  LINT  367


>sp|Q81862|POLN_HEVCH Non-structural polyprotein pORF1 OS=Hepatitis 
E virus genotype 1 (isolate Human/China/HeBei/1987) OX=652674 
GN=ORF1 PE=1 SV=1
Length=1693

 Score = 66.0 bits (159),  Expect = 4e-09, Method: Composition-based stats.
 Identities = 23/108 (21%), Positives = 41/108 (38%), Gaps = 11/108 (10%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLH  298
            +VNA+NV  + GGG+  A  +    +    S            G +         +  +H
Sbjct  803  LVNASNVDHRPGGGLCHAFYQRYPASFDAASFVMRD-------GAAAYT---LTPRPIIH  852

Query  299  VVGPNVNKGEDIQLLKSAYEN-FNQHEVLLAPLLSAGIFGADPIHSLR  345
             V P+     + ++L++AY    ++      PLL  GI+      S  
Sbjct  853  AVAPDYRLEHNPKMLEAAYRETCSRLGTAAYPLLGTGIYQVPIGPSFD  900


>sp|P33424|POLN_HEVPA Non-structural polyprotein pORF1 OS=Hepatitis 
E virus genotype 1 (isolate Human/Pakistan/Sar-55) OX=33774 
GN=ORF1 PE=1 SV=2
Length=1693

 Score = 66.0 bits (159),  Expect = 4e-09, Method: Composition-based stats.
 Identities = 23/108 (21%), Positives = 40/108 (37%), Gaps = 11/108 (10%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLH  298
            +VNA+NV  + GGG+  A  +    +    S            G +         +  +H
Sbjct  803  LVNASNVDHRPGGGLCHAFYQRYPASFDAASFVMRD-------GAAAYT---LTPRPIIH  852

Query  299  VVGPNVNKGEDIQLLKSAYEN-FNQHEVLLAPLLSAGIFGADPIHSLR  345
             V P+     + + L++AY    ++      PLL  GI+      S  
Sbjct  853  AVAPDYRLEHNPKRLEAAYRETCSRLGTAAYPLLGTGIYQVPIGPSFD  900


>sp|P29324|POLN_HEVBU Non-structural polyprotein pORF1 OS=Hepatitis 
E virus genotype 1 (isolate Human/Burma) OX=31767 GN=ORF1 
PE=1 SV=1
Length=1693

 Score = 66.0 bits (159),  Expect = 4e-09, Method: Composition-based stats.
 Identities = 23/108 (21%), Positives = 40/108 (37%), Gaps = 11/108 (10%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLH  298
            +VNA+NV  + GGG+  A  +    +    S            G +         +  +H
Sbjct  803  LVNASNVDHRPGGGLCHAFYQRYPASFDAASFVMRD-------GAAAYT---LTPRPIIH  852

Query  299  VVGPNVNKGEDIQLLKSAYEN-FNQHEVLLAPLLSAGIFGADPIHSLR  345
             V P+     + + L++AY    ++      PLL  GI+      S  
Sbjct  853  AVAPDYRLEHNPKRLEAAYRETCSRLGTAAYPLLGTGIYQVPIGPSFD  900


>sp|Q9WC28|POLN_HEVHY Non-structural polyprotein pORF1 OS=Hepatitis 
E virus genotype 1 (isolate Human/India/Hyderabad) OX=512346 
GN=ORF1 PE=1 SV=1
Length=1693

 Score = 63.7 bits (153),  Expect = 2e-08, Method: Composition-based stats.
 Identities = 22/108 (20%), Positives = 38/108 (35%), Gaps = 11/108 (10%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLH  298
            +VNA+NV    GGG+  A  +    +                 G +         +  +H
Sbjct  803  LVNASNVDHCPGGGLCHAFYQRYPASFDAACFVMRD-------GAAAYT---LTPRPIIH  852

Query  299  VVGPNVNKGEDIQLLKSAYEN-FNQHEVLLAPLLSAGIFGADPIHSLR  345
             V P+     + + L++AY    ++      PLL  GI+      S  
Sbjct  853  RVAPDYRLEHNPKRLEAAYRETCSRLGTAAYPLLGTGIYQVPIGPSFD  900


>sp|Q6J8G2|POLN_HEVMG Non-structural polyprotein pORF1 OS=Hepatitis 
E virus genotype 3 (isolate Swine/United States/swUS1) 
OX=512345 GN=ORF1 PE=3 SV=1
Length=1708

 Score = 63.7 bits (153),  Expect = 2e-08, Method: Composition-based stats.
 Identities = 25/109 (23%), Positives = 46/109 (42%), Gaps = 13/109 (12%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-AKHCL  297
            +VNA+N   + GGG+  A  +    A      ++I   G         L+ + L  +  +
Sbjct  818  LVNASNPGHRPGGGLCHAFYQRFPEAF--YPTEFIMREG---------LAAYTLTPRPII  866

Query  298  HVVGPNVNKGEDIQLLKSAYEN-FNQHEVLLAPLLSAGIFGADPIHSLR  345
            H V P+    ++ + L++AY    ++      PLL +GI+      S  
Sbjct  867  HAVAPDYRVEQNPKRLEAAYRETCSRRGTAAYPLLGSGIYQVPVSLSFD  915


>sp|Q04610|POLN_HEVMY Non-structural polyprotein pORF1 OS=Hepatitis 
E virus genotype 1 (isolate Human/Myanmar/HEVNE8L) OX=31769 
GN=ORF1 PE=1 SV=1
Length=1693

 Score = 62.5 bits (150),  Expect = 5e-08, Method: Composition-based stats.
 Identities = 22/108 (20%), Positives = 39/108 (36%), Gaps = 11/108 (10%)

Query  239  VVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLH  298
            +VNA+NV  + GGG+  A  +    +    S            G +         +  +H
Sbjct  803  LVNASNVDHRPGGGLCHAFYQRYPASFDAASFVMRD-------GAAAYT---LTPRPIIH  852

Query  299  VVGPNVNKGEDIQLLKSAYEN-FNQHEVLLAPLLSAGIFGADPIHSLR  345
             V P+     + + L++AY    ++       LL  GI+      S  
Sbjct  853  AVAPDYRLEHNPKRLEAAYRETCSRLGTAAYSLLGTGIYQVPIGPSFD  900


>sp|Q9IVZ9|POLN_HEVCT Non-structural polyprotein pORF1 OS=Hepatitis 
E virus genotype 4 (isolate Human/China/T1) OX=509627 
GN=ORF1 PE=3 SV=1
Length=1707

 Score = 62.1 bits (149),  Expect = 6e-08, Method: Composition-based stats.
 Identities = 24/113 (21%), Positives = 47/113 (42%), Gaps = 13/113 (12%)

Query  235  KPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-A  293
            + T +VNA+N   + GGG+  A  +    +      ++I ++G          + + L  
Sbjct  813  ECTWLVNASNPGHRPGGGLCHAFYQRFPESFDPA--EFIMSDG---------FAAYTLTP  861

Query  294  KHCLHVVGPNVNKGEDIQLLKSAYEN-FNQHEVLLAPLLSAGIFGADPIHSLR  345
            +  +H V P+     + + L++AY    ++      PLL  GI+      S  
Sbjct  862  RPIIHAVAPDYRVEHNPKRLEAAYRETCSRRGTAAYPLLGVGIYRVPVGLSFD  914


>sp|Q03495|POLN_HEVME Non-structural polyprotein pORF1 OS=Hepatitis 
E virus genotype 2 (isolate Human/Mexico) OX=31768 GN=ORF1 
PE=3 SV=1
Length=1691

 Score = 62.1 bits (149),  Expect = 7e-08, Method: Composition-based stats.
 Identities = 36/183 (20%), Positives = 65/183 (36%), Gaps = 19/183 (10%)

Query  235  KPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNL-A  293
            + T +VNA+N   + GGG+  A  +   ++       ++  +G         L+ + L  
Sbjct  797  ECTWLVNASNAGHRPGGGLCHAFFQRYPDSFDA--TKFVMRDG---------LAAYTLTP  845

Query  294  KHCLHVVGPNVNKGEDIQLLKSAYEN-FNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVR  352
            +  +H V P+     + + L++AY     +      PLL AGI+      S        R
Sbjct  846  RPIIHAVAPDYRLEHNPKRLEAAYRETCARRGTAAYPLLGAGIYQVPVSLSFDAWERNHR  905

Query  353  TNVYLAVFDKNLYDKLVSSFLEMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDK  412
                   FD+    +L + + E     Q    I E         +     S   R     
Sbjct  906  P------FDELYLTELAARWFESNRPGQPTLNITEDTARAANLALELDSGSEVGRACAGC  959

Query  413  KIK  415
            K++
Sbjct  960  KVE  962


>sp|Q9M041|BH140_ARATH Transcription factor bHLH140 OS=Arabidopsis 
thaliana OX=3702 GN=BHLH140 PE=3 SV=1
Length=912

 Score = 61.0 bits (146),  Expect = 1e-07, Method: Composition-based stats.
 Identities = 31/121 (26%), Positives = 48/121 (40%), Gaps = 24/121 (20%)

Query  223  KNADIVEEAKK--VKPTVVVNAANVYLK-HGGGVAGALNKATNNAMQVESDDYIATNGPL  279
               DI +   +  +   V+ NA N  LK  GGGV  A+ KA    +  E+   +  N  L
Sbjct  527  FVGDITKLRSEGGLHCNVIANATNWRLKPGGGGVNAAIFKAAGPDL--ETATRVRAN-TL  583

Query  280  KVGGSCVLSGHNLA--------KHCLHVVGPNVNKGEDIQL----------LKSAYENFN  321
              G + V+   +           H +HV+GPN+N      L          L+ AY +  
Sbjct  584  LPGKAVVVPLPSTCPLHNAEGITHVIHVLGPNMNPNRPDNLNNDYTKGCKTLREAYTSLF  643

Query  322  Q  322
            +
Sbjct  644  E  644


>sp|P08411|POLN_SFV Polyprotein P1234 OS=Semliki forest virus 
OX=11033 PE=1 SV=2
Length=2432

 Score = 54.0 bits (128),  Expect = 2e-05, Method: Composition-based stats.
 Identities = 44/231 (19%), Positives = 76/231 (33%), Gaps = 40/231 (17%)

Query  216   LTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVESDDYIAT  275
                +  +K ADI           VVNAAN     G GV  A+ K   +A           
Sbjct  1336  CAPSYRVKRADI----ATCTEAAVVNAANARGTVGDGVCRAVAKKWPSAF---------K  1382

Query  276   NGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ---LLKSAYE------NFNQHEVL  326
                  VG    +   +     +H V PN +   + +    L + Y       N      +
Sbjct  1383  GAATPVGTIKTVMCGSYP--VIHAVAPNFSATTEAEGDRELAAVYRAVAAEVNRLSLSSV  1440

Query  327   LAPLLSAGIFGA------DPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQ  380
               PLLS G+F          ++ L   +D    +V +   DK+   K+         ++ 
Sbjct  1441  AIPLLSTGVFSGGRDRLQQSLNHLFTAMDATDADVTIYCRDKSWEKKI---------QEA  1491

Query  381   VEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVE-EVTTTLEETKF  430
             ++ + A     +     T+            +K  +  +  + +  E TKF
Sbjct  1492  IDMRTAVELLNDDVELTTDLVRVHPDSSLVGRKGYSTTDGSLYSYFEGTKF  1542


>sp|Q54PT1|GDAP2_DICDI Protein GDAP2 homolog OS=Dictyostelium 
discoideum OX=44689 GN=gdap2 PE=3 SV=1
Length=568

 Score = 53.3 bits (126),  Expect = 2e-05, Method: Composition-based stats.
 Identities = 40/241 (17%), Positives = 80/241 (33%), Gaps = 42/241 (17%)

Query  209  SFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQVE  268
             F    ++   + +   DI      +    +V + +  L     ++  + K   + M  +
Sbjct  48   QFKIDTEINSRICLWMGDICN----LNTDTIVYSNSKTLTESDTISDKIFKYGGSEMMND  103

Query  269  SDDYIATNGPLKVGGSCVLSGHNLA-KHCLHVVGPNVNK---GEDIQLLKSAYENFN---  321
                I  NG  + G S + SG NL  +  +H V P  N          L S Y +     
Sbjct  104  ----IQKNGECRYGESIITSGGNLPSRFVVHTVCPTYNPKYLSAAENALNSCYRSAFHLS  159

Query  322  ---QHEVLLAPLLSAGIFGADPIHSLRVCVDTVR-----------TNVYLAVF---DKNL  364
               + + +    L +       +    + + T+R             V LA+    D  L
Sbjct  160  MDVKSKSISFSTLHSEKRQFPSVGGCHIALRTIRRFLEKPFSKSFEKVILAINTFEDLRL  219

Query  365  YDKLVSSFL----------EMKSEKQVEQKIAEIPKEEVKPFITESKPSVEQRKQDDKKI  414
            Y++++  +           ++   K V  +  E   E  K  I E+  ++ +  +D    
Sbjct  220  YEQMLPIYFPRNQQELKFSQISLPKDVGDENGEAIVESRKIRIIETPSTIIREPEDYNCF  279

Query  415  K  415
             
Sbjct  280  Y  280


>sp|P26627|R1AB_CVMJD Replicase polyprotein 1ab (Fragment) OS=Murine 
coronavirus (strain defective JHM) OX=11143 GN=rep PE=3 
SV=1
Length=500

 Score = 52.9 bits (125),  Expect = 2e-05, Method: Composition-based stats.
 Identities = 43/195 (22%), Positives = 74/195 (38%), Gaps = 21/195 (11%)

Query  785  DVTKIKPHNSHEGKTFYVLPNDDT-LRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQV  843
            D+ K++     E +T    P D T   V AF+  +      L  + +  +    +K    
Sbjct  323  DIEKVEDSILSELQTELNAPADKTYEDVLAFDAIY---SETLSAFYAVPSDETHFKVC--  377

Query  844  NGLTSIKWADNNCYLATALLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKT  903
             G  S      NC+L + L+ +Q + L+F    +Q  +   +AG    F   ++    K+
Sbjct  378  -GFYSPAIERTNCWLRSTLIVMQSLPLEFKDLGMQKLWLSYKAGYDQCFVDKLVKSAPKS  436

Query  904  VGEL--GDVRETMSYLFQHANLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQF  961
            +     G V +   +        S K   N  C  CG  +  L+G++AV + G       
Sbjct  437  IILPQGGYVADFAYFFLSQ---CSFKVHANWRCLKCGM-ELKLQGLDAVFFYG-------  485

Query  962  KKGVQIPCTCGKQAT  976
               V   C C  +A 
Sbjct  486  -DVVSHMCKCSFKAY  499


>sp|Q008X6|R1AB_WBV24 Replicase polyprotein 1ab OS=White bream 
virus (isolate Blicca bjoerkna L./Germany/DF24/00) OX=766180 
GN=rep PE=1 SV=1
Length=6872

 Score = 52.1 bits (123),  Expect = 8e-05, Method: Composition-based stats.
 Identities = 35/157 (22%), Positives = 61/157 (39%), Gaps = 36/157 (23%)

Query  228   VEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQV-----------ESDDYIATN  276
             +      +   +VNAAN  L +G GV GA+  A +  +++            SD   +  
Sbjct  1657  IGAITTTEGEFIVNAANKQLNNGTGVTGAIFAAHDKELKLTQAIKALPTYGASDKLESHQ  1716

Query  277   GPLKVGGSCVLSGHNL--AKHCLHVVGPNV----NKGEDIQL---------LKSAYENF-  320
               ++     ++  +N   A + LH   P      +K  ++ L         LK  Y+   
Sbjct  1717  HVVQT----IIKNNNSTHAINILHAAAPIKVKCTSKNPEVLLAHNETAQSELKETYKAIV  1772

Query  321   -----NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVR  352
                  N+   +  PL  AG +G  P+ SL   +D +R
Sbjct  1773  DYAQLNKLTHIYLPLFGAGAYGHKPLDSLEAFLDAMR  1809


 Score = 41.7 bits (96),  Expect = 0.11, Method: Composition-based stats.
 Identities = 49/338 (14%), Positives = 90/338 (27%), Gaps = 59/338 (17%)

Query  1318  DTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTN--SRIKAS  1375
                  Y     +        +V          Y+  F        T T+ T   + IKA 
Sbjct  2554  SVFLAYIALLYSFSGHGIFTVVAYFTMLFARYYITSFINFCTSQLTATQVTQWFAAIKAK  2613

Query  1376  MPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALG--  1433
                    +  + +       +  Y+    +S ++ + ++   ++       Y+       
Sbjct  2614  YTGIYESSQDRVLTVNVTGTNVPYIV--KYSTILTVTMYVAFMAFVWTVSTYAAQYTAGE  2671

Query  1434  ---------VLMSNLGMPSYCTGYREGYLNSTNVTIATYCT--GSIPCSV-CLSGLDSLD  1481
                      V    L +          Y  ++   +   C    SI C +          
Sbjct  2672  RYDRPPYQTVFQKTLNVLGLTETVTYYYPYAS---LNEACAASTSILCRLGSPFNFHYPS  2728

Query  1482  TYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFI  1541
              Y  + T+Q   SS  W                LF  F     L  ++            
Sbjct  2729  DYTQVRTVQTDTSSPFW----------------LFIIFMPPSFLFIVLPWLILCTITP--  2770

Query  1542  SNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRAT  1601
                      +++ Q+   S ++   I F   Y   K   H    C   TC+     +R+ 
Sbjct  2771  --------TVSIAQLLVPSIILNATIVF--IYIRRKFTGHC---CGPHTCIKHADISRSL  2817

Query  1602  RVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDT  1639
             +   T+ +                 C  HNW C N D+
Sbjct  2818  QFRPTSQIQHSLTFC-------GTLCAKHNWYCNNSDS  2848


>sp|Q008X5|R1A_WBV24 Replicase polyprotein 1a OS=White bream virus 
(isolate Blicca bjoerkna L./Germany/DF24/00) OX=766180 
GN=1a PE=1 SV=1
Length=4555

 Score = 51.7 bits (122),  Expect = 8e-05, Method: Composition-based stats.
 Identities = 35/157 (22%), Positives = 61/157 (39%), Gaps = 36/157 (23%)

Query  228   VEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATNNAMQV-----------ESDDYIATN  276
             +      +   +VNAAN  L +G GV GA+  A +  +++            SD   +  
Sbjct  1657  IGAITTTEGEFIVNAANKQLNNGTGVTGAIFAAHDKELKLTQAIKALPTYGASDKLESHQ  1716

Query  277   GPLKVGGSCVLSGHNL--AKHCLHVVGPNV----NKGEDIQL---------LKSAYENF-  320
               ++     ++  +N   A + LH   P      +K  ++ L         LK  Y+   
Sbjct  1717  HVVQT----IIKNNNSTHAINILHAAAPIKVKCTSKNPEVLLAHNETAQSELKETYKAIV  1772

Query  321   -----NQHEVLLAPLLSAGIFGADPIHSLRVCVDTVR  352
                  N+   +  PL  AG +G  P+ SL   +D +R
Sbjct  1773  DYAQLNKLTHIYLPLFGAGAYGHKPLDSLEAFLDAMR  1809


 Score = 41.7 bits (96),  Expect = 0.11, Method: Composition-based stats.
 Identities = 49/338 (14%), Positives = 90/338 (27%), Gaps = 59/338 (17%)

Query  1318  DTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTN--SRIKAS  1375
                  Y     +        +V          Y+  F        T T+ T   + IKA 
Sbjct  2554  SVFLAYIALLYSFSGHGIFTVVAYFTMLFARYYITSFINFCTSQLTATQVTQWFAAIKAK  2613

Query  1376  MPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALG--  1433
                    +  + +       +  Y+    +S ++ + ++   ++       Y+       
Sbjct  2614  YTGIYESSQDRVLTVNVTGTNVPYIV--KYSTILTVTMYVAFMAFVWTVSTYAAQYTAGE  2671

Query  1434  ---------VLMSNLGMPSYCTGYREGYLNSTNVTIATYCT--GSIPCSV-CLSGLDSLD  1481
                      V    L +          Y  ++   +   C    SI C +          
Sbjct  2672  RYDRPPYQTVFQKTLNVLGLTETVTYYYPYAS---LNEACAASTSILCRLGSPFNFHYPS  2728

Query  1482  TYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFI  1541
              Y  + T+Q   SS  W                LF  F     L  ++            
Sbjct  2729  DYTQVRTVQTDTSSPFW----------------LFIIFMPPSFLFIVLPWLILCTITP--  2770

Query  1542  SNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYKRNRAT  1601
                      +++ Q+   S ++   I F   Y   K   H    C   TC+     +R+ 
Sbjct  2771  --------TVSIAQLLVPSIILNATIVF--IYIRRKFTGHC---CGPHTCIKHADISRSL  2817

Query  1602  RVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDT  1639
             +   T+ +                 C  HNW C N D+
Sbjct  2818  QFRPTSQIQHSLTFC-------GTLCAKHNWYCNNSDS  2848


>sp|Q5A1V3|POA1_CANAL ADP-ribose 1''-phosphate phosphatase OS=Candida 
albicans (strain SC5314 / ATCC MYA-2876) OX=237561 GN=POA1 
PE=3 SV=2
Length=156

 Score = 40.9 bits (94),  Expect = 0.032, Method: Composition-based stats.
 Identities = 31/162 (19%), Positives = 54/162 (33%), Gaps = 30/162 (19%)

Query  220  VYIKNADIVEEAKKVKPTVVV-NAANVYLKHGGGVAGALNKATNNAMQVESDDYIATNGP  278
            +     D+   A      V++ +A N +   GGG+A A+ +        E   Y   N  
Sbjct  2    IQYIKGDLFTHAIPAGKKVILAHACNTHGSWGGGIA-AVFRKKFPKSNNEYSQYCHKNSN  60

Query  279  LKVGGSCVLSGHNL---------------AKHCLHVVGPNVNKGEDIQLLKSA--YENFN  321
            L +G S ++                     +  +H       K     L +    Y+   
Sbjct  61   L-LGTSFIIESDQPNILIACLFTSDFNQTPEQIVH-----FTKQSIADLARKVSDYKEVE  114

Query  322  QHE---VLLAPLLSAGIFGADPI--HSLRVCVDTVRTNVYLA  358
            + +    +  P ++AGIFG       S     D +  NVY+ 
Sbjct  115  KCDGKVAINMPKINAGIFGVPWEDTESALQEFDNLHFNVYVI  156


>sp|Q9Z1Q1|NEST_MESAU Nestin (Fragments) OS=Mesocricetus auratus 
OX=10036 GN=NES PE=1 SV=2
Length=1818

 Score = 41.7 bits (96),  Expect = 0.086, Method: Composition-based stats.
 Identities = 34/184 (18%), Positives = 69/184 (38%), Gaps = 17/184 (9%)

Query  26   ELDERIDKVLNEKCSAYTVELGTEVNEFACVVADAVIKTLQPVSELLTPLGIDLDEWSMA  85
            E D  ++K   E       E       F  ++     ++L    E        L++    
Sbjct  520  ETDRPLEKENGEPLKPVEEEDQL----FETLIEKEGQESLSSPEEEDQETDRPLEKEEDQ  575

Query  86   TY-YLFDESGEFKLASHMYCSFYPPDEDEEEGD--CEEEEFEPSTQYEYGTEDDYQGKPL  142
                L ++ G+  L+S        P+E+++E D   E+E  EP    E   +        
Sbjct  576  LVERLVEKEGQESLSS--------PEEEDQETDRPLEKENGEPLKPVEEEDQLFETLIEK  627

Query  143  EFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQTTTI--QTIVEVQPQLEMELTP  200
            E   + ++ + E+++ +  L+ +  Q V +    E  ++ +   +   E    LE E   
Sbjct  628  EGQESLSSPEEEDQETDRPLEKEEDQLVERLVEKEGQESLSSPEEEDQETDRPLEKEEDQ  687

Query  201  VVQT  204
            +V+T
Sbjct  688  LVET  691


 Score = 39.0 bits (89),  Expect = 0.65, Method: Composition-based stats.
 Identities = 23/131 (18%), Positives = 52/131 (40%), Gaps = 13/131 (10%)

Query  89   LFDESGEFKLASHMYCSFYPPDEDEEEGD--CEEEEFEPSTQYEYGTEDDYQGKPLEFGA  146
            L ++ G+  L+S        P+E+++E D   E+E  EP    E   +        E   
Sbjct  502  LIEKEGQESLSS--------PEEEDQETDRPLEKENGEPLKPVEEEDQLFETLIEKEGQE  553

Query  147  TSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMEL---TPVVQ  203
            + ++ + E+++ +  L+ +  Q V +    E  ++ +     + +    +E     P+  
Sbjct  554  SLSSPEEEDQETDRPLEKEEDQLVERLVEKEGQESLSSPEEEDQETDRPLEKENGEPLKP  613

Query  204  TIEVNSFSGYL  214
              E +     L
Sbjct  614  VEEEDQLFETL  624


>sp|Q8IRB5|CLSPN_DROME Claspin OS=Drosophila melanogaster OX=7227 
GN=Claspin PE=1 SV=1
Length=1465

 Score = 40.9 bits (94),  Expect = 0.16, Method: Composition-based stats.
 Identities = 20/89 (22%), Positives = 37/89 (42%), Gaps = 6/89 (7%)

Query  111  EDEEEGDCEEEEFEPSTQYEYGTEDDYQGKPL------EFGATSAALQPEEEQEEDWLDD  164
            EDEEEG   +EE+EP  +  Y      + + +             A + + + +ED  D+
Sbjct  861  EDEEEGMDVDEEYEPEDKPGYAEVTINEDEEIIDKVDSTAEDDGDAEENKNDADEDPEDN  920

Query  165  DSQQTVGQQDGSEDNQTTTIQTIVEVQPQ  193
              + +  +++ SE  Q        E Q +
Sbjct  921  PVEDSEDEKNDSESEQECEANPEPETQTR  949


>sp|F1QGD2|ZDH24_DANRE Probable palmitoyltransferase ZDHHC24 OS=Danio 
rerio OX=7955 GN=zdhhc24 PE=2 SV=1
Length=295

 Score = 40.2 bits (92),  Expect = 0.17, Method: Composition-based stats.
 Identities = 25/183 (14%), Positives = 57/183 (31%), Gaps = 9/183 (5%)

Query  1402  SPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIA  1461
             S  ++ L     +F+L ++   + ++      +    LG  +   G+R  Y  +      
Sbjct  55    STIWTGLHLFAQYFMLGNITWNASLFVKTNPSIRGVFLGGDTLGQGWRYCY--NCETHTP  112

Query  1462  TYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFY  1521
               C+    C+VC+   D              +     +   F     +  A +L+     
Sbjct  113   PRCSHCYDCNVCVLRRDH-----HCVFFGQCVG--FHNYRYFLTCLLFMWAGLLYAVVMN  165

Query  1522  VLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVH  1581
                   I++   ++ +V  +   W+M +   +   A   A +               + H
Sbjct  166   AEVFIFILKEGVTFHSVMLLLVPWIMLVSGQVTTRAFAFAFIADTCVVGFLLVAAFLFFH  225

Query  1582  VVD  1584
             V  
Sbjct  226   VAL  228


>sp|Q67ES1|TR113_RAT Taste receptor type 2 member 113 OS=Rattus 
norvegicus OX=10116 GN=Tas2r113 PE=3 SV=1
Length=309

 Score = 39.8 bits (91),  Expect = 0.24, Method: Composition-based stats.
 Identities = 25/215 (12%), Positives = 69/215 (32%), Gaps = 31/215 (14%)

Query  1393  LEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGY  1452
             L    ++++    S +  I+    +  + L  L++    + VL      P+     +   
Sbjct  29    LMTCIDWVRRRKISLVDQILTALAITRITLILLVFIDWWVSVLF-----PALHETGKILR  83

Query  1453  LNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLA  1512
             +   + T+  +C   +  S+ +     + ++ S+  +                  +  + 
Sbjct  84    MYFISWTVINHCNLWLTASLSIIYFLKIASFSSIIFL------------YLKFRVKNVVF  131

Query  1513  YILFTRFFYVLGLAAIMQLFFSYFAVHFISNSW-------------LMWLIINLVQMAPI  1559
               L    F++    AI+ ++F         N                +     +    P 
Sbjct  132   VTLLVSLFFLFINTAIVNVYFDVCFDGVQRNVSQVSRLYNHEQICKFLSFTNPMFAFIPF  191

Query  1560  -SAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMM  1593
              ++M   ++   S +   K+  H  +GC   + ++
Sbjct  192   VTSMATFFLLIFSLWRHLKNMKHNAEGCRDVSTIV  226


>sp|P46565|SRG8_CAEEL Serpentine receptor class gamma-8 OS=Caenorhabditis 
elegans OX=6239 GN=srg-8 PE=3 SV=1
Length=316

 Score = 39.4 bits (90),  Expect = 0.29, Method: Composition-based stats.
 Identities = 28/206 (14%), Positives = 64/206 (31%), Gaps = 11/206 (5%)

Query  1392  CLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREG  1451
              L +   Y+      K      +F++ S+    L+     +  L   + +P  C    + 
Sbjct  39    FLYSRILYVVWVQHKKSYGYHPFFMVYSMVGLILVLLDIFITRL--FVYVPQLCLPAAQF  96

Query  1452  YLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFL  1511
             ++++  +    Y   +            L T      +        W +    ++    +
Sbjct  97    FISNPFLMELYYPLLNYLHCAQPFIQIFLTTNRMSSVLWPVDHEKFWKINFSRILILNLI  156

Query  1512  AYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFAS  1571
             A      FF++       ++   YF   +I+   ++      + +  I + V M     +
Sbjct  157   A-----PFFFIWNTIISKKVLIFYFGGFYINYLKIIPWASMSLFLFIIRSAVVMITVVTT  211

Query  1572  FYYVWKSYVHVVDGCNSST---CMMC  1594
                 WK   H+ +    S    C  C
Sbjct  212   SITFWKM-SHMKNRLKKSEGTLCKAC  236


>sp|Q03F26|TIG_PEDPA Trigger factor OS=Pediococcus pentosaceus 
(strain ATCC 25745 / CCUG 21536 / LMG 10740 / 183-1w) OX=278197 
GN=tig PE=3 SV=1
Length=435

 Score = 39.8 bits (91),  Expect = 0.29, Method: Composition-based stats.
 Identities = 25/196 (13%), Positives = 61/196 (31%), Gaps = 15/196 (8%)

Query  4    KVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADAVIK  63
            KV   +    E+          ++DE +D + + K          ++   +       ++
Sbjct  236  KVKIHEIKTKELPELDD-EFAKDVDEDVDSLEDLKVKTKEEIKSRKIQAASDAKETEAVQ  294

Query  64   TLQPVSELLTPLGIDLDEWSMATY--YLFDESGEFKLASHMYCSFYPPDEDEEEGDCEEE  121
                 +E+       L+E        YL +   +  ++  MY       ED+        
Sbjct  295  AAVDNAEIAEIPEAMLNEDVDRQVNQYLANMQ-QQGISPEMYFQLTGSSEDQLRDQLR--  351

Query  122  EFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQ-TVGQQDGSEDNQ  180
                    E           LE    +  + P +++    + D ++Q  + ++       
Sbjct  352  --------EGAENRVKTTLVLEAIVEAEKIDPSDDEVAAEIKDLAEQYGMEEKAVRSALS  403

Query  181  TTTIQTIVEVQPQLEM  196
               I+  V ++  +E+
Sbjct  404  EDMIKHDVAIKSAVEL  419


>sp|Q864G6|MSHR_ALOSE Melanocyte-stimulating hormone receptor 
OS=Alouatta seniculus OX=9503 GN=MC1R PE=3 SV=1
Length=317

 Score = 39.4 bits (90),  Expect = 0.31, Method: Composition-based stats.
 Identities = 50/281 (18%), Positives = 92/281 (33%), Gaps = 23/281 (8%)

Query  1367  STNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLI  1426
             +    ++ S+P  +  +         +       K+ N    +   I  L LS  L S  
Sbjct  31    TGAPCLEVSIPDWLFLSLGLVSLVQNVLVVAAIAKNRNLHSPMYCFICCLALSDLLVSGS  90

Query  1427  YSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSL  1486
                    +LM   G  +      +   N+ +V     C+ S+ CS+C  G  +LD Y S+
Sbjct  91    NMLETAVILMLEAGALATRASVVQQLQNTIDVLT---CS-SMLCSLCFLGAIALDRYVSI  146

Query  1487  ETIQITISSFKWDLTAFGLVAEW---------FLAY------ILFTRFFYVLGLAAIMQL  1531
                    S          + A W         F+AY      +L    F++  L  +  L
Sbjct  147   FYALRYHSIVTLPRARRAIAATWVASVLSSTLFIAYCDHAAVLLCLVVFFLAMLVLMAVL  206

Query  1532  FFSYFA---VHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWK-SYVHVVDGCN  1587
             +    A    H    + L    +   Q   +     + I    F+  W   ++H++    
Sbjct  207   YVHMLARACQHAQGITRLHKRQLPAHQGFGLRGAATLTILLGIFFLCWGPFFLHLMLVVL  266

Query  1588  SSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCK  1628
                 + C    +  +V  T I+        +YA   +  C+
Sbjct  267   CPQHLTCSCIFKNFKVFLTLIICNTIIDPLIYAFRSQELCR  307


>sp|P29402|CALX1_ARATH Calnexin homolog 1 OS=Arabidopsis thaliana 
OX=3702 GN=CNX1 PE=1 SV=1
Length=530

 Score = 39.8 bits (91),  Expect = 0.33, Method: Composition-based stats.
 Identities = 18/118 (15%), Positives = 38/118 (32%), Gaps = 16/118 (14%)

Query  96   FKLASHMYCSFYPPDEDEEEGDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEE  155
                  +  +   PD ++++ +  +E  +         ED  +  P+E          E 
Sbjct  211  EDFEPALIPAKTIPDPEDKKPEDWDERAKIPDPNAVKPEDWDEDAPMEIED------EEA  264

Query  156  EQEEDWLDDDSQQTVGQQ---DGSEDNQTT-------TIQTIVEVQPQLEMELTPVVQ  203
            E+ E WLDD+ ++    +       D++               E  P       P+ +
Sbjct  265  EKPEGWLDDEPEEVDDPEATKPEDWDDEEDGMWEAPKIDNPKCEAAPGCGEWKRPMKR  322


>sp|Q03QN6|TIG_LEVBA Trigger factor OS=Levilactobacillus brevis 
(strain ATCC 367 / BCRC 12310 / CIP 105137 / JCM 1170 / LMG 
11437 / NCIMB 947 / NCTC 947) OX=387344 GN=tig PE=3 SV=1
Length=436

 Score = 39.4 bits (90),  Expect = 0.36, Method: Composition-based stats.
 Identities = 26/210 (12%), Positives = 62/210 (30%), Gaps = 15/210 (7%)

Query  1    APTKVTFGDDTVIEVQGYKSVNITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADA  60
            A  KVT  +    ++          ++DE +D +   +          +V      + D 
Sbjct  233  ATFKVTIHEVKEKQLPELDD-EFAKDVDEDVDSLEELEAKTKDRLKEQKVTAAHDAIEDE  291

Query  61   VIKTLQPVSELLTPLGIDLDEWSMATY--YLFDESGEFKLASHMYCSFYPPDEDEEEGDC  118
             I      +E+       L +        YL +   +  +   MY       ED+     
Sbjct  292  AISEAVDNAEIAAVPEAMLKDDIDRQMDQYLANMQ-QQGIEPKMYFQLTGTTEDDLRKQF  350

Query  119  EEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDD-DSQQTVGQQDGSE  177
             +             +       LE    +  ++P E++    + D  SQ  + +     
Sbjct  351  AD----------GAEKRIKTNLVLEAVVEAEKIEPSEDEVAAEVKDLASQYGMEESAVRS  400

Query  178  DNQTTTIQTIVEVQPQLEMELTPVVQTIEV  207
                  ++  + ++  +++      Q  + 
Sbjct  401  ALSDDMLKHDIAIKSAVDLIADSAKQDKKK  430


>sp|Q12019|MDN1_YEAST Midasin OS=Saccharomyces cerevisiae (strain 
ATCC 204508 / S288c) OX=559292 GN=MDN1 PE=1 SV=1
Length=4910

 Score = 39.4 bits (90),  Expect = 0.47, Method: Composition-based stats.
 Identities = 23/88 (26%), Positives = 41/88 (47%), Gaps = 1/88 (1%)

Query  108   PPDEDEEEGDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQ  167
             P D ++EE   E+EE +  +  E   E+D  G   + G T  AL  EE  EED +D  + 
Sbjct  4279  PDDLNKEEVGNEDEEVKQESGIESDNENDEPGPEEDAGETETALDEEEGAEED-VDMTND  4337

Query  168   QTVGQQDGSEDNQTTTIQTIVEVQPQLE  195
             +    ++   + Q  + +  ++    +E
Sbjct  4338  EGKEDEENGPEEQAMSDEEELKQDAAME  4365


>sp|Q9V4C8|HCF_DROME Host cell factor OS=Drosophila melanogaster 
OX=7227 GN=Hcf PE=1 SV=2
Length=1500

 Score = 39.4 bits (90),  Expect = 0.49, Method: Composition-based stats.
 Identities = 56/314 (18%), Positives = 106/314 (34%), Gaps = 61/314 (19%)

Query  1085  DNSYFTEQPIDLVPN--------------QPYPNASFDNFKFV------CDNIKFADDLN  1124
                YF ++P+ L PN              Q  P  +F   K          N   A  + 
Sbjct  687   GKQYFIQKPLTLAPNVQLQFVKTSGGMTVQTLPKVNFTASKGTPPHGISIANPHLASGIT  746

Query  1125  QLTGYKKPASRELKVTFFPDLNGDVVAIDYKHYTPSFKKGAKLLHKPIVWHVNNATNKAT  1184
             Q+ G   P S+  K    P ++G+V+    K  +P    G KL+ K      +N      
Sbjct  747   QIQGSTVPGSQIQK----PIVSGNVL----KLVSPHTMAGGKLIMK-----NSNILQMGK  793

Query  1185  YKPNTWCIRCLW----------------------STKPVETSNSFDVLKSEDAQGMDNLA  1222
               PN    +  +                      + + V TS          A G + ++
Sbjct  794   VTPNVMGGKPAFVITNKQGTPLGNQQIIIVTTGGNVRSVPTSTVMTS-AGGSASGTNIVS  852

Query  1223  CEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLM---A  1279
               +    +   ++  + QK ++  N    +++ +I    A++S+   ++   T +    A
Sbjct  853   IVNSTSTTPSPLQALSGQKTLIS-NQSGVKMLRNISSVQASSSMAFGQKQSGTPIHQKTA  911

Query  1280  AYVDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIV  1339
              Y+   ++T+   N      G K +   G ++ NS    T  +  K F+     +    V
Sbjct  912   LYIGGKAVTVMSTNTSMAASGNKVMVLPGTSSNNSPATTTALSARKSFVFNAGGSPRT-V  970

Query  1340  TRCLNRVCTNYMPY  1353
             T     +    +P 
Sbjct  971   TLATKSINAKSIPQ  984


>sp|Q33568|CYB_TRYBO Cytochrome b OS=Trypanoplasma borreli OX=5710 
GN=MT-CYB PE=2 SV=2
Length=372

 Score = 38.2 bits (87),  Expect = 0.68, Method: Composition-based stats.
 Identities = 42/299 (14%), Positives = 87/299 (29%), Gaps = 28/299 (9%)

Query  1315  VPWDTIANYAKPFLNKVVSTTTNIVTRCLN-RVCTNYMP--YFFTLLLQL---CTFTRST  1368
             +  D    Y   F   V+     +V  CL+       +P  + FTLL+ L     F   +
Sbjct  22    LSGDLFRVYGLGFNLGVMIALQILVGICLSWFFFRCIIPQNWIFTLLIHLEFDLGFIIRS  81

Query  1369  NSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYS  1428
                I  S+   +    +  V   CL    + L       +   I+    +   L     S
Sbjct  82    LHIIFTSLLYFLLYIHIIKVIFLCLIFDSSMLVWFFGFLIFIFILIIAFIGYTLPCTSMS  141

Query  1429  TAALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLET  1488
                L V  + L        Y   ++  +   I  +    +           L    +   
Sbjct  142   YWGLTVFSNILATIPLIGIYICQWIWCSEF-INDFTLLKLHSIHIFLPFVLLFLIGAHFF  200

Query  1489  IQITISSFKWDLTAFGLVAEWFLAYILFTR--FFYVLGLAAIMQLFFS-YFAVHFISNSW  1545
             +     S    L  F    E F  ++L+     F ++ +   +  +   Y+   F   SW
Sbjct  201   VLHYFLSSDGLLDRFPFYYERFFFFLLYYLRDLFLIINILCFLIYYICIYWFFVFHEESW  260

Query  1546  LM-------------WLIINLVQMA-----PISAMVRMYIFFASFYYVWKSYVHVVDGC  1586
             ++             W  ++              +  +++   + +    + + +   C
Sbjct  261   IIVDTLKTSDKILPEWFFLSFFGFLKSVPDKFMGLFLLFVLCFALFLFILNCILIFIYC  319


>sp|A5E287|POA1_LODEL ADP-ribose 1''-phosphate phosphatase OS=Lodderomyces 
elongisporus (strain ATCC 11503 / CBS 2605 / JCM 
1781 / NBRC 1676 / NRRL YB-4239) OX=379508 GN=POA1 PE=3 SV=1
Length=160

 Score = 36.7 bits (83),  Expect = 0.78, Method: Composition-based stats.
 Identities = 30/165 (18%), Positives = 59/165 (36%), Gaps = 34/165 (21%)

Query  220  VYIKNAD-IVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKAT-----------------  261
            V     D     A   K  V+ +A N     GGG+A    +                   
Sbjct  3    VKYIRGDLFTHSAPTGKSIVLAHACNTGGSWGGGIAAVFARKYPKANRQYSEYCHKNSHL  62

Query  262  -NNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENF  320
               ++ +++DDY  +   +        S  N +   +          + +Q L    ++ 
Sbjct  63   LGTSLLLKADDYDKSKAYIA---CLFTSDFNQSPEQI-----VKYTDQSLQELAKQLKSL  114

Query  321  -----NQHEVLLAPLLSAGIFGADPIHSLRVC--VDTVRTNVYLA  358
                 N ++V+  P +++GIFG    ++  V   +D++  NVY+ 
Sbjct  115  PIETQNGNQVVNMPKINSGIFGVPWENTEAVLDKLDSLDFNVYVI  159


>sp|A5N5W0|PANB_CLOK5 3-methyl-2-oxobutanoate hydroxymethyltransferase 
OS=Clostridium kluyveri (strain ATCC 8527 / DSM 555 
/ NCIMB 10680) OX=431943 GN=panB PE=3 SV=1
Length=280

 Score = 37.9 bits (86),  Expect = 0.81, Method: Composition-based stats.
 Identities = 28/173 (16%), Positives = 64/173 (37%), Gaps = 11/173 (6%)

Query  252  GVAGALNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQ  311
            G+AGA+      ++  +    +    P+ +G   +          ++V G    +G+D  
Sbjct  108  GLAGAVKLEGGVSVYEQVKAIVKAQIPV-MGHIGLTP------QSVNVFGGFKVQGKDES  160

Query  312  LLKSAYENFNQHEVL-LAPLLSAGI-FGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLV  369
              K+  E+  + E      ++  GI +    I +  V + T+          + L  + +
Sbjct  161  KAKNIIEDAKRLEEAGAFSIVLEGIPYKLAKIITETVSIPTIGIGAGKYCDGQILVYQDM  220

Query  370  SSFLEMKSEKQVEQ--KIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEE  420
                     K V+      E+ ++  K +ITE K  +   ++   K+   + +
Sbjct  221  LGLFSDFKPKFVKSYGNAGEVIRKAFKDYITEVKEGIFPDEEYSFKMDDSIID  273


>sp|Q58990|Y1595_METJA UPF0104 membrane protein MJ1595 OS=Methanocaldococcus 
jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 
/ JCM 10045 / NBRC 100440) OX=243232 GN=MJ1595 PE=3 SV=1
Length=336

 Score = 37.9 bits (86),  Expect = 0.88, Method: Composition-based stats.
 Identities = 34/268 (13%), Positives = 77/268 (29%), Gaps = 26/268 (10%)

Query  1311  AVNSVPWDTIANYAKPFLNKVVSTTTNIVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNS  1370
              +N+ P   I  +    L  V+ +        +     N+   F  +L+ L  F  +   
Sbjct  36    LINTNPEYVILAFILQILVSVILSARWKFIIKILGYSANFKNIFLLVLMGL--FINNITP  93

Query  1371  RIKASMPTTIAKNTVKSVGKFCLEASFNYLKSPNFSKLINIIIWFLLLSVCLGSLIYST-  1429
              ++       A      + K           +    ++++  I+       +G  + +  
Sbjct  94    SMRGGGEAFRAY----YLSKLEEIPKGLAFSTVVVERVLDTAIFLFFTLFVIGYFVVTGF  149

Query  1430  -AALGVLMSNLGMPSYCTGYREGYLNSTNVTIATYCTGSIPCSVCLSGLDSLDTYPSLET  1488
                  +++S + + S          N   +           C  C    D      S+E 
Sbjct  150   KYLEYLILSWIFLFSLTAIIIYLIANKGLLIKTVTKISKFICKYCSYNYDETKILQSIEE  209

Query  1489  IQITISSFKWDLTAFGLVAEWF------------------LAYILFTRFFYVLGLAAIMQ  1530
                ++  FK       +VA +                   L+Y++       + L  ++ 
Sbjct  210   FYNSMKFFKNKRGWEVVVAIFLSVMRYIFDILKLWLLFLSLSYVVSVICVSAVYLITLLS  269

Query  1531  LFFSYFAVHFISNSWLMWLIINLVQMAP  1558
                S     F +   +M L  +   + P
Sbjct  270   GVLSITPSGFGTADTVMILSFSAFNIPP  297


>sp|Q5AS82|GMT1_EMENI GDP-mannose transporter 1 OS=Emericella 
nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 
/ M139) OX=227321 GN=gmt1 PE=3 SV=2
Length=379

 Score = 37.5 bits (85),  Expect = 1.4, Method: Composition-based stats.
 Identities = 21/146 (14%), Positives = 48/146 (33%), Gaps = 23/146 (16%)

Query  1452  YLNSTNVTIATY--CTGSIPC----SVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGL  1505
             Y+ S++  +  +  C  S+ C     +C           +   I  T   F  D      
Sbjct  64    YVLSSDFNLNFFLLCVQSLVCIIAIQLC----------KACGLI--TYRDFNLDEARKWF  111

Query  1506  VAEWFLAYILFTRFFYVLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRM  1565
                  L  +++T    +  L+  +   F    +  I+   ++W   ++  +     +   
Sbjct  112   PITLLLIGMIYTGSKALQFLSIPVYTIFKNLTIILIAYGEVLWFGGSVTNL----TLFSF  167

Query  1566  -YIFFASFYYVWKSYVHVVDGCNSST  1590
               + F+S    W    H ++    +T
Sbjct  168   GLMVFSSIIAAWADIKHAIESSGDAT  193


>sp|Q6CRE9|FYV8_KLULA Protein FYV8 OS=Kluyveromyces lactis (strain 
ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 
/ WM37) OX=284590 GN=FYV8 PE=3 SV=2
Length=806

 Score = 37.5 bits (85),  Expect = 1.6, Method: Composition-based stats.
 Identities = 24/146 (16%), Positives = 53/146 (36%), Gaps = 8/146 (5%)

Query  57   VADAVIKTLQPVSELLTPLGIDLDEWSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEG  116
            V D +   +  +S+ +T    D++  S       ++  E K++   Y + Y  DED ++ 
Sbjct  86   VNDDLDSLMHQISQEMTAKDEDVNNTSDPED---EDDAELKVSKTGYFAAYVNDEDTDDR  142

Query  117  DCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGS  176
            +  + + E +   E  TE +         A + ++   E   E       +    Q    
Sbjct  143  ESVKSDIESAKLAESATEINKTD-----NAKAESVSEVESVAESVKRAKVEVEPVQIVNV  197

Query  177  EDNQTTTIQTIVEVQPQLEMELTPVV  202
             +       +  E   + ++E+ P  
Sbjct  198  GEESFKGDDSEAESVKRADVEVEPFK  223


>sp|Q8Y4A9|PRMC_LISMO Release factor glutamine methyltransferase 
OS=Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 
/ EGD-e) OX=169963 GN=prmC PE=3 SV=1
Length=283

 Score = 36.7 bits (83),  Expect = 1.8, Method: Composition-based stats.
 Identities = 32/165 (19%), Positives = 60/165 (36%), Gaps = 17/165 (10%)

Query  415  KACVEEVTTTLEETKFLTENLLLYIDINGNLHPDS--------ATLVSDIDITFLKKDAP  466
            K   +     L ET+       L+++I+  L P+         A  ++   + ++ K AP
Sbjct  18   KGLDQNAAEILLETRMGLSRSELWMEISRELEPNHEKQFEEDFARYLAGEPVQYILKTAP  77

Query  467  YIVGDVVQEGVLTAVVIPTKKAGGTTEMLAKALRKVPTDNYITTYPGQGLNGYTVEEAKT  526
            +   D +       V+IP  +           L+K P  N +    G G+    +++A  
Sbjct  78   FYGYDFLVTED---VLIPRPETEELVACAEAFLKKHPVKNVLDVCTGSGIIAIALKKAFP  134

Query  527  VLKKCKSAFYILPSIISNEKQEIL-----GTVSWNLREMLAHAEE  566
             +    S     P+++   K  +L       V  +L E     EE
Sbjct  135  EISVTASDISA-PALVVARKNALLLNADVRFVETDLLEAFKQNEE  178


>sp|Q9Y2T5|GPR52_HUMAN G-protein coupled receptor 52 OS=Homo sapiens 
OX=9606 GN=GPR52 PE=1 SV=2
Length=361

 Score = 36.7 bits (83),  Expect = 2.4, Method: Composition-based stats.
 Identities = 21/133 (16%), Positives = 48/133 (36%), Gaps = 17/133 (13%)

Query  1467  SIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYVLGLA  1526
             S+ C  C+    S+D Y ++                  ++  W  + ++F   F+  G  
Sbjct  128   SMACLACI----SVDRYLAITKPLSYNQLVTPCRLRICIILIWIYSCLIFLPSFFGWGKP  183

Query  1527  AIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGC  1586
                   F + A  ++++++    I+ L+             +  + + V  +Y H+   C
Sbjct  184   GYHGDIFEWCATSWLTSAYFTGFIVCLL-------------YAPAAFVVCFTYFHIFKIC  230

Query  1587  NSSTCMMCYKRNR  1599
                T  +  +R R
Sbjct  231   RQHTKEINDRRAR  243


>sp|A0A452G813|CSCL1_CAPHI CSC1-like protein 1 OS=Capra hircus 
OX=9925 GN=TMEM63A PE=1 SV=2
Length=803

 Score = 37.1 bits (84),  Expect = 2.5, Method: Composition-based stats.
 Identities = 40/290 (14%), Positives = 92/290 (32%), Gaps = 49/290 (17%)

Query  1338  IVTRCLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASF  1397
              VT+ ++ +    +  FF  LL              A +PT +  +T+            
Sbjct  449   NVTKPIHALNDPIISQFFPTLLLW---------SFSALLPTIVCYSTL---------LES  490

Query  1398  NYLKSPNFSKLINIIIWFLLLSVCLGS---LIYSTAALGVLM----SNLGMPSYCTGYRE  1450
             ++ KS     ++  +  FL+  V +     L         L     S   +   C    +
Sbjct  491   HWTKSGENRIMMTKVYIFLIFMVLILPSLGLTSLDFFFRWLFDKTSSEASIRLECVFLPD  550

Query  1451  GYLNSTNVTIAT-YCTGSI----PCSVCLSGLDSLDTYPSLE---TIQITISSFKWDLTA  1502
                   N  IA+ +    +       + L     +    + +     Q     +++    
Sbjct  551   QGAFFVNYVIASAFIGNGMELLRLPGLILYTFRMVMAKTAADRRNVKQHQAFEYEFGAMY  610

Query  1503  FGLVAEW--FLAYILFTRFFYVLGLAAIM--------QLFFSYFA------VHFISNSWL  1546
               ++  +   +AY +        GL  I+         L+F+Y        +HF + +  
Sbjct  611   AWMLCVFTVIMAYSITCPIIVPFGLIYILLKHMVDRHNLYFAYLPAKLEKRIHFAAVNQA  670

Query  1547  MWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHVVDGCNSSTCMMCYK  1596
             +   I  +      + +R+ +      + +   +  +  C + TC  C++
Sbjct  671   LAAPILCLFWLYFFSFLRLGLKAPLTLFTFLVLLLTILVCLAYTCFGCFR  720


>sp|Q6YQV9|EFG_ONYPE Elongation factor G OS=Onion yellows phytoplasma 
(strain OY-M) OX=262768 GN=fusA PE=3 SV=1
Length=688

 Score = 36.7 bits (83),  Expect = 2.9, Method: Composition-based stats.
 Identities = 32/141 (23%), Positives = 54/141 (38%), Gaps = 10/141 (7%)

Query  480  AVVIPTKKAG---GTTEMLAKALR-KVPTDNYITTYPGQGL-NGYTVEEAKTVLKKCKSA  534
            AV +   +AG    T  +  +A   KVP   ++      G    Y +E  K  L    SA
Sbjct  102  AVTVIDAQAGVEPQTETVWRQASEYKVPRVIFVNKMDKVGADFAYAIETLKQRLGVHASA  161

Query  535  FYILPSIISNEKQEILGTVSWNLREMLAHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQ  594
                P    N+   I+  V  N  E    + ET K++P+  + ++I  T + +       
Sbjct  162  IQ-WPIGSENDFNGIIDLVEMNAFEYDNTSPETGKVVPIPSDLESITQTKRNELIET---  217

Query  595  EGVVDYGARFYFYTSKTTVAS  615
               +D     Y Y  +  ++S
Sbjct  218  LSTLDEELMMY-YLEEKPISS  237


>sp|Q97KC9|SYE_CLOAB Glutamate--tRNA ligase OS=Clostridium acetobutylicum 
(strain ATCC 824 / DSM 792 / JCM 1419 / LMG 5710 
/ VKM B-1787) OX=272562 GN=gltX PE=3 SV=1
Length=485

 Score = 35.9 bits (81),  Expect = 4.0, Method: Composition-based stats.
 Identities = 22/138 (16%), Positives = 51/138 (37%), Gaps = 12/138 (9%)

Query  585  QRKYKGIKIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNLEEA  644
            +  Y     +  +V+ G  +Y + SK  +  L      L       P  Y  H  NL + 
Sbjct  90   KGLYLDYAKK--LVEKGEAYYCFCSKERLDILKTNSEALKR-----PFKYDKHCANLSKE  142

Query  645  ARYMR-SLKVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISL--AGSYKDWSYSG-  700
                +    VP  +  ++P   +     +     + +   ++ + L  +  Y  ++++  
Sbjct  143  EVQEKLDAGVPYVIRQNNPTTGSTTFDDVIYGRISVDNSELDDMILIKSDGYPTYNFANV  202

Query  701  -QSTQLGIEFLKRGDKSV  717
                 +GI  + RG++ +
Sbjct  203  VDDHLMGITHVVRGNEYL  220


>sp|P51937|NU1M_DROSU NADH-ubiquinone oxidoreductase chain 1 OS=Drosophila 
subobscura OX=7241 GN=mt:ND1 PE=3 SV=1
Length=312

 Score = 35.5 bits (80),  Expect = 4.1, Method: Composition-based stats.
 Identities = 37/257 (14%), Positives = 78/257 (30%), Gaps = 38/257 (15%)

Query  1347  CTNYMPYFFTLL----LQLCTFTRSTNSRIKASMPTTIA---KNTVKSVGKFCLEASFNY  1399
             C      F TLL    L      +  N      +P       K   K      L    +Y
Sbjct  16    CVLVSVAFLTLLERKVLGYIQIRKGPNKVGLMGIPQPFCDAIKLFTKEQTYPLLSNYLSY  75

Query  1400  LKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVT  1459
               SP FS  +++ +W  +                +  ++LG+ +       G+ +++N  
Sbjct  76    YISPIFSLFLSLFVWMCMPFFVKLYSFNLGGLFFLCCTSLGVYTV---MVAGWSSNSNYA  132

Query  1460  IATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRF  1519
             +             L GL ++      +TI   +S     L+   L+  + + Y  + + 
Sbjct  133   L-------------LGGLRAVA-----QTISYEVSLALILLSFVFLIGSYNMVYFFYYQI  174

Query  1520  FYVLGLAAIMQLF---------FSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFA  1570
             +    +                 +     F      +    N+   +   A++ M  + +
Sbjct  175   YVWFLIILFPMALVWLTISLAETNRTPFDFAEGESELVSGFNVEYSSGGFALIFMAEYAS  234

Query  1571  SFYYVWKSYVHVVDGCN  1587
               +      V +  GC+
Sbjct  235   ILFMSMLFCV-IFLGCD  250


>sp|P07710|NU1M_DROYA NADH-ubiquinone oxidoreductase chain 1 OS=Drosophila 
yakuba OX=7245 GN=mt:ND1 PE=3 SV=1
Length=324

 Score = 35.5 bits (80),  Expect = 5.2, Method: Composition-based stats.
 Identities = 37/257 (14%), Positives = 78/257 (30%), Gaps = 38/257 (15%)

Query  1347  CTNYMPYFFTLL----LQLCTFTRSTNSRIKASMPTTIA---KNTVKSVGKFCLEASFNY  1399
             C      F TLL    L      +  N      +P       K   K      L    +Y
Sbjct  16    CVLVSVAFLTLLERKVLGYIQIRKGPNKVGLMGIPQPFCDAIKLFTKEQTYPLLSNYLSY  75

Query  1400  LKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVT  1459
               SP FS  +++ +W  +                +  ++LG+ +       G+ +++N  
Sbjct  76    YISPIFSLFLSLFVWMCMPFFVKLYSFNLGGLFFLCCTSLGVYTV---MVAGWSSNSNYA  132

Query  1460  IATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRF  1519
             +             L GL ++      +TI   +S     L+   L+  + + Y  + + 
Sbjct  133   L-------------LGGLRAVA-----QTISYEVSLALIMLSFIFLIGSYNMIYFFYYQI  174

Query  1520  FYVLGLAAIMQLF---------FSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFA  1570
             +    +                 +     F      +    N+   +   A++ M  + +
Sbjct  175   YMWFLIILFPMSLVWLTISLAETNRTPFDFAEGESELVSGFNVEYSSGGFALIFMAEYAS  234

Query  1571  SFYYVWKSYVHVVDGCN  1587
               +      V +  GC+
Sbjct  235   ILFMSMLFCV-IFLGCD  250


>sp|B2V5H4|SYE_CLOBA Glutamate--tRNA ligase OS=Clostridium botulinum 
(strain Alaska E43 / Type E3) OX=508767 GN=gltX PE=3 
SV=1
Length=485

 Score = 35.5 bits (80),  Expect = 6.2, Method: Composition-based stats.
 Identities = 28/148 (19%), Positives = 59/148 (40%), Gaps = 16/148 (11%)

Query  585  QRKYKGIKIQEGVVDYGARFYFYTSKTTVASLINTLNDLNETLVTMPLGYVTHGLNL---  641
            +RK   ++  + +V+ G  +Y + SK  +  L      L       P  Y  H L+L   
Sbjct  88   ERKAIYLEYAKNLVEKGEAYYCFCSKDRLDMLKENAEALKR-----PFKYDKHCLHLTKE  142

Query  642  EEAARYMRSLKVPATVSVSSPDAVTAYNGYLTSSSKTPEEHFIETISL--AGSYKDWSYS  699
            E  A   + L  P  +  ++P   +     +     T +   +E + L  +     ++++
Sbjct  143  EIEANLAKGL--PYVIRQNNPTTGSTTFDDVIYGKITVDNSELEDMILIKSDGLPTYNFA  200

Query  700  G--QSTQLGIEFLKRGDKSVYYTSNPTT  725
                   +GI  + RG++ +  +S+P  
Sbjct  201  NVVDDHLMGITHIVRGNEYL--SSSPKY  226


>sp|P18929|NU1M_DROME NADH-ubiquinone oxidoreductase chain 1 OS=Drosophila 
melanogaster OX=7227 GN=mt:ND1 PE=3 SV=3
Length=312

 Score = 34.8 bits (78),  Expect = 7.8, Method: Composition-based stats.
 Identities = 38/257 (15%), Positives = 78/257 (30%), Gaps = 38/257 (15%)

Query  1347  CTNYMPYFFTLL----LQLCTFTRSTNSRIKASMPTTIA---KNTVKSVGKFCLEASFNY  1399
             C      F TLL    L      +  N      +P       K   K      L    +Y
Sbjct  16    CVLVSVAFLTLLERKVLGYIQIRKGPNKVGLMGIPQPFCDAIKLFTKEQTYPLLSNYLSY  75

Query  1400  LKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVT  1459
               SP FS  +++ +W  +                +  ++LG+ +       G+ +++N  
Sbjct  76    YISPIFSLFLSLFVWMCMPFFVKLYSFNLGGLFFLCCTSLGVYTV---MVAGWSSNSNYA  132

Query  1460  IATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRF  1519
             +             L GL ++      +TI   +S     L+   L+  + + Y  F + 
Sbjct  133   L-------------LGGLRAVA-----QTISYEVSLALILLSFIFLIGSYNMIYFFFYQV  174

Query  1520  FYVLGLAAIMQLF---------FSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFA  1570
             +    +                 +     F      +    N+   +   A++ M  + +
Sbjct  175   YMWFLIILFPMALVWMSISLAETNRTPFDFAEGESELVSGFNVEYSSGGFALIFMAEYAS  234

Query  1571  SFYYVWKSYVHVVDGCN  1587
               +      V +  GC+
Sbjct  235   ILFMSMLFCV-IFLGCD  250


>sp|A1EGX6|FSCB_MOUSE Fibrous sheath CABYR-binding protein OS=Mus 
musculus OX=10090 GN=Fscb PE=1 SV=1
Length=1074

 Score = 35.2 bits (79),  Expect = 8.4, Method: Composition-based stats.
 Identities = 23/144 (16%), Positives = 40/144 (28%), Gaps = 14/144 (10%)

Query  80   DEWSMATYYLFDESG-----EFKLASHMYCSFYPPDEDEEEGDCEEEEFEPSTQYEYGTE  134
            ++++    +   E       E   A        PP  ++   +    E  P +  +   E
Sbjct  418  EKFATDEVF---EEYKPPIIEEVSADKATAEVQPPSAEDASEEVASSEVLPPSTEQGTVE  474

Query  135  D---DYQGKPLEFGATSAALQPEEE---QEEDWLDDDSQQTVGQQDGSEDNQTTTIQTIV  188
            D   +    P E G T    QP EE   +    L ++    V      E           
Sbjct  475  DLTAEVLSTPTEEGPTEVPPQPTEEGPAEVPPPLSEEGPAEVPPAPAEEAPAEVLPPPAE  534

Query  189  EVQPQLEMELTPVVQTIEVNSFSG  212
            E   ++   LT           + 
Sbjct  535  EAPAEVPPPLTEEGPAEVPPPLTE  558


>sp|Q39994|CALX_HELTU Calnexin homolog OS=Helianthus tuberosus 
OX=4233 PE=2 SV=1
Length=540

 Score = 35.2 bits (79),  Expect = 8.7, Method: Composition-based stats.
 Identities = 23/126 (18%), Positives = 41/126 (33%), Gaps = 20/126 (16%)

Query  88   YLFDESGEFKLASHMYCSFYPPDEDEEEGDCEEEEFEPSTQYEYGTEDDYQGKPLEFGAT  147
            +L  E  E  L          PD D+++ +  +E  +         +D  +  P+E    
Sbjct  211  FLSSEDFEPALIPTKT----IPDPDDKKPEDWDERAKIPDPEATKPDDWDEDAPME----  262

Query  148  SAALQPEEEQEEDWLDDDSQQTVGQQ----------DGSEDNQTTTIQTIVEVQPQLEME  197
               L  E E+ E WLDD+ ++    +          +  E           E  P     
Sbjct  263  --ILDEEAEKPEGWLDDEPEEIDDPEAVKPEDWDDEEDGEWEAPQIENPKCESAPGCGEW  320

Query  198  LTPVVQ  203
              P+ +
Sbjct  321  RRPLKR  326


>sp|P84294|NU1M_DROPE NADH-ubiquinone oxidoreductase chain 1 OS=Drosophila 
persimilis OX=7234 GN=mt:ND1 PE=3 SV=2
Length=315

 Score = 34.8 bits (78),  Expect = 8.9, Method: Composition-based stats.
 Identities = 37/257 (14%), Positives = 78/257 (30%), Gaps = 38/257 (15%)

Query  1347  CTNYMPYFFTLL----LQLCTFTRSTNSRIKASMPTTIA---KNTVKSVGKFCLEASFNY  1399
             C      F TLL    L      +  N      +P       K   K      L    +Y
Sbjct  19    CVLVSVAFLTLLERKVLGYIQIRKGPNKVGLMGIPQPFCDAIKLFTKEQTYPLLSNYLSY  78

Query  1400  LKSPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVT  1459
               SP FS  +++ +W  +                +  ++LG+ +       G+ +++N  
Sbjct  79    YISPIFSLFLSLFVWMCMPFFVKLYSFNLGGLFFLCCTSLGVYTV---MIAGWSSNSNYA  135

Query  1460  IATYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRF  1519
             +             L GL ++      +TI   +S     L+   L+  + + Y  + + 
Sbjct  136   L-------------LGGLRAVA-----QTISYEVSLALILLSFVFLIGSYNMMYFFYYQI  177

Query  1520  FYVLGLAAIMQLF---------FSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFA  1570
             +    +                 +     F      +    N+   +   A++ M  + +
Sbjct  178   YIWFLIILFPMALVWLTISLAETNRTPFDFAEGESELVSGFNVEYSSGGFALIFMAEYAS  237

Query  1571  SFYYVWKSYVHVVDGCN  1587
               +      V +  GC+
Sbjct  238   ILFMSMLFCV-IFLGCD  253


>sp|Q6Q487|CALX_ASPFU Calnexin homolog OS=Aspergillus fumigatus 
(strain ATCC MYA-4609 / CBS 101355 / FGSC A1100 / Af293) OX=330879 
GN=AFUA_4G12850 PE=2 SV=2
Length=563

 Score = 34.8 bits (78),  Expect = 8.9, Method: Composition-based stats.
 Identities = 22/104 (21%), Positives = 35/104 (34%), Gaps = 22/104 (21%)

Query  93   SGEFKLASHMYCSFYPPDEDEEEGDCEEEEFEPSTQYEYGTEDDYQGKPLEFGATSAALQ  152
             GE      +   F PP   E+E D                 D    KP ++   +    
Sbjct  230  DGEAVKNGTLLEDFAPPVNPEKEID-----------------DPKDKKPADWVDEAKIPD  272

Query  153  PEEEQEEDWLDDDSQQTVGQ-----QDGSEDNQTTTIQTIVEVQ  191
            PE ++ +DW +D   + V +     +D  ED  T+      E  
Sbjct  273  PEAKKPDDWDEDAPYEIVDEEATMPEDWLEDEPTSIPDPEAEKP  316



Lambda      K        H        a         alpha
   0.318    0.124    0.313    0.792     4.96 

Gapped
Lambda      K        H        a         alpha    sigma
   0.267   0.0380    0.140     1.90     42.6     43.6 

Effective search space used: 236670339240


  Database: uniprot_sprot.fasta
    Posted date:  Feb 9, 2024  7:20 PM
  Number of letters in database: 206,533,160
  Number of sequences in database:  570,830



Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Neighboring words threshold: 11
Window for multiple hits: 40