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
           571,282 sequences; 206,678,396 total letters

Results from round 1


Query= YP_009725307.1 RNA-dependent RNA polymerase [Severe acute
respiratory syndrome coronavirus 2]

Length=932
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

sp|P0DTD1|R1AB_SARS2 Replicase polyprotein 1ab OS=Severe acute re...  1969    0.0   
sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute res...  1914    0.0   
sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus...  1911    0.0   
sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus...  1906    0.0   
sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus...  1904    0.0   
sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus...  1451    0.0   
sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus...  1423    0.0   
sp|K9N7C7|R1AB_MERS1 Replicase polyprotein 1ab OS=Middle East res...  1413    0.0   
sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus...  1411    0.0   
sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus...  1410    0.0   
sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavir...  1308    0.0   
sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavi...  1306    0.0   
sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavir...  1300    0.0   
sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavir...  1299    0.0   
sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavir...  1299    0.0   
sp|P0C6X6|R1AB_CVHOC Replicase polyprotein 1ab OS=Human coronavir...  1296    0.0   
sp|P0C6W8|R1AB_CVBLU Replicase polyprotein 1ab OS=Bovine coronavi...  1294    0.0   
sp|P0C6W7|R1AB_CVBEN Replicase polyprotein 1ab OS=Bovine coronavi...  1294    0.0   
sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavi...  1292    0.0   
sp|P0C6X0|R1AB_CVBQ Replicase polyprotein 1ab OS=Bovine coronavir...  1290    0.0   
sp|P0C6W9|R1AB_CVBM Replicase polyprotein 1ab OS=Bovine coronavir...  1287    0.0   
sp|P0C6Y2|R1AB_IBVBC Replicase polyprotein 1ab OS=Avian infectiou...  1186    0.0   
sp|P0C6Y1|R1AB_IBVB Replicase polyprotein 1ab OS=Avian infectious...  1186    0.0   
sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus...  1184    0.0   
sp|P0C6Y3|R1AB_IBVM Replicase polyprotein 1ab OS=Avian infectious...  1182    0.0   
sp|P0C6Y4|R1AB_PEDV7 Replicase polyprotein 1ab OS=Porcine epidemi...  1174    0.0   
sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavir...  1163    0.0   
sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavir...  1151    0.0   
sp|P0C6Y5|R1AB_CVPPU Replicase polyprotein 1ab OS=Porcine transmi...  1142    0.0   
sp|Q98VG9|R1AB_FIPV Replicase polyprotein 1ab OS=Feline coronavir...  1128    0.0   
sp|Q9WQ77|R1AB_CVRSD Replicase polyprotein 1ab (Fragment) OS=Rat ...  483     2e-163
sp|Q9WQ76|R1AB_CVTMI Replicase polyprotein 1ab (Fragment) OS=Turk...  444     2e-148
sp|P0C6V7|R1AB_BEV Replicase polyprotein 1ab OS=Berne virus OX=11...  131     2e-29 
sp|P0C6V8|R1AB_BRV1 Replicase polyprotein 1ab OS=Breda virus 1 OX...  117     5e-25 
sp|Q008X6|R1AB_WBV24 Replicase polyprotein 1ab OS=White bream vir...  100     6e-20 
sp|Q68772|RPOA_SHFV Replicase polyprotein 1ab OS=Simian hemorrhag...  49.3    2e-04 
sp|Q9WJB2|RPOA_PRRSR Replicase polyprotein 1ab OS=Porcine reprodu...  47.4    8e-04 
sp|A6YQT5|RPOA_PRRSV Replicase polyprotein 1ab OS=Porcine reprodu...  46.6    0.001 
sp|Q8B912|RPOA_PRRSB Replicase polyprotein 1ab OS=Porcine reprodu...  46.2    0.002 
sp|Q9YN02|RPOA_PRRS1 Replicase polyprotein 1ab OS=Porcine reprodu...  46.2    0.002 
sp|P18479|POLG_ZYMVC Genome polyprotein OS=Zucchini yellow mosaic...  38.9    0.30  
sp|Q04561|RPOA_PRRSL Replicase polyprotein 1ab OS=Porcine reprodu...  38.5    0.40  
sp|Q06502|RPOA_LDVC Replicase polyprotein 1ab OS=Lactate dehydrog...  38.1    0.48  
sp|C4LCH1|UXUA_TOLAT Mannonate dehydratase OS=Tolumonas auensis (...  37.4    0.56  
sp|A0MD28|RPOA_PRRSS Replicase polyprotein 1ab OS=Porcine reprodu...  38.1    0.60  
sp|P18478|POLG_WMV2U Genome polyprotein (Fragment) OS=Watermelon ...  37.7    0.66  
sp|Q83017|RPOA_LDVP Replicase polyprotein 1ab OS=Lactate dehydrog...  37.7    0.66  
sp|Q89330|POLG_ZYMVR Genome polyprotein OS=Zucchini yellow mosaic...  36.6    1.4   
sp|B1KEK5|PYRC_SHEWM Dihydroorotase OS=Shewanella woodyi (strain ...  35.8    1.6   
sp|Q492K3|HISX_BLOPB Histidinol dehydrogenase OS=Blochmannia penn...  35.4    2.4   
sp|P19811|RPOA_EAVBU Replicase polyprotein 1ab OS=Equine arteriti...  35.0    4.3   
sp|O36979|POLG_ZYMVS Genome polyprotein OS=Zucchini yellow mosaic...  34.7    6.0   
sp|Q0CRF3|ATG5_ASPTN Autophagy protein 5 OS=Aspergillus terreus (...  33.5    9.6   


>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 = 1969 bits (5102),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 932/932 (100%), Positives = 932/932 (100%), Gaps = 0/932 (0%)

Query  1     SADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             SADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD
Sbjct  4393  SADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  4452

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT
Sbjct  4453  EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  4512

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE
Sbjct  4513  KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  4572

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
             RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL
Sbjct  4573  RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  4632

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN
Sbjct  4633  LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  4692

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN
Sbjct  4693  CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  4752

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
             LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY
Sbjct  4753  LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  4812

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF
Sbjct  4813  DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  4872

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT
Sbjct  4873  DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  4932

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN
Sbjct  4933  QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  4992

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA
Sbjct  4993  MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  5052

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV
Sbjct  5053  QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  5112

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK
Sbjct  5113  RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  5172

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
             NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA
Sbjct  5173  NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  5232

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML
Sbjct  5233  GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  5292

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ
Sbjct  5293  DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  5324


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

 Score = 1914 bits (4957),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 898/932 (96%), Positives = 916/932 (98%), Gaps = 0/932 (0%)

Query  1     SADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             SADA +FLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYN+KVAGFAKFLKTNCCRFQEKD
Sbjct  4370  SADASTFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKD  4429

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             E+ NL+DSYFVVKRHT SNYQHEETIYNL+KDCPAVA HDFFKFR+DGDMVPHISRQRLT
Sbjct  4430  EEGNLLDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLT  4489

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE
Sbjct  4490  KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  4549

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
             RVRQ+LLKTVQFCDAMR+AGIVGVLTLDNQDLNGNWYDFGDF+Q  PG GVP+VDSYYSL
Sbjct  4550  RVRQSLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSL  4609

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             LMPILTLTRAL AESH+D DL KP IKWDLLKYDFTEERL LFDRYFKYWDQTYHPNC+N
Sbjct  4610  LMPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCIN  4669

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN
Sbjct  4670  CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  4729

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
             LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY
Sbjct  4730  LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  4789

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF
Sbjct  4790  DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  4849

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT
Sbjct  4850  DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  4909

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN
Sbjct  4910  QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  4969

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             MLKTVYSDVE PHLMGWDYPKCDRAMPNMLRIMASLVLARKH TCC+LSHRFYRLANECA
Sbjct  4970  MLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECA  5029

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV
Sbjct  5030  QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  5089

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             RNLQHRLYECLYRNRDVD +FV+EFYAYLRKHFSMMILSDDAVVC+NS YA+QGLVASIK
Sbjct  5090  RNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIK  5149

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
             NFK+VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA
Sbjct  5150  NFKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  5209

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML
Sbjct  5210  GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  5269

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ
Sbjct  5270  DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  5301


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

 Score = 1911 bits (4951),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 897/932 (96%), Positives = 914/932 (98%), Gaps = 0/932 (0%)

Query  1     SADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             SADA +FLNRVCGVSAARLTPCGTG STDVVYRAFDIYN+KVAGFAKFLKTNCCRFQEKD
Sbjct  4368  SADASTFLNRVCGVSAARLTPCGTGISTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKD  4427

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             E+ NL+DSYFVVKRHT SNYQHEETIYNL+KDCPAVA HDFFKFR+DGDMVPHISRQRLT
Sbjct  4428  EEGNLLDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLT  4487

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE
Sbjct  4488  KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  4547

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
             RVRQALLKTVQFCDAMR+AGIVGVLTLDNQDLNGNWYDFGDF+Q  PG GVP+VDSYYSL
Sbjct  4548  RVRQALLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSL  4607

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             LMPILTLTRAL AESH+D DL KP IKWDLLKYDFT ERL LFDRYFKYWDQTYHPNC+N
Sbjct  4608  LMPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTAERLCLFDRYFKYWDQTYHPNCIN  4667

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN
Sbjct  4668  CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  4727

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
             LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY
Sbjct  4728  LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  4787

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF
Sbjct  4788  DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  4847

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT
Sbjct  4848  DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  4907

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN
Sbjct  4908  QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  4967

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             MLKTVYSDVE PHLMGWDYPKCDRAMPNMLRIMASLVLARKH+TCC+LSHRFYRLANECA
Sbjct  4968  MLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHSTCCNLSHRFYRLANECA  5027

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV
Sbjct  5028  QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  5087

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             RNLQHRLYECLYRNRDVD +FV EFYAYLRKHFSMMILSDDAVVC+NS YA+QGLVASIK
Sbjct  5088  RNLQHRLYECLYRNRDVDHEFVGEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIK  5147

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
             NFK+VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA
Sbjct  5148  NFKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  5207

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML
Sbjct  5208  GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  5267

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ
Sbjct  5268  DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  5299


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

 Score = 1906 bits (4937),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 894/932 (96%), Positives = 915/932 (98%), Gaps = 0/932 (0%)

Query  1     SADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             SADA +FLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYN++VAGFAKFLKTNCCRFQEKD
Sbjct  4376  SADASTFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNERVAGFAKFLKTNCCRFQEKD  4435

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             E+ NL+DSYFVVKRHT SNYQHEETIYNL+K+CPAVA HDFFKFR+DGDMVPHISRQRLT
Sbjct  4436  EEGNLLDSYFVVKRHTMSNYQHEETIYNLVKECPAVAVHDFFKFRVDGDMVPHISRQRLT  4495

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE
Sbjct  4496  KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  4555

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
             RVRQALLKTVQFCDAMR+AGIVGVLTLDNQDLNGNWYDFGDF+Q  PG GVP+VDSYYSL
Sbjct  4556  RVRQALLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSL  4615

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             LMPILTLT+AL AESH+D DL KP IKWDLLKYDFTEERL LFDRYFKYWDQTYHPNC+N
Sbjct  4616  LMPILTLTKALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCIN  4675

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN
Sbjct  4676  CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  4735

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
             LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY
Sbjct  4736  LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  4795

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF
Sbjct  4796  DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  4855

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQD LFAYTKRNVIPTIT
Sbjct  4856  DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDVLFAYTKRNVIPTIT  4915

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN
Sbjct  4916  QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  4975

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             MLKTVYSDVE PHLMGWDYPKCDRAMPNMLRIMASLVLARKH+TCC+LSHRFYRLANECA
Sbjct  4976  MLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHSTCCNLSHRFYRLANECA  5035

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV
Sbjct  5036  QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  5095

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             RNLQHRLYECLYRNRDVD +FV+EFYAYLRKHFSMMILSDDAVVC+NS YA+QGLVASIK
Sbjct  5096  RNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIK  5155

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
             NFK+V YYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA
Sbjct  5156  NFKAVHYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  5215

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML
Sbjct  5216  GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  5275

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ
Sbjct  5276  DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  5307


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

 Score = 1904 bits (4933),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 891/932 (96%), Positives = 918/932 (98%), Gaps = 0/932 (0%)

Query  1     SADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             SADA +FLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYN+KVAGFAKFLKTNCCRFQEKD
Sbjct  4364  SADASTFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKD  4423

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             E+ NL+DSYFVVKRHT SNYQHEETIYNL+K+CPAVA HDFFKFR+DGDMVPHISRQRLT
Sbjct  4424  EEGNLLDSYFVVKRHTMSNYQHEETIYNLIKECPAVAVHDFFKFRVDGDMVPHISRQRLT  4483

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDD+YFNKKDWYDFVENPD+LRVYANLGE
Sbjct  4484  KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDNYFNKKDWYDFVENPDVLRVYANLGE  4543

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
             RVR+ALLKTVQFCDAMR+AGIVGVLTLDNQDLNGNWYDFGDF+Q  PG GVP+VDSYYSL
Sbjct  4544  RVRRALLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSL  4603

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             LMPILTLT+AL AESH+D DL KP +KWDLLKYDFTEERL LFDRYFKYWDQTYHPNC+N
Sbjct  4604  LMPILTLTKALAAESHMDADLAKPLVKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCIN  4663

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN
Sbjct  4664  CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  4723

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
             LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY
Sbjct  4724  LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  4783

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF
Sbjct  4784  DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  4843

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT
Sbjct  4844  DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  4903

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN
Sbjct  4904  QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  4963

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             MLKTVYSDVE+PHLMGWDYPKCDRAMPNMLRIMASL+LARKH+TCC+LSHRFYRLANECA
Sbjct  4964  MLKTVYSDVESPHLMGWDYPKCDRAMPNMLRIMASLILARKHSTCCNLSHRFYRLANECA  5023

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV
Sbjct  5024  QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  5083

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             RNLQHRLYECLYRNRDVD +FV+EFYAYLRKHFSMMILSDDAVVC+NS YA+QGLVASIK
Sbjct  5084  RNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIK  5143

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
             NFK+VLYYQNNVFMSEAKCWTETDLT+GPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA
Sbjct  5144  NFKAVLYYQNNVFMSEAKCWTETDLTRGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  5203

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML
Sbjct  5204  GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  5263

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ
Sbjct  5264  DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  5295


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

 Score = 1451 bits (3755),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 676/932 (73%), Positives = 770/932 (83%), Gaps = 1/932 (0%)

Query  2     ADAQSFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             A  + FLNRV G S  ARL P G+G   D+V RAFDI N KVAGF   LK NCCR+QE D
Sbjct  4234  ARDECFLNRVRGTSGVARLVPLGSGVQPDIVLRAFDICNTKVAGFGLHLKNNCCRYQELD  4293

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
              D   +DSYFVVKRHT SNY  E+  Y  LKDC  VA+HDFFKF I+G M PH+SR+RLT
Sbjct  4294  ADGTQLDSYFVVKRHTESNYLLEQRCYEKLKDCGVVARHDFFKFNIEGVMTPHVSRERLT  4353

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTMADLVY+LRHFD  NCDTLKEILV   CC  DYF++KDWYD VENPDI+RVY NLGE
Sbjct  4354  KYTMADLVYSLRHFDNNNCDTLKEILVLRGCCTADYFDRKDWYDPVENPDIIRVYHNLGE  4413

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
              VR+A+L  V+  D+M   G++GVLTLDNQDLNG WYDFGDFI+   G+GV V+D+YYSL
Sbjct  4414  TVRKAVLSAVKMADSMVEQGLIGVLTLDNQDLNGQWYDFGDFIEGPAGAGVAVMDTYYSL  4473

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
              MP+ T+T  L AE HVD D +KP   WD+ KYD+T+ +  LF +YFKYWD  YHPNCV 
Sbjct  4474  AMPVYTMTNMLAAECHVDGDFSKPKRVWDICKYDYTQFKYSLFSKYFKYWDMQYHPNCVA  4533

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             C DDRCILHCANFN+LFS V P TSFGPLV+KI+VDGVPFVVSTGYH+RELGVV NQD+ 
Sbjct  4534  CADDRCILHCANFNILFSMVLPNTSFGPLVQKIYVDGVPFVVSTGYHYRELGVVMNQDIR  4593

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
              H+ RLS +ELLVYAADPAMH A+ N L DKRT C SVAA+T  V FQTVKPG FN+DFY
Sbjct  4594  QHAQRLSLRELLVYAADPAMHVAASNALADKRTVCMSVAAMTTGVTFQTVKPGQFNEDFY  4653

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             +FAV  GFFKEGS++  KHFF+AQDGNAAISDYDYYRYNLPTMCDI+QLLF +EVVDKYF
Sbjct  4654  NFAVKCGFFKEGSTISFKHFFYAQDGNAAISDYDYYRYNLPTMCDIKQLLFSLEVVDKYF  4713

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             DCYDGGC+ A+QV+V N DKSAGFPFNK+GKARLYY+S+SY DQD LFAYTKRNV+PTIT
Sbjct  4714  DCYDGGCLQASQVVVANYDKSAGFPFNKFGKARLYYESLSYADQDELFAYTKRNVLPTIT  4773

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSI STMTNRQFHQK+LKSIAA RGA+VVIGT+KFYGGW+ 
Sbjct  4774  QMNLKYAISAKNRARTVAGVSIASTMTNRQFHQKMLKSIAAARGASVVIGTTKFYGGWNR  4833

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             ML+T+   VENPHLMGWDYPKCDRAMPN+LRI ASL+LARKH TCC+ S RFYRLANECA
Sbjct  4834  MLRTLCEGVENPHLMGWDYPKCDRAMPNLLRIFASLILARKHATCCNASERFYRLANECA  4893

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSEMV+CGG  YVKPGGTSSGD+TTAYANSVFNICQAV+AN+N  LS DGNKI   YV
Sbjct  4894  QVLSEMVLCGGGFYVKPGGTSSGDSTTAYANSVFNICQAVSANLNTFLSIDGNKIYTTYV  4953

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             + LQ RLY  +YR+  VD + V ++Y YLRKHFSMMILSDD VVC+N+ YA +G VA I+
Sbjct  4954  QELQRRLYLGIYRSNTVDNELVLDYYNYLRKHFSMMILSDDGVVCYNADYAQKGYVADIQ  5013

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
              FK +LY+QNNVFMSE+KCW E D+TKGPHEFCSQHTMLV    + VYLPYPDPSRILGA
Sbjct  5014  GFKELLYFQNNVFMSESKCWVEPDITKGPHEFCSQHTMLVDMKGEQVYLPYPDPSRILGA  5073

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDD++KTDGTLM+ER+VSLAIDAYPLTKHP+ EY +VF  YLQYI+KLH+ELTGH+L
Sbjct  5074  GCFVDDLLKTDGTLMMERYVSLAIDAYPLTKHPDPEYQNVFWCYLQYIKKLHEELTGHLL  5133

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             D YSVML +DN S+YWE EFYE MY     LQ
Sbjct  5134  DTYSVMLASDNASKYWEVEFYENMYMESATLQ  5165


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

 Score = 1423 bits (3684),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 659/931 (71%), Positives = 776/931 (83%), Gaps = 3/931 (0%)

Query  5     QSFLNRVCG-VSAARLTPCGTGTSTDVVYRAFDI--YNDKVAGFAKFLKTNCCRFQEKDE  61
              +FLNRV G +  AR+ PC +G +TDVV+RAFDI  Y  KVAG  K+ KTN CRF E D+
Sbjct  4471  SNFLNRVRGSIVNARIEPCASGLTTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVEVDD  4530

Query  62    DDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTK  121
             + + +DS+FVVKRHT  NY+ E+  Y+L+KDC AVA HDFF F +D    PHI RQRLT+
Sbjct  4531  EGHRLDSFFVVKRHTMENYELEKRCYDLVKDCDAVAVHDFFIFDVDKVKTPHIVRQRLTE  4590

Query  122   YTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGER  181
             YTM DLVYALRHFD+ NC+ LK ILV Y CCD  YF+ K W+DFVENP+++ VY  LGER
Sbjct  4591  YTMMDLVYALRHFDQNNCEVLKSILVKYGCCDASYFDNKLWFDFVENPNVISVYHKLGER  4650

Query  182   VRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLL  241
             +RQA+L TV+FCD M  +G+VGVLTLDNQDLNG WYDFGDF+ T PG+GV +VDSYYS L
Sbjct  4651  IRQAVLNTVKFCDQMVKSGLVGVLTLDNQDLNGKWYDFGDFVITQPGAGVAIVDSYYSYL  4710

Query  242   MPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNC  301
             MP+L++T  L AE+H D DLTKP I+W LL+YD+T+ ++ LF++YFK WDQ YHPNCVNC
Sbjct  4711  MPVLSMTNCLAAETHRDCDLTKPLIEWPLLEYDYTDYKIGLFEKYFKXWDQQYHPNCVNC  4770

Query  302   LDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNL  361
              DDRC+LHCANFNVLFS   P TSFGP+VRKIFVDGVPFV+S GYH++ELG+V N DV+L
Sbjct  4771  TDDRCVLHCANFNVLFSMTLPGTSFGPIVRKIFVDGVPFVISCGYHYKELGLVMNMDVSL  4830

Query  362   HSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYD  421
             H  RLS KEL++YAADPAMH AS + L D RT CFSVAALT  + FQTV+PGNFNKDFYD
Sbjct  4831  HRHRLSLKELMMYAADPAMHIASASALWDLRTPCFSVAALTTGLTFQTVRPGNFNKDFYD  4890

Query  422   FAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFD  481
             F VSKGFFKEGSSV L+HFFFAQDG+AAI+DY YY YNLPTMCDI+Q+LF +EVVD+YF+
Sbjct  4891  FVVSKGFFKEGSSVTLRHFFFAQDGHAAITDYSYYAYNLPTMCDIKQMLFCMEVVDRYFE  4950

Query  482   CYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQ  541
              YDGGC+NA++VIVNNLDKSAG PFNK+GKAR+YY+S+SY++QD LFA TKRNV+PTITQ
Sbjct  4951  IYDGGCLNASEVIVNNLDKSAGHPFNKFGKARVYYESLSYQEQDELFAMTKRNVLPTITQ  5010

Query  542   MNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNM  601
             MNLKYAISAKNRARTVAGVSI STMTNRQ+HQK+LKS+AATRG+T VIGT+KFYGGW  M
Sbjct  5011  MNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGSTCVIGTTKFYGGWDFM  5070

Query  602   LKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQ  661
             LKT+Y DV+NPHLMGWDYPKCDRAMPNM RI ASL+LARKH+TCC+ + RFYRLANECAQ
Sbjct  5071  LKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHSTCCTNTDRFYRLANECAQ  5130

Query  662   VLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVR  721
             VLSE V+CGG  YVKPGGTSSGDATTAYANSVFNI QA TANV+AL+  +GN I D+ V+
Sbjct  5131  VLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNTIVDEEVK  5190

Query  722   NLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKN  781
             ++Q  LY  +YR    D  FV+ +YA+L KHFSMMILSDD VVC+NS YA++G +ASI+N
Sbjct  5191  DMQFELYVNVYRKSQPDPKFVDRYYAFLNKHFSMMILSDDGVVCYNSDYATKGYIASIQN  5250

Query  782   FKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAG  841
             FK  LYYQNNVFMSEAKCW ETDL KGPHEFCSQHT+ +K GDD  +LPYPDPSRIL AG
Sbjct  5251  FKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLFIKDGDDGYFLPYPDPSRILSAG  5310

Query  842   CFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLD  901
             CFVDDIVKTDGTLM+ERFVSLAIDAYPLTKH + EY +VF +YLQYI KL+ +LTGHMLD
Sbjct  5311  CFVDDIVKTDGTLMVERFVSLAIDAYPLTKHDDPEYQNVFWVYLQYIEKLYKDLTGHMLD  5370

Query  902   MYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
              YSVML  DN++++WE  FY  +YT  T LQ
Sbjct  5371  SYSVMLCGDNSAKFWEESFYRDLYTAPTTLQ  5401


>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 = 1413 bits (3657),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 663/931 (71%), Positives = 771/931 (83%), Gaps = 4/931 (0%)

Query  5     QSFLNRVCG-VSAARLTPCGTGTSTDVVYRAFDI--YNDKVAGFAKFLKTNCCRFQEKDE  61
              +FL RV G +  AR+ PC +G STDVV+RAFDI  Y  KVAG  K+ KTN CRF E D+
Sbjct  4381  SNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVELDD  4440

Query  62    DDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTK  121
               + +DSYFVVKRHT  NY+ E+  Y+LL+DC AVA HDFF F +D    PHI RQRLT+
Sbjct  4441  QGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQRLTE  4500

Query  122   YTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGER  181
             YTM DLVYALRHFD+ N + LK ILV Y CCD  YF  K W+DFVENP ++ VY  LGER
Sbjct  4501  YTMMDLVYALRHFDQ-NSEVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKLGER  4559

Query  182   VRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLL  241
             VRQA+L TV+FCD M  AG+VGVLTLDNQDLNG WYDFGDF+ T PGSGV +VDSYYS L
Sbjct  4560  VRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYYSYL  4619

Query  242   MPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNC  301
             MP+L++T  L AE+H D D  KP I+W L +YDFT+ +++LF++YFKYWDQTYH NCVNC
Sbjct  4620  MPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANCVNC  4679

Query  302   LDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNL  361
              DDRC+LHCANFNVLF+   P T FGP+VRKIFVDGVPFVVS GYH++ELG+V N DV+L
Sbjct  4680  TDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMDVSL  4739

Query  362   HSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYD  421
             H  RLS KEL++YAADPAMH AS N  LD RT+CFSVAALT  + FQTV+PGNFN+DFYD
Sbjct  4740  HRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQDFYD  4799

Query  422   FAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFD  481
             F VSKGFFKEGSSV LKHFFFAQDGNAAI+DY+YY YNLPTMCDI+Q+LF +EVV+KYF+
Sbjct  4800  FVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNKYFE  4859

Query  482   CYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQ  541
              YDGGC+NA++V+VNNLDKSAG PFNK+GKAR+YY+SMSY++QD LFA TKRNVIPT+TQ
Sbjct  4860  IYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPTMTQ  4919

Query  542   MNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNM  601
             MNLKYAISAKNRARTVAGVSI STMTNRQ+HQK+LKS+AATRGAT VIGT+KFYGGW  M
Sbjct  4920  MNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGWDFM  4979

Query  602   LKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQ  661
             LKT+Y DV+NPHLMGWDYPKCDRAMPNM RI ASL+LARKH TCC+   RFYRLANECAQ
Sbjct  4980  LKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANECAQ  5039

Query  662   VLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVR  721
             VLSE V+CGG  YVKPGGTSSGDATTAYANSVFNI QA TANV+AL+  +GNKI DK V+
Sbjct  5040  VLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDKEVK  5099

Query  722   NLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKN  781
             ++Q  LY  +YR+   D  FV+++YA+L KHFSMMILSDD VVC+NS YA++G +A I+N
Sbjct  5100  DMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAGIQN  5159

Query  782   FKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAG  841
             FK  LYYQNNVFMSEAKCW ETDL KGPHEFCSQHT+ +K GDD  +LPYPDPSRIL AG
Sbjct  5160  FKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRILSAG  5219

Query  842   CFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLD  901
             CFVDDIVKTDGTLM+ERFVSLAIDAYPLTKH + EY +VF +YLQYI KL+ +LTGHMLD
Sbjct  5220  CFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGHMLD  5279

Query  902   MYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
              YSVML  DN++++WE  FY  +Y+  T LQ
Sbjct  5280  SYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  5310


>sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus 
HKU4 OX=694007 GN=rep PE=1 SV=1
Length=7119

 Score = 1411 bits (3653),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 660/930 (71%), Positives = 776/930 (83%), Gaps = 3/930 (0%)

Query  6     SFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDK--VAGFAKFLKTNCCRFQEKDED  62
             +FLNRV G S  ARL PC +G +TDVVYRAFDI N K  VAG  K+ KTN CRF + D++
Sbjct  4425  NFLNRVRGSSVNARLEPCSSGLTTDVVYRAFDICNFKARVAGIGKYYKTNTCRFVQVDDE  4484

Query  63    DNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKY  122
              + +DSYF+VKRHT SNY+ E+  Y+LLKDC AVA HDFF F +D    PHI RQ LT+Y
Sbjct  4485  GHKLDSYFIVKRHTMSNYELEKRCYDLLKDCDAVAIHDFFIFDVDKTKTPHIVRQSLTEY  4544

Query  123   TMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERV  182
             TM DLVYALRHFD+ NC+ LK ILV Y CC+  YF+ K W+DFVENP ++ VY  LGER+
Sbjct  4545  TMMDLVYALRHFDQNNCEVLKSILVKYGCCEQSYFDNKLWFDFVENPSVIGVYHKLGERI  4604

Query  183   RQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLM  242
             RQA+L TV+ CD M  +G+VGVLTLDNQDLNG WYDFGDF+ T PG+GV +VDSYYS LM
Sbjct  4605  RQAMLNTVKMCDHMVKSGLVGVLTLDNQDLNGKWYDFGDFVITQPGAGVAIVDSYYSYLM  4664

Query  243   PILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCL  302
             P+L++T  L AE+H D D  KP I+W LL+YD+T+ ++ LF++YFKYWDQTYHPNCVNC 
Sbjct  4665  PVLSMTNCLAAETHKDCDFNKPLIEWPLLEYDYTDYKIGLFNKYFKYWDQTYHPNCVNCS  4724

Query  303   DDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLH  362
             DDRCILHCANFNVLFS V P TSFGP+VRKIFVDGVPF+VS GYH++ELG+V N D N+H
Sbjct  4725  DDRCILHCANFNVLFSMVLPNTSFGPIVRKIFVDGVPFIVSCGYHYKELGLVMNMDFNIH  4784

Query  363   SSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDF  422
               RL+ KEL++YAADPAMH AS + L D RT CFSVAALT  + FQTV+PGNFNKDFYDF
Sbjct  4785  RHRLALKELMMYAADPAMHIASASALWDLRTPCFSVAALTTGLTFQTVRPGNFNKDFYDF  4844

Query  423   AVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDC  482
              VS+GFFKEGSSV LKHFFFAQDG+AAI+DY YY YNLPTM DI+Q+LF +EVVDKYFD 
Sbjct  4845  VVSRGFFKEGSSVTLKHFFFAQDGHAAITDYSYYAYNLPTMVDIKQMLFCMEVVDKYFDI  4904

Query  483   YDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQM  542
             YDGGC+NA++VIVNNLDKSAG PFNK+GKAR+YY+SMSY++QD LFA TKRNV+PTITQM
Sbjct  4905  YDGGCLNASEVIVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAVTKRNVLPTITQM  4964

Query  543   NLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNML  602
             NLKYAISAKNRARTVAGVSI STMTNRQ+HQK+LKS+AATRGAT VIGT+KFYGGW  ML
Sbjct  4965  NLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGWDFML  5024

Query  603   KTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQV  662
             KT+Y DVE+PHLMGWDYPKCDRAMPNM RI+ASL+LARKH+TCC+ S RFYRLANECAQV
Sbjct  5025  KTLYKDVESPHLMGWDYPKCDRAMPNMCRILASLILARKHSTCCTNSDRFYRLANECAQV  5084

Query  663   LSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRN  722
             LSE V+CGG  YVKPGGTSSGDATTAYANSVFNI QA TANV+AL+S +GN I D+ +++
Sbjct  5085  LSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMSANGNTIIDREIKD  5144

Query  723   LQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNF  782
             +Q  LY  +YR    D  FV+++YA+L KHFSMMILSDD VVC+NS YA++G VASI+NF
Sbjct  5145  MQFDLYINVYRKVVPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYVASIQNF  5204

Query  783   KSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGC  842
             K  LYYQNNVFMSEAKCW ET+L KGPHEFCSQHT+ +K GDD  +LPYPDPSRIL AGC
Sbjct  5205  KETLYYQNNVFMSEAKCWVETNLEKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRILSAGC  5264

Query  843   FVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDM  902
             FVDDIVKTDGT+M+ER+VSLAIDAYPLTKH + EY +VF +YLQYI KL+ +LTGHMLD 
Sbjct  5265  FVDDIVKTDGTVMMERYVSLAIDAYPLTKHDDTEYQNVFWVYLQYIEKLYKDLTGHMLDS  5324

Query  903   YSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             YSVML  D+++++WE  FY  +Y+  T LQ
Sbjct  5325  YSVMLCGDDSAKFWEEGFYRDLYSSPTTLQ  5354


>sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus 
133/2005 OX=389230 GN=rep PE=3 SV=1
Length=7126

 Score = 1410 bits (3650),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 660/930 (71%), Positives = 777/930 (84%), Gaps = 3/930 (0%)

Query  6     SFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDK--VAGFAKFLKTNCCRFQEKDED  62
             +FLNRV G S  ARL PC +G +TDVVYRAFDI N K  VAG  K+ KTN CRF + D++
Sbjct  4432  NFLNRVRGSSVNARLEPCSSGLTTDVVYRAFDICNFKARVAGIGKYYKTNTCRFVQVDDE  4491

Query  63    DNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKY  122
              + +DSYF+VKRHT SNY+ E+  Y+LLKDC AVA HDFF F +D    PHI RQ LT+Y
Sbjct  4492  GHKLDSYFIVKRHTMSNYELEKRCYDLLKDCDAVAIHDFFIFDVDKTKTPHIVRQSLTEY  4551

Query  123   TMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERV  182
             TM DLVYALRHFD+ NC+ LK ILV Y CC+  YF+ K W+DFVENP ++ VY  LGER+
Sbjct  4552  TMMDLVYALRHFDQNNCEVLKSILVKYGCCEQSYFDNKLWFDFVENPSVIGVYHKLGERI  4611

Query  183   RQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLM  242
             RQA+L TV+ CD M  +G+VGVLTLDNQDLNG WYDFGDF+ T PG+GV +VDSYYS LM
Sbjct  4612  RQAMLNTVKMCDHMVKSGLVGVLTLDNQDLNGKWYDFGDFVITQPGAGVAIVDSYYSYLM  4671

Query  243   PILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCL  302
             P+L++T  L AE+H D D  KP I+W LL+YD+T+ ++ LF++YFK+WDQTYHPNCVNC 
Sbjct  4672  PVLSMTNCLAAETHKDCDFNKPLIEWLLLEYDYTDYKIGLFNKYFKHWDQTYHPNCVNCG  4731

Query  303   DDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLH  362
             DDRCILHCANFNVLFS V P TSFGP+VRKIFVDGVPF+VS GYH++ELG+V N DVN+H
Sbjct  4732  DDRCILHCANFNVLFSMVLPNTSFGPIVRKIFVDGVPFIVSCGYHYKELGLVMNMDVNIH  4791

Query  363   SSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDF  422
               RL+ KEL++YAADPAMH AS + L D RT CFSVAALT  + FQTV+PGNFNKDFYDF
Sbjct  4792  RHRLALKELMMYAADPAMHIASASALWDLRTPCFSVAALTTGLTFQTVRPGNFNKDFYDF  4851

Query  423   AVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDC  482
              VS+GFFKEGSSV LKHFFFAQDG+AAI+DY YY YNLPTM DI+Q+LF +EVVDKYFD 
Sbjct  4852  VVSRGFFKEGSSVTLKHFFFAQDGHAAITDYSYYAYNLPTMVDIKQMLFCMEVVDKYFDI  4911

Query  483   YDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQM  542
             YDGGC+NA++VIVNNLDKSAG PFNK+GKAR+YY+SMSY++QD LFA TKRNV+PTITQM
Sbjct  4912  YDGGCLNASEVIVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAVTKRNVLPTITQM  4971

Query  543   NLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNML  602
             NLKYAISAKNRARTVAGVSI STMTNRQ+HQK+LKS+AATRGAT VIGT+KFYGGW  ML
Sbjct  4972  NLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGWDFML  5031

Query  603   KTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQV  662
             KT+Y DVE+PHLMGWDYPKCDRAMPNM RI+ASL+LARKH+TCC+ S RFYRLANECAQV
Sbjct  5032  KTLYKDVESPHLMGWDYPKCDRAMPNMCRILASLILARKHSTCCTNSDRFYRLANECAQV  5091

Query  663   LSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRN  722
             LSE V+CGG  YVKPGGTSSGDATTAYANSVFNI QA TANV+AL+S +GN I D+ +++
Sbjct  5092  LSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMSANGNTIIDREIKD  5151

Query  723   LQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNF  782
             +Q  LY  +YR    D  FV+++YA+L KHFSMMILSDD VVC+NS YA++G VASI+NF
Sbjct  5152  MQFDLYINVYRKVVPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYVASIQNF  5211

Query  783   KSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGC  842
             K  LYYQNNVFMSEAKCW ET+L KGPHEFCSQHT+ +K GDD  +LPYPDPSRIL AGC
Sbjct  5212  KETLYYQNNVFMSEAKCWVETNLEKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRILSAGC  5271

Query  843   FVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDM  902
             FVDDIVKTDGT+M+ER+VSLAIDAYPLTKH + EY +VF +YLQYI KL+ +LTGHMLD 
Sbjct  5272  FVDDIVKTDGTVMMERYVSLAIDAYPLTKHDDTEYQNVFWVYLQYIEKLYKDLTGHMLDS  5331

Query  903   YSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             YSVML  D+++++WE  FY  +Y+  T LQ
Sbjct  5332  YSVMLCGDDSAKFWEEGFYRDLYSSPTTLQ  5361


>sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavirus 
(strain 2) OX=76344 GN=rep PE=3 SV=1
Length=7124

 Score = 1308 bits (3384),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 618/928 (67%), Positives = 740/928 (80%), Gaps = 5/928 (1%)

Query  6     SFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDN  64
             +FLNRV G S  ARL PC +G  TDV  RAFDI N   AG   + K NCCRFQ  DED N
Sbjct  4407  NFLNRVRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCCRFQRADEDGN  4466

Query  65    LIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTM  124
              +D +FV+KR     Y  E+  Y L K+C  VA+H+FF F ++G  VPHI R+ L+KYTM
Sbjct  4467  TLDKFFVIKRTNLEVYNKEKECYELTKECGVVAEHEFFTFDVEGSRVPHIVRKDLSKYTM  4526

Query  125   ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ  184
              DL YALRHFD  +C TLKEIL+TY  CD+ YF KKDWYDFVEN DI+ VY  LG    +
Sbjct  4527  LDLCYALRHFDRNDCSTLKEILLTYAECDESYFQKKDWYDFVENSDIINVYKKLGPIFNR  4586

Query  185   ALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPI  244
             ALL T +F D +  AG+VGVLTLDNQDL G WYDFGDF++T PG GV V DSYYS +MP+
Sbjct  4587  ALLNTAKFADTLVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPGCGVAVADSYYSYMMPM  4646

Query  245   LTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDD  304
             LT+  AL +E  ++      Y ++DL++YDFT+ +L+LF++YFKYW  TYHPN   C DD
Sbjct  4647  LTMCHALDSELFIN----GTYREFDLVQYDFTDFKLELFNKYFKYWSMTYHPNTCECEDD  4702

Query  305   RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSS  364
             RCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H  
Sbjct  4703  RCIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVDTHRY  4762

Query  365   RLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAV  424
             RLS K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY+F +
Sbjct  4763  RLSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYEFIL  4822

Query  425   SKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYD  484
             SKG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV+KYF+ YD
Sbjct  4823  SKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVNKYFEIYD  4882

Query  485   GGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNL  544
             GGCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNL
Sbjct  4883  GGCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEVYAYTKRNVLPTLTQMNL  4942

Query  545   KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT  604
             KYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +ML+ 
Sbjct  4943  KYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRR  5002

Query  605   VYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLS  664
             +  DV++P LMGWDYPKCDRAMPN+LRI++SLVLARKH +CCS + RFYRLANECAQVLS
Sbjct  5003  LIKDVDSPVLMGWDYPKCDRAMPNILRIISSLVLARKHDSCCSHTDRFYRLANECAQVLS  5062

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ  724
             E+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D  +R LQ
Sbjct  5063  EIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQ  5122

Query  725   HRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKS  784
              RLY  +YR   VD  FVNE+Y +L KHFSMMILSDD VVC+NS +AS+G +A+I  F+ 
Sbjct  5123  KRLYSNVYRADHVDPAFVNEYYEFLNKHFSMMILSDDGVVCYNSEFASKGYIANISAFQQ  5182

Query  785   VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFV  844
             VLYYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK   D VYLPYPDPSRILGAGCFV
Sbjct  5183  VLYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGAGCFV  5242

Query  845   DDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYS  904
             DD++KTD  L+IERFVSLAIDAYPL  H N EY +VF +YL+YI+KL+++L   +LD YS
Sbjct  5243  DDLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQILDSYS  5302

Query  905   VMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             V+L+  +  ++ +  FY+ MY    V+Q
Sbjct  5303  VILSTCDGQKFTDETFYKNMYLRSAVMQ  5330


>sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavirus 
(strain A59) OX=11142 GN=rep PE=1 SV=1
Length=7176

 Score = 1306 bits (3379),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 617/928 (66%), Positives = 741/928 (80%), Gaps = 5/928 (1%)

Query  6     SFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDN  64
             +FLNR+ G S  ARL PC +G  TDV  RAFDI N   AG   + K NCCRFQ  DED N
Sbjct  4459  NFLNRIRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCCRFQRVDEDGN  4518

Query  65    LIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTM  124
              +D +FVVKR     Y  E+  Y L K+C  VA+H+FF F ++G  VPHI R+ L+K+TM
Sbjct  4519  KLDKFFVVKRTNLEVYNKEKECYELTKECGVVAEHEFFTFDVEGSRVPHIVRKDLSKFTM  4578

Query  125   ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ  184
              DL YALRHFD  +C TLKEIL+TY  C++ YF KKDWYDFVENPDI+ VY  LG    +
Sbjct  4579  LDLCYALRHFDRNDCSTLKEILLTYAECEESYFQKKDWYDFVENPDIINVYKKLGPIFNR  4638

Query  185   ALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPI  244
             ALL T +F DA+  AG+VGVLTLDNQDL G WYDFGDF++T PG GV V DSYYS +MP+
Sbjct  4639  ALLNTAKFADALVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPGCGVAVADSYYSYMMPM  4698

Query  245   LTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDD  304
             LT+  AL +E  V+      Y ++DL++YDFT+ +L+LF +YFK+W  TYHPN   C DD
Sbjct  4699  LTMCHALDSELFVN----GTYREFDLVQYDFTDFKLELFTKYFKHWSMTYHPNTCECEDD  4754

Query  305   RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSS  364
             RCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H  
Sbjct  4755  RCIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVDTHRY  4814

Query  365   RLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAV  424
             RLS K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY+F +
Sbjct  4815  RLSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYEFIL  4874

Query  425   SKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYD  484
             SKG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV+KYF+ Y+
Sbjct  4875  SKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVNKYFEIYE  4934

Query  485   GGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNL  544
             GGCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNL
Sbjct  4935  GGCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNL  4994

Query  545   KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT  604
             KYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +ML+ 
Sbjct  4995  KYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRR  5054

Query  605   VYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLS  664
             +  DV++P LMGWDYPKCDRAMPN+LRI++SLVLARKH +CCS + RFYRLANECAQVLS
Sbjct  5055  LIKDVDSPVLMGWDYPKCDRAMPNILRIVSSLVLARKHDSCCSHTDRFYRLANECAQVLS  5114

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ  724
             E+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D  +R LQ
Sbjct  5115  EIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQ  5174

Query  725   HRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKS  784
              RLY  +YR   VD  FV+E+Y +L KHFSMMILSDD VVC+NS +AS+G +A+I  F+ 
Sbjct  5175  KRLYSNVYRADHVDPAFVSEYYEFLNKHFSMMILSDDGVVCYNSEFASKGYIANISAFQQ  5234

Query  785   VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFV  844
             VLYYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK   D VYLPYPDPSRILGAGCFV
Sbjct  5235  VLYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGAGCFV  5294

Query  845   DDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYS  904
             DD++KTD  L+IERFVSLAIDAYPL  H N EY +VF +YL+YI+KL+++L   +LD YS
Sbjct  5295  DDLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQILDSYS  5354

Query  905   VMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             V+L+  +  ++ +  FY+ MY    VLQ
Sbjct  5355  VILSTCDGQKFTDETFYKNMYLRSAVLQ  5382


>sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavirus 
HKU1 (isolate N1) OX=443239 GN=rep PE=3 SV=1
Length=7182

 Score = 1300 bits (3365),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 623/928 (67%), Positives = 735/928 (79%), Gaps = 5/928 (1%)

Query  6     SFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDN  64
             +FLNRV G S  ARL PC +G STDV  RAFDI N   AG   + K NCCRFQ  D+D N
Sbjct  4462  NFLNRVRGTSVNARLVPCASGLSTDVQLRAFDICNTNRAGIGLYYKVNCCRFQRIDDDGN  4521

Query  65    LIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTM  124
              +D +FVVKR     Y  E+T Y L K C  VA+HDFF F IDG  VPHI R+ L+KYTM
Sbjct  4522  KLDKFFVVKRTNLEVYNKEKTYYELTKSCGVVAEHDFFTFDIDGSRVPHIVRRNLSKYTM  4581

Query  125   ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ  184
              DL YALRHFD  +C  L EIL  Y  C + YF+KKDWYDFVENPDI+ +Y  LG    +
Sbjct  4582  LDLCYALRHFDRNDCSILCEILCEYADCKESYFSKKDWYDFVENPDIINIYKKLGPIFNR  4641

Query  185   ALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPI  244
             ALL TV F D +   G+VGVLTLDNQDL G WYDFGDFIQT PG GV V DSYYS +MP+
Sbjct  4642  ALLNTVIFADTLVEVGLVGVLTLDNQDLYGQWYDFGDFIQTAPGFGVAVADSYYSYMMPM  4701

Query  245   LTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDD  304
             LT+   L  E  V+      Y ++DL++YDFT+ +L+LF++YFKYW   YHPN V+C +D
Sbjct  4702  LTMCHVLDCELFVN----DSYRQFDLVQYDFTDYKLELFNKYFKYWGMKYHPNTVDCDND  4757

Query  305   RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSS  364
             RCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H  
Sbjct  4758  RCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNLDVDTHRY  4817

Query  365   RLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAV  424
             RLS K+LL+YAADPAMH AS + LLD RT CFSVAA+T+ + FQTVKPGNFN+DFY+F  
Sbjct  4818  RLSLKDLLLYAADPAMHVASASALLDLRTCCFSVAAITSGIKFQTVKPGNFNQDFYEFVK  4877

Query  425   SKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYD  484
             SKG FKEGS+V+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF+ YD
Sbjct  4878  SKGLFKEGSTVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYFEIYD  4937

Query  485   GGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNL  544
             GGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+Q+ ++AYTKRNV+PT+TQMNL
Sbjct  4938  GGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQNEIYAYTKRNVLPTLTQMNL  4997

Query  545   KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT  604
             KYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +ML+ 
Sbjct  4998  KYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRH  5057

Query  605   VYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLS  664
             +  DV+NP LMGWDYPKCDRAMPN+LRI++SLVLARKH  CCS   RFYRLANECAQVLS
Sbjct  5058  LIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEFCCSHGDRFYRLANECAQVLS  5117

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ  724
             E+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAVTANV +L++ +G+KI D  +RNLQ
Sbjct  5118  EIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVTANVCSLMACNGHKIEDLSIRNLQ  5177

Query  725   HRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKS  784
              RLY  +YR   VD  FVNE+Y +L KHFSMMILSDD VVC+NS YAS+G +A+I  F+ 
Sbjct  5178  KRLYSNVYRTDYVDYTFVNEYYEFLCKHFSMMILSDDGVVCYNSDYASKGYIANISVFQQ  5237

Query  785   VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFV  844
             VLYYQNNVFMSE+KCW E D+T GPHEFCSQHTMLVK   DYVYLPYPDPSRILGAGCFV
Sbjct  5238  VLYYQNNVFMSESKCWVENDITNGPHEFCSQHTMLVKIDGDYVYLPYPDPSRILGAGCFV  5297

Query  845   DDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYS  904
             DD++KTD  L+IERFVSLAIDAYPL  H N+EY  VF +YL+YI+KL+++L   +LD YS
Sbjct  5298  DDLLKTDSVLLIERFVSLAIDAYPLVHHENEEYQKVFRVYLEYIKKLYNDLGTQILDSYS  5357

Query  905   VMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             V+L+  +  ++ E  FY+ MY    V+Q
Sbjct  5358  VILSTCDGLKFTEESFYKNMYLKSAVMQ  5385


>sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavirus 
HKU1 (isolate N5) OX=443241 GN=rep PE=3 SV=1
Length=7132

 Score = 1299 bits (3362),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 622/928 (67%), Positives = 735/928 (79%), Gaps = 5/928 (1%)

Query  6     SFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDN  64
             +FLNRV G S  ARL PC +G STDV  RAFDI N   AG   + K NCCRFQ  D+D N
Sbjct  4412  NFLNRVRGTSVNARLVPCASGLSTDVQLRAFDICNTNRAGIGLYYKVNCCRFQRIDDDGN  4471

Query  65    LIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTM  124
              +D +FVVKR     Y  E+T Y L K C  VA+HDFF F IDG  VPHI R+ L+KYTM
Sbjct  4472  KLDKFFVVKRTNLEVYNKEKTYYELTKSCGVVAEHDFFTFDIDGSRVPHIVRRNLSKYTM  4531

Query  125   ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ  184
              DL YALRHFD  +C  L EIL  Y  C + YF+KKDWYDFVENPDI+ +Y  LG    +
Sbjct  4532  LDLCYALRHFDRNDCSILCEILCEYADCKESYFSKKDWYDFVENPDIINIYKKLGPIFNR  4591

Query  185   ALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPI  244
             ALL TV F D +   G+VGVLTLDNQDL G WYDFGDFIQT PG GV V DSYYS +MP+
Sbjct  4592  ALLNTVIFADTLVEVGLVGVLTLDNQDLYGQWYDFGDFIQTAPGFGVAVADSYYSYMMPM  4651

Query  245   LTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDD  304
             LT+   L  E  V+      Y ++DL++YDFT+ +L+LF++YFKYW   YHPN V+C +D
Sbjct  4652  LTMCHVLDCELFVN----DSYRQFDLVQYDFTDYKLELFNKYFKYWGMKYHPNTVDCDND  4707

Query  305   RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSS  364
             RCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H  
Sbjct  4708  RCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNLDVDTHRY  4767

Query  365   RLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAV  424
             RLS K+LL+YAADPAMH AS + LLD RT CFSVAA+T+ + FQTVKPGNFN+DFY+F  
Sbjct  4768  RLSLKDLLLYAADPAMHVASASALLDLRTCCFSVAAITSGIKFQTVKPGNFNQDFYEFVK  4827

Query  425   SKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYD  484
             SKG FKEGS+V+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF+ YD
Sbjct  4828  SKGLFKEGSTVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYFEIYD  4887

Query  485   GGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNL  544
             GGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+Q+ ++AYTKRNV+PT+TQMNL
Sbjct  4888  GGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQNEIYAYTKRNVLPTLTQMNL  4947

Query  545   KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT  604
             KYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +ML+ 
Sbjct  4948  KYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRH  5007

Query  605   VYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLS  664
             +  DV+NP LMGWDYPKCDRAMPN+LRI++SLVLARKH  CCS   RFYRLANECAQVLS
Sbjct  5008  LIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEFCCSHGDRFYRLANECAQVLS  5067

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ  724
             E+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAVTANV +L++ +G+KI D  +RNLQ
Sbjct  5068  EIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVTANVCSLMACNGHKIEDLSIRNLQ  5127

Query  725   HRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKS  784
              RLY  +YR   VD  FVNE+Y +L KHFSMMILSDD VVC+NS YA++G +A+I  F+ 
Sbjct  5128  KRLYSNVYRTDYVDYTFVNEYYEFLCKHFSMMILSDDGVVCYNSDYANKGYIANISAFQQ  5187

Query  785   VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFV  844
             VLYYQNNVFMSE+KCW E D+T GPHEFCSQHTMLVK   DYVYLPYPDPSRILGAGCFV
Sbjct  5188  VLYYQNNVFMSESKCWVENDITNGPHEFCSQHTMLVKIDGDYVYLPYPDPSRILGAGCFV  5247

Query  845   DDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYS  904
             DD++KTD  L+IERFVSLAIDAYPL  H N+EY  VF +YL+YI+KL+++L   +LD YS
Sbjct  5248  DDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNDLGTQILDSYS  5307

Query  905   VMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             V+L+  +  ++ E  FY+ MY    V+Q
Sbjct  5308  VILSTCDGLKFTEESFYKNMYLKSAVMQ  5335


>sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavirus 
HKU1 (isolate N2) OX=443240 GN=rep PE=3 SV=1
Length=7152

 Score = 1299 bits (3361),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 622/928 (67%), Positives = 735/928 (79%), Gaps = 5/928 (1%)

Query  6     SFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDN  64
             +FLNRV G S  ARL PC +G STDV  RAFDI N   AG   + K NCCRFQ  D+D N
Sbjct  4432  NFLNRVRGTSVNARLVPCASGLSTDVQLRAFDICNTNRAGIGLYYKVNCCRFQRIDDDGN  4491

Query  65    LIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTM  124
              +D +FVVKR     Y  E+T Y L K C  VA+HDFF F IDG  VPHI R+ L+KYTM
Sbjct  4492  KLDKFFVVKRTNLEVYNKEKTYYELTKSCGVVAEHDFFTFDIDGSRVPHIVRKNLSKYTM  4551

Query  125   ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ  184
              DL YALRHFD  +C  L EIL  Y  C + YF+KKDWYDFVENPDI+ +Y  LG    +
Sbjct  4552  LDLCYALRHFDCNDCSVLCEILCEYADCKESYFSKKDWYDFVENPDIINIYKKLGPIFNR  4611

Query  185   ALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPI  244
             ALL TV F D +   G+VGVLTLDNQDL G WYDFGDFIQT PG GV V DSYYS +MP+
Sbjct  4612  ALLNTVSFADTLVKVGLVGVLTLDNQDLYGQWYDFGDFIQTAPGFGVAVADSYYSYMMPM  4671

Query  245   LTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDD  304
             LT+   L  E  V+      Y ++DL++YDFT+ +L+LF++YFKYW   YHPN V+C +D
Sbjct  4672  LTMCHVLDCELFVN----DSYRQFDLVQYDFTDYKLELFNKYFKYWGMKYHPNTVDCDND  4727

Query  305   RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSS  364
             RCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H  
Sbjct  4728  RCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNLDVDTHRY  4787

Query  365   RLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAV  424
             RLS K+LL+YAADPAMH AS + LLD RT CFSVAA+T+ + FQTVKPGNFN+DFY+F  
Sbjct  4788  RLSLKDLLLYAADPAMHVASASALLDLRTCCFSVAAITSGIKFQTVKPGNFNQDFYEFVK  4847

Query  425   SKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYD  484
             SKG FKEGS+V+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF+ YD
Sbjct  4848  SKGLFKEGSTVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYFEIYD  4907

Query  485   GGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNL  544
             GGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+Q+ ++AYTKRNV+PT+TQMNL
Sbjct  4908  GGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQNEIYAYTKRNVLPTLTQMNL  4967

Query  545   KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT  604
             KYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +ML+ 
Sbjct  4968  KYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRH  5027

Query  605   VYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLS  664
             +  DV+NP LMGWDYPKCDRAMPN+LRI++SLVLARKH  CCS   RFYRLANECAQVLS
Sbjct  5028  LIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEFCCSHGDRFYRLANECAQVLS  5087

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ  724
             E+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAVTANV +L++ +G+KI D  +RNLQ
Sbjct  5088  EIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVTANVCSLMACNGHKIEDLSIRNLQ  5147

Query  725   HRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKS  784
              RLY  +YR   VD  FVNE+Y +L KHFSMMILSDD VVC+NS YAS+G +A+I  F+ 
Sbjct  5148  KRLYSNVYRTDYVDYTFVNEYYEFLCKHFSMMILSDDGVVCYNSDYASKGYIANISVFQQ  5207

Query  785   VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFV  844
             VLYYQNNVFMSE+KCW E D+T GPHEFCSQHTMLVK   DYVYLPYPDPSRILGAGCFV
Sbjct  5208  VLYYQNNVFMSESKCWVENDITNGPHEFCSQHTMLVKIDGDYVYLPYPDPSRILGAGCFV  5267

Query  845   DDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYS  904
             DD++KTD  L+IERFVSLAIDAYPL  H N+EY  VF +YL+YI+KL+++L   +LD YS
Sbjct  5268  DDLLKTDSVLLIERFVSLAIDAYPLVHHENEEYQKVFRVYLEYIKKLYNDLGNQILDSYS  5327

Query  905   VMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             V+L+  +  ++ +  FY+ MY    V+Q
Sbjct  5328  VILSTCDGLKFTDESFYKNMYLKSAVMQ  5355


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

 Score = 1296 bits (3354),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 615/928 (66%), Positives = 733/928 (79%), Gaps = 5/928 (1%)

Query  6     SFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDN  64
             +FLNRV G S  ARL PC +G STDV  RAFDIYN  VAG    LK NCCRFQ  DE+ +
Sbjct  4374  NFLNRVRGASVDARLVPCASGLSTDVQLRAFDIYNASVAGIGLHLKVNCCRFQRVDENGD  4433

Query  65    LIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTM  124
              +D +FVVKR   + Y  E   Y  +KDC  VA+HDFF F ++G  VPHI R+ LTKYTM
Sbjct  4434  KLDQFFVVKRTDLTIYNREMKCYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKDLTKYTM  4493

Query  125   ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ  184
              DL YALRHFD  +C  L +IL  Y  C+  YF KKDWYDFVENPDI+ VY  LG    +
Sbjct  4494  LDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKLGPIFNR  4553

Query  185   ALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPI  244
             AL+   +F D +   G+VGVLTLDNQDLNG WYDFGD++   PG GV + DSYYS +MP+
Sbjct  4554  ALVSATEFADKLVEVGLVGVLTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYYSYIMPM  4613

Query  245   LTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDD  304
             LT+  AL  E +V+      Y  +DL++YDFT+ +L+LF++YFK+W   YHPN V+C DD
Sbjct  4614  LTMCHALDCELYVN----NAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNTVDCQDD  4669

Query  305   RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSS  364
             RCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELG+V N DV+ H  
Sbjct  4670  RCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMDVDTHRY  4729

Query  365   RLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAV  424
             RLS K+LL+YAADPA+H AS + L D RT CFSVAA+T+ V FQTVKPGNFN+DFYDF +
Sbjct  4730  RLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYDFVL  4789

Query  425   SKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYD  484
             SKG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF+ YD
Sbjct  4790  SKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYFEIYD  4849

Query  485   GGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNL  544
             GGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNL
Sbjct  4850  GGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNL  4909

Query  545   KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT  604
             KYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +ML+ 
Sbjct  4910  KYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRR  4969

Query  605   VYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLS  664
             +  DV+NP LMGWDYPKCDRAMPN+LRI++SLVLARKH TCCS S RFYRLANECAQVLS
Sbjct  4970  LIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHETCCSQSDRFYRLANECAQVLS  5029

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ  724
             E+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV AL+S +GNKI D  +R LQ
Sbjct  5030  EIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDLSIRALQ  5089

Query  725   HRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKS  784
              RLY  +YR+  VD+ FV E+Y +L KHFSMMILSDD VVC+NS YAS+G +A+I  F+ 
Sbjct  5090  KRLYSHVYRSDKVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIANISAFQQ  5149

Query  785   VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFV  844
             VLYYQNNVFMSE+KCW E D+  GPHEFCSQHTMLVK   D VYLPYP+PSRILGAGCFV
Sbjct  5150  VLYYQNNVFMSESKCWVEHDINNGPHEFCSQHTMLVKMDGDDVYLPYPNPSRILGAGCFV  5209

Query  845   DDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYS  904
             DD++KTD  L+IERFVSLAIDAYPL  H N+EY  VF +YL YI+KL+++L   +LD YS
Sbjct  5210  DDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLAYIKKLYNDLGNQILDSYS  5269

Query  905   VMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             V+L+  +  ++ +  FY+ MY    V+Q
Sbjct  5270  VILSTCDGQKFTDESFYKNMYLRSAVMQ  5297


>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 = 1294 bits (3348),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 613/928 (66%), Positives = 732/928 (79%), Gaps = 5/928 (1%)

Query  6     SFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDN  64
             +FLNRV G S  ARL PC +G STDV  RAFDI N  VAG    LK NCCRFQ  DE+ +
Sbjct  4374  NFLNRVRGTSVDARLVPCASGLSTDVQLRAFDICNASVAGIGLHLKVNCCRFQRVDENGD  4433

Query  65    LIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTM  124
              +D +FVVKR   + Y  E   Y  +KDC  VA+HDFF F ++G  VPHI R+ LTKYTM
Sbjct  4434  KLDQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKDLTKYTM  4493

Query  125   ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ  184
              DL YALRHFD  +C  L +IL  Y  C+  YF KKDWYDFVENPDI+ VY  LG    +
Sbjct  4494  LDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKLGPIFNR  4553

Query  185   ALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPI  244
             AL+   +F D +   G+VG+LTLDNQDLNG WYDFGD++   PG GV + DSYYS +MP+
Sbjct  4554  ALVSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYYSYMMPM  4613

Query  245   LTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDD  304
             LT+  AL  E +V+      Y  +DL++YDFT+ +L+LF++YFK+W   YHPN V+C DD
Sbjct  4614  LTMCHALDCELYVN----NAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNTVDCQDD  4669

Query  305   RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSS  364
             RCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELG+V N DV+ H  
Sbjct  4670  RCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMDVDTHRY  4729

Query  365   RLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAV  424
             RLS K+LL+YAADPA+H AS + L D RT CFSVAA+T+ V FQTVKPGNFN+DFYDF +
Sbjct  4730  RLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYDFIL  4789

Query  425   SKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYD  484
             SKG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF+ YD
Sbjct  4790  SKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYFEIYD  4849

Query  485   GGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNL  544
             GGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNL
Sbjct  4850  GGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNL  4909

Query  545   KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT  604
             KYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +ML+ 
Sbjct  4910  KYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRR  4969

Query  605   VYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLS  664
             +  DV+NP LMGWDYPKCDRAMPN+LRI++SLVLARKH  CCS S RFYRLANECAQVLS
Sbjct  4970  LIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACCSQSDRFYRLANECAQVLS  5029

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ  724
             E+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV AL+S +GNKI D  +R LQ
Sbjct  5030  EIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDLSIRALQ  5089

Query  725   HRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKS  784
              RLY  +YR+  VD+ FV E+Y +L KHFSMMILSDD VVC+NS YAS+G +A+I  F+ 
Sbjct  5090  KRLYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIANISAFQQ  5149

Query  785   VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFV  844
             VLYYQNNVFMSE+KCW E D+  GPHEFCSQHTMLVK   D VYLPYPDPSRILGAGCFV
Sbjct  5150  VLYYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDDVYLPYPDPSRILGAGCFV  5209

Query  845   DDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYS  904
             DD++KTD  L+IERFVSLAIDAYPL  H N+EY  VF +YL+YI+KL+++L   +LD YS
Sbjct  5210  DDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNDLGNQILDSYS  5269

Query  905   VMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             V+L+  +  ++ +  FY+ MY    V+Q
Sbjct  5270  VILSTCDGQKFTDESFYKNMYLRSAVMQ  5297


>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 = 1294 bits (3348),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 613/928 (66%), Positives = 732/928 (79%), Gaps = 5/928 (1%)

Query  6     SFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDN  64
             +FLNRV G S  ARL PC +G STDV  RAFDI N  VAG    LK NCCRFQ  DE+ +
Sbjct  4374  NFLNRVRGTSVDARLVPCASGLSTDVQLRAFDICNASVAGIGLHLKVNCCRFQRVDENGD  4433

Query  65    LIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTM  124
              +D +FVVKR   + Y  E   Y  +KDC  VA+HDFF F ++G  VPHI R+ LTKYTM
Sbjct  4434  KLDQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKDLTKYTM  4493

Query  125   ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ  184
              DL YALRHFD  +C  L +IL  Y  C+  YF KKDWYDFVENPDI+ VY  LG    +
Sbjct  4494  LDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKLGPIFNR  4553

Query  185   ALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPI  244
             AL+   +F D +   G+VG+LTLDNQDLNG WYDFGD++   PG GV + DSYYS +MP+
Sbjct  4554  ALVSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYYSYMMPM  4613

Query  245   LTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDD  304
             LT+  AL  E +V+      Y  +DL++YDFT+ +L+LF++YFK+W   YHPN V+C DD
Sbjct  4614  LTMCHALDCELYVN----NAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNTVDCQDD  4669

Query  305   RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSS  364
             RCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELG+V N DV+ H  
Sbjct  4670  RCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMDVDTHRY  4729

Query  365   RLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAV  424
             RLS K+LL+YAADPA+H AS + L D RT CFSVAA+T+ V FQTVKPGNFN+DFYDF +
Sbjct  4730  RLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYDFIL  4789

Query  425   SKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYD  484
             SKG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF+ YD
Sbjct  4790  SKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYFEIYD  4849

Query  485   GGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNL  544
             GGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNL
Sbjct  4850  GGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNL  4909

Query  545   KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT  604
             KYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +ML+ 
Sbjct  4910  KYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRR  4969

Query  605   VYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLS  664
             +  DV+NP LMGWDYPKCDRAMPN+LRI++SLVLARKH  CCS S RFYRLANECAQVLS
Sbjct  4970  LIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACCSQSDRFYRLANECAQVLS  5029

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ  724
             E+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV AL+S +GNKI D  +R LQ
Sbjct  5030  EIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDLSIRALQ  5089

Query  725   HRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKS  784
              RLY  +YR+  VD+ FV E+Y +L KHFSMMILSDD VVC+NS YAS+G +A+I  F+ 
Sbjct  5090  KRLYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIANISAFQQ  5149

Query  785   VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFV  844
             VLYYQNNVFMSE+KCW E D+  GPHEFCSQHTMLVK   D VYLPYPDPSRILGAGCFV
Sbjct  5150  VLYYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDDVYLPYPDPSRILGAGCFV  5209

Query  845   DDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYS  904
             DD++KTD  L+IERFVSLAIDAYPL  H N+EY  VF +YL+YI+KL+++L   +LD YS
Sbjct  5210  DDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNDLGNQILDSYS  5269

Query  905   VMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             V+L+  +  ++ +  FY+ MY    V+Q
Sbjct  5270  VILSTCDGQKFTDESFYKNMYLRSAVMQ  5297


>sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavirus 
(strain JHM) OX=11144 GN=rep PE=1 SV=1
Length=7180

 Score = 1292 bits (3344),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 613/928 (66%), Positives = 737/928 (79%), Gaps = 5/928 (1%)

Query  6     SFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDN  64
             +FLNRV G S  ARL PC +G  TDV  RAFDI N   AG   + K NC RFQ  DE+ N
Sbjct  4465  NFLNRVRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCFRFQRVDEEGN  4524

Query  65    LIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTM  124
              +D +FVVKR     Y  E+  Y L KDC  VA+H+FF F ++G  VPHI R+ L+K+TM
Sbjct  4525  KLDKFFVVKRTNLEVYNKEKECYELTKDCGVVAEHEFFTFDVEGSRVPHIVRKDLSKFTM  4584

Query  125   ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ  184
              DL YALRHFD  +C TLKEIL+TY  CD+ YF KKDWYDFVENPDI+ VY  LG    +
Sbjct  4585  LDLCYALRHFDRNDCSTLKEILLTYAECDESYFQKKDWYDFVENPDIINVYKKLGPIFNR  4644

Query  185   ALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPI  244
             ALL T  F D +  AG+VGVLTLDNQDL G WYDFGDF++T P  GV V DSYYS +MP+
Sbjct  4645  ALLNTANFADTLVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPCCGVAVADSYYSYMMPM  4704

Query  245   LTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDD  304
             LT+  AL +E  V+      Y ++DL++YDFT+ +L+LF++YFK+W  TYHPN   C DD
Sbjct  4705  LTMCHALDSELFVN----GTYREFDLVQYDFTDFKLELFNKYFKHWSMTYHPNTSECEDD  4760

Query  305   RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSS  364
             RCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H  
Sbjct  4761  RCIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVDTHRY  4820

Query  365   RLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAV  424
             RLS K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY+F +
Sbjct  4821  RLSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYEFIL  4880

Query  425   SKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYD  484
             SKG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFVVEVV+KYF+ Y+
Sbjct  4881  SKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVVEVVNKYFEIYE  4940

Query  485   GGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNL  544
             GGCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNL
Sbjct  4941  GGCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNL  5000

Query  545   KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT  604
             KYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +ML+ 
Sbjct  5001  KYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRR  5060

Query  605   VYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLS  664
             +  DV++P LMGWDYPKCDRAMPN+LRI++SLVLARKH +CCS + RFYRLANECAQVL 
Sbjct  5061  LIKDVDSPVLMGWDYPKCDRAMPNILRIVSSLVLARKHDSCCSHTDRFYRLANECAQVLG  5120

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ  724
             E+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D  +R LQ
Sbjct  5121  EIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQ  5180

Query  725   HRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKS  784
              RLY  +YR   VD  FV+E+Y +L KHFSM+ILSDD VVC+NS +AS+G +A+I +F+ 
Sbjct  5181  KRLYSNVYRADHVDPAFVSEYYEFLNKHFSMIILSDDGVVCYNSEFASKGYIANISDFQQ  5240

Query  785   VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFV  844
             VLYYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK   D VYLPYPDPSRILGAGCFV
Sbjct  5241  VLYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGAGCFV  5300

Query  845   DDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYS  904
             DD++KTD  L+IERFVSLAIDAYPL  H N EY +VF +YL+YI+KL+++L   +LD  S
Sbjct  5301  DDLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQILDSIS  5360

Query  905   VMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             V+L+  +  ++ +  FY+ MY    V+Q
Sbjct  5361  VILSTCDGQKFTDETFYKNMYLRSAVMQ  5388


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

 Score = 1290 bits (3339),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 613/928 (66%), Positives = 730/928 (79%), Gaps = 5/928 (1%)

Query  6     SFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDN  64
             +FLNRV G S  ARL PC +G STDV  RAFDI N  VAG    LK NCCRFQ  DE+ +
Sbjct  4374  NFLNRVRGTSVDARLVPCASGLSTDVQLRAFDICNASVAGIGLHLKVNCCRFQRVDENGD  4433

Query  65    LIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTM  124
              +D +FVVKR   + Y  E   Y  +KDC  VA+HDFF F ++G  VPHI R+ LTKYTM
Sbjct  4434  KLDQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKDLTKYTM  4493

Query  125   ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ  184
              DL YALRHFD  +C  L +IL  Y  C+  YF KKDWYDFVENPDI+ VY  LG    +
Sbjct  4494  LDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKLGPIFNR  4553

Query  185   ALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPI  244
             AL+   +F D +   G+VG+LTLDNQDLNG WYDFGD++   PG GV + DSYYS +MP+
Sbjct  4554  ALVSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYYSYMMPM  4613

Query  245   LTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDD  304
             LT+  AL  E +V+      Y  +DL++YDFT+ +L+LF++YFK+W   YHPN V+C DD
Sbjct  4614  LTMCHALDCELYVN----NAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNTVDCQDD  4669

Query  305   RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSS  364
             RCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELG+V N DV+ H  
Sbjct  4670  RCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMDVDTHRY  4729

Query  365   RLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAV  424
             RLS K+LL+YAADPA+H AS + L D RT CFSVAA+T+ V FQTVKPGNFN+DFYDF +
Sbjct  4730  RLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYDFIL  4789

Query  425   SKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYD  484
             SKG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF+ YD
Sbjct  4790  SKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYFEIYD  4849

Query  485   GGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNL  544
             GGCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNL
Sbjct  4850  GGCIPAAQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNL  4909

Query  545   KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT  604
             KYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +ML+ 
Sbjct  4910  KYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRR  4969

Query  605   VYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLS  664
             +  DV+NP LMGWDYPKCDRAMPN+LRI++SLVLARKH  CCS S RFYRLANECAQVLS
Sbjct  4970  LIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACCSQSDRFYRLANECAQVLS  5029

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ  724
             E+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV AL+S +GNKI D  +R LQ
Sbjct  5030  EIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDLSIRALQ  5089

Query  725   HRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKS  784
              RLY  +YR+  VD+ FV E+Y +L KHFSMMILSDD VVC+NS YAS+G +A+I  F+ 
Sbjct  5090  KRLYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIANISAFQQ  5149

Query  785   VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFV  844
             VLYYQNNVFMSE+KCW E D+  GPHEFCSQHTMLVK   D VYLPYP PSRILGAGCFV
Sbjct  5150  VLYYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDDVYLPYPVPSRILGAGCFV  5209

Query  845   DDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYS  904
             DD++KTD  L+IERFVSLAIDAYPL  H N+EY  VF +YL+YI+KL++EL   +LD YS
Sbjct  5210  DDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNELGNQILDSYS  5269

Query  905   VMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             V+L+  +  ++ +  FY+ MY    V+Q
Sbjct  5270  VILSTCDGQKFTDESFYKNMYLRSAVMQ  5297


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

 Score = 1287 bits (3331),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 612/928 (66%), Positives = 730/928 (79%), Gaps = 5/928 (1%)

Query  6     SFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDN  64
             +FLNRV G S  ARL PC +G STDV  RAFDI N  VAG    LK NCCRFQ  DE+ +
Sbjct  4374  NFLNRVRGTSVDARLVPCASGLSTDVQLRAFDICNASVAGIGLHLKVNCCRFQRVDENGD  4433

Query  65    LIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTM  124
              +D +FVVKR   + Y  E   Y  +KDC  VA+HDFF F ++G  VPHI R+ LTKYTM
Sbjct  4434  KLDQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKDLTKYTM  4493

Query  125   ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ  184
              DL YALRHFD  +C  L +IL  Y  C+  YF KKDWYDFVENPDI+ VY  LG    +
Sbjct  4494  LDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKLGPIFNR  4553

Query  185   ALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPI  244
             AL+   +F D +   G+VG+LTLDNQDLNG WYDFGD++   PG GV + DSYYS +MP+
Sbjct  4554  ALVSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYYSYMMPM  4613

Query  245   LTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDD  304
             LT+  AL  E +V+      Y  +DL++YDFT+ +L+LF++YFK+W   YHPN V+C DD
Sbjct  4614  LTMCHALDCELYVN----NAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNTVDCQDD  4669

Query  305   RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSS  364
             RCI+ CANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELG+V N DV+ H  
Sbjct  4670  RCIIRCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMDVDTHRY  4729

Query  365   RLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAV  424
             RLS K+LL+YAADPA+H AS + L D RT CFSVAA+T+ V FQTVKPGNFN+DFYDF +
Sbjct  4730  RLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYDFIL  4789

Query  425   SKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYD  484
             SKG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF+ YD
Sbjct  4790  SKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYFEIYD  4849

Query  485   GGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNL  544
             GGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNL
Sbjct  4850  GGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNL  4909

Query  545   KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT  604
             KYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +ML+ 
Sbjct  4910  KYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRR  4969

Query  605   VYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLS  664
             +  DV+NP LMGWDYPKCDRAMPN+LRI++SLVLARKH  CCS S RFYRLANE AQVLS
Sbjct  4970  LIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACCSQSDRFYRLANEYAQVLS  5029

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ  724
             E+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV AL+S +GNKI D  +R LQ
Sbjct  5030  EIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDLSIRALQ  5089

Query  725   HRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKS  784
              RLY  +YR+  VD+ FV E+Y +L KHFSMMILSDD VVC+NS YAS+G +A+I  F+ 
Sbjct  5090  KRLYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIANISAFQQ  5149

Query  785   VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFV  844
             VLYYQNNVFMSE+KCW E D+  GPHEFCSQHTMLVK   D VYLPYPDPSRILGAGCFV
Sbjct  5150  VLYYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDDVYLPYPDPSRILGAGCFV  5209

Query  845   DDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYS  904
             DD++KTD  L+IERFVSLAIDAYPL  H N+EY  VF +YL+YI+KL++EL   +LD YS
Sbjct  5210  DDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNELGNQILDSYS  5269

Query  905   VMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             V+L+  +  ++ +  FY+ MY    V+Q
Sbjct  5270  VILSTCDGQKFTDESFYKNMYLRSAVMQ  5297


>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 = 1186 bits (3068),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 582/936 (62%), Positives = 707/936 (76%), Gaps = 13/936 (1%)

Query  5     QSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQE--KDED  62
             +++LNRV G S ARL P  +G   DVV RAFD+ N + AG  + LK NC RFQE    ED
Sbjct  3938  KNYLNRVRGSSEARLIPLASGCDPDVVKRAFDVCNKESAGMFQNLKRNCARFQELRDTED  3997

Query  63    DNL--IDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
              NL  +DSYFVVK+ T SNY+HE++ Y  LK     A HDFF F  +   + +ISRQRLT
Sbjct  3998  GNLEYLDSYFVVKQTTPSNYEHEKSCYEDLKS-EVTADHDFFVFNKN---IYNISRQRLT  4053

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDD---DYFNK-KDWYDFVENPDILRVYA  176
             KYTM D  YALRHFD  +C+ LKEILVTY C +D    +F + KDWYD +EN     + A
Sbjct  4054  KYTMMDFCYALRHFDPKDCEVLKEILVTYGCIEDYHPKWFEENKDWYDPIENSKYYVMLA  4113

Query  177   NLGERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDS  236
              +G  VR+ALL  ++F + M   G VGV+TLDNQDLNG +YDFGDF +T PG+GVPV D+
Sbjct  4114  KMGPIVRRALLNAIEFGNLMVEKGYVGVITLDNQDLNGKFYDFGDFQKTAPGAGVPVFDT  4173

Query  237   YYSLLMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHP  296
             YYS +MPI+ +T AL  E + + D+ K Y  +DLLKYD+TEE+ +LF +YFKYWDQ YHP
Sbjct  4174  YYSYMMPIIAMTDALAPERYFEYDVHKGYKSYDLLKYDYTEEKQELFQKYFKYWDQEYHP  4233

Query  297   NCVNCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHN  356
             NC +C DDRC++HCANFN+LFST+ P TSFG L RK+FVDGVPF+ + GYH +ELGV+ N
Sbjct  4234  NCRDCSDDRCLIHCANFNILFSTLIPQTSFGNLCRKVFVDGVPFIATCGYHSKELGVIMN  4293

Query  357   QDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFN  416
             QD  +  S++   +L+ +  DPA+   + N L+D RT+CFSV ALT+ +  QTVKPG+FN
Sbjct  4294  QDNTMSFSKMGLSQLMQFVGDPALLVGTSNNLVDLRTSCFSVCALTSGITHQTVKPGHFN  4353

Query  417   KDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVV  476
             KDFYDFA   G FKEGSS+ LKHFF+ Q GNAAI+DYDYYRYN PTM DI QLLF +EV 
Sbjct  4354  KDFYDFAEKAGMFKEGSSIPLKHFFYPQTGNAAINDYDYYRYNRPTMFDICQLLFCLEVT  4413

Query  477   DKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVI  536
              KYF+CY+GGCI A+QV+VNNLDKSAG+PFNK+GKARLYY+ MS E+QD LF  TK+NV+
Sbjct  4414  SKYFECYEGGCIPASQVVVNNLDKSAGYPFNKFGKARLYYE-MSLEEQDQLFEITKKNVL  4472

Query  537   PTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYG  596
             PTITQMNLKYAISAKNRARTVAGVSI STMTNRQFHQK+LKSI  TR A+VVIGT+KFYG
Sbjct  4473  PTITQMNLKYAISAKNRARTVAGVSILSTMTNRQFHQKILKSIVNTRNASVVIGTTKFYG  4532

Query  597   GWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLA  656
             GW NML+ +   VE+P LMGWDYPKCDRAMPN+LRI ASLVLARKHT CCS S R YRL 
Sbjct  4533  GWDNMLRNLIQGVEDPILMGWDYPKCDRAMPNLLRIAASLVLARKHTNCCSWSERIYRLY  4592

Query  657   NECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIA  716
             NECAQVLSE V+  G +YVKPGGTSSGDATTAYANSVFNI QA +ANV  LLS     I 
Sbjct  4593  NECAQVLSETVLATGGIYVKPGGTSSGDATTAYANSVFNIIQATSANVARLLSVITRDIV  4652

Query  717   DKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLV  776
                +++LQ+ LY+ +YR  + D  FV +FY+YL K+FS+MILSDD VVC+N+T A QGLV
Sbjct  4653  YDNIKSLQYELYQQVYRRVNFDPAFVEKFYSYLCKNFSLMILSDDGVVCYNNTLAKQGLV  4712

Query  777   ASIKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSR  836
             A I  F+ VLYYQNNVFM+++KCW E DL KGPHEFCSQHTMLV+   +  YLPYPDPSR
Sbjct  4713  ADISGFREVLYYQNNVFMADSKCWVEPDLEKGPHEFCSQHTMLVEVDGEPKYLPYPDPSR  4772

Query  837   ILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELT  896
             ILGA  FVDD+ KT+   ++ER+++LAIDAYPL  H N+EY  VF + L YIRKL+ EL+
Sbjct  4773  ILGACVFVDDVDKTEPVAVMERYIALAIDAYPLVHHENEEYKKVFFVLLAYIRKLYQELS  4832

Query  897   GHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
              +ML  YS ++  D  S++WE EFYE MY   T LQ
Sbjct  4833  QNMLMDYSFVMDIDKGSKFWEQEFYENMYRAPTTLQ  4868


>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 = 1186 bits (3068),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 582/936 (62%), Positives = 707/936 (76%), Gaps = 13/936 (1%)

Query  5     QSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQE--KDED  62
             +++LNRV G S ARL P  +G   DVV RAFD+ N + AG  + LK NC RFQE    ED
Sbjct  3938  KNYLNRVRGSSEARLIPLASGCDPDVVKRAFDVCNKESAGMFQNLKRNCARFQELRDTED  3997

Query  63    DNL--IDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
              NL  +DSYFVVK+ T SNY+HE++ Y  LK     A HDFF F  +   + +ISRQRLT
Sbjct  3998  GNLEYLDSYFVVKQTTPSNYEHEKSCYEDLKS-EVTADHDFFVFNKN---IYNISRQRLT  4053

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDD---DYFNK-KDWYDFVENPDILRVYA  176
             KYTM D  YALRHFD  +C+ LKEILVTY C +D    +F + KDWYD +EN     + A
Sbjct  4054  KYTMMDFCYALRHFDPKDCEVLKEILVTYGCIEDYHPKWFEENKDWYDPIENSKYYVMLA  4113

Query  177   NLGERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDS  236
              +G  VR+ALL  ++F + M   G VGV+TLDNQDLNG +YDFGDF +T PG+GVPV D+
Sbjct  4114  KMGPIVRRALLNAIEFGNLMVEKGYVGVITLDNQDLNGKFYDFGDFQKTAPGAGVPVFDT  4173

Query  237   YYSLLMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHP  296
             YYS +MPI+ +T AL  E + + D+ K Y  +DLLKYD+TEE+ +LF +YFKYWDQ YHP
Sbjct  4174  YYSYMMPIIAMTDALAPERYFEYDVHKGYKSYDLLKYDYTEEKQELFQKYFKYWDQEYHP  4233

Query  297   NCVNCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHN  356
             NC +C DDRC++HCANFN+LFST+ P TSFG L RK+FVDGVPF+ + GYH +ELGV+ N
Sbjct  4234  NCRDCSDDRCLIHCANFNILFSTLIPQTSFGNLCRKVFVDGVPFIATCGYHSKELGVIMN  4293

Query  357   QDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFN  416
             QD  +  S++   +L+ +  DPA+   + N L+D RT+CFSV ALT+ +  QTVKPG+FN
Sbjct  4294  QDNTMSFSKMGLSQLMQFVGDPALLVGTSNNLVDLRTSCFSVCALTSGITHQTVKPGHFN  4353

Query  417   KDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVV  476
             KDFYDFA   G FKEGSS+ LKHFF+ Q GNAAI+DYDYYRYN PTM DI QLLF +EV 
Sbjct  4354  KDFYDFAEKAGMFKEGSSIPLKHFFYPQTGNAAINDYDYYRYNRPTMFDICQLLFCLEVT  4413

Query  477   DKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVI  536
              KYF+CY+GGCI A+QV+VNNLDKSAG+PFNK+GKARLYY+ MS E+QD LF  TK+NV+
Sbjct  4414  SKYFECYEGGCIPASQVVVNNLDKSAGYPFNKFGKARLYYE-MSLEEQDQLFEITKKNVL  4472

Query  537   PTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYG  596
             PTITQMNLKYAISAKNRARTVAGVSI STMTNRQFHQK+LKSI  TR A+VVIGT+KFYG
Sbjct  4473  PTITQMNLKYAISAKNRARTVAGVSILSTMTNRQFHQKILKSIVNTRNASVVIGTTKFYG  4532

Query  597   GWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLA  656
             GW NML+ +   VE+P LMGWDYPKCDRAMPN+LRI ASLVLARKHT CCS S R YRL 
Sbjct  4533  GWDNMLRNLIQGVEDPILMGWDYPKCDRAMPNLLRIAASLVLARKHTNCCSWSERIYRLY  4592

Query  657   NECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIA  716
             NECAQVLSE V+  G +YVKPGGTSSGDATTAYANSVFNI QA +ANV  LLS     I 
Sbjct  4593  NECAQVLSETVLATGGIYVKPGGTSSGDATTAYANSVFNIIQATSANVARLLSVITRDIV  4652

Query  717   DKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLV  776
                +++LQ+ LY+ +YR  + D  FV +FY+YL K+FS+MILSDD VVC+N+T A QGLV
Sbjct  4653  YDNIKSLQYELYQQVYRRVNFDPAFVEKFYSYLCKNFSLMILSDDGVVCYNNTLAKQGLV  4712

Query  777   ASIKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSR  836
             A I  F+ VLYYQNNVFM+++KCW E DL KGPHEFCSQHTMLV+   +  YLPYPDPSR
Sbjct  4713  ADISGFREVLYYQNNVFMADSKCWVEPDLEKGPHEFCSQHTMLVEVDGEPKYLPYPDPSR  4772

Query  837   ILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELT  896
             ILGA  FVDD+ KT+   ++ER+++LAIDAYPL  H N+EY  VF + L YIRKL+ EL+
Sbjct  4773  ILGACVFVDDVDKTEPVAVMERYIALAIDAYPLVHHENEEYKKVFFVLLAYIRKLYQELS  4832

Query  897   GHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
              +ML  YS ++  D  S++WE EFYE MY   T LQ
Sbjct  4833  QNMLMDYSFVMDIDKGSKFWEQEFYENMYRAPTTLQ  4868


>sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus 
512/2005 OX=693999 GN=rep PE=3 SV=1
Length=6793

 Score = 1184 bits (3063),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 560/929 (60%), Positives = 707/929 (76%), Gaps = 6/929 (1%)

Query  5     QSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDN  64
               +LNRV G SAARL P   G+ T  V+RAFD+YN  VA  +KFLK NC R +  D+ D 
Sbjct  4115  SGYLNRVRGSSAARLEPL-NGSDTHHVFRAFDVYNRDVACISKFLKVNCVRLKNLDKHD-  4172

Query  65    LIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTM  124
                ++++VK+ T S  +HE++IYNL+ DC AVAKHDFF ++    +  ++ RQ LT+YTM
Sbjct  4173  ---AFWIVKKCTKSVMEHEQSIYNLISDCGAVAKHDFFTWKEGRSVYGNVCRQDLTEYTM  4229

Query  125   ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ  184
              DL YALR+FDE NC+TLK+ILV    CD+ YF+ K W+D VEN D+ RVYA LG  V +
Sbjct  4230  MDLCYALRNFDENNCETLKKILVVVGACDESYFDNKLWFDPVENEDVHRVYAKLGTIVAR  4289

Query  185   ALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPI  244
             A+LK V++CDAM   GIVGV+TLDNQDLNG++YDFGDF+ +  G GVP+  SYYS +MP+
Sbjct  4290  AMLKCVKYCDAMVEQGIVGVITLDNQDLNGDFYDFGDFVTSVKGMGVPICTSYYSYMMPV  4349

Query  245   LTLTRALTAESHVDTDL-TKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLD  303
             + +T  L +E  + +D+  + +  +DLL YDFTE ++ LF++YFK+W QTYHPNC +C D
Sbjct  4350  MGMTNCLASECFIKSDIFGEDFRTFDLLAYDFTEHKVNLFNKYFKHWGQTYHPNCEDCHD  4409

Query  304   DRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHS  363
             + CI+HCANFN LF+T  P T+FGPL RK ++DGVP V + GYHF++LG+V N+D+NLHS
Sbjct  4410  ESCIVHCANFNTLFATTIPITAFGPLCRKCWIDGVPLVTTAGYHFKQLGIVWNKDLNLHS  4469

Query  364   SRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFA  423
             SRL+  ELL + ADP++  AS   L+DKRT CFSVAAL   +  QTVKPG+FN++FYDF 
Sbjct  4470  SRLTINELLQFCADPSLLIASSPALVDKRTVCFSVAALGTGMTNQTVKPGHFNREFYDFL  4529

Query  424   VSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCY  483
              S+GFF+EGS + LKHFFFAQ G+AA+ D+DYYRYN  T+ DI Q   V ++V  YF  Y
Sbjct  4530  RSQGFFEEGSELTLKHFFFAQKGDAAVRDFDYYRYNRTTVLDICQARVVYQIVQCYFGMY  4589

Query  484   DGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMN  543
             +GGCI A +VIVNNL+KSAG+PFNK+GKA LYYDS+SYE+QD L+AYTKRN+IPT+TQ+N
Sbjct  4590  EGGCITAKEVIVNNLNKSAGYPFNKFGKAGLYYDSLSYEEQDDLYAYTKRNIIPTMTQLN  4649

Query  544   LKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLK  603
             LKYAIS K+RARTV GVS+ STMT RQ+HQK LKSI  TRGA+VVIGT+KFYGGW NMLK
Sbjct  4650  LKYAISGKDRARTVGGVSLLSTMTTRQYHQKHLKSIVNTRGASVVIGTTKFYGGWDNMLK  4709

Query  604   TVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVL  663
             T+  DVENPHLMGWDYPKCDRA+PNM+R++++++L  KH  CCS S R+YRL NE AQVL
Sbjct  4710  TLIKDVENPHLMGWDYPKCDRALPNMIRMISAMILGSKHVNCCSSSDRYYRLCNELAQVL  4769

Query  664   SEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNL  723
             +EMV   G  YVKPGGT+SGDATTAYANSVFNI QA +ANVN LLS D N   +  V+ L
Sbjct  4770  TEMVYSNGGFYVKPGGTTSGDATTAYANSVFNIFQATSANVNRLLSVDSNTCNNIEVKQL  4829

Query  724   QHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFK  783
             Q +LY+C YR+  VD  FV E++ YLRKHFSMMILSDD VVC+NS YA+ G VA +  FK
Sbjct  4830  QRKLYDCCYRSSSVDQSFVEEYFGYLRKHFSMMILSDDGVVCYNSEYAALGYVADLNAFK  4889

Query  784   SVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCF  843
             +VLYYQNNVFMS +KCW E D+ KGPHEFCSQHTM +   D   YLPYPDPSRIL AG F
Sbjct  4890  AVLYYQNNVFMSASKCWIEPDINKGPHEFCSQHTMQIVDKDGTYYLPYPDPSRILSAGVF  4949

Query  844   VDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMY  903
             VDDIVKTD  +++ER+VSLAIDAYPL+KH N EY  VF + L +++ L+  L   +LD +
Sbjct  4950  VDDIVKTDPVILLERYVSLAIDAYPLSKHDNPEYRRVFTVMLDWVKHLYKTLNQGVLDSF  5009

Query  904   SVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             SV L  D T+++W+  FY +MY   +VLQ
Sbjct  5010  SVTLLEDATAKFWDESFYASMYEQSSVLQ  5038


>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 = 1182 bits (3057),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 581/936 (62%), Positives = 702/936 (75%), Gaps = 13/936 (1%)

Query  5     QSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQE--KDED  62
             +++LNRV G S ARL P   G   DVV RAFD+ N + AG  + LK NC RFQE    ED
Sbjct  3940  KNYLNRVRGSSEARLIPLANGCDPDVVKRAFDVCNKESAGMFQNLKRNCARFQEVRDTED  3999

Query  63    DNL--IDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
              NL   DSYFVVK+ T SNY+HE+  Y  LK     A HDFF F  +   + +ISRQRLT
Sbjct  4000  GNLEYCDSYFVVKQTTPSNYEHEKACYEDLKS-EVTADHDFFVFNKN---IYNISRQRLT  4055

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDD---DYFNK-KDWYDFVENPDILRVYA  176
             KYTM D  YALRHFD  +C+ LKEILVTY C +D    +F + KDWYD +ENP    + A
Sbjct  4056  KYTMMDFCYALRHFDPKDCEVLKEILVTYGCIEDYHPKWFEENKDWYDPIENPKYYAMLA  4115

Query  177   NLGERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDS  236
              +G  VR+ALL  ++F + M   G VGV+TLDNQDLNG +YDFGDF +T PG+GVPV D+
Sbjct  4116  KMGPIVRRALLNAIEFGNLMVEKGYVGVITLDNQDLNGKFYDFGDFQKTAPGAGVPVFDT  4175

Query  237   YYSLLMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHP  296
             YYS +MPI+ +T AL  E + + D+ K Y  +DLLKYD+TEE+  LF +YFKYWDQ YHP
Sbjct  4176  YYSYMMPIIAMTDALAPERYFEYDVHKGYKSYDLLKYDYTEEKQDLFQKYFKYWDQEYHP  4235

Query  297   NCVNCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHN  356
             NC +C DDRC++HCANFN+LFST+ P TSFG L RK+FVDGVPF+ + GYH +ELGV+ N
Sbjct  4236  NCRDCSDDRCLIHCANFNILFSTLVPQTSFGNLCRKVFVDGVPFIATCGYHSKELGVIMN  4295

Query  357   QDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFN  416
             QD  +  S++   +L+ +  DPA+   + N L+D RT+CFSV AL + +  QTVKPG+FN
Sbjct  4296  QDNTMSFSKMGLSQLMQFVGDPALLVGTSNKLVDLRTSCFSVCALASGITHQTVKPGHFN  4355

Query  417   KDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVV  476
             KDFYDFA   G FKEGSS+ LKHFF+ Q GNAAI+DYDYYRYN PTM DIRQLLF +EV 
Sbjct  4356  KDFYDFAEKAGMFKEGSSIPLKHFFYPQTGNAAINDYDYYRYNRPTMFDIRQLLFCLEVT  4415

Query  477   DKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVI  536
              KYF+CY+GGCI A+QV+VNNLDKSAG+PFNK+GKARLYY+ MS E+QD LF  TK+NV+
Sbjct  4416  SKYFECYEGGCIPASQVVVNNLDKSAGYPFNKFGKARLYYE-MSLEEQDQLFESTKKNVL  4474

Query  537   PTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYG  596
             PTITQMNLKYAISAKNRARTVAGVSI STMTNRQFHQK+LKSI  TR A VVIGT+KFYG
Sbjct  4475  PTITQMNLKYAISAKNRARTVAGVSILSTMTNRQFHQKILKSIVNTRNAPVVIGTTKFYG  4534

Query  597   GWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLA  656
             GW NML+ +   VE+P LMGWDYPKCDRAMPN+LRI ASLVLARKHT CC+ S R YRL 
Sbjct  4535  GWDNMLRNLIQGVEDPILMGWDYPKCDRAMPNLLRIAASLVLARKHTNCCTWSERVYRLY  4594

Query  657   NECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIA  716
             NECAQVLSE V+  G +YVKPGGTSSGDATTAYANSVFNI QA +ANV  LLS     I 
Sbjct  4595  NECAQVLSETVLATGGIYVKPGGTSSGDATTAYANSVFNIIQATSANVARLLSVITRDIV  4654

Query  717   DKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLV  776
                +++LQ+ LY+ +YR  + D  FV +FY+YL K+FS+MILSDD VVC+N+T A QGLV
Sbjct  4655  YDDIKSLQYELYQQVYRRVNFDPAFVEKFYSYLCKNFSLMILSDDGVVCYNNTLAKQGLV  4714

Query  777   ASIKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSR  836
             A I  F+ VLYYQNNVFM+++KCW E DL KGPHEFCSQHTMLV+   +  YLPYPDPSR
Sbjct  4715  ADISGFREVLYYQNNVFMADSKCWVEPDLEKGPHEFCSQHTMLVEVDGEPRYLPYPDPSR  4774

Query  837   ILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELT  896
             IL A  FVDD+ KT+   ++ER+++LAIDAYPL  H N+EY  VF + L YIRKL+ EL+
Sbjct  4775  ILCACVFVDDLDKTESVAVMERYIALAIDAYPLVHHENEEYKKVFFVLLSYIRKLYQELS  4834

Query  897   GHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
              +ML  YS ++  D  S++WE EFYE MY   T LQ
Sbjct  4835  QNMLMDYSFVMDIDKGSKFWEQEFYENMYRAPTTLQ  4870


>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 = 1174 bits (3037),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 556/928 (60%), Positives = 701/928 (76%), Gaps = 6/928 (1%)

Query  6     SFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDNL  65
             ++LNRV G SAARL PC  GT T  VYRAFDIYN  VA   KFLK NC R +  D+ D  
Sbjct  4105  AYLNRVRGSSAARLEPC-NGTDTQHVYRAFDIYNKDVACLGKFLKVNCVRLKNLDKHD--  4161

Query  66    IDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTMA  125
               +++VVKR T S  +HE++IY+ L+ C A+A+HDFF ++    +  ++ R+ LT+YTM 
Sbjct  4162  --AFYVVKRCTKSAMEHEQSIYSRLEKCGAIAEHDFFTWKDGRAIYGNVCRKDLTEYTMM  4219

Query  126   DLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQA  185
             DL YALR+FDE NCD LK IL+    C++ YFN K W+D VEN DI RVYA LG  V +A
Sbjct  4220  DLCYALRNFDENNCDVLKSILIKVGACEESYFNNKVWFDPVENEDIHRVYALLGTIVARA  4279

Query  186   LLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPIL  245
             +LK V+FCDAM   GIVGV+TLDNQDLNG++YDFGDF  +  G GVP+  SYYS +MP++
Sbjct  4280  MLKCVKFCDAMVEQGIVGVVTLDNQDLNGDFYDFGDFTCSIKGMGVPICTSYYSYMMPVM  4339

Query  246   TLTRALTAESHVDTDL-TKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDD  304
              +T  L +E  V +D+  + +  +DLL+YDFTE +  LF++YFKYW   YHPNCV+C D+
Sbjct  4340  GMTNCLASECFVKSDIFGEDFKSYDLLEYDFTEHKTALFNKYFKYWGLQYHPNCVDCSDE  4399

Query  305   RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSS  364
             +CI+HCANFN LFST  P T+FGPL RK ++DGVP V + GYHF++LG+V N D+NLHSS
Sbjct  4400  QCIVHCANFNTLFSTTIPITAFGPLCRKCWIDGVPLVTTAGYHFKQLGIVWNNDLNLHSS  4459

Query  365   RLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAV  424
             RLS  ELL + +DPA+  AS   L+D+RT CFSVAAL   +  QTVKPG+FNK+FYDF +
Sbjct  4460  RLSINELLQFCSDPALLIASSPALVDQRTVCFSVAALGTGMTNQTVKPGHFNKEFYDFLL  4519

Query  425   SKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYD  484
              +GFF EGS + LKHFFFAQ  +AA+ D+DYYRYN PT+ DI Q   V ++V +YFD Y+
Sbjct  4520  EQGFFSEGSELTLKHFFFAQKVDAAVKDFDYYRYNRPTVLDICQARVVYQIVQRYFDIYE  4579

Query  485   GGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNL  544
             GGCI A +V+V NL+KSAG+P NK+GKA LYY+S+SYE+QD L+AYTKRN++PT+TQ+NL
Sbjct  4580  GGCITAKEVVVTNLNKSAGYPLNKFGKAGLYYESLSYEEQDELYAYTKRNILPTMTQLNL  4639

Query  545   KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT  604
             KYAIS K RARTV GVS+ STMT RQ+HQK LKSI  TRGA+VVIGT+KFYGGW NMLK 
Sbjct  4640  KYAISGKERARTVGGVSLLSTMTTRQYHQKHLKSIVNTRGASVVIGTTKFYGGWDNMLKN  4699

Query  605   VYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLS  664
             +   VENP LMGWDYPKCDRA+PNM+R++++++L  KHTTCCS + RF+RL NE AQVL+
Sbjct  4700  LIDGVENPCLMGWDYPKCDRALPNMIRMISAMILGSKHTTCCSSTDRFFRLCNELAQVLT  4759

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ  724
             E+V   G  Y+KPGGT+SGDATTAYANSVFNI QAV+ANVN LLS D N   +  V+ LQ
Sbjct  4760  EVVYSNGGFYLKPGGTTSGDATTAYANSVFNIFQAVSANVNKLLSVDSNVCHNLEVKQLQ  4819

Query  725   HRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKS  784
              +LYEC YR+  VD  FV E+Y YLRKHFSMMILSDD VVC+N+ YAS G VA +  FK+
Sbjct  4820  RKLYECCYRSTIVDDQFVVEYYGYLRKHFSMMILSDDGVVCYNNDYASLGYVADLNAFKA  4879

Query  785   VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFV  844
             VLYYQNNVFMS +KCW E D+ KGPHEFCSQHTM +   +   YLPYPDPSRIL AG FV
Sbjct  4880  VLYYQNNVFMSASKCWIEPDINKGPHEFCSQHTMQIVDKEGTYYLPYPDPSRILSAGVFV  4939

Query  845   DDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYS  904
             DD+VKTD  +++ER+VSLAIDAYPL+KH N EY  VF++ L +++ L+  L   +L+ +S
Sbjct  4940  DDVVKTDAVVLLERYVSLAIDAYPLSKHENPEYKKVFYVLLDWVKHLYKTLNAGVLESFS  4999

Query  905   VMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             V L  D+T+++W+  FY  MY    VLQ
Sbjct  5000  VTLLEDSTAKFWDESFYANMYEKSAVLQ  5027


>sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavirus 
229E OX=11137 GN=rep PE=1 SV=1
Length=6758

 Score = 1163 bits (3009),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 546/928 (59%), Positives = 697/928 (75%), Gaps = 6/928 (1%)

Query  6     SFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDNL  65
             S+LNRV G SAARL PC  GT  D   RAFD+YN   +   K LK+NC RF+  D+DD  
Sbjct  4073  SYLNRVRGSSAARLEPC-NGTDIDYCVRAFDVYNKDASFIGKNLKSNCVRFKNVDKDD--  4129

Query  66    IDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTMA  125
               ++++VKR   S   HE+++YNLLK C AVAKHDFF +     +  ++SRQ LTKYTM 
Sbjct  4130  --AFYIVKRCIKSVMDHEQSMYNLLKGCNAVAKHDFFTWHEGRTIYGNVSRQDLTKYTMM  4187

Query  126   DLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQA  185
             DL +ALR+FDE +C+  KEILV   CC  DYF  K+W+D +EN DI RVYA LG+ V  A
Sbjct  4188  DLCFALRNFDEKDCEVFKEILVLTGCCSTDYFEMKNWFDPIENEDIHRVYAALGKVVANA  4247

Query  186   LLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPIL  245
             +LK V FCD M   G+VGVLTLDNQDLNGN+YDFGDF+   PG G+P   SYYS +MP++
Sbjct  4248  MLKCVAFCDEMVLKGVVGVLTLDNQDLNGNFYDFGDFVLCPPGMGIPYCTSYYSYMMPVM  4307

Query  246   TLTRALTAESHVDTDL-TKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDD  304
              +T  L +E  + +D+  + +  +DLLKYDFTE +  LF++YFKYW Q YHP+CV+C D+
Sbjct  4308  GMTNCLASECFMKSDIFGQDFKTFDLLKYDFTEHKEVLFNKYFKYWGQDYHPDCVDCHDE  4367

Query  305   RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSS  364
              CILHC+NFN LF+T  P T+FGPL RK+F+DGVP V + GYHF++LG+V N+DVN HS+
Sbjct  4368  MCILHCSNFNTLFATTIPNTAFGPLCRKVFIDGVPVVATAGYHFKQLGLVWNKDVNTHST  4427

Query  365   RLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAV  424
             RL+  ELL +  DP +  AS   L+DKRT CFSVAAL+  +  QTVKPG+FNK+FYDF  
Sbjct  4428  RLTITELLQFVTDPTLIVASSPALVDKRTVCFSVAALSTGLTSQTVKPGHFNKEFYDFLR  4487

Query  425   SKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYD  484
             S+GFF EGS + LKHFFF Q G+AAI D+DYYRYN PTM DI Q     +V  +YFDCY+
Sbjct  4488  SQGFFDEGSELTLKHFFFTQKGDAAIKDFDYYRYNRPTMLDIGQARVAYQVAARYFDCYE  4547

Query  485   GGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNL  544
             GGCI + +V+V NL+KSAG+P NK+GKA LYY+S+SYE+QDA+F+ TKRN++PT+TQ+NL
Sbjct  4548  GGCITSREVVVTNLNKSAGWPLNKFGKAGLYYESISYEEQDAIFSLTKRNILPTMTQLNL  4607

Query  545   KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT  604
             KYAIS K RARTV GVS+ +TMT RQFHQK LKSI ATR ATVVIGT+KFYGGW NMLK 
Sbjct  4608  KYAISGKERARTVGGVSLLATMTTRQFHQKCLKSIVATRNATVVIGTTKFYGGWDNMLKN  4667

Query  605   VYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLS  664
             + +DV++P LMGWDYPKCDRAMP+M+R++++++L  KH TCC+ S +FYRL+NE AQVL+
Sbjct  4668  LMADVDDPKLMGWDYPKCDRAMPSMIRMLSAMILGSKHVTCCTASDKFYRLSNELAQVLT  4727

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ  724
             E+V   G  Y KPGGT+SGDATTAYANSVFNI QAV++N+N +LS + +   +  V+ LQ
Sbjct  4728  EVVYSNGGFYFKPGGTTSGDATTAYANSVFNIFQAVSSNINCVLSVNSSNCNNFNVKKLQ  4787

Query  725   HRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKS  784
              +LY+  YRN +VD  FV++FY YL+KHFSMMILSDD+VVC+N TYA  G +A I  FK+
Sbjct  4788  RQLYDNCYRNSNVDESFVDDFYGYLQKHFSMMILSDDSVVCYNKTYAGLGYIADISAFKA  4847

Query  785   VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFV  844
              LYYQN VFMS AKCWTE DL+ GPHEFCSQHTM +   +   YLPYPDPSRI+ AG FV
Sbjct  4848  TLYYQNGVFMSTAKCWTEEDLSIGPHEFCSQHTMQIVDENGKYYLPYPDPSRIISAGVFV  4907

Query  845   DDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYS  904
             DDI KTD  +++ER+VSLAIDAYPL+KHP  EY  VF+  L +++ L+  L   +L+ +S
Sbjct  4908  DDITKTDAVILLERYVSLAIDAYPLSKHPKPEYRKVFYALLDWVKHLNKTLNEGVLESFS  4967

Query  905   VMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             V L +++ S++W+  FY +MY   TVLQ
Sbjct  4968  VTLLDEHESKFWDESFYASMYEKSTVLQ  4995


>sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavirus 
NL63 OX=277944 GN=rep PE=1 SV=1
Length=6729

 Score = 1151 bits (2977),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 549/929 (59%), Positives = 694/929 (75%), Gaps = 8/929 (1%)

Query  6     SFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDNL  65
             S+LNR  G SAARL PC  GT  D   RAFDIYN  V+   K LK NC RF+  D    L
Sbjct  4048  SYLNRARGSSAARLEPC-NGTDIDKCVRAFDIYNKNVSFLGKCLKMNCVRFKNAD----L  4102

Query  66    IDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMV-PHISRQRLTKYTM  124
              D YFV+KR T S  +HE+++YNLL    A+A+HDFF ++ DG ++  ++SR  LTKYTM
Sbjct  4103  KDGYFVIKRCTKSVMEHEQSMYNLLNFSGALAEHDFFTWK-DGRVIYGNVSRHNLTKYTM  4161

Query  125   ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ  184
              DLVYA+R+FDE NCD LKE+LV   CCD+ YF+ K WYD VEN DI RVYA+LG+ V +
Sbjct  4162  MDLVYAMRNFDEQNCDVLKEVLVLTGCCDNSYFDSKGWYDPVENEDIHRVYASLGKIVAR  4221

Query  185   ALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPI  244
             A+LK V  CDAM   G+VGVLTLDNQDLNGN+YDFGDF+ + P  GVP   SYYS +MPI
Sbjct  4222  AMLKCVALCDAMVAKGVVGVLTLDNQDLNGNFYDFGDFVVSLPNMGVPCCTSYYSYMMPI  4281

Query  245   LTLTRALTAESHVDTDLTKPYIK-WDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLD  303
             + LT  L +E  V +D+     K +DLLKYDFTE +  LF++YFK+W   YHPNC +C D
Sbjct  4282  MGLTNCLASECFVKSDIFGSDFKTFDLLKYDFTEHKENLFNKYFKHWSFDYHPNCSDCYD  4341

Query  304   DRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHS  363
             D C++HCANFN LF+T  P T+FGPL RK+F+DGVP V + GYHF++LG+V N+DVN HS
Sbjct  4342  DMCVIHCANFNTLFATTIPGTAFGPLCRKVFIDGVPLVTTAGYHFKQLGLVWNKDVNTHS  4401

Query  364   SRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFA  423
              RL+  ELL +  DP++  AS   L+D+RT CFSVAAL+  +  Q VKPG+FN++FY+F 
Sbjct  4402  VRLTITELLQFVTDPSLIIASSPALVDQRTICFSVAALSTGLTNQVVKPGHFNEEFYNFL  4461

Query  424   VSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCY  483
               +GFF EGS + LKHFFFAQ+G+AA+ D+D+YRYN PT+ DI Q     ++V +YFD Y
Sbjct  4462  RLRGFFDEGSELTLKHFFFAQNGDAAVKDFDFYRYNKPTILDICQARVTYKIVSRYFDIY  4521

Query  484   DGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMN  543
             +GGCI A +V+V NL+KSAG+P NK+GKA LYY+S+SYE+QDALFA TKRNV+PT+TQ+N
Sbjct  4522  EGGCIKACEVVVTNLNKSAGWPLNKFGKASLYYESISYEEQDALFALTKRNVLPTMTQLN  4581

Query  544   LKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLK  603
             LKYAIS K RARTV GVS+ STMT RQ+HQK LKSI  TR ATVVIGT+KFYGGW+NML+
Sbjct  4582  LKYAISGKERARTVGGVSLLSTMTTRQYHQKHLKSIVNTRNATVVIGTTKFYGGWNNMLR  4641

Query  604   TVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVL  663
             T+   VENP LMGWDYPKCDRA+PNM+R+++++VL  KH  CC+ + RFYRL NE AQVL
Sbjct  4642  TLIDGVENPMLMGWDYPKCDRALPNMIRMISAMVLGSKHVNCCTATDRFYRLGNELAQVL  4701

Query  664   SEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNL  723
             +E+V   G  Y KPGGT+SGDA+TAYANS+FNI QAV++N+N LLS   +   +  VR+L
Sbjct  4702  TEVVYSNGGFYFKPGGTTSGDASTAYANSIFNIFQAVSSNINRLLSVPSDSCNNVNVRDL  4761

Query  724   QHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFK  783
             Q RLY+  YR   V+  F++++Y YLRKHFSMMILSDD VVC+N  YA  G +A I  FK
Sbjct  4762  QRRLYDNCYRLTSVEESFIDDYYGYLRKHFSMMILSDDGVVCYNKDYAELGYIADISAFK  4821

Query  784   SVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCF  843
             + LYYQNNVFMS +KCW E DLTKGPHEFCSQHTM +   D   YLPYPDPSRIL AG F
Sbjct  4822  ATLYYQNNVFMSTSKCWVEEDLTKGPHEFCSQHTMQIVDKDGTYYLPYPDPSRILSAGVF  4881

Query  844   VDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMY  903
             VDD+VKTD  +++ER+VSLAIDAYPL+KHPN EY  VF++ L +++ L+  L   +L+ +
Sbjct  4882  VDDVVKTDAVVLLERYVSLAIDAYPLSKHPNSEYRKVFYVLLDWVKHLNKNLNEGVLESF  4941

Query  904   SVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             SV L ++   ++W  +FY +MY   T+LQ
Sbjct  4942  SVTLLDNQEDKFWCEDFYASMYENSTILQ  4970


>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 = 1142 bits (2953),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 552/929 (59%), Positives = 689/929 (74%), Gaps = 6/929 (1%)

Query  5     QSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDDN  64
             QS+LNRV G SAARL PC  GT  D V RAFDIYN  VA   KFLKTNC RF+  D+ D 
Sbjct  4004  QSYLNRVRGSSAARLEPC-NGTDPDHVSRAFDIYNKDVACIGKFLKTNCSRFRNLDKHD-  4061

Query  65    LIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTM  124
                +Y++VKR T +   HE+  YN LKD  AVA+HDFF ++       +++R+ LTKYTM
Sbjct  4062  ---AYYIVKRCTKTVMDHEQVCYNDLKDSGAVAEHDFFTYKEGRCEFGNVARRNLTKYTM  4118

Query  125   ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ  184
              DL YA+R+FDE NC+ LKEILVT   C +++F  KDW+D VEN  I  VYA LG  V  
Sbjct  4119  MDLCYAIRNFDEKNCEVLKEILVTVGACTEEFFENKDWFDPVENEAIHEVYAKLGPIVAN  4178

Query  185   ALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPI  244
             A+LK V FCDA+   G +GV+TLDNQDLNGN+YDFGDF++T PG G   V SYYS +MP+
Sbjct  4179  AMLKCVAFCDAIVEKGYIGVITLDNQDLNGNFYDFGDFVKTAPGFGCACVTSYYSYMMPL  4238

Query  245   LTLTRALTAESHVDTDL-TKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLD  303
             + +T  L +E+ V +D+    Y ++DLL YDFTE +  LF +YFKYWD+TYHPNC +C  
Sbjct  4239  MGMTSCLESENFVKSDIYGSDYKQYDLLAYDFTEHKEYLFQKYFKYWDRTYHPNCSDCTS  4298

Query  304   DRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHS  363
             D CI+HCANFN LFS   P T+FGPLVRK+ +DGVP VV+ GYHF++LG+V N DV L +
Sbjct  4299  DECIIHCANFNTLFSMTIPMTAFGPLVRKVHIDGVPVVVTAGYHFKQLGIVWNLDVKLDT  4358

Query  364   SRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFA  423
              +LS  +LL +  DP +  AS   LLD+RT CFS+AAL+  + +QTVKPG+FNKDFYDF 
Sbjct  4359  MKLSMTDLLRFVTDPTLLVASSPALLDQRTVCFSIAALSTGITYQTVKPGHFNKDFYDFI  4418

Query  424   VSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCY  483
               +GFF+EGS + LKHFFFAQ G AA++D++YYRYN  T+ DI Q  FV ++V KYF+CY
Sbjct  4419  TERGFFEEGSELTLKHFFFAQGGEAAMTDFNYYRYNRVTVLDICQAQFVYKIVGKYFECY  4478

Query  484   DGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMN  543
             DGGCINA +V+V N DKSAG+P NK+GKARLYY+++SYE+QDALFA TKRNV+PT+TQMN
Sbjct  4479  DGGCINAREVVVTNYDKSAGYPLNKFGKARLYYETLSYEEQDALFALTKRNVLPTMTQMN  4538

Query  544   LKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLK  603
             LKYAIS K RARTV GVS+ STMT RQ+HQK LKSIAATR ATVVIG++KFYGGW NMLK
Sbjct  4539  LKYAISGKARARTVGGVSLLSTMTTRQYHQKHLKSIAATRNATVVIGSTKFYGGWDNMLK  4598

Query  604   TVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVL  663
              +  DV+N  LMGWDYPKCDRA+PNM+R+ ++++L  KH  CC+ + RFYRL+NE AQVL
Sbjct  4599  NLMRDVDNGCLMGWDYPKCDRALPNMIRMASAMILGSKHVGCCTHNDRFYRLSNELAQVL  4658

Query  664   SEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNL  723
             +E+V C G  Y KPGGT+SGD TTAYANS FNI QAV+ANVN LL  D N   +  V+++
Sbjct  4659  TEVVHCTGGFYFKPGGTTSGDGTTAYANSAFNIFQAVSANVNKLLGVDSNACNNVTVKSI  4718

Query  724   QHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFK  783
             Q ++Y+  YR+  +D +FV E+++YLRKHFSMMILSDD VVC+N  YA  G VA I  FK
Sbjct  4719  QRKIYDNCYRSSSIDEEFVVEYFSYLRKHFSMMILSDDGVVCYNKDYADLGYVADINAFK  4778

Query  784   SVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCF  843
             + LYYQNNVFMS +KCW E DL+ GPHEFCSQHT+ +   D   YLPYPDPSRIL AG F
Sbjct  4779  ATLYYQNNVFMSTSKCWVEPDLSVGPHEFCSQHTLQIVGPDGDYYLPYPDPSRILSAGVF  4838

Query  844   VDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMY  903
             VDDIVKTD  +M+ER+VSLAIDAYPLTKHP   Y  VF+  L +++ L   L   +LD +
Sbjct  4839  VDDIVKTDNVIMLERYVSLAIDAYPLTKHPKPAYQKVFYTLLDWVKHLQKNLNAGVLDSF  4898

Query  904   SVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             SV +  +   ++W  EFY ++Y   TVLQ
Sbjct  4899  SVTMLEEGQDKFWSEEFYASLYEKSTVLQ  4927


>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 = 1128 bits (2917),  Expect = 0.0, Method: Compositional matrix adjust.
 Identities = 550/930 (59%), Positives = 686/930 (74%), Gaps = 8/930 (1%)

Query  5     QSFLNRVCGVSAAR-LTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDD  63
             QS+LN  CGV     L PC  GT  D V RAFDIYN  VA   KFLKTNC RF+  D+ D
Sbjct  4029  QSYLNE-CGVLVQLDLEPC-NGTDPDHVSRAFDIYNKDVACIGKFLKTNCSRFRNLDKHD  4086

Query  64    NLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYT  123
                 +Y+VVKR T S   HE+  YN LKD   VA+HDFF ++       +++R+ LTKYT
Sbjct  4087  ----AYYVVKRCTKSVMDHEQVCYNDLKDSGVVAEHDFFLYKEGRCEFGNVARKDLTKYT  4142

Query  124   MADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVR  183
             M DL YA+R+FDE NC+ LKEILVT   C++ +F  KDW+D VEN  I  VYA LG  V 
Sbjct  4143  MMDLCYAIRNFDEKNCEVLKEILVTLGACNESFFENKDWFDPVENEAIHEVYARLGPIVA  4202

Query  184   QALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMP  243
              A+LK V FCDA+   G +G++TLDNQDLNGN+YDFGDF++TTPG G   V SYYS +MP
Sbjct  4203  NAMLKCVAFCDAIVEKGYIGIITLDNQDLNGNFYDFGDFVKTTPGFGCACVTSYYSYMMP  4262

Query  244   ILTLTRALTAESHVDTDL-TKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCL  302
             ++ +T  L +E+ V +D+    Y ++DLL YDFT+ + KLF +YFK+WD+TYHPNC +C 
Sbjct  4263  LMGMTSCLESENFVKSDIYGADYKQYDLLAYDFTDHKEKLFHKYFKHWDRTYHPNCSDCT  4322

Query  303   DDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLH  362
              D CI+HCANFN LFS   P T+FGPLVRK+ +DGVP VV+ GYHF++LG+V N DV L 
Sbjct  4323  SDECIIHCANFNTLFSMTIPSTAFGPLVRKVHIDGVPVVVTAGYHFKQLGIVWNLDVKLD  4382

Query  363   SSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDF  422
             + +LS  +LL +  DP +  AS   LLD+RT CFS+AAL+  V +QTVKPG+FNKDFYDF
Sbjct  4383  TMKLSMTDLLRFVTDPTLLVASSPALLDQRTVCFSIAALSTGVTYQTVKPGHFNKDFYDF  4442

Query  423   AVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDC  482
                +GFF+EGS + LKHFFFAQ G AA++D++YYRYN  T+ DI Q  FV ++V KYF+C
Sbjct  4443  ITERGFFEEGSELTLKHFFFAQGGEAAMTDFNYYRYNRVTVLDICQAQFVYKIVGKYFEC  4502

Query  483   YDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQM  542
             YDGGCINA +V+V N DKSAG+P NK+GKARLYY+++SYE+QDALFA TKRNV+PT+TQM
Sbjct  4503  YDGGCINAREVVVTNYDKSAGYPLNKFGKARLYYETLSYEEQDALFALTKRNVLPTMTQM  4562

Query  543   NLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNML  602
             NLKYAIS K RARTV GVS+ STMT RQ+HQK LKSIAATR ATVVIG++KFYGGW NML
Sbjct  4563  NLKYAISGKARARTVGGVSLLSTMTTRQYHQKHLKSIAATRNATVVIGSTKFYGGWDNML  4622

Query  603   KTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQV  662
             K +  DV+N  LMGWDYPKCDRA+PNM+R+ ++++L  KH  CC+ S RFYRL+NE AQV
Sbjct  4623  KNLMRDVDNGCLMGWDYPKCDRALPNMIRMASAMILGSKHVGCCTHSDRFYRLSNELAQV  4682

Query  663   LSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRN  722
             L+E+V C G  Y KPGGT+SGD TTAYANS FNI QAV+ANVN LL  D N   +  V++
Sbjct  4683  LTEVVHCTGGFYFKPGGTTSGDGTTAYANSAFNIFQAVSANVNKLLGVDSNACNNVTVKS  4742

Query  723   LQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNF  782
             +Q ++Y+  YR+  +D +FV E+++YLRKHFSMMILSDD VVC+N  YA  G VA I  F
Sbjct  4743  IQRKIYDNCYRSSSIDEEFVVEYFSYLRKHFSMMILSDDGVVCYNKDYADLGYVADINAF  4802

Query  783   KSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGC  842
             K+ LYYQNNVFMS +KCW E DL+ GPHEFCSQHT+ +   D   YLPYPDPSRIL AG 
Sbjct  4803  KATLYYQNNVFMSTSKCWVEPDLSVGPHEFCSQHTLQIVGPDGDYYLPYPDPSRILSAGV  4862

Query  843   FVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDM  902
             FVDDIVKTD  +M+ER+VSLAIDAYPLTKHP   Y  VF+  L +++ L   L   +LD 
Sbjct  4863  FVDDIVKTDNVIMLERYVSLAIDAYPLTKHPKPAYQKVFYTLLDWVKHLQKNLNAGVLDS  4922

Query  903   YSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             +SV +  +   ++W  EFY ++Y   TVLQ
Sbjct  4923  FSVTMLEEGQDKFWSEEFYASLYEKSTVLQ  4952


>sp|Q9WQ77|R1AB_CVRSD Replicase polyprotein 1ab (Fragment) OS=Rat 
coronavirus (strain 681) OX=33740 GN=rep PE=3 SV=1
Length=307

 Score = 483 bits (1242),  Expect = 2e-163, Method: Compositional matrix adjust.
 Identities = 225/307 (73%), Positives = 266/307 (87%), Gaps = 0/307 (0%)

Query  506  FNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICST  565
            FNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNLKYAISAKNRARTVAGVSI ST
Sbjct  1    FNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNLKYAISAKNRARTVAGVSILST  60

Query  566  MTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRA  625
            MT R FHQK LKSIAATRG  VVIGT+KFYGGW +ML+ +  DV++P LMGWDYPKCDRA
Sbjct  61   MTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRRLIKDVDSPVLMGWDYPKCDRA  120

Query  626  MPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDA  685
            MPN+LRI++SLVLARKH +CCS + RFYRLANECAQVLSE+VMCGG  YVKPGGTSSGDA
Sbjct  121  MPNILRIVSSLVLARKHDSCCSHTDRFYRLANECAQVLSEIVMCGGCYYVKPGGTSSGDA  180

Query  686  TTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEF  745
            TTA+ANSVFNICQAV+ANV +L++ +G+KI D  +R LQ RLY  +YR   VD  FV+E+
Sbjct  181  TTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQKRLYSNVYRADHVDPAFVSEY  240

Query  746  YAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEAKCWTETDL  805
            Y +L KHFSMMILSDD VVC+NS +AS+G +A+I  F+ VLYYQNNVFMSEAKCW ETD+
Sbjct  241  YEFLNKHFSMMILSDDGVVCYNSEFASKGYIANISAFQQVLYYQNNVFMSEAKCWVETDI  300

Query  806  TKGPHEF  812
             KGPHEF
Sbjct  301  EKGPHEF  307


>sp|Q9WQ76|R1AB_CVTMI Replicase polyprotein 1ab (Fragment) OS=Turkey 
coronavirus (strain Minnesota) OX=231430 GN=rep PE=3 
SV=1
Length=306

 Score = 444 bits (1142),  Expect = 2e-148, Method: Compositional matrix adjust.
 Identities = 213/307 (69%), Positives = 248/307 (81%), Gaps = 1/307 (0%)

Query  506  FNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICST  565
            FNK+GKARLYY+ MS E+QD LF  TK+NV+PTITQMNLKYAISAKNRARTVAGVSI ST
Sbjct  1    FNKFGKARLYYE-MSLEEQDQLFESTKKNVLPTITQMNLKYAISAKNRARTVAGVSILST  59

Query  566  MTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRA  625
            MTNRQFHQK+LKSI  TR A VVIGT+KFYGGW NML+ +   VE+P LMGWDYPKCDRA
Sbjct  60   MTNRQFHQKILKSIVNTRNAPVVIGTTKFYGGWDNMLRNLIQGVEDPILMGWDYPKCDRA  119

Query  626  MPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDA  685
            MPN+LRI ASLVLARKHT CC+ S R YRL NECAQVLSE V+  G +YVKPGGTSSGDA
Sbjct  120  MPNLLRITASLVLARKHTNCCTWSERIYRLYNECAQVLSETVLATGGIYVKPGGTSSGDA  179

Query  686  TTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEF  745
            TTAYANSVFNI QA +ANV  LLS     I    +++LQ+ LY+ +YR  + D  FV +F
Sbjct  180  TTAYANSVFNIIQATSANVARLLSVITRDIVYDDIKSLQYELYQQVYRRVNFDPAFVEKF  239

Query  746  YAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEAKCWTETDL  805
            Y+YL K+FS+MI +DD VVC+N+T A QGLVA I  F+ +LYYQNNV+M+++KCW E DL
Sbjct  240  YSYLCKNFSLMIFADDGVVCYNNTLAKQGLVADISGFREILYYQNNVYMADSKCWVEPDL  299

Query  806  TKGPHEF  812
             KGPHEF
Sbjct  300  EKGPHEF  306


>sp|P0C6V7|R1AB_BEV Replicase polyprotein 1ab OS=Berne virus OX=11156 
GN=rep PE=1 SV=1
Length=6857

 Score = 131 bits (329),  Expect = 2e-29, Method: Compositional matrix adjust.
 Identities = 121/489 (25%), Positives = 219/489 (45%), Gaps = 46/489 (9%)

Query  419   FYDFAVSKGFFKEGSSV--ELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVV  476
             FYD  + +     G       K+F++  +   A++D  YY Y        + L  V + +
Sbjct  4909  FYDVGLCQELTDAGVDCGEAFKYFYYLSNPAGALADVCYYDYQGTGFYSPKLLAGVYDFM  4968

Query  477   DKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWG-KARLYYDSMSYEDQDALFAYTKRNV  535
              +  +CY    IN          + +    N  G +    Y ++  E+   LF Y ++  
Sbjct  4969  KRVTECYR---INERFTYEQAKPRKSSMGINITGYQQDAVYRALGPENIARLFEYAQKAP  5025

Query  536   IPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKL---LKSIAATRGATVVIGTS  592
             +P  T++  K+A+SAK RARTV+  S  ++   R  H+ +   +  +A   G   +IG S
Sbjct  5026  LPFCTKIITKFALSAKARARTVSSCSFIASTIFRFAHKPVTSKMVEVAQNSGGFCLIGVS  5085

Query  593   KFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRF  652
             K+   +   LK  Y  +E   + G DY KCDR  P   R + + +L            + 
Sbjct  5086  KYGLKFSKFLKDKYGAIEGFDVFGSDYTKCDRTFPLSFRALTAALLYE----LGEWDEKS  5141

Query  653   YRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLS--T  710
             +   NE    + + ++C G L  KPGGTSSGDATTA++N+ +N           +LS  +
Sbjct  5142  WLYLNEVNSYMLDTMLCDGMLLNKPGGTSSGDATTAHSNTFYNYMVHYVVAFKTILSDLS  5201

Query  711   DGNKIADKYVRNL----QHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCF  766
             +GNK+      N      ++++  L  ++     F+N              LSDD+ + F
Sbjct  5202  EGNKVMRIAAHNAYTTGDYQVFNTLLEDQFQTNYFLN-------------FLSDDSFI-F  5247

Query  767   NSTYASQGLVASIKNFKSVLYYQNNVFMSEAKCWTETDLTKGP-HEFCSQHTMLVKQGDD  825
             +   A +  + + +NF + L    +  + + K W+    TKG   EFCS H  ++K   +
Sbjct  5248  SKPEALK--IFTCENFSNKLQTILHTKVDQTKSWS----TKGHIEEFCSAH--IIKTDGE  5299

Query  826   YVYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYL  885
             Y +L  P   R+L +   +D +   D   M  RFV++  ++   +++  + +  +F ++L
Sbjct  5300  YHFL--PSRGRLLASLLILDKLSDVDIYYM--RFVAILCESAVYSRYQPEFFNGLFQVFL  5355

Query  886   QYIRKLHDE  894
               +++   +
Sbjct  5356  DKVQQFRKD  5364


 Score = 42.4 bits (98),  Expect = 0.025, Method: Compositional matrix adjust.
 Identities = 43/156 (28%), Positives = 68/156 (44%), Gaps = 32/156 (21%)

Query  79    NYQHEETIYNLLKDCP--AVAKHDFFKFRIDGDMVPH----------ISRQRLTKYTMAD  126
              YQ +  +   +KD    A+AK  F        ++PH          + R   +++++ D
Sbjct  4618  EYQSKRFMIKRVKDQSEFALAKTAFLP-----SIIPHHMEKQNGEWFLIRGPTSQWSLGD  4672

Query  127   LVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQAL  186
             LVYA+   D+   D L E    +N   D++ +  +   F+         ANL E    A+
Sbjct  4673  LVYAIWLGDQ---DYLSECGFVFNPSRDEFLDDANQRSFL---------ANLLE---PAI  4717

Query  187   LKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDF  222
             L        ++   +   LTLDN DLNG  YDFGD+
Sbjct  4718  LNFSHIYWQVKMCKVPYKLTLDNVDLNGQLYDFGDY  4753


>sp|P0C6V8|R1AB_BRV1 Replicase polyprotein 1ab OS=Breda virus 
1 OX=360393 GN=rep PE=2 SV=1
Length=6733

 Score = 117 bits (292),  Expect = 5e-25, Method: Compositional matrix adjust.
 Identities = 114/468 (24%), Positives = 204/468 (44%), Gaps = 42/468 (9%)

Query  437   LKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVN  496
              K+F++  +   A++D  +Y Y        + L  V + + +   CY     +       
Sbjct  4805  FKYFYYLSNPAGALADVCFYDYQGTGFYSPKLLAGVYDFMKRVTTCYK---TDERFTYEQ  4861

Query  497   NLDKSAGFPFNKWG-KARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRAR  555
                + +    N  G +    Y ++  E+   LF Y ++  +P  T++  K+A+SAK RAR
Sbjct  4862  AKPRKSSMGINITGYQQDAVYRALGPENITKLFEYAQKAPLPFCTKIITKFALSAKARAR  4921

Query  556   TVAGVSICSTMTNRQFHQKL---LKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP  612
             TV+  S  ++   R  H+ +   +  +A       +IG SK+   +   LK  Y  +E  
Sbjct  4922  TVSSCSFIASTIFRFAHKPVTSKMVEVAQNSQGFCLIGVSKYGLKFSKFLKDKYGAIEQF  4981

Query  613   HLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGS  672
              + G DY KCDR  P   R + + +L              +   NE    + + ++C G 
Sbjct  4982  DVFGSDYTKCDRTFPLSFRALTAALLYELG----GWEEDSWLYLNEVNSYMLDTMLCDGM  5037

Query  673   LYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLS--TDGNKIADKYVRNLQHRLYEC  730
             L  KPGGTSSGDATTA++N+ +N           +LS  +D NK+    +R   H  Y  
Sbjct  5038  LLNKPGGTSSGDATTAHSNTFYNYMVHYVVAFKTILSDLSDCNKV----MRIAAHNAYT-  5092

Query  731   LYRNRDVDTDFVNEFYAYLRKHFS----MMILSDDAVVCFNSTYASQGLVASIKNFKSVL  786
                     T     F   L + F     +  LSDD+ + F+   A +  + + +NF + L
Sbjct  5093  --------TGDYGVFNTLLEEQFQTNYFLNFLSDDSFI-FSKPGALK--IFTCENFSNKL  5141

Query  787   YYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDD  846
                 +  +   K W  T   +   EFCS H  ++K   +Y +L  P   R+L +   +D 
Sbjct  5142  QTILHTKVDLTKSWATTGHIE---EFCSAH--IIKTDGEYHFL--PSRGRLLASLLILDK  5194

Query  847   IVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDE  894
             +   D   M  RFV++  ++   +++  + +  +F ++L  +++   +
Sbjct  5195  LSDVDIYYM--RFVAILCESAVYSRYQPEFFNGLFQVFLDKVQQFRKD  5240


 Score = 41.2 bits (95),  Expect = 0.068, Method: Compositional matrix adjust.
 Identities = 36/133 (27%), Positives = 59/133 (44%), Gaps = 20/133 (15%)

Query  95    AVAKHDFFKFRIDGDMVPH-----ISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTY  149
             A+A+  F    I   MV       + R   T++++ DLVYA+   D+   D   E    +
Sbjct  4512  ALARTAFLPSIIPHHMVHQNGEWFLVRGPTTQWSLGDLVYAIWLGDQAYLD---ECGFVF  4568

Query  150   NCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQALLKTVQFCDAMRNAGIVGVLTLDN  209
             N   D++ +  +   ++         ANL E    A+L   +    ++   +   +TLDN
Sbjct  4569  NPSRDEFLDDANQRSYL---------ANLLE---PAILSFCEIFHCVKGCQVPYKITLDN  4616

Query  210   QDLNGNWYDFGDF  222
              DL G  YDFGD+
Sbjct  4617  LDLKGQLYDFGDY  4629


>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 = 100 bits (248),  Expect = 6e-20, Method: Compositional matrix adjust.
 Identities = 113/448 (25%), Positives = 188/448 (42%), Gaps = 56/448 (13%)

Query  415   FNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNA--AISDYDYYRYNLPTMCDIRQLLFV  472
             + + FYD  + +     G ++     +  Q G    A+ D+ YY YN P   D   L  V
Sbjct  4888  YKRPFYDLDLIQRMNSAGLNLSETTGYHYQCGTTTEAVEDFMYYNYNSPKSFDPSYLKSV  4947

Query  473   VEVV-DKYFDCYDGGCINANQVIVNNLDKSAGFP-FNKWGKA------RLYYDSMSYEDQ  524
                + DK+        I+ ++     L+  +G P  +  G        +  ++++  +  
Sbjct  4948  YTYMRDKFMKI-----ISTDE----KLNHQSGAPRMSSMGVGVSGFFQKTVWNALPEDFS  4998

Query  525   DALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRG  584
               L     + V+P  T +  K+    K R RT+ G S  ++   R  H+ +   +  T  
Sbjct  4999  PRLLDTASKTVMPFSTNIVKKFQRQKKTRVRTLGGSSFITSSIFRMLHKPVTNKMVQTAQ  5058

Query  585   ATV---VIGTSKFYGGWHNMLKTVYSD-VENPHLMGWDYPKCDRAMPNMLRIM-ASLVLA  639
             A +   +IG SKF  G+H  L   + + +E+  +MG DY KCDR+ P + R + A+L   
Sbjct  5059  ANIGPFLIGISKFNLGFHKYLSAHHPNGIEDCQVMGADYTKCDRSFPVVCRALSAALFYE  5118

Query  640   RKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQA  699
               H     L    +   NE    L +     G ++ KPGGT+SGD+TTA++NS +N    
Sbjct  5119  LGH-----LEPNNHWFLNEMFAFLLDPSFISGHIFNKPGGTTSGDSTTAFSNSFYNYFVH  5173

Query  700   VTANVNALLSTDGNKIADKYVRNLQHRLYEC-------LYRNRDVDTDFVNEFYAYLRKH  752
             +       L+T+    + + + NL H+ +         LY +   D +    F      H
Sbjct  5174  LYIQYLTFLTTEMPP-SYQPLCNLAHQAFSTGNTETYDLYFSMADDLNSTEYFL-----H  5227

Query  753   FSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEF  812
             F    LSDD+ +    T      + +  NF   L      ++  AK W+        HEF
Sbjct  5228  F----LSDDSFIISKPTAFP---IFTPANFSMKLQNVLGCYVDPAKSWSADGEI---HEF  5277

Query  813   CSQHTMLVKQGDDYVYLPYPDPSRILGA  840
             CS H   + +   YV    PDP+ +L  
Sbjct  5278  CSSHICKINEKYQYV----PDPNNMLAG  5301


 Score = 50.1 bits (118),  Expect = 1e-04, Method: Compositional matrix adjust.
 Identities = 50/191 (26%), Positives = 76/191 (40%), Gaps = 35/191 (18%)

Query  35    FDIYNDKVAGFAKFLKTNCCRFQEKDEDDNLIDSYFVVKRHTFSNYQHEETIY---NLLK  91
              +I N+ VA   K  K N      ++    L D+             HE  IY    LL 
Sbjct  4581  INILNNNVASLRKVFKKNTASIPSENGTIMLKDT----------GTAHE--IYVAKQLLA  4628

Query  92    DCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNC  151
                 V +H     R + D   ++ R   T Y++ DLVYA    D       K +L+  + 
Sbjct  4629  KGLPVLQHA----RFNHDGTDYLIRYYTTPYSLGDLVYAYMVGD------FKHMLLALDI  4678

Query  152   CDDDYFNKKDWYDFVENPDILRVYANLGERVRQALLKTVQFCDAMRNAGIVGVLTLDNQD  211
              D+   +  ++            Y N  E++R  L   +   + +  A +   +TLDN D
Sbjct  4679  TDETCLDPGNYSS----------YYNFKEQLRNKLASVIPNVNKILAAELPLAITLDNID  4728

Query  212   LNGNWYDFGDF  222
             LNG  YDFGD+
Sbjct  4729  LNGFLYDFGDY  4739


>sp|Q68772|RPOA_SHFV Replicase polyprotein 1ab OS=Simian hemorrhagic 
fever virus OX=38143 GN=rep PE=2 SV=4
Length=3595

 Score = 49.3 bits (116),  Expect = 2e-04, Method: Compositional matrix adjust.
 Identities = 68/286 (24%), Positives = 119/286 (42%), Gaps = 33/286 (12%)

Query  441   FFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVI-----V  495
             ++ Q G  A +  D  ++NL T   I  L  V+ +V  Y      G I     I     V
Sbjct  2333  YYTQHGCEAAALQDLKKFNLSTQGFI--LPEVLNIVRNYLL----GTIGYRPAIYKPSTV  2386

Query  496   NNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRAR  555
              + D  AG     +    L     +  D D L       V  T+T + LK    +K + R
Sbjct  2387  PSNDSHAGINGLSFSTKTL----QALPDIDELCEKAIAEVWQTVTPVTLKKQFCSKAKTR  2442

Query  556   TVAGVSICSTMTNRQFHQKLLKSIA-ATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHL  614
             T+ G +  +++  R     + +    A + + + +G SKF             +V+    
Sbjct  2443  TILGTNAMASLALRALLSGVTQGFQLAGKNSPICLGKSKF--------DPCTFEVKG-RC  2493

Query  615   MGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLY  674
             +  D   CDR+ P ++R  A+ +L      C   +   Y + N C     ++++   S  
Sbjct  2494  LETDLASCDRSTPAIVRHFATKLLF--EMACAERALPLY-VVNCC----HDLIVTQTSAA  2546

Query  675   VKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
              K GG SSGD  T+ AN+++++   V   V  LL  +G+ ++ K++
Sbjct  2547  TKRGGLSSGDPVTSIANTIYSLVLYVQHMVLTLLE-NGHPLSLKFL  2591


>sp|Q9WJB2|RPOA_PRRSR Replicase polyprotein 1ab OS=Porcine reproductive 
and respiratory syndrome virus (strain VR-2332) OX=300559 
GN=rep PE=1 SV=2
Length=3960

 Score = 47.4 bits (111),  Expect = 8e-04, Method: Compositional matrix adjust.
 Identities = 59/248 (24%), Positives = 105/248 (42%), Gaps = 30/248 (12%)

Query  454   DYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKS-AGFPFNKWGKA  512
             D  +Y+L T   +  L  V+ +V KY   + G C   ++        S AG   N++   
Sbjct  2744  DLSKYDLSTQGFV--LPGVLRLVRKYLFAHVGKCPPVHRPSTYPAKNSMAGINGNRFPTK  2801

Query  513   RLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFH  572
                 D  S  + D L A   R    T+T   LK     K + RT+ G +    + +R   
Sbjct  2802  ----DIQSVPEIDVLCAQAVRENWQTVTPCTLKKQYCGKKKTRTILGTNNFIALAHRAVL  2857

Query  573   QKLLKS-IAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHL---MGWDYPKCDRAMPN  628
               + +  +     + + +G +KF             +++ P L   +  D   CDR+ P 
Sbjct  2858  SGVTQGFMKKAFNSPIALGKNKF------------KELQTPVLGRCLEADLASCDRSTPA  2905

Query  629   MLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTA  688
             ++R  A+ +L   +   C+  H    + N C  +L   V   G++  K GG SSGD  T+
Sbjct  2906  IVRWFAANLL---YELACAEEHLPSYVLNCCHDLL---VTQSGAV-TKRGGLSSGDPITS  2958

Query  689   YANSVFNI  696
              +N+++++
Sbjct  2959  VSNTIYSL  2966


>sp|A6YQT5|RPOA_PRRSV Replicase polyprotein 1ab OS=Porcine reproductive 
and respiratory syndrome virus OX=28344 PE=1 SV=2
Length=3931

 Score = 46.6 bits (109),  Expect = 0.001, Method: Compositional matrix adjust.
 Identities = 62/247 (25%), Positives = 104/247 (42%), Gaps = 28/247 (11%)

Query  454   DYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKS-AGFPFNKWGKA  512
             D  +Y+L T   +  L  V+ +V KY   + G C   ++        S AG   N++   
Sbjct  2715  DLSKYDLSTQGFV--LPGVLRLVRKYLFAHVGKCPPVHRPSTYPAKNSMAGINGNRFPTK  2772

Query  513   RLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFH  572
                 D  S  + D L A   R    T+T   LK     K + RT+ G +    + +R   
Sbjct  2773  ----DIQSVPEIDVLCAQAVRENWQTVTPCTLKKQYCGKKKTRTILGTNNFIALAHR---  2825

Query  573   QKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHL---MGWDYPKCDRAMPNM  629
                    AA  G T      K +     + K  + +++ P L   +  D   CDR+ P +
Sbjct  2826  -------AALSGVTQGF-MKKAFNSPIALGKNKFKELQAPVLGRCLEADLASCDRSTPAI  2877

Query  630   LRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAY  689
             +R  A+ +L   +   C+  H    + N C  +L   V   G++  K GG SSGD  T+ 
Sbjct  2878  VRWFAANLL---YELACAEEHLPSYVLNCCHDLL---VTQSGAV-TKRGGLSSGDPITSV  2930

Query  690   ANSVFNI  696
             +N+++++
Sbjct  2931  SNTIYSL  2937


>sp|Q8B912|RPOA_PRRSB Replicase polyprotein 1ab OS=Porcine reproductive 
and respiratory syndrome virus (strain HB-1) OX=300563 
GN=rep PE=2 SV=3
Length=3961

 Score = 46.2 bits (108),  Expect = 0.002, Method: Compositional matrix adjust.
 Identities = 62/247 (25%), Positives = 104/247 (42%), Gaps = 28/247 (11%)

Query  454   DYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKS-AGFPFNKWGKA  512
             D  +Y+L T   +  L  V+ +V KY   + G C   ++        S AG   N++   
Sbjct  2745  DLSKYDLVTQGFV--LPGVLRLVRKYLFAHVGKCPPVHRPSTYPAKNSMAGINGNRFPTK  2802

Query  513   RLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFH  572
                 D  S  + D L A   R    T+T   LK     K + RT+ G +    + +R   
Sbjct  2803  ----DIQSVPEIDVLCAQAVRENWQTVTPCTLKKQYCGKKKTRTILGTNNFIALAHR---  2855

Query  573   QKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHL---MGWDYPKCDRAMPNM  629
                    AA  G T      K +     + K  + +++ P L   +  D   CDR+ P +
Sbjct  2856  -------AALSGVTQGF-MKKAFNSPIALGKNKFKELQTPVLGRCLEADLASCDRSTPAI  2907

Query  630   LRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAY  689
             +R  A+ +L   +   C+  H    + N C  +L   V   G++  K GG SSGD  T+ 
Sbjct  2908  VRWFAANLL---YELACAEEHLPSYVLNCCHDLL---VTQSGAV-TKRGGLSSGDPITSV  2960

Query  690   ANSVFNI  696
             +N+++++
Sbjct  2961  SNTIYSL  2967


>sp|Q9YN02|RPOA_PRRS1 Replicase polyprotein 1ab OS=Porcine reproductive 
and respiratory syndrome virus (strain 16244B) OX=300561 
GN=rep PE=1 SV=3
Length=3961

 Score = 46.2 bits (108),  Expect = 0.002, Method: Compositional matrix adjust.
 Identities = 60/245 (24%), Positives = 104/245 (42%), Gaps = 24/245 (10%)

Query  454   DYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKS-AGFPFNKWGKA  512
             D  +Y+L T   +  L  V+ +V KY   + G C   ++        S AG   N++   
Sbjct  2745  DLSKYDLSTQGFV--LPGVLRLVRKYLFAHVGKCPPVHRPSTYPAKNSMAGINGNRFPTK  2802

Query  513   RLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFH  572
                 D  S  + D L A   R    T+T   LK     K + RT+ G +    + +R   
Sbjct  2803  ----DIQSVPEIDVLCAQAVRENWQTVTPCTLKKQYCGKKKTRTILGTNNFIALAHRAAL  2858

Query  573   QKLLKS-IAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLR  631
               + +  +     + + +G +KF        K + + V    L   D   CDR+ P ++R
Sbjct  2859  SGVTQGFMKKAFNSPIALGKNKF--------KELQTSVLGRCLEA-DLASCDRSTPAIVR  2909

Query  632   IMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYAN  691
               A+ +L   +   C+  H    + N C  +L   V   G++  K GG SSGD  T+ +N
Sbjct  2910  WFAANLL---YELACAEEHLPSYVLNCCHDLL---VTQSGAV-TKRGGLSSGDPITSVSN  2962

Query  692   SVFNI  696
             +++++
Sbjct  2963  TIYSL  2967


>sp|P18479|POLG_ZYMVC Genome polyprotein OS=Zucchini yellow mosaic 
virus (strain California) OX=117128 PE=1 SV=2
Length=3080

 Score = 38.9 bits (89),  Expect = 0.30, Method: Compositional matrix adjust.
 Identities = 57/270 (21%), Positives = 111/270 (41%), Gaps = 48/270 (18%)

Query  454   DYYRYNLPT---MCDIRQLLFVVEVVDKY---FDCYDGGCINANQVIVNNLDKSAGFPFN  507
             D+++YN P      D  + L  V+ V +    F+  +   I   + I N+L+  A     
Sbjct  2356  DFFKYNKPVTVNQLDHDKFLGAVDGVIRMMCDFEFNECRFITDPEEIYNSLNMKAAIGAQ  2415

Query  508   KWGKARLYYDSMS-YEDQDALFAYTKR--NVIPTITQMNLKYAISAKNRAR---------  555
               GK + Y++ +  ++ +  LF   +R  N    +   +LK  +    + R         
Sbjct  2416  YRGKKKEYFEGLDDFDRERLLFQSCERLFNGYKGLWNGSLKAELRPLEKVRANKTRTFTA  2475

Query  556   ----TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVEN  611
                 T+ G  +C    N +F++K LK           +G +KFYGGW  +++++      
Sbjct  2476  APIDTLLGAKVCVDDFNNEFYRKNLK-------CPWTVGMTKFYGGWDKLMRSLPD----  2524

Query  612   PHLMGWDYPKCDRAM------PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVL-S  664
                 GW Y   D +       P +L   A L++   +     +      L N  A+++ +
Sbjct  2525  ----GWLYCHADGSQFDSSLTPALLN--AVLIIRSFYMEDWWVGQEM--LENLYAEIVYT  2576

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVF  694
              ++   G+++ K  G +SG  +T   N++ 
Sbjct  2577  PILAPDGTIFKKFRGNNSGQPSTVVDNTLM  2606


>sp|Q04561|RPOA_PRRSL Replicase polyprotein 1ab OS=Porcine reproductive 
and respiratory syndrome virus (strain Lelystad) OX=11049 
GN=rep PE=1 SV=3
Length=3855

 Score = 38.5 bits (88),  Expect = 0.40, Method: Compositional matrix adjust.
 Identities = 54/259 (21%), Positives = 98/259 (38%), Gaps = 58/259 (22%)

Query  517   DSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLL  576
             D  S  + D + A   +    T+T   LK    +K + RT+ G +    + +R     + 
Sbjct  2696  DVQSIPEIDEMCARAVKENWQTVTPCTLKKQYCSKPKTRTILGTNNFIALAHRSALSGVT  2755

Query  577   KS-IAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMAS  635
             ++ +     + + +G +KF        K ++  V    L   D   CDR+ P ++R   +
Sbjct  2756  QAFMKKAWKSPIALGKNKF--------KELHCTVAGRCLEA-DLASCDRSTPAIVRWFVA  2806

Query  636   LVLARKHTTCCSLSHRFYRLANECAQVLS--------EMVMCGGSLYVKPGGTSSGDATT  687
              +L              Y LA  C + L         ++V      + K GG SSGD  T
Sbjct  2807  NLL--------------YELAG-CEEYLPSYVLNCCHDLVATQDGAFTKRGGLSSGDPVT  2851

Query  688   AYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEFYA  747
             + +N+V+++                       V   QH +   L    ++   F+ E   
Sbjct  2852  SVSNTVYSL-----------------------VIYAQHMVLSALKMGHEIGLKFLEEQLK  2888

Query  748   Y--LRKHFSMMILSDDAVV  764
             +  L +   M++ SDD V+
Sbjct  2889  FEDLLEIQPMLVYSDDLVL  2907


>sp|Q06502|RPOA_LDVC Replicase polyprotein 1ab OS=Lactate dehydrogenase 
elevating virus (strain C) OX=300015 GN=rep PE=3 SV=2
Length=3637

 Score = 38.1 bits (87),  Expect = 0.48, Method: Compositional matrix adjust.
 Identities = 45/181 (25%), Positives = 74/181 (41%), Gaps = 23/181 (13%)

Query  520   SYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKS-  578
             S+ D DAL     +    T+T   LK    +K + RT+ G +    +  R     + +  
Sbjct  2527  SHPDIDALCERACKEHWQTVTPCTLKKQYCSKAKTRTILGTNNFVALGLRSALSGVTQGF  2586

Query  579   IAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMAS---  635
             +    G+ + +G +KF       L T  S       +  D   CDR+ P ++R   +   
Sbjct  2587  MRKGIGSPICLGKNKF-----TPLPTKVSG----RCLEADLASCDRSTPAIIRWFTTNLL  2637

Query  636   LVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFN  695
               LA       S       + N C   +S M  C    + K GG SSGD  T+ +N+V++
Sbjct  2638  FELAGPEEWIPSY------VLNCCHDAVSTMSGC----FDKRGGLSSGDPVTSVSNTVYS  2687

Query  696   I  696
             +
Sbjct  2688  L  2688


>sp|C4LCH1|UXUA_TOLAT Mannonate dehydratase OS=Tolumonas auensis 
(strain DSM 9187 / TA4) OX=595494 GN=uxuA PE=3 SV=1
Length=393

 Score = 37.4 bits (85),  Expect = 0.56, Method: Compositional matrix adjust.
 Identities = 30/103 (29%), Positives = 49/103 (48%), Gaps = 10/103 (10%)

Query  502  AGFPFNKWG------KARLY-YDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRA  554
            AG P  + G      +ARL  YD +        FA+  +N+IP   Q+ L+ A+   +  
Sbjct  179  AGLPGAEEGYTIEQFRARLADYDGIDKAKLREHFAFFLKNIIPVAEQVGLRMAVHPDDPP  238

Query  555  RTVAGVS-ICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYG  596
            R + G+  I ST+ + Q+  + + SIA   G T+  G+    G
Sbjct  239  RPILGLPRIVSTIEDMQWMVETVDSIA--NGFTMCTGSYGVRG  279


>sp|A0MD28|RPOA_PRRSS Replicase polyprotein 1ab OS=Porcine reproductive 
and respiratory syndrome virus (isolate Pig/United 
States/SD 01-08/2001) OX=857306 PE=1 SV=2
Length=3838

 Score = 38.1 bits (87),  Expect = 0.60, Method: Compositional matrix adjust.
 Identities = 53/259 (20%), Positives = 98/259 (38%), Gaps = 58/259 (22%)

Query  517   DSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLL  576
             D  S  + D + A   +    T+T   LK    +K + RT+ G +    + +R     + 
Sbjct  2679  DVQSIPEIDEMCARAVKENWQTVTPCTLKKQYCSKPKTRTILGTNNFIALAHRSALSGVT  2738

Query  577   KS-IAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMAS  635
             ++ +     + + +G +KF        K ++  V    L   D   CDR+ P ++R   +
Sbjct  2739  QAFMKKAWKSPIALGKNKF--------KELHCTVAGRCLEA-DLASCDRSTPAIVRWFVA  2789

Query  636   LVLARKHTTCCSLSHRFYRLANECAQVLS--------EMVMCGGSLYVKPGGTSSGDATT  687
              +L              Y LA  C + L         ++V      + K GG SSGD  T
Sbjct  2790  NLL--------------YELAG-CEEYLPSYVLNCCHDLVATQDGAFTKRGGLSSGDPVT  2834

Query  688   AYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEFYA  747
             + +N+V+++                       +   QH +   L    ++   F+ E   
Sbjct  2835  SVSNTVYSL-----------------------IIYAQHMVLSALKMGHEIGLKFLEEQLK  2871

Query  748   Y--LRKHFSMMILSDDAVV  764
             +  L +   M++ SDD V+
Sbjct  2872  FEDLLEIQPMLVYSDDLVL  2890


>sp|P18478|POLG_WMV2U Genome polyprotein (Fragment) OS=Watermelon 
mosaic virus II (isolate USA) OX=148360 PE=1 SV=3
Length=1017

 Score = 37.7 bits (86),  Expect = 0.66, Method: Compositional matrix adjust.
 Identities = 59/269 (22%), Positives = 110/269 (41%), Gaps = 46/269 (17%)

Query  454  DYYRYNLPTM---CDIRQLLFVVE-VVDKYFDCYDGGC--INANQVIVNNLDKSAGFPFN  507
            D+++YN P +    D       VE V+    D     C  +     I  +L+  A     
Sbjct  291  DFFKYNKPVVLNEVDFNAFEKAVEGVITMMVDFEFAECLFVTDPDEIYGSLNMKAAVGAQ  350

Query  508  KWGKARLYYDSM-SYEDQDALFAYTKR--NVIPTITQMNLKYAISA-----KNRART---  556
              GK + Y+  M S++ +  L+   +R  N    I   +LK  +        N+ RT   
Sbjct  351  YKGKKQDYFSGMDSFDKERLLYLSCERLFNGEKGIWNGSLKAELRPIEKVQANKTRTFTA  410

Query  557  -----VAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVEN  611
                 + G  +C    N QF+   LK           +G +KFYGGW  +++++      
Sbjct  411  APLDTLLGAKVCVDDFNNQFYSFNLK-------CPWTVGMTKFYGGWDKLMRSLPD----  459

Query  612  PHLMGWDYPKCDRAM--PNMLRIMASLVLARKHTTCCSLSHRFY---RLANECAQVL-SE  665
                GW Y   D +    ++  ++ + VL+ +   CC +   +     L N  A+++ + 
Sbjct  460  ----GWTYCHADGSQFDSSLTPLLLNAVLSIR---CCFMEDWWVGREMLENLYAEIVYTP  512

Query  666  MVMCGGSLYVKPGGTSSGDATTAYANSVF  694
            ++   G+++ K  G +SG  +T   N++ 
Sbjct  513  ILAPDGTIFKKFRGNNSGQPSTVVDNTLM  541


>sp|Q83017|RPOA_LDVP Replicase polyprotein 1ab OS=Lactate dehydrogenase 
elevating virus (strain Plagemann) OX=300016 GN=rep 
PE=1 SV=2
Length=3616

 Score = 37.7 bits (86),  Expect = 0.66, Method: Compositional matrix adjust.
 Identities = 44/183 (24%), Positives = 73/183 (40%), Gaps = 27/183 (15%)

Query  520   SYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKS-  578
             S+ D DAL          T+T   LK    +K++ RT+ G +    +  R     + +  
Sbjct  2506  SHPDIDALCKRACEEHWQTVTPCTLKKQYCSKSKTRTILGTNNFVALGLRSALSGVTQGF  2565

Query  579   IAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLR-----IM  633
             +    G  + +G +KF         T          +  D   CDR+ P ++R     ++
Sbjct  2566  MRKGIGTPICLGKNKF---------TPLPVRIGGRCLEADLASCDRSTPAIIRWFTTNLL  2616

Query  634   ASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSV  693
               L  A +      L        N C  V+S M  C    + K GG SSGD  T+ +N+V
Sbjct  2617  FELAGAEEWIPSYVL--------NCCHDVVSTMSGC----FDKRGGLSSGDPVTSISNTV  2664

Query  694   FNI  696
             +++
Sbjct  2665  YSL  2667


>sp|Q89330|POLG_ZYMVR Genome polyprotein OS=Zucchini yellow mosaic 
virus (strain Reunion Island) OX=117129 PE=3 SV=1
Length=3083

 Score = 36.6 bits (83),  Expect = 1.4, Method: Compositional matrix adjust.
 Identities = 57/270 (21%), Positives = 110/270 (41%), Gaps = 48/270 (18%)

Query  454   DYYRYNLPTMCDIRQLLFVVEVVDKY------FDCYDGGCINANQVIVNNLDKSAGFPFN  507
             D+++YN P + +       +E VD        F+  +   I   + I ++L+  A     
Sbjct  2359  DFFKYNKPVIVNQLDHDKFLEAVDGVIRMMCDFEFNECRFITDPEEIYSSLNMKAAIGAQ  2418

Query  508   KWGKARLYYDSM-SYEDQDALFAYTKR--NVIPTITQMNLKYAISA-----KNRART---  556
               GK + Y++ + +++ +  LF   +R  N    +   +LK  +        N+ RT   
Sbjct  2419  YRGKKKEYFEGLDNFDMERLLFQSCERLFNGYKGLWNGSLKAELRPLEKVQANKTRTFTA  2478

Query  557   -----VAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVEN  611
                  + G  +C    N +F+ K LK           +G SKFYGGW  +++ +      
Sbjct  2479  APIDTLLGAKVCVDDFNNEFYSKNLK-------CPWTVGMSKFYGGWDKLMRALPD----  2527

Query  612   PHLMGWDYPKCDRAM------PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVL-S  664
                 GW Y   D +       P +L   A L++   +     +      L N  A+++ +
Sbjct  2528  ----GWLYCHADGSQFDSSLTPALLN--AVLIIRSFYMEDWWVGQEM--LENLYAEIVYT  2579

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVF  694
              ++   G+++ K  G +SG  +T   N++ 
Sbjct  2580  PILAPDGTIFKKFRGNNSGQPSTVVDNTLM  2609


>sp|B1KEK5|PYRC_SHEWM Dihydroorotase OS=Shewanella woodyi (strain 
ATCC 51908 / MS32) OX=392500 GN=pyrC PE=3 SV=1
Length=344

 Score = 35.8 bits (81),  Expect = 1.6, Method: Compositional matrix adjust.
 Identities = 39/159 (25%), Positives = 66/159 (42%), Gaps = 27/159 (17%)

Query  445  DGNAAISDYDYYRYNLPTMCDIRQLLFV-VEVVDKYFDCYDGGCINANQVIVNNLDKSA-  502
            + +AA+   D       TM +I  LL V  EV + + D +D   +     I  NL +   
Sbjct  107  NSDAAVKGLDALFPIFETMAEIGMLLLVHGEVTESHIDIFDREAL----FIERNLSRIVD  162

Query  503  GFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGV--  560
             FP     + ++ ++ ++ ++          NV  TIT  +L       NR   + G   
Sbjct  163  AFP-----QLKVVFEHITTKEAAEFVTSASDNVAATITPQHLLL-----NRNDLLVGGVR  212

Query  561  --SICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGG  597
              + C  +  R  HQ+ L++  AT       G+SKF+ G
Sbjct  213  PHNFCLPVLKRNIHQEALRAAVAT-------GSSKFFLG  244


>sp|Q492K3|HISX_BLOPB Histidinol dehydrogenase OS=Blochmannia 
pennsylvanicus (strain BPEN) OX=291272 GN=hisD PE=3 SV=1
Length=443

 Score = 35.4 bits (80),  Expect = 2.4, Method: Compositional matrix adjust.
 Identities = 31/110 (28%), Positives = 53/110 (48%), Gaps = 16/110 (15%)

Query  706  ALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVC  765
            A+L T  + IA+K  + L H+  + L RN  V    +N          S MI++++ + C
Sbjct  271  AILITPYSCIAEKTKKEL-HKQLKILPRNDIVRNVLLN----------SRMIITNNLMEC  319

Query  766  FN--STYASQGLVASIKNFKSVLYYQNN---VFMSEAKCWTETDLTKGPH  810
            F+  ++YA + L+  I+N    L+Y  N   +F+      T  D   GP+
Sbjct  320  FSISNSYAPEHLIIQIENASDYLHYITNAGSIFLGNWSPETAGDYASGPN  369


>sp|P19811|RPOA_EAVBU Replicase polyprotein 1ab OS=Equine arteritis 
virus (strain Bucyrus) OX=299386 GN=rep PE=1 SV=3
Length=3175

 Score = 35.0 bits (79),  Expect = 4.3, Method: Compositional matrix adjust.
 Identities = 45/218 (21%), Positives = 86/218 (39%), Gaps = 49/218 (22%)

Query  520   SYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAG--------VSICSTMTNRQF  571
             SY   D + + + ++ + T T    K    +K + R++ G        +  C +     F
Sbjct  2032  SYCLIDDMVSQSMKSNLQTATMATCKRQYCSKYKIRSILGTNNYIGLGLRACLSGVTAAF  2091

Query  572   HQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP--HLMGWDYPKCDRAMPNM  629
              +      A   G+ + +G SKF              +  P  + +  D   CDR+ P +
Sbjct  2092  QK------AGKDGSPIYLGKSKF------------DPIPAPDKYCLETDLESCDRSTPAL  2133

Query  630   LRIMASLVLARKHTTCCSLSHRFYRLANECAQVLS-------EMVMCGGSLYVKPGGTSS  682
             +R  A+              +  + LA +   V S       ++V+ G   + K GG SS
Sbjct  2134  VRWFAT--------------NLIFELAGQPELVHSYVLNCCHDLVVAGSVAFTKRGGLSS  2179

Query  683   GDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             GD  T+ +N+++++       +   L     +IA+KY+
Sbjct  2180  GDPITSISNTIYSLVLYTQHMLLCGLEGYFPEIAEKYL  2217


>sp|O36979|POLG_ZYMVS Genome polyprotein OS=Zucchini yellow mosaic 
virus (strain Singapore) OX=117130 PE=3 SV=2
Length=3083

 Score = 34.7 bits (78),  Expect = 6.0, Method: Compositional matrix adjust.
 Identities = 59/270 (22%), Positives = 112/270 (41%), Gaps = 48/270 (18%)

Query  454   DYYRYNLPTMC---DIRQLLFVVEVVDKY---FDCYDGGCINANQVIVNNLDKSAGFPFN  507
             D+++YN P +    D  + L  V  V +    F+  +   I   + I ++L+  A     
Sbjct  2359  DFFKYNKPVVVNQLDHDKFLGAVNGVIRMMCDFEFNECRFITDPEEIYDSLNMKAAIGAQ  2418

Query  508   KWGKARLYYDSM-SYEDQDALFAYTKR--NVIPTITQMNLKYAISA-----KNRART---  556
               GK + Y++ + +++ +  LF   +R  N    +   +LK  +        N+ RT   
Sbjct  2419  YRGKKKEYFEGLDNFDRERLLFQSCERLFNGHKGLWNGSLKAELRPLEKVQANKTRTFTA  2478

Query  557   -----VAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVEN  611
                  + G  +C    N +F+ K LK           +G +KFYGGW  +++      E 
Sbjct  2479  APIDTLLGAKVCVDDFNNEFYSKNLK-------CPWTVGMTKFYGGWDKLMR------EL  2525

Query  612   PHLMGWDYPKCDRAM------PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVL-S  664
             P   GW Y   D +       P +L   A L++   +     +      L N  A+++ +
Sbjct  2526  PD--GWLYCHADGSQFDSSLTPALLN--AVLIIRSFYMEDWWVGQEM--LENLYAEIVYT  2579

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVF  694
              ++   G+++ K  G +SG  +T   N++ 
Sbjct  2580  PILAPDGTIFKKFRGNNSGQPSTVVDNTLM  2609


>sp|Q0CRF3|ATG5_ASPTN Autophagy protein 5 OS=Aspergillus terreus 
(strain NIH 2624 / FGSC A1156) OX=341663 GN=atg5 PE=3 SV=2
Length=315

 Score = 33.5 bits (75),  Expect = 9.6, Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 5/61 (8%)

Query  161  DWYDFVENPDILRVYANLGERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFG  220
            DW D     +++R+ A+ G  +  A + +V+  D MRN    G++TL  +D +G W    
Sbjct  129  DWPDE----ELVRLDAD-GMVMHDAFINSVKEADFMRNGTAKGIMTLSKEDSSGLWKSVQ  183

Query  221  D  221
            D
Sbjct  184  D  184



Lambda      K        H        a         alpha
   0.324    0.137    0.428    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: 107377657200
Results from round 2


Query= YP_009725307.1 RNA-dependent RNA polymerase [Severe acute
respiratory syndrome coronavirus 2]

Length=932
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value
Sequences used in model and found again:

sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute res...  1536    0.0   
sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus...  1534    0.0   
sp|P0DTD1|R1AB_SARS2 Replicase polyprotein 1ab OS=Severe acute re...  1533    0.0   
sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus...  1533    0.0   
sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus...  1531    0.0   
sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus...  1527    0.0   
sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus...  1521    0.0   
sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus...  1518    0.0   
sp|K9N7C7|R1AB_MERS1 Replicase polyprotein 1ab OS=Middle East res...  1509    0.0   
sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavi...  1479    0.0   
sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavir...  1479    0.0   
sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus...  1476    0.0   
sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavi...  1466    0.0   
sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus...  1464    0.0   
sp|P0C6W7|R1AB_CVBEN Replicase polyprotein 1ab OS=Bovine coronavi...  1462    0.0   
sp|P0C6W8|R1AB_CVBLU Replicase polyprotein 1ab OS=Bovine coronavi...  1462    0.0   
sp|P0C6Y4|R1AB_PEDV7 Replicase polyprotein 1ab OS=Porcine epidemi...  1460    0.0   
sp|P0C6X0|R1AB_CVBQ Replicase polyprotein 1ab OS=Bovine coronavir...  1459    0.0   
sp|P0C6X6|R1AB_CVHOC Replicase polyprotein 1ab OS=Human coronavir...  1458    0.0   
sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavir...  1455    0.0   
sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavir...  1455    0.0   
sp|P0C6W9|R1AB_CVBM Replicase polyprotein 1ab OS=Bovine coronavir...  1453    0.0   
sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavir...  1453    0.0   
sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavir...  1444    0.0   
sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavir...  1424    0.0   
sp|P0C6Y5|R1AB_CVPPU Replicase polyprotein 1ab OS=Porcine transmi...  1409    0.0   
sp|Q98VG9|R1AB_FIPV Replicase polyprotein 1ab OS=Feline coronavir...  1381    0.0   
sp|P0C6Y2|R1AB_IBVBC Replicase polyprotein 1ab OS=Avian infectiou...  1377    0.0   
sp|P0C6Y1|R1AB_IBVB Replicase polyprotein 1ab OS=Avian infectious...  1377    0.0   
sp|P0C6Y3|R1AB_IBVM Replicase polyprotein 1ab OS=Avian infectious...  1372    0.0   
sp|Q9WQ77|R1AB_CVRSD Replicase polyprotein 1ab (Fragment) OS=Rat ...  475     2e-160
sp|Q9WQ76|R1AB_CVTMI Replicase polyprotein 1ab (Fragment) OS=Turk...  444     2e-148
sp|P0C6V7|R1AB_BEV Replicase polyprotein 1ab OS=Berne virus OX=11...  475     3e-143
sp|P0C6V8|R1AB_BRV1 Replicase polyprotein 1ab OS=Breda virus 1 OX...  467     3e-140
sp|Q008X6|R1AB_WBV24 Replicase polyprotein 1ab OS=White bream vir...  403     1e-118
sp|Q9WJB2|RPOA_PRRSR Replicase polyprotein 1ab OS=Porcine reprodu...  271     4e-74 
sp|A6YQT5|RPOA_PRRSV Replicase polyprotein 1ab OS=Porcine reprodu...  270     5e-74 
sp|Q8B912|RPOA_PRRSB Replicase polyprotein 1ab OS=Porcine reprodu...  268     3e-73 
sp|Q68772|RPOA_SHFV Replicase polyprotein 1ab OS=Simian hemorrhag...  256     2e-69 

Sequences not found previously or not previously below threshold:

sp|Q9YN02|RPOA_PRRS1 Replicase polyprotein 1ab OS=Porcine reprodu...  268     3e-73
sp|Q04561|RPOA_PRRSL Replicase polyprotein 1ab OS=Porcine reprodu...  231     3e-61
sp|A0MD28|RPOA_PRRSS Replicase polyprotein 1ab OS=Porcine reprodu...  231     3e-61
sp|Q83017|RPOA_LDVP Replicase polyprotein 1ab OS=Lactate dehydrog...  208     1e-53
sp|Q06502|RPOA_LDVC Replicase polyprotein 1ab OS=Lactate dehydrog...  204     2e-52
sp|P19811|RPOA_EAVBU Replicase polyprotein 1ab OS=Equine arteriti...  173     1e-42
sp|P18479|POLG_ZYMVC Genome polyprotein OS=Zucchini yellow mosaic...  58.1    5e-07
sp|Q89330|POLG_ZYMVR Genome polyprotein OS=Zucchini yellow mosaic...  55.4    3e-06
sp|O36979|POLG_ZYMVS Genome polyprotein OS=Zucchini yellow mosaic...  55.0    3e-06
sp|P18478|POLG_WMV2U Genome polyprotein (Fragment) OS=Watermelon ...  55.0    4e-06
sp|Q01901|POLG_PRSVH Genome polyprotein OS=Papaya ringspot virus ...  54.3    6e-06
sp|O56075|POLG_PEMVM Genome polyprotein OS=Peanut mottle virus (s...  53.5    1e-05
sp|A0AUJ5|POLG_BVY3 Genome polyprotein OS=Blackberry virus Y (iso...  52.7    2e-05
sp|Q9JH69|NS1AB_TASV1 Non-structural polyprotein 1AB OS=Turkey as...  50.8    6e-05
sp|P17766|POLG_PPVNA Genome polyprotein OS=Plum pox potyvirus (is...  49.3    2e-04
sp|Q01681|POLG_PPVEA Genome polyprotein (Fragment) OS=Plum pox po...  48.5    3e-04
sp|P13529|POLG_PPVD Genome polyprotein OS=Plum pox potyvirus (str...  48.5    3e-04
sp|P17765|POLG_BYMV Genome polyprotein OS=Bean yellow mosaic viru...  48.5    3e-04
sp|P17767|POLG_PPVRA Genome polyprotein OS=Plum pox potyvirus (st...  48.5    4e-04
sp|P09814|POLG_TVMV Genome polyprotein OS=Tobacco vein mottling v...  48.5    4e-04
sp|Q84934|POLG_PPVSK Genome polyprotein OS=Plum pox potyvirus (st...  48.1    5e-04
sp|P20234|POLG_OMV Genome polyprotein (Fragment) OS=Ornithogalum ...  47.3    8e-04
sp|Q65399|POLG_BCMNN Genome polyprotein OS=Bean common mosaic nec...  47.0    0.001
sp|P29152|POLG_PSBMV Genome polyprotein OS=Pea seed-borne mosaic ...  46.6    0.002
sp|Q01500|POLG_PEMVC Genome polyprotein OS=Pepper mottle virus (i...  46.2    0.002
sp|Q65729|POLG_BSTVG Genome polyprotein (Fragment) OS=Brome strea...  45.8    0.002
sp|Q8JV21|POLG_LJUV1 Genome polyprotein OS=Ljunganvirus 1 OX=1001...  46.2    0.002
sp|Q6XW15|POLG_BTMV Genome polyprotein OS=Beet mosaic virus OX=11...  45.8    0.002
sp|Q02963|POLG_PVYHU Genome polyprotein OS=Potato virus Y (strain...  45.8    0.002
sp|Q65730|POLG_BSTV1 Genome polyprotein OS=Brome streak virus (st...  45.8    0.003
sp|Q90069|POLG_SBMVG Genome polyprotein OS=Soybean mosaic virus (...  45.0    0.004
sp|P21231|POLG_SBMVN Genome polyprotein OS=Soybean mosaic virus (...  44.6    0.005
sp|P89876|POLG_LMVE Genome polyprotein OS=Lettuce mosaic virus (s...  44.3    0.007
sp|P36287|POLG_SMSV4 Genome polyprotein (Fragment) OS=San Miguel ...  43.9    0.008
sp|O11436|POLG_RGMVD Genome polyprotein OS=Ryegrass mosaic virus ...  42.7    0.021
sp|P36286|POLG_SMSV1 Genome polyprotein OS=San Miguel sea lion vi...  42.3    0.029
sp|P04517|POLG_TEV Genome polyprotein OS=Tobacco etch virus OX=12...  41.9    0.034
sp|P19723|POLG_PRSVP Genome polyprotein (Fragment) OS=Papaya ring...  41.6    0.040
sp|Q85197|POLG_PVMA Genome polyprotein OS=Potato virus A OX=12215...  41.6    0.051
sp|P31999|POLG_LMV0 Genome polyprotein OS=Lettuce mosaic virus (s...  41.2    0.057
sp|P36312|POL1_CPSMV RNA1 polyprotein OS=Cowpea severe mosaic vir...  40.8    0.069
sp|P19724|POLG_PRSVW Genome polyprotein (Fragment) OS=Papaya ring...  40.8    0.069
sp|P18247|POLG_PVYN Genome polyprotein OS=Potato virus Y (strain ...  40.8    0.080
sp|O73556|POLG_HPE2W Genome polyprotein OS=Human parechovirus 2 (...  40.8    0.084
sp|Q9WAL8|POL1_SDVS5 RNA1 polyprotein OS=Satsuma dwarf virus (iso...  40.4    0.099
sp|Q66578|POLG_HPE1H Genome polyprotein OS=Human parechovirus 1 (...  40.4    0.11 
sp|Q9DUN3|POLG_VESVA Genome polyprotein OS=Vesicular exanthema of...  40.0    0.12 
sp|P89201|POLG_SPMMV Genome polyprotein OS=Sweet potato mild mott...  40.4    0.12 
sp|Q66474|POLG_EC06C Genome polyprotein OS=Echovirus 6 (strain Ch...  40.0    0.12 
sp|A4KZ49|POLG_TRMVU Genome polyprotein OS=Triticum mosaic virus ...  39.3    0.25 
sp|Q76L40|POL1_BBWVS RNA1 polyprotein OS=Broad bean wilt virus 1 ...  38.9    0.28 
sp|Q69014|POLG_SVM93 Genome polyprotein (Fragment) OS=Sapporo vir...  38.9    0.30 
sp|Q672I1|POLG_SVSAP Genome polyprotein OS=Sapporo virus (isolate...  38.9    0.30 
sp|P14879|PYR4_MICDP Phycobilisome 31.6 kDa linker polypeptide, p...  38.1    0.30 
sp|Q9YID8|POLG_HPEV5 Genome polyprotein OS=Human parechovirus 5 (...  38.9    0.31 
sp|O41174|POLG_PEV9U Genome polyprotein OS=Porcine enterovirus 9 ...  38.9    0.33 
sp|P90245|POL1_BAMMN Genome polyprotein 1 OS=Barley mild mosaic v...  38.9    0.34 
sp|Q66849|POLG_EC09H Genome polyprotein OS=Echovirus 9 (strain Hi...  38.9    0.35 
sp|Q9WN78|POLG_EC30B Genome polyprotein OS=Echovirus 30 (strain B...  38.9    0.35 
sp|P21404|POLG_CXA9 Genome polyprotein OS=Coxsackievirus A9 (stra...  38.5    0.38 
sp|Q9QL88|POLG_CXB6S Genome polyprotein OS=Coxsackievirus B6 (str...  38.5    0.43 
sp|E5D8F2|POLG_HRV15 Genome polyprotein OS=Human rhinovirus C (st...  38.5    0.44 
sp|P89509|POLG_TUMVJ Genome polyprotein OS=Turnip mosaic virus (s...  38.5    0.44 
sp|P08291|POLG_CXB1J Genome polyprotein OS=Coxsackievirus B1 (str...  38.1    0.53 
sp|Q9YLJ1|POLG_EC05N Genome polyprotein OS=Echovirus 5 (strain No...  37.7    0.72 
sp|Q66282|POLG_CXB3W Genome polyprotein OS=Coxsackievirus B3 (str...  37.7    0.73 
sp|Q05057|POLG_PYFV1 Genome polyprotein OS=Parsnip yellow fleck v...  37.7    0.73 
sp|Q04574|POL1_BAYMG Genome polyprotein 1 OS=Barley yellow mosaic...  37.7    0.77 
sp|Q02597|POLG_TUMVQ Genome polyprotein OS=Turnip mosaic virus (s...  37.3    0.88 
sp|P89657|RDRP_PMMVJ Replicase large subunit OS=Pepper mild mottl...  36.9    1.0  
sp|Q8V736|POLG_CACV4 Genome polyprotein OS=Canine calicivirus (st...  36.9    1.1  
sp|P16604|POLG_SVDVH Genome polyprotein OS=Swine vesicular diseas...  36.9    1.1  
sp|P13900|POLG_SVDVU Genome polyprotein OS=Swine vesicular diseas...  36.9    1.2  
sp|P29813|POLG_EC11G Genome polyprotein OS=Echovirus 11 (strain G...  36.9    1.2  
sp|Q66577|POLG_EC09B Genome polyprotein OS=Echovirus 9 (strain Ba...  36.6    1.5  
sp|P11398|PYR1_MASLA Phycobilisome 32.1 kDa linker polypeptide, p...  35.8    1.5  
sp|Q9YLG5|POLG_CXB2O Genome polyprotein OS=Coxsackievirus B2 (str...  36.2    1.8  
sp|P03302|POLG_POL3L Genome polyprotein OS=Poliovirus type 3 (str...  36.2    2.1  
sp|P12916|POLG_HRV1B Genome polyprotein OS=Human rhinovirus 1B OX...  36.2    2.3  
sp|P29098|RDRP_PMMVS Replicase large subunit OS=Pepper mild mottl...  35.8    2.6  
sp|Q82122|POLG_HRV16 Genome polyprotein OS=Human rhinovirus 16 OX...  35.8    2.7  
sp|P27641|XRCC5_MOUSE X-ray repair cross-complementing protein 5 ...  35.4    3.0  
sp|Q03053|POLG_CXB5P Genome polyprotein OS=Coxsackievirus B5 (str...  35.4    3.1  
sp|Q66575|POLG_EC12T Genome polyprotein OS=Echovirus 12 (strain T...  35.4    3.1  
sp|Q8V5E0|POL1_BRAV RNA1 polyprotein OS=Blackcurrant reversion as...  35.4    3.3  
sp|P06210|POLG_POL2L Genome polyprotein OS=Poliovirus type 2 (str...  35.4    3.4  
sp|Q09725|MIS4_SCHPO Sister chromatid cohesion protein mis4 OS=Sc...  35.4    3.4  
sp|P06209|POLG_POL32 Genome polyprotein OS=Poliovirus type 3 (str...  35.4    3.4  
sp|Q12018|CDC53_YEAST Cell division control protein 53 OS=Sacchar...  35.0    3.7  
sp|P22055|POLG_CXA21 Genome polyprotein OS=Coxsackievirus A21 (st...  35.4    3.7  
sp|P36290|POLG_CXA24 Genome polyprotein OS=Coxsackievirus A24 (st...  35.4    3.9  
sp|P03600|POL1_CPMVS RNA1 polyprotein OS=Cowpea mosaic virus (str...  35.0    4.1  
sp|Q5ZM60|CCPG1_CHICK Cell cycle progression protein 1 OS=Gallus ...  35.0    4.3  
sp|B1KEK5|PYRC_SHEWM Dihydroorotase OS=Shewanella woodyi (strain ...  34.6    4.4  
sp|P23008|POLG_HRV1A Genome polyprotein OS=Human rhinovirus 1A OX...  35.0    4.6  
sp|P03300|POLG_POL1M Genome polyprotein OS=Poliovirus type 1 (str...  35.0    5.2  
sp|P03301|POLG_POL1S Genome polyprotein OS=Poliovirus type 1 (str...  34.6    5.5  
sp|Q86887|POLG_CXB4E Genome polyprotein OS=Coxsackievirus B4 (str...  34.6    5.8  
sp|O91734|POLG_EC01F Genome polyprotein OS=Echovirus 1 (strain Hu...  34.6    6.3  
sp|Q9DSN9|POLN_ABPVR Replicase polyprotein OS=Acute bee paralysis...  34.6    6.6  
sp|Q75BF1|SET5_EREGS Histone-lysine N-methyltransferase SET5 OS=E...  33.9    7.3  
sp|P08292|POLG_CXB4J Genome polyprotein OS=Coxsackievirus B4 (str...  34.2    7.4  


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

 Score = 1536 bits (3976),  Expect = 0.0, Method: Composition-based stats.
 Identities = 898/932 (96%), Positives = 916/932 (98%), Gaps = 0/932 (0%)

Query  1     SADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             SADA +FLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYN+KVAGFAKFLKTNCCRFQEKD
Sbjct  4370  SADASTFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKD  4429

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             E+ NL+DSYFVVKRHT SNYQHEETIYNL+KDCPAVA HDFFKFR+DGDMVPHISRQRLT
Sbjct  4430  EEGNLLDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLT  4489

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE
Sbjct  4490  KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  4549

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
             RVRQ+LLKTVQFCDAMR+AGIVGVLTLDNQDLNGNWYDFGDF+Q  PG GVP+VDSYYSL
Sbjct  4550  RVRQSLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSL  4609

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             LMPILTLTRAL AESH+D DL KP IKWDLLKYDFTEERL LFDRYFKYWDQTYHPNC+N
Sbjct  4610  LMPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCIN  4669

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN
Sbjct  4670  CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  4729

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
             LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY
Sbjct  4730  LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  4789

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF
Sbjct  4790  DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  4849

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT
Sbjct  4850  DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  4909

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN
Sbjct  4910  QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  4969

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             MLKTVYSDVE PHLMGWDYPKCDRAMPNMLRIMASLVLARKH TCC+LSHRFYRLANECA
Sbjct  4970  MLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECA  5029

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV
Sbjct  5030  QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  5089

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             RNLQHRLYECLYRNRDVD +FV+EFYAYLRKHFSMMILSDDAVVC+NS YA+QGLVASIK
Sbjct  5090  RNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIK  5149

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
             NFK+VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA
Sbjct  5150  NFKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  5209

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML
Sbjct  5210  GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  5269

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ
Sbjct  5270  DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  5301


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

 Score = 1534 bits (3972),  Expect = 0.0, Method: Composition-based stats.
 Identities = 897/932 (96%), Positives = 914/932 (98%), Gaps = 0/932 (0%)

Query  1     SADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             SADA +FLNRVCGVSAARLTPCGTG STDVVYRAFDIYN+KVAGFAKFLKTNCCRFQEKD
Sbjct  4368  SADASTFLNRVCGVSAARLTPCGTGISTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKD  4427

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             E+ NL+DSYFVVKRHT SNYQHEETIYNL+KDCPAVA HDFFKFR+DGDMVPHISRQRLT
Sbjct  4428  EEGNLLDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLT  4487

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE
Sbjct  4488  KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  4547

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
             RVRQALLKTVQFCDAMR+AGIVGVLTLDNQDLNGNWYDFGDF+Q  PG GVP+VDSYYSL
Sbjct  4548  RVRQALLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSL  4607

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             LMPILTLTRAL AESH+D DL KP IKWDLLKYDFT ERL LFDRYFKYWDQTYHPNC+N
Sbjct  4608  LMPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTAERLCLFDRYFKYWDQTYHPNCIN  4667

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN
Sbjct  4668  CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  4727

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
             LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY
Sbjct  4728  LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  4787

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF
Sbjct  4788  DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  4847

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT
Sbjct  4848  DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  4907

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN
Sbjct  4908  QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  4967

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             MLKTVYSDVE PHLMGWDYPKCDRAMPNMLRIMASLVLARKH+TCC+LSHRFYRLANECA
Sbjct  4968  MLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHSTCCNLSHRFYRLANECA  5027

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV
Sbjct  5028  QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  5087

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             RNLQHRLYECLYRNRDVD +FV EFYAYLRKHFSMMILSDDAVVC+NS YA+QGLVASIK
Sbjct  5088  RNLQHRLYECLYRNRDVDHEFVGEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIK  5147

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
             NFK+VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA
Sbjct  5148  NFKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  5207

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML
Sbjct  5208  GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  5267

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ
Sbjct  5268  DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  5299


>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 = 1533 bits (3969),  Expect = 0.0, Method: Composition-based stats.
 Identities = 932/932 (100%), Positives = 932/932 (100%), Gaps = 0/932 (0%)

Query  1     SADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             SADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD
Sbjct  4393  SADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  4452

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT
Sbjct  4453  EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  4512

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE
Sbjct  4513  KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  4572

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
             RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL
Sbjct  4573  RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  4632

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN
Sbjct  4633  LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  4692

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN
Sbjct  4693  CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  4752

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
             LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY
Sbjct  4753  LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  4812

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF
Sbjct  4813  DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  4872

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT
Sbjct  4873  DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  4932

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN
Sbjct  4933  QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  4992

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA
Sbjct  4993  MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  5052

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV
Sbjct  5053  QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  5112

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK
Sbjct  5113  RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  5172

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
             NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA
Sbjct  5173  NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  5232

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML
Sbjct  5233  GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  5292

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ
Sbjct  5293  DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  5324


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

 Score = 1533 bits (3968),  Expect = 0.0, Method: Composition-based stats.
 Identities = 891/932 (96%), Positives = 918/932 (98%), Gaps = 0/932 (0%)

Query  1     SADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             SADA +FLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYN+KVAGFAKFLKTNCCRFQEKD
Sbjct  4364  SADASTFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKD  4423

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             E+ NL+DSYFVVKRHT SNYQHEETIYNL+K+CPAVA HDFFKFR+DGDMVPHISRQRLT
Sbjct  4424  EEGNLLDSYFVVKRHTMSNYQHEETIYNLIKECPAVAVHDFFKFRVDGDMVPHISRQRLT  4483

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDD+YFNKKDWYDFVENPD+LRVYANLGE
Sbjct  4484  KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDNYFNKKDWYDFVENPDVLRVYANLGE  4543

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
             RVR+ALLKTVQFCDAMR+AGIVGVLTLDNQDLNGNWYDFGDF+Q  PG GVP+VDSYYSL
Sbjct  4544  RVRRALLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSL  4603

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             LMPILTLT+AL AESH+D DL KP +KWDLLKYDFTEERL LFDRYFKYWDQTYHPNC+N
Sbjct  4604  LMPILTLTKALAAESHMDADLAKPLVKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCIN  4663

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN
Sbjct  4664  CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  4723

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
             LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY
Sbjct  4724  LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  4783

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF
Sbjct  4784  DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  4843

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT
Sbjct  4844  DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  4903

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN
Sbjct  4904  QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  4963

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             MLKTVYSDVE+PHLMGWDYPKCDRAMPNMLRIMASL+LARKH+TCC+LSHRFYRLANECA
Sbjct  4964  MLKTVYSDVESPHLMGWDYPKCDRAMPNMLRIMASLILARKHSTCCNLSHRFYRLANECA  5023

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV
Sbjct  5024  QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  5083

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             RNLQHRLYECLYRNRDVD +FV+EFYAYLRKHFSMMILSDDAVVC+NS YA+QGLVASIK
Sbjct  5084  RNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIK  5143

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
             NFK+VLYYQNNVFMSEAKCWTETDLT+GPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA
Sbjct  5144  NFKAVLYYQNNVFMSEAKCWTETDLTRGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  5203

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML
Sbjct  5204  GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  5263

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ
Sbjct  5264  DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  5295


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

 Score = 1531 bits (3964),  Expect = 0.0, Method: Composition-based stats.
 Identities = 894/932 (96%), Positives = 915/932 (98%), Gaps = 0/932 (0%)

Query  1     SADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             SADA +FLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYN++VAGFAKFLKTNCCRFQEKD
Sbjct  4376  SADASTFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNERVAGFAKFLKTNCCRFQEKD  4435

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             E+ NL+DSYFVVKRHT SNYQHEETIYNL+K+CPAVA HDFFKFR+DGDMVPHISRQRLT
Sbjct  4436  EEGNLLDSYFVVKRHTMSNYQHEETIYNLVKECPAVAVHDFFKFRVDGDMVPHISRQRLT  4495

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE
Sbjct  4496  KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  4555

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
             RVRQALLKTVQFCDAMR+AGIVGVLTLDNQDLNGNWYDFGDF+Q  PG GVP+VDSYYSL
Sbjct  4556  RVRQALLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSL  4615

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             LMPILTLT+AL AESH+D DL KP IKWDLLKYDFTEERL LFDRYFKYWDQTYHPNC+N
Sbjct  4616  LMPILTLTKALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCIN  4675

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN
Sbjct  4676  CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  4735

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
             LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY
Sbjct  4736  LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  4795

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF
Sbjct  4796  DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  4855

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQD LFAYTKRNVIPTIT
Sbjct  4856  DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDVLFAYTKRNVIPTIT  4915

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN
Sbjct  4916  QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  4975

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             MLKTVYSDVE PHLMGWDYPKCDRAMPNMLRIMASLVLARKH+TCC+LSHRFYRLANECA
Sbjct  4976  MLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHSTCCNLSHRFYRLANECA  5035

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV
Sbjct  5036  QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  5095

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             RNLQHRLYECLYRNRDVD +FV+EFYAYLRKHFSMMILSDDAVVC+NS YA+QGLVASIK
Sbjct  5096  RNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIK  5155

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
             NFK+V YYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA
Sbjct  5156  NFKAVHYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  5215

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML
Sbjct  5216  GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  5275

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ
Sbjct  5276  DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  5307


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

 Score = 1527 bits (3953),  Expect = 0.0, Method: Composition-based stats.
 Identities = 659/934 (71%), Positives = 776/934 (83%), Gaps = 3/934 (0%)

Query  2     ADAQSFLNRVCGV-SAARLTPCGTGTSTDVVYRAFDIYN--DKVAGFAKFLKTNCCRFQE  58
             +   +FLNRV G    AR+ PC +G +TDVV+RAFDI N   KVAG  K+ KTN CRF E
Sbjct  4468  SKDSNFLNRVRGSIVNARIEPCASGLTTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  4527

Query  59    KDEDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQR  118
              D++ + +DS+FVVKRHT  NY+ E+  Y+L+KDC AVA HDFF F +D    PHI RQR
Sbjct  4528  VDDEGHRLDSFFVVKRHTMENYELEKRCYDLVKDCDAVAVHDFFIFDVDKVKTPHIVRQR  4587

Query  119   LTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANL  178
             LT+YTM DLVYALRHFD+ NC+ LK ILV Y CCD  YF+ K W+DFVENP+++ VY  L
Sbjct  4588  LTEYTMMDLVYALRHFDQNNCEVLKSILVKYGCCDASYFDNKLWFDFVENPNVISVYHKL  4647

Query  179   GERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYY  238
             GER+RQA+L TV+FCD M  +G+VGVLTLDNQDLNG WYDFGDF+ T PG+GV +VDSYY
Sbjct  4648  GERIRQAVLNTVKFCDQMVKSGLVGVLTLDNQDLNGKWYDFGDFVITQPGAGVAIVDSYY  4707

Query  239   SLLMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNC  298
             S LMP+L++T  L AE+H D DLTKP I+W LL+YD+T+ ++ LF++YFK WDQ YHPNC
Sbjct  4708  SYLMPVLSMTNCLAAETHRDCDLTKPLIEWPLLEYDYTDYKIGLFEKYFKXWDQQYHPNC  4767

Query  299   VNCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQD  358
             VNC DDRC+LHCANFNVLFS   P TSFGP+VRKIFVDGVPFV+S GYH++ELG+V N D
Sbjct  4768  VNCTDDRCVLHCANFNVLFSMTLPGTSFGPIVRKIFVDGVPFVISCGYHYKELGLVMNMD  4827

Query  359   VNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKD  418
             V+LH  RLS KEL++YAADPAMH AS + L D RT CFSVAALT  + FQTV+PGNFNKD
Sbjct  4828  VSLHRHRLSLKELMMYAADPAMHIASASALWDLRTPCFSVAALTTGLTFQTVRPGNFNKD  4887

Query  419   FYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDK  478
             FYDF VSKGFFKEGSSV L+HFFFAQDG+AAI+DY YY YNLPTMCDI+Q+LF +EVVD+
Sbjct  4888  FYDFVVSKGFFKEGSSVTLRHFFFAQDGHAAITDYSYYAYNLPTMCDIKQMLFCMEVVDR  4947

Query  479   YFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPT  538
             YF+ YDGGC+NA++VIVNNLDKSAG PFNK+GKAR+YY+S+SY++QD LFA TKRNV+PT
Sbjct  4948  YFEIYDGGCLNASEVIVNNLDKSAGHPFNKFGKARVYYESLSYQEQDELFAMTKRNVLPT  5007

Query  539   ITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGW  598
             ITQMNLKYAISAKNRARTVAGVSI STMTNRQ+HQK+LKS+AATRG+T VIGT+KFYGGW
Sbjct  5008  ITQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGSTCVIGTTKFYGGW  5067

Query  599   HNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANE  658
               MLKT+Y DV+NPHLMGWDYPKCDRAMPNM RI ASL+LARKH+TCC+ + RFYRLANE
Sbjct  5068  DFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHSTCCTNTDRFYRLANE  5127

Query  659   CAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADK  718
             CAQVLSE V+CGG  YVKPGGTSSGDATTAYANSVFNI QA TANV+AL+  +GN I D+
Sbjct  5128  CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNTIVDE  5187

Query  719   YVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVAS  778
              V+++Q  LY  +YR    D  FV+ +YA+L KHFSMMILSDD VVC+NS YA++G +AS
Sbjct  5188  EVKDMQFELYVNVYRKSQPDPKFVDRYYAFLNKHFSMMILSDDGVVCYNSDYATKGYIAS  5247

Query  779   IKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRIL  838
             I+NFK  LYYQNNVFMSEAKCW ETDL KGPHEFCSQHT+ +K GDD  +LPYPDPSRIL
Sbjct  5248  IQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLFIKDGDDGYFLPYPDPSRIL  5307

Query  839   GAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGH  898
              AGCFVDDIVKTDGTLM+ERFVSLAIDAYPLTKH + EY +VF +YLQYI KL+ +LTGH
Sbjct  5308  SAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHDDPEYQNVFWVYLQYIEKLYKDLTGH  5367

Query  899   MLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             MLD YSVML  DN++++WE  FY  +YT  T LQ
Sbjct  5368  MLDSYSVMLCGDNSAKFWEESFYRDLYTAPTTLQ  5401


>sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus 
HKU4 OX=694007 GN=rep PE=1 SV=1
Length=7119

 Score = 1521 bits (3938),  Expect = 0.0, Method: Composition-based stats.
 Identities = 660/934 (71%), Positives = 777/934 (83%), Gaps = 3/934 (0%)

Query  2     ADAQSFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDK--VAGFAKFLKTNCCRFQE  58
             +   +FLNRV G S  ARL PC +G +TDVVYRAFDI N K  VAG  K+ KTN CRF +
Sbjct  4421  SKDTNFLNRVRGSSVNARLEPCSSGLTTDVVYRAFDICNFKARVAGIGKYYKTNTCRFVQ  4480

Query  59    KDEDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQR  118
              D++ + +DSYF+VKRHT SNY+ E+  Y+LLKDC AVA HDFF F +D    PHI RQ 
Sbjct  4481  VDDEGHKLDSYFIVKRHTMSNYELEKRCYDLLKDCDAVAIHDFFIFDVDKTKTPHIVRQS  4540

Query  119   LTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANL  178
             LT+YTM DLVYALRHFD+ NC+ LK ILV Y CC+  YF+ K W+DFVENP ++ VY  L
Sbjct  4541  LTEYTMMDLVYALRHFDQNNCEVLKSILVKYGCCEQSYFDNKLWFDFVENPSVIGVYHKL  4600

Query  179   GERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYY  238
             GER+RQA+L TV+ CD M  +G+VGVLTLDNQDLNG WYDFGDF+ T PG+GV +VDSYY
Sbjct  4601  GERIRQAMLNTVKMCDHMVKSGLVGVLTLDNQDLNGKWYDFGDFVITQPGAGVAIVDSYY  4660

Query  239   SLLMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNC  298
             S LMP+L++T  L AE+H D D  KP I+W LL+YD+T+ ++ LF++YFKYWDQTYHPNC
Sbjct  4661  SYLMPVLSMTNCLAAETHKDCDFNKPLIEWPLLEYDYTDYKIGLFNKYFKYWDQTYHPNC  4720

Query  299   VNCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQD  358
             VNC DDRCILHCANFNVLFS V P TSFGP+VRKIFVDGVPF+VS GYH++ELG+V N D
Sbjct  4721  VNCSDDRCILHCANFNVLFSMVLPNTSFGPIVRKIFVDGVPFIVSCGYHYKELGLVMNMD  4780

Query  359   VNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKD  418
              N+H  RL+ KEL++YAADPAMH AS + L D RT CFSVAALT  + FQTV+PGNFNKD
Sbjct  4781  FNIHRHRLALKELMMYAADPAMHIASASALWDLRTPCFSVAALTTGLTFQTVRPGNFNKD  4840

Query  419   FYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDK  478
             FYDF VS+GFFKEGSSV LKHFFFAQDG+AAI+DY YY YNLPTM DI+Q+LF +EVVDK
Sbjct  4841  FYDFVVSRGFFKEGSSVTLKHFFFAQDGHAAITDYSYYAYNLPTMVDIKQMLFCMEVVDK  4900

Query  479   YFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPT  538
             YFD YDGGC+NA++VIVNNLDKSAG PFNK+GKAR+YY+SMSY++QD LFA TKRNV+PT
Sbjct  4901  YFDIYDGGCLNASEVIVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAVTKRNVLPT  4960

Query  539   ITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGW  598
             ITQMNLKYAISAKNRARTVAGVSI STMTNRQ+HQK+LKS+AATRGAT VIGT+KFYGGW
Sbjct  4961  ITQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  5020

Query  599   HNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANE  658
               MLKT+Y DVE+PHLMGWDYPKCDRAMPNM RI+ASL+LARKH+TCC+ S RFYRLANE
Sbjct  5021  DFMLKTLYKDVESPHLMGWDYPKCDRAMPNMCRILASLILARKHSTCCTNSDRFYRLANE  5080

Query  659   CAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADK  718
             CAQVLSE V+CGG  YVKPGGTSSGDATTAYANSVFNI QA TANV+AL+S +GN I D+
Sbjct  5081  CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMSANGNTIIDR  5140

Query  719   YVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVAS  778
              ++++Q  LY  +YR    D  FV+++YA+L KHFSMMILSDD VVC+NS YA++G VAS
Sbjct  5141  EIKDMQFDLYINVYRKVVPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYVAS  5200

Query  779   IKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRIL  838
             I+NFK  LYYQNNVFMSEAKCW ET+L KGPHEFCSQHT+ +K GDD  +LPYPDPSRIL
Sbjct  5201  IQNFKETLYYQNNVFMSEAKCWVETNLEKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRIL  5260

Query  839   GAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGH  898
              AGCFVDDIVKTDGT+M+ER+VSLAIDAYPLTKH + EY +VF +YLQYI KL+ +LTGH
Sbjct  5261  SAGCFVDDIVKTDGTVMMERYVSLAIDAYPLTKHDDTEYQNVFWVYLQYIEKLYKDLTGH  5320

Query  899   MLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             MLD YSVML  D+++++WE  FY  +Y+  T LQ
Sbjct  5321  MLDSYSVMLCGDDSAKFWEEGFYRDLYSSPTTLQ  5354


>sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus 
133/2005 OX=389230 GN=rep PE=3 SV=1
Length=7126

 Score = 1518 bits (3929),  Expect = 0.0, Method: Composition-based stats.
 Identities = 660/934 (71%), Positives = 778/934 (83%), Gaps = 3/934 (0%)

Query  2     ADAQSFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDK--VAGFAKFLKTNCCRFQE  58
             +   +FLNRV G S  ARL PC +G +TDVVYRAFDI N K  VAG  K+ KTN CRF +
Sbjct  4428  SKDTNFLNRVRGSSVNARLEPCSSGLTTDVVYRAFDICNFKARVAGIGKYYKTNTCRFVQ  4487

Query  59    KDEDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQR  118
              D++ + +DSYF+VKRHT SNY+ E+  Y+LLKDC AVA HDFF F +D    PHI RQ 
Sbjct  4488  VDDEGHKLDSYFIVKRHTMSNYELEKRCYDLLKDCDAVAIHDFFIFDVDKTKTPHIVRQS  4547

Query  119   LTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANL  178
             LT+YTM DLVYALRHFD+ NC+ LK ILV Y CC+  YF+ K W+DFVENP ++ VY  L
Sbjct  4548  LTEYTMMDLVYALRHFDQNNCEVLKSILVKYGCCEQSYFDNKLWFDFVENPSVIGVYHKL  4607

Query  179   GERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYY  238
             GER+RQA+L TV+ CD M  +G+VGVLTLDNQDLNG WYDFGDF+ T PG+GV +VDSYY
Sbjct  4608  GERIRQAMLNTVKMCDHMVKSGLVGVLTLDNQDLNGKWYDFGDFVITQPGAGVAIVDSYY  4667

Query  239   SLLMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNC  298
             S LMP+L++T  L AE+H D D  KP I+W LL+YD+T+ ++ LF++YFK+WDQTYHPNC
Sbjct  4668  SYLMPVLSMTNCLAAETHKDCDFNKPLIEWLLLEYDYTDYKIGLFNKYFKHWDQTYHPNC  4727

Query  299   VNCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQD  358
             VNC DDRCILHCANFNVLFS V P TSFGP+VRKIFVDGVPF+VS GYH++ELG+V N D
Sbjct  4728  VNCGDDRCILHCANFNVLFSMVLPNTSFGPIVRKIFVDGVPFIVSCGYHYKELGLVMNMD  4787

Query  359   VNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKD  418
             VN+H  RL+ KEL++YAADPAMH AS + L D RT CFSVAALT  + FQTV+PGNFNKD
Sbjct  4788  VNIHRHRLALKELMMYAADPAMHIASASALWDLRTPCFSVAALTTGLTFQTVRPGNFNKD  4847

Query  419   FYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDK  478
             FYDF VS+GFFKEGSSV LKHFFFAQDG+AAI+DY YY YNLPTM DI+Q+LF +EVVDK
Sbjct  4848  FYDFVVSRGFFKEGSSVTLKHFFFAQDGHAAITDYSYYAYNLPTMVDIKQMLFCMEVVDK  4907

Query  479   YFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPT  538
             YFD YDGGC+NA++VIVNNLDKSAG PFNK+GKAR+YY+SMSY++QD LFA TKRNV+PT
Sbjct  4908  YFDIYDGGCLNASEVIVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAVTKRNVLPT  4967

Query  539   ITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGW  598
             ITQMNLKYAISAKNRARTVAGVSI STMTNRQ+HQK+LKS+AATRGAT VIGT+KFYGGW
Sbjct  4968  ITQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  5027

Query  599   HNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANE  658
               MLKT+Y DVE+PHLMGWDYPKCDRAMPNM RI+ASL+LARKH+TCC+ S RFYRLANE
Sbjct  5028  DFMLKTLYKDVESPHLMGWDYPKCDRAMPNMCRILASLILARKHSTCCTNSDRFYRLANE  5087

Query  659   CAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADK  718
             CAQVLSE V+CGG  YVKPGGTSSGDATTAYANSVFNI QA TANV+AL+S +GN I D+
Sbjct  5088  CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMSANGNTIIDR  5147

Query  719   YVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVAS  778
              ++++Q  LY  +YR    D  FV+++YA+L KHFSMMILSDD VVC+NS YA++G VAS
Sbjct  5148  EIKDMQFDLYINVYRKVVPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYVAS  5207

Query  779   IKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRIL  838
             I+NFK  LYYQNNVFMSEAKCW ET+L KGPHEFCSQHT+ +K GDD  +LPYPDPSRIL
Sbjct  5208  IQNFKETLYYQNNVFMSEAKCWVETNLEKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRIL  5267

Query  839   GAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGH  898
              AGCFVDDIVKTDGT+M+ER+VSLAIDAYPLTKH + EY +VF +YLQYI KL+ +LTGH
Sbjct  5268  SAGCFVDDIVKTDGTVMMERYVSLAIDAYPLTKHDDTEYQNVFWVYLQYIEKLYKDLTGH  5327

Query  899   MLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             MLD YSVML  D+++++WE  FY  +Y+  T LQ
Sbjct  5328  MLDSYSVMLCGDDSAKFWEEGFYRDLYSSPTTLQ  5361


>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 = 1509 bits (3906),  Expect = 0.0, Method: Composition-based stats.
 Identities = 663/934 (71%), Positives = 771/934 (83%), Gaps = 4/934 (0%)

Query  2     ADAQSFLNRVCGV-SAARLTPCGTGTSTDVVYRAFDIYN--DKVAGFAKFLKTNCCRFQE  58
             +   +FL RV G    AR+ PC +G STDVV+RAFDI N   KVAG  K+ KTN CRF E
Sbjct  4378  SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  4437

Query  59    KDEDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQR  118
              D+  + +DSYFVVKRHT  NY+ E+  Y+LL+DC AVA HDFF F +D    PHI RQR
Sbjct  4438  LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  4497

Query  119   LTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANL  178
             LT+YTM DLVYALRHFD+ N + LK ILV Y CCD  YF  K W+DFVENP ++ VY  L
Sbjct  4498  LTEYTMMDLVYALRHFDQ-NSEVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  4556

Query  179   GERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYY  238
             GERVRQA+L TV+FCD M  AG+VGVLTLDNQDLNG WYDFGDF+ T PGSGV +VDSYY
Sbjct  4557  GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  4616

Query  239   SLLMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNC  298
             S LMP+L++T  L AE+H D D  KP I+W L +YDFT+ +++LF++YFKYWDQTYH NC
Sbjct  4617  SYLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANC  4676

Query  299   VNCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQD  358
             VNC DDRC+LHCANFNVLF+   P T FGP+VRKIFVDGVPFVVS GYH++ELG+V N D
Sbjct  4677  VNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMD  4736

Query  359   VNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKD  418
             V+LH  RLS KEL++YAADPAMH AS N  LD RT+CFSVAALT  + FQTV+PGNFN+D
Sbjct  4737  VSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQD  4796

Query  419   FYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDK  478
             FYDF VSKGFFKEGSSV LKHFFFAQDGNAAI+DY+YY YNLPTMCDI+Q+LF +EVV+K
Sbjct  4797  FYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNK  4856

Query  479   YFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPT  538
             YF+ YDGGC+NA++V+VNNLDKSAG PFNK+GKAR+YY+SMSY++QD LFA TKRNVIPT
Sbjct  4857  YFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPT  4916

Query  539   ITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGW  598
             +TQMNLKYAISAKNRARTVAGVSI STMTNRQ+HQK+LKS+AATRGAT VIGT+KFYGGW
Sbjct  4917  MTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  4976

Query  599   HNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANE  658
               MLKT+Y DV+NPHLMGWDYPKCDRAMPNM RI ASL+LARKH TCC+   RFYRLANE
Sbjct  4977  DFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANE  5036

Query  659   CAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADK  718
             CAQVLSE V+CGG  YVKPGGTSSGDATTAYANSVFNI QA TANV+AL+  +GNKI DK
Sbjct  5037  CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDK  5096

Query  719   YVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVAS  778
              V+++Q  LY  +YR+   D  FV+++YA+L KHFSMMILSDD VVC+NS YA++G +A 
Sbjct  5097  EVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAG  5156

Query  779   IKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRIL  838
             I+NFK  LYYQNNVFMSEAKCW ETDL KGPHEFCSQHT+ +K GDD  +LPYPDPSRIL
Sbjct  5157  IQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRIL  5216

Query  839   GAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGH  898
              AGCFVDDIVKTDGTLM+ERFVSLAIDAYPLTKH + EY +VF +YLQYI KL+ +LTGH
Sbjct  5217  SAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGH  5276

Query  899   MLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             MLD YSVML  DN++++WE  FY  +Y+  T LQ
Sbjct  5277  MLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  5310


>sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavirus 
(strain A59) OX=11142 GN=rep PE=1 SV=1
Length=7176

 Score = 1479 bits (3829),  Expect = 0.0, Method: Composition-based stats.
 Identities = 617/932 (66%), Positives = 742/932 (80%), Gaps = 5/932 (1%)

Query  2     ADAQSFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             +   +FLNR+ G S  ARL PC +G  TDV  RAFDI N   AG   + K NCCRFQ  D
Sbjct  4455  SKDTNFLNRIRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCCRFQRVD  4514

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             ED N +D +FVVKR     Y  E+  Y L K+C  VA+H+FF F ++G  VPHI R+ L+
Sbjct  4515  EDGNKLDKFFVVKRTNLEVYNKEKECYELTKECGVVAEHEFFTFDVEGSRVPHIVRKDLS  4574

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             K+TM DL YALRHFD  +C TLKEIL+TY  C++ YF KKDWYDFVENPDI+ VY  LG 
Sbjct  4575  KFTMLDLCYALRHFDRNDCSTLKEILLTYAECEESYFQKKDWYDFVENPDIINVYKKLGP  4634

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
                +ALL T +F DA+  AG+VGVLTLDNQDL G WYDFGDF++T PG GV V DSYYS 
Sbjct  4635  IFNRALLNTAKFADALVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPGCGVAVADSYYSY  4694

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             +MP+LT+  AL +E  V+      Y ++DL++YDFT+ +L+LF +YFK+W  TYHPN   
Sbjct  4695  MMPMLTMCHALDSELFVN----GTYREFDLVQYDFTDFKLELFTKYFKHWSMTYHPNTCE  4750

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             C DDRCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+
Sbjct  4751  CEDDRCIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVD  4810

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
              H  RLS K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY
Sbjct  4811  THRYRLSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFY  4870

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             +F +SKG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV+KYF
Sbjct  4871  EFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVNKYF  4930

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             + Y+GGCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+T
Sbjct  4931  EIYEGGCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLT  4990

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +
Sbjct  4991  QMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDD  5050

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             ML+ +  DV++P LMGWDYPKCDRAMPN+LRI++SLVLARKH +CCS + RFYRLANECA
Sbjct  5051  MLRRLIKDVDSPVLMGWDYPKCDRAMPNILRIVSSLVLARKHDSCCSHTDRFYRLANECA  5110

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSE+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D  +
Sbjct  5111  QVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSI  5170

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             R LQ RLY  +YR   VD  FV+E+Y +L KHFSMMILSDD VVC+NS +AS+G +A+I 
Sbjct  5171  RELQKRLYSNVYRADHVDPAFVSEYYEFLNKHFSMMILSDDGVVCYNSEFASKGYIANIS  5230

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
              F+ VLYYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK   D VYLPYPDPSRILGA
Sbjct  5231  AFQQVLYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGA  5290

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDD++KTD  L+IERFVSLAIDAYPL  H N EY +VF +YL+YI+KL+++L   +L
Sbjct  5291  GCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQIL  5350

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             D YSV+L+  +  ++ +  FY+ MY    VLQ
Sbjct  5351  DSYSVILSTCDGQKFTDETFYKNMYLRSAVLQ  5382


>sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavirus 
(strain 2) OX=76344 GN=rep PE=3 SV=1
Length=7124

 Score = 1479 bits (3829),  Expect = 0.0, Method: Composition-based stats.
 Identities = 618/932 (66%), Positives = 741/932 (80%), Gaps = 5/932 (1%)

Query  2     ADAQSFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             +   +FLNRV G S  ARL PC +G  TDV  RAFDI N   AG   + K NCCRFQ  D
Sbjct  4403  SKDTNFLNRVRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCCRFQRAD  4462

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             ED N +D +FV+KR     Y  E+  Y L K+C  VA+H+FF F ++G  VPHI R+ L+
Sbjct  4463  EDGNTLDKFFVIKRTNLEVYNKEKECYELTKECGVVAEHEFFTFDVEGSRVPHIVRKDLS  4522

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTM DL YALRHFD  +C TLKEIL+TY  CD+ YF KKDWYDFVEN DI+ VY  LG 
Sbjct  4523  KYTMLDLCYALRHFDRNDCSTLKEILLTYAECDESYFQKKDWYDFVENSDIINVYKKLGP  4582

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
                +ALL T +F D +  AG+VGVLTLDNQDL G WYDFGDF++T PG GV V DSYYS 
Sbjct  4583  IFNRALLNTAKFADTLVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPGCGVAVADSYYSY  4642

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             +MP+LT+  AL +E  ++      Y ++DL++YDFT+ +L+LF++YFKYW  TYHPN   
Sbjct  4643  MMPMLTMCHALDSELFIN----GTYREFDLVQYDFTDFKLELFNKYFKYWSMTYHPNTCE  4698

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             C DDRCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+
Sbjct  4699  CEDDRCIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVD  4758

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
              H  RLS K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY
Sbjct  4759  THRYRLSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFY  4818

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             +F +SKG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV+KYF
Sbjct  4819  EFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVNKYF  4878

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             + YDGGCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+T
Sbjct  4879  EIYDGGCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEVYAYTKRNVLPTLT  4938

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +
Sbjct  4939  QMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDD  4998

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             ML+ +  DV++P LMGWDYPKCDRAMPN+LRI++SLVLARKH +CCS + RFYRLANECA
Sbjct  4999  MLRRLIKDVDSPVLMGWDYPKCDRAMPNILRIISSLVLARKHDSCCSHTDRFYRLANECA  5058

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSE+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D  +
Sbjct  5059  QVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSI  5118

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             R LQ RLY  +YR   VD  FVNE+Y +L KHFSMMILSDD VVC+NS +AS+G +A+I 
Sbjct  5119  RELQKRLYSNVYRADHVDPAFVNEYYEFLNKHFSMMILSDDGVVCYNSEFASKGYIANIS  5178

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
              F+ VLYYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK   D VYLPYPDPSRILGA
Sbjct  5179  AFQQVLYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGA  5238

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDD++KTD  L+IERFVSLAIDAYPL  H N EY +VF +YL+YI+KL+++L   +L
Sbjct  5239  GCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQIL  5298

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             D YSV+L+  +  ++ +  FY+ MY    V+Q
Sbjct  5299  DSYSVILSTCDGQKFTDETFYKNMYLRSAVMQ  5330


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

 Score = 1476 bits (3822),  Expect = 0.0, Method: Composition-based stats.
 Identities = 676/932 (73%), Positives = 770/932 (83%), Gaps = 1/932 (0%)

Query  2     ADAQSFLNRVCGVS-AARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             A  + FLNRV G S  ARL P G+G   D+V RAFDI N KVAGF   LK NCCR+QE D
Sbjct  4234  ARDECFLNRVRGTSGVARLVPLGSGVQPDIVLRAFDICNTKVAGFGLHLKNNCCRYQELD  4293

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
              D   +DSYFVVKRHT SNY  E+  Y  LKDC  VA+HDFFKF I+G M PH+SR+RLT
Sbjct  4294  ADGTQLDSYFVVKRHTESNYLLEQRCYEKLKDCGVVARHDFFKFNIEGVMTPHVSRERLT  4353

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTMADLVY+LRHFD  NCDTLKEILV   CC  DYF++KDWYD VENPDI+RVY NLGE
Sbjct  4354  KYTMADLVYSLRHFDNNNCDTLKEILVLRGCCTADYFDRKDWYDPVENPDIIRVYHNLGE  4413

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
              VR+A+L  V+  D+M   G++GVLTLDNQDLNG WYDFGDFI+   G+GV V+D+YYSL
Sbjct  4414  TVRKAVLSAVKMADSMVEQGLIGVLTLDNQDLNGQWYDFGDFIEGPAGAGVAVMDTYYSL  4473

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
              MP+ T+T  L AE HVD D +KP   WD+ KYD+T+ +  LF +YFKYWD  YHPNCV 
Sbjct  4474  AMPVYTMTNMLAAECHVDGDFSKPKRVWDICKYDYTQFKYSLFSKYFKYWDMQYHPNCVA  4533

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             C DDRCILHCANFN+LFS V P TSFGPLV+KI+VDGVPFVVSTGYH+RELGVV NQD+ 
Sbjct  4534  CADDRCILHCANFNILFSMVLPNTSFGPLVQKIYVDGVPFVVSTGYHYRELGVVMNQDIR  4593

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
              H+ RLS +ELLVYAADPAMH A+ N L DKRT C SVAA+T  V FQTVKPG FN+DFY
Sbjct  4594  QHAQRLSLRELLVYAADPAMHVAASNALADKRTVCMSVAAMTTGVTFQTVKPGQFNEDFY  4653

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             +FAV  GFFKEGS++  KHFF+AQDGNAAISDYDYYRYNLPTMCDI+QLLF +EVVDKYF
Sbjct  4654  NFAVKCGFFKEGSTISFKHFFYAQDGNAAISDYDYYRYNLPTMCDIKQLLFSLEVVDKYF  4713

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             DCYDGGC+ A+QV+V N DKSAGFPFNK+GKARLYY+S+SY DQD LFAYTKRNV+PTIT
Sbjct  4714  DCYDGGCLQASQVVVANYDKSAGFPFNKFGKARLYYESLSYADQDELFAYTKRNVLPTIT  4773

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSI STMTNRQFHQK+LKSIAA RGA+VVIGT+KFYGGW+ 
Sbjct  4774  QMNLKYAISAKNRARTVAGVSIASTMTNRQFHQKMLKSIAAARGASVVIGTTKFYGGWNR  4833

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             ML+T+   VENPHLMGWDYPKCDRAMPN+LRI ASL+LARKH TCC+ S RFYRLANECA
Sbjct  4834  MLRTLCEGVENPHLMGWDYPKCDRAMPNLLRIFASLILARKHATCCNASERFYRLANECA  4893

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSEMV+CGG  YVKPGGTSSGD+TTAYANSVFNICQAV+AN+N  LS DGNKI   YV
Sbjct  4894  QVLSEMVLCGGGFYVKPGGTSSGDSTTAYANSVFNICQAVSANLNTFLSIDGNKIYTTYV  4953

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             + LQ RLY  +YR+  VD + V ++Y YLRKHFSMMILSDD VVC+N+ YA +G VA I+
Sbjct  4954  QELQRRLYLGIYRSNTVDNELVLDYYNYLRKHFSMMILSDDGVVCYNADYAQKGYVADIQ  5013

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
              FK +LY+QNNVFMSE+KCW E D+TKGPHEFCSQHTMLV    + VYLPYPDPSRILGA
Sbjct  5014  GFKELLYFQNNVFMSESKCWVEPDITKGPHEFCSQHTMLVDMKGEQVYLPYPDPSRILGA  5073

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDD++KTDGTLM+ER+VSLAIDAYPLTKHP+ EY +VF  YLQYI+KLH+ELTGH+L
Sbjct  5074  GCFVDDLLKTDGTLMMERYVSLAIDAYPLTKHPDPEYQNVFWCYLQYIKKLHEELTGHLL  5133

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             D YSVML +DN S+YWE EFYE MY     LQ
Sbjct  5134  DTYSVMLASDNASKYWEVEFYENMYMESATLQ  5165


>sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavirus 
(strain JHM) OX=11144 GN=rep PE=1 SV=1
Length=7180

 Score = 1466 bits (3794),  Expect = 0.0, Method: Composition-based stats.
 Identities = 613/932 (66%), Positives = 738/932 (79%), Gaps = 5/932 (1%)

Query  2     ADAQSFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             +   +FLNRV G S  ARL PC +G  TDV  RAFDI N   AG   + K NC RFQ  D
Sbjct  4461  SKDTNFLNRVRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCFRFQRVD  4520

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             E+ N +D +FVVKR     Y  E+  Y L KDC  VA+H+FF F ++G  VPHI R+ L+
Sbjct  4521  EEGNKLDKFFVVKRTNLEVYNKEKECYELTKDCGVVAEHEFFTFDVEGSRVPHIVRKDLS  4580

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             K+TM DL YALRHFD  +C TLKEIL+TY  CD+ YF KKDWYDFVENPDI+ VY  LG 
Sbjct  4581  KFTMLDLCYALRHFDRNDCSTLKEILLTYAECDESYFQKKDWYDFVENPDIINVYKKLGP  4640

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
                +ALL T  F D +  AG+VGVLTLDNQDL G WYDFGDF++T P  GV V DSYYS 
Sbjct  4641  IFNRALLNTANFADTLVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPCCGVAVADSYYSY  4700

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             +MP+LT+  AL +E  V+      Y ++DL++YDFT+ +L+LF++YFK+W  TYHPN   
Sbjct  4701  MMPMLTMCHALDSELFVN----GTYREFDLVQYDFTDFKLELFNKYFKHWSMTYHPNTSE  4756

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             C DDRCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+
Sbjct  4757  CEDDRCIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVD  4816

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
              H  RLS K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY
Sbjct  4817  THRYRLSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFY  4876

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             +F +SKG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFVVEVV+KYF
Sbjct  4877  EFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVVEVVNKYF  4936

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             + Y+GGCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+T
Sbjct  4937  EIYEGGCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLT  4996

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +
Sbjct  4997  QMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDD  5056

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             ML+ +  DV++P LMGWDYPKCDRAMPN+LRI++SLVLARKH +CCS + RFYRLANECA
Sbjct  5057  MLRRLIKDVDSPVLMGWDYPKCDRAMPNILRIVSSLVLARKHDSCCSHTDRFYRLANECA  5116

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVL E+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D  +
Sbjct  5117  QVLGEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSI  5176

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             R LQ RLY  +YR   VD  FV+E+Y +L KHFSM+ILSDD VVC+NS +AS+G +A+I 
Sbjct  5177  RELQKRLYSNVYRADHVDPAFVSEYYEFLNKHFSMIILSDDGVVCYNSEFASKGYIANIS  5236

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
             +F+ VLYYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK   D VYLPYPDPSRILGA
Sbjct  5237  DFQQVLYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGA  5296

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDD++KTD  L+IERFVSLAIDAYPL  H N EY +VF +YL+YI+KL+++L   +L
Sbjct  5297  GCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQIL  5356

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             D  SV+L+  +  ++ +  FY+ MY    V+Q
Sbjct  5357  DSISVILSTCDGQKFTDETFYKNMYLRSAVMQ  5388


>sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus 
512/2005 OX=693999 GN=rep PE=3 SV=1
Length=6793

 Score = 1464 bits (3791),  Expect = 0.0, Method: Composition-based stats.
 Identities = 560/930 (60%), Positives = 706/930 (76%), Gaps = 6/930 (1%)

Query  4     AQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDD  63
                +LNRV G SAARL P   G+ T  V+RAFD+YN  VA  +KFLK NC R +  D+  
Sbjct  4114  DSGYLNRVRGSSAARLEPL-NGSDTHHVFRAFDVYNRDVACISKFLKVNCVRLKNLDKH-  4171

Query  64    NLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYT  123
                D++++VK+ T S  +HE++IYNL+ DC AVAKHDFF ++    +  ++ RQ LT+YT
Sbjct  4172  ---DAFWIVKKCTKSVMEHEQSIYNLISDCGAVAKHDFFTWKEGRSVYGNVCRQDLTEYT  4228

Query  124   MADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVR  183
             M DL YALR+FDE NC+TLK+ILV    CD+ YF+ K W+D VEN D+ RVYA LG  V 
Sbjct  4229  MMDLCYALRNFDENNCETLKKILVVVGACDESYFDNKLWFDPVENEDVHRVYAKLGTIVA  4288

Query  184   QALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMP  243
             +A+LK V++CDAM   GIVGV+TLDNQDLNG++YDFGDF+ +  G GVP+  SYYS +MP
Sbjct  4289  RAMLKCVKYCDAMVEQGIVGVITLDNQDLNGDFYDFGDFVTSVKGMGVPICTSYYSYMMP  4348

Query  244   ILTLTRALTAESHVDTD-LTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCL  302
             ++ +T  L +E  + +D   + +  +DLL YDFTE ++ LF++YFK+W QTYHPNC +C 
Sbjct  4349  VMGMTNCLASECFIKSDIFGEDFRTFDLLAYDFTEHKVNLFNKYFKHWGQTYHPNCEDCH  4408

Query  303   DDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLH  362
             D+ CI+HCANFN LF+T  P T+FGPL RK ++DGVP V + GYHF++LG+V N+D+NLH
Sbjct  4409  DESCIVHCANFNTLFATTIPITAFGPLCRKCWIDGVPLVTTAGYHFKQLGIVWNKDLNLH  4468

Query  363   SSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDF  422
             SSRL+  ELL + ADP++  AS   L+DKRT CFSVAAL   +  QTVKPG+FN++FYDF
Sbjct  4469  SSRLTINELLQFCADPSLLIASSPALVDKRTVCFSVAALGTGMTNQTVKPGHFNREFYDF  4528

Query  423   AVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDC  482
               S+GFF+EGS + LKHFFFAQ G+AA+ D+DYYRYN  T+ DI Q   V ++V  YF  
Sbjct  4529  LRSQGFFEEGSELTLKHFFFAQKGDAAVRDFDYYRYNRTTVLDICQARVVYQIVQCYFGM  4588

Query  483   YDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQM  542
             Y+GGCI A +VIVNNL+KSAG+PFNK+GKA LYYDS+SYE+QD L+AYTKRN+IPT+TQ+
Sbjct  4589  YEGGCITAKEVIVNNLNKSAGYPFNKFGKAGLYYDSLSYEEQDDLYAYTKRNIIPTMTQL  4648

Query  543   NLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNML  602
             NLKYAIS K+RARTV GVS+ STMT RQ+HQK LKSI  TRGA+VVIGT+KFYGGW NML
Sbjct  4649  NLKYAISGKDRARTVGGVSLLSTMTTRQYHQKHLKSIVNTRGASVVIGTTKFYGGWDNML  4708

Query  603   KTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQV  662
             KT+  DVENPHLMGWDYPKCDRA+PNM+R++++++L  KH  CCS S R+YRL NE AQV
Sbjct  4709  KTLIKDVENPHLMGWDYPKCDRALPNMIRMISAMILGSKHVNCCSSSDRYYRLCNELAQV  4768

Query  663   LSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRN  722
             L+EMV   G  YVKPGGT+SGDATTAYANSVFNI QA +ANVN LLS D N   +  V+ 
Sbjct  4769  LTEMVYSNGGFYVKPGGTTSGDATTAYANSVFNIFQATSANVNRLLSVDSNTCNNIEVKQ  4828

Query  723   LQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNF  782
             LQ +LY+C YR+  VD  FV E++ YLRKHFSMMILSDD VVC+NS YA+ G VA +  F
Sbjct  4829  LQRKLYDCCYRSSSVDQSFVEEYFGYLRKHFSMMILSDDGVVCYNSEYAALGYVADLNAF  4888

Query  783   KSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGC  842
             K+VLYYQNNVFMS +KCW E D+ KGPHEFCSQHTM +   D   YLPYPDPSRIL AG 
Sbjct  4889  KAVLYYQNNVFMSASKCWIEPDINKGPHEFCSQHTMQIVDKDGTYYLPYPDPSRILSAGV  4948

Query  843   FVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDM  902
             FVDDIVKTD  +++ER+VSLAIDAYPL+KH N EY  VF + L +++ L+  L   +LD 
Sbjct  4949  FVDDIVKTDPVILLERYVSLAIDAYPLSKHDNPEYRRVFTVMLDWVKHLYKTLNQGVLDS  5008

Query  903   YSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             +SV L  D T+++W+  FY +MY   +VLQ
Sbjct  5009  FSVTLLEDATAKFWDESFYASMYEQSSVLQ  5038


>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 = 1462 bits (3786),  Expect = 0.0, Method: Composition-based stats.
 Identities = 613/932 (66%), Positives = 733/932 (79%), Gaps = 5/932 (1%)

Query  2     ADAQSFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             +   +FLNRV G S  ARL PC +G STDV  RAFDI N  VAG    LK NCCRFQ  D
Sbjct  4370  SKDTNFLNRVRGTSVDARLVPCASGLSTDVQLRAFDICNASVAGIGLHLKVNCCRFQRVD  4429

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             E+ + +D +FVVKR   + Y  E   Y  +KDC  VA+HDFF F ++G  VPHI R+ LT
Sbjct  4430  ENGDKLDQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKDLT  4489

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTM DL YALRHFD  +C  L +IL  Y  C+  YF KKDWYDFVENPDI+ VY  LG 
Sbjct  4490  KYTMLDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKLGP  4549

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
                +AL+   +F D +   G+VG+LTLDNQDLNG WYDFGD++   PG GV + DSYYS 
Sbjct  4550  IFNRALVSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYYSY  4609

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             +MP+LT+  AL  E +V+      Y  +DL++YDFT+ +L+LF++YFK+W   YHPN V+
Sbjct  4610  MMPMLTMCHALDCELYVN----NAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNTVD  4665

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             C DDRCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELG+V N DV+
Sbjct  4666  CQDDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMDVD  4725

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
              H  RLS K+LL+YAADPA+H AS + L D RT CFSVAA+T+ V FQTVKPGNFN+DFY
Sbjct  4726  THRYRLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQDFY  4785

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             DF +SKG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF
Sbjct  4786  DFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYF  4845

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             + YDGGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+T
Sbjct  4846  EIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLT  4905

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +
Sbjct  4906  QMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDD  4965

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             ML+ +  DV+NP LMGWDYPKCDRAMPN+LRI++SLVLARKH  CCS S RFYRLANECA
Sbjct  4966  MLRRLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACCSQSDRFYRLANECA  5025

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSE+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV AL+S +GNKI D  +
Sbjct  5026  QVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDLSI  5085

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             R LQ RLY  +YR+  VD+ FV E+Y +L KHFSMMILSDD VVC+NS YAS+G +A+I 
Sbjct  5086  RALQKRLYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIANIS  5145

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
              F+ VLYYQNNVFMSE+KCW E D+  GPHEFCSQHTMLVK   D VYLPYPDPSRILGA
Sbjct  5146  AFQQVLYYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDDVYLPYPDPSRILGA  5205

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDD++KTD  L+IERFVSLAIDAYPL  H N+EY  VF +YL+YI+KL+++L   +L
Sbjct  5206  GCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNDLGNQIL  5265

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             D YSV+L+  +  ++ +  FY+ MY    V+Q
Sbjct  5266  DSYSVILSTCDGQKFTDESFYKNMYLRSAVMQ  5297


>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 = 1462 bits (3785),  Expect = 0.0, Method: Composition-based stats.
 Identities = 613/932 (66%), Positives = 733/932 (79%), Gaps = 5/932 (1%)

Query  2     ADAQSFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             +   +FLNRV G S  ARL PC +G STDV  RAFDI N  VAG    LK NCCRFQ  D
Sbjct  4370  SKDTNFLNRVRGTSVDARLVPCASGLSTDVQLRAFDICNASVAGIGLHLKVNCCRFQRVD  4429

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             E+ + +D +FVVKR   + Y  E   Y  +KDC  VA+HDFF F ++G  VPHI R+ LT
Sbjct  4430  ENGDKLDQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKDLT  4489

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTM DL YALRHFD  +C  L +IL  Y  C+  YF KKDWYDFVENPDI+ VY  LG 
Sbjct  4490  KYTMLDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKLGP  4549

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
                +AL+   +F D +   G+VG+LTLDNQDLNG WYDFGD++   PG GV + DSYYS 
Sbjct  4550  IFNRALVSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYYSY  4609

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             +MP+LT+  AL  E +V+      Y  +DL++YDFT+ +L+LF++YFK+W   YHPN V+
Sbjct  4610  MMPMLTMCHALDCELYVN----NAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNTVD  4665

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             C DDRCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELG+V N DV+
Sbjct  4666  CQDDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMDVD  4725

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
              H  RLS K+LL+YAADPA+H AS + L D RT CFSVAA+T+ V FQTVKPGNFN+DFY
Sbjct  4726  THRYRLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQDFY  4785

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             DF +SKG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF
Sbjct  4786  DFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYF  4845

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             + YDGGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+T
Sbjct  4846  EIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLT  4905

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +
Sbjct  4906  QMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDD  4965

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             ML+ +  DV+NP LMGWDYPKCDRAMPN+LRI++SLVLARKH  CCS S RFYRLANECA
Sbjct  4966  MLRRLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACCSQSDRFYRLANECA  5025

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSE+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV AL+S +GNKI D  +
Sbjct  5026  QVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDLSI  5085

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             R LQ RLY  +YR+  VD+ FV E+Y +L KHFSMMILSDD VVC+NS YAS+G +A+I 
Sbjct  5086  RALQKRLYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIANIS  5145

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
              F+ VLYYQNNVFMSE+KCW E D+  GPHEFCSQHTMLVK   D VYLPYPDPSRILGA
Sbjct  5146  AFQQVLYYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDDVYLPYPDPSRILGA  5205

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDD++KTD  L+IERFVSLAIDAYPL  H N+EY  VF +YL+YI+KL+++L   +L
Sbjct  5206  GCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNDLGNQIL  5265

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             D YSV+L+  +  ++ +  FY+ MY    V+Q
Sbjct  5266  DSYSVILSTCDGQKFTDESFYKNMYLRSAVMQ  5297


>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 = 1460 bits (3780),  Expect = 0.0, Method: Composition-based stats.
 Identities = 556/932 (60%), Positives = 701/932 (75%), Gaps = 6/932 (1%)

Query  2     ADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDE  61
             +   ++LNRV G SAARL PC  GT T  VYRAFDIYN  VA   KFLK NC R +  D+
Sbjct  4101  STDMAYLNRVRGSSAARLEPC-NGTDTQHVYRAFDIYNKDVACLGKFLKVNCVRLKNLDK  4159

Query  62    DDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTK  121
                  D+++VVKR T S  +HE++IY+ L+ C A+A+HDFF ++    +  ++ R+ LT+
Sbjct  4160  H----DAFYVVKRCTKSAMEHEQSIYSRLEKCGAIAEHDFFTWKDGRAIYGNVCRKDLTE  4215

Query  122   YTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGER  181
             YTM DL YALR+FDE NCD LK IL+    C++ YFN K W+D VEN DI RVYA LG  
Sbjct  4216  YTMMDLCYALRNFDENNCDVLKSILIKVGACEESYFNNKVWFDPVENEDIHRVYALLGTI  4275

Query  182   VRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLL  241
             V +A+LK V+FCDAM   GIVGV+TLDNQDLNG++YDFGDF  +  G GVP+  SYYS +
Sbjct  4276  VARAMLKCVKFCDAMVEQGIVGVVTLDNQDLNGDFYDFGDFTCSIKGMGVPICTSYYSYM  4335

Query  242   MPILTLTRALTAESHVDTD-LTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             MP++ +T  L +E  V +D   + +  +DLL+YDFTE +  LF++YFKYW   YHPNCV+
Sbjct  4336  MPVMGMTNCLASECFVKSDIFGEDFKSYDLLEYDFTEHKTALFNKYFKYWGLQYHPNCVD  4395

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             C D++CI+HCANFN LFST  P T+FGPL RK ++DGVP V + GYHF++LG+V N D+N
Sbjct  4396  CSDEQCIVHCANFNTLFSTTIPITAFGPLCRKCWIDGVPLVTTAGYHFKQLGIVWNNDLN  4455

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
             LHSSRLS  ELL + +DPA+  AS   L+D+RT CFSVAAL   +  QTVKPG+FNK+FY
Sbjct  4456  LHSSRLSINELLQFCSDPALLIASSPALVDQRTVCFSVAALGTGMTNQTVKPGHFNKEFY  4515

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             DF + +GFF EGS + LKHFFFAQ  +AA+ D+DYYRYN PT+ DI Q   V ++V +YF
Sbjct  4516  DFLLEQGFFSEGSELTLKHFFFAQKVDAAVKDFDYYRYNRPTVLDICQARVVYQIVQRYF  4575

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             D Y+GGCI A +V+V NL+KSAG+P NK+GKA LYY+S+SYE+QD L+AYTKRN++PT+T
Sbjct  4576  DIYEGGCITAKEVVVTNLNKSAGYPLNKFGKAGLYYESLSYEEQDELYAYTKRNILPTMT  4635

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             Q+NLKYAIS K RARTV GVS+ STMT RQ+HQK LKSI  TRGA+VVIGT+KFYGGW N
Sbjct  4636  QLNLKYAISGKERARTVGGVSLLSTMTTRQYHQKHLKSIVNTRGASVVIGTTKFYGGWDN  4695

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             MLK +   VENP LMGWDYPKCDRA+PNM+R++++++L  KHTTCCS + RF+RL NE A
Sbjct  4696  MLKNLIDGVENPCLMGWDYPKCDRALPNMIRMISAMILGSKHTTCCSSTDRFFRLCNELA  4755

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVL+E+V   G  Y+KPGGT+SGDATTAYANSVFNI QAV+ANVN LLS D N   +  V
Sbjct  4756  QVLTEVVYSNGGFYLKPGGTTSGDATTAYANSVFNIFQAVSANVNKLLSVDSNVCHNLEV  4815

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             + LQ +LYEC YR+  VD  FV E+Y YLRKHFSMMILSDD VVC+N+ YAS G VA + 
Sbjct  4816  KQLQRKLYECCYRSTIVDDQFVVEYYGYLRKHFSMMILSDDGVVCYNNDYASLGYVADLN  4875

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
              FK+VLYYQNNVFMS +KCW E D+ KGPHEFCSQHTM +   +   YLPYPDPSRIL A
Sbjct  4876  AFKAVLYYQNNVFMSASKCWIEPDINKGPHEFCSQHTMQIVDKEGTYYLPYPDPSRILSA  4935

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             G FVDD+VKTD  +++ER+VSLAIDAYPL+KH N EY  VF++ L +++ L+  L   +L
Sbjct  4936  GVFVDDVVKTDAVVLLERYVSLAIDAYPLSKHENPEYKKVFYVLLDWVKHLYKTLNAGVL  4995

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             + +SV L  D+T+++W+  FY  MY    VLQ
Sbjct  4996  ESFSVTLLEDSTAKFWDESFYANMYEKSAVLQ  5027


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

 Score = 1459 bits (3777),  Expect = 0.0, Method: Composition-based stats.
 Identities = 613/932 (66%), Positives = 731/932 (78%), Gaps = 5/932 (1%)

Query  2     ADAQSFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             +   +FLNRV G S  ARL PC +G STDV  RAFDI N  VAG    LK NCCRFQ  D
Sbjct  4370  SKDTNFLNRVRGTSVDARLVPCASGLSTDVQLRAFDICNASVAGIGLHLKVNCCRFQRVD  4429

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             E+ + +D +FVVKR   + Y  E   Y  +KDC  VA+HDFF F ++G  VPHI R+ LT
Sbjct  4430  ENGDKLDQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKDLT  4489

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTM DL YALRHFD  +C  L +IL  Y  C+  YF KKDWYDFVENPDI+ VY  LG 
Sbjct  4490  KYTMLDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKLGP  4549

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
                +AL+   +F D +   G+VG+LTLDNQDLNG WYDFGD++   PG GV + DSYYS 
Sbjct  4550  IFNRALVSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYYSY  4609

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             +MP+LT+  AL  E +V+      Y  +DL++YDFT+ +L+LF++YFK+W   YHPN V+
Sbjct  4610  MMPMLTMCHALDCELYVN----NAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNTVD  4665

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             C DDRCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELG+V N DV+
Sbjct  4666  CQDDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMDVD  4725

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
              H  RLS K+LL+YAADPA+H AS + L D RT CFSVAA+T+ V FQTVKPGNFN+DFY
Sbjct  4726  THRYRLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQDFY  4785

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             DF +SKG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF
Sbjct  4786  DFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYF  4845

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             + YDGGCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+T
Sbjct  4846  EIYDGGCIPAAQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLT  4905

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +
Sbjct  4906  QMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDD  4965

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             ML+ +  DV+NP LMGWDYPKCDRAMPN+LRI++SLVLARKH  CCS S RFYRLANECA
Sbjct  4966  MLRRLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACCSQSDRFYRLANECA  5025

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSE+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV AL+S +GNKI D  +
Sbjct  5026  QVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDLSI  5085

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             R LQ RLY  +YR+  VD+ FV E+Y +L KHFSMMILSDD VVC+NS YAS+G +A+I 
Sbjct  5086  RALQKRLYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIANIS  5145

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
              F+ VLYYQNNVFMSE+KCW E D+  GPHEFCSQHTMLVK   D VYLPYP PSRILGA
Sbjct  5146  AFQQVLYYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDDVYLPYPVPSRILGA  5205

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDD++KTD  L+IERFVSLAIDAYPL  H N+EY  VF +YL+YI+KL++EL   +L
Sbjct  5206  GCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNELGNQIL  5265

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             D YSV+L+  +  ++ +  FY+ MY    V+Q
Sbjct  5266  DSYSVILSTCDGQKFTDESFYKNMYLRSAVMQ  5297


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

 Score = 1458 bits (3774),  Expect = 0.0, Method: Composition-based stats.
 Identities = 615/932 (66%), Positives = 734/932 (79%), Gaps = 5/932 (1%)

Query  2     ADAQSFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             +   +FLNRV G S  ARL PC +G STDV  RAFDIYN  VAG    LK NCCRFQ  D
Sbjct  4370  SKDTNFLNRVRGASVDARLVPCASGLSTDVQLRAFDIYNASVAGIGLHLKVNCCRFQRVD  4429

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             E+ + +D +FVVKR   + Y  E   Y  +KDC  VA+HDFF F ++G  VPHI R+ LT
Sbjct  4430  ENGDKLDQFFVVKRTDLTIYNREMKCYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKDLT  4489

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTM DL YALRHFD  +C  L +IL  Y  C+  YF KKDWYDFVENPDI+ VY  LG 
Sbjct  4490  KYTMLDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKLGP  4549

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
                +AL+   +F D +   G+VGVLTLDNQDLNG WYDFGD++   PG GV + DSYYS 
Sbjct  4550  IFNRALVSATEFADKLVEVGLVGVLTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYYSY  4609

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             +MP+LT+  AL  E +V+      Y  +DL++YDFT+ +L+LF++YFK+W   YHPN V+
Sbjct  4610  IMPMLTMCHALDCELYVN----NAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNTVD  4665

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             C DDRCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELG+V N DV+
Sbjct  4666  CQDDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMDVD  4725

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
              H  RLS K+LL+YAADPA+H AS + L D RT CFSVAA+T+ V FQTVKPGNFN+DFY
Sbjct  4726  THRYRLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQDFY  4785

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             DF +SKG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF
Sbjct  4786  DFVLSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYF  4845

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             + YDGGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+T
Sbjct  4846  EIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLT  4905

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +
Sbjct  4906  QMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDD  4965

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             ML+ +  DV+NP LMGWDYPKCDRAMPN+LRI++SLVLARKH TCCS S RFYRLANECA
Sbjct  4966  MLRRLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHETCCSQSDRFYRLANECA  5025

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSE+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV AL+S +GNKI D  +
Sbjct  5026  QVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDLSI  5085

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             R LQ RLY  +YR+  VD+ FV E+Y +L KHFSMMILSDD VVC+NS YAS+G +A+I 
Sbjct  5086  RALQKRLYSHVYRSDKVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIANIS  5145

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
              F+ VLYYQNNVFMSE+KCW E D+  GPHEFCSQHTMLVK   D VYLPYP+PSRILGA
Sbjct  5146  AFQQVLYYQNNVFMSESKCWVEHDINNGPHEFCSQHTMLVKMDGDDVYLPYPNPSRILGA  5205

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDD++KTD  L+IERFVSLAIDAYPL  H N+EY  VF +YL YI+KL+++L   +L
Sbjct  5206  GCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLAYIKKLYNDLGNQIL  5265

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             D YSV+L+  +  ++ +  FY+ MY    V+Q
Sbjct  5266  DSYSVILSTCDGQKFTDESFYKNMYLRSAVMQ  5297


>sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavirus 
HKU1 (isolate N5) OX=443241 GN=rep PE=3 SV=1
Length=7132

 Score = 1455 bits (3766),  Expect = 0.0, Method: Composition-based stats.
 Identities = 622/932 (67%), Positives = 736/932 (79%), Gaps = 5/932 (1%)

Query  2     ADAQSFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             +   +FLNRV G S  ARL PC +G STDV  RAFDI N   AG   + K NCCRFQ  D
Sbjct  4408  SKDLNFLNRVRGTSVNARLVPCASGLSTDVQLRAFDICNTNRAGIGLYYKVNCCRFQRID  4467

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             +D N +D +FVVKR     Y  E+T Y L K C  VA+HDFF F IDG  VPHI R+ L+
Sbjct  4468  DDGNKLDKFFVVKRTNLEVYNKEKTYYELTKSCGVVAEHDFFTFDIDGSRVPHIVRRNLS  4527

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTM DL YALRHFD  +C  L EIL  Y  C + YF+KKDWYDFVENPDI+ +Y  LG 
Sbjct  4528  KYTMLDLCYALRHFDRNDCSILCEILCEYADCKESYFSKKDWYDFVENPDIINIYKKLGP  4587

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
                +ALL TV F D +   G+VGVLTLDNQDL G WYDFGDFIQT PG GV V DSYYS 
Sbjct  4588  IFNRALLNTVIFADTLVEVGLVGVLTLDNQDLYGQWYDFGDFIQTAPGFGVAVADSYYSY  4647

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             +MP+LT+   L  E  V+      Y ++DL++YDFT+ +L+LF++YFKYW   YHPN V+
Sbjct  4648  MMPMLTMCHVLDCELFVN----DSYRQFDLVQYDFTDYKLELFNKYFKYWGMKYHPNTVD  4703

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             C +DRCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+
Sbjct  4704  CDNDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNLDVD  4763

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
              H  RLS K+LL+YAADPAMH AS + LLD RT CFSVAA+T+ + FQTVKPGNFN+DFY
Sbjct  4764  THRYRLSLKDLLLYAADPAMHVASASALLDLRTCCFSVAAITSGIKFQTVKPGNFNQDFY  4823

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             +F  SKG FKEGS+V+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF
Sbjct  4824  EFVKSKGLFKEGSTVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYF  4883

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             + YDGGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+Q+ ++AYTKRNV+PT+T
Sbjct  4884  EIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQNEIYAYTKRNVLPTLT  4943

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +
Sbjct  4944  QMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDD  5003

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             ML+ +  DV+NP LMGWDYPKCDRAMPN+LRI++SLVLARKH  CCS   RFYRLANECA
Sbjct  5004  MLRHLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEFCCSHGDRFYRLANECA  5063

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSE+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAVTANV +L++ +G+KI D  +
Sbjct  5064  QVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVTANVCSLMACNGHKIEDLSI  5123

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             RNLQ RLY  +YR   VD  FVNE+Y +L KHFSMMILSDD VVC+NS YA++G +A+I 
Sbjct  5124  RNLQKRLYSNVYRTDYVDYTFVNEYYEFLCKHFSMMILSDDGVVCYNSDYANKGYIANIS  5183

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
              F+ VLYYQNNVFMSE+KCW E D+T GPHEFCSQHTMLVK   DYVYLPYPDPSRILGA
Sbjct  5184  AFQQVLYYQNNVFMSESKCWVENDITNGPHEFCSQHTMLVKIDGDYVYLPYPDPSRILGA  5243

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDD++KTD  L+IERFVSLAIDAYPL  H N+EY  VF +YL+YI+KL+++L   +L
Sbjct  5244  GCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNDLGTQIL  5303

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             D YSV+L+  +  ++ E  FY+ MY    V+Q
Sbjct  5304  DSYSVILSTCDGLKFTEESFYKNMYLKSAVMQ  5335


>sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavirus 
HKU1 (isolate N1) OX=443239 GN=rep PE=3 SV=1
Length=7182

 Score = 1455 bits (3766),  Expect = 0.0, Method: Composition-based stats.
 Identities = 623/932 (67%), Positives = 736/932 (79%), Gaps = 5/932 (1%)

Query  2     ADAQSFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             +   +FLNRV G S  ARL PC +G STDV  RAFDI N   AG   + K NCCRFQ  D
Sbjct  4458  SKDLNFLNRVRGTSVNARLVPCASGLSTDVQLRAFDICNTNRAGIGLYYKVNCCRFQRID  4517

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             +D N +D +FVVKR     Y  E+T Y L K C  VA+HDFF F IDG  VPHI R+ L+
Sbjct  4518  DDGNKLDKFFVVKRTNLEVYNKEKTYYELTKSCGVVAEHDFFTFDIDGSRVPHIVRRNLS  4577

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTM DL YALRHFD  +C  L EIL  Y  C + YF+KKDWYDFVENPDI+ +Y  LG 
Sbjct  4578  KYTMLDLCYALRHFDRNDCSILCEILCEYADCKESYFSKKDWYDFVENPDIINIYKKLGP  4637

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
                +ALL TV F D +   G+VGVLTLDNQDL G WYDFGDFIQT PG GV V DSYYS 
Sbjct  4638  IFNRALLNTVIFADTLVEVGLVGVLTLDNQDLYGQWYDFGDFIQTAPGFGVAVADSYYSY  4697

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             +MP+LT+   L  E  V+      Y ++DL++YDFT+ +L+LF++YFKYW   YHPN V+
Sbjct  4698  MMPMLTMCHVLDCELFVN----DSYRQFDLVQYDFTDYKLELFNKYFKYWGMKYHPNTVD  4753

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             C +DRCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+
Sbjct  4754  CDNDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNLDVD  4813

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
              H  RLS K+LL+YAADPAMH AS + LLD RT CFSVAA+T+ + FQTVKPGNFN+DFY
Sbjct  4814  THRYRLSLKDLLLYAADPAMHVASASALLDLRTCCFSVAAITSGIKFQTVKPGNFNQDFY  4873

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             +F  SKG FKEGS+V+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF
Sbjct  4874  EFVKSKGLFKEGSTVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYF  4933

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             + YDGGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+Q+ ++AYTKRNV+PT+T
Sbjct  4934  EIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQNEIYAYTKRNVLPTLT  4993

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +
Sbjct  4994  QMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDD  5053

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             ML+ +  DV+NP LMGWDYPKCDRAMPN+LRI++SLVLARKH  CCS   RFYRLANECA
Sbjct  5054  MLRHLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEFCCSHGDRFYRLANECA  5113

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSE+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAVTANV +L++ +G+KI D  +
Sbjct  5114  QVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVTANVCSLMACNGHKIEDLSI  5173

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             RNLQ RLY  +YR   VD  FVNE+Y +L KHFSMMILSDD VVC+NS YAS+G +A+I 
Sbjct  5174  RNLQKRLYSNVYRTDYVDYTFVNEYYEFLCKHFSMMILSDDGVVCYNSDYASKGYIANIS  5233

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
              F+ VLYYQNNVFMSE+KCW E D+T GPHEFCSQHTMLVK   DYVYLPYPDPSRILGA
Sbjct  5234  VFQQVLYYQNNVFMSESKCWVENDITNGPHEFCSQHTMLVKIDGDYVYLPYPDPSRILGA  5293

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDD++KTD  L+IERFVSLAIDAYPL  H N+EY  VF +YL+YI+KL+++L   +L
Sbjct  5294  GCFVDDLLKTDSVLLIERFVSLAIDAYPLVHHENEEYQKVFRVYLEYIKKLYNDLGTQIL  5353

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             D YSV+L+  +  ++ E  FY+ MY    V+Q
Sbjct  5354  DSYSVILSTCDGLKFTEESFYKNMYLKSAVMQ  5385


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

 Score = 1453 bits (3762),  Expect = 0.0, Method: Composition-based stats.
 Identities = 612/932 (66%), Positives = 731/932 (78%), Gaps = 5/932 (1%)

Query  2     ADAQSFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             +   +FLNRV G S  ARL PC +G STDV  RAFDI N  VAG    LK NCCRFQ  D
Sbjct  4370  SKDTNFLNRVRGTSVDARLVPCASGLSTDVQLRAFDICNASVAGIGLHLKVNCCRFQRVD  4429

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             E+ + +D +FVVKR   + Y  E   Y  +KDC  VA+HDFF F ++G  VPHI R+ LT
Sbjct  4430  ENGDKLDQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKDLT  4489

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTM DL YALRHFD  +C  L +IL  Y  C+  YF KKDWYDFVENPDI+ VY  LG 
Sbjct  4490  KYTMLDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKLGP  4549

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
                +AL+   +F D +   G+VG+LTLDNQDLNG WYDFGD++   PG GV + DSYYS 
Sbjct  4550  IFNRALVSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYYSY  4609

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             +MP+LT+  AL  E +V+      Y  +DL++YDFT+ +L+LF++YFK+W   YHPN V+
Sbjct  4610  MMPMLTMCHALDCELYVN----NAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNTVD  4665

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             C DDRCI+ CANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELG+V N DV+
Sbjct  4666  CQDDRCIIRCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMDVD  4725

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
              H  RLS K+LL+YAADPA+H AS + L D RT CFSVAA+T+ V FQTVKPGNFN+DFY
Sbjct  4726  THRYRLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQDFY  4785

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             DF +SKG  KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF
Sbjct  4786  DFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYF  4845

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             + YDGGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+T
Sbjct  4846  EIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLT  4905

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +
Sbjct  4906  QMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDD  4965

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             ML+ +  DV+NP LMGWDYPKCDRAMPN+LRI++SLVLARKH  CCS S RFYRLANE A
Sbjct  4966  MLRRLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACCSQSDRFYRLANEYA  5025

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSE+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAV+ANV AL+S +GNKI D  +
Sbjct  5026  QVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDLSI  5085

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             R LQ RLY  +YR+  VD+ FV E+Y +L KHFSMMILSDD VVC+NS YAS+G +A+I 
Sbjct  5086  RALQKRLYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIANIS  5145

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
              F+ VLYYQNNVFMSE+KCW E D+  GPHEFCSQHTMLVK   D VYLPYPDPSRILGA
Sbjct  5146  AFQQVLYYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDDVYLPYPDPSRILGA  5205

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDD++KTD  L+IERFVSLAIDAYPL  H N+EY  VF +YL+YI+KL++EL   +L
Sbjct  5206  GCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNELGNQIL  5265

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             D YSV+L+  +  ++ +  FY+ MY    V+Q
Sbjct  5266  DSYSVILSTCDGQKFTDESFYKNMYLRSAVMQ  5297


>sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavirus 
HKU1 (isolate N2) OX=443240 GN=rep PE=3 SV=1
Length=7152

 Score = 1453 bits (3761),  Expect = 0.0, Method: Composition-based stats.
 Identities = 622/932 (67%), Positives = 736/932 (79%), Gaps = 5/932 (1%)

Query  2     ADAQSFLNRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKD  60
             +   +FLNRV G S  ARL PC +G STDV  RAFDI N   AG   + K NCCRFQ  D
Sbjct  4428  SKDLNFLNRVRGTSVNARLVPCASGLSTDVQLRAFDICNTNRAGIGLYYKVNCCRFQRID  4487

Query  61    EDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLT  120
             +D N +D +FVVKR     Y  E+T Y L K C  VA+HDFF F IDG  VPHI R+ L+
Sbjct  4488  DDGNKLDKFFVVKRTNLEVYNKEKTYYELTKSCGVVAEHDFFTFDIDGSRVPHIVRKNLS  4547

Query  121   KYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGE  180
             KYTM DL YALRHFD  +C  L EIL  Y  C + YF+KKDWYDFVENPDI+ +Y  LG 
Sbjct  4548  KYTMLDLCYALRHFDCNDCSVLCEILCEYADCKESYFSKKDWYDFVENPDIINIYKKLGP  4607

Query  181   RVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSL  240
                +ALL TV F D +   G+VGVLTLDNQDL G WYDFGDFIQT PG GV V DSYYS 
Sbjct  4608  IFNRALLNTVSFADTLVKVGLVGVLTLDNQDLYGQWYDFGDFIQTAPGFGVAVADSYYSY  4667

Query  241   LMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVN  300
             +MP+LT+   L  E  V+      Y ++DL++YDFT+ +L+LF++YFKYW   YHPN V+
Sbjct  4668  MMPMLTMCHVLDCELFVN----DSYRQFDLVQYDFTDYKLELFNKYFKYWGMKYHPNTVD  4723

Query  301   CLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVN  360
             C +DRCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+
Sbjct  4724  CDNDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNLDVD  4783

Query  361   LHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFY  420
              H  RLS K+LL+YAADPAMH AS + LLD RT CFSVAA+T+ + FQTVKPGNFN+DFY
Sbjct  4784  THRYRLSLKDLLLYAADPAMHVASASALLDLRTCCFSVAAITSGIKFQTVKPGNFNQDFY  4843

Query  421   DFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF  480
             +F  SKG FKEGS+V+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF
Sbjct  4844  EFVKSKGLFKEGSTVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYF  4903

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTIT  540
             + YDGGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+Q+ ++AYTKRNV+PT+T
Sbjct  4904  EIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQNEIYAYTKRNVLPTLT  4963

Query  541   QMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
             QMNLKYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG  VVIGT+KFYGGW +
Sbjct  4964  QMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDD  5023

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             ML+ +  DV+NP LMGWDYPKCDRAMPN+LRI++SLVLARKH  CCS   RFYRLANECA
Sbjct  5024  MLRHLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEFCCSHGDRFYRLANECA  5083

Query  661   QVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
             QVLSE+VMCGG  YVKPGGTSSGDATTA+ANSVFNICQAVTANV +L++ +G+KI D  +
Sbjct  5084  QVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVTANVCSLMACNGHKIEDLSI  5143

Query  721   RNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
             RNLQ RLY  +YR   VD  FVNE+Y +L KHFSMMILSDD VVC+NS YAS+G +A+I 
Sbjct  5144  RNLQKRLYSNVYRTDYVDYTFVNEYYEFLCKHFSMMILSDDGVVCYNSDYASKGYIANIS  5203

Query  781   NFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGA  840
              F+ VLYYQNNVFMSE+KCW E D+T GPHEFCSQHTMLVK   DYVYLPYPDPSRILGA
Sbjct  5204  VFQQVLYYQNNVFMSESKCWVENDITNGPHEFCSQHTMLVKIDGDYVYLPYPDPSRILGA  5263

Query  841   GCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHML  900
             GCFVDD++KTD  L+IERFVSLAIDAYPL  H N+EY  VF +YL+YI+KL+++L   +L
Sbjct  5264  GCFVDDLLKTDSVLLIERFVSLAIDAYPLVHHENEEYQKVFRVYLEYIKKLYNDLGNQIL  5323

Query  901   DMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             D YSV+L+  +  ++ +  FY+ MY    V+Q
Sbjct  5324  DSYSVILSTCDGLKFTDESFYKNMYLKSAVMQ  5355


>sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavirus 
229E OX=11137 GN=rep PE=1 SV=1
Length=6758

 Score = 1444 bits (3738),  Expect = 0.0, Method: Composition-based stats.
 Identities = 546/930 (59%), Positives = 696/930 (75%), Gaps = 6/930 (1%)

Query  4     AQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDD  63
               S+LNRV G SAARL PC  GT  D   RAFD+YN   +   K LK+NC RF+  D+D 
Sbjct  4071  DNSYLNRVRGSSAARLEPC-NGTDIDYCVRAFDVYNKDASFIGKNLKSNCVRFKNVDKD-  4128

Query  64    NLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYT  123
                D++++VKR   S   HE+++YNLLK C AVAKHDFF +     +  ++SRQ LTKYT
Sbjct  4129  ---DAFYIVKRCIKSVMDHEQSMYNLLKGCNAVAKHDFFTWHEGRTIYGNVSRQDLTKYT  4185

Query  124   MADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVR  183
             M DL +ALR+FDE +C+  KEILV   CC  DYF  K+W+D +EN DI RVYA LG+ V 
Sbjct  4186  MMDLCFALRNFDEKDCEVFKEILVLTGCCSTDYFEMKNWFDPIENEDIHRVYAALGKVVA  4245

Query  184   QALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMP  243
              A+LK V FCD M   G+VGVLTLDNQDLNGN+YDFGDF+   PG G+P   SYYS +MP
Sbjct  4246  NAMLKCVAFCDEMVLKGVVGVLTLDNQDLNGNFYDFGDFVLCPPGMGIPYCTSYYSYMMP  4305

Query  244   ILTLTRALTAESHVDTD-LTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCL  302
             ++ +T  L +E  + +D   + +  +DLLKYDFTE +  LF++YFKYW Q YHP+CV+C 
Sbjct  4306  VMGMTNCLASECFMKSDIFGQDFKTFDLLKYDFTEHKEVLFNKYFKYWGQDYHPDCVDCH  4365

Query  303   DDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLH  362
             D+ CILHC+NFN LF+T  P T+FGPL RK+F+DGVP V + GYHF++LG+V N+DVN H
Sbjct  4366  DEMCILHCSNFNTLFATTIPNTAFGPLCRKVFIDGVPVVATAGYHFKQLGLVWNKDVNTH  4425

Query  363   SSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDF  422
             S+RL+  ELL +  DP +  AS   L+DKRT CFSVAAL+  +  QTVKPG+FNK+FYDF
Sbjct  4426  STRLTITELLQFVTDPTLIVASSPALVDKRTVCFSVAALSTGLTSQTVKPGHFNKEFYDF  4485

Query  423   AVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDC  482
               S+GFF EGS + LKHFFF Q G+AAI D+DYYRYN PTM DI Q     +V  +YFDC
Sbjct  4486  LRSQGFFDEGSELTLKHFFFTQKGDAAIKDFDYYRYNRPTMLDIGQARVAYQVAARYFDC  4545

Query  483   YDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQM  542
             Y+GGCI + +V+V NL+KSAG+P NK+GKA LYY+S+SYE+QDA+F+ TKRN++PT+TQ+
Sbjct  4546  YEGGCITSREVVVTNLNKSAGWPLNKFGKAGLYYESISYEEQDAIFSLTKRNILPTMTQL  4605

Query  543   NLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNML  602
             NLKYAIS K RARTV GVS+ +TMT RQFHQK LKSI ATR ATVVIGT+KFYGGW NML
Sbjct  4606  NLKYAISGKERARTVGGVSLLATMTTRQFHQKCLKSIVATRNATVVIGTTKFYGGWDNML  4665

Query  603   KTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQV  662
             K + +DV++P LMGWDYPKCDRAMP+M+R++++++L  KH TCC+ S +FYRL+NE AQV
Sbjct  4666  KNLMADVDDPKLMGWDYPKCDRAMPSMIRMLSAMILGSKHVTCCTASDKFYRLSNELAQV  4725

Query  663   LSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRN  722
             L+E+V   G  Y KPGGT+SGDATTAYANSVFNI QAV++N+N +LS + +   +  V+ 
Sbjct  4726  LTEVVYSNGGFYFKPGGTTSGDATTAYANSVFNIFQAVSSNINCVLSVNSSNCNNFNVKK  4785

Query  723   LQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNF  782
             LQ +LY+  YRN +VD  FV++FY YL+KHFSMMILSDD+VVC+N TYA  G +A I  F
Sbjct  4786  LQRQLYDNCYRNSNVDESFVDDFYGYLQKHFSMMILSDDSVVCYNKTYAGLGYIADISAF  4845

Query  783   KSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGC  842
             K+ LYYQN VFMS AKCWTE DL+ GPHEFCSQHTM +   +   YLPYPDPSRI+ AG 
Sbjct  4846  KATLYYQNGVFMSTAKCWTEEDLSIGPHEFCSQHTMQIVDENGKYYLPYPDPSRIISAGV  4905

Query  843   FVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDM  902
             FVDDI KTD  +++ER+VSLAIDAYPL+KHP  EY  VF+  L +++ L+  L   +L+ 
Sbjct  4906  FVDDITKTDAVILLERYVSLAIDAYPLSKHPKPEYRKVFYALLDWVKHLNKTLNEGVLES  4965

Query  903   YSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             +SV L +++ S++W+  FY +MY   TVLQ
Sbjct  4966  FSVTLLDEHESKFWDESFYASMYEKSTVLQ  4995


>sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavirus 
NL63 OX=277944 GN=rep PE=1 SV=1
Length=6729

 Score = 1424 bits (3687),  Expect = 0.0, Method: Composition-based stats.
 Identities = 546/930 (59%), Positives = 690/930 (74%), Gaps = 6/930 (1%)

Query  4     AQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDD  63
               S+LNR  G SAARL PC  GT  D   RAFDIYN  V+   K LK NC RF+  D   
Sbjct  4046  DISYLNRARGSSAARLEPC-NGTDIDKCVRAFDIYNKNVSFLGKCLKMNCVRFKNAD---  4101

Query  64    NLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYT  123
              L D YFV+KR T S  +HE+++YNLL    A+A+HDFF ++    +  ++SR  LTKYT
Sbjct  4102  -LKDGYFVIKRCTKSVMEHEQSMYNLLNFSGALAEHDFFTWKDGRVIYGNVSRHNLTKYT  4160

Query  124   MADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVR  183
             M DLVYA+R+FDE NCD LKE+LV   CCD+ YF+ K WYD VEN DI RVYA+LG+ V 
Sbjct  4161  MMDLVYAMRNFDEQNCDVLKEVLVLTGCCDNSYFDSKGWYDPVENEDIHRVYASLGKIVA  4220

Query  184   QALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMP  243
             +A+LK V  CDAM   G+VGVLTLDNQDLNGN+YDFGDF+ + P  GVP   SYYS +MP
Sbjct  4221  RAMLKCVALCDAMVAKGVVGVLTLDNQDLNGNFYDFGDFVVSLPNMGVPCCTSYYSYMMP  4280

Query  244   ILTLTRALTAESHVDTD-LTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCL  302
             I+ LT  L +E  V +D     +  +DLLKYDFTE +  LF++YFK+W   YHPNC +C 
Sbjct  4281  IMGLTNCLASECFVKSDIFGSDFKTFDLLKYDFTEHKENLFNKYFKHWSFDYHPNCSDCY  4340

Query  303   DDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLH  362
             DD C++HCANFN LF+T  P T+FGPL RK+F+DGVP V + GYHF++LG+V N+DVN H
Sbjct  4341  DDMCVIHCANFNTLFATTIPGTAFGPLCRKVFIDGVPLVTTAGYHFKQLGLVWNKDVNTH  4400

Query  363   SSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDF  422
             S RL+  ELL +  DP++  AS   L+D+RT CFSVAAL+  +  Q VKPG+FN++FY+F
Sbjct  4401  SVRLTITELLQFVTDPSLIIASSPALVDQRTICFSVAALSTGLTNQVVKPGHFNEEFYNF  4460

Query  423   AVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDC  482
                +GFF EGS + LKHFFFAQ+G+AA+ D+D+YRYN PT+ DI Q     ++V +YFD 
Sbjct  4461  LRLRGFFDEGSELTLKHFFFAQNGDAAVKDFDFYRYNKPTILDICQARVTYKIVSRYFDI  4520

Query  483   YDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQM  542
             Y+GGCI A +V+V NL+KSAG+P NK+GKA LYY+S+SYE+QDALFA TKRNV+PT+TQ+
Sbjct  4521  YEGGCIKACEVVVTNLNKSAGWPLNKFGKASLYYESISYEEQDALFALTKRNVLPTMTQL  4580

Query  543   NLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNML  602
             NLKYAIS K RARTV GVS+ STMT RQ+HQK LKSI  TR ATVVIGT+KFYGGW+NML
Sbjct  4581  NLKYAISGKERARTVGGVSLLSTMTTRQYHQKHLKSIVNTRNATVVIGTTKFYGGWNNML  4640

Query  603   KTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQV  662
             +T+   VENP LMGWDYPKCDRA+PNM+R+++++VL  KH  CC+ + RFYRL NE AQV
Sbjct  4641  RTLIDGVENPMLMGWDYPKCDRALPNMIRMISAMVLGSKHVNCCTATDRFYRLGNELAQV  4700

Query  663   LSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRN  722
             L+E+V   G  Y KPGGT+SGDA+TAYANS+FNI QAV++N+N LLS   +   +  VR+
Sbjct  4701  LTEVVYSNGGFYFKPGGTTSGDASTAYANSIFNIFQAVSSNINRLLSVPSDSCNNVNVRD  4760

Query  723   LQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNF  782
             LQ RLY+  YR   V+  F++++Y YLRKHFSMMILSDD VVC+N  YA  G +A I  F
Sbjct  4761  LQRRLYDNCYRLTSVEESFIDDYYGYLRKHFSMMILSDDGVVCYNKDYAELGYIADISAF  4820

Query  783   KSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGC  842
             K+ LYYQNNVFMS +KCW E DLTKGPHEFCSQHTM +   D   YLPYPDPSRIL AG 
Sbjct  4821  KATLYYQNNVFMSTSKCWVEEDLTKGPHEFCSQHTMQIVDKDGTYYLPYPDPSRILSAGV  4880

Query  843   FVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDM  902
             FVDD+VKTD  +++ER+VSLAIDAYPL+KHPN EY  VF++ L +++ L+  L   +L+ 
Sbjct  4881  FVDDVVKTDAVVLLERYVSLAIDAYPLSKHPNSEYRKVFYVLLDWVKHLNKNLNEGVLES  4940

Query  903   YSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             +SV L ++   ++W  +FY +MY   T+LQ
Sbjct  4941  FSVTLLDNQEDKFWCEDFYASMYENSTILQ  4970


>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 = 1409 bits (3647),  Expect = 0.0, Method: Composition-based stats.
 Identities = 552/930 (59%), Positives = 689/930 (74%), Gaps = 6/930 (1%)

Query  4     AQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDD  63
              QS+LNRV G SAARL PC  GT  D V RAFDIYN  VA   KFLKTNC RF+  D+  
Sbjct  4003  DQSYLNRVRGSSAARLEPC-NGTDPDHVSRAFDIYNKDVACIGKFLKTNCSRFRNLDKH-  4060

Query  64    NLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYT  123
                D+Y++VKR T +   HE+  YN LKD  AVA+HDFF ++       +++R+ LTKYT
Sbjct  4061  ---DAYYIVKRCTKTVMDHEQVCYNDLKDSGAVAEHDFFTYKEGRCEFGNVARRNLTKYT  4117

Query  124   MADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVR  183
             M DL YA+R+FDE NC+ LKEILVT   C +++F  KDW+D VEN  I  VYA LG  V 
Sbjct  4118  MMDLCYAIRNFDEKNCEVLKEILVTVGACTEEFFENKDWFDPVENEAIHEVYAKLGPIVA  4177

Query  184   QALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMP  243
              A+LK V FCDA+   G +GV+TLDNQDLNGN+YDFGDF++T PG G   V SYYS +MP
Sbjct  4178  NAMLKCVAFCDAIVEKGYIGVITLDNQDLNGNFYDFGDFVKTAPGFGCACVTSYYSYMMP  4237

Query  244   ILTLTRALTAESHVDTDL-TKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCL  302
             ++ +T  L +E+ V +D+    Y ++DLL YDFTE +  LF +YFKYWD+TYHPNC +C 
Sbjct  4238  LMGMTSCLESENFVKSDIYGSDYKQYDLLAYDFTEHKEYLFQKYFKYWDRTYHPNCSDCT  4297

Query  303   DDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLH  362
              D CI+HCANFN LFS   P T+FGPLVRK+ +DGVP VV+ GYHF++LG+V N DV L 
Sbjct  4298  SDECIIHCANFNTLFSMTIPMTAFGPLVRKVHIDGVPVVVTAGYHFKQLGIVWNLDVKLD  4357

Query  363   SSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDF  422
             + +LS  +LL +  DP +  AS   LLD+RT CFS+AAL+  + +QTVKPG+FNKDFYDF
Sbjct  4358  TMKLSMTDLLRFVTDPTLLVASSPALLDQRTVCFSIAALSTGITYQTVKPGHFNKDFYDF  4417

Query  423   AVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDC  482
                +GFF+EGS + LKHFFFAQ G AA++D++YYRYN  T+ DI Q  FV ++V KYF+C
Sbjct  4418  ITERGFFEEGSELTLKHFFFAQGGEAAMTDFNYYRYNRVTVLDICQAQFVYKIVGKYFEC  4477

Query  483   YDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQM  542
             YDGGCINA +V+V N DKSAG+P NK+GKARLYY+++SYE+QDALFA TKRNV+PT+TQM
Sbjct  4478  YDGGCINAREVVVTNYDKSAGYPLNKFGKARLYYETLSYEEQDALFALTKRNVLPTMTQM  4537

Query  543   NLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNML  602
             NLKYAIS K RARTV GVS+ STMT RQ+HQK LKSIAATR ATVVIG++KFYGGW NML
Sbjct  4538  NLKYAISGKARARTVGGVSLLSTMTTRQYHQKHLKSIAATRNATVVIGSTKFYGGWDNML  4597

Query  603   KTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQV  662
             K +  DV+N  LMGWDYPKCDRA+PNM+R+ ++++L  KH  CC+ + RFYRL+NE AQV
Sbjct  4598  KNLMRDVDNGCLMGWDYPKCDRALPNMIRMASAMILGSKHVGCCTHNDRFYRLSNELAQV  4657

Query  663   LSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRN  722
             L+E+V C G  Y KPGGT+SGD TTAYANS FNI QAV+ANVN LL  D N   +  V++
Sbjct  4658  LTEVVHCTGGFYFKPGGTTSGDGTTAYANSAFNIFQAVSANVNKLLGVDSNACNNVTVKS  4717

Query  723   LQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNF  782
             +Q ++Y+  YR+  +D +FV E+++YLRKHFSMMILSDD VVC+N  YA  G VA I  F
Sbjct  4718  IQRKIYDNCYRSSSIDEEFVVEYFSYLRKHFSMMILSDDGVVCYNKDYADLGYVADINAF  4777

Query  783   KSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGC  842
             K+ LYYQNNVFMS +KCW E DL+ GPHEFCSQHT+ +   D   YLPYPDPSRIL AG 
Sbjct  4778  KATLYYQNNVFMSTSKCWVEPDLSVGPHEFCSQHTLQIVGPDGDYYLPYPDPSRILSAGV  4837

Query  843   FVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDM  902
             FVDDIVKTD  +M+ER+VSLAIDAYPLTKHP   Y  VF+  L +++ L   L   +LD 
Sbjct  4838  FVDDIVKTDNVIMLERYVSLAIDAYPLTKHPKPAYQKVFYTLLDWVKHLQKNLNAGVLDS  4897

Query  903   YSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             +SV +  +   ++W  EFY ++Y   TVLQ
Sbjct  4898  FSVTMLEEGQDKFWSEEFYASLYEKSTVLQ  4927


>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 = 1381 bits (3575),  Expect = 0.0, Method: Composition-based stats.
 Identities = 547/930 (59%), Positives = 684/930 (74%), Gaps = 6/930 (1%)

Query  4     AQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQEKDEDD  63
              QS+LN    +    L PC  GT  D V RAFDIYN  VA   KFLKTNC RF+  D+  
Sbjct  4028  DQSYLNECGVLVQLDLEPC-NGTDPDHVSRAFDIYNKDVACIGKFLKTNCSRFRNLDKH-  4085

Query  64    NLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRLTKYT  123
                D+Y+VVKR T S   HE+  YN LKD   VA+HDFF ++       +++R+ LTKYT
Sbjct  4086  ---DAYYVVKRCTKSVMDHEQVCYNDLKDSGVVAEHDFFLYKEGRCEFGNVARKDLTKYT  4142

Query  124   MADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVR  183
             M DL YA+R+FDE NC+ LKEILVT   C++ +F  KDW+D VEN  I  VYA LG  V 
Sbjct  4143  MMDLCYAIRNFDEKNCEVLKEILVTLGACNESFFENKDWFDPVENEAIHEVYARLGPIVA  4202

Query  184   QALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMP  243
              A+LK V FCDA+   G +G++TLDNQDLNGN+YDFGDF++TTPG G   V SYYS +MP
Sbjct  4203  NAMLKCVAFCDAIVEKGYIGIITLDNQDLNGNFYDFGDFVKTTPGFGCACVTSYYSYMMP  4262

Query  244   ILTLTRALTAESHVDTDL-TKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCL  302
             ++ +T  L +E+ V +D+    Y ++DLL YDFT+ + KLF +YFK+WD+TYHPNC +C 
Sbjct  4263  LMGMTSCLESENFVKSDIYGADYKQYDLLAYDFTDHKEKLFHKYFKHWDRTYHPNCSDCT  4322

Query  303   DDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLH  362
              D CI+HCANFN LFS   P T+FGPLVRK+ +DGVP VV+ GYHF++LG+V N DV L 
Sbjct  4323  SDECIIHCANFNTLFSMTIPSTAFGPLVRKVHIDGVPVVVTAGYHFKQLGIVWNLDVKLD  4382

Query  363   SSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDF  422
             + +LS  +LL +  DP +  AS   LLD+RT CFS+AAL+  V +QTVKPG+FNKDFYDF
Sbjct  4383  TMKLSMTDLLRFVTDPTLLVASSPALLDQRTVCFSIAALSTGVTYQTVKPGHFNKDFYDF  4442

Query  423   AVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDC  482
                +GFF+EGS + LKHFFFAQ G AA++D++YYRYN  T+ DI Q  FV ++V KYF+C
Sbjct  4443  ITERGFFEEGSELTLKHFFFAQGGEAAMTDFNYYRYNRVTVLDICQAQFVYKIVGKYFEC  4502

Query  483   YDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQM  542
             YDGGCINA +V+V N DKSAG+P NK+GKARLYY+++SYE+QDALFA TKRNV+PT+TQM
Sbjct  4503  YDGGCINAREVVVTNYDKSAGYPLNKFGKARLYYETLSYEEQDALFALTKRNVLPTMTQM  4562

Query  543   NLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNML  602
             NLKYAIS K RARTV GVS+ STMT RQ+HQK LKSIAATR ATVVIG++KFYGGW NML
Sbjct  4563  NLKYAISGKARARTVGGVSLLSTMTTRQYHQKHLKSIAATRNATVVIGSTKFYGGWDNML  4622

Query  603   KTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQV  662
             K +  DV+N  LMGWDYPKCDRA+PNM+R+ ++++L  KH  CC+ S RFYRL+NE AQV
Sbjct  4623  KNLMRDVDNGCLMGWDYPKCDRALPNMIRMASAMILGSKHVGCCTHSDRFYRLSNELAQV  4682

Query  663   LSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRN  722
             L+E+V C G  Y KPGGT+SGD TTAYANS FNI QAV+ANVN LL  D N   +  V++
Sbjct  4683  LTEVVHCTGGFYFKPGGTTSGDGTTAYANSAFNIFQAVSANVNKLLGVDSNACNNVTVKS  4742

Query  723   LQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNF  782
             +Q ++Y+  YR+  +D +FV E+++YLRKHFSMMILSDD VVC+N  YA  G VA I  F
Sbjct  4743  IQRKIYDNCYRSSSIDEEFVVEYFSYLRKHFSMMILSDDGVVCYNKDYADLGYVADINAF  4802

Query  783   KSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGC  842
             K+ LYYQNNVFMS +KCW E DL+ GPHEFCSQHT+ +   D   YLPYPDPSRIL AG 
Sbjct  4803  KATLYYQNNVFMSTSKCWVEPDLSVGPHEFCSQHTLQIVGPDGDYYLPYPDPSRILSAGV  4862

Query  843   FVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDM  902
             FVDDIVKTD  +M+ER+VSLAIDAYPLTKHP   Y  VF+  L +++ L   L   +LD 
Sbjct  4863  FVDDIVKTDNVIMLERYVSLAIDAYPLTKHPKPAYQKVFYTLLDWVKHLQKNLNAGVLDS  4922

Query  903   YSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             +SV +  +   ++W  EFY ++Y   TVLQ
Sbjct  4923  FSVTMLEEGQDKFWSEEFYASLYEKSTVLQ  4952


>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 = 1377 bits (3563),  Expect = 0.0, Method: Composition-based stats.
 Identities = 579/937 (62%), Positives = 705/937 (75%), Gaps = 13/937 (1%)

Query  4     AQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQE----K  59
              +++LNRV G S ARL P  +G   DVV RAFD+ N + AG  + LK NC RFQE    +
Sbjct  3937  DKNYLNRVRGSSEARLIPLASGCDPDVVKRAFDVCNKESAGMFQNLKRNCARFQELRDTE  3996

Query  60    DEDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRL  119
             D +   +DSYFVVK+ T SNY+HE++ Y  LK     A HDFF F  +   + +ISRQRL
Sbjct  3997  DGNLEYLDSYFVVKQTTPSNYEHEKSCYEDLKS-EVTADHDFFVFNKN---IYNISRQRL  4052

Query  120   TKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDD---DYFN-KKDWYDFVENPDILRVY  175
             TKYTM D  YALRHFD  +C+ LKEILVTY C +D    +F   KDWYD +EN     + 
Sbjct  4053  TKYTMMDFCYALRHFDPKDCEVLKEILVTYGCIEDYHPKWFEENKDWYDPIENSKYYVML  4112

Query  176   ANLGERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVD  235
             A +G  VR+ALL  ++F + M   G VGV+TLDNQDLNG +YDFGDF +T PG+GVPV D
Sbjct  4113  AKMGPIVRRALLNAIEFGNLMVEKGYVGVITLDNQDLNGKFYDFGDFQKTAPGAGVPVFD  4172

Query  236   SYYSLLMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYH  295
             +YYS +MPI+ +T AL  E + + D+ K Y  +DLLKYD+TEE+ +LF +YFKYWDQ YH
Sbjct  4173  TYYSYMMPIIAMTDALAPERYFEYDVHKGYKSYDLLKYDYTEEKQELFQKYFKYWDQEYH  4232

Query  296   PNCVNCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVH  355
             PNC +C DDRC++HCANFN+LFST+ P TSFG L RK+FVDGVPF+ + GYH +ELGV+ 
Sbjct  4233  PNCRDCSDDRCLIHCANFNILFSTLIPQTSFGNLCRKVFVDGVPFIATCGYHSKELGVIM  4292

Query  356   NQDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNF  415
             NQD  +  S++   +L+ +  DPA+   + N L+D RT+CFSV ALT+ +  QTVKPG+F
Sbjct  4293  NQDNTMSFSKMGLSQLMQFVGDPALLVGTSNNLVDLRTSCFSVCALTSGITHQTVKPGHF  4352

Query  416   NKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEV  475
             NKDFYDFA   G FKEGSS+ LKHFF+ Q GNAAI+DYDYYRYN PTM DI QLLF +EV
Sbjct  4353  NKDFYDFAEKAGMFKEGSSIPLKHFFYPQTGNAAINDYDYYRYNRPTMFDICQLLFCLEV  4412

Query  476   VDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNV  535
               KYF+CY+GGCI A+QV+VNNLDKSAG+PFNK+GKARLYY+ MS E+QD LF  TK+NV
Sbjct  4413  TSKYFECYEGGCIPASQVVVNNLDKSAGYPFNKFGKARLYYE-MSLEEQDQLFEITKKNV  4471

Query  536   IPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFY  595
             +PTITQMNLKYAISAKNRARTVAGVSI STMTNRQFHQK+LKSI  TR A+VVIGT+KFY
Sbjct  4472  LPTITQMNLKYAISAKNRARTVAGVSILSTMTNRQFHQKILKSIVNTRNASVVIGTTKFY  4531

Query  596   GGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRL  655
             GGW NML+ +   VE+P LMGWDYPKCDRAMPN+LRI ASLVLARKHT CCS S R YRL
Sbjct  4532  GGWDNMLRNLIQGVEDPILMGWDYPKCDRAMPNLLRIAASLVLARKHTNCCSWSERIYRL  4591

Query  656   ANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKI  715
              NECAQVLSE V+  G +YVKPGGTSSGDATTAYANSVFNI QA +ANV  LLS     I
Sbjct  4592  YNECAQVLSETVLATGGIYVKPGGTSSGDATTAYANSVFNIIQATSANVARLLSVITRDI  4651

Query  716   ADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGL  775
                 +++LQ+ LY+ +YR  + D  FV +FY+YL K+FS+MILSDD VVC+N+T A QGL
Sbjct  4652  VYDNIKSLQYELYQQVYRRVNFDPAFVEKFYSYLCKNFSLMILSDDGVVCYNNTLAKQGL  4711

Query  776   VASIKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPS  835
             VA I  F+ VLYYQNNVFM+++KCW E DL KGPHEFCSQHTMLV+   +  YLPYPDPS
Sbjct  4712  VADISGFREVLYYQNNVFMADSKCWVEPDLEKGPHEFCSQHTMLVEVDGEPKYLPYPDPS  4771

Query  836   RILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDEL  895
             RILGA  FVDD+ KT+   ++ER+++LAIDAYPL  H N+EY  VF + L YIRKL+ EL
Sbjct  4772  RILGACVFVDDVDKTEPVAVMERYIALAIDAYPLVHHENEEYKKVFFVLLAYIRKLYQEL  4831

Query  896   TGHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             + +ML  YS ++  D  S++WE EFYE MY   T LQ
Sbjct  4832  SQNMLMDYSFVMDIDKGSKFWEQEFYENMYRAPTTLQ  4868


>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 = 1377 bits (3563),  Expect = 0.0, Method: Composition-based stats.
 Identities = 579/937 (62%), Positives = 705/937 (75%), Gaps = 13/937 (1%)

Query  4     AQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQE----K  59
              +++LNRV G S ARL P  +G   DVV RAFD+ N + AG  + LK NC RFQE    +
Sbjct  3937  DKNYLNRVRGSSEARLIPLASGCDPDVVKRAFDVCNKESAGMFQNLKRNCARFQELRDTE  3996

Query  60    DEDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISRQRL  119
             D +   +DSYFVVK+ T SNY+HE++ Y  LK     A HDFF F  +   + +ISRQRL
Sbjct  3997  DGNLEYLDSYFVVKQTTPSNYEHEKSCYEDLKS-EVTADHDFFVFNKN---IYNISRQRL  4052

Query  120   TKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDD---DYFN-KKDWYDFVENPDILRVY  175
             TKYTM D  YALRHFD  +C+ LKEILVTY C +D    +F   KDWYD +EN     + 
Sbjct  4053  TKYTMMDFCYALRHFDPKDCEVLKEILVTYGCIEDYHPKWFEENKDWYDPIENSKYYVML  4112

Query  176   ANLGERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVD  235
             A +G  VR+ALL  ++F + M   G VGV+TLDNQDLNG +YDFGDF +T PG+GVPV D
Sbjct  4113  AKMGPIVRRALLNAIEFGNLMVEKGYVGVITLDNQDLNGKFYDFGDFQKTAPGAGVPVFD  4172

Query  236   SYYSLLMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYH  295
             +YYS +MPI+ +T AL  E + + D+ K Y  +DLLKYD+TEE+ +LF +YFKYWDQ YH
Sbjct  4173  TYYSYMMPIIAMTDALAPERYFEYDVHKGYKSYDLLKYDYTEEKQELFQKYFKYWDQEYH  4232

Query  296   PNCVNCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVH  355
             PNC +C DDRC++HCANFN+LFST+ P TSFG L RK+FVDGVPF+ + GYH +ELGV+ 
Sbjct  4233  PNCRDCSDDRCLIHCANFNILFSTLIPQTSFGNLCRKVFVDGVPFIATCGYHSKELGVIM  4292

Query  356   NQDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNF  415
             NQD  +  S++   +L+ +  DPA+   + N L+D RT+CFSV ALT+ +  QTVKPG+F
Sbjct  4293  NQDNTMSFSKMGLSQLMQFVGDPALLVGTSNNLVDLRTSCFSVCALTSGITHQTVKPGHF  4352

Query  416   NKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEV  475
             NKDFYDFA   G FKEGSS+ LKHFF+ Q GNAAI+DYDYYRYN PTM DI QLLF +EV
Sbjct  4353  NKDFYDFAEKAGMFKEGSSIPLKHFFYPQTGNAAINDYDYYRYNRPTMFDICQLLFCLEV  4412

Query  476   VDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNV  535
               KYF+CY+GGCI A+QV+VNNLDKSAG+PFNK+GKARLYY+ MS E+QD LF  TK+NV
Sbjct  4413  TSKYFECYEGGCIPASQVVVNNLDKSAGYPFNKFGKARLYYE-MSLEEQDQLFEITKKNV  4471

Query  536   IPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFY  595
             +PTITQMNLKYAISAKNRARTVAGVSI STMTNRQFHQK+LKSI  TR A+VVIGT+KFY
Sbjct  4472  LPTITQMNLKYAISAKNRARTVAGVSILSTMTNRQFHQKILKSIVNTRNASVVIGTTKFY  4531

Query  596   GGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRL  655
             GGW NML+ +   VE+P LMGWDYPKCDRAMPN+LRI ASLVLARKHT CCS S R YRL
Sbjct  4532  GGWDNMLRNLIQGVEDPILMGWDYPKCDRAMPNLLRIAASLVLARKHTNCCSWSERIYRL  4591

Query  656   ANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKI  715
              NECAQVLSE V+  G +YVKPGGTSSGDATTAYANSVFNI QA +ANV  LLS     I
Sbjct  4592  YNECAQVLSETVLATGGIYVKPGGTSSGDATTAYANSVFNIIQATSANVARLLSVITRDI  4651

Query  716   ADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGL  775
                 +++LQ+ LY+ +YR  + D  FV +FY+YL K+FS+MILSDD VVC+N+T A QGL
Sbjct  4652  VYDNIKSLQYELYQQVYRRVNFDPAFVEKFYSYLCKNFSLMILSDDGVVCYNNTLAKQGL  4711

Query  776   VASIKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPS  835
             VA I  F+ VLYYQNNVFM+++KCW E DL KGPHEFCSQHTMLV+   +  YLPYPDPS
Sbjct  4712  VADISGFREVLYYQNNVFMADSKCWVEPDLEKGPHEFCSQHTMLVEVDGEPKYLPYPDPS  4771

Query  836   RILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDEL  895
             RILGA  FVDD+ KT+   ++ER+++LAIDAYPL  H N+EY  VF + L YIRKL+ EL
Sbjct  4772  RILGACVFVDDVDKTEPVAVMERYIALAIDAYPLVHHENEEYKKVFFVLLAYIRKLYQEL  4831

Query  896   TGHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
             + +ML  YS ++  D  S++WE EFYE MY   T LQ
Sbjct  4832  SQNMLMDYSFVMDIDKGSKFWEQEFYENMYRAPTTLQ  4868


>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 = 1372 bits (3550),  Expect = 0.0, Method: Composition-based stats.
 Identities = 579/940 (62%), Positives = 701/940 (75%), Gaps = 13/940 (1%)

Query  1     SADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNCCRFQE--  58
             S   +++LNRV G S ARL P   G   DVV RAFD+ N + AG  + LK NC RFQE  
Sbjct  3936  SGFDKNYLNRVRGSSEARLIPLANGCDPDVVKRAFDVCNKESAGMFQNLKRNCARFQEVR  3995

Query  59    --KDEDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDGDMVPHISR  116
               +D +    DSYFVVK+ T SNY+HE+  Y  LK     A HDFF F  +   + +ISR
Sbjct  3996  DTEDGNLEYCDSYFVVKQTTPSNYEHEKACYEDLKS-EVTADHDFFVFNKN---IYNISR  4051

Query  117   QRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDD---DYFN-KKDWYDFVENPDIL  172
             QRLTKYTM D  YALRHFD  +C+ LKEILVTY C +D    +F   KDWYD +ENP   
Sbjct  4052  QRLTKYTMMDFCYALRHFDPKDCEVLKEILVTYGCIEDYHPKWFEENKDWYDPIENPKYY  4111

Query  173   RVYANLGERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPGSGVP  232
              + A +G  VR+ALL  ++F + M   G VGV+TLDNQDLNG +YDFGDF +T PG+GVP
Sbjct  4112  AMLAKMGPIVRRALLNAIEFGNLMVEKGYVGVITLDNQDLNGKFYDFGDFQKTAPGAGVP  4171

Query  233   VVDSYYSLLMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQ  292
             V D+YYS +MPI+ +T AL  E + + D+ K Y  +DLLKYD+TEE+  LF +YFKYWDQ
Sbjct  4172  VFDTYYSYMMPIIAMTDALAPERYFEYDVHKGYKSYDLLKYDYTEEKQDLFQKYFKYWDQ  4231

Query  293   TYHPNCVNCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELG  352
              YHPNC +C DDRC++HCANFN+LFST+ P TSFG L RK+FVDGVPF+ + GYH +ELG
Sbjct  4232  EYHPNCRDCSDDRCLIHCANFNILFSTLVPQTSFGNLCRKVFVDGVPFIATCGYHSKELG  4291

Query  353   VVHNQDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKP  412
             V+ NQD  +  S++   +L+ +  DPA+   + N L+D RT+CFSV AL + +  QTVKP
Sbjct  4292  VIMNQDNTMSFSKMGLSQLMQFVGDPALLVGTSNKLVDLRTSCFSVCALASGITHQTVKP  4351

Query  413   GNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFV  472
             G+FNKDFYDFA   G FKEGSS+ LKHFF+ Q GNAAI+DYDYYRYN PTM DIRQLLF 
Sbjct  4352  GHFNKDFYDFAEKAGMFKEGSSIPLKHFFYPQTGNAAINDYDYYRYNRPTMFDIRQLLFC  4411

Query  473   VEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTK  532
             +EV  KYF+CY+GGCI A+QV+VNNLDKSAG+PFNK+GKARLYY+ MS E+QD LF  TK
Sbjct  4412  LEVTSKYFECYEGGCIPASQVVVNNLDKSAGYPFNKFGKARLYYE-MSLEEQDQLFESTK  4470

Query  533   RNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTS  592
             +NV+PTITQMNLKYAISAKNRARTVAGVSI STMTNRQFHQK+LKSI  TR A VVIGT+
Sbjct  4471  KNVLPTITQMNLKYAISAKNRARTVAGVSILSTMTNRQFHQKILKSIVNTRNAPVVIGTT  4530

Query  593   KFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRF  652
             KFYGGW NML+ +   VE+P LMGWDYPKCDRAMPN+LRI ASLVLARKHT CC+ S R 
Sbjct  4531  KFYGGWDNMLRNLIQGVEDPILMGWDYPKCDRAMPNLLRIAASLVLARKHTNCCTWSERV  4590

Query  653   YRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDG  712
             YRL NECAQVLSE V+  G +YVKPGGTSSGDATTAYANSVFNI QA +ANV  LLS   
Sbjct  4591  YRLYNECAQVLSETVLATGGIYVKPGGTSSGDATTAYANSVFNIIQATSANVARLLSVIT  4650

Query  713   NKIADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYAS  772
               I    +++LQ+ LY+ +YR  + D  FV +FY+YL K+FS+MILSDD VVC+N+T A 
Sbjct  4651  RDIVYDDIKSLQYELYQQVYRRVNFDPAFVEKFYSYLCKNFSLMILSDDGVVCYNNTLAK  4710

Query  773   QGLVASIKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYP  832
             QGLVA I  F+ VLYYQNNVFM+++KCW E DL KGPHEFCSQHTMLV+   +  YLPYP
Sbjct  4711  QGLVADISGFREVLYYQNNVFMADSKCWVEPDLEKGPHEFCSQHTMLVEVDGEPRYLPYP  4770

Query  833   DPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLH  892
             DPSRIL A  FVDD+ KT+   ++ER+++LAIDAYPL  H N+EY  VF + L YIRKL+
Sbjct  4771  DPSRILCACVFVDDLDKTESVAVMERYIALAIDAYPLVHHENEEYKKVFFVLLSYIRKLY  4830

Query  893   DELTGHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
              EL+ +ML  YS ++  D  S++WE EFYE MY   T LQ
Sbjct  4831  QELSQNMLMDYSFVMDIDKGSKFWEQEFYENMYRAPTTLQ  4870


>sp|Q9WQ77|R1AB_CVRSD Replicase polyprotein 1ab (Fragment) OS=Rat 
coronavirus (strain 681) OX=33740 GN=rep PE=3 SV=1
Length=307

 Score = 475 bits (1222),  Expect = 2e-160, Method: Composition-based stats.
 Identities = 225/307 (73%), Positives = 266/307 (87%), Gaps = 0/307 (0%)

Query  506  FNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICST  565
            FNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNLKYAISAKNRARTVAGVSI ST
Sbjct  1    FNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNLKYAISAKNRARTVAGVSILST  60

Query  566  MTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRA  625
            MT R FHQK LKSIAATRG  VVIGT+KFYGGW +ML+ +  DV++P LMGWDYPKCDRA
Sbjct  61   MTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRRLIKDVDSPVLMGWDYPKCDRA  120

Query  626  MPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDA  685
            MPN+LRI++SLVLARKH +CCS + RFYRLANECAQVLSE+VMCGG  YVKPGGTSSGDA
Sbjct  121  MPNILRIVSSLVLARKHDSCCSHTDRFYRLANECAQVLSEIVMCGGCYYVKPGGTSSGDA  180

Query  686  TTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEF  745
            TTA+ANSVFNICQAV+ANV +L++ +G+KI D  +R LQ RLY  +YR   VD  FV+E+
Sbjct  181  TTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQKRLYSNVYRADHVDPAFVSEY  240

Query  746  YAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEAKCWTETDL  805
            Y +L KHFSMMILSDD VVC+NS +AS+G +A+I  F+ VLYYQNNVFMSEAKCW ETD+
Sbjct  241  YEFLNKHFSMMILSDDGVVCYNSEFASKGYIANISAFQQVLYYQNNVFMSEAKCWVETDI  300

Query  806  TKGPHEF  812
             KGPHEF
Sbjct  301  EKGPHEF  307


>sp|Q9WQ76|R1AB_CVTMI Replicase polyprotein 1ab (Fragment) OS=Turkey 
coronavirus (strain Minnesota) OX=231430 GN=rep PE=3 
SV=1
Length=306

 Score = 444 bits (1142),  Expect = 2e-148, Method: Composition-based stats.
 Identities = 213/307 (69%), Positives = 248/307 (81%), Gaps = 1/307 (0%)

Query  506  FNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICST  565
            FNK+GKARLYY+ MS E+QD LF  TK+NV+PTITQMNLKYAISAKNRARTVAGVSI ST
Sbjct  1    FNKFGKARLYYE-MSLEEQDQLFESTKKNVLPTITQMNLKYAISAKNRARTVAGVSILST  59

Query  566  MTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRA  625
            MTNRQFHQK+LKSI  TR A VVIGT+KFYGGW NML+ +   VE+P LMGWDYPKCDRA
Sbjct  60   MTNRQFHQKILKSIVNTRNAPVVIGTTKFYGGWDNMLRNLIQGVEDPILMGWDYPKCDRA  119

Query  626  MPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDA  685
            MPN+LRI ASLVLARKHT CC+ S R YRL NECAQVLSE V+  G +YVKPGGTSSGDA
Sbjct  120  MPNLLRITASLVLARKHTNCCTWSERIYRLYNECAQVLSETVLATGGIYVKPGGTSSGDA  179

Query  686  TTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEF  745
            TTAYANSVFNI QA +ANV  LLS     I    +++LQ+ LY+ +YR  + D  FV +F
Sbjct  180  TTAYANSVFNIIQATSANVARLLSVITRDIVYDDIKSLQYELYQQVYRRVNFDPAFVEKF  239

Query  746  YAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEAKCWTETDL  805
            Y+YL K+FS+MI +DD VVC+N+T A QGLVA I  F+ +LYYQNNV+M+++KCW E DL
Sbjct  240  YSYLCKNFSLMIFADDGVVCYNNTLAKQGLVADISGFREILYYQNNVYMADSKCWVEPDL  299

Query  806  TKGPHEF  812
             KGPHEF
Sbjct  300  EKGPHEF  306


>sp|P0C6V7|R1AB_BEV Replicase polyprotein 1ab OS=Berne virus OX=11156 
GN=rep PE=1 SV=1
Length=6857

 Score = 475 bits (1223),  Expect = 3e-143, Method: Composition-based stats.
 Identities = 123/519 (24%), Positives = 224/519 (43%), Gaps = 55/519 (11%)

Query  418   DFYDFAVSKGFFKEGSSV--ELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEV  475
              FYD  + +     G       K+F++  +   A++D  YY Y        + L  V + 
Sbjct  4908  PFYDVGLCQELTDAGVDCGEAFKYFYYLSNPAGALADVCYYDYQGTGFYSPKLLAGVYDF  4967

Query  476   VDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWG-KARLYYDSMSYEDQDALFAYTKRN  534
             + +  +CY    IN          + +    N  G +    Y ++  E+   LF Y ++ 
Sbjct  4968  MKRVTECYR---INERFTYEQAKPRKSSMGINITGYQQDAVYRALGPENIARLFEYAQKA  5024

Query  535   VIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSI---AATRGATVVIGT  591
              +P  T++  K+A+SAK RARTV+  S  ++   R  H+ +   +   A   G   +IG 
Sbjct  5025  PLPFCTKIITKFALSAKARARTVSSCSFIASTIFRFAHKPVTSKMVEVAQNSGGFCLIGV  5084

Query  592   SKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHR  651
             SK+   +   LK  Y  +E   + G DY KCDR  P   R + + +L            +
Sbjct  5085  SKYGLKFSKFLKDKYGAIEGFDVFGSDYTKCDRTFPLSFRALTAALLYE----LGEWDEK  5140

Query  652   FYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLS--  709
              +   NE    + + ++C G L  KPGGTSSGDATTA++N+ +N           +LS  
Sbjct  5141  SWLYLNEVNSYMLDTMLCDGMLLNKPGGTSSGDATTAHSNTFYNYMVHYVVAFKTILSDL  5200

Query  710   TDGNKIADKYVRNL----QHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVC  765
             ++GNK+      N      ++++  L  ++     F+N              LSDD+ + 
Sbjct  5201  SEGNKVMRIAAHNAYTTGDYQVFNTLLEDQFQTNYFLN-------------FLSDDSFI-  5246

Query  766   FNSTYASQGLVASIKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDD  825
             F+   A +  + + +NF + L    +  + + K W+     +   EFCS H  ++K   +
Sbjct  5247  FSKPEALK--IFTCENFSNKLQTILHTKVDQTKSWSTKGHIE---EFCSAH--IIKTDGE  5299

Query  826   YVYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYL  885
             Y +L  P   R+L +   +D +   D   M  RFV++  ++   +++  + +  +F ++L
Sbjct  5300  YHFL--PSRGRLLASLLILDKLSDVDIYYM--RFVAILCESAVYSRYQPEFFNGLFQVFL  5355

Query  886   QYIRKLHDELTGHMLDMYSVMLTNDNTSRYWEPEFYEAM  924
               +++   +              +    +  E EFYE +
Sbjct  5356  DKVQQFRKDY-----------CCDPCPPQLLEREFYENL  5383


 Score = 53.1 bits (126),  Expect = 1e-05, Method: Composition-based stats.
 Identities = 42/188 (22%), Positives = 73/188 (39%), Gaps = 30/188 (16%)

Query  35    FDIYNDKVAGFAKFLKTNCCRFQEKDEDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCP  94
              D+  +  AG  K  K+N    + + +        F++KR         E         P
Sbjct  4596  IDLATEYNAGIVKVNKSNTHSVEYQSKR-------FMIKR----VKDQSEFALAKTAFLP  4644

Query  95    AVAKHDFFKFRIDGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDD  154
             ++  H         +    + R   +++++ DLVYA+   D+   D L E    +N   D
Sbjct  4645  SIIPHHM----EKQNGEWFLIRGPTSQWSLGDLVYAIWLGDQ---DYLSECGFVFNPSRD  4697

Query  155   DYFNKKDWYDFVENPDILRVYANLGERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNG  214
             ++ +  +   F+ N             +  A+L        ++   +   LTLDN DLNG
Sbjct  4698  EFLDDANQRSFLAN------------LLEPAILNFSHIYWQVKMCKVPYKLTLDNVDLNG  4745

Query  215   NWYDFGDF  222
               YDFGD+
Sbjct  4746  QLYDFGDY  4753


>sp|P0C6V8|R1AB_BRV1 Replicase polyprotein 1ab OS=Breda virus 
1 OX=360393 GN=rep PE=2 SV=1
Length=6733

 Score = 467 bits (1201),  Expect = 3e-140, Method: Composition-based stats.
 Identities = 119/525 (23%), Positives = 216/525 (41%), Gaps = 55/525 (10%)

Query  418   DFYDFAVSKGFFKEGSSV--ELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEV  475
               YD  + +     G       K+F++  +   A++D  +Y Y        + L  V + 
Sbjct  4784  PLYDVGLCQELTDAGVDCGEAFKYFYYLSNPAGALADVCFYDYQGTGFYSPKLLAGVYDF  4843

Query  476   VDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWG-KARLYYDSMSYEDQDALFAYTKRN  534
             + +   CY     +          + +    N  G +    Y ++  E+   LF Y ++ 
Sbjct  4844  MKRVTTCYK---TDERFTYEQAKPRKSSMGINITGYQQDAVYRALGPENITKLFEYAQKA  4900

Query  535   VIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSI---AATRGATVVIGT  591
              +P  T++  K+A+SAK RARTV+  S  ++   R  H+ +   +   A       +IG 
Sbjct  4901  PLPFCTKIITKFALSAKARARTVSSCSFIASTIFRFAHKPVTSKMVEVAQNSQGFCLIGV  4960

Query  592   SKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHR  651
             SK+   +   LK  Y  +E   + G DY KCDR  P   R + + +L             
Sbjct  4961  SKYGLKFSKFLKDKYGAIEQFDVFGSDYTKCDRTFPLSFRALTAALLYE----LGGWEED  5016

Query  652   FYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLS--  709
              +   NE    + + ++C G L  KPGGTSSGDATTA++N+ +N           +LS  
Sbjct  5017  SWLYLNEVNSYMLDTMLCDGMLLNKPGGTSSGDATTAHSNTFYNYMVHYVVAFKTILSDL  5076

Query  710   TDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFS----MMILSDDAVVC  765
             +D NK+    +R   H  Y                F   L + F     +  LSDD+ + 
Sbjct  5077  SDCNKV----MRIAAHNAYTT---------GDYGVFNTLLEEQFQTNYFLNFLSDDSFI-  5122

Query  766   FNSTYASQGLVASIKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDD  825
             F+   A +  + + +NF + L    +  +   K W  T   +   EFCS H  ++K   +
Sbjct  5123  FSKPGALK--IFTCENFSNKLQTILHTKVDLTKSWATTGHIE---EFCSAH--IIKTDGE  5175

Query  826   YVYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYL  885
             Y +L  P   R+L +   +D +   D   M  RFV++  ++   +++  + +  +F ++L
Sbjct  5176  YHFL--PSRGRLLASLLILDKLSDVDIYYM--RFVAILCESAVYSRYQPEFFNGLFQVFL  5231

Query  886   QYIRKLHDELTGHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTV  930
               +++   +              +   ++  + +FYE +      
Sbjct  5232  DKVQQFRKDY-----------CCDPCPTQLLDRQFYENLVFTSNT  5265


 Score = 51.2 bits (121),  Expect = 6e-05, Method: Composition-based stats.
 Identities = 41/188 (22%), Positives = 74/188 (39%), Gaps = 30/188 (16%)

Query  35    FDIYNDKVAGFAKFLKTNCCRFQEKDEDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCP  94
              D+  +  AG  K  K+N    +            F++KR      QHE  +       P
Sbjct  4472  IDLATEYNAGIVKVNKSNTHSVE-------YKGQRFMIKRVKD---QHEFAL-ARTAFLP  4520

Query  95    AVAKHDFFKFRIDGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDD  154
             ++  H      +  +    + R   T++++ DLVYA+   D+     L E    +N   D
Sbjct  4521  SIIPHHM----VHQNGEWFLVRGPTTQWSLGDLVYAIWLGDQ---AYLDECGFVFNPSRD  4573

Query  155   DYFNKKDWYDFVENPDILRVYANLGERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNG  214
             ++ +  +   ++ N             +  A+L   +    ++   +   +TLDN DL G
Sbjct  4574  EFLDDANQRSYLAN------------LLEPAILSFCEIFHCVKGCQVPYKITLDNLDLKG  4621

Query  215   NWYDFGDF  222
               YDFGD+
Sbjct  4622  QLYDFGDY  4629


>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 = 403 bits (1036),  Expect = 1e-118, Method: Composition-based stats.
 Identities = 120/539 (22%), Positives = 211/539 (39%), Gaps = 67/539 (12%)

Query  415   FNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGN--AAISDYDYYRYNLPTMCDIRQLLFV  472
             + + FYD  + +     G ++     +  Q G    A+ D+ YY YN P   D   L  V
Sbjct  4888  YKRPFYDLDLIQRMNSAGLNLSETTGYHYQCGTTTEAVEDFMYYNYNSPKSFDPSYLKSV  4947

Query  473   VEVVD-KYFDCYDGGCINANQVIVNNLDKSAGFP-FNKWGK------ARLYYDSMSYEDQ  524
                +  K+        I+ ++     L+  +G P  +  G        +  ++++  +  
Sbjct  4948  YTYMRDKFMKI-----ISTDE----KLNHQSGAPRMSSMGVGVSGFFQKTVWNALPEDFS  4998

Query  525   DALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRG  584
               L     + V+P  T +  K+    K R RT+ G S  ++   R  H+ +   +  T  
Sbjct  4999  PRLLDTASKTVMPFSTNIVKKFQRQKKTRVRTLGGSSFITSSIFRMLHKPVTNKMVQTAQ  5058

Query  585   ATV---VIGTSKFYGGWHNMLKTVYSD-VENPHLMGWDYPKCDRAMPNMLRIMASLVLAR  640
             A +   +IG SKF  G+H  L   + + +E+  +MG DY KCDR+ P + R +++ +   
Sbjct  5059  ANIGPFLIGISKFNLGFHKYLSAHHPNGIEDCQVMGADYTKCDRSFPVVCRALSAALFYE  5118

Query  641   KHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAV  700
                         +   NE    L +     G ++ KPGGT+SGD+TTA++NS +N    +
Sbjct  5119  LGHL----EPNNHWFLNEMFAFLLDPSFISGHIFNKPGGTTSGDSTTAFSNSFYNYFVHL  5174

Query  701   TANVNALLSTDGNKIADKYVRNLQHRLYEC-------LYRNRDVDTDFVNEFYAYLRKHF  753
                    L+T+    + + + NL H+ +         LY +   D +    F        
Sbjct  5175  YIQYLTFLTTEMPP-SYQPLCNLAHQAFSTGNTETYDLYFSMADDLNSTEYF--------  5225

Query  754   SMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFC  813
              +  LSDD+ +    T      + +  NF   L      ++  AK W+        HEFC
Sbjct  5226  -LHFLSDDSFIISKPTAFP---IFTPANFSMKLQNVLGCYVDPAKSWSADGEI---HEFC  5278

Query  814   SQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHP  873
             S H   + +   YV    PDP+ +L       +    D   +I + V+   +        
Sbjct  5279  SSHICKINEKYQYV----PDPNNMLAGLICAPEPTPQDK--LIWKLVATCAELAVFHFVN  5332

Query  874   NQEYADVFHLYLQYIRKLHDELTGHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  932
                + ++F         L   L    +  +SV L      +  E +FY  +     V Q
Sbjct  5333  PTLFNNIF--------HLLQSLHAEFVSEHSVNLL---PPKLLEIDFYTDLIDSEDVEQ  5380


 Score = 165 bits (418),  Expect = 5e-40, Method: Composition-based stats.
 Identities = 50/191 (26%), Positives = 76/191 (40%), Gaps = 35/191 (18%)

Query  35    FDIYNDKVAGFAKFLKTNCCRFQEKDEDDNLIDSYFVVKRHTFSNYQHEETIY---NLLK  91
              +I N+ VA   K  K N      ++    L D+             HE  IY    LL 
Sbjct  4581  INILNNNVASLRKVFKKNTASIPSENGTIMLKDT----------GTAHE--IYVAKQLLA  4628

Query  92    DCPAVAKHDFFKFRIDGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNC  151
                 V +H     R + D   ++ R   T Y++ DLVYA    D       K +L+  + 
Sbjct  4629  KGLPVLQHA----RFNHDGTDYLIRYYTTPYSLGDLVYAYMVGD------FKHMLLALDI  4678

Query  152   CDDDYFNKKDWYDFVENPDILRVYANLGERVRQALLKTVQFCDAMRNAGIVGVLTLDNQD  211
              D+   +  ++            Y N  E++R  L   +   + +  A +   +TLDN D
Sbjct  4679  TDETCLDPGNYSS----------YYNFKEQLRNKLASVIPNVNKILAAELPLAITLDNID  4728

Query  212   LNGNWYDFGDF  222
             LNG  YDFGD+
Sbjct  4729  LNGFLYDFGDY  4739


>sp|Q9WJB2|RPOA_PRRSR Replicase polyprotein 1ab OS=Porcine reproductive 
and respiratory syndrome virus (strain VR-2332) OX=300559 
GN=rep PE=1 SV=2
Length=3960

 Score = 271 bits (692),  Expect = 4e-74, Method: Composition-based stats.
 Identities = 83/443 (19%), Positives = 161/443 (36%), Gaps = 70/443 (16%)

Query  443   AQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKS-  501
              + G    +  D  +Y+L T   +  L  V+ +V KY   + G C   ++        S 
Sbjct  2733  TEHGCEDAALKDLSKYDLSTQGFV--LPGVLRLVRKYLFAHVGKCPPVHRPSTYPAKNSM  2790

Query  502   AGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVS  561
             AG   N++       D  S  + D L A   R    T+T   LK     K + RT+ G +
Sbjct  2791  AGINGNRFPTK----DIQSVPEIDVLCAQAVRENWQTVTPCTLKKQYCGKKKTRTILGTN  2846

Query  562   ICSTMTNRQFHQKLLKS-IAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHL---MGW  617
                 + +R     + +  +     + + +G +KF             +++ P L   +  
Sbjct  2847  NFIALAHRAVLSGVTQGFMKKAFNSPIALGKNKF------------KELQTPVLGRCLEA  2894

Query  618   DYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKP  677
             D   CDR+ P ++R  A+ +L   +   C+  H    + N C  +L   V   G++  K 
Sbjct  2895  DLASCDRSTPAIVRWFAANLL---YELACAEEHLPSYVLNCCHDLL---VTQSGAV-TKR  2947

Query  678   GGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDV  737
             GG SSGD  T+ +N+++++       V +   + G+     ++++               
Sbjct  2948  GGLSSGDPITSVSNTIYSLVIYAQHMVLSYFKS-GHPHGLLFLQDQLK------------  2994

Query  738   DTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEA  797
                     +  + K   +++ SDD V+     YA    + +   +   L           
Sbjct  2995  --------FEDMLKVQPLIVYSDDLVL-----YAESPTMPNYHWWVEHLNLMLGFQTDPK  3041

Query  798   KCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLMIE  857
             K    T +T  P    S     +  G   V    P+  RIL A  +              
Sbjct  3042  K----TAITDSP----SFLGCRIINGRQLV----PNRDRILAALAYHMKASNVSEYYASA  3089

Query  858   RFVSLAIDAYPLTKHPNQEYADV  880
                ++ +D+    ++  + + ++
Sbjct  3090  --AAILMDSCACLEYDPEWFEEL  3110


>sp|A6YQT5|RPOA_PRRSV Replicase polyprotein 1ab OS=Porcine reproductive 
and respiratory syndrome virus OX=28344 PE=1 SV=2
Length=3931

 Score = 270 bits (691),  Expect = 5e-74, Method: Composition-based stats.
 Identities = 83/443 (19%), Positives = 161/443 (36%), Gaps = 70/443 (16%)

Query  443   AQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKS-  501
              + G    +  D  +Y+L T   +  L  V+ +V KY   + G C   ++        S 
Sbjct  2704  TEHGCEDAALRDLSKYDLSTQGFV--LPGVLRLVRKYLFAHVGKCPPVHRPSTYPAKNSM  2761

Query  502   AGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVS  561
             AG   N++       D  S  + D L A   R    T+T   LK     K + RT+ G +
Sbjct  2762  AGINGNRFPTK----DIQSVPEIDVLCAQAVRENWQTVTPCTLKKQYCGKKKTRTILGTN  2817

Query  562   ICSTMTNRQFHQKLLKS-IAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHL---MGW  617
                 + +R     + +  +     + + +G +KF             +++ P L   +  
Sbjct  2818  NFIALAHRAALSGVTQGFMKKAFNSPIALGKNKF------------KELQAPVLGRCLEA  2865

Query  618   DYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKP  677
             D   CDR+ P ++R  A+ +L   +   C+  H    + N C  +L   V   G++  K 
Sbjct  2866  DLASCDRSTPAIVRWFAANLL---YELACAEEHLPSYVLNCCHDLL---VTQSGAV-TKR  2918

Query  678   GGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDV  737
             GG SSGD  T+ +N+++++       V +   + G+     ++++               
Sbjct  2919  GGLSSGDPITSVSNTIYSLVIYAQHMVLSYFKS-GHPHGLLFLQDQLK------------  2965

Query  738   DTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEA  797
                     +  + K   +++ SDD V+     YA    + +   +   L           
Sbjct  2966  --------FEDMLKVQPLIVYSDDLVL-----YAESPSMPNYHWWVEHLNLMLGFQTDPK  3012

Query  798   KCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLMIE  857
             K    T +T  P    S     +  G   V    P+  RIL A  +              
Sbjct  3013  K----TTITDSP----SFLGCRIINGRQLV----PNRDRILAALAYHMKASNVSEYYASA  3060

Query  858   RFVSLAIDAYPLTKHPNQEYADV  880
                ++ +D+    ++  + + ++
Sbjct  3061  --AAILMDSCACLEYDPEWFEEL  3081


>sp|Q8B912|RPOA_PRRSB Replicase polyprotein 1ab OS=Porcine reproductive 
and respiratory syndrome virus (strain HB-1) OX=300563 
GN=rep PE=2 SV=3
Length=3961

 Score = 268 bits (685),  Expect = 3e-73, Method: Composition-based stats.
 Identities = 81/443 (18%), Positives = 158/443 (36%), Gaps = 70/443 (16%)

Query  443   AQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKS-  501
              + G    +  D  +Y+L T   +  L  V+ +V KY   + G C   ++        S 
Sbjct  2734  TEHGCEDAALRDLSKYDLVTQGFV--LPGVLRLVRKYLFAHVGKCPPVHRPSTYPAKNSM  2791

Query  502   AGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVS  561
             AG   N++       D  S  + D L A   R    T+T   LK     K + RT+ G +
Sbjct  2792  AGINGNRFPTK----DIQSVPEIDVLCAQAVRENWQTVTPCTLKKQYCGKKKTRTILGTN  2847

Query  562   ICSTMTNRQFHQKLLKS-IAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHL---MGW  617
                 + +R     + +  +     + + +G +KF             +++ P L   +  
Sbjct  2848  NFIALAHRAALSGVTQGFMKKAFNSPIALGKNKF------------KELQTPVLGRCLEA  2895

Query  618   DYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKP  677
             D   CDR+ P ++R  A+ +L   +   C+  H    + N C  +L   V   G++  K 
Sbjct  2896  DLASCDRSTPAIVRWFAANLL---YELACAEEHLPSYVLNCCHDLL---VTQSGAV-TKR  2948

Query  678   GGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDV  737
             GG SSGD  T+ +N+++++       V +   + G+     ++++               
Sbjct  2949  GGLSSGDPITSVSNTIYSLVIYAQHMVLSYFKS-GHPHGLLFLQDQLK------------  2995

Query  738   DTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEA  797
                     +  + K   +++ SDD V+     YA    + +   +   L           
Sbjct  2996  --------FEDMLKVQPLIVYSDDLVL-----YAESPSMPNYHWWVEHLNLMLGFQTDPK  3042

Query  798   KCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLMIE  857
             K       T     F       +  G   V    P+  RIL A  +              
Sbjct  3043  KTAITDSPT-----FLG---CRIINGRQLV----PNRDRILAALAYHMKASNVSEYYASA  3090

Query  858   RFVSLAIDAYPLTKHPNQEYADV  880
                ++ +D+    ++  + + ++
Sbjct  3091  --AAILMDSCACLEYDPEWFEEL  3111


>sp|Q9YN02|RPOA_PRRS1 Replicase polyprotein 1ab OS=Porcine reproductive 
and respiratory syndrome virus (strain 16244B) OX=300561 
GN=rep PE=1 SV=3
Length=3961

 Score = 268 bits (685),  Expect = 3e-73, Method: Composition-based stats.
 Identities = 83/440 (19%), Positives = 160/440 (36%), Gaps = 64/440 (15%)

Query  443   AQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKS-  501
              + G    +  D  +Y+L T   +  L  V+ +V KY   + G C   ++        S 
Sbjct  2734  TEHGCEDAALKDLSKYDLSTQGFV--LPGVLRLVRKYLFAHVGKCPPVHRPSTYPAKNSM  2791

Query  502   AGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVS  561
             AG   N++       D  S  + D L A   R    T+T   LK     K + RT+ G +
Sbjct  2792  AGINGNRFPTK----DIQSVPEIDVLCAQAVRENWQTVTPCTLKKQYCGKKKTRTILGTN  2847

Query  562   ICSTMTNRQFHQKLLKS-IAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYP  620
                 + +R     + +  +     + + +G +KF        K + + V     +  D  
Sbjct  2848  NFIALAHRAALSGVTQGFMKKAFNSPIALGKNKF--------KELQTSVLG-RCLEADLA  2898

Query  621   KCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGT  680
              CDR+ P ++R  A+ +L   +   C+  H    + N C  +L   V   G++  K GG 
Sbjct  2899  SCDRSTPAIVRWFAANLL---YELACAEEHLPSYVLNCCHDLL---VTQSGAV-TKRGGL  2951

Query  681   SSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDTD  740
             SSGD  T+ +N+++++       V +   + G+     ++++                  
Sbjct  2952  SSGDPITSVSNTIYSLVIYAQHMVLSYFKS-GHPHGLLFLQDQLK---------------  2995

Query  741   FVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEAKCW  800
                  +  + K   +++ SDD V+     YA    + +   +   L           K  
Sbjct  2996  -----FEDMLKVQPLIVYSDDLVL-----YAESPTMPNYHWWVEHLNLMLGFQTDPKK--  3043

Query  801   TETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFV  860
               T +T  P    S     +  G   V    P+  RIL A  +                 
Sbjct  3044  --TAITDSP----SFLGCRIINGRQLV----PNRDRILAALAYHMKASNVSEYYASA--A  3091

Query  861   SLAIDAYPLTKHPNQEYADV  880
             ++ +D+    ++  + + ++
Sbjct  3092  AILMDSCACLEYDPEWFEEL  3111


>sp|Q68772|RPOA_SHFV Replicase polyprotein 1ab OS=Simian hemorrhagic 
fever virus OX=38143 GN=rep PE=2 SV=4
Length=3595

 Score = 256 bits (654),  Expect = 2e-69, Method: Composition-based stats.
 Identities = 90/455 (20%), Positives = 161/455 (35%), Gaps = 71/455 (16%)

Query  441   FFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCIN-ANQVIVNNLD  499
             ++ Q G  A +  D  ++NL T   I  L  V+ +V  Y     G          V + D
Sbjct  2333  YYTQHGCEAAALQDLKKFNLSTQGFI--LPEVLNIVRNYLLGTIGYRPAIYKPSTVPSND  2390

Query  500   KSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAG  559
               AG     +    L     +  D D L       V  T+T + LK    +K + RT+ G
Sbjct  2391  SHAGINGLSFSTKTL----QALPDIDELCEKAIAEVWQTVTPVTLKKQFCSKAKTRTILG  2446

Query  560   VSICSTMTNRQFHQKLLKSIA-ATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWD  618
              +  +++  R     + +    A + + + +G SKF             +V+    +  D
Sbjct  2447  TNAMASLALRALLSGVTQGFQLAGKNSPICLGKSKF--------DPCTFEVKG-RCLETD  2497

Query  619   YPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPG  678
                CDR+ P ++R  A+ +L       C+       + N C     ++++   S   K G
Sbjct  2498  LASCDRSTPAIVRHFATKLLF---EMACAERALPLYVVNCCH----DLIVTQTSAATKRG  2550

Query  679   GTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVD  738
             G SSGD  T+ AN+++++   V   V  LL  +G+ ++ K++            +    D
Sbjct  2551  GLSSGDPVTSIANTIYSLVLYVQHMVLTLLE-NGHPLSLKFLSG----------KLNFQD  2599

Query  739   TDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKS---VLYYQNNVFMS  795
                +  F  Y          SDD ++   S          + NF+     L       + 
Sbjct  2600  LYKLQAFIVY----------SDDLILLNESD--------DLPNFERWVPHLELALGFKVD  2641

Query  796   EAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLM  855
               K    ++      E+  +H  LV           P   R+L A  +  +        +
Sbjct  2642  PKKTVITSNPGFLGCEY--RHGWLV-----------PQKQRVLAALAYHVNAKDVHTYYI  2688

Query  856   IERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRK  890
                  ++  DA  L+      + D+        RK
Sbjct  2689  NA--TAILNDASALSAFEPDWFDDLVIGLADCARK  2721


>sp|Q04561|RPOA_PRRSL Replicase polyprotein 1ab OS=Porcine reproductive 
and respiratory syndrome virus (strain Lelystad) OX=11049 
GN=rep PE=1 SV=3
Length=3855

 Score = 231 bits (590),  Expect = 3e-61, Method: Composition-based stats.
 Identities = 81/443 (18%), Positives = 159/443 (36%), Gaps = 64/443 (14%)

Query  440   FFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLD  499
             F   + G +  +  D  +Y+L T   +  L  V+ +V ++   + G              
Sbjct  2624  FMCTKHGTSKAAAEDLQKYDLSTQGFV--LPGVLRLVRRFIFGHIGKAPPLFLPSTYPAK  2681

Query  500   KS-AGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVA  558
              S AG    ++       D  S  + D + A   +    T+T   LK    +K + RT+ 
Sbjct  2682  NSMAGINGQRFPTK----DVQSIPEIDEMCARAVKENWQTVTPCTLKKQYCSKPKTRTIL  2737

Query  559   GVSICSTMTNRQFHQKLLKS-IAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGW  617
             G +    + +R     + ++ +     + + +G +KF        K ++  V     +  
Sbjct  2738  GTNNFIALAHRSALSGVTQAFMKKAWKSPIALGKNKF--------KELHCTVAG-RCLEA  2788

Query  618   DYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKP  677
             D   CDR+ P ++R   + +L   +       +    + N C     ++V      + K 
Sbjct  2789  DLASCDRSTPAIVRWFVANLL---YELAGCEEYLPSYVLNCCH----DLVATQDGAFTKR  2841

Query  678   GGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDV  737
             GG SSGD  T+ +N+V+++       V + L   G++I  K++                 
Sbjct  2842  GGLSSGDPVTSVSNTVYSLVIYAQHMVLSALKM-GHEIGLKFLEEQLK------------  2888

Query  738   DTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEA  797
                     +  L +   M++ SDD V+     YA +    +   +   L           
Sbjct  2889  --------FEDLLEIQPMLVYSDDLVL-----YAERPTFPNYHWWVEHLDLMLGFRTDPK  2935

Query  798   KCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLMIE  857
             K    T +T  P    S     ++ G   V    P+  RIL A  +   +   + +    
Sbjct  2936  K----TVITDKP----SFLGCRIEAGRQLV----PNRDRILAALAY--HMKAQNASEYYA  2981

Query  858   RFVSLAIDAYPLTKHPNQEYADV  880
                ++ +D+     H  + Y D+
Sbjct  2982  SAAAILMDSCACIDHDPEWYEDL  3004


>sp|A0MD28|RPOA_PRRSS Replicase polyprotein 1ab OS=Porcine reproductive 
and respiratory syndrome virus (isolate Pig/United 
States/SD 01-08/2001) OX=857306 PE=1 SV=2
Length=3838

 Score = 231 bits (590),  Expect = 3e-61, Method: Composition-based stats.
 Identities = 81/443 (18%), Positives = 159/443 (36%), Gaps = 64/443 (14%)

Query  440   FFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLD  499
             F   + G +  +  D  +Y+L T   +  L  V+ +V ++   + G              
Sbjct  2607  FMCTKHGTSKAAAEDLQKYDLSTQGFV--LPGVLRLVRRFIFGHIGKAPPLFLPSTYPAK  2664

Query  500   KS-AGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVA  558
              S AG    ++       D  S  + D + A   +    T+T   LK    +K + RT+ 
Sbjct  2665  NSMAGINGQRFPTK----DVQSIPEIDEMCARAVKENWQTVTPCTLKKQYCSKPKTRTIL  2720

Query  559   GVSICSTMTNRQFHQKLLKS-IAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGW  617
             G +    + +R     + ++ +     + + +G +KF        K ++  V     +  
Sbjct  2721  GTNNFIALAHRSALSGVTQAFMKKAWKSPIALGKNKF--------KELHCTVAG-RCLEA  2771

Query  618   DYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKP  677
             D   CDR+ P ++R   + +L   +       +    + N C     ++V      + K 
Sbjct  2772  DLASCDRSTPAIVRWFVANLL---YELAGCEEYLPSYVLNCCH----DLVATQDGAFTKR  2824

Query  678   GGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDV  737
             GG SSGD  T+ +N+V+++       V + L   G++I  K++                 
Sbjct  2825  GGLSSGDPVTSVSNTVYSLIIYAQHMVLSALKM-GHEIGLKFLEEQLK------------  2871

Query  738   DTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEA  797
                     +  L +   M++ SDD V+     YA +    +   +   L           
Sbjct  2872  --------FEDLLEIQPMLVYSDDLVL-----YAERPTFPNYHWWVEHLDLMLGFRTDPK  2918

Query  798   KCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLMIE  857
             K    T +T  P    S     ++ G   V    P+  RIL A  +   +   + +    
Sbjct  2919  K----TVITDKP----SFLGCRIEAGRQLV----PNRDRILAALAY--HMKAQNASEYYA  2964

Query  858   RFVSLAIDAYPLTKHPNQEYADV  880
                ++ +D+     H  + Y D+
Sbjct  2965  SAAAILMDSCACIDHDPEWYEDL  2987


>sp|Q83017|RPOA_LDVP Replicase polyprotein 1ab OS=Lactate dehydrogenase 
elevating virus (strain Plagemann) OX=300016 GN=rep 
PE=1 SV=2
Length=3616

 Score = 208 bits (529),  Expect = 1e-53, Method: Composition-based stats.
 Identities = 66/316 (21%), Positives = 118/316 (37%), Gaps = 28/316 (9%)

Query  443   AQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKS-  501
              + G A+ ++ D  +++L     +  L  V+ +V +Y     G               S 
Sbjct  2434  TKHGCASAAEKDLQKFDLSRQGFV--LPGVLYMVRRYLSRLIGVRRRLFMPSTYPAKNSM  2491

Query  502   AGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVS  561
             AG    ++    L     S+ D DAL          T+T   LK    +K++ RT+ G +
Sbjct  2492  AGINGGRFPLTWL----QSHPDIDALCKRACEEHWQTVTPCTLKKQYCSKSKTRTILGTN  2547

Query  562   ICSTMTNRQFHQKLLKS-IAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYP  620
                 +  R     + +  +    G  + +G +KF      +             +  D  
Sbjct  2548  NFVALGLRSALSGVTQGFMRKGIGTPICLGKNKFTPLPVRI---------GGRCLEADLA  2598

Query  621   KCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGT  680
              CDR+ P ++R   + +L        +       + N C  V+S M  C    + K GG 
Sbjct  2599  SCDRSTPAIIRWFTTNLLF---ELAGAEEWIPSYVLNCCHDVVSTMSGC----FDKRGGL  2651

Query  681   SSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNL--QHRLYE-CLYRNRDV  737
             SSGD  T+ +N+V+++       V +     G+KI   ++++     +L+E         
Sbjct  2652  SSGDPVTSISNTVYSLIIYAQHMVLSAFRC-GHKIGGLFLQDSLEMEQLFELQPLLVYSD  2710

Query  738   DTDFVNEFYAYLRKHF  753
             D  F NE       HF
Sbjct  2711  DVVFYNESDELPNYHF  2726


>sp|Q06502|RPOA_LDVC Replicase polyprotein 1ab OS=Lactate dehydrogenase 
elevating virus (strain C) OX=300015 GN=rep PE=3 SV=2
Length=3637

 Score = 204 bits (519),  Expect = 2e-52, Method: Composition-based stats.
 Identities = 64/336 (19%), Positives = 126/336 (38%), Gaps = 30/336 (9%)

Query  450   ISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKS-AGFPFNK  508
             +++ D  +++L     +  L  V+ +V +Y     G               S AG   N+
Sbjct  2462  LAECDLQKFDLSRQGFV--LPGVLYMVRRYLCRLVGIRRRLFLPSTYPAKNSMAGINGNR  2519

Query  509   WGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTN  568
             +      +   S+ D DAL     +    T+T   LK    +K + RT+ G +    +  
Sbjct  2520  FPT----HVVQSHPDIDALCERACKEHWQTVTPCTLKKQYCSKAKTRTILGTNNFVALGL  2575

Query  569   RQFHQKLLKS-IAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMP  627
             R     + +  +    G+ + +G +KF      +         +   +  D   CDR+ P
Sbjct  2576  RSALSGVTQGFMRKGIGSPICLGKNKFTPLPTKV---------SGRCLEADLASCDRSTP  2626

Query  628   NMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATT  687
              ++R   + +L                + N C   +S M  C    + K GG SSGD  T
Sbjct  2627  AIIRWFTTNLLF---ELAGPEEWIPSYVLNCCHDAVSTMSGC----FDKRGGLSSGDPVT  2679

Query  688   AYANSVFNICQAVTANVNALLSTDGNKIADKYVRNL--QHRLYE-CLYRNRDVDTDFVNE  744
             + +N+V+++       V +     G+K+   ++R+     +L+E         D    +E
Sbjct  2680  SVSNTVYSLVIYAQHMVLSAFRC-GHKVGGLFLRDSLEMEQLFELQPLLVYSDDVVLYDE  2738

Query  745   FYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIK  780
                    HF +  L  D ++ F +  +   + +  +
Sbjct  2739  SSELPNYHFFVDHL--DLMLGFKTDRSKTVITSDPQ  2772


>sp|P19811|RPOA_EAVBU Replicase polyprotein 1ab OS=Equine arteritis 
virus (strain Bucyrus) OX=299386 GN=rep PE=1 SV=3
Length=3175

 Score = 173 bits (439),  Expect = 1e-42, Method: Composition-based stats.
 Identities = 68/350 (19%), Positives = 123/350 (35%), Gaps = 54/350 (15%)

Query  454   DYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCIN-ANQVIVNNLDKSAGFPFNKWGKA  512
             D  +YNL T   +  L  V  +V  Y     G          V + +  AG    ++   
Sbjct  1971  DLEKYNLSTQGFV--LPSVFSMVRAYLKEEIGDAPPLYLPSTVPSKNSQAGINGAEFPTK  2028

Query  513   RLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFH  572
              L     SY   D + + + ++ + T T    K    +K + R++ G +    +  R   
Sbjct  2029  SL----QSYCLIDDMVSQSMKSNLQTATMATCKRQYCSKYKIRSILGTNNYIGLGLRACL  2084

Query  573   QKLLKSIAAT--RGATVVIGTSKFYGGWHNMLKTVYSDVENPH--LMGWDYPKCDRAMPN  628
               +  +       G+ + +G SKF              +  P    +  D   CDR+ P 
Sbjct  2085  SGVTAAFQKAGKDGSPIYLGKSKF------------DPIPAPDKYCLETDLESCDRSTPA  2132

Query  629   MLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTA  688
             ++R  A+ ++                + N C     ++V+ G   + K GG SSGD  T+
Sbjct  2133  LVRWFATNLIF---ELAGQPELVHSYVLNCCH----DLVVAGSVAFTKRGGLSSGDPITS  2185

Query  689   YANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAY  748
              +N+++++       +   L     +IA+KY+            R+              
Sbjct  2186  ISNTIYSLVLYTQHMLLCGLEGYFPEIAEKYLDG------SLELRDMF------------  2227

Query  749   LRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEAK  798
               K+  + I SDD V+    T  +Q   AS   +   L       +   K
Sbjct  2228  --KYVRVYIYSDDVVL----TTPNQHYAASFDRWVPHLQALLGFKVDPKK  2271


>sp|P18479|POLG_ZYMVC Genome polyprotein OS=Zucchini yellow mosaic 
virus (strain California) OX=117128 PE=1 SV=2
Length=3080

 Score = 58.1 bits (139),  Expect = 5e-07, Method: Composition-based stats.
 Identities = 58/295 (20%), Positives = 115/295 (39%), Gaps = 48/295 (16%)

Query  454   DYYRYNLP---TMCDIRQLLFVVEVVDKY---FDCYDGGCINANQVIVNNLDKSAGFPFN  507
             D+++YN P      D  + L  V+ V +    F+  +   I   + I N+L+  A     
Sbjct  2356  DFFKYNKPVTVNQLDHDKFLGAVDGVIRMMCDFEFNECRFITDPEEIYNSLNMKAAIGAQ  2415

Query  508   KWGKARLYYDSMSYEDQDALFAYT-------KRNVIPTITQMNLK---YAISAKNRA---  554
               GK + Y++ +   D++ L   +        + +     +  L+      + K R    
Sbjct  2416  YRGKKKEYFEGLDDFDRERLLFQSCERLFNGYKGLWNGSLKAELRPLEKVRANKTRTFTA  2475

Query  555   ---RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVEN  611
                 T+ G  +C    N +F++K LK           +G +KFYGGW  +++++      
Sbjct  2476  APIDTLLGAKVCVDDFNNEFYRKNLK-------CPWTVGMTKFYGGWDKLMRSLPDGWLY  2528

Query  612   PHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVL-SEMVMC-  669
              H  G  +       P +L   A L++   +          + +  E  + L +E+V   
Sbjct  2529  CHADGSQFDS--SLTPALLN--AVLIIRSFYM-------EDWWVGQEMLENLYAEIVYTP  2577

Query  670   ----GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYV  720
                  G+++ K  G +SG  +T   N++  +     A +      +  +I +K V
Sbjct  2578  ILAPDGTIFKKFRGNNSGQPSTVVDNTLMVVISIYYACMK--FGWNCEEIENKLV  2630


>sp|Q89330|POLG_ZYMVR Genome polyprotein OS=Zucchini yellow mosaic 
virus (strain Reunion Island) OX=117129 PE=3 SV=1
Length=3083

 Score = 55.4 bits (132),  Expect = 3e-06, Method: Composition-based stats.
 Identities = 52/281 (19%), Positives = 106/281 (38%), Gaps = 48/281 (17%)

Query  454   DYYRYNLPTMC-------DIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPF  506
             D+++YN P +         +  +  V+ ++   F+  +   I   + I ++L+  A    
Sbjct  2359  DFFKYNKPVIVNQLDHDKFLEAVDGVIRMM-CDFEFNECRFITDPEEIYSSLNMKAAIGA  2417

Query  507   NKWGKARLYYDSMSYEDQDALFAYT-------KRNVIPTITQMNLK---YAISAKNRA--  554
                GK + Y++ +   D + L   +        + +     +  L+      + K R   
Sbjct  2418  QYRGKKKEYFEGLDNFDMERLLFQSCERLFNGYKGLWNGSLKAELRPLEKVQANKTRTFT  2477

Query  555   ----RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVE  610
                  T+ G  +C    N +F+ K LK           +G SKFYGGW  +++ +     
Sbjct  2478  AAPIDTLLGAKVCVDDFNNEFYSKNLK-------CPWTVGMSKFYGGWDKLMRALPDGWL  2530

Query  611   NPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVL-SEMVMC  669
               H  G  +       P +L   A L++   +          + +  E  + L +E+V  
Sbjct  2531  YCHADGSQFDS--SLTPALLN--AVLIIRSFYM-------EDWWVGQEMLENLYAEIVYT  2579

Query  670   -----GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVN  705
                   G+++ K  G +SG  +T   N++  +     A + 
Sbjct  2580  PILAPDGTIFKKFRGNNSGQPSTVVDNTLMVVISIYYACIK  2620


>sp|O36979|POLG_ZYMVS Genome polyprotein OS=Zucchini yellow mosaic 
virus (strain Singapore) OX=117130 PE=3 SV=2
Length=3083

 Score = 55.0 bits (131),  Expect = 3e-06, Method: Composition-based stats.
 Identities = 51/278 (18%), Positives = 106/278 (38%), Gaps = 48/278 (17%)

Query  454   DYYRYNLPTMC-------DIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPF  506
             D+++YN P +         +  +  V+ ++   F+  +   I   + I ++L+  A    
Sbjct  2359  DFFKYNKPVVVNQLDHDKFLGAVNGVIRMM-CDFEFNECRFITDPEEIYDSLNMKAAIGA  2417

Query  507   NKWGKARLYYDSMSYEDQDALFAYT-------KRNVIPTITQMNLK---YAISAKNRA--  554
                GK + Y++ +   D++ L   +        + +     +  L+      + K R   
Sbjct  2418  QYRGKKKEYFEGLDNFDRERLLFQSCERLFNGHKGLWNGSLKAELRPLEKVQANKTRTFT  2477

Query  555   ----RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVE  610
                  T+ G  +C    N +F+ K LK           +G +KFYGGW  +++ +     
Sbjct  2478  AAPIDTLLGAKVCVDDFNNEFYSKNLK-------CPWTVGMTKFYGGWDKLMRELPDGWL  2530

Query  611   NPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVL-SEMVMC  669
               H  G  +       P +L   A L++   +          + +  E  + L +E+V  
Sbjct  2531  YCHADGSQFDS--SLTPALLN--AVLIIRSFYM-------EDWWVGQEMLENLYAEIVYT  2579

Query  670   -----GGSLYVKPGGTSSGDATTAYANSVFNICQAVTA  702
                   G+++ K  G +SG  +T   N++  +     A
Sbjct  2580  PILAPDGTIFKKFRGNNSGQPSTVVDNTLMVVISIYYA  2617


>sp|P18478|POLG_WMV2U Genome polyprotein (Fragment) OS=Watermelon 
mosaic virus II (isolate USA) OX=148360 PE=1 SV=3
Length=1017

 Score = 55.0 bits (131),  Expect = 4e-06, Method: Composition-based stats.
 Identities = 49/278 (18%), Positives = 105/278 (38%), Gaps = 48/278 (17%)

Query  454  DYYRYNLPTMC-------DIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPF  506
            D+++YN P +          + +  V+ ++  +         + +++   +L+  A    
Sbjct  291  DFFKYNKPVVLNEVDFNAFEKAVEGVITMMVDFEFAECLFVTDPDEIY-GSLNMKAAVGA  349

Query  507  NKWGKARLYYDSMSYEDQDALFAYT-------KRNVIPTITQMNLK---YAISAKNRA--  554
               GK + Y+  M   D++ L   +       ++ +     +  L+      + K R   
Sbjct  350  QYKGKKQDYFSGMDSFDKERLLYLSCERLFNGEKGIWNGSLKAELRPIEKVQANKTRTFT  409

Query  555  ----RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVE  610
                 T+ G  +C    N QF+   LK           +G +KFYGGW  +++++     
Sbjct  410  AAPLDTLLGAKVCVDDFNNQFYSFNLK-------CPWTVGMTKFYGGWDKLMRSLPDGWT  462

Query  611  NPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVL-SEMVMC  669
              H  G  +       P +L  + S+        CC +    + +  E  + L +E+V  
Sbjct  463  YCHADGSQFDS--SLTPLLLNAVLSI-------RCCFMED--WWVGREMLENLYAEIVYT  511

Query  670  -----GGSLYVKPGGTSSGDATTAYANSVFNICQAVTA  702
                  G+++ K  G +SG  +T   N++  +     +
Sbjct  512  PILAPDGTIFKKFRGNNSGQPSTVVDNTLMVVIAMYYS  549


>sp|Q01901|POLG_PRSVH Genome polyprotein OS=Papaya ringspot virus 
(strain P / mutant HA) OX=31731 PE=3 SV=2
Length=3344

 Score = 54.3 bits (129),  Expect = 6e-06, Method: Composition-based stats.
 Identities = 68/369 (18%), Positives = 131/369 (36%), Gaps = 56/369 (15%)

Query  481   DCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYT-------KR  533
             +C +   I  ++VI+  L+  A       GK R Y++  + E + AL   +       + 
Sbjct  2624  ECPELEYITDSEVIIQALNMDAAVGALYTGKKRKYFEGSTVEHRQALVRKSCERLYEGRM  2683

Query  534   NVIPTITQMNLK---YAISAKNRA------RTVAGVSICSTMTNRQFHQKLLKSIAATRG  584
              V     +  L+     ++ K R+       T+ G  +C    N  F+ K ++       
Sbjct  2684  GVWNGSLKAELRPAEKVLAKKTRSFTAAPLDTLLGAKVCVDDFNNWFYSKNME-------  2736

Query  585   ATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRA------MPNMLRIMASLVL  638
                 +G +KFY GW   LK  + D       GW Y   D +       P +L  + S+ L
Sbjct  2737  CPWTVGMTKFYKGWDEFLK-KFPD-------GWVYCDADGSQFDSSLTPYLLNAVLSIRL  2788

Query  639   ARKHTTCCSLSHRFYRLANECAQVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSVFNIC  697
                             L N   ++    ++   G++  K  G +SG  +T   N++  + 
Sbjct  2789  WAMED----WDIGEQMLKNLYGEITYTPILTPDGTIVKKFKGNNSGQPSTVVDNTLMVLI  2844

Query  698   QAVTANVNALLSTDGNK------IADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRK  751
                 A   A   T   +      I    +    H  +E +  +       +   Y + ++
Sbjct  2845  TMYYALRKAGYDTKTQEDMCVFYINGDDLCIAIHPDHEHVLDSFSSSFAELGLKYDFAQR  2904

Query  752   HF---SMMILSDDAVV---CFNSTYASQGLVASIKNFKSVL--YYQNNVFMSEAKCWTET  803
             H    ++  +S   ++    +      + +VA ++  KS L  +    +  +  + W   
Sbjct  2905  HRNKQNLWFMSHRGILIDDIYIPKLEPERIVAILEWDKSKLPEHRLEAITAAMIESWGYG  2964

Query  804   DLTKGPHEF  812
             DLT     F
Sbjct  2965  DLTHQIRRF  2973


>sp|O56075|POLG_PEMVM Genome polyprotein OS=Peanut mottle virus 
(strain M) OX=103926 PE=3 SV=1
Length=3099

 Score = 53.5 bits (127),  Expect = 1e-05, Method: Composition-based stats.
 Identities = 38/217 (18%), Positives = 82/217 (38%), Gaps = 18/217 (8%)

Query  488   INANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQ--------DALFAYTKRNVIPTI  539
             +   + I+++L+  A       GK + Y++S+S  ++        + LF Y +  V    
Sbjct  2415  VTDEEAILDSLNMKAAVGALYKGKKKEYFESLSEPEKHHIVQASCERLF-YGEMGVWNGS  2473

Query  540   TQMNLK-YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAA-TRGATVVIGTSKFYGG  597
              +  L+     A N+ RT     I + +  +           +        +G +KFYGG
Sbjct  2474  LKAELRPKEKVALNKTRTFTAAPIDTLLGGKCCVDDFNNRFYSLNIEGPWTVGMTKFYGG  2533

Query  598   WHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRI-MASLVLARKHTTCCSLSHRFYRLA  656
             W  +++ +       H  G  +       P +L   +A  ++  +         R +   
Sbjct  2534  WDKLMRKLPDGWRYCHADGSQFDS--SLTPFLLNAVLAVRLMFMEDWWVGEQMLRNFY--  2589

Query  657   NECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSV  693
                  + + ++   G++  K  G +SG  +T   N++
Sbjct  2590  --TEIIYTPILTPDGTIVKKFKGNNSGQPSTVVDNTL  2624


>sp|A0AUJ5|POLG_BVY3 Genome polyprotein OS=Blackberry virus Y 
(isolate Blackberry plant/USA:Arkansas/C3ARK/2005) OX=686949 
PE=3 SV=1
Length=3491

 Score = 52.7 bits (125),  Expect = 2e-05, Method: Composition-based stats.
 Identities = 65/389 (17%), Positives = 126/389 (32%), Gaps = 41/389 (11%)

Query  401   LTNNVAFQTVKPGNFN---------KDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAIS  451
             L  N+ +Q   P  FN         + F  +    G  +      L H +   + N    
Sbjct  2617  LPVNIKYQCDMPTFFNTRHTYEGESQPFMAYLRECGDAETFFRPLLSH-YIPSNLNGDAF  2675

Query  452   DYDYYRYNLPT----MCDIRQLLFVVEVVDKYFDC-YDGGCINAN---QVIVNNLDKSAG  503
               D+++Y  P     +      +    V+ ++    Y+   I      + I ++L+K A 
Sbjct  2676  KKDFFKYGKPVPVGLVHGPSFKIASDRVIKRFERVGYERHSIPFEFDAEAIRDDLNKHAA  2735

Query  504   FPFNKWGKARLYYDSMSYEDQ-DALFAYTKR--NVIPTITQMNLKYAISAK-----NRAR  555
                   GK   + D +S E   D   A   R  N    + + +LK  + +K     N+ R
Sbjct  2736  MGAQYVGKKEQHLDGISEEQFCDEFVASCCRLANNCDGVWKGSLKAELRSKEKVQENKTR  2795

Query  556   TVAGVSICSTMTNRQFHQKLLKSI-AATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHL  614
                       +  +       K   A        +G +K   GWH +LK++    E    
Sbjct  2796  VFTSAPYDVLLGGKACVMHFNKKFYANNTKGPWTVGINKLGLGWHRLLKSLP---EGFVY  2852

Query  615   MGWDYPKCDRA-MPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSL  673
                D  + D +  P ++  +  + +          +            ++S   M  GS+
Sbjct  2853  GTGDGSQFDSSLTPLLINEVCRIRMYFMQDDELGQAMLRGLYRQIIWTLIS---MPDGSV  2909

Query  674   YVKPGGTSSGDATTAYANSVFNIC-QAVTANVNALLSTDGNKIADKYVRNLQHRLYECLY  732
               K  G  SG  +T   N++  +           +   + + I   Y         + L 
Sbjct  2910  VRKAKGNPSGQPSTVDDNTIMVMLAVEYVFAYLGITQEEMDTIFKYYANG------DDLI  2963

Query  733   RNRDVDTDFVNEFYAYLRKHFSMMILSDD  761
                  D + +   + +L  H  +  + +D
Sbjct  2964  FAIHPDRESILNEFTHLFAHLGLNYIFED  2992


>sp|Q9JH69|NS1AB_TASV1 Non-structural polyprotein 1AB OS=Turkey 
astrovirus 1 OX=364370 GN=ORF1 PE=3 SV=3
Length=1611

 Score = 50.8 bits (120),  Expect = 6e-05, Method: Composition-based stats.
 Identities = 53/264 (20%), Positives = 101/264 (38%), Gaps = 22/264 (8%)

Query  495   VNNLDKSAGFP-FNKWGKARLYYDSMSYEDQDALFAYTKRNV---IPTITQMNLKYAISA  550
               NLD + G+P F  +   R Y  +  +++   ++    R        +    LK A   
Sbjct  1232  EKNLDSTPGYPKFKVFSTEREYLSTCGWDEYKTVWQVGPREKPLWWCFLKTEVLKLAKIE  1291

Query  551   KNRARTVAGVSICSTMTNRQF--HQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSD  608
             ++  R +       T     F  HQ  L  +  T      +G S F+GG H     +Y  
Sbjct  1292  QDDIRMILCTDPVFTRIGAAFEQHQNSLMKL-ETENHHAQVGWSPFFGGIHRRATRLYG-  1349

Query  609   VENPHLMGWDYPKCDRAMP-NMLRIMASL---VLARKHTTCCSLSHRFYRLANECAQVLS  664
              E+ + +  D+ + D  +P  + R +  +   +L  K+ T  +     + + N   +V  
Sbjct  1350  -EHRYYVELDWTRFDGTIPPELFRRIKLMRFFLLDPKYKTPENRDRYNWYVENLIDKV--  1406

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ  724
              +++  G +    GG  SG  +T   N+  N+   V   +  L   + N++    +  ++
Sbjct  1407  -VLLPTGEVCKIYGGNPSGQFSTTVDNNFVNVWLTVF-ELAYLFYKEHNRLP--TICEIK  1462

Query  725   HRLYECLY---RNRDVDTDFVNEF  745
                    Y   R   VD  F+N +
Sbjct  1463  KHTDWICYGDDRLLAVDKRFINSY  1486


>sp|P17766|POLG_PPVNA Genome polyprotein OS=Plum pox potyvirus 
(isolate NAT) OX=12213 PE=3 SV=1
Length=3125

 Score = 49.3 bits (116),  Expect = 2e-04, Method: Composition-based stats.
 Identities = 54/305 (18%), Positives = 107/305 (35%), Gaps = 38/305 (12%)

Query  494   IVNNLDKSAGFPFNKWGKARLYYDSMSYEDQD--------ALFAYTKRNVIPTITQMNLK  545
             I + L+  A       GK R Y++++S +D++         LF   K+ V       +LK
Sbjct  2410  IFSALNMKAAVGALYSGKKRDYFENVSDQDKESFVRASCKRLF-MGKKGVW----NGSLK  2464

Query  546   YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATR------GATVVIGTSKFYGGWH  599
               +  K +       S  +   +     K+       +           +G +KF GGW 
Sbjct  2465  AELRPKEKVEANKTRSFTAAPIDTLLGGKVCVDDFNNQFYSLNLHCPWSVGMTKFRGGWD  2524

Query  600   NMLKTVYSDVENPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLANE  658
              +LK +    E       D  + D ++ P ++  + ++ LA               L+N 
Sbjct  2525  KLLKALP---EGWIYCDADGSQFDSSLSPYLINAVLNIRLAFMEE----WDIGEQMLSNL  2577

Query  659   CAQVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIAD  717
               +++   +    G++  K  G +SG  +T   N++  I     + +      D +    
Sbjct  2578  YTEIVYTPIATPDGTIVKKFKGNNSGQPSTVVDNTLMVILAMTYSLLKLGHHPDTHDCIC  2637

Query  718   KYVRN------LQHRLYECLYRNRDVDTDFVNEFYAYLRK---HFSMMILSDDAVVCFNS  768
             +Y  N        H  YE +Y         +   Y +  K      +  +S   V+ ++ 
Sbjct  2638  RYFVNGDDLVLAVHPAYESIYDELQEHFSQLGLNYTFTTKTENKEELWFMSHKGVL-YDD  2696

Query  769   TYASQ  773
              Y  +
Sbjct  2697  MYIPK  2701


>sp|Q01681|POLG_PPVEA Genome polyprotein (Fragment) OS=Plum pox 
potyvirus (strain El amar) OX=31738 PE=2 SV=1
Length=1518

 Score = 48.5 bits (114),  Expect = 3e-04, Method: Composition-based stats.
 Identities = 48/298 (16%), Positives = 100/298 (34%), Gaps = 35/298 (12%)

Query  492   QVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFA-------YTKRNVIPTITQMNL  544
             + I + L+  A       GK R Y+   S  +++             K+ V       +L
Sbjct  784   EEIFSALNMKAAVGALYSGKKRDYFKDTSELEKEEFVRASCKRLFMGKKGVW----NGSL  839

Query  545   KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATR------GATVVIGTSKFYGGW  598
             K  +  K +       S  +   +     K+       +           +G +KF GGW
Sbjct  840   KAELRPKEKVEANKTRSFTAAPIDTLLGGKVCVDDFNNQFYSLNLHCPWSVGMTKFRGGW  899

Query  599   HNMLKTVYSDVENPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLAN  657
               +L+ +    +       D  + D ++ P ++  + ++ LA               L+N
Sbjct  900   DKLLRALP---DGWIYCDADGSQFDSSLSPYLINAVLNIRLAFMEE----WDIGEQMLSN  952

Query  658   ECAQVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIA  716
                +++   +    G++  K  G +SG  +T   N++  I     + +      D ++  
Sbjct  953   LYTEIVYTPIATPDGTIVKKFKGNNSGQPSTVVDNTLMVILAMTYSLLKLGYHPDTHECI  1012

Query  717   DKYVRN------LQHRLYECLYRNRDVDTDFVNEFYAYLRK---HFSMMILSDDAVVC  765
              +Y  N        H  YE +Y         +   Y +  K      +  +S   ++C
Sbjct  1013  CRYFVNGDDLVLAVHPAYESIYDELQHHFSQLGLNYTFTTKTENKEDLWFMSHKGIMC  1070


>sp|P13529|POLG_PPVD Genome polyprotein OS=Plum pox potyvirus 
(strain D) OX=12212 PE=1 SV=2
Length=3141

 Score = 48.5 bits (114),  Expect = 3e-04, Method: Composition-based stats.
 Identities = 53/305 (17%), Positives = 106/305 (35%), Gaps = 38/305 (12%)

Query  494   IVNNLDKSAGFPFNKWGKARLYYDSMSYEDQD--------ALFAYTKRNVIPTITQMNLK  545
             I + L+  A       GK R Y+ ++S +D++         LF   K+ V       +LK
Sbjct  2411  IFSALNMKAAVGALYSGKKRDYFKNVSDQDKESFVRASCKRLF-MGKKGVW----NGSLK  2465

Query  546   YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATR------GATVVIGTSKFYGGWH  599
               +  K +       S  +   +     K+       +           +G +KF GGW 
Sbjct  2466  AELRPKEKVEANKTRSFTAAPIDTLLGGKVCVDDFNNQFYSLNLHCPWSVGMTKFRGGWD  2525

Query  600   NMLKTVYSDVENPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLANE  658
              +L+ +    E       D  + D ++ P ++  + ++ LA               L+N 
Sbjct  2526  KLLRALP---EGWIYCDADGSQFDSSLSPYLINAVLNIRLAFMEE----WDIGEQMLSNL  2578

Query  659   CAQVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIAD  717
               +++   +    G++  K  G +SG  +T   N++  I     + +      D +    
Sbjct  2579  YTEIVYTPIATPDGTIVKKFKGNNSGQPSTVVDNTLMVILAMTYSLLKLGYHPDTHDCIC  2638

Query  718   KYVRN------LQHRLYECLYRNRDVDTDFVNEFYAYLRK---HFSMMILSDDAVVCFNS  768
             +Y  N        H  YE +Y         +   Y +  K      +  +S   V+ ++ 
Sbjct  2639  RYFVNGDDLVLAVHPAYESIYDELQEHFSQLGLNYTFATKTENKEELWFMSHKGVL-YDD  2697

Query  769   TYASQ  773
              Y  +
Sbjct  2698  MYIPK  2702


>sp|P17765|POLG_BYMV Genome polyprotein OS=Bean yellow mosaic 
virus OX=12197 PE=3 SV=2
Length=3056

 Score = 48.5 bits (114),  Expect = 3e-04, Method: Composition-based stats.
 Identities = 46/268 (17%), Positives = 90/268 (34%), Gaps = 26/268 (10%)

Query  454   DYYRYNLP---TMCDIRQLLFVVEVVDKYFDCYD-GGC--INANQVIVNNLDKSAGFPFN  507
             D  +Y  P    + D R      E V    +      C  +     I++ L+  A     
Sbjct  2337  DLMKYATPIEVGLVDTRCFERSFEKVQNMLELKGFSKCNYVTYGPDILSALNMKAAMGAL  2396

Query  508   KWGKARLYYDSMSYEDQDALFAYT-------KRNVIPTITQMNLKYAISA-KNRARTVAG  559
               GK + ++  +S E  D +   +       +  V     +  L+       N+ R+   
Sbjct  2397  YSGKKKDHFSEISEEKFDNILQASCERLYSGRMGVWNGSLKAELRPQEKVLANKTRSFTA  2456

Query  560   VSICSTMTNRQFHQKLLKSIAATR-GATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWD  618
               I + +  +           +        +G +KFYGGW  +L ++          GW 
Sbjct  2457  APIDTLLAGKVCVDDFNNKFYSLHLKIPSTVGITKFYGGWDRLLDSLPD--------GWV  2508

Query  619   YPKCDRAM--PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMC-GGSLYV  675
             Y   D +    ++   + + VL  +             L N   +++   ++   G++  
Sbjct  2509  YCDADGSQFDSSLTPYLLNAVLEMRLRLMEEWDLGEQMLKNLYTEIVYTPILTPDGTIVK  2568

Query  676   KPGGTSSGDATTAYANSVFNICQAVTAN  703
             K  G +SG  +T   N++  I     A 
Sbjct  2569  KFKGNNSGQPSTVVDNTLMVIMAVYYAA  2596


>sp|P17767|POLG_PPVRA Genome polyprotein OS=Plum pox potyvirus 
(strain Rankovic) OX=12214 PE=2 SV=2
Length=3140

 Score = 48.5 bits (114),  Expect = 4e-04, Method: Composition-based stats.
 Identities = 53/305 (17%), Positives = 106/305 (35%), Gaps = 38/305 (12%)

Query  494   IVNNLDKSAGFPFNKWGKARLYYDSMSYEDQD--------ALFAYTKRNVIPTITQMNLK  545
             I + L+  A       GK R Y+ ++S +D++         LF   K+ V       +LK
Sbjct  2410  IFSALNMKAAVGALYSGKKRDYFKNVSDQDKESFVRASCKRLF-MGKKGVW----NGSLK  2464

Query  546   YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATR------GATVVIGTSKFYGGWH  599
               +  K +       S  +   +     K+       +           +G +KF GGW 
Sbjct  2465  AELRPKEKVEANKTRSFTAAPIDTLLGGKVCVDDFNNQFYSLNLHCPWSVGMTKFRGGWD  2524

Query  600   NMLKTVYSDVENPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLANE  658
              +L+ +    E       D  + D ++ P ++  + ++ LA               L+N 
Sbjct  2525  KLLRALP---EGWIYCDADGSQFDSSLSPYLINAVLNIRLAFMEE----WDIGEQMLSNL  2577

Query  659   CAQVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIAD  717
               +++   +    G++  K  G +SG  +T   N++  I     + +      D +    
Sbjct  2578  YTEIVYTPIATPDGTIVKKFKGNNSGQPSTVVDNTLMVILAMTYSLLKLGYHPDTHDCIC  2637

Query  718   KYVRN------LQHRLYECLYRNRDVDTDFVNEFYAYLRK---HFSMMILSDDAVVCFNS  768
             +Y  N        H  YE +Y         +   Y +  K      +  +S   V+ ++ 
Sbjct  2638  RYFVNGDDLVLAVHPAYESIYDELQEHFSQLGLNYTFATKTENKEELWFMSHKGVL-YDD  2696

Query  769   TYASQ  773
              Y  +
Sbjct  2697  MYIPK  2701


>sp|P09814|POLG_TVMV Genome polyprotein OS=Tobacco vein mottling 
virus OX=12228 PE=1 SV=2
Length=3023

 Score = 48.5 bits (114),  Expect = 4e-04, Method: Composition-based stats.
 Identities = 49/249 (20%), Positives = 89/249 (36%), Gaps = 34/249 (14%)

Query  488   INANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYT-------KRNVIPTIT  540
             +   Q I N L+  A       GK + Y++ +S +    L   +       K  V     
Sbjct  2354  VTDEQTIKNALNMDAAVGALYSGKKKQYFEDLSDDAVANLVQKSCLRLFKNKLGVWNGSL  2413

Query  541   QMNLK---YAISAKNRA------RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGT  591
             +  L+     I  K R        T+ G  +C    N  F+ K ++           +G 
Sbjct  2414  KAELRPFEKLIENKTRTFTAAPIETLLGGKVCVDDFNNHFYSKHIQ-------CPWSVGM  2466

Query  592   SKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSH  650
             +KFYGGW+ +L  +    +       D  + D ++ P ++  +  L L+           
Sbjct  2467  TKFYGGWNELLGKLP---DGWVYCDADGSQFDSSLSPYLINAVLRLRLSSMEE----WDV  2519

Query  651   RFYRLANECAQVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLS  709
                 L N   +++   +    G++  K  G +SG  +T   N++  +     A   + L 
Sbjct  2520  GQKMLQNLYTEIVYTPISTPDGTIVKKFKGNNSGQPSTVVDNTLMVVLAMYYA--LSKLG  2577

Query  710   TDGNKIADK  718
              D N   D 
Sbjct  2578  VDINSQEDV  2586


>sp|Q84934|POLG_PPVSK Genome polyprotein OS=Plum pox potyvirus 
(strain SK 68) OX=103927 PE=3 SV=1
Length=3140

 Score = 48.1 bits (113),  Expect = 5e-04, Method: Composition-based stats.
 Identities = 48/281 (17%), Positives = 97/281 (35%), Gaps = 34/281 (12%)

Query  494   IVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFA-------YTKRNVIPTITQMNLKY  546
             I + L+  A       GK R Y+ + S +D++             K+ V       +LK 
Sbjct  2410  IFSALNMKAAVGALYSGKKRDYFKNASEQDKEDFIKASCKRLFMGKKGVW----NGSLKA  2465

Query  547   AISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATR------GATVVIGTSKFYGGWHN  600
              +  K +       S  +   +     K+       +           +G +KF GGW  
Sbjct  2466  ELRPKEKVEANKTRSFTAAPIDTLLGGKVCVDDFNNQFYSLNLHCPWSVGMTKFRGGWDK  2525

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLANEC  659
             +L+ +    +       D  + D ++ P ++  + ++ LA               L+N  
Sbjct  2526  LLRALP---DGWIYCDADGSQFDSSLSPYLINAVLNIRLAFMEE----WDIGEQMLSNLY  2578

Query  660   AQVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADK  718
              +++   +    G++  K  G +SG  +T   N++  I     A   +LL    +    +
Sbjct  2579  TEIVYTPIATPDGTIVKKFKGNNSGQPSTVVDNTLMVIL----AMTYSLLKLGYHPDTHE  2634

Query  719   YVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILS  759
              +     R +                 Y  L++HFS + L+
Sbjct  2635  CIC----RYFVNGDDLVLAVHPAYESMYDELQEHFSQLGLN  2671


>sp|P20234|POLG_OMV Genome polyprotein (Fragment) OS=Ornithogalum 
mosaic virus OX=12204 PE=3 SV=1
Length=1136

 Score = 47.3 bits (111),  Expect = 8e-04, Method: Composition-based stats.
 Identities = 51/266 (19%), Positives = 92/266 (35%), Gaps = 42/266 (16%)

Query  454  DYYRYNLPTMC----DIRQLLFVVEVVDKYFDCYDGGC--INANQVIVNNLDKSAGFPFN  507
            D  +Y+ P +      I+       V+  + D     C  +  +  +  NL+  A     
Sbjct  437  DIMKYSKPIVLGEVDFIKFEEGYNNVLRMFHDIGFEKCEYVTDSMEVYKNLNLKAAVGAM  496

Query  508  KWGKARLYYDSMSYEDQDALFAYT-------KRNVIPTITQMNL----KYAISAKNRA--  554
              GK + Y++ MS ++   L   +       K  V     +  L    K     K R   
Sbjct  497  YTGKKQQYFEGMSEDEIHQLVIASCFRLWSGKFGVWNGSLKAELRPLEKVQAC-KTRTFT  555

Query  555  ----RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVE  610
                 T+ G  +C    N QF+ K L        A   +G  K+Y GW   +  +     
Sbjct  556  AAPLDTLLGAKVCVDDFNAQFYDKHLT-------APWTVGICKYYKGWDTFMNKLPE---  605

Query  611  NPHLMGWDYPKCDRAM--PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVM  668
                 GW Y   D +    ++   + + VL  +             L+N   +++   + 
Sbjct  606  -----GWLYCDADGSQFDSSLTPFLINSVLRLRLEFMEDWDIGARMLSNLYTEIIYTPIA  660

Query  669  C-GGSLYVKPGGTSSGDATTAYANSV  693
               G++  K  G +SG  +T   N++
Sbjct  661  TPDGTVVKKFRGNNSGQPSTVVDNTL  686


>sp|Q65399|POLG_BCMNN Genome polyprotein OS=Bean common mosaic 
necrosis virus (strain NL-3) OX=500578 PE=2 SV=1
Length=3066

 Score = 47.0 bits (110),  Expect = 0.001, Method: Composition-based stats.
 Identities = 51/275 (19%), Positives = 99/275 (36%), Gaps = 36/275 (13%)

Query  454   DYYRYNLPTMCDIRQLLFVVEVVD--KYFDCYDG--GCINANQV--IVNNLDKSAGFPFN  507
             D+++YN P M +        + V+  K      G   C+       I ++L+  A     
Sbjct  2360  DFFKYNKPVMLNEVNFEAFEKAVEGVKIMMIEFGFNECVYVTDPDDIYDSLNMKAAVGAQ  2419

Query  508   KWGKARLYYDSMSYEDQDAL----FA---YTKRNVIPTITQMNLK---YAISAKNRA---  554
               GK + Y+  M   D++ L         Y ++ +     +  L+      + K R    
Sbjct  2420  YKGKKQDYFQDMDSFDKERLLFLSCERLFYGQKGIWNGSLKAELRPLEKVQANKTRTFTA  2479

Query  555   ---RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVEN  611
                 T+ G  +C    N QF+   L            +G +KFYGGW  +++ +      
Sbjct  2480  APIDTLLGAKVCVDDFNNQFYSFNLI-------CPWTVGMTKFYGGWDKLMRALPDGWVY  2532

Query  612   PHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMC-G  670
              H  G  +       P +L  + S+                  L N  A+++   ++   
Sbjct  2533  CHADGSQFDS--SLTPLLLNSVLSIRSFFMEDWWVGKE----MLENLYAEIVYTPILTPD  2586

Query  671   GSLYVKPGGTSSGDATTAYANSVFNICQAVTANVN  705
             G+++ K  G +SG  +T   N++  +     + + 
Sbjct  2587  GTIFKKFRGNNSGQPSTVVDNTLMVVISMYYSCIK  2621


>sp|P29152|POLG_PSBMV Genome polyprotein OS=Pea seed-borne mosaic 
virus (strain DPD1) OX=31736 PE=1 SV=1
Length=3206

 Score = 46.6 bits (109),  Expect = 0.002, Method: Composition-based stats.
 Identities = 58/291 (20%), Positives = 103/291 (35%), Gaps = 42/291 (14%)

Query  488   INANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYT-------KRNVIPTIT  540
             +   + I  +L+ +A       GK + Y++  +  D++ +   +       K+ V     
Sbjct  2507  VTDAEAIFQSLNMNAAVGAMYQGKKKDYFEDFTAADRELIVKQSCERLFLGKKGVWNGSL  2566

Query  541   QMNLK---YAISAKNRA------RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGT  591
             +  L+        K R        T+ G  +C    N  F+   L+           +G 
Sbjct  2567  KAELRPIEKVHENKTRTFTAAPLDTLLGGKVCVDDFNNFFYSCHLRG-------PWTVGI  2619

Query  592   SKFYGGWHNMLKTVYSDVENPHLMGWDYPKCD--RAMPNMLRIMASLVLARKHTTCCSLS  649
             +KFY GW+  L  +          GW Y   D  R   ++   + + VL  +        
Sbjct  2620  TKFYAGWNEFLSKLPD--------GWLYCDADGSRFDSSLTPYLINAVLELRLRFMEEWD  2671

Query  650   HRFYRLANECAQVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALL  708
                  L N   +++   +    GS+  K  G +SG  +T   N++  I     +    LL
Sbjct  2672  AGEQMLKNLYTEIIYTPIATPDGSVIKKTKGNNSGQPSTVVDNTLMVILAMQYS--LQLL  2729

Query  709   STDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILS  759
               D     D+ VR   +   + L      D +FV      L  HFS + L+
Sbjct  2730  GVDFET-QDEVVRYFANG--DDLLIAVRPDCEFV---LKGLEIHFSNLGLN  2774


>sp|Q01500|POLG_PEMVC Genome polyprotein OS=Pepper mottle virus 
(isolate California) OX=31737 PE=1 SV=1
Length=3068

 Score = 46.2 bits (108),  Expect = 0.002, Method: Composition-based stats.
 Identities = 40/219 (18%), Positives = 80/219 (37%), Gaps = 22/219 (10%)

Query  488   INANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYT-------KRNVIPTIT  540
             I   + I   L+ +        GK + Y++  + ED+  +   +       K  V     
Sbjct  2388  ITDEEEIFKALNITTAVGAMYGGKKKEYFEKFTTEDKAEILRQSCLRLYTGKLGVWEWAL  2447

Query  541   QMNLK-YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVV--IGTSKFYGG  597
             +  L+       N+ RT     I + +  +     L      ++       +G +KFYGG
Sbjct  2448  KAELRSKEKIEANKTRTFTAAPIDTLLGGKVCVDDLNNQFY-SKNIECCWTVGMTKFYGG  2506

Query  598   WHNMLKTVYSDVENPHLMGWDYPKCDRAM--PNMLRIMASLVLARKHTTCCSLSHRFYRL  655
             W  +L  + +        GW Y   D +    ++   + + VL  ++         +  L
Sbjct  2507  WDKLLTALPA--------GWIYCDADGSQFDSSLTPYLINAVLTIRYAFMEDWDIGYKML  2558

Query  656   ANECAQVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSV  693
              N   +++   +    G++  K  G +SG  +T   NS+
Sbjct  2559  QNLYTEIIYTPISTPDGTIVKKFRGNNSGQPSTVVDNSL  2597


>sp|Q65729|POLG_BSTVG Genome polyprotein (Fragment) OS=Brome streak 
virus (strain German) OX=117139 PE=2 SV=1
Length=942

 Score = 45.8 bits (107),  Expect = 0.002, Method: Composition-based stats.
 Identities = 52/288 (18%), Positives = 106/288 (37%), Gaps = 37/288 (13%)

Query  494  IVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTK-------RNVIPTITQMNLKY  546
            I N+L+  A       GK + Y+   + E+ + +F  +          V   + +  L+ 
Sbjct  225  IFNDLNLDAAMGALYAGKKKDYFVEATDEEIEEMFLRSAGKICANGHGVWSALLKAELRP  284

Query  547  A-ISAKNRART--------VAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGG  597
            A   A N+ RT        + G        N+QF+++ L            +G +KF  G
Sbjct  285  AEKVAANKTRTFTSAPIDILFGAKAVVDDFNKQFYKRHLLG-------PWTVGINKFNKG  337

Query  598  WHNMLKTVYSDVENPHLMGWDYPKCDRA-MPNMLRIMASLVLARKHTTCCSLSHRFYRLA  656
            W  + +++         +  D  + D +  P ++  + ++ L        +       L 
Sbjct  338  WDLLARSLMR---YEWFIDADGSQFDSSITPLLMNAVLTIRLYFMERDDITE----LMLR  390

Query  657  NECAQVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKI  715
            N   Q++S  ++   G +  K  G +SG  +T   N++  +  A+       +S     +
Sbjct  391  NLYTQIISTCMLAEDGLIVQKHRGNNSGQPSTVVDNTL-CLMIAMEYARQRAISDGHLNM  449

Query  716  ADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAV  763
              +YV N    L       ++V  +   ++   L  ++      DDA 
Sbjct  450  QMRYVCNGDDLLINANEEAKEVVQNKYEQYIKELELNYCF----DDAF  493


>sp|Q8JV21|POLG_LJUV1 Genome polyprotein OS=Ljunganvirus 1 OX=1001061 
PE=1 SV=1
Length=2253

 Score = 46.2 bits (108),  Expect = 0.002, Method: Composition-based stats.
 Identities = 35/175 (20%), Positives = 60/175 (34%), Gaps = 15/175 (9%)

Query  545   KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAAT--RGATVVIGTSKFYGGWHNML  602
             K    A+ + R +   SI   +  R     L ++I  T  +   + +G +  +  W  M+
Sbjct  1955  KKEKIAQGKTRCIEACSIDYVIAYRVVMSSLYEAIYQTPAQELGLAVGMNP-WTDWDPMI  2013

Query  603   KTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQV  662
                  +V  P+  G DY   D ++   L      +LA  H    ++      + N    V
Sbjct  2014  -----NVLQPYNYGLDYSSYDGSLSEQLMRYGVEILAYCHEQPEAVMILHEPVINSQHLV  2068

Query  663   LSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIAD  717
             + E+           GG  SG   T   NS+ N+           L  +   I  
Sbjct  2069  MDEIWHVN-------GGMPSGAPCTTVLNSICNLLVCTYLAYEQSLDIEVLPIVY  2116


>sp|Q6XW15|POLG_BTMV Genome polyprotein OS=Beet mosaic virus OX=114921 
PE=3 SV=1
Length=3085

 Score = 45.8 bits (107),  Expect = 0.002, Method: Composition-based stats.
 Identities = 54/314 (17%), Positives = 116/314 (37%), Gaps = 27/314 (9%)

Query  454   DYYRYNLP-TMCDIRQLLF---VVEVVDKYFDCYDGGCINANQV--IVNNLDKSAGFPFN  507
             D+ +Y  P T+  +    F   V  V++   D   G C        I ++L+  A     
Sbjct  2365  DFLKYAGPITVGVVNTNSFEDAVASVINMLEDLDYGECAYVTDPDSIFDSLNMKAAVGAL  2424

Query  508   KWGKARLYYDSMSYEDQDALFAYT-------KRNVIPTITQMNLK-YAISAKNRARTVAG  559
               GK + Y++ ++  +++ L   +       K  V     +  L+      +N+ RT   
Sbjct  2425  YKGKKKEYFEQLNTTEREDLLRLSCERLYEGKMGVWNGSLKAELRPKEKLEQNKTRTFTA  2484

Query  560   VSICSTMTNRQFHQKLLKSIAA-TRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWD  618
               I + +  +           +        +G +KFYGGW+ +L+ +          GW 
Sbjct  2485  APIDTLLGGKVCVDDFNNRFYSLNLKGPWSVGMTKFYGGWNELLQKLPD--------GWI  2536

Query  619   YPKCDRAM--PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMC-GGSLYV  675
             Y   D +    ++   + + V+  +             L N   +++   ++   G++  
Sbjct  2537  YCDADGSQFDSSLTPYLINAVVQIREHFMEDWEIGRTMLRNFYTEIVYTPILTPDGTIVK  2596

Query  676   KPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNR  735
             K  G +SG  +T   N++  I     A        +  K   ++  N    L   +Y ++
Sbjct  2597  KFKGNNSGQPSTVVDNTLMVILAMHYAMHQQCWKEEEMKEKIRFFANGD-DLLIAIYPSK  2655

Query  736   DVDTDFVNEFYAYL  749
             +   + ++E++  L
Sbjct  2656  EKFLNVLSEYFHEL  2669


>sp|Q02963|POLG_PVYHU Genome polyprotein OS=Potato virus Y (strain 
Hungarian) OX=31739 PE=3 SV=1
Length=3061

 Score = 45.8 bits (107),  Expect = 0.002, Method: Composition-based stats.
 Identities = 48/276 (17%), Positives = 96/276 (35%), Gaps = 26/276 (9%)

Query  454   DYYRYNLP---TMCDIRQLLFVVEVVDKYFDCY---DGGCINANQVIVNNLDKSAGFPFN  507
             D  +Y+ P    + D       +  V  Y   +       I   Q I   L+  A     
Sbjct  2347  DIMKYSKPIDVGIVDCDAFEEAINRVIIYLQVHGFQKCNYITDEQEIFKALNMKAAVGAM  2406

Query  508   KWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQM---NLKYAISAK-----NRARTVAG  559
               GK + Y++  +  D++ +   +   +      +   +LK  +  K     N+ RT   
Sbjct  2407  YGGKKKDYFEHFTEADKEEIVMQSCPRLYKGSLGIWNGSLKAELRCKEKILANKTRTFTA  2466

Query  560   VSICSTMTNRQFHQKLLKSIAATRGATVV--IGTSKFYGGWHNMLKTVYSDVENPHLMGW  617
               + + +  +            ++       +G +KFYGGW  +L+ +    EN      
Sbjct  2467  APLDTLLGGKVCVDDFNNQFY-SKNIECCWTVGMTKFYGGWDRLLRRLP---ENWVYCDA  2522

Query  618   DYPKCDRA-MPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMC-GGSLYV  675
             D  + D +  P ++      VL  + T           L N   +++   +    G++  
Sbjct  2523  DGSQFDSSLTPYLINA----VLIIRSTYMEDWDLGLQMLRNLYTEIIYTPISTPDGTIVK  2578

Query  676   KPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
             K  G +SG  +T   NS+  +     A +   +  +
Sbjct  2579  KFRGNNSGQPSTVVDNSLMVVLAMHYALIKECVEFE  2614


>sp|Q65730|POLG_BSTV1 Genome polyprotein OS=Brome streak virus 
(strain 11-Cal) OX=117138 PE=3 SV=1
Length=3093

 Score = 45.8 bits (107),  Expect = 0.003, Method: Composition-based stats.
 Identities = 53/288 (18%), Positives = 105/288 (36%), Gaps = 37/288 (13%)

Query  494   IVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTK-------RNVIPTITQMNLKY  546
             I N+L+  A       GK + Y+   + E+ + +F  +          V   + +  L+ 
Sbjct  2392  IFNDLNLDAAMGALYAGKKKDYFVEATDEEIEEMFLRSAGKICANGHGVWSALLKAELRP  2451

Query  547   A-ISAKNRART--------VAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGG  597
             A   A N+ RT        + G        N+QF+++ L            +G +KF  G
Sbjct  2452  AEKVAANKTRTFTSAPIDILFGAKAVVDDFNKQFYKRHLLG-------PWTVGINKFNKG  2504

Query  598   WHNMLKTVYSDVENPHLMGWDYPKCDRA-MPNMLRIMASLVLARKHTTCCSLSHRFYRLA  656
             W  + +++         +  D  + D +  P ++  + ++ L        +       L 
Sbjct  2505  WDLLARSLMR---YEWFIDADGSQFDSSITPLLMNAVLTIRLYFMERDDITE----LMLR  2557

Query  657   NECAQVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKI  715
             N   Q++S  ++   G +  K  G +SG  +T   N++  +  A+       +S     +
Sbjct  2558  NLYTQIISTCMLAEDGLIVQKHRGNNSGQPSTVVDNTL-CLMIAMEYARQRAISDGHLNM  2616

Query  716   ADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAV  763
               +YV N    L       +DV      ++   L  ++      DDA 
Sbjct  2617  QMRYVCNGDDLLINANEEAKDVVQGKYEQYIKELELNYCF----DDAF  2660


>sp|Q90069|POLG_SBMVG Genome polyprotein OS=Soybean mosaic virus 
(strain G2) OX=103931 PE=3 SV=1
Length=3066

 Score = 45.0 bits (105),  Expect = 0.004, Method: Composition-based stats.
 Identities = 48/283 (17%), Positives = 99/283 (35%), Gaps = 36/283 (13%)

Query  436   ELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYF-----DCYDGGCINA  490
               K  FF  +    +++ D+  +       ++ ++   +  +  +     + YD   + A
Sbjct  2352  AFKRGFFKYNKPVVLNEVDFQSFERAVAG-VKLMMMEFDFKECVYVTDPDEIYDSLNMKA  2410

Query  491   NQVIVNNLDKSAGF-PFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLK---Y  546
                      K   F   + + K RL Y S      + LF Y ++ V     +  L+    
Sbjct  2411  AVGAQYKGKKQDYFSGMDSFDKERLLYLSC-----ERLF-YGEKGVWNGSLKAELRPIEK  2464

Query  547   AISAKNRA------RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHN  600
               + K R        T+ G  +C    N QF+   L            +G +KFY GW  
Sbjct  2465  VQANKTRTFTAAPIDTLLGAKVCVDDFNNQFYSLNLT-------CPWTVGMTKFYRGWDK  2517

Query  601   MLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECA  660
             +++++       H  G  +       P +L  +  +                  L N  A
Sbjct  2518  LMRSLPDGWVYCHADGSQFDS--SLTPLLLNAVLDVRSFFMEDWWVGRE----MLENLYA  2571

Query  661   QVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSVFNICQAVTA  702
             +++   ++   G+++ K  G +SG  +T   N++  +     +
Sbjct  2572  EIVYTPILAPDGTIFKKFRGNNSGQPSTVVDNTLMVVIALYYS  2614


>sp|P21231|POLG_SBMVN Genome polyprotein OS=Soybean mosaic virus 
(strain N) OX=12223 PE=1 SV=2
Length=3066

 Score = 44.6 bits (104),  Expect = 0.005, Method: Composition-based stats.
 Identities = 49/273 (18%), Positives = 98/273 (36%), Gaps = 38/273 (14%)

Query  454   DYYRYNLPT-------MCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPF  506
             D+++YN P            R +  V +++   FD  +   +     I ++L+  A    
Sbjct  2356  DFFKYNKPVVLNEVDFQSFERAVAGV-KLMMMEFDFKECVYVTDPDEIYDSLNMKAAVGA  2414

Query  507   NKWGKARLYYDSMSYEDQDALFA-------YTKRNVIPTITQMNLK---YAISAKNRA--  554
                GK + Y+  M   D++ L         Y ++ V     +  L+      + K R   
Sbjct  2415  QYKGKKQDYFSGMDSFDKERLLYLSCERLFYGEKGVWNGSLKAELRPIEKVQANKTRTFT  2474

Query  555   ----RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVE  610
                  T+ G  +C    N QF+   L            +G +KFY GW  +++++     
Sbjct  2475  AAPIDTLLGAKVCVDDFNNQFYSLNLT-------CPWTVGMTKFYRGWDKLMRSLPDGWV  2527

Query  611   NPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMC-  669
               H  G  +       P +L  +  +                  L N  A+++   ++  
Sbjct  2528  YCHADGSQFDS--SLTPLLLNAVLDVRSFFMEDWWVGRE----MLENLYAEIVYTPILAP  2581

Query  670   GGSLYVKPGGTSSGDATTAYANSVFNICQAVTA  702
              G+++ K  G +SG  +T   N++  +     +
Sbjct  2582  DGTIFKKFRGNNSGQPSTVVDNTLMVVIAMYYS  2614


>sp|P89876|POLG_LMVE Genome polyprotein OS=Lettuce mosaic virus 
(strain E) OX=117131 PE=3 SV=1
Length=3255

 Score = 44.3 bits (103),  Expect = 0.007, Method: Composition-based stats.
 Identities = 66/413 (16%), Positives = 136/413 (33%), Gaps = 79/413 (19%)

Query  475   VVDKYFDCYDGGC--INANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTK  532
             V+ +       GC  +   + I   L+  A       GK R Y++S   E+++ +   + 
Sbjct  2554  VIKRLEKLGFSGCEYVTDEEAIFQALNMKAAVGALYSGKKRDYFESYGPEEKENILRESC  2613

Query  533   RN-------VIPTITQMNLK---YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSI-AA  581
             +        V     +  L+     ++ K R  T A +     +  +           + 
Sbjct  2614  KRLYTGKFGVWNGSLKSELRPMEKVMANKTRVFTAAPLDTL--LAGKVCVDDFNNYFYSK  2671

Query  582   TRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAM--PNMLRIMASLVLA  639
                A   +G +KFYGGW+ +L  +          GW Y   D +    ++   + + VL 
Sbjct  2672  NIEAPWTVGMTKFYGGWNELLTKLPD--------GWVYCDADGSQFDSSLSPFLINSVLR  2723

Query  640   RKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKP-GGTSSGDATTAYANSVFNICQ  698
              +             L N   +++   ++   S  VK   G +SG  +T   N++     
Sbjct  2724  IRLKFMEDWDLGEQMLKNLYTEIVYTAILTPDSTIVKKFKGNNSGQPSTVVDNTL-----  2778

Query  699   AVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMIL  758
                  V   ++   +K+                         F +E    + K+F   + 
Sbjct  2779  ----MVVLAMTYTLHKL------------------------GFEDEEQDSMCKYF---VN  2807

Query  759   SDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTM  818
              DD ++     Y S      +  F+       + F S    +     T+   E       
Sbjct  2808  GDDLIIAIKPEYESL-----LDQFQ-------HCFKSLGLNYDFNSRTRKREELWFMSHC  2855

Query  819   LVKQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTK  871
              +K+    +++P  +P RI+     ++          +E   +  I+++   K
Sbjct  2856  GIKKDG--IFIPKLEPERIVS---ILEWDRSDQPVHRLEAICAAMIESWGYDK  2903


>sp|P36287|POLG_SMSV4 Genome polyprotein (Fragment) OS=San Miguel 
sea lion virus serotype 4 OX=36407 GN=ORF1 PE=3 SV=2
Length=1214

 Score = 43.9 bits (102),  Expect = 0.008, Method: Composition-based stats.
 Identities = 35/188 (19%), Positives = 72/188 (38%), Gaps = 17/188 (9%)

Query  536   IPTITQMNLKYAISAKNRA-----RTVAGVSICSTMTNRQFHQKLLKSIAATRG-ATVVI  589
             +P    + LK  +  K++      R + G  +  +   R   +++ +SI A      + +
Sbjct  846   LPHEYALGLKDELRPKDKVAVGKRRLIWGCDVGVSTVCRAAFKRVSESIMANHALGFIQV  905

Query  590   GTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLS  649
             G +       ++ K +     + + +  DY K D   P  +   +  +L          +
Sbjct  906   GINMDGPAVEDLFKRLERPKHDRYCV--DYSKWDSTQPPKVTSQSIDILRH-------FT  956

Query  650   HRFYRLANECAQVLSEMVMCGGSLYVK-PGGTSSGDATTAYANSVFNICQAVTANVNALL  708
              +   + + CA + S  +     +  K  GG  SG   T+  NS+ N C  V + V   L
Sbjct  957   DKSPIVDSACATLKSNPIGIFNGVAFKVAGGLPSGMPLTSIINSL-NHCLMVGSAVVKAL  1015

Query  709   STDGNKIA  716
                G +++
Sbjct  1016  EDSGVQVS  1023


>sp|O11436|POLG_RGMVD Genome polyprotein OS=Ryegrass mosaic virus 
(isolate Denmark/Danish) OX=652106 PE=3 SV=1
Length=3086

 Score = 42.7 bits (99),  Expect = 0.021, Method: Composition-based stats.
 Identities = 51/275 (19%), Positives = 101/275 (37%), Gaps = 26/275 (9%)

Query  445   DGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGC-----INANQVIVNNLD  499
             +  A + D   Y   +P + ++    F   V D Y+   D G      I     I ++++
Sbjct  2305  NREAFVKDITKYDTEIP-IGNLSITDFENAVEDTYYILKDSGIEQCNYITDAIPIFDSMN  2363

Query  500   KSAGFPFNKWGKARLYYDSMSYEDQDALFAYT---KRNVIPTITQMNLKYAISAK-----  551
               A       GK + Y+++ + + +  +   +    R     I   +LK  + +K     
Sbjct  2364  MKAATGALYGGKKKDYFENYTDDMKQNILKESYIRLREGKMGIWNGSLKAELRSKEKVEA  2423

Query  552   NRARTVAGVSICSTMTNRQFHQKLLKSI-AATRGATVVIGTSKFYGGWHNMLKTVYSDVE  610
             N+ R      + + +  +           AA       +G +KF+G W++ L  +     
Sbjct  2424  NKTRVFTAAPLDTLLAGKGCVDDFNNQFYAAHLKGPWTVGITKFFGRWNDFLSELPP---  2480

Query  611   NPHLMGWDYPKCD--RAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVM  668
                  GWDY   D  R   ++   + + VL  +     + +     L N   +++   + 
Sbjct  2481  -----GWDYFDADGSRFDSSLTPFLLNAVLNIRKKFMINWAFGQRCLGNLYTEIIYTPIA  2535

Query  669   C-GGSLYVKPGGTSSGDATTAYANSVFNICQAVTA  702
                GS+  K  G +SG  +T   N++  I     A
Sbjct  2536  TPDGSVVKKMRGNNSGQPSTVVDNTIMVIIAMQYA  2570


>sp|P36286|POLG_SMSV1 Genome polyprotein OS=San Miguel sea lion 
virus serotype 1 OX=36406 GN=ORF1 PE=3 SV=3
Length=1879

 Score = 42.3 bits (98),  Expect = 0.029, Method: Composition-based stats.
 Identities = 35/184 (19%), Positives = 68/184 (37%), Gaps = 17/184 (9%)

Query  536   IPTITQMNLKYAISAKNRA-----RTVAGVSICSTMTNRQFHQKLLKSIAATRG-ATVVI  589
             +P    + LK  +  K++      R + G  +  +   R   +++ +SI A      + +
Sbjct  1511  LPHEYALGLKDELRPKDKVAVGKRRLIWGCDVGVSTVCRAAFKRVSESIMANHALGFIQV  1570

Query  590   GTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLS  649
             G +       +  K +     + + +  DY K D   P  +   +  +L          +
Sbjct  1571  GINMDGPAVEDPFKRLERPKHDRYCV--DYSKWDSTQPPKVTSQSIDILRH-------FT  1621

Query  650   HRFYRLANECAQVLSEMVMCGGSLYVK-PGGTSSGDATTAYANSVFNICQAVTANVNALL  708
              +   + + CA + S  +     +  K  GG  SG   T+  NS+ N C  V + V   L
Sbjct  1622  DKSPIVDSACATLKSNPIGIFNGVAFKVAGGLPSGMPLTSIINSL-NHCLMVGSAVVKAL  1680

Query  709   STDG  712
                G
Sbjct  1681  EDSG  1684


>sp|P04517|POLG_TEV Genome polyprotein OS=Tobacco etch virus OX=12227 
PE=1 SV=1
Length=3054

 Score = 41.9 bits (97),  Expect = 0.034, Method: Composition-based stats.
 Identities = 39/230 (17%), Positives = 80/230 (35%), Gaps = 28/230 (12%)

Query  488   INANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFA-------YTKRNVIPTIT  540
             I   + I + L+  A       GK +     ++ ++Q+A+           K  +     
Sbjct  2391  ITDPEEIFSALNMKAAMGALYKGKKKEALSELTLDEQEAMLKASCLRLYTGKLGIWNGSL  2450

Query  541   QMNLK-YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAA-TRGATVVIGTSKFYGGW  598
             +  L+       N+ RT     I + +  +                A   +G +KFY GW
Sbjct  2451  KAELRPIEKVENNKTRTFTAAPIDTLLAGKVCVDDFNNQFYDLNIKAPWTVGMTKFYQGW  2510

Query  599   HNMLKTVYSDVENPHLMGWDYPKCDRA------MPNMLRIMASLVLARKHTTCCSLSHRF  652
             + +++ + S        GW Y   D +       P ++  +  + LA             
Sbjct  2511  NELMEALPS--------GWVYCDADGSQFDSSLTPFLINAVLKVRLAFMEE----WDIGE  2558

Query  653   YRLANECAQVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSVFNICQAVT  701
               L N   +++   ++   G++  K  G +SG  +T   N++  I   + 
Sbjct  2559  QMLRNLYTEIVYTPILTPDGTIIKKHKGNNSGQPSTVVDNTLMVIIAMLY  2608


>sp|P19723|POLG_PRSVP Genome polyprotein (Fragment) OS=Papaya 
ringspot virus (strain P / mutant HA 5-1) OX=31730 PE=3 SV=1
Length=675

 Score = 41.6 bits (96),  Expect = 0.040, Method: Composition-based stats.
 Identities = 50/278 (18%), Positives = 97/278 (35%), Gaps = 40/278 (14%)

Query  556  TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLM  615
            T+ G  +C    N  F+ K ++           +G +KFY GW   L+  + D       
Sbjct  46   TLLGAKVCVDDFNNWFYSKNME-------CPWTVGMTKFYKGWDEFLR-KFPD-------  90

Query  616  GWDYPKCDRA------MPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMC  669
            GW Y   D +       P +L  + S+ L                L N   ++    ++ 
Sbjct  91   GWVYCDADGSQFDSSLTPYLLNAVLSIRLWAMED----WDIGEQMLKNLYGEITYTPILT  146

Query  670  -GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNK------IADKYVRN  722
              G++  K  G +SG  +T   N++  +     A   A   T   +      I    +  
Sbjct  147  PDGTIVKKFKGNNSGQPSTVVDNTLMVLITMYYALRKAGYDTKTQEDMCVFYINGDDLCI  206

Query  723  LQHRLYECLYRNRDVDTDFVNEFYAYLRKHF---SMMILSDDAVV---CFNSTYASQGLV  776
              H  +E +  +       +   Y + ++H    ++  +S   ++    +      + +V
Sbjct  207  AIHPDHEHVLDSFSSSFAELGLKYDFAQRHRNKQNLWFMSHRGILIDDIYIPKLEPERIV  266

Query  777  ASIKNFKSVL--YYQNNVFMSEAKCWTETDLTKGPHEF  812
            A ++  KS L  +    +  +  + W   DLT     F
Sbjct  267  AILEWDKSKLPEHRLEAITAAMIESWGHGDLTHQIRRF  304


>sp|Q85197|POLG_PVMA Genome polyprotein OS=Potato virus A OX=12215 
PE=1 SV=1
Length=3059

 Score = 41.6 bits (96),  Expect = 0.051, Method: Composition-based stats.
 Identities = 56/362 (15%), Positives = 120/362 (33%), Gaps = 53/362 (15%)

Query  440   FFFAQDGNAAISDYDYYRYNLPTMC-------DIRQLLFVVEVVDKYFDCYDGGCINANQ  492
             F+     N      D  +Y+                L  ++  + ++         + + 
Sbjct  2332  FYKPSKLNREAYTQDLMKYSKVIQVGEVDCGVFESALTGLLHNLGRWGFTTACYTTDEDS  2391

Query  493   VIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRN-------VIPTITQMNLK  545
             +    L+  A       GK R Y+D+MS  +++ L   + +        V     +  L+
Sbjct  2392  IYT-ALNMKAAVGALYRGKKRDYFDAMSPSEREHLLFLSCKRLYFGQLGVWNGSLKAELR  2450

Query  546   -YAISAKNRART--------VAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYG  596
                    N+ RT        + G  +C    N  F+   LK       A   +G +KFYG
Sbjct  2451  PKEKVDLNKTRTFTAAPIETLLGGKVCVDDFNNMFYSLHLK-------APWSVGMTKFYG  2503

Query  597   GWHNMLKTVYSDVENPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRL  655
              W+ ++       ++      D  + D ++ P M+  +  + L                L
Sbjct  2504  TWNQLM---CKLPDDWVYCDADGSQFDSSISPYMINAVLRIRLHFMED----WDIGSQML  2556

Query  656   ANECAQV-LSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALL------  708
              N   ++   +       L  K  G +SG  +T   N++  +     A + + +      
Sbjct  2557  QNLYTEIGTHQSQHQMAQLLKKFKGNNSGQPSTVVDNTLLVVLALHYALLKSGIPLEEQD  2616

Query  709   -----STDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAV  763
                    +G+ +      +++H+L    ++    +     EF +  +    +  +S  A+
Sbjct  2617  SVCAYGVNGDDLLIAIRPDMEHKL--DGFQALFSELGLNYEFNSRSKDKKDLWFMSHKAI  2674

Query  764   VC  765
              C
Sbjct  2675  QC  2676


>sp|P31999|POLG_LMV0 Genome polyprotein OS=Lettuce mosaic virus 
(strain 0 / isolate French) OX=117132 PE=2 SV=3
Length=3255

 Score = 41.2 bits (95),  Expect = 0.057, Method: Composition-based stats.
 Identities = 42/235 (18%), Positives = 83/235 (35%), Gaps = 26/235 (11%)

Query  475   VVDKYFDCYDGGC--INANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTK  532
             V+ +       GC  +   + I   L+  A       GK R Y++    E+++ +   + 
Sbjct  2554  VIKRLERLGFSGCEYVTDEEAIFQALNMKAAVGALYSGKKRDYFEGYGPEEKENILRESC  2613

Query  533   RN-------VIPTITQMNLK---YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSI-AA  581
             +        V     +  L+     ++ K R  T A +     +  +           + 
Sbjct  2614  KRLYTGKFGVWNGSLKSELRPMEKVMANKTRVFTAAPLDTL--LAGKVCVDDFNNYFYSK  2671

Query  582   TRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAM--PNMLRIMASLVLA  639
                A   +G +KFYGGW+ +L  +          GW Y   D +    ++   + + VL 
Sbjct  2672  NIEAPWTVGMTKFYGGWNELLTKLPD--------GWVYCDADGSQFDSSLSPFLINSVLR  2723

Query  640   RKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKP-GGTSSGDATTAYANSV  693
              +             L N   +++   ++   S  VK   G +SG  +T   N++
Sbjct  2724  IRLKFMEDWDLGEQMLKNLYTEIVYTAILTPDSTIVKKFKGNNSGQPSTVVDNTL  2778


>sp|P36312|POL1_CPSMV RNA1 polyprotein OS=Cowpea severe mosaic 
virus (strain DG) OX=31716 PE=3 SV=1
Length=1858

 Score = 40.8 bits (94),  Expect = 0.069, Method: Composition-based stats.
 Identities = 26/157 (17%), Positives = 59/157 (38%), Gaps = 8/157 (5%)

Query  551   KNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVE  610
             K R  TV  +   + +  R+F + ++  +      +  +G + +   W  +  ++    +
Sbjct  1361  KTRCFTVLPMEY-NLVVRRKFLKFVVFIMKNRHRLSCQVGINPYGMEWSRLAMSLLE--K  1417

Query  611   NPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCG  670
               +++  DY   D  +   +  + S ++   +  C   S    +  N      S   +C 
Sbjct  1418  GNNILCCDYSSFDGLLTKQVMHLMSEMI---NELCGGSSRLKQQRTNLLMACCSRYALCK  1474

Query  671   GSLYVKPGGTSSGDATTAYANSVFN--ICQAVTANVN  705
             G ++    G  SG   T   NS+FN  + +     + 
Sbjct  1475  GEVWRVECGIPSGFPLTVICNSIFNELLVRYSYIKIC  1511


>sp|P19724|POLG_PRSVW Genome polyprotein (Fragment) OS=Papaya 
ringspot virus (strain W) OX=12207 PE=3 SV=1
Length=675

 Score = 40.8 bits (94),  Expect = 0.069, Method: Composition-based stats.
 Identities = 50/278 (18%), Positives = 97/278 (35%), Gaps = 40/278 (14%)

Query  556  TVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLM  615
            T+ G  +C    N  F+ K ++           +G +KFY GW   L+  + D       
Sbjct  46   TLLGAKVCVDDFNNWFYSKNME-------CPWTVGMTKFYKGWDEFLR-KFPD-------  90

Query  616  GWDYPKCDRA------MPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMC  669
            GW Y   D +       P +L  + S+ L                L N   ++    ++ 
Sbjct  91   GWVYCDADGSQFDSSLTPYLLNAVLSIRLWAMED----WDIGEQMLKNLYGEITYTPILT  146

Query  670  -GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNK------IADKYVRN  722
              G++  K  G +SG  +T   N++  +     A   A   T   +      I    +  
Sbjct  147  PDGTIVKKFKGNNSGQPSTVVDNTLMVLITMYYALRKAGYDTKTQEDMCVFYINGDDLCI  206

Query  723  LQHRLYECLYRNRDVDTDFVNEFYAYLRKHF---SMMILSDDAVV---CFNSTYASQGLV  776
              H  +E +  +       +   Y + ++H    ++  +S   ++    +      + +V
Sbjct  207  AIHPDHEHVLDSFSRSFAELGLKYDFTQRHRNKQNLWFMSHRGILIDDIYIPKLEPERIV  266

Query  777  ASIKNFKSVL--YYQNNVFMSEAKCWTETDLTKGPHEF  812
            A ++  KS L  +    +  +  + W   DLT     F
Sbjct  267  AILEWDKSKLPEHRLEAITAAMIESWGYGDLTHQIRRF  304


>sp|P18247|POLG_PVYN Genome polyprotein OS=Potato virus Y (strain 
N) OX=12219 PE=1 SV=2
Length=3063

 Score = 40.8 bits (94),  Expect = 0.080, Method: Composition-based stats.
 Identities = 40/236 (17%), Positives = 86/236 (36%), Gaps = 20/236 (8%)

Query  488   INANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQM---NL  544
             +   Q I   L+  A    +   K + Y++  +  D++ +   +   +   +  +   +L
Sbjct  2389  VTDEQEIFKALNMKAAVGASYGCKKKDYFEHFTDADKEEIVMQSCLRLYKGLLGIWNGSL  2448

Query  545   KYAISAK-----NRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVV--IGTSKFYGG  597
             K  +  K     N+ RT     + + +  +            ++       +G +KFYGG
Sbjct  2449  KAELRCKEKILANKTRTFTAAPLDTLLGGKVCVDDFNNQFY-SKNIECCWTVGMTKFYGG  2507

Query  598   WHNMLKTVYSDVENPHLMGWDYPKCDRA-MPNMLRIMASLVLARKHTTCCSLSHRFYRLA  656
             W  +L+ +    EN      D  + D +  P ++      VL  + T           L 
Sbjct  2508  WDKLLRRLP---ENWVYCDADGSQFDSSLTPYLINA----VLTIRSTYMEDWDVGLQMLR  2560

Query  657   NECAQVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
             N   +++   +    G++  K  G +SG  +T   NS+  +     A +   +  +
Sbjct  2561  NLYTEIVYTPISTPDGTIVKKFRGNNSGQPSTVVDNSLMVVLAMHYALIKECVEFE  2616


>sp|O73556|POLG_HPE2W Genome polyprotein OS=Human parechovirus 
2 (strain Williamson) OX=122962 PE=3 SV=1
Length=2179

 Score = 40.8 bits (94),  Expect = 0.084, Method: Composition-based stats.
 Identities = 42/250 (17%), Positives = 81/250 (32%), Gaps = 37/250 (15%)

Query  488   INANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRN---VIPTITQMNL  544
             +  + V   +L  SAG+ F K G  +     +       +     +     +    Q+  
Sbjct  1810  LGTSHVNSMDLSTSAGYSFVKSGYKKKDLICLEPFSVSPMLEKLVQEKFHNLLKGNQITT  1869

Query  545   KYAISAKN-----------RARTVAGVSICSTMTNRQFHQKLLKSIAAT--RGATVVIGT  591
              +    K+           + R +    I   +  R    ++   I  T    + + +G 
Sbjct  1870  IFNTCLKDELRKLDKIATGKTRCIEACEIDYCIVYRMIMMEIYDKIYQTPCYYSGLAVGI  1929

Query  592   SKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHR  651
             +  Y  WH M+  +     N +    DY + D ++ +ML   A  VLA  H +       
Sbjct  1930  NP-YRDWHFMINAL-----NDYNYEMDYSQYDGSLSSMLLWEAVQVLAYCHDSP------  1977

Query  652   FYRLANECAQVLSEMVMCGGSLYVKP----GGTSSGDATTAYANSVFNICQAVTANVNAL  707
                  +   Q+   ++     ++ +     GG  SG   T   NS+ N+   +       
Sbjct  1978  -----DLVMQLHKPVIDSDHVVFNERWLIHGGMPSGSPCTTVLNSLCNLMMCIYTTNLIS  2032

Query  708   LSTDGNKIAD  717
                D   I  
Sbjct  2033  PGIDCLPIVY  2042


>sp|Q9WAL8|POL1_SDVS5 RNA1 polyprotein OS=Satsuma dwarf virus 
(isolate Satsuma mandarin/Japan/S-58/1977) OX=650481 PE=3 SV=1
Length=2081

 Score = 40.4 bits (93),  Expect = 0.099, Method: Composition-based stats.
 Identities = 28/146 (19%), Positives = 51/146 (35%), Gaps = 7/146 (5%)

Query  553   RARTVAGVSICSTMTNRQFHQKLLKS-IAATRGATVVIGTSKFYGGWHNMLKTVYSDVEN  611
             + R    +     +  R++    ++  + A       +G + +   W  +L        +
Sbjct  1622  KTRIFEILPFQINIIIRRYLMFWMQLLMVAHDELPSKVGINVYSESWDRLLGRHTRLANH  1681

Query  612   PHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG  671
                   DY   D + P   R++   ++ + +              N    VL+  ++  G
Sbjct  1682  FT---GDYSGFDTSTP---RVLVYAIIDKINELADDGEVNQRTRRNIIRFVLNRYLISDG  1735

Query  672   SLYVKPGGTSSGDATTAYANSVFNIC  697
              LY   GGT SG A T   NSV N  
Sbjct  1736  VLYEIHGGTPSGFAPTVMINSVVNEF  1761


>sp|Q66578|POLG_HPE1H Genome polyprotein OS=Human parechovirus 
1 (strain Harris) OX=103911 PE=1 SV=1
Length=2180

 Score = 40.4 bits (93),  Expect = 0.11, Method: Composition-based stats.
 Identities = 42/250 (17%), Positives = 82/250 (33%), Gaps = 37/250 (15%)

Query  488   INANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRN---VIPTITQMNL  544
             +  + V   +L  SAG+ F K G  +     +       L     ++    +    Q+  
Sbjct  1811  LGTSHVNSMDLSTSAGYSFVKSGYKKKDLICLEPFSVAPLLERLVQDKFHNLLKGNQITT  1870

Query  545   KYAISAKN-----------RARTVAGVSICSTMTNRQFHQKLLKSIAAT--RGATVVIGT  591
              +    K+           + R +    +   +  R    ++   I  T    + + +G 
Sbjct  1871  TFNTCLKDELRKLDKIASGKTRCIEACEVDYCIVYRMIMMEIYDKIYQTPCYYSGLAVGI  1930

Query  592   SKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHR  651
             +  Y  WH M+  +     N +    DY + D ++ +ML   A  VLA  H +       
Sbjct  1931  NP-YKDWHFMINAL-----NDYNYEMDYSQYDGSLSSMLLWEAVEVLAYCHDSP------  1978

Query  652   FYRLANECAQVLSEMVMCGGSLYVKP----GGTSSGDATTAYANSVFNICQAVTANVNAL  707
                  +   Q+   ++     ++ +     GG  SG   T   NS+ N+   +       
Sbjct  1979  -----DLVMQLHKPVIDSDHVVFNERWLIHGGMPSGSPCTTVLNSLCNLMMCIYTTNLIS  2033

Query  708   LSTDGNKIAD  717
                D   I  
Sbjct  2034  PGIDCLPIVY  2043


>sp|Q9DUN3|POLG_VESVA Genome polyprotein OS=Vesicular exanthema 
of swine virus serotype A48 (isolate Swine/United States/A48/1948) 
OX=85617 GN=ORF1 PE=3 SV=1
Length=1881

 Score = 40.0 bits (92),  Expect = 0.12, Method: Composition-based stats.
 Identities = 34/184 (18%), Positives = 68/184 (37%), Gaps = 17/184 (9%)

Query  536   IPTITQMNLKYAISAKNRA-----RTVAGVSICSTMTNRQFHQKLLKSIAATRG-ATVVI  589
             +P    + LK  +  K++      R + G  +  +       +++ +SI A      + +
Sbjct  1513  LPHEYALGLKDELRPKDKVAVGKRRLIWGCDVGVSTVCAAAFKRVSESIMANHALGFIQV  1572

Query  590   GTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLS  649
             G +       ++ K +     + + +  DY K D   P  +   +  +L          +
Sbjct  1573  GINMDGPAVEDLFKRLERPKHDRYCV--DYSKWDSTQPPKVTSQSIDILRH-------FT  1623

Query  650   HRFYRLANECAQVLSEMVMCGGSLYVK-PGGTSSGDATTAYANSVFNICQAVTANVNALL  708
              +   + + CA + S  +     +  K  GG  SG   T+  NS+ N C  V + V   L
Sbjct  1624  DKSPIVDSACATLKSNPIGIFNGVAFKVAGGLPSGMPLTSIINSL-NHCLMVGSAVVKAL  1682

Query  709   STDG  712
                G
Sbjct  1683  EDSG  1686


>sp|P89201|POLG_SPMMV Genome polyprotein OS=Sweet potato mild 
mottle virus (isolate Salazar) OX=652105 PE=2 SV=1
Length=3456

 Score = 40.4 bits (93),  Expect = 0.12, Method: Composition-based stats.
 Identities = 45/263 (17%), Positives = 94/263 (36%), Gaps = 21/263 (8%)

Query  494   IVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALF--AYTKRN-----VIPTITQMNLKY  546
             I ++L+K +       GK   +   ++ ED  +L   +Y   N     V     +  L++
Sbjct  2767  IFDDLNKKSSMGALYSGKKGQWMHGLTPEDAISLAVESYALLNSGHLGVWSGSLKAELRH  2826

Query  547   AISAKN-RARTVAGVSICSTMTNRQFHQKLLKSIAATR-GATVVIGTSKFYGGWHNMLKT  604
                 K  + R   G  I + +  +                    +G +KF  GW+ +   
Sbjct  2827  VDKLKEGKTRVFTGAPIDTLLAGKILVDNFNNYFYKCHLQGPWTVGINKFNRGWNKL--A  2884

Query  605   VYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLS  664
              Y +  +   +  D  + D ++P ++     ++ +         +     L  E   V +
Sbjct  2885  NYFN-HDWVFIDCDGSRFDSSIPPIMFNAVCMLRSVFGDLDPDENQTLSNLYTEI--VNT  2941

Query  665   EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ  724
              ++   G++  K  G +SG  +T   N++  +  A+   +  +  T   +   KYV N  
Sbjct  2942  PILTIEGNIIRKFRGNNSGQPSTVVDNTLI-LMIAMEYAIAKVFVT---RPDIKYVCNGD  2997

Query  725   HRLYECLYRNR--DVDTDFVNEF  745
               L     R+    +   F + F
Sbjct  2998  -DLLINCPRSTANAISEHFKDVF  3019


>sp|Q66474|POLG_EC06C Genome polyprotein OS=Echovirus 6 (strain 
Charles) OX=103913 PE=1 SV=3
Length=2191

 Score = 40.0 bits (92),  Expect = 0.12, Method: Composition-based stats.
 Identities = 46/220 (21%), Positives = 81/220 (37%), Gaps = 19/220 (9%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRN--VIPTITQMNLKYAIS---AKN  552
             L  SAG+P+   G  +    S    D   L     +    +P +T +  +   +   AK 
Sbjct  1841  LTTSAGYPYVALGIKKRDILSKKTRDLTKLKECMDKYGLNLPMVTYVKDELRSAEKVAKG  1900

Query  553   RARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP  612
             ++R +   S+  ++  RQ    L K+     G    I T    G   ++  +    + + 
Sbjct  1901  KSRLIEASSLNDSVAMRQTFGNLYKAFHQNPG----IVTGSAVGCDPDLFWSKIPVMLDG  1956

Query  613   HLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG  671
             HL+ +DY   D ++  +    A L +L  K       ++    L N      S  +    
Sbjct  1957  HLIAFDYSGYDASLSPV--WFACLKLLLEKLGYTHKETNYIDYLCN------SHHLYRDK  2008

Query  672   SLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
               +V  GG  SG + T+  NS+ N     T  +      D
Sbjct  2009  HYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGID  2047


>sp|A4KZ49|POLG_TRMVU Genome polyprotein OS=Triticum mosaic virus 
(isolate Triticum aestivum/United States/U06-123/2006) OX=1289472 
PE=1 SV=3
Length=3112

 Score = 39.3 bits (90),  Expect = 0.25, Method: Composition-based stats.
 Identities = 27/145 (19%), Positives = 55/145 (38%), Gaps = 8/145 (6%)

Query  551   KNRARTVAGVSICSTMTNRQFHQKLLKSIAAT-RGATVVIGTSKFYGGWHNMLKTVYSDV  609
             + + R         +   + F         AT  G+   +G +KF  GW  + +    D 
Sbjct  2510  EKKTRVFTAAPFDVSFGAKAFVDDFNNKFYATQAGSNWTVGINKFNCGWDELARRFNPDW  2569

Query  610   ENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMV-M  668
             +    +  D  + D ++  +L    +++  R+H    +   R   L+N   Q++   +  
Sbjct  2570  K---FIDADGSRYDSSLTPLL--FNAVLRIRQHFLRANGFER-RMLSNFYTQLVWTPIST  2623

Query  669   CGGSLYVKPGGTSSGDATTAYANSV  693
               G +  K  G  SG  +T   N++
Sbjct  2624  ITGQIVKKNKGGPSGQPSTVVDNTM  2648


>sp|Q76L40|POL1_BBWVS RNA1 polyprotein OS=Broad bean wilt virus 
1 (strain Spinach/United States/ATCC PV-132/1963) OX=649895 
GN=RNA1 PE=3 SV=1
Length=1842

 Score = 38.9 bits (89),  Expect = 0.28, Method: Composition-based stats.
 Identities = 29/159 (18%), Positives = 54/159 (34%), Gaps = 10/159 (6%)

Query  551   KNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGA-TVVIGTSKFYGGWHNMLKTVYSDV  609
             K+R  TV  +S    +  R+     ++ I   R      +G + +   W  +   +    
Sbjct  1359  KSRLFTVLPMSY--NLAIRKKFLNFVRFIMKRRDVLPCQVGINPYSRQWGKVADRLLE--  1414

Query  610   ENPHLMGWDYPKCDRAMPNMLRI-MASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVM  668
             +   ++  DY + D  +P  + + +A +       T          +   C++      +
Sbjct  1415  KGNSILCCDYSRFDGFLPKCIMVKIAEMFSNIVGETGAEREQTKNLMLACCSRY----AI  1470

Query  669   CGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNAL  707
             CG  LY    G  SG   T   NS+ N      A     
Sbjct  1471  CGRVLYRVENGIPSGFPLTVIVNSILNEILIKYAYWKCF  1509


>sp|Q69014|POLG_SVM93 Genome polyprotein (Fragment) OS=Sapporo 
virus (strain Human/United Kingdom/Manchester/1993) OX=82659 
GN=ORF1 PE=1 SV=1
Length=2208

 Score = 38.9 bits (89),  Expect = 0.30, Method: Composition-based stats.
 Identities = 50/272 (18%), Positives = 87/272 (32%), Gaps = 35/272 (13%)

Query  455   YYRYNLPTMCDIRQLLF-VVEVVDKYFDC----YDGGCINANQVIVNNLDKSAGFPFNKW  509
                Y  PT     QLL   V  V  Y +     +    +  +Q        ++  PF + 
Sbjct  1199  LKPYTEPTAGVPPQLLSRAVTHVRSYIETIIGTHRSPVLTYHQACELLERTTSCGPFVQ-  1257

Query  510   GKARLYYDSMSYEDQDAL-------FAYTKRNVIP-TITQMNLKYAIS--AKNRA---RT  556
             G    Y+D    +    L       +    + + P    ++ LK  +    KN+A   R 
Sbjct  1258  GLKGDYWDEEQQQYTGVLANHLEQAWDKANKGIAPRNAYKLALKDELRPIEKNKAGKRRL  1317

Query  557   VAGVSICSTMTNRQFHQKLLKSI-AATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLM  615
             + G    +T+      + +   +   T    V +G +        M  ++   V    L 
Sbjct  1318  LWGCDAATTLIATAAFKAVATRLQVVTPMTPVAVGINMDSVQMQVMNDSLKGGV----LY  1373

Query  616   GWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMV--MCGGSL  673
               DY K D      +   +  +L R            + + +   + LS           
Sbjct  1374  CLDYSKWDSTQNPAVTAASLAILERFAE--------PHPIVSCAIEALSSPAEGYVNDIK  1425

Query  674   YVKPGGTSSGDATTAYANSVFNICQAVTANVN  705
             +V  GG  SG   T+  NS+ N    V A + 
Sbjct  1426  FVTRGGLPSGMPFTSVVNSI-NHMIYVAAAIL  1456


>sp|Q672I1|POLG_SVSAP Genome polyprotein OS=Sapporo virus (isolate 
GI/Human/Germany/pJG-Sap01) OX=291175 PE=3 SV=1
Length=2280

 Score = 38.9 bits (89),  Expect = 0.30, Method: Composition-based stats.
 Identities = 50/272 (18%), Positives = 87/272 (32%), Gaps = 35/272 (13%)

Query  455   YYRYNLPTMCDIRQLLF-VVEVVDKYFDC----YDGGCINANQVIVNNLDKSAGFPFNKW  509
                Y  PT     QLL   V  V  Y +     +    +  +Q        ++  PF + 
Sbjct  1271  LKPYTEPTAGVPPQLLSRAVTHVRSYIETIIGTHRSPVLTYHQACELLERTTSCGPFVQ-  1329

Query  510   GKARLYYDSMSYEDQDAL-------FAYTKRNVIP-TITQMNLKYAIS--AKNRA---RT  556
             G    Y+D    +    L       +    + + P    ++ LK  +    KN+A   R 
Sbjct  1330  GLKGDYWDEEQQQYTGVLANHLEQAWDKANKGIAPRNAYKLALKDELRPIEKNKAGKRRL  1389

Query  557   VAGVSICSTMTNRQFHQKLLKSI-AATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLM  615
             + G    +T+      + +   +   T    V +G +        M  ++   V    L 
Sbjct  1390  LWGCDAATTLIATAAFKAVATRLQVVTPMTPVAVGINMDSVQMQVMNDSLKGGV----LY  1445

Query  616   GWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMV--MCGGSL  673
               DY K D      +   +  +L R            + + +   + LS           
Sbjct  1446  CLDYSKWDSTQNPAVTAASLAILERFAE--------PHPIVSCAIEALSSPAEGYVNDIK  1497

Query  674   YVKPGGTSSGDATTAYANSVFNICQAVTANVN  705
             +V  GG  SG   T+  NS+ N    V A + 
Sbjct  1498  FVTRGGLPSGMPFTSVVNSI-NHMIYVAAAIL  1528


>sp|P14879|PYR4_MICDP Phycobilisome 31.6 kDa linker polypeptide, 
phycocyanin-associated, rod OS=Microchaete diplosiphon OX=1197 
GN=cpcI3 PE=3 SV=1
Length=285

 Score = 38.1 bits (87),  Expect = 0.30, Method: Composition-based stats.
 Identities = 20/85 (24%), Positives = 37/85 (44%), Gaps = 4/85 (5%)

Query  708  LSTDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFN  767
            L T+GN    ++VR L       LY+++    +F +       KH       D++ + ++
Sbjct  61   LLTNGNITVQEFVRQLAK---SNLYKSKFFSNNFHSRVTELNFKHLLGRAPYDESEIIYH  117

Query  768  ST-YASQGLVASIKNFKSVLYYQNN  791
               Y ++G  A I ++     YQ N
Sbjct  118  LDLYQTKGYEADIDSYIDSAEYQTN  142


>sp|Q9YID8|POLG_HPEV5 Genome polyprotein OS=Human parechovirus 
5 (strain CT86-6760) OX=122961 PE=3 SV=1
Length=2188

 Score = 38.9 bits (89),  Expect = 0.31, Method: Composition-based stats.
 Identities = 48/250 (19%), Positives = 83/250 (33%), Gaps = 37/250 (15%)

Query  488   INANQVIVNNLDKSAGFPFNKWGKAR---------LYYDSMSYEDQDALFAYTKRNVIPT  538
             +  + V   +L  SAG+   K G  +              +    QD      K N I T
Sbjct  1819  LGTSHVNSMDLSTSAGYSLVKSGYKKKDLICLEPFSVSPMLEKLVQDKFHNLLKGNQITT  1878

Query  539   ITQMNLKYAIS-----AKNRARTVAGVSICSTMTNRQFHQKLLKSIAAT--RGATVVIGT  591
             I    LK  +      A  + R +    +   +  R    ++   I  T    + + +G 
Sbjct  1879  IFNTCLKDELRKLDKIAAGKTRCIEACEVDYCIVYRMIMMEIYDKIYQTPCYYSGLAVGI  1938

Query  592   SKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHR  651
             +  Y  WH M+  +     N +    DY + D ++ +ML   A  VLA  H +       
Sbjct  1939  NP-YKDWHFMINAL-----NDYNYEMDYSQYDGSLSSMLLWEAVEVLAYCHDSP------  1986

Query  652   FYRLANECAQVLSEMVMCGGSLYVKP----GGTSSGDATTAYANSVFNICQAVTANVNAL  707
                  +   Q+   ++     ++ +     GG  SG   T   NS+ N+   +       
Sbjct  1987  -----DLVMQLHKPVIDSDHVVFNERWLIHGGMPSGSPCTTVLNSLCNLMMCIYTTNLIS  2041

Query  708   LSTDGNKIAD  717
                D   I  
Sbjct  2042  PGVDCLPIVY  2051


>sp|O41174|POLG_PEV9U Genome polyprotein OS=Porcine enterovirus 
9 (strain UKG/410/73) OX=64141 PE=1 SV=3
Length=2168

 Score = 38.9 bits (89),  Expect = 0.33, Method: Composition-based stats.
 Identities = 42/226 (19%), Positives = 82/226 (36%), Gaps = 24/226 (11%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQD----ALFAYTKRNVIPTITQMN---LKYAISA  550
             L  SAG+P+   G  +   D ++ E +D              +P +T +           
Sbjct  1819  LTTSAGYPYVTMGIKK--RDILNKETRDVKKMQECIDKYGLNLPMVTYIKDELRSKEKVK  1876

Query  551   KNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVE  610
             K ++R +   S+  ++  R +   L K+     G           G   +   +    + 
Sbjct  1877  KGKSRLIEASSLNDSVAMRCYFGNLYKAFHQNPGTLTGCAV----GCDPDTFWSKIPVMM  1932

Query  611   NPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMC  669
             +  L G+DY   D ++ P M + +  +VL +            + + N C    S  +  
Sbjct  1933  DGELFGFDYTAYDASLSPLMFQAL-QMVLEKI-----GFGEGKHFIDNLCY---SHHLFR  1983

Query  670   GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKI  715
                 +VK GG  SG + T+  NS+ N     T  +      + +++
Sbjct  1984  DKYYFVK-GGMPSGCSGTSIFNSMINNIIIRTVVLQTYKGIELDQL  2028


>sp|P90245|POL1_BAMMN Genome polyprotein 1 OS=Barley mild mosaic 
virus (strain Na1) OX=103900 PE=3 SV=1
Length=2258

 Score = 38.9 bits (89),  Expect = 0.34, Method: Composition-based stats.
 Identities = 55/292 (19%), Positives = 105/292 (36%), Gaps = 44/292 (15%)

Query  454   DYYRYNLP----TMCDIRQLLFVVEVVDKYFDCYDGGCI--NANQVIVNNLDKSAGFPFN  507
             D  +Y+ P      C+        +++    +   G  +     QV+++    ++G P  
Sbjct  1574  DLKKYDRPPHASVFCEDTLTKAKHKMIKILEEAGMGRTLVRTTEQVLLDMAWTTSGGPLY  1633

Query  508   KWGKARLYYDSMSYED--------QDALFAYTKRNVIPTITQMNLK---YAISAKNRART  556
               GK       +S ++        Q AL   T   V     +  L+     +  K R  T
Sbjct  1634  H-GKKIDIVQHLSDDELVQFSEACQQALITGTLDGVWNGSLKAELRSSQKILERKTRVFT  1692

Query  557   VAGVSICSTMT------NRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVE  610
              A ++    M       N+QF++  LK       A   +G +KF  GW    + +Y  + 
Sbjct  1693  AAPITSLIAMKYYVDDFNKQFYKTHLK-------APHTVGINKFNRGW----QNLYEKLN  1741

Query  611   NPHLMGWDYPKCDRA-MPNMLRIMASLVLA--RKHTTCCSLSHRFYRLANECAQVLSEMV  667
              P   GW +   D +   + +      V+   RKH        +   +  E   V +++ 
Sbjct  1742  KP---GWTHGSGDGSRFDSSIDGFLFDVIKDIRKHFMDAEHHKQLDTIYEEI--VNTKIC  1796

Query  668   MCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKY  719
             +  G +  K  G +SG  +T   N++  +  +       L   D  ++ D+ 
Sbjct  1797  LANGLVIQKNCGNNSGQPSTVVDNTL-ALMTSFLYAYARLTGDDTFELMDEN  1847


>sp|Q66849|POLG_EC09H Genome polyprotein OS=Echovirus 9 (strain 
Hill) OX=103915 PE=3 SV=3
Length=2193

 Score = 38.9 bits (89),  Expect = 0.35, Method: Composition-based stats.
 Identities = 46/220 (21%), Positives = 81/220 (37%), Gaps = 19/220 (9%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRN--VIPTITQMNLKYAIS---AKN  552
             L  SAG+P+   G  +    S    D   L     +    +P +T +  +   +   AK 
Sbjct  1843  LTTSAGYPYVALGIKKRDILSKKTRDLTKLKECMDKYGLNLPMVTYVKDELRSAEKVAKG  1902

Query  553   RARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP  612
             ++R +   S+  ++  RQ    L K+     G    I T    G   ++  +    + + 
Sbjct  1903  KSRLIEASSLNDSVAMRQTFGNLYKTFHLNPG----IVTGSASGCDPDLFWSKIPVMLDG  1958

Query  613   HLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG  671
             HL+ +DY   D ++  +    A L +L  K       ++    L N      S  +    
Sbjct  1959  HLIAFDYSGYDASLSPV--WFACLKLLLEKLGYSHKETNYIDYLCN------SHHLYRDK  2010

Query  672   SLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
               +V  GG  SG + T+  NS+ N     T  +      D
Sbjct  2011  HYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGID  2049


>sp|Q9WN78|POLG_EC30B Genome polyprotein OS=Echovirus 30 (strain 
Bastianni) OX=176284 PE=1 SV=3
Length=2194

 Score = 38.9 bits (89),  Expect = 0.35, Method: Composition-based stats.
 Identities = 46/220 (21%), Positives = 82/220 (37%), Gaps = 19/220 (9%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRN--VIPTITQMNLKYAIS---AKN  552
             L  SAG+P+   G  +    S   +D   L     +    +P +T +  +   +   AK 
Sbjct  1844  LTTSAGYPYVALGIKKRDILSKKTKDLAKLKECMDKYGLNLPMVTYVKDELRSAEKVAKG  1903

Query  553   RARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP  612
             ++R +   S+  ++  RQ    L K+     G    I T    G   ++  +    + + 
Sbjct  1904  KSRLIEASSLNDSVAMRQTFGNLYKTFHMNPG----IVTGSAVGCDPDLFWSKIPVMLDG  1959

Query  613   HLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG  671
             HL+ +DY   D ++  +    A L +L  K       ++    L N      S  +    
Sbjct  1960  HLIAFDYSGYDASLSPV--WFACLKLLLEKLGYSHKETNYIDYLCN------SHHLYRDK  2011

Query  672   SLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
               +V  GG  SG + T+  NS+ N     T  +      D
Sbjct  2012  HYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGID  2050


>sp|P21404|POLG_CXA9 Genome polyprotein OS=Coxsackievirus A9 (strain 
Griggs) OX=12068 PE=1 SV=4
Length=2201

 Score = 38.5 bits (88),  Expect = 0.38, Method: Composition-based stats.
 Identities = 48/220 (22%), Positives = 81/220 (37%), Gaps = 19/220 (9%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRN--VIPTITQMNLKYAIS---AKN  552
             L  SAG+P+   G  +    S    D   L     +    +P IT +  +   +   AK 
Sbjct  1851  LTTSAGYPYVALGIKKRDILSKKTRDLTKLKECMDKYGLNLPMITYVKDQLRSAEKVAKG  1910

Query  553   RARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP  612
             ++R +   S+  ++  RQ    L K+     G    I T    G   ++  +    + N 
Sbjct  1911  KSRLIEASSLNDSVAMRQTFGNLYKTFHLNPG----IVTGSAVGCDPDLFWSKIPVMLNG  1966

Query  613   HLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG  671
             HL+ +DY   D ++  +    A L +L  K       ++    L N      S  +    
Sbjct  1967  HLIAFDYSGYDASLSPV--WFACLKLLLEKLGYSHKETNYIDYLCN------SHHLYRDK  2018

Query  672   SLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
               +V  GG  SG + T+  NS+ N     T  +      D
Sbjct  2019  HYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGID  2057


>sp|Q9QL88|POLG_CXB6S Genome polyprotein OS=Coxsackievirus B6 
(strain Schmitt) OX=231474 PE=1 SV=4
Length=2184

 Score = 38.5 bits (88),  Expect = 0.43, Method: Composition-based stats.
 Identities = 46/220 (21%), Positives = 82/220 (37%), Gaps = 19/220 (9%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRN--VIPTITQMNLKYAIS---AKN  552
             L  SAG+P+   G  +    S   +D   L     +    +P +T +  +   +   AK 
Sbjct  1834  LTTSAGYPYVALGIKKRDILSKKSKDLTKLKECMDKYGLNLPMVTYVKDELRSAEKVAKG  1893

Query  553   RARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP  612
             ++R +   S+  ++  RQ    L K+     G    I T    G   ++  +    + + 
Sbjct  1894  KSRLIEASSLNDSVAMRQTFGNLYKTFHLNPG----IVTGSAVGCDPDLFWSKIPVMLDG  1949

Query  613   HLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG  671
             HL+ +DY   D ++  +    A L +L  K       ++    L N      S  +    
Sbjct  1950  HLIAFDYSGYDASLSPV--WFACLKLLLEKLGYTHKETNYIDYLCN------SHHLYRDK  2001

Query  672   SLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
               +V  GG  SG + T+  NS+ N     T  +      D
Sbjct  2002  HYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGID  2040


>sp|E5D8F2|POLG_HRV15 Genome polyprotein OS=Human rhinovirus C 
(strain C15) OX=1418033 PE=1 SV=1
Length=2153

 Score = 38.5 bits (88),  Expect = 0.44, Method: Composition-based stats.
 Identities = 43/205 (21%), Positives = 69/205 (34%), Gaps = 24/205 (12%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRN--VIPTITQMNLKYAISA-----  550
             L  SAGFP+   G  +    +   +D   L     +    +P +T   LK  + A     
Sbjct  1805  LTTSAGFPYVTMGIKKKDIVNKVTKDVTKLQEMIDKYGIDLPYVT--YLKDELRAPEKIK  1862

Query  551   KNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVE  610
             K + R +   SI  T   R     L     A  G   V+  S            +Y+ ++
Sbjct  1863  KGKTRAIEAASINDTTHFRMVFGNLFSVFHANPG---VLTGSAVGCNPDVFWSQMYACMD  1919

Query  611   NPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCG  670
                L+ +DY   D ++  +     +  L +         H   RL N             
Sbjct  1920  G-ELLAFDYTNYDGSLHPI--WFKA--LGKVLDNLGFPGHLVNRLCNTTHIF-------K  1967

Query  671   GSLYVKPGGTSSGDATTAYANSVFN  695
               +Y   GG  SG   T+  N++ N
Sbjct  1968  NLIYTVEGGMPSGICGTSIFNTMIN  1992


>sp|P89509|POLG_TUMVJ Genome polyprotein OS=Turnip mosaic virus 
(strain Japanese) OX=12230 PE=1 SV=2
Length=3164

 Score = 38.5 bits (88),  Expect = 0.44, Method: Composition-based stats.
 Identities = 41/230 (18%), Positives = 83/230 (36%), Gaps = 35/230 (15%)

Query  494   IVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYT-------KRNVIPTITQMNLK-  545
             I   L+  +       GK + Y+   + E ++ +   +       K  V     +  L+ 
Sbjct  2477  IFEALNMKSAVGALYKGKKKDYFAEFTPEMKEEILKQSCERLFLGKMGVWNGSLKAELRP  2536

Query  546   --YAISAKNRA------RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGG  597
                  + K R        T+ G  +C    N QF+   L+       A   +G +KFY G
Sbjct  2537  LEKVEANKTRTFTAAPLDTLLGGKVCVDDFNNQFYDHNLR-------APWSVGMTKFYCG  2589

Query  598   WHNMLKTVYSDVENPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLA  656
             W  +L+++    +       D  + D ++ P ++  + ++ L                L 
Sbjct  2590  WDRLLESLP---DGWVYCDADGSQFDSSLSPYLINAVLNIRLGFMEE----WDIGEVMLR  2642

Query  657   NECAQVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVN  705
             N   +++   +    G+L  K  G +SG  +T   N+   +   +  N +
Sbjct  2643  NLYTEIVYTPISTPDGTLVKKFKGNNSGQPSTVVDNT---LMVILAVNYS  2689


>sp|P08291|POLG_CXB1J Genome polyprotein OS=Coxsackievirus B1 
(strain Japan) OX=103902 PE=3 SV=3
Length=2182

 Score = 38.1 bits (87),  Expect = 0.53, Method: Composition-based stats.
 Identities = 46/220 (21%), Positives = 81/220 (37%), Gaps = 19/220 (9%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRN--VIPTITQMNLKYAIS---AKN  552
             L  SAG+P+   G  +    S    D   L     +    +P +T +  +   +   AK 
Sbjct  1832  LTTSAGYPYVALGIKKRDILSKKTRDLTKLKECMDKYGLNLPMVTYVKDELRSAEKVAKG  1891

Query  553   RARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP  612
             ++R +   S+  ++  RQ    L K+     G    I T    G   ++  +    + + 
Sbjct  1892  KSRLIEASSLNDSVAMRQTFGNLYKTFHLNPG----IVTGSAVGCDPDLFWSKIPVMLDG  1947

Query  613   HLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG  671
             HL+ +DY   D ++  +    A L +L  K       ++    L N      S  +    
Sbjct  1948  HLVAFDYSGYDASLSPV--WFACLKLLLEKLGYSHKETNYIDYLCN------SHHLYRDK  1999

Query  672   SLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
               +V  GG  SG + T+  NS+ N     T  +      D
Sbjct  2000  HYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGID  2038


>sp|Q9YLJ1|POLG_EC05N Genome polyprotein OS=Echovirus 5 (strain 
Noyce) OX=176283 PE=3 SV=3
Length=2196

 Score = 37.7 bits (86),  Expect = 0.72, Method: Composition-based stats.
 Identities = 46/220 (21%), Positives = 82/220 (37%), Gaps = 19/220 (9%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRN--VIPTITQMNLKYAIS---AKN  552
             L  SAG+P+   G  +    S   +D   L     +    +P +T +  +   +   AK 
Sbjct  1846  LTTSAGYPYVALGIKKRDILSKRTKDLTKLKECMDKYGLNLPMVTYVKDELRSAEKVAKG  1905

Query  553   RARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP  612
             ++R +   S+  ++  RQ    L K+     G    I T    G   ++  +    + + 
Sbjct  1906  KSRLIEASSLNDSVAMRQTFGNLYKTFHLNPG----IVTGSAVGCDPDLFWSKIPVMLDG  1961

Query  613   HLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG  671
             HL+ +DY   D ++  +    A L +L  K       ++    L N      S  +    
Sbjct  1962  HLIAFDYSGYDASLSPV--WFACLKMLLEKLGYTHKETNYIDYLCN------SHHLYRDK  2013

Query  672   SLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
               +V  GG  SG + T+  NS+ N     T  +      D
Sbjct  2014  HYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGID  2052


>sp|Q66282|POLG_CXB3W Genome polyprotein OS=Coxsackievirus B3 
(strain Woodruff) OX=103904 PE=1 SV=3
Length=2185

 Score = 37.7 bits (86),  Expect = 0.73, Method: Composition-based stats.
 Identities = 45/220 (20%), Positives = 80/220 (36%), Gaps = 19/220 (9%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRN--VIPTITQMNLKYAIS---AKN  552
             L  SAG+P+   G  +    S    D   L     +    +P +T +  +   +   AK 
Sbjct  1835  LTTSAGYPYVALGIKKRDILSKKTRDLTKLKECMDKYGLNLPMVTYVKDELRSAEKVAKG  1894

Query  553   RARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP  612
             ++R +   S+  ++  RQ    L K+     G      T    G   ++  +    + + 
Sbjct  1895  KSRLIEASSLNDSVAMRQTFGNLYKTFHLNPGVV----TGSAVGCDPDLFWSKIPVMLDG  1950

Query  613   HLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG  671
             HL+ +DY   D ++  +    A L +L  K       ++    L N      S  +    
Sbjct  1951  HLIAFDYSGYDASLSPV--WFACLKLLLEKLGYSHKETNYIDYLCN------SHHLYRDK  2002

Query  672   SLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
               +V  GG  SG + T+  NS+ N     T  +      D
Sbjct  2003  HYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGID  2041


>sp|Q05057|POLG_PYFV1 Genome polyprotein OS=Parsnip yellow fleck 
virus (isolate P-121) OX=33762 PE=1 SV=1
Length=3027

 Score = 37.7 bits (86),  Expect = 0.73, Method: Composition-based stats.
 Identities = 30/188 (16%), Positives = 66/188 (35%), Gaps = 12/188 (6%)

Query  551   KNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVE  610
             K R  ++  V   +    R F    +  +A      +++G +     W ++  ++ S   
Sbjct  2458  KTRLFSILPVEF-NMHARRLFLDFNVFVMANRHKHGIMVGINPHSREWSDLAISLASF--  2514

Query  611   NPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMC  669
             +P+    D+   D    P+   +++ L          +      R+      ++      
Sbjct  2515  SPYGFNGDFANFDGMFHPSSFSMVSELANIFYGNFLSTERDNLTRMLTNRFSLM------  2568

Query  670   GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYE  729
              G++   PGG  SG   T   NS  N+   + +    L   +G +       N    +  
Sbjct  2569  KGAILRVPGGGPSGFPMTVIFNSFINLF-YLQSAWIMLARFNGRQDISHP-CNFPKYVRA  2626

Query  730   CLYRNRDV  737
             C+Y + ++
Sbjct  2627  CVYGDDNI  2634


>sp|Q04574|POL1_BAYMG Genome polyprotein 1 OS=Barley yellow mosaic 
virus (isolate Germany) OX=31728 PE=3 SV=1
Length=2412

 Score = 37.7 bits (86),  Expect = 0.77, Method: Composition-based stats.
 Identities = 64/379 (17%), Positives = 125/379 (33%), Gaps = 61/379 (16%)

Query  398   VAALTNNVAFQTVKPGNFNKDFYDFAVS-------KGFFKEGSSVELKHFFFAQDGNAAI  450
             +  +   +  + V  G  N D YDF          K F  E +   L +  + +D     
Sbjct  1634  IGQMNKGLIDKHVIVGE-NDDVYDFMREHPTFTWLKDFMNEYAPSVLSYSAYYKDLC---  1689

Query  451   SDYDYYRYNLPT---MCDIRQLLFVVEVVDKYFD--CYDGGCINANQVIVNNLDKSAGFP  505
                   +YN        +  +L    + + K  +      G +   Q +V+++  +    
Sbjct  1690  ------KYNRAKHVLTYNPEELHCATKGLIKMLEDAGLTQGSVRTPQQVVSDIQWNTSAG  1743

Query  506   FNKWGKARLYYDSMSYEDQDALFAYTKRN--------VIPTITQMNLK-YAISAKNRART  556
              +  GK R     +S ++   L    ++         V     +  L+        + R 
Sbjct  1744  PSYQGKKRDLCAHLSDDEVLHLAEVCRQQFLEGKSTGVWNGSLKAELRTIEKVEAEKTRV  1803

Query  557   VAGVSICSTMTNRQFHQKLLKSIAATR-GATVVIGTSKFYGGWHNMLKTVYSDVENPHLM  615
                  I S    + +     K   AT   A   +G +KF  GW      ++  +  P   
Sbjct  1804  FTASPITSLFAMKFYVDDFNKKFYATNLKAPHTVGINKFGRGWEK----LHDKLNRP---  1856

Query  616   GW-----DYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMC  669
             GW     D  + D ++ P    ++ ++   RKH            + +E   + + + + 
Sbjct  1857  GWLHGSGDGSRFDSSIDPFFFDVVKTI---RKHFLPSEHHKAIDLIYDEI--LNTTICLA  1911

Query  670   GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYE  729
              G +  K  G +SG  +T   N++          + A L    +K  D+ +  L  R   
Sbjct  1912  NGMVIRKNVGNNSGQPSTVVDNTL--------VLMTAFLYAYIHKTGDRELALLNERFIF  1963

Query  730   CLYRNRD---VDTDFVNEF  745
                 + +   +   F  EF
Sbjct  1964  VCNGDDNKFAISPQFDEEF  1982


>sp|Q02597|POLG_TUMVQ Genome polyprotein OS=Turnip mosaic virus 
(strain Quebec) OX=36396 PE=1 SV=2
Length=3163

 Score = 37.3 bits (85),  Expect = 0.88, Method: Composition-based stats.
 Identities = 41/230 (18%), Positives = 83/230 (36%), Gaps = 35/230 (15%)

Query  494   IVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYT-------KRNVIPTITQMNLK-  545
             I   L+  +       GK + Y+   + E ++ +   +       K  V     +  L+ 
Sbjct  2476  IFEALNMKSAVGALYKGKKKDYFAEFTPEVKEEILKQSCERLFLGKMGVWNGSLKAELRP  2535

Query  546   --YAISAKNRA------RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGG  597
                  + K R        T+ G  +C    N QF+   L+       A   +G +KFY G
Sbjct  2536  LEKVEANKTRTFTAAPLDTLLGGKVCVDDFNNQFYDHNLR-------APWDVGMTKFYCG  2588

Query  598   WHNMLKTVYSDVENPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLA  656
             W  +L+++    +       D  + D ++ P ++  + ++ L                L 
Sbjct  2589  WDRLLESLP---DGWVYCDADGSQFDSSLSPYLINAVLNIRLGFMEE----WDVGEVMLR  2641

Query  657   NECAQVLSEMVMC-GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVN  705
             N   +++   +    G+L  K  G +SG  +T   N+   +   +  N +
Sbjct  2642  NLYTEIVYTPISTPDGTLVKKFKGNNSGQPSTVVDNT---LMVILAVNYS  2688


>sp|P89657|RDRP_PMMVJ Replicase large subunit OS=Pepper mild mottle 
virus (strain Japan) OX=138663 PE=1 SV=1
Length=1612

 Score = 36.9 bits (84),  Expect = 1.0, Method: Composition-based stats.
 Identities = 25/164 (15%), Positives = 57/164 (35%), Gaps = 3/164 (2%)

Query  447   NAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPF  506
               +    D Y+ ++ T   + Q+  V + V+ +      G ++  Q   +          
Sbjct  1101  CVSSYLLDMYKVDVSTQYQL-QIESVYKGVNLFVAAPKTGDVSDMQYYYDKCLPGNSTIL  1159

Query  507   NKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAI-SAKNRARTVAGVSICST  565
             N++    +     S   +D +   +K   +P  ++  LK  I +A  + R    +     
Sbjct  1160  NEYDAVTMQIRENSLNVKDCVLDMSKSVPLPRESETTLKPVIRTAAEKPRKPGLLENLVA  1219

Query  566   MTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV  609
             M  R F+   L  +        ++   KF+  +    K    ++
Sbjct  1220  MIKRNFNSPELVGVVDIEDTASLV-VDKFFDAYLIKEKKKPKNI  1262


>sp|Q8V736|POLG_CACV4 Genome polyprotein OS=Canine calicivirus 
(strain 48) OX=292348 GN=ORF1 PE=3 SV=1
Length=1929

 Score = 36.9 bits (84),  Expect = 1.1, Method: Composition-based stats.
 Identities = 38/193 (20%), Positives = 72/193 (37%), Gaps = 17/193 (9%)

Query  531   TKRNVIPTITQMNLKYAISAKNRA-----RTVAGVSICSTMTNRQFHQKLLKSIAATRG-  584
             T+   IP   Q+ LK  +  K++      R + G  +   +      +++  +I A    
Sbjct  1558  TQGVPIPHEYQLGLKDELRPKDKIAVGKRRLIWGCDVGVAVVAASAFKEVSSAIMAMSEF  1617

Query  585   ATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTT  644
               + +G +        + K +Y      H    DY K D   P  +  M+  +L      
Sbjct  1618  DFIQVGINMDGTAVETLYKRLY--TPGTHRYCVDYSKWDSTQPPNVTRMSLELLRH----  1671

Query  645   CCSLSHRFYRLANECAQVLSEMVMCGGSLYVKP-GGTSSGDATTAYANSVFNICQAVTAN  703
                 + +   + +  A + S  +   G +  K  GG  SG   T+  NS+ N C  V + 
Sbjct  1672  ---FTDKSPVVDSAVATLSSPSIAVFGGVSFKTNGGLPSGMPLTSILNSL-NHCLLVGSA  1727

Query  704   VNALLSTDGNKIA  716
             +  +L + G  + 
Sbjct  1728  IIQVLESKGVDVN  1740


>sp|P16604|POLG_SVDVH Genome polyprotein OS=Swine vesicular disease 
virus (strain H/3 '76) OX=12076 PE=3 SV=3
Length=2185

 Score = 36.9 bits (84),  Expect = 1.1, Method: Composition-based stats.
 Identities = 45/220 (20%), Positives = 80/220 (36%), Gaps = 19/220 (9%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRN--VIPTITQMNLKYAIS---AKN  552
             L  SAG+P+   G  +    S    D   L     +    +P +T +  +   +   AK 
Sbjct  1835  LTTSAGYPYVALGIKKRDILSKKTRDLTKLKECMDKYGLNLPMVTYVKDELRSADKVAKG  1894

Query  553   RARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP  612
             ++R +   S+  ++  RQ    L K+     G    I T    G   ++  +    + + 
Sbjct  1895  KSRLIEASSLNDSVAMRQTFGNLYKTFHLNPG----IVTGSAVGCDPDVFWSKIPVMLDG  1950

Query  613   HLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG  671
             HL+ +DY   D ++  +      L +L  K       ++    L N      S  +    
Sbjct  1951  HLIAFDYSGYDASLSPV--WFTCLKLLLEKLGYTNKETNYIDYLCN------SHHLYRDK  2002

Query  672   SLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
               +V  GG  SG + T+  NS+ N     T  +      D
Sbjct  2003  HYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGID  2041


>sp|P13900|POLG_SVDVU Genome polyprotein OS=Swine vesicular disease 
virus (strain UKG/27/72) OX=12077 PE=1 SV=3
Length=2185

 Score = 36.9 bits (84),  Expect = 1.2, Method: Composition-based stats.
 Identities = 45/220 (20%), Positives = 80/220 (36%), Gaps = 19/220 (9%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRN--VIPTITQMNLKYAIS---AKN  552
             L  SAG+P+   G  +    S    D   L     +    +P +T +  +   +   AK 
Sbjct  1835  LTTSAGYPYVALGIKKRDILSKKTRDLTKLKECMDKYGLNLPMVTYVKDELRSADKVAKG  1894

Query  553   RARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP  612
             ++R +   S+  ++  RQ    L K+     G    I T    G   ++  +    + + 
Sbjct  1895  KSRLIEASSLNDSVAMRQTFGNLYKTFHLNPG----IVTGSAVGCDPDVFWSKIPVMLDG  1950

Query  613   HLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG  671
             HL+ +DY   D ++  +      L +L  K       ++    L N      S  +    
Sbjct  1951  HLIAFDYSGYDASLSPV--WFTCLKLLLEKLGYTNKETNYIDYLCN------SHHLYRDK  2002

Query  672   SLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
               +V  GG  SG + T+  NS+ N     T  +      D
Sbjct  2003  HYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGID  2041


>sp|P29813|POLG_EC11G Genome polyprotein OS=Echovirus 11 (strain 
Gregory) OX=31705 PE=1 SV=4
Length=2195

 Score = 36.9 bits (84),  Expect = 1.2, Method: Composition-based stats.
 Identities = 44/220 (20%), Positives = 80/220 (36%), Gaps = 19/220 (9%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRN--VIPTITQMNLKYAIS---AKN  552
             L  SAG+P+   G  +    S    D   L     +    +P +T +  +   +   AK 
Sbjct  1845  LTTSAGYPYVALGIKKRDILSRRTRDLTKLKECMDKYGLNLPMVTYVKDELRSADKVAKG  1904

Query  553   RARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP  612
             ++R +   S+  ++  RQ    L ++     G    I T    G   ++  +    + + 
Sbjct  1905  KSRLIEASSLNDSVAMRQTFGNLYRTFHLNPG----IVTGSAVGCDPDLFWSKIPVMLDG  1960

Query  613   HLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG  671
             HL+ +DY   D ++  +    A L +L  K       ++    L N       +      
Sbjct  1961  HLIAFDYSGYDASLSPV--WFACLKLLLEKLGYTHKETNYIDYLCNSHHLYRDK------  2012

Query  672   SLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
               Y + GG  SG + T+  NS+ N     T  +      D
Sbjct  2013  -HYFERGGMPSGYSGTSMFNSMINNIIIRTLMLKVYKGID  2051


>sp|Q66577|POLG_EC09B Genome polyprotein OS=Echovirus 9 (strain 
Barty) OX=103914 PE=3 SV=3
Length=2203

 Score = 36.6 bits (83),  Expect = 1.5, Method: Composition-based stats.
 Identities = 45/220 (20%), Positives = 81/220 (37%), Gaps = 19/220 (9%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRN--VIPTITQMNLKYAISAKN---  552
             L  SAG+P+   G  +    S   +D   L     +    +P +T +  +   + K+   
Sbjct  1853  LTTSAGYPYVALGIKKRDILSKRTKDLTKLKECMDKYGLNLPMVTYVKDELRSAEKSPRG  1912

Query  553   RARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP  612
             ++R +   S+  ++  RQ    L K      G    I T    G   ++  +    + + 
Sbjct  1913  KSRLIEASSLNDSVAMRQTFGNLYKVFHLNPG----IVTGSAVGCDPDVFWSKIPVMLDG  1968

Query  613   HLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG  671
             HL+ +DY   D ++  +    A L +L  K       ++    L N      S  +    
Sbjct  1969  HLIAFDYSGYDASLSPV--WFACLKLLLEKLGYSSKETNYIDYLCN------SHHLYRDK  2020

Query  672   SLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
               +V  GG  SG + T+  NS+ N     T  +      D
Sbjct  2021  HYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGID  2059


>sp|P11398|PYR1_MASLA Phycobilisome 32.1 kDa linker polypeptide, 
phycocyanin-associated, rod OS=Mastigocladus laminosus OX=83541 
GN=cpcC PE=1 SV=3
Length=286

 Score = 35.8 bits (81),  Expect = 1.5, Method: Composition-based stats.
 Identities = 27/119 (23%), Positives = 47/119 (39%), Gaps = 11/119 (9%)

Query  681  SSGDATTAYANSVFNICQA--VTANVNALLST-----DGNKIADKYVRNLQHRLYECLYR  733
            +S +   A  N+V+              L+S      DGN    ++VR++       LY+
Sbjct  27   ASREEVEAVINAVYRHVLGNDYIMASERLVSAESLLRDGNLTVREFVRSVAK---SELYK  83

Query  734  NRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNST-YASQGLVASIKNFKSVLYYQNN  791
             +     F   F     KH       D++ + F+   Y ++G  A I ++   + YQNN
Sbjct  84   KKFFYNSFQTRFIELNYKHLLGRAPYDESEIVFHLDLYQNKGYDAEIDSYIDSVEYQNN  142


>sp|Q9YLG5|POLG_CXB2O Genome polyprotein OS=Coxsackievirus B2 
(strain Ohio-1) OX=231473 PE=1 SV=3
Length=2187

 Score = 36.2 bits (82),  Expect = 1.8, Method: Composition-based stats.
 Identities = 36/163 (22%), Positives = 61/163 (37%), Gaps = 14/163 (9%)

Query  550   AKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV  609
             AK ++R +   S+  ++  RQ    L K+     G    I T    G   +M  +    +
Sbjct  1894  AKGKSRLIEASSLNDSVAMRQTFGNLYKAFHLNPG----IVTGSAVGCDPDMFWSKIPVM  1949

Query  610   ENPHLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVM  668
              + HL+ +DY   D ++  +    A L +L  K       ++    L N      S  + 
Sbjct  1950  LDGHLIAFDYSGYDASLSPV--WFACLKLLLEKLGYTHKETNYIDYLCN------SHHLY  2001

Query  669   CGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
                  +V  GG  SG + T+  NS+ N     T  +      D
Sbjct  2002  RDKHYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGID  2043


>sp|P03302|POLG_POL3L Genome polyprotein OS=Poliovirus type 3 
(strains P3/Leon/37 and P3/Leon 12A[1]B) OX=12088 PE=1 SV=3
Length=2206

 Score = 36.2 bits (82),  Expect = 2.1, Method: Composition-based stats.
 Identities = 40/223 (18%), Positives = 76/223 (34%), Gaps = 26/223 (12%)

Query  498   LDKSAGFPFNKWGKAR---LYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRA  554
             L  SAG+P+   GK +   L   +   ++   L        +P +T +  K  + +K + 
Sbjct  1857  LSTSAGYPYVAMGKKKRDILNKQTRDTKEMQRLLD-AYGINLPLVTYV--KDELRSKTKV  1913

Query  555   -----RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV  609
                  R +   S+  ++  R     L  +    R   VV G++   G   ++  +    +
Sbjct  1914  EQGKSRLIEASSLNDSVAMRMAFGNLYAAF--HRNPGVVTGSA--VGCDPDLFWSKIPVL  1969

Query  610   ENPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVM  668
                 L  +DY   D ++ P       +L +  +          +    N    +    + 
Sbjct  1970  MEEKLFAFDYTGYDASLSPA---WFEALKMVLEKIGFGDRVD-YIDYLNHSHHLYKNKIY  2025

Query  669   CGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
             C        GG  SG + T+  NS+ N     T  +      D
Sbjct  2026  CV------KGGMPSGCSGTSIFNSMINNLIIRTLLLKTYKGID  2062


>sp|P12916|POLG_HRV1B Genome polyprotein OS=Human rhinovirus 1B 
OX=2777147 PE=1 SV=3
Length=2157

 Score = 36.2 bits (82),  Expect = 2.3, Method: Composition-based stats.
 Identities = 39/205 (19%), Positives = 72/205 (35%), Gaps = 23/205 (11%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKR--NVIPTIT----QMNLKYAISAK  551
             L+ SAGFP+   G  +    +   +D   L     +    +P IT    ++  K  ISA 
Sbjct  1809  LNTSAGFPYVTMGIKKRDLINNKTKDISRLKEALDKYGVDLPMITFLKDELRKKEKISA-  1867

Query  552   NRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVEN  611
              + R +   SI  T+  R     L        G   V+  S            +   ++ 
Sbjct  1868  GKTRVIEASSINDTILFRTTFGNLFSKFHLNPG---VVTGSAVGCDPETFWSKIPVMLDG  1924

Query  612   PHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCG  670
               +M +DY   D ++ P   + +  ++                  +N   ++     +  
Sbjct  1925  DCIMAFDYTNYDGSIHPVWFQALKKVL------------ENLSFQSNLIDRLCYSKHLFK  1972

Query  671   GSLYVKPGGTSSGDATTAYANSVFN  695
              + Y   GG  SG + T+  N++ N
Sbjct  1973  STYYEVAGGVPSGCSGTSIFNTMIN  1997


>sp|P29098|RDRP_PMMVS Replicase large subunit OS=Pepper mild mottle 
virus (strain Spain) OX=31745 PE=3 SV=2
Length=1612

 Score = 35.8 bits (81),  Expect = 2.6, Method: Composition-based stats.
 Identities = 25/164 (15%), Positives = 57/164 (35%), Gaps = 3/164 (2%)

Query  447   NAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPF  506
               +    D Y+ ++ T   + Q+  V + V+ +      G ++  Q   +          
Sbjct  1101  CVSSYLLDMYKVDVSTQXQL-QIESVYKGVNLFVAAPKTGDVSDMQYYYDKCLPGNSTIL  1159

Query  507   NKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAI-SAKNRARTVAGVSICST  565
             N++    +     S   +D +   +K   +P  ++  LK  I +A  + R    +     
Sbjct  1160  NEYDAVTMQIRENSLNVKDCVLDMSKSVPLPRESETTLKPVIRTAAEKPRKPGLLENLVA  1219

Query  566   MTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV  609
             M  R F+   L  +        ++   KF+  +    K    ++
Sbjct  1220  MIKRNFNSPELVGVVDIEDTASLV-VDKFFDAYLIKEKKKPKNI  1262


>sp|Q82122|POLG_HRV16 Genome polyprotein OS=Human rhinovirus 16 
OX=31708 PE=1 SV=4
Length=2153

 Score = 35.8 bits (81),  Expect = 2.7, Method: Composition-based stats.
 Identities = 41/203 (20%), Positives = 67/203 (33%), Gaps = 19/203 (9%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQDAL-FAYTKRNV-IPTITQMN---LKYAISAKN  552
             L+ SAG+P+   G  +    +   +D   L  A  K +V +P IT +     K    A  
Sbjct  1805  LNTSAGYPYVTLGIKKKDLINNKTKDISKLKLALDKYDVDLPMITFLKDELRKKDKIAAG  1864

Query  553   RARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP  612
             + R +   SI  T+  R  +  L        G                    +   ++  
Sbjct  1865  KTRVIEASSINDTILFRTVYGNLFSKFHLNPGVVTGCAV---GCDPETFWSKIPLMLDGD  1921

Query  613   HLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGS  672
              +M +DY   D ++  +     +  L               RL N      S       +
Sbjct  1922  CIMAFDYTNYDGSIHPI--WFKA--LGMVLDNLSFNPTLINRLCNSKHIFKS-------T  1970

Query  673   LYVKPGGTSSGDATTAYANSVFN  695
              Y   GG  SG + T+  NS+ N
Sbjct  1971  YYEVEGGVPSGCSGTSIFNSMIN  1993


>sp|P27641|XRCC5_MOUSE X-ray repair cross-complementing protein 
5 OS=Mus musculus OX=10090 GN=Xrcc5 PE=1 SV=4
Length=732

 Score = 35.4 bits (80),  Expect = 3.0, Method: Composition-based stats.
 Identities = 14/62 (23%), Positives = 28/62 (45%), Gaps = 3/62 (5%)

Query  844  VDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDEL---TGHML  900
            +DD++ +   +       +  D +P +K PN E+  ++   L     L + L     H+L
Sbjct  454  IDDLIDSMSLVKKNEEEDIVEDLFPTSKIPNPEFQRLYQCLLHRALHLQERLPPIQQHIL  513

Query  901  DM  902
            +M
Sbjct  514  NM  515


>sp|Q03053|POLG_CXB5P Genome polyprotein OS=Coxsackievirus B5 
(strain Peterborough / 1954/UK/85) OX=103907 PE=1 SV=3
Length=2185

 Score = 35.4 bits (80),  Expect = 3.1, Method: Composition-based stats.
 Identities = 35/163 (21%), Positives = 61/163 (37%), Gaps = 14/163 (9%)

Query  550   AKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV  609
             AK ++R +   S+  ++  RQ    L K+     G    I T    G   ++  +    +
Sbjct  1892  AKGKSRLIEASSLNDSVAMRQTFGNLYKTFHLNPG----IVTGSAVGCDPDLFWSKIPVL  1947

Query  610   ENPHLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVM  668
              + HL+ +DY   D ++  +    A L +L  K       ++    L N      S  + 
Sbjct  1948  LDGHLIAFDYSGYDASLSPV--WFACLKLLLEKLGYTHKETNYIDYLCN------SHHLY  1999

Query  669   CGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
                  +V  GG  SG + T+  NS+ N     T  +      D
Sbjct  2000  RDKHYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGID  2041


>sp|Q66575|POLG_EC12T Genome polyprotein OS=Echovirus 12 (strain 
Travis) OX=103909 PE=1 SV=4
Length=2193

 Score = 35.4 bits (80),  Expect = 3.1, Method: Composition-based stats.
 Identities = 45/220 (20%), Positives = 79/220 (36%), Gaps = 19/220 (9%)

Query  498   LDKSAGFPFNKWG--KARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAIS---AKN  552
             L  SAG+P+   G  K  +         +           +P +T +  +   S   AK 
Sbjct  1843  LTTSAGYPYVAIGIKKRDILSKKTKDLTKLKECMDKYGLNLPMVTYVKDELRSSEKVAKG  1902

Query  553   RARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP  612
             ++R +   S+  ++  RQ    L K+     G    I T    G   ++  +    + + 
Sbjct  1903  KSRLIEASSLNDSVAMRQTFGNLYKTFHLNPG----IVTGSAVGCDPDLFWSKIPVMLDG  1958

Query  613   HLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG  671
             HL+ +DY   D ++  +    A L +L  K       ++    L N      S  +    
Sbjct  1959  HLIAFDYSGYDASLSPV--WFACLKLLLEKLGYTHRETNYIDYLCN------SHHLYRDK  2010

Query  672   SLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
               +V  GG  SG + T+  NS+ N     T  +      D
Sbjct  2011  HYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGID  2049


>sp|Q8V5E0|POL1_BRAV RNA1 polyprotein OS=Blackcurrant reversion 
association virus OX=65743 PE=3 SV=1
Length=2094

 Score = 35.4 bits (80),  Expect = 3.3, Method: Composition-based stats.
 Identities = 33/186 (18%), Positives = 66/186 (35%), Gaps = 11/186 (6%)

Query  518   SMSYEDQDALFAYTKRNVIPTITQ---MNLKYAISAKNRARTVAGVSICSTMTNRQFHQK  574
             +M YE        +   ++   T          I  K + R  + + +   +  R+    
Sbjct  1559  AMRYEALQRDCFTSVPEMVCIETPKDECLPLRKICIKPKTRLFSILPLEFNLLLRKKFLH  1618

Query  575   LLKSIAATRGA-TVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCD-RAMPNMLRI  632
                S+   R      +G + +   W  +L+ +    ++   +  DY   D      +L  
Sbjct  1619  FSSSLQMHRDTLPTQVGVNPYSREWGELLQRL--RAQSSVAINCDYASFDGLLTGQILEK  1676

Query  633   MASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANS  692
             + +++         S + +  RL N    +++   +CG  +Y    G  SG A T   NS
Sbjct  1677  IGTMI---NKMYIGSEASKIQRL-NLLMSIVNRKSICGARVYEVRAGIPSGCALTVLLNS  1732

Query  693   VFNICQ  698
             +FN   
Sbjct  1733  IFNEFL  1738


>sp|P06210|POLG_POL2L Genome polyprotein OS=Poliovirus type 2 
(strain Lansing) OX=12084 PE=1 SV=3
Length=2207

 Score = 35.4 bits (80),  Expect = 3.4, Method: Composition-based stats.
 Identities = 39/223 (17%), Positives = 72/223 (32%), Gaps = 26/223 (12%)

Query  498   LDKSAGFPFNKWGKAR---LYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRA  554
             L  SAG+P+   GK +   L   +   ++   L   T    +P +T +  K  + +K + 
Sbjct  1858  LSTSAGYPYVAMGKKKRDILNKQTRDTKEMQRLLD-TYGINLPLVTYV--KDELRSKTKV  1914

Query  555   -----RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV  609
                  R +   S+  ++  R     L  +     G      T    G   ++  +    +
Sbjct  1915  EQGKSRLIEASSLNDSVAMRMAFGNLYAAFHKNPGVV----TGSAVGCDPDLFWSKIPVL  1970

Query  610   ENPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVM  668
                 L  +DY   D ++ P       +L +  +          +    N    +      
Sbjct  1971  MEEKLFAFDYTGYDASLSPA---WFEALKMVLEKIGFGDRVD-YIDYLNHSHHLYKNKTY  2026

Query  669   CGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
             C        GG  SG + T+  NS+ N     T  +      D
Sbjct  2027  CV------KGGMPSGCSGTSIFNSMINNLIIRTLLLKTYKGID  2063


>sp|Q09725|MIS4_SCHPO Sister chromatid cohesion protein mis4 OS=Schizosaccharomyces 
pombe (strain 972 / ATCC 24843) OX=284812 
GN=mis4 PE=1 SV=2
Length=1587

 Score = 35.4 bits (80),  Expect = 3.4, Method: Composition-based stats.
 Identities = 23/94 (24%), Positives = 36/94 (38%), Gaps = 5/94 (5%)

Query  370  ELLVYAADPAMHAASGNLLLDKRTT----CFSVAALTNNVAFQTVKPGNFNKDFYDFAVS  425
             L++   +     +S N  LD  +       ++  L+         P NFN D   F  S
Sbjct  619  NLVMTVTNDKQAVSSKNAALDLISLIVNKVLALFDLSLFEKHNIPAPTNFN-DIISFIPS  677

Query  426  KGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYN  459
                 E S V   HF+F   G+ ++ +   Y YN
Sbjct  678  ITRLNELSQVSFNHFYFLCKGDISLENILPYNYN  711


>sp|P06209|POLG_POL32 Genome polyprotein OS=Poliovirus type 3 
(strain 23127) OX=12087 PE=3 SV=3
Length=2206

 Score = 35.4 bits (80),  Expect = 3.4, Method: Composition-based stats.
 Identities = 39/223 (17%), Positives = 72/223 (32%), Gaps = 26/223 (12%)

Query  498   LDKSAGFPFNKWGKAR---LYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRA  554
             L  SAG+P+   GK +   L   +   ++   L   T    +P +T +  K  + +K + 
Sbjct  1857  LSTSAGYPYVTMGKKKRDILNKQTRDTKEMQRLLD-TYGINLPLVTYV--KDELRSKTKV  1913

Query  555   -----RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV  609
                  R +   S+  ++  R     L  +     G      T    G   ++  +    +
Sbjct  1914  EQGKSRLIEASSLNDSVAMRMAFGNLYAAFHKNPGVV----TGSAVGCDPDLFWSKIPVL  1969

Query  610   ENPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVM  668
                 L  +DY   D ++ P       +L +  +          +    N    +      
Sbjct  1970  MEEKLFAFDYTGYDASLSPA---WFEALKMVLEKIGFGDRVD-YIDYLNHSHHLYKNKTY  2025

Query  669   CGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
             C        GG  SG + T+  NS+ N     T  +      D
Sbjct  2026  CV------KGGMPSGCSGTSIFNSMINNLIIRTLLLKTYKGID  2062


>sp|Q12018|CDC53_YEAST Cell division control protein 53 OS=Saccharomyces 
cerevisiae (strain ATCC 204508 / S288c) OX=559292 
GN=CDC53 PE=1 SV=1
Length=815

 Score = 35.0 bits (79),  Expect = 3.7, Method: Composition-based stats.
 Identities = 35/174 (20%), Positives = 69/174 (40%), Gaps = 17/174 (10%)

Query  743  NEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEAKCWTE  802
            +E Y  L+ +    IL+       NS    Q  V   K F     + N+ F    + W +
Sbjct  84   SEIYEKLKNYLKNYILN---FKQSNSETFLQFYVKRWKRFTIGAIFLNHAFDYMNRYWVQ  140

Query  803  TDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIV---------KTDGT  853
             + + G       +T+ +    + ++    DPS+ +     +D +          +++ +
Sbjct  141  KERSDGKRHIFDVNTLCLMTWKEVMF----DPSKDVLINELLDQVTLGREGQIIQRSNIS  196

Query  854  LMIERFVSLAIDAYPLTKHPNQEYADVFHL-YLQYIRKLHDELTGHMLDMYSVM  906
              I+  V+L ID   L K     Y  VF   +L+  ++ + + T   L+ +SV 
Sbjct  197  TAIKSLVALGIDPQDLKKLNLNVYIQVFEKPFLKKTQEYYTQYTNDYLEKHSVT  250


>sp|P22055|POLG_CXA21 Genome polyprotein OS=Coxsackievirus A21 
(strain Coe) OX=12070 PE=1 SV=3
Length=2206

 Score = 35.4 bits (80),  Expect = 3.7, Method: Composition-based stats.
 Identities = 37/207 (18%), Positives = 70/207 (34%), Gaps = 26/207 (13%)

Query  498   LDKSAGFPFNKWGKAR---LYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRA  554
             L  SAG+P+   GK +   L   +   ++   L   T    +P +T +  K  + +K + 
Sbjct  1857  LSTSAGYPYVAMGKKKRDILDKQTRDTKEMQRLLD-TYGINLPLVTYV--KDELRSKTKV  1913

Query  555   -----RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV  609
                  R +   S+  ++  R     L  +     G      T    G   ++  +    +
Sbjct  1914  EQGKSRLIEASSLNDSVAMRMAFGNLYAAFHKNPGVV----TGSAVGCDPDLFWSKIPVL  1969

Query  610   ENPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVM  668
                 L  +DY   D ++ P       +L +  +     +    +    N    +      
Sbjct  1970  MEEKLFAFDYTGYDASLSPA---WFEALKMVLEKIGFGNRVD-YIDYLNHSHHLYKNKTY  2025

Query  669   CGGSLYVKPGGTSSGDATTAYANSVFN  695
             C        GG  SG + T+  NS+ N
Sbjct  2026  CV------KGGMPSGCSGTSIFNSMIN  2046


>sp|P36290|POLG_CXA24 Genome polyprotein OS=Coxsackievirus A24 
(strain EH24/70) OX=36404 PE=3 SV=3
Length=2214

 Score = 35.4 bits (80),  Expect = 3.9, Method: Composition-based stats.
 Identities = 39/223 (17%), Positives = 72/223 (32%), Gaps = 26/223 (12%)

Query  498   LDKSAGFPFNKWGKAR---LYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRA  554
             L  SAG+P+   GK +   L   +   ++   L   T    +P +T +  K  + +K + 
Sbjct  1865  LSTSAGYPYVAMGKKKRDILNKQTRDTKEMQRLLD-TYGINLPLVTYV--KDELRSKTKV  1921

Query  555   -----RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV  609
                  R +   S+  ++  R     L  +     G      T    G   ++  +    +
Sbjct  1922  EQGKSRLIEASSLNDSVAMRMAFGNLYAAFHKNPGVV----TGSAVGCDPDLFWSKIPVL  1977

Query  610   ENPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVM  668
                 L  +DY   D ++ P       +L +  +          +    N    +      
Sbjct  1978  MEEKLFAFDYTGYDASLSPA---WFEALKMVLEKIGFGDRVD-YIDYLNHSHHLYKNKTY  2033

Query  669   CGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
             C        GG  SG + T+  NS+ N     T  +      D
Sbjct  2034  CV------KGGMPSGCSGTSIFNSMINNLIIRTLLLKTYKGID  2070


>sp|P03600|POL1_CPMVS RNA1 polyprotein OS=Cowpea mosaic virus 
(strain SB) OX=928299 PE=1 SV=1
Length=1866

 Score = 35.0 bits (79),  Expect = 4.1, Method: Composition-based stats.
 Identities = 26/174 (15%), Positives = 60/174 (34%), Gaps = 8/174 (5%)

Query  551   KNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVE  610
             K R  T+  +   + +  R+F   +   +A     +  +G + +   W  +   +    +
Sbjct  1371  KTRCFTILPMEY-NLVVRRKFLNFVRFIMANRHRLSCQVGINPYSMEWSRLAARMKE--K  1427

Query  611   NPHLMGWDYPKCDRAMP-NMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMC  669
                ++  DY   D  +   ++ ++AS++    +  C           N      S + +C
Sbjct  1428  GNDVLCCDYSSFDGLLSKQVMDVIASMI----NELCGGEDQLKNARRNLLMACCSRLAIC  1483

Query  670   GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNL  723
               +++    G  SG   T   NS+FN           +      ++  +    L
Sbjct  1484  KNTVWRVECGIPSGFPMTVIVNSIFNEILIRYHYKKLMREQQAPELMVQSFDKL  1537


>sp|Q5ZM60|CCPG1_CHICK Cell cycle progression protein 1 OS=Gallus 
gallus OX=9031 GN=CCPG1 PE=2 SV=1
Length=801

 Score = 35.0 bits (79),  Expect = 4.3, Method: Composition-based stats.
 Identities = 24/117 (21%), Positives = 42/117 (36%), Gaps = 12/117 (10%)

Query  689  YANSVFNICQAVTANVNALL----------STDGNKIADKYVRNLQHRLYECLYRNRDVD  738
            +++SV +  +        +L            + NK A  + R   H LYE L ++    
Sbjct  525  FSDSVKSTFRHFKDTTKTILDEKEKKPNEKKYEANKKARTFYRE--HNLYENLKQSHYRR  582

Query  739  TDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMS  795
             +   +F    R HF+      D+  C N    S+     +K    +    N  F+S
Sbjct  583  PNVPKDFRDGRRHHFTAFEKDTDSQKCLNDPLCSRKHQFDLKGCSGIFECANQEFVS  639


>sp|B1KEK5|PYRC_SHEWM Dihydroorotase OS=Shewanella woodyi (strain 
ATCC 51908 / MS32) OX=392500 GN=pyrC PE=3 SV=1
Length=344

 Score = 34.6 bits (78),  Expect = 4.4, Method: Composition-based stats.
 Identities = 38/178 (21%), Positives = 69/178 (39%), Gaps = 23/178 (13%)

Query  443  AQDGNAAISDYDYYRYNLPTMCDIRQLLFVV-EVVDKYFDCYDGGCINANQVIVNNLDKS  501
              + +AA+   D       TM +I  LL V  EV + + D +D   +     I  NL + 
Sbjct  105  TTNSDAAVKGLDALFPIFETMAEIGMLLLVHGEVTESHIDIFDREAL----FIERNLSRI  160

Query  502  AGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGV-  560
                 + + + ++ ++ ++ ++          NV  TIT  +L    +       V GV 
Sbjct  161  ----VDAFPQLKVVFEHITTKEAAEFVTSASDNVAATITPQHLLLNRND----LLVGGVR  212

Query  561  --SICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMG  616
              + C  +  R  HQ+ L++  AT       G+SKF+ G  +     +         G
Sbjct  213  PHNFCLPVLKRNIHQEALRAAVAT-------GSSKFFLGTDSAPHEKHRKESACGCAG  263


>sp|P23008|POLG_HRV1A Genome polyprotein OS=Human rhinovirus 1A 
OX=12134 PE=1 SV=3
Length=2157

 Score = 35.0 bits (79),  Expect = 4.6, Method: Composition-based stats.
 Identities = 36/204 (18%), Positives = 69/204 (34%), Gaps = 21/204 (10%)

Query  498   LDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKR--NVIPTITQMN---LKYAISAKN  552
             L+ SAGFP+   G  +    +   +D   L     +    +P IT +     K    +  
Sbjct  1809  LNTSAGFPYVTMGIKKRDLINNKTKDISRLKEALDKYGVDLPMITFLKDELRKKEKISTG  1868

Query  553   RARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVENP  612
             + R +   SI  T+  R     L        G   V+  S            +   ++  
Sbjct  1869  KTRVIEASSINDTILFRTTFGNLFSKFHLNPG---VVTGSAVGCDPETFWSKIPVMLDGD  1925

Query  613   HLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG  671
              +M +DY   D ++ P   + +  ++                  +N   ++     +   
Sbjct  1926  CIMAFDYTNYDGSIHPVWFQALKKVL------------ENLSFQSNLIDRLCYSKHLFKS  1973

Query  672   SLYVKPGGTSSGDATTAYANSVFN  695
             + Y   GG  SG + T+  N++ N
Sbjct  1974  TYYEVAGGVPSGCSGTSIFNTMIN  1997


>sp|P03300|POLG_POL1M Genome polyprotein OS=Poliovirus type 1 
(strain Mahoney) OX=12081 PE=1 SV=3
Length=2209

 Score = 35.0 bits (79),  Expect = 5.2, Method: Composition-based stats.
 Identities = 40/223 (18%), Positives = 70/223 (31%), Gaps = 26/223 (12%)

Query  498   LDKSAGFPFNKWGKAR---LYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRA  554
             L  SAG+P+   GK +   L   +   ++   L   T    +P +T +  K  + +K + 
Sbjct  1860  LSTSAGYPYVAMGKKKRDILNKQTRDTKEMQKLLD-TYGINLPLVTYV--KDELRSKTKV  1916

Query  555   -----RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV  609
                  R +   S+  ++  R     L  +     G   VI  S                +
Sbjct  1917  EQGKSRLIEASSLNDSVAMRMAFGNLYAAFHKNPG---VITGSAVGCDPDLFWS-KIPVL  1972

Query  610   ENPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVM  668
                 L  +DY   D ++ P       +L +  +          +    N    +      
Sbjct  1973  MEEKLFAFDYTGYDASLSPA---WFEALKMVLEKIGFGDRVD-YIDYLNHSHHLYKNKTY  2028

Query  669   CGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
             C        GG  SG + T+  NS+ N     T  +      D
Sbjct  2029  CV------KGGMPSGCSGTSIFNSMINNLIIRTLLLKTYKGID  2065


>sp|P03301|POLG_POL1S Genome polyprotein OS=Poliovirus type 1 
(strain Sabin) OX=12082 PE=1 SV=3
Length=2209

 Score = 34.6 bits (78),  Expect = 5.5, Method: Composition-based stats.
 Identities = 40/223 (18%), Positives = 70/223 (31%), Gaps = 26/223 (12%)

Query  498   LDKSAGFPFNKWGKAR---LYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRA  554
             L  SAG+P+   GK +   L   +   ++   L   T    +P +T +  K  + +K + 
Sbjct  1860  LSTSAGYPYVAMGKKKRDILNKQTRDTKEMQKLLD-TYGINLPLVTYV--KDELRSKTKV  1916

Query  555   -----RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV  609
                  R +   S+  ++  R     L  +     G   VI  S                +
Sbjct  1917  EQGKSRLIEASSLNDSVAMRMAFGNLYAAFHKNPG---VITGSAVGCDPDLFWS-KIPVL  1972

Query  610   ENPHLMGWDYPKCDRAM-PNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVM  668
                 L  +DY   D ++ P       +L +  +          +    N    +      
Sbjct  1973  MEEKLFAFDYTGYDASLSPA---WFEALEMVLEKIGFGDRVD-YIDYLNHSHHLYKNKTY  2028

Query  669   CGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
             C        GG  SG + T+  NS+ N     T  +      D
Sbjct  2029  CV------KGGMPSGCSGTSIFNSMINNLIIRTLLLKTYKGID  2065


>sp|Q86887|POLG_CXB4E Genome polyprotein OS=Coxsackievirus B4 
(strain E2) OX=103905 PE=3 SV=3
Length=2183

 Score = 34.6 bits (78),  Expect = 5.8, Method: Composition-based stats.
 Identities = 35/163 (21%), Positives = 59/163 (36%), Gaps = 14/163 (9%)

Query  550   AKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV  609
             AK ++R +   S+  ++  RQ    L K+     G    I T    G   ++  +    +
Sbjct  1890  AKGKSRLIEASSLNDSVAMRQTFGNLYKTFHLNPG----IVTGSAVGCDPDLFWSKIPVM  1945

Query  610   ENPHLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVM  668
              + HL  +DY   D ++  +    A L +L  K       ++    L N      S  + 
Sbjct  1946  LDGHLRAFDYSGYDASLSPV--WFACLKLLLEKLGYSHKETNYIDYLCN------SHHLY  1997

Query  669   CGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
                  +V  GG  SG + T+  NS+ N     T         D
Sbjct  1998  RDKHYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMFKVYKGID  2039


>sp|O91734|POLG_EC01F Genome polyprotein OS=Echovirus 1 (strain 
Human/Egypt/Farouk/1951) OX=103908 PE=1 SV=4
Length=2184

 Score = 34.6 bits (78),  Expect = 6.3, Method: Composition-based stats.
 Identities = 35/163 (21%), Positives = 61/163 (37%), Gaps = 14/163 (9%)

Query  550   AKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV  609
             AK ++R +   S+  ++  RQ    L K+     G    I T    G   ++  +    +
Sbjct  1891  AKGKSRLIEASSLNDSVAMRQTFGNLYKTFHLNPG----IVTGSAVGCDPDVFWSKIPVM  1946

Query  610   ENPHLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVM  668
              + HL+ +DY   D ++  +    A L +L  K       ++    L N      S  + 
Sbjct  1947  LDGHLIAFDYSGYDASLSPV--WFACLKLLLEKLGYTNKETNYIDYLCN------SHHLY  1998

Query  669   CGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
                  +V  GG  SG + T+  NS+ N     T  +      D
Sbjct  1999  RDKHYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGID  2040


>sp|Q9DSN9|POLN_ABPVR Replicase polyprotein OS=Acute bee paralysis 
virus (strain Rothamsted) OX=1217067 GN=ORF1 PE=4 SV=1
Length=1906

 Score = 34.6 bits (78),  Expect = 6.6, Method: Composition-based stats.
 Identities = 35/247 (14%), Positives = 78/247 (32%), Gaps = 34/247 (14%)

Query  553   RARTVAGVSICSTMTNRQFHQKLLKSIAATRGAT-VVIGTSKFYGGWHNMLKTVYSDVEN  611
             + R  +   +  ++T R ++   +  +   R    V IGT+ +   W+  ++ +      
Sbjct  1580  KTRVFSNGPMDFSITFRMYYLGFIAHLMENRITNEVSIGTNVYSQDWNKTVRKL--KTMG  1637

Query  612   PHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGG  671
             P ++  D+   D ++   +    + +    +      +   + L      V +   +CG 
Sbjct  1638  PKVIAGDFSTFDGSLNVCIMEKFADLANEFYDDGSENALIRHVLL---MDVYNSTHICGD  1694

Query  672   SLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECL  731
             S+Y+      SG+  T   N   N                               ++E  
Sbjct  1695  SVYMMTHSQPSGNPATTPLNCFINSM-------------------------GLRMVFELC  1729

Query  732   YRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNN  791
              +                 KH S++   DD V+ F+   +    + +I      L +   
Sbjct  1730  SKKYSALNGTKCYVMKDFSKHVSIVSYGDDNVINFSDEVSEWFNMETITEAFEKLGF---  1786

Query  792   VFMSEAK  798
              +  E K
Sbjct  1787  TYTDELK  1793


>sp|Q75BF1|SET5_EREGS Histone-lysine N-methyltransferase SET5 
OS=Eremothecium gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 
9923 / NRRL Y-1056) OX=284811 GN=SET5 PE=3 SV=2
Length=488

 Score = 33.9 bits (76),  Expect = 7.3, Method: Composition-based stats.
 Identities = 21/89 (24%), Positives = 38/89 (43%), Gaps = 5/89 (6%)

Query  844  VDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLH-DELTGHMLDM  902
            VD         M E    L  DA+PL K    EY   F  +L+Y+ K + +++ G +  +
Sbjct  283  VDLTANAQSVCMWEEGYGLFCDAFPLAK---DEYDLDFEKFLRYVGKFNLNQVNGQIYML  339

Query  903  YSVMLTNDNTSRYWE-PEFYEAMYTPHTV  930
             S +  +   + Y+E    +  +Y    +
Sbjct  340  LSHLNHSCEPNIYYELEGHHINVYARKEI  368


>sp|P08292|POLG_CXB4J Genome polyprotein OS=Coxsackievirus B4 
(strain JVB / Benschoten / New York/51) OX=103906 PE=1 SV=4
Length=2183

 Score = 34.2 bits (77),  Expect = 7.4, Method: Composition-based stats.
 Identities = 35/163 (21%), Positives = 61/163 (37%), Gaps = 14/163 (9%)

Query  550   AKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV  609
             AK ++R +   S+  ++  RQ    L K+     G    I T    G   ++  +    +
Sbjct  1890  AKGKSRLIEASSLNDSVAMRQTFGNLYKAFHLNPG----IVTGSAVGCDPDVFWSKIPVM  1945

Query  610   ENPHLMGWDYPKCDRAMPNMLRIMASL-VLARKHTTCCSLSHRFYRLANECAQVLSEMVM  668
              + HL+ +DY   D ++  +    A L +L  K       ++    L N      S  + 
Sbjct  1946  LDGHLIAFDYSGYDASLSPV--WFACLKLLLEKLGYTHKETNYIDYLCN------SHHLY  1997

Query  669   CGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTD  711
                  +V  GG  SG + T+  NS+ N     T  +      D
Sbjct  1998  RDKHYFV-RGGMPSGCSGTSIFNSMINNIIIRTLMLKVYKGID  2039



Lambda      K        H        a         alpha
   0.318    0.136    0.386    0.792     4.96 

Gapped
Lambda      K        H        a         alpha    sigma
   0.267   0.0415    0.140     1.90     42.6     43.6 

Effective search space used: 107377657200


  Database: uniprot_sprot.fasta
    Posted date:  Apr 3, 2024  12:05 PM
  Number of letters in database: 206,678,396
  Number of sequences in database:  571,282



Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Neighboring words threshold: 11
Window for multiple hits: 40