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
571,609 sequences; 206,878,625 total letters
Results from round 1
Query= YP_009725300.1 nsp4 [Severe acute respiratory syndrome coronavirus
2]
Length=500
Score E
Sequences producing significant alignments: (Bits) Value
sp|P0DTC1|R1A_SARS2 Replicase polyprotein 1a OS=Severe acute resp... 1043 0.0
sp|P0DTD1|R1AB_SARS2 Replicase polyprotein 1ab OS=Severe acute re... 1039 0.0
sp|P0C6F8|R1A_BCHK3 Replicase polyprotein 1a OS=Bat coronavirus H... 895 0.0
sp|P0C6T7|R1A_BCRP3 Replicase polyprotein 1a OS=Bat coronavirus R... 894 0.0
sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus... 892 0.0
sp|P0C6F5|R1A_BC279 Replicase polyprotein 1a OS=Bat coronavirus 2... 891 0.0
sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus... 891 0.0
sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus... 888 0.0
sp|P0C6U8|R1A_SARS Replicase polyprotein 1a OS=Severe acute respi... 881 0.0
sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute res... 878 0.0
sp|P0C6T6|R1A_BCHK9 Replicase polyprotein 1a OS=Bat coronavirus H... 439 2e-136
sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus... 437 6e-136
sp|K9N638|R1A_MERS1 Replicase polyprotein 1a OS=Middle East respi... 407 2e-125
sp|K9N7C7|R1AB_MERS1 Replicase polyprotein 1ab OS=Middle East res... 407 2e-125
sp|P0C6U7|R1A_CVHOC Replicase polyprotein 1a OS=Human coronavirus... 405 9e-125
sp|P0C6T8|R1A_CVBEN Replicase polyprotein 1a OS=Bovine coronaviru... 404 1e-124
sp|P0C6X6|R1AB_CVHOC Replicase polyprotein 1ab OS=Human coronavir... 404 1e-124
sp|P0C6T9|R1A_CVBLU Replicase polyprotein 1a OS=Bovine coronaviru... 404 1e-124
sp|P0C6W8|R1AB_CVBLU Replicase polyprotein 1ab OS=Bovine coronavi... 404 2e-124
sp|P0C6W7|R1AB_CVBEN Replicase polyprotein 1ab OS=Bovine coronavi... 404 2e-124
sp|P0C6U0|R1A_CVBM Replicase polyprotein 1a OS=Bovine coronavirus... 402 7e-124
sp|P0C6T5|R1A_BCHK5 Replicase polyprotein 1a OS=Bat coronavirus H... 402 1e-123
sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus... 402 1e-123
sp|P0C6W9|R1AB_CVBM Replicase polyprotein 1ab OS=Bovine coronavir... 401 2e-123
sp|P0C6U5|R1A_CVHN5 Replicase polyprotein 1a OS=Human coronavirus... 399 9e-123
sp|P0C6U4|R1A_CVHN2 Replicase polyprotein 1a OS=Human coronavirus... 399 1e-122
sp|P0C6U1|R1A_CVBQ Replicase polyprotein 1a OS=Bovine coronavirus... 399 1e-122
sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavir... 399 1e-122
sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavir... 399 1e-122
sp|P0C6X0|R1AB_CVBQ Replicase polyprotein 1ab OS=Bovine coronavir... 398 3e-122
sp|P0C6V1|R1A_CVMJH Replicase polyprotein 1a OS=Murine coronaviru... 392 3e-120
sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavi... 392 3e-120
sp|P0C6U3|R1A_CVHN1 Replicase polyprotein 1a OS=Human coronavirus... 391 4e-120
sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavi... 391 5e-120
sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavir... 391 6e-120
sp|P0C6V0|R1A_CVMA5 Replicase polyprotein 1a OS=Murine coronaviru... 391 6e-120
sp|P0C6U9|R1A_CVM2 Replicase polyprotein 1a OS=Murine coronavirus... 387 1e-118
sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavir... 387 2e-118
sp|P0C6F7|R1A_BC133 Replicase polyprotein 1a OS=Bat coronavirus 1... 373 8e-114
sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus... 373 1e-113
sp|P0C6T4|R1A_BCHK4 Replicase polyprotein 1a OS=Bat coronavirus H... 371 4e-113
sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus... 371 5e-113
sp|P0C6V5|R1A_IBVM Replicase polyprotein 1a OS=Avian infectious b... 196 6e-53
sp|P0C6Y3|R1AB_IBVM Replicase polyprotein 1ab OS=Avian infectious... 195 2e-52
sp|P0C6V4|R1A_IBVBC Replicase polyprotein 1a OS=Avian infectious ... 194 3e-52
sp|P0C6V3|R1A_IBVB Replicase polyprotein 1a OS=Avian infectious b... 194 3e-52
sp|P0C6Y2|R1AB_IBVBC Replicase polyprotein 1ab OS=Avian infectiou... 193 8e-52
sp|P0C6Y1|R1AB_IBVB Replicase polyprotein 1ab OS=Avian infectious... 193 8e-52
sp|P0C6F6|R1A_BC512 Replicase polyprotein 1a OS=Bat coronavirus 5... 183 3e-48
sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus... 182 4e-48
sp|P0C6U6|R1A_CVHNL Replicase polyprotein 1a OS=Human coronavirus... 174 2e-45
sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavir... 174 4e-45
sp|P0C6V6|R1A_PEDV7 Replicase polyprotein 1a OS=Porcine epidemic ... 172 2e-44
sp|P0C6Y4|R1AB_PEDV7 Replicase polyprotein 1ab OS=Porcine epidemi... 171 3e-44
sp|P0C6V2|R1A_CVPPU Replicase polyprotein 1a OS=Porcine transmiss... 161 7e-41
sp|Q98VG9|R1AB_FIPV Replicase polyprotein 1ab OS=Feline coronavir... 160 9e-41
sp|P0C6Y5|R1AB_CVPPU Replicase polyprotein 1ab OS=Porcine transmi... 160 9e-41
sp|P0C6U2|R1A_CVH22 Replicase polyprotein 1a OS=Human coronavirus... 155 6e-39
sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavir... 155 7e-39
sp|Q9RUV0|PPDE_DEIRA Phosphatase/phosphodiesterase DR_1281 OS=Dei... 40.4 0.024
sp|P0C6F4|R1A_BRV1 Replicase polyprotein 1a OS=Breda virus 1 OX=3... 38.1 0.24
sp|P0C6V8|R1AB_BRV1 Replicase polyprotein 1ab OS=Breda virus 1 OX... 38.1 0.25
sp|P0C6V7|R1AB_BEV Replicase polyprotein 1ab OS=Berne virus OX=11... 37.7 0.31
sp|P0C6F3|R1A_BEV Replicase polyprotein 1a OS=Berne virus OX=1115... 37.7 0.34
sp|Q59104|4HBDH_CUPNE 4-hydroxybutyrate dehydrogenase OS=Cupriavi... 33.1 5.6
sp|Q7MZ74|METE_PHOLL 5-methyltetrahydropteroyltriglutamate--homoc... 33.5 5.6
sp|Q4L6Y4|TGT_STAHJ Queuine tRNA-ribosyltransferase OS=Staphyloco... 33.1 6.2
>sp|P0DTC1|R1A_SARS2 Replicase polyprotein 1a OS=Severe acute
respiratory syndrome coronavirus 2 OX=2697049 PE=1 SV=1
Length=4405
Score = 1043 bits (2697), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 500/500 (100%), Positives = 500/500 (100%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST
Sbjct 2764 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 2823
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH
Sbjct 2824 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 2883
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV
Sbjct 2884 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 2943
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR
Sbjct 2944 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 3003
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY
Sbjct 3004 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 3063
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL
Sbjct 3064 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 3123
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF
Sbjct 3124 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 3183
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN
Sbjct 3184 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 3243
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SGSDVLYQPPQTSITSAVLQ
Sbjct 3244 SGSDVLYQPPQTSITSAVLQ 3263
>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 = 1039 bits (2686), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 500/500 (100%), Positives = 500/500 (100%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST
Sbjct 2764 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 2823
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH
Sbjct 2824 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 2883
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV
Sbjct 2884 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 2943
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR
Sbjct 2944 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 3003
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY
Sbjct 3004 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 3063
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL
Sbjct 3064 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 3123
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF
Sbjct 3124 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 3183
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN
Sbjct 3184 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 3243
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SGSDVLYQPPQTSITSAVLQ
Sbjct 3244 SGSDVLYQPPQTSITSAVLQ 3263
>sp|P0C6F8|R1A_BCHK3 Replicase polyprotein 1a OS=Bat coronavirus
HKU3 OX=442736 GN=1a PE=3 SV=1
Length=4376
Score = 895 bits (2313), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 407/500 (81%), Positives = 458/500 (92%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
K+V+ W K L+KVTL+ + A Y+I PVH +S H +++EIIGYKAI GVTRDI ST
Sbjct 2735 KVVSTWFKLLLKVTLLCVLAALFCYVIMPVHSLSVHDGYTNEIIGYKAIQDGVTRDIVST 2794
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
D CFANKHA FD+WFSQRGGSY NDK CP++AA+ITRE+GF+VPGLPGT+LR NGDFLH
Sbjct 2795 DDCFANKHAGFDSWFSQRGGSYRNDKNCPVVAAIITREIGFIVPGLPGTVLRALNGDFLH 2854
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEY+DFATSACVLAAECTIFKDA GKPVPYCYDTN+LEGS+
Sbjct 2855 FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSI 2914
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
+Y LRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFD+EYCRHGTCERSE GVC+STSGR
Sbjct 2915 SYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGVCLSTSGR 2974
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNN++YR+LPGVFCGVDA+NL+ N+FTPL+QP+GALD+SAS+VAGGI+AI+VTC AYY
Sbjct 2975 WVLNNEHYRALPGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYY 3034
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FM+FRRAFGEY+HVVA N LLFLMSFT+LCL P YSFLPGVYS+ YLYLTFY TNDVSFL
Sbjct 3035 FMKFRRAFGEYNHVVAANALLFLMSFTILCLAPAYSFLPGVYSIFYLYLTFYFTNDVSFL 3094
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AH+QW MF+P+VPFWIT Y+ CIS KHF+WFFSNYLK+RV+FNGV+FSTFEEAALCTF
Sbjct 3095 AHLQWFAMFSPIVPFWITAIYVFCISLKHFHWFFSNYLKKRVMFNGVTFSTFEEAALCTF 3154
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYL+LRS+ LLPLTQYNRYLALYNKYKYFSGA+DTTSYREAACCHLAKALNDFSN
Sbjct 3155 LLNKEMYLRLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSN 3214
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SG+DVLYQPPQTSITSAVLQ
Sbjct 3215 SGADVLYQPPQTSITSAVLQ 3234
>sp|P0C6T7|R1A_BCRP3 Replicase polyprotein 1a OS=Bat coronavirus
Rp3/2004 OX=349344 GN=1a PE=3 SV=1
Length=4380
Score = 894 bits (2309), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 403/500 (81%), Positives = 459/500 (92%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
KIV+ W K ++K TL+ + A + Y++ PVH++S H +++EIIGYKAI GVTRDI ST
Sbjct 2739 KIVSTWFKIMLKATLLCVLAALVCYIVMPVHILSVHGGYTNEIIGYKAIQDGVTRDIVST 2798
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
D CFANKHA FD+WFSQRGGSY NDK+CP++AA+ITRE+GF+VPGLPGT+LR NGDFLH
Sbjct 2799 DDCFANKHAGFDSWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLH 2858
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEY+DF+TSACVLAAECTIFKDA GKPVPYCYDTN+LEGS+
Sbjct 2859 FLPRVFSAVGNICYTPSKLIEYSDFSTSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSI 2918
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
+Y LRPDTRYVLMDGSIIQFPN YLEGSVRVVTTFD+EYCRHGTCERSEAG+C+STSGR
Sbjct 2919 SYSELRPDTRYVLMDGSIIQFPNAYLEGSVRVVTTFDAEYCRHGTCERSEAGICLSTSGR 2978
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNN++YR+LPGVFCGVDA+NL+ N+FTPL+QP+GALD+SAS+VAGGI+AI+VTC AYY
Sbjct 2979 WVLNNEHYRALPGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYY 3038
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FM+FRRAFGEY+HVVA N LFLMSFT+LCL P YSFLPGVYSV YLYLTFY TNDVSFL
Sbjct 3039 FMKFRRAFGEYNHVVAANAPLFLMSFTILCLAPAYSFLPGVYSVFYLYLTFYFTNDVSFL 3098
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AH+QW MF+P+VPFWIT Y+ CIS KHF+WFF+NYL++RVVFNGV+FSTFEEAALCTF
Sbjct 3099 AHLQWFAMFSPIVPFWITAIYVFCISLKHFHWFFNNYLRKRVVFNGVTFSTFEEAALCTF 3158
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYLKLRS+ LLPLTQYNRYLALYNKYKYFSGA+DTTSYREAACCHLAKALNDFSN
Sbjct 3159 LLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSN 3218
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SG+DVLYQPPQTSITSAVLQ
Sbjct 3219 SGADVLYQPPQTSITSAVLQ 3238
>sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus
HKU3 OX=442736 GN=rep PE=3 SV=1
Length=7067
Score = 892 bits (2306), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 407/500 (81%), Positives = 458/500 (92%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
K+V+ W K L+KVTL+ + A Y+I PVH +S H +++EIIGYKAI GVTRDI ST
Sbjct 2735 KVVSTWFKLLLKVTLLCVLAALFCYVIMPVHSLSVHDGYTNEIIGYKAIQDGVTRDIVST 2794
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
D CFANKHA FD+WFSQRGGSY NDK CP++AA+ITRE+GF+VPGLPGT+LR NGDFLH
Sbjct 2795 DDCFANKHAGFDSWFSQRGGSYRNDKNCPVVAAIITREIGFIVPGLPGTVLRALNGDFLH 2854
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEY+DFATSACVLAAECTIFKDA GKPVPYCYDTN+LEGS+
Sbjct 2855 FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSI 2914
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
+Y LRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFD+EYCRHGTCERSE GVC+STSGR
Sbjct 2915 SYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGVCLSTSGR 2974
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNN++YR+LPGVFCGVDA+NL+ N+FTPL+QP+GALD+SAS+VAGGI+AI+VTC AYY
Sbjct 2975 WVLNNEHYRALPGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYY 3034
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FM+FRRAFGEY+HVVA N LLFLMSFT+LCL P YSFLPGVYS+ YLYLTFY TNDVSFL
Sbjct 3035 FMKFRRAFGEYNHVVAANALLFLMSFTILCLAPAYSFLPGVYSIFYLYLTFYFTNDVSFL 3094
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AH+QW MF+P+VPFWIT Y+ CIS KHF+WFFSNYLK+RV+FNGV+FSTFEEAALCTF
Sbjct 3095 AHLQWFAMFSPIVPFWITAIYVFCISLKHFHWFFSNYLKKRVMFNGVTFSTFEEAALCTF 3154
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYL+LRS+ LLPLTQYNRYLALYNKYKYFSGA+DTTSYREAACCHLAKALNDFSN
Sbjct 3155 LLNKEMYLRLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSN 3214
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SG+DVLYQPPQTSITSAVLQ
Sbjct 3215 SGADVLYQPPQTSITSAVLQ 3234
>sp|P0C6F5|R1A_BC279 Replicase polyprotein 1a OS=Bat coronavirus
279/2005 OX=389167 GN=1a PE=3 SV=1
Length=4388
Score = 891 bits (2303), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 404/500 (81%), Positives = 458/500 (92%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
KIV+ W K ++K TL+ + A Y+I PVH +S H +++EIIGYKAI GVTRDI +T
Sbjct 2747 KIVSTWFKLMLKATLLCVLAALFCYIIMPVHSLSVHDGYTNEIIGYKAIQDGVTRDIMAT 2806
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
D CFANKHA FD+WFSQRGGSY NDK+CP++AA+ITRE+GF+VPGLPGT+LR NGDFLH
Sbjct 2807 DDCFANKHAGFDSWFSQRGGSYRNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLH 2866
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEY+DFATSACVLAAECTIFKDA GKPVPYCYDTN+LEGS+
Sbjct 2867 FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSI 2926
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
+Y LRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFD+EYCRHGTCERSEAGVC+STSGR
Sbjct 2927 SYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEAGVCLSTSGR 2986
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNN++YR+LPGVFCGVDA+NL+ N+FTPL+QP+GALD+SAS+VAGGI+AI+VTC AYY
Sbjct 2987 WVLNNEHYRALPGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYY 3046
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FM+FRRAFGEY+HVVA N LLFLMSFT+LCL P YSFLPGVYS+ YLYLTFY TNDVSFL
Sbjct 3047 FMKFRRAFGEYNHVVAANALLFLMSFTILCLAPAYSFLPGVYSIFYLYLTFYFTNDVSFL 3106
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AH+QW MF+P+VPFWIT Y+ CIS KH +WFF+NYL++RV+FNGV+FSTFEEAALCTF
Sbjct 3107 AHLQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTF 3166
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYLKLRS+ LLPLTQYNRYLALYNKYKYFSGA+DTTSYREAACCHLAKALNDFSN
Sbjct 3167 LLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSN 3226
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SG+DVLYQPPQTSITSAVLQ
Sbjct 3227 SGADVLYQPPQTSITSAVLQ 3246
>sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus
Rp3/2004 OX=349344 GN=rep PE=3 SV=1
Length=7071
Score = 891 bits (2302), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 403/500 (81%), Positives = 459/500 (92%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
KIV+ W K ++K TL+ + A + Y++ PVH++S H +++EIIGYKAI GVTRDI ST
Sbjct 2739 KIVSTWFKIMLKATLLCVLAALVCYIVMPVHILSVHGGYTNEIIGYKAIQDGVTRDIVST 2798
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
D CFANKHA FD+WFSQRGGSY NDK+CP++AA+ITRE+GF+VPGLPGT+LR NGDFLH
Sbjct 2799 DDCFANKHAGFDSWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLH 2858
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEY+DF+TSACVLAAECTIFKDA GKPVPYCYDTN+LEGS+
Sbjct 2859 FLPRVFSAVGNICYTPSKLIEYSDFSTSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSI 2918
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
+Y LRPDTRYVLMDGSIIQFPN YLEGSVRVVTTFD+EYCRHGTCERSEAG+C+STSGR
Sbjct 2919 SYSELRPDTRYVLMDGSIIQFPNAYLEGSVRVVTTFDAEYCRHGTCERSEAGICLSTSGR 2978
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNN++YR+LPGVFCGVDA+NL+ N+FTPL+QP+GALD+SAS+VAGGI+AI+VTC AYY
Sbjct 2979 WVLNNEHYRALPGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYY 3038
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FM+FRRAFGEY+HVVA N LFLMSFT+LCL P YSFLPGVYSV YLYLTFY TNDVSFL
Sbjct 3039 FMKFRRAFGEYNHVVAANAPLFLMSFTILCLAPAYSFLPGVYSVFYLYLTFYFTNDVSFL 3098
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AH+QW MF+P+VPFWIT Y+ CIS KHF+WFF+NYL++RVVFNGV+FSTFEEAALCTF
Sbjct 3099 AHLQWFAMFSPIVPFWITAIYVFCISLKHFHWFFNNYLRKRVVFNGVTFSTFEEAALCTF 3158
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYLKLRS+ LLPLTQYNRYLALYNKYKYFSGA+DTTSYREAACCHLAKALNDFSN
Sbjct 3159 LLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSN 3218
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SG+DVLYQPPQTSITSAVLQ
Sbjct 3219 SGADVLYQPPQTSITSAVLQ 3238
>sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus
279/2005 OX=389167 GN=rep PE=3 SV=1
Length=7079
Score = 888 bits (2295), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 404/500 (81%), Positives = 458/500 (92%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
KIV+ W K ++K TL+ + A Y+I PVH +S H +++EIIGYKAI GVTRDI +T
Sbjct 2747 KIVSTWFKLMLKATLLCVLAALFCYIIMPVHSLSVHDGYTNEIIGYKAIQDGVTRDIMAT 2806
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
D CFANKHA FD+WFSQRGGSY NDK+CP++AA+ITRE+GF+VPGLPGT+LR NGDFLH
Sbjct 2807 DDCFANKHAGFDSWFSQRGGSYRNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLH 2866
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEY+DFATSACVLAAECTIFKDA GKPVPYCYDTN+LEGS+
Sbjct 2867 FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSI 2926
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
+Y LRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFD+EYCRHGTCERSEAGVC+STSGR
Sbjct 2927 SYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEAGVCLSTSGR 2986
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNN++YR+LPGVFCGVDA+NL+ N+FTPL+QP+GALD+SAS+VAGGI+AI+VTC AYY
Sbjct 2987 WVLNNEHYRALPGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYY 3046
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FM+FRRAFGEY+HVVA N LLFLMSFT+LCL P YSFLPGVYS+ YLYLTFY TNDVSFL
Sbjct 3047 FMKFRRAFGEYNHVVAANALLFLMSFTILCLAPAYSFLPGVYSIFYLYLTFYFTNDVSFL 3106
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AH+QW MF+P+VPFWIT Y+ CIS KH +WFF+NYL++RV+FNGV+FSTFEEAALCTF
Sbjct 3107 AHLQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTF 3166
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYLKLRS+ LLPLTQYNRYLALYNKYKYFSGA+DTTSYREAACCHLAKALNDFSN
Sbjct 3167 LLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSN 3226
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SG+DVLYQPPQTSITSAVLQ
Sbjct 3227 SGADVLYQPPQTSITSAVLQ 3246
>sp|P0C6U8|R1A_SARS Replicase polyprotein 1a OS=Severe acute respiratory
syndrome coronavirus OX=694009 GN=1a PE=1 SV=1
Length=4382
Score = 881 bits (2277), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 400/500 (80%), Positives = 454/500 (91%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
KIV+ K ++K TL+ + A + Y++ PVH +S H +++EIIGYKAI GVTRDI ST
Sbjct 2741 KIVSTCFKLMLKATLLCVLAALVCYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIIST 2800
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
D CFANKHA FD WFSQRGGSY NDK+CP++AA+ITRE+GF+VPGLPGT+LR NGDFLH
Sbjct 2801 DDCFANKHAGFDAWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLH 2860
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEY+DFATSACVLAAECTIFKDA GKPVPYCYDTN+LEGS+
Sbjct 2861 FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSI 2920
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
+Y LRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFD+EYCRHGTCERSE G+C+STSGR
Sbjct 2921 SYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGR 2980
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNN++YR+L GVFCGVDA+NL+ N+FTPL+QP+GALD+SAS+VAGGI+AI+VTC AYY
Sbjct 2981 WVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYY 3040
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FM+FRR FGEY+HVVA N LLFLMSFT+LCL P YSFLPGVYSV YLYLTFY TNDVSFL
Sbjct 3041 FMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFL 3100
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AH+QW MF+P+VPFWIT Y+ CIS KH +WFF+NYL++RV+FNGV+FSTFEEAALCTF
Sbjct 3101 AHLQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTF 3160
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYLKLRS+ LLPLTQYNRYLALYNKYKYFSGA+DTTSYREAACCHLAKALNDFSN
Sbjct 3161 LLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSN 3220
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SG+DVLYQPPQTSITSAVLQ
Sbjct 3221 SGADVLYQPPQTSITSAVLQ 3240
>sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute
respiratory syndrome coronavirus OX=694009 GN=rep PE=1 SV=1
Length=7073
Score = 878 bits (2268), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 400/500 (80%), Positives = 454/500 (91%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
KIV+ K ++K TL+ + A + Y++ PVH +S H +++EIIGYKAI GVTRDI ST
Sbjct 2741 KIVSTCFKLMLKATLLCVLAALVCYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIIST 2800
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
D CFANKHA FD WFSQRGGSY NDK+CP++AA+ITRE+GF+VPGLPGT+LR NGDFLH
Sbjct 2801 DDCFANKHAGFDAWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLH 2860
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEY+DFATSACVLAAECTIFKDA GKPVPYCYDTN+LEGS+
Sbjct 2861 FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSI 2920
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
+Y LRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFD+EYCRHGTCERSE G+C+STSGR
Sbjct 2921 SYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGR 2980
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNN++YR+L GVFCGVDA+NL+ N+FTPL+QP+GALD+SAS+VAGGI+AI+VTC AYY
Sbjct 2981 WVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYY 3040
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FM+FRR FGEY+HVVA N LLFLMSFT+LCL P YSFLPGVYSV YLYLTFY TNDVSFL
Sbjct 3041 FMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFL 3100
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AH+QW MF+P+VPFWIT Y+ CIS KH +WFF+NYL++RV+FNGV+FSTFEEAALCTF
Sbjct 3101 AHLQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTF 3160
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYLKLRS+ LLPLTQYNRYLALYNKYKYFSGA+DTTSYREAACCHLAKALNDFSN
Sbjct 3161 LLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSN 3220
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SG+DVLYQPPQTSITSAVLQ
Sbjct 3221 SGADVLYQPPQTSITSAVLQ 3240
>sp|P0C6T6|R1A_BCHK9 Replicase polyprotein 1a OS=Bat coronavirus
HKU9 OX=694006 GN=1a PE=3 SV=1
Length=4248
Score = 439 bits (1128), Expect = 2e-136, Method: Compositional matrix adjust.
Identities = 213/497 (43%), Positives = 315/497 (63%), Gaps = 10/497 (2%)
Query 5 NWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCF 64
+W + LI V ++ + + ++ TP ++M ++ +K ID V RDI S D CF
Sbjct 2616 SWRRVLIHVFMLLVVLNPQWF--TPWYIMRP---IEYNVVDFKVIDNAVIRDITSADQCF 2670
Query 65 ANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPR 124
ANK + F+ W+S R GSY N + CP++ V++ VG +VPGLP LR L +
Sbjct 2671 ANKFSAFENWYSNRYGSYVNSRGCPMVVGVVSDIVGSLVPGLPARFLRVGT-TLLPLVNY 2729
Query 125 VFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYES 184
AVG++CYTP I Y F TSACVLAA CT+F ASG+ +PYC D +++ + Y+
Sbjct 2730 GLGAVGSVCYTPHYAINYDVFDTSACVLAATCTLFSSASGERMPYCADAALIQNASRYDM 2789
Query 185 LRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVL 243
L+P Y + S I+FP + V +V T EYC+ G C+ SEAG+C+S RWV+
Sbjct 2790 LKPHVMYPFYEHSGYIRFPEV-ISAGVHIVRTMAMEYCKVGRCDVSEAGLCMSLQPRWVV 2848
Query 244 NNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMR 303
NN Y+R GV+CG A +L NM P+ P+GA+DI+ SI+ G ++A+VV+ YY +R
Sbjct 2849 NNAYFRQQSGVYCGTSAFDLFMNMLLPIFTPVGAVDITTSILMGALLAVVVSMSLYYLLR 2908
Query 304 FRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHI 363
FRRAFG+YS V+ N L F+++ VLCL Y LP +Y++++LY T Y +D++ + H+
Sbjct 2909 FRRAFGDYSGVIFTNILAFVLNVIVLCLEGPYPMLPSIYAMVFLYATCYFGSDIACMMHV 2968
Query 364 QWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLN 423
+++MF +VP W+T+ YI+ + ++H WF S KR V ++F +F++AAL TF+L+
Sbjct 2969 SFLIMFAGVVPLWVTVLYIVVVLSRHILWFASLCTKRTVQVGDLAFHSFQDAALQTFMLD 3028
Query 424 KEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGS 483
KE++L+L+ ++ Y +YLA+YNKYKY+SG MDT +YREAAC HL AL +SN G
Sbjct 3029 KEVFLRLKREI--SSDAYFKYLAMYNKYKYYSGPMDTAAYREAACSHLVMALEKYSNGGG 3086
Query 484 DVLYQPPQTSITSAVLQ 500
D +YQPP+ S+ SA LQ
Sbjct 3087 DTIYQPPRCSVASAALQ 3103
>sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus
HKU9 OX=694006 GN=rep PE=1 SV=1
Length=6930
Score = 437 bits (1124), Expect = 6e-136, Method: Compositional matrix adjust.
Identities = 213/497 (43%), Positives = 315/497 (63%), Gaps = 10/497 (2%)
Query 5 NWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCF 64
+W + LI V ++ + + ++ TP ++M ++ +K ID V RDI S D CF
Sbjct 2616 SWRRVLIHVFMLLVVLNPQWF--TPWYIMRP---IEYNVVDFKVIDNAVIRDITSADQCF 2670
Query 65 ANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPR 124
ANK + F+ W+S R GSY N + CP++ V++ VG +VPGLP LR L +
Sbjct 2671 ANKFSAFENWYSNRYGSYVNSRGCPMVVGVVSDIVGSLVPGLPARFLRVGT-TLLPLVNY 2729
Query 125 VFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYES 184
AVG++CYTP I Y F TSACVLAA CT+F ASG+ +PYC D +++ + Y+
Sbjct 2730 GLGAVGSVCYTPHYAINYDVFDTSACVLAATCTLFSSASGERMPYCADAALIQNASRYDM 2789
Query 185 LRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVL 243
L+P Y + S I+FP + V +V T EYC+ G C+ SEAG+C+S RWV+
Sbjct 2790 LKPHVMYPFYEHSGYIRFPEV-ISAGVHIVRTMAMEYCKVGRCDVSEAGLCMSLQPRWVV 2848
Query 244 NNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMR 303
NN Y+R GV+CG A +L NM P+ P+GA+DI+ SI+ G ++A+VV+ YY +R
Sbjct 2849 NNAYFRQQSGVYCGTSAFDLFMNMLLPIFTPVGAVDITTSILMGALLAVVVSMSLYYLLR 2908
Query 304 FRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHI 363
FRRAFG+YS V+ N L F+++ VLCL Y LP +Y++++LY T Y +D++ + H+
Sbjct 2909 FRRAFGDYSGVIFTNILAFVLNVIVLCLEGPYPMLPSIYAMVFLYATCYFGSDIACMMHV 2968
Query 364 QWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLN 423
+++MF +VP W+T+ YI+ + ++H WF S KR V ++F +F++AAL TF+L+
Sbjct 2969 SFLIMFAGVVPLWVTVLYIVVVLSRHILWFASLCTKRTVQVGDLAFHSFQDAALQTFMLD 3028
Query 424 KEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGS 483
KE++L+L+ ++ Y +YLA+YNKYKY+SG MDT +YREAAC HL AL +SN G
Sbjct 3029 KEVFLRLKREI--SSDAYFKYLAMYNKYKYYSGPMDTAAYREAACSHLVMALEKYSNGGG 3086
Query 484 DVLYQPPQTSITSAVLQ 500
D +YQPP+ S+ SA LQ
Sbjct 3087 DTIYQPPRCSVASAALQ 3103
>sp|K9N638|R1A_MERS1 Replicase polyprotein 1a OS=Middle East respiratory
syndrome-related coronavirus (isolate United Kingdom/H123990006/2012)
OX=1263720 GN=1a PE=1 SV=1
Length=4391
Score = 407 bits (1045), Expect = 2e-125, Method: Compositional matrix adjust.
Identities = 199/498 (40%), Positives = 297/498 (60%), Gaps = 7/498 (1%)
Query 7 LKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFAN 66
LK + T++ A + YL P M + I+ +K +D G+ RD+ D CFAN
Sbjct 2753 LKGYVLATIIVFLCAVLMYLCLPTFSMVPVEFYEDRILDFKVLDNGIIRDVNPDDKCFAN 2812
Query 67 KHADFDTWFSQR-GGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRV 125
KH F W+ + GG Y N CPL AVI G +P +P T L N + F+ RV
Sbjct 2813 KHRSFTQWYHEHVGGVYDNSITCPLTVAVIAGVAGARIPDVP-TTLAWVNNQIIFFVSRV 2871
Query 126 FSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESL 185
F+ G++CYTP I Y F+ S C+L +ECT+F+DA G+ PYC+D VL G+ AY +
Sbjct 2872 FANTGSVCYTPIDEIPYKSFSDSGCILPSECTMFRDAEGRMTPYCHDPTVLPGAFAYSQM 2931
Query 186 RPDTRYVLMDGSI-IQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLN 244
RP RY L DG++ I+FP E ++R+ T ++YCR G+CE ++ GVC++T+G W +
Sbjct 2932 RPHVRYDLYDGNMFIKFPEVVFESTLRITRTLSTQYCRFGSCEYAQEGVCITTNGSWAIF 2991
Query 245 NDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRF 304
ND++ + PGV+CG D ++++ + L QPI ++ S+V G + +T L YY +
Sbjct 2992 NDHHLNRPGVYCGSDFIDIVRRLAVSLFQPITYFQLTTSLVLGIGLCAFLTLLFYYINKV 3051
Query 305 RRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQ 364
+RAF +Y+ + +++ +C Y+ +Y Y TFY TN+ +F+ H+
Sbjct 3052 KRAFADYTQCAVIAVVAAVLNSLCICFVASIPLCIVPYTALYYYATFYFTNEPAFIMHVS 3111
Query 365 WMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV-VF-NGVSFSTFEEAALCTFLL 422
W +MF P+VP W+T Y + + +HF+W + + K+ V VF +G +F++AA F++
Sbjct 3112 WYIMFGPIVPIWMTCVYTVAMCFRHFFWVLAYFSKKHVEVFTDGKLNCSFQDAASNIFVI 3171
Query 423 NKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSG 482
NK+ Y LR+ L Y+R+L L+NKYKYFSGAM+T +YREAA CHLAKAL +S +G
Sbjct 3172 NKDTYAALRNS--LTNDAYSRFLGLFNKYKYFSGAMETAAYREAAACHLAKALQTYSETG 3229
Query 483 SDVLYQPPQTSITSAVLQ 500
SD+LYQPP SITS VLQ
Sbjct 3230 SDLLYQPPNCSITSGVLQ 3247
>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 = 407 bits (1045), Expect = 2e-125, Method: Compositional matrix adjust.
Identities = 199/498 (40%), Positives = 297/498 (60%), Gaps = 7/498 (1%)
Query 7 LKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFAN 66
LK + T++ A + YL P M + I+ +K +D G+ RD+ D CFAN
Sbjct 2753 LKGYVLATIIVFLCAVLMYLCLPTFSMVPVEFYEDRILDFKVLDNGIIRDVNPDDKCFAN 2812
Query 67 KHADFDTWFSQR-GGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRV 125
KH F W+ + GG Y N CPL AVI G +P +P T L N + F+ RV
Sbjct 2813 KHRSFTQWYHEHVGGVYDNSITCPLTVAVIAGVAGARIPDVP-TTLAWVNNQIIFFVSRV 2871
Query 126 FSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESL 185
F+ G++CYTP I Y F+ S C+L +ECT+F+DA G+ PYC+D VL G+ AY +
Sbjct 2872 FANTGSVCYTPIDEIPYKSFSDSGCILPSECTMFRDAEGRMTPYCHDPTVLPGAFAYSQM 2931
Query 186 RPDTRYVLMDGSI-IQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLN 244
RP RY L DG++ I+FP E ++R+ T ++YCR G+CE ++ GVC++T+G W +
Sbjct 2932 RPHVRYDLYDGNMFIKFPEVVFESTLRITRTLSTQYCRFGSCEYAQEGVCITTNGSWAIF 2991
Query 245 NDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRF 304
ND++ + PGV+CG D ++++ + L QPI ++ S+V G + +T L YY +
Sbjct 2992 NDHHLNRPGVYCGSDFIDIVRRLAVSLFQPITYFQLTTSLVLGIGLCAFLTLLFYYINKV 3051
Query 305 RRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQ 364
+RAF +Y+ + +++ +C Y+ +Y Y TFY TN+ +F+ H+
Sbjct 3052 KRAFADYTQCAVIAVVAAVLNSLCICFVASIPLCIVPYTALYYYATFYFTNEPAFIMHVS 3111
Query 365 WMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV-VF-NGVSFSTFEEAALCTFLL 422
W +MF P+VP W+T Y + + +HF+W + + K+ V VF +G +F++AA F++
Sbjct 3112 WYIMFGPIVPIWMTCVYTVAMCFRHFFWVLAYFSKKHVEVFTDGKLNCSFQDAASNIFVI 3171
Query 423 NKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSG 482
NK+ Y LR+ L Y+R+L L+NKYKYFSGAM+T +YREAA CHLAKAL +S +G
Sbjct 3172 NKDTYAALRNS--LTNDAYSRFLGLFNKYKYFSGAMETAAYREAAACHLAKALQTYSETG 3229
Query 483 SDVLYQPPQTSITSAVLQ 500
SD+LYQPP SITS VLQ
Sbjct 3230 SDLLYQPPNCSITSGVLQ 3247
>sp|P0C6U7|R1A_CVHOC Replicase polyprotein 1a OS=Human coronavirus
OC43 OX=31631 GN=1a PE=1 SV=1
Length=4383
Score = 405 bits (1040), Expect = 9e-125, Method: Compositional matrix adjust.
Identities = 206/482 (43%), Positives = 299/482 (62%), Gaps = 11/482 (2%)
Query 24 FYLITPVHVMSKHTDFSSEI-IGYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGG-- 80
+ + P + + K +DF + YK +D GV RD++ D CFANK FD W+ G
Sbjct 2771 LWCLMPTYTVHK-SDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQWYESTFGLS 2829
Query 81 SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGNICYTPSKLI 140
Y+N ACP++ AVI ++ G V +P +LR LHF+ SA G CYTP I
Sbjct 2830 YYSNSMACPIVVAVIDQDFGSTVFNVPTKVLRY-GYHVLHFITHALSADGVQCYTPHSQI 2888
Query 141 EYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGS-II 199
Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY L + I
Sbjct 2889 SYSNFYASGCVLSSACTMFTMADGSPQPYCYTDGLMQNASLYSSLVPHVRYNLANAKGFI 2948
Query 200 QFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVD 259
+FP EG VRVV T YCR G CE ++ G+C + +G WVLNNDYYRSLPG FCG D
Sbjct 2949 RFPEVLREGLVRVVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRSLPGTFCGRD 3008
Query 260 AVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNT 319
+L+ +F L QP+ L ++AS +AG I+A++V + YY ++ +RAFG+Y+ VV N
Sbjct 3009 VFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGDYTSVVFVNV 3068
Query 320 LLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITI 379
+++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+ ++P W +
Sbjct 3069 IVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYGTIMPLWFCL 3128
Query 380 AYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKLRSDVLLPLT 439
YI + + H +W FS R++ + S TFEE AL TF++ K+ Y KL++ L
Sbjct 3129 LYIAVVVSNHAFWVFS--YCRKLGTSVRSDGTFEEMALTTFMITKDSYCKLKNS--LSDV 3184
Query 440 QYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDVLYQPPQTSITSAV 498
+NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F+ N+GSDVLYQPP S++++
Sbjct 3185 AFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQPPTASVSTSF 3244
Query 499 LQ 500
LQ
Sbjct 3245 LQ 3246
>sp|P0C6T8|R1A_CVBEN Replicase polyprotein 1a OS=Bovine coronavirus
(strain 98TXSF-110-ENT) OX=233262 GN=1a PE=3 SV=1
Length=4383
Score = 404 bits (1039), Expect = 1e-124, Method: Compositional matrix adjust.
Identities = 203/482 (42%), Positives = 300/482 (62%), Gaps = 11/482 (2%)
Query 24 FYLITPVHVMSKHTDFSSEI-IGYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGG-- 80
+ + P + + K +DF + YK +D GV RD++ D CFANK FD W+ G
Sbjct 2771 LWCLMPTYTVHK-SDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQWYESTFGLS 2829
Query 81 SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGNICYTPSKLI 140
Y+N ACP++ AV+ +++G V +P +LR LHF+ SA G CYTP I
Sbjct 2830 YYSNSMACPIVVAVVDQDLGSTVFNVPTKVLRY-GYHVLHFITHALSADGVQCYTPHSQI 2888
Query 141 EYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGS-II 199
Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY L + I
Sbjct 2889 SYSNFYASGCVLSSACTMFAMADGSPQPYCYTEGLMQNASLYSSLVPHVRYNLANAKGFI 2948
Query 200 QFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVD 259
+FP EG VR+V T YCR G CE ++ G+C + +G WVLNNDYYRSLPG FCG D
Sbjct 2949 RFPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRSLPGTFCGRD 3008
Query 260 AVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNT 319
+L+ +F L QP+ L ++AS +AG I+A++V + YY ++ +RAFG+Y+ +V N
Sbjct 3009 VFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGDYTSIVFVNV 3068
Query 320 LLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITI 379
+++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+ ++P W +
Sbjct 3069 IVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYGTIMPLWFCL 3128
Query 380 AYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKLRSDVLLPLT 439
YI + + H +W F+ RR+ + S TFEE AL TF++ K+ Y KL++ L
Sbjct 3129 LYISVVVSNHAFWVFA--YCRRLGTSVRSDGTFEEMALTTFMITKDSYCKLKNS--LSDV 3184
Query 440 QYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDVLYQPPQTSITSAV 498
+NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F+ N+GSDVLYQPP S++++
Sbjct 3185 AFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQPPTASVSTSF 3244
Query 499 LQ 500
LQ
Sbjct 3245 LQ 3246
>sp|P0C6X6|R1AB_CVHOC Replicase polyprotein 1ab OS=Human coronavirus
OC43 OX=31631 GN=rep PE=1 SV=1
Length=7095
Score = 404 bits (1039), Expect = 1e-124, Method: Compositional matrix adjust.
Identities = 206/482 (43%), Positives = 299/482 (62%), Gaps = 11/482 (2%)
Query 24 FYLITPVHVMSKHTDFSSEI-IGYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGG-- 80
+ + P + + K +DF + YK +D GV RD++ D CFANK FD W+ G
Sbjct 2771 LWCLMPTYTVHK-SDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQWYESTFGLS 2829
Query 81 SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGNICYTPSKLI 140
Y+N ACP++ AVI ++ G V +P +LR LHF+ SA G CYTP I
Sbjct 2830 YYSNSMACPIVVAVIDQDFGSTVFNVPTKVLRY-GYHVLHFITHALSADGVQCYTPHSQI 2888
Query 141 EYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGS-II 199
Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY L + I
Sbjct 2889 SYSNFYASGCVLSSACTMFTMADGSPQPYCYTDGLMQNASLYSSLVPHVRYNLANAKGFI 2948
Query 200 QFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVD 259
+FP EG VRVV T YCR G CE ++ G+C + +G WVLNNDYYRSLPG FCG D
Sbjct 2949 RFPEVLREGLVRVVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRSLPGTFCGRD 3008
Query 260 AVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNT 319
+L+ +F L QP+ L ++AS +AG I+A++V + YY ++ +RAFG+Y+ VV N
Sbjct 3009 VFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGDYTSVVFVNV 3068
Query 320 LLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITI 379
+++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+ ++P W +
Sbjct 3069 IVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYGTIMPLWFCL 3128
Query 380 AYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKLRSDVLLPLT 439
YI + + H +W FS R++ + S TFEE AL TF++ K+ Y KL++ L
Sbjct 3129 LYIAVVVSNHAFWVFS--YCRKLGTSVRSDGTFEEMALTTFMITKDSYCKLKNS--LSDV 3184
Query 440 QYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDVLYQPPQTSITSAV 498
+NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F+ N+GSDVLYQPP S++++
Sbjct 3185 AFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQPPTASVSTSF 3244
Query 499 LQ 500
LQ
Sbjct 3245 LQ 3246
>sp|P0C6T9|R1A_CVBLU Replicase polyprotein 1a OS=Bovine coronavirus
(strain 98TXSF-110-LUN) OX=233264 GN=1a PE=3 SV=1
Length=4383
Score = 404 bits (1039), Expect = 1e-124, Method: Compositional matrix adjust.
Identities = 203/482 (42%), Positives = 300/482 (62%), Gaps = 11/482 (2%)
Query 24 FYLITPVHVMSKHTDFSSEI-IGYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGG-- 80
+ + P + + K +DF + YK +D GV RD++ D CFANK FD W+ G
Sbjct 2771 LWCLMPTYTVHK-SDFQLPVYTSYKVLDNGVIRDVSVEDVCFANKFEQFDQWYESTFGLS 2829
Query 81 SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGNICYTPSKLI 140
Y+N ACP++ AV+ +++G V +P +LR LHF+ SA G CYTP I
Sbjct 2830 YYSNSMACPIVVAVVDQDLGSTVFNVPTKVLRY-GYHVLHFITHALSADGVQCYTPHSQI 2888
Query 141 EYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGS-II 199
Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY L + I
Sbjct 2889 SYSNFYASGCVLSSACTMFAMADGSPQPYCYTEGLMQNASLYSSLVPHVRYNLANAKGFI 2948
Query 200 QFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVD 259
+FP EG VR+V T YCR G CE ++ G+C + +G WVLNNDYYRSLPG FCG D
Sbjct 2949 RFPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRSLPGTFCGRD 3008
Query 260 AVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNT 319
+L+ +F L QP+ L ++AS +AG I+A++V + YY ++ +RAFG+Y+ +V N
Sbjct 3009 VFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGDYTSIVFVNV 3068
Query 320 LLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITI 379
+++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+ ++P W +
Sbjct 3069 IVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYGTIMPLWFCL 3128
Query 380 AYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKLRSDVLLPLT 439
YI + + H +W F+ RR+ + S TFEE AL TF++ K+ Y KL++ L
Sbjct 3129 LYISVVVSNHAFWVFA--YCRRLGTSVRSDGTFEEMALTTFMITKDSYCKLKNS--LSDV 3184
Query 440 QYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDVLYQPPQTSITSAV 498
+NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F+ N+GSDVLYQPP S++++
Sbjct 3185 AFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQPPTASVSTSF 3244
Query 499 LQ 500
LQ
Sbjct 3245 LQ 3246
>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 = 404 bits (1038), Expect = 2e-124, Method: Compositional matrix adjust.
Identities = 203/482 (42%), Positives = 300/482 (62%), Gaps = 11/482 (2%)
Query 24 FYLITPVHVMSKHTDFSSEI-IGYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGG-- 80
+ + P + + K +DF + YK +D GV RD++ D CFANK FD W+ G
Sbjct 2771 LWCLMPTYTVHK-SDFQLPVYTSYKVLDNGVIRDVSVEDVCFANKFEQFDQWYESTFGLS 2829
Query 81 SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGNICYTPSKLI 140
Y+N ACP++ AV+ +++G V +P +LR LHF+ SA G CYTP I
Sbjct 2830 YYSNSMACPIVVAVVDQDLGSTVFNVPTKVLRY-GYHVLHFITHALSADGVQCYTPHSQI 2888
Query 141 EYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGS-II 199
Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY L + I
Sbjct 2889 SYSNFYASGCVLSSACTMFAMADGSPQPYCYTEGLMQNASLYSSLVPHVRYNLANAKGFI 2948
Query 200 QFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVD 259
+FP EG VR+V T YCR G CE ++ G+C + +G WVLNNDYYRSLPG FCG D
Sbjct 2949 RFPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRSLPGTFCGRD 3008
Query 260 AVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNT 319
+L+ +F L QP+ L ++AS +AG I+A++V + YY ++ +RAFG+Y+ +V N
Sbjct 3009 VFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGDYTSIVFVNV 3068
Query 320 LLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITI 379
+++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+ ++P W +
Sbjct 3069 IVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYGTIMPLWFCL 3128
Query 380 AYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKLRSDVLLPLT 439
YI + + H +W F+ RR+ + S TFEE AL TF++ K+ Y KL++ L
Sbjct 3129 LYISVVVSNHAFWVFA--YCRRLGTSVRSDGTFEEMALTTFMITKDSYCKLKNS--LSDV 3184
Query 440 QYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDVLYQPPQTSITSAV 498
+NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F+ N+GSDVLYQPP S++++
Sbjct 3185 AFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQPPTASVSTSF 3244
Query 499 LQ 500
LQ
Sbjct 3245 LQ 3246
>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 = 404 bits (1037), Expect = 2e-124, Method: Compositional matrix adjust.
Identities = 203/482 (42%), Positives = 300/482 (62%), Gaps = 11/482 (2%)
Query 24 FYLITPVHVMSKHTDFSSEI-IGYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGG-- 80
+ + P + + K +DF + YK +D GV RD++ D CFANK FD W+ G
Sbjct 2771 LWCLMPTYTVHK-SDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQWYESTFGLS 2829
Query 81 SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGNICYTPSKLI 140
Y+N ACP++ AV+ +++G V +P +LR LHF+ SA G CYTP I
Sbjct 2830 YYSNSMACPIVVAVVDQDLGSTVFNVPTKVLRY-GYHVLHFITHALSADGVQCYTPHSQI 2888
Query 141 EYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGS-II 199
Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY L + I
Sbjct 2889 SYSNFYASGCVLSSACTMFAMADGSPQPYCYTEGLMQNASLYSSLVPHVRYNLANAKGFI 2948
Query 200 QFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVD 259
+FP EG VR+V T YCR G CE ++ G+C + +G WVLNNDYYRSLPG FCG D
Sbjct 2949 RFPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRSLPGTFCGRD 3008
Query 260 AVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNT 319
+L+ +F L QP+ L ++AS +AG I+A++V + YY ++ +RAFG+Y+ +V N
Sbjct 3009 VFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGDYTSIVFVNV 3068
Query 320 LLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITI 379
+++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+ ++P W +
Sbjct 3069 IVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYGTIMPLWFCL 3128
Query 380 AYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKLRSDVLLPLT 439
YI + + H +W F+ RR+ + S TFEE AL TF++ K+ Y KL++ L
Sbjct 3129 LYISVVVSNHAFWVFA--YCRRLGTSVRSDGTFEEMALTTFMITKDSYCKLKNS--LSDV 3184
Query 440 QYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDVLYQPPQTSITSAV 498
+NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F+ N+GSDVLYQPP S++++
Sbjct 3185 AFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQPPTASVSTSF 3244
Query 499 LQ 500
LQ
Sbjct 3245 LQ 3246
>sp|P0C6U0|R1A_CVBM Replicase polyprotein 1a OS=Bovine coronavirus
(strain Mebus) OX=11132 GN=1a PE=3 SV=1
Length=4383
Score = 402 bits (1034), Expect = 7e-124, Method: Compositional matrix adjust.
Identities = 203/482 (42%), Positives = 299/482 (62%), Gaps = 11/482 (2%)
Query 24 FYLITPVHVMSKHTDFSSEI-IGYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGG-- 80
+ + P + + K +DF + YK +D GV RD++ D CFANK FD W+ G
Sbjct 2771 LWCLMPTYTVHK-SDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQWYESTFGLS 2829
Query 81 SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGNICYTPSKLI 140
Y+N ACP++ AV+ ++ G V +P +LR LHF+ SA G CYTP I
Sbjct 2830 YYSNSMACPIVVAVVDQDFGSTVFNVPTKVLRY-GYHVLHFITHALSADGVQCYTPHSQI 2888
Query 141 EYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGS-II 199
Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY L + I
Sbjct 2889 SYSNFYASGCVLSSACTMFAMADGSPQPYCYTDGLMQNASLYSSLVPHVRYNLANAKGFI 2948
Query 200 QFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVD 259
+FP EG VR+V T YCR G CE ++ G+C + +G WVLNNDYYRSLPG FCG D
Sbjct 2949 RFPEVLREGLVRIVRTRSMPYCRVGLCEEADEGICFNFNGSWVLNNDYYRSLPGTFCGRD 3008
Query 260 AVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNT 319
+L+ +F L QP+ L ++AS +AG I+A++V + YY ++ +RAFG+Y+ +V N
Sbjct 3009 VFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGDYTSIVFVNV 3068
Query 320 LLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITI 379
+++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+ ++P W +
Sbjct 3069 IVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYGTIMPLWFCL 3128
Query 380 AYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKLRSDVLLPLT 439
YI + + H +W FS R++ + S TFEE AL TF++ K+ Y KL++ L
Sbjct 3129 LYISVVVSNHAFWVFS--YCRQLGTSVRSDGTFEEMALTTFMITKDSYCKLKNS--LSDV 3184
Query 440 QYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDVLYQPPQTSITSAV 498
+NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F+ N+GSDVLYQPP S++++
Sbjct 3185 AFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQPPTASVSTSF 3244
Query 499 LQ 500
LQ
Sbjct 3245 LQ 3246
>sp|P0C6T5|R1A_BCHK5 Replicase polyprotein 1a OS=Bat coronavirus
HKU5 OX=694008 GN=1a PE=3 SV=1
Length=4481
Score = 402 bits (1033), Expect = 1e-123, Method: Compositional matrix adjust.
Identities = 201/492 (41%), Positives = 297/492 (60%), Gaps = 7/492 (1%)
Query 13 VTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFD 72
VTLV +A + YL P MS+ + I+ YK ++ G+ RDI +DTCFANK+ F
Sbjct 2850 VTLVVFAMAVLSYLCLPAFNMSQVSFHEDRILTYKVVENGIIRDITPSDTCFANKYQSFS 2909
Query 73 TWFSQR-GGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
WF++ GG + ND +CP+ AVI G VP LP + L F+ RVF++ N
Sbjct 2910 KWFNEHYGGLFNNDISCPVTVAVIAGVAGARVPNLPANVAWVGRQIVL-FVSRVFASSNN 2968
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
+CYTP+ I Y F+ S CVLA+ECT+F+DA GK PYCYD VL G+ AY+ ++P RY
Sbjct 2969 VCYTPTAEIPYERFSDSGCVLASECTLFRDAEGKINPYCYDPTVLPGASAYDQMKPHVRY 3028
Query 192 VLMDGSI-IQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
+ D + I+FP E ++R+ T + YCR G+CE + GVC++T+G W + ND+Y +
Sbjct 3029 DMYDSDMYIKFPEVVFESTLRITKTLATRYCRFGSCEDANEGVCITTNGSWAIYNDHYAN 3088
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
PGV+CG + +++ + L QP+ +S S+ G ++ I +T YY + +RA +
Sbjct 3089 KPGVYCGDNYFDIVRRLGLSLFQPVTYFQLSTSLALGVMLCIFLTIAFYYVNKVKRALAD 3148
Query 311 YSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
Y+ L++ LC L Y+ +Y Y TFYLT + +F+ H+ W VMF
Sbjct 3149 YTQCAVVAVAAALLNSLCLCFVVSNPLLVLPYTALYYYATFYLTGEPAFVMHVSWFVMFG 3208
Query 371 PLVPFWITIAYIICISTKHFYWFFSNYLKRRV-VF-NGVSFSTFEEAALCTFLLNKEMYL 428
+VP W+ AYI+ + +H W + + K+ V VF +G +F++AA F++NK+ Y+
Sbjct 3209 TVVPIWMVFAYIVGVCLRHLLWVMAYFSKKHVEVFTDGKLNCSFQDAAANIFVINKDTYV 3268
Query 429 KLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSDVLYQ 488
LR+ + YNRYL+++NKYKY+SGAMDT SYREA+ HL KAL +S +GSDVL+Q
Sbjct 3269 ALRNSI--TQDSYNRYLSMFNKYKYYSGAMDTASYREASAAHLCKALQVYSETGSDVLFQ 3326
Query 489 PPQTSITSAVLQ 500
PP S+TS+VLQ
Sbjct 3327 PPNCSVTSSVLQ 3338
>sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus
HKU5 OX=694008 GN=rep PE=3 SV=1
Length=7182
Score = 402 bits (1032), Expect = 1e-123, Method: Compositional matrix adjust.
Identities = 201/492 (41%), Positives = 297/492 (60%), Gaps = 7/492 (1%)
Query 13 VTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFD 72
VTLV +A + YL P MS+ + I+ YK ++ G+ RDI +DTCFANK+ F
Sbjct 2850 VTLVVFAMAVLSYLCLPAFNMSQVSFHEDRILTYKVVENGIIRDITPSDTCFANKYQSFS 2909
Query 73 TWFSQR-GGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
WF++ GG + ND +CP+ AVI G VP LP + L F+ RVF++ N
Sbjct 2910 KWFNEHYGGLFNNDISCPVTVAVIAGVAGARVPNLPANVAWVGRQIVL-FVSRVFASSNN 2968
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
+CYTP+ I Y F+ S CVLA+ECT+F+DA GK PYCYD VL G+ AY+ ++P RY
Sbjct 2969 VCYTPTAEIPYERFSDSGCVLASECTLFRDAEGKINPYCYDPTVLPGASAYDQMKPHVRY 3028
Query 192 VLMDGSI-IQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
+ D + I+FP E ++R+ T + YCR G+CE + GVC++T+G W + ND+Y +
Sbjct 3029 DMYDSDMYIKFPEVVFESTLRITKTLATRYCRFGSCEDANEGVCITTNGSWAIYNDHYAN 3088
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
PGV+CG + +++ + L QP+ +S S+ G ++ I +T YY + +RA +
Sbjct 3089 KPGVYCGDNYFDIVRRLGLSLFQPVTYFQLSTSLALGVMLCIFLTIAFYYVNKVKRALAD 3148
Query 311 YSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
Y+ L++ LC L Y+ +Y Y TFYLT + +F+ H+ W VMF
Sbjct 3149 YTQCAVVAVAAALLNSLCLCFVVSNPLLVLPYTALYYYATFYLTGEPAFVMHVSWFVMFG 3208
Query 371 PLVPFWITIAYIICISTKHFYWFFSNYLKRRV-VF-NGVSFSTFEEAALCTFLLNKEMYL 428
+VP W+ AYI+ + +H W + + K+ V VF +G +F++AA F++NK+ Y+
Sbjct 3209 TVVPIWMVFAYIVGVCLRHLLWVMAYFSKKHVEVFTDGKLNCSFQDAAANIFVINKDTYV 3268
Query 429 KLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSDVLYQ 488
LR+ + YNRYL+++NKYKY+SGAMDT SYREA+ HL KAL +S +GSDVL+Q
Sbjct 3269 ALRNSIT--QDSYNRYLSMFNKYKYYSGAMDTASYREASAAHLCKALQVYSETGSDVLFQ 3326
Query 489 PPQTSITSAVLQ 500
PP S+TS+VLQ
Sbjct 3327 PPNCSVTSSVLQ 3338
>sp|P0C6W9|R1AB_CVBM Replicase polyprotein 1ab OS=Bovine coronavirus
(strain Mebus) OX=11132 GN=rep PE=3 SV=1
Length=7094
Score = 401 bits (1031), Expect = 2e-123, Method: Compositional matrix adjust.
Identities = 203/482 (42%), Positives = 299/482 (62%), Gaps = 11/482 (2%)
Query 24 FYLITPVHVMSKHTDFSSEI-IGYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGG-- 80
+ + P + + K +DF + YK +D GV RD++ D CFANK FD W+ G
Sbjct 2771 LWCLMPTYTVHK-SDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQWYESTFGLS 2829
Query 81 SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGNICYTPSKLI 140
Y+N ACP++ AV+ ++ G V +P +LR LHF+ SA G CYTP I
Sbjct 2830 YYSNSMACPIVVAVVDQDFGSTVFNVPTKVLRY-GYHVLHFITHALSADGVQCYTPHSQI 2888
Query 141 EYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGS-II 199
Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY L + I
Sbjct 2889 SYSNFYASGCVLSSACTMFAMADGSPQPYCYTDGLMQNASLYSSLVPHVRYNLANAKGFI 2948
Query 200 QFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVD 259
+FP EG VR+V T YCR G CE ++ G+C + +G WVLNNDYYRSLPG FCG D
Sbjct 2949 RFPEVLREGLVRIVRTRSMPYCRVGLCEEADEGICFNFNGSWVLNNDYYRSLPGTFCGRD 3008
Query 260 AVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNT 319
+L+ +F L QP+ L ++AS +AG I+A++V + YY ++ +RAFG+Y+ +V N
Sbjct 3009 VFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGDYTSIVFVNV 3068
Query 320 LLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITI 379
+++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+ ++P W +
Sbjct 3069 IVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYGTIMPLWFCL 3128
Query 380 AYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKLRSDVLLPLT 439
YI + + H +W FS R++ + S TFEE AL TF++ K+ Y KL++ L
Sbjct 3129 LYISVVVSNHAFWVFS--YCRQLGTSVRSDGTFEEMALTTFMITKDSYCKLKNS--LSDV 3184
Query 440 QYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDVLYQPPQTSITSAV 498
+NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F+ N+GSDVLYQPP S++++
Sbjct 3185 AFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQPPTASVSTSF 3244
Query 499 LQ 500
LQ
Sbjct 3245 LQ 3246
>sp|P0C6U5|R1A_CVHN5 Replicase polyprotein 1a OS=Human coronavirus
HKU1 (isolate N5) OX=443241 GN=1a PE=3 SV=1
Length=4421
Score = 399 bits (1025), Expect = 9e-123, Method: Compositional matrix adjust.
Identities = 201/459 (44%), Positives = 285/459 (62%), Gaps = 9/459 (2%)
Query 46 YKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGGS--YTNDKACPLIAAVITREVGFVV 103
+K ID GV RDI+ D CFANK FD W+ GS Y N CP++ AV+ ++G +
Sbjct 2831 FKVIDNGVVRDISVNDLCFANKFFQFDQWYESTFGSVYYHNSMDCPIVVAVMDEDIGSTM 2890
Query 104 PGLPGTILRTTNGDFLHFLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDAS 163
+P +LR LHFL F++ CYTP I Y DF S CVL++ CT+FK
Sbjct 2891 FNVPTKVLRY-GFHVLHFLTYAFASDSVQCYTPHIQISYNDFYASGCVLSSLCTMFKRGD 2949
Query 164 GKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCR 222
G P PYCY V++ + Y SL P TRY L + + I+FP+ EG VR+V T YCR
Sbjct 2950 GTPHPYCYTDGVMKNASLYTSLVPHTRYSLANSNGFIRFPDVISEGIVRIVRTRSMTYCR 3009
Query 223 HGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISA 282
G CE +E G+C + + WVLNNDYYRS+PG FCG D +L F+ LI+PI ++A
Sbjct 3010 VGACEYAEEGICFNFNSSWVLNNDYYRSMPGTFCGRDFFDLFYQFFSSLIRPIDFFSLTA 3069
Query 283 SIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVY 342
S + G I+AIVV + YY ++ +RAFG+Y+ VV N +++ ++F +L + VY VY
Sbjct 3070 SSIFGAILAIVVVLVFYYLIKLKRAFGDYTSVVVINVIVWCINFLMLFVFQVYPICACVY 3129
Query 343 SVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV 402
+ Y Y+T Y +++S + H+QW+VM+ ++PFW + Y+ + H W FS R++
Sbjct 3130 ACFYFYVTLYFPSEISVIMHLQWIVMYGAIMPFWFCVTYVAMVIANHVLWLFS--YCRKI 3187
Query 403 VFNGVSFSTFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTS 462
N S STFEE +L TF++ K+ Y +L++ V YNRYL+LYNKY+Y+SG MDT +
Sbjct 3188 GVNVCSDSTFEETSLTTFMITKDSYCRLKNSV--SDVAYNRYLSLYNKYRYYSGKMDTAA 3245
Query 463 YREAACCHLAKALNDFS-NSGSDVLYQPPQTSITSAVLQ 500
YREAAC LAKA+ F+ N+G+DVLYQPP S++++ LQ
Sbjct 3246 YREAACSQLAKAMETFNHNNGNDVLYQPPTASVSTSFLQ 3284
>sp|P0C6U4|R1A_CVHN2 Replicase polyprotein 1a OS=Human coronavirus
HKU1 (isolate N2) OX=443240 GN=1a PE=3 SV=1
Length=4441
Score = 399 bits (1025), Expect = 1e-122, Method: Compositional matrix adjust.
Identities = 200/459 (44%), Positives = 285/459 (62%), Gaps = 9/459 (2%)
Query 46 YKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGGS--YTNDKACPLIAAVITREVGFVV 103
+K ID GV RDI+ D CFANK FD W+ GS Y N CP++ AV+ ++G +
Sbjct 2851 FKVIDNGVVRDISVNDLCFANKFFQFDQWYESTFGSFYYHNSMDCPIVVAVMDEDIGSTM 2910
Query 104 PGLPGTILRTTNGDFLHFLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDAS 163
+P +LR LHFL F++ CYTP I Y DF S CVL++ CT+FK
Sbjct 2911 FNVPTKVLRH-GFHVLHFLTYAFASDSVQCYTPHIQISYNDFYASGCVLSSLCTMFKRGD 2969
Query 164 GKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCR 222
G P PYCY V++ + Y SL P TRY L + + I+FP+ EG VR+V T YCR
Sbjct 2970 GTPHPYCYSDGVMKNASLYTSLVPHTRYSLANSNGFIRFPDVISEGIVRIVRTRSMTYCR 3029
Query 223 HGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISA 282
G CE +E G+C + + WVLNNDYYRS+PG FCG D +L F+ LI+PI ++A
Sbjct 3030 VGACEYAEEGICFNFNSSWVLNNDYYRSMPGTFCGRDLFDLFYQFFSSLIRPIDFFSLTA 3089
Query 283 SIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVY 342
S + G I+AIVV + YY ++ +RAFG+Y+ VV N +++ ++F +L + VY VY
Sbjct 3090 SSIFGAILAIVVVLVFYYLIKLKRAFGDYTSVVVINVIVWCINFLMLFVFQVYPICACVY 3149
Query 343 SVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV 402
+ Y Y+T Y +++S + H+QW+VM+ ++PFW + Y+ + H W FS R++
Sbjct 3150 ACFYFYVTLYFPSEISVIMHLQWIVMYGAIMPFWFCVTYVAMVIANHVLWLFS--YCRKI 3207
Query 403 VFNGVSFSTFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTS 462
N + STFEE +L TF++ K+ Y +L++ V YNRYL+LYNKY+Y+SG MDT +
Sbjct 3208 GVNVCNDSTFEETSLTTFMITKDSYCRLKNSV--SDVAYNRYLSLYNKYRYYSGKMDTAA 3265
Query 463 YREAACCHLAKALNDFS-NSGSDVLYQPPQTSITSAVLQ 500
YREAAC LAKA+ F+ N+G+DVLYQPP S++++ LQ
Sbjct 3266 YREAACSQLAKAMETFNHNNGNDVLYQPPTASVSTSFLQ 3304
>sp|P0C6U1|R1A_CVBQ Replicase polyprotein 1a OS=Bovine coronavirus
(strain Quebec) OX=11133 GN=1a PE=3 SV=1
Length=4383
Score = 399 bits (1025), Expect = 1e-122, Method: Compositional matrix adjust.
Identities = 202/482 (42%), Positives = 297/482 (62%), Gaps = 11/482 (2%)
Query 24 FYLITPVHVMSKHTDFSSEI-IGYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGG-- 80
+ + P + + K +DF + YK +D GV RD++ D CFANK FD W+ G
Sbjct 2771 LWCLMPTYTVHK-SDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQWYESTFGLS 2829
Query 81 SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGNICYTPSKLI 140
Y+N ACP++ AV+ ++ G V +P +LR LHF+ SA G CYTP I
Sbjct 2830 YYSNSMACPIVVAVVDQDFGSTVFNVPTKVLRY-GYHVLHFITHALSADGVQCYTPHSQI 2888
Query 141 EYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGS-II 199
Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY L + I
Sbjct 2889 SYSNFYASGCVLSSACTMFAMADGSPQPYCYTDGLMQNASLYSSLVPHVRYNLANAKGFI 2948
Query 200 QFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVD 259
+ P EG VR+V T YCR G CE ++ G+C + +G WVLNNDYYRSLPG FCG D
Sbjct 2949 RLPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRSLPGTFCGRD 3008
Query 260 AVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNT 319
+L+ +F L QP+ L ++AS +AG I+A++V YY ++ +RAFG+Y+ +V N
Sbjct 3009 VFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLGFYYLIKLKRAFGDYTSIVFVNV 3068
Query 320 LLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITI 379
+++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+ ++P W +
Sbjct 3069 IVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYGTIMPLWFCL 3128
Query 380 AYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKLRSDVLLPLT 439
YI + + H +W FS R++ + S TFEE AL TF++ K+ Y KL++ L
Sbjct 3129 LYISVVVSNHAFWVFS--YCRQLGTSVRSDGTFEEMALTTFMITKDSYCKLKNS--LSDV 3184
Query 440 QYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDVLYQPPQTSITSAV 498
+NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F+ N+GSDVLYQPP S++++
Sbjct 3185 AFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQPPTASVSTSF 3244
Query 499 LQ 500
LQ
Sbjct 3245 LQ 3246
>sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavirus
HKU1 (isolate N2) OX=443240 GN=rep PE=3 SV=1
Length=7152
Score = 399 bits (1024), Expect = 1e-122, Method: Compositional matrix adjust.
Identities = 200/459 (44%), Positives = 285/459 (62%), Gaps = 9/459 (2%)
Query 46 YKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGGS--YTNDKACPLIAAVITREVGFVV 103
+K ID GV RDI+ D CFANK FD W+ GS Y N CP++ AV+ ++G +
Sbjct 2851 FKVIDNGVVRDISVNDLCFANKFFQFDQWYESTFGSFYYHNSMDCPIVVAVMDEDIGSTM 2910
Query 104 PGLPGTILRTTNGDFLHFLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDAS 163
+P +LR LHFL F++ CYTP I Y DF S CVL++ CT+FK
Sbjct 2911 FNVPTKVLRH-GFHVLHFLTYAFASDSVQCYTPHIQISYNDFYASGCVLSSLCTMFKRGD 2969
Query 164 GKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCR 222
G P PYCY V++ + Y SL P TRY L + + I+FP+ EG VR+V T YCR
Sbjct 2970 GTPHPYCYSDGVMKNASLYTSLVPHTRYSLANSNGFIRFPDVISEGIVRIVRTRSMTYCR 3029
Query 223 HGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISA 282
G CE +E G+C + + WVLNNDYYRS+PG FCG D +L F+ LI+PI ++A
Sbjct 3030 VGACEYAEEGICFNFNSSWVLNNDYYRSMPGTFCGRDLFDLFYQFFSSLIRPIDFFSLTA 3089
Query 283 SIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVY 342
S + G I+AIVV + YY ++ +RAFG+Y+ VV N +++ ++F +L + VY VY
Sbjct 3090 SSIFGAILAIVVVLVFYYLIKLKRAFGDYTSVVVINVIVWCINFLMLFVFQVYPICACVY 3149
Query 343 SVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV 402
+ Y Y+T Y +++S + H+QW+VM+ ++PFW + Y+ + H W FS R++
Sbjct 3150 ACFYFYVTLYFPSEISVIMHLQWIVMYGAIMPFWFCVTYVAMVIANHVLWLFS--YCRKI 3207
Query 403 VFNGVSFSTFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTS 462
N + STFEE +L TF++ K+ Y +L++ V YNRYL+LYNKY+Y+SG MDT +
Sbjct 3208 GVNVCNDSTFEETSLTTFMITKDSYCRLKNSV--SDVAYNRYLSLYNKYRYYSGKMDTAA 3265
Query 463 YREAACCHLAKALNDFS-NSGSDVLYQPPQTSITSAVLQ 500
YREAAC LAKA+ F+ N+G+DVLYQPP S++++ LQ
Sbjct 3266 YREAACSQLAKAMETFNHNNGNDVLYQPPTASVSTSFLQ 3304
>sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavirus
HKU1 (isolate N5) OX=443241 GN=rep PE=3 SV=1
Length=7132
Score = 399 bits (1024), Expect = 1e-122, Method: Compositional matrix adjust.
Identities = 201/459 (44%), Positives = 285/459 (62%), Gaps = 9/459 (2%)
Query 46 YKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGGS--YTNDKACPLIAAVITREVGFVV 103
+K ID GV RDI+ D CFANK FD W+ GS Y N CP++ AV+ ++G +
Sbjct 2831 FKVIDNGVVRDISVNDLCFANKFFQFDQWYESTFGSVYYHNSMDCPIVVAVMDEDIGSTM 2890
Query 104 PGLPGTILRTTNGDFLHFLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDAS 163
+P +LR LHFL F++ CYTP I Y DF S CVL++ CT+FK
Sbjct 2891 FNVPTKVLRY-GFHVLHFLTYAFASDSVQCYTPHIQISYNDFYASGCVLSSLCTMFKRGD 2949
Query 164 GKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCR 222
G P PYCY V++ + Y SL P TRY L + + I+FP+ EG VR+V T YCR
Sbjct 2950 GTPHPYCYTDGVMKNASLYTSLVPHTRYSLANSNGFIRFPDVISEGIVRIVRTRSMTYCR 3009
Query 223 HGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISA 282
G CE +E G+C + + WVLNNDYYRS+PG FCG D +L F+ LI+PI ++A
Sbjct 3010 VGACEYAEEGICFNFNSSWVLNNDYYRSMPGTFCGRDFFDLFYQFFSSLIRPIDFFSLTA 3069
Query 283 SIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVY 342
S + G I+AIVV + YY ++ +RAFG+Y+ VV N +++ ++F +L + VY VY
Sbjct 3070 SSIFGAILAIVVVLVFYYLIKLKRAFGDYTSVVVINVIVWCINFLMLFVFQVYPICACVY 3129
Query 343 SVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV 402
+ Y Y+T Y +++S + H+QW+VM+ ++PFW + Y+ + H W FS R++
Sbjct 3130 ACFYFYVTLYFPSEISVIMHLQWIVMYGAIMPFWFCVTYVAMVIANHVLWLFS--YCRKI 3187
Query 403 VFNGVSFSTFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTS 462
N S STFEE +L TF++ K+ Y +L++ V YNRYL+LYNKY+Y+SG MDT +
Sbjct 3188 GVNVCSDSTFEETSLTTFMITKDSYCRLKNSV--SDVAYNRYLSLYNKYRYYSGKMDTAA 3245
Query 463 YREAACCHLAKALNDFS-NSGSDVLYQPPQTSITSAVLQ 500
YREAAC LAKA+ F+ N+G+DVLYQPP S++++ LQ
Sbjct 3246 YREAACSQLAKAMETFNHNNGNDVLYQPPTASVSTSFLQ 3284
>sp|P0C6X0|R1AB_CVBQ Replicase polyprotein 1ab OS=Bovine coronavirus
(strain Quebec) OX=11133 GN=rep PE=3 SV=1
Length=7059
Score = 398 bits (1022), Expect = 3e-122, Method: Compositional matrix adjust.
Identities = 202/482 (42%), Positives = 297/482 (62%), Gaps = 11/482 (2%)
Query 24 FYLITPVHVMSKHTDFSSEI-IGYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGG-- 80
+ + P + + K +DF + YK +D GV RD++ D CFANK FD W+ G
Sbjct 2771 LWCLMPTYTVHK-SDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQWYESTFGLS 2829
Query 81 SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGNICYTPSKLI 140
Y+N ACP++ AV+ ++ G V +P +LR LHF+ SA G CYTP I
Sbjct 2830 YYSNSMACPIVVAVVDQDFGSTVFNVPTKVLRY-GYHVLHFITHALSADGVQCYTPHSQI 2888
Query 141 EYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGS-II 199
Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY L + I
Sbjct 2889 SYSNFYASGCVLSSACTMFAMADGSPQPYCYTDGLMQNASLYSSLVPHVRYNLANAKGFI 2948
Query 200 QFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVD 259
+ P EG VR+V T YCR G CE ++ G+C + +G WVLNNDYYRSLPG FCG D
Sbjct 2949 RLPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRSLPGTFCGRD 3008
Query 260 AVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNT 319
+L+ +F L QP+ L ++AS +AG I+A++V YY ++ +RAFG+Y+ +V N
Sbjct 3009 VFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLGFYYLIKLKRAFGDYTSIVFVNV 3068
Query 320 LLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITI 379
+++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+ ++P W +
Sbjct 3069 IVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYGTIMPLWFCL 3128
Query 380 AYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKLRSDVLLPLT 439
YI + + H +W FS R++ + S TFEE AL TF++ K+ Y KL++ L
Sbjct 3129 LYISVVVSNHAFWVFS--YCRQLGTSVRSDGTFEEMALTTFMITKDSYCKLKNS--LSDV 3184
Query 440 QYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDVLYQPPQTSITSAV 498
+NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F+ N+GSDVLYQPP S++++
Sbjct 3185 AFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQPPTASVSTSF 3244
Query 499 LQ 500
LQ
Sbjct 3245 LQ 3246
>sp|P0C6V1|R1A_CVMJH Replicase polyprotein 1a OS=Murine coronavirus
(strain JHM) OX=11144 GN=1a PE=1 SV=1
Length=4474
Score = 392 bits (1007), Expect = 3e-120, Method: Compositional matrix adjust.
Identities = 208/495 (42%), Positives = 295/495 (60%), Gaps = 14/495 (3%)
Query 15 LVFLFVAAIFYLITPVHVMSKHTDFSSEI-----IGYKAIDGGVTRDIASTDTCFANKHA 69
L +LFVA + I +M + S++ +K ID GV RD++ TD CFANK
Sbjct 2847 LQWLFVANLICFIVLWALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVSVTDACFANKFN 2906
Query 70 DFDTWFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFS 127
FD W+ G Y N KACP++ AVI +++G + +P +LR LHF+ F+
Sbjct 2907 QFDQWYESTFGLVYYRNSKACPVVVAVIDQDIGHTLFNVPTKVLRY-GFHVLHFITHAFA 2965
Query 128 AVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRP 187
CYTP I Y +F S CVL++ CT+ A G P PYCY V+ + Y SL P
Sbjct 2966 TDRVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTEGVMHNASLYSSLVP 3025
Query 188 DTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNND 246
RY L + I+FP EG VRVV T YCR G CE +E G+C + + WVLNN
Sbjct 3026 HVRYNLASSNGYIRFPEVVSEGIVRVVRTRSMTYCRVGLCEEAEEGICFNFNSSWVLNNP 3085
Query 247 YYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRR 306
YYR++PG FCG +A +L+ + L+QPI ++AS VAG I+AI+V YY ++ +R
Sbjct 3086 YYRAMPGTFCGRNAFDLIHQVLGGLVQPIDFFALTASSVAGAILAIIVVLAFYYLIKLKR 3145
Query 307 AFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWM 366
AFG+Y+ VV N +++ ++F +L + VY L +Y+ Y Y T Y +++S + H+QW+
Sbjct 3146 AFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMHLQWL 3205
Query 367 VMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEM 426
VM+ ++P W I Y+ + + H W FS R++ + S TFEE AL TF++ KE
Sbjct 3206 VMYGAIMPLWFCITYVAVVVSNHALWLFS--YCRKIGTDVRSDGTFEEMALTTFMITKES 3263
Query 427 YLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDV 485
Y KL++ V +NRYL+LYNKY+YFSG MDT +YREAAC LAKA+ F+ N+G+DV
Sbjct 3264 YCKLKNSV--SDVAFNRYLSLYNKYRYFSGKMDTATYREAACSQLAKAMETFNHNNGNDV 3321
Query 486 LYQPPQTSITSAVLQ 500
LYQPP S+T++ LQ
Sbjct 3322 LYQPPTASVTTSFLQ 3336
>sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavirus
(strain JHM) OX=11144 GN=rep PE=1 SV=1
Length=7180
Score = 392 bits (1007), Expect = 3e-120, Method: Compositional matrix adjust.
Identities = 208/495 (42%), Positives = 295/495 (60%), Gaps = 14/495 (3%)
Query 15 LVFLFVAAIFYLITPVHVMSKHTDFSSEI-----IGYKAIDGGVTRDIASTDTCFANKHA 69
L +LFVA + I +M + S++ +K ID GV RD++ TD CFANK
Sbjct 2847 LQWLFVANLICFIVLWALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVSVTDACFANKFN 2906
Query 70 DFDTWFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFS 127
FD W+ G Y N KACP++ AVI +++G + +P +LR LHF+ F+
Sbjct 2907 QFDQWYESTFGLVYYRNSKACPVVVAVIDQDIGHTLFNVPTKVLRY-GFHVLHFITHAFA 2965
Query 128 AVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRP 187
CYTP I Y +F S CVL++ CT+ A G P PYCY V+ + Y SL P
Sbjct 2966 TDRVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTEGVMHNASLYSSLVP 3025
Query 188 DTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNND 246
RY L + I+FP EG VRVV T YCR G CE +E G+C + + WVLNN
Sbjct 3026 HVRYNLASSNGYIRFPEVVSEGIVRVVRTRSMTYCRVGLCEEAEEGICFNFNSSWVLNNP 3085
Query 247 YYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRR 306
YYR++PG FCG +A +L+ + L+QPI ++AS VAG I+AI+V YY ++ +R
Sbjct 3086 YYRAMPGTFCGRNAFDLIHQVLGGLVQPIDFFALTASSVAGAILAIIVVLAFYYLIKLKR 3145
Query 307 AFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWM 366
AFG+Y+ VV N +++ ++F +L + VY L +Y+ Y Y T Y +++S + H+QW+
Sbjct 3146 AFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMHLQWL 3205
Query 367 VMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEM 426
VM+ ++P W I Y+ + + H W FS R++ + S TFEE AL TF++ KE
Sbjct 3206 VMYGAIMPLWFCITYVAVVVSNHALWLFS--YCRKIGTDVRSDGTFEEMALTTFMITKES 3263
Query 427 YLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDV 485
Y KL++ V +NRYL+LYNKY+YFSG MDT +YREAAC LAKA+ F+ N+G+DV
Sbjct 3264 YCKLKNSV--SDVAFNRYLSLYNKYRYFSGKMDTATYREAACSQLAKAMETFNHNNGNDV 3321
Query 486 LYQPPQTSITSAVLQ 500
LYQPP S+T++ LQ
Sbjct 3322 LYQPPTASVTTSFLQ 3336
>sp|P0C6U3|R1A_CVHN1 Replicase polyprotein 1a OS=Human coronavirus
HKU1 (isolate N1) OX=443239 GN=1a PE=1 SV=1
Length=4471
Score = 391 bits (1005), Expect = 4e-120, Method: Compositional matrix adjust.
Identities = 201/459 (44%), Positives = 285/459 (62%), Gaps = 9/459 (2%)
Query 46 YKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGGS--YTNDKACPLIAAVITREVGFVV 103
+K ID GV RDI+ D CFANK FD W+ GS Y N CP++ AV+ ++G +
Sbjct 2881 FKVIDNGVVRDISVNDLCFANKFFQFDQWYESTFGSVYYHNSMDCPIVVAVMDEDIGSTM 2940
Query 104 PGLPGTILRTTNGDFLHFLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDAS 163
+P +LR LHFL F++ CYTP I Y DF S CVL++ CT+FK
Sbjct 2941 FNVPTKVLRH-GFHVLHFLTYAFASDSVQCYTPHIQISYNDFYASGCVLSSLCTMFKRGD 2999
Query 164 GKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCR 222
G P PYCY V++ + Y SL P TRY L + + I+FP+ EG VR+V T YCR
Sbjct 3000 GTPHPYCYSDGVMKNASLYTSLVPHTRYSLANSNGFIRFPDVISEGIVRIVRTRSMTYCR 3059
Query 223 HGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISA 282
G CE +E G+C + + WVLNNDYYRS+PG FCG D +L F+ LI+PI ++A
Sbjct 3060 VGACEYAEEGICFNFNSSWVLNNDYYRSMPGTFCGRDLFDLFYQFFSSLIRPIDFFSLTA 3119
Query 283 SIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVY 342
S + G I+AIVV + YY ++ +RAFG+Y+ VV N +++ ++F +L + VY VY
Sbjct 3120 SSIFGAILAIVVVLVFYYLIKLKRAFGDYTSVVVINVVVWCINFLMLFVFQVYPICACVY 3179
Query 343 SVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV 402
+ Y Y+T Y +++S + H+QW+VM+ ++PFW + Y+ + H W FS R++
Sbjct 3180 ACFYFYVTLYFPSEISVIMHLQWIVMYGAIMPFWFCVTYVAMVIANHVLWLFS--YCRKI 3237
Query 403 VFNGVSFSTFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTS 462
N S STFEE +L TF++ K+ Y +L++ V YNRYL+LYNKY+Y+SG MDT +
Sbjct 3238 GVNVCSDSTFEETSLTTFMITKDSYCRLKNSV--SDVAYNRYLSLYNKYRYYSGKMDTAA 3295
Query 463 YREAACCHLAKALNDFS-NSGSDVLYQPPQTSITSAVLQ 500
YREAAC LAKA+ F+ N+G+DVLYQPP S++++ LQ
Sbjct 3296 YREAACSQLAKAMETFNHNNGNDVLYQPPTASVSTSFLQ 3334
>sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavirus
(strain A59) OX=11142 GN=rep PE=1 SV=1
Length=7176
Score = 391 bits (1005), Expect = 5e-120, Method: Compositional matrix adjust.
Identities = 208/495 (42%), Positives = 295/495 (60%), Gaps = 14/495 (3%)
Query 15 LVFLFVAAIFYLITPVHVMSKHTDFSSEI-----IGYKAIDGGVTRDIASTDTCFANKHA 69
L +LFVA + I +M + S++ +K ID GV RD++ TD CFANK
Sbjct 2844 LQWLFVANLICFIVLWALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVSVTDACFANKFN 2903
Query 70 DFDTWFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFS 127
FD W+ G Y N KACP++ AVI +++G + +P T+LR LHF+ F+
Sbjct 2904 QFDQWYESTFGLAYYRNSKACPVVVAVIDQDIGHTLFNVPTTVLRY-GFHVLHFITHAFA 2962
Query 128 AVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRP 187
CYTP I Y +F S CVL++ CT+ A G P PYCY V+ + Y SL P
Sbjct 2963 TDSVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTGGVMHNASLYSSLAP 3022
Query 188 DTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNND 246
RY L + I+FP EG VRVV T YCR G CE +E G+C + + WVLNN
Sbjct 3023 HVRYNLASSNGYIRFPEVVSEGIVRVVRTRSMTYCRVGLCEEAEEGICFNFNRSWVLNNP 3082
Query 247 YYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRR 306
YYR++PG FCG +A +L+ + L++PI ++AS VAG I+AI+V YY ++ +R
Sbjct 3083 YYRAMPGTFCGRNAFDLIHQVLGGLVRPIDFFALTASSVAGAILAIIVVLAFYYLIKLKR 3142
Query 307 AFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWM 366
AFG+Y+ VV N +++ ++F +L + VY L +Y+ Y Y T Y +++S + H+QW+
Sbjct 3143 AFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMHLQWL 3202
Query 367 VMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEM 426
VM+ ++P W I Y+ + + H W FS R++ S TFEE AL TF++ KE
Sbjct 3203 VMYGAIMPLWFCIIYVAVVVSNHALWLFS--YCRKIGTEVRSDGTFEEMALTTFMITKES 3260
Query 427 YLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDV 485
Y KL++ V +NRYL+LYNKY+YFSG MDT +YREAAC LAKA+ F+ N+G+DV
Sbjct 3261 YCKLKNSV--SDVAFNRYLSLYNKYRYFSGKMDTAAYREAACSQLAKAMETFNHNNGNDV 3318
Query 486 LYQPPQTSITSAVLQ 500
LYQPP S+T++ LQ
Sbjct 3319 LYQPPTASVTTSFLQ 3333
>sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavirus
HKU1 (isolate N1) OX=443239 GN=rep PE=3 SV=1
Length=7182
Score = 391 bits (1004), Expect = 6e-120, Method: Compositional matrix adjust.
Identities = 201/459 (44%), Positives = 285/459 (62%), Gaps = 9/459 (2%)
Query 46 YKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGGS--YTNDKACPLIAAVITREVGFVV 103
+K ID GV RDI+ D CFANK FD W+ GS Y N CP++ AV+ ++G +
Sbjct 2881 FKVIDNGVVRDISVNDLCFANKFFQFDQWYESTFGSVYYHNSMDCPIVVAVMDEDIGSTM 2940
Query 104 PGLPGTILRTTNGDFLHFLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDAS 163
+P +LR LHFL F++ CYTP I Y DF S CVL++ CT+FK
Sbjct 2941 FNVPTKVLRH-GFHVLHFLTYAFASDSVQCYTPHIQISYNDFYASGCVLSSLCTMFKRGD 2999
Query 164 GKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCR 222
G P PYCY V++ + Y SL P TRY L + + I+FP+ EG VR+V T YCR
Sbjct 3000 GTPHPYCYSDGVMKNASLYTSLVPHTRYSLANSNGFIRFPDVISEGIVRIVRTRSMTYCR 3059
Query 223 HGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISA 282
G CE +E G+C + + WVLNNDYYRS+PG FCG D +L F+ LI+PI ++A
Sbjct 3060 VGACEYAEEGICFNFNSSWVLNNDYYRSMPGTFCGRDLFDLFYQFFSSLIRPIDFFSLTA 3119
Query 283 SIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVY 342
S + G I+AIVV + YY ++ +RAFG+Y+ VV N +++ ++F +L + VY VY
Sbjct 3120 SSIFGAILAIVVVLVFYYLIKLKRAFGDYTSVVVINVVVWCINFLMLFVFQVYPICACVY 3179
Query 343 SVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV 402
+ Y Y+T Y +++S + H+QW+VM+ ++PFW + Y+ + H W FS R++
Sbjct 3180 ACFYFYVTLYFPSEISVIMHLQWIVMYGAIMPFWFCVTYVAMVIANHVLWLFS--YCRKI 3237
Query 403 VFNGVSFSTFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTS 462
N S STFEE +L TF++ K+ Y +L++ V YNRYL+LYNKY+Y+SG MDT +
Sbjct 3238 GVNVCSDSTFEETSLTTFMITKDSYCRLKNSV--SDVAYNRYLSLYNKYRYYSGKMDTAA 3295
Query 463 YREAACCHLAKALNDFS-NSGSDVLYQPPQTSITSAVLQ 500
YREAAC LAKA+ F+ N+G+DVLYQPP S++++ LQ
Sbjct 3296 YREAACSQLAKAMETFNHNNGNDVLYQPPTASVSTSFLQ 3334
>sp|P0C6V0|R1A_CVMA5 Replicase polyprotein 1a OS=Murine coronavirus
(strain A59) OX=11142 GN=1a PE=1 SV=1
Length=4468
Score = 391 bits (1004), Expect = 6e-120, Method: Compositional matrix adjust.
Identities = 208/495 (42%), Positives = 295/495 (60%), Gaps = 14/495 (3%)
Query 15 LVFLFVAAIFYLITPVHVMSKHTDFSSEI-----IGYKAIDGGVTRDIASTDTCFANKHA 69
L +LFVA + I +M + S++ +K ID GV RD++ TD CFANK
Sbjct 2844 LQWLFVANLICFIVLWALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVSVTDACFANKFN 2903
Query 70 DFDTWFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFS 127
FD W+ G Y N KACP++ AVI +++G + +P T+LR LHF+ F+
Sbjct 2904 QFDQWYESTFGLAYYRNSKACPVVVAVIDQDIGHTLFNVPTTVLRY-GFHVLHFITHAFA 2962
Query 128 AVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRP 187
CYTP I Y +F S CVL++ CT+ A G P PYCY V+ + Y SL P
Sbjct 2963 TDSVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTGGVMHNASLYSSLAP 3022
Query 188 DTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNND 246
RY L + I+FP EG VRVV T YCR G CE +E G+C + + WVLNN
Sbjct 3023 HVRYNLASSNGYIRFPEVVSEGIVRVVRTRSMTYCRVGLCEEAEEGICFNFNRSWVLNNP 3082
Query 247 YYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRR 306
YYR++PG FCG +A +L+ + L++PI ++AS VAG I+AI+V YY ++ +R
Sbjct 3083 YYRAMPGTFCGRNAFDLIHQVLGGLVRPIDFFALTASSVAGAILAIIVVLAFYYLIKLKR 3142
Query 307 AFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWM 366
AFG+Y+ VV N +++ ++F +L + VY L +Y+ Y Y T Y +++S + H+QW+
Sbjct 3143 AFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMHLQWL 3202
Query 367 VMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEM 426
VM+ ++P W I Y+ + + H W FS R++ S TFEE AL TF++ KE
Sbjct 3203 VMYGAIMPLWFCIIYVAVVVSNHALWLFS--YCRKIGTEVRSDGTFEEMALTTFMITKES 3260
Query 427 YLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDV 485
Y KL++ V +NRYL+LYNKY+YFSG MDT +YREAAC LAKA+ F+ N+G+DV
Sbjct 3261 YCKLKNSV--SDVAFNRYLSLYNKYRYFSGKMDTAAYREAACSQLAKAMETFNHNNGNDV 3318
Query 486 LYQPPQTSITSAVLQ 500
LYQPP S+T++ LQ
Sbjct 3319 LYQPPTASVTTSFLQ 3333
>sp|P0C6U9|R1A_CVM2 Replicase polyprotein 1a OS=Murine coronavirus
(strain 2) OX=76344 GN=1a PE=3 SV=1
Length=4416
Score = 387 bits (994), Expect = 1e-118, Method: Compositional matrix adjust.
Identities = 203/495 (41%), Positives = 295/495 (60%), Gaps = 14/495 (3%)
Query 15 LVFLFVAAIFYLITPVHVMSKHTDFSSEI-----IGYKAIDGGVTRDIASTDTCFANKHA 69
L +LFV + I +M + S++ +K ID GV RD+ TD CFANK
Sbjct 2790 LQWLFVVNLICFIVLWALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVTVTDACFANKFI 2849
Query 70 DFDTWFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFS 127
FD W+ G Y N +ACP++ AVI +++G+ + +P +LR LHF+ F+
Sbjct 2850 QFDQWYESTFGLVYYRNSRACPVVVAVIDQDIGYTLFNVPTKVLRY-GFHVLHFITHAFA 2908
Query 128 AVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRP 187
CYTP I Y +F S CVL++ CT+ A G P PYCY ++ + Y+SL P
Sbjct 2909 TDSVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTEGIMHNASLYDSLAP 2968
Query 188 DTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNND 246
RY L + + I+FP EG VR+V T YCR G CE +E GVC + + WVLNN
Sbjct 2969 HVRYNLANSNGYIRFPEVVSEGIVRIVRTRSMTYCRVGLCEDAEEGVCFNFNSSWVLNNP 3028
Query 247 YYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRR 306
YYR++PG FCG +A +L+ + L++PI ++AS VAG I+AI+V YY ++ +R
Sbjct 3029 YYRAMPGTFCGRNAFDLIHQVLGGLVRPIDFFALTASSVAGAILAIIVVLAFYYLIKLKR 3088
Query 307 AFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWM 366
AFG+Y+ VV N +++ ++F +L + VY L +Y+ Y Y T Y +++S + H+QW+
Sbjct 3089 AFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMHLQWL 3148
Query 367 VMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEM 426
VM+ ++P W I Y+ + + H W FS R++ S TFEE +L TF++ KE
Sbjct 3149 VMYGAIMPLWFCIIYVAVVVSNHALWLFS--YCRKLGTEVRSDGTFEEMSLTTFMITKES 3206
Query 427 YLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDV 485
Y KL++ V +NRYL+LYNKY+YFSG MDT +YREAAC LAKA+ F+ N+G+DV
Sbjct 3207 YCKLKNSV--SDVAFNRYLSLYNKYRYFSGKMDTAAYREAACSQLAKAMETFNHNNGNDV 3264
Query 486 LYQPPQTSITSAVLQ 500
LYQPP S+T++ LQ
Sbjct 3265 LYQPPTASVTTSFLQ 3279
>sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavirus
(strain 2) OX=76344 GN=rep PE=3 SV=1
Length=7124
Score = 387 bits (993), Expect = 2e-118, Method: Compositional matrix adjust.
Identities = 203/495 (41%), Positives = 295/495 (60%), Gaps = 14/495 (3%)
Query 15 LVFLFVAAIFYLITPVHVMSKHTDFSSEI-----IGYKAIDGGVTRDIASTDTCFANKHA 69
L +LFV + I +M + S++ +K ID GV RD+ TD CFANK
Sbjct 2790 LQWLFVVNLICFIVLWALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVTVTDACFANKFI 2849
Query 70 DFDTWFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFS 127
FD W+ G Y N +ACP++ AVI +++G+ + +P +LR LHF+ F+
Sbjct 2850 QFDQWYESTFGLVYYRNSRACPVVVAVIDQDIGYTLFNVPTKVLRY-GFHVLHFITHAFA 2908
Query 128 AVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRP 187
CYTP I Y +F S CVL++ CT+ A G P PYCY ++ + Y+SL P
Sbjct 2909 TDSVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTEGIMHNASLYDSLAP 2968
Query 188 DTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNND 246
RY L + + I+FP EG VR+V T YCR G CE +E GVC + + WVLNN
Sbjct 2969 HVRYNLANSNGYIRFPEVVSEGIVRIVRTRSMTYCRVGLCEDAEEGVCFNFNSSWVLNNP 3028
Query 247 YYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRR 306
YYR++PG FCG +A +L+ + L++PI ++AS VAG I+AI+V YY ++ +R
Sbjct 3029 YYRAMPGTFCGRNAFDLIHQVLGGLVRPIDFFALTASSVAGAILAIIVVLAFYYLIKLKR 3088
Query 307 AFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWM 366
AFG+Y+ VV N +++ ++F +L + VY L +Y+ Y Y T Y +++S + H+QW+
Sbjct 3089 AFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMHLQWL 3148
Query 367 VMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEM 426
VM+ ++P W I Y+ + + H W FS R++ S TFEE +L TF++ KE
Sbjct 3149 VMYGAIMPLWFCIIYVAVVVSNHALWLFS--YCRKLGTEVRSDGTFEEMSLTTFMITKES 3206
Query 427 YLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDV 485
Y KL++ V +NRYL+LYNKY+YFSG MDT +YREAAC LAKA+ F+ N+G+DV
Sbjct 3207 YCKLKNSV--SDVAFNRYLSLYNKYRYFSGKMDTAAYREAACSQLAKAMETFNHNNGNDV 3264
Query 486 LYQPPQTSITSAVLQ 500
LYQPP S+T++ LQ
Sbjct 3265 LYQPPTASVTTSFLQ 3279
>sp|P0C6F7|R1A_BC133 Replicase polyprotein 1a OS=Bat coronavirus
133/2005 OX=389230 GN=1a PE=3 SV=1
Length=4441
Score = 373 bits (958), Expect = 8e-114, Method: Compositional matrix adjust.
Identities = 191/492 (39%), Positives = 286/492 (58%), Gaps = 8/492 (2%)
Query 13 VTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFD 72
+TL VA + + P + ++ I+ YK I+ G+ RDIA D CFANK+ F
Sbjct 2811 LTLFVFTVAVLSWFCLPSYSIATVNFNDDRILTYKVIENGIVRDIAPNDACFANKYGHFS 2870
Query 73 TWFSQ-RGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
WF++ GG Y N CP+ AVI G V +P T L + F+ RVF A N
Sbjct 2871 KWFNENHGGVYRNSVDCPITIAVIAGVAGARVANVPAT-LAWVGRQIVLFVSRVF-ANTN 2928
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
+C+TP+ I Y F+ S CVL++ECT+F+DA G P+CYD VL G+ +Y ++P RY
Sbjct 2929 VCFTPTNEIPYDTFSDSGCVLSSECTLFRDAEGNLNPFCYDPTVLPGASSYADMKPHVRY 2988
Query 192 VLMDGSI-IQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
+ D + I+FP E ++R+ T ++YCR G+CE S AGVC+ST+G W L N Y +
Sbjct 2989 DMYDSDMYIKFPEVIFESTLRITKTLATQYCRFGSCEESAAGVCISTNGSWALYNQNYST 3048
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
PG++CG D +++ + L QP+ +S S+ G ++ + +T YY + +RA +
Sbjct 3049 RPGIYCGDDYFDIVRRLAVSLFQPVTYFQLSTSLAMGLVLCVFLTAAFYYINKVKRALAD 3108
Query 311 YSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
Y+ + L++ LC L Y+ +Y Y TFYLT + +F+ HI W VMF
Sbjct 3109 YTQCAVVAVVAALLNSLCLCFIVANPLLVAPYTAMYYYATFYLTGEPAFIMHISWYVMFG 3168
Query 371 PLVPFWITIAYIICISTKHFYWFFSNYLKRRV-VF-NGVSFSTFEEAALCTFLLNKEMYL 428
+VP W+ +Y + + +H +W + + K+ V VF +G +F++AA F++ K+ Y+
Sbjct 3169 TVVPIWMLASYTVGVMLRHLFWVLAYFSKKHVDVFTDGKLNCSFQDAASNIFVIGKDTYV 3228
Query 429 KLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSDVLYQ 488
LR+ + + RYL+L+NKYKY+SGAMDT SYREA HL KAL +S +GSD+LYQ
Sbjct 3229 ALRNAI--TQDSFVRYLSLFNKYKYYSGAMDTASYREACAAHLCKALQTYSETGSDILYQ 3286
Query 489 PPQTSITSAVLQ 500
PP S+TS+VLQ
Sbjct 3287 PPNCSVTSSVLQ 3298
>sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus
133/2005 OX=389230 GN=rep PE=3 SV=1
Length=7126
Score = 373 bits (957), Expect = 1e-113, Method: Compositional matrix adjust.
Identities = 191/492 (39%), Positives = 286/492 (58%), Gaps = 8/492 (2%)
Query 13 VTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFD 72
+TL VA + + P + ++ I+ YK I+ G+ RDIA D CFANK+ F
Sbjct 2811 LTLFVFTVAVLSWFCLPSYSIATVNFNDDRILTYKVIENGIVRDIAPNDACFANKYGHFS 2870
Query 73 TWFSQ-RGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
WF++ GG Y N CP+ AVI G V +P T L + F+ RVF A N
Sbjct 2871 KWFNENHGGVYRNSVDCPITIAVIAGVAGARVANVPAT-LAWVGRQIVLFVSRVF-ANTN 2928
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
+C+TP+ I Y F+ S CVL++ECT+F+DA G P+CYD VL G+ +Y ++P RY
Sbjct 2929 VCFTPTNEIPYDTFSDSGCVLSSECTLFRDAEGNLNPFCYDPTVLPGASSYADMKPHVRY 2988
Query 192 VLMDGSI-IQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
+ D + I+FP E ++R+ T ++YCR G+CE S AGVC+ST+G W L N Y +
Sbjct 2989 DMYDSDMYIKFPEVIFESTLRITKTLATQYCRFGSCEESAAGVCISTNGSWALYNQNYST 3048
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
PG++CG D +++ + L QP+ +S S+ G ++ + +T YY + +RA +
Sbjct 3049 RPGIYCGDDYFDIVRRLAVSLFQPVTYFQLSTSLAMGLVLCVFLTAAFYYINKVKRALAD 3108
Query 311 YSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
Y+ + L++ LC L Y+ +Y Y TFYLT + +F+ HI W VMF
Sbjct 3109 YTQCAVVAVVAALLNSLCLCFIVANPLLVAPYTAMYYYATFYLTGEPAFIMHISWYVMFG 3168
Query 371 PLVPFWITIAYIICISTKHFYWFFSNYLKRRV-VF-NGVSFSTFEEAALCTFLLNKEMYL 428
+VP W+ +Y + + +H +W + + K+ V VF +G +F++AA F++ K+ Y+
Sbjct 3169 TVVPIWMLASYTVGVMLRHLFWVLAYFSKKHVDVFTDGKLNCSFQDAASNIFVIGKDTYV 3228
Query 429 KLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSDVLYQ 488
LR+ + + RYL+L+NKYKY+SGAMDT SYREA HL KAL +S +GSD+LYQ
Sbjct 3229 ALRNAIT--QDSFVRYLSLFNKYKYYSGAMDTASYREACAAHLCKALQTYSETGSDILYQ 3286
Query 489 PPQTSITSAVLQ 500
PP S+TS+VLQ
Sbjct 3287 PPNCSVTSSVLQ 3298
>sp|P0C6T4|R1A_BCHK4 Replicase polyprotein 1a OS=Bat coronavirus
HKU4 OX=694007 GN=1a PE=1 SV=1
Length=4434
Score = 371 bits (953), Expect = 4e-113, Method: Compositional matrix adjust.
Identities = 190/492 (39%), Positives = 285/492 (58%), Gaps = 8/492 (2%)
Query 13 VTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFD 72
+TL VA + + P + ++ I+ YK I+ G+ RDIA D CFANK+ F
Sbjct 2804 LTLFVFTVAVLSWFCLPSYSIATVNFNDDRILTYKVIENGIVRDIAPNDVCFANKYGHFS 2863
Query 73 TWFSQ-RGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
WF++ GG Y N CP+ AVI G V +P L + F+ RVF A N
Sbjct 2864 KWFNENHGGVYRNSMDCPITIAVIAGVAGARVANVPAN-LAWVGKQIVLFVSRVF-ANTN 2921
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
+C+TP I Y F+ S CVL++ECT+F+DA G P+CYD VL G+ +Y ++P RY
Sbjct 2922 VCFTPINEIPYDTFSDSGCVLSSECTLFRDAEGNLNPFCYDPTVLPGASSYADMKPHVRY 2981
Query 192 VLMDGSI-IQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
+ D + I+FP +E ++R+ T ++YCR G+CE S AGVC+ST+G W L N Y +
Sbjct 2982 DMYDSDMYIKFPEVIVESTLRITKTLATQYCRFGSCEESAAGVCISTNGSWALYNQNYST 3041
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
PG++CG D +++ + L QP+ +S S+ G ++ + +T YY + +RA +
Sbjct 3042 RPGIYCGDDYFDIVRRLAISLFQPVTYFQLSTSLAMGLVLCVFLTAAFYYINKVKRALAD 3101
Query 311 YSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
Y+ + L++ LC L Y+ +Y Y TFYLT + +F+ HI W VMF
Sbjct 3102 YTQCAVVAVVAALLNSLCLCFIVANPLLVAPYTAMYYYATFYLTGEPAFIMHISWYVMFG 3161
Query 371 PLVPFWITIAYIICISTKHFYWFFSNYLKRRV-VF-NGVSFSTFEEAALCTFLLNKEMYL 428
+VP W+ +Y + + +H +W + + K+ V VF +G +F++AA F++ K+ Y+
Sbjct 3162 AVVPIWMLASYTVGVMLRHLFWVLAYFSKKHVDVFTDGKLNCSFQDAASNIFVIGKDTYV 3221
Query 429 KLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSDVLYQ 488
LR+ + + RYL+L+NKYKY+SGAMDT SYREA HL KAL +S +GSD+LYQ
Sbjct 3222 ALRNAI--TQDSFVRYLSLFNKYKYYSGAMDTASYREACAAHLCKALQTYSETGSDILYQ 3279
Query 489 PPQTSITSAVLQ 500
PP S+TS+VLQ
Sbjct 3280 PPNCSVTSSVLQ 3291
>sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus
HKU4 OX=694007 GN=rep PE=1 SV=1
Length=7119
Score = 371 bits (952), Expect = 5e-113, Method: Compositional matrix adjust.
Identities = 190/492 (39%), Positives = 285/492 (58%), Gaps = 8/492 (2%)
Query 13 VTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFD 72
+TL VA + + P + ++ I+ YK I+ G+ RDIA D CFANK+ F
Sbjct 2804 LTLFVFTVAVLSWFCLPSYSIATVNFNDDRILTYKVIENGIVRDIAPNDVCFANKYGHFS 2863
Query 73 TWFSQ-RGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
WF++ GG Y N CP+ AVI G V +P L + F+ RVF A N
Sbjct 2864 KWFNENHGGVYRNSMDCPITIAVIAGVAGARVANVPAN-LAWVGKQIVLFVSRVF-ANTN 2921
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
+C+TP I Y F+ S CVL++ECT+F+DA G P+CYD VL G+ +Y ++P RY
Sbjct 2922 VCFTPINEIPYDTFSDSGCVLSSECTLFRDAEGNLNPFCYDPTVLPGASSYADMKPHVRY 2981
Query 192 VLMDGSI-IQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
+ D + I+FP +E ++R+ T ++YCR G+CE S AGVC+ST+G W L N Y +
Sbjct 2982 DMYDSDMYIKFPEVIVESTLRITKTLATQYCRFGSCEESAAGVCISTNGSWALYNQNYST 3041
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
PG++CG D +++ + L QP+ +S S+ G ++ + +T YY + +RA +
Sbjct 3042 RPGIYCGDDYFDIVRRLAISLFQPVTYFQLSTSLAMGLVLCVFLTAAFYYINKVKRALAD 3101
Query 311 YSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
Y+ + L++ LC L Y+ +Y Y TFYLT + +F+ HI W VMF
Sbjct 3102 YTQCAVVAVVAALLNSLCLCFIVANPLLVAPYTAMYYYATFYLTGEPAFIMHISWYVMFG 3161
Query 371 PLVPFWITIAYIICISTKHFYWFFSNYLKRRV-VF-NGVSFSTFEEAALCTFLLNKEMYL 428
+VP W+ +Y + + +H +W + + K+ V VF +G +F++AA F++ K+ Y+
Sbjct 3162 AVVPIWMLASYTVGVMLRHLFWVLAYFSKKHVDVFTDGKLNCSFQDAASNIFVIGKDTYV 3221
Query 429 KLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSDVLYQ 488
LR+ + + RYL+L+NKYKY+SGAMDT SYREA HL KAL +S +GSD+LYQ
Sbjct 3222 ALRNAIT--QDSFVRYLSLFNKYKYYSGAMDTASYREACAAHLCKALQTYSETGSDILYQ 3279
Query 489 PPQTSITSAVLQ 500
PP S+TS+VLQ
Sbjct 3280 PPNCSVTSSVLQ 3291
>sp|P0C6V5|R1A_IBVM Replicase polyprotein 1a OS=Avian infectious
bronchitis virus (strain M41) OX=11127 GN=1a PE=1 SV=1
Length=3953
Score = 196 bits (499), Expect = 6e-53, Method: Compositional matrix adjust.
Identities = 142/473 (30%), Positives = 236/473 (50%), Gaps = 30/473 (6%)
Query 45 GYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVP 104
G+K ID GV R+I S D CF+NK +FD ++ G SY N+K CP++ VI + G V
Sbjct 2322 GFKVIDKGVIREIVSEDNCFSNKFVNFDAFW---GKSYENNKNCPIVTVVIDGD-GTVAV 2377
Query 105 GLPGTILRTTNG-DFLH---------FLPRVFSA--VGNICYTPSKLIEYTDFATSACVL 152
G+PG + +G F+H ++P F+ VG YT +I F TS +
Sbjct 2378 GVPGFVSWVMDGVMFVHMTQTDRRPWYIPTWFNREIVG---YTQDSIITEGSFYTSIALF 2434
Query 153 AAECTIFKDASGKPVPYCYD-TNVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVR 211
+A C ++ AS P YC++ N G++ + S+ P Y +G + P L
Sbjct 2435 SARC-LYLTASNTPQLYCFNGDNDAPGALPFGSIIPHRVYFQPNGVRLIVPQQILHTPYI 2493
Query 212 VVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPL 271
V DS YCR CE ++ G CVS +WVL ND Y S PGVFCG L+ NM +
Sbjct 2494 VKFVSDS-YCRGSVCEYTKPGYCVSLDSQWVLFNDEYISKPGVFCGSTVRELMFNMVSTF 2552
Query 272 IQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCL 331
+ +I + ++ +V+ + ++F+ F Y+ +V L+++++ VLC+
Sbjct 2553 FTGVNP-NIYIQLATMFLILVVIVLIFAMVIKFQGVFKAYATIVFTIMLVWVINAFVLCV 2611
Query 332 TPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWIT---IAYIICISTK 388
S L + V+Y Y + + + + + H + F +VP W+ + +I+ + T
Sbjct 2612 HSYNSVLAVILLVLYCYASMVTSRNTAIIMHCWLVFTFGLIVPTWLACCYLGFILYMYTP 2671
Query 389 HFYWFFSNYLKRRVVFNGVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLAL 447
+W + R +++G F ++ AA TF++ ++KL +++ ++ YL+
Sbjct 2672 LVFWCYGTTKNTRKLYDGNEFVGNYDLAAKSTFVIRGTEFVKLTNEI---GDKFEAYLSA 2728
Query 448 YNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSDVLYQPPQTSITSAVLQ 500
Y + KY+SG Y +A LA AL+ + NSG +V+Y PP+ SI + LQ
Sbjct 2729 YARLKYYSGTGSEQDYLQACRAWLAYALDQYRNSGVEVVYTPPRYSIGVSRLQ 2781
>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 = 195 bits (496), Expect = 2e-52, Method: Compositional matrix adjust.
Identities = 142/476 (30%), Positives = 237/476 (50%), Gaps = 30/476 (6%)
Query 42 EIIGYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGF 101
+ G+K ID GV R+I S D CF+NK +FD ++ G SY N+K CP++ VI + G
Sbjct 2319 HVEGFKVIDKGVIREIVSEDNCFSNKFVNFDAFW---GKSYENNKNCPIVTVVIDGD-GT 2374
Query 102 VVPGLPGTILRTTNG-DFLH---------FLPRVFSA--VGNICYTPSKLIEYTDFATSA 149
V G+PG + +G F+H ++P F+ VG YT +I F TS
Sbjct 2375 VAVGVPGFVSWVMDGVMFVHMTQTDRRPWYIPTWFNREIVG---YTQDSIITEGSFYTSI 2431
Query 150 CVLAAECTIFKDASGKPVPYCYD-TNVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEG 208
+ +A C ++ AS P YC++ N G++ + S+ P Y +G + P L
Sbjct 2432 ALFSARC-LYLTASNTPQLYCFNGDNDAPGALPFGSIIPHRVYFQPNGVRLIVPQQILHT 2490
Query 209 SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMF 268
V DS YCR CE ++ G CVS +WVL ND Y S PGVFCG L+ NM
Sbjct 2491 PYIVKFVSDS-YCRGSVCEYTKPGYCVSLDSQWVLFNDEYISKPGVFCGSTVRELMFNMV 2549
Query 269 TPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTV 328
+ + +I + ++ +V+ + ++F+ F Y+ +V L+++++ V
Sbjct 2550 STFFTGVNP-NIYIQLATMFLILVVIVLIFAMVIKFQGVFKAYATIVFTIMLVWVINAFV 2608
Query 329 LCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWIT---IAYIICI 385
LC+ S L + V+Y Y + + + + + H + F +VP W+ + +I+ +
Sbjct 2609 LCVHSYNSVLAVILLVLYCYASMVTSRNTAIIMHCWLVFTFGLIVPTWLACCYLGFILYM 2668
Query 386 STKHFYWFFSNYLKRRVVFNGVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRY 444
T +W + R +++G F ++ AA TF++ ++KL +++ ++ Y
Sbjct 2669 YTPLVFWCYGTTKNTRKLYDGNEFVGNYDLAAKSTFVIRGTEFVKLTNEI---GDKFEAY 2725
Query 445 LALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSDVLYQPPQTSITSAVLQ 500
L+ Y + KY+SG Y +A LA AL+ + NSG +V+Y PP+ SI + LQ
Sbjct 2726 LSAYARLKYYSGTGSEQDYLQACRAWLAYALDQYRNSGVEVVYTPPRYSIGVSRLQ 2781
>sp|P0C6V4|R1A_IBVBC Replicase polyprotein 1a OS=Avian infectious
bronchitis virus (strain Beaudette CK) OX=160235 GN=1a PE=3
SV=1
Length=3951
Score = 194 bits (494), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 141/473 (30%), Positives = 233/473 (49%), Gaps = 30/473 (6%)
Query 45 GYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVP 104
G+K ID GV R+I DTCF+NK +FD ++ G Y N + CP++ AVI + G V
Sbjct 2320 GFKVIDKGVLREIVPEDTCFSNKFVNFDAFW---GRPYDNSRNCPIVTAVIDGD-GTVAT 2375
Query 105 GLPGTILRTTNG-DFLH---------FLPRVFSA--VGNICYTPSKLIEYTDFATSACVL 152
G+PG + +G F+H ++P F+ VG YT +I F TS +
Sbjct 2376 GVPGFVSWVMDGVMFIHMTQTERKPWYIPTWFNREIVG---YTQDSIITEGSFYTSIALF 2432
Query 153 AAECTIFKDASGKPVPYCYD-TNVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVR 211
+A C ++ AS P YC++ N G++ + S+ P Y +G + P L
Sbjct 2433 SARC-LYLTASNTPQLYCFNGDNDAPGALPFGSIIPHRVYFQPNGVRLIVPQQILHTPYV 2491
Query 212 VVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPL 271
V DS YCR CE + G CVS + +WVL ND Y S PGVFCG L+ +M +
Sbjct 2492 VKFVSDS-YCRGSVCEYTRPGYCVSLNPQWVLFNDEYTSKPGVFCGSTVRELMFSMVSTF 2550
Query 272 IQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCL 331
+ +I + ++ +VV + ++F+ F Y+ V L+++++ +LC+
Sbjct 2551 FTGVNP-NIYMQLATMFLILVVVVLIFAMVIKFQGVFKAYATTVFITMLVWVINAFILCV 2609
Query 332 TPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWIT---IAYIICISTK 388
S L + V+Y Y + + + + H + F +VP W+ + +II + T
Sbjct 2610 HSYNSVLAVILLVLYCYASLVTSRNTVIIMHCWLVFTFGLIVPTWLACCYLGFIIYMYTP 2669
Query 389 HFYWFFSNYLKRRVVFNGVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLAL 447
F W + R +++G F ++ AA TF++ ++KL +++ ++ YL+
Sbjct 2670 LFLWCYGTTKNTRKLYDGNEFVGNYDLAAKSTFVIRGSEFVKLTNEI---GDKFEAYLSA 2726
Query 448 YNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSDVLYQPPQTSITSAVLQ 500
Y + KY+SG Y +A LA AL+ + NSG +++Y PP+ SI + LQ
Sbjct 2727 YARLKYYSGTGSEQDYLQACRAWLAYALDQYRNSGVEIVYTPPRYSIGVSRLQ 2779
>sp|P0C6V3|R1A_IBVB Replicase polyprotein 1a OS=Avian infectious
bronchitis virus (strain Beaudette) OX=11122 GN=1a PE=1 SV=1
Length=3951
Score = 194 bits (494), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 141/473 (30%), Positives = 233/473 (49%), Gaps = 30/473 (6%)
Query 45 GYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVP 104
G+K ID GV R+I DTCF+NK +FD ++ G Y N + CP++ AVI + G V
Sbjct 2320 GFKVIDKGVLREIVPEDTCFSNKFVNFDAFW---GRPYDNSRNCPIVTAVIDGD-GTVAT 2375
Query 105 GLPGTILRTTNG-DFLH---------FLPRVFSA--VGNICYTPSKLIEYTDFATSACVL 152
G+PG + +G F+H ++P F+ VG YT +I F TS +
Sbjct 2376 GVPGFVSWVMDGVMFIHMTQTERKPWYIPTWFNREIVG---YTQDSIITEGSFYTSIALF 2432
Query 153 AAECTIFKDASGKPVPYCYD-TNVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVR 211
+A C ++ AS P YC++ N G++ + S+ P Y +G + P L
Sbjct 2433 SARC-LYLTASNTPQLYCFNGDNDAPGALPFGSIIPHRVYFQPNGVRLIVPQQILHTPYV 2491
Query 212 VVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPL 271
V DS YCR CE + G CVS + +WVL ND Y S PGVFCG L+ +M +
Sbjct 2492 VKFVSDS-YCRGSVCEYTRPGYCVSLNPQWVLFNDEYTSKPGVFCGSTVRELMFSMVSTF 2550
Query 272 IQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCL 331
+ +I + ++ +VV + ++F+ F Y+ V L+++++ +LC+
Sbjct 2551 FTGVNP-NIYMQLATMFLILVVVVLIFAMVIKFQGVFKAYATTVFITMLVWVINAFILCV 2609
Query 332 TPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWIT---IAYIICISTK 388
S L + V+Y Y + + + + H + F +VP W+ + +II + T
Sbjct 2610 HSYNSVLAVILLVLYCYASLVTSRNTVIIMHCWLVFTFGLIVPTWLACCYLGFIIYMYTP 2669
Query 389 HFYWFFSNYLKRRVVFNGVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLAL 447
F W + R +++G F ++ AA TF++ ++KL +++ ++ YL+
Sbjct 2670 LFLWCYGTTKNTRKLYDGNEFVGNYDLAAKSTFVIRGSEFVKLTNEI---GDKFEAYLSA 2726
Query 448 YNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSDVLYQPPQTSITSAVLQ 500
Y + KY+SG Y +A LA AL+ + NSG +++Y PP+ SI + LQ
Sbjct 2727 YARLKYYSGTGSEQDYLQACRAWLAYALDQYRNSGVEIVYTPPRYSIGVSRLQ 2779
>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 = 193 bits (491), Expect = 8e-52, Method: Compositional matrix adjust.
Identities = 141/476 (30%), Positives = 234/476 (49%), Gaps = 30/476 (6%)
Query 42 EIIGYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGF 101
+ G+K ID GV R+I DTCF+NK +FD ++ G Y N + CP++ AVI + G
Sbjct 2317 HVEGFKVIDKGVLREIVPEDTCFSNKFVNFDAFW---GRPYDNSRNCPIVTAVIDGD-GT 2372
Query 102 VVPGLPGTILRTTNG-DFLH---------FLPRVFSA--VGNICYTPSKLIEYTDFATSA 149
V G+PG + +G F+H ++P F+ VG YT +I F TS
Sbjct 2373 VATGVPGFVSWVMDGVMFIHMTQTERKPWYIPTWFNREIVG---YTQDSIITEGSFYTSI 2429
Query 150 CVLAAECTIFKDASGKPVPYCYD-TNVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEG 208
+ +A C ++ AS P YC++ N G++ + S+ P Y +G + P L
Sbjct 2430 ALFSARC-LYLTASNTPQLYCFNGDNDAPGALPFGSIIPHRVYFQPNGVRLIVPQQILHT 2488
Query 209 SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMF 268
V DS YCR CE + G CVS + +WVL ND Y S PGVFCG L+ +M
Sbjct 2489 PYVVKFVSDS-YCRGSVCEYTRPGYCVSLNPQWVLFNDEYTSKPGVFCGSTVRELMFSMV 2547
Query 269 TPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTV 328
+ + +I + ++ +VV + ++F+ F Y+ V L+++++ +
Sbjct 2548 STFFTGVNP-NIYMQLATMFLILVVVVLIFAMVIKFQGVFKAYATTVFITMLVWVINAFI 2606
Query 329 LCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWIT---IAYIICI 385
LC+ S L + V+Y Y + + + + H + F +VP W+ + +II +
Sbjct 2607 LCVHSYNSVLAVILLVLYCYASLVTSRNTVIIMHCWLVFTFGLIVPTWLACCYLGFIIYM 2666
Query 386 STKHFYWFFSNYLKRRVVFNGVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRY 444
T F W + R +++G F ++ AA TF++ ++KL +++ ++ Y
Sbjct 2667 YTPLFLWCYGTTKNTRKLYDGNEFVGNYDLAAKSTFVIRGSEFVKLTNEI---GDKFEAY 2723
Query 445 LALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSDVLYQPPQTSITSAVLQ 500
L+ Y + KY+SG Y +A LA AL+ + NSG +++Y PP+ SI + LQ
Sbjct 2724 LSAYARLKYYSGTGSEQDYLQACRAWLAYALDQYRNSGVEIVYTPPRYSIGVSRLQ 2779
>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 = 193 bits (491), Expect = 8e-52, Method: Compositional matrix adjust.
Identities = 141/476 (30%), Positives = 234/476 (49%), Gaps = 30/476 (6%)
Query 42 EIIGYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGF 101
+ G+K ID GV R+I DTCF+NK +FD ++ G Y N + CP++ AVI + G
Sbjct 2317 HVEGFKVIDKGVLREIVPEDTCFSNKFVNFDAFW---GRPYDNSRNCPIVTAVIDGD-GT 2372
Query 102 VVPGLPGTILRTTNG-DFLH---------FLPRVFSA--VGNICYTPSKLIEYTDFATSA 149
V G+PG + +G F+H ++P F+ VG YT +I F TS
Sbjct 2373 VATGVPGFVSWVMDGVMFIHMTQTERKPWYIPTWFNREIVG---YTQDSIITEGSFYTSI 2429
Query 150 CVLAAECTIFKDASGKPVPYCYD-TNVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEG 208
+ +A C ++ AS P YC++ N G++ + S+ P Y +G + P L
Sbjct 2430 ALFSARC-LYLTASNTPQLYCFNGDNDAPGALPFGSIIPHRVYFQPNGVRLIVPQQILHT 2488
Query 209 SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMF 268
V DS YCR CE + G CVS + +WVL ND Y S PGVFCG L+ +M
Sbjct 2489 PYVVKFVSDS-YCRGSVCEYTRPGYCVSLNPQWVLFNDEYTSKPGVFCGSTVRELMFSMV 2547
Query 269 TPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTV 328
+ + +I + ++ +VV + ++F+ F Y+ V L+++++ +
Sbjct 2548 STFFTGVNP-NIYMQLATMFLILVVVVLIFAMVIKFQGVFKAYATTVFITMLVWVINAFI 2606
Query 329 LCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWIT---IAYIICI 385
LC+ S L + V+Y Y + + + + H + F +VP W+ + +II +
Sbjct 2607 LCVHSYNSVLAVILLVLYCYASLVTSRNTVIIMHCWLVFTFGLIVPTWLACCYLGFIIYM 2666
Query 386 STKHFYWFFSNYLKRRVVFNGVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRY 444
T F W + R +++G F ++ AA TF++ ++KL +++ ++ Y
Sbjct 2667 YTPLFLWCYGTTKNTRKLYDGNEFVGNYDLAAKSTFVIRGSEFVKLTNEI---GDKFEAY 2723
Query 445 LALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSDVLYQPPQTSITSAVLQ 500
L+ Y + KY+SG Y +A LA AL+ + NSG +++Y PP+ SI + LQ
Sbjct 2724 LSAYARLKYYSGTGSEQDYLQACRAWLAYALDQYRNSGVEIVYTPPRYSIGVSRLQ 2779
>sp|P0C6F6|R1A_BC512 Replicase polyprotein 1a OS=Bat coronavirus
512/2005 OX=693999 GN=1a PE=3 SV=1
Length=4128
Score = 183 bits (464), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 149/500 (30%), Positives = 228/500 (46%), Gaps = 41/500 (8%)
Query 14 TLVFLFVAAIFYLITPVHVMSKHTDFSSEIIG-----YKAIDGGVTRDIASTDTCFANKH 68
T ++ F + LI + V + DFS+++ +K I+ GV + C N
Sbjct 2538 TRLYSFFWHLCVLIVVLFVATSLLDFSAQVTSDTQYDFKYIENGVLKVFEKPLDCVHNAF 2597
Query 69 ADFDTWFSQRGGSY-TNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFS 127
+F+ W + + GS TN + CP++ + EV ++ PG+P + G L F
Sbjct 2598 VNFNEWHNAKFGSIPTNSRRCPIVVGT-SDEVRYI-PGVPAGVFLY--GKSLIFAMSTIF 2653
Query 128 AVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRP 187
+C+ L + +C+ + CT G+ V YCY V++ + Y SL P
Sbjct 2654 GTSGLCFDDRGLTD-----PDSCIFNSACTTLSGIGGRNV-YCYREGVVDNAKLYSSLLP 2707
Query 188 DTRYVLMDGSIIQFPNTYLEG-SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNND 246
+ Y LMDG+ I P G +R + T YCR G C S+AGVCV +V
Sbjct 2708 HSYYRLMDGNHIVLPEIITRGFGIRTIKTQAMTYCRTGECIDSQAGVCVGLDRFFV---- 2763
Query 247 YYRSLPGV--FCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRF 304
Y PG CG +LL N+ I +S I+ +VA + F +F
Sbjct 2764 -YSKTPGSDYVCGTGFFSLLFNVIGMFSNSIPVTVMSGQILLNCVVAFTAVMACFAFTKF 2822
Query 305 RRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDV--SFLAH 362
+R FG+ S F L + V L+ V + + + Y L F T V S++ H
Sbjct 2823 KRLFGDMS----FGVLSVGLCTVVNNLSYVVT-QNSIGMLAYATLYFLCTKGVRYSWVWH 2877
Query 363 IQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAALC 418
+ + + + L P+W+ +AY+IC F N K +V +F G F +FE AA
Sbjct 2878 VGFAISYCFLAPWWVVLAYLICA----LLEFLPNLFKLKVSTQLFEGDKFVGSFESAASG 2933
Query 419 TFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDF 478
TF+L+ Y KL + + + +Y A YN+YKY+SG+ YR A HLAKA++DF
Sbjct 2934 TFVLDMHSYQKLANSI--STEKLKQYCASYNRYKYYSGSASEADYRLACFAHLAKAMSDF 2991
Query 479 SNSGSDVLYQPPQTSITSAV 498
+N D LY PP S S +
Sbjct 2992 ANDHMDKLYTPPTVSYNSTL 3011
>sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus
512/2005 OX=693999 GN=rep PE=3 SV=1
Length=6793
Score = 182 bits (463), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 149/500 (30%), Positives = 228/500 (46%), Gaps = 41/500 (8%)
Query 14 TLVFLFVAAIFYLITPVHVMSKHTDFSSEIIG-----YKAIDGGVTRDIASTDTCFANKH 68
T ++ F + LI + V + DFS+++ +K I+ GV + C N
Sbjct 2538 TRLYSFFWHLCVLIVVLFVATSLLDFSAQVTSDTQYDFKYIENGVLKVFEKPLDCVHNAF 2597
Query 69 ADFDTWFSQRGGSY-TNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFS 127
+F+ W + + GS TN + CP++ + EV ++ PG+P + G L F
Sbjct 2598 VNFNEWHNAKFGSIPTNSRRCPIVVGT-SDEVRYI-PGVPAGVFLY--GKSLIFAMSTIF 2653
Query 128 AVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRP 187
+C+ L + +C+ + CT G+ V YCY V++ + Y SL P
Sbjct 2654 GTSGLCFDDRGLTD-----PDSCIFNSACTTLSGIGGRNV-YCYREGVVDNAKLYSSLLP 2707
Query 188 DTRYVLMDGSIIQFPNTYLEG-SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNND 246
+ Y LMDG+ I P G +R + T YCR G C S+AGVCV +V
Sbjct 2708 HSYYRLMDGNHIVLPEIITRGFGIRTIKTQAMTYCRTGECIDSQAGVCVGLDRFFV---- 2763
Query 247 YYRSLPGV--FCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRF 304
Y PG CG +LL N+ I +S I+ +VA + F +F
Sbjct 2764 -YSKTPGSDYVCGTGFFSLLFNVIGMFSNSIPVTVMSGQILLNCVVAFTAVMACFAFTKF 2822
Query 305 RRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDV--SFLAH 362
+R FG+ S F L + V L+ V + + + Y L F T V S++ H
Sbjct 2823 KRLFGDMS----FGVLSVGLCTVVNNLSYVVT-QNSIGMLAYATLYFLCTKGVRYSWVWH 2877
Query 363 IQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAALC 418
+ + + + L P+W+ +AY+IC F N K +V +F G F +FE AA
Sbjct 2878 VGFAISYCFLAPWWVVLAYLICA----LLEFLPNLFKLKVSTQLFEGDKFVGSFESAASG 2933
Query 419 TFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDF 478
TF+L+ Y KL + + + +Y A YN+YKY+SG+ YR A HLAKA++DF
Sbjct 2934 TFVLDMHSYQKLANSI--STEKLKQYCASYNRYKYYSGSASEADYRLACFAHLAKAMSDF 2991
Query 479 SNSGSDVLYQPPQTSITSAV 498
+N D LY PP S S +
Sbjct 2992 ANDHMDKLYTPPTVSYNSTL 3011
>sp|P0C6U6|R1A_CVHNL Replicase polyprotein 1a OS=Human coronavirus
NL63 OX=277944 GN=1a PE=1 SV=1
Length=4060
Score = 174 bits (441), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 146/500 (29%), Positives = 232/500 (46%), Gaps = 52/500 (10%)
Query 16 VFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFDTWF 75
V LFV A+F ++ + + T F +K I+ G + + C N +F+ W
Sbjct 2474 VCLFVVALFIGVSFIDYTTTVTSFHG--YDFKYIENGQLKVFEAPLHCVRNVFDNFNQWH 2531
Query 76 SQRGGSYT-NDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHF-LPRVFSAVGNIC 133
+ G T N CP++ V R VVPG+P + G L F L F G +C
Sbjct 2532 EAKFGVVTTNSDKCPIVVGVSERIN--VVPGVPTNVYLV--GKTLVFTLQAAFGNTG-VC 2586
Query 134 YTPSKLIEYTDFATS-ACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRYV 192
Y ++ TS C+ + CT + G V YCY+T+++EGS Y +L+P+ Y
Sbjct 2587 Y------DFDGVTTSDKCIFNSACTRLEGLGGDNV-YCYNTDLIEGSKPYSTLQPNAYYK 2639
Query 193 LMDGSIIQFPNTYLEG-SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSL 251
+ ++FP G +R + T + YCR G C S GVC +W +N+ R
Sbjct 2640 YDAKNYVRFPEILARGFGLRTIRTLATRYCRVGECRDSHKGVCFGFD-KWYVNDG--RVD 2696
Query 252 PGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEY 311
G CG ++LL N+ + + +S ++ + A +T L + +F+R FG+
Sbjct 2697 DGYICGDGLIDLLVNVLSIFSSSFSVVAMSGHMLFNFLFAAFITFLCFLVTKFKRVFGDL 2756
Query 312 SHVVAFNTLLFLMSFTVLCLTPVYS---------FLPGVYSVIYLYLTFYLTNDVSFLAH 362
S+ V FTV+C T + + F +Y++ LY F T +++ H
Sbjct 2757 SYGV----------FTVVCATLINNISYVVTQNLFFMLLYAI--LYFVFTRTVRYAWIWH 2804
Query 363 IQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAALC 418
I ++V + L+P+W+ + S F N K ++ +F G F TFE AA
Sbjct 2805 IAYIVAYFLLIPWWLLTWF----SFAAFLELLPNVFKLKISTQLFEGDKFIGTFESAAAG 2860
Query 419 TFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDF 478
TF+L+ Y +L + + + Y A YNKYKY+SG+ YR A HLAKA+ D+
Sbjct 2861 TFVLDMRSYERLINTI--SPEKLKNYAASYNKYKYYSGSASEADYRCACYAHLAKAMLDY 2918
Query 479 SNSGSDVLYQPPQTSITSAV 498
+ +D+LY PP S S +
Sbjct 2919 AKDHNDMLYSPPTISYNSTL 2938
>sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavirus
NL63 OX=277944 GN=rep PE=1 SV=1
Length=6729
Score = 174 bits (440), Expect = 4e-45, Method: Compositional matrix adjust.
Identities = 146/500 (29%), Positives = 232/500 (46%), Gaps = 52/500 (10%)
Query 16 VFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFDTWF 75
V LFV A+F ++ + + T F +K I+ G + + C N +F+ W
Sbjct 2474 VCLFVVALFIGVSFIDYTTTVTSFHG--YDFKYIENGQLKVFEAPLHCVRNVFDNFNQWH 2531
Query 76 SQRGGSYT-NDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHF-LPRVFSAVGNIC 133
+ G T N CP++ V R VVPG+P + G L F L F G +C
Sbjct 2532 EAKFGVVTTNSDKCPIVVGVSERIN--VVPGVPTNVYLV--GKTLVFTLQAAFGNTG-VC 2586
Query 134 YTPSKLIEYTDFATS-ACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRYV 192
Y ++ TS C+ + CT + G V YCY+T+++EGS Y +L+P+ Y
Sbjct 2587 Y------DFDGVTTSDKCIFNSACTRLEGLGGDNV-YCYNTDLIEGSKPYSTLQPNAYYK 2639
Query 193 LMDGSIIQFPNTYLEG-SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSL 251
+ ++FP G +R + T + YCR G C S GVC +W +N+ R
Sbjct 2640 YDAKNYVRFPEILARGFGLRTIRTLATRYCRVGECRDSHKGVCFGFD-KWYVNDG--RVD 2696
Query 252 PGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEY 311
G CG ++LL N+ + + +S ++ + A +T L + +F+R FG+
Sbjct 2697 DGYICGDGLIDLLVNVLSIFSSSFSVVAMSGHMLFNFLFAAFITFLCFLVTKFKRVFGDL 2756
Query 312 SHVVAFNTLLFLMSFTVLCLTPVYS---------FLPGVYSVIYLYLTFYLTNDVSFLAH 362
S+ V FTV+C T + + F +Y++ LY F T +++ H
Sbjct 2757 SYGV----------FTVVCATLINNISYVVTQNLFFMLLYAI--LYFVFTRTVRYAWIWH 2804
Query 363 IQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAALC 418
I ++V + L+P+W+ + S F N K ++ +F G F TFE AA
Sbjct 2805 IAYIVAYFLLIPWWLLTWF----SFAAFLELLPNVFKLKISTQLFEGDKFIGTFESAAAG 2860
Query 419 TFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDF 478
TF+L+ Y +L + + + Y A YNKYKY+SG+ YR A HLAKA+ D+
Sbjct 2861 TFVLDMRSYERLINTI--SPEKLKNYAASYNKYKYYSGSASEADYRCACYAHLAKAMLDY 2918
Query 479 SNSGSDVLYQPPQTSITSAV 498
+ +D+LY PP S S +
Sbjct 2919 AKDHNDMLYSPPTISYNSTL 2938
>sp|P0C6V6|R1A_PEDV7 Replicase polyprotein 1a OS=Porcine epidemic
diarrhea virus (strain CV777) OX=229032 GN=1a PE=1 SV=1
Length=4117
Score = 172 bits (435), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 135/497 (27%), Positives = 224/497 (45%), Gaps = 50/497 (10%)
Query 18 LFVAAIFYLITPVHVMSKHTDFSSEIIG-----YKAIDGGVTRDIASTDTCFANKHADFD 72
LF+ A F+ ++ DFS+++ +K I+ G + + +C N +FD
Sbjct 2534 LFIVAAFFALS-------FLDFSTQVSSDSDYDFKYIESGQLKTFDNPLSCVHNVFINFD 2586
Query 73 TWFSQRGG-SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
W + G + N+ +CP++ V + VPG+P + G L F
Sbjct 2587 QWHDAKFGFTPVNNPSCPIVVGV--SDEARTVPGIPAGVYLA--GKTLVFAINTIFGTSG 2642
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
+C+ S + + AC+ + CT G V YCY ++EG+ Y L P + Y
Sbjct 2643 LCFDASGVAD-----KGACIFNSACTTLSGLGGTAV-YCYKNGLVEGAKLYSELAPHSYY 2696
Query 192 VLMDGSIIQFPNTYLEG-SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
++DG+ + P G +R + T YCR G C +S GVC +V N + S
Sbjct 2697 KMVDGNAVSLPEIISRGFGIRTIRTKAMTYCRVGQCVQSAEGVCFGADRFFVYNAE---S 2753
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
CG LL N+ + + + +S I+ I+A V + + F +F+R FG+
Sbjct 2754 GSDFVCGTGLFTLLMNVISVFSKTVPVTVLSGQILFNCIIAFVAVAVCFLFTKFKRMFGD 2813
Query 311 YS---HVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLA--HIQW 365
S V TLL +S+ V T + + Y L F T V ++ H+ +
Sbjct 2814 MSVGVFTVGACTLLNNVSYIVTQNT--------LGMLGYATLYFLCTKGVRYMWIWHLGF 2865
Query 366 MVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAALCTFL 421
++ + + P+W+ + Y + F N K +V +F G F +FE AA TF+
Sbjct 2866 LISYILIAPWWVLMVYAF----SAIFEFMPNLFKLKVSTQLFEGDKFVGSFENAAAGTFV 2921
Query 422 LNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNS 481
L+ Y +L + + + +Y + YNKYKY+SG+ YR A HLAKA+ D++++
Sbjct 2922 LDMHAYERLANSI--STEKLRQYASTYNKYKYYSGSASEADYRLACFAHLAKAMMDYASN 2979
Query 482 GSDVLYQPPQTSITSAV 498
+D LY PP S S +
Sbjct 2980 HNDTLYTPPTVSYNSTL 2996
>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 = 171 bits (433), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 135/497 (27%), Positives = 224/497 (45%), Gaps = 50/497 (10%)
Query 18 LFVAAIFYLITPVHVMSKHTDFSSEIIG-----YKAIDGGVTRDIASTDTCFANKHADFD 72
LF+ A F+ ++ DFS+++ +K I+ G + + +C N +FD
Sbjct 2534 LFIVAAFFALS-------FLDFSTQVSSDSDYDFKYIESGQLKTFDNPLSCVHNVFINFD 2586
Query 73 TWFSQRGG-SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
W + G + N+ +CP++ V + VPG+P + G L F
Sbjct 2587 QWHDAKFGFTPVNNPSCPIVVGV--SDEARTVPGIPAGVYLA--GKTLVFAINTIFGTSG 2642
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
+C+ S + + AC+ + CT G V YCY ++EG+ Y L P + Y
Sbjct 2643 LCFDASGVAD-----KGACIFNSACTTLSGLGGTAV-YCYKNGLVEGAKLYSELAPHSYY 2696
Query 192 VLMDGSIIQFPNTYLEG-SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
++DG+ + P G +R + T YCR G C +S GVC +V N + S
Sbjct 2697 KMVDGNAVSLPEIISRGFGIRTIRTKAMTYCRVGQCVQSAEGVCFGADRFFVYNAE---S 2753
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
CG LL N+ + + + +S I+ I+A V + + F +F+R FG+
Sbjct 2754 GSDFVCGTGLFTLLMNVISVFSKTVPVTVLSGQILFNCIIAFVAVAVCFLFTKFKRMFGD 2813
Query 311 YS---HVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLA--HIQW 365
S V TLL +S+ V T + + Y L F T V ++ H+ +
Sbjct 2814 MSVGVFTVGACTLLNNVSYIVTQNT--------LGMLGYATLYFLCTKGVRYMWIWHLGF 2865
Query 366 MVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAALCTFL 421
++ + + P+W+ + Y + F N K +V +F G F +FE AA TF+
Sbjct 2866 LISYILIAPWWVLMVYAF----SAIFEFMPNLFKLKVSTQLFEGDKFVGSFENAAAGTFV 2921
Query 422 LNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNS 481
L+ Y +L + + + +Y + YNKYKY+SG+ YR A HLAKA+ D++++
Sbjct 2922 LDMHAYERLANSI--STEKLRQYASTYNKYKYYSGSASEADYRLACFAHLAKAMMDYASN 2979
Query 482 GSDVLYQPPQTSITSAV 498
+D LY PP S S +
Sbjct 2980 HNDTLYTPPTVSYNSTL 2996
>sp|P0C6V2|R1A_CVPPU Replicase polyprotein 1a OS=Porcine transmissible
gastroenteritis coronavirus (strain Purdue) OX=11151
GN=1a PE=1 SV=1
Length=4017
Score = 161 bits (407), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 130/502 (26%), Positives = 225/502 (45%), Gaps = 32/502 (6%)
Query 7 LKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFAN 66
LKQ++ + VF+F+ L + V ++ S+E Y I G+ + T +C N
Sbjct 2398 LKQIVILVFVFIFICG---LCSVYSVATQSYIESAEGYDYMVIKNGIVQPFDDTISCVHN 2454
Query 67 KHADFDTWFSQRGGSY-TNDKACPLI-AAVITREVGFVVPGLPGTILRTTNGDFLHFLPR 124
+ F WF + G T K+CP++ V E +P +P + + G L F
Sbjct 2455 TYKGFGDWFKAKYGFIPTFGKSCPIVVGTVFDLENMRPIPDVPAYV--SIVGRSLVFAIN 2512
Query 125 VFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYES 184
V N+CY + D CV CT G V YC ++EG+ Y
Sbjct 2513 AAFGVTNMCYDHTGNAVSKDSYFDTCVFNTACTTLTGLGGTIV-YCAKQGLVEGAKLYSD 2571
Query 185 LRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLN 244
L PD Y G++++ P +R V T + YCR G C S+AG C +V +
Sbjct 2572 LMPDYYYEHASGNMVKLPAIIRGLGLRFVKTQATTYCRVGECIDSKAGFCFGGDNWFVYD 2631
Query 245 NDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRF 304
N++ G CG + N+F + + S +++ I+A + + Y ++F
Sbjct 2632 NEFGN---GYICGNSVLGFFKNVFKLFNSNMSVVATSGAMLVNIIIACLAIAMCYGVLKF 2688
Query 305 RRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPG--VYSVIYLYLTFYLTNDVSF--L 360
++ FG+ T L +M L + V F+ + +IY + +++T +++ +
Sbjct 2689 KKIFGDC-------TFLIVMIIVTLVVNNVSYFVTQNTFFMIIYAIVYYFITRKLAYPGI 2741
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAA 416
+++ + + P+++ AYI+ Y + K +V +F G F FE AA
Sbjct 2742 LDAGFIIAYINMAPWYVITAYILVF----LYDSLPSLFKLKVSTNLFEGDKFVGNFESAA 2797
Query 417 LCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALN 476
+ TF+++ Y + + + + Y +NKYKY++G+M YR A HL KAL
Sbjct 2798 MGTFVIDMRSYETIVNST--SIARIKSYANSFNKYKYYTGSMGEADYRMACYAHLGKALM 2855
Query 477 DFSNSGSDVLYQPPQTSITSAV 498
D+S + +D+LY PP S+ S +
Sbjct 2856 DYSVNRTDMLYTPPTVSVNSTL 2877
>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 = 160 bits (406), Expect = 9e-41, Method: Compositional matrix adjust.
Identities = 132/505 (26%), Positives = 225/505 (45%), Gaps = 35/505 (7%)
Query 7 LKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFAN 66
LKQL ++ + ++ L + V ++ S+E Y I GV + + C N
Sbjct 2420 LKQLKQLFWCLVLFITLYGLCSVYSVATQSYIDSAEGYDYMVIKNGVVQSFDDSINCVHN 2479
Query 67 KHADFDTWFSQRGGSY-TNDKACPLIAAVITREVGFV--VPGLPGTILRTTNGDFLHFLP 123
+ F WF + G T DK+CP++ + ++G + +P +P + G L F
Sbjct 2480 TYKGFAVWFKAKHGFVPTFDKSCPIVLGTVF-DLGNMRPIPDVPAYVALV--GRSLVFAI 2536
Query 124 RVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYE 183
V N+CY + + CV + CT G V YC ++EG+ Y
Sbjct 2537 NAAFGVTNVCYDHTGAAVSKNSYFDTCVFNSACTTLTGIGG-TVVYCAKQGLVEGAKLYS 2595
Query 184 SLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVL 243
L PD Y G++++ P +R V T + YCR G C S+AG C +V
Sbjct 2596 ELLPDYYYEHASGNMVKIPAIIRSFGLRFVKTQATTYCRVGECTESQAGFCFGGDNWFVY 2655
Query 244 NNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMR 303
+ ++ G CG + N+F + + S +++A ++A + + Y ++
Sbjct 2656 DKEFG---DGYICGSSTLGFFKNVFALFNSNMSVVATSGAMLANIVIACLAIAVCYGVLK 2712
Query 304 FRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPG------VYSVIYLYLTFYLTNDV 357
F++ FG+ TLL +M L + V F+ VY++IY + T L
Sbjct 2713 FKKIFGDC-------TLLVVMIIVTLVVNNVSYFVTQNTFFMIVYAIIYYFTTRKLA--Y 2763
Query 358 SFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFE 413
+ +++ + + P+++ + YI+ Y + K +V +F G F +FE
Sbjct 2764 PGVLDAGFIIAYLNMAPWYVLVLYIMVF----LYDSLPSLFKLKVTTNLFEGDKFVGSFE 2819
Query 414 EAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAK 473
AA+ TF+++ Y L + L + Y +NKYKY++G+M YR A HL K
Sbjct 2820 SAAMGTFVIDMRSYETLVNST--SLDRIKSYANSFNKYKYYTGSMGEADYRMACYAHLGK 2877
Query 474 ALNDFSNSGSDVLYQPPQTSITSAV 498
AL D+S S +D+LY PP S+ S +
Sbjct 2878 ALMDYSVSRNDMLYTPPTVSVNSTL 2902
>sp|P0C6Y5|R1AB_CVPPU Replicase polyprotein 1ab OS=Porcine transmissible
gastroenteritis coronavirus (strain Purdue) OX=11151
GN=rep PE=1 SV=1
Length=6684
Score = 160 bits (406), Expect = 9e-41, Method: Compositional matrix adjust.
Identities = 130/502 (26%), Positives = 225/502 (45%), Gaps = 32/502 (6%)
Query 7 LKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFAN 66
LKQ++ + VF+F+ L + V ++ S+E Y I G+ + T +C N
Sbjct 2398 LKQIVILVFVFIFICG---LCSVYSVATQSYIESAEGYDYMVIKNGIVQPFDDTISCVHN 2454
Query 67 KHADFDTWFSQRGGSY-TNDKACPLI-AAVITREVGFVVPGLPGTILRTTNGDFLHFLPR 124
+ F WF + G T K+CP++ V E +P +P + + G L F
Sbjct 2455 TYKGFGDWFKAKYGFIPTFGKSCPIVVGTVFDLENMRPIPDVPAYV--SIVGRSLVFAIN 2512
Query 125 VFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYES 184
V N+CY + D CV CT G V YC ++EG+ Y
Sbjct 2513 AAFGVTNMCYDHTGNAVSKDSYFDTCVFNTACTTLTGLGGTIV-YCAKQGLVEGAKLYSD 2571
Query 185 LRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLN 244
L PD Y G++++ P +R V T + YCR G C S+AG C +V +
Sbjct 2572 LMPDYYYEHASGNMVKLPAIIRGLGLRFVKTQATTYCRVGECIDSKAGFCFGGDNWFVYD 2631
Query 245 NDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRF 304
N++ G CG + N+F + + S +++ I+A + + Y ++F
Sbjct 2632 NEFGN---GYICGNSVLGFFKNVFKLFNSNMSVVATSGAMLVNIIIACLAIAMCYGVLKF 2688
Query 305 RRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPG--VYSVIYLYLTFYLTNDVSF--L 360
++ FG+ T L +M L + V F+ + +IY + +++T +++ +
Sbjct 2689 KKIFGDC-------TFLIVMIIVTLVVNNVSYFVTQNTFFMIIYAIVYYFITRKLAYPGI 2741
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAA 416
+++ + + P+++ AYI+ Y + K +V +F G F FE AA
Sbjct 2742 LDAGFIIAYINMAPWYVITAYILVF----LYDSLPSLFKLKVSTNLFEGDKFVGNFESAA 2797
Query 417 LCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALN 476
+ TF+++ Y + + + + Y +NKYKY++G+M YR A HL KAL
Sbjct 2798 MGTFVIDMRSYETIVNST--SIARIKSYANSFNKYKYYTGSMGEADYRMACYAHLGKALM 2855
Query 477 DFSNSGSDVLYQPPQTSITSAV 498
D+S + +D+LY PP S+ S +
Sbjct 2856 DYSVNRTDMLYTPPTVSVNSTL 2877
>sp|P0C6U2|R1A_CVH22 Replicase polyprotein 1a OS=Human coronavirus
229E OX=11137 GN=1a PE=1 SV=1
Length=4085
Score = 155 bits (392), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 130/475 (27%), Positives = 214/475 (45%), Gaps = 42/475 (9%)
Query 38 DFSSEIIGY--KAIDGGVTRDIASTDTCFANKHADFDTW-FSQRGGSYTNDKACPLIAAV 94
D S GY K I+ G ++ + C N +F+ W +++ G + N ++CP++ V
Sbjct 2518 DIVSSFEGYDFKYIENGQLKNFEAPLKCVRNVFENFEDWHYAKFGFTPLNKQSCPIVVGV 2577
Query 95 ITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGNICY------TPSKLIEYTDFATS 148
E+ V G+P + G L F + +CY TP K
Sbjct 2578 --SEIVNTVAGIPSNVYLV--GKTLIFTLQAAFGNAGVCYDIFGVTTPEK---------- 2623
Query 149 ACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEG 208
C+ + CT + G V YCY+T ++EGS+ Y S++ + Y +G+ I+ P +G
Sbjct 2624 -CIFTSACTRLEGLGGNNV-YCYNTALMEGSLPYSSIQANAYYKYDNGNFIKLPEVIAQG 2681
Query 209 -SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNM 267
R V T ++YCR G C S AGVC +W +N+ R G CG NL+ N+
Sbjct 2682 FGFRTVRTIATKYCRVGECVESNAGVCFGFD-KWFVNDG--RVANGYVCGTGLWNLVFNI 2738
Query 268 FTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFT 327
+ +S I+ + + +FRR FG+ S V + L++
Sbjct 2739 LSMFSSSFSVAAMSGQILLNCALGAFAIFCCFLVTKFRRMFGDLSVGVCTVVVAVLLNNV 2798
Query 328 VLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICIST 387
+T + Y+++Y + T L +++ +++ + P+W+ Y + + T
Sbjct 2799 SYIVTQNLVTMIA-YAILYFFATRSLR--YAWIWCAAYLIAYISFAPWWLCAWYFLAMLT 2855
Query 388 KHFYWFFSNYLKRRV---VFNGVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNR 443
+ LK +V +F G F TFE AA TF+++ Y KL + + +
Sbjct 2856 G----LLPSLLKLKVSTNLFEGDKFVGTFESAAAGTFVIDMRSYEKLANSI--SPEKLKS 2909
Query 444 YLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSDVLYQPPQTSITSAV 498
Y A YN+YKY+SG + YR A +LAKA+ DFS +D+LY PP S S +
Sbjct 2910 YAASYNRYKYYSGNANEADYRCACYAYLAKAMLDFSRDHNDILYTPPTVSYGSTL 2964
>sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavirus
229E OX=11137 GN=rep PE=1 SV=1
Length=6758
Score = 155 bits (391), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 130/475 (27%), Positives = 214/475 (45%), Gaps = 42/475 (9%)
Query 38 DFSSEIIGY--KAIDGGVTRDIASTDTCFANKHADFDTW-FSQRGGSYTNDKACPLIAAV 94
D S GY K I+ G ++ + C N +F+ W +++ G + N ++CP++ V
Sbjct 2518 DIVSSFEGYDFKYIENGQLKNFEAPLKCVRNVFENFEDWHYAKFGFTPLNKQSCPIVVGV 2577
Query 95 ITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGNICY------TPSKLIEYTDFATS 148
E+ V G+P + G L F + +CY TP K
Sbjct 2578 --SEIVNTVAGIPSNVYLV--GKTLIFTLQAAFGNAGVCYDIFGVTTPEK---------- 2623
Query 149 ACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEG 208
C+ + CT + G V YCY+T ++EGS+ Y S++ + Y +G+ I+ P +G
Sbjct 2624 -CIFTSACTRLEGLGGNNV-YCYNTALMEGSLPYSSIQANAYYKYDNGNFIKLPEVIAQG 2681
Query 209 -SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNM 267
R V T ++YCR G C S AGVC +W +N+ R G CG NL+ N+
Sbjct 2682 FGFRTVRTIATKYCRVGECVESNAGVCFGFD-KWFVNDG--RVANGYVCGTGLWNLVFNI 2738
Query 268 FTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFT 327
+ +S I+ + + +FRR FG+ S V + L++
Sbjct 2739 LSMFSSSFSVAAMSGQILLNCALGAFAIFCCFLVTKFRRMFGDLSVGVCTVVVAVLLNNV 2798
Query 328 VLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICIST 387
+T + Y+++Y + T L +++ +++ + P+W+ Y + + T
Sbjct 2799 SYIVTQNLVTMIA-YAILYFFATRSLR--YAWIWCAAYLIAYISFAPWWLCAWYFLAMLT 2855
Query 388 KHFYWFFSNYLKRRV---VFNGVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNR 443
+ LK +V +F G F TFE AA TF+++ Y KL + + +
Sbjct 2856 G----LLPSLLKLKVSTNLFEGDKFVGTFESAAAGTFVIDMRSYEKLANSI--SPEKLKS 2909
Query 444 YLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSDVLYQPPQTSITSAV 498
Y A YN+YKY+SG + YR A +LAKA+ DFS +D+LY PP S S +
Sbjct 2910 YAASYNRYKYYSGNANEADYRCACYAYLAKAMLDFSRDHNDILYTPPTVSYGSTL 2964
>sp|Q9RUV0|PPDE_DEIRA Phosphatase/phosphodiesterase DR_1281 OS=Deinococcus
radiodurans (strain ATCC 13939 / DSM 20539 / JCM
16871 / CCUG 27074 / LMG 4051 / NBRC 15346 / NCIMB 9279 /
VKM B-1422 / R1) OX=243230 GN=DR_1281 PE=1 SV=1
Length=255
Score = 40.4 bits (93), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 54/177 (31%), Positives = 73/177 (41%), Gaps = 31/177 (18%)
Query 95 ITREVGFVVPGLPGTILRT--TNGDFL---HFLPRVF-SAVGNICYTPSKLIEYTDFATS 148
I R + + PG PG RT NG+ L + L RVF AV N T L+E D T
Sbjct 84 IVRPLNYADPGTPGVGWRTFDVNGEKLTVVNLLGRVFMEAVDNPFRTMDALLERDDLGTV 143
Query 149 ACVLAAECTIFKDASG--------------KPVPYCYDTNVLEGSVAYESLRPDTRYVLM 194
AE T K+A G VP DT +L+G AY++ D +
Sbjct 144 FVDFHAEATSEKEAMGWHLAGRVAAVIGTHTHVPTA-DTRILKGGTAYQT---DAGFTGP 199
Query 195 DGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCE-RSE-AGVCVSTSGRWVLNNDYYR 249
SII + +EG ++ T R+G E R+E GV + G + YR
Sbjct 200 HDSII---GSAIEGPLQRFLT--ERPHRYGVAEGRAELNGVALHFEGGKATAAERYR 251
>sp|P0C6F4|R1A_BRV1 Replicase polyprotein 1a OS=Breda virus 1
OX=360393 GN=1a PE=3 SV=1
Length=4445
Score = 38.1 bits (87), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 36/153 (24%), Positives = 75/153 (49%), Gaps = 18/153 (12%)
Query 289 IVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFT-------VLCLTPVYSFLPGV 341
+V + + + + F+ R YS+ F ++F + F V+CL P+ +PGV
Sbjct 2944 VVLVAIFTIVFLFL-LRMYIVMYSYFKVFTYVVFKLLFVNTVMVLFVVCLPPL---VPGV 2999
Query 342 YSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRR 401
V L +L + V FL ++ + +F ++P++ + +++ + F+W +
Sbjct 3000 VFV----LALWLCDSVVFLLYLAVLSLF--ILPWFYVMLFVLIVGGFVFWWMMKSSDVVH 3053
Query 402 VVFNGVSFS-TFEEAALCTFLLNKEMYLKLRSD 433
+ +G++F+ TFE+ + C F LN + +L D
Sbjct 3054 LTPDGLTFNGTFEQVSKCVFPLNPLIVNRLLLD 3086
>sp|P0C6V8|R1AB_BRV1 Replicase polyprotein 1ab OS=Breda virus
1 OX=360393 GN=rep PE=2 SV=1
Length=6733
Score = 38.1 bits (87), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 34/143 (24%), Positives = 71/143 (50%), Gaps = 18/143 (13%)
Query 289 IVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFT-------VLCLTPVYSFLPGV 341
+V + + + + F+ R YS+ F ++F + F V+CL P+ +PGV
Sbjct 2944 VVLVAIFTIVFLFL-LRMYIVMYSYFKVFTYVVFKLLFVNTVMVLFVVCLPPL---VPGV 2999
Query 342 YSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRR 401
V L +L + V FL ++ + +F ++P++ + +++ + F+W +
Sbjct 3000 VFV----LALWLCDSVVFLLYLAVLSLF--ILPWFYVMLFVLIVGGFVFWWMMKSSDVVH 3053
Query 402 VVFNGVSFS-TFEEAALCTFLLN 423
+ +G++F+ TFE+ + C F LN
Sbjct 3054 LTPDGLTFNGTFEQVSKCVFPLN 3076
>sp|P0C6V7|R1AB_BEV Replicase polyprotein 1ab OS=Berne virus OX=11156
GN=rep PE=1 SV=1
Length=6857
Score = 37.7 bits (86), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 36/142 (25%), Positives = 69/142 (49%), Gaps = 17/142 (12%)
Query 290 VAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFT-------VLCLTPVYSFLPGVY 342
V IVV + + R YS+ F ++F + F V+CL P+ +PGV
Sbjct 3064 VFIVVIFTVIFLILIRLYIVMYSYFKVFTYVVFKLLFVNIIMVLFVVCLPPL---VPGVV 3120
Query 343 SVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV 402
V L +L + V FL ++ ++ +F ++P++ + ++ + F+W + +
Sbjct 3121 FV----LALWLCDSVMFLLYLAFLSLF--ILPWFYVLFFLFMVGGFVFWWMMRSADVVHL 3174
Query 403 VFNGVSFS-TFEEAALCTFLLN 423
+G++F+ TFE+ + C F LN
Sbjct 3175 TTDGLTFNGTFEQISKCVFPLN 3196
>sp|P0C6F3|R1A_BEV Replicase polyprotein 1a OS=Berne virus OX=11156
GN=1a PE=1 SV=1
Length=4569
Score = 37.7 bits (86), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 36/142 (25%), Positives = 69/142 (49%), Gaps = 17/142 (12%)
Query 290 VAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFT-------VLCLTPVYSFLPGVY 342
V IVV + + R YS+ F ++F + F V+CL P+ +PGV
Sbjct 3064 VFIVVIFTVIFLILIRLYIVMYSYFKVFTYVVFKLLFVNIIMVLFVVCLPPL---VPGVV 3120
Query 343 SVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV 402
V L +L + V FL ++ ++ +F ++P++ + ++ + F+W + +
Sbjct 3121 FV----LALWLCDSVMFLLYLAFLSLF--ILPWFYVLFFLFMVGGFVFWWMMRSADVVHL 3174
Query 403 VFNGVSFS-TFEEAALCTFLLN 423
+G++F+ TFE+ + C F LN
Sbjct 3175 TTDGLTFNGTFEQISKCVFPLN 3196
>sp|Q59104|4HBDH_CUPNE 4-hydroxybutyrate dehydrogenase OS=Cupriavidus
necator OX=106590 GN=gbd PE=1 SV=1
Length=382
Score = 33.1 bits (74), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 28/86 (33%), Positives = 37/86 (43%), Gaps = 8/86 (9%)
Query 45 GYKAIDGGVTRDIASTDTCFANKHADFDTWFSQRGGSYT-NDKACPLIAAVITREVGFVV 103
G A+ GG + D+A A + T+ + GGS DKA PLIA T G V
Sbjct 87 GLVAVGGGSSIDLAKGIAILATHEGELTTYATIEGGSARITDKAAPLIAVPTTSGTGSEV 146
Query 104 PGLPGTILRTTNGDFL-----HFLPR 124
G I+ +G L H LP+
Sbjct 147 --ARGAIIILDDGRKLGFHSWHLLPK 170
>sp|Q7MZ74|METE_PHOLL 5-methyltetrahydropteroyltriglutamate--homocysteine
methyltransferase OS=Photorhabdus laumondii subsp.
laumondii (strain DSM 15139 / CIP 105565 / TT01) OX=243265
GN=metE PE=3 SV=1
Length=758
Score = 33.5 bits (75), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/37 (38%), Positives = 21/37 (57%), Gaps = 0/37 (0%)
Query 450 KYKYFSGAMDTTSYREAACCHLAKALNDFSNSGSDVL 486
+ + G +D TSYR C H+ +A+N+ G DVL
Sbjct 447 RLDFKKGRVDGTSYRTNICEHIKQAINEQERLGLDVL 483
>sp|Q4L6Y4|TGT_STAHJ Queuine tRNA-ribosyltransferase OS=Staphylococcus
haemolyticus (strain JCSC1435) OX=279808 GN=tgt PE=3
SV=1
Length=379
Score = 33.1 bits (74), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 28/91 (31%), Positives = 46/91 (51%), Gaps = 23/91 (25%)
Query 164 GKPVPYCYDTNVLEGSVAYESLRPDT--RYVLMDGSIIQFPNTYLEGSVRVVTTFD---- 217
G+P P Y+ ++E +V Y PD RY++ GS P+ +E S+R + FD
Sbjct 222 GEPKPVMYE--MVEHTVQY---MPDDKPRYLMGVGS----PDALIECSIRGMDMFDCVLP 272
Query 218 SEYCRHGTCERSEAGVCVSTSGRWVLNNDYY 248
+ R+GTC ++++GR V+ N Y
Sbjct 273 TRIARNGTC--------MTSNGRLVIKNAKY 295
Lambda K H a alpha
0.327 0.140 0.437 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: 51839799606
Results from round 2
Query= YP_009725300.1 nsp4 [Severe acute respiratory syndrome coronavirus
2]
Length=500
Score E
Sequences producing significant alignments: (Bits) Value
Sequences used in model and found again:
sp|P0DTC1|R1A_SARS2 Replicase polyprotein 1a OS=Severe acute resp... 670 0.0
sp|P0DTD1|R1AB_SARS2 Replicase polyprotein 1ab OS=Severe acute re... 668 0.0
sp|P0C6F8|R1A_BCHK3 Replicase polyprotein 1a OS=Bat coronavirus H... 651 0.0
sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus... 649 0.0
sp|P0C6F5|R1A_BC279 Replicase polyprotein 1a OS=Bat coronavirus 2... 645 0.0
sp|P0C6T7|R1A_BCRP3 Replicase polyprotein 1a OS=Bat coronavirus R... 645 0.0
sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus... 643 0.0
sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus... 642 0.0
sp|P0C6U8|R1A_SARS Replicase polyprotein 1a OS=Severe acute respi... 636 0.0
sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute res... 633 0.0
sp|P0C6T5|R1A_BCHK5 Replicase polyprotein 1a OS=Bat coronavirus H... 602 0.0
sp|K9N638|R1A_MERS1 Replicase polyprotein 1a OS=Middle East respi... 600 0.0
sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus... 598 0.0
sp|K9N7C7|R1AB_MERS1 Replicase polyprotein 1ab OS=Middle East res... 597 0.0
sp|P0C6V1|R1A_CVMJH Replicase polyprotein 1a OS=Murine coronaviru... 597 0.0
sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavi... 596 0.0
sp|P0C6V0|R1A_CVMA5 Replicase polyprotein 1a OS=Murine coronaviru... 595 0.0
sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavi... 595 0.0
sp|P0C6U9|R1A_CVM2 Replicase polyprotein 1a OS=Murine coronavirus... 592 0.0
sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavir... 592 0.0
sp|P0C6U7|R1A_CVHOC Replicase polyprotein 1a OS=Human coronavirus... 587 0.0
sp|P0C6F7|R1A_BC133 Replicase polyprotein 1a OS=Bat coronavirus 1... 587 0.0
sp|P0C6X6|R1AB_CVHOC Replicase polyprotein 1ab OS=Human coronavir... 587 0.0
sp|P0C6T9|R1A_CVBLU Replicase polyprotein 1a OS=Bovine coronaviru... 587 0.0
sp|P0C6T8|R1A_CVBEN Replicase polyprotein 1a OS=Bovine coronaviru... 587 0.0
sp|P0C6W8|R1AB_CVBLU Replicase polyprotein 1ab OS=Bovine coronavi... 586 0.0
sp|P0C6W7|R1AB_CVBEN Replicase polyprotein 1ab OS=Bovine coronavi... 586 0.0
sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus... 585 0.0
sp|P0C6T4|R1A_BCHK4 Replicase polyprotein 1a OS=Bat coronavirus H... 584 0.0
sp|P0C6U0|R1A_CVBM Replicase polyprotein 1a OS=Bovine coronavirus... 584 0.0
sp|P0C6W9|R1AB_CVBM Replicase polyprotein 1ab OS=Bovine coronavir... 583 0.0
sp|P0C6U1|R1A_CVBQ Replicase polyprotein 1a OS=Bovine coronavirus... 583 0.0
sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavir... 583 0.0
sp|P0C6X0|R1AB_CVBQ Replicase polyprotein 1ab OS=Bovine coronavir... 582 0.0
sp|P0C6U5|R1A_CVHN5 Replicase polyprotein 1a OS=Human coronavirus... 582 0.0
sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus... 582 0.0
sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavir... 580 0.0
sp|P0C6U4|R1A_CVHN2 Replicase polyprotein 1a OS=Human coronavirus... 580 0.0
sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavir... 575 0.0
sp|P0C6U3|R1A_CVHN1 Replicase polyprotein 1a OS=Human coronavirus... 574 0.0
sp|P0C6T6|R1A_BCHK9 Replicase polyprotein 1a OS=Bat coronavirus H... 570 0.0
sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus... 570 0.0
sp|Q98VG9|R1AB_FIPV Replicase polyprotein 1ab OS=Feline coronavir... 515 4e-163
sp|P0C6V2|R1A_CVPPU Replicase polyprotein 1a OS=Porcine transmiss... 510 3e-161
sp|P0C6Y5|R1AB_CVPPU Replicase polyprotein 1ab OS=Porcine transmi... 509 6e-161
sp|P0C6F6|R1A_BC512 Replicase polyprotein 1a OS=Bat coronavirus 5... 497 8e-157
sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus... 496 3e-156
sp|P0C6Y4|R1AB_PEDV7 Replicase polyprotein 1ab OS=Porcine epidemi... 489 5e-154
sp|P0C6V6|R1A_PEDV7 Replicase polyprotein 1a OS=Porcine epidemic ... 488 1e-153
sp|P0C6V4|R1A_IBVBC Replicase polyprotein 1a OS=Avian infectious ... 482 1e-151
sp|P0C6V3|R1A_IBVB Replicase polyprotein 1a OS=Avian infectious b... 482 1e-151
sp|P0C6V5|R1A_IBVM Replicase polyprotein 1a OS=Avian infectious b... 482 1e-151
sp|P0C6Y3|R1AB_IBVM Replicase polyprotein 1ab OS=Avian infectious... 482 2e-151
sp|P0C6Y2|R1AB_IBVBC Replicase polyprotein 1ab OS=Avian infectiou... 482 2e-151
sp|P0C6Y1|R1AB_IBVB Replicase polyprotein 1ab OS=Avian infectious... 482 2e-151
sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavir... 481 3e-151
sp|P0C6U6|R1A_CVHNL Replicase polyprotein 1a OS=Human coronavirus... 480 8e-151
sp|P0C6U2|R1A_CVH22 Replicase polyprotein 1a OS=Human coronavirus... 473 2e-148
sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavir... 472 5e-148
Sequences not found previously or not previously below threshold:
sp|P0C6F3|R1A_BEV Replicase polyprotein 1a OS=Berne virus OX=1115... 46.6 7e-04
sp|P0C6V7|R1AB_BEV Replicase polyprotein 1ab OS=Berne virus OX=11... 45.8 0.001
sp|P0C6F4|R1A_BRV1 Replicase polyprotein 1a OS=Breda virus 1 OX=3... 45.8 0.001
sp|P0C6V8|R1AB_BRV1 Replicase polyprotein 1ab OS=Breda virus 1 OX... 45.4 0.001
sp|Q008X5|R1A_WBV24 Replicase polyprotein 1a OS=White bream virus... 39.6 0.087
sp|Q008X6|R1AB_WBV24 Replicase polyprotein 1ab OS=White bream vir... 39.2 0.099
sp|P12428|BROWN_DROME Protein brown OS=Drosophila melanogaster OX... 35.4 1.3
sp|P18490|PCX_DROME Protein pecanex OS=Drosophila melanogaster OX... 35.4 1.5
sp|Q6GIU7|NORA_STAAR Quinolone resistance protein NorA OS=Staphyl... 34.6 2.3
sp|Q00167|VG78_ICHVA Putative zinc-binding protein ORF78 OS=Ictal... 34.2 3.0
sp|Q2FQC0|KUP_METHJ Probable potassium transport system protein K... 33.9 4.5
sp|Q24739|BROWN_DROVI Protein brown OS=Drosophila virilis OX=7244... 33.9 4.7
sp|Q1RH22|Y1261_RICBR Uncharacterized lipoprotein RBE_1261 OS=Ric... 33.5 5.9
sp|Q6GBD5|NORA_STAAS Quinolone resistance protein NorA OS=Staphyl... 32.7 8.9
sp|P0A0J6|NORA_STAAW Quinolone resistance protein NorA OS=Staphyl... 32.3 9.7
sp|P0A0J7|NORA_STAAU Quinolone resistance protein NorA OS=Staphyl... 32.3 9.7
sp|P0A0J5|NORA_STAAN Quinolone resistance protein NorA OS=Staphyl... 32.3 9.7
sp|P0A0J4|NORA_STAAM Quinolone resistance protein NorA OS=Staphyl... 32.3 9.7
>sp|P0DTC1|R1A_SARS2 Replicase polyprotein 1a OS=Severe acute
respiratory syndrome coronavirus 2 OX=2697049 PE=1 SV=1
Length=4405
Score = 670 bits (1730), Expect = 0.0, Method: Composition-based stats.
Identities = 500/500 (100%), Positives = 500/500 (100%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST
Sbjct 2764 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 2823
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH
Sbjct 2824 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 2883
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV
Sbjct 2884 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 2943
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR
Sbjct 2944 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 3003
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY
Sbjct 3004 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 3063
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL
Sbjct 3064 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 3123
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF
Sbjct 3124 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 3183
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN
Sbjct 3184 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 3243
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SGSDVLYQPPQTSITSAVLQ
Sbjct 3244 SGSDVLYQPPQTSITSAVLQ 3263
>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 = 668 bits (1724), Expect = 0.0, Method: Composition-based stats.
Identities = 500/500 (100%), Positives = 500/500 (100%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST
Sbjct 2764 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 2823
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH
Sbjct 2824 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 2883
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV
Sbjct 2884 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 2943
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR
Sbjct 2944 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 3003
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY
Sbjct 3004 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 3063
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL
Sbjct 3064 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 3123
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF
Sbjct 3124 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 3183
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN
Sbjct 3184 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 3243
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SGSDVLYQPPQTSITSAVLQ
Sbjct 3244 SGSDVLYQPPQTSITSAVLQ 3263
>sp|P0C6F8|R1A_BCHK3 Replicase polyprotein 1a OS=Bat coronavirus
HKU3 OX=442736 GN=1a PE=3 SV=1
Length=4376
Score = 651 bits (1680), Expect = 0.0, Method: Composition-based stats.
Identities = 407/500 (81%), Positives = 458/500 (92%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
K+V+ W K L+KVTL+ + A Y+I PVH +S H +++EIIGYKAI GVTRDI ST
Sbjct 2735 KVVSTWFKLLLKVTLLCVLAALFCYVIMPVHSLSVHDGYTNEIIGYKAIQDGVTRDIVST 2794
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
D CFANKHA FD+WFSQRGGSY NDK CP++AA+ITRE+GF+VPGLPGT+LR NGDFLH
Sbjct 2795 DDCFANKHAGFDSWFSQRGGSYRNDKNCPVVAAIITREIGFIVPGLPGTVLRALNGDFLH 2854
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEY+DFATSACVLAAECTIFKDA GKPVPYCYDTN+LEGS+
Sbjct 2855 FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSI 2914
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
+Y LRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFD+EYCRHGTCERSE GVC+STSGR
Sbjct 2915 SYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGVCLSTSGR 2974
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNN++YR+LPGVFCGVDA+NL+ N+FTPL+QP+GALD+SAS+VAGGI+AI+VTC AYY
Sbjct 2975 WVLNNEHYRALPGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYY 3034
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FM+FRRAFGEY+HVVA N LLFLMSFT+LCL P YSFLPGVYS+ YLYLTFY TNDVSFL
Sbjct 3035 FMKFRRAFGEYNHVVAANALLFLMSFTILCLAPAYSFLPGVYSIFYLYLTFYFTNDVSFL 3094
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AH+QW MF+P+VPFWIT Y+ CIS KHF+WFFSNYLK+RV+FNGV+FSTFEEAALCTF
Sbjct 3095 AHLQWFAMFSPIVPFWITAIYVFCISLKHFHWFFSNYLKKRVMFNGVTFSTFEEAALCTF 3154
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYL+LRS+ LLPLTQYNRYLALYNKYKYFSGA+DTTSYREAACCHLAKALNDFSN
Sbjct 3155 LLNKEMYLRLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSN 3214
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SG+DVLYQPPQTSITSAVLQ
Sbjct 3215 SGADVLYQPPQTSITSAVLQ 3234
>sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus
HKU3 OX=442736 GN=rep PE=3 SV=1
Length=7067
Score = 649 bits (1674), Expect = 0.0, Method: Composition-based stats.
Identities = 407/500 (81%), Positives = 458/500 (92%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
K+V+ W K L+KVTL+ + A Y+I PVH +S H +++EIIGYKAI GVTRDI ST
Sbjct 2735 KVVSTWFKLLLKVTLLCVLAALFCYVIMPVHSLSVHDGYTNEIIGYKAIQDGVTRDIVST 2794
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
D CFANKHA FD+WFSQRGGSY NDK CP++AA+ITRE+GF+VPGLPGT+LR NGDFLH
Sbjct 2795 DDCFANKHAGFDSWFSQRGGSYRNDKNCPVVAAIITREIGFIVPGLPGTVLRALNGDFLH 2854
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEY+DFATSACVLAAECTIFKDA GKPVPYCYDTN+LEGS+
Sbjct 2855 FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSI 2914
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
+Y LRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFD+EYCRHGTCERSE GVC+STSGR
Sbjct 2915 SYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGVCLSTSGR 2974
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNN++YR+LPGVFCGVDA+NL+ N+FTPL+QP+GALD+SAS+VAGGI+AI+VTC AYY
Sbjct 2975 WVLNNEHYRALPGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYY 3034
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FM+FRRAFGEY+HVVA N LLFLMSFT+LCL P YSFLPGVYS+ YLYLTFY TNDVSFL
Sbjct 3035 FMKFRRAFGEYNHVVAANALLFLMSFTILCLAPAYSFLPGVYSIFYLYLTFYFTNDVSFL 3094
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AH+QW MF+P+VPFWIT Y+ CIS KHF+WFFSNYLK+RV+FNGV+FSTFEEAALCTF
Sbjct 3095 AHLQWFAMFSPIVPFWITAIYVFCISLKHFHWFFSNYLKKRVMFNGVTFSTFEEAALCTF 3154
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYL+LRS+ LLPLTQYNRYLALYNKYKYFSGA+DTTSYREAACCHLAKALNDFSN
Sbjct 3155 LLNKEMYLRLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSN 3214
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SG+DVLYQPPQTSITSAVLQ
Sbjct 3215 SGADVLYQPPQTSITSAVLQ 3234
>sp|P0C6F5|R1A_BC279 Replicase polyprotein 1a OS=Bat coronavirus
279/2005 OX=389167 GN=1a PE=3 SV=1
Length=4388
Score = 645 bits (1665), Expect = 0.0, Method: Composition-based stats.
Identities = 404/500 (81%), Positives = 458/500 (92%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
KIV+ W K ++K TL+ + A Y+I PVH +S H +++EIIGYKAI GVTRDI +T
Sbjct 2747 KIVSTWFKLMLKATLLCVLAALFCYIIMPVHSLSVHDGYTNEIIGYKAIQDGVTRDIMAT 2806
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
D CFANKHA FD+WFSQRGGSY NDK+CP++AA+ITRE+GF+VPGLPGT+LR NGDFLH
Sbjct 2807 DDCFANKHAGFDSWFSQRGGSYRNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLH 2866
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEY+DFATSACVLAAECTIFKDA GKPVPYCYDTN+LEGS+
Sbjct 2867 FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSI 2926
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
+Y LRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFD+EYCRHGTCERSEAGVC+STSGR
Sbjct 2927 SYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEAGVCLSTSGR 2986
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNN++YR+LPGVFCGVDA+NL+ N+FTPL+QP+GALD+SAS+VAGGI+AI+VTC AYY
Sbjct 2987 WVLNNEHYRALPGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYY 3046
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FM+FRRAFGEY+HVVA N LLFLMSFT+LCL P YSFLPGVYS+ YLYLTFY TNDVSFL
Sbjct 3047 FMKFRRAFGEYNHVVAANALLFLMSFTILCLAPAYSFLPGVYSIFYLYLTFYFTNDVSFL 3106
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AH+QW MF+P+VPFWIT Y+ CIS KH +WFF+NYL++RV+FNGV+FSTFEEAALCTF
Sbjct 3107 AHLQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTF 3166
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYLKLRS+ LLPLTQYNRYLALYNKYKYFSGA+DTTSYREAACCHLAKALNDFSN
Sbjct 3167 LLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSN 3226
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SG+DVLYQPPQTSITSAVLQ
Sbjct 3227 SGADVLYQPPQTSITSAVLQ 3246
>sp|P0C6T7|R1A_BCRP3 Replicase polyprotein 1a OS=Bat coronavirus
Rp3/2004 OX=349344 GN=1a PE=3 SV=1
Length=4380
Score = 645 bits (1663), Expect = 0.0, Method: Composition-based stats.
Identities = 403/500 (81%), Positives = 459/500 (92%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
KIV+ W K ++K TL+ + A + Y++ PVH++S H +++EIIGYKAI GVTRDI ST
Sbjct 2739 KIVSTWFKIMLKATLLCVLAALVCYIVMPVHILSVHGGYTNEIIGYKAIQDGVTRDIVST 2798
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
D CFANKHA FD+WFSQRGGSY NDK+CP++AA+ITRE+GF+VPGLPGT+LR NGDFLH
Sbjct 2799 DDCFANKHAGFDSWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLH 2858
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEY+DF+TSACVLAAECTIFKDA GKPVPYCYDTN+LEGS+
Sbjct 2859 FLPRVFSAVGNICYTPSKLIEYSDFSTSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSI 2918
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
+Y LRPDTRYVLMDGSIIQFPN YLEGSVRVVTTFD+EYCRHGTCERSEAG+C+STSGR
Sbjct 2919 SYSELRPDTRYVLMDGSIIQFPNAYLEGSVRVVTTFDAEYCRHGTCERSEAGICLSTSGR 2978
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNN++YR+LPGVFCGVDA+NL+ N+FTPL+QP+GALD+SAS+VAGGI+AI+VTC AYY
Sbjct 2979 WVLNNEHYRALPGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYY 3038
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FM+FRRAFGEY+HVVA N LFLMSFT+LCL P YSFLPGVYSV YLYLTFY TNDVSFL
Sbjct 3039 FMKFRRAFGEYNHVVAANAPLFLMSFTILCLAPAYSFLPGVYSVFYLYLTFYFTNDVSFL 3098
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AH+QW MF+P+VPFWIT Y+ CIS KHF+WFF+NYL++RVVFNGV+FSTFEEAALCTF
Sbjct 3099 AHLQWFAMFSPIVPFWITAIYVFCISLKHFHWFFNNYLRKRVVFNGVTFSTFEEAALCTF 3158
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYLKLRS+ LLPLTQYNRYLALYNKYKYFSGA+DTTSYREAACCHLAKALNDFSN
Sbjct 3159 LLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSN 3218
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SG+DVLYQPPQTSITSAVLQ
Sbjct 3219 SGADVLYQPPQTSITSAVLQ 3238
>sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus
279/2005 OX=389167 GN=rep PE=3 SV=1
Length=7079
Score = 643 bits (1659), Expect = 0.0, Method: Composition-based stats.
Identities = 404/500 (81%), Positives = 458/500 (92%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
KIV+ W K ++K TL+ + A Y+I PVH +S H +++EIIGYKAI GVTRDI +T
Sbjct 2747 KIVSTWFKLMLKATLLCVLAALFCYIIMPVHSLSVHDGYTNEIIGYKAIQDGVTRDIMAT 2806
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
D CFANKHA FD+WFSQRGGSY NDK+CP++AA+ITRE+GF+VPGLPGT+LR NGDFLH
Sbjct 2807 DDCFANKHAGFDSWFSQRGGSYRNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLH 2866
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEY+DFATSACVLAAECTIFKDA GKPVPYCYDTN+LEGS+
Sbjct 2867 FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSI 2926
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
+Y LRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFD+EYCRHGTCERSEAGVC+STSGR
Sbjct 2927 SYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEAGVCLSTSGR 2986
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNN++YR+LPGVFCGVDA+NL+ N+FTPL+QP+GALD+SAS+VAGGI+AI+VTC AYY
Sbjct 2987 WVLNNEHYRALPGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYY 3046
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FM+FRRAFGEY+HVVA N LLFLMSFT+LCL P YSFLPGVYS+ YLYLTFY TNDVSFL
Sbjct 3047 FMKFRRAFGEYNHVVAANALLFLMSFTILCLAPAYSFLPGVYSIFYLYLTFYFTNDVSFL 3106
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AH+QW MF+P+VPFWIT Y+ CIS KH +WFF+NYL++RV+FNGV+FSTFEEAALCTF
Sbjct 3107 AHLQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTF 3166
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYLKLRS+ LLPLTQYNRYLALYNKYKYFSGA+DTTSYREAACCHLAKALNDFSN
Sbjct 3167 LLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSN 3226
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SG+DVLYQPPQTSITSAVLQ
Sbjct 3227 SGADVLYQPPQTSITSAVLQ 3246
>sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus
Rp3/2004 OX=349344 GN=rep PE=3 SV=1
Length=7071
Score = 642 bits (1655), Expect = 0.0, Method: Composition-based stats.
Identities = 403/500 (81%), Positives = 459/500 (92%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
KIV+ W K ++K TL+ + A + Y++ PVH++S H +++EIIGYKAI GVTRDI ST
Sbjct 2739 KIVSTWFKIMLKATLLCVLAALVCYIVMPVHILSVHGGYTNEIIGYKAIQDGVTRDIVST 2798
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
D CFANKHA FD+WFSQRGGSY NDK+CP++AA+ITRE+GF+VPGLPGT+LR NGDFLH
Sbjct 2799 DDCFANKHAGFDSWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLH 2858
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEY+DF+TSACVLAAECTIFKDA GKPVPYCYDTN+LEGS+
Sbjct 2859 FLPRVFSAVGNICYTPSKLIEYSDFSTSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSI 2918
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
+Y LRPDTRYVLMDGSIIQFPN YLEGSVRVVTTFD+EYCRHGTCERSEAG+C+STSGR
Sbjct 2919 SYSELRPDTRYVLMDGSIIQFPNAYLEGSVRVVTTFDAEYCRHGTCERSEAGICLSTSGR 2978
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNN++YR+LPGVFCGVDA+NL+ N+FTPL+QP+GALD+SAS+VAGGI+AI+VTC AYY
Sbjct 2979 WVLNNEHYRALPGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYY 3038
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FM+FRRAFGEY+HVVA N LFLMSFT+LCL P YSFLPGVYSV YLYLTFY TNDVSFL
Sbjct 3039 FMKFRRAFGEYNHVVAANAPLFLMSFTILCLAPAYSFLPGVYSVFYLYLTFYFTNDVSFL 3098
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AH+QW MF+P+VPFWIT Y+ CIS KHF+WFF+NYL++RVVFNGV+FSTFEEAALCTF
Sbjct 3099 AHLQWFAMFSPIVPFWITAIYVFCISLKHFHWFFNNYLRKRVVFNGVTFSTFEEAALCTF 3158
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYLKLRS+ LLPLTQYNRYLALYNKYKYFSGA+DTTSYREAACCHLAKALNDFSN
Sbjct 3159 LLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSN 3218
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SG+DVLYQPPQTSITSAVLQ
Sbjct 3219 SGADVLYQPPQTSITSAVLQ 3238
>sp|P0C6U8|R1A_SARS Replicase polyprotein 1a OS=Severe acute respiratory
syndrome coronavirus OX=694009 GN=1a PE=1 SV=1
Length=4382
Score = 636 bits (1641), Expect = 0.0, Method: Composition-based stats.
Identities = 400/500 (80%), Positives = 454/500 (91%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
KIV+ K ++K TL+ + A + Y++ PVH +S H +++EIIGYKAI GVTRDI ST
Sbjct 2741 KIVSTCFKLMLKATLLCVLAALVCYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIIST 2800
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
D CFANKHA FD WFSQRGGSY NDK+CP++AA+ITRE+GF+VPGLPGT+LR NGDFLH
Sbjct 2801 DDCFANKHAGFDAWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLH 2860
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEY+DFATSACVLAAECTIFKDA GKPVPYCYDTN+LEGS+
Sbjct 2861 FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSI 2920
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
+Y LRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFD+EYCRHGTCERSE G+C+STSGR
Sbjct 2921 SYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGR 2980
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNN++YR+L GVFCGVDA+NL+ N+FTPL+QP+GALD+SAS+VAGGI+AI+VTC AYY
Sbjct 2981 WVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYY 3040
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FM+FRR FGEY+HVVA N LLFLMSFT+LCL P YSFLPGVYSV YLYLTFY TNDVSFL
Sbjct 3041 FMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFL 3100
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AH+QW MF+P+VPFWIT Y+ CIS KH +WFF+NYL++RV+FNGV+FSTFEEAALCTF
Sbjct 3101 AHLQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTF 3160
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYLKLRS+ LLPLTQYNRYLALYNKYKYFSGA+DTTSYREAACCHLAKALNDFSN
Sbjct 3161 LLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSN 3220
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SG+DVLYQPPQTSITSAVLQ
Sbjct 3221 SGADVLYQPPQTSITSAVLQ 3240
>sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute
respiratory syndrome coronavirus OX=694009 GN=rep PE=1 SV=1
Length=7073
Score = 633 bits (1634), Expect = 0.0, Method: Composition-based stats.
Identities = 400/500 (80%), Positives = 454/500 (91%), Gaps = 0/500 (0%)
Query 1 KIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIAST 60
KIV+ K ++K TL+ + A + Y++ PVH +S H +++EIIGYKAI GVTRDI ST
Sbjct 2741 KIVSTCFKLMLKATLLCVLAALVCYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIIST 2800
Query 61 DTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLH 120
D CFANKHA FD WFSQRGGSY NDK+CP++AA+ITRE+GF+VPGLPGT+LR NGDFLH
Sbjct 2801 DDCFANKHAGFDAWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLH 2860
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
FLPRVFSAVGNICYTPSKLIEY+DFATSACVLAAECTIFKDA GKPVPYCYDTN+LEGS+
Sbjct 2861 FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSI 2920
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
+Y LRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFD+EYCRHGTCERSE G+C+STSGR
Sbjct 2921 SYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGR 2980
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
WVLNN++YR+L GVFCGVDA+NL+ N+FTPL+QP+GALD+SAS+VAGGI+AI+VTC AYY
Sbjct 2981 WVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYY 3040
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
FM+FRR FGEY+HVVA N LLFLMSFT+LCL P YSFLPGVYSV YLYLTFY TNDVSFL
Sbjct 3041 FMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFL 3100
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTF 420
AH+QW MF+P+VPFWIT Y+ CIS KH +WFF+NYL++RV+FNGV+FSTFEEAALCTF
Sbjct 3101 AHLQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTF 3160
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
LLNKEMYLKLRS+ LLPLTQYNRYLALYNKYKYFSGA+DTTSYREAACCHLAKALNDFSN
Sbjct 3161 LLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSN 3220
Query 481 SGSDVLYQPPQTSITSAVLQ 500
SG+DVLYQPPQTSITSAVLQ
Sbjct 3221 SGADVLYQPPQTSITSAVLQ 3240
>sp|P0C6T5|R1A_BCHK5 Replicase polyprotein 1a OS=Bat coronavirus
HKU5 OX=694008 GN=1a PE=3 SV=1
Length=4481
Score = 602 bits (1552), Expect = 0.0, Method: Composition-based stats.
Identities = 200/500 (40%), Positives = 297/500 (59%), Gaps = 8/500 (2%)
Query 5 NWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCF 64
W K VTLV +A + YL P MS+ + I+ YK ++ G+ RDI +DTCF
Sbjct 2843 TW-KSYCVVTLVVFAMAVLSYLCLPAFNMSQVSFHEDRILTYKVVENGIIRDITPSDTCF 2901
Query 65 ANKHADFDTWFSQR-GGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLP 123
ANK+ F WF++ GG + ND +CP+ AVI G VP LP + + F+
Sbjct 2902 ANKYQSFSKWFNEHYGGLFNNDISCPVTVAVIAGVAGARVPNLPANVAWV-GRQIVLFVS 2960
Query 124 RVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYE 183
RVF++ N+CYTP+ I Y F+ S CVLA+ECT+F+DA GK PYCYD VL G+ AY+
Sbjct 2961 RVFASSNNVCYTPTAEIPYERFSDSGCVLASECTLFRDAEGKINPYCYDPTVLPGASAYD 3020
Query 184 SLRPDTRYVLMDGSI-IQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWV 242
++P RY + D + I+FP E ++R+ T + YCR G+CE + GVC++T+G W
Sbjct 3021 QMKPHVRYDMYDSDMYIKFPEVVFESTLRITKTLATRYCRFGSCEDANEGVCITTNGSWA 3080
Query 243 LNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFM 302
+ ND+Y + PGV+CG + +++ + L QP+ +S S+ G ++ I +T YY
Sbjct 3081 IYNDHYANKPGVYCGDNYFDIVRRLGLSLFQPVTYFQLSTSLALGVMLCIFLTIAFYYVN 3140
Query 303 RFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAH 362
+ +RA +Y+ L++ LC L Y+ +Y Y TFYLT + +F+ H
Sbjct 3141 KVKRALADYTQCAVVAVAAALLNSLCLCFVVSNPLLVLPYTALYYYATFYLTGEPAFVMH 3200
Query 363 IQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRR--VVFNGVSFSTFEEAALCTF 420
+ W VMF +VP W+ AYI+ + +H W + + K+ V +G +F++AA F
Sbjct 3201 VSWFVMFGTVVPIWMVFAYIVGVCLRHLLWVMAYFSKKHVEVFTDGKLNCSFQDAAANIF 3260
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
++NK+ Y+ LR+ + YNRYL+++NKYKY+SGAMDT SYREA+ HL KAL +S
Sbjct 3261 VINKDTYVALRNSI--TQDSYNRYLSMFNKYKYYSGAMDTASYREASAAHLCKALQVYSE 3318
Query 481 SGSDVLYQPPQTSITSAVLQ 500
+GSDVL+QPP S+TS+VLQ
Sbjct 3319 TGSDVLFQPPNCSVTSSVLQ 3338
>sp|K9N638|R1A_MERS1 Replicase polyprotein 1a OS=Middle East respiratory
syndrome-related coronavirus (isolate United Kingdom/H123990006/2012)
OX=1263720 GN=1a PE=1 SV=1
Length=4391
Score = 600 bits (1547), Expect = 0.0, Method: Composition-based stats.
Identities = 196/498 (39%), Positives = 295/498 (59%), Gaps = 7/498 (1%)
Query 7 LKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFAN 66
LK + T++ A + YL P M + I+ +K +D G+ RD+ D CFAN
Sbjct 2753 LKGYVLATIIVFLCAVLMYLCLPTFSMVPVEFYEDRILDFKVLDNGIIRDVNPDDKCFAN 2812
Query 67 KHADFDTWFSQR-GGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRV 125
KH F W+ + GG Y N CPL AVI G +P +P T+ N + F+ RV
Sbjct 2813 KHRSFTQWYHEHVGGVYDNSITCPLTVAVIAGVAGARIPDVPTTLAWV-NNQIIFFVSRV 2871
Query 126 FSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESL 185
F+ G++CYTP I Y F+ S C+L +ECT+F+DA G+ PYC+D VL G+ AY +
Sbjct 2872 FANTGSVCYTPIDEIPYKSFSDSGCILPSECTMFRDAEGRMTPYCHDPTVLPGAFAYSQM 2931
Query 186 RPDTRYVLMDGSI-IQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLN 244
RP RY L DG++ I+FP E ++R+ T ++YCR G+CE ++ GVC++T+G W +
Sbjct 2932 RPHVRYDLYDGNMFIKFPEVVFESTLRITRTLSTQYCRFGSCEYAQEGVCITTNGSWAIF 2991
Query 245 NDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRF 304
ND++ + PGV+CG D ++++ + L QPI ++ S+V G + +T L YY +
Sbjct 2992 NDHHLNRPGVYCGSDFIDIVRRLAVSLFQPITYFQLTTSLVLGIGLCAFLTLLFYYINKV 3051
Query 305 RRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQ 364
+RAF +Y+ + +++ +C Y+ +Y Y TFY TN+ +F+ H+
Sbjct 3052 KRAFADYTQCAVIAVVAAVLNSLCICFVASIPLCIVPYTALYYYATFYFTNEPAFIMHVS 3111
Query 365 WMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRR--VVFNGVSFSTFEEAALCTFLL 422
W +MF P+VP W+T Y + + +HF+W + + K+ V +G +F++AA F++
Sbjct 3112 WYIMFGPIVPIWMTCVYTVAMCFRHFFWVLAYFSKKHVEVFTDGKLNCSFQDAASNIFVI 3171
Query 423 NKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSG 482
NK+ Y LR+ L Y+R+L L+NKYKYFSGAM+T +YREAA CHLAKAL +S +G
Sbjct 3172 NKDTYAALRNS--LTNDAYSRFLGLFNKYKYFSGAMETAAYREAAACHLAKALQTYSETG 3229
Query 483 SDVLYQPPQTSITSAVLQ 500
SD+LYQPP SITS VLQ
Sbjct 3230 SDLLYQPPNCSITSGVLQ 3247
>sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus
HKU5 OX=694008 GN=rep PE=3 SV=1
Length=7182
Score = 598 bits (1543), Expect = 0.0, Method: Composition-based stats.
Identities = 200/500 (40%), Positives = 297/500 (59%), Gaps = 8/500 (2%)
Query 5 NWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCF 64
W K VTLV +A + YL P MS+ + I+ YK ++ G+ RDI +DTCF
Sbjct 2843 TW-KSYCVVTLVVFAMAVLSYLCLPAFNMSQVSFHEDRILTYKVVENGIIRDITPSDTCF 2901
Query 65 ANKHADFDTWFSQR-GGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLP 123
ANK+ F WF++ GG + ND +CP+ AVI G VP LP + + F+
Sbjct 2902 ANKYQSFSKWFNEHYGGLFNNDISCPVTVAVIAGVAGARVPNLPANVAWV-GRQIVLFVS 2960
Query 124 RVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYE 183
RVF++ N+CYTP+ I Y F+ S CVLA+ECT+F+DA GK PYCYD VL G+ AY+
Sbjct 2961 RVFASSNNVCYTPTAEIPYERFSDSGCVLASECTLFRDAEGKINPYCYDPTVLPGASAYD 3020
Query 184 SLRPDTRYVLMDGSI-IQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWV 242
++P RY + D + I+FP E ++R+ T + YCR G+CE + GVC++T+G W
Sbjct 3021 QMKPHVRYDMYDSDMYIKFPEVVFESTLRITKTLATRYCRFGSCEDANEGVCITTNGSWA 3080
Query 243 LNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFM 302
+ ND+Y + PGV+CG + +++ + L QP+ +S S+ G ++ I +T YY
Sbjct 3081 IYNDHYANKPGVYCGDNYFDIVRRLGLSLFQPVTYFQLSTSLALGVMLCIFLTIAFYYVN 3140
Query 303 RFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAH 362
+ +RA +Y+ L++ LC L Y+ +Y Y TFYLT + +F+ H
Sbjct 3141 KVKRALADYTQCAVVAVAAALLNSLCLCFVVSNPLLVLPYTALYYYATFYLTGEPAFVMH 3200
Query 363 IQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRR--VVFNGVSFSTFEEAALCTF 420
+ W VMF +VP W+ AYI+ + +H W + + K+ V +G +F++AA F
Sbjct 3201 VSWFVMFGTVVPIWMVFAYIVGVCLRHLLWVMAYFSKKHVEVFTDGKLNCSFQDAAANIF 3260
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
++NK+ Y+ LR+ + YNRYL+++NKYKY+SGAMDT SYREA+ HL KAL +S
Sbjct 3261 VINKDTYVALRNSI--TQDSYNRYLSMFNKYKYYSGAMDTASYREASAAHLCKALQVYSE 3318
Query 481 SGSDVLYQPPQTSITSAVLQ 500
+GSDVL+QPP S+TS+VLQ
Sbjct 3319 TGSDVLFQPPNCSVTSSVLQ 3338
>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 = 597 bits (1540), Expect = 0.0, Method: Composition-based stats.
Identities = 196/498 (39%), Positives = 295/498 (59%), Gaps = 7/498 (1%)
Query 7 LKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFAN 66
LK + T++ A + YL P M + I+ +K +D G+ RD+ D CFAN
Sbjct 2753 LKGYVLATIIVFLCAVLMYLCLPTFSMVPVEFYEDRILDFKVLDNGIIRDVNPDDKCFAN 2812
Query 67 KHADFDTWFSQR-GGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRV 125
KH F W+ + GG Y N CPL AVI G +P +P T+ N + F+ RV
Sbjct 2813 KHRSFTQWYHEHVGGVYDNSITCPLTVAVIAGVAGARIPDVPTTLAWV-NNQIIFFVSRV 2871
Query 126 FSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESL 185
F+ G++CYTP I Y F+ S C+L +ECT+F+DA G+ PYC+D VL G+ AY +
Sbjct 2872 FANTGSVCYTPIDEIPYKSFSDSGCILPSECTMFRDAEGRMTPYCHDPTVLPGAFAYSQM 2931
Query 186 RPDTRYVLMDGSI-IQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLN 244
RP RY L DG++ I+FP E ++R+ T ++YCR G+CE ++ GVC++T+G W +
Sbjct 2932 RPHVRYDLYDGNMFIKFPEVVFESTLRITRTLSTQYCRFGSCEYAQEGVCITTNGSWAIF 2991
Query 245 NDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRF 304
ND++ + PGV+CG D ++++ + L QPI ++ S+V G + +T L YY +
Sbjct 2992 NDHHLNRPGVYCGSDFIDIVRRLAVSLFQPITYFQLTTSLVLGIGLCAFLTLLFYYINKV 3051
Query 305 RRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQ 364
+RAF +Y+ + +++ +C Y+ +Y Y TFY TN+ +F+ H+
Sbjct 3052 KRAFADYTQCAVIAVVAAVLNSLCICFVASIPLCIVPYTALYYYATFYFTNEPAFIMHVS 3111
Query 365 WMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRR--VVFNGVSFSTFEEAALCTFLL 422
W +MF P+VP W+T Y + + +HF+W + + K+ V +G +F++AA F++
Sbjct 3112 WYIMFGPIVPIWMTCVYTVAMCFRHFFWVLAYFSKKHVEVFTDGKLNCSFQDAASNIFVI 3171
Query 423 NKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSG 482
NK+ Y LR+ L Y+R+L L+NKYKYFSGAM+T +YREAA CHLAKAL +S +G
Sbjct 3172 NKDTYAALRNS--LTNDAYSRFLGLFNKYKYFSGAMETAAYREAAACHLAKALQTYSETG 3229
Query 483 SDVLYQPPQTSITSAVLQ 500
SD+LYQPP SITS VLQ
Sbjct 3230 SDLLYQPPNCSITSGVLQ 3247
>sp|P0C6V1|R1A_CVMJH Replicase polyprotein 1a OS=Murine coronavirus
(strain JHM) OX=11144 GN=1a PE=1 SV=1
Length=4474
Score = 597 bits (1538), Expect = 0.0, Method: Composition-based stats.
Identities = 208/496 (42%), Positives = 295/496 (59%), Gaps = 14/496 (3%)
Query 14 TLVFLFVAAIFYLITPVHVMSKHTDFSSEI-----IGYKAIDGGVTRDIASTDTCFANKH 68
L +LFVA + I +M + S++ +K ID GV RD++ TD CFANK
Sbjct 2846 VLQWLFVANLICFIVLWALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVSVTDACFANKF 2905
Query 69 ADFDTWFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVF 126
FD W+ G Y N KACP++ AVI +++G + +P +LR LHF+ F
Sbjct 2906 NQFDQWYESTFGLVYYRNSKACPVVVAVIDQDIGHTLFNVPTKVLRY-GFHVLHFITHAF 2964
Query 127 SAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLR 186
+ CYTP I Y +F S CVL++ CT+ A G P PYCY V+ + Y SL
Sbjct 2965 ATDRVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTEGVMHNASLYSSLV 3024
Query 187 PDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNN 245
P RY L + I+FP EG VRVV T YCR G CE +E G+C + + WVLNN
Sbjct 3025 PHVRYNLASSNGYIRFPEVVSEGIVRVVRTRSMTYCRVGLCEEAEEGICFNFNSSWVLNN 3084
Query 246 DYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFR 305
YYR++PG FCG +A +L+ + L+QPI ++AS VAG I+AI+V YY ++ +
Sbjct 3085 PYYRAMPGTFCGRNAFDLIHQVLGGLVQPIDFFALTASSVAGAILAIIVVLAFYYLIKLK 3144
Query 306 RAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQW 365
RAFG+Y+ VV N +++ ++F +L + VY L +Y+ Y Y T Y +++S + H+QW
Sbjct 3145 RAFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMHLQW 3204
Query 366 MVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKE 425
+VM+ ++P W I Y+ + + H W FS R++ + S TFEE AL TF++ KE
Sbjct 3205 LVMYGAIMPLWFCITYVAVVVSNHALWLFS--YCRKIGTDVRSDGTFEEMALTTFMITKE 3262
Query 426 MYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSD 484
Y KL++ V +NRYL+LYNKY+YFSG MDT +YREAAC LAKA+ F+ N+G+D
Sbjct 3263 SYCKLKNSV--SDVAFNRYLSLYNKYRYFSGKMDTATYREAACSQLAKAMETFNHNNGND 3320
Query 485 VLYQPPQTSITSAVLQ 500
VLYQPP S+T++ LQ
Sbjct 3321 VLYQPPTASVTTSFLQ 3336
>sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavirus
(strain JHM) OX=11144 GN=rep PE=1 SV=1
Length=7180
Score = 596 bits (1537), Expect = 0.0, Method: Composition-based stats.
Identities = 208/496 (42%), Positives = 295/496 (59%), Gaps = 14/496 (3%)
Query 14 TLVFLFVAAIFYLITPVHVMSKHTDFSSEI-----IGYKAIDGGVTRDIASTDTCFANKH 68
L +LFVA + I +M + S++ +K ID GV RD++ TD CFANK
Sbjct 2846 VLQWLFVANLICFIVLWALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVSVTDACFANKF 2905
Query 69 ADFDTWFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVF 126
FD W+ G Y N KACP++ AVI +++G + +P +LR LHF+ F
Sbjct 2906 NQFDQWYESTFGLVYYRNSKACPVVVAVIDQDIGHTLFNVPTKVLRY-GFHVLHFITHAF 2964
Query 127 SAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLR 186
+ CYTP I Y +F S CVL++ CT+ A G P PYCY V+ + Y SL
Sbjct 2965 ATDRVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTEGVMHNASLYSSLV 3024
Query 187 PDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNN 245
P RY L + I+FP EG VRVV T YCR G CE +E G+C + + WVLNN
Sbjct 3025 PHVRYNLASSNGYIRFPEVVSEGIVRVVRTRSMTYCRVGLCEEAEEGICFNFNSSWVLNN 3084
Query 246 DYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFR 305
YYR++PG FCG +A +L+ + L+QPI ++AS VAG I+AI+V YY ++ +
Sbjct 3085 PYYRAMPGTFCGRNAFDLIHQVLGGLVQPIDFFALTASSVAGAILAIIVVLAFYYLIKLK 3144
Query 306 RAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQW 365
RAFG+Y+ VV N +++ ++F +L + VY L +Y+ Y Y T Y +++S + H+QW
Sbjct 3145 RAFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMHLQW 3204
Query 366 MVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKE 425
+VM+ ++P W I Y+ + + H W FS R++ + S TFEE AL TF++ KE
Sbjct 3205 LVMYGAIMPLWFCITYVAVVVSNHALWLFS--YCRKIGTDVRSDGTFEEMALTTFMITKE 3262
Query 426 MYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSD 484
Y KL++ V +NRYL+LYNKY+YFSG MDT +YREAAC LAKA+ F+ N+G+D
Sbjct 3263 SYCKLKNSV--SDVAFNRYLSLYNKYRYFSGKMDTATYREAACSQLAKAMETFNHNNGND 3320
Query 485 VLYQPPQTSITSAVLQ 500
VLYQPP S+T++ LQ
Sbjct 3321 VLYQPPTASVTTSFLQ 3336
>sp|P0C6V0|R1A_CVMA5 Replicase polyprotein 1a OS=Murine coronavirus
(strain A59) OX=11142 GN=1a PE=1 SV=1
Length=4468
Score = 595 bits (1535), Expect = 0.0, Method: Composition-based stats.
Identities = 208/495 (42%), Positives = 295/495 (60%), Gaps = 14/495 (3%)
Query 15 LVFLFVAAIFYLITPVHVMSKHTDFSSEI-----IGYKAIDGGVTRDIASTDTCFANKHA 69
L +LFVA + I +M + S++ +K ID GV RD++ TD CFANK
Sbjct 2844 LQWLFVANLICFIVLWALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVSVTDACFANKFN 2903
Query 70 DFDTWFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFS 127
FD W+ G Y N KACP++ AVI +++G + +P T+LR LHF+ F+
Sbjct 2904 QFDQWYESTFGLAYYRNSKACPVVVAVIDQDIGHTLFNVPTTVLRY-GFHVLHFITHAFA 2962
Query 128 AVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRP 187
CYTP I Y +F S CVL++ CT+ A G P PYCY V+ + Y SL P
Sbjct 2963 TDSVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTGGVMHNASLYSSLAP 3022
Query 188 DTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNND 246
RY L + I+FP EG VRVV T YCR G CE +E G+C + + WVLNN
Sbjct 3023 HVRYNLASSNGYIRFPEVVSEGIVRVVRTRSMTYCRVGLCEEAEEGICFNFNRSWVLNNP 3082
Query 247 YYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRR 306
YYR++PG FCG +A +L+ + L++PI ++AS VAG I+AI+V YY ++ +R
Sbjct 3083 YYRAMPGTFCGRNAFDLIHQVLGGLVRPIDFFALTASSVAGAILAIIVVLAFYYLIKLKR 3142
Query 307 AFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWM 366
AFG+Y+ VV N +++ ++F +L + VY L +Y+ Y Y T Y +++S + H+QW+
Sbjct 3143 AFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMHLQWL 3202
Query 367 VMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEM 426
VM+ ++P W I Y+ + + H W FS R++ S TFEE AL TF++ KE
Sbjct 3203 VMYGAIMPLWFCIIYVAVVVSNHALWLFS--YCRKIGTEVRSDGTFEEMALTTFMITKES 3260
Query 427 YLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDV 485
Y KL++ V +NRYL+LYNKY+YFSG MDT +YREAAC LAKA+ F+ N+G+DV
Sbjct 3261 YCKLKNSV--SDVAFNRYLSLYNKYRYFSGKMDTAAYREAACSQLAKAMETFNHNNGNDV 3318
Query 486 LYQPPQTSITSAVLQ 500
LYQPP S+T++ LQ
Sbjct 3319 LYQPPTASVTTSFLQ 3333
>sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavirus
(strain A59) OX=11142 GN=rep PE=1 SV=1
Length=7176
Score = 595 bits (1534), Expect = 0.0, Method: Composition-based stats.
Identities = 208/495 (42%), Positives = 295/495 (60%), Gaps = 14/495 (3%)
Query 15 LVFLFVAAIFYLITPVHVMSKHTDFSSEI-----IGYKAIDGGVTRDIASTDTCFANKHA 69
L +LFVA + I +M + S++ +K ID GV RD++ TD CFANK
Sbjct 2844 LQWLFVANLICFIVLWALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVSVTDACFANKFN 2903
Query 70 DFDTWFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFS 127
FD W+ G Y N KACP++ AVI +++G + +P T+LR LHF+ F+
Sbjct 2904 QFDQWYESTFGLAYYRNSKACPVVVAVIDQDIGHTLFNVPTTVLRY-GFHVLHFITHAFA 2962
Query 128 AVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRP 187
CYTP I Y +F S CVL++ CT+ A G P PYCY V+ + Y SL P
Sbjct 2963 TDSVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTGGVMHNASLYSSLAP 3022
Query 188 DTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNND 246
RY L + I+FP EG VRVV T YCR G CE +E G+C + + WVLNN
Sbjct 3023 HVRYNLASSNGYIRFPEVVSEGIVRVVRTRSMTYCRVGLCEEAEEGICFNFNRSWVLNNP 3082
Query 247 YYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRR 306
YYR++PG FCG +A +L+ + L++PI ++AS VAG I+AI+V YY ++ +R
Sbjct 3083 YYRAMPGTFCGRNAFDLIHQVLGGLVRPIDFFALTASSVAGAILAIIVVLAFYYLIKLKR 3142
Query 307 AFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWM 366
AFG+Y+ VV N +++ ++F +L + VY L +Y+ Y Y T Y +++S + H+QW+
Sbjct 3143 AFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMHLQWL 3202
Query 367 VMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEM 426
VM+ ++P W I Y+ + + H W FS R++ S TFEE AL TF++ KE
Sbjct 3203 VMYGAIMPLWFCIIYVAVVVSNHALWLFS--YCRKIGTEVRSDGTFEEMALTTFMITKES 3260
Query 427 YLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSDV 485
Y KL++ V +NRYL+LYNKY+YFSG MDT +YREAAC LAKA+ F+ N+G+DV
Sbjct 3261 YCKLKNSV--SDVAFNRYLSLYNKYRYFSGKMDTAAYREAACSQLAKAMETFNHNNGNDV 3318
Query 486 LYQPPQTSITSAVLQ 500
LYQPP S+T++ LQ
Sbjct 3319 LYQPPTASVTTSFLQ 3333
>sp|P0C6U9|R1A_CVM2 Replicase polyprotein 1a OS=Murine coronavirus
(strain 2) OX=76344 GN=1a PE=3 SV=1
Length=4416
Score = 592 bits (1526), Expect = 0.0, Method: Composition-based stats.
Identities = 203/496 (41%), Positives = 295/496 (59%), Gaps = 14/496 (3%)
Query 14 TLVFLFVAAIFYLITPVHVMSKHTDFSSEI-----IGYKAIDGGVTRDIASTDTCFANKH 68
L +LFV + I +M + S++ +K ID GV RD+ TD CFANK
Sbjct 2789 VLQWLFVVNLICFIVLWALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVTVTDACFANKF 2848
Query 69 ADFDTWFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVF 126
FD W+ G Y N +ACP++ AVI +++G+ + +P +LR LHF+ F
Sbjct 2849 IQFDQWYESTFGLVYYRNSRACPVVVAVIDQDIGYTLFNVPTKVLRY-GFHVLHFITHAF 2907
Query 127 SAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLR 186
+ CYTP I Y +F S CVL++ CT+ A G P PYCY ++ + Y+SL
Sbjct 2908 ATDSVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTEGIMHNASLYDSLA 2967
Query 187 PDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNN 245
P RY L + + I+FP EG VR+V T YCR G CE +E GVC + + WVLNN
Sbjct 2968 PHVRYNLANSNGYIRFPEVVSEGIVRIVRTRSMTYCRVGLCEDAEEGVCFNFNSSWVLNN 3027
Query 246 DYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFR 305
YYR++PG FCG +A +L+ + L++PI ++AS VAG I+AI+V YY ++ +
Sbjct 3028 PYYRAMPGTFCGRNAFDLIHQVLGGLVRPIDFFALTASSVAGAILAIIVVLAFYYLIKLK 3087
Query 306 RAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQW 365
RAFG+Y+ VV N +++ ++F +L + VY L +Y+ Y Y T Y +++S + H+QW
Sbjct 3088 RAFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMHLQW 3147
Query 366 MVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKE 425
+VM+ ++P W I Y+ + + H W FS R++ S TFEE +L TF++ KE
Sbjct 3148 LVMYGAIMPLWFCIIYVAVVVSNHALWLFS--YCRKLGTEVRSDGTFEEMSLTTFMITKE 3205
Query 426 MYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSD 484
Y KL++ V +NRYL+LYNKY+YFSG MDT +YREAAC LAKA+ F+ N+G+D
Sbjct 3206 SYCKLKNSV--SDVAFNRYLSLYNKYRYFSGKMDTAAYREAACSQLAKAMETFNHNNGND 3263
Query 485 VLYQPPQTSITSAVLQ 500
VLYQPP S+T++ LQ
Sbjct 3264 VLYQPPTASVTTSFLQ 3279
>sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavirus
(strain 2) OX=76344 GN=rep PE=3 SV=1
Length=7124
Score = 592 bits (1526), Expect = 0.0, Method: Composition-based stats.
Identities = 203/496 (41%), Positives = 295/496 (59%), Gaps = 14/496 (3%)
Query 14 TLVFLFVAAIFYLITPVHVMSKHTDFSSEI-----IGYKAIDGGVTRDIASTDTCFANKH 68
L +LFV + I +M + S++ +K ID GV RD+ TD CFANK
Sbjct 2789 VLQWLFVVNLICFIVLWALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVTVTDACFANKF 2848
Query 69 ADFDTWFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVF 126
FD W+ G Y N +ACP++ AVI +++G+ + +P +LR LHF+ F
Sbjct 2849 IQFDQWYESTFGLVYYRNSRACPVVVAVIDQDIGYTLFNVPTKVLRY-GFHVLHFITHAF 2907
Query 127 SAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLR 186
+ CYTP I Y +F S CVL++ CT+ A G P PYCY ++ + Y+SL
Sbjct 2908 ATDSVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTEGIMHNASLYDSLA 2967
Query 187 PDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNN 245
P RY L + + I+FP EG VR+V T YCR G CE +E GVC + + WVLNN
Sbjct 2968 PHVRYNLANSNGYIRFPEVVSEGIVRIVRTRSMTYCRVGLCEDAEEGVCFNFNSSWVLNN 3027
Query 246 DYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFR 305
YYR++PG FCG +A +L+ + L++PI ++AS VAG I+AI+V YY ++ +
Sbjct 3028 PYYRAMPGTFCGRNAFDLIHQVLGGLVRPIDFFALTASSVAGAILAIIVVLAFYYLIKLK 3087
Query 306 RAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQW 365
RAFG+Y+ VV N +++ ++F +L + VY L +Y+ Y Y T Y +++S + H+QW
Sbjct 3088 RAFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMHLQW 3147
Query 366 MVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKE 425
+VM+ ++P W I Y+ + + H W FS R++ S TFEE +L TF++ KE
Sbjct 3148 LVMYGAIMPLWFCIIYVAVVVSNHALWLFS--YCRKLGTEVRSDGTFEEMSLTTFMITKE 3205
Query 426 MYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSD 484
Y KL++ V +NRYL+LYNKY+YFSG MDT +YREAAC LAKA+ F+ N+G+D
Sbjct 3206 SYCKLKNSV--SDVAFNRYLSLYNKYRYFSGKMDTAAYREAACSQLAKAMETFNHNNGND 3263
Query 485 VLYQPPQTSITSAVLQ 500
VLYQPP S+T++ LQ
Sbjct 3264 VLYQPPTASVTTSFLQ 3279
>sp|P0C6U7|R1A_CVHOC Replicase polyprotein 1a OS=Human coronavirus
OC43 OX=31631 GN=1a PE=1 SV=1
Length=4383
Score = 587 bits (1514), Expect = 0.0, Method: Composition-based stats.
Identities = 205/491 (42%), Positives = 298/491 (61%), Gaps = 9/491 (2%)
Query 14 TLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFDT 73
++ L + + P + + K YK +D GV RD++ D CFANK FD
Sbjct 2761 FVLSLVCFIGLWCLMPTYTVHKSDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQ 2820
Query 74 WFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
W+ G Y+N ACP++ AVI ++ G V +P +LR LHF+ SA G
Sbjct 2821 WYESTFGLSYYSNSMACPIVVAVIDQDFGSTVFNVPTKVLRY-GYHVLHFITHALSADGV 2879
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
CYTP I Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY
Sbjct 2880 QCYTPHSQISYSNFYASGCVLSSACTMFTMADGSPQPYCYTDGLMQNASLYSSLVPHVRY 2939
Query 192 VLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
L + I+FP EG VRVV T YCR G CE ++ G+C + +G WVLNNDYYRS
Sbjct 2940 NLANAKGFIRFPEVLREGLVRVVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRS 2999
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
LPG FCG D +L+ +F L QP+ L ++AS +AG I+A++V + YY ++ +RAFG+
Sbjct 3000 LPGTFCGRDVFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGD 3059
Query 311 YSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
Y+ VV N +++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+
Sbjct 3060 YTSVVFVNVIVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYG 3119
Query 371 PLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKL 430
++P W + YI + + H +W FS R++ + S TFEE AL TF++ K+ Y KL
Sbjct 3120 TIMPLWFCLLYIAVVVSNHAFWVFS--YCRKLGTSVRSDGTFEEMALTTFMITKDSYCKL 3177
Query 431 RSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDF-SNSGSDVLYQP 489
++ L +NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F +N+GSDVLYQP
Sbjct 3178 KNS--LSDVAFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQP 3235
Query 490 PQTSITSAVLQ 500
P S++++ LQ
Sbjct 3236 PTASVSTSFLQ 3246
>sp|P0C6F7|R1A_BC133 Replicase polyprotein 1a OS=Bat coronavirus
133/2005 OX=389230 GN=1a PE=3 SV=1
Length=4441
Score = 587 bits (1514), Expect = 0.0, Method: Composition-based stats.
Identities = 188/498 (38%), Positives = 286/498 (57%), Gaps = 8/498 (2%)
Query 7 LKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFAN 66
+K +TL VA + + P + ++ I+ YK I+ G+ RDIA D CFAN
Sbjct 2805 VKGYCILTLFVFTVAVLSWFCLPSYSIATVNFNDDRILTYKVIENGIVRDIAPNDACFAN 2864
Query 67 KHADFDTWFSQ-RGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRV 125
K+ F WF++ GG Y N CP+ AVI G V +P T+ + F+ RV
Sbjct 2865 KYGHFSKWFNENHGGVYRNSVDCPITIAVIAGVAGARVANVPATLAWV-GRQIVLFVSRV 2923
Query 126 FSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESL 185
F+ N+C+TP+ I Y F+ S CVL++ECT+F+DA G P+CYD VL G+ +Y +
Sbjct 2924 FANT-NVCFTPTNEIPYDTFSDSGCVLSSECTLFRDAEGNLNPFCYDPTVLPGASSYADM 2982
Query 186 RPDTRYVLMDGSI-IQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLN 244
+P RY + D + I+FP E ++R+ T ++YCR G+CE S AGVC+ST+G W L
Sbjct 2983 KPHVRYDMYDSDMYIKFPEVIFESTLRITKTLATQYCRFGSCEESAAGVCISTNGSWALY 3042
Query 245 NDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRF 304
N Y + PG++CG D +++ + L QP+ +S S+ G ++ + +T YY +
Sbjct 3043 NQNYSTRPGIYCGDDYFDIVRRLAVSLFQPVTYFQLSTSLAMGLVLCVFLTAAFYYINKV 3102
Query 305 RRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQ 364
+RA +Y+ + L++ LC L Y+ +Y Y TFYLT + +F+ HI
Sbjct 3103 KRALADYTQCAVVAVVAALLNSLCLCFIVANPLLVAPYTAMYYYATFYLTGEPAFIMHIS 3162
Query 365 WMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRR--VVFNGVSFSTFEEAALCTFLL 422
W VMF +VP W+ +Y + + +H +W + + K+ V +G +F++AA F++
Sbjct 3163 WYVMFGTVVPIWMLASYTVGVMLRHLFWVLAYFSKKHVDVFTDGKLNCSFQDAASNIFVI 3222
Query 423 NKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSG 482
K+ Y+ LR+ + + RYL+L+NKYKY+SGAMDT SYREA HL KAL +S +G
Sbjct 3223 GKDTYVALRNAI--TQDSFVRYLSLFNKYKYYSGAMDTASYREACAAHLCKALQTYSETG 3280
Query 483 SDVLYQPPQTSITSAVLQ 500
SD+LYQPP S+TS+VLQ
Sbjct 3281 SDILYQPPNCSVTSSVLQ 3298
>sp|P0C6X6|R1AB_CVHOC Replicase polyprotein 1ab OS=Human coronavirus
OC43 OX=31631 GN=rep PE=1 SV=1
Length=7095
Score = 587 bits (1513), Expect = 0.0, Method: Composition-based stats.
Identities = 205/491 (42%), Positives = 298/491 (61%), Gaps = 9/491 (2%)
Query 14 TLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFDT 73
++ L + + P + + K YK +D GV RD++ D CFANK FD
Sbjct 2761 FVLSLVCFIGLWCLMPTYTVHKSDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQ 2820
Query 74 WFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
W+ G Y+N ACP++ AVI ++ G V +P +LR LHF+ SA G
Sbjct 2821 WYESTFGLSYYSNSMACPIVVAVIDQDFGSTVFNVPTKVLRY-GYHVLHFITHALSADGV 2879
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
CYTP I Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY
Sbjct 2880 QCYTPHSQISYSNFYASGCVLSSACTMFTMADGSPQPYCYTDGLMQNASLYSSLVPHVRY 2939
Query 192 VLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
L + I+FP EG VRVV T YCR G CE ++ G+C + +G WVLNNDYYRS
Sbjct 2940 NLANAKGFIRFPEVLREGLVRVVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRS 2999
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
LPG FCG D +L+ +F L QP+ L ++AS +AG I+A++V + YY ++ +RAFG+
Sbjct 3000 LPGTFCGRDVFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGD 3059
Query 311 YSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
Y+ VV N +++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+
Sbjct 3060 YTSVVFVNVIVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYG 3119
Query 371 PLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKL 430
++P W + YI + + H +W FS R++ + S TFEE AL TF++ K+ Y KL
Sbjct 3120 TIMPLWFCLLYIAVVVSNHAFWVFS--YCRKLGTSVRSDGTFEEMALTTFMITKDSYCKL 3177
Query 431 RSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDF-SNSGSDVLYQP 489
++ L +NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F +N+GSDVLYQP
Sbjct 3178 KNS--LSDVAFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQP 3235
Query 490 PQTSITSAVLQ 500
P S++++ LQ
Sbjct 3236 PTASVSTSFLQ 3246
>sp|P0C6T9|R1A_CVBLU Replicase polyprotein 1a OS=Bovine coronavirus
(strain 98TXSF-110-LUN) OX=233264 GN=1a PE=3 SV=1
Length=4383
Score = 587 bits (1512), Expect = 0.0, Method: Composition-based stats.
Identities = 203/491 (41%), Positives = 299/491 (61%), Gaps = 9/491 (2%)
Query 14 TLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFDT 73
L+ L + + P + + K YK +D GV RD++ D CFANK FD
Sbjct 2761 FLLSLVCFIGLWCLMPTYTVHKSDFQLPVYTSYKVLDNGVIRDVSVEDVCFANKFEQFDQ 2820
Query 74 WFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
W+ G Y+N ACP++ AV+ +++G V +P +LR LHF+ SA G
Sbjct 2821 WYESTFGLSYYSNSMACPIVVAVVDQDLGSTVFNVPTKVLRY-GYHVLHFITHALSADGV 2879
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
CYTP I Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY
Sbjct 2880 QCYTPHSQISYSNFYASGCVLSSACTMFAMADGSPQPYCYTEGLMQNASLYSSLVPHVRY 2939
Query 192 VLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
L + I+FP EG VR+V T YCR G CE ++ G+C + +G WVLNNDYYRS
Sbjct 2940 NLANAKGFIRFPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRS 2999
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
LPG FCG D +L+ +F L QP+ L ++AS +AG I+A++V + YY ++ +RAFG+
Sbjct 3000 LPGTFCGRDVFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGD 3059
Query 311 YSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
Y+ +V N +++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+
Sbjct 3060 YTSIVFVNVIVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYG 3119
Query 371 PLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKL 430
++P W + YI + + H +W F+ RR+ + S TFEE AL TF++ K+ Y KL
Sbjct 3120 TIMPLWFCLLYISVVVSNHAFWVFA--YCRRLGTSVRSDGTFEEMALTTFMITKDSYCKL 3177
Query 431 RSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDF-SNSGSDVLYQP 489
++ L +NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F +N+GSDVLYQP
Sbjct 3178 KNS--LSDVAFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQP 3235
Query 490 PQTSITSAVLQ 500
P S++++ LQ
Sbjct 3236 PTASVSTSFLQ 3246
>sp|P0C6T8|R1A_CVBEN Replicase polyprotein 1a OS=Bovine coronavirus
(strain 98TXSF-110-ENT) OX=233262 GN=1a PE=3 SV=1
Length=4383
Score = 587 bits (1512), Expect = 0.0, Method: Composition-based stats.
Identities = 203/491 (41%), Positives = 299/491 (61%), Gaps = 9/491 (2%)
Query 14 TLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFDT 73
L+ L + + P + + K YK +D GV RD++ D CFANK FD
Sbjct 2761 FLLSLVCFIGLWCLMPTYTVHKSDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQ 2820
Query 74 WFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
W+ G Y+N ACP++ AV+ +++G V +P +LR LHF+ SA G
Sbjct 2821 WYESTFGLSYYSNSMACPIVVAVVDQDLGSTVFNVPTKVLRY-GYHVLHFITHALSADGV 2879
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
CYTP I Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY
Sbjct 2880 QCYTPHSQISYSNFYASGCVLSSACTMFAMADGSPQPYCYTEGLMQNASLYSSLVPHVRY 2939
Query 192 VLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
L + I+FP EG VR+V T YCR G CE ++ G+C + +G WVLNNDYYRS
Sbjct 2940 NLANAKGFIRFPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRS 2999
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
LPG FCG D +L+ +F L QP+ L ++AS +AG I+A++V + YY ++ +RAFG+
Sbjct 3000 LPGTFCGRDVFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGD 3059
Query 311 YSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
Y+ +V N +++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+
Sbjct 3060 YTSIVFVNVIVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYG 3119
Query 371 PLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKL 430
++P W + YI + + H +W F+ RR+ + S TFEE AL TF++ K+ Y KL
Sbjct 3120 TIMPLWFCLLYISVVVSNHAFWVFA--YCRRLGTSVRSDGTFEEMALTTFMITKDSYCKL 3177
Query 431 RSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDF-SNSGSDVLYQP 489
++ L +NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F +N+GSDVLYQP
Sbjct 3178 KNS--LSDVAFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQP 3235
Query 490 PQTSITSAVLQ 500
P S++++ LQ
Sbjct 3236 PTASVSTSFLQ 3246
>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 = 586 bits (1510), Expect = 0.0, Method: Composition-based stats.
Identities = 203/491 (41%), Positives = 299/491 (61%), Gaps = 9/491 (2%)
Query 14 TLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFDT 73
L+ L + + P + + K YK +D GV RD++ D CFANK FD
Sbjct 2761 FLLSLVCFIGLWCLMPTYTVHKSDFQLPVYTSYKVLDNGVIRDVSVEDVCFANKFEQFDQ 2820
Query 74 WFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
W+ G Y+N ACP++ AV+ +++G V +P +LR LHF+ SA G
Sbjct 2821 WYESTFGLSYYSNSMACPIVVAVVDQDLGSTVFNVPTKVLRY-GYHVLHFITHALSADGV 2879
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
CYTP I Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY
Sbjct 2880 QCYTPHSQISYSNFYASGCVLSSACTMFAMADGSPQPYCYTEGLMQNASLYSSLVPHVRY 2939
Query 192 VLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
L + I+FP EG VR+V T YCR G CE ++ G+C + +G WVLNNDYYRS
Sbjct 2940 NLANAKGFIRFPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRS 2999
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
LPG FCG D +L+ +F L QP+ L ++AS +AG I+A++V + YY ++ +RAFG+
Sbjct 3000 LPGTFCGRDVFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGD 3059
Query 311 YSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
Y+ +V N +++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+
Sbjct 3060 YTSIVFVNVIVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYG 3119
Query 371 PLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKL 430
++P W + YI + + H +W F+ RR+ + S TFEE AL TF++ K+ Y KL
Sbjct 3120 TIMPLWFCLLYISVVVSNHAFWVFA--YCRRLGTSVRSDGTFEEMALTTFMITKDSYCKL 3177
Query 431 RSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDF-SNSGSDVLYQP 489
++ L +NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F +N+GSDVLYQP
Sbjct 3178 KNS--LSDVAFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQP 3235
Query 490 PQTSITSAVLQ 500
P S++++ LQ
Sbjct 3236 PTASVSTSFLQ 3246
>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 = 586 bits (1510), Expect = 0.0, Method: Composition-based stats.
Identities = 203/491 (41%), Positives = 299/491 (61%), Gaps = 9/491 (2%)
Query 14 TLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFDT 73
L+ L + + P + + K YK +D GV RD++ D CFANK FD
Sbjct 2761 FLLSLVCFIGLWCLMPTYTVHKSDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQ 2820
Query 74 WFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
W+ G Y+N ACP++ AV+ +++G V +P +LR LHF+ SA G
Sbjct 2821 WYESTFGLSYYSNSMACPIVVAVVDQDLGSTVFNVPTKVLRY-GYHVLHFITHALSADGV 2879
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
CYTP I Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY
Sbjct 2880 QCYTPHSQISYSNFYASGCVLSSACTMFAMADGSPQPYCYTEGLMQNASLYSSLVPHVRY 2939
Query 192 VLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
L + I+FP EG VR+V T YCR G CE ++ G+C + +G WVLNNDYYRS
Sbjct 2940 NLANAKGFIRFPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRS 2999
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
LPG FCG D +L+ +F L QP+ L ++AS +AG I+A++V + YY ++ +RAFG+
Sbjct 3000 LPGTFCGRDVFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGD 3059
Query 311 YSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
Y+ +V N +++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+
Sbjct 3060 YTSIVFVNVIVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYG 3119
Query 371 PLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKL 430
++P W + YI + + H +W F+ RR+ + S TFEE AL TF++ K+ Y KL
Sbjct 3120 TIMPLWFCLLYISVVVSNHAFWVFA--YCRRLGTSVRSDGTFEEMALTTFMITKDSYCKL 3177
Query 431 RSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDF-SNSGSDVLYQP 489
++ L +NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F +N+GSDVLYQP
Sbjct 3178 KNS--LSDVAFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQP 3235
Query 490 PQTSITSAVLQ 500
P S++++ LQ
Sbjct 3236 PTASVSTSFLQ 3246
>sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus
133/2005 OX=389230 GN=rep PE=3 SV=1
Length=7126
Score = 585 bits (1508), Expect = 0.0, Method: Composition-based stats.
Identities = 188/498 (38%), Positives = 286/498 (57%), Gaps = 8/498 (2%)
Query 7 LKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFAN 66
+K +TL VA + + P + ++ I+ YK I+ G+ RDIA D CFAN
Sbjct 2805 VKGYCILTLFVFTVAVLSWFCLPSYSIATVNFNDDRILTYKVIENGIVRDIAPNDACFAN 2864
Query 67 KHADFDTWFSQ-RGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRV 125
K+ F WF++ GG Y N CP+ AVI G V +P T+ + F+ RV
Sbjct 2865 KYGHFSKWFNENHGGVYRNSVDCPITIAVIAGVAGARVANVPATLAWV-GRQIVLFVSRV 2923
Query 126 FSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESL 185
F+ N+C+TP+ I Y F+ S CVL++ECT+F+DA G P+CYD VL G+ +Y +
Sbjct 2924 FANT-NVCFTPTNEIPYDTFSDSGCVLSSECTLFRDAEGNLNPFCYDPTVLPGASSYADM 2982
Query 186 RPDTRYVLMDGSI-IQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLN 244
+P RY + D + I+FP E ++R+ T ++YCR G+CE S AGVC+ST+G W L
Sbjct 2983 KPHVRYDMYDSDMYIKFPEVIFESTLRITKTLATQYCRFGSCEESAAGVCISTNGSWALY 3042
Query 245 NDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRF 304
N Y + PG++CG D +++ + L QP+ +S S+ G ++ + +T YY +
Sbjct 3043 NQNYSTRPGIYCGDDYFDIVRRLAVSLFQPVTYFQLSTSLAMGLVLCVFLTAAFYYINKV 3102
Query 305 RRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQ 364
+RA +Y+ + L++ LC L Y+ +Y Y TFYLT + +F+ HI
Sbjct 3103 KRALADYTQCAVVAVVAALLNSLCLCFIVANPLLVAPYTAMYYYATFYLTGEPAFIMHIS 3162
Query 365 WMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRR--VVFNGVSFSTFEEAALCTFLL 422
W VMF +VP W+ +Y + + +H +W + + K+ V +G +F++AA F++
Sbjct 3163 WYVMFGTVVPIWMLASYTVGVMLRHLFWVLAYFSKKHVDVFTDGKLNCSFQDAASNIFVI 3222
Query 423 NKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSG 482
K+ Y+ LR+ + + RYL+L+NKYKY+SGAMDT SYREA HL KAL +S +G
Sbjct 3223 GKDTYVALRNAI--TQDSFVRYLSLFNKYKYYSGAMDTASYREACAAHLCKALQTYSETG 3280
Query 483 SDVLYQPPQTSITSAVLQ 500
SD+LYQPP S+TS+VLQ
Sbjct 3281 SDILYQPPNCSVTSSVLQ 3298
>sp|P0C6T4|R1A_BCHK4 Replicase polyprotein 1a OS=Bat coronavirus
HKU4 OX=694007 GN=1a PE=1 SV=1
Length=4434
Score = 584 bits (1506), Expect = 0.0, Method: Composition-based stats.
Identities = 188/498 (38%), Positives = 285/498 (57%), Gaps = 8/498 (2%)
Query 7 LKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFAN 66
+K +TL VA + + P + ++ I+ YK I+ G+ RDIA D CFAN
Sbjct 2798 VKGYCILTLFVFTVAVLSWFCLPSYSIATVNFNDDRILTYKVIENGIVRDIAPNDVCFAN 2857
Query 67 KHADFDTWFSQ-RGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRV 125
K+ F WF++ GG Y N CP+ AVI G V +P + L F+ RV
Sbjct 2858 KYGHFSKWFNENHGGVYRNSMDCPITIAVIAGVAGARVANVPANLAWVGKQIVL-FVSRV 2916
Query 126 FSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESL 185
F+ N+C+TP I Y F+ S CVL++ECT+F+DA G P+CYD VL G+ +Y +
Sbjct 2917 FANT-NVCFTPINEIPYDTFSDSGCVLSSECTLFRDAEGNLNPFCYDPTVLPGASSYADM 2975
Query 186 RPDTRYVLMDGSI-IQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLN 244
+P RY + D + I+FP +E ++R+ T ++YCR G+CE S AGVC+ST+G W L
Sbjct 2976 KPHVRYDMYDSDMYIKFPEVIVESTLRITKTLATQYCRFGSCEESAAGVCISTNGSWALY 3035
Query 245 NDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRF 304
N Y + PG++CG D +++ + L QP+ +S S+ G ++ + +T YY +
Sbjct 3036 NQNYSTRPGIYCGDDYFDIVRRLAISLFQPVTYFQLSTSLAMGLVLCVFLTAAFYYINKV 3095
Query 305 RRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQ 364
+RA +Y+ + L++ LC L Y+ +Y Y TFYLT + +F+ HI
Sbjct 3096 KRALADYTQCAVVAVVAALLNSLCLCFIVANPLLVAPYTAMYYYATFYLTGEPAFIMHIS 3155
Query 365 WMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRR--VVFNGVSFSTFEEAALCTFLL 422
W VMF +VP W+ +Y + + +H +W + + K+ V +G +F++AA F++
Sbjct 3156 WYVMFGAVVPIWMLASYTVGVMLRHLFWVLAYFSKKHVDVFTDGKLNCSFQDAASNIFVI 3215
Query 423 NKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSG 482
K+ Y+ LR+ + + RYL+L+NKYKY+SGAMDT SYREA HL KAL +S +G
Sbjct 3216 GKDTYVALRNAI--TQDSFVRYLSLFNKYKYYSGAMDTASYREACAAHLCKALQTYSETG 3273
Query 483 SDVLYQPPQTSITSAVLQ 500
SD+LYQPP S+TS+VLQ
Sbjct 3274 SDILYQPPNCSVTSSVLQ 3291
>sp|P0C6U0|R1A_CVBM Replicase polyprotein 1a OS=Bovine coronavirus
(strain Mebus) OX=11132 GN=1a PE=3 SV=1
Length=4383
Score = 584 bits (1505), Expect = 0.0, Method: Composition-based stats.
Identities = 202/491 (41%), Positives = 298/491 (61%), Gaps = 9/491 (2%)
Query 14 TLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFDT 73
++ L + + P + + K YK +D GV RD++ D CFANK FD
Sbjct 2761 FVLSLVCFIGLWCLMPTYTVHKSDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQ 2820
Query 74 WFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
W+ G Y+N ACP++ AV+ ++ G V +P +LR LHF+ SA G
Sbjct 2821 WYESTFGLSYYSNSMACPIVVAVVDQDFGSTVFNVPTKVLRY-GYHVLHFITHALSADGV 2879
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
CYTP I Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY
Sbjct 2880 QCYTPHSQISYSNFYASGCVLSSACTMFAMADGSPQPYCYTDGLMQNASLYSSLVPHVRY 2939
Query 192 VLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
L + I+FP EG VR+V T YCR G CE ++ G+C + +G WVLNNDYYRS
Sbjct 2940 NLANAKGFIRFPEVLREGLVRIVRTRSMPYCRVGLCEEADEGICFNFNGSWVLNNDYYRS 2999
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
LPG FCG D +L+ +F L QP+ L ++AS +AG I+A++V + YY ++ +RAFG+
Sbjct 3000 LPGTFCGRDVFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGD 3059
Query 311 YSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
Y+ +V N +++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+
Sbjct 3060 YTSIVFVNVIVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYG 3119
Query 371 PLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKL 430
++P W + YI + + H +W FS R++ + S TFEE AL TF++ K+ Y KL
Sbjct 3120 TIMPLWFCLLYISVVVSNHAFWVFS--YCRQLGTSVRSDGTFEEMALTTFMITKDSYCKL 3177
Query 431 RSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDF-SNSGSDVLYQP 489
++ L +NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F +N+GSDVLYQP
Sbjct 3178 KNS--LSDVAFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQP 3235
Query 490 PQTSITSAVLQ 500
P S++++ LQ
Sbjct 3236 PTASVSTSFLQ 3246
>sp|P0C6W9|R1AB_CVBM Replicase polyprotein 1ab OS=Bovine coronavirus
(strain Mebus) OX=11132 GN=rep PE=3 SV=1
Length=7094
Score = 583 bits (1504), Expect = 0.0, Method: Composition-based stats.
Identities = 202/491 (41%), Positives = 298/491 (61%), Gaps = 9/491 (2%)
Query 14 TLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFDT 73
++ L + + P + + K YK +D GV RD++ D CFANK FD
Sbjct 2761 FVLSLVCFIGLWCLMPTYTVHKSDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQ 2820
Query 74 WFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
W+ G Y+N ACP++ AV+ ++ G V +P +LR LHF+ SA G
Sbjct 2821 WYESTFGLSYYSNSMACPIVVAVVDQDFGSTVFNVPTKVLRY-GYHVLHFITHALSADGV 2879
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
CYTP I Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY
Sbjct 2880 QCYTPHSQISYSNFYASGCVLSSACTMFAMADGSPQPYCYTDGLMQNASLYSSLVPHVRY 2939
Query 192 VLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
L + I+FP EG VR+V T YCR G CE ++ G+C + +G WVLNNDYYRS
Sbjct 2940 NLANAKGFIRFPEVLREGLVRIVRTRSMPYCRVGLCEEADEGICFNFNGSWVLNNDYYRS 2999
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
LPG FCG D +L+ +F L QP+ L ++AS +AG I+A++V + YY ++ +RAFG+
Sbjct 3000 LPGTFCGRDVFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGD 3059
Query 311 YSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
Y+ +V N +++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+
Sbjct 3060 YTSIVFVNVIVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYG 3119
Query 371 PLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKL 430
++P W + YI + + H +W FS R++ + S TFEE AL TF++ K+ Y KL
Sbjct 3120 TIMPLWFCLLYISVVVSNHAFWVFS--YCRQLGTSVRSDGTFEEMALTTFMITKDSYCKL 3177
Query 431 RSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDF-SNSGSDVLYQP 489
++ L +NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F +N+GSDVLYQP
Sbjct 3178 KNS--LSDVAFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQP 3235
Query 490 PQTSITSAVLQ 500
P S++++ LQ
Sbjct 3236 PTASVSTSFLQ 3246
>sp|P0C6U1|R1A_CVBQ Replicase polyprotein 1a OS=Bovine coronavirus
(strain Quebec) OX=11133 GN=1a PE=3 SV=1
Length=4383
Score = 583 bits (1503), Expect = 0.0, Method: Composition-based stats.
Identities = 201/491 (41%), Positives = 296/491 (60%), Gaps = 9/491 (2%)
Query 14 TLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFDT 73
++ L + + P + + K YK +D GV RD++ D CFANK FD
Sbjct 2761 FVLSLVCFIGLWCLMPTYTVHKSDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQ 2820
Query 74 WFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
W+ G Y+N ACP++ AV+ ++ G V +P +LR LHF+ SA G
Sbjct 2821 WYESTFGLSYYSNSMACPIVVAVVDQDFGSTVFNVPTKVLRY-GYHVLHFITHALSADGV 2879
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
CYTP I Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY
Sbjct 2880 QCYTPHSQISYSNFYASGCVLSSACTMFAMADGSPQPYCYTDGLMQNASLYSSLVPHVRY 2939
Query 192 VLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
L + I+ P EG VR+V T YCR G CE ++ G+C + +G WVLNNDYYRS
Sbjct 2940 NLANAKGFIRLPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRS 2999
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
LPG FCG D +L+ +F L QP+ L ++AS +AG I+A++V YY ++ +RAFG+
Sbjct 3000 LPGTFCGRDVFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLGFYYLIKLKRAFGD 3059
Query 311 YSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
Y+ +V N +++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+
Sbjct 3060 YTSIVFVNVIVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYG 3119
Query 371 PLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKL 430
++P W + YI + + H +W FS R++ + S TFEE AL TF++ K+ Y KL
Sbjct 3120 TIMPLWFCLLYISVVVSNHAFWVFS--YCRQLGTSVRSDGTFEEMALTTFMITKDSYCKL 3177
Query 431 RSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDF-SNSGSDVLYQP 489
++ L +NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F +N+GSDVLYQP
Sbjct 3178 KNS--LSDVAFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQP 3235
Query 490 PQTSITSAVLQ 500
P S++++ LQ
Sbjct 3236 PTASVSTSFLQ 3246
>sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavirus
HKU1 (isolate N5) OX=443241 GN=rep PE=3 SV=1
Length=7132
Score = 583 bits (1503), Expect = 0.0, Method: Composition-based stats.
Identities = 205/496 (41%), Positives = 296/496 (60%), Gaps = 9/496 (2%)
Query 9 QLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKH 68
L + + L + + + P + + K +K ID GV RDI+ D CFANK
Sbjct 2794 LLYILFFISLICFILLWALLPTYSVYKSDIHLPAYASFKVIDNGVVRDISVNDLCFANKF 2853
Query 69 ADFDTWFSQRGGS--YTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVF 126
FD W+ GS Y N CP++ AV+ ++G + +P +LR LHFL F
Sbjct 2854 FQFDQWYESTFGSVYYHNSMDCPIVVAVMDEDIGSTMFNVPTKVLRY-GFHVLHFLTYAF 2912
Query 127 SAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLR 186
++ CYTP I Y DF S CVL++ CT+FK G P PYCY V++ + Y SL
Sbjct 2913 ASDSVQCYTPHIQISYNDFYASGCVLSSLCTMFKRGDGTPHPYCYTDGVMKNASLYTSLV 2972
Query 187 PDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNN 245
P TRY L + + I+FP+ EG VR+V T YCR G CE +E G+C + + WVLNN
Sbjct 2973 PHTRYSLANSNGFIRFPDVISEGIVRIVRTRSMTYCRVGACEYAEEGICFNFNSSWVLNN 3032
Query 246 DYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFR 305
DYYRS+PG FCG D +L F+ LI+PI ++AS + G I+AIVV + YY ++ +
Sbjct 3033 DYYRSMPGTFCGRDFFDLFYQFFSSLIRPIDFFSLTASSIFGAILAIVVVLVFYYLIKLK 3092
Query 306 RAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQW 365
RAFG+Y+ VV N +++ ++F +L + VY VY+ Y Y+T Y +++S + H+QW
Sbjct 3093 RAFGDYTSVVVINVIVWCINFLMLFVFQVYPICACVYACFYFYVTLYFPSEISVIMHLQW 3152
Query 366 MVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKE 425
+VM+ ++PFW + Y+ + H W FS R++ N S STFEE +L TF++ K+
Sbjct 3153 IVMYGAIMPFWFCVTYVAMVIANHVLWLFS--YCRKIGVNVCSDSTFEETSLTTFMITKD 3210
Query 426 MYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSD 484
Y +L++ V YNRYL+LYNKY+Y+SG MDT +YREAAC LAKA+ F+ N+G+D
Sbjct 3211 SYCRLKNSV--SDVAYNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMETFNHNNGND 3268
Query 485 VLYQPPQTSITSAVLQ 500
VLYQPP S++++ LQ
Sbjct 3269 VLYQPPTASVSTSFLQ 3284
>sp|P0C6X0|R1AB_CVBQ Replicase polyprotein 1ab OS=Bovine coronavirus
(strain Quebec) OX=11133 GN=rep PE=3 SV=1
Length=7059
Score = 582 bits (1501), Expect = 0.0, Method: Composition-based stats.
Identities = 201/491 (41%), Positives = 296/491 (60%), Gaps = 9/491 (2%)
Query 14 TLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKHADFDT 73
++ L + + P + + K YK +D GV RD++ D CFANK FD
Sbjct 2761 FVLSLVCFIGLWCLMPTYTVHKSDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQ 2820
Query 74 WFSQRGG--SYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFSAVGN 131
W+ G Y+N ACP++ AV+ ++ G V +P +LR LHF+ SA G
Sbjct 2821 WYESTFGLSYYSNSMACPIVVAVVDQDFGSTVFNVPTKVLRY-GYHVLHFITHALSADGV 2879
Query 132 ICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRPDTRY 191
CYTP I Y++F S CVL++ CT+F A G P PYCY +++ + Y SL P RY
Sbjct 2880 QCYTPHSQISYSNFYASGCVLSSACTMFAMADGSPQPYCYTDGLMQNASLYSSLVPHVRY 2939
Query 192 VLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNNDYYRS 250
L + I+ P EG VR+V T YCR G CE ++ G+C + +G WVLNNDYYRS
Sbjct 2940 NLANAKGFIRLPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRS 2999
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
LPG FCG D +L+ +F L QP+ L ++AS +AG I+A++V YY ++ +RAFG+
Sbjct 3000 LPGTFCGRDVFDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLGFYYLIKLKRAFGD 3059
Query 311 YSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
Y+ +V N +++ ++F +L + VY L VY++ Y Y T Y +++S + H+QW+VM+
Sbjct 3060 YTSIVFVNVIVWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYG 3119
Query 371 PLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKEMYLKL 430
++P W + YI + + H +W FS R++ + S TFEE AL TF++ K+ Y KL
Sbjct 3120 TIMPLWFCLLYISVVVSNHAFWVFS--YCRQLGTSVRSDGTFEEMALTTFMITKDSYCKL 3177
Query 431 RSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDF-SNSGSDVLYQP 489
++ L +NRYL+LYNKY+Y+SG MDT +YREAAC LAKA++ F +N+GSDVLYQP
Sbjct 3178 KNS--LSDVAFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQP 3235
Query 490 PQTSITSAVLQ 500
P S++++ LQ
Sbjct 3236 PTASVSTSFLQ 3246
>sp|P0C6U5|R1A_CVHN5 Replicase polyprotein 1a OS=Human coronavirus
HKU1 (isolate N5) OX=443241 GN=1a PE=3 SV=1
Length=4421
Score = 582 bits (1500), Expect = 0.0, Method: Composition-based stats.
Identities = 205/496 (41%), Positives = 296/496 (60%), Gaps = 9/496 (2%)
Query 9 QLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKH 68
L + + L + + + P + + K +K ID GV RDI+ D CFANK
Sbjct 2794 LLYILFFISLICFILLWALLPTYSVYKSDIHLPAYASFKVIDNGVVRDISVNDLCFANKF 2853
Query 69 ADFDTWFSQRGGS--YTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVF 126
FD W+ GS Y N CP++ AV+ ++G + +P +LR LHFL F
Sbjct 2854 FQFDQWYESTFGSVYYHNSMDCPIVVAVMDEDIGSTMFNVPTKVLRY-GFHVLHFLTYAF 2912
Query 127 SAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLR 186
++ CYTP I Y DF S CVL++ CT+FK G P PYCY V++ + Y SL
Sbjct 2913 ASDSVQCYTPHIQISYNDFYASGCVLSSLCTMFKRGDGTPHPYCYTDGVMKNASLYTSLV 2972
Query 187 PDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNN 245
P TRY L + + I+FP+ EG VR+V T YCR G CE +E G+C + + WVLNN
Sbjct 2973 PHTRYSLANSNGFIRFPDVISEGIVRIVRTRSMTYCRVGACEYAEEGICFNFNSSWVLNN 3032
Query 246 DYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFR 305
DYYRS+PG FCG D +L F+ LI+PI ++AS + G I+AIVV + YY ++ +
Sbjct 3033 DYYRSMPGTFCGRDFFDLFYQFFSSLIRPIDFFSLTASSIFGAILAIVVVLVFYYLIKLK 3092
Query 306 RAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQW 365
RAFG+Y+ VV N +++ ++F +L + VY VY+ Y Y+T Y +++S + H+QW
Sbjct 3093 RAFGDYTSVVVINVIVWCINFLMLFVFQVYPICACVYACFYFYVTLYFPSEISVIMHLQW 3152
Query 366 MVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKE 425
+VM+ ++PFW + Y+ + H W FS R++ N S STFEE +L TF++ K+
Sbjct 3153 IVMYGAIMPFWFCVTYVAMVIANHVLWLFS--YCRKIGVNVCSDSTFEETSLTTFMITKD 3210
Query 426 MYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSD 484
Y +L++ V YNRYL+LYNKY+Y+SG MDT +YREAAC LAKA+ F+ N+G+D
Sbjct 3211 SYCRLKNSV--SDVAYNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMETFNHNNGND 3268
Query 485 VLYQPPQTSITSAVLQ 500
VLYQPP S++++ LQ
Sbjct 3269 VLYQPPTASVSTSFLQ 3284
>sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus
HKU4 OX=694007 GN=rep PE=1 SV=1
Length=7119
Score = 582 bits (1500), Expect = 0.0, Method: Composition-based stats.
Identities = 188/498 (38%), Positives = 285/498 (57%), Gaps = 8/498 (2%)
Query 7 LKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFAN 66
+K +TL VA + + P + ++ I+ YK I+ G+ RDIA D CFAN
Sbjct 2798 VKGYCILTLFVFTVAVLSWFCLPSYSIATVNFNDDRILTYKVIENGIVRDIAPNDVCFAN 2857
Query 67 KHADFDTWFSQ-RGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRV 125
K+ F WF++ GG Y N CP+ AVI G V +P + L F+ RV
Sbjct 2858 KYGHFSKWFNENHGGVYRNSMDCPITIAVIAGVAGARVANVPANLAWVGKQIVL-FVSRV 2916
Query 126 FSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESL 185
F+ N+C+TP I Y F+ S CVL++ECT+F+DA G P+CYD VL G+ +Y +
Sbjct 2917 FANT-NVCFTPINEIPYDTFSDSGCVLSSECTLFRDAEGNLNPFCYDPTVLPGASSYADM 2975
Query 186 RPDTRYVLMDGSI-IQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLN 244
+P RY + D + I+FP +E ++R+ T ++YCR G+CE S AGVC+ST+G W L
Sbjct 2976 KPHVRYDMYDSDMYIKFPEVIVESTLRITKTLATQYCRFGSCEESAAGVCISTNGSWALY 3035
Query 245 NDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRF 304
N Y + PG++CG D +++ + L QP+ +S S+ G ++ + +T YY +
Sbjct 3036 NQNYSTRPGIYCGDDYFDIVRRLAISLFQPVTYFQLSTSLAMGLVLCVFLTAAFYYINKV 3095
Query 305 RRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQ 364
+RA +Y+ + L++ LC L Y+ +Y Y TFYLT + +F+ HI
Sbjct 3096 KRALADYTQCAVVAVVAALLNSLCLCFIVANPLLVAPYTAMYYYATFYLTGEPAFIMHIS 3155
Query 365 WMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRR--VVFNGVSFSTFEEAALCTFLL 422
W VMF +VP W+ +Y + + +H +W + + K+ V +G +F++AA F++
Sbjct 3156 WYVMFGAVVPIWMLASYTVGVMLRHLFWVLAYFSKKHVDVFTDGKLNCSFQDAASNIFVI 3215
Query 423 NKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSG 482
K+ Y+ LR+ + + RYL+L+NKYKY+SGAMDT SYREA HL KAL +S +G
Sbjct 3216 GKDTYVALRNAI--TQDSFVRYLSLFNKYKYYSGAMDTASYREACAAHLCKALQTYSETG 3273
Query 483 SDVLYQPPQTSITSAVLQ 500
SD+LYQPP S+TS+VLQ
Sbjct 3274 SDILYQPPNCSVTSSVLQ 3291
>sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavirus
HKU1 (isolate N2) OX=443240 GN=rep PE=3 SV=1
Length=7152
Score = 580 bits (1496), Expect = 0.0, Method: Composition-based stats.
Identities = 204/496 (41%), Positives = 296/496 (60%), Gaps = 9/496 (2%)
Query 9 QLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKH 68
L + + L + + + P + + K +K ID GV RDI+ D CFANK
Sbjct 2814 LLYILFFISLICFILLWALLPTYSVYKSDIHLPAYASFKVIDNGVVRDISVNDLCFANKF 2873
Query 69 ADFDTWFSQRGGS--YTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVF 126
FD W+ GS Y N CP++ AV+ ++G + +P +LR LHFL F
Sbjct 2874 FQFDQWYESTFGSFYYHNSMDCPIVVAVMDEDIGSTMFNVPTKVLR-HGFHVLHFLTYAF 2932
Query 127 SAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLR 186
++ CYTP I Y DF S CVL++ CT+FK G P PYCY V++ + Y SL
Sbjct 2933 ASDSVQCYTPHIQISYNDFYASGCVLSSLCTMFKRGDGTPHPYCYSDGVMKNASLYTSLV 2992
Query 187 PDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNN 245
P TRY L + + I+FP+ EG VR+V T YCR G CE +E G+C + + WVLNN
Sbjct 2993 PHTRYSLANSNGFIRFPDVISEGIVRIVRTRSMTYCRVGACEYAEEGICFNFNSSWVLNN 3052
Query 246 DYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFR 305
DYYRS+PG FCG D +L F+ LI+PI ++AS + G I+AIVV + YY ++ +
Sbjct 3053 DYYRSMPGTFCGRDLFDLFYQFFSSLIRPIDFFSLTASSIFGAILAIVVVLVFYYLIKLK 3112
Query 306 RAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQW 365
RAFG+Y+ VV N +++ ++F +L + VY VY+ Y Y+T Y +++S + H+QW
Sbjct 3113 RAFGDYTSVVVINVIVWCINFLMLFVFQVYPICACVYACFYFYVTLYFPSEISVIMHLQW 3172
Query 366 MVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKE 425
+VM+ ++PFW + Y+ + H W FS R++ N + STFEE +L TF++ K+
Sbjct 3173 IVMYGAIMPFWFCVTYVAMVIANHVLWLFS--YCRKIGVNVCNDSTFEETSLTTFMITKD 3230
Query 426 MYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSD 484
Y +L++ V YNRYL+LYNKY+Y+SG MDT +YREAAC LAKA+ F+ N+G+D
Sbjct 3231 SYCRLKNSV--SDVAYNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMETFNHNNGND 3288
Query 485 VLYQPPQTSITSAVLQ 500
VLYQPP S++++ LQ
Sbjct 3289 VLYQPPTASVSTSFLQ 3304
>sp|P0C6U4|R1A_CVHN2 Replicase polyprotein 1a OS=Human coronavirus
HKU1 (isolate N2) OX=443240 GN=1a PE=3 SV=1
Length=4441
Score = 580 bits (1494), Expect = 0.0, Method: Composition-based stats.
Identities = 204/496 (41%), Positives = 296/496 (60%), Gaps = 9/496 (2%)
Query 9 QLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKH 68
L + + L + + + P + + K +K ID GV RDI+ D CFANK
Sbjct 2814 LLYILFFISLICFILLWALLPTYSVYKSDIHLPAYASFKVIDNGVVRDISVNDLCFANKF 2873
Query 69 ADFDTWFSQRGGS--YTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVF 126
FD W+ GS Y N CP++ AV+ ++G + +P +LR LHFL F
Sbjct 2874 FQFDQWYESTFGSFYYHNSMDCPIVVAVMDEDIGSTMFNVPTKVLR-HGFHVLHFLTYAF 2932
Query 127 SAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLR 186
++ CYTP I Y DF S CVL++ CT+FK G P PYCY V++ + Y SL
Sbjct 2933 ASDSVQCYTPHIQISYNDFYASGCVLSSLCTMFKRGDGTPHPYCYSDGVMKNASLYTSLV 2992
Query 187 PDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNN 245
P TRY L + + I+FP+ EG VR+V T YCR G CE +E G+C + + WVLNN
Sbjct 2993 PHTRYSLANSNGFIRFPDVISEGIVRIVRTRSMTYCRVGACEYAEEGICFNFNSSWVLNN 3052
Query 246 DYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFR 305
DYYRS+PG FCG D +L F+ LI+PI ++AS + G I+AIVV + YY ++ +
Sbjct 3053 DYYRSMPGTFCGRDLFDLFYQFFSSLIRPIDFFSLTASSIFGAILAIVVVLVFYYLIKLK 3112
Query 306 RAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQW 365
RAFG+Y+ VV N +++ ++F +L + VY VY+ Y Y+T Y +++S + H+QW
Sbjct 3113 RAFGDYTSVVVINVIVWCINFLMLFVFQVYPICACVYACFYFYVTLYFPSEISVIMHLQW 3172
Query 366 MVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKE 425
+VM+ ++PFW + Y+ + H W FS R++ N + STFEE +L TF++ K+
Sbjct 3173 IVMYGAIMPFWFCVTYVAMVIANHVLWLFS--YCRKIGVNVCNDSTFEETSLTTFMITKD 3230
Query 426 MYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSD 484
Y +L++ V YNRYL+LYNKY+Y+SG MDT +YREAAC LAKA+ F+ N+G+D
Sbjct 3231 SYCRLKNSV--SDVAYNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMETFNHNNGND 3288
Query 485 VLYQPPQTSITSAVLQ 500
VLYQPP S++++ LQ
Sbjct 3289 VLYQPPTASVSTSFLQ 3304
>sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavirus
HKU1 (isolate N1) OX=443239 GN=rep PE=3 SV=1
Length=7182
Score = 575 bits (1481), Expect = 0.0, Method: Composition-based stats.
Identities = 206/496 (42%), Positives = 296/496 (60%), Gaps = 9/496 (2%)
Query 9 QLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKH 68
L + V L + + + P + + K +K ID GV RDI+ D CFANK
Sbjct 2844 LLYILFFVSLICFILLWALLPTYSVYKSDIHLPAYASFKVIDNGVVRDISVNDLCFANKF 2903
Query 69 ADFDTWFSQRGGS--YTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVF 126
FD W+ GS Y N CP++ AV+ ++G + +P +LR LHFL F
Sbjct 2904 FQFDQWYESTFGSVYYHNSMDCPIVVAVMDEDIGSTMFNVPTKVLR-HGFHVLHFLTYAF 2962
Query 127 SAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLR 186
++ CYTP I Y DF S CVL++ CT+FK G P PYCY V++ + Y SL
Sbjct 2963 ASDSVQCYTPHIQISYNDFYASGCVLSSLCTMFKRGDGTPHPYCYSDGVMKNASLYTSLV 3022
Query 187 PDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNN 245
P TRY L + + I+FP+ EG VR+V T YCR G CE +E G+C + + WVLNN
Sbjct 3023 PHTRYSLANSNGFIRFPDVISEGIVRIVRTRSMTYCRVGACEYAEEGICFNFNSSWVLNN 3082
Query 246 DYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFR 305
DYYRS+PG FCG D +L F+ LI+PI ++AS + G I+AIVV + YY ++ +
Sbjct 3083 DYYRSMPGTFCGRDLFDLFYQFFSSLIRPIDFFSLTASSIFGAILAIVVVLVFYYLIKLK 3142
Query 306 RAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQW 365
RAFG+Y+ VV N +++ ++F +L + VY VY+ Y Y+T Y +++S + H+QW
Sbjct 3143 RAFGDYTSVVVINVVVWCINFLMLFVFQVYPICACVYACFYFYVTLYFPSEISVIMHLQW 3202
Query 366 MVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKE 425
+VM+ ++PFW + Y+ + H W FS R++ N S STFEE +L TF++ K+
Sbjct 3203 IVMYGAIMPFWFCVTYVAMVIANHVLWLFS--YCRKIGVNVCSDSTFEETSLTTFMITKD 3260
Query 426 MYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSD 484
Y +L++ V YNRYL+LYNKY+Y+SG MDT +YREAAC LAKA+ F+ N+G+D
Sbjct 3261 SYCRLKNSV--SDVAYNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMETFNHNNGND 3318
Query 485 VLYQPPQTSITSAVLQ 500
VLYQPP S++++ LQ
Sbjct 3319 VLYQPPTASVSTSFLQ 3334
>sp|P0C6U3|R1A_CVHN1 Replicase polyprotein 1a OS=Human coronavirus
HKU1 (isolate N1) OX=443239 GN=1a PE=1 SV=1
Length=4471
Score = 574 bits (1479), Expect = 0.0, Method: Composition-based stats.
Identities = 206/496 (42%), Positives = 296/496 (60%), Gaps = 9/496 (2%)
Query 9 QLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKH 68
L + V L + + + P + + K +K ID GV RDI+ D CFANK
Sbjct 2844 LLYILFFVSLICFILLWALLPTYSVYKSDIHLPAYASFKVIDNGVVRDISVNDLCFANKF 2903
Query 69 ADFDTWFSQRGGS--YTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVF 126
FD W+ GS Y N CP++ AV+ ++G + +P +LR LHFL F
Sbjct 2904 FQFDQWYESTFGSVYYHNSMDCPIVVAVMDEDIGSTMFNVPTKVLR-HGFHVLHFLTYAF 2962
Query 127 SAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLR 186
++ CYTP I Y DF S CVL++ CT+FK G P PYCY V++ + Y SL
Sbjct 2963 ASDSVQCYTPHIQISYNDFYASGCVLSSLCTMFKRGDGTPHPYCYSDGVMKNASLYTSLV 3022
Query 187 PDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNN 245
P TRY L + + I+FP+ EG VR+V T YCR G CE +E G+C + + WVLNN
Sbjct 3023 PHTRYSLANSNGFIRFPDVISEGIVRIVRTRSMTYCRVGACEYAEEGICFNFNSSWVLNN 3082
Query 246 DYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFR 305
DYYRS+PG FCG D +L F+ LI+PI ++AS + G I+AIVV + YY ++ +
Sbjct 3083 DYYRSMPGTFCGRDLFDLFYQFFSSLIRPIDFFSLTASSIFGAILAIVVVLVFYYLIKLK 3142
Query 306 RAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQW 365
RAFG+Y+ VV N +++ ++F +L + VY VY+ Y Y+T Y +++S + H+QW
Sbjct 3143 RAFGDYTSVVVINVVVWCINFLMLFVFQVYPICACVYACFYFYVTLYFPSEISVIMHLQW 3202
Query 366 MVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFLLNKE 425
+VM+ ++PFW + Y+ + H W FS R++ N S STFEE +L TF++ K+
Sbjct 3203 IVMYGAIMPFWFCVTYVAMVIANHVLWLFS--YCRKIGVNVCSDSTFEETSLTTFMITKD 3260
Query 426 MYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFS-NSGSD 484
Y +L++ V YNRYL+LYNKY+Y+SG MDT +YREAAC LAKA+ F+ N+G+D
Sbjct 3261 SYCRLKNSV--SDVAYNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMETFNHNNGND 3318
Query 485 VLYQPPQTSITSAVLQ 500
VLYQPP S++++ LQ
Sbjct 3319 VLYQPPTASVSTSFLQ 3334
>sp|P0C6T6|R1A_BCHK9 Replicase polyprotein 1a OS=Bat coronavirus
HKU9 OX=694006 GN=1a PE=3 SV=1
Length=4248
Score = 570 bits (1470), Expect = 0.0, Method: Composition-based stats.
Identities = 213/499 (43%), Positives = 315/499 (63%), Gaps = 10/499 (2%)
Query 3 VNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDT 62
+ +W + LI V ++ + + ++ TP ++M ++ +K ID V RDI S D
Sbjct 2614 IVSWRRVLIHVFMLLVVLNPQWF--TPWYIMRP---IEYNVVDFKVIDNAVIRDITSADQ 2668
Query 63 CFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFL 122
CFANK + F+ W+S R GSY N + CP++ V++ VG +VPGLP LR L +
Sbjct 2669 CFANKFSAFENWYSNRYGSYVNSRGCPMVVGVVSDIVGSLVPGLPARFLRVGT-TLLPLV 2727
Query 123 PRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAY 182
AVG++CYTP I Y F TSACVLAA CT+F ASG+ +PYC D +++ + Y
Sbjct 2728 NYGLGAVGSVCYTPHYAINYDVFDTSACVLAATCTLFSSASGERMPYCADAALIQNASRY 2787
Query 183 ESLRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRW 241
+ L+P Y + S I+FP V +V T EYC+ G C+ SEAG+C+S RW
Sbjct 2788 DMLKPHVMYPFYEHSGYIRFPEVI-SAGVHIVRTMAMEYCKVGRCDVSEAGLCMSLQPRW 2846
Query 242 VLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYF 301
V+NN Y+R GV+CG A +L NM P+ P+GA+DI+ SI+ G ++A+VV+ YY
Sbjct 2847 VVNNAYFRQQSGVYCGTSAFDLFMNMLLPIFTPVGAVDITTSILMGALLAVVVSMSLYYL 2906
Query 302 MRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLA 361
+RFRRAFG+YS V+ N L F+++ VLCL Y LP +Y++++LY T Y +D++ +
Sbjct 2907 LRFRRAFGDYSGVIFTNILAFVLNVIVLCLEGPYPMLPSIYAMVFLYATCYFGSDIACMM 2966
Query 362 HIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFL 421
H+ +++MF +VP W+T+ YI+ + ++H WF S KR V ++F +F++AAL TF+
Sbjct 2967 HVSFLIMFAGVVPLWVTVLYIVVVLSRHILWFASLCTKRTVQVGDLAFHSFQDAALQTFM 3026
Query 422 LNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNS 481
L+KE++L+L+ ++ Y +YLA+YNKYKY+SG MDT +YREAAC HL AL +SN
Sbjct 3027 LDKEVFLRLKREI--SSDAYFKYLAMYNKYKYYSGPMDTAAYREAACSHLVMALEKYSNG 3084
Query 482 GSDVLYQPPQTSITSAVLQ 500
G D +YQPP+ S+ SA LQ
Sbjct 3085 GGDTIYQPPRCSVASAALQ 3103
>sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus
HKU9 OX=694006 GN=rep PE=1 SV=1
Length=6930
Score = 570 bits (1468), Expect = 0.0, Method: Composition-based stats.
Identities = 213/499 (43%), Positives = 315/499 (63%), Gaps = 10/499 (2%)
Query 3 VNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDT 62
+ +W + LI V ++ + + ++ TP ++M ++ +K ID V RDI S D
Sbjct 2614 IVSWRRVLIHVFMLLVVLNPQWF--TPWYIMRP---IEYNVVDFKVIDNAVIRDITSADQ 2668
Query 63 CFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFL 122
CFANK + F+ W+S R GSY N + CP++ V++ VG +VPGLP LR L +
Sbjct 2669 CFANKFSAFENWYSNRYGSYVNSRGCPMVVGVVSDIVGSLVPGLPARFLRVGT-TLLPLV 2727
Query 123 PRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAY 182
AVG++CYTP I Y F TSACVLAA CT+F ASG+ +PYC D +++ + Y
Sbjct 2728 NYGLGAVGSVCYTPHYAINYDVFDTSACVLAATCTLFSSASGERMPYCADAALIQNASRY 2787
Query 183 ESLRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRW 241
+ L+P Y + S I+FP V +V T EYC+ G C+ SEAG+C+S RW
Sbjct 2788 DMLKPHVMYPFYEHSGYIRFPEVI-SAGVHIVRTMAMEYCKVGRCDVSEAGLCMSLQPRW 2846
Query 242 VLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYF 301
V+NN Y+R GV+CG A +L NM P+ P+GA+DI+ SI+ G ++A+VV+ YY
Sbjct 2847 VVNNAYFRQQSGVYCGTSAFDLFMNMLLPIFTPVGAVDITTSILMGALLAVVVSMSLYYL 2906
Query 302 MRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLA 361
+RFRRAFG+YS V+ N L F+++ VLCL Y LP +Y++++LY T Y +D++ +
Sbjct 2907 LRFRRAFGDYSGVIFTNILAFVLNVIVLCLEGPYPMLPSIYAMVFLYATCYFGSDIACMM 2966
Query 362 HIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAALCTFL 421
H+ +++MF +VP W+T+ YI+ + ++H WF S KR V ++F +F++AAL TF+
Sbjct 2967 HVSFLIMFAGVVPLWVTVLYIVVVLSRHILWFASLCTKRTVQVGDLAFHSFQDAALQTFM 3026
Query 422 LNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNS 481
L+KE++L+L+ ++ Y +YLA+YNKYKY+SG MDT +YREAAC HL AL +SN
Sbjct 3027 LDKEVFLRLKREI--SSDAYFKYLAMYNKYKYYSGPMDTAAYREAACSHLVMALEKYSNG 3084
Query 482 GSDVLYQPPQTSITSAVLQ 500
G D +YQPP+ S+ SA LQ
Sbjct 3085 GGDTIYQPPRCSVASAALQ 3103
>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 = 515 bits (1327), Expect = 4e-163, Method: Composition-based stats.
Identities = 128/498 (26%), Positives = 222/498 (45%), Gaps = 21/498 (4%)
Query 7 LKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFAN 66
LKQL ++ + ++ L + V ++ S+E Y I GV + + C N
Sbjct 2420 LKQLKQLFWCLVLFITLYGLCSVYSVATQSYIDSAEGYDYMVIKNGVVQSFDDSINCVHN 2479
Query 67 KHADFDTWFSQRGGS-YTNDKACPLIAA-VITREVGFVVPGLPGTILRTTNGDFLHFLPR 124
+ F WF + G T DK+CP++ V +P +P + G L F
Sbjct 2480 TYKGFAVWFKAKHGFVPTFDKSCPIVLGTVFDLGNMRPIPDVPAYVALV--GRSLVFAIN 2537
Query 125 VFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYES 184
V N+CY + + CV + CT G V YC ++EG+ Y
Sbjct 2538 AAFGVTNVCYDHTGAAVSKNSYFDTCVFNSACTTLTGIGGT-VVYCAKQGLVEGAKLYSE 2596
Query 185 LRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLN 244
L PD Y G++++ P +R V T + YCR G C S+AG C +V +
Sbjct 2597 LLPDYYYEHASGNMVKIPAIIRSFGLRFVKTQATTYCRVGECTESQAGFCFGGDNWFVYD 2656
Query 245 NDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRF 304
++ G CG + N+F + + S +++A ++A + + Y ++F
Sbjct 2657 KEFG---DGYICGSSTLGFFKNVFALFNSNMSVVATSGAMLANIVIACLAIAVCYGVLKF 2713
Query 305 RRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQ 364
++ FG+ + +V + +++ +T +F VY++IY + T L +
Sbjct 2714 KKIFGDCTLLVVMIIVTLVVNNVSYFVTQ-NTFFMIVYAIIYYFTTRKLA--YPGVLDAG 2770
Query 365 WMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAALCTF 420
+++ + + P+++ + YI+ Y + K +V +F G F +FE AA+ TF
Sbjct 2771 FIIAYLNMAPWYVLVLYIMVF----LYDSLPSLFKLKVTTNLFEGDKFVGSFESAAMGTF 2826
Query 421 LLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSN 480
+++ Y L + L + Y +NKYKY++G+M YR A HL KAL D+S
Sbjct 2827 VIDMRSYETLVNST--SLDRIKSYANSFNKYKYYTGSMGEADYRMACYAHLGKALMDYSV 2884
Query 481 SGSDVLYQPPQTSITSAV 498
S +D+LY PP S+ S +
Sbjct 2885 SRNDMLYTPPTVSVNSTL 2902
Score = 34.2 bits (77), Expect = 4.4, Method: Composition-based stats.
Identities = 20/156 (13%), Positives = 50/156 (32%), Gaps = 26/156 (17%)
Query 259 DAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFN 318
L + + +D+ ++A V + V C +F + F ++ +
Sbjct 3290 TYYESLQVLVENVNTTFLPVDMQGVMLALFCVVVFVICTIRFFTCKQSWFSLFATTIFVM 3349
Query 319 TLL----------FLMSFTVLCLTPVYSFLPGV-----------YSVIYLYLTFYLTNDV 357
+ + +LCL + + L + Y V Y + + +
Sbjct 3350 FNIVKLLGMIGEPWTDDHFLLCLVNMLTMLISLTTKDWFVVFASYKVAYYIVVYVM--QP 3407
Query 358 SFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWF 393
+F+ ++ + + ++ Y+ C YW
Sbjct 3408 AFVQDFGFVKCVSII---YMACGYLFCCYYGILYWV 3440
>sp|P0C6V2|R1A_CVPPU Replicase polyprotein 1a OS=Porcine transmissible
gastroenteritis coronavirus (strain Purdue) OX=11151
GN=1a PE=1 SV=1
Length=4017
Score = 510 bits (1313), Expect = 3e-161, Method: Composition-based stats.
Identities = 127/502 (25%), Positives = 225/502 (45%), Gaps = 24/502 (5%)
Query 3 VNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDT 62
V LKQ++ + VF+F+ + + V ++ S+E Y I G+ + T +
Sbjct 2394 VITQLKQIVILVFVFIFICGL---CSVYSVATQSYIESAEGYDYMVIKNGIVQPFDDTIS 2450
Query 63 CFANKHADFDTWFSQRGGS-YTNDKACPLIAA-VITREVGFVVPGLPGTILRTTNGDFLH 120
C N + F WF + G T K+CP++ V E +P +P + G L
Sbjct 2451 CVHNTYKGFGDWFKAKYGFIPTFGKSCPIVVGTVFDLENMRPIPDVPAYVSIV--GRSLV 2508
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
F V N+CY + D CV CT G V YC ++EG+
Sbjct 2509 FAINAAFGVTNMCYDHTGNAVSKDSYFDTCVFNTACTTLTGLGGTIV-YCAKQGLVEGAK 2567
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
Y L PD Y G++++ P +R V T + YCR G C S+AG C
Sbjct 2568 LYSDLMPDYYYEHASGNMVKLPAIIRGLGLRFVKTQATTYCRVGECIDSKAGFCFGGDNW 2627
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
+V +N++ G CG + N+F + + S +++ I+A + + Y
Sbjct 2628 FVYDNEFGN---GYICGNSVLGFFKNVFKLFNSNMSVVATSGAMLVNIIIACLAIAMCYG 2684
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
++F++ FG+ + ++ + +++ +T +F +Y+++Y ++T L +
Sbjct 2685 VLKFKKIFGDCTFLIVMIIVTLVVNNVSYFVTQ-NTFFMIIYAIVYYFITRKLA--YPGI 2741
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAA 416
+++ + + P+++ AYI+ Y + K +V +F G F FE AA
Sbjct 2742 LDAGFIIAYINMAPWYVITAYILVF----LYDSLPSLFKLKVSTNLFEGDKFVGNFESAA 2797
Query 417 LCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALN 476
+ TF+++ Y + + + + Y +NKYKY++G+M YR A HL KAL
Sbjct 2798 MGTFVIDMRSYETIVNST--SIARIKSYANSFNKYKYYTGSMGEADYRMACYAHLGKALM 2855
Query 477 DFSNSGSDVLYQPPQTSITSAV 498
D+S + +D+LY PP S+ S +
Sbjct 2856 DYSVNRTDMLYTPPTVSVNSTL 2877
>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 = 509 bits (1311), Expect = 6e-161, Method: Composition-based stats.
Identities = 127/502 (25%), Positives = 225/502 (45%), Gaps = 24/502 (5%)
Query 3 VNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDT 62
V LKQ++ + VF+F+ + + V ++ S+E Y I G+ + T +
Sbjct 2394 VITQLKQIVILVFVFIFICGL---CSVYSVATQSYIESAEGYDYMVIKNGIVQPFDDTIS 2450
Query 63 CFANKHADFDTWFSQRGGS-YTNDKACPLIAA-VITREVGFVVPGLPGTILRTTNGDFLH 120
C N + F WF + G T K+CP++ V E +P +P + G L
Sbjct 2451 CVHNTYKGFGDWFKAKYGFIPTFGKSCPIVVGTVFDLENMRPIPDVPAYVSIV--GRSLV 2508
Query 121 FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSV 180
F V N+CY + D CV CT G V YC ++EG+
Sbjct 2509 FAINAAFGVTNMCYDHTGNAVSKDSYFDTCVFNTACTTLTGLGGTIV-YCAKQGLVEGAK 2567
Query 181 AYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVSTSGR 240
Y L PD Y G++++ P +R V T + YCR G C S+AG C
Sbjct 2568 LYSDLMPDYYYEHASGNMVKLPAIIRGLGLRFVKTQATTYCRVGECIDSKAGFCFGGDNW 2627
Query 241 WVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYY 300
+V +N++ G CG + N+F + + S +++ I+A + + Y
Sbjct 2628 FVYDNEFGN---GYICGNSVLGFFKNVFKLFNSNMSVVATSGAMLVNIIIACLAIAMCYG 2684
Query 301 FMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFL 360
++F++ FG+ + ++ + +++ +T +F +Y+++Y ++T L +
Sbjct 2685 VLKFKKIFGDCTFLIVMIIVTLVVNNVSYFVTQ-NTFFMIIYAIVYYFITRKLA--YPGI 2741
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAA 416
+++ + + P+++ AYI+ Y + K +V +F G F FE AA
Sbjct 2742 LDAGFIIAYINMAPWYVITAYILVF----LYDSLPSLFKLKVSTNLFEGDKFVGNFESAA 2797
Query 417 LCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALN 476
+ TF+++ Y + + + + Y +NKYKY++G+M YR A HL KAL
Sbjct 2798 MGTFVIDMRSYETIVNST--SIARIKSYANSFNKYKYYTGSMGEADYRMACYAHLGKALM 2855
Query 477 DFSNSGSDVLYQPPQTSITSAV 498
D+S + +D+LY PP S+ S +
Sbjct 2856 DYSVNRTDMLYTPPTVSVNSTL 2877
>sp|P0C6F6|R1A_BC512 Replicase polyprotein 1a OS=Bat coronavirus
512/2005 OX=693999 GN=1a PE=3 SV=1
Length=4128
Score = 497 bits (1280), Expect = 8e-157, Method: Composition-based stats.
Identities = 144/502 (29%), Positives = 222/502 (44%), Gaps = 41/502 (8%)
Query 12 KVTLVFLFVAAIFYLITPVHVMSKHTDFSSEI-----IGYKAIDGGVTRDIASTDTCFAN 66
T ++ F + LI + V + DFS+++ +K I+ GV + C N
Sbjct 2536 LFTRLYSFFWHLCVLIVVLFVATSLLDFSAQVTSDTQYDFKYIENGVLKVFEKPLDCVHN 2595
Query 67 KHADFDTWFSQRGGS-YTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRV 125
+F+ W + + GS TN + CP++ +PG+P + G L F
Sbjct 2596 AFVNFNEWHNAKFGSIPTNSRRCPIVVGTSDEV--RYIPGVPAGVFLY--GKSLIFAMST 2651
Query 126 FSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESL 185
+C+ L + +C+ + CT G+ V YCY V++ + Y SL
Sbjct 2652 IFGTSGLCFDDRGLTD-----PDSCIFNSACTTLSGIGGRNV-YCYREGVVDNAKLYSSL 2705
Query 186 RPDTRYVLMDGSIIQFPNTYLEG-SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLN 244
P + Y LMDG+ I P G +R + T YCR G C S+AGVCV +V
Sbjct 2706 LPHSYYRLMDGNHIVLPEIITRGFGIRTIKTQAMTYCRTGECIDSQAGVCVGLDRFFV-- 2763
Query 245 NDYYRSLPG--VFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFM 302
Y PG CG +LL N+ I +S I+ +VA + F
Sbjct 2764 ---YSKTPGSDYVCGTGFFSLLFNVIGMFSNSIPVTVMSGQILLNCVVAFTAVMACFAFT 2820
Query 303 RFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTND--VSFL 360
+F+R FG+ S V L +++ +T + + Y L F T S++
Sbjct 2821 KFKRLFGDMSFGVLSVGLCTVVNNLSYVVTQ-----NSIGMLAYATLYFLCTKGVRYSWV 2875
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAA 416
H+ + + + L P+W+ +AY+IC F N K +V +F G F +FE AA
Sbjct 2876 WHVGFAISYCFLAPWWVVLAYLIC----ALLEFLPNLFKLKVSTQLFEGDKFVGSFESAA 2931
Query 417 LCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALN 476
TF+L+ Y KL + + + +Y A YN+YKY+SG+ YR A HLAKA++
Sbjct 2932 SGTFVLDMHSYQKLANSI--STEKLKQYCASYNRYKYYSGSASEADYRLACFAHLAKAMS 2989
Query 477 DFSNSGSDVLYQPPQTSITSAV 498
DF+N D LY PP S S +
Sbjct 2990 DFANDHMDKLYTPPTVSYNSTL 3011
>sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus
512/2005 OX=693999 GN=rep PE=3 SV=1
Length=6793
Score = 496 bits (1276), Expect = 3e-156, Method: Composition-based stats.
Identities = 144/502 (29%), Positives = 222/502 (44%), Gaps = 41/502 (8%)
Query 12 KVTLVFLFVAAIFYLITPVHVMSKHTDFSSEI-----IGYKAIDGGVTRDIASTDTCFAN 66
T ++ F + LI + V + DFS+++ +K I+ GV + C N
Sbjct 2536 LFTRLYSFFWHLCVLIVVLFVATSLLDFSAQVTSDTQYDFKYIENGVLKVFEKPLDCVHN 2595
Query 67 KHADFDTWFSQRGGS-YTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRV 125
+F+ W + + GS TN + CP++ +PG+P + G L F
Sbjct 2596 AFVNFNEWHNAKFGSIPTNSRRCPIVVGTSDEV--RYIPGVPAGVFLY--GKSLIFAMST 2651
Query 126 FSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESL 185
+C+ L + +C+ + CT G+ V YCY V++ + Y SL
Sbjct 2652 IFGTSGLCFDDRGLTD-----PDSCIFNSACTTLSGIGGRNV-YCYREGVVDNAKLYSSL 2705
Query 186 RPDTRYVLMDGSIIQFPNTYLEG-SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLN 244
P + Y LMDG+ I P G +R + T YCR G C S+AGVCV +V
Sbjct 2706 LPHSYYRLMDGNHIVLPEIITRGFGIRTIKTQAMTYCRTGECIDSQAGVCVGLDRFFV-- 2763
Query 245 NDYYRSLPG--VFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFM 302
Y PG CG +LL N+ I +S I+ +VA + F
Sbjct 2764 ---YSKTPGSDYVCGTGFFSLLFNVIGMFSNSIPVTVMSGQILLNCVVAFTAVMACFAFT 2820
Query 303 RFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTND--VSFL 360
+F+R FG+ S V L +++ +T + + Y L F T S++
Sbjct 2821 KFKRLFGDMSFGVLSVGLCTVVNNLSYVVTQ-----NSIGMLAYATLYFLCTKGVRYSWV 2875
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAA 416
H+ + + + L P+W+ +AY+IC F N K +V +F G F +FE AA
Sbjct 2876 WHVGFAISYCFLAPWWVVLAYLIC----ALLEFLPNLFKLKVSTQLFEGDKFVGSFESAA 2931
Query 417 LCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALN 476
TF+L+ Y KL + + + +Y A YN+YKY+SG+ YR A HLAKA++
Sbjct 2932 SGTFVLDMHSYQKLANSI--STEKLKQYCASYNRYKYYSGSASEADYRLACFAHLAKAMS 2989
Query 477 DFSNSGSDVLYQPPQTSITSAV 498
DF+N D LY PP S S +
Sbjct 2990 DFANDHMDKLYTPPTVSYNSTL 3011
>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 = 489 bits (1259), Expect = 5e-154, Method: Composition-based stats.
Identities = 130/502 (26%), Positives = 223/502 (44%), Gaps = 34/502 (7%)
Query 5 NWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCF 64
++ K + LF+ A F+ ++ + ++ + S +K I+ G + + +C
Sbjct 2521 SFSKVKKFFWFLCLFIVAAFFALSFLDFSTQVSSDSD--YDFKYIESGQLKTFDNPLSCV 2578
Query 65 ANKHADFDTWFSQRGGS-YTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLP 123
N +FD W + G N+ +CP++ V + VPG+P + G L F
Sbjct 2579 HNVFINFDQWHDAKFGFTPVNNPSCPIVVGV--SDEARTVPGIPAGVYLA--GKTLVFAI 2634
Query 124 RVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYE 183
+C+ S + + AC+ + CT G V YCY ++EG+ Y
Sbjct 2635 NTIFGTSGLCFDASGVAD-----KGACIFNSACTTLSGLGGTAV-YCYKNGLVEGAKLYS 2688
Query 184 SLRPDTRYVLMDGSIIQFPNTYLEG-SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWV 242
L P + Y ++DG+ + P G +R + T YCR G C +S GVC +V
Sbjct 2689 ELAPHSYYKMVDGNAVSLPEIISRGFGIRTIRTKAMTYCRVGQCVQSAEGVCFGADRFFV 2748
Query 243 LNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFM 302
N + S CG LL N+ + + + +S I+ I+A V + + F
Sbjct 2749 YNAE---SGSDFVCGTGLFTLLMNVISVFSKTVPVTVLSGQILFNCIIAFVAVAVCFLFT 2805
Query 303 RFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVS--FL 360
+F+R FG+ S V L++ +T + + Y L F T V ++
Sbjct 2806 KFKRMFGDMSVGVFTVGACTLLNNVSYIVTQ-----NTLGMLGYATLYFLCTKGVRYMWI 2860
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAA 416
H+ +++ + + P+W+ + Y + F N K +V +F G F +FE AA
Sbjct 2861 WHLGFLISYILIAPWWVLMVYAF----SAIFEFMPNLFKLKVSTQLFEGDKFVGSFENAA 2916
Query 417 LCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALN 476
TF+L+ Y +L + + + +Y + YNKYKY+SG+ YR A HLAKA+
Sbjct 2917 AGTFVLDMHAYERLANSI--STEKLRQYASTYNKYKYYSGSASEADYRLACFAHLAKAMM 2974
Query 477 DFSNSGSDVLYQPPQTSITSAV 498
D++++ +D LY PP S S +
Sbjct 2975 DYASNHNDTLYTPPTVSYNSTL 2996
>sp|P0C6V6|R1A_PEDV7 Replicase polyprotein 1a OS=Porcine epidemic
diarrhea virus (strain CV777) OX=229032 GN=1a PE=1 SV=1
Length=4117
Score = 488 bits (1257), Expect = 1e-153, Method: Composition-based stats.
Identities = 130/502 (26%), Positives = 223/502 (44%), Gaps = 34/502 (7%)
Query 5 NWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCF 64
++ K + LF+ A F+ ++ + ++ + S +K I+ G + + +C
Sbjct 2521 SFSKVKKFFWFLCLFIVAAFFALSFLDFSTQVSSDSD--YDFKYIESGQLKTFDNPLSCV 2578
Query 65 ANKHADFDTWFSQRGGS-YTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLP 123
N +FD W + G N+ +CP++ V + VPG+P + G L F
Sbjct 2579 HNVFINFDQWHDAKFGFTPVNNPSCPIVVGV--SDEARTVPGIPAGVYLA--GKTLVFAI 2634
Query 124 RVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYE 183
+C+ S + + AC+ + CT G V YCY ++EG+ Y
Sbjct 2635 NTIFGTSGLCFDASGVAD-----KGACIFNSACTTLSGLGGTAV-YCYKNGLVEGAKLYS 2688
Query 184 SLRPDTRYVLMDGSIIQFPNTYLEG-SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWV 242
L P + Y ++DG+ + P G +R + T YCR G C +S GVC +V
Sbjct 2689 ELAPHSYYKMVDGNAVSLPEIISRGFGIRTIRTKAMTYCRVGQCVQSAEGVCFGADRFFV 2748
Query 243 LNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFM 302
N + S CG LL N+ + + + +S I+ I+A V + + F
Sbjct 2749 YNAE---SGSDFVCGTGLFTLLMNVISVFSKTVPVTVLSGQILFNCIIAFVAVAVCFLFT 2805
Query 303 RFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVS--FL 360
+F+R FG+ S V L++ +T + + Y L F T V ++
Sbjct 2806 KFKRMFGDMSVGVFTVGACTLLNNVSYIVTQ-----NTLGMLGYATLYFLCTKGVRYMWI 2860
Query 361 AHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAA 416
H+ +++ + + P+W+ + Y + F N K +V +F G F +FE AA
Sbjct 2861 WHLGFLISYILIAPWWVLMVYAF----SAIFEFMPNLFKLKVSTQLFEGDKFVGSFENAA 2916
Query 417 LCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALN 476
TF+L+ Y +L + + + +Y + YNKYKY+SG+ YR A HLAKA+
Sbjct 2917 AGTFVLDMHAYERLANSI--STEKLRQYASTYNKYKYYSGSASEADYRLACFAHLAKAMM 2974
Query 477 DFSNSGSDVLYQPPQTSITSAV 498
D++++ +D LY PP S S +
Sbjct 2975 DYASNHNDTLYTPPTVSYNSTL 2996
>sp|P0C6V4|R1A_IBVBC Replicase polyprotein 1a OS=Avian infectious
bronchitis virus (strain Beaudette CK) OX=160235 GN=1a PE=3
SV=1
Length=3951
Score = 482 bits (1241), Expect = 1e-151, Method: Composition-based stats.
Identities = 145/524 (28%), Positives = 242/524 (46%), Gaps = 36/524 (7%)
Query 2 IVNNWLKQLIKVT-LVFLFVAAIFYLITPVHVMSKHTDFSSEIIG---------YKAIDG 51
IV+ K + +F + + M F + +K ID
Sbjct 2267 IVSGTFKCFKSYFKWLLIFYILFTACCSGYYYMEVSKSFVHPMYDVNSTLHVEGFKVIDK 2326
Query 52 GVTRDIASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTIL 111
GV R+I DTCF+NK +FD ++ G Y N + CP++ AVI + G V G+PG +
Sbjct 2327 GVLREIVPEDTCFSNKFVNFDAFW---GRPYDNSRNCPIVTAVIDGD-GTVATGVPGFVS 2382
Query 112 RTTNG-DFLH---------FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKD 161
+G F+H ++P F+ + YT +I F TS + +A C ++
Sbjct 2383 WVMDGVMFIHMTQTERKPWYIPTWFNRE-IVGYTQDSIITEGSFYTSIALFSARC-LYLT 2440
Query 162 ASGKPVPYCYD-TNVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEY 220
AS P YC++ N G++ + S+ P Y +G + P L V DS Y
Sbjct 2441 ASNTPQLYCFNGDNDAPGALPFGSIIPHRVYFQPNGVRLIVPQQILHTPYVVKFVSDS-Y 2499
Query 221 CRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDI 280
CR CE + G CVS + +WVL ND Y S PGVFCG L+ +M + + +I
Sbjct 2500 CRGSVCEYTRPGYCVSLNPQWVLFNDEYTSKPGVFCGSTVRELMFSMVSTFFTGVNP-NI 2558
Query 281 SASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPG 340
+ ++ +VV + ++F+ F Y+ V L+++++ +LC+ S L
Sbjct 2559 YMQLATMFLILVVVVLIFAMVIKFQGVFKAYATTVFITMLVWVINAFILCVHSYNSVLAV 2618
Query 341 VYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAY---IICISTKHFYWFFSNY 397
+ V+Y Y + + + + H + F +VP W+ Y II + T F W +
Sbjct 2619 ILLVLYCYASLVTSRNTVIIMHCWLVFTFGLIVPTWLACCYLGFIIYMYTPLFLWCYGTT 2678
Query 398 LKRRVVFNGVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSG 456
R +++G F ++ AA TF++ ++KL +++ ++ YL+ Y + KY+SG
Sbjct 2679 KNTRKLYDGNEFVGNYDLAAKSTFVIRGSEFVKLTNEI---GDKFEAYLSAYARLKYYSG 2735
Query 457 AMDTTSYREAACCHLAKALNDFSNSGSDVLYQPPQTSITSAVLQ 500
Y +A LA AL+ + NSG +++Y PP+ SI + LQ
Sbjct 2736 TGSEQDYLQACRAWLAYALDQYRNSGVEIVYTPPRYSIGVSRLQ 2779
>sp|P0C6V3|R1A_IBVB Replicase polyprotein 1a OS=Avian infectious
bronchitis virus (strain Beaudette) OX=11122 GN=1a PE=1 SV=1
Length=3951
Score = 482 bits (1241), Expect = 1e-151, Method: Composition-based stats.
Identities = 145/524 (28%), Positives = 242/524 (46%), Gaps = 36/524 (7%)
Query 2 IVNNWLKQLIKVT-LVFLFVAAIFYLITPVHVMSKHTDFSSEIIG---------YKAIDG 51
IV+ K + +F + + M F + +K ID
Sbjct 2267 IVSGTFKCFKSYFKWLLIFYILFTACCSGYYYMEVSKSFVHPMYDVNSTLHVEGFKVIDK 2326
Query 52 GVTRDIASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTIL 111
GV R+I DTCF+NK +FD ++ G Y N + CP++ AVI + G V G+PG +
Sbjct 2327 GVLREIVPEDTCFSNKFVNFDAFW---GRPYDNSRNCPIVTAVIDGD-GTVATGVPGFVS 2382
Query 112 RTTNG-DFLH---------FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKD 161
+G F+H ++P F+ + YT +I F TS + +A C ++
Sbjct 2383 WVMDGVMFIHMTQTERKPWYIPTWFNRE-IVGYTQDSIITEGSFYTSIALFSARC-LYLT 2440
Query 162 ASGKPVPYCYD-TNVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEY 220
AS P YC++ N G++ + S+ P Y +G + P L V DS Y
Sbjct 2441 ASNTPQLYCFNGDNDAPGALPFGSIIPHRVYFQPNGVRLIVPQQILHTPYVVKFVSDS-Y 2499
Query 221 CRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDI 280
CR CE + G CVS + +WVL ND Y S PGVFCG L+ +M + + +I
Sbjct 2500 CRGSVCEYTRPGYCVSLNPQWVLFNDEYTSKPGVFCGSTVRELMFSMVSTFFTGVNP-NI 2558
Query 281 SASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPG 340
+ ++ +VV + ++F+ F Y+ V L+++++ +LC+ S L
Sbjct 2559 YMQLATMFLILVVVVLIFAMVIKFQGVFKAYATTVFITMLVWVINAFILCVHSYNSVLAV 2618
Query 341 VYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAY---IICISTKHFYWFFSNY 397
+ V+Y Y + + + + H + F +VP W+ Y II + T F W +
Sbjct 2619 ILLVLYCYASLVTSRNTVIIMHCWLVFTFGLIVPTWLACCYLGFIIYMYTPLFLWCYGTT 2678
Query 398 LKRRVVFNGVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSG 456
R +++G F ++ AA TF++ ++KL +++ ++ YL+ Y + KY+SG
Sbjct 2679 KNTRKLYDGNEFVGNYDLAAKSTFVIRGSEFVKLTNEI---GDKFEAYLSAYARLKYYSG 2735
Query 457 AMDTTSYREAACCHLAKALNDFSNSGSDVLYQPPQTSITSAVLQ 500
Y +A LA AL+ + NSG +++Y PP+ SI + LQ
Sbjct 2736 TGSEQDYLQACRAWLAYALDQYRNSGVEIVYTPPRYSIGVSRLQ 2779
>sp|P0C6V5|R1A_IBVM Replicase polyprotein 1a OS=Avian infectious
bronchitis virus (strain M41) OX=11127 GN=1a PE=1 SV=1
Length=3953
Score = 482 bits (1241), Expect = 1e-151, Method: Composition-based stats.
Identities = 147/524 (28%), Positives = 248/524 (47%), Gaps = 36/524 (7%)
Query 2 IVNNWLKQLIKVT-LVFLFVAAIFYLITPVHVMSKHTDFSSEIIG---------YKAIDG 51
++NN K + +F+F + M + F + +K ID
Sbjct 2269 VINNTFKWFMSCFKWLFVFYILFTACCLGYYYMEMNKSFVHPMYDVNSTLHVEGFKVIDK 2328
Query 52 GVTRDIASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTIL 111
GV R+I S D CF+NK +FD ++ G SY N+K CP++ VI + G V G+PG +
Sbjct 2329 GVIREIVSEDNCFSNKFVNFDAFW---GKSYENNKNCPIVTVVIDGD-GTVAVGVPGFVS 2384
Query 112 RTTNG-DFLH---------FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKD 161
+G F+H ++P F+ + YT +I F TS + +A C ++
Sbjct 2385 WVMDGVMFVHMTQTDRRPWYIPTWFNRE-IVGYTQDSIITEGSFYTSIALFSARC-LYLT 2442
Query 162 ASGKPVPYCYD-TNVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEY 220
AS P YC++ N G++ + S+ P Y +G + P L V DS Y
Sbjct 2443 ASNTPQLYCFNGDNDAPGALPFGSIIPHRVYFQPNGVRLIVPQQILHTPYIVKFVSDS-Y 2501
Query 221 CRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDI 280
CR CE ++ G CVS +WVL ND Y S PGVFCG L+ NM + + +I
Sbjct 2502 CRGSVCEYTKPGYCVSLDSQWVLFNDEYISKPGVFCGSTVRELMFNMVSTFFTGVNP-NI 2560
Query 281 SASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPG 340
+ ++ +V+ + ++F+ F Y+ +V L+++++ VLC+ S L
Sbjct 2561 YIQLATMFLILVVIVLIFAMVIKFQGVFKAYATIVFTIMLVWVINAFVLCVHSYNSVLAV 2620
Query 341 VYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAY---IICISTKHFYWFFSNY 397
+ V+Y Y + + + + + H + F +VP W+ Y I+ + T +W +
Sbjct 2621 ILLVLYCYASMVTSRNTAIIMHCWLVFTFGLIVPTWLACCYLGFILYMYTPLVFWCYGTT 2680
Query 398 LKRRVVFNGVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSG 456
R +++G F ++ AA TF++ ++KL +++ ++ YL+ Y + KY+SG
Sbjct 2681 KNTRKLYDGNEFVGNYDLAAKSTFVIRGTEFVKLTNEI---GDKFEAYLSAYARLKYYSG 2737
Query 457 AMDTTSYREAACCHLAKALNDFSNSGSDVLYQPPQTSITSAVLQ 500
Y +A LA AL+ + NSG +V+Y PP+ SI + LQ
Sbjct 2738 TGSEQDYLQACRAWLAYALDQYRNSGVEVVYTPPRYSIGVSRLQ 2781
>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 = 482 bits (1240), Expect = 2e-151, Method: Composition-based stats.
Identities = 147/524 (28%), Positives = 248/524 (47%), Gaps = 36/524 (7%)
Query 2 IVNNWLKQLIKVT-LVFLFVAAIFYLITPVHVMSKHTDFSSEIIG---------YKAIDG 51
++NN K + +F+F + M + F + +K ID
Sbjct 2269 VINNTFKWFMSCFKWLFVFYILFTACCLGYYYMEMNKSFVHPMYDVNSTLHVEGFKVIDK 2328
Query 52 GVTRDIASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTIL 111
GV R+I S D CF+NK +FD ++ G SY N+K CP++ VI + G V G+PG +
Sbjct 2329 GVIREIVSEDNCFSNKFVNFDAFW---GKSYENNKNCPIVTVVIDGD-GTVAVGVPGFVS 2384
Query 112 RTTNG-DFLH---------FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKD 161
+G F+H ++P F+ + YT +I F TS + +A C ++
Sbjct 2385 WVMDGVMFVHMTQTDRRPWYIPTWFNRE-IVGYTQDSIITEGSFYTSIALFSARC-LYLT 2442
Query 162 ASGKPVPYCYD-TNVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEY 220
AS P YC++ N G++ + S+ P Y +G + P L V DS Y
Sbjct 2443 ASNTPQLYCFNGDNDAPGALPFGSIIPHRVYFQPNGVRLIVPQQILHTPYIVKFVSDS-Y 2501
Query 221 CRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDI 280
CR CE ++ G CVS +WVL ND Y S PGVFCG L+ NM + + +I
Sbjct 2502 CRGSVCEYTKPGYCVSLDSQWVLFNDEYISKPGVFCGSTVRELMFNMVSTFFTGVNP-NI 2560
Query 281 SASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPG 340
+ ++ +V+ + ++F+ F Y+ +V L+++++ VLC+ S L
Sbjct 2561 YIQLATMFLILVVIVLIFAMVIKFQGVFKAYATIVFTIMLVWVINAFVLCVHSYNSVLAV 2620
Query 341 VYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAY---IICISTKHFYWFFSNY 397
+ V+Y Y + + + + + H + F +VP W+ Y I+ + T +W +
Sbjct 2621 ILLVLYCYASMVTSRNTAIIMHCWLVFTFGLIVPTWLACCYLGFILYMYTPLVFWCYGTT 2680
Query 398 LKRRVVFNGVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSG 456
R +++G F ++ AA TF++ ++KL +++ ++ YL+ Y + KY+SG
Sbjct 2681 KNTRKLYDGNEFVGNYDLAAKSTFVIRGTEFVKLTNEI---GDKFEAYLSAYARLKYYSG 2737
Query 457 AMDTTSYREAACCHLAKALNDFSNSGSDVLYQPPQTSITSAVLQ 500
Y +A LA AL+ + NSG +V+Y PP+ SI + LQ
Sbjct 2738 TGSEQDYLQACRAWLAYALDQYRNSGVEVVYTPPRYSIGVSRLQ 2781
>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 = 482 bits (1240), Expect = 2e-151, Method: Composition-based stats.
Identities = 145/524 (28%), Positives = 242/524 (46%), Gaps = 36/524 (7%)
Query 2 IVNNWLKQLIKVT-LVFLFVAAIFYLITPVHVMSKHTDFSSEIIG---------YKAIDG 51
IV+ K + +F + + M F + +K ID
Sbjct 2267 IVSGTFKCFKSYFKWLLIFYILFTACCSGYYYMEVSKSFVHPMYDVNSTLHVEGFKVIDK 2326
Query 52 GVTRDIASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTIL 111
GV R+I DTCF+NK +FD ++ G Y N + CP++ AVI + G V G+PG +
Sbjct 2327 GVLREIVPEDTCFSNKFVNFDAFW---GRPYDNSRNCPIVTAVIDGD-GTVATGVPGFVS 2382
Query 112 RTTNG-DFLH---------FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKD 161
+G F+H ++P F+ + YT +I F TS + +A C ++
Sbjct 2383 WVMDGVMFIHMTQTERKPWYIPTWFNRE-IVGYTQDSIITEGSFYTSIALFSARC-LYLT 2440
Query 162 ASGKPVPYCYD-TNVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEY 220
AS P YC++ N G++ + S+ P Y +G + P L V DS Y
Sbjct 2441 ASNTPQLYCFNGDNDAPGALPFGSIIPHRVYFQPNGVRLIVPQQILHTPYVVKFVSDS-Y 2499
Query 221 CRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDI 280
CR CE + G CVS + +WVL ND Y S PGVFCG L+ +M + + +I
Sbjct 2500 CRGSVCEYTRPGYCVSLNPQWVLFNDEYTSKPGVFCGSTVRELMFSMVSTFFTGVNP-NI 2558
Query 281 SASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPG 340
+ ++ +VV + ++F+ F Y+ V L+++++ +LC+ S L
Sbjct 2559 YMQLATMFLILVVVVLIFAMVIKFQGVFKAYATTVFITMLVWVINAFILCVHSYNSVLAV 2618
Query 341 VYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAY---IICISTKHFYWFFSNY 397
+ V+Y Y + + + + H + F +VP W+ Y II + T F W +
Sbjct 2619 ILLVLYCYASLVTSRNTVIIMHCWLVFTFGLIVPTWLACCYLGFIIYMYTPLFLWCYGTT 2678
Query 398 LKRRVVFNGVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSG 456
R +++G F ++ AA TF++ ++KL +++ ++ YL+ Y + KY+SG
Sbjct 2679 KNTRKLYDGNEFVGNYDLAAKSTFVIRGSEFVKLTNEI---GDKFEAYLSAYARLKYYSG 2735
Query 457 AMDTTSYREAACCHLAKALNDFSNSGSDVLYQPPQTSITSAVLQ 500
Y +A LA AL+ + NSG +++Y PP+ SI + LQ
Sbjct 2736 TGSEQDYLQACRAWLAYALDQYRNSGVEIVYTPPRYSIGVSRLQ 2779
>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 = 482 bits (1240), Expect = 2e-151, Method: Composition-based stats.
Identities = 145/524 (28%), Positives = 242/524 (46%), Gaps = 36/524 (7%)
Query 2 IVNNWLKQLIKVT-LVFLFVAAIFYLITPVHVMSKHTDFSSEIIG---------YKAIDG 51
IV+ K + +F + + M F + +K ID
Sbjct 2267 IVSGTFKCFKSYFKWLLIFYILFTACCSGYYYMEVSKSFVHPMYDVNSTLHVEGFKVIDK 2326
Query 52 GVTRDIASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTIL 111
GV R+I DTCF+NK +FD ++ G Y N + CP++ AVI + G V G+PG +
Sbjct 2327 GVLREIVPEDTCFSNKFVNFDAFW---GRPYDNSRNCPIVTAVIDGD-GTVATGVPGFVS 2382
Query 112 RTTNG-DFLH---------FLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKD 161
+G F+H ++P F+ + YT +I F TS + +A C ++
Sbjct 2383 WVMDGVMFIHMTQTERKPWYIPTWFNRE-IVGYTQDSIITEGSFYTSIALFSARC-LYLT 2440
Query 162 ASGKPVPYCYD-TNVLEGSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEY 220
AS P YC++ N G++ + S+ P Y +G + P L V DS Y
Sbjct 2441 ASNTPQLYCFNGDNDAPGALPFGSIIPHRVYFQPNGVRLIVPQQILHTPYVVKFVSDS-Y 2499
Query 221 CRHGTCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDI 280
CR CE + G CVS + +WVL ND Y S PGVFCG L+ +M + + +I
Sbjct 2500 CRGSVCEYTRPGYCVSLNPQWVLFNDEYTSKPGVFCGSTVRELMFSMVSTFFTGVNP-NI 2558
Query 281 SASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPG 340
+ ++ +VV + ++F+ F Y+ V L+++++ +LC+ S L
Sbjct 2559 YMQLATMFLILVVVVLIFAMVIKFQGVFKAYATTVFITMLVWVINAFILCVHSYNSVLAV 2618
Query 341 VYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAY---IICISTKHFYWFFSNY 397
+ V+Y Y + + + + H + F +VP W+ Y II + T F W +
Sbjct 2619 ILLVLYCYASLVTSRNTVIIMHCWLVFTFGLIVPTWLACCYLGFIIYMYTPLFLWCYGTT 2678
Query 398 LKRRVVFNGVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSG 456
R +++G F ++ AA TF++ ++KL +++ ++ YL+ Y + KY+SG
Sbjct 2679 KNTRKLYDGNEFVGNYDLAAKSTFVIRGSEFVKLTNEI---GDKFEAYLSAYARLKYYSG 2735
Query 457 AMDTTSYREAACCHLAKALNDFSNSGSDVLYQPPQTSITSAVLQ 500
Y +A LA AL+ + NSG +++Y PP+ SI + LQ
Sbjct 2736 TGSEQDYLQACRAWLAYALDQYRNSGVEIVYTPPRYSIGVSRLQ 2779
>sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavirus
NL63 OX=277944 GN=rep PE=1 SV=1
Length=6729
Score = 481 bits (1239), Expect = 3e-151, Method: Composition-based stats.
Identities = 137/497 (28%), Positives = 226/497 (45%), Gaps = 30/497 (6%)
Query 8 KQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANK 67
+ + V LFV A+F ++ + + T F +K I+ G + + C N
Sbjct 2466 RTYNFLWYVCLFVVALFIGVSFIDYTTTVTSFH--GYDFKYIENGQLKVFEAPLHCVRNV 2523
Query 68 HADFDTWFSQRGGSYT-NDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVF 126
+F+ W + G T N CP++ V R VVPG+P + G L F +
Sbjct 2524 FDNFNQWHEAKFGVVTTNSDKCPIVVGVSERI--NVVPGVPTNVYLV--GKTLVFTLQAA 2579
Query 127 SAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLR 186
+CY + C+ + CT + G V YCY+T+++EGS Y +L+
Sbjct 2580 FGNTGVCYDFDGVTTSD-----KCIFNSACTRLEGLGGDNV-YCYNTDLIEGSKPYSTLQ 2633
Query 187 PDTRYVLMDGSIIQFPNTYLEG-SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNN 245
P+ Y + ++FP G +R + T + YCR G C S GVC +W +N+
Sbjct 2634 PNAYYKYDAKNYVRFPEILARGFGLRTIRTLATRYCRVGECRDSHKGVCFGFD-KWYVND 2692
Query 246 DYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFR 305
R G CG ++LL N+ + + +S ++ + A +T L + +F+
Sbjct 2693 G--RVDDGYICGDGLIDLLVNVLSIFSSSFSVVAMSGHMLFNFLFAAFITFLCFLVTKFK 2750
Query 306 RAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQW 365
R FG+ S+ V L++ +T F +Y+++Y T T +++ HI +
Sbjct 2751 RVFGDLSYGVFTVVCATLINNISYVVTQ-NLFFMLLYAILYFVFTR--TVRYAWIWHIAY 2807
Query 366 MVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAALCTFL 421
+V + L+P+W+ + S F N K ++ +F G F TFE AA TF+
Sbjct 2808 IVAYFLLIPWWLLTWF----SFAAFLELLPNVFKLKISTQLFEGDKFIGTFESAAAGTFV 2863
Query 422 LNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNS 481
L+ Y +L + + + Y A YNKYKY+SG+ YR A HLAKA+ D++
Sbjct 2864 LDMRSYERLINTI--SPEKLKNYAASYNKYKYYSGSASEADYRCACYAHLAKAMLDYAKD 2921
Query 482 GSDVLYQPPQTSITSAV 498
+D+LY PP S S +
Sbjct 2922 HNDMLYSPPTISYNSTL 2938
>sp|P0C6U6|R1A_CVHNL Replicase polyprotein 1a OS=Human coronavirus
NL63 OX=277944 GN=1a PE=1 SV=1
Length=4060
Score = 480 bits (1235), Expect = 8e-151, Method: Composition-based stats.
Identities = 137/497 (28%), Positives = 226/497 (45%), Gaps = 30/497 (6%)
Query 8 KQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANK 67
+ + V LFV A+F ++ + + T F +K I+ G + + C N
Sbjct 2466 RTYNFLWYVCLFVVALFIGVSFIDYTTTVTSFH--GYDFKYIENGQLKVFEAPLHCVRNV 2523
Query 68 HADFDTWFSQRGGSYT-NDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVF 126
+F+ W + G T N CP++ V R VVPG+P + G L F +
Sbjct 2524 FDNFNQWHEAKFGVVTTNSDKCPIVVGVSERI--NVVPGVPTNVYLV--GKTLVFTLQAA 2579
Query 127 SAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLR 186
+CY + C+ + CT + G V YCY+T+++EGS Y +L+
Sbjct 2580 FGNTGVCYDFDGVTTSD-----KCIFNSACTRLEGLGGDNV-YCYNTDLIEGSKPYSTLQ 2633
Query 187 PDTRYVLMDGSIIQFPNTYLEG-SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNN 245
P+ Y + ++FP G +R + T + YCR G C S GVC +W +N+
Sbjct 2634 PNAYYKYDAKNYVRFPEILARGFGLRTIRTLATRYCRVGECRDSHKGVCFGFD-KWYVND 2692
Query 246 DYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFR 305
R G CG ++LL N+ + + +S ++ + A +T L + +F+
Sbjct 2693 G--RVDDGYICGDGLIDLLVNVLSIFSSSFSVVAMSGHMLFNFLFAAFITFLCFLVTKFK 2750
Query 306 RAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQW 365
R FG+ S+ V L++ +T F +Y+++Y T T +++ HI +
Sbjct 2751 RVFGDLSYGVFTVVCATLINNISYVVTQ-NLFFMLLYAILYFVFTR--TVRYAWIWHIAY 2807
Query 366 MVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAALCTFL 421
+V + L+P+W+ + S F N K ++ +F G F TFE AA TF+
Sbjct 2808 IVAYFLLIPWWLLTWF----SFAAFLELLPNVFKLKISTQLFEGDKFIGTFESAAAGTFV 2863
Query 422 LNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNS 481
L+ Y +L + + + Y A YNKYKY+SG+ YR A HLAKA+ D++
Sbjct 2864 LDMRSYERLINTI--SPEKLKNYAASYNKYKYYSGSASEADYRCACYAHLAKAMLDYAKD 2921
Query 482 GSDVLYQPPQTSITSAV 498
+D+LY PP S S +
Sbjct 2922 HNDMLYSPPTISYNSTL 2938
>sp|P0C6U2|R1A_CVH22 Replicase polyprotein 1a OS=Human coronavirus
229E OX=11137 GN=1a PE=1 SV=1
Length=4085
Score = 473 bits (1217), Expect = 2e-148, Method: Composition-based stats.
Identities = 128/496 (26%), Positives = 215/496 (43%), Gaps = 32/496 (6%)
Query 13 VTLVFLFVAAIF----YLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKH 68
+T ++L + YL + S E +K I+ G ++ + C N
Sbjct 2491 LTWLWLLCGLVCLIQFYLCFFMPYFMYDIVSSFEGYDFKYIENGQLKNFEAPLKCVRNVF 2550
Query 69 ADFDTWFSQRGGS-YTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFS 127
+F+ W + G N ++CP++ V E+ V G+P + G L F +
Sbjct 2551 ENFEDWHYAKFGFTPLNKQSCPIVVGV--SEIVNTVAGIPSNVYLV--GKTLIFTLQAAF 2606
Query 128 AVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRP 187
+CY + C+ + CT + G V YCY+T ++EGS+ Y S++
Sbjct 2607 GNAGVCYD-----IFGVTTPEKCIFTSACTRLEGLGGNNV-YCYNTALMEGSLPYSSIQA 2660
Query 188 DTRYVLMDGSIIQFPNTYLEG-SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNND 246
+ Y +G+ I+ P +G R V T ++YCR G C S AGVC +V +
Sbjct 2661 NAYYKYDNGNFIKLPEVIAQGFGFRTVRTIATKYCRVGECVESNAGVCFGFDKWFV---N 2717
Query 247 YYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRR 306
R G CG NL+ N+ + +S I+ + + +FRR
Sbjct 2718 DGRVANGYVCGTGLWNLVFNILSMFSSSFSVAAMSGQILLNCALGAFAIFCCFLVTKFRR 2777
Query 307 AFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWM 366
FG+ S V + L++ +T + Y+++Y + T L +++ ++
Sbjct 2778 MFGDLSVGVCTVVVAVLLNNVSYIVTQNLVTMIA-YAILYFFATRSL--RYAWIWCAAYL 2834
Query 367 VMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAALCTFLL 422
+ + P+W+ Y + + T + LK +V +F G F TFE AA TF++
Sbjct 2835 IAYISFAPWWLCAWYFLAMLTG----LLPSLLKLKVSTNLFEGDKFVGTFESAAAGTFVI 2890
Query 423 NKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSG 482
+ Y KL + + + Y A YN+YKY+SG + YR A +LAKA+ DFS
Sbjct 2891 DMRSYEKLANSI--SPEKLKSYAASYNRYKYYSGNANEADYRCACYAYLAKAMLDFSRDH 2948
Query 483 SDVLYQPPQTSITSAV 498
+D+LY PP S S +
Sbjct 2949 NDILYTPPTVSYGSTL 2964
>sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavirus
229E OX=11137 GN=rep PE=1 SV=1
Length=6758
Score = 472 bits (1214), Expect = 5e-148, Method: Composition-based stats.
Identities = 128/496 (26%), Positives = 215/496 (43%), Gaps = 32/496 (6%)
Query 13 VTLVFLFVAAIF----YLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDIASTDTCFANKH 68
+T ++L + YL + S E +K I+ G ++ + C N
Sbjct 2491 LTWLWLLCGLVCLIQFYLCFFMPYFMYDIVSSFEGYDFKYIENGQLKNFEAPLKCVRNVF 2550
Query 69 ADFDTWFSQRGGS-YTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGDFLHFLPRVFS 127
+F+ W + G N ++CP++ V E+ V G+P + G L F +
Sbjct 2551 ENFEDWHYAKFGFTPLNKQSCPIVVGV--SEIVNTVAGIPSNVYLV--GKTLIFTLQAAF 2606
Query 128 AVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLEGSVAYESLRP 187
+CY + C+ + CT + G V YCY+T ++EGS+ Y S++
Sbjct 2607 GNAGVCYD-----IFGVTTPEKCIFTSACTRLEGLGGNNV-YCYNTALMEGSLPYSSIQA 2660
Query 188 DTRYVLMDGSIIQFPNTYLEG-SVRVVTTFDSEYCRHGTCERSEAGVCVSTSGRWVLNND 246
+ Y +G+ I+ P +G R V T ++YCR G C S AGVC +V +
Sbjct 2661 NAYYKYDNGNFIKLPEVIAQGFGFRTVRTIATKYCRVGECVESNAGVCFGFDKWFV---N 2717
Query 247 YYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRR 306
R G CG NL+ N+ + +S I+ + + +FRR
Sbjct 2718 DGRVANGYVCGTGLWNLVFNILSMFSSSFSVAAMSGQILLNCALGAFAIFCCFLVTKFRR 2777
Query 307 AFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWM 366
FG+ S V + L++ +T + Y+++Y + T L +++ ++
Sbjct 2778 MFGDLSVGVCTVVVAVLLNNVSYIVTQNLVTMIA-YAILYFFATRSL--RYAWIWCAAYL 2834
Query 367 VMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRV---VFNGVSF-STFEEAALCTFLL 422
+ + P+W+ Y + + T + LK +V +F G F TFE AA TF++
Sbjct 2835 IAYISFAPWWLCAWYFLAMLTG----LLPSLLKLKVSTNLFEGDKFVGTFESAAAGTFVI 2890
Query 423 NKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALNDFSNSG 482
+ Y KL + + + Y A YN+YKY+SG + YR A +LAKA+ DFS
Sbjct 2891 DMRSYEKLANSI--SPEKLKSYAASYNRYKYYSGNANEADYRCACYAYLAKAMLDFSRDH 2948
Query 483 SDVLYQPPQTSITSAV 498
+D+LY PP S S +
Sbjct 2949 NDILYTPPTVSYGSTL 2964
>sp|P0C6F3|R1A_BEV Replicase polyprotein 1a OS=Berne virus OX=11156
GN=1a PE=1 SV=1
Length=4569
Score = 46.6 bits (109), Expect = 7e-04, Method: Composition-based stats.
Identities = 45/214 (21%), Positives = 87/214 (41%), Gaps = 30/214 (14%)
Query 290 VAIVVTCLAYYFMRFRRA----FGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVI 345
+ ++ T + +R F +++VV LLF+ VL + + +PGV
Sbjct 3066 IVVIFTVIFLILIRLYIVMYSYFKVFTYVVFK--LLFVNIIMVLFVVCLPPLVPGVV--- 3120
Query 346 YLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFN 405
L +L + V FL ++ ++ +F ++P++ + ++ + F+W + + +
Sbjct 3121 -FVLALWLCDSVMFLLYLAFLSLF--ILPWFYVLFFLFMVGGFVFWWMMRSADVVHLTTD 3177
Query 406 GVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYR 464
G++F TFE+ + C F LN + + +LL + L +K K G
Sbjct 3178 GLTFNGTFEQISKCVFPLN----PLIVNRMLLDCQMSHSDLVEKSKLKTTEGK------- 3226
Query 465 EAACCHLAKALNDFSNSGSDVLYQPPQTSITSAV 498
LA + +G YQP S S
Sbjct 3227 ------LANEMMKVFMTGETSYYQPSNFSFQSVF 3254
>sp|P0C6V7|R1AB_BEV Replicase polyprotein 1ab OS=Berne virus OX=11156
GN=rep PE=1 SV=1
Length=6857
Score = 45.8 bits (107), Expect = 0.001, Method: Composition-based stats.
Identities = 45/214 (21%), Positives = 87/214 (41%), Gaps = 30/214 (14%)
Query 290 VAIVVTCLAYYFMRFRRA----FGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVI 345
+ ++ T + +R F +++VV LLF+ VL + + +PGV
Sbjct 3066 IVVIFTVIFLILIRLYIVMYSYFKVFTYVVFK--LLFVNIIMVLFVVCLPPLVPGVV--- 3120
Query 346 YLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFN 405
L +L + V FL ++ ++ +F ++P++ + ++ + F+W + + +
Sbjct 3121 -FVLALWLCDSVMFLLYLAFLSLF--ILPWFYVLFFLFMVGGFVFWWMMRSADVVHLTTD 3177
Query 406 GVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYR 464
G++F TFE+ + C F LN + + +LL + L +K K G
Sbjct 3178 GLTFNGTFEQISKCVFPLN----PLIVNRMLLDCQMSHSDLVEKSKLKTTEGK------- 3226
Query 465 EAACCHLAKALNDFSNSGSDVLYQPPQTSITSAV 498
LA + +G YQP S S
Sbjct 3227 ------LANEMMKVFMTGETSYYQPSNFSFQSVF 3254
>sp|P0C6F4|R1A_BRV1 Replicase polyprotein 1a OS=Breda virus 1
OX=360393 GN=1a PE=3 SV=1
Length=4445
Score = 45.8 bits (107), Expect = 0.001, Method: Composition-based stats.
Identities = 47/216 (22%), Positives = 88/216 (41%), Gaps = 26/216 (12%)
Query 284 IVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYS 343
+V I IV L ++ F +++VV LLF+ + VL + + +PGV
Sbjct 2944 VVLVAIFTIVFLFLLRMYIVMYSYFKVFTYVVFK--LLFVNTVMVLFVVCLPPLVPGVV- 3000
Query 344 VIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVV 403
L +L + V FL ++ + +F ++P++ + +++ + F+W + +
Sbjct 3001 ---FVLALWLCDSVVFLLYLAVLSLF--ILPWFYVMLFVLIVGGFVFWWMMKSSDVVHLT 3055
Query 404 FNGVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTS 462
+G++F TFE+ + C F LN + +L D + + +K K G
Sbjct 3056 PDGLTFNGTFEQVSKCVFPLNPLIVNRLLLDCRMSHSDLVEK----SKLKTTEGK----- 3106
Query 463 YREAACCHLAKALNDFSNSGSDVLYQPPQTSITSAV 498
LA + +G YQP S S
Sbjct 3107 --------LATEMMKVFMTGETAYYQPSNFSFQSVF 3134
>sp|P0C6V8|R1AB_BRV1 Replicase polyprotein 1ab OS=Breda virus
1 OX=360393 GN=rep PE=2 SV=1
Length=6733
Score = 45.4 bits (106), Expect = 0.001, Method: Composition-based stats.
Identities = 48/216 (22%), Positives = 89/216 (41%), Gaps = 26/216 (12%)
Query 284 IVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYS 343
+V I IV L ++ F +++VV LLF+ + VL + + +PGV
Sbjct 2944 VVLVAIFTIVFLFLLRMYIVMYSYFKVFTYVVFK--LLFVNTVMVLFVVCLPPLVPGVV- 3000
Query 344 VIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVV 403
L +L + V FL ++ + +F ++P++ + +++ + F+W + +
Sbjct 3001 ---FVLALWLCDSVVFLLYLAVLSLF--ILPWFYVMLFVLIVGGFVFWWMMKSSDVVHLT 3055
Query 404 FNGVSF-STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTS 462
+G++F TFE+ + C F LN + + +LL + L +K K G
Sbjct 3056 PDGLTFNGTFEQVSKCVFPLN----PLIVNRLLLDCRMSHSDLVEKSKLKTTEGK----- 3106
Query 463 YREAACCHLAKALNDFSNSGSDVLYQPPQTSITSAV 498
LA + +G YQP S S
Sbjct 3107 --------LATEMMKVFMTGETAYYQPSNFSFQSVF 3134
>sp|Q008X5|R1A_WBV24 Replicase polyprotein 1a OS=White bream virus
(isolate Blicca bjoerkna L./Germany/DF24/00) OX=766180
GN=1a PE=1 SV=1
Length=4555
Score = 39.6 bits (91), Expect = 0.087, Method: Composition-based stats.
Identities = 29/180 (16%), Positives = 76/180 (42%), Gaps = 11/180 (6%)
Query 274 PIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTP 333
+ S+++ A + ++VV + +++ + F Y++ V + ++ L++ ++
Sbjct 3237 SVLPTGASSNVAALLMASVVVISMVLFYLYLLQIFKFYTNSVIMSFVIQLLTLLATTVST 3296
Query 334 VYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWF 393
+ ++ + Y Y ++ ++ T L+ + I +++ Y
Sbjct 3297 PLAVTVQLFVITYGYTN--------WILLTLSLLNLTVLLSTPVGITFVVIYGLYKAYTL 3348
Query 394 FSNYLKRRVVFNGVSF---STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNK 450
F++ + V G + +FE+ A TF L ++L SD+ + Q N Y + ++
Sbjct 3349 FTSSGQGCVYNEGGTIRFSGSFEQVANSTFPLTNASCVQLLSDLGITYQQLNVYASSRDR 3408
>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 = 39.2 bits (90), Expect = 0.099, Method: Composition-based stats.
Identities = 29/180 (16%), Positives = 76/180 (42%), Gaps = 11/180 (6%)
Query 274 PIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTP 333
+ S+++ A + ++VV + +++ + F Y++ V + ++ L++ ++
Sbjct 3237 SVLPTGASSNVAALLMASVVVISMVLFYLYLLQIFKFYTNSVIMSFVIQLLTLLATTVST 3296
Query 334 VYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWF 393
+ ++ + Y Y ++ ++ T L+ + I +++ Y
Sbjct 3297 PLAVTVQLFVITYGYTN--------WILLTLSLLNLTVLLSTPVGITFVVIYGLYKAYTL 3348
Query 394 FSNYLKRRVVFNGVSF---STFEEAALCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNK 450
F++ + V G + +FE+ A TF L ++L SD+ + Q N Y + ++
Sbjct 3349 FTSSGQGCVYNEGGTIRFSGSFEQVANSTFPLTNASCVQLLSDLGITYQQLNVYASSRDR 3408
>sp|P12428|BROWN_DROME Protein brown OS=Drosophila melanogaster
OX=7227 GN=bw PE=1 SV=1
Length=675
Score = 35.4 bits (80), Expect = 1.3, Method: Composition-based stats.
Identities = 18/95 (19%), Positives = 36/95 (38%), Gaps = 1/95 (1%)
Query 276 GALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVY 335
+S ++ + A + RR GE ++ ++ + ++SF + Y
Sbjct 454 SIFMLSNEMIFTFSYGVTYIFPAALPI-IRREVGEGTYSLSAYYVALVLSFVPVAFFKGY 512
Query 336 SFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
FL +Y+ IY F L + FL + +
Sbjct 513 VFLSVIYASIYYTRGFLLYLSMGFLMSLSAVAAVG 547
>sp|P18490|PCX_DROME Protein pecanex OS=Drosophila melanogaster
OX=7227 GN=pcx PE=2 SV=4
Length=3413
Score = 35.4 bits (80), Expect = 1.5, Method: Composition-based stats.
Identities = 23/119 (19%), Positives = 49/119 (41%), Gaps = 13/119 (11%)
Query 263 LLTNMFTPLIQPIGALDISASIVAGGIV--AIVVTCLAYYFMRFRR-AFGEYSHVVAFNT 319
L N+ PL+ S IVA + ++ + ++F R A+ + ++
Sbjct 1921 LERNVLFPLLAISSLTADSQLIVAKFGLPWGTLIVAICA--LKFVRNAYSDPTNQYLI-- 1976
Query 320 LLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWIT 378
+ FTVL ++ + + Y +++ FL +Q++V + + P+ IT
Sbjct 1977 ----IIFTVLLFRIDFAMATETFIIDYFFVSLAFRKCCDFLLKLQFIVTY--IAPWQIT 2029
>sp|Q6GIU7|NORA_STAAR Quinolone resistance protein NorA OS=Staphylococcus
aureus (strain MRSA252) OX=282458 GN=norA PE=3 SV=1
Length=388
Score = 34.6 bits (78), Expect = 2.3, Method: Composition-based stats.
Identities = 17/89 (19%), Positives = 37/89 (42%), Gaps = 2/89 (2%)
Query 257 GVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVA 316
G+ A L +++T DIS +I GGI + Y+F +F + F E + +
Sbjct 217 GLSAFETLYSLYTSYKVNYSPKDISIAITGGGIFGAL--FQIYFFDKFMKYFSELTFIAW 274
Query 317 FNTLLFLMSFTVLCLTPVYSFLPGVYSVI 345
++ ++ ++ + ++V
Sbjct 275 SLIYSVIVLVLLVIADGYWTIMVISFAVF 303
>sp|Q00167|VG78_ICHVA Putative zinc-binding protein ORF78 OS=Ictalurid
herpesvirus 1 (strain Auburn) OX=766178 GN=ORF78 PE=4
SV=1
Length=400
Score = 34.2 bits (77), Expect = 3.0, Method: Composition-based stats.
Identities = 20/94 (21%), Positives = 37/94 (39%), Gaps = 10/94 (11%)
Query 172 DTNVLEGSVAYESLRPDTRYVLMDGSIIQF--PNTYL---EGSVRVVTTFD--SEYCRHG 224
DT ++ G S+RPD+ + ++F P +G T C
Sbjct 32 DTGIVPGLRVESSVRPDSITNFRRLAAVKFKNPEVMECGGKGGCEECKTRPALMLNC--- 88
Query 225 TCERSEAGVCVSTSGRWVLNNDYYRSLPGVFCGV 258
C+ ++ +C+ R V ++ +R+ V CG
Sbjct 89 DCDTAKVPICLGCKPRAVRDHPCFRNRTCVSCGT 122
>sp|Q2FQC0|KUP_METHJ Probable potassium transport system protein
Kup OS=Methanospirillum hungatei JF-1 (strain ATCC 27890
/ DSM 864 / NBRC 100397 / JF-1) OX=323259 GN=kup PE=3 SV=1
Length=611
Score = 33.9 bits (76), Expect = 4.5, Method: Composition-based stats.
Identities = 22/133 (17%), Positives = 45/133 (34%), Gaps = 8/133 (6%)
Query 258 VDAVNLLTNMFTPLIQPIGALDISASIV--------AGGIVAIVVTCLAYYFMRFRRAFG 309
+++ T + P+ +D ++ + ++ I V C+ F R
Sbjct 313 SGIFSIIYQAITTHLLPMLPVDYTSDELRTQIYINTVNWLLCIAVICVLLIFQYSERLAS 372
Query 310 EYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMF 369
Y V + + L G+ ++ L Y + VS + H ++ +
Sbjct 373 AYGLAVTGTMSITGSFMIAIFLQRRKYLYMGIALIVTLVDITYFLSTVSKITHGGYLSLV 432
Query 370 TPLVPFWITIAYI 382
+PF I I Y
Sbjct 433 IAAIPFTIVIIYT 445
>sp|Q24739|BROWN_DROVI Protein brown OS=Drosophila virilis OX=7244
GN=bw PE=2 SV=1
Length=668
Score = 33.9 bits (76), Expect = 4.7, Method: Composition-based stats.
Identities = 17/95 (18%), Positives = 35/95 (37%), Gaps = 1/95 (1%)
Query 276 GALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVY 335
+S ++ + A + RR E ++ ++ + ++SF + Y
Sbjct 447 SIFMLSNEMIFTFSYGVTYIFPAALPI-IRREVAEGTYSLSAYYVALVLSFVPVAFFKGY 505
Query 336 SFLPGVYSVIYLYLTFYLTNDVSFLAHIQWMVMFT 370
FL +Y+ IY F L + FL + +
Sbjct 506 MFLSVIYASIYYTRGFLLYITMGFLMSLSAIAAVG 540
>sp|Q1RH22|Y1261_RICBR Uncharacterized lipoprotein RBE_1261 OS=Rickettsia
bellii (strain RML369-C) OX=336407 GN=RBE_1261 PE=3
SV=1
Length=1157
Score = 33.5 bits (75), Expect = 5.9, Method: Composition-based stats.
Identities = 29/189 (15%), Positives = 65/189 (34%), Gaps = 32/189 (17%)
Query 251 LPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGE 310
PG V A+ L MFT IG ++++ + I+ + V + + F +
Sbjct 287 TPGYRLSVSALLTLYIMFTGFSFLIGNINMTHVELVVRILKVSVVSILLSTSKAWTFFHD 346
Query 311 YSHVVAFNTLLFLMSFT------------------------VLCLTPVYSFLPGVYSV-I 345
Y V L ++ +L + P+ +Y + +
Sbjct 347 YLFVFFVEGLAQILQIVQDASTGQSLLSLLISPQTLSKLFSLLFVDPLGFIYIILYLIAL 406
Query 346 YLYLTFYLTNDVSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYW-----FFSNYLKR 400
Y + +L + + M + P +I +++ T+ + S ++
Sbjct 407 YFIFLLIFKATIIYLTALITIGMIITMAPIFIC--FMLFNITRSLFENWLRQLISYAIQP 464
Query 401 RVVFNGVSF 409
++F G++F
Sbjct 465 IILFVGIAF 473
>sp|Q6GBD5|NORA_STAAS Quinolone resistance protein NorA OS=Staphylococcus
aureus (strain MSSA476) OX=282459 GN=norA PE=3 SV=1
Length=388
Score = 32.7 bits (73), Expect = 8.9, Method: Composition-based stats.
Identities = 18/89 (20%), Positives = 36/89 (40%), Gaps = 2/89 (2%)
Query 257 GVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVA 316
G+ A L +++T DIS +I GGI + Y+F +F + F E + +
Sbjct 217 GLSAFETLYSLYTADKVNYSPKDISIAITGGGIFGAL--FQIYFFDKFMKYFSELTFIAW 274
Query 317 FNTLLFLMSFTVLCLTPVYSFLPGVYSVI 345
++ ++ +S + + V
Sbjct 275 SLLYSVVVLILLVFANGYWSIMLISFVVF 303
>sp|P0A0J6|NORA_STAAW Quinolone resistance protein NorA OS=Staphylococcus
aureus (strain MW2) OX=196620 GN=norA PE=3 SV=1
Length=388
Score = 32.3 bits (72), Expect = 9.7, Method: Composition-based stats.
Identities = 18/89 (20%), Positives = 36/89 (40%), Gaps = 2/89 (2%)
Query 257 GVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVA 316
G+ A L +++T DIS +I GGI + Y+F +F + F E + +
Sbjct 217 GLSAFETLYSLYTADKVNYSPKDISIAITGGGIFGAL--FQIYFFDKFMKYFSELTFIAW 274
Query 317 FNTLLFLMSFTVLCLTPVYSFLPGVYSVI 345
++ ++ +S + + V
Sbjct 275 SLLYSVVVLILLVFANGYWSIMLISFVVF 303
>sp|P0A0J7|NORA_STAAU Quinolone resistance protein NorA OS=Staphylococcus
aureus OX=1280 GN=norA PE=1 SV=1
Length=388
Score = 32.3 bits (72), Expect = 9.7, Method: Composition-based stats.
Identities = 18/89 (20%), Positives = 36/89 (40%), Gaps = 2/89 (2%)
Query 257 GVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVA 316
G+ A L +++T DIS +I GGI + Y+F +F + F E + +
Sbjct 217 GLSAFETLYSLYTADKVNYSPKDISIAITGGGIFGAL--FQIYFFDKFMKYFSELTFIAW 274
Query 317 FNTLLFLMSFTVLCLTPVYSFLPGVYSVI 345
++ ++ +S + + V
Sbjct 275 SLLYSVVVLILLVFANGYWSIMLISFVVF 303
>sp|P0A0J5|NORA_STAAN Quinolone resistance protein NorA OS=Staphylococcus
aureus (strain N315) OX=158879 GN=norA PE=3 SV=1
Length=388
Score = 32.3 bits (72), Expect = 9.7, Method: Composition-based stats.
Identities = 18/89 (20%), Positives = 36/89 (40%), Gaps = 2/89 (2%)
Query 257 GVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVA 316
G+ A L +++T DIS +I GGI + Y+F +F + F E + +
Sbjct 217 GLSAFETLYSLYTADKVNYSPKDISIAITGGGIFGAL--FQIYFFDKFMKYFSELTFIAW 274
Query 317 FNTLLFLMSFTVLCLTPVYSFLPGVYSVI 345
++ ++ +S + + V
Sbjct 275 SLLYSVVVLILLVFANGYWSIMLISFVVF 303
>sp|P0A0J4|NORA_STAAM Quinolone resistance protein NorA OS=Staphylococcus
aureus (strain Mu50 / ATCC 700699) OX=158878 GN=norA
PE=3 SV=1
Length=388
Score = 32.3 bits (72), Expect = 9.7, Method: Composition-based stats.
Identities = 18/89 (20%), Positives = 36/89 (40%), Gaps = 2/89 (2%)
Query 257 GVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCLAYYFMRFRRAFGEYSHVVA 316
G+ A L +++T DIS +I GGI + Y+F +F + F E + +
Sbjct 217 GLSAFETLYSLYTADKVNYSPKDISIAITGGGIFGAL--FQIYFFDKFMKYFSELTFIAW 274
Query 317 FNTLLFLMSFTVLCLTPVYSFLPGVYSVI 345
++ ++ +S + + V
Sbjct 275 SLLYSVVVLILLVFANGYWSIMLISFVVF 303
Lambda K H a alpha
0.318 0.135 0.401 0.792 4.96
Gapped
Lambda K H a alpha sigma
0.267 0.0413 0.140 1.90 42.6 43.6
Effective search space used: 51839799606
Database: uniprot_sprot.fasta
Posted date: Jun 2, 2024 1:37 PM
Number of letters in database: 206,878,625
Number of sequences in database: 571,609
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Neighboring words threshold: 11
Window for multiple hits: 40