PSIBLAST 2.11.0+
Reference: Stephen F. Altschul, Thomas L. Madden, Alejandro A.
Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J.
Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of
protein database search programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Stephen F.
Altschul, John C. Wootton, E. Michael Gertz, Richa Agarwala,
Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005)
"Protein database searches using compositionally adjusted
substitution matrices", FEBS J. 272:5101-5109.
Reference for composition-based statistics starting in round 2:
Alejandro A. Schaffer, L. Aravind, Thomas L. Madden, Sergei
Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and
Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST
protein database searches with composition-based statistics and
other refinements", Nucleic Acids Res. 29:2994-3005.
Database: uniprot_sprot.fasta
571,282 sequences; 206,678,396 total letters
Results from round 1
Query= YP_009725298.1 nsp2 [Severe acute respiratory syndrome coronavirus
2]
Length=638
Score E
Sequences producing significant alignments: (Bits) Value
sp|P0DTC1|R1A_SARS2 Replicase polyprotein 1a OS=Severe acute resp... 1328 0.0
sp|P0DTD1|R1AB_SARS2 Replicase polyprotein 1ab OS=Severe acute re... 1326 0.0
sp|P0C6F5|R1A_BC279 Replicase polyprotein 1a OS=Bat coronavirus 2... 965 0.0
sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus... 963 0.0
sp|P0C6U8|R1A_SARS Replicase polyprotein 1a OS=Severe acute respi... 956 0.0
sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute res... 954 0.0
sp|P0C6F8|R1A_BCHK3 Replicase polyprotein 1a OS=Bat coronavirus H... 951 0.0
sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus... 949 0.0
sp|P0C6T7|R1A_BCRP3 Replicase polyprotein 1a OS=Bat coronavirus R... 941 0.0
sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus... 939 0.0
sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus... 109 2e-23
sp|P0C6T4|R1A_BCHK4 Replicase polyprotein 1a OS=Bat coronavirus H... 109 3e-23
sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus... 109 4e-23
sp|P0C6T5|R1A_BCHK5 Replicase polyprotein 1a OS=Bat coronavirus H... 108 4e-23
sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus... 102 7e-21
sp|P0C6F7|R1A_BC133 Replicase polyprotein 1a OS=Bat coronavirus 1... 101 9e-21
sp|K9N638|R1A_MERS1 Replicase polyprotein 1a OS=Middle East respi... 92.4 7e-18
sp|K9N7C7|R1AB_MERS1 Replicase polyprotein 1ab OS=Middle East res... 92.0 9e-18
sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus... 60.8 4e-08
sp|P0C6T6|R1A_BCHK9 Replicase polyprotein 1a OS=Bat coronavirus H... 60.5 4e-08
sp|P0C6V2|R1A_CVPPU Replicase polyprotein 1a OS=Porcine transmiss... 37.7 0.43
sp|P0C6Y5|R1AB_CVPPU Replicase polyprotein 1ab OS=Porcine transmi... 37.7 0.50
sp|P43349|TCTP_SOLTU Translationally-controlled tumor protein hom... 34.7 1.1
sp|A0JUY4|RECA_ARTS2 Protein RecA OS=Arthrobacter sp. (strain FB2... 35.4 1.6
sp|P54334|XKDO_BACSU Phage-like element PBSX protein XkdO OS=Baci... 35.4 2.1
sp|Q98VG9|R1AB_FIPV Replicase polyprotein 1ab OS=Feline coronavir... 35.0 3.4
sp|Q751L1|RL43_EREGS Large ribosomal subunit protein eL43 OS=Erem... 32.0 3.6
sp|Q0W2Y5|RPO12_METAR DNA-directed RNA polymerase subunit Rpo12 O... 30.4 4.0
sp|Q5UQB5|TOP1P_MIMIV DNA topoisomerase 1 type prokaryotic OS=Aca... 34.3 4.6
sp|Q5J907|TCTP_ELAGV Translationally-controlled tumor protein hom... 32.3 8.1
sp|P35138|RL15_BACLD Large ribosomal subunit protein uL15 OS=Baci... 31.6 9.9
>sp|P0DTC1|R1A_SARS2 Replicase polyprotein 1a OS=Severe acute
respiratory syndrome coronavirus 2 OX=2697049 PE=1 SV=1
Length=4405
Score = 1328 bits (3437), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 638/638 (100%), Positives = 638/638 (100%), Gaps = 0/638 (0%)
Query 1 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW
Sbjct 181 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 240
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 120
YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI
Sbjct 241 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 300
Query 121 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 180
RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL
Sbjct 301 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 360
Query 181 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 240
PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC
Sbjct 361 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 420
Query 241 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF
Sbjct 421 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 480
Query 301 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 360
SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA
Sbjct 481 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 540
Query 361 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 420
ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY
Sbjct 541 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 600
Query 421 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 480
ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV
Sbjct 601 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 660
Query 481 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 540
GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC
Sbjct 661 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 720
Query 541 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 600
VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG
Sbjct 721 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 780
Query 601 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG
Sbjct 781 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 818
>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 = 1326 bits (3431), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 638/638 (100%), Positives = 638/638 (100%), Gaps = 0/638 (0%)
Query 1 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW
Sbjct 181 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 240
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 120
YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI
Sbjct 241 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 300
Query 121 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 180
RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL
Sbjct 301 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 360
Query 181 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 240
PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC
Sbjct 361 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 420
Query 241 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF
Sbjct 421 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 480
Query 301 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 360
SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA
Sbjct 481 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 540
Query 361 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 420
ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY
Sbjct 541 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 600
Query 421 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 480
ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV
Sbjct 601 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 660
Query 481 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 540
GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC
Sbjct 661 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 720
Query 541 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 600
VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG
Sbjct 721 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 780
Query 601 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG
Sbjct 781 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 818
>sp|P0C6F5|R1A_BC279 Replicase polyprotein 1a OS=Bat coronavirus
279/2005 OX=389167 GN=1a PE=3 SV=1
Length=4388
Score = 965 bits (2494), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 441/638 (69%), Positives = 530/638 (83%), Gaps = 0/638 (0%)
Query 1 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
A+TRYVDNNFCGPDGYPLECIKDLLARAGK+ CTLSEQLD+I++KRGVYCCREHEHEI W
Sbjct 181 AFTRYVDNNFCGPDGYPLECIKDLLARAGKSMCTLSEQLDYIESKRGVYCCREHEHEIVW 240
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 120
+TERSEKSYE QTPFEIK AKKFDTF GECP FVFPLNS +K IQPRVEKKK +GFMGRI
Sbjct 241 FTERSEKSYERQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI 300
Query 121 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 180
RSVYPVA+P ECN M LSTLMKC+HC E SWQT DF+KATCE CGTENL EG TTCGYL
Sbjct 301 RSVYPVATPQECNDMHLSTLMKCNHCDEVSWQTCDFLKATCEQCGTENLVCEGPTTCGYL 360
Query 181 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 240
P NAVVK+ CPAC + EVGPEHS+A+YHN S ++T LRKGGRT FGGCVF+YVGC+NK
Sbjct 361 PANAVVKMPCPACQDPEVGPEHSVADYHNHSNIETRLRKGGRTKCFGGCVFAYVGCYNKR 420
Query 241 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
AYWVPRASANIG +HTG+ G+ E LN++L+EIL +++VNINIVGDF LNEE+AIILASF
Sbjct 421 AYWVPRASANIGASHTGITGDNVETLNEDLMEILNRDRVNINIVGDFHLNEEVAIILASF 480
Query 301 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 360
SAST AFV+TVKGLDYK FK IVESCGNFKVT+G+AKKGAWNIG++KSIL+PLY F S+A
Sbjct 481 SASTCAFVDTVKGLDYKTFKDIVESCGNFKVTRGRAKKGAWNIGQEKSILTPLYGFPSQA 540
Query 361 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 420
A V+RSIF+R L+TA +S+ LQ+AAITILDGIS+ SLRLIDAM++TSDL TN+++VMAY
Sbjct 541 AGVIRSIFTRALDTANHSIPDLQRAAITILDGISEQSLRLIDAMVYTSDLLTNSVIVMAY 600
Query 421 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 480
+TGG+VQ +QWL+N+ GT +KLKPV W+E K G+EFLRD WEI+KF+ T +IV
Sbjct 601 VTGGLVQQITQWLSNMLGTTVDKLKPVFTWVEAKLSAGIEFLRDAWEILKFLVTGVFDIV 660
Query 481 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 540
GQI + +KE V+ F ++NK L +C D +II GAKL+ LNLGE F+ SKGLYR+C
Sbjct 661 KGQIQVASDNLKECVKAFLDVLNKALEMCIDQVIIAGAKLRTLNLGEVFIAQSKGLYRQC 720
Query 541 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 600
++ +E+ LLMPL+APKE+ F EG++ T +EEVVLK G+L+ LE P ++G
Sbjct 721 IRGKEQLQLLMPLRAPKEVTFFEGDSHDTVFTSEEVVLKNGELEALETPVDSFTNGAVIG 780
Query 601 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TPVC+NGLMLLE+KD E+YCAL+P ++ TNN F+LKGG
Sbjct 781 TPVCVNGLMLLELKDKEQYCALSPGLLATNNVFSLKGG 818
>sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus
279/2005 OX=389167 GN=rep PE=3 SV=1
Length=7079
Score = 963 bits (2489), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 441/638 (69%), Positives = 530/638 (83%), Gaps = 0/638 (0%)
Query 1 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
A+TRYVDNNFCGPDGYPLECIKDLLARAGK+ CTLSEQLD+I++KRGVYCCREHEHEI W
Sbjct 181 AFTRYVDNNFCGPDGYPLECIKDLLARAGKSMCTLSEQLDYIESKRGVYCCREHEHEIVW 240
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 120
+TERSEKSYE QTPFEIK AKKFDTF GECP FVFPLNS +K IQPRVEKKK +GFMGRI
Sbjct 241 FTERSEKSYERQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI 300
Query 121 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 180
RSVYPVA+P ECN M LSTLMKC+HC E SWQT DF+KATCE CGTENL EG TTCGYL
Sbjct 301 RSVYPVATPQECNDMHLSTLMKCNHCDEVSWQTCDFLKATCEQCGTENLVCEGPTTCGYL 360
Query 181 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 240
P NAVVK+ CPAC + EVGPEHS+A+YHN S ++T LRKGGRT FGGCVF+YVGC+NK
Sbjct 361 PANAVVKMPCPACQDPEVGPEHSVADYHNHSNIETRLRKGGRTKCFGGCVFAYVGCYNKR 420
Query 241 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
AYWVPRASANIG +HTG+ G+ E LN++L+EIL +++VNINIVGDF LNEE+AIILASF
Sbjct 421 AYWVPRASANIGASHTGITGDNVETLNEDLMEILNRDRVNINIVGDFHLNEEVAIILASF 480
Query 301 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 360
SAST AFV+TVKGLDYK FK IVESCGNFKVT+G+AKKGAWNIG++KSIL+PLY F S+A
Sbjct 481 SASTCAFVDTVKGLDYKTFKDIVESCGNFKVTRGRAKKGAWNIGQEKSILTPLYGFPSQA 540
Query 361 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 420
A V+RSIF+R L+TA +S+ LQ+AAITILDGIS+ SLRLIDAM++TSDL TN+++VMAY
Sbjct 541 AGVIRSIFTRALDTANHSIPDLQRAAITILDGISEQSLRLIDAMVYTSDLLTNSVIVMAY 600
Query 421 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 480
+TGG+VQ +QWL+N+ GT +KLKPV W+E K G+EFLRD WEI+KF+ T +IV
Sbjct 601 VTGGLVQQITQWLSNMLGTTVDKLKPVFTWVEAKLSAGIEFLRDAWEILKFLVTGVFDIV 660
Query 481 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 540
GQI + +KE V+ F ++NK L +C D +II GAKL+ LNLGE F+ SKGLYR+C
Sbjct 661 KGQIQVASDNLKECVKAFLDVLNKALEMCIDQVIIAGAKLRTLNLGEVFIAQSKGLYRQC 720
Query 541 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 600
++ +E+ LLMPL+APKE+ F EG++ T +EEVVLK G+L+ LE P ++G
Sbjct 721 IRGKEQLQLLMPLRAPKEVTFFEGDSHDTVFTSEEVVLKNGELEALETPVDSFTNGAVIG 780
Query 601 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TPVC+NGLMLLE+KD E+YCAL+P ++ TNN F+LKGG
Sbjct 781 TPVCVNGLMLLELKDKEQYCALSPGLLATNNVFSLKGG 818
>sp|P0C6U8|R1A_SARS Replicase polyprotein 1a OS=Severe acute respiratory
syndrome coronavirus OX=694009 GN=1a PE=1 SV=1
Length=4382
Score = 956 bits (2470), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 436/638 (68%), Positives = 529/638 (83%), Gaps = 0/638 (0%)
Query 1 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
A TRYVDNNFCGPDGYPL+CIKD LARAGK+ CTLSEQLD+I++KRGVYCCR+HEHEIAW
Sbjct 181 AVTRYVDNNFCGPDGYPLDCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIAW 240
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 120
+TERS+KSYE QTPFEIK AKKFDTF GECP FVFPLNS +K IQPRVEKKK +GFMGRI
Sbjct 241 FTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI 300
Query 121 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 180
RSVYPVASP ECN M LSTLMKC+HC E SWQT DF+KATCE CGTENL EG TTCGYL
Sbjct 301 RSVYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEHCGTENLVIEGPTTCGYL 360
Query 181 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 240
P NAVVK+ CPAC + E+GPEHS+A+YHN S ++T LRKGGRT FGGCVF+YVGC+NK
Sbjct 361 PTNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKR 420
Query 241 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
AYWVPRASA+IG HTG+ G+ E LN++LLEIL +E+VNINIVGDF LNEE+AIILASF
Sbjct 421 AYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILASF 480
Query 301 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 360
SASTSAF++T+K LDYK+FK IVESCGN+KVTKGK KGAWNIG+Q+S+L+PL F S+A
Sbjct 481 SASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVKGAWNIGQQRSVLTPLCGFPSQA 540
Query 361 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 420
A V+RSIF+RTL+ A +S+ LQ+AA+TILDGIS+ SLRL+DAM++TSDL TN++++MAY
Sbjct 541 AGVIRSIFARTLDAANHSIPDLQRAAVTILDGISEQSLRLVDAMVYTSDLLTNSVIIMAY 600
Query 421 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 480
+TGG+VQ TSQWL+N+ GT EKL+P+ +W+E K GVEFL+D WEI+KF+ T +IV
Sbjct 601 VTGGLVQQTSQWLSNLLGTTVEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDIV 660
Query 481 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 540
GQI + IK+ V+ F +VNK L +C D + I GAKL++LNLGE F+ SKGLYR+C
Sbjct 661 KGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQC 720
Query 541 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 600
++ +E+ LLMPLKAPKE+ FLEG++ T + +EEVVLK G+L+ LE P +VG
Sbjct 721 IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIVG 780
Query 601 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TPVC+NGLMLLEIKD E+YCAL+P ++ TNN F LKGG
Sbjct 781 TPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFRLKGG 818
>sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute
respiratory syndrome coronavirus OX=694009 GN=rep PE=1 SV=1
Length=7073
Score = 954 bits (2465), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 436/638 (68%), Positives = 529/638 (83%), Gaps = 0/638 (0%)
Query 1 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
A TRYVDNNFCGPDGYPL+CIKD LARAGK+ CTLSEQLD+I++KRGVYCCR+HEHEIAW
Sbjct 181 AVTRYVDNNFCGPDGYPLDCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIAW 240
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 120
+TERS+KSYE QTPFEIK AKKFDTF GECP FVFPLNS +K IQPRVEKKK +GFMGRI
Sbjct 241 FTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI 300
Query 121 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 180
RSVYPVASP ECN M LSTLMKC+HC E SWQT DF+KATCE CGTENL EG TTCGYL
Sbjct 301 RSVYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEHCGTENLVIEGPTTCGYL 360
Query 181 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 240
P NAVVK+ CPAC + E+GPEHS+A+YHN S ++T LRKGGRT FGGCVF+YVGC+NK
Sbjct 361 PTNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKR 420
Query 241 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
AYWVPRASA+IG HTG+ G+ E LN++LLEIL +E+VNINIVGDF LNEE+AIILASF
Sbjct 421 AYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILASF 480
Query 301 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 360
SASTSAF++T+K LDYK+FK IVESCGN+KVTKGK KGAWNIG+Q+S+L+PL F S+A
Sbjct 481 SASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVKGAWNIGQQRSVLTPLCGFPSQA 540
Query 361 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 420
A V+RSIF+RTL+ A +S+ LQ+AA+TILDGIS+ SLRL+DAM++TSDL TN++++MAY
Sbjct 541 AGVIRSIFARTLDAANHSIPDLQRAAVTILDGISEQSLRLVDAMVYTSDLLTNSVIIMAY 600
Query 421 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 480
+TGG+VQ TSQWL+N+ GT EKL+P+ +W+E K GVEFL+D WEI+KF+ T +IV
Sbjct 601 VTGGLVQQTSQWLSNLLGTTVEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDIV 660
Query 481 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 540
GQI + IK+ V+ F +VNK L +C D + I GAKL++LNLGE F+ SKGLYR+C
Sbjct 661 KGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQC 720
Query 541 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 600
++ +E+ LLMPLKAPKE+ FLEG++ T + +EEVVLK G+L+ LE P +VG
Sbjct 721 IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIVG 780
Query 601 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TPVC+NGLMLLEIKD E+YCAL+P ++ TNN F LKGG
Sbjct 781 TPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFRLKGG 818
>sp|P0C6F8|R1A_BCHK3 Replicase polyprotein 1a OS=Bat coronavirus
HKU3 OX=442736 GN=1a PE=3 SV=1
Length=4376
Score = 951 bits (2458), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 440/636 (69%), Positives = 521/636 (82%), Gaps = 0/636 (0%)
Query 3 TRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYT 62
TRYVDNNFCGPDGYPLECIKD LARAGK+ CTLSEQLD+I++KRGVYCCREHEHEI W+T
Sbjct 183 TRYVDNNFCGPDGYPLECIKDFLARAGKSMCTLSEQLDYIESKRGVYCCREHEHEIVWFT 242
Query 63 ERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRS 122
ERSEKSYE QTPFEIK AKKFDTF GECP FVFPLNS +K IQPRVEKKK +GFMGRIRS
Sbjct 243 ERSEKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRIRS 302
Query 123 VYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYLPQ 182
VYPVA+P ECN M LSTLMKC+HC E SWQT DF+KATCE CGTENL EG TTCGYLP
Sbjct 303 VYPVATPQECNDMHLSTLMKCNHCDEVSWQTCDFLKATCEQCGTENLVCEGPTTCGYLPT 362
Query 183 NAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKCAY 242
NAVVK+ CPAC + EVGPEHS+A+YHN S ++T LRKGGRT FGGCVFSYVGC+NK AY
Sbjct 363 NAVVKMPCPACQDPEVGPEHSVADYHNHSNIETRLRKGGRTKCFGGCVFSYVGCYNKRAY 422
Query 243 WVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASFSA 302
WVPRASANIG NHTG+ GE E LN++LLEIL +E+VNINIVGDF+ NEE+AIILASFSA
Sbjct 423 WVPRASANIGANHTGITGENVETLNEDLLEILNRERVNINIVGDFRFNEEVAIILASFSA 482
Query 303 STSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEAAR 362
S SAF+ETVKGLDYK+FK IVESCGN+KVT GK GAWNIG+Q+SIL+PL F S+AA
Sbjct 483 SPSAFIETVKGLDYKSFKVIVESCGNYKVTNGKPVTGAWNIGQQRSILTPLCGFPSQAAG 542
Query 363 VVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAYIT 422
V+RSIFSRTL+ A +S+ LQ+AA+T LDGIS+ SLRL+DAM++TSDL TN++VVMAY+T
Sbjct 543 VIRSIFSRTLDAANHSILDLQRAAVTTLDGISEQSLRLVDAMVYTSDLLTNSVVVMAYVT 602
Query 423 GGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIVGG 482
GG+VQ T QWL+N+ GT +KLKPV W+E K GVEFLRD WEI+KF+ T +++ G
Sbjct 603 GGLVQQTMQWLSNMLGTAVDKLKPVFTWVEAKLSAGVEFLRDAWEILKFLITGVFDVIKG 662
Query 483 QIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKCVK 542
QI IKE V+ F +VNK L +C D + I G KL+ALNLGE F+ S+GLYR+C++
Sbjct 663 QIQVATDNIKECVKIFLGVVNKALEMCLDQVTIAGTKLRALNLGEVFIAQSRGLYRQCIR 722
Query 543 SREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTP 602
+E+ LLMPLKAPKE+ FLEG+ T + +EEVVLK+G+L+ LE P +VGTP
Sbjct 723 GKEQLQLLMPLKAPKEVTFLEGDAHDTVLTSEEVVLKSGELEALETPIDSFTSGAVVGTP 782
Query 603 VCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
VCINGLMLLE+++ E+YCAL+P ++ TNN F LKGG
Sbjct 783 VCINGLMLLELENKEQYCALSPGLLATNNVFRLKGG 818
>sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus
HKU3 OX=442736 GN=rep PE=3 SV=1
Length=7067
Score = 949 bits (2452), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 440/636 (69%), Positives = 521/636 (82%), Gaps = 0/636 (0%)
Query 3 TRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYT 62
TRYVDNNFCGPDGYPLECIKD LARAGK+ CTLSEQLD+I++KRGVYCCREHEHEI W+T
Sbjct 183 TRYVDNNFCGPDGYPLECIKDFLARAGKSMCTLSEQLDYIESKRGVYCCREHEHEIVWFT 242
Query 63 ERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRS 122
ERSEKSYE QTPFEIK AKKFDTF GECP FVFPLNS +K IQPRVEKKK +GFMGRIRS
Sbjct 243 ERSEKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRIRS 302
Query 123 VYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYLPQ 182
VYPVA+P ECN M LSTLMKC+HC E SWQT DF+KATCE CGTENL EG TTCGYLP
Sbjct 303 VYPVATPQECNDMHLSTLMKCNHCDEVSWQTCDFLKATCEQCGTENLVCEGPTTCGYLPT 362
Query 183 NAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKCAY 242
NAVVK+ CPAC + EVGPEHS+A+YHN S ++T LRKGGRT FGGCVFSYVGC+NK AY
Sbjct 363 NAVVKMPCPACQDPEVGPEHSVADYHNHSNIETRLRKGGRTKCFGGCVFSYVGCYNKRAY 422
Query 243 WVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASFSA 302
WVPRASANIG NHTG+ GE E LN++LLEIL +E+VNINIVGDF+ NEE+AIILASFSA
Sbjct 423 WVPRASANIGANHTGITGENVETLNEDLLEILNRERVNINIVGDFRFNEEVAIILASFSA 482
Query 303 STSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEAAR 362
S SAF+ETVKGLDYK+FK IVESCGN+KVT GK GAWNIG+Q+SIL+PL F S+AA
Sbjct 483 SPSAFIETVKGLDYKSFKVIVESCGNYKVTNGKPVTGAWNIGQQRSILTPLCGFPSQAAG 542
Query 363 VVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAYIT 422
V+RSIFSRTL+ A +S+ LQ+AA+T LDGIS+ SLRL+DAM++TSDL TN++VVMAY+T
Sbjct 543 VIRSIFSRTLDAANHSILDLQRAAVTTLDGISEQSLRLVDAMVYTSDLLTNSVVVMAYVT 602
Query 423 GGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIVGG 482
GG+VQ T QWL+N+ GT +KLKPV W+E K GVEFLRD WEI+KF+ T +++ G
Sbjct 603 GGLVQQTMQWLSNMLGTAVDKLKPVFTWVEAKLSAGVEFLRDAWEILKFLITGVFDVIKG 662
Query 483 QIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKCVK 542
QI IKE V+ F +VNK L +C D + I G KL+ALNLGE F+ S+GLYR+C++
Sbjct 663 QIQVATDNIKECVKIFLGVVNKALEMCLDQVTIAGTKLRALNLGEVFIAQSRGLYRQCIR 722
Query 543 SREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTP 602
+E+ LLMPLKAPKE+ FLEG+ T + +EEVVLK+G+L+ LE P +VGTP
Sbjct 723 GKEQLQLLMPLKAPKEVTFLEGDAHDTVLTSEEVVLKSGELEALETPIDSFTSGAVVGTP 782
Query 603 VCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
VCINGLMLLE+++ E+YCAL+P ++ TNN F LKGG
Sbjct 783 VCINGLMLLELENKEQYCALSPGLLATNNVFRLKGG 818
>sp|P0C6T7|R1A_BCRP3 Replicase polyprotein 1a OS=Bat coronavirus
Rp3/2004 OX=349344 GN=1a PE=3 SV=1
Length=4380
Score = 941 bits (2431), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 432/638 (68%), Positives = 523/638 (82%), Gaps = 0/638 (0%)
Query 1 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
A TRYVDNNFCGPDGYPLECIKDLLARAGK+ CTLSEQLD+I++KRGVYCCR+H HEIAW
Sbjct 181 ALTRYVDNNFCGPDGYPLECIKDLLARAGKSMCTLSEQLDYIESKRGVYCCRDHGHEIAW 240
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 120
+TERS+KSYE QTPFEIK AKKFDTF GECP FVFPLNS +K IQPRVEKKK +GFMGRI
Sbjct 241 FTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI 300
Query 121 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 180
RSVYPVA+P ECN M LSTLMKC+HC E SWQT DF+KATCE CGTENL EG TCGYL
Sbjct 301 RSVYPVATPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEQCGTENLVSEGPNTCGYL 360
Query 181 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 240
P NAVVK+ CPAC + E+GPEHS A+YHN S ++T LRKGGRT FGGCVF+YVGC+NK
Sbjct 361 PTNAVVKMPCPACQDPEIGPEHSAADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKR 420
Query 241 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
AYWVPRASA+IG HTG+ G+ E LN++LLEIL +E+VNINIVGDF+LNEE+AIILASF
Sbjct 421 AYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFQLNEEVAIILASF 480
Query 301 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 360
SASTSAF++T+K LDYK+FK IVESCGN+KVTKGK KGAWNIG+ +S+L+PL F S+A
Sbjct 481 SASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPIKGAWNIGQHRSVLTPLCGFPSQA 540
Query 361 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 420
A V+RSIFSRTL+ A +S+ LQ+AA+TILD IS+ SLRL+DAM++TS+L TN++++MAY
Sbjct 541 AGVIRSIFSRTLDAANHSIPDLQRAAVTILDSISEQSLRLVDAMVYTSNLLTNSVIIMAY 600
Query 421 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 480
+TGG+VQ TSQWL+N+ T EKL+P+ W+E K GVEFL+D WEI+KF+ T +IV
Sbjct 601 VTGGLVQQTSQWLSNLLDTTVEKLRPIFAWIEAKLSAGVEFLKDAWEILKFLITGVFDIV 660
Query 481 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 540
GQI + IK+ V+ F +VNK L +C D + I GAKL++LNLGE F+ SKGLYR+C
Sbjct 661 KGQIQVASDNIKDCVKCFVDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQC 720
Query 541 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 600
++ +E+ LLMPLKAPKE+ FLEG++ T + +EEVVLK G+L+ LE P +VG
Sbjct 721 IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAVVG 780
Query 601 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TPVCINGLMLLEIK E+YCAL+P ++ TNN F LKGG
Sbjct 781 TPVCINGLMLLEIKANEQYCALSPGLLATNNVFRLKGG 818
>sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus
Rp3/2004 OX=349344 GN=rep PE=3 SV=1
Length=7071
Score = 939 bits (2426), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 432/638 (68%), Positives = 523/638 (82%), Gaps = 0/638 (0%)
Query 1 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
A TRYVDNNFCGPDGYPLECIKDLLARAGK+ CTLSEQLD+I++KRGVYCCR+H HEIAW
Sbjct 181 ALTRYVDNNFCGPDGYPLECIKDLLARAGKSMCTLSEQLDYIESKRGVYCCRDHGHEIAW 240
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 120
+TERS+KSYE QTPFEIK AKKFDTF GECP FVFPLNS +K IQPRVEKKK +GFMGRI
Sbjct 241 FTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI 300
Query 121 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 180
RSVYPVA+P ECN M LSTLMKC+HC E SWQT DF+KATCE CGTENL EG TCGYL
Sbjct 301 RSVYPVATPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEQCGTENLVSEGPNTCGYL 360
Query 181 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 240
P NAVVK+ CPAC + E+GPEHS A+YHN S ++T LRKGGRT FGGCVF+YVGC+NK
Sbjct 361 PTNAVVKMPCPACQDPEIGPEHSAADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKR 420
Query 241 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
AYWVPRASA+IG HTG+ G+ E LN++LLEIL +E+VNINIVGDF+LNEE+AIILASF
Sbjct 421 AYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFQLNEEVAIILASF 480
Query 301 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 360
SASTSAF++T+K LDYK+FK IVESCGN+KVTKGK KGAWNIG+ +S+L+PL F S+A
Sbjct 481 SASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPIKGAWNIGQHRSVLTPLCGFPSQA 540
Query 361 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 420
A V+RSIFSRTL+ A +S+ LQ+AA+TILD IS+ SLRL+DAM++TS+L TN++++MAY
Sbjct 541 AGVIRSIFSRTLDAANHSIPDLQRAAVTILDSISEQSLRLVDAMVYTSNLLTNSVIIMAY 600
Query 421 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 480
+TGG+VQ TSQWL+N+ T EKL+P+ W+E K GVEFL+D WEI+KF+ T +IV
Sbjct 601 VTGGLVQQTSQWLSNLLDTTVEKLRPIFAWIEAKLSAGVEFLKDAWEILKFLITGVFDIV 660
Query 481 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 540
GQI + IK+ V+ F +VNK L +C D + I GAKL++LNLGE F+ SKGLYR+C
Sbjct 661 KGQIQVASDNIKDCVKCFVDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQC 720
Query 541 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 600
++ +E+ LLMPLKAPKE+ FLEG++ T + +EEVVLK G+L+ LE P +VG
Sbjct 721 IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAVVG 780
Query 601 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TPVCINGLMLLEIK E+YCAL+P ++ TNN F LKGG
Sbjct 781 TPVCINGLMLLEIKANEQYCALSPGLLATNNVFRLKGG 818
>sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus
HKU4 OX=694007 GN=rep PE=1 SV=1
Length=7119
Score = 109 bits (273), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 154/670 (23%), Positives = 278/670 (41%), Gaps = 59/670 (9%)
Query 6 VDNNFCGPDGYPLECIKDLLARAGKASCTLSE-QLDF---IDTKRGVYCCREHEHEIAWY 61
+D CG +G P+ ++A+ G TL++ ++D +D+ R + + + + W
Sbjct 200 IDQYMCGKNGKPIADYAKIVAKEGLT--TLADIEVDVKSRMDSDRFI-VLNKKLYRVVWN 256
Query 62 TERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIR 121
R Y QT F I + D P F + S I + P ++ F + R
Sbjct 257 VTRRNVPYPKQTAFTIVSVVQCDD-KDSVPEHTFTIGSQILMVSP-LKATNNKNFNLKQR 314
Query 122 SVYPVASPNECNQ---MCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKE-GATTC 177
+Y + Q + S + C+ CG +W TG+ ++ CG + +
Sbjct 315 LLYTFYGKDAVQQPGYIYHSAYVDCNACGRGTWCTGNAIQGFACDCGANYSANDVDLQSS 374
Query 178 GYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGR--TIAFGGCVFSYVG 235
G +P+NA+ CP +N HS A+ +N K + GG+ T+ FGG V++Y+G
Sbjct 375 GLVPRNALFLANCPCANNGAC--SHSAAQVYNILDGKACVEVGGKSFTLTFGGVVYAYMG 432
Query 236 CHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLE----ILQKEKVNINIVGDFKLNE 291
C + Y+VPRA + + + G G D ++E L+K + ++N F L E
Sbjct 433 CCDGTMYFVPRAKSCVS-RIGDAIFTGCTGTWDKVVETANLFLEKAQRSLNFCQQFALTE 491
Query 292 EIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGN--FKVTKGKAKKGAWNIGE---- 345
++LA S +TS F E +++++ + N F VT G + A NIG
Sbjct 492 ---VVLAILSGTTSTFEELRDLCHNASYEKVRDHLVNHGFVVTIGDYIRDAINIGANGVC 548
Query 346 QKSILSPLYAFA--SEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDA 403
+I +P AF E+ + V +I + N L + I+ + Y + D
Sbjct 549 NATINAPFIAFTGLGESFKKVSAI---PWKICSNLKSALDYYSSNIMFRVFPYDIP-CDV 604
Query 404 MMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYE----KLKPVLDWLEEKFKEGV 459
F L + +A + V++ + + GTV L L+ +
Sbjct 605 SNFVELLLDCGKLTVA-TSYFVLRYLDEKFDTVLGTVSSACQTALSSFLNACVAASRATA 663
Query 460 EFLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAK 519
F+ D +++ K + V A+ + VQ +++K + L ++ G K
Sbjct 664 GFINDMFKLFKVLMHKLYVYTSCGYVAVAEHSSKIVQQVLDIMSKAMKLLHTNVSWAGTK 723
Query 520 LKALNL-GETFVTHSKGLYRKCVKSREET-----GLLMPLKAPKEIIFL-----EGETLP 568
L A+ G + + G Y C+ ++ +T L++P K+ + + +T+
Sbjct 724 LSAIIYEGREALLFNSGTYF-CLSTKAKTLQGQMNLVLPGDYNKKTLGILDPVPNADTID 782
Query 569 TEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMV 628
+ V + G L +PT+E + +VG V ++ + + +D E Y L N V
Sbjct 783 VNANSTVVDVVHGQL----EPTNEHGPSMIVGNYVLVSDKLFVRTEDEEFY-PLCTNGKV 837
Query 629 TNNTFTLKGG 638
+ F LKGG
Sbjct 838 VSTLFRLKGG 847
>sp|P0C6T4|R1A_BCHK4 Replicase polyprotein 1a OS=Bat coronavirus
HKU4 OX=694007 GN=1a PE=1 SV=1
Length=4434
Score = 109 bits (272), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 154/670 (23%), Positives = 278/670 (41%), Gaps = 59/670 (9%)
Query 6 VDNNFCGPDGYPLECIKDLLARAGKASCTLSE-QLDF---IDTKRGVYCCREHEHEIAWY 61
+D CG +G P+ ++A+ G TL++ ++D +D+ R + + + + W
Sbjct 200 IDQYMCGKNGKPIADYAKIVAKEGLT--TLADIEVDVKSRMDSDRFI-VLNKKLYRVVWN 256
Query 62 TERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIR 121
R Y QT F I + D P F + S I + P ++ F + R
Sbjct 257 VTRRNVPYPKQTAFTIVSVVQCDD-KDSVPEHTFTIGSQILMVSP-LKATNNKNFNLKQR 314
Query 122 SVYPVASPNECNQ---MCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKE-GATTC 177
+Y + Q + S + C+ CG +W TG+ ++ CG + +
Sbjct 315 LLYTFYGKDAVQQPGYIYHSAYVDCNACGRGTWCTGNAIQGFACDCGANYSANDVDLQSS 374
Query 178 GYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGR--TIAFGGCVFSYVG 235
G +P+NA+ CP +N HS A+ +N K + GG+ T+ FGG V++Y+G
Sbjct 375 GLVPRNALFLANCPCANNGAC--SHSAAQVYNILDGKACVEVGGKSFTLTFGGVVYAYMG 432
Query 236 CHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLE----ILQKEKVNINIVGDFKLNE 291
C + Y+VPRA + + + G G D ++E L+K + ++N F L E
Sbjct 433 CCDGTMYFVPRAKSCVS-RIGDAIFTGCTGTWDKVVETANLFLEKAQRSLNFCQQFALTE 491
Query 292 EIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGN--FKVTKGKAKKGAWNIGE---- 345
++LA S +TS F E +++++ + N F VT G + A NIG
Sbjct 492 ---VVLAILSGTTSTFEELRDLCHNASYEKVRDHLVNHGFVVTIGDYIRDAINIGANGVC 548
Query 346 QKSILSPLYAFA--SEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDA 403
+I +P AF E+ + V +I + N L + I+ + Y + D
Sbjct 549 NATINAPFIAFTGLGESFKKVSAI---PWKICSNLKSALDYYSSNIMFRVFPYDIP-CDV 604
Query 404 MMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYE----KLKPVLDWLEEKFKEGV 459
F L + +A + V++ + + GTV L L+ +
Sbjct 605 SNFVELLLDCGKLTVA-TSYFVLRYLDEKFDTVLGTVSSACQTALSSFLNACVAASRATA 663
Query 460 EFLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAK 519
F+ D +++ K + V A+ + VQ +++K + L ++ G K
Sbjct 664 GFINDMFKLFKVLMHKLYVYTSCGYVAVAEHSSKIVQQVLDIMSKAMKLLHTNVSWAGTK 723
Query 520 LKALNL-GETFVTHSKGLYRKCVKSREET-----GLLMPLKAPKEIIFL-----EGETLP 568
L A+ G + + G Y C+ ++ +T L++P K+ + + +T+
Sbjct 724 LSAIIYEGREALLFNSGTYF-CLSTKAKTLQGQMNLVLPGDYNKKTLGILDPVPNADTID 782
Query 569 TEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMV 628
+ V + G L +PT+E + +VG V ++ + + +D E Y L N V
Sbjct 783 VNANSTVVDVVHGQL----EPTNEHGPSMIVGNYVLVSDKLFVRTEDEEFY-PLCTNGKV 837
Query 629 TNNTFTLKGG 638
+ F LKGG
Sbjct 838 VSTLFRLKGG 847
>sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus
HKU5 OX=694008 GN=rep PE=3 SV=1
Length=7182
Score = 109 bits (272), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 150/674 (22%), Positives = 285/674 (42%), Gaps = 63/674 (9%)
Query 6 VDNNFCGPDGYPLECIKDLLARAG--KASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTE 63
+D CG +G P+ L+A G K + +E D+ R + + + I W +
Sbjct 200 IDQYMCGKNGKPIAEFAALMASEGITKLADVEAEVKSRTDSDRYI-VFKNKLYRIVWNVQ 258
Query 64 RSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRSV 123
R + +Y Q+ F + + DT + P F + S I+ I P + + R +
Sbjct 259 RKDVAYSKQSAFTMNSIVQLDTME-DVPRHSFTIGSEIQVIAPSTAVQANGHLNLKQRLL 317
Query 124 YPV---ASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKE-GATTCGY 179
Y + +E N + S + C CG+ SW TG+ V+ CG + + G
Sbjct 318 YAFYGKQAVSEPNYIYHSAYVDCTSCGKGSWLTGNAVQGFACDCGAHYCANDVDLQSSGL 377
Query 180 LPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRT--IAFGGCVFSYVGCH 237
+ +NAV+ CP + E +H+L + + K + G+T + +GG +++Y+GC
Sbjct 378 VRKNAVLLTTCPCNKDGEC--KHTLPQLVSMMTDKCDVEVVGKTFILTYGGVIYAYMGCS 435
Query 238 NKCAYWVPRASANIG----CNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEI 293
+++PRA + + TG G S+ L L++ + IN V +F L E +
Sbjct 436 GGTMHFIPRAKSCVSKIGDAIFTGCTGTWSKVCETANL-FLERAQHAINFVNEFVLTETV 494
Query 294 AIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGE----QKSI 349
+L+ ++S + + ++ + + G + VT G +G N+G ++
Sbjct 495 VALLSGTTSSIEELRDLCRNATFEKVRDYLTPRG-WIVTMGSYIEGVINVGAAGVCNAAL 553
Query 350 LSPLY-------AFASEAARVVR--SIFSRTLETAQNSV--RVLQKAAITILDGISQYSL 398
+P +F AA + S TL+ +S+ RV I ++ Y+
Sbjct 554 NAPFIVLSGLGESFKKVAATPWKLCSSLRETLDHYADSITYRVF---PYDIPCDVTDYTA 610
Query 399 RLIDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEG 458
L+D + T A V Y+ V QLT+ +F + + + +K
Sbjct 611 LLLDCAVLTGASA---YFVARYVDEKVEQLTNL----VFSSCQSAVAAFVQACMSTYKAT 663
Query 459 VEFLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGA 518
+F+ D + ++K +S V + ++ F +++K + L ++ G+
Sbjct 664 AKFISDMFTLIKVVSERLYVYTSVGFVVVGDYSSQLLKQFMHILSKAMQLLHTTVSWAGS 723
Query 519 KLKAL--NLGETFVTHSKGLYRKCVKS-----REETGLLMPLK-APKEIIFLE----GET 566
KL ++ N ++ V S Y CV + +++ L++P + K+I LE T
Sbjct 724 KLPSVVYNGRDSLVFPSGTYY--CVSTQGRSLQDQFDLVIPGDLSKKQIGILEPTPNSTT 781
Query 567 LPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCI-NGLMLLEIKDTEK-YCALAP 624
+ ++ T V + G L+P ++ + E V VG V I N + + ++D+E + L
Sbjct 782 VDKKINTNVVEVVVGQLEPTKEHSPELV----VGDYVIISNKIFVRSVEDSETVFYPLCT 837
Query 625 NMMVTNNTFTLKGG 638
+ + F LKGG
Sbjct 838 DGKIVPTLFRLKGG 851
>sp|P0C6T5|R1A_BCHK5 Replicase polyprotein 1a OS=Bat coronavirus
HKU5 OX=694008 GN=1a PE=3 SV=1
Length=4481
Score = 108 bits (271), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 150/674 (22%), Positives = 285/674 (42%), Gaps = 63/674 (9%)
Query 6 VDNNFCGPDGYPLECIKDLLARAG--KASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTE 63
+D CG +G P+ L+A G K + +E D+ R + + + I W +
Sbjct 200 IDQYMCGKNGKPIAEFAALMASEGITKLADVEAEVKSRTDSDRYI-VFKNKLYRIVWNVQ 258
Query 64 RSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRSV 123
R + +Y Q+ F + + DT + P F + S I+ I P + + R +
Sbjct 259 RKDVAYSKQSAFTMNSIVQLDTME-DVPRHSFTIGSEIQVIAPSTAVQANGHLNLKQRLL 317
Query 124 YPV---ASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKE-GATTCGY 179
Y + +E N + S + C CG+ SW TG+ V+ CG + + G
Sbjct 318 YAFYGKQAVSEPNYIYHSAYVDCTSCGKGSWLTGNAVQGFACDCGAHYCANDVDLQSSGL 377
Query 180 LPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRT--IAFGGCVFSYVGCH 237
+ +NAV+ CP + E +H+L + + K + G+T + +GG +++Y+GC
Sbjct 378 VRKNAVLLTTCPCNKDGEC--KHTLPQLVSMMTDKCDVEVVGKTFILTYGGVIYAYMGCS 435
Query 238 NKCAYWVPRASANIG----CNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEI 293
+++PRA + + TG G S+ L L++ + IN V +F L E +
Sbjct 436 GGTMHFIPRAKSCVSKIGDAIFTGCTGTWSKVCETANL-FLERAQHAINFVNEFVLTETV 494
Query 294 AIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGE----QKSI 349
+L+ ++S + + ++ + + G + VT G +G N+G ++
Sbjct 495 VALLSGTTSSIEELRDLCRNATFEKVRDYLTPRG-WIVTMGSYIEGVINVGAAGVCNAAL 553
Query 350 LSPLY-------AFASEAARVVR--SIFSRTLETAQNSV--RVLQKAAITILDGISQYSL 398
+P +F AA + S TL+ +S+ RV I ++ Y+
Sbjct 554 NAPFIVLSGLGESFKKVAATPWKLCSSLRETLDHYADSITYRVF---PYDIPCDVTDYTA 610
Query 399 RLIDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEG 458
L+D + T A V Y+ V QLT+ +F + + + +K
Sbjct 611 LLLDCAVLTGASA---YFVARYVDEKVEQLTNL----VFSSCQSAVAAFVQACMSTYKAT 663
Query 459 VEFLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGA 518
+F+ D + ++K +S V + ++ F +++K + L ++ G+
Sbjct 664 AKFISDMFTLIKVVSERLYVYTSVGFVVVGDYSSQLLKQFMHILSKAMQLLHTTVSWAGS 723
Query 519 KLKAL--NLGETFVTHSKGLYRKCVKS-----REETGLLMPLK-APKEIIFLE----GET 566
KL ++ N ++ V S Y CV + +++ L++P + K+I LE T
Sbjct 724 KLPSVVYNGRDSLVFPSGTYY--CVSTQGRSLQDQFDLVIPGDLSKKQIGILEPTPNSTT 781
Query 567 LPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCI-NGLMLLEIKDTEK-YCALAP 624
+ ++ T V + G L+P ++ + E V VG V I N + + ++D+E + L
Sbjct 782 VDKKINTNVVEVVVGQLEPTKEHSPELV----VGDYVIISNKIFVRSVEDSETVFYPLCT 837
Query 625 NMMVTNNTFTLKGG 638
+ + F LKGG
Sbjct 838 DGKIVPTLFRLKGG 851
>sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus
133/2005 OX=389230 GN=rep PE=3 SV=1
Length=7126
Score = 102 bits (253), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 149/668 (22%), Positives = 272/668 (41%), Gaps = 55/668 (8%)
Query 6 VDNNFCGPDGYPLECIKDLLARAGKASCTLSE-QLDF---IDTKRGVYCCREHEHEIAWY 61
VD CG +G P+ ++A+ G TL++ ++D +D+ R + + + + W
Sbjct 200 VDQYMCGKNGKPIADYAKIVAKEGLT--TLADIEVDVKSRMDSDRFI-VLNKKLYRVVWN 256
Query 62 TERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQP--RVEKKKLDGFMGR 119
R Y QT F + + D P F + S I + P K +
Sbjct 257 VTRRNVPYSKQTAFTVVSVIQCDD-KESVPEHTFTIGSQILMVSPLKATNNKNFNLKQRL 315
Query 120 IRSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKE-GATTCG 178
+ + Y + + + S + C+ CG +W TG+ ++ CG + + G
Sbjct 316 LHTFYGKEAVQQPGYIYHSAYVDCNACGRGTWCTGNAIQGFACDCGANYSANDVDLQSSG 375
Query 179 YLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGR--TIAFGGCVFSYVGC 236
+P+NA+ CP +N H+ A+ ++ K + GG+ T+ FGG V++Y+GC
Sbjct 376 LVPKNALFLANCPCANNGAC--SHNAAQVYSILDGKACVEVGGKSFTLTFGGVVYAYMGC 433
Query 237 HNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLE----ILQKEKVNINIVGDFKLNEE 292
+ Y+VPRA + + + G G D ++E L+K + ++N F L E
Sbjct 434 CDGTMYFVPRAKSCVS-RIGDAIFTGCTGTWDKVVETANLFLEKAQHSLNFCQQFALTE- 491
Query 293 IAIILASFSASTSAFVETVKGLDYKAFKQIVESCGN--FKVTKGKAKKGAWNIGE----Q 346
++LA S +TS F E +++++ + N F VT G + A NIG
Sbjct 492 --VVLAILSGTTSTFEELRDLCHNASYEKVRDHLVNHGFVVTIGDYIRDAINIGANGVCN 549
Query 347 KSILSPLYAFA--SEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAM 404
+I +P AF E+ + V +I + N L I+ + Y + D
Sbjct 550 ATINAPFIAFTGLGESFKKVAAI---PWKICSNLKSALDYYCSNIMFRVFPYDIP-CDVN 605
Query 405 MFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYE----KLKPVLDWLEEKFKEGVE 460
F L + +A + V++ + + GTV L L+ +
Sbjct 606 DFVELLLDCGKLTVA-TSYFVLRYLDEKFDTVLGTVSNACQTALSSFLNACVAASRATAG 664
Query 461 FLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKL 520
F+ D +++ K + V A+ + VQ +++K + L ++ G KL
Sbjct 665 FISDMFKLFKVLMHKLYVYTSCGYVAVAEHSSKIVQQVLDIMSKAMKLLHTNVSWAGTKL 724
Query 521 KALNL-GETFVTHSKGLY----RKCVKSREETGLLMPLKAPKEIIFL-----EGETLPTE 570
A+ G + + G Y K +++ L++P K+ + + +T+
Sbjct 725 SAIIYEGREALLFNSGTYFCLSTKAKTLQDQMNLVLPGDYNKKTLGILDPVPNADTIDVT 784
Query 571 VLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMVTN 630
+ V + G L +PT+E + +VG V ++ + + D E Y L N V +
Sbjct 785 ANSTVVDVVHGQL----EPTNEHGPSMIVGNYVLVSDKLFVRTDDEEFY-PLCINGKVVS 839
Query 631 NTFTLKGG 638
F LKGG
Sbjct 840 TLFRLKGG 847
>sp|P0C6F7|R1A_BC133 Replicase polyprotein 1a OS=Bat coronavirus
133/2005 OX=389230 GN=1a PE=3 SV=1
Length=4441
Score = 101 bits (252), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 149/668 (22%), Positives = 272/668 (41%), Gaps = 55/668 (8%)
Query 6 VDNNFCGPDGYPLECIKDLLARAGKASCTLSE-QLDF---IDTKRGVYCCREHEHEIAWY 61
VD CG +G P+ ++A+ G TL++ ++D +D+ R + + + + W
Sbjct 200 VDQYMCGKNGKPIADYAKIVAKEGLT--TLADIEVDVKSRMDSDRFI-VLNKKLYRVVWN 256
Query 62 TERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQP--RVEKKKLDGFMGR 119
R Y QT F + + D P F + S I + P K +
Sbjct 257 VTRRNVPYSKQTAFTVVSVIQCDD-KESVPEHTFTIGSQILMVSPLKATNNKNFNLKQRL 315
Query 120 IRSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKE-GATTCG 178
+ + Y + + + S + C+ CG +W TG+ ++ CG + + G
Sbjct 316 LHTFYGKEAVQQPGYIYHSAYVDCNACGRGTWCTGNAIQGFACDCGANYSANDVDLQSSG 375
Query 179 YLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGR--TIAFGGCVFSYVGC 236
+P+NA+ CP +N H+ A+ ++ K + GG+ T+ FGG V++Y+GC
Sbjct 376 LVPKNALFLANCPCANNGAC--SHNAAQVYSILDGKACVEVGGKSFTLTFGGVVYAYMGC 433
Query 237 HNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLE----ILQKEKVNINIVGDFKLNEE 292
+ Y+VPRA + + + G G D ++E L+K + ++N F L E
Sbjct 434 CDGTMYFVPRAKSCVS-RIGDAIFTGCTGTWDKVVETANLFLEKAQHSLNFCQQFALTE- 491
Query 293 IAIILASFSASTSAFVETVKGLDYKAFKQIVESCGN--FKVTKGKAKKGAWNIGE----Q 346
++LA S +TS F E +++++ + N F VT G + A NIG
Sbjct 492 --VVLAILSGTTSTFEELRDLCHNASYEKVRDHLVNHGFVVTIGDYIRDAINIGANGVCN 549
Query 347 KSILSPLYAFA--SEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAM 404
+I +P AF E+ + V +I + N L I+ + Y + D
Sbjct 550 ATINAPFIAFTGLGESFKKVAAI---PWKICSNLKSALDYYCSNIMFRVFPYDIP-CDVN 605
Query 405 MFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYE----KLKPVLDWLEEKFKEGVE 460
F L + +A + V++ + + GTV L L+ +
Sbjct 606 DFVELLLDCGKLTVA-TSYFVLRYLDEKFDTVLGTVSNACQTALSSFLNACVAASRATAG 664
Query 461 FLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKL 520
F+ D +++ K + V A+ + VQ +++K + L ++ G KL
Sbjct 665 FISDMFKLFKVLMHKLYVYTSCGYVAVAEHSSKIVQQVLDIMSKAMKLLHTNVSWAGTKL 724
Query 521 KALNL-GETFVTHSKGLY----RKCVKSREETGLLMPLKAPKEIIFL-----EGETLPTE 570
A+ G + + G Y K +++ L++P K+ + + +T+
Sbjct 725 SAIIYEGREALLFNSGTYFCLSTKAKTLQDQMNLVLPGDYNKKTLGILDPVPNADTIDVT 784
Query 571 VLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMVTN 630
+ V + G L +PT+E + +VG V ++ + + D E Y L N V +
Sbjct 785 ANSTVVDVVHGQL----EPTNEHGPSMIVGNYVLVSDKLFVRTDDEEFY-PLCINGKVVS 839
Query 631 NTFTLKGG 638
F LKGG
Sbjct 840 TLFRLKGG 847
>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 = 92.4 bits (228), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 119/556 (21%), Positives = 222/556 (40%), Gaps = 61/556 (11%)
Query 6 VDNNFCGPDGYPLECIKDLLARAG-----KASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
VD CG DG P+ L+A+ G ++ + D G + + + + W
Sbjct 198 VDQYMCGVDGKPISAYAFLMAKDGITKLADVEADVAARAD----DEGFITLKNNLYRLVW 253
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPR----------VEK 110
+ ER + Y Q+ F I + D P++ F L I T+ PR +++
Sbjct 254 HVERKDVPYPKQSIFTINSVVQKDGVENTPPHY-FTLGCKILTLTPRNKWSGVSDLSLKQ 312
Query 111 KKLDGFMGRIRSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLT 170
K L F G+ S + S ++C CG SW TG+ ++ CG
Sbjct 313 KLLYTFYGK-------ESLENPTYIYHSAFIECGSCGNDSWLTGNAIQGFACGCGASYTA 365
Query 171 KE-GATTCGYLPQNAVVKIYCPACHNSEVGP--EHSLAE---YHNESGLKTILRKGGRTI 224
+ + G + NA++ CP +HS+A+ Y +E I T+
Sbjct 366 NDVEVQSSGMIKPNALLCATCPFAKGDSCSSNCKHSVAQLVSYLSER-CNVIADSKSFTL 424
Query 225 AFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEI----LQKEKVN 280
FGG ++Y GC Y+VPRA + + + G G + + +I L++ + +
Sbjct 425 IFGGVAYAYFGCEEGTMYFVPRAKSVVSRIGDSIF-TGCTGSWNKVTQIANMFLEQTQHS 483
Query 281 INIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGA 340
+N VG+F +N+ + IL+ + + + +KG+ + + + VT G A
Sbjct 484 LNFVGEFVVNDVVLAILSGTTTNVDKIRQLLKGVTLDKLRDYLADY-DVAVTAGPFMDNA 542
Query 341 WNIG----EQKSILSPLYAFA--SEAARVVRSIFSRTLETAQNSV-----RVLQKAAITI 389
N+G + +I +P E+ + V +I + + ++++ VL +
Sbjct 543 INVGGTGLQYAAITAPYVVLTGLGESFKKVATIPYKVCNSVKDTLTYYAHSVLYRVFPYD 602
Query 390 LD-GISQYSLRLIDAMMFTSDLATNNLVVMAYITGGVVQ-LTSQWLTNIFGTVYEKLKPV 447
+D G+S +S L D + DL+ V Y ++Q T +++ I + + +
Sbjct 603 MDSGVSSFSELLFDCV----DLS----VASTYFLVRLLQDKTGDFMSTIITSCQTAVSKL 654
Query 448 LDWLEEKFKEGVEFLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLA 507
LD E + FL D + + A V ++ V+ L+NK +
Sbjct 655 LDTCFEATEATFNFLLDLAGLFRIFLRNAYVYTSQGFVVVNGKVSTLVKQVLDLLNKGMQ 714
Query 508 LCADSIIIGGAKLKAL 523
L + G+ + A+
Sbjct 715 LLHTKVSWAGSNISAV 730
>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 = 92.0 bits (227), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 122/559 (22%), Positives = 223/559 (40%), Gaps = 67/559 (12%)
Query 6 VDNNFCGPDGYPLECIKDLLARAG-----KASCTLSEQLD---FIDTKRGVYCCREHEHE 57
VD CG DG P+ L+A+ G ++ + D FI K +Y
Sbjct 198 VDQYMCGVDGKPISAYAFLMAKDGITKLADVEADVAARADDEGFITLKNNLY-------R 250
Query 58 IAWYTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPR---------- 107
+ W+ ER + Y Q+ F I + D P++ F L I T+ PR
Sbjct 251 LVWHVERKDVPYPKQSIFTINSVVQKDGVENTPPHY-FTLGCKILTLTPRNKWSGVSDLS 309
Query 108 VEKKKLDGFMGRIRSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTE 167
+++K L F G+ S + S ++C CG SW TG+ ++ CG
Sbjct 310 LKQKLLYTFYGK-------ESLENPTYIYHSAFIECGSCGNDSWLTGNAIQGFACGCGAS 362
Query 168 NLTKE-GATTCGYLPQNAVVKIYCPACHNSEVGP--EHSLAE---YHNESGLKTILRKGG 221
+ + G + NA++ CP +HS+A+ Y +E I
Sbjct 363 YTANDVEVQSSGMIKPNALLCATCPFAKGDSCSSNCKHSVAQLVSYLSER-CNVIADSKS 421
Query 222 RTIAFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEI----LQKE 277
T+ FGG ++Y GC Y+VPRA + + + G G + + +I L++
Sbjct 422 FTLIFGGVAYAYFGCEEGTMYFVPRAKSVVSRIGDSIF-TGCTGSWNKVTQIANMFLEQT 480
Query 278 KVNINIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAK 337
+ ++N VG+F +N+ + IL+ + + + +KG+ + + + VT G
Sbjct 481 QHSLNFVGEFVVNDVVLAILSGTTTNVDKIRQLLKGVTLDKLRDYLADY-DVAVTAGPFM 539
Query 338 KGAWNIG----EQKSILSPLYAFA--SEAARVVRSIFSRTLETAQNSV-----RVLQKAA 386
A N+G + +I +P E+ + V +I + + ++++ VL +
Sbjct 540 DNAINVGGTGLQYAAITAPYVVLTGLGESFKKVATIPYKVCNSVKDTLTYYAHSVLYRVF 599
Query 387 ITILD-GISQYSLRLIDAMMFTSDLATNNLVVMAYITGGVVQ-LTSQWLTNIFGTVYEKL 444
+D G+S +S L D + DL+ V Y ++Q T +++ I + +
Sbjct 600 PYDMDSGVSSFSELLFDCV----DLS----VASTYFLVRLLQDKTGDFMSTIITSCQTAV 651
Query 445 KPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNK 504
+LD E + FL D + + A V ++ V+ L+NK
Sbjct 652 SKLLDTCFEATEATFNFLLDLAGLFRIFLRNAYVYTSQGFVVVNGKVSTLVKQVLDLLNK 711
Query 505 FLALCADSIIIGGAKLKAL 523
+ L + G+ + A+
Sbjct 712 GMQLLHTKVSWAGSNISAV 730
>sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus
HKU9 OX=694006 GN=rep PE=1 SV=1
Length=6930
Score = 60.8 bits (146), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 99/457 (22%), Positives = 174/457 (38%), Gaps = 78/457 (17%)
Query 141 MKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYLPQNAVVKIYCPACHNSEVGP 200
+KC +C W + CG E + ++C V+K P C
Sbjct 310 LKCSYCDYYGWTPLKDIGTVNCLCGAE---FQLTSSCVDAESAGVIK---PGC------- 356
Query 201 EHSLAEYHNESGLKTILRKGGRT-IAFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVV 259
+ G++ I G RT ++FGG ++S +G N WVPRA + + H+G V
Sbjct 357 ---VMLLDKSPGMRLI--PGNRTYVSFGGAIWSPIGKVNGVTVWVPRAYSIVAGEHSGAV 411
Query 260 GEGSE-GLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASFSASTSA----FVETVKGL 314
G G +N L+E L + I + D N A +A+ T A VE+++GL
Sbjct 412 GSGDTVAINKELVEYLIE---GIRVDADTLDNPTCATFIANLDCDTKAPVVHTVESLQGL 468
Query 315 DYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEAARVVRSIFSRTLET 374
C K+ G E + L A+ + A ++ SRT E
Sbjct 469 -----------CLANKIMLGDKPLPT---DEFHPFIVGL-AYHVQRACWYGALASRTFEA 513
Query 375 AQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLT 434
++ VR ++ +Q+ ++ + N V +AY TG V ++ +
Sbjct 514 FRDFVRTEEER-------FAQFFGKVCAPI--------NGCVYLAYTTGRVTLFSAYQVL 558
Query 435 N------------IFGTVYEKLKPVLDWLEEKFKEGVEFLRDGW----EIVKFISTCACE 478
N + V + LKP+L+W+ +K + + W E + +
Sbjct 559 NTAIAKSKDAFGGVAAIVVDMLKPILEWVLKK----MSIAKGAWLPYAEGLLALFKAQFT 614
Query 479 IVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYR 538
+V G+ + + L+ ++ S+ G K+ AL G + KG+
Sbjct 615 VVKGKFQFLRASLNSKCHSLCDLLTTIMSKLLTSVKWAGCKVDALYTGTYYYFSRKGVLT 674
Query 539 KCVKSREETGLLM-PLKAPKEIIFLEGETLPTEVLTE 574
+ + GLL+ P + E+ L+G+ LT+
Sbjct 675 EVQLCAKRLGLLLTPKQQKMEVEVLDGDFDAPVTLTD 711
>sp|P0C6T6|R1A_BCHK9 Replicase polyprotein 1a OS=Bat coronavirus
HKU9 OX=694006 GN=1a PE=3 SV=1
Length=4248
Score = 60.5 bits (145), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 99/457 (22%), Positives = 174/457 (38%), Gaps = 78/457 (17%)
Query 141 MKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYLPQNAVVKIYCPACHNSEVGP 200
+KC +C W + CG E + ++C V+K P C
Sbjct 310 LKCSYCDYYGWTPLKDIGTVNCLCGAE---FQLTSSCVDAESAGVIK---PGC------- 356
Query 201 EHSLAEYHNESGLKTILRKGGRT-IAFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVV 259
+ G++ I G RT ++FGG ++S +G N WVPRA + + H+G V
Sbjct 357 ---VMLLDKSPGMRLI--PGNRTYVSFGGAIWSPIGKVNGVTVWVPRAYSIVAGEHSGAV 411
Query 260 GEGSE-GLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASFSASTSA----FVETVKGL 314
G G +N L+E L + I + D N A +A+ T A VE+++GL
Sbjct 412 GSGDTVAINKELVEYLIE---GIRVDADTLDNPTCATFIANLDCDTKAPVVHTVESLQGL 468
Query 315 DYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEAARVVRSIFSRTLET 374
C K+ G E + L A+ + A ++ SRT E
Sbjct 469 -----------CLANKIMLGDKPLPT---DEFHPFIVGL-AYHVQRACWYGALASRTFEA 513
Query 375 AQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLT 434
++ VR ++ +Q+ ++ + N V +AY TG V ++ +
Sbjct 514 FRDFVRTEEER-------FAQFFGKVCAPI--------NGCVYLAYTTGRVTLFSAYQVL 558
Query 435 N------------IFGTVYEKLKPVLDWLEEKFKEGVEFLRDGW----EIVKFISTCACE 478
N + V + LKP+L+W+ +K + + W E + +
Sbjct 559 NTAIAKSKDAFGGVAAIVVDMLKPILEWVLKK----MSIAKGAWLPYAEGLLALFKAQFT 614
Query 479 IVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYR 538
+V G+ + + L+ ++ S+ G K+ AL G + KG+
Sbjct 615 VVKGKFQFLRASLNSKCHSLCDLLTTIMSKLLTSVKWAGCKVDALYTGTYYYFSRKGVLT 674
Query 539 KCVKSREETGLLM-PLKAPKEIIFLEGETLPTEVLTE 574
+ + GLL+ P + E+ L+G+ LT+
Sbjct 675 EVQLCAKRLGLLLTPKQQKMEVEVLDGDFDAPVTLTD 711
>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 = 37.7 bits (86), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 94/413 (23%), Positives = 134/413 (32%), Gaps = 95/413 (23%)
Query 5 YVDNNFCGPDGYPL--ECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYT 62
YVD CG DG P+ KD D I+ + Y C AW T
Sbjct 113 YVDQYMCGADGKPVIEGDFKDYFGDE-----------DIIEFEGEEYHC-------AWTT 154
Query 63 ERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRS 122
R EK QT F I+ + +N + P+ P N + + P V+K +
Sbjct 155 VRDEKPLNQQTLFTIQEIQ----YNLDIPH-KLP-NCATRHVAPPVKKNSKIVLSEDYKK 208
Query 123 VY-----PVASPNECNQMCLSTL------MKCDHCGETSWQTGDFVKATCEFCGTENLTK 171
+Y P +C C TL ++C CG S GD+ CG K
Sbjct 209 LYDIFGSPFMGNGDCLSKCFDTLHFIAATLRCP-CGSESSGVGDWTGFKTACCGLSGKVK 267
Query 172 EGATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVF 231
G T P +AVV T + G F CV
Sbjct 268 -GVTLGDIKPGDAVV----------------------------TSMSAGKGVKFFANCVL 298
Query 232 SYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNIN-----IVGD 286
Y G + W + + T V G EG ++ ++ K V + I GD
Sbjct 299 QYAGDVEGVSIW--KVIKTFTVDET-VCTPGFEGELNDFIKPESKSLVACSVKRAFITGD 355
Query 287 FKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQ 346
II ST+ F GL +K V+ CG V AW + E+
Sbjct 356 IDDAVHDCIITGKLDLSTNLFGNV--GLLFKKTPWFVQKCGALFV-------DAWKVVEE 406
Query 347 ---------KSILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITIL 390
K I + + + A +V + T N V+ L + +L
Sbjct 407 LCGSLTLTYKQIYEVVASLCTSAFTIVN--YKPTFVVPDNRVKDLVDKCVKVL 457
>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 = 37.7 bits (86), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 94/413 (23%), Positives = 134/413 (32%), Gaps = 95/413 (23%)
Query 5 YVDNNFCGPDGYPL--ECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYT 62
YVD CG DG P+ KD D I+ + Y C AW T
Sbjct 113 YVDQYMCGADGKPVIEGDFKDYFGDE-----------DIIEFEGEEYHC-------AWTT 154
Query 63 ERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRS 122
R EK QT F I+ + +N + P+ P N + + P V+K +
Sbjct 155 VRDEKPLNQQTLFTIQEIQ----YNLDIPH-KLP-NCATRHVAPPVKKNSKIVLSEDYKK 208
Query 123 VY-----PVASPNECNQMCLSTL------MKCDHCGETSWQTGDFVKATCEFCGTENLTK 171
+Y P +C C TL ++C CG S GD+ CG K
Sbjct 209 LYDIFGSPFMGNGDCLSKCFDTLHFIAATLRCP-CGSESSGVGDWTGFKTACCGLSGKVK 267
Query 172 EGATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVF 231
G T P +AVV T + G F CV
Sbjct 268 -GVTLGDIKPGDAVV----------------------------TSMSAGKGVKFFANCVL 298
Query 232 SYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNIN-----IVGD 286
Y G + W + + T V G EG ++ ++ K V + I GD
Sbjct 299 QYAGDVEGVSIW--KVIKTFTVDET-VCTPGFEGELNDFIKPESKSLVACSVKRAFITGD 355
Query 287 FKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQ 346
II ST+ F GL +K V+ CG V AW + E+
Sbjct 356 IDDAVHDCIITGKLDLSTNLFGNV--GLLFKKTPWFVQKCGALFV-------DAWKVVEE 406
Query 347 ---------KSILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITIL 390
K I + + + A +V + T N V+ L + +L
Sbjct 407 LCGSLTLTYKQIYEVVASLCTSAFTIVN--YKPTFVVPDNRVKDLVDKCVKVL 457
>sp|P43349|TCTP_SOLTU Translationally-controlled tumor protein
homolog OS=Solanum tuberosum OX=4113 GN=TCTP PE=2 SV=2
Length=168
Score = 34.7 bits (78), Expect = 1.1, Method: Composition-based stats.
Identities = 26/99 (26%), Positives = 48/99 (48%), Gaps = 13/99 (13%)
Query 243 WVPRASA--NIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
WV + + NIG N + G EG++D +++ ++IV F+L E+ A F
Sbjct 35 WVVQGAVDVNIGANPSAEGGGEDEGVDDQAVKV-------VDIVDTFRLQEQPAFDKKQF 87
Query 301 SASTSAFVET----VKGLDYKAFKQIVESCGNFKVTKGK 335
+++ ++G +AFK+ +ES F ++K K
Sbjct 88 VTYIKRYIKNLTPKLEGEAQEAFKKNIESATKFLLSKLK 126
>sp|A0JUY4|RECA_ARTS2 Protein RecA OS=Arthrobacter sp. (strain
FB24) OX=290399 GN=recA PE=3 SV=1
Length=351
Score = 35.4 bits (80), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 22/92 (24%), Positives = 39/92 (42%), Gaps = 1/92 (1%)
Query 127 ASPNECNQMCLSTLMKCDHCGETS-WQTGDFVKATCEFCGTENLTKEGATTCGYLPQNAV 185
A+P+ + + G+ S + GD V+A E T ++ + A G LP+ V
Sbjct 3 AAPDRQKALDAALAQIDKQFGKGSVMRLGDEVRAPIEVIPTGSIALDVALGIGGLPRGRV 62
Query 186 VKIYCPACHNSEVGPEHSLAEYHNESGLKTIL 217
V+IY P H++A + G+ +
Sbjct 63 VEIYGPESSGKTTVALHAVANAQRQGGIAAFI 94
>sp|P54334|XKDO_BACSU Phage-like element PBSX protein XkdO OS=Bacillus
subtilis (strain 168) OX=224308 GN=xkdO PE=4 SV=2
Length=1332
Score = 35.4 bits (80), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 30/104 (29%), Positives = 49/104 (47%), Gaps = 15/104 (14%)
Query 430 SQWL-TNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIVGGQIVTCA 488
S W N++ + +K++ + ++EKF + +F D W+ I T E V +V +
Sbjct 653 SNWFYDNVWNPIVKKVEDIKTSIKEKFDDARKFFEDAWD---GIETWFNEHVKDPLVKVS 709
Query 489 KEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTH 532
++I E Q F L DS +GG K ++ GE VTH
Sbjct 710 EKIAEKFQWLFDL--------KDS--VGGFVAKVIHRGEE-VTH 742
>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 = 35.0 bits (79), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 50/192 (26%), Positives = 68/192 (35%), Gaps = 33/192 (17%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
YVD CG DG P+ E D+ + V E+ AW T R
Sbjct 113 YVDQYMCGADGKPV---------------IEGEFKDYFGDE-DVIIYEGEEYHCAWLTVR 156
Query 65 SEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRSVY 124
EK QT I+ + +N + P+ P N I+ + P V+K R +Y
Sbjct 157 DEKPLWQQTLLTIREIQ----YNLDIPH-KLP-NCAIREVAPPVKKNSKVVLSEEYRKLY 210
Query 125 PV-ASPNECNQMCLSTLMKCDH---------CGETSWQTGDFVKATCEFCGTENLTKEGA 174
+ SP N L+T H CG S GD+ CG K G
Sbjct 211 DIFGSPFMGNGDSLNTCFDSLHFIAATLKCPCGAESSGVGDWTGFKTACCGLHGKVK-GV 269
Query 175 TTCGYLPQNAVV 186
T P +A+V
Sbjct 270 TLGAVKPGDAIV 281
>sp|Q751L1|RL43_EREGS Large ribosomal subunit protein eL43 OS=Eremothecium
gossypii (strain ATCC 10895 / CBS 109.51 / FGSC
9923 / NRRL Y-1056) OX=284811 GN=RPL43 PE=3 SV=1
Length=92
Score = 32.0 bits (71), Expect = 3.6, Method: Composition-based stats.
Identities = 19/52 (37%), Positives = 26/52 (50%), Gaps = 3/52 (6%)
Query 326 CGNFKVTKGKAKKGAWNIGE-QKSILSPLYAFASEAARVVRSIFSRTLETAQ 376
CG V +G A G WN +K++ Y F++ AA VRS R E A+
Sbjct 42 CGKKAVKRGAA--GIWNCSSCKKTVAGGAYTFSTAAAATVRSTIRRLREMAE 91
>sp|Q0W2Y5|RPO12_METAR DNA-directed RNA polymerase subunit Rpo12
OS=Methanocella arvoryzae (strain DSM 22066 / NBRC 105507
/ MRE50) OX=351160 GN=rpo12 PE=3 SV=1
Length=45
Score = 30.4 bits (67), Expect = 4.0, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 18/40 (45%), Gaps = 0/40 (0%)
Query 142 KCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYLP 181
KC HC +T D C++CG L KE T +P
Sbjct 4 KCAHCKQTVEVDKDMKGVRCQYCGHRILIKERPTAIKRVP 43
>sp|Q5UQB5|TOP1P_MIMIV DNA topoisomerase 1 type prokaryotic OS=Acanthamoeba
polyphaga mimivirus OX=212035 GN=TOP1P PE=1 SV=1
Length=854
Score = 34.3 bits (77), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 27/105 (26%), Positives = 52/105 (50%), Gaps = 13/105 (12%)
Query 353 LYAFASEAARVVRSIFSRT---LETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSD 409
+Y+ SE + + ++ T L +N V IT+ D + +Y +D FT++
Sbjct 522 IYSIKSENKKHIMEVYEDTDTILLGKENKKIVPTNLGITVNDFLMKYFPEFLD-YKFTAN 580
Query 410 LATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEK 454
+ T+ + Y++ G T W+ +I Y+KLKP++D L ++
Sbjct 581 METD----LDYVSTG----TKNWV-DIVQDFYDKLKPIVDELSKQ 616
>sp|Q5J907|TCTP_ELAGV Translationally-controlled tumor protein
homolog OS=Elaeis guineensis var. tenera OX=51953 GN=TCTP PE=2
SV=1
Length=168
Score = 32.3 bits (72), Expect = 8.1, Method: Composition-based stats.
Identities = 29/114 (25%), Positives = 51/114 (45%), Gaps = 18/114 (16%)
Query 231 FSYVGCHNKCAY-----WVPRASAN--IGCNHTGVVGEGSEGLNDNLLEILQKEKVNINI 283
F Y HN + WV + + N IG N + GE EG++D +++ ++I
Sbjct 18 FPYKEIHNGMLWEVEGKWVIQGAVNVDIGANPSAEGGEEDEGVDDQAVKV-------VDI 70
Query 284 VGDFKLNEEIAIILASFSASTSAFVETVK-GLDYKA---FKQIVESCGNFKVTK 333
V F+L E+ A F +++ + LD + FK+ +E F ++K
Sbjct 71 VDTFRLQEQPAFDKKQFVTFMKRYIKNLTPKLDAEKQELFKKHIEGATKFLLSK 124
>sp|P35138|RL15_BACLD Large ribosomal subunit protein uL15 OS=Bacillus
licheniformis (strain ATCC 14580 / DSM 13 / JCM 2505
/ CCUG 7422 / NBRC 12200 / NCIMB 9375 / NCTC 10341 / NRRL
NRS-1264 / Gibson 46) OX=279010 GN=rplO PE=3 SV=2
Length=146
Score = 31.6 bits (70), Expect = 9.9, Method: Composition-based stats.
Identities = 19/56 (34%), Positives = 30/56 (54%), Gaps = 2/56 (4%)
Query 260 GEGSEGLNDNLLE--ILQKEKVNINIVGDFKLNEEIAIILASFSASTSAFVETVKG 313
EG+E + LLE ++ K K + I+GD KL +++ + FSAS +E G
Sbjct 86 AEGTEVTPELLLETGVISKLKSGVKILGDGKLEKKLTVKANKFSASAKQAIEAAGG 141
Lambda K H a alpha
0.319 0.136 0.409 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: 69821465992
Results from round 2
Query= YP_009725298.1 nsp2 [Severe acute respiratory syndrome coronavirus
2]
Length=638
Score E
Sequences producing significant alignments: (Bits) Value
Sequences used in model and found again:
sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute res... 931 0.0
sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus... 930 0.0
sp|P0C6U8|R1A_SARS Replicase polyprotein 1a OS=Severe acute respi... 928 0.0
sp|P0C6F5|R1A_BC279 Replicase polyprotein 1a OS=Bat coronavirus 2... 928 0.0
sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus... 925 0.0
sp|P0C6F8|R1A_BCHK3 Replicase polyprotein 1a OS=Bat coronavirus H... 922 0.0
sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus... 913 0.0
sp|P0C6T7|R1A_BCRP3 Replicase polyprotein 1a OS=Bat coronavirus R... 911 0.0
sp|P0DTD1|R1AB_SARS2 Replicase polyprotein 1ab OS=Severe acute re... 883 0.0
sp|P0DTC1|R1A_SARS2 Replicase polyprotein 1a OS=Severe acute resp... 880 0.0
sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus... 710 0.0
sp|P0C6T4|R1A_BCHK4 Replicase polyprotein 1a OS=Bat coronavirus H... 709 0.0
sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus... 709 0.0
sp|P0C6F7|R1A_BC133 Replicase polyprotein 1a OS=Bat coronavirus 1... 709 0.0
sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus... 661 0.0
sp|P0C6T5|R1A_BCHK5 Replicase polyprotein 1a OS=Bat coronavirus H... 660 0.0
sp|K9N7C7|R1AB_MERS1 Replicase polyprotein 1ab OS=Middle East res... 604 0.0
sp|K9N638|R1A_MERS1 Replicase polyprotein 1a OS=Middle East respi... 604 0.0
sp|P0C6T6|R1A_BCHK9 Replicase polyprotein 1a OS=Bat coronavirus H... 387 7e-117
sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus... 387 1e-116
Sequences not found previously or not previously below threshold:
sp|P0C6W7|R1AB_CVBEN Replicase polyprotein 1ab OS=Bovine coronavi... 81.0 3e-14
sp|P0C6W8|R1AB_CVBLU Replicase polyprotein 1ab OS=Bovine coronavi... 81.0 3e-14
sp|P0C6T8|R1A_CVBEN Replicase polyprotein 1a OS=Bovine coronaviru... 80.6 3e-14
sp|P0C6T9|R1A_CVBLU Replicase polyprotein 1a OS=Bovine coronaviru... 80.2 4e-14
sp|P0C6W9|R1AB_CVBM Replicase polyprotein 1ab OS=Bovine coronavir... 80.6 4e-14
sp|P0C6U0|R1A_CVBM Replicase polyprotein 1a OS=Bovine coronavirus... 79.8 5e-14
sp|P0C6X6|R1AB_CVHOC Replicase polyprotein 1ab OS=Human coronavir... 77.9 2e-13
sp|P0C6U7|R1A_CVHOC Replicase polyprotein 1a OS=Human coronavirus... 77.5 3e-13
sp|P0C6X0|R1AB_CVBQ Replicase polyprotein 1ab OS=Bovine coronavir... 76.7 5e-13
sp|P0C6U1|R1A_CVBQ Replicase polyprotein 1a OS=Bovine coronavirus... 76.3 6e-13
sp|P0C6Y5|R1AB_CVPPU Replicase polyprotein 1ab OS=Porcine transmi... 67.9 2e-10
sp|P0C6V2|R1A_CVPPU Replicase polyprotein 1a OS=Porcine transmiss... 67.9 3e-10
sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavir... 65.9 1e-09
sp|P0C6Y4|R1AB_PEDV7 Replicase polyprotein 1ab OS=Porcine epidemi... 65.6 1e-09
sp|P0C6V6|R1A_PEDV7 Replicase polyprotein 1a OS=Porcine epidemic ... 65.6 1e-09
sp|P0C6U9|R1A_CVM2 Replicase polyprotein 1a OS=Murine coronavirus... 65.2 2e-09
sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavi... 64.4 3e-09
sp|P0C6V1|R1A_CVMJH Replicase polyprotein 1a OS=Murine coronaviru... 64.0 4e-09
sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavir... 62.5 1e-08
sp|P0C6U3|R1A_CVHN1 Replicase polyprotein 1a OS=Human coronavirus... 62.5 1e-08
sp|P0C6U4|R1A_CVHN2 Replicase polyprotein 1a OS=Human coronavirus... 61.3 3e-08
sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavir... 61.3 3e-08
sp|Q98VG9|R1AB_FIPV Replicase polyprotein 1ab OS=Feline coronavir... 60.2 6e-08
sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavir... 59.4 1e-07
sp|P0C6U5|R1A_CVHN5 Replicase polyprotein 1a OS=Human coronavirus... 59.4 1e-07
sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavir... 57.9 3e-07
sp|P0C6U6|R1A_CVHNL Replicase polyprotein 1a OS=Human coronavirus... 57.9 3e-07
sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavi... 56.7 6e-07
sp|P0C6V0|R1A_CVMA5 Replicase polyprotein 1a OS=Murine coronaviru... 56.3 9e-07
sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavir... 48.6 2e-04
sp|P0C6U2|R1A_CVH22 Replicase polyprotein 1a OS=Human coronavirus... 48.6 2e-04
sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus... 42.4 0.014
sp|P0C6F6|R1A_BC512 Replicase polyprotein 1a OS=Bat coronavirus 5... 42.4 0.015
sp|Q3C251|ARGJ_CITLA Arginine biosynthesis bifunctional protein A... 40.9 0.032
sp|Q9KIP9|AGAS_ECOLX D-galactosamine-6-phosphate deaminase AgaS O... 35.1 2.2
sp|Q6P6T1|C1S_RAT Complement C1s subcomponent OS=Rattus norvegicu... 34.4 4.1
sp|Q9ZUR7|ARGJ_ARATH Arginine biosynthesis bifunctional protein A... 34.4 4.1
sp|Q18823|LAM2_CAEEL Laminin-like protein lam-2 OS=Caenorhabditis... 34.4 4.2
sp|Q9Y7Q9|YCX2_SCHPO Probable metabolite transporter C2H8.02 OS=S... 34.0 5.6
sp|P42907|AGAS_ECOLI Putative D-galactosamine-6-phosphate deamina... 33.2 7.3
sp|Q8U221|SYM_PYRFU Methionine--tRNA ligase OS=Pyrococcus furiosu... 33.6 7.9
sp|Q1LVF0|LAMC1_DANRE Laminin subunit gamma-1 OS=Danio rerio OX=7... 33.2 9.2
>sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute
respiratory syndrome coronavirus OX=694009 GN=rep PE=1 SV=1
Length=7073
Score = 931 bits (2405), Expect = 0.0, Method: Composition-based stats.
Identities = 436/638 (68%), Positives = 529/638 (83%), Gaps = 0/638 (0%)
Query 1 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
A TRYVDNNFCGPDGYPL+CIKD LARAGK+ CTLSEQLD+I++KRGVYCCR+HEHEIAW
Sbjct 181 AVTRYVDNNFCGPDGYPLDCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIAW 240
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 120
+TERS+KSYE QTPFEIK AKKFDTF GECP FVFPLNS +K IQPRVEKKK +GFMGRI
Sbjct 241 FTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI 300
Query 121 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 180
RSVYPVASP ECN M LSTLMKC+HC E SWQT DF+KATCE CGTENL EG TTCGYL
Sbjct 301 RSVYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEHCGTENLVIEGPTTCGYL 360
Query 181 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 240
P NAVVK+ CPAC + E+GPEHS+A+YHN S ++T LRKGGRT FGGCVF+YVGC+NK
Sbjct 361 PTNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKR 420
Query 241 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
AYWVPRASA+IG HTG+ G+ E LN++LLEIL +E+VNINIVGDF LNEE+AIILASF
Sbjct 421 AYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILASF 480
Query 301 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 360
SASTSAF++T+K LDYK+FK IVESCGN+KVTKGK KGAWNIG+Q+S+L+PL F S+A
Sbjct 481 SASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVKGAWNIGQQRSVLTPLCGFPSQA 540
Query 361 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 420
A V+RSIF+RTL+ A +S+ LQ+AA+TILDGIS+ SLRL+DAM++TSDL TN++++MAY
Sbjct 541 AGVIRSIFARTLDAANHSIPDLQRAAVTILDGISEQSLRLVDAMVYTSDLLTNSVIIMAY 600
Query 421 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 480
+TGG+VQ TSQWL+N+ GT EKL+P+ +W+E K GVEFL+D WEI+KF+ T +IV
Sbjct 601 VTGGLVQQTSQWLSNLLGTTVEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDIV 660
Query 481 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 540
GQI + IK+ V+ F +VNK L +C D + I GAKL++LNLGE F+ SKGLYR+C
Sbjct 661 KGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQC 720
Query 541 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 600
++ +E+ LLMPLKAPKE+ FLEG++ T + +EEVVLK G+L+ LE P +VG
Sbjct 721 IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIVG 780
Query 601 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TPVC+NGLMLLEIKD E+YCAL+P ++ TNN F LKGG
Sbjct 781 TPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFRLKGG 818
>sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus
279/2005 OX=389167 GN=rep PE=3 SV=1
Length=7079
Score = 930 bits (2403), Expect = 0.0, Method: Composition-based stats.
Identities = 441/638 (69%), Positives = 530/638 (83%), Gaps = 0/638 (0%)
Query 1 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
A+TRYVDNNFCGPDGYPLECIKDLLARAGK+ CTLSEQLD+I++KRGVYCCREHEHEI W
Sbjct 181 AFTRYVDNNFCGPDGYPLECIKDLLARAGKSMCTLSEQLDYIESKRGVYCCREHEHEIVW 240
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 120
+TERSEKSYE QTPFEIK AKKFDTF GECP FVFPLNS +K IQPRVEKKK +GFMGRI
Sbjct 241 FTERSEKSYERQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI 300
Query 121 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 180
RSVYPVA+P ECN M LSTLMKC+HC E SWQT DF+KATCE CGTENL EG TTCGYL
Sbjct 301 RSVYPVATPQECNDMHLSTLMKCNHCDEVSWQTCDFLKATCEQCGTENLVCEGPTTCGYL 360
Query 181 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 240
P NAVVK+ CPAC + EVGPEHS+A+YHN S ++T LRKGGRT FGGCVF+YVGC+NK
Sbjct 361 PANAVVKMPCPACQDPEVGPEHSVADYHNHSNIETRLRKGGRTKCFGGCVFAYVGCYNKR 420
Query 241 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
AYWVPRASANIG +HTG+ G+ E LN++L+EIL +++VNINIVGDF LNEE+AIILASF
Sbjct 421 AYWVPRASANIGASHTGITGDNVETLNEDLMEILNRDRVNINIVGDFHLNEEVAIILASF 480
Query 301 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 360
SAST AFV+TVKGLDYK FK IVESCGNFKVT+G+AKKGAWNIG++KSIL+PLY F S+A
Sbjct 481 SASTCAFVDTVKGLDYKTFKDIVESCGNFKVTRGRAKKGAWNIGQEKSILTPLYGFPSQA 540
Query 361 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 420
A V+RSIF+R L+TA +S+ LQ+AAITILDGIS+ SLRLIDAM++TSDL TN+++VMAY
Sbjct 541 AGVIRSIFTRALDTANHSIPDLQRAAITILDGISEQSLRLIDAMVYTSDLLTNSVIVMAY 600
Query 421 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 480
+TGG+VQ +QWL+N+ GT +KLKPV W+E K G+EFLRD WEI+KF+ T +IV
Sbjct 601 VTGGLVQQITQWLSNMLGTTVDKLKPVFTWVEAKLSAGIEFLRDAWEILKFLVTGVFDIV 660
Query 481 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 540
GQI + +KE V+ F ++NK L +C D +II GAKL+ LNLGE F+ SKGLYR+C
Sbjct 661 KGQIQVASDNLKECVKAFLDVLNKALEMCIDQVIIAGAKLRTLNLGEVFIAQSKGLYRQC 720
Query 541 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 600
++ +E+ LLMPL+APKE+ F EG++ T +EEVVLK G+L+ LE P ++G
Sbjct 721 IRGKEQLQLLMPLRAPKEVTFFEGDSHDTVFTSEEVVLKNGELEALETPVDSFTNGAVIG 780
Query 601 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TPVC+NGLMLLE+KD E+YCAL+P ++ TNN F+LKGG
Sbjct 781 TPVCVNGLMLLELKDKEQYCALSPGLLATNNVFSLKGG 818
>sp|P0C6U8|R1A_SARS Replicase polyprotein 1a OS=Severe acute respiratory
syndrome coronavirus OX=694009 GN=1a PE=1 SV=1
Length=4382
Score = 928 bits (2399), Expect = 0.0, Method: Composition-based stats.
Identities = 436/638 (68%), Positives = 529/638 (83%), Gaps = 0/638 (0%)
Query 1 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
A TRYVDNNFCGPDGYPL+CIKD LARAGK+ CTLSEQLD+I++KRGVYCCR+HEHEIAW
Sbjct 181 AVTRYVDNNFCGPDGYPLDCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIAW 240
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 120
+TERS+KSYE QTPFEIK AKKFDTF GECP FVFPLNS +K IQPRVEKKK +GFMGRI
Sbjct 241 FTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI 300
Query 121 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 180
RSVYPVASP ECN M LSTLMKC+HC E SWQT DF+KATCE CGTENL EG TTCGYL
Sbjct 301 RSVYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEHCGTENLVIEGPTTCGYL 360
Query 181 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 240
P NAVVK+ CPAC + E+GPEHS+A+YHN S ++T LRKGGRT FGGCVF+YVGC+NK
Sbjct 361 PTNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKR 420
Query 241 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
AYWVPRASA+IG HTG+ G+ E LN++LLEIL +E+VNINIVGDF LNEE+AIILASF
Sbjct 421 AYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILASF 480
Query 301 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 360
SASTSAF++T+K LDYK+FK IVESCGN+KVTKGK KGAWNIG+Q+S+L+PL F S+A
Sbjct 481 SASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVKGAWNIGQQRSVLTPLCGFPSQA 540
Query 361 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 420
A V+RSIF+RTL+ A +S+ LQ+AA+TILDGIS+ SLRL+DAM++TSDL TN++++MAY
Sbjct 541 AGVIRSIFARTLDAANHSIPDLQRAAVTILDGISEQSLRLVDAMVYTSDLLTNSVIIMAY 600
Query 421 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 480
+TGG+VQ TSQWL+N+ GT EKL+P+ +W+E K GVEFL+D WEI+KF+ T +IV
Sbjct 601 VTGGLVQQTSQWLSNLLGTTVEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDIV 660
Query 481 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 540
GQI + IK+ V+ F +VNK L +C D + I GAKL++LNLGE F+ SKGLYR+C
Sbjct 661 KGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQC 720
Query 541 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 600
++ +E+ LLMPLKAPKE+ FLEG++ T + +EEVVLK G+L+ LE P +VG
Sbjct 721 IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIVG 780
Query 601 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TPVC+NGLMLLEIKD E+YCAL+P ++ TNN F LKGG
Sbjct 781 TPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFRLKGG 818
>sp|P0C6F5|R1A_BC279 Replicase polyprotein 1a OS=Bat coronavirus
279/2005 OX=389167 GN=1a PE=3 SV=1
Length=4388
Score = 928 bits (2397), Expect = 0.0, Method: Composition-based stats.
Identities = 441/638 (69%), Positives = 530/638 (83%), Gaps = 0/638 (0%)
Query 1 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
A+TRYVDNNFCGPDGYPLECIKDLLARAGK+ CTLSEQLD+I++KRGVYCCREHEHEI W
Sbjct 181 AFTRYVDNNFCGPDGYPLECIKDLLARAGKSMCTLSEQLDYIESKRGVYCCREHEHEIVW 240
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 120
+TERSEKSYE QTPFEIK AKKFDTF GECP FVFPLNS +K IQPRVEKKK +GFMGRI
Sbjct 241 FTERSEKSYERQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI 300
Query 121 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 180
RSVYPVA+P ECN M LSTLMKC+HC E SWQT DF+KATCE CGTENL EG TTCGYL
Sbjct 301 RSVYPVATPQECNDMHLSTLMKCNHCDEVSWQTCDFLKATCEQCGTENLVCEGPTTCGYL 360
Query 181 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 240
P NAVVK+ CPAC + EVGPEHS+A+YHN S ++T LRKGGRT FGGCVF+YVGC+NK
Sbjct 361 PANAVVKMPCPACQDPEVGPEHSVADYHNHSNIETRLRKGGRTKCFGGCVFAYVGCYNKR 420
Query 241 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
AYWVPRASANIG +HTG+ G+ E LN++L+EIL +++VNINIVGDF LNEE+AIILASF
Sbjct 421 AYWVPRASANIGASHTGITGDNVETLNEDLMEILNRDRVNINIVGDFHLNEEVAIILASF 480
Query 301 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 360
SAST AFV+TVKGLDYK FK IVESCGNFKVT+G+AKKGAWNIG++KSIL+PLY F S+A
Sbjct 481 SASTCAFVDTVKGLDYKTFKDIVESCGNFKVTRGRAKKGAWNIGQEKSILTPLYGFPSQA 540
Query 361 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 420
A V+RSIF+R L+TA +S+ LQ+AAITILDGIS+ SLRLIDAM++TSDL TN+++VMAY
Sbjct 541 AGVIRSIFTRALDTANHSIPDLQRAAITILDGISEQSLRLIDAMVYTSDLLTNSVIVMAY 600
Query 421 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 480
+TGG+VQ +QWL+N+ GT +KLKPV W+E K G+EFLRD WEI+KF+ T +IV
Sbjct 601 VTGGLVQQITQWLSNMLGTTVDKLKPVFTWVEAKLSAGIEFLRDAWEILKFLVTGVFDIV 660
Query 481 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 540
GQI + +KE V+ F ++NK L +C D +II GAKL+ LNLGE F+ SKGLYR+C
Sbjct 661 KGQIQVASDNLKECVKAFLDVLNKALEMCIDQVIIAGAKLRTLNLGEVFIAQSKGLYRQC 720
Query 541 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 600
++ +E+ LLMPL+APKE+ F EG++ T +EEVVLK G+L+ LE P ++G
Sbjct 721 IRGKEQLQLLMPLRAPKEVTFFEGDSHDTVFTSEEVVLKNGELEALETPVDSFTNGAVIG 780
Query 601 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TPVC+NGLMLLE+KD E+YCAL+P ++ TNN F+LKGG
Sbjct 781 TPVCVNGLMLLELKDKEQYCALSPGLLATNNVFSLKGG 818
>sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus
HKU3 OX=442736 GN=rep PE=3 SV=1
Length=7067
Score = 925 bits (2390), Expect = 0.0, Method: Composition-based stats.
Identities = 440/637 (69%), Positives = 521/637 (82%), Gaps = 0/637 (0%)
Query 2 YTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWY 61
TRYVDNNFCGPDGYPLECIKD LARAGK+ CTLSEQLD+I++KRGVYCCREHEHEI W+
Sbjct 182 VTRYVDNNFCGPDGYPLECIKDFLARAGKSMCTLSEQLDYIESKRGVYCCREHEHEIVWF 241
Query 62 TERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIR 121
TERSEKSYE QTPFEIK AKKFDTF GECP FVFPLNS +K IQPRVEKKK +GFMGRIR
Sbjct 242 TERSEKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRIR 301
Query 122 SVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYLP 181
SVYPVA+P ECN M LSTLMKC+HC E SWQT DF+KATCE CGTENL EG TTCGYLP
Sbjct 302 SVYPVATPQECNDMHLSTLMKCNHCDEVSWQTCDFLKATCEQCGTENLVCEGPTTCGYLP 361
Query 182 QNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKCA 241
NAVVK+ CPAC + EVGPEHS+A+YHN S ++T LRKGGRT FGGCVFSYVGC+NK A
Sbjct 362 TNAVVKMPCPACQDPEVGPEHSVADYHNHSNIETRLRKGGRTKCFGGCVFSYVGCYNKRA 421
Query 242 YWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASFS 301
YWVPRASANIG NHTG+ GE E LN++LLEIL +E+VNINIVGDF+ NEE+AIILASFS
Sbjct 422 YWVPRASANIGANHTGITGENVETLNEDLLEILNRERVNINIVGDFRFNEEVAIILASFS 481
Query 302 ASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEAA 361
AS SAF+ETVKGLDYK+FK IVESCGN+KVT GK GAWNIG+Q+SIL+PL F S+AA
Sbjct 482 ASPSAFIETVKGLDYKSFKVIVESCGNYKVTNGKPVTGAWNIGQQRSILTPLCGFPSQAA 541
Query 362 RVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAYI 421
V+RSIFSRTL+ A +S+ LQ+AA+T LDGIS+ SLRL+DAM++TSDL TN++VVMAY+
Sbjct 542 GVIRSIFSRTLDAANHSILDLQRAAVTTLDGISEQSLRLVDAMVYTSDLLTNSVVVMAYV 601
Query 422 TGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIVG 481
TGG+VQ T QWL+N+ GT +KLKPV W+E K GVEFLRD WEI+KF+ T +++
Sbjct 602 TGGLVQQTMQWLSNMLGTAVDKLKPVFTWVEAKLSAGVEFLRDAWEILKFLITGVFDVIK 661
Query 482 GQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKCV 541
GQI IKE V+ F +VNK L +C D + I G KL+ALNLGE F+ S+GLYR+C+
Sbjct 662 GQIQVATDNIKECVKIFLGVVNKALEMCLDQVTIAGTKLRALNLGEVFIAQSRGLYRQCI 721
Query 542 KSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGT 601
+ +E+ LLMPLKAPKE+ FLEG+ T + +EEVVLK+G+L+ LE P +VGT
Sbjct 722 RGKEQLQLLMPLKAPKEVTFLEGDAHDTVLTSEEVVLKSGELEALETPIDSFTSGAVVGT 781
Query 602 PVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
PVCINGLMLLE+++ E+YCAL+P ++ TNN F LKGG
Sbjct 782 PVCINGLMLLELENKEQYCALSPGLLATNNVFRLKGG 818
>sp|P0C6F8|R1A_BCHK3 Replicase polyprotein 1a OS=Bat coronavirus
HKU3 OX=442736 GN=1a PE=3 SV=1
Length=4376
Score = 922 bits (2383), Expect = 0.0, Method: Composition-based stats.
Identities = 440/637 (69%), Positives = 521/637 (82%), Gaps = 0/637 (0%)
Query 2 YTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWY 61
TRYVDNNFCGPDGYPLECIKD LARAGK+ CTLSEQLD+I++KRGVYCCREHEHEI W+
Sbjct 182 VTRYVDNNFCGPDGYPLECIKDFLARAGKSMCTLSEQLDYIESKRGVYCCREHEHEIVWF 241
Query 62 TERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIR 121
TERSEKSYE QTPFEIK AKKFDTF GECP FVFPLNS +K IQPRVEKKK +GFMGRIR
Sbjct 242 TERSEKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRIR 301
Query 122 SVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYLP 181
SVYPVA+P ECN M LSTLMKC+HC E SWQT DF+KATCE CGTENL EG TTCGYLP
Sbjct 302 SVYPVATPQECNDMHLSTLMKCNHCDEVSWQTCDFLKATCEQCGTENLVCEGPTTCGYLP 361
Query 182 QNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKCA 241
NAVVK+ CPAC + EVGPEHS+A+YHN S ++T LRKGGRT FGGCVFSYVGC+NK A
Sbjct 362 TNAVVKMPCPACQDPEVGPEHSVADYHNHSNIETRLRKGGRTKCFGGCVFSYVGCYNKRA 421
Query 242 YWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASFS 301
YWVPRASANIG NHTG+ GE E LN++LLEIL +E+VNINIVGDF+ NEE+AIILASFS
Sbjct 422 YWVPRASANIGANHTGITGENVETLNEDLLEILNRERVNINIVGDFRFNEEVAIILASFS 481
Query 302 ASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEAA 361
AS SAF+ETVKGLDYK+FK IVESCGN+KVT GK GAWNIG+Q+SIL+PL F S+AA
Sbjct 482 ASPSAFIETVKGLDYKSFKVIVESCGNYKVTNGKPVTGAWNIGQQRSILTPLCGFPSQAA 541
Query 362 RVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAYI 421
V+RSIFSRTL+ A +S+ LQ+AA+T LDGIS+ SLRL+DAM++TSDL TN++VVMAY+
Sbjct 542 GVIRSIFSRTLDAANHSILDLQRAAVTTLDGISEQSLRLVDAMVYTSDLLTNSVVVMAYV 601
Query 422 TGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIVG 481
TGG+VQ T QWL+N+ GT +KLKPV W+E K GVEFLRD WEI+KF+ T +++
Sbjct 602 TGGLVQQTMQWLSNMLGTAVDKLKPVFTWVEAKLSAGVEFLRDAWEILKFLITGVFDVIK 661
Query 482 GQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKCV 541
GQI IKE V+ F +VNK L +C D + I G KL+ALNLGE F+ S+GLYR+C+
Sbjct 662 GQIQVATDNIKECVKIFLGVVNKALEMCLDQVTIAGTKLRALNLGEVFIAQSRGLYRQCI 721
Query 542 KSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGT 601
+ +E+ LLMPLKAPKE+ FLEG+ T + +EEVVLK+G+L+ LE P +VGT
Sbjct 722 RGKEQLQLLMPLKAPKEVTFLEGDAHDTVLTSEEVVLKSGELEALETPIDSFTSGAVVGT 781
Query 602 PVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
PVCINGLMLLE+++ E+YCAL+P ++ TNN F LKGG
Sbjct 782 PVCINGLMLLELENKEQYCALSPGLLATNNVFRLKGG 818
>sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus
Rp3/2004 OX=349344 GN=rep PE=3 SV=1
Length=7071
Score = 913 bits (2359), Expect = 0.0, Method: Composition-based stats.
Identities = 432/638 (68%), Positives = 523/638 (82%), Gaps = 0/638 (0%)
Query 1 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
A TRYVDNNFCGPDGYPLECIKDLLARAGK+ CTLSEQLD+I++KRGVYCCR+H HEIAW
Sbjct 181 ALTRYVDNNFCGPDGYPLECIKDLLARAGKSMCTLSEQLDYIESKRGVYCCRDHGHEIAW 240
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 120
+TERS+KSYE QTPFEIK AKKFDTF GECP FVFPLNS +K IQPRVEKKK +GFMGRI
Sbjct 241 FTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI 300
Query 121 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 180
RSVYPVA+P ECN M LSTLMKC+HC E SWQT DF+KATCE CGTENL EG TCGYL
Sbjct 301 RSVYPVATPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEQCGTENLVSEGPNTCGYL 360
Query 181 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 240
P NAVVK+ CPAC + E+GPEHS A+YHN S ++T LRKGGRT FGGCVF+YVGC+NK
Sbjct 361 PTNAVVKMPCPACQDPEIGPEHSAADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKR 420
Query 241 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
AYWVPRASA+IG HTG+ G+ E LN++LLEIL +E+VNINIVGDF+LNEE+AIILASF
Sbjct 421 AYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFQLNEEVAIILASF 480
Query 301 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 360
SASTSAF++T+K LDYK+FK IVESCGN+KVTKGK KGAWNIG+ +S+L+PL F S+A
Sbjct 481 SASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPIKGAWNIGQHRSVLTPLCGFPSQA 540
Query 361 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 420
A V+RSIFSRTL+ A +S+ LQ+AA+TILD IS+ SLRL+DAM++TS+L TN++++MAY
Sbjct 541 AGVIRSIFSRTLDAANHSIPDLQRAAVTILDSISEQSLRLVDAMVYTSNLLTNSVIIMAY 600
Query 421 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 480
+TGG+VQ TSQWL+N+ T EKL+P+ W+E K GVEFL+D WEI+KF+ T +IV
Sbjct 601 VTGGLVQQTSQWLSNLLDTTVEKLRPIFAWIEAKLSAGVEFLKDAWEILKFLITGVFDIV 660
Query 481 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 540
GQI + IK+ V+ F +VNK L +C D + I GAKL++LNLGE F+ SKGLYR+C
Sbjct 661 KGQIQVASDNIKDCVKCFVDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQC 720
Query 541 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 600
++ +E+ LLMPLKAPKE+ FLEG++ T + +EEVVLK G+L+ LE P +VG
Sbjct 721 IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAVVG 780
Query 601 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TPVCINGLMLLEIK E+YCAL+P ++ TNN F LKGG
Sbjct 781 TPVCINGLMLLEIKANEQYCALSPGLLATNNVFRLKGG 818
>sp|P0C6T7|R1A_BCRP3 Replicase polyprotein 1a OS=Bat coronavirus
Rp3/2004 OX=349344 GN=1a PE=3 SV=1
Length=4380
Score = 911 bits (2354), Expect = 0.0, Method: Composition-based stats.
Identities = 432/638 (68%), Positives = 523/638 (82%), Gaps = 0/638 (0%)
Query 1 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
A TRYVDNNFCGPDGYPLECIKDLLARAGK+ CTLSEQLD+I++KRGVYCCR+H HEIAW
Sbjct 181 ALTRYVDNNFCGPDGYPLECIKDLLARAGKSMCTLSEQLDYIESKRGVYCCRDHGHEIAW 240
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 120
+TERS+KSYE QTPFEIK AKKFDTF GECP FVFPLNS +K IQPRVEKKK +GFMGRI
Sbjct 241 FTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI 300
Query 121 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 180
RSVYPVA+P ECN M LSTLMKC+HC E SWQT DF+KATCE CGTENL EG TCGYL
Sbjct 301 RSVYPVATPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEQCGTENLVSEGPNTCGYL 360
Query 181 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 240
P NAVVK+ CPAC + E+GPEHS A+YHN S ++T LRKGGRT FGGCVF+YVGC+NK
Sbjct 361 PTNAVVKMPCPACQDPEIGPEHSAADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKR 420
Query 241 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
AYWVPRASA+IG HTG+ G+ E LN++LLEIL +E+VNINIVGDF+LNEE+AIILASF
Sbjct 421 AYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFQLNEEVAIILASF 480
Query 301 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 360
SASTSAF++T+K LDYK+FK IVESCGN+KVTKGK KGAWNIG+ +S+L+PL F S+A
Sbjct 481 SASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPIKGAWNIGQHRSVLTPLCGFPSQA 540
Query 361 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 420
A V+RSIFSRTL+ A +S+ LQ+AA+TILD IS+ SLRL+DAM++TS+L TN++++MAY
Sbjct 541 AGVIRSIFSRTLDAANHSIPDLQRAAVTILDSISEQSLRLVDAMVYTSNLLTNSVIIMAY 600
Query 421 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 480
+TGG+VQ TSQWL+N+ T EKL+P+ W+E K GVEFL+D WEI+KF+ T +IV
Sbjct 601 VTGGLVQQTSQWLSNLLDTTVEKLRPIFAWIEAKLSAGVEFLKDAWEILKFLITGVFDIV 660
Query 481 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 540
GQI + IK+ V+ F +VNK L +C D + I GAKL++LNLGE F+ SKGLYR+C
Sbjct 661 KGQIQVASDNIKDCVKCFVDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQC 720
Query 541 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 600
++ +E+ LLMPLKAPKE+ FLEG++ T + +EEVVLK G+L+ LE P +VG
Sbjct 721 IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAVVG 780
Query 601 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TPVCINGLMLLEIK E+YCAL+P ++ TNN F LKGG
Sbjct 781 TPVCINGLMLLEIKANEQYCALSPGLLATNNVFRLKGG 818
>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 = 883 bits (2281), Expect = 0.0, Method: Composition-based stats.
Identities = 638/638 (100%), Positives = 638/638 (100%), Gaps = 0/638 (0%)
Query 1 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW
Sbjct 181 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 240
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 120
YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI
Sbjct 241 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 300
Query 121 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 180
RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL
Sbjct 301 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 360
Query 181 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 240
PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC
Sbjct 361 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 420
Query 241 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF
Sbjct 421 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 480
Query 301 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 360
SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA
Sbjct 481 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 540
Query 361 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 420
ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY
Sbjct 541 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 600
Query 421 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 480
ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV
Sbjct 601 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 660
Query 481 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 540
GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC
Sbjct 661 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 720
Query 541 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 600
VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG
Sbjct 721 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 780
Query 601 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG
Sbjct 781 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 818
>sp|P0DTC1|R1A_SARS2 Replicase polyprotein 1a OS=Severe acute
respiratory syndrome coronavirus 2 OX=2697049 PE=1 SV=1
Length=4405
Score = 880 bits (2273), Expect = 0.0, Method: Composition-based stats.
Identities = 638/638 (100%), Positives = 638/638 (100%), Gaps = 0/638 (0%)
Query 1 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 60
AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW
Sbjct 181 AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW 240
Query 61 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 120
YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI
Sbjct 241 YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI 300
Query 121 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 180
RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL
Sbjct 301 RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL 360
Query 181 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 240
PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC
Sbjct 361 PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC 420
Query 241 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF
Sbjct 421 AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 480
Query 301 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 360
SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA
Sbjct 481 SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA 540
Query 361 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 420
ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY
Sbjct 541 ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY 600
Query 421 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 480
ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV
Sbjct 601 ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV 660
Query 481 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 540
GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC
Sbjct 661 GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC 720
Query 541 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 600
VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG
Sbjct 721 VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG 780
Query 601 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG
Sbjct 781 TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 818
>sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus
HKU4 OX=694007 GN=rep PE=1 SV=1
Length=7119
Score = 710 bits (1832), Expect = 0.0, Method: Composition-based stats.
Identities = 148/667 (22%), Positives = 269/667 (40%), Gaps = 53/667 (8%)
Query 6 VDNNFCGPDGYPLECIKDLLARAGKA--SCTLSEQLDFIDTKRGVYCCREHEHEIAWYTE 63
+D CG +G P+ ++A+ G + + +D+ R + + + + W
Sbjct 200 IDQYMCGKNGKPIADYAKIVAKEGLTTLADIEVDVKSRMDSDRFI-VLNKKLYRVVWNVT 258
Query 64 RSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRSV 123
R Y QT F I + D P F + S I + P ++ F + R +
Sbjct 259 RRNVPYPKQTAFTIVSVVQCDD-KDSVPEHTFTIGSQILMVSP-LKATNNKNFNLKQRLL 316
Query 124 YPVA---SPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKE-GATTCGY 179
Y + + + S + C+ CG +W TG+ ++ CG + + G
Sbjct 317 YTFYGKDAVQQPGYIYHSAYVDCNACGRGTWCTGNAIQGFACDCGANYSANDVDLQSSGL 376
Query 180 LPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGR--TIAFGGCVFSYVGCH 237
+P+NA+ CP +N HS A+ +N K + GG+ T+ FGG V++Y+GC
Sbjct 377 VPRNALFLANCPCANNGAC--SHSAAQVYNILDGKACVEVGGKSFTLTFGGVVYAYMGCC 434
Query 238 NKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLE----ILQKEKVNINIVGDFKLNEEI 293
+ Y+VPRA + + + G G D ++E L+K + ++N F L E
Sbjct 435 DGTMYFVPRAKSCVSRI-GDAIFTGCTGTWDKVVETANLFLEKAQRSLNFCQQFALTE-- 491
Query 294 AIILASFSASTSAFVETVKGLDYKAFKQIVESCGN--FKVTKGKAKKGAWNIGEQ----K 347
++LA S +TS F E +++++ + N F VT G + A NIG
Sbjct 492 -VVLAILSGTTSTFEELRDLCHNASYEKVRDHLVNHGFVVTIGDYIRDAINIGANGVCNA 550
Query 348 SILSPLYAFAS--EAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMM 405
+I +P AF E+ + V +I + N L + I+ + Y + D
Sbjct 551 TINAPFIAFTGLGESFKKVSAI---PWKICSNLKSALDYYSSNIMFRVFPYDIP-CDVSN 606
Query 406 FTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGT----VYEKLKPVLDWLEEKFKEGVEF 461
F L + +A + V++ + + GT L L+ + F
Sbjct 607 FVELLLDCGKLTVA-TSYFVLRYLDEKFDTVLGTVSSACQTALSSFLNACVAASRATAGF 665
Query 462 LRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLK 521
+ D +++ K + V A+ + VQ +++K + L ++ G KL
Sbjct 666 INDMFKLFKVLMHKLYVYTSCGYVAVAEHSSKIVQQVLDIMSKAMKLLHTNVSWAGTKLS 725
Query 522 ALNL-GETFVTHSKGLY----RKCVKSREETGLLMPLKAPKEIIFL-----EGETLPTEV 571
A+ G + + G Y K + + L++P K+ + + +T+
Sbjct 726 AIIYEGREALLFNSGTYFCLSTKAKTLQGQMNLVLPGDYNKKTLGILDPVPNADTIDVNA 785
Query 572 LTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMVTNN 631
+ V + G L+ PT+E + +VG V ++ + + +D E Y L N V +
Sbjct 786 NSTVVDVVHGQLE----PTNEHGPSMIVGNYVLVSDKLFVRTEDEEFY-PLCTNGKVVST 840
Query 632 TFTLKGG 638
F LKGG
Sbjct 841 LFRLKGG 847
>sp|P0C6T4|R1A_BCHK4 Replicase polyprotein 1a OS=Bat coronavirus
HKU4 OX=694007 GN=1a PE=1 SV=1
Length=4434
Score = 709 bits (1831), Expect = 0.0, Method: Composition-based stats.
Identities = 148/667 (22%), Positives = 269/667 (40%), Gaps = 53/667 (8%)
Query 6 VDNNFCGPDGYPLECIKDLLARAGKA--SCTLSEQLDFIDTKRGVYCCREHEHEIAWYTE 63
+D CG +G P+ ++A+ G + + +D+ R + + + + W
Sbjct 200 IDQYMCGKNGKPIADYAKIVAKEGLTTLADIEVDVKSRMDSDRFI-VLNKKLYRVVWNVT 258
Query 64 RSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRSV 123
R Y QT F I + D P F + S I + P ++ F + R +
Sbjct 259 RRNVPYPKQTAFTIVSVVQCDD-KDSVPEHTFTIGSQILMVSP-LKATNNKNFNLKQRLL 316
Query 124 YPVA---SPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKE-GATTCGY 179
Y + + + S + C+ CG +W TG+ ++ CG + + G
Sbjct 317 YTFYGKDAVQQPGYIYHSAYVDCNACGRGTWCTGNAIQGFACDCGANYSANDVDLQSSGL 376
Query 180 LPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGR--TIAFGGCVFSYVGCH 237
+P+NA+ CP +N HS A+ +N K + GG+ T+ FGG V++Y+GC
Sbjct 377 VPRNALFLANCPCANNGAC--SHSAAQVYNILDGKACVEVGGKSFTLTFGGVVYAYMGCC 434
Query 238 NKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLE----ILQKEKVNINIVGDFKLNEEI 293
+ Y+VPRA + + + G G D ++E L+K + ++N F L E
Sbjct 435 DGTMYFVPRAKSCVSRI-GDAIFTGCTGTWDKVVETANLFLEKAQRSLNFCQQFALTE-- 491
Query 294 AIILASFSASTSAFVETVKGLDYKAFKQIVESCGN--FKVTKGKAKKGAWNIGEQ----K 347
++LA S +TS F E +++++ + N F VT G + A NIG
Sbjct 492 -VVLAILSGTTSTFEELRDLCHNASYEKVRDHLVNHGFVVTIGDYIRDAINIGANGVCNA 550
Query 348 SILSPLYAFAS--EAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMM 405
+I +P AF E+ + V +I + N L + I+ + Y + D
Sbjct 551 TINAPFIAFTGLGESFKKVSAI---PWKICSNLKSALDYYSSNIMFRVFPYDIP-CDVSN 606
Query 406 FTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGT----VYEKLKPVLDWLEEKFKEGVEF 461
F L + +A + V++ + + GT L L+ + F
Sbjct 607 FVELLLDCGKLTVA-TSYFVLRYLDEKFDTVLGTVSSACQTALSSFLNACVAASRATAGF 665
Query 462 LRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLK 521
+ D +++ K + V A+ + VQ +++K + L ++ G KL
Sbjct 666 INDMFKLFKVLMHKLYVYTSCGYVAVAEHSSKIVQQVLDIMSKAMKLLHTNVSWAGTKLS 725
Query 522 ALNL-GETFVTHSKGLY----RKCVKSREETGLLMPLKAPKEIIFL-----EGETLPTEV 571
A+ G + + G Y K + + L++P K+ + + +T+
Sbjct 726 AIIYEGREALLFNSGTYFCLSTKAKTLQGQMNLVLPGDYNKKTLGILDPVPNADTIDVNA 785
Query 572 LTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMVTNN 631
+ V + G L+ PT+E + +VG V ++ + + +D E Y L N V +
Sbjct 786 NSTVVDVVHGQLE----PTNEHGPSMIVGNYVLVSDKLFVRTEDEEFY-PLCTNGKVVST 840
Query 632 TFTLKGG 638
F LKGG
Sbjct 841 LFRLKGG 847
>sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus
133/2005 OX=389230 GN=rep PE=3 SV=1
Length=7126
Score = 709 bits (1831), Expect = 0.0, Method: Composition-based stats.
Identities = 146/667 (22%), Positives = 268/667 (40%), Gaps = 53/667 (8%)
Query 6 VDNNFCGPDGYPLECIKDLLARAGKA--SCTLSEQLDFIDTKRGVYCCREHEHEIAWYTE 63
VD CG +G P+ ++A+ G + + +D+ R + + + + W
Sbjct 200 VDQYMCGKNGKPIADYAKIVAKEGLTTLADIEVDVKSRMDSDRFI-VLNKKLYRVVWNVT 258
Query 64 RSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRSV 123
R Y QT F + + D P F + S I + P ++ F + R +
Sbjct 259 RRNVPYSKQTAFTVVSVIQCDD-KESVPEHTFTIGSQILMVSP-LKATNNKNFNLKQRLL 316
Query 124 ---YPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKE-GATTCGY 179
Y + + + S + C+ CG +W TG+ ++ CG + + G
Sbjct 317 HTFYGKEAVQQPGYIYHSAYVDCNACGRGTWCTGNAIQGFACDCGANYSANDVDLQSSGL 376
Query 180 LPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGR--TIAFGGCVFSYVGCH 237
+P+NA+ CP +N H+ A+ ++ K + GG+ T+ FGG V++Y+GC
Sbjct 377 VPKNALFLANCPCANNGAC--SHNAAQVYSILDGKACVEVGGKSFTLTFGGVVYAYMGCC 434
Query 238 NKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLE----ILQKEKVNINIVGDFKLNEEI 293
+ Y+VPRA + + + G G D ++E L+K + ++N F L E
Sbjct 435 DGTMYFVPRAKSCVSRI-GDAIFTGCTGTWDKVVETANLFLEKAQHSLNFCQQFALTE-- 491
Query 294 AIILASFSASTSAFVETVKGLDYKAFKQIVESCGN--FKVTKGKAKKGAWNIGEQ----K 347
++LA S +TS F E +++++ + N F VT G + A NIG
Sbjct 492 -VVLAILSGTTSTFEELRDLCHNASYEKVRDHLVNHGFVVTIGDYIRDAINIGANGVCNA 550
Query 348 SILSPLYAFAS--EAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMM 405
+I +P AF E+ + V +I + N L I+ + Y + D
Sbjct 551 TINAPFIAFTGLGESFKKVAAI---PWKICSNLKSALDYYCSNIMFRVFPYDIP-CDVND 606
Query 406 FTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGT----VYEKLKPVLDWLEEKFKEGVEF 461
F L + +A + V++ + + GT L L+ + F
Sbjct 607 FVELLLDCGKLTVA-TSYFVLRYLDEKFDTVLGTVSNACQTALSSFLNACVAASRATAGF 665
Query 462 LRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLK 521
+ D +++ K + V A+ + VQ +++K + L ++ G KL
Sbjct 666 ISDMFKLFKVLMHKLYVYTSCGYVAVAEHSSKIVQQVLDIMSKAMKLLHTNVSWAGTKLS 725
Query 522 ALNL-GETFVTHSKGLY----RKCVKSREETGLLMPLKAPKEIIFL-----EGETLPTEV 571
A+ G + + G Y K +++ L++P K+ + + +T+
Sbjct 726 AIIYEGREALLFNSGTYFCLSTKAKTLQDQMNLVLPGDYNKKTLGILDPVPNADTIDVTA 785
Query 572 LTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMVTNN 631
+ V + G L+ PT+E + +VG V ++ + + D E Y L N V +
Sbjct 786 NSTVVDVVHGQLE----PTNEHGPSMIVGNYVLVSDKLFVRTDDEEFY-PLCINGKVVST 840
Query 632 TFTLKGG 638
F LKGG
Sbjct 841 LFRLKGG 847
>sp|P0C6F7|R1A_BC133 Replicase polyprotein 1a OS=Bat coronavirus
133/2005 OX=389230 GN=1a PE=3 SV=1
Length=4441
Score = 709 bits (1829), Expect = 0.0, Method: Composition-based stats.
Identities = 146/667 (22%), Positives = 268/667 (40%), Gaps = 53/667 (8%)
Query 6 VDNNFCGPDGYPLECIKDLLARAGKA--SCTLSEQLDFIDTKRGVYCCREHEHEIAWYTE 63
VD CG +G P+ ++A+ G + + +D+ R + + + + W
Sbjct 200 VDQYMCGKNGKPIADYAKIVAKEGLTTLADIEVDVKSRMDSDRFI-VLNKKLYRVVWNVT 258
Query 64 RSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRSV 123
R Y QT F + + D P F + S I + P ++ F + R +
Sbjct 259 RRNVPYSKQTAFTVVSVIQCDD-KESVPEHTFTIGSQILMVSP-LKATNNKNFNLKQRLL 316
Query 124 ---YPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKE-GATTCGY 179
Y + + + S + C+ CG +W TG+ ++ CG + + G
Sbjct 317 HTFYGKEAVQQPGYIYHSAYVDCNACGRGTWCTGNAIQGFACDCGANYSANDVDLQSSGL 376
Query 180 LPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGR--TIAFGGCVFSYVGCH 237
+P+NA+ CP +N H+ A+ ++ K + GG+ T+ FGG V++Y+GC
Sbjct 377 VPKNALFLANCPCANNGAC--SHNAAQVYSILDGKACVEVGGKSFTLTFGGVVYAYMGCC 434
Query 238 NKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLE----ILQKEKVNINIVGDFKLNEEI 293
+ Y+VPRA + + + G G D ++E L+K + ++N F L E
Sbjct 435 DGTMYFVPRAKSCVSRI-GDAIFTGCTGTWDKVVETANLFLEKAQHSLNFCQQFALTE-- 491
Query 294 AIILASFSASTSAFVETVKGLDYKAFKQIVESCGN--FKVTKGKAKKGAWNIGEQ----K 347
++LA S +TS F E +++++ + N F VT G + A NIG
Sbjct 492 -VVLAILSGTTSTFEELRDLCHNASYEKVRDHLVNHGFVVTIGDYIRDAINIGANGVCNA 550
Query 348 SILSPLYAFAS--EAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMM 405
+I +P AF E+ + V +I + N L I+ + Y + D
Sbjct 551 TINAPFIAFTGLGESFKKVAAI---PWKICSNLKSALDYYCSNIMFRVFPYDIP-CDVND 606
Query 406 FTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGT----VYEKLKPVLDWLEEKFKEGVEF 461
F L + +A + V++ + + GT L L+ + F
Sbjct 607 FVELLLDCGKLTVA-TSYFVLRYLDEKFDTVLGTVSNACQTALSSFLNACVAASRATAGF 665
Query 462 LRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLK 521
+ D +++ K + V A+ + VQ +++K + L ++ G KL
Sbjct 666 ISDMFKLFKVLMHKLYVYTSCGYVAVAEHSSKIVQQVLDIMSKAMKLLHTNVSWAGTKLS 725
Query 522 ALNL-GETFVTHSKGLY----RKCVKSREETGLLMPLKAPKEIIFL-----EGETLPTEV 571
A+ G + + G Y K +++ L++P K+ + + +T+
Sbjct 726 AIIYEGREALLFNSGTYFCLSTKAKTLQDQMNLVLPGDYNKKTLGILDPVPNADTIDVTA 785
Query 572 LTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMVTNN 631
+ V + G L+ PT+E + +VG V ++ + + D E Y L N V +
Sbjct 786 NSTVVDVVHGQLE----PTNEHGPSMIVGNYVLVSDKLFVRTDDEEFY-PLCINGKVVST 840
Query 632 TFTLKGG 638
F LKGG
Sbjct 841 LFRLKGG 847
>sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus
HKU5 OX=694008 GN=rep PE=3 SV=1
Length=7182
Score = 661 bits (1704), Expect = 0.0, Method: Composition-based stats.
Identities = 143/670 (21%), Positives = 281/670 (42%), Gaps = 55/670 (8%)
Query 6 VDNNFCGPDGYPLECIKDLLARAG--KASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTE 63
+D CG +G P+ L+A G K + +E D+ R + + + I W +
Sbjct 200 IDQYMCGKNGKPIAEFAALMASEGITKLADVEAEVKSRTDSDRYI-VFKNKLYRIVWNVQ 258
Query 64 RSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRSV 123
R + +Y Q+ F + + DT + P F + S I+ I P + + R +
Sbjct 259 RKDVAYSKQSAFTMNSIVQLDTME-DVPRHSFTIGSEIQVIAPSTAVQANGHLNLKQRLL 317
Query 124 YPV---ASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKE-GATTCGY 179
Y + +E N + S + C CG+ SW TG+ V+ CG + + G
Sbjct 318 YAFYGKQAVSEPNYIYHSAYVDCTSCGKGSWLTGNAVQGFACDCGAHYCANDVDLQSSGL 377
Query 180 LPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRT--IAFGGCVFSYVGCH 237
+ +NAV+ CP + E +H+L + + K + G+T + +GG +++Y+GC
Sbjct 378 VRKNAVLLTTCPCNKDGEC--KHTLPQLVSMMTDKCDVEVVGKTFILTYGGVIYAYMGCS 435
Query 238 NKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLE----ILQKEKVNINIVGDFKLNEEI 293
+++PRA + + + G G + E L++ + IN V +F L E +
Sbjct 436 GGTMHFIPRAKSCVSKI-GDAIFTGCTGTWSKVCETANLFLERAQHAINFVNEFVLTETV 494
Query 294 AIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGE----QKSI 349
+L+ ++S + + ++ + + G + VT G +G N+G ++
Sbjct 495 VALLSGTTSSIEELRDLCRNATFEKVRDYLTPRG-WIVTMGSYIEGVINVGAAGVCNAAL 553
Query 350 LSPLY-------AFASEAARVVR--SIFSRTLETAQNSVRVLQKAAITILDGISQYSLRL 400
+P +F AA + S TL+ +S+ + I ++ Y+ L
Sbjct 554 NAPFIVLSGLGESFKKVAATPWKLCSSLRETLDHYADSI-TYRVFPYDIPCDVTDYTALL 612
Query 401 IDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVE 460
+D + T A V Y+ V QLT+ +F + + + +K +
Sbjct 613 LDCAVLTGASA---YFVARYVDEKVEQLTNL----VFSSCQSAVAAFVQACMSTYKATAK 665
Query 461 FLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKL 520
F+ D + ++K +S V + ++ F +++K + L ++ G+KL
Sbjct 666 FISDMFTLIKVVSERLYVYTSVGFVVVGDYSSQLLKQFMHILSKAMQLLHTTVSWAGSKL 725
Query 521 KAL--NLGETFVTHSKGLY---RKCVKSREETGLLMPLK-APKEIIFLE----GETLPTE 570
++ N ++ V S Y + +++ L++P + K+I LE T+ +
Sbjct 726 PSVVYNGRDSLVFPSGTYYCVSTQGRSLQDQFDLVIPGDLSKKQIGILEPTPNSTTVDKK 785
Query 571 VLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCI-NGLMLLEIKDTEK-YCALAPNMMV 628
+ T V + G L+P ++ + E +VG V I N + + ++D+E + L + +
Sbjct 786 INTNVVEVVVGQLEPTKEHSPEL----VVGDYVIISNKIFVRSVEDSETVFYPLCTDGKI 841
Query 629 TNNTFTLKGG 638
F LKGG
Sbjct 842 VPTLFRLKGG 851
>sp|P0C6T5|R1A_BCHK5 Replicase polyprotein 1a OS=Bat coronavirus
HKU5 OX=694008 GN=1a PE=3 SV=1
Length=4481
Score = 660 bits (1703), Expect = 0.0, Method: Composition-based stats.
Identities = 143/670 (21%), Positives = 281/670 (42%), Gaps = 55/670 (8%)
Query 6 VDNNFCGPDGYPLECIKDLLARAG--KASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTE 63
+D CG +G P+ L+A G K + +E D+ R + + + I W +
Sbjct 200 IDQYMCGKNGKPIAEFAALMASEGITKLADVEAEVKSRTDSDRYI-VFKNKLYRIVWNVQ 258
Query 64 RSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRSV 123
R + +Y Q+ F + + DT + P F + S I+ I P + + R +
Sbjct 259 RKDVAYSKQSAFTMNSIVQLDTME-DVPRHSFTIGSEIQVIAPSTAVQANGHLNLKQRLL 317
Query 124 YPV---ASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKE-GATTCGY 179
Y + +E N + S + C CG+ SW TG+ V+ CG + + G
Sbjct 318 YAFYGKQAVSEPNYIYHSAYVDCTSCGKGSWLTGNAVQGFACDCGAHYCANDVDLQSSGL 377
Query 180 LPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRT--IAFGGCVFSYVGCH 237
+ +NAV+ CP + E +H+L + + K + G+T + +GG +++Y+GC
Sbjct 378 VRKNAVLLTTCPCNKDGEC--KHTLPQLVSMMTDKCDVEVVGKTFILTYGGVIYAYMGCS 435
Query 238 NKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLE----ILQKEKVNINIVGDFKLNEEI 293
+++PRA + + + G G + E L++ + IN V +F L E +
Sbjct 436 GGTMHFIPRAKSCVSKI-GDAIFTGCTGTWSKVCETANLFLERAQHAINFVNEFVLTETV 494
Query 294 AIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGE----QKSI 349
+L+ ++S + + ++ + + G + VT G +G N+G ++
Sbjct 495 VALLSGTTSSIEELRDLCRNATFEKVRDYLTPRG-WIVTMGSYIEGVINVGAAGVCNAAL 553
Query 350 LSPLY-------AFASEAARVVR--SIFSRTLETAQNSVRVLQKAAITILDGISQYSLRL 400
+P +F AA + S TL+ +S+ + I ++ Y+ L
Sbjct 554 NAPFIVLSGLGESFKKVAATPWKLCSSLRETLDHYADSI-TYRVFPYDIPCDVTDYTALL 612
Query 401 IDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVE 460
+D + T A V Y+ V QLT+ +F + + + +K +
Sbjct 613 LDCAVLTGASA---YFVARYVDEKVEQLTNL----VFSSCQSAVAAFVQACMSTYKATAK 665
Query 461 FLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKL 520
F+ D + ++K +S V + ++ F +++K + L ++ G+KL
Sbjct 666 FISDMFTLIKVVSERLYVYTSVGFVVVGDYSSQLLKQFMHILSKAMQLLHTTVSWAGSKL 725
Query 521 KAL--NLGETFVTHSKGLY---RKCVKSREETGLLMPLK-APKEIIFLE----GETLPTE 570
++ N ++ V S Y + +++ L++P + K+I LE T+ +
Sbjct 726 PSVVYNGRDSLVFPSGTYYCVSTQGRSLQDQFDLVIPGDLSKKQIGILEPTPNSTTVDKK 785
Query 571 VLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCI-NGLMLLEIKDTEK-YCALAPNMMV 628
+ T V + G L+P ++ + E +VG V I N + + ++D+E + L + +
Sbjct 786 INTNVVEVVVGQLEPTKEHSPEL----VVGDYVIISNKIFVRSVEDSETVFYPLCTDGKI 841
Query 629 TNNTFTLKGG 638
F LKGG
Sbjct 842 VPTLFRLKGG 851
>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 = 604 bits (1558), Expect = 0.0, Method: Composition-based stats.
Identities = 136/672 (20%), Positives = 261/672 (39%), Gaps = 55/672 (8%)
Query 6 VDNNFCGPDGYPLECIKDLLARAG--KASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTE 63
VD CG DG P+ L+A+ G K + ++ D G + + + + W+ E
Sbjct 198 VDQYMCGVDGKPISAYAFLMAKDGITKLADVEADVAARAD-DEGFITLKNNLYRLVWHVE 256
Query 64 RSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRSV 123
R + Y Q+ F I + D P++ F L I T+ PR + + + + +
Sbjct 257 RKDVPYPKQSIFTINSVVQKDGVENTPPHY-FTLGCKILTLTPRNKWSGVSDLSLKQKLL 315
Query 124 YPV---ASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKE-GATTCGY 179
Y S + S ++C CG SW TG+ ++ CG + + G
Sbjct 316 YTFYGKESLENPTYIYHSAFIECGSCGNDSWLTGNAIQGFACGCGASYTANDVEVQSSGM 375
Query 180 LPQNAVVKIYCPACHNSEVGP--EHSLAEYHNESG--LKTILRKGGRTIAFGGCVFSYVG 235
+ NA++ CP +HS+A+ + I T+ FGG ++Y G
Sbjct 376 IKPNALLCATCPFAKGDSCSSNCKHSVAQLVSYLSERCNVIADSKSFTLIFGGVAYAYFG 435
Query 236 CHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLE----ILQKEKVNINIVGDFKLNE 291
C Y+VPRA + + + G G + + + L++ + ++N VG+F +N+
Sbjct 436 CEEGTMYFVPRAKSVVSRIGDSI-FTGCTGSWNKVTQIANMFLEQTQHSLNFVGEFVVND 494
Query 292 EIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIG----EQK 347
+ IL+ + + + +KG+ + + + VT G A N+G +
Sbjct 495 VVLAILSGTTTNVDKIRQLLKGVTLDKLRDYLADY-DVAVTAGPFMDNAINVGGTGLQYA 553
Query 348 SILSPLYAFAS--EAARVVRSIFSRTLETAQNSV-----RVLQKAAITILD-GISQYSLR 399
+I +P E+ + V +I + + ++++ VL + +D G+S +S
Sbjct 554 AITAPYVVLTGLGESFKKVATIPYKVCNSVKDTLTYYAHSVLYRVFPYDMDSGVSSFSEL 613
Query 400 LIDAMMFTSDLATNNLVVMAYITGGVVQ-LTSQWLTNIFGTVYEKLKPVLDWLEEKFKEG 458
L D + + V Y ++Q T +++ I + + +LD E +
Sbjct 614 LFDCVDLS--------VASTYFLVRLLQDKTGDFMSTIITSCQTAVSKLLDTCFEATEAT 665
Query 459 VEFLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGA 518
FL D + + A V ++ V+ L+NK + L + G+
Sbjct 666 FNFLLDLAGLFRIFLRNAYVYTSQGFVVVNGKVSTLVKQVLDLLNKGMQLLHTKVSWAGS 725
Query 519 KLKALNL--GETFVTHSKGLY---RKCVKSREETGLLMPLKAPKEIIFLEGETLP----- 568
+ A+ E+ + S Y K +++ +++P + K+ + L T
Sbjct 726 NISAVIYSGRESLIFPSGTYYCVTTKAKSVQQDLDVILPGEFSKKQLGLLQPTDNSTTVS 785
Query 569 TEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTE--KYCALAPNM 626
V + V G L+ T+ +VG V I+ + + K+ + + N
Sbjct 786 VTVSSNMVETVVGQLEQ----TNMHSPDVIVGDYVIISEKLFVRSKEEDGFAFYPACTNG 841
Query 627 MVTNNTFTLKGG 638
F LKGG
Sbjct 842 HAVPTLFRLKGG 853
>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 = 604 bits (1557), Expect = 0.0, Method: Composition-based stats.
Identities = 136/672 (20%), Positives = 261/672 (39%), Gaps = 55/672 (8%)
Query 6 VDNNFCGPDGYPLECIKDLLARAG--KASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTE 63
VD CG DG P+ L+A+ G K + ++ D G + + + + W+ E
Sbjct 198 VDQYMCGVDGKPISAYAFLMAKDGITKLADVEADVAARAD-DEGFITLKNNLYRLVWHVE 256
Query 64 RSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRSV 123
R + Y Q+ F I + D P++ F L I T+ PR + + + + +
Sbjct 257 RKDVPYPKQSIFTINSVVQKDGVENTPPHY-FTLGCKILTLTPRNKWSGVSDLSLKQKLL 315
Query 124 YPV---ASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKE-GATTCGY 179
Y S + S ++C CG SW TG+ ++ CG + + G
Sbjct 316 YTFYGKESLENPTYIYHSAFIECGSCGNDSWLTGNAIQGFACGCGASYTANDVEVQSSGM 375
Query 180 LPQNAVVKIYCPACHNSEVGP--EHSLAEYHNESG--LKTILRKGGRTIAFGGCVFSYVG 235
+ NA++ CP +HS+A+ + I T+ FGG ++Y G
Sbjct 376 IKPNALLCATCPFAKGDSCSSNCKHSVAQLVSYLSERCNVIADSKSFTLIFGGVAYAYFG 435
Query 236 CHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLE----ILQKEKVNINIVGDFKLNE 291
C Y+VPRA + + + G G + + + L++ + ++N VG+F +N+
Sbjct 436 CEEGTMYFVPRAKSVVSRIGDSI-FTGCTGSWNKVTQIANMFLEQTQHSLNFVGEFVVND 494
Query 292 EIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIG----EQK 347
+ IL+ + + + +KG+ + + + VT G A N+G +
Sbjct 495 VVLAILSGTTTNVDKIRQLLKGVTLDKLRDYLADY-DVAVTAGPFMDNAINVGGTGLQYA 553
Query 348 SILSPLYAFAS--EAARVVRSIFSRTLETAQNSV-----RVLQKAAITILD-GISQYSLR 399
+I +P E+ + V +I + + ++++ VL + +D G+S +S
Sbjct 554 AITAPYVVLTGLGESFKKVATIPYKVCNSVKDTLTYYAHSVLYRVFPYDMDSGVSSFSEL 613
Query 400 LIDAMMFTSDLATNNLVVMAYITGGVVQ-LTSQWLTNIFGTVYEKLKPVLDWLEEKFKEG 458
L D + + V Y ++Q T +++ I + + +LD E +
Sbjct 614 LFDCVDLS--------VASTYFLVRLLQDKTGDFMSTIITSCQTAVSKLLDTCFEATEAT 665
Query 459 VEFLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGA 518
FL D + + A V ++ V+ L+NK + L + G+
Sbjct 666 FNFLLDLAGLFRIFLRNAYVYTSQGFVVVNGKVSTLVKQVLDLLNKGMQLLHTKVSWAGS 725
Query 519 KLKALNL--GETFVTHSKGLY---RKCVKSREETGLLMPLKAPKEIIFLEGETLP----- 568
+ A+ E+ + S Y K +++ +++P + K+ + L T
Sbjct 726 NISAVIYSGRESLIFPSGTYYCVTTKAKSVQQDLDVILPGEFSKKQLGLLQPTDNSTTVS 785
Query 569 TEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTE--KYCALAPNM 626
V + V G L+ T+ +VG V I+ + + K+ + + N
Sbjct 786 VTVSSNMVETVVGQLEQ----TNMHSPDVIVGDYVIISEKLFVRSKEEDGFAFYPACTNG 841
Query 627 MVTNNTFTLKGG 638
F LKGG
Sbjct 842 HAVPTLFRLKGG 853
>sp|P0C6T6|R1A_BCHK9 Replicase polyprotein 1a OS=Bat coronavirus
HKU9 OX=694006 GN=1a PE=3 SV=1
Length=4248
Score = 387 bits (995), Expect = 7e-117, Method: Composition-based stats.
Identities = 134/660 (20%), Positives = 242/660 (37%), Gaps = 96/660 (15%)
Query 7 DNNFCGPDGYPLECIKDLLA--RAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
D +G +E + LL ++ L L T+ G Y + ++A R
Sbjct 181 DQYGFDNNGILVEPVMKLLGVIKSDFTLEQLLAALGKYRTEDG-YDLPDGYVKVAIKVGR 239
Query 65 SEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLN--SIIKTIQPRVEKKKLDGFMGRIRS 122
Q+ F + P + +P + S+++ +P + S
Sbjct 240 KAVPVLKQSIFTVVGVT-----EQLVPGYYYPFSTSSVVEHTKPTRGGPVGKTVEAVMLS 294
Query 123 VYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYLPQ 182
+Y + N + +KC +C W + CG E + ++C
Sbjct 295 LYGTNNYNPATPV---ARLKCSYCDYYGWTPLKDIGTVNCLCGAE---FQLTSSCVDAES 348
Query 183 NAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRT-IAFGGCVFSYVGCHNKCA 241
V+K P C + G++ I G RT ++FGG ++S +G N
Sbjct 349 AGVIK---PGC----------VMLLDKSPGMRLI--PGNRTYVSFGGAIWSPIGKVNGVT 393
Query 242 YWVPRASANIGCNHTGVVGEGSE-GLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
WVPRA + + H+G VG G +N L+E L + I + D N A +A+
Sbjct 394 VWVPRAYSIVAGEHSGAVGSGDTVAINKELVEYLIE---GIRVDADTLDNPTCATFIANL 450
Query 301 SASTSA----FVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAF 356
T A VE+++GL C K+ G E + L A+
Sbjct 451 DCDTKAPVVHTVESLQGL-----------CLANKIMLGDKPLPT---DEFHPFIVGL-AY 495
Query 357 ASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLV 416
+ A ++ SRT E ++ VR ++ +Q+ ++ + N V
Sbjct 496 HVQRACWYGALASRTFEAFRDFVRTEEER-------FAQFFGKVCAPI--------NGCV 540
Query 417 VMAYITGGVVQLTSQWLTN------------IFGTVYEKLKPVLDWLEEKFKEGVEFLRD 464
+AY TG V ++ + N + V + LKP+L+W+ +K + +
Sbjct 541 YLAYTTGRVTLFSAYQVLNTAIAKSKDAFGGVAAIVVDMLKPILEWVLKK----MSIAKG 596
Query 465 GW----EIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKL 520
W E + + +V G+ + + L+ ++ S+ G K+
Sbjct 597 AWLPYAEGLLALFKAQFTVVKGKFQFLRASLNSKCHSLCDLLTTIMSKLLTSVKWAGCKV 656
Query 521 KALNLGETFVTHSKGLYRKCVKSREETGLLM-PLKAPKEIIFLEGETLPTEVLTE-EVVL 578
AL G + KG+ + + GLL+ P + E+ L+G+ LT+ E+
Sbjct 657 DALYTGTYYYFSRKGVLTEVQLCAKRLGLLLTPKQQKMEVEVLDGDFDAPVTLTDLELEE 716
Query 579 KTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TG L+ + + + GT V + + + +D Y + V F L+GG
Sbjct 717 CTGVLEEVFGASD---VKLVKGTLVSLASKLFVRTEDGFLYRYVKSGG-VLGKAFRLRGG 772
>sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus
HKU9 OX=694006 GN=rep PE=1 SV=1
Length=6930
Score = 387 bits (994), Expect = 1e-116, Method: Composition-based stats.
Identities = 134/660 (20%), Positives = 242/660 (37%), Gaps = 96/660 (15%)
Query 7 DNNFCGPDGYPLECIKDLLA--RAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
D +G +E + LL ++ L L T+ G Y + ++A R
Sbjct 181 DQYGFDNNGILVEPVMKLLGVIKSDFTLEQLLAALGKYRTEDG-YDLPDGYVKVAIKVGR 239
Query 65 SEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLN--SIIKTIQPRVEKKKLDGFMGRIRS 122
Q+ F + P + +P + S+++ +P + S
Sbjct 240 KAVPVLKQSIFTVVGVT-----EQLVPGYYYPFSTSSVVEHTKPTRGGPVGKTVEAVMLS 294
Query 123 VYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYLPQ 182
+Y + N + +KC +C W + CG E + ++C
Sbjct 295 LYGTNNYNPATPV---ARLKCSYCDYYGWTPLKDIGTVNCLCGAE---FQLTSSCVDAES 348
Query 183 NAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRT-IAFGGCVFSYVGCHNKCA 241
V+K P C + G++ I G RT ++FGG ++S +G N
Sbjct 349 AGVIK---PGC----------VMLLDKSPGMRLI--PGNRTYVSFGGAIWSPIGKVNGVT 393
Query 242 YWVPRASANIGCNHTGVVGEGSE-GLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF 300
WVPRA + + H+G VG G +N L+E L + I + D N A +A+
Sbjct 394 VWVPRAYSIVAGEHSGAVGSGDTVAINKELVEYLIE---GIRVDADTLDNPTCATFIANL 450
Query 301 SASTSA----FVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAF 356
T A VE+++GL C K+ G E + L A+
Sbjct 451 DCDTKAPVVHTVESLQGL-----------CLANKIMLGDKPLPT---DEFHPFIVGL-AY 495
Query 357 ASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLV 416
+ A ++ SRT E ++ VR ++ +Q+ ++ + N V
Sbjct 496 HVQRACWYGALASRTFEAFRDFVRTEEER-------FAQFFGKVCAPI--------NGCV 540
Query 417 VMAYITGGVVQLTSQWLTN------------IFGTVYEKLKPVLDWLEEKFKEGVEFLRD 464
+AY TG V ++ + N + V + LKP+L+W+ +K + +
Sbjct 541 YLAYTTGRVTLFSAYQVLNTAIAKSKDAFGGVAAIVVDMLKPILEWVLKK----MSIAKG 596
Query 465 GW----EIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKL 520
W E + + +V G+ + + L+ ++ S+ G K+
Sbjct 597 AWLPYAEGLLALFKAQFTVVKGKFQFLRASLNSKCHSLCDLLTTIMSKLLTSVKWAGCKV 656
Query 521 KALNLGETFVTHSKGLYRKCVKSREETGLLM-PLKAPKEIIFLEGETLPTEVLTE-EVVL 578
AL G + KG+ + + GLL+ P + E+ L+G+ LT+ E+
Sbjct 657 DALYTGTYYYFSRKGVLTEVQLCAKRLGLLLTPKQQKMEVEVLDGDFDAPVTLTDLELEE 716
Query 579 KTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGG 638
TG L+ + + + GT V + + + +D Y + V F L+GG
Sbjct 717 CTGVLEEVFGASD---VKLVKGTLVSLASKLFVRTEDGFLYRYVKSGG-VLGKAFRLRGG 772
>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 = 81.0 bits (198), Expect = 3e-14, Method: Composition-based stats.
Identities = 113/663 (17%), Positives = 196/663 (30%), Gaps = 114/663 (17%)
Query 5 YVDNNFCGPDG---YPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWY 61
YVD C G LE D + KA + Q D +AW+
Sbjct 252 YVDQYGCDYTGGLADGLEAYADKTLQEMKALFPIWSQELPFDVT------------VAWH 299
Query 62 TERSEKSY--ELQTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPRVEK 110
R + Y LQ+ I+ D +G P V+ +SII Q +
Sbjct 300 VVR-DPRYVMRLQSASTIRSVAYVANPTEDLCDGSVVIKEPVHVYADDSIILR-QHNLVD 357
Query 111 KKLDGFMGRIRSVYPVASPN--ECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCG 165
+M V + +C + + C D C W G+ + CG
Sbjct 358 IMSCFYMEADAVVNAFYGVDLKDCGFVMQFGYIDCEQDLCDFKGWVPGNMIDGFACTTCG 417
Query 166 TENLTKEGA-TTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTI 224
T + + G LP N V+ A + G + S Y G +
Sbjct 418 HVYETGDLLAQSSGVLPVNPVLHTKSAAGYGG-FGCKDSFTLY------------GQTVV 464
Query 225 AFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLE--------ILQK 276
FGGCV+ W+P +++ ++ G+V G G + E L
Sbjct 465 YFGGCVY----WSPARNIWIPILKSSV-KSYDGLVYTGVVGCKAIVKETNLICKALYLDY 519
Query 277 EKVNINIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKA 336
+ + +L + + + ++ +DY ++ S F V
Sbjct 520 VQHKCGNLHQRELLGVSDVWHKQLLLNRGVYKPLLENIDYFNMRRAKFSLETFTVCADGF 579
Query 337 KKGAWNIGEQKSILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQY 396
+ ++ A + +A A I +
Sbjct 580 MPFLLDDLVPRAY---YLAVSGQAFC---------------------DYADKICHAVVSK 615
Query 397 SLRLIDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFK 456
S L+D + + Y+ +V L +Q ++ + K+ K
Sbjct 616 SKELLDV------SLDSLSAAIHYLNSKIVDL-AQHFSDFGTSFVSKIVHFF-----KTF 663
Query 457 EGVEFLRDGWEIVKFISTCACEIVGGQIVTCAK---EIKESVQTFFKLVNKFLALCADSI 513
L W + + A +V I Q F + L +
Sbjct 664 TTSTALAFAWVLFHVL-HGAYIVVESDIYFVKNIPRYASAVAQAFRSVAKVVLDSLRVTF 722
Query 514 IIGGA-----KLKALNLGETFVTHSKGLYRKCVKSREETGLLMPLK---APKEIIFLEGE 565
I G + + + G +GL + L MP + A ++ I+L+G
Sbjct 723 IDGLSCFKIGRRRICLSGSKIYEVERGLLHSSQLPLDVYDLTMPSQVQKAKQKPIYLKGS 782
Query 566 TLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPN 625
+ V + T L P E P V +CI + + K +KY + +
Sbjct 783 GSDFSLADSVVEVVTTSLTPCG-----YSEPPKVADKICIVDNVYMA-KAGDKYYPVVVD 836
Query 626 MMV 628
V
Sbjct 837 GHV 839
>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 = 81.0 bits (198), Expect = 3e-14, Method: Composition-based stats.
Identities = 113/663 (17%), Positives = 196/663 (30%), Gaps = 114/663 (17%)
Query 5 YVDNNFCGPDG---YPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWY 61
YVD C G LE D + KA + Q D +AW+
Sbjct 252 YVDQYGCDYTGGLADGLEAYADKTLQEMKALFPIWSQELPFDVT------------VAWH 299
Query 62 TERSEKSY--ELQTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPRVEK 110
R + Y LQ+ I+ D +G P V+ +SII Q +
Sbjct 300 VVR-DPRYVMRLQSASTIRSVAYVANPTEDLCDGSVVIKEPVHVYADDSIILR-QHNLVD 357
Query 111 KKLDGFMGRIRSVYPVASPN--ECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCG 165
+M V + +C + + C D C W G+ + CG
Sbjct 358 IMSCFYMEADAVVNAFYGVDLKDCGFVMQFGYIDCEQDLCDFKGWVPGNMIDGFACTTCG 417
Query 166 TENLTKEGA-TTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTI 224
T + + G LP N V+ A + G + S Y G +
Sbjct 418 HVYETGDLLAQSSGVLPVNPVLHTKSAAGYGG-FGCKDSFTLY------------GQTVV 464
Query 225 AFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLE--------ILQK 276
FGGCV+ W+P +++ ++ G+V G G + E L
Sbjct 465 YFGGCVY----WSPARNIWIPILKSSV-KSYDGLVYTGVVGCKAIVKETNLICKALYLDY 519
Query 277 EKVNINIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKA 336
+ + +L + + + ++ +DY ++ S F V
Sbjct 520 VQHKCGNLHQRELLGVSDVWHKQLLLNRGVYKPLLENIDYFNMRRAKFSLETFTVCADGF 579
Query 337 KKGAWNIGEQKSILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQY 396
+ ++ A + +A A I +
Sbjct 580 MPFLLDDLVPRAY---YLAVSGQAFC---------------------DYADKICHAVVSK 615
Query 397 SLRLIDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFK 456
S L+D + + Y+ +V L +Q ++ + K+ K
Sbjct 616 SKELLDV------SLDSLSAAIHYLNSKIVDL-AQHFSDFGTSFVSKIVHFF-----KTF 663
Query 457 EGVEFLRDGWEIVKFISTCACEIVGGQIVTCAK---EIKESVQTFFKLVNKFLALCADSI 513
L W + + A +V I Q F + L +
Sbjct 664 TTSTALAFAWVLFHVL-HGAYIVVESDIYFVKNIPRYASAVAQAFRSVAKVVLDSLRVTF 722
Query 514 IIGGA-----KLKALNLGETFVTHSKGLYRKCVKSREETGLLMPLK---APKEIIFLEGE 565
I G + + + G +GL + L MP + A ++ I+L+G
Sbjct 723 IDGLSCFKIGRRRICLSGSKIYEVERGLLHSSQLPLDVYDLTMPSQVQKAKQKPIYLKGS 782
Query 566 TLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPN 625
+ V + T L P E P V +CI + + K +KY + +
Sbjct 783 GSDFSLADSVVEVVTTSLTPCG-----YSEPPKVADKICIVDNVYMA-KAGDKYYPVVVD 836
Query 626 MMV 628
V
Sbjct 837 GHV 839
>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 = 80.6 bits (197), Expect = 3e-14, Method: Composition-based stats.
Identities = 113/663 (17%), Positives = 196/663 (30%), Gaps = 114/663 (17%)
Query 5 YVDNNFCGPDG---YPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWY 61
YVD C G LE D + KA + Q D +AW+
Sbjct 252 YVDQYGCDYTGGLADGLEAYADKTLQEMKALFPIWSQELPFDVT------------VAWH 299
Query 62 TERSEKSY--ELQTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPRVEK 110
R + Y LQ+ I+ D +G P V+ +SII Q +
Sbjct 300 VVR-DPRYVMRLQSASTIRSVAYVANPTEDLCDGSVVIKEPVHVYADDSIILR-QHNLVD 357
Query 111 KKLDGFMGRIRSVYPVASPN--ECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCG 165
+M V + +C + + C D C W G+ + CG
Sbjct 358 IMSCFYMEADAVVNAFYGVDLKDCGFVMQFGYIDCEQDLCDFKGWVPGNMIDGFACTTCG 417
Query 166 TENLTKEGA-TTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTI 224
T + + G LP N V+ A + G + S Y G +
Sbjct 418 HVYETGDLLAQSSGVLPVNPVLHTKSAAGYGG-FGCKDSFTLY------------GQTVV 464
Query 225 AFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLE--------ILQK 276
FGGCV+ W+P +++ ++ G+V G G + E L
Sbjct 465 YFGGCVY----WSPARNIWIPILKSSV-KSYDGLVYTGVVGCKAIVKETNLICKALYLDY 519
Query 277 EKVNINIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKA 336
+ + +L + + + ++ +DY ++ S F V
Sbjct 520 VQHKCGNLHQRELLGVSDVWHKQLLLNRGVYKPLLENIDYFNMRRAKFSLETFTVCADGF 579
Query 337 KKGAWNIGEQKSILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQY 396
+ ++ A + +A A I +
Sbjct 580 MPFLLDDLVPRAY---YLAVSGQAFC---------------------DYADKICHAVVSK 615
Query 397 SLRLIDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFK 456
S L+D + + Y+ +V L +Q ++ + K+ K
Sbjct 616 SKELLDV------SLDSLSAAIHYLNSKIVDL-AQHFSDFGTSFVSKIVHFF-----KTF 663
Query 457 EGVEFLRDGWEIVKFISTCACEIVGGQIVTCAK---EIKESVQTFFKLVNKFLALCADSI 513
L W + + A +V I Q F + L +
Sbjct 664 TTSTALAFAWVLFHVL-HGAYIVVESDIYFVKNIPRYASAVAQAFRSVAKVVLDSLRVTF 722
Query 514 IIGGA-----KLKALNLGETFVTHSKGLYRKCVKSREETGLLMPLK---APKEIIFLEGE 565
I G + + + G +GL + L MP + A ++ I+L+G
Sbjct 723 IDGLSCFKIGRRRICLSGSKIYEVERGLLHSSQLPLDVYDLTMPSQVQKAKQKPIYLKGS 782
Query 566 TLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPN 625
+ V + T L P E P V +CI + + K +KY + +
Sbjct 783 GSDFSLADSVVEVVTTSLTPCG-----YSEPPKVADKICIVDNVYMA-KAGDKYYPVVVD 836
Query 626 MMV 628
V
Sbjct 837 GHV 839
>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 = 80.2 bits (196), Expect = 4e-14, Method: Composition-based stats.
Identities = 113/663 (17%), Positives = 196/663 (30%), Gaps = 114/663 (17%)
Query 5 YVDNNFCGPDG---YPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWY 61
YVD C G LE D + KA + Q D +AW+
Sbjct 252 YVDQYGCDYTGGLADGLEAYADKTLQEMKALFPIWSQELPFDVT------------VAWH 299
Query 62 TERSEKSY--ELQTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPRVEK 110
R + Y LQ+ I+ D +G P V+ +SII Q +
Sbjct 300 VVR-DPRYVMRLQSASTIRSVAYVANPTEDLCDGSVVIKEPVHVYADDSIILR-QHNLVD 357
Query 111 KKLDGFMGRIRSVYPVASPN--ECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCG 165
+M V + +C + + C D C W G+ + CG
Sbjct 358 IMSCFYMEADAVVNAFYGVDLKDCGFVMQFGYIDCEQDLCDFKGWVPGNMIDGFACTTCG 417
Query 166 TENLTKEGA-TTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTI 224
T + + G LP N V+ A + G + S Y G +
Sbjct 418 HVYETGDLLAQSSGVLPVNPVLHTKSAAGYGG-FGCKDSFTLY------------GQTVV 464
Query 225 AFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLE--------ILQK 276
FGGCV+ W+P +++ ++ G+V G G + E L
Sbjct 465 YFGGCVY----WSPARNIWIPILKSSV-KSYDGLVYTGVVGCKAIVKETNLICKALYLDY 519
Query 277 EKVNINIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKA 336
+ + +L + + + ++ +DY ++ S F V
Sbjct 520 VQHKCGNLHQRELLGVSDVWHKQLLLNRGVYKPLLENIDYFNMRRAKFSLETFTVCADGF 579
Query 337 KKGAWNIGEQKSILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQY 396
+ ++ A + +A A I +
Sbjct 580 MPFLLDDLVPRAY---YLAVSGQAFC---------------------DYADKICHAVVSK 615
Query 397 SLRLIDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFK 456
S L+D + + Y+ +V L +Q ++ + K+ K
Sbjct 616 SKELLDV------SLDSLSAAIHYLNSKIVDL-AQHFSDFGTSFVSKIVHFF-----KTF 663
Query 457 EGVEFLRDGWEIVKFISTCACEIVGGQIVTCAK---EIKESVQTFFKLVNKFLALCADSI 513
L W + + A +V I Q F + L +
Sbjct 664 TTSTALAFAWVLFHVL-HGAYIVVESDIYFVKNIPRYASAVAQAFRSVAKVVLDSLRVTF 722
Query 514 IIGGA-----KLKALNLGETFVTHSKGLYRKCVKSREETGLLMPLK---APKEIIFLEGE 565
I G + + + G +GL + L MP + A ++ I+L+G
Sbjct 723 IDGLSCFKIGRRRICLSGSKIYEVERGLLHSSQLPLDVYDLTMPSQVQKAKQKPIYLKGS 782
Query 566 TLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDTEKYCALAPN 625
+ V + T L P E P V +CI + + K +KY + +
Sbjct 783 GSDFSLADSVVEVVTTSLTPCG-----YSEPPKVADKICIVDNVYMA-KAGDKYYPVVVD 836
Query 626 MMV 628
V
Sbjct 837 GHV 839
>sp|P0C6W9|R1AB_CVBM Replicase polyprotein 1ab OS=Bovine coronavirus
(strain Mebus) OX=11132 GN=rep PE=3 SV=1
Length=7094
Score = 80.6 bits (197), Expect = 4e-14, Method: Composition-based stats.
Identities = 115/672 (17%), Positives = 197/672 (29%), Gaps = 132/672 (20%)
Query 5 YVDNNFCGPDG---YPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWY 61
YVD C G LE D + KA + Q D +AW+
Sbjct 252 YVDQYGCDYTGGLADGLEAYADKTLQEMKALFPIWSQELPFDVT------------VAWH 299
Query 62 TERSEKSY--ELQTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPRVEK 110
R + Y LQ+ I+ D +G P V+ +SII Q +
Sbjct 300 VVR-DPRYVMRLQSASTIRSVAYVANPTEDLCDGSVVIKEPVHVYADDSIILR-QHNLVD 357
Query 111 KKLDGFMGRIRSVYPVASPN--ECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCG 165
+M V + +C + + C D C W G+ + CG
Sbjct 358 IMSCFYMEADAVVNAFYGVDLKDCGFVMQFGYIDCEQDLCDFKGWVPGNMIDGFACTTCG 417
Query 166 TENLTKEGA-TTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTI 224
T + + G LP N V+ A + G + S Y G +
Sbjct 418 HVYETGDLLAQSSGVLPVNPVLHTKSAAGYGG-FGCKDSFTLY------------GQTVV 464
Query 225 AFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIV 284
FGGCV+ W+P +++ ++ G+V G G
Sbjct 465 YFGGCVY----WSPARNIWIPILKSSV-KSYDGLVYTGVVGC------------------ 501
Query 285 GDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVES-CGNFKVTKGKAKKGAW-- 341
A V+ + + V+ CGN + W
Sbjct 502 --------------------KAIVKETNLICKALYLDYVQHKCGNLHQRELLGVSDVWHK 541
Query 342 ----NIGEQKSILSPLYAFASEAARVVRSIFSRTLETA-----QNSVRVLQKAAITILDG 392
N G K +L + F A+ F+ + + V A++
Sbjct 542 QLLLNRGVYKPLLENIDYFNMRRAKFSLETFTVCADGFMPFLLDDLVPRAYYLAVSG-QA 600
Query 393 ISQYSLRLIDAMM-----FTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPV 447
Y+ ++ A++ + + Y+ +V L +Q ++ + K+
Sbjct 601 FCDYAGKICHAVVSKSKELLDVSLDSLGAAIHYLNSKIVDL-AQHFSDFGTSFVSKIVHF 659
Query 448 LDWLEEKFKEGVEFLRDGWEIVKFISTCACEIVGGQIVTCAK---EIKESVQTFFKLVNK 504
K L W + + A +V I Q F +
Sbjct 660 F-----KTFTTSTALAFAWVLFHVL-HGAYIVVESDIYFVKNIPRYASAVAQAFRSVAKV 713
Query 505 FLALCADSIIIGGA-----KLKALNLGETFVTHSKGLYRKCVKSREETGLLMPLK---AP 556
L + I G + + + G +GL + L MP +
Sbjct 714 VLDSLRVTFIDGLSCFKIGRRRICLSGSKIYEVERGLLHSSQLPLDVYDLTMPSQVQKTK 773
Query 557 KEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDT 616
++ I+L+G + V + T L P E P V +CI + + K
Sbjct 774 QKPIYLKGSGSDFSLADSVVEVVTTSLTPCG-----YSEPPKVADKICIVDNVYMA-KAG 827
Query 617 EKYCALAPNMMV 628
+KY + + V
Sbjct 828 DKYYPVVVDGHV 839
>sp|P0C6U0|R1A_CVBM Replicase polyprotein 1a OS=Bovine coronavirus
(strain Mebus) OX=11132 GN=1a PE=3 SV=1
Length=4383
Score = 79.8 bits (195), Expect = 5e-14, Method: Composition-based stats.
Identities = 115/672 (17%), Positives = 197/672 (29%), Gaps = 132/672 (20%)
Query 5 YVDNNFCGPDG---YPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWY 61
YVD C G LE D + KA + Q D +AW+
Sbjct 252 YVDQYGCDYTGGLADGLEAYADKTLQEMKALFPIWSQELPFDVT------------VAWH 299
Query 62 TERSEKSY--ELQTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPRVEK 110
R + Y LQ+ I+ D +G P V+ +SII Q +
Sbjct 300 VVR-DPRYVMRLQSASTIRSVAYVANPTEDLCDGSVVIKEPVHVYADDSIILR-QHNLVD 357
Query 111 KKLDGFMGRIRSVYPVASPN--ECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCG 165
+M V + +C + + C D C W G+ + CG
Sbjct 358 IMSCFYMEADAVVNAFYGVDLKDCGFVMQFGYIDCEQDLCDFKGWVPGNMIDGFACTTCG 417
Query 166 TENLTKEGA-TTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTI 224
T + + G LP N V+ A + G + S Y G +
Sbjct 418 HVYETGDLLAQSSGVLPVNPVLHTKSAAGYGG-FGCKDSFTLY------------GQTVV 464
Query 225 AFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIV 284
FGGCV+ W+P +++ ++ G+V G G
Sbjct 465 YFGGCVY----WSPARNIWIPILKSSV-KSYDGLVYTGVVGC------------------ 501
Query 285 GDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVES-CGNFKVTKGKAKKGAW-- 341
A V+ + + V+ CGN + W
Sbjct 502 --------------------KAIVKETNLICKALYLDYVQHKCGNLHQRELLGVSDVWHK 541
Query 342 ----NIGEQKSILSPLYAFASEAARVVRSIFSRTLETA-----QNSVRVLQKAAITILDG 392
N G K +L + F A+ F+ + + V A++
Sbjct 542 QLLLNRGVYKPLLENIDYFNMRRAKFSLETFTVCADGFMPFLLDDLVPRAYYLAVSG-QA 600
Query 393 ISQYSLRLIDAMM-----FTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPV 447
Y+ ++ A++ + + Y+ +V L +Q ++ + K+
Sbjct 601 FCDYAGKICHAVVSKSKELLDVSLDSLGAAIHYLNSKIVDL-AQHFSDFGTSFVSKIVHF 659
Query 448 LDWLEEKFKEGVEFLRDGWEIVKFISTCACEIVGGQIVTCAK---EIKESVQTFFKLVNK 504
K L W + + A +V I Q F +
Sbjct 660 F-----KTFTTSTALAFAWVLFHVL-HGAYIVVESDIYFVKNIPRYASAVAQAFRSVAKV 713
Query 505 FLALCADSIIIGGA-----KLKALNLGETFVTHSKGLYRKCVKSREETGLLMPLK---AP 556
L + I G + + + G +GL + L MP +
Sbjct 714 VLDSLRVTFIDGLSCFKIGRRRICLSGSKIYEVERGLLHSSQLPLDVYDLTMPSQVQKTK 773
Query 557 KEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDT 616
++ I+L+G + V + T L P E P V +CI + + K
Sbjct 774 QKPIYLKGSGSDFSLADSVVEVVTTSLTPCG-----YSEPPKVADKICIVDNVYMA-KAG 827
Query 617 EKYCALAPNMMV 628
+KY + + V
Sbjct 828 DKYYPVVVDGHV 839
>sp|P0C6X6|R1AB_CVHOC Replicase polyprotein 1ab OS=Human coronavirus
OC43 OX=31631 GN=rep PE=1 SV=1
Length=7095
Score = 77.9 bits (190), Expect = 2e-13, Method: Composition-based stats.
Identities = 118/674 (18%), Positives = 200/674 (30%), Gaps = 142/674 (21%)
Query 5 YVDNNFCGPDGY---PLECIKDLLARAGKAS-CTLSEQL--DFIDTKRGVYCCREHEHEI 58
YVD C G LE D + KA T S++L D I +
Sbjct 252 YVDQYGCDYTGSLADGLEAYADKTLQEMKALFPTWSQELPFDVI---------------V 296
Query 59 AWYTERSEKSY--ELQTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPR 107
AW+ R + Y LQ+ I D +G P V+ +SII
Sbjct 297 AWHVVR-DPRYVMRLQSAATICSVAYVANPTEDLCDGSVVIKEPVHVYADDSIILRQYNL 355
Query 108 VEKKKLDGFMGR----IRSVYPVASPNECNQMCLSTLMKC--DHCGETSWQTGDFVKATC 161
+ + F + + Y VA +C + + C D C W G+ +
Sbjct 356 FDI--MSHFYMEADTVVNAFYGVA-LKDCGFVMQFGYIDCEQDSCDFKGWIPGNMIDGFA 412
Query 162 E-FCGTENLTKEGA-TTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRK 219
CG + + G LP N V+ A + G + S Y
Sbjct 413 CTTCGHVYEVGDLIAQSSGVLPVNPVLHTKSAAGYGG-FGCKDSFTLY------------ 459
Query 220 GGRTIAFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKV 279
G + FGGCV+ W+P +++ ++ +V G G
Sbjct 460 GQTVVYFGGCVY----WSPARNIWIPILKSSV-KSYDSLVYTGVLGC------------- 501
Query 280 NINIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVES-CGNFKVTKGKAKK 338
A V+ + + V+ CGN +
Sbjct 502 -------------------------KAIVKETNLICKALYLDYVQHKCGNLHQRELLGVS 536
Query 339 GAW------NIGEQKSILSPLYAFASEAARVVRSIFSRTLETA-----QNSVRVLQKAAI 387
W N G K +L + F A+ F+ + + V A+
Sbjct 537 DVWHKQLLINRGVYKPLLENIDYFNMRRAKFSLETFTVCADGFMPFLLDDLVPRAYYLAV 596
Query 388 TILDGISQYSLRLIDAMM-----FTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYE 442
+ Y+ +L A++ + + Y+ +V L +Q ++ +
Sbjct 597 SG-QAFCDYADKLCHAVVSKSKELLDVSLDSLGAAIHYLNSKIVDL-AQHFSDFGTSFVS 654
Query 443 KLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIVGGQIVTCAK---EIKESVQTFF 499
K+ K L W + + A +V I Q F
Sbjct 655 KIVHFF-----KTFTTSTALAFAWVLFHVL-HGAYIVVESDIYFVKNIPRYASAVAQAFQ 708
Query 500 KLVNKFLALCADSIIIGGA-----KLKALNLGETFVTHSKGLYRKCVKSREETGLLMPLK 554
+ L + I G + + + G +GL + L MP +
Sbjct 709 SVAKVVLDSLRVTFIDGLSCFKIGRRRICLSGRKIYEVERGLLHSSQLPLDVYDLTMPSQ 768
Query 555 ---APKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLL 611
A ++ I+L+G + V + T L P E P V +CI + +
Sbjct 769 VQKAKQKPIYLKGSGSDFSLADSVVEVVTTSLTPCG-----YSEPPKVADKICIVDNVYM 823
Query 612 EIKDTEKYCALAPN 625
K +KY + +
Sbjct 824 A-KAGDKYYPVVVD 836
>sp|P0C6U7|R1A_CVHOC Replicase polyprotein 1a OS=Human coronavirus
OC43 OX=31631 GN=1a PE=1 SV=1
Length=4383
Score = 77.5 bits (189), Expect = 3e-13, Method: Composition-based stats.
Identities = 118/674 (18%), Positives = 200/674 (30%), Gaps = 142/674 (21%)
Query 5 YVDNNFCGPDGY---PLECIKDLLARAGKAS-CTLSEQL--DFIDTKRGVYCCREHEHEI 58
YVD C G LE D + KA T S++L D I +
Sbjct 252 YVDQYGCDYTGSLADGLEAYADKTLQEMKALFPTWSQELPFDVI---------------V 296
Query 59 AWYTERSEKSY--ELQTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPR 107
AW+ R + Y LQ+ I D +G P V+ +SII
Sbjct 297 AWHVVR-DPRYVMRLQSAATICSVAYVANPTEDLCDGSVVIKEPVHVYADDSIILRQYNL 355
Query 108 VEKKKLDGFMGR----IRSVYPVASPNECNQMCLSTLMKC--DHCGETSWQTGDFVKATC 161
+ + F + + Y VA +C + + C D C W G+ +
Sbjct 356 FDI--MSHFYMEADTVVNAFYGVA-LKDCGFVMQFGYIDCEQDSCDFKGWIPGNMIDGFA 412
Query 162 E-FCGTENLTKEGA-TTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRK 219
CG + + G LP N V+ A + G + S Y
Sbjct 413 CTTCGHVYEVGDLIAQSSGVLPVNPVLHTKSAAGYGG-FGCKDSFTLY------------ 459
Query 220 GGRTIAFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKV 279
G + FGGCV+ W+P +++ ++ +V G G
Sbjct 460 GQTVVYFGGCVY----WSPARNIWIPILKSSV-KSYDSLVYTGVLGC------------- 501
Query 280 NINIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVES-CGNFKVTKGKAKK 338
A V+ + + V+ CGN +
Sbjct 502 -------------------------KAIVKETNLICKALYLDYVQHKCGNLHQRELLGVS 536
Query 339 GAW------NIGEQKSILSPLYAFASEAARVVRSIFSRTLETA-----QNSVRVLQKAAI 387
W N G K +L + F A+ F+ + + V A+
Sbjct 537 DVWHKQLLINRGVYKPLLENIDYFNMRRAKFSLETFTVCADGFMPFLLDDLVPRAYYLAV 596
Query 388 TILDGISQYSLRLIDAMM-----FTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYE 442
+ Y+ +L A++ + + Y+ +V L +Q ++ +
Sbjct 597 SG-QAFCDYADKLCHAVVSKSKELLDVSLDSLGAAIHYLNSKIVDL-AQHFSDFGTSFVS 654
Query 443 KLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIVGGQIVTCAK---EIKESVQTFF 499
K+ K L W + + A +V I Q F
Sbjct 655 KIVHFF-----KTFTTSTALAFAWVLFHVL-HGAYIVVESDIYFVKNIPRYASAVAQAFQ 708
Query 500 KLVNKFLALCADSIIIGGA-----KLKALNLGETFVTHSKGLYRKCVKSREETGLLMPLK 554
+ L + I G + + + G +GL + L MP +
Sbjct 709 SVAKVVLDSLRVTFIDGLSCFKIGRRRICLSGRKIYEVERGLLHSSQLPLDVYDLTMPSQ 768
Query 555 ---APKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLL 611
A ++ I+L+G + V + T L P E P V +CI + +
Sbjct 769 VQKAKQKPIYLKGSGSDFSLADSVVEVVTTSLTPCG-----YSEPPKVADKICIVDNVYM 823
Query 612 EIKDTEKYCALAPN 625
K +KY + +
Sbjct 824 A-KAGDKYYPVVVD 836
>sp|P0C6X0|R1AB_CVBQ Replicase polyprotein 1ab OS=Bovine coronavirus
(strain Quebec) OX=11133 GN=rep PE=3 SV=1
Length=7059
Score = 76.7 bits (187), Expect = 5e-13, Method: Composition-based stats.
Identities = 117/672 (17%), Positives = 199/672 (30%), Gaps = 132/672 (20%)
Query 5 YVDNNFCGPDG---YPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWY 61
YVD C G LE D + KA + Q D +AW+
Sbjct 252 YVDQYGCDYTGGLADGLEAYADKTLQEMKALFPIWSQELPFDVT------------VAWH 299
Query 62 TERSEKSY--ELQTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPRVEK 110
R + Y LQ+ I+ D +G P V+ +SII Q +
Sbjct 300 VVR-DPRYVMRLQSASTIRSVAYVANPTEDLCDGSVVIKEPVHVYADDSIILR-QHNLVD 357
Query 111 KKLDGFMGRIRSVYPVASPN--ECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCG 165
+M V + +C + + C D C W G+ + CG
Sbjct 358 IMSCFYMEADAVVNAFYGVDLKDCGFVMQFGYIDCEQDLCDFKGWVPGNMIDGFACTTCG 417
Query 166 TENLTKEGA-TTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTI 224
T + + G LP N V+ A + G + S Y G +
Sbjct 418 HVYETGDLLAQSSGVLPVNPVLHTKSAAGYGG-FGCKDSFTLY------------GQTVV 464
Query 225 AFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIV 284
FGGCV+ W+P +++ ++ G+V G G
Sbjct 465 YFGGCVY----WSPARNIWIPILKSSV-KSYDGLVYTGVVGC------------------ 501
Query 285 GDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVES-CGNFKVTKGKAKKGAW-- 341
A V+ + + V+ CGN + W
Sbjct 502 --------------------KAIVKETNLICKALYLDYVQHKCGNLHQRELLGVSDVWHK 541
Query 342 ----NIGEQKSILSPLYAFASEAARVVRSIFSRTLETA-----QNSVRVLQKAAITILDG 392
N G K +L + F A+ F+ + + V A++
Sbjct 542 QLLLNRGVYKPLLENIDYFNMRRAKFSLETFTVCADGFMPFLLDDLVPRAYYLAVSG-QA 600
Query 393 ISQYSLRLIDAMMFTSDLATNNLV-----VMAYITGGVVQLTSQWLTNIFGTVYEKLKPV 447
Y+ ++ A++ S + V + Y+ +V L +Q ++ + K+
Sbjct 601 FCDYAGKICHAVVSKSKELLDVSVDSLGAAIHYLNSKIVDL-AQHFSDFGTSFVSKIVHF 659
Query 448 LDWLEEKFKEGVEFLRDGWEIVKFISTCACEIVGGQIVT---CAKEIKESVQTFFKLVNK 504
K L W + + A +V I + Q F
Sbjct 660 F-----KTFTTSTALAFAWVLFHVL-HGAYIVVESDIYFGKNIPRYASAVAQAFRSGAKV 713
Query 505 FLALCADSIIIGGA-----KLKALNLGETFVTHSKGLYRKCVKSREETGLLMPLK---AP 556
L + I G + + + G +GL + L MP +
Sbjct 714 GLDSLRVTFIDGLSCFKIGRRRICLSGSKIYEVERGLLHSSQLPLDVYDLTMPSQVQKTK 773
Query 557 KEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDT 616
++ I+L+G + V + T L P E P V +CI + + K
Sbjct 774 QKGIYLKGSGSDFSLADSVVEVVTTSLTPCG-----YSEPPKVADKICIVDNVYMA-KAG 827
Query 617 EKYCALAPNMMV 628
+KY + + V
Sbjct 828 DKYYPVVVDGHV 839
>sp|P0C6U1|R1A_CVBQ Replicase polyprotein 1a OS=Bovine coronavirus
(strain Quebec) OX=11133 GN=1a PE=3 SV=1
Length=4383
Score = 76.3 bits (186), Expect = 6e-13, Method: Composition-based stats.
Identities = 117/672 (17%), Positives = 199/672 (30%), Gaps = 132/672 (20%)
Query 5 YVDNNFCGPDG---YPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWY 61
YVD C G LE D + KA + Q D +AW+
Sbjct 252 YVDQYGCDYTGGLADGLEAYADKTLQEMKALFPIWSQELPFDVT------------VAWH 299
Query 62 TERSEKSY--ELQTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPRVEK 110
R + Y LQ+ I+ D +G P V+ +SII Q +
Sbjct 300 VVR-DPRYVMRLQSASTIRSVAYVANPTEDLCDGSVVIKEPVHVYADDSIILR-QHNLVD 357
Query 111 KKLDGFMGRIRSVYPVASPN--ECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCG 165
+M V + +C + + C D C W G+ + CG
Sbjct 358 IMSCFYMEADAVVNAFYGVDLKDCGFVMQFGYIDCEQDLCDFKGWVPGNMIDGFACTTCG 417
Query 166 TENLTKEGA-TTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTI 224
T + + G LP N V+ A + G + S Y G +
Sbjct 418 HVYETGDLLAQSSGVLPVNPVLHTKSAAGYGG-FGCKDSFTLY------------GQTVV 464
Query 225 AFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIV 284
FGGCV+ W+P +++ ++ G+V G G
Sbjct 465 YFGGCVY----WSPARNIWIPILKSSV-KSYDGLVYTGVVGC------------------ 501
Query 285 GDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVES-CGNFKVTKGKAKKGAW-- 341
A V+ + + V+ CGN + W
Sbjct 502 --------------------KAIVKETNLICKALYLDYVQHKCGNLHQRELLGVSDVWHK 541
Query 342 ----NIGEQKSILSPLYAFASEAARVVRSIFSRTLETA-----QNSVRVLQKAAITILDG 392
N G K +L + F A+ F+ + + V A++
Sbjct 542 QLLLNRGVYKPLLENIDYFNMRRAKFSLETFTVCADGFMPFLLDDLVPRAYYLAVSG-QA 600
Query 393 ISQYSLRLIDAMMFTSDLATNNLV-----VMAYITGGVVQLTSQWLTNIFGTVYEKLKPV 447
Y+ ++ A++ S + V + Y+ +V L +Q ++ + K+
Sbjct 601 FCDYAGKICHAVVSKSKELLDVSVDSLGAAIHYLNSKIVDL-AQHFSDFGTSFVSKIVHF 659
Query 448 LDWLEEKFKEGVEFLRDGWEIVKFISTCACEIVGGQIVT---CAKEIKESVQTFFKLVNK 504
K L W + + A +V I + Q F
Sbjct 660 F-----KTFTTSTALAFAWVLFHVL-HGAYIVVESDIYFGKNIPRYASAVAQAFRSGAKV 713
Query 505 FLALCADSIIIGGA-----KLKALNLGETFVTHSKGLYRKCVKSREETGLLMPLK---AP 556
L + I G + + + G +GL + L MP +
Sbjct 714 GLDSLRVTFIDGLSCFKIGRRRICLSGSKIYEVERGLLHSSQLPLDVYDLTMPSQVQKTK 773
Query 557 KEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVGTPVCINGLMLLEIKDT 616
++ I+L+G + V + T L P E P V +CI + + K
Sbjct 774 QKGIYLKGSGSDFSLADSVVEVVTTSLTPCG-----YSEPPKVADKICIVDNVYMA-KAG 827
Query 617 EKYCALAPNMMV 628
+KY + + V
Sbjct 828 DKYYPVVVDGHV 839
>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 = 67.9 bits (164), Expect = 2e-10, Method: Composition-based stats.
Identities = 65/354 (18%), Positives = 102/354 (29%), Gaps = 78/354 (22%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
YVD CG DG P+ + D+ + E+ AW T R
Sbjct 113 YVDQYMCGADGKPV---------------IEGDFKDYF-GDEDIIEFEGEEYHCAWTTVR 156
Query 65 SEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRSVY 124
EK QT F I+ + + P N + + P V+K + +Y
Sbjct 157 DEKPLNQQTLFTIQEIQYNLDIPHKLP------NCATRHVAPPVKKNSKIVLSEDYKKLY 210
Query 125 PVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKAT-CEFCGTENLTKEGATTCGYLPQN 183
+ S M C + T F+ AT CG+E+ T
Sbjct 211 ---------DIFGSPFMGNGDCLSKCFDTLHFIAATLRCPCGSESSGVGDWTG------- 254
Query 184 AVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKCAYW 243
K C G +L + + T + G F CV Y G + W
Sbjct 255 --FKTACCGLSGKVKGV--TLGDIKPGDAVVTSMSAGKGVKFFANCVLQYAGDVEGVSIW 310
Query 244 -------------------------VPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEK 278
P + + + C+ G +
Sbjct 311 KVIKTFTVDETVCTPGFEGELNDFIKPESKSLVACSVKRAFITGD----------IDDAV 360
Query 279 VNINIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVT 332
+ I G L+ + + T FV+ L A+K + E CG+ +T
Sbjct 361 HDCIITGKLDLSTNLFGNVGLLFKKTPWFVQKCGALFVDAWKVVEELCGSLTLT 414
Score = 40.1 bits (92), Expect = 0.078, Method: Composition-based stats.
Identities = 34/175 (19%), Positives = 61/175 (35%), Gaps = 13/175 (7%)
Query 463 RDGWEIVKFISTCACEIV--GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKL 520
+ +E+V + T A IV V +K+ V K++ K + I I G +
Sbjct 416 KQIYEVVASLCTSAFTIVNYKPTFVVPDNRVKDLVDKCVKVLVKAFDVFTQIITIAGIEA 475
Query 521 KALNLGETFVTHSKGLYRKCVKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKT 580
K LG ++ + L L+ K+ LE T ++ V +
Sbjct 476 KCFVLGAKYLLFNNAL----------VKLVSVKILGKKQKGLECAFFATSLVGATVNVTP 525
Query 581 GDLQPLEQPTSEAVEAPLVGT-PVCINGLMLLEIKDTEKYCALAPNMMVTNNTFT 634
+ ++ + G + I G M + +PN ++TNN F
Sbjct 526 KRTETATISLNKVDDVVAPGEGYIVIVGDMAFYKSGEYYFMMSSPNFVLTNNVFK 580
>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 = 67.9 bits (164), Expect = 3e-10, Method: Composition-based stats.
Identities = 65/354 (18%), Positives = 102/354 (29%), Gaps = 78/354 (22%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
YVD CG DG P+ + D+ + E+ AW T R
Sbjct 113 YVDQYMCGADGKPV---------------IEGDFKDYF-GDEDIIEFEGEEYHCAWTTVR 156
Query 65 SEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRSVY 124
EK QT F I+ + + P N + + P V+K + +Y
Sbjct 157 DEKPLNQQTLFTIQEIQYNLDIPHKLP------NCATRHVAPPVKKNSKIVLSEDYKKLY 210
Query 125 PVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKAT-CEFCGTENLTKEGATTCGYLPQN 183
+ S M C + T F+ AT CG+E+ T
Sbjct 211 ---------DIFGSPFMGNGDCLSKCFDTLHFIAATLRCPCGSESSGVGDWTG------- 254
Query 184 AVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKCAYW 243
K C G +L + + T + G F CV Y G + W
Sbjct 255 --FKTACCGLSGKVKGV--TLGDIKPGDAVVTSMSAGKGVKFFANCVLQYAGDVEGVSIW 310
Query 244 -------------------------VPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEK 278
P + + + C+ G +
Sbjct 311 KVIKTFTVDETVCTPGFEGELNDFIKPESKSLVACSVKRAFITGD----------IDDAV 360
Query 279 VNINIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVT 332
+ I G L+ + + T FV+ L A+K + E CG+ +T
Sbjct 361 HDCIITGKLDLSTNLFGNVGLLFKKTPWFVQKCGALFVDAWKVVEELCGSLTLT 414
Score = 40.1 bits (92), Expect = 0.076, Method: Composition-based stats.
Identities = 34/175 (19%), Positives = 61/175 (35%), Gaps = 13/175 (7%)
Query 463 RDGWEIVKFISTCACEIV--GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKL 520
+ +E+V + T A IV V +K+ V K++ K + I I G +
Sbjct 416 KQIYEVVASLCTSAFTIVNYKPTFVVPDNRVKDLVDKCVKVLVKAFDVFTQIITIAGIEA 475
Query 521 KALNLGETFVTHSKGLYRKCVKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKT 580
K LG ++ + L L+ K+ LE T ++ V +
Sbjct 476 KCFVLGAKYLLFNNAL----------VKLVSVKILGKKQKGLECAFFATSLVGATVNVTP 525
Query 581 GDLQPLEQPTSEAVEAPLVGT-PVCINGLMLLEIKDTEKYCALAPNMMVTNNTFT 634
+ ++ + G + I G M + +PN ++TNN F
Sbjct 526 KRTETATISLNKVDDVVAPGEGYIVIVGDMAFYKSGEYYFMMSSPNFVLTNNVFK 580
>sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavirus
(strain 2) OX=76344 GN=rep PE=3 SV=1
Length=7124
Score = 65.9 bits (159), Expect = 1e-09, Method: Composition-based stats.
Identities = 86/538 (16%), Positives = 164/538 (30%), Gaps = 102/538 (19%)
Query 5 YVDNNFC---GPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCR-EHEHEIAW 60
++D C G LE D CTL E + V+C ++E +AW
Sbjct 253 FLDQYGCDYTGRLAKGLEDYGD---------CTLEEMKELFP----VWCDSLDNEVVVAW 299
Query 61 YTERSEKSYEL-QTPFEIKLA-----KKFDTFNGEC----PNFVFPLNSIIKTIQPRVEK 110
+ +R ++ QT I+ D +G+ P + N+I+K + PR+ +
Sbjct 300 HVDRDPRAVMRLQTLATIRSIGYVGQPTEDLVDGDVVVREPAHLLAANAIVKRL-PRLVE 358
Query 111 KKLDGFMGRIRSVYPVASPNECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCGTE 167
L Y +C + + C D C W G+ + C
Sbjct 359 TMLYTDSSVTEFCY-KTKLCDCGFITQFGYVDCCGDACDFRGWVPGNMMDGFLCPGCSKS 417
Query 168 NLTKE-GATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAF 226
+ E A + G +P+ V+ +++ S Y G + F
Sbjct 418 YMPWELEAQSSGVIPKGGVL-----FTQSTDTVNRESFKLY------------GHAVVPF 460
Query 227 GGCVF--SYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNI--N 282
G V+ Y G W+P +++ ++ + G G +++ ++ +
Sbjct 461 GSAVYWSPYPG------MWLPVIWSSV-KSYADLTYTGVVGC-KAIVQETDAICRSLYMD 512
Query 283 IVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWN 342
V N E IL GLD +Q++ V +G N
Sbjct 513 YVQHKCGNLEQRAIL---------------GLDDVYHRQLL-------VNRGDYSLLLEN 550
Query 343 IGEQKSILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQ----YSL 398
+ +E A + + + + I + +S
Sbjct 551 VDL-------FVKRRAEFACKFATCGDGLVPLLLDGLVPRSYYLIKSGQAFTSMMVNFSH 603
Query 399 RLIDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEG 458
+ D M + L +++ V V + + V K+ D +
Sbjct 604 EVTDMCMDMALLFMHDVKVATKYVKKVTGKLAVRFKALGVAVVRKITEWFDLAVDTAASA 663
Query 459 VEFLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIG 516
+L + + G I + + E V+ F F + DS+ +
Sbjct 664 AGWL------CYQLVNGLFAVANGGITFLSD-VPELVKNFVDKFKVFFKVLIDSMSVS 714
>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 = 65.6 bits (158), Expect = 1e-09, Method: Composition-based stats.
Identities = 42/191 (22%), Positives = 67/191 (35%), Gaps = 28/191 (15%)
Query 6 VDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTERS 65
VD CG DG P+ L + + ++ D G+ + AW ERS
Sbjct 115 VDQYMCGADGKPV-----LQESEWEYTDFFADSEDGQLNIAGITYVK------AWIVERS 163
Query 66 EKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTI-QPRVEK-----KKLDGFMGR 119
+ SY Q IK T+ F + +K P+++K + L
Sbjct 164 DVSYASQNLTSIKSITYCSTYE-----HTFLDGTAMKVARTPKIKKNVVLSEPLATIYRE 218
Query 120 IRSVYPVASPNECNQM----CLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGAT 175
I S + + + + L +KC CG W GD+ CG +
Sbjct 219 IGSPFVDNGSDARSIIRRPVFLHAFVKCK-CGSYHWTVGDWTSYVSTCCGFK-CKPVLVA 276
Query 176 TCGYLPQNAVV 186
+C +P + VV
Sbjct 277 SCSAMPGSVVV 287
>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 = 65.6 bits (158), Expect = 1e-09, Method: Composition-based stats.
Identities = 42/191 (22%), Positives = 67/191 (35%), Gaps = 28/191 (15%)
Query 6 VDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTERS 65
VD CG DG P+ L + + ++ D G+ + AW ERS
Sbjct 115 VDQYMCGADGKPV-----LQESEWEYTDFFADSEDGQLNIAGITYVK------AWIVERS 163
Query 66 EKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTI-QPRVEK-----KKLDGFMGR 119
+ SY Q IK T+ F + +K P+++K + L
Sbjct 164 DVSYASQNLTSIKSITYCSTYE-----HTFLDGTAMKVARTPKIKKNVVLSEPLATIYRE 218
Query 120 IRSVYPVASPNECNQM----CLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGAT 175
I S + + + + L +KC CG W GD+ CG +
Sbjct 219 IGSPFVDNGSDARSIIRRPVFLHAFVKCK-CGSYHWTVGDWTSYVSTCCGFK-CKPVLVA 276
Query 176 TCGYLPQNAVV 186
+C +P + VV
Sbjct 277 SCSAMPGSVVV 287
>sp|P0C6U9|R1A_CVM2 Replicase polyprotein 1a OS=Murine coronavirus
(strain 2) OX=76344 GN=1a PE=3 SV=1
Length=4416
Score = 65.2 bits (157), Expect = 2e-09, Method: Composition-based stats.
Identities = 86/538 (16%), Positives = 164/538 (30%), Gaps = 102/538 (19%)
Query 5 YVDNNFC---GPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCR-EHEHEIAW 60
++D C G LE D CTL E + V+C ++E +AW
Sbjct 253 FLDQYGCDYTGRLAKGLEDYGD---------CTLEEMKELFP----VWCDSLDNEVVVAW 299
Query 61 YTERSEKSYEL-QTPFEIKLA-----KKFDTFNGEC----PNFVFPLNSIIKTIQPRVEK 110
+ +R ++ QT I+ D +G+ P + N+I+K + PR+ +
Sbjct 300 HVDRDPRAVMRLQTLATIRSIGYVGQPTEDLVDGDVVVREPAHLLAANAIVKRL-PRLVE 358
Query 111 KKLDGFMGRIRSVYPVASPNECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCGTE 167
L Y +C + + C D C W G+ + C
Sbjct 359 TMLYTDSSVTEFCY-KTKLCDCGFITQFGYVDCCGDACDFRGWVPGNMMDGFLCPGCSKS 417
Query 168 NLTKE-GATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAF 226
+ E A + G +P+ V+ +++ S Y G + F
Sbjct 418 YMPWELEAQSSGVIPKGGVL-----FTQSTDTVNRESFKLY------------GHAVVPF 460
Query 227 GGCVF--SYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNI--N 282
G V+ Y G W+P +++ ++ + G G +++ ++ +
Sbjct 461 GSAVYWSPYPG------MWLPVIWSSV-KSYADLTYTGVVGC-KAIVQETDAICRSLYMD 512
Query 283 IVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWN 342
V N E IL GLD +Q++ V +G N
Sbjct 513 YVQHKCGNLEQRAIL---------------GLDDVYHRQLL-------VNRGDYSLLLEN 550
Query 343 IGEQKSILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQ----YSL 398
+ +E A + + + + I + +S
Sbjct 551 VDL-------FVKRRAEFACKFATCGDGLVPLLLDGLVPRSYYLIKSGQAFTSMMVNFSH 603
Query 399 RLIDAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEG 458
+ D M + L +++ V V + + V K+ D +
Sbjct 604 EVTDMCMDMALLFMHDVKVATKYVKKVTGKLAVRFKALGVAVVRKITEWFDLAVDTAASA 663
Query 459 VEFLRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIG 516
+L + + G I + + E V+ F F + DS+ +
Sbjct 664 AGWL------CYQLVNGLFAVANGGITFLSD-VPELVKNFVDKFKVFFKVLIDSMSVS 714
>sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavirus
(strain JHM) OX=11144 GN=rep PE=1 SV=1
Length=7180
Score = 64.4 bits (155), Expect = 3e-09, Method: Composition-based stats.
Identities = 78/530 (15%), Positives = 165/530 (31%), Gaps = 86/530 (16%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
+VD C G C+ L G + + ++L + ++E +AW+ +R
Sbjct 253 FVDQYGCDYTG----CLAKGLEDYGDLTLSEMKELSPVWRDSL-----DNEVVVAWHVDR 303
Query 65 SEKSYEL-QTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPRVEKKKLD 114
++ QT ++ + D +G+ P + N+I+K + PR+ + L
Sbjct 304 DPRAVMRLQTLATVRSIEYVGQPIEDMVDGDVVMREPAHLLAPNAIVKRL-PRLVETMLY 362
Query 115 GFMGRIRSVYPVASPNECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCGTENLTK 171
Y +C + + C D CG W G+ + C +
Sbjct 363 TDSSVTEFCY-KTKLCDCGFITQFGYVDCCGDTCGFRGWVPGNMMDGFPCPGCCKSYMPW 421
Query 172 E-GATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCV 230
E A + G +P+ V+ +++ S Y G + FGG
Sbjct 422 ELEAQSSGVIPEGGVL-----FTQSTDTVNRESFKLY------------GHAVVPFGGA- 463
Query 231 FSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLN 290
+Y + W+P +++ +++ + G G + E + + F
Sbjct 464 -AYWSPYPGM--WLPVIWSSV-KSYSYLTYTGVVGCKAIVQE--------TDAICRFLYM 511
Query 291 EEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSIL 350
+ + + + GLD +Q++ V +G N+
Sbjct 512 DYVQHKCGNLE------QRAILGLDDVYHRQLL-------VNRGDYSLLLENVDL----- 553
Query 351 SPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQ----YSLRLIDAMMF 406
+E A + + + + I + +S ++D M
Sbjct 554 --FVKRRAEFACKFATCGDGLVPLLLDGLVPRSYYLIKSGQAFTSLMVNFSREVVDMCMD 611
Query 407 TSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGW 466
+ L +++ V V + + V K+ D + +L
Sbjct 612 MALLFMHDVKVATKYVKKVTGKVAVRFKALGIAVVRKITEWFDLAVDTAASAAGWL---- 667
Query 467 EIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIG 516
+ + G I + + E V+ F F + DS+ +
Sbjct 668 --CYQLVNGLFAVANGVITFIQE-VPELVKNFVDKFKTFFKVLIDSMSVS 714
>sp|P0C6V1|R1A_CVMJH Replicase polyprotein 1a OS=Murine coronavirus
(strain JHM) OX=11144 GN=1a PE=1 SV=1
Length=4474
Score = 64.0 bits (154), Expect = 4e-09, Method: Composition-based stats.
Identities = 78/530 (15%), Positives = 165/530 (31%), Gaps = 86/530 (16%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
+VD C G C+ L G + + ++L + ++E +AW+ +R
Sbjct 253 FVDQYGCDYTG----CLAKGLEDYGDLTLSEMKELSPVWRDSL-----DNEVVVAWHVDR 303
Query 65 SEKSYEL-QTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPRVEKKKLD 114
++ QT ++ + D +G+ P + N+I+K + PR+ + L
Sbjct 304 DPRAVMRLQTLATVRSIEYVGQPIEDMVDGDVVMREPAHLLAPNAIVKRL-PRLVETMLY 362
Query 115 GFMGRIRSVYPVASPNECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCGTENLTK 171
Y +C + + C D CG W G+ + C +
Sbjct 363 TDSSVTEFCY-KTKLCDCGFITQFGYVDCCGDTCGFRGWVPGNMMDGFPCPGCCKSYMPW 421
Query 172 E-GATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCV 230
E A + G +P+ V+ +++ S Y G + FGG
Sbjct 422 ELEAQSSGVIPEGGVL-----FTQSTDTVNRESFKLY------------GHAVVPFGGA- 463
Query 231 FSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLN 290
+Y + W+P +++ +++ + G G + E + + F
Sbjct 464 -AYWSPYPGM--WLPVIWSSV-KSYSYLTYTGVVGCKAIVQE--------TDAICRFLYM 511
Query 291 EEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSIL 350
+ + + + GLD +Q++ V +G N+
Sbjct 512 DYVQHKCGNLE------QRAILGLDDVYHRQLL-------VNRGDYSLLLENVDL----- 553
Query 351 SPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQ----YSLRLIDAMMF 406
+E A + + + + I + +S ++D M
Sbjct 554 --FVKRRAEFACKFATCGDGLVPLLLDGLVPRSYYLIKSGQAFTSLMVNFSREVVDMCMD 611
Query 407 TSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGW 466
+ L +++ V V + + V K+ D + +L
Sbjct 612 MALLFMHDVKVATKYVKKVTGKVAVRFKALGIAVVRKITEWFDLAVDTAASAAGWL---- 667
Query 467 EIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIG 516
+ + G I + + E V+ F F + DS+ +
Sbjct 668 --CYQLVNGLFAVANGVITFIQE-VPELVKNFVDKFKTFFKVLIDSMSVS 714
>sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavirus
HKU1 (isolate N1) OX=443239 GN=rep PE=3 SV=1
Length=7182
Score = 62.5 bits (150), Expect = 1e-08, Method: Composition-based stats.
Identities = 99/608 (16%), Positives = 188/608 (31%), Gaps = 99/608 (16%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
+VD C G +C L A + + ++ +AW+ R
Sbjct 228 FVDQYGCDYSGKLADC---LQAYGHYSLQDMRQKQSVWLANCDFDIV------VAWHVVR 278
Query 65 -SEKSYELQTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPRVEKKKLD 114
S LQT I K D +G+ P + ++I+ + P + K
Sbjct 279 DSRFVMRLQTIATICGIKYVAQPTEDVVDGDVVIREPVHLLSADAIVLKL-PSLMKVMTH 337
Query 115 GFMGRIRSVYPVASPNECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCGTENLTK 171
I+S+Y V +C + + C D+C W +G+ + C T +
Sbjct 338 MDDFSIKSIYNVD-LCDCGFVMQYGYVDCFNDNCDFYGWVSGNMMDGFSCPLCCTVYDSS 396
Query 172 E-GATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCV 230
E A + G +P+N V+ NS H + G FG C+
Sbjct 397 EVKAQSSGVIPENPVLFT------NSTDTVNHDSFNLY-----------GYSVTPFGSCI 439
Query 231 FSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLN 290
+ + W+P +++ ++ +V G G +IV + L
Sbjct 440 Y----WSPRPGLWIPIIKSSV-KSYDDLVYSGVVGCK--------------SIVKETALI 480
Query 291 EEIAIILASFSASTSAFVET-VKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSI 349
A+ L + + G++ +Q++ + G++ + NI
Sbjct 481 -THALYLDYVQCKCGNLEQNHILGVNNSWCRQLLLNRGDYNMLLK-------NIDLFVKR 532
Query 350 LSPL-YAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTS 408
+ FA V + + + + ++ I +SQ+S + D +
Sbjct 533 RADFACKFAVCGDGFVPFLLDGLIPRSYYLI----QSGIFFTSLMSQFSQEVSDMCLKMC 588
Query 409 DLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEI 468
L + + V + V + T+ K+ + + + +L
Sbjct 589 ILFMDRVSVATFYIEHYVNRLVTQFKLLGTTLVNKMVNWFNTMLDASAPATGWL------ 642
Query 469 VKFISTCACEIVGGQIVTCA---KEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNL 525
+ + + A K V F+ L ++ LK +N
Sbjct 643 LYQLLNGLFVVSQANFNFVALIPDYAKILVNKFYTFFKLLLECVTVDVLKDMPVLKTING 702
Query 526 -----GETFVTHSKGLYRKCVKSREETGLLMPLKAP-KEIIFLEGETLPTEVLTEEVVLK 579
G F S GL G ++P A ++I F EG V + +
Sbjct 703 LVCIVGNKFYNVSTGLIP---------GFVLPCNAQEQQIYFFEGVAESVIVEDDVIENV 753
Query 580 TGDLQPLE 587
L E
Sbjct 754 KSSLSSYE 761
>sp|P0C6U3|R1A_CVHN1 Replicase polyprotein 1a OS=Human coronavirus
HKU1 (isolate N1) OX=443239 GN=1a PE=1 SV=1
Length=4471
Score = 62.5 bits (150), Expect = 1e-08, Method: Composition-based stats.
Identities = 99/608 (16%), Positives = 188/608 (31%), Gaps = 99/608 (16%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
+VD C G +C L A + + ++ +AW+ R
Sbjct 228 FVDQYGCDYSGKLADC---LQAYGHYSLQDMRQKQSVWLANCDFDIV------VAWHVVR 278
Query 65 -SEKSYELQTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPRVEKKKLD 114
S LQT I K D +G+ P + ++I+ + P + K
Sbjct 279 DSRFVMRLQTIATICGIKYVAQPTEDVVDGDVVIREPVHLLSADAIVLKL-PSLMKVMTH 337
Query 115 GFMGRIRSVYPVASPNECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCGTENLTK 171
I+S+Y V +C + + C D+C W +G+ + C T +
Sbjct 338 MDDFSIKSIYNVD-LCDCGFVMQYGYVDCFNDNCDFYGWVSGNMMDGFSCPLCCTVYDSS 396
Query 172 E-GATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCV 230
E A + G +P+N V+ NS H + G FG C+
Sbjct 397 EVKAQSSGVIPENPVLFT------NSTDTVNHDSFNLY-----------GYSVTPFGSCI 439
Query 231 FSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLN 290
+ + W+P +++ ++ +V G G +IV + L
Sbjct 440 Y----WSPRPGLWIPIIKSSV-KSYDDLVYSGVVGCK--------------SIVKETALI 480
Query 291 EEIAIILASFSASTSAFVET-VKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSI 349
A+ L + + G++ +Q++ + G++ + NI
Sbjct 481 -THALYLDYVQCKCGNLEQNHILGVNNSWCRQLLLNRGDYNMLLK-------NIDLFVKR 532
Query 350 LSPL-YAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTS 408
+ FA V + + + + ++ I +SQ+S + D +
Sbjct 533 RADFACKFAVCGDGFVPFLLDGLIPRSYYLI----QSGIFFTSLMSQFSQEVSDMCLKMC 588
Query 409 DLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEI 468
L + + V + V + T+ K+ + + + +L
Sbjct 589 ILFMDRVSVATFYIEHYVNRLVTQFKLLGTTLVNKMVNWFNTMLDASAPATGWL------ 642
Query 469 VKFISTCACEIVGGQIVTCA---KEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNL 525
+ + + A K V F+ L ++ LK +N
Sbjct 643 LYQLLNGLFVVSQANFNFVALIPDYAKILVNKFYTFFKLLLECVTVDVLKDMPVLKTING 702
Query 526 -----GETFVTHSKGLYRKCVKSREETGLLMPLKAP-KEIIFLEGETLPTEVLTEEVVLK 579
G F S GL G ++P A ++I F EG V + +
Sbjct 703 LVCIVGNKFYNVSTGLIP---------GFVLPCNAQEQQIYFFEGVAESVIVEDDVIENV 753
Query 580 TGDLQPLE 587
L E
Sbjct 754 KSSLSSYE 761
>sp|P0C6U4|R1A_CVHN2 Replicase polyprotein 1a OS=Human coronavirus
HKU1 (isolate N2) OX=443240 GN=1a PE=3 SV=1
Length=4441
Score = 61.3 bits (147), Expect = 3e-08, Method: Composition-based stats.
Identities = 97/608 (16%), Positives = 186/608 (31%), Gaps = 99/608 (16%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
+VD C G +C L A + + ++ +AW+ R
Sbjct 228 FVDQYGCDYSGKLADC---LQAYGHYSLQDMRQKQSVWLANCDFDIV------VAWHVVR 278
Query 65 -SEKSYELQTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPRVEKKKLD 114
S LQT I K D +G P + ++I+ + P + K
Sbjct 279 DSRFVMRLQTIATICGIKYVAQPTEDVVDGAVVIREPVHLLSADAIVLKL-PSLMKVMTH 337
Query 115 GFMGRIRSVYPVASPNECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCGTENLTK 171
I+S+Y V +C + + C D+C W +G+ + C T +
Sbjct 338 MDDFSIKSIYNVD-LCDCGFVMQYGYVDCFNDNCDFYGWVSGNMMDGFSCPLCCTVYDSS 396
Query 172 E-GATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCV 230
E A + G +P+N V+ N + + G FG C+
Sbjct 397 EVKAQSSGVIPENPVLFTNSTDTVNPDSFNLY-----------------GYSVTPFGSCI 439
Query 231 FSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLN 290
+ + W+P +++ ++ +V G G +IV + L
Sbjct 440 Y----WSPRPGLWIPIIKSSV-KSYDDLVYSGVVGCK--------------SIVKETALI 480
Query 291 EEIAIILASFSASTSAFVET-VKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSI 349
A+ L + + G++ +Q++ + G++ + NI
Sbjct 481 -THALYLDYVQCKCGNLEQNHILGVNNSWCRQLLLNRGDYNMLLK-------NIDLFVKR 532
Query 350 LSPL-YAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTS 408
+ FA V + + + + ++ I +SQ+S + D +
Sbjct 533 RADFACKFAVCGDGFVPFLLDGLIPRSYYLI----QSGIFFTSLMSQFSQEVSDMCLKMC 588
Query 409 DLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEI 468
L + + V + V + T+ K+ + + + +L
Sbjct 589 ILFMDRVSVATFYIEHYVNRLVTQFKLLGTTLVNKMVNWFNTMLDASAPATGWL------ 642
Query 469 VKFISTCACEIVGGQIVTCA---KEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNL 525
+ + + A K V F+ L ++ LK +N
Sbjct 643 LYQLLNGLFVVSQANFNFVALIPDYAKILVNKFYTFFKLLLECVTVDVLKDMPVLKTING 702
Query 526 -----GETFVTHSKGLYRKCVKSREETGLLMPLKAP-KEIIFLEGETLPTEVLTEEVVLK 579
G F S GL G ++P A ++I F EG V + +
Sbjct 703 LVCIVGNKFYNVSTGLIP---------GFVLPCNAQEQQIYFFEGVAESVIVEDDVIENV 753
Query 580 TGDLQPLE 587
L E
Sbjct 754 KSSLSSYE 761
>sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavirus
HKU1 (isolate N2) OX=443240 GN=rep PE=3 SV=1
Length=7152
Score = 61.3 bits (147), Expect = 3e-08, Method: Composition-based stats.
Identities = 97/608 (16%), Positives = 186/608 (31%), Gaps = 99/608 (16%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
+VD C G +C L A + + ++ +AW+ R
Sbjct 228 FVDQYGCDYSGKLADC---LQAYGHYSLQDMRQKQSVWLANCDFDIV------VAWHVVR 278
Query 65 -SEKSYELQTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPRVEKKKLD 114
S LQT I K D +G P + ++I+ + P + K
Sbjct 279 DSRFVMRLQTIATICGIKYVAQPTEDVVDGAVVIREPVHLLSADAIVLKL-PSLMKVMTH 337
Query 115 GFMGRIRSVYPVASPNECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCGTENLTK 171
I+S+Y V +C + + C D+C W +G+ + C T +
Sbjct 338 MDDFSIKSIYNVD-LCDCGFVMQYGYVDCFNDNCDFYGWVSGNMMDGFSCPLCCTVYDSS 396
Query 172 E-GATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCV 230
E A + G +P+N V+ N + + G FG C+
Sbjct 397 EVKAQSSGVIPENPVLFTNSTDTVNPDSFNLY-----------------GYSVTPFGSCI 439
Query 231 FSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLN 290
+ + W+P +++ ++ +V G G +IV + L
Sbjct 440 Y----WSPRPGLWIPIIKSSV-KSYDDLVYSGVVGCK--------------SIVKETALI 480
Query 291 EEIAIILASFSASTSAFVET-VKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSI 349
A+ L + + G++ +Q++ + G++ + NI
Sbjct 481 -THALYLDYVQCKCGNLEQNHILGVNNSWCRQLLLNRGDYNMLLK-------NIDLFVKR 532
Query 350 LSPL-YAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTS 408
+ FA V + + + + ++ I +SQ+S + D +
Sbjct 533 RADFACKFAVCGDGFVPFLLDGLIPRSYYLI----QSGIFFTSLMSQFSQEVSDMCLKMC 588
Query 409 DLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEI 468
L + + V + V + T+ K+ + + + +L
Sbjct 589 ILFMDRVSVATFYIEHYVNRLVTQFKLLGTTLVNKMVNWFNTMLDASAPATGWL------ 642
Query 469 VKFISTCACEIVGGQIVTCA---KEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNL 525
+ + + A K V F+ L ++ LK +N
Sbjct 643 LYQLLNGLFVVSQANFNFVALIPDYAKILVNKFYTFFKLLLECVTVDVLKDMPVLKTING 702
Query 526 -----GETFVTHSKGLYRKCVKSREETGLLMPLKAP-KEIIFLEGETLPTEVLTEEVVLK 579
G F S GL G ++P A ++I F EG V + +
Sbjct 703 LVCIVGNKFYNVSTGLIP---------GFVLPCNAQEQQIYFFEGVAESVIVEDDVIENV 753
Query 580 TGDLQPLE 587
L E
Sbjct 754 KSSLSSYE 761
>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 = 60.2 bits (144), Expect = 6e-08, Method: Composition-based stats.
Identities = 51/240 (21%), Positives = 70/240 (29%), Gaps = 43/240 (18%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
YVD CG DG P+ E D+ V E+ AW T R
Sbjct 113 YVDQYMCGADGKPV---------------IEGEFKDYF-GDEDVIIYEGEEYHCAWLTVR 156
Query 65 SEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRSVY 124
EK QT I+ + + P N I+ + P V+K R +Y
Sbjct 157 DEKPLWQQTLLTIREIQYNLDIPHKLP------NCAIREVAPPVKKNSKVVLSEEYRKLY 210
Query 125 PVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKAT-CEFCGTENLTKEGATTCGYLPQN 183
+ S M T + + F+ AT CG E+ T
Sbjct 211 ---------DIFGSPFMGNGDSLNTCFDSLHFIAATLKCPCGAESSGVGDWTG------- 254
Query 184 AVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKCAYW 243
K C H G +L + T + G F V Y G + W
Sbjct 255 --FKTACCGLHGKVKGV--TLGAVKPGDAIVTSMSAGKGVKFFANSVLQYAGDVENVSVW 310
Score = 43.6 bits (101), Expect = 0.007, Method: Composition-based stats.
Identities = 43/238 (18%), Positives = 83/238 (35%), Gaps = 24/238 (10%)
Query 402 DAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEF 461
D ++ + NL A ++ W G ++ V++ L K +
Sbjct 362 DCIIAGKLDLSTNLFGSA----NLLFKKMPWFVQKCGAIFADAWKVVEELLCSLKLTYKQ 417
Query 462 LRDGWEIVKFISTCACEIVGGQ--IVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAK 519
+ D +V + T A I+ + V + +K+ V K++ K + +I I G +
Sbjct 418 IYD---VVASLCTSAFTIMDYKPVFVVSSNSVKDLVDKCVKILVKAFDVFTQTITIAGVE 474
Query 520 LKALNLGETFVTHSKGLYRKCVKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLK 579
K LG ++ + L L+ K L+ T ++ V +
Sbjct 475 AKCFVLGSKYLLFNNAL----------VKLVSVKILGKRQKGLDSAFFATNLIGATVNVT 524
Query 580 TGDLQPLEQPTSEA--VEAPLVGTPVCINGLMLLEIKDTEKYCAL-APNMMVTNNTFT 634
+ ++ V P G V I + K E Y + +P+ ++ NN F
Sbjct 525 PQRTESAYISLNKVDDVVTPGGGHIVIIGDMAFY--KSEEYYFMMASPDSVLVNNVFK 580
>sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavirus
HKU1 (isolate N5) OX=443241 GN=rep PE=3 SV=1
Length=7132
Score = 59.4 bits (142), Expect = 1e-07, Method: Composition-based stats.
Identities = 97/608 (16%), Positives = 188/608 (31%), Gaps = 99/608 (16%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
+VD C G +C L A + + ++ +AW+ R
Sbjct 228 FVDQYGCDYSGKLADC---LQAYGHYSLQDMRQKQSVWLANCDFDIV------VAWHVVR 278
Query 65 -SEKSYELQTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPRVEKKKLD 114
S LQT I K D +G+ P + ++I+ + P + K
Sbjct 279 DSRFVMRLQTIATICGIKYVAQPTEDVVDGDVVIREPVHLLSADAIVLKL-PSLMKVMTH 337
Query 115 GFMGRIRSVYPVASPNECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCGTENLTK 171
I+S+Y V +C + + C D+C W +G+ + C T +
Sbjct 338 MDDFSIKSIYNVD-LCDCGFVMQYGYVDCFNDNCDFYGWVSGNMMDGFSCPLCCTVYDSS 396
Query 172 E-GATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCV 230
E A + G +P+N V+ N + + G FG C+
Sbjct 397 EVKAQSSGVIPENPVLFTNSTDTVNPDSFNLY-----------------GYSVTPFGSCI 439
Query 231 FSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLN 290
+ + W+P +++ ++ +V G G +IV + L
Sbjct 440 Y----WSPRPGLWIPIIKSSV-KSYDDLVYSGVVGCK--------------SIVKETALI 480
Query 291 EEIAIILASFSASTSAFVET-VKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSI 349
A+ L + + G++ +Q++ + G++ + NI
Sbjct 481 -THALYLDYVQCKCGNLEQNHILGVNNSWCRQLLLNRGDYNMLLK-------NIDLFVKR 532
Query 350 LSPL-YAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTS 408
+ FA V + + + + ++ I +SQ+S + D +
Sbjct 533 RADFACKFAVCGDGFVPFLLDGLIPRSYYLI----QSGIFFTSLMSQFSQEVSDMCLKMC 588
Query 409 DLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEI 468
L + + V + V + T+ K+ + + + +L
Sbjct 589 ILFMDRVSVATFYIEHYVNRLVTQFKLLGTTLVNKMVNWFNTMLDASAPATGWL------ 642
Query 469 VKFISTCACEIVGGQIVTCA---KEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNL 525
+ + + + A K V F+ L ++ LK +N
Sbjct 643 LYQLLNGFFVVSQANLNFVALIPDYAKILVNKFYTFFKLLLECVTVDVLKDMPVLKTING 702
Query 526 -----GETFVTHSKGLYRKCVKSREETGLLMPLKAP-KEIIFLEGETLPTEVLTEEVVLK 579
G F S GL G ++P A ++I F EG V + +
Sbjct 703 LVCIVGNKFYNVSTGLIP---------GFVLPCNAQEQQIYFFEGVAESVIVEDDVIENV 753
Query 580 TGDLQPLE 587
L E
Sbjct 754 KSSLSSYE 761
>sp|P0C6U5|R1A_CVHN5 Replicase polyprotein 1a OS=Human coronavirus
HKU1 (isolate N5) OX=443241 GN=1a PE=3 SV=1
Length=4421
Score = 59.4 bits (142), Expect = 1e-07, Method: Composition-based stats.
Identities = 97/608 (16%), Positives = 188/608 (31%), Gaps = 99/608 (16%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
+VD C G +C L A + + ++ +AW+ R
Sbjct 228 FVDQYGCDYSGKLADC---LQAYGHYSLQDMRQKQSVWLANCDFDIV------VAWHVVR 278
Query 65 -SEKSYELQTPFEIKLAKKF-----DTFNGEC----PNFVFPLNSIIKTIQPRVEKKKLD 114
S LQT I K D +G+ P + ++I+ + P + K
Sbjct 279 DSRFVMRLQTIATICGIKYVAQPTEDVVDGDVVIREPVHLLSADAIVLKL-PSLMKVMTH 337
Query 115 GFMGRIRSVYPVASPNECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCGTENLTK 171
I+S+Y V +C + + C D+C W +G+ + C T +
Sbjct 338 MDDFSIKSIYNVD-LCDCGFVMQYGYVDCFNDNCDFYGWVSGNMMDGFSCPLCCTVYDSS 396
Query 172 E-GATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCV 230
E A + G +P+N V+ N + + G FG C+
Sbjct 397 EVKAQSSGVIPENPVLFTNSTDTVNPDSFNLY-----------------GYSVTPFGSCI 439
Query 231 FSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLN 290
+ + W+P +++ ++ +V G G +IV + L
Sbjct 440 Y----WSPRPGLWIPIIKSSV-KSYDDLVYSGVVGCK--------------SIVKETALI 480
Query 291 EEIAIILASFSASTSAFVET-VKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSI 349
A+ L + + G++ +Q++ + G++ + NI
Sbjct 481 -THALYLDYVQCKCGNLEQNHILGVNNSWCRQLLLNRGDYNMLLK-------NIDLFVKR 532
Query 350 LSPL-YAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTS 408
+ FA V + + + + ++ I +SQ+S + D +
Sbjct 533 RADFACKFAVCGDGFVPFLLDGLIPRSYYLI----QSGIFFTSLMSQFSQEVSDMCLKMC 588
Query 409 DLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEI 468
L + + V + V + T+ K+ + + + +L
Sbjct 589 ILFMDRVSVATFYIEHYVNRLVTQFKLLGTTLVNKMVNWFNTMLDASAPATGWL------ 642
Query 469 VKFISTCACEIVGGQIVTCA---KEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNL 525
+ + + + A K V F+ L ++ LK +N
Sbjct 643 LYQLLNGFFVVSQANLNFVALIPDYAKILVNKFYTFFKLLLECVTVDVLKDMPVLKTING 702
Query 526 -----GETFVTHSKGLYRKCVKSREETGLLMPLKAP-KEIIFLEGETLPTEVLTEEVVLK 579
G F S GL G ++P A ++I F EG V + +
Sbjct 703 LVCIVGNKFYNVSTGLIP---------GFVLPCNAQEQQIYFFEGVAESVIVEDDVIENV 753
Query 580 TGDLQPLE 587
L E
Sbjct 754 KSSLSSYE 761
>sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavirus
NL63 OX=277944 GN=rep PE=1 SV=1
Length=6729
Score = 57.9 bits (138), Expect = 3e-07, Method: Composition-based stats.
Identities = 37/173 (21%), Positives = 55/173 (32%), Gaps = 30/173 (17%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
+VD CG DG P+ + E D+ + +++AW R
Sbjct 114 FVDKYMCGFDGKPV------------LPKNMWEFRDYFNNNTDSIVIGGVTYQLAWDVIR 161
Query 65 SEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRSVY 124
+ SYE Q I+ T + +P K+ G +VY
Sbjct 162 KDLSYEQQNVLAIESIHYLGTTG-----HTLKSGCKLTNAKPPKYSSKV-VLSGEWNAVY 215
Query 125 -PVASPNECNQM----------CLSTLMKCDHCGETSWQTGDFVKATCEFCGT 166
SP N M + +KC+ CG SW G + CGT
Sbjct 216 RAFGSPFITNGMSLLDIIVKPVFFNAFVKCN-CGSESWSVGAWDGYLSSCCGT 267
>sp|P0C6U6|R1A_CVHNL Replicase polyprotein 1a OS=Human coronavirus
NL63 OX=277944 GN=1a PE=1 SV=1
Length=4060
Score = 57.9 bits (138), Expect = 3e-07, Method: Composition-based stats.
Identities = 37/173 (21%), Positives = 55/173 (32%), Gaps = 30/173 (17%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
+VD CG DG P+ + E D+ + +++AW R
Sbjct 114 FVDKYMCGFDGKPV------------LPKNMWEFRDYFNNNTDSIVIGGVTYQLAWDVIR 161
Query 65 SEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRSVY 124
+ SYE Q I+ T + +P K+ G +VY
Sbjct 162 KDLSYEQQNVLAIESIHYLGTTG-----HTLKSGCKLTNAKPPKYSSKV-VLSGEWNAVY 215
Query 125 -PVASPNECNQM----------CLSTLMKCDHCGETSWQTGDFVKATCEFCGT 166
SP N M + +KC+ CG SW G + CGT
Sbjct 216 RAFGSPFITNGMSLLDIIVKPVFFNAFVKCN-CGSESWSVGAWDGYLSSCCGT 267
>sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavirus
(strain A59) OX=11142 GN=rep PE=1 SV=1
Length=7176
Score = 56.7 bits (135), Expect = 6e-07, Method: Composition-based stats.
Identities = 83/535 (16%), Positives = 161/535 (30%), Gaps = 96/535 (18%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
+VD C G C+ L G TLSE + R + E +AW+ +R
Sbjct 253 FVDQYGCDYTG----CLAKGLEDYGDL--TLSEMKELFPVWRDSL---DSEVLVAWHVDR 303
Query 65 SEKSYELQTPFEIKLAKKFDTFNGEC-------------PNFVFPLNSIIKTIQPRVEKK 111
++ + + + G+ P + N+I+K + PR+ +
Sbjct 304 DPRAAMR---LQTLATVRCIDYVGQPTEDVVDGDVVVREPAHLLAANAIVKRL-PRLVET 359
Query 112 KLDGFMGRIRSVYPVASPNECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCGTEN 168
L Y EC + + C D C W G+ + C
Sbjct 360 MLYTDSSVTEFCY-KTKLCECGFITQFGYVDCCGDTCDFRGWVAGNMMDGFPCPGCTKNY 418
Query 169 LTKE-GATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFG 227
+ E A + G +P+ V+ +++ S Y G + FG
Sbjct 419 MPWELEAQSSGVIPEGGVL-----FTQSTDTVNRESFKLY------------GHAVVPFG 461
Query 228 GCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNI--NIVG 285
V+ + C W+P +++ +++G+ G G +++ ++ + V
Sbjct 462 SAVY-WSPCPG---MWLPVIWSSV-KSYSGLTYTGVVGC-KAIVQETDAICRSLYMDYVQ 515
Query 286 DFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGE 345
N E IL GLD +Q++ V +G N+
Sbjct 516 HKCGNLEQRAIL---------------GLDDVYHRQLL-------VNRGDYSLLLENVDL 553
Query 346 QKSILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQ----YSLRLI 401
+E A + + + + I + +S +
Sbjct 554 -------FVKRRAEFACKFATCGDGLVPLLLDGLVPRSYYLIKSGQAFTSMMVNFSHEVT 606
Query 402 DAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEF 461
D M + L +++ V V + + V K+ D + +
Sbjct 607 DMCMDMALLFMHDVKVATKYVKKVTGKLAVRFKALGVAVVRKITEWFDLAVDIAASAAGW 666
Query 462 LRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIG 516
L + + G I + + E V+ F F + DS+ +
Sbjct 667 L------CYQLVNGLFAVANGVITFVQE-VPELVKNFVDKFKAFFKVLIDSMSVS 714
>sp|P0C6V0|R1A_CVMA5 Replicase polyprotein 1a OS=Murine coronavirus
(strain A59) OX=11142 GN=1a PE=1 SV=1
Length=4468
Score = 56.3 bits (134), Expect = 9e-07, Method: Composition-based stats.
Identities = 83/535 (16%), Positives = 161/535 (30%), Gaps = 96/535 (18%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
+VD C G C+ L G TLSE + R + E +AW+ +R
Sbjct 253 FVDQYGCDYTG----CLAKGLEDYGDL--TLSEMKELFPVWRDSL---DSEVLVAWHVDR 303
Query 65 SEKSYELQTPFEIKLAKKFDTFNGEC-------------PNFVFPLNSIIKTIQPRVEKK 111
++ + + + G+ P + N+I+K + PR+ +
Sbjct 304 DPRAAMR---LQTLATVRCIDYVGQPTEDVVDGDVVVREPAHLLAANAIVKRL-PRLVET 359
Query 112 KLDGFMGRIRSVYPVASPNECNQMCLSTLMKC--DHCGETSWQTGDFVKATCE-FCGTEN 168
L Y EC + + C D C W G+ + C
Sbjct 360 MLYTDSSVTEFCY-KTKLCECGFITQFGYVDCCGDTCDFRGWVAGNMMDGFPCPGCTKNY 418
Query 169 LTKE-GATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFG 227
+ E A + G +P+ V+ +++ S Y G + FG
Sbjct 419 MPWELEAQSSGVIPEGGVL-----FTQSTDTVNRESFKLY------------GHAVVPFG 461
Query 228 GCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNI--NIVG 285
V+ + C W+P +++ +++G+ G G +++ ++ + V
Sbjct 462 SAVY-WSPCPG---MWLPVIWSSV-KSYSGLTYTGVVGC-KAIVQETDAICRSLYMDYVQ 515
Query 286 DFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGE 345
N E IL GLD +Q++ V +G N+
Sbjct 516 HKCGNLEQRAIL---------------GLDDVYHRQLL-------VNRGDYSLLLENVDL 553
Query 346 QKSILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQ----YSLRLI 401
+E A + + + + I + +S +
Sbjct 554 -------FVKRRAEFACKFATCGDGLVPLLLDGLVPRSYYLIKSGQAFTSMMVNFSHEVT 606
Query 402 DAMMFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEF 461
D M + L +++ V V + + V K+ D + +
Sbjct 607 DMCMDMALLFMHDVKVATKYVKKVTGKLAVRFKALGVAVVRKITEWFDLAVDIAASAAGW 666
Query 462 LRDGWEIVKFISTCACEIVGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIG 516
L + + G I + + E V+ F F + DS+ +
Sbjct 667 L------CYQLVNGLFAVANGVITFVQE-VPELVKNFVDKFKAFFKVLIDSMSVS 714
>sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavirus
229E OX=11137 GN=rep PE=1 SV=1
Length=6758
Score = 48.6 bits (114), Expect = 2e-04, Method: Composition-based stats.
Identities = 75/498 (15%), Positives = 143/498 (29%), Gaps = 91/498 (18%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
Y D CG DG P+ S L + +D + H + AW T+R
Sbjct 115 YTDQYLCGADGKPV------------MSEDLWQFVDHFGENEEIII-NGHTYVCAWLTKR 161
Query 65 SEKSYELQTPFEIKLA--KKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRS 122
Y+ Q I+ D + V + +KT V LD ++
Sbjct 162 KPLDYKRQNNLAIEEIEYVHGDALHTLRNGSVLEMAKEVKTSSKVVLSDALD----KLYK 217
Query 123 VYPVASPNECNQM--------CLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGA 174
V+ + + +S L++C CG SW GD+
Sbjct 218 VFGSPVMTNGSNILEAFTKPVFISALVQCT-CGTKSWSVGDWTG--------------FK 262
Query 175 TTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYV 234
++C + N + + V P ++ T + G F G +V
Sbjct 263 SSCCNVISNKLCVVP------GNVKPGDAVI---------TTQQAGAGIKYFCGMTLKFV 307
Query 235 GCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIA 294
+ W I S + + + + N+ + +E
Sbjct 308 ANIEGVSVW-----RVIALQSVDCFVASSTFVEEEHVNRMDTFCFNVR----NSVTDECR 358
Query 295 IILASFSASTSAFVETVKGLD------YKAFKQIVESCGNFKVTKGKAKKG-AWNIGEQK 347
+ + +++ + G+ + + I + V K + G W+
Sbjct 359 LAMLGAEMTSNVRRQVASGVIDISTGWFDVYDDIFAESKPWFVRKAEDIFGPCWS--ALA 416
Query 348 SILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSL---RLIDAM 404
S L L E R V+SI + + ++++L L+ + + D
Sbjct 417 SALKQLKVTTGELVRFVKSICNSAVAVVGGTIQILASVPEKFLNAFDVFVTAIQTVFDCA 476
Query 405 -------------MFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWL 451
+F L N LV + V+ V + V
Sbjct 477 VETCTIAGKAFDKVFDYVLLDNALVKLVTTKLKGVRERGLNKVKYATVVVGSTEEVKSSR 536
Query 452 EEKFKEGVEFLRDGWEIV 469
E+ + + ++
Sbjct 537 VERSTAVLTIANNYSKLF 554
>sp|P0C6U2|R1A_CVH22 Replicase polyprotein 1a OS=Human coronavirus
229E OX=11137 GN=1a PE=1 SV=1
Length=4085
Score = 48.6 bits (114), Expect = 2e-04, Method: Composition-based stats.
Identities = 75/498 (15%), Positives = 143/498 (29%), Gaps = 91/498 (18%)
Query 5 YVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTER 64
Y D CG DG P+ S L + +D + H + AW T+R
Sbjct 115 YTDQYLCGADGKPV------------MSEDLWQFVDHFGENEEIII-NGHTYVCAWLTKR 161
Query 65 SEKSYELQTPFEIKLA--KKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRIRS 122
Y+ Q I+ D + V + +KT V LD ++
Sbjct 162 KPLDYKRQNNLAIEEIEYVHGDALHTLRNGSVLEMAKEVKTSSKVVLSDALD----KLYK 217
Query 123 VYPVASPNECNQM--------CLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGA 174
V+ + + +S L++C CG SW GD+
Sbjct 218 VFGSPVMTNGSNILEAFTKPVFISALVQCT-CGTKSWSVGDWTG--------------FK 262
Query 175 TTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYV 234
++C + N + + V P ++ T + G F G +V
Sbjct 263 SSCCNVISNKLCVVP------GNVKPGDAVI---------TTQQAGAGIKYFCGMTLKFV 307
Query 235 GCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIA 294
+ W I S + + + + N+ + +E
Sbjct 308 ANIEGVSVW-----RVIALQSVDCFVASSTFVEEEHVNRMDTFCFNVR----NSVTDECR 358
Query 295 IILASFSASTSAFVETVKGLD------YKAFKQIVESCGNFKVTKGKAKKG-AWNIGEQK 347
+ + +++ + G+ + + I + V K + G W+
Sbjct 359 LAMLGAEMTSNVRRQVASGVIDISTGWFDVYDDIFAESKPWFVRKAEDIFGPCWS--ALA 416
Query 348 SILSPLYAFASEAARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSL---RLIDAM 404
S L L E R V+SI + + ++++L L+ + + D
Sbjct 417 SALKQLKVTTGELVRFVKSICNSAVAVVGGTIQILASVPEKFLNAFDVFVTAIQTVFDCA 476
Query 405 -------------MFTSDLATNNLVVMAYITGGVVQLTSQWLTNIFGTVYEKLKPVLDWL 451
+F L N LV + V+ V + V
Sbjct 477 VETCTIAGKAFDKVFDYVLLDNALVKLVTTKLKGVRERGLNKVKYATVVVGSTEEVKSSR 536
Query 452 EEKFKEGVEFLRDGWEIV 469
E+ + + ++
Sbjct 537 VERSTAVLTIANNYSKLF 554
>sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus
512/2005 OX=693999 GN=rep PE=3 SV=1
Length=6793
Score = 42.4 bits (98), Expect = 0.014, Method: Composition-based stats.
Identities = 32/169 (19%), Positives = 53/169 (31%), Gaps = 30/169 (18%)
Query 6 VDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTERS 65
VD CG DG P + + G + +D+ + + AW +R
Sbjct 115 VDQFMCGADGAP-------VIQEGDWTF-----MDYFQ-DSNQFTLNGITYVKAWDVDRK 161
Query 66 EKSYELQTPFEIKLA--------KKFDTFNGECPNFVFPLNSIIKTIQP--RVEKKKLDG 115
Y Q I+ D + +N + P ++ K+
Sbjct 162 PNDYAKQNVTCIRRITYITDHRHVLADGTTMKTARHP-KVNKSVVLDSPFDQIYKEVGSP 220
Query 116 FMGRIRSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFC 164
FMG + V + L+ C+ CG + W GD+ K C
Sbjct 221 FMGNGSTF--VEMLKDPAFFH--ALITCE-CGRSEWTVGDW-KGYNSLC 263
>sp|P0C6F6|R1A_BC512 Replicase polyprotein 1a OS=Bat coronavirus
512/2005 OX=693999 GN=1a PE=3 SV=1
Length=4128
Score = 42.4 bits (98), Expect = 0.015, Method: Composition-based stats.
Identities = 32/169 (19%), Positives = 53/169 (31%), Gaps = 30/169 (18%)
Query 6 VDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAWYTERS 65
VD CG DG P + + G + +D+ + + AW +R
Sbjct 115 VDQFMCGADGAP-------VIQEGDWTF-----MDYFQ-DSNQFTLNGITYVKAWDVDRK 161
Query 66 EKSYELQTPFEIKLA--------KKFDTFNGECPNFVFPLNSIIKTIQP--RVEKKKLDG 115
Y Q I+ D + +N + P ++ K+
Sbjct 162 PNDYAKQNVTCIRRITYITDHRHVLADGTTMKTARHP-KVNKSVVLDSPFDQIYKEVGSP 220
Query 116 FMGRIRSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFC 164
FMG + V + L+ C+ CG + W GD+ K C
Sbjct 221 FMGNGSTF--VEMLKDPAFFH--ALITCE-CGRSEWTVGDW-KGYNSLC 263
>sp|Q3C251|ARGJ_CITLA Arginine biosynthesis bifunctional protein
ArgJ, chloroplastic OS=Citrullus lanatus OX=3654 PE=1 SV=1
Length=460
Score = 40.9 bits (94), Expect = 0.032, Method: Composition-based stats.
Identities = 34/160 (21%), Positives = 67/160 (42%), Gaps = 20/160 (13%)
Query 218 RKGGRTIAFGGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEI-LQK 276
+ GG TI GG + + + P + +G T V + +++I + +
Sbjct 215 QVGGSTIRIGG-----MAKGSGMIH--PNMATMLGVVTTDAVVACD--VWRKMVQISVDR 265
Query 277 EKVNINIVGDFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKA 336
I + GD N+ + + + S S + ++K + ++ ++ V +G A
Sbjct 266 SFNQITVDGDTSTNDTVIALSSGLSGFNSNIISSLKSREAGQLQECLD-----VVMQGLA 320
Query 337 KKGAWNIGEQKS----ILSPLYAFASEAARVVRSIFSRTL 372
K AW+ GE + I + +EAA+V RS+ +L
Sbjct 321 KSIAWD-GEGATCLIEITVSGASTEAEAAKVARSVAGSSL 359
>sp|Q9KIP9|AGAS_ECOLX D-galactosamine-6-phosphate deaminase AgaS
OS=Escherichia coli OX=562 GN=agaS PE=1 SV=1
Length=384
Score = 35.1 bits (79), Expect = 2.2, Method: Composition-based stats.
Identities = 27/155 (17%), Positives = 56/155 (36%), Gaps = 14/155 (9%)
Query 243 WVPRASAN-IGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASFS 301
+VP I CN G + + + ++ ++ E + + +A LA F+
Sbjct 129 FVPECYHLPITCNEAGALYQNAINSDNAFALLMPAETHDRGFAMTSSITTMMASCLAVFA 188
Query 302 ASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSIL----SPLYAFA 357
T ++ + F+ + + C T G +G + K I+ L A
Sbjct 189 PET---------INSQTFRDVADRCQAILTTLGDFSEGVFGYAPWKRIVYLGSGGLQGAA 239
Query 358 SEAARVVRSIFSRTLETAQNSVRVLQKAAITILDG 392
E+A V + + L +S + +++D
Sbjct 240 RESALKVLELTAGKLAAFYDSPTGFRHGPKSLVDD 274
>sp|Q6P6T1|C1S_RAT Complement C1s subcomponent OS=Rattus norvegicus
OX=10116 GN=C1s PE=2 SV=2
Length=688
Score = 34.4 bits (77), Expect = 4.1, Method: Composition-based stats.
Identities = 20/92 (22%), Positives = 29/92 (32%), Gaps = 16/92 (17%)
Query 89 ECPNFVFPLNS-IIKTIQPRVEKKKLDGFMGRIRSVYPVASPNECNQMCLSTLMKCDH-C 146
F FP N + +++ GF + Y NEC T + C H C
Sbjct 95 TVEEFQFPYNRLQVVFTSDFSNEERFTGF----AAYYSAVDVNECTDF---TDVPCSHFC 147
Query 147 GETSWQTGDFVKATCEFCGTENLTKEGATTCG 178
+F+ C E + TCG
Sbjct 148 N-------NFIGGYFCSCPPEYFLHDDMRTCG 172
>sp|Q9ZUR7|ARGJ_ARATH Arginine biosynthesis bifunctional protein
ArgJ, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=At2g37500
PE=1 SV=2
Length=468
Score = 34.4 bits (77), Expect = 4.1, Method: Composition-based stats.
Identities = 32/151 (21%), Positives = 60/151 (40%), Gaps = 15/151 (10%)
Query 227 GGCVFSYVGCHNKCAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEI-LQKEKVNINIVG 285
GG G P + +G T + E + ++++ + + I + G
Sbjct 227 GGIKIRVGGMAKGSGMIHPNMATMLGVITTDALVESD--IWRKMVKVAVNRSFNQITVDG 284
Query 286 DFKLNEEIAIILASFSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGE 345
D N+ + + + S S S K +++C + V +G AK AW+ GE
Sbjct 285 DTSTNDTVIALASGLSGSPSISSLNCKEAAQ------LQACLD-AVMQGLAKSIAWD-GE 336
Query 346 QKSILSPLYA----FASEAARVVRSIFSRTL 372
+ L + +EAA++ RS+ S +L
Sbjct 337 GATCLIEVTVKGTETEAEAAKIARSVASSSL 367
>sp|Q18823|LAM2_CAEEL Laminin-like protein lam-2 OS=Caenorhabditis
elegans OX=6239 GN=lam-2 PE=1 SV=3
Length=1633
Score = 34.4 bits (77), Expect = 4.2, Method: Composition-based stats.
Identities = 15/83 (18%), Positives = 25/83 (30%), Gaps = 4/83 (5%)
Query 136 CLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYLPQNAVVKIYCPACHN 195
+ C+ C + GD ++ T E C +G C V+ CP +
Sbjct 756 HNTAGDTCERCARGYY--GDALQGTEEDCQKCPCPNDGP--CILHADGDVICTECPNGYT 811
Query 196 SEVGPEHSLAEYHNESGLKTILR 218
E S + N +
Sbjct 812 GRRCDECSDGYFGNPKDGTECVE 834
>sp|Q9Y7Q9|YCX2_SCHPO Probable metabolite transporter C2H8.02
OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812
GN=SPCC2H8.02 PE=1 SV=1
Length=583
Score = 34.0 bits (76), Expect = 5.6, Method: Composition-based stats.
Identities = 11/88 (13%), Positives = 22/88 (25%), Gaps = 4/88 (5%)
Query 149 TSWQTGDFVKATCEFCGTENLTKEGATTCGYLPQNAVVKIYCPACHNSEVGPEHSLAEYH 208
+W+T + G T ++ V A +
Sbjct 449 GTWETISTGGRFACVALAQFFFNFGPNTTCFVIPAEVFPSRVRAFSHGICAACGKAGAIL 508
Query 209 NESGLKTILRKGGRTIAFGGCVFSYVGC 236
+ + G FG ++ + GC
Sbjct 509 SALLFNKLTEVIG----FGNVLWIFFGC 532
>sp|P42907|AGAS_ECOLI Putative D-galactosamine-6-phosphate deaminase
AgaS OS=Escherichia coli (strain K12) OX=83333 GN=agaS
PE=1 SV=1
Length=384
Score = 33.2 bits (74), Expect = 7.3, Method: Composition-based stats.
Identities = 26/155 (17%), Positives = 56/155 (36%), Gaps = 14/155 (9%)
Query 243 WVPRASAN-IGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASFS 301
+VP I CN G + + + ++ ++ E + + +A LA F+
Sbjct 129 FVPECYHLPITCNEAGALYQNAINSDNAFALLMPAETHDRGFAMTSSITTMMASCLAVFA 188
Query 302 ASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSIL----SPLYAFA 357
T ++ + F+ + + C + G +G + K I+ L A
Sbjct 189 PET---------INSQTFRDVADRCQAILTSLGDFSEGVFGYAPWKRIVYLGSGGLQGAA 239
Query 358 SEAARVVRSIFSRTLETAQNSVRVLQKAAITILDG 392
E+A V + + L +S + +++D
Sbjct 240 RESALKVLELTAGKLAAFYDSPTGFRHGPKSLVDD 274
>sp|Q8U221|SYM_PYRFU Methionine--tRNA ligase OS=Pyrococcus furiosus
(strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1) OX=186497
GN=metG PE=3 SV=1
Length=724
Score = 33.6 bits (75), Expect = 7.9, Method: Composition-based stats.
Identities = 15/54 (28%), Positives = 22/54 (41%), Gaps = 2/54 (4%)
Query 145 HCGETS-WQTGDFVKATCEFCGTENLTKEGATTCGY-LPQNAVVKIYCPACHNS 196
+C + FV TC +CG EN + CG L +++ C C N
Sbjct 126 YCEHDKRFLPDRFVIGTCPYCGAENQRGDQCEVCGRPLTPEILIEPRCAFCKNP 179
>sp|Q1LVF0|LAMC1_DANRE Laminin subunit gamma-1 OS=Danio rerio
OX=7955 GN=lamc1 PE=2 SV=2
Length=1593
Score = 33.2 bits (74), Expect = 9.2, Method: Composition-based stats.
Identities = 15/61 (25%), Positives = 23/61 (38%), Gaps = 5/61 (8%)
Query 132 CNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYLPQ-NAVVKIYC 190
CN + + C+ C + + GD + C TC +P+ N VV C
Sbjct 724 CNCQHNTAGLSCERCKDGFY--GDSTVGSSSDCKA--CPCPAGATCAVVPKTNEVVCTNC 779
Query 191 P 191
P
Sbjct 780 P 780
Lambda K H a alpha
0.318 0.126 0.315 0.792 4.96
Gapped
Lambda K H a alpha sigma
0.267 0.0385 0.140 1.90 42.6 43.6
Effective search space used: 69821465992
Database: uniprot_sprot.fasta
Posted date: Apr 3, 2024 12:05 PM
Number of letters in database: 206,678,396
Number of sequences in database: 571,282
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Neighboring words threshold: 11
Window for multiple hits: 40