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_009725303.1 nsp7 [Severe acute respiratory syndrome coronavirus
2]
Length=83
Score E
Sequences producing significant alignments: (Bits) Value
sp|P0DTD1|R1AB_SARS2 Replicase polyprotein 1ab OS=Severe acute re... 167 1e-48
sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus... 167 2e-48
sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus... 167 2e-48
sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus... 166 2e-48
sp|P0C6F8|R1A_BCHK3 Replicase polyprotein 1a OS=Bat coronavirus H... 166 2e-48
sp|P0C6T7|R1A_BCRP3 Replicase polyprotein 1a OS=Bat coronavirus R... 166 2e-48
sp|P0C6F5|R1A_BC279 Replicase polyprotein 1a OS=Bat coronavirus 2... 166 2e-48
sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute res... 166 3e-48
sp|P0C6U8|R1A_SARS Replicase polyprotein 1a OS=Severe acute respi... 166 4e-48
sp|P0DTC1|R1A_SARS2 Replicase polyprotein 1a OS=Severe acute resp... 165 6e-48
sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus... 101 2e-25
sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus... 100 2e-25
sp|P0C6T6|R1A_BCHK9 Replicase polyprotein 1a OS=Bat coronavirus H... 100 2e-25
sp|P0C6T5|R1A_BCHK5 Replicase polyprotein 1a OS=Bat coronavirus H... 100 3e-25
sp|K9N7C7|R1AB_MERS1 Replicase polyprotein 1ab OS=Middle East res... 100 3e-25
sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus... 99.8 6e-25
sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus... 99.4 7e-25
sp|K9N638|R1A_MERS1 Replicase polyprotein 1a OS=Middle East respi... 99.4 7e-25
sp|P0C6T4|R1A_BCHK4 Replicase polyprotein 1a OS=Bat coronavirus H... 99.0 1e-24
sp|P0C6F7|R1A_BC133 Replicase polyprotein 1a OS=Bat coronavirus 1... 98.6 2e-24
sp|P0C6X6|R1AB_CVHOC Replicase polyprotein 1ab OS=Human coronavir... 78.2 2e-17
sp|P0C6U7|R1A_CVHOC Replicase polyprotein 1a OS=Human coronavirus... 77.4 4e-17
sp|P0C6W9|R1AB_CVBM Replicase polyprotein 1ab OS=Bovine coronavir... 77.0 5e-17
sp|P0C6W8|R1AB_CVBLU Replicase polyprotein 1ab OS=Bovine coronavi... 77.0 5e-17
sp|P0C6W7|R1AB_CVBEN Replicase polyprotein 1ab OS=Bovine coronavi... 77.0 5e-17
sp|P0C6U0|R1A_CVBM Replicase polyprotein 1a OS=Bovine coronavirus... 75.9 1e-16
sp|P0C6T9|R1A_CVBLU Replicase polyprotein 1a OS=Bovine coronaviru... 75.9 1e-16
sp|P0C6T8|R1A_CVBEN Replicase polyprotein 1a OS=Bovine coronaviru... 75.9 1e-16
sp|P0C6Y5|R1AB_CVPPU Replicase polyprotein 1ab OS=Porcine transmi... 75.5 2e-16
sp|Q98VG9|R1AB_FIPV Replicase polyprotein 1ab OS=Feline coronavir... 75.5 2e-16
sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavir... 75.5 2e-16
sp|P0C6V2|R1A_CVPPU Replicase polyprotein 1a OS=Porcine transmiss... 75.1 2e-16
sp|P0C6U5|R1A_CVHN5 Replicase polyprotein 1a OS=Human coronavirus... 74.7 3e-16
sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavir... 74.3 5e-16
sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavir... 74.3 5e-16
sp|P0C6Y3|R1AB_IBVM Replicase polyprotein 1ab OS=Avian infectious... 73.6 8e-16
sp|P0C6U3|R1A_CVHN1 Replicase polyprotein 1a OS=Human coronavirus... 73.6 8e-16
sp|P0C6V5|R1A_IBVM Replicase polyprotein 1a OS=Avian infectious b... 73.2 1e-15
sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavi... 73.2 1e-15
sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavi... 73.2 1e-15
sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavir... 72.8 1e-15
sp|P0C6U4|R1A_CVHN2 Replicase polyprotein 1a OS=Human coronavirus... 72.4 2e-15
sp|P0C6U9|R1A_CVM2 Replicase polyprotein 1a OS=Murine coronavirus... 72.4 3e-15
sp|P0C6X0|R1AB_CVBQ Replicase polyprotein 1ab OS=Bovine coronavir... 71.6 5e-15
sp|P0C6Y2|R1AB_IBVBC Replicase polyprotein 1ab OS=Avian infectiou... 71.2 5e-15
sp|P0C6Y1|R1AB_IBVB Replicase polyprotein 1ab OS=Avian infectious... 71.2 5e-15
sp|P0C6V0|R1A_CVMA5 Replicase polyprotein 1a OS=Murine coronaviru... 71.2 6e-15
sp|P0C6V1|R1A_CVMJH Replicase polyprotein 1a OS=Murine coronaviru... 71.2 6e-15
sp|P0C6U1|R1A_CVBQ Replicase polyprotein 1a OS=Bovine coronavirus... 70.9 7e-15
sp|P0C6V4|R1A_IBVBC Replicase polyprotein 1a OS=Avian infectious ... 70.9 7e-15
sp|P0C6V3|R1A_IBVB Replicase polyprotein 1a OS=Avian infectious b... 70.9 7e-15
sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavir... 60.1 5e-11
sp|P0C6V6|R1A_PEDV7 Replicase polyprotein 1a OS=Porcine epidemic ... 60.1 6e-11
sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus... 60.1 6e-11
sp|P0C6F6|R1A_BC512 Replicase polyprotein 1a OS=Bat coronavirus 5... 59.7 6e-11
sp|P0C6Y4|R1AB_PEDV7 Replicase polyprotein 1ab OS=Porcine epidemi... 59.7 6e-11
sp|P0C6U2|R1A_CVH22 Replicase polyprotein 1a OS=Human coronavirus... 59.7 6e-11
sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavir... 59.3 1e-10
sp|P0C6U6|R1A_CVHNL Replicase polyprotein 1a OS=Human coronavirus... 58.9 1e-10
sp|Q6C0Z6|CCPR_YARLI Cytochrome c peroxidase, mitochondrial OS=Ya... 28.5 6.3
sp|P87112|NOT1_SCHPO General negative regulator of transcription ... 28.5 7.1
sp|Q39659|MFPA_CUCSA Glyoxysomal fatty acid beta-oxidation multif... 28.1 8.3
>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 = 167 bits (422), Expect = 1e-48, Method: Composition-based stats.
Identities = 83/83 (100%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3860 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3919
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDINKLCEEMLDNRATLQ
Sbjct 3920 SMQGAVDINKLCEEMLDNRATLQ 3942
>sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus
HKU3 OX=442736 GN=rep PE=3 SV=1
Length=7067
Score = 167 bits (422), Expect = 2e-48, Method: Composition-based stats.
Identities = 83/83 (100%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3831 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3890
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDINKLCEEMLDNRATLQ
Sbjct 3891 SMQGAVDINKLCEEMLDNRATLQ 3913
>sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus
Rp3/2004 OX=349344 GN=rep PE=3 SV=1
Length=7071
Score = 167 bits (422), Expect = 2e-48, Method: Composition-based stats.
Identities = 83/83 (100%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3835 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3894
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDINKLCEEMLDNRATLQ
Sbjct 3895 SMQGAVDINKLCEEMLDNRATLQ 3917
>sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus
279/2005 OX=389167 GN=rep PE=3 SV=1
Length=7079
Score = 166 bits (421), Expect = 2e-48, Method: Composition-based stats.
Identities = 83/83 (100%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3843 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3902
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDINKLCEEMLDNRATLQ
Sbjct 3903 SMQGAVDINKLCEEMLDNRATLQ 3925
>sp|P0C6F8|R1A_BCHK3 Replicase polyprotein 1a OS=Bat coronavirus
HKU3 OX=442736 GN=1a PE=3 SV=1
Length=4376
Score = 166 bits (421), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 83/83 (100%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3831 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3890
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDINKLCEEMLDNRATLQ
Sbjct 3891 SMQGAVDINKLCEEMLDNRATLQ 3913
>sp|P0C6T7|R1A_BCRP3 Replicase polyprotein 1a OS=Bat coronavirus
Rp3/2004 OX=349344 GN=1a PE=3 SV=1
Length=4380
Score = 166 bits (421), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 83/83 (100%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3835 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3894
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDINKLCEEMLDNRATLQ
Sbjct 3895 SMQGAVDINKLCEEMLDNRATLQ 3917
>sp|P0C6F5|R1A_BC279 Replicase polyprotein 1a OS=Bat coronavirus
279/2005 OX=389167 GN=1a PE=3 SV=1
Length=4388
Score = 166 bits (421), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 83/83 (100%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3843 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3902
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDINKLCEEMLDNRATLQ
Sbjct 3903 SMQGAVDINKLCEEMLDNRATLQ 3925
>sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute
respiratory syndrome coronavirus OX=694009 GN=rep PE=1 SV=1
Length=7073
Score = 166 bits (419), Expect = 3e-48, Method: Composition-based stats.
Identities = 82/83 (99%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3837 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3896
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDIN+LCEEMLDNRATLQ
Sbjct 3897 SMQGAVDINRLCEEMLDNRATLQ 3919
>sp|P0C6U8|R1A_SARS Replicase polyprotein 1a OS=Severe acute respiratory
syndrome coronavirus OX=694009 GN=1a PE=1 SV=1
Length=4382
Score = 166 bits (419), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 82/83 (99%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3837 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3896
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDIN+LCEEMLDNRATLQ
Sbjct 3897 SMQGAVDINRLCEEMLDNRATLQ 3919
>sp|P0DTC1|R1A_SARS2 Replicase polyprotein 1a OS=Severe acute
respiratory syndrome coronavirus 2 OX=2697049 PE=1 SV=1
Length=4405
Score = 165 bits (417), Expect = 6e-48, Method: Composition-based stats.
Identities = 83/83 (100%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3860 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3919
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDINKLCEEMLDNRATLQ
Sbjct 3920 SMQGAVDINKLCEEMLDNRATLQ 3942
>sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus
HKU5 OX=694008 GN=rep PE=3 SV=1
Length=7182
Score = 101 bits (251), Expect = 2e-25, Method: Composition-based stats.
Identities = 47/83 (57%), Positives = 62/83 (75%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCTSVVLLSVLQQL +E++SK WA CV+LHNDIL A D TEAF+ V L + L+
Sbjct 3937 SKLTDLKCTSVVLLSVLQQLHLEANSKAWAHCVKLHNDILAATDPTEAFDNFVCLFATLM 3996
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S VD+ L ++LD+ + LQ
Sbjct 3997 SFSANVDLEALASDLLDHPSVLQ 4019
>sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus
HKU9 OX=694006 GN=rep PE=1 SV=1
Length=6930
Score = 100 bits (250), Expect = 2e-25, Method: Composition-based stats.
Identities = 56/83 (67%), Positives = 70/83 (84%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
S M+D+KCTSVVLLSVLQQLRVESSSKLWA CV+LHN+IL + TEAFE VSLLSVLL
Sbjct 3700 SNMTDLKCTSVVLLSVLQQLRVESSSKLWALCVKLHNEILASNSPTEAFEAFVSLLSVLL 3759
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S+ GA+++++LC +L+N + LQ
Sbjct 3760 SLPGAINLDELCSSILENNSVLQ 3782
>sp|P0C6T6|R1A_BCHK9 Replicase polyprotein 1a OS=Bat coronavirus
HKU9 OX=694006 GN=1a PE=3 SV=1
Length=4248
Score = 100 bits (250), Expect = 2e-25, Method: Composition-based stats.
Identities = 56/83 (67%), Positives = 70/83 (84%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
S M+D+KCTSVVLLSVLQQLRVESSSKLWA CV+LHN+IL + TEAFE VSLLSVLL
Sbjct 3700 SNMTDLKCTSVVLLSVLQQLRVESSSKLWALCVKLHNEILASNSPTEAFEAFVSLLSVLL 3759
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S+ GA+++++LC +L+N + LQ
Sbjct 3760 SLPGAINLDELCSSILENNSVLQ 3782
>sp|P0C6T5|R1A_BCHK5 Replicase polyprotein 1a OS=Bat coronavirus
HKU5 OX=694008 GN=1a PE=3 SV=1
Length=4481
Score = 100 bits (249), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 47/83 (57%), Positives = 62/83 (75%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCTSVVLLSVLQQL +E++SK WA CV+LHNDIL A D TEAF+ V L + L+
Sbjct 3937 SKLTDLKCTSVVLLSVLQQLHLEANSKAWAHCVKLHNDILAATDPTEAFDNFVCLFATLM 3996
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S VD+ L ++LD+ + LQ
Sbjct 3997 SFSANVDLEALASDLLDHPSVLQ 4019
>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 = 100 bits (249), Expect = 3e-25, Method: Composition-based stats.
Identities = 46/83 (55%), Positives = 63/83 (76%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCTSVVLLSVLQQL +E++S+ WA CV+ HNDIL A D +EAFEK VSL + L+
Sbjct 3846 SKLTDLKCTSVVLLSVLQQLHLEANSRAWAFCVKCHNDILAATDPSEAFEKFVSLFATLM 3905
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
+ G VD++ L ++ D + LQ
Sbjct 3906 TFSGNVDLDALASDIFDTPSVLQ 3928
>sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus
HKU4 OX=694007 GN=rep PE=1 SV=1
Length=7119
Score = 99.8 bits (247), Expect = 6e-25, Method: Composition-based stats.
Identities = 45/83 (54%), Positives = 63/83 (76%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCTSVVLL+VLQQL +ES+SK W+ CV+LHN+IL A D TEAFE+ V L + L+
Sbjct 3890 SKLTDLKCTSVVLLTVLQQLHLESNSKAWSYCVKLHNEILAAVDPTEAFERFVCLFATLM 3949
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S VD++ L ++ +N + LQ
Sbjct 3950 SFSANVDLDALANDLFENSSVLQ 3972
>sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus
133/2005 OX=389230 GN=rep PE=3 SV=1
Length=7126
Score = 99.4 bits (246), Expect = 7e-25, Method: Composition-based stats.
Identities = 45/83 (54%), Positives = 63/83 (76%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCTSVVLL+VLQQL +ES+SK W+ CV+LHN+IL A D TEAFE+ V L + L+
Sbjct 3897 SKLTDLKCTSVVLLTVLQQLHLESNSKAWSYCVKLHNEILAAVDPTEAFERFVCLFATLM 3956
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S VD++ L ++ +N + LQ
Sbjct 3957 SFSANVDLDALANDLFENSSVLQ 3979
>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 = 99.4 bits (246), Expect = 7e-25, Method: Composition-based stats.
Identities = 46/83 (55%), Positives = 63/83 (76%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCTSVVLLSVLQQL +E++S+ WA CV+ HNDIL A D +EAFEK VSL + L+
Sbjct 3846 SKLTDLKCTSVVLLSVLQQLHLEANSRAWAFCVKCHNDILAATDPSEAFEKFVSLFATLM 3905
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
+ G VD++ L ++ D + LQ
Sbjct 3906 TFSGNVDLDALASDIFDTPSVLQ 3928
>sp|P0C6T4|R1A_BCHK4 Replicase polyprotein 1a OS=Bat coronavirus
HKU4 OX=694007 GN=1a PE=1 SV=1
Length=4434
Score = 99.0 bits (245), Expect = 1e-24, Method: Composition-based stats.
Identities = 45/83 (54%), Positives = 63/83 (76%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCTSVVLL+VLQQL +ES+SK W+ CV+LHN+IL A D TEAFE+ V L + L+
Sbjct 3890 SKLTDLKCTSVVLLTVLQQLHLESNSKAWSYCVKLHNEILAAVDPTEAFERFVCLFATLM 3949
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S VD++ L ++ +N + LQ
Sbjct 3950 SFSANVDLDALANDLFENSSVLQ 3972
>sp|P0C6F7|R1A_BC133 Replicase polyprotein 1a OS=Bat coronavirus
133/2005 OX=389230 GN=1a PE=3 SV=1
Length=4441
Score = 98.6 bits (244), Expect = 2e-24, Method: Composition-based stats.
Identities = 45/83 (54%), Positives = 63/83 (76%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCTSVVLL+VLQQL +ES+SK W+ CV+LHN+IL A D TEAFE+ V L + L+
Sbjct 3897 SKLTDLKCTSVVLLTVLQQLHLESNSKAWSYCVKLHNEILAAVDPTEAFERFVCLFATLM 3956
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S VD++ L ++ +N + LQ
Sbjct 3957 SFSANVDLDALANDLFENSSVLQ 3979
>sp|P0C6X6|R1AB_CVHOC Replicase polyprotein 1ab OS=Human coronavirus
OC43 OX=31631 GN=rep PE=1 SV=1
Length=7095
Score = 78.2 bits (191), Expect = 2e-17, Method: Composition-based stats.
Identities = 41/89 (46%), Positives = 55/89 (62%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D + AFEK+ LL VL
Sbjct 3837 SKLTDVKCANVVLLNCLQHLHVASNSKLWHYCSTLHNEILATSDLSVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>sp|P0C6U7|R1A_CVHOC Replicase polyprotein 1a OS=Human coronavirus
OC43 OX=31631 GN=1a PE=1 SV=1
Length=4383
Score = 77.4 bits (189), Expect = 4e-17, Method: Composition-based stats.
Identities = 41/89 (46%), Positives = 55/89 (62%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D + AFEK+ LL VL
Sbjct 3837 SKLTDVKCANVVLLNCLQHLHVASNSKLWHYCSTLHNEILATSDLSVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>sp|P0C6W9|R1AB_CVBM Replicase polyprotein 1ab OS=Bovine coronavirus
(strain Mebus) OX=11132 GN=rep PE=3 SV=1
Length=7094
Score = 77.0 bits (188), Expect = 5e-17, Method: Composition-based stats.
Identities = 41/89 (46%), Positives = 54/89 (61%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D AFEK+ LL VL
Sbjct 3837 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>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 = 77.0 bits (188), Expect = 5e-17, Method: Composition-based stats.
Identities = 41/89 (46%), Positives = 54/89 (61%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D AFEK+ LL VL
Sbjct 3837 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>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 = 77.0 bits (188), Expect = 5e-17, Method: Composition-based stats.
Identities = 41/89 (46%), Positives = 54/89 (61%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D AFEK+ LL VL
Sbjct 3837 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>sp|P0C6U0|R1A_CVBM Replicase polyprotein 1a OS=Bovine coronavirus
(strain Mebus) OX=11132 GN=1a PE=3 SV=1
Length=4383
Score = 75.9 bits (185), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 41/89 (46%), Positives = 54/89 (61%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D AFEK+ LL VL
Sbjct 3837 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>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 = 75.9 bits (185), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 41/89 (46%), Positives = 54/89 (61%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D AFEK+ LL VL
Sbjct 3837 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>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 = 75.9 bits (185), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 41/89 (46%), Positives = 54/89 (61%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D AFEK+ LL VL
Sbjct 3837 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>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 = 75.5 bits (184), Expect = 2e-16, Method: Composition-based stats.
Identities = 35/83 (42%), Positives = 54/83 (65%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++++KCT+VVLL +L ++ VES+SK W CV LHN+I L D EK+++L++ L
Sbjct 3475 SKLTEMKCTNVVLLGLLSKMHVESNSKEWNYCVGLHNEINLCDDPEIVLEKLLALIAFFL 3534
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S D+++L E +N LQ
Sbjct 3535 SKHNTCDLSELIESYFENTTILQ 3557
>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 = 75.5 bits (184), Expect = 2e-16, Method: Composition-based stats.
Identities = 35/83 (42%), Positives = 53/83 (64%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++++KCT+VVLL +L ++ VES+SK W CV LHN+I L D EK+++L++ L
Sbjct 3500 SKLTEMKCTNVVLLGLLSKMHVESNSKEWNYCVGLHNEINLCDDPDAVLEKLLALIAFFL 3559
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S D++ L E +N LQ
Sbjct 3560 SKHNTCDLSDLIESYFENTTILQ 3582
>sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavirus
HKU1 (isolate N5) OX=443241 GN=rep PE=3 SV=1
Length=7132
Score = 75.5 bits (184), Expect = 2e-16, Method: Composition-based stats.
Identities = 40/89 (45%), Positives = 56/89 (63%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3875 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSVLHNEILSTSDLSVAFDKLAQLLIVLF 3934
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
S AVD I+++ ++ + + LQ
Sbjct 3935 SNPAAVDTKCLASIDEVSDDYVQDSTVLQ 3963
>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 = 75.1 bits (183), Expect = 2e-16, Method: Composition-based stats.
Identities = 35/83 (42%), Positives = 54/83 (65%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++++KCT+VVLL +L ++ VES+SK W CV LHN+I L D EK+++L++ L
Sbjct 3475 SKLTEMKCTNVVLLGLLSKMHVESNSKEWNYCVGLHNEINLCDDPEIVLEKLLALIAFFL 3534
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S D+++L E +N LQ
Sbjct 3535 SKHNTCDLSELIESYFENTTILQ 3557
>sp|P0C6U5|R1A_CVHN5 Replicase polyprotein 1a OS=Human coronavirus
HKU1 (isolate N5) OX=443241 GN=1a PE=3 SV=1
Length=4421
Score = 74.7 bits (182), Expect = 3e-16, Method: Composition-based stats.
Identities = 40/89 (45%), Positives = 56/89 (63%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3875 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSVLHNEILSTSDLSVAFDKLAQLLIVLF 3934
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
S AVD I+++ ++ + + LQ
Sbjct 3935 SNPAAVDTKCLASIDEVSDDYVQDSTVLQ 3963
>sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavirus
(strain 2) OX=76344 GN=rep PE=3 SV=1
Length=7124
Score = 74.3 bits (181), Expect = 5e-16, Method: Composition-based stats.
Identities = 39/80 (49%), Positives = 52/80 (65%), Gaps = 2/80 (3%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
S+++DVKC +VVLL+ LQ L + SSSKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3870 SRLTDVKCVNVVLLNCLQHLHIASSSKLWQYCSTLHNEILATSDLSVAFDKLAQLLVVLF 3929
Query 61 SMQGAVDINKLC--EEMLDN 78
+ AVD L EE+ D+
Sbjct 3930 ANPAAVDSKCLASIEEVSDD 3949
>sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavirus
HKU1 (isolate N1) OX=443239 GN=rep PE=3 SV=1
Length=7182
Score = 74.3 bits (181), Expect = 5e-16, Method: Composition-based stats.
Identities = 39/89 (44%), Positives = 56/89 (63%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3925 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSVLHNEILSTSDLSVAFDKLAQLLIVLF 3984
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I+++ ++ + + LQ
Sbjct 3985 ANPAAVDTKCLASIDEVSDDYVQDSTVLQ 4013
>sp|P0C6Y3|R1AB_IBVM Replicase polyprotein 1ab OS=Avian infectious
bronchitis virus (strain M41) OX=11127 GN=rep PE=1 SV=1
Length=6631
Score = 73.6 bits (179), Expect = 8e-16, Method: Composition-based stats.
Identities = 33/83 (40%), Positives = 54/83 (65%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK+SDVKCT+VVL+ +L +L VE++SK+ A V+LHN IL + D E + ++ +L L
Sbjct 3382 SKLSDVKCTTVVLMQLLTKLNVEANSKMHAYLVELHNKILASDDVGECMDNLLGMLITLF 3441
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
+ +D+ + C+++L LQ
Sbjct 3442 CIDSTIDLGEYCDDILKRSTVLQ 3464
>sp|P0C6U3|R1A_CVHN1 Replicase polyprotein 1a OS=Human coronavirus
HKU1 (isolate N1) OX=443239 GN=1a PE=1 SV=1
Length=4471
Score = 73.6 bits (179), Expect = 8e-16, Method: Composition-based stats.
Identities = 39/89 (44%), Positives = 56/89 (63%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3925 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSVLHNEILSTSDLSVAFDKLAQLLIVLF 3984
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I+++ ++ + + LQ
Sbjct 3985 ANPAAVDTKCLASIDEVSDDYVQDSTVLQ 4013
>sp|P0C6V5|R1A_IBVM Replicase polyprotein 1a OS=Avian infectious
bronchitis virus (strain M41) OX=11127 GN=1a PE=1 SV=1
Length=3953
Score = 73.2 bits (178), Expect = 1e-15, Method: Composition-based stats.
Identities = 33/83 (40%), Positives = 54/83 (65%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK+SDVKCT+VVL+ +L +L VE++SK+ A V+LHN IL + D E + ++ +L L
Sbjct 3382 SKLSDVKCTTVVLMQLLTKLNVEANSKMHAYLVELHNKILASDDVGECMDNLLGMLITLF 3441
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
+ +D+ + C+++L LQ
Sbjct 3442 CIDSTIDLGEYCDDILKRSTVLQ 3464
>sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavirus
(strain A59) OX=11142 GN=rep PE=1 SV=1
Length=7176
Score = 73.2 bits (178), Expect = 1e-15, Method: Composition-based stats.
Identities = 38/80 (48%), Positives = 52/80 (65%), Gaps = 2/80 (3%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
S+++DVKC +VVLL+ LQ L + S+SKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3922 SRLTDVKCANVVLLNCLQHLHIASNSKLWQYCSTLHNEILATSDLSMAFDKLAQLLVVLF 3981
Query 61 SMQGAVDINKLC--EEMLDN 78
+ AVD L EE+ D+
Sbjct 3982 ANPAAVDSKCLASIEEVSDD 4001
>sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavirus
(strain JHM) OX=11144 GN=rep PE=1 SV=1
Length=7180
Score = 73.2 bits (178), Expect = 1e-15, Method: Composition-based stats.
Identities = 38/80 (48%), Positives = 52/80 (65%), Gaps = 2/80 (3%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
S+++DVKC +VVLL+ LQ L + S+SKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3928 SRLTDVKCANVVLLNCLQHLHIASNSKLWQYCSTLHNEILATSDLSVAFDKLAQLLVVLF 3987
Query 61 SMQGAVDINKLC--EEMLDN 78
+ AVD L EE+ D+
Sbjct 3988 ANPAAVDSKCLASIEEVSDD 4007
>sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavirus
HKU1 (isolate N2) OX=443240 GN=rep PE=3 SV=1
Length=7152
Score = 72.8 bits (177), Expect = 1e-15, Method: Composition-based stats.
Identities = 38/89 (43%), Positives = 56/89 (63%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+S+LW C LHN+IL D + AF+K+ LL VL
Sbjct 3895 SKLTDVKCANVVLLNCLQHLHVASNSRLWQYCSILHNEILSTSDLSVAFDKLAQLLIVLF 3954
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I+++ ++ + + LQ
Sbjct 3955 ANPAAVDTKCLASIDEVSDDYVQDSTVLQ 3983
>sp|P0C6U4|R1A_CVHN2 Replicase polyprotein 1a OS=Human coronavirus
HKU1 (isolate N2) OX=443240 GN=1a PE=3 SV=1
Length=4441
Score = 72.4 bits (176), Expect = 2e-15, Method: Composition-based stats.
Identities = 38/89 (43%), Positives = 56/89 (63%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+S+LW C LHN+IL D + AF+K+ LL VL
Sbjct 3895 SKLTDVKCANVVLLNCLQHLHVASNSRLWQYCSILHNEILSTSDLSVAFDKLAQLLIVLF 3954
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I+++ ++ + + LQ
Sbjct 3955 ANPAAVDTKCLASIDEVSDDYVQDSTVLQ 3983
>sp|P0C6U9|R1A_CVM2 Replicase polyprotein 1a OS=Murine coronavirus
(strain 2) OX=76344 GN=1a PE=3 SV=1
Length=4416
Score = 72.4 bits (176), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 35/67 (52%), Positives = 46/67 (69%), Gaps = 0/67 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
S+++DVKC +VVLL+ LQ L + SSSKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3870 SRLTDVKCVNVVLLNCLQHLHIASSSKLWQYCSTLHNEILATSDLSVAFDKLAQLLVVLF 3929
Query 61 SMQGAVD 67
+ AVD
Sbjct 3930 ANPAAVD 3936
>sp|P0C6X0|R1AB_CVBQ Replicase polyprotein 1ab OS=Bovine coronavirus
(strain Quebec) OX=11133 GN=rep PE=3 SV=1
Length=7059
Score = 71.6 bits (174), Expect = 5e-15, Method: Composition-based stats.
Identities = 39/89 (44%), Positives = 52/89 (58%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC + LL+ LQ L V S+SKLW C LHN+IL D AFEK+ LL VL
Sbjct 3837 SKLTDVKCANGGLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>sp|P0C6Y2|R1AB_IBVBC Replicase polyprotein 1ab OS=Avian infectious
bronchitis virus (strain Beaudette CK) OX=160235 GN=rep
PE=3 SV=1
Length=6629
Score = 71.2 bits (173), Expect = 5e-15, Method: Composition-based stats.
Identities = 31/83 (37%), Positives = 54/83 (65%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
+K+SDVKCT+VVL+ +L +L VE++SK+ V+LHN IL + D E + ++ +L L
Sbjct 3380 AKLSDVKCTTVVLMQLLTKLNVEANSKMHVYLVELHNKILASDDVGECMDNLLGMLITLF 3439
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
+ +D+++ C+++L LQ
Sbjct 3440 CIDSTIDLSEYCDDILKRSTVLQ 3462
>sp|P0C6Y1|R1AB_IBVB Replicase polyprotein 1ab OS=Avian infectious
bronchitis virus (strain Beaudette) OX=11122 GN=rep PE=1
SV=1
Length=6629
Score = 71.2 bits (173), Expect = 5e-15, Method: Composition-based stats.
Identities = 31/83 (37%), Positives = 54/83 (65%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
+K+SDVKCT+VVL+ +L +L VE++SK+ V+LHN IL + D E + ++ +L L
Sbjct 3380 AKLSDVKCTTVVLMQLLTKLNVEANSKMHVYLVELHNKILASDDVGECMDNLLGMLITLF 3439
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
+ +D+++ C+++L LQ
Sbjct 3440 CIDSTIDLSEYCDDILKRSTVLQ 3462
>sp|P0C6V0|R1A_CVMA5 Replicase polyprotein 1a OS=Murine coronavirus
(strain A59) OX=11142 GN=1a PE=1 SV=1
Length=4468
Score = 71.2 bits (173), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 34/67 (51%), Positives = 46/67 (69%), Gaps = 0/67 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
S+++DVKC +VVLL+ LQ L + S+SKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3922 SRLTDVKCANVVLLNCLQHLHIASNSKLWQYCSTLHNEILATSDLSMAFDKLAQLLVVLF 3981
Query 61 SMQGAVD 67
+ AVD
Sbjct 3982 ANPAAVD 3988
>sp|P0C6V1|R1A_CVMJH Replicase polyprotein 1a OS=Murine coronavirus
(strain JHM) OX=11144 GN=1a PE=1 SV=1
Length=4474
Score = 71.2 bits (173), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 34/67 (51%), Positives = 46/67 (69%), Gaps = 0/67 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
S+++DVKC +VVLL+ LQ L + S+SKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3928 SRLTDVKCANVVLLNCLQHLHIASNSKLWQYCSTLHNEILATSDLSVAFDKLAQLLVVLF 3987
Query 61 SMQGAVD 67
+ AVD
Sbjct 3988 ANPAAVD 3994
>sp|P0C6U1|R1A_CVBQ Replicase polyprotein 1a OS=Bovine coronavirus
(strain Quebec) OX=11133 GN=1a PE=3 SV=1
Length=4383
Score = 70.9 bits (172), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 39/89 (44%), Positives = 52/89 (58%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC + LL+ LQ L V S+SKLW C LHN+IL D AFEK+ LL VL
Sbjct 3837 SKLTDVKCANGGLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>sp|P0C6V4|R1A_IBVBC Replicase polyprotein 1a OS=Avian infectious
bronchitis virus (strain Beaudette CK) OX=160235 GN=1a PE=3
SV=1
Length=3951
Score = 70.9 bits (172), Expect = 7e-15, Method: Composition-based stats.
Identities = 31/83 (37%), Positives = 54/83 (65%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
+K+SDVKCT+VVL+ +L +L VE++SK+ V+LHN IL + D E + ++ +L L
Sbjct 3380 AKLSDVKCTTVVLMQLLTKLNVEANSKMHVYLVELHNKILASDDVGECMDNLLGMLITLF 3439
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
+ +D+++ C+++L LQ
Sbjct 3440 CIDSTIDLSEYCDDILKRSTVLQ 3462
>sp|P0C6V3|R1A_IBVB Replicase polyprotein 1a OS=Avian infectious
bronchitis virus (strain Beaudette) OX=11122 GN=1a PE=1 SV=1
Length=3951
Score = 70.9 bits (172), Expect = 7e-15, Method: Composition-based stats.
Identities = 31/83 (37%), Positives = 54/83 (65%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
+K+SDVKCT+VVL+ +L +L VE++SK+ V+LHN IL + D E + ++ +L L
Sbjct 3380 AKLSDVKCTTVVLMQLLTKLNVEANSKMHVYLVELHNKILASDDVGECMDNLLGMLITLF 3439
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
+ +D+++ C+++L LQ
Sbjct 3440 CIDSTIDLSEYCDDILKRSTVLQ 3462
>sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavirus
229E OX=11137 GN=rep PE=1 SV=1
Length=6758
Score = 60.1 bits (144), Expect = 5e-11, Method: Composition-based stats.
Identities = 32/83 (39%), Positives = 51/83 (61%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCT+VVL+ +L + + S+SK WA CV++HN I L D A E +++LL+ L
Sbjct 3547 SKLTDLKCTNVVLMGILSNMNIASNSKEWAYCVEMHNKINLCDDPETAQELLLALLAFFL 3606
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S + L + +N + LQ
Sbjct 3607 SKHSDFGLGDLVDSYFENDSILQ 3629
>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 = 60.1 bits (144), Expect = 6e-11, Method: Composition-based stats.
Identities = 33/83 (40%), Positives = 51/83 (61%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KC++VVLL L + V ++S WA CV LHN I L D +A E +++LL+ L
Sbjct 3580 SKLTDIKCSNVVLLGCLSSMNVSANSTEWAYCVDLHNKINLCNDPEKAQEMLLALLAFFL 3639
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S A ++ L E ++ + LQ
Sbjct 3640 SKNSAFGLDDLLESYFNDNSMLQ 3662
>sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus
512/2005 OX=693999 GN=rep PE=3 SV=1
Length=6793
Score = 60.1 bits (144), Expect = 6e-11, Method: Composition-based stats.
Identities = 32/83 (39%), Positives = 52/83 (63%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCT+VVLL L + + ++S+ WA CV LHN I L D A E +++LL+ L
Sbjct 3591 SKLTDLKCTNVVLLGCLSNMNIAANSREWAYCVDLHNKINLCNDAEAAQEMLLALLAFFL 3650
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S A +++L + ++ + LQ
Sbjct 3651 SKNSAFGVDELLDSYFNDSSVLQ 3673
>sp|P0C6F6|R1A_BC512 Replicase polyprotein 1a OS=Bat coronavirus
512/2005 OX=693999 GN=1a PE=3 SV=1
Length=4128
Score = 59.7 bits (143), Expect = 6e-11, Method: Composition-based stats.
Identities = 32/83 (39%), Positives = 52/83 (63%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCT+VVLL L + + ++S+ WA CV LHN I L D A E +++LL+ L
Sbjct 3591 SKLTDLKCTNVVLLGCLSNMNIAANSREWAYCVDLHNKINLCNDAEAAQEMLLALLAFFL 3650
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S A +++L + ++ + LQ
Sbjct 3651 SKNSAFGVDELLDSYFNDSSVLQ 3673
>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 = 59.7 bits (143), Expect = 6e-11, Method: Composition-based stats.
Identities = 33/83 (40%), Positives = 51/83 (61%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KC++VVLL L + V ++S WA CV LHN I L D +A E +++LL+ L
Sbjct 3580 SKLTDIKCSNVVLLGCLSSMNVSANSTEWAYCVDLHNKINLCNDPEKAQEMLLALLAFFL 3639
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S A ++ L E ++ + LQ
Sbjct 3640 SKNSAFGLDDLLESYFNDNSMLQ 3662
>sp|P0C6U2|R1A_CVH22 Replicase polyprotein 1a OS=Human coronavirus
229E OX=11137 GN=1a PE=1 SV=1
Length=4085
Score = 59.7 bits (143), Expect = 6e-11, Method: Composition-based stats.
Identities = 32/83 (39%), Positives = 51/83 (61%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCT+VVL+ +L + + S+SK WA CV++HN I L D A E +++LL+ L
Sbjct 3547 SKLTDLKCTNVVLMGILSNMNIASNSKEWAYCVEMHNKINLCDDPETAQELLLALLAFFL 3606
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S + L + +N + LQ
Sbjct 3607 SKHSDFGLGDLVDSYFENDSILQ 3629
>sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavirus
NL63 OX=277944 GN=rep PE=1 SV=1
Length=6729
Score = 59.3 bits (142), Expect = 1e-10, Method: Composition-based stats.
Identities = 33/83 (40%), Positives = 50/83 (60%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCT+VVLL L + + ++S WA CV LHN I L D +A +++LL+ L
Sbjct 3522 SKLTDLKCTNVVLLGCLSSMNIAANSSEWAYCVDLHNKINLCDDPEKAQSMLLALLAFFL 3581
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S ++ L + DN +TLQ
Sbjct 3582 SKHSDFGLDGLIDSYFDNSSTLQ 3604
>sp|P0C6U6|R1A_CVHNL Replicase polyprotein 1a OS=Human coronavirus
NL63 OX=277944 GN=1a PE=1 SV=1
Length=4060
Score = 58.9 bits (141), Expect = 1e-10, Method: Composition-based stats.
Identities = 33/83 (40%), Positives = 50/83 (60%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCT+VVLL L + + ++S WA CV LHN I L D +A +++LL+ L
Sbjct 3522 SKLTDLKCTNVVLLGCLSSMNIAANSSEWAYCVDLHNKINLCDDPEKAQSMLLALLAFFL 3581
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S ++ L + DN +TLQ
Sbjct 3582 SKHSDFGLDGLIDSYFDNSSTLQ 3604
>sp|Q6C0Z6|CCPR_YARLI Cytochrome c peroxidase, mitochondrial OS=Yarrowia
lipolytica (strain CLIB 122 / E 150) OX=284591 GN=CCP1
PE=3 SV=1
Length=340
Score = 28.5 bits (62), Expect = 6.3, Method: Composition-based stats.
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 1/53 (2%)
Query 2 KMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVS 54
+ DVK S+++L L + + K WA D+ KD + AF KM++
Sbjct 270 QYEDVKTKSLMMLPTDMALATDKNFKKWATAYAKDQDLFF-KDFSAAFSKMLN 321
>sp|P87112|NOT1_SCHPO General negative regulator of transcription
subunit 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC
24843) OX=284812 GN=not1 PE=1 SV=1
Length=2100
Score = 28.5 bits (62), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 12/32 (38%), Positives = 17/32 (53%), Gaps = 0/32 (0%)
Query 5 DVKCTSVVLLSVLQQLRVESSSKLWAQCVQLH 36
D KC +L ++ QLR SS +A C L+
Sbjct 1974 DSKCRYFLLTAIANQLRYPSSHTYYASCCFLY 2005
>sp|Q39659|MFPA_CUCSA Glyoxysomal fatty acid beta-oxidation multifunctional
protein MFP-a OS=Cucumis sativus OX=3659 PE=1
SV=1
Length=725
Score = 28.1 bits (61), Expect = 8.3, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 24/39 (62%), Gaps = 0/39 (0%)
Query 45 TTEAFEKMVSLLSVLLSMQGAVDINKLCEEMLDNRATLQ 83
T E FEK +SLL +L+ + D++ + E +++N + Q
Sbjct 369 TNEKFEKSISLLKGVLNYESFKDVDMVIEAVIENVSLKQ 407
Lambda K H a alpha
0.318 0.127 0.342 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: 5099045872
Results from round 2
Query= YP_009725303.1 nsp7 [Severe acute respiratory syndrome coronavirus
2]
Length=83
Score E
Sequences producing significant alignments: (Bits) Value
Sequences used in model and found again:
sp|P0C6Y5|R1AB_CVPPU Replicase polyprotein 1ab OS=Porcine transmi... 129 2e-35
sp|P0C6V2|R1A_CVPPU Replicase polyprotein 1a OS=Porcine transmiss... 129 2e-35
sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus... 129 2e-35
sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus... 129 3e-35
sp|P0C6T4|R1A_BCHK4 Replicase polyprotein 1a OS=Bat coronavirus H... 128 4e-35
sp|P0C6F7|R1A_BC133 Replicase polyprotein 1a OS=Bat coronavirus 1... 128 4e-35
sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus... 127 1e-34
sp|Q98VG9|R1AB_FIPV Replicase polyprotein 1ab OS=Feline coronavir... 127 1e-34
sp|K9N7C7|R1AB_MERS1 Replicase polyprotein 1ab OS=Middle East res... 126 2e-34
sp|P0C6T5|R1A_BCHK5 Replicase polyprotein 1a OS=Bat coronavirus H... 126 3e-34
sp|K9N638|R1A_MERS1 Replicase polyprotein 1a OS=Middle East respi... 125 3e-34
sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus... 123 3e-33
sp|P0DTD1|R1AB_SARS2 Replicase polyprotein 1ab OS=Severe acute re... 123 4e-33
sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus... 123 4e-33
sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus... 123 4e-33
sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute res... 122 4e-33
sp|P0C6T7|R1A_BCRP3 Replicase polyprotein 1a OS=Bat coronavirus R... 122 6e-33
sp|P0DTC1|R1A_SARS2 Replicase polyprotein 1a OS=Severe acute resp... 122 6e-33
sp|P0C6F5|R1A_BC279 Replicase polyprotein 1a OS=Bat coronavirus 2... 122 6e-33
sp|P0C6F8|R1A_BCHK3 Replicase polyprotein 1a OS=Bat coronavirus H... 122 6e-33
sp|P0C6U8|R1A_SARS Replicase polyprotein 1a OS=Severe acute respi... 122 8e-33
sp|P0C6X6|R1AB_CVHOC Replicase polyprotein 1ab OS=Human coronavir... 122 1e-32
sp|P0C6W9|R1AB_CVBM Replicase polyprotein 1ab OS=Bovine coronavir... 121 1e-32
sp|P0C6W7|R1AB_CVBEN Replicase polyprotein 1ab OS=Bovine coronavi... 121 1e-32
sp|P0C6W8|R1AB_CVBLU Replicase polyprotein 1ab OS=Bovine coronavi... 121 1e-32
sp|P0C6U7|R1A_CVHOC Replicase polyprotein 1a OS=Human coronavirus... 121 2e-32
sp|P0C6U0|R1A_CVBM Replicase polyprotein 1a OS=Bovine coronavirus... 120 2e-32
sp|P0C6T9|R1A_CVBLU Replicase polyprotein 1a OS=Bovine coronaviru... 120 2e-32
sp|P0C6T8|R1A_CVBEN Replicase polyprotein 1a OS=Bovine coronaviru... 120 2e-32
sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavir... 118 1e-31
sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavi... 118 1e-31
sp|P0C6U5|R1A_CVHN5 Replicase polyprotein 1a OS=Human coronavirus... 118 2e-31
sp|P0C6V1|R1A_CVMJH Replicase polyprotein 1a OS=Murine coronaviru... 118 2e-31
sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavir... 118 2e-31
sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavi... 117 3e-31
sp|P0C6U3|R1A_CVHN1 Replicase polyprotein 1a OS=Human coronavirus... 117 3e-31
sp|P0C6V0|R1A_CVMA5 Replicase polyprotein 1a OS=Murine coronaviru... 117 4e-31
sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavir... 117 5e-31
sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavir... 117 5e-31
sp|P0C6U4|R1A_CVHN2 Replicase polyprotein 1a OS=Human coronavirus... 116 7e-31
sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavir... 116 7e-31
sp|P0C6V6|R1A_PEDV7 Replicase polyprotein 1a OS=Porcine epidemic ... 116 8e-31
sp|P0C6F6|R1A_BC512 Replicase polyprotein 1a OS=Bat coronavirus 5... 116 8e-31
sp|P0C6U9|R1A_CVM2 Replicase polyprotein 1a OS=Murine coronavirus... 116 8e-31
sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus... 116 8e-31
sp|P0C6U6|R1A_CVHNL Replicase polyprotein 1a OS=Human coronavirus... 116 9e-31
sp|P0C6Y3|R1AB_IBVM Replicase polyprotein 1ab OS=Avian infectious... 116 1e-30
sp|P0C6V5|R1A_IBVM Replicase polyprotein 1a OS=Avian infectious b... 116 1e-30
sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavir... 115 1e-30
sp|P0C6Y4|R1AB_PEDV7 Replicase polyprotein 1ab OS=Porcine epidemi... 115 1e-30
sp|P0C6U2|R1A_CVH22 Replicase polyprotein 1a OS=Human coronavirus... 115 1e-30
sp|P0C6X0|R1AB_CVBQ Replicase polyprotein 1ab OS=Bovine coronavir... 115 2e-30
sp|P0C6U1|R1A_CVBQ Replicase polyprotein 1a OS=Bovine coronavirus... 114 3e-30
sp|P0C6T6|R1A_BCHK9 Replicase polyprotein 1a OS=Bat coronavirus H... 112 2e-29
sp|P0C6Y1|R1AB_IBVB Replicase polyprotein 1ab OS=Avian infectious... 112 2e-29
sp|P0C6Y2|R1AB_IBVBC Replicase polyprotein 1ab OS=Avian infectiou... 112 2e-29
sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus... 112 2e-29
sp|P0C6V4|R1A_IBVBC Replicase polyprotein 1a OS=Avian infectious ... 112 2e-29
sp|P0C6V3|R1A_IBVB Replicase polyprotein 1a OS=Avian infectious b... 112 2e-29
Sequences not found previously or not previously below threshold:
sp|Q96JA1|LRIG1_HUMAN Leucine-rich repeats and immunoglobulin-lik... 31.9 0.37
sp|P70193|LRIG1_MOUSE Leucine-rich repeats and immunoglobulin-lik... 30.4 1.3
sp|Q5JFR5|HISX_THEKO Histidinol dehydrogenase OS=Thermococcus kod... 28.8 4.4
sp|Q55CT5|SEC31_DICDI Protein transport protein SEC31 OS=Dictyost... 28.8 5.7
>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 = 129 bits (325), Expect = 2e-35, Method: Composition-based stats.
Identities = 35/83 (42%), Positives = 54/83 (65%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++++KCT+VVLL +L ++ VES+SK W CV LHN+I L D EK+++L++ L
Sbjct 3475 SKLTEMKCTNVVLLGLLSKMHVESNSKEWNYCVGLHNEINLCDDPEIVLEKLLALIAFFL 3534
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S D+++L E +N LQ
Sbjct 3535 SKHNTCDLSELIESYFENTTILQ 3557
>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 = 129 bits (325), Expect = 2e-35, Method: Composition-based stats.
Identities = 35/83 (42%), Positives = 54/83 (65%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++++KCT+VVLL +L ++ VES+SK W CV LHN+I L D EK+++L++ L
Sbjct 3475 SKLTEMKCTNVVLLGLLSKMHVESNSKEWNYCVGLHNEINLCDDPEIVLEKLLALIAFFL 3534
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S D+++L E +N LQ
Sbjct 3535 SKHNTCDLSELIESYFENTTILQ 3557
>sp|P0C6W3|R1AB_BCHK4 Replicase polyprotein 1ab OS=Bat coronavirus
HKU4 OX=694007 GN=rep PE=1 SV=1
Length=7119
Score = 129 bits (324), Expect = 2e-35, Method: Composition-based stats.
Identities = 45/83 (54%), Positives = 63/83 (76%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCTSVVLL+VLQQL +ES+SK W+ CV+LHN+IL A D TEAFE+ V L + L+
Sbjct 3890 SKLTDLKCTSVVLLTVLQQLHLESNSKAWSYCVKLHNEILAAVDPTEAFERFVCLFATLM 3949
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S VD++ L ++ +N + LQ
Sbjct 3950 SFSANVDLDALANDLFENSSVLQ 3972
>sp|P0C6W1|R1AB_BC133 Replicase polyprotein 1ab OS=Bat coronavirus
133/2005 OX=389230 GN=rep PE=3 SV=1
Length=7126
Score = 129 bits (324), Expect = 3e-35, Method: Composition-based stats.
Identities = 45/83 (54%), Positives = 63/83 (76%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCTSVVLL+VLQQL +ES+SK W+ CV+LHN+IL A D TEAFE+ V L + L+
Sbjct 3897 SKLTDLKCTSVVLLTVLQQLHLESNSKAWSYCVKLHNEILAAVDPTEAFERFVCLFATLM 3956
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S VD++ L ++ +N + LQ
Sbjct 3957 SFSANVDLDALANDLFENSSVLQ 3979
>sp|P0C6T4|R1A_BCHK4 Replicase polyprotein 1a OS=Bat coronavirus
HKU4 OX=694007 GN=1a PE=1 SV=1
Length=4434
Score = 128 bits (322), Expect = 4e-35, Method: Composition-based stats.
Identities = 45/83 (54%), Positives = 63/83 (76%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCTSVVLL+VLQQL +ES+SK W+ CV+LHN+IL A D TEAFE+ V L + L+
Sbjct 3890 SKLTDLKCTSVVLLTVLQQLHLESNSKAWSYCVKLHNEILAAVDPTEAFERFVCLFATLM 3949
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S VD++ L ++ +N + LQ
Sbjct 3950 SFSANVDLDALANDLFENSSVLQ 3972
>sp|P0C6F7|R1A_BC133 Replicase polyprotein 1a OS=Bat coronavirus
133/2005 OX=389230 GN=1a PE=3 SV=1
Length=4441
Score = 128 bits (322), Expect = 4e-35, Method: Composition-based stats.
Identities = 45/83 (54%), Positives = 63/83 (76%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCTSVVLL+VLQQL +ES+SK W+ CV+LHN+IL A D TEAFE+ V L + L+
Sbjct 3897 SKLTDLKCTSVVLLTVLQQLHLESNSKAWSYCVKLHNEILAAVDPTEAFERFVCLFATLM 3956
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S VD++ L ++ +N + LQ
Sbjct 3957 SFSANVDLDALANDLFENSSVLQ 3979
>sp|P0C6W4|R1AB_BCHK5 Replicase polyprotein 1ab OS=Bat coronavirus
HKU5 OX=694008 GN=rep PE=3 SV=1
Length=7182
Score = 127 bits (318), Expect = 1e-34, Method: Composition-based stats.
Identities = 47/83 (57%), Positives = 62/83 (75%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCTSVVLLSVLQQL +E++SK WA CV+LHNDIL A D TEAF+ V L + L+
Sbjct 3937 SKLTDLKCTSVVLLSVLQQLHLEANSKAWAHCVKLHNDILAATDPTEAFDNFVCLFATLM 3996
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S VD+ L ++LD+ + LQ
Sbjct 3997 SFSANVDLEALASDLLDHPSVLQ 4019
>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 = 127 bits (318), Expect = 1e-34, Method: Composition-based stats.
Identities = 35/83 (42%), Positives = 53/83 (64%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++++KCT+VVLL +L ++ VES+SK W CV LHN+I L D EK+++L++ L
Sbjct 3500 SKLTEMKCTNVVLLGLLSKMHVESNSKEWNYCVGLHNEINLCDDPDAVLEKLLALIAFFL 3559
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S D++ L E +N LQ
Sbjct 3560 SKHNTCDLSDLIESYFENTTILQ 3582
>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 = 126 bits (317), Expect = 2e-34, Method: Composition-based stats.
Identities = 46/83 (55%), Positives = 63/83 (76%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCTSVVLLSVLQQL +E++S+ WA CV+ HNDIL A D +EAFEK VSL + L+
Sbjct 3846 SKLTDLKCTSVVLLSVLQQLHLEANSRAWAFCVKCHNDILAATDPSEAFEKFVSLFATLM 3905
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
+ G VD++ L ++ D + LQ
Sbjct 3906 TFSGNVDLDALASDIFDTPSVLQ 3928
>sp|P0C6T5|R1A_BCHK5 Replicase polyprotein 1a OS=Bat coronavirus
HKU5 OX=694008 GN=1a PE=3 SV=1
Length=4481
Score = 126 bits (316), Expect = 3e-34, Method: Composition-based stats.
Identities = 47/83 (57%), Positives = 62/83 (75%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCTSVVLLSVLQQL +E++SK WA CV+LHNDIL A D TEAF+ V L + L+
Sbjct 3937 SKLTDLKCTSVVLLSVLQQLHLEANSKAWAHCVKLHNDILAATDPTEAFDNFVCLFATLM 3996
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S VD+ L ++LD+ + LQ
Sbjct 3997 SFSANVDLEALASDLLDHPSVLQ 4019
>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 = 125 bits (315), Expect = 3e-34, Method: Composition-based stats.
Identities = 46/83 (55%), Positives = 63/83 (76%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCTSVVLLSVLQQL +E++S+ WA CV+ HNDIL A D +EAFEK VSL + L+
Sbjct 3846 SKLTDLKCTSVVLLSVLQQLHLEANSRAWAFCVKCHNDILAATDPSEAFEKFVSLFATLM 3905
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
+ G VD++ L ++ D + LQ
Sbjct 3906 TFSGNVDLDALASDIFDTPSVLQ 3928
>sp|P0C6W6|R1AB_BCRP3 Replicase polyprotein 1ab OS=Bat coronavirus
Rp3/2004 OX=349344 GN=rep PE=3 SV=1
Length=7071
Score = 123 bits (308), Expect = 3e-33, Method: Composition-based stats.
Identities = 83/83 (100%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3835 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3894
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDINKLCEEMLDNRATLQ
Sbjct 3895 SMQGAVDINKLCEEMLDNRATLQ 3917
>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 = 123 bits (308), Expect = 4e-33, Method: Composition-based stats.
Identities = 83/83 (100%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3860 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3919
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDINKLCEEMLDNRATLQ
Sbjct 3920 SMQGAVDINKLCEEMLDNRATLQ 3942
>sp|P0C6V9|R1AB_BC279 Replicase polyprotein 1ab OS=Bat coronavirus
279/2005 OX=389167 GN=rep PE=3 SV=1
Length=7079
Score = 123 bits (308), Expect = 4e-33, Method: Composition-based stats.
Identities = 83/83 (100%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3843 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3902
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDINKLCEEMLDNRATLQ
Sbjct 3903 SMQGAVDINKLCEEMLDNRATLQ 3925
>sp|P0C6W2|R1AB_BCHK3 Replicase polyprotein 1ab OS=Bat coronavirus
HKU3 OX=442736 GN=rep PE=3 SV=1
Length=7067
Score = 123 bits (308), Expect = 4e-33, Method: Composition-based stats.
Identities = 83/83 (100%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3831 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3890
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDINKLCEEMLDNRATLQ
Sbjct 3891 SMQGAVDINKLCEEMLDNRATLQ 3913
>sp|P0C6X7|R1AB_SARS Replicase polyprotein 1ab OS=Severe acute
respiratory syndrome coronavirus OX=694009 GN=rep PE=1 SV=1
Length=7073
Score = 122 bits (307), Expect = 4e-33, Method: Composition-based stats.
Identities = 82/83 (99%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3837 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3896
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDIN+LCEEMLDNRATLQ
Sbjct 3897 SMQGAVDINRLCEEMLDNRATLQ 3919
>sp|P0C6T7|R1A_BCRP3 Replicase polyprotein 1a OS=Bat coronavirus
Rp3/2004 OX=349344 GN=1a PE=3 SV=1
Length=4380
Score = 122 bits (306), Expect = 6e-33, Method: Composition-based stats.
Identities = 83/83 (100%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3835 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3894
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDINKLCEEMLDNRATLQ
Sbjct 3895 SMQGAVDINKLCEEMLDNRATLQ 3917
>sp|P0DTC1|R1A_SARS2 Replicase polyprotein 1a OS=Severe acute
respiratory syndrome coronavirus 2 OX=2697049 PE=1 SV=1
Length=4405
Score = 122 bits (306), Expect = 6e-33, Method: Composition-based stats.
Identities = 83/83 (100%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3860 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3919
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDINKLCEEMLDNRATLQ
Sbjct 3920 SMQGAVDINKLCEEMLDNRATLQ 3942
>sp|P0C6F5|R1A_BC279 Replicase polyprotein 1a OS=Bat coronavirus
279/2005 OX=389167 GN=1a PE=3 SV=1
Length=4388
Score = 122 bits (306), Expect = 6e-33, Method: Composition-based stats.
Identities = 83/83 (100%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3843 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3902
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDINKLCEEMLDNRATLQ
Sbjct 3903 SMQGAVDINKLCEEMLDNRATLQ 3925
>sp|P0C6F8|R1A_BCHK3 Replicase polyprotein 1a OS=Bat coronavirus
HKU3 OX=442736 GN=1a PE=3 SV=1
Length=4376
Score = 122 bits (306), Expect = 6e-33, Method: Composition-based stats.
Identities = 83/83 (100%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3831 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3890
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDINKLCEEMLDNRATLQ
Sbjct 3891 SMQGAVDINKLCEEMLDNRATLQ 3913
>sp|P0C6U8|R1A_SARS Replicase polyprotein 1a OS=Severe acute respiratory
syndrome coronavirus OX=694009 GN=1a PE=1 SV=1
Length=4382
Score = 122 bits (305), Expect = 8e-33, Method: Composition-based stats.
Identities = 82/83 (99%), Positives = 83/83 (100%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL
Sbjct 3837 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 3896
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
SMQGAVDIN+LCEEMLDNRATLQ
Sbjct 3897 SMQGAVDINRLCEEMLDNRATLQ 3919
>sp|P0C6X6|R1AB_CVHOC Replicase polyprotein 1ab OS=Human coronavirus
OC43 OX=31631 GN=rep PE=1 SV=1
Length=7095
Score = 122 bits (305), Expect = 1e-32, Method: Composition-based stats.
Identities = 41/89 (46%), Positives = 55/89 (62%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D + AFEK+ LL VL
Sbjct 3837 SKLTDVKCANVVLLNCLQHLHVASNSKLWHYCSTLHNEILATSDLSVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>sp|P0C6W9|R1AB_CVBM Replicase polyprotein 1ab OS=Bovine coronavirus
(strain Mebus) OX=11132 GN=rep PE=3 SV=1
Length=7094
Score = 121 bits (304), Expect = 1e-32, Method: Composition-based stats.
Identities = 41/89 (46%), Positives = 54/89 (61%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D AFEK+ LL VL
Sbjct 3837 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>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 = 121 bits (304), Expect = 1e-32, Method: Composition-based stats.
Identities = 41/89 (46%), Positives = 54/89 (61%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D AFEK+ LL VL
Sbjct 3837 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>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 = 121 bits (304), Expect = 1e-32, Method: Composition-based stats.
Identities = 41/89 (46%), Positives = 54/89 (61%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D AFEK+ LL VL
Sbjct 3837 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>sp|P0C6U7|R1A_CVHOC Replicase polyprotein 1a OS=Human coronavirus
OC43 OX=31631 GN=1a PE=1 SV=1
Length=4383
Score = 121 bits (303), Expect = 2e-32, Method: Composition-based stats.
Identities = 41/89 (46%), Positives = 55/89 (62%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D + AFEK+ LL VL
Sbjct 3837 SKLTDVKCANVVLLNCLQHLHVASNSKLWHYCSTLHNEILATSDLSVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>sp|P0C6U0|R1A_CVBM Replicase polyprotein 1a OS=Bovine coronavirus
(strain Mebus) OX=11132 GN=1a PE=3 SV=1
Length=4383
Score = 120 bits (302), Expect = 2e-32, Method: Composition-based stats.
Identities = 41/89 (46%), Positives = 54/89 (61%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D AFEK+ LL VL
Sbjct 3837 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>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 = 120 bits (302), Expect = 2e-32, Method: Composition-based stats.
Identities = 41/89 (46%), Positives = 54/89 (61%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D AFEK+ LL VL
Sbjct 3837 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>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 = 120 bits (302), Expect = 2e-32, Method: Composition-based stats.
Identities = 41/89 (46%), Positives = 54/89 (61%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D AFEK+ LL VL
Sbjct 3837 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>sp|P0C6X4|R1AB_CVHN5 Replicase polyprotein 1ab OS=Human coronavirus
HKU1 (isolate N5) OX=443241 GN=rep PE=3 SV=1
Length=7132
Score = 118 bits (297), Expect = 1e-31, Method: Composition-based stats.
Identities = 40/89 (45%), Positives = 56/89 (63%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3875 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSVLHNEILSTSDLSVAFDKLAQLLIVLF 3934
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
S AVD I+++ ++ + + LQ
Sbjct 3935 SNPAAVDTKCLASIDEVSDDYVQDSTVLQ 3963
>sp|P0C6Y0|R1AB_CVMJH Replicase polyprotein 1ab OS=Murine coronavirus
(strain JHM) OX=11144 GN=rep PE=1 SV=1
Length=7180
Score = 118 bits (297), Expect = 1e-31, Method: Composition-based stats.
Identities = 37/89 (42%), Positives = 55/89 (62%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
S+++DVKC +VVLL+ LQ L + S+SKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3928 SRLTDVKCANVVLLNCLQHLHIASNSKLWQYCSTLHNEILATSDLSVAFDKLAQLLVVLF 3987
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++ ++ + + LQ
Sbjct 3988 ANPAAVDSKCLASIEEVSDDYVRDNTVLQ 4016
>sp|P0C6U5|R1A_CVHN5 Replicase polyprotein 1a OS=Human coronavirus
HKU1 (isolate N5) OX=443241 GN=1a PE=3 SV=1
Length=4421
Score = 118 bits (295), Expect = 2e-31, Method: Composition-based stats.
Identities = 40/89 (45%), Positives = 56/89 (63%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3875 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSVLHNEILSTSDLSVAFDKLAQLLIVLF 3934
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
S AVD I+++ ++ + + LQ
Sbjct 3935 SNPAAVDTKCLASIDEVSDDYVQDSTVLQ 3963
>sp|P0C6V1|R1A_CVMJH Replicase polyprotein 1a OS=Murine coronavirus
(strain JHM) OX=11144 GN=1a PE=1 SV=1
Length=4474
Score = 118 bits (295), Expect = 2e-31, Method: Composition-based stats.
Identities = 37/89 (42%), Positives = 55/89 (62%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
S+++DVKC +VVLL+ LQ L + S+SKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3928 SRLTDVKCANVVLLNCLQHLHIASNSKLWQYCSTLHNEILATSDLSVAFDKLAQLLVVLF 3987
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++ ++ + + LQ
Sbjct 3988 ANPAAVDSKCLASIEEVSDDYVRDNTVLQ 4016
>sp|P0C6X2|R1AB_CVHN1 Replicase polyprotein 1ab OS=Human coronavirus
HKU1 (isolate N1) OX=443239 GN=rep PE=3 SV=1
Length=7182
Score = 118 bits (295), Expect = 2e-31, Method: Composition-based stats.
Identities = 39/89 (44%), Positives = 56/89 (63%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3925 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSVLHNEILSTSDLSVAFDKLAQLLIVLF 3984
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I+++ ++ + + LQ
Sbjct 3985 ANPAAVDTKCLASIDEVSDDYVQDSTVLQ 4013
>sp|P0C6X9|R1AB_CVMA5 Replicase polyprotein 1ab OS=Murine coronavirus
(strain A59) OX=11142 GN=rep PE=1 SV=1
Length=7176
Score = 117 bits (294), Expect = 3e-31, Method: Composition-based stats.
Identities = 37/89 (42%), Positives = 55/89 (62%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
S+++DVKC +VVLL+ LQ L + S+SKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3922 SRLTDVKCANVVLLNCLQHLHIASNSKLWQYCSTLHNEILATSDLSMAFDKLAQLLVVLF 3981
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++ ++ + + LQ
Sbjct 3982 ANPAAVDSKCLASIEEVSDDYVRDNTVLQ 4010
>sp|P0C6U3|R1A_CVHN1 Replicase polyprotein 1a OS=Human coronavirus
HKU1 (isolate N1) OX=443239 GN=1a PE=1 SV=1
Length=4471
Score = 117 bits (293), Expect = 3e-31, Method: Composition-based stats.
Identities = 39/89 (44%), Positives = 56/89 (63%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+SKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3925 SKLTDVKCANVVLLNCLQHLHVASNSKLWQYCSVLHNEILSTSDLSVAFDKLAQLLIVLF 3984
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I+++ ++ + + LQ
Sbjct 3985 ANPAAVDTKCLASIDEVSDDYVQDSTVLQ 4013
>sp|P0C6V0|R1A_CVMA5 Replicase polyprotein 1a OS=Murine coronavirus
(strain A59) OX=11142 GN=1a PE=1 SV=1
Length=4468
Score = 117 bits (293), Expect = 4e-31, Method: Composition-based stats.
Identities = 37/89 (42%), Positives = 55/89 (62%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
S+++DVKC +VVLL+ LQ L + S+SKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3922 SRLTDVKCANVVLLNCLQHLHIASNSKLWQYCSTLHNEILATSDLSMAFDKLAQLLVVLF 3981
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++ ++ + + LQ
Sbjct 3982 ANPAAVDSKCLASIEEVSDDYVRDNTVLQ 4010
>sp|P0C6X8|R1AB_CVM2 Replicase polyprotein 1ab OS=Murine coronavirus
(strain 2) OX=76344 GN=rep PE=3 SV=1
Length=7124
Score = 117 bits (292), Expect = 5e-31, Method: Composition-based stats.
Identities = 38/89 (43%), Positives = 55/89 (62%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
S+++DVKC +VVLL+ LQ L + SSSKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3870 SRLTDVKCVNVVLLNCLQHLHIASSSKLWQYCSTLHNEILATSDLSVAFDKLAQLLVVLF 3929
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++ ++ + + LQ
Sbjct 3930 ANPAAVDSKCLASIEEVSDDYVRDSTVLQ 3958
>sp|P0C6X3|R1AB_CVHN2 Replicase polyprotein 1ab OS=Human coronavirus
HKU1 (isolate N2) OX=443240 GN=rep PE=3 SV=1
Length=7152
Score = 117 bits (292), Expect = 5e-31, Method: Composition-based stats.
Identities = 38/89 (43%), Positives = 56/89 (63%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+S+LW C LHN+IL D + AF+K+ LL VL
Sbjct 3895 SKLTDVKCANVVLLNCLQHLHVASNSRLWQYCSILHNEILSTSDLSVAFDKLAQLLIVLF 3954
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I+++ ++ + + LQ
Sbjct 3955 ANPAAVDTKCLASIDEVSDDYVQDSTVLQ 3983
>sp|P0C6U4|R1A_CVHN2 Replicase polyprotein 1a OS=Human coronavirus
HKU1 (isolate N2) OX=443240 GN=1a PE=3 SV=1
Length=4441
Score = 116 bits (291), Expect = 7e-31, Method: Composition-based stats.
Identities = 38/89 (43%), Positives = 56/89 (63%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC +VVLL+ LQ L V S+S+LW C LHN+IL D + AF+K+ LL VL
Sbjct 3895 SKLTDVKCANVVLLNCLQHLHVASNSRLWQYCSILHNEILSTSDLSVAFDKLAQLLIVLF 3954
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I+++ ++ + + LQ
Sbjct 3955 ANPAAVDTKCLASIDEVSDDYVQDSTVLQ 3983
>sp|P0C6X5|R1AB_CVHNL Replicase polyprotein 1ab OS=Human coronavirus
NL63 OX=277944 GN=rep PE=1 SV=1
Length=6729
Score = 116 bits (291), Expect = 7e-31, Method: Composition-based stats.
Identities = 33/83 (40%), Positives = 50/83 (60%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCT+VVLL L + + ++S WA CV LHN I L D +A +++LL+ L
Sbjct 3522 SKLTDLKCTNVVLLGCLSSMNIAANSSEWAYCVDLHNKINLCDDPEKAQSMLLALLAFFL 3581
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S ++ L + DN +TLQ
Sbjct 3582 SKHSDFGLDGLIDSYFDNSSTLQ 3604
>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 = 116 bits (290), Expect = 8e-31, Method: Composition-based stats.
Identities = 33/83 (40%), Positives = 51/83 (61%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KC++VVLL L + V ++S WA CV LHN I L D +A E +++LL+ L
Sbjct 3580 SKLTDIKCSNVVLLGCLSSMNVSANSTEWAYCVDLHNKINLCNDPEKAQEMLLALLAFFL 3639
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S A ++ L E ++ + LQ
Sbjct 3640 SKNSAFGLDDLLESYFNDNSMLQ 3662
>sp|P0C6F6|R1A_BC512 Replicase polyprotein 1a OS=Bat coronavirus
512/2005 OX=693999 GN=1a PE=3 SV=1
Length=4128
Score = 116 bits (290), Expect = 8e-31, Method: Composition-based stats.
Identities = 32/83 (39%), Positives = 52/83 (63%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCT+VVLL L + + ++S+ WA CV LHN I L D A E +++LL+ L
Sbjct 3591 SKLTDLKCTNVVLLGCLSNMNIAANSREWAYCVDLHNKINLCNDAEAAQEMLLALLAFFL 3650
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S A +++L + ++ + LQ
Sbjct 3651 SKNSAFGVDELLDSYFNDSSVLQ 3673
>sp|P0C6U9|R1A_CVM2 Replicase polyprotein 1a OS=Murine coronavirus
(strain 2) OX=76344 GN=1a PE=3 SV=1
Length=4416
Score = 116 bits (290), Expect = 8e-31, Method: Composition-based stats.
Identities = 38/89 (43%), Positives = 55/89 (62%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
S+++DVKC +VVLL+ LQ L + SSSKLW C LHN+IL D + AF+K+ LL VL
Sbjct 3870 SRLTDVKCVNVVLLNCLQHLHIASSSKLWQYCSTLHNEILATSDLSVAFDKLAQLLVVLF 3929
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++ ++ + + LQ
Sbjct 3930 ANPAAVDSKCLASIEEVSDDYVRDSTVLQ 3958
>sp|P0C6W0|R1AB_BC512 Replicase polyprotein 1ab OS=Bat coronavirus
512/2005 OX=693999 GN=rep PE=3 SV=1
Length=6793
Score = 116 bits (290), Expect = 8e-31, Method: Composition-based stats.
Identities = 32/83 (39%), Positives = 52/83 (63%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCT+VVLL L + + ++S+ WA CV LHN I L D A E +++LL+ L
Sbjct 3591 SKLTDLKCTNVVLLGCLSNMNIAANSREWAYCVDLHNKINLCNDAEAAQEMLLALLAFFL 3650
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S A +++L + ++ + LQ
Sbjct 3651 SKNSAFGVDELLDSYFNDSSVLQ 3673
>sp|P0C6U6|R1A_CVHNL Replicase polyprotein 1a OS=Human coronavirus
NL63 OX=277944 GN=1a PE=1 SV=1
Length=4060
Score = 116 bits (290), Expect = 9e-31, Method: Composition-based stats.
Identities = 33/83 (40%), Positives = 50/83 (60%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCT+VVLL L + + ++S WA CV LHN I L D +A +++LL+ L
Sbjct 3522 SKLTDLKCTNVVLLGCLSSMNIAANSSEWAYCVDLHNKINLCDDPEKAQSMLLALLAFFL 3581
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S ++ L + DN +TLQ
Sbjct 3582 SKHSDFGLDGLIDSYFDNSSTLQ 3604
>sp|P0C6Y3|R1AB_IBVM Replicase polyprotein 1ab OS=Avian infectious
bronchitis virus (strain M41) OX=11127 GN=rep PE=1 SV=1
Length=6631
Score = 116 bits (290), Expect = 1e-30, Method: Composition-based stats.
Identities = 33/83 (40%), Positives = 54/83 (65%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK+SDVKCT+VVL+ +L +L VE++SK+ A V+LHN IL + D E + ++ +L L
Sbjct 3382 SKLSDVKCTTVVLMQLLTKLNVEANSKMHAYLVELHNKILASDDVGECMDNLLGMLITLF 3441
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
+ +D+ + C+++L LQ
Sbjct 3442 CIDSTIDLGEYCDDILKRSTVLQ 3464
>sp|P0C6V5|R1A_IBVM Replicase polyprotein 1a OS=Avian infectious
bronchitis virus (strain M41) OX=11127 GN=1a PE=1 SV=1
Length=3953
Score = 116 bits (290), Expect = 1e-30, Method: Composition-based stats.
Identities = 33/83 (40%), Positives = 54/83 (65%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK+SDVKCT+VVL+ +L +L VE++SK+ A V+LHN IL + D E + ++ +L L
Sbjct 3382 SKLSDVKCTTVVLMQLLTKLNVEANSKMHAYLVELHNKILASDDVGECMDNLLGMLITLF 3441
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
+ +D+ + C+++L LQ
Sbjct 3442 CIDSTIDLGEYCDDILKRSTVLQ 3464
>sp|P0C6X1|R1AB_CVH22 Replicase polyprotein 1ab OS=Human coronavirus
229E OX=11137 GN=rep PE=1 SV=1
Length=6758
Score = 115 bits (289), Expect = 1e-30, Method: Composition-based stats.
Identities = 32/83 (39%), Positives = 51/83 (61%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCT+VVL+ +L + + S+SK WA CV++HN I L D A E +++LL+ L
Sbjct 3547 SKLTDLKCTNVVLMGILSNMNIASNSKEWAYCVEMHNKINLCDDPETAQELLLALLAFFL 3606
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S + L + +N + LQ
Sbjct 3607 SKHSDFGLGDLVDSYFENDSILQ 3629
>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 = 115 bits (289), Expect = 1e-30, Method: Composition-based stats.
Identities = 33/83 (40%), Positives = 51/83 (61%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KC++VVLL L + V ++S WA CV LHN I L D +A E +++LL+ L
Sbjct 3580 SKLTDIKCSNVVLLGCLSSMNVSANSTEWAYCVDLHNKINLCNDPEKAQEMLLALLAFFL 3639
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S A ++ L E ++ + LQ
Sbjct 3640 SKNSAFGLDDLLESYFNDNSMLQ 3662
>sp|P0C6U2|R1A_CVH22 Replicase polyprotein 1a OS=Human coronavirus
229E OX=11137 GN=1a PE=1 SV=1
Length=4085
Score = 115 bits (289), Expect = 1e-30, Method: Composition-based stats.
Identities = 32/83 (39%), Positives = 51/83 (61%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++D+KCT+VVL+ +L + + S+SK WA CV++HN I L D A E +++LL+ L
Sbjct 3547 SKLTDLKCTNVVLMGILSNMNIASNSKEWAYCVEMHNKINLCDDPETAQELLLALLAFFL 3606
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S + L + +N + LQ
Sbjct 3607 SKHSDFGLGDLVDSYFENDSILQ 3629
>sp|P0C6X0|R1AB_CVBQ Replicase polyprotein 1ab OS=Bovine coronavirus
(strain Quebec) OX=11133 GN=rep PE=3 SV=1
Length=7059
Score = 115 bits (288), Expect = 2e-30, Method: Composition-based stats.
Identities = 39/89 (44%), Positives = 52/89 (58%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC + LL+ LQ L V S+SKLW C LHN+IL D AFEK+ LL VL
Sbjct 3837 SKLTDVKCANGGLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>sp|P0C6U1|R1A_CVBQ Replicase polyprotein 1a OS=Bovine coronavirus
(strain Quebec) OX=11133 GN=1a PE=3 SV=1
Length=4383
Score = 114 bits (286), Expect = 3e-30, Method: Composition-based stats.
Identities = 39/89 (44%), Positives = 52/89 (58%), Gaps = 6/89 (7%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
SK++DVKC + LL+ LQ L V S+SKLW C LHN+IL D AFEK+ LL VL
Sbjct 3837 SKLTDVKCANGGLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query 61 SMQGAVD------INKLCEEMLDNRATLQ 83
+ AVD I ++C++ + LQ
Sbjct 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQ 3925
>sp|P0C6T6|R1A_BCHK9 Replicase polyprotein 1a OS=Bat coronavirus
HKU9 OX=694006 GN=1a PE=3 SV=1
Length=4248
Score = 112 bits (281), Expect = 2e-29, Method: Composition-based stats.
Identities = 56/83 (67%), Positives = 70/83 (84%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
S M+D+KCTSVVLLSVLQQLRVESSSKLWA CV+LHN+IL + TEAFE VSLLSVLL
Sbjct 3700 SNMTDLKCTSVVLLSVLQQLRVESSSKLWALCVKLHNEILASNSPTEAFEAFVSLLSVLL 3759
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S+ GA+++++LC +L+N + LQ
Sbjct 3760 SLPGAINLDELCSSILENNSVLQ 3782
>sp|P0C6Y1|R1AB_IBVB Replicase polyprotein 1ab OS=Avian infectious
bronchitis virus (strain Beaudette) OX=11122 GN=rep PE=1
SV=1
Length=6629
Score = 112 bits (280), Expect = 2e-29, Method: Composition-based stats.
Identities = 31/83 (37%), Positives = 54/83 (65%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
+K+SDVKCT+VVL+ +L +L VE++SK+ V+LHN IL + D E + ++ +L L
Sbjct 3380 AKLSDVKCTTVVLMQLLTKLNVEANSKMHVYLVELHNKILASDDVGECMDNLLGMLITLF 3439
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
+ +D+++ C+++L LQ
Sbjct 3440 CIDSTIDLSEYCDDILKRSTVLQ 3462
>sp|P0C6Y2|R1AB_IBVBC Replicase polyprotein 1ab OS=Avian infectious
bronchitis virus (strain Beaudette CK) OX=160235 GN=rep
PE=3 SV=1
Length=6629
Score = 112 bits (280), Expect = 2e-29, Method: Composition-based stats.
Identities = 31/83 (37%), Positives = 54/83 (65%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
+K+SDVKCT+VVL+ +L +L VE++SK+ V+LHN IL + D E + ++ +L L
Sbjct 3380 AKLSDVKCTTVVLMQLLTKLNVEANSKMHVYLVELHNKILASDDVGECMDNLLGMLITLF 3439
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
+ +D+++ C+++L LQ
Sbjct 3440 CIDSTIDLSEYCDDILKRSTVLQ 3462
>sp|P0C6W5|R1AB_BCHK9 Replicase polyprotein 1ab OS=Bat coronavirus
HKU9 OX=694006 GN=rep PE=1 SV=1
Length=6930
Score = 112 bits (280), Expect = 2e-29, Method: Composition-based stats.
Identities = 56/83 (67%), Positives = 70/83 (84%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
S M+D+KCTSVVLLSVLQQLRVESSSKLWA CV+LHN+IL + TEAFE VSLLSVLL
Sbjct 3700 SNMTDLKCTSVVLLSVLQQLRVESSSKLWALCVKLHNEILASNSPTEAFEAFVSLLSVLL 3759
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
S+ GA+++++LC +L+N + LQ
Sbjct 3760 SLPGAINLDELCSSILENNSVLQ 3782
>sp|P0C6V4|R1A_IBVBC Replicase polyprotein 1a OS=Avian infectious
bronchitis virus (strain Beaudette CK) OX=160235 GN=1a PE=3
SV=1
Length=3951
Score = 112 bits (280), Expect = 2e-29, Method: Composition-based stats.
Identities = 31/83 (37%), Positives = 54/83 (65%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
+K+SDVKCT+VVL+ +L +L VE++SK+ V+LHN IL + D E + ++ +L L
Sbjct 3380 AKLSDVKCTTVVLMQLLTKLNVEANSKMHVYLVELHNKILASDDVGECMDNLLGMLITLF 3439
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
+ +D+++ C+++L LQ
Sbjct 3440 CIDSTIDLSEYCDDILKRSTVLQ 3462
>sp|P0C6V3|R1A_IBVB Replicase polyprotein 1a OS=Avian infectious
bronchitis virus (strain Beaudette) OX=11122 GN=1a PE=1 SV=1
Length=3951
Score = 112 bits (280), Expect = 2e-29, Method: Composition-based stats.
Identities = 31/83 (37%), Positives = 54/83 (65%), Gaps = 0/83 (0%)
Query 1 SKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLL 60
+K+SDVKCT+VVL+ +L +L VE++SK+ V+LHN IL + D E + ++ +L L
Sbjct 3380 AKLSDVKCTTVVLMQLLTKLNVEANSKMHVYLVELHNKILASDDVGECMDNLLGMLITLF 3439
Query 61 SMQGAVDINKLCEEMLDNRATLQ 83
+ +D+++ C+++L LQ
Sbjct 3440 CIDSTIDLSEYCDDILKRSTVLQ 3462
>sp|Q96JA1|LRIG1_HUMAN Leucine-rich repeats and immunoglobulin-like
domains protein 1 OS=Homo sapiens OX=9606 GN=LRIG1 PE=1
SV=2
Length=1093
Score = 31.9 bits (71), Expect = 0.37, Method: Composition-based stats.
Identities = 15/58 (26%), Positives = 29/58 (50%), Gaps = 6/58 (10%)
Query 3 MSDVKCTSVVLLSVLQQLRVESSS------KLWAQCVQLHNDILLAKDTTEAFEKMVS 54
+ +V S+ L+ L QL + ++S K W+ C +LH +L + T E+ ++
Sbjct 271 LVEVNSGSLYGLTALHQLHLSNNSIARIHRKGWSFCQKLHELVLSFNNLTRLDEESLA 328
>sp|P70193|LRIG1_MOUSE Leucine-rich repeats and immunoglobulin-like
domains protein 1 OS=Mus musculus OX=10090 GN=Lrig1 PE=1
SV=2
Length=1091
Score = 30.4 bits (67), Expect = 1.3, Method: Composition-based stats.
Identities = 15/58 (26%), Positives = 28/58 (48%), Gaps = 6/58 (10%)
Query 3 MSDVKCTSVVLLSVLQQLRVESSS------KLWAQCVQLHNDILLAKDTTEAFEKMVS 54
+ +V S+ L+ L QL + ++S W+ C +LH IL + T E+ ++
Sbjct 273 LVEVNSGSLYGLTALHQLHLSNNSISRIQRDGWSFCQKLHELILSFNNLTRLDEESLA 330
>sp|Q5JFR5|HISX_THEKO Histidinol dehydrogenase OS=Thermococcus
kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) OX=69014
GN=hisD PE=3 SV=1
Length=376
Score = 28.8 bits (63), Expect = 4.4, Method: Composition-based stats.
Identities = 14/49 (29%), Positives = 20/49 (41%), Gaps = 9/49 (18%)
Query 12 VLLSVLQQLRVESSSKLW---------AQCVQLHNDILLAKDTTEAFEK 51
VL +L QL SK W C + ++LL ++ E EK
Sbjct 220 VLADLLSQLEHGKDSKAWLLTTSRELADYCSREGIEVLLCRNLEECAEK 268
>sp|Q55CT5|SEC31_DICDI Protein transport protein SEC31 OS=Dictyostelium
discoideum OX=44689 GN=sec31 PE=3 SV=1
Length=1355
Score = 28.8 bits (63), Expect = 5.7, Method: Composition-based stats.
Identities = 15/69 (22%), Positives = 32/69 (46%), Gaps = 8/69 (12%)
Query 17 LQQLRVESSSKLWA----QCVQLHNDILLAKDTTEAFEKMVSLLSVLLSMQGAVDINKLC 72
+Q+L + SK+W +C L N + + EAF+ + ++L+ ++ D K
Sbjct 1266 IQELNGRTDSKVWEDANKRCQGLINKVSKKDISAEAFKALDAILASIVEK----DFKKAS 1321
Query 73 EEMLDNRAT 81
+ + +T
Sbjct 1322 DTYIQITST 1330
Lambda K H a alpha
0.317 0.139 0.372 0.792 4.96
Gapped
Lambda K H a alpha sigma
0.267 0.0425 0.140 1.90 42.6 43.6
Effective search space used: 5099045872
Search has CONVERGED!
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