RID: ADFCBPG0014	
Job Title:PRO_0000422449 K9N7C7 RNA-directed RNA polymerase				
Program: BLASTP 
Database: swissprot Non-redundant UniProtKB/SwissProt sequences
Query #1: PRO_0000422449 K9N7C7 RNA-directed RNA polymerase Query ID: lcl|Query_93674 Length: 933

Sequences producing significant alignments:
                                                                  Max    Total Query    E    Per.                  
Description                                                       Score  Score cover Value  Ident  Accession        
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1973   1973  100%  0.0    100.00 K9N7C7.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1847   1847  100%  0.0    92.08  P0C6W4.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1816   1816  100%  0.0    89.94  P0C6W3.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1811   1811  100%  0.0    89.83  P0C6W1.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1420   1420  99%   0.0    71.86  P0C6X7.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1419   1419  99%   0.0    71.75  P0C6W2.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1419   1419  99%   0.0    71.86  P0C6W6.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1416   1416  99%   0.0    71.64  P0C6V9.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1377   1377  100%  0.0    68.31  P0C6W5.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1362   1362  100%  0.0    68.42  P0C6X8.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1361   1361  100%  0.0    68.20  P0C6X9.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1348   1348  100%  0.0    67.77  P0C6Y0.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1340   1340  100%  0.0    68.02  P0C6W8.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1340   1340  100%  0.0    68.02  P0C6W7.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1336   1336  100%  0.0    68.13  P0C6X6.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1334   1334  100%  0.0    67.70  P0C6X0.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1333   1333  100%  0.0    67.95  P0C6X3.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1333   1333  100%  0.0    67.84  P0C6X2.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1332   1332  100%  0.0    67.84  P0C6X4.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1331   1331  100%  0.0    67.70  P0C6W9.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1164   1164  99%   0.0    59.89  P0C6Y1.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1164   1164  99%   0.0    59.89  P0C6Y2.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1162   1162  99%   0.0    59.68  P0C6Y3.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1159   1159  100%  0.0    60.43  P0C6W0.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1147   1147  100%  0.0    59.14  P0C6Y4.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1140   1140  99%   0.0    60.77  P0C6Y5.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1130   1130  98%   0.0    60.39  Q98VG9.2         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1113   1113  100%  0.0    57.65  P0C6X1.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 1111   1111  100%  0.0    58.18  P0C6X5.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 499    499   32%   3e-171 75.57  Q9WQ77.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 450    450   32%   2e-152 69.06  Q9WQ76.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 120    157   63%   1e-27  24.70  P0C6V7.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 112    153   59%   3e-25  27.34  P0C6V8.1         
RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName:... 84.0   134   51%   2e-16  25.50  Q008X6.1         
RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab...  49.3   49.3  21%   7e-06  27.57  A0MD28.2         
RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab...  48.9   48.9  21%   9e-06  26.64  Q04561.3         
RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab...  47.0   47.0  18%   4e-05  24.14  Q68772.4         
RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab...  47.0   47.0  24%   4e-05  23.91  Q9WJB2.2         
RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab...  46.6   46.6  24%   4e-05  23.91  Q8B912.3         
RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab...  45.1   45.1  24%   2e-04  24.23  Q9YN02.3         
RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab...  38.1   38.1  36%   0.020  22.10  P19811.3         
RecName: Full=Genome polyprotein; Contains: RecName:...           37.4   37.4  11%   0.033  25.00  P18478.3         
RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab...  37.0   37.0  17%   0.042  25.47  Q83017.2         
RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab...  36.2   36.2  19%   0.080  22.35  Q06502.2         
RecName: Full=Genome polyprotein; Contains: RecName:...           35.0   35.0  17%   0.14   24.10  Q8V736.1         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   34.7   34.7  16%   0.23   22.99  P18479.2         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   33.1   33.1  20%   0.64   23.47  Q6XW15.1         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   32.7   32.7  13%   0.76   25.93  P17765.2         
RecName: Full=Protein VP3; Includes: RecName: Full=mRNA...        32.3   32.3  8%    1.0    26.51  P26192.1         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   32.0   32.0  14%   1.4    25.50  O56075.1         
RecName: Full=Non-structural polyprotein 1AB; Contains: RecNam... 32.0   32.0  16%   1.4    26.25  Q9ILI5.2         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   32.0   32.0  1%    1.6    64.71  Q02963.1         
RecName: Full=RNA1 polyprotein; AltName: Full=P1; Contains:...    31.6   31.6  11%   1.8    27.27  Q8B8X3.1         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   31.6   31.6  1%    1.8    64.71  P18247.2         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   31.2   31.2  11%   2.2    24.58  Q65399.1         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   31.2   31.2  11%   2.3    24.78  Q01500.1         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   31.2   31.2  16%   2.4    22.41  O36979.2         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   31.2   31.2  3%    2.7    45.71  P17766.1         
RecName: Full=RNA-directed RNA polymerase; Short=RdRp; AltName... 30.4   30.4  9%    3.6    23.86  Q9DIC5.1         
RecName: Full=RNA-directed RNA polymerase L; Short=Protein L;...  30.4   30.4  16%   3.7    23.57  Q27YE5.1         
RecName: Full=Uncharacterized protein L231 [Acanthamoeba...       29.6   29.6  2%    4.0    40.74  Q5UQC2.1         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   30.4   30.4  16%   4.1    21.26  Q89330.1         
RecName: Full=RNA1 polyprotein; AltName: Full=Genome polyprote... 30.4   30.4  11%   4.1    22.02  Q76L40.1         
RecName: Full=RNA1 polyprotein; AltName: Full=Genome polyprote... 30.4   30.4  11%   4.1    24.55  Q9WNW0.1         
RecName: Full=RNA1 polyprotein; AltName: Full=Genome polyprote... 30.4   30.4  12%   4.5    23.21  P36312.1         
RecName: Full=Hexon protein; Short=CP-H; AltName: Full=Protein... 30.0   30.0  5%    4.5    31.03  P36854.1         
RecName: Full=Gag polyprotein; AltName: Full=Pr53Gag; Contains... 30.0   30.0  9%    4.8    21.98  Q82850.1         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   30.0   30.0  3%    5.0    42.86  P17767.2         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   30.0   30.0  3%    5.0    42.86  P13529.2         
RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr170Gag-Pol;... 29.6   29.6  9%    6.5    21.74  Q82851.1         
RecName: Full=RNA1 polyprotein; AltName: Full=P1; Contains:...    29.6   29.6  11%   7.5    27.68  P13025.1         
RecName: Full=RNA-directed RNA polymerase; Short=RdRp; AltName... 29.6   29.6  9%    7.5    25.00  Q9QAZ8.1         
RecName: Full=RNA1 polyprotein; AltName: Full=P1; Contains:...    29.3   29.3  11%   8.4    26.67  P18522.1         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   29.3   29.3  4%    9.0    41.03  P31999.3         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   29.3   29.3  10%   9.1    26.96  Q85197.1         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   29.3   29.3  4%    9.2    41.03  P89876.1         
RecName: Full=Genome polyprotein; Contains: RecName: Full=P1...   29.3   29.3  3%    9.8    42.86  Q84934.1         


Alignments:
>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=Leader protein; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65 homolog; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=nsp5; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Betacoronavirus England 1]
Sequence ID: K9N7C7.1 Length: 7078 
Range 1: 4378 to 5310

Score:1973 bits(5112), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:933/933(100%), Positives:933/933(100%), Gaps:0/933(0%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE
Sbjct  4378  SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  4437

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR
Sbjct  4438  LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  4497

Query  121   LTEYTMMDLVYALRHFDQNSEVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKLG  180
             LTEYTMMDLVYALRHFDQNSEVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKLG
Sbjct  4498  LTEYTMMDLVYALRHFDQNSEVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKLG  4557

Query  181   ERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYYS  240
             ERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYYS
Sbjct  4558  ERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYYS  4617

Query  241   YLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANCV  300
             YLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANCV
Sbjct  4618  YLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANCV  4677

Query  301   NCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMDV  360
             NCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMDV
Sbjct  4678  NCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMDV  4737

Query  361   SLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQDF  420
             SLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQDF
Sbjct  4738  SLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQDF  4797

Query  421   YDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNKY  480
             YDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNKY
Sbjct  4798  YDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNKY  4857

Query  481   FEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPTM  540
             FEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPTM
Sbjct  4858  FEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPTM  4917

Query  541   TQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGWD  600
             TQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGWD
Sbjct  4918  TQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGWD  4977

Query  601   FMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANEC  660
             FMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANEC
Sbjct  4978  FMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANEC  5037

Query  661   AQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDKE  720
             AQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDKE
Sbjct  5038  AQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDKE  5097

Query  721   VKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAGI  780
             VKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAGI
Sbjct  5098  VKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAGI  5157

Query  781   QNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRILS  840
             QNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRILS
Sbjct  5158  QNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRILS  5217

Query  841   AGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGHM  900
             AGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGHM
Sbjct  5218  AGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGHM  5277

Query  901   LDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
             LDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ
Sbjct  5278  LDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  5310



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=Leader protein; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65 homolog; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=nsp5; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Pipistrellus bat coronavirus HKU5]
Sequence ID: P0C6W4.1 Length: 7182 
Range 1: 4468 to 5401

Score:1847 bits(4785), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:860/934(92%), Positives:905/934(96%), Gaps:1/934(0%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             SKDSNFL RVRGSIVNARIEPC+SGL+TDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE
Sbjct  4468  SKDSNFLNRVRGSIVNARIEPCASGLTTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  4527

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             +DD+GH LDS+FVVKRHTMENYELEK CYDL++DCDAVA HDFFIFDVDKVKTPHIVRQR
Sbjct  4528  VDDEGHRLDSFFVVKRHTMENYELEKRCYDLVKDCDAVAVHDFFIFDVDKVKTPHIVRQR  4587

Query  121   LTEYTMMDLVYALRHFDQNS-EVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             LTEYTMMDLVYALRHFDQN+ EVLK+ILVKYGCCD +YF+NKLWFDFVENP+VI VYHKL
Sbjct  4588  LTEYTMMDLVYALRHFDQNNCEVLKSILVKYGCCDASYFDNKLWFDFVENPNVISVYHKL  4647

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             GER+RQA+LNTVKFCD MVK+GLVGVLTLDNQDLNGKWYDFGDFVITQPG+GVAIVDSYY
Sbjct  4648  GERIRQAVLNTVKFCDQMVKSGLVGVLTLDNQDLNGKWYDFGDFVITQPGAGVAIVDSYY  4707

Query  240   SYLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANC  299
             SYLMPVLSMT+CLAAETHRDCD  KPLIEWPL EYD+TDYK+ LFEKYFK WDQ YH NC
Sbjct  4708  SYLMPVLSMTNCLAAETHRDCDLTKPLIEWPLLEYDYTDYKIGLFEKYFKXWDQQYHPNC  4767

Query  300   VNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMD  359
             VNCTDDRCVLHCANFNVLF+MT+P T FGPIVRKIFVDGVPFV+SCGYHYKELGLVMNMD
Sbjct  4768  VNCTDDRCVLHCANFNVLFSMTLPGTSFGPIVRKIFVDGVPFVISCGYHYKELGLVMNMD  4827

Query  360   VSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQD  419
             VSLHRHRLSLKELMMYAADPAMHIAS++A  DLRT CFSVAALTTGLTFQTVRPGNFN+D
Sbjct  4828  VSLHRHRLSLKELMMYAADPAMHIASASALWDLRTPCFSVAALTTGLTFQTVRPGNFNKD  4887

Query  420   FYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNK  479
             FYDFVVSKGFFKEGSSVTL+HFFFAQDG+AAITDY+YY+YNLPTMCDIKQMLFCMEVV++
Sbjct  4888  FYDFVVSKGFFKEGSSVTLRHFFFAQDGHAAITDYSYYAYNLPTMCDIKQMLFCMEVVDR  4947

Query  480   YFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPT  539
             YFEIYDGGCLNASEV+VNNLDKSAGHPFNKFGKARVYYES+SYQEQDELFAMTKRNV+PT
Sbjct  4948  YFEIYDGGCLNASEVIVNNLDKSAGHPFNKFGKARVYYESLSYQEQDELFAMTKRNVLPT  5007

Query  540   MTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  599
             +TQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRG+TCVIGTTKFYGGW
Sbjct  5008  ITQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGSTCVIGTTKFYGGW  5067

Query  600   DFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANE  659
             DFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKH TCCT  DRFYRLANE
Sbjct  5068  DFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHSTCCTNTDRFYRLANE  5127

Query  660   CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDK  719
             CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGN IVD+
Sbjct  5128  CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNTIVDE  5187

Query  720   EVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAG  779
             EVKDMQF+LYVNVYR + PDPKFVD+YYAFLNKHFSMMILSDDGVVCYNSDYA KGYIA 
Sbjct  5188  EVKDMQFELYVNVYRKSQPDPKFVDRYYAFLNKHFSMMILSDDGVVCYNSDYATKGYIAS  5247

Query  780   IQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRIL  839
             IQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTL+IKDGDDGYFLPYPDPSRIL
Sbjct  5248  IQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLFIKDGDDGYFLPYPDPSRIL  5307

Query  840   SAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGH  899
             SAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKH+D EYQNVFWVYLQYIEKLYKDLTGH
Sbjct  5308  SAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHDDPEYQNVFWVYLQYIEKLYKDLTGH  5367

Query  900   MLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
             MLDSYSVMLCGDNSAKFWEE+FYRDLY++PTTLQ
Sbjct  5368  MLDSYSVMLCGDNSAKFWEESFYRDLYTAPTTLQ  5401



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=Leader protein; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65 homolog; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=nsp5; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Tylonycteris bat coronavirus HKU4]
Sequence ID: P0C6W3.1 Length: 7119 
Range 1: 4421 to 5354

Score:1816 bits(4703), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:840/934(90%), Positives:899/934(96%), Gaps:1/934(0%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             SKD+NFL RVRGS VNAR+EPCSSGL+TDVV+RAFDICN+KA+VAGIGKYYKTNTCRFV+
Sbjct  4421  SKDTNFLNRVRGSSVNARLEPCSSGLTTDVVYRAFDICNFKARVAGIGKYYKTNTCRFVQ  4480

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             +DD+GH LDSYF+VKRHTM NYELEK CYDLL+DCDAVA HDFFIFDVDK KTPHIVRQ 
Sbjct  4481  VDDEGHKLDSYFIVKRHTMSNYELEKRCYDLLKDCDAVAIHDFFIFDVDKTKTPHIVRQS  4540

Query  121   LTEYTMMDLVYALRHFDQNS-EVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             LTEYTMMDLVYALRHFDQN+ EVLK+ILVKYGCC+ +YF+NKLWFDFVENPSVIGVYHKL
Sbjct  4541  LTEYTMMDLVYALRHFDQNNCEVLKSILVKYGCCEQSYFDNKLWFDFVENPSVIGVYHKL  4600

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             GER+RQA+LNTVK CDHMVK+GLVGVLTLDNQDLNGKWYDFGDFVITQPG+GVAIVDSYY
Sbjct  4601  GERIRQAMLNTVKMCDHMVKSGLVGVLTLDNQDLNGKWYDFGDFVITQPGAGVAIVDSYY  4660

Query  240   SYLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANC  299
             SYLMPVLSMT+CLAAETH+DCDFNKPLIEWPL EYD+TDYK+ LF KYFKYWDQTYH NC
Sbjct  4661  SYLMPVLSMTNCLAAETHKDCDFNKPLIEWPLLEYDYTDYKIGLFNKYFKYWDQTYHPNC  4720

Query  300   VNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMD  359
             VNC+DDRC+LHCANFNVLF+M +P T FGPIVRKIFVDGVPF+VSCGYHYKELGLVMNMD
Sbjct  4721  VNCSDDRCILHCANFNVLFSMVLPNTSFGPIVRKIFVDGVPFIVSCGYHYKELGLVMNMD  4780

Query  360   VSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQD  419
              ++HRHRL+LKELMMYAADPAMHIAS++A  DLRT CFSVAALTTGLTFQTVRPGNFN+D
Sbjct  4781  FNIHRHRLALKELMMYAADPAMHIASASALWDLRTPCFSVAALTTGLTFQTVRPGNFNKD  4840

Query  420   FYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNK  479
             FYDFVVS+GFFKEGSSVTLKHFFFAQDG+AAITDY+YY+YNLPTM DIKQMLFCMEVV+K
Sbjct  4841  FYDFVVSRGFFKEGSSVTLKHFFFAQDGHAAITDYSYYAYNLPTMVDIKQMLFCMEVVDK  4900

Query  480   YFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPT  539
             YF+IYDGGCLNASEV+VNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFA+TKRNV+PT
Sbjct  4901  YFDIYDGGCLNASEVIVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAVTKRNVLPT  4960

Query  540   MTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  599
             +TQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW
Sbjct  4961  ITQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  5020

Query  600   DFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANE  659
             DFMLKTLYKDV++PHLMGWDYPKCDRAMPNMCRI ASLILARKH TCCT  DRFYRLANE
Sbjct  5021  DFMLKTLYKDVESPHLMGWDYPKCDRAMPNMCRILASLILARKHSTCCTNSDRFYRLANE  5080

Query  660   CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDK  719
             CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALM ANGN I+D+
Sbjct  5081  CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMSANGNTIIDR  5140

Query  720   EVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAG  779
             E+KDMQFDLY+NVYR   PDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGY+A 
Sbjct  5141  EIKDMQFDLYINVYRKVVPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYVAS  5200

Query  780   IQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRIL  839
             IQNFKETLYYQNNVFMSEAKCWVET+L+KGPHEFCSQHTLYIKDGDDGYFLPYPDPSRIL
Sbjct  5201  IQNFKETLYYQNNVFMSEAKCWVETNLEKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRIL  5260

Query  840   SAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGH  899
             SAGCFVDDIVKTDGT+M+ER+VSLAIDAYPLTKH+D EYQNVFWVYLQYIEKLYKDLTGH
Sbjct  5261  SAGCFVDDIVKTDGTVMMERYVSLAIDAYPLTKHDDTEYQNVFWVYLQYIEKLYKDLTGH  5320

Query  900   MLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
             MLDSYSVMLCGD+SAKFWEE FYRDLYSSPTTLQ
Sbjct  5321  MLDSYSVMLCGDDSAKFWEEGFYRDLYSSPTTLQ  5354



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=Leader protein; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65 homolog; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=nsp5; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Bat coronavirus (BtCoV/133/2005)]
Sequence ID: P0C6W1.1 Length: 7126 
Range 1: 4428 to 5361

Score:1811 bits(4692), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:839/934(90%), Positives:898/934(96%), Gaps:1/934(0%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             SKD+NFL RVRGS VNAR+EPCSSGL+TDVV+RAFDICN+KA+VAGIGKYYKTNTCRFV+
Sbjct  4428  SKDTNFLNRVRGSSVNARLEPCSSGLTTDVVYRAFDICNFKARVAGIGKYYKTNTCRFVQ  4487

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             +DD+GH LDSYF+VKRHTM NYELEK CYDLL+DCDAVA HDFFIFDVDK KTPHIVRQ 
Sbjct  4488  VDDEGHKLDSYFIVKRHTMSNYELEKRCYDLLKDCDAVAIHDFFIFDVDKTKTPHIVRQS  4547

Query  121   LTEYTMMDLVYALRHFDQNS-EVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             LTEYTMMDLVYALRHFDQN+ EVLK+ILVKYGCC+ +YF+NKLWFDFVENPSVIGVYHKL
Sbjct  4548  LTEYTMMDLVYALRHFDQNNCEVLKSILVKYGCCEQSYFDNKLWFDFVENPSVIGVYHKL  4607

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             GER+RQA+LNTVK CDHMVK+GLVGVLTLDNQDLNGKWYDFGDFVITQPG+GVAIVDSYY
Sbjct  4608  GERIRQAMLNTVKMCDHMVKSGLVGVLTLDNQDLNGKWYDFGDFVITQPGAGVAIVDSYY  4667

Query  240   SYLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANC  299
             SYLMPVLSMT+CLAAETH+DCDFNKPLIEW L EYD+TDYK+ LF KYFK+WDQTYH NC
Sbjct  4668  SYLMPVLSMTNCLAAETHKDCDFNKPLIEWLLLEYDYTDYKIGLFNKYFKHWDQTYHPNC  4727

Query  300   VNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMD  359
             VNC DDRC+LHCANFNVLF+M +P T FGPIVRKIFVDGVPF+VSCGYHYKELGLVMNMD
Sbjct  4728  VNCGDDRCILHCANFNVLFSMVLPNTSFGPIVRKIFVDGVPFIVSCGYHYKELGLVMNMD  4787

Query  360   VSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQD  419
             V++HRHRL+LKELMMYAADPAMHIAS++A  DLRT CFSVAALTTGLTFQTVRPGNFN+D
Sbjct  4788  VNIHRHRLALKELMMYAADPAMHIASASALWDLRTPCFSVAALTTGLTFQTVRPGNFNKD  4847

Query  420   FYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNK  479
             FYDFVVS+GFFKEGSSVTLKHFFFAQDG+AAITDY+YY+YNLPTM DIKQMLFCMEVV+K
Sbjct  4848  FYDFVVSRGFFKEGSSVTLKHFFFAQDGHAAITDYSYYAYNLPTMVDIKQMLFCMEVVDK  4907

Query  480   YFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPT  539
             YF+IYDGGCLNASEV+VNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFA+TKRNV+PT
Sbjct  4908  YFDIYDGGCLNASEVIVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAVTKRNVLPT  4967

Query  540   MTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  599
             +TQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW
Sbjct  4968  ITQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  5027

Query  600   DFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANE  659
             DFMLKTLYKDV++PHLMGWDYPKCDRAMPNMCRI ASLILARKH TCCT  DRFYRLANE
Sbjct  5028  DFMLKTLYKDVESPHLMGWDYPKCDRAMPNMCRILASLILARKHSTCCTNSDRFYRLANE  5087

Query  660   CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDK  719
             CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALM ANGN I+D+
Sbjct  5088  CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMSANGNTIIDR  5147

Query  720   EVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAG  779
             E+KDMQFDLY+NVYR   PDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGY+A 
Sbjct  5148  EIKDMQFDLYINVYRKVVPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYVAS  5207

Query  780   IQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRIL  839
             IQNFKETLYYQNNVFMSEAKCWVET+L+KGPHEFCSQHTLYIKDGDDGYFLPYPDPSRIL
Sbjct  5208  IQNFKETLYYQNNVFMSEAKCWVETNLEKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRIL  5267

Query  840   SAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGH  899
             SAGCFVDDIVKTDGT+M+ER+VSLAIDAYPLTKH+D EYQNVFWVYLQYIEKLYKDLTGH
Sbjct  5268  SAGCFVDDIVKTDGTVMMERYVSLAIDAYPLTKHDDTEYQNVFWVYLQYIEKLYKDLTGH  5327

Query  900   MLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
             MLDSYSVMLCGD+SAKFWEE FYRDLYSSPTTLQ
Sbjct  5328  MLDSYSVMLCGDDSAKFWEEGFYRDLYSSPTTLQ  5361



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=Leader protein; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65 homolog; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=PL2-PRO; AltName: Full=SARS coronavirus main proteinase; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=nsp5; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Severe acute respiratory syndrome-related coronavirus]
Sequence ID: P0C6X7.1 Length: 7073 
Range 1: 4374 to 5301

Score:1420 bits(3677), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:669/931(72%), Positives:773/931(83%), Gaps:4/931(0%)

Query  4     SNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVELDD  63
             S FL RV G +  AR+ PC +G STDVV+RAFDI  Y  KVAG  K+ KTN CRF E D+
Sbjct  4374  STFLNRVCG-VSAARLTPCGTGTSTDVVYRAFDI--YNEKVAGFAKFLKTNCCRFQEKDE  4430

Query  64    QGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQRLTE  123
             +G+ LDSYFVVKRHTM NY+ E+  Y+L++DC AVA HDFF F VD    PHI RQRLT+
Sbjct  4431  EGNLLDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTK  4490

Query  124   YTMMDLVYALRHFDQ-NSEVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKLGER  182
             YTM DLVYALRHFD+ N + LK ILV Y CCD  YF  K W+DFVENP ++ VY  LGER
Sbjct  4491  YTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGER  4550

Query  183   VRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYYSYL  242
             VRQ++L TV+FCD M  AG+VGVLTLDNQDLNG WYDFGDFV   PG GV IVDSYYS L
Sbjct  4551  VRQSLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLL  4610

Query  243   MPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANCVNC  302
             MP+L++T  LAAE+H D D  KPLI+W L +YDFT+ ++ LF++YFKYWDQTYH NC+NC
Sbjct  4611  MPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINC  4670

Query  303   TDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMDVSL  362
              DDRC+LHCANFNVLF+   P T FGP+VRKIFVDGVPFVVS GYH++ELG+V N DV+L
Sbjct  4671  LDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNL  4730

Query  363   HRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQDFYD  422
             H  RLS KEL++YAADPAMH AS N  LD RT+CFSVAALT  + FQTV+PGNFN+DFYD
Sbjct  4731  HSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYD  4790

Query  423   FVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNKYFE  482
             F VSKGFFKEGSSV LKHFFFAQDGNAAI+DY+YY YNLPTMCDI+Q+LF +EVV+KYF+
Sbjct  4791  FAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFD  4850

Query  483   IYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPTMTQ  542
              YDGGC+NA++V+VNNLDKSAG PFNK+GKAR+YY+SMSY++QD LFA TKRNVIPT+TQ
Sbjct  4851  CYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQ  4910

Query  543   MNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGWDFM  602
             MNLKYAISAKNRARTVAGVSI STMTNRQ+HQK+LKS+AATRGAT VIGT+KFYGGW  M
Sbjct  4911  MNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNM  4970

Query  603   LKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANECAQ  662
             LKT+Y DV+ PHLMGWDYPKCDRAMPNM RI ASL+LARKH TCC    RFYRLANECAQ
Sbjct  4971  LKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQ  5030

Query  663   VLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDKEVK  722
             VLSE V+CGG  YVKPGGTSSGDATTAYANSVFNI QA TANV+AL+  +GNKI DK V+
Sbjct  5031  VLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVR  5090

Query  723   DMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAGIQN  782
             ++Q  LY  +YR+   D +FVD++YA+L KHFSMMILSDD VVCYNS+YAA+G +A I+N
Sbjct  5091  NLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKN  5150

Query  783   FKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRILSAG  842
             FK  LYYQNNVFMSEAKCW ETDL KGPHEFCSQHT+ +K GDD  +LPYPDPSRIL AG
Sbjct  5151  FKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAG  5210

Query  843   CFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGHMLD  902
             CFVDDIVKTDGTLM+ERFVSLAIDAYPLTKH + EY +VF +YLQYI KL+ +LTGHMLD
Sbjct  5211  CFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLD  5270

Query  903   SYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
              YSVML  DN++++WE  FY  +Y+  T LQ
Sbjct  5271  MYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  5301



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=Leader protein; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65 homolog; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=nsp5; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Bat SARS coronavirus HKU3]
Sequence ID: P0C6W2.1 Length: 7067 
Range 1: 4368 to 5295

Score:1419 bits(3673), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:668/931(72%), Positives:774/931(83%), Gaps:4/931(0%)

Query  4     SNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVELDD  63
             S FL RV G +  AR+ PC +G STDVV+RAFDI  Y  KVAG  K+ KTN CRF E D+
Sbjct  4368  STFLNRVCG-VSAARLTPCGTGTSTDVVYRAFDI--YNEKVAGFAKFLKTNCCRFQEKDE  4424

Query  64    QGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQRLTE  123
             +G+ LDSYFVVKRHTM NY+ E+  Y+L+++C AVA HDFF F VD    PHI RQRLT+
Sbjct  4425  EGNLLDSYFVVKRHTMSNYQHEETIYNLIKECPAVAVHDFFKFRVDGDMVPHISRQRLTK  4484

Query  124   YTMMDLVYALRHFDQ-NSEVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKLGER  182
             YTM DLVYALRHFD+ N + LK ILV Y CCD  YF  K W+DFVENP V+ VY  LGER
Sbjct  4485  YTMADLVYALRHFDEGNCDTLKEILVTYNCCDDNYFNKKDWYDFVENPDVLRVYANLGER  4544

Query  183   VRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYYSYL  242
             VR+A+L TV+FCD M  AG+VGVLTLDNQDLNG WYDFGDFV   PG GV IVDSYYS L
Sbjct  4545  VRRALLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLL  4604

Query  243   MPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANCVNC  302
             MP+L++T  LAAE+H D D  KPL++W L +YDFT+ ++ LF++YFKYWDQTYH NC+NC
Sbjct  4605  MPILTLTKALAAESHMDADLAKPLVKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINC  4664

Query  303   TDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMDVSL  362
              DDRC+LHCANFNVLF+   P T FGP+VRKIFVDGVPFVVS GYH++ELG+V N DV+L
Sbjct  4665  LDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNL  4724

Query  363   HRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQDFYD  422
             H  RLS KEL++YAADPAMH AS N  LD RT+CFSVAALT  + FQTV+PGNFN+DFYD
Sbjct  4725  HSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYD  4784

Query  423   FVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNKYFE  482
             F VSKGFFKEGSSV LKHFFFAQDGNAAI+DY+YY YNLPTMCDI+Q+LF +EVV+KYF+
Sbjct  4785  FAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFD  4844

Query  483   IYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPTMTQ  542
              YDGGC+NA++V+VNNLDKSAG PFNK+GKAR+YY+SMSY++QD LFA TKRNVIPT+TQ
Sbjct  4845  CYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQ  4904

Query  543   MNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGWDFM  602
             MNLKYAISAKNRARTVAGVSI STMTNRQ+HQK+LKS+AATRGAT VIGT+KFYGGW  M
Sbjct  4905  MNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNM  4964

Query  603   LKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANECAQ  662
             LKT+Y DV++PHLMGWDYPKCDRAMPNM RI ASLILARKH TCC    RFYRLANECAQ
Sbjct  4965  LKTVYSDVESPHLMGWDYPKCDRAMPNMLRIMASLILARKHSTCCNLSHRFYRLANECAQ  5024

Query  663   VLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDKEVK  722
             VLSE V+CGG  YVKPGGTSSGDATTAYANSVFNI QA TANV+AL+  +GNKI DK V+
Sbjct  5025  VLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVR  5084

Query  723   DMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAGIQN  782
             ++Q  LY  +YR+   D +FVD++YA+L KHFSMMILSDD VVCYNS+YAA+G +A I+N
Sbjct  5085  NLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKN  5144

Query  783   FKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRILSAG  842
             FK  LYYQNNVFMSEAKCW ETDL +GPHEFCSQHT+ +K GDD  +LPYPDPSRIL AG
Sbjct  5145  FKAVLYYQNNVFMSEAKCWTETDLTRGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAG  5204

Query  843   CFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGHMLD  902
             CFVDDIVKTDGTLM+ERFVSLAIDAYPLTKH + EY +VF +YLQYI KL+ +LTGHMLD
Sbjct  5205  CFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLD  5264

Query  903   SYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
              YSVML  DN++++WE  FY  +Y+  T LQ
Sbjct  5265  MYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  5295



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=Leader protein; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65 homolog; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=nsp5; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Bat SARS CoV Rp3/2004]
Sequence ID: P0C6W6.1 Length: 7071 
Range 1: 4372 to 5299

Score:1419 bits(3673), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:669/931(72%), Positives:772/931(82%), Gaps:4/931(0%)

Query  4     SNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVELDD  63
             S FL RV G +  AR+ PC +G+STDVV+RAFDI  Y  KVAG  K+ KTN CRF E D+
Sbjct  4372  STFLNRVCG-VSAARLTPCGTGISTDVVYRAFDI--YNEKVAGFAKFLKTNCCRFQEKDE  4428

Query  64    QGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQRLTE  123
             +G+ LDSYFVVKRHTM NY+ E+  Y+L++DC AVA HDFF F VD    PHI RQRLT+
Sbjct  4429  EGNLLDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTK  4488

Query  124   YTMMDLVYALRHFDQ-NSEVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKLGER  182
             YTM DLVYALRHFD+ N + LK ILV Y CCD  YF  K W+DFVENP ++ VY  LGER
Sbjct  4489  YTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGER  4548

Query  183   VRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYYSYL  242
             VRQA+L TV+FCD M  AG+VGVLTLDNQDLNG WYDFGDFV   PG GV IVDSYYS L
Sbjct  4549  VRQALLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLL  4608

Query  243   MPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANCVNC  302
             MP+L++T  LAAE+H D D  KPLI+W L +YDFT  ++ LF++YFKYWDQTYH NC+NC
Sbjct  4609  MPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTAERLCLFDRYFKYWDQTYHPNCINC  4668

Query  303   TDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMDVSL  362
              DDRC+LHCANFNVLF+   P T FGP+VRKIFVDGVPFVVS GYH++ELG+V N DV+L
Sbjct  4669  LDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNL  4728

Query  363   HRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQDFYD  422
             H  RLS KEL++YAADPAMH AS N  LD RT+CFSVAALT  + FQTV+PGNFN+DFYD
Sbjct  4729  HSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYD  4788

Query  423   FVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNKYFE  482
             F VSKGFFKEGSSV LKHFFFAQDGNAAI+DY+YY YNLPTMCDI+Q+LF +EVV+KYF+
Sbjct  4789  FAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFD  4848

Query  483   IYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPTMTQ  542
              YDGGC+NA++V+VNNLDKSAG PFNK+GKAR+YY+SMSY++QD LFA TKRNVIPT+TQ
Sbjct  4849  CYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQ  4908

Query  543   MNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGWDFM  602
             MNLKYAISAKNRARTVAGVSI STMTNRQ+HQK+LKS+AATRGAT VIGT+KFYGGW  M
Sbjct  4909  MNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNM  4968

Query  603   LKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANECAQ  662
             LKT+Y DV+ PHLMGWDYPKCDRAMPNM RI ASL+LARKH TCC    RFYRLANECAQ
Sbjct  4969  LKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHSTCCNLSHRFYRLANECAQ  5028

Query  663   VLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDKEVK  722
             VLSE V+CGG  YVKPGGTSSGDATTAYANSVFNI QA TANV+AL+  +GNKI DK V+
Sbjct  5029  VLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVR  5088

Query  723   DMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAGIQN  782
             ++Q  LY  +YR+   D +FV ++YA+L KHFSMMILSDD VVCYNS+YAA+G +A I+N
Sbjct  5089  NLQHRLYECLYRNRDVDHEFVGEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKN  5148

Query  783   FKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRILSAG  842
             FK  LYYQNNVFMSEAKCW ETDL KGPHEFCSQHT+ +K GDD  +LPYPDPSRIL AG
Sbjct  5149  FKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAG  5208

Query  843   CFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGHMLD  902
             CFVDDIVKTDGTLM+ERFVSLAIDAYPLTKH + EY +VF +YLQYI KL+ +LTGHMLD
Sbjct  5209  CFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLD  5268

Query  903   SYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
              YSVML  DN++++WE  FY  +Y+  T LQ
Sbjct  5269  MYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  5299



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=Leader protein; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65 homolog; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=nsp5; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Bat CoV 279/2005]
Sequence ID: P0C6V9.1 Length: 7079 
Range 1: 4380 to 5307

Score:1416 bits(3666), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:667/931(72%), Positives:772/931(82%), Gaps:4/931(0%)

Query  4     SNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVELDD  63
             S FL RV G +  AR+ PC +G STDVV+RAFDI  Y  +VAG  K+ KTN CRF E D+
Sbjct  4380  STFLNRVCG-VSAARLTPCGTGTSTDVVYRAFDI--YNERVAGFAKFLKTNCCRFQEKDE  4436

Query  64    QGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQRLTE  123
             +G+ LDSYFVVKRHTM NY+ E+  Y+L+++C AVA HDFF F VD    PHI RQRLT+
Sbjct  4437  EGNLLDSYFVVKRHTMSNYQHEETIYNLVKECPAVAVHDFFKFRVDGDMVPHISRQRLTK  4496

Query  124   YTMMDLVYALRHFDQ-NSEVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKLGER  182
             YTM DLVYALRHFD+ N + LK ILV Y CCD  YF  K W+DFVENP ++ VY  LGER
Sbjct  4497  YTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGER  4556

Query  183   VRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYYSYL  242
             VRQA+L TV+FCD M  AG+VGVLTLDNQDLNG WYDFGDFV   PG GV IVDSYYS L
Sbjct  4557  VRQALLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLL  4616

Query  243   MPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANCVNC  302
             MP+L++T  LAAE+H D D  KPLI+W L +YDFT+ ++ LF++YFKYWDQTYH NC+NC
Sbjct  4617  MPILTLTKALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINC  4676

Query  303   TDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMDVSL  362
              DDRC+LHCANFNVLF+   P T FGP+VRKIFVDGVPFVVS GYH++ELG+V N DV+L
Sbjct  4677  LDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNL  4736

Query  363   HRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQDFYD  422
             H  RLS KEL++YAADPAMH AS N  LD RT+CFSVAALT  + FQTV+PGNFN+DFYD
Sbjct  4737  HSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYD  4796

Query  423   FVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNKYFE  482
             F VSKGFFKEGSSV LKHFFFAQDGNAAI+DY+YY YNLPTMCDI+Q+LF +EVV+KYF+
Sbjct  4797  FAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFD  4856

Query  483   IYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPTMTQ  542
              YDGGC+NA++V+VNNLDKSAG PFNK+GKAR+YY+SMSY++QD LFA TKRNVIPT+TQ
Sbjct  4857  CYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDVLFAYTKRNVIPTITQ  4916

Query  543   MNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGWDFM  602
             MNLKYAISAKNRARTVAGVSI STMTNRQ+HQK+LKS+AATRGAT VIGT+KFYGGW  M
Sbjct  4917  MNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNM  4976

Query  603   LKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANECAQ  662
             LKT+Y DV+ PHLMGWDYPKCDRAMPNM RI ASL+LARKH TCC    RFYRLANECAQ
Sbjct  4977  LKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHSTCCNLSHRFYRLANECAQ  5036

Query  663   VLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDKEVK  722
             VLSE V+CGG  YVKPGGTSSGDATTAYANSVFNI QA TANV+AL+  +GNKI DK V+
Sbjct  5037  VLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVR  5096

Query  723   DMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAGIQN  782
             ++Q  LY  +YR+   D +FVD++YA+L KHFSMMILSDD VVCYNS+YAA+G +A I+N
Sbjct  5097  NLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKN  5156

Query  783   FKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRILSAG  842
             FK   YYQNNVFMSEAKCW ETDL KGPHEFCSQHT+ +K GDD  +LPYPDPSRIL AG
Sbjct  5157  FKAVHYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAG  5216

Query  843   CFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGHMLD  902
             CFVDDIVKTDGTLM+ERFVSLAIDAYPLTKH + EY +VF +YLQYI KL+ +LTGHMLD
Sbjct  5217  CFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLD  5276

Query  903   SYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
              YSVML  DN++++WE  FY  +Y+  T LQ
Sbjct  5277  MYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ  5307



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=Leader protein; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65 homolog; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=nsp5; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Rousettus bat coronavirus HKU9]
Sequence ID: P0C6W5.1 Length: 6930 
Range 1: 4234 to 5165

Score:1377 bits(3564), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:638/934(68%), Positives:763/934(81%), Gaps:3/934(0%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             ++D  FL RVRG+   AR+ P  SG+  D+V RAFDICN   KVAG G + K N CR+ E
Sbjct  4234  ARDECFLNRVRGTSGVARLVPLGSGVQPDIVLRAFDICN--TKVAGFGLHLKNNCCRYQE  4291

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             LD  G  LDSYFVVKRHT  NY LE+ CY+ L+DC  VA HDFF F+++ V TPH+ R+R
Sbjct  4292  LDADGTQLDSYFVVKRHTESNYLLEQRCYEKLKDCGVVARHDFFKFNIEGVMTPHVSRER  4351

Query  121   LTEYTMMDLVYALRHFDQNS-EVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             LT+YTM DLVY+LRHFD N+ + LK ILV  GCC   YF+ K W+D VENP +I VYH L
Sbjct  4352  LTKYTMADLVYSLRHFDNNNCDTLKEILVLRGCCTADYFDRKDWYDPVENPDIIRVYHNL  4411

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             GE VR+A+L+ VK  D MV+ GL+GVLTLDNQDLNG+WYDFGDF+    G+GVA++D+YY
Sbjct  4412  GETVRKAVLSAVKMADSMVEQGLIGVLTLDNQDLNGQWYDFGDFIEGPAGAGVAVMDTYY  4471

Query  240   SYLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANC  299
             S  MPV +MT+ LAAE H D DF+KP   W + +YD+T +K  LF KYFKYWD  YH NC
Sbjct  4472  SLAMPVYTMTNMLAAECHVDGDFSKPKRVWDICKYDYTQFKYSLFSKYFKYWDMQYHPNC  4531

Query  300   VNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMD  359
             V C DDRC+LHCANFN+LF+M +P T FGP+V+KI+VDGVPFVVS GYHY+ELG+VMN D
Sbjct  4532  VACADDRCILHCANFNILFSMVLPNTSFGPLVQKIYVDGVPFVVSTGYHYRELGVVMNQD  4591

Query  360   VSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQD  419
             +  H  RLSL+EL++YAADPAMH+A+SNA  D RT C SVAA+TTG+TFQTV+PG FN+D
Sbjct  4592  IRQHAQRLSLRELLVYAADPAMHVAASNALADKRTVCMSVAAMTTGVTFQTVKPGQFNED  4651

Query  420   FYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNK  479
             FY+F V  GFFKEGS+++ KHFF+AQDGNAAI+DY+YY YNLPTMCDIKQ+LF +EVV+K
Sbjct  4652  FYNFAVKCGFFKEGSTISFKHFFYAQDGNAAISDYDYYRYNLPTMCDIKQLLFSLEVVDK  4711

Query  480   YFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPT  539
             YF+ YDGGCL AS+VVV N DKSAG PFNKFGKAR+YYES+SY +QDELFA TKRNV+PT
Sbjct  4712  YFDCYDGGCLQASQVVVANYDKSAGFPFNKFGKARLYYESLSYADQDELFAYTKRNVLPT  4771

Query  540   MTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  599
             +TQMNLKYAISAKNRARTVAGVSI STMTNRQ+HQKMLKS+AA RGA+ VIGTTKFYGGW
Sbjct  4772  ITQMNLKYAISAKNRARTVAGVSIASTMTNRQFHQKMLKSIAAARGASVVIGTTKFYGGW  4831

Query  600   DFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANE  659
             + ML+TL + V+NPHLMGWDYPKCDRAMPN+ RIFASLILARKH TCC   +RFYRLANE
Sbjct  4832  NRMLRTLCEGVENPHLMGWDYPKCDRAMPNLLRIFASLILARKHATCCNASERFYRLANE  4891

Query  660   CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDK  719
             CAQVLSE VLCGGG+YVKPGGTSSGD+TTAYANSVFNI QA +AN++  +  +GNKI   
Sbjct  4892  CAQVLSEMVLCGGGFYVKPGGTSSGDSTTAYANSVFNICQAVSANLNTFLSIDGNKIYTT  4951

Query  720   EVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAG  779
              V+++Q  LY+ +YRS + D + V  YY +L KHFSMMILSDDGVVCYN+DYA KGY+A 
Sbjct  4952  YVQELQRRLYLGIYRSNTVDNELVLDYYNYLRKHFSMMILSDDGVVCYNADYAQKGYVAD  5011

Query  780   IQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRIL  839
             IQ FKE LY+QNNVFMSE+KCWVE D+ KGPHEFCSQHT+ +    +  +LPYPDPSRIL
Sbjct  5012  IQGFKELLYFQNNVFMSESKCWVEPDITKGPHEFCSQHTMLVDMKGEQVYLPYPDPSRIL  5071

Query  840   SAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGH  899
              AGCFVDD++KTDGTLM+ER+VSLAIDAYPLTKH D EYQNVFW YLQYI+KL+++LTGH
Sbjct  5072  GAGCFVDDLLKTDGTLMMERYVSLAIDAYPLTKHPDPEYQNVFWCYLQYIKKLHEELTGH  5131

Query  900   MLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
             +LD+YSVML  DN++K+WE  FY ++Y    TLQ
Sbjct  5132  LLDTYSVMLASDNASKYWEVEFYENMYMESATLQ  5165



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=p28; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=p210; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; AltName: Full=p44; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p27; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p10; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p22; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p12; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p15; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p67; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p35; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Murine hepatitis virus strain 2]
Sequence ID: P0C6X8.1 Length: 7124 
Range 1: 4403 to 5330

Score:1362 bits(3525), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:639/934(68%), Positives:764/934(81%), Gaps:7/934(0%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             SKD+NFL RVRG+ VNAR+ PC+SGL TDV  RAFDICN  A  AGIG YYK N CRF  
Sbjct  4403  SKDTNFLNRVRGTSVNARLVPCASGLDTDVQLRAFDICN--ANRAGIGLYYKVNCCRFQR  4460

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
              D+ G+ LD +FV+KR  +E Y  EK CY+L ++C  VA H+FF FDV+  + PHIVR+ 
Sbjct  4461  ADEDGNTLDKFFVIKRTNLEVYNKEKECYELTKECGVVAEHEFFTFDVEGSRVPHIVRKD  4520

Query  121   LTEYTMMDLVYALRHFDQNS-EVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             L++YTM+DL YALRHFD+N    LK IL+ Y  CD +YF+ K W+DFVEN  +I VY KL
Sbjct  4521  LSKYTMLDLCYALRHFDRNDCSTLKEILLTYAECDESYFQKKDWYDFVENSDIINVYKKL  4580

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             G    +A+LNT KF D +V+AGLVGVLTLDNQDL G+WYDFGDFV T PG GVA+ DSYY
Sbjct  4581  GPIFNRALLNTAKFADTLVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPGCGVAVADSYY  4640

Query  240   SYLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANC  299
             SY+MP+L+M   L +E       N    E+ L +YDFTD+K++LF KYFKYW  TYH N 
Sbjct  4641  SYMMPMLTMCHALDSELF----INGTYREFDLVQYDFTDFKLELFNKYFKYWSMTYHPNT  4696

Query  300   VNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMD  359
               C DDRC++HCANFN+LF+M +PKTCFGP+VR+IFVDGVPFVVS GYHYKELG+VMNMD
Sbjct  4697  CECEDDRCIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMD  4756

Query  360   VSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQD  419
             V  HR+RLSLK+L++YAADPA+H+AS++A LDLRT CFSVAA+T+G+ FQTV+PGNFNQD
Sbjct  4757  VDTHRYRLSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQD  4816

Query  420   FYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNK  479
             FY+F++SKG  KEGSSV LKHFFF QDGNAAITDYNYY YNLPTM DIKQ+LF +EVVNK
Sbjct  4817  FYEFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVNK  4876

Query  480   YFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPT  539
             YFEIYDGGC+ A++V+VNN DKSAG+PFNKFGKAR+YYE++S++EQDE++A TKRNV+PT
Sbjct  4877  YFEIYDGGCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEVYAYTKRNVLPT  4936

Query  540   MTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  599
             +TQMNLKYAISAKNRARTVAGVSILSTMT R +HQK LKS+AATRG   VIGTTKFYGGW
Sbjct  4937  LTQMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGW  4996

Query  600   DFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANE  659
             D ML+ L KDVD+P LMGWDYPKCDRAMPN+ RI +SL+LARKH +CC+  DRFYRLANE
Sbjct  4997  DDMLRRLIKDVDSPVLMGWDYPKCDRAMPNILRIISSLVLARKHDSCCSHTDRFYRLANE  5056

Query  660   CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDK  719
             CAQVLSE V+CGG YYVKPGGTSSGDATTA+ANSVFNI QA +ANV +LM  NG+KI D 
Sbjct  5057  CAQVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDL  5116

Query  720   EVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAG  779
              ++++Q  LY NVYR+   DP FV++YY FLNKHFSMMILSDDGVVCYNS++A+KGYIA 
Sbjct  5117  SIRELQKRLYSNVYRADHVDPAFVNEYYEFLNKHFSMMILSDDGVVCYNSEFASKGYIAN  5176

Query  780   IQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRIL  839
             I  F++ LYYQNNVFMSEAKCWVETD++KGPHEFCSQHT+ +K   D  +LPYPDPSRIL
Sbjct  5177  ISAFQQVLYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRIL  5236

Query  840   SAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGH  899
              AGCFVDD++KTD  L++ERFVSLAIDAYPL  HE+ EYQNVF VYL+YI+KLY DL   
Sbjct  5237  GAGCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQ  5296

Query  900   MLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
             +LDSYSV+L   +  KF +E FY+++Y     +Q
Sbjct  5297  ILDSYSVILSTCDGQKFTDETFYKNMYLRSAVMQ  5330



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=p28; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=p210; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; AltName: Full=p44; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p27; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p10; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p22; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p12; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p15; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p67; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p35; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Murine hepatitis virus strain A59]
Sequence ID: P0C6X9.1 Length: 7176 
Range 1: 4455 to 5382

Score:1361 bits(3522), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:637/934(68%), Positives:765/934(81%), Gaps:7/934(0%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             SKD+NFL R+RG+ VNAR+ PC+SGL TDV  RAFDICN  A  AGIG YYK N CRF  
Sbjct  4455  SKDTNFLNRIRGTSVNARLVPCASGLDTDVQLRAFDICN--ANRAGIGLYYKVNCCRFQR  4512

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             +D+ G+ LD +FVVKR  +E Y  EK CY+L ++C  VA H+FF FDV+  + PHIVR+ 
Sbjct  4513  VDEDGNKLDKFFVVKRTNLEVYNKEKECYELTKECGVVAEHEFFTFDVEGSRVPHIVRKD  4572

Query  121   LTEYTMMDLVYALRHFDQNS-EVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             L+++TM+DL YALRHFD+N    LK IL+ Y  C+ +YF+ K W+DFVENP +I VY KL
Sbjct  4573  LSKFTMLDLCYALRHFDRNDCSTLKEILLTYAECEESYFQKKDWYDFVENPDIINVYKKL  4632

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             G    +A+LNT KF D +V+AGLVGVLTLDNQDL G+WYDFGDFV T PG GVA+ DSYY
Sbjct  4633  GPIFNRALLNTAKFADALVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPGCGVAVADSYY  4692

Query  240   SYLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANC  299
             SY+MP+L+M   L +E       N    E+ L +YDFTD+K++LF KYFK+W  TYH N 
Sbjct  4693  SYMMPMLTMCHALDSELF----VNGTYREFDLVQYDFTDFKLELFTKYFKHWSMTYHPNT  4748

Query  300   VNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMD  359
               C DDRC++HCANFN+LF+M +PKTCFGP+VR+IFVDGVPFVVS GYHYKELG+VMNMD
Sbjct  4749  CECEDDRCIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMD  4808

Query  360   VSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQD  419
             V  HR+RLSLK+L++YAADPA+H+AS++A LDLRT CFSVAA+T+G+ FQTV+PGNFNQD
Sbjct  4809  VDTHRYRLSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQD  4868

Query  420   FYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNK  479
             FY+F++SKG  KEGSSV LKHFFF QDGNAAITDYNYY YNLPTM DIKQ+LF +EVVNK
Sbjct  4869  FYEFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVNK  4928

Query  480   YFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPT  539
             YFEIY+GGC+ A++V+VNN DKSAG+PFNKFGKAR+YYE++S++EQDE++A TKRNV+PT
Sbjct  4929  YFEIYEGGCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPT  4988

Query  540   MTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  599
             +TQMNLKYAISAKNRARTVAGVSILSTMT R +HQK LKS+AATRG   VIGTTKFYGGW
Sbjct  4989  LTQMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGW  5048

Query  600   DFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANE  659
             D ML+ L KDVD+P LMGWDYPKCDRAMPN+ RI +SL+LARKH +CC+  DRFYRLANE
Sbjct  5049  DDMLRRLIKDVDSPVLMGWDYPKCDRAMPNILRIVSSLVLARKHDSCCSHTDRFYRLANE  5108

Query  660   CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDK  719
             CAQVLSE V+CGG YYVKPGGTSSGDATTA+ANSVFNI QA +ANV +LM  NG+KI D 
Sbjct  5109  CAQVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDL  5168

Query  720   EVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAG  779
              ++++Q  LY NVYR+   DP FV +YY FLNKHFSMMILSDDGVVCYNS++A+KGYIA 
Sbjct  5169  SIRELQKRLYSNVYRADHVDPAFVSEYYEFLNKHFSMMILSDDGVVCYNSEFASKGYIAN  5228

Query  780   IQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRIL  839
             I  F++ LYYQNNVFMSEAKCWVETD++KGPHEFCSQHT+ +K   D  +LPYPDPSRIL
Sbjct  5229  ISAFQQVLYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRIL  5288

Query  840   SAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGH  899
              AGCFVDD++KTD  L++ERFVSLAIDAYPL  HE+ EYQNVF VYL+YI+KLY DL   
Sbjct  5289  GAGCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQ  5348

Query  900   MLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
             +LDSYSV+L   +  KF +E FY+++Y     LQ
Sbjct  5349  ILDSYSVILSTCDGQKFTDETFYKNMYLRSAVLQ  5382



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=p28; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=p210; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; AltName: Full=p44; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p27; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p10; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p22; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p12; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p15; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p67; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p35; Contains: RecName: Full=2'-O-methyl transferase; AltName: Full=nsp16 [Murine hepatitis virus strain JHM]
Sequence ID: P0C6Y0.1 Length: 7180 
Range 1: 4461 to 5388

Score:1348 bits(3489), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:633/934(68%), Positives:762/934(81%), Gaps:7/934(0%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             SKD+NFL RVRG+ VNAR+ PC+SGL TDV  RAFDICN  A  AGIG YYK N  RF  
Sbjct  4461  SKDTNFLNRVRGTSVNARLVPCASGLDTDVQLRAFDICN--ANRAGIGLYYKVNCFRFQR  4518

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             +D++G+ LD +FVVKR  +E Y  EK CY+L +DC  VA H+FF FDV+  + PHIVR+ 
Sbjct  4519  VDEEGNKLDKFFVVKRTNLEVYNKEKECYELTKDCGVVAEHEFFTFDVEGSRVPHIVRKD  4578

Query  121   LTEYTMMDLVYALRHFDQNS-EVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             L+++TM+DL YALRHFD+N    LK IL+ Y  CD +YF+ K W+DFVENP +I VY KL
Sbjct  4579  LSKFTMLDLCYALRHFDRNDCSTLKEILLTYAECDESYFQKKDWYDFVENPDIINVYKKL  4638

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             G    +A+LNT  F D +V+AGLVGVLTLDNQDL G+WYDFGDFV T P  GVA+ DSYY
Sbjct  4639  GPIFNRALLNTANFADTLVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPCCGVAVADSYY  4698

Query  240   SYLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANC  299
             SY+MP+L+M   L +E       N    E+ L +YDFTD+K++LF KYFK+W  TYH N 
Sbjct  4699  SYMMPMLTMCHALDSELF----VNGTYREFDLVQYDFTDFKLELFNKYFKHWSMTYHPNT  4754

Query  300   VNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMD  359
               C DDRC++HCANFN+LF+M +PKTCFGP+VR+IFVDGVPFVVS GYHYKELG+VMNMD
Sbjct  4755  SECEDDRCIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMD  4814

Query  360   VSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQD  419
             V  HR+RLSLK+L++YAADPA+H+AS++A LDLRT CFSVAA+T+G+ FQTV+PGNFNQD
Sbjct  4815  VDTHRYRLSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQD  4874

Query  420   FYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNK  479
             FY+F++SKG  KEGSSV LKHFFF QDGNAAITDYNYY YNLPTM DIKQ+LF +EVVNK
Sbjct  4875  FYEFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVVEVVNK  4934

Query  480   YFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPT  539
             YFEIY+GGC+ A++V+VNN DKSAG+PFNKFGKAR+YYE++S++EQDE++A TKRNV+PT
Sbjct  4935  YFEIYEGGCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPT  4994

Query  540   MTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  599
             +TQMNLKYAISAKNRARTVAGVSILSTMT R +HQK LKS+AATRG   VIGTTKFYGGW
Sbjct  4995  LTQMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGW  5054

Query  600   DFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANE  659
             D ML+ L KDVD+P LMGWDYPKCDRAMPN+ RI +SL+LARKH +CC+  DRFYRLANE
Sbjct  5055  DDMLRRLIKDVDSPVLMGWDYPKCDRAMPNILRIVSSLVLARKHDSCCSHTDRFYRLANE  5114

Query  660   CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDK  719
             CAQVL E V+CGG YYVKPGGTSSGDATTA+ANSVFNI QA +ANV +LM  NG+KI D 
Sbjct  5115  CAQVLGEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDL  5174

Query  720   EVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAG  779
              ++++Q  LY NVYR+   DP FV +YY FLNKHFSM+ILSDDGVVCYNS++A+KGYIA 
Sbjct  5175  SIRELQKRLYSNVYRADHVDPAFVSEYYEFLNKHFSMIILSDDGVVCYNSEFASKGYIAN  5234

Query  780   IQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRIL  839
             I +F++ LYYQNNVFMSEAKCWVETD++KGPHEFCSQHT+ +K   D  +LPYPDPSRIL
Sbjct  5235  ISDFQQVLYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRIL  5294

Query  840   SAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGH  899
              AGCFVDD++KTD  L++ERFVSLAIDAYPL  HE+ EYQNVF VYL+YI+KLY DL   
Sbjct  5295  GAGCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQ  5354

Query  900   MLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
             +LDS SV+L   +  KF +E FY+++Y     +Q
Sbjct  5355  ILDSISVILSTCDGQKFTDETFYKNMYLRSAVMQ  5388



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=p28; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=p210; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; AltName: Full=p44; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p27; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p10; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p22; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p12; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p15; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p67; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p35; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Bovine respiratory coronavirus (strain 98TXSF-110-LUN)]
Sequence ID: P0C6W8.1 Length: 7094 
Range 1: 4370 to 5297

Score:1340 bits(3468), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:636/935(68%), Positives:754/935(80%), Gaps:9/935(0%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             SKD+NFL RVRG+ V+AR+ PC+SGLSTDV  RAFDICN  A VAGIG + K N CRF  
Sbjct  4370  SKDTNFLNRVRGTSVDARLVPCASGLSTDVQLRAFDICN--ASVAGIGLHLKVNCCRFQR  4427

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             +D+ G  LD +FVVKR  +  Y  E  CY+ ++DC  VA HDFF FDV+  + PHIVR+ 
Sbjct  4428  VDENGDKLDQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKD  4487

Query  121   LTEYTMMDLVYALRHFDQNSEVLKA-ILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             LT+YTM+DL YALRHFD+N  +L   IL  Y  C+ +YF  K W+DFVENP +I VY KL
Sbjct  4488  LTKYTMLDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKL  4547

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             G    +A+++  +F D +V+ GLVG+LTLDNQDLNGKWYDFGD+VI  PG GVAI DSYY
Sbjct  4548  GPIFNRALVSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYY  4607

Query  240   SYLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANC  299
             SY+MP+L+M   L  E +     N     + L +YDFTDYK++LF KYFK+W   YH N 
Sbjct  4608  SYMMPMLTMCHALDCELY----VNNAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNT  4663

Query  300   VNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMD  359
             V+C DDRC++HCANFN+LF+M +P TCFGP+VR+IFVDGVPFVVS GYHYKELG+VMNMD
Sbjct  4664  VDCQDDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMD  4723

Query  360   VSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQD  419
             V  HR+RLSLK+L++YAADPA+H+AS++A  DLRT CFSVAA+T+G+ FQTV+PGNFNQD
Sbjct  4724  VDTHRYRLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQD  4783

Query  420   FYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNK  479
             FYDF++SKG  KEGSSV LKHFFF QDGNAAITDYNYY YNLPTM DIKQ+LF +EVV K
Sbjct  4784  FYDFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYK  4843

Query  480   YFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPT  539
             YFEIYDGGC+ AS+V+VNN DKSAG+PFNKFGKAR+YYE++S++EQDE++A TKRNV+PT
Sbjct  4844  YFEIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPT  4903

Query  540   MTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  599
             +TQMNLKYAISAKNRARTVAGVSILSTMT R +HQK LKS+AATRG   VIGTTKFYGGW
Sbjct  4904  LTQMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGW  4963

Query  600   DFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANE  659
             D ML+ L KDVDNP LMGWDYPKCDRAMPN+ RI +SL+LARKH  CC+  DRFYRLANE
Sbjct  4964  DDMLRRLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACCSQSDRFYRLANE  5023

Query  660   CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDK  719
             CAQVLSE V+CGG YYVKPGGTSSGDATTA+ANSVFNI QA +ANV ALM  NGNKI D 
Sbjct  5024  CAQVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDL  5083

Query  720   EVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAG  779
              ++ +Q  LY +VYRS   D  FV +YY FLNKHFSMMILSDDGVVCYNSDYA+KGYIA 
Sbjct  5084  SIRALQKRLYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIAN  5143

Query  780   IQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIK-DGDDGYFLPYPDPSRI  838
             I  F++ LYYQNNVFMSE+KCWVE D+  GPHEFCSQHT+ +K DGDD Y LPYPDPSRI
Sbjct  5144  ISAFQQVLYYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDDVY-LPYPDPSRI  5202

Query  839   LSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTG  898
             L AGCFVDD++KTD  L++ERFVSLAIDAYPL  HE+ EYQ VF VYL+YI+KLY DL  
Sbjct  5203  LGAGCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNDLGN  5262

Query  899   HMLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
              +LDSYSV+L   +  KF +E+FY+++Y     +Q
Sbjct  5263  QILDSYSVILSTCDGQKFTDESFYKNMYLRSAVMQ  5297



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=p28; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=p210; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; AltName: Full=p44; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p27; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p10; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p22; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p12; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p15; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p67; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p35; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Bovine enteric coronavirus (strain 98TXSF-110-ENT)]
Sequence ID: P0C6W7.1 Length: 7094 
Range 1: 4370 to 5297

Score:1340 bits(3468), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:636/935(68%), Positives:754/935(80%), Gaps:9/935(0%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             SKD+NFL RVRG+ V+AR+ PC+SGLSTDV  RAFDICN  A VAGIG + K N CRF  
Sbjct  4370  SKDTNFLNRVRGTSVDARLVPCASGLSTDVQLRAFDICN--ASVAGIGLHLKVNCCRFQR  4427

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             +D+ G  LD +FVVKR  +  Y  E  CY+ ++DC  VA HDFF FDV+  + PHIVR+ 
Sbjct  4428  VDENGDKLDQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKD  4487

Query  121   LTEYTMMDLVYALRHFDQNSEVLKA-ILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             LT+YTM+DL YALRHFD+N  +L   IL  Y  C+ +YF  K W+DFVENP +I VY KL
Sbjct  4488  LTKYTMLDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKL  4547

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             G    +A+++  +F D +V+ GLVG+LTLDNQDLNGKWYDFGD+VI  PG GVAI DSYY
Sbjct  4548  GPIFNRALVSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYY  4607

Query  240   SYLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANC  299
             SY+MP+L+M   L  E +     N     + L +YDFTDYK++LF KYFK+W   YH N 
Sbjct  4608  SYMMPMLTMCHALDCELY----VNNAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNT  4663

Query  300   VNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMD  359
             V+C DDRC++HCANFN+LF+M +P TCFGP+VR+IFVDGVPFVVS GYHYKELG+VMNMD
Sbjct  4664  VDCQDDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMD  4723

Query  360   VSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQD  419
             V  HR+RLSLK+L++YAADPA+H+AS++A  DLRT CFSVAA+T+G+ FQTV+PGNFNQD
Sbjct  4724  VDTHRYRLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQD  4783

Query  420   FYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNK  479
             FYDF++SKG  KEGSSV LKHFFF QDGNAAITDYNYY YNLPTM DIKQ+LF +EVV K
Sbjct  4784  FYDFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYK  4843

Query  480   YFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPT  539
             YFEIYDGGC+ AS+V+VNN DKSAG+PFNKFGKAR+YYE++S++EQDE++A TKRNV+PT
Sbjct  4844  YFEIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPT  4903

Query  540   MTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  599
             +TQMNLKYAISAKNRARTVAGVSILSTMT R +HQK LKS+AATRG   VIGTTKFYGGW
Sbjct  4904  LTQMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGW  4963

Query  600   DFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANE  659
             D ML+ L KDVDNP LMGWDYPKCDRAMPN+ RI +SL+LARKH  CC+  DRFYRLANE
Sbjct  4964  DDMLRRLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACCSQSDRFYRLANE  5023

Query  660   CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDK  719
             CAQVLSE V+CGG YYVKPGGTSSGDATTA+ANSVFNI QA +ANV ALM  NGNKI D 
Sbjct  5024  CAQVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDL  5083

Query  720   EVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAG  779
              ++ +Q  LY +VYRS   D  FV +YY FLNKHFSMMILSDDGVVCYNSDYA+KGYIA 
Sbjct  5084  SIRALQKRLYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIAN  5143

Query  780   IQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIK-DGDDGYFLPYPDPSRI  838
             I  F++ LYYQNNVFMSE+KCWVE D+  GPHEFCSQHT+ +K DGDD Y LPYPDPSRI
Sbjct  5144  ISAFQQVLYYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDDVY-LPYPDPSRI  5202

Query  839   LSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTG  898
             L AGCFVDD++KTD  L++ERFVSLAIDAYPL  HE+ EYQ VF VYL+YI+KLY DL  
Sbjct  5203  LGAGCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNDLGN  5262

Query  899   HMLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
              +LDSYSV+L   +  KF +E+FY+++Y     +Q
Sbjct  5263  QILDSYSVILSTCDGQKFTDESFYKNMYLRSAVMQ  5297



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=p28; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=p210; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; AltName: Full=p44; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p27; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p10; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p22; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p12; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p15; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p67; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p35; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Human coronavirus OC43]
Sequence ID: P0C6X6.1 Length: 7095 
Range 1: 4370 to 5297

Score:1336 bits(3458), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:637/935(68%), Positives:753/935(80%), Gaps:9/935(0%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             SKD+NFL RVRG+ V+AR+ PC+SGLSTDV  RAFDI  Y A VAGIG + K N CRF  
Sbjct  4370  SKDTNFLNRVRGASVDARLVPCASGLSTDVQLRAFDI--YNASVAGIGLHLKVNCCRFQR  4427

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             +D+ G  LD +FVVKR  +  Y  E  CY+ ++DC  VA HDFF FDV+  + PHIVR+ 
Sbjct  4428  VDENGDKLDQFFVVKRTDLTIYNREMKCYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKD  4487

Query  121   LTEYTMMDLVYALRHFDQNSEVLKA-ILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             LT+YTM+DL YALRHFD+N  +L   IL  Y  C+ +YF  K W+DFVENP +I VY KL
Sbjct  4488  LTKYTMLDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKL  4547

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             G    +A+++  +F D +V+ GLVGVLTLDNQDLNGKWYDFGD+VI  PG GVAI DSYY
Sbjct  4548  GPIFNRALVSATEFADKLVEVGLVGVLTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYY  4607

Query  240   SYLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANC  299
             SY+MP+L+M   L  E +     N     + L +YDFTDYK++LF KYFK+W   YH N 
Sbjct  4608  SYIMPMLTMCHALDCELY----VNNAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNT  4663

Query  300   VNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMD  359
             V+C DDRC++HCANFN+LF+M +P TCFGP+VR+IFVDGVPFVVS GYHYKELG+VMNMD
Sbjct  4664  VDCQDDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMD  4723

Query  360   VSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQD  419
             V  HR+RLSLK+L++YAADPA+H+AS++A  DLRT CFSVAA+T+G+ FQTV+PGNFNQD
Sbjct  4724  VDTHRYRLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQD  4783

Query  420   FYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNK  479
             FYDFV+SKG  KEGSSV LKHFFF QDGNAAITDYNYY YNLPTM DIKQ+LF +EVV K
Sbjct  4784  FYDFVLSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYK  4843

Query  480   YFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPT  539
             YFEIYDGGC+ AS+V+VNN DKSAG+PFNKFGKAR+YYE++S++EQDE++A TKRNV+PT
Sbjct  4844  YFEIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPT  4903

Query  540   MTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  599
             +TQMNLKYAISAKNRARTVAGVSILSTMT R +HQK LKS+AATRG   VIGTTKFYGGW
Sbjct  4904  LTQMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGW  4963

Query  600   DFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANE  659
             D ML+ L KDVDNP LMGWDYPKCDRAMPN+ RI +SL+LARKH TCC+  DRFYRLANE
Sbjct  4964  DDMLRRLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHETCCSQSDRFYRLANE  5023

Query  660   CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDK  719
             CAQVLSE V+CGG YYVKPGGTSSGDATTA+ANSVFNI QA +ANV ALM  NGNKI D 
Sbjct  5024  CAQVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDL  5083

Query  720   EVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAG  779
              ++ +Q  LY +VYRS   D  FV +YY FLNKHFSMMILSDDGVVCYNSDYA+KGYIA 
Sbjct  5084  SIRALQKRLYSHVYRSDKVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIAN  5143

Query  780   IQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIK-DGDDGYFLPYPDPSRI  838
             I  F++ LYYQNNVFMSE+KCWVE D+  GPHEFCSQHT+ +K DGDD Y LPYP+PSRI
Sbjct  5144  ISAFQQVLYYQNNVFMSESKCWVEHDINNGPHEFCSQHTMLVKMDGDDVY-LPYPNPSRI  5202

Query  839   LSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTG  898
             L AGCFVDD++KTD  L++ERFVSLAIDAYPL  HE+ EYQ VF VYL YI+KLY DL  
Sbjct  5203  LGAGCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLAYIKKLYNDLGN  5262

Query  899   HMLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
              +LDSYSV+L   +  KF +E+FY+++Y     +Q
Sbjct  5263  QILDSYSVILSTCDGQKFTDESFYKNMYLRSAVMQ  5297



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=p28; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=p210; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; AltName: Full=p44; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p27; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p10; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p22; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p12; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p15; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p67; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p35; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Bovine coronavirus strain Quebec]
Sequence ID: P0C6X0.1 Length: 7059 
Range 1: 4370 to 5297

Score:1334 bits(3452), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:633/935(68%), Positives:753/935(80%), Gaps:9/935(0%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             SKD+NFL RVRG+ V+AR+ PC+SGLSTDV  RAFDICN  A VAGIG + K N CRF  
Sbjct  4370  SKDTNFLNRVRGTSVDARLVPCASGLSTDVQLRAFDICN--ASVAGIGLHLKVNCCRFQR  4427

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             +D+ G  LD +FVVKR  +  Y  E  CY+ ++DC  VA HDFF FDV+  + PHIVR+ 
Sbjct  4428  VDENGDKLDQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKD  4487

Query  121   LTEYTMMDLVYALRHFDQNSEVLKA-ILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             LT+YTM+DL YALRHFD+N  +L   IL  Y  C+ +YF  K W+DFVENP +I VY KL
Sbjct  4488  LTKYTMLDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKL  4547

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             G    +A+++  +F D +V+ GLVG+LTLDNQDLNGKWYDFGD+VI  PG GVAI DSYY
Sbjct  4548  GPIFNRALVSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYY  4607

Query  240   SYLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANC  299
             SY+MP+L+M   L  E +     N     + L +YDFTDYK++LF KYFK+W   YH N 
Sbjct  4608  SYMMPMLTMCHALDCELY----VNNAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNT  4663

Query  300   VNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMD  359
             V+C DDRC++HCANFN+LF+M +P TCFGP+VR+IFVDGVPFVVS GYHYKELG+VMNMD
Sbjct  4664  VDCQDDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMD  4723

Query  360   VSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQD  419
             V  HR+RLSLK+L++YAADPA+H+AS++A  DLRT CFSVAA+T+G+ FQTV+PGNFNQD
Sbjct  4724  VDTHRYRLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQD  4783

Query  420   FYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNK  479
             FYDF++SKG  KEGSSV LKHFFF QDGNAAITDYNYY YNLPTM DIKQ+LF +EVV K
Sbjct  4784  FYDFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYK  4843

Query  480   YFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPT  539
             YFEIYDGGC+ A++V+VNN DKSAG+PFNKFGKAR+YYE++S++EQDE++A TKRNV+PT
Sbjct  4844  YFEIYDGGCIPAAQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPT  4903

Query  540   MTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  599
             +TQMNLKYAISAKNRARTVAGVSILSTMT R +HQK LKS+AATRG   VIGTTKFYGGW
Sbjct  4904  LTQMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGW  4963

Query  600   DFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANE  659
             D ML+ L KDVDNP LMGWDYPKCDRAMPN+ RI +SL+LARKH  CC+  DRFYRLANE
Sbjct  4964  DDMLRRLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACCSQSDRFYRLANE  5023

Query  660   CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDK  719
             CAQVLSE V+CGG YYVKPGGTSSGDATTA+ANSVFNI QA +ANV ALM  NGNKI D 
Sbjct  5024  CAQVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDL  5083

Query  720   EVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAG  779
              ++ +Q  LY +VYRS   D  FV +YY FLNKHFSMMILSDDGVVCYNSDYA+KGYIA 
Sbjct  5084  SIRALQKRLYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIAN  5143

Query  780   IQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIK-DGDDGYFLPYPDPSRI  838
             I  F++ LYYQNNVFMSE+KCWVE D+  GPHEFCSQHT+ +K DGDD Y LPYP PSRI
Sbjct  5144  ISAFQQVLYYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDDVY-LPYPVPSRI  5202

Query  839   LSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTG  898
             L AGCFVDD++KTD  L++ERFVSLAIDAYPL  HE+ EYQ VF VYL+YI+KLY +L  
Sbjct  5203  LGAGCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNELGN  5262

Query  899   HMLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
              +LDSYSV+L   +  KF +E+FY+++Y     +Q
Sbjct  5263  QILDSYSVILSTCDGQKFTDESFYKNMYLRSAVMQ  5297



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=p28; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=p210; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; AltName: Full=p44; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p27; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p10; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p22; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p12; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p15; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p67; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p35; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Human coronavirus HKU1 (isolate N2)]
Sequence ID: P0C6X3.1 Length: 7152 
Range 1: 4428 to 5355

Score:1333 bits(3449), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:636/936(68%), Positives:753/936(80%), Gaps:11/936(1%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             SKD NFL RVRG+ VNAR+ PC+SGLSTDV  RAFDICN     AGIG YYK N CRF  
Sbjct  4428  SKDLNFLNRVRGTSVNARLVPCASGLSTDVQLRAFDICN--TNRAGIGLYYKVNCCRFQR  4485

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             +DD G+ LD +FVVKR  +E Y  EK  Y+L + C  VA HDFF FD+D  + PHIVR+ 
Sbjct  4486  IDDDGNKLDKFFVVKRTNLEVYNKEKTYYELTKSCGVVAEHDFFTFDIDGSRVPHIVRKN  4545

Query  121   LTEYTMMDLVYALRHFDQNS-EVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             L++YTM+DL YALRHFD N   VL  IL +Y  C  +YF  K W+DFVENP +I +Y KL
Sbjct  4546  LSKYTMLDLCYALRHFDCNDCSVLCEILCEYADCKESYFSKKDWYDFVENPDIINIYKKL  4605

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             G    +A+LNTV F D +VK GLVGVLTLDNQDL G+WYDFGDF+ T PG GVA+ DSYY
Sbjct  4606  GPIFNRALLNTVSFADTLVKVGLVGVLTLDNQDLYGQWYDFGDFIQTAPGFGVAVADSYY  4665

Query  240   SYLMPVLSMTDCLAAETHRDCDF--NKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHA  297
             SY+MP+L+M   L      DC+   N    ++ L +YDFTDYK++LF KYFKYW   YH 
Sbjct  4666  SYMMPMLTMCHVL------DCELFVNDSYRQFDLVQYDFTDYKLELFNKYFKYWGMKYHP  4719

Query  298   NCVNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMN  357
             N V+C +DRC++HCANFN+LF+M +P TCFGP+VR+IFVDGVPFVVS GYHYKELG+VMN
Sbjct  4720  NTVDCDNDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMN  4779

Query  358   MDVSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFN  417
             +DV  HR+RLSLK+L++YAADPAMH+AS++A LDLRT CFSVAA+T+G+ FQTV+PGNFN
Sbjct  4780  LDVDTHRYRLSLKDLLLYAADPAMHVASASALLDLRTCCFSVAAITSGIKFQTVKPGNFN  4839

Query  418   QDFYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVV  477
             QDFY+FV SKG FKEGS+V LKHFFF QDGNAAITDYNYY YNLPTM DIKQ+LF +EVV
Sbjct  4840  QDFYEFVKSKGLFKEGSTVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVV  4899

Query  478   NKYFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVI  537
              KYFEIYDGGC+ AS+V+VNN DKSAG+PFNKFGKAR+YYE++S++EQ+E++A TKRNV+
Sbjct  4900  YKYFEIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQNEIYAYTKRNVL  4959

Query  538   PTMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYG  597
             PT+TQMNLKYAISAKNRARTVAGVSILSTMT R +HQK LKS+AATRG   VIGTTKFYG
Sbjct  4960  PTLTQMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYG  5019

Query  598   GWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLA  657
             GWD ML+ L KDVDNP LMGWDYPKCDRAMPN+ RI +SL+LARKH  CC+  DRFYRLA
Sbjct  5020  GWDDMLRHLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEFCCSHGDRFYRLA  5079

Query  658   NECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIV  717
             NECAQVLSE V+CGG YYVKPGGTSSGDATTA+ANSVFNI QA TANV +LM  NG+KI 
Sbjct  5080  NECAQVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVTANVCSLMACNGHKIE  5139

Query  718   DKEVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYI  777
             D  ++++Q  LY NVYR+   D  FV++YY FL KHFSMMILSDDGVVCYNSDYA+KGYI
Sbjct  5140  DLSIRNLQKRLYSNVYRTDYVDYTFVNEYYEFLCKHFSMMILSDDGVVCYNSDYASKGYI  5199

Query  778   AGIQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSR  837
             A I  F++ LYYQNNVFMSE+KCWVE D+  GPHEFCSQHT+ +K   D  +LPYPDPSR
Sbjct  5200  ANISVFQQVLYYQNNVFMSESKCWVENDITNGPHEFCSQHTMLVKIDGDYVYLPYPDPSR  5259

Query  838   ILSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLT  897
             IL AGCFVDD++KTD  L++ERFVSLAIDAYPL  HE+ EYQ VF VYL+YI+KLY DL 
Sbjct  5260  ILGAGCFVDDLLKTDSVLLIERFVSLAIDAYPLVHHENEEYQKVFRVYLEYIKKLYNDLG  5319

Query  898   GHMLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
               +LDSYSV+L   +  KF +E+FY+++Y     +Q
Sbjct  5320  NQILDSYSVILSTCDGLKFTDESFYKNMYLKSAVMQ  5355



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=p28; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=p210; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; AltName: Full=p44; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p27; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p10; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p22; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p12; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p15; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p67; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p35; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Human coronavirus HKU1 (isolate N1)]
Sequence ID: P0C6X2.1 Length: 7182 
Range 1: 4458 to 5385

Score:1333 bits(3449), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:635/936(68%), Positives:754/936(80%), Gaps:11/936(1%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             SKD NFL RVRG+ VNAR+ PC+SGLSTDV  RAFDICN     AGIG YYK N CRF  
Sbjct  4458  SKDLNFLNRVRGTSVNARLVPCASGLSTDVQLRAFDICN--TNRAGIGLYYKVNCCRFQR  4515

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             +DD G+ LD +FVVKR  +E Y  EK  Y+L + C  VA HDFF FD+D  + PHIVR+ 
Sbjct  4516  IDDDGNKLDKFFVVKRTNLEVYNKEKTYYELTKSCGVVAEHDFFTFDIDGSRVPHIVRRN  4575

Query  121   LTEYTMMDLVYALRHFDQNS-EVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             L++YTM+DL YALRHFD+N   +L  IL +Y  C  +YF  K W+DFVENP +I +Y KL
Sbjct  4576  LSKYTMLDLCYALRHFDRNDCSILCEILCEYADCKESYFSKKDWYDFVENPDIINIYKKL  4635

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             G    +A+LNTV F D +V+ GLVGVLTLDNQDL G+WYDFGDF+ T PG GVA+ DSYY
Sbjct  4636  GPIFNRALLNTVIFADTLVEVGLVGVLTLDNQDLYGQWYDFGDFIQTAPGFGVAVADSYY  4695

Query  240   SYLMPVLSMTDCLAAETHRDCDF--NKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHA  297
             SY+MP+L+M   L      DC+   N    ++ L +YDFTDYK++LF KYFKYW   YH 
Sbjct  4696  SYMMPMLTMCHVL------DCELFVNDSYRQFDLVQYDFTDYKLELFNKYFKYWGMKYHP  4749

Query  298   NCVNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMN  357
             N V+C +DRC++HCANFN+LF+M +P TCFGP+VR+IFVDGVPFVVS GYHYKELG+VMN
Sbjct  4750  NTVDCDNDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMN  4809

Query  358   MDVSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFN  417
             +DV  HR+RLSLK+L++YAADPAMH+AS++A LDLRT CFSVAA+T+G+ FQTV+PGNFN
Sbjct  4810  LDVDTHRYRLSLKDLLLYAADPAMHVASASALLDLRTCCFSVAAITSGIKFQTVKPGNFN  4869

Query  418   QDFYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVV  477
             QDFY+FV SKG FKEGS+V LKHFFF QDGNAAITDYNYY YNLPTM DIKQ+LF +EVV
Sbjct  4870  QDFYEFVKSKGLFKEGSTVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVV  4929

Query  478   NKYFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVI  537
              KYFEIYDGGC+ AS+V+VNN DKSAG+PFNKFGKAR+YYE++S++EQ+E++A TKRNV+
Sbjct  4930  YKYFEIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQNEIYAYTKRNVL  4989

Query  538   PTMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYG  597
             PT+TQMNLKYAISAKNRARTVAGVSILSTMT R +HQK LKS+AATRG   VIGTTKFYG
Sbjct  4990  PTLTQMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYG  5049

Query  598   GWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLA  657
             GWD ML+ L KDVDNP LMGWDYPKCDRAMPN+ RI +SL+LARKH  CC+  DRFYRLA
Sbjct  5050  GWDDMLRHLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEFCCSHGDRFYRLA  5109

Query  658   NECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIV  717
             NECAQVLSE V+CGG YYVKPGGTSSGDATTA+ANSVFNI QA TANV +LM  NG+KI 
Sbjct  5110  NECAQVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVTANVCSLMACNGHKIE  5169

Query  718   DKEVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYI  777
             D  ++++Q  LY NVYR+   D  FV++YY FL KHFSMMILSDDGVVCYNSDYA+KGYI
Sbjct  5170  DLSIRNLQKRLYSNVYRTDYVDYTFVNEYYEFLCKHFSMMILSDDGVVCYNSDYASKGYI  5229

Query  778   AGIQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSR  837
             A I  F++ LYYQNNVFMSE+KCWVE D+  GPHEFCSQHT+ +K   D  +LPYPDPSR
Sbjct  5230  ANISVFQQVLYYQNNVFMSESKCWVENDITNGPHEFCSQHTMLVKIDGDYVYLPYPDPSR  5289

Query  838   ILSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLT  897
             IL AGCFVDD++KTD  L++ERFVSLAIDAYPL  HE+ EYQ VF VYL+YI+KLY DL 
Sbjct  5290  ILGAGCFVDDLLKTDSVLLIERFVSLAIDAYPLVHHENEEYQKVFRVYLEYIKKLYNDLG  5349

Query  898   GHMLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
               +LDSYSV+L   +  KF EE+FY+++Y     +Q
Sbjct  5350  TQILDSYSVILSTCDGLKFTEESFYKNMYLKSAVMQ  5385



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=p28; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=p210; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; AltName: Full=p44; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p27; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p10; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p22; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p12; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p15; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p67; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p35; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Human coronavirus HKU1 (isolate N5)]
Sequence ID: P0C6X4.1 Length: 7132 
Range 1: 4408 to 5335

Score:1332 bits(3448), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:635/936(68%), Positives:753/936(80%), Gaps:11/936(1%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             SKD NFL RVRG+ VNAR+ PC+SGLSTDV  RAFDICN     AGIG YYK N CRF  
Sbjct  4408  SKDLNFLNRVRGTSVNARLVPCASGLSTDVQLRAFDICN--TNRAGIGLYYKVNCCRFQR  4465

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             +DD G+ LD +FVVKR  +E Y  EK  Y+L + C  VA HDFF FD+D  + PHIVR+ 
Sbjct  4466  IDDDGNKLDKFFVVKRTNLEVYNKEKTYYELTKSCGVVAEHDFFTFDIDGSRVPHIVRRN  4525

Query  121   LTEYTMMDLVYALRHFDQNS-EVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             L++YTM+DL YALRHFD+N   +L  IL +Y  C  +YF  K W+DFVENP +I +Y KL
Sbjct  4526  LSKYTMLDLCYALRHFDRNDCSILCEILCEYADCKESYFSKKDWYDFVENPDIINIYKKL  4585

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             G    +A+LNTV F D +V+ GLVGVLTLDNQDL G+WYDFGDF+ T PG GVA+ DSYY
Sbjct  4586  GPIFNRALLNTVIFADTLVEVGLVGVLTLDNQDLYGQWYDFGDFIQTAPGFGVAVADSYY  4645

Query  240   SYLMPVLSMTDCLAAETHRDCDF--NKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHA  297
             SY+MP+L+M   L      DC+   N    ++ L +YDFTDYK++LF KYFKYW   YH 
Sbjct  4646  SYMMPMLTMCHVL------DCELFVNDSYRQFDLVQYDFTDYKLELFNKYFKYWGMKYHP  4699

Query  298   NCVNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMN  357
             N V+C +DRC++HCANFN+LF+M +P TCFGP+VR+IFVDGVPFVVS GYHYKELG+VMN
Sbjct  4700  NTVDCDNDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMN  4759

Query  358   MDVSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFN  417
             +DV  HR+RLSLK+L++YAADPAMH+AS++A LDLRT CFSVAA+T+G+ FQTV+PGNFN
Sbjct  4760  LDVDTHRYRLSLKDLLLYAADPAMHVASASALLDLRTCCFSVAAITSGIKFQTVKPGNFN  4819

Query  418   QDFYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVV  477
             QDFY+FV SKG FKEGS+V LKHFFF QDGNAAITDYNYY YNLPTM DIKQ+LF +EVV
Sbjct  4820  QDFYEFVKSKGLFKEGSTVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVV  4879

Query  478   NKYFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVI  537
              KYFEIYDGGC+ AS+V+VNN DKSAG+PFNKFGKAR+YYE++S++EQ+E++A TKRNV+
Sbjct  4880  YKYFEIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQNEIYAYTKRNVL  4939

Query  538   PTMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYG  597
             PT+TQMNLKYAISAKNRARTVAGVSILSTMT R +HQK LKS+AATRG   VIGTTKFYG
Sbjct  4940  PTLTQMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYG  4999

Query  598   GWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLA  657
             GWD ML+ L KDVDNP LMGWDYPKCDRAMPN+ RI +SL+LARKH  CC+  DRFYRLA
Sbjct  5000  GWDDMLRHLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEFCCSHGDRFYRLA  5059

Query  658   NECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIV  717
             NECAQVLSE V+CGG YYVKPGGTSSGDATTA+ANSVFNI QA TANV +LM  NG+KI 
Sbjct  5060  NECAQVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVTANVCSLMACNGHKIE  5119

Query  718   DKEVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYI  777
             D  ++++Q  LY NVYR+   D  FV++YY FL KHFSMMILSDDGVVCYNSDYA KGYI
Sbjct  5120  DLSIRNLQKRLYSNVYRTDYVDYTFVNEYYEFLCKHFSMMILSDDGVVCYNSDYANKGYI  5179

Query  778   AGIQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSR  837
             A I  F++ LYYQNNVFMSE+KCWVE D+  GPHEFCSQHT+ +K   D  +LPYPDPSR
Sbjct  5180  ANISAFQQVLYYQNNVFMSESKCWVENDITNGPHEFCSQHTMLVKIDGDYVYLPYPDPSR  5239

Query  838   ILSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLT  897
             IL AGCFVDD++KTD  L++ERFVSLAIDAYPL  HE+ EYQ VF VYL+YI+KLY DL 
Sbjct  5240  ILGAGCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNDLG  5299

Query  898   GHMLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
               +LDSYSV+L   +  KF EE+FY+++Y     +Q
Sbjct  5300  TQILDSYSVILSTCDGLKFTEESFYKNMYLKSAVMQ  5335



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Host translation inhibitor nsp1; Short=nsp1; AltName: Full=p28; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p65; Contains: RecName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=p210; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; AltName: Full=p44; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p27; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p10; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p22; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p12; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p15; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p67; Contains: RecName: Full=Guanine-N7 methyltransferase; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p35; Contains: RecName: Full=2'-O-methyltransferase; AltName: Full=nsp16 [Bovine coronavirus Mebus]
Sequence ID: P0C6W9.1 Length: 7094 
Range 1: 4370 to 5297

Score:1331 bits(3444), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:633/935(68%), Positives:752/935(80%), Gaps:9/935(0%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             SKD+NFL RVRG+ V+AR+ PC+SGLSTDV  RAFDICN  A VAGIG + K N CRF  
Sbjct  4370  SKDTNFLNRVRGTSVDARLVPCASGLSTDVQLRAFDICN--ASVAGIGLHLKVNCCRFQR  4427

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             +D+ G  LD +FVVKR  +  Y  E  CY+ ++DC  VA HDFF FDV+  + PHIVR+ 
Sbjct  4428  VDENGDKLDQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKD  4487

Query  121   LTEYTMMDLVYALRHFDQNSEVLKA-ILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             LT+YTM+DL YALRHFD+N  +L   IL  Y  C+ +YF  K W+DFVENP +I VY KL
Sbjct  4488  LTKYTMLDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKL  4547

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             G    +A+++  +F D +V+ GLVG+LTLDNQDLNGKWYDFGD+VI  PG GVAI DSYY
Sbjct  4548  GPIFNRALVSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYY  4607

Query  240   SYLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANC  299
             SY+MP+L+M   L  E +     N     + L +YDFTDYK++LF KYFK+W   YH N 
Sbjct  4608  SYMMPMLTMCHALDCELY----VNNAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNT  4663

Query  300   VNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMD  359
             V+C DDRC++ CANFN+LF+M +P TCFGP+VR+IFVDGVPFVVS GYHYKELG+VMNMD
Sbjct  4664  VDCQDDRCIIRCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMD  4723

Query  360   VSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQD  419
             V  HR+RLSLK+L++YAADPA+H+AS++A  DLRT CFSVAA+T+G+ FQTV+PGNFNQD
Sbjct  4724  VDTHRYRLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQD  4783

Query  420   FYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNK  479
             FYDF++SKG  KEGSSV LKHFFF QDGNAAITDYNYY YNLPTM DIKQ+LF +EVV K
Sbjct  4784  FYDFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYK  4843

Query  480   YFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPT  539
             YFEIYDGGC+ AS+V+VNN DKSAG+PFNKFGKAR+YYE++S++EQDE++A TKRNV+PT
Sbjct  4844  YFEIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPT  4903

Query  540   MTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGW  599
             +TQMNLKYAISAKNRARTVAGVSILSTMT R +HQK LKS+AATRG   VIGTTKFYGGW
Sbjct  4904  LTQMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGW  4963

Query  600   DFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANE  659
             D ML+ L KDVDNP LMGWDYPKCDRAMPN+ RI +SL+LARKH  CC+  DRFYRLANE
Sbjct  4964  DDMLRRLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACCSQSDRFYRLANE  5023

Query  660   CAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDK  719
              AQVLSE V+CGG YYVKPGGTSSGDATTA+ANSVFNI QA +ANV ALM  NGNKI D 
Sbjct  5024  YAQVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDL  5083

Query  720   EVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAG  779
              ++ +Q  LY +VYRS   D  FV +YY FLNKHFSMMILSDDGVVCYNSDYA+KGYIA 
Sbjct  5084  SIRALQKRLYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIAN  5143

Query  780   IQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIK-DGDDGYFLPYPDPSRI  838
             I  F++ LYYQNNVFMSE+KCWVE D+  GPHEFCSQHT+ +K DGDD Y LPYPDPSRI
Sbjct  5144  ISAFQQVLYYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDDVY-LPYPDPSRI  5202

Query  839   LSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTG  898
             L AGCFVDD++KTD  L++ERFVSLAIDAYPL  HE+ EYQ VF VYL+YI+KLY +L  
Sbjct  5203  LGAGCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNELGN  5262

Query  899   HMLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
              +LDSYSV+L   +  KF +E+FY+++Y     +Q
Sbjct  5263  QILDSYSVILSTCDGQKFTDESFYKNMYLRSAVMQ  5297



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p87; Contains: RecName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=p195; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; AltName: Full=p41; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p33; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; AltName: Full=p34; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p9; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p24; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p10; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p16; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p68; Contains: RecName: Full=Exoribonuclease; Short=ExoN; AltName: Full=nsp14; AltName: Full=p58; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p39; Contains: RecName: Full=Putative 2'-O-methyl transferase; AltName: Full=nsp16; AltName: Full=p35 [Avian infectious bronchitis virus (strain Beaudette)]
Sequence ID: P0C6Y1.1 Length: 6629 
Range 1: 3937 to 4868

Score:1164 bits(3010), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:563/940(60%), Positives:720/940(76%), Gaps:17/940(1%)

Query  3     DSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVELD  62
             D N+L RVRGS   AR+ P +SG   DVV RAFD+CN ++  AG+ +  K N  RF EL 
Sbjct  3937  DKNYLNRVRGS-SEARLIPLASGCDPDVVKRAFDVCNKES--AGMFQNLKRNCARFQELR  3993

Query  63    DQG----HHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVR  118
             D       +LDSYFVVK+ T  NYE EK CY+ L+  +  A HDFF+F+ +     +I R
Sbjct  3994  DTEDGNLEYLDSYFVVKQTTPSNYEHEKSCYEDLKS-EVTADHDFFVFNKN---IYNISR  4049

Query  119   QRLTEYTMMDLVYALRHFD-QNSEVLKAILVKYGCCD----VTYFENKLWFDFVENPSVI  173
             QRLT+YTMMD  YALRHFD ++ EVLK ILV YGC +      + ENK W+D +EN    
Sbjct  4050  QRLTKYTMMDFCYALRHFDPKDCEVLKEILVTYGCIEDYHPKWFEENKDWYDPIENSKYY  4109

Query  174   GVYHKLGERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVA  233
              +  K+G  VR+A+LN ++F + MV+ G VGV+TLDNQDLNGK+YDFGDF  T PG+GV 
Sbjct  4110  VMLAKMGPIVRRALLNAIEFGNLMVEKGYVGVITLDNQDLNGKFYDFGDFQKTAPGAGVP  4169

Query  234   IVDSYYSYLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQ  293
             + D+YYSY+MP+++MTD LA E + + D +K    + L +YD+T+ K +LF+KYFKYWDQ
Sbjct  4170  VFDTYYSYMMPIIAMTDALAPERYFEYDVHKGYKSYDLLKYDYTEEKQELFQKYFKYWDQ  4229

Query  294   TYHANCVNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELG  353
              YH NC +C+DDRC++HCANFN+LF+  +P+T FG + RK+FVDGVPF+ +CGYH KELG
Sbjct  4230  EYHPNCRDCSDDRCLIHCANFNILFSTLIPQTSFGNLCRKVFVDGVPFIATCGYHSKELG  4289

Query  354   LVMNMDVSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRP  413
             ++MN D ++   ++ L +LM +  DPA+ + +SN  +DLRTSCFSV ALT+G+T QTV+P
Sbjct  4290  VIMNQDNTMSFSKMGLSQLMQFVGDPALLVGTSNNLVDLRTSCFSVCALTSGITHQTVKP  4349

Query  414   GNFNQDFYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFC  473
             G+FN+DFYDF    G FKEGSS+ LKHFF+ Q GNAAI DY+YY YN PTM DI Q+LFC
Sbjct  4350  GHFNKDFYDFAEKAGMFKEGSSIPLKHFFYPQTGNAAINDYDYYRYNRPTMFDICQLLFC  4409

Query  474   MEVVNKYFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTK  533
             +EV +KYFE Y+GGC+ AS+VVVNNLDKSAG+PFNKFGKAR+YYE MS +EQD+LF +TK
Sbjct  4410  LEVTSKYFECYEGGCIPASQVVVNNLDKSAGYPFNKFGKARLYYE-MSLEEQDQLFEITK  4468

Query  534   RNVIPTMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTT  593
             +NV+PT+TQMNLKYAISAKNRARTVAGVSILSTMTNRQ+HQK+LKS+  TR A+ VIGTT
Sbjct  4469  KNVLPTITQMNLKYAISAKNRARTVAGVSILSTMTNRQFHQKILKSIVNTRNASVVIGTT  4528

Query  594   KFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRF  653
             KFYGGWD ML+ L + V++P LMGWDYPKCDRAMPN+ RI ASL+LARKH  CC+  +R 
Sbjct  4529  KFYGGWDNMLRNLIQGVEDPILMGWDYPKCDRAMPNLLRIAASLVLARKHTNCCSWSERI  4588

Query  654   YRLANECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANG  713
             YRL NECAQVLSE VL  GG YVKPGGTSSGDATTAYANSVFNI+QAT+ANV+ L+    
Sbjct  4589  YRLYNECAQVLSETVLATGGIYVKPGGTSSGDATTAYANSVFNIIQATSANVARLLSVIT  4648

Query  714   NKIVDKEVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAA  773
               IV   +K +Q++LY  VYR  + DP FV+K+Y++L K+FS+MILSDDGVVCYN+  A 
Sbjct  4649  RDIVYDNIKSLQYELYQQVYRRVNFDPAFVEKFYSYLCKNFSLMILSDDGVVCYNNTLAK  4708

Query  774   KGYIAGIQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYP  833
             +G +A I  F+E LYYQNNVFM+++KCWVE DL+KGPHEFCSQHT+ ++   +  +LPYP
Sbjct  4709  QGLVADISGFREVLYYQNNVFMADSKCWVEPDLEKGPHEFCSQHTMLVEVDGEPKYLPYP  4768

Query  834   DPSRILSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLY  893
             DPSRIL A  FVDD+ KT+   ++ER+++LAIDAYPL  HE+ EY+ VF+V L YI KLY
Sbjct  4769  DPSRILGACVFVDDVDKTEPVAVMERYIALAIDAYPLVHHENEEYKKVFFVLLAYIRKLY  4828

Query  894   KDLTGHMLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
             ++L+ +ML  YS ++  D  +KFWE+ FY ++Y +PTTLQ
Sbjct  4829  QELSQNMLMDYSFVMDIDKGSKFWEQEFYENMYRAPTTLQ  4868



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p87; Contains: RecName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=p195; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; AltName: Full=p41; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p33; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; AltName: Full=p34; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p9; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p24; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p10; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p16; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p68; Contains: RecName: Full=Exoribonuclease; Short=ExoN; AltName: Full=nsp14; AltName: Full=p58; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p39; Contains: RecName: Full=Putative 2'-O-methyl transferase; AltName: Full=nsp16; AltName: Full=p35 [Avian infectious bronchitis virus (strain Beaudette CK)]
Sequence ID: P0C6Y2.1 Length: 6629 
Range 1: 3937 to 4868

Score:1164 bits(3010), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:563/940(60%), Positives:720/940(76%), Gaps:17/940(1%)

Query  3     DSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVELD  62
             D N+L RVRGS   AR+ P +SG   DVV RAFD+CN ++  AG+ +  K N  RF EL 
Sbjct  3937  DKNYLNRVRGS-SEARLIPLASGCDPDVVKRAFDVCNKES--AGMFQNLKRNCARFQELR  3993

Query  63    DQG----HHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVR  118
             D       +LDSYFVVK+ T  NYE EK CY+ L+  +  A HDFF+F+ +     +I R
Sbjct  3994  DTEDGNLEYLDSYFVVKQTTPSNYEHEKSCYEDLKS-EVTADHDFFVFNKN---IYNISR  4049

Query  119   QRLTEYTMMDLVYALRHFD-QNSEVLKAILVKYGCCD----VTYFENKLWFDFVENPSVI  173
             QRLT+YTMMD  YALRHFD ++ EVLK ILV YGC +      + ENK W+D +EN    
Sbjct  4050  QRLTKYTMMDFCYALRHFDPKDCEVLKEILVTYGCIEDYHPKWFEENKDWYDPIENSKYY  4109

Query  174   GVYHKLGERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVA  233
              +  K+G  VR+A+LN ++F + MV+ G VGV+TLDNQDLNGK+YDFGDF  T PG+GV 
Sbjct  4110  VMLAKMGPIVRRALLNAIEFGNLMVEKGYVGVITLDNQDLNGKFYDFGDFQKTAPGAGVP  4169

Query  234   IVDSYYSYLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQ  293
             + D+YYSY+MP+++MTD LA E + + D +K    + L +YD+T+ K +LF+KYFKYWDQ
Sbjct  4170  VFDTYYSYMMPIIAMTDALAPERYFEYDVHKGYKSYDLLKYDYTEEKQELFQKYFKYWDQ  4229

Query  294   TYHANCVNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELG  353
              YH NC +C+DDRC++HCANFN+LF+  +P+T FG + RK+FVDGVPF+ +CGYH KELG
Sbjct  4230  EYHPNCRDCSDDRCLIHCANFNILFSTLIPQTSFGNLCRKVFVDGVPFIATCGYHSKELG  4289

Query  354   LVMNMDVSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRP  413
             ++MN D ++   ++ L +LM +  DPA+ + +SN  +DLRTSCFSV ALT+G+T QTV+P
Sbjct  4290  VIMNQDNTMSFSKMGLSQLMQFVGDPALLVGTSNNLVDLRTSCFSVCALTSGITHQTVKP  4349

Query  414   GNFNQDFYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFC  473
             G+FN+DFYDF    G FKEGSS+ LKHFF+ Q GNAAI DY+YY YN PTM DI Q+LFC
Sbjct  4350  GHFNKDFYDFAEKAGMFKEGSSIPLKHFFYPQTGNAAINDYDYYRYNRPTMFDICQLLFC  4409

Query  474   MEVVNKYFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTK  533
             +EV +KYFE Y+GGC+ AS+VVVNNLDKSAG+PFNKFGKAR+YYE MS +EQD+LF +TK
Sbjct  4410  LEVTSKYFECYEGGCIPASQVVVNNLDKSAGYPFNKFGKARLYYE-MSLEEQDQLFEITK  4468

Query  534   RNVIPTMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTT  593
             +NV+PT+TQMNLKYAISAKNRARTVAGVSILSTMTNRQ+HQK+LKS+  TR A+ VIGTT
Sbjct  4469  KNVLPTITQMNLKYAISAKNRARTVAGVSILSTMTNRQFHQKILKSIVNTRNASVVIGTT  4528

Query  594   KFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRF  653
             KFYGGWD ML+ L + V++P LMGWDYPKCDRAMPN+ RI ASL+LARKH  CC+  +R 
Sbjct  4529  KFYGGWDNMLRNLIQGVEDPILMGWDYPKCDRAMPNLLRIAASLVLARKHTNCCSWSERI  4588

Query  654   YRLANECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANG  713
             YRL NECAQVLSE VL  GG YVKPGGTSSGDATTAYANSVFNI+QAT+ANV+ L+    
Sbjct  4589  YRLYNECAQVLSETVLATGGIYVKPGGTSSGDATTAYANSVFNIIQATSANVARLLSVIT  4648

Query  714   NKIVDKEVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAA  773
               IV   +K +Q++LY  VYR  + DP FV+K+Y++L K+FS+MILSDDGVVCYN+  A 
Sbjct  4649  RDIVYDNIKSLQYELYQQVYRRVNFDPAFVEKFYSYLCKNFSLMILSDDGVVCYNNTLAK  4708

Query  774   KGYIAGIQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYP  833
             +G +A I  F+E LYYQNNVFM+++KCWVE DL+KGPHEFCSQHT+ ++   +  +LPYP
Sbjct  4709  QGLVADISGFREVLYYQNNVFMADSKCWVEPDLEKGPHEFCSQHTMLVEVDGEPKYLPYP  4768

Query  834   DPSRILSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLY  893
             DPSRIL A  FVDD+ KT+   ++ER+++LAIDAYPL  HE+ EY+ VF+V L YI KLY
Sbjct  4769  DPSRILGACVFVDDVDKTEPVAVMERYIALAIDAYPLVHHENEEYKKVFFVLLAYIRKLY  4828

Query  894   KDLTGHMLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
             ++L+ +ML  YS ++  D  +KFWE+ FY ++Y +PTTLQ
Sbjct  4829  QELSQNMLMDYSFVMDIDKGSKFWEQEFYENMYRAPTTLQ  4868



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p87; Contains: RecName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=Papain-like proteinase; Short=PL-PRO; AltName: Full=p195; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; AltName: Full=p41; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p33; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; AltName: Full=p34; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p9; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p24; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p10; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p16; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p68; Contains: RecName: Full=Exoribonuclease; Short=ExoN; AltName: Full=nsp14; AltName: Full=p58; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p39; Contains: RecName: Full=Putative 2'-O-methyl transferase; AltName: Full=nsp16; AltName: Full=p35 [Avian infectious bronchitis virus (strain M41)]
Sequence ID: P0C6Y3.1 Length: 6631 
Range 1: 3939 to 4870

Score:1162 bits(3006), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:561/940(60%), Positives:718/940(76%), Gaps:17/940(1%)

Query  3     DSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVELD  62
             D N+L RVRGS   AR+ P ++G   DVV RAFD+CN ++  AG+ +  K N  RF E+ 
Sbjct  3939  DKNYLNRVRGS-SEARLIPLANGCDPDVVKRAFDVCNKES--AGMFQNLKRNCARFQEVR  3995

Query  63    DQG----HHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVR  118
             D       + DSYFVVK+ T  NYE EK CY+ L+  +  A HDFF+F+ +     +I R
Sbjct  3996  DTEDGNLEYCDSYFVVKQTTPSNYEHEKACYEDLKS-EVTADHDFFVFNKN---IYNISR  4051

Query  119   QRLTEYTMMDLVYALRHFD-QNSEVLKAILVKYGCCD----VTYFENKLWFDFVENPSVI  173
             QRLT+YTMMD  YALRHFD ++ EVLK ILV YGC +      + ENK W+D +ENP   
Sbjct  4052  QRLTKYTMMDFCYALRHFDPKDCEVLKEILVTYGCIEDYHPKWFEENKDWYDPIENPKYY  4111

Query  174   GVYHKLGERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVA  233
              +  K+G  VR+A+LN ++F + MV+ G VGV+TLDNQDLNGK+YDFGDF  T PG+GV 
Sbjct  4112  AMLAKMGPIVRRALLNAIEFGNLMVEKGYVGVITLDNQDLNGKFYDFGDFQKTAPGAGVP  4171

Query  234   IVDSYYSYLMPVLSMTDCLAAETHRDCDFNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQ  293
             + D+YYSY+MP+++MTD LA E + + D +K    + L +YD+T+ K  LF+KYFKYWDQ
Sbjct  4172  VFDTYYSYMMPIIAMTDALAPERYFEYDVHKGYKSYDLLKYDYTEEKQDLFQKYFKYWDQ  4231

Query  294   TYHANCVNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELG  353
              YH NC +C+DDRC++HCANFN+LF+  +P+T FG + RK+FVDGVPF+ +CGYH KELG
Sbjct  4232  EYHPNCRDCSDDRCLIHCANFNILFSTLVPQTSFGNLCRKVFVDGVPFIATCGYHSKELG  4291

Query  354   LVMNMDVSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRP  413
             ++MN D ++   ++ L +LM +  DPA+ + +SN  +DLRTSCFSV AL +G+T QTV+P
Sbjct  4292  VIMNQDNTMSFSKMGLSQLMQFVGDPALLVGTSNKLVDLRTSCFSVCALASGITHQTVKP  4351

Query  414   GNFNQDFYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFC  473
             G+FN+DFYDF    G FKEGSS+ LKHFF+ Q GNAAI DY+YY YN PTM DI+Q+LFC
Sbjct  4352  GHFNKDFYDFAEKAGMFKEGSSIPLKHFFYPQTGNAAINDYDYYRYNRPTMFDIRQLLFC  4411

Query  474   MEVVNKYFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTK  533
             +EV +KYFE Y+GGC+ AS+VVVNNLDKSAG+PFNKFGKAR+YYE MS +EQD+LF  TK
Sbjct  4412  LEVTSKYFECYEGGCIPASQVVVNNLDKSAGYPFNKFGKARLYYE-MSLEEQDQLFESTK  4470

Query  534   RNVIPTMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTT  593
             +NV+PT+TQMNLKYAISAKNRARTVAGVSILSTMTNRQ+HQK+LKS+  TR A  VIGTT
Sbjct  4471  KNVLPTITQMNLKYAISAKNRARTVAGVSILSTMTNRQFHQKILKSIVNTRNAPVVIGTT  4530

Query  594   KFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRF  653
             KFYGGWD ML+ L + V++P LMGWDYPKCDRAMPN+ RI ASL+LARKH  CCT  +R 
Sbjct  4531  KFYGGWDNMLRNLIQGVEDPILMGWDYPKCDRAMPNLLRIAASLVLARKHTNCCTWSERV  4590

Query  654   YRLANECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANG  713
             YRL NECAQVLSE VL  GG YVKPGGTSSGDATTAYANSVFNI+QAT+ANV+ L+    
Sbjct  4591  YRLYNECAQVLSETVLATGGIYVKPGGTSSGDATTAYANSVFNIIQATSANVARLLSVIT  4650

Query  714   NKIVDKEVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAA  773
               IV  ++K +Q++LY  VYR  + DP FV+K+Y++L K+FS+MILSDDGVVCYN+  A 
Sbjct  4651  RDIVYDDIKSLQYELYQQVYRRVNFDPAFVEKFYSYLCKNFSLMILSDDGVVCYNNTLAK  4710

Query  774   KGYIAGIQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYP  833
             +G +A I  F+E LYYQNNVFM+++KCWVE DL+KGPHEFCSQHT+ ++   +  +LPYP
Sbjct  4711  QGLVADISGFREVLYYQNNVFMADSKCWVEPDLEKGPHEFCSQHTMLVEVDGEPRYLPYP  4770

Query  834   DPSRILSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLY  893
             DPSRIL A  FVDD+ KT+   ++ER+++LAIDAYPL  HE+ EY+ VF+V L YI KLY
Sbjct  4771  DPSRILCACVFVDDLDKTESVAVMERYIALAIDAYPLVHHENEEYKKVFFVLLSYIRKLY  4830

Query  894   KDLTGHMLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
             ++L+ +ML  YS ++  D  +KFWE+ FY ++Y +PTTLQ
Sbjct  4831  QELSQNMLMDYSFVMDIDKGSKFWEQEFYENMYRAPTTLQ  4870



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Non-structural protein 1; Short=nsp1; AltName: Full=p9; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p87; Contains: RecName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=PL1-PRO/PL2-PRO; AltName: Full=PLP1/PLP2; AltName: Full=Papain-like proteinases 1/2; AltName: Full=p195; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p34; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p5; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p23; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p12; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p14; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p66; AltName: Full=p66-HEL; Contains: RecName: Full=Exoribonuclease; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; Contains: RecName: Full=Putative 2'-O-methyl transferase; AltName: Full=nsp16 [Scotophilus bat coronavirus 512]
Sequence ID: P0C6W0.1 Length: 6793 
Range 1: 4112 to 5038

Score:1159 bits(2998), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:565/935(60%), Positives:708/935(75%), Gaps:10/935(1%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             S DS +L RVRGS   AR+EP + G  T  VFRAFD+  Y   VA I K+ K N  R   
Sbjct  4112  SVDSGYLNRVRGSSA-ARLEPLN-GSDTHHVFRAFDV--YNRDVACISKFLKVNCVRLKN  4167

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             LD      D++++VK+ T    E E+  Y+L+ DC AVA HDFF +   +    ++ RQ 
Sbjct  4168  LDKH----DAFWIVKKCTKSVMEHEQSIYNLISDCGAVAKHDFFTWKEGRSVYGNVCRQD  4223

Query  121   LTEYTMMDLVYALRHFDQNS-EVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             LTEYTMMDL YALR+FD+N+ E LK ILV  G CD +YF+NKLWFD VEN  V  VY KL
Sbjct  4224  LTEYTMMDLCYALRNFDENNCETLKKILVVVGACDESYFDNKLWFDPVENEDVHRVYAKL  4283

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             G  V +A+L  VK+CD MV+ G+VGV+TLDNQDLNG +YDFGDFV +  G GV I  SYY
Sbjct  4284  GTIVARAMLKCVKYCDAMVEQGIVGVITLDNQDLNGDFYDFGDFVTSVKGMGVPICTSYY  4343

Query  240   SYLMPVLSMTDCLAAETHRDCD-FNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHAN  298
             SY+MPV+ MT+CLA+E     D F +    + L  YDFT++KV LF KYFK+W QTYH N
Sbjct  4344  SYMMPVMGMTNCLASECFIKSDIFGEDFRTFDLLAYDFTEHKVNLFNKYFKHWGQTYHPN  4403

Query  299   CVNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNM  358
             C +C D+ C++HCANFN LFA T+P T FGP+ RK ++DGVP V + GYH+K+LG+V N 
Sbjct  4404  CEDCHDESCIVHCANFNTLFATTIPITAFGPLCRKCWIDGVPLVTTAGYHFKQLGIVWNK  4463

Query  359   DVSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQ  418
             D++LH  RL++ EL+ + ADP++ IASS A +D RT CFSVAAL TG+T QTV+PG+FN+
Sbjct  4464  DLNLHSSRLTINELLQFCADPSLLIASSPALVDKRTVCFSVAALGTGMTNQTVKPGHFNR  4523

Query  419   DFYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVN  478
             +FYDF+ S+GFF+EGS +TLKHFFFAQ G+AA+ D++YY YN  T+ DI Q     ++V 
Sbjct  4524  EFYDFLRSQGFFEEGSELTLKHFFFAQKGDAAVRDFDYYRYNRTTVLDICQARVVYQIVQ  4583

Query  479   KYFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIP  538
              YF +Y+GGC+ A EV+VNNL+KSAG+PFNKFGKA +YY+S+SY+EQD+L+A TKRN+IP
Sbjct  4584  CYFGMYEGGCITAKEVIVNNLNKSAGYPFNKFGKAGLYYDSLSYEEQDDLYAYTKRNIIP  4643

Query  539   TMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGG  598
             TMTQ+NLKYAIS K+RARTV GVS+LSTMT RQYHQK LKS+  TRGA+ VIGTTKFYGG
Sbjct  4644  TMTQLNLKYAISGKDRARTVGGVSLLSTMTTRQYHQKHLKSIVNTRGASVVIGTTKFYGG  4703

Query  599   WDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLAN  658
             WD MLKTL KDV+NPHLMGWDYPKCDRA+PNM R+ +++IL  KH  CC++ DR+YRL N
Sbjct  4704  WDNMLKTLIKDVENPHLMGWDYPKCDRALPNMIRMISAMILGSKHVNCCSSSDRYYRLCN  4763

Query  659   ECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVD  718
             E AQVL+E V   GG+YVKPGGT+SGDATTAYANSVFNI QAT+ANV+ L+  + N   +
Sbjct  4764  ELAQVLTEMVYSNGGFYVKPGGTTSGDATTAYANSVFNIFQATSANVNRLLSVDSNTCNN  4823

Query  719   KEVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIA  778
              EVK +Q  LY   YRS+S D  FV++Y+ +L KHFSMMILSDDGVVCYNS+YAA GY+A
Sbjct  4824  IEVKQLQRKLYDCCYRSSSVDQSFVEEYFGYLRKHFSMMILSDDGVVCYNSEYAALGYVA  4883

Query  779   GIQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRI  838
              +  FK  LYYQNNVFMS +KCW+E D+ KGPHEFCSQHT+ I D D  Y+LPYPDPSRI
Sbjct  4884  DLNAFKAVLYYQNNVFMSASKCWIEPDINKGPHEFCSQHTMQIVDKDGTYYLPYPDPSRI  4943

Query  839   LSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTG  898
             LSAG FVDDIVKTD  +++ER+VSLAIDAYPL+KH++ EY+ VF V L +++ LYK L  
Sbjct  4944  LSAGVFVDDIVKTDPVILLERYVSLAIDAYPLSKHDNPEYRRVFTVMLDWVKHLYKTLNQ  5003

Query  899   HMLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
              +LDS+SV L  D +AKFW+E+FY  +Y   + LQ
Sbjct  5004  GVLDSFSVTLLEDATAKFWDESFYASMYEQSSVLQ  5038



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Non-structural protein 1; Short=nsp1; AltName: Full=p9; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p87; Contains: RecName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=PL1-PRO/PL2-PRO; AltName: Full=PLP1/PLP2; AltName: Full=Papain-like proteinases 1/2; AltName: Full=p195; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p34; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p5; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p23; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p12; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p14; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p66; AltName: Full=p66-HEL; Contains: RecName: Full=Exoribonuclease; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; Contains: RecName: Full=Putative 2'-O-methyl transferase; AltName: Full=nsp16 [Porcine epidemic diarrhea virus CV777]
Sequence ID: P0C6Y4.1 Length: 6781 
Range 1: 4101 to 5027

Score:1147 bits(2967), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:553/935(59%), Positives:702/935(75%), Gaps:10/935(1%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             S D  +L RVRGS   AR+EPC+ G  T  V+RAFDI  Y   VA +GK+ K N  R   
Sbjct  4101  STDMAYLNRVRGSSA-ARLEPCN-GTDTQHVYRAFDI--YNKDVACLGKFLKVNCVRLKN  4156

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             LD      D+++VVKR T    E E+  Y  L  C A+A HDFF +   +    ++ R+ 
Sbjct  4157  LDKH----DAFYVVKRCTKSAMEHEQSIYSRLEKCGAIAEHDFFTWKDGRAIYGNVCRKD  4212

Query  121   LTEYTMMDLVYALRHFDQNS-EVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             LTEYTMMDL YALR+FD+N+ +VLK+IL+K G C+ +YF NK+WFD VEN  +  VY  L
Sbjct  4213  LTEYTMMDLCYALRNFDENNCDVLKSILIKVGACEESYFNNKVWFDPVENEDIHRVYALL  4272

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             G  V +A+L  VKFCD MV+ G+VGV+TLDNQDLNG +YDFGDF  +  G GV I  SYY
Sbjct  4273  GTIVARAMLKCVKFCDAMVEQGIVGVVTLDNQDLNGDFYDFGDFTCSIKGMGVPICTSYY  4332

Query  240   SYLMPVLSMTDCLAAETHRDCD-FNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHAN  298
             SY+MPV+ MT+CLA+E     D F +    + L EYDFT++K  LF KYFKYW   YH N
Sbjct  4333  SYMMPVMGMTNCLASECFVKSDIFGEDFKSYDLLEYDFTEHKTALFNKYFKYWGLQYHPN  4392

Query  299   CVNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNM  358
             CV+C+D++C++HCANFN LF+ T+P T FGP+ RK ++DGVP V + GYH+K+LG+V N 
Sbjct  4393  CVDCSDEQCIVHCANFNTLFSTTIPITAFGPLCRKCWIDGVPLVTTAGYHFKQLGIVWNN  4452

Query  359   DVSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQ  418
             D++LH  RLS+ EL+ + +DPA+ IASS A +D RT CFSVAAL TG+T QTV+PG+FN+
Sbjct  4453  DLNLHSSRLSINELLQFCSDPALLIASSPALVDQRTVCFSVAALGTGMTNQTVKPGHFNK  4512

Query  419   DFYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVN  478
             +FYDF++ +GFF EGS +TLKHFFFAQ  +AA+ D++YY YN PT+ DI Q     ++V 
Sbjct  4513  EFYDFLLEQGFFSEGSELTLKHFFFAQKVDAAVKDFDYYRYNRPTVLDICQARVVYQIVQ  4572

Query  479   KYFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIP  538
             +YF+IY+GGC+ A EVVV NL+KSAG+P NKFGKA +YYES+SY+EQDEL+A TKRN++P
Sbjct  4573  RYFDIYEGGCITAKEVVVTNLNKSAGYPLNKFGKAGLYYESLSYEEQDELYAYTKRNILP  4632

Query  539   TMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGG  598
             TMTQ+NLKYAIS K RARTV GVS+LSTMT RQYHQK LKS+  TRGA+ VIGTTKFYGG
Sbjct  4633  TMTQLNLKYAISGKERARTVGGVSLLSTMTTRQYHQKHLKSIVNTRGASVVIGTTKFYGG  4692

Query  599   WDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLAN  658
             WD MLK L   V+NP LMGWDYPKCDRA+PNM R+ +++IL  KH TCC++ DRF+RL N
Sbjct  4693  WDNMLKNLIDGVENPCLMGWDYPKCDRALPNMIRMISAMILGSKHTTCCSSTDRFFRLCN  4752

Query  659   ECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVD  718
             E AQVL+E V   GG+Y+KPGGT+SGDATTAYANSVFNI QA +ANV+ L+  + N   +
Sbjct  4753  ELAQVLTEVVYSNGGFYLKPGGTTSGDATTAYANSVFNIFQAVSANVNKLLSVDSNVCHN  4812

Query  719   KEVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIA  778
              EVK +Q  LY   YRST  D +FV +YY +L KHFSMMILSDDGVVCYN+DYA+ GY+A
Sbjct  4813  LEVKQLQRKLYECCYRSTIVDDQFVVEYYGYLRKHFSMMILSDDGVVCYNNDYASLGYVA  4872

Query  779   GIQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRI  838
              +  FK  LYYQNNVFMS +KCW+E D+ KGPHEFCSQHT+ I D +  Y+LPYPDPSRI
Sbjct  4873  DLNAFKAVLYYQNNVFMSASKCWIEPDINKGPHEFCSQHTMQIVDKEGTYYLPYPDPSRI  4932

Query  839   LSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTG  898
             LSAG FVDD+VKTD  +++ER+VSLAIDAYPL+KHE+ EY+ VF+V L +++ LYK L  
Sbjct  4933  LSAGVFVDDVVKTDAVVLLERYVSLAIDAYPLSKHENPEYKKVFYVLLDWVKHLYKTLNA  4992

Query  899   HMLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
              +L+S+SV L  D++AKFW+E+FY ++Y     LQ
Sbjct  4993  GVLESFSVTLLEDSTAKFWDESFYANMYEKSAVLQ  5027



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Non-structural protein 1; Short=nsp1; AltName: Full=p9; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p87; Contains: RecName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=PL1-PRO/PL2-PRO; AltName: Full=PLP1/PLP2; AltName: Full=Papain-like proteinases 1/2; AltName: Full=p195; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p34; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p5; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p23; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p12; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p14; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p66; AltName: Full=p66-HEL; Contains: RecName: Full=Exoribonuclease; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p41; Contains: RecName: Full=Putative 2'-O-methyl transferase; AltName: Full=nsp16 [Porcine transmissible gastroenteritis coronavirus strain Purdue]
Sequence ID: P0C6Y5.1 Length: 6684 
Range 1: 4003 to 4927

Score:1140 bits(2949), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:567/933(61%), Positives:694/933(74%), Gaps:10/933(1%)

Query  3     DSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVELD  62
             D ++L RVRGS   AR+EPC+ G   D V RAFDI  Y   VA IGK+ KTN  RF  LD
Sbjct  4003  DQSYLNRVRGSSA-ARLEPCN-GTDPDHVSRAFDI--YNKDVACIGKFLKTNCSRFRNLD  4058

Query  63    DQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQRLT  122
                   D+Y++VKR T    + E+ CY+ L+D  AVA HDFF +   + +  ++ R+ LT
Sbjct  4059  KH----DAYYIVKRCTKTVMDHEQVCYNDLKDSGAVAEHDFFTYKEGRCEFGNVARRNLT  4114

Query  123   EYTMMDLVYALRHFDQ-NSEVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKLGE  181
             +YTMMDL YA+R+FD+ N EVLK ILV  G C   +FENK WFD VEN ++  VY KLG 
Sbjct  4115  KYTMMDLCYAIRNFDEKNCEVLKEILVTVGACTEEFFENKDWFDPVENEAIHEVYAKLGP  4174

Query  182   RVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYYSY  241
              V  A+L  V FCD +V+ G +GV+TLDNQDLNG +YDFGDFV T PG G A V SYYSY
Sbjct  4175  IVANAMLKCVAFCDAIVEKGYIGVITLDNQDLNGNFYDFGDFVKTAPGFGCACVTSYYSY  4234

Query  242   LMPVLSMTDCLAAETHRDCD-FNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANCV  300
             +MP++ MT CL +E     D +     ++ L  YDFT++K  LF+KYFKYWD+TYH NC 
Sbjct  4235  MMPLMGMTSCLESENFVKSDIYGSDYKQYDLLAYDFTEHKEYLFQKYFKYWDRTYHPNCS  4294

Query  301   NCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMDV  360
             +CT D C++HCANFN LF+MT+P T FGP+VRK+ +DGVP VV+ GYH+K+LG+V N+DV
Sbjct  4295  DCTSDECIIHCANFNTLFSMTIPMTAFGPLVRKVHIDGVPVVVTAGYHFKQLGIVWNLDV  4354

Query  361   SLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQDF  420
              L   +LS+ +L+ +  DP + +ASS A LD RT CFS+AAL+TG+T+QTV+PG+FN+DF
Sbjct  4355  KLDTMKLSMTDLLRFVTDPTLLVASSPALLDQRTVCFSIAALSTGITYQTVKPGHFNKDF  4414

Query  421   YDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNKY  480
             YDF+  +GFF+EGS +TLKHFFFAQ G AA+TD+NYY YN  T+ DI Q  F  ++V KY
Sbjct  4415  YDFITERGFFEEGSELTLKHFFFAQGGEAAMTDFNYYRYNRVTVLDICQAQFVYKIVGKY  4474

Query  481   FEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPTM  540
             FE YDGGC+NA EVVV N DKSAG+P NKFGKAR+YYE++SY+EQD LFA+TKRNV+PTM
Sbjct  4475  FECYDGGCINAREVVVTNYDKSAGYPLNKFGKARLYYETLSYEEQDALFALTKRNVLPTM  4534

Query  541   TQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGWD  600
             TQMNLKYAIS K RARTV GVS+LSTMT RQYHQK LKS+AATR AT VIG+TKFYGGWD
Sbjct  4535  TQMNLKYAISGKARARTVGGVSLLSTMTTRQYHQKHLKSIAATRNATVVIGSTKFYGGWD  4594

Query  601   FMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANEC  660
              MLK L +DVDN  LMGWDYPKCDRA+PNM R+ +++IL  KH  CCT  DRFYRL+NE 
Sbjct  4595  NMLKNLMRDVDNGCLMGWDYPKCDRALPNMIRMASAMILGSKHVGCCTHNDRFYRLSNEL  4654

Query  661   AQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDKE  720
             AQVL+E V C GG+Y KPGGT+SGD TTAYANS FNI QA +ANV+ L+G + N   +  
Sbjct  4655  AQVLTEVVHCTGGFYFKPGGTTSGDGTTAYANSAFNIFQAVSANVNKLLGVDSNACNNVT  4714

Query  721   VKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAGI  780
             VK +Q  +Y N YRS+S D +FV +Y+++L KHFSMMILSDDGVVCYN DYA  GY+A I
Sbjct  4715  VKSIQRKIYDNCYRSSSIDEEFVVEYFSYLRKHFSMMILSDDGVVCYNKDYADLGYVADI  4774

Query  781   QNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRILS  840
               FK TLYYQNNVFMS +KCWVE DL  GPHEFCSQHTL I   D  Y+LPYPDPSRILS
Sbjct  4775  NAFKATLYYQNNVFMSTSKCWVEPDLSVGPHEFCSQHTLQIVGPDGDYYLPYPDPSRILS  4834

Query  841   AGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGHM  900
             AG FVDDIVKTD  +M+ER+VSLAIDAYPLTKH    YQ VF+  L +++ L K+L   +
Sbjct  4835  AGVFVDDIVKTDNVIMLERYVSLAIDAYPLTKHPKPAYQKVFYTLLDWVKHLQKNLNAGV  4894

Query  901   LDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
             LDS+SV +  +   KFW E FY  LY   T LQ
Sbjct  4895  LDSFSVTMLEEGQDKFWSEEFYASLYEKSTVLQ  4927



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Non-structural protein 1; Short=nsp1; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; Contains: RecName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=PL1-PRO/PL2-PRO; AltName: Full=PLP1/PLP2; AltName: Full=Papain-like proteinases 1/2; AltName: Full=p195; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; Contains: RecName: Full=Non-structural protein 11; Short=nsp11; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; Contains: RecName: Full=Exoribonuclease; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; Contains: RecName: Full=Putative 2'-O-methyl transferase; AltName: Full=nsp16 [Feline infectious peritonitis virus (strain 79-1146)]
Sequence ID: Q98VG9.2 Length: 6709 
Range 1: 4036 to 4952

Score:1130 bits(2922), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:558/924(60%), Positives:688/924(74%), Gaps:9/924(0%)

Query  12    GSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVELDDQGHHLDSY  71
             G +V   +EPC+ G   D V RAFDI  Y   VA IGK+ KTN  RF  LD      D+Y
Sbjct  4036  GVLVQLDLEPCN-GTDPDHVSRAFDI--YNKDVACIGKFLKTNCSRFRNLDKH----DAY  4088

Query  72    FVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQRLTEYTMMDLVY  131
             +VVKR T    + E+ CY+ L+D   VA HDFF++   + +  ++ R+ LT+YTMMDL Y
Sbjct  4089  YVVKRCTKSVMDHEQVCYNDLKDSGVVAEHDFFLYKEGRCEFGNVARKDLTKYTMMDLCY  4148

Query  132   ALRHFDQ-NSEVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKLGERVRQAILNT  190
             A+R+FD+ N EVLK ILV  G C+ ++FENK WFD VEN ++  VY +LG  V  A+L  
Sbjct  4149  AIRNFDEKNCEVLKEILVTLGACNESFFENKDWFDPVENEAIHEVYARLGPIVANAMLKC  4208

Query  191   VKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYYSYLMPVLSMTD  250
             V FCD +V+ G +G++TLDNQDLNG +YDFGDFV T PG G A V SYYSY+MP++ MT 
Sbjct  4209  VAFCDAIVEKGYIGIITLDNQDLNGNFYDFGDFVKTTPGFGCACVTSYYSYMMPLMGMTS  4268

Query  251   CLAAETHRDCD-FNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHANCVNCTDDRCVL  309
             CL +E     D +     ++ L  YDFTD+K +LF KYFK+WD+TYH NC +CT D C++
Sbjct  4269  CLESENFVKSDIYGADYKQYDLLAYDFTDHKEKLFHKYFKHWDRTYHPNCSDCTSDECII  4328

Query  310   HCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNMDVSLHRHRLSL  369
             HCANFN LF+MT+P T FGP+VRK+ +DGVP VV+ GYH+K+LG+V N+DV L   +LS+
Sbjct  4329  HCANFNTLFSMTIPSTAFGPLVRKVHIDGVPVVVTAGYHFKQLGIVWNLDVKLDTMKLSM  4388

Query  370   KELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQDFYDFVVSKGF  429
              +L+ +  DP + +ASS A LD RT CFS+AAL+TG+T+QTV+PG+FN+DFYDF+  +GF
Sbjct  4389  TDLLRFVTDPTLLVASSPALLDQRTVCFSIAALSTGVTYQTVKPGHFNKDFYDFITERGF  4448

Query  430   FKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNKYFEIYDGGCL  489
             F+EGS +TLKHFFFAQ G AA+TD+NYY YN  T+ DI Q  F  ++V KYFE YDGGC+
Sbjct  4449  FEEGSELTLKHFFFAQGGEAAMTDFNYYRYNRVTVLDICQAQFVYKIVGKYFECYDGGCI  4508

Query  490   NASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIPTMTQMNLKYAI  549
             NA EVVV N DKSAG+P NKFGKAR+YYE++SY+EQD LFA+TKRNV+PTMTQMNLKYAI
Sbjct  4509  NAREVVVTNYDKSAGYPLNKFGKARLYYETLSYEEQDALFALTKRNVLPTMTQMNLKYAI  4568

Query  550   SAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGGWDFMLKTLYKD  609
             S K RARTV GVS+LSTMT RQYHQK LKS+AATR AT VIG+TKFYGGWD MLK L +D
Sbjct  4569  SGKARARTVGGVSLLSTMTTRQYHQKHLKSIAATRNATVVIGSTKFYGGWDNMLKNLMRD  4628

Query  610   VDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANECAQVLSEYVL  669
             VDN  LMGWDYPKCDRA+PNM R+ +++IL  KH  CCT  DRFYRL+NE AQVL+E V 
Sbjct  4629  VDNGCLMGWDYPKCDRALPNMIRMASAMILGSKHVGCCTHSDRFYRLSNELAQVLTEVVH  4688

Query  670   CGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVDKEVKDMQFDLY  729
             C GG+Y KPGGT+SGD TTAYANS FNI QA +ANV+ L+G + N   +  VK +Q  +Y
Sbjct  4689  CTGGFYFKPGGTTSGDGTTAYANSAFNIFQAVSANVNKLLGVDSNACNNVTVKSIQRKIY  4748

Query  730   VNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAGIQNFKETLYY  789
              N YRS+S D +FV +Y+++L KHFSMMILSDDGVVCYN DYA  GY+A I  FK TLYY
Sbjct  4749  DNCYRSSSIDEEFVVEYFSYLRKHFSMMILSDDGVVCYNKDYADLGYVADINAFKATLYY  4808

Query  790   QNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRILSAGCFVDDIV  849
             QNNVFMS +KCWVE DL  GPHEFCSQHTL I   D  Y+LPYPDPSRILSAG FVDDIV
Sbjct  4809  QNNVFMSTSKCWVEPDLSVGPHEFCSQHTLQIVGPDGDYYLPYPDPSRILSAGVFVDDIV  4868

Query  850   KTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGHMLDSYSVMLC  909
             KTD  +M+ER+VSLAIDAYPLTKH    YQ VF+  L +++ L K+L   +LDS+SV + 
Sbjct  4869  KTDNVIMLERYVSLAIDAYPLTKHPKPAYQKVFYTLLDWVKHLQKNLNAGVLDSFSVTML  4928

Query  910   GDNSAKFWEEAFYRDLYSSPTTLQ  933
              +   KFW E FY  LY   T LQ
Sbjct  4929  EEGQDKFWSEEFYASLYEKSTVLQ  4952



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Non-structural protein 1; Short=nsp1; AltName: Full=p9; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p87; Contains: RecName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=PL1-PRO/PL2-PRO; AltName: Full=PLP1/PLP2; AltName: Full=Papain-like proteinases 1/2; AltName: Full=p195; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p34; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p5; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p23; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p12; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p16; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p66; AltName: Full=p66-HEL; Contains: RecName: Full=Exoribonuclease; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p41; Contains: RecName: Full=Putative 2'-O-methyl transferase; AltName: Full=nsp16 [Human coronavirus 229E]
Sequence ID: P0C6X1.1 Length: 6758 
Range 1: 4069 to 4995

Score:1113 bits(2879), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:539/935(58%), Positives:681/935(72%), Gaps:10/935(1%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             S D+++L RVRGS   AR+EPC+ G   D   RAFD+ N  A    IGK  K+N  RF  
Sbjct  4069  SFDNSYLNRVRGSSA-ARLEPCN-GTDIDYCVRAFDVYNKDASF--IGKNLKSNCVRFKN  4124

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
             +D      D++++VKR      + E+  Y+LL+ C+AVA HDFF +   +    ++ RQ 
Sbjct  4125  VDKD----DAFYIVKRCIKSVMDHEQSMYNLLKGCNAVAKHDFFTWHEGRTIYGNVSRQD  4180

Query  121   LTEYTMMDLVYALRHFDQ-NSEVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             LT+YTMMDL +ALR+FD+ + EV K ILV  GCC   YFE K WFD +EN  +  VY  L
Sbjct  4181  LTKYTMMDLCFALRNFDEKDCEVFKEILVLTGCCSTDYFEMKNWFDPIENEDIHRVYAAL  4240

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             G+ V  A+L  V FCD MV  G+VGVLTLDNQDLNG +YDFGDFV+  PG G+    SYY
Sbjct  4241  GKVVANAMLKCVAFCDEMVLKGVVGVLTLDNQDLNGNFYDFGDFVLCPPGMGIPYCTSYY  4300

Query  240   SYLMPVLSMTDCLAAETHRDCD-FNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHAN  298
             SY+MPV+ MT+CLA+E     D F +    + L +YDFT++K  LF KYFKYW Q YH +
Sbjct  4301  SYMMPVMGMTNCLASECFMKSDIFGQDFKTFDLLKYDFTEHKEVLFNKYFKYWGQDYHPD  4360

Query  299   CVNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNM  358
             CV+C D+ C+LHC+NFN LFA T+P T FGP+ RK+F+DGVP V + GYH+K+LGLV N 
Sbjct  4361  CVDCHDEMCILHCSNFNTLFATTIPNTAFGPLCRKVFIDGVPVVATAGYHFKQLGLVWNK  4420

Query  359   DVSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQ  418
             DV+ H  RL++ EL+ +  DP + +ASS A +D RT CFSVAAL+TGLT QTV+PG+FN+
Sbjct  4421  DVNTHSTRLTITELLQFVTDPTLIVASSPALVDKRTVCFSVAALSTGLTSQTVKPGHFNK  4480

Query  419   DFYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVN  478
             +FYDF+ S+GFF EGS +TLKHFFF Q G+AAI D++YY YN PTM DI Q     +V  
Sbjct  4481  EFYDFLRSQGFFDEGSELTLKHFFFTQKGDAAIKDFDYYRYNRPTMLDIGQARVAYQVAA  4540

Query  479   KYFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIP  538
             +YF+ Y+GGC+ + EVVV NL+KSAG P NKFGKA +YYES+SY+EQD +F++TKRN++P
Sbjct  4541  RYFDCYEGGCITSREVVVTNLNKSAGWPLNKFGKAGLYYESISYEEQDAIFSLTKRNILP  4600

Query  539   TMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGG  598
             TMTQ+NLKYAIS K RARTV GVS+L+TMT RQ+HQK LKS+ ATR AT VIGTTKFYGG
Sbjct  4601  TMTQLNLKYAISGKERARTVGGVSLLATMTTRQFHQKCLKSIVATRNATVVIGTTKFYGG  4660

Query  599   WDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLAN  658
             WD MLK L  DVD+P LMGWDYPKCDRAMP+M R+ +++IL  KH TCCT  D+FYRL+N
Sbjct  4661  WDNMLKNLMADVDDPKLMGWDYPKCDRAMPSMIRMLSAMILGSKHVTCCTASDKFYRLSN  4720

Query  659   ECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVD  718
             E AQVL+E V   GG+Y KPGGT+SGDATTAYANSVFNI QA ++N++ ++  N +   +
Sbjct  4721  ELAQVLTEVVYSNGGFYFKPGGTTSGDATTAYANSVFNIFQAVSSNINCVLSVNSSNCNN  4780

Query  719   KEVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIA  778
               VK +Q  LY N YR+++ D  FVD +Y +L KHFSMMILSDD VVCYN  YA  GYIA
Sbjct  4781  FNVKKLQRQLYDNCYRNSNVDESFVDDFYGYLQKHFSMMILSDDSVVCYNKTYAGLGYIA  4840

Query  779   GIQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRI  838
              I  FK TLYYQN VFMS AKCW E DL  GPHEFCSQHT+ I D +  Y+LPYPDPSRI
Sbjct  4841  DISAFKATLYYQNGVFMSTAKCWTEEDLSIGPHEFCSQHTMQIVDENGKYYLPYPDPSRI  4900

Query  839   LSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTG  898
             +SAG FVDDI KTD  +++ER+VSLAIDAYPL+KH   EY+ VF+  L +++ L K L  
Sbjct  4901  ISAGVFVDDITKTDAVILLERYVSLAIDAYPLSKHPKPEYRKVFYALLDWVKHLNKTLNE  4960

Query  899   HMLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
              +L+S+SV L  ++ +KFW+E+FY  +Y   T LQ
Sbjct  4961  GVLESFSVTLLDEHESKFWDESFYASMYEKSTVLQ  4995



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Non-structural protein 1; Short=nsp1; AltName: Full=p9; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; AltName: Full=p87; Contains: RecName: Full=Non-structural protein 3; Short=nsp3; AltName: Full=PL1-PRO/PL2-PRO; AltName: Full=PLP1/PLP2; AltName: Full=Papain-like proteinases 1/2; AltName: Full=p195; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; AltName: Full=Peptide HD2; Contains: RecName: Full=3C-like proteinase; Short=3CL-PRO; Short=3CLp; AltName: Full=M-PRO; AltName: Full=nsp5; AltName: Full=p34; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; AltName: Full=p5; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; AltName: Full=p23; Contains: RecName: Full=Non-structural protein 9; Short=nsp9; AltName: Full=p12; Contains: RecName: Full=Non-structural protein 10; Short=nsp10; AltName: Full=Growth factor-like peptide; Short=GFL; AltName: Full=p14; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp13; AltName: Full=p66; AltName: Full=p66-HEL; Contains: RecName: Full=Exoribonuclease; Short=ExoN; AltName: Full=nsp14; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp15; AltName: Full=p41; Contains: RecName: Full=Putative 2'-O-methyl transferase; AltName: Full=nsp16 [Human coronavirus NL63]
Sequence ID: P0C6X5.1 Length: 6729 
Range 1: 4044 to 4970

Score:1111 bits(2873), Expect:0.0, 
Method:Compositional matrix adjust., 
Identities:544/935(58%), Positives:684/935(73%), Gaps:10/935(1%)

Query  1     SKDSNFLKRVRGSIVNARIEPCSSGLSTDVVFRAFDICNYKAKVAGIGKYYKTNTCRFVE  60
             S D ++L R RGS   AR+EPC+ G   D   RAFDI  Y   V+ +GK  K N  RF  
Sbjct  4044  SVDISYLNRARGSSA-ARLEPCN-GTDIDKCVRAFDI--YNKNVSFLGKCLKMNCVRFKN  4099

Query  61    LDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQR  120
              D +    D YFV+KR T    E E+  Y+LL    A+A HDFF +   +V   ++ R  
Sbjct  4100  ADLK----DGYFVIKRCTKSVMEHEQSMYNLLNFSGALAEHDFFTWKDGRVIYGNVSRHN  4155

Query  121   LTEYTMMDLVYALRHFD-QNSEVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKL  179
             LT+YTMMDLVYA+R+FD QN +VLK +LV  GCCD +YF++K W+D VEN  +  VY  L
Sbjct  4156  LTKYTMMDLVYAMRNFDEQNCDVLKEVLVLTGCCDNSYFDSKGWYDPVENEDIHRVYASL  4215

Query  180   GERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQPGSGVAIVDSYY  239
             G+ V +A+L  V  CD MV  G+VGVLTLDNQDLNG +YDFGDFV++ P  GV    SYY
Sbjct  4216  GKIVARAMLKCVALCDAMVAKGVVGVLTLDNQDLNGNFYDFGDFVVSLPNMGVPCCTSYY  4275

Query  240   SYLMPVLSMTDCLAAETHRDCD-FNKPLIEWPLTEYDFTDYKVQLFEKYFKYWDQTYHAN  298
             SY+MP++ +T+CLA+E     D F      + L +YDFT++K  LF KYFK+W   YH N
Sbjct  4276  SYMMPIMGLTNCLASECFVKSDIFGSDFKTFDLLKYDFTEHKENLFNKYFKHWSFDYHPN  4335

Query  299   CVNCTDDRCVLHCANFNVLFAMTMPKTCFGPIVRKIFVDGVPFVVSCGYHYKELGLVMNM  358
             C +C DD CV+HCANFN LFA T+P T FGP+ RK+F+DGVP V + GYH+K+LGLV N 
Sbjct  4336  CSDCYDDMCVIHCANFNTLFATTIPGTAFGPLCRKVFIDGVPLVTTAGYHFKQLGLVWNK  4395

Query  359   DVSLHRHRLSLKELMMYAADPAMHIASSNAFLDLRTSCFSVAALTTGLTFQTVRPGNFNQ  418
             DV+ H  RL++ EL+ +  DP++ IASS A +D RT CFSVAAL+TGLT Q V+PG+FN+
Sbjct  4396  DVNTHSVRLTITELLQFVTDPSLIIASSPALVDQRTICFSVAALSTGLTNQVVKPGHFNE  4455

Query  419   DFYDFVVSKGFFKEGSSVTLKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVN  478
             +FY+F+  +GFF EGS +TLKHFFFAQ+G+AA+ D+++Y YN PT+ DI Q     ++V+
Sbjct  4456  EFYNFLRLRGFFDEGSELTLKHFFFAQNGDAAVKDFDFYRYNKPTILDICQARVTYKIVS  4515

Query  479   KYFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIP  538
             +YF+IY+GGC+ A EVVV NL+KSAG P NKFGKA +YYES+SY+EQD LFA+TKRNV+P
Sbjct  4516  RYFDIYEGGCIKACEVVVTNLNKSAGWPLNKFGKASLYYESISYEEQDALFALTKRNVLP  4575

Query  539   TMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAATRGATCVIGTTKFYGG  598
             TMTQ+NLKYAIS K RARTV GVS+LSTMT RQYHQK LKS+  TR AT VIGTTKFYGG
Sbjct  4576  TMTQLNLKYAISGKERARTVGGVSLLSTMTTRQYHQKHLKSIVNTRNATVVIGTTKFYGG  4635

Query  599   WDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLAN  658
             W+ ML+TL   V+NP LMGWDYPKCDRA+PNM R+ ++++L  KH  CCT  DRFYRL N
Sbjct  4636  WNNMLRTLIDGVENPMLMGWDYPKCDRALPNMIRMISAMVLGSKHVNCCTATDRFYRLGN  4695

Query  659   ECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNILQATTANVSALMGANGNKIVD  718
             E AQVL+E V   GG+Y KPGGT+SGDA+TAYANS+FNI QA ++N++ L+    +   +
Sbjct  4696  ELAQVLTEVVYSNGGFYFKPGGTTSGDASTAYANSIFNIFQAVSSNINRLLSVPSDSCNN  4755

Query  719   KEVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIA  778
               V+D+Q  LY N YR TS +  F+D YY +L KHFSMMILSDDGVVCYN DYA  GYIA
Sbjct  4756  VNVRDLQRRLYDNCYRLTSVEESFIDDYYGYLRKHFSMMILSDDGVVCYNKDYAELGYIA  4815

Query  779   GIQNFKETLYYQNNVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRI  838
              I  FK TLYYQNNVFMS +KCWVE DL KGPHEFCSQHT+ I D D  Y+LPYPDPSRI
Sbjct  4816  DISAFKATLYYQNNVFMSTSKCWVEEDLTKGPHEFCSQHTMQIVDKDGTYYLPYPDPSRI  4875

Query  839   LSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTG  898
             LSAG FVDD+VKTD  +++ER+VSLAIDAYPL+KH + EY+ VF+V L +++ L K+L  
Sbjct  4876  LSAGVFVDDVVKTDAVVLLERYVSLAIDAYPLSKHPNSEYRKVFYVLLDWVKHLNKNLNE  4935

Query  899   HMLDSYSVMLCGDNSAKFWEEAFYRDLYSSPTTLQ  933
              +L+S+SV L  +   KFW E FY  +Y + T LQ
Sbjct  4936  GVLESFSVTLLDNQEDKFWCEDFYASMYENSTILQ  4970



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12 [Rat coronavirus (strain 681)]
Sequence ID: Q9WQ77.1 Length: 307 
Range 1: 1 to 307

Score:499 bits(1284), Expect:3e-171, 
Method:Compositional matrix adjust., 
Identities:232/307(76%), Positives:268/307(87%), Gaps:0/307(0%)

Query  507  FNKFGKARVYYESMSYQEQDELFAMTKRNVIPTMTQMNLKYAISAKNRARTVAGVSILST  566
            FNKFGKAR+YYE++S++EQDE++A TKRNV+PT+TQMNLKYAISAKNRARTVAGVSILST
Sbjct  1    FNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNLKYAISAKNRARTVAGVSILST  60

Query  567  MTNRQYHQKMLKSMAATRGATCVIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRA  626
            MT R +HQK LKS+AATRG   VIGTTKFYGGWD ML+ L KDVD+P LMGWDYPKCDRA
Sbjct  61   MTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRRLIKDVDSPVLMGWDYPKCDRA  120

Query  627  MPNMCRIFASLILARKHGTCCTTRDRFYRLANECAQVLSEYVLCGGGYYVKPGGTSSGDA  686
            MPN+ RI +SL+LARKH +CC+  DRFYRLANECAQVLSE V+CGG YYVKPGGTSSGDA
Sbjct  121  MPNILRIVSSLVLARKHDSCCSHTDRFYRLANECAQVLSEIVMCGGCYYVKPGGTSSGDA  180

Query  687  TTAYANSVFNILQATTANVSALMGANGNKIVDKEVKDMQFDLYVNVYRSTSPDPKFVDKY  746
            TTA+ANSVFNI QA +ANV +LM  NG+KI D  ++++Q  LY NVYR+   DP FV +Y
Sbjct  181  TTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQKRLYSNVYRADHVDPAFVSEY  240

Query  747  YAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAGIQNFKETLYYQNNVFMSEAKCWVETDL  806
            Y FLNKHFSMMILSDDGVVCYNS++A+KGYIA I  F++ LYYQNNVFMSEAKCWVETD+
Sbjct  241  YEFLNKHFSMMILSDDGVVCYNSEFASKGYIANISAFQQVLYYQNNVFMSEAKCWVETDI  300

Query  807  KKGPHEF  813
            +KGPHEF
Sbjct  301  EKGPHEF  307



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp12 [Turkey coronavirus (strain Minnesota)]
Sequence ID: Q9WQ76.1 Length: 306 
Range 1: 1 to 306

Score:450 bits(1158), Expect:2e-152, 
Method:Compositional matrix adjust., 
Identities:212/307(69%), Positives:254/307(82%), Gaps:1/307(0%)

Query  507  FNKFGKARVYYESMSYQEQDELFAMTKRNVIPTMTQMNLKYAISAKNRARTVAGVSILST  566
            FNKFGKAR+YYE MS +EQD+LF  TK+NV+PT+TQMNLKYAISAKNRARTVAGVSILST
Sbjct  1    FNKFGKARLYYE-MSLEEQDQLFESTKKNVLPTITQMNLKYAISAKNRARTVAGVSILST  59

Query  567  MTNRQYHQKMLKSMAATRGATCVIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRA  626
            MTNRQ+HQK+LKS+  TR A  VIGTTKFYGGWD ML+ L + V++P LMGWDYPKCDRA
Sbjct  60   MTNRQFHQKILKSIVNTRNAPVVIGTTKFYGGWDNMLRNLIQGVEDPILMGWDYPKCDRA  119

Query  627  MPNMCRIFASLILARKHGTCCTTRDRFYRLANECAQVLSEYVLCGGGYYVKPGGTSSGDA  686
            MPN+ RI ASL+LARKH  CCT  +R YRL NECAQVLSE VL  GG YVKPGGTSSGDA
Sbjct  120  MPNLLRITASLVLARKHTNCCTWSERIYRLYNECAQVLSETVLATGGIYVKPGGTSSGDA  179

Query  687  TTAYANSVFNILQATTANVSALMGANGNKIVDKEVKDMQFDLYVNVYRSTSPDPKFVDKY  746
            TTAYANSVFNI+QAT+ANV+ L+      IV  ++K +Q++LY  VYR  + DP FV+K+
Sbjct  180  TTAYANSVFNIIQATSANVARLLSVITRDIVYDDIKSLQYELYQQVYRRVNFDPAFVEKF  239

Query  747  YAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAGIQNFKETLYYQNNVFMSEAKCWVETDL  806
            Y++L K+FS+MI +DDGVVCYN+  A +G +A I  F+E LYYQNNV+M+++KCWVE DL
Sbjct  240  YSYLCKNFSLMIFADDGVVCYNNTLAKQGLVADISGFREILYYQNNVYMADSKCWVEPDL  299

Query  807  KKGPHEF  813
            +KGPHEF
Sbjct  300  EKGPHEF  306



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Non-structural protein 1; Short=nsp1; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; Contains: RecName: Full=3C-like serine proteinase; Short=3CLSP; AltName: Full=M-PRO; AltName: Full=nsp3; AltName: Full=p27; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; Contains: RecName: Full=Non-structural protein 5; Short=nsp5; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp10; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp11; AltName: Full=p67; Contains: RecName: Full=Exoribonuclease; Short=ExoN; AltName: Full=nsp12; Contains: RecName: Full=Non-structural protein 13; Short=nsp13; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp14; Contains: RecName: Full=Putative 2'-O-methyl transferase; AltName: Full=nsp15 [Berne virus]
Sequence ID: P0C6V7.1 Length: 6857 
Range 1: 4929 to 5383

Score:120 bits(302), Expect:1e-27, 
Method:Compositional matrix adjust., 
Identities:122/494(25%), Positives:210/494(42%), Gaps:45/494(9%)

Query  438   LKHFFFAQDGNAAITDYNYYSYNLPTMCDIKQMLFCMEVVNKYFEIYDGGCLNASEVVVN  497
              K+F++  +   A+ D  YY Y        K +    + + +  E Y    +N       
Sbjct  4929  FKYFYYLSNPAGALADVCYYDYQGTGFYSPKLLAGVYDFMKRVTECYR---INERFTYEQ  4985

Query  498   NLDKSAGHPFNKFG-KARVYYESMSYQEQDELFAMTKRNVIPTMTQMNLKYAISAKNRAR  556
                + +    N  G +    Y ++  +    LF   ++  +P  T++  K+A+SAK RAR
Sbjct  4986  AKPRKSSMGINITGYQQDAVYRALGPENIARLFEYAQKAPLPFCTKIITKFALSAKARAR  5045

Query  557   TVAGVSILSTMTNRQYHQKMLKSM---AATRGATCVIGTTKFYGGWDFMLKTLYKDVDNP  613
             TV+  S +++   R  H+ +   M   A   G  C+IG +K+   +   LK  Y  ++  
Sbjct  5046  TVSSCSFIASTIFRFAHKPVTSKMVEVAQNSGGFCLIGVSKYGLKFSKFLKDKYGAIEGF  5105

Query  614   HLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLANECAQVLSEYVLCGGG  673
              + G DY KCDR  P   R   + +L           ++ +   NE    + + +LC G 
Sbjct  5106  DVFGSDYTKCDRTFPLSFRALTAALLYE----LGEWDEKSWLYLNEVNSYMLDTMLCDGM  5161

Query  674   YYVKPGGTSSGDATTAYANSVFNILQATTANVSALMG--ANGNKIVDKEVKDMQFDLYVN  731
                KPGGTSSGDATTA++N+ +N +         ++   + GNK++     +        
Sbjct  5162  LLNKPGGTSSGDATTAHSNTFYNYMVHYVVAFKTILSDLSEGNKVMRIAAHNAYTTGDYQ  5221

Query  732   VYRSTSPDPKFVDKYYAFLNKHFSMMILSDDGVVCYNSDYAAKGYIAGIQNFKETLYYQN  791
             V+ +   D +F   Y  FLN       LSDD  + ++   A K  I   +NF   L    
Sbjct  5222  VFNTLLED-QFQTNY--FLN------FLSDDSFI-FSKPEALK--IFTCENFSNKLQTIL  5269

Query  792   NVFMSEAKCWVETDLKKGPHEFCSQHTLYIKDGDDGYFLPYPDPSRILSAGCFVDDIVKT  851
             +  + + K W     K    EFCS H   IK   + +FL  P   R+L++   +D +   
Sbjct  5270  HTKVDQTKSW---STKGHIEEFCSAHI--IKTDGEYHFL--PSRGRLLASLLILDKLSDV  5322

Query  852   DGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDLTGHMLDSYSVMLCGD  911
             D   M  RFV++  ++   ++++   +  +F V+L  +++  KD             C  
Sbjct  5323  DIYYM--RFVAILCESAVYSRYQPEFFNGLFQVFLDKVQQFRKDYC-----------CDP  5369

Query  912   NSAKFWEEAFYRDL  925
                +  E  FY +L
Sbjct  5370  CPPQLLEREFYENL  5383




Range 2: 4660 to 4753

Score:37.0 bits(84), Expect:0.039, 
Method:Compositional matrix adjust., 
Identities:38/120(32%), Positives:52/120(43%), Gaps:38/120(31%)

Query  116   IVRQRLTEYTMMDLVYALRHFDQNSEVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGV  175
             ++R   +++++ DLVYA+   DQ+       L + G              FV NPS    
Sbjct  4660  LIRGPTSQWSLGDLVYAIWLGDQD------YLSECG--------------FVFNPSRDEF  4699

Query  176   YHKLGER------VRQAILN------TVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDF  223
                  +R      +  AILN       VK C    K      LTLDN DLNG+ YDFGD+
Sbjct  4700  LDDANQRSFLANLLEPAILNFSHIYWQVKMCKVPYK------LTLDNVDLNGQLYDFGDY  4753



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Non-structural protein 1; Short=nsp1; AltName: Full=Papain-like proteinase; Short=PL-PRO; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; Contains: RecName: Full=3C-like serine proteinase; Short=3CLSP; AltName: Full=M-PRO; AltName: Full=nsp3; AltName: Full=p27; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; Contains: RecName: Full=Non-structural protein 5; Short=nsp5; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; Contains: RecName: Full=Non-structural protein 8; Short=nsp8; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp10; AltName: Full=p100; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp11; AltName: Full=p67; Contains: RecName: Full=Exoribonuclease; Short=ExoN; AltName: Full=nsp12; Contains: RecName: Full=Non-structural protein 13; Short=nsp13; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp14; Contains: RecName: Full=Putative 2'-O-methyl transferase; AltName: Full=nsp15 [Breda virus serotype 1]
Sequence ID: P0C6V8.1 Length: 6733 
Range 1: 4882 to 5240

Score:112 bits(281), Expect:3e-25, 
Method:Compositional matrix adjust., 
Identities:105/384(27%), Positives:179/384(46%), Gaps:30/384(7%)

Query  517   YESMSYQEQDELFAMTKRNVIPTMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKM  576
             Y ++  +   +LF   ++  +P  T++  K+A+SAK RARTV+  S +++   R  H+ +
Sbjct  4882  YRALGPENITKLFEYAQKAPLPFCTKIITKFALSAKARARTVSSCSFIASTIFRFAHKPV  4941

Query  577   LKSM---AATRGATCVIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRI  633
                M   A      C+IG +K+   +   LK  Y  ++   + G DY KCDR  P   R 
Sbjct  4942  TSKMVEVAQNSQGFCLIGVSKYGLKFSKFLKDKYGAIEQFDVFGSDYTKCDRTFPLSFRA  5001

Query  634   FASLILARKHGTCCTTRDRFYRLANECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANS  693
               + +L    G      D +  L NE    + + +LC G    KPGGTSSGDATTA++N+
Sbjct  5002  LTAALLYELGGW---EEDSWLYL-NEVNSYMLDTMLCDGMLLNKPGGTSSGDATTAHSNT  5057

Query  694   VFNILQATTANVSALMG--ANGNKIVDKEVKDMQFDLYVNVYRSTSPDPKFVDKYYAFLN  751
              +N +         ++   ++ NK++     +        V+ +T  + +F   Y  FLN
Sbjct  5058  FYNYMVHYVVAFKTILSDLSDCNKVMRIAAHNAYTTGDYGVF-NTLLEEQFQTNY--FLN  5114

Query  752   KHFSMMILSDDGVVCYNSDYAAKGYIAGIQNFKETLYYQNNVFMSEAKCWVETDLKKGPH  811
                    LSDD  + ++   A K  I   +NF   L    +  +   K W  T   +   
Sbjct  5115  ------FLSDDSFI-FSKPGALK--IFTCENFSNKLQTILHTKVDLTKSWATTGHIE---  5162

Query  812   EFCSQHTLYIKDGDDGYFLPYPDPSRILSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLT  871
             EFCS H   IK   + +FL  P   R+L++   +D +   D   M  RFV++  ++   +
Sbjct  5163  EFCSAHI--IKTDGEYHFL--PSRGRLLASLLILDKLSDVDIYYM--RFVAILCESAVYS  5216

Query  872   KHEDIEYQNVFWVYLQYIEKLYKD  895
             +++   +  +F V+L  +++  KD
Sbjct  5217  RYQPEFFNGLFQVFLDKVQQFRKD  5240




Range 2: 4480 to 4629

Score:40.4 bits(93), Expect:0.004, 
Method:Compositional matrix adjust., 
Identities:58/187(31%), Positives:80/187(42%), Gaps:45/187(24%)

Query  45    AGIGKYYKTNTCRFVELDDQGHHLDSYFVVKRHTMENYELEKHCYDLLRDC--DAVAPHD  102
             AGI K  K+NT   VE   Q       F++KR        ++H + L R     ++ PH 
Sbjct  4480  AGIVKVNKSNT-HSVEYKGQR------FMIKRVK------DQHEFALARTAFLPSIIPHH  4526

Query  103   FFIFDVDKVKTPHIVRQRLTEYTMMDLVYALRHFDQNSEVLKAILVKYGCCDVTYFENKL  162
                  V +     +VR   T++++ DLVYA+   DQ      A L + G           
Sbjct  4527  M----VHQNGEWFLVRGPTTQWSLGDLVYAIWLGDQ------AYLDECG-----------  4565

Query  163   WFDFVENPSVIGVYHKLGERVRQAIL---NTVKFCD--HMVKAGLVGV-LTLDNQDLNGK  216
                FV NPS         +R   A L     + FC+  H VK   V   +TLDN DL G+
Sbjct  4566  ---FVFNPSRDEFLDDANQRSYLANLLEPAILSFCEIFHCVKGCQVPYKITLDNLDLKGQ  4622

Query  217   WYDFGDF  223
              YDFGD+
Sbjct  4623  LYDFGDY  4629



>RecName: Full=Replicase polyprotein 1ab; Short=pp1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Non-structural protein 1; Short=nsp1; Contains: RecName: Full=Non-structural protein 2; Short=nsp2; Contains: RecName: Full=3C-like serine proteinase; Short=3CLSP; AltName: Full=M-PRO; AltName: Full=nsp3; AltName: Full=p27; Contains: RecName: Full=Non-structural protein 4; Short=nsp4; Contains: RecName: Full=Non-structural protein 5; Short=nsp5; Contains: RecName: Full=Non-structural protein 6; Short=nsp6; Contains: RecName: Full=Non-structural protein 7; Short=nsp7; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=nsp9; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=nsp10; Contains: RecName: Full=Exoribonuclease; Short=ExoN; AltName: Full=nsp11; Contains: RecName: Full=Non-structural protein 12; Short=nsp12; Contains: RecName: Full=Uridylate-specific endoribonuclease; AltName: Full=NendoU; AltName: Full=nsp13; Contains: RecName: Full=Putative 2'-O-methyl transferase; AltName: Full=nsp14 [White bream virus (strain DF24/00)]
Sequence ID: Q008X6.1 Length: 6872 
Range 1: 4888 to 5169

Score:84.0 bits(206), Expect:2e-16, 
Method:Compositional matrix adjust., 
Identities:76/298(26%), Positives:129/298(43%), Gaps:33/298(11%)

Query  416   FNQDFYDFVVSKGFFKEGSSVTLKHFFFAQDGNA--AITDYNYYSYNLPTMCD---IKQM  470
             + + FYD  + +     G +++    +  Q G    A+ D+ YY+YN P   D   +K +
Sbjct  4888  YKRPFYDLDLIQRMNSAGLNLSETTGYHYQCGTTTEAVEDFMYYNYNSPKSFDPSYLKSV  4947

Query  471   LFCMEVVNKYFEIYDGGCLNASEVVVNNLDKSAGHP-FNKFGKA------RVYYESMSYQ  523
                M   +K+ +I               L+  +G P  +  G        +  + ++   
Sbjct  4948  YTYMR--DKFMKIISTD---------EKLNHQSGAPRMSSMGVGVSGFFQKTVWNALPED  4996

Query  524   EQDELFAMTKRNVIPTMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMAAT  583
                 L     + V+P  T +  K+    K R RT+ G S +++   R  H+ +   M  T
Sbjct  4997  FSPRLLDTASKTVMPFSTNIVKKFQRQKKTRVRTLGGSSFITSSIFRMLHKPVTNKMVQT  5056

Query  584   RGATC---VIGTTKFYGGWDFMLKTLYKD-VDNPHLMGWDYPKCDRAMPNMCRIF-ASLI  638
               A     +IG +KF  G+   L   + + +++  +MG DY KCDR+ P +CR   A+L 
Sbjct  5057  AQANIGPFLIGISKFNLGFHKYLSAHHPNGIEDCQVMGADYTKCDRSFPVVCRALSAALF  5116

Query  639   LARKHGTCCTTRDRFYRLANECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFN  696
                 H          +   NE    L +     G  + KPGGT+SGD+TTA++NS +N
Sbjct  5117  YELGH-----LEPNNHWFLNEMFAFLLDPSFISGHIFNKPGGTTSGDSTTAFSNSFYN  5169




Range 2: 4557 to 4739

Score:50.4 bits(119), Expect:4e-06, 
Method:Compositional matrix adjust., 
Identities:57/217(26%), Positives:81/217(37%), Gaps:52/217(23%)

Query  25    GLSTDVVFRAFDICNYKAK------------VAGIGKYYKTNTCRF------VELDDQGH  66
             GL+ D  F  F    YK              VA + K +K NT         + L D G 
Sbjct  4557  GLTLDTAFCPFQTGEYKPSSREFYINILNNNVASLRKVFKKNTASIPSENGTIMLKDTGT  4616

Query  67    HLDSYFVVKRHTMENYELEKHCYDLLRDCDAVAPHDFFIFDVDKVKTPHIVRQRLTEYTM  126
               + Y V K+              LL     V  H  F  D     T +++R   T Y++
Sbjct  4617  AHEIY-VAKQ--------------LLAKGLPVLQHARFNHD----GTDYLIRYYTTPYSL  4657

Query  127   MDLVYALRHFDQNSEVLKAILVKYGCCDVTYFENKLWFDFVENPSVIGVYHKLGERVRQA  186
              DLVYA    D    +L   +    C D               P     Y+   E++R  
Sbjct  4658  GDLVYAYMVGDFKHMLLALDITDETCLD---------------PGNYSSYYNFKEQLRNK  4702

Query  187   ILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDF  223
             + + +   + ++ A L   +TLDN DLNG  YDFGD+
Sbjct  4703  LASVIPNVNKILAAELPLAITLDNIDLNGFLYDFGDY  4739



>RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Nsp1; Contains: RecName: Full=Nsp1-alpha papain-like cysteine proteinase; AltName: Full=PCP1-alpha; Contains: RecName: Full=Nsp1-beta papain-like cysteine proteinase; AltName: Full=PCP1-beta; Contains: RecName: Full=Nsp2 cysteine proteinase; AltName: Full=CP2; Short=CP; Contains: RecName: Full=Non-structural protein 3; Short=Nsp3; Contains: RecName: Full=Serine protease nsp4; Short=3CLSP; AltName: Full=3C-like serine proteinase; AltName: Full=Nsp4; Contains: RecName: Full=Non-structural protein 5-6-7; Short=Nsp5-6-7; Contains: RecName: Full=Non-structural protein 5; Short=Nsp5; Contains: RecName: Full=Non-structural protein 6; Short=Nsp6; Contains: RecName: Full=Non-structural protein 7-alpha; Short=Nsp7-alpha; Contains: RecName: Full=Non-structural protein 7-beta; Short=Nsp7-beta; Contains: RecName: Full=Non-structural protein 8; Short=Nsp8; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=Nsp9; Contains: RecName: Full=Helicase nsp10; Short=Hel; AltName: Full=Nsp10; Contains: RecName: Full=Non-structural protein 11; Short=Nsp11; Contains: RecName: Full=Non-structural protein 12; Short=Nsp12 [PRRSV SD 01-08]
Sequence ID: A0MD28.2 Length: 3838 
Range 1: 2682 to 2871

Score:49.3 bits(116), Expect:7e-06, 
Method:Compositional matrix adjust., 
Identities:59/214(28%), Positives:92/214(42%), Gaps:36/214(16%)

Query  521   SYQEQDELFAMTKRNVIPTMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKS-  579
             S  E DE+ A   +    T+T   LK    +K + RT+ G +    + +R     + ++ 
Sbjct  2682  SIPEIDEMCARAVKENWQTVTPCTLKKQYCSKPKTRTILGTNNFIALAHRSALSGVTQAF  2741

Query  580   MAATRGATCVIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLIL  639
             M     +   +G  KF        K L+  V    L   D   CDR+ P + R F + +L
Sbjct  2742  MKKAWKSPIALGKNKF--------KELHCTVAGRCLEA-DLASCDRSTPAIVRWFVANLL  2792

Query  640   ARKHGTCCTTRDRFYRLANECAQVLSEYVL--------CGGGYYVKPGGTSSGDATTAYA  691
                           Y LA  C + L  YVL           G + K GG SSGD  T+ +
Sbjct  2793  --------------YELAG-CEEYLPSYVLNCCHDLVATQDGAFTKRGGLSSGDPVTSVS  2837

Query  692   NSVFN-ILQATTANVSAL-MGAN-GNKIVDKEVK  722
             N+V++ I+ A    +SAL MG   G K +++++K
Sbjct  2838  NTVYSLIIYAQHMVLSALKMGHEIGLKFLEEQLK  2871



>RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Nsp1; Contains: RecName: Full=Nsp1-alpha papain-like cysteine proteinase; AltName: Full=PCP1-alpha; Contains: RecName: Full=Nsp1-beta papain-like cysteine proteinase; AltName: Full=PCP1-beta; Contains: RecName: Full=Nsp2 cysteine proteinase; AltName: Full=CP2; Short=CP; Contains: RecName: Full=Non-structural protein 3; Short=Nsp3; Contains: RecName: Full=Serine protease nsp4; Short=3CLSP; AltName: Full=3C-like serine proteinase; AltName: Full=Nsp4; Contains: RecName: Full=Non-structural protein 5-6-7; Short=Nsp5-6-7; Contains: RecName: Full=Non-structural protein 5; Short=Nsp5; Contains: RecName: Full=Non-structural protein 6; Short=Nsp6; Contains: RecName: Full=Non-structural protein 7-alpha; Short=Nsp7-alpha; Contains: RecName: Full=Non-structural protein 7-beta; Short=Nsp7-beta; Contains: RecName: Full=Non-structural protein 8; Short=Nsp8; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=Nsp9; Contains: RecName: Full=Helicase nsp10; Short=Hel; AltName: Full=Nsp10; Contains: RecName: Full=Non-structural protein 11; Short=Nsp11; Contains: RecName: Full=Non-structural protein 12; Short=Nsp12 [Lelystad virus]
Sequence ID: Q04561.3 Length: 3855 
Range 1: 2699 to 2888

Score:48.9 bits(115), Expect:9e-06, 
Method:Compositional matrix adjust., 
Identities:57/214(27%), Positives:92/214(42%), Gaps:36/214(16%)

Query  521   SYQEQDELFAMTKRNVIPTMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKS-  579
             S  E DE+ A   +    T+T   LK    +K + RT+ G +    + +R     + ++ 
Sbjct  2699  SIPEIDEMCARAVKENWQTVTPCTLKKQYCSKPKTRTILGTNNFIALAHRSALSGVTQAF  2758

Query  580   MAATRGATCVIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLIL  639
             M     +   +G  KF        K L+  V     +  D   CDR+ P + R F + +L
Sbjct  2759  MKKAWKSPIALGKNKF--------KELHCTVAG-RCLEADLASCDRSTPAIVRWFVANLL  2809

Query  640   ARKHGTCCTTRDRFYRLANECAQVLSEYVL--------CGGGYYVKPGGTSSGDATTAYA  691
                           Y LA  C + L  YVL           G + K GG SSGD  T+ +
Sbjct  2810  --------------YELAG-CEEYLPSYVLNCCHDLVATQDGAFTKRGGLSSGDPVTSVS  2854

Query  692   NSVFN-ILQATTANVSAL-MGAN-GNKIVDKEVK  722
             N+V++ ++ A    +SAL MG   G K +++++K
Sbjct  2855  NTVYSLVIYAQHMVLSALKMGHEIGLKFLEEQLK  2888



>RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Nsp1-alpha papain-like cysteine proteinase; AltName: Full=PCP1-alpha; Contains: RecName: Full=Nsp1-beta papain-like cysteine proteinase; AltName: Full=PCP1-beta; Contains: RecName: Full=Nsp2 cysteine proteinase; AltName: Full=CP2; Short=CP; Contains: RecName: Full=Non-structural protein 3; Short=Nsp3; Contains: RecName: Full=3C-like serine proteinase; Short=3CLSP; AltName: Full=Nsp4; Contains: RecName: Full=Non-structural protein 5-6-7; Short=Nsp5-6-7; Contains: RecName: Full=Non-structural protein 5; Short=Nsp5; Contains: RecName: Full=Non-structural protein 6; Short=Nsp6; Contains: RecName: Full=Non-structural protein 7-alpha; Short=Nsp7-alpha; Contains: RecName: Full=Non-structural protein 7-beta; Short=Nsp7-beta; Contains: RecName: Full=Non-structural protein 8; Short=Nsp8; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=Nsp9; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=Nsp10; Contains: RecName: Full=Non-structural protein 11; Short=Nsp11; Contains: RecName: Full=Non-structural protein 12; Short=Nsp12 [Simian hemorrhagic fever virus]
Sequence ID: Q68772.4 Length: 3595 
Range 1: 2412 to 2569

Score:47.0 bits(110), Expect:4e-05, 
Method:Compositional matrix adjust., 
Identities:42/174(24%), Positives:75/174(43%), Gaps:17/174(9%)

Query  526   DELFAMTKRNVIPTMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKSMA-ATR  584
             DEL       V  T+T + LK    +K + RT+ G + ++++  R     + +    A +
Sbjct  2412  DELCEKAIAEVWQTVTPVTLKKQFCSKAKTRTILGTNAMASLALRALLSGVTQGFQLAGK  2471

Query  585   GATCVIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHG  644
              +   +G +KF     F +K           +  D   CDR+ P + R FA+ +L     
Sbjct  2472  NSPICLGKSKF-DPCTFEVKG--------RCLETDLASCDRSTPAIVRHFATKLLFE---  2519

Query  645   TCCTTRDRFYRLANECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNIL  698
               C  R     + N C     + ++       K GG SSGD  T+ AN++++++
Sbjct  2520  MACAERALPLYVVNCC----HDLIVTQTSAATKRGGLSSGDPVTSIANTIYSLV  2569



>RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Nsp1; Contains: RecName: Full=Nsp1-alpha papain-like cysteine proteinase; AltName: Full=PCP1-alpha; Contains: RecName: Full=Nsp1-beta papain-like cysteine proteinase; AltName: Full=PCP1-beta; Contains: RecName: Full=Nsp2 cysteine proteinase; AltName: Full=CP2; Short=CP; Contains: RecName: Full=Non-structural protein 3; Short=Nsp3; Contains: RecName: Full=Serine protease nsp4; Short=3CLSP; AltName: Full=3C-like serine proteinase; AltName: Full=Nsp4; Contains: RecName: Full=Non-structural protein 5-6-7; Short=Nsp5-6-7; Contains: RecName: Full=Non-structural protein 5; Short=Nsp5; Contains: RecName: Full=Non-structural protein 6; Short=Nsp6; Contains: RecName: Full=Non-structural protein 7-alpha; Short=Nsp7-alpha; Contains: RecName: Full=Non-structural protein 7-beta; Short=Nsp7-beta; Contains: RecName: Full=Non-structural protein 8; Short=Nsp8; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=Nsp9; Contains: RecName: Full=Helicase nsp10; Short=Hel; AltName: Full=Nsp10; Contains: RecName: Full=Non-structural protein 11; Short=Nsp11; Contains: RecName: Full=Non-structural protein 12; Short=Nsp12 [PRRSV VR2332]
Sequence ID: Q9WJB2.2 Length: 3960 
Range 1: 2761 to 2967

Score:47.0 bits(110), Expect:4e-05, 
Method:Compositional matrix adjust., 
Identities:55/230(24%), Positives:89/230(38%), Gaps:28/230(12%)

Query  474   MEVVNKYFEIYDGGCLNASEVVVNNLDKS-AGHPFNKFGKARVYYESMSYQEQDELFAMT  532
             + +V KY   + G C             S AG   N+F    +     S  E D L A  
Sbjct  2761  LRLVRKYLFAHVGKCPPVHRPSTYPAKNSMAGINGNRFPTKDI----QSVPEIDVLCAQA  2816

Query  533   KRNVIPTMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKS-MAATRGATCVIG  591
              R    T+T   LK     K + RT+ G +    + +R     + +  M     +   +G
Sbjct  2817  VRENWQTVTPCTLKKQYCGKKKTRTILGTNNFIALAHRAVLSGVTQGFMKKAFNSPIALG  2876

Query  592   TTKFYGGWDFMLKTLYKDVDNPHL---MGWDYPKCDRAMPNMCRIFASLILARKHGTCCT  648
               KF            K++  P L   +  D   CDR+ P + R FA+ +L   +   C 
Sbjct  2877  KNKF------------KELQTPVLGRCLEADLASCDRSTPAIVRWFAANLL---YELACA  2921

Query  649   TRDRFYRLANECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNIL  698
                    + N C  +L    +   G   K GG SSGD  T+ +N++++++
Sbjct  2922  EEHLPSYVLNCCHDLL----VTQSGAVTKRGGLSSGDPITSVSNTIYSLV  2967



>RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Nsp1; Contains: RecName: Full=Nsp1-alpha papain-like cysteine proteinase; AltName: Full=PCP1-alpha; Contains: RecName: Full=Nsp1-beta papain-like cysteine proteinase; AltName: Full=PCP1-beta; Contains: RecName: Full=Nsp2 cysteine proteinase; AltName: Full=CP2; Short=CP; Contains: RecName: Full=Non-structural protein 3; Short=Nsp3; Contains: RecName: Full=3C-like serine proteinase; Short=3CLSP; AltName: Full=Nsp4; Contains: RecName: Full=Non-structural protein 5-6-7; Short=Nsp5-6-7; Contains: RecName: Full=Non-structural protein 5; Short=Nsp5; Contains: RecName: Full=Non-structural protein 6; Short=Nsp6; Contains: RecName: Full=Non-structural protein 7-alpha; Short=Nsp7-alpha; Contains: RecName: Full=Non-structural protein 7-beta; Short=Nsp7-beta; Contains: RecName: Full=Non-structural protein 8; Short=Nsp8; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=Nsp9; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=Nsp10; Contains: RecName: Full=Non-structural protein 11; Short=Nsp11; Contains: RecName: Full=Non-structural protein 12; Short=Nsp12 [PRRSV HB-1(sh)/2002]
Sequence ID: Q8B912.3 Length: 3961 
Range 1: 2762 to 2968

Score:46.6 bits(109), Expect:4e-05, 
Method:Compositional matrix adjust., 
Identities:55/230(24%), Positives:89/230(38%), Gaps:28/230(12%)

Query  474   MEVVNKYFEIYDGGCLNASEVVVNNLDKS-AGHPFNKFGKARVYYESMSYQEQDELFAMT  532
             + +V KY   + G C             S AG   N+F    +     S  E D L A  
Sbjct  2762  LRLVRKYLFAHVGKCPPVHRPSTYPAKNSMAGINGNRFPTKDI----QSVPEIDVLCAQA  2817

Query  533   KRNVIPTMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKS-MAATRGATCVIG  591
              R    T+T   LK     K + RT+ G +    + +R     + +  M     +   +G
Sbjct  2818  VRENWQTVTPCTLKKQYCGKKKTRTILGTNNFIALAHRAALSGVTQGFMKKAFNSPIALG  2877

Query  592   TTKFYGGWDFMLKTLYKDVDNPHL---MGWDYPKCDRAMPNMCRIFASLILARKHGTCCT  648
               KF            K++  P L   +  D   CDR+ P + R FA+ +L   +   C 
Sbjct  2878  KNKF------------KELQTPVLGRCLEADLASCDRSTPAIVRWFAANLL---YELACA  2922

Query  649   TRDRFYRLANECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNIL  698
                    + N C  +L    +   G   K GG SSGD  T+ +N++++++
Sbjct  2923  EEHLPSYVLNCCHDLL----VTQSGAVTKRGGLSSGDPITSVSNTIYSLV  2968



>RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Nsp1; Contains: RecName: Full=Nsp1-alpha papain-like cysteine proteinase; AltName: Full=PCP1-alpha; Contains: RecName: Full=Nsp1-beta papain-like cysteine proteinase; AltName: Full=PCP1-beta; Contains: RecName: Full=Nsp2 cysteine proteinase; AltName: Full=CP2; Short=CP; Contains: RecName: Full=Non-structural protein 3; Short=Nsp3; Contains: RecName: Full=3C-like serine proteinase; Short=3CLSP; AltName: Full=Nsp4; Contains: RecName: Full=Non-structural protein 5-6-7; Short=Nsp5-6-7; Contains: RecName: Full=Non-structural protein 5; Short=Nsp5; Contains: RecName: Full=Non-structural protein 6; Short=Nsp6; Contains: RecName: Full=Non-structural protein 7-alpha; Short=Nsp7-alpha; Contains: RecName: Full=Non-structural protein 7-beta; Short=Nsp7-beta; Contains: RecName: Full=Non-structural protein 8; Short=Nsp8; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=Nsp9; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=Nsp10; Contains: RecName: Full=Non-structural protein 11; Short=Nsp11; Contains: RecName: Full=Non-structural protein 12; Short=Nsp12 [PRRSV 16244B]
Sequence ID: Q9YN02.3 Length: 3961 
Range 1: 2762 to 2968

Score:45.1 bits(105), Expect:2e-04, 
Method:Compositional matrix adjust., 
Identities:55/227(24%), Positives:87/227(38%), Gaps:22/227(9%)

Query  474   MEVVNKYFEIYDGGCLNASEVVVNNLDKS-AGHPFNKFGKARVYYESMSYQEQDELFAMT  532
             + +V KY   + G C             S AG   N+F    +     S  E D L A  
Sbjct  2762  LRLVRKYLFAHVGKCPPVHRPSTYPAKNSMAGINGNRFPTKDI----QSVPEIDVLCAQA  2817

Query  533   KRNVIPTMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKS-MAATRGATCVIG  591
              R    T+T   LK     K + RT+ G +    + +R     + +  M     +   +G
Sbjct  2818  VRENWQTVTPCTLKKQYCGKKKTRTILGTNNFIALAHRAALSGVTQGFMKKAFNSPIALG  2877

Query  592   TTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRD  651
               KF        K L   V     +  D   CDR+ P + R FA+ +L   +   C    
Sbjct  2878  KNKF--------KELQTSVLG-RCLEADLASCDRSTPAIVRWFAANLL---YELACAEEH  2925

Query  652   RFYRLANECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNIL  698
                 + N C  +L    +   G   K GG SSGD  T+ +N++++++
Sbjct  2926  LPSYVLNCCHDLL----VTQSGAVTKRGGLSSGDPITSVSNTIYSLV  2968



>RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Nsp1 papain-like cysteine proteinase; Short=PCP; Contains: RecName: Full=Nsp2 cysteine proteinase; AltName: Full=CP2; Short=CP; Contains: RecName: Full=Non-structural protein 3; Short=Nsp3; Contains: RecName: Full=3C-like serine proteinase; Short=3CLSP; AltName: Full=Nsp4; Contains: RecName: Full=Non-structural protein 5-6-7; Short=Nsp5-6-7; Contains: RecName: Full=Non-structural protein 5; Short=Nsp5; Contains: RecName: Full=Non-structural protein 6; Short=Nsp6; Contains: RecName: Full=Non-structural protein 7-alpha; Short=Nsp7-alpha; Contains: RecName: Full=Non-structural protein 7-beta; Short=Nsp7-beta; Contains: RecName: Full=Non-structural protein 8; Short=Nsp8; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=Nsp9; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=Nsp10; Contains: RecName: Full=Non-structural protein 11; Short=Nsp11; Contains: RecName: Full=Non-structural protein 12; Short=Nsp12 [Equine arteritis virus Bucyrus]
Sequence ID: P19811.3 Length: 3175 
Range 1: 1911 to 2233

Score:38.1 bits(87), Expect:0.020, 
Method:Compositional matrix adjust., 
Identities:78/353(22%), Positives:135/353(38%), Gaps:43/353(12%)

Query  394   TSCFSVA--ALTTGL-TFQTVRPGNFNQDFYDFVVSKGFFKEGSSVTLKHFFFAQDGNAA  450
             T+C+     A+T G     T+ P    Q   D  + K      + ++   F       A 
Sbjct  1911  TACYRAGCEAVTDGTNVIATIGPFPEQQPIPD--IPKSVLDNCADISCDAFIAPAAETAL  1968

Query  451   ITDYNYYSYNLPTMCDIKQMLFCMEVVNKYFEIYDGGCLNASEVVVNNLDKSAGHPFNKF  510
               D     YNL T   +   +F M       EI D   L     V +  +  AG    +F
Sbjct  1969  CGDLE--KYNLSTQGFVLPSVFSMVRAYLKEEIGDAPPLYLPSTVPSK-NSQAGINGAEF  2025

Query  511   GKARVYYESMSYQEQDELFAMTKRNVIPTMTQMNLKYAISAKNRARTVAGVSILSTMTNR  570
                 +     SY   D++ + + ++ + T T    K    +K + R++ G +    +  R
Sbjct  2026  PTKSL----QSYCLIDDMVSQSMKSNLQTATMATCKRQYCSKYKIRSILGTNNYIGLGLR  2081

Query  571   QYHQKMLKSMAATRGATCVIGTTKFYGGWDFMLKTLYKDVDNP--HLMGWDYPKCDRAMP  628
                       A   G T         G   ++ K+ +  +  P  + +  D   CDR+ P
Sbjct  2082  ----------ACLSGVTAAFQKAGKDGSPIYLGKSKFDPIPAPDKYCLETDLESCDRSTP  2131

Query  629   NMCRIFASLILARKHGTCCTTRDRFYRLANECAQVLSEYVLCGGGYYVKPGGTSSGDATT  688
              + R FA+ ++    G      +  +     C     + V+ G   + K GG SSGD  T
Sbjct  2132  ALVRWFATNLIFELAGQ----PELVHSYVLNCCH---DLVVAGSVAFTKRGGLSSGDPIT  2184

Query  689   AYANSVFNILQATTANVSALMGANG--NKIVDK------EVKDMQFDLYVNVY  733
             + +N++++++  T   +  L G  G   +I +K      E++DM F  YV VY
Sbjct  2185  SISNTIYSLVLYTQHML--LCGLEGYFPEIAEKYLDGSLELRDM-FK-YVRVY  2233



>RecName: Full=Genome polyprotein; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-A; Short=NIA; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-B; Short=NIB; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Watermelon mosaic virus 2 (isolate USA)]
Sequence ID: P18478.3 Length: 1017 
Range 1: 440 to 544

Score:37.4 bits(85), Expect:0.033, 
Method:Compositional matrix adjust., 
Identities:29/116(25%), Positives:54/116(46%), Gaps:17/116(14%)

Query  589  VIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAM--PNMCRIFASLILARKHGTC  646
             +G TKFYGGWD ++++L          GW Y   D +    ++  +  + +L+ +   C
Sbjct  440  TVGMTKFYGGWDKLMRSLPD--------GWTYCHADGSQFDSSLTPLLLNAVLSIR---C  488

Query  647  CTTRDRFY---RLANECAQVLSEYVLCGGG-YYVKPGGTSSGDATTAYANSVFNIL  698
            C   D +     L N  A+++   +L   G  + K  G +SG  +T   N++  ++
Sbjct  489  CFMEDWWVGREMLENLYAEIVYTPILAPDGTIFKKFRGNNSGQPSTVVDNTLMVVI  544



>RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Nsp1-alpha papain-like cysteine proteinase; AltName: Full=PCP1-alpha; Contains: RecName: Full=Nsp1-beta papain-like cysteine proteinase; AltName: Full=PCP1-beta; Contains: RecName: Full=Nsp2 cysteine proteinase; AltName: Full=CP2; Short=CP; Contains: RecName: Full=Non-structural protein 3; Short=Nsp3; Contains: RecName: Full=3C-like serine proteinase; Short=3CLSP; AltName: Full=Nsp4; Contains: RecName: Full=Non-structural protein 5-6-7; Short=Nsp5-6-7; Contains: RecName: Full=Non-structural protein 5; Short=Nsp5; Contains: RecName: Full=Non-structural protein 6; Short=Nsp6; Contains: RecName: Full=Non-structural protein 7-alpha; Short=Nsp7-alpha; Contains: RecName: Full=Non-structural protein 7-beta; Short=Nsp7-beta; Contains: RecName: Full=Non-structural protein 8; Short=Nsp8; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=Nsp9; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=Nsp10; Contains: RecName: Full=Non-structural protein 11; Short=Nsp11; Contains: RecName: Full=Non-structural protein 12; Short=Nsp12 [Lactate dehydrogenase elevating virus Plagemann]
Sequence ID: Q83017.2 Length: 3616 
Range 1: 2524 to 2668

Score:37.0 bits(84), Expect:0.042, 
Method:Compositional matrix adjust., 
Identities:41/161(25%), Positives:65/161(40%), Gaps:17/161(10%)

Query  539   TMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKS-MAATRGATCVIGTTKFYG  597
             T+T   LK    +K++ RT+ G +    +  R     + +  M    G    +G  KF  
Sbjct  2524  TVTPCTLKKQYCSKSKTRTILGTNNFVALGLRSALSGVTQGFMRKGIGTPICLGKNKF--  2581

Query  598   GWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYRLA  657
                    T          +  D   CDR+ P + R F + +L    G         Y L 
Sbjct  2582  -------TPLPVRIGGRCLEADLASCDRSTPAIIRWFTTNLLFELAGA--EEWIPSYVL-  2631

Query  658   NECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNIL  698
             N C  V+S    C    + K GG SSGD  T+ +N+V++++
Sbjct  2632  NCCHDVVSTMSGC----FDKRGGLSSGDPVTSISNTVYSLI  2668



>RecName: Full=Replicase polyprotein 1ab; AltName: Full=ORF1ab polyprotein; Contains: RecName: Full=Nsp1-alpha papain-like cysteine proteinase; AltName: Full=PCP1-alpha; Contains: RecName: Full=Nsp1-beta papain-like cysteine proteinase; AltName: Full=PCP1-beta; Contains: RecName: Full=Nsp2 cysteine proteinase; AltName: Full=CP2; Short=CP; Contains: RecName: Full=Non-structural protein 3; Short=Nsp3; Contains: RecName: Full=3C-like serine proteinase; Short=3CLSP; AltName: Full=Nsp4; Contains: RecName: Full=Non-structural protein 5-6-7; Short=Nsp5-6-7; Contains: RecName: Full=Non-structural protein 5; Short=Nsp5; Contains: RecName: Full=Non-structural protein 6; Short=Nsp6; Contains: RecName: Full=Non-structural protein 7-alpha; Short=Nsp7-alpha; Contains: RecName: Full=Non-structural protein 7-beta; Short=Nsp7-beta; Contains: RecName: Full=Non-structural protein 8; Short=Nsp8; Contains: RecName: Full=RNA-directed RNA polymerase; Short=Pol; Short=RdRp; AltName: Full=Nsp9; Contains: RecName: Full=Helicase; Short=Hel; AltName: Full=Nsp10; Contains: RecName: Full=Non-structural protein 11; Short=Nsp11; Contains: RecName: Full=Non-structural protein 12; Short=Nsp12 [Lactate dehydrogenase elevating virus C]
Sequence ID: Q06502.2 Length: 3637 
Range 1: 2527 to 2689

Score:36.2 bits(82), Expect:0.080, 
Method:Compositional matrix adjust., 
Identities:40/179(22%), Positives:69/179(38%), Gaps:17/179(9%)

Query  521   SYQEQDELFAMTKRNVIPTMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKS-  579
             S+ + D L     +    T+T   LK    +K + RT+ G +    +  R     + +  
Sbjct  2527  SHPDIDALCERACKEHWQTVTPCTLKKQYCSKAKTRTILGTNNFVALGLRSALSGVTQGF  2586

Query  580   MAATRGATCVIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLIL  639
             M    G+   +G  KF          L   V     +  D   CDR+ P + R F + +L
Sbjct  2587  MRKGIGSPICLGKNKF--------TPLPTKVSG-RCLEADLASCDRSTPAIIRWFTTNLL  2637

Query  640   ARKHGTCCTTRDRFYRLANECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNIL  698
                 G             ++    +S       G + K GG SSGD  T+ +N+V++++
Sbjct  2638  FELAGPEEWIPSYVLNCCHDAVSTMS-------GCFDKRGGLSSGDPVTSVSNTVYSLV  2689



>RecName: Full=Genome polyprotein; Contains: RecName: Full=Protein p18; Contains: RecName: Full=Protein p32; Contains: RecName: Full=NTPase; AltName: Full=p39; Contains: RecName: Full=Protein p30; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; AltName: Full=p13; Contains: RecName: Full=Protease-polymerase; Short=Pro-Pol [Canine calicivirus (strain 48)]
Sequence ID: Q8V736.1 Length: 1929 
Range 1: 1654 to 1799

Score:35.0 bits(79), Expect:0.14, 
Method:Compositional matrix adjust., 
Identities:40/166(24%), Positives:65/166(39%), Gaps:21/166(12%)

Query  109   DKVKTPHIVRQRLTEYTMMDLVYALRHFDQNSEVLKAILVKYGCCDVTYFENKLWFDFVE  168
             D  + P++ R  L           LRHF   S V+ + +       +  F    +     
Sbjct  1654  DSTQPPNVTRMSLE---------LLRHFTDKSPVVDSAVATLSSPSIAVFGGVSFKTNGG  1704

Query  169   NPSVIGVYHKLGERVRQAILNTVKFCDHMVKAGLVGVLTLDNQDLNGKWYDFGDFVITQP  228
              PS + +          +ILN++  C  +V + ++ VL     D+N   YD  D   T  
Sbjct  1705  LPSGMPL---------TSILNSLNHC-LLVGSAIIQVLESKGVDVNWNIYDTIDL-FTYG  1753

Query  229   GSGVAIVDSYYSYLMP-VLSMTDCLAAETHRDCDFNKPLIEWPLTE  273
               GV IV ++   +MP V S       +  R    + P+ E PL+E
Sbjct  1754  DDGVYIVPNFVHSVMPEVFSCLSSYGLKPTRTDKSSAPITEIPLSE  1799



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Zucchini yellow mosaic virus (strain California)]
Sequence ID: P18479.2 Length: 3080 
Range 1: 2356 to 2522

Score:34.7 bits(78), Expect:0.23, 
Method:Compositional matrix adjust., 
Identities:40/174(23%), Positives:73/174(41%), Gaps:29/174(16%)

Query  455   NYYSYNLPT---MCDIKQMLFCMEVVNKY---FEIYDGGCLNASEVVVNNLDKSAGHPFN  508
             +++ YN P      D  + L  ++ V +    FE  +   +   E + N+L+  A     
Sbjct  2356  DFFKYNKPVTVNQLDHDKFLGAVDGVIRMMCDFEFNECRFITDPEEIYNSLNMKAAIGAQ  2415

Query  509   KFGKARVYYESMS-YQEQDELFAMTKR--NVIPTMTQMNLKYAISA-----KNRARTVAG  560
               GK + Y+E +  +  +  LF   +R  N    +   +LK  +        N+ RT   
Sbjct  2416  YRGKKKEYFEGLDDFDRERLLFQSCERLFNGYKGLWNGSLKAELRPLEKVRANKTRTFTA  2475

Query  561   VSILSTMT--------NRQYHQKMLKSMAATRGATCVIGTTKFYGGWDFMLKTL  606
               I + +         N ++++K LK           +G TKFYGGWD ++++L
Sbjct  2476  APIDTLLGAKVCVDDFNNEFYRKNLK-------CPWTVGMTKFYGGWDKLMRSL  2522



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Beet mosaic virus]
Sequence ID: Q6XW15.1 Length: 3085 
Range 1: 2427 to 2618

Score:33.1 bits(74), Expect:0.64, 
Method:Compositional matrix adjust., 
Identities:50/213(23%), Positives:82/213(38%), Gaps:46/213(21%)

Query  511   GKARVYYESMSYQEQDELFAMT-KRNVIPTMTQMN--LKYAISAK-----NRARTVAGVS  562
             GK + Y+E ++  E+++L  ++ +R     M   N  LK  +  K     N+ RT     
Sbjct  2427  GKKKEYFEQLNTTEREDLLRLSCERLYEGKMGVWNGSLKAELRPKEKLEQNKTRTFTAAP  2486

Query  563   ILSTMT--------NRQYHQKMLKSMAATRGATCVIGTTKFYGGWDFMLKTLYKDVDNPH  614
             I + +         N +++   LK           +G TKFYGGW+ +L+ L        
Sbjct  2487  IDTLLGGKVCVDDFNNRFYSLNLK-------GPWSVGMTKFYGGWNELLQKLPD------  2533

Query  615   LMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTTRDRFYR--------LANECAQVLSE  666
               GW Y   D +       F S +           R+ F          L N   +++  
Sbjct  2534  --GWIYCDADGSQ------FDSSLTPYLINAVVQIREHFMEDWEIGRTMLRNFYTEIVYT  2585

Query  667   YVLCGGGYYVKP-GGTSSGDATTAYANSVFNIL  698
              +L   G  VK   G +SG  +T   N++  IL
Sbjct  2586  PILTPDGTIVKKFKGNNSGQPSTVVDNTLMVIL  2618



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Bean yellow mosaic virus]
Sequence ID: P17765.2 Length: 3056 
Range 1: 2486 to 2604

Score:32.7 bits(73), Expect:0.76, 
Method:Compositional matrix adjust., 
Identities:35/135(26%), Positives:51/135(37%), Gaps:25/135(18%)

Query  589   VIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCT  648
              +G TKFYGGWD +L +L          GW Y   D +       F S +          
Sbjct  2486  TVGITKFYGGWDRLLDSLPD--------GWVYCDADGSQ------FDSSLTPYLLNAVLE  2531

Query  649   TRDRFYR--------LANECAQVLSEYVLCGGGYYVKP-GGTSSGDATTAYANSVFNILQ  699
              R R           L N   +++   +L   G  VK   G +SG  +T   N++  I+ 
Sbjct  2532  MRLRLMEEWDLGEQMLKNLYTEIVYTPILTPDGTIVKKFKGNNSGQPSTVVDNTLMVIMA  2591

Query  700   ATTANVSALMGANGN  714
                A  +  +G  GN
Sbjct  2592  VYYA--AEKLGIKGN  2604



>RecName: Full=Protein VP3; Includes: RecName: Full=mRNA guanylyltransferase; Includes: RecName: Full=mRNA (guanine-N(7)-)-methyltransferase [Porcine rotavirus C strain Cowden]
Sequence ID: P26192.1 Length: 692 
Range 1: 56 to 134

Score:32.3 bits(72), Expect:1.0, 
Method:Compositional matrix adjust., 
Identities:22/83(27%), Positives:37/83(44%), Gaps:5/83(6%)

Query  743  VDKYYAFLNKH-FSMMILSDDGVVCYNSDYAAKGYIAGIQNFKETLYYQNNVFMSEAKCW  801
            VDK +  LN +    +++  D +  + S      +   I  F E  YY+NN F+   + W
Sbjct  56   VDKAFTLLNSNGIPALVIRKDHIGIFTSSNFTYDWQHKIVYFHEYTYYKNNEFIVSDEFW  115

Query  802  VETDLKKGPHEFCSQHTLYIKDG  824
            + T++    HE      LY + G
Sbjct  116  LHTNI----HELLPYKLLYYERG  134



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Peanut mottle virus (strain M)]
Sequence ID: O56075.1 Length: 3099 
Range 1: 2419 to 2551

Score:32.0 bits(71), Expect:1.4, 
Method:Compositional matrix adjust., 
Identities:38/149(26%), Positives:58/149(38%), Gaps:33/149(22%)

Query  493   EVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELF-AMTKRNVIPTMTQMN--LKYAI  549
             E ++++L+  A       GK + Y+ES+S  E+  +  A  +R     M   N  LK  +
Sbjct  2419  EAILDSLNMKAAVGALYKGKKKEYFESLSEPEKHHIVQASCERLFYGEMGVWNGSLKAEL  2478

Query  550   SAK-----NRARTVAGVSILSTM---------TNRQYHQKMLKSMAATRGATCVIGTTKF  595
               K     N+ RT     I + +          NR Y   +             +G TKF
Sbjct  2479  RPKEKVALNKTRTFTAAPIDTLLGGKCCVDDFNNRFYSLNI--------EGPWTVGMTKF  2530

Query  596   YGGWDFMLKTLYKDVDNPHLMGWDYPKCD  624
             YGGWD +++ L          GW Y   D
Sbjct  2531  YGGWDKLMRKLPD--------GWRYCHAD  2551



>RecName: Full=Non-structural polyprotein 1AB; Contains: RecName: Full=VPg; Contains: RecName: Full=Protein p19; Contains: RecName: Full=Transmembrane protein 1A; Contains: RecName: Full=Serine protease p27; Short=p27; Contains: RecName: Full=Protein p20; Contains: RecName: Full=RNA-directed RNA polymerase p57; Short=p57 [Turkey astrovirus 2]
Sequence ID: Q9ILI5.2 Length: 1638 
Range 1: 1342 to 1492

Score:32.0 bits(71), Expect:1.4, 
Method:Compositional matrix adjust., 
Identities:42/160(26%), Positives:63/160(39%), Gaps:16/160(10%)

Query  571   QYHQKMLKSMAATRGATCVIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPN-  629
             Q     +K     R A   +G T F+GG D  ++ LY D D  + +  D+ + D  +P  
Sbjct  1342  QDQNNRMKQQTEIRSAQ--VGWTPFFGGLDRRVRRLYGDGDR-YFVEMDWTRYDGTIPKS  1398

Query  630   ---MCRIFASLILARKHGTCCTTRDRFYRLANECAQVLSEYV--LCGGGYYVKPGGTSSG  684
                  R      L   H T      +  RL N   + L E +  L  G       G  SG
Sbjct  1399  LFWRIRQIRFFFLHDSHKT-----PKMRRLYNWYVKNLLEKIILLPTGEVCQVKKGNPSG  1453

Query  685   DATTAYANSVFNILQATTANVSAL-MGANGNKIVDKEVKD  723
               +T   N++ N+   TT  VS L     G    +KE+++
Sbjct  1454  QFSTTVDNNMINVW-LTTFEVSYLFFKQRGRLPTEKELQE  1492



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Potato virus Y strain Hungarian]
Sequence ID: Q02963.1 Length: 3061 
Range 1: 2497 to 2513

Score:32.0 bits(71), Expect:1.6, 
Method:Compositional matrix adjust., 
Identities:11/17(65%), Positives:14/17(82%), Gaps:0/17(0%)

Query  590   IGTTKFYGGWDFMLKTL  606
             +G TKFYGGWD +L+ L
Sbjct  2497  VGMTKFYGGWDRLLRRL  2513



>RecName: Full=RNA1 polyprotein; AltName: Full=P1; Contains: RecName: Full=P1A protein; Short=1A; AltName: Full=protease cofactor; Contains: RecName: Full=Putative ATP-dependent helicase; AltName: Full=1B; AltName: Full=NTP-binding protein; Short=NTB; AltName: Full=membrane-binding protein; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=1C-VPg; Contains: RecName: Full=Picornain 3C-like protease; Short=3C-like protease; AltName: Full=1D-PRO; Contains: RecName: Full=RNA-directed RNA polymerase; AltName: Full=1E-POL [Tomato black ring virus (strain MJ)]
Sequence ID: Q8B8X3.1 Length: 2266 
Range 1: 1691 to 1798

Score:31.6 bits(70), Expect:1.8, 
Method:Compositional matrix adjust., 
Identities:33/121(27%), Positives:44/121(36%), Gaps:25/121(20%)

Query  588   CVIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAM-PNMCRIFASLILARKHGTC  646
             C +GT  +   W  ML  L +   N   +  DY   D  + P +    A +I        
Sbjct  1691  CQVGTNPYSREWGHMLNRLMRPKTN-EAINCDYSGFDGLLNPQLIECIARMI--------  1741

Query  647   CTTRDRFYRLANEC----AQ-------VLSEYVLCGGGYYVKPGGTSSGDATTAYANSVF  695
                 +R Y L+ E     AQ       ++  Y   G   Y    G  SG A T   NSVF
Sbjct  1742  ----NRLYALSGESDVQQAQRYNMLMALVGRYAFVGQQVYKVNCGLPSGFALTVVVNSVF  1797

Query  696   N  696
             N
Sbjct  1798  N  1798



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Potato virus Y strain N]
Sequence ID: P18247.2 Length: 3063 
Range 1: 2499 to 2515

Score:31.6 bits(70), Expect:1.8, 
Method:Compositional matrix adjust., 
Identities:11/17(65%), Positives:14/17(82%), Gaps:0/17(0%)

Query  590   IGTTKFYGGWDFMLKTL  606
             +G TKFYGGWD +L+ L
Sbjct  2499  VGMTKFYGGWDKLLRRL  2515



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Coat protein; Short=CP [Bean common mosaic necrosis virus NL-3]
Sequence ID: Q65399.1 Length: 3066 
Range 1: 2510 to 2613

Score:31.2 bits(69), Expect:2.2, 
Method:Compositional matrix adjust., 
Identities:29/118(25%), Positives:48/118(40%), Gaps:23/118(19%)

Query  590   IGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCCTT  649
             +G TKFYGGWD +++ L          GW Y   D +       F S +      +  + 
Sbjct  2510  VGMTKFYGGWDKLMRALPD--------GWVYCHADGSQ------FDSSLTPLLLNSVLSI  2555

Query  650   RDRFYR--------LANECAQVLSEYVLC-GGGYYVKPGGTSSGDATTAYANSVFNIL  698
             R  F          L N  A+++   +L   G  + K  G +SG  +T   N++  ++
Sbjct  2556  RSFFMEDWWVGKEMLENLYAEIVYTPILTPDGTIFKKFRGNNSGQPSTVVDNTLMVVI  2613



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Pepper mottle virus (California isolate)]
Sequence ID: Q01500.1 Length: 3068 
Range 1: 2497 to 2601

Score:31.2 bits(69), Expect:2.3, 
Method:Compositional matrix adjust., 
Identities:28/113(25%), Positives:46/113(40%), Gaps:11/113(9%)

Query  589   VIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAM--PNMCRIFASLILARKHGTC  646
              +G TKFYGGWD +L  L          GW Y   D +    ++     + +L  ++   
Sbjct  2497  TVGMTKFYGGWDKLLTALP--------AGWIYCDADGSQFDSSLTPYLINAVLTIRYAFM  2548

Query  647   CTTRDRFYRLANECAQVLSEYVLCGGGYYVKP-GGTSSGDATTAYANSVFNIL  698
                   +  L N   +++   +    G  VK   G +SG  +T   NS+  +L
Sbjct  2549  EDWDIGYKMLQNLYTEIIYTPISTPDGTIVKKFRGNNSGQPSTVVDNSLMVVL  2601



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Zucchini yellow mosaic virus (strain Singapore)]
Sequence ID: O36979.2 Length: 3083 
Range 1: 2359 to 2525

Score:31.2 bits(69), Expect:2.4, 
Method:Compositional matrix adjust., 
Identities:39/174(22%), Positives:72/174(41%), Gaps:29/174(16%)

Query  455   NYYSYNLPTMC---DIKQMLFCMEVVNKY---FEIYDGGCLNASEVVVNNLDKSAGHPFN  508
             +++ YN P +    D  + L  +  V +    FE  +   +   E + ++L+  A     
Sbjct  2359  DFFKYNKPVVVNQLDHDKFLGAVNGVIRMMCDFEFNECRFITDPEEIYDSLNMKAAIGAQ  2418

Query  509   KFGKARVYYESM-SYQEQDELFAMTKR--NVIPTMTQMNLKYAISA-----KNRARTVAG  560
               GK + Y+E + ++  +  LF   +R  N    +   +LK  +        N+ RT   
Sbjct  2419  YRGKKKEYFEGLDNFDRERLLFQSCERLFNGHKGLWNGSLKAELRPLEKVQANKTRTFTA  2478

Query  561   VSILSTMT--------NRQYHQKMLKSMAATRGATCVIGTTKFYGGWDFMLKTL  606
               I + +         N +++ K LK           +G TKFYGGWD +++ L
Sbjct  2479  APIDTLLGAKVCVDDFNNEFYSKNLK-------CPWTVGMTKFYGGWDKLMREL  2525



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Plum pox virus isolate NAT]
Sequence ID: P17766.1 Length: 3125 
Range 1: 2514 to 2538

Score:31.2 bits(69), Expect:2.7, 
Method:Compositional matrix adjust., 
Identities:16/35(46%), Positives:19/35(54%), Gaps:10/35(28%)

Query  590   IGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCD  624
             +G TKF GGWD +LK L +        GW Y  CD
Sbjct  2514  VGMTKFRGGWDKLLKALPE--------GWIY--CD  2538



>RecName: Full=RNA-directed RNA polymerase; Short=RdRp; AltName: Full=RNA replicase; Short=Protein A [Atlantic halibut nodavirus]
Sequence ID: Q9DIC5.1 Length: 981 
Range 1: 160 to 246

Score:30.4 bits(67), Expect:3.6, 
Method:Compositional matrix adjust., 
Identities:21/88(24%), Positives:38/88(43%), Gaps:3/88(3%)

Query  270  PLTEYDFTDYKV--QLFEKYFKYWDQTYHANCVNCTDDRCVLHCANFNVLFAMTMPKTCF  327
            P+  Y F    V  ++ + YF   D + H       D R  +   N + ++ ++ P T F
Sbjct  160  PVLMYTFQPSTVSGEVKDGYFTITDDSVHYRVAGGKDVRHRIWNYNQDTMYTVSRP-TGF  218

Query  328  GPIVRKIFVDGVPFVVSCGYHYKELGLV  355
               +++I  D       CG+ Y +LG+ 
Sbjct  219  WENLKRILRDITGITALCGFLYNKLGMA  246



>RecName: Full=RNA-directed RNA polymerase L; Short=Protein L; AltName: Full=Large structural protein; AltName: Full=Replicase; AltName: Full=Transcriptase [Mobala mammarenavirus]
Sequence ID: Q27YE5.1 Length: 2220 
Range 1: 1528 to 1671

Score:30.4 bits(67), Expect:3.7, 
Method:Compositional matrix adjust., 
Identities:37/157(24%), Positives:64/157(40%), Gaps:19/157(12%)

Query  479   KYFEIYDGGCLNASEVVVNNLDKSAGHPFNKFGKARVYYESMSYQEQDELFAMTKRNVIP  538
             K  +I+D   LN  E+ ++ L+ SA +P     + +V Y      E+++L         P
Sbjct  1528  KLSKIFDTEILNDEELGLSWLNLSAYYPLRMVLRQKVIYTGAVNVEEEKL---------P  1578

Query  539   TMTQMNLKYAISAKNRARTVAGVSILSTMTNRQYHQKMLKS----MAATRGATCVIGTTK  594
             T+ +  L+  +S+     T     +LS   NR   Q  + S    +  T G+ CV G  +
Sbjct  1579  TIVK-TLQNKLSSN---FTRGAQKLLSEAINRSAFQSCIASGFVGLCRTLGSKCVRGPER  1634

Query  595   --FYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPN  629
               FY         + + V    +MG D  +    + N
Sbjct  1635  ENFYIKSIMNQSMMMEGVSRELVMGVDVWRVRNPLDN  1671



>RecName: Full=Uncharacterized protein L231 [Acanthamoeba polyphaga mimivirus]
Sequence ID: Q5UQC2.1 Length: 191 
Range 1: 54 to 80

Score:29.6 bits(65), Expect:4.0, 
Method:Composition-based stats., 
Identities:11/27(41%), Positives:16/27(59%), Gaps:0/27(0%)

Query  592  TTKFYGGWDFMLKTLYKDVDNPHLMGW  618
            T K +  WDF+ K   KD++  +L GW
Sbjct  54   TYKKHAYWDFLYKKFVKDIEKQNLAGW  80



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Zucchini yellow mosaic virus (strain Reunion Island)]
Sequence ID: Q89330.1 Length: 3083 
Range 1: 2359 to 2525

Score:30.4 bits(67), Expect:4.1, 
Method:Compositional matrix adjust., 
Identities:37/174(21%), Positives:71/174(40%), Gaps:29/174(16%)

Query  455   NYYSYNLPTMCDIKQMLFCMEVVNKY------FEIYDGGCLNASEVVVNNLDKSAGHPFN  508
             +++ YN P + +       +E V+        FE  +   +   E + ++L+  A     
Sbjct  2359  DFFKYNKPVIVNQLDHDKFLEAVDGVIRMMCDFEFNECRFITDPEEIYSSLNMKAAIGAQ  2418

Query  509   KFGKARVYYESM-SYQEQDELFAMTKR--NVIPTMTQMNLKYAISA-----KNRARTVAG  560
               GK + Y+E + ++  +  LF   +R  N    +   +LK  +        N+ RT   
Sbjct  2419  YRGKKKEYFEGLDNFDMERLLFQSCERLFNGYKGLWNGSLKAELRPLEKVQANKTRTFTA  2478

Query  561   VSILSTMT--------NRQYHQKMLKSMAATRGATCVIGTTKFYGGWDFMLKTL  606
               I + +         N +++ K LK           +G +KFYGGWD +++ L
Sbjct  2479  APIDTLLGAKVCVDDFNNEFYSKNLK-------CPWTVGMSKFYGGWDKLMRAL  2525



>RecName: Full=RNA1 polyprotein; AltName: Full=Genome polyprotein B; Contains: RecName: Full=Protease cofactor; Contains: RecName: Full=Putative helicase; AltName: Full=Membrane-binding protein; AltName: Full=NTP-binding protein; Short=NTB; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Picornain 3C-like protease; Short=3C-like protease; Contains: RecName: Full=RNA-directed RNA polymerase [Broad bean wilt virus 1 ATCC PV132]
Sequence ID: Q76L40.1 Length: 1842 
Range 1: 1394 to 1497

Score:30.4 bits(67), Expect:4.1, 
Method:Compositional matrix adjust., 
Identities:24/109(22%), Positives:42/109(38%), Gaps:5/109(4%)

Query  588   CVIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCC  647
             C +G   +   W  +   L +  ++  ++  DY + D  +P    +  + + +   G   
Sbjct  1394  CQVGINPYSRQWGKVADRLLEKGNS--ILCCDYSRFDGFLPKCIMVKIAEMFSNIVGETG  1451

Query  648   TTRDRFYRLANECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFN  696
               R++   L   C    S Y +CG   Y    G  SG   T   NS+ N
Sbjct  1452  AEREQTKNLMLACC---SRYAICGRVLYRVENGIPSGFPLTVIVNSILN  1497



>RecName: Full=RNA1 polyprotein; AltName: Full=Genome polyprotein B; Contains: RecName: Full=Protease cofactor; Contains: RecName: Full=Putative helicase; AltName: Full=Membrane-binding protein; AltName: Full=NTP-binding protein; Short=NTB; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Picornain 3C-like protease; Short=3C-like protease; Contains: RecName: Full=RNA-directed RNA polymerase [Broad bean wilt virus 2]
Sequence ID: Q9WNW0.1 Length: 1870 
Range 1: 1421 to 1525

Score:30.4 bits(67), Expect:4.1, 
Method:Compositional matrix adjust., 
Identities:27/110(25%), Positives:40/110(36%), Gaps:5/110(4%)

Query  587   TCVIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTC  646
             T  +G   +   W  M   L    +N  ++  DY + D  +P         ++AR   T 
Sbjct  1421  TAQVGINPYSREWTRMANKLLSKGNN--ILCCDYSRFDGFLPKCIMNEIGNMIARLMKTD  1478

Query  647   CTTRDRFYRLANECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFN  696
               +R +   L   C    S Y +C    Y    G  SG   T   NS+ N
Sbjct  1479  EVSRTQIKNLMLACT---SRYAMCNRVLYRVENGIPSGFPLTVIVNSILN  1525



>RecName: Full=RNA1 polyprotein; AltName: Full=Genome polyprotein B; AltName: Full=P1; Contains: RecName: Full=Protease cofactor; AltName: Full=32 kDa protein; Contains: RecName: Full=Putative helicase; AltName: Full=58 kDa protein; AltName: Full=Membrane-binding protein; AltName: Full=NTP-binding protein; Short=NTB; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Picornain 3C-like protease; Short=3C-like protease; AltName: Full=24 kDa protein; Contains: RecName: Full=RNA-directed RNA polymerase; AltName: Full=87 kDa protein [Cowpea severe mosaic virus (strain DG)]
Sequence ID: P36312.1 Length: 1858 
Range 1: 1395 to 1501

Score:30.4 bits(67), Expect:4.5, 
Method:Compositional matrix adjust., 
Identities:26/112(23%), Positives:42/112(37%), Gaps:5/112(4%)

Query  587   TCVIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTC  646
             +C +G   +   W  +  +L +  +N  ++  DY   D  +        S ++    G  
Sbjct  1395  SCQVGINPYGMEWSRLAMSLLEKGNN--ILCCDYSSFDGLLTKQVMHLMSEMINELCGGS  1452

Query  647   CTTRDRFYRLANECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFNIL  698
                + +   L   C    S Y LC G  +    G  SG   T   NS+FN L
Sbjct  1453  SRLKQQRTNLLMACC---SRYALCKGEVWRVECGIPSGFPLTVICNSIFNEL  1501



>RecName: Full=Hexon protein; Short=CP-H; AltName: Full=Protein II [Human adenovirus 16]
Sequence ID: P36854.1 Length: 940 
Range 1: 474 to 531

Score:30.0 bits(66), Expect:4.5, 
Method:Compositional matrix adjust., 
Identities:18/58(31%), Positives:28/58(48%), Gaps:4/58(6%)

Query  149  KYGCCDVTYFENKLWFDFVEN----PSVIGVYHKLGERVRQAILNTVKFCDHMVKAGL  202
            KY   +VT  ENK  +D++      PS++  Y  +G R     ++ V   +H   AGL
Sbjct  474  KYTPSNVTLPENKNTYDYMNGRVVPPSLVDTYVNIGARWSLDAMDNVNPFNHHRNAGL  531



>RecName: Full=Gag polyprotein; AltName: Full=Pr53Gag; Contains: RecName: Full=Matrix protein p16; Short=MA; Contains: RecName: Full=Capsid protein p26; Short=CA; Contains: RecName: Full=Nucleocapsid protein p13; Short=NC [Jembrana disease virus]
Sequence ID: Q82850.1 Length: 436 
Range 1: 36 to 113

Score:30.0 bits(66), Expect:4.8, 
Method:Compositional matrix adjust., 
Identities:20/91(22%), Positives:39/91(42%), Gaps:13/91(14%)

Query  837  RILSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDL  896
            R++   C +D+    +  +++ RF SL +   PL   ++          L  ++ L+  L
Sbjct  36   RLMGLDCCIDEATAAEVAILIGRFQSLDLQDSPLKGKDEK-------AILTTLKVLWSLL  88

Query  897  TGHMLDSYSVMLCGDNSAKFWEEAFYRDLYS  927
             GH  ++       D + K+WE    R+  S
Sbjct  89   AGHHPEN------SDMAEKYWEAWTIRERES  113



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Plum pox virus strain Rankovic]
Sequence ID: P17767.2 Length: 3140 
Range 1: 2514 to 2538

Score:30.0 bits(66), Expect:5.0, 
Method:Compositional matrix adjust., 
Identities:15/35(43%), Positives:19/35(54%), Gaps:10/35(28%)

Query  590   IGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCD  624
             +G TKF GGWD +L+ L +        GW Y  CD
Sbjct  2514  VGMTKFRGGWDKLLRALPE--------GWIY--CD  2538



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Plum pox virus D]
Sequence ID: P13529.2 Length: 3141 
Range 1: 2515 to 2539

Score:30.0 bits(66), Expect:5.0, 
Method:Compositional matrix adjust., 
Identities:15/35(43%), Positives:19/35(54%), Gaps:10/35(28%)

Query  590   IGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCD  624
             +G TKF GGWD +L+ L +        GW Y  CD
Sbjct  2515  VGMTKFRGGWDKLLRALPE--------GWIY--CD  2539



>RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr170Gag-Pol; Contains: RecName: Full=Matrix protein p16; Short=MA; Contains: RecName: Full=Capsid protein p26; Short=CA; Contains: RecName: Full=Transframe peptide; AltName: Full=p11; Contains: RecName: Full=Protease; AltName: Full=P119; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=Exoribonuclease H; AltName: Full=P72; Contains: RecName: Full=Integrase; Short=IN [Jembrana disease virus]
Sequence ID: Q82851.1 Length: 1432 
Range 1: 36 to 114

Score:29.6 bits(65), Expect:6.5, 
Method:Compositional matrix adjust., 
Identities:20/92(22%), Positives:39/92(42%), Gaps:13/92(14%)

Query  837  RILSAGCFVDDIVKTDGTLMVERFVSLAIDAYPLTKHEDIEYQNVFWVYLQYIEKLYKDL  896
            R++   C +D+    +  +++ RF SL +   PL   ++          L  ++ L+  L
Sbjct  36   RLMGLDCCIDEATAAEVAILIGRFQSLDLQDSPLKGKDEK-------AILTTLKVLWSLL  88

Query  897  TGHMLDSYSVMLCGDNSAKFWEEAFYRDLYSS  928
             GH  ++       D + K+WE    R+  S 
Sbjct  89   AGHHPEN------SDMAEKYWEAWTIRERESQ  114



>RecName: Full=RNA1 polyprotein; AltName: Full=P1; Contains: RecName: Full=P1A protein; Short=1A; AltName: Full=Protease cofactor; Contains: RecName: Full=Putative ATP-dependent helicase; AltName: Full=1B; AltName: Full=Membrane-binding protein; AltName: Full=NTP-binding protein; Short=NTB; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=1C-VPg; Contains: RecName: Full=Picornain 3C-like protease; Short=3C-like protease; AltName: Full=1D-PRO; Contains: RecName: Full=RNA-directed RNA polymerase; AltName: Full=1E-POL [Grapevine chrome mosaic virus]
Sequence ID: P13025.1 Length: 2252 
Range 1: 1673 to 1780

Score:29.6 bits(65), Expect:7.5, 
Method:Compositional matrix adjust., 
Identities:31/112(28%), Positives:45/112(40%), Gaps:7/112(6%)

Query  588   CVIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAM-PNMCRIFASLI--LARKHG  644
             C +GT  +   W  +L  L + V     +  DY   D  + P +  + A +I  L  + G
Sbjct  1673  CQVGTNPYSREWGHLLNRLRR-VKTNEAINCDYSGFDGLLTPQLVEMMAKMINRLYLRSG  1731

Query  645   TCCTTRDRFYRLANECAQVLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFN  696
                  + +  RL N    +   Y L G   Y    G  SG A T   NS+FN
Sbjct  1732  ESEVMQAQ--RL-NMIMALCGRYALVGTQVYKVNCGLPSGFALTVVMNSIFN  1780



>RecName: Full=RNA-directed RNA polymerase; Short=RdRp; AltName: Full=RNA replicase; Short=Protein A [Striped jack nervous necrosis virus]
Sequence ID: Q9QAZ8.1 Length: 983 
Range 1: 160 to 246

Score:29.6 bits(65), Expect:7.5, 
Method:Compositional matrix adjust., 
Identities:22/88(25%), Positives:36/88(40%), Gaps:3/88(3%)

Query  270  PLTEYDFTDYKV--QLFEKYFKYWDQTYHANCVNCTDDRCVLHCANFNVLFAMTMPKTCF  327
            P+  Y F    V  ++ + YF   D   H       D R  +   N + +F  + P+  F
Sbjct  160  PILLYTFQPSTVSGEVKDGYFTITDDHVHYRVAGGKDVRHRIWNYNQDTMFVRSKPR-GF  218

Query  328  GPIVRKIFVDGVPFVVSCGYHYKELGLV  355
               +++I  D       CGY Y +LG+ 
Sbjct  219  WASLKQILRDITGITALCGYLYLKLGIA  246



>RecName: Full=RNA1 polyprotein; AltName: Full=P1; Contains: RecName: Full=P1A protein; Short=1A; AltName: Full=Protease cofactor; Contains: RecName: Full=Putative ATP-dependent helicase; AltName: Full=1B; AltName: Full=Membrane-binding protein; AltName: Full=NTP-binding protein; Short=NTB; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=1C-VPg; Contains: RecName: Full=Picornain 3C-like protease; Short=3C-like protease; AltName: Full=1D-PRO; Contains: RecName: Full=RNA-directed RNA polymerase; AltName: Full=1E-POL [Beet ringspot virus]
Sequence ID: P18522.1 Length: 2264 
Range 1: 1689 to 1796

Score:29.3 bits(64), Expect:8.4, 
Method:Compositional matrix adjust., 
Identities:32/120(27%), Positives:43/120(35%), Gaps:23/120(19%)

Query  588   CVIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCDRAMPNMCRIFASLILARKHGTCC  647
             C +GT  +   W  ML  L +            PK + A+      F  L+ A+      
Sbjct  1689  CQVGTNPYSREWGHMLNRLMR------------PKTNEAINCDYSGFDGLLNAQVIECIA  1736

Query  648   TTRDRFYRLANEC----AQ-------VLSEYVLCGGGYYVKPGGTSSGDATTAYANSVFN  696
                +R Y L+ E     AQ       ++  Y   G   Y    G  SG A T   NSVFN
Sbjct  1737  KMINRLYALSGESEVQQAQRYNMLMALVGRYAFVGPEVYKVNCGLPSGFALTVVVNSVFN  1796



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Lettuce mosaic virus (strain 0 / French isolate)]
Sequence ID: P31999.3 Length: 3255 
Range 1: 2675 to 2703

Score:29.3 bits(64), Expect:9.0, 
Method:Compositional matrix adjust., 
Identities:16/39(41%), Positives:19/39(48%), Gaps:10/39(25%)

Query  586   ATCVIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCD  624
             A   +G TKFYGGW+ +L  L          GW Y  CD
Sbjct  2675  APWTVGMTKFYGGWNELLTKLPD--------GWVY--CD  2703



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Potato virus A]
Sequence ID: Q85197.1 Length: 3059 
Range 1: 2408 to 2515

Score:29.3 bits(64), Expect:9.1, 
Method:Compositional matrix adjust., 
Identities:31/115(27%), Positives:49/115(42%), Gaps:23/115(20%)

Query  511   GKARVYYESMSYQEQDELFAMT-KRNVIPTMTQMN--LKYAISAK-----NRARTVAGVS  562
             GK R Y+++MS  E++ L  ++ KR     +   N  LK  +  K     N+ RT     
Sbjct  2408  GKKRDYFDAMSPSEREHLLFLSCKRLYFGQLGVWNGSLKAELRPKEKVDLNKTRTFTAAP  2467

Query  563   ILSTMT--------NRQYHQKMLKSMAATRGATCVIGTTKFYGGWDFMLKTLYKD  609
             I + +         N  ++   LK       A   +G TKFYG W+ ++  L  D
Sbjct  2468  IETLLGGKVCVDDFNNMFYSLHLK-------APWSVGMTKFYGTWNQLMCKLPDD  2515



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Lettuce mosaic virus (strain E)]
Sequence ID: P89876.1 Length: 3255 
Range 1: 2675 to 2703

Score:29.3 bits(64), Expect:9.2, 
Method:Compositional matrix adjust., 
Identities:16/39(41%), Positives:19/39(48%), Gaps:10/39(25%)

Query  586   ATCVIGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCD  624
             A   +G TKFYGGW+ +L  L          GW Y  CD
Sbjct  2675  APWTVGMTKFYGGWNELLTKLPD--------GWVY--CD  2703



>RecName: Full=Genome polyprotein; Contains: RecName: Full=P1 proteinase; AltName: Full=N-terminal protein; Contains: RecName: Full=Helper component proteinase; Short=HC-pro; Contains: RecName: Full=Protein P3; Contains: RecName: Full=6 kDa protein 1; Short=6K1; Contains: RecName: Full=Cytoplasmic inclusion protein; Short=CI; Contains: RecName: Full=6 kDa protein 2; Short=6K2; Contains: RecName: Full=Viral genome-linked protein; AltName: Full=VPg; Contains: RecName: Full=Nuclear inclusion protein A; Short=NI-a; Short=NIa; AltName: Full=49 kDa proteinase; Short=49 kDa-Pro; AltName: Full=NIa-pro; Contains: RecName: Full=Nuclear inclusion protein B; Short=NI-b; Short=NIb; AltName: Full=RNA-directed RNA polymerase; Contains: RecName: Full=Capsid protein; Short=CP; AltName: Full=Coat protein [Plum pox virus SK 68]
Sequence ID: Q84934.1 Length: 3140 
Range 1: 2514 to 2538

Score:29.3 bits(64), Expect:9.8, 
Method:Compositional matrix adjust., 
Identities:15/35(43%), Positives:18/35(51%), Gaps:10/35(28%)

Query  590   IGTTKFYGGWDFMLKTLYKDVDNPHLMGWDYPKCD  624
             +G TKF GGWD +L+ L          GW Y  CD
Sbjct  2514  VGMTKFRGGWDKLLRALPD--------GWIY--CD  2538