Distribution of 199 Blast Hits on the Query Sequence

RID=1050847486-011378-19709, gi|29826277|ref|NC_004718.1| SARS coronavirus, co... Page 1 <strong>of</strong> 201
http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
4/20/2003
BLASTX 2.2.6 [Apr-09-2003]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (<strong>199</strong>7),
"Gapped BLAST and PSI-BLAST: a new generation <strong>of</strong> protein database search
programs", Nucleic Acids Res. 25:3389-3402.
RID: 1050847486-011378-19709
Query= gi|29826277|ref|NC_004718.1| SARS coronavirus, complete
genome
(29,736 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
1,416,636 sequences; 455,821,981 total letters
If you have any problems or questions with the results <strong>of</strong> this search
please refer to the BLAST FAQs
Taxonomy reports
<strong>Distribution</strong> <strong>of</strong> <strong>199</strong> <strong>Blast</strong> <strong>Hits</strong> on the Query Sequence
Mouse-over to show defline and scores. Click to show alignments

RID=1050847486-011378-19709, gi|29826277|ref|NC_004718.1| SARS coronavirus, co... Page 2 <strong>of</strong> 201
http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
4/20/2003
Sequences producing significant alignments:
Score E
(bits) Value
gi|29836495|ref|NP_828850.1| orf1a polyprotein [SARS corona... 8364 0.0
gi|29836505|ref|NP_828849.1| putative orf1ab polyprotein [S... 8356 0.0
gi|29837497|ref|NP_828862.1| putative coronavirus nsp1 [SAR... 4620 0.0
gi|6625761|gb|AAF19384.1|AF201929_2 RNA-directed RNA polyme... 3509 0.0
gi|18033972|gb|AAL57305.1| replicase [bovine coronavirus] 3507 0.0
gi|15077820|gb|AAK83365.1| replicase [bovine coronavirus] 3507 0.0
gi|26008080|ref|NP_150073.2| orf1ab polyprotein [Bovine cor... 3503 0.0
gi|133592|sp|P16342|RRPB_CVMA5 RNA-DIRECTED RNA POLYMERASE ... 3502 0.0
gi|4377413|emb|CAA36202.1| open reading frame 1b (AA 1-2733... 3502 0.0
gi|2641128|gb|AAB86818.1| RNA-directed RNA polymerase [muri... 3501 0.0
gi|7769353|gb|AAF69342.1|AF208067_2 RNA-directed RNA polyme... 3499 0.0
gi|26007546|ref|NP_068668.2| ORF1ab polyprotein [Murine hep... 3499 0.0
gi|7769342|gb|AAF69332.1|AF208066_2 RNA-directed RNA polyme... 3490 0.0
gi|14917044|sp|P29982|RRPB_CVMJH RNA-directed RNA polymeras... 3458 0.0
gi|74827|pir||VFIHJH genome polyprotein 1b - murine hepatit... 3458 0.0
gi|17529672|gb|AAL40397.1|AF220295_2 RNA polymerase 1b [bov... 3357 0.0
gi|19387582|ref|NP_598309.1| Pol1 [porcine epidemic diarrhe... 3070 0.0
gi|9635157|ref|NP_058422.1| replicase [Transmissible gastro... 3068 0.0
gi|12175747|ref|NP_073549.1| replicase polyprotein 1ab [Hum... 3038 0.0
gi|10242469|ref|NP_066134.1| ORF1ab polyprotein; frameshift... 3021 0.0
gi|14149033|emb|CAC39112.1| replicase polyprotein 1ab [Avia... 3015 0.0
gi|133594|sp|P26314|RRPB_IBVB RNA-DIRECTED RNA POLYMERASE (... 2987 0.0
gi|29293454|gb|AAO67706.1| ORF1b polyprotein [Avian infecti... 2981 0.0
gi|458735|emb|CAA83018.1| potential chimeric protein [Avian... 2524 0.0
gi|29836496|ref|NP_828851.1| putative E2 glycoprotein precu... 2462 0.0
gi|29837504|ref|NP_828869.1| putative coronavirus nsp9 (RdR... 1920 0.0

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gi|4454357|emb|CAA09623.1| hypothetical protein [Transmissi... 1849 0.0
gi|18033982|gb|AAL57315.1| replicase [bovine coronavirus] 1754 0.0
gi|15081555|ref|NP_150074.1| orf1a polyprotein [Bovine coro... 1752 0.0
gi|17529671|gb|AAL40396.1|AF220295_1 RNA polymerase 1a [bov... 1749 0.0
gi|7769341|gb|AAF69331.1|AF208066_1 RNA-directed RNA polyme... 1716 0.0
gi|9629815|ref|NP_045298.1| ORF1a polyprotein [Murine hepat... 1715 0.0
gi|6625760|gb|AAF19383.1|AF201929_1 RNA-directed RNA polyme... 1714 0.0
gi|7739594|gb|AAF68919.1|AF207902_1 RNA-directed RNA polyme... 1714 0.0
gi|7769352|gb|AAF69341.1|AF208067_1 RNA-directed RNA polyme... 1713 0.0
gi|266958|sp|P19751|RRPA_CVMJH RNA-DIRECTED RNA POLYMERASE ... 1671 0.0
gi|29837496|ref|NP_828861.1| putative counterpart <strong>of</strong> MHV p6... 1302 0.0
gi|25121569|ref|NP_740616.1| coronavirus nsp9 (RdRp); RNA-d... 1286 0.0
gi|26008090|ref|NP_742138.1| coronavirus nsp9 (RdRp); RNA-d... 1275 0.0
gi|29837505|ref|NP_828870.1| putative coronavirus nsp10 (MB... 1232 0.0
gi|1418974|emb|CAA93448.1| potential chimaeric protein betw... 1210 0.0
gi|25121553|ref|NP_740629.1| coronavirus nsp9 (RdRp); RNA-d... 1160 0.0
gi|29837506|ref|NP_828871.1| putative coronavirus nsp11 [SA... 1122 0.0
gi|12175746|ref|NP_073550.1| replicase polyprotein 1a [Huma... 1056 0.0
gi|464694|sp|Q05002|RRPA_CVH22 RNA-directed RNA polymerase ... 1053 0.0
gi|872319|emb|CAA83979.1| orf1a [Transmissible gastroenteri... 999 0.0
gi|9635158|ref|NP_058423.1| replicase [Transmissible gastro... 999 0.0
gi|9626536|ref|NP_040829.1| ORF1a polyprotein [Avian infect... 981 0.0
gi|29293453|gb|AAO67705.1| ORF1a polyprotein [Avian infecti... 978 0.0
gi|25121562|ref|NP_740609.1| coronavirus nsp1 (PL1-PRO, PL2... 870 0.0
gi|26008091|ref|NP_742139.1| coronavirus nsp10 (MB, NTPase/... 868 0.0
gi|25121570|ref|NP_740617.1| coronavirus nsp10 (MB, NTPase/... 857 0.0
gi|25121554|ref|NP_740630.1| coronavirus nsp10; metal-bindi... 731 0.0
gi|29837507|ref|NP_828872.1| putative coronavirus nsp12 [SA... 693 0.0
gi|29836503|ref|NP_828858.1| putative nucleocapsid protein ... 683 0.0
gi|25121571|ref|NP_740618.1| coronavirus nsp11 [Murine hepa... 664 0.0
gi|26008092|ref|NP_742140.1| coronavirus nsp11 [Bovine coro... 662 0.0
gi|29837498|ref|NP_828863.1| putative coronavirus nsp2 (3CL... 639 e-180
gi|29837508|ref|NP_828873.1| putative coronavirus nsp13 [SA... 610 e-172
gi|25121555|ref|NP_740631.1| coronavirus nsp11 [Avian infec... 589 e-166
gi|29836497|ref|NP_828852.1| putative uncharacterized prote... 568 e-159
gi|547041|gb|AAB30950.1| S=viral surface peplomer {monoclon... 536 e-150
gi|138178|sp|P11225|VGL2_CVMJH E2 glycoprotein precursor (S... 535 e-149
gi|7769344|gb|AAF69334.1|AF208066_5 spike glycoprotein prec... 521 e-145
gi|74849|pir||VGIH59 E2 glycoprotein precursor - murine hep... 516 e-144
gi|133593|sp|P18457|RRPB_CVPFS RNA-DIRECTED RNA POLYMERASE ... 516 e-144
gi|7769355|gb|AAF69344.1|AF208067_5 spike glycoprotein prec... 515 e-143
gi|28916168|gb|AAO59467.1| hybrid spike protein [RNA transc... 515 e-143
gi|9629814|ref|NP_045300.1| E2 glycoprotein precursor [Muri... 515 e-143
gi|1352862|sp|P11224|VGL2_CVMA5 E2 glycoprotein precursor (... 514 e-143
gi|29837499|ref|NP_828864.1| putative coronavirus nsp3 (HD2... 513 e-143
gi|5565844|gb|AAD45229.1|AF107212_1 spike glycoprotein [mur... 504 e-140
gi|6179903|gb|AAF05704.1| spike protein [murine hepatitis v... 501 e-139
gi|4927029|gb|AAD32992.1| RNA-directed RNA polymerase [porc... 476 e-131
gi|4927023|gb|AAD32989.1| RNA-directed RNA polymerase [bovi... 474 e-131
gi|4927031|gb|AAD32993.1| RNA-directed RNA polymerase [Huma... 474 e-131
gi|4927033|gb|AAD32994.1| RNA-directed RNA polymerase [rat ... 473 e-130
gi|138171|sp|P25192|VGL2_CVBLY E2 glycoprotein precursor (S... 463 e-128
gi|6706916|gb|AAF25499.1|AF058942_3 spike glycoprotein [bov... 463 e-128
gi|74857|pir||VGIHLY E2 glycoprotein precursor - bovine cor... 461 e-127
gi|6706938|gb|AAF25519.1|AF058944_3 spike glycoprotein [bov... 461 e-127
gi|15081547|ref|NP_150077.1| spike structural protein [Bovi... 461 e-127
gi|138169|sp|P25190|VGL2_CVBF E2 glycoprotein precursor (Sp... 460 e-127
gi|6706927|gb|AAF25509.1|AF058943_3 spike glycoprotein [bov... 460 e-127
gi|18033975|gb|AAL57308.1| spike structural protein [bovine... 460 e-127
gi|138172|sp|P15777|VGL2_CVBM E2 glycoprotein precursor (Sp... 459 e-126

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gi|133595|sp|P12723|RRPB_IBVK RNA-DIRECTED RNA POLYMERASE (... 459 e-126
gi|1352861|sp|P25193|VGL2_CVBQ E2 glycoprotein precursor (S... 457 e-126
gi|138174|sp|P25194|VGL2_CVBV E2 glycoprotein precursor (Sp... 457 e-126
gi|74856|pir||VGIHVA E2 glycoprotein precursor - bovine cor... 457 e-126
gi|74853|pir||VGIHQU E2 glycoprotein precursor - bovine cor... 457 e-126
gi|628284|pir||S44241 surface protein - human coronavirus >... 456 e-126
gi|138170|sp|P25191|VGL2_CVBL9 E2 glycoprotein precursor (S... 456 e-125
gi|628283|pir||S44240 surface protein - human coronavirus >... 454 e-125
gi|561672|gb|AAA87063.1| S glycoprotein [murine hepatitis v... 454 e-125
gi|465382|sp|Q02385|VGL2_CVMJC E2 glycoprotein precursor (S... 453 e-125
gi|9719318|gb|AAF97738.1|AF207551_3 spike protein [rat sial... 452 e-124
gi|138176|sp|P22432|VGL2_CVM4 E2 glycoprotein precursor (Sp... 452 e-124
gi|561670|gb|AAA87062.1| S glycoprotein [murine hepatitis v... 452 e-124
gi|2662177|dbj|BAA23719.1| spike glycoprotein [Murine hepat... 451 e-124
Alignments
Get selected sequences Select all Deselect all
>gi|29836495|ref|NP_828850.1|
Length = 4382
orf1a polyprotein [SARS coronavirus]
Score = 8364 bits (21703), Expect = 0.0
Identities = 4166/4382 (95%), Positives = 4166/4382 (95%)
Frame = +1
Query: 250 MESLVLGVNEKTHVQLSLPVLQVRDVLVRGFGDSVEEALSEAREHLKNGTCGLVELEKGV 429
MESLVLGVNEKTHVQLSLPVLQVRDVLVRGFGDSVEEALSEAREHLKNGTCGLVELEKGV
Sbjct: 1 MESLVLGVNEKTHVQLSLPVLQVRDVLVRGFGDSVEEALSEAREHLKNGTCGLVELEKGV 60
Query: 430 LPQLEQPYVFIKRSDALSTNHGHKVVELVAEMDGIQYGRSGITLGVLVPHVGETPIAYRN 609
LPQLEQPYVFIKRSDALSTNHGHKVVELVAEMDGIQYGRSGITLGVLVPHVGETPIAYRN
Sbjct: 61 LPQLEQPYVFIKRSDALSTNHGHKVVELVAEMDGIQYGRSGITLGVLVPHVGETPIAYRN 120
Query: 610 VLLRKNGNKGAGGHSYGIDLKSYDLGDELGTDPIEDYEQNWNTKHGSGALRELTRELNGG 789
VLLRKNGNKGAGGHSYGIDLKSYDLGDELGTDPIEDYEQNWNTKHGSGALRELTRELNGG
Sbjct: 121 VLLRKNGNKGAGGHSYGIDLKSYDLGDELGTDPIEDYEQNWNTKHGSGALRELTRELNGG 180
Query: 790 AVTRYVDNNFCGPDGYPLDCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIAW 969
AVTRYVDNNFCGPDGYPLDCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIAW
Sbjct: 181 AVTRYVDNNFCGPDGYPLDCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIAW 240
Query: 970 FTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI 1149
FTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI
Sbjct: 241 FTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI 300
Query: 1150 RSVYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEHCGTENLVIEGPTTCGYL 1329
RSVYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEHCGTENLVIEGPTTCGYL
Sbjct: 301 RSVYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEHCGTENLVIEGPTTCGYL 360
Query: 1330 PTNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKR 1509
PTNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKR
Sbjct: 361 PTNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKR 420
Query: 1510 AYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILASF 1689
AYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILASF

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Sbjct: 421 AYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILASF 480
Query: 1690 SASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVKGAWNIGQQRSVLTPLCGFPSQA 1869
SASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVKGAWNIGQQRSVLTPLCGFPSQA
Sbjct: 481 SASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVKGAWNIGQQRSVLTPLCGFPSQA 540
Query: 1870 AGVIRSIFARTLDAANHSIPDLQRAAVTILDGISEQSLRLVDAMVYTSDLLTNSVIIMAY 2049
AGVIRSIFARTLDAANHSIPDLQRAAVTILDGISEQSLRLVDAMVYTSDLLTNSVIIMAY
Sbjct: 541 AGVIRSIFARTLDAANHSIPDLQRAAVTILDGISEQSLRLVDAMVYTSDLLTNSVIIMAY 600
Query: 2050 VTGGLVQQTSQWLSNLLGTTVEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDIV 2229
VTGGLVQQTSQWLSNLLGTTVEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDIV
Sbjct: 601 VTGGLVQQTSQWLSNLLGTTVEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDIV 660
Query: 2230 KGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQC 2409
KGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQC
Sbjct: 661 KGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQC 720
Query: 2410 IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIVG 2589
IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIVG
Sbjct: 721 IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIVG 780
Query: 2590 TPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFRLKGGAPIKGVTFGEDTVWEVQGYKNV 2769
TPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFRLKGGAPIKGVTFGEDTVWEVQGYKNV
Sbjct: 781 TPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFRLKGGAPIKGVTFGEDTVWEVQGYKNV 840
Query: 2770 RITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSDLLTNMGIDLDE 2949
RITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSDLLTNMGIDLDE
Sbjct: 841 RITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSDLLTNMGIDLDE 900
Query: 2950 WSVATFYLFDDAGEENFSSRMYCSFYPPXXXXXXXXXXXXXXXXXXXXXXYGTEDDYQGL 3129
WSVATFYLFDDAGEENFSSRMYCSFYPP
YGTEDDYQGL
Sbjct: 901 WSVATFYLFDDAGEENFSSRMYCSFYPPDEEEEDDAECEEEEIDETCEHEYGTEDDYQGL 960
Query: 3130 PLEFGASAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXVNQFTGYLKLTDNVAIKC 3309
PLEFGASA
VNQFTGYLKLTDNVAIKC
Sbjct: 961 PLEFGASAETVRVEEEEEEDWLDDTTEQSEIEPEPEPTPEEPVNQFTGYLKLTDNVAIKC 1020
Query: 3310 VDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGS 3489
VDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGS
Sbjct: 1021 VDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGS 1080
Query: 3490 CLLSGHNLAKKCLHVVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSL 3669
CLLSGHNLAKKCLHVVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSL
Sbjct: 1081 CLLSGHNLAKKCLHVVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSL 1140
Query: 3670 QVCVQTVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDSKTEEKSVVQK 3849
QVCVQTVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDSKTEEKSVVQK
Sbjct: 1141 QVCVQTVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDSKTEEKSVVQK 1200
Query: 3850 PVDVKPKIKACIDEVTTTLEETKFLTNKLLLFADINGKLYHDSQNMLRGEDMSFLEKDAP 4029
PVDVKPKIKACIDEVTTTLEETKFLTNKLLLFADINGKLYHDSQNMLRGEDMSFLEKDAP
Sbjct: 1201 PVDVKPKIKACIDEVTTTLEETKFLTNKLLLFADINGKLYHDSQNMLRGEDMSFLEKDAP 1260
Query: 4030 YMVGDVITSGDITCVVIPSKKAGGTTEMLSRALKKVPVDEYITTYPGQGCAGYTLEEAKT 4209
YMVGDVITSGDITCVVIPSKKAGGTTEMLSRALKKVPVDEYITTYPGQGCAGYTLEEAKT
Sbjct: 1261 YMVGDVITSGDITCVVIPSKKAGGTTEMLSRALKKVPVDEYITTYPGQGCAGYTLEEAKT 1320
Query: 4210 ALKKCKSAFYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQR 4389
ALKKCKSAFYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQR

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Sbjct: 1321 ALKKCKSAFYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQR 1380
Query: 4390 KYKGIKIQEGIVDYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAAR 4569
KYKGIKIQEGIVDYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAAR
Sbjct: 1381 KYKGIKIQEGIVDYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAAR 1440
Query: 4570 CMRSLKXXXXXXXXXXXXXTTYNGYLTSSSKTSEEHFVETVSLAGSYRDWSYSGQRTELG 4749
CMRSLK
TTYNGYLTSSSKTSEEHFVETVSLAGSYRDWSYSGQRTELG
Sbjct: 1441 CMRSLKAPAVVSVSSPDAVTTYNGYLTSSSKTSEEHFVETVSLAGSYRDWSYSGQRTELG 1500
Query: 4750 VEFLKRGDKIVYHTLESPVEFHLDGEVXXXXXXXXXXXXREVKTIKVFTTVDNTNLHTQL 4929
VEFLKRGDKIVYHTLESPVEFHLDGEV
REVKTIKVFTTVDNTNLHTQL
Sbjct: 1501 VEFLKRGDKIVYHTLESPVEFHLDGEVLSLDKLKSLLSLREVKTIKVFTTVDNTNLHTQL 1560
Query: 4930 VDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFL 5109
VDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFL
Sbjct: 1561 VDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFL 1620
Query: 5110 GRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRAR 5289
GRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRAR
Sbjct: 1621 GRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRAR 1680
Query: 5290 AGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLT 5469
AGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLT
Sbjct: 1681 AGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLT 1740
Query: 5470 GVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLC 5649
GVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLC
Sbjct: 1741 GVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLC 1800
Query: 5650 ANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIKPVSYK 5829
ANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIKPVSYK
Sbjct: 1801 ANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIKPVSYK 1860
Query: 5830 LDGVTYTEIEPKLDGYYKKDNAYYTEQPIDLVPTQPLPNASFDNFKLTCSNTKFADDLNQ 6009
LDGVTYTEIEPKLDGYYKKDNAYYTEQPIDLVPTQPLPNASFDNFKLTCSNTKFADDLNQ
Sbjct: 1861 LDGVTYTEIEPKLDGYYKKDNAYYTEQPIDLVPTQPLPNASFDNFKLTCSNTKFADDLNQ 1920
Query: 6010 MTGFTKPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIVWHINQATTKTTF 6189
MTGFTKPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIVWHINQATTKTTF
Sbjct: 1921 MTGFTKPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIVWHINQATTKTTF 1980
Query: 6190 KPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLACESQQPTSEEVVENPTIQKEVIE 6369
KPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLACESQQPTSEEVVENPTIQKEVIE
Sbjct: 1981 KPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLACESQQPTSEEVVENPTIQKEVIE 2040
Query: 6370 CDVKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIA 6549
CDVKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIA
Sbjct: 2041 CDVKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIA 2100
Query: 6550 THGIAAINSVPWSKILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFT 6729
THGIAAINSVPWSKILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFT
Sbjct: 2101 THGIAAINSVPWSKILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFT 2160
Query: 6730 KSTNSRIRASLPTTIAKNSVKSVAKLCLDAGINYVKSPKFSKLFTIAMWXXXXXXXXXXX 6909
KSTNSRIRASLPTTIAKNSVKSVAKLCLDAGINYVKSPKFSKLFTIAMW
Sbjct: 2161 KSTNSRIRASLPTTIAKNSVKSVAKLCLDAGINYVKSPKFSKLFTIAMWLLLLSICLGSL 2220
Query: 6910 XXVTAAFGVLLSNFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPA 7089
VTAAFGVLLSNFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPA

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Sbjct: 2221 ICVTAAFGVLLSNFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPA 2280
Query: 7090 LETIQVTISSYKLDLTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSW 7269
LETIQVTISSYKLDLTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSW
Sbjct: 2281 LETIQVTISSYKLDLTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSW 2340
Query: 7270 LMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVEC 7449
LMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVEC
Sbjct: 2341 LMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVEC 2400
Query: 7450 TTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINP 7629
TTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINP
Sbjct: 2401 TTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINP 2460
Query: 7630 TDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVF 7809
TDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVF
Sbjct: 2461 TDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVF 2520
Query: 7810 DGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFS 7989
DGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFS
Sbjct: 2521 DGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFS 2580
Query: 7990 VPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHSDL 8169
VPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQG
IECLKLSHHSDL
Sbjct: 2581 VPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGVVDTDVDTKDVIECLKLSHHSDL 2640
Query: 8170 EVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSE 8349
EVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSE
Sbjct: 2641 EVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSE 2700
Query: 8350 QLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVSTCFKLMLKATXXXXXX 8529
QLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVSTCFKLMLKAT
Sbjct: 2701 QLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVSTCFKLMLKATLLCVLA 2760
Query: 8530 XXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAWFSQRGG 8709
YIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAWFSQRGG
Sbjct: 2761 ALVCYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAWFSQRGG 2820
Query: 8710 SYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICYTPSKLI 8889
SYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICYTPSKLI
Sbjct: 2821 SYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICYTPSKLI 2880
Query: 8890 EYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYVLMDGSIIQ 9069
EYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYVLMDGSIIQ
Sbjct: 2881 EYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYVLMDGSIIQ 2940
Query: 9070 FPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRALSGVFCGVDA 9249
FPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRALSGVFCGVDA
Sbjct: 2941 FPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRALSGVFCGVDA 3000
Query: 9250 MNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEYNHVVAANAL 9429
MNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEYNHVVAANAL
Sbjct: 3001 MNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEYNHVVAANAL 3060
Query: 9430 LFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFAMFSPIVPFWITAI 9609
LFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFAMFSPIVPFWITAI
Sbjct: 3061 LFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFAMFSPIVPFWITAI 3120
Query: 9610 YVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTFLLNKEMYLKLRSETLLPLTQ 9789
YVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTFLLNKEMYLKLRSETLLPLTQ

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Sbjct: 3121 YVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTFLLNKEMYLKLRSETLLPLTQ 3180
Query: 9790 YNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNSGADVLYQPPQTSITSAVLQ 9969
YNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNSGADVLYQPPQTSITSAVLQ
Sbjct: 3181 YNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNSGADVLYQPPQTSITSAVLQ 3240
Query: 9970 SGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLIR 10149
SGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLIR
Sbjct: 3241 SGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLIR 3300
Query: 10150 KSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYNG 10329
KSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYNG
Sbjct: 3301 KSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYNG 3360
Query: 10330 SPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEGK 10509
SPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEGK
Sbjct: 3361 SPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEGK 3420
Query: 10510 FYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYE 10689
FYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYE
Sbjct: 3421 FYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYE 3480
Query: 10690 PLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQC 10869
PLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQC
Sbjct: 3481 PLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQC 3540
Query: 10870 SGVTFQGKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFVYENAFLPFTLGIMAIAA 11049
SGVTFQGKFKKIVKGTHHWM
VQSTQWSLFFFVYENAFLPFTLGIMAIAA
Sbjct: 3541 SGVTFQGKFKKIVKGTHHWMLLTFLTSLLILVQSTQWSLFFFVYENAFLPFTLGIMAIAA 3600
Query: 11050 CAMLLVKHKHAFLCLFLLPSLATVAYFNMVYMPASWVMRIMTWLELADTSLSGYRLKDCV 11229
CAMLLVKHKHAFLCLFLLPSLATVAYFNMVYMPASWVMRIMTWLELADTSLSGYRLKDCV
Sbjct: 3601 CAMLLVKHKHAFLCLFLLPSLATVAYFNMVYMPASWVMRIMTWLELADTSLSGYRLKDCV 3660
Query: 11230 MYASALVLLILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALDQAISMWALVISVTSN 11409
MYASALVLLILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALDQAISMWALVISVTSN
Sbjct: 3661 MYASALVLLILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALDQAISMWALVISVTSN 3720
Query: 11410 YSGVVTTIMFLARAIVFVCVEYYPLLFITGNTLQCIMLVXXXXXXXXXXXXXXXXXXNRY 11589
YSGVVTTIMFLARAIVFVCVEYYPLLFITGNTLQCIMLV
NRY
Sbjct: 3721 YSGVVTTIMFLARAIVFVCVEYYPLLFITGNTLQCIMLVYCFLGYCCCCYFGLFCLLNRY 3780
Query: 11590 FRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGIGGKPCIKVATVQSKMS 11769
FRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGIGGKPCIKVATVQSKMS
Sbjct: 3781 FRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGIGGKPCIKVATVQSKMS 3840
Query: 11770 DVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKDTTEAFEKMXXXXXXXXXMQG 11949
DVKCT KLWAQCVQLHNDILLAKDTTEAFEKM MQG
Sbjct: 3841 DVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLLSMQG 3900
Query: 11950 AVDINRLCEEMLDNRATLQAIASEFSSLPSXXXXXXXXXXXXXXXXNGDXXXXXXXXXXX 12129
AVDINRLCEEMLDNRATLQAIASEFSSLPS
NGD
Sbjct: 3901 AVDINRLCEEMLDNRATLQAIASEFSSLPSYAAYATAQEAYEQAVANGDSEVVLKKLKKS 3960
Query: 12130 XXXXXXEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTMLFTMLRKXXXX 12309
EFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTMLFTMLRK
Sbjct: 3961 LNVAKSEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTMLFTMLRKLDND 4020
Query: 12310 XXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGNTFTYASALWEIQQVVD 12489
RDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGNTFTYASALWEIQQVVD

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Sbjct: 4021 ALNNIINNARDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGNTFTYASALWEIQQVVD 4080
Query: 12490 ADSKIVQLSEINMDNSPNLAWPLIVTALRANSAVKLQNNELSPVALRQMSCAAGTTQTAC 12669
ADSKIVQLSEINMDNSPNLAWPLIVTALRANSAVKLQNNELSPVALRQMSCAAGTTQTAC
Sbjct: 4081 ADSKIVQLSEINMDNSPNLAWPLIVTALRANSAVKLQNNELSPVALRQMSCAAGTTQTAC 4140
Query: 12670 TDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGP 12849
TDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGP
Sbjct: 4141 TDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGP 4200
Query: 12850 KVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEVPANSTVLSFCAFAVDPAKAYKDY 13029
KVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEVPANSTVLSFCAFAVDPAKAYKDY
Sbjct: 4201 KVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEVPANSTVLSFCAFAVDPAKAYKDY 4260
Query: 13030 LASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCCLYCRCHIDHPNPKGFC 13209
LASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCCLYCRCHIDHPNPKGFC
Sbjct: 4261 LASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCCLYCRCHIDHPNPKGFC 4320
Query: 13210 DLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSCDQLREPLMQSADASTFLNGF 13389
DLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSCDQLREPLMQSADASTFLNGF
Sbjct: 4321 DLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSCDQLREPLMQSADASTFLNGF 4380
Query: 13390 AV 13395
AV
Sbjct: 4381 AV 4382
>gi|29836505|ref|NP_828849.1|
Length = 7073
putative orf1ab polyprotein [SARS coronavirus]
Score = 8356 bits (21683), Expect(2) = 0.0
Identities = 4162/4378 (95%), Positives = 4162/4378 (95%)
Frame = +1
Query: 250 MESLVLGVNEKTHVQLSLPVLQVRDVLVRGFGDSVEEALSEAREHLKNGTCGLVELEKGV 429
MESLVLGVNEKTHVQLSLPVLQVRDVLVRGFGDSVEEALSEAREHLKNGTCGLVELEKGV
Sbjct: 1 MESLVLGVNEKTHVQLSLPVLQVRDVLVRGFGDSVEEALSEAREHLKNGTCGLVELEKGV 60
Query: 430 LPQLEQPYVFIKRSDALSTNHGHKVVELVAEMDGIQYGRSGITLGVLVPHVGETPIAYRN 609
LPQLEQPYVFIKRSDALSTNHGHKVVELVAEMDGIQYGRSGITLGVLVPHVGETPIAYRN
Sbjct: 61 LPQLEQPYVFIKRSDALSTNHGHKVVELVAEMDGIQYGRSGITLGVLVPHVGETPIAYRN 120
Query: 610 VLLRKNGNKGAGGHSYGIDLKSYDLGDELGTDPIEDYEQNWNTKHGSGALRELTRELNGG 789
VLLRKNGNKGAGGHSYGIDLKSYDLGDELGTDPIEDYEQNWNTKHGSGALRELTRELNGG
Sbjct: 121 VLLRKNGNKGAGGHSYGIDLKSYDLGDELGTDPIEDYEQNWNTKHGSGALRELTRELNGG 180
Query: 790 AVTRYVDNNFCGPDGYPLDCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIAW 969
AVTRYVDNNFCGPDGYPLDCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIAW
Sbjct: 181 AVTRYVDNNFCGPDGYPLDCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIAW 240
Query: 970 FTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI 1149
FTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI
Sbjct: 241 FTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRI 300
Query: 1150 RSVYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEHCGTENLVIEGPTTCGYL 1329
RSVYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEHCGTENLVIEGPTTCGYL
Sbjct: 301 RSVYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEHCGTENLVIEGPTTCGYL 360
Query: 1330 PTNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKR 1509

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PTNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKR
Sbjct: 361 PTNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKR 420
Query: 1510 AYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILASF 1689
AYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILASF
Sbjct: 421 AYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILASF 480
Query: 1690 SASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVKGAWNIGQQRSVLTPLCGFPSQA 1869
SASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVKGAWNIGQQRSVLTPLCGFPSQA
Sbjct: 481 SASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVKGAWNIGQQRSVLTPLCGFPSQA 540
Query: 1870 AGVIRSIFARTLDAANHSIPDLQRAAVTILDGISEQSLRLVDAMVYTSDLLTNSVIIMAY 2049
AGVIRSIFARTLDAANHSIPDLQRAAVTILDGISEQSLRLVDAMVYTSDLLTNSVIIMAY
Sbjct: 541 AGVIRSIFARTLDAANHSIPDLQRAAVTILDGISEQSLRLVDAMVYTSDLLTNSVIIMAY 600
Query: 2050 VTGGLVQQTSQWLSNLLGTTVEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDIV 2229
VTGGLVQQTSQWLSNLLGTTVEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDIV
Sbjct: 601 VTGGLVQQTSQWLSNLLGTTVEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDIV 660
Query: 2230 KGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQC 2409
KGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQC
Sbjct: 661 KGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQC 720
Query: 2410 IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIVG 2589
IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIVG
Sbjct: 721 IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIVG 780
Query: 2590 TPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFRLKGGAPIKGVTFGEDTVWEVQGYKNV 2769
TPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFRLKGGAPIKGVTFGEDTVWEVQGYKNV
Sbjct: 781 TPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFRLKGGAPIKGVTFGEDTVWEVQGYKNV 840
Query: 2770 RITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSDLLTNMGIDLDE 2949
RITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSDLLTNMGIDLDE
Sbjct: 841 RITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSDLLTNMGIDLDE 900
Query: 2950 WSVATFYLFDDAGEENFSSRMYCSFYPPXXXXXXXXXXXXXXXXXXXXXXYGTEDDYQGL 3129
WSVATFYLFDDAGEENFSSRMYCSFYPP
YGTEDDYQGL
Sbjct: 901 WSVATFYLFDDAGEENFSSRMYCSFYPPDEEEEDDAECEEEEIDETCEHEYGTEDDYQGL 960
Query: 3130 PLEFGASAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXVNQFTGYLKLTDNVAIKC 3309
PLEFGASA
VNQFTGYLKLTDNVAIKC
Sbjct: 961 PLEFGASAETVRVEEEEEEDWLDDTTEQSEIEPEPEPTPEEPVNQFTGYLKLTDNVAIKC 1020
Query: 3310 VDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGS 3489
VDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGS
Sbjct: 1021 VDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGS 1080
Query: 3490 CLLSGHNLAKKCLHVVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSL 3669
CLLSGHNLAKKCLHVVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSL
Sbjct: 1081 CLLSGHNLAKKCLHVVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSL 1140
Query: 3670 QVCVQTVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDSKTEEKSVVQK 3849
QVCVQTVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDSKTEEKSVVQK
Sbjct: 1141 QVCVQTVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDSKTEEKSVVQK 1200
Query: 3850 PVDVKPKIKACIDEVTTTLEETKFLTNKLLLFADINGKLYHDSQNMLRGEDMSFLEKDAP 4029
PVDVKPKIKACIDEVTTTLEETKFLTNKLLLFADINGKLYHDSQNMLRGEDMSFLEKDAP
Sbjct: 1201 PVDVKPKIKACIDEVTTTLEETKFLTNKLLLFADINGKLYHDSQNMLRGEDMSFLEKDAP 1260
Query: 4030 YMVGDVITSGDITCVVIPSKKAGGTTEMLSRALKKVPVDEYITTYPGQGCAGYTLEEAKT 4209

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YMVGDVITSGDITCVVIPSKKAGGTTEMLSRALKKVPVDEYITTYPGQGCAGYTLEEAKT
Sbjct: 1261 YMVGDVITSGDITCVVIPSKKAGGTTEMLSRALKKVPVDEYITTYPGQGCAGYTLEEAKT 1320
Query: 4210 ALKKCKSAFYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQR 4389
ALKKCKSAFYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQR
Sbjct: 1321 ALKKCKSAFYVLPSEAPNAKEEILGTVSWNLREMLAHAEETRKLMPICMDVRAIMATIQR 1380
Query: 4390 KYKGIKIQEGIVDYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAAR 4569
KYKGIKIQEGIVDYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAAR
Sbjct: 1381 KYKGIKIQEGIVDYGVRFFFYTSKEPVASIITKLNSLNEPLVTMPIGYVTHGFNLEEAAR 1440
Query: 4570 CMRSLKXXXXXXXXXXXXXTTYNGYLTSSSKTSEEHFVETVSLAGSYRDWSYSGQRTELG 4749
CMRSLK
TTYNGYLTSSSKTSEEHFVETVSLAGSYRDWSYSGQRTELG
Sbjct: 1441 CMRSLKAPAVVSVSSPDAVTTYNGYLTSSSKTSEEHFVETVSLAGSYRDWSYSGQRTELG 1500
Query: 4750 VEFLKRGDKIVYHTLESPVEFHLDGEVXXXXXXXXXXXXREVKTIKVFTTVDNTNLHTQL 4929
VEFLKRGDKIVYHTLESPVEFHLDGEV
REVKTIKVFTTVDNTNLHTQL
Sbjct: 1501 VEFLKRGDKIVYHTLESPVEFHLDGEVLSLDKLKSLLSLREVKTIKVFTTVDNTNLHTQL 1560
Query: 4930 VDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFL 5109
VDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFL
Sbjct: 1561 VDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFL 1620
Query: 5110 GRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRAR 5289
GRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRAR
Sbjct: 1621 GRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRAR 1680
Query: 5290 AGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLT 5469
AGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLT
Sbjct: 1681 AGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLT 1740
Query: 5470 GVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLC 5649
GVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLC
Sbjct: 1741 GVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLC 1800
Query: 5650 ANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIKPVSYK 5829
ANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIKPVSYK
Sbjct: 1801 ANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIKPVSYK 1860
Query: 5830 LDGVTYTEIEPKLDGYYKKDNAYYTEQPIDLVPTQPLPNASFDNFKLTCSNTKFADDLNQ 6009
LDGVTYTEIEPKLDGYYKKDNAYYTEQPIDLVPTQPLPNASFDNFKLTCSNTKFADDLNQ
Sbjct: 1861 LDGVTYTEIEPKLDGYYKKDNAYYTEQPIDLVPTQPLPNASFDNFKLTCSNTKFADDLNQ 1920
Query: 6010 MTGFTKPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIVWHINQATTKTTF 6189
MTGFTKPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIVWHINQATTKTTF
Sbjct: 1921 MTGFTKPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAKLLHKPIVWHINQATTKTTF 1980
Query: 6190 KPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLACESQQPTSEEVVENPTIQKEVIE 6369
KPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLACESQQPTSEEVVENPTIQKEVIE
Sbjct: 1981 KPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLACESQQPTSEEVVENPTIQKEVIE 2040
Query: 6370 CDVKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIA 6549
CDVKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIA
Sbjct: 2041 CDVKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIA 2100
Query: 6550 THGIAAINSVPWSKILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFT 6729
THGIAAINSVPWSKILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFT
Sbjct: 2101 THGIAAINSVPWSKILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFT 2160
Query: 6730 KSTNSRIRASLPTTIAKNSVKSVAKLCLDAGINYVKSPKFSKLFTIAMWXXXXXXXXXXX 6909

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KSTNSRIRASLPTTIAKNSVKSVAKLCLDAGINYVKSPKFSKLFTIAMW
Sbjct: 2161 KSTNSRIRASLPTTIAKNSVKSVAKLCLDAGINYVKSPKFSKLFTIAMWLLLLSICLGSL 2220
Query: 6910 XXVTAAFGVLLSNFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPA 7089
VTAAFGVLLSNFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPA
Sbjct: 2221 ICVTAAFGVLLSNFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPA 2280
Query: 7090 LETIQVTISSYKLDLTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSW 7269
LETIQVTISSYKLDLTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSW
Sbjct: 2281 LETIQVTISSYKLDLTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSW 2340
Query: 7270 LMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVEC 7449
LMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVEC
Sbjct: 2341 LMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVEC 2400
Query: 7450 TTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINP 7629
TTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINP
Sbjct: 2401 TTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINP 2460
Query: 7630 TDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVF 7809
TDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVF
Sbjct: 2461 TDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVF 2520
Query: 7810 DGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFS 7989
DGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFS
Sbjct: 2521 DGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFS 2580
Query: 7990 VPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHSDL 8169
VPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQG
IECLKLSHHSDL
Sbjct: 2581 VPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGVVDTDVDTKDVIECLKLSHHSDL 2640
Query: 8170 EVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSE 8349
EVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSE
Sbjct: 2641 EVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSE 2700
Query: 8350 QLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVSTCFKLMLKATXXXXXX 8529
QLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVSTCFKLMLKAT
Sbjct: 2701 QLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVSTCFKLMLKATLLCVLA 2760
Query: 8530 XXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAWFSQRGG 8709
YIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAWFSQRGG
Sbjct: 2761 ALVCYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAWFSQRGG 2820
Query: 8710 SYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICYTPSKLI 8889
SYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICYTPSKLI
Sbjct: 2821 SYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICYTPSKLI 2880
Query: 8890 EYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYVLMDGSIIQ 9069
EYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYVLMDGSIIQ
Sbjct: 2881 EYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYVLMDGSIIQ 2940
Query: 9070 FPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRALSGVFCGVDA 9249
FPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRALSGVFCGVDA
Sbjct: 2941 FPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRALSGVFCGVDA 3000
Query: 9250 MNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEYNHVVAANAL 9429
MNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEYNHVVAANAL
Sbjct: 3001 MNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEYNHVVAANAL 3060
Query: 9430 LFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFAMFSPIVPFWITAI 9609

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LFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFAMFSPIVPFWITAI
Sbjct: 3061 LFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFAMFSPIVPFWITAI 3120
Query: 9610 YVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTFLLNKEMYLKLRSETLLPLTQ 9789
YVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTFLLNKEMYLKLRSETLLPLTQ
Sbjct: 3121 YVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTFLLNKEMYLKLRSETLLPLTQ 3180
Query: 9790 YNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNSGADVLYQPPQTSITSAVLQ 9969
YNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNSGADVLYQPPQTSITSAVLQ
Sbjct: 3181 YNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNSGADVLYQPPQTSITSAVLQ 3240
Query: 9970 SGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLIR 10149
SGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLIR
Sbjct: 3241 SGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLIR 3300
Query: 10150 KSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYNG 10329
KSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYNG
Sbjct: 3301 KSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYNG 3360
Query: 10330 SPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEGK 10509
SPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEGK
Sbjct: 3361 SPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEGK 3420
Query: 10510 FYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYE 10689
FYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYE
Sbjct: 3421 FYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYE 3480
Query: 10690 PLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQC 10869
PLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQC
Sbjct: 3481 PLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQC 3540
Query: 10870 SGVTFQGKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFVYENAFLPFTLGIMAIAA 11049
SGVTFQGKFKKIVKGTHHWM
VQSTQWSLFFFVYENAFLPFTLGIMAIAA
Sbjct: 3541 SGVTFQGKFKKIVKGTHHWMLLTFLTSLLILVQSTQWSLFFFVYENAFLPFTLGIMAIAA 3600
Query: 11050 CAMLLVKHKHAFLCLFLLPSLATVAYFNMVYMPASWVMRIMTWLELADTSLSGYRLKDCV 11229
CAMLLVKHKHAFLCLFLLPSLATVAYFNMVYMPASWVMRIMTWLELADTSLSGYRLKDCV
Sbjct: 3601 CAMLLVKHKHAFLCLFLLPSLATVAYFNMVYMPASWVMRIMTWLELADTSLSGYRLKDCV 3660
Query: 11230 MYASALVLLILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALDQAISMWALVISVTSN 11409
MYASALVLLILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALDQAISMWALVISVTSN
Sbjct: 3661 MYASALVLLILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALDQAISMWALVISVTSN 3720
Query: 11410 YSGVVTTIMFLARAIVFVCVEYYPLLFITGNTLQCIMLVXXXXXXXXXXXXXXXXXXNRY 11589
YSGVVTTIMFLARAIVFVCVEYYPLLFITGNTLQCIMLV
NRY
Sbjct: 3721 YSGVVTTIMFLARAIVFVCVEYYPLLFITGNTLQCIMLVYCFLGYCCCCYFGLFCLLNRY 3780
Query: 11590 FRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGIGGKPCIKVATVQSKMS 11769
FRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGIGGKPCIKVATVQSKMS
Sbjct: 3781 FRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGIGGKPCIKVATVQSKMS 3840
Query: 11770 DVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKDTTEAFEKMXXXXXXXXXMQG 11949
DVKCT KLWAQCVQLHNDILLAKDTTEAFEKM MQG
Sbjct: 3841 DVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILLAKDTTEAFEKMVSLLSVLLSMQG 3900
Query: 11950 AVDINRLCEEMLDNRATLQAIASEFSSLPSXXXXXXXXXXXXXXXXNGDXXXXXXXXXXX 12129
AVDINRLCEEMLDNRATLQAIASEFSSLPS
NGD
Sbjct: 3901 AVDINRLCEEMLDNRATLQAIASEFSSLPSYAAYATAQEAYEQAVANGDSEVVLKKLKKS 3960
Query: 12130 XXXXXXEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTMLFTMLRKXXXX 12309

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EFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTMLFTMLRK
Sbjct: 3961 LNVAKSEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTMLFTMLRKLDND 4020
Query: 12310 XXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGNTFTYASALWEIQQVVD 12489
RDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGNTFTYASALWEIQQVVD
Sbjct: 4021 ALNNIINNARDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGNTFTYASALWEIQQVVD 4080
Query: 12490 ADSKIVQLSEINMDNSPNLAWPLIVTALRANSAVKLQNNELSPVALRQMSCAAGTTQTAC 12669
ADSKIVQLSEINMDNSPNLAWPLIVTALRANSAVKLQNNELSPVALRQMSCAAGTTQTAC
Sbjct: 4081 ADSKIVQLSEINMDNSPNLAWPLIVTALRANSAVKLQNNELSPVALRQMSCAAGTTQTAC 4140
Query: 12670 TDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGP 12849
TDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGP
Sbjct: 4141 TDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGP 4200
Query: 12850 KVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEVPANSTVLSFCAFAVDPAKAYKDY 13029
KVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEVPANSTVLSFCAFAVDPAKAYKDY
Sbjct: 4201 KVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEVPANSTVLSFCAFAVDPAKAYKDY 4260
Query: 13030 LASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCCLYCRCHIDHPNPKGFC 13209
LASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCCLYCRCHIDHPNPKGFC
Sbjct: 4261 LASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCCLYCRCHIDHPNPKGFC 4320
Query: 13210 DLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSCDQLREPLMQSADASTFLN 13383
DLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSCDQLREPLMQSADASTFLN
Sbjct: 4321 DLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSCDQLREPLMQSADASTFLN 4378
Score = 5561 bits (14425), Expect(2) = 0.0
Identities = 2695/2695 (100%), Positives = 2695/2695 (100%)
Frame = +3
Query: 13383 RVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNLLDSY 13562
RVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNLLDSY
Sbjct: 4379 RVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNLLDSY 4438
Query: 13563 FVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMADLVY 13742
FVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMADLVY
Sbjct: 4439 FVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMADLVY 4498
Query: 13743 ALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQSLLKT 13922
ALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQSLLKT
Sbjct: 4499 ALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQSLLKT 4558
Query: 13923 VQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPILTLTR 14102
VQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPILTLTR
Sbjct: 4559 VQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPILTLTR 4618
Query: 14103 ALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDRCILH 14282
ALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDRCILH
Sbjct: 4619 ALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDRCILH 4678
Query: 14283 CANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRLSFK 14462
CANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRLSFK
Sbjct: 4679 CANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRLSFK 4738
Query: 14463 ELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSKGFF 14642
ELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSKGFF
Sbjct: 4739 ELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSKGFF 4798

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Query: 14643 KEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCIN 14822
KEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCIN
Sbjct: 4799 KEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCIN 4858
Query: 14823 ANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAIS 15002
ANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAIS
Sbjct: 4859 ANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAIS 4918
Query: 15003 AKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV 15182
AKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV
Sbjct: 4919 AKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV 4978
Query: 15183 ETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVMC 15362
ETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVMC
Sbjct: 4979 ETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVMC 5038
Query: 15363 GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYE 15542
GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYE
Sbjct: 5039 GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYE 5098
Query: 15543 CLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAVLYYQ 15722
CLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAVLYYQ
Sbjct: 5099 CLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAVLYYQ 5158
Query: 15723 NNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVK 15902
NNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVK
Sbjct: 5159 NNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVK 5218
Query: 15903 TDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVMLTN 16082
TDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVMLTN
Sbjct: 5219 TDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVMLTN 5278
Query: 16083 DNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHVIST 16262
DNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHVIST
Sbjct: 5279 DNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHVIST 5338
Query: 16263 SHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLYKNTC 16442
SHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLYKNTC
Sbjct: 5339 SHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLYKNTC 5398
Query: 16443 VGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIATVREV 16622
VGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIATVREV
Sbjct: 5399 VGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIATVREV 5458
Query: 16623 LSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRGTTTY 16802
LSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRGTTTY
Sbjct: 5459 LSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRGTTTY 5518
Query: 16803 KLNVGDYFVLTSHTVMPLSAPTLVPQEHYVRITGLYPTLNISDEFSSNVANYQKVGMQKY 16982
KLNVGDYFVLTSHTVMPLSAPTLVPQEHYVRITGLYPTLNISDEFSSNVANYQKVGMQKY
Sbjct: 5519 KLNVGDYFVLTSHTVMPLSAPTLVPQEHYVRITGLYPTLNISDEFSSNVANYQKVGMQKY 5578
Query: 16983 STLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCSRIIPAR 17162
STLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCSRIIPAR
Sbjct: 5579 STLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCSRIIPAR 5638
Query: 17163 ARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARLRAKHYV 17342
ARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARLRAKHYV
Sbjct: 5639 ARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARLRAKHYV 5698

RID=1050847486-011378-19709, gi|29826277|ref|NC_004718.1| SARS coronavirus, c... Page 16 <strong>of</strong> 201
http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
4/20/2003
Query: 17343 YIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDTVSALVY 17522
YIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDTVSALVY
Sbjct: 5699 YIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDTVSALVY 5758
Query: 17523 DNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVFISPYNS 17702
DNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVFISPYNS
Sbjct: 5759 DNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVFISPYNS 5818
Query: 17703 QNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKIGILCIMS 17882
QNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKIGILCIMS
Sbjct: 5819 QNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKIGILCIMS 5878
Query: 17883 DRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKIITGLHPTQAPTHLSVDIKFKTE 18062
DRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKIITGLHPTQAPTHLSVDIKFKTE
Sbjct: 5879 DRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKIITGLHPTQAPTHLSVDIKFKTE 5938
Query: 18063 GLCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHA 18242
GLCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHA
Sbjct: 5939 GLCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHA 5998
Query: 18243 TRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQFKHLIPLMYKG 18422
TRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQFKHLIPLMYKG
Sbjct: 5999 TRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQFKHLIPLMYKG 6058
Query: 18423 LPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCLCDKRATC 18602
LPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCLCDKRATC
Sbjct: 6059 LPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCLCDKRATC 6118
Query: 18603 FSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHGNAHVASCDAIM 18782
FSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHGNAHVASCDAIM
Sbjct: 6119 FSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHGNAHVASCDAIM 6178
Query: 18783 TRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADKFPVLHDIGNPK 18962
TRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADKFPVLHDIGNPK
Sbjct: 6179 TRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADKFPVLHDIGNPK 6238
Query: 18963 AIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFWNCNVDRYPANA 19142
AIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFWNCNVDRYPANA
Sbjct: 6239 AIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFWNCNVDRYPANA 6298
Query: 19143 IVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFFYYSDSPCESHG 19322
IVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFFYYSDSPCESHG
Sbjct: 6299 IVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFFYYSDSPCESHG 6358
Query: 19323 KQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAGFSLWIYKQFDT 19502
KQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAGFSLWIYKQFDT
Sbjct: 6359 KQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAGFSLWIYKQFDT 6418
Query: 19503 YNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGIDVEIFENKTTL 19682
YNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGIDVEIFENKTTL
Sbjct: 6419 YNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGIDVEIFENKTTL 6478
Query: 19683 PVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKREAPAHVSTIGVCTMTDIAK 19862
PVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKREAPAHVSTIGVCTMTDIAK
Sbjct: 6479 PVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKREAPAHVSTIGVCTMTDIAK 6538
Query: 19863 KPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGLTPSKGPAQASVNGVTLIG 20042
KPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGLTPSKGPAQASVNGVTLIG
Sbjct: 6539 KPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGLTPSKGPAQASVNGVTLIG 6598

RID=1050847486-011378-19709, gi|29826277|ref|NC_004718.1| SARS coronavirus, c... Page 17 <strong>of</strong> 201
http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
4/20/2003
Query: 20043 ESVKTQFNYFKKVDGIIQQLPETYFTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLEG 20222
ESVKTQFNYFKKVDGIIQQLPETYFTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLEG
Sbjct: 6599 ESVKTQFNYFKKVDGIIQQLPETYFTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLEG 6658
Query: 20223 YAFEHIVYGDFSHGQLGGLHLMIGLAKRSQDSPLKLEDFIPMDSTVKNYFITDAQTGSSK 20402
YAFEHIVYGDFSHGQLGGLHLMIGLAKRSQDSPLKLEDFIPMDSTVKNYFITDAQTGSSK
Sbjct: 6659 YAFEHIVYGDFSHGQLGGLHLMIGLAKRSQDSPLKLEDFIPMDSTVKNYFITDAQTGSSK 6718
Query: 20403 CVCSVIDLLLDDFVEIIKSQDLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQASR 20582
CVCSVIDLLLDDFVEIIKSQDLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQASR
Sbjct: 6719 CVCSVIDLLLDDFVEIIKSQDLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQASR 6778
Query: 20583 AWQPGVAMPNLYKMQRMLLEKCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVPY 20762
AWQPGVAMPNLYKMQRMLLEKCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVPY
Sbjct: 6779 AWQPGVAMPNLYKMQRMLLEKCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVPY 6838
Query: 20763 NMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTANK 20942
NMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTANK
Sbjct: 6839 NMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTANK 6898
Query: 20943 WDLIISDMYDPRTKHVTKENDSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYKL 21122
WDLIISDMYDPRTKHVTKENDSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYKL
Sbjct: 6899 WDLIISDMYDPRTKHVTKENDSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYKL 6958
Query: 21123 MGHFSWWTAFVTNVNASSSEAFLIGANYLGKPKEQIDGYTMHANYIFWRNTNPIQLSSYS 21302
MGHFSWWTAFVTNVNASSSEAFLIGANYLGKPKEQIDGYTMHANYIFWRNTNPIQLSSYS
Sbjct: 6959 MGHFSWWTAFVTNVNASSSEAFLIGANYLGKPKEQIDGYTMHANYIFWRNTNPIQLSSYS 7018
Query: 21303 LFDMSKFPLKLRGTAVMSLKENQINDMIYSLLEKGRLIIRENNRVVVSSDILVNN 21467
LFDMSKFPLKLRGTAVMSLKENQINDMIYSLLEKGRLIIRENNRVVVSSDILVNN
Sbjct: 7019 LFDMSKFPLKLRGTAVMSLKENQINDMIYSLLEKGRLIIRENNRVVVSSDILVNN 7073
>gi|29837497|ref|NP_828862.1|
Length = 2422
putative coronavirus nsp1 [SARS coronavirus]
Score = 4620 bits (11982), Expect = 0.0
Identities = 2307/2422 (95%), Positives = 2307/2422 (95%)
Frame = +1
Query: 2704 APIKGVTFGEDTVWEVQGYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE 2883
APIKGVTFGEDTVWEVQGYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE
Sbjct: 1 APIKGVTFGEDTVWEVQGYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAE 60
Query: 2884 AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDAGEENFSSRMYCSFYPPXXXXXXXXXX 3063
AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDAGEENFSSRMYCSFYPP
Sbjct: 61 AVVKTLQPVSDLLTNMGIDLDEWSVATFYLFDDAGEENFSSRMYCSFYPPDEEEEDDAEC 120
Query: 3064 XXXXXXXXXXXXYGTEDDYQGLPLEFGASAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 3243
YGTEDDYQGLPLEFGASA
Sbjct: 121 EEEEIDETCEHEYGTEDDYQGLPLEFGASAETVRVEEEEEEDWLDDTTEQSEIEPEPEPT 180
Query: 3244 XXXXVNQFTGYLKLTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATN 3423
VNQFTGYLKLTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATN
Sbjct: 181 PEEPVNQFTGYLKLTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATN 240
Query: 3424 GAMQKESDDYIKLNGPLTVGGSCLLSGHNLAKKCLHVVGPNLNAGEDIQLLKAAYENFNS 3603
GAMQKESDDYIKLNGPLTVGGSCLLSGHNLAKKCLHVVGPNLNAGEDIQLLKAAYENFNS

RID=1050847486-011378-19709, gi|29826277|ref|NC_004718.1| SARS coronavirus, c... Page 18 <strong>of</strong> 201
http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
4/20/2003
Sbjct: 241 GAMQKESDDYIKLNGPLTVGGSCLLSGHNLAKKCLHVVGPNLNAGEDIQLLKAAYENFNS 300
Query: 3604 QDILLAPLLSAGIFGAKPLQSLQVCVQTVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEA 3783
QDILLAPLLSAGIFGAKPLQSLQVCVQTVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEA
Sbjct: 301 QDILLAPLLSAGIFGAKPLQSLQVCVQTVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEA 360
Query: 3784 PKQEEPPNTEDSKTEEKSVVQKPVDVKPKIKACIDEVTTTLEETKFLTNKLLLFADINGK 3963
PKQEEPPNTEDSKTEEKSVVQKPVDVKPKIKACIDEVTTTLEETKFLTNKLLLFADINGK
Sbjct: 361 PKQEEPPNTEDSKTEEKSVVQKPVDVKPKIKACIDEVTTTLEETKFLTNKLLLFADINGK 420
Query: 3964 LYHDSQNMLRGEDMSFLEKDAPYMVGDVITSGDITCVVIPSKKAGGTTEMLSRALKKVPV 4143
LYHDSQNMLRGEDMSFLEKDAPYMVGDVITSGDITCVVIPSKKAGGTTEMLSRALKKVPV
Sbjct: 421 LYHDSQNMLRGEDMSFLEKDAPYMVGDVITSGDITCVVIPSKKAGGTTEMLSRALKKVPV 480
Query: 4144 DEYITTYPGQGCAGYTLEEAKTALKKCKSAFYVLPSEAPNAKEEILGTVSWNLREMLAHA 4323
DEYITTYPGQGCAGYTLEEAKTALKKCKSAFYVLPSEAPNAKEEILGTVSWNLREMLAHA
Sbjct: 481 DEYITTYPGQGCAGYTLEEAKTALKKCKSAFYVLPSEAPNAKEEILGTVSWNLREMLAHA 540
Query: 4324 EETRKLMPICMDVRAIMATIQRKYKGIKIQEGIVDYGVRFFFYTSKEPVASIITKLNSLN 4503
EETRKLMPICMDVRAIMATIQRKYKGIKIQEGIVDYGVRFFFYTSKEPVASIITKLNSLN
Sbjct: 541 EETRKLMPICMDVRAIMATIQRKYKGIKIQEGIVDYGVRFFFYTSKEPVASIITKLNSLN 600
Query: 4504 EPLVTMPIGYVTHGFNLEEAARCMRSLKXXXXXXXXXXXXXTTYNGYLTSSSKTSEEHFV 4683
EPLVTMPIGYVTHGFNLEEAARCMRSLK
TTYNGYLTSSSKTSEEHFV
Sbjct: 601 EPLVTMPIGYVTHGFNLEEAARCMRSLKAPAVVSVSSPDAVTTYNGYLTSSSKTSEEHFV 660
Query: 4684 ETVSLAGSYRDWSYSGQRTELGVEFLKRGDKIVYHTLESPVEFHLDGEVXXXXXXXXXXX 4863
ETVSLAGSYRDWSYSGQRTELGVEFLKRGDKIVYHTLESPVEFHLDGEV
Sbjct: 661 ETVSLAGSYRDWSYSGQRTELGVEFLKRGDKIVYHTLESPVEFHLDGEVLSLDKLKSLLS 720
Query: 4864 XREVKTIKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVL 5043
REVKTIKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVL
Sbjct: 721 LREVKTIKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVL 780
Query: 5044 PSDDTLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLL 5223
PSDDTLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLL
Sbjct: 781 PSDDTLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLL 840
Query: 5224 ALQQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANL 5403
ALQQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANL
Sbjct: 841 ALQQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANL 900
Query: 5404 ESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQE 5583
ESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQE
Sbjct: 901 ESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQE 960
Query: 5584 SSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKG 5763
SSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKG
Sbjct: 961 SSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKG 1020
Query: 5764 PVTDVFYKETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDLVPTQPLP 5943
PVTDVFYKETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDLVPTQPLP
Sbjct: 1021 PVTDVFYKETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDLVPTQPLP 1080
Query: 5944 NASFDNFKLTCSNTKFADDLNQMTGFTKPASRELSVTFFPDLNGDVVAIDYRHYSASFKK 6123
NASFDNFKLTCSNTKFADDLNQMTGFTKPASRELSVTFFPDLNGDVVAIDYRHYSASFKK
Sbjct: 1081 NASFDNFKLTCSNTKFADDLNQMTGFTKPASRELSVTFFPDLNGDVVAIDYRHYSASFKK 1140
Query: 6124 GAKLLHKPIVWHINQATTKTTFKPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLAC 6303
GAKLLHKPIVWHINQATTKTTFKPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLAC

RID=1050847486-011378-19709, gi|29826277|ref|NC_004718.1| SARS coronavirus, c... Page 19 <strong>of</strong> 201
http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
4/20/2003
Sbjct: 1141 GAKLLHKPIVWHINQATTKTTFKPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLAC 1200
Query: 6304 ESQQPTSEEVVENPTIQKEVIECDVKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVE 6483
ESQQPTSEEVVENPTIQKEVIECDVKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVE
Sbjct: 1201 ESQQPTSEEVVENPTIQKEVIECDVKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVE 1260
Query: 6484 NTSITIKKPNELSLALGLKTIATHGIAAINSVPWSKILAYVKPFLGQAAITTSNCAKRLA 6663
NTSITIKKPNELSLALGLKTIATHGIAAINSVPWSKILAYVKPFLGQAAITTSNCAKRLA
Sbjct: 1261 NTSITIKKPNELSLALGLKTIATHGIAAINSVPWSKILAYVKPFLGQAAITTSNCAKRLA 1320
Query: 6664 QRVFNNYMPYVFTLLFQLCTFTKSTNSRIRASLPTTIAKNSVKSVAKLCLDAGINYVKSP 6843
QRVFNNYMPYVFTLLFQLCTFTKSTNSRIRASLPTTIAKNSVKSVAKLCLDAGINYVKSP
Sbjct: 1321 QRVFNNYMPYVFTLLFQLCTFTKSTNSRIRASLPTTIAKNSVKSVAKLCLDAGINYVKSP 1380
Query: 6844 KFSKLFTIAMWXXXXXXXXXXXXXVTAAFGVLLSNFGAPSYCNGVRELYLNSSNVTTMDF 7023
KFSKLFTIAMW
VTAAFGVLLSNFGAPSYCNGVRELYLNSSNVTTMDF
Sbjct: 1381 KFSKLFTIAMWLLLLSICLGSLICVTAAFGVLLSNFGAPSYCNGVRELYLNSSNVTTMDF 1440
Query: 7024 CEGSFPCSICLSGLDSLDSYPALETIQVTISSYKLDLTILGLAAEWVLAYMLFTKFFYLL 7203
CEGSFPCSICLSGLDSLDSYPALETIQVTISSYKLDLTILGLAAEWVLAYMLFTKFFYLL
Sbjct: 1441 CEGSFPCSICLSGLDSLDSYPALETIQVTISSYKLDLTILGLAAEWVLAYMLFTKFFYLL 1500
Query: 7204 GLSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIM 7383
GLSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIM
Sbjct: 1501 GLSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIM 1560
Query: 7384 DGCTSSTCMMCYKRNRATRVECTTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTG 7563
DGCTSSTCMMCYKRNRATRVECTTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTG
Sbjct: 1561 DGCTSSTCMMCYKRNRATRVECTTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTG 1620
Query: 7564 STFISDEVARDLSLQFKRPINPTDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHF 7743
STFISDEVARDLSLQFKRPINPTDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHF
Sbjct: 1621 STFISDEVARDLSLQFKRPINPTDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHF 1680
Query: 7744 VNLDNLRANNTKGSLPINVIVFDGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVG 7923
VNLDNLRANNTKGSLPINVIVFDGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVG
Sbjct: 1681 VNLDNLRANNTKGSLPINVIVFDGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVG 1740
Query: 7924 DSTEVSVKMFDAYVDTFSATFSVPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGX 8103
DSTEVSVKMFDAYVDTFSATFSVPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQG
Sbjct: 1741 DSTEVSVKMFDAYVDTFSATFSVPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGV 1800
Query: 8104 XXXXXXXXXXIECLKLSHHSDLEVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINA 8283
IECLKLSHHSDLEVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINA
Sbjct: 1801 VDTDVDTKDVIECLKLSHHSDLEVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINA 1860
Query: 8284 QVAKSHNVSLIWNVKDYMSLSEQLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLK 8463
QVAKSHNVSLIWNVKDYMSLSEQLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLK
Sbjct: 1861 QVAKSHNVSLIWNVKDYMSLSEQLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLK 1920
Query: 8464 GGKIVSTCFKLMLKATXXXXXXXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDII 8643
GGKIVSTCFKLMLKAT
YIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDII
Sbjct: 1921 GGKIVSTCFKLMLKATLLCVLAALVCYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDII 1980
Query: 8644 STDDCFANKHAGFDAWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDF 8823
STDDCFANKHAGFDAWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDF
Sbjct: 1981 STDDCFANKHAGFDAWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDF 2040
Query: 8824 LHFLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEG 9003
LHFLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEG

RID=1050847486-011378-19709, gi|29826277|ref|NC_004718.1| SARS coronavirus, c... Page 20 <strong>of</strong> 201
http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
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Sbjct: 2041 LHFLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEG 2100
Query: 9004 SISYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTS 9183
SISYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTS
Sbjct: 2101 SISYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTS 2160
Query: 9184 GRWVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAA 9363
GRWVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAA
Sbjct: 2161 GRWVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAA 2220
Query: 9364 YYFMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVS 9543
YYFMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVS
Sbjct: 2221 YYFMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVS 2280
Query: 9544 FLAHLQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALC 9723
FLAHLQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALC
Sbjct: 2281 FLAHLQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALC 2340
Query: 9724 TFLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDF 9903
TFLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDF
Sbjct: 2341 TFLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDF 2400
Query: 9904 SNSGADVLYQPPQTSITSAVLQ 9969
SNSGADVLYQPPQTSITSAVLQ
Sbjct: 2401 SNSGADVLYQPPQTSITSAVLQ 2422
>gi|6625761|gb|AAF19384.1|AF201929_2 RNA-directed RNA polymerase [murine hepatitis virus
gi|7739595|gb|AAF68920.1|AF207902_2 RNA-directed RNA polymerase [murine hepatitis virus st
Length = 2733
Score = 3509 bits (9099), Expect = 0.0
Identities = 1684/2735 (61%), Positives = 2084/2735 (76%), Gaps = 38/2735 (1%)
Frame = +3
Query: 13374 VFKRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNL 13550
+FKRV G S ARL PC +G TDV RAFDI N AG + K NCCRFQ DE+GN
Sbjct: 17 LFKRVRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCCRFQRADEDGNT 76
Query: 13551 LDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMA 13730
LD +FV+KR + Y E+ Y L K+C VA H+FF F V+G VPHI R+ L+KYTM
Sbjct: 77 LDKFFVIKRTNLEVYNKEKECYELTKECGVVAEHEFFTFDVEGSRVPHIVRKDLSKYTML 136
Query: 13731 DLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQS 13910
DL YALRHFD +C TLKEIL+TY CD+ YF KKDWYDFVEN DI+ VY LG ++
Sbjct: 137 DLCYALRHFDRNDCSTLKEILLTYAECDESYFQKKDWYDFVENSDIINVYKKLGPIFNRA 196
Query: 13911 LLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPIL 14090
LL T +F D + +AG+VGVLTLDNQDL G WYDFGDFV+ PGCGV + DSYYS +MP+L
Sbjct: 197 LLNTAKFADTLVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPGCGVAVADSYYSYMMPML 256
Query: 14091 TLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDR 14270
T+ AL +E ++ + +DL++YDFT+ +L LF++YFKYW TYHPN C DDR
Sbjct: 257 TMCHALDSELFINGTYRE----FDLVQYDFTDFKLELFNKYFKYWSMTYHPNTCECEDDR 312
Query: 14271 CILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSR 14450
CI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H R
Sbjct: 313 CIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVDTHRYR 372

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Query: 14451 LSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVS 14630
LS K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY+F +S
Sbjct: 373 LSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYEFILS 432
Query: 14631 KGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDG 14810
KG KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV+KYF+ YDG
Sbjct: 433 KGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVNKYFEIYDG 492
Query: 14811 GCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLK 14990
GCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNLK
Sbjct: 493 GCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEVYAYTKRNVLPTLTQMNLK 552
Query: 14991 YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTV 15170
YAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG VVIGT+KFYGGW +ML+ +
Sbjct: 553 YAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRRL 612
Query: 15171 YSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSE 15350
DV++P LMGWDYPKCDRAMPN+LRI++SLVLARKH++CC+ + RFYRLANECAQVLSE
Sbjct: 613 IKDVDSPVLMGWDYPKCDRAMPNILRIISSLVLARKHDSCCSHTDRFYRLANECAQVLSE 672
Query: 15351 MVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQH 15530
+VMCGG YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D +R LQ
Sbjct: 673 IVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQK 732
Query: 15531 RLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAV 15710
RLY +YR VD FV+E+Y +L KHFSMMILSDD VVCYNS +A++G +A+I F+ V
Sbjct: 733 RLYSNVYRADHVDPAFVNEYYEFLNKHFSMMILSDDGVVCYNSEFASKGYIANISAFQQV 792
Query: 15711 LYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVD 15890
LYYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK D VYLPYPDPSRILGAGCFVD
Sbjct: 793 LYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGAGCFVD 852
Query: 15891 DIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSV 16070
D++KTD L+IERFVSLAIDAYPL H N EY +VF +YL+YI+KL+++L +LD YSV
Sbjct: 853 DLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQILDSYSV 912
Query: 16071 MLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDH 16250
+L+ + ++ + FY+ MY V+Q+VGACV+C+SQTSLRCG+CIR+P LCCKC YDH
Sbjct: 913 ILSTCDGQKFTDETFYKNMYLRSAVMQSVGACVVCSSQTSLRCGSCIRKPLLCCKCAYDH 972
Query: 16251 VISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLY 16430
V+ST HK VLSV+PYVCN+PGCDV DVT+LYLGGMSYYC+ HKP SF L NG VFGLY
Sbjct: 973 VMSTDHKYVLSVSPYVCNSPGCDVNDVTKLYLGGMSYYCEDHKPQYSFKLVMNGMVFGLY 1032
Query: 16431 KNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIAT 16610
K +C GS + DFN IA+C WT DY+LAN CTERLKLFAAET KATEE+FK Y AT
Sbjct: 1033 KQSCTGSPYIEDFNKIASCKWTEVDDYVLANECTERLKLFAAETQKATEESFKQCYASAT 1092
Query: 16611 VREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRG 16790
+RE++SDREL LSWE+GK RPPLN+NYVFTGY T N K +GEY F+K + + V YR
Sbjct: 1093 IREIVSDRELILSWEIGKVRPPLNKNYVFTGYHFTSNGKTVLGEYVFDKSELTNGVYYRA 1152
Query: 16791 TTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHY--VRITGLYPTLNISDEFSSNVANYQK 16964
TTTYKL+VGD F+LTSH V LSAPTLVPQE+Y +R +Y ++ + F +NV NYQ
Sbjct: 1153 TTTYKLSVGDVFILTSHAVSSLSAPTLVPQENYTSIRFASVY---SVPETFQNNVPNYQH 1209
Query: 16965 VGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCS 17144
+GM++Y T+QGPPGTGKSH AIGLA+YY +AR+VYTA SHAAVDALCEKA K+L I+ C+
Sbjct: 1210 IGMKRYCTVQGPPGTGKSHLAIGLAVYYCTARVVYTAASHAAVDALCEKAYKFLNINDCT 1269

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http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
4/20/2003
Query: 17145 RIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARL 17324
RI+PA+ RV+C+DKFKVN T +YVF T+NALPE DI+V DE+SM TNY+LSV+N+R+
Sbjct: 1270 RIVPAKVRVDCYDKFKVNDTTRKYVFTTINALPELVTDIIVVDEVSMLTNYELSVINSRV 1329
Query: 17325 RAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDT 17504
RAKHYVYIGDPAQLPAPR LL KGTLEP YFNSV +LM +GPD+FLGTC RCP EIVDT
Sbjct: 1330 RAKHYVYIGDPAQLPAPRVLLNKGTLEPRYFNSVTKLMCCLGPDIFLGTCYRCPKEIVDT 1389
Query: 17505 VSALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVF 17684
VSALVY NKLKA D S+ CFK++YKG TH+ SSA+N QI ++ +FL NP+W AVF
Sbjct: 1390 VSALVYHNKLKAKNDNSSMCFKVYYKGQTTHESSSAVNMQQIYLISKFLKANPSWSNAVF 1449
Query: 17685 ISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKIG 17864
ISPYNSQN VA ++LGL TQTVDS+QGSEYD+VI++QT ETAHS NVNRFNVAITRAK G
Sbjct: 1450 ISPYNSQNYVAKRVLGLQTQTVDSAQGSEYDFVIYSQTAETAHSVNVNRFNVAITRAKKG 1509
Query: 17865 ILCIMSDRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKIITGLHPTQAPTHLSVD 18044
ILC+MS L++ L F++L + + N LQ T LFKDCS+ G HP AP+ L+VD
Sbjct: 1510 ILCVMSSMQLFESLNFSTLTLDKINNPRLQC--TTNLFKDCSRSYAGYHPAHAPSFLAVD 1567
Query: 18045 IKFKTEG-LCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGF 18221
K+K G L V + +TY RLIS+MGFK++ ++GY +FITR+EAIR VRAW+GF
Sbjct: 1568 DKYKVGGDLAVCLNVADSAVTYSRLISLMGFKLDLTLDGYCKLFITRDEAIRRVRAWVGF 1627
Query: 18222 DVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQFKHL 18401
D EG HATRD++GTN PLQLGFSTG++ V TG + F + A+ PPG+QFKHL
Sbjct: 1628 DAEGAHATRDSIGTNFPLQLGFSTGIDFVVEATGMFAERDGYVFKKAVARAPPGEQFKHL 1687
Query: 18402 IPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCL 18581
+PLM +G W+VVRI+IVQMLSD L L+D VV V WA FELT ++YF K+G E C +
Sbjct: 1688 VPLMSRGQKWDVVRIRIVQMLSDHLVDLADSVVLVTWAASFELTCLRYFAKVGKEVVCSV 1747
Query: 18582 CDKRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHGNAHV 18761
C+KRATCF++ + Y CW HS DY+YNP ++D+QQWG+TG+L SNHD C VH AHV
Sbjct: 1748 CNKRATCFNSRTGYYGCWRHSYSCDYLYNPLIVDIQQWGYTGSLTSNHDLICSVHKGAHV 1807
Query: 18762 ASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADKFPVL 18941
AS DAIMTRCLAVH+CF K V+WS+EYPII +E+ VN++CR +Q ++ ++A+L +++ V
Sbjct: 1808 ASSDAIMTRCLAVHDCFCKSVNWSLEYPIISNEVSVNTSCRLLQRVMFRAAMLCNRYDVC 1867
Query: 18942 HDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFWNCNV 19121
+DIGNPK + CV ++KFYDA P +++ Y Y H D+F DG+C+FWNCNV
Sbjct: 1868 YDIGNPKGLACV--KGYDFKFYDASPV---VKSVKQFVYKYEAHKDQFLDGLCMFWNCNV 1922
Query: 19122 DRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFFYYSD 19301
D+YPANA+VCRFDTRVL+ LNLPGC+GGSLYVNKHAFHT F ++AF NLK +PFFYYSD
Sbjct: 1923 DKYPANAVVCRFDTRVLNKLNLPGCNGGSLYVNKHAFHTSPFTRAAFENLKPMPFFYYSD 1982
Query: 19302 SPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAGFSLW 19481
+PC +DYVPL+SATCITRCNLGGAVC HA +YR+YL++YN +AGF+ W
Sbjct: 1983 TPCVYMEGMESKQVDYVPLRSATCITRCNLGGAVCLKHAEDYREYLESYNTATTAGFTFW 2042
Query: 19482 IYKQFDTYNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGIDVEI 19661
+YK FD YNLWNTFTRLQSLENV YN+VN GHFDG AGE P ++I V K+ DV +
Sbjct: 2043 VYKTFDFYNLWNTFTRLQSLENVVYNLVNAGHFDGRAGELPCAVIGEKVIAKIQNEDVVV 2102
Query: 19662 FENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKREAPAHVSTIGVC 19841
F+N T P NVA EL+AKR+I+P PE+K+ NL +D+ + V+WDY +++ ST VC
Sbjct: 2103 FKNNTPFPTNVAVELFAKRSIRPHPELKLFRNLNIDVCWSHVLWDYAKDSVFCSSTYKVC 2162

RID=1050847486-011378-19709, gi|29826277|ref|NC_004718.1| SARS coronavirus, c... Page 23 <strong>of</strong> 201
http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
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Query: 19842 TMTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGLTPSKGPAQASV 20021
TD+ SL VLFDGR G ++ F+ R+GV I +K L+ KGP +A +
Sbjct: 2163 KYTDL------QCIESLNVLFDGRDNGALEAFKKCRDGVYINTTKIKSLSMIKGPQRADL 2216
Query: 20022 NGVTL--IGES-VKTQFNYFKKVDGII-----------QQLPE----------------- 20108
NGV + +G+S V+ F + D +I + P+
Sbjct: 2217 NGVVVEKVGDSDVEFWFAMRRDGDDVIFSRTGSLEPSHYRSPQGNPGGNRVGDLSGNEAL 2276
Query: 20109 ---TYFTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLEGYAFEHIVYGDFSHGQLGGL 20279
T FTQSR L F PRS+ME DF++L D FI +Y L+ YAFEH+VYG F+ +GGL
Sbjct: 2277 ARGTIFTQSRFLSSFAPRSEMEKDFMDLDEDVFIAKYSLQDYAFEHVVYGSFNQKIIGGL 2336
Query: 20280 HLMIGLAKRSQDSPLKLEDFIPMDSTVKNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKS 20459
HL+IGLA+R Q S L +++F+P DS++ +YFITD +GSSK VC+VIDLLLDDFV+I+KS
Sbjct: 2337 HLLIGLARRQQKSNLVIQEFVPYDSSIHSYFITDENSGSSKSVCTVIDLLLDDFVDIVKS 2396
Query: 20460 QDLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQASRAWQPGVAMPNLYKMQRMLL 20639
+L+ +SKVV V +D+ + FMLWC + V TFYP+LQA+ W+PG MP LYK L
Sbjct: 2397 LNLNCVSKVVNVNVDFKDFQFMLWCNEEKVMTFYPRLQAAADWKPGYVMPVLYKYLESPL 2456
Query: 20640 EKCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGT 20819
E+ +L NYG+ +P G +MNVAKYTQLCQYLNT TLAVP NMRV+H GAGSDK VAPG+
Sbjct: 2457 ERVNLWNYGKPITLPTGCLMNVAKYTQLCQYLNTTTLAVPANMRVLHLGAGSDKDVAPGS 2516
Query: 20820 AVLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTANKWDLIISDMYDPRTKHVTKE 20999
AVLRQWLP G++LVD+D+N FVSD+ ++ G+C T+ A +WDLIISDMYDP TK++ +
Sbjct: 2517 AVLRQWLPAGSILVDNDINPFVSDSVASYYGNCITLPIACQWDLIISDMYDPLTKNIGEY 2576
Query: 21000 NDSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYKLMGHFSWWTAFVTNVNASSS 21179
N SK+GFFTYLC I+ KLALGGS+A+KITE SWNA+LY LMG F++WT F TNVNASSS
Sbjct: 2577 NVSKDGFFTYLCHLIRDKLALGGSVAIKITEFSWNAELYSLMGKFAFWTIFCTNVNASSS 2636
Query: 21180 EAFLIGANYLGKPKEQIDGYTMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSL 21359
E FLIG N+L + + +IDG TMHANY+FWRN+ +YSLFDMSKFPLK+ GTAV+SL
Sbjct: 2637 EGFLIGINWLNRTRTEIDGKTMHANYLFWRNSTMWNGGAYSLFDMSKFPLKVAGTAVVSL 2696
Query: 21360 KENQINDMIYSLLEKGRLIIRENNRVVVSSDILVN 21464
K +QIND++ SL+EKG+L++R+ + V D LVN
Sbjct: 2697 KPDQINDLVLSLIEKGKLLVRDTRKEVFVGDSLVN 2731
>gi|18033972|gb|AAL57305.1|
Length = 7094
replicase [bovine coronavirus]
Score = 3507 bits (9094), Expect = 0.0
Identities = 1694/2755 (61%), Positives = 2084/2755 (75%), Gaps = 50/2755 (1%)
Frame = +3
Query: 13350 DAVCGCI-----------NVFKRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFA 13493
D C C+
N FKRV G S ARL PC +G STDV RAFDI N VAG
Sbjct: 4356 DGSCSCVSTDTTVQSKDTNFFKRVRGTSVDARLVPCASGLSTDVQLRAFDICNASVAGIG 4415
Query: 13494 KFLKTNCCRFQEKDEEGNLLDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRV 13673
LK NCCRFQ DE G+ LD +FVVKR ++ Y E Y VKDC VA HDFF F V
Sbjct: 4416 LHLKVNCCRFQRVDENGDKLDQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDV 4475
Query: 13674 DGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFV 13853
+G VPHI R+ LTKYTM DL YALRHFD +C L +IL Y C+ YF KKDWYDFV
Sbjct: 4476 EGSRVPHIVRKDLTKYTMLDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFV 4535

RID=1050847486-011378-19709, gi|29826277|ref|NC_004718.1| SARS coronavirus, c... Page 24 <strong>of</strong> 201
http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
4/20/2003
Query: 13854 ENPDILRVYANLGERVRQSLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVA 14033
ENPDI+ VY LG ++L+ +F D + + G+VG+LTLDNQDLNG WYDFGD+V A
Sbjct: 4536 ENPDIINVYKKLGPIFNRALVSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAA 4595
Query: 14034 PGCGVPIVDSYYSLLMPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRY 14213
PGCGV I DSYYS +MP+LT+ AL E +++
+DL++YDFT+ +L LF++Y
Sbjct: 4596 PGCGVAIADSYYSYMMPMLTMCHALDCELYVN----NAYRLFDLVQYDFTDYKLELFNKY 4651
Query: 14214 FKYWDQTYHPNCINCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGY 14393
FK+W YHPN ++C DDRCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GY
Sbjct: 4652 FKHWSMPYHPNTVDCQDDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGY 4711
Query: 14394 HFRELGVVHNQDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVA 14573
H++ELG+V N DV+ H RLS K+LL+YAADPA+H AS + L D RT CFSVAA+T+ V
Sbjct: 4712 HYKELGIVMNMDVDTHRYRLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVK 4771
Query: 14574 FQTVKPGNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDI 14753
FQTVKPGNFN+DFYDF +SKG KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI
Sbjct: 4772 FQTVKPGNFNQDFYDFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDI 4831
Query: 14754 RQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDA 14933
+QLLFV+EVV KYF+ YDGGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD
Sbjct: 4832 KQLLFVLEVVYKYFEIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDE 4891
Query: 14934 LFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGAT 15113
++AYTKRNV+PT+TQMNLKYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG
Sbjct: 4892 IYAYTKRNVLPTLTQMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVP 4951
Query: 15114 VVIGTSKFYGGWHNMLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCC 15293
VVIGT+KFYGGW +ML+ + DV+ P LMGWDYPKCDRAMPN+LRI++SLVLARKH CC
Sbjct: 4952 VVIGTTKFYGGWDDMLRRLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACC 5011
Query: 15294 NLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNA 15473
+ S RFYRLANECAQVLSE+VMCGG YVKPGGTSSGDATTA+ANSVFNICQAV+ANV A
Sbjct: 5012 SQSDRFYRLANECAQVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCA 5071
Query: 15474 LLSTDGNKIADKYVRNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCY 15653
L+S +GNKI D +R LQ RLY +YR+ VD FV E+Y +L KHFSMMILSDD VVCY
Sbjct: 5072 LMSCNGNKIEDLSIRALQKRLYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCY 5131
Query: 15654 NSNYAAQGLVASIKNFKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDY 15833
NS+YA++G +A+I F+ VLYYQNNVFMSE+KCW E D+ GPHEFCSQHTMLVK D
Sbjct: 5132 NSDYASKGYIANISAFQQVLYYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDD 5191
Query: 15834 VYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQ 16013
VYLPYPDPSRILGAGCFVDD++KTD L+IERFVSLAIDAYPL H N+EY VF +YL+
Sbjct: 5192 VYLPYPDPSRILGAGCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLE 5251
Query: 16014 YIRKLHDELTGHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSL 16193
YI+KL+++L +LD YSV+L+ + ++ + FY+ MY V+Q+VGACV+C+SQTSL
Sbjct: 5252 YIKKLYNDLGNQILDSYSVILSTCDGQKFTDESFYKNMYLRSAVMQSVGACVVCSSQTSL 5311
Query: 16194 RCGACIRRPFLCCKCCYDHVISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKS 16373
RCG+CIR+P LCCKCCYDHV++T HK VLSV+PYVCNAPGCDV DVT+LYLGGMSYYC+
Sbjct: 5312 RCGSCIRKPLLCCKCCYDHVMATDHKYVLSVSPYVCNAPGCDVNDVTKLYLGGMSYYCED 5371
Query: 16374 HKPPISFPLCANGQVFGLYKNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFA 16553
HKP SF L NG VFGLYK +C GS + DFN IA+C WT+ DYILAN CTERLKLFA
Sbjct: 5372 HKPQYSFKLVMNGMVFGLYKQSCTGSPYIDDFNRIASCKWTDVDDYILANECTERLKLFA 5431

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Query: 16554 AETLKATEETFKLSYGIATVREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQ 16733
AET KATEE FK SY AT++E++S+REL LSWE+GK +PPLN+NYVFTGY TKN K
Sbjct: 5432 AETQKATEEAFKQSYASATIQEIVSERELILSWEIGKVKPPLNKNYVFTGYHFTKNGKTV 5491
Query: 16734 IGEYTFEKGDYGDAVVYRGTTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHY--VRITGL 16907
+GEY F+K + + V YR TTTYKL+VGD FVLTSH+V LSAPTLVPQE+Y +R +
Sbjct: 5492 LGEYVFDKSELTNGVYYRATTTYKLSVGDVFVLTSHSVANLSAPTLVPQENYSSIRFASV 5551
Query: 16908 YPTLNISDEFSSNVANYQKVGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHA 17087
Y L + F +NV NYQ +GM++Y T+QGPPGTGKSH AIGLA+YY +AR+VYTA SHA
Sbjct: 5552 YSVL---ETFQNNVVNYQHIGMKRYCTVQGPPGTGKSHLAIGLAVYYCTARVVYTAASHA 5608
Query: 17088 AVDALCEKALKYLPIDKCSRIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVV 17267
AVDALCEKA K+L I+ C+RI+PA+ RVEC+DKFK+N T +YVF T+NALPE DIVV
Sbjct: 5609 AVDALCEKAYKFLNINDCTRIVPAKVRVECYDKFKINDTTRKYVFTTINALPEMVTDIVV 5668
Query: 17268 FDEISMATNYDLSVVNARLRAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTI 17447
DE+SM TNY+LSV+NAR+RAKHYVYIGDPAQLPAPR LL+KGTLEP+YFN+V +LM +
Sbjct: 5669 VDEVSMLTNYELSVINARIRAKHYVYIGDPAQLPAPRVLLSKGTLEPKYFNTVTKLMCCL 5728
Query: 17448 GPDMFLGTCRRCPAEIVDTVSALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQ 17627
GPD+FLGTC RCP EIVDTVSALVY+NKLKA + S+ CFK++YKGV TH+ SSA+N Q
Sbjct: 5729 GPDIFLGTCYRCPKEIVDTVSALVYENKLKAKNESSSLCFKVYYKGVTTHESSSAVNMQQ 5788
Query: 17628 IGVVREFLTRNPAWRKAVFISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTET 17807
I ++ +FL NP W KAVFISPYNSQN A ++LGL TQTVDS+QGSEYDYVI++QT ET
Sbjct: 5789 IYLINKFLKANPLWHKAVFISPYNSQNFAAKRVLGLQTQTVDSAQGSEYDYVIYSQTAET 5848
Query: 17808 AHSCNVNRFNVAITRAKIGILCIMSDRDLYDKLQFTSLEIPR-RNVATLQAENVTGLFKD 17984
AHS NVNRFNVAITRAK GILC+MS+ L++ LQFT+L + + + + T LFKD
Sbjct: 5849 AHSVNVNRFNVAITRAKKGILCVMSNMQLFEALQFTTLTLDKVPQAVETRVQCSTNLFKD 5908
Query: 17985 CSKIITGLHPTQAPTHLSVDIKFKTEGLCVDIPGI-PKDMTYRRLISMMGFKMNYQVNGY 18161
CSK +G HP AP+ L+VD K+K G GI +TY RLIS+MGFK++ ++GY
Sbjct: 5909 CSKSYSGYHPAHAPSFLAVDDKYKATGDLAVCLGIGDSAVTYSRLISLMGFKLDVTLDGY 5968
Query: 18162 PNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTEN 18341
+FIT+EEA++ VRAW+GFD EG HATRD++GTN PLQLGFSTG++ V TG +
Sbjct: 5969 CKLFITKEEAVKRVRAWVGFDAEGAHATRDSIGTNFPLQLGFSTGIDFVVEATGLFADRD 6028
Query: 18342 NTEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHG 18521
F + AK PPG+QFKHLIPLM +G W+VVR +IVQM +D L LSD VV V WA
Sbjct: 6029 GYSFKKAVAKAPPGEQFKHLIPLMTRGQRWDVVRPRIVQMFADHLIDLSDCVVLVTWAAN 6088
Query: 18522 FELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGF 18701
FELT ++YF K+G E +C +C KRAT +++ + Y CW HSV DY+YNP ++D+QQWG+
Sbjct: 6089 FELTCLRYFAKVGREISCNVCTKRATAYNSRTGYYGCWRHSVTCDYLYNPLIVDIQQWGY 6148
Query: 18702 TGNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSAC 18881
G+L SNHD +C VH AHVAS DAIMTRCLAV++CF ++W+VEYPII +EL +N++C
Sbjct: 6149 IGSLSSNHDLYCSVHKGAHVASSDAIMTRCLAVYDCFCNNINWNVEYPIISNELSINTSC 6208
Query: 18882 RKVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYS 19061
R +Q +++K+A+L +++ + +DIGNPKAI CV + ++KFYDAQP ++ L YS
Sbjct: 6209 RVLQRVMLKAAMLCNRYTLCYDIGNPKAIACV--KDFDFKFYDAQPI---VKSVKTLLYS 6263
Query: 19062 YATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTP 19241
+ H D F DG+C+FWNCNVD+YP NA+VCRFDTRVL+NLNLPGC+GGSLYVNKHAFHT
Sbjct: 6264 FEAHKDSFKDGLCMFWNCNVDKYPPNAVVCRFDTRVLNNLNLPGCNGGSLYVNKHAFHTK 6323

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Query: 19242 AFDKSAFTNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHAN 19421
F ++AF +LK +PFFYYSD+PC
+DYVPLKSATCITRCNLGGAVC HA
Sbjct: 6324 PFSRAAFEHLKPMPFFYYSDTPCVYMDGMDAKQVDYVPLKSATCITRCNLGGAVCLKHAE 6383
Query: 19422 EYRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEA 19601
EYR+YL++YN +AGF+ W+YK FD YNLWNTFT+LQSLENV YN+V GH+ G AGE
Sbjct: 6384 EYREYLESYNTATTAGFTFWVYKTFDFYNLWNTFTKLQSLENVVYNLVKTGHYTGQAGEM 6443
Query: 19602 PVSIINNAVYTKVDGIDVEIFENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAAN 19781
P +IIN+ V K+D DV IF N TT P NVA EL+AKR+I+ PE+K+ NL +D+
Sbjct: 6444 PCAIINDKVVAKIDKEDVVIFINNTTYPTNVAVELFAKRSIRHHPELKLFRNLNIDVCWK 6503
Query: 19782 TVIWDYKREAPAHVSTIGVCTMTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVL <strong>199</strong>61
VIWDY RE+ +T GVC TD+ L VLFDGR G ++ F+ + NGV
Sbjct: 6504 HVIWDYARESIFCSNTYGVCMYTDL------KFIDKLNVLFDGRDNGALEAFKRSNNGVY 6557
Query: <strong>199</strong>62 ITEGSVKGLTPSKGPAQASVNGVTL--IGES---------------VKTQFNYFK----- 20075
I+ VK L+ KGP +A +NGV + +G++ + +QF+ +
Sbjct: 6558 ISTTKVKSLSMIKGPPRAELNGVVVDKVGDTDCVFYFAVRKEGQDVIFSQFDSLRVSSNQ 6617
Query: 20076 ------------KVDGIIQQLPETYFTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLE 20219
V G T FTQSR + F R+ ME DF+ L D FIQ+Y LE
Sbjct: 6618 SPQGNLGSNEPGNVGGNDALATSTIFTQSRVISSFTCRTDMEKDFIALDQDLFIQKYGLE 6677
Query: 20220 GYAFEHIVYGDFSHGQLGGLHLMIGLAKRSQDSPLKLEDFIPMDSTVKNYFITDAQTGSS 20399
YAFEHIVYG+F+ +GGLHL+IGL +R Q S L +++F+ DS++ +YFITD ++G S
Sbjct: 6678 DYAFEHIVYGNFNQKIIGGLHLLIGLYRRQQTSNLVIQEFVSYDSSIHSYFITDEKSGGS 6737
Query: 20400 KCVCSVIDLLLDDFVEIIKSQDLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQAS 20579
K VC+VID+LLDDFV ++KS +L+ +SKVV V +D+ + FMLWC D V TFYP+LQA+
Sbjct: 6738 KSVCTVIDILLDDFVALVKSLNLNCVSKVVNVNVDFKDFQFMLWCNDEKVMTFYPRLQAA 6797
Query: 20580 RAWQPGVAMPNLYKMQRMLLEKCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVP 20759
W+PG +MP LYK +E+ L NYG+ +P G MMNVAKYTQLCQYLNT TLAVP
Sbjct: 6798 SDWKPGYSMPVLYKYLNSPMERVSLWNYGKPVTLPTGCMMNVAKYTQLCQYLNTTTLAVP 6857
Query: 20760 YNMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTAN 20939
NMRV+H GAGS+KGVAPG+AVLRQWLP GT+LVD+DL FVSD+ +T GDC T+
Sbjct: 6858 VNMRVLHLGAGSEKGVAPGSAVLRQWLPAGTILVDNDLYPFVSDSVATYFGDCITLPFDC 6917
Query: 20940 KWDLIISDMYDPRTKHVTKENDSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYK 21119
+WDLIISDMYDP TK++ + N SK+GFFTY+C I+ KLALGGS+A+KITE SWNA+LYK
Sbjct: 6918 QWDLIISDMYDPITKNIGEYNVSKDGFFTYICHMIRDKLALGGSVAIKITEFSWNAELYK 6977
Query: 21120 LMGHFSWWTAFVTNVNASSSEAFLIGANYLGKPKEQIDGYTMHANYIFWRNTNPIQLSSY 21299
LMG+F++WT F TN NASSSE FLIG NYLGKPK +IDG MHANY+FWRN+ +Y
Sbjct: 6978 LMGYFAFWTVFCTNANASSSEGFLIGINYLGKPKVEIDGNVMHANYLFWRNSTVWNGGAY 7037
Query: 21300 SLFDMSKFPLKLRGTAVMSLKENQINDMIYSLLEKGRLIIRENNRVVVSSDILVN 21464
SLFDM+KFPLKL GTAV++L+ +QINDM+YSLLEKG+L++R+ N+ V D LVN
Sbjct: 7038 SLFDMAKFPLKLAGTAVINLRADQINDMVYSLLEKGKLLVRDTNKEVFVGDSLVN 7092
Score = 1748 bits (4527), Expect = 0.0
Identities = 1035/2888 (35%), Positives = 1534/2888 (53%), Gaps = 56/2888 (1%)
Frame = +1
Query: 4882 IKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTL 5061

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+ + TVD N + V + +G+ G + DG +VTK K +N++GK FF + +
Sbjct: 1565 VDILLTVDGVNFTNRFVPVGENFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSE 1624
Query: 5062 RSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLE 5241
+A D+ L Y + L + KW+ G + K A+NNC+++ L LQ L
Sbjct: 1625 DLKAVRSSFNFDQKELLAYYNMLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLN 1684
Query: 5242 VKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRV 5421
+KF QEA+ R+G A F +L+LA G+ D R+ + + +L A
Sbjct: 1685 LKFKIVQWQEAWLEFRSGRPARFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICD 1744
Query: 5422 LNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 5601
+ CK CG K TGV+AVM+ GTLS ++L+ G ++ C CG+ + V+ + F++
Sbjct: 1745 FEIACK-CGVKQEQRTGVDAVMHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLIC 1802
Query: 5602 SAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVF 5781
S PA KL +G AN + G+ + GHY H+ +++ D +++ K+++ G ++D
Sbjct: 1803 SNTPASVKLPKGVG-SANIFKGD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCL 1860
Query: 5782 Y-KETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDL-VPTQPLPNASF 5955
Y K T +Y LD V E +P L YY YYT++ I T + +
Sbjct: 1861 YLKNLKQTFKSVLTTYYLDDVKKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGVY 1920
Query: 5956 DNFKLTCSNTKFADDLNQMTGFTKPASR-ELSVTFFPDLNGDVVAIDYRHYSASFKKGAK 6132
NFKL D LN GF E VT +P GDVV Y +++G
Sbjct: 1921 TNFKLI--GHTICDILNAKLGFDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGCI 1978
Query: 6133 LLHKPIVWHINQATTKTTFKPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLACESQ 6312
KP++W ++ + + T+ R L VD N F+VL V+D +++ ES
Sbjct: 1979 TFGKPVIWLSHEQASLNSL---TYFNRPLL----VD-ENKFDVLKVDDVDDGGDIS-ESD 2029
Query: 6313 QPTSEEVVENPTIQKEVIECD--VKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVEN 6486
S+E+ +I+ K +V +VI+ +K + L D+ ++
Sbjct: 2030 AKESKEI--------NIIKLSGVKKPFKVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLTG 2081
Query: 6487 TSITIKKPNELSLALGLKTIATH---GIAAINSVPWSKI-LAYVKPFLGQAAITTSNCAK 6654
++ N+LS+A+ + TI G+ + S+P + L +KP N K
Sbjct: 2082 CRYVVRTANDLSMAVNVPTIRKFIKFGMTLV-SIPIDLLNLREIKPVF--------NVVK 2132
Query: 6655 RLAQRVFN--NYMPYVFTLLF--------QLCTFTKSTNSRIRASLPTTIAKNSVKSVAK 6804
+ ++ N++ ++F LLF +T S++ L KN+ +
Sbjct: 2133 AVRNKISACFNFIKWLFVLLFGWIKISADNKVIYTTEVASKLTCKLVALAFKNAFLTFKW 2192
Query: 6805 LCLDAGINYVKSPKFSKLFTIAMWXXXXXXXXXXXXXVTAAFGVLLSNFGAPSYCNGVRE 6984
+ G + + +W G L P++ + +
Sbjct: 2193 SVVARGACIIAT-------IFLLWFNFIYANVIFSDFYLPKIGFL------PTFVGKIAQ 2239
Query: 6985 LYLNSSNVTTM-------------DFCEGSFPCSICLSGLDSLDSYPALETIQVTISSYK 7125
++ ++ T+ +C GS C CL+G D LD+Y A++ +Q
Sbjct: 2240 WIKSTFSLVTICDLYSIQDVGFKNQYCNGSIACQFCLAGFDMLDNYKAIDVVQYEADRRA 2299
Query: 7126 -LDLT-ILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNS--WLMWFIISI 7293
+D T +L + E +++Y L+T +FY L +Q+ + F+ ++ W + ++S+
Sbjct: 2300 FVDYTGVLKIVIELIVSYALYTAWFYPLFALISIQILTTWLPELFMLSTLHWSVRLLVSL 2359
Query: 7294 VQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMK 7473
M P +R YI ASF ++ + H+ GC+ C+ CYKRNR+ RV+C+TIV GM
Sbjct: 2360 ANMLPAHVFMRFYIIIASFIKLFSLFRHVAYGCSKPGCLFCYKRNRSLRVKCSTIVGGMI 2419
Query: 7474 RSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIV 7653

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R + V ANGG GFC H WNC++CD++ G+TFI+ E A DLS + KRPI PTD + + V
Sbjct: 2420 RYYDVMANGGTGFCSKHQWNCIDCDSYKPGNTFITVEAALDLSKELKRPIQPTDVAYHTV 2479
Query: 7654 DSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCDE 7833
V + L++++ GQ+TY+ S FV+ NL + KG ++V+V + + D+
Sbjct: 2480 TDVKQVGCYMRLFYERDGQRTYDDVNASLFVDYSNLLHSKVKGVPNMHVVVVENDA--DK 2537
Query: 7834 SASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLKA 8013
+ +A+V+Y+Q + +PIL++D+ L++ T V+ MFD YVDTF + F V + L A
Sbjct: 2538 ANFLNAAVFYAQSLFRPILMVDKNLITTANTGTSVTETMFDVYVDTFLSMFDVDKKSLNA 2597
Query: 8014 LVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHS-DLEVTGDSC 8190
L+ATAHS + +G + VL TF+S AR+ + +S S LE+T +SC
Sbjct: 2598 LIATAHSSIKQGTQICKVLDTFLSCARKSCSIDSDVDTKCLADSVMSAVSAGLELTDESC 2657
Query: 8191 NNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQLRKQIR 8370
NN + TY K +N+ DLG I +A+H+ VAK VS IW+V + LS + +++
Sbjct: 2658 NNLVPTYLKGDNIVAADLGVLIQNSAKHVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLK 2717
Query: 8371 SAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVS----TCFKLMLKATXXXXXXXXX 8538
A K + +LT V+V+TT SLKGG + S CF L L
Sbjct: 2718 KACCKTGLKLKLTYNKQMANVSVLTTPFSLKGGAVFSYFVYVCFLLSLVC-------FIG 2770
Query: 8539 XYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAWFSQRGGS-- 8712
+ +MP +T+ D YK + +GV RD+ D CFANK FD W+ G
Sbjct: 2771 LWCLMPTYTVHKSDFQLPVYTSYKVLDNGVIRDVSVEDVCFANKFEQFDQWYESTFGLSY 2830
Query: 8713 YKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICYTPSKLIE 8892
Y N +CP+V A++ +++G V +P VLR LHF+ SA G CYTP I
Sbjct: 2831 YSNSMACPIVVAVVDQDLGSTVFNVPTKVLR-YGYHVLHFITHALSADGVQCYTPHSQIS 2889
Query: 8893 YSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYVLMDGS-IIQ 9069
YS+F S CVL++ CT+F A G P PYCY L++ + YS L P RY L + I+
Sbjct: 2890 YSNFYASGCVLSSACTMFAMADGSPQPYCYTEGLMQNASLYSSLVPHVRYNLANAKGFIR 2949
Query: 9070 FPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRALSGVFCGVDA 9249
FP EG VR+V T YCR G CE ++ GIC + +G WVLNN++YR+L G FCG D
Sbjct: 2950 FPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRSLPGTFCGRDV 3009
Query: 9250 MNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEYNHVVAANAL 9429
+LI +F L QPV L ++AS +AG I+A++V YY +K +R FG+Y +V N +
Sbjct: 3010 FDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGDYTSIVFVNVI 3069
Query: 9430 LFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFAMFSPIVPFWITAI 9609
++ ++F +L + Y L VY++ Y Y T YF +++S + HLQW M+ I+P W +
Sbjct: 3070 VWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYGTIMPLWFCLL 3129
Query: 9610 YVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTFLLNKEMYLKLRSETLLPLTQ 9789
Y+ + H W F Y R R+ + + TFEE AL TF++ K+ Y KL++ L
Sbjct: 3130 YISVVVSNHAFWVFA-YCR-RLGTSVRSDGTFEEMALTTFMITKDSYCKLKNS--LSDVA 3185
Query: 9790 YNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNS-GADVLYQPPQTSITSAVL 9966
+NRYL+LYNKY+Y+SG +DT +YREAAC LAKA++ F+N+ G+DVLYQPP S++++ L
Sbjct: 3186 FNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQPPTASVSTSFL 3245
Query: 9967 QSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLI 10146
QSG KM P+ KVE C+V VT G TLNGLWLDD VYCPRHVIC+A DM NP+Y +LL
Sbjct: 3246 QSGIVKMVNPTSKVEPCIVSVTYGNMTLNGLWLDDKVYCPRHVICSASDMTNPDYTNLLC 3305
Query: 10147 RKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYN 10326

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R ++ F V + L V+ + MQ C+L L V N +TPKY F ++PG+TF+VLA YN
Sbjct: 3306 RVTSSDFTVLFDRLSLTVMSYQMQGCMLVLTVTLQNSRTPKYTFGVVKPGETFTVLAAYN 3365
Query: 10327 GSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEG 10506
G P G + MR ++TIKGSFL GSCGSVG+ + DCV F YMH +EL TG H GTD G
Sbjct: 3366 GKPQGAFHVTMRSSYTIKGSFLCGSCGSVGYVLMGDCVKFVYMHQLELSTGCHTGTDFNG 3425
Query: 10507 KFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNY 10686
FYGP+ D Q Q D ++N +AWLYAA++N WF+ ++ DFN+ A+ +
Sbjct: 3426 DFYGPYKDAQVVQLPVQDYIQSVNFVAWLYAAILNNCNWFVQSDKCSVEDFNVWALSNGF 3485
Query: 10687 EPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQ 10866
+ D V + L++ TG+++ + AA+K L+NG GR I+GS EDE TP DV +Q
Sbjct: 3486 SQVKSDLV--IDALASMTGVSLETLLAAIKR-LKNGFQGRQIMGSCSFEDELTPSDVYQQ 3542
Query: 10867 CSGVTFQGKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFVYENAFLPFTLGIMAIA 11046
+G+ Q K ++VKG W+ +W++F +V N L T + +
Sbjct: 3543 LAGIKLQSKRTRLVKGIVCWIMASTFLFSCIITAFVKWTMFMYVTTN-MLSITFCALCVI 3601
Query: 11047 ACAMLLVKHKHAFLCLFLLPSLATVAYFN-MVYMPASWVMRIMTWLELADTSLSGYRLKD 11223
+ AMLLVKHKH +L ++++P L T+ Y N +V ++ + WL S+ Y D
Sbjct: 3602 SLAMLLVKHKHLYLTMYIIPVLFTLLYNNYLVVYKQTFRGYVYAWLSYYVPSVE-YTYTD 3660
Query: 11224 CVMYASALVL-LILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALDQAISMWALVISV 11400
V+Y L++ ++ +T R++ D + + VI++V Y G+ L++ I + ++ S+
Sbjct: 3661 EVIYGMLLLIGMVFVTLRSINHDLFSFIMFVGRVISVVSLWYMGSNLEEEILL--MLASL 3718
Query: 11401 TSNYSGVVTTIMFLARAIVFVCVEYYPLLFITGNTLQCIMLVXXXXXXXXXXXXXXXXXX 11580
Y+ T + A ++ V L F ++ +++
Sbjct: 3719 FGTYTW-TTALSMAAAKVIAKWVAVNVLYFTDIPQIKIVLVCYLFIGYIISCYWGLFSLM 3777
Query: 11581 NRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGIGGKPCIKVATVQS 11760
N FR+ LGVY+Y +S QE RYMN+ GL PPK+S +A LN KLLGIGG P I+V+ QS
Sbjct: 3778 NSLFRMPLGVYNYKISVQELRYMNANGLRPPKNSFEALMLNFKLLGIGGVPIIEVSQFQS 3837
Query: 11761 KMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKDTTEAFEKMXXXXXXXXX 11940
K++DVKC KLW C LHN+IL D AFEK+
Sbjct: 3838 KLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLFA 3897
Query: 11941 MQGAVD------INRLCEEMLDNRATLQAIASEFSSLPSXXXXXXXXXXXXXXXXNGDXX 12102
AVD I +C++ + LQA+ SEF ++ S +G
Sbjct: 3898 NPAAVDSKCLTSIEEVCDDYAKDNTVLQALQSEFVNMASFVEYEVAKKNLDEARSSGSAN 3957
Query: 12103 XXXXXXXXXX-XXXXXEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTML 12279
++RD A+ RKLE+MAD A+T MYK+AR DK++KV SA+QTML
Sbjct: 3958 QQQLKQLEKACNIAKSAYERDRAVARKLERMADLALTNMYKEARINDKKSKVVSALQTML 4017
Query: 12280 FTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGNTFTYAS 12459
F+M+RK GCVPLN IP A L ++VPD Y D TYA
Sbjct: 4018 FSMVRKLDNQALNSILDNAVKGCVPLNAIPSLAANTLTIIVPDKSVYDQVVDNVYVTYAG 4077
Query: 12460 ALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTALRAN--SAVKLQNNELSPVALRQ 12633
+W+IQ + D+D QL+EI+ D + WPL++ A R N SA LQNNEL P L+
Sbjct: 4078 NVWQIQTIQDSDGTNKQLNEISDDCN----WPLVIIANRHNEVSATVLQNNELMPAKLKT 4133
Query: 12634 MSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYTELEP 12813
+G QT T YYNNS G+ V A+LSD LK+ + K DG + EL+P
Sbjct: 4134 QVVNSGPDQTCNTPTQ--CYYNNSNNGKIVYAILSDVDGLKYTKILKDDG-NFVVLELDP 4190
Query: 12814 PCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEVPANSTVLSFCA 12993

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PC+F KG K+KYLYF+KG N L RG V+G++++TVRLQAG ATE +NS++LS CA
Sbjct: 4191 PCKFTVQDVKGLKIKYLYFVKGCNTLARGWVVGTISSTVRLQAGTATEYASNSSILSLCA 4250
Query: 12994 FAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCCLYCR 13173
F+VDP K Y D++ GG PI NCVKMLC H GTG AITV P+A +Q+S+GGAS C+YCR
Sbjct: 4251 FSVDPKKTYLDFIQQGGTPIANCVKMLCDHAGTGMAITVKPDATTNQDSYGGASVCIYCR 4310
Query: 13174 CHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSCDQLREPLM 13353
++HP+ G C L+GK+VQ+P DPV + L + VC VCG W+ CSC + +
Sbjct: 4311 ARVEHPDVDGLCKLRGKFVQVPVG-IKDPVSYVLTHDVCQVCGFWRDGSCSCVS-TDTTV 4368
Query: 13354 QSADASTF 13377
QS D + F
Sbjct: 4369 QSKDTNFF 4376
Score = 85.1 bits (209), Expect = 6e-14
Identities = 51/155 (32%), Positives = 78/155 (50%), Gaps = 2/155 (1%)
Frame = +1
Query: 3283 LTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKL 3462
+T NV DI+K ++ V+VN AN H+ HGGGVA A+ A KE+ D +K
Sbjct: 1273 ITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVKS 1332
Query: 3463 NGPLTVGGSCLLSGHNLAKKCLHVVGPN--LNAGEDIQLLKAAYENFNSQDILLAPLLSA 3636
G G + +G L K L+VVGP+ + LL+ Y++ N D ++ L+SA
Sbjct: 1333 KGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLISA 1392
Query: 3637 GIFGAKPLQSLQVCVQTVRTQVYIAVNDKALYEQV 3741
GIF SL + T QV + N++ ++ +
Sbjct: 1393 GIFSVPSDVSLTYLLGTAEKQVVLVSNNQEDFDLI 1427
Score = 65.5 bits (158), Expect = 5e-08
Identities = 53/201 (26%), Positives = 96/201 (47%), Gaps = 6/201 (2%)
Frame = +1
Query: 2449 KAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIVGTPVC-VNGLMLLE 2625
KA ++ +L+G D L V + L TP ++ V +C V+ + + +
Sbjct: 771 KAKQKPIYLKGSGSDFSLADSVVEVVTTSL----TPC-GYSEPPKVADKICIVDNVYMAK 825
Query: 2626 IKDKEQYCALSPGLLATNNVFRLKGGAPIKGVTFGED-TVWEVQGY-KNVRITFELDERV 2799
DK + + + +R+ + VTF E TV E+ K +++ +ELD+
Sbjct: 826 AGDKYYPVVVDGHVGLLDQAWRVPCAG--RRVTFKEQPTVNEIASTPKTIKVFYELDKDF 883
Query: 2800 DKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSDLL---TNMGIDLDEWSVATFY 2970
+ +LN C V+ V+ ++ EF VV +A+ + L P +L + L + + +
Sbjct: 884 NTILNTACGVFEVDDTVDMEEFYAVVVDAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLF 943
Query: 2971 LFDDAGEENFSSRMYCSFYPP 3033
LFD+AGEE +S++YC+F P
Sbjct: 944 LFDEAGEEVLASKLYCAFTAP 964
>gi|15077820|gb|AAK83365.1|
Length = 7094
replicase [bovine coronavirus]

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Score = 3507 bits (9094), Expect = 0.0
Identities = 1694/2755 (61%), Positives = 2084/2755 (75%), Gaps = 50/2755 (1%)
Frame = +3
Query: 13350 DAVCGCI-----------NVFKRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFA 13493
D C C+
N FKRV G S ARL PC +G STDV RAFDI N VAG
Sbjct: 4356 DGSCSCVSTDTTVQSKDTNFFKRVRGTSVDARLVPCASGLSTDVQLRAFDICNASVAGIG 4415
Query: 13494 KFLKTNCCRFQEKDEEGNLLDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRV 13673
LK NCCRFQ DE G+ LD +FVVKR ++ Y E Y VKDC VA HDFF F V
Sbjct: 4416 LHLKVNCCRFQRVDENGDKLDQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDV 4475
Query: 13674 DGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFV 13853
+G VPHI R+ LTKYTM DL YALRHFD +C L +IL Y C+ YF KKDWYDFV
Sbjct: 4476 EGSRVPHIVRKDLTKYTMLDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFV 4535
Query: 13854 ENPDILRVYANLGERVRQSLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVA 14033
ENPDI+ VY LG ++L+ +F D + + G+VG+LTLDNQDLNG WYDFGD+V A
Sbjct: 4536 ENPDIINVYKKLGPIFNRALVSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAA 4595
Query: 14034 PGCGVPIVDSYYSLLMPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRY 14213
PGCGV I DSYYS +MP+LT+ AL E +++
+DL++YDFT+ +L LF++Y
Sbjct: 4596 PGCGVAIADSYYSYMMPMLTMCHALDCELYVN----NAYRLFDLVQYDFTDYKLELFNKY 4651
Query: 14214 FKYWDQTYHPNCINCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGY 14393
FK+W YHPN ++C DDRCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GY
Sbjct: 4652 FKHWSMPYHPNTVDCQDDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGY 4711
Query: 14394 HFRELGVVHNQDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVA 14573
H++ELG+V N DV+ H RLS K+LL+YAADPA+H AS + L D RT CFSVAA+T+ V
Sbjct: 4712 HYKELGIVMNMDVDTHRYRLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVK 4771
Query: 14574 FQTVKPGNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDI 14753
FQTVKPGNFN+DFYDF +SKG KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI
Sbjct: 4772 FQTVKPGNFNQDFYDFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDI 4831
Query: 14754 RQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDA 14933
+QLLFV+EVV KYF+ YDGGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD
Sbjct: 4832 KQLLFVLEVVYKYFEIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDE 4891
Query: 14934 LFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGAT 15113
++AYTKRNV+PT+TQMNLKYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG
Sbjct: 4892 IYAYTKRNVLPTLTQMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVP 4951
Query: 15114 VVIGTSKFYGGWHNMLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCC 15293
VVIGT+KFYGGW +ML+ + DV+ P LMGWDYPKCDRAMPN+LRI++SLVLARKH CC
Sbjct: 4952 VVIGTTKFYGGWDDMLRRLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACC 5011
Query: 15294 NLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNA 15473
+ S RFYRLANECAQVLSE+VMCGG YVKPGGTSSGDATTA+ANSVFNICQAV+ANV A
Sbjct: 5012 SQSDRFYRLANECAQVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCA 5071
Query: 15474 LLSTDGNKIADKYVRNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCY 15653
L+S +GNKI D +R LQ RLY +YR+ VD FV E+Y +L KHFSMMILSDD VVCY
Sbjct: 5072 LMSCNGNKIEDLSIRALQKRLYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCY 5131
Query: 15654 NSNYAAQGLVASIKNFKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDY 15833
NS+YA++G +A+I F+ VLYYQNNVFMSE+KCW E D+ GPHEFCSQHTMLVK D
Sbjct: 5132 NSDYASKGYIANISAFQQVLYYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDD 5191

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Query: 15834 VYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQ 16013
VYLPYPDPSRILGAGCFVDD++KTD L+IERFVSLAIDAYPL H N+EY VF +YL+
Sbjct: 5192 VYLPYPDPSRILGAGCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLE 5251
Query: 16014 YIRKLHDELTGHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSL 16193
YI+KL+++L +LD YSV+L+ + ++ + FY+ MY V+Q+VGACV+C+SQTSL
Sbjct: 5252 YIKKLYNDLGNQILDSYSVILSTCDGQKFTDESFYKNMYLRSAVMQSVGACVVCSSQTSL 5311
Query: 16194 RCGACIRRPFLCCKCCYDHVISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKS 16373
RCG+CIR+P LCCKCCYDHV++T HK VLSV+PYVCNAPGCDV DVT+LYLGGMSYYC+
Sbjct: 5312 RCGSCIRKPLLCCKCCYDHVMATDHKYVLSVSPYVCNAPGCDVNDVTKLYLGGMSYYCED 5371
Query: 16374 HKPPISFPLCANGQVFGLYKNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFA 16553
HKP SF L NG VFGLYK +C GS + DFN IA+C WT+ DYILAN CTERLKLFA
Sbjct: 5372 HKPQYSFKLVMNGMVFGLYKQSCTGSPYIDDFNRIASCKWTDVDDYILANECTERLKLFA 5431
Query: 16554 AETLKATEETFKLSYGIATVREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQ 16733
AET KATEE FK SY AT++E++S+REL LSWE+GK +PPLN+NYVFTGY TKN K
Sbjct: 5432 AETQKATEEAFKQSYASATIQEIVSERELILSWEIGKVKPPLNKNYVFTGYHFTKNGKTV 5491
Query: 16734 IGEYTFEKGDYGDAVVYRGTTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHY--VRITGL 16907
+GEY F+K + + V YR TTTYKL+VGD FVLTSH+V LSAPTLVPQE+Y +R +
Sbjct: 5492 LGEYVFDKSELTNGVYYRATTTYKLSVGDVFVLTSHSVANLSAPTLVPQENYSSIRFASV 5551
Query: 16908 YPTLNISDEFSSNVANYQKVGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHA 17087
Y L + F +NV NYQ +GM++Y T+QGPPGTGKSH AIGLA+YY +AR+VYTA SHA
Sbjct: 5552 YSVL---ETFQNNVVNYQHIGMKRYCTVQGPPGTGKSHLAIGLAVYYCTARVVYTAASHA 5608
Query: 17088 AVDALCEKALKYLPIDKCSRIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVV 17267
AVDALCEKA K+L I+ C+RI+PA+ RVEC+DKFK+N T +YVF T+NALPE DIVV
Sbjct: 5609 AVDALCEKAYKFLNINDCTRIVPAKVRVECYDKFKINDTTRKYVFTTINALPEMVTDIVV 5668
Query: 17268 FDEISMATNYDLSVVNARLRAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTI 17447
DE+SM TNY+LSV+NAR+RAKHYVYIGDPAQLPAPR LL+KGTLEP+YFN+V +LM +
Sbjct: 5669 VDEVSMLTNYELSVINARIRAKHYVYIGDPAQLPAPRVLLSKGTLEPKYFNTVTKLMCCL 5728
Query: 17448 GPDMFLGTCRRCPAEIVDTVSALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQ 17627
GPD+FLGTC RCP EIVDTVSALVY+NKLKA + S+ CFK++YKGV TH+ SSA+N Q
Sbjct: 5729 GPDIFLGTCYRCPKEIVDTVSALVYENKLKAKNESSSLCFKVYYKGVTTHESSSAVNMQQ 5788
Query: 17628 IGVVREFLTRNPAWRKAVFISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTET 17807
I ++ +FL NP W KAVFISPYNSQN A ++LGL TQTVDS+QGSEYDYVI++QT ET
Sbjct: 5789 IYLINKFLKANPLWHKAVFISPYNSQNFAAKRVLGLQTQTVDSAQGSEYDYVIYSQTAET 5848
Query: 17808 AHSCNVNRFNVAITRAKIGILCIMSDRDLYDKLQFTSLEIPR-RNVATLQAENVTGLFKD 17984
AHS NVNRFNVAITRAK GILC+MS+ L++ LQFT+L + + + + T LFKD
Sbjct: 5849 AHSVNVNRFNVAITRAKKGILCVMSNMQLFEALQFTTLTLDKVPQAVETRVQCSTNLFKD 5908
Query: 17985 CSKIITGLHPTQAPTHLSVDIKFKTEGLCVDIPGI-PKDMTYRRLISMMGFKMNYQVNGY 18161
CSK +G HP AP+ L+VD K+K G GI +TY RLIS+MGFK++ ++GY
Sbjct: 5909 CSKSYSGYHPAHAPSFLAVDDKYKATGDLAVCLGIGDSAVTYSRLISLMGFKLDVTLDGY 5968
Query: 18162 PNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTEN 18341
+FIT+EEA++ VRAW+GFD EG HATRD++GTN PLQLGFSTG++ V TG +
Sbjct: 5969 CKLFITKEEAVKRVRAWVGFDAEGAHATRDSIGTNFPLQLGFSTGIDFVVEATGLFADRD 6028
Query: 18342 NTEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHG 18521
F + AK PPG+QFKHLIPLM +G W+VVR +IVQM +D L LSD VV V WA
Sbjct: 6029 GYSFKKAVAKAPPGEQFKHLIPLMTRGQRWDVVRPRIVQMFADHLIDLSDCVVLVTWAAN 6088

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Query: 18522 FELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGF 18701
FELT ++YF K+G E +C +C KRAT +++ + Y CW HSV DY+YNP ++D+QQWG+
Sbjct: 6089 FELTCLRYFAKVGREISCNVCTKRATAYNSRTGYYGCWRHSVTCDYLYNPLIVDIQQWGY 6148
Query: 18702 TGNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSAC 18881
G+L SNHD +C VH AHVAS DAIMTRCLAV++CF ++W+VEYPII +EL +N++C
Sbjct: 6149 IGSLSSNHDLYCSVHKGAHVASSDAIMTRCLAVYDCFCNNINWNVEYPIISNELSINTSC 6208
Query: 18882 RKVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYS 19061
R +Q +++K+A+L +++ + +DIGNPKAI CV + ++KFYDAQP ++ L YS
Sbjct: 6209 RVLQRVMLKAAMLCNRYTLCYDIGNPKAIACV--KDFDFKFYDAQPI---VKSVKTLLYS 6263
Query: 19062 YATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTP 19241
+ H D F DG+C+FWNCNVD+YP NA+VCRFDTRVL+NLNLPGC+GGSLYVNKHAFHT
Sbjct: 6264 FEAHKDSFKDGLCMFWNCNVDKYPPNAVVCRFDTRVLNNLNLPGCNGGSLYVNKHAFHTK 6323
Query: 19242 AFDKSAFTNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHAN 19421
F ++AF +LK +PFFYYSD+PC
+DYVPLKSATCITRCNLGGAVC HA
Sbjct: 6324 PFSRAAFEHLKPMPFFYYSDTPCVYMDGMDAKQVDYVPLKSATCITRCNLGGAVCLKHAE 6383
Query: 19422 EYRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEA 19601
EYR+YL++YN +AGF+ W+YK FD YNLWNTFT+LQSLENV YN+V GH+ G AGE
Sbjct: 6384 EYREYLESYNTATTAGFTFWVYKTFDFYNLWNTFTKLQSLENVVYNLVKTGHYTGQAGEM 6443
Query: 19602 PVSIINNAVYTKVDGIDVEIFENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAAN 19781
P +IIN+ V K+D DV IF N TT P NVA EL+AKR+I+ PE+K+ NL +D+
Sbjct: 6444 PCAIINDKVVAKIDKEDVVIFINNTTYPTNVAVELFAKRSIRHHPELKLFRNLNIDVCWK 6503
Query: 19782 TVIWDYKREAPAHVSTIGVCTMTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVL <strong>199</strong>61
VIWDY RE+ +T GVC TD+ L VLFDGR G ++ F+ + NGV
Sbjct: 6504 HVIWDYARESIFCSNTYGVCMYTDL------KFIDKLNVLFDGRDNGALEAFKRSNNGVY 6557
Query: <strong>199</strong>62 ITEGSVKGLTPSKGPAQASVNGVTL--IGES---------------VKTQFNYFK----- 20075
I+ VK L+ KGP +A +NGV + +G++ + +QF+ +
Sbjct: 6558 ISTTKVKSLSMIKGPPRAELNGVVVDKVGDTDCVFYFAVRKEGQDVIFSQFDSLRVSSNQ 6617
Query: 20076 ------------KVDGIIQQLPETYFTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLE 20219
V G T FTQSR + F R+ ME DF+ L D FIQ+Y LE
Sbjct: 6618 SPQGNLGSNEPGNVGGNDALATSTIFTQSRVISSFTCRTDMEKDFIALDQDLFIQKYGLE 6677
Query: 20220 GYAFEHIVYGDFSHGQLGGLHLMIGLAKRSQDSPLKLEDFIPMDSTVKNYFITDAQTGSS 20399
YAFEHIVYG+F+ +GGLHL+IGL +R Q S L +++F+ DS++ +YFITD ++G S
Sbjct: 6678 DYAFEHIVYGNFNQKIIGGLHLLIGLYRRQQTSNLVIQEFVSYDSSIHSYFITDEKSGGS 6737
Query: 20400 KCVCSVIDLLLDDFVEIIKSQDLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQAS 20579
K VC+VID+LLDDFV ++KS +L+ +SKVV V +D+ + FMLWC D V TFYP+LQA+
Sbjct: 6738 KSVCTVIDILLDDFVALVKSLNLNCVSKVVNVNVDFKDFQFMLWCNDEKVMTFYPRLQAA 6797
Query: 20580 RAWQPGVAMPNLYKMQRMLLEKCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVP 20759
W+PG +MP LYK +E+ L NYG+ +P G MMNVAKYTQLCQYLNT TLAVP
Sbjct: 6798 SDWKPGYSMPVLYKYLNSPMERVSLWNYGKPVTLPTGCMMNVAKYTQLCQYLNTTTLAVP 6857
Query: 20760 YNMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTAN 20939
NMRV+H GAGS+KGVAPG+AVLRQWLP GT+LVD+DL FVSD+ +T GDC T+
Sbjct: 6858 VNMRVLHLGAGSEKGVAPGSAVLRQWLPAGTILVDNDLYPFVSDSVATYFGDCITLPFDC 6917
Query: 20940 KWDLIISDMYDPRTKHVTKENDSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYK 21119
+WDLIISDMYDP TK++ + N SK+GFFTY+C I+ KLALGGS+A+KITE SWNA+LYK
Sbjct: 6918 QWDLIISDMYDPITKNIGEYNVSKDGFFTYICHMIRDKLALGGSVAIKITEFSWNAELYK 6977

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Query: 21120 LMGHFSWWTAFVTNVNASSSEAFLIGANYLGKPKEQIDGYTMHANYIFWRNTNPIQLSSY 21299
LMG+F++WT F TN NASSSE FLIG NYLGKPK +IDG MHANY+FWRN+ +Y
Sbjct: 6978 LMGYFAFWTVFCTNANASSSEGFLIGINYLGKPKVEIDGNVMHANYLFWRNSTVWNGGAY 7037
Query: 21300 SLFDMSKFPLKLRGTAVMSLKENQINDMIYSLLEKGRLIIRENNRVVVSSDILVN 21464
SLFDM+KFPLKL GTAV++L+ +QINDM+YSLLEKG+L++R+ N+ V D LVN
Sbjct: 7038 SLFDMAKFPLKLAGTAVINLRADQINDMVYSLLEKGKLLVRDTNKEVFVGDSLVN 7092
Score = 1746 bits (4521), Expect = 0.0
Identities = 1035/2888 (35%), Positives = 1533/2888 (53%), Gaps = 56/2888 (1%)
Frame = +1
Query: 4882 IKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTL 5061
+ + TVD N + V + ++G+ G + DG +VTK K +N++GK FF + +
Sbjct: 1565 VDILLTVDGVNFTNRFVPVGESFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSE 1624
Query: 5062 RSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLE 5241
+A D+ L Y + L + KW+ G + K A+NNC+++ L LQ L
Sbjct: 1625 DLKAVRSSFNFDQKELLAYYNMLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLN 1684
Query: 5242 VKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRV 5421
+KF QEA+ R+G A F +L+LA G+ D R+ + + +L A
Sbjct: 1685 LKFKIVQWQEAWLEFRSGRPARFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICD 1744
Query: 5422 LNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 5601
+ CK CG K TGV+AVM+ GTLS ++L+ G ++ C CG+ + V+ + F++
Sbjct: 1745 FEIACK-CGVKQEQRTGVDAVMHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLIC 1802
Query: 5602 SAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVF 5781
S PA KL +G AN + G+ + GHY H+ +++ D +++ K+++ G ++D
Sbjct: 1803 SNTPASVKLPKGVG-SANIFKGD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCL 1860
Query: 5782 Y-KETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDL-VPTQPLPNASF 5955
Y K T +Y LD V E P L YY YYT++ I T + +
Sbjct: 1861 YLKNLKQTFKSVLTTYYLDDVKKIEYNPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGVY 1920
Query: 5956 DNFKLTCSNTKFADDLNQMTGFTKPASR-ELSVTFFPDLNGDVVAIDYRHYSASFKKGAK 6132
NFKL D LN GF E VT +P GDVV Y +++G
Sbjct: 1921 TNFKLI--GHTICDILNAKLGFDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGCI 1978
Query: 6133 LLHKPIVWHINQATTKTTFKPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLACESQ 6312
KP++W ++ + + T+ R L VD N F+VL V+D +++ ES
Sbjct: 1979 TFGKPVIWLSHEQASLNSL---TYFNRPLL----VD-ENKFDVLKVDDVDDGGDIS-ESD 2029
Query: 6313 QPTSEEVVENPTIQKEVIECD--VKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVEN 6486
S+E+ +I+ K +V +VI+ +K + L D+ ++
Sbjct: 2030 AKESKEI--------NIIKLSGVKKPFKVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLTG 2081
Query: 6487 TSITIKKPNELSLALGLKTIATH---GIAAINSVPWSKI-LAYVKPFLGQAAITTSNCAK 6654
++ N LS+A+ + TI G+ + S+P + L +KP N K
Sbjct: 2082 CRYVVRTANALSMAVNVPTIRKFIKFGMTLV-SIPIDLLNLREIKPVF--------NVVK 2132
Query: 6655 RLAQRVFN--NYMPYVFTLLF--------QLCTFTKSTNSRIRASLPTTIAKNSVKSVAK 6804
+ ++ N++ ++F LLF +T S++ L KN+ +
Sbjct: 2133 AVRNKISACFNFIKWLFVLLFGWIKISADNKVIYTTEVASKLTCKLVALAFKNAFLTFKW 2192
Query: 6805 LCLDAGINYVKSPKFSKLFTIAMWXXXXXXXXXXXXXVTAAFGVLLSNFGAPSYCNGVRE 6984
+ G + + +W G L P++ + +

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Sbjct: 2193 SVVARGACIIAT-------IFLLWFNFIYANVIFSDFYLPKIGFL------PTFVGKIAQ 2239
Query: 6985 LYLNSSNVTTM-------------DFCEGSFPCSICLSGLDSLDSYPALETIQVTISSYK 7125
++ ++ T+ +C GS C CL+G D LD+Y A++ +Q
Sbjct: 2240 WIKSTFSLVTICDLYSIQDVGFKNQYCNGSIACQFCLAGFDMLDNYKAIDVVQYEADRRA 2299
Query: 7126 -LDLT-ILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNS--WLMWFIISI 7293
+D T +L + E +++Y L+T +FY L +Q+ + F+ ++ W + ++S+
Sbjct: 2300 FVDYTGVLKIVIELIVSYALYTAWFYPLFALISIQILTTWLPELFMLSTLHWSVRLLVSL 2359
Query: 7294 VQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMK 7473
M P +R YI ASF ++ + H+ GC+ C+ CYKRNR+ RV+C+TIV GM
Sbjct: 2360 ANMLPAHVFMRFYIIIASFIKLFILFRHVAYGCSKPGCLFCYKRNRSLRVKCSTIVGGMI 2419
Query: 7474 RSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIV 7653
R + V ANGG GFC H WNC++CD++ G+TFI+ E A DLS + KRPI PTD + + V
Sbjct: 2420 RYYDVMANGGTGFCSKHQWNCIDCDSYKPGNTFITVEAALDLSKELKRPIQPTDVAYHTV 2479
Query: 7654 DSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCDE 7833
V + L++++ GQ+TY+ S FV+ NL + KG ++V+V + + D+
Sbjct: 2480 TDVKQVGCYMRLFYERDGQRTYDDVNASLFVDYSNLLHSKVKGVPNMHVVVVENDA--DK 2537
Query: 7834 SASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLKA 8013
+ +A+V+Y+Q + +PIL++D+ L++ T V+ MFD YVDTF + F V + L A
Sbjct: 2538 ANFLNAAVFYAQSLFRPILMVDKNLITTANTGTSVTETMFDVYVDTFLSMFDVDKKSLNA 2597
Query: 8014 LVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHS-DLEVTGDSC 8190
L+ATAHS + +G + VL TF+S AR+ + +S S LE+T +SC
Sbjct: 2598 LIATAHSSIKQGTQICKVLDTFLSCARKSCSIDSDVDTKCLADSVMSAVSAGLELTDESC 2657
Query: 8191 NNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQLRKQIR 8370
NN + TY K +N+ DLG I +A+H+ VAK VS IW+V + LS + +++
Sbjct: 2658 NNLVPTYLKGDNIVAADLGVLIQNSAKHVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLK 2717
Query: 8371 SAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVS----TCFKLMLKATXXXXXXXXX 8538
A K + +LT V+V+TT SLKGG + S CF L L
Sbjct: 2718 KACCKTGLKLKLTYNKQMANVSVLTTPFSLKGGAVFSYFVYVCFLLSLVC-------FIG 2770
Query: 8539 XYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAWFSQRGGS-- 8712
+ +MP +T+ D YK + +GV RD+ D CFANK FD W+ G
Sbjct: 2771 LWCLMPTYTVHKSDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQWYESTFGLSY 2830
Query: 8713 YKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICYTPSKLIE 8892
Y N +CP+V A++ +++G V +P VLR LHF+ SA G CYTP I
Sbjct: 2831 YSNSMACPIVVAVVDQDLGSTVFNVPTKVLR-YGYHVLHFITHALSADGVQCYTPHSQIS 2889
Query: 8893 YSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYVLMDGS-IIQ 9069
YS+F S CVL++ CT+F A G P PYCY L++ + YS L P RY L + I+
Sbjct: 2890 YSNFYASGCVLSSACTMFAMADGSPQPYCYTEGLMQNASLYSSLVPHVRYNLANAKGFIR 2949
Query: 9070 FPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRALSGVFCGVDA 9249
FP EG VR+V T YCR G CE ++ GIC + +G WVLNN++YR+L G FCG D
Sbjct: 2950 FPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRSLPGTFCGRDV 3009
Query: 9250 MNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEYNHVVAANAL 9429
+LI +F L QPV L ++AS +AG I+A++V YY +K +R FG+Y +V N +
Sbjct: 3010 FDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGDYTSIVFVNVI 3069
Query: 9430 LFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFAMFSPIVPFWITAI 9609
++ ++F +L + Y L VY++ Y Y T YF +++S + HLQW M+ I+P W +

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Sbjct: 3070 VWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYGTIMPLWFCLL 3129
Query: 9610 YVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTFLLNKEMYLKLRSETLLPLTQ 9789
Y+ + H W F Y R R+ + + TFEE AL TF++ K+ Y KL++ L
Sbjct: 3130 YISVVVSNHAFWVFA-YCR-RLGTSVRSDGTFEEMALTTFMITKDSYCKLKNS--LSDVA 3185
Query: 9790 YNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNS-GADVLYQPPQTSITSAVL 9966
+NRYL+LYNKY+Y+SG +DT +YREAAC LAKA++ F+N+ G+DVLYQPP S++++ L
Sbjct: 3186 FNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQPPTASVSTSFL 3245
Query: 9967 QSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLI 10146
QSG KM P+ KVE C+V VT G TLNGLWLDD VYCPRHVIC+A DM NP+Y +LL
Sbjct: 3246 QSGIVKMVNPTSKVEPCIVSVTYGNMTLNGLWLDDKVYCPRHVICSASDMTNPDYTNLLC 3305
Query: 10147 RKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYN 10326
R ++ F V + L V+ + MQ C+L L V N +TPKY F ++PG+TF+VLA YN
Sbjct: 3306 RVTSSDFTVLFDRLSLTVMSYQMQGCMLVLTVTLQNSRTPKYTFGVVKPGETFTVLAAYN 3365
Query: 10327 GSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEG 10506
G P G + MR ++TIKGSFL GSCGSVG+ + DCV F YMH +EL TG H GTD G
Sbjct: 3366 GKPQGAFHVTMRSSYTIKGSFLCGSCGSVGYVLMGDCVKFVYMHQLELSTGCHTGTDFNG 3425
Query: 10507 KFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNY 10686
FYGP+ D Q Q D ++N +AWLYAA++N WF+ ++ DFN+ A+ +
Sbjct: 3426 DFYGPYKDAQVVQLPVQDYIQSVNFVAWLYAAILNNCNWFVQSDKCSVEDFNVWALSNGF 3485
Query: 10687 EPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQ 10866
+ D V + L++ TG+++ + AA+K L+NG GR I+GS EDE TP DV +Q
Sbjct: 3486 SQVKSDLV--IDALASMTGVSLETLLAAIKR-LKNGFQGRQIMGSCSFEDELTPSDVYQQ 3542
Query: 10867 CSGVTFQGKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFVYENAFLPFTLGIMAIA 11046
+G+ Q K ++VKG W+ +W++F +V N L T + +
Sbjct: 3543 LAGIKLQSKRTRLVKGIVCWIMASTFLFSCIITAFVKWTMFMYVTTN-MLSITFCALCVI 3601
Query: 11047 ACAMLLVKHKHAFLCLFLLPSLATVAYFN-MVYMPASWVMRIMTWLELADTSLSGYRLKD 11223
+ AMLLVKHKH +L ++++P L T+ Y N +V ++ + WL S+ Y D
Sbjct: 3602 SLAMLLVKHKHLYLTMYIIPVLFTLLYNNYLVVYKQTFRGYVYAWLSYYVPSVE-YTYTD 3660
Query: 11224 CVMYASALVL-LILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALDQAISMWALVISV 11400
V+Y L++ ++ +T R++ D + + VI++V Y G+ L++ I + ++ S+
Sbjct: 3661 EVIYGMLLLIGMVFVTLRSINHDLFSFIMFVGRVISVVSLWYMGSNLEEEILL--MLASL 3718
Query: 11401 TSNYSGVVTTIMFLARAIVFVCVEYYPLLFITGNTLQCIMLVXXXXXXXXXXXXXXXXXX 11580
Y+ T + A ++ V L F ++ +++
Sbjct: 3719 FGTYTW-TTALSMAAAKVIAKWVAVNVLYFTDIPQIKIVLVCYLFIGYIISCYWGLFSLM 3777
Query: 11581 NRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGIGGKPCIKVATVQS 11760
N FR+ LGVY+Y +S QE RYMN+ GL PPK+S +A LN KLLGIGG P I+V+ QS
Sbjct: 3778 NSLFRMPLGVYNYKISVQELRYMNANGLRPPKNSFEALMLNFKLLGIGGVPIIEVSQFQS 3837
Query: 11761 KMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKDTTEAFEKMXXXXXXXXX 11940
K++DVKC KLW C LHN+IL D AFEK+
Sbjct: 3838 KLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLFA 3897
Query: 11941 MQGAVD------INRLCEEMLDNRATLQAIASEFSSLPSXXXXXXXXXXXXXXXXNGDXX 12102
AVD I +C++ + LQA+ SEF ++ S +G
Sbjct: 3898 NPAAVDSKCLTSIEEVCDDYAKDNTVLQALQSEFVNMASFVEYEVAKKNLDEARSSGSAN 3957
Query: 12103 XXXXXXXXXX-XXXXXEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTML 12279
++RD A+ RKLE+MAD A+T MYK+AR DK++KV SA+QTML

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Sbjct: 3958 QQQLKQLEKACNIAKSAYERDRAVARKLERMADLALTNMYKEARINDKKSKVVSALQTML 4017
Query: 12280 FTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGNTFTYAS 12459
F+M+RK GCVPLN IP A L ++VPD Y D TYA
Sbjct: 4018 FSMVRKLDNQALNSILDNAVKGCVPLNAIPSLAANTLTIIVPDKSVYDQVVDNVYVTYAG 4077
Query: 12460 ALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTALRAN--SAVKLQNNELSPVALRQ 12633
+W+IQ + D+D QL+EI+ D + WPL++ A R N SA LQNNEL P L+
Sbjct: 4078 NVWQIQTIQDSDGTNKQLNEISDDCN----WPLVIIANRHNEVSATVLQNNELMPAKLKT 4133
Query: 12634 MSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYTELEP 12813
+G QT T YYNNS G+ V A+LSD LK+ + K DG + EL+P
Sbjct: 4134 QVVNSGPDQTCNTPTQ--CYYNNSNNGKIVYAILSDVDGLKYTKILKDDG-NFVVLELDP 4190
Query: 12814 PCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEVPANSTVLSFCA 12993
PC+F KG K+KYLYF+KG N L RG V+G++++TVRLQAG ATE +NS++LS CA
Sbjct: 4191 PCKFTVQDVKGLKIKYLYFVKGCNTLARGWVVGTISSTVRLQAGTATEYASNSSILSLCA 4250
Query: 12994 FAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCCLYCR 13173
F+VDP K Y D++ GG PI NCVKMLC H GTG AITV P+A +Q+S+GGAS C+YCR
Sbjct: 4251 FSVDPKKTYLDFIQQGGTPIANCVKMLCDHAGTGMAITVKPDATTNQDSYGGASVCIYCR 4310
Query: 13174 CHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSCDQLREPLM 13353
++HP+ G C L+GK+VQ+P DPV + L + VC VCG W+ CSC + +
Sbjct: 4311 ARVEHPDVDGLCKLRGKFVQVPVG-IKDPVSYVLTHDVCQVCGFWRDGSCSCVS-TDTTV 4368
Query: 13354 QSADASTF 13377
QS D + F
Sbjct: 4369 QSKDTNFF 4376
Score = 85.1 bits (209), Expect = 6e-14
Identities = 51/155 (32%), Positives = 78/155 (50%), Gaps = 2/155 (1%)
Frame = +1
Query: 3283 LTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKL 3462
+T NV DI+K ++ V+VN AN H+ HGGGVA A+ A KE+ D +K
Sbjct: 1273 ITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVKS 1332
Query: 3463 NGPLTVGGSCLLSGHNLAKKCLHVVGPN--LNAGEDIQLLKAAYENFNSQDILLAPLLSA 3636
G G + +G L K L+VVGP+ + LL+ Y++ N D ++ L+SA
Sbjct: 1333 KGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLISA 1392
Query: 3637 GIFGAKPLQSLQVCVQTVRTQVYIAVNDKALYEQV 3741
GIF SL + T QV + N++ ++ +
Sbjct: 1393 GIFSVPSDVSLTYLLGTAEKQVVLVSNNQEDFDLI 1427
Score = 65.1 bits (157), Expect = 7e-08
Identities = 53/201 (26%), Positives = 96/201 (47%), Gaps = 6/201 (2%)
Frame = +1
Query: 2449 KAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIVGTPVC-VNGLMLLE 2625
KA ++ +L+G D L V + L TP ++ V +C V+ + + +
Sbjct: 771 KAKQKPIYLKGSGSDFSLADSVVEVVTTSL----TPC-GYSEPPKVADKICIVDNVYMAK 825
Query: 2626 IKDKEQYCALSPGLLATNNVFRLKGGAPIKGVTFGED-TVWEVQGY-KNVRITFELDERV 2799
DK + + + +R+ + VTF E TV E+ K +++ +ELD+

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Sbjct: 826 AGDKYYPVVVDGHVGLLDQAWRVPCAG--RRVTFKEQPTVNEIASTPKTIKVFYELDKDF 883
Query: 2800 DKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSDLL---TNMGIDLDEWSVATFY 2970
+ +LN C V+ V+ ++ EF VV +A+ + L P +L + L + + +
Sbjct: 884 NTILNTACGVFEVDDTVDMEEFYAVVIDAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLF 943
Query: 2971 LFDDAGEENFSSRMYCSFYPP 3033
LFD+AGEE +S++YC+F P
Sbjct: 944 LFDEAGEEVLASKLYCAFTAP 964
>gi|26008080|ref|NP_150073.2|
Length = 7094
orf1ab polyprotein [Bovine coronavirus]
Score = 3503 bits (9083), Expect = 0.0
Identities = 1692/2755 (61%), Positives = 2082/2755 (75%), Gaps = 50/2755 (1%)
Frame = +3
Query: 13350 DAVCGCI-----------NVFKRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFA 13493
D C C+ N RV G S ARL PC +G STDV RAFDI N VAG
Sbjct: 4356 DGSCSCVSTDTTVQSKDTNFLNRVRGTSVDARLVPCASGLSTDVQLRAFDICNASVAGIG 4415
Query: 13494 KFLKTNCCRFQEKDEEGNLLDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRV 13673
LK NCCRFQ DE G+ LD +FVVKR ++ Y E Y VKDC VA HDFF F V
Sbjct: 4416 LHLKVNCCRFQRVDENGDKLDQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDV 4475
Query: 13674 DGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFV 13853
+G VPHI R+ LTKYTM DL YALRHFD +C L +IL Y C+ YF KKDWYDFV
Sbjct: 4476 EGSRVPHIVRKDLTKYTMLDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFV 4535
Query: 13854 ENPDILRVYANLGERVRQSLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVA 14033
ENPDI+ VY LG ++L+ +F D + + G+VG+LTLDNQDLNG WYDFGD+V A
Sbjct: 4536 ENPDIINVYKKLGPIFNRALVSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAA 4595
Query: 14034 PGCGVPIVDSYYSLLMPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRY 14213
PGCGV I DSYYS +MP+LT+ AL E +++
+DL++YDFT+ +L LF++Y
Sbjct: 4596 PGCGVAIADSYYSYMMPMLTMCHALDCELYVN----NAYRLFDLVQYDFTDYKLELFNKY 4651
Query: 14214 FKYWDQTYHPNCINCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGY 14393
FK+W YHPN ++C DDRCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GY
Sbjct: 4652 FKHWSMPYHPNTVDCQDDRCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGY 4711
Query: 14394 HFRELGVVHNQDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVA 14573
H++ELG+V N DV+ H RLS K+LL+YAADPA+H AS + L D RT CFSVAA+T+ V
Sbjct: 4712 HYKELGIVMNMDVDTHRYRLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVK 4771
Query: 14574 FQTVKPGNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDI 14753
FQTVKPGNFN+DFYDF +SKG KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI
Sbjct: 4772 FQTVKPGNFNQDFYDFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDI 4831
Query: 14754 RQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDA 14933
+QLLFV+EVV KYF+ YDGGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD
Sbjct: 4832 KQLLFVLEVVYKYFEIYDGGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDE 4891
Query: 14934 LFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGAT 15113
++AYTKRNV+PT+TQMNLKYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG
Sbjct: 4892 IYAYTKRNVLPTLTQMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVP 4951
Query: 15114 VVIGTSKFYGGWHNMLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCC 15293

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VVIGT+KFYGGW +ML+ + DV+ P LMGWDYPKCDRAMPN+LRI++SLVLARKH CC
Sbjct: 4952 VVIGTTKFYGGWDDMLRRLIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACC 5011
Query: 15294 NLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNA 15473
+ S RFYRLANECAQVLSE+VMCGG YVKPGGTSSGDATTA+ANSVFNICQAV+ANV A
Sbjct: 5012 SQSDRFYRLANECAQVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCA 5071
Query: 15474 LLSTDGNKIADKYVRNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCY 15653
L+S +GNKI D +R LQ RLY +YR+ VD FV E+Y +L KHFSMMILSDD VVCY
Sbjct: 5072 LMSCNGNKIEDLSIRALQKRLYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCY 5131
Query: 15654 NSNYAAQGLVASIKNFKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDY 15833
NS+YA++G +A+I F+ VLYYQNNVFMSE+KCW E D+ GPHEFCSQHTMLVK D
Sbjct: 5132 NSDYASKGYIANISAFQQVLYYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDD 5191
Query: 15834 VYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQ 16013
VYLPYPDPSRILGAGCFVDD++KTD L+IERFVSLAIDAYPL H N+EY VF +YL+
Sbjct: 5192 VYLPYPDPSRILGAGCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLE 5251
Query: 16014 YIRKLHDELTGHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSL 16193
YI+KL+++L +LD YSV+L+ + ++ + FY+ MY V+Q+VGACV+C+SQTSL
Sbjct: 5252 YIKKLYNDLGNQILDSYSVILSTCDGQKFTDESFYKNMYLRSAVMQSVGACVVCSSQTSL 5311
Query: 16194 RCGACIRRPFLCCKCCYDHVISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKS 16373
RCG+CIR+P LCCKCCYDHV++T HK VLSV+PYVCNAPGCDV DVT+LYLGGMSYYC+
Sbjct: 5312 RCGSCIRKPLLCCKCCYDHVMATDHKYVLSVSPYVCNAPGCDVNDVTKLYLGGMSYYCED 5371
Query: 16374 HKPPISFPLCANGQVFGLYKNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFA 16553
HKP SF L NG VFGLYK +C GS + DFN IA+C WT+ DYILAN CTERLKLFA
Sbjct: 5372 HKPQYSFKLVMNGMVFGLYKQSCTGSPYIDDFNRIASCKWTDVDDYILANECTERLKLFA 5431
Query: 16554 AETLKATEETFKLSYGIATVREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQ 16733
AET KATEE FK SY AT++E++S+REL LSWE+GK +PPLN+NYVFTGY TKN K
Sbjct: 5432 AETQKATEEAFKQSYASATIQEIVSERELILSWEIGKVKPPLNKNYVFTGYHFTKNGKTV 5491
Query: 16734 IGEYTFEKGDYGDAVVYRGTTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHY--VRITGL 16907
+GEY F+K + + V YR TTTYKL+VGD FVLTSH+V LSAPTLVPQE+Y +R +
Sbjct: 5492 LGEYVFDKSELTNGVYYRATTTYKLSVGDVFVLTSHSVANLSAPTLVPQENYSSIRFASV 5551
Query: 16908 YPTLNISDEFSSNVANYQKVGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHA 17087
Y L + F +NV NYQ +GM++Y T+QGPPGTGKSH AIGLA+YY +AR+VYTA SHA
Sbjct: 5552 YSVL---ETFQNNVVNYQHIGMKRYCTVQGPPGTGKSHLAIGLAVYYCTARVVYTAASHA 5608
Query: 17088 AVDALCEKALKYLPIDKCSRIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVV 17267
AVDALCEKA K+L I+ C+RI+PA+ RVEC+DKFK+N T +YVF T+NALPE DIVV
Sbjct: 5609 AVDALCEKAYKFLNINDCTRIVPAKVRVECYDKFKINDTTRKYVFTTINALPEMVTDIVV 5668
Query: 17268 FDEISMATNYDLSVVNARLRAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTI 17447
DE+SM TNY+LSV+NAR+RAKHYVYIGDPAQLPAPR LL+KGTLEP+YFN+V +LM +
Sbjct: 5669 VDEVSMLTNYELSVINARIRAKHYVYIGDPAQLPAPRVLLSKGTLEPKYFNTVTKLMCCL 5728
Query: 17448 GPDMFLGTCRRCPAEIVDTVSALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQ 17627
GPD+FLGTC RCP EIVDTVSALVY+NKLKA + S+ CFK++YKGV TH+ SSA+N Q
Sbjct: 5729 GPDIFLGTCYRCPKEIVDTVSALVYENKLKAKNESSSLCFKVYYKGVTTHESSSAVNMQQ 5788
Query: 17628 IGVVREFLTRNPAWRKAVFISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTET 17807
I ++ +FL NP W KAVFISPYNSQN A ++LGL TQTVDS+QGSEYDYVI++QT ET
Sbjct: 5789 IYLINKFLKANPLWHKAVFISPYNSQNFAAKRVLGLQTQTVDSAQGSEYDYVIYSQTAET 5848
Query: 17808 AHSCNVNRFNVAITRAKIGILCIMSDRDLYDKLQFTSLEIPR-RNVATLQAENVTGLFKD 17984

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AHS NVNRFNVAITRAK GILC+MS+ L++ LQFT+L + + + + T LFKD
Sbjct: 5849 AHSVNVNRFNVAITRAKKGILCVMSNMQLFEALQFTTLTLDKVPQAVETRVQCSTNLFKD 5908
Query: 17985 CSKIITGLHPTQAPTHLSVDIKFKTEGLCVDIPGI-PKDMTYRRLISMMGFKMNYQVNGY 18161
CSK +G HP AP+ L+VD K+K G GI +TY RLIS+MGFK++ ++GY
Sbjct: 5909 CSKSYSGYHPAHAPSFLAVDDKYKATGDLAVCLGIGDSAVTYSRLISLMGFKLDVTLDGY 5968
Query: 18162 PNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTEN 18341
+FIT+EEA++ VRAW+GFD EG HATRD++GTN PLQLGFSTG++ V TG +
Sbjct: 5969 CKLFITKEEAVKRVRAWVGFDAEGAHATRDSIGTNFPLQLGFSTGIDFVVEATGLFADRD 6028
Query: 18342 NTEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHG 18521
F + AK PPG+QFKHLIPLM +G W+VVR +IVQM +D L LSD VV V WA
Sbjct: 6029 GYSFKKAVAKAPPGEQFKHLIPLMTRGQRWDVVRPRIVQMFADHLIDLSDCVVLVTWAAN 6088
Query: 18522 FELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGF 18701
FELT ++YF K+G E +C +C KRAT +++ + Y CW HSV DY+YNP ++D+QQWG+
Sbjct: 6089 FELTCLRYFAKVGREISCNVCTKRATAYNSRTGYYGCWRHSVTCDYLYNPLIVDIQQWGY 6148
Query: 18702 TGNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSAC 18881
G+L SNHD +C VH AHVAS DAIMTRCLAV++CF ++W+VEYPII +EL +N++C
Sbjct: 6149 IGSLSSNHDLYCSVHKGAHVASSDAIMTRCLAVYDCFCNNINWNVEYPIISNELSINTSC 6208
Query: 18882 RKVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYS 19061
R +Q +++K+A+L +++ + +DIGNPKAI CV + ++KFYDAQP ++ L YS
Sbjct: 6209 RVLQRVMLKAAMLCNRYTLCYDIGNPKAIACV--KDFDFKFYDAQPI---VKSVKTLLYS 6263
Query: 19062 YATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTP 19241
+ H D F DG+C+FWNCNVD+YP NA+VCRFDTRVL+NLNLPGC+GGSLYVNKHAFHT
Sbjct: 6264 FEAHKDSFKDGLCMFWNCNVDKYPPNAVVCRFDTRVLNNLNLPGCNGGSLYVNKHAFHTK 6323
Query: 19242 AFDKSAFTNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHAN 19421
F ++AF +LK +PFFYYSD+PC
+DYVPLKSATCITRCNLGGAVC HA
Sbjct: 6324 PFSRAAFEHLKPMPFFYYSDTPCVYMDGMDAKQVDYVPLKSATCITRCNLGGAVCLKHAE 6383
Query: 19422 EYRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEA 19601
EYR+YL++YN +AGF+ W+YK FD YNLWNTFT+LQSLENV YN+V GH+ G AGE
Sbjct: 6384 EYREYLESYNTATTAGFTFWVYKTFDFYNLWNTFTKLQSLENVVYNLVKTGHYTGQAGEM 6443
Query: 19602 PVSIINNAVYTKVDGIDVEIFENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAAN 19781
P +IIN+ V K+D DV IF N TT P NVA EL+AKR+I+ PE+K+ NL +D+
Sbjct: 6444 PCAIINDKVVAKIDKEDVVIFINNTTYPTNVAVELFAKRSIRHHPELKLFRNLNIDVCWK 6503
Query: 19782 TVIWDYKREAPAHVSTIGVCTMTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVL <strong>199</strong>61
VIWDY RE+ +T GVC TD+ L VLFDGR G ++ F+ + NGV
Sbjct: 6504 HVIWDYARESIFCSNTYGVCMYTDL------KFIDKLNVLFDGRDNGALEAFKRSNNGVY 6557
Query: <strong>199</strong>62 ITEGSVKGLTPSKGPAQASVNGVTL--IGES---------------VKTQFNYFK----- 20075
I+ VK L+ KGP +A +NGV + +G++ + +QF+ +
Sbjct: 6558 ISTTKVKSLSMIKGPPRAELNGVVVDKVGDTDCVFYFAVRKEGQDVIFSQFDSLRVSSNQ 6617
Query: 20076 ------------KVDGIIQQLPETYFTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLE 20219
V G T FTQSR + F R+ ME DF+ L D FIQ+Y LE
Sbjct: 6618 SPQGNLGSNEPGNVGGNDALATSTIFTQSRVISSFTCRTDMEKDFIALDQDLFIQKYGLE 6677
Query: 20220 GYAFEHIVYGDFSHGQLGGLHLMIGLAKRSQDSPLKLEDFIPMDSTVKNYFITDAQTGSS 20399
YAFEHIVYG+F+ +GGLHL+IGL +R Q S L +++F+ DS++ +YFITD ++G S
Sbjct: 6678 DYAFEHIVYGNFNQKIIGGLHLLIGLYRRQQTSNLVIQEFVSYDSSIHSYFITDEKSGGS 6737
Query: 20400 KCVCSVIDLLLDDFVEIIKSQDLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQAS 20579

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K VC+VID+LLDDFV ++KS +L+ +SKVV V +D+ + FMLWC D V TFYP+LQA+
Sbjct: 6738 KSVCTVIDILLDDFVALVKSLNLNCVSKVVNVNVDFKDFQFMLWCNDEKVMTFYPRLQAA 6797
Query: 20580 RAWQPGVAMPNLYKMQRMLLEKCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVP 20759
W+PG +MP LYK +E+ L NYG+ +P G MMNVAKYTQLCQYLNT TLAVP
Sbjct: 6798 SDWKPGYSMPVLYKYLNSPMERVSLWNYGKPVTLPTGCMMNVAKYTQLCQYLNTTTLAVP 6857
Query: 20760 YNMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTAN 20939
NMRV+H GAGS+KGVAPG+AVLRQWLP GT+LVD+DL FVSD+ +T GDC T+
Sbjct: 6858 VNMRVLHLGAGSEKGVAPGSAVLRQWLPAGTILVDNDLYPFVSDSVATYFGDCITLPFDC 6917
Query: 20940 KWDLIISDMYDPRTKHVTKENDSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYK 21119
+WDLIISDMYDP TK++ + N SK+GFFTY+C I+ KLALGGS+A+KITE SWNA+LYK
Sbjct: 6918 QWDLIISDMYDPITKNIGEYNVSKDGFFTYICHMIRDKLALGGSVAIKITEFSWNAELYK 6977
Query: 21120 LMGHFSWWTAFVTNVNASSSEAFLIGANYLGKPKEQIDGYTMHANYIFWRNTNPIQLSSY 21299
LMG+F++WT F TN NASSSE FLIG NYLGKPK +IDG MHANY+FWRN+ +Y
Sbjct: 6978 LMGYFAFWTVFCTNANASSSEGFLIGINYLGKPKVEIDGNVMHANYLFWRNSTVWNGGAY 7037
Query: 21300 SLFDMSKFPLKLRGTAVMSLKENQINDMIYSLLEKGRLIIRENNRVVVSSDILVN 21464
SLFDM+KFPLKL GTAV++L+ +QINDM+YSLLEKG+L++R+ N+ V D LVN
Sbjct: 7038 SLFDMAKFPLKLAGTAVINLRADQINDMVYSLLEKGKLLVRDTNKEVFVGDSLVN 7092
Score = 1746 bits (4521), Expect = 0.0
Identities = 1037/2890 (35%), Positives = 1535/2890 (53%), Gaps = 56/2890 (1%)
Frame = +1
Query: 4882 IKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTL 5061
+ + TVD N + V + ++G+ G + DG +VTK K +N++GK FF + +
Sbjct: 1565 VDILLTVDGVNFTNRFVPVGESFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSE 1624
Query: 5062 RSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLE 5241
+A D+ L Y + L + KW+ G + K A+NNC+++ L LQ L
Sbjct: 1625 DLKAVRSSFNFDQKELLAYYNMLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLN 1684
Query: 5242 VKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRV 5421
+KF QEA+ R+G A F +L+LA G+ D R+ + + +L A
Sbjct: 1685 LKFKIVQWQEAWLEFRSGRPARFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICD 1744
Query: 5422 LNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 5601
+ CK CG K TGV+AVM+ GTLS ++L+ G ++ C CG+ + V+ + F++
Sbjct: 1745 FEIACK-CGVKQEQRTGVDAVMHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLIC 1802
Query: 5602 SAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVF 5781
S PA KL +G AN + G+ + GHY H+ +++ D +++ K+++ G ++D
Sbjct: 1803 SNTPASVKLPKGVG-SANIFKGD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCL 1860
Query: 5782 Y-KETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDL-VPTQPLPNASF 5955
Y K T +Y LD V E P L YY YYT++ I T + +
Sbjct: 1861 YLKNLKQTFKSVLTTYYLDDVKKIEYNPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGVY 1920
Query: 5956 DNFKLTCSNTKFADDLNQMTGFTKPASR-ELSVTFFPDLNGDVVAIDYRHYSASFKKGAK 6132
NFKL D LN GF E VT +P GDVV Y +++G
Sbjct: 1921 TNFKLI--GHTICDILNAKLGFDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGCI 1978
Query: 6133 LLHKPIVWHINQATTKTTFKPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLACESQ 6312
KP++W ++ + + T+ R L VD N F+VL V+D +++ ES
Sbjct: 1979 TFGKPVIWLSHEQASLNSL---TYFNRPLL----VD-ENKFDVLKVDDVDDGGDIS-ESD 2029

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Query: 6313 QPTSEEVVENPTIQKEVIECD--VKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVEN 6486
S+E+ +I+ K +V +VI+ +K + L D+ ++
Sbjct: 2030 AKESKEI--------NIIKLSGVKKPFKVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLTG 2081
Query: 6487 TSITIKKPNELSLALGLKTIATH---GIAAINSVPWSKI-LAYVKPFLGQAAITTSNCAK 6654
++ N LS+A+ + TI G+ + S+P + L +KP N K
Sbjct: 2082 CRYVVRTANALSMAVNVPTIRKFIKFGMTLV-SIPIDLLNLREIKPVF--------NVVK 2132
Query: 6655 RLAQRVFN--NYMPYVFTLLF--------QLCTFTKSTNSRIRASLPTTIAKNSVKSVAK 6804
+ ++ N++ ++F LLF +T S++ L KN+ +
Sbjct: 2133 AVRNKISACFNFIKWLFVLLFGWIKISADNKVIYTTEVASKLTCKLVALAFKNAFLTFKW 2192
Query: 6805 LCLDAGINYVKSPKFSKLFTIAMWXXXXXXXXXXXXXVTAAFGVLLSNFGAPSYCNGVRE 6984
+ G + + +W G L P++ + +
Sbjct: 2193 SVVARGACIIAT-------IFLLWFNFIYANVIFSDFYLPKIGFL------PTFVGKIAQ 2239
Query: 6985 LYLNSSNVTTM-------------DFCEGSFPCSICLSGLDSLDSYPALETIQVTISSYK 7125
++ ++ T+ +C GS C CL+G D LD+Y A++ +Q
Sbjct: 2240 WIKSTFSLVTICDLYSIQDVGFKNQYCNGSIACQFCLAGFDMLDNYKAIDVVQYEADRRA 2299
Query: 7126 -LDLT-ILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNS--WLMWFIISI 7293
+D T +L + E +++Y L+T +FY L +Q+ + F+ ++ W + ++S+
Sbjct: 2300 FVDYTGVLKIVIELIVSYALYTAWFYPLFALISIQILTTWLPELFMLSTLHWSVRLLVSL 2359
Query: 7294 VQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMK 7473
M P +R YI ASF ++ + H+ GC+ C+ CYKRNR+ RV+C+TIV GM
Sbjct: 2360 ANMLPAHVFMRFYIIIASFIKLFILFRHVAYGCSKPGCLFCYKRNRSLRVKCSTIVGGMI 2419
Query: 7474 RSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIV 7653
R + V ANGG GFC H WNC++CD++ G+TFI+ E A DLS + KRPI PTD + + V
Sbjct: 2420 RYYDVMANGGTGFCSKHQWNCIDCDSYKPGNTFITVEAALDLSKELKRPIQPTDVAYHTV 2479
Query: 7654 DSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCDE 7833
V + L++++ GQ+TY+ S FV+ NL + KG ++V+V + + D+
Sbjct: 2480 TDVKQVGCYMRLFYERDGQRTYDDVNASLFVDYSNLLHSKVKGVPNMHVVVVENDA--DK 2537
Query: 7834 SASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLKA 8013
+ +A+V+Y+Q + +PIL++D+ L++ T V+ MFD YVDTF + F V + L A
Sbjct: 2538 ANFLNAAVFYAQSLFRPILMVDKNLITTANTGTSVTETMFDVYVDTFLSMFDVDKKSLNA 2597
Query: 8014 LVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHS-DLEVTGDSC 8190
L+ATAHS + +G + VL TF+S AR+ + +S S LE+T +SC
Sbjct: 2598 LIATAHSSIKQGTQICKVLDTFLSCARKSCSIDSDVDTKCLADSVMSAVSAGLELTDESC 2657
Query: 8191 NNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQLRKQIR 8370
NN + TY K +N+ DLG I +A+H+ VAK VS IW+V + LS + +++
Sbjct: 2658 NNLVPTYLKGDNIVAADLGVLIQNSAKHVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLK 2717
Query: 8371 SAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVS----TCFKLMLKATXXXXXXXXX 8538
A K + +LT V+V+TT SLKGG + S CF L L
Sbjct: 2718 KACCKTGLKLKLTYNKQMANVSVLTTPFSLKGGAVFSYFVYVCFLLSLVC-------FIG 2770
Query: 8539 XYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAWFSQRGGS-- 8712
+ +MP +T+ D YK + +GV RD+ D CFANK FD W+ G
Sbjct: 2771 LWCLMPTYTVHKSDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQWYESTFGLSY 2830
Query: 8713 YKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICYTPSKLIE 8892
Y N +CP+V A++ +++G V +P VLR LHF+ SA G CYTP I
Sbjct: 2831 YSNSMACPIVVAVVDQDLGSTVFNVPTKVLR-YGYHVLHFITHALSADGVQCYTPHSQIS 2889

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http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
4/20/2003
Query: 8893 YSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYVLMDGS-IIQ 9069
YS+F S CVL++ CT+F A G P PYCY L++ + YS L P RY L + I+
Sbjct: 2890 YSNFYASGCVLSSACTMFAMADGSPQPYCYTEGLMQNASLYSSLVPHVRYNLANAKGFIR 2949
Query: 9070 FPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRALSGVFCGVDA 9249
FP EG VR+V T YCR G CE ++ GIC + +G WVLNN++YR+L G FCG D
Sbjct: 2950 FPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRSLPGTFCGRDV 3009
Query: 9250 MNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEYNHVVAANAL 9429
+LI +F L QPV L ++AS +AG I+A++V YY +K +R FG+Y +V N +
Sbjct: 3010 FDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGDYTSIVFVNVI 3069
Query: 9430 LFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFAMFSPIVPFWITAI 9609
++ ++F +L + Y L VY++ Y Y T YF +++S + HLQW M+ I+P W +
Sbjct: 3070 VWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYGTIMPLWFCLL 3129
Query: 9610 YVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTFLLNKEMYLKLRSETLLPLTQ 9789
Y+ + H W F Y R R+ + + TFEE AL TF++ K+ Y KL++ L
Sbjct: 3130 YISVVVSNHAFWVFA-YCR-RLGTSVRSDGTFEEMALTTFMITKDSYCKLKNS--LSDVA 3185
Query: 9790 YNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNS-GADVLYQPPQTSITSAVL 9966
+NRYL+LYNKY+Y+SG +DT +YREAAC LAKA++ F+N+ G+DVLYQPP S++++ L
Sbjct: 3186 FNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQPPTASVSTSFL 3245
Query: 9967 QSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLI 10146
QSG KM P+ KVE C+V VT G TLNGLWLDD VYCPRHVIC+A DM NP+Y +LL
Sbjct: 3246 QSGIVKMVNPTSKVEPCIVSVTYGNMTLNGLWLDDKVYCPRHVICSASDMTNPDYTNLLC 3305
Query: 10147 RKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYN 10326
R ++ F V + L V+ + MQ C+L L V N +TPKY F ++PG+TF+VLA YN
Sbjct: 3306 RVTSSDFTVLFDRLSLTVMSYQMQGCMLVLTVTLQNSRTPKYTFGVVKPGETFTVLAAYN 3365
Query: 10327 GSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEG 10506
G P G + MR ++TIKGSFL GSCGSVG+ + DCV F YMH +EL TG H GTD G
Sbjct: 3366 GKPQGAFHVTMRSSYTIKGSFLCGSCGSVGYVLMGDCVKFVYMHQLELSTGCHTGTDFNG 3425
Query: 10507 KFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNY 10686
FYGP+ D Q Q D ++N +AWLYAA++N WF+ ++ DFN+ A+ +
Sbjct: 3426 DFYGPYKDAQVVQLPVQDYIQSVNFVAWLYAAILNNCNWFVQSDKCSVEDFNVWALSNGF 3485
Query: 10687 EPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQ 10866
+ D V + L++ TG+++ + AA+K L+NG GR I+GS EDE TP DV +Q
Sbjct: 3486 SQVKSDLV--IDALASMTGVSLETLLAAIKR-LKNGFQGRQIMGSCSFEDELTPSDVYQQ 3542
Query: 10867 CSGVTFQGKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFVYENAFLPFTLGIMAIA 11046
+G+ Q K ++VKG W+ +W++F +V N L T + +
Sbjct: 3543 LAGIKLQSKRTRLVKGIVCWIMASTFLFSCIITAFVKWTMFMYVTTN-MLSITFCALCVI 3601
Query: 11047 ACAMLLVKHKHAFLCLFLLPSLATVAYFN-MVYMPASWVMRIMTWLELADTSLSGYRLKD 11223
+ AMLLVKHKH +L ++++P L T+ Y N +V ++ + WL S+ Y D
Sbjct: 3602 SLAMLLVKHKHLYLTMYIIPVLFTLLYNNYLVVYKQTFRGYVYAWLSYYVPSVE-YTYTD 3660
Query: 11224 CVMYASALVL-LILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALDQAISMWALVISV 11400
V+Y L++ ++ +T R++ D + + VI++V Y G+ L++ I + ++ S+
Sbjct: 3661 EVIYGMLLLIGMVFVTLRSINHDLFSFIMFVGRVISVVSLWYMGSNLEEEILL--MLASL 3718
Query: 11401 TSNYSGVVTTIMFLARAIVFVCVEYYPLLFITGNTLQCIMLVXXXXXXXXXXXXXXXXXX 11580
Y+ T + A ++ V L F ++ +++
Sbjct: 3719 FGTYTW-TTALSMAAAKVIAKWVAVNVLYFTDIPQIKIVLVCYLFIGYIISCYWGLFSLM 3777

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http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
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Query: 11581 NRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGIGGKPCIKVATVQS 11760
N FR+ LGVY+Y +S QE RYMN+ GL PPK+S +A LN KLLGIGG P I+V+ QS
Sbjct: 3778 NSLFRMPLGVYNYKISVQELRYMNANGLRPPKNSFEALMLNFKLLGIGGVPIIEVSQFQS 3837
Query: 11761 KMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKDTTEAFEKMXXXXXXXXX 11940
K++DVKC KLW C LHN+IL D AFEK+
Sbjct: 3838 KLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLFA 3897
Query: 11941 MQGAVD------INRLCEEMLDNRATLQAIASEFSSLPSXXXXXXXXXXXXXXXXNGDXX 12102
AVD I +C++ + LQA+ SEF ++ S +G
Sbjct: 3898 NPAAVDSKCLTSIEEVCDDYAKDNTVLQALQSEFVNMASFVEYEVAKKNLDEARSSGSAN 3957
Query: 12103 XXXXXXXXXX-XXXXXEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTML 12279
++RD A+ RKLE+MAD A+T MYK+AR DK++KV SA+QTML
Sbjct: 3958 QQQLKQLEKACNIAKSAYERDRAVARKLERMADLALTNMYKEARINDKKSKVVSALQTML 4017
Query: 12280 FTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGNTFTYAS 12459
F+M+RK GCVPLN IP A L ++VPD Y D TYA
Sbjct: 4018 FSMVRKLDNQALNSILDNAVKGCVPLNAIPSLAANTLTIIVPDKSVYDQVVDNVYVTYAG 4077
Query: 12460 ALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTALRAN--SAVKLQNNELSPVALRQ 12633
+W+IQ + D+D QL+EI+ D + WPL++ A R N SA LQNNEL P L+
Sbjct: 4078 NVWQIQTIQDSDGTNKQLNEISDDCN----WPLVIIANRHNEVSATVLQNNELMPAKLKT 4133
Query: 12634 MSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYTELEP 12813
+G QT T YYNNS G+ V A+LSD LK+ + K DG + EL+P
Sbjct: 4134 QVVNSGPDQTCNTPTQ--CYYNNSNNGKIVYAILSDVDGLKYTKILKDDG-NFVVLELDP 4190
Query: 12814 PCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEVPANSTVLSFCA 12993
PC+F KG K+KYLYF+KG N L RG V+G++++TVRLQAG ATE +NS++LS CA
Sbjct: 4191 PCKFTVQDVKGLKIKYLYFVKGCNTLARGWVVGTISSTVRLQAGTATEYASNSSILSLCA 4250
Query: 12994 FAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCCLYCR 13173
F+VDP K Y D++ GG PI NCVKMLC H GTG AITV P+A +Q+S+GGAS C+YCR
Sbjct: 4251 FSVDPKKTYLDFIQQGGTPIANCVKMLCDHAGTGMAITVKPDATTNQDSYGGASVCIYCR 4310
Query: 13174 CHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSCDQLREPLM 13353
++HP+ G C L+GK+VQ+P DPV + L + VC VCG W+ CSC + +
Sbjct: 4311 ARVEHPDVDGLCKLRGKFVQVPVG-IKDPVSYVLTHDVCQVCGFWRDGSCSCVS-TDTTV 4368
Query: 13354 QSADASTFLN 13383
QS D + FLN
Sbjct: 4369 QSKD-TNFLN 4377
Score = 85.1 bits (209), Expect = 6e-14
Identities = 51/155 (32%), Positives = 78/155 (50%), Gaps = 2/155 (1%)
Frame = +1
Query: 3283 LTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKL 3462
+T NV DI+K ++ V+VN AN H+ HGGGVA A+ A KE+ D +K
Sbjct: 1273 ITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVKS 1332
Query: 3463 NGPLTVGGSCLLSGHNLAKKCLHVVGPN--LNAGEDIQLLKAAYENFNSQDILLAPLLSA 3636
G G + +G L K L+VVGP+ + LL+ Y++ N D ++ L+SA
Sbjct: 1333 KGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLISA 1392
Query: 3637 GIFGAKPLQSLQVCVQTVRTQVYIAVNDKALYEQV 3741

RID=1050847486-011378-19709, gi|29826277|ref|NC_004718.1| SARS coronavirus, c... Page 45 <strong>of</strong> 201
http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
4/20/2003
GIF SL + T QV + N++ ++ +
Sbjct: 1393 GIFSVPSDVSLTYLLGTAEKQVVLVSNNQEDFDLI 1427
Score = 65.1 bits (157), Expect = 7e-08
Identities = 53/201 (26%), Positives = 96/201 (47%), Gaps = 6/201 (2%)
Frame = +1
Query: 2449 KAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIVGTPVC-VNGLMLLE 2625
KA ++ +L+G D L V + L TP ++ V +C V+ + + +
Sbjct: 771 KAKQKPIYLKGSGSDFSLADSVVEVVTTSL----TPC-GYSEPPKVADKICIVDNVYMAK 825
Query: 2626 IKDKEQYCALSPGLLATNNVFRLKGGAPIKGVTFGED-TVWEVQGY-KNVRITFELDERV 2799
DK + + + +R+ + VTF E TV E+ K +++ +ELD+
Sbjct: 826 AGDKYYPVVVDGHVGLLDQAWRVPCAG--RRVTFKEQPTVNEIASTPKTIKVFYELDKDF 883
Query: 2800 DKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSDLL---TNMGIDLDEWSVATFY 2970
+ +LN C V+ V+ ++ EF VV +A+ + L P +L + L + + +
Sbjct: 884 NTILNTACGVFEVDDTVDMEEFYAVVIDAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLF 943
Query: 2971 LFDDAGEENFSSRMYCSFYPP 3033
LFD+AGEE +S++YC+F P
Sbjct: 944 LFDEAGEEVLASKLYCAFTAP 964
>gi|133592|sp|P16342|RRPB_CVMA5 RNA-DIRECTED RNA POLYMERASE (ORF1B)
gi|93916|pir||S15760 genome polyprotein - murine hepatitis virus (strain A59)
Length = 2733
Score = 3502 bits (9082), Expect = 0.0
Identities = 1685/2735 (61%), Positives = 2079/2735 (76%), Gaps = 38/2735 (1%)
Frame = +3
Query: 13374 VFKRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNL 13550
+FKR+ G S ARL PC +G TDV RAFDI N AG + K NCCRFQ DE+GN
Sbjct: 17 LFKRIRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCCRFQRVDEDGNK 76
Query: 13551 LDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMA 13730
LD +FVVKR + Y E+ Y L K+C VA H+FF F V+G VPHI R+ L+K+TM
Sbjct: 77 LDKFFVVKRTNLEVYNKEKECYELTKECGVVAEHEFFTFDVEGSRVPHIVRKDLSKFTML 136
Query: 13731 DLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQS 13910
DL YALRHFD +C TLKEIL+TY C++ YF KKDWYDFVENPDI+ VY LG ++
Sbjct: 137 DLCYALRHFDRNDCSTLKEILLTYAECEESYFQKKDWYDFVENPDIINVYKKLGPIFNRA 196
Query: 13911 LLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPIL 14090
LL T +F DA+ +AG+VGVLTLDNQDL G WYDFGDFV+ PGCGV + DSYYS +MP+L
Sbjct: 197 LLNTAKFADALVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPGCGVAVADSYYSYMMPML 256
Query: 14091 TLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDR 14270
T+ AL +E ++ + +DL++YDFT+ +L LF +YFK+W TYHPN C DDR
Sbjct: 257 TMCHALDSELFVNGTYRE----FDLVQYDFTDFKLELFTKYFKHWSMTYHPNTCECEDDR 312
Query: 14271 CILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSR 14450
CI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H R
Sbjct: 313 CIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVDTHRYR 372
Query: 14451 LSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVS 14630

RID=1050847486-011378-19709, gi|29826277|ref|NC_004718.1| SARS coronavirus, c... Page 46 <strong>of</strong> 201
http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
4/20/2003
LS K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY+F +S
Sbjct: 373 LSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYEFILS 432
Query: 14631 KGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDG 14810
KG KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV+KYF+ Y+G
Sbjct: 433 KGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVNKYFEIYEG 492
Query: 14811 GCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLK 14990
GCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNLK
Sbjct: 493 GCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNLK 552
Query: 14991 YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTV 15170
YAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG VVIGT+KFYGGW +ML+ +
Sbjct: 553 YAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRRL 612
Query: 15171 YSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSE 15350
DV++P LMGWDYPKCDRAMPN+LRI++SLVLARKH++CC+ + RFYRLANECAQVLSE
Sbjct: 613 IKDVDSPVLMGWDYPKCDRAMPNILRIVSSLVLARKHDSCCSHTDRFYRLANECAQVLSE 672
Query: 15351 MVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQH 15530
+VMCGG YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D +R LQ
Sbjct: 673 IVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQK 732
Query: 15531 RLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAV 15710
RLY +YR VD FV E+Y +L KHFSMMILSDD VVCYNS +A++G +A+I F+ V
Sbjct: 733 RLYSNVYRADHVDPAFVSEYYEFLNKHFSMMILSDDGVVCYNSEFASKGYIANISAFQQV 792
Query: 15711 LYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVD 15890
LYYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK D VYLPYPDPSRILGAGCFVD
Sbjct: 793 LYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGAGCFVD 852
Query: 15891 DIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSV 16070
D++KTD L+IERFVSLAIDAYPL H N EY +VF +YL+YI+KL+++L +LD YSV
Sbjct: 853 DLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQILDSYSV 912
Query: 16071 MLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDH 16250
+L+ + ++ + FY+ MY VLQ+VGACV+C+SQTSLRCG+CIR+P LCCKC YDH
Sbjct: 913 ILSTCDGQKFTDETFYKNMYLRSAVLQSVGACVVCSSQTSLRCGSCIRKPLLCCKCAYDH 972
Query: 16251 VISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLY 16430
V+ST HK VLSV+PYVCN+PGCDV DVT+LYLGGMSYYC+ HKP SF L NG VFGLY
Sbjct: 973 VMSTDHKYVLSVSPYVCNSPGCDVNDVTKLYLGGMSYYCEDHKPQYSFKLVMNGMVFGLY 1032
Query: 16431 KNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIAT 16610
K +C GS + DFN IA+C WT DY+LAN CTERLKLFAAET KATEE FK Y AT
Sbjct: 1033 KQSCTGSPYIEDFNKIASCKWTEVDDYVLANECTERLKLFAAETQKATEEAFKQCYASAT 1092
Query: 16611 VREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRG 16790
+RE++SDREL LSWE+GK RPPLN+NYVFTGY T N K +GEY F+K + + V YR
Sbjct: 1093 IREIVSDRELILSWEIGKVRPPLNKNYVFTGYHFTNNGKTVLGEYVFDKSELTNGVYYRA 1152
Query: 16791 TTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHY--VRITGLYPTLNISDEFSSNVANYQK 16964
TTTYKL+VGD F+LTSH V LSAPTLVPQE+Y +R +Y ++ + F +NV NYQ
Sbjct: 1153 TTTYKLSVGDVFILTSHAVSSLSAPTLVPQENYTSIRFASVY---SVPETFQNNVPNYQH 1209
Query: 16965 VGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCS 17144
+GM++Y T+QGPPGTGKSH AIGLA+YY +AR+VYTA SHAAVDALCEKA K+L I+ C+
Sbjct: 1210 IGMKRYCTVQGPPGTGKSHLAIGLAVYYCTARVVYTAASHAAVDALCEKAHKFLNINDCT 1269
Query: 17145 RIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARL 17324

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RI+PA+ RV+C+DKFKVN T +YVF T+NALPE DI+V DE+SM TNY+LSV+N+R+
Sbjct: 1270 RIVPAKVRVDCYDKFKVNDTTRKYVFTTINALPELVTDIIVVDEVSMLTNYELSVINSRV 1329
Query: 17325 RAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDT 17504
RAKHYVYIGDPAQLPAPR LL KGTLEP YFNSV +LM +GPD+FLGTC RCP EIVDT
Sbjct: 1330 RAKHYVYIGDPAQLPAPRVLLNKGTLEPRYFNSVTKLMCCLGPDIFLGTCYRCPKEIVDT 1389
Query: 17505 VSALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVF 17684
VSALVY+NKLKA D S+ CFK++YKG TH+ SSA+N QI ++ +FL NP+W AVF
Sbjct: 1390 VSALVYNNKLKAKNDNSSMCFKVYYKGQTTHESSSAVNMQQIHLISKFLKANPSWSNAVF 1449
Query: 17685 ISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKIG 17864
ISPYNSQN VA ++LGL TQTVDS+QGSEYD+VI++QT ETAHS NVNRFNVAITRAK G
Sbjct: 1450 ISPYNSQNYVAKRVLGLQTQTVDSAQGSEYDFVIYSQTAETAHSVNVNRFNVAITRAKKG 1509
Query: 17865 ILCIMSDRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKIITGLHPTQAPTHLSVD 18044
ILC+MS L++ L FT+L + + N LQ T LFKDCS+ G HP AP+ L+VD
Sbjct: 1510 ILCVMSSMQLFESLNFTTLTLDKINNPRLQC--TTNLFKDCSRSYVGYHPAHAPSFLAVD 1567
Query: 18045 IKFKTEG-LCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGF 18221
K+K G L V + +TY RLIS+MGFK++ ++GY +FITR+EAI+ VRAW+GF
Sbjct: 1568 DKYKVGGDLAVCLNVADSAVTYSRLISLMGFKLDLTLDGYCKLFITRDEAIKRVRAWVGF 1627
Query: 18222 DVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQFKHL 18401
D EG HA RD++GTN PLQLGFSTG++ V TG + F + A+ PPG+QFKHL
Sbjct: 1628 DAEGAHAIRDSIGTNFPLQLGFSTGIDFVVEATGMFAERDGYVFKKAAARAPPGEQFKHL 1687
Query: 18402 IPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCL 18581
IPLM +G W+VVRI+IVQMLSD L L+D VV V WA FELT ++YF K+G E C +
Sbjct: 1688 IPLMSRGQKWDVVRIRIVQMLSDHLVDLADSVVLVTWAASFELTCLRYFAKVGREVVCSV 1747
Query: 18582 CDKRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHGNAHV 18761
C KRATCF++ + Y CW HS DY+YNP ++D+QQWG+TG+L SNHD C VH AHV
Sbjct: 1748 CTKRATCFNSRTGYYGCWRHSYSCDYLYNPLIVDIQQWGYTGSLTSNHDPICSVHKGAHV 1807
Query: 18762 ASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADKFPVL 18941
AS DAIMTRCLAVH+CF K V+W++EYPII +E+ VN++CR +Q ++ ++A+L +++ V
Sbjct: 1808 ASSDAIMTRCLAVHDCFCKSVNWNLEYPIISNEVSVNTSCRLLQRVMFRAAMLCNRYDVC 1867
Query: 18942 HDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFWNCNV 19121
+DIGNPK + CV ++KFYDA P +++ Y Y H D+F DG+C+FWNCNV
Sbjct: 1868 YDIGNPKGLACV--KGYDFKFYDASPV---VKSVKQFVYKYEAHKDQFLDGLCMFWNCNV 1922
Query: 19122 DRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFFYYSD 19301
D+YPANA+VCRFDTRVL+ LNLPGC+GGSLYVNKHAFHT F ++AF NLK +PFFYYSD
Sbjct: 1923 DKYPANAVVCRFDTRVLNKLNLPGCNGGSLYVNKHAFHTSPFTRAAFENLKPMPFFYYSD 1982
Query: 19302 SPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAGFSLW 19481
+PC +DYVPL+SATCITRCNLGGAVC HA EYR+YL++YN +AGF+ W
Sbjct: 1983 TPCVYMEGMESKQVDYVPLRSATCITRCNLGGAVCLKHAEEYREYLESYNTATTAGFTFW 2042
Query: 19482 IYKQFDTYNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGIDVEI 19661
+YK FD YNLWNTFTRLQSLENV YN+VN GHFDG AGE P ++I V K+ DV +
Sbjct: 2043 VYKTFDFYNLWNTFTRLQSLENVVYNLVNAGHFDGRAGELPCAVIGEKVIAKIQNEDVVV 2102
Query: 19662 FENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKREAPAHVSTIGVC 19841
F+N T P NVA EL+AKR+I+P PE+K+ NL +D+ + V+WDY +++ ST VC
Sbjct: 2103 FKNNTPFPTNVAVELFAKRSIRPHPELKLFRNLNIDVCWSHVLWDYAKDSVFCSSTYKVC 2162
Query: 19842 TMTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGLTPSKGPAQASV 20021

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TD+ SL VLFDGR G ++ F+ RNGV I +K L+ KGP +A +
Sbjct: 2163 KYTDL------QCIESLNVLFDGRDNGALEAFKKCRNGVYINTTKIKSLSMIKGPQRADL 2216
Query: 20022 NGVTL--IGES-VKTQFNYFKKVDGII-----------QQLPE----------------- 20108
NGV + +G+S V+ F K D +I + P+
Sbjct: 2217 NGVVVEKVGDSDVEFWFAVRKDGDDVIFSRTGSLEPSHYRSPQGNPGGNRVGDLSGNEAL 2276
Query: 20109 ---TYFTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLEGYAFEHIVYGDFSHGQLGGL 20279
T FTQSR L F PRS+ME DF++L D FI +Y L+ YAFEH+VYG F+ +GGL
Sbjct: 2277 ARGTIFTQSRLLSSFTPRSEMEKDFMDLDDDVFIAKYSLQDYAFEHVVYGSFNQKIIGGL 2336
Query: 20280 HLMIGLAKRSQDSPLKLEDFIPMDSTVKNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKS 20459
HL+IGLA+R Q S L +++F+ DS++ +YFITD +GSSK VC+VIDLLLDDFV+I+KS
Sbjct: 2337 HLLIGLARRQQKSNLVIQEFVTYDSSIHSYFITDENSGSSKSVCTVIDLLLDDFVDIVKS 2396
Query: 20460 QDLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQASRAWQPGVAMPNLYKMQRMLL 20639
+L +SKVV V +D+ + FMLWC + V TFYP+LQA+ W+PG MP LYK L
Sbjct: 2397 LNLKCVSKVVNVNVDFKDFQFMLWCNEEKVMTFYPRLQAAADWKPGYVMPVLYKYLESPL 2456
Query: 20640 EKCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGT 20819
E+ +L NYG+ +P G MMNVAKYTQLCQYL+T TLAVP NMRV+H GAGSDKGVAPG+
Sbjct: 2457 ERVNLWNYGKPITLPTGCMMNVAKYTQLCQYLSTTTLAVPANMRVLHLGAGSDKGVAPGS 2516
Query: 20820 AVLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTANKWDLIISDMYDPRTKHVTKE 20999
AVLRQWLP G++LVD+D+N FVSD+ ++ G+C T+ +WDLIISDMYDP TK++ +
Sbjct: 2517 AVLRQWLPAGSILVDNDVNPFVSDSVASYYGNCITLPFDCQWDLIISDMYDPLTKNIGEY 2576
Query: 21000 NDSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYKLMGHFSWWTAFVTNVNASSS 21179
N SK+GFFTYLC I+ KLALGGS+A+KITE SWNA+LY LMG F++WT F TNVNASSS
Sbjct: 2577 NVSKDGFFTYLCHLIRDKLALGGSVAIKITEFSWNAELYSLMGKFAFWTIFCTNVNASSS 2636
Query: 21180 EAFLIGANYLGKPKEQIDGYTMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSL 21359
E FLIG N+L K + +IDG TMHANY+FWRN+ +YSLFDMSKFPLK GTAV+SL
Sbjct: 2637 EGFLIGINWLNKTRTEIDGKTMHANYLFWRNSTMWNGGAYSLFDMSKFPLKAAGTAVVSL 2696
Query: 21360 KENQINDMIYSLLEKGRLIIRENNRVVVSSDILVN 21464
K +QIND++ SL+EKG+L++R+ + V D LVN
Sbjct: 2697 KPDQINDLVLSLIEKGKLLVRDTRKEVFVGDSLVN 2731
>gi|4377413|emb|CAA36202.1|
Length = 2733
open reading frame 1b (AA 1-2733) [Murine hepatitis virus]
Score = 3502 bits (9082), Expect = 0.0
Identities = 1685/2735 (61%), Positives = 2079/2735 (76%), Gaps = 38/2735 (1%)
Frame = +3
Query: 13374 VFKRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNL 13550
+FKR+ G S ARL PC +G TDV RAFDI N AG + K NCCRFQ DE+GN
Sbjct: 17 LFKRIRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCCRFQRVDEDGNK 76
Query: 13551 LDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMA 13730
LD +FVVKR + Y E+ Y L K+C VA H+FF F V+G VPHI R+ L+K+TM
Sbjct: 77 LDKFFVVKRTNLEVYNKEKECYELTKECGVVAEHEFFTFDVEGSRVPHIVRKDLSKFTML 136
Query: 13731 DLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQS 13910
DL YALRHFD +C TLKEIL+TY C++ YF KKDWYDFVENPDI+ VY LG ++
Sbjct: 137 DLCYALRHFDRNDCSTLKEILLTYAECEESYFQKKDWYDFVENPDIINVYKKLGPIFNRA 196

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Query: 13911 LLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPIL 14090
LL T +F DA+ +AG+VGVLTLDNQDL G WYDFGDFV+ PGCGV + DSYYS +MP+L
Sbjct: 197 LLNTAKFADALVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPGCGVAVADSYYSYMMPML 256
Query: 14091 TLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDR 14270
T+ AL +E ++ + +DL++YDFT+ +L LF +YFK+W TYHPN C DDR
Sbjct: 257 TMCHALDSELFVNGTYRE----FDLVQYDFTDFKLELFTKYFKHWSMTYHPNTCECEDDR 312
Query: 14271 CILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSR 14450
CI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H R
Sbjct: 313 CIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVDTHRYR 372
Query: 14451 LSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVS 14630
LS K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY+F +S
Sbjct: 373 LSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYEFILS 432
Query: 14631 KGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDG 14810
KG KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV+KYF+ Y+G
Sbjct: 433 KGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVNKYFEIYEG 492
Query: 14811 GCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLK 14990
GCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNLK
Sbjct: 493 GCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNLK 552
Query: 14991 YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTV 15170
YAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG VVIGT+KFYGGW +ML+ +
Sbjct: 553 YAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRRL 612
Query: 15171 YSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSE 15350
DV++P LMGWDYPKCDRAMPN+LRI++SLVLARKH++CC+ + RFYRLANECAQVLSE
Sbjct: 613 IKDVDSPVLMGWDYPKCDRAMPNILRIVSSLVLARKHDSCCSHTDRFYRLANECAQVLSE 672
Query: 15351 MVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQH 15530
+VMCGG YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D +R LQ
Sbjct: 673 IVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQK 732
Query: 15531 RLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAV 15710
RLY +YR VD FV E+Y +L KHFSMMILSDD VVCYNS +A++G +A+I F+ V
Sbjct: 733 RLYSNVYRADHVDPAFVSEYYEFLNKHFSMMILSDDGVVCYNSEFASKGYIANISAFQQV 792
Query: 15711 LYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVD 15890
LYYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK D VYLPYPDPSRILGAGCFVD
Sbjct: 793 LYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGAGCFVD 852
Query: 15891 DIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSV 16070
D++KTD L+IERFVSLAIDAYPL H N EY +VF +YL+YI+KL+++L +LD YSV
Sbjct: 853 DLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQILDSYSV 912
Query: 16071 MLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDH 16250
+L+ + ++ + FY+ MY VLQ+VGACV+C+SQTSLRCG+CIR+P LCCKC YDH
Sbjct: 913 ILSTCDGQKFTDETFYKNMYLRSAVLQSVGACVVCSSQTSLRCGSCIRKPLLCCKCAYDH 972
Query: 16251 VISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLY 16430
V+ST HK VLSV+PYVCN+PGCDV DVT+LYLGGMSYYC+ HKP SF L NG VFGLY
Sbjct: 973 VMSTDHKYVLSVSPYVCNSPGCDVNDVTKLYLGGMSYYCEDHKPQYSFKLVMNGMVFGLY 1032
Query: 16431 KNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIAT 16610
K +C GS + DFN IA+C WT DY+LAN CTERLKLFAAET KATEE FK Y AT
Sbjct: 1033 KQSCTGSPYIEDFNKIASCKWTEVDDYVLANECTERLKLFAAETQKATEEAFKQCYASAT 1092

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Query: 16611 VREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRG 16790
+RE++SDREL LSWE+GK RPPLN+NYVFTGY T N K +GEY F+K + + V YR
Sbjct: 1093 IREIVSDRELILSWEIGKVRPPLNKNYVFTGYHFTNNGKTVLGEYVFDKSELTNGVYYRA 1152
Query: 16791 TTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHY--VRITGLYPTLNISDEFSSNVANYQK 16964
TTTYKL+VGD F+LTSH V LSAPTLVPQE+Y +R +Y ++ + F +NV NYQ
Sbjct: 1153 TTTYKLSVGDVFILTSHAVSSLSAPTLVPQENYTSIRFASVY---SVPETFQNNVPNYQH 1209
Query: 16965 VGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCS 17144
+GM++Y T+QGPPGTGKSH AIGLA+YY +AR+VYTA SHAAVDALCEKA K+L I+ C+
Sbjct: 1210 IGMKRYCTVQGPPGTGKSHLAIGLAVYYCTARVVYTAASHAAVDALCEKAHKFLNINDCT 1269
Query: 17145 RIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARL 17324
RI+PA+ RV+C+DKFKVN T +YVF T+NALPE DI+V DE+SM TNY+LSV+N+R+
Sbjct: 1270 RIVPAKVRVDCYDKFKVNDTTRKYVFTTINALPELVTDIIVVDEVSMLTNYELSVINSRV 1329
Query: 17325 RAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDT 17504
RAKHYVYIGDPAQLPAPR LL KGTLEP YFNSV +LM +GPD+FLGTC RCP EIVDT
Sbjct: 1330 RAKHYVYIGDPAQLPAPRVLLNKGTLEPRYFNSVTKLMCCLGPDIFLGTCYRCPKEIVDT 1389
Query: 17505 VSALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVF 17684
VSALVY+NKLKA D S+ CFK++YKG TH+ SSA+N QI ++ +FL NP+W AVF
Sbjct: 1390 VSALVYNNKLKAKNDNSSMCFKVYYKGQTTHESSSAVNMQQIHLISKFLKANPSWSNAVF 1449
Query: 17685 ISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKIG 17864
ISPYNSQN VA ++LGL TQTVDS+QGSEYD+VI++QT ETAHS NVNRFNVAITRAK G
Sbjct: 1450 ISPYNSQNYVAKRVLGLQTQTVDSAQGSEYDFVIYSQTAETAHSVNVNRFNVAITRAKKG 1509
Query: 17865 ILCIMSDRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKIITGLHPTQAPTHLSVD 18044
ILC+MS L++ L FT+L + + N LQ T LFKDCS+ G HP AP+ L+VD
Sbjct: 1510 ILCVMSSMQLFESLNFTTLTLDKINNPRLQC--TTNLFKDCSRSYVGYHPAHAPSFLAVD 1567
Query: 18045 IKFKTEG-LCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGF 18221
K+K G L V + +TY RLIS+MGFK++ ++GY +FITR+EAI+ VRAW+GF
Sbjct: 1568 DKYKVGGDLAVCLNVADSAVTYSRLISLMGFKLDLTLDGYCKLFITRDEAIKRVRAWVGF 1627
Query: 18222 DVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQFKHL 18401
D EG HA RD++GTN PLQLGFSTG++ V TG + F + A+ PPG+QFKHL
Sbjct: 1628 DAEGAHAIRDSIGTNFPLQLGFSTGIDFVVEATGMFAERDGYVFKKAAARAPPGEQFKHL 1687
Query: 18402 IPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCL 18581
IPLM +G W+VVRI+IVQMLSD L L+D VV V WA FELT ++YF K+G E C +
Sbjct: 1688 IPLMSRGQKWDVVRIRIVQMLSDHLVDLADSVVLVTWAASFELTCLRYFAKVGREVVCSV 1747
Query: 18582 CDKRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHGNAHV 18761
C KRATCF++ + Y CW HS DY+YNP ++D+QQWG+TG+L SNHD C VH AHV
Sbjct: 1748 CTKRATCFNSRTGYYGCWRHSYSCDYLYNPLIVDIQQWGYTGSLTSNHDPICSVHKGAHV 1807
Query: 18762 ASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADKFPVL 18941
AS DAIMTRCLAVH+CF K V+W++EYPII +E+ VN++CR +Q ++ ++A+L +++ V
Sbjct: 1808 ASSDAIMTRCLAVHDCFCKSVNWNLEYPIISNEVSVNTSCRLLQRVMFRAAMLCNRYDVC 1867
Query: 18942 HDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFWNCNV 19121
+DIGNPK + CV ++KFYDA P +++ Y Y H D+F DG+C+FWNCNV
Sbjct: 1868 YDIGNPKGLACV--KGYDFKFYDASPV---VKSVKQFVYKYEAHKDQFLDGLCMFWNCNV 1922
Query: 19122 DRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFFYYSD 19301
D+YPANA+VCRFDTRVL+ LNLPGC+GGSLYVNKHAFHT F ++AF NLK +PFFYYSD
Sbjct: 1923 DKYPANAVVCRFDTRVLNKLNLPGCNGGSLYVNKHAFHTSPFTRAAFENLKPMPFFYYSD 1982

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Query: 19302 SPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAGFSLW 19481
+PC +DYVPL+SATCITRCNLGGAVC HA EYR+YL++YN +AGF+ W
Sbjct: 1983 TPCVYMEGMESKQVDYVPLRSATCITRCNLGGAVCLKHAEEYREYLESYNTATTAGFTFW 2042
Query: 19482 IYKQFDTYNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGIDVEI 19661
+YK FD YNLWNTFTRLQSLENV YN+VN GHFDG AGE P ++I V K+ DV +
Sbjct: 2043 VYKTFDFYNLWNTFTRLQSLENVVYNLVNAGHFDGRAGELPCAVIGEKVIAKIQNEDVVV 2102
Query: 19662 FENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKREAPAHVSTIGVC 19841
F+N T P NVA EL+AKR+I+P PE+K+ NL +D+ + V+WDY +++ ST VC
Sbjct: 2103 FKNNTPFPTNVAVELFAKRSIRPHPELKLFRNLNIDVCWSHVLWDYAKDSVFCSSTYKVC 2162
Query: 19842 TMTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGLTPSKGPAQASV 20021
TD+ SL VLFDGR G ++ F+ RNGV I +K L+ KGP +A +
Sbjct: 2163 KYTDL------QCIESLNVLFDGRDNGALEAFKKCRNGVYINTTKIKSLSMIKGPQRADL 2216
Query: 20022 NGVTL--IGES-VKTQFNYFKKVDGII-----------QQLPE----------------- 20108
NGV + +G+S V+ F K D +I + P+
Sbjct: 2217 NGVVVEKVGDSDVEFWFAVRKDGDDVIFSRTGSLEPSHYRSPQGNPGGNRVGDLSGNEAL 2276
Query: 20109 ---TYFTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLEGYAFEHIVYGDFSHGQLGGL 20279
T FTQSR L F PRS+ME DF++L D FI +Y L+ YAFEH+VYG F+ +GGL
Sbjct: 2277 ARGTIFTQSRLLSSFTPRSEMEKDFMDLDDDVFIAKYSLQDYAFEHVVYGSFNQKIIGGL 2336
Query: 20280 HLMIGLAKRSQDSPLKLEDFIPMDSTVKNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKS 20459
HL+IGLA+R Q S L +++F+ DS++ +YFITD +GSSK VC+VIDLLLDDFV+I+KS
Sbjct: 2337 HLLIGLARRQQKSNLVIQEFVTYDSSIHSYFITDENSGSSKSVCTVIDLLLDDFVDIVKS 2396
Query: 20460 QDLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQASRAWQPGVAMPNLYKMQRMLL 20639
+L +SKVV V +D+ + FMLWC + V TFYP+LQA+ W+PG MP LYK L
Sbjct: 2397 LNLKCVSKVVNVNVDFKDFQFMLWCNEEKVMTFYPRLQAAADWKPGYVMPVLYKYLESPL 2456
Query: 20640 EKCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGT 20819
E+ +L NYG+ +P G MMNVAKYTQLCQYL+T TLAVP NMRV+H GAGSDKGVAPG+
Sbjct: 2457 ERVNLWNYGKPITLPTGCMMNVAKYTQLCQYLSTTTLAVPANMRVLHLGAGSDKGVAPGS 2516
Query: 20820 AVLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTANKWDLIISDMYDPRTKHVTKE 20999
AVLRQWLP G++LVD+D+N FVSD+ ++ G+C T+ +WDLIISDMYDP TK++ +
Sbjct: 2517 AVLRQWLPAGSILVDNDVNPFVSDSVASYYGNCITLPFDCQWDLIISDMYDPLTKNIGEY 2576
Query: 21000 NDSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYKLMGHFSWWTAFVTNVNASSS 21179
N SK+GFFTYLC I+ KLALGGS+A+KITE SWNA+LY LMG F++WT F TNVNASSS
Sbjct: 2577 NVSKDGFFTYLCHLIRDKLALGGSVAIKITEFSWNAELYSLMGKFAFWTIFCTNVNASSS 2636
Query: 21180 EAFLIGANYLGKPKEQIDGYTMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSL 21359
E FLIG N+L K + +IDG TMHANY+FWRN+ +YSLFDMSKFPLK GTAV+SL
Sbjct: 2637 EGFLIGINWLNKTRTEIDGKTMHANYLFWRNSTMWNGGAYSLFDMSKFPLKAAGTAVVSL 2696
Query: 21360 KENQINDMIYSLLEKGRLIIRENNRVVVSSDILVN 21464
K +QIND++ SL+EKG+L++R+ + V D LVN
Sbjct: 2697 KPDQINDLVLSLIEKGKLLVRDTRKEVFVGDSLVN 2731
>gi|2641128|gb|AAB86818.1|
Length = 2733
RNA-directed RNA polymerase [murine hepatitis virus]
Score = 3501 bits (9078), Expect = 0.0
Identities = 1685/2735 (61%), Positives = 2078/2735 (75%), Gaps = 38/2735 (1%)
Frame = +3

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http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
4/20/2003
Query: 13374 VFKRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNL 13550
+FKRV G S ARL PC +G TDV RAFDI N AG + K NCCRFQ DE+GN
Sbjct: 17 LFKRVRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCCRFQRVDEDGNK 76
Query: 13551 LDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMA 13730
LD +FVVKR + Y E+ Y L K+C VA H+FF F V+G VPHI R+ L+K+TM
Sbjct: 77 LDKFFVVKRTNLEVYNKEKECYELTKECGVVAEHEFFTFDVEGSRVPHIVRKDLSKFTML 136
Query: 13731 DLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQS 13910
DL YALRHFD +C TLKEIL+TY C++ YF KKDWYDFVENPDI+ VY LG ++
Sbjct: 137 DLCYALRHFDRNDCSTLKEILLTYAECEESYFQKKDWYDFVENPDIINVYKKLGPIFNRA 196
Query: 13911 LLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPIL 14090
LL T +F DA+ +AG+VGVLTLDNQDL G WYDFGDFV+ PGCGV + DSYYS +MP+L
Sbjct: 197 LLNTAKFADALVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPGCGVAVADSYYSYMMPML 256
Query: 14091 TLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDR 14270
T+ AL +E ++ + +DL++YDFT+ +L LF +YFK+W TYHPN C DDR
Sbjct: 257 TMCHALDSELFVNGTYRE----FDLVQYDFTDFKLELFTKYFKHWSMTYHPNTCECEDDR 312
Query: 14271 CILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSR 14450
CI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H R
Sbjct: 313 CIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVDTHRYR 372
Query: 14451 LSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVS 14630
LS K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY+F +S
Sbjct: 373 LSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYEFILS 432
Query: 14631 KGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDG 14810
KG KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV+KYF+ Y+G
Sbjct: 433 KGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVNKYFEIYEG 492
Query: 14811 GCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLK 14990
GCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNLK
Sbjct: 493 GCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNLK 552
Query: 14991 YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTV 15170
YAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG VVIGT+KFYGGW +ML+ +
Sbjct: 553 YAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRRL 612
Query: 15171 YSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSE 15350
DV++P LMGWDYPKCDRAMPN+LRI++SLVLARKH++CC+ + RFYRLANECAQVLSE
Sbjct: 613 IKDVDSPVLMGWDYPKCDRAMPNILRIVSSLVLARKHDSCCSHTDRFYRLANECAQVLSE 672
Query: 15351 MVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQH 15530
+VMCGG YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D +R LQ
Sbjct: 673 IVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQK 732
Query: 15531 RLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAV 15710
RLY +YR VD FV E+Y +L KHFSMMILSDD VVCYNS +A++G +A+I F+ V
Sbjct: 733 RLYSNVYRADHVDPAFVSEYYEFLNKHFSMMILSDDGVVCYNSEFASKGYIANISAFQQV 792
Query: 15711 LYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVD 15890
LYYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK D VYLPYPDPSRILGAGCFVD
Sbjct: 793 LYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGAGCFVD 852
Query: 15891 DIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSV 16070
D++KTD L+IERFVSLAIDAYPL H N EY +VF +YL+YI+KL+++L +LD YSV
Sbjct: 853 DLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQILDSYSV 912

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Query: 16071 MLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDH 16250
+L+ + ++ + FY+ MY VLQ+VGACV+C+SQTSLRCG+CIR+P LCCKC YDH
Sbjct: 913 ILSTCDGQKFTDETFYKNMYLRSAVLQSVGACVVCSSQTSLRCGSCIRKPLLCCKCAYDH 972
Query: 16251 VISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLY 16430
V+ST HK VLSV+PYVCN+PGCDV DVT+LYLGGMSYYC+ HKP SF L NG VFGLY
Sbjct: 973 VMSTDHKYVLSVSPYVCNSPGCDVNDVTKLYLGGMSYYCEDHKPQYSFKLVMNGMVFGLY 1032
Query: 16431 KNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIAT 16610
K +C GS + DFN IA+C WT DY+LAN CTERLKLFAAET KATEE FK Y AT
Sbjct: 1033 KQSCTGSPYIEDFNKIASCKWTEVDDYVLANECTERLKLFAAETQKATEEAFKQCYASAT 1092
Query: 16611 VREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRG 16790
+RE++SDREL LSWE+GK RPPLN+NYVFTGY T N K +GEY F+K + + V YR
Sbjct: 1093 IREIVSDRELILSWEIGKVRPPLNKNYVFTGYHFTNNGKTVLGEYVFDKSELTNGVYYRA 1152
Query: 16791 TTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHY--VRITGLYPTLNISDEFSSNVANYQK 16964
TTTYKL+VGD F+LTSH V LSAPTLVPQE+Y +R +Y ++ + F +NV NYQ
Sbjct: 1153 TTTYKLSVGDVFILTSHAVSSLSAPTLVPQENYTSIRFASVY---SVPETFQNNVPNYQH 1209
Query: 16965 VGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCS 17144
+GM++Y T+QGPPGTGKSH AIGLA+YY +AR+VYTA SHAAVDALCEKA K+L I+ C+
Sbjct: 1210 IGMKRYCTVQGPPGTGKSHLAIGLAVYYCTARVVYTAASHAAVDALCEKAHKFLNINDCT 1269
Query: 17145 RIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARL 17324
RI+PA+ RV+C+DKFKVN T +YVF T+NALPE DI+V DE+SM TNY+LSV+N+R+
Sbjct: 1270 RIVPAKVRVDCYDKFKVNDTTRKYVFTTINALPELVTDIIVVDEVSMLTNYELSVINSRV 1329
Query: 17325 RAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDT 17504
AKHYVYIGDPAQLPAPR LL KGTLEP YFNSV +LM +GPD+FLGTC RCP EIVDT
Sbjct: 1330 SAKHYVYIGDPAQLPAPRVLLNKGTLEPRYFNSVTKLMCCLGPDIFLGTCYRCPKEIVDT 1389
Query: 17505 VSALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVF 17684
VSALVY+NKLKA D S+ CFK++YKG TH+ SSA+N QI ++ +FL NP+W AVF
Sbjct: 1390 VSALVYNNKLKAKNDNSSMCFKVYYKGQTTHESSSAVNMQQIHLISKFLKANPSWSNAVF 1449
Query: 17685 ISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKIG 17864
ISPYNSQN VA ++LGL TQTVDS+QGSEYD+VI++QT ETAHS NVNRFNVAITRAK G
Sbjct: 1450 ISPYNSQNYVAKRVLGLQTQTVDSAQGSEYDFVIYSQTAETAHSVNVNRFNVAITRAKKG 1509
Query: 17865 ILCIMSDRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKIITGLHPTQAPTHLSVD 18044
ILC+MS L++ L FT+L + + N LQ T LFKDCS+ G HP AP+ L+VD
Sbjct: 1510 ILCVMSSMQLFESLNFTTLTLDKINNPRLQC--TTNLFKDCSRSYVGYHPAHAPSFLAVD 1567
Query: 18045 IKFKTEG-LCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGF 18221
K+K G L V + +TY RLIS+MGFK++ ++GY +FITR+EAI+ VRAW+GF
Sbjct: 1568 DKYKVGGDLAVCLNVADSAVTYSRLISLMGFKLDLTLDGYCKLFITRDEAIKRVRAWVGF 1627
Query: 18222 DVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQFKHL 18401
D EG HA RD++GTN PLQLGFSTG++ V TG + F + A+ PPG+QFKHL
Sbjct: 1628 DAEGAHAIRDSIGTNFPLQLGFSTGIDFVVEATGMFAERDGYVFKKAAARAPPGEQFKHL 1687
Query: 18402 IPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCL 18581
IPLM +G W+VVRI+IVQMLSD L L+D VV V WA FELT ++YF K+G E C +
Sbjct: 1688 IPLMSRGQKWDVVRIRIVQMLSDHLADLADSVVLVTWAASFELTCLRYFAKVGREVVCSV 1747
Query: 18582 CDKRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHGNAHV 18761
C KRATCF++ + Y CW HS DY+YNP ++D+QQWG+TG+L SNHD C VH AHV
Sbjct: 1748 CTKRATCFNSRTGYYGCWRHSYSCDYLYNPLIVDIQQWGYTGSLTSNHDPICSVHKGAHV 1807

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Query: 18762 ASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADKFPVL 18941
AS DAIMTRCLAVH+CF K V+W++EYPII +E+ VN++CR +Q ++ ++A+L +++ V
Sbjct: 1808 ASSDAIMTRCLAVHDCFCKSVNWNLEYPIISNEVSVNTSCRLLQRVMFRAAMLCNRYDVC 1867
Query: 18942 HDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFWNCNV 19121
+DIGNPK + CV ++KFYDA P +++ Y Y H D+F DG+C+FWNCNV
Sbjct: 1868 YDIGNPKGLACV--KGYDFKFYDASPV---VKSVKQFVYKYEAHKDQFLDGLCMFWNCNV 1922
Query: 19122 DRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFFYYSD 19301
D+YPANA+VCRFDTRVL+ LNLPGC+GGSLYVNKHAFHT F ++AF NLK +PFFYYSD
Sbjct: 1923 DKYPANAVVCRFDTRVLNKLNLPGCNGGSLYVNKHAFHTSPFTRAAFENLKPMPFFYYSD 1982
Query: 19302 SPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAGFSLW 19481
+PC +DYVPL+SATCITRCNLGGAVC HA EYR+YL++YN +AGF+ W
Sbjct: 1983 TPCVYMEGMESKQVDYVPLRSATCITRCNLGGAVCLKHAEEYREYLESYNTATTAGFTFW 2042
Query: 19482 IYKQFDTYNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGIDVEI 19661
+YK FD YNLWNTFTRLQSLENV YN+VN GHFDG AGE P ++I V K+ DV +
Sbjct: 2043 VYKTFDFYNLWNTFTRLQSLENVVYNLVNAGHFDGRAGELPCAVIGEKVIAKIQNEDVVV 2102
Query: 19662 FENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKREAPAHVSTIGVC 19841
F+N T P NVA EL+AKR+I+P PE+K+ NL +D+ + V+WDY +++ ST VC
Sbjct: 2103 FKNNTPFPTNVAVELFAKRSIRPHPELKLFRNLNIDVCWSHVLWDYAKDSVFCSSTYKVC 2162
Query: 19842 TMTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGLTPSKGPAQASV 20021
TD+ SL VLFDGR G ++ F+ RNGV I +K L+ KGP +A +
Sbjct: 2163 KYTDL------QCIESLNVLFDGRDNGALEAFKKCRNGVYINTTKIKSLSMIKGPQRADL 2216
Query: 20022 NGVTL--IGES-VKTQFNYFKKVDGII-----------QQLPE----------------- 20108
NGV + +G+S V+ F K D +I + P+
Sbjct: 2217 NGVVVEKVGDSDVEFWFAVRKDGDDVIFSRTGSLEPSHYRSPQGNPGGNRVGDLSGNEAL 2276
Query: 20109 ---TYFTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLEGYAFEHIVYGDFSHGQLGGL 20279
T FTQSR L F PRS+ME DF++L D FI +Y L+ YAFEH+VYG F+ +GGL
Sbjct: 2277 ARGTIFTQSRLLSSFTPRSEMEKDFMDLDDDVFIAKYSLQDYAFEHVVYGSFNQKIIGGL 2336
Query: 20280 HLMIGLAKRSQDSPLKLEDFIPMDSTVKNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKS 20459
HL+IGLA+R Q S L +++F+ DS++ +YFITD +GSSK VC+VIDLLLDDFV+I+KS
Sbjct: 2337 HLLIGLARRQQKSNLVIQEFVTYDSSIHSYFITDENSGSSKSVCTVIDLLLDDFVDIVKS 2396
Query: 20460 QDLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQASRAWQPGVAMPNLYKMQRMLL 20639
+L +SKVV V +D+ + FMLWC + V TFYP+LQA+ W+PG MP LYK L
Sbjct: 2397 LNLKCVSKVVNVNVDFKDFQFMLWCNEEKVMTFYPRLQAAADWKPGYVMPVLYKYLESPL 2456
Query: 20640 EKCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGT 20819
E+ +L NYG+ +P G MMNVAKYTQLCQYL+T TLAVP NMRV+H GAGSDKGVAPG+
Sbjct: 2457 ERVNLWNYGKPITLPTGCMMNVAKYTQLCQYLSTTTLAVPANMRVLHLGAGSDKGVAPGS 2516
Query: 20820 AVLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTANKWDLIISDMYDPRTKHVTKE 20999
AVLRQWLP G++LVD+D+N FVSD+ ++ G+C T+ +WDLIISDMYDP TK++ +
Sbjct: 2517 AVLRQWLPAGSILVDNDVNPFVSDSVASYYGNCITLPFDCQWDLIISDMYDPLTKNIGEY 2576
Query: 21000 NDSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYKLMGHFSWWTAFVTNVNASSS 21179
N SK+GFFTYLC I+ KLALGGS+A+KITE SWNA+LY LMG F++WT F TNVNASSS
Sbjct: 2577 NVSKDGFFTYLCHLIRDKLALGGSVAIKITEFSWNAELYSLMGKFAFWTIFCTNVNASSS 2636
Query: 21180 EAFLIGANYLGKPKEQIDGYTMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSL 21359
E FLIG N+L K + +IDG TMHANY+FWRN+ +YSLFDMSKFPLK GTAV+SL
Sbjct: 2637 EGFLIGINWLNKTRTEIDGKTMHANYLFWRNSTMWNGGAYSLFDMSKFPLKAAGTAVVSL 2696

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Query: 21360 KENQINDMIYSLLEKGRLIIRENNRVVVSSDILVN 21464
K +QIND++ SL+EKG+L++R+ + V D LVN
Sbjct: 2697 KPDQINDLVLSLIEKGKLLVRDTRKEVFVGDSLVN 2731
>gi|7769353|gb|AAF69342.1|AF208067_2
Length = 2733
RNA-directed RNA polymerase [murine hepatitis virus]
Score = 3499 bits (9074), Expect = 0.0
Identities = 1683/2735 (61%), Positives = 2078/2735 (75%), Gaps = 38/2735 (1%)
Frame = +3
Query: 13374 VFKRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNL 13550
+FKR+ G S ARL PC +G TDV RAFDI N AG + K NCCRFQ DE+GN
Sbjct: 17 LFKRIRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCCRFQRVDEDGNK 76
Query: 13551 LDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMA 13730
LD +FVVKR + Y E+ Y L K+C VA H+FF F V+G VPHI R+ L+K+TM
Sbjct: 77 LDKFFVVKRTNLEVYNKEKECYELTKECGVVAEHEFFTFDVEGSRVPHIVRKDLSKFTML 136
Query: 13731 DLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQS 13910
DL YALRHFD +C TLKEIL+TY C++ YF KKDWYDFVENPDI+ VY LG ++
Sbjct: 137 DLCYALRHFDRNDCSTLKEILLTYAECEESYFQKKDWYDFVENPDIINVYKKLGPIFNRA 196
Query: 13911 LLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPIL 14090
LL T +F DA+ +AG+VGVLTLDNQDL G WYDFGDFV+ PGCGV + DSYYS +MP+L
Sbjct: 197 LLNTAKFADALVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPGCGVAVADSYYSYMMPML 256
Query: 14091 TLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDR 14270
T+ AL +E ++ + +DL++YDFT+ +L LF +YFK+W TYHPN C DDR
Sbjct: 257 TMCHALDSELFVNGTYRE----FDLVQYDFTDFKLELFTKYFKHWSMTYHPNTCECEDDR 312
Query: 14271 CILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSR 14450
CI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H R
Sbjct: 313 CIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVDTHRYR 372
Query: 14451 LSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVS 14630
LS K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY+F +S
Sbjct: 373 LSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYEFILS 432
Query: 14631 KGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDG 14810
KG KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV+KYF+ Y+G
Sbjct: 433 KGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVNKYFEIYEG 492
Query: 14811 GCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLK 14990
GCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNLK
Sbjct: 493 GCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNLK 552
Query: 14991 YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTV 15170
YAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG VVIGT+KFYGGW +ML+ +
Sbjct: 553 YAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRRL 612
Query: 15171 YSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSE 15350
DV++P LMGWDYPKCDRAMPN+LRI++SLVL RKH++CC+ + RFYRLANECAQVLSE
Sbjct: 613 IKDVDSPVLMGWDYPKCDRAMPNILRIVSSLVLVRKHDSCCSHTDRFYRLANECAQVLSE 672
Query: 15351 MVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQH 15530
+VMCGG YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D +R LQ

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http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
4/20/2003
Sbjct: 673 IVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQK 732
Query: 15531 RLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAV 15710
RLY +YR VD FV E+Y +L KHFSMMILSDD VVCYNS +A++G +A+I F+ V
Sbjct: 733 RLYSNVYRADHVDPAFVSEYYEFLNKHFSMMILSDDGVVCYNSEFASKGYIANISAFQQV 792
Query: 15711 LYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVD 15890
LYYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK D VYLPYPDPSRILGAGCFVD
Sbjct: 793 LYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGAGCFVD 852
Query: 15891 DIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSV 16070
D++KTD L+IERFVSLAIDAYPL H N EY +VF +YL+YI+KL+++L +LD YSV
Sbjct: 853 DLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQILDSYSV 912
Query: 16071 MLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDH 16250
+L+ + ++ + FY+ MY VLQ+VGACV+C+SQTSLRCG+CIR+P LCCKC YDH
Sbjct: 913 ILSTCDGQKFTDETFYKNMYLRSAVLQSVGACVVCSSQTSLRCGSCIRKPLLCCKCAYDH 972
Query: 16251 VISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLY 16430
V+ST HK VLSV+PYVCN+PGCDV DVT+LYLGGMSYYC+ HKP SF L NG VFGLY
Sbjct: 973 VMSTDHKYVLSVSPYVCNSPGCDVNDVTKLYLGGMSYYCEDHKPQYSFKLVMNGMVFGLY 1032
Query: 16431 KNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIAT 16610
K +C GS + DFN IA+C WT DY+LAN CTERLKLFAAET KATEE FK Y AT
Sbjct: 1033 KQSCTGSPYIEDFNKIASCKWTEVDDYVLANECTERLKLFAAETQKATEEAFKQCYASAT 1092
Query: 16611 VREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRG 16790
+RE++SDREL LSWE+GK RPPLN+NYVFTGY T N K +GEY F+K + + V YR
Sbjct: 1093 IREIVSDRELILSWEIGKVRPPLNKNYVFTGYHFTNNGKTVLGEYVFDKSELTNGVYYRA 1152
Query: 16791 TTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHY--VRITGLYPTLNISDEFSSNVANYQK 16964
TTTYKL+VGD F+LTSH V LSAPTLVPQE+Y +R +Y ++ + F +NV NYQ
Sbjct: 1153 TTTYKLSVGDVFILTSHAVSSLSAPTLVPQENYTSIRFASVY---SVPETFQNNVPNYQH 1209
Query: 16965 VGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCS 17144
+GM++Y T+QGPPGTGKSH AIGLA+YY +AR+VYTA SHAAVDALCEKA K+L I+ C+
Sbjct: 1210 IGMKRYCTVQGPPGTGKSHLAIGLAVYYCTARVVYTAASHAAVDALCEKAHKFLNINDCT 1269
Query: 17145 RIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARL 17324
RI+PA+ RV+C+DKFKVN T +YVF T+NALPE DI+V DE+SM TNY+LSV+N+R+
Sbjct: 1270 RIVPAKVRVDCYDKFKVNDTTRKYVFTTINALPELVTDIIVVDEVSMLTNYELSVINSRV 1329
Query: 17325 RAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDT 17504
RAKHYVYIGDPAQLPAPR LL KGTLEP YFNSV +LM +GPD+FLGTC RCP EIVDT
Sbjct: 1330 RAKHYVYIGDPAQLPAPRVLLNKGTLEPRYFNSVTKLMCCLGPDIFLGTCYRCPKEIVDT 1389
Query: 17505 VSALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVF 17684
VSALVY+NKLKA D S+ CFK++YKG TH+ SSA+N QI ++ +FL NP+W AVF
Sbjct: 1390 VSALVYNNKLKAKNDNSSMCFKVYYKGQTTHESSSAVNMQQIHLISKFLKANPSWSNAVF 1449
Query: 17685 ISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKIG 17864
ISPYNSQN VA ++LGL TQTVDS+QGSEYD+VI++QT ETAHS NVNRFNVAITRAK G
Sbjct: 1450 ISPYNSQNYVAKRVLGLQTQTVDSAQGSEYDFVIYSQTAETAHSVNVNRFNVAITRAKKG 1509
Query: 17865 ILCIMSDRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKIITGLHPTQAPTHLSVD 18044
ILC+MS L++ L FT+L + + N LQ T LFKDCS+ G HP AP+ L+VD
Sbjct: 1510 ILCVMSSMQLFESLNFTTLTLDKINNPRLQC--TTNLFKDCSRSYVGYHPAHAPSFLAVD 1567
Query: 18045 IKFKTEG-LCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGF 18221
K+K G L V + ++Y RLIS+MGFK++ ++GY +FITR+EAI+ VRAW+GF

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Sbjct: 1568 DKYKVGGDLAVCLNVADSAVSYSRLISLMGFKLDLTLDGYCKLFITRDEAIKRVRAWVGF 1627
Query: 18222 DVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQFKHL 18401
D EG HA RD++GTN PLQLGFSTG++ V TG + F + A+ PPG+QFKHL
Sbjct: 1628 DAEGAHAIRDSIGTNFPLQLGFSTGIDFVVEATGMFAERDGYVFKKAAARAPPGEQFKHL 1687
Query: 18402 IPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCL 18581
IPLM +G W+VVRI+IVQMLSD L L+D VV V WA FELT ++YF K+G E C +
Sbjct: 1688 IPLMSRGQKWDVVRIRIVQMLSDHLVDLADSVVLVTWAASFELTCLRYFAKVGREVVCSV 1747
Query: 18582 CDKRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHGNAHV 18761
C KRATCF++ + Y CW HS DY+YNP ++D+QQWG+TG+L SNHD C VH AHV
Sbjct: 1748 CTKRATCFNSRTGYYGCWRHSYSCDYLYNPLIVDIQQWGYTGSLTSNHDPICSVHKGAHV 1807
Query: 18762 ASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADKFPVL 18941
AS DAIMTRCLAVH+CF K V+W++EYPII +E+ VN++CR +Q ++ ++A+L +++ V
Sbjct: 1808 ASSDAIMTRCLAVHDCFCKSVNWNLEYPIISNEVSVNTSCRLLQRVMFRAAMLCNRYDVC 1867
Query: 18942 HDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFWNCNV 19121
+DIGNPK + CV ++KFYDA P +++ Y Y H D+F DG+C+FWNCNV
Sbjct: 1868 YDIGNPKGLACV--KGYDFKFYDASPV---VKSVKQFVYKYEAHKDQFLDGLCMFWNCNV 1922
Query: 19122 DRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFFYYSD 19301
D+YPANA+VCRFDTRVL+ LNLPGC+GGSLYVNKHAFHT F ++AF NLK +PFFYYSD
Sbjct: 1923 DKYPANAVVCRFDTRVLNKLNLPGCNGGSLYVNKHAFHTSPFTRAAFENLKPMPFFYYSD 1982
Query: 19302 SPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAGFSLW 19481
+PC +DYVPL+SATCITRCNLGGAVC HA EYR+YL++YN +AGF+ W
Sbjct: 1983 TPCVYMEGMESKQVDYVPLRSATCITRCNLGGAVCLKHAEEYREYLESYNTATTAGFTFW 2042
Query: 19482 IYKQFDTYNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGIDVEI 19661
+YK FD YNLWNTFTRLQSLENV YN+VN GHFDG AGE P ++I V K+ DV +
Sbjct: 2043 VYKTFDFYNLWNTFTRLQSLENVVYNLVNAGHFDGRAGELPCAVIGEKVIAKIQNEDVVV 2102
Query: 19662 FENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKREAPAHVSTIGVC 19841
F+N T P NVA EL+AKR+I+P PE+K+ NL +D+ + V+WDY +++ ST VC
Sbjct: 2103 FKNNTPFPTNVAVELFAKRSIRPHPELKLFRNLNIDVCWSHVLWDYAKDSVFCSSTYKVC 2162
Query: 19842 TMTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGLTPSKGPAQASV 20021
TD+ SL VLFDGR G ++ F+ RNGV I +K L+ KGP +A +
Sbjct: 2163 KYTDL------QCIESLNVLFDGRDNGALEAFKKCRNGVYINTTKIKSLSMIKGPQRADL 2216
Query: 20022 NGVTL--IGES-VKTQFNYFKKVDGII-----------QQLPE----------------- 20108
NGV + +G+S V+ F K D +I + P+
Sbjct: 2217 NGVVVEKVGDSDVEFWFAVRKDGDDVIFSRTGSLEPSHYRSPQGNPGGNRVGDLSGNEAL 2276
Query: 20109 ---TYFTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLEGYAFEHIVYGDFSHGQLGGL 20279
T FTQSR L F PRS+ME DF++L D FI +Y L+ YAFEH+VYG F+ +GGL
Sbjct: 2277 ARGTIFTQSRLLSSFTPRSEMEKDFMDLDDDVFIAKYSLQDYAFEHVVYGSFNQKIIGGL 2336
Query: 20280 HLMIGLAKRSQDSPLKLEDFIPMDSTVKNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKS 20459
HL+IGLA+R Q S L +++F+ DS++ +YFITD +GSSK VC+VIDLLLDDFV+I+KS
Sbjct: 2337 HLLIGLARRQQKSNLVIQEFVTYDSSIHSYFITDENSGSSKSVCTVIDLLLDDFVDIVKS 2396
Query: 20460 QDLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQASRAWQPGVAMPNLYKMQRMLL 20639
+L +SKVV V +D+ + FMLWC + V TFYP+LQA+ W+PG MP LYK L
Sbjct: 2397 LNLKCVSKVVNVNVDFKDFQFMLWCNEEKVMTFYPRLQAAADWKPGYVMPVLYKYLESPL 2456
Query: 20640 EKCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGT 20819
E+ +L NYG+ +P G MMNVAKYTQLCQYL+T TLAVP NMRV+H GAGSDKGVAPG+

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Sbjct: 2457 ERVNLWNYGKPITLPTGCMMNVAKYTQLCQYLSTTTLAVPANMRVLHLGAGSDKGVAPGS 2516
Query: 20820 AVLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTANKWDLIISDMYDPRTKHVTKE 20999
AVLRQWLP G++LVD+D+N FVSD+ ++ G+C T+ +WDLIISDMYDP TK++ +
Sbjct: 2517 AVLRQWLPAGSILVDNDVNPFVSDSVASYYGNCITLPFDCQWDLIISDMYDPLTKNIGEY 2576
Query: 21000 NDSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYKLMGHFSWWTAFVTNVNASSS 21179
N SK+GFFTYLC I+ KLALGGS+A+KITE SWNA+LY LMG F++WT F TNVNASSS
Sbjct: 2577 NVSKDGFFTYLCHLIRDKLALGGSVAIKITEFSWNAELYSLMGKFAFWTIFCTNVNASSS 2636
Query: 21180 EAFLIGANYLGKPKEQIDGYTMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSL 21359
E FLIG N+L K + +IDG TMHANY+FWRN+ +YSLFDMSKFPLK GTAV+SL
Sbjct: 2637 EGFLIGINWLNKTRTEIDGKTMHANYLFWRNSTMWNGGAYSLFDMSKFPLKAAGTAVVSL 2696
Query: 21360 KENQINDMIYSLLEKGRLIIRENNRVVVSSDILVN 21464
K +QIND++ SL+EKG+L++R+ + V D LVN
Sbjct: 2697 KPDQINDLVLSLIEKGKLLVRDTRKEVFVGDSLVN 2731
>gi|26007546|ref|NP_068668.2|
Length = 7178
ORF1ab polyprotein [Murine hepatitis virus]
Score = 3499 bits (9074), Expect(2) = 0.0
Identities = 1687/2754 (61%), Positives = 2080/2754 (75%), Gaps = 49/2754 (1%)
Frame = +3
Query: 13350 DAVCGCI-----------NVFKRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFA 13493
D C C+ N RV G S ARL PC +G TDV RAFDI N AG
Sbjct: 4443 DGSCSCVGTGSQFQSKDTNFLNRVRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIG 4502
Query: 13494 KFLKTNCCRFQEKDEEGNLLDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRV 13673
+ K NCCRFQ DE+GN LD +FVVKR + Y E+ Y L K+C VA H+FF F V
Sbjct: 4503 LYYKVNCCRFQRVDEDGNKLDKFFVVKRTNLEVYNKEKECYELTKECGVVAEHEFFTFDV 4562
Query: 13674 DGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFV 13853
+G VPHI R+ L+K+TM DL YALRHFD +C TLKEIL+TY C++ YF KKDWYDFV
Sbjct: 4563 EGSRVPHIVRKDLSKFTMLDLCYALRHFDRNDCSTLKEILLTYAECEESYFQKKDWYDFV 4622
Query: 13854 ENPDILRVYANLGERVRQSLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVA 14033
ENPDI+ VY LG ++LL T +F DA+ +AG+VGVLTLDNQDL G WYDFGDFV+
Sbjct: 4623 ENPDIINVYKKLGPIFNRALLNTAKFADALVEAGLVGVLTLDNQDLYGQWYDFGDFVKTV 4682
Query: 14034 PGCGVPIVDSYYSLLMPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRY 14213
PGCGV + DSYYS +MP+LT+ AL +E ++ + +DL++YDFT+ +L LF +Y
Sbjct: 4683 PGCGVAVADSYYSYMMPMLTMCHALDSELFVNGTYRE----FDLVQYDFTDFKLELFTKY 4738
Query: 14214 FKYWDQTYHPNCINCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGY 14393
FK+W TYHPN C DDRCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GY
Sbjct: 4739 FKHWSMTYHPNTCECEDDRCIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGY 4798
Query: 14394 HFRELGVVHNQDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVA 14573
H++ELGVV N DV+ H RLS K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V
Sbjct: 4799 HYKELGVVMNMDVDTHRYRLSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVK 4858
Query: 14574 FQTVKPGNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDI 14753
FQTVKPGNFN+DFY+F +SKG KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI
Sbjct: 4859 FQTVKPGNFNQDFYEFILSKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDI 4918
Query: 14754 RQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDA 14933

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+QLLFV+EVV+KYF+ Y+GGCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD
Sbjct: 4919 KQLLFVLEVVNKYFEIYEGGCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDE 4978
Query: 14934 LFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGAT 15113
++AYTKRNV+PT+TQMNLKYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG
Sbjct: 4979 IYAYTKRNVLPTLTQMNLKYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVP 5038
Query: 15114 VVIGTSKFYGGWHNMLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCC 15293
VVIGT+KFYGGW +ML+ + DV++P LMGWDYPKCDRAMPN+LRI++SLVLARKH++CC
Sbjct: 5039 VVIGTTKFYGGWDDMLRRLIKDVDSPVLMGWDYPKCDRAMPNILRIVSSLVLARKHDSCC 5098
Query: 15294 NLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNA 15473
+ + RFYRLANECAQVLSE+VMCGG YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +
Sbjct: 5099 SHTDRFYRLANECAQVLSEIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCS 5158
Query: 15474 LLSTDGNKIADKYVRNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCY 15653
L++ +G+KI D +R LQ RLY +YR VD FV E+Y +L KHFSMMILSDD VVCY
Sbjct: 5159 LMACNGHKIEDLSIRELQKRLYSNVYRADHVDPAFVSEYYEFLNKHFSMMILSDDGVVCY 5218
Query: 15654 NSNYAAQGLVASIKNFKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDY 15833
NS +A++G +A+I F+ VLYYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK D
Sbjct: 5219 NSEFASKGYIANISAFQQVLYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDE 5278
Query: 15834 VYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQ 16013
VYLPYPDPSRILGAGCFVDD++KTD L+IERFVSLAIDAYPL H N EY +VF +YL+
Sbjct: 5279 VYLPYPDPSRILGAGCFVDDLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLE 5338
Query: 16014 YIRKLHDELTGHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSL 16193
YI+KL+++L +LD YSV+L+ + ++ + FY+ MY VLQ+VGACV+C+SQTSL
Sbjct: 5339 YIKKLYNDLGNQILDSYSVILSTCDGQKFTDETFYKNMYLRSAVLQSVGACVVCSSQTSL 5398
Query: 16194 RCGACIRRPFLCCKCCYDHVISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKS 16373
RCG+CIR+P LCCKC YDHV+ST HK VLSV+PYVCN+PGCDV DVT+LYLGGMSYYC+
Sbjct: 5399 RCGSCIRKPLLCCKCAYDHVMSTDHKYVLSVSPYVCNSPGCDVNDVTKLYLGGMSYYCED 5458
Query: 16374 HKPPISFPLCANGQVFGLYKNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFA 16553
HKP SF L NG VFGLYK +C GS + DFN IA+C WT DY+LAN CTERLKLFA
Sbjct: 5459 HKPQYSFKLVMNGMVFGLYKQSCTGSPYIEDFNKIASCKWTEVDDYVLANECTERLKLFA 5518
Query: 16554 AETLKATEETFKLSYGIATVREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQ 16733
AET KATEE FK Y AT+RE++SDREL LSWE+GK RPPLN+NYVFTGY T N K
Sbjct: 5519 AETQKATEEAFKQCYASATIREIVSDRELILSWEIGKVRPPLNKNYVFTGYHFTNNGKTV 5578
Query: 16734 IGEYTFEKGDYGDAVVYRGTTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHY--VRITGL 16907
+GEY F+K + + V YR TTTYKL+VGD F+LTSH V LSAPTLVPQE+Y +R +
Sbjct: 5579 LGEYVFDKSELTNGVYYRATTTYKLSVGDVFILTSHAVSSLSAPTLVPQENYTSIRFASV 5638
Query: 16908 YPTLNISDEFSSNVANYQKVGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHA 17087
Y ++ + F +NV NYQ +GM++Y T+QGPPGTGKSH AIGLA+YY +AR+VYTA SHA
Sbjct: 5639 Y---SVPETFQNNVPNYQHIGMKRYCTVQGPPGTGKSHLAIGLAVYYCTARVVYTAASHA 5695
Query: 17088 AVDALCEKALKYLPIDKCSRIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVV 17267
AVDALCEKA K+L I+ C+RI+PA+ RV+C+DKFKVN T +YVF T+NALPE DI+V
Sbjct: 5696 AVDALCEKAHKFLNINDCTRIVPAKVRVDCYDKFKVNDTTRKYVFTTINALPELVTDIIV 5755
Query: 17268 FDEISMATNYDLSVVNARLRAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTI 17447
DE+SM TNY+LSV+N+R+ AKHYVYIGDPAQLPAPR LL KGTLEP YFNSV +LM +
Sbjct: 5756 VDEVSMLTNYELSVINSRVSAKHYVYIGDPAQLPAPRVLLNKGTLEPRYFNSVTKLMCCL 5815
Query: 17448 GPDMFLGTCRRCPAEIVDTVSALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQ 17627

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GPD+FLGTC RCP EIVDTVSALVY+NKLKA D S+ CFK++YKG TH+ SSA+N Q
Sbjct: 5816 GPDIFLGTCYRCPKEIVDTVSALVYNNKLKAKNDNSSMCFKVYYKGQTTHESSSAVNMQQ 5875
Query: 17628 IGVVREFLTRNPAWRKAVFISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTET 17807
I ++ +FL NP+W AVFISPYNSQN VA ++LGL TQTVDS+QGSEYD+VI++QT ET
Sbjct: 5876 IHLISKFLKANPSWSNAVFISPYNSQNYVAKRVLGLQTQTVDSAQGSEYDFVIYSQTAET 5935
Query: 17808 AHSCNVNRFNVAITRAKIGILCIMSDRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDC 17987
AHS NVNRFNVAITRAK GILC+MS L++ L FT+L + + N LQ T LFKDC
Sbjct: 5936 AHSVNVNRFNVAITRAKKGILCVMSSMQLFESLNFTTLTLDKINNPRLQC--TTNLFKDC 5993
Query: 17988 SKIITGLHPTQAPTHLSVDIKFKTEG-LCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYP 18164
S+ G HP AP+ L+VD K+K G L V + +TY RLIS+MGFK++ ++GY
Sbjct: 5994 SRSYVGYHPAHAPSFLAVDDKYKVGGDLAVCLNVADSAVTYSRLISLMGFKLDLTLDGYC 6053
Query: 18165 NMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENN 18344
+FITR+EAI+ VRAW+GFD EG HA RD++GTN PLQLGFSTG++ V TG +
Sbjct: 6054 KLFITRDEAIKRVRAWVGFDAEGAHAIRDSIGTNFPLQLGFSTGIDFVVEATGMFAERDG 6113
Query: 18345 TEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGF 18524
F + A+ PPG+QFKHLIPLM +G W+VVRI+IVQMLSD L L+D VV V WA F
Sbjct: 6114 YVFKKAAARAPPGEQFKHLIPLMSRGQKWDVVRIRIVQMLSDHLADLADSVVLVTWAASF 6173
Query: 18525 ELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFT 18704
ELT ++YF K+G E C +C KRATCF++ + Y CW HS DY+YNP ++D+QQWG+T
Sbjct: 6174 ELTCLRYFAKVGREVVCSVCTKRATCFNSRTGYYGCWRHSYSCDYLYNPLIVDIQQWGYT 6233
Query: 18705 GNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSACR 18884
G+L SNHD C VH AHVAS DAIMTRCLAVH+CF K V+W++EYPII +E+ VN++CR
Sbjct: 6234 GSLTSNHDPICSVHKGAHVASSDAIMTRCLAVHDCFCKSVNWNLEYPIISNEVSVNTSCR 6293
Query: 18885 KVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSY 19064
+Q ++ ++A+L +++ V +DIGNPK + CV ++KFYDA P +++ Y Y
Sbjct: 6294 LLQRVMFRAAMLCNRYDVCYDIGNPKGLACV--KGYDFKFYDASPV---VKSVKQFVYKY 6348
Query: 19065 ATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPA 19244
H D+F DG+C+FWNCNVD+YPANA+VCRFDTRVL+ LNLPGC+GGSLYVNKHAFHT
Sbjct: 6349 EAHKDQFLDGLCMFWNCNVDKYPANAVVCRFDTRVLNKLNLPGCNGGSLYVNKHAFHTSP 6408
Query: 19245 FDKSAFTNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANE 19424
F ++AF NLK +PFFYYSD+PC
+DYVPL+SATCITRCNLGGAVC HA E
Sbjct: 6409 FTRAAFENLKPMPFFYYSDTPCVYMEGMESKQVDYVPLRSATCITRCNLGGAVCLKHAEE 6468
Query: 19425 YRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEAP 19604
YR+YL++YN +AGF+ W+YK FD YNLWNTFTRLQSLENV YN+VN GHFDG AGE P
Sbjct: 6469 YREYLESYNTATTAGFTFWVYKTFDFYNLWNTFTRLQSLENVVYNLVNAGHFDGRAGELP 6528
Query: 19605 VSIINNAVYTKVDGIDVEIFENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAANT 19784
++I V K+ DV +F+N T P NVA EL+AKR+I+P PE+K+ NL +D+ +
Sbjct: 6529 CAVIGEKVIAKIQNEDVVVFKNNTPFPTNVAVELFAKRSIRPHPELKLFRNLNIDVCWSH 6588
Query: 19785 VIWDYKREAPAHVSTIGVCTMTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVLI <strong>199</strong>64
V+WDY +++ ST VC TD+ SL VLFDGR G ++ F+ RNGV I
Sbjct: 6589 VLWDYAKDSVFCSSTYKVCKYTDL------QCIESLNVLFDGRDNGALEAFKKCRNGVYI 6642
Query: <strong>199</strong>65 TEGSVKGLTPSKGPAQASVNGVTL--IGES-VKTQFNYFKKVDGII-----------QQL 20102
+K L+ KGP +A +NGV + +G+S V+ F K D +I +
Sbjct: 6643 NTTKIKSLSMIKGPQRADLNGVVVEKVGDSDVEFWFAVRKDGDDVIFSRTGSLEPSHYRS 6702
Query: 20103 PE--------------------TYFTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLEG 20222

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P+ T FTQSR L F PRS+ME DF++L D FI +Y L+
Sbjct: 6703 PQGNPGGNRVGDLSGNEALARGTIFTQSRLLSSFTPRSEMEKDFMDLDDDVFIAKYSLQD 6762
Query: 20223 YAFEHIVYGDFSHGQLGGLHLMIGLAKRSQDSPLKLEDFIPMDSTVKNYFITDAQTGSSK 20402
YAFEH+VYG F+ +GGLHL+IGLA+R Q S L +++F+ DS++ +YFITD +GSSK
Sbjct: 6763 YAFEHVVYGSFNQKIIGGLHLLIGLARRQQKSNLVIQEFVTYDSSIHSYFITDENSGSSK 6822
Query: 20403 CVCSVIDLLLDDFVEIIKSQDLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQASR 20582
VC+VIDLLLDDFV+I+KS +L +SKVV V +D+ + FMLWC + V TFYP+LQA+
Sbjct: 6823 SVCTVIDLLLDDFVDIVKSLNLKCVSKVVNVNVDFKDFQFMLWCNEEKVMTFYPRLQAAA 6882
Query: 20583 AWQPGVAMPNLYKMQRMLLEKCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVPY 20762
W+PG MP LYK LE+ +L NYG+ +P G MMNVAKYTQLCQYL+T TLAVP
Sbjct: 6883 DWKPGYVMPVLYKYLESPLERVNLWNYGKPITLPTGCMMNVAKYTQLCQYLSTTTLAVPA 6942
Query: 20763 NMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTANK 20942
NMRV+H GAGSDKGVAPG+AVLRQWLP G++LVD+D+N FVSD+ ++ G+C T+ +
Sbjct: 6943 NMRVLHLGAGSDKGVAPGSAVLRQWLPAGSILVDNDVNPFVSDSVASYYGNCITLPFDCQ 7002
Query: 20943 WDLIISDMYDPRTKHVTKENDSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYKL 21122
WDLIISDMYDP TK++ + N SK+GFFTYLC I+ KLALGGS+A+KITE SWNA+LY L
Sbjct: 7003 WDLIISDMYDPLTKNIGEYNVSKDGFFTYLCHLIRDKLALGGSVAIKITEFSWNAELYSL 7062
Query: 21123 MGHFSWWTAFVTNVNASSSEAFLIGANYLGKPKEQIDGYTMHANYIFWRNTNPIQLSSYS 21302
MG F++WT F TNVNASSSE FLIG N+L K + +IDG TMHANY+FWRN+ +YS
Sbjct: 7063 MGKFAFWTIFCTNVNASSSEGFLIGINWLNKTRTEIDGKTMHANYLFWRNSTMWNGGAYS 7122
Query: 21303 LFDMSKFPLKLRGTAVMSLKENQINDMIYSLLEKGRLIIRENNRVVVSSDILVN 21464
LFDMSKFPLK GTAV+SLK +QIND++ SL+EKG+L++R+ + V D LVN
Sbjct: 7123 LFDMSKFPLKAAGTAVVSLKPDQINDLVLSLIEKGKLLVRDTRKEVFVGDSLVN 7176
Score = 1710 bits (4428), Expect(2) = 0.0
Identities = 1045/2894 (36%), Positives = 1507/2894 (52%), Gaps = 78/2894 (2%)
Frame = +1
Query: 4882 IKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTL 5061
+ V TVD N + V +G+ G + DG +VTK++ ++GK FF
Sbjct: 1611 VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIYKGKVFFQYSDLSEA 1670
Query: 5062 RSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLE 5241
A + DE L +Y + L K W G + K ++NNCY++ L LQ L
Sbjct: 1671 DLVAVKDAFGFDEPQLLKYYTMLGMCK-WSVVVCGNYFAFKQSNNNCYINVACLMLQHLS 1729
Query: 5242 VKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRV 5421
+KF QEA+ R+G F +L+LA + E D + M +L+ A+L A
Sbjct: 1730 LKFPKWQWQEAWNEFRSGKPLRFVSLVLAKGSFKFNEPSDSIDFMRVVLREADLSGATCN 1789
Query: 5422 LNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 5601
L VCK CG K GV+AVM+ GTL +L G +I C CG + Q F++
Sbjct: 1790 LEFVCK-CGVKQEQRKGVDAVMHFGTLDKGDLVRGYNIACTCGSKLV-HCTQFNVPFLIC 1847
Query: 5602 SAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVF 5781
S P KL + AN +TG GHYTH+ K D ++ K+SE KG TD
Sbjct: 1848 SNTPEGRKLPDDV-VAANIFTGG-SVGHYTHVKCKPKYQLYDACNVNKVSEAKGNFTDCL 1905
Query: 5782 Y-KETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDL-VPTQPLPNASF 5955
Y K T + ++ LD V E +P L YY + YYT+ I T + +
Sbjct: 1906 YLKNLKQTFSSVLTTFYLDDVKCVEYKPDLSQYYCESGKYYTKPIIKAQFRTFEKVDGVY 1965

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Query: 5956 DNFKLTCSNTKFADDLNQMTGFT-KPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAK 6132
NFKL A+ LN GF E +T +P GDVV Y + + G
Sbjct: 1966 TNFKLV--GHSIAEKLNAKLGFDCNSPFVEYKITEWPTATGDVVLASDDLYVSRYSSGCI 2023
Query: 6133 LLHKPIVW--HINQATTKTTF--KPNTWCLRCLWSTKPVDTSNSFE------VLAVEDTQ 6282
KP+VW H + T+ +P+ C ++ PVD S + + V
Sbjct: 2024 TFGKPVVWLGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDKGPVPAAVLVTGVP 2082
Query: 6283 GMD----------NLACESQQPTSE---EVVENPTIQ----KEVIECDVKT-TEVVGNVI 6408
G D AC S + EV + P++ KEV VK +V G+V+
Sbjct: 2083 GADASAGAGIAKEQKACASASVEDQVVTEVRQEPSVSAADVKEVKLNGVKKPVKVEGSVV 2142
Query: 6409 LKPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAINSVPWS 6588
+ KV + L D+ ++ + NELS + T+ + V W
Sbjct: 2143 VNDPTSETKVVKSLSIVDVYDMFLTGCKYVVWTANELSRLVNSPTVREY-------VKWG 2195
Query: 6589 K--ILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFTKSTNSRIRASL 6762
K I+ K L + K + + Y + LL+ +T++++ +
Sbjct: 2196 KGKIVTPAKLLLLRDEKQEFVAPKVVKAKAIACYCAVKWFLLYCFSWIKFNTDNKVIYT- 2254
Query: 6763 PTTIAKNSVKSVAKLCLDAGINYVKSPKFSKL----FTIA----MWXXXXXXXXXXXXXV 6918
T +A K KLC A N +++ +S + F +A +W
Sbjct: 2255 -TEVAS---KLTFKLCCLAFKNALQTFNWSVVSRGFFLVATVFLLWFNFLYANVILSDFY 2310
Query: 6919 TAAFGVL-----------LSNFGAPSYCN--GVRELYLNSSNVTTMDFCEGSFPCSICLS 7059
G L + FG + C+ V +L SS FC GS C +C S
Sbjct: 2311 LPNIGPLPTFVGQIVAWFKTTFGVSTICDFYQVTDLGYRSS------FCNGSMVCELCFS 2364
Query: 7060 GLDSLDSYPALETIQVTISS-YKLD-LTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFF 7233
G D LD+Y A+ +Q + D +++ L E V+ Y L+T FY L + MQ+
Sbjct: 2365 GFDMLDNYDAINVVQHVVDRRLSFDYISLFKLVVELVIGYSLYTVCFYPLFVLIGMQLLT 2424
Query: 7234 GYFASHFISNS--WLMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTC 7407
+ F+ + W + + M P ++R YI + Y ++ H+M GC+ C
Sbjct: 2425 TWLPEFFMLETMHWSARLFVFVANMLPAFTLLRFYIVVTAMYKVYCLCRHVMYGCSKPGC 2484
Query: 7408 MMCYKRNRATRVECTTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEV 7587
+ CYKRNR+ RV+C+T+V G R + V ANGG GFC H WNCLNC+++ G+TFI+ E
Sbjct: 2485 LFCYKRNRSVRVKCSTVVGGSLRYYDVMANGGTGFCTKHQWNCLNCNSWKPGNTFITHEA 2544
Query: 7588 ARDLSLQFKRPINPTDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRA 7767
A DLS + KRP+NPTD + Y V V ++ L++++ GQ+ Y+ S FV+++ L
Sbjct: 2545 AADLSKELKRPVNPTDSAYYSVTEVKQVGCSMRLFYERDGQRVYDDVNASLFVDMNGLLH 2604
Query: 7768 NNTKGSLPINVIVFDGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVK 7947
+ KG +V+V + ++ D++ A+V+Y+Q + +P+L++++ L++ VS
Sbjct: 2605 SKVKGVPETHVVVVENEA--DKAGFLGAAVFYAQSLYRPMLMVEKKLITTANTGLSVSRT 2662
Query: 7948 MFDAYVDTFSATFSVPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXX 8127
MFD YVD+ V + L + V AH+ L +GV L+ V+ TF+ AR+
Sbjct: 2663 MFDLYVDSLLNVLDVDRKSLTSFVNAAHNSLKEGVQLEQVMDTFIGCARRKCAIDSDVET 2722
Query: 8128 XXIECLKLSH-HSDLEVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHN 8304
I +S ++ ++ T +SCNN + TY K + + DLG I NA+H+ A VAK+ N
Sbjct: 2723 KSITKSVMSAVNAGVDFTDESCNNLVPTYVKSDTIVAADLGVLIQNNAKHVQANVAKAAN 2782
Query: 8305 VSLIWNVKDYMSLSEQLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVST 8484
V+ IW+V + LS L+ ++R A K + +LT V ++TT SLKGG + S
Sbjct: 2783 VACIWSVDAFNQLSADLQHRLRKACSKTGLKIKLTYNKQEANVPILTTPFSLKGGAVFSR 2842

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Query: 8485 CFKLMLKATXXXXXXXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFA 8664
+ + A + +MP + + D +K I +GV RD+ TD CFA
Sbjct: 2843 MLQWLFVANLICFIVL---WALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVSVTDACFA 2899
Query: 8665 NKHAGFDAWFSQRGGS--YKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLP 8838
NK FD W+ G Y+N K+CPVV A+I ++IG + +P TVLR LHF+
Sbjct: 2900 NKFNQFDQWYESTFGLAYYRNSKACPVVVAVIDQDIGHTLFNVPTTVLR-YGFHVLHFIT 2958
Query: 8839 RVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYS 9018
F+ CYTP I Y +F S CVL++ CT+ A G P PYCY ++ + YS
Sbjct: 2959 HAFATDSVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTGGVMHNASLYS 3018
Query: 9019 ELRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWV 9195
L P RY L + I+FP EG VRVV T YCR G CE +E GIC + + WV
Sbjct: 3019 SLAPHVRYNLASSNGYIRFPEVVSEGIVRVVRTRSMTYCRVGLCEEAEEGICFNFNRSWV 3078
Query: 9196 LNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFM 9375
LNN +YRA+ G FCG +A +LI + LV+P+ ++AS VAG I+AI+V A YY +
Sbjct: 3079 LNNPYYRAMPGTFCGRNAFDLIHQVLGGLVRPIDFFALTASSVAGAILAIIVVLAFYYLI 3138
Query: 9376 KFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAH 9555
K +R FG+Y VV N +++ ++F +L + Y L +Y+ FY Y T YF +++S + H
Sbjct: 3139 KLKRAFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMH 3198
Query: 9556 LQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRK---RVMFNGVTFSTFEEAALCT 9726
LQW M+ I+P W IYV + H W F+ Y RK V +G TFEE AL T
Sbjct: 3<strong>199</strong> LQWLVMYGAIMPLWFCIIYVAVVVSNHALWLFS-YCRKIGTEVRSDG----TFEEMALTT 3253
Query: 9727 FLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFS 9906
F++ KE Y KL++ + +NRYL+LYNKY+YFSG +DT +YREAAC LAKA+ F+
Sbjct: 3254 FMITKESYCKLKNS--VSDVAFNRYLSLYNKYRYFSGKMDTAAYREAACSQLAKAMETFN 3311
Query: 9907 -NSGADVLYQPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYC 10083
N+G DVLYQPP S+T++ LQSG KM P+ KVE C+V VT G TLNGLWLDD VYC
Sbjct: 3312 HNNGNDVLYQPPTASVTTSFLQSGIVKMVSPTSKVEPCIVSVTYGNMTLNGLWLDDKVYC 3371
Query: 10084 PRHVICTAEDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKT 10263
PRHVIC++ DM +P+Y +LL R ++ F V +G + L V+ + MQ C L L V NP T
Sbjct: 3372 PRHVICSSADMTDPDYPNLLCRVTSSDFCVMSGRMSLTVMSYQMQGCQLVLTVTLQNPNT 3431
Query: 10264 PKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVS 10443
PKY F ++PG+TF+VLA YNG P G + +R +HTIKGSFL GSCGSVG+ + D V
Sbjct: 3432 PKYSFGVVKPGETFTVLAAYNGRPQGAFHVTLRSSHTIKGSFLCGSCGSVGYVLTGDSVR 3491
Query: 10444 FCYMHHMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRW 10623
F YMH +EL TG H GTD G FYGP+ D Q Q D T T+NV+AWLYAA+ N W
Sbjct: 3492 FVYMHQLELSTGCHTGTDFSGNFYGPYRDAQVVQLPVQDYTQTVNVVAWLYAAIFNRCNW 3551
Query: 10624 FLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNG 10803
F+ + +L +FN+ AM + + D V L L++ TG+ V + AA+K L +G G
Sbjct: 3552 FVQSDSCSLEEFNVWAMTNGFSSIKADLV--LDALASMTGVTVEQVLAAIKR-LHSGFQG 3608
Query: 10804 RTILGSTILEDEFTPFDVVRQCSGVTFQGKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWS 10983
+ ILGS +LEDE TP DV +Q +GV Q K +++KGT W+ +W+
Sbjct: 3609 KQILGSCVLEDELTPSDVYQQLAGVKLQSKRTRVIKGTCCWILASTFLFCSIISAFVKWT 3668
Query: 10984 LFFFVYENAFLPFTLGIMAIAACAMLLVKHKHAFLCLFLLPSLATVAYFN-MVYMPASWV 11160
+F +V + L TL + + AMLL+KHKH +L ++++P L T+ Y N +V S+
Sbjct: 3669 MFMYVTTH-MLGVTLCALCFVSFAMLLIKHKHLYLTMYIMPVLCTLFYTNYLVVYKQSFR 3727

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Query: 11161 MRIMTWLELADTSLSGYRLKDCVMYASA-LVLLILMTARTVYDDAARRVWTLMNVITLVY 11337
WL ++ Y D V+Y LV ++ +T R++ D ++ + +++LV
Sbjct: 3728 GLAYAWLSHFVPAVD-YTYMDEVLYGVVLLVAMVFVTMRSINHDVFSIMFLVGRLVSLVS 3786
Query: 11338 KVYYGNALDQAISMWALVISVTSNYSGVVTTIMFLARA-IVFVCVEYYPLLFITGNTLQC 11514
Y+G L++ + ++ + T + TT++ LA A ++ + L F ++
Sbjct: 3787 MWYFGANLEEEVLLFLTSLFGTYTW----TTMLSLATAKVIAKWLAVNVLYFTDVPQIKL 3842
Query: 11515 IMLVXXXXXXXXXXXXXXXXXXNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAF 11694
++L N FR+ LGVY+Y +S QE RYMN+ GL PP++S +A
Sbjct: 3843 VLLSYLCIGYVCCCYWGILSLLNSIFRMPLGVYNYKISVQELRYMNANGLRPPRNSFEAL 3902
Query: 11695 KLNIKLLGIGGKPCIKVATVQSKMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDI 11874
LN KLLGIGG P I+V+ +QS+++DVKC
KLW C LHN+I
Sbjct: 3903 MLNFKLLGIGGVPVIEVSQIQSRLTDVKCANVVLLNCLQHLHIASNSKLWQYCSTLHNEI 3962
Query: 11875 LLAKDTTEAFEKMXXXXXXXXXMQGAVD------INRLCEEMLDNRATLQAIASEFSSLP 12036
L D + AF+K+ AVD I + ++ + + LQA+ SEF ++
Sbjct: 3963 LATSDLSVAFDKLAQLLVVLFANPAAVDSKCLASIEEVSDDYVRDNTVLQALQSEFVNMA 4022
Query: 12037 SXXXXXXXXXXXXXXXXNGDXXXXXXXXXXXX-XXXXXEFDRDAAMQRKLEKMADQAMTQ 12213
S +G ++RD A+ RKLE+MAD A+T
Sbjct: 4023 SFVEYELAKKNLDEAKASGSANQQQIKQLEKACNIAKSAYERDRAVARKLERMADLALTN 4082
Query: 12214 MYKQARSEDKRAKVTSAMQTMLFTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLM 12393
MYK+AR DK++KV SA+QTMLF+M+RK
GCVPLN IP T+ L
Sbjct: 4083 MYKEARINDKKSKVVSALQTMLFSMVRKLDNQALNSILDNAVKGCVPLNAIPSLTSNTLT 4142
Query: 12394 VVVPDYGTYKNTCDGNTFTYASALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTAL 12573
++VPD + D TYA +W IQ + DAD + QL+EI++ N WPL++ A
Sbjct: 4143 IIVPDKQVFDQVVDNVYVTYAGNVWHIQFIQDADGAVKQLNEIDV----NSTWPLVIAAN 4198
Query: 12574 RAN--SAVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQ 12747
R N S V LQNNEL P LR +G+ T YYN + G+ V A+LSD
Sbjct: 4<strong>199</strong> RHNEVSTVVLQNNELMPQKLRTQVVNSGSDMNCNTPTQ--CYYNTTGTGKIVYAILSDCD 4256
Query: 12748 DLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAAT 12927
LK+ + K DG + EL+PPC+F KG K+KYLYF+KG N L RG V+G+L++T
Sbjct: 4257 GLKYTKIVKEDG-NCVVLELDPPCKFSVQDVKGLKIKYLYFVKGCNTLARGWVVGTLSST 4315
Query: 12928 VRLQAGNATEVPANSTVLSFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAIT 13107
VRLQAG ATE +NS +LS CAF+VDP K Y DY+ GG P+TNCVKMLC H GTG AIT
Sbjct: 4316 VRLQAGTATEYASNSAILSLCAFSVDPKKTYLDYIKQGGVPVTNCVKMLCDHAGTGMAIT 4375
Query: 13108 VTPEANMDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTV 13287
+ PEA +Q+S+GGAS C+YCR ++HP+ G C L+GK+VQ+P DPV + L + V
Sbjct: 4376 IKPEATTNQDSYGGASVCIYCRSRVEHPDVDGLCKLRGKFVQVPLG-IKDPVSYVLTHDV 4434
Query: 13288 CTVCGMWKGYGCSC 13329
C VCG W+ CSC
Sbjct: 4435 CQVCGFWRDGSCSC 4448
Score = 84.7 bits (208), Expect = 8e-14
Identities = 52/149 (34%), Positives = 77/149 (51%), Gaps = 2/149 (1%)
Frame = +1
Query: 3283 LTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKL 3462

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+T NV D++K + N VIVN AN + HG GVAGA+ + A KE+ D +K
Sbjct: 1320 ITPNVCFVKGDVIKVVRLVNAEVIVNPANGRMAHGAGVAGAIAEKAGSAFIKETSDMVKA 1379
Query: 3463 NGPLTVGGSCLLSGHNLAKKCLHVVGPNL--NAGEDIQLLKAAYENFNSQDILLAPLLSA 3636
G VG +G L KK L++VGP+ + + LL+ AY++ N D ++ L+SA
Sbjct: 1380 QGVCQVGECYESAGGKLCKKVLNIVGPDARGHGKQCYSLLERAYQHINKCDNVVTTLISA 1439
Query: 3637 GIFGAKPLQSLQVCVQTVRTQVYIAVNDK 3723
GIF SL + V V + N++
Sbjct: 1440 GIFSVPTDVSLTYLLGVVTKNVILVSNNQ 1468
Score = 73.6 bits (179), Expect = 2e-10
Identities = 98/389 (25%), Positives = 165/389 (42%), Gaps = 29/389 (7%)
Frame = +1
Query: 1954 ILDGISEQSLRLVDA-------MVYTSDLLTNSVIIMAYVTGGLVQQTSQWLSNLLGTT- 2109
+LDG+ +S L+ + MV S +T+ + MA + V+ ++++ + G
Sbjct: 576 LLDGLVPRSYYLIKSGQAFTSMMVNFSHEVTDMCMDMALLFMHDVKVATKYVKKVTGKLA 635
Query: 2110 -------VEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDIVKGQIQVASDNIKD 2268
V +R I EW + L+ + W + L+ G+F + G I + + +
Sbjct: 636 VRFKALGVAVVRKITEWFD--LAVDIAASAAGWLCYQ-LVNGLFAVANGVITFVQE-VPE 691
Query: 2269 CVKCFIDVVNKALEMCIDQVTIA---GAKLRSLNLGEVFIAQSKGLYRQCIRGKEQLQLL 2439
VK F+D ++ ID ++++ G + V +A SK +Y + K +
Sbjct: 692 LVKNFVDKFKAFFKVLIDSMSVSILSGLTVVKTASNRVCLAGSK-VYE--VVQKSLSAYV 748
Query: 2440 MPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGEL--EALETPVDSFTNGAIVGTPVCVNGL 2613
MP+ E T L G+ V + V + L + P SF IV
Sbjct: 749 MPVGC-SEATCLVGEIEPAVFEDDVVDVVKAPLTYQGCCKPPTSFEKICIVDK------- 800
Query: 2614 MLLEIKDKEQYCAL-----SPGLLATNNVFRLKGGAPIKGVTFGEDT-VWEVQGYKNVRI 2775
L K +Q+ + + G+L F G K V F + V ++ + ++I
Sbjct: 801 -LYMAKCGDQFYPVVVDNDTVGVLDQCWRFPCAG----KKVEFNDKPKVRKIPSTRKIKI 855
Query: 2776 TFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSD---LLTNMGIDLD 2946
TF LD D VL++ CS + V+ + E VV +AV TL P + + T + LD
Sbjct: 856 TFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLDAVESTLSPCKEHDVIGTKVCALLD 915
Query: 2947 EWSVATFYLFDDAGEENFSSRMYCSFYPP 3033
+ YLFD+ G+E + RMYCSF P
Sbjct: 916 RLAGDYVYLFDEGGDEVIAPRMYCSFSAP 944
>gi|7769342|gb|AAF69332.1|AF208066_2
Length = 2732
RNA-directed RNA polymerase [murine hepatitis virus]
Score = 3490 bits (9049), Expect = 0.0
Identities = 1678/2735 (61%), Positives = 2081/2735 (76%), Gaps = 38/2735 (1%)
Frame = +3
Query: 13374 VFKRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNL 13550
+FKRV G S ARL PC +G TDV RAFDI N AG + K NCCRFQ DE+GN
Sbjct: 17 LFKRVRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCCRFQRADEDGNT 76
Query: 13551 LDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMA 13730
LD +FV+KR + Y E+ Y L K+C VA H+FF F V+G VPHI R+ L+KYTM

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Sbjct: 77 LDKFFVIKRTNLEVYNKEKECYELTKECGVVAEHEFFTFDVEGSRVPHIVRKDLSKYTML 136
Query: 13731 DLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQS 13910
DL YALRHFD +C TLKEIL+TY CD +++ WYDFVEN DI+ VY LG ++
Sbjct: 137 DLCYALRHFDRNDCSTLKEILLTYAECDI-LLSEEGWYDFVENSDIINVYKKLGPIFNRA 195
Query: 13911 LLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPIL 14090
LL T +F D + +AG+VGVLTLDNQDL G WYDFGDFV+ PGCGV + DSYYS +MP+L
Sbjct: 196 LLNTAKFADTLVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPGCGVAVADSYYSYMMPML 255
Query: 14091 TLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDR 14270
T+ AL +E ++ + +DL++YDFT+ +L LF++YFKYW TYHPN C DDR
Sbjct: 256 TMCHALDSELFINGTYRE----FDLVQYDFTDFKLELFNKYFKYWSMTYHPNTCECEDDR 311
Query: 14271 CILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSR 14450
CI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H R
Sbjct: 312 CIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVDTHRYR 371
Query: 14451 LSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVS 14630
LS K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY+F +S
Sbjct: 372 LSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYEFILS 431
Query: 14631 KGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDG 14810
KG KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV+KYF+ YDG
Sbjct: 432 KGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVNKYFEIYDG 491
Query: 14811 GCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLK 14990
GCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNLK
Sbjct: 492 GCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEVYAYTKRNVLPTLTQMNLK 551
Query: 14991 YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTV 15170
YAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG VVIGT+KFYGGW +ML+ +
Sbjct: 552 YAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRRL 611
Query: 15171 YSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSE 15350
DV++P LMGWDYPKCDRAMPN+LRI++SLVLARKH++CC+ + RFYRLANECAQVLSE
Sbjct: 612 IKDVDSPVLMGWDYPKCDRAMPNILRIISSLVLARKHDSCCSHTDRFYRLANECAQVLSE 671
Query: 15351 MVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQH 15530
+VMCGG YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D +R LQ
Sbjct: 672 IVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQK 731
Query: 15531 RLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAV 15710
RLY +YR VD FV+E+Y +L KHFSMMILSDD VVCYNS +A++G +A+I F+ V
Sbjct: 732 RLYSNVYRADHVDPAFVNEYYEFLNKHFSMMILSDDGVVCYNSEFASKGYIANISAFQQV 791
Query: 15711 LYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVD 15890
LYYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK D VYLPYPDPSRILGAGCFVD
Sbjct: 792 LYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGAGCFVD 851
Query: 15891 DIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSV 16070
D++KTD L+IERFVSLAIDAYPL H N EY +VF +YL+YI+KL+++L +LD YSV
Sbjct: 852 DLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQILDSYSV 911
Query: 16071 MLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDH 16250
+L+ + ++ + FY+ MY V+Q+VGACV+C+SQTSLRCG+CIR+P LCCKC YDH
Sbjct: 912 ILSTCDGQKFTDETFYKNMYLRSAVMQSVGACVVCSSQTSLRCGSCIRKPLLCCKCAYDH 971
Query: 16251 VISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLY 16430
V+ST HK VLSV+PYVCN+PGCDV DVT+LYLGGMSYYC+ HKP SF L NG VFGLY

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Sbjct: 972 VMSTDHKYVLSVSPYVCNSPGCDVNDVTKLYLGGMSYYCEDHKPQYSFKLVMNGMVFGLY 1031
Query: 16431 KNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIAT 16610
K +C GS + DFN IA+C WT DY+LAN CTERLKLFAAET KATEE+FK Y AT
Sbjct: 1032 KQSCTGSPYIEDFNKIASCKWTEVDDYVLANECTERLKLFAAETQKATEESFKQCYASAT 1091
Query: 16611 VREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRG 16790
+RE++SDREL LSWE+GK RPPLN+NYVFTGY T N K +GEY F+K + + V YR
Sbjct: 1092 IREIVSDRELILSWEIGKVRPPLNKNYVFTGYHFTSNGKTVLGEYVFDKSELTNGVYYRA 1151
Query: 16791 TTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHY--VRITGLYPTLNISDEFSSNVANYQK 16964
TTTYKL+VGD F+LTSH V LSAPTLVPQE+Y +R +Y ++ + F +NV NYQ
Sbjct: 1152 TTTYKLSVGDVFILTSHAVSSLSAPTLVPQENYTSIRFASVY---SVPETFQNNVPNYQH 1208
Query: 16965 VGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCS 17144
+GM++Y T+QGPPGTGKSH AIGLA+YY +AR+VYTA SHAAVDALCEKA K+L I+ C+
Sbjct: 1209 IGMKRYCTVQGPPGTGKSHLAIGLAVYYCTARVVYTAASHAAVDALCEKAYKFLNINDCT 1268
Query: 17145 RIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARL 17324
RI+PA+ RV+C+DKFKVN T +YVF T+NALPE DI+V DE+SM TNY+LSV+N+R+
Sbjct: 1269 RIVPAKVRVDCYDKFKVNDTTRKYVFTTINALPELVTDIIVVDEVSMLTNYELSVINSRV 1328
Query: 17325 RAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDT 17504
RAKHYVYIGDPAQLPAPR LL KGTLEP YFNSV +LM +GPD+FLGTC RCP EIVDT
Sbjct: 1329 RAKHYVYIGDPAQLPAPRVLLNKGTLEPRYFNSVTKLMCCLGPDIFLGTCYRCPKEIVDT 1388
Query: 17505 VSALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVF 17684
VSALVY NKLKA D S+ CFK++YKG TH+ SSA+N QI ++ +FL NP+W AVF
Sbjct: 1389 VSALVYHNKLKAKNDNSSMCFKVYYKGQTTHESSSAVNMQQIYLISKFLKANPSWSNAVF 1448
Query: 17685 ISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKIG 17864
ISPYNSQN VA ++LGL TQTVDS+QGSEYD+VI++QT ETAHS NVNRFNVAITRAK G
Sbjct: 1449 ISPYNSQNYVAKRVLGLQTQTVDSAQGSEYDFVIYSQTAETAHSVNVNRFNVAITRAKKG 1508
Query: 17865 ILCIMSDRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKIITGLHPTQAPTHLSVD 18044
ILC+MS L++ L F++L + + N LQ T LFKDCS+ G HP AP+ L+VD
Sbjct: 1509 ILCVMSSMQLFESLNFSTLTLDKINNPRLQC--TTNLFKDCSRSYAGYHPAHAPSFLAVD 1566
Query: 18045 IKFKTEG-LCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGF 18221
K+K G L V + +TY RLIS+MGFK++ ++GY +FITR+EAIR VRAW+GF
Sbjct: 1567 DKYKVGGDLAVCLNVADSAVTYSRLISLMGFKLDLTLDGYCKLFITRDEAIRRVRAWVGF 1626
Query: 18222 DVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQFKHL 18401
D EG HATRD++GTN PLQLGFSTG++ V TG + F + A+ PPG+QFKHL
Sbjct: 1627 DAEGAHATRDSIGTNFPLQLGFSTGIDFVVEATGMFAERDGYVFKKAVARAPPGEQFKHL 1686
Query: 18402 IPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCL 18581
+PLM +G W+VVRI+IVQMLSD L L+D VV V WA FELT ++YF K+G E C +
Sbjct: 1687 VPLMSRGQKWDVVRIRIVQMLSDHLVDLADSVVLVTWAASFELTCLRYFAKVGKEVVCSV 1746
Query: 18582 CDKRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHGNAHV 18761
C+KRATCF++ + Y CW HS DY+YNP ++D+QQWG+TG+L SNHD C VH AHV
Sbjct: 1747 CNKRATCFNSRTGYYGCWRHSYSCDYLYNPLIVDIQQWGYTGSLTSNHDLICSVHKGAHV 1806
Query: 18762 ASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADKFPVL 18941
AS DAIMTRCLAVH+CF K V+WS+EYPII +E+ VN++CR +Q ++ ++A+L +++ V
Sbjct: 1807 ASSDAIMTRCLAVHDCFCKSVNWSLEYPIISNEVSVNTSCRLLQRVMFRAAMLCNRYDVC 1866
Query: 18942 HDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFWNCNV 19121
+DIGNPK + CV ++KFYDA P +++ Y Y H D+F DG+C+FWNCNV

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Sbjct: 1867 YDIGNPKGLACV--KGYDFKFYDASPV---VKSVKQFVYKYEAHKDQFLDGLCMFWNCNV 1921
Query: 19122 DRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFFYYSD 19301
D+YPANA+VCRFDTRVL+ LNLPGC+GGSLYVNKHAFHT F ++AF NLK +PFFYYSD
Sbjct: 1922 DKYPANAVVCRFDTRVLNKLNLPGCNGGSLYVNKHAFHTSPFTRAAFENLKPMPFFYYSD 1981
Query: 19302 SPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAGFSLW 19481
+PC +DYVPL+SATCITRCNLGGAVC HA +YR+YL++YN +AGF+ W
Sbjct: 1982 TPCVYMEGMESKQVDYVPLRSATCITRCNLGGAVCLKHAEDYREYLESYNTATTAGFTFW 2041
Query: 19482 IYKQFDTYNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGIDVEI 19661
+YK FD YNLWNTFTRLQSLENV YN+VN GHFDG AGE P ++I V K+ DV +
Sbjct: 2042 VYKTFDFYNLWNTFTRLQSLENVVYNLVNAGHFDGRAGELPCAVIGEKVIAKIQNEDVVV 2101
Query: 19662 FENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKREAPAHVSTIGVC 19841
F+N T P NVA EL+AKR+I+P PE+K+ NL +D+ + V+WDY +++ ST VC
Sbjct: 2102 FKNNTPFPTNVAVELFAKRSIRPHPELKLFRNLNIDVCWSHVLWDYAKDSVFCSSTYKVC 2161
Query: 19842 TMTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGLTPSKGPAQASV 20021
TD+ SL VLFDGR G ++ F+ R+GV I +K L+ KGP +A +
Sbjct: 2162 KYTDL------QCIESLNVLFDGRDNGALEAFKKCRDGVYINTTKIKSLSMIKGPQRADL 2215
Query: 20022 NGVTL--IGES-VKTQFNYFKKVDGII-----------QQLPE----------------- 20108
NGV + +G+S V+ F + D +I + P+
Sbjct: 2216 NGVVVEKVGDSDVEFWFAMRRDGDDVIFSRTGSLEPSHYRSPQGNPGGNRVGDLSGNEAL 2275
Query: 20109 ---TYFTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLEGYAFEHIVYGDFSHGQLGGL 20279
T FTQSR L F PRS+ME DF++L D FI +Y L+ YAFEH+VYG F+ +GGL
Sbjct: 2276 ARGTIFTQSRFLSSFAPRSEMEKDFMDLDEDVFIAKYSLQDYAFEHVVYGSFNQKIIGGL 2335
Query: 20280 HLMIGLAKRSQDSPLKLEDFIPMDSTVKNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKS 20459
HL+IGLA+R Q S L +++F+P DS++ +YFITD +GSSK VC+VIDLLL+DFV+I+KS
Sbjct: 2336 HLLIGLARRQQKSNLVIQEFVPYDSSIHSYFITDENSGSSKSVCTVIDLLLNDFVDIVKS 2395
Query: 20460 QDLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQASRAWQPGVAMPNLYKMQRMLL 20639
+L+ +SKVV V +D+ + FMLWC + V TFYP+LQA+ W+PG MP LYK L
Sbjct: 2396 LNLNCVSKVVNVNVDFKDFQFMLWCNEEKVMTFYPRLQAAADWKPGYVMPVLYKYLESPL 2455
Query: 20640 EKCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGT 20819
E+ +L NYG+ +P G +MNVAKYTQLCQYLNT TLAVP NMRV+H GAGSDK VAPG+
Sbjct: 2456 ERVNLWNYGKPITLPTGCLMNVAKYTQLCQYLNTTTLAVPANMRVLHLGAGSDKDVAPGS 2515
Query: 20820 AVLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTANKWDLIISDMYDPRTKHVTKE 20999
AVLRQWLP G++LVD+D+N FVSD+ ++ G+C T+ A +WDLIISDMYDP TK++ +
Sbjct: 2516 AVLRQWLPAGSILVDNDINPFVSDSVASYYGNCITLPIACQWDLIISDMYDPLTKNIGEY 2575
Query: 21000 NDSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYKLMGHFSWWTAFVTNVNASSS 21179
N SK+GFFTYLC I+ KLALGGS+A+KITE SWNA+LY LMG F++WT F TNVNASSS
Sbjct: 2576 NVSKDGFFTYLCHLIRDKLALGGSVAIKITEFSWNAELYSLMGKFAFWTIFCTNVNASSS 2635
Query: 21180 EAFLIGANYLGKPKEQIDGYTMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSL 21359
E FLIG N+L + + +IDG TMHANY+FWRN+ +YSLFDMSKFPLK+ GTAV+SL
Sbjct: 2636 EGFLIGINWLNRTRTEIDGKTMHANYLFWRNSTMWNGGAYSLFDMSKFPLKVAGTAVVSL 2695
Query: 21360 KENQINDMIYSLLEKGRLIIRENNRVVVSSDILVN 21464
K +QIND++ SL+EKG+L++R+ + V D LVN
Sbjct: 2696 KPDQINDLVLSLIEKGKLLVRDTRKEVFVGDSLVN 2730

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>gi|14917044|sp|P29982|RRPB_CVMJH RNA-directed RNA polymerase (ORF1B)
gi|7583321|gb|AAA46458.2| open reading frame 1b [murine hepatitis virus]
Length = 2731
Score = 3458 bits (8966), Expect = 0.0
Identities = 1668/2734 (61%), Positives = 2065/2734 (75%), Gaps = 38/2734 (1%)
Frame = +3
Query: 13377 FKRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNLL 13553
FKRV G S ARL PC +G TDV RAFDI N AG + K NC RFQ DEEGN L
Sbjct: 18 FKRVRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCFRFQRVDEEGNKL 77
Query: 13554 DSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMAD 13733
D +FVVKR + Y E+ Y L KDC VA H+FF F V+G VPHI R+ L+K+TM D
Sbjct: 78 DKFFVVKRTNLEVYNKEKECYELTKDCGVVAEHEFFTFDVEGSRVPHIVRKDLSKFTMLD 137
Query: 13734 LVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQSL 13913
L YALRHFD +C TLKEIL+TY CD+ YF KKDWYDFVENPDI+ VY LG ++L
Sbjct: 138 LCYALRHFDRNDCSTLKEILLTYAECDESYFQKKDWYDFVENPDIINVYKKLGPIFNRAL 197
Query: 13914 LKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPILT 14093
L T F D + +AG+VGVLTLDNQDL G WYDFGDFV+ P CGV + DSYYS +MP+LT
Sbjct: 198 LNTANFADTLVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPCCGVAVADSYYSYMMPMLT 257
Query: 14094 LTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDRC 14273
+ AL +E ++ + +DL++YDFT+ +L LF++YFK+W TYHPN C DDRC
Sbjct: 258 MCHALDSELFVNGTYRE----FDLVQYDFTDFKLELFNKYFKHWSMTYHPNTSECEDDRC 313
Query: 14274 ILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRL 14453
I+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H RL
Sbjct: 314 IIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVDTHRYRL 373
Query: 14454 SFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSK 14633
S K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY+F +SK
Sbjct: 374 SLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYEFILSK 433
Query: 14634 GFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGG 14813
G KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFVVEVV+KYF+ Y+GG
Sbjct: 434 GLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVVEVVNKYFEIYEGG 493
Query: 14814 CINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKY 14993
CI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNLKY
Sbjct: 494 CIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNLKY 553
Query: 14994 AISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVY 15173
AISAKNRARTVAGVSI STMT R FHQK LKSIAATRG VVIGT+KFYGGW +ML+ +
Sbjct: 554 AISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRRLI 613
Query: 15174 SDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEM 15353
DV++P LMGWDYPKCDRAMPN+LRI++SLVLARKH++CC+ + RFYRLANECAQVL E+
Sbjct: 614 KDVDSPVLMGWDYPKCDRAMPNILRIVSSLVLARKHDSCCSHTDRFYRLANECAQVLGEI 673
Query: 15354 VMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHR 15533
VMCGG YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D +R LQ R
Sbjct: 674 VMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQKR 733
Query: 15534 LYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAVL 15713
LY +YR VD FV E+Y +L KHFSM+ILSDD VVCYNS +A++G +A+I +F+ VL
Sbjct: 734 LYSNVYRADHVDPAFVSEYYEFLNKHFSMIILSDDGVVCYNSEFASKGYIANISDFQQVL 793

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Query: 15714 YYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDD 15893
YYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK D VYLPYPDPSRILGAGCFVDD
Sbjct: 794 YYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGAGCFVDD 853
Query: 15894 IVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVM 16073
++KTD L+IERFVSLAIDAYPL H N EY +VF +YL+YI+KL+++L +LD SV+
Sbjct: 854 LLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQILDSISVI 913
Query: 16074 LTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHV 16253
L+ + ++ + FY+ MY V+Q+VGACV+C+SQTSLRCG+CIR+P LCCKC YDHV
Sbjct: 914 LSTCDGQKFTDETFYKNMYLRSAVMQSVGACVVCSSQTSLRCGSCIRKPLLCCKCAYDHV 973
Query: 16254 ISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLYK 16433
+ST HK VLSV+PYVCN+PGCDV DVT+LYLGGMSYYC++HKP SF L NG VFGLYK
Sbjct: 974 MSTDHKYVLSVSPYVCNSPGCDVNDVTKLYLGGMSYYCEAHKPQYSFKLVMNGMVFGLYK 1033
Query: 16434 NTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIATV 16613
+C GS + DFN IA+C WT DY+LAN CTERLKLFAAET KATEE FK Y AT+
Sbjct: 1034 QSCTGSPYIEDFNKIASCKWTEVDDYVLANECTERLKLFAAETQKATEEAFKQCYASATI 1093
Query: 16614 REVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRGT 16793
RE++SDREL LSWE+GK RPPLN+NYVFTGY T N K +GEY F+K + + V YR T
Sbjct: 1094 REIVSDRELILSWEIGKVRPPLNKNYVFTGYHFTNNGKTVLGEYVFDKSELTNGVYYRAT 1153
Query: 16794 TTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHY--VRITGLYPTLNISDEFSSNVANYQKV 16967
TTYKL+VGD F+LTSH V LSAPTLVPQE+Y VR Y ++ + F +NV NYQ +
Sbjct: 1154 TTYKLSVGDVFILTSHAVSSLSAPTLVPQENYTSVRFASAY---SVPETFQNNVPNYQHI 1210
Query: 16968 GMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCSR 17147
G+++Y T+QGPPGTGKSH AIG A+YY +AR+VYTA SHAAVDALCEKA K+L I+ C+R
Sbjct: 1211 GIKRYCTVQGPPGTGKSHLAIGHAVYYCTARVVYTAASHAAVDALCEKAHKFLNINDCAR 1270
Query: 17148 IIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARLR 17327
I+PA+ RV+C+DKF VN T +YVF T+NALPE DI+V DE+SM TNY+LSV+N+R+R
Sbjct: 1271 IVPAKLRVDCYDKFNVNDTTRKYVFTTINALPELVTDIIVVDEVSMLTNYELSVINSRVR 1330
Query: 17328 AKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDTV 17507
AKHYVYIGDPAQLPAPR LL KGTLEP YFNSV +LM +GPD+FLGTC RCP EIVDTV
Sbjct: 1331 AKHYVYIGDPAQLPAPRVLLNKGTLEPRYFNSVTKLMCCLGPDIFLGTCYRCPKEIVDTV 1390
Query: 17508 SALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVFI 17687
SALVY+NKLKA D SA CFK++YKG TH+ SSA+N QI ++ + L NP+W AVFI
Sbjct: 1391 SALVYNNKLKAKNDNSAMCFKVYYKGQTTHESSSAVNMQQIHLISKLLKANPSWSNAVFI 1450
Query: 17688 SPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKIGI 17867
SPYNSQN VA ++LGL TQT DS+QGS YD+VI++QT +TAHS NVNRFNVAITRAK GI
Sbjct: 1451 SPYNSQNYVAKRVLGLQTQTADSAQGSAYDFVIYSQTAQTAHSVNVNRFNVAITRAKKGI 1510
Query: 17868 LCIMSDRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKIITGLHPTQAPTHLSVDI 18047
LC+MS L FT+L + + N LQ T LFKDCSK G+ P L+VD
Sbjct: 1511 LCVMSSMQLIGVFNFTTLTLDKINNPRLQC--TTNLFKDCSKSYVGIPP--CAFLLAVDD 1566
Query: 18048 KFKTEG-LCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGFD 18224
K+K G L V + +TY RLIS+MGFK++ ++GY +FITR+EAI+ VRAW+GFD
Sbjct: 1567 KYKVSGNLAVCLNVADSAVTYSRLISLMGFKLDLTLDGYCKLFITRDEAIKRVRAWVGFD 1626
Query: 18225 VEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQFKHLI 18404
EG HATRD++GTN PLQLGFSTG++ V TG + F + A+ PPG+QFKHL+
Sbjct: 1627 AEGAHATRDSIGTNFPLQLGFSTGIDFVVEATGMFAERDGYVFKKAAARAPPGEQFKHLV 1686

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http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
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Query: 18405 PLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCLC 18584
PLM +G W+VVRI+IVQMLSD L L+D VV V WA FELT ++YF K+G E C +C
Sbjct: 1687 PLMSRGQKWDVVRIRIVQMLSDHLVDLADSVVLVTWAASFELTCLRYFAKVGKEVVCSVC 1746
Query: 18585 DKRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHGNAHVA 18764
+KRATCF++ + Y CW HS DY+YNP ++D+QQWG+TG+L SNHD C VH AHVA
Sbjct: 1747 NKRATCFNSRTGYYGCWRHSYSCDYLYNPLIVDIQQWGYTGSLTSNHDPICSVHKGAHVA 1806
Query: 18765 SCDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADKFPVLH 18944
S DAIMTRCLAVH+CF K V+W++EYPII +E+ VN++CR +Q ++ ++A+L +++ V +
Sbjct: 1807 SSDAIMTRCLAVHDCFCKSVNWNLEYPIISNEVSVNTSCRLLQRVMFRAAMLCNRYDVCY 1866
Query: 18945 DIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFWNCNVD 19124
DIGNPK + CV ++KFYDA P +++ Y Y H D+F DG+C+FWNCNVD
Sbjct: 1867 DIGNPKGLACV--KGYDFKFYDASPV---VKSVKQFVYKYEAHKDQFLDGLCMFWNCNVD 1921
Query: 19125 RYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFFYYSDS 19304
+YPANA+VCRFDTRVLS LNLPGC+GGSLYVNKHAFHT F ++AF NLK +PFFYYSD+
Sbjct: 1922 KYPANAVVCRFDTRVLSKLNLPGCNGGSLYVNKHAFHTNPFTRAAFENLKPMPFFYYSDT 1981
Query: 19305 PCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAGFSLWI 19484
PC +DYVPL+SATCITRCNLGGAVC HA EYR+YL++YN +AGF+ W+
Sbjct: 1982 PCVYMEGMESKQVDYVPLRSATCITRCNLGGAVCLKHAEEYREYLESYNTATTAGFTFWV 2041
Query: 19485 YKQFDTYNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGIDVEIF 19664
YK FD YNLWNTFTRLQSLENV YN+VN GHFDG AGE P ++I V K+ DV +F
Sbjct: 2042 YKTFDFYNLWNTFTRLQSLENVVYNLVNAGHFDGRAGELPCAVIGEKVIAKIQNEDVVVF 2101
Query: 19665 ENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKREAPAHVSTIGVCT 19844
+N T P NVA EL+A+R+I+P PE+K+ + + + N V+WDY +++ ST VC
Sbjct: 2102 KNNTPFPTNVAVELFAERSIRPHPELKLFRSSNIHVCWNHVLWDYAKDSVFCSSTYKVCK 2161
Query: 19845 MTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGLTPSKGPAQASVN 20024
TD+ SL VLFDGR G ++ F+ RNGV I +K L+ KGP +A +N
Sbjct: 2162 YTDL------QCIESLNVLFDGRDNGALEAFKKCRNGVYINTTKIKSLSMIKGPQRADLN 2215
Query: 20025 GVTL--IGES-VKTQFNYFKKVDGII-----------QQLPE------------------ 20108
GV + +G+S V+ F + D +I + P+
Sbjct: 2216 GVVVEKVGDSDVEFWFAMRRDGDDVIFSRTGSLEPSHYRSPQGNPGGNRVGDLSGNEALA 2275
Query: 20109 --TYFTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLEGYAFEHIVYGDFSHGQLGGLH 20282
T FTQSR L F PRS+ME DF++L D FI +Y L+ YAFEH+VYG F+ +GGLH
Sbjct: 2276 RGTIFTQSRFLSSFSPRSEMEKDFMDLDEDVFIAKYSLQDYAFEHVVYGSFNQKIIGGLH 2335
Query: 20283 LMIGLAKRSQDSPLKLEDFIPMDSTVKNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKSQ 20462
L+IGLA+R + S L +++F+P DS++ +YFITD +GSS+ VC+VIDLLLDDFV+I+KS
Sbjct: 2336 LLIGLARRPKKSNLVIQEFVPYDSSIHSYFITDENSGSSESVCTVIDLLLDDFVDIVKSL 2395
Query: 20463 DLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQASRAWQPGVAMPNLYKMQRMLLE 20642
+L +SKVV V +D+ + FMLWC + V TFYP+LQA+ W+PG MP LYK +E
Sbjct: 2396 NLKCVSKVVNVNVDFKDFQFMLWCNEEKVMTFYPRLQAAADWKPGYVMPVLYKYLESPME 2455
Query: 20643 KCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGTA 20822
+ +L NYG+ +P G MMNVAKYTQLCQYL+T TLAVP NMRV+H GAGSDKGVAPG+A
Sbjct: 2456 RVNLWNYGKPITLPTGCMMNVAKYTQLCQYLSTTTLAVPANMRVLHLGAGSDKGVAPGSA 2515
Query: 20823 VLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTANKWDLIISDMYDPRTKHVTKEN 21002
VLRQWLP+G++LVD+D+N FVSD+ ++ G+C T+ +WDLIISDMYDP TK++ + N
Sbjct: 2516 VLRQWLPSGSILVDNDMNPFVSDSVASYYGNCITLPFDCQWDLIISDMYDPLTKNIGEYN 2575

RID=1050847486-011378-19709, gi|29826277|ref|NC_004718.1| SARS coronavirus, c... Page 72 <strong>of</strong> 201
http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
4/20/2003
Query: 21003 DSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYKLMGHFSWWTAFVTNVNASSSE 21182
SK+GFFTYLC I+ KLALGGS+A+KITE SWNA+LY LMG F++WT F TNVNASSSE
Sbjct: 2576 VSKDGFFTYLCHLIRDKLALGGSVAIKITEFSWNAELYSLMGKFAFWTIFCTNVNASSSE 2635
Query: 21183 AFLIGANYLGKPKEQIDGYTMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSLK 21362
FLIG N+L + + +IDG TMHANY+FWRN+ +YSLFDM+KFPLK GTAV+SLK
Sbjct: 2636 GFLIGINWLNRTRNEIDGKTMHANYLFWRNSTMWNGGAYSLFDMTKFPLKAAGTAVVSLK 2695
Query: 21363 ENQINDMIYSLLEKGRLIIRENNRVVVSSDILVN 21464
+QIND++ SL+EKG+L++R+ + V D LVN
Sbjct: 2696 PDQINDLVLSLIEKGKLLVRDTRKEVFVGDSLVN 2729
>gi|74827|pir||VFIHJH
Length = 2731
genome polyprotein 1b - murine hepatitis virus (strain JHM)
Score = 3458 bits (8966), Expect = 0.0
Identities = 1668/2734 (61%), Positives = 2065/2734 (75%), Gaps = 38/2734 (1%)
Frame = +3
Query: 13377 FKRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNLL 13553
FKRV G S ARL PC +G TDV RAFDI N AG + K NC RFQ DEEGN L
Sbjct: 18 FKRVRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCFRFQRVDEEGNKL 77
Query: 13554 DSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMAD 13733
D +FVVKR + Y E+ Y L KDC VA H+FF F V+G VPHI R+ L+K+TM D
Sbjct: 78 DKFFVVKRTNLEVYNKEKECYELTKDCGVVAEHEFFTFDVEGSRVPHIVRKDLSKFTMLD 137
Query: 13734 LVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQSL 13913
L YALRHFD +C TLKEIL+TY CD+ YF KKDWYDFVENPDI+ VY LG ++L
Sbjct: 138 LCYALRHFDRNDCSTLKEILLTYAECDESYFQKKDWYDFVENPDIINVYKKLGPIFNRAL 197
Query: 13914 LKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPILT 14093
L T F D + +AG+VGVLTLDNQDL G WYDFGDFV+ P CGV + DSYYS +MP+LT
Sbjct: 198 LNTANFADTLVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPCCGVAVADSYYSYMMPMLT 257
Query: 14094 LTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDRC 14273
+ AL +E ++ + +DL++YDFT+ +L LF++YFK+W TYHPN C DDRC
Sbjct: 258 MCHALDSELFVNGTYRE----FDLVQYDFTDFKLELFNKYFKHWSMTYHPNTSECEDDRC 313
Query: 14274 ILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRL 14453
I+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H RL
Sbjct: 314 IIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVDTHRYRL 373
Query: 14454 SFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSK 14633
S K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY+F +SK
Sbjct: 374 SLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYEFILSK 433
Query: 14634 GFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGG 14813
G KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFVVEVV+KYF+ Y+GG
Sbjct: 434 GLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVVEVVNKYFEIYEGG 493
Query: 14814 CINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKY 14993
CI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNLKY
Sbjct: 494 CIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNLKY 553
Query: 14994 AISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVY 15173
AISAKNRARTVAGVSI STMT R FHQK LKSIAATRG VVIGT+KFYGGW +ML+ +
Sbjct: 554 AISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRRLI 613

RID=1050847486-011378-19709, gi|29826277|ref|NC_004718.1| SARS coronavirus, c... Page 73 <strong>of</strong> 201
http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
4/20/2003
Query: 15174 SDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEM 15353
DV++P LMGWDYPKCDRAMPN+LRI++SLVLARKH++CC+ + RFYRLANECAQVL E+
Sbjct: 614 KDVDSPVLMGWDYPKCDRAMPNILRIVSSLVLARKHDSCCSHTDRFYRLANECAQVLGEI 673
Query: 15354 VMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHR 15533
VMCGG YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D +R LQ R
Sbjct: 674 VMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQKR 733
Query: 15534 LYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAVL 15713
LY +YR VD FV E+Y +L KHFSM+ILSDD VVCYNS +A++G +A+I +F+ VL
Sbjct: 734 LYSNVYRADHVDPAFVSEYYEFLNKHFSMIILSDDGVVCYNSEFASKGYIANISDFQQVL 793
Query: 15714 YYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDD 15893
YYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK D VYLPYPDPSRILGAGCFVDD
Sbjct: 794 YYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGAGCFVDD 853
Query: 15894 IVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVM 16073
++KTD L+IERFVSLAIDAYPL H N EY +VF +YL+YI+KL+++L +LD SV+
Sbjct: 854 LLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQILDSISVI 913
Query: 16074 LTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHV 16253
L+ + ++ + FY+ MY V+Q+VGACV+C+SQTSLRCG+CIR+P LCCKC YDHV
Sbjct: 914 LSTCDGQKFTDETFYKNMYLRSAVMQSVGACVVCSSQTSLRCGSCIRKPLLCCKCAYDHV 973
Query: 16254 ISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLYK 16433
+ST HK VLSV+PYVCN+PGCDV DVT+LYLGGMSYYC++HKP SF L NG VFGLYK
Sbjct: 974 MSTDHKYVLSVSPYVCNSPGCDVNDVTKLYLGGMSYYCEAHKPQYSFKLVMNGMVFGLYK 1033
Query: 16434 NTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIATV 16613
+C GS + DFN IA+C WT DY+LAN CTERLKLFAAET KATEE FK Y AT+
Sbjct: 1034 QSCTGSPYIEDFNKIASCKWTEVDDYVLANECTERLKLFAAETQKATEEAFKQCYASATI 1093
Query: 16614 REVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRGT 16793
RE++SDREL LSWE+GK RPPLN+NYVFTGY T N K +GEY F+K + + V YR T
Sbjct: 1094 REIVSDRELILSWEIGKVRPPLNKNYVFTGYHFTNNGKTVLGEYVFDKSELTNGVYYRAT 1153
Query: 16794 TTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHY--VRITGLYPTLNISDEFSSNVANYQKV 16967
TTYKL+VGD F+LTSH V LSAPTLVPQE+Y VR Y ++ + F +NV NYQ +
Sbjct: 1154 TTYKLSVGDVFILTSHAVSSLSAPTLVPQENYTSVRFASAY---SVPETFQNNVPNYQHI 1210
Query: 16968 GMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCSR 17147
G+++Y T+QGPPGTGKSH AIG A+YY +AR+VYTA SHAAVDALCEKA K+L I+ C+R
Sbjct: 1211 GIKRYCTVQGPPGTGKSHLAIGHAVYYCTARVVYTAASHAAVDALCEKAHKFLNINDCAR 1270
Query: 17148 IIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARLR 17327
I+PA+ RV+C+DKF VN T +YVF T+NALPE DI+V DE+SM TNY+LSV+N+R+R
Sbjct: 1271 IVPAKLRVDCYDKFNVNDTTRKYVFTTINALPELVTDIIVVDEVSMLTNYELSVINSRVR 1330
Query: 17328 AKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDTV 17507
AKHYVYIGDPAQLPAPR LL KGTLEP YFNSV +LM +GPD+FLGTC RCP EIVDTV
Sbjct: 1331 AKHYVYIGDPAQLPAPRVLLNKGTLEPRYFNSVTKLMCCLGPDIFLGTCYRCPKEIVDTV 1390
Query: 17508 SALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVFI 17687
SALVY+NKLKA D SA CFK++YKG TH+ SSA+N QI ++ + L NP+W AVFI
Sbjct: 1391 SALVYNNKLKAKNDNSAMCFKVYYKGQTTHESSSAVNMQQIHLISKLLKANPSWSNAVFI 1450
Query: 17688 SPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKIGI 17867
SPYNSQN VA ++LGL TQT DS+QGS YD+VI++QT +TAHS NVNRFNVAITRAK GI
Sbjct: 1451 SPYNSQNYVAKRVLGLQTQTADSAQGSAYDFVIYSQTAQTAHSVNVNRFNVAITRAKKGI 1510

RID=1050847486-011378-19709, gi|29826277|ref|NC_004718.1| SARS coronavirus, c... Page 74 <strong>of</strong> 201
http://www.ncbi.nlm.nih.gov/blast/<strong>Blast</strong>.cgi
4/20/2003
Query: 17868 LCIMSDRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKIITGLHPTQAPTHLSVDI 18047
LC+MS L FT+L + + N LQ T LFKDCSK G+ P L+VD
Sbjct: 1511 LCVMSSMQLIGVFNFTTLTLDKINNPRLQC--TTNLFKDCSKSYVGIPP--CAFLLAVDD 1566
Query: 18048 KFKTEG-LCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGFD 18224
K+K G L V + +TY RLIS+MGFK++ ++GY +FITR+EAI+ VRAW+GFD
Sbjct: 1567 KYKVSGNLAVCLNVADSAVTYSRLISLMGFKLDLTLDGYCKLFITRDEAIKRVRAWVGFD 1626
Query: 18225 VEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQFKHLI 18404
EG HATRD++GTN PLQLGFSTG++ V TG + F + A+ PPG+QFKHL+
Sbjct: 1627 AEGAHATRDSIGTNFPLQLGFSTGIDFVVEATGMFAERDGYVFKKAAARAPPGEQFKHLV 1686
Query: 18405 PLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCLC 18584
PLM +G W+VVRI+IVQMLSD L L+D VV V WA FELT ++YF K+G E C +C
Sbjct: 1687 PLMSRGQKWDVVRIRIVQMLSDHLVDLADSVVLVTWAASFELTCLRYFAKVGKEVVCSVC 1746
Query: 18585 DKRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHGNAHVA 18764
+KRATCF++ + Y CW HS DY+YNP ++D+QQWG+TG+L SNHD C VH AHVA
Sbjct: 1747 NKRATCFNSRTGYYGCWRHSYSCDYLYNPLIVDIQQWGYTGSLTSNHDPICSVHKGAHVA 1806
Query: 18765 SCDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADKFPVLH 18944
S DAIMTRCLAVH+CF K V+W++EYPII +E+ VN++CR +Q ++ ++A+L +++ V +
Sbjct: 1807 SSDAIMTRCLAVHDCFCKSVNWNLEYPIISNEVSVNTSCRLLQRVMFRAAMLCNRYDVCY 1866
Query: 18945 DIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFWNCNVD 19124
DIGNPK + CV ++KFYDA P +++ Y Y H D+F DG+C+FWNCNVD
Sbjct: 1867 DIGNPKGLACV--KGYDFKFYDASPV---VKSVKQFVYKYEAHKDQFLDGLCMFWNCNVD 1921
Query: 19125 RYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFFYYSDS 19304
+YPANA+VCRFDTRVLS LNLPGC+GGSLYVNKHAFHT F ++AF NLK +PFFYYSD+
Sbjct: 1922 KYPANAVVCRFDTRVLSKLNLPGCNGGSLYVNKHAFHTNPFTRAAFENLKPMPFFYYSDT 1981
Query: 19305 PCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAGFSLWI 19484
PC +DYVPL+SATCITRCNLGGAVC HA EYR+YL++YN +AGF+ W+
Sbjct: 1982 PCVYMEGMESKQVDYVPLRSATCITRCNLGGAVCLKHAEEYREYLESYNTATTAGFTFWV 2041
Query: 19485 YKQFDTYNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGIDVEIF 19664
YK FD YNLWNTFTRLQSLENV YN+VN GHFDG AGE P ++I V K+ DV +F
Sbjct: 2042 YKTFDFYNLWNTFTRLQSLENVVYNLVNAGHFDGRAGELPCAVIGEKVIAKIQNEDVVVF 2101
Query: 19665 ENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKREAPAHVSTIGVCT 19844
+N T P NVA EL+A+R+I+P PE+K+ + + + N V+WDY +++ ST VC
Sbjct: 2102 KNNTPFPTNVAVELFAERSIRPHPELKLFRSSNIHVCWNHVLWDYAKDSVFCSSTYKVCK 2161
Query: 19845 MTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGLTPSKGPAQASVN 20024
TD+ SL VLFDGR G ++ F+ RNGV I +K L+ KGP +A +N
Sbjct: 2162 YTDL------QCIESLNVLFDGRDNGALEAFKKCRNGVYINTTKIKSLSMIKGPQRADLN 2215
Query: 20025 GVTL--IGES-VKTQFNYFKKVDGII-----------QQLPE------------------ 20108
GV + +G+S V+ F + D +I + P+
Sbjct: 2216 GVVVEKVGDSDVEFWFAMRRDGDDVIFSRTGSLEPSHYRSPQGNPGGNRVGDLSGNEALA 2275
Query: 20109 --TYFTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLEGYAFEHIVYGDFSHGQLGGLH 20282
T FTQSR L F PRS+ME DF++L D FI +Y L+ YAFEH+VYG F+ +GGLH
Sbjct: 2276 RGTIFTQSRFLSSFSPRSEMEKDFMDLDEDVFIAKYSLQDYAFEHVVYGSFNQKIIGGLH 2335
Query: 20283 LMIGLAKRSQDSPLKLEDFIPMDSTVKNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKSQ 20462
L+IGLA+R + S L +++F+P DS++ +YFITD +GSS+ VC+VIDLLLDDFV+I+KS
Sbjct: 2336 LLIGLARRPKKSNLVIQEFVPYDSSIHSYFITDENSGSSESVCTVIDLLLDDFVDIVKSL 2395

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Query: 20463 DLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQASRAWQPGVAMPNLYKMQRMLLE 20642
+L +SKVV V +D+ + FMLWC + V TFYP+LQA+ W+PG MP LYK +E
Sbjct: 2396 NLKCVSKVVNVNVDFKDFQFMLWCNEEKVMTFYPRLQAAADWKPGYVMPVLYKYLESPME 2455
Query: 20643 KCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGTA 20822
+ +L NYG+ +P G MMNVAKYTQLCQYL+T TLAVP NMRV+H GAGSDKGVAPG+A
Sbjct: 2456 RVNLWNYGKPITLPTGCMMNVAKYTQLCQYLSTTTLAVPANMRVLHLGAGSDKGVAPGSA 2515
Query: 20823 VLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTANKWDLIISDMYDPRTKHVTKEN 21002
VLRQWLP+G++LVD+D+N FVSD+ ++ G+C T+ +WDLIISDMYDP TK++ + N
Sbjct: 2516 VLRQWLPSGSILVDNDMNPFVSDSVASYYGNCITLPFDCQWDLIISDMYDPLTKNIGEYN 2575
Query: 21003 DSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYKLMGHFSWWTAFVTNVNASSSE 21182
SK+GFFTYLC I+ KLALGGS+A+KITE SWNA+LY LMG F++WT F TNVNASSSE
Sbjct: 2576 VSKDGFFTYLCHLIRDKLALGGSVAIKITEFSWNAELYSLMGKFAFWTIFCTNVNASSSE 2635
Query: 21183 AFLIGANYLGKPKEQIDGYTMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSLK 21362
FLIG N+L + + +IDG TMHANY+FWRN+ +YSLFDM+KFPLK GTAV+SLK
Sbjct: 2636 GFLIGINWLNRTRNEIDGKTMHANYLFWRNSTMWNGGAYSLFDMTKFPLKAAGTAVVSLK 2695
Query: 21363 ENQINDMIYSLLEKGRLIIRENNRVVVSSDILVN 21464
+QIND++ SL+EKG+L++R+ + V D LVN
Sbjct: 2696 PDQINDLVLSLIEKGKLLVRDTRKEVFVGDSLVN 2729
>gi|17529672|gb|AAL40397.1|AF220295_2
Length = 2685
RNA polymerase 1b [bovine coronavirus]
Score = 3357 bits (8704), Expect = 0.0
Identities = 1635/2682 (60%), Positives = 2007/2682 (74%), Gaps = 53/2682 (1%)
Frame = +3
Query: 13377 FKRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNLL 13553
FKRV G S ARL PC +G STDV RAFDI N VAG LK NCCRFQ DE G+ L
Sbjct: 2 FKRVRGTSVDARLVPCASGLSTDVQLRAFDICNASVAGIGLHLKVNCCRFQRVDENGDKL 61
Query: 13554 DSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMAD 13733
D +FVVKR ++ Y E Y VKDC VA HDFF F V+G VPHI R+ LTKYTM D
Sbjct: 62 DQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKDLTKYTMLD 121
Query: 13734 LVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQSL 13913
L YALRHFD +C L +IL Y C+ YF KKDWYDFVENPDI+ VY LG ++L
Sbjct: 122 LCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKLGPIFNRAL 181
Query: 13914 LKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPILT 14093
+ +F D + + G+VG+LTLDNQDLNG WYDFGD+V APGCGV I DSYYS +MP+LT
Sbjct: 182 VSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYYSYMMPMLT 241
Query: 14094 LTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDRC 14273
+ AL E +++ +DL++YDFT+ +L LF++YFK+W YHPN ++C DDRC
Sbjct: 242 MCHALDCELYVN----NAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNTVDCQDDRC 297
Query: 14274 ILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRL 14453
I+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELG+V N DV+ H RL
Sbjct: 298 IIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMDVDTHRYRL 357
Query: 14454 SFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSK 14633
S K+LL+YAADPA+H AS + L D RT CFSVAA+T+ V FQTVKPGNFN+DFYDF +SK

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Sbjct: 358 SLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYDFILSK 417
Query: 14634 GFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGG 14813
G KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF+ YDGG
Sbjct: 418 GLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYFEIYDGG 477
Query: 14814 CINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKY 14993
CI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNLKY
Sbjct: 478 CIPAAQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNLKY 537
Query: 14994 AISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVY 15173
AISAKNRARTVAGVSI STMT R FHQK LKSIAATRG VVIGT+KFYGGW +ML+ +
Sbjct: 538 AISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRRLI 597
Query: 15174 SDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEM 15353
DV+ P LMGWDYPKCDRAMPN+LRI++SLVLARKH CC+ S RFYRLANECAQVLSE+
Sbjct: 598 KDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACCSQSDRFYRLANECAQVLSEI 657
Query: 15354 VMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHR 15533
VMCGG YVKPGGTSSGDATTA+ANSVFNICQAV+ANV AL+S +GNKI D +R LQ R
Sbjct: 658 VMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDLSIRALQKR 717
Query: 15534 LYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAVL 15713
LY +YR+ VD FV E+Y +L KHFSMMILSDD VVCYNS+YA++G +A+I F+ VL
Sbjct: 718 LYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIANISAFQQVL 777
Query: 15714 YYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDD 15893
YYQNNVFMSE+KCW E D+ GPHEFCSQHTMLVK D VYLPYP PSRILGAGCFVDD
Sbjct: 778 YYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDDVYLPYPVPSRILGAGCFVDD 837
Query: 15894 IVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVM 16073
++KTD L+IERFVSLAIDAYPL H N+EY VF +YL+YI+KL++EL +LD YSV+
Sbjct: 838 LLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNELGNQILDSYSVI 897
Query: 16074 LTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHV 16253
L+ + ++ + FY+ MY V+Q+VGACV+C+SQTSLRCG+CIR+P LCCKCCYDHV
Sbjct: 898 LSTCDGQKFTDESFYKNMYLRSAVMQSVGACVVCSSQTSLRCGSCIRKPLLCCKCCYDHV 957
Query: 16254 ISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLYK 16433
++T HK VLSV+PYVCNAPGCDV DVT+LYLGGMSYYC+ HKP SF L NG VFGLYK
Sbjct: 958 MATDHKYVLSVSPYVCNAPGCDVNDVTKLYLGGMSYYCEDHKPQYSFKLVMNGMVFGLYK 1017
Query: 16434 NTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIATV 16613
+C GS + DFN IA+C WT+ DYILAN CTERLKLFAAET KATEE FK SY AT+
Sbjct: 1018 QSCTGSPYIDDFNRIASCKWTDVDDYILANECTERLKLFAAETQKATEEAFKQSYASATI 1077
Query: 16614 REVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRGT 16793
+E++S+REL LSWE+GK +PPLN+NYVFTGY TKN K +GEY F+K + + V YR T
Sbjct: 1078 QEIVSERELILSWEIGKVKPPLNKNYVFTGYHFTKNGKTVLGEYVFDKSELTNGVYYRAT 1137
Query: 16794 TTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHY--VRITGLYPTLNISDEFSSNVANYQKV 16967
TTYKL+VGD FVLTSH+V LSAPTLVPQE+Y +R +Y L + F +NV NYQ +
Sbjct: 1138 TTYKLSVGDVFVLTSHSVANLSAPTLVPQENYSSIRFASVYSVL---ETFQNNVVNYQHI 1194
Query: 16968 GMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCSR 17147
GM++Y T+QGPPGTGKSH AIGLA+YY +AR+VYTA SHAAVDALCEKA K+L I+ C+R
Sbjct: 1195 GMKRYCTVQGPPGTGKSHLAIGLAVYYCTARVVYTAASHAAVDALCEKAYKFLNINDCTR 1254
Query: 17148 IIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARLR 17327
I+PA+ RVEC+DKFK+N T +YVF T+NALPE DIVV DE+SM TNY+LSV+NAR+R

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Sbjct: 1255 IVPAKVRVECYDKFKINDTTRKYVFTTINALPEMVTDIVVVDEVSMLTNYELSVINARIR 1314
Query: 17328 AKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDTV 17507
AKHYVYIGDPAQLPAPR LL+KGTLEP+YFN+V +LM +GPD+FLGTC RCP EIVDTV
Sbjct: 1315 AKHYVYIGDPAQLPAPRVLLSKGTLEPKYFNTVTKLMCCLGPDIFLGTCYRCPKEIVDTV 1374
Query: 17508 SALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVFI 17687
SALVY+NKLKA + S+ CFK++YKGV TH+ SSA+N QI ++ +FL NP W KAVFI
Sbjct: 1375 SALVYENKLKAKNESSSLCFKVYYKGVTTHESSSAVNMQQIYLINKFLKANPLWHKAVFI 1434
Query: 17688 SPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKIGI 17867
SPYNSQN A ++LGL TQTVDS+QGSEYDYVI++QT ETAHS NVNRFNVAITRAK GI
Sbjct: 1435 SPYNSQNFAAKRVLGLQTQTVDSAQGSEYDYVIYSQTAETAHSVNVNRFNVAITRAKKGI 1494
Query: 17868 LCIMSDRDLYDKLQFTSLEIPR-RNVATLQAENVTGLFKDCSKIITGLHPTQAPTHLSVD 18044
LC+MS+ L++ LQFT+L + + + + T LFKDCSK +G HP AP+ L+VD
Sbjct: 1495 LCVMSNMQLFEALQFTTLTVDKVPQAVETRVQCSTNLFKDCSKSYSGYHPAHAPSFLAVD 1554
Query: 18045 IKFKTEGLCVDIPGI-PKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGF 18221
K+K G GI +TY RLIS+MGFK++ ++GY +FIT+EEA++ VRAW+GF
Sbjct: 1555 DKYKATGDLAVCLGIGDSAVTYSRLISLMGFKLDVTLDGYCKLFITKEEAVKRVRAWVGF 1614
Query: 18222 DVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQFKHL 18401
D EG HATRD++GTN PLQLGFSTG++ V TG + F + AK PPG+QFKHL
Sbjct: 1615 DAEGAHATRDSIGTNFPLQLGFSTGIDFVVEATGLFADRDGYSFKKAVAKAPPGEQFKHL 1674
Query: 18402 IPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCL 18581
IPLM +G W+VVR +IVQM +D L LSD VV V WA FELT ++YF K+G E +C +
Sbjct: 1675 IPLMTRGQRWDVVRPRIVQMFADHLIDLSDCVVLVTWAANFELTCLRYFAKVGREISCNV 1734
Query: 18582 CDKRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHGNAHV 18761
KRAT +++ + Y CW HSV DY+YNP ++D+QQWG+ G+L SNHD +C VH AHV
Sbjct: 1735 STKRATAYNSRTGYYGCWRHSVTCDYLYNPLIVDIQQWGYIGSLSSNHDLYCSVHKGAHV 1794
Query: 18762 ASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADKFPVL 18941
AS DAIMTRCLAV++CF ++W+VEYPII +EL +N++CR +Q +++K+A+L +++ +
Sbjct: 1795 ASSDAIMTRCLAVYDCFCNNINWNVEYPIISNELSINTSCRVLQRVMLKAAMLCNRYTLC 1854
Query: 18942 HDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFWNCNV 19121
+DIGNPKAI CV + ++KFYDAQP ++ L Y + H D F DG+C+FWNCNV
Sbjct: 1855 YDIGNPKAIACV--KDFDFKFYDAQPI---VKSVKTLLYFFEAHKDSFKDGLCMFWNCNV 1909
Query: 19122 DRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFFYYSD 19301
D+YP NA+VCRFDTRVL+NLNLPGC+GGSLYVNKHAFHT F ++AF +LK +PFFYYSD
Sbjct: 1910 DKYPPNAVVCRFDTRVLNNLNLPGCNGGSLYVNKHAFHTKPFSRAAFEHLKPMPFFYYSD 1969
Query: 19302 SPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAGFSLW 19481
+PC +DYVPLKSATCITRCNLGGAVC HA EYR+YL++YN +AGF+ W
Sbjct: 1970 TPCVYMDGMDAKQVDYVPLKSATCITRCNLGGAVCLKHAEEYREYLESYNTATTAGFTFW 2029
Query: 19482 IYKQFDTYNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGIDVEI 19661
+YK FD YNLWNTFT+LQSLENV YN+V GH+ G AGE P +IIN+ V K+D DV I
Sbjct: 2030 VYKTFDFYNLWNTFTKLQSLENVVYNLVKTGHYTGQAGEMPCAIINDKVVAKIDKEDVVI 2089
Query: 19662 FENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKREAPAHVSTIGVC 19841
F N TT P NVA EL+AKR+I+ PE+K+ NL +D+ VIWDY RE+ +T GVC
Sbjct: 2090 FINNTTYPTNVAVELFAKRSIRHHPELKLFRNLNIDVCWKHVIWDYARESIFCSNTYGVC 2149
Query: 19842 TMTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGLTPSKGPAQASV 20021
TD+ L VLFDGR G ++ F+ + NGV I+ VK L+ +GP +A +

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Sbjct: 2150 MYTDL------KLIDKLNVLFDGRDNGALEAFKRSNNGVYISTTKVKSLSMIRGPPRAEL 2203
Query: 20022 NGVTL--IGES---------------VKTQFNYFK-----------------KVDGIIQQ 20099
NGV + +G++ + +QF+ + V G
Sbjct: 2204 NGVVVDKVGDTDCVFYFAVRKEGQDVIFSQFDSLRVSSNQSPQGNLGSNEPGNVGGNDAL 2263
Query: 20100 LPETYFTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLEGYAFEHIVYGDFSHGQLGGL 20279
T FTQSR + F R+ ME DF+ L D FIQ+Y LE YAFEHIVYG+F+ +GGL
Sbjct: 2264 ATSTIFTQSRVISSFTCRTDMEKDFIALDQDVFIQKYGLEDYAFEHIVYGNFNQKIIGGL 2323
Query: 20280 HLMIGLAKRSQDSPLKLEDFIPMDSTVKNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKS 20459
HL+IGL +R Q S L +++F+ DS++ +YFITD ++G SK VC+VID+LLDDFV ++KS
Sbjct: 2324 HLLIGLYRRQQTSNLVIQEFVSYDSSIHSYFITDEKSGGSKSVCTVIDILLDDFVALVKS 2383
Query: 20460 QDLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQASRAWQPGVAMPNLYKMQRMLL 20639
+L+ +SKVV V +D+ + FMLWC D V TFYP+LQA+ W+PG +MP LYK +
Sbjct: 2384 LNLNCVSKVVNVNVDFKDFQFMLWCNDEKVMTFYPRLQAASDWKPGYSMPVLYKYLNSPM 2443
Query: 20640 EKCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGT 20819
E+ L NYG+ +P G MMNVAKYTQLCQYLNT TLAVP N RV+H GAGS+KGVAPG+
Sbjct: 2444 ERVSLWNYGKPVTLPTGCMMNVAKYTQLCQYLNTTTLAVPVNTRVLHLGAGSEKGVAPGS 2503
Query: 20820 AV----------LRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTANKWDLIISDMY 20969
AV LRQWLP GT+LV +DL FVSD+ +T GDC T+ +WDLIISDMY
Sbjct: 2504 AVLRQWLPAGTILRQWLPAGTILVHNDLYPFVSDSVATYFGDCITLPFDCQWDLIISDMY 2563
Query: 20970 DPRTK---HVTKENDSKEGFFTYL-CGFIKQKLALGGSIAVKITEHSWNADLYKLMGHFS 21137
D HV + +Y+ C I+ KLALGGS+A+KITE SWNA+LYKLMG+F+
Sbjct: 2564 DLLLDIGVHVVR--------CSYIHCHMIRDKLALGGSVAIKITEFSWNAELYKLMGYFA 2615
Query: 21138 WWTAFVTNVNASSSEAFLIGANYLGKPKEQIDGYTMHANYIF 21263
+WT F TN NASSSE FLIG NYLGKPK +IDG MHA F
Sbjct: 2616 FWTVFCTNANASSSEGFLIGINYLGKPKVEIDGNVMHAIICF 2657
>gi|19387582|ref|NP_598309.1| Pol1 [porcine epidemic diarrhea virus]
gi|13752450|gb|AAK38661.1| Pol1 [porcine epidemic diarrhea virus]
Length = 6781
Score = 3070 bits (7958), Expect(2) = 0.0
Identities = 1515/2705 (56%), Positives = 1935/2705 (71%), Gaps = 8/2705 (0%)
Frame = +3
Query: 13374 VFKRVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNLL 13553
+FKRV G SAARL PC GT T VYRAFDIYN+ VA KFLK NC R + D+
Sbjct: 4106 LFKRVRGSSAARLEPCN-GTDTQHVYRAFDIYNKDVACLGKFLKVNCVRLKNLDKH---- 4160
Query: 13554 DSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMAD 13733
D+++VVKR T S +HE++IY+ ++ C A+A HDFF ++ + ++ R+ LT+YTM D
Sbjct: 4161 DAFYVVKRCTKSAMEHEQSIYSRLEKCGAIAEHDFFTWKDGRAIYGNVCRKDLTEYTMMD 4220
Query: 13734 LVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQSL 13913
L YALR+FDE NCD LK IL+ C++ YFN K W+D VEN DI RVYA LG V +++
Sbjct: 4221 LCYALRNFDENNCDVLKSILIKVGACEESYFNNKVWFDPVENEDIHRVYALLGTIVARAM 4280
Query: 13914 LKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPILT 14093
LK V+FCDAM + GIVGV+TLDNQDLNG++YDFGDF G GVPI SYYS +MP++
Sbjct: 4281 LKCVKFCDAMVEQGIVGVVTLDNQDLNGDFYDFGDFTCSIKGMGVPICTSYYSYMMPVMG 4340

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Query: 14094 LTRALAAESHMDADL-AKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDR 14270
+T LA+E + +D+ + +DLL+YDFTE + LF++YFKYW YHPNC++C D++
Sbjct: 4341 MTNCLASECFVKSDIFGEDFKSYDLLEYDFTEHKTALFNKYFKYWGLQYHPNCVDCSDEQ 4400
Query: 14271 CILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSR 14450
CI+HCANFN LFST P T+FGPL RK ++DGVP V + GYHF++LG+V N D+NLHSSR
Sbjct: 4401 CIVHCANFNTLFSTTIPITAFGPLCRKCWIDGVPLVTTAGYHFKQLGIVWNNDLNLHSSR 4460
Query: 14451 LSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVS 14630
LS ELL + +DPA+ AS L+D+RT CFSVAAL + QTVKPG+FNK+FYDF +
Sbjct: 4461 LSINELLQFCSDPALLIASSPALVDQRTVCFSVAALGTGMTNQTVKPGHFNKEFYDFLLE 4520
Query: 14631 KGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDG 14810
+GFF EGS + LKHFFFAQ +AA+ D+DYYRYN PT+ DI Q V ++V +YFD Y+G
Sbjct: 4521 QGFFSEGSELTLKHFFFAQKVDAAVKDFDYYRYNRPTVLDICQARVVYQIVQRYFDIYEG 4580
Query: 14811 GCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLK 14990
GCI A +V+V NL+KSAG+P NK+GKA LYY+S+SYE+QD L+AYTKRN++PT+TQ+NLK
Sbjct: 4581 GCITAKEVVVTNLNKSAGYPLNKFGKAGLYYESLSYEEQDELYAYTKRNILPTMTQLNLK 4640
Query: 14991 YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTV 15170
YAIS K RARTV GVS+ STMT RQ+HQK LKSI TRGA+VVIGT+KFYGGW NMLK +
Sbjct: 4641 YAISGKERARTVGGVSLLSTMTTRQYHQKHLKSIVNTRGASVVIGTTKFYGGWDNMLKNL 4700
Query: 15171 YSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSE 15350
VE P LMGWDYPKCDRA+PNM+R++++++L KH TCC+ + RF+RL NE AQVL+E
Sbjct: 4701 IDGVENPCLMGWDYPKCDRALPNMIRMISAMILGSKHTTCCSSTDRFFRLCNELAQVLTE 4760
Query: 15351 MVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQH 15530
+V G Y+KPGGT+SGDATTAYANSVFNI QAV+ANVN LLS D N + V+ LQ
Sbjct: 4761 VVYSNGGFYLKPGGTTSGDATTAYANSVFNIFQAVSANVNKLLSVDSNVCHNLEVKQLQR 4820
Query: 15531 RLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAV 15710
+LYEC YR+ VD +FV E+Y YLRKHFSMMILSDD VVCYN++YA+ G VA + FKAV
Sbjct: 4821 KLYECCYRSTIVDDQFVVEYYGYLRKHFSMMILSDDGVVCYNNDYASLGYVADLNAFKAV 4880
Query: 15711 LYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVD 15890
LYYQNNVFMS +KCW E D+ KGPHEFCSQHTM + + YLPYPDPSRIL AG FVD
Sbjct: 4881 LYYQNNVFMSASKCWIEPDINKGPHEFCSQHTMQIVDKEGTYYLPYPDPSRILSAGVFVD 4940
Query: 15891 DIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSV 16070
D+VKTD +++ER+VSLAIDAYPL+KH N EY VF++ L +++ L+ L +L+ +SV
Sbjct: 4941 DVVKTDAVVLLERYVSLAIDAYPLSKHENPEYKKVFYVLLDWVKHLYKTLNAGVLESFSV 5000
Query: 16071 MLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDH 16250
L D+T+++W+ FY MY VLQ+ G CV+C SQT LRCG C+RRP LC KC YDH
Sbjct: 5001 TLLEDSTAKFWDESFYANMYEKSAVLQSAGLCVVCGSQTVLRCGDCLRRPMLCTKCAYDH 5060
Query: 16251 VISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLY 16430
VI T+HK +L++ PYVC A C V DVT+LYLGG+SY+C HKP ++FPLC+ G VFGLY
Sbjct: 5061 VIGTTHKFILAITPYVCCASDCGVNDVTKLYLGGLSYWCHEHKPRLAFPLCSAGNVFGLY 5120
Query: 16431 KNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIAT 16610
KN+ GS +V DFN IAT DWT+ DY LAN + L+LFAAET+KA EE+ K SY AT
Sbjct: 5121 KNSATGSPDVEDFNRIATSDWTDVSDYRLANDVKDSLRLFAAETIKAKEESVKSSYACAT 5180
Query: 16611 VREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDY-GDAVVYR 16787
+ EV+ +EL L WEVG+P+PPLNRN VFT Y +TKN+K QIGE+ FEK +Y DAV Y+
Sbjct: 5181 LHEVVGPKELLLKWEVGRPKPPLNRNSVFTCYHITKNTKFQIGEFVFEKAEYDNDAVTYK 5240

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Query: 16788 GTTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHYVRITGLYPTLNISDEFSSNVANYQKV 16967
T T KL G FVLTSH V PL APT+ QE Y I L+P NI + +SS V YQ +
Sbjct: 5241 TTATTKLVPGMVFVLTSHNVQPLRAPTIANQERYSTIHKLHPAFNIPEAYSSLVPYYQLI 5300
Query: 16968 GMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCSR 17147
G QK +T+QGPPG+GKSH IGL LYYP ARIV+TACSHAAVD+LC KA DKCSR
Sbjct: 5301 GKQKITTIQGPPGSGKSHCVIGLGLYYPGARIVFTACSHAAVDSLCVKASTAYSNDKCSR 5360
Query: 17148 IIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARLR 17327
IIP RARVEC+D FK N+T QY+F TVNALPE ADIVV DE+SM TNYDLSV+N R+
Sbjct: 5361 IIPQRARVECYDGFKSNNTSAQYLFSTVNALPECNADIVVVDEVSMCTNYDLSVINQRIS 5420
Query: 17328 AKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDTV 17507
+H VY+GDP QLPAPR ++++GTLEP+ +N V + M + PD+FL C RCPAEIV TV
Sbjct: 5421 YRHVVYVGDPQQLPAPRVMISRGTLEPKDYNVVTQRMCALKPDVFLHKCYRCPAEIVRTV 5480
Query: 17508 SALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVFI 17687
S +VY+N+ S QCFK+F KG + D S+INR Q+ VVR FL +NP W KAVFI
Sbjct: 5481 SEMVYENQFIPVHPDSKQCFKIFCKGNVQVDNGSSINRRQLDVVRMFLAKNPRWSKAVFI 5540
Query: 17688 SPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKIGI 17867
SPYNSQN VAS++LGL QTVDSSQGSEYDYVI+ QT++TAH+ NVNRFNVAITRAK GI
Sbjct: 5541 SPYNSQNYVASRLLGLQIQTVDSSQGSEYDYVIYAQTSDTAHASNVNRFNVAITRAKKGI 5600
Query: 17868 LCIMSDRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKIITGLHPTQAPTHLSVDI 18047
LCIM DR L+D L+F L++ + LQA GLFKDCS+ L P+ A T +S+
Sbjct: 5601 LCIMCDRSLFDLLKFFELKL-----SDLQANEGCGLFKDCSRGDDLLPPSHANTFMSLAD 5655
Query: 18048 KFKTEGLCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGFDV 18227
FKT+ G+ + Y +IS MGF+ + + + +F TR+ A+R+VR W+GFDV
Sbjct: 5656 NFKTDQYLAVQIGVNGPIKYEHVISFMGFRFDINIPNHHTLFCTRDFAMRNVRGWLGFDV 5715
Query: 18228 EGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQFKHLIP 18407
EG H VGTN+PLQLGFS GV+ V P G V TE+ V A+ PPG+QF HL+P
Sbjct: 5716 EGAHVVGSNVGTNVPLQLGFSNGVDFVVRPEGCVVTESGDYIKPVRARAPPGEQFAHLLP 5775
Query: 18408 LMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCLCD 18587
L+ +G PW+VVR +IVQM SD L LSD ++FVLWA G ELT+M+YFVKIGP ++C C
Sbjct: 5776 LLKRGQPWDVVRKRIVQMCSDYLANLSDILIFVLWAGGLELTTMRYFVKIGPSKSCD-CG 5834
Query: 18588 KRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHGNAHVAS 18767
K ATC++++ TY C+ H++G DY+YNP+ ID+QQWG+ G+L NH +HC VH N HVAS
Sbjct: 5835 KVATCYNSALHTYCCFKHALGCDYLYNPYCIDIQQWGYKGSLSLNHHEHCNVHRNEHVAS 5894
Query: 18768 CDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADKFPVLHD 18947
DAIMTRCLA+H+CFVK VDWS+ YP IG+E +N + R VQ ++S L ++D
Sbjct: 5895 GDAIMTRCLAIHDCFVKNVDWSITYPFIGNEAVINKSGRIVQSHTMRSVLKLYNPKAIYD 5954
Query: 18948 IGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFWNCNVDR 19127
IGNPK I+C + +W +D P + ++ L Y Y TH DG+CLFWNCNVD
Sbjct: 5955 IGNPKGIRCA-VTDAKWFCFDKNPTNS---NVKTLEYDYITHGQ--FDGLCLFWNCNVDM 6008
Query: 19128 YPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFFYYSDSP 19307
YP ++VCRFDTR S LNL GC+GGSLYVN HAFHTPAFDK AF LK +PFF+Y D+
Sbjct: 6009 YPEFSVVCRFDTRCRSPLNLEGCNGGSLYVNNHAFHTPAFDKRAFAKLKPMPFFFYDDTE 6068
Query: 19308 CESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAGFSLWIY 19487
C+ ++ I+YVPL+++ CIT+CN+GGAVC H Y Y++AYN SAGF++W+
Sbjct: 6069 CD----KLQDSINYVPLRASNCITKCNVGGAVCSKHCAMYHSYVNAYNTFTSAGFTIWVP 6124

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Query: 19488 KQFDTYNLWNTFT-RLQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGIDVEIF 19664
FDTYNLW TF+ LQ LEN+A+NV+ KG F G GE PV+++N+ V + +D +F
Sbjct: 6125 TSFDTYNLWQTFSNNLQGLENIAFNVLKKGSFVGDEGELPVAVVNDKVLVRDGTVDTLVF 6184
Query: 19665 ENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKREAPAHVSTIGVCT 19844
NKT+LP NVAFEL+AKR + P I IL NLGV + VIWDY+ E P T VC
Sbjct: 6185 TNKTSLPTNVAFELYAKRKVGLTPPITILRNLGVVCTSKCVIWDYEAERPLTTFTKDVCK 6244
Query: 19845 MTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGLTPSKGPAQASVN 20024
TD + LFD + G ++ F +N VL++ +VK LT K +N
Sbjct: 6245 YTDFE--------GDVCTLFDNSIVGSLERFSMTQNAVLMSLTAVKKLTGIK-LTYGYLN 6295
Query: 20025 GVTLIGESVK--TQFNYFKKVDGIIQQLPETYFTQSRDLEDFKPRSQMETDFLELAMDEF 20198
GV + K T + Y +K +G + P+ YFTQ R DF PRS ME DFL + M F
Sbjct: 6296 GVPVNTHEDKPFTWYIYTRK-NGKFEDYPDGYFTQGRTTADFSPRSDMEKDFLSMDMGLF 6354
Query: 20<strong>199</strong> IQRYKLEGYAFEHIVYGDFSHGQLGGLHLMIGLAKRSQDSPLKLEDFIPM-DSTVKNYFI 20375
I +Y LE Y FEH+VYGD S LGGLHL+I + + LK+++F+ DST+K+ +
Sbjct: 6355 INKYGLEDYGFEHVVYGDVSKTTLGGLHLLISQVRLACMGVLKIDEFVSSNDSTLKSCTV 6414
Query: 20376 TDAQTGSSKCVCSVIDLLLDDFVEIIKSQDLSVISKVVKVTIDYAEISFMLWCKDGHVET 20555
T A SSK VC+ +DLLLDDFV I+KS DLSV+SKV +V +D +MLWCKD ++T
Sbjct: 6415 TYADNPSSKMVCTYMDLLLDDFVSILKSLDLSVVSKVHEVMVDCKMWRWMLWCKDHKLQT 6474
Query: 20556 FYPKLQASRAWQPGVAMPNLYKMQRMLLEKCDLQNYGENAVIPKGIMMNVAKYTQLCQYL 20735
FYP+LQAS W+ G +MP++YK+QRM LE C+L NYG +P GIM NV KYTQLCQYL
Sbjct: 6475 FYPQLQASE-WKCGYSMPSIYKIQRMCLEPCNLYNYGAGVKLPDGIMFNVVKYTQLCQYL 6533
Query: 20736 NTLTLAVPYNMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVDSDLNDFVSDAYSTLIGD 20915
N+ T+ VP++MRV+H GAGSDKGVAPGTAVLR+WLP ++VD+D D+VSDA ++ GD
Sbjct: 6534 NSTTMCVPHHMRVLHLGAGSDKGVAPGTAVLRRWLPLDAIIVDNDSVDYVSDADYSVTGD 6593
Query: 20916 CATVHTANKWDLIISDMYDPRTKHVTKENDSKEGFFTYLCGFIKQKLALGGSIAVKITEH 21095
C+T++ ++K+DL+ISDMYD + K EN SKEGFF Y+ G I +KLALGG++A+K+TE
Sbjct: 6594 CSTLYLSDKFDLVISDMYDGKIKSCDGENVSKEGFFPYINGVITEKLALGGTVAIKVTEF 6653
Query: 21096 SWNADLYKLMGHFSWWTAFVTNVNASSSEAFLIGANYLG--KPKEQIDGYTMHANYIFWR 21269
SWN LY+L+ F +WT F T+VN SSSEAFLIG +YLG IDG TMHANYIFWR
Sbjct: 6654 SWNKKLYELIQKFEYWTMFCTSVNTSSSEAFLIGVHYLGDFASGAVIDGNTMHANYIFWR 6713
Query: 21270 NTNPIQLSSYSLFDMSKFPLKLRGTAVMSLKENQINDMIYSLLEKGRLIIRENNRVVVSS 21449
N+ + +S S+ D+SKF K + T V++LK++ I+D++ LL+ G+L++R N+ + S
Sbjct: 6714 NSTIMTMSYNSVLDLSKFNCKHKATVVVNLKDSSISDVVLGLLKNGKLLVRNNDAICGFS 6773
Query: 21450 DILVN 21464
+ LVN
Sbjct: 6774 NHLVN 6778
Score = 1079 bits (2791), Expect(2) = 0.0
Identities = 716/2177 (32%), Positives = 1077/2177 (49%), Gaps = 35/2177 (1%)
Frame = +1
Query: 6952 GAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETI---------- 7101
G+P C+ V Y NSS ++C S C +CL G L + + +
Sbjct: 2050 GSP-VCDDVVAGYANSS-FDKNEYCN-SVICKVCLYGYQELSDFSHTQVVWQHLRDPLIG 2106
Query: 7102 QVTISSYKLDLTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMWF 7281
V Y L I G +V A L+ F YL L VF G S +WF

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Sbjct: 2107 NVMPFFYLAFLAIFG--GVYVKAITLYFIFQYLNSLG----VFLGLQQS--------IWF 2152
Query: 7282 IISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIV 7461
+ Q+ P + F + H+ GC ++C+ C K R RV TI
Sbjct: 2153 L----QLVPFDVFGDEIVVFFIVTRVLMFIKHVCLGCDKASCVACSKSARLKRVPVQTIF 2208
Query: 7462 NGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQS 7641
G +SFYV+ANGG FCK HN+ CLNCD++ G TFI+D +A ++ K + PT +
Sbjct: 2209 QGTSKSFYVHANGGSKFCKKHNFFCLNCDSYGPGCTFINDVIATEVGNVVKLNVQPTGPA 2268
Query: 7642 SYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKS 7821
+ ++D V NG +LY K S + + L+ S+ + IVF+
Sbjct: 2269 TILIDKVEFSNGFYYLYSGDTFWKYNFDITDSKYTCKEALK----NCSIITDFIVFNNNG 2324
Query: 7822 KCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPME 8001
+ + K+A VY+SQ++C+P+ L+D AL++ + S + + A+V S +F +
Sbjct: 2325 S-NVNQVKNACVYFSQMLCKPVKLVDSALLASL--SVDFGASLHSAFVSVLSNSFGKDLS 2381
Query: 8002 KLKALVATAHSELAKGVALDGV-LSTFVSAARQGXXXXXXXXXXXIECLKLSHHSDLEVT 8178
+ + + D V L TF +A + +H D+ +T
Sbjct: 2382 SCNDM-----QDCKSTLGFDDVPLDTFNAAVAE------------------AHRYDVLLT 2418
Query: 8179 GDSCNNFMLTYNKVENMTP-RDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQL 8355
S NNF +Y K E P D+ C+ A+ +N V ++ ++W V+D+++LSE+
Sbjct: 2419 DMSFNNFTTSYAKPEEKFPVHDIATCMRVGAKIVNHNVLVKDSIPVVWLVRDFIALSEET 2478
Query: 8356 RKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVSTCFKLMLKATXXXXXXXX 8535
RK I K I F LT R + T I+ K G + + K+
Sbjct: 2479 RKYIIRTTKVKGITFMLTFNDCRMHTTIPTVCIANKKGAGLPSFSKVK------KFFWFL 2532
Query: 8536 XXYIVMPVHTLSIHDGYT----NEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAWFSQR 8703
+IV LS D T + +K I+ G + + C N FD W +
Sbjct: 2533 CLFIVAAFFALSFLDFSTQVSSDSDYDFKYIESGQLKTFDNPLSCVHNVFINFDQWHDAK 2592
Query: 8704 GG-SYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICYTPS 8880
G + N+ SCP+V + + VPG+P V A G L F +C+ S
Sbjct: 2593 FGFTPVNNPSCPIVVGV--SDEARTVPGIPAGVYLA--GKTLVFAINTIFGTSGLCFDAS 2648
Query: 8881 KLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYVLMDGS 9060
+ + AC+ + CT G V YCY L+EG+ YSEL P + Y ++DG+
Sbjct: 2649 GVAD-----KGACIFNSACTTLSGLGGTAV-YCYKNGLVEGAKLYSELAPHSYYKMVDGN 2702
Query: 9061 IIQFPNTYLEG-SVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRALSGVFC 9237
+ P G +R + T YCR G C +S G+C +V N E + S C
Sbjct: 2703 AVSLPEIISRGFGIRTIRTKAMTYCRVGQCVQSAEGVCFGADRFFVYNAE---SGSDFVC 2759
Query: 9238 GVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEYN-HVV 9414
G L+ N+ + + V +S ++ IIA + + F KF+R+FG+ + V
Sbjct: 2760 GTGLFTLLMNVISVFSKTVPVTVLSGQILFNCIIAFVAVAVCFLFTKFKRMFGDMSVGVF 2819
Query: 9415 AANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYF--TNDVSFLA--HLQWFAMFSP 9582
A L + + + L Y T YF T V ++ HL + +
Sbjct: 2820 TVGACTLLNNVSYIVTQNTLGMLG--------YATLYFLCTKGVRYMWIWHLGFLISYIL 2871
Query: 9583 IVPFWITAIYVFCISLKHCHWFFNNYLRKRV---MFNGVTF-STFEEAALCTFLLNKEMY 9750
I P+W+ +Y F + F N + +V +F G F +FE AA TF+L+ Y
Sbjct: 2872 IAPWWVLMVYAFSAIFE----FMPNLFKLKVSTQLFEGDKFVGSFENAAAGTFVLDMHAY 2927
Query: 9751 LKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNSGADVLY 9930
+L + + + +Y + YNKYKY+SG+ YR A HLAKA+ D++++ D LY

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Sbjct: 2928 ERLANS--ISTEKLRQYASTYNKYKYYSGSASEADYRLACFAHLAKAMMDYASNHNDTLY 2985
Query: 9931 QPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAE 10110
PP S S LQ+G RKMA PSG VE C+V+V G LNGLWL D V CPRHVI ++
Sbjct: 2986 TPPTVSYNST-LQAGLRKMAQPSGVVEKCIVRVCYGNMALNGLWLGDIVMCPRHVIASST 3044
Query: 10111 DMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRIQ 10290
+Y+ L H+F + +GNV L V+ +M+ LL++KV+ +N TPKY + ++
Sbjct: 3045 TS-TIDYDYALSVLRLHNFSISSGNVFLGVVSATMRGALLQIKVNQNNVHTPKYTYRTVR 3103
Query: 10291 PGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMEL 10470
PG++F++LACY+G+ +GVY MR N+TI+GSF+NG+CGS G+NI+ V FCY+H +EL
Sbjct: 3104 PGESFNILACYDGAAAGVYGVNMRSNYTIRGSFINGACGSPGYNINNGTVEFCYLHQLEL 3163
Query: 10471 PTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTL 10650
+G H G+DL+G YG + D+ T Q G + T NVLA+LYAA+ING W+L+ +
Sbjct: 3164 GSGCHVGSDLDGVMYGGYEDQPTLQVEGASSLFTENVLAFLYAALINGSTWWLSSSRIAV 3223
Query: 10651 NDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTIL 10830
+ FN A+ T + D L+A+TG+ V + A+++ L +N G+ ILG T L
Sbjct: 3224 DRFNEWAVHNGMT--TVGNTDCFSILAAKTGVDVQRLLASIQSLHKN-FGGKQILGHTSL 3280
Query: 10831 EDEFTPFDVVRQCSGVTFQGKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFVYENA 11010
DEFT +VVRQ GV QG + V + + ++ FF+V
Sbjct: 3281 TDEFTTGEVVRQMYGVNLQGGY---VSRACRNVLLVGSFLTFFWSELVSYTKFFWVNPGY 3337
Query: 11011 FLPFTLGIMAIAACAMLLVKHKHAFLCLFLLPSLATVAYFNMVYMPASWVMRIMTWLELA 11190
P + +++ M +KHK F +FL+P+L + N+ + + + LA
Sbjct: 3338 VTPMFACLSLLSSLLMFTLKHKTLFFQVFLIPALIVTSCINLAF-------DVEVYNYLA 3390
Query: 11191 D-----TSLSGYRLKDCVMYASALVLLILMTART--VYDDAARRVWTLMNVITLVYKVYY 11349
+ SL G+ + V V+ IL T ++ A V ++ ++T Y +Y
Sbjct: 3391 EHFDYHVSLMGFNAQGLVNIFVCFVVTILHGTYTWRFFNTPASSVTYVVALLTAAYNYFY 3450
Query: 11350 GN-ALDQAISMWALVISVTSNYSGVVTTIMFLARAIVFVCVEYYPLLFITGNTLQCIMLV 11526
+ L A++++A SVT N+ V + + + V++ + + + I G+ ++ +M
Sbjct: 3451 ASDILSCAMTLFA---SVTGNW--FVGAVCY--KVAVYMALRFPTFVAIFGD-IKSVMFC 3502
Query: 11527 XXXXXXXXXXXXXXXXXXNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNI 11706
NR+F++++GVYDY VS EF+YM + GL P ++D+ L+
Sbjct: 3503 YLVLGYFTCCFYGILYWFNRFFKVSVGVYDYTVSAAEFKYMVANGLRAPTGTLDSLLLSA 3562
Query: 11707 KLLGIGGKPCIKVATVQSKMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAK 11886
KL+GIGG+ IK+++VQSK++D+KC+
WA CV LHN I L
Sbjct: 3563 KLIGIGGERNIKISSVQSKLTDIKCSNVVLLGCLSSMNVSANSTEWAYCVDLHNKINLCN 3622
Query: 11887 DTTEAFEKMXXXXXXXXXMQGAVDINRLCEEMLDNRATLQAIASEFSSLPSXXXXXXXXX 12066
D +A E + A ++ L E ++ + LQ++AS + LPS
Sbjct: 3623 DPEKAQEMLLALLAFFLSKNSAFGLDDLLESYFNDNSMLQSVASTYVGLPSYVIYENARQ 3682
Query: 12067 XXXXXXXNGDXXXXXXXXXXXXXXXXXEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKR 12246
NG EFDR+A+ QRKL++MA+QA QMYK+AR+ +++
Sbjct: 3683 QYEDAVNNGSPPQLVKQLRHAMNVAKSEFDREASTQRKLDRMAEQAAAQMYKEARAVNRK 3742
Query: 12247 AKVTSAMQTMLFTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPDYGTYKN 12426
+KV SAM ++LF MLR+ +DG VPL++IP +A KL +V D +Y
Sbjct: 3743 SKVVSAMHSLLFGMLRRLDMSSVDTILNLAKDGVVPLSVIPAVSATKLNIVTSDIDSYNR 3802
Query: 12427 TCDGNTFTYASALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTALRANSAVKLQNN 12606
YA +W I + D D K+V + E+ N+ +L+WPL++ R VKLQNN

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Sbjct: 3803 IQREGCVHYAGTIWNIIDIKDNDGKVVHVKEVTAQNAESLSWPLVLGCERI---VKLQNN 3859
Query: 12607 ELSPVALRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGT 12786
E+ P L+Q S A A YNN G F+ A +SD DL+ ++ G
Sbjct: 3860 EIIPGKLKQRSIKAEGDGIV---GEGKALYNNEGGRTFMYAFISDKPDLRVVKWEFDGGC 3916
Query: 12787 GTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEVPA 12966
TI ELEPP +F+ D+P G ++KYLYF++ LN L RG VLG + ATVRLQAG TE
Sbjct: 3917 NTI--ELEPPRKFLVDSPNGAQIKYLYFVRNLNTLRRGAVLGYIGATVRLQAGKQTEQAI 3974
Query: 12967 NSTVLSFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFG 13146
NS++L+ CAFAVDPAK Y D + SG +P+ NCVKML +G GQA+T EA+ +Q+S+G
Sbjct: 3975 NSSLLTLCAFAVDPAKTYIDAVKSGHKPVGNCVKMLANGSGNGQAVTNGVEASTNQDSYG 4034
Query: 13147 GASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCS 13326
GAS CLYCR H++HP+ GFC LKGKYVQ+P DP+ F L N VC VCG W GC+
Sbjct: 4035 GASVCLYCRAHVEHPSMDGFCRLKGKYVQVPLGTV-DPIRFVLENDVCKVCGCWLSNGCT 4093
Query: 13327 CDQLREPLMQSADASTF 13377
CD+ +MQS D F
Sbjct: 4094 CDR---SIMQSTDYGLF 4107
Score = 85.5 bits (210), Expect = 5e-14
Identities = 84/280 (30%), Positives = 124/280 (44%), Gaps = 18/280 (6%)
Frame = +1
Query: 3352 IVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGSCLLSGHNLAKKCLH 3531
+VNAAN L HGGG+A A++ T G +QK S+DYIK +GP+ VG +L L K +
Sbjct: 1317 VVNAANEKLSHGGGIAKAIDVYTKGMLQKCSNDYIKAHGPIKVGRGVMLEA--LGLKVFN 1374
Query: 3532 VVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSLQVCVQTV--RTQVY 3705
VVGP L+KA F + + L PL+S GIF +SL + V R
Sbjct: 1375 VVGPRKGKHAPELLVKAYKSVFANSGVALTPLISVGIFSVPLEESLSAFLACVGDRHCKC 1434
Query: 3706 IAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDSKTEEKSVVQKPV--DVKP---- 3867
DK + ++ Y+D L V+A +E +T + + + V QKPV + +P
Sbjct: 1435 FCYGDKE--REAIIKYMDGL---VDAIFKEALVDTTPVQEDVQQVSQKPVLPNFEPFRIE 1489
Query: 3868 ---KIKACIDEVTTTLEETKFL--TNKLLLFADINGKLYHDSQNMLRGEDMSFLEKDAPY 4032
C E +L K + TN L F + L + L F + +
Sbjct: 1490 GAHAFYECNPEGLMSLGADKLVLFTNSNLDFCSVGKCLNDVTSGALLEAINVFKKSNKTV 1549
Query: 4033 MVGDVITSG-----DITCVVIPSKKAGGTTEMLSRALKKV 4137
G+ +T IT VV+P + +RA+ KV
Sbjct: 1550 PAGNCVTLDCANMISITMVVLPFDGDANYDKNYARAVVKV 1589
Score = 52.4 bits (124), Expect = 5e-04
Identities = 54/207 (26%), Positives = 92/207 (44%), Gaps = 5/207 (2%)
Frame = +1
Query: 4876 KTIKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDD 5055
K++ + T D ++ V+ + TYGQQ GP ++ VT KP V V+P+ +
Sbjct: 1631 KSVVIKVTEDTRSVKAVKVESTATYGQQIGPCLVNDTVVTDNKPVV--ADVVAKVVPNAN 1688
Query: 5056 TLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQ--VGGLTSIKWADNNCYLSSVLLAL 5229
++ ++ D++ G + L+HT + FP V G IK DNNC+++ L L

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Sbjct: 1689 ------WDSHYGFDKA--GEF-HMLDHTG-FTFPSEVVNGRRVIKTTDNNCWVNVTCLQL 1738
Query: 5230 QQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQH---AN 5400
Q +F + LQ + GD A F + + G+ D + L ++ A
Sbjct: 1739 QFARFRFKSAGLQAMWESYCTGDVAMFVHWLYWLTGVDKGQPSDSENALNMLSKYIVPAG 1798
Query: 5401 LESAKRVLNVVCKHCGQKTTTLTGVEA 5481
+ +RV + C C ++ T V A
Sbjct: 1799 SVTIERVTHDGC-CCSKRVVTAPVVNA 1824
Score = 38.9 bits (89), Expect = 5.2
Identities = 31/99 (31%), Positives = 48/99 (48%)
Frame = +1
Query: 5152 FPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALILAY 5331
F GGL ++ + NNC+++S L+ LQ L + + PA+ E + R G C
Sbjct: 1075 FVSYGGLKVLRQSHNNCWVTSTLVQLQLLGI-VDDPAM-ELFSAGRVGPMVRKC---YES 1129
Query: 5332 SNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCG 5448
+G LGDV + L + +L + K +VVC CG
Sbjct: 1130 QKAILGSLGDVSACLESLTK--DLHTLKITCSVVC-GCG 1165
>gi|9635157|ref|NP_058422.1| replicase [Transmissible gastroenteritis virus]
gi|7801348|emb|CAB91143.1| replicase [Transmissible gastroenteritis virus]
Length = 6685
Score = 3068 bits (7955), Expect(2) = 0.0
Identities = 1513/2710 (55%), Positives = 1929/2710 (71%), Gaps = 13/2710 (0%)
Frame = +3
Query: 13374 VFKRVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNLL 13553
+FKRV G SAARL PC GT D V RAFDIYN+ VA KFLKTNC RF+ D+
Sbjct: 4007 LFKRVRGSSAARLEPCN-GTDPDHVSRAFDIYNKDVACIGKFLKTNCSRFRNLDKH---- 4061
Query: 13554 DSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMAD 13733
D+Y++VKR T + HE+ YN +KD AVA HDFF ++ +++R+ LTKYTM D
Sbjct: 4062 DAYYIVKRCTKTVMDHEQVCYNDLKDSGAVAEHDFFTYKEGRCEFGNVARRNLTKYTMMD 4121
Query: 13734 LVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQSL 13913
L YA+R+FDE NC+ LKEILVT C +++F KDW+D VEN I VYA LG V ++
Sbjct: 4122 LCYAIRNFDEKNCEVLKEILVTVGACTEEFFENKDWFDPVENEAIHEVYAKLGPIVANAM 4181
Query: 13914 LKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPILT 14093
LK V FCDA+ + G +GV+TLDNQDLNGN+YDFGDFV+ APG G V SYYS +MP++
Sbjct: 4182 LKCVAFCDAIVEKGYIGVITLDNQDLNGNFYDFGDFVKTAPGFGCACVTSYYSYMMPLMG 4241
Query: 14094 LTRALAAESHMDADL-AKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDR 14270
+T L +E+ + +D+ ++DLL YDFTE + LF +YFKYWD+TYHPNC +C D
Sbjct: 4242 MTSCLESENFVKSDIYGSDYKQYDLLAYDFTEHKEYLFQKYFKYWDRTYHPNCSDCTSDE 4301
Query: 14271 CILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSR 14450
CI+HCANFN LFS P T+FGPLVRK+ +DGVP VV+ GYHF++LG+V N DV L + +
Sbjct: 4302 CIIHCANFNTLFSMTIPMTAFGPLVRKVHIDGVPVVVTAGYHFKQLGIVWNLDVKLDTMK 4361
Query: 14451 LSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVS 14630
LS +LL + DP + AS LLD+RT CFS+AAL+ + +QTVKPG+FNKDFYDF

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Sbjct: 4362 LSMTDLLRFVTDPTLLVASSPALLDQRTVCFSIAALSTGITYQTVKPGHFNKDFYDFITE 4421
Query: 14631 KGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDG 14810
+GFF+EGS + LKHFFFAQ G AA++D++YYRYN T+ DI Q FV ++V KYF+CYDG
Sbjct: 4422 RGFFEEGSELTLKHFFFAQGGEAAMTDFNYYRYNRVTVLDICQAQFVYKIVGKYFECYDG 4481
Query: 14811 GCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLK 14990
GCINA +V+V N DKSAG+P NK+GKARLYY+++SYE+QDALFA TKRNV+PT+TQMNLK
Sbjct: 4482 GCINAREVVVTNYDKSAGYPLNKFGKARLYYETLSYEEQDALFALTKRNVLPTMTQMNLK 4541
Query: 14991 YAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTV 15170
YAIS K RARTV GVS+ STMT RQ+HQK LKSIAATR ATVVIG++KFYGGW NMLK +
Sbjct: 4542 YAISGKARARTVGGVSLLSTMTTRQYHQKHLKSIAATRNATVVIGSTKFYGGWDNMLKNL 4601
Query: 15171 YSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSE 15350
DV+ LMGWDYPKCDRA+PNM+R+ ++++L KH CC + RFYRL+NE AQVL+E
Sbjct: 4602 MRDVDNGCLMGWDYPKCDRALPNMIRMASAMILGSKHVGCCTHNDRFYRLSNELAQVLTE 4661
Query: 15351 MVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQH 15530
+V C G Y KPGGT+SGD TTAYANS FNI QAV+ANVN LL D N + V+++Q
Sbjct: 4662 VVHCTGGFYFKPGGTTSGDGTTAYANSAFNIFQAVSANVNKLLGVDSNACNNVTVKSIQR 4721
Query: 15531 RLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAV 15710
++Y+ YR+ +D EFV E+++YLRKHFSMMILSDD VVCYN +YA G VA I FKA
Sbjct: 4722 KIYDNCYRSSSIDEEFVVEYFSYLRKHFSMMILSDDGVVCYNKDYADLGYVADINAFKAT 4781
Query: 15711 LYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVD 15890
LYYQNNVFMS +KCW E DL+ GPHEFCSQHT+ + D YLPYPDPSRIL AG FVD
Sbjct: 4782 LYYQNNVFMSTSKCWVEPDLSVGPHEFCSQHTLQIVGPDGDYYLPYPDPSRILSAGVFVD 4841
Query: 15891 DIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSV 16070
DIVKTD +M+ER+VSLAIDAYPLTKHP Y VF+ L +++ L L +LD +SV
Sbjct: 4842 DIVKTDNVIMLERYVSLAIDAYPLTKHPKPAYQKVFYTLLDWVKHLQKNLNAGVLDSFSV 4901
Query: 16071 MLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDH 16250
+ + ++W EFY ++Y TVLQA G CV+C SQT LRCG C+RRP LC KC YDH
Sbjct: 4902 TMLEEGQDKFWSEEFYASLYEKSTVLQAAGMCVVCGSQTVLRCGDCLRRPLLCTKCAYDH 4961
Query: 16251 VISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLY 16430
V+ T HK ++S+ PYVC+ GC+V DVT+L+LGG+SYYC +HKP +SFPLCANG VFGLY
Sbjct: 4962 VMGTKHKFIMSITPYVCSFNGCNVNDVTKLFLGGLSYYCMNHKPQLSFPLCANGNVFGLY 5021
Query: 16431 KNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIAT 16610
K++ VGS+ V DFN +A DWTN DY LAN E LK+FAAET+KA EE+ K Y A
Sbjct: 5022 KSSAVGSEAVEDFNKLAVSDWTNVEDYKLANNVKESLKIFAAETVKAKEESVKSEYAYAV 5081
Query: 16611 VREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYG-DAVVYR 16787
++EV+ +E+ L WE K +PPLNRN VFT ++++K++K+Q+GE+ FE+ +YG D+V Y+
Sbjct: 5082 LKEVIGPKEIVLQWEASKTKPPLNRNSVFTCFQISKDTKIQLGEFVFEQSEYGSDSVYYK 5141
Query: 16788 GTTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHYVRITGLYPTLNISDEFSSNVANYQKV 16967
T+TYKL G FVLTSH V PL AP LV QE Y I+ LYP NI++ +++ V YQ +
Sbjct: 5142 STSTYKLTPGMIFVLTSHNVSPLKAPILVNQEKYNTISKLYPVFNIAEAYNTLVPYYQMI 5201
Query: 16968 GMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCSR 17147
G QK++T+QGPPG+GKSH IGL LYYP ARIVYTACSHAAVDALCEKA K +D+CSR
Sbjct: 5202 GKQKFTTIQGPPGSGKSHCVIGLGLYYPQARIVYTACSHAAVDALCEKAAKNFNVDRCSR 5261
Query: 17148 IIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARLR 17327
IIP R RV+C+ FK N+T QY+FCTVNALPE + DIVV DE+SM TNYDLSV+N+RL

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Sbjct: 5262 IIPQRIRVDCYTGFKPNNTNAQYLFCTVNALPEASCDIVVVDEVSMCTNYDLSVINSRLS 5321
Query: 17328 AKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDTV 17507
KH VY+GDP QLPAPRTL+ KG L+P+ +N V + M T+GPD+FL C RCPAEIV TV
Sbjct: 5322 YKHIVYVGDPQQLPAPRTLINKGVLQPQDYNVVTKRMCTLGPDVFLHKCYRCPAEIVKTV 5381
Query: 17508 SALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVFI 17687
SALVY+NK +S QCFKMF KG + + +S+IN Q+ VV+ FL NP WRKAVFI
Sbjct: 5382 SALVYENKFVPVNPESKQCFKMFVKGQVQIESNSSINNKQLEVVKAFLAHNPKWRKAVFI 5441
Query: 17688 SPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKIGI 17867
SPYNSQN VA ++LGL TQTVDS+QGSEYDYVI+TQT++T H+ NVNRFNVAITRAK+GI
Sbjct: 5442 SPYNSQNYVARRLLGLQTQTVDSAQGSEYDYVIYTQTSDTQHATNVNRFNVAITRAKVGI 5501
Query: 17868 LCIMSDRDLYDKLQFTSLEIPRRNVATLQAENVT-GLFKDCSKIITGLHPTQAPTHLSVD 18044
LCIM DR +Y+ L F L + + LQA+ T GLFKDCSK + P A T++S+
Sbjct: 5502 LCIMCDRTMYENLDFYEL---KDSKIGLQAKPETCGLFKDCSKSEQYIPPAYATTYMSLS 5558
Query: 18045 IKFKT-EGLCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGF 18221
FKT +GL V+I KD+ Y +IS MGF+ + GY +F TR+ A+R+VRAW+GF
Sbjct: 5559 DNFKTSDGLAVNIG--TKDVKYANVISYMGFRFEANIPGYHTLFCTRDFAMRNVRAWLGF 5616
Query: 18222 DVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQFKHL 18401
DVEG H D VGTN+PLQLGFS GV+ V G V TE V A+ PPG+QF HL
Sbjct: 5617 DVEGAHVCGDNVGTNVPLQLGFSNGVDFVVQTEGCVITEKGNSIEVVKARAPPGEQFAHL 5676
Query: 18402 IPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIG-PERTCC 18578
IPLM KG PW++VR +IVQM+ D GLSD ++FVLWA G ELT+M+YFVKIG P++ C
Sbjct: 5677 IPLMRKGQPWHIVRRRIVQMVCDYFDGLSDILIFVLWAGGLELTTMRYFVKIGRPQK--C 5734
Query: 18579 LCDKRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHGNAH 18758
C K ATC+S+S YAC+ H++G DY+YNP+ ID+QQWG+TG+L NH + C +H N H
Sbjct: 5735 ECGKSATCYSSSQSVYACFKHALGCDYLYNPYCIDIQQWGYTGSLSMNHHEVCNIHRNEH 5794
Query: 18759 VASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADKFPV 18938
VAS DAIMTRCLA+H+CFVKRVDWS+ YP I +E ++N A R VQ V+K+AL
Sbjct: 5795 VASGDAIMTRCLAIHDCFVKRVDWSIVYPFIDNEEKINKAGRIVQSHVMKAALKIFNPAA 5854
Query: 18939 LHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFWNCN 19118
+HD+GNPK I+C + W YD P ++ + L Y Y H +G+ LFWNCN
Sbjct: 5855 IHDVGNPKGIRCA-TTPIPWFCYDRDPINN---NVRCLDYDYMVHGQ--MNGLMLFWNCN 5908
Query: 19119 VDRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFFYYS 19298
VD YP +IVCRFDTR S L+L GC+GG+LYVN HAFHTPA+D+ AF LK +PFFYY
Sbjct: 5909 VDMYPEFSIVCRFDTRTRSKLSLEGCNGGALYVNNHAFHTPAYDRRAFAKLKPMPFFYYD 5968
Query: 19299 DSPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAGFSL 19478
DS CE V +YVPLKS CIT+CN+GGAVC+ HA YR Y++ YN+ + AGF++
Sbjct: 5969 DSNCE----LVDGQPNYVPLKSNVCITKCNIGGAVCKKHAALYRAYVEDYNIFMQAGFTI 6024
Query: 19479 WIYKQFDTYNLWNTFTR---LQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGI 19649
W + FDTY LW+ F LQSLENVA+NVV KG F G G+ P ++I + + +
Sbjct: 6025 WCPQNFDTYMLWHGFVNSKALQSLENVAFNVVKKGAFTGLKGDLPTAVIADKIMVRDGPT 6084
Query: 19650 DVEIFENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKREAPAHVST 19829
D IF NKT+LP NVAFEL+AKR + P + IL NLGV V+WDY+ E P T
Sbjct: 6085 DKCIFTNKTSLPTNVAFELYAKRKLGLTPPLTILRNLGVVATYKFVLWDYEAERPFSNFT 6144
Query: 19830 IGVCTMTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGLTPSKGPA 20009
VC+ TD+ S + FD + G + F R+ VLI+ +VKGL+ K

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Sbjct: 6145 KQVCSYTDLD--------SEVVTCFDNSIAGSFERFTTTRDAVLISNNAVKGLSAIK-LQ 6195
Query: 20010 QASVNG--VTLIGESVKTQFNYFKKVDGIIQQLPETYFTQSRDLEDFKPRSQMETDFLEL 20183
+N V+ +G T + Y +K ++Q+ ++Y+TQ R E FKPRS ME DFL +
Sbjct: 6196 YGLLNDLPVSTVGNKPVTWYIYVRKNGEYVEQI-DSYYTQGRTFETFKPRSTMEEDFLSM 6254
Query: 20184 AMDEFIQRYKLEGYAFEHIVYGDFSHGQLGGLHLMIGLAKRSQDSPLKLEDFI-PMDSTV 20360
FIQ+Y LE Y FEH+V+GD S +GG+HL+I + ++ +++F+ DST+
Sbjct: 6255 DTTLFIQKYGLEDYGFEHVVFGDVSKTTIGGMHLLISQVRLAKMGLFSVQEFMNNSDSTL 6314
Query: 20361 KNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKSQDLSVISKVVKVTIDYAEISFMLWCKD 20540
K+ IT A SSK VC+ +D+LLDDFV IIKS DL+V+SKVV V +D +MLWC++
Sbjct: 6315 KSCCITYADDPSSKNVCTYMDILLDDFVTIIKSLDLNVVSKVVDVIVDCKAWRWMLWCEN 6374
Query: 20541 GHVETFYPKLQASRAWQPGVAMPNLYKMQRMLLEKCDLQNYGENAVIPKGIMMNVAKYTQ 20720
H++TFYP+LQ S W PG +MP LYK+QRM LE+C+L NYG +P GI NV KYTQ
Sbjct: 6375 SHIKTFYPQLQ-SAEWNPGYSMPTLYKIQRMCLERCNLYNYGAQVKLPDGITTNVVKYTQ 6433
Query: 20721 LCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVDSDLNDFVSDAYS 20900
LCQYLNT TL VP+ MRV+H GA GVAPG+ VLR+WLP +LVD+DL D+VSDA
Sbjct: 6434 LCQYLNTTTLCVPHKMRVLHLGAAGASGVAPGSTVLRRWLPDDAILVDNDLRDYVSDADF 6493
Query: 20901 TLIGDCATVHTANKWDLIISDMYDPRTKHVTKENDSKEGFFTYLCGFIKQKLALGGSIAV 21080
++ GDC +++ +K+DL++SD+YD TK + EN SK+GFFTY+ GFIK+KL+LGGS+A+
Sbjct: 6494 SVTGDCTSLYIEDKFDLLVSDLYDGSTKSIDGENTSKDGFFTYINGFIKEKLSLGGSVAI 6553
Query: 21081 KITEHSWNADLYKLMGHFSWWTAFVTNVNASSSEAFLIGANYLGK--PKEQIDGYTMHAN 21254
KITE SWN DLY+L+ F +WT F T+VN SSSE FLIG NYLG K +DG MHAN
Sbjct: 6554 KITEFSWNKDLYELIQRFEYWTVFCTSVNTSSSEGFLIGINYLGPYCDKAIVDGNIMHAN 6613
Query: 21255 YIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSLKENQINDMIYSLLEKGRLIIRENNR 21434
YIFWRN+ + LS S+ D KF + +++LKE ++N+M+ LL KG+L+IR N +
Sbjct: 6614 YIFWRNSTIMALSHNSVLDTPKFKCRCNNALIVNLKEKELNEMVIGLLRKGKLLIRNNGK 6673
Query: 21435 VVVSSDILVN 21464
++ + VN
Sbjct: 6674 LLNFGNHFVN 6683
Score = 998 bits (2580), Expect(2) = 0.0
Identities = 675/2170 (31%), Positives = 1040/2170 (47%), Gaps = 47/2170 (2%)
Frame = +1
Query: 6967 CNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETIQVTISSYKLDLTILG 7146
CNG + Y NSS + + C S C CL+ D L + + +QVT +K D
Sbjct: 1921 CNGAVQAYKNSSFIKSA-VCGNSILCKACLASYDELADF---QHLQVTWD-FKSDPLWNR 1975
Query: 7147 LAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMWF-------IISIVQMA 7305
L L+Y F F + ++ F YF S ++ N WL +F + +V
Sbjct: 1976 LVQ---LSYFAFLAVFG----NNYVRCFLMYFVSQYL-NLWLSYFGYVEYSWFLHVVNFE 2027
Query: 7306 PVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMKRSFY 7485
+SA + + K HI+ C++ +C C + R TR+ +VNG ++ Y
Sbjct: 2028 SISAEFVIVVIVVKAVLALK---HIVFACSNPSCKTCSRTARQTRIPIQVVVNGSMKTVY 2084
Query: 7486 VYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVA 7665
V+ANG FCK HN+ C NCD++ +TFI DE+ RDLS K+ + TD+S V V
Sbjct: 2085 VHANGTGKFCKKHNFYCKNCDSYGFENTFICDEIVRDLSNSVKQTVYATDRSHQEVTKVE 2144

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Query: 7666 VKNGALHLY---------FDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGK 7818
+G Y +D +K + L + LD+ + GS NV
Sbjct: 2145 CSDGFYRFYVGDEFTSYDYDVKHKKYSSQEVLKSMLLLDDFIVYSPSGSALANV------ 2198
Query: 7819 SKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPM 7998
++A VY+SQL+ +PI +++ L+ D+ S + +F+A + +F+V +
Sbjct: 2<strong>199</strong> --------RNACVYFSQLIGKPIKIVNSDLLEDL--SVDFKGALFNAKKNVIKNSFNVDV 2248
Query: 7999 EKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHSDLEVT 8178
+ K L E + L+ STF A +H + +T
Sbjct: 2249 SECKNL-----DECYRACNLNVSFSTFEMAVNN------------------AHRFGILIT 2285
Query: 8179 GDSCNNFMLTYNKV--ENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQ 8352
S NNF + K ++ D+G C+ +A+ +NA+V S++W +D+ +LS
Sbjct: 2286 DRSFNNFWPSKVKPGSSGVSAMDIGKCMTSDAKIVNAKVLTQRGKSVVWLSQDFAALSST 2345
Query: 8353 LRKQIRSAAKKNNIPFRLTCATTRQVVNV----ITTKISLKGGK---IVSTCFK--LMLK 8505
+K + + + F LT ++ T +S K G V T K ++L
Sbjct: 2346 AQKVLVKTFVEEGVNFSLTFNAVGSDDDLPYERFTESVSPKSGSGFFDVITQLKQIVILV 2405
Query: 8506 ATXXXXXXXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFD 8685
Y V + +GY Y I++G+ + T C N + GF
Sbjct: 2406 FVFIFICGLCSVYSVATQSYIESAEGYD-----YMVIKNGIVQPFDDTISCVHNTYKGFG 2460
Query: 8686 AWFSQRGGSYKN-DKSCP-VVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVG 8859
WF + G KSCP VV + E +P +P V +I G L F V
Sbjct: 2461 DWFKAKYGFIPTFGKSCPIVVGTVFDLENMRPIPDVPAYV--SIVGRSLVFAINAAFGVT 2518
Query: 8860 NICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTR 9039
N+CY + D CV CT +G + YC L+EG+ YS+L PD
Sbjct: 2519 NMCYDHTGNAVSKDSYFDTCVFNTACTTLT-GLGGTIVYCAKQGLVEGAKLYSDLMPDYY 2577
Query: 9040 YVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRA 9219
Y G++++ P +R V T YCR G C S+ G C +V +NE
Sbjct: 2578 YEHASGNMVKLPAIIRGLGLRFVKTQATTYCRVGECIDSKAGFCFGGDNWFVYDNEFG-- 2635
Query: 9220 LSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGE 9399
+G CG + N+F + + S +++ IIA L Y +KF+++FG+
Sbjct: 2636 -NGYICGNSVLGFFKNVFKLFNSNMSVVATSGAMLVNIIIACLAIAMCYGVLKFKKIFGD 2694
Query: 9400 YNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQ--WFAM 9573
++ ++ L+ + V +F +Y++ Y ++ T +++ L +
Sbjct: 2695 CTFLIVM-IIVTLVVNNVSYFVTQNTFFMIIYAIVY----YFITRKLAYPGILDAGFIIA 2749
Query: 9574 FSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTFLLNKEMYL 9753
+ + P+++ Y+ F + + FE AA+ TF+++ Y
Sbjct: 2750 YINMAPWYVITAYILVFLYDSLPSLFKLKVSTNLFEGDKFVGNFESAAMGTFVIDMRSYE 2809
Query: 9754 KLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNSGADVLYQ 9933
+ + T + + Y +NKYKY++G++ YR A HL KAL D+S + D+LY
Sbjct: 2810 TIVNST--SIARIKSYANSFNKYKYYTGSMGEADYRMACYAHLGKALMDYSVNRTDMLYT 2867
Query: 9934 PPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAED 10113
PP S+ S LQSG RKMA PSG VE C+V+V+ G LNGLWL D V CPRHVI +
Sbjct: 2868 PPTVSVNST-LQSGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTT 2926
Query: 10114 MLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRIQP 10293
+ NYE+ + H+F V NV L V+ + L LKV+ NP TP++KF I+
Sbjct: 2927 RVI-NYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKA 2985

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Query: 10294 GQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMELP 10473
G++F++LACY G P VY MR TIKGSF+ G+CGSVG+ ++ + F YMHH+EL
Sbjct: 2986 GESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELG 3045
Query: 10474 TGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLN 10653
G H G++ EG+ YG + D+ + Q GT+ + NV+A+LYAA+ING+RWF+ + +L
Sbjct: 3046 NGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLE 3105
Query: 10654 DFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILE 10833
+N A ++ L+ D L+A+TG +V + ++ L G GRTIL L
Sbjct: 3106 SYNTWAKTNSFTELSS--TDAFSMLAAKTGQSVEKLLDSIVRL-NKGFGGRTILSYGSLC 3162
Query: 10834 DEFTPFDVVRQCSGVTFQ-GKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFVYENA 11010
DEFTP +V+RQ GV Q GK VK + + ++ ++ F ++
Sbjct: 3163 DEFTPTEVIRQMYGVNLQAGK----VKSFFYPIMTAMTILFAFWLEFFMYTPFTWI-NPT 3217
Query: 11011 FLPFTLGIMAIAACAMLL-VKHKHAFLCLFLLPSLATVAYFNMVYMPASWVMRIMTWLEL 11187
F+ L + + + + +KHK F F+LPS+ V N+ + S+ + + +E
Sbjct: 3218 FVSIVLAVTTLISTVFVSGIKHKMLFFMSFVLPSVILVTAHNL-FWDFSYYESLQSIVEN 3276
Query: 11188 ADTSLSGYRLKDCVMYASALVLLILMTARTVYDDAARRVWTLMNVITLVY---KVYYGNA 11358
+T ++ ++ ++ + + R ++ W + V T++ V
Sbjct: 3277 TNTMFLPVDMQGVMLTVFCFIVFVTYSVRFF---TCKQSWFSLAVTTILVIFNMVKIFGT 3333
Query: 11359 LDQA----------ISMWALVISVTSNYSGVVTTIMFLARAIVFVCVEYYPLLFITG-NT 11505
D+ ++M +++S+T+ VV +A IV VCV P F++
Sbjct: 3334 SDEPWTENQIAFCFVNMLTMIVSLTTKDWMVVIASYRIAYYIV-VCV--MPSAFVSDFGF 3390
Query: 11506 LQCIMLVXXXXXXXXXXXXXXXXXXNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSI 11685
++CI +V
NR+ +T GVY + VS E +YM + L PK++
Sbjct: 3391 MKCISIVYMACGYLFCCYYGILYWVNRFTCMTCGVYQFTVSAAELKYMTANNLSAPKNAY 3450
Query: 11686 DAFKLNIKLLGIGGKPCIKVATVQSKMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLH 11865
DA L+ KL+G+GGK IK++TVQSK++++KCT
K W CV LH
Sbjct: 3451 DAMILSAKLIGVGGKRNIKISTVQSKLTEMKCTNVVLLGLLSKMHVESNSKEWNYCVGLH 3510
Query: 11866 NDILLAKDTTEAFEKMXXXXXXXXXMQGAVDINRLCEEMLDNRATLQAIASEFSSLPSXX 12045
N+I L D EK+ D++ L E +N LQ++AS +++LPS
Sbjct: 3511 NEINLCDDPEIVLEKLLALIAFFLSKHNTCDLSELIESYFENTTILQSVASAYAALPSWI 3570
Query: 12046 XXXXXXXXXXXXXXNGDXXXXXXXXXXXXXXXXXEFDRDAAMQRKLEKMADQAMTQMYKQ 12225
N +F+R+A++Q+KL+KMA+QA MYK+
Sbjct: 3571 ALEKARADLEEAKKNDVSPQILKQLTKAFNIAKSDFEREASVQKKLDKMAEQAAASMYKE 3630
Query: 12226 ARSEDKRAKVTSAMQTMLFTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVP 12405
AR+ D+++K+ SAM ++LF ML+K
R+G +PL+IIP +A +L+V+ P
Sbjct: 3631 ARAVDRKSKIVSAMHSLLFGMLKKLDMSSVNTIIDQARNGVLPLSIIPAASATRLVVITP 3690
Query: 12406 DYGTYKNTCDGNTFTYASALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTALRANS 12585
+ N YA A+W I +V DA+ V L E+ N NL WPL +T R
Sbjct: 3691 SLEVFSKIRQENNVHYAGAIWTIVEVKDANGSHVHLKEVTAANELNLTWPLSITCERTT- 3749
Query: 12586 AVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWAR 12765
KLQNNE+ P L++ + A T + A + G F+ A ++ +LK+ +
Sbjct: 3750 --KLQNNEIMPGKLKERAVRASATLDGEAFGSGKALMASESGKSFMYAFIASDNNLKYVK 3807
Query: 12766 FPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQAG 12945
+ ++ I ELE P RF D GP+VKYLYF+K LN L RG VLG + ATVRLQAG
Sbjct: 3808 WESNNDI--IPIELEAPLRFYVDGANGPEVKYLYFVKNLNTLRRGAVLGYIGATVRLQAG 3865

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Query: 12946 NATEVPANSTVLSFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEAN 13125
TE P+NS++L+ CAF+ DPAKAY D + G QP+ NCVKML G G A+T EAN
Sbjct: 3866 KPTEHPSNSSLLTLCAFSPDPAKAYVDAVKRGMQPVNNCVKMLSNGAGNGMAVTNGVEAN 3925
Query: 13126 MDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGM 13305
Q+S+GGAS C+YCRCH++HP G C KGK+VQIPT DP+ F + N VC VCG
Sbjct: 3926 TQQDSYGGASVCIYCRCHVEHPAIDGLCRYKGKFVQIPTG-TQDPIRFCIENEVCVVCGC 3984
Query: 13306 WKGYGCSCDQ 13335
W GC CD+
Sbjct: 3985 WLNNGCMCDR 3994
Score = 64.7 bits (156), Expect = 9e-08
Identities = 63/211 (29%), Positives = 94/211 (44%), Gaps = 3/211 (1%)
Frame = +1
Query: 3343 PMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGSCLLSGHNLAKK 3522
P VIVNAAN LKH GGVA A++ T G + + S DY+K N + G +
Sbjct: 1347 PDVIVNAANGDLKHMGGVARAIDVFTGGKLTERSKDYLKKNKSIAPGNAVFFENVIEHLS 1406
Query: 3523 CLHVVGP-NLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSLQVCVQTVRTQ 3699
L+ VGP N ++ + +L + +L PL+S GIF + SLQ ++T
Sbjct: 1407 VLNAVGPRNGDSRVEAKLCNVYKAIAKCEGKILTPLISVGIFNVRLETSLQCLLKT---- 1462
Query: 3700 VYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPP--NTEDSKTEEKSVVQKPVDVKPKI 3873
VND+ L V Y D + +E P TED+ E+ V ++
Sbjct: 1463 ----VNDRGLN---VFVYTDQERQTIENFFSCSIPVNVTEDNVNHERVSVSFDKTYGEQL 1515
Query: 3874 KACIDEVTTTLEETKFLTNKLLLFADINGKL 3966
K T + + K +TN+L D+ K+
Sbjct: 1516 KG------TVVIKDKDVTNQLPSAFDVGQKV 1540
Score = 47.4 bits (111), Expect = 0.015
Identities = 66/279 (23%), Positives = 102/279 (36%), Gaps = 7/279 (2%)
Frame = +1
Query: 4879 TIKVFTTVDNTNLHTQLVDMSMTYGQQF-GPTYLDGADVTKIKPHVNHEGKTFFVLPSDD 5055
+I V T DN N V TYG+Q G + DVT P G+ D
Sbjct: 1488 SIPVNVTEDNVNHERVSVSFDKTYGEQLKGTVVIKDKDVTNQLPSAFDVGQKVIKAIDID 1547
Query: 5056 TLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSI--KWADNNCYLSSVLLAL 5229
F SA +H +KF V I K DNNC+++++ LAL
Sbjct: 1548 WQAHYGFRD---------AAAFSASSHDA-YKFEVVTHSNFIVHKQTDNNCWINAICLAL 1597
Query: 5230 QQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLES 5409
Q+L+ ++ P ++ + F ++ S GE GD E M H L
Sbjct: 1598 QRLKPQWKFPGVRGLWNEFLERKTQGFVHMLYHISGVKKGEPGDA-ELMLHKLGDLMDND 1656
Query: 5410 AKRVL--NVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQE 5583
+ ++ C C + + V A G CV G + Q +
Sbjct: 1657 CEIIVTHTTACDKCAKVEKFVGPVVAAPL--------AIHGTDETCVHGVSVNVKVTQIK 1708
Query: 5584 SSFVMMS--APPAEYKLQQGTFLCANEYTGNYQCGHYTH 5694
+ + S P L+ ++C Y+G+ + GHYT+
Sbjct: 1709 GTVAITSLIGPIIGEVLEATGYIC---YSGSNRNGHYTY 1744

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Score = 45.4 bits (106), Expect = 0.055
Identities = 52/<strong>199</strong> (26%), Positives = 82/<strong>199</strong> (41%), Gaps = 4/<strong>199</strong> (2%)
Frame = +1
Query: 5146 WKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALIL 5325
+K + G +K DNNC++++ LQ + FN EA+ + + GD +F L
Sbjct: 1075 FKTTNLNGKIILKQGDNNCWINACCYQLQAFDF-FN----NEAWEKFKKGDVMDFVNLCY 1129
Query: 5326 AYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLS 5505
A + G GD + +L + +AK VL C CG+K L E ++ T
Sbjct: 1130 AATTLARGHSGDAEYLLELMLN--DYSTAKIVLAAKC-GCGEKEIVL---ERAVFKLTPL 1183
Query: 5506 YDNLKTGVSIPCVCGRDATQYLVQQESSFV----MMSAPPAEYKLQQGTFLCANEYTGNY 5673
++ GV C+ V+ FV P A + ++ + YTG
Sbjct: 1184 KESFNYGVCGDCMQVNTCRFLSVEGSGVFVHDILSKQTPEAMFVVKP---VMHAVYTGTT 1240
Query: 5674 QCGHYTHITAKETLYRIDG 5730
Q GHY + E Y +DG
Sbjct: 1241 QNGHYM-VDDIEHGYCVDG 1258
Score = 40.8 bits (94), Expect = 1.4
Identities = 46/217 (21%), Positives = 88/217 (40%), Gaps = 5/217 (2%)
Frame = +1
Query: 2176 KDAWEILKFLITGVFDIV--KGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKL 2349
K +E++ L T F IV K V + +KD V + V+ KA ++ +TIAG +
Sbjct: 416 KQIYEVVASLCTSAFTIVNYKPTFVVPDNRVKDLVDKCVKVLVKAFDVFTQIITIAGIEA 475
Query: 2350 RSLNLGEVFIAQSKGLYRQC---IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVV 2520
+ LG ++ + L + I GK+Q L A + + + T +E
Sbjct: 476 KCFVLGAKYLLFNNALVKLVSVKILGKKQKGLECAFFA---TSLVGATVNVTPKRTETAT 532
Query: 2521 LKNGELEALETPVDSFTNGAIVGTPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFRLKG 2700
+ +++ + P + + + + G M + + SP + TNNVF+
Sbjct: 533 ISLNKVDDVVAPGEGY---------IVIVGDMAFYKSGEYYFMMSSPNFVLTNNVFKAV- 582
Query: 2701 GAPIKGVTFGEDTVWEVQGYKNVRITFELDERVDKVL 2811
P + + D + + + +FE D +D +
Sbjct: 583 KVPSYDIVYDVDNDTKSKMIAKLGSSFEYDGDIDAAI 619
Score = 38.5 bits (88), Expect = 6.8
Identities = 73/339 (21%), Positives = 112/339 (33%), Gaps = 5/339 (1%)
Frame = +1
Query: 802 YVDNNFCGPDGYPL--DCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIAWFT 975
YVD CG DG P+ KD+ D IE + Y C AW T
Sbjct: 113 YVDQYMCGADGKPVIEGDFKDYFG-----------DEDIIEFEGEEYHC-------AWTT 154
Query: 976 ERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRIRS 1155
R +K QT F I+ + + P N + + P V+K +
Sbjct: 155 VRDEKPLNQQTLFTIQEIQYNLDIPHKLP------NCATRHVAPPVKKNSKIVLSEDYKK 208
Query: 1156 VYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCE-HCGTENLVIEGPTTCGYLP 1332
+Y + S M C + T F+ AT CG+E+ + T G+

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Sbjct: 209 LYDIFG---------SPFMGNGDCLSKCFDTLHFIAATLRCPCGSESSGVGDWT--GF-- 255
Query: 1333 TNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKRA 1512
K C G ++ D + T + G + F CV Y G +
Sbjct: 256 -----KTACCGLSGKVKGV--TLGDIKPGDAVVTSMSAGKGVKFFANCVLQYAGDVEGVS 308
Query: 1513 YW--VPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILAS 1686
W + + D G G+ + + + +++ I GD II
Sbjct: 309 IWKVIKTFTVDETVCTPGFEGELNDFIKPESKSLVACSVKRAFITGDIDDAVHDCIITGK 368
Query: 1687 FSASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVK 1803
ST+ F + L +K V+ CG V K V+
Sbjct: 369 LDLSTNLFGNV--GLLFKKTPWFVQKCGALFVDAWKVVE 405
>gi|12175747|ref|NP_073549.1| replicase polyprotein 1ab [Human coronavirus 229E]
gi|12082740|gb|AAG48591.1|AF304460_2 replicase polyprotein 1ab [Human coronavirus 229E]
Length = 6758
Score = 3038 bits (7875), Expect(2) = 0.0
Identities = 1503/2714 (55%), Positives = 1930/2714 (71%), Gaps = 20/2714 (0%)
Frame = +3
Query: 13383 RVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNLLDSY 13562
RV G SAARL PC GT D RAFD+YN+ + K LK+NC RF+ D++ D++
Sbjct: 4077 RVRGSSAARLEPCN-GTDIDYCVRAFDVYNKDASFIGKNLKSNCVRFKNVDKD----DAF 4131
Query: 13563 FVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMADLVY 13742
++VKR S HE+++YNL+K C AVA HDFF + + ++SRQ LTKYTM DL +
Sbjct: 4132 YIVKRCIKSVMDHEQSMYNLLKGCNAVAKHDFFTWHEGRTIYGNVSRQDLTKYTMMDLCF 4191
Query: 13743 ALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQSLLKT 13922
ALR+FDE +C+ KEILV CC DYF K+W+D +EN DI RVYA LG+ V ++LK
Sbjct: 4192 ALRNFDEKDCEVFKEILVLTGCCSTDYFEMKNWFDPIENEDIHRVYAALGKVVANAMLKC 4251
Query: 13923 VQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPILTLTR 14102
V FCD M G+VGVLTLDNQDLNGN+YDFGDFV PG G+P SYYS +MP++ +T
Sbjct: 4252 VAFCDEMVLKGVVGVLTLDNQDLNGNFYDFGDFVLCPPGMGIPYCTSYYSYMMPVMGMTN 4311
Query: 14103 ALAAESHMDADLAKPLIK-WDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDRCIL 14279
LA+E M +D+ K +DLLKYDFTE + LF++YFKYW Q YHP+C++C D+ CIL
Sbjct: 4312 CLASECFMKSDIFGQDFKTFDLLKYDFTEHKEVLFNKYFKYWGQDYHPDCVDCHDEMCIL 4371
Query: 14280 HCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRLSF 14459
HC+NFN LF+T P T+FGPL RK+F+DGVP V + GYHF++LG+V N+DVN HS+RL+
Sbjct: 4372 HCSNFNTLFATTIPNTAFGPLCRKVFIDGVPVVATAGYHFKQLGLVWNKDVNTHSTRLTI 4431
Query: 14460 KELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSKGF 14639
ELL + DP + AS L+DKRT CFSVAAL+ + QTVKPG+FNK+FYDF S+GF
Sbjct: 4432 TELLQFVTDPTLIVASSPALVDKRTVCFSVAALSTGLTSQTVKPGHFNKEFYDFLRSQGF 4491
Query: 14640 FKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCI 14819
F EGS + LKHFFF Q G+AAI D+DYYRYN PTM DI Q +V +YFDCY+GGCI
Sbjct: 4492 FDEGSELTLKHFFFTQKGDAAIKDFDYYRYNRPTMLDIGQARVAYQVAARYFDCYEGGCI 4551
Query: 14820 NANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAI 14999
+ +V+V NL+KSAG+P NK+GKA LYY+S+SYE+QDA+F+ TKRN++PT+TQ+NLKYAI
Sbjct: 4552 TSREVVVTNLNKSAGWPLNKFGKAGLYYESISYEEQDAIFSLTKRNILPTMTQLNLKYAI 4611

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Query: 15000 SAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSD 15179
S K RARTV GVS+ +TMT RQFHQK LKSI ATR ATVVIGT+KFYGGW NMLK + +D
Sbjct: 4612 SGKERARTVGGVSLLATMTTRQFHQKCLKSIVATRNATVVIGTTKFYGGWDNMLKNLMAD 4671
Query: 15180 VETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVM 15359
V+ P LMGWDYPKCDRAMP+M+R++++++L KH TCC S +FYRL+NE AQVL+E+V
Sbjct: 4672 VDDPKLMGWDYPKCDRAMPSMIRMLSAMILGSKHVTCCTASDKFYRLSNELAQVLTEVVY 4731
Query: 15360 CGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLY 15539
G Y KPGGT+SGDATTAYANSVFNI QAV++N+N +LS + + + V+ LQ +LY
Sbjct: 4732 SNGGFYFKPGGTTSGDATTAYANSVFNIFQAVSSNINCVLSVNSSNCNNFNVKKLQRQLY 4791
Query: 15540 ECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAVLYY 15719
+ YRN +VD FVD+FY YL+KHFSMMILSDD+VVCYN YA G +A I FKA LYY
Sbjct: 4792 DNCYRNSNVDESFVDDFYGYLQKHFSMMILSDDSVVCYNKTYAGLGYIADISAFKATLYY 4851
Query: 15720 QNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIV 15899
QN VFMS AKCWTE DL+ GPHEFCSQHTM + + YLPYPDPSRI+ AG FVDDI
Sbjct: 4852 QNGVFMSTAKCWTEEDLSIGPHEFCSQHTMQIVDENGKYYLPYPDPSRIISAGVFVDDIT 4911
Query: 15900 KTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVMLT 16079
KTD +++ER+VSLAIDAYPL+KHP EY VF+ L +++ L+ L +L+ +SV L
Sbjct: 4912 KTDAVILLERYVSLAIDAYPLSKHPKPEYRKVFYALLDWVKHLNKTLNEGVLESFSVTLL 4971
Query: 16080 NDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHVIS 16259
+++ S++W+ FY +MY TVLQA G CV+C SQT LRCG C+RRP LC KC YDHV
Sbjct: 4972 DEHESKFWDESFYASMYEKSTVLQAAGLCVVCGSQTVLRCGDCLRRPMLCTKCAYDHVFG 5031
Query: 16260 TSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLYKNT 16439
T HK +L++ PYVCN GC+V DVT+LYLGG++YYC HKP +SFPLC+ G VFGLYK++
Sbjct: 5032 TDHKFILAITPYVCNTSGCNVNDVTKLYLGGLNYYCVDHKPHLSFPLCSAGNVFGLYKSS 5091
Query: 16440 CVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIATVRE 16619
+GS ++ FN ++T DW++ DY LAN E L+LFAAET+KA EE+ K SY AT++E
Sbjct: 5092 ALGSMDIDVFNKLSTSDWSDIRDYKLANDAKESLRLFAAETVKAKEESVKSSYAYATLKE 5151
Query: 16620 VLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYG-DAVVYRGTT 16796
++ +EL L WE GK +PPLNRN VFT +++TK+SK Q+GE+ FEK DYG D V Y+ T
Sbjct: 5152 IVGPKELLLLWESGKAKPPLNRNSVFTCFQITKDSKFQVGEFVFEKVDYGSDTVTYKSTA 5211
Query: 16797 TYKLNVGDYFVLTSHTVMPLSAPTLVPQEHYVRITGLYPTLNISDEFSSNVANYQKVGMQ 16976
T KL G F+LTSH V PL APT+ QE Y I L+P+ N+SD +++ V YQ +G Q
Sbjct: 5212 TTKLVPGMLFILTSHNVAPLRAPTMANQEKYSTIYKLHPSFNVSDAYANLVPYYQLIGKQ 5271
Query: 16977 KYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCSRIIP 17156
+ +T+QGPPG+GKSH +IG+ +YYP ARIV+TACSHAAVD+LC KA+ +DKC+RIIP
Sbjct: 5272 RITTIQGPPGSGKSHCSIGIGVYYPGARIVFTACSHAAVDSLCAKAVTAYSVDKCTRIIP 5331
Query: 17157 ARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARLRAKH 17336
ARARVEC+ FK N+ QYVF TVNALPE ADIVV DE+SM TNYDLSV+N R+ KH
Sbjct: 5332 ARARVECYSGFKPNNNSAQYVFSTVNALPEVNADIVVVDEVSMCTNYDLSVINQRISYKH 5391
Query: 17337 YVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDTVSAL 17516
VY+GDP QLPAPR L++KG +EP +N V + M IGPD+FL C RCPAEIV+TVS L
Sbjct: 5392 IVYVGDPQQLPAPRVLISKGVMEPIDYNVVTQRMCAIGPDVFLHKCYRCPAEIVNTVSEL 5451
Query: 17517 VYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVFISPY 17696
VY+NK K+ S QCFK+F +G + D S+INR Q+ VV+ F+ +N W KAVFISPY
Sbjct: 5452 VYENKFVPVKEASKQCFKIFERGSVQVDNGSSINRRQLDVVKRFIHKNSTWSKAVFISPY 5511

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Query: 17697 NSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKIGILCI 17876
NSQN VA+++LGL TQTVDS+QGSEYDYVIF QT++TAH+CN NRFNVAITRAK GI CI
Sbjct: 5512 NSQNYVAARLLGLQTQTVDSAQGSEYDYVIFAQTSDTAHACNANRFNVAITRAKKGIFCI 5571
Query: 17877 MSDRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKIITGLHPTQAPTHLSVDIKFK 18056
MSDR L+D L+F + + LQ+E+ GLFKDC++ L P+ A T+LS+ +FK
Sbjct: 5572 MSDRTLFDALKFFEI-----TMTDLQSESSCGLFKDCARNPIDLPPSHATTYLSLSDRFK 5626
Query: 18057 TEG-LCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGFDVEG 18233
T G L V I G TY +IS MGF+ + + G ++F TR+ A+RHVR W+G DVEG
Sbjct: 5627 TSGDLAVQI-GNNNVCTYEHVISYMGFRFDVSMPGSHSLFCTRDFAMRHVRGWLGMDVEG 5685
Query: 18234 CHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQFKHLIPLM 18413
H T D VGTN+PLQ+GFS GV+ VA P G V T + V A+ PPG+QF H++PL+
Sbjct: 5686 AHVTGDNVGTNVPLQVGFSNGVDFVAQPEGCVLTNTGSVVKPVRARAPPGEQFTHIVPLL 5745
Query: 18414 YKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCLCDKR 18593
KG PW+V+R +IVQM++D L G SD +VFVLWA G ELT+M+YFVKIG + C C
Sbjct: 5746 RKGQPWSVLRKRIVQMIADFLAGSSDVLVFVLWAGGLELTTMRYFVKIGAVKH-CQCGTV 5804
Query: 18594 ATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHGNAHVASCD 18773
ATC+++ S+ Y C+ H++G DYVYNP++ID+QQWG+ G+L +NH C VH N HVAS D
Sbjct: 5805 ATCYNSVSNDYCCFKHALGCDYVYNPYVIDIQQWGYVGSLSTNHHAICNVHRNEHVASGD 5864
Query: 18774 AIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADKFPVLHDIG 18953
AIMTRCLAV++CFVK VDWS+ YP+I +E +N R VQ ++++A+ +HDIG
Sbjct: 5865 AIMTRCLAVYDCFVKNVDWSITYPMIANENAINKGGRTVQSHIMRAAIKLYNPKAIHDIG 5924
Query: 18954 NPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFWNCNVDRYP 19133
NPK I+C + +W YD P + ++ L Y Y TH DG+CLFWNCNVD YP
Sbjct: 5925 NPKGIRCA-VTDAKWYCYDKNPINS---NVKTLEYDYMTHGQ--MDGLCLFWNCNVDMYP 5978
Query: 19134 ANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFFYYSDSPCE 19313
+IVCRFDTR S LNL G +GGSLYVN HAFHTPA+DK A LK PFFYY D CE
Sbjct: 5979 EFSIVCRFDTRTRSTLNLEGVNGGSLYVNNHAFHTPAYDKRAMAKLKPAPFFYYDDGSCE 6038
Query: 19314 SHGKQVVSD-IDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAGFSLWIYK 19490
VV D ++YVPL++ CIT+CN+GGAVC HAN YR Y+++YN+ AGF++W+
Sbjct: 6039 -----VVHDQVNYVPLRATNCITKCNIGGAVCSKHANLYRAYVESYNIFTQAGFNIWVPT 6093
Query: 19491 QFDTYNLWNTFT--RLQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGIDVEIF 19664
FD YNLW TFT LQ LEN+A+NVVNKG F G GE PV+I + V+ + D +F
Sbjct: 6094 TFDCYNLWQTFTEVNLQGLENIAFNVVNKGSFVGADGELPVAISGDKVFVRDGNTDNLVF 6153
Query: 19665 ENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKREAPAHVSTIGVCT 19844
NKT+LP N+AFEL+AKR + P + IL NLGV V+WDY+ E P T VC
Sbjct: 6154 VNKTSLPTNIAFELFAKRKVGLTPPLSILKNLGVVATYKFVLWDYEAERPLTSFTKSVCG 6213
Query: 19845 MTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGLTPSKGPAQASVN 20024
TD A E C+ +D ++G + F + N VL + +VK T K +N
Sbjct: 6214 YTDFA----EDVCT----CYDNSIQGSYERFTLSTNAVLFSATAVK--TGGKSLPAIKLN 6263
Query: 20025 GVTLIGESVKT---------QFNYFKKV--DGIIQQLPETYFTQSRDLEDFKPRSQMETD 20171
L G ++ T N+F V DG + ++TQ R+L+DF PRS ME D
Sbjct: 6264 FGMLNGNAIATVKSEDGNIKNINWFVYVRKDGKPVDHYDGFYTQGRNLQDFLPRSTMEED 6323
Query: 20172 FLELAMDEFIQRYKLEGYAFEHIVYGDFSHGQLGGLHLMIGLAKRSQDSPLKLEDFI-PM 20348
FL + + FIQ+Y LE + FEH+VYGD S LGGLHL+I + S+ LK E+F+
Sbjct: 6324 FLNMDIGVFIQKYGLEDFNFEHVVYGDVSKTTLGGLHLLISQVRLSKMGILKAEEFVAAS 6383

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Query: 20349 DSTVKNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKSQDLSVISKVVKVTIDYAEISFML 20528
D T+K +T SSK VC+ +DLLLDDFV ++KS DL+V+SKV +V ID +ML
Sbjct: 6384 DITLKCCTVTYLNDPSSKTVCTYMDLLLDDFVSVLKSLDLTVVSKVHEVIIDNKPWRWML 6443
Query: 20529 WCKDGHVETFYPKLQASRAWQPGVAMPNLYKMQRMLLEKCDLQNYGENAVIPKGIMMNVA 20708
WCKD V TFYP+LQ S W+ G +MP +YK QRM LE C+L NYG +P GIM NV
Sbjct: 6444 WCKDNAVATFYPQLQ-SAEWKCGYSMPGIYKTQRMCLEPCNLYNYGAGLKLPSGIMFNVV 6502
Query: 20709 KYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVDSDLNDFVS 20888
KYTQLCQY N+ TL VP+NMRV+H GAGSD GVAPGTAVL++WLP ++VD+D+ D+VS
Sbjct: 6503 KYTQLCQYFNSTTLCVPHNMRVLHLGAGSDYGVAPGTAVLKRWLPHDAIVVDNDVVDYVS 6562
Query: 20889 DAYSTLIGDCATVHTANKWDLIISDMYDPRTKHVTKENDSKEGFFTYLCGFIKQKLALGG 21068
DA ++ GDCATV+ +K+DL+ISDMYD RTK + EN SKEGFFTY+ GFI +KLA+GG
Sbjct: 6563 DADFSVTGDCATVYLEDKFDLLISDMYDGRTKAIDGENVSKEGFFTYINGFICEKLAIGG 6622
Query: 21069 SIAVKITEHSWNADLYKLMGHFSWWTAFVTNVNASSSEAFLIGANYLGKPKEQ--IDGYT 21242
SIA+K+TE+SWN LY+L+ FS+WT F T+VN SSSEAF++G NYLG + IDG
Sbjct: 6623 SIAIKVTEYSWNKKLYELVQRFSFWTMFCTSVNTSSSEAFVVGINYLGDFAQGPFIDGNI 6682
Query: 21243 MHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSLKENQINDMIYSLLEKGRLIIR 21422
+HANY+FWRN+ + LS S+ D+SKF K + T V+ LK++ IN+M+ SL+ G+L++R
Sbjct: 6683 IHANYVFWRNSTVMSLSYNSVLDLSKFNCKHKATVVVQLKDSDINEMVLSLVRSGKLLVR 6742
Query: 21423 ENNRVVVSSDILVN 21464
N + + S+ LV+
Sbjct: 6743 GNGKCLSFSNHLVS 6756
Score = 1056 bits (2732), Expect(2) = 0.0
Identities = 708/2234 (31%), Positives = 1096/2234 (49%), Gaps = 28/2234 (1%)
Frame = +1
Query: 6766 TTIAKNSVKSVAKLCLDAGINYVKSPKFSKLFTIAM-----WXXXXXXXXXXXXXVTAAF 6930
T + VK +AK G+ +S K++ + A+ W +
Sbjct: 1949 TAVTTGDVKIMAKAPQRTGVVLKRSLKYNLKASAAVLKSKWWLLAKFTKLLLLIYTLYSV 2008
Query: 6931 GVLLSNFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETIQVT 7110
+L FG ++C+ Y S N D+C+GS C +CL G L + L+ +
Sbjct: 2009 VLLCVRFGPFNFCSETVNGYAKS-NFVKDDYCDGSLGCKMCLFGYQELSQFSHLDVVWKH 2067
Query: 7111 IS----SYKLDLTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMW 7278
I+ S ++ L + Y+ +++ + + + VF GY ++ W +
Sbjct: 2068 ITDPLFSNMQPFIVMVLLLIFGDNYLRCFLLYFVAQMISTVGVFLGYKETN-----WFLH 2122
Query: 7279 FIIS--IVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECT 7452
FI I V+ +V I F H++ GC + C+ C K R R
Sbjct: 2123 FIPFDVICDELLVTVIVIKVISFVR---------HVLFGCENPDCIACSKSARLKRFPVN 2173
Query: 7453 TIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPT 7632
TIVNG++RSFYV ANGG FCK H + C++CD++ GSTFI+ EV+R+L K + PT
Sbjct: 2174 TIVNGVQRSFYVNANGGSKFCKKHRFFCVDCDSYGYGSTFITPEVSRELGNITKTNVQPT 2233
Query: 7633 DQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFD 7812
+ ++D V +NG LY +T+ R+ + + + ++ + IVF+
Sbjct: 2234 GPAYVMIDKVEFENGFYRLY----SCETFWRYNFDITESKYSCKEVFKNCNVLDDFIVFN 2289
Query: 7813 GKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSV 7992
+ + K+ASVY+SQL+C+PI L+D L+S + S + + + AY+D +F

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Sbjct: 2290 NNGT-NVTQVKNASVYFSQLLCRPIKLVDSELLSTL--SVDFNGVLHKAYIDVLRNSFG- 2345
Query: 7993 PMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHSDLE 8172
+ L A ++ A + A G+++ F SA + +H D+
Sbjct: 2346 --KDLNANMSLAECKRALGLSISD--HEFTSA------------------ISNAHRCDVL 2383
Query: 8173 VTGDSCNNFMLTYNKVEN-MTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSE 8349
++ S NNF+ +Y K E ++ DL C+ A+ +NA V ++W+ KD+ SLS
Sbjct: 2384 LSDLSFNNFVSSYAKPEEKLSAYDLACCMRAGAKVVNANVLTKDQTPIVWHAKDFNSLSA 2443
Query: 8350 QLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLK-GGKIVSTCFKLMLKATXXXXX 8526
+ RK I +K + F LT + V + T I K G +
Sbjct: 2444 EGRKYIVKTSKAKGLTFLLTINENQAVTQIPATSIVAKQGAGDAGHSLTWLWLLCGLVCL 2503
Query: 8527 XXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAW-FSQR 8703
MP I + E +K I++G ++ + C N F+ W +++
Sbjct: 2504 IQFYLCFFMPYFMYDIVSSF--EGYDFKYIENGQLKNFEAPLKCVRNVFENFEDWHYAKF 2561
Query: 8704 GGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICY---- 8871
G + N +SCP+V + EI V G+P V + G L F + +CY
Sbjct: 2562 GFTPLNKQSCPIVVGV--SEIVNTVAGIPSNVY--LVGKTLIFTLQAAFGNAGVCYDIFG 2617
Query: 8872 --TPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYV 9045
TP K C+ + CT + G V YCY+T L+EGS+ YS ++ + Y
Sbjct: 2618 VTTPEK-----------CIFTSACTRLEGLGGNNV-YCYNTALMEGSLPYSSIQANAYYK 2665
Query: 9046 LMDGSIIQFPNTYLEG-SVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRAL 9222
+G+ I+ P +G R V T +YCR G C S G+C +W +N+ R
Sbjct: 2666 YDNGNFIKLPEVIAQGFGFRTVRTIATKYCRVGECVESNAGVCFGFD-KWFVNDG--RVA 2722
Query: 9223 SGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEY 9402
+G CG NL+ NI + +S ++ + + KFRR+FG+
Sbjct: 2723 NGYVCGTGLWNLVFNILSMFSSSFSVAAMSGQILLNCALGAFAIFCCFLVTKFRRMFGDL 2782
Query: 9403 NHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFAMFSP 9582
+ V + L++ + +V Y++ Y + T +++ + +
Sbjct: 2783 SVGVCTVVVAVLLN-NVSYIVTQNLVTMIAYAILYFFATRSLR--YAWIWCAAYLIAYIS 2839
Query: 9583 IVPFWITAIYVFCISLKHCHWFFNNYLRKRV---MFNGVTF-STFEEAALCTFLLNKEMY 9750
P+W+ A Y + + L+ +V +F G F TFE AA TF+++ Y
Sbjct: 2840 FAPWWLCAWYFLAMLTG----LLPSLLKLKVSTNLFEGDKFVGTFESAAAGTFVIDMRSY 2895
Query: 9751 LKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNSGADVLY 9930
KL + + + Y A YN+YKY+SG + YR A +LAKA+ DFS D+LY
Sbjct: 2896 EKLANS--ISPEKLKSYAASYNRYKYYSGNANEADYRCACYAYLAKAMLDFSRDHNDILY 2953
Query: 9931 QPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICT-A 10107
PP S S LQ+G RKMA PSG VE C+V+V G T LNGLWL D VYCPRHVI +
Sbjct: 2954 TPPTVSYGST-LQAGLRKMAQPSGFVEKCVVRVCYGNTVLNGLWLGDIVYCPRHVIASNT 3012
Query: 10108 EDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRI 10287
++ ++E ++R H+F + +G L V+G +M L++KV +N TP++ F +
Sbjct: 3013 TSAIDYDHEYSIMRL--HNFSIISGTAFLGVVGATMHGVTLKIKVSQTNMHTPRHSFRTL 3070
Query: 10288 QPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHME 10467
+ G+ F++LACY+G GV+ MR N TI+GSF+NG+CGS G+N+ V F YMH +E
Sbjct: 3071 KSGEGFNILACYDGCAQGVFGVNMRTNWTIRGSFINGACGSPGYNLKNGEVEFVYMHQIE 3130
Query: 10468 LPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTT 10647
L +G H G+ +G YG F D+ Q + +T+NV+A+LYAA++NG W+L

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Sbjct: 3131 LGSGSHVGSSFDGVMYGGFEDQPNLQVESANQMLTVNVVAFLYAAILNGCTWWLKGEKLF 3190
Query: 10648 LNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTI 10827
+ +N A + + + D L+A+TG+ V + A+ ++L NG G+ ILG +
Sbjct: 3191 VEHYNEWAQANGFTAMNGE--DAFSILAAKTGVCVERLLHAI-QVLNNGFGGKQILGYSS 3247
Query: 10828 LEDEFTPFDVVRQCSGVTFQ-GKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFVYE 11004
L DEF+ +VV+Q GV Q GK + K + V +T +V
Sbjct: 3248 LNDEFSINEVVKQMFGVNLQSGKTTSMFKSISLFAGFFVMFWAELFVYTTT----IWVNP 3303
Query: 11005 NAFLPFTLGIMAIAACAMLLVKHKHAFLCLFLLPSLATVAYFNMVYMPASWVMRIMTWLE 11184
PF + ++A++ C +VKHK FL +FLLPS+ A N + V +++
Sbjct: 3304 GFLTPFMILLVALSLCLTFVVKHKVLFLQVFLLPSIIVAAIQNCAW--DYHVTKVLAEKF 3361
Query: 11185 LADTSLSGYRLKDCVMYASALVLLILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALD 11364
+ S+ ++ V L + +L T R + L ++I ++Y Y
Sbjct: 3362 DYNVSVMQMDIQGFVNIFICLFVALLHTWRFAKERCTHWCTYLFSLIAVLYTALYSY--- 3418
Query: 11365 QAISMWALVISVTSNYSGVVTTIMFLAR-AIVFVCVEYYPLLFITGNTLQCIMLVXXXXX 11541
+S+ +++ SN + I + R + F+ VEY + ++ ++L
Sbjct: 3419 DYVSLLVMLLCAISNEWYIGAIIFRICRFGVAFLPVEYVSYF----DGVKTVLLFYMLLG 3474
Query: 11542 XXXXXXXXXXXXXNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGI 11721
NR+ + TLGVYD+ VS EF+YM + GL P DA L+ KL+GI
Sbjct: 3475 FVSCMYYGLLYWINRFCKCTLGVYDFCVSPAEFKYMVANGLNAPNGPFDALFLSFKLMGI 3534
Query: 11722 GGKPCIKVATVQSKMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKDTTEA 11901
GG IKV+TVQSK++D+KCT K WA CV++HN I L D A
Sbjct: 3535 GGPRTIKVSTVQSKLTDLKCTNVVLMGILSNMNIASNSKEWAYCVEMHNKINLCDDPETA 3594
Query: 11902 FEKMXXXXXXXXXMQGAVDINRLCEEMLDNRATLQAIASEFSSLPSXXXXXXXXXXXXXX 12081
E + + L + +N + LQ++AS F +PS
Sbjct: 3595 QELLLALLAFFLSKHSDFGLGDLVDSYFENDSILQSVASSFVGMPSFVAYETARQEYENA 3654
Query: 12082 XXNGDXXXXXXXXXXXXXXXXXEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTS 12261
NG EFDR++++Q+K+ +MA+QA MYK+AR+ ++++KV S
Sbjct: 3655 VANGSSPQIIKQLKKAMNVAKAEFDRESSVQKKINRMAEQAAAAMYKEARAVNRKSKVVS 3714
Query: 12262 AMQTMLFTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGN 12441
AM ++LF MLR+ R+G VPL++IP T+AA+L+VVVPD+ ++
Sbjct: 3715 AMHSLLFGMLRRLDMSSVDTILNMARNGVVPLSVIPATSAARLVVVVPDHDSFVKMMVDG 3774
Query: 12442 TFTYASALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTALRANSAVKLQNNELSPV 12621
YA +W +Q+V D D K V L ++ +N L WPLI+T R VKLQNNE+ P
Sbjct: 3775 FVHYAGVVWTLQEVKDNDGKNVHLKDVTKENQEILVWPLILTCER---VVKLQNNEIMPG 3831
Query: 12622 ALRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYT 12801
++ + ++ NAL YNN G F+ A ++ +K+ ++ G T+
Sbjct: 3832 KMKVKATKGEGDGGITSEGNAL--YNNEGGRAFMYAYVTTKPGMKYVKWEHDSGVVTV-- 3887
Query: 12802 ELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEVPANSTVL 12981
ELEPPCRFV DTP GP++KYLYF+K LNNL RG VLG + ATVRLQAG TE +NS +L
Sbjct: 3888 ELEPPCRFVIDTPTGPQIKYLYFVKNLNNLRRGAVLGYIGATVRLQAGKQTEFVSNSHLL 3947
Query: 12982 SFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCC 13161
+ C+FAVDPA AY D + G +P+ NCVKML +G+GQAIT T ++N Q+++GGAS C
Sbjct: 3948 THCSFAVDPAAAYLDAVKQGAKPVGNCVKMLTNGSGSGQAITCTIDSNTTQDTYGGASVC 4007
Query: 13162 LYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSCDQLR 13341
+YCR H+ HP GFC KGK+VQ+P NDP+ F L NTVC VCG W +GC+CD+

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Sbjct: 4008 IYCRAHVAHPTMDGFCQYKGKWVQVPIG-TNDPIRFCLENTVCKVCGCWLNHGCTCDR-- 4064
Query: 13342 EPLMQSADASTFLN 13383
+QS D +++LN
Sbjct: 4065 -TAIQSFD-NSYLN 4076
Score = 80.9 bits (198), Expect = 1e-12
Identities = 82/296 (27%), Positives = 132/296 (44%), Gaps = 13/296 (4%)
Frame = +1
Query: 3289 DNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNG 3468
DNVA D+ + IVNAAN +L HGGG+A AL+ T G +Q+ S ++I L G
Sbjct: 1279 DNVAFYQGDVDTVVNGVDFDFIVNAANENLAHGGGLAKALDVYTKGKLQRLSKEHIGLAG 1338
Query: 3469 PLTVGGSCLLSGHNLAKKCLHVVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFG 3648
+ VG ++ +L + +VVGP E L+KA N Q L P+LS GIFG
Sbjct: 1339 KVKVGTGVMVECDSL--RIFNVVGPRKGKHERDLLIKAYNTINNEQGTPLTPILSCGIFG 1396
Query: 3649 AKPLQSLQVCVQTVRT---QVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDS 3819
K SL+V + T +V++ + + + + L N++ +VE PK E P
Sbjct: 1397 IKLETSLEVLLDVCNTKEVKVFVYTDTEVCKVKDFVSGLVNVQ-KVEQPKIEPKP----- 1450
Query: 3820 KTEEKSVVQKPVDVKPKIKACIDEVTTTLEETKFL--TNKLLLFADINGKLYHDSQNMLR 3993
V KP V K +++ ++ + T+ +L D L + +L
Sbjct: 1451 -VSVIKVAPKPYRVDGKFSYFTEDLLCVADDKPIVLFTDSMLTLDDRGLALDNALSGVLS 1509
Query: 3994 G--EDMSFLEKDAP------YMVGDVITSGDITCVVIPSKKAGGTTEMLSRALKKV 4137
+D + K P + +G V+ + V+PS+K + R +K+
Sbjct: 1510 AAIKDCVDINKAIPSGNLIKFDIGSVV----VYMCVVPSEKDKHLDNNVQRCTRKL 1561
Score = 71.2 bits (173), Expect = 9e-10
Identities = 83/336 (24%), Positives = 138/336 (41%), Gaps = 14/336 (4%)
Frame = +1
Query: 4870 EVKTIKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPS 5049
E K I + T D N+H V ++ QQ G D++ P + +
Sbjct: 1599 EAKVITIKVTEDGVNVHDVTVTTDKSFEQQVGVIADKDKDLSGAVPSDLNTSELLTKAID 1658
Query: 5050 DDTLRSEAFE---YYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVL 5220
D + F+ + T+D S Y SA+ V G+ +K +DNNC++++V
Sbjct: 1659 VDWVEFYGFKDAVTFATVDHSAFA-YESAV----------VNGIRVLKTSDNNCWVNAVC 1707
Query: 5221 LALQQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQH-A 5397
+ALQ + F + L A+ + GD F A + + G+ GD +T+T L ++ A
Sbjct: 1708 IALQYSKPHFISQGLDAAWNKFVLGDVEIFVAFVYYVARLMKGDKGDAEDTLTKLSKYLA 1767
Query: 5398 NLESAKRVLNVVCKHCGQK-TTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLV 5574
N + C C K ++ + + + ++ D ++ G CV G +
Sbjct: 1768 NEAQVQLEHYSSCVECDAKFKNSVASINSAIVCASVKRDGVQVGY---CVHGIKYYSRVR 1824
Query: 5575 QQESSFVMMSA----PPAEYKLQQGTFLCANEYTGNYQCGHYT-HITAKETLYRIDGAHL 5739
+++S P A+ +L G A ++G GHYT + TAK+++Y DG
Sbjct: 1825 SVRGRAIIVSVEQLEPCAQSRLLSGVAYTA--FSGPVDKGHYTVYDTAKKSMY--DGDRF 1880
Query: 5740 TKMSEYKGPVTDVF----YKETSYTTTIKPVSYKLD 5835
K VT V Y T KPV +LD

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Sbjct: 1881 VKHDLSLLSVTSVVMVGGYVAPVNTVKPKPVINQLD 1916
Score = 51.2 bits (121), Expect = 0.001
Identities = 61/266 (22%), Positives = 109/266 (40%), Gaps = 8/266 (3%)
Frame = +1
Query: 5152 FPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALILAY 5331
F ++ GL +K DNNC+++SV+L +Q + A+Q + G A
Sbjct: 1038 FEELNGLKILKQLDNNCWVNSVMLQIQLTGILDGDYAMQ----FFKMGRVAKMIERCYTA 1093
Query: 5332 SNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLSYD 5511
G +GDV M LL+ +L + V++ C C +G AV++ T +
Sbjct: 1094 EQCIRGAMGDVGLCMYRLLK--DLHTGFMVMDYKCS-CTSGRLEESG--AVLFC-TPTKK 1147
Query: 5512 NLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGHY- 5688
G + C R T +Q FV P +C++ + G CGHY
Sbjct: 1148 AFPYGTCLNCNAPRMCTIRQLQGTIIFVQQKPEPVNPVSFVVKPVCSSIFRGAVSCGHYQ 1207
Query: 5689 THITAKETLYRIDGAHLTKMSEY-KGPVTDVFYKETSYTT----TIKPVSYKLDGVTYTE 5853
T+I ++ +DG + K+ + + + K+ Y ++ P+ +D E
Sbjct: 1208 TNIYSQNLC--VDGFGVNKIQPWTNDALNTICIKDADYNAKVEISVTPIKNTVDTTPKEE 1265
Query: 5854 --IEPKLDGYYKKDNAYYTEQPIDLV 5925
++ KL+ + DN + + +D V
Sbjct: 1266 FVVKEKLNAFLVHDNVAFYQGDVDTV 1291
>gi|10242469|ref|NP_066134.1|
virus]
Length = 6629
ORF1ab polyprotein; frameshift product [Avian infectious br
Score = 3021 bits (7831), Expect(2) = 0.0
Identities = 1499/2721 (55%), Positives = 1934/2721 (71%), Gaps = 24/2721 (0%)
Frame = +3
Query: 13371 NVFKRVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQE--KDEEG 13544
N RV G S ARL P +G DVV RAFD+ N++ AG + LK NC RFQE E+G
Sbjct: 3939 NYLNRVRGSSEARLIPLASGCDPDVVKRAFDVCNKESAGMFQNLKRNCARFQELRDTEDG 3998
Query: 13545 NL--LDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTK 13718
NL LDSYFVVK+ T SNY+HE++ Y +K A HDFF F + + +ISRQRLTK
Sbjct: 3999 NLEYLDSYFVVKQTTPSNYEHEKSCYEDLKS-EVTADHDFFVFNKN---IYNISRQRLTK 4054
Query: 13719 YTMADLVYALRHFDEGNCDTLKEILVTYNCCDDD----YFNKKDWYDFVENPDILRVYAN 13886
YTM D YALRHFD +C+ LKEILVTY C +D + KDWYD +EN + A
Sbjct: 4055 YTMMDFCYALRHFDPKDCEVLKEILVTYGCIEDYHPKWFEENKDWYDPIENSKYYVMLAK 4114
Query: 13887 LGERVRQSLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSY 14066
+G VR++LL ++F + M + G VGV+TLDNQDLNG +YDFGDF + APG GVP+ D+Y
Sbjct: 4115 MGPIVRRALLNAIEFGNLMVEKGYVGVITLDNQDLNGKFYDFGDFQKTAPGAGVPVFDTY 4174
Query: 14067 YSLLMPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPN 14246
YS +MPI+ +T ALA E + + D+ K +DLLKYD+TEE+ LF +YFKYWDQ YHPN
Sbjct: 4175 YSYMMPIIAMTDALAPERYFEYDVHKGYKSYDLLKYDYTEEKQELFQKYFKYWDQEYHPN 4234
Query: 14247 CINCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQ 14426
C +C DDRC++HCANFN+LFST+ P TSFG L RK+FVDGVPF+ + GYH +ELGV+ NQ

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Sbjct: 4235 CRDCSDDRCLIHCANFNILFSTLIPQTSFGNLCRKVFVDGVPFIATCGYHSKELGVIMNQ 4294
Query: 14427 DVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNK 14606
D + S++ +L+ + DPA+ + N L+D RT+CFSV ALT+ + QTVKPG+FNK
Sbjct: 4295 DNTMSFSKMGLSQLMQFVGDPALLVGTSNNLVDLRTSCFSVCALTSGITHQTVKPGHFNK 4354
Query: 14607 DFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVD 14786
DFYDFA G FKEGSS+ LKHFF+ Q GNAAI+DYDYYRYN PTM DI QLLF +EV
Sbjct: 4355 DFYDFAEKAGMFKEGSSIPLKHFFYPQTGNAAINDYDYYRYNRPTMFDICQLLFCLEVTS 4414
Query: 14787 KYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIP 14966
KYF+CY+GGCI A+QV+VNNLDKSAG+PFNK+GKARLYY+ MS E+QD LF TK+NV+P
Sbjct: 4415 KYFECYEGGCIPASQVVVNNLDKSAGYPFNKFGKARLYYE-MSLEEQDQLFEITKKNVLP 4473
Query: 14967 TITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGG 15146
TITQMNLKYAISAKNRARTVAGVSI STMTNRQFHQK+LKSI TR A+VVIGT+KFYGG
Sbjct: 4474 TITQMNLKYAISAKNRARTVAGVSILSTMTNRQFHQKILKSIVNTRNASVVIGTTKFYGG 4533
Query: 15147 WHNMLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLAN 15326
W NML+ + VE P LMGWDYPKCDRAMPN+LRI ASLVLARKH CC+ S R YRL N
Sbjct: 4534 WDNMLRNLIQGVEDPILMGWDYPKCDRAMPNLLRIAASLVLARKHTNCCSWSERIYRLYN 4593
Query: 15327 ECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIAD 15506
ECAQVLSE V+ G +YVKPGGTSSGDATTAYANSVFNI QA +ANV LLS I
Sbjct: 4594 ECAQVLSETVLATGGIYVKPGGTSSGDATTAYANSVFNIIQATSANVARLLSVITRDIVY 4653
Query: 15507 KYVRNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVA 15686
+++LQ+ LY+ +YR + D FV++FY+YL K+FS+MILSDD VVCYN+ A QGLVA
Sbjct: 4654 DNIKSLQYELYQQVYRRVNFDPAFVEKFYSYLCKNFSLMILSDDGVVCYNNTLAKQGLVA 4713
Query: 15687 SIKNFKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRI 15866
I F+ VLYYQNNVFM+++KCW E DL KGPHEFCSQHTMLV+ + YLPYPDPSRI
Sbjct: 4714 DISGFREVLYYQNNVFMADSKCWVEPDLEKGPHEFCSQHTMLVEVDGEPKYLPYPDPSRI 4773
Query: 15867 LGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTG 16046
LGA FVDD+ KT+ ++ER+++LAIDAYPL H N+EY VF + L YIRKL+ EL+
Sbjct: 4774 LGACVFVDDVDKTEPVAVMERYIALAIDAYPLVHHENEEYKKVFFVLLAYIRKLYQELSQ 4833
Query: 16047 HMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFL 16226
+ML YS ++ D S++WE EFYE MY T LQ+ G CV+CNSQT LRCG CIR+PFL
Sbjct: 4834 NMLMDYSFVMDIDKGSKFWEQEFYENMYRAPTTLQSCGVCVVCNSQTILRCGNCIRKPFL 4893
Query: 16227 CCKCCYDHVISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCA 16406
CCKCCYDHV+ T HK VLS+NPY+C+ GC DVT+LYLGGMSY+C +HKP +S PL +
Sbjct: 4894 CCKCCYDHVMHTDHKNVLSINPYICSQLGCGEADVTKLYLGGMSYFCGNHKPKLSIPLVS 4953
Query: 16407 NGQVFGLYKNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETF 16586
NG VFG+Y+ C GS+NV DFN +AT +W+ YILAN C++ L+ FAAET+KATEE
Sbjct: 4954 NGTVFGIYRANCAGSENVDDFNQLATTNWSIVEPYILANRCSDSLRRFAAETVKATEELH 5013
Query: 16587 KLSYGIATVREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDY 16766
K + A VREV SDREL LSWE GK RPPLNRNYVFTGY T+ SKVQ+G++TFEKG+
Sbjct: 5014 KQQFASAEVREVFSDRELILSWEPGKTRPPLNRNYVFTGYHFTRTSKVQLGDFTFEKGEG 5073
Query: 16767 GDAVVYRGTTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHYVRITGLYPTLNISDEFSSN 16946
D V Y+ T+T KL+VGD FVLTSH V+ L APTL PQ+ + R L P + + + F +N
Sbjct: 5074 KDVVYYKATSTAKLSVGDIFVLTSHNVVSLVAPTLCPQQTFSRFVNLRPNVMVPECFVNN 5133
Query: 16947 VANYQKVGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYL 17126
+ Y VG QK +T+QGPPG+GKSHFAIGLA+Y+ SAR+V+TACSHAAVDALCEKA K+L

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Sbjct: 5134 IPLYHLVGKQKRTTVQGPPGSGKSHFAIGLAVYFSSARVVFTACSHAAVDALCEKAFKFL 5193
Query: 17127 PIDKCSRIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLS 17306
+D C+RI+P R V+CF KFK N T ++Y+F T+NALPE + DI++ DE+SM TNY+LS
Sbjct: 5194 KVDDCTRIVPQRTTVDCFSKFKANDTGKKYIFSTINALPEVSCDILLVDEVSMLTNYELS 5253
Query: 17307 VVNARLRAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCP 17486
+N ++ ++ VY+GDPAQLPAPRTLL G+L P+ +N V LM + PD+FL C RCP
Sbjct: 5254 FINGKINYQYVVYVGDPAQLPAPRTLL-NGSLSPKDYNVVTNLMVCVKPDIFLAKCYRCP 5312
Query: 17487 AEIVDTVSALVYDNKLKAHKDKSAQCFKMFY---KGVITHDVSSAINRPQIGVVREFLTR 17657
EIVDTVS LVYD K A+ +S +CFK+ + H+ SA N Q+ V++F+ R
Sbjct: 5313 KEIVDTVSTLVYDGKFIANNPESRECFKVIVNNGNSDVGHESGSAYNTTQLEFVKDFVCR 5372
Query: 17658 NPAWRKAVFISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFN 17837
N WR+A+FISPYN+ N A ++LGL QTVDSSQGSEYDYVIF T ++ H+ N+NRFN
Sbjct: 5373 NKQWREAIFISPYNAMNQRAYRMLGLNVQTVDSSQGSEYDYVIFCVTADSQHALNINRFN 5432
Query: 17838 VAITRAKIGILCIMSDRD-LYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKIITGLHP 18014
VA+TRAK GIL +M RD LY L+FT L+ + +LQ TGLFK C+K +G+HP
Sbjct: 5433 VALTRAKRGILVVMRQRDELYSALKFTELD----SETSLQG---TGLFKICNKEFSGVHP 5485
Query: 18015 TQAPTHLSVDIKFKTEGLCVDIPGIP--KDMTYRRLISMMGFKMNYQVNGYPNMFITREE 18188
A T ++ +K + + ++TY+ LIS++GFKM+ V G NMFITR+E
Sbjct: 5486 AYAVTTKALAATYKVNDELAALVNVEAGSEITYKHLISLLGFKMSVNVEGCHNMFITRDE 5545
Query: 18189 AIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNA 18368
AIR+VR W+GFDVE HA +GTNLP Q+GFSTG + V P G VDT F VN+
Sbjct: 5546 AIRNVRGWVGFDVEATHACGTNIGTNLPFQVGFSTGADFVVTPEGLVDTSIGNNFEPVNS 5605
Query: 18369 KPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYF 18548
K PPG+QF HL L PW+V+R +IVQML+D L +SD VVFV W HG ELT+++YF
Sbjct: 5606 KAPPGEQFNHLRVLFKSAKPWHVIRPRIVQMLADNLCNVSDCVVFVTWCHGLELTTLRYF 5665
Query: 18549 VKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHD 18728
VKIG E+ C C RAT F++ + YACW H +GFD+VYNP ++D+QQWG++GNLQ NHD
Sbjct: 5666 VKIGKEQVCS-CGSRATTFNSHTQAYACWKHCLGFDFVYNPLLVDIQQWGYSGNLQFNHD 5724
Query: 18729 QHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVK 18908
HC VHG+AHVAS DAIMTRCLA++ F + V+W + YP I +E VNS+CR +Q M +
Sbjct: 5725 LHCNVHGHAHVASVDAIMTRCLAINNAFCQDVNWDLTYPHIANEDEVNSSCRYLQRMYLN 5784
Query: 18909 SALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFT 19088
+ + A K V++DIGNPK IKCV + +V ++FYD P +++ Y Y H DKF
Sbjct: 5785 ACVDALKVNVVYDIGNPKGIKCVRRGDVNFRFYDKNPI---VRNVKQFEYDYNQHKDKFA 5841
Query: 19089 DGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTN 19268
DG+C+FWNCNVD YP N++VCR+DTR LS NLPGC+GGSLYVNKHAF+TP FD+ +F N
Sbjct: 5842 DGLCMFWNCNVDCYPDNSLVCRYDTRNLSVFNLPGCNGGSLYVNKHAFYTPKFDRISFRN 5901
Query: 19269 LKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAY 19448
LK +PFF+Y SPCE+ V+ D V L + CIT+CN+GGAVC+ HA Y +++ +Y
Sbjct: 5902 LKAMPFFFYDSSPCETIQVDGVAQ-DLVSLATKDCITKCNIGGAVCKKHAQMYAEFVTSY 5960
Query: 19449 NMMISAGFSLWIYKQFDTYNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEAPVSIINNAV 19628
N ++AGF+ W+ + + YNLW +F+ LQS++N+AYN+ GH+D AGE P I + V
Sbjct: 5961 NAAVTAGFTFWVTNKLNPYNLWKSFSALQSIDNIAYNMYKGGHYDAIAGEMPTVITGDKV 6020
Query: 19629 YTKVDGIDVEIFENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKRE 19808
+ G++ +F N+TTLP +VAFEL+AKRNI+ +P +IL LGVD+ VIWDY +

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Sbjct: 6021 FVIDQGVEKAVFVNQTTLPTSVAFELYAKRNIRTLPNNRILKGLGVDVTNGFVIWDYANQ 6080
Query: 19809 APAHVSTIGVCTMTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGL <strong>199</strong>88
P + +T+ VC TDI + L VL+D R G F A N VL++ K
Sbjct: 6081 TPLYRNTVKVCAYTDIEP-------NGLVVLYDDRY-GDYQSFLAADNAVLVSTQCYKRY 6132
Query: <strong>199</strong>89 TPSKGPAQASV-NGVTLIGESVKTQFNYFKKVDGIIQQLPETYFTQSRDLEDFKPRSQME 20165
+ + P+ V NG+ L +K+V+G LP T TQ R E F+PRS +E
Sbjct: 6133 SYVEIPSNLLVQNGMPL---KDGANLYVYKRVNGAFVTLPNTINTQGRSYETFEPRSDIE 6189
Query: 20166 TDFLELAMDEFIQRYKLEGYAFEHIVYGDFSHGQLGGLHLMIGLAKRSQDSPLKLEDFIP 20345
DFL ++ + F++RY + +HI+YG+ QLGGLH +IG+ + + + L +
Sbjct: 6190 RDFLAMSEESFVERYG-KDLGLQHILYGEVDKPQLGGLHTVIGMYRLLRANKLNAKSVTN 6248
Query: 20346 MDSTV-KNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKS---QDLSVISKVVKVTIDYAE 20513
DS V +NYF+ + GS K VC+V+DLLLDDF+E++++ + + SKVV V+IDY
Sbjct: 6249 SDSDVMQNYFVL-SDNGSYKQVCTVVDLLLDDFLELLRNILKEYGTNKSKVVTVSIDYHS 6307
Query: 20514 ISFMLWCKDGHVETFYPKLQASRAWQPGVAMPNLYKMQRMLLEKCDLQNYGENAVIPKGI 20693
I+FM W +DG ++T YP+LQ+ AW G MP LYK+Q ++E C++ NYG +P GI
Sbjct: 6308 INFMTWFEDGSIKTCYPQLQS--AWTCGYNMPELYKVQNCVMEPCNIPNYGVGITLPSGI 6365
Query: 20694 MMNVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVDSDL 20873
+MNVAKYTQLCQYL+ T+ VP+NMRV+HFGAGSDKGVAPG+ VL+QWLP GTLLVD+D+
Sbjct: 6366 LMNVAKYTQLCQYLSKTTICVPHNMRVMHFGAGSDKGVAPGSTVLKQWLPEGTLLVDNDI 6425
Query: 20874 NDFVSDAYSTLIGDCATVHTANKWDLIISDMY---DPRTKHV-TKENDSKEGFFTYLCGF 21041
D+VSDA+ +++ DC +T +K+DL+ISDMY D + KH N+ + F YL F
Sbjct: 6426 VDYVSDAHVSVLSDCNKYNTEHKFDLVISDMYTDNDSKRKHEGVIANNGNDDVFIYLSSF 6485
Query: 21042 IKQKLALGGSIAVKITEHSWNADLYKLMGHFSWWTAFVTNVNASSSEAFLIGANYLG-KP 21218
++ LALGGS AVK+TE SW+ LY + +WWT F T VNASSSEAFLIG NYLG
Sbjct: 6486 LRNNLALGGSFAVKVTETSWHEVLYDIAQDCAWWTMFCTAVNASSSEAFLIGVNYLGASE 6545
Query: 21219 KEQIDGYTMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSLKENQINDMIYSLL 21398
K ++ G T+HANYIFWRN N +Q S+YS+FD++KF L+L+ T V++LK Q D++++L+
Sbjct: 6546 KVKVSGKTLHANYIFWRNCNYLQTSAYSIFDVAKFDLRLKATPVVNLKTEQKTDLVFNLI 6605
Query: 21399 EKGRLIIRENNRVVVSSDILV 21461
+ G+L++R+ +SD V
Sbjct: 6606 KCGKLLVRDVGNTSFTSDSFV 6626
Score = 978 bits (2527), Expect(2) = 0.0
Identities = 704/2239 (31%), Positives = 1053/2239 (47%), Gaps = 100/2239 (4%)
Frame = +1
Query: 6961 SYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETIQVTISSYKLDLTI 7140
S C ++ +S +V + +C F C +CL DSL Y +++
Sbjct: 1783 SLCGPYKDYGKDSFDV--LRYCADDFICRVCLHDKDSLHLYKHAYSVEQVYKD-----AA 1835
Query: 7141 LGLAAEWVLAYMLFTKFFY--LLGLSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVS 7314
G W Y++F F + G V Y + + NS ++ + + V
Sbjct: 1836 SGFIFNWNWLYLVFLILFVKPVAGF-----VIICYCVKYLVLNSTVLQTGVCFLDWF-VQ 1889
Query: 7315 AMVRMYIFFASFYYIWKSY-----VHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMKRS 7479
+ + F + +Y W Y VH + C TC +C + R+ R E + +V G K+
Sbjct: 1890 TVFSHFNFMGAGFYFWLFYKIYIQVHHILYCKDVTCEVCKRVARSNRQEVSVVVGGRKQI 1949

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Query: 7480 FYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIVDS 7659
+VY N G FCK HNW C NCD + +TF+S EVA +LS + KR + PT + ++VD
Sbjct: 1950 VHVYTNSGYNFCKRHNWYCRNCDDYGHQNTFMSPEVAGELSEKLKRHVKPTAYAYHVVDE 2009
Query: 7660 VAVKNGALHLYFDKAGQ-KTYERHPLSHFVNLDNLR-ANNTKGSLPINVIVFDGKSKCDE 7833
+ + ++L + A K + F D L+ A K +L I DG C+
Sbjct: 2010 ACLVDDFVNLKYKAATPGKDSASSAVKCFSVTDFLKKAVFLKEALKCEQISNDGFIVCNT 2069
Query: 7834 SAS------KSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVP 7995
++ K+A++YY+Q +C+PIL+LDQAL + VS + D S+ SV
Sbjct: 2070 QSAHALEEAKNAAIYYAQYLCKPILILDQALYEQLVVEP-VSKSVIDKVCSILSSIISVD 2128
Query: 7996 MEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHSDLEV 8175
TA G D +LS ++ H+ D++
Sbjct: 2129 ---------TAALNYKAGTLRDALLSI-------------TKDEEAVDMAIFCHNHDVDY 2166
Query: 8176 TGDSCNNFMLTYN-KVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQ 8352
TGD N + +Y +TPRD G I+ +A N +V + V +W + + LS+
Sbjct: 2167 TGDGFTNVIPSYGIDTGKLTPRDRGFLINADASIANLRVKNAPPV--VWKFSELIKLSDS 2224
Query: 8353 LRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISL--KGGKIVS---TCFKLMLKATXX 8517
K + SA K+ + F +T + +QV+ T K+ + K G IVS CFK K
Sbjct: 2225 CLKYLISATVKSGVRFFITKSGAKQVIACHTQKLLVEKKAGGIVSGTFKCFKSYFKWLLI 2284
Query: 8518 XXXXXXX---XYIVMPVHTLSIHDGY----TNEIIGYKAIQDGVTRDIISTDDCFANKHA 8676
Y M V +H Y T + G+K I GV R+I+ D CF+NK
Sbjct: 2285 FYILFTACCSGYYYMEVSKSFVHPMYDVNSTLHVEGFKVIDKGVLREIVPEDTCFSNKFV 2344
Query: 8677 GFDAWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGD-FLH-------- 8829
FDA++ G Y N ++CP+V A+I + G + G+PG V ++G F+H
Sbjct: 2345 NFDAFW---GRPYDNSRNCPIVTAVIDGD-GTVATGVPGFVSWVMDGVMFIHMTQTERKP 2400
Query: 8830 -FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYD-TNLLEG 9003
++P F+ + YT +I F TS + +A C ++ A P YC++ N G
Sbjct: 2401 WYIPTWFNRE-IVGYTQDSIITEGSFYTSIALFSARC-LYLTASNTPQLYCFNGDNDAPG 2458
Query: 9004 SISYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTS 9183
++ + + P Y +G + P L + VV YCR CE + G C+S +
Sbjct: 2459 ALPFGSIIPHRVYFQPNGVRLIVPQQILH-TPYVVKFVSDSYCRGSVCEYTRPGYCVSLN 2517
Query: 9184 GRWVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAA 9363
+WVL N+ Y + GVFCG L+ ++ + V ++ + +I ++V
Sbjct: 2518 PQWVLFNDEYTSKPGVFCGSTVRELMFSMVSTFFTGVNP-NIYMQLATMFLILVVVVLIF 2576
Query: 9364 YYFMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVS 9543
+KF+ VF Y V L+++++ ILC+ S L + V Y Y + + +
Sbjct: 2577 AMVIKFQGVFKAYATTVFITMLVWVINAFILCVHSYNSVLAVILLVLYCYASLVTSRNTV 2636
Query: 9544 FLAHLQWFAMFSPIVPFWITAIYVFCISLKHCH---WFFNNYLRKRVMFNGVTF-STFEE 9711
+ H F IVP W+ Y+ I + W + R +++G F ++
Sbjct: 2637 IIMHCWLVFTFGLIVPTWLACCYLGFIIYMYTPLFLWCYGTTKNTRKLYDGNEFVGNYDL 2696
Query: 9712 AALCTFLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKA 9891
AA TF++ ++KL +E ++ YL+ Y + KY+SG Y +A LA A
Sbjct: 2697 AAKSTFVIRGSEFVKLTNEIG---DKFEAYLSAYARLKYYSGTGSEQDYLQACRAWLAYA 2753
Query: 9892 LNDFSNSGADVLYQPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDD 10071
L+ + NSG +++Y PP+ SI + LQSGF+K+ PS VE C+V V+ LNGLWL D
Sbjct: 2754 LDQYRNSGVEIVYTPPRYSIGVSRLQSGFKKLVSPSSAVEKCIVSVSYRGNNLNGLWLGD 2813

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Query: 10072 TVYCPRHVICTAEDMLNPNYEDLLIRKSNHSFLVQAGN-VQLRVIGHSMQNCLLRLKVDT 10248
T+YCPRHV+ + D+L +NH F V + V L V+ ++ +L L+
Sbjct: 2814 TIYCPRHVL---GKFSGDQWNDVLNLANNHEFEVTTQHGVTLNVVSRRLKGAVLILQTAV 2870
Query: 10249 SNPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNID 10428
+N +TPKYKF++ G +F++ Y G+ G+Y MR N TI+ SFL G+CGSVGFNI+
Sbjct: 2871 ANAETPKYKFIKANCGDSFTIACAYGGTVVGLYPVTMRSNGTIRASFLAGACGSVGFNIE 2930
Query: 10429 YDCVSFCYMHHMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVI 10608
V+F YMHH+ELP +H GTDL G+FYG +VD + AQ D +T N++AWLYAA+I
Sbjct: 2931 KGVVNFFYMHHLELPNALHTGTDLMGEFYGGYVDEEVAQRVPPDNLVTNNIVAWLYAAII 2990
Query: 10609 NG-------DRWFLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCA 10767
+ +W L T +++D+N A + P + + LSA TG+ D+C
Sbjct: 2991 SVKESSFSLPKW-LESTTVSVDDYNKWAGDNGFTPFSTS--TAITKLSAITGV---DVCK 3044
Query: 10768 ALKELL--QNGMNGRTILGSTILEDEFTPFDVVRQCSGVTFQGKFKKIVKGTHHW----- 10926
L+ ++ + G ILG EDE TP V Q GV Q F V+ W
Sbjct: 3045 LLRTIMVKNSQWGGDPILGQYNFEDELTPESVFNQIGGVRLQSSF---VRKATSWFWSRC 3101
Query: 10927 MXXXXXXXXXXXVQSTQWSLFFFVYENAFLPFTLGIMAIAACAMLLVKHKHAFLCLFLLP 11106
+ V T L F+VY L +MA+ + VKH A++ FLLP
Sbjct: 3102 VLACFLFVLCAIVLFTAVPLKFYVYAAVIL-----LMAVLFIS-FTVKHVMAYMDTFLLP 3155
Query: 11107 SLATV-----AYFNMVY--MPASWVMRIMTWLE--LADT-------SLSGYRLKDCVM-- 11232
+L TV A +Y + + V+ + W + + DT L Y CV
Sbjct: 3156 TLITVIIGVCAEVPFIYNTLISQVVIFLSQWYDPVVFDTMVPWMFLPLVLYTAFKCVQGC 3215
Query: 11233 YASALVLLILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALDQAISMWALVISVTSNY 11412
Y ++ +LM + V ++T N +T + GN W L +
Sbjct: 3216 YMNSFNTSLLMLYQFV--KLGFVIYTSSNTLTAYTE---GN--------WELFFELVHTT 3262
Query: 11413 SGVVTTIMFLARAIVFVCVE----YYPLLFITGNTLQCIMLVXXXXXXXXXXXXXXXXXX 11580
+ L VF C + Y ++ L +M+
Sbjct: 3263 VLANVSSNSLIGLFVFKCAKWMLYYCNATYLNNYVLMAVMV--NCIGWLCTCYFGLYWWV 3320
Query: 11581 NRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGIGGKPCIKVATVQS 11760
N+ F LTLG Y++ VS ++RYM + PPK+ + F NI + GIGG + +ATVQ+
Sbjct: 3321 NKVFGLTLGKYNFKVSVDQYRYMCLHKINPPKTVWEVFSTNILIQGIGGDRVLPIATVQA 3380
Query: 11761 KMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKDTTEAFEKMXXXXXXXXX 11940
K+SDVKCT K+ V+LHN IL + D E + +
Sbjct: 3381 KLSDVKCTTVVLMQLLTKLNVEANSKMHVYLVELHNKILASDDVGECMDNLLGMLITLFC 3440
Query: 11941 MQGAVDINRLCEEMLDNRATLQAIASEFSSLPSXX----XXXXXXXXXXXXXXNGDXXXX 12108
+ +D++ C+++L LQ++ EFS +PS G
Sbjct: 3441 IDSTIDLSEYCDDILKRSTVLQSVTQEFSHIPSYAEYERAKNLYEKVLVDSKNGGVTQQE 3500
Query: 12109 XXXXXXXXXXXXXEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTMLFTM 12288
FDRD A+Q+KL+ MA++AMT MYK+AR D+RAK+ S++ +LF+M
Sbjct: 3501 LAAYRKAANIAKSVFDRDLAVQKKLDSMAERAMTTMYKEARVTDRRAKLVSSLHALLFSM 3560
Query: 12289 LRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGNTFTYASALW 12468
L+K G VPL +P+ + KL +V+PD T+ +G TY++ +W
Sbjct: 3561 LKKIDSEKLNVLFDQASSGVVPLATVPIVCSNKLTLVIPDPETWVKCVEGVHVTYSTVVW 3620
Query: 12469 EIQQVVDADSKIVQLSEINMD-----NSPNLAWPLIVTALRANS---AVKLQNNELSPVA 12624
I V+DAD + + + N+AWPL V R V LQNNEL P
Sbjct: 3621 NIDTVIDADGTELHPTSTGSGLTYCISGANIAWPLKVNLTRNGHNKVDVVLQNNELMPHG 3680

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Query: 12625 LRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYTE 12804
++ +C AG Q C+ ++ YY N G V A+ S + +LK A F G IY +
Sbjct: 3681 VKTKACVAGVDQAHCSVESK-CYYTNISGNSVVAAITSSNPNLKVASFLNEAG-NQIYVD 3738
Query: 12805 LEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQA-GNATEVPANSTVL 12981
L+PPC+F +V YLYFIK ++ RGMVLG+++ V LQ+ G+ TE +L
Sbjct: 3739 LDPPCKFGMKVGVKVEVVYLYFIKNTRSIVRGMVLGAISNVVVLQSKGHETEEVDAVGIL 3798
Query: 12982 SFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCC 13161
S C+FAVDPA Y Y+A+G QP+ NCVKML H G+G AIT P DQ+S+GGAS C
Sbjct: 3799 SLCSFAVDPADTYCKYVAAGNQPLGNCVKMLTVHNGSGFAITSKPSPTPDQDSYGGASVC 3858
Query: 13162 LYCRCHIDHP----NPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSC 13329
LYCR HI HP N G C KG +VQIPTT DPVGF LRN VCTVC W GYGC C
Sbjct: 3859 LYCRAHIAHPGSVGNLDGRCQFKGSFVQIPTT-EKDPVGFCLRNKVCTVCQCWIGYGCQC 3917
Query: 13330 DQLREP---LMQSADASTF 13377
D LR+P + A AS F
Sbjct: 3918 DSLRQPKSSVQSVAGASDF 3936
Score = 67.0 bits (162), Expect = 2e-08
Identities = 59/242 (24%), Positives = 103/242 (42%), Gaps = 2/242 (0%)
Frame = +1
Query: 4888 VFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRS 5067
++ T D + ++ + GQ FG Y V + E K +P+ D
Sbjct: 1180 IYLTEDGVKYRSIVLKPGDSLGQ-FGQVYAKNKIVFTAD---DVEDKEILYVPTTD---K 1232
Query: 5068 EAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVK 5247
EYY LD Y+ L +KW ++W D NC++SS ++ LQ +++
Sbjct: 1233 SILEYYG-LDAQKYVIYLQTL--AQKWNVQYRDNFLILEWRDGNCWISSAIVLLQAAKIR 1289
Query: 5248 FNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLN 5427
F L EA+ + GD +F A A VG+ D + +L +H + + L
Sbjct: 1290 FKG-FLTEAWAKLLGGDPTDFVAWCYASCTAKVGDFSDANWLLANLAEHFDADYTNAFLK 1348
Query: 5428 V-VCKHCGQKTTTLTGVEA-VMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 5601
V +CG K+ L G+EA + + + + KT S CG + T +++ ++++
Sbjct: 1349 KRVSCNCGIKSYELRGLEACIQPVRATNLLHFKTQYSNCPTCGANNTDEVIEASLPYLLL 1408
Query: 5602 SA 5607
A
Sbjct: 1409 FA 1410
Score = 50.1 bits (118), Expect = 0.002
Identities = 55/191 (28%), Positives = 81/191 (42%), Gaps = 8/191 (4%)
Frame = +1
Query: 3310 VDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGS 3489
V I K IVNAAN H+ HG GVA A+ + +DY+K +GP
Sbjct: 1025 VVIAKALDEFKEFCIVNAANEHMTHGSGVAKAIADFCGLDFVEYCEDYVKKHGPQQ---R 1081
Query: 3490 CLLSGHNLAKKCL-HVVGPNLNAGEDIQLLKAAYENFNSQDIL--LAPLLSAGIFGAKPL 3660
+ +C+ +VVGP + L AAY+N ++ + P+LS GIFG
Sbjct: 1082 LVTPSFVKGIQCVNNVVGPRHGDNNLHEKLVAAYKNVLVDGVVNYVVPVLSLGIFGVDFK 1141

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Query: 3661 QSLQVCVQ-----TVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDSKT 3825
S+ + T+R ++ Q +DY D KQ+ TED
Sbjct: 1142 MSIDAMREAFEGCTIRVLLF-------SLSQEHIDYFD------VTCKQKTIYLTEDG-V 1187
Query: 3826 EEKSVVQKPVD 3858
+ +S+V KP D
Sbjct: 1188 KYRSIVLKPGD 1198
>gi|14149033|emb|CAC39112.1|
Beaudette CK)]
Length = 6629
replicase polyprotein 1ab [Avian infectious bronchitis virus
Score = 3015 bits (7816), Expect(2) = 0.0
Identities = 1496/2714 (55%), Positives = 1930/2714 (71%), Gaps = 24/2714 (0%)
Frame = +3
Query: 13392 GVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQE--KDEEGNL--LDS 13559
G S ARL P +G DVV RAFD+ N++ AG + LK NC RFQE E+GNL LDS
Sbjct: 3946 GSSEARLIPLASGCDPDVVKRAFDVCNKESAGMFQNLKRNCARFQELRDTEDGNLEYLDS 4005
Query: 13560 YFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMADLV 13739
YFVVK+ T SNY+HE++ Y +K A HDFF F + + +ISRQRLTKYTM D
Sbjct: 4006 YFVVKQTTPSNYEHEKSCYEDLKS-EVTADHDFFVFNKN---IYNISRQRLTKYTMMDFC 4061
Query: 13740 YALRHFDEGNCDTLKEILVTYNCCDDD----YFNKKDWYDFVENPDILRVYANLGERVRQ 13907
YALRHFD +C+ LKEILVTY C +D + KDWYD +EN + A +G VR+
Sbjct: 4062 YALRHFDPKDCEVLKEILVTYGCIEDYHPKWFEENKDWYDPIENSKYYVMLAKMGPIVRR 4121
Query: 13908 SLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPI 14087
+LL ++F + M + G VGV+TLDNQDLNG +YDFGDF + APG GVP+ D+YYS +MPI
Sbjct: 4122 ALLNAIEFGNLMVEKGYVGVITLDNQDLNGKFYDFGDFQKTAPGAGVPVFDTYYSYMMPI 4181
Query: 14088 LTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDD 14267
+ +T ALA E + + D+ K +DLLKYD+TEE+ LF +YFKYWDQ YHPNC +C DD
Sbjct: 4182 IAMTDALAPERYFEYDVHKGYKSYDLLKYDYTEEKQELFQKYFKYWDQEYHPNCRDCSDD 4241
Query: 14268 RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSS 14447
RC++HCANFN+LFST+ P TSFG L RK+FVDGVPF+ + GYH +ELGV+ NQD + S
Sbjct: 4242 RCLIHCANFNILFSTLIPQTSFGNLCRKVFVDGVPFIATCGYHSKELGVIMNQDNTMSFS 4301
Query: 14448 RLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAV 14627
++ +L+ + DPA+ + N L+D RT+CFSV ALT+ + QTVKPG+FNKDFYDFA
Sbjct: 4302 KMGLSQLMQFVGDPALLVGTSNNLVDLRTSCFSVCALTSGITHQTVKPGHFNKDFYDFAE 4361
Query: 14628 SKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYD 14807
G FKEGSS+ LKHFF+ Q GNAAI+DYDYYRYN PTM DI QLLF +EV KYF+CY+
Sbjct: 4362 KAGMFKEGSSIPLKHFFYPQTGNAAINDYDYYRYNRPTMFDICQLLFCLEVTSKYFECYE 4421
Query: 14808 GGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNL 14987
GGCI A+QV+VNNLDKSAG+PFNK+GKARLYY+ MS E+QD LF TK+NV+PTITQMNL
Sbjct: 4422 GGCIPASQVVVNNLDKSAGYPFNKFGKARLYYE-MSLEEQDQLFEITKKNVLPTITQMNL 4480
Query: 14988 KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT 15167
KYAISAKNRARTVAGVSI STMTNRQFHQK+LKSI TR A+VVIGT+KFYGGW NML+
Sbjct: 4481 KYAISAKNRARTVAGVSILSTMTNRQFHQKILKSIVNTRNASVVIGTTKFYGGWDNMLRN 4540
Query: 15168 VYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLS 15347
+ VE P LMGWDYPKCDRAMPN+LRI ASLVLARKH CC+ S R YRL NECAQVLS

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Sbjct: 4541 LIQGVEDPILMGWDYPKCDRAMPNLLRIAASLVLARKHTNCCSWSERIYRLYNECAQVLS 4600
Query: 15348 EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ 15527
E V+ G +YVKPGGTSSGDATTAYANSVFNI QA +ANV LLS I +++LQ
Sbjct: 4601 ETVLATGGIYVKPGGTSSGDATTAYANSVFNIIQATSANVARLLSVITRDIVYDNIKSLQ 4660
Query: 15528 HRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKA 15707
+ LY+ +YR + D FV++FY+YL K+FS+MILSDD VVCYN+ A QGLVA I F+
Sbjct: 4661 YELYQQVYRRVNFDPAFVEKFYSYLCKNFSLMILSDDGVVCYNNTLAKQGLVADISGFRE 4720
Query: 15708 VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFV 15887
VLYYQNNVFM+++KCW E DL KGPHEFCSQHTMLV+ + YLPYPDPSRILGA FV
Sbjct: 4721 VLYYQNNVFMADSKCWVEPDLEKGPHEFCSQHTMLVEVDGEPKYLPYPDPSRILGACVFV 4780
Query: 15888 DDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYS 16067
DD+ KT+ ++ER+++LAIDAYPL H N+EY VF + L YIRKL+ EL+ +ML YS
Sbjct: 4781 DDVDKTEPVAVMERYIALAIDAYPLVHHENEEYKKVFFVLLAYIRKLYQELSQNMLMDYS 4840
Query: 16068 VMLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYD 16247
++ D S++WE EFYE MY T LQ+ G CV+CNSQT LRCG CIR+PFLCCKCCYD
Sbjct: 4841 FVMDIDKGSKFWEQEFYENMYRAPTTLQSCGVCVVCNSQTILRCGNCIRKPFLCCKCCYD 4900
Query: 16248 HVISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGL 16427
HV+ T HK VLS+NPY+C+ GC DVT+LYLGGMSY+C +HKP +S PL +NG VFG+
Sbjct: 4901 HVMHTDHKNVLSINPYICSQLGCGEADVTKLYLGGMSYFCGNHKPKLSIPLVSNGTVFGI 4960
Query: 16428 YKNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIA 16607
Y+ C GS+NV DFN +AT +W+ YILAN C++ L+ FAAET+KATEE K + A
Sbjct: 4961 YRANCAGSENVDDFNQLATTNWSIVEPYILANRCSDSLRRFAAETVKATEELHKQQFASA 5020
Query: 16608 TVREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYR 16787
VREV SDREL LSWE GK RPPLNRNYVFTGY T+ SKVQ+G++TFEKG+ D V Y+
Sbjct: 5021 EVREVFSDRELILSWEPGKTRPPLNRNYVFTGYHFTRTSKVQLGDFTFEKGEGKDVVYYK 5080
Query: 16788 GTTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHYVRITGLYPTLNISDEFSSNVANYQKV 16967
T+T KL+VGD FVLTSH V+ L APTL PQ+ + R L P + + + F +N+ Y V
Sbjct: 5081 ATSTAKLSVGDIFVLTSHNVVSLVAPTLCPQQTFSRFVNLRPNVMVPECFVNNIPLYHLV 5140
Query: 16968 GMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCSR 17147
G QK +T+QGPPG+GKSHFAIGLA+Y+ SAR+V+TACSHAAVDALCEKA K+L +D C+R
Sbjct: 5141 GKQKRTTVQGPPGSGKSHFAIGLAVYFSSARVVFTACSHAAVDALCEKAFKFLKVDDCTR 5200
Query: 17148 IIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARLR 17327
I+P R V+CF KFK N T ++Y+F T+NALPE + DI++ DE+SM TNY+LS +N ++
Sbjct: 5201 IVPQRTTVDCFSKFKANDTGKKYIFSTINALPEVSCDILLVDEVSMLTNYELSFINGKIN 5260
Query: 17328 AKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDTV 17507
++ VY+GDPAQLPAPRTLL G+L P+ +N V LM + PD+FL C RCP EIVDTV
Sbjct: 5261 YQYVVYVGDPAQLPAPRTLL-NGSLSPKDYNVVTNLMVCVKPDIFLAKCYRCPKEIVDTV 5319
Query: 17508 SALVYDNKLKAHKDKSAQCFKMFY---KGVITHDVSSAINRPQIGVVREFLTRNPAWRKA 17678
S LVYD K A+ +S +CFK+ + H+ SA N Q+ V++F+ RN WR+A
Sbjct: 5320 STLVYDGKFIANNPESRECFKVIVNNGNSDVGHESGSAYNTTQLEFVKDFVCRNKQWREA 5379
Query: 17679 VFISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAK 17858
+FISPYN+ N A ++LGL QTVDSSQGSEYDYVIF T ++ H+ N+NRFNVA+TRAK
Sbjct: 5380 IFISPYNAMNQRAYRMLGLNVQTVDSSQGSEYDYVIFCVTADSQHALNINRFNVALTRAK 5439
Query: 17859 IGILCIMSDRD-LYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKIITGLHPTQAPTHL 18035
GIL +M RD LY L+FT L+ + +LQ TGLFK C+K +G+HP A T

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Sbjct: 5440 RGILVVMRQRDELYSALKFTELD----SETSLQG---TGLFKICNKEFSGVHPAYAVTTK 5492
Query: 18036 SVDIKFKTEGLCVDIPGIP--KDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRA 18209
++ +K + + ++TY+ LIS++GFKM+ V G NMFITR+EAIR+VR
Sbjct: 5493 ALAATYKVNDELAALVNVEAGSEITYKHLISLLGFKMSVNVEGCHNMFITRDEAIRNVRG 5552
Query: 18210 WIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQ 18389
W+GFDVE HA +GTNLP Q+GFSTG + V P G VDT F VN+K PPG+Q
Sbjct: 5553 WVGFDVEATHACGTNIGTNLPFQVGFSTGADFVVTPEGLVDTSIGNNFEPVNSKAPPGEQ 5612
Query: 18390 FKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIGPER 18569
F HL L PW+V+R +IVQML+D L +SD VVFV W HG ELT+++YFVKIG E+
Sbjct: 5613 FNHLRVLFKSAKPWHVIRPRIVQMLADNLCNVSDCVVFVTWCHGLELTTLRYFVKIGKEQ 5672
Query: 18570 TCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHG 18749
C C RAT F++ + YACW H +GFD+VYNP ++D+QQWG++GNLQ NHD HC VHG
Sbjct: 5673 VCS-CGSRATTFNSHTQAYACWKHCLGFDFVYNPLLVDIQQWGYSGNLQFNHDLHCNVHG 5731
Query: 18750 NAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADK 18929
+AHVAS DAIMTRCLA++ F + V+W + YP I +E VNS+CR +Q M + + + A K
Sbjct: 5732 HAHVASVDAIMTRCLAINNAFCQDVNWDLTYPHIANEDEVNSSCRYLQRMYLNACVDALK 5791
Query: 18930 FPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFW 19109
V++DIGNPK IKCV + +V ++FYD P +++ Y Y H DKF DG+C+FW
Sbjct: 5792 VNVVYDIGNPKGIKCVRRGDVNFRFYDKNPI---VRNVKQFEYDYNQHKDKFADGLCMFW 5848
Query: 19110 NCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFF 19289
NCNVD YP N++VCR+DTR LS NLPGC+GGSLYVNKHAF+TP FD+ +F NLK +PFF
Sbjct: 5849 NCNVDCYPDNSLVCRYDTRNLSVFNLPGCNGGSLYVNKHAFYTPKFDRISFRNLKAMPFF 5908
Query: 19290 YYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAG 19469
+Y SPCE+ V+ D V L + CIT+CN+GGAVC+ HA Y +++ +YN ++AG
Sbjct: 5909 FYDSSPCETIQVDGVAQ-DLVSLATKDCITKCNIGGAVCKKHAQMYAEFVTSYNAAVTAG 5967
Query: 19470 FSLWIYKQFDTYNLWNTFTRLQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGI 19649
F+ W+ + + YNLW +F+ LQS++N+AYN+ GH+D AGE P I + V+ G+
Sbjct: 5968 FTFWVTNKLNPYNLWKSFSALQSIDNIAYNMYKGGHYDAIAGEMPTVITGDKVFVIDQGV 6027
Query: 19650 DVEIFENKTTLPVNVAFELWAKRNIKPVPEIKILNNLGVDIAANTVIWDYKREAPAHVST 19829
+ +F N+TTLP +VAFEL+AKRNI+ +P +IL LGVD+ VIWDY + P + +T
Sbjct: 6028 EKAVFVNQTTLPTSVAFELYAKRNIRTLPNNRILKGLGVDVTNGFVIWDYANQTPLYRNT 6087
Query: 19830 IGVCTMTDIAKKPTESACSSLTVLFDGRVEGQVDLFRNARNGVLITEGSVKGLTPSKGPA 20009
+ VC TDI + L VL+D R G F A N VL++ K + + P+
Sbjct: 6088 VKVCAYTDIEP-------NGLVVLYDDRY-GDYQSFLAADNAVLVSTQCYKRYSYVEIPS 6139
Query: 20010 QASV-NGVTLIGESVKTQFNYFKKVDGIIQQLPETYFTQSRDLEDFKPRSQMETDFLELA 20186
V NG+ L +K+V+G LP T TQ R E F+PRS +E DFL ++
Sbjct: 6140 NLLVQNGMPL---KDGANLYVYKRVNGAFVTLPNTINTQGRSYETFEPRSDIERDFLAMS 6196
Query: 20187 MDEFIQRYKLEGYAFEHIVYGDFSHGQLGGLHLMIGLAKRSQDSPLKLEDFIPMDSTV-K 20363
+ F++RY + +HI+YG+ QLGGLH +IG+ + + + L + DS V +
Sbjct: 6197 EESFVERYG-KDLGLQHILYGEVDKPQLGGLHTVIGMYRLLRANKLNAKSVTNSDSDVMQ 6255
Query: 20364 NYFITDAQTGSSKCVCSVIDLLLDDFVEIIKS---QDLSVISKVVKVTIDYAEISFMLWC 20534
NYF+ + GS K VC+V+DLLLDDF+E++++ + + SKVV V+IDY I+FM W
Sbjct: 6256 NYFVL-SDNGSYKQVCTVVDLLLDDFLELLRNILKEYGTNKSKVVTVSIDYHSINFMTWF 6314
Query: 20535 KDGHVETFYPKLQASRAWQPGVAMPNLYKMQRMLLEKCDLQNYGENAVIPKGIMMNVAKY 20714
+DG ++T YP+LQ+ AW G MP LYK+Q ++E C++ NYG +P GI+MNVAKY

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Sbjct: 6315 EDGSIKTCYPQLQS--AWTCGYNMPELYKVQNCVMEPCNIPNYGVGITLPSGILMNVAKY 6372
Query: 20715 TQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVDSDLNDFVSDA 20894
TQLCQYL T+ VP+NMRV+HFGAGSDKGVAPG+ VL+QWLP GTLLVD+D+ D+VSDA
Sbjct: 6373 TQLCQYLLKTTICVPHNMRVMHFGAGSDKGVAPGSTVLKQWLPEGTLLVDNDIVDYVSDA 6432
Query: 20895 YSTLIGDCATVHTANKWDLIISDMY---DPRTKHV-TKENDSKEGFFTYLCGFIKQKLAL 21062
+ +++ DC +T +K+DL+ISDMY D + KH N+ + F YL F++ LAL
Sbjct: 6433 HVSVLSDCNKYNTEHKFDLVISDMYTDNDSKRKHEGVIANNGNDDVFIYLSSFLRNNLAL 6492
Query: 21063 GGSIAVKITEHSWNADLYKLMGHFSWWTAFVTNVNASSSEAFLIGANYLG-KPKEQIDGY 21239
GGS AVK+TE SW+ LY + +WWT F T VNASSSEAFLIG NYLG K ++ G
Sbjct: 6493 GGSFAVKVTETSWHEVLYDIAQDCAWWTMFCTAVNASSSEAFLIGVNYLGASEKVKVSGK 6552
Query: 21240 TMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSLKENQINDMIYSLLEKGRLII 21419
T+HANYIFWRN N +Q S+YS+FD++KF L+L+ T V++LK Q D++++L++ G+L++
Sbjct: 6553 TLHANYIFWRNCNYLQTSAYSIFDVAKFDLRLKATPVVNLKTEQKTDLVFNLIKCGKLLV 6612
Query: 21420 RENNRVVVSSDILV 21461
R+ +SD V
Sbjct: 6613 RDVGNTSFTSDSFV 6626
Score = 979 bits (2531), Expect(2) = 0.0
Identities = 707/2247 (31%), Positives = 1057/2247 (47%), Gaps = 104/2247 (4%)
Frame = +1
Query: 6961 SYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETIQVTISSYKLDLTI 7140
S C ++ +S +V + +C F C +CL DSL Y +++
Sbjct: 1783 SLCGPYKDYGKDSFDV--LRYCADDFICRVCLHDKDSLHLYKHAYSVEQVYKD-----AA 1835
Query: 7141 LGLAAEWVLAYMLFTKFFY--LLGLSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVS 7314
G W Y++F F + G V Y + + NS ++ + + V
Sbjct: 1836 SGFIFNWNWLYLVFLILFVKPVAGF-----VIICYCVKYLVLNSTVLQTGVCFLDWF-VQ 1889
Query: 7315 AMVRMYIFFASFYYIWKSY-----VHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMKRS 7479
+ + F + +Y W Y VH + C TC +C + R+ R E + +V G K+
Sbjct: 1890 TVFSHFNFMGAGFYFWLFYKIYIQVHHILYCKDVTCEVCKRVARSNRQEVSVVVGGRKQI 1949
Query: 7480 FYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIVDS 7659
+VY N G FCK HNW C NCD + +TF+S EVA +LS + KR + PT + ++VD
Sbjct: 1950 VHVYTNSGYNFCKRHNWYCRNCDDYGHQNTFMSPEVAGELSEKLKRHVKPTAYAYHVVDE 2009
Query: 7660 VAVKNGALHLYFDKAGQ-KTYERHPLSHFVNLDNLR-ANNTKGSLPINVIVFDGKSKCDE 7833
+ + ++L + A K + F D L+ A K +L I DG C+
Sbjct: 2010 ACLVDDFVNLKYKAATPGKDSASSAVKCFSVTDFLKKAVFLKEALKCEQISNDGFIVCNT 2069
Query: 7834 SAS------KSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVP 7995
++ K+A++YY+Q +C+PIL+LDQAL + VS + D S+ SV
Sbjct: 2070 QSAHALEEAKNAAIYYAQYLCKPILILDQALYEQLVVEP-VSKSVIDKVCSILSSIISVD 2128
Query: 7996 MEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHSDLEV 8175
TA G D +LS ++ H+ D++
Sbjct: 2129 ---------TAALNYKAGTLRDALLSI-------------TKDEEAVDMAIFCHNHDVDY 2166
Query: 8176 TGDSCNNFMLTYN-KVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQ 8352
TGD N + +Y +TPRD G I+ +A N +V + V +W + + LS+
Sbjct: 2167 TGDGFTNVIPSYGIDTGKLTPRDRGFLINADASIANLRVKNAPPV--VWKFSELIKLSDS 2224

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Query: 8353 LRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISL--KGGKIVS---TCFKLMLKATXX 8517
K + SA K+ + F +T + +QV+ T K+ + K G IVS CFK K
Sbjct: 2225 CLKYLISATVKSGVRFFITKSGAKQVIACHTQKLLVEKKAGGIVSGTFKCFKSYFKWLLI 2284
Query: 8518 XXXXXXX---XYIVMPVHTLSIHDGY----TNEIIGYKAIQDGVTRDIISTDDCFANKHA 8676
Y M V +H Y T + G+K I GV R+I+ D CF+NK
Sbjct: 2285 FYILFTACCSGYYYMEVSKSFVHPMYDVNSTLHVEGFKVIDKGVLREIVPEDTCFSNKFV 2344
Query: 8677 GFDAWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGD-FLH-------- 8829
FDA++ G Y N ++CP+V A+I + G + G+PG V ++G F+H
Sbjct: 2345 NFDAFW---GRPYDNSRNCPIVTAVIDGD-GTVATGVPGFVSWVMDGVMFIHMTQTERKP 2400
Query: 8830 -FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYD-TNLLEG 9003
++P F+ + YT +I F TS + +A C ++ A P YC++ N G
Sbjct: 2401 WYIPTWFNRE-IVGYTQDSIITEGSFYTSIALFSARC-LYLTASNTPQLYCFNGDNDAPG 2458
Query: 9004 SISYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTS 9183
++ + + P Y +G + P L + VV YCR CE + G C+S +
Sbjct: 2459 ALPFGSIIPHRVYFQPNGVRLIVPQQILH-TPYVVKFVSDSYCRGSVCEYTRPGYCVSLN 2517
Query: 9184 GRWVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAA 9363
+WVL N+ Y + GVFCG L+ ++ + V ++ + +I ++V
Sbjct: 2518 PQWVLFNDEYTSKPGVFCGSTVRELMFSMVSTFFTGVNP-NIYMQLATMFLILVVVVLIF 2576
Query: 9364 YYFMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVS 9543
+KF+ VF Y V L+++++ ILC+ S L + V Y Y + + +
Sbjct: 2577 AMVIKFQGVFKAYATTVFITMLVWVINAFILCVHSYNSVLAVILLVLYCYASLVTSRNTV 2636
Query: 9544 FLAHLQWFAMFSPIVPFWITAIYVFCISLKHCH---WFFNNYLRKRVMFNGVTF-STFEE 9711
+ H F IVP W+ Y+ I + W + R +++G F ++
Sbjct: 2637 IIMHCWLVFTFGLIVPTWLACCYLGFIIYMYTPLFLWCYGTTKNTRKLYDGNEFVGNYDL 2696
Query: 9712 AALCTFLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKA 9891
AA TF++ ++KL +E ++ YL+ Y + KY+SG Y +A LA A
Sbjct: 2697 AAKSTFVIRGSEFVKLTNEIG---DKFEAYLSAYARLKYYSGTGSEQDYLQACRAWLAYA 2753
Query: 9892 LNDFSNSGADVLYQPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDD 10071
L+ + NSG +++Y PP+ SI + LQSGF+K+ PS VE C+V V+ LNGLWL D
Sbjct: 2754 LDQYRNSGVEIVYTPPRYSIGVSRLQSGFKKLVSPSSAVEKCIVSVSYRGNNLNGLWLGD 2813
Query: 10072 TVYCPRHVICTAEDMLNPNYEDLLIRKSNHSFLVQAGN-VQLRVIGHSMQNCLLRLKVDT 10248
T+YCPRHV+ + D+L +NH F V + V L V+ ++ +L L+
Sbjct: 2814 TIYCPRHVL---GKFSGDQWNDVLNLANNHEFEVTTQHGVTLNVVSRRLKGAVLILQTAV 2870
Query: 10249 SNPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNID 10428
+N +TPKYKF++ G +F++ Y G+ G+Y MR N TI+ SFL G+CGSVGFNI+
Sbjct: 2871 ANAETPKYKFIKANCGDSFTIACAYGGTVVGLYPVTMRSNGTIRASFLAGACGSVGFNIE 2930
Query: 10429 YDCVSFCYMHHMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVI 10608
V+F YMHH+ELP +H GTDL G+FYG +VD + AQ D +T N++AWLYAA+I
Sbjct: 2931 KGVVNFFYMHHLELPNALHTGTDLMGEFYGGYVDEEVAQRVPPDNLVTNNIVAWLYAAII 2990
Query: 10609 NG-------DRWFLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCA 10767
+ +W L T +++D+N A + P + + LSA TG+ D+C
Sbjct: 2991 SVKESSFSLPKW-LESTTVSVDDYNKWAGDNGFTPFSTS--TAITKLSAITGV---DVCK 3044
Query: 10768 ALKELL--QNGMNGRTILGSTILEDEFTPFDVVRQCSGVTFQGKFKKIVKGTHHW----- 10926
L+ ++ + G ILG EDE TP V Q GV Q F V+ W
Sbjct: 3045 LLRTIMVKNSQWGGDPILGQYNFEDELTPESVFNQIGGVRLQSSF---VRKATSWFWSRC 3101

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Query: 10927 MXXXXXXXXXXXVQSTQWSLFFFVYENAFLPFTLGIMAIAACAMLLVKHKHAFLCLFLLP 11106
+ V T L F+VY L +MA+ + VKH A++ FLLP
Sbjct: 3102 VLACFLFVLCAIVLFTAVPLKFYVYAAVIL-----LMAVLFIS-FTVKHVMAYMDTFLLP 3155
Query: 11107 SLATV-----AYFNMVY--MPASWVMRIMTWLE--LADT-------SLSGYRLKDCVM-- 11232
+L TV A +Y + + V+ + W + + DT L Y CV
Sbjct: 3156 TLITVIIGVCAEVPFIYNTLISQVVIFLSQWYDPVVFDTMVPWMFLPLVLYTAFKCVQGC 3215
Query: 11233 YASALVLLILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALDQAISMWALVISVTSNY 11412
Y ++ +LM + V ++T N +T + GN W L +
Sbjct: 3216 YMNSFNTSLLMLYQFV--KLGFVIYTSSNTLTAYTE---GN--------WELFFELVHTT 3262
Query: 11413 SGVVTTIMFLARAIVFVCVE----YYPLLFITGNTLQCIMLVXXXXXXXXXXXXXXXXXX 11580
+ L VF C + Y ++ L +M+
Sbjct: 3263 VLANVSSNSLIGLFVFKCAKWMLYYCNATYLNNYVLMAVMV--NCIGWLCTCYFGLYWWV 3320
Query: 11581 NRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGIGGKPCIKVATVQS 11760
N+ F LTLG Y++ VS ++RYM + PPK+ + F NI + GIGG + +ATVQ+
Sbjct: 3321 NKVFGLTLGKYNFKVSVDQYRYMCLHKINPPKTVWEVFSTNILIQGIGGDRVLPIATVQA 3380
Query: 11761 KMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKDTTEAFEKMXXXXXXXXX 11940
K+SDVKCT K+ V+LHN IL + D E + +
Sbjct: 3381 KLSDVKCTTVVLMQLLTKLNVEANSKMHVYLVELHNKILASDDVGECMDNLLGMLITLFC 3440
Query: 11941 MQGAVDINRLCEEMLDNRATLQAIASEFSSLPSXX----XXXXXXXXXXXXXXNGDXXXX 12108
+ +D++ C+++L LQ++ EFS +PS G
Sbjct: 3441 IDSTIDLSEYCDDILKRSTVLQSVTQEFSHIPSYAEYERAKNLYEKVLVDSKNGGVTQQE 3500
Query: 12109 XXXXXXXXXXXXXEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTMLFTM 12288
FDRD A+Q+KL+ MA++AMT MYK+AR D+RAK+ S++ +LF+M
Sbjct: 3501 LAAYRKAANIAKSVFDRDLAVQKKLDSMAERAMTTMYKEARVTDRRAKLVSSLHALLFSM 3560
Query: 12289 LRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGNTFTYASALW 12468
L+K G VPL +P+ + KL +V+PD T+ +G TY++ +W
Sbjct: 3561 LKKIDSEKLNVLFDQASSGVVPLATVPIVCSNKLTLVIPDPETWVKCVEGVHVTYSTVVW 3620
Query: 12469 EIQQVVDADSKIVQLSEINMD-----NSPNLAWPLIVTALRANS---AVKLQNNELSPVA 12624
I V+DAD + + + N+AWPL V R V LQNNEL P
Sbjct: 3621 NIDTVIDADGTELHPTSTGSGLTYCISGANIAWPLKVNLTRNGHNKVDVVLQNNELMPHG 3680
Query: 12625 LRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYTE 12804
++ +C AG Q C+ ++ YY N G V A+ S + +LK A F G IY +
Sbjct: 3681 VKTKACVAGVDQAHCSVESK-CYYTNISGNSVVAAITSSNPNLKVASFLNEAG-NQIYVD 3738
Query: 12805 LEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQA-GNATEVPANSTVL 12981
L+PPC+F +V YLYFIK ++ RGMVLG+++ V LQ+ G+ TE +L
Sbjct: 3739 LDPPCKFGMKVGVKVEVVYLYFIKNTRSIVRGMVLGAISNVVVLQSKGHETEEVDAVGIL 3798
Query: 12982 SFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCC 13161
S C+FAVDPA Y Y+A+G QP+ NCVKML H G+G AIT P DQ+S+GGAS C
Sbjct: 3799 SLCSFAVDPADTYCKYVAAGNQPLGNCVKMLTVHNGSGFAITSKPSPTPDQDSYGGASVC 3858
Query: 13162 LYCRCHIDHP----NPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSC 13329
LYCR HI HP N G C KG +VQIPTT DPVGF LRN VCTVC W GYGC C
Sbjct: 3859 LYCRAHIAHPGSVGNLDGRCQFKGSFVQIPTT-EKDPVGFCLRNKVCTVCQCWIGYGCQC 3917
Query: 13330 DQLREP---LMQSADASTF----LNGF 13389
D LR+P + A AS F LNG+
Sbjct: 3918 DSLRQPKSSVQSVAGASDFDKNYLNGY 3944

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Score = 67.0 bits (162), Expect = 2e-08
Identities = 59/242 (24%), Positives = 103/242 (42%), Gaps = 2/242 (0%)
Frame = +1
Query: 4888 VFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRS 5067
++ T D + ++ + GQ FG Y V + E K +P+ D
Sbjct: 1180 IYLTEDGVKYRSIVLKPGDSLGQ-FGQVYAKNKIVFTAD---DVEDKEILYVPTTD---K 1232
Query: 5068 EAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVK 5247
EYY LD Y+ L +KW ++W D NC++SS ++ LQ +++
Sbjct: 1233 SILEYYG-LDAQKYVIYLQTL--AQKWNVQYRDNFLILEWRDGNCWISSAIVLLQAAKIR 1289
Query: 5248 FNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLN 5427
F L EA+ + GD +F A A VG+ D + +L +H + + L
Sbjct: 1290 FKG-FLTEAWAKLLGGDPTDFVAWCYASCTAKVGDFSDANWLLANLAEHFDADYTNAFLK 1348
Query: 5428 V-VCKHCGQKTTTLTGVEA-VMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 5601
V +CG K+ L G+EA + + + + KT S CG + T +++ ++++
Sbjct: 1349 KRVSCNCGIKSYELRGLEACIQPVRATNLLHFKTQYSNCPTCGANNTDEVIEASLPYLLL 1408
Query: 5602 SA 5607
A
Sbjct: 1409 FA 1410
Score = 50.1 bits (118), Expect = 0.002
Identities = 55/191 (28%), Positives = 81/191 (42%), Gaps = 8/191 (4%)
Frame = +1
Query: 3310 VDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGS 3489
V I K IVNAAN H+ HG GVA A+ + +DY+K +GP
Sbjct: 1025 VVIAKALDEFKEFCIVNAANEHMTHGSGVAKAIADFCGLDFVEYCEDYVKKHGPQQ---R 1081
Query: 3490 CLLSGHNLAKKCL-HVVGPNLNAGEDIQLLKAAYENFNSQDIL--LAPLLSAGIFGAKPL 3660
+ +C+ +VVGP + L AAY+N ++ + P+LS GIFG
Sbjct: 1082 LVTPSFVKGIQCVNNVVGPRHGDNNLHEKLVAAYKNVLVDGVVNYVVPVLSLGIFGVDFK 1141
Query: 3661 QSLQVCVQ-----TVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDSKT 3825
S+ + T+R ++ Q +DY D KQ+ TED
Sbjct: 1142 MSIDAMREAFEGCTIRVLLF-------SLSQEHIDYFD------VTCKQKTIYLTEDG-V 1187
Query: 3826 EEKSVVQKPVD 3858
+ +S+V KP D
Sbjct: 1188 KYRSIVLKPGD 1198
>gi|133594|sp|P26314|RRPB_IBVB RNA-DIRECTED RNA POLYMERASE (ORF1B)
gi|74826|pir||VFIHB2 genome polyprotein - avian infectious bronchitis virus (strain
Beaudette)
gi|292953|gb|AAA70234.1| pol protein [Avian infectious bronchitis virus]
gi|331173|gb|AAA46224.1| ORF1b [Avian infectious bronchitis virus]
Length = 2652
Score = 2987 bits (7744), Expect = 0.0
Identities = 1479/2678 (55%), Positives = 1909/2678 (71%), Gaps = 24/2678 (0%)
Frame = +3

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Query: 13500 LKTNCCRFQE--KDEEGNL--LDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKF 13667
LK NC RFQE E+GNL LDSYFVVK+ T SNY+HE++ Y +K A HDFF F
Sbjct: 5 LKRNCARFQELRDTEDGNLEYLDSYFVVKQTTPSNYEHEKSCYEDLKS-EVTADHDFFVF 63
Query: 13668 RVDGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDD----YFNKK 13835
+ + +ISRQRLTKYTM D YALRHFD +C+ LKEILVTY C +D + K
Sbjct: 64 NKN---IYNISRQRLTKYTMMDFCYALRHFDPKDCEVLKEILVTYGCIEDYHPKWFEENK 120
Query: 13836 DWYDFVENPDILRVYANLGERVRQSLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFG 14015
DWYD +EN + A +G VR++LL ++F + M + G VGV+TLDNQDLNG +YDFG
Sbjct: 121 DWYDPIENSKYYVMLAKMGPIVRRALLNAIEFGNLMVEKGYVGVITLDNQDLNGKFYDFG 180
Query: 14016 DFVQVAPGCGVPIVDSYYSLLMPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERL 14195
DF + APG GVP+ D+YYS +MPI+ +T ALA E + + D+ K +DLLKYD+TEE+
Sbjct: 181 DFQKTAPGAGVPVFDTYYSYMMPIIAMTDALAPERYFEYDVHKGYKSYDLLKYDYTEEKQ 240
Query: 14196 CLFDRYFKYWDQTYHPNCINCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPF 14375
LF +YFKYWDQ YHPNC +C DDRC++HCANFN+LFST+ P TSFG L RK+FVDGVPF
Sbjct: 241 ELFQKYFKYWDQEYHPNCRDCSDDRCLIHCANFNILFSTLIPQTSFGNLCRKVFVDGVPF 300
Query: 14376 VVSTGYHFRELGVVHNQDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAA 14555
+ + GYH +ELGV+ NQD + S++ +L+ + DPA+ + N L+D RT+CFSV A
Sbjct: 301 IATCGYHSKELGVIMNQDNTMSFSKMGLSQLMQFVGDPALLVGTSNNLVDLRTSCFSVCA 360
Query: 14556 LTNNVAFQTVKPGNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNL 14735
LT+ + QTVKPG+FNKDFYDFA G FKEGSS+ LKHFF+ Q GNAAI+DYDYYRYN
Sbjct: 361 LTSGITHQTVKPGHFNKDFYDFAEKAGMFKEGSSIPLKHFFYPQTGNAAINDYDYYRYNR 420
Query: 14736 PTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMS 14915
PTM DI QLLF +EV KYF+CY+GGCI A+QV+VNNLDKSAG+PFNK+GKARLYY+ MS
Sbjct: 421 PTMFDICQLLFCLEVTSKYFECYEGGCIPASQVVVNNLDKSAGYPFNKFGKARLYYE-MS 479
Query: 14916 YEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIA 15095
E+QD LF TK+NV+PTITQMNLKYAISAKNRARTVAGVSI STMTNRQFHQK+LKSI
Sbjct: 480 LEEQDQLFEITKKNVLPTITQMNLKYAISAKNRARTVAGVSILSTMTNRQFHQKILKSIV 539
Query: 15096 ATRGATVVIGTSKFYGGWHNMLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLAR 15275
TR A+VVIGT+KFYGGW NML+ + VE P LMGWDYPKCDRAMPN+LRI ASLVLAR
Sbjct: 540 NTRNASVVIGTTKFYGGWDNMLRNLIQGVEDPILMGWDYPKCDRAMPNLLRIAASLVLAR 599
Query: 15276 KHNTCCNLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAV 15455
KH CC+ S R YRL NECAQVLSE V+ G +YVKPGGTSSGDATTAYANSVFNI QA
Sbjct: 600 KHTNCCSWSERIYRLYNECAQVLSETVLATGGIYVKPGGTSSGDATTAYANSVFNIIQAT 659
Query: 15456 TANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSD 15635
+ANV LLS I +++LQ+ LY+ +YR + D FV++FY+YL K+FS+MILSD
Sbjct: 660 SANVARLLSVITRDIVYDNIKSLQYELYQQVYRRVNFDPAFVEKFYSYLCKNFSLMILSD 719
Query: 15636 DAVVCYNSNYAAQGLVASIKNFKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLV 15815
D VVCYN+ A QGLVA I F+ VLYYQNNVFM+++KCW E DL KGPHEFCSQHTMLV
Sbjct: 720 DGVVCYNNTLAKQGLVADISGFREVLYYQNNVFMADSKCWVEPDLEKGPHEFCSQHTMLV 779
Query: 15816 KQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADV 15995
+ + YLPYPDPSRILGA FVDD+ KT+ ++ER+++LAIDAYPL H N+EY V
Sbjct: 780 EVDGEPKYLPYPDPSRILGACVFVDDVDKTEPVAVMERYIALAIDAYPLVHHENEEYKKV 839
Query: 15996 FHLYLQYIRKLHDELTGHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLC 16175
F + L YIRKL+ EL+ +ML YS ++ D S++WE EFYE MY T LQ+ G CV+C
Sbjct: 840 FFVLLAYIRKLYQELSQNMLMDYSFVMDIDKGSKFWEQEFYENMYRAPTTLQSCGVCVVC 899

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Query: 16176 NSQTSLRCGACIRRPFLCCKCCYDHVISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGM 16355
NSQT LRCG CIR+PFLCCKCCYDHV+ T HK VLS+NPY+C+ GC DVT+LYLGGM
Sbjct: 900 NSQTILRCGNCIRKPFLCCKCCYDHVMHTDHKNVLSINPYICSQLGCGEADVTKLYLGGM 959
Query: 16356 SYYCKSHKPPISFPLCANGQVFGLYKNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTE 16535
SY+C +HKP +S PL +NG VFG+Y+ C GS+NV DFN +AT +W+ YILAN C++
Sbjct: 960 SYFCGNHKPKLSIPLVSNGTVFGIYRANCAGSENVDDFNQLATTNWSIVEPYILANRCSD 1019
Query: 16536 RLKLFAAETLKATEETFKLSYGIATVREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVT 16715
L+ FAAET+KATEE K + A VREV SDREL LSWE GK RPPLNRNYVFTGY T
Sbjct: 1020 SLRRFAAETVKATEELHKQQFASAEVREVFSDRELILSWEPGKTRPPLNRNYVFTGYHFT 1079
Query: 16716 KNSKVQIGEYTFEKGDYGDAVVYRGTTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHYVR 16895
+ SKVQ+G++TFEKG+ D V Y+ T+T KL+VGD FVLTSH V+ L APTL PQ+ + R
Sbjct: 1080 RTSKVQLGDFTFEKGEGKDVVYYKATSTAKLSVGDIFVLTSHNVVSLVAPTLCPQQTFSR 1139
Query: 16896 ITGLYPTLNISDEFSSNVANYQKVGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTA 17075
L P + + + F +N+ Y VG QK +T+QGPPG+GKSHFAIGLA+Y+ SAR+V+TA
Sbjct: 1140 FVNLRPNVMVPECFVNNIPLYHLVGKQKRTTVQGPPGSGKSHFAIGLAVYFSSARVVFTA 1<strong>199</strong>
Query: 17076 CSHAAVDALCEKALKYLPIDKCSRIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTA 17255
CSHAAVDALCEKA K+L +D C+RI+P R V+CF KFK N T ++Y+F T+NALPE +
Sbjct: 1200 CSHAAVDALCEKAFKFLKVDDCTRIVPQRTTVDCFSKFKANDTGKKYIFSTINALPEVSC 1259
Query: 17256 DIVVFDEISMATNYDLSVVNARLRAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRL 17435
DI++ DE+SM TNY+LS +N ++ ++ VY+GDPAQLPAPRTLL G+L P+ +N V L
Sbjct: 1260 DILLVDEVSMLTNYELSFINGKINYQYVVYVGDPAQLPAPRTLL-NGSLSPKDYNVVTNL 1318
Query: 17436 MKTIGPDMFLGTCRRCPAEIVDTVSALVYDNKLKAHKDKSAQCFKMFY---KGVITHDVS 17606
M + PD+FL C RCP EIVDTVS LVYD K A+ +S +CFK+ + H+
Sbjct: 1319 MVCVKPDIFLAKCYRCPKEIVDTVSTLVYDGKFIANNPESRECFKVIVNNGNSDVGHESG 1378
Query: 17607 SAINRPQIGVVREFLTRNPAWRKAVFISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVI 17786
SA N Q+ V++F+ RN WR+A+FISPYN+ N A ++LGL QTVDSSQGSEYDYVI
Sbjct: 1379 SAYNTTQLEFVKDFVCRNKQWREAIFISPYNAMNQRAYRMLGLNVQTVDSSQGSEYDYVI 1438
Query: 17787 FTQTTETAHSCNVNRFNVAITRAKIGILCIMSDRD-LYDKLQFTSLEIPRRNVATLQAEN 17963
F T ++ H+ N+NRFNVA+TRAK GIL +M RD LY L+FT L+ + +LQ
Sbjct: 1439 FCVTADSQHALNINRFNVALTRAKRGILVVMRQRDELYSALKFTELD----SETSLQG-- 1492
Query: 17964 VTGLFKDCSKIITGLHPTQAPTHLSVDIKFKTEGLCVDIPGIP--KDMTYRRLISMMGFK 18137
TGLFK C+K +G+HP A T ++ +K + + ++TY+ LIS++GFK
Sbjct: 1493 -TGLFKICNKEFSGVHPAYAVTTKALAATYKVNDELAALVNVEAGSEITYKHLISLLGFK 1551
Query: 18138 MNYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAVP 18317
M+ V G NMFITR+EAIR+VR W+GFDVE HA +GTNLP Q+GFSTG + V P
Sbjct: 1552 MSVNVEGCHNMFITRDEAIRNVRGWVGFDVEATHACGTNIGTNLPFQVGFSTGADFVVTP 1611
Query: 18318 TGYVDTENNTEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRV 18497
G VDT F VN+K PPG+QF HL L PW+V+R +IVQML+D L +SD V
Sbjct: 1612 EGLVDTSIGNNFEPVNSKAPPGEQFNHLRVLFKSAKPWHVIRPRIVQMLADNLCNVSDCV 1671
Query: 18498 VFVLWAHGFELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPFM 18677
VFV W HG ELT+++YFVKIG E+ C C RAT F++ + YACW H +GFD+VYNP +
Sbjct: 1672 VFVTWCHGLELTTLRYFVKIGKEQVCS-CGSRATTFNSHTQAYACWKHCLGFDFVYNPLL 1730
Query: 18678 IDVQQWGFTGNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIGD 18857
+D+QQWG++GNLQ NHD HC VHG+AHVAS DAIMTRCLA++ F + V+W + YP I +
Sbjct: 1731 VDIQQWGYSGNLQFNHDLHCNVHGHAHVASVDAIMTRCLAINNAFCQDVNWDLTYPHIAN 1790

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Query: 18858 ELRVNSACRKVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAY 19037
E VNS+CR +Q M + + + A K V++DIGNPK IKCV + +V ++FYD P
Sbjct: 1791 EDEVNSSCRYLQRMYLNACVDALKVNVVYDIGNPKGIKCVRRGDVNFRFYDKNPI---VR 1847
Query: 19038 KIEELFYSYATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLYV 19217
+++ Y Y H DKF DG+C+FWNCNVD YP N++VCR+DTR LS NLPGC+GGSLYV
Sbjct: 1848 NVKQFEYDYNQHKDKFADGLCMFWNCNVDCYPDNSLVCRYDTRNLSVFNLPGCNGGSLYV 1907
Query: 19218 NKHAFHTPAFDKSAFTNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGG 19397
NKHAF+TP FD+ +F NLK +PFF+Y SPCE+ V+ D V L + CIT+CN+GG
Sbjct: 1908 NKHAFYTPKFDRISFRNLKAMPFFFYDSSPCETIQVDGVAQ-DLVSLATKDCITKCNIGG 1966
Query: 19398 AVCRHHANEYRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTRLQSLENVAYNVVNKGH 19577
AVC+ HA Y +++ +YN ++AGF+ W+ + + YNLW +F+ LQS++N+AYN+ GH
Sbjct: 1967 AVCKKHAQMYAEFVTSYNAAVTAGFTFWVTNKLNPYNLWKSFSALQSIDNIAYNMYKGGH 2026
Query: 19578 FDGHAGEAPVSIINNAVYTKVDGIDVEIFENKTTLPVNVAFELWAKRNIKPVPEIKILNN 19757
+D AGE P I + V+ G++ +F N+TTLP +VAFEL+AKRNI+ +P +IL
Sbjct: 2027 YDAIAGEMPTVITGDKVFVIDQGVEKAVFVNQTTLPTSVAFELYAKRNIRTLPNNRILKG 2086
Query: 19758 LGVDIAANTVIWDYKREAPAHVSTIGVCTMTDIAKKPTESACSSLTVLFDGRVEGQVDLF <strong>199</strong>37
LGVD+ VIWDY + P + +T+ VC TDI + L VL+D R G F
Sbjct: 2087 LGVDVTNGFVIWDYANQTPLYRNTVKVCAYTDIEP-------NGLVVLYDDRY-GDYQSF 2138
Query: <strong>199</strong>38 RNARNGVLITEGSVKGLTPSKGPAQASV-NGVTLIGESVKTQFNYFKKVDGIIQQLPETY 20114
A N VL++ K + + P+ V NG+ L +K+V+G LP T
Sbjct: 2139 LAADNAVLVSTQCYKRYSYVEIPSNLLVQNGMPL---KDGANLYVYKRVNGAFVTLPNTI 2195
Query: 20115 FTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLEGYAFEHIVYGDFSHGQLGGLHLMIG 20294
TQ R E F+PRS +E DFL ++ + F++RY + +HI+YG+ QLGGLH +IG
Sbjct: 2196 NTQGRSYETFEPRSDIERDFLAMSEESFVERYG-KDLGLQHILYGEVDKPQLGGLHTVIG 2254
Query: 20295 LAKRSQDSPLKLEDFIPMDSTV-KNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKS---Q 20462
+ + + + L + DS V +NYF+ + GS K VC+V+DLLLDDF+E++++ +
Sbjct: 2255 MYRLLRANKLNAKSVTNSDSDVMQNYFVL-SDNGSYKQVCTVVDLLLDDFLELLRNILKE 2313
Query: 20463 DLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQASRAWQPGVAMPNLYKMQRMLLE 20642
+ SKVV V+IDY I+FM W +DG ++T YP+LQ+ AW G MP LYK+Q ++E
Sbjct: 2314 YGTNKSKVVTVSIDYHSINFMTWFEDGSIKTCYPQLQS--AWTCGYNMPELYKVQNCVME 2371
Query: 20643 KCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGTA 20822
C++ NYG +P GI+MNVAKYTQLCQYL+ T+ VP+NMRV+HFGAGSDKGVAPG+
Sbjct: 2372 PCNIPNYGVGITLPSGILMNVAKYTQLCQYLSKTTICVPHNMRVMHFGAGSDKGVAPGST 2431
Query: 20823 VLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTANKWDLIISDMY---DPRTKHV- 20990
VL+QWLP GTLLVD+D+ D+VSDA+ +++ DC +T +K+DL+ISDMY D + KH
Sbjct: 2432 VLKQWLPEGTLLVDNDIVDYVSDAHVSVLSDCNKYNTEHKFDLVISDMYTDNDSKRKHEG 2491
Query: 20991 TKENDSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYKLMGHFSWWTAFVTNVNA 21170
N+ + F YL F++ LALGGS AVK+TE SW+ LY + +WWT F T VNA
Sbjct: 2492 VIANNGNDDVFIYLSSFLRNNLALGGSFAVKVTETSWHEVLYDIAQDCAWWTMFCTAVNA 2551
Query: 21171 SSSEAFLIGANYLG-KPKEQIDGYTMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTA 21347
SSSEAFLIG NYLG K ++ G T+HANYIFWRN N +Q S+YS+FD++KF L+L+ T
Sbjct: 2552 SSSEAFLIGVNYLGASEKVKVSGKTLHANYIFWRNCNYLQTSAYSIFDVAKFDLRLKATP 2611
Query: 21348 VMSLKENQINDMIYSLLEKGRLIIRENNRVVVSSDILV 21461
V++LK Q D++++L++ G+L++R+ +SD V
Sbjct: 2612 VVNLKTEQKTDLVFNLIKCGKLLVRDVGNTSFTSDSFV 2649

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>gi|29293454|gb|AAO67706.1|
Length = 2649
ORF1b polyprotein [Avian infectious bronchitis virus]
Score = 2981 bits (7729), Expect = 0.0
Identities = 1481/2678 (55%), Positives = 1897/2678 (70%), Gaps = 24/2678 (0%)
Frame = +3
Query: 13500 LKTNCCRFQE-KDEEGNLL---DSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKF 13667
LK NC RFQE +D EG L DSYFVVK+ T SNY+HE++ Y +K A HDFF F
Sbjct: 5 LKRNCARFQEVRDTEGGNLEYCDSYFVVKQTTPSNYEHEKSCYEDLKS-EVTADHDFFVF 63
Query: 13668 RVDGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDD----YFNKK 13835
+ + +ISRQRLTKYTM D YALRHFD +C+ KEILVTY C +D + K
Sbjct: 64 NKN---IYNISRQRLTKYTMMDFCYALRHFDPKDCEVFKEILVTYGCIEDYHPKWFEENK 120
Query: 13836 DWYDFVENPDILRVYANLGERVRQSLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFG 14015
DWYD +ENP + A +G VR++LL V+F + M + G VGV+TLDNQDLNG +YDFG
Sbjct: 121 DWYDPIENPKYYAMLAKMGPIVRRALLNAVEFGNLMVEKGYVGVVTLDNQDLNGKFYDFG 180
Query: 14016 DFVQVAPGCGVPIVDSYYSLLMPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERL 14195
DF + APG GVP+ D+YYS +MPI+ +T ALA E + + D+ K +DLLKYD+TEE+
Sbjct: 181 DFQKTAPGAGVPVFDTYYSYMMPIIAITDALAPERYFEYDVHKGYKSYDLLKYDYTEEKQ 240
Query: 14196 CLFDRYFKYWDQTYHPNCINCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPF 14375
LF +YFKYWDQ YHPNC +C DDRC++HCANFNVLFST+ P TSFG L RK+FVDGVPF
Sbjct: 241 ELFQKYFKYWDQEYHPNCCDCADDRCLIHCANFNVLFSTLIPQTSFGNLCRKVFVDGVPF 300
Query: 14376 VVSTGYHFRELGVVHNQDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAA 14555
+ + GYH +ELGV+ NQD + S++ +L+ + DPA+ + N L+D RT+CFSV A
Sbjct: 301 IATCGYHSKELGVIMNQDNTMSFSKMGLSQLMKFVGDPALLVGTSNNLVDLRTSCFSVCA 360
Query: 14556 LTNNVAFQTVKPGNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNL 14735
L + + QTVKPG+FNKDFYDFA G FKEGSS+ LKHFF+ Q GNAAI+DYDYYRYN
Sbjct: 361 LASGITHQTVKPGHFNKDFYDFAEKAGMFKEGSSIPLKHFFYPQTGNAAINDYDYYRYNR 420
Query: 14736 PTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMS 14915
PTM DIRQLLF +EV KYFDCY+GGCI A+QV+V NLDKSAGFPFNK+GKARLYY+ MS
Sbjct: 421 PTMFDIRQLLFCLEVTSKYFDCYEGGCIPASQVVVTNLDKSAGFPFNKFGKARLYYE-MS 479
Query: 14916 YEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIA 15095
E+QD LF TK+NV+PTITQMNLKYAISAKNRARTVAGVSI STMTNRQFHQK+LKSI
Sbjct: 480 LEEQDQLFESTKKNVLPTITQMNLKYAISAKNRARTVAGVSILSTMTNRQFHQKVLKSIV 539
Query: 15096 ATRGATVVIGTSKFYGGWHNMLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLAR 15275
TR A+VVIGT+KFYGGW NML+ + VE P LMGWDYPKCDRAMPN+LRI ASLVLAR
Sbjct: 540 NTRNASVVIGTTKFYGGWDNMLRNLIQGVEDPMLMGWDYPKCDRAMPNLLRIAASLVLAR 599
Query: 15276 KHNTCCNLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAV 15455
KHN CC S R YRL NECAQVLSE V+ G +YVKPGGTSSGDATTAYANSVFNI QA
Sbjct: 600 KHNNCCTWSERIYRLYNECAQVLSETVLATGGIYVKPGGTSSGDATTAYANSVFNIIQAT 659
Query: 15456 TANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSD 15635
+ANV LLS I +R+LQ+ LY+ +YR + D FV++FY+Y+ K+FS+MILSD
Sbjct: 660 SANVARLLSVITRDIVYDDIRSLQYELYQQVYRRVNFDAAFVEKFYSYMCKNFSLMILSD 719
Query: 15636 DAVVCYNSNYAAQGLVASIKNFKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLV 15815
D VVCYN+ A QGLVA I F+ +LYYQNNV+M+++KCW E DL KGPHEFCSQHTMLV

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Sbjct: 720 DGVVCYNNTLAKQGLVADISGFREILYYQNNVYMADSKCWVEPDLEKGPHEFCSQHTMLV 779
Query: 15816 KQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADV 15995
+ + YLPYPDPSRI GA FVDD+ K ++ER+++LAIDAYPL H N+EY V
Sbjct: 780 EVDGELRYLPYPDPSRIFGACVFVDDVDKAGPVAVMERYIALAIDAYPLVHHENEEYKKV 839
Query: 15996 FHLYLQYIRKLHDELTGHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLC 16175
F + L YIRKL+ EL+ ML YS ++ D S++WE EFYE MY T LQ+ G CV+C
Sbjct: 840 FFVLLSYIRKLYQELSQSMLIDYSFVMDVDKGSKFWEQEFYENMYRAPTTLQSCGVCVVC 899
Query: 16176 NSQTSLRCGACIRRPFLCCKCCYDHVISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGM 16355
NSQT LRCG CIR+PFLCCKCCYDHV+ T HK VLS+NPY+C+ PGC DVT+LYLGGM
Sbjct: 900 NSQTILRCGNCIRKPFLCCKCCYDHVMYTDHKNVLSINPYICSQPGCGEADVTKLYLGGM 959
Query: 16356 SYYCKSHKPPISFPLCANGQVFGLYKNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTE 16535
SY+C +HKP +S PL +NG VFG+Y+ CVGS+NV DFN +AT +W+ YILAN C++
Sbjct: 960 SYFCGNHKPKLSIPLVSNGTVFGIYRANCVGSENVDDFNQLATTNWSTVEPYILANRCSD 1019
Query: 16536 RLKLFAAETLKATEETFKLSYGIATVREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVT 16715
L+ FAAET+KATEE K + A VREV+SDREL LSWE GK RPPLNRNYVFTGY T
Sbjct: 1020 SLRRFAAETVKATEELHKQQFASAEVREVISDRELILSWEPGKTRPPLNRNYVFTGYHFT 1079
Query: 16716 KNSKVQIGEYTFEKGDYGDAVVYRGTTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHYVR 16895
+ SKVQ+G++TFEKG+ D V YR T+T KL+ GD FVLTSH V+ L APTL PQ+ + R
Sbjct: 1080 RTSKVQLGDFTFEKGEGRDVVYYRATSTAKLSPGDIFVLTSHNVVSLVAPTLCPQQTFSR 1139
Query: 16896 ITGLYPTLNISDEFSSNVANYQKVGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTA 17075
L P + + + F +N+ Y VG QK +T+QGPPG+GKSHFAIGLA Y+ +AR+V+TA
Sbjct: 1140 FVNLRPNVMVPECFVNNIPLYHLVGKQKRTTVQGPPGSGKSHFAIGLAAYFSNARVVFTA 1<strong>199</strong>
Query: 17076 CSHAAVDALCEKALKYLPIDKCSRIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTA 17255
CSHAAVDALCEKA K+L +D C+RI+P R V+CF KFK N T ++Y+F T+NALPE +
Sbjct: 1200 CSHAAVDALCEKAFKFLKVDDCTRIVPQRTTVDCFSKFKANDTGKKYIFSTINALPEVSC 1259
Query: 17256 DIVVFDEISMATNYDLSVVNARLRAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRL 17435
DI++ DE+SM TNY+LS +N ++ ++ VY+GDPAQLPAPRTLL G+L P+ +N + L
Sbjct: 1260 DILLVDEVSMLTNYELSFINGKINYQYVVYVGDPAQLPAPRTLL-NGSLSPKDYNVITNL 1318
Query: 17436 MKTIGPDMFLGTCRRCPAEIVDTVSALVYDNKLKAHKDKSAQCFKMFY---KGVITHDVS 17606
M + PD+FL C RCP EIVDTVS LVYD K A+ +S +CFK+ + H+
Sbjct: 1319 MVCVKPDIFLAKCYRCPKEIVDTVSTLVYDGKFVANNPESRECFKVVVNNGNSDVGHESG 1378
Query: 17607 SAINRPQIGVVREFLTRNPAWRKAVFISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVI 17786
SA N Q+ V++F+ RN WR+A FISPYN+ N A ++LGL QTVDSSQGSEYDYVI
Sbjct: 1379 SAYNTTQLEFVKDFVCRNKQWREATFISPYNAMNQRAYRMLGLNVQTVDSSQGSEYDYVI 1438
Query: 17787 FTQTTETAHSCNVNRFNVAITRAKIGILCIMSDRD-LYDKLQFTSLEIPRRNVATLQAEN 17963
F T ++ H+ N+NRFNVA+TRAK GIL +M RD LY L+FT L+ A+LQ
Sbjct: 1439 FCVTADSQHALNINRFNVALTRAKRGILVVMRQRDELYAALKFTELDAG----ASLQG-- 1492
Query: 17964 VTGLFKDCSKIITGLHPTQAPTHLSVDIKFKTEGLCVDIPGIP--KDMTYRRLISMMGFK 18137
TGLFK C+K +G+HP A T ++ +K + + ++TY+ LIS++GFK
Sbjct: 1493 -TGLFKICNKEFSGVHPAYAVTTKALAATYKVNDELAALVNVEAGSEITYKHLISLLGFK 1551
Query: 18138 MNYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAVP 18317
M+ V G NMFITR+EAIR+VR W+GFDVE HA +GTNLP Q+GFSTG + V P
Sbjct: 1552 MSVNVEGCHNMFITRDEAIRNVRGWVGFDVEATHACGTNIGTNLPFQVGFSTGADFVVTP 1611
Query: 18318 TGYVDTENNTEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDRV 18497
G +DT F VN+K PPG+QF HL L PW+V+R +IVQML+D L +SD V

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Sbjct: 1612 EGLIDTSIGNNFEPVNSKAPPGEQFNHLRALFKSAKPWHVIRPRIVQMLADNLCNVSDCV 1671
Query: 18498 VFVLWAHGFELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPFM 18677
VFV W HG ELT+++YFVKIG E+ C C RAT F++ + YACW H +G VYNP +
Sbjct: 1672 VFVTWCHGLELTTLRYFVKIGKEQVCS-CGSRATTFNSHTQAYACWRHCLG---VYNPLL 1727
Query: 18678 IDVQQWGFTGNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIGD 18857
+D+QQWG++GNLQ NHD HC VHG+AHVAS DA+MTRCLA++ F K V+W ++YP I +
Sbjct: 1728 VDIQQWGYSGNLQFNHDLHCNVHGHAHVASADAVMTRCLAINNAFCKDVNWELQYPHIAN 1787
Query: 18858 ELRVNSACRKVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKAY 19037
E VNS+CR +Q M + + + A K V++DIGNPK IKCV + +V ++FYD P
Sbjct: 1788 EDEVNSSCRYLQRMYLNACVDALKVNVVYDIGNPKGIKCVRRGDVNFRFYDKNPIVPNVK 1847
Query: 19038 KIEELFYSYATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLYV 19217
+ E Y Y+ H DKF DG+C+FWNCNVD YP N++VCR+DTR LS NLPGC+GGSLYV
Sbjct: 1848 QFE---YDYSQHKDKFADGLCMFWNCNVDCYPENSLVCRYDTRNLSVFNLPGCNGGSLYV 1904
Query: 19218 NKHAFHTPAFDKSAFTNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGG 19397
NKHAFHTP FD+ +F NLK +PFF+Y SPCE+ V+ D V L + CIT+CN+GG
Sbjct: 1905 NKHAFHTPKFDRISFRNLKAMPFFFYDSSPCETIQVDGVAQ-DLVSLATKDCITKCNIGG 1963
Query: 19398 AVCRHHANEYRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTRLQSLENVAYNVVNKGH 19577
AVC+ HA Y +++ +YN ++AGF+ W+ F+ YNLW F+ LQS++N+A+N+ GH
Sbjct: 1964 AVCKKHAQMYAEFVFSYNAAVTAGFTFWVTNNFNPYNLWKNFSALQSIDNIAFNMYKGGH 2023
Query: 19578 FDGHAGEAPVSIINNAVYTKVDGIDVEIFENKTTLPVNVAFELWAKRNIKPVPEIKILNN 19757
+D AGE P I + V+ GI+ +F N+TTLP +VAFEL+AKRNI+ +P +IL+
Sbjct: 2024 YDAIAGEIPTVITGDKVFVIDQGIEKAVFVNQTTLPTSVAFELYAKRNIRTLPNNRILSG 2083
Query: 19758 LGVDIAANTVIWDYKREAPAHVSTIGVCTMTDIAKKPTESACSSLTVLFDGRVEGQVDLF <strong>199</strong>37
LGVD+ VIWDY + P + +T+ VC TDI + L VL D R G F
Sbjct: 2084 LGVDVTHGFVIWDYANQTPLYRNTVKVCAYTDIEP-------NGLIVLHDDRC-GDYQSF 2135
Query: <strong>199</strong>38 RNARNGVLITEGSVKGLTPSKGPAQASV-NGVTLIGESVKTQFNYFKKVDGIIQQLPETY 20114
A N VL++ K + P+ + NG+ L +K+ +G LP T
Sbjct: 2136 LAADNAVLVSTQCYKRHPYVEIPSNLLIQNGMPL---KDGANLYVYKRSNGAFVTLPITL 2192
Query: 20115 FTQSRDLEDFKPRSQMETDFLELAMDEFIQRYKLEGYAFEHIVYGDFSHGQLGGLHLMIG 20294
TQ R+ E F+PRS +E DFL+++ D+F+++Y +HI+YG+ QLGGLH +IG
Sbjct: 2193 NTQGRNYETFEPRSDVERDFLDMSEDDFVEKYG-NDLGLQHILYGEVEKPQLGGLHTVIG 2251
Query: 20295 LAKRSQDSPLKLEDFIPMDSTV-KNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKS---Q 20462
+ + +++ L + DS V +NYF+ GS K VC+V+DLLLDDF+E++++ +
Sbjct: 2252 MYRLLRENKLSAKSVTNSDSDVMQNYFVL-TDNGSYKQVCTVVDLLLDDFLELLRNILKE 2310
Query: 20463 DLSVISKVVKVTIDYAEISFMLWCKDGHVETFYPKLQASRAWQPGVAMPNLYKMQRMLLE 20642
+ SKVV V+IDY I+FM W +G ++T YP+LQ+ AW G MP LYK+Q ++E
Sbjct: 2311 YGTNKSKVVTVSIDYHSINFMTWFDNGSIKTCYPQLQS--AWTCGYNMPELYKVQNCVME 2368
Query: 20643 KCDLQNYGENAVIPKGIMMNVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGTA 20822
C++ NYG +P GIMMNVAKYTQLCQYL+ T+ VP+NMRV+HFGAGSDKGVAPG+
Sbjct: 2369 PCNIPNYGVGITLPSGIMMNVAKYTQLCQYLSKTTMCVPHNMRVMHFGAGSDKGVAPGST 2428
Query: 20823 VLRQWLPTGTLLVDSDLNDFVSDAYSTLIGDCATVHTANKWDLIISDMY---DPRTKHV- 20990
VL+QWLP GTLLVD+D+ D+VSDA+ +++ DC T +K+DL+ISDMY D + KH
Sbjct: 2429 VLKQWLPEGTLLVDNDIVDYVSDAHVSVLSDCNKYKTVHKFDLVISDMYTDNDSKGKHEG 2488
Query: 20991 TKENDSKEGFFTYLCGFIKQKLALGGSIAVKITEHSWNADLYKLMGHFSWWTAFVTNVNA 21170
N+ + F YL F+K LALGGS A+K+TE SW+ LY + +WWT F T VNA

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Sbjct: 2489 IVANNGNDDVFIYLSNFLKNNLALGGSFAIKVTETSWHESLYDIAQDCAWWTMFCTAVNA 2548
Query: 21171 SSSEAFLIGANYLG-KPKEQIDGYTMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTA 21347
SSSEAFL+G NYLG K ++ G T+HANYIFWRN N +Q S+YS+FD++KF LKL+ T
Sbjct: 2549 SSSEAFLLGINYLGASGKVKVSGKTLHANYIFWRNCNYLQTSAYSIFDVAKFGLKLKATP 2608
Query: 21348 VMSLKENQINDMIYSLLEKGRLIIRENNRVVVSSDILV 21461
V++LK Q D++ +LL G+L+IR+ V V SD V
Sbjct: 2609 VVNLKTEQKTDLVVNLLRNGKLLIRDVGEVTVFSDHFV 2646
>gi|458735|emb|CAA83018.1|
Length = 2155
potential chimeric protein [Avian infectious bronchitis virus]
Score = 2524 bits (6541), Expect = 0.0
Identities = 1225/2121 (57%), Positives = 1552/2121 (73%), Gaps = 14/2121 (0%)
Frame = +3
Query: 13452 RAFDIYNEKVAGFAKFLKTNCCRFQE--KDEEGNL--LDSYFVVKRHTMSNYQHEETIYN 13619
RAFD+ N++ AG + LK NC RFQE E+GNL LDSYFVVK+ T SNY+HE++ Y
Sbjct: 47 RAFDVCNKESAGMFQNLKRNCARFQELRDTEDGNLEYLDSYFVVKQTTPSNYEHEKSCYE 106
Query: 13620 LVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVT 13799
+K A HDFF F + + +ISRQRLTKYTM D YALRHFD +C+ LKEILVT
Sbjct: 107 DLKS-EVTADHDFFVFNKN---IYNISRQRLTKYTMMDFCYALRHFDPKDCEVLKEILVT 162
Query: 13800 YNCCDDD----YFNKKDWYDFVENPDILRVYANLGERVRQSLLKTVQFCDAMRDAGIVGV 13967
Y C +D + KDWYD +EN + A +G VR++LL ++F + M + G VGV
Sbjct: 163 YGCIEDYHPKWFEENKDWYDPIENSKYYVMLAKMGPIVRRALLNAIEFGNLMVEKGYVGV 222
Query: 13968 LTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPILTLTRALAAESHMDADLAKP 14147
+TLDNQDLNG +YDFGDF + APG GVP+ D+YYS +MPI+ +T ALA E + + D+ K
Sbjct: 223 ITLDNQDLNGKFYDFGDFQKTAPGAGVPVFDTYYSYMMPIIAMTDALAPERYFEYDVHKG 282
Query: 14148 LIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDRCILHCANFNVLFSTVFPPT 14327
+DLLKYD+TEE+ LF +YFKYWDQ YHPNC +C DDRC++HCANFN+LFST+ P T
Sbjct: 283 YKSYDLLKYDYTEEKQELFQKYFKYWDQEYHPNCRDCSDDRCLIHCANFNILFSTLIPQT 342
Query: 14328 SFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRLSFKELLVYAADPAMHAAS 14507
SFG L RK+FVDGVPF+ + GYH +ELGV+ NQD + S++ +L+ + DPA+ +
Sbjct: 343 SFGNLCRKVFVDGVPFIATCGYHSKELGVIMNQDNTMSFSKMGLSQLMQFVGDPALLVGT 402
Query: 14508 GNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQ 14687
N L+D RT+CFSV ALT+ + QTVKPG+FNKDFYDFA G FKEGSS+ LKHFF+ Q
Sbjct: 403 SNNLVDLRTSCFSVCALTSGITHQTVKPGHFNKDFYDFAEKAGMFKEGSSIPLKHFFYPQ 462
Query: 14688 DGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGF 14867
GNAAI+DYDYYRYN PTM DI QLLF +EV KYF+CY+GGCI A+QV+VNNLDKSAG+
Sbjct: 463 TGNAAINDYDYYRYNRPTMFDICQLLFCLEVTSKYFECYEGGCIPASQVVVNNLDKSAGY 522
Query: 14868 PFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICS 15047
PFNK+GKARLYY+ MS E+QD LF TK+NV+PTITQMNLKYAISAKNRARTVAGVSI S
Sbjct: 523 PFNKFGKARLYYE-MSLEEQDQLFEITKKNVLPTITQMNLKYAISAKNRARTVAGVSILS 581
Query: 15048 TMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVETPHLMGWDYPKCDR 15227
TMTNRQFHQK+LKSI TR A+VVIGT+KFYGGW NML+ + VE P LMGWDYPKCDR
Sbjct: 582 TMTNRQFHQKILKSIVNTRNASVVIGTTKFYGGWDNMLRNLIQGVEDPILMGWDYPKCDR 641
Query: 15228 AMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGD 15407

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AMPN+LRI ASLVLARKH CC+ S R YRL NECAQVLSE V+ G +YVKPGGTSSGD
Sbjct: 642 AMPNLLRIAASLVLARKHTNCCSWSERIYRLYNECAQVLSETVLATGGIYVKPGGTSSGD 701
Query: 15408 ATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDHEFVDE 15587
ATTAYANSVFNI QA +ANV LLS I +++LQ+ LY+ +YR + D FV++
Sbjct: 702 ATTAYANSVFNIIQATSANVARLLSVITRDIVYDNIKSLQYELYQQVYRRVNFDPAFVEK 761
Query: 15588 FYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAVLYYQNNVFMSEAKCWTETD 15767
FY+YL K+FS+MILSDD VVCYN+ A QGLVA I F+ VLYYQNNVFM+++KCW E D
Sbjct: 762 FYSYLCKNFSLMILSDDGVVCYNNTLAKQGLVADISGFREVLYYQNNVFMADSKCWVEPD 821
Query: 15768 LTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAI 15947
L KGPHEFCSQHTMLV+ + YLPYPDPSRILGA FVDD+ KT+ ++ER+++LAI
Sbjct: 822 LEKGPHEFCSQHTMLVEVDGEPKYLPYPDPSRILGACVFVDDVDKTEPVAVMERYIALAI 881
Query: 15948 DAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVMLTNDNTSRYWEPEFYEAM 16127
DAYPL H N+EY VF + L YIRKL+ EL+ +ML YS ++ D S++WE EFYE M
Sbjct: 882 DAYPLVHHENEEYKKVFFVLLAYIRKLYQELSQNMLMDYSFVMDIDKGSKFWEQEFYENM 941
Query: 16128 YTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHVISTSHKLVLSVNPYVCNA 16307
Y T LQ+ G CV+CNSQT LRCG CIR+PFLCCKCCYDHV+ T HK VLS+NPY+C+
Sbjct: 942 YRAPTTLQSCGVCVVCNSQTILRCGNCIRKPFLCCKCCYDHVMHTDHKNVLSINPYICSQ 1001
Query: 16308 PGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLYKNTCVGSDNVTDFNAIATC 16487
GC DVT+LYLGGMSY+C +HKP +S PL +NG VFG+Y+ C GS+NV DFN +AT
Sbjct: 1002 LGCGEADVTKLYLGGMSYFCGNHKPKLSIPLVSNGTVFGIYRANCAGSENVDDFNQLATT 1061
Query: 16488 DWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIATVREVLSDRELHLSWEVGKP 16667
+W+ YILAN C++ L+ FAAET+KATEE K + A VREV SDREL LSWE GK
Sbjct: 1062 NWSIVEPYILANRCSDSLRRFAAETVKATEELHKQQFASAEVREVFSDRELILSWEPGKT 1121
Query: 16668 RPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRGTTTYKLNVGDYFVLTSHTV 16847
RPPLNRNYVFTGY T+ SKVQ+G++TFEKG+ D V Y+ T+T KL+VGD FVLTSH V
Sbjct: 1122 RPPLNRNYVFTGYHFTRTSKVQLGDFTFEKGEGKDVVYYKATSTAKLSVGDIFVLTSHNV 1181
Query: 16848 MPLSAPTLVPQEHYVRITGLYPTLNISDEFSSNVANYQKVGMQKYSTLQGPPGTGKSHFA 17027
+ L APTL PQ+ + R L P + + + F +N+ Y VG QK +T+QGPPG+GKSHFA
Sbjct: 1182 VSLVAPTLCPQQTFSRFVNLRPNVMVPECFVNNIPLYHLVGKQKRTTVQGPPGSGKSHFA 1241
Query: 17028 IGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCSRIIPARARVECFDKFKVNSTL 17207
IGLA+Y+ SAR+V+TACSHAAVDALCEKA K+L +D C+RI+P R V+CF KFK N T
Sbjct: 1242 IGLAVYFSSARVVFTACSHAAVDALCEKAFKFLKVDDCTRIVPQRTTVDCFSKFKANDTG 1301
Query: 17208 EQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARLRAKHYVYIGDPAQLPAPRTLL 17387
++Y+F T+NALPE + DI++ DE+SM TNY+LS +N ++ ++ VY+GDPAQLPAPRTLL
Sbjct: 1302 KKYIFSTINALPEVSCDILLVDEVSMLTNYELSFINGKINYQYVVYVGDPAQLPAPRTLL 1361
Query: 17388 TKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDTVSALVYDNKLKAHKDKSAQCF 17567
G+L P+ +N V LM + PD+FL C RCP EIVDTVS LVYD K A+ +S +CF
Sbjct: 1362 -NGSLSPKDYNVVTNLMVCVKPDIFLAKCYRCPKEIVDTVSTLVYDGKFIANNPESRECF 1420
Query: 17568 KMFY---KGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVFISPYNSQNAVASKILGLP 17738
K+ + H+ SA N Q+ V++F+ RN WR+A+FISPYN+ N A ++LGL
Sbjct: 1421 KVIVNNGNSDVGHESGSAYNTTQLEFVKDFVCRNKQWREAIFISPYNAMNQRAYRMLGLN 1480
Query: 17739 TQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITRAKIGILCIMSDRD-LYDKLQFT 17915
QTVDSSQGSEYDYVIF T ++ H+ N+NRFNVA+TRAK GIL +M RD LY L+FT
Sbjct: 1481 VQTVDSSQGSEYDYVIFCVTADSQHALNINRFNVALTRAKRGILVVMRQRDELYSALKFT 1540
Query: 17916 SLEIPRRNVATLQAENVTGLFKDCSKIITGLHPTQAPTHLSVDIKFKTEGLCVDIPGIP- 18092

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L+ + +LQ TGLFK C+K +G+HP A T ++ +K + +
Sbjct: 1541 ELD----SETSLQG---TGLFKICNKEFSGVHPAYAVTTKALAATYKVNDELAALVNVEA 1593
Query: 18093 -KDMTYRRLISMMGFKMNYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNL 18269
++TY+ LIS++GFKM+ V G NMFITR+EAIR+VR W+GFDVE HA +GTNL
Sbjct: 1594 GSEITYKHLISLLGFKMSVNVEGCHNMFITRDEAIRNVRGWVGFDVEATHACGTNIGTNL 1653
Query: 18270 PLQLGFSTGVNLVAVPTGYVDTENNTEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIK 18449
P Q+GFSTG + V P G VDT F VN+K PPG+QF HL L PW+V+R +
Sbjct: 1654 PFQVGFSTGADFVVTPEGLVDTSIGNNFEPVNSKAPPGEQFNHLRVLFKSAKPWHVIRPR 1713
Query: 18450 IVQMLSDTLKGLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYA 18629
IVQML+D L +SD VVFV W HG ELT+++YFVKIG E+ C C RAT F++ + YA
Sbjct: 1714 IVQMLADNLCNVSDCVVFVTWCHGLELTTLRYFVKIGKEQVCS-CGSRATTFNSHTQAYA 1772
Query: 18630 CWNHSVGFDYVYNPFMIDVQQWGFTGNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHEC 18809
CW H +GFD+VYNP ++D+QQWG++GNLQ NHD HC VHG+AHVAS DAIMTRCLA++
Sbjct: 1773 CWKHCLGFDFVYNPLLVDIQQWGYSGNLQFNHDLHCNVHGHAHVASVDAIMTRCLAINNA 1832
Query: 18810 FVKRVDWSVEYPIIGDELRVNSACRKVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAE 18989
F + V+W + YP I +E VNS+CR +Q M + + + A K V++DIGNPK IKCV + +
Sbjct: 1833 FCQDVNWDLTYPHIANEDEVNSSCRYLQRMYLNACVDALKVNVVYDIGNPKGIKCVRRGD 1892
Query: 18990 VEWKFYDAQPCSDKAYKIEELFYSYATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRV 19169
V ++FYD P +++ Y Y H DKF DG+C+FWNCNVD YP N++VCR+DTR
Sbjct: 1893 VNFRFYDKNPI---VRNVKQFEYDYNQHKDKFADGLCMFWNCNVDCYPDNSLVCRYDTRN 1949
Query: 19170 LSNLNLPGCDGGSLYVNKHAFHTPAFDKSAFTNLKQLPFFYYSDSPCESHGKQVVSDIDY 19349
LS NLPGC+GGSLYVNKHAF+TP FD+ +F NLK +PFF+Y SPCE+ V+ D
Sbjct: 1950 LSVFNLPGCNGGSLYVNKHAFYTPKFDRISFRNLKAMPFFFYDSSPCETIQVDGVAQ-DL 2008
Query: 19350 VPLKSATCITRCNLGGAVCRHHANEYRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTR 19529
V L + CIT+CN+GGAVC+ HA Y +++ +YN ++AGF+ W+ + + YNLW +F+
Sbjct: 2009 VSLATKDCITKCNIGGAVCKKHAQMYAEFVTSYNAAVTAGFTFWVTNKLNPYNLWKSFSA 2068
Query: 19530 LQSLENVAYNVVNKGHFDGHAGEAPVSIINNAVYTKVDGIDVEIFENKTTLPVNVAFELW 19709
LQS++N+AYN+ GH+D AGE P I + V+ G++ +F N+TTLP +VAFEL+
Sbjct: 2069 LQSIDNIAYNMYKGGHYDAIAGEMPTVITGDKVFVIDQGVEKAVFVNQTTLPTSVAFELY 2128
Query: 19710 AKRNIKPVPEIKILNNLGVDI 19772
AKRNI+ +P +IL LGVD+
Sbjct: 2129 AKRNIRTLPNNRILKGLGVDV 2149
>gi|29836496|ref|NP_828851.1|
coronavirus]
Length = 1255
putative E2 glycoprotein precursor; putative spike glycopro
Score = 2462 bits (6381), Expect = 0.0
Identities = 1214/1255 (96%), Positives = 1214/1255 (96%)
Frame = +3
Query: 21477 MFIFLLFLTLTSGSDLDRCTTFDDVQAPNYTQHTSSMRGVYYPDEIFRSDTLYLTQDLFL 21656
MFIFLLFLTLTSGSDLDRCTTFDDVQAPNYTQHTSSMRGVYYPDEIFRSDTLYLTQDLFL
Sbjct: 1 MFIFLLFLTLTSGSDLDRCTTFDDVQAPNYTQHTSSMRGVYYPDEIFRSDTLYLTQDLFL 60
Query: 21657 PFYSNVTGFHTINHTFGNPVIPFKDGIYFAATEKSNVVRGWVFGSTMNNKXXXXXXXXXX 21836
PFYSNVTGFHTINHTFGNPVIPFKDGIYFAATEKSNVVRGWVFGSTMNNK
Sbjct: 61 PFYSNVTGFHTINHTFGNPVIPFKDGIYFAATEKSNVVRGWVFGSTMNNKSQSVIIINNS 120

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Query: 21837 XXXXXRACNFELCDNPFFAVSKPMGTQTHTMIFDNAFNCTFEYISDAFSLDVSEKSGNFK 22016
RACNFELCDNPFFAVSKPMGTQTHTMIFDNAFNCTFEYISDAFSLDVSEKSGNFK
Sbjct: 121 TNVVIRACNFELCDNPFFAVSKPMGTQTHTMIFDNAFNCTFEYISDAFSLDVSEKSGNFK 180
Query: 22017 HLREFVFKNKDGFLYVYKGYQPIDVVRDLPSGFNTLKPIFKLPLGINITNFRAILTAFSP 22196
HLREFVFKNKDGFLYVYKGYQPIDVVRDLPSGFNTLKPIFKLPLGINITNFRAILTAFSP
Sbjct: 181 HLREFVFKNKDGFLYVYKGYQPIDVVRDLPSGFNTLKPIFKLPLGINITNFRAILTAFSP 240
Query: 22197 AQDIWGTSAAAYFVGYLKPTTFMLKYDENGTITDAVDCSQNPLAELKCSVKSFEIDKGIY 22376
AQDIWGTSAAAYFVGYLKPTTFMLKYDENGTITDAVDCSQNPLAELKCSVKSFEIDKGIY
Sbjct: 241 AQDIWGTSAAAYFVGYLKPTTFMLKYDENGTITDAVDCSQNPLAELKCSVKSFEIDKGIY 300
Query: 22377 QTSNFRVVPSGDVVRFPNITNLCPFGEVFNATKFPSVYAWERKKISNCVADYSVLYNSTF 22556
QTSNFRVVPSGDVVRFPNITNLCPFGEVFNATKFPSVYAWERKKISNCVADYSVLYNSTF
Sbjct: 301 QTSNFRVVPSGDVVRFPNITNLCPFGEVFNATKFPSVYAWERKKISNCVADYSVLYNSTF 360
Query: 22557 FSTFKCYGVSATKLNDLCFSNVYADSFVVKGDDVRQIAPGQTGVIADYNYKLPDDFMGCV 22736
FSTFKCYGVSATKLNDLCFSNVYADSFVVKGDDVRQIAPGQTGVIADYNYKLPDDFMGCV
Sbjct: 361 FSTFKCYGVSATKLNDLCFSNVYADSFVVKGDDVRQIAPGQTGVIADYNYKLPDDFMGCV 420
Query: 22737 LAWNTRNIDATSTGNYNYKYRYLRHGKLRPFERDISNVPFSPDGKPCTPPALNCYWPLND 22916
LAWNTRNIDATSTGNYNYKYRYLRHGKLRPFERDISNVPFSPDGKPCTPPALNCYWPLND
Sbjct: 421 LAWNTRNIDATSTGNYNYKYRYLRHGKLRPFERDISNVPFSPDGKPCTPPALNCYWPLND 480
Query: 22917 YGFYTTTGIGYQPYRVVVLSFELLNAPATVCGPKLSTDLIKNQCVNFNFNGLTGTGVLTP 23096
YGFYTTTGIGYQPYRVVVLSFELLNAPATVCGPKLSTDLIKNQCVNFNFNGLTGTGVLTP
Sbjct: 481 YGFYTTTGIGYQPYRVVVLSFELLNAPATVCGPKLSTDLIKNQCVNFNFNGLTGTGVLTP 540
Query: 23097 SSKRFQPFQQFGRDVSDFTDSVRDPKTSEILDISPCAFGGVSVITPGTNASSEVAVLYQD 23276
SSKRFQPFQQFGRDVSDFTDSVRDPKTSEILDISPCAFGGVSVITPGTNASSEVAVLYQD
Sbjct: 541 SSKRFQPFQQFGRDVSDFTDSVRDPKTSEILDISPCAFGGVSVITPGTNASSEVAVLYQD 600
Query: 23277 VNCTDVSTAIHADQLTPAWRIYSTGNNVFQTQAGCLIGAEHVDTSYECDIPIGAGICASY 23456
VNCTDVSTAIHADQLTPAWRIYSTGNNVFQTQAGCLIGAEHVDTSYECDIPIGAGICASY
Sbjct: 601 VNCTDVSTAIHADQLTPAWRIYSTGNNVFQTQAGCLIGAEHVDTSYECDIPIGAGICASY 660
Query: 23457 HTVSLLRSTSQKSIVAYTMSLGADSSIAYSNNTIAIPTNFSISITTEVMPVSMAKTSVDC 23636
HTVSLLRSTSQKSIVAYTMSLGADSSIAYSNNTIAIPTNFSISITTEVMPVSMAKTSVDC
Sbjct: 661 HTVSLLRSTSQKSIVAYTMSLGADSSIAYSNNTIAIPTNFSISITTEVMPVSMAKTSVDC 720
Query: 23637 NMYICGDSTECANLLLQYGSFCTQLNRALSGIAAEQDRNTREVFAQVKQMYKTPTLKYFG 23816
NMYICGDSTECANLLLQYGSFCTQLNRALSGIAAEQDRNTREVFAQVKQMYKTPTLKYFG
Sbjct: 721 NMYICGDSTECANLLLQYGSFCTQLNRALSGIAAEQDRNTREVFAQVKQMYKTPTLKYFG 780
Query: 23817 GFNFSQILPDPLKPTKRSFIEDLLFNKVTLADAGFMKQYGECLGDINARDLICAQKFNGL 23996
GFNFSQILPDPLKPTKRSFIEDLLFNKVTLADAGFMKQYGECLGDINARDLICAQKFNGL
Sbjct: 781 GFNFSQILPDPLKPTKRSFIEDLLFNKVTLADAGFMKQYGECLGDINARDLICAQKFNGL 840
Query: 23997 TVLPPLLTDDMIAAYTAALVSXXXXXXXXXXXXXXLQIPFAMQMAYRFNGIGVTQNVLYE 24176
TVLPPLLTDDMIAAYTAALVS
LQIPFAMQMAYRFNGIGVTQNVLYE
Sbjct: 841 TVLPPLLTDDMIAAYTAALVSGTATAGWTFGAGAALQIPFAMQMAYRFNGIGVTQNVLYE 900
Query: 24177 NQKQIANQFNKAISQIQESLTTTSTALGKLQDVVNQNAQALNTLVKQLSSNFGAISSVLN 24356
NQKQIANQFNKAISQIQESLTTTSTALGKLQDVVNQNAQALNTLVKQLSSNFGAISSVLN
Sbjct: 901 NQKQIANQFNKAISQIQESLTTTSTALGKLQDVVNQNAQALNTLVKQLSSNFGAISSVLN 960
Query: 24357 DILSRLDKVEAEVQIDRLITGRLQSLQTYVTQQLIRAAEIRASANLAATKMSECVLGQSK 24536
DILSRLDKVEAEVQIDRLITGRLQSLQTYVTQQLIRAAEIRASANLAATKMSECVLGQSK
Sbjct: 961 DILSRLDKVEAEVQIDRLITGRLQSLQTYVTQQLIRAAEIRASANLAATKMSECVLGQSK 1020

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Query: 24537 RVDFCGKGYHLMSFPQAAPHGVVFLHVTYVPSQERNFTTAPAICHEGKAYFPREGVFVFN 24716
RVDFCGKGYHLMSFPQAAPHGVVFLHVTYVPSQERNFTTAPAICHEGKAYFPREGVFVFN
Sbjct: 1021 RVDFCGKGYHLMSFPQAAPHGVVFLHVTYVPSQERNFTTAPAICHEGKAYFPREGVFVFN 1080
Query: 24717 GTSWFITQRNFFSPQIITTDNTFVSGNCDVVIGIINNTVYDPLQPELDSFKEELDKYFKN 24896
GTSWFITQRNFFSPQIITTDNTFVSGNCDVVIGIINNTVYDPLQPELDSFKEELDKYFKN
Sbjct: 1081 GTSWFITQRNFFSPQIITTDNTFVSGNCDVVIGIINNTVYDPLQPELDSFKEELDKYFKN 1140
Query: 24897 HTSPDVDLGDISGINASVVNIQKEIDRLNEVAKNLNESLIDLQELGKYEQYIKWPWYVWL 25076
HTSPDVDLGDISGINASVVNIQKEIDRLNEVAKNLNESLIDLQELGKYEQYIKWPWYVWL
Sbjct: 1141 HTSPDVDLGDISGINASVVNIQKEIDRLNEVAKNLNESLIDLQELGKYEQYIKWPWYVWL 1200
Query: 25077 GFIAGLIAIVMVTIXXXXXXXXXXXXKGACSCGSCCKFDEDDSEPVLKGVKLHYT 25241
GFIAGLIAIVMVTI
KGACSCGSCCKFDEDDSEPVLKGVKLHYT
Sbjct: 1201 GFIAGLIAIVMVTILLCCMTSCCSCLKGACSCGSCCKFDEDDSEPVLKGVKLHYT 1255
>gi|29837504|ref|NP_828869.1|
coronavirus]
Length = 932
putative coronavirus nsp9 (RdRp); RNA-dependent RNA polyme
Score = 1920 bits (4974), Expect(2) = 0.0
Identities = 923/923 (100%), Positives = 923/923 (100%)
Frame = +3
Query: 13383 RVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNLLDSY 13562
RVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNLLDSY
Sbjct: 10 RVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNLLDSY 69
Query: 13563 FVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMADLVY 13742
FVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMADLVY
Sbjct: 70 FVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMADLVY 129
Query: 13743 ALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQSLLKT 13922
ALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQSLLKT
Sbjct: 130 ALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQSLLKT 189
Query: 13923 VQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPILTLTR 14102
VQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPILTLTR
Sbjct: 190 VQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPILTLTR 249
Query: 14103 ALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDRCILH 14282
ALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDRCILH
Sbjct: 250 ALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDRCILH 309
Query: 14283 CANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRLSFK 14462
CANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRLSFK
Sbjct: 310 CANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRLSFK 369
Query: 14463 ELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSKGFF 14642
ELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSKGFF
Sbjct: 370 ELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSKGFF 429
Query: 14643 KEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCIN 14822
KEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCIN
Sbjct: 430 KEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCIN 489
Query: 14823 ANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAIS 15002

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ANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAIS
Sbjct: 490 ANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAIS 549
Query: 15003 AKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV 15182
AKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV
Sbjct: 550 AKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDV 609
Query: 15183 ETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVMC 15362
ETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVMC
Sbjct: 610 ETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVMC 669
Query: 15363 GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYE 15542
GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYE
Sbjct: 670 GGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYE 729
Query: 15543 CLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAVLYYQ 15722
CLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAVLYYQ
Sbjct: 730 CLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAVLYYQ 789
Query: 15723 NNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVK 15902
NNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVK
Sbjct: 790 NNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVK 849
Query: 15903 TDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVMLTN 16082
TDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVMLTN
Sbjct: 850 TDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVMLTN 909
Query: 16083 DNTSRYWEPEFYEAMYTPHTVLQ 16151
DNTSRYWEPEFYEAMYTPHTVLQ
Sbjct: 910 DNTSRYWEPEFYEAMYTPHTVLQ 932
Score = 21.2 bits (43), Expect(2) = 0.0
Identities = 9/9 (100%), Positives = 9/9 (100%)
Frame = +1
Query: 13357 SADASTFLN 13383
SADASTFLN
Sbjct: 1 SADASTFLN 9
>gi|4454357|emb|CAA09623.1|
Length = 2121
hypothetical protein [Transmissible gastroenteritis virus]
Score = 1849 bits (4790), Expect(2) = 0.0
Identities = 885/1470 (60%), Positives = 1100/1470 (74%), Gaps = 2/1470 (0%)
Frame = +3
Query: 13383 RVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGNLLDSY 13562
RV G SAARL PC GT D V RAFDIYN+ VA KFLKTNC RF+ D+ D+Y
Sbjct: 657 RVRGSSAARLEPCN-GTDPDHVSRAFDIYNKDVACIGKFLKTNCSRFRNLDKH----DAY 711
Query: 13563 FVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMADLVY 13742
++VKR T + HE+ YN +KD AVA HDFF ++ +++R+ LTKYTM DL Y
Sbjct: 712 YIVKRCTKTVMDHEQVCYNDLKDSGAVAEHDFFTYKEGRCEFGNVARRNLTKYTMMDLCY 771
Query: 13743 ALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQSLLKT 13922
A+R+FDE NC+ LKEILVT C +++F KDW+D VEN I VYA LG V ++LK

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Sbjct: 772 AIRNFDEKNCEVLKEILVTVGACTEEFFENKDWFDPVENEAIHEVYAKLGPIVANAMLKC 831
Query: 13923 VQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPILTLTR 14102
V FCDA+ + G +GV+TLDNQDLNGN+YDFGDFV+ APG G V SYYS +MP++ +T
Sbjct: 832 VAFCDAIVEKGYIGVITLDNQDLNGNFYDFGDFVKTAPGFGCACVTSYYSYMMPLMGMTS 891
Query: 14103 ALAAESHMDADL-AKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDRCIL 14279
L +E+ + +D+ ++DLL YDFTE + LF +YFKYWD+TYHPNC +C D CI+
Sbjct: 892 CLESENFVKSDIYGSDYKQYDLLAYDFTEHKEYLFQKYFKYWDRTYHPNCSDCTSDECII 951
Query: 14280 HCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRLSF 14459
HCANFN LFS P T+FGPLVRK+ +DGVP VV+ GYHF++LG+V N DV L + +LS
Sbjct: 952 HCANFNTLFSMTIPMTAFGPLVRKVHIDGVPVVVTAGYHFKQLGIVWNLDVKLDTMKLSM 1011
Query: 14460 KELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSKGF 14639
+LL + DP + AS LLD+RT CFS+AAL+ + +QTVKPG+FNKDFYDF +GF
Sbjct: 1012 TDLLRFVTDPTLLVASSPALLDQRTVCFSIAALSTGITYQTVKPGHFNKDFYDFITERGF 1071
Query: 14640 FKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCI 14819
F+EGS + LKHFFFAQ G AA++D++YYRYN T+ DI Q FV ++V KYF+CYDGGCI
Sbjct: 1072 FEEGSELTLKHFFFAQGGEAAMTDFNYYRYNRVTVLDICQAQFVYKIVGKYFECYDGGCI 1131
Query: 14820 NANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAI 14999
NA +V+V N DKSAG+P NK+GKARLYY+++SYE+QDALFA TKRNV+PT+TQMNLKYAI
Sbjct: 1132 NAREVVVTNYDKSAGYPLNKFGKARLYYETLSYEEQDALFALTKRNVLPTMTQMNLKYAI 1191
Query: 15000 SAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSD 15179
S K RARTV GVS+ STMT RQ+HQK LKSIAATR ATVVIG++KFYGGW NMLK + D
Sbjct: 1192 SGKARARTVGGVSLLSTMTTRQYHQKHLKSIAATRNATVVIGSTKFYGGWDNMLKNLMRD 1251
Query: 15180 VETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVM 15359
V+ LMGWDYPKCDRA+PNM+R+ ++++L KH CC + RFYRL+NE AQVL+E+V
Sbjct: 1252 VDNGCLMGWDYPKCDRALPNMIRMASAMILGSKHVGCCTHNDRFYRLSNELAQVLTEVVH 1311
Query: 15360 CGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLY 15539
C G Y KPGGT+SGD TTAYANS FNI QAV+ANVN LL D N + V+++Q ++Y
Sbjct: 1312 CTGGFYFKPGGTTSGDGTTAYANSAFNIFQAVSANVNKLLGVDSNACNNVTVKSIQRKIY 1371
Query: 15540 ECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAVLYY 15719
+ YR+ +D EFV E+++YLRKHFSMMILSDD VVCYN +YA G VA I FKA LYY
Sbjct: 1372 DNCYRSSSIDEEFVVEYFSYLRKHFSMMILSDDGVVCYNKDYADLGYVADINAFKATLYY 1431
Query: 15720 QNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIV 15899
QNNVFMS +KCW E DL+ GPHEFCSQHT+ + D YLPYPDPSRIL AG FVDDIV
Sbjct: 1432 QNNVFMSTSKCWVEPDLSVGPHEFCSQHTLQIVGPDGDYYLPYPDPSRILSAGVFVDDIV 1491
Query: 15900 KTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVMLT 16079
KTD +M+ER+VSLAIDAYPLTKHP Y VF+ L +++ L L +LD +SV +
Sbjct: 1492 KTDNVIMLERYVSLAIDAYPLTKHPKPAYQKVFYTLLDWVKHLQKNLNAGVLDSFSVTML 1551
Query: 16080 NDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHVIS 16259
+ ++W EFY ++Y TVLQA G CV+C SQT LRCG C+RRP LC KC YDHV+
Sbjct: 1552 EEGQDKFWSEEFYASLYEKSTVLQAAGMCVVCGSQTVLRCGDCLRRPLLCTKCAYDHVMG 1611
Query: 16260 TSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHKPPISFPLCANGQVFGLYKNT 16439
T HK ++S+ PYVC+ GC+V DVT+L+LGG+SYYC +HKP +SFPLCANG VFGLYK++
Sbjct: 1612 TKHKFIMSITPYVCSFNGCNVNDVTKLFLGGLSYYCMNHKPQLSFPLCANGNVFGLYKSS 1671
Query: 16440 CVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAETLKATEETFKLSYGIATVRE 16619
VGS+ V DFN +A DWTN DY LAN E LK+FAAET+KA EE+ K Y A ++E

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Sbjct: 1672 AVGSEAVEDFNKLAVSDWTNVEDYKLANNVKESLKIFAAETVKAKEESVKSEYAYAVLKE 1731
Query: 16620 VLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIGEYTFEKGDYG-DAVVYRGTT 16796
V+ +E+ L WE K +PPLNRN VFT ++++K++K+Q+GE+ FE+ +YG D+V Y+ T+
Sbjct: 1732 VIGPKEIVLQWEASKTKPPLNRNSVFTCFQISKDTKIQLGEFVFEQSEYGSDSVYYKSTS 1791
Query: 16797 TYKLNVGDYFVLTSHTVMPLSAPTLVPQEHYVRITGLYPTLNISDEFSSNVANYQKVGMQ 16976
TYKL G FVLTSH V PL AP LV QE Y I+ LYP NI++ +++ V YQ +G Q
Sbjct: 1792 TYKLTPGMIFVLTSHNVSPLKAPILVNQEKYNTISKLYPVFNIAEAYNTLVPYYQMIGKQ 1851
Query: 16977 KYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKCSRIIP 17156
K++T+QGPPG+GKSH IGL LYYP ARIVYTACSHAAVDALCEKA K +D+CSRIIP
Sbjct: 1852 KFTTIQGPPGSGKSHCVIGLGLYYPQARIVYTACSHAAVDALCEKAAKNFNVDRCSRIIP 1911
Query: 17157 ARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEISMATNYDLSVVNARLRAKH 17336
R RV+C+ FK N+T QY+FCTVNALPE + DIVV DE+SM TNYDLSV+N+RL KH
Sbjct: 1912 QRIRVDCYTGFKPNNTNAQYLFCTVNALPEASCDIVVVDEVSMCTNYDLSVINSRLSYKH 1971
Query: 17337 YVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDMFLGTCRRCPAEIVDTVSAL 17516
VY+GDP QLPAPRTL+ KG L+P+ +N V + M T+GPD+FL C RCPAEIV TVSAL
Sbjct: 1972 IVYVGDPQQLPAPRTLINKGVLQPQDYNVVTKRMCTLGPDVFLHKCYRCPAEIVKTVSAL 2031
Query: 17517 VYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVVREFLTRNPAWRKAVFISPY 17696
VY+NK +S QCFKMF KG I + +S+IN Q+ VV+ FL NP WRKAVFISPY
Sbjct: 2032 VYENKFVPVNPESKQCFKMFVKGQIQIESNSSINNKQLEVVKAFLAHNPKWRKAVFISPY 2091
Query: 17697 NSQNAVASKILGLPTQTVDSSQGSEYDYVI 17786
NSQN VA ++LGL TQTVDS+QGSEYDYVI
Sbjct: 2092 NSQNYVARRLLGLQTQTVDSAQGSEYDYVI 2121
Score = 45.1 bits (105), Expect(2) = 0.0
Identities = 20/46 (43%), Positives = 24/46 (52%)
Frame = +1
Query: 13198 KGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSCDQ 13335
K L + QIPT DP+ F + N VC VCG W GC CD+
Sbjct: 600 KMIAKLGSSFEQIPTG-TQDPIRFCIENEVCVVCGCWLNNGCMCDR 644
Score = 39.3 bits (90), Expect = 4.0
Identities = 40/177 (22%), Positives = 74/177 (41%), Gaps = 5/177 (2%)
Frame = +1
Query: 2176 KDAWEILKFLITGVFDIV--KGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKL 2349
K +E++ L T F IV K V + +KD V + V+ KA ++ +TIAG +
Sbjct: 416 KQIYEVVASLCTSAFTIVNYKPTFVVPDNRVKDLVDKCVKVLVKAFDVFTQIITIAGIEA 475
Query: 2350 RSLNLGEVFIAQSKGLYRQC---IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVV 2520
+ LG ++ + L + I GK+Q L A + + + T +E
Sbjct: 476 KCFVLGAKYLLFNNALVKLVSVKILGKKQKGLECAFFA---TSLVGATVNVTPKRTETAT 532
Query: 2521 LKNGELEALETPVDSFTNGAIVGTPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFR 2691
+ +++ + P + + + + G M + + SP + TNNVF+
Sbjct: 533 ISLNKVDDVVAPGEGY---------IVIVGDMAFYKSGEYYFMMSSPNFVLTNNVFK 580

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Score = 38.5 bits (88), Expect = 6.8
Identities = 73/339 (21%), Positives = 112/339 (33%), Gaps = 5/339 (1%)
Frame = +1
Query: 802 YVDNNFCGPDGYPL--DCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIAWFT 975
YVD CG DG P+ KD+ D IE + Y C AW T
Sbjct: 113 YVDQYMCGADGKPVIEGDFKDYFG-----------DEDIIEFEGEEYHC-------AWTT 154
Query: 976 ERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRIRS 1155
R +K QT F I+ + + P N + + P V+K +
Sbjct: 155 VRDEKPLNQQTLFTIQEIQYNLDIPHKLP------NCATRHVAPPVKKNSKIVLSEDYKK 208
Query: 1156 VYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCE-HCGTENLVIEGPTTCGYLP 1332
+Y + S M C + T F+ AT CG+E+ + T G+
Sbjct: 209 LYDIFG---------SPFMGNGDCLSKCFDTLHFIAATLRCPCGSESSGVGDWT--GF-- 255
Query: 1333 TNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKRA 1512
K C G ++ D + T + G + F CV Y G +
Sbjct: 256 -----KTACCGLSGKVKGV--TLGDIKPGDAVVTSMSAGKGVKFFANCVLQYAGDVEGVS 308
Query: 1513 YW--VPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILAS 1686
W + + D G G+ + + + +++ I GD II
Sbjct: 309 IWKVIKTFTVDETVCTPGFEGELNDFIKPESKSLVACSVKRAFITGDIDDAVHDCIITGK 368
Query: 1687 FSASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVK 1803
ST+ F + L +K V+ CG V K V+
Sbjct: 369 LDLSTNLFGNV--GLLFKKTPWFVQKCGALFVDAWKVVE 405
>gi|18033982|gb|AAL57315.1|
Length = 4383
replicase [bovine coronavirus]
Score = 1754 bits (4543), Expect = 0.0
Identities = 1040/2894 (35%), Positives = 1539/2894 (53%), Gaps = 56/2894 (1%)
Frame = +1
Query: 4882 IKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTL 5061
+ + TVD N + V + +G+ G + DG +VTK K +N++GK FF + +
Sbjct: 1565 VDILLTVDGVNFTNRFVPVGENFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSE 1624
Query: 5062 RSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLE 5241
+A D+ L Y + L + KW+ G + K A+NNC+++ L LQ L
Sbjct: 1625 DLKAVRSSFNFDQKELLAYYNMLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLN 1684
Query: 5242 VKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRV 5421
+KF QEA+ R+G A F +L+LA G+ D R+ + + +L A
Sbjct: 1685 LKFKIVQWQEAWLEFRSGRPARFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICD 1744
Query: 5422 LNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 5601
+ CK CG K TGV+AVM+ GTLS ++L+ G ++ C CG+ + V+ + F++
Sbjct: 1745 FEIACK-CGVKQEQRTGVDAVMHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLIC 1802
Query: 5602 SAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVF 5781
S PA KL +G AN + G+ + GHY H+ +++ D +++ K+++ G ++D
Sbjct: 1803 SNTPASVKLPKGVG-SANIFKGD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCL 1860
Query: 5782 Y-KETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDL-VPTQPLPNASF 5955
Y K T +Y LD V E +P L YY YYT++ I T + +
Sbjct: 1861 YLKNLKQTFKSVLTTYYLDDVKKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGVY 1920

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Query: 5956 DNFKLTCSNTKFADDLNQMTGFTKPASR-ELSVTFFPDLNGDVVAIDYRHYSASFKKGAK 6132
NFKL D LN GF E VT +P GDVV Y +++G
Sbjct: 1921 TNFKLI--GHTICDILNAKLGFDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGCI 1978
Query: 6133 LLHKPIVWHINQATTKTTFKPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLACESQ 6312
KP++W ++ + + T+ R L VD N F+VL V+D +++ ES
Sbjct: 1979 TFGKPVIWLSHEQASLNSL---TYFNRPLL----VD-ENKFDVLKVDDVDDGGDIS-ESD 2029
Query: 6313 QPTSEEVVENPTIQKEVIECD--VKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVEN 6486
S+E+ +I+ K +V +VI+ +K + L D+ ++
Sbjct: 2030 AKESKEI--------NIIKLSGVKKPFKVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLTG 2081
Query: 6487 TSITIKKPNELSLALGLKTIATH---GIAAINSVPWSKI-LAYVKPFLGQAAITTSNCAK 6654
++ N+LS+A+ + TI G+ + S+P + L +KP N K
Sbjct: 2082 CRYVVRTANDLSMAVNVPTIRKFIKFGMTLV-SIPIDLLNLREIKPVF--------NVVK 2132
Query: 6655 RLAQRVFN--NYMPYVFTLLF--------QLCTFTKSTNSRIRASLPTTIAKNSVKSVAK 6804
+ ++ N++ ++F LLF +T S++ L KN+ +
Sbjct: 2133 AVRNKISACFNFIKWLFVLLFGWIKISADNKVIYTTEVASKLTCKLVALAFKNAFLTFKW 2192
Query: 6805 LCLDAGINYVKSPKFSKLFTIAMWXXXXXXXXXXXXXVTAAFGVLLSNFGAPSYCNGVRE 6984
+ G + + +W G L P++ + +
Sbjct: 2193 SVVARGACIIAT-------IFLLWFNFIYANVIFSDFYLPKIGFL------PTFVGKIAQ 2239
Query: 6985 LYLNSSNVTTM-------------DFCEGSFPCSICLSGLDSLDSYPALETIQVTISSYK 7125
++ ++ T+ +C GS C CL+G D LD+Y A++ +Q
Sbjct: 2240 WIKSTFSLVTICDLYSIQDVGFKNQYCNGSIACQFCLAGFDMLDNYKAIDVVQYEADRRA 2299
Query: 7126 -LDLT-ILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNS--WLMWFIISI 7293
+D T +L + E +++Y L+T +FY L +Q+ + F+ ++ W + ++S+
Sbjct: 2300 FVDYTGVLKIVIELIVSYALYTAWFYPLFALISIQILTTWLPELFMLSTLHWSVRLLVSL 2359
Query: 7294 VQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMK 7473
M P +R YI ASF ++ + H+ GC+ C+ CYKRNR+ RV+C+TIV GM
Sbjct: 2360 ANMLPAHVFMRFYIIIASFIKLFSLFRHVAYGCSKPGCLFCYKRNRSLRVKCSTIVGGMI 2419
Query: 7474 RSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIV 7653
R + V ANGG GFC H WNC++CD++ G+TFI+ E A DLS + KRPI PTD + + V
Sbjct: 2420 RYYDVMANGGTGFCSKHQWNCIDCDSYKPGNTFITVEAALDLSKELKRPIQPTDVAYHTV 2479
Query: 7654 DSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCDE 7833
V + L++++ GQ+TY+ S FV+ NL + KG ++V+V + + D+
Sbjct: 2480 TDVKQVGCYMRLFYERDGQRTYDDVNASLFVDYSNLLHSKVKGVPNMHVVVVENDA--DK 2537
Query: 7834 SASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLKA 8013
+ +A+V+Y+Q + +PIL++D+ L++ T V+ MFD YVDTF + F V + L A
Sbjct: 2538 ANFLNAAVFYAQSLFRPILMVDKNLITTANTGTSVTETMFDVYVDTFLSMFDVDKKSLNA 2597
Query: 8014 LVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHS-DLEVTGDSC 8190
L+ATAHS + +G + VL TF+S AR+ + +S S LE+T +SC
Sbjct: 2598 LIATAHSSIKQGTQICKVLDTFLSCARKSCSIDSDVDTKCLADSVMSAVSAGLELTDESC 2657
Query: 8191 NNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQLRKQIR 8370
NN + TY K +N+ DLG I +A+H+ VAK VS IW+V + LS + +++
Sbjct: 2658 NNLVPTYLKGDNIVAADLGVLIQNSAKHVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLK 2717
Query: 8371 SAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVS----TCFKLMLKATXXXXXXXXX 8538
A K + +LT V+V+TT SLKGG + S CF L L
Sbjct: 2718 KACCKTGLKLKLTYNKQMANVSVLTTPFSLKGGAVFSYFVYVCFLLSLVC-------FIG 2770

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Query: 8539 XYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAWFSQRGGS-- 8712
+ +MP +T+ D YK + +GV RD+ D CFANK FD W+ G
Sbjct: 2771 LWCLMPTYTVHKSDFQLPVYTSYKVLDNGVIRDVSVEDVCFANKFEQFDQWYESTFGLSY 2830
Query: 8713 YKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICYTPSKLIE 8892
Y N +CP+V A++ +++G V +P VLR LHF+ SA G CYTP I
Sbjct: 2831 YSNSMACPIVVAVVDQDLGSTVFNVPTKVLR-YGYHVLHFITHALSADGVQCYTPHSQIS 2889
Query: 8893 YSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYVLMDGS-IIQ 9069
YS+F S CVL++ CT+F A G P PYCY L++ + YS L P RY L + I+
Sbjct: 2890 YSNFYASGCVLSSACTMFAMADGSPQPYCYTEGLMQNASLYSSLVPHVRYNLANAKGFIR 2949
Query: 9070 FPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRALSGVFCGVDA 9249
FP EG VR+V T YCR G CE ++ GIC + +G WVLNN++YR+L G FCG D
Sbjct: 2950 FPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRSLPGTFCGRDV 3009
Query: 9250 MNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEYNHVVAANAL 9429
+LI +F L QPV L ++AS +AG I+A++V YY +K +R FG+Y +V N +
Sbjct: 3010 FDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGDYTSIVFVNVI 3069
Query: 9430 LFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFAMFSPIVPFWITAI 9609
++ ++F +L + Y L VY++ Y Y T YF +++S + HLQW M+ I+P W +
Sbjct: 3070 VWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYGTIMPLWFCLL 3129
Query: 9610 YVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTFLLNKEMYLKLRSETLLPLTQ 9789
Y+ + H W F Y R R+ + + TFEE AL TF++ K+ Y KL++ L
Sbjct: 3130 YISVVVSNHAFWVFA-YCR-RLGTSVRSDGTFEEMALTTFMITKDSYCKLKNS--LSDVA 3185
Query: 9790 YNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNS-GADVLYQPPQTSITSAVL 9966
+NRYL+LYNKY+Y+SG +DT +YREAAC LAKA++ F+N+ G+DVLYQPP S++++ L
Sbjct: 3186 FNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQPPTASVSTSFL 3245
Query: 9967 QSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLI 10146
QSG KM P+ KVE C+V VT G TLNGLWLDD VYCPRHVIC+A DM NP+Y +LL
Sbjct: 3246 QSGIVKMVNPTSKVEPCIVSVTYGNMTLNGLWLDDKVYCPRHVICSASDMTNPDYTNLLC 3305
Query: 10147 RKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYN 10326
R ++ F V + L V+ + MQ C+L L V N +TPKY F ++PG+TF+VLA YN
Sbjct: 3306 RVTSSDFTVLFDRLSLTVMSYQMQGCMLVLTVTLQNSRTPKYTFGVVKPGETFTVLAAYN 3365
Query: 10327 GSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEG 10506
G P G + MR ++TIKGSFL GSCGSVG+ + DCV F YMH +EL TG H GTD G
Sbjct: 3366 GKPQGAFHVTMRSSYTIKGSFLCGSCGSVGYVLMGDCVKFVYMHQLELSTGCHTGTDFNG 3425
Query: 10507 KFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNY 10686
FYGP+ D Q Q D ++N +AWLYAA++N WF+ ++ DFN+ A+ +
Sbjct: 3426 DFYGPYKDAQVVQLPVQDYIQSVNFVAWLYAAILNNCNWFVQSDKCSVEDFNVWALSNGF 3485
Query: 10687 EPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQ 10866
+ D V + L++ TG+++ + AA+K L+NG GR I+GS EDE TP DV +Q
Sbjct: 3486 SQVKSDLV--IDALASMTGVSLETLLAAIKR-LKNGFQGRQIMGSCSFEDELTPSDVYQQ 3542
Query: 10867 CSGVTFQGKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFVYENAFLPFTLGIMAIA 11046
+G+ Q K ++VKG W+ +W++F +V N L T + +
Sbjct: 3543 LAGIKLQSKRTRLVKGIVCWIMASTFLFSCIITAFVKWTMFMYVTTN-MLSITFCALCVI 3601
Query: 11047 ACAMLLVKHKHAFLCLFLLPSLATVAYFN-MVYMPASWVMRIMTWLELADTSLSGYRLKD 11223
+ AMLLVKHKH +L ++++P L T+ Y N +V ++ + WL S+ Y D
Sbjct: 3602 SLAMLLVKHKHLYLTMYIIPVLFTLLYNNYLVVYKQTFRGYVYAWLSYYVPSVE-YTYTD 3660

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Query: 11224 CVMYASALVL-LILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALDQAISMWALVISV 11400
V+Y L++ ++ +T R++ D + + VI++V Y G+ L++ I + ++ S+
Sbjct: 3661 EVIYGMLLLIGMVFVTLRSINHDLFSFIMFVGRVISVVSLWYMGSNLEEEILL--MLASL 3718
Query: 11401 TSNYSGVVTTIMFLARAIVFVCVEYYPLLFITGNTLQCIMLVXXXXXXXXXXXXXXXXXX 11580
Y+ T + A ++ V L F ++ +++
Sbjct: 3719 FGTYTW-TTALSMAAAKVIAKWVAVNVLYFTDIPQIKIVLVCYLFIGYIISCYWGLFSLM 3777
Query: 11581 NRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGIGGKPCIKVATVQS 11760
N FR+ LGVY+Y +S QE RYMN+ GL PPK+S +A LN KLLGIGG P I+V+ QS
Sbjct: 3778 NSLFRMPLGVYNYKISVQELRYMNANGLRPPKNSFEALMLNFKLLGIGGVPIIEVSQFQS 3837
Query: 11761 KMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKDTTEAFEKMXXXXXXXXX 11940
K++DVKC KLW C LHN+IL D AFEK+
Sbjct: 3838 KLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLFA 3897
Query: 11941 MQGAVD------INRLCEEMLDNRATLQAIASEFSSLPSXXXXXXXXXXXXXXXXNGDXX 12102
AVD I +C++ + LQA+ SEF ++ S +G
Sbjct: 3898 NPAAVDSKCLTSIEEVCDDYAKDNTVLQALQSEFVNMASFVEYEVAKKNLDEARSSGSAN 3957
Query: 12103 XXXXXXXXXX-XXXXXEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTML 12279
++RD A+ RKLE+MAD A+T MYK+AR DK++KV SA+QTML
Sbjct: 3958 QQQLKQLEKACNIAKSAYERDRAVARKLERMADLALTNMYKEARINDKKSKVVSALQTML 4017
Query: 12280 FTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGNTFTYAS 12459
F+M+RK GCVPLN IP A L ++VPD Y D TYA
Sbjct: 4018 FSMVRKLDNQALNSILDNAVKGCVPLNAIPSLAANTLTIIVPDKSVYDQVVDNVYVTYAG 4077
Query: 12460 ALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTALRAN--SAVKLQNNELSPVALRQ 12633
+W+IQ + D+D QL+EI+ D + WPL++ A R N SA LQNNEL P L+
Sbjct: 4078 NVWQIQTIQDSDGTNKQLNEISDDCN----WPLVIIANRHNEVSATVLQNNELMPAKLKT 4133
Query: 12634 MSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYTELEP 12813
+G QT T YYNNS G+ V A+LSD LK+ + K DG + EL+P
Sbjct: 4134 QVVNSGPDQTCNTPTQ--CYYNNSNNGKIVYAILSDVDGLKYTKILKDDG-NFVVLELDP 4190
Query: 12814 PCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEVPANSTVLSFCA 12993
PC+F KG K+KYLYF+KG N L RG V+G++++TVRLQAG ATE +NS++LS CA
Sbjct: 4191 PCKFTVQDVKGLKIKYLYFVKGCNTLARGWVVGTISSTVRLQAGTATEYASNSSILSLCA 4250
Query: 12994 FAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCCLYCR 13173
F+VDP K Y D++ GG PI NCVKMLC H GTG AITV P+A +Q+S+GGAS C+YCR
Sbjct: 4251 FSVDPKKTYLDFIQQGGTPIANCVKMLCDHAGTGMAITVKPDATTNQDSYGGASVCIYCR 4310
Query: 13174 CHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSCDQLREPLM 13353
++HP+ G C L+GK+VQ+P DPV + L + VC VCG W+ CSC + +
Sbjct: 4311 ARVEHPDVDGLCKLRGKFVQVPVG-IKDPVSYVLTHDVCQVCGFWRDGSCSCVS-TDTTV 4368
Query: 13354 QSADASTFLNGFAV 13395
QS D + FLNGF V
Sbjct: 4369 QSKD-TNFLNGFGV 4381
Score = 85.1 bits (209), Expect = 6e-14
Identities = 51/155 (32%), Positives = 78/155 (50%), Gaps = 2/155 (1%)
Frame = +1
Query: 3283 LTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKL 3462

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+T NV DI+K ++ V+VN AN H+ HGGGVA A+ A KE+ D +K
Sbjct: 1273 ITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVKS 1332
Query: 3463 NGPLTVGGSCLLSGHNLAKKCLHVVGPN--LNAGEDIQLLKAAYENFNSQDILLAPLLSA 3636
G G + +G L K L+VVGP+ + LL+ Y++ N D ++ L+SA
Sbjct: 1333 KGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLISA 1392
Query: 3637 GIFGAKPLQSLQVCVQTVRTQVYIAVNDKALYEQV 3741
GIF SL + T QV + N++ ++ +
Sbjct: 1393 GIFSVPSDVSLTYLLGTAEKQVVLVSNNQEDFDLI 1427
Score = 65.5 bits (158), Expect = 5e-08
Identities = 53/201 (26%), Positives = 96/201 (47%), Gaps = 6/201 (2%)
Frame = +1
Query: 2449 KAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIVGTPVC-VNGLMLLE 2625
KA ++ +L+G D L V + L TP ++ V +C V+ + + +
Sbjct: 771 KAKQKPIYLKGSGSDFSLADSVVEVVTTSL----TPC-GYSEPPKVADKICIVDNVYMAK 825
Query: 2626 IKDKEQYCALSPGLLATNNVFRLKGGAPIKGVTFGED-TVWEVQGY-KNVRITFELDERV 2799
DK + + + +R+ + VTF E TV E+ K +++ +ELD+
Sbjct: 826 AGDKYYPVVVDGHVGLLDQAWRVPCAG--RRVTFKEQPTVNEIASTPKTIKVFYELDKDF 883
Query: 2800 DKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSDLL---TNMGIDLDEWSVATFY 2970
+ +LN C V+ V+ ++ EF VV +A+ + L P +L + L + + +
Sbjct: 884 NTILNTACGVFEVDDTVDMEEFYAVVVDAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLF 943
Query: 2971 LFDDAGEENFSSRMYCSFYPP 3033
LFD+AGEE +S++YC+F P
Sbjct: 944 LFDEAGEEVLASKLYCAFTAP 964
>gi|15081555|ref|NP_150074.1| orf1a polyprotein [Bovine coronavirus]
gi|15077819|gb|AAK83364.1| replicase [bovine coronavirus]
Length = 4383
Score = 1752 bits (4537), Expect = 0.0
Identities = 1040/2894 (35%), Positives = 1538/2894 (53%), Gaps = 56/2894 (1%)
Frame = +1
Query: 4882 IKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTL 5061
+ + TVD N + V + ++G+ G + DG +VTK K +N++GK FF + +
Sbjct: 1565 VDILLTVDGVNFTNRFVPVGESFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSE 1624
Query: 5062 RSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLE 5241
+A D+ L Y + L + KW+ G + K A+NNC+++ L LQ L
Sbjct: 1625 DLKAVRSSFNFDQKELLAYYNMLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLN 1684
Query: 5242 VKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRV 5421
+KF QEA+ R+G A F +L+LA G+ D R+ + + +L A
Sbjct: 1685 LKFKIVQWQEAWLEFRSGRPARFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICD 1744
Query: 5422 LNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 5601
+ CK CG K TGV+AVM+ GTLS ++L+ G ++ C CG+ + V+ + F++
Sbjct: 1745 FEIACK-CGVKQEQRTGVDAVMHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLIC 1802
Query: 5602 SAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVF 5781

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S PA KL +G AN + G+ + GHY H+ +++ D +++ K+++ G ++D
Sbjct: 1803 SNTPASVKLPKGVG-SANIFKGD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCL 1860
Query: 5782 Y-KETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDL-VPTQPLPNASF 5955
Y K T +Y LD V E P L YY YYT++ I T + +
Sbjct: 1861 YLKNLKQTFKSVLTTYYLDDVKKIEYNPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGVY 1920
Query: 5956 DNFKLTCSNTKFADDLNQMTGFTKPASR-ELSVTFFPDLNGDVVAIDYRHYSASFKKGAK 6132
NFKL D LN GF E VT +P GDVV Y +++G
Sbjct: 1921 TNFKLI--GHTICDILNAKLGFDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGCI 1978
Query: 6133 LLHKPIVWHINQATTKTTFKPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQGMDNLACESQ 6312
KP++W ++ + + T+ R L VD N F+VL V+D +++ ES
Sbjct: 1979 TFGKPVIWLSHEQASLNSL---TYFNRPLL----VD-ENKFDVLKVDDVDDGGDIS-ESD 2029
Query: 6313 QPTSEEVVENPTIQKEVIECD--VKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVEN 6486
S+E+ +I+ K +V +VI+ +K + L D+ ++
Sbjct: 2030 AKESKEI--------NIIKLSGVKKPFKVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLTG 2081
Query: 6487 TSITIKKPNELSLALGLKTIATH---GIAAINSVPWSKI-LAYVKPFLGQAAITTSNCAK 6654
++ N LS+A+ + TI G+ + S+P + L +KP N K
Sbjct: 2082 CRYVVRTANALSMAVNVPTIRKFIKFGMTLV-SIPIDLLNLREIKPVF--------NVVK 2132
Query: 6655 RLAQRVFN--NYMPYVFTLLF--------QLCTFTKSTNSRIRASLPTTIAKNSVKSVAK 6804
+ ++ N++ ++F LLF +T S++ L KN+ +
Sbjct: 2133 AVRNKISACFNFIKWLFVLLFGWIKISADNKVIYTTEVASKLTCKLVALAFKNAFLTFKW 2192
Query: 6805 LCLDAGINYVKSPKFSKLFTIAMWXXXXXXXXXXXXXVTAAFGVLLSNFGAPSYCNGVRE 6984
+ G + + +W G L P++ + +
Sbjct: 2193 SVVARGACIIAT-------IFLLWFNFIYANVIFSDFYLPKIGFL------PTFVGKIAQ 2239
Query: 6985 LYLNSSNVTTM-------------DFCEGSFPCSICLSGLDSLDSYPALETIQVTISSYK 7125
++ ++ T+ +C GS C CL+G D LD+Y A++ +Q
Sbjct: 2240 WIKSTFSLVTICDLYSIQDVGFKNQYCNGSIACQFCLAGFDMLDNYKAIDVVQYEADRRA 2299
Query: 7126 -LDLT-ILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNS--WLMWFIISI 7293
+D T +L + E +++Y L+T +FY L +Q+ + F+ ++ W + ++S+
Sbjct: 2300 FVDYTGVLKIVIELIVSYALYTAWFYPLFALISIQILTTWLPELFMLSTLHWSVRLLVSL 2359
Query: 7294 VQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMK 7473
M P +R YI ASF ++ + H+ GC+ C+ CYKRNR+ RV+C+TIV GM
Sbjct: 2360 ANMLPAHVFMRFYIIIASFIKLFILFRHVAYGCSKPGCLFCYKRNRSLRVKCSTIVGGMI 2419
Query: 7474 RSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIV 7653
R + V ANGG GFC H WNC++CD++ G+TFI+ E A DLS + KRPI PTD + + V
Sbjct: 2420 RYYDVMANGGTGFCSKHQWNCIDCDSYKPGNTFITVEAALDLSKELKRPIQPTDVAYHTV 2479
Query: 7654 DSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCDE 7833
V + L++++ GQ+TY+ S FV+ NL + KG ++V+V + + D+
Sbjct: 2480 TDVKQVGCYMRLFYERDGQRTYDDVNASLFVDYSNLLHSKVKGVPNMHVVVVENDA--DK 2537
Query: 7834 SASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLKA 8013
+ +A+V+Y+Q + +PIL++D+ L++ T V+ MFD YVDTF + F V + L A
Sbjct: 2538 ANFLNAAVFYAQSLFRPILMVDKNLITTANTGTSVTETMFDVYVDTFLSMFDVDKKSLNA 2597
Query: 8014 LVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHS-DLEVTGDSC 8190
L+ATAHS + +G + VL TF+S AR+ + +S S LE+T +SC
Sbjct: 2598 LIATAHSSIKQGTQICKVLDTFLSCARKSCSIDSDVDTKCLADSVMSAVSAGLELTDESC 2657
Query: 8191 NNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQLRKQIR 8370

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NN + TY K +N+ DLG I +A+H+ VAK VS IW+V + LS + +++
Sbjct: 2658 NNLVPTYLKGDNIVAADLGVLIQNSAKHVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLK 2717
Query: 8371 SAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVS----TCFKLMLKATXXXXXXXXX 8538
A K + +LT V+V+TT SLKGG + S CF L L
Sbjct: 2718 KACCKTGLKLKLTYNKQMANVSVLTTPFSLKGGAVFSYFVYVCFLLSLVC-------FIG 2770
Query: 8539 XYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAWFSQRGGS-- 8712
+ +MP +T+ D YK + +GV RD+ D CFANK FD W+ G
Sbjct: 2771 LWCLMPTYTVHKSDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQWYESTFGLSY 2830
Query: 8713 YKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICYTPSKLIE 8892
Y N +CP+V A++ +++G V +P VLR LHF+ SA G CYTP I
Sbjct: 2831 YSNSMACPIVVAVVDQDLGSTVFNVPTKVLR-YGYHVLHFITHALSADGVQCYTPHSQIS 2889
Query: 8893 YSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYVLMDGS-IIQ 9069
YS+F S CVL++ CT+F A G P PYCY L++ + YS L P RY L + I+
Sbjct: 2890 YSNFYASGCVLSSACTMFAMADGSPQPYCYTEGLMQNASLYSSLVPHVRYNLANAKGFIR 2949
Query: 9070 FPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRALSGVFCGVDA 9249
FP EG VR+V T YCR G CE ++ GIC + +G WVLNN++YR+L G FCG D
Sbjct: 2950 FPEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRSLPGTFCGRDV 3009
Query: 9250 MNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEYNHVVAANAL 9429
+LI +F L QPV L ++AS +AG I+A++V YY +K +R FG+Y +V N +
Sbjct: 3010 FDLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLVFYYLIKLKRAFGDYTSIVFVNVI 3069
Query: 9430 LFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFAMFSPIVPFWITAI 9609
++ ++F +L + Y L VY++ Y Y T YF +++S + HLQW M+ I+P W +
Sbjct: 3070 VWCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYGTIMPLWFCLL 3129
Query: 9610 YVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTFLLNKEMYLKLRSETLLPLTQ 9789
Y+ + H W F Y R R+ + + TFEE AL TF++ K+ Y KL++ L
Sbjct: 3130 YISVVVSNHAFWVFA-YCR-RLGTSVRSDGTFEEMALTTFMITKDSYCKLKNS--LSDVA 3185
Query: 9790 YNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNS-GADVLYQPPQTSITSAVL 9966
+NRYL+LYNKY+Y+SG +DT +YREAAC LAKA++ F+N+ G+DVLYQPP S++++ L
Sbjct: 3186 FNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQPPTASVSTSFL 3245
Query: 9967 QSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLI 10146
QSG KM P+ KVE C+V VT G TLNGLWLDD VYCPRHVIC+A DM NP+Y +LL
Sbjct: 3246 QSGIVKMVNPTSKVEPCIVSVTYGNMTLNGLWLDDKVYCPRHVICSASDMTNPDYTNLLC 3305
Query: 10147 RKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYN 10326
R ++ F V + L V+ + MQ C+L L V N +TPKY F ++PG+TF+VLA YN
Sbjct: 3306 RVTSSDFTVLFDRLSLTVMSYQMQGCMLVLTVTLQNSRTPKYTFGVVKPGETFTVLAAYN 3365
Query: 10327 GSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEG 10506
G P G + MR ++TIKGSFL GSCGSVG+ + DCV F YMH +EL TG H GTD G
Sbjct: 3366 GKPQGAFHVTMRSSYTIKGSFLCGSCGSVGYVLMGDCVKFVYMHQLELSTGCHTGTDFNG 3425
Query: 10507 KFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNY 10686
FYGP+ D Q Q D ++N +AWLYAA++N WF+ ++ DFN+ A+ +
Sbjct: 3426 DFYGPYKDAQVVQLPVQDYIQSVNFVAWLYAAILNNCNWFVQSDKCSVEDFNVWALSNGF 3485
Query: 10687 EPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQ 10866
+ D V + L++ TG+++ + AA+K L+NG GR I+GS EDE TP DV +Q
Sbjct: 3486 SQVKSDLV--IDALASMTGVSLETLLAAIKR-LKNGFQGRQIMGSCSFEDELTPSDVYQQ 3542
Query: 10867 CSGVTFQGKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFVYENAFLPFTLGIMAIA 11046

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+G+ Q K ++VKG W+ +W++F +V N L T + +
Sbjct: 3543 LAGIKLQSKRTRLVKGIVCWIMASTFLFSCIITAFVKWTMFMYVTTN-MLSITFCALCVI 3601
Query: 11047 ACAMLLVKHKHAFLCLFLLPSLATVAYFN-MVYMPASWVMRIMTWLELADTSLSGYRLKD 11223
+ AMLLVKHKH +L ++++P L T+ Y N +V ++ + WL S+ Y D
Sbjct: 3602 SLAMLLVKHKHLYLTMYIIPVLFTLLYNNYLVVYKQTFRGYVYAWLSYYVPSVE-YTYTD 3660
Query: 11224 CVMYASALVL-LILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALDQAISMWALVISV 11400
V+Y L++ ++ +T R++ D + + VI++V Y G+ L++ I + ++ S+
Sbjct: 3661 EVIYGMLLLIGMVFVTLRSINHDLFSFIMFVGRVISVVSLWYMGSNLEEEILL--MLASL 3718
Query: 11401 TSNYSGVVTTIMFLARAIVFVCVEYYPLLFITGNTLQCIMLVXXXXXXXXXXXXXXXXXX 11580
Y+ T + A ++ V L F ++ +++
Sbjct: 3719 FGTYTW-TTALSMAAAKVIAKWVAVNVLYFTDIPQIKIVLVCYLFIGYIISCYWGLFSLM 3777
Query: 11581 NRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGIGGKPCIKVATVQS 11760
N FR+ LGVY+Y +S QE RYMN+ GL PPK+S +A LN KLLGIGG P I+V+ QS
Sbjct: 3778 NSLFRMPLGVYNYKISVQELRYMNANGLRPPKNSFEALMLNFKLLGIGGVPIIEVSQFQS 3837
Query: 11761 KMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKDTTEAFEKMXXXXXXXXX 11940
K++DVKC KLW C LHN+IL D AFEK+
Sbjct: 3838 KLTDVKCANVVLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLFA 3897
Query: 11941 MQGAVD------INRLCEEMLDNRATLQAIASEFSSLPSXXXXXXXXXXXXXXXXNGDXX 12102
AVD I +C++ + LQA+ SEF ++ S +G
Sbjct: 3898 NPAAVDSKCLTSIEEVCDDYAKDNTVLQALQSEFVNMASFVEYEVAKKNLDEARSSGSAN 3957
Query: 12103 XXXXXXXXXX-XXXXXEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTML 12279
++RD A+ RKLE+MAD A+T MYK+AR DK++KV SA+QTML
Sbjct: 3958 QQQLKQLEKACNIAKSAYERDRAVARKLERMADLALTNMYKEARINDKKSKVVSALQTML 4017
Query: 12280 FTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGNTFTYAS 12459
F+M+RK GCVPLN IP A L ++VPD Y D TYA
Sbjct: 4018 FSMVRKLDNQALNSILDNAVKGCVPLNAIPSLAANTLTIIVPDKSVYDQVVDNVYVTYAG 4077
Query: 12460 ALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTALRAN--SAVKLQNNELSPVALRQ 12633
+W+IQ + D+D QL+EI+ D + WPL++ A R N SA LQNNEL P L+
Sbjct: 4078 NVWQIQTIQDSDGTNKQLNEISDDCN----WPLVIIANRHNEVSATVLQNNELMPAKLKT 4133
Query: 12634 MSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYTELEP 12813
+G QT T YYNNS G+ V A+LSD LK+ + K DG + EL+P
Sbjct: 4134 QVVNSGPDQTCNTPTQ--CYYNNSNNGKIVYAILSDVDGLKYTKILKDDG-NFVVLELDP 4190
Query: 12814 PCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEVPANSTVLSFCA 12993
PC+F KG K+KYLYF+KG N L RG V+G++++TVRLQAG ATE +NS++LS CA
Sbjct: 4191 PCKFTVQDVKGLKIKYLYFVKGCNTLARGWVVGTISSTVRLQAGTATEYASNSSILSLCA 4250
Query: 12994 FAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCCLYCR 13173
F+VDP K Y D++ GG PI NCVKMLC H GTG AITV P+A +Q+S+GGAS C+YCR
Sbjct: 4251 FSVDPKKTYLDFIQQGGTPIANCVKMLCDHAGTGMAITVKPDATTNQDSYGGASVCIYCR 4310
Query: 13174 CHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSCDQLREPLM 13353
++HP+ G C L+GK+VQ+P DPV + L + VC VCG W+ CSC + +
Sbjct: 4311 ARVEHPDVDGLCKLRGKFVQVPVG-IKDPVSYVLTHDVCQVCGFWRDGSCSCVS-TDTTV 4368
Query: 13354 QSADASTFLNGFAV 13395
QS D + FLNGF V
Sbjct: 4369 QSKD-TNFLNGFGV 4381

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Score = 85.1 bits (209), Expect = 6e-14
Identities = 51/155 (32%), Positives = 78/155 (50%), Gaps = 2/155 (1%)
Frame = +1
Query: 3283 LTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKL 3462
+T NV DI+K ++ V+VN AN H+ HGGGVA A+ A KE+ D +K
Sbjct: 1273 ITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVKS 1332
Query: 3463 NGPLTVGGSCLLSGHNLAKKCLHVVGPN--LNAGEDIQLLKAAYENFNSQDILLAPLLSA 3636
G G + +G L K L+VVGP+ + LL+ Y++ N D ++ L+SA
Sbjct: 1333 KGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLISA 1392
Query: 3637 GIFGAKPLQSLQVCVQTVRTQVYIAVNDKALYEQV 3741
GIF SL + T QV + N++ ++ +
Sbjct: 1393 GIFSVPSDVSLTYLLGTAEKQVVLVSNNQEDFDLI 1427
Score = 65.1 bits (157), Expect = 7e-08
Identities = 53/201 (26%), Positives = 96/201 (47%), Gaps = 6/201 (2%)
Frame = +1
Query: 2449 KAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIVGTPVC-VNGLMLLE 2625
KA ++ +L+G D L V + L TP ++ V +C V+ + + +
Sbjct: 771 KAKQKPIYLKGSGSDFSLADSVVEVVTTSL----TPC-GYSEPPKVADKICIVDNVYMAK 825
Query: 2626 IKDKEQYCALSPGLLATNNVFRLKGGAPIKGVTFGED-TVWEVQGY-KNVRITFELDERV 2799
DK + + + +R+ + VTF E TV E+ K +++ +ELD+
Sbjct: 826 AGDKYYPVVVDGHVGLLDQAWRVPCAG--RRVTFKEQPTVNEIASTPKTIKVFYELDKDF 883
Query: 2800 DKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSDLL---TNMGIDLDEWSVATFY 2970
+ +LN C V+ V+ ++ EF VV +A+ + L P +L + L + + +
Sbjct: 884 NTILNTACGVFEVDDTVDMEEFYAVVIDAIEEKLSPCKELEGVGAKVSAFLQKLEDNSLF 943
Query: 2971 LFDDAGEENFSSRMYCSFYPP 3033
LFD+AGEE +S++YC+F P
Sbjct: 944 LFDEAGEEVLASKLYCAFTAP 964
>gi|17529671|gb|AAL40396.1|AF220295_1
Length = 4383
RNA polymerase 1a [bovine coronavirus]
Score = 1749 bits (4531), Expect = 0.0
Identities = 1039/2895 (35%), Positives = 1531/2895 (52%), Gaps = 57/2895 (1%)
Frame = +1
Query: 4882 IKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTL 5061
+ + TVD N + V + ++G+ G + DG +VTK K +N++GK FF + +
Sbjct: 1565 VDILLTVDGVNFTNRFVPVGESFGKSLGNVFCDGVNVTKHKCDINYKGKVFFQFDNLSSE 1624
Query: 5062 RSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLE 5241
+A D+ L Y + L + KW+ G + K A+NNC+++ L LQ L
Sbjct: 1625 DLKAVRSSFNFDQKELLAYYNMLVNCSKWQVVFNGKYFTFKQANNNCFVNVSCLMLQSLN 1684
Query: 5242 VKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRV 5421
+KF QEA+ R+G A F +L+LA G+ D R+ + + +L A
Sbjct: 1685 LKFKIVQWQEAWLEFRSGRPARFVSLVLAKGGFKFGDPADSRDFLRVVFSQVDLTGAICD 1744

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Query: 5422 LNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 5601
+ CK CG K TGV+AVM+ GTLS ++L+ G ++ C CG+ + V+ + F++
Sbjct: 1745 FEIACK-CGVKQEQRTGVDAVMHFGTLSREDLEIGYTVDCSCGKKLI-HCVRFDVPFLIC 1802
Query: 5602 SAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVF 5781
S PA KL +G AN + G+ + GHY H+ +++ D +++ K+++ G ++D
Sbjct: 1803 SNTPASVKLPKGVG-SANIFKGD-KVGHYVHVKCEQSYQLYDASNVKKVTDVTGNLSDCL 1860
Query: 5782 Y-KETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDL-VPTQPLPNASF 5955
Y K T +Y LD V E +P L YY YYT++ I T + +
Sbjct: 1861 YLKNLKQTFKSVLTTYYLDDVKKIEYKPDLSQYYCDGGKYYTQRIIKAQFKTFEKVDGVY 1920
Query: 5956 DNFKLTCSNTKFADDLNQMTGFTKPASR-ELSVTFFPDLNGDVVAIDYRHYSASFKKGAK 6132
NFKL D LN GF E VT +P GDVV Y +++G
Sbjct: 1921 TNFKLIGHTV--CDILNAKLGFDSSKEFVEYKVTEWPTATGDVVLATDDLYVKRYERGCI 1978
Query: 6133 LLHKPIVWHINQATTKTTFKPNTWCLRCLWSTKPVDTSNSFEVLAVEDTQ-GMDNLACES 6309
KP++W ++ + + T+ R L VD N F+VL V+D G D ++
Sbjct: 1979 TFGKPVIWLSHEQASLNSL---TYFNRPLL----VD-ENKFDVLKVDDVDDGGDISESDA 2030
Query: 6310 QQPTSEEVVENPTIQKEVIECDVKTTEVVGNVILKPSDEGVKVTQELGHEDLMAAYVENT 6489
++P +++ ++K +V +VI+ +K + L D+ ++
Sbjct: 2031 KEPKEINIIKLSGVKKPF--------KVEDSVIVNDDTSEIKYVKSLSIVDVYDMWLTGC 2082
Query: 6490 SITIKKPNELSLALGLKTIATH---GIAAINSVPWSKI-LAYVKPFLGQAAITTSNCAKR 6657
++ N LS A+ + TI G+ + S+P + L +KP N K
Sbjct: 2083 RCVVRTANALSRAVNVPTIRKFIKFGMTLV-SIPIDLLNLREIKPVF--------NVVKA 2133
Query: 6658 LAQRVFN--NYMPYVFTLLF--------QLCTFTKSTNSRIRASLPTTIAKNSVKSVAKL 6807
+ ++ N++ ++F LLF +T S++ L KN+ +
Sbjct: 2134 VRNKISACFNFIKWLFVLLFGWIKISADNKVIYTTEVASKLTCKLVALAFKNAFLTFKWS 2193
Query: 6808 CLDAGINYVKSPKFSKLFTIAMWXXXXXXXXXXXXXVTAAFGVLLSNFGAPSYCNGVREL 6987
+ G + + +W G L P++ + +
Sbjct: 2194 VVARGACIIAT-------IFLLWFNFIYANVIFSDFYLPKIGFL------PTFVGKIVQW 2240
Query: 6988 YLNSSNVTTM-------------DFCEGSFPCSICLSGLDSLDSYPALETIQVTISSYK- 7125
N+ ++ T+ +C GS C CL+G D LD+Y A++ +Q
Sbjct: 2241 IKNTFSLVTICDLYSIQDVGFKNQYCNGSIACQFCLAGFDMLDNYKAIDVVQYEADRRAF 2300
Query: 7126 LDLT-ILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNS--WLMWFIISIV 7296
+D T +L + E +++Y L+T +FY L +Q+ + + ++ W + ++S+
Sbjct: 2301 VDYTGVLKIVIELIVSYALYTAWFYPLFALISIQILTTWLPELLMLSTLHWSVRLLVSLA 2360
Query: 7297 QMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMKR 7476
M P +R YI ASF ++ + H+ GC+ S C+ CYKRNR+ RV+C+TIV GM R
Sbjct: 2361 NMLPAHVFMRFYIIIASFIKLFSLFRHVAYGCSKSGCLFCYKRNRSLRVKCSTIVGGMIR 2420
Query: 7477 SFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIVD 7656
+ V ANGG GFC H WNC++CD++ G+TFI+ E A DLS + KRPI PTD + + V
Sbjct: 2421 YYDVMANGGTGFCSKHQWNCIDCDSYKPGNTFITVEAALDLSKELKRPIQPTDVAYHTVT 2480
Query: 7657 SVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGKSKCDES 7836
V + L++D+ GQ+TY+ S FV+ NL + K ++V+V + + D++
Sbjct: 2481 DVKQVGCYMRLFYDRDGQRTYDDVNASLFVDYSNLLHSKVKSVPNMHVVVVENDA--DKA 2538
Query: 7837 ASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPMEKLKAL 8016
+A+V+Y+Q + +PIL++D+ L++ T V+ MFD YVDTF + F V + L AL
Sbjct: 2539 NFLNAAVFYAQSLFRPILMVDKILITTANTGTSVTETMFDVYVDTFLSMFDVDKKSLNAL 2598

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Query: 8017 VATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHS-DLEVTGDSCN 8193
+ATAHS + +G + VL TF+S AR+ + +S S LE+T +SCN
Sbjct: 2599 IATAHSSIKQGTQICKVLDTFLSCARKSCSIDSDVDTKCLADSVMSAVSAGLELTDESCN 2658
Query: 8194 NFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQLRKQIRS 8373
N + TY K +N+ DLG I +A+H+ VAK VS IW+V + LS + +++
Sbjct: 2659 NLVPTYLKGDNIVAADLGVLIQNSAKHVQGNVAKIAGVSCIWSVDAFNQLSSDFQHKLKK 2718
Query: 8374 AAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVS----TCFKLMLKATXXXXXXXXXX 8541
A K + LT V+V+TT SLKGG + S CF L L
Sbjct: 2719 ACCKTGLKLELTYNKQMANVSVLTTPFSLKGGAVFSYFVYVCFVLSLVC-------FIGL 2771
Query: 8542 YIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAWFSQRGGS--Y 8715
+ +MP +T+ D YK + +GV RD+ D CFANK FD W+ G Y
Sbjct: 2772 WCLMPTYTVHKSDFQLPVYASYKVLDNGVIRDVSVEDVCFANKFEQFDQWYESTFGLSYY 2831
Query: 8716 KNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICYTPSKLIEY 8895
N +CP+V A++ ++ G V +P VLR LHF+ SA G CYTP I Y
Sbjct: 2832 SNSMACPIVVAVVDQDFGSTVFNVPTKVLR-YGYHVLHFITHALSADGVQCYTPHSQISY 2890
Query: 8896 SDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYVLMDGS-IIQF 9072
S+F S CVL++ CT+F A G P PYCY L++ + YS L P RY L + I+
Sbjct: 2891 SNFYASGCVLSSACTMFAMADGSPQPYCYTDGLMQNASLYSSLVPHVRYNLANAKGFIRL 2950
Query: 9073 PNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRALSGVFCGVDAM 9252
P EG VR+V T YCR G CE ++ GIC + +G WVLNN++YR+L G FCG D
Sbjct: 2951 PEVLREGLVRIVRTRSMSYCRVGLCEEADEGICFNFNGSWVLNNDYYRSLPGTFCGRDVF 3010
Query: 9253 NLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEYNHVVAANALL 9432
+LI +F L QPV L ++AS +AG I+A++V YY +K +R FG+Y +V N ++
Sbjct: 3011 DLIYQLFKGLAQPVDFLALTASSIAGAILAVIVVLGFYYLIKLKRAFGDYTSIVFVNVIV 3070
Query: 9433 FLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFAMFSPIVPFWITAIY 9612
+ ++F +L + Y L VY++ Y Y T YF +++S + HLQW M+ I+P W +Y
Sbjct: 3071 WCVNFMMLFVFQVYPTLSCVYAICYFYATLYFPSEISVIMHLQWLVMYGTIMPLWFCLLY 3130
Query: 9613 VFCISLKHCHWFFN--NYLRKRVMFNGVTFSTFEEAALCTFLLNKEMYLKLRSETLLPLT 9786
+ + H W F+ L V +G TFEE AL TF++ K+ Y KL++ L
Sbjct: 3131 ISVVVSNHAFWVFSYCRQLGTSVRSDG----TFEEMALTTFMITKDSYCKLKNS--LSDV 3184
Query: 9787 QYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNS-GADVLYQPPQTSITSAV 9963
+NRYL+LYNKY+Y+SG +DT +YREAAC LAKA++ F+N+ G+DVLYQPP S++++
Sbjct: 3185 AFNRYLSLYNKYRYYSGKMDTAAYREAACSQLAKAMDTFTNNNGSDVLYQPPTASVSTSF 3244
Query: 9964 LQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLL 10143
LQSG KM P+ KVE C+V VT G TLNGLWLDD VYCPRHVIC+A DM NP+Y +LL
Sbjct: 3245 LQSGIVKMVNPTSKVEPCIVSVTYGNMTLNGLWLDDKVYCPRHVICSASDMTNPDYTNLL 3304
Query: 10144 IRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACY 10323
R ++ F V + L V+ + MQ C+L L V N +TPKY F ++PG+TF+VLA Y
Sbjct: 3305 CRVTSSDFTVLFDRLSLTVMSYQMQGCMLVLTVTLQNSRTPKYTFGVVKPGETFTVLAAY 3364
Query: 10324 NGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLE 10503
NG P G + MR ++TIKGSFL GSCGSVG+ I DCV F YMH +EL TG H GTD
Sbjct: 3365 NGKPQGAFHVTMRSSYTIKGSFLCGSCGSVGYVIMGDCVKFVYMHQLELSTGCHTGTDFN 3424
Query: 10504 GKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYN 10683
G FYGP+ D Q Q D ++N +AWLYAA++N WF+ ++ DFN+ A+
Sbjct: 3425 GDFYGPYKDAQVVQLPVQDYIQSVNFVAWLYAAILNNCNWFVQSDKCSVEDFNVWALSNG 3484

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Query: 10684 YEPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVR 10863
+ + D V + L++ TG+++ + AA+K L+NG GR I+GS EDE TP DV +
Sbjct: 3485 FSQVKSDLV--IDALASMTGVSLETLLAAIKR-LKNGFQGRQIMGSCSFEDELTPSDVYQ 3541
Query: 10864 QCSGVTFQGKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFVYENAFLPFTLGIMAI 11043
Q +G+ Q K ++VKG W+ +W++F +V N L T + +
Sbjct: 3542 QLAGIKLQSKRTRLVKGIVCWIMASTFLFSCIITAFVKWTMFMYVTTN-MLSITFCALCV 3600
Query: 11044 AACAMLLVKHKHAFLCLFLLPSLATVAYFN-MVYMPASWVMRIMTWLELADTSLSGYRLK 11220
+ AMLLVKHKH +L ++++P L T+ Y N +V ++ + WL S+ Y
Sbjct: 3601 ISLAMLLVKHKHLYLTMYIIPVLFTLLYNNYLVVYKQTFRGYVYAWLSYYVPSVE-YTYT 3659
Query: 11221 DCVMYASALVL-LILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALDQAISMWALVIS 11397
D V+Y L++ ++ +T R++ D + + VI++V Y G+ L++ I + ++ S
Sbjct: 3660 DEVIYGMLLLIGMVFVTLRSINHDLFSFIMFVGRVISVVSLWYMGSNLEEEILL--MLAS 3717
Query: 11398 VTSNYSGVVTTIMFLARAIVFVCVEYYPLLFITGNTLQCIMLVXXXXXXXXXXXXXXXXX 11577
+ Y+ T + A ++ V L F ++ +++
Sbjct: 3718 LFGTYTW-TTALSMAAAKVIAKWVAVNVLYFTDIPQIKIVLVCYLFIGYIISCYWGLFSL 3776
Query: 11578 XNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGIGGKPCIKVATVQ 11757
N FR+ LGVY+Y +S QE RYMN+ GL PPK+S +A LN KLLGIGG P I+V+ Q
Sbjct: 3777 MNSLFRMPLGVYNYKISVQELRYMNANGLRPPKNSFEALMLNFKLLGIGGVPIIEVSQFQ 3836
Query: 11758 SKMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKDTTEAFEKMXXXXXXXX 11937
SK++DVKC KLW C LHN+IL D AFEK+
Sbjct: 3837 SKLTDVKCANGGLLNCLQHLHVASNSKLWQYCSTLHNEILATSDLGVAFEKLAQLLIVLF 3896
Query: 11938 XMQGAVD------INRLCEEMLDNRATLQAIASEFSSLPSXXXXXXXXXXXXXXXXNGDX 12099
AVD I +C++ + LQA+ SEF ++ S +G
Sbjct: 3897 ANPAAVDSKCLTSIEEVCDDYAKDNTVLQALQSEFVNMASFVEYEVAKKNLDEACSSGSA 3956
Query: 12100 XXXXXXXXXXX-XXXXXEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTM 12276
++RD A+ RKLE+MAD A+T MYK+AR DK++KV SA+QTM
Sbjct: 3957 NQQQLKQLEKACNIAKSAYERDRAVARKLERMADLALTNMYKEARINDKKSKVVSALQTM 4016
Query: 12277 LFTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGNTFTYA 12456
LF+M+RK GCVPLN IP A L ++VPD Y D TYA
Sbjct: 4017 LFSMVRKLDNQALNSILDNAVKGCVPLNAIPSLAANTLTIIVPDKSVYDQVVDNVYVTYA 4076
Query: 12457 SALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTALRAN--SAVKLQNNELSPVALR 12630
+W+IQ + D+D QL EI+ D + WPL++ A R N SA LQNNEL P L+
Sbjct: 4077 GNVWQIQTIQDSDGTNKQLHEISDDCN----WPLVIIANRHNEVSATVLQNNELMPAKLK 4132
Query: 12631 QMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYTELE 12810
+G QT T YYNNS G+ V A+LSD LK+ + K DG + EL+
Sbjct: 4133 TQVVNSGPDQTCNTPTQ--CYYNNSYNGKIVYAILSDVDGLKYTKILKDDG-NFVVLELD 4189
Query: 12811 PPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEVPANSTVLSFC 12990
PPC+F KG K+KYLYF+KG N L RG V+G++++TVRLQAG ATE +NS++LS C
Sbjct: 4190 PPCKFTVQDVKGLKIKYLYFVKGCNTLARGWVVGTISSTVRLQAGTATEYASNSSILSLC 4249
Query: 12991 AFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCCLYC 13170
AF+VDP K Y D++ GG PI NCVKMLC H GTG AITV P+A Q+S+GGAS C+YC
Sbjct: 4250 AFSVDPKKTYLDFIQQGGTPIANCVKMLCDHAGTGMAITVKPDATTSQDSYGGASVCIYC 4309
Query: 13171 RCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSCDQLREPL 13350
R ++HP+ G C L+GK+VQ+P DPV + L + VC VCG W+ CSC +
Sbjct: 4310 RARVEHPDVDGLCKLRGKFVQVPVG-IKDPVSYVLTHDVCQVCGFWRDGSCSCVS-TDTT 4367

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Query: 13351 MQSADASTFLNGFAV 13395
+QS D + FLNGF V
Sbjct: 4368 VQSKD-TNFLNGFGV 4381
Score = 85.9 bits (211), Expect = 4e-14
Identities = 51/155 (32%), Positives = 79/155 (50%), Gaps = 2/155 (1%)
Frame = +1
Query: 3283 LTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKL 3462
+T NV DI+K ++ V+VN AN H+ HGGGVA A+ A KE+ D +K
Sbjct: 1273 ITPNVCFVKGDIIKVSKRVKAEVVVNPANGHMAHGGGVAKAIAVAAGQQFVKETTDMVKS 1332
Query: 3463 NGPLTVGGSCLLSGHNLAKKCLHVVGPN--LNAGEDIQLLKAAYENFNSQDILLAPLLSA 3636
G G + +G L K L+VVGP+ + LL+ Y++ N D ++ L+SA
Sbjct: 1333 KGVCATGDCYVSTGGKLCKTVLNVVGPDARTQGKQSYALLERVYKHLNKYDCVVTTLISA 1392
Query: 3637 GIFGAKPLQSLQVCVQTVRTQVYIAVNDKALYEQV 3741
GIF SL + T + QV + N++ ++ +
Sbjct: 1393 GIFSVPSDVSLTYLLGTAKKQVVLVSNNQEDFDLI 1427
Score = 60.1 bits (144), Expect = 2e-06
Identities = 35/110 (31%), Positives = 60/110 (54%), Gaps = 5/110 (4%)
Frame = +1
Query: 2719 VTFGED-TVWEVQGY-KNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAEAVV 2892
VTF E TV E+ K +++ +ELD+ + +LN C + V+ ++ EF VV +A+
Sbjct: 855 VTFKEQPTVNEIASTPKTIKVFYELDKDFNTILNTACGEFEVDDTVDMEEFYAVVIDAIE 914
Query: 2893 KTLQPVSDLL---TNMGIDLDEWSVATFYLFDDAGEENFSSRMYCSFYPP 3033
+ L P +L + L + + +LFD+AGEE + ++YC+F P
Sbjct: 915 EKLSPCKELEGVGAKVSAFLQKLEDNSLFLFDEAGEEVLAPKLYCAFTAP 964
>gi|7769341|gb|AAF69331.1|AF208066_1
Length = 4416
RNA-directed RNA polymerase [murine hepatitis virus]
Score = 1716 bits (4443), Expect = 0.0
Identities = 1041/2911 (35%), Positives = 1508/2911 (51%), Gaps = 73/2911 (2%)
Frame = +1
Query: 4882 IKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTL 5061
+ V TVD N + V +G+ G + DG +VTK++ H+GK FF
Sbjct: 1558 VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIHKGKVFFQYSGLSAA 1617
Query: 5062 RSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLE 5241
A + DE L +Y + L K W G + K ++NNCY++ L LQ L
Sbjct: 1618 DLVAVKDAFGFDEPQLLKYYNMLGMCK-WPVVVCGNYFAFKQSNNNCYINVACLMLQHLS 1676
Query: 5242 VKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRV 5421
+KF+ QEA+ R+G F +L+LA + E D + M +L+ A+L A
Sbjct: 1677 LKFHKWQWQEAWNEFRSGKPLRFVSLVLAKGSFKFNEPSDSTDFMRVVLREADLSGATCD 1736
Query: 5422 LNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 5601
VCK CG K GV+AVM+ GTL +L G +I C CG + Q F++
Sbjct: 1737 FEFVCK-CGVKQEQRKGVDAVMHFGTLDKGDLAKGYTIACTCGNKLV-HCTQLNVPFLIC 1794

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Query: 5602 SAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVF 5781
S P KL + AN +TG GHYTH+ K D +++K+SE KG TD
Sbjct: 1795 SNKPEGKKLPDDV-VAANIFTGG-SLGHYTHVKCKPKYQLYDACNVSKVSEAKGNFTDCL 1852
Query: 5782 Y-KETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDL-VPTQPLPNASF 5955
Y K T + K ++ LD V E P L YY + YYT+ I T +
Sbjct: 1853 YLKNLKQTFSSKLTTFYLDDVKCVEYNPDLSQYYCESGKYYTKPIIKAQFRTFEKVEGVY 1912
Query: 5956 DNFKLTCSNTKFADDLNQMTGFT-KPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAK 6132
NFKL A+ N GF E +T +P GDVV Y + + G
Sbjct: 1913 TNFKLV--GHSIAEKFNAKLGFDCNSPFTEYKITEWPTATGDVVLASDDLYVSRYSGGCV 1970
Query: 6133 LLHKPIVW--HINQATTKTTF--KPNTWCLRCLWSTKPVDTSNSFEV----LAVEDTQGM 6288
KP++W H + T+ +P+ C ++ PVD S + AV T +
Sbjct: 1971 TFGKPVIWLGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDKGPVPAAVLVTGAL 2029
Query: 6289 DNLACESQQPTSEEVVENPTIQKEVIE----------CDVKTTEVVG---------NVIL 6411
A ++V + ++ +V+ DVK ++ G +V++
Sbjct: 2030 SGAATAPGTAKEQKVCASDSVVDQVVSGFLSDLSGATVDVKEVKLNGVKKPIKVEDSVVV 2089
Query: 6412 KPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAINSVPW-- 6585
KV + L D+ ++ + NELS + T+ + V W
Sbjct: 2090 NDPTSETKVVKSLSIVDVYDMFLTGCRYVVWMANELSRLVNSPTVREY-------VKWGM 2142
Query: 6586 SKILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFTKSTNSRIRASLP 6765
+KI+ K L + K + +V Y + L+ +T++++ +
Sbjct: 2143 TKIVIPAKLVLLRDEKQEFVAPKVVKAKVIACYSAVKWFFLYCFSWIKFNTDNKVIYT-- 2200
Query: 6766 TTIAKNSVKSVAKLCLDAGI-----NYVKSPKFSKLFTIAMWXXXXXXXXXXXXXVTAAF 6930
T +A ++ L + N V F +W
Sbjct: 2201 TEVASKLTFNLCCLAFKNALQTFNWNVVSRGFFLVATVFLLWFNFLYANVILSDFYLPNI 2260
Query: 6931 GV-----------LLSNFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLD 7077
G + + FG + C +LY S FC GS C +C SG D LD
Sbjct: 2261 GFFPTFVGQIVAWVKTTFGIFTLC----DLYQVSDVGYRSSFCNGSMVCELCFSGFDMLD 2316
Query: 7078 SYPALETIQVTISS-YKLD-LTILGLAAEWVLAYMLFTKFFY-LLGLSAIMQVFFGYFAS 7248
+Y A+ +Q + D +++ L E V+ Y L+T FY L GL MQ+ +
Sbjct: 2317 NYDAINVVQHVVDRRVSFDYISLFKLVVELVIGYSLYTVCFYPLFGLIG-MQLLTTWLPE 2375
Query: 7249 HFISNS--WLMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYK 7422
F+ + W F + + M P ++R YI + Y I+ H+M GC+ C+ CYK
Sbjct: 2376 FFMLETMHWSARFFVFVANMLPAFTLLRFYIVVTAMYKIFCLCRHVMYGCSRPGCLFCYK 2435
Query: 7423 RNRATRVECTTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLS 7602
RNR+ RV+C+T+V G R + V ANGG GFC H WNCLNC F G+TFI+ E A DLS
Sbjct: 2436 RNRSVRVKCSTVVGGTLRYYDVMANGGTGFCAKHQWNCLNCSAFGPGNTFITHEAAADLS 2495
Query: 7603 LQFKRPINPTDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKG 7782
+ KRP+NPTD + Y+V V ++ L++++ GQ+ Y+ S FV+++ L + KG
Sbjct: 2496 KELKRPVNPTDSAYYLVTEVKQVGCSMRLFYERDGQRVYDDVSASLFVDMNGLLHSKVKG 2555
Query: 7783 SLPINVIVFDGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAY 7962
+V+V + ++ D++ +A+V+Y+Q + +P+LL+++ L++ VS MFD Y
Sbjct: 2556 VPETHVVVVENEA--DKAGFLNAAVFYAQSLYRPMLLVEKKLITTANTGLSVSQTMFDLY 2613
Query: 7963 VDTFSATFSVPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXI-E 8139
VD+ V + L + V AH+ L +GV L+ V+ TF+ AR+ I +
Sbjct: 2614 VDSLLGVLDVDRKSLTSFVNAAHNSLKEGVQLEQVMDTFIGCARRKCAIDSDVETKSITK 2673

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Query: 8140 CLKLSHHSDLEVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIW 8319
+ + ++ ++ T +SCNN + TY K + + DLG I NA+H+ A VAK+ NV+ IW
Sbjct: 2674 SIMSAVNAGVDFTDESCNNLVPTYVKSDTIVAADLGVLIQNNAKHVQANVAKAANVACIW 2733
Query: 8320 NVKDYMSLSEQLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVSTCFKLM 8499
+V + LS L+ ++R A K + +LT V ++TT SLKGG + S + +
Sbjct: 2734 SVDAFNQLSADLQHRLRKACSKTGLKIKLTYNKQEANVPILTTPFSLKGGAVFSKVLQWL 2793
Query: 8500 LKATXXXXXXXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAG 8679
+ +MP + + D +K I +GV RD+ TD CFANK
Sbjct: 2794 FVVNLICFIVL---WALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVTVTDACFANKFIQ 2850
Query: 8680 FDAWFSQRGGS--YKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSA 8853
FD W+ G Y+N ++CPVV A+I ++IG+ + +P VLR LHF+ F+
Sbjct: 2851 FDQWYESTFGLVYYRNSRACPVVVAVIDQDIGYTLFNVPTKVLR-YGFHVLHFITHAFAT 2909
Query: 8854 VGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPD 9033
CYTP I Y +F S CVL++ CT+ A G P PYCY ++ + Y L P
Sbjct: 2910 DSVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTEGIMHNASLYDSLAPH 2969
Query: 9034 TRYVLMDGS-IIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEH 9210
RY L + + I+FP EG VR+V T YCR G CE +E G+C + + WVLNN +
Sbjct: 2970 VRYNLANSNGYIRFPEVVSEGIVRIVRTRSMTYCRVGLCEDAEEGVCFNFNSSWVLNNPY 3029
Query: 9211 YRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRV 9390
YRA+ G FCG +A +LI + LV+P+ ++AS VAG I+AI+V A YY +K +R
Sbjct: 3030 YRAMPGTFCGRNAFDLIHQVLGGLVRPIDFFALTASSVAGAILAIIVVLAFYYLIKLKRA 3089
Query: 9391 FGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFA 9570
FG+Y VV N +++ ++F +L + Y L +Y+ FY Y T YF +++S + HLQW
Sbjct: 3090 FGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMHLQWLV 3149
Query: 9571 MFSPIVPFWITAIYVFCISLKHCHWFFNNYLRK---RVMFNGVTFSTFEEAALCTFLLNK 9741
M+ I+P W IYV + H W F+ Y RK V +G TFEE +L TF++ K
Sbjct: 3150 MYGAIMPLWFCIIYVAVVVSNHALWLFS-YCRKLGTEVRSDG----TFEEMSLTTFMITK 3204
Query: 9742 EMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFS-NSGA 9918
E Y KL++ + +NRYL+LYNKY+YFSG +DT +YREAAC LAKA+ F+ N+G
Sbjct: 3205 ESYCKLKNS--VSDVAFNRYLSLYNKYRYFSGKMDTAAYREAACSQLAKAMETFNHNNGN 3262
Query: 9919 DVLYQPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVI 10098
DVLYQPP S+T++ LQSG KM FP+ KVE C+V VT G TLNGLWLDD VYCPRHVI
Sbjct: 3263 DVLYQPPTASVTTSFLQSGIVKMVFPTSKVEPCVVSVTYGNMTLNGLWLDDKVYCPRHVI 3322
Query: 10099 CTAEDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKF 10278
C++ DM +P+Y +LL R + F V +G + L V+ + MQ LL L V NP TPKY F
Sbjct: 3323 CSSADMTDPDYSNLLCRVISSDFCVMSGRMSLTVMSYQMQGSLLVLTVTLQNPNTPKYSF 3382
Query: 10279 VRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMH 10458
++PG+TF+VLA YNG G + MR ++TIKGSFL GSCGSVG+ + D V F YMH
Sbjct: 3383 GVVKPGETFTVLAAYNGKSQGAFHVTMRSSYTIKGSFLCGSCGSVGYVLTGDSVRFVYMH 3442
Query: 10459 HMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRF 10638
+EL TG H GTD G FYGP+ D Q Q D T T+NV+AWLYAA++N WF+
Sbjct: 3443 QLELSTGCHTGTDFSGNFYGPYRDAQVVQLPVQDYTQTVNVVAWLYAAILNRCNWFVQSD 3502
Query: 10639 TTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILG 10818
+ +L +FN+ AM + + D V L L++ TG+ V + AA+K L G G+ ILG
Sbjct: 3503 SCSLEEFNVWAMTNGFSSIKADLV--LDALASMTGVTVEQILAAIKRLYP-GFQGKQILG 3559

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Query: 10819 STILEDEFTPFDVVRQCSGVTFQGKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFV 10998
S +LEDE TP DV +Q +GV Q K ++VKGT W+ +W++F +V
Sbjct: 3560 SCVLEDELTPSDVYQQLAGVKLQSKRTRVVKGTCCWILASTLLFCSIISAFVKWTMFMYV 3619
Query: 10999 YENAFLPFTLGIMAIAACAMLLVKHKHAFLCLFLLPSLATVAYFN-MVYMPASWVMRIMT 11175
+ L TL + + AMLLVKHKH +L +F++P L T+ Y N +V S+
Sbjct: 3620 TTH-MLGVTLCALCFVSFAMLLVKHKHLYLTMFIMPVLCTLFYTNYLVVYKQSFRGLAYA 3678
Query: 11176 WLELADTSLSGYRLKDCVMYASA-LVLLILMTARTVYDDAARRVWTLMNVITLVYKVYYG 11352
WL ++ Y D V+Y LV ++ +T R++ D ++ + +++LV Y+G
Sbjct: 3679 WLSHFVPAVD-YTYMDEVLYGVVLLVAMVFVTMRSINHDVFSVMFLVGRLVSLVSMWYFG 3737
Query: 11353 NALDQAISMWALVISVTSNYSGVVTTIMFLARA-IVFVCVEYYPLLFITGNTLQCIMLVX 11529
L++ + ++ + T + TT++ LA A ++ + L F ++ ++L
Sbjct: 3738 ANLEEEVLLFLTSLFGTYTW----TTMLSLATAKVIAKWLAVNVLYFTDVPQVKLVLLSY 3793
Query: 11530 XXXXXXXXXXXXXXXXXNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIK 11709
N FR+ LGVY+Y +S QE RYMN+ GL PP++S +A LN K
Sbjct: 3794 LCIGYVCCCYWGVLSLLNSIFRMPLGVYNYKISVQELRYMNANGLRPPRNSFEALVLNFK 3853
Query: 11710 LLGIGGKPCIKVATVQSKMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKD 11889
LLGIGG P I+V+ +QS+++DVKC KLW C LHN+IL D
Sbjct: 3854 LLGIGGVPVIEVSQIQSRLTDVKCVNVVLLNCLQHLHIASSSKLWQYCSTLHNEILATSD 3913
Query: 11890 TTEAFEKMXXXXXXXXXMQGAVD------INRLCEEMLDNRATLQAIASEFSSLPSXXXX 12051
+ AF+K+ AVD I + ++ + + LQA+ SEF ++ S
Sbjct: 3914 LSVAFDKLAQLLVVLFANPAAVDSKCLASIEEVSDDYVRDSTVLQALQSEFVNMASFVEY 3973
Query: 12052 XXXXXXXXXXXXNGDXXXXXXXXXXXX-XXXXXEFDRDAAMQRKLEKMADQAMTQMYKQA 12228
+G ++RD A+ RKLE+MAD A+T MYK+A
Sbjct: 3974 ELAKKNLDEAKASGSANQQQIKQLEKACNIAKSAYERDRAVARKLERMADLALTNMYKEA 4033
Query: 12229 RSEDKRAKVTSAMQTMLFTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPD 12408
R DK++KV SA+QTMLF+M+RK
GCVPLN IP T+ L ++VPD
Sbjct: 4034 RINDKKSKVVSALQTMLFSMIRKLDNQALNSILDNAVKGCVPLNAIPSLTSNTLTIIVPD 4093
Query: 12409 YGTYKNTCDGNTFTYASALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTALRAN-- 12582
+ D TYA +W IQ + DAD + QL+EI++ N+ WPL++ A R N
Sbjct: 4094 KQVFDQVVDNVYVTYAGNVWHIQSIQDADGAVKQLNEIDV----NITWPLVIAANRHNEV 4149
Query: 12583 SAVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWA 12762
S+V LQNNEL P LR +G+ T YYN + G+ V A+LSD LK+
Sbjct: 4150 SSVVLQNNELMPQKLRTQVVNSGSDMNCNTPTQ--CYYNTTGMGKIVYAILSDCDGLKYT 4207
Query: 12763 RFPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQA 12942
+ K DG + EL+PPC+F KG K+KYLYF+KG N L RG V+G+L++TVRLQA
Sbjct: 4208 KIVKEDG-NCVVLELDPPCKFSVQDVKGLKIKYLYFVKGCNTLARGWVVGTLSSTVRLQA 4266
Query: 12943 GNATEVPANSTVLSFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEA 13122
G ATE +NS +LS CAF+VDP K Y DY+ GG P+TNCVKMLC H GTG AIT+ PEA
Sbjct: 4267 GTATEYASNSAILSLCAFSVDPKKTYLDYIQQGGAPVTNCVKMLCDHAGTGMAITIKPEA 4326
Query: 13123 NMDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCG 13302
+Q+S+GGAS C+YCR ++HP+ G C L+GK+VQ+P DPV + L + VC VCG
Sbjct: 4327 TTNQDSYGGASVCIYCRSRVEHPDVDGLCKLRGKFVQVPLG-IKDPVSYVLTHDVCQVCG 4385
Query: 13303 MWKGYGCSCDQLREPLMQSADASTFLNGFAV 13395
W+ CSC QS D + FLNGF V
Sbjct: 4386 FWRDGSCSCVGTGSQ-FQSKD-TNFLNGFGV 4414

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Score = 85.5 bits (210), Expect = 5e-14
Identities = 52/149 (34%), Positives = 76/149 (51%), Gaps = 2/149 (1%)
Frame = +1
Query: 3283 LTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKL 3462
+T NV D++K + N VIVN AN + HG GVAGA+ + A KE+ D +K
Sbjct: 1267 ITPNVCFVKGDVIKVVRLVNAEVIVNPANGRMAHGAGVAGAIAEKAGSAFIKETSDMVKA 1326
Query: 3463 NGPLTVGGSCLLSGHNLAKKCLHVVGPNL--NAGEDIQLLKAAYENFNSQDILLAPLLSA 3636
G VG +G L KK L++VGP+ + + L+ AY++ N D ++ L+SA
Sbjct: 1327 QGVCQVGECYESAGGKLCKKVLNIVGPDARGHGKQCYSFLERAYQHINKCDDVVTTLISA 1386
Query: 3637 GIFGAKPLQSLQVCVQTVRTQVYIAVNDK 3723
GIF SL + V V + N+K
Sbjct: 1387 GIFSVPTDVSLTYLIGVVTKNVILVSNNK 1415
Score = 69.3 bits (168), Expect = 4e-09
Identities = 94/388 (24%), Positives = 162/388 (41%), Gaps = 28/388 (7%)
Frame = +1
Query: 1954 ILDGISEQSLRLVDA-------MVYTSDLLTNSVIIMAYVTGGLVQQTSQWLSNLLGTT- 2109
+LDG+ +S L+ + MV S +T+ + MA + V+ ++++ + G
Sbjct: 576 LLDGLVPRSYYLIKSGQAFTSMMVNFSHEVTDMCMDMALLFMHDVKVATKYVKKVTGKLA 635
Query: 2110 -------VEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDIVKGQIQVASDNIKD 2268
V +R I EW + + W + L+ G+F + G I SD + +
Sbjct: 636 VRFKALGVAVVRKITEWFDLAVDTAASAA--GWLCYQ-LVNGLFAVANGGITFLSD-VPE 691
Query: 2269 CVKCFIDVVNKALEMCIDQVTIA---GAKLRSLNLGEVFIAQSKGLYRQCIRGKEQLQLL 2439
VK F+D ++ ID ++++ G + V +A K +Y + K +
Sbjct: 692 LVKNFVDKFKVFFKVLIDSMSVSVLSGLTVVKTASNRVCLAGCK-VYE--VVQKRLSAYV 748
Query: 2440 MPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGEL--EALETPVDSFTNGAIVGTPVCVNGL 2613
MP+ E T L G+ V+ + V + L + P SF +CV
Sbjct: 749 MPVGC-NEATCLVGEIEPAVVEDDVVDVVKAPLTYQGCCKPPTSFEK-------ICVVDK 800
Query: 2614 MLLEIKDKEQYCAL----SPGLLATNNVFRLKGGAPIKGVTFGEDT-VWEVQGYKNVRIT 2778
+ + + Y + + G+L F G K V F + V E+ + ++
Sbjct: 801 LYMAKCGDQFYPVVVDNDTIGVLDQCWRFPCAG----KKVEFNDKPKVKEIPSTRKIKFN 856
Query: 2779 FELDERVDKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSD---LLTNMGIDLDE 2949
F LD D VL++ CS + V+ + E VV +AV TL P + + T + L+
Sbjct: 857 FALDATFDSVLSKACSEFEVDKDVTLDELLDVVLDAVESTLSPCKEHDVIGTKVCALLNR 916
Query: 2950 WSVATFYLFDDAGEENFSSRMYCSFYPP 3033
+ YLFD+ GEE + +MYCSF P
Sbjct: 917 LAEDYVYLFDEGGEEVIAPKMYCSFSAP 944
>gi|9629815|ref|NP_045298.1| ORF1a polyprotein [Murine hepatitis virus]
gi|2641130|gb|AAB86820.1| RNA-directed RNA polymerase [murine hepatitis virus]
Length = 4470
Score = 1715 bits (4442), Expect = 0.0

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Identities = 1054/2916 (36%), Positives = 1517/2916 (52%), Gaps = 78/2916 (2%)
Frame = +1
Query: 4882 IKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTL 5061
+ V TVD N + V +G+ G + DG +VTK++ ++GK FF
Sbjct: 1611 VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIYKGKVFFQYSDLSEA 1670
Query: 5062 RSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLE 5241
A + DE L +Y + L K W G + K ++NNCY++ L LQ L
Sbjct: 1671 DLVAVKDAFGFDEPQLLKYYTMLGMCK-WSVVVCGNYFAFKQSNNNCYINVACLMLQHLS 1729
Query: 5242 VKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRV 5421
+KF QEA+ R+G F +L+LA + E D + M +L+ A+L A
Sbjct: 1730 LKFPKWQWQEAWNEFRSGKPLRFVSLVLAKGSFKFNEPSDSIDFMRVVLREADLSGATCN 1789
Query: 5422 LNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 5601
L VCK CG K GV+AVM+ GTL +L G +I C CG + Q F++
Sbjct: 1790 LEFVCK-CGVKQEQRKGVDAVMHFGTLDKGDLVRGYNIACTCGSKLV-HCTQFNVPFLIC 1847
Query: 5602 SAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVF 5781
S P KL + AN +TG GHYTH+ K D ++ K+SE KG TD
Sbjct: 1848 SNTPEGRKLPDDV-VAANIFTGG-SVGHYTHVKCKPKYQLYDACNVNKVSEAKGNFTDCL 1905
Query: 5782 Y-KETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDL-VPTQPLPNASF 5955
Y K T + ++ LD V E +P L YY + YYT+ I T + +
Sbjct: 1906 YLKNLKQTFSSVLTTFYLDDVKCVEYKPDLSQYYCESGKYYTKPIIKAQFRTFEKVDGVY 1965
Query: 5956 DNFKLTCSNTKFADDLNQMTGFT-KPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAK 6132
NFKL A+ LN GF E +T +P GDVV Y + + G
Sbjct: 1966 TNFKLV--GHSIAEKLNAKLGFDCNSPFVEYKITEWPTATGDVVLASDDLYVSRYSSGCI 2023
Query: 6133 LLHKPIVW--HINQATTKTTF--KPNTWCLRCLWSTKPVDTSNSFE------VLAVEDTQ 6282
KP+VW H + T+ +P+ C ++ PVD S + + V
Sbjct: 2024 TFGKPVVWLGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDKGPVPAAVLVTGVP 2082
Query: 6283 GMD----------NLACESQQPTSE---EVVENPTIQ----KEVIECDVKT-TEVVGNVI 6408
G D AC S + EV + P++ KEV VK +V G+V+
Sbjct: 2083 GADASAGAGIAKEQKACASASVEDQVVTEVRQEPSVSAADVKEVKLNGVKKPVKVEGSVV 2142
Query: 6409 LKPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAINSVPWS 6588
+ KV + L D+ ++ + NELS + T+ + V W
Sbjct: 2143 VNDPTSETKVVKSLSIVDVYDMFLTGCKYVVWTANELSRLVNSPTVREY-------VKWG 2195
Query: 6589 K--ILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFTKSTNSRIRASL 6762
K I+ K L + K + + Y + LL+ +T++++ +
Sbjct: 2196 KGKIVTPAKLLLLRDEKQEFVAPKVVKAKAIACYCAVKWFLLYCFSWIKFNTDNKVIYT- 2254
Query: 6763 PTTIAKNSVKSVAKLCLDAGINYVKSPKFSKL----FTIA----MWXXXXXXXXXXXXXV 6918
T +A K KLC A N +++ +S + F +A +W
Sbjct: 2255 -TEVAS---KLTFKLCCLAFKNALQTFNWSVVSRGFFLVATVFLLWFNFLYANVILSDFY 2310
Query: 6919 TAAFGVL-----------LSNFGAPSYCN--GVRELYLNSSNVTTMDFCEGSFPCSICLS 7059
G L + FG + C+ V +L SS FC GS C +C S
Sbjct: 2311 LPNIGPLPTFVGQIVAWFKTTFGVSTICDFYQVTDLGYRSS------FCNGSMVCELCFS 2364
Query: 7060 GLDSLDSYPALETIQVTISS-YKLD-LTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFF 7233
G D LD+Y A+ +Q + D +++ L E V+ Y L+T FY L + MQ+
Sbjct: 2365 GFDMLDNYDAINVVQHVVDRRLSFDYISLFKLVVELVIGYSLYTVCFYPLFVLIGMQLLT 2424
Query: 7234 GYFASHFISNS--WLMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTC 7407

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+ F+ + W + + M P ++R YI + Y ++ H+M GC+ C
Sbjct: 2425 TWLPEFFMLETMHWSARLFVFVANMLPAFTLLRFYIVVTAMYKVYCLCRHVMYGCSKPGC 2484
Query: 7408 MMCYKRNRATRVECTTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEV 7587
+ CYKRNR+ RV+C+T+V G R + V ANGG GFC H WNCLNC+++ G+TFI+ E
Sbjct: 2485 LFCYKRNRSVRVKCSTVVGGSLRYYDVMANGGTGFCTKHQWNCLNCNSWKPGNTFITHEA 2544
Query: 7588 ARDLSLQFKRPINPTDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRA 7767
A DLS + KRP+NPTD + Y V V ++ L++++ GQ+ Y+ S FV+++ L
Sbjct: 2545 AADLSKELKRPVNPTDSAYYSVTEVKQVGCSMRLFYERDGQRVYDDVNASLFVDMNGLLH 2604
Query: 7768 NNTKGSLPINVIVFDGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVK 7947
+ KG +V+V + ++ D++ A+V+Y+Q + +P+L++++ L++ VS
Sbjct: 2605 SKVKGVPETHVVVVENEA--DKAGFLGAAVFYAQSLYRPMLMVEKKLITTANTGLSVSRT 2662
Query: 7948 MFDAYVDTFSATFSVPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXX 8127
MFD YVD+ V + L + V AH+ L +GV L+ V+ TF+ AR+
Sbjct: 2663 MFDLYVDSLLNVLDVDRKSLTSFVNAAHNSLKEGVQLEQVMDTFIGCARRKCAIDSDVET 2722
Query: 8128 XXIECLKLSH-HSDLEVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHN 8304
I +S ++ ++ T +SCNN + TY K + + DLG I NA+H+ A VAK+ N
Sbjct: 2723 KSITKSVMSAVNAGVDFTDESCNNLVPTYVKSDTIVAADLGVLIQNNAKHVQANVAKAAN 2782
Query: 8305 VSLIWNVKDYMSLSEQLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVST 8484
V+ IW+V + LS L+ ++R A K + +LT V ++TT SLKGG + S
Sbjct: 2783 VACIWSVDAFNQLSADLQHRLRKACSKTGLKIKLTYNKQEANVPILTTPFSLKGGAVFSR 2842
Query: 8485 CFKLMLKATXXXXXXXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFA 8664
+ + A + +MP + + D +K I +GV RD+ TD CFA
Sbjct: 2843 MLQWLFVANLICFIVL---WALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVSVTDACFA 2899
Query: 8665 NKHAGFDAWFSQRGGS--YKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLP 8838
NK FD W+ G Y+N K+CPVV A+I ++IG + +P TVLR LHF+
Sbjct: 2900 NKFNQFDQWYESTFGLAYYRNSKACPVVVAVIDQDIGHTLFNVPTTVLR-YGFHVLHFIT 2958
Query: 8839 RVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYS 9018
F+ CYTP I Y +F S CVL++ CT+ A G P PYCY ++ + YS
Sbjct: 2959 HAFATDSVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTGGVMHNASLYS 3018
Query: 9019 ELRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWV 9195
L P RY L + I+FP EG VRVV T YCR G CE +E GIC + + WV
Sbjct: 3019 SLAPHVRYNLASSNGYIRFPEVVSEGIVRVVRTRSMTYCRVGLCEEAEEGICFNFNRSWV 3078
Query: 9196 LNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFM 9375
LNN +YRA+ G FCG +A +LI + LV+P+ ++AS VAG I+AI+V A YY +
Sbjct: 3079 LNNPYYRAMPGTFCGRNAFDLIHQVLGGLVRPIDFFALTASSVAGAILAIIVVLAFYYLI 3138
Query: 9376 KFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAH 9555
K +R FG+Y VV N +++ ++F +L + Y L +Y+ FY Y T YF +++S + H
Sbjct: 3139 KLKRAFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMH 3198
Query: 9556 LQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRK---RVMFNGVTFSTFEEAALCT 9726
LQW M+ I+P W IYV + H W F+ Y RK V +G TFEE AL T
Sbjct: 3<strong>199</strong> LQWLVMYGAIMPLWFCIIYVAVVVSNHALWLFS-YCRKIGTEVRSDG----TFEEMALTT 3253
Query: 9727 FLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFS 9906
F++ KE Y KL++ + +NRYL+LYNKY+YFSG +DT +YREAAC LAKA+ F+
Sbjct: 3254 FMITKESYCKLKNS--VSDVAFNRYLSLYNKYRYFSGKMDTAAYREAACSQLAKAMETFN 3311
Query: 9907 -NSGADVLYQPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYC 10083

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N+G DVLYQPP S+T++ LQSG KM P+ KVE C+V VT G TLNGLWLDD VYC
Sbjct: 3312 HNNGNDVLYQPPTASVTTSFLQSGIVKMVSPTSKVEPCIVSVTYGNMTLNGLWLDDKVYC 3371
Query: 10084 PRHVICTAEDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKT 10263
PRHVIC++ DM +P+Y +LL R ++ F V +G + L V+ + MQ C L L V NP T
Sbjct: 3372 PRHVICSSADMTDPDYPNLLCRVTSSDFCVMSGRMSLTVMSYQMQGCQLVLTVTLQNPNT 3431
Query: 10264 PKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVS 10443
PKY F ++PG+TF+VLA YNG P G + +R +HTIKGSFL GSCGSVG+ + D V
Sbjct: 3432 PKYSFGVVKPGETFTVLAAYNGRPQGAFHVTLRSSHTIKGSFLCGSCGSVGYVLTGDSVR 3491
Query: 10444 FCYMHHMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRW 10623
F YMH +EL TG H GTD G FYGP+ D Q Q D T T+NV+AWLYAA+ N W
Sbjct: 3492 FVYMHQLELSTGCHTGTDFSGNFYGPYRDAQVVQLPVQDYTQTVNVVAWLYAAIFNRCNW 3551
Query: 10624 FLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNG 10803
F+ + +L +FN+ AM + + D V L L++ TG+ V + AA+K L +G G
Sbjct: 3552 FVQSDSCSLEEFNVWAMTNGFSSIKADLV--LDALASMTGVTVEQVLAAIKR-LHSGFQG 3608
Query: 10804 RTILGSTILEDEFTPFDVVRQCSGVTFQGKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWS 10983
+ ILGS +LEDE TP DV +Q +GV Q K +++KGT W+ +W+
Sbjct: 3609 KQILGSCVLEDELTPSDVYQQLAGVKLQSKRTRVIKGTCCWILASTFLFCSIISAFVKWT 3668
Query: 10984 LFFFVYENAFLPFTLGIMAIAACAMLLVKHKHAFLCLFLLPSLATVAYFN-MVYMPASWV 11160
+F +V + L TL + + AMLL+KHKH +L ++++P L T+ Y N +V S+
Sbjct: 3669 MFMYVTTH-MLGVTLCALCFVSFAMLLIKHKHLYLTMYIMPVLCTLFYTNYLVVYKQSFR 3727
Query: 11161 MRIMTWLELADTSLSGYRLKDCVMYASA-LVLLILMTARTVYDDAARRVWTLMNVITLVY 11337
WL ++ Y D V+Y LV ++ +T R++ D ++ + +++LV
Sbjct: 3728 GLAYAWLSHFVPAVD-YTYMDEVLYGVVLLVAMVFVTMRSINHDVFSIMFLVGRLVSLVS 3786
Query: 11338 KVYYGNALDQAISMWALVISVTSNYSGVVTTIMFLARA-IVFVCVEYYPLLFITGNTLQC 11514
Y+G L++ + ++ + T + TT++ LA A ++ + L F ++
Sbjct: 3787 MWYFGANLEEEVLLFLTSLFGTYTW----TTMLSLATAKVIAKWLAVNVLYFTDVPQIKL 3842
Query: 11515 IMLVXXXXXXXXXXXXXXXXXXNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAF 11694
++L N FR+ LGVY+Y +S QE RYMN+ GL PP++S +A
Sbjct: 3843 VLLSYLCIGYVCCCYWGILSLLNSIFRMPLGVYNYKISVQELRYMNANGLRPPRNSFEAL 3902
Query: 11695 KLNIKLLGIGGKPCIKVATVQSKMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDI 11874
LN KLLGIGG P I+V+ +QS+++DVKC
KLW C LHN+I
Sbjct: 3903 MLNFKLLGIGGVPVIEVSQIQSRLTDVKCANVVLLNCLQHLHIASNSKLWQYCSTLHNEI 3962
Query: 11875 LLAKDTTEAFEKMXXXXXXXXXMQGAVD------INRLCEEMLDNRATLQAIASEFSSLP 12036
L D + AF+K+ AVD I + ++ + + LQA+ SEF ++
Sbjct: 3963 LATSDLSVAFDKLAQLLVVLFANPAAVDSKCLASIEEVSDDYVRDNTVLQALQSEFVNMA 4022
Query: 12037 SXXXXXXXXXXXXXXXXNGDXXXXXXXXXXXX-XXXXXEFDRDAAMQRKLEKMADQAMTQ 12213
S +G ++RD A+ RKLE+MAD A+T
Sbjct: 4023 SFVEYELAKKNLDEAKASGSANQQQIKQLEKACNIAKSAYERDRAVARKLERMADLALTN 4082
Query: 12214 MYKQARSEDKRAKVTSAMQTMLFTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLM 12393
MYK+AR DK++KV SA+QTMLF+M+RK
GCVPLN IP T+ L
Sbjct: 4083 MYKEARINDKKSKVVSALQTMLFSMVRKLDNQALNSILDNAVKGCVPLNAIPSLTSNTLT 4142
Query: 12394 VVVPDYGTYKNTCDGNTFTYASALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTAL 12573
++VPD + D TYA +W IQ + DAD + QL+EI++ N WPL++ A
Sbjct: 4143 IIVPDKQVFDQVVDNVYVTYAGNVWHIQFIQDADGAVKQLNEIDV----NSTWPLVIAAN 4198
Query: 12574 RAN--SAVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQ 12747

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R N S V LQNNEL P LR +G+ T YYN + G+ V A+LSD
Sbjct: 4<strong>199</strong> RHNEVSTVVLQNNELMPQKLRTQVVNSGSDMNCNTPTQ--CYYNTTGTGKIVYAILSDCD 4256
Query: 12748 DLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAAT 12927
LK+ + K DG + EL+PPC+F KG K+KYLYF+KG N L RG V+G+L++T
Sbjct: 4257 GLKYTKIVKEDG-NCVVLELDPPCKFSVQDVKGLKIKYLYFVKGCNTLARGWVVGTLSST 4315
Query: 12928 VRLQAGNATEVPANSTVLSFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAIT 13107
VRLQAG ATE +NS +LS CAF+VDP K Y DY+ GG P+TNCVKMLC H GTG AIT
Sbjct: 4316 VRLQAGTATEYASNSAILSLCAFSVDPKKTYLDYIKQGGVPVTNCVKMLCDHAGTGMAIT 4375
Query: 13108 VTPEANMDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTV 13287
+ PEA +Q+S+GGAS C+YCR ++HP+ G C L+GK+VQ+P DPV + L + V
Sbjct: 4376 IKPEATTNQDSYGGASVCIYCRSRVEHPDVDGLCKLRGKFVQVPLG-IKDPVSYVLTHDV 4434
Query: 13288 CTVCGMWKGYGCSCDQLREPLMQSADASTFLNGFAV 13395
C VCG W+ CSC QS D + FLNGF V
Sbjct: 4435 CQVCGFWRDGSCSCVGTGSQ-FQSKD-TNFLNGFGV 4468
Score = 84.7 bits (208), Expect = 8e-14
Identities = 52/149 (34%), Positives = 77/149 (51%), Gaps = 2/149 (1%)
Frame = +1
Query: 3283 LTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKL 3462
+T NV D++K + N VIVN AN + HG GVAGA+ + A KE+ D +K
Sbjct: 1320 ITPNVCFVKGDVIKVVRLVNAEVIVNPANGRMAHGAGVAGAIAEKAGSAFIKETSDMVKA 1379
Query: 3463 NGPLTVGGSCLLSGHNLAKKCLHVVGPNL--NAGEDIQLLKAAYENFNSQDILLAPLLSA 3636
G VG +G L KK L++VGP+ + + LL+ AY++ N D ++ L+SA
Sbjct: 1380 QGVCQVGECYESAGGKLCKKVLNIVGPDARGHGKQCYSLLERAYQHINKCDNVVTTLISA 1439
Query: 3637 GIFGAKPLQSLQVCVQTVRTQVYIAVNDK 3723
GIF SL + V V + N++
Sbjct: 1440 GIFSVPTDVSLTYLLGVVTKNVILVSNNQ 1468
Score = 73.6 bits (179), Expect = 2e-10
Identities = 98/389 (25%), Positives = 165/389 (42%), Gaps = 29/389 (7%)
Frame = +1
Query: 1954 ILDGISEQSLRLVDA-------MVYTSDLLTNSVIIMAYVTGGLVQQTSQWLSNLLGTT- 2109
+LDG+ +S L+ + MV S +T+ + MA + V+ ++++ + G
Sbjct: 576 LLDGLVPRSYYLIKSGQAFTSMMVNFSHEVTDMCMDMALLFMHDVKVATKYVKKVTGKLA 635
Query: 2110 -------VEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDIVKGQIQVASDNIKD 2268
V +R I EW + L+ + W + L+ G+F + G I + + +
Sbjct: 636 VRFKALGVAVVRKITEWFD--LAVDIAASAAGWLCYQ-LVNGLFAVANGVITFVQE-VPE 691
Query: 2269 CVKCFIDVVNKALEMCIDQVTIA---GAKLRSLNLGEVFIAQSKGLYRQCIRGKEQLQLL 2439
VK F+D ++ ID ++++ G + V +A SK +Y + K +
Sbjct: 692 LVKNFVDKFKAFFKVLIDSMSVSILSGLTVVKTASNRVCLAGSK-VYE--VVQKSLSAYV 748
Query: 2440 MPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGEL--EALETPVDSFTNGAIVGTPVCVNGL 2613
MP+ E T L G+ V + V + L + P SF IV
Sbjct: 749 MPVGC-SEATCLVGEIEPAVFEDDVVDVVKAPLTYQGCCKPPTSFEKICIVDK------- 800
Query: 2614 MLLEIKDKEQYCAL-----SPGLLATNNVFRLKGGAPIKGVTFGEDT-VWEVQGYKNVRI 2775

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L K +Q+ + + G+L F G K V F + V ++ + ++I
Sbjct: 801 -LYMAKCGDQFYPVVVDNDTVGVLDQCWRFPCAG----KKVEFNDKPKVRKIPSTRKIKI 855
Query: 2776 TFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSD---LLTNMGIDLD 2946
TF LD D VL++ CS + V+ + E VV +AV TL P + + T + LD
Sbjct: 856 TFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLDAVESTLSPCKEHDVIGTKVCALLD 915
Query: 2947 EWSVATFYLFDDAGEENFSSRMYCSFYPP 3033
+ YLFD+ G+E + RMYCSF P
Sbjct: 916 RLAGDYVYLFDEGGDEVIAPRMYCSFSAP 944
>gi|6625760|gb|AAF19383.1|AF201929_1
Length = 4416
RNA-directed RNA polymerase [murine hepatitis virus
Score = 1714 bits (4439), Expect = 0.0
Identities = 1042/2915 (35%), Positives = 1514/2915 (51%), Gaps = 77/2915 (2%)
Frame = +1
Query: 4882 IKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFF----VLPS 5049
+ V TVD N + V +G+ G + DG +VTK++ H+GK FF + +
Sbjct: 1558 VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIHKGKVFFQYSGLSAA 1617
Query: 5050 DDTLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLAL 5229
D ++AF + DE L +Y + L K W G + K ++NNCY++ L L
Sbjct: 1618 DLVAVTDAFGF----DEPQLLKYYNMLGMCK-WPVVVCGNYFAFKQSNNNCYINVACLML 1672
Query: 5230 QQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLES 5409
Q L +KF+ QEA+ R+G F +L+LA + E D + M +L+ A+L
Sbjct: 1673 QHLSLKFHKWQWQEAWNEFRSGKPLRFVSLVLAKGSFKFNEPSDSTDFMRVVLREADLSG 1732
Query: 5410 AKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESS 5589
A VCK CG K GV+AVM+ GTL +L G +I C CG + Q
Sbjct: 1733 ATCDFEFVCK-CGVKQEQRKGVDAVMHFGTLDKGDLAKGYTIACTCGNKLV-HCTQLNVP 1790
Query: 5590 FVMMSAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPV 5769
F++ S P KL + AN +TG GHYTH+ K D +++K+SE KG
Sbjct: 1791 FLICSNKPEGKKLPDDV-VAANIFTGG-SLGHYTHVKCKPKYQLYDACNVSKVSEAKGNF 1848
Query: 5770 TDVFY-KETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDL-VPTQPLP 5943
TD Y K T + K ++ LD V E P L YY + YYT+ I T
Sbjct: 1849 TDCLYLKNLKQTFSSKLTTFYLDDVKCVEYNPDLSQYYCESGKYYTKPIIKAQFRTFEKV 1908
Query: 5944 NASFDNFKLTCSNTKFADDLNQMTGFT-KPASRELSVTFFPDLNGDVVAIDYRHYSASFK 6120
+ NFKL A+ N GF E +T +P GDVV Y + +
Sbjct: 1909 EGVYTNFKLV--GHSIAEKFNAKLGFDCNSPFTEYKITEWPTATGDVVLASDDLYVSRYS 1966
Query: 6121 KGAKLLHKPIVW--HINQATTKTTF--KPNTWCLRCLWSTKPVDTSNSFEV----LAVED 6276
G KP++W H + T+ +P+ C ++ PVD S + AV
Sbjct: 1967 GGCVTFGKPVIWLGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDKGPVPAAVLV 2025
Query: 6277 TQGMDNLACESQQPTSEEVVENPTIQKEVIE----------CDVKTTEVVG--------- 6399
T + A ++V + ++ +V+ DVK ++ G
Sbjct: 2026 TGALSGAATAPGTAKEQKVCASDSVVDQVVSGFLSDLSGATVDVKEVKLNGVKKPIKVED 2085
Query: 6400 NVILKPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAINSV 6579
+V++ KV + L D+ ++ + NELS + T+ + V
Sbjct: 2086 SVVVNDPTSETKVVKSLSIVDVYDMFLTGCRYVVWMANELSRLVNSPTVREY-------V 2138

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Query: 6580 PW--SKILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFTKSTNSRIR 6753
W +KI+ K L + K + +V Y + L+ +T++++
Sbjct: 2139 KWGMTKIVIPAKLVLLRDEKQEFVAPKVVKAKVIACYSAVKWFFLYCFSWIKFNTDNKVI 2198
Query: 6754 ASLPTTIAKNSVKSVAKLCLDAGI-----NYVKSPKFSKLFTIAMWXXXXXXXXXXXXXV 6918
+ T +A ++ L + N V F +W
Sbjct: 2<strong>199</strong> YT--TEVASKLTFNLCCLAFKNALQTFNWNVVSRGFFLVATVFLLWFNFLYANVILSDFY 2256
Query: 6919 TAAFGV-----------LLSNFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGL 7065
G + + FG + C +LY S FC GS C +C SG
Sbjct: 2257 LPNIGFFPTFVGQIVAWVKTTFGIFTLC----DLYQVSDVGYRSSFCNGSMVCELCFSGF 2312
Query: 7066 DSLDSYPALETIQVTISS-YKLD-LTILGLAAEWVLAYMLFTKFFY-LLGLSAIMQVFFG 7236
D LD+Y A+ +Q + D +++ L E V+ Y L+T FY L GL MQ+
Sbjct: 2313 DMLDNYDAINVVQHVVDRRVSFDYISLFKLVVELVIGYSLYTVCFYPLFGLIG-MQLLTT 2371
Query: 7237 YFASHFISNS--WLMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCM 7410
+ F+ + W F + + M P ++R YI + Y I+ H+M GC+ C+
Sbjct: 2372 WLPEFFMLETMHWSARFFVFVANMLPAFTLLRFYIVVTAMYKIFCLCRHVMYGCSRPGCL 2431
Query: 7411 MCYKRNRATRVECTTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVA 7590
CYKRNR+ RV+C+T+V G R + V ANGG GFC H WNCLNC F G+TFI+ E A
Sbjct: 2432 FCYKRNRSVRVKCSTVVGGTLRYYDVMANGGTGFCAKHQWNCLNCSAFGPGNTFITHEAA 2491
Query: 7591 RDLSLQFKRPINPTDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRAN 7770
DLS + KRP+NPTD + Y+V V ++ L++++ GQ+ Y+ S FV+++ L +
Sbjct: 2492 ADLSKELKRPVNPTDSAYYLVTEVKQVGCSMRLFYERDGQRVYDDVSASLFVDMNGLLHS 2551
Query: 7771 NTKGSLPINVIVFDGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKM 7950
KG +V+V + ++ D++ +A+V+Y+Q + +P+LL+++ L++ VS M
Sbjct: 2552 KVKGVPETHVVVVENEA--DKAGFLNAAVFYAQSLYRPMLLVEKKLITTANTGLSVSQTM 2609
Query: 7951 FDAYVDTFSATFSVPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXX 8130
FD YVD+ V + L + V AH+ L +GV L+ V+ TF+ AR+
Sbjct: 2610 FDLYVDSLLGVLDVDRKSLTSFVNAAHNSLKEGVQLEQVMDTFIGCARRKCAIDSDVETK 2669
Query: 8131 XI-ECLKLSHHSDLEVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNV 8307
I + + + ++ ++ T +SCNN + TY K + + DLG I NA+H+ A VAK+ NV
Sbjct: 2670 SITKSIMSAVNAGVDFTDESCNNLVPTYVKSDTIVAADLGVLIQNNAKHVQANVAKAANV 2729
Query: 8308 SLIWNVKDYMSLSEQLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVSTC 8487
+ IW+V + LS L+ ++R A K + +LT V ++TT SLKGG + S
Sbjct: 2730 ACIWSVDAFNQLSADLQHRLRKACSKTGLKIKLTYNKQEANVPILTTPFSLKGGAVFSKV 2789
Query: 8488 FKLMLKATXXXXXXXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFAN 8667
+ + + +MP + + D +K I +GV RD+ TD CFAN
Sbjct: 2790 LQWLFVVNLICFIVL---WALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVTVTDACFAN 2846
Query: 8668 KHAGFDAWFSQRGGS--YKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPR 8841
K FD W+ G Y+N ++CPVV A+I ++IG+ + +P VLR LHF+
Sbjct: 2847 KFIQFDQWYESTFGLVYYRNSRACPVVVAVIDQDIGYTLFNVPTKVLR-YGFHVLHFITH 2905
Query: 8842 VFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSE 9021
F+ CYTP I Y +F S CVL++ CT+ A G P PYCY ++ + Y
Sbjct: 2906 AFATDSVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTEGIMHNASLYDS 2965
Query: 9022 LRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVL 9198
L P RY L + + I+FP EG VR+V T YCR G CE +E G+C + + WVL
Sbjct: 2966 LAPHVRYNLANSNGYIRFPEVVSEGIVRIVRTRSMTYCRVGLCEDAEEGVCFNFNSSWVL 3025

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Query: 9<strong>199</strong> NNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMK 9378
NN +YRA+ G FCG +A +LI + LV+P+ ++AS VAG I+AI+V A YY +K
Sbjct: 3026 NNPYYRAMPGTFCGRNAFDLIHQVLGGLVRPIDFFALTASSVAGAILAIIVVLAFYYLIK 3085
Query: 9379 FRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHL 9558
+R FG+Y VV N +++ ++F +L + Y L +Y+ FY Y T YF +++S + HL
Sbjct: 3086 LKRAFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMHL 3145
Query: 9559 QWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRK---RVMFNGVTFSTFEEAALCTF 9729
QW M+ I+P W IYV + H W F+ Y RK V +G TFEE +L TF
Sbjct: 3146 QWLVMYGAIMPLWFCIIYVAVVVSNHALWLFS-YCRKLGTEVRSDG----TFEEMSLTTF 3200
Query: 9730 LLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFS- 9906
++ KE Y KL++ + +NRYL+LYNKY+YFSG +DT +YREAAC LAKA+ F+
Sbjct: 3201 MITKESYCKLKNS--VSDVAFNRYLSLYNKYRYFSGKMDTAAYREAACSQLAKAMETFNH 3258
Query: 9907 NSGADVLYQPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCP 10086
N+G DVLYQPP S+T++ LQSG KM FP+ KVE C+V VT G TLNGLWLDD VYCP
Sbjct: 3259 NNGNDVLYQPPTASVTTSFLQSGIVKMVFPTSKVEPCVVSVTYGNMTLNGLWLDDKVYCP 3318
Query: 10087 RHVICTAEDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTP 10266
RHVIC++ DM +P+Y +LL R + F V +G + L V+ + MQ LL L V NP TP
Sbjct: 3319 RHVICSSADMTDPDYSNLLCRVISSDFCVMSGRMSLTVMSYQMQGSLLVLTVTLQNPNTP 3378
Query: 10267 KYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSF 10446
KY F ++PG+TF+VLA YNG G + MR ++TIKGSFL GSCGSVG+ + D V F
Sbjct: 3379 KYSFGVVKPGETFTVLAAYNGKSQGAFHVTMRSSYTIKGSFLCGSCGSVGYVLTGDSVRF 3438
Query: 10447 CYMHHMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWF 10626
YMH +EL TG H GTD G FYGP+ D Q Q D T T+NV+AWLYAA++N WF
Sbjct: 3439 VYMHQLELSTGCHTGTDFSGNFYGPYRDAQVVQLPVQDYTQTVNVVAWLYAAILNRCNWF 3498
Query: 10627 LNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGR 10806
+ + +L +FN+ AM + + D V L L++ TG+ V + AA+K L +G G+
Sbjct: 3499 VQSDSCSLEEFNVWAMTNGFSSIKADLV--LDALASMTGVTVEQILAAIKR-LYSGFQGK 3555
Query: 10807 TILGSTILEDEFTPFDVVRQCSGVTFQGKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSL 10986
ILGS +LEDE TP DV +Q +GV Q K ++VKGT W+
+W++
Sbjct: 3556 QILGSCVLEDELTPSDVYQQLAGVKLQSKRTRVVKGTCCWILASTLLFCSIISAFVKWTM 3615
Query: 10987 FFFVYENAFLPFTLGIMAIAACAMLLVKHKHAFLCLFLLPSLATVAYFN-MVYMPASWVM 11163
F +V + L TL + + AMLLVKHKH +L +F++P L T+ Y N +V S+
Sbjct: 3616 FMYVTTH-MLGVTLCALCFVSFAMLLVKHKHLYLTMFIMPVLCTLFYTNYLVVYKQSFRG 3674
Query: 11164 RIMTWLELADTSLSGYRLKDCVMYASA-LVLLILMTARTVYDDAARRVWTLMNVITLVYK 11340
WL ++ Y D V+Y LV ++ +T R++ D ++ + +++LV
Sbjct: 3675 LAYAWLSHFVPAVD-YTYMDEVLYGVVLLVAMVFVTMRSINHDVFSVMFLVGRLVSLVSM 3733
Query: 11341 VYYGNALDQAISMWALVISVTSNYSGVVTTIMFLARA-IVFVCVEYYPLLFITGNTLQCI 11517
Y+G L++ + ++ + T + TT++ LA A ++ + L F ++ +
Sbjct: 3734 WYFGANLEEEVLLFLTSLFGTYTW----TTMLSLATAKVIAKWLAVNVLYFTDVPQVKLV 3789
Query: 11518 MLVXXXXXXXXXXXXXXXXXXNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFK 11697
+L N FR+ LGVY+Y +S QE RYMN+ GL PP++S +A
Sbjct: 3790 LLSYLCIGYVCCCYWGVLSLLNSIFRMPLGVYNYKISVQELRYMNANGLRPPRNSFEALV 3849
Query: 11698 LNIKLLGIGGKPCIKVATVQSKMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDIL 11877
LN KLLGIGG P I+V+ +QS+++DVKC
KLW C LHN+IL
Sbjct: 3850 LNFKLLGIGGVPVIEVSQIQSRLTDVKCVNVVLLNCLQHLHIASSSKLWQYCSTLHNEIL 3909

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Query: 11878 LAKDTTEAFEKMXXXXXXXXXMQGAVD------INRLCEEMLDNRATLQAIASEFSSLPS 12039
D + AF+K+ AVD I + ++ + + LQA+ SEF ++ S
Sbjct: 3910 ATSDLSVAFDKLAQLLVVLFANPAAVDSKCLASIEEVSDDYVRDSTVLQALQSEFVNMAS 3969
Query: 12040 XXXXXXXXXXXXXXXXNGDXXXXXXXXXXXX-XXXXXEFDRDAAMQRKLEKMADQAMTQM 12216
+G ++RD A+ RKLE+MAD A+T M
Sbjct: 3970 FVEYELAKKNLDEAKASGSANQQQIKQLEKACNIAKSAYERDRAVARKLERMADLALTNM 4029
Query: 12217 YKQARSEDKRAKVTSAMQTMLFTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMV 12396
YK+AR DK++KV SA+QTMLF+M+RK GCVPLN IP T+ L +
Sbjct: 4030 YKEARINDKKSKVVSALQTMLFSMIRKLDNQALNSILDNAVKGCVPLNAIPSLTSNTLTI 4089
Query: 12397 VVPDYGTYKNTCDGNTFTYASALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTALR 12576
+VPD + D TYA +W IQ + DAD + QL+EI++ N+ WPL++ A R
Sbjct: 4090 IVPDKQVFDQVVDNVYVTYAGNVWHIQSIQDADGAVKQLNEIDV----NITWPLVIAANR 4145
Query: 12577 AN--SAVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQD 12750
N S+V LQNNEL P LR +G+ T YYN + G+ V A+LSD
Sbjct: 4146 HNEVSSVVLQNNELMPQKLRTQVVNSGSDMNCNTPTQ--CYYNTTGMGKIVYAILSDCDG 4203
Query: 12751 LKWARFPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATV 12930
LK+ + K DG + EL+PPC+F KG K+KYLYF+KG N L RG V+G+L++TV
Sbjct: 4204 LKYTKIVKEDG-NCVVLELDPPCKFSVQDVKGLKIKYLYFVKGCNTLARGWVVGTLSSTV 4262
Query: 12931 RLQAGNATEVPANSTVLSFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITV 13110
RLQAG ATE +NS + S CAF+VDP K Y DY+ GG P+TNCVKMLC H GTG AIT+
Sbjct: 4263 RLQAGTATEYASNSAIRSLCAFSVDPKKTYLDYIQQGGAPVTNCVKMLCDHAGTGMAITI 4322
Query: 13111 TPEANMDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVC 13290
PEA +Q+S+GGAS C+YCR ++HP+ G C L+GK+VQ+P DPV + L + VC
Sbjct: 4323 KPEATTNQDSYGGASVCIYCRSRVEHPDVDGLCKLRGKFVQVPLG-IKDPVSYVLTHDVC 4381
Query: 13291 TVCGMWKGYGCSCDQLREPLMQSADASTFLNGFAV 13395
VCG W+ CSC QS D + FLNGF V
Sbjct: 4382 QVCGFWRDGSCSCVGTGSQ-FQSKD-TNFLNGFGV 4414
Score = 83.2 bits (204), Expect = 2e-13
Identities = 52/149 (34%), Positives = 76/149 (51%), Gaps = 2/149 (1%)
Frame = +1
Query: 3283 LTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKL 3462
+T NV D++K + VIVN AN + HG GVAGA+ KA + KE+ D +K
Sbjct: 1267 ITPNVCFVKGDVIKVLRRVGAEVIVNPANGRMAHGAGVAGAIAKAAGKSFIKETADMVKN 1326
Query: 3463 NGPLTVGGSCLLSGHNLAKKCLHVVGPNL--NAGEDIQLLKAAYENFNSQDILLAPLLSA 3636
G VG +G NL K L++VGP+ + + L+ AY++ N D ++ L+SA
Sbjct: 1327 QGVCQVGECYESTGGNLCKTVLNIVGPDARGHGKQCYSFLERAYQHINKCDDVVTTLISA 1386
Query: 3637 GIFGAKPLQSLQVCVQTVRTQVYIAVNDK 3723
GIF SL + V V + N+K
Sbjct: 1387 GIFSVPTDVSLTYLIGVVTKNVILVSNNK 1415
Score = 70.9 bits (172), Expect = 1e-09
Identities = 95/388 (24%), Positives = 163/388 (42%), Gaps = 28/388 (7%)
Frame = +1

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Query: 1954 ILDGISEQSLRLVDA-------MVYTSDLLTNSVIIMAYVTGGLVQQTSQWLSNLLGTT- 2109
+LDG+ +S L+ + MV S +T+ + MA + V+ ++++ + G
Sbjct: 576 LLDGLVPRSYYLIKSGQAFTSMMVNFSHEVTDMCMDMALLFMHDVKVATKYVKKVTGKLA 635
Query: 2110 -------VEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDIVKGQIQVASDNIKD 2268
V +R I EW + + W + L+ G+F + G I SD + +
Sbjct: 636 VRFKALGVAVVRKITEWFDLAVDTAASAA--GWLCYQ-LVNGLFAVANGGITFLSD-VPE 691
Query: 2269 CVKCFIDVVNKALEMCIDQVTIA---GAKLRSLNLGEVFIAQSKGLYRQCIRGKEQLQLL 2439
VK F+D ++ ID ++++ G + V +A K +Y + K +
Sbjct: 692 LVKNFVDKFKVFFKVLIDSMSVSVLSGLTVVKTASNRVCLAGCK-VYE--VVQKRLSAYV 748
Query: 2440 MPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGEL--EALETPVDSFTNGAIVGTPVCVNGL 2613
MP+ E T L G+ V+ + V + L + P SF +CV
Sbjct: 749 MPVGC-NEATCLVGEIEPAVVEDDVVDVVKAPLTYQGCCKPPTSFEK-------ICVVDK 800
Query: 2614 MLLEIKDKEQYCAL----SPGLLATNNVFRLKGGAPIKGVTFGEDT-VWEVQGYKNVRIT 2778
+ + + Y + + G+L F G K V F + V E+ + ++I
Sbjct: 801 LYMAKCGDQFYPVVVDNDTIGVLDQCWRFPCAG----KKVEFNDKPKVKEIPSTRKIKIN 856
Query: 2779 FELDERVDKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSD---LLTNMGIDLDE 2949
F LD D VL++ CS + V+ + E VV +AV TL P + + T + L+
Sbjct: 857 FALDATFDSVLSKACSEFEVDKDVTLDELLDVVLDAVESTLSPCKEHDVIGTKVCALLNR 916
Query: 2950 WSVATFYLFDDAGEENFSSRMYCSFYPP 3033
+ YLFD+ GEE + +MYCSF P
Sbjct: 917 LAEDYVYLFDEGGEEVIAPKMYCSFSAP 944
>gi|7739594|gb|AAF68919.1|AF207902_1
Length = 4416
RNA-directed RNA polymerase [murine hepatitis virus
Score = 1714 bits (4439), Expect = 0.0
Identities = 1040/2911 (35%), Positives = 1507/2911 (51%), Gaps = 73/2911 (2%)
Frame = +1
Query: 4882 IKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTL 5061
+ V TVD N + V +G+ G + DG +VTK++ H+GK FF
Sbjct: 1558 VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIHKGKVFFQYSGLSAA 1617
Query: 5062 RSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLE 5241
A + DE L +Y + L K W G + K ++NNCY++ L LQ L
Sbjct: 1618 DLVAVKDAFGFDEPQLLKYYNMLGMCK-WPVVVCGNYFAFKQSNNNCYINVACLMLQHLS 1676
Query: 5242 VKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRV 5421
+KF+ QEA+ R+G F +L+LA + E D + M +L+ A+L A
Sbjct: 1677 LKFHKWQWQEAWNEFRSGKPLRFVSLVLAKGSFKFNEPSDSTDFMRVVLREADLSGATCD 1736
Query: 5422 LNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 5601
VCK CG K GV+AVM+ GTL +L G +I C CG + Q F++
Sbjct: 1737 FEFVCK-CGVKQEQRKGVDAVMHFGTLDKGDLAKGYTIACTCGNKLV-HCTQLNVPFLIC 1794
Query: 5602 SAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVF 5781
S P KL + AN +TG GHYTH+ K D +++K+SE KG TD
Sbjct: 1795 SNKPEGKKLPDDV-VAANIFTGG-SLGHYTHVKCKPKYQLYDACNVSKVSEAKGNFTDCL 1852
Query: 5782 Y-KETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDL-VPTQPLPNASF 5955
Y K T + K ++ LD V E P L YY + YYT+ I T +
Sbjct: 1853 YLKNLKQTFSSKLTTFYLDDVKCVEYNPDLSQYYCESGKYYTKPIIKAQFRTFEKVEGVY 1912

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Query: 5956 DNFKLTCSNTKFADDLNQMTGFT-KPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAK 6132
NFKL A+ N GF E +T +P GDVV Y + + G
Sbjct: 1913 TNFKLV--GHSIAEKFNAKLGFDCNSPFTEYKITEWPTATGDVVLASDDLYVSRYSGGCV 1970
Query: 6133 LLHKPIVW--HINQATTKTTF--KPNTWCLRCLWSTKPVDTSNSFEV----LAVEDTQGM 6288
KP++W H + T+ +P+ C ++ PVD S + AV T +
Sbjct: 1971 TFGKPVIWLGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDKGPVPAAVLVTGAL 2029
Query: 6289 DNLACESQQPTSEEVVENPTIQKEVIE----------CDVKTTEVVG---------NVIL 6411
A ++V + ++ +V+ DVK ++ G +V++
Sbjct: 2030 SGAATAPGTAKEQKVCASDSVVDQVVSGFLSDLSGATVDVKEVKLNGVKKPIKVEDSVVV 2089
Query: 6412 KPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAINSVPW-- 6585
KV + L D+ ++ + NELS + T+ + V W
Sbjct: 2090 NDPTSETKVVKSLSIVDVYDMFLTGCRYVVWMANELSRLVNSPTVREY-------VKWGM 2142
Query: 6586 SKILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFTKSTNSRIRASLP 6765
+KI+ K L + K + +V Y + L+ +T++++ +
Sbjct: 2143 TKIVIPAKLVLLRDEKQEFVAPKVVKAKVIACYSAVKWFFLYCFSWIKFNTDNKVIYT-- 2200
Query: 6766 TTIAKNSVKSVAKLCLDAGI-----NYVKSPKFSKLFTIAMWXXXXXXXXXXXXXVTAAF 6930
T +A ++ L + N V F +W
Sbjct: 2201 TEVASKLTFNLCCLAFKNALQTFNWNVVSRGFFLVATVFLLWFNFLYANVILSDFYLPNI 2260
Query: 6931 GV-----------LLSNFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLD 7077
G + + FG + C +LY S FC GS C +C SG D LD
Sbjct: 2261 GFFPTFVGQIVAWVKTTFGIFTLC----DLYQVSDVGYRSSFCNGSMVCELCFSGFDMLD 2316
Query: 7078 SYPALETIQVTISS-YKLD-LTILGLAAEWVLAYMLFTKFFY-LLGLSAIMQVFFGYFAS 7248
+Y A+ +Q + D +++ L E V+ Y L+T FY L GL MQ+ +
Sbjct: 2317 NYDAINVVQHVVDRRVSFDYISLFKLVVELVIGYSLYTVCFYPLFGLIG-MQLLTTWLPE 2375
Query: 7249 HFISNS--WLMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYK 7422
F+ + W F + + M P ++R YI + Y I+ H+M GC+ C+ CYK
Sbjct: 2376 FFMLETMHWSARFFVFVANMLPAFTLLRFYIVVTAMYKIFCLCRHVMYGCSKPGCLFCYK 2435
Query: 7423 RNRATRVECTTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLS 7602
RNR+ RV+C+T+V G R + V ANGG GFC H WNCLNC F G+TFI+ E A DLS
Sbjct: 2436 RNRSVRVKCSTVVGGTLRYYDVMANGGTGFCAKHQWNCLNCSAFGPGNTFITHEAAADLS 2495
Query: 7603 LQFKRPINPTDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKG 7782
+ KRP+NPTD + Y+V V ++ L++++ GQ+ Y+ S FV+++ L + KG
Sbjct: 2496 KELKRPVNPTDSAYYLVTEVKQVGCSMRLFYERDGQRVYDDVSASLFVDMNGLLHSKVKG 2555
Query: 7783 SLPINVIVFDGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAY 7962
+V+V + ++ D++ +A+V+Y+Q + +P+LL+++ L++ VS MFD Y
Sbjct: 2556 VPETHVVVVENEA--DKAGFLNAAVFYAQSLYRPMLLVEKKLITTANTGLSVSQTMFDLY 2613
Query: 7963 VDTFSATFSVPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXI-E 8139
VD+ V + L + V AH+ L +GV L+ V+ TF+ AR+ I +
Sbjct: 2614 VDSLLGVLDVDRKSLTSFVNAAHNSLKEGVQLEQVMDTFIGCARRKCAIDSDVETKSITK 2673
Query: 8140 CLKLSHHSDLEVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHNVSLIW 8319
+ + ++ ++ T +SCNN + TY K + + DLG I NA+H+ A VAK+ NV+ IW
Sbjct: 2674 SIMSAVNAGVDFTDESCNNLVPTYVKSDTIVAADLGVLIQNNAKHVQANVAKAANVACIW 2733
Query: 8320 NVKDYMSLSEQLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVSTCFKLM 8499
+V + LS L+ ++R A K + +LT V ++TT SLKGG + S + +
Sbjct: 2734 SVDAFNQLSADLQHRLRKACSKTGLKIKLTYNKQEANVPILTTPFSLKGGAVFSKVLQWL 2793

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Query: 8500 LKATXXXXXXXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAG 8679
+ +MP + + D +K I +GV RD+ TD CFANK
Sbjct: 2794 FVVNLICFIVL---WALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVTVTDACFANKFIQ 2850
Query: 8680 FDAWFSQRGGS--YKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSA 8853
FD W+ G Y+N ++CPVV A+I ++IG+ + +P VLR LHF+ F+
Sbjct: 2851 FDQWYESTFGLVYYRNSRACPVVVAVIDQDIGYTLFNVPTKVLR-YGFHVLHFITHAFAT 2909
Query: 8854 VGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPD 9033
CYTP I Y +F S CVL++ CT+ A G P PYCY ++ + Y L P
Sbjct: 2910 DSVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTEGIMHNASLYDSLAPH 2969
Query: 9034 TRYVLMDGS-IIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEH 9210
RY L + + I+FP EG VR+V T YCR G CE +E G+C + + WVLNN +
Sbjct: 2970 VRYNLANSNGYIRFPEVVSEGIVRIVRTRSMTYCRVGLCEDAEEGVCFNFNSSWVLNNPY 3029
Query: 9211 YRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRV 9390
YRA+ G FCG +A +LI + LV+P+ ++AS VAG I+AI+V A YY +K +R
Sbjct: 3030 YRAMPGTFCGRNAFDLIHQVLGGLVRPIDFFALTASSVAGAILAIIVVLAFYYLIKLKRA 3089
Query: 9391 FGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFA 9570
FG+Y VV N +++ ++F +L + Y L +Y+ FY Y T YF +++S + HLQW
Sbjct: 3090 FGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMHLQWLV 3149
Query: 9571 MFSPIVPFWITAIYVFCISLKHCHWFFNNYLRK---RVMFNGVTFSTFEEAALCTFLLNK 9741
M+ I+P W IYV + H W F+ Y RK V +G TFEE +L TF++ K
Sbjct: 3150 MYGAIMPLWFCIIYVAVVVSNHALWLFS-YCRKLGTEVRSDG----TFEEMSLTTFMITK 3204
Query: 9742 EMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFS-NSGA 9918
E Y KL++ + +NRYL+LYNKY+YFSG +DT +YREAAC LAKA+ F+ N+G
Sbjct: 3205 ESYCKLKNS--VSDVAFNRYLSLYNKYRYFSGKMDTAAYREAACSQLAKAMETFNHNNGN 3262
Query: 9919 DVLYQPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVI 10098
DVLYQPP S+T++ LQSG KM FP+ KVE C+V VT G TLNGLWLDD VYCPRHVI
Sbjct: 3263 DVLYQPPTASVTTSFLQSGIVKMVFPTSKVEPCVVSVTYGNMTLNGLWLDDKVYCPRHVI 3322
Query: 10099 CTAEDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKF 10278
C++ DM +P+Y +LL R + F V +G + L V+ + MQ LL L V NP TPKY F
Sbjct: 3323 CSSADMTDPDYSNLLCRVISSDFCVMSGRMSLTVMSYQMQGSLLVLTVTLQNPNTPKYSF 3382
Query: 10279 VRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMH 10458
++PG+TF+VLA YNG G + MR ++TIKGSFL GSCGSVG+ + D V F YMH
Sbjct: 3383 GVVKPGETFTVLAAYNGKSQGAFHVTMRSSYTIKGSFLCGSCGSVGYVLTGDSVRFVYMH 3442
Query: 10459 HMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRF 10638
+EL TG H GTD G FYGP+ D Q Q D T T+NV+AWLYAA++N WF+
Sbjct: 3443 QLELSTGCHTGTDFSGNFYGPYRDAQVVQLPVQDYTQTVNVVAWLYAAILNRCNWFVQSD 3502
Query: 10639 TTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILG 10818
+ +L +FN+ AM + + D V L L++ TG+ V + AA+ L G G+ ILG
Sbjct: 3503 SCSLEEFNVWAMTNGFSSIKADLV--LDALASMTGVTVEQVLAAINRLYP-GFQGKQILG 3559
Query: 10819 STILEDEFTPFDVVRQCSGVTFQGKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFV 10998
S +LEDE TP DV +Q +GV Q K ++VKGT W+ +W++F +V
Sbjct: 3560 SCVLEDELTPSDVYQQLAGVKLQSKRTRVVKGTCCWILASTLLFCSIISAFVKWTMFMYV 3619
Query: 10999 YENAFLPFTLGIMAIAACAMLLVKHKHAFLCLFLLPSLATVAYFN-MVYMPASWVMRIMT 11175
+ L TL + + AMLLVKHKH +L +F++P L T+ Y N +V S+
Sbjct: 3620 TTH-MLGVTLCALCFVSFAMLLVKHKHLYLTMFIMPVLCTLFYTNYLVVYKQSFRGLAYA 3678

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Query: 11176 WLELADTSLSGYRLKDCVMYASA-LVLLILMTARTVYDDAARRVWTLMNVITLVYKVYYG 11352
WL ++ Y D V+Y LV ++ +T R++ D ++ + +++LV Y+G
Sbjct: 3679 WLSHFVPAVD-YTYMDEVLYGVVLLVAMVFVTMRSINHDVFSVMFLVGRLVSLVSMWYFG 3737
Query: 11353 NALDQAISMWALVISVTSNYSGVVTTIMFLARA-IVFVCVEYYPLLFITGNTLQCIMLVX 11529
L++ + ++ + T + TT++ LA A ++ + L F ++ ++L
Sbjct: 3738 ANLEEEVLLFLTSLFGTYTW----TTMLSLATAKVIAKWLAVNVLYFTDVPQVKLVLLSY 3793
Query: 11530 XXXXXXXXXXXXXXXXXNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIK 11709
N FR+ LGVY+Y +S QE RYMN+ GL PP++S +A LN K
Sbjct: 3794 LCIGYVCCCYWGVLSLLNSIFRMPLGVYNYKISVQELRYMNANGLRPPRNSFEALVLNFK 3853
Query: 11710 LLGIGGKPCIKVATVQSKMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKD 11889
LLGIGG P I+V+ +QS+++DVKC KLW C LHN+IL D
Sbjct: 3854 LLGIGGVPVIEVSQIQSRLTDVKCVNVVLLNCLQHLHIASSSKLWQYCSTLHNEILATSD 3913
Query: 11890 TTEAFEKMXXXXXXXXXMQGAVD------INRLCEEMLDNRATLQAIASEFSSLPSXXXX 12051
+ AF+K+ AVD I + ++ + + LQA+ SEF ++ S
Sbjct: 3914 LSVAFDKLAQLLVVLFANPAAVDSKCLASIEEVSDDYVRDSTVLQALQSEFVNMASFVEY 3973
Query: 12052 XXXXXXXXXXXXNGDXXXXXXXXXXXX-XXXXXEFDRDAAMQRKLEKMADQAMTQMYKQA 12228
+G ++RD A+ RKLE+MAD A+T MYK+A
Sbjct: 3974 ELAKKNLDEAKASGSANQQQIKQLEKACNIAKSAYERDRAVARKLERMADLALTNMYKEA 4033
Query: 12229 RSEDKRAKVTSAMQTMLFTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPD 12408
R DK++KV SA+QTMLF+M+RK
GCVPLN IP T+ L ++VPD
Sbjct: 4034 RINDKKSKVVSALQTMLFSMIRKLDNQALNSILDNAVKGCVPLNAIPSLTSNTLTIIVPD 4093
Query: 12409 YGTYKNTCDGNTFTYASALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTALRAN-- 12582
+ D TYA +W IQ + DAD + QL+EI++ N+ WPL++ A R N
Sbjct: 4094 KQVFDQVVDNVYVTYAGNVWHIQSIQDADGAVKQLNEIDV----NITWPLVIAANRHNEV 4149
Query: 12583 SAVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWA 12762
S+V LQNNEL P LR +G+ T YYN + G+ V A+LSD LK+
Sbjct: 4150 SSVVLQNNELMPQKLRTQVVNSGSDMNCNTPTQ--CYYNTTGMGKIVYAILSDCDGLKYT 4207
Query: 12763 RFPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQA 12942
+ K DG + EL+PPC+F KG K+KYLYF+KG N L RG V+G+L++TVRLQA
Sbjct: 4208 KIVKEDG-NCVVLELDPPCKFSVQDVKGLKIKYLYFVKGCNTLARGWVVGTLSSTVRLQA 4266
Query: 12943 GNATEVPANSTVLSFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEA 13122
G ATE +NS +LS CAF+VDP K Y DY+ GG P+TNCVKMLC H GTG AIT+ PEA
Sbjct: 4267 GTATEYASNSAILSLCAFSVDPKKTYLDYIQQGGAPVTNCVKMLCDHAGTGMAITIKPEA 4326
Query: 13123 NMDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCG 13302
+Q+S+GGAS C+YCR ++HP+ G C L+GK+VQ+P DPV + L + VC VCG
Sbjct: 4327 TTNQDSYGGASVCIYCRSRVEHPDVDGLCKLRGKFVQVPLG-IKDPVSYVLTHDVCQVCG 4385
Query: 13303 MWKGYGCSCDQLREPLMQSADASTFLNGFAV 13395
W+ CSC QS D + FLNGF V
Sbjct: 4386 FWRDGSCSCVGTGSQ-FQSKD-TNFLNGFGV 4414
Score = 83.2 bits (204), Expect = 2e-13
Identities = 52/149 (34%), Positives = 76/149 (51%), Gaps = 2/149 (1%)
Frame = +1
Query: 3283 LTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKL 3462

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+T NV D++K + VIVN AN + HG GVAGA+ KA + KE+ D +K
Sbjct: 1267 ITPNVCFVKGDVIKVLRRVGAEVIVNPANGRMAHGAGVAGAIAKAAGKSFIKETADMVKN 1326
Query: 3463 NGPLTVGGSCLLSGHNLAKKCLHVVGPNL--NAGEDIQLLKAAYENFNSQDILLAPLLSA 3636
G VG +G NL K L++VGP+ + + L+ AY++ N D ++ L+SA
Sbjct: 1327 QGVCQVGECYESTGGNLCKTVLNIVGPDARGHGKQCYSFLERAYQHINKCDDVVTTLISA 1386
Query: 3637 GIFGAKPLQSLQVCVQTVRTQVYIAVNDK 3723
GIF SL + V V + N+K
Sbjct: 1387 GIFSVPTDVSLTYLIGVVTKNVILVSNNK 1415
Score = 70.9 bits (172), Expect = 1e-09
Identities = 95/388 (24%), Positives = 163/388 (42%), Gaps = 28/388 (7%)
Frame = +1
Query: 1954 ILDGISEQSLRLVDA-------MVYTSDLLTNSVIIMAYVTGGLVQQTSQWLSNLLGTT- 2109
+LDG+ +S L+ + MV S +T+ + MA + V+ ++++ + G
Sbjct: 576 LLDGLVPRSYYLIKSGQAFTSMMVNFSHEVTDMCMDMALLFMHDVKVATKYVKKVTGKLA 635
Query: 2110 -------VEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDIVKGQIQVASDNIKD 2268
V +R I EW + + W + L+ G+F + G I SD + +
Sbjct: 636 VRFKALGVAVVRKITEWFDLAVDTAASAA--GWLCYQ-LVNGLFAVANGGITFLSD-VPE 691
Query: 2269 CVKCFIDVVNKALEMCIDQVTIA---GAKLRSLNLGEVFIAQSKGLYRQCIRGKEQLQLL 2439
VK F+D ++ ID ++++ G + V +A K +Y + K +
Sbjct: 692 LVKNFVDKFKVFFKVLIDSMSVSVLSGLTVVKTASNRVCLAGCK-VYE--VVQKRLSAYV 748
Query: 2440 MPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGEL--EALETPVDSFTNGAIVGTPVCVNGL 2613
MP+ E T L G+ V+ + V + L + P SF +CV
Sbjct: 749 MPVGC-NEATCLVGEIEPAVVEDDVVDVVKAPLTYQGCCKPPTSFEK-------ICVVDK 800
Query: 2614 MLLEIKDKEQYCAL----SPGLLATNNVFRLKGGAPIKGVTFGEDT-VWEVQGYKNVRIT 2778
+ + + Y + + G+L F G K V F + V E+ + ++I
Sbjct: 801 LYMAKCGDQFYPVVVDNDTIGVLDQCWRFPCAG----KKVEFNDKPKVKEIPSTRKIKIN 856
Query: 2779 FELDERVDKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSD---LLTNMGIDLDE 2949
F LD D VL++ CS + V+ + E VV +AV TL P + + T + L+
Sbjct: 857 FALDATFDSVLSKACSEFEVDKDVTLDELLDVVLDAVESTLSPCKEHDVIGTKVCALLNR 916
Query: 2950 WSVATFYLFDDAGEENFSSRMYCSFYPP 3033
+ YLFD+ GEE + +MYCSF P
Sbjct: 917 LAEDYVYLFDEGGEEVIAPKMYCSFSAP 944
>gi|7769352|gb|AAF69341.1|AF208067_1
Length = 4467
RNA-directed RNA polymerase [murine hepatitis virus]
Score = 1713 bits (4436), Expect = 0.0
Identities = 1053/2916 (36%), Positives = 1515/2916 (51%), Gaps = 78/2916 (2%)
Frame = +1
Query: 4882 IKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTL 5061
+ V TVD N + V +G+ G + DG +VTK++ ++GK FF
Sbjct: 1608 VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIYKGKVFFQYSDLSEA 1667
Query: 5062 RSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLE 5241
A + DE L +Y + L K W G + K ++NNCY++ L LQ L

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Sbjct: 1668 DLVAVKDAFGFDEPQLLKYYTMLGMCK-WPVVVCGNYFAFKQSNNNCYINVACLMLQHLS 1726
Query: 5242 VKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRV 5421
+KF QEA+ R+G F +L+LA + E D + M +L+ A+L A
Sbjct: 1727 LKFPKWQWQEAWNEFRSGKPLRFVSLVLAKGSFKFNEPSDSIDFMRVVLREADLSGATCN 1786
Query: 5422 LNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 5601
L VCK CG K GV+AVM+ GTL +L G +I C CG + Q F++
Sbjct: 1787 LEFVCK-CGVKQEQRKGVDAVMHFGTLDKGDLVRGYNIACTCGSKLV-HCTQFNVPFLIC 1844
Query: 5602 SAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVF 5781
S P KL + AN +TG GHYTH+ K D ++ K+SE KG TD
Sbjct: 1845 SNTPEGRKLPDDV-VAANIFTGG-SVGHYTHVKCKPKYQLYDACNVNKVSEAKGNFTDCL 1902
Query: 5782 Y-KETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDL-VPTQPLPNASF 5955
Y K T + ++ LD V E +P L YY + YYT+ I T + +
Sbjct: 1903 YLKNLKQTFSSVLTTFYLDDVKCVEYKPDLSQYYCESGKYYTKPIIKAQFRTFEKVDGVY 1962
Query: 5956 DNFKLTCSNTKFADDLNQMTGFT-KPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAK 6132
NFKL A+ LN GF E +T +P GDVV Y + + G
Sbjct: 1963 TNFKLV--GHSIAEKLNAKLGFDCNSPFVEYKITEWPTATGDVVLASDDLYVSRYSSGCI 2020
Query: 6133 LLHKPIVW--HINQATTKTTF--KPNTWCLRCLWSTKPVDTSNSFE------VLAVEDTQ 6282
KP+VW H + T+ +P+ C ++ PVD S + + V
Sbjct: 2021 TFGKPVVWLGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDKGPVPAAVLVTGVP 2079
Query: 6283 GMD----------NLACESQQPTSE---EVVENPTIQ----KEVIECDVKT-TEVVGNVI 6408
G D AC S + EV + P++ KEV VK +V G+V+
Sbjct: 2080 GADASAGAGIAKEQKACASASVEDQVVTEVRQEPSVSAADVKEVKLNGVKKPVKVEGSVV 2139
Query: 6409 LKPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAINSVPWS 6588
+ KV + L D+ ++ + NELS + T+ + V W
Sbjct: 2140 VNDPTSETKVVKSLSIVDVYDMFLTGCKYVVWTANELSRLVNSPTVREY-------VKWG 2192
Query: 6589 --KILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFTKSTNSRIRASL 6762
KI+ K L + K + + Y + LL+ +T++++ +
Sbjct: 2193 MGKIVTPAKLLLLRDEKQEFVAPKVVKAKAIACYCAVKWFLLYCFSWIKFNTDNKVIYT- 2251
Query: 6763 PTTIAKNSVKSVAKLCLDAGINYVKSPKFSKL----FTIA----MWXXXXXXXXXXXXXV 6918
T +A K KLC A N +++ +S + F +A +W
Sbjct: 2252 -TEVAS---KLTFKLCCLAFKNALQTFNWSVVSRGFFLVATVFLLWFNFLYANVILSDFY 2307
Query: 6919 TAAFGVL-----------LSNFGAPSYCN--GVRELYLNSSNVTTMDFCEGSFPCSICLS 7059
G L + FG + C+ V +L SS FC GS C +C S
Sbjct: 2308 LPNIGPLPTFVGQIVAWFKTTFGVSTICDFYQVTDLGYRSS------FCNGSMVCELCFS 2361
Query: 7060 GLDSLDSYPALETIQVTISS-YKLD-LTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFF 7233
G D LD+Y A+ +Q + D +++ L E V+ Y L+T FY L + MQ+
Sbjct: 2362 GFDMLDNYDAINVVQHVVDRRLSFDYISLFKLVVELVIGYSLYTVCFYPLFVLIGMQLLT 2421
Query: 7234 GYFASHFISNS--WLMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTC 7407
+ F+ + W + + M P ++R YI + Y ++ H+M GC+ C
Sbjct: 2422 TWLPEFFMLETMHWSARLFVFVANMLPAFTLLRFYIVVTAMYKVYCLCRHVMYGCSKPGC 2481
Query: 7408 MMCYKRNRATRVECTTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEV 7587
+ CYKRNR+ RV+C+T+V G R + V ANGG GFC H WNCLNC+++ G+TFI+ E
Sbjct: 2482 LFCYKRNRSVRVKCSTVVGGSLRYYDVMANGGTGFCTKHQWNCLNCNSWKPGNTFITHEA 2541
Query: 7588 ARDLSLQFKRPINPTDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRA 7767
A DLS + KRP+NPTD + Y V V ++ L++++ GQ+ Y+ S FV+++ L

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Sbjct: 2542 AADLSKELKRPVNPTDSAYYSVTEVKQVGCSMRLFYERDGQRVYDDVNASLFVDMNGLLH 2601
Query: 7768 NNTKGSLPINVIVFDGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVK 7947
+ KG +V+V + ++ D++ A+V+Y+Q + +P+L++++ L++ VS
Sbjct: 2602 SKVKGVPETHVVVVENEA--DKAGFLGAAVFYAQSLYRPMLMVEKKLITTANTGLSVSRT 2659
Query: 7948 MFDAYVDTFSATFSVPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXX 8127
MFD YVD+ V + L + V AH+ L +GV L+ V+ TF+ AR+
Sbjct: 2660 MFDLYVDSLLNVLDVDRKSLTSFVNAAHNSLKEGVQLEQVMDTFIGCARRKCAIDSDVET 2719
Query: 8128 XXIECLKLSH-HSDLEVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHN 8304
I +S ++ ++ T +SCNN + TY K + + DLG I NA+H+ A VAK+ N
Sbjct: 2720 KSITKSVMSAVNAGVDFTDESCNNLVPTYVKSDTIVAADLGVLIQNNAKHVQANVAKAAN 2779
Query: 8305 VSLIWNVKDYMSLSEQLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVST 8484
V+ IW+V + LS L+ ++R A K + +LT V ++TT SLKGG + S
Sbjct: 2780 VACIWSVDAFNQLSADLQHRLRKACSKTGLKIKLTYNKQEANVPILTTPFSLKGGAVFSR 2839
Query: 8485 CFKLMLKATXXXXXXXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFA 8664
+ + A + +MP + + D +K I +GV RD+ TD CFA
Sbjct: 2840 MLQWLFVANLICFIVL---WALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVSVTDACFA 2896
Query: 8665 NKHAGFDAWFSQRGGS--YKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLP 8838
NK FD W+ G Y+N K+CPVV A+I ++IG + +P TVLR LHF+
Sbjct: 2897 NKFNQFDQWYESTFGLAYYRNSKACPVVVAVIDQDIGHTLFNVPTTVLR-YGFHVLHFIT 2955
Query: 8839 RVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYS 9018
F+ CYTP I Y +F S CVL++ CT+ A G P PYCY ++ + YS
Sbjct: 2956 HAFATDSVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTGGVMHNASLYS 3015
Query: 9019 ELRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWV 9195
L P RY L + I+FP EG VRVV T YCR G CE +E GIC + + WV
Sbjct: 3016 SLAPHVRYNLASSNGYIRFPEVVSEGIVRVVRTRSMTYCRVGLCEEAEEGICFNFNRSWV 3075
Query: 9196 LNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFM 9375
LNN +YRA+ G FCG +A +LI + LV+P+ ++AS VAG I+AI+V A YY +
Sbjct: 3076 LNNPYYRAMPGTFCGRNAFDLIHQVLGGLVRPIDFFALTASSVAGAILAIIVVLAFYYLI 3135
Query: 9376 KFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAH 9555
K +R FG+Y VV N +++ ++F +L + Y L +Y+ FY Y T YF +++S + H
Sbjct: 3136 KLKRAFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMH 3195
Query: 9556 LQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRK---RVMFNGVTFSTFEEAALCT 9726
LQW M+ I+P W IYV + H W F+ Y RK V +G TFEE AL T
Sbjct: 3196 LQWLVMYGAIMPLWFCIIYVAVVVSNHALWLFS-YCRKIGTEVRSDG----TFEEMALTT 3250
Query: 9727 FLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFS 9906
F++ KE Y KL++ + +NRYL+LYNKY+YFSG +DT +YREAAC LAKA+ F+
Sbjct: 3251 FMITKESYCKLKNS--VSDVAFNRYLSLYNKYRYFSGKMDTAAYREAACSQLAKAMETFN 3308
Query: 9907 -NSGADVLYQPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYC 10083
N+G DVLYQPP S+T++ LQSG KM P+ KVE C+V VT G TLNGLWLDD VYC
Sbjct: 3309 HNNGNDVLYQPPTASVTTSFLQSGIVKMVSPTSKVEPCIVSVTYGNMTLNGLWLDDKVYC 3368
Query: 10084 PRHVICTAEDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKT 10263
PRHVIC++ DM +P+Y +LL R ++ F V +G + L V+ + MQ C L L V NP T
Sbjct: 3369 PRHVICSSADMTDPDYPNLLCRVTSSDFCVMSGRMSLTVMSYQMQGCQLVLTVTLQNPNT 3428
Query: 10264 PKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVS 10443
PKY F ++PG+TF+VLA YNG P G + +R +HTIKGSFL GSCGSVG+ + D V

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Sbjct: 3429 PKYSFGVVKPGETFTVLAAYNGRPQGAFHVTLRSSHTIKGSFLCGSCGSVGYVLTGDSVR 3488
Query: 10444 FCYMHHMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRW 10623
F YMH +EL TG H GTD G FYGP+ D Q Q D T T+NV+AWLYAA+ N W
Sbjct: 3489 FVYMHQLELSTGCHTGTDFSGNFYGPYRDAQVVQLPVQDYTQTVNVVAWLYAAIFNRCNW 3548
Query: 10624 FLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNG 10803
F+ + +L +FN+ AM + + D V L L++ TG+ V + AA+K L +G G
Sbjct: 3549 FVQSDSCSLEEFNVWAMTNGFSSIKADLV--LDALASMTGVTVEQVLAAIKR-LHSGFQG 3605
Query: 10804 RTILGSTILEDEFTPFDVVRQCSGVTFQGKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWS 10983
+ ILGS +LEDE TP DV +Q +GV Q K +++KGT W+ +W+
Sbjct: 3606 KQILGSCVLEDELTPSDVYQQLAGVKLQSKRTRVIKGTCCWILASTFLFCSIISAFVKWT 3665
Query: 10984 LFFFVYENAFLPFTLGIMAIAACAMLLVKHKHAFLCLFLLPSLATVAYFN-MVYMPASWV 11160
+F +V + L TL + + AMLL+KHKH +L ++++P L T+ Y N +V S+
Sbjct: 3666 MFMYVTTH-MLGVTLCALCFVSFAMLLIKHKHLYLTMYIMPVLCTLFYTNYLVVYKQSFR 3724
Query: 11161 MRIMTWLELADTSLSGYRLKDCVMYASA-LVLLILMTARTVYDDAARRVWTLMNVITLVY 11337
WL ++ Y D V+Y LV ++ +T R++ D ++ + +++LV
Sbjct: 3725 GLAYAWLSHFVPAVD-YTYMDEVLYGVVLLVAMVFVTMRSINHDVFSIMFLVGRLVSLVS 3783
Query: 11338 KVYYGNALDQAISMWALVISVTSNYSGVVTTIMFLARA-IVFVCVEYYPLLFITGNTLQC 11514
Y+G L++ + ++ + T + TT++ LA A ++ + L F ++
Sbjct: 3784 MWYFGANLEEEVLLFLTSLFGTYTW----TTMLSLATAKVIAKWLAVNVLYFTDVPQIKL 3839
Query: 11515 IMLVXXXXXXXXXXXXXXXXXXNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAF 11694
++L N FR+ GVY+Y +S QE RYMN+ GL PP++S +A
Sbjct: 3840 VLLSYLCIGYVCCCYWGILSLLNSIFRMPFGVYNYKISVQELRYMNANGLRPPRNSFEAL 3899
Query: 11695 KLNIKLLGIGGKPCIKVATVQSKMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDI 11874
LN KLLGIGG P I+V+ +QS+++DVKC
KLW C LHN+I
Sbjct: 3900 MLNFKLLGIGGVPVIEVSQIQSRLTDVKCANVVLLNCLQHLHIASNSKLWQYCSTLHNEI 3959
Query: 11875 LLAKDTTEAFEKMXXXXXXXXXMQGAVD------INRLCEEMLDNRATLQAIASEFSSLP 12036
L D + AF+K+ AVD I + ++ + + LQA+ SEF ++
Sbjct: 3960 LATSDLSVAFDKLAQLLVVLFANPAAVDSKCLASIEEVSDDYVRDNTVLQALQSEFVNMA 4019
Query: 12037 SXXXXXXXXXXXXXXXXNGDXXXXXXXXXXXX-XXXXXEFDRDAAMQRKLEKMADQAMTQ 12213
S +G ++RD A+ RKLE+MAD A+T
Sbjct: 4020 SFVEYELAKKNLDEAKASGSANQQQIKQLEKACNIAKSAYERDRAVARKLERMADLALTN 4079
Query: 12214 MYKQARSEDKRAKVTSAMQTMLFTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLM 12393
MYK+AR DK++KV SA+QTMLF+M+RK
GCVPLN IP T+ L
Sbjct: 4080 MYKEARINDKKSKVVSALQTMLFSMVRKLDNQALNSILDNAVKGCVPLNAIPSLTSNTLT 4139
Query: 12394 VVVPDYGTYKNTCDGNTFTYASALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTAL 12573
++VPD + D TYA +W IQ + DAD + QL+EI++ N WPL++ A
Sbjct: 4140 IIVPDKQVFDQVVDNVYVTYAGNVWHIQFIQDADGAVKQLNEIDV----NSTWPLVIAAN 4195
Query: 12574 RAN--SAVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQ 12747
R N S V LQNNEL P LR +G+ T YYN + G+ V A+LSD
Sbjct: 4196 RHNEVSTVVLQNNELMPQKLRTQVVNSGSDMNCNTPTQ--CYYNTTGTGKIVYAILSDCD 4253
Query: 12748 DLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAAT 12927
LK+ + K DG + EL+PPC+F KG K+KYLYF+KG N L RG V+G+L++T
Sbjct: 4254 GLKYTKIVKEDG-NCVVLELDPPCKFSVQDVKGLKIKYLYFVKGCNTLARGWVVGTLSST 4312
Query: 12928 VRLQAGNATEVPANSTVLSFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAIT 13107
VRLQAG ATE NS +LS CAF+VDP K Y DY+ GG P+TNCVKMLC H GTG AIT

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Sbjct: 4313 VRLQAGTATEYACNSAILSLCAFSVDPKKTYLDYIKQGGVPVTNCVKMLCDHAGTGMAIT 4372
Query: 13108 VTPEANMDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTV 13287
+ PEA +Q+S+GGAS C+YCR ++HP+ G C L+GK+VQ+P DPV + L + V
Sbjct: 4373 IKPEATTNQDSYGGASVCIYCRSRVEHPDVDGLCKLRGKFVQVPLG-IKDPVSYVLTHDV 4431
Query: 13288 CTVCGMWKGYGCSCDQLREPLMQSADASTFLNGFAV 13395
C VCG W+ CSC QS D + FLNGF V
Sbjct: 4432 CQVCGFWRDGSCSCVGTGSQ-FQSKD-TNFLNGFGV 4465
Score = 84.7 bits (208), Expect = 8e-14
Identities = 52/149 (34%), Positives = 77/149 (51%), Gaps = 2/149 (1%)
Frame = +1
Query: 3283 LTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKL 3462
+T NV D++K + N VIVN AN + HG GVAGA+ + A KE+ D +K
Sbjct: 1317 ITPNVCFVKGDVIKVVRLVNAEVIVNPANGRMAHGAGVAGAIAEKAGSAFIKETSDMVKA 1376
Query: 3463 NGPLTVGGSCLLSGHNLAKKCLHVVGPNL--NAGEDIQLLKAAYENFNSQDILLAPLLSA 3636
G VG +G L KK L++VGP+ + + LL+ AY++ N D ++ L+SA
Sbjct: 1377 QGVCQVGECYESAGGKLCKKVLNIVGPDARGHGKQCYSLLERAYQHINKCDNVVTTLISA 1436
Query: 3637 GIFGAKPLQSLQVCVQTVRTQVYIAVNDK 3723
GIF SL + V V + N++
Sbjct: 1437 GIFSVPTDVSLTYLLGVVTKNVILVSNNQ 1465
Score = 73.6 bits (179), Expect = 2e-10
Identities = 98/389 (25%), Positives = 165/389 (42%), Gaps = 29/389 (7%)
Frame = +1
Query: 1954 ILDGISEQSLRLVDA-------MVYTSDLLTNSVIIMAYVTGGLVQQTSQWLSNLLGTT- 2109
+LDG+ +S L+ + MV S +T+ + MA + V+ ++++ + G
Sbjct: 573 LLDGLVPRSYYLIKSGQAFTSMMVNFSHEVTDMCMDMALLFMHDVKVATKYVKKVTGKLA 632
Query: 2110 -------VEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDIVKGQIQVASDNIKD 2268
V +R I EW + L+ + W + L+ G+F + G I + + +
Sbjct: 633 VRFKAWGVAVVRKITEWFD--LAVDIAASAAGWLCYQ-LVNGLFAVANGVITFVQE-VPE 688
Query: 2269 CVKCFIDVVNKALEMCIDQVTIA---GAKLRSLNLGEVFIAQSKGLYRQCIRGKEQLQLL 2439
VK F+D ++ ID ++++ G + V +A SK +Y + K +
Sbjct: 689 LVKNFVDKFKAFFKVLIDSMSVSILSGLTVVKTASNRVCLAGSK-VYE--VVQKSLSAYV 745
Query: 2440 MPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGEL--EALETPVDSFTNGAIVGTPVCVNGL 2613
MP+ E T L G+ V + V + L + P SF IV
Sbjct: 746 MPVGC-SEATCLVGEIEPAVFEDDVVDVVKAPLTYQGCCKPPTSFEKICIVDK------- 797
Query: 2614 MLLEIKDKEQYCAL-----SPGLLATNNVFRLKGGAPIKGVTFGEDT-VWEVQGYKNVRI 2775
L K +Q+ + + G+L F G K V F + V ++ + ++I
Sbjct: 798 -LYMAKCGDQFYPVVVDNDTVGVLDQCWRFPCAG----KKVEFNDKPKVRKIPSTRKIKI 852
Query: 2776 TFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSD---LLTNMGIDLD 2946
TF LD D VL++ CS + V+ + E VV +AV TL P + + T + LD
Sbjct: 853 TFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLDAVESTLSPCKEHDVIGTKVCALLD 912
Query: 2947 EWSVATFYLFDDAGEENFSSRMYCSFYPP 3033
+ YLFD+ G+E + RMYCSF P

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Sbjct: 913 RLAGDYVYLFDEGGDEVIAPRMYCSFSAP 941
>gi|266958|sp|P19751|RRPA_CVMJH RNA-DIRECTED RNA POLYMERASE (ORF1A)
gi|67121|pir||RRIHM2 genome polyprotein 1a - murine hepatitis virus (strain JHM)
gi|331852|gb|AAA46457.1| open reading frame 1a [murine hepatitis virus]
Length = 4488
Score = 1671 bits (4327), Expect = 0.0
Identities = 1033/2919 (35%), Positives = 1499/2919 (51%), Gaps = 81/2919 (2%)
Frame = +1
Query: 4882 IKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTL 5061
+ V TVD N + V +G+ G + DG +VTK++ H+GK FF
Sbjct: 1627 VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIHKGKVFFQYSGLSAA 1686
Query: 5062 RSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLE 5241
A + DE L +Y S L K W G + K ++NNCY++ L LQ L
Sbjct: 1687 DLAAVKDAFGFDEPQLLQYYSMLGMCK-WPVVVCGNYFAFKQSNNNCYINVACLMLQHLS 1745
Query: 5242 VKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRV 5421
+KF + R+G F +L+LA + E D + + L+ A+L A
Sbjct: 1746 LKFPKWQWRRPGNEFRSGKPLRFVSLVLAKGSFKFNEPSDSTDFIRVELREADLSGATCD 1805
Query: 5422 LNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 5601
L +CK CG K GV+AVM+ GTL L G +I C CG D + Q F++
Sbjct: 1806 LEFICK-CGVKQEQRKGVDAVMHFGTLDKSGLVKGYNIACTCG-DKLVHCTQFNVPFLIC 1863
Query: 5602 SAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVF 5781
S P KL + AN +TG GHYTH+ K D +++K+SE KG TD
Sbjct: 1864 SNTPEGKKLPDDV-VAANIFTGG-SVGHYTHVKCKPKYQLYDACNVSKVSEAKGNFTDCL 1921
Query: 5782 Y-KETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDL-VPTQPLPNASF 5955
Y K T + +Y LD V +P L YY + YYT+ I T +
Sbjct: 1922 YLKNLKQTFSSVLTTYYLDDVKCVAYKPDLSQYYCESGKYYTKPIIKAQFRTFEKVEGVY 1981
Query: 5956 DNFKLTCSNTKFADDLNQMTGFT-KPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAK 6132
NFKL + A+ LN GF E +T +P GDVV Y + + G
Sbjct: 1982 TNFKLVGHD--IAEKLNAKLGFDCNSPFMEYKITEWPTATGDVVLASDDLYVSRYSGGCV 2039
Query: 6133 LLHKPIVW--HINQATTKTTF--KPNTWCLRCLWSTKPVDTSNSFE-------------- 6258
KP++W H + T+ +P+ C ++ PVD S +
Sbjct: 2040 TFGKPVIWRGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDRGLCRLQSLLPVLR 2098
Query: 6259 -----VLAVEDTQGMDNLACESQQPTSEEVVENPTIQKEVIECDVKTTEVVGNVILKP-- 6417
+++E + AC S + V+E QK+ V EV N + KP
Sbjct: 2099 VVLASAISIEPGTAKEQKACASDSVEDQIVME---AQKKSSVTTVAVKEVKLNGVKKPVK 2155
Query: 6418 ---------SDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAI 6570
KV + L D+ ++ + NELS + T+ +
Sbjct: 2156 WNCSVVVNDPTSETKVVKSLSIVDVYDMFLTGCRYVVWTANELSRLINSPTVREY----- 2210
Query: 6571 NSVPW--SKILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFTKSTNS 6744
V W SK++ L + K + + Y + LL+ +T++
Sbjct: 2211 --VKWGMSKLIIPANLLLLRDEKQEFVAPKVVKAKAIACYGAVKWFLLYCFSWIKFNTDN 2268
Query: 6745 RIRASLPTTIAKNSVKSVAKLCLDAGINYVKSPKFSKL----FTIA----MWXXXXXXXX 6900
++ + T +A K KLC A N +++ +S + F +A +W
Sbjct: 2269 KVIYT--TEVAS---KLTFKLCCLAFKNALQTFNWSVVSRGFFLVATVFLLWFNFLYANV 2323

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Query: 6901 XXXXXVTAAFGVL-----------LSNFGAPSYCN--GVRELYLNSSNVTTMDFCEGSFP 7041
G L + FG + C+ V +L SS FC GS
Sbjct: 2324 ILSDFYLPNIGPLPMFVGQIVAWVKTTFGVLTICDFYQVTDLGYRSS------FCNGSMV 2377
Query: 7042 CSICLSGLDSLDSYPALETIQVTISS-YKLD-LTILGLAAEWVLAYMLFTKFFYLLGLSA 7215
C +C SG D LD+Y ++ +Q + D +++ L E V+ Y L+T FY L +
Sbjct: 2378 CELCFSGFDMLDNYESINVVQHVVDRRVSFDYISLFKLVVELVIGYSLYTVCFYPLFVLV 2437
Query: 7216 IMQVFFGYFASHFISNS--WLMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDG 7389
MQ+ + F+ + W + + M P ++R YI + Y ++ H+M G
Sbjct: 2438 GMQLLTTWLPEFFMLGTMHWSARLFVFVANMLPAFTLLRFYIVVTAMYKVYCLCRHVMYG 2497
Query: 7390 CTSSTCMMCYKRNRATRVECTTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGST 7569
C+ C+ CYKRNR+ RV+C+T+V G R + V ANGG GFC H WNCLNC+++ G+T
Sbjct: 2498 CSKPGCLFCYKRNRSVRVKCSTVVGGSLRYYDVMANGGTGFCTKHQWNCLNCNSWKPGNT 2557
Query: 7570 FISDEVARDLSLQFKRPINPTDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVN 7749
FI+ E A DLS + KRP+NPTD + Y V V ++ L++++ GQ+ Y+ S FV+
Sbjct: 2558 FITHEAAADLSKELKRPVNPTDSAYYSVIEVKQVGCSMRLFYERDGQRVYDDVSASLFVD 2617
Query: 7750 LDNLRANNTKGSLPINVIVFDGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDS 7929
++ L + KG +V+V + ++ D++ +A+V+Y+Q + +P+L++++ L++
Sbjct: 2618 MNGLLHSKVKGVPETHVVVVENEA--DKAGFLNAAVFYAQSLYRPMLMVEKKLITTANTG 2675
Query: 7930 TEVSVKMFDAYVDTFSATFSVPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXX 8109
VS MFD YV + V + L + V AH+ L +GV L+ V+ TFV AR+
Sbjct: 2676 LSVSRTMFDLYVYSLLRHLDVDRKSLTSFVNAAHNSLKEGVQLEQVMDTFVGCARRKCAI 2735
Query: 8110 XXXXXXXXI-ECLKLSHHSDLEVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQ 8286
I + + + ++ +EVT +SCNN + TY K + + DLG I NA+H+ +
Sbjct: 2736 DSDVETKSITKSVMAAVNAGVEVTDESCNNLVPTYVKSDTIVAADLGVLIQNNAKHVQSN 2795
Query: 8287 VAKSHNVSLIWNVKDYMSLSEQLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLKG 8466
VAK+ NV+ IW+V + LS L+ ++R A K + +LT V ++TT SLKG
Sbjct: 2796 VAKAANVACIWSVDAFNQLSADLQHRLRKACVKTGLKIKLTYNKQEANVPILTTPFSLKG 2855
Query: 8467 GKIVSTCFKLMLKATXXXXXXXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIIS 8646
G + S + + A + +MP + + D +K I +GV RD+
Sbjct: 2856 GAVFSRVLQWLFVANLICFIVL---WALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVSV 2912
Query: 8647 TDDCFANKHAGFDAWFSQRGGS--YKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGD 8820
TD CFANK FD W+ G Y+N K+CPVV A+I ++IG + +P VLR
Sbjct: 2913 TDACFANKFNQFDQWYESTFGLVYYRNSKACPVVVAVIDQDIGHTLFNVPTKVLR-YGFH 2971
Query: 8821 FLHFLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLE 9000
LHF+ F+ CYTP I Y +F S CVL++ CT+ A G P PYCY ++
Sbjct: 2972 VLHFITHAFATDRVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTEGVMH 3031
Query: 9001 GSISYSELRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLS 9177
+ YS L P RY L + I+FP EG VRVV T YCR G CE +E GIC +
Sbjct: 3032 NASLYSSLVPHVRYNLASSNGYIRFPEVVSEGIVRVVRTRSMTYCRVGLCEEAEEGICFN 3091
Query: 9178 TSGRWVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTC 9357
+ WVLNN +YRA+ G FCG +A +LI + LVQP+ ++AS VAG I+AI+V
Sbjct: 3092 FNSSWVLNNPYYRAMPGTFCGRNAFDLIHQVLGGLVQPIDFFALTASSVAGAILAIIVVL 3151
Query: 9358 AAYYFMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTND 9537
A YY +K +R FG+Y VV N +++ ++F +L + Y L +Y+ FY Y T YF ++
Sbjct: 3152 AFYYLIKLKRAFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSE 3211

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Query: 9538 VSFLAHLQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAA 9717
+S + HLQW M+ I+P W YV + H W F+ Y RK + + + TFEE A
Sbjct: 3212 ISVVMHLQWLVMYGAIMPLWFCITYVAVVVSNHALWLFS-YCRK-IGTDVRSDGTFEEMA 3269
Query: 9718 LCTFLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALN 9897
L TF++ KE Y KL++ + +NRYL+LYNKY+YFSG +DT +YREAAC LAKA+
Sbjct: 3270 LTTFMITKESYCKLKNS--VSDVAFNRYLSLYNKYRYFSGKMDTATYREAACSQLAKAME 3327
Query: 9898 DFSNSGADVLYQPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTV 10077
F N +++ T++ LQSG KM P+ KVE C+V VT G TLNGLWLDD V
Sbjct: 3328 TF-NHNMVMMFSISSLLCTTSFLQSGIVKMVSPTSKVEPCVVSVTYGNMTLNGLWLDDKV 3386
Query: 10078 YCPRHVICTAEDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNP 10257
YCPRHVIC++ DM +P+Y +LL R ++ F V + + L V+ + MQ LL L V NP
Sbjct: 3387 YCPRHVICSSADMTDPDYPNLLCRVTSSDFCVMSDRMSLTVMSYQMQGSLLVLTVTLQNP 3446
Query: 10258 KTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDC 10437
TPKY F ++PG+TF+VLA YNG P G + MR +HTIKGSFL GSCGSVG+ + D
Sbjct: 3447 NTPKYSFGVVKPGETFTVLAAYNGRPQGAFHVVMRSSHTIKGSFLCGSCGSVGYVLTGDS 3506
Query: 10438 VSFCYMHHMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGD 10617
V F YMH +EL TG H GTD G FYGP+ D Q Q D T T+NV+AWLYAA++N
Sbjct: 3507 VRFVYMHQLELSTGCHTGTDFSGNFYGPYRDAQVVQLPVQDYTQTVNVVAWLYAAILNRC 3566
Query: 10618 RWFLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGM 10797
WF+ + +L +FN+ AM + + D V L L++ TG+ V + AA+K L +G
Sbjct: 3567 NWFVQSDSCSLEEFNVWAMTNGFSSIKADLV--LDALASMTGVTVEQVLAAIKR-LHSGF 3623
Query: 10798 NGRTILGSTILEDEFTPFDVVRQCSGVTFQGKFKKIVKGTHHWMXXXXXXXXXXXVQSTQ 10977
G+ ILGS +LEDE TP DV +Q +GV Q K +++KGT W+ +
Sbjct: 3624 QGKQILGSCVLEDELTPSDVYQQLAGVKLQSKRTRVIKGTCCWILASTFLFCSIISAFVK 3683
Query: 10978 WSLFFFVYENAFLPFTLGIMAIAACAMLLVKHKHAFLCLFLLPSLATVAYFNMVYMPASW 11157
W++F +V + L TL + AMLL+KHKH +L ++++P L T+ Y N + +
Sbjct: 3684 WTMFMYVTTH-MLGVTLCALCFVIFAMLLIKHKHLYLTMYIMPVLCTLFYTNYLVVGYKQ 3742
Query: 11158 VMR--IMTWLELADTSLSGYRLKDCVMYASA-LVLLILMTARTVYDDAARRVWTLMNVIT 11328
R WL ++ Y D V+Y LV ++ +T R++ D ++ + +++
Sbjct: 3743 SFRGLAYAWLSYFVPAVD-YTYMDEVLYGVVLLVAMVFVTMRSINHDVFSTMFLVGRLVS 3801
Query: 11329 LVYKVYYGNALDQAISMWALVISVTSNYSGVVTTIMFLARAIVFVCVEYYPLLFITG-NT 11505
LV Y+G L++ + ++ + T + TT++ LA A V +L+ T
Sbjct: 3802 LVSMWYFGANLEEEVLLFLTSLFGTYTW----TTMLSLATAKVIAKWLAVNVLYFTDIPQ 3857
Query: 11506 LQCIMLVXXXXXXXXXXXXXXXXXXNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSI 11685
++ ++L N FR+ LGVY+Y +S QE RYMN+ GL PP++S
Sbjct: 3858 IKLVLLSYLCIGYVCCCYWGVLSLLNSIFRMPLGVYNYKISVQELRYMNANGLRPPRNSF 3917
Query: 11686 DAFKLNIKLLGIGGKPCIKVATVQSKMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLH 11865
+A LN KLLGIGG P I+V+ +QS+++DVKC KLW C LH
Sbjct: 3918 EALMLNFKLLGIGGVPVIEVSQIQSRLTDVKCANVVLLNCLQHLHIASNSKLWQYCSTLH 3977
Query: 11866 NDILLAKDTTEAFEKMXXXXXXXXXMQGAVD------INRLCEEMLDNRATLQAIASEFS 12027
N+IL D + AF+K+ AVD I + ++ + + LQA+ SEF
Sbjct: 3978 NEILATSDLSVAFDKLAQLLVVLFANPAAVDSKCLASIEEVSDDYVRDNTVLQALQSEFV 4037
Query: 12028 SLPSXXXXXXXXXXXXXXXXNGDXXXXXXXXXXXX-XXXXXEFDRDAAMQRKLEKMADQA 12204
++ S +G ++RD A+ RKLE+MAD A
Sbjct: 4038 NMASFVEYELAKKNLDEAKASGSANQQQIKQLEKACNIAKSAYERDRAVARKLERMADLA 4097

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Query: 12205 MTQMYKQARSEDKRAKVTSAMQTMLFTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAA 12384
+T MYK+AR DK++KV SA+QTMLF+M+RK GCVPLN IP T+
Sbjct: 4098 LTNMYKEARINDKKSKVVSALQTMLFSMVRKLDNQALNSILDNAVKGCVPLNAIPPLTSN 4157
Query: 12385 KLMVVVPDYGTYKNTCDGNTFTYASALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIV 12564
L ++VPD + D TYA +W IQ + DAD + QL+EI++ N WPL++
Sbjct: 4158 TLTIIVPDKQVFDQVVDNVYVTYAPNVWHIQSIQDADGAVKQLNEIDV----NSTWPLVI 4213
Query: 12565 TALRAN--SAVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLS 12738
+A R N S V LQNNEL P LR +G+ + YYN + G+ V A+LS
Sbjct: 4214 SANRHNEVSTVVLQNNELMPQKLRTQVVNSGSDMNC--NIPTQCYYNTTGTGKIVYAILS 4271
Query: 12739 DHQDLKWARFPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSL 12918
D LK+ + K DG + EL+PPC+F KG K+KYLYF+KG N L RG V+G+L
Sbjct: 4272 DCDGLKYTKIVKEDG-NCVVLELDPPCKFSVQDVKGLKIKYLYFVKGCNTLARGWVVGTL 4330
Query: 12919 AATVRLQAGNATEVPANSTVLSFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQ 13098
++TVRLQAG ATE +NS +LS CAF+VDP K Y DY+ GG P+TNCVKMLC H GTG
Sbjct: 4331 SSTVRLQAGTATEYASNSAILSLCAFSVDPKKTYLDYIQQGGVPVTNCVKMLCDHAGTGM 4390
Query: 13099 AITVTPEANMDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLR 13278
AIT+ PEA +Q+S+GGAS C+YCR ++HP+ G C L+GK+VQ+P DPV + L
Sbjct: 4391 AITIKPEATTNQDSYGGASVCIYCRSRVEHPDVDGLCKLRGKFVQVPLG-IKDPVSYVLT 4449
Query: 13279 NTVCTVCGMWKGYGCSCDQLREPLMQSADASTFLNGFAV 13395
+ VC VCG W+ CSC QS D + FLNGF V
Sbjct: 4450 HDVCQVCGFWRDGSCSCVGTGSQ-FQSKD-TNFLNGFGV 4486
Score = 87.4 bits (215), Expect = 1e-14
Identities = 54/149 (36%), Positives = 77/149 (51%), Gaps = 2/149 (1%)
Frame = +1
Query: 3283 LTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKL 3462
+T NV D++K + VIVN AN + HG GVAGA+ KA A E+ D +K
Sbjct: 1336 ITPNVCFVKGDVIKVLRRVGAEVIVNPANGRMAHGAGVAGAIAKAAGKAFINETADMVKA 1395
Query: 3463 NGPLTVGGSCLLSGHNLAKKCLHVVGPNL--NAGEDIQLLKAAYENFNSQDILLAPLLSA 3636
G VGG +G L KK L++VGP+ + E LL+ AY++ N D ++ L+SA
Sbjct: 1396 QGVCQVGGCYESTGGKLCKKVLNIVGPDARGHGNECYSLLERAYQHINKCDNVVTTLISA 1455
Query: 3637 GIFGAKPLQSLQVCVQTVRTQVYIAVNDK 3723
GIF SL + V V + N++
Sbjct: 1456 GIFSVPTDVSLTYLLGVVTKNVILVSNNQ 1484
Score = 41.6 bits (96), Expect = 0.80
Identities = 50/202 (24%), Positives = 82/202 (40%), Gaps = 3/202 (1%)
Frame = +1
Query: 4966 PTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSE-AFEYYHTLDESFLGRYMSALNHTK 5142
P ++ D+ K++ + E +T P+D T AF+ ++ S S H K
Sbjct: 1064 PDQVEAFDIEKVEDSILSELQTELNAPADKTYEDVLAFDAIYSETLSAFYAVPSDETHFK 1123
Query: 5143 KWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALI 5322
V G S NC+L S L+ +Q L ++F +Q+ + +AG F +
Sbjct: 1124 ------VCGFYSPAIERTNCWLRSTLIVMQSLPLEFKDLGMQKLWLSYKAGYDQCFVDKL 1177

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Query: 5323 LAYSNKTV--GELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMG 5496
+ + K++ + G V + L S K N C CG + L G++AV + G
Sbjct: 1178 VKSAPKSIILPQGGYVADFAYFFLSQC---SFKVHANWRCLKCGME-LKLQGLDAVFFYG 1233
Query: 5497 TLSYDNLKTGVSIPCVCGRDAT 5562
+ VS C CG T
Sbjct: 1234 DV--------VSHMCKCGNSMT 1247
>gi|29837496|ref|NP_828861.1|
Length = 639
putative counterpart <strong>of</strong> MHV p65 protein [SARS coronavirus]
Score = 1302 bits (3369), Expect = 0.0
Identities = 639/639 (100%), Positives = 639/639 (100%)
Frame = +1
Query: 787 GAVTRYVDNNFCGPDGYPLDCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIA 966
GAVTRYVDNNFCGPDGYPLDCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIA
Sbjct: 1 GAVTRYVDNNFCGPDGYPLDCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIA 60
Query: 967 WFTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGR 1146
WFTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGR
Sbjct: 61 WFTERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGR 120
Query: 1147 IRSVYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEHCGTENLVIEGPTTCGY 1326
IRSVYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEHCGTENLVIEGPTTCGY
Sbjct: 121 IRSVYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCEHCGTENLVIEGPTTCGY 180
Query: 1327 LPTNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNK 1506
LPTNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNK
Sbjct: 181 LPTNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNK 240
Query: 1507 RAYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILAS 1686
RAYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILAS
Sbjct: 241 RAYWVPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILAS 300
Query: 1687 FSASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVKGAWNIGQQRSVLTPLCGFPSQ 1866
FSASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVKGAWNIGQQRSVLTPLCGFPSQ
Sbjct: 301 FSASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVKGAWNIGQQRSVLTPLCGFPSQ 360
Query: 1867 AAGVIRSIFARTLDAANHSIPDLQRAAVTILDGISEQSLRLVDAMVYTSDLLTNSVIIMA 2046
AAGVIRSIFARTLDAANHSIPDLQRAAVTILDGISEQSLRLVDAMVYTSDLLTNSVIIMA
Sbjct: 361 AAGVIRSIFARTLDAANHSIPDLQRAAVTILDGISEQSLRLVDAMVYTSDLLTNSVIIMA 420
Query: 2047 YVTGGLVQQTSQWLSNLLGTTVEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDI 2226
YVTGGLVQQTSQWLSNLLGTTVEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDI
Sbjct: 421 YVTGGLVQQTSQWLSNLLGTTVEKLRPIFEWIEAKLSAGVEFLKDAWEILKFLITGVFDI 480
Query: 2227 VKGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQ 2406
VKGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQ
Sbjct: 481 VKGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKLRSLNLGEVFIAQSKGLYRQ 540
Query: 2407 CIRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIV 2586
CIRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIV
Sbjct: 541 CIRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVVLKNGELEALETPVDSFTNGAIV 600
Query: 2587 GTPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFRLKGG 2703
GTPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFRLKGG

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Sbjct: 601 GTPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFRLKGG 639
>gi|25121569|ref|NP_740616.1|
hepatitis virus]
Length = 928
coronavirus nsp9 (RdRp); RNA-dependent RNA polymerase [Mur
Score = 1286 bits (3327), Expect = 0.0
Identities = 615/928 (66%), Positives = 739/928 (79%), Gaps = 1/928 (0%)
Frame = +3
Query: 13371 NVFKRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGN 13547
N KRV G S ARL PC +G TDV RAFDI N AG + K NCCRFQ DE+GN
Sbjct: 5 NFLKRVRGTSVNARLVPCASGLDTDVQLRAFDICNANRAGIGLYYKVNCCRFQRVDEDGN 64
Query: 13548 LLDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTM 13727
LD +FVVKR + Y E+ Y L K+C VA H+FF F V+G VPHI R+ L+K+TM
Sbjct: 65 KLDKFFVVKRTNLEVYNKEKECYELTKECGVVAEHEFFTFDVEGSRVPHIVRKDLSKFTM 124
Query: 13728 ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ 13907
DL YALRHFD +C TLKEIL+TY C++ YF KKDWYDFVENPDI+ VY LG +
Sbjct: 125 LDLCYALRHFDRNDCSTLKEILLTYAECEESYFQKKDWYDFVENPDIINVYKKLGPIFNR 184
Query: 13908 SLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPI 14087
+LL T +F DA+ +AG+VGVLTLDNQDL G WYDFGDFV+ PGCGV + DSYYS +MP+
Sbjct: 185 ALLNTAKFADALVEAGLVGVLTLDNQDLYGQWYDFGDFVKTVPGCGVAVADSYYSYMMPM 244
Query: 14088 LTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDD 14267
LT+ AL +E ++ + +DL++YDFT+ +L LF +YFK+W TYHPN C DD
Sbjct: 245 LTMCHALDSELFVNGTYRE----FDLVQYDFTDFKLELFTKYFKHWSMTYHPNTCECEDD 300
Query: 14268 RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSS 14447
RCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELGVV N DV+ H
Sbjct: 301 RCIIHCANFNILFSMVLPKTCFGPLVRQIFVDGVPFVVSIGYHYKELGVVMNMDVDTHRY 360
Query: 14448 RLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAV 14627
RLS K+LL+YAADPA+H AS + LLD RT CFSVAA+T+ V FQTVKPGNFN+DFY+F +
Sbjct: 361 RLSLKDLLLYAADPALHVASASALLDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYEFIL 420
Query: 14628 SKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYD 14807
SKG KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV+KYF+ Y+
Sbjct: 421 SKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVNKYFEIYE 480
Query: 14808 GGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNL 14987
GGCI A QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNL
Sbjct: 481 GGCIPATQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNL 540
Query: 14988 KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT 15167
KYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG VVIGT+KFYGGW +ML+
Sbjct: 541 KYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRR 600
Query: 15168 VYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLS 15347
+ DV++P LMGWDYPKCDRAMPN+LRI++SLVLARKH++CC+ + RFYRLANECAQVLS
Sbjct: 601 LIKDVDSPVLMGWDYPKCDRAMPNILRIVSSLVLARKHDSCCSHTDRFYRLANECAQVLS 660
Query: 15348 EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ 15527
E+VMCGG YVKPGGTSSGDATTA+ANSVFNICQAV+ANV +L++ +G+KI D +R LQ
Sbjct: 661 EIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCSLMACNGHKIEDLSIRELQ 720

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Query: 15528 HRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKA 15707
RLY +YR VD FV E+Y +L KHFSMMILSDD VVCYNS +A++G +A+I F+
Sbjct: 721 KRLYSNVYRADHVDPAFVSEYYEFLNKHFSMMILSDDGVVCYNSEFASKGYIANISAFQQ 780
Query: 15708 VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFV 15887
VLYYQNNVFMSEAKCW ETD+ KGPHEFCSQHTMLVK D VYLPYPDPSRILGAGCFV
Sbjct: 781 VLYYQNNVFMSEAKCWVETDIEKGPHEFCSQHTMLVKMDGDEVYLPYPDPSRILGAGCFV 840
Query: 15888 DDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYS 16067
DD++KTD L+IERFVSLAIDAYPL H N EY +VF +YL+YI+KL+++L +LD YS
Sbjct: 841 DDLLKTDSVLLIERFVSLAIDAYPLVYHENPEYQNVFRVYLEYIKKLYNDLGNQILDSYS 900
Query: 16068 VMLTNDNTSRYWEPEFYEAMYTPHTVLQ 16151
V+L+ + ++ + FY+ MY VLQ
Sbjct: 901 VILSTCDGQKFTDETFYKNMYLRSAVLQ 928
>gi|26008090|ref|NP_742138.1|
coronavirus]
Length = 928
coronavirus nsp9 (RdRp); RNA-dependent RNA polymerase [Bov
Score = 1275 bits (3298), Expect = 0.0
Identities = 613/928 (66%), Positives = 729/928 (78%), Gaps = 1/928 (0%)
Frame = +3
Query: 13371 NVFKRVCGVSA-ARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQEKDEEGN 13547
N RV G S ARL PC +G STDV RAFDI N VAG LK NCCRFQ DE G+
Sbjct: 5 NFLNRVRGTSVDARLVPCASGLSTDVQLRAFDICNASVAGIGLHLKVNCCRFQRVDENGD 64
Query: 13548 LLDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTM 13727
LD +FVVKR ++ Y E Y VKDC VA HDFF F V+G VPHI R+ LTKYTM
Sbjct: 65 KLDQFFVVKRTDLTIYNREMECYERVKDCKFVAEHDFFTFDVEGSRVPHIVRKDLTKYTM 124
Query: 13728 ADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVENPDILRVYANLGERVRQ 13907
DL YALRHFD +C L +IL Y C+ YF KKDWYDFVENPDI+ VY LG +
Sbjct: 125 LDLCYALRHFDRNDCMLLCDILSIYAGCEQSYFTKKDWYDFVENPDIINVYKKLGPIFNR 184
Query: 13908 SLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPI 14087
+L+ +F D + + G+VG+LTLDNQDLNG WYDFGD+V APGCGV I DSYYS +MP+
Sbjct: 185 ALVSATEFADKLVEVGLVGILTLDNQDLNGKWYDFGDYVIAAPGCGVAIADSYYSYMMPM 244
Query: 14088 LTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDD 14267
LT+ AL E +++ +DL++YDFT+ +L LF++YFK+W YHPN ++C DD
Sbjct: 245 LTMCHALDCELYVN----NAYRLFDLVQYDFTDYKLELFNKYFKHWSMPYHPNTVDCQDD 300
Query: 14268 RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSS 14447
RCI+HCANFN+LFS V P T FGPLVR+IFVDGVPFVVS GYH++ELG+V N DV+ H
Sbjct: 301 RCIIHCANFNILFSMVLPNTCFGPLVRQIFVDGVPFVVSIGYHYKELGIVMNMDVDTHRY 360
Query: 14448 RLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAV 14627
RLS K+LL+YAADPA+H AS + L D RT CFSVAA+T+ V FQTVKPGNFN+DFYDF +
Sbjct: 361 RLSLKDLLLYAADPALHVASASALYDLRTCCFSVAAITSGVKFQTVKPGNFNQDFYDFIL 420
Query: 14628 SKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYD 14807
SKG KEGSSV+LKHFFF QDGNAAI+DY+YY+YNLPTM DI+QLLFV+EVV KYF+ YD
Sbjct: 421 SKGLLKEGSSVDLKHFFFTQDGNAAITDYNYYKYNLPTMVDIKQLLFVLEVVYKYFEIYD 480
Query: 14808 GGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNL 14987
GGCI A+QVIVNN DKSAG+PFNK+GKARLYY+++S+E+QD ++AYTKRNV+PT+TQMNL

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Sbjct: 481 GGCIPASQVIVNNYDKSAGYPFNKFGKARLYYEALSFEEQDEIYAYTKRNVLPTLTQMNL 540
Query: 14988 KYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT 15167
KYAISAKNRARTVAGVSI STMT R FHQK LKSIAATRG VVIGT+KFYGGW +ML+
Sbjct: 541 KYAISAKNRARTVAGVSILSTMTGRMFHQKCLKSIAATRGVPVVIGTTKFYGGWDDMLRR 600
Query: 15168 VYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLS 15347
+ DV+ P LMGWDYPKCDRAMPN+LRI++SLVLARKH CC+ S RFYRLANECAQVLS
Sbjct: 601 LIKDVDNPVLMGWDYPKCDRAMPNILRIVSSLVLARKHEACCSQSDRFYRLANECAQVLS 660
Query: 15348 EMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQ 15527
E+VMCGG YVKPGGTSSGDATTA+ANSVFNICQAV+ANV AL+S +GNKI D +R LQ
Sbjct: 661 EIVMCGGCYYVKPGGTSSGDATTAFANSVFNICQAVSANVCALMSCNGNKIEDLSIRALQ 720
Query: 15528 HRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKA 15707
RLY +YR+ VD FV E+Y +L KHFSMMILSDD VVCYNS+YA++G +A+I F+
Sbjct: 721 KRLYSHVYRSDMVDSTFVTEYYEFLNKHFSMMILSDDGVVCYNSDYASKGYIANISAFQQ 780
Query: 15708 VLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFV 15887
VLYYQNNVFMSE+KCW E D+ GPHEFCSQHTMLVK D VYLPYPDPSRILGAGCFV
Sbjct: 781 VLYYQNNVFMSESKCWVENDINNGPHEFCSQHTMLVKMDGDDVYLPYPDPSRILGAGCFV 840
Query: 15888 DDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYS 16067
DD++KTD L+IERFVSLAIDAYPL H N+EY VF +YL+YI+KL+++L +LD YS
Sbjct: 841 DDLLKTDSVLLIERFVSLAIDAYPLVYHENEEYQKVFRVYLEYIKKLYNDLGNQILDSYS 900
Query: 16068 VMLTNDNTSRYWEPEFYEAMYTPHTVLQ 16151
V+L+ + ++ + FY+ MY V+Q
Sbjct: 901 VILSTCDGQKFTDESFYKNMYLRSAVMQ 928
>gi|29837505|ref|NP_828870.1|
Length = 601
putative coronavirus nsp10 (MB, NTPase/HEL) [SARS coronavir
Score = 1232 bits (3188), Expect = 0.0
Identities = 601/601 (100%), Positives = 601/601 (100%)
Frame = +3
Query: 16152 AVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHVISTSHKLVLSVNPYVCNAPGCDVTDV 16331
AVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHVISTSHKLVLSVNPYVCNAPGCDVTDV
Sbjct: 1 AVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHVISTSHKLVLSVNPYVCNAPGCDVTDV 60
Query: 16332 TQLYLGGMSYYCKSHKPPISFPLCANGQVFGLYKNTCVGSDNVTDFNAIATCDWTNAGDY 16511
TQLYLGGMSYYCKSHKPPISFPLCANGQVFGLYKNTCVGSDNVTDFNAIATCDWTNAGDY
Sbjct: 61 TQLYLGGMSYYCKSHKPPISFPLCANGQVFGLYKNTCVGSDNVTDFNAIATCDWTNAGDY 120
Query: 16512 ILANTCTERLKLFAAETLKATEETFKLSYGIATVREVLSDRELHLSWEVGKPRPPLNRNY 16691
ILANTCTERLKLFAAETLKATEETFKLSYGIATVREVLSDRELHLSWEVGKPRPPLNRNY
Sbjct: 121 ILANTCTERLKLFAAETLKATEETFKLSYGIATVREVLSDRELHLSWEVGKPRPPLNRNY 180
Query: 16692 VFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRGTTTYKLNVGDYFVLTSHTVMPLSAPTL 16871
VFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRGTTTYKLNVGDYFVLTSHTVMPLSAPTL
Sbjct: 181 VFTGYRVTKNSKVQIGEYTFEKGDYGDAVVYRGTTTYKLNVGDYFVLTSHTVMPLSAPTL 240
Query: 16872 VPQEHYVRITGLYPTLNISDEFSSNVANYQKVGMQKYSTLQGPPGTGKSHFAIGLALYYP 17051
VPQEHYVRITGLYPTLNISDEFSSNVANYQKVGMQKYSTLQGPPGTGKSHFAIGLALYYP
Sbjct: 241 VPQEHYVRITGLYPTLNISDEFSSNVANYQKVGMQKYSTLQGPPGTGKSHFAIGLALYYP 300
Query: 17052 SARIVYTACSHAAVDALCEKALKYLPIDKCSRIIPARARVECFDKFKVNSTLEQYVFCTV 17231

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SARIVYTACSHAAVDALCEKALKYLPIDKCSRIIPARARVECFDKFKVNSTLEQYVFCTV
Sbjct: 301 SARIVYTACSHAAVDALCEKALKYLPIDKCSRIIPARARVECFDKFKVNSTLEQYVFCTV 360
Query: 17232 NALPETTADIVVFDEISMATNYDLSVVNARLRAKHYVYIGDPAQLPAPRTLLTKGTLEPE 17411
NALPETTADIVVFDEISMATNYDLSVVNARLRAKHYVYIGDPAQLPAPRTLLTKGTLEPE
Sbjct: 361 NALPETTADIVVFDEISMATNYDLSVVNARLRAKHYVYIGDPAQLPAPRTLLTKGTLEPE 420
Query: 17412 YFNSVCRLMKTIGPDMFLGTCRRCPAEIVDTVSALVYDNKLKAHKDKSAQCFKMFYKGVI 17591
YFNSVCRLMKTIGPDMFLGTCRRCPAEIVDTVSALVYDNKLKAHKDKSAQCFKMFYKGVI
Sbjct: 421 YFNSVCRLMKTIGPDMFLGTCRRCPAEIVDTVSALVYDNKLKAHKDKSAQCFKMFYKGVI 480
Query: 17592 THDVSSAINRPQIGVVREFLTRNPAWRKAVFISPYNSQNAVASKILGLPTQTVDSSQGSE 17771
THDVSSAINRPQIGVVREFLTRNPAWRKAVFISPYNSQNAVASKILGLPTQTVDSSQGSE
Sbjct: 481 THDVSSAINRPQIGVVREFLTRNPAWRKAVFISPYNSQNAVASKILGLPTQTVDSSQGSE 540
Query: 17772 YDYVIFTQTTETAHSCNVNRFNVAITRAKIGILCIMSDRDLYDKLQFTSLEIPRRNVATL 17951
YDYVIFTQTTETAHSCNVNRFNVAITRAKIGILCIMSDRDLYDKLQFTSLEIPRRNVATL
Sbjct: 541 YDYVIFTQTTETAHSCNVNRFNVAITRAKIGILCIMSDRDLYDKLQFTSLEIPRRNVATL 600
Query: 17952 Q 17954
Q
Sbjct: 601 Q 601
>gi|1418974|emb|CAA93448.1|
bronchitis virus]
Length = 998
potential chimaeric protein between gene 1a-1b [Avian infecti
Score = 1210 bits (3131), Expect = 0.0
Identities = 591/947 (62%), Positives = 720/947 (76%), Gaps = 8/947 (0%)
Frame = +3
Query: 13452 RAFDIYNEKVAGFAKFLKTNCCRFQE--KDEEGNL--LDSYFVVKRHTMSNYQHEETIYN 13619
RAFD+ N++ AG + LK NC RFQE E+GNL LDSYFVVK+ T SNY+HE++ Y
Sbjct: 47 RAFDVCNKESAGMFQNLKRNCARFQELRDTEDGNLEYLDSYFVVKQTTPSNYEHEKSCYE 106
Query: 13620 LVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVT 13799
+K A HDFF F + + +ISRQRLTKYTM D YALRHFD +C+ LKEILVT
Sbjct: 107 DLKS-EVTADHDFFVFNKN---IYNISRQRLTKYTMMDFCYALRHFDPKDCEVLKEILVT 162
Query: 13800 YNCCDDD----YFNKKDWYDFVENPDILRVYANLGERVRQSLLKTVQFCDAMRDAGIVGV 13967
Y C +D + KDWYD +EN + A +G VR++LL ++F + M + G VGV
Sbjct: 163 YGCIEDYHPKWFEENKDWYDPIENSKYYVMLAKMGPIVRRALLNAIEFGNLMVEKGYVGV 222
Query: 13968 LTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSYYSLLMPILTLTRALAAESHMDADLAKP 14147
+TLDNQDLNG +YDFGDF + APG GVP+ D+YYS +MPI+ +T ALA E + + D+ K
Sbjct: 223 ITLDNQDLNGKFYDFGDFQKTAPGAGVPVFDTYYSYMMPIIAMTDALAPERYFEYDVHKG 282
Query: 14148 LIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPNCINCLDDRCILHCANFNVLFSTVFPPT 14327
+DLLKYD+TEE+ LF +YFKYWDQ YHPNC +C DDRC++HCANFN+LFST+ P T
Sbjct: 283 YKSYDLLKYDYTEEKQELFQKYFKYWDQEYHPNCRDCSDDRCLIHCANFNILFSTLIPQT 342
Query: 14328 SFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSSRLSFKELLVYAADPAMHAAS 14507
SFG L RK+FVDGVPF+ + GYH +ELGV+ NQD + S++ +L+ + DPA+ +
Sbjct: 343 SFGNLCRKVFVDGVPFIATCGYHSKELGVIMNQDNTMSFSKMGLSQLMQFVGDPALLVGT 402
Query: 14508 GNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQ 14687
N L+D RT+CFSV ALT+ + QTVKPG+FNKDFYDFA G FKEGSS+ LKHFF+ Q
Sbjct: 403 SNNLVDLRTSCFSVCALTSGITHQTVKPGHFNKDFYDFAEKAGMFKEGSSIPLKHFFYPQ 462

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Query: 14688 DGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGF 14867
GNAAI+DYDYYRYN PTM DI QLLF +EV KYF+CY+GGCI A+QV+VNNLDKSAG+
Sbjct: 463 TGNAAINDYDYYRYNRPTMFDICQLLFCLEVTSKYFECYEGGCIPASQVVVNNLDKSAGY 522
Query: 14868 PFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICS 15047
PFNK+GKARLYY+ MS E+QD LF TK+NV+PTITQMNLKYAISAKNRARTVAGVSI S
Sbjct: 523 PFNKFGKARLYYE-MSLEEQDQLFEITKKNVLPTITQMNLKYAISAKNRARTVAGVSILS 581
Query: 15048 TMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKTVYSDVETPHLMGWDYPKCDR 15227
TMTNRQFHQK+LKSI TR A+VVIGT+KFYGGW NML+ + VE P LMGWDYPKCDR
Sbjct: 582 TMTNRQFHQKILKSIVNTRNASVVIGTTKFYGGWDNMLRNLIQGVEDPILMGWDYPKCDR 641
Query: 15228 AMPNMLRIMASLVLARKHNTCCNLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGD 15407
AMPN+LRI ASLVLARKH CC+ S R YRL NECAQVLSE V+ G +YVKPGGTSSGD
Sbjct: 642 AMPNLLRIAASLVLARKHTNCCSWSERIYRLYNECAQVLSETVLATGGIYVKPGGTSSGD 701
Query: 15408 ATTAYANSVFNICQAVTANVNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDHEFVDE 15587
ATTAYANSVFNI QA +ANV LLS I +++LQ+ LY+ +YR + D FV++
Sbjct: 702 ATTAYANSVFNIIQATSANVARLLSVITRDIVYDNIKSLQYELYQQVYRRVNFDPAFVEK 761
Query: 15588 FYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVASIKNFKAVLYYQNNVFMSEAKCWTETD 15767
FY+YL K+FS+MILSDD VVCYN+ A QGLVA I F+ VLYYQNNVFM+++KCW E D
Sbjct: 762 FYSYLCKNFSLMILSDDGVVCYNNTLAKQGLVADISGFREVLYYQNNVFMADSKCWVEPD 821
Query: 15768 LTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAI 15947
L KGPHEFCSQHTMLV+ + YLPYPDPSRILGA FVDD+ KT+ ++ER+++LAI
Sbjct: 822 LEKGPHEFCSQHTMLVEVDGEPKYLPYPDPSRILGACVFVDDVDKTEPVAVMERYIALAI 881
Query: 15948 DAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMYSVMLTNDNTSRYWEPEFYEAM 16127
DAYPL H N+EY VF + L YIRKL+ EL+ +ML YS ++ D S++WE EFYE M
Sbjct: 882 DAYPLVHHENEEYKKVFFVLLAYIRKLYQELSQNMLMDYSFVMDIDKGSKFWEQEFYENM 941
Query: 16128 YTPHTVLQAVGACVLCNSQTSLRCGACIRRPFLCCKCCYDHVISTSH 16268
Y T LQ+ G CV+CNSQT LRCG CIR+PFLCCKCCYDHV+ ++H
Sbjct: 942 YRAPTTLQSCGVCVVCNSQTILRCGNCIRKPFLCCKCCYDHVMHSTH 988
>gi|25121553|ref|NP_740629.1|
bronchitis virus]
Length = 940
coronavirus nsp9 (RdRp); RNA-dependent RNA polymerase [Avia
Score = 1160 bits (3002), Expect = 0.0
Identities = 576/935 (61%), Positives = 700/935 (74%), Gaps = 8/935 (0%)
Frame = +3
Query: 13371 NVFKRVCGVSAARLTPCGTGTSTDVVYRAFDIYNEKVAGFAKFLKTNCCRFQE--KDEEG 13544
N RV G S ARL P +G DVV RAFD+ N++ AG + LK NC RFQE E+G
Sbjct: 11 NYLNRVRGSSEARLIPLASGCDPDVVKRAFDVCNKESAGMFQNLKRNCARFQELRDTEDG 70
Query: 13545 NL--LDSYFVVKRHTMSNYQHEETIYNLVKDCPAVAVHDFFKFRVDGDMVPHISRQRLTK 13718
NL LDSYFVVK+ T SNY+HE++ Y +K A HDFF F + + +ISRQRLTK
Sbjct: 71 NLEYLDSYFVVKQTTPSNYEHEKSCYEDLKS-EVTADHDFFVFNKN---IYNISRQRLTK 126
Query: 13719 YTMADLVYALRHFDEGNCDTLKEILVTYNCCDDD----YFNKKDWYDFVENPDILRVYAN 13886
YTM D YALRHFD +C+ LKEILVTY C +D + KDWYD +EN + A
Sbjct: 127 YTMMDFCYALRHFDPKDCEVLKEILVTYGCIEDYHPKWFEENKDWYDPIENSKYYVMLAK 186
Query: 13887 LGERVRQSLLKTVQFCDAMRDAGIVGVLTLDNQDLNGNWYDFGDFVQVAPGCGVPIVDSY 14066

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+G VR++LL ++F + M + G VGV+TLDNQDLNG +YDFGDF + APG GVP+ D+Y
Sbjct: 187 MGPIVRRALLNAIEFGNLMVEKGYVGVITLDNQDLNGKFYDFGDFQKTAPGAGVPVFDTY 246
Query: 14067 YSLLMPILTLTRALAAESHMDADLAKPLIKWDLLKYDFTEERLCLFDRYFKYWDQTYHPN 14246
YS +MPI+ +T ALA E + + D+ K +DLLKYD+TEE+ LF +YFKYWDQ YHPN
Sbjct: 247 YSYMMPIIAMTDALAPERYFEYDVHKGYKSYDLLKYDYTEEKQELFQKYFKYWDQEYHPN 306
Query: 14247 CINCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQ 14426
C +C DDRC++HCANFN+LFST+ P TSFG L RK+FVDGVPF+ + GYH +ELGV+ NQ
Sbjct: 307 CRDCSDDRCLIHCANFNILFSTLIPQTSFGNLCRKVFVDGVPFIATCGYHSKELGVIMNQ 366
Query: 14427 DVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNK 14606
D + S++ +L+ + DPA+ + N L+D RT+CFSV ALT+ + QTVKPG+FNK
Sbjct: 367 DNTMSFSKMGLSQLMQFVGDPALLVGTSNNLVDLRTSCFSVCALTSGITHQTVKPGHFNK 426
Query: 14607 DFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVD 14786
DFYDFA G FKEGSS+ LKHFF+ Q GNAAI+DYDYYRYN PTM DI QLLF +EV
Sbjct: 427 DFYDFAEKAGMFKEGSSIPLKHFFYPQTGNAAINDYDYYRYNRPTMFDICQLLFCLEVTS 486
Query: 14787 KYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIP 14966
KYF+CY+GGCI A+QV+VNNLDKSAG+PFNK+GKARLYY+ MS E+QD LF TK+NV+P
Sbjct: 487 KYFECYEGGCIPASQVVVNNLDKSAGYPFNKFGKARLYYE-MSLEEQDQLFEITKKNVLP 545
Query: 14967 TITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGG 15146
TITQMNLKYAISAKNRARTVAGVSI STMTNRQFHQK+LKSI TR A+VVIGT+KFYGG
Sbjct: 546 TITQMNLKYAISAKNRARTVAGVSILSTMTNRQFHQKILKSIVNTRNASVVIGTTKFYGG 605
Query: 15147 WHNMLKTVYSDVETPHLMGWDYPKCDRAMPNMLRIMASLVLARKHNTCCNLSHRFYRLAN 15326
W NML+ + VE P LMGWDYPKCDRAMPN+LRI ASLVLARKH CC+ S R YRL N
Sbjct: 606 WDNMLRNLIQGVEDPILMGWDYPKCDRAMPNLLRIAASLVLARKHTNCCSWSERIYRLYN 665
Query: 15327 ECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALLSTDGNKIAD 15506
ECAQVLSE V+ G +YVKPGGTSSGDATTAYANSVFNI QA +ANV LLS I
Sbjct: 666 ECAQVLSETVLATGGIYVKPGGTSSGDATTAYANSVFNIIQATSANVARLLSVITRDIVY 725
Query: 15507 KYVRNLQHRLYECLYRNRDVDHEFVDEFYAYLRKHFSMMILSDDAVVCYNSNYAAQGLVA 15686
+++LQ+ LY+ +YR + D FV++FY+YL K+FS+MILSDD VVCYN+ A QGLVA
Sbjct: 726 DNIKSLQYELYQQVYRRVNFDPAFVEKFYSYLCKNFSLMILSDDGVVCYNNTLAKQGLVA 785
Query: 15687 SIKNFKAVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRI 15866
I F+ VLYYQNNVFM+++KCW E DL KGPHEFCSQHTMLV+ + YLPYPDPSRI
Sbjct: 786 DISGFREVLYYQNNVFMADSKCWVEPDLEKGPHEFCSQHTMLVEVDGEPKYLPYPDPSRI 845
Query: 15867 LGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTG 16046
LGA FVDD+ KT+ ++ER+++LAIDAYPL H N+EY VF + L YIRKL+ EL+
Sbjct: 846 LGACVFVDDVDKTEPVAVMERYIALAIDAYPLVHHENEEYKKVFFVLLAYIRKLYQELSQ 905
Query: 16047 HMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQ 16151
+ML YS ++ D S++WE EFYE MY T LQ
Sbjct: 906 NMLMDYSFVMDIDKGSKFWEQEFYENMYRAPTTLQ 940
>gi|29837506|ref|NP_828871.1|
Length = 527
putative coronavirus nsp11 [SARS coronavirus]
Score = 1122 bits (2903), Expect = 0.0
Identities = 527/527 (100%), Positives = 527/527 (100%)
Frame = +3

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Query: 17955 AENVTGLFKDCSKIITGLHPTQAPTHLSVDIKFKTEGLCVDIPGIPKDMTYRRLISMMGF 18134
AENVTGLFKDCSKIITGLHPTQAPTHLSVDIKFKTEGLCVDIPGIPKDMTYRRLISMMGF
Sbjct: 1 AENVTGLFKDCSKIITGLHPTQAPTHLSVDIKFKTEGLCVDIPGIPKDMTYRRLISMMGF 60
Query: 18135 KMNYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAV 18314
KMNYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAV
Sbjct: 61 KMNYQVNGYPNMFITREEAIRHVRAWIGFDVEGCHATRDAVGTNLPLQLGFSTGVNLVAV 120
Query: 18315 PTGYVDTENNTEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDR 18494
PTGYVDTENNTEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDR
Sbjct: 121 PTGYVDTENNTEFTRVNAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKGLSDR 180
Query: 18495 VVFVLWAHGFELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPF 18674
VVFVLWAHGFELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPF
Sbjct: 181 VVFVLWAHGFELTSMKYFVKIGPERTCCLCDKRATCFSTSSDTYACWNHSVGFDYVYNPF 240
Query: 18675 MIDVQQWGFTGNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIG 18854
MIDVQQWGFTGNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIG
Sbjct: 241 MIDVQQWGFTGNLQSNHDQHCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWSVEYPIIG 300
Query: 18855 DELRVNSACRKVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKA 19034
DELRVNSACRKVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKA
Sbjct: 301 DELRVNSACRKVQHMVVKSALLADKFPVLHDIGNPKAIKCVPQAEVEWKFYDAQPCSDKA 360
Query: 19035 YKIEELFYSYATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLY 19214
YKIEELFYSYATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLY
Sbjct: 361 YKIEELFYSYATHHDKFTDGVCLFWNCNVDRYPANAIVCRFDTRVLSNLNLPGCDGGSLY 420
Query: 19215 VNKHAFHTPAFDKSAFTNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLG 19394
VNKHAFHTPAFDKSAFTNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLG
Sbjct: 421 VNKHAFHTPAFDKSAFTNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLG 480
Query: 19395 GAVCRHHANEYRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTRLQ 19535
GAVCRHHANEYRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTRLQ
Sbjct: 481 GAVCRHHANEYRQYLDAYNMMISAGFSLWIYKQFDTYNLWNTFTRLQ 527
>gi|12175746|ref|NP_073550.1| replicase polyprotein 1a [Human coronavirus 229E]
gi|12082739|gb|AAG48590.1|AF304460_1 replicase polyprotein 1a [Human coronavirus 229E]
Length = 4085
Score = 1056 bits (2732), Expect = 0.0
Identities = 708/2234 (31%), Positives = 1096/2234 (49%), Gaps = 28/2234 (1%)
Frame = +1
Query: 6766 TTIAKNSVKSVAKLCLDAGINYVKSPKFSKLFTIAM-----WXXXXXXXXXXXXXVTAAF 6930
T + VK +AK G+ +S K++ + A+ W +
Sbjct: 1949 TAVTTGDVKIMAKAPQRTGVVLKRSLKYNLKASAAVLKSKWWLLAKFTKLLLLIYTLYSV 2008
Query: 6931 GVLLSNFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETIQVT 7110
+L FG ++C+ Y S N D+C+GS C +CL G L + L+ +
Sbjct: 2009 VLLCVRFGPFNFCSETVNGYAKS-NFVKDDYCDGSLGCKMCLFGYQELSQFSHLDVVWKH 2067
Query: 7111 IS----SYKLDLTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMW 7278
I+ S ++ L + Y+ +++ + + + VF GY ++ W +
Sbjct: 2068 ITDPLFSNMQPFIVMVLLLIFGDNYLRCFLLYFVAQMISTVGVFLGYKETN-----WFLH 2122
Query: 7279 FIIS--IVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECT 7452
FI I V+ +V I F H++ GC + C+ C K R R

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Sbjct: 2123 FIPFDVICDELLVTVIVIKVISFVR---------HVLFGCENPDCIACSKSARLKRFPVN 2173
Query: 7453 TIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPT 7632
TIVNG++RSFYV ANGG FCK H + C++CD++ GSTFI+ EV+R+L K + PT
Sbjct: 2174 TIVNGVQRSFYVNANGGSKFCKKHRFFCVDCDSYGYGSTFITPEVSRELGNITKTNVQPT 2233
Query: 7633 DQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFD 7812
+ ++D V +NG LY +T+ R+ + + + ++ + IVF+
Sbjct: 2234 GPAYVMIDKVEFENGFYRLY----SCETFWRYNFDITESKYSCKEVFKNCNVLDDFIVFN 2289
Query: 7813 GKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSV 7992
+ + K+ASVY+SQL+C+PI L+D L+S + S + + + AY+D +F
Sbjct: 2290 NNGT-NVTQVKNASVYFSQLLCRPIKLVDSELLSTL--SVDFNGVLHKAYIDVLRNSFG- 2345
Query: 7993 PMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHSDLE 8172
+ L A ++ A + A G+++ F SA + +H D+
Sbjct: 2346 --KDLNANMSLAECKRALGLSISD--HEFTSA------------------ISNAHRCDVL 2383
Query: 8173 VTGDSCNNFMLTYNKVEN-MTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSE 8349
++ S NNF+ +Y K E ++ DL C+ A+ +NA V ++W+ KD+ SLS
Sbjct: 2384 LSDLSFNNFVSSYAKPEEKLSAYDLACCMRAGAKVVNANVLTKDQTPIVWHAKDFNSLSA 2443
Query: 8350 QLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLK-GGKIVSTCFKLMLKATXXXXX 8526
+ RK I +K + F LT + V + T I K G +
Sbjct: 2444 EGRKYIVKTSKAKGLTFLLTINENQAVTQIPATSIVAKQGAGDAGHSLTWLWLLCGLVCL 2503
Query: 8527 XXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAW-FSQR 8703
MP I + E +K I++G ++ + C N F+ W +++
Sbjct: 2504 IQFYLCFFMPYFMYDIVSSF--EGYDFKYIENGQLKNFEAPLKCVRNVFENFEDWHYAKF 2561
Query: 8704 GGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICY---- 8871
G + N +SCP+V + EI V G+P V + G L F + +CY
Sbjct: 2562 GFTPLNKQSCPIVVGV--SEIVNTVAGIPSNVY--LVGKTLIFTLQAAFGNAGVCYDIFG 2617
Query: 8872 --TPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYV 9045
TP K C+ + CT + G V YCY+T L+EGS+ YS ++ + Y
Sbjct: 2618 VTTPEK-----------CIFTSACTRLEGLGGNNV-YCYNTALMEGSLPYSSIQANAYYK 2665
Query: 9046 LMDGSIIQFPNTYLEG-SVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRAL 9222
+G+ I+ P +G R V T +YCR G C S G+C +W +N+ R
Sbjct: 2666 YDNGNFIKLPEVIAQGFGFRTVRTIATKYCRVGECVESNAGVCFGFD-KWFVNDG--RVA 2722
Query: 9223 SGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEY 9402
+G CG NL+ NI + +S ++ + + KFRR+FG+
Sbjct: 2723 NGYVCGTGLWNLVFNILSMFSSSFSVAAMSGQILLNCALGAFAIFCCFLVTKFRRMFGDL 2782
Query: 9403 NHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFAMFSP 9582
+ V + L++ + +V Y++ Y + T +++ + +
Sbjct: 2783 SVGVCTVVVAVLLN-NVSYIVTQNLVTMIAYAILYFFATRSLR--YAWIWCAAYLIAYIS 2839
Query: 9583 IVPFWITAIYVFCISLKHCHWFFNNYLRKRV---MFNGVTF-STFEEAALCTFLLNKEMY 9750
P+W+ A Y + + L+ +V +F G F TFE AA TF+++ Y
Sbjct: 2840 FAPWWLCAWYFLAMLTG----LLPSLLKLKVSTNLFEGDKFVGTFESAAAGTFVIDMRSY 2895
Query: 9751 LKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNSGADVLY 9930
KL + + + Y A YN+YKY+SG + YR A +LAKA+ DFS D+LY
Sbjct: 2896 EKLANS--ISPEKLKSYAASYNRYKYYSGNANEADYRCACYAYLAKAMLDFSRDHNDILY 2953
Query: 9931 QPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICT-A 10107
PP S S LQ+G RKMA PSG VE C+V+V G T LNGLWL D VYCPRHVI +

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Sbjct: 2954 TPPTVSYGST-LQAGLRKMAQPSGFVEKCVVRVCYGNTVLNGLWLGDIVYCPRHVIASNT 3012
Query: 10108 EDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRI 10287
++ ++E ++R H+F + +G L V+G +M L++KV +N TP++ F +
Sbjct: 3013 TSAIDYDHEYSIMRL--HNFSIISGTAFLGVVGATMHGVTLKIKVSQTNMHTPRHSFRTL 3070
Query: 10288 QPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHME 10467
+ G+ F++LACY+G GV+ MR N TI+GSF+NG+CGS G+N+ V F YMH +E
Sbjct: 3071 KSGEGFNILACYDGCAQGVFGVNMRTNWTIRGSFINGACGSPGYNLKNGEVEFVYMHQIE 3130
Query: 10468 LPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTT 10647
L +G H G+ +G YG F D+ Q + +T+NV+A+LYAA++NG W+L
Sbjct: 3131 LGSGSHVGSSFDGVMYGGFEDQPNLQVESANQMLTVNVVAFLYAAILNGCTWWLKGEKLF 3190
Query: 10648 LNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTI 10827
+ +N A + + + D L+A+TG+ V + A+ ++L NG G+ ILG +
Sbjct: 3191 VEHYNEWAQANGFTAMNGE--DAFSILAAKTGVCVERLLHAI-QVLNNGFGGKQILGYSS 3247
Query: 10828 LEDEFTPFDVVRQCSGVTFQ-GKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFVYE 11004
L DEF+ +VV+Q GV Q GK + K + V +T +V
Sbjct: 3248 LNDEFSINEVVKQMFGVNLQSGKTTSMFKSISLFAGFFVMFWAELFVYTTT----IWVNP 3303
Query: 11005 NAFLPFTLGIMAIAACAMLLVKHKHAFLCLFLLPSLATVAYFNMVYMPASWVMRIMTWLE 11184
PF + ++A++ C +VKHK FL +FLLPS+ A N + V +++
Sbjct: 3304 GFLTPFMILLVALSLCLTFVVKHKVLFLQVFLLPSIIVAAIQNCAW--DYHVTKVLAEKF 3361
Query: 11185 LADTSLSGYRLKDCVMYASALVLLILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALD 11364
+ S+ ++ V L + +L T R + L ++I ++Y Y
Sbjct: 3362 DYNVSVMQMDIQGFVNIFICLFVALLHTWRFAKERCTHWCTYLFSLIAVLYTALYSY--- 3418
Query: 11365 QAISMWALVISVTSNYSGVVTTIMFLAR-AIVFVCVEYYPLLFITGNTLQCIMLVXXXXX 11541
+S+ +++ SN + I + R + F+ VEY + ++ ++L
Sbjct: 3419 DYVSLLVMLLCAISNEWYIGAIIFRICRFGVAFLPVEYVSYF----DGVKTVLLFYMLLG 3474
Query: 11542 XXXXXXXXXXXXXNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGI 11721
NR+ + TLGVYD+ VS EF+YM + GL P DA L+ KL+GI
Sbjct: 3475 FVSCMYYGLLYWINRFCKCTLGVYDFCVSPAEFKYMVANGLNAPNGPFDALFLSFKLMGI 3534
Query: 11722 GGKPCIKVATVQSKMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKDTTEA 11901
GG IKV+TVQSK++D+KCT K WA CV++HN I L D A
Sbjct: 3535 GGPRTIKVSTVQSKLTDLKCTNVVLMGILSNMNIASNSKEWAYCVEMHNKINLCDDPETA 3594
Query: 11902 FEKMXXXXXXXXXMQGAVDINRLCEEMLDNRATLQAIASEFSSLPSXXXXXXXXXXXXXX 12081
E + + L + +N + LQ++AS F +PS
Sbjct: 3595 QELLLALLAFFLSKHSDFGLGDLVDSYFENDSILQSVASSFVGMPSFVAYETARQEYENA 3654
Query: 12082 XXNGDXXXXXXXXXXXXXXXXXEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTS 12261
NG EFDR++++Q+K+ +MA+QA MYK+AR+ ++++KV S
Sbjct: 3655 VANGSSPQIIKQLKKAMNVAKAEFDRESSVQKKINRMAEQAAAAMYKEARAVNRKSKVVS 3714
Query: 12262 AMQTMLFTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGN 12441
AM ++LF MLR+ R+G VPL++IP T+AA+L+VVVPD+ ++
Sbjct: 3715 AMHSLLFGMLRRLDMSSVDTILNMARNGVVPLSVIPATSAARLVVVVPDHDSFVKMMVDG 3774
Query: 12442 TFTYASALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTALRANSAVKLQNNELSPV 12621
YA +W +Q+V D D K V L ++ +N L WPLI+T R VKLQNNE+ P
Sbjct: 3775 FVHYAGVVWTLQEVKDNDGKNVHLKDVTKENQEILVWPLILTCER---VVKLQNNEIMPG 3831
Query: 12622 ALRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYT 12801
++ + ++ NAL YNN G F+ A ++ +K+ ++ G T+

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Sbjct: 3832 KMKVKATKGEGDGGITSEGNAL--YNNEGGRAFMYAYVTTKPGMKYVKWEHDSGVVTV-- 3887
Query: 12802 ELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEVPANSTVL 12981
ELEPPCRFV DTP GP++KYLYF+K LNNL RG VLG + ATVRLQAG TE +NS +L
Sbjct: 3888 ELEPPCRFVIDTPTGPQIKYLYFVKNLNNLRRGAVLGYIGATVRLQAGKQTEFVSNSHLL 3947
Query: 12982 SFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCC 13161
+ C+FAVDPA AY D + G +P+ NCVKML +G+GQAIT T ++N Q+++GGAS C
Sbjct: 3948 THCSFAVDPAAAYLDAVKQGAKPVGNCVKMLTNGSGSGQAITCTIDSNTTQDTYGGASVC 4007
Query: 13162 LYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSCDQLR 13341
+YCR H+ HP GFC KGK+VQ+P NDP+ F L NTVC VCG W +GC+CD+
Sbjct: 4008 IYCRAHVAHPTMDGFCQYKGKWVQVPIG-TNDPIRFCLENTVCKVCGCWLNHGCTCDR-- 4064
Query: 13342 EPLMQSADASTFLN 13383
+QS D +++LN
Sbjct: 4065 -TAIQSFD-NSYLN 4076
Score = 80.9 bits (198), Expect = 1e-12
Identities = 82/296 (27%), Positives = 132/296 (44%), Gaps = 13/296 (4%)
Frame = +1
Query: 3289 DNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNG 3468
DNVA D+ + IVNAAN +L HGGG+A AL+ T G +Q+ S ++I L G
Sbjct: 1279 DNVAFYQGDVDTVVNGVDFDFIVNAANENLAHGGGLAKALDVYTKGKLQRLSKEHIGLAG 1338
Query: 3469 PLTVGGSCLLSGHNLAKKCLHVVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFG 3648
+ VG ++ +L + +VVGP E L+KA N Q L P+LS GIFG
Sbjct: 1339 KVKVGTGVMVECDSL--RIFNVVGPRKGKHERDLLIKAYNTINNEQGTPLTPILSCGIFG 1396
Query: 3649 AKPLQSLQVCVQTVRT---QVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDS 3819
K SL+V + T +V++ + + + + L N++ +VE PK E P
Sbjct: 1397 IKLETSLEVLLDVCNTKEVKVFVYTDTEVCKVKDFVSGLVNVQ-KVEQPKIEPKP----- 1450
Query: 3820 KTEEKSVVQKPVDVKPKIKACIDEVTTTLEETKFL--TNKLLLFADINGKLYHDSQNMLR 3993
V KP V K +++ ++ + T+ +L D L + +L
Sbjct: 1451 -VSVIKVAPKPYRVDGKFSYFTEDLLCVADDKPIVLFTDSMLTLDDRGLALDNALSGVLS 1509
Query: 3994 G--EDMSFLEKDAP------YMVGDVITSGDITCVVIPSKKAGGTTEMLSRALKKV 4137
+D + K P + +G V+ + V+PS+K + R +K+
Sbjct: 1510 AAIKDCVDINKAIPSGNLIKFDIGSVV----VYMCVVPSEKDKHLDNNVQRCTRKL 1561
Score = 71.2 bits (173), Expect = 9e-10
Identities = 83/336 (24%), Positives = 138/336 (41%), Gaps = 14/336 (4%)
Frame = +1
Query: 4870 EVKTIKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPS 5049
E K I + T D N+H V ++ QQ G D++ P + +
Sbjct: 1599 EAKVITIKVTEDGVNVHDVTVTTDKSFEQQVGVIADKDKDLSGAVPSDLNTSELLTKAID 1658
Query: 5050 DDTLRSEAFE---YYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVL 5220
D + F+ + T+D S Y SA+ V G+ +K +DNNC++++V
Sbjct: 1659 VDWVEFYGFKDAVTFATVDHSAFA-YESAV----------VNGIRVLKTSDNNCWVNAVC 1707
Query: 5221 LALQQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQH-A 5397
+ALQ + F + L A+ + GD F A + + G+ GD +T+T L ++ A

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Sbjct: 1708 IALQYSKPHFISQGLDAAWNKFVLGDVEIFVAFVYYVARLMKGDKGDAEDTLTKLSKYLA 1767
Query: 5398 NLESAKRVLNVVCKHCGQK-TTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLV 5574
N + C C K ++ + + + ++ D ++ G CV G +
Sbjct: 1768 NEAQVQLEHYSSCVECDAKFKNSVASINSAIVCASVKRDGVQVGY---CVHGIKYYSRVR 1824
Query: 5575 QQESSFVMMSA----PPAEYKLQQGTFLCANEYTGNYQCGHYT-HITAKETLYRIDGAHL 5739
+++S P A+ +L G A ++G GHYT + TAK+++Y DG
Sbjct: 1825 SVRGRAIIVSVEQLEPCAQSRLLSGVAYTA--FSGPVDKGHYTVYDTAKKSMY--DGDRF 1880
Query: 5740 TKMSEYKGPVTDVF----YKETSYTTTIKPVSYKLD 5835
K VT V Y T KPV +LD
Sbjct: 1881 VKHDLSLLSVTSVVMVGGYVAPVNTVKPKPVINQLD 1916
Score = 51.2 bits (121), Expect = 0.001
Identities = 61/266 (22%), Positives = 109/266 (40%), Gaps = 8/266 (3%)
Frame = +1
Query: 5152 FPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALILAY 5331
F ++ GL +K DNNC+++SV+L +Q + A+Q + G A
Sbjct: 1038 FEELNGLKILKQLDNNCWVNSVMLQIQLTGILDGDYAMQ----FFKMGRVAKMIERCYTA 1093
Query: 5332 SNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLSYD 5511
G +GDV M LL+ +L + V++ C C +G AV++ T +
Sbjct: 1094 EQCIRGAMGDVGLCMYRLLK--DLHTGFMVMDYKCS-CTSGRLEESG--AVLFC-TPTKK 1147
Query: 5512 NLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGHY- 5688
G + C R T +Q FV P +C++ + G CGHY
Sbjct: 1148 AFPYGTCLNCNAPRMCTIRQLQGTIIFVQQKPEPVNPVSFVVKPVCSSIFRGAVSCGHYQ 1207
Query: 5689 THITAKETLYRIDGAHLTKMSEY-KGPVTDVFYKETSYTT----TIKPVSYKLDGVTYTE 5853
T+I ++ +DG + K+ + + + K+ Y ++ P+ +D E
Sbjct: 1208 TNIYSQNLC--VDGFGVNKIQPWTNDALNTICIKDADYNAKVEISVTPIKNTVDTTPKEE 1265
Query: 5854 --IEPKLDGYYKKDNAYYTEQPIDLV 5925
++ KL+ + DN + + +D V
Sbjct: 1266 FVVKEKLNAFLVHDNVAFYQGDVDTV 1291
>gi|464694|sp|Q05002|RRPA_CVH22 RNA-directed RNA polymerase (ORF1A)
gi|281286|pir||S28600 hypothetical protein 1a - human coronavirus
gi|59491|emb|CAA49377.1| ORF1a [Human coronavirus 229E]
Length = 4085
Score = 1053 bits (2722), Expect = 0.0
Identities = 707/2234 (31%), Positives = 1095/2234 (49%), Gaps = 28/2234 (1%)
Frame = +1
Query: 6766 TTIAKNSVKSVAKLCLDAGINYVKSPKFSKLFTIAM-----WXXXXXXXXXXXXXVTAAF 6930
T + VK +AK G+ +S K++ + A+ W +
Sbjct: 1949 TAVTTGDVKIMAKAPQRTGVVLKRSLKYNLKASQAVLKSKWWLLAKFTKLLLLIYTLYSV 2008
Query: 6931 GVLLSNFGAPSYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETIQVT 7110
+L FG ++C+ Y S N D+C+GS C +CL G L + L+ +
Sbjct: 2009 VLLCVRFGPFNFCSETVNGYAKS-NFVKDDYCDGSLGCKMCLFGYQELSQFSHLDVVWKH 2067
Query: 7111 IS----SYKLDLTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMW 7278

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I+ S ++ L + Y+ +++ + + + VF GY ++ W +
Sbjct: 2068 ITDPLFSNMQPFIVMVLLLIFGDNYLRCFLLYFVAQMISTVGVFLGYKETN-----WFLH 2122
Query: 7279 FIIS--IVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECT 7452
FI I V+ +V I F H++ GC + C+ C K R R
Sbjct: 2123 FIPFDVICDELLVTVIVIKVISFVR---------HVLFGCENPDCIACSKSARLKRFPVN 2173
Query: 7453 TIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPT 7632
TIVNG++RSFYV ANGG FCK H + C++CD++ GSTFI+ EV+R+L K + PT
Sbjct: 2174 TIVNGVQRSFYVNANGGSKFCKKHRFFCVDCDSYGYGSTFITPEVSRELGNITKTNVQPT 2233
Query: 7633 DQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFD 7812
+ ++D V +NG LY +T+ R+ + + + ++ + IVF+
Sbjct: 2234 GPAYVMIDKVEFENGFYRLY----SCETFWRYNFDITESKYSCKEVFKNCNVLDDFIVFN 2289
Query: 7813 GKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSV 7992
+ + K+ASVY+SQL+C+PI L+D L+S + S + + + AY+D +F
Sbjct: 2290 NNGT-NVTQVKNASVYFSQLLCRPIKLVDSELLSTL--SVDFNGVLHKAYIDVLRNSFG- 2345
Query: 7993 PMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHSDLE 8172
+ L A ++ A + A G+++ F SA + +H D+
Sbjct: 2346 --KDLNANMSLAECKRALGLSISD--HEFTSA------------------ISNAHRCDVL 2383
Query: 8173 VTGDSCNNFMLTYNKVEN-MTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSE 8349
++ S NNF+ +Y K E ++ DL C+ A+ +NA V ++W+ KD+ SLS
Sbjct: 2384 LSDLSFNNFVSSYAKPEEKLSAYDLACCMRAGAKVVNANVLTKDQTPIVWHAKDFNSLSA 2443
Query: 8350 QLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLK-GGKIVSTCFKLMLKATXXXXX 8526
+ RK I +K + F LT + V + T I K G +
Sbjct: 2444 EGRKYIVKTSKAKGLTFLLTINENQAVTQIPATSIVAKQGAGDAGHSLTWLWLLCGLVCL 2503
Query: 8527 XXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFDAW-FSQR 8703
MP I + E +K I++G ++ + C N F+ W +++
Sbjct: 2504 IQFYLCFFMPYFMYDIVSSF--EGYDFKYIENGQLKNFEAPLKCVRNVFENFEDWHYAKF 2561
Query: 8704 GGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVGNICY---- 8871
G + N +SCP+V + EI V G+P V + G L F + +CY
Sbjct: 2562 GFTPLNKQSCPIVVGV--SEIVNTVAGIPSNVY--LVGKTLIFTLQAAFGNAGVCYDIFG 2617
Query: 8872 --TPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTRYV 9045
TP K C+ + CT + G V YCY+T L+EGS+ YS ++ + Y
Sbjct: 2618 VTTPEK-----------CIFTSACTRLEGLGGNNV-YCYNTALMEGSLPYSSIQANAYYK 2665
Query: 9046 LMDGSIIQFPNTYLEG-SVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRAL 9222
+G+ I+ P +G R V T +YCR G C S G+C +W +N+ R
Sbjct: 2666 YDNGNFIKLPEVIAQGFGFRTVRTIATKYCRVGECVESNAGVCFGFD-KWFVNDG--RVA 2722
Query: 9223 SGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGEY 9402
+G CG NL+ NI + +S ++ + + KFRR+FG+
Sbjct: 2723 NGYVCGTGLWNLVFNILSMFSSSFSVAAMSGQILLNCALGAFAIFCCFLVTKFRRMFGDL 2782
Query: 9403 NHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQWFAMFSP 9582
+ V + L++ + +V Y++ Y + T +++ + +
Sbjct: 2783 SVGVCTVVVAVLLN-NVSYIVTQNLVTMIAYAILYFFATRSLR--YAWIWCAAYLIAYIS 2839
Query: 9583 IVPFWITAIYVFCISLKHCHWFFNNYLRKRV---MFNGVTF-STFEEAALCTFLLNKEMY 9750
P+W+ A Y + + L+ +V +F G F TFE AA TF+++ Y
Sbjct: 2840 FAPWWLCAWYFLAMLTG----LLPSLLKLKVSTNLFEGDKFVGTFESAAAGTFVIDMRSY 2895
Query: 9751 LKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNSGADVLY 9930

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KL + + + Y A YN+YKY+SG + YR A +LAKA+ DFS D+LY
Sbjct: 2896 EKLANS--ISPEKLKSYAASYNRYKYYSGNANEADYRCACYAYLAKAMLDFSRDHNDILY 2953
Query: 9931 QPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICT-A 10107
PP S S LQ+G RKMA PSG VE C+V+V G T LNGLWL D VYCPRHVI +
Sbjct: 2954 TPPTVSYGST-LQAGLRKMAQPSGFVEKCVVRVCYGNTVLNGLWLGDIVYCPRHVIASNT 3012
Query: 10108 EDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRI 10287
++ ++E ++R H+F + +G L V+G +M L++KV +N TP++ F +
Sbjct: 3013 TSAIDYDHEYSIMRL--HNFSIISGTAFLGVVGATMHGVTLKIKVSQTNMHTPRHSFRTL 3070
Query: 10288 QPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHME 10467
+ G+ F++LACY+G GV+ MR N TI+GSF+NG+CGS G+N+ V F YMH +E
Sbjct: 3071 KSGEGFNILACYDGCAQGVFGVNMRTNWTIRGSFINGACGSPGYNLKNGEVEFVYMHQIE 3130
Query: 10468 LPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTT 10647
L +G H G+ +G YG F D+ Q + +T+NV+A+LYAA++NG W+L
Sbjct: 3131 LGSGSHVGSSFDGVMYGGFEDQPNLQVESANQMLTVNVVAFLYAAILNGCTWWLKGEKLF 3190
Query: 10648 LNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTI 10827
+ +N A + + + D L+A+TG+ V + A+ ++L NG G+ ILG +
Sbjct: 3191 VEHYNEWAQANGFTAMNGE--DAFSILAAKTGVCVERLLHAI-QVLNNGFGGKQILGYSS 3247
Query: 10828 LEDEFTPFDVVRQCSGVTFQ-GKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFVYE 11004
L DEF+ +VV+Q GV Q GK + K + V +T +V
Sbjct: 3248 LNDEFSINEVVKQMFGVNLQSGKTTSMFKSISLFAGFFVMFWAELFVYTTT----IWVNP 3303
Query: 11005 NAFLPFTLGIMAIAACAMLLVKHKHAFLCLFLLPSLATVAYFNMVYMPASWVMRIMTWLE 11184
PF + ++A++ C +VKHK FL +FLLPS+ A N + V +++
Sbjct: 3304 GFLTPFMILLVALSLCLTFVVKHKVLFLQVFLLPSIIVAAIQNCAW--DYHVTKVLAEKF 3361
Query: 11185 LADTSLSGYRLKDCVMYASALVLLILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALD 11364
+ S+ ++ V L + +L T R + L ++I ++Y Y
Sbjct: 3362 DYNVSVMQMDIQGFVNIFICLFVALLHTWRFAKERCTHWCTYLFSLIAVLYTALYSY--- 3418
Query: 11365 QAISMWALVISVTSNYSGVVTTIMFLAR-AIVFVCVEYYPLLFITGNTLQCIMLVXXXXX 11541
+S+ +++ SN + I + R + F+ VEY + ++ ++L
Sbjct: 3419 DYVSLLVMLLCAISNEWYIGAIIFRICRFGVAFLPVEYVSYF----DGVKTVLLFYMLLG 3474
Query: 11542 XXXXXXXXXXXXXNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGI 11721
NR+ + TLGVYD+ VS EF+YM + GL P DA L+ KL+GI
Sbjct: 3475 FVSCMYYGLLYWINRFCKCTLGVYDFCVSPAEFKYMVANGLNAPNGPFDALFLSFKLMGI 3534
Query: 11722 GGKPCIKVATVQSKMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKDTTEA 11901
GG IKV+TVQSK++D+KCT K WA CV++HN I L D A
Sbjct: 3535 GGPRTIKVSTVQSKLTDLKCTNVVLMGILSNMNIASNSKEWAYCVEMHNKINLCDDPETA 3594
Query: 11902 FEKMXXXXXXXXXMQGAVDINRLCEEMLDNRATLQAIASEFSSLPSXXXXXXXXXXXXXX 12081
E + + L + +N + LQ++AS F +PS
Sbjct: 3595 QELLLALLAFFLSKHSDFGLGDLVDSYFENDSILQSVASSFVGMPSFVAYETARQEYENA 3654
Query: 12082 XXNGDXXXXXXXXXXXXXXXXXEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTS 12261
NG EFDR++++Q+K+ +MA+QA MYK+AR+ ++++KV S
Sbjct: 3655 VANGSSPQIIKQLKKAMNVAKAEFDRESSVQKKINRMAEQAAAAMYKEARAVNRKSKVVS 3714
Query: 12262 AMQTMLFTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGN 12441
AM ++LF MLR+ R+G VPL++IP T+AA+L+VVVPD+ ++
Sbjct: 3715 AMHSLLFGMLRRLDMSSVDTILNMARNGVVPLSVIPATSAARLVVVVPDHDSFVKMMVDG 3774
Query: 12442 TFTYASALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTALRANSAVKLQNNELSPV 12621

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YA +W +Q+V D D K V L ++ +N L WPLI+T R VKLQNNE+ P
Sbjct: 3775 FVHYAGVVWTLQEVKDNDGKNVHLKDVTKENQEILVWPLILTCER---VVKLQNNEIMPG 3831
Query: 12622 ALRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYT 12801
++ + ++ NAL YNN G F+ A ++ +K+ ++ G T+
Sbjct: 3832 KMKVKATKGEGDGGITSEGNAL--YNNEGGRAFMYAYVTTKPGMKYVKWEHDSGVVTV-- 3887
Query: 12802 ELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEVPANSTVL 12981
ELEPPCRFV DTP GP++KYLYF+K LNNL RG VLG + ATVRLQAG TE +NS +L
Sbjct: 3888 ELEPPCRFVIDTPTGPQIKYLYFVKNLNNLRRGAVLGYIGATVRLQAGKQTEFVSNSHLL 3947
Query: 12982 SFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCC 13161
+ C+FAVDPA AY D + G +P+ NCVKML +G+GQAIT T ++N Q+++GGAS C
Sbjct: 3948 THCSFAVDPAAAYLDAVKQGAKPVGNCVKMLTNGSGSGQAITCTIDSNTTQDTYGGASVC 4007
Query: 13162 LYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSCDQLR 13341
+YCR H+ HP GFC KGK+VQ+P NDP+ L NTVC VCG W +GC+CD+
Sbjct: 4008 IYCRAHVAHPTMDGFCQYKGKWVQVPIG-TNDPIRSCLENTVCKVCGCWLNHGCTCDR-- 4064
Query: 13342 EPLMQSADASTFLN 13383
+QS D +++LN
Sbjct: 4065 -TAIQSFD-NSYLN 4076
Score = 80.9 bits (198), Expect = 1e-12
Identities = 82/296 (27%), Positives = 132/296 (44%), Gaps = 13/296 (4%)
Frame = +1
Query: 3289 DNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNG 3468
DNVA D+ + IVNAAN +L HGGG+A AL+ T G +Q+ S ++I L G
Sbjct: 1279 DNVAFYQGDVDTVVNGVDFDFIVNAANENLAHGGGLAKALDVYTKGKLQRLSKEHIGLAG 1338
Query: 3469 PLTVGGSCLLSGHNLAKKCLHVVGPNLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFG 3648
+ VG ++ +L + +VVGP E L+KA N Q L P+LS GIFG
Sbjct: 1339 KVKVGTGVMVECDSL--RIFNVVGPRKGKHERDLLIKAYNTINNEQGTPLTPILSCGIFG 1396
Query: 3649 AKPLQSLQVCVQTVRT---QVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDS 3819
K SL+V + T +V++ + + + + L N++ +VE PK E P
Sbjct: 1397 IKLETSLEVLLDVCNTKEVKVFVYTDTEVCKVKDFVSGLVNVQ-KVEQPKIEPKP----- 1450
Query: 3820 KTEEKSVVQKPVDVKPKIKACIDEVTTTLEETKFL--TNKLLLFADINGKLYHDSQNMLR 3993
V KP V K +++ ++ + T+ +L D L + +L
Sbjct: 1451 -VSVIKVAPKPYRVDGKFSYFTEDLLCVADDKPIVLFTDSMLTLDDRGLALDNALSGVLS 1509
Query: 3994 G--EDMSFLEKDAP------YMVGDVITSGDITCVVIPSKKAGGTTEMLSRALKKV 4137
+D + K P + +G V+ + V+PS+K + R +K+
Sbjct: 1510 AAIKDCVDINKAIPSGNLIKFDIGSVV----VYMCVVPSEKDKHLDNNVQRCTRKL 1561
Score = 71.2 bits (173), Expect = 9e-10
Identities = 83/336 (24%), Positives = 138/336 (41%), Gaps = 14/336 (4%)
Frame = +1
Query: 4870 EVKTIKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPS 5049
E K I + T D N+H V ++ QQ G D++ P + +
Sbjct: 1599 EAKVITIKVTEDGVNVHDVTVTTDKSFEQQVGVIADKDKDLSGAVPSDLNTSELLTKAID 1658
Query: 5050 DDTLRSEAFE---YYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVL 5220

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D + F+ + T+D S Y SA+ V G+ +K +DNNC++++V
Sbjct: 1659 VDWVEFYGFKDAVTFATVDHSAFA-YESAV----------VNGIRVLKTSDNNCWVNAVC 1707
Query: 5221 LALQQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQH-A 5397
+ALQ + F + L A+ + GD F A + + G+ GD +T+T L ++ A
Sbjct: 1708 IALQYSKPHFISQGLDAAWNKFVLGDVEIFVAFVYYVARLMKGDKGDAEDTLTKLSKYLA 1767
Query: 5398 NLESAKRVLNVVCKHCGQK-TTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLV 5574
N + C C K ++ + + + ++ D ++ G CV G +
Sbjct: 1768 NEAQVQLEHYSSCVECDAKFKNSVASINSAIVCASVKRDGVQVGY---CVHGIKYYSRVR 1824
Query: 5575 QQESSFVMMSA----PPAEYKLQQGTFLCANEYTGNYQCGHYT-HITAKETLYRIDGAHL 5739
+++S P A+ +L G A ++G GHYT + TAK+++Y DG
Sbjct: 1825 SVRGRAIIVSVEQLEPCAQSRLLSGVAYTA--FSGPVDKGHYTVYDTAKKSMY--DGDRF 1880
Query: 5740 TKMSEYKGPVTDVF----YKETSYTTTIKPVSYKLD 5835
K VT V Y T KPV +LD
Sbjct: 1881 VKHDLSLLSVTSVVMVGGYVAPVNTVKPKPVINQLD 1916
Score = 51.2 bits (121), Expect = 0.001
Identities = 61/266 (22%), Positives = 109/266 (40%), Gaps = 8/266 (3%)
Frame = +1
Query: 5152 FPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALILAY 5331
F ++ GL +K DNNC+++SV+L +Q + A+Q + G A
Sbjct: 1038 FEELNGLKILKQLDNNCWVNSVMLQIQLTGILDGDYAMQ----FFKMGRVAKMIERCYTA 1093
Query: 5332 SNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLSYD 5511
G +GDV M LL+ +L + V++ C C +G AV++ T +
Sbjct: 1094 EQCIRGAMGDVGLCMYRLLK--DLHTGFMVMDYKCS-CTSGRLEESG--AVLFC-TPTKK 1147
Query: 5512 NLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGHY- 5688
G + C R T +Q FV P +C++ + G CGHY
Sbjct: 1148 AFPYGTCLNCNAPRMCTIRQLQGTIIFVQQKPEPVNPVSFVVKPVCSSIFRGAVSCGHYQ 1207
Query: 5689 THITAKETLYRIDGAHLTKMSEY-KGPVTDVFYKETSYTT----TIKPVSYKLDGVTYTE 5853
T+I ++ +DG + K+ + + + K+ Y ++ P+ +D E
Sbjct: 1208 TNIYSQNLC--VDGFGVNKIQPWTNDALNTICIKDADYNAKVEISVTPIKNTVDTTPKEE 1265
Query: 5854 --IEPKLDGYYKKDNAYYTEQPIDLV 5925
++ KL+ + DN + + +D V
Sbjct: 1266 FVVKEKLNAFLVHDNVAFYQGDVDTV 1291
>gi|872319|emb|CAA83979.1|
Length = 4017
orf1a [Transmissible gastroenteritis virus]
Score = 999 bits (2583), Expect = 0.0
Identities = 681/2193 (31%), Positives = 1048/2193 (47%), Gaps = 47/2193 (2%)
Frame = +1
Query: 6967 CNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETIQVTISSYKLDLTILG 7146
CNG + Y NSS + + C S C CL+ D L + + +QVT +K D
Sbjct: 1921 CNGAVQAYKNSSFIKSA-VCGNSILCKACLASYDELADF---QHLQVTWD-FKSDPLWNR 1975
Query: 7147 LAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMWF-------IISIVQMA 7305
L L+Y F F + ++ F YF S ++ N WL +F + +V

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Sbjct: 1976 LVQ---LSYFAFLAVFG----NNYVRCFLMYFVSQYL-NLWLSYFGYVEYSWFLHVVNFE 2027
Query: 7306 PVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMKRSFY 7485
+SA + + K HI+ C++ +C C + R TR+ +VNG ++ Y
Sbjct: 2028 SISAEFVIVVIVVKAVLALK---HIVFACSNPSCKTCSRTARQTRIPIQVVVNGSMKTVY 2084
Query: 7486 VYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVA 7665
V+ANG FCK HN+ C NCD++ +TFI DE+ RDLS K+ + TD+S V V
Sbjct: 2085 VHANGTGKFCKKHNFYCKNCDSYGFENTFICDEIVRDLSNSVKQTVYATDRSHQEVTKVE 2144
Query: 7666 VKNGALHLY---------FDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGK 7818
+G Y +D +K + L + LD+ + GS NV
Sbjct: 2145 CSDGFYRFYVGDEFTSYDYDVKHKKYSSQEVLKSMLLLDDFIVYSPSGSALANV------ 2198
Query: 7819 SKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPM 7998
++A VY+SQL+ +PI +++ L+ D+ S + +F+A + +F+V +
Sbjct: 2<strong>199</strong> --------RNACVYFSQLIGKPIKIVNSDLLEDL--SVDFKGALFNAKKNVIKNSFNVDV 2248
Query: 7999 EKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHSDLEVT 8178
+ K L E + L+ STF A +H + +T
Sbjct: 2249 SECKNL-----DECYRACNLNVSFSTFEMAVNN------------------AHRFGILIT 2285
Query: 8179 GDSCNNFMLTYNKV--ENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQ 8352
S NNF + K ++ D+G C+ +A+ +NA+V S++W +D+ +LS
Sbjct: 2286 DRSFNNFWPSKVKPGSSGVSAMDIGKCMTSDAKIVNAKVLTQRGKSVVWLSQDFAALSST 2345
Query: 8353 LRKQIRSAAKKNNIPFRLTCATTRQVVNV----ITTKISLKGGK---IVSTCFK--LMLK 8505
+K + + + F LT ++ T +S K G V T K ++L
Sbjct: 2346 AQKVLVKTFVEEGVNFSLTFNAVGSDDDLTYERFTQSVSPKSGSGFFDVITQLKQIVILV 2405
Query: 8506 ATXXXXXXXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFD 8685
Y V + +GY Y I++G+ + T C N + GF
Sbjct: 2406 FVFIFICGLCSVYSVATQSYIESAEGYD-----YMVIKNGIVQPFDDTISCVHNTYKGFG 2460
Query: 8686 AWFSQRGGSYKN-DKSCP-VVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVG 8859
WF + G KSCP VV + E +P +P V +I G L F V
Sbjct: 2461 DWFKAKYGFIPTFGKSCPIVVGTVFDLENMRPIPDVPAYV--SIVGRSLVFAINAAFGVT 2518
Query: 8860 NICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTR 9039
N+CY + D CV CT +G + YC L+EG+ YS+L PD
Sbjct: 2519 NMCYDHTGNAVSKDSYFDTCVFNTACTTLT-GLGGTIVYCAKQGLVEGAKLYSDLMPDYY 2577
Query: 9040 YVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRA 9219
Y G++++ P +R V T YCR G C S+ G C +V +NE
Sbjct: 2578 YEHASGNMVKLPAIIRGLGLRFVKTQATTYCRVGECIDSKAGFCFGGDNWFVYDNEFG-- 2635
Query: 9220 LSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGE 9399
+G CG + N+F + + S +++ IIA L Y +KF+++FG+
Sbjct: 2636 -NGYICGNSVLGFFKNVFKLFNSNMSVVATSGAMLVNIIIACLAIAMCYGVLKFKKIFGD 2694
Query: 9400 YNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQ--WFAM 9573
++ ++ L+ + V +F +Y++ Y ++ T +++ L +
Sbjct: 2695 CTFLIVM-IIVTLVVNNVSYFVTQNTFFMIIYAIVY----YFITRKLAYPGILDAGFIIA 2749
Query: 9574 FSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTFLLNKEMYL 9753
+ + P+++ Y+ F + + FE AA+ TF+++ Y
Sbjct: 2750 YINMAPWYVITAYILVFLYDSLPSLFKLKVSTNLFEGDKFVGNFESAAMGTFVIDMRSYE 2809
Query: 9754 KLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNSGADVLYQ 9933
+ + T + + Y +NKYKY++G++ YR A HL KAL D+S + D+LY

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Sbjct: 2810 TIVNST--SIARIKSYANSFNKYKYYTGSMGEADYRMACYAHLGKALMDYSVNRTDMLYT 2867
Query: 9934 PPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAED 10113
PP S+ S LQSG RKMA PSG VE C+V+V+ G LNGLWL D V CPRHVI +
Sbjct: 2868 PPTVSVNST-LQSGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTT 2926
Query: 10114 MLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRIQP 10293
+ NYE+ + H+F V NV L V+ + L LKV+ NP TP++KF I+
Sbjct: 2927 RVI-NYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKA 2985
Query: 10294 GQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMELP 10473
G++F++LACY G P VY MR TIKGSF+ G+CGSVG+ ++ + F YMHH+EL
Sbjct: 2986 GESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELG 3045
Query: 10474 TGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLN 10653
G H G++ EG+ YG + D+ + Q GT+ + NV+A+LYAA+ING+RWF+ + +L
Sbjct: 3046 NGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLE 3105
Query: 10654 DFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILE 10833
+N A ++ L+ D L+A+TG +V + ++ L G GRTIL L
Sbjct: 3106 SYNTWAKTNSFTELSS--TDAFSMLAAKTGQSVEKLLDSIVRL-NKGFGGRTILSYGSLC 3162
Query: 10834 DEFTPFDVVRQCSGVTFQ-GKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFVYENA 11010
DEFTP +V+RQ GV Q GK VK + + ++ ++ F ++
Sbjct: 3163 DEFTPTEVIRQMYGVNLQAGK----VKSFFYPIMTAMTILFAFWLEFFMYTPFTWI-NPT 3217
Query: 11011 FLPFTLGIMAIAACAMLL-VKHKHAFLCLFLLPSLATVAYFNMVYMPASWVMRIMTWLEL 11187
F+ L + + + + +KHK F F+LPS+ V N+ + S+ + + +E
Sbjct: 3218 FVSIVLAVTTLISTVFVSGIKHKMLFFMSFVLPSVILVTAHNL-FWDFSYYESLQSIVEN 3276
Query: 11188 ADTSLSGYRLKDCVMYASALVLLILMTARTVYDDAARRVWTLMNVITLVY---KVYYGNA 11358
+T ++ ++ ++ + + R ++ W + V T++ V
Sbjct: 3277 TNTMFLPVDMQGVMLTVFCFIVFVTYSVRFF---TCKQSWFSLAVTTILVIFNMVKIFGT 3333
Query: 11359 LDQA----------ISMWALVISVTSNYSGVVTTIMFLARAIVFVCVEYYPLLFITG-NT 11505
D+ ++M +++S+T+ VV +A IV VCV P F++
Sbjct: 3334 SDEPWTENQIAFCFVNMLTMIVSLTTKDWMVVIASYRIAYYIV-VCV--MPSAFVSDFGF 3390
Query: 11506 LQCIMLVXXXXXXXXXXXXXXXXXXNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSI 11685
++CI +V
NR+ +T GVY + VS E +YM + L PK++
Sbjct: 3391 MKCISIVYMACGYLFCCYYGILYWVNRFTCMTCGVYQFTVSAAELKYMTANNLSAPKNAY 3450
Query: 11686 DAFKLNIKLLGIGGKPCIKVATVQSKMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLH 11865
DA L+ KL+G+GGK IK++TVQSK++++KCT
K W CV LH
Sbjct: 3451 DAMILSAKLIGVGGKRNIKISTVQSKLTEMKCTNVVLLGLLSKMHVESNSKEWNYCVGLH 3510
Query: 11866 NDILLAKDTTEAFEKMXXXXXXXXXMQGAVDINRLCEEMLDNRATLQAIASEFSSLPSXX 12045
N+I L D EK+ D++ L E +N LQ++AS +++LPS
Sbjct: 3511 NEINLCDDPEIVLEKLLALIAFFLSKHNTCDLSELIESYFENTTILQSVASAYAALPSWI 3570
Query: 12046 XXXXXXXXXXXXXXNGDXXXXXXXXXXXXXXXXXEFDRDAAMQRKLEKMADQAMTQMYKQ 12225
N +F+R+A++Q+KL+KMA+QA MYK+
Sbjct: 3571 ALEKARADLEEAKKNDVSPQILKQLTKAFNIAKSDFEREASVQKKLDKMAEQAAASMYKE 3630
Query: 12226 ARSEDKRAKVTSAMQTMLFTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVP 12405
AR+ D+++K+ SAM ++LF ML+K
R+G +PL+IIP +A +L+V+ P
Sbjct: 3631 ARAVDRKSKIVSAMHSLLFGMLKKLDMSSVNTIIDQARNGVLPLSIIPAASATRLVVITP 3690
Query: 12406 DYGTYKNTCDGNTFTYASALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTALRANS 12585
+ N YA A+W I +V DA+ V L E+ N NL WPL +T R

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Sbjct: 3691 SLEVFSKIRQENNVHYAGAIWTIVEVKDANGSHVHLKEVTAANELNLTWPLSITCERTT- 3749
Query: 12586 AVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWAR 12765
KLQNNE+ P L++ + A T + A + G F+ A ++ +LK+ +
Sbjct: 3750 --KLQNNEIMPGKLKERAVRASATLDGEAFGSGKALMASESGKSFMYAFIASDNNLKYVK 3807
Query: 12766 FPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQAG 12945
+ ++ I ELE P RF D GP+VKYLYF+K LN L RG VLG + ATVRLQAG
Sbjct: 3808 WESNNDI--IPIELEAPLRFYVDGANGPEVKYLYFVKNLNTLRRGAVLGYIGATVRLQAG 3865
Query: 12946 NATEVPANSTVLSFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEAN 13125
TE P+NS++L+ CAF+ DPAKAY D + G QP+ NCVKML G G A+T EAN
Sbjct: 3866 KPTEHPSNSSLLTLCAFSPDPAKAYVDAVKRGMQPVNNCVKMLSNGAGNGMAVTNGVEAN 3925
Query: 13126 MDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGM 13305
Q+S+GGAS C+YCRCH++HP G C KGK+VQIPT DP+ F + N VC VCG
Sbjct: 3926 TQQDSYGGASVCIYCRCHVEHPAIDGLCRYKGKFVQIPTG-TQDPIRFCIENEVCVVCGC 3984
Query: 13306 WKGYGCSCDQLREPLMQSADASTFLNGFAV*VQ 13404
W GC CD R + ++LN V VQ
Sbjct: 3985 WLNNGCMCD--RTSMQSFTVDQSYLNECGVLVQ 4015
Score = 64.7 bits (156), Expect = 9e-08
Identities = 63/211 (29%), Positives = 94/211 (44%), Gaps = 3/211 (1%)
Frame = +1
Query: 3343 PMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGSCLLSGHNLAKK 3522
P VIVNAAN LKH GGVA A++ T G + + S DY+K N + G +
Sbjct: 1347 PDVIVNAANGDLKHMGGVARAIDVFTGGKLTERSKDYLKKNKSIAPGNAVFFENVIEHLS 1406
Query: 3523 CLHVVGP-NLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSLQVCVQTVRTQ 3699
L+ VGP N ++ + +L + +L PL+S GIF + SLQ ++T
Sbjct: 1407 VLNAVGPRNGDSRVEAKLCNVYKAIAKCEGKILTPLISVGIFNVRLETSLQCLLKT---- 1462
Query: 3700 VYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPP--NTEDSKTEEKSVVQKPVDVKPKI 3873
VND+ L V Y D + +E P TED+ E+ V ++
Sbjct: 1463 ----VNDRGLN---VFVYTDQERQTIENFFSCSIPVNVTEDNVNHERVSVSFDKTYGEQL 1515
Query: 3874 KACIDEVTTTLEETKFLTNKLLLFADINGKL 3966
K T + + K +TN+L D+ K+
Sbjct: 1516 KG------TVVIKDKDVTNQLPSAFDVGQKV 1540
Score = 47.4 bits (111), Expect = 0.015
Identities = 66/279 (23%), Positives = 102/279 (36%), Gaps = 7/279 (2%)
Frame = +1
Query: 4879 TIKVFTTVDNTNLHTQLVDMSMTYGQQF-GPTYLDGADVTKIKPHVNHEGKTFFVLPSDD 5055
+I V T DN N V TYG+Q G + DVT P G+ D
Sbjct: 1488 SIPVNVTEDNVNHERVSVSFDKTYGEQLKGTVVIKDKDVTNQLPSAFDVGQKVIKAIDID 1547
Query: 5056 TLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSI--KWADNNCYLSSVLLAL 5229
F SA +H +KF V I K DNNC+++++ LAL
Sbjct: 1548 WQAHYGFRD---------AAAFSASSHDA-YKFEVVTHSNFIVHKQTDNNCWINAICLAL 1597
Query: 5230 QQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLES 5409
Q+L+ ++ P ++ + F ++ S GE GD E M H L

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Sbjct: 1598 QRLKPQWKFPGVRGLWNEFLERKTQGFVHMLYHISGVKKGEPGDA-ELMLHKLGDLMDND 1656
Query: 5410 AKRVL--NVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQE 5583
+ ++ C C + + V A G CV G + Q +
Sbjct: 1657 CEIIVTHTTACDKCAKVEKFVGPVVAAPL--------AIHGTDETCVHGVSVNVKVTQIK 1708
Query: 5584 SSFVMMS--APPAEYKLQQGTFLCANEYTGNYQCGHYTH 5694
+ + S P L+ ++C Y+G+ + GHYT+
Sbjct: 1709 GTVAITSLIGPIIGEVLEATGYIC---YSGSNRNGHYTY 1744
Score = 45.4 bits (106), Expect = 0.055
Identities = 52/<strong>199</strong> (26%), Positives = 82/<strong>199</strong> (41%), Gaps = 4/<strong>199</strong> (2%)
Frame = +1
Query: 5146 WKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALIL 5325
+K + G +K DNNC++++ LQ + FN EA+ + + GD +F L
Sbjct: 1075 FKTTNLNGKIILKQGDNNCWINACCYQLQAFDF-FN----NEAWEKFKKGDVMDFVNLCY 1129
Query: 5326 AYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLS 5505
A + G GD + +L + +AK VL C CG+K L E ++ T
Sbjct: 1130 AATTLARGHSGDAEYLLELMLN--DYSTAKIVLAAKC-GCGEKEIVL---ERAVFKLTPL 1183
Query: 5506 YDNLKTGVSIPCVCGRDATQYLVQQESSFV----MMSAPPAEYKLQQGTFLCANEYTGNY 5673
++ GV C+ V+ FV P A + ++ + YTG
Sbjct: 1184 KESFNYGVCGDCMQVNTCRFLSVEGSGVFVHDILSKQTPEAMFVVKP---VMHAVYTGTT 1240
Query: 5674 QCGHYTHITAKETLYRIDG 5730
Q GHY + E Y +DG
Sbjct: 1241 QNGHYM-VDDIEHGYCVDG 1258
Score = 40.0 bits (92), Expect = 2.3
Identities = 46/217 (21%), Positives = 88/217 (40%), Gaps = 5/217 (2%)
Frame = +1
Query: 2176 KDAWEILKFLITGVFDIV--KGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKL 2349
K +E++ L T F IV K V + +KD V + V+ KA ++ +TIAG +
Sbjct: 416 KQIYEVVASLCTSAFTIVNYKPTFVVPDNRVKDLVDKCVKVLVKAFDVFTQIITIAGIEA 475
Query: 2350 RSLNLGEVFIAQSKGLYRQC---IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVV 2520
+ LG ++ + L + I GK+Q L A + + + T +E
Sbjct: 476 KCFVLGAKYLLFNNALVKLVSVKILGKKQKGLECAFFA---TSLVGATVNVTPKRTETAT 532
Query: 2521 LKNGELEALETPVDSFTNGAIVGTPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFRLKG 2700
+ +++ + P + + + + G M + + SP + TNNVF+
Sbjct: 533 ISLNKVDDVVAPGEGY---------IVIVGDMAFYKSGEYYFMMSSPNSVLTNNVFKAV- 582
Query: 2701 GAPIKGVTFGEDTVWEVQGYKNVRITFELDERVDKVL 2811
P + + D + + + +FE D +D +
Sbjct: 583 KVPSYDIVYDVDNDTKSKMIAKLGSSFEYDGDIDAAI 619
Score = 38.5 bits (88), Expect = 6.8
Identities = 73/339 (21%), Positives = 112/339 (33%), Gaps = 5/339 (1%)
Frame = +1

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Query: 802 YVDNNFCGPDGYPL--DCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIAWFT 975
YVD CG DG P+ KD+ D IE + Y C AW T
Sbjct: 113 YVDQYMCGADGKPVIEGDFKDYFG-----------DEDIIEFEGEEYHC-------AWTT 154
Query: 976 ERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRIRS 1155
R +K QT F I+ + + P N + + P V+K +
Sbjct: 155 VRDEKPLNQQTLFTIQEIQYNLDIPHKLP------NCATRHVAPPVKKNSKIVLSEDYKK 208
Query: 1156 VYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCE-HCGTENLVIEGPTTCGYLP 1332
+Y + S M C + T F+ AT CG+E+ + T G+
Sbjct: 209 LYDIFG---------SPFMGNGDCLSKCFDTLHFIAATLRCPCGSESSGVGDWT--GF-- 255
Query: 1333 TNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKRA 1512
K C G ++ D + T + G + F CV Y G +
Sbjct: 256 -----KTACCGLSGKVKGV--TLGDIKPGDAVVTSMSAGKGVKFFANCVLQYAGDVEGVS 308
Query: 1513 YW--VPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILAS 1686
W + + D G G+ + + + +++ I GD II
Sbjct: 309 IWKVIKTFTVDETVCTPGFEGELNDFIKPESKSLVACSVKRAFITGDIDDAVHDCIITGK 368
Query: 1687 FSASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVK 1803
ST+ F + L +K V+ CG V K V+
Sbjct: 369 LDLSTNLFGNV--GLLFKKTPWFVQKCGALFVDAWKVVE 405
>gi|9635158|ref|NP_058423.1| replicase [Transmissible gastroenteritis virus]
gi|7801349|emb|CAB91144.1| replicase [Transmissible gastroenteritis virus]
Length = 4017
Score = 999 bits (2583), Expect = 0.0
Identities = 681/2193 (31%), Positives = 1048/2193 (47%), Gaps = 47/2193 (2%)
Frame = +1
Query: 6967 CNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETIQVTISSYKLDLTILG 7146
CNG + Y NSS + + C S C CL+ D L + + +QVT +K D
Sbjct: 1921 CNGAVQAYKNSSFIKSA-VCGNSILCKACLASYDELADF---QHLQVTWD-FKSDPLWNR 1975
Query: 7147 LAAEWVLAYMLFTKFFYLLGLSAIMQVFFGYFASHFISNSWLMWF-------IISIVQMA 7305
L L+Y F F + ++ F YF S ++ N WL +F + +V
Sbjct: 1976 LVQ---LSYFAFLAVFG----NNYVRCFLMYFVSQYL-NLWLSYFGYVEYSWFLHVVNFE 2027
Query: 7306 PVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMKRSFY 7485
+SA + + K HI+ C++ +C C + R TR+ +VNG ++ Y
Sbjct: 2028 SISAEFVIVVIVVKAVLALK---HIVFACSNPSCKTCSRTARQTRIPIQVVVNGSMKTVY 2084
Query: 7486 VYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVA 7665
V+ANG FCK HN+ C NCD++ +TFI DE+ RDLS K+ + TD+S V V
Sbjct: 2085 VHANGTGKFCKKHNFYCKNCDSYGFENTFICDEIVRDLSNSVKQTVYATDRSHQEVTKVE 2144
Query: 7666 VKNGALHLY---------FDKAGQKTYERHPLSHFVNLDNLRANNTKGSLPINVIVFDGK 7818
+G Y +D +K + L + LD+ + GS NV
Sbjct: 2145 CSDGFYRFYVGDEFTSYDYDVKHKKYSSQEVLKSMLLLDDFIVYSPSGSALANV------ 2198
Query: 7819 SKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVPM 7998
++A VY+SQL+ +PI +++ L+ D+ S + +F+A + +F+V +
Sbjct: 2<strong>199</strong> --------RNACVYFSQLIGKPIKIVNSDLLEDL--SVDFKGALFNAKKNVIKNSFNVDV 2248
Query: 7999 EKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHSDLEVT 8178
+ K L E + L+ STF A +H + +T

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Sbjct: 2249 SECKNL-----DECYRACNLNVSFSTFEMAVNN------------------AHRFGILIT 2285
Query: 8179 GDSCNNFMLTYNKV--ENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQ 8352
S NNF + K ++ D+G C+ +A+ +NA+V S++W +D+ +LS
Sbjct: 2286 DRSFNNFWPSKVKPGSSGVSAMDIGKCMTSDAKIVNAKVLTQRGKSVVWLSQDFAALSST 2345
Query: 8353 LRKQIRSAAKKNNIPFRLTCATTRQVVNV----ITTKISLKGGK---IVSTCFK--LMLK 8505
+K + + + F LT ++ T +S K G V T K ++L
Sbjct: 2346 AQKVLVKTFVEEGVNFSLTFNAVGSDDDLPYERFTESVSPKSGSGFFDVITQLKQIVILV 2405
Query: 8506 ATXXXXXXXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFANKHAGFD 8685
Y V + +GY Y I++G+ + T C N + GF
Sbjct: 2406 FVFIFICGLCSVYSVATQSYIESAEGYD-----YMVIKNGIVQPFDDTISCVHNTYKGFG 2460
Query: 8686 AWFSQRGGSYKN-DKSCP-VVAAIITREIGFIVPGLPGTVLRAINGDFLHFLPRVFSAVG 8859
WF + G KSCP VV + E +P +P V +I G L F V
Sbjct: 2461 DWFKAKYGFIPTFGKSCPIVVGTVFDLENMRPIPDVPAYV--SIVGRSLVFAINAAFGVT 2518
Query: 8860 NICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYSELRPDTR 9039
N+CY + D CV CT +G + YC L+EG+ YS+L PD
Sbjct: 2519 NMCYDHTGNAVSKDSYFDTCVFNTACTTLT-GLGGTIVYCAKQGLVEGAKLYSDLMPDYY 2577
Query: 9040 YVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWVLNNEHYRA 9219
Y G++++ P +R V T YCR G C S+ G C +V +NE
Sbjct: 2578 YEHASGNMVKLPAIIRGLGLRFVKTQATTYCRVGECIDSKAGFCFGGDNWFVYDNEFG-- 2635
Query: 9220 LSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFMKFRRVFGE 9399
+G CG + N+F + + S +++ IIA L Y +KF+++FG+
Sbjct: 2636 -NGYICGNSVLGFFKNVFKLFNSNMSVVATSGAMLVNIIIACLAIAMCYGVLKFKKIFGD 2694
Query: 9400 YNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAHLQ--WFAM 9573
++ ++ L+ + V +F +Y++ Y ++ T +++ L +
Sbjct: 2695 CTFLIVM-IIVTLVVNNVSYFVTQNTFFMIIYAIVY----YFITRKLAYPGILDAGFIIA 2749
Query: 9574 FSPIVPFWITAIYVFCISLKHCHWFFNNYLRKRVMFNGVTFSTFEEAALCTFLLNKEMYL 9753
+ + P+++ Y+ F + + FE AA+ TF+++ Y
Sbjct: 2750 YINMAPWYVITAYILVFLYDSLPSLFKLKVSTNLFEGDKFVGNFESAAMGTFVIDMRSYE 2809
Query: 9754 KLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFSNSGADVLYQ 9933
+ + T + + Y +NKYKY++G++ YR A HL KAL D+S + D+LY
Sbjct: 2810 TIVNST--SIARIKSYANSFNKYKYYTGSMGEADYRMACYAHLGKALMDYSVNRTDMLYT 2867
Query: 9934 PPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAED 10113
PP S+ S LQSG RKMA PSG VE C+V+V+ G LNGLWL D V CPRHVI +
Sbjct: 2868 PPTVSVNST-LQSGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTT 2926
Query: 10114 MLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGHSMQNCLLRLKVDTSNPKTPKYKFVRIQP 10293
+ NYE+ + H+F V NV L V+ + L LKV+ NP TP++KF I+
Sbjct: 2927 RVI-NYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKA 2985
Query: 10294 GQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFCYMHHMELP 10473
G++F++LACY G P VY MR TIKGSF+ G+CGSVG+ ++ + F YMHH+EL
Sbjct: 2986 GESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELG 3045
Query: 10474 TGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLN 10653
G H G++ EG+ YG + D+ + Q GT+ + NV+A+LYAA+ING+RWF+ + +L
Sbjct: 3046 NGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLE 3105
Query: 10654 DFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILE 10833
+N A ++ L+ D L+A+TG +V + ++ L G GRTIL L

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Sbjct: 3106 SYNTWAKTNSFTELSS--TDAFSMLAAKTGQSVEKLLDSIVRL-NKGFGGRTILSYGSLC 3162
Query: 10834 DEFTPFDVVRQCSGVTFQ-GKFKKIVKGTHHWMXXXXXXXXXXXVQSTQWSLFFFVYENA 11010
DEFTP +V+RQ GV Q GK VK + + ++ ++ F ++
Sbjct: 3163 DEFTPTEVIRQMYGVNLQAGK----VKSFFYPIMTAMTILFAFWLEFFMYTPFTWI-NPT 3217
Query: 11011 FLPFTLGIMAIAACAMLL-VKHKHAFLCLFLLPSLATVAYFNMVYMPASWVMRIMTWLEL 11187
F+ L + + + + +KHK F F+LPS+ V N+ + S+ + + +E
Sbjct: 3218 FVSIVLAVTTLISTVFVSGIKHKMLFFMSFVLPSVILVTAHNL-FWDFSYYESLQSIVEN 3276
Query: 11188 ADTSLSGYRLKDCVMYASALVLLILMTARTVYDDAARRVWTLMNVITLVY---KVYYGNA 11358
+T ++ ++ ++ + + R ++ W + V T++ V
Sbjct: 3277 TNTMFLPVDMQGVMLTVFCFIVFVTYSVRFF---TCKQSWFSLAVTTILVIFNMVKIFGT 3333
Query: 11359 LDQA----------ISMWALVISVTSNYSGVVTTIMFLARAIVFVCVEYYPLLFITG-NT 11505
D+ ++M +++S+T+ VV +A IV VCV P F++
Sbjct: 3334 SDEPWTENQIAFCFVNMLTMIVSLTTKDWMVVIASYRIAYYIV-VCV--MPSAFVSDFGF 3390
Query: 11506 LQCIMLVXXXXXXXXXXXXXXXXXXNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSI 11685
++CI +V
NR+ +T GVY + VS E +YM + L PK++
Sbjct: 3391 MKCISIVYMACGYLFCCYYGILYWVNRFTCMTCGVYQFTVSAAELKYMTANNLSAPKNAY 3450
Query: 11686 DAFKLNIKLLGIGGKPCIKVATVQSKMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLH 11865
DA L+ KL+G+GGK IK++TVQSK++++KCT
K W CV LH
Sbjct: 3451 DAMILSAKLIGVGGKRNIKISTVQSKLTEMKCTNVVLLGLLSKMHVESNSKEWNYCVGLH 3510
Query: 11866 NDILLAKDTTEAFEKMXXXXXXXXXMQGAVDINRLCEEMLDNRATLQAIASEFSSLPSXX 12045
N+I L D EK+ D++ L E +N LQ++AS +++LPS
Sbjct: 3511 NEINLCDDPEIVLEKLLALIAFFLSKHNTCDLSELIESYFENTTILQSVASAYAALPSWI 3570
Query: 12046 XXXXXXXXXXXXXXNGDXXXXXXXXXXXXXXXXXEFDRDAAMQRKLEKMADQAMTQMYKQ 12225
N +F+R+A++Q+KL+KMA+QA MYK+
Sbjct: 3571 ALEKARADLEEAKKNDVSPQILKQLTKAFNIAKSDFEREASVQKKLDKMAEQAAASMYKE 3630
Query: 12226 ARSEDKRAKVTSAMQTMLFTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVP 12405
AR+ D+++K+ SAM ++LF ML+K
R+G +PL+IIP +A +L+V+ P
Sbjct: 3631 ARAVDRKSKIVSAMHSLLFGMLKKLDMSSVNTIIDQARNGVLPLSIIPAASATRLVVITP 3690
Query: 12406 DYGTYKNTCDGNTFTYASALWEIQQVVDADSKIVQLSEINMDNSPNLAWPLIVTALRANS 12585
+ N YA A+W I +V DA+ V L E+ N NL WPL +T R
Sbjct: 3691 SLEVFSKIRQENNVHYAGAIWTIVEVKDANGSHVHLKEVTAANELNLTWPLSITCERTT- 3749
Query: 12586 AVKLQNNELSPVALRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWAR 12765
KLQNNE+ P L++ + A T + A + G F+ A ++ +LK+ +
Sbjct: 3750 --KLQNNEIMPGKLKERAVRASATLDGEAFGSGKALMASESGKSFMYAFIASDNNLKYVK 3807
Query: 12766 FPKSDGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQAG 12945
+ ++ I ELE P RF D GP+VKYLYF+K LN L RG VLG + ATVRLQAG
Sbjct: 3808 WESNNDI--IPIELEAPLRFYVDGANGPEVKYLYFVKNLNTLRRGAVLGYIGATVRLQAG 3865
Query: 12946 NATEVPANSTVLSFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEAN 13125
TE P+NS++L+ CAF+ DPAKAY D + G QP+ NCVKML G G A+T EAN
Sbjct: 3866 KPTEHPSNSSLLTLCAFSPDPAKAYVDAVKRGMQPVNNCVKMLSNGAGNGMAVTNGVEAN 3925
Query: 13126 MDQESFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGM 13305
Q+S+GGAS C+YCRCH++HP G C KGK+VQIPT DP+ F + N VC VCG
Sbjct: 3926 TQQDSYGGASVCIYCRCHVEHPAIDGLCRYKGKFVQIPTG-TQDPIRFCIENEVCVVCGC 3984
Query: 13306 WKGYGCSCDQLREPLMQSADASTFLNGFAV*VQ 13404
W GC CD R + ++LN V VQ

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Sbjct: 3985 WLNNGCMCD--RTSMQSFTVDQSYLNECGVLVQ 4015
Score = 64.7 bits (156), Expect = 9e-08
Identities = 63/211 (29%), Positives = 94/211 (44%), Gaps = 3/211 (1%)
Frame = +1
Query: 3343 PMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGSCLLSGHNLAKK 3522
P VIVNAAN LKH GGVA A++ T G + + S DY+K N + G +
Sbjct: 1347 PDVIVNAANGDLKHMGGVARAIDVFTGGKLTERSKDYLKKNKSIAPGNAVFFENVIEHLS 1406
Query: 3523 CLHVVGP-NLNAGEDIQLLKAAYENFNSQDILLAPLLSAGIFGAKPLQSLQVCVQTVRTQ 3699
L+ VGP N ++ + +L + +L PL+S GIF + SLQ ++T
Sbjct: 1407 VLNAVGPRNGDSRVEAKLCNVYKAIAKCEGKILTPLISVGIFNVRLETSLQCLLKT---- 1462
Query: 3700 VYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPP--NTEDSKTEEKSVVQKPVDVKPKI 3873
VND+ L V Y D + +E P TED+ E+ V ++
Sbjct: 1463 ----VNDRGLN---VFVYTDQERQTIENFFSCSIPVNVTEDNVNHERVSVSFDKTYGEQL 1515
Query: 3874 KACIDEVTTTLEETKFLTNKLLLFADINGKL 3966
K T + + K +TN+L D+ K+
Sbjct: 1516 KG------TVVIKDKDVTNQLPSAFDVGQKV 1540
Score = 47.4 bits (111), Expect = 0.015
Identities = 66/279 (23%), Positives = 102/279 (36%), Gaps = 7/279 (2%)
Frame = +1
Query: 4879 TIKVFTTVDNTNLHTQLVDMSMTYGQQF-GPTYLDGADVTKIKPHVNHEGKTFFVLPSDD 5055
+I V T DN N V TYG+Q G + DVT P G+ D
Sbjct: 1488 SIPVNVTEDNVNHERVSVSFDKTYGEQLKGTVVIKDKDVTNQLPSAFDVGQKVIKAIDID 1547
Query: 5056 TLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSI--KWADNNCYLSSVLLAL 5229
F SA +H +KF V I K DNNC+++++ LAL
Sbjct: 1548 WQAHYGFRD---------AAAFSASSHDA-YKFEVVTHSNFIVHKQTDNNCWINAICLAL 1597
Query: 5230 QQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLES 5409
Q+L+ ++ P ++ + F ++ S GE GD E M H L
Sbjct: 1598 QRLKPQWKFPGVRGLWNEFLERKTQGFVHMLYHISGVKKGEPGDA-ELMLHKLGDLMDND 1656
Query: 5410 AKRVL--NVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQE 5583
+ ++ C C + + V A G CV G + Q +
Sbjct: 1657 CEIIVTHTTACDKCAKVEKFVGPVVAAPL--------AIHGTDETCVHGVSVNVKVTQIK 1708
Query: 5584 SSFVMMS--APPAEYKLQQGTFLCANEYTGNYQCGHYTH 5694
+ + S P L+ ++C Y+G+ + GHYT+
Sbjct: 1709 GTVAITSLIGPIIGEVLEATGYIC---YSGSNRNGHYTY 1744
Score = 45.4 bits (106), Expect = 0.055
Identities = 52/<strong>199</strong> (26%), Positives = 82/<strong>199</strong> (41%), Gaps = 4/<strong>199</strong> (2%)
Frame = +1
Query: 5146 WKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALIL 5325
+K + G +K DNNC++++ LQ + FN EA+ + + GD +F L
Sbjct: 1075 FKTTNLNGKIILKQGDNNCWINACCYQLQAFDF-FN----NEAWEKFKKGDVMDFVNLCY 1129

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Query: 5326 AYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLS 5505
A + G GD + +L + +AK VL C CG+K L E ++ T
Sbjct: 1130 AATTLARGHSGDAEYLLELMLN--DYSTAKIVLAAKC-GCGEKEIVL---ERAVFKLTPL 1183
Query: 5506 YDNLKTGVSIPCVCGRDATQYLVQQESSFV----MMSAPPAEYKLQQGTFLCANEYTGNY 5673
++ GV C+ V+ FV P A + ++ + YTG
Sbjct: 1184 KESFNYGVCGDCMQVNTCRFLSVEGSGVFVHDILSKQTPEAMFVVKP---VMHAVYTGTT 1240
Query: 5674 QCGHYTHITAKETLYRIDG 5730
Q GHY + E Y +DG
Sbjct: 1241 QNGHYM-VDDIEHGYCVDG 1258
Score = 40.8 bits (94), Expect = 1.4
Identities = 46/217 (21%), Positives = 88/217 (40%), Gaps = 5/217 (2%)
Frame = +1
Query: 2176 KDAWEILKFLITGVFDIV--KGQIQVASDNIKDCVKCFIDVVNKALEMCIDQVTIAGAKL 2349
K +E++ L T F IV K V + +KD V + V+ KA ++ +TIAG +
Sbjct: 416 KQIYEVVASLCTSAFTIVNYKPTFVVPDNRVKDLVDKCVKVLVKAFDVFTQIITIAGIEA 475
Query: 2350 RSLNLGEVFIAQSKGLYRQC---IRGKEQLQLLMPLKAPKEVTFLEGDSHDTVLTSEEVV 2520
+ LG ++ + L + I GK+Q L A + + + T +E
Sbjct: 476 KCFVLGAKYLLFNNALVKLVSVKILGKKQKGLECAFFA---TSLVGATVNVTPKRTETAT 532
Query: 2521 LKNGELEALETPVDSFTNGAIVGTPVCVNGLMLLEIKDKEQYCALSPGLLATNNVFRLKG 2700
+ +++ + P + + + + G M + + SP + TNNVF+
Sbjct: 533 ISLNKVDDVVAPGEGY---------IVIVGDMAFYKSGEYYFMMSSPNFVLTNNVFKAV- 582
Query: 2701 GAPIKGVTFGEDTVWEVQGYKNVRITFELDERVDKVL 2811
P + + D + + + +FE D +D +
Sbjct: 583 KVPSYDIVYDVDNDTKSKMIAKLGSSFEYDGDIDAAI 619
Score = 38.5 bits (88), Expect = 6.8
Identities = 73/339 (21%), Positives = 112/339 (33%), Gaps = 5/339 (1%)
Frame = +1
Query: 802 YVDNNFCGPDGYPL--DCIKDFLARAGKSMCTLSEQLDYIESKRGVYCCRDHEHEIAWFT 975
YVD CG DG P+ KD+ D IE + Y C AW T
Sbjct: 113 YVDQYMCGADGKPVIEGDFKDYFG-----------DEDIIEFEGEEYHC-------AWTT 154
Query: 976 ERSDKSYEHQTPFEIKSAKKFDTFKGECPKFVFPLNSKVKVIQPRVEKKKTEGFMGRIRS 1155
R +K QT F I+ + + P N + + P V+K +
Sbjct: 155 VRDEKPLNQQTLFTIQEIQYNLDIPHKLP------NCATRHVAPPVKKNSKIVLSEDYKK 208
Query: 1156 VYPVASPQECNNMHLSTLMKCNHCDEVSWQTCDFLKATCE-HCGTENLVIEGPTTCGYLP 1332
+Y + S M C + T F+ AT CG+E+ + T G+
Sbjct: 209 LYDIFG---------SPFMGNGDCLSKCFDTLHFIAATLRCPCGSESSGVGDWT--GF-- 255
Query: 1333 TNAVVKMPCPACQDPEIGPEHSVADYHNHSNIETRLRKGGRTRCFGGCVFAYVGCYNKRA 1512
K C G ++ D + T + G + F CV Y G +
Sbjct: 256 -----KTACCGLSGKVKGV--TLGDIKPGDAVVTSMSAGKGVKFFANCVLQYAGDVEGVS 308
Query: 1513 YW--VPRASADIGSGHTGITGDNVETLNEDLLEILSRERVNINIVGDFHLNEEVAIILAS 1686
W + + D G G+ + + + +++ I GD II
Sbjct: 309 IWKVIKTFTVDETVCTPGFEGELNDFIKPESKSLVACSVKRAFITGDIDDAVHDCIITGK 368

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Query: 1687 FSASTSAFIDTIKSLDYKSFKTIVESCGNYKVTKGKPVK 1803
ST+ F + L +K V+ CG V K V+
Sbjct: 369 LDLSTNLFGNV--GLLFKKTPWFVQKCGALFVDAWKVVE 405
>gi|9626536|ref|NP_040829.1| ORF1a polyprotein [Avian infectious bronchitis virus]
gi|138147|sp|P27920|VGF1_IBVB F1 PROTEIN
gi|74825|pir||VFIHB1 F1 protein - avian infectious bronchitis virus (strain Beaudette)
gi|292952|gb|AAA70233.1| pol protein [Avian infectious bronchitis virus]
gi|331172|gb|AAA46223.1| ORF1a [Avian infectious bronchitis virus]
gi|14149034|emb|CAC39113.1| replicase polyprotein 1a [Avian infectious bronchitis virus (s
Beaudette CK)]
Length = 3951
Score = 981 bits (2536), Expect = 0.0
Identities = 709/2252 (31%), Positives = 1060/2252 (47%), Gaps = 104/2252 (4%)
Frame = +1
Query: 6961 SYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETIQVTISSYKLDLTI 7140
S C ++ +S +V + +C F C +CL DSL Y +++
Sbjct: 1783 SLCGPYKDYGKDSFDV--LRYCADDFICRVCLHDKDSLHLYKHAYSVEQVYKD-----AA 1835
Query: 7141 LGLAAEWVLAYMLFTKFFY--LLGLSAIMQVFFGYFASHFISNSWLMWFIISIVQMAPVS 7314
G W Y++F F + G V Y + + NS ++ + + V
Sbjct: 1836 SGFIFNWNWLYLVFLILFVKPVAGF-----VIICYCVKYLVLNSTVLQTGVCFLDWF-VQ 1889
Query: 7315 AMVRMYIFFASFYYIWKSY-----VHIMDGCTSSTCMMCYKRNRATRVECTTIVNGMKRS 7479
+ + F + +Y W Y VH + C TC +C + R+ R E + +V G K+
Sbjct: 1890 TVFSHFNFMGAGFYFWLFYKIYIQVHHILYCKDVTCEVCKRVARSNRQEVSVVVGGRKQI 1949
Query: 7480 FYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTDQSSYIVDS 7659
+VY N G FCK HNW C NCD + +TF+S EVA +LS + KR + PT + ++VD
Sbjct: 1950 VHVYTNSGYNFCKRHNWYCRNCDDYGHQNTFMSPEVAGELSEKLKRHVKPTAYAYHVVDE 2009
Query: 7660 VAVKNGALHLYFDKAGQ-KTYERHPLSHFVNLDNLR-ANNTKGSLPINVIVFDGKSKCDE 7833
+ + ++L + A K + F D L+ A K +L I DG C+
Sbjct: 2010 ACLVDDFVNLKYKAATPGKDSASSAVKCFSVTDFLKKAVFLKEALKCEQISNDGFIVCNT 2069
Query: 7834 SAS------KSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDTFSATFSVP 7995
++ K+A++YY+Q +C+PIL+LDQAL + VS + D S+ SV
Sbjct: 2070 QSAHALEEAKNAAIYYAQYLCKPILILDQALYEQLVVEP-VSKSVIDKVCSILSSIISVD 2128
Query: 7996 MEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKLSHHSDLEV 8175
TA G D +LS ++ H+ D++
Sbjct: 2129 ---------TAALNYKAGTLRDALLSI-------------TKDEEAVDMAIFCHNHDVDY 2166
Query: 8176 TGDSCNNFMLTYN-KVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVKDYMSLSEQ 8352
TGD N + +Y +TPRD G I+ +A N +V + V +W + + LS+
Sbjct: 2167 TGDGFTNVIPSYGIDTGKLTPRDRGFLINADASIANLRVKNAPPV--VWKFSELIKLSDS 2224
Query: 8353 LRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISL--KGGKIVS---TCFKLMLKATXX 8517
K + SA K+ + F +T + +QV+ T K+ + K G IVS CFK K
Sbjct: 2225 CLKYLISATVKSGVRFFITKSGAKQVIACHTQKLLVEKKAGGIVSGTFKCFKSYFKWLLI 2284
Query: 8518 XXXXXXX---XYIVMPVHTLSIHDGY----TNEIIGYKAIQDGVTRDIISTDDCFANKHA 8676
Y M V +H Y T + G+K I GV R+I+ D CF+NK
Sbjct: 2285 FYILFTACCSGYYYMEVSKSFVHPMYDVNSTLHVEGFKVIDKGVLREIVPEDTCFSNKFV 2344
Query: 8677 GFDAWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGD-FLH-------- 8829

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FDA++ G Y N ++CP+V A+I + G + G+PG V ++G F+H
Sbjct: 2345 NFDAFW---GRPYDNSRNCPIVTAVIDGD-GTVATGVPGFVSWVMDGVMFIHMTQTERKP 2400
Query: 8830 -FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYD-TNLLEG 9003
++P F+ + YT +I F TS + +A C ++ A P YC++ N G
Sbjct: 2401 WYIPTWFNRE-IVGYTQDSIITEGSFYTSIALFSARC-LYLTASNTPQLYCFNGDNDAPG 2458
Query: 9004 SISYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTS 9183
++ + + P Y +G + P L + VV YCR CE + G C+S +
Sbjct: 2459 ALPFGSIIPHRVYFQPNGVRLIVPQQILH-TPYVVKFVSDSYCRGSVCEYTRPGYCVSLN 2517
Query: 9184 GRWVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAA 9363
+WVL N+ Y + GVFCG L+ ++ + V ++ + +I ++V
Sbjct: 2518 PQWVLFNDEYTSKPGVFCGSTVRELMFSMVSTFFTGVNP-NIYMQLATMFLILVVVVLIF 2576
Query: 9364 YYFMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVS 9543
+KF+ VF Y V L+++++ ILC+ S L + V Y Y + + +
Sbjct: 2577 AMVIKFQGVFKAYATTVFITMLVWVINAFILCVHSYNSVLAVILLVLYCYASLVTSRNTV 2636
Query: 9544 FLAHLQWFAMFSPIVPFWITAIYVFCISLKHCH---WFFNNYLRKRVMFNGVTF-STFEE 9711
+ H F IVP W+ Y+ I + W + R +++G F ++
Sbjct: 2637 IIMHCWLVFTFGLIVPTWLACCYLGFIIYMYTPLFLWCYGTTKNTRKLYDGNEFVGNYDL 2696
Query: 9712 AALCTFLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKA 9891
AA TF++ ++KL +E ++ YL+ Y + KY+SG Y +A LA A
Sbjct: 2697 AAKSTFVIRGSEFVKLTNEIG---DKFEAYLSAYARLKYYSGTGSEQDYLQACRAWLAYA 2753
Query: 9892 LNDFSNSGADVLYQPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDD 10071
L+ + NSG +++Y PP+ SI + LQSGF+K+ PS VE C+V V+ LNGLWL D
Sbjct: 2754 LDQYRNSGVEIVYTPPRYSIGVSRLQSGFKKLVSPSSAVEKCIVSVSYRGNNLNGLWLGD 2813
Query: 10072 TVYCPRHVICTAEDMLNPNYEDLLIRKSNHSFLVQAGN-VQLRVIGHSMQNCLLRLKVDT 10248
T+YCPRHV+ + D+L +NH F V + V L V+ ++ +L L+
Sbjct: 2814 TIYCPRHVL---GKFSGDQWNDVLNLANNHEFEVTTQHGVTLNVVSRRLKGAVLILQTAV 2870
Query: 10249 SNPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNID 10428
+N +TPKYKF++ G +F++ Y G+ G+Y MR N TI+ SFL G+CGSVGFNI+
Sbjct: 2871 ANAETPKYKFIKANCGDSFTIACAYGGTVVGLYPVTMRSNGTIRASFLAGACGSVGFNIE 2930
Query: 10429 YDCVSFCYMHHMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVI 10608
V+F YMHH+ELP +H GTDL G+FYG +VD + AQ D +T N++AWLYAA+I
Sbjct: 2931 KGVVNFFYMHHLELPNALHTGTDLMGEFYGGYVDEEVAQRVPPDNLVTNNIVAWLYAAII 2990
Query: 10609 NG-------DRWFLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCA 10767
+ +W L T +++D+N A + P + + LSA TG+ D+C
Sbjct: 2991 SVKESSFSLPKW-LESTTVSVDDYNKWAGDNGFTPFSTS--TAITKLSAITGV---DVCK 3044
Query: 10768 ALKELL--QNGMNGRTILGSTILEDEFTPFDVVRQCSGVTFQGKFKKIVKGTHHW----- 10926
L+ ++ + G ILG EDE TP V Q GV Q F V+ W
Sbjct: 3045 LLRTIMVKNSQWGGDPILGQYNFEDELTPESVFNQIGGVRLQSSF---VRKATSWFWSRC 3101
Query: 10927 MXXXXXXXXXXXVQSTQWSLFFFVYENAFLPFTLGIMAIAACAMLLVKHKHAFLCLFLLP 11106
+ V T L F+VY L +MA+ + VKH A++ FLLP
Sbjct: 3102 VLACFLFVLCAIVLFTAVPLKFYVYAAVIL-----LMAVLFIS-FTVKHVMAYMDTFLLP 3155
Query: 11107 SLATV-----AYFNMVY--MPASWVMRIMTWLE--LADT-------SLSGYRLKDCVM-- 11232
+L TV A +Y + + V+ + W + + DT L Y CV
Sbjct: 3156 TLITVIIGVCAEVPFIYNTLISQVVIFLSQWYDPVVFDTMVPWMFLPLVLYTAFKCVQGC 3215
Query: 11233 YASALVLLILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALDQAISMWALVISVTSNY 11412

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Y ++ +LM + V ++T N +T + GN W L +
Sbjct: 3216 YMNSFNTSLLMLYQFV--KLGFVIYTSSNTLTAYTE---GN--------WELFFELVHTT 3262
Query: 11413 SGVVTTIMFLARAIVFVCVE----YYPLLFITGNTLQCIMLVXXXXXXXXXXXXXXXXXX 11580
+ L VF C + Y ++ L +M+
Sbjct: 3263 VLANVSSNSLIGLFVFKCAKWMLYYCNATYLNNYVLMAVMV--NCIGWLCTCYFGLYWWV 3320
Query: 11581 NRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGIGGKPCIKVATVQS 11760
N+ F LTLG Y++ VS ++RYM + PPK+ + F NI + GIGG + +ATVQ+
Sbjct: 3321 NKVFGLTLGKYNFKVSVDQYRYMCLHKINPPKTVWEVFSTNILIQGIGGDRVLPIATVQA 3380
Query: 11761 KMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKDTTEAFEKMXXXXXXXXX 11940
K+SDVKCT K+ V+LHN IL + D E + +
Sbjct: 3381 KLSDVKCTTVVLMQLLTKLNVEANSKMHVYLVELHNKILASDDVGECMDNLLGMLITLFC 3440
Query: 11941 MQGAVDINRLCEEMLDNRATLQAIASEFSSLPSXX----XXXXXXXXXXXXXXNGDXXXX 12108
+ +D++ C+++L LQ++ EFS +PS G
Sbjct: 3441 IDSTIDLSEYCDDILKRSTVLQSVTQEFSHIPSYAEYERAKNLYEKVLVDSKNGGVTQQE 3500
Query: 12109 XXXXXXXXXXXXXEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAMQTMLFTM 12288
FDRD A+Q+KL+ MA++AMT MYK+AR D+RAK+ S++ +LF+M
Sbjct: 3501 LAAYRKAANIAKSVFDRDLAVQKKLDSMAERAMTTMYKEARVTDRRAKLVSSLHALLFSM 3560
Query: 12289 LRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGNTFTYASALW 12468
L+K G VPL +P+ + KL +V+PD T+ +G TY++ +W
Sbjct: 3561 LKKIDSEKLNVLFDQASSGVVPLATVPIVCSNKLTLVIPDPETWVKCVEGVHVTYSTVVW 3620
Query: 12469 EIQQVVDADSKIVQLSEINMD-----NSPNLAWPLIVTALRANS---AVKLQNNELSPVA 12624
I V+DAD + + + N+AWPL V R V LQNNEL P
Sbjct: 3621 NIDTVIDADGTELHPTSTGSGLTYCISGANIAWPLKVNLTRNGHNKVDVVLQNNELMPHG 3680
Query: 12625 LRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKSDGTGTIYTE 12804
++ +C AG Q C+ ++ YY N G V A+ S + +LK A F G IY +
Sbjct: 3681 VKTKACVAGVDQAHCSVESK-CYYTNISGNSVVAAITSSNPNLKVASFLNEAG-NQIYVD 3738
Query: 12805 LEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQA-GNATEVPANSTVL 12981
L+PPC+F +V YLYFIK ++ RGMVLG+++ V LQ+ G+ TE +L
Sbjct: 3739 LDPPCKFGMKVGVKVEVVYLYFIKNTRSIVRGMVLGAISNVVVLQSKGHETEEVDAVGIL 3798
Query: 12982 SFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQESFGGASCC 13161
S C+FAVDPA Y Y+A+G QP+ NCVKML H G+G AIT P DQ+S+GGAS C
Sbjct: 3799 SLCSFAVDPADTYCKYVAAGNQPLGNCVKMLTVHNGSGFAITSKPSPTPDQDSYGGASVC 3858
Query: 13162 LYCRCHIDHP----NPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCGMWKGYGCSC 13329
LYCR HI HP N G C KG +VQIPTT DPVGF LRN VCTVC W GYGC C
Sbjct: 3859 LYCRAHIAHPGSVGNLDGRCQFKGSFVQIPTT-EKDPVGFCLRNKVCTVCQCWIGYGCQC 3917
Query: 13330 DQLREP---LMQSADASTF----LNGFAV*VQ 13404
D LR+P + A AS F LNG+ V V+
Sbjct: 3918 DSLRQPKSSVQSVAGASDFDKNYLNGYGVAVR 3949
Score = 67.0 bits (162), Expect = 2e-08
Identities = 59/242 (24%), Positives = 103/242 (42%), Gaps = 2/242 (0%)
Frame = +1
Query: 4888 VFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRS 5067
++ T D + ++ + GQ FG Y V + E K +P+ D
Sbjct: 1180 IYLTEDGVKYRSIVLKPGDSLGQ-FGQVYAKNKIVFTAD---DVEDKEILYVPTTD---K 1232

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Query: 5068 EAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVK 5247
EYY LD Y+ L +KW ++W D NC++SS ++ LQ +++
Sbjct: 1233 SILEYYG-LDAQKYVIYLQTL--AQKWNVQYRDNFLILEWRDGNCWISSAIVLLQAAKIR 1289
Query: 5248 FNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLN 5427
F L EA+ + GD +F A A VG+ D + +L +H + + L
Sbjct: 1290 FKG-FLTEAWAKLLGGDPTDFVAWCYASCTAKVGDFSDANWLLANLAEHFDADYTNAFLK 1348
Query: 5428 V-VCKHCGQKTTTLTGVEA-VMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 5601
V +CG K+ L G+EA + + + + KT S CG + T +++ ++++
Sbjct: 1349 KRVSCNCGIKSYELRGLEACIQPVRATNLLHFKTQYSNCPTCGANNTDEVIEASLPYLLL 1408
Query: 5602 SA 5607
A
Sbjct: 1409 FA 1410
Score = 50.1 bits (118), Expect = 0.002
Identities = 55/191 (28%), Positives = 81/191 (42%), Gaps = 8/191 (4%)
Frame = +1
Query: 3310 VDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGS 3489
V I K IVNAAN H+ HG GVA A+ + +DY+K +GP
Sbjct: 1025 VVIAKALDEFKEFCIVNAANEHMTHGSGVAKAIADFCGLDFVEYCEDYVKKHGPQQ---R 1081
Query: 3490 CLLSGHNLAKKCL-HVVGPNLNAGEDIQLLKAAYENFNSQDIL--LAPLLSAGIFGAKPL 3660
+ +C+ +VVGP + L AAY+N ++ + P+LS GIFG
Sbjct: 1082 LVTPSFVKGIQCVNNVVGPRHGDNNLHEKLVAAYKNVLVDGVVNYVVPVLSLGIFGVDFK 1141
Query: 3661 QSLQVCVQ-----TVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDSKT 3825
S+ + T+R ++ Q +DY D KQ+ TED
Sbjct: 1142 MSIDAMREAFEGCTIRVLLF-------SLSQEHIDYFD------VTCKQKTIYLTEDG-V 1187
Query: 3826 EEKSVVQKPVD 3858
+ +S+V KP D
Sbjct: 1188 KYRSIVLKPGD 1198
>gi|29293453|gb|AAO67705.1|
Length = 3971
ORF1a polyprotein [Avian infectious bronchitis virus]
Score = 978 bits (2527), Expect = 0.0
Identities = 700/2261 (30%), Positives = 1074/2261 (47%), Gaps = 113/2261 (4%)
Frame = +1
Query: 6961 SYCNGVRELYLNSSNVTTMDFCEGSFPCSICLSGLDSLDSYPALETIQVTISSYKLDLTI 7140
S+C+ + S +V + +C F C +CL G DSL Y +++ +
Sbjct: 1802 SFCSPYADYGKESFDV--LRYCGSDFTCRVCLHGRDSLHLYKHAYSVEQFYKD-----AV 1854
Query: 7141 LGLAAEWVLAYMLFTKFF---------------YLLGLSAIMQVFFGYFASHFISNSWLM 7275
G++ W YMLF F YL+ + ++Q G+ L
Sbjct: 1855 NGISFTWNWLYMLFLILFVKPVAGFVIICYCIRYLVLSTTVLQTGVGF----------LD 1904
Query: 7276 WFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTCMMCYKRNRATRVECTT 7455
WFI ++ A + M + F+ FY I+ HIM C TC +C + R+ R E +
Sbjct: 1905 WFIQTV--FANFNFMGAGFYFWL-FYKIYIQVHHIMY-CKDITCEVCKRVARSNRHEVSV 1960

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Query: 7456 IVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEVARDLSLQFKRPINPTD 7635
+VNG K+ +VY N G FCK HNW C NCD + +TF+S EVA +LS + KR + PT
Sbjct: 1961 VVNGRKQLVHVYTNSGYSFCKRHNWYCKNCDKYGHQNTFMSPEVAGELSEKLKRHVKPTA 2020
Query: 7636 QSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNL--RANNTKGSLPINVIVF 7809
+ ++VD + + ++L ++ A H ++ + +A K + I
Sbjct: 2021 HAYHVVDDACLVDDFVNLKYNAATPGKEGVHSAVKCFSVSDFLKKAVFLKDAQKCEQISN 2080
Query: 7810 DGKSKCDESAS------KSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVKMFDAYVDT 7971
D C+ ++ K+A++YY+Q +C+PIL+LDQAL + V+
Sbjct: 2081 DSFIVCNTHSAHALEEAKNAAIYYAQCLCKPILILDQALYEQL-------------IVEP 2127
Query: 7972 FSATFSVPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXXXXIECLKL 8151
S K++V + L+ +++D + + + ++
Sbjct: 2128 VS----------KSVVDKVCNVLSNIISVDSAALNYKAGTLRDALLSVTKDEEAVDMAIF 2177
Query: 8152 SHHSDLEVTGDSCNNFMLTYN-KVENMTPRDLGACIDCNARHINAQVAKSHNVSLIWNVK 8328
H++D+E T D N + +Y + +TPRD G I+ +A N +V S V +W
Sbjct: 2178 CHNNDVEYTNDGFTNVVPSYGIDTDKLTPRDRGFLINADAAIANLKVKNSPPV--VWKYS 2235
Query: 8329 DYMSLSEQLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISL--KGGKIVS------- 8481
D + LS+ K + SA K+ F +T + +QV+ T K+ + K G +VS
Sbjct: 2236 DLIKLSDSCLKYLISATVKSGGRFFITRSGAKQVIACYTQKLLVEKKAGGVVSNTVSWFR 2295
Query: 8482 TCFKLMLKATXXXXXXXXXXYIVMPVHTLSIHDGY----TNEIIGYKAIQDGVTRDIIST 8649
+C K +L Y + H Y T + G+K I GV RDI+
Sbjct: 2296 SCCKWLL-VFYLLFTVCCLGYYQWEMSREFPHPMYDFNSTMHVEGFKVIDKGVLRDIMPE 2354
Query: 8650 DDCFANKHAGFDAWFSQRGGSYKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGD-FL 8826
D CF+NK+ FD+++ G Y N + CP+V AII G + G PG V ++G F+
Sbjct: 2355 DTCFSNKYVNFDSFW---GKPYVNSRDCPIVTAIIDGA-GTVAAGSPGFVQWVMDGVMFI 2410
Query: 8827 H---------FLPRVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYC 8979
H ++P F+ + YT ++ +F TS + A+ C ++ + P YC
Sbjct: 2411 HMTQTERRPWYIPTWFNRE-IVGYTHDSIVTEGEFYTSIALFASRC-LYLTSSNTPQLYC 2468
Query: 8980 YDTNL-LEGSISYSELRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDAEYCRHGTCERS 9156
++ + G++ ++ + P Y +G + P + + +V YCR CE +
Sbjct: 2469 FNGDSDAPGALPFANILPHRVYFQPNGVRLIVPQQIMH-TPYIVRLVSDSYCRGSVCEYT 2527
Query: 9157 EVGICLSTSGRWVLNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGI 9336
+ G C+S + +WVL N+ Y + GVFCG L+ ++ + V ++ + +
Sbjct: 2528 KPGYCVSMNSQWVLFNDEYTSKPGVFCGATVRELLFSMVSTFFTGVNP-NIYMQLATMFL 2586
Query: 9337 IAILVTCAAYYFMKFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYL 9516
I + V +KF+ VF Y V L+++++ +LC+ + L + V Y YL
Sbjct: 2587 ILVAVVLVFAMVIKFQGVFKAYATTVFTIMLVWVINAFVLCVHSYNNVLAIILLVLYCYL 2646
Query: 9517 TFYFTNDVSFLAHLQWFAMFSPIVPFWITAIYVFCISLKHCH---WFFNNYLRKRVMFNG 9687
+ + + + + H F IVP WI +Y+ + + W + R ++ G
Sbjct: 2647 SLVTSRNTAIIMHCWLVFTFGLIVPSWIACVYLGFVLYMYTPLVLWCYGTTKNCRKLYEG 2706
Query: 9688 VTF-STFEEAALCTFLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYRE 9864
F ++ AA TF++ ++KL +E +++ YL+ Y + KY+SG Y +
Sbjct: 2707 NEFVGNYDLAAKSTFVIRGPEFVKLTNEIG---DKFDAYLSAYARLKYYSGTGSEQDYLQ 2763
Query: 9865 AACCHLAKALNDFSNSGADVLYQPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTT 10044
A LA AL+ F +SG +V+Y PP+ SI + LQ+GF+K+A PS VE C+V V+
Sbjct: 2764 ACRAWLAYALDQFRSSGVEVVYTPPRYSIGVSRLQAGFKKLAAPSSAVEKCIVSVSYRGN 2823

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Query: 10045 TLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLIRKSNHSFLVQAGN-VQLRVIGHSMQN 10221
LNGLWL D++YCPRHV+ ++D+L +NH F V GN V L V+ ++
Sbjct: 2824 NLNGLWLGDSIYCPRHVL---GKFSGDQWDDVLNLANNHEFEVVTGNGVTLAVVSRRLRG 2880
Query: 10222 CLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGS 10401
+L L+ +N +TPKYKF++ G +F++ Y G+ G+Y MR N TI+ SFL G+
Sbjct: 2881 AVLILQTAIANAETPKYKFMKANCGDSFTIACSYGGTVIGLYPVTMRSNGTIRASFLAGA 2940
Query: 10402 CGSVGFNIDYDCVSFCYMHHMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNV 10581
CGSVGFNI+ V+F YMHH+ELP +H GTDL G FYG VD + AQ D +T N+
Sbjct: 2941 CGSVGFNIERGVVNFYYMHHLELPNALHTGTDLNGAFYGGCVDEEVAQRVPPDNLVTNNI 3000
Query: 10582 LAWLYAAVI-------NGDRWFLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQT 10740
+AWLYAA+I + +W L T +++D+N A + P + + LSA T
Sbjct: 3001 VAWLYAAIISVKESSFSTPKW-LESTTVSVDDYNKWAGDNGFTPFSTS--TAITKLSAIT 3057
Query: 10741 GIAVLDMCAALKELL--QNGMNGRTILGSTILEDEFTPFDVVRQCSGVTFQGKFKKIVKG 10914
G+ D+C L+ ++ + ILG EDE TP V Q GV Q F VK
Sbjct: 3058 GV---DVCKLLRTIMVKSSQWGNEPILGQYNFEDELTPESVFNQVGGVRLQSSF---VKR 3111
Query: 10915 THHWMXXXXXXXXXXXVQSTQWSLFFFVYENAFLPFTLGIMAIAACAMLLVKHKHAFLCL 11094
W V LF V ++ + ++A VKH A++
Sbjct: 3112 ATSWFWSRCVLACFLFVLCA-IVLFTAVPLKYYVHAAVVLLAAVTFISFTVKHVMAYMDT 3170
Query: 11095 FLLPSLAT--------------------VAYFNMVYMPASWVMRIMTWLELADTSLSGYR 11214
FLLP+L T V +F+ Y P + ++ W+ L + ++
Sbjct: 3171 FLLPTLITVIIGVCAEVPFIYNTLISQIVIFFSQWYDPVVF-DTMVPWMFLPLVLYTAFK 3229
Query: 11215 -LKDCV----MYASALVLLILMTARTVYDDAARRVWTLMNVITLVYKVYYGNALDQAISM 11379
++ C S LVL M V ++T N +T + GN +
Sbjct: 3230 CVQGCYSVNSFNTSLLVLYQFMKLGFV-------IYTSSNTVTAYSE---GNWELFFELV 3279
Query: 11380 WALVISVTSNYSGVVTTIMFLARAIVFVCVEYYPLLFITGNTLQCIMLVXXXXXXXXXXX 11559
V++ S+ S + + LA+ +++ C Y N + ++
Sbjct: 3280 HTTVLANISSNSLIGLFVFKLAKWMLYYCNATY------FNNYVLMAVMVNGLGWLFTCY 3333
Query: 11560 XXXXXXXNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKSSIDAFKLNIKLLGIGGKPCI 11739
N+ F LTLG Y++ V ++RYM + PPK+ + F NI + GIGG+ +
Sbjct: 3334 FGFYWWVNKVFGLTLGKYNFKVPVDQYRYMCLHKIKPPKTVWEVFSTNILIQGIGGERVL 3393
Query: 11740 KVATVQSKMSDVKCTXXXXXXXXXXXXXXXXXKLWAQCVQLHNDILLAKDTTEAFEKMXX 11919
+ATVQSK+SDVKCT K+ A V+LHN IL + D E + +
Sbjct: 3394 PIATVQSKLSDVKCTTVVLMQLLTKLNVEANSKMHAYLVELHNKILASDDVNECMDNLLG 3453
Query: 11920 XXXXXXXMQGAVDINRLCEEMLDNRATLQAIASEFSSLPSXX----XXXXXXXXXXXXXX 12087
+ +D++ C+++L LQ++ EFS +PS
Sbjct: 3454 MLVTLFCVDSTIDLSEYCDDILKRLTVLQSVTQEFSHIPSYAEYERAKNLYERVLADSKN 3513
Query: 12088 NGDXXXXXXXXXXXXXXXXXEFDRDAAMQRKLEKMADQAMTQMYKQARSEDKRAKVTSAM 12267
G
FDRD A+Q+KL+ MA++AMT MYK+AR D+RAK+ S++
Sbjct: 3514 GGVTQQELAAYRKAANIAKSVFDRDLAVQKKLDSMAERAMTTMYKEARVTDRRAKLVSSL 3573
Query: 12268 QTMLFTMLRKXXXXXXXXXXXXXRDGCVPLNIIPLTTAAKLMVVVPDYGTYKNTCDGNTF 12447
+LF+ML+K G VPL +P+ + KL +VVPD T+ +G
Sbjct: 3574 HALLFSMLKKIDSEKLNVLFDQASSGVVPLATVPIVCSNKLTLVVPDPETWVKCVEGMHV 3633
Query: 12448 TYASALWEIQQVVDADSKIVQLSEINMDN-------SPNLAWPLIVTALR---ANSAVKL 12597
TY++ +W I V DAD +L I+ N N+AWPL V R L
Sbjct: 3634 TYSTVVWNIDNVTDADG--TELQPISTGNGLTYCISGDNIAWPLKVNLTRNVHNKVDAAL 3691

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Query: 12598 QNNELSPVALRQMSCAAGTTQTACTDDNALAYYNNSKGGRFVLALLSDHQDLKWARFPKS 12777
QNNEL P ++ +C AG Q C+ ++ YY N G V A+ S + +LK A F
Sbjct: 3692 QNNELMPHGVKTKACVAGVDQAHCSVESK-CYYTNISGNSVVAAITSSNPNLKVASFLNE 3750
Query: 12778 DGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQA-GNAT 12954
G IY +L+PPC+F +V YLYFIK ++ RGMVLG+++ V LQ+ G+ T
Sbjct: 3751 AG-NQIYVDLDPPCKFGMKVGDKVEVVYLYFIKNTRSIVRGMVLGAISNVVVLQSKGHET 3809
Query: 12955 EVPANSTVLSFCAFAVDPAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQ 13134
E +LS C+F+VDPA Y Y+A+G QP+ NCVKML H G+G AIT P DQ
Sbjct: 3810 EEVDAVGILSLCSFSVDPADTYCKYVAAGNQPLGNCVKMLTVHNGSGFAITSKPSPTPDQ 3869
Query: 13135 ESFGGASCCLYCRCHIDHP----NPKGFCDLKGKYVQIPTTCANDPVGFTLRNTVCTVCG 13302
+S+GGAS CLYCR HI HP N G C KG +VQIPTT DPVGF LRN VCTVC
Sbjct: 3870 DSYGGASVCLYCRAHIAHPGSAGNLDGRCQFKGSFVQIPTT-EKDPVGFCLRNKVCTVCQ 3928
Query: 13303 MWKGYGCSCDQLRE--PLMQS-ADASTF----LNGFAV*VQ 13404
W G+GC CD LR+ PL+QS A AS F LNG+ V V+
Sbjct: 3929 CWIGHGCQCDSLRQPKPLVQSDAGASGFDKNYLNGYGVAVR 3969
Score = 67.8 bits (164), Expect = 1e-08
Identities = 65/277 (23%), Positives = 115/277 (41%), Gaps = 4/277 (1%)
Frame = +1
Query: 5020 EGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNN 5<strong>199</strong>
E K +P+ D +A Y+ LD Y+ L+ +KWK ++W D N
Sbjct: 1239 EDKEILFVPTTD----KAVLDYYGLDAKKYVIYLHTLS--QKWKILVKDNFIQLEWRDGN 1292
Query: 5200 CYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMT 5379
C+++S ++ LQ ++KF L A+ GD +F A A N VGE D +
Sbjct: 1293 CWVNSAIVILQAAKIKFTG-FLAGAWAALLGGDPTDFVAWCYASCNANVGEFSDANWLLA 1351
Query: 5380 HLLQHANLESAKRVL-NVVCKHCGQKTTTLTGVEA-VMYMGTLSYDNLKTGVSIPCVCGR 5553
+L +H +++ +L V +CG K+ G+EA + + + + KT S C
Sbjct: 1352 NLAEHFDVDYTNALLKKCVSCNCGVKSYEFRGLEACIQPVKAPNLLHFKTQYSNCPTCDS 1411
Query: 5554 DATQYLVQQESSFVMMSAPPAEYKLQQGTFLCAN-EYTGNYQCGH-YTHITAKETLYRID 5727
++ +V+ ++++ A + N + G+ GH YT K
Sbjct: 1412 NSVDEVVEASLPYLLLLATDGPAAVDCDDSAAGNIVFIGSTNSGHCYTQAVGKAFDNLAS 1471
Query: 5728 GAHLTKMSEYKGPVTDVFYKETSYTTTIKPVSYKLDG 5838
K S Y +T ++ + + + PV+ K G
Sbjct: 1472 DRKFGKKSPY---ITAMYIRFSLKSENSMPVANKSKG 1505
Score = 57.0 bits (136), Expect = 2e-05
Identities = 52/186 (27%), Positives = 85/186 (45%), Gaps = 3/186 (1%)
Frame = +1
Query: 3310 VDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKLNGPLTVGGS 3489
V I K +VNAAN H+ HGGGVA A+ + +DY+K +GP
Sbjct: 1044 VVIAKALDEFKEFCVVNAANEHMSHGGGVAKAIADFCGPDFVEYCEDYVKKHGPQQ---R 1100
Query: 3490 CLLSGHNLAKKCL-HVVGPNLNAGEDIQLLKAAYENFNSQDIL--LAPLLSAGIFGAKPL 3660
+ + +C+ +VVGP + Q L AY+N ++ + P+LS+GIFG
Sbjct: 1101 LVTPSYVKGIQCVNNVVGPRHGDSDLFQKLVTAYKNVIVDGVVNYVVPVLSSGIFGV--- 1157

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Query: 3661 QSLQVCVQTVRTQVYIAVNDKALYEQVVMDYLDNLKPRVEAPKQEEPPNTEDSKTEEKSV 3840
++ + +R + N + L + ++++ KQ+ TED + +SV
Sbjct: 1158 -DFKLSIDAMRA-AFDGCNIRVLLFSLNQEHIEYFDATC---KQKTIYLTEDG-VKYRSV 1211
Query: 3841 VQKPVD 3858
V KP D
Sbjct: 1212 VVKPGD 1217
>gi|25121562|ref|NP_740609.1|
virus]
Length = 2501
coronavirus nsp1 (PL1-PRO, PL2-PRO, HD, HD-1 ) [Murine hepa
Score = 870 bits (2247), Expect = 0.0
Identities = 582/1762 (33%), Positives = 865/1762 (49%), Gaps = 66/1762 (3%)
Frame = +1
Query: 4882 IKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTL 5061
+ V TVD N + V +G+ G + DG +VTK++ ++GK FF
Sbjct: 779 VDVLCTVDGVNFRSCCVAEGEVFGKTLGSVFCDGINVTKVRCSAIYKGKVFFQYSDLSEA 838
Query: 5062 RSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLE 5241
A + DE L +Y + L K W G + K ++NNCY++ L LQ L
Sbjct: 839 DLVAVKDAFGFDEPQLLKYYTMLGMCK-WSVVVCGNYFAFKQSNNNCYINVACLMLQHLS 897
Query: 5242 VKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRV 5421
+KF QEA+ R+G F +L+LA + E D + M +L+ A+L A
Sbjct: 898 LKFPKWQWQEAWNEFRSGKPLRFVSLVLAKGSFKFNEPSDSIDFMRVVLREADLSGATCN 957
Query: 5422 LNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMM 5601
L VCK CG K GV+AVM+ GTL +L G +I C CG + Q F++
Sbjct: 958 LEFVCK-CGVKQEQRKGVDAVMHFGTLDKGDLVRGYNIACTCGSKLV-HCTQFNVPFLIC 1015
Query: 5602 SAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVF 5781
S P KL + AN +TG GHYTH+ K D ++ K+SE KG TD
Sbjct: 1016 SNTPEGRKLPDDV-VAANIFTGG-SVGHYTHVKCKPKYQLYDACNVNKVSEAKGNFTDCL 1073
Query: 5782 Y-KETSYTTTIKPVSYKLDGVTYTEIEPKLDGYYKKDNAYYTEQPIDL-VPTQPLPNASF 5955
Y K T + ++ LD V E +P L YY + YYT+ I T + +
Sbjct: 1074 YLKNLKQTFSSVLTTFYLDDVKCVEYKPDLSQYYCESGKYYTKPIIKAQFRTFEKVDGVY 1133
Query: 5956 DNFKLTCSNTKFADDLNQMTGFT-KPASRELSVTFFPDLNGDVVAIDYRHYSASFKKGAK 6132
NFKL A+ LN GF E +T +P GDVV Y + + G
Sbjct: 1134 TNFKLV--GHSIAEKLNAKLGFDCNSPFVEYKITEWPTATGDVVLASDDLYVSRYSSGCI 1191
Query: 6133 LLHKPIVW--HINQATTKTTF--KPNTWCLRCLWSTKPVDTSNSFE------VLAVEDTQ 6282
KP+VW H + T+ +P+ C ++ PVD S + + V
Sbjct: 1192 TFGKPVVWLGHEEASLKSLTYFNRPSVVCEN-KFNVLPVDVSEPTDKGPVPAAVLVTGVP 1250
Query: 6283 GMD----------NLACESQQPTSE---EVVENPTIQ----KEVIECDVKT-TEVVGNVI 6408
G D AC S + EV + P++ KEV VK +V G+V+
Sbjct: 1251 GADASAGAGIAKEQKACASASVEDQVVTEVRQEPSVSAADVKEVKLNGVKKPVKVEGSVV 1310
Query: 6409 LKPSDEGVKVTQELGHEDLMAAYVENTSITIKKPNELSLALGLKTIATHGIAAINSVPWS 6588
+ KV + L D+ ++ + NELS + T+ + V W
Sbjct: 1311 VNDPTSETKVVKSLSIVDVYDMFLTGCKYVVWTANELSRLVNSPTVREY-------VKWG 1363
Query: 6589 K--ILAYVKPFLGQAAITTSNCAKRLAQRVFNNYMPYVFTLLFQLCTFTKSTNSRIRASL 6762
K I+ K L + K + + Y + LL+ +T++++ +

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Sbjct: 1364 KGKIVTPAKLLLLRDEKQEFVAPKVVKAKAIACYCAVKWFLLYCFSWIKFNTDNKVIYT- 1422
Query: 6763 PTTIAKNSVKSVAKLCLDAGINYVKSPKFSKL----FTIA----MWXXXXXXXXXXXXXV 6918
T +A K KLC A N +++ +S + F +A +W
Sbjct: 1423 -TEVAS---KLTFKLCCLAFKNALQTFNWSVVSRGFFLVATVFLLWFNFLYANVILSDFY 1478
Query: 6919 TAAFGVL-----------LSNFGAPSYCN--GVRELYLNSSNVTTMDFCEGSFPCSICLS 7059
G L + FG + C+ V +L SS FC GS C +C S
Sbjct: 1479 LPNIGPLPTFVGQIVAWFKTTFGVSTICDFYQVTDLGYRSS------FCNGSMVCELCFS 1532
Query: 7060 GLDSLDSYPALETIQVTISS-YKLD-LTILGLAAEWVLAYMLFTKFFYLLGLSAIMQVFF 7233
G D LD+Y A+ +Q + D +++ L E V+ Y L+T FY L + MQ+
Sbjct: 1533 GFDMLDNYDAINVVQHVVDRRLSFDYISLFKLVVELVIGYSLYTVCFYPLFVLIGMQLLT 1592
Query: 7234 GYFASHFISNS--WLMWFIISIVQMAPVSAMVRMYIFFASFYYIWKSYVHIMDGCTSSTC 7407
+ F+ + W + + M P ++R YI + Y ++ H+M GC+ C
Sbjct: 1593 TWLPEFFMLETMHWSARLFVFVANMLPAFTLLRFYIVVTAMYKVYCLCRHVMYGCSKPGC 1652
Query: 7408 MMCYKRNRATRVECTTIVNGMKRSFYVYANGGRGFCKTHNWNCLNCDTFCTGSTFISDEV 7587
+ CYKRNR+ RV+C+T+V G R + V ANGG GFC H WNCLNC+++ G+TFI+ E
Sbjct: 1653 LFCYKRNRSVRVKCSTVVGGSLRYYDVMANGGTGFCTKHQWNCLNCNSWKPGNTFITHEA 1712
Query: 7588 ARDLSLQFKRPINPTDQSSYIVDSVAVKNGALHLYFDKAGQKTYERHPLSHFVNLDNLRA 7767
A DLS + KRP+NPTD + Y V V ++ L++++ GQ+ Y+ S FV+++ L
Sbjct: 1713 AADLSKELKRPVNPTDSAYYSVTEVKQVGCSMRLFYERDGQRVYDDVNASLFVDMNGLLH 1772
Query: 7768 NNTKGSLPINVIVFDGKSKCDESASKSASVYYSQLMCQPILLLDQALVSDVGDSTEVSVK 7947
+ KG +V+V + ++ D++ A+V+Y+Q + +P+L++++ L++ VS
Sbjct: 1773 SKVKGVPETHVVVVENEA--DKAGFLGAAVFYAQSLYRPMLMVEKKLITTANTGLSVSRT 1830
Query: 7948 MFDAYVDTFSATFSVPMEKLKALVATAHSELAKGVALDGVLSTFVSAARQGXXXXXXXXX 8127
MFD YVD+ V + L + V AH+ L +GV L+ V+ TF+ AR+
Sbjct: 1831 MFDLYVDSLLNVLDVDRKSLTSFVNAAHNSLKEGVQLEQVMDTFIGCARRKCAIDSDVET 1890
Query: 8128 XXIECLKLSH-HSDLEVTGDSCNNFMLTYNKVENMTPRDLGACIDCNARHINAQVAKSHN 8304
I +S ++ ++ T +SCNN + TY K + + DLG I NA+H+ A VAK+ N
Sbjct: 1891 KSITKSVMSAVNAGVDFTDESCNNLVPTYVKSDTIVAADLGVLIQNNAKHVQANVAKAAN 1950
Query: 8305 VSLIWNVKDYMSLSEQLRKQIRSAAKKNNIPFRLTCATTRQVVNVITTKISLKGGKIVST 8484
V+ IW+V + LS L+ ++R A K + +LT V ++TT SLKGG + S
Sbjct: 1951 VACIWSVDAFNQLSADLQHRLRKACSKTGLKIKLTYNKQEANVPILTTPFSLKGGAVFSR 2010
Query: 8485 CFKLMLKATXXXXXXXXXXYIVMPVHTLSIHDGYTNEIIGYKAIQDGVTRDIISTDDCFA 8664
+ + A + +MP + + D +K I +GV RD+ TD CFA
Sbjct: 2011 MLQWLFVANLICFIVL---WALMPTYAVHKSDMQLPLYASFKVIDNGVLRDVSVTDACFA 2067
Query: 8665 NKHAGFDAWFSQRGGS--YKNDKSCPVVAAIITREIGFIVPGLPGTVLRAINGDFLHFLP 8838
NK FD W+ G Y+N K+CPVV A+I ++IG + +P TVLR LHF+
Sbjct: 2068 NKFNQFDQWYESTFGLAYYRNSKACPVVVAVIDQDIGHTLFNVPTTVLR-YGFHVLHFIT 2126
Query: 8839 RVFSAVGNICYTPSKLIEYSDFATSACVLAAECTIFKDAMGKPVPYCYDTNLLEGSISYS 9018
F+ CYTP I Y +F S CVL++ CT+ A G P PYCY ++ + YS
Sbjct: 2127 HAFATDSVQCYTPHMQIPYDNFYASGCVLSSLCTMLAHADGTPHPYCYTGGVMHNASLYS 2186
Query: 9019 ELRPDTRYVLMDGS-IIQFPNTYLEGSVRVVTTFDAEYCRHGTCERSEVGICLSTSGRWV 9195
L P RY L + I+FP EG VRVV T YCR G CE +E GIC + + WV
Sbjct: 2187 SLAPHVRYNLASSNGYIRFPEVVSEGIVRVVRTRSMTYCRVGLCEEAEEGICFNFNRSWV 2246
Query: 9196 LNNEHYRALSGVFCGVDAMNLIANIFTPLVQPVGALDVSASVVAGGIIAILVTCAAYYFM 9375
LNN +YRA+ G FCG +A +LI + LV+P+ ++AS VAG I+AI+V A YY +

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Sbjct: 2247 LNNPYYRAMPGTFCGRNAFDLIHQVLGGLVRPIDFFALTASSVAGAILAIIVVLAFYYLI 2306
Query: 9376 KFRRVFGEYNHVVAANALLFLMSFTILCLVPAYSFLPGVYSVFYLYLTFYFTNDVSFLAH 9555
K +R FG+Y VV N +++ ++F +L + Y L +Y+ FY Y T YF +++S + H
Sbjct: 2307 KLKRAFGDYTSVVVINVIVWCINFLMLFVFQVYPTLSCLYACFYFYTTLYFPSEISVVMH 2366
Query: 9556 LQWFAMFSPIVPFWITAIYVFCISLKHCHWFFNNYLRK---RVMFNGVTFSTFEEAALCT 9726
LQW M+ I+P W IYV + H W F +Y RK V +G TFEE AL T
Sbjct: 2367 LQWLVMYGAIMPLWFCIIYVAVVVSNHALWLF-SYCRKIGTEVRSDG----TFEEMALTT 2421
Query: 9727 FLLNKEMYLKLRSETLLPLTQYNRYLALYNKYKYFSGALDTTSYREAACCHLAKALNDFS 9906
F++ KE Y KL++ + +NRYL+LYNKY+YFSG +DT +YREAAC LAKA+ F+
Sbjct: 2422 FMITKESYCKLKNS--VSDVAFNRYLSLYNKYRYFSGKMDTAAYREAACSQLAKAMETFN 2479
Query: 9907 -NSGADVLYQPPQTSITSAVLQ 9969
N+G DVLYQPP S+T++ LQ
Sbjct: 2480 HNNGNDVLYQPPTASVTTSFLQ 2501
Score = 84.7 bits (208), Expect = 8e-14
Identities = 52/149 (34%), Positives = 77/149 (51%), Gaps = 2/149 (1%)
Frame = +1
Query: 3283 LTDNVAIKCVDIVKEAQSANPMVIVNAANIHLKHGGGVAGALNKATNGAMQKESDDYIKL 3462
+T NV D++K + N VIVN AN + HG GVAGA+ + A KE+ D +K
Sbjct: 488 ITPNVCFVKGDVIKVVRLVNAEVIVNPANGRMAHGAGVAGAIAEKAGSAFIKETSDMVKA 547
Query: 3463 NGPLTVGGSCLLSGHNLAKKCLHVVGPNL--NAGEDIQLLKAAYENFNSQDILLAPLLSA 3636
G VG +G L KK L++VGP+ + + LL+ AY++ N D ++ L+SA
Sbjct: 548 QGVCQVGECYESAGGKLCKKVLNIVGPDARGHGKQCYSLLERAYQHINKCDNVVTTLISA 607
Query: 3637 GIFGAKPLQSLQVCVQTVRTQVYIAVNDK 3723
GIF SL + V V + N++
Sbjct: 608 GIFSVPTDVSLTYLLGVVTKNVILVSNNQ 636
Score = 63.5 bits (153), Expect = 2e-07
Identities = 36/101 (35%), Positives = 54/101 (53%), Gaps = 3/101 (2%)
Frame = +1
Query: 2740 VWEVQGYKNVRITFELDERVDKVLNEKCSVYTVESGTEVTEFACVVAEAVVKTLQPVSD- 2916
V ++ + ++ITF LD D VL++ CS + V+ + E VV +AV TL P +
Sbjct: 12 VRKIPSTRKIKITFALDATFDSVLSKACSEFEVDKDVTLDELLDVVLDAVESTLSPCKEH 71
Query: 2917 --LLTNMGIDLDEWSVATFYLFDDAGEENFSSRMYCSFYPP 3033
+ T + LD + YLFD+ G+E + RMYCSF P
Sbjct: 72 DVIGTKVCALLDRLAGDYVYLFDEGGDEVIAPRMYCSFSAP 112
Get selected sequences Select all Deselect all
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: Apr 17, 2003 6:53 PM

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Number <strong>of</strong> letters in database: 455,821,981
Number <strong>of</strong> sequences in database: 1,416,636
Lambda K H
0.318 0.135 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number <strong>of</strong> <strong>Hits</strong> to DB: 23,232,849,994
Number <strong>of</strong> Sequences: 1416636
Number <strong>of</strong> extensions: 504278959
Number <strong>of</strong> successful extensions: 1339595
Number <strong>of</strong> sequences better than 10.0: 100
Number <strong>of</strong> HSP's better than 10.0 without gapping: 689366
Number <strong>of</strong> HSP's successfully gapped in prelim test: 0
Number <strong>of</strong> HSP's that attempted gapping in prelim test: 0
Number <strong>of</strong> HSP's gapped (non-prelim): 1335824
length <strong>of</strong> database: 455,821,981
effective HSP length: 150
effective length <strong>of</strong> database: 243,326,581
effective search space used: 2375110757141
frameshift window, decay const: 50, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)

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