BLASTX nr result

ID: Akebia23_contig00003030 seq

BLASTX 2.2.25 [Feb-01-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= Akebia23_contig00003030
         (5954 letters)

Database: ./nr 
           38,876,450 sequences; 13,856,398,315 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|YP_224218.1| replicase-associated polyprotein [Citrus sudden...  1118   0.0  
gb|ABA54133.1| polyprotein [Citrus sudden death-associated virus]    1112   0.0  
gb|ADD13602.1| replicase-associated polyprotein [Oat blue dwarf ...  1084   0.0  
ref|YP_003475889.1| replicase-associated polyprotein [Olive late...  1083   0.0  
ref|NP_044447.1| replicase-associated polyprotein [Oat blue dwar...  1077   0.0  
gb|ACV53023.1| polyprotein [Blackberry virus S]                      1076   0.0  
ref|NP_115454.1| polyprotein [Maize rayado fino virus] gi|819647...  1075   0.0  
ref|YP_004464920.1| polyprotein [Switchgrass mosaic virus] gi|33...  1069   0.0  
gb|ACV83739.1| replicase-associated polyprotein [Grapevine virus Q]  1055   0.0  
ref|YP_002756536.1| putative 230 kDa polyprotein [Grapevine Syra...  1053   0.0  
gb|AFV34757.1| polyprotein [Grapevine Syrah virus 1]                 1051   0.0  
ref|YP_004300278.1| replication-associated polyprotein [Fig flec...  1012   0.0  
ref|NP_044328.1| replicase [Kennedya yellow mosaic virus] gi|548...   997   0.0  
sp|P10358.2|POLR_TYMV RecName: Full=RNA replicase polyprotein; A...   991   0.0  
gb|AAB92649.1| replicase protein [Turnip yellow mosaic virus]         991   0.0  
ref|NP_663297.1| replicase/papain-like protease [Turnip yellow m...   988   0.0  
ref|YP_002048673.1| replicase-associated protein RP [Diascia yel...   988   0.0  
sp|P20128.1|POLR_TYMVA RecName: Full=RNA replicase polyprotein g...   986   0.0  
ref|YP_007517180.1| viral replication protein [Andean potato lat...   982   0.0  
ref|NP_041257.1| replicase [Ononis yellow mosaic virus] gi|13055...   971   0.0  

>ref|YP_224218.1| replicase-associated polyprotein [Citrus sudden death-associated
            virus] gi|59609791|gb|AAW88343.1| replicase-associated
            polyprotein [Citrus sudden death-associated virus]
          Length = 2188

 Score = 1118 bits (2893), Expect = 0.0
 Identities = 601/1156 (51%), Positives = 756/1156 (65%), Gaps = 7/1156 (0%)
 Frame = -1

Query: 3764 STLILDPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAPFPTMPCLLDAVGSCLG 3585
            S L  D S  G    ++ L+P  Y+ G  +F  R R +G +  P+P M CLL ++     
Sbjct: 854  SPLARDSSASGPPGMYSDLFPAPYLPGTGQFIFRSRANGRANIPYPDMDCLLLSIEQATR 913

Query: 3584 VTPAELWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQFKAFVTSDQEPIPHPYGV 3405
            +    LW TLC   PDSLL    I   GLSTDH   L+H Y  +    +    I    G+
Sbjct: 914  LPKEALWDTLCATCPDSLLDPDTIRRVGLSTDHFAILAHHYSLRCRFHTAHGVIE--LGM 971

Query: 3404 DSAPTTIRFSHTTGNPGHFFITSDPGAPPPPKXXXXXXXXXXXXXXLTTFRLNGELLPFQ 3225
              A ++    HT GNPGHF +     A P                    F ++G LLP +
Sbjct: 972  ADATSSFDIDHTAGNPGHFSLRQS--ATP----RLNGGIAQDLAVAALRFNIDGTLLPIR 1025

Query: 3224 TVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPNSAKEKFVTTDGILDIAKSRSIKLI 3045
            +VH Y    KRAKNL SNMKNGFDG+MA + P   N ++EK +  D  LDIA  RS++LI
Sbjct: 1026 SVHVYSTWPKRAKNLSSNMKNGFDGIMANIHPTKTNESREKILALDSQLDIAVRRSVRLI 1085

Query: 3044 HIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKASMDLEPKNNWRIGTWEXX 2865
            HIAGFPGCGKS+PI RLL T P  RNF+++VPT ELR EWK    L     WRIGTWE  
Sbjct: 1086 HIAGFPGCGKSFPISRLLRT-PTFRNFKVAVPTVELRAEWKTITGLPASEAWRIGTWESS 1144

Query: 2864 XXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQGEYHSTHPQSSNHKLSSE 2685
                   LV+DEIYKMPRGY+DLAI  DP +EMVI LGDPLQGEYHSTHP S+N +L SE
Sbjct: 1145 LLKSARVLVIDEIYKMPRGYIDLAIHSDPTIEMVIALGDPLQGEYHSTHPSSTNSRLLSE 1204

Query: 2684 INHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGFCRPVNHLPMNCPILTNSHSAALT 2505
              HL  YLDFYC W+ R P+ +A FF V TTS++PGFCR    LP N  IL NS +A  T
Sbjct: 1205 PQHLSMYLDFYCLWSHRVPQNVAAFFHVKTTSKQPGFCRYQRELP-NSRILANSQNAGHT 1263

Query: 2504 LTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMALVALTRSTKGVLFSGDQSILQ 2325
            L +    A TI++SQGSTY +   IHLDR+SS LS + ++VALTRS  GV+F+GD + L 
Sbjct: 1264 LQQCGYAAVTIASSQGSTYENAACIHLDRNSSLLSPAHSMVALTRSKVGVIFTGDPAQLS 1323

Query: 2324 PGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQLRGVTLISTPLKSR--KLVGACPSEV 2151
              P S ++FS+    ++        P+   F  +    T+++ PLK+R  +L GA     
Sbjct: 1324 NAPSSNRMFSEFFSGRTR-------PLHDWFHNEFPKATVLTEPLKTRGPRLTGAASP-- 1374

Query: 2150 KHSSTVRDFTHHAIRGSTVRDPSYQPSLAHVVRHTSPAIYHSELNRLHPDFKGDAVRSAV 1971
             +S  V               P  Q S        +PA        L PDF+GD + SA 
Sbjct: 1375 -YSKAV---------------PIRQAS--------TPA--------LKPDFQGDVIISAP 1402

Query: 1970 IVCGDGIDHLPRVSPHFIAETRLPYHSDMPSAMPSQCSL---SPPTFSAPVFEPVYPGED 1800
            IV G G  + P+VS HF+ ETR P H D+PSA+P   +    + PT S P  EPVYPGE 
Sbjct: 1403 IVLGSGELNAPQVSSHFLPETRRPLHWDIPSAIPESATRPDSTEPTTSHP--EPVYPGET 1460

Query: 1799 FETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQTLIAAQHHGQKDSTLLP 1620
            FE LA+ FLPAHDP  REI ++G+ S QFP++++ F L  QP +L+AA H  ++D TLLP
Sbjct: 1461 FENLAAHFLPAHDPTDREIYWQGQLSNQFPHMDKEFHLAAQPMSLLAAVHQEKQDPTLLP 1520

Query: 1619 ASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSVEPFDEALFADCINLNE 1440
            ASI KRLRFR +  PY I+PKD++LG+LLF  LC+AY+R P   E FD  LFA+CINLNE
Sbjct: 1521 ASIQKRLRFRPSDKPYQITPKDEILGQLLFEGLCRAYHRSPFHTEAFDPVLFAECINLNE 1580

Query: 1439 FAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIFGSWKACQTLALMHDAV 1260
            FAQLSSKTQ TIM NA RSDPDWRWSAVRIFSK+QHK NE SIF SWKACQTLALMHDAV
Sbjct: 1581 FAQLSSKTQATIMGNARRSDPDWRWSAVRIFSKTQHKVNEGSIFRSWKACQTLALMHDAV 1640

Query: 1259 VLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCRENLSSCEHVANDYTAFDQSQH 1080
            VL+LGPVKKYQR+FD RDRP ++Y+HA +TP QMS+WC+++L++   +ANDYTAFDQSQH
Sbjct: 1641 VLILGPVKKYQRVFDQRDRPRHLYIHAGNTPSQMSNWCQQHLTTAVKLANDYTAFDQSQH 1700

Query: 1079 GEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVTTQFGPLTCMRLTGEPGTYDDNTDYNLAV 900
            GEAVVLE KKM RLSIP+ LI LH +LKT+V+TQFGPLTCMRLTGEPGTYDDN+DYNLAV
Sbjct: 1701 GEAVVLERKKMERLSIPQALIDLHIHLKTHVSTQFGPLTCMRLTGEPGTYDDNSDYNLAV 1760

Query: 899  IHSQYLMASIPHMVSGDDSLIDRQPLPNPLWITIGPMLHLRFKLEVTRYPLFCGYLVGPS 720
            ++ +Y+ A+ P MVSGDDSL+DR+P   P W+ + P+L LRFK E  RY  FCGY     
Sbjct: 1761 VNCEYMAANTPTMVSGDDSLLDREPPTRPEWVILQPLLSLRFKKERGRYATFCGYYASHV 1820

Query: 719  GAVRSPITLFAKSLMALDDGSLDDKLASYLTEFSVGHSLGQEMWNLIPVEQVHYQAALFD 540
            G VRSP+ LFAK  +A+DDGS+ DK+ASYL+EF++GHSLG  +W  +P+E V +Q+A FD
Sbjct: 1821 GCVRSPVALFAKLAIAVDDGSISDKMASYLSEFALGHSLGDHLWEALPLEAVPFQSACFD 1880

Query: 539  FFCRKASREQKLVLKIGEVPDTIISTILSSARAIARPLYAYLSSSARKLLLKGSKTYR-- 366
            FFCR+A R  KL L +GEVP++II+ I SS +  +  +Y  LSS+AR  +L+ S+  R  
Sbjct: 1881 FFCRRAPRHLKLSLMLGEVPESIIARIGSSLKWASHAIYTTLSSAARVAILRSSRNSRSM 1940

Query: 365  PFDTEESLQFEGVLQH 318
            P D + +L    +LQH
Sbjct: 1941 PDDPDTTLLQGELLQH 1956



 Score =  459 bits (1180), Expect = e-126
 Identities = 252/553 (45%), Positives = 319/553 (57%), Gaps = 4/553 (0%)
 Frame = -1

Query: 5945 SLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTHPHP 5766
            SL+ T HRDT+ +PL+EA+A+P R SL  YP+ +  +L  FL+  GI  +G G K HPHP
Sbjct: 97   SLAPTTHRDTIATPLMEALAEPYRQSLSTYPWHIPTNLQPFLTSCGITTAGQGFKAHPHP 156

Query: 5765 AHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTRYPS 5586
             HK IE  +L +VWP+     S V+FMKPSKF KL+ K  NF +L NYR+T +DTTRYPS
Sbjct: 157  VHKTIETNLLTNVWPHYATTPSGVMFMKPSKFEKLKIKQPNFSKLYNYRITAKDTTRYPS 216

Query: 5585 SSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFPELY 5406
            +S  LP   T FMHDALMYY+PG I DLFLS P L +LYA+LVVPPES FT  S FP+LY
Sbjct: 217  TSPDLPTEDTCFMHDALMYYSPGQICDLFLSRPSLQKLYASLVVPPESDFTTISLFPDLY 276

Query: 5405 NFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHLLIQ 5226
             +      L+YELE NP+H+YIQP+SA+DWL+T+TIRC DLTL+IS L+S GPVH LLIQ
Sbjct: 277  RYRIEKDQLIYELEQNPAHNYIQPRSAIDWLKTTTIRCQDLTLTISRLDSWGPVHSLLIQ 336

Query: 5225 RGLAPKHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVPLAAYHSLRAYVMAVRTLRTTD 5046
            RG  P H E  +  F  P   LLP P SLSQ+VRDRLVP   Y +L  YV AVRTLR TD
Sbjct: 337  RGKPPIHLEEDSISFRAPKAVLLPEPASLSQSVRDRLVPADVYQALFIYVRAVRTLRVTD 396

Query: 5045 PAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAVSYLTFASSFARIKHWXXXXXX 4866
            PAGFVRTQ +KPE++WVT+ AWD+L +FAL T   RP  +Y  F S+ AR+ HW      
Sbjct: 397  PAGFVRTQISKPEYSWVTSSAWDNLAHFALATAPHRPHTTYFLFNSTAARVAHW------ 450

Query: 4865 XXXXXXXXXXXAVSFTTVKVAHYCSTRQIDSLILFGKQIVRPSCPLNSPFSLHQYFSRTA 4686
                        +S  T   A    T       +    +V  S              R  
Sbjct: 451  ----FRTHTLAPLSGATAAAASLLMTASWGFRAMISSHLVSLS-----------ICKRWL 495

Query: 4685 QLPPSL--STQLPRFELVTSPRIITKW--SPCLARFLLSTPFFRTLTTQLNFLSKKCFFA 4518
            + PP L    + P F+L   P++       P L  F L       L  +   L+     A
Sbjct: 496  KAPPHLLWPEKAPWFQLTLRPKVTGPLIDLPILRPFRLFPSTCAKLGAKHPALATLLPAA 555

Query: 4517 KGFPHSRKLXXXXXXXXXILWAYRRFMGPDAPQAMFDQYNGYFNPKPWKLRIAQGPTKCS 4338
                   K+          L+ +R+F+GPD+PQ M D Y+  F+P+PW L + +    C 
Sbjct: 556  PRPTWPLKVGLALAAVPVCLFLWRKFIGPDSPQDMHDSYHAMFHPQPWGLTLTRKAICCD 615

Query: 4337 RGQFLPFCPRPHS 4299
            R  FLP    P S
Sbjct: 616  RAPFLPIPVVPSS 628


>gb|ABA54133.1| polyprotein [Citrus sudden death-associated virus]
          Length = 2189

 Score = 1112 bits (2877), Expect = 0.0
 Identities = 598/1158 (51%), Positives = 757/1158 (65%), Gaps = 9/1158 (0%)
 Frame = -1

Query: 3764 STLILDPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAPFPTMPCLLDAVGSCLG 3585
            S +  D S  G    ++ L+P  Y+ G  +F  R R +G +  P+P M CLL ++     
Sbjct: 854  SPVARDSSATGPPGMYSDLFPAPYLPGTGQFIFRSRANGRANIPYPDMDCLLLSIEQATR 913

Query: 3584 VTPAELWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQFKAFVTSDQEPIPHPYGV 3405
            +    LW TLC   PDSLL    I   GLSTDH    +H Y  +    +    I    G+
Sbjct: 914  LPKEALWDTLCATCPDSLLDPDTIRRVGLSTDHFVIFAHHYSLRCRFHTAHGVIE--LGM 971

Query: 3404 DSAPTTIRFSHTTGNPGHFFITSDPGAPPPPKXXXXXXXXXXXXXXLTTFRLNGELLPFQ 3225
              A ++    HT GNPGHF +     A P                    F ++G LLP +
Sbjct: 972  ADATSSFDIDHTAGNPGHFSLRQS--ATP----RLNGGIAQDLAVAALRFNIDGTLLPIR 1025

Query: 3224 TVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPNSAKEKFVTTDGILDIAKSRSIKLI 3045
            +VH Y    KRAKNL SNMKNGFDG+MA + P   N ++EK +  D  LDIA  RS++LI
Sbjct: 1026 SVHVYSTWPKRAKNLSSNMKNGFDGIMANIHPTKTNESREKILALDSQLDIAVRRSVRLI 1085

Query: 3044 HIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKASMDLEPKNNWRIGTWEXX 2865
            HIAGFPGCGKS+PI RLL T P  RNF+++VPT ELR EWKA + L     WRIGTWE  
Sbjct: 1086 HIAGFPGCGKSFPISRLLRT-PTFRNFKVAVPTVELRAEWKAIIGLPTSEAWRIGTWESS 1144

Query: 2864 XXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQGEYHSTHPQSSNHKLSSE 2685
                   LV+DEIYKMPRGY+DLAI  DP +EMVI LGDPLQGEYHSTHP S+N +L +E
Sbjct: 1145 LLKSARVLVIDEIYKMPRGYIDLAIHSDPTIEMVIALGDPLQGEYHSTHPSSTNSRLLAE 1204

Query: 2684 INHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGFCRPVNHLPMNCPILTNSHSAALT 2505
             +HL  YLD+YC W+ R P+ +A FF + TTS++PGFCR    LP N  IL NS +A  T
Sbjct: 1205 PHHLSMYLDYYCMWSHRVPQNVAAFFHIKTTSKQPGFCRYQRELP-NSRILANSQNAGHT 1263

Query: 2504 LTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMALVALTRSTKGVLFSGDQSILQ 2325
            L +    A TI++SQGSTY +   IHLDR+SS LS + ++VALTRS  GV+F+GD + L 
Sbjct: 1264 LQQCGYAAVTIASSQGSTYDNAACIHLDRNSSLLSPAHSMVALTRSKVGVIFTGDPAQLS 1323

Query: 2324 PGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQLRGVTLISTPLKSR--KLVGACPSEV 2151
              P S ++FS+    ++        P+   F  +    T+++ PLK+R  +L GA     
Sbjct: 1324 NAPSSNRMFSEFFSGRTR-------PLHDWFHNEFPKATVLTEPLKTRGPRLTGAASPYS 1376

Query: 2150 KHSSTVRDFTHHAIRGSTVRDPSYQPSLAHVVRHTSPAIYHSELNRLHPDFKGDAVRS-- 1977
            K   + +D T                          PA        L PDF+GD VRS  
Sbjct: 1377 KVFPSGKDST--------------------------PA--------LKPDFQGD-VRSSR 1401

Query: 1976 AVIVCGDGIDHLPRVSPHFIAETRLPYHSDMPSAMPSQCS---LSPPTFSAPVFEPVYPG 1806
            A IV G G  + P+VS HF+ ETR P H D+PSA+P   +    + PT   P  EPVYPG
Sbjct: 1402 APIVLGSGELNAPQVSTHFLPETRRPLHWDIPSAIPESATRPDSTEPTTCHP--EPVYPG 1459

Query: 1805 EDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQTLIAAQHHGQKDSTL 1626
            E FE LA+ FLPAHDP  REI ++G+ S QFP++++ F L  QP +L+AA H  ++D TL
Sbjct: 1460 ETFENLAAHFLPAHDPTDREIYWQGQLSNQFPHMDKEFHLAAQPMSLLAAIHQEKQDPTL 1519

Query: 1625 LPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSVEPFDEALFADCINL 1446
            LPASI KRLRFR +  PY I+PKD++LG+LLF  LC+AY+R P   E FD  LFA+CINL
Sbjct: 1520 LPASIQKRLRFRPSDRPYQITPKDEILGQLLFEGLCRAYHRSPFHTEAFDPVLFAECINL 1579

Query: 1445 NEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIFGSWKACQTLALMHD 1266
            NEFAQLSSKTQ TIM NA RSDPDWRWSAVRIFSK+QHK NE SIFGSWKACQTLALMHD
Sbjct: 1580 NEFAQLSSKTQATIMGNARRSDPDWRWSAVRIFSKTQHKVNEGSIFGSWKACQTLALMHD 1639

Query: 1265 AVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCRENLSSCEHVANDYTAFDQS 1086
            AVVL+LGPVKKYQR+FD RDRP ++Y+HA +TP QMS+WC+++L++   +ANDYTAFDQS
Sbjct: 1640 AVVLILGPVKKYQRVFDQRDRPRHLYIHAGNTPSQMSNWCQQHLTTAVKLANDYTAFDQS 1699

Query: 1085 QHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVTTQFGPLTCMRLTGEPGTYDDNTDYNL 906
            QHGEAVVLE KKM RLSIP+ LI LH +LKT+V+TQFGPLTCMRLTGEPGTYDDN+DYNL
Sbjct: 1700 QHGEAVVLERKKMERLSIPQALIDLHIHLKTHVSTQFGPLTCMRLTGEPGTYDDNSDYNL 1759

Query: 905  AVIHSQYLMASIPHMVSGDDSLIDRQPLPNPLWITIGPMLHLRFKLEVTRYPLFCGYLVG 726
            AVI+ +Y+ A+ P MVSGDDSL+DR+P   P W+ + P+L LRFK E  RY  FCGY   
Sbjct: 1760 AVINCEYMAANTPTMVSGDDSLLDREPPTRPEWVILQPLLSLRFKKERGRYATFCGYYAS 1819

Query: 725  PSGAVRSPITLFAKSLMALDDGSLDDKLASYLTEFSVGHSLGQEMWNLIPVEQVHYQAAL 546
              G VRSP+ LFAK  +A+DDGS+ DK+ASYL+EF++GHSLG  +W  +P+E V +Q+A 
Sbjct: 1820 HVGCVRSPVALFAKLAIAVDDGSISDKMASYLSEFALGHSLGDHLWEALPLEAVPFQSAC 1879

Query: 545  FDFFCRKASREQKLVLKIGEVPDTIISTILSSARAIARPLYAYLSSSARKLLLKGSKTYR 366
            FDFFCR+A R  KL L +GEVP++II+ I SS +  +  +Y  LSS+AR  +L+ S+  R
Sbjct: 1880 FDFFCRRAPRHLKLSLMLGEVPESIIARIGSSLKWASHAIYTTLSSAARVAILRSSRNSR 1939

Query: 365  --PFDTEESLQFEGVLQH 318
              P D + +L    +LQH
Sbjct: 1940 SMPDDPDTTLLQGELLQH 1957



 Score =  451 bits (1159), Expect = e-123
 Identities = 262/618 (42%), Positives = 336/618 (54%), Gaps = 5/618 (0%)
 Frame = -1

Query: 5945 SLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTHPHP 5766
            SL+ T HRDT+ +PL+EA+A+P R SL  YP+ +  +L  FL+  GI  +G G K HPHP
Sbjct: 97   SLAPTTHRDTIATPLMEALAEPYRQSLSTYPWHIPTNLQPFLTSCGITTAGQGFKAHPHP 156

Query: 5765 AHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTRYPS 5586
             HK IE  +L +VW +     S V+FMKPSKF KL  K  NF +L NYR+T +D+TRYPS
Sbjct: 157  VHKTIETNLLSNVWSHYATTPSGVMFMKPSKFEKLRIKQPNFSKLYNYRITAKDSTRYPS 216

Query: 5585 SSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFPELY 5406
            +S  LP   T FMHDALMYY+PG I DLF+S P L +LYA+LVVPPES FT  S FP+LY
Sbjct: 217  TSPDLPTEDTCFMHDALMYYSPGQICDLFISRPSLQKLYASLVVPPESDFTTISLFPDLY 276

Query: 5405 NFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHLLIQ 5226
             +      LVYELE NP+H+YIQP+SA+DWL+T+TIRC DLTL+IS L+S GPVH LLIQ
Sbjct: 277  RYRIEKDQLVYELEQNPAHNYIQPRSAIDWLKTTTIRCQDLTLTISRLDSWGPVHSLLIQ 336

Query: 5225 RGLAPKHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVPLAAYHSLRAYVMAVRTLRTTD 5046
            RG  P H E  +  F TP   LLP P SLSQ VRDRLVP   Y +L  YV AVRTLR TD
Sbjct: 337  RGRPPIHLEEDSISFRTPKAVLLPEPASLSQGVRDRLVPADVYQALFIYVRAVRTLRVTD 396

Query: 5045 PAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAVSYLTFASSFARIKHWXXXXXX 4866
            PAGFVRTQ +KPE++WVT+  WD+    AL T   RP  +Y  F S+ AR+ HW      
Sbjct: 397  PAGFVRTQISKPEYSWVTSFRWDNFPPLALATAPHRPHTTYFLFNSTAARVSHW------ 450

Query: 4865 XXXXXXXXXXXAVSFTTVKVAHYCSTRQIDSLILFGKQIVRPSCPLNSPFSLHQYFSRTA 4686
                        +S  T   A    T       L    +V  S              R  
Sbjct: 451  ----FRTHTLALLSGATAAAASLLMTASWGFRALISSHLVSLS-----------ICKRWL 495

Query: 4685 QLPPSL--STQLPRFELVTSPRIITKW--SPCLARFLLSTPFFRTLTTQLNFLSKKCFFA 4518
            + PP L    + P F+L   P++       P L  F L       L  +   L+     A
Sbjct: 496  RAPPHLLWPEKAPWFQLTLRPKVTGPMIDLPILRPFRLFPSTCAKLGAKYPALATLLPAA 555

Query: 4517 KGFPHSRKLXXXXXXXXXILWAYRRFMGPDAPQAMFDQYNGYFNPKPWKLRIAQGPTKCS 4338
                   K+          L+ +R+F+GPD+PQ M D Y+  F+P+PW L +A+    C 
Sbjct: 556  PRPLWPLKVGLALATVPVCLFLWRKFIGPDSPQDMHDSYHAMFHPQPWGLSLARKAICCD 615

Query: 4337 RGQFLPFCPRPHSLIQXXXXXXDIFLINAVSIDLQTEVP-EHIRSLALSKPLHYEPSDDI 4161
            R  FLP    P S  +         L +     ++ +VP E +   + S       S   
Sbjct: 616  RAPFLPIPLVPSSDFKAPPTPATPLLTSIPIKGVEPQVPGEGVPPQSASSTGPASDSRCA 675

Query: 4160 PDPAPVLIPTKVANKITA 4107
            P PA    P + A  ++A
Sbjct: 676  PQPASSTGPDQPAQDMSA 693


>gb|ADD13602.1| replicase-associated polyprotein [Oat blue dwarf virus]
          Length = 2067

 Score = 1084 bits (2803), Expect = 0.0
 Identities = 598/1169 (51%), Positives = 747/1169 (63%), Gaps = 11/1169 (0%)
 Frame = -1

Query: 3764 STLILDPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAPFPTMPCLLDAVGSCLG 3585
            S L  DPS  G V  +  L+P +Y      F  R R  G S  P+P M CLL A      
Sbjct: 690  SPLARDPSASGPVRFYRDLFPANYAGDSGTFDFRARASGRSPTPYPAMDCLLVATEQATR 749

Query: 3584 VTPAELWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQFKAFVTSDQEPIPHPYGV 3405
            ++   LW  L    PDS L    I   GLSTDH   L+H +   A   S    I    G+
Sbjct: 750  ISREALWDCLTATCPDSFLDPKSIAQHGLSTDHFVILAHRFSLCANFHSAAHVIQ--LGM 807

Query: 3404 DSAPTTIRFSHTTGN---PGHFFITSDPGAPPPPKXXXXXXXXXXXXXXLTTFRLNGELL 3234
              A +T   +HT G+   PGHF +    G  P                    F ++G+LL
Sbjct: 808  ADATSTFMINHTAGSAGLPGHFSLRL--GDQP---RALNGGLAQDLAVAALRFNISGDLL 862

Query: 3233 PFQTVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPNSAKEKFVTTDGILDIAKSRSI 3054
            P ++VH YR+  KRAKNL+SNMKNGFDGVMA+++P  P+ A+EK V  DG+LDIA+ RS+
Sbjct: 863  PTRSVHTYRSWPKRAKNLVSNMKNGFDGVMASINPIRPSDAREKIVALDGLLDIAQPRSV 922

Query: 3053 KLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKASMDLEPKNNWRIGTW 2874
            +LIHIAGFPGCGK++PI +LL TA   R+F+++VPT ELR EWK  M L P   WR GTW
Sbjct: 923  RLIHIAGFPGCGKTHPITKLLHTAA-FRDFKLAVPTTELRSEWKELMKLSPSQAWRFGTW 981

Query: 2873 EXXXXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQGEYHSTHPQSSNHKL 2694
            E         LV+DEIYK+PRGYLDLAI  D  +E VI LGDPLQGEYHSTHP SSN +L
Sbjct: 982  ESSLLKSARILVIDEIYKLPRGYLDLAIHSDSSIEFVIALGDPLQGEYHSTHPSSSNSRL 1041

Query: 2693 SSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGFCRPVNHLPMNCPILTNSHSA 2514
              E++HL PYLD+YC W+ R P+ +A FF V + +   GF R     P    +LTNS ++
Sbjct: 1042 IPEVSHLAPYLDYYCLWSYRVPQDVATFFQVQSHNPALGFARLSKQFPTTGRVLTNSQNS 1101

Query: 2513 ALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMALVALTRSTKGVLFSGDQS 2334
             LT+T+    A TI++SQGSTYS    IHLDR+SS LS S +LVALTRS  GV FSGD +
Sbjct: 1102 MLTMTQCGYSAVTIASSQGSTYSGATHIHLDRNSSLLSPSNSLVALTRSRTGVFFSGDPA 1161

Query: 2333 ILQPGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQLRGVTLISTPLKSR--KLVGA-C 2163
            +L  GP+S  +FS   Q +S H       I+  F       TL+ +PL+ R  +L GA  
Sbjct: 1162 LLNGGPNSNLMFSAFFQGKSRH-------IRDWFPTLFPTATLLLSPLRQRHNRLTGALA 1214

Query: 2162 PSEVKHSSTVRDFTHHAIRGSTVRDPSYQP-SLAHVVRHTSPAIYHSELNRLHPDFKGDA 1986
            P E  H   + D        S +  P+  P S A  VR    A        + P  + D 
Sbjct: 1215 PVEPSHL-LLPDLP------SLLPLPASGPYSRAFPVRSRFAAA-------VKPFDRSDV 1260

Query: 1985 VRSAVIVCGDGIDHLPRVSPHFIAETRLPYHSDMPSAMPSQCSLSPPTFSAP---VFEPV 1815
            +  A I  GDG  + PR+   F+ ETR P H D+PS  P   +  PP+  AP    FEPV
Sbjct: 1261 LSWAPIAVGDGETNAPRIDTSFLPETRRPLHFDLPSFRPQ--APPPPSDPAPSGTAFEPV 1318

Query: 1814 YPGEDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQTLIAAQHHGQKD 1635
            YPGE FE L + FLPAHDP  REI ++G+ S QFP++++ + L  QP TL+A  H  + D
Sbjct: 1319 YPGETFENLVAHFLPAHDPTDREIHWRGQLSNQFPHIDKEYHLAAQPMTLLAPIHDSKHD 1378

Query: 1634 STLLPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSVEPFDEALFADC 1455
             TLL ASI KRLRFR +++PY I+P+D+LLG+LL+ SLC+AY+R P+S  PFDEALF +C
Sbjct: 1379 PTLLAASIQKRLRFRPSASPYRITPRDELLGQLLYESLCRAYHRSPTSTHPFDEALFVEC 1438

Query: 1454 INLNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIFGSWKACQTLAL 1275
            I+LNEFAQL+SKTQ  IM NA RSDPDWRWSAVRIFSK+QHK NE SIFG+WKACQTLAL
Sbjct: 1439 IDLNEFAQLTSKTQAVIMGNARRSDPDWRWSAVRIFSKTQHKVNEGSIFGAWKACQTLAL 1498

Query: 1274 MHDAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCRENLSSCEHVANDYTAF 1095
            MHDAVVLLLGPVKKYQR+FD RDRPA++Y+HA  TP  MS WC+ +L+    +ANDYTAF
Sbjct: 1499 MHDAVVLLLGPVKKYQRVFDARDRPAHLYIHAGQTPSSMSLWCQTHLTPAVKLANDYTAF 1558

Query: 1094 DQSQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVTTQFGPLTCMRLTGEPGTYDDNTD 915
            DQSQHGEAVVLE KKM RLSIP+ LI LH YLKT+V TQFGPLTCMRLTGEPGTYDDNTD
Sbjct: 1559 DQSQHGEAVVLERKKMERLSIPDHLISLHVYLKTHVETQFGPLTCMRLTGEPGTYDDNTD 1618

Query: 914  YNLAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPLWITIGPMLHLRFKLEVTRYPLFCGY 735
            YNLAVI+ +Y  A +P MVSGDDSL+D +P   P W+ I P+L LRFK E   Y  FCGY
Sbjct: 1619 YNLAVINLEYAAAHVPTMVSGDDSLLDFEPPRRPEWVAIEPLLALRFKKERGLYATFCGY 1678

Query: 734  LVGPSGAVRSPITLFAKSLMALDDGSLDDKLASYLTEFSVGHSLGQEMWNLIPVEQVHYQ 555
                 G VRSPI LFAK  +A+DD S+ DKLA+YL EF+VGHSLG  +W+ +P+  V +Q
Sbjct: 1679 YASRVGCVRSPIALFAKLAIAVDDSSISDKLAAYLMEFAVGHSLGDSLWSALPLSAVPFQ 1738

Query: 554  AALFDFFCRKASREQKLVLKIGEVPDTIISTILSSARAIARPLYAYLSSSARKLLLKGSK 375
            +A FDFFCR+A R+ KL L +GEVP+TII   LS    ++  +Y+ L S  R  +L  S+
Sbjct: 1739 SACFDFFCRRAPRDLKLALHLGEVPETIIQR-LSHLSWLSHAVYSLLPSRLRLAILHSSR 1797

Query: 374  TYRPFDTEESL-QFEGVLQHAVSIATPPP 291
             +R    + ++   +G L H      P P
Sbjct: 1798 QHRSLPEDPAVSSLQGELLHTFHAPMPSP 1826



 Score =  468 bits (1204), Expect = e-128
 Identities = 271/638 (42%), Positives = 356/638 (55%), Gaps = 14/638 (2%)
 Frame = -1

Query: 5954 LFESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTH 5775
            + E+LS+TIHRDT+ +PL+E +A P RDSL  +P+AV  S   FL + GI ++G+G K H
Sbjct: 27   VIETLSSTIHRDTIAAPLMETLASPYRDSLRDFPWAVPASALPFLQECGITVAGHGFKAH 86

Query: 5774 PHPAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTR 5595
            PHP HK IE ++L  VWP+  +  SSVLFMKPSKF KL++ ++NF  L NYRLT +DT R
Sbjct: 87   PHPVHKTIETHLLHKVWPHYAQVPSSVLFMKPSKFAKLQRGNANFSALHNYRLTAKDTPR 146

Query: 5594 YPSSSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFP 5415
            YP++ST+LP   T FMHDALMYYTP  I DLFLS P L +LYA+LVVPPESSFT  S  P
Sbjct: 147  YPNTSTSLPDTETAFMHDALMYYTPAQIVDLFLSCPKLEKLYASLVVPPESSFTSISLHP 206

Query: 5414 ELYNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHL 5235
            +LY F F    L+YELEGNP+H+Y QP+SALDWLRT+TIR   ++L++S L+S GP H L
Sbjct: 207  DLYRFRFDGDRLIYELEGNPAHNYTQPRSALDWLRTTTIRGPGVSLTVSRLDSWGPCHSL 266

Query: 5234 LIQRGLAPKHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVPLAAYHSLRAYVMAVRTLR 5055
            LIQRG+ P H E+ +  F  P    +P P+SL Q++R RLVP   Y++L  YV AVRTLR
Sbjct: 267  LIQRGIPPMHAEHDSISFRGPRAVAIPEPSSLHQDLRHRLVPEDVYNALFLYVRAVRTLR 326

Query: 5054 TTDPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAVSYLTFASSFARIKHWXXX 4875
             TDPAGFVRTQ +K E+AWVT+ AWD+L +FALLT   RP  S+  F+S+F R++HW   
Sbjct: 327  VTDPAGFVRTQCSKSEYAWVTSSAWDNLAHFALLTAPHRPRTSFYLFSSTFQRLEHWVRH 386

Query: 4874 XXXXXXXXXXXXXXAVSFTTVKVAHYCSTRQIDSLILFGKQIVRPSCPLN--SPFSLHQY 4701
                            S     +    S   I  L L  + ++ P       SP S    
Sbjct: 387  HTFLLAGLTTAFALPPSAWLANLVARTSASHIQGLALARRWLITPPHLFRPPSPPSFALL 446

Query: 4700 FSRTAQLPPSLSTQLPRFELVTS--PRIITKWSPCLARFLLSTPFFRTLTTQLNFLSKKC 4527
              R +  P  L      FE   S  P++  ++ P LAR L   P    +   L       
Sbjct: 447  LQRNSTGPILLRGSRLEFEAFPSLAPQLARRF-PFLARLLPQKPINPWIVASL------- 498

Query: 4526 FFAKGFPHSRKLXXXXXXXXXILWAYRRFMGPDAPQAMFDQYNGYFNPKPWKLRIAQGPT 4347
              A   P +               A R F GPD PQAM D+Y+  F+P+ W+L + +GP 
Sbjct: 499  AVAVAIPAAS-------------LAVRWFFGPDTPQAMHDRYHTMFHPREWRLTLPRGPI 545

Query: 4346 KCSRGQFLPF------CPRPHSLIQXXXXXXDI-FLINAVSIDLQTEVPE-HIRSLALSK 4191
             C R  F P        P P S          +         DL++  P+ H        
Sbjct: 546  SCGRSSFSPLPHPPSPTPAPDSRAGPLQPPSALPSTHEPAPADLESPAPQAHAPQTEPPS 605

Query: 4190 PLHYEPS--DDIPDPAPVLIPTKVANKITAISTSGAPQ 4083
            P+  + +  D  P PAP   PT  A+  +   T  AP+
Sbjct: 606  PVIEQEARPDPFPAPAPRPAPTPSASAPSPAPTPSAPE 643


>ref|YP_003475889.1| replicase-associated polyprotein [Olive latent virus 3]
            gi|289467899|gb|ACN94861.2| replicase-associated
            polyprotein [Olive latent virus 3]
          Length = 2000

 Score = 1083 bits (2800), Expect = 0.0
 Identities = 591/1206 (49%), Positives = 759/1206 (62%), Gaps = 40/1206 (3%)
 Frame = -1

Query: 3821 TGSLDTVNVAIPDDTTPERSTLILDPSGFGEVSTFAQLYPDD-YVLGCAEFFCRKRHHGV 3645
            +GSL  +N  + +      + L  DPSG G V+ F +L+P   ++ G  EF  R R    
Sbjct: 807  SGSLTAINPTL-EPFEFNHALLGADPSGQGPVAQFNELFPSTLWLQGTGEFLTRSRVQAP 865

Query: 3644 STAPFPTMPCLLDAVGSCLGVTPAELWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHF 3465
            S+AP+P M CLL A+ +   +    LW+ LC +LPDS L    I   GLSTDH   L+  
Sbjct: 866  SSAPYPAMDCLLHAIHTATRIPKPTLWAGLCSNLPDSFLDPQLIAKHGLSTDHFAVLARL 925

Query: 3464 YQFKAFVTSDQEPIPHPYGVDSAPTTIRFSHTTGN---PGHF-FITSDPGAPPPPKXXXX 3297
            +  +   T          GV  A  T R  HT      PGHF ++   P +         
Sbjct: 926  FSLRC--TFQSRSGTQTMGVADATHTFRIRHTPPTEDAPGHFEYMEEIPES-------LT 976

Query: 3296 XXXXXXXXXXLTTFRLNGELLPFQTVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPN 3117
                        +FR NG LLPF+ VH Y +NV RAKNLISNMKNGFDGVMA+ DP HP 
Sbjct: 977  GAFAQDLAHFALSFRFNGYLLPFKHVHTYTSNVSRAKNLISNMKNGFDGVMASADPLHPG 1036

Query: 3116 SAKEKFVTTDGILDIAKSRSIKLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAEL 2937
              +E+F++ D  LDIA  R  +LIHI+GF GCGK+YPI +LL   P  R FR++VPT EL
Sbjct: 1037 QTRERFLSMDNQLDIAVPRETRLIHISGFAGCGKTYPITQLL-KKPVFRQFRVAVPTTEL 1095

Query: 2936 RHEWKASMDLEPKNNWRIGTWEXXXXXXXXXLVVDEIYKMPRGYLDL--AILMDPHLEMV 2763
            R EWK  + LEP + WRIGTWE         LV+DE+YKMPRGYLDL    L+ P   ++
Sbjct: 1096 RSEWKDLLTLEPADRWRIGTWESSLLKSSRVLVIDEVYKMPRGYLDLRPTPLIRPIQFVI 1155

Query: 2762 IVLGDPLQGEYHSTHPQSSNHKLSSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQE 2583
            I    P QGEY+STHP SSN +++SEI HL+PY+DFYC W+ R PK +A    VPTTS +
Sbjct: 1156 IPWRSPSQGEYNSTHPHSSNLRITSEIIHLQPYIDFYCFWSYRIPKNVAACLKVPTTSNK 1215

Query: 2582 PGFCRPVNHLPMNCPILTNSHSAALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQL 2403
             GF R +N +P    +LT S S+  TL +    + TI++SQGST      IHLDR+S  L
Sbjct: 1216 TGFIRRLNSIPNANKVLTCSQSSMKTLNQCGFSSVTIASSQGSTLQEAACIHLDRNSRNL 1275

Query: 2402 SNSMALVALTRSTKGVLFSGDQSILQPGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQ 2223
            SNS +LVA+TRS  G++F+GD  +L     S  LFS L Q +S         ++  F + 
Sbjct: 1276 SNSHSLVAITRSKSGIIFTGDFHLLDGTTSSNYLFSCLAQGKS-------VDLEMLFPKT 1328

Query: 2222 LRGVTLISTPLKSRK--LVGACP--SEVKHSSTVRDFTH--------------HAIRGST 2097
                  +  P++SR+  LVG+    ++    + + DF+               +  +GS 
Sbjct: 1329 FPPCPRLLQPIRSRRTILVGSSEDWAQFYRPTPLEDFSRFQATPVPETAIPCPNGYQGSP 1388

Query: 2096 --VRDPSYQ--------PSLAHVVRHTSP-----AIYHSELNRLHPDFKGDAVRSAVIVC 1962
              +  PS+          S+  +   TSP      ++       +P+  GD +  + IV 
Sbjct: 1389 EMIEGPSHANLPFEADLDSIDPLEGETSPYSLGFGVHARTARTTNPEATGDIITQSEIVL 1448

Query: 1961 GDGIDHLPRVSPHFIAETRLPYHSDMPSAMPSQCSLSPPTFSAPVFEPVYPGEDFETLAS 1782
            GDG  ++P+VS HF+ ETR P H D PSA+PS    SP   S   FEPVYPGE FE +A 
Sbjct: 1449 GDGELNMPQVSTHFLPETRRPLHFDNPSALPSSTVPSPVDLSRTAFEPVYPGETFENIAG 1508

Query: 1781 TFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQTLIAAQHHGQKDSTLLPASIPKR 1602
             F+   DP + EII   + S QFP L+QPF L  QP +L+AA H+ Q D TLLPASI KR
Sbjct: 1509 HFMGPRDPEVLEIIHNDQMSNQFPLLDQPFSLAAQPSSLMAAIHNSQNDPTLLPASIGKR 1568

Query: 1601 LRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSVEPFDEALFADCINLNEFAQLSS 1422
            LRFR ++ PY I+ +DQ+LG LLF +LC+AY RHP +V PF+   FA+CINLNE+AQL+S
Sbjct: 1569 LRFRPSNAPYPITAEDQILGSLLFEALCRAYRRHPEAVVPFNPIAFAECINLNEYAQLTS 1628

Query: 1421 KTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIFGSWKACQTLALMHDAVVLLLGP 1242
            KTQ  I++NA RSDPDWR+SAVRIFSK+QHK N+ S FGSWKACQTLALMHDAV+LLLGP
Sbjct: 1629 KTQAVIISNARRSDPDWRYSAVRIFSKTQHKVNDGSFFGSWKACQTLALMHDAVILLLGP 1688

Query: 1241 VKKYQRLFDNRDRPANIYVHASHTPFQMSDWCRENLSSCEHVANDYTAFDQSQHGEAVVL 1062
            VKKYQRLFD+ DRP++IY+HA HTP  MS+WC++NL+   H+ NDYT+FDQSQHGEAVVL
Sbjct: 1689 VKKYQRLFDSEDRPSHIYIHAGHTPQDMSNWCQQNLTDSIHLTNDYTSFDQSQHGEAVVL 1748

Query: 1061 EIKKMRRLSIPEPLIQLHAYLKTNVTTQFGPLTCMRLTGEPGTYDDNTDYNLAVIHSQYL 882
            E  KM RLSIP+ LI LH +LK NV+TQFGPLTCMRLTGEPGTYDDN+DYNLAVIH QY 
Sbjct: 1749 EQMKMARLSIPQHLIDLHTHLKCNVSTQFGPLTCMRLTGEPGTYDDNSDYNLAVIHLQYA 1808

Query: 881  MASIPHMVSGDDSLIDRQPLPNPLWITIGPMLHLRFKLEVTRYPLFCGYLVGPSGAVRSP 702
            + S P MVSGDDSL+D +P     W  I P+L LRFK E+ RY LFCGY VG SGAVR P
Sbjct: 1809 VGSTPCMVSGDDSLLDSKPPIRDEWTGIAPLLALRFKTELDRYSLFCGYFVGSSGAVRCP 1868

Query: 701  ITLFAKSLMALDDGSLDDKLASYLTEFSVGHSLGQEMWNLIPVEQVHYQAALFDFFCRKA 522
              LFAK ++A+DDGS+  K+ASYLTEFS+GHSLG E W L+PVEQV +Q+A FDFFCR  
Sbjct: 1869 RALFAKIMIAVDDGSIPLKIASYLTEFSIGHSLGDEFWQLLPVEQVVFQSACFDFFCRNC 1928

Query: 521  SREQKLVLKIGEVPDTIISTILSSARAIARPLYAYLSSSARKLLLKGSKTYRPFDTEESL 342
                KL+L++GE P +I+       +  +  +Y+ LS++AR LL+K   T  P ++ E  
Sbjct: 1929 PPAAKLLLRLGEAPQSILEATFGKLKWASNAVYSMLSATARHLLIKSRLTRPPPESVEVS 1988

Query: 341  QFEGVL 324
            Q +G L
Sbjct: 1989 QLQGQL 1994



 Score =  466 bits (1199), Expect = e-128
 Identities = 249/553 (45%), Positives = 339/553 (61%), Gaps = 1/553 (0%)
 Frame = -1

Query: 5954 LFESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTH 5775
            L + L+ T+HRDT+ +PL+E ++ PLRDSL  YP++V PSL + L   GIN   +G K H
Sbjct: 132  LVDFLNPTVHRDTIAAPLLETISQPLRDSLRTYPWSVPPSLQTHLQSLGINAHNFGYKPH 191

Query: 5774 PHPAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTR 5595
            PHPAHK IE ++L + W +L    S++LFMKPSKF+KL  ++ NF EL NYRLT +D+TR
Sbjct: 192  PHPAHKVIETHLLHEHWRHLATQPSAILFMKPSKFQKLHNQNDNFTELHNYRLTSKDSTR 251

Query: 5594 YPSSSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFP 5415
            YP +S ++P   ++F+HDALMY+TP  I DLF  +P L + +A+LV PPES+FTD SF+P
Sbjct: 252  YPETSRSIPNLPSIFLHDALMYFTPSQILDLFERSPALEKCFASLVCPPESNFTDISFYP 311

Query: 5414 ELYNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHL 5235
            ELY F      + YELEGNP+  Y QPKSA++WL+ +TI+  + +LSI+ILES GP H L
Sbjct: 312  ELYRFRAVGDSITYELEGNPASSYTQPKSAIEWLKITTIKGPNFSLSITILESWGPCHSL 371

Query: 5234 LIQRGLAPKHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVPLAAYHSLRAYVMAVRTLR 5055
            LIQRGL P H+E++T+ F TP+  LLPAP+ L Q++R RLVP   Y S+  YV AVRTLR
Sbjct: 372  LIQRGLLPLHQEHSTQAFKTPEAILLPAPSHLQQDLRHRLVPTRVYESIFVYVRAVRTLR 431

Query: 5054 TTDPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAVSYLTFASSFARIKHWXXX 4875
             TDP+G+VRTQS+KPE++WVT  AWD+L NFALLTC  RP   Y  + S+  R+  W   
Sbjct: 432  VTDPSGYVRTQSSKPEYSWVTTAAWDNLANFALLTCAHRPRARYYLYWSTLDRLMGWIRA 491

Query: 4874 XXXXXXXXXXXXXXAVSFTTVKVAHYCSTRQIDSLILFGKQIVRPSCPLNSPFSLHQYFS 4695
                              ++  +A      ++DSL L  + +++PS P N PF L + F 
Sbjct: 492  HKLALLTASTPLASLGLASSALLACRPFWMRLDSLQLLNRWVIKPSFPRNLPFLLPKAFQ 551

Query: 4694 RTAQLPPSLSTQLPRFELVTSPRIITKWSPCLARFLLSTPFFRTLTTQLNFLSKKCFFAK 4515
              A L    +  LPR       RI+ ++   L   L   PF R L +     S       
Sbjct: 552  PKASL--FKAEFLPRH---APSRILPEFFDAL---LKKAPFLRPLFSDAPIPS------- 596

Query: 4514 GFPHSRKLXXXXXXXXXILWAYRRFMGPDAPQAMFDQYNGYFNPKPWKLRIAQGPTKCSR 4335
                +  L         I  + RRF+GP++PQA+ D+Y  YF+PKPW+L + QGP   + 
Sbjct: 597  ---WAWALCATGVAIPIIALSIRRFLGPNSPQALLDEYQSYFHPKPWQLILEQGPIFANP 653

Query: 4334 GQFLPFC-PRPHS 4299
              F P C P P S
Sbjct: 654  EPFSPHCQPIPSS 666


>ref|NP_044447.1| replicase-associated polyprotein [Oat blue dwarf virus]
            gi|1843580|gb|AAC57874.1| replicase-associated
            polyprotein [oat blue dwarf virus]
          Length = 2066

 Score = 1077 bits (2786), Expect = 0.0
 Identities = 598/1177 (50%), Positives = 749/1177 (63%), Gaps = 14/1177 (1%)
 Frame = -1

Query: 3764 STLILDPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAPFPTMPCLLDAVGSCLG 3585
            S L  DPS  G V  +  L+P +Y      F  R R  G S  P+P M CLL A      
Sbjct: 690  SPLARDPSASGPVRFYRDLFPANYAGDSGTFDFRARASGRSPTPYPAMDCLLVATEQATR 749

Query: 3584 VTPAELWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQFKAFVTSDQEPIPHPYGV 3405
            ++   LW  L    PDS L    I   GLSTDH   L+H +   A   S +  I    G+
Sbjct: 750  ISREALWDCLTATCPDSFLDPKSIAQHGLSTDHFVILAHRFSLCANFHSAEHVIQ--LGM 807

Query: 3404 DSAPTTIRFSHTTGN---PGHFFITSDPGAPPPPKXXXXXXXXXXXXXXLTTFRLNGELL 3234
              A +    +HT G+   PGHF +    G  P                    F ++G+LL
Sbjct: 808  ADATSIFMINHTAGSAGLPGHFSLRL--GDQP---RALNGGLAQDLAVAALRFNISGDLL 862

Query: 3233 PFQTVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPNSAKEKFVTTDGILDIAKSRSI 3054
            P ++VH YR+  KRAKNL+SNMKNGFDGVMA+++P  P+ A+EK V  DG+LDIA+ RS+
Sbjct: 863  PTRSVHTYRSWPKRAKNLVSNMKNGFDGVMASINPIRPSDAREKIVALDGLLDIARPRSV 922

Query: 3053 KLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKASMDLEPKNNWRIGTW 2874
            +LIHIAGFPGCGK++PI +LL TA   R+F+++VPT ELR EWK  M L P   WR GTW
Sbjct: 923  RLIHIAGFPGCGKTHPITKLLHTAA-FRDFKLAVPTTELRSEWKELMKLSPSQAWRFGTW 981

Query: 2873 EXXXXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQGEYHSTHPQSSNHKL 2694
            E         LV+DEIYK+PRGYLDLAI  D  +E VI LGDPLQGEYHSTHP SSN +L
Sbjct: 982  ESSLLKSARILVIDEIYKLPRGYLDLAIHSDSSIEFVIALGDPLQGEYHSTHPSSSNSRL 1041

Query: 2693 SSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGFCRPVNHLPMNCPILTNSHSA 2514
              E++HL PYLD+YC W+ R P+ +A FF V + +   GF R     P    +LTNS ++
Sbjct: 1042 IPEVSHLAPYLDYYCLWSYRVPQDVAAFFQVQSHNPALGFARLSKQFPTTGRVLTNSQNS 1101

Query: 2513 ALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMALVALTRSTKGVLFSGDQS 2334
             LT+T+    A TI++SQGSTYS    IHLDR+SS LS S +LVALTRS  GV FSGD +
Sbjct: 1102 MLTMTQCGYSAVTIASSQGSTYSGATHIHLDRNSSLLSPSNSLVALTRSRTGVFFSGDPA 1161

Query: 2333 ILQPGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQLRGVTLISTPLKSR--KLVGA-C 2163
            +L  GP+S  +FS   Q +S H       I+  F       TL+ +PL+ R  +L GA  
Sbjct: 1162 LLNGGPNSNLMFSAFFQGKSRH-------IRAWFPTLFPTATLLFSPLRQRHNRLTGALA 1214

Query: 2162 PSEVKHSSTVRDFTHHAIRGSTVRDPSYQPSLAHVVRHTSPAIYHSELNRLHPDFKGDAV 1983
            P++  H   + D             PS  P  A      S  +       + P  + D +
Sbjct: 1215 PAQPSHL-LLPDL------------PSLPPLPASGPYSRSFPVRSRFAAAVKPSDRSDVL 1261

Query: 1982 RSAVIVCGDGIDHLPRVSPHFIAETRLPYHSDMPSAMPSQCSLSPPTFSAP---VFEPVY 1812
              A I  GDG  + PR+   F+ ETR P H D+PS  P   +  PP+  AP    FEPVY
Sbjct: 1262 SWAPIAVGDGETNAPRIDTSFLPETRRPLHFDLPSFRPQ--APPPPSDPAPSGTAFEPVY 1319

Query: 1811 PGEDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQTLIAAQHHGQKDS 1632
            PGE FE L + FLPAHDP  REI ++ + S QFP++++ + L  QP TL+A  H  + D 
Sbjct: 1320 PGETFENLVAHFLPAHDPTDREIHWRRQLSNQFPHVDKEYHLAAQPMTLLAPIHDSKHDP 1379

Query: 1631 TLLPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSVEPFDEALFADCI 1452
            TLL ASI KRLRFR +++PY ISP+D+LLG+LL+ SLC+AY+R P++  PFDEALF +CI
Sbjct: 1380 TLLAASIQKRLRFRPSASPYRISPRDELLGQLLYESLCRAYHRSPTTTHPFDEALFVECI 1439

Query: 1451 NLNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIFGSWKACQTLALM 1272
            +LNEFAQL+SKTQ  IM NA RSDPDWRWSAVRIFSK+QHK NE SIFG+WKACQTLALM
Sbjct: 1440 DLNEFAQLTSKTQAVIMGNARRSDPDWRWSAVRIFSKTQHKVNEGSIFGAWKACQTLALM 1499

Query: 1271 HDAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCRENLSSCEHVANDYTAFD 1092
            HDAVVLLLGPVKKYQR+FD RDRPA++Y+HA  TP  MS WC+ +L+    +ANDYTAFD
Sbjct: 1500 HDAVVLLLGPVKKYQRVFDARDRPAHLYIHAGQTPSSMSLWCQTHLTPAVKLANDYTAFD 1559

Query: 1091 QSQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVTTQFGPLTCMRLTGEPGTYDDNTDY 912
            QSQHGEAVVLE KKM RLSIP+ LI LH +LKT+V TQFGPLTCMRLTGEPGTYDDNTDY
Sbjct: 1560 QSQHGEAVVLERKKMERLSIPDHLISLHVHLKTHVETQFGPLTCMRLTGEPGTYDDNTDY 1619

Query: 911  NLAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPLWITIGPMLHLRFKLEVTRYPLFCGYL 732
            NLAVI+ +Y  A +P MVSGDDSL+D +P   P W+ I P+L LRFK E   Y  FCGY 
Sbjct: 1620 NLAVINLEYAAAHVPTMVSGDDSLLDFEPPRRPEWVAIEPLLALRFKKERGLYATFCGYY 1679

Query: 731  VGPSGAVRSPITLFAKSLMALDDGSLDDKLASYLTEFSVGHSLGQEMWNLIPVEQVHYQA 552
                G VRSPI LFAK  +A+DD S+ DKLA+YL EF+VGHSLG  +W+ +P+  V +Q+
Sbjct: 1680 ASRVGCVRSPIALFAKLAIAVDDSSISDKLAAYLMEFAVGHSLGDSLWSALPLSAVPFQS 1739

Query: 551  ALFDFFCRKASREQKLVLKIGEVPDTIISTILSSARAIARPLYAYLSSSARKLLLKGSKT 372
            A FDFFCR+A R+ KL L +GEVP+TII   LS    ++  +Y+ L S  R  +L  S+ 
Sbjct: 1740 ACFDFFCRRAPRDLKLALHLGEVPETIIQR-LSHLSWLSHAVYSLLPSRLRLAILHSSRQ 1798

Query: 371  YRPFDTE---ESLQFEGVLQ--HAVSIATPPPRLTGG 276
            +R    +    SLQ E +LQ  HA   + P   L GG
Sbjct: 1799 HRSLPEDPAVSSLQGE-LLQTFHAPMPSLPSLPLFGG 1834



 Score =  469 bits (1207), Expect = e-129
 Identities = 270/638 (42%), Positives = 357/638 (55%), Gaps = 14/638 (2%)
 Frame = -1

Query: 5954 LFESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTH 5775
            + E+LS+TIHRDT+ +PL+E +A P RDSL  +P+AV  S   FL + GI ++G+G K H
Sbjct: 27   VIETLSSTIHRDTIAAPLMETLASPYRDSLRDFPWAVPASALPFLQECGITVAGHGFKAH 86

Query: 5774 PHPAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTR 5595
            PHP HK IE ++L  VWP+  +  SSVLFMKPSKF KL++ ++NF  L NYRLT +DT R
Sbjct: 87   PHPVHKTIETHLLHKVWPHYAQVPSSVLFMKPSKFAKLQRGNANFSALHNYRLTAKDTPR 146

Query: 5594 YPSSSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFP 5415
            YP++ST+LP   T FMHDALMYYTP  I DLFLS P L +LYA+LVVPPESSFT  S  P
Sbjct: 147  YPNTSTSLPDTETAFMHDALMYYTPAQIVDLFLSCPKLEKLYASLVVPPESSFTSISLHP 206

Query: 5414 ELYNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHL 5235
            +LY F F    L+YELEGNP+H+Y QP+SALDWLRT+TIR   ++L++S L+S GP H L
Sbjct: 207  DLYRFRFDGDRLIYELEGNPAHNYTQPRSALDWLRTTTIRGPGVSLTVSRLDSWGPCHSL 266

Query: 5234 LIQRGLAPKHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVPLAAYHSLRAYVMAVRTLR 5055
            LIQRG+ P H E+ +  F  P    +P P+SL Q++R RLVP   Y++L  YV AVRTLR
Sbjct: 267  LIQRGIPPMHAEHDSISFRGPRAVAIPEPSSLHQDLRHRLVPEDVYNALFLYVRAVRTLR 326

Query: 5054 TTDPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAVSYLTFASSFARIKHWXXX 4875
             TDPAGFVRTQ +KPE+AWVT+ AWD+L +FALLT   RP  S+  F+S+F R++HW   
Sbjct: 327  VTDPAGFVRTQCSKPEYAWVTSSAWDNLAHFALLTAPHRPRTSFYLFSSTFQRLEHWVRH 386

Query: 4874 XXXXXXXXXXXXXXAVSFTTVKVAHYCSTRQIDSLILFGKQIVRPSCPLN--SPFSLHQY 4701
                            S     +    S   I  L L  + ++ P        P S    
Sbjct: 387  HTFLLAGLTTAFALPPSAWLANLVARASASHIQGLALARRWLITPPHLFRPPPPPSFALL 446

Query: 4700 FSRTAQLPPSLSTQLPRFELVTS--PRIITKWSPCLARFLLSTPFFRTLTTQLNFLSKKC 4527
              R +  P  L      FE   S  P++  ++ P LAR L   P    +   L       
Sbjct: 447  LQRNSTGPVLLRGSRLEFEAFPSLAPQLARRF-PFLARLLPQKPIDPWVVASL------- 498

Query: 4526 FFAKGFPHSRKLXXXXXXXXXILWAYRRFMGPDAPQAMFDQYNGYFNPKPWKLRIAQGPT 4347
              A   P +               A R F GPD PQAM D+Y+  F+P+ W+L + +GP 
Sbjct: 499  AVAVAIPAAS-------------LAVRWFFGPDTPQAMHDRYHTMFHPREWRLTLPRGPI 545

Query: 4346 KCSRGQFLPF------CPRPHSLIQ-XXXXXXDIFLINAVSIDLQTEV-PEHIRSLALSK 4191
             C R  F P        P P S  +                 DL+ +  P H        
Sbjct: 546  SCGRSSFSPLPHPPSPTPAPDSRAEPLQPPSAPPSTHEPAPADLEPQAPPAHAPQTEPPS 605

Query: 4190 PLHYEPS--DDIPDPAPVLIPTKVANKITAISTSGAPQ 4083
            P+  + +  + +P PAP+  PT  A+  +   T  AP+
Sbjct: 606  PVIEQEARPNPLPAPAPLSAPTPSASAPSLAPTPSAPE 643


>gb|ACV53023.1| polyprotein [Blackberry virus S]
          Length = 2035

 Score = 1076 bits (2782), Expect = 0.0
 Identities = 583/1183 (49%), Positives = 754/1183 (63%), Gaps = 7/1183 (0%)
 Frame = -1

Query: 3821 TGSLDTVNVAIPDDTTPERSTLILDPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVS 3642
            +G +  +  A P+   PE S L  D S  G V  F++L+P  Y+     F  R R  G +
Sbjct: 679  SGVVSNLTPAAPEPAAPEPSPLQADSSARGPVQLFSELFPGSYIGTTGAFNSRYRASGRA 738

Query: 3641 TAPFPT-MPCLLDAVGSCLGVTPAELWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHF 3465
              P+P    CLL  +     ++  +LW TL  +LPD LL   +I+  GLSTDH   L+ F
Sbjct: 739  PTPYPAGTDCLLVTIEQATSISRRDLWETLVTNLPDCLLAPCEISKHGLSTDHFAVLAFF 798

Query: 3464 YQFKAFVTSDQEPIPHPYGVDSAPTTIRFSHTTGNP---GHFFITSDPGAPPPPKXXXXX 3294
            Y  +    +   P+    G+  A T  R  H   +    GHF +  D      P      
Sbjct: 799  YSLRVTFLTSHGPVD--LGMSDATTNFRIDHQPESKDLMGHFSLHQDS----KPVPTLNG 852

Query: 3293 XXXXXXXXXLTTFRLNGELLPFQTVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPNS 3114
                      T F L+G LLPF TVH +     RAKNLISNMKNGFDGV+A +DP H ++
Sbjct: 853  GTGSELATAATRFNLDGCLLPFNTVHTFVTAPSRAKNLISNMKNGFDGVLANIDPHHTST 912

Query: 3113 AKEKFVTTDGILDIAKSRSIKLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELR 2934
            A+++ +  DGI+D+AK R ++L HIAGF GCGKSYPI RLL T P  R F+++VPT ELR
Sbjct: 913  ARDRLLCLDGIIDVAKPRRVRLFHIAGFAGCGKSYPIARLLKT-PLFREFKVAVPTVELR 971

Query: 2933 HEWKASMDLEPKNNWRIGTWEXXXXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVL 2754
             EWK  + + P   WR+ TWE         LV+DE+YKMPRGY+DLA+  DP +E+VI+L
Sbjct: 972  AEWKDLLKIRPGAQWRLSTWESSLLKSARILVIDEVYKMPRGYVDLAVHADPTIELVILL 1031

Query: 2753 GDPLQGEYHSTHPQSSNHKLSSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGF 2574
            GDPLQG YHSTHP S+N +LS E ++L  Y+DFYC W+ R P+ +A FFGV +T+  PGF
Sbjct: 1032 GDPLQGVYHSTHPSSTNSRLSPETHYLSKYIDFYCLWSHRIPQDVAKFFGVHSTNLAPGF 1091

Query: 2573 CRPVNHLPMNCPILTNSHSAALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNS 2394
             + V +L  +  ILTNS ++  TL +    + TI++SQGSTY     I LDR+S+ LS+S
Sbjct: 1092 SKWVPNLSPSSKILTNSQNSMKTLVDCGFASVTIASSQGSTYPGATNILLDRNSALLSHS 1151

Query: 2393 MALVALTRSTKGVLFSGDQSILQPGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQLRG 2214
             +LVALTRS KGV+F+GD+ +L+ GP S  LFS+       +       +   F  +L  
Sbjct: 1152 NSLVALTRSKKGVVFTGDRKMLEEGPTSNLLFSR-------YFTGKVVSLAGLFPSELPK 1204

Query: 2213 VTLISTPLKSR--KLVGACPSEVKHSSTVRDFTHHAIRGSTVRDPSYQPSLAHVVRHTSP 2040
               ++ PL SR  KL GA                HAI   +   P  + S+      TS 
Sbjct: 1205 CPHLTVPLTSRSVKLSGA------------GLYDHAIPFRSASAPMIKSSV------TSD 1246

Query: 2039 AIYHSELNRLHPDFKGDAVRSAVIVCGDGIDHLPRVSPHFIAETRLPYHSDMPSAMPSQC 1860
             I              D VR  +   GDG  + P++S HF+ ETR P H D+PS  PS  
Sbjct: 1247 VIL-------------DPVRPFL---GDGDLNAPQISTHFLPETRRPLHFDIPSGKPSSD 1290

Query: 1859 SLSPPTFSAPVFEPVYPGEDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFL 1680
            S +    + PV EPVYPGE FE LA+ FLP HDP  REI F+G+ S QFP++N+PF+L  
Sbjct: 1291 SPASAEPTVPVHEPVYPGETFENLAAHFLPCHDPEDREIHFRGQLSNQFPHINRPFELAC 1350

Query: 1679 QPQTLIAAQHHGQKDSTLLPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRH 1500
            Q  +L+AA H  + D TLLPASIPKRLRFR +S PY ++ KD++LG LL+  LC+AY+R+
Sbjct: 1351 QSSSLLAAVHSERDDPTLLPASIPKRLRFRPSSAPYRLTAKDEVLGSLLYEGLCRAYHRN 1410

Query: 1499 PSSVEPFDEALFADCINLNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNE 1320
              +V PF+E L+ +CI LNEFAQLSSKTQ+ IMAN+ RSDPDWR+SAVRIFSK+QHK NE
Sbjct: 1411 SFTVLPFNETLYLECIALNEFAQLSSKTQSVIMANSKRSDPDWRYSAVRIFSKAQHKVNE 1470

Query: 1319 ASIFGSWKACQTLALMHDAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCRE 1140
             SIFG+WKACQTLALMHDAVVLLLGPVKKYQR+FD +DRPA++YVHA +TP QMS WC+ 
Sbjct: 1471 NSIFGNWKACQTLALMHDAVVLLLGPVKKYQRMFDAQDRPAHLYVHAGNTPAQMSSWCQN 1530

Query: 1139 NLSSCEHVANDYTAFDQSQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVTTQFGPLTC 960
            +L+   H+ANDYTAF QSQHGEAVVLE KKM RLSIP+ LI LH +LKTNV TQFGPLTC
Sbjct: 1531 HLTDTVHLANDYTAFVQSQHGEAVVLERKKMERLSIPQALIDLHVFLKTNVETQFGPLTC 1590

Query: 959  MRLTGEPGTYDDNTDYNLAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPLWITIGPMLHL 780
            MRLTGEPGTYDDN+DYNLAVI+ +Y  + +P M+SGDDSL+D +P   P W  + P+L L
Sbjct: 1591 MRLTGEPGTYDDNSDYNLAVINLEYSASHVPTMISGDDSLLDFEPPRRPEWSALEPLLAL 1650

Query: 779  RFKLEVTRYPLFCGYLVGPSGAVRSPITLFAKSLMALDDGSLDDKLASYLTEFSVGHSLG 600
            RFK E  RY  FCGY VG +GAVRSPI LFAK ++A+DDGSL DKL SYL EF+VGHSLG
Sbjct: 1651 RFKKERDRYATFCGYYVGKAGAVRSPIALFAKLMIAVDDGSLGDKLISYLAEFAVGHSLG 1710

Query: 599  QEMWNLIPVEQVHYQAALFDFFCRKASREQKLVLKIGEVPDTIISTILSSARAIARPLYA 420
               W L+P+E V +Q+A FDFFCR+A    K+ LK+GEV ++I++ +       +  +Y+
Sbjct: 1711 DPFWTLLPLEAVLFQSACFDFFCRRAPPALKISLKLGEVSESIMARLGRGLNWASSAVYS 1770

Query: 419  YLSSSARKLLLKGSKTYRPF-DTEESLQFEGVLQHAVSIATPP 294
             LSS+ R+ LL  S+  R   D  E  + +G L  +      P
Sbjct: 1771 MLSSAQRRALLTSSRQGRSLPDNPEVSKLQGELLQSFQFVPQP 1813



 Score =  429 bits (1104), Expect = e-117
 Identities = 255/630 (40%), Positives = 351/630 (55%), Gaps = 6/630 (0%)
 Frame = -1

Query: 5954 LFESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTH 5775
            + E+L+ T HRDT++S L+E V DP R SL++YP++V     +FL   GI+ SG+G K+H
Sbjct: 47   VIEALAPTSHRDTISSALLETVVDPFRSSLQRYPWSVPTHHQTFLQNCGIDASGFGFKSH 106

Query: 5774 PHPAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTR 5595
            PHP HK +E  ++ + W  L    S+V+FMKPSKF KL+    +F EL NYRL  +D+TR
Sbjct: 107  PHPVHKILETNLIHNTWSCLASTDSAVMFMKPSKFAKLQAAQPHFTELHNYRLVAKDSTR 166

Query: 5594 YPSSSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFP 5415
            YP +S+ +P   T+FMHD +MYYTP  + DLFL +P L +LYA+LVVPPES FT  + +P
Sbjct: 167  YPVTSSHVPNIETIFMHDTIMYYTPAQVLDLFLQSPKLQKLYASLVVPPESDFTSITLYP 226

Query: 5414 ELYNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHL 5235
            ELY F F    LVYELE NP+H+Y QPKSAL WL+T+TI   D +L++SIL+S GP+H L
Sbjct: 227  ELYRFRFDGHSLVYELEQNPAHNYTQPKSALVWLKTTTIIGPDFSLTVSILDSQGPLHSL 286

Query: 5234 LIQRGLAPKHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVPLAAYHSLRAYVMAVRTLR 5055
            LIQRG  P H  + T +F TP   LLPAP+SL+Q+VR RLVP   Y ++  YV  VRTLR
Sbjct: 287  LIQRGEPPLHSRHDTAEFRTPPAILLPAPSSLNQDVRHRLVPKKVYDAVFLYVRTVRTLR 346

Query: 5054 TTDPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAVSYLTFASSFARIKHW-XX 4878
             TDPAGF+RTQS+K E +WVT+ AWD+L +FAL T + RP  +Y  F+S+ AR+ HW   
Sbjct: 347  VTDPAGFIRTQSSKAEHSWVTSFAWDNLAHFALQTASHRPRTTYYLFSSALARLSHWCRN 406

Query: 4877 XXXXXXXXXXXXXXXAVSFTTVKVAHYCSTRQIDSLILFGKQIVRPSCPLNSPFSLHQYF 4698
                           A + +++ V+ +  + +++SL +F + I  P   L +P +     
Sbjct: 407  HQLALSWASVVAISPAAALSSLSVSKFLRS-ELNSLAIFRRWIKAPPHFLFAPKAPFLSM 465

Query: 4697 S-RTAQLPPSL--STQLPRFELVTSPRIITKWSPCLARFLLSTPFFRTLTTQLNFLSKKC 4527
            S R  +  P L  +T        T+ +     +P LA F    P  R       FL+   
Sbjct: 466  SFRALRTGPLLFANTGFQTRLFPTAAQNFCSANPLLASFFPVKPLHRGA-----FLAS-- 518

Query: 4526 FFAKGFPHSRKLXXXXXXXXXILWAYRRFMGPDAPQAMFDQYNGYFNPKPWKLRIAQGPT 4347
              A   P               L   R+F+GPD+PQ+M D Y   F+P  W+L   + P 
Sbjct: 519  LLAASVP-------------VALLLVRQFVGPDSPQSMHDAYADLFHPADWRLIFNRKPL 565

Query: 4346 KCSRGQFLPF--CPRPHSLIQXXXXXXDIFLINAVSIDLQTEVPEHIRSLALSKPLHYEP 4173
              S   FLP    P P  L Q          I +++I   +  P    SLA   P    P
Sbjct: 566  FASPEPFLPITTVPAPVDLPQ----------IESIAIPAPSPAPPSPTSLA---PTPIPP 612

Query: 4172 SDDIPDPAPVLIPTKVANKITAISTSGAPQ 4083
                 DPAP       A      + + AP+
Sbjct: 613  VTSTLDPAPASASAPAATPPAIAAPAPAPE 642


>ref|NP_115454.1| polyprotein [Maize rayado fino virus]
            gi|81964785|sp|Q91TW9.1|POLG_MRFVC RecName: Full=Genome
            polyprotein; Includes: RecName: Full=RNA-directed RNA
            polymerase; Includes: RecName: Full=Helicase; Includes:
            RecName: Full=Methyltransferase; Contains: RecName:
            Full=RNA replication protein; Contains: RecName:
            Full=Capsid protein CP1; Short=CP1; AltName: Full=Coat
            protein gi|14030260|gb|AAK52838.1|AF265566_1 polyprotein
            [maize rayado fino virus]
          Length = 2027

 Score = 1075 bits (2781), Expect = 0.0
 Identities = 579/1171 (49%), Positives = 740/1171 (63%), Gaps = 8/1171 (0%)
 Frame = -1

Query: 3806 TVNVAIPDDTTPERSTLILD--PSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAP 3633
            TV    P    PE  T  LD  PS  G V  F +L    Y+     F  R R+   S+ P
Sbjct: 656  TVFAVTPGPRAPEPDTARLDADPSASGPVMEFRELQKGAYIEPTGAFLTRARNSVSSSIP 715

Query: 3632 FPTMP-CLLDAVGSCLGVTPAELWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQF 3456
            +PT   CLL AV    G+    LW+ LC +LPDS+L +  + + GL+TDH   L+  +  
Sbjct: 716  YPTRAACLLVAVSQATGLPTRTLWAALCANLPDSVLDDGSLATLGLTTDHFAVLARIFSL 775

Query: 3455 KAFVTSDQEPIPHPYGVDSAPTTIRFSHTTGNPGHFFITSDPGAPPPPKXXXXXXXXXXX 3276
            +    S+   +    G+  A +     HT   PGHF + +D  + P              
Sbjct: 776  RCRFVSEHGDVE--LGLHDATSRFTIRHT---PGHFELVADNFSLPALVGASSVPGADLA 830

Query: 3275 XXXLTTFRLNGELLPFQTVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPNSAKEKFV 3096
                     +  +LPF+ VH +R +V+RAKNLISNMKNGFDGVMA  +P  P SA+E+F+
Sbjct: 831  EACKRFVAPDRTVLPFRDVHIHRTDVRRAKNLISNMKNGFDGVMAQANPLDPKSARERFL 890

Query: 3095 TTDGILDIAKSRSIKLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKAS 2916
              D  LDIA  R ++LIHIAGF GCGKS+PI  LL T P  R F+++VPT ELR EWKA 
Sbjct: 891  MLDSCLDIAAPRRVRLIHIAGFAGCGKSWPISHLLRT-PAFRVFKLAVPTTELRDEWKAL 949

Query: 2915 MDLEPKNNWRIGTWEXXXXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQG 2736
            MD   ++ WR GTWE         LV+DE+YKMPRGYLDLAI  D  ++ VI+LGDP+QG
Sbjct: 950  MDPRDQDKWRFGTWESSLLKTARVLVIDEVYKMPRGYLDLAIHADAAIQFVILLGDPIQG 1009

Query: 2735 EYHSTHPQSSNHKLSSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGFCRPVNH 2556
            EYHSTHP SSN +LS E  +LRPY+DFYC W+RR P+ +A    VPTTS E GF R    
Sbjct: 1010 EYHSTHPSSSNARLSPEHRYLRPYVDFYCFWSRRIPQNVARVLDVPTTSTEMGFARYSQQ 1069

Query: 2555 LPMNCPILTNSHSAALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMALVAL 2376
             P +  IL ++  +A +L +    A TI++SQGST + P  +HLD HS +LS+  +LVA+
Sbjct: 1070 FPFSGKILISARDSAKSLADCGYHAVTIASSQGSTIAGPAYVHLDNHSRRLSHQHSLVAI 1129

Query: 2375 TRSTKGVLFSGDQSILQPGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQLRGVTLIST 2196
            TRS  G++F+GD++       +  LFS +         D R  +++ F   L     ++ 
Sbjct: 1130 TRSKSGIVFTGDKAAADGTSSANLLFSAVLL-------DRRLSVRSLFSALLPCCPFVTE 1182

Query: 2195 PLKSRKLVGACPSEVKHSSTVRDFTHHAIRGSTVRDPSYQPSLAHVVRHTSPAIYHSELN 2016
            P  SR ++                         +R   Y  +     R   P        
Sbjct: 1183 PPTSRAVL-------------------------LRGAGYGIARPLRARDAPP-------- 1209

Query: 2015 RLHPDFKGDAVR-SAVIVCGDGIDHLPRVSPHFIAETRLPYHSDMPSAMPSQCSLSP--P 1845
             L PD+ GD +  S+  + GDG  + P+VS HF+ ETR P H D+PSA   Q +  P  P
Sbjct: 1210 -LGPDYVGDVILDSSAPILGDGSANAPQVSTHFLPETRRPLHFDIPSAR-HQVADHPLAP 1267

Query: 1844 TFSAPVFEPVYPGEDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQTL 1665
              SA   EPVYPGE FE+LAS FLP  D   +E  F+GE S QFP+L++PF+L  Q  +L
Sbjct: 1268 DHSACAIEPVYPGESFESLASLFLPPTDAESKETYFRGEMSNQFPHLDKPFELGAQTSSL 1327

Query: 1664 IAAQHHGQKDSTLLPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSVE 1485
            +A  H+ + D TLLPASI KRLRFR +  PYVI+P+D++LG LL+ + C+AY+R P  VE
Sbjct: 1328 LAPLHNSKHDPTLLPASIGKRLRFRHSEAPYVIAPRDEILGSLLYEAWCRAYHRSPRDVE 1387

Query: 1484 PFDEALFADCINLNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIFG 1305
            PFD  L+A+CINLNEFAQLSSKTQ TIMANA+RSDPDWRWSAVRIF+K+QHK NE S+FG
Sbjct: 1388 PFDPDLYAECINLNEFAQLSSKTQATIMANANRSDPDWRWSAVRIFAKTQHKVNEGSLFG 1447

Query: 1304 SWKACQTLALMHDAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCRENLSSC 1125
            SWKACQTLALMHDAVVLLLGPVKKYQR FD RDRP+ +YVHA HTPF+M+DWCR +L+  
Sbjct: 1448 SWKACQTLALMHDAVVLLLGPVKKYQRFFDQRDRPSTLYVHAGHTPFEMADWCRAHLTPA 1507

Query: 1124 EHVANDYTAFDQSQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVTTQFGPLTCMRLTG 945
              +ANDYTAFDQSQHGEAVV E  KM RLSIP  L+ LH YLKTNV+TQFGPLTCMRLTG
Sbjct: 1508 VKLANDYTAFDQSQHGEAVVFERYKMNRLSIPAELVDLHVYLKTNVSTQFGPLTCMRLTG 1567

Query: 944  EPGTYDDNTDYNLAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPLWITIGPMLHLRFKLE 765
            EPGTYDDNTDYN+AV+H +Y + S P MVSGDDSL+D +P     W  I PML L FK E
Sbjct: 1568 EPGTYDDNTDYNIAVLHLEYAVGSTPLMVSGDDSLLDSEPPVRDQWSAIAPMLALTFKKE 1627

Query: 764  VTRYPLFCGYLVGPSGAVRSPITLFAKSLMALDDGSLDDKLASYLTEFSVGHSLGQEMWN 585
              RY  FCGY VG +GAVRSP  LFAK ++A+DDGS+ DKL +YLTEF+VGHS G   W 
Sbjct: 1628 RGRYATFCGYYVGFTGAVRSPPALFAKLMIAVDDGSISDKLIAYLTEFTVGHSSGDAFWT 1687

Query: 584  LIPVEQVHYQAALFDFFCRKASREQKLVLKIGEVPDTIISTILSSARAIARPLYAYLSSS 405
            ++PVE V YQ+A FDFFCR+A  + K++L++GE P++++S      +  +  +YA ++SS
Sbjct: 1688 ILPVEAVPYQSACFDFFCRRAPAQAKVMLRLGEAPESLLSLAFEGLKWASHSVYALMNSS 1747

Query: 404  ARKLLLKGSKTYR--PFDTEESLQFEGVLQH 318
             R+ LL  S+  R  P D E S Q +G L H
Sbjct: 1748 HRRQLLHSSRRPRSLPEDPEVS-QLQGELLH 1777



 Score =  440 bits (1132), Expect = e-120
 Identities = 248/557 (44%), Positives = 315/557 (56%), Gaps = 6/557 (1%)
 Frame = -1

Query: 5948 ESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTHPH 5769
            ESL+ T HRDT+T+P+VE++A PLR SLE+YP+++     SFL   G++ISG+G   HPH
Sbjct: 15   ESLTPTTHRDTITAPIVESLATPLRRSLERYPWSIPKEFHSFLHTCGVDISGFGHAAHPH 74

Query: 5768 PAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTRYP 5589
            P HK IE ++L DVWPN  R  S V+F+KP KF KL+ +  NF  LINYRL P+DTTRYP
Sbjct: 75   PVHKTIETHLLLDVWPNYARGPSDVMFIKPEKFAKLQSRQPNFAHLINYRLVPKDTTRYP 134

Query: 5588 SSSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFPEL 5409
            S+ST LP   TVFMHDALMYYTPG IADLF   P L ++YA++VVP ESSFT  S  PE+
Sbjct: 135  STSTNLPDCETVFMHDALMYYTPGQIADLFFLCPQLQKIYASVVVPAESSFTHLSLHPEI 194

Query: 5408 YNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHLLI 5229
            Y F F  +DLVYE EGNP+ +Y QP+SALDWL+T+         S+++L+S GPVH LLI
Sbjct: 195  YRFRFQGSDLVYEPEGNPAANYTQPRSALDWLQTTGFTVGHEFFSVTLLDSFGPVHSLLI 254

Query: 5228 QRGLAPKHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVPLAAYHSLRAYVMAVRTLRTT 5049
            QRG  P  +      F  PD   LPAP SL Q++R RLVP   Y +L  YV AVR LR T
Sbjct: 255  QRGRPPVFQAEDIASFRVPDAVALPAPASLHQDLRHRLVPRKVYDALFNYVRAVR-LRVT 313

Query: 5048 DPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAVSYLTFASSFARIKHWXXXXX 4869
            DPAGFVRTQ  KPE++WVT+ AWD+LQ+FAL T   RP  S+  F S FAR+ HW     
Sbjct: 314  DPAGFVRTQVGKPEYSWVTSSAWDNLQHFALQTAAVRPNTSHPLFQSPFARLSHWLRTHT 373

Query: 4868 XXXXXXXXXXXXAVSFTTVKVAHYCSTRQIDSLILFGKQIVR----PSCPLNSPFSLHQY 4701
                          ++ T            D L LFG  I+     P  P + P     +
Sbjct: 374  WALWCLASPSASVSAWATASALGRLLPLHTDRLRLFGFDIIGRRFWPRLPFHGPEPRFLW 433

Query: 4700 FSRTAQLPPSLSTQLPRFELVTSPRIITKWSPCLARFLLSTPFFRTLTTQLNFLSKKCFF 4521
             +  A  PP L      FE      +  + SP        +PF+  L    +  S   + 
Sbjct: 434  ETHPACRPPVLFAD-SAFECQILAGLANRCSP--------SPFWSRLFPTASPPSWVAYS 484

Query: 4520 AKGFPHSRKLXXXXXXXXXILWAYRRFMGPDAPQAMFDQYNGYFNPKPWKLRIAQGPTKC 4341
            A                     A R F GPD+PQA+ DQY+  F+P PW L + +   + 
Sbjct: 485  ALAL----------AAVPLAALALRWFYGPDSPQALHDQYHATFHPDPWTLDLPRRLRRF 534

Query: 4340 SRGQFL--PFCPRPHSL 4296
             R  F+     P P SL
Sbjct: 535  ERESFMRTGSAPLPQSL 551


>ref|YP_004464920.1| polyprotein [Switchgrass mosaic virus] gi|332672309|gb|AEE25899.3|
            polyprotein [Switchgrass mosaic virus]
          Length = 2061

 Score = 1069 bits (2764), Expect = 0.0
 Identities = 575/1171 (49%), Positives = 747/1171 (63%), Gaps = 8/1171 (0%)
 Frame = -1

Query: 3806 TVNVAIPDDTTPERST--LILDPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAP 3633
            TV   IP    PE +   L +DP+  G +  F  L P  Y+     F  R R+   ST  
Sbjct: 687  TVFAQIPTPREPESALARLEVDPTASGPIMEFRDLQPGLYLGTTGSFLTRARNSVSSTIQ 746

Query: 3632 FPTMP-CLLDAVGSCLGVTPAELWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQF 3456
            +P    CLL AV +   +  A LW+ L  +LPDS+L +  +   GL+TDH   L+  +  
Sbjct: 747  YPARAACLLVAVRNATSLPTATLWAALAANLPDSILDDGSLVRLGLTTDHFAVLARIFSL 806

Query: 3455 KAFVTSDQEPIPHPYGVDSAPTTIRFSHTTGNPGHFFITSDPGAPPPPKXXXXXXXXXXX 3276
            +    SD   I    GV  A +     HT   PGHF + +D  + P              
Sbjct: 807  RCRFVSDH--IDVELGVADATSRFTIRHT---PGHFELVADDYSLPALVGASTIPGADLA 861

Query: 3275 XXXLTTFRLNGELLPFQTVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPNSAKEKFV 3096
                     +  +LPF+ VH +R +VKRAKNLISNMKNGFDGVMA  +P  P SA+E+F+
Sbjct: 862  ESCKRFVASDRTVLPFRDVHIHRTSVKRAKNLISNMKNGFDGVMAQANPLDPKSARERFL 921

Query: 3095 TTDGILDIAKSRSIKLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKAS 2916
              D  LDIA  R ++LIHIAGF GCGKS+P+ +LL T P  R F+++VPT ELR EWK  
Sbjct: 922  MLDSCLDIAAPRVVRLIHIAGFAGCGKSWPVAQLLKT-PAFRTFKLAVPTTELRDEWKGL 980

Query: 2915 MDLEPKNNWRIGTWEXXXXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQG 2736
            M+   ++ WR GTWE         LV+DE+YKMPRGYLDLAI  D  ++ VI+LGDP+QG
Sbjct: 981  MEPRDQDKWRFGTWESSLLKSARTLVIDEVYKMPRGYLDLAIHADASIQFVILLGDPIQG 1040

Query: 2735 EYHSTHPQSSNHKLSSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGFCRPVNH 2556
            EYHSTHP SSN +LS E  +LRPY+DFYC W+RR P+ +A   GVP+TS+  G+ R  + 
Sbjct: 1041 EYHSTHPSSSNARLSPEHVYLRPYIDFYCFWSRRIPQYVATILGVPSTSKVSGYARHSSQ 1100

Query: 2555 LPMNCPILTNSHSAALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMALVAL 2376
             P+N  IL ++ ++A +L +   +A TI++SQGST + PV IHLD H+ +LS+  +LVA+
Sbjct: 1101 FPLNGKILISAMTSAKSLVDCGYQAITIASSQGSTVNGPVHIHLDNHARRLSHQHSLVAI 1160

Query: 2375 TRSTKGVLFSGDQSILQPGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQLRGVTLIST 2196
            TRS  G++F+GD S+      S  LFS +            +PI           +L S 
Sbjct: 1161 TRSRAGLVFTGDPSVADGTSSSNLLFSAVLM---------NHPISVR--------SLFSA 1203

Query: 2195 PLKSRKLVGACPSEVKHSSTVRDFTHHAIRGSTVRDPSYQPSLAHVVRHTSPAIYHSELN 2016
             L     V + P+                R   +R   Y          ++P +   E  
Sbjct: 1204 LLPRCPFVESPPTS---------------RSVLLRGAGYG---------SAPPLRPRESP 1239

Query: 2015 RLHPDFKGDAVRS-AVIVCGDGIDHLPRVSPHFIAETRLPYHSDMPSAMPSQCSLSP--P 1845
             + PDF+GD +   +    GDG  + P+VS HF+ E+R P H D+PSA   Q +  P  P
Sbjct: 1240 PMRPDFQGDVIADLSAPFLGDGSSNAPQVSTHFLPESRRPLHFDVPSAR-HQVADHPLKP 1298

Query: 1844 TFSAPVFEPVYPGEDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQTL 1665
              SA   EPVYPGE FE LA+ FLP  D   +EI F+GE S QFP+L++PF++  QP +L
Sbjct: 1299 DHSACAIEPVYPGESFEQLAALFLPPTDAESKEIRFRGELSNQFPHLDKPFEISAQPSSL 1358

Query: 1664 IAAQHHGQKDSTLLPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSVE 1485
            +A  H+ + D TLLPASI KRLRFR N + Y IS +D++LG LL+ + C+AY R P  +E
Sbjct: 1359 LAPVHNSKHDPTLLPASIAKRLRFRHNDSAYTISARDEILGGLLYEAWCRAYRRSPLDIE 1418

Query: 1484 PFDEALFADCINLNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIFG 1305
            PFD  L+A+CINLNEFAQLSSKTQ TIMANA+RSDPDWRWSAVRIF+K+QHK NE S+FG
Sbjct: 1419 PFDPVLYAECINLNEFAQLSSKTQATIMANANRSDPDWRWSAVRIFAKTQHKVNEGSLFG 1478

Query: 1304 SWKACQTLALMHDAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCRENLSSC 1125
            SWKACQTLALMHDAVVLLLGPVKKYQR+FD RDRP+++YVHA HTPF+M++WC+++L+  
Sbjct: 1479 SWKACQTLALMHDAVVLLLGPVKKYQRVFDQRDRPSHLYVHAGHTPFEMAEWCQQHLTPA 1538

Query: 1124 EHVANDYTAFDQSQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVTTQFGPLTCMRLTG 945
              +ANDYTAFDQSQHGEAVV E  KM RLSIP+ LI LH YLKTNV+TQFGPLTCMRLTG
Sbjct: 1539 IKLANDYTAFDQSQHGEAVVFERFKMSRLSIPQELIDLHVYLKTNVSTQFGPLTCMRLTG 1598

Query: 944  EPGTYDDNTDYNLAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPLWITIGPMLHLRFKLE 765
            EPGTYDDNTDYN+AV+H +Y + S P MVSGDDSL+D +P     W  + PML L FK E
Sbjct: 1599 EPGTYDDNTDYNIAVLHLEYAVGSTPLMVSGDDSLLDSEPPVRDQWAAVEPMLALTFKKE 1658

Query: 764  VTRYPLFCGYLVGPSGAVRSPITLFAKSLMALDDGSLDDKLASYLTEFSVGHSLGQEMWN 585
              RY  FCGY VG +GAVRSP  LFAK ++A+DD S+DDKL +YLTEF+VGHSLG   W 
Sbjct: 1659 RGRYATFCGYYVGFTGAVRSPPALFAKLMIAVDDESIDDKLIAYLTEFTVGHSLGDAFWT 1718

Query: 584  LIPVEQVHYQAALFDFFCRKASREQKLVLKIGEVPDTIISTILSSARAIARPLYAYLSSS 405
            ++PVE V YQ+A FDFFCR+A  + K++L++GE P++++S      +  +  +YA ++SS
Sbjct: 1719 ILPVETVPYQSACFDFFCRRAPAQAKVMLRLGEAPESLLSMAFQGLKWASHSVYALMNSS 1778

Query: 404  ARKLLLKGSKTYR--PFDTEESLQFEGVLQH 318
             R+ LL  S+  R  P D E S Q +G L H
Sbjct: 1779 HRRQLLHSSRRPRSLPEDPEVS-QLQGELLH 1808



 Score =  428 bits (1101), Expect = e-116
 Identities = 240/548 (43%), Positives = 310/548 (56%), Gaps = 6/548 (1%)
 Frame = -1

Query: 5948 ESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTHPH 5769
            ESL+ T HRDT+T+P+VE++A PLR SLE+YP+++      FL   GI+ISG+G   HPH
Sbjct: 15   ESLTPTTHRDTITAPIVESLATPLRRSLERYPWSIPKEFHPFLHTCGIDISGFGHAAHPH 74

Query: 5768 PAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTRYP 5589
            P HK IE ++L DVWPN  R  S V+F+KP KF KL+ + +NF  LINYRL P+DTTRYP
Sbjct: 75   PVHKTIETHLLMDVWPNYARGPSDVMFIKPEKFAKLQTRQANFSHLINYRLVPKDTTRYP 134

Query: 5588 SSSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFPEL 5409
            ++ST LP   TVFMHDALMYY+PG IADLF   P L +LYA+LVVP ESSFT  S  PEL
Sbjct: 135  TTSTDLPDCETVFMHDALMYYSPGQIADLFHQCPQLQKLYASLVVPAESSFTHLSLHPEL 194

Query: 5408 YNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHLLI 5229
            Y F F   DLVYE EGNP+ +Y QP+ AL+WL+T+         ++++L+S GPVH LLI
Sbjct: 195  YRFRFQGDDLVYEPEGNPAANYTQPRRALEWLQTTGFTSGHEFFTVTLLDSFGPVHSLLI 254

Query: 5228 QRGLAPKHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVPLAAYHSLRAYVMAVRTLRTT 5049
            QRG  P      +  F  PD   LPAP SL Q++R RLVP   Y +L  YV AVRTLR T
Sbjct: 255  QRGRPPVFSAEDSVSFRVPDAIALPAPASLHQDLRHRLVPRRVYDALFNYVRAVRTLRVT 314

Query: 5048 DPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAVSYLTFASSFARIKHWXXXXX 4869
            DPA FVRTQ +KPE++WVT+ AWD+LQ+FAL T   RP  S+  F S  AR+ HW     
Sbjct: 315  DPADFVRTQVSKPEYSWVTSSAWDNLQHFALQTAAVRPNTSHPLFQSPLARVAHWLRTHT 374

Query: 4868 XXXXXXXXXXXXAVSFTTVKVAHYCSTRQIDSLILFGKQIVR----PSCPLNSPFSLHQY 4701
                          ++         +    D L LFG  ++     P  P  SP +   +
Sbjct: 375  WALWCLASPAASLTAWLAASRFGRLTVLHTDRLRLFGCDLIGRRFWPILPFQSPEARFLW 434

Query: 4700 FSRTAQLPPSLSTQLPRFELVTSPRIITKWSPCLARFLLSTPFFRTLTTQLNFLSKKCFF 4521
             + +A  P +L      FE      +  + SP        +P    L            F
Sbjct: 435  ETHSACKPYTLFAG-SAFECRVLGALAHRCSP--------SPTLSRL------------F 473

Query: 4520 AKGFPHSRKLXXXXXXXXXILWA--YRRFMGPDAPQAMFDQYNGYFNPKPWKLRIAQGPT 4347
             +  P    +          L A   R F+GPD+PQA+ DQY+  F+P  W L + +   
Sbjct: 474  PEAQPARWVVFGSLALAAVPLTALLVRWFLGPDSPQALHDQYHATFHPDSWSLDLPRRLR 533

Query: 4346 KCSRGQFL 4323
             C R  FL
Sbjct: 534  SCVREPFL 541


>gb|ACV83739.1| replicase-associated polyprotein [Grapevine virus Q]
          Length = 2081

 Score = 1055 bits (2728), Expect = 0.0
 Identities = 569/1199 (47%), Positives = 741/1199 (61%), Gaps = 26/1199 (2%)
 Frame = -1

Query: 3788 PDDTTPERSTLILDPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAPFPTMPCLL 3609
            P    PE S L  D S  GEVS F  L+P D++   A F  R+R   +S A +P M CLL
Sbjct: 741  PGLVEPEHSPLAADSSATGEVSEFFNLHPADWIAPTATFLARRRGETISGAKYPAMDCLL 800

Query: 3608 DAVGSCLGVTPAELWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQFKAFVTSDQE 3429
             AV +   +    LW T+C + PDS+L+   I   GLST H  AL+  ++ +A   S   
Sbjct: 801  AAVSAGANIPKDALWKTICSYFPDSMLREEDIAKHGLSTHHFAALAREHRLQATFHSAGN 860

Query: 3428 PIPHPYGVDSAPTTIRFSHTTGN---PGHFFITSDPGAPPPPKXXXXXXXXXXXXXXLTT 3258
                  GV+    +    HT  +   PGHF + +D     P                   
Sbjct: 861  QFV--LGVEHPSVSFHIDHTPESATAPGHFSLRADERQHSP---RLLGGRAADLVHAALK 915

Query: 3257 FRLNGELLPFQTVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPNSAKEKFVTTDGIL 3078
            F++   +LPFQ  H+Y  NV RAKNLISNMKNGFDGV+A +DP H N ++++ ++ DG +
Sbjct: 916  FKVGSAVLPFQQAHDYTTNVARAKNLISNMKNGFDGVLANIDPAHTNESRDRLLSLDGAM 975

Query: 3077 DIAKSRSIKLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKASMDLEPK 2898
            DIA  R +KLIHIAGFPGCGKSYPI +LL +    ++F+I+VPT ELR+EWK  + ++P+
Sbjct: 976  DIAAPRDVKLIHIAGFPGCGKSYPIAQLLKSRA-FKHFKIAVPTVELRNEWKGVLKVKPQ 1034

Query: 2897 NNWRIGTWEXXXXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQGEYHSTH 2718
            +NWRI TWE         LV+DEIYKMPRGYLDLAI  DP +++VI LGDPLQG YHSTH
Sbjct: 1035 DNWRISTWESSLLKSARILVIDEIYKMPRGYLDLAIHADPTIDLVIALGDPLQGVYHSTH 1094

Query: 2717 PQSSNHKLSSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGFCRPVNHLPMNCP 2538
              SSNH+LSSE+ HL+PY+D+YC W+ R P+ I  FFG+ +TS  PGF     ++P N  
Sbjct: 1095 SDSSNHRLSSEVKHLQPYMDYYCLWSHRVPQDIGTFFGIKSTSTVPGFKSYQANIPGNLR 1154

Query: 2537 ILTNSHSAALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMALVALTRSTKG 2358
             L NS SAA  L +    + TI++SQGSTYS+P  IHLDRHS  LS++ +LVALTRS  G
Sbjct: 1155 QLANSQSAAKVLNQCGFSSVTIASSQGSTYSAPACIHLDRHSMSLSHAHSLVALTRSKSG 1214

Query: 2357 VLFSGDQSILQPGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQLRGVTLISTPLKSRK 2178
            V+F+GD+ +L+  P    LFS       S+  + +  ++  F  +     ++  PLK R 
Sbjct: 1215 VIFTGDKRVLE-APGGNLLFS-------SYFQEKKVDLRALFPTEFPCRPILLEPLKRRP 1266

Query: 2177 LVGACPSEVKHSSTVRDFTHHAIRGSTVRDPSYQPSLAHVVRHTSPAIYHSELNRLHPDF 1998
                            D T  A                       P  +  E    +P+ 
Sbjct: 1267 T---------------DLTGGA-----------------------PFPFRDEARVFNPER 1288

Query: 1997 KGDAVRSAVIVCGDGIDHLPRVSPHFIAETRLPYHSDMPSAMPSQCSLSPPTFSAPVF-E 1821
            + D    A +VCGDG  + P+VS HF+ ETR P H D+PSA P   +   P      F E
Sbjct: 1289 RDDVFVEAAVVCGDGSSNAPQVSTHFLPETRRPLHFDLPSAKPEFAAHEAPAPLTDTFIE 1348

Query: 1820 PVYPGEDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQTLIAAQHHGQ 1641
            PVYPGE FE +A+ FLPAHDP ++EI+FK +RS QFP+++QPF +  QP +L AA HH +
Sbjct: 1349 PVYPGETFENIAAHFLPAHDPEVKEILFKDQRSNQFPFIDQPFHVGAQPASLCAAVHHSK 1408

Query: 1640 KDSTLLPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSVEPFDEALFA 1461
            KD TLL ASI KRLRFR +  PY I+ KD++LG +LF + C+A  R P+   PFDEALFA
Sbjct: 1409 KDPTLLAASIEKRLRFRASDAPYQITAKDEILGSILFEAHCRAMRRDPNVRVPFDEALFA 1468

Query: 1460 DCINLNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIFGSWKACQTL 1281
            +CI LNEFAQL+SKTQ  IMAN  RSDPDWR++AVRIF+K+QHK N  S+FG WKACQTL
Sbjct: 1469 ECIALNEFAQLTSKTQAVIMANHERSDPDWRYTAVRIFAKNQHKVNSGSLFGPWKACQTL 1528

Query: 1280 ALMHDAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCR-------------- 1143
            ALMHDAV+LL GPVKKYQ + D RDRP +I+++A  TP +MS+WC+              
Sbjct: 1529 ALMHDAVILLFGPVKKYQLIHDERDRPEHIFIYAGRTPQEMSEWCQKFLTPRSASSPVPV 1588

Query: 1142 -----ENLSSC--EHVANDYTAFDQSQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVT 984
                 ++L  C    VANDYTAFDQSQHGEA VLE  KM R++IPE LI LH  +KT++T
Sbjct: 1589 MVSGDDSLIGCHPHFVANDYTAFDQSQHGEAAVLERLKMERVNIPEWLITLHIMIKTHIT 1648

Query: 983  TQFGPLTCMRLTGEPGTYDDNTDYNLAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPLWI 804
            TQFGPLTCMRLTGEPGTY DN+DYNLAVI  +Y M+              +    NPLW 
Sbjct: 1649 TQFGPLTCMRLTGEPGTYFDNSDYNLAVIFLEYSMSG-------------QWLSENPLWP 1695

Query: 803  TIGPMLHLRFKLEVTRYPLFCGYLVGPSGAVRSPITLFAKSLMALDDGSLDDKLASYLTE 624
             I P+L LRFK E TRY  FCGY VG +GAVR P  LFAK L+A++D S+ DK+ASY TE
Sbjct: 1696 AIKPLLALRFKKEKTRYGNFCGYYVGAAGAVRMPRALFAKILIAVEDASIADKMASYATE 1755

Query: 623  FSVGHSLGQEMWNLIPVEQVHYQAALFDFFCRKASREQKLVLKIGEVPDTIISTILSSAR 444
            F++GHSLG  +W+L+PVE+V YQ+A+FDFFCR A RE KL+ K+G V  +++  +   A 
Sbjct: 1756 FAIGHSLGDALWSLLPVEEVVYQSAVFDFFCRNAPRELKLLFKLGPVERSVVEAVQEFAT 1815

Query: 443  AIARPLYAYLSSSARKLLL-KGSKTYRPFDTEESLQFEGVLQHAVSIATPPPRLTGGSL 270
              +   Y +L+S+ RK+LL +  + + P D  E  Q +G L  + S+  P   LTGG L
Sbjct: 1816 WASYAFYRFLNSAQRKVLLTRSPQLHFPGDAPEVSQLQGELLQSFSMMQPTFPLTGGLL 1874



 Score =  402 bits (1032), Expect = e-108
 Identities = 232/556 (41%), Positives = 314/556 (56%), Gaps = 4/556 (0%)
 Frame = -1

Query: 5954 LFESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTH 5775
            L E L+ T HRDTV SP++EAVA PLR S+++YPY V       L + GI  SG+G K H
Sbjct: 84   LVEMLAPTTHRDTVASPILEAVAGPLRTSIQRYPYEVPAHAVPVLQRFGIEASGFGFKAH 143

Query: 5774 PHPAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTR 5595
            PHP HK IE ++L + W NL R+ S+VLFMK SKF KL+ +++NF  L NY LT +DTTR
Sbjct: 144  PHPVHKTIEIHLLFEHWLNLCRSPSAVLFMKQSKFEKLQHENANFEALANYNLTARDTTR 203

Query: 5594 YPSSSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFP 5415
            Y   +   P  +  FMHDAL Y++   +A  F   PHL +L+A+LVVPPES FT+ S FP
Sbjct: 204  YEQVAVAPPTQAVWFMHDALQYFSLSQVAAFFADCPHLEKLFASLVVPPESDFTNLSLFP 263

Query: 5414 ELYNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHL 5235
            E+Y + F  + L Y+LEGNP H Y QP+ AL+WL+T+TIRC +L L+++ LES GPVH L
Sbjct: 264  EIYRYSFAGSRLNYQLEGNPGHSYSQPREALEWLKTTTIRCGNLYLTVTKLESWGPVHSL 323

Query: 5234 LIQRGLAPKHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVPLAAYHSLRAYVMAVRTLR 5055
            LIQRG    H E+    F  PD   LP   +L Q++R RLVP   Y +L  YV AVRTLR
Sbjct: 324  LIQRGKPSVHLEHDEVSFVGPDAVALPEAAALRQDLRHRLVPRTVYDALFVYVRAVRTLR 383

Query: 5054 TTDPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAVSYLTFASSFARIKHWXXX 4875
            TTDP GFVRTQS K E++WVT+ AWD+LQ+F   T   R    +  F S+FA+ ++W   
Sbjct: 384  TTDPVGFVRTQSNKAEYSWVTSAAWDNLQHFVTETAAHRVPNRHFFFNSTFAKCRYWCSQ 443

Query: 4874 XXXXXXXXXXXXXXAVS-FTTVKVAHYCSTRQIDSLILFGKQIVRPSCPLNSPFSLHQYF 4698
                           ++ FT  K+A   S+R + +L +F   +V P     +P +     
Sbjct: 444  HKLGLLTVTTPPACGLTLFTGAKLASAMSSR-LTALAVFHHWVVPPPTLFFTPKA----- 497

Query: 4697 SRTAQLPPSLSTQLPRFELVTSPRIITKWSPCLARFLLSTPFFRTLTTQLNFLS--KKCF 4524
                   P L+ QL R      P+ +    P      L  P  +     LNF S  ++ F
Sbjct: 498  -------PLLAIQLTRL-----PQPLFSSVP-----FLHKPLGKLSLRLLNFDSFLRRFF 540

Query: 4523 FAKGFPHSRKLXXXXXXXXXILW-AYRRFMGPDAPQAMFDQYNGYFNPKPWKLRIAQGPT 4347
                 P   +L          +W A R F+GPDAPQA+ D Y  +F+P  W+L   + P 
Sbjct: 541  PDAPIPTWARLLTVAIALSPAVWLAIRHFIGPDAPQALNDHYVRFFHPDRWQLTFERQPR 600

Query: 4346 KCSRGQFLPFCPRPHS 4299
              +  +  P+ P P +
Sbjct: 601  FVALDRTFPW-PLPQA 615


>ref|YP_002756536.1| putative 230 kDa polyprotein [Grapevine Syrah virus 1]
            gi|225691150|gb|ACO06249.1| putative 230 kDa polyprotein
            [Grapevine Syrah virus 1]
          Length = 2081

 Score = 1053 bits (2723), Expect = 0.0
 Identities = 567/1199 (47%), Positives = 739/1199 (61%), Gaps = 26/1199 (2%)
 Frame = -1

Query: 3788 PDDTTPERSTLILDPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAPFPTMPCLL 3609
            P    PE S L  D S  GEVS F  L+P D++   A F  R+R   +S A +P M CLL
Sbjct: 741  PGLVEPEHSPLAADSSATGEVSEFFNLHPADWIAPTATFLARRRGETISGAKYPAMDCLL 800

Query: 3608 DAVGSCLGVTPAELWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQFKAFVTSDQE 3429
             AV +   +    LW T+C + PDS+L+   I   GLST H  AL+  ++ +A   S   
Sbjct: 801  AAVSAGANIPKDALWKTICSYFPDSMLREEDIAKHGLSTHHFAALAREHRLQATFHSAGN 860

Query: 3428 PIPHPYGVDSAPTTIRFSHTTGN---PGHFFITSDPGAPPPPKXXXXXXXXXXXXXXLTT 3258
                  GV+    +    HT  +   PGHF + +D     P                   
Sbjct: 861  QFV--LGVEHPSVSFHIDHTPESATAPGHFSLRADERQHSP---RLLGGRAADLVHAALK 915

Query: 3257 FRLNGELLPFQTVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPNSAKEKFVTTDGIL 3078
            F++   +LPFQ  H+Y  NV RAKNLISNMKNGFDGV+A +DP H N ++++ ++ DG +
Sbjct: 916  FKVGSAVLPFQQAHDYTTNVARAKNLISNMKNGFDGVLANIDPAHTNESRDRLLSLDGAM 975

Query: 3077 DIAKSRSIKLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKASMDLEPK 2898
            DIA  R +KLIHIAGFPGCGKSYPI +LL +    ++F+I+VPT ELR+EWK  + ++P+
Sbjct: 976  DIAAPRDVKLIHIAGFPGCGKSYPIAQLLKSRA-FKHFKIAVPTVELRNEWKGVLKVKPQ 1034

Query: 2897 NNWRIGTWEXXXXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQGEYHSTH 2718
            +NWRI TWE         LV+DEIYKMPRGYLDLAI  DP +++VI LGDPLQG YHSTH
Sbjct: 1035 DNWRISTWESSLLKSARILVIDEIYKMPRGYLDLAIHADPTIDLVIALGDPLQGVYHSTH 1094

Query: 2717 PQSSNHKLSSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGFCRPVNHLPMNCP 2538
              SSNH+LSSE+ HL+PY+D+YC W+ R P+ I  FFG+ +TS  PGF     ++P N  
Sbjct: 1095 SDSSNHRLSSEVKHLQPYMDYYCLWSHRVPQDIGTFFGIKSTSTVPGFKSYQANIPSNLR 1154

Query: 2537 ILTNSHSAALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMALVALTRSTKG 2358
             L NS SAA  L +    + TI++SQGSTYS+P  IHLDRHS  LS++ +LVALTRS  G
Sbjct: 1155 QLANSQSAAKVLNQCGFSSVTIASSQGSTYSAPACIHLDRHSMSLSHAHSLVALTRSKSG 1214

Query: 2357 VLFSGDQSILQPGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQLRGVTLISTPLKSRK 2178
            V+F+GD+ +L+  P    LFS       S+  + +  ++  F  +     ++  PLK R 
Sbjct: 1215 VIFTGDKRVLE-APGGNLLFS-------SYFQEKKVDLRALFPTEFPCCPILLEPLKRRP 1266

Query: 2177 LVGACPSEVKHSSTVRDFTHHAIRGSTVRDPSYQPSLAHVVRHTSPAIYHSELNRLHPDF 1998
                            D T  A                       P  +  E    +P+ 
Sbjct: 1267 T---------------DLTGGA-----------------------PFPFRDEARVFNPER 1288

Query: 1997 KGDAVRSAVIVCGDGIDHLPRVSPHFIAETRLPYHSDMPSAMPSQCSLSPPTFSAPVF-E 1821
            + D    A +VCGDG  + P+VS HF+ ETR P H D+PSA P   +   P      F E
Sbjct: 1289 RDDVFVEAAVVCGDGSSNAPQVSTHFLPETRRPLHFDLPSAKPEFAAHEAPAPLTDTFIE 1348

Query: 1820 PVYPGEDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQTLIAAQHHGQ 1641
            PVYPGE FE +A+ FLPAHDP ++EI+FK +RS QFP+++QPF +  QP +L AA HH +
Sbjct: 1349 PVYPGETFENIAAHFLPAHDPEVKEILFKDQRSNQFPFIDQPFHVGAQPASLCAAVHHSK 1408

Query: 1640 KDSTLLPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSVEPFDEALFA 1461
            KD TLL ASI KRLRFR +  PY I+ KD++LG +LF + C+A  R P+   PFDEALFA
Sbjct: 1409 KDPTLLAASIEKRLRFRASDAPYQITAKDEILGSMLFEAHCRAMRRDPNVRVPFDEALFA 1468

Query: 1460 DCINLNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIFGSWKACQTL 1281
            +CI LNEFAQL+SKTQ  IMAN  RSDPDWR++AVRIF+K+QHK N  S+FG WKACQTL
Sbjct: 1469 ECIALNEFAQLTSKTQAVIMANHERSDPDWRYTAVRIFAKNQHKVNSGSLFGPWKACQTL 1528

Query: 1280 ALMHDAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCR-------------- 1143
            ALMHDAV+LL GPVKKYQ + D RDRP +I+++A  TP +MS+WC+              
Sbjct: 1529 ALMHDAVILLFGPVKKYQLIHDERDRPEHIFIYAGRTPQEMSEWCQKFLTPRSASSPVPV 1588

Query: 1142 -----ENLSSC--EHVANDYTAFDQSQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVT 984
                 ++L  C    VANDYTAFDQSQHGEA VLE  KM R++IPE LI LH  +KT++T
Sbjct: 1589 MVSGDDSLIGCHPHFVANDYTAFDQSQHGEAAVLERLKMERVNIPEWLIALHIMIKTHIT 1648

Query: 983  TQFGPLTCMRLTGEPGTYDDNTDYNLAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPLWI 804
            TQFGPLTCMRLTGEPGTY DN+DYNLAVI  +Y M+              +    NPLW 
Sbjct: 1649 TQFGPLTCMRLTGEPGTYFDNSDYNLAVIFLEYSMSG-------------QWLSENPLWP 1695

Query: 803  TIGPMLHLRFKLEVTRYPLFCGYLVGPSGAVRSPITLFAKSLMALDDGSLDDKLASYLTE 624
             I P+L LRFK E TRY  FCGY VG +GAVR P  LFAK  +A++D S+ DK+ASY TE
Sbjct: 1696 AIKPLLALRFKKEKTRYGNFCGYYVGAAGAVRMPRALFAKIFIAVEDASIADKMASYATE 1755

Query: 623  FSVGHSLGQEMWNLIPVEQVHYQAALFDFFCRKASREQKLVLKIGEVPDTIISTILSSAR 444
            F++GHSLG  +W+L+PVE+V YQ+A+FDF CR A RE KL+ K+G V  +++  +   A 
Sbjct: 1756 FAIGHSLGDALWSLLPVEEVVYQSAVFDFLCRNAPRELKLLFKLGPVERSVVEAVQEFAT 1815

Query: 443  AIARPLYAYLSSSARKLLL-KGSKTYRPFDTEESLQFEGVLQHAVSIATPPPRLTGGSL 270
              +   Y +L+S+ RK+LL +  + + P D  E  Q +G L  + S+  P   LTGG L
Sbjct: 1816 WASYAFYRFLNSAQRKVLLTRSPQLHFPGDAPEVSQLQGELLQSFSMMQPTLPLTGGLL 1874



 Score =  403 bits (1035), Expect = e-109
 Identities = 230/554 (41%), Positives = 311/554 (56%), Gaps = 2/554 (0%)
 Frame = -1

Query: 5954 LFESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTH 5775
            L E L+ T HRDTV SP++EAVA PLR S+++YPY V       L + GI  SG+G K H
Sbjct: 84   LVEMLAPTTHRDTVASPILEAVAGPLRTSIQRYPYEVPAHAVPVLQRFGIEASGFGFKAH 143

Query: 5774 PHPAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTR 5595
            PHP HK IE ++L + W NL R+ S+VLFMK SKF KL+ +++NF  L NY LT +DTTR
Sbjct: 144  PHPVHKTIEIHLLFEHWLNLCRSPSAVLFMKQSKFEKLQHENANFEALANYNLTARDTTR 203

Query: 5594 YPSSSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFP 5415
            Y   +   P  +  FMHDAL Y++   +A  F   PHL +L+A+LVVPPES FT+ S FP
Sbjct: 204  YEQVAVAPPTQAVWFMHDALQYFSLSQVAAFFADCPHLEKLFASLVVPPESDFTNLSLFP 263

Query: 5414 ELYNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHL 5235
            E+Y + F  + L Y+LEGNP H Y QP+ AL+WL+T+TIRC +L L+++ LES GPVH L
Sbjct: 264  EIYRYSFAGSRLNYQLEGNPGHSYSQPREALEWLKTTTIRCGNLYLTVTKLESWGPVHSL 323

Query: 5234 LIQRGLAPKHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVPLAAYHSLRAYVMAVRTLR 5055
            LIQRG    H E+    F  PD   LP   +L Q++R RLVP   Y +L  YV AVRTLR
Sbjct: 324  LIQRGKPSVHLEHDEVSFVGPDAVALPEAAALRQDLRHRLVPRTVYDALFVYVRAVRTLR 383

Query: 5054 TTDPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAVSYLTFASSFARIKHWXXX 4875
            TTDP GFVRTQS K E++WVT+ AWD+LQ+F   T   R    +  F S+FA+ ++W   
Sbjct: 384  TTDPVGFVRTQSNKAEYSWVTSAAWDNLQHFVTETAAHRVPNRHFFFNSTFAKCRYWCSQ 443

Query: 4874 XXXXXXXXXXXXXXAVS-FTTVKVAHYCSTRQIDSLILFGKQIVRPSCPLNSPFSLHQYF 4698
                           ++ FT  K+A   S+R + +L +F   +V P            +F
Sbjct: 444  HKLGLLTVTTPPACGLTLFTGAKLASAMSSR-LTALAVFHHWVVPPPT---------LFF 493

Query: 4697 SRTAQLPPSLSTQLPRFELVTSPRIITKWSPCLARFLLSTPFFRTLTTQLNFLSKKCFFA 4518
            +  A L     T+LP+    + P +         R L   PF R           + F  
Sbjct: 494  TPKAPLLAIQLTRLPQPLFSSVPFLHKPLGKLSLRLLNRFPFLR-----------RFFPD 542

Query: 4517 KGFPHSRKLXXXXXXXXXILW-AYRRFMGPDAPQAMFDQYNGYFNPKPWKLRIAQGPTKC 4341
               P   +L          +W A R F+GPDAPQA+ D Y  +F+P  W+L   + P   
Sbjct: 543  APIPTWARLLTVAIALSPAVWLAIRHFIGPDAPQALNDHYVRFFHPDRWQLTFERQPRFV 602

Query: 4340 SRGQFLPFCPRPHS 4299
            +  +  P+ P P +
Sbjct: 603  ALDRTFPW-PLPQA 615


>gb|AFV34757.1| polyprotein [Grapevine Syrah virus 1]
          Length = 2081

 Score = 1051 bits (2717), Expect = 0.0
 Identities = 566/1197 (47%), Positives = 737/1197 (61%), Gaps = 26/1197 (2%)
 Frame = -1

Query: 3788 PDDTTPERSTLILDPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAPFPTMPCLL 3609
            P    PE S L  D S  GEVS F  L+P D++   A F  R+R   +S A +P M CLL
Sbjct: 741  PGLVEPEHSPLAADSSATGEVSEFFNLHPADWIAPTATFLARRRGETISGAKYPAMDCLL 800

Query: 3608 DAVGSCLGVTPAELWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQFKAFVTSDQE 3429
             AV +   +    LW T+C + PDS+L+   I   GLST H  AL+  ++ +A   S   
Sbjct: 801  AAVSAGANIPKDALWKTICSYFPDSMLREEDIAKHGLSTHHFAALAREHRLQATFHSAGN 860

Query: 3428 PIPHPYGVDSAPTTIRFSHTTGN---PGHFFITSDPGAPPPPKXXXXXXXXXXXXXXLTT 3258
                  GV+    +    HT  +   PGHF + +D     P                   
Sbjct: 861  QFV--LGVEHPSVSFHIDHTPESATAPGHFSLRADERQHSP---RLLGGRAADLVHAALK 915

Query: 3257 FRLNGELLPFQTVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPNSAKEKFVTTDGIL 3078
            F++   +LPFQ  H+Y  NV RAKNLISNMKNGFDGV+A +DP H N ++++ ++ DG +
Sbjct: 916  FKVGSAVLPFQQAHDYTTNVARAKNLISNMKNGFDGVLANIDPAHTNESRDRLLSLDGAM 975

Query: 3077 DIAKSRSIKLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKASMDLEPK 2898
            DIA  R +KLIHIAGFPGCGKSYPI +LL +    ++F+I+VPT ELR+EWK  + ++P+
Sbjct: 976  DIAAPRDVKLIHIAGFPGCGKSYPIAQLLKSRA-FKHFKIAVPTVELRNEWKGVLKVKPQ 1034

Query: 2897 NNWRIGTWEXXXXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQGEYHSTH 2718
            +NWRI TWE         LV+DEIYKMPRGYLDLAI  DP +++VI LGDPLQG YHSTH
Sbjct: 1035 DNWRISTWESSLLKSARILVIDEIYKMPRGYLDLAIHADPTIDLVIALGDPLQGVYHSTH 1094

Query: 2717 PQSSNHKLSSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGFCRPVNHLPMNCP 2538
              SSNH+LSSE+ HL+PY+D+YC W+ R P+ I  FFG+ +TS  PGF     ++P N  
Sbjct: 1095 SDSSNHRLSSEVKHLQPYMDYYCLWSHRVPQDIGTFFGIKSTSTVPGFKSYQANIPSNLR 1154

Query: 2537 ILTNSHSAALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMALVALTRSTKG 2358
             L NS SAA  L +    + TI++SQGSTYS+P  IHLDRHS  LS++ +LVALTRS  G
Sbjct: 1155 QLANSQSAAKVLNQCGFSSVTIASSQGSTYSAPACIHLDRHSMSLSHAHSLVALTRSKSG 1214

Query: 2357 VLFSGDQSILQPGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQLRGVTLISTPLKSRK 2178
            V+F+GD+ +L+  P    LFS       S+  + +  ++  F  +     ++  PLK R 
Sbjct: 1215 VIFTGDKRVLE-APGGNLLFS-------SYFQEKKVDLRALFPTEFPCCPILLEPLKRRP 1266

Query: 2177 LVGACPSEVKHSSTVRDFTHHAIRGSTVRDPSYQPSLAHVVRHTSPAIYHSELNRLHPDF 1998
                            D T  A                       P  +  E    +P+ 
Sbjct: 1267 T---------------DLTGGA-----------------------PFPFRDEARVFNPER 1288

Query: 1997 KGDAVRSAVIVCGDGIDHLPRVSPHFIAETRLPYHSDMPSAMPSQCSLSPPTFSAPVF-E 1821
            + D    A +VCGDG  + P+VS HF+ ETR P H D+PSA P   +   P      F E
Sbjct: 1289 RDDVFVEAAVVCGDGSSNAPQVSTHFLPETRRPLHFDLPSAKPEFAAHEAPAPLTDTFIE 1348

Query: 1820 PVYPGEDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQTLIAAQHHGQ 1641
            PVYPGE FE +A+ FLPAHDP ++EI+FK +RS QFP+++QPF +  QP +L AA HH +
Sbjct: 1349 PVYPGETFENIAAHFLPAHDPEVKEILFKDQRSNQFPFIDQPFHVGAQPASLCAAVHHSK 1408

Query: 1640 KDSTLLPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSVEPFDEALFA 1461
            KD TLL ASI KRLRFR +  PY I+ KD++LG +LF + C+A  R P+   PFDEALFA
Sbjct: 1409 KDPTLLAASIEKRLRFRASDAPYQITAKDEILGSMLFEAHCRAMRRDPNVRVPFDEALFA 1468

Query: 1460 DCINLNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIFGSWKACQTL 1281
            +CI LNEFAQL+SKTQ  IMAN  RSDPDWR +AVRIF+K+QHK N  S+FG WKACQTL
Sbjct: 1469 ECIALNEFAQLTSKTQAVIMANHERSDPDWRHTAVRIFAKNQHKVNSGSLFGPWKACQTL 1528

Query: 1280 ALMHDAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCR-------------- 1143
            ALMHDAV+LL GPVKKYQ + D RDRP +I+++A  TP +MS+WC+              
Sbjct: 1529 ALMHDAVILLFGPVKKYQLIHDERDRPEHIFIYAGRTPQEMSEWCQKFLTPRSASSPVPV 1588

Query: 1142 -----ENLSSC--EHVANDYTAFDQSQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVT 984
                 ++L  C    VANDYTAFDQSQHGEA VLE  KM R++IPE LI LH  +KT++T
Sbjct: 1589 MVSGDDSLIGCHPHFVANDYTAFDQSQHGEAAVLERLKMERVNIPEWLIALHIMIKTHIT 1648

Query: 983  TQFGPLTCMRLTGEPGTYDDNTDYNLAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPLWI 804
            TQFGPLTCMRLTGEPGTY DN+DYNLAVI  +Y M+              +    NPLW 
Sbjct: 1649 TQFGPLTCMRLTGEPGTYFDNSDYNLAVIFLEYSMSG-------------QWLSENPLWP 1695

Query: 803  TIGPMLHLRFKLEVTRYPLFCGYLVGPSGAVRSPITLFAKSLMALDDGSLDDKLASYLTE 624
             I P+L LRFK E TRY  FCGY VG +GAVR P  LFAK  +A++D S+ DK+ASY TE
Sbjct: 1696 AIKPLLALRFKKEKTRYGNFCGYYVGAAGAVRMPRALFAKIFIAVEDASIADKMASYATE 1755

Query: 623  FSVGHSLGQEMWNLIPVEQVHYQAALFDFFCRKASREQKLVLKIGEVPDTIISTILSSAR 444
            F++GHSLG  +W+L+PVE+V YQ+A+FDF CR A RE KL+ K+G V  +++  +   A 
Sbjct: 1756 FAIGHSLGDALWSLLPVEEVVYQSAVFDFLCRNAPRELKLLFKLGPVERSVVEAVQEFAT 1815

Query: 443  AIARPLYAYLSSSARKLLL-KGSKTYRPFDTEESLQFEGVLQHAVSIATPPPRLTGG 276
              +   Y +L+S+ RK+LL +  + + P D  E  Q +G L  + S+  P   LTGG
Sbjct: 1816 WASYAFYRFLNSAQRKVLLTRSPQLHFPGDAPEVSQLQGELLQSFSMMQPTLPLTGG 1872



 Score =  403 bits (1035), Expect = e-109
 Identities = 230/554 (41%), Positives = 311/554 (56%), Gaps = 2/554 (0%)
 Frame = -1

Query: 5954 LFESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTH 5775
            L E L+ T HRDTV SP++EAVA PLR S+++YPY V       L + GI  SG+G K H
Sbjct: 84   LVEMLAPTTHRDTVASPILEAVAGPLRTSIQRYPYEVPAHAVPVLQRFGIEASGFGFKAH 143

Query: 5774 PHPAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTR 5595
            PHP HK IE ++L + W NL R+ S+VLFMK SKF KL+ +++NF  L NY LT +DTTR
Sbjct: 144  PHPVHKTIEIHLLFEHWLNLCRSPSAVLFMKQSKFEKLQHENANFEALANYNLTARDTTR 203

Query: 5594 YPSSSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFP 5415
            Y   +   P  +  FMHDAL Y++   +A  F   PHL +L+A+LVVPPES FT+ S FP
Sbjct: 204  YEQVAVAPPTQAVWFMHDALQYFSLSQVAAFFADCPHLEKLFASLVVPPESDFTNLSLFP 263

Query: 5414 ELYNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHL 5235
            E+Y + F  + L Y+LEGNP H Y QP+ AL+WL+T+TIRC +L L+++ LES GPVH L
Sbjct: 264  EIYRYSFAGSRLNYQLEGNPGHSYSQPREALEWLKTTTIRCGNLYLTVTKLESWGPVHSL 323

Query: 5234 LIQRGLAPKHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVPLAAYHSLRAYVMAVRTLR 5055
            LIQRG    H E+    F  PD   LP   +L Q++R RLVP   Y +L  YV AVRTLR
Sbjct: 324  LIQRGKPSVHLEHDEVSFVGPDAVALPEAAALRQDLRHRLVPRTVYDALFVYVRAVRTLR 383

Query: 5054 TTDPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAVSYLTFASSFARIKHWXXX 4875
            TTDP GFVRTQS K E++WVT+ AWD+LQ+F   T   R    +  F S+FA+ ++W   
Sbjct: 384  TTDPVGFVRTQSNKAEYSWVTSAAWDNLQHFVTETAAHRVPNRHFFFNSTFAKCRYWCSQ 443

Query: 4874 XXXXXXXXXXXXXXAVS-FTTVKVAHYCSTRQIDSLILFGKQIVRPSCPLNSPFSLHQYF 4698
                           ++ FT  K+A   S+R + +L +F   +V P            +F
Sbjct: 444  HKLGLLTVTTPPACGLTLFTGAKLASAMSSR-LTALAVFHHWVVPPPT---------LFF 493

Query: 4697 SRTAQLPPSLSTQLPRFELVTSPRIITKWSPCLARFLLSTPFFRTLTTQLNFLSKKCFFA 4518
            +  A L     T+LP+    + P +         R L   PF R           + F  
Sbjct: 494  TPKAPLLAIQLTRLPQPLFSSVPFLHKPLGKLSLRLLNRFPFLR-----------RFFPD 542

Query: 4517 KGFPHSRKLXXXXXXXXXILW-AYRRFMGPDAPQAMFDQYNGYFNPKPWKLRIAQGPTKC 4341
               P   +L          +W A R F+GPDAPQA+ D Y  +F+P  W+L   + P   
Sbjct: 543  APIPTWARLLTVAIALSPAVWLAIRHFIGPDAPQALNDHYVRFFHPDRWQLTFERQPRFV 602

Query: 4340 SRGQFLPFCPRPHS 4299
            +  +  P+ P P +
Sbjct: 603  ALDRTFPW-PLPQA 615


>ref|YP_004300278.1| replication-associated polyprotein [Fig fleck-associated virus]
            gi|326380895|emb|CAQ86912.3| replication-associated
            polyprotein [Fig fleck-associated virus]
          Length = 2161

 Score = 1012 bits (2616), Expect = 0.0
 Identities = 567/1173 (48%), Positives = 727/1173 (61%), Gaps = 27/1173 (2%)
 Frame = -1

Query: 3770 ERSTLILDPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAPFP-----TMP---C 3615
            E S LILDP+  G V+TF+      ++ GCA+F  R+R+ G    P+P     + P   C
Sbjct: 698  ENSRLILDPTAIGPVTTFSSTLSRSWLPGCADFPFRRRNPGSPHLPYPPPLASSSPHPCC 757

Query: 3614 LLDAVGSCLGVTPAELWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQFKAFVTSD 3435
            LL A  +  GV    LW+ LC   PDSLL     T+ GLST+HLTAL  +Y   A V S+
Sbjct: 758  LLVAFSNATGVFKETLWTLLCETFPDSLLD----TTLGLSTEHLTALCGYYFAAATVHSE 813

Query: 3434 QEPIPHPYGVDSAPTTIRFSHTTGNPGHFFITSDPGAPPPPKXXXXXXXXXXXXXXLTTF 3255
                   YGV      +   HTTG PGHF +    G P                  +  F
Sbjct: 814  HASCV--YGVTDPVIKLTIRHTTGFPGHFELILLGGTP------NAFSMVSPLSQSILNF 865

Query: 3254 RLNGELLPFQTVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPNSAKEKFVTTDGILD 3075
              + + LP + VHNY A   RAKNL SN+KN FDG+MA+ +P  P++A   FV+ D  LD
Sbjct: 866  TYSKKPLPIKQVHNYVALPHRAKNLSSNLKNSFDGIMASANPLSPSTAAAAFVSLDNRLD 925

Query: 3074 IAKSRSIKLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKASMDLEPKN 2895
                R ++L+H+AGF GCGKS PIQ LL      RNFR+SVPT ELR+EWK  + L+   
Sbjct: 926  FQPPRCVQLVHLAGFAGCGKSLPIQNLLRHNQDFRNFRVSVPTTELRNEWKKDLQLKSTE 985

Query: 2894 NWRIGTWEXXXXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQGEYHSTHP 2715
            +WRI TWE         LV+DEIYKMPRGYLDL IL DP ++ VI+LGDPLQGEYHS +P
Sbjct: 986  SWRINTWESSLLKTSPILVIDEIYKMPRGYLDLTILADPTIQFVIILGDPLQGEYHSLNP 1045

Query: 2714 QSSNHKLSSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGFCRPVNHLPMN--C 2541
             SSNH LSSEI HL PY+D+YC W+ R P+ +A+FF + ++++ PGFC    HLP +   
Sbjct: 1046 SSSNHHLSSEITHLLPYIDYYCMWSYRVPRKLANFFNISSSNKNPGFCSFSLHLPTDPSS 1105

Query: 2540 PILTNSHSAALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMALVALTRSTK 2361
            PILT S S A  L +   RA TIS+SQG T   P  I+LDR+   LS S  +VALTRS  
Sbjct: 1106 PILTCSQSQAKILNDTGHRALTISSSQGLTLDKPAHIYLDRNIPLLSPSNVIVALTRSRV 1165

Query: 2360 GVLFSGDQSILQPGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQLRGVTLISTPLKSR 2181
            G+ F+GD  +      S  +   L   +       +  +  HF   L  V +I++PL +R
Sbjct: 1166 GLCFTGDSDMFNCIRRSTPILEALFSGR-------QIDLAHHFPSILSRVNIITSPLPAR 1218

Query: 2180 K-LVGACPSEVKHSSTVRDFTHHAIRGSTVR------DPSYQPSLAHVVRHTSPAIYHSE 2022
            + L G  PS    SS  R     A+     R       P   P++A+      P++  S+
Sbjct: 1219 RTLFGGAPSHSSLSSGPRPRLVPALVPGLNRFTSLPSAPRPGPAVAN-----PPSLPLSQ 1273

Query: 2021 LNRLHPDFKGDAVRSAVIVCGDGIDHLPR--VSPHFIAETRLPYHSDMPSAMPSQCSLSP 1848
            +  + PD + D V    +V    I+  P+       + ETR P H ++P    S  + SP
Sbjct: 1274 MQSVDPDSQHDVV----LVYPQPIECEPQRAADATILPETRRPLHHELPFVELSSPNPSP 1329

Query: 1847 PTFSAPVFEPVYPGEDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQT 1668
              FS   F   YPG D++ +A  FL    P  +EI+++G  S+QFP+LN    L  QP T
Sbjct: 1330 ALFSETAFSHSYPGVDWQLIAGHFLSPFTPEEKEIMYRGTLSSQFPHLNIESRLGPQPLT 1389

Query: 1667 LIAAQHHGQKDSTLLPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSV 1488
            L AA H+ ++DSTLLPASI KRLRFR ++ PY ISP DQLLG LLF+SLCKAY+R P  +
Sbjct: 1390 LSAANHNSKRDSTLLPASIKKRLRFRPSARPYSISPSDQLLGHLLFLSLCKAYHRSPDPI 1449

Query: 1487 EPFDEALFADCINLNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIF 1308
            E F+  LF DCI LN+++QL+SKTQ TI ANA RSDPDWRWSA RIF+K+QHK NE SIF
Sbjct: 1450 E-FNFPLFVDCIELNDYSQLTSKTQKTIQANAYRSDPDWRWSAARIFAKTQHKVNEGSIF 1508

Query: 1307 GSWKACQTLALMHDAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCRENLSS 1128
            G WKACQTLAL+HDAV+L+ GP+KKYQR FD++DRP ++YVHA  TP Q+S WC++ L+ 
Sbjct: 1509 GPWKACQTLALLHDAVILIFGPIKKYQRHFDDKDRPPHLYVHAGKTPHQLSSWCQQFLTP 1568

Query: 1127 CEHVANDYTAFDQSQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVTTQFGPLTCMRLT 948
               +ANDYTAFDQSQ GEA VLE+ KMRR+SIPE LIQLH  +KT++TTQFGPLTCMRLT
Sbjct: 1569 GPRLANDYTAFDQSQGGEAAVLEVLKMRRVSIPEHLIQLHKTIKTSITTQFGPLTCMRLT 1628

Query: 947  GEPGTYDDNTDYNLAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPLWITIGPMLHLRFKL 768
            GEPGTYDDNTDYN A+++SQ+ +   P +VSGDDSLIDR PLP+P W TI  +L LR K 
Sbjct: 1629 GEPGTYDDNTDYNTAILYSQFQLGDTPVLVSGDDSLIDRVPLPHPHWPTISNLLLLRPKP 1688

Query: 767  EVTRYPLFCGYLVGPSGAVRSPITLFAKSLMALDDGSLDDKLASYLTEFSVGHSLGQEMW 588
            E++ + LFCGY VGP GAVR+P  LFAK  +A D G LD  LAS+L EF+VGHSLG  +W
Sbjct: 1689 EISNFSLFCGYFVGPEGAVRAPRALFAKLAIAFDLGELDKCLASFLAEFTVGHSLGDLVW 1748

Query: 587  NLIPVEQVHYQAALFDFFCRKASREQKLVLKIGEVPDTIISTILSSARAIARPLYAYLSS 408
            NLIP + + YQ ALFD FCR+ SREQKL L++GE+PD                 ++ L S
Sbjct: 1749 NLIPPDLLIYQFALFDAFCRECSREQKLALRLGEIPDYSRLLRFDQFHQFTFASFSLLKS 1808

Query: 407  SARKL---LLKGSK-----TYRPFDTEESLQFE 333
            SAR+L   L +G K     T+  F  E +  F+
Sbjct: 1809 SARRLYLRLFRGKKLRNVNTFPAFHPEGAASFD 1841



 Score =  362 bits (930), Expect = 9e-97
 Identities = 219/568 (38%), Positives = 301/568 (52%), Gaps = 23/568 (4%)
 Frame = -1

Query: 5954 LFESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTH 5775
            + E LS T H+D  TSPL+E+++ PLR SL+ Y +A+S   TS L   GIN+SG G+  H
Sbjct: 6    ILEQLSFTSHKDASTSPLMESISLPLRKSLDLYKFALSKEHTSMLQAYGINVSGLGSTPH 65

Query: 5774 PHPAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTR 5595
            PHPAHK IE ++L D W  L  + S+V+FMK SKF KL +   NF  L+N+ L P+D  R
Sbjct: 66   PHPAHKTIETHLLFDHWSFLATSPSTVMFMKESKFNKLSKLQPNFQTLLNFHLHPKDFAR 125

Query: 5594 YPSSSTTL--PAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSF 5421
            Y      L  P    VFMHDALMYY+   I DLF  +P ++ LYA+L++PPE+ FTD S 
Sbjct: 126  YGPDPLPLAFPETPLVFMHDALMYYSRAQILDLFFRSPKVSHLYASLIIPPEADFTDLSL 185

Query: 5420 FPELYNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCS---DLTLSISILESIG 5250
             P LY F F   DL+Y LE NPS  Y QP+S+L+WL+T+ I  S    L+LS+++LES G
Sbjct: 186  NPSLYQFQFLGQDLLYSLESNPSAQYTQPQSSLEWLKTTVIHSSTHPGLSLSVTVLESWG 245

Query: 5249 PVHHLLIQRGLAPKHRENTTRD---FDTPDCFLLPAPTSLSQNVRDRLVPLAAYHSLRAY 5079
            P+H LLI R L  +     + D   F TPDC LLP P SL+   RD LVP   YH+L  Y
Sbjct: 246  PIHSLLISR-LTKESPIPASEDRLLFKTPDCVLLPPPLSLNVPSRDLLVPAQVYHNLFLY 304

Query: 5078 VMAVRTLRTTDPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAVSYLTFASSFA 4899
            V AVRTLR TDP+GF+RTQ++KPE+AWVT+ AWD L  F LLTC  RP   +    +   
Sbjct: 305  VRAVRTLRVTDPSGFIRTQNSKPEYAWVTSNAWDHLAQFMLLTCPIRPNSHFAYLVTPLL 364

Query: 4898 RIKHWXXXXXXXXXXXXXXXXXAVSFTTVKVAHYCSTRQIDSLILFGKQIVRPSC-PLN- 4725
            R++H                  +       +A    +  I  + LF   ++  +  PLN 
Sbjct: 365  RLRHQLKTLSRSSLNSLILAVPSSFLCLGLLARRLFSSTITQIFLFRNPLLASTTPPLNN 424

Query: 4724 ---------SPFSLHQYFSRTAQLPPSLSTQLPRFELVTSPRIITKWSP--CLARFLLST 4578
                     + + L+Q  S   +     S +LP F++V +P+ +    P      FL   
Sbjct: 425  ARQPVLTRLADWFLNQLPSFVQRKLSPPSPRLPIFKVVLTPKPVQYTYPPDVPPLFLKFA 484

Query: 4577 P--FFRTLTTQLNFLSKKCFFAKGFPHSRKLXXXXXXXXXILWAYRRFMGPDAPQAMFDQ 4404
            P         ++N + +  F          +         +   + R   P +PQ + D 
Sbjct: 485  PPRILHLFRQEVNHVPRWLF---------PITLSASALSALYLLFVRLSSPSSPQELSDS 535

Query: 4403 YNGYFNPKPWKLRIAQGPTKCSRGQFLP 4320
            Y  YF+PKPWKL + +         F P
Sbjct: 536  YRRYFHPKPWKLFLERKEHFTPEAPFFP 563


>ref|NP_044328.1| replicase [Kennedya yellow mosaic virus]
            gi|548564|sp|P36304.1|POLR_KYMVJ RecName: Full=RNA
            replicase polyprotein gi|221971|dbj|BAA00532.1| unnamed
            protein product [Kennedya yellow mosaic virus]
          Length = 1874

 Score =  997 bits (2578), Expect = 0.0
 Identities = 551/1169 (47%), Positives = 725/1169 (62%), Gaps = 17/1169 (1%)
 Frame = -1

Query: 3788 PDDTTPERSTLILDPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAPFPTMPCLL 3609
            P   T  +S L+ DP+  G   +F+ LYP D+    A F  R R    +  P P   CLL
Sbjct: 753  PKPPTEVQSPLMADPTCVGPAVSFSSLYPRDFFPNTASFLTRLRLSPPTPLPMPKNNCLL 812

Query: 3608 DAVGSCLGVTPAELWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQFKAFVTSDQE 3429
             AV   L + P  LW++L   LPDSLL N +I S G+STD LTALSH + F+A V S++ 
Sbjct: 813  TAVAPSLHINPHRLWTSLQEVLPDSLLSNSEIDSVGMSTDLLTALSHLFNFQAVVHSERG 872

Query: 3428 PIPHPYGVDSAPTTIRFSHTTGNPGHFFITSDPGAPPPPKXXXXXXXXXXXXXXLTT--- 3258
             I   +G+ SA T I   HT G P H+         PPPK              L     
Sbjct: 873  DIL--FGLQSAKTVIHIYHTNGPPAHY--------SPPPKIIGSNSPPSSQQHPLEQAAL 922

Query: 3257 -FRLNGELLPFQTVHNYRANVKRAKNLISNMKNGFDGVMATVDP----QHPNSAKEKFVT 3093
             F+  G  LPF + H++  +V+ AKNLISNMKNGFDGVM+T++P    Q  +S +EKF+ 
Sbjct: 923  RFKYQGSHLPFSSFHSFTTSVQHAKNLISNMKNGFDGVMSTIEPSIRHQPGHSPREKFIA 982

Query: 3092 TDGILDIAKSRSIKLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKASM 2913
             D ++D+A+ +++ + H+AGF GCGK+ P+Q LL T P   +FR+S PT ELR+EWK  M
Sbjct: 983  LDAMIDLARPKTVSMFHLAGFAGCGKTKPLQSLLSTRP-FHSFRVSTPTTELRNEWKKDM 1041

Query: 2912 DLEPKNNWRIGTWEXXXXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQGE 2733
            +L     +R  TWE         LV+DEIYK+PRGYLDL IL DP LE+VI+LGDPLQGE
Sbjct: 1042 NLPASQAFRFCTWESSLLKQTKILVIDEIYKLPRGYLDLCILADPCLELVIILGDPLQGE 1101

Query: 2732 YHSTHPQSSNHKLSSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGF----CRP 2565
            YHST P SSNH+L SE   L P++D YC WT R P  IAD F VP+ ++  G      R 
Sbjct: 1102 YHSTSPHSSNHQLQSETTRLLPFIDHYCWWTYRVPSHIADLFSVPSFNRSEGHYQMAVRT 1161

Query: 2564 VNHLPMNCPILTNSHSAALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMAL 2385
             +        L NS + A  + +    A TISASQG T+ + V I LD+HS  LS S  L
Sbjct: 1162 ADSYTPGHFNLVNSVATANAVIQLGFPATTISASQGVTHHNRVTILLDKHSRLLSPSNTL 1221

Query: 2384 VALTRSTKGVLFSGDQSILQPGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQLRGVTL 2205
            VALTRST GV F GD   L    +S+ +FS+    Q  +       + + F      + L
Sbjct: 1222 VALTRSTVGVEFLGDIGSLSGTNNSSDMFSRAIYRQPIN-------LSSSFPRIFHLLPL 1274

Query: 2204 ISTPL--KSRKLVGACPSEVKHSSTVRDFTHHAIRGSTVRDPSYQPSLAHVVRHTSPAIY 2031
            ++ P+  +S +L+G+  S + H+  + +                     H+  H  P  Y
Sbjct: 1275 LNKPISRRSTRLIGS-HSPIFHNPRLTNI--------------------HLPPHI-PTSY 1312

Query: 2030 HSELNRLHPDFKGDAVRSAVIVCGDGIDHLPRVSPHFIAETRLPYHSDMPSAMPSQCSLS 1851
              +    +P F+G A               PR+  HF+  TRLP  S++  A  SQ +  
Sbjct: 1313 SQDFVVSNPIFQGQAD--------------PRLDTHFLPPTRLPLQSELLPAQLSQTTKP 1358

Query: 1850 PPTFSAPV-FEPVYPGEDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQP 1674
              +F+    F PVYPGE+FE LA+ FLPAHDP L+E+  + + SAQFP+ ++PF L  QP
Sbjct: 1359 TDSFTNNTPFTPVYPGENFENLAAFFLPAHDPELKEVTRRDQTSAQFPWFDRPFSLSCQP 1418

Query: 1673 QTLIAAQHHGQKDSTLLPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPS 1494
             +LIAA+H   +D TLLP SIPKRLRFR++  P+V+S  D LLG  LF +LCKAY R+P+
Sbjct: 1419 SSLIAAKHSPSQDPTLLPFSIPKRLRFRKSDNPHVLSAIDVLLGNQLFFNLCKAYRRNPT 1478

Query: 1493 SVEPFDEALFADCINLNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEAS 1314
             V PF+ ALFA+CI LN++AQLSSKTQ T++AN SRSDPDWR +AV+IF+KSQHK N+AS
Sbjct: 1479 HVGPFNPALFAECIALNDYAQLSSKTQATLVANHSRSDPDWRHTAVKIFAKSQHKVNDAS 1538

Query: 1313 IFGSWKACQTLALMHDAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCRENL 1134
            IFG+WKACQTLALMHD V+L LGPVKKYQR+FD  DRP ++Y H   +P  +S WC+ +L
Sbjct: 1539 IFGNWKACQTLALMHDFVILSLGPVKKYQRIFDALDRPPHLYTHCGKSPADLSAWCQTHL 1598

Query: 1133 SSCEHVANDYTAFDQSQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVTTQFGPLTCMR 954
            +    + NDYTAFDQSQHGE+V+LE  KM+RLSIP  LIQLH +LKTNV TQFGPLTCMR
Sbjct: 1599 TGQIKLTNDYTAFDQSQHGESVILEALKMKRLSIPSHLIQLHVHLKTNVATQFGPLTCMR 1658

Query: 953  LTGEPGTYDDNTDYNLAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPLWITIGPMLHLRF 774
            LTGEPGTYDDN+DYNLAVIHSQ+ M  IP MVSGDDSLIDRQP     W     +LHLRF
Sbjct: 1659 LTGEPGTYDDNSDYNLAVIHSQFDMKDIPVMVSGDDSLIDRQPPLAQSWEATKRLLHLRF 1718

Query: 773  KLEVTRYPLFCGYLVGPSGAVRSPITLFAKSLMALDDGSLDDKLASYLTEFSVGHSLGQE 594
            K E T +PLFCGY  G +GA+R+P+ LF+K ++A+DD ++ D+  SYLTEFS GH LG  
Sbjct: 1719 KTEKTTHPLFCGYYTGSAGAIRNPLALFSKLMIAIDDEAIHDRRLSYLTEFSTGHQLGDA 1778

Query: 593  MWNLIPVEQVHYQAALFDFFCRKASREQKLVLKIGEVPDTIISTILSSARAIARPLYAYL 414
            +W L+P     YQ+A FD+FCR +   +K +L   E+PD++IS I SS + +++  +  L
Sbjct: 1779 LWTLLPESTQIYQSACFDYFCRHSPPHEKALLSSFELPDSVISKISSSTKWLSKNAFYAL 1838

Query: 413  SSSARKLLL--KGSKTYRPFDTEESLQFE 333
             S  RK ++  + S ++        L+FE
Sbjct: 1839 PSKIRKAVIASRHSSSFPENPDVSQLEFE 1867



 Score =  328 bits (842), Expect = 1e-86
 Identities = 180/376 (47%), Positives = 225/376 (59%), Gaps = 21/376 (5%)
 Frame = -1

Query: 5948 ESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTHPH 5769
            ++L++T H+D    P++E+V D L DSL+ YP+ V   L  FL K GI I+ +G+  HPH
Sbjct: 8    DALASTSHKDPSLHPVLESVHDSLTDSLQTYPWMVPQDLQPFLLKSGIPINSFGSSPHPH 67

Query: 5768 PAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTRYP 5589
            PAHK +E ++L   W +L    SSVLFMKP KF KL++K+  F  L NYRLTP D+ R+P
Sbjct: 68   PAHKTLETHLLFTHWMHLCTQPSSVLFMKPQKFMKLQRKNKFFQHLHNYRLTPTDSVRFP 127

Query: 5588 SSSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFPEL 5409
            S+S  LP    VFMHDALMYY P  I  LF   P LT L+ +LV PPES FT  S  P+L
Sbjct: 128  STSPHLPNTPFVFMHDALMYYQPEQILHLFHQVPQLTNLFCSLVTPPESHFTHLSLMPDL 187

Query: 5408 YNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHLLI 5229
            Y F      L Y  EG+ +  Y QP +AL WL+ ++I   +L LSI+ILES GP+H +LI
Sbjct: 188  YTFTLKGQTLHYTPEGHSAGSYNQPITALSWLKINSILSPNLNLSITILESWGPLHSILI 247

Query: 5228 QRGLA---PK-------------HRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVPLAAY 5097
            QRGL    PK               E     F  P    LP  T LSQ +R RLVP + Y
Sbjct: 248  QRGLPLPDPKLLVRSLPPFSRSPDPETDLVSFQVPKSVELPQATFLSQPLRHRLVPESVY 307

Query: 5096 HSLRAYVMAVRTLRTTDPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAVSYLT 4917
            ++L  Y  AVRTLR +DPAGFVRTQS KPE  WVT  AWD+LQ FALL C  RP V Y  
Sbjct: 308  NALFTYTRAVRTLRVSDPAGFVRTQSNKPEHKWVTPSAWDNLQTFALLNCPLRPNVVYHV 367

Query: 4916 FASSFARIK-----HW 4884
              +   ++K     HW
Sbjct: 368  LLNPLQKMKLYFSQHW 383


>sp|P10358.2|POLR_TYMV RecName: Full=RNA replicase polyprotein; AltName: Full=206 kDa
            polyprotein; Contains: RecName:
            Full=Methyltransferase/Protease; AltName: Full=98 kDa
            protein; AltName: Full=MET/PRO; Contains: RecName:
            Full=Putative helicase; AltName: Full=42 kDa protein;
            AltName: Full=HEL; Contains: RecName: Full=RNA-directed
            RNA polymerase; AltName: Full=66 kDa protein; AltName:
            Full=POL
          Length = 1844

 Score =  991 bits (2563), Expect = 0.0
 Identities = 554/1162 (47%), Positives = 718/1162 (61%), Gaps = 16/1162 (1%)
 Frame = -1

Query: 3749 DPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAPFPTMPCLLDAVGSCLGVTPAE 3570
            DP+  G V  F +L+P  Y    A F  R R    +  P PT+ CLL AV     V+   
Sbjct: 739  DPTAIGPVLPFEELHPRRYPENTATFLTRLRSLPSNHLPQPTLNCLLSAVSDQTKVSEEH 798

Query: 3569 LWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQFKAFVTSDQEPIPHPYGVDSAPT 3390
            LW +L   LPDS L N +  + GLST+HLTAL+H Y F+A V SD+ PI   +G      
Sbjct: 799  LWESLQTILPDSQLSNEETNTLGLSTEHLTALAHLYNFQATVYSDRGPIL--FGPSDTIK 856

Query: 3389 TIRFSHTTGNPGHF-----FITSDPGAPPPPKXXXXXXXXXXXXXXLTTFRLNGELLPFQ 3225
             I  +HTTG P HF      + S P A   P                 +F+++G  LPF 
Sbjct: 857  RIDITHTTGPPSHFSPGKRLLGSQPSAKGHPSDPLIRAMK--------SFKVSGNYLPFS 908

Query: 3224 TVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPN----SAKEKFVTTDGILDIAKSRS 3057
              HN+  ++  AKNLISNMKNGFDGV++ +D         + KE+ +  D  LD    ++
Sbjct: 909  EAHNHPTSISHAKNLISNMKNGFDGVLSLLDVSTGQRTGPTPKERIIQIDHYLDTNPGKT 968

Query: 3056 IKLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKASMDLEPKNNWRIGT 2877
              ++H AGF GCGK+YPIQ+LL T    ++FR+S PT ELR EWK +M+L    +WR  T
Sbjct: 969  TPVVHFAGFAGCGKTYPIQQLLKTK-LFKDFRVSCPTTELRTEWKTAMELHGSQSWRFNT 1027

Query: 2876 WEXXXXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQGEYHSTHPQSSNHK 2697
            WE         LV+DEIYKMPRGYLDL+IL DP LE+VI+LGDPLQGEYHS    SSNH+
Sbjct: 1028 WESSILKSSRILVIDEIYKMPRGYLDLSILADPALELVIILGDPLQGEYHSQSKDSSNHR 1087

Query: 2696 LSSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGFCRPVNHLPMNCPILTNSHS 2517
            L SE   L PY+D YC W+ R P+ IA  F + + +   G    V+      P+LTNSH+
Sbjct: 1088 LPSETLRLLPYIDMYCWWSYRIPQCIARLFQIHSFNAWQGVIGSVSTPHDQSPVLTNSHA 1147

Query: 2516 AALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMALVALTRSTKGVLFSGDQ 2337
            ++LT      R+CTIS+SQG T+  P +I LD ++  LS++  LVALTRS  GV F G  
Sbjct: 1148 SSLTFNSLGYRSCTISSSQGLTFCDPAIIVLDNYTKWLSSANGLVALTRSRSGVQFMGPS 1207

Query: 2336 SILQPGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQLRGVTLISTPLKSR--KLVGAC 2163
            S +     S+ +FS    F +S    DRY     F      + LI++PL +R  KL GA 
Sbjct: 1208 SYVGGTNGSSAMFSD--AFNNSLIIMDRY-----FPSLFPQLKLITSPLTTRGPKLNGAT 1260

Query: 2162 PSEVKHSSTVRDFTHHAIRGSTVRDPSYQPSLAHVVRHTSPAIYHSELNRLHPDFKGDAV 1983
            PS                   T R P++     H+  H  P  Y  +   ++P       
Sbjct: 1261 PS----------------ASPTHRSPNF-----HLPPHI-PLSYDRDFVTVNPTLPDQGP 1298

Query: 1982 RSAVIVCGDGIDHLPRVSPHFIAETRLPYHSDMPSAM---PSQCSLSPPTFSAPVFEPVY 1812
             +             R+  HF+  +RLP H D+P A+   P   S+ PP   A    PVY
Sbjct: 1299 ET-------------RLDTHFLPPSRLPLHFDLPPAITPPPVSTSVDPPQAKA---SPVY 1342

Query: 1811 PGEDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQTLIAAQHHGQKDS 1632
            PGE F++LA+ FLPAHDP  REI+ K + S QFP+ ++PF L  QP +LI+A+H    D 
Sbjct: 1343 PGEFFDSLAAFFLPAHDPSTREILHKDQSSNQFPWFDRPFSLSCQPSSLISAKHAPNHDP 1402

Query: 1631 TLLPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSVEPFDEALFADCI 1452
            TLLPASI KRLRFR + +P+ I+  D +LG  LF SLC+AY+R P+S  PF+  LFA+CI
Sbjct: 1403 TLLPASINKRLRFRPSDSPHQITADDVVLGLQLFHSLCRAYSRQPNSTVPFNPELFAECI 1462

Query: 1451 NLNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIFGSWKACQTLALM 1272
            +LNE+AQLSSKTQ+TI+ANASRSDPDWR + V+IF+K+QHK N+ SIFGSWKACQTLALM
Sbjct: 1463 SLNEYAQLSSKTQSTIVANASRSDPDWRHTTVKIFAKAQHKVNDGSIFGSWKACQTLALM 1522

Query: 1271 HDAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCRENLS-SCEHVANDYTAF 1095
            HD V+L+LGPVKKYQR+FDN DRP NIY H   TP Q+ DWC+E+L+ S   +ANDYTAF
Sbjct: 1523 HDYVILVLGPVKKYQRIFDNADRPPNIYSHCGKTPNQLRDWCQEHLTHSTPKIANDYTAF 1582

Query: 1094 DQSQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVTTQFGPLTCMRLTGEPGTYDDNTD 915
            DQSQHGE+VVLE  KM+RL+IP  LIQLH +LKTNV+TQFGPLTCMRLTGEPGTYDDNTD
Sbjct: 1583 DQSQHGESVVLEALKMKRLNIPSHLIQLHVHLKTNVSTQFGPLTCMRLTGEPGTYDDNTD 1642

Query: 914  YNLAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPL-WITIGPMLHLRFKLEVTRYPLFCG 738
            YNLAVI+SQY + S P MVSGDDSLID  PLP    W ++   LHLRFKLE+T +PLFCG
Sbjct: 1643 YNLAVIYSQYDVGSCPIMVSGDDSLID-HPLPTRHDWPSVLKRLHLRFKLELTSHPLFCG 1701

Query: 737  YLVGPSGAVRSPITLFAKSLMALDDGSLDDKLASYLTEFSVGHSLGQEMWNLIPVEQVHY 558
            Y VGP+G +R+P+ LF K ++A+DD +LDD+  SYLTEF+ GH LG+ +W+L+P   V Y
Sbjct: 1702 YYVGPAGCIRNPLALFCKLMIAVDDDALDDRRLSYLTEFTTGHLLGESLWHLLPETHVQY 1761

Query: 557  QAALFDFFCRKASREQKLVLKIGEVPDTIISTILSSARAIARPLYAYLSSSARKLLLKGS 378
            Q+A FDFFCR+  R +K++L       +++  I SS R + +     L +  R  +   S
Sbjct: 1762 QSACFDFFCRRCPRHEKMLLDDSTPALSLLERITSSPRWLTKNAMYLLPAKLRLAITSLS 1821

Query: 377  KTYRPFDTEESLQFEGVLQHAV 312
            +T    ++ E    E  L H V
Sbjct: 1822 QTQSFPESIEVSHAESELLHYV 1843



 Score =  333 bits (855), Expect = 5e-88
 Identities = 215/582 (36%), Positives = 291/582 (50%), Gaps = 36/582 (6%)
 Frame = -1

Query: 5948 ESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTHPH 5769
            ++L+ T HRD    P++E+  D +R S++ YP+++   L   L+  GI  SG G   HPH
Sbjct: 8    DALAPTTHRDPSLHPILESTVDSIRSSIQTYPWSIPKELLPLLNSYGIPTSGLGTSHHPH 67

Query: 5768 PAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTRYP 5589
             AHK IE ++L   W       SSV+FMKPSKF KL Q +SNF EL NYRL P D+TRYP
Sbjct: 68   AAHKTIETFLLCTHWSFQATTPSSVMFMKPSKFNKLAQVNSNFRELKNYRLHPNDSTRYP 127

Query: 5588 SSSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFPEL 5409
             +S  LP   T+FMHDALMYY P  I DLFL  P+L +LYA+LVVPPE+  +D SF+P+L
Sbjct: 128  FTSPDLPVFPTIFMHDALMYYHPSQIMDLFLRKPNLERLYASLVVPPEAHLSDQSFYPKL 187

Query: 5408 YNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHLLI 5229
            Y +      L Y  EG+ +  Y QP  A  WLR ++IR  +  LS++ILES GPVH LLI
Sbjct: 188  YTYTTTRHTLHYVPEGHEAGSYNQPSDAHSWLRINSIRLGNHHLSVTILESWGPVHSLLI 247

Query: 5228 QRGLAP--------------------KHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVP 5109
            QRG  P                    +        F  PD   LP  T L Q +RDRLVP
Sbjct: 248  QRGTPPPDPSLQAPPTLMTSDLFRSYQEPRLDVVSFRIPDAIELPQATFLQQPLRDRLVP 307

Query: 5108 LAAYHSLRAYVMAVRTLRTTDPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAV 4929
             A Y++L  Y  AVRTLRT+DPA FVR  S+KP+  WVT+ AWD+LQ FALL    RP V
Sbjct: 308  RAVYNALFTYTRAVRTLRTSDPAAFVRMHSSKPDHDWVTSNAWDNLQTFALLNVPLRPNV 367

Query: 4928 SYLTFASSFARI-----KHWXXXXXXXXXXXXXXXXXAVSFTTVKVAHY---CSTRQIDS 4773
             Y    S  A +     +HW                  +SF T+            ++ S
Sbjct: 368  VYHVLQSPIASLSLYLRQHW--------RRLTATAVPILSFLTLLQRFLPLPIPLAEVKS 419

Query: 4772 LILFGKQIVR---PSCPLNSPFSLHQYFSRTAQLPPSLSTQLPRFELVTSPRIITKWSPC 4602
            +  F +++ R   P  PL+     H+  +  + +        P  +L   P  + K +  
Sbjct: 420  ITAFRRELYRKKEPHHPLDVFHLQHRVRNYHSAISAVRPASPPHQKL---PHALQKAALL 476

Query: 4601 LAR----FLLSTPFFRTLTTQLNFLSKKCFFAKGFPHSRKLXXXXXXXXXILWAYRRFMG 4434
            L R     L +TPFFR+    +   ++  +  K F    +                +   
Sbjct: 477  LLRPISPLLTATPFFRSEQKSMLPNAELSWTLKRFALPWQASLVLLALSESSILLHKLFS 536

Query: 4433 PDAPQAMFDQYNGYFNPKPWKLRIAQGPTKCSR-GQFLPFCP 4311
            P   QA  D Y+ + +P  + L+  + P    R   FLPF P
Sbjct: 537  PPTLQAQHDTYHRHLHPGSYSLQWERTPLSIPRTTAFLPFTP 578


>gb|AAB92649.1| replicase protein [Turnip yellow mosaic virus]
          Length = 1844

 Score =  991 bits (2562), Expect = 0.0
 Identities = 552/1162 (47%), Positives = 721/1162 (62%), Gaps = 16/1162 (1%)
 Frame = -1

Query: 3749 DPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAPFPTMPCLLDAVGSCLGVTPAE 3570
            DP+  G V  F +L+P  Y    A F  R R    +  P PT+ CLL AV     V+   
Sbjct: 739  DPTAIGPVLPFEELHPRKYPENTATFLTRLRSLPSNHLPQPTLNCLLSAVSDQTKVSEDH 798

Query: 3569 LWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQFKAFVTSDQEPIPHPYGVDSAPT 3390
            LW +L   LPDS L+N +I S GLST+HLTAL+H Y F+A V SD+ PI   +G      
Sbjct: 799  LWESLQTILPDSQLRNEEINSLGLSTEHLTALAHLYNFQATVYSDRGPIL--FGPSDTIK 856

Query: 3389 TIRFSHTTGNPGHF-----FITSDPGAPPPPKXXXXXXXXXXXXXXLTTFRLNGELLPFQ 3225
             I  +HTTG P HF      + S P A   P                 +F+++G  LPF 
Sbjct: 857  RIDITHTTGPPSHFSPGKRLLGSQPSAKRHPSDSLIRAMK--------SFKVSGNYLPFS 908

Query: 3224 TVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPN----SAKEKFVTTDGILDIAKSRS 3057
              HN+  ++  AKNL+SNMKNGFDGV++ +D         + K+  +  D  LD    ++
Sbjct: 909  EAHNHPTSISHAKNLVSNMKNGFDGVLSLLDVSTGQRTGPTPKDAIIQIDHYLDTNPGKT 968

Query: 3056 IKLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKASMDLEPKNNWRIGT 2877
              ++H AGF GCGK+YPIQ+LL T    ++FR+S PT ELR EWK +M+L    +WR  T
Sbjct: 969  TPVVHFAGFAGCGKTYPIQQLLKTK-LFKDFRVSCPTTELRTEWKTAMELHGSQSWRFNT 1027

Query: 2876 WEXXXXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQGEYHSTHPQSSNHK 2697
            WE         LV+DEIYKMPRGYLDL+IL DP LE+VI+LGDPLQGEYHS    SSNH+
Sbjct: 1028 WESSILKSSRILVIDEIYKMPRGYLDLSILADPALELVIILGDPLQGEYHSQSKDSSNHR 1087

Query: 2696 LSSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGFCRPVNHLPMNCPILTNSHS 2517
            L SE   L PY+D YC W+ R P+ IA  F + + +   G    V+      P+LTNSH+
Sbjct: 1088 LPSETLRLLPYIDMYCWWSYRIPQCIARLFRIHSFNAWQGVIGSVSTPHDQSPVLTNSHA 1147

Query: 2516 AALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMALVALTRSTKGVLFSGDQ 2337
            ++LT      R+CTIS+SQG T+  P +I LD ++  LS++  LVALTRS  GV F G  
Sbjct: 1148 SSLTFNSLGYRSCTISSSQGLTFCDPAIIVLDNYTKWLSSANGLVALTRSRSGVQFMGPS 1207

Query: 2336 SILQPGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQLRGVTLISTPLKSR--KLVGAC 2163
            S +     S+ +FS    F +S    DRY     F      + LI++PL +R  KL GA 
Sbjct: 1208 SYVGGTNGSSAMFSD--AFNNSLIIMDRY-----FPSLFPQLKLITSPLTTRSPKLNGAA 1260

Query: 2162 PSEVKHSSTVRDFTHHAIRGSTVRDPSYQPSLAHVVRHTSPAIYHSELNRLHPDFKGDAV 1983
            PS                   T R P++     H+  H  P  Y  +   ++P       
Sbjct: 1261 PS----------------ASPTHRSPNF-----HLPPHI-PLSYDRDFVTVNPTLPDQGP 1298

Query: 1982 RSAVIVCGDGIDHLPRVSPHFIAETRLPYHSDMPSAM---PSQCSLSPPTFSAPVFEPVY 1812
             +             R+  HF+  +RLP H D+P A+   P   S+ PP   A    PVY
Sbjct: 1299 ET-------------RLDTHFLPPSRLPLHFDLPPAITPPPVSTSVDPPQAKA---SPVY 1342

Query: 1811 PGEDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQTLIAAQHHGQKDS 1632
            PGE F++LA+ FLPAHDP  REI+ K + S QFP+ ++PF L  QP +LI+A+H    D 
Sbjct: 1343 PGEFFDSLAAFFLPAHDPSTREILHKDQSSNQFPWFDRPFSLSCQPSSLISAKHAPNHDP 1402

Query: 1631 TLLPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSVEPFDEALFADCI 1452
            TLLPASI KRLRFR +  P+ I+  D +LG  LF SLC+AY+R P+S  PF+  LFA+CI
Sbjct: 1403 TLLPASINKRLRFRPSEAPHQITADDVVLGLQLFHSLCRAYSRQPNSTVPFNPELFAECI 1462

Query: 1451 NLNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIFGSWKACQTLALM 1272
            +LNE+AQLSSKTQ+TI+ANASRSDPDWR + V+IF+K+QHK N+ SIFGSWKACQTLALM
Sbjct: 1463 SLNEYAQLSSKTQSTIVANASRSDPDWRHTTVKIFAKAQHKVNDGSIFGSWKACQTLALM 1522

Query: 1271 HDAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCRENLS-SCEHVANDYTAF 1095
            HD V+L+LGPVKKYQR+FDN DRP++IY H   TP Q+ DWC+E+L+ S   +ANDYTAF
Sbjct: 1523 HDYVILVLGPVKKYQRIFDNADRPSHIYSHCGKTPNQLRDWCQEHLTHSTPKIANDYTAF 1582

Query: 1094 DQSQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVTTQFGPLTCMRLTGEPGTYDDNTD 915
            DQSQHGE+VVLE  KM+RL+IP  LIQLH +LKTNV+TQFGPLTCMRLTGEPGTYDDNTD
Sbjct: 1583 DQSQHGESVVLEALKMKRLNIPSHLIQLHVHLKTNVSTQFGPLTCMRLTGEPGTYDDNTD 1642

Query: 914  YNLAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPL-WITIGPMLHLRFKLEVTRYPLFCG 738
            YNLAVI+SQY + S P MVSGDDSLID  PLP    W ++   LHLRFKLE+T +PLFCG
Sbjct: 1643 YNLAVIYSQYDVGSCPIMVSGDDSLID-HPLPTRHDWPSVLKRLHLRFKLELTSHPLFCG 1701

Query: 737  YLVGPSGAVRSPITLFAKSLMALDDGSLDDKLASYLTEFSVGHSLGQEMWNLIPVEQVHY 558
            Y VGP+G +R+P+ LF K ++A+DD +LDD+  SYLTEF+ GH LG+ +W+L+P   V Y
Sbjct: 1702 YYVGPAGCIRNPLALFCKLMIAVDDDALDDRRLSYLTEFTTGHLLGESLWHLLPETHVQY 1761

Query: 557  QAALFDFFCRKASREQKLVLKIGEVPDTIISTILSSARAIARPLYAYLSSSARKLLLKGS 378
            Q+A FDFFCR+  + +K++L       +++  I SS R + + +   L +  R  +   S
Sbjct: 1762 QSACFDFFCRRCPKHEKMLLDDSTPTLSLLERITSSPRWLTKNVMYLLPAKLRLAITSLS 1821

Query: 377  KTYRPFDTEESLQFEGVLQHAV 312
            +T    ++ E  + E  L H V
Sbjct: 1822 QTQSFPESIEVSRAESELLHYV 1843



 Score =  337 bits (863), Expect = 5e-89
 Identities = 215/581 (37%), Positives = 290/581 (49%), Gaps = 35/581 (6%)
 Frame = -1

Query: 5948 ESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTHPH 5769
            ++L+ T HRD    P++E+  D +R S++ YP+++   L   L+  GI  SG G   HPH
Sbjct: 8    DALAPTTHRDPSLHPILESTVDSIRSSIQTYPWSIPKELLPLLNSYGIPTSGLGTSHHPH 67

Query: 5768 PAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTRYP 5589
             AHK IE ++L   W       SSV+FMKPSKF KL Q +SNF EL NYRL P D+TRYP
Sbjct: 68   AAHKTIETFLLCTHWSFQATTPSSVMFMKPSKFSKLAQVNSNFRELKNYRLHPNDSTRYP 127

Query: 5588 SSSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFPEL 5409
             +S  LP   T+FMHDALMYY P  I DLFL  P+L +LYA+LVVPPE+  +D SFFP+L
Sbjct: 128  FTSPDLPVFPTIFMHDALMYYHPSQIMDLFLQKPNLERLYASLVVPPEAHLSDQSFFPKL 187

Query: 5408 YNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHLLI 5229
            Y +      L Y  EG+ +  Y QP  A  WLR ++IR  +  LS++ILES GPVH LLI
Sbjct: 188  YTYTTTRHTLHYVPEGHEAGSYNQPSDAHSWLRINSIRLGNHHLSVTILESWGPVHSLLI 247

Query: 5228 QRGLAP--------------------KHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVP 5109
            QRG  P                    +        F  PD   LP  T L Q +RDRLVP
Sbjct: 248  QRGTPPPDPSLQAPSTLMASDLFRSYQEPRLDVVSFRIPDAIELPQATFLQQPLRDRLVP 307

Query: 5108 LAAYHSLRAYVMAVRTLRTTDPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAV 4929
             A Y++L  Y  AVRTLRT+DPA FVR  S+KP+  WVT+ AWD+LQ FALL    RP V
Sbjct: 308  RAVYNALFTYTRAVRTLRTSDPAAFVRMHSSKPDHDWVTSNAWDNLQTFALLNVPLRPNV 367

Query: 4928 SYLTFASSFARI-----KHWXXXXXXXXXXXXXXXXXAVSFTTVKVAHY---CSTRQIDS 4773
             Y    S  A +     +HW                  +SF T+            ++ S
Sbjct: 368  VYHVLQSPIASLALYLRQHW--------RRLTATAVPILSFLTLLQRFLPLPIPLAEVKS 419

Query: 4772 LILFGKQIVRPSCPLN--SPFSLHQYFSRTAQLPPSLSTQLPRFELVTSPRIITKWSPCL 4599
            +  F +++ R   P +    F L Q+         ++    P  + +  P  + K +  L
Sbjct: 420  ITAFRRELYRKKAPHHPLDVFHLQQHLRNYHSAISAVRPASPPHQRL--PHALQKAALLL 477

Query: 4598 AR----FLLSTPFFRTLTTQLNFLSKKCFFAKGFPHSRKLXXXXXXXXXILWAYRRFMGP 4431
             R     L +TPFFR+    +   ++  +  K F    +                +   P
Sbjct: 478  LRPISPLLTATPFFRSEQKSMLPNAELSWTLKRFALPWQASLVLLALSESSILLHKLFSP 537

Query: 4430 DAPQAMFDQYNGYFNPKPWKLRIAQGPTKCSR-GQFLPFCP 4311
               QA  D Y+ + +P  + L+  + P    R   FLPF P
Sbjct: 538  PTLQAQHDTYHRHLHPGSYSLQWERTPLSIPRTTAFLPFTP 578


>ref|NP_663297.1| replicase/papain-like protease [Turnip yellow mosaic virus]
            gi|62224|emb|CAA30322.1| unnamed protein product [Turnip
            yellow mosaic virus]
          Length = 1844

 Score =  988 bits (2555), Expect = 0.0
 Identities = 553/1162 (47%), Positives = 716/1162 (61%), Gaps = 16/1162 (1%)
 Frame = -1

Query: 3749 DPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAPFPTMPCLLDAVGSCLGVTPAE 3570
            DP+  G V  F +L+P  Y    A F  R R    +  P PT+ CLL AV     V+   
Sbjct: 739  DPTAIGPVLPFEELHPRRYPENTATFLTRLRSLPSNHLPQPTLNCLLSAVSDQTKVSEEH 798

Query: 3569 LWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQFKAFVTSDQEPIPHPYGVDSAPT 3390
            LW +L   LPDS L N +  + GLST+HLTAL+H Y F+A V SD+ PI   +G      
Sbjct: 799  LWESLQTILPDSQLSNEETNTLGLSTEHLTALAHLYNFQATVYSDRGPIL--FGPSDTIK 856

Query: 3389 TIRFSHTTGNPGHF-----FITSDPGAPPPPKXXXXXXXXXXXXXXLTTFRLNGELLPFQ 3225
             I  +HTTG P HF      + S P A   P                 +F+++G  LPF 
Sbjct: 857  RIDITHTTGPPSHFSPGKRLLGSQPSAKGHPSDPLIRAMK--------SFKVSGNYLPFS 908

Query: 3224 TVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPNSA----KEKFVTTDGILDIAKSRS 3057
              HN+  ++  AKNLISNMKNGFDGV++ +D           KE+ +  D  LD    ++
Sbjct: 909  EAHNHPTSISHAKNLISNMKNGFDGVLSLLDVSTGQRTGPXPKERIIQIDHYLDTNPGKT 968

Query: 3056 IKLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKASMDLEPKNNWRIGT 2877
              ++H AGF GCGK+YPIQ+LL T    ++FR+S PT ELR EWK +M+L    +WR  T
Sbjct: 969  TPVVHFAGFAGCGKTYPIQQLLKTK-LFKDFRVSCPTTELRTEWKTAMELHGSQSWRFNT 1027

Query: 2876 WEXXXXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQGEYHSTHPQSSNHK 2697
            WE         LV+DEIYKMPRGYLDL+IL DP LE+VI+LGDPLQGEYHS    SSNH+
Sbjct: 1028 WESSILKSSRILVIDEIYKMPRGYLDLSILADPALELVIILGDPLQGEYHSQSKDSSNHR 1087

Query: 2696 LSSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGFCRPVNHLPMNCPILTNSHS 2517
            L SE   L PY+D YC W+ R P+ IA  F + + +   G    V+      P+LTNSH+
Sbjct: 1088 LPSETLRLLPYIDMYCWWSYRIPQCIARLFQIHSFNAWQGVIGSVSTPHDQSPVLTNSHA 1147

Query: 2516 AALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMALVALTRSTKGVLFSGDQ 2337
            ++LT      R+CTIS+SQG T+  P +I LD ++  LS++  LVALTRS  GV F    
Sbjct: 1148 SSLTFNSLGYRSCTISSSQGLTFCDPAIIVLDNYTKWLSSANGLVALTRSRSGVQFMXPS 1207

Query: 2336 SILQPGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQLRGVTLISTPLKSR--KLVGAC 2163
            S +     S+ +FS    F +S    DRY     F      + LI++PL +R  KL GA 
Sbjct: 1208 SYVGGTNGSSAMFSD--AFNNSLIIMDRY-----FPSLFPQLKLITSPLTTRGPKLNGAT 1260

Query: 2162 PSEVKHSSTVRDFTHHAIRGSTVRDPSYQPSLAHVVRHTSPAIYHSELNRLHPDFKGDAV 1983
            PS                   T R P++     H+  H  P  Y  +   ++P       
Sbjct: 1261 PS----------------ASPTHRSPNF-----HLPPHI-PLSYDRDFVTVNPTLPDQGP 1298

Query: 1982 RSAVIVCGDGIDHLPRVSPHFIAETRLPYHSDMPSAM---PSQCSLSPPTFSAPVFEPVY 1812
             +             R+  HF+  +RLP H D+P A+   P   S+ PP   A    PVY
Sbjct: 1299 ET-------------RLDTHFLPPSRLPLHFDLPPAITPPPVSTSVDPPQAKA---SPVY 1342

Query: 1811 PGEDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQTLIAAQHHGQKDS 1632
            PGE F++LA+ FLPAHDP  REI+ K + S QFP+ ++PF L  QP +LI+A+H    D 
Sbjct: 1343 PGEFFDSLAAFFLPAHDPSTREILHKDQSSNQFPWFDRPFSLSCQPSSLISAKHAPNHDP 1402

Query: 1631 TLLPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSVEPFDEALFADCI 1452
            TLLPASI KRLRFR + +P+ I+  D +LG  LF SLC+AY+R P+S  PF+  LFA+CI
Sbjct: 1403 TLLPASINKRLRFRPSDSPHQITADDVVLGLQLFHSLCRAYSRQPNSTVPFNPELFAECI 1462

Query: 1451 NLNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIFGSWKACQTLALM 1272
            +LNE+AQLSSKTQ+TI+ANASRSDPDWR + V+IF+K+QHK N+ SIFGSWKACQTLALM
Sbjct: 1463 SLNEYAQLSSKTQSTIVANASRSDPDWRHTTVKIFAKAQHKVNDGSIFGSWKACQTLALM 1522

Query: 1271 HDAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCRENLS-SCEHVANDYTAF 1095
            HD V+L+LGPVKKYQR+FDN DRP NIY H   TP Q+ DWC+E+L+ S   +ANDYTAF
Sbjct: 1523 HDYVILVLGPVKKYQRIFDNADRPPNIYSHCGKTPNQLRDWCQEHLTHSTPKIANDYTAF 1582

Query: 1094 DQSQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVTTQFGPLTCMRLTGEPGTYDDNTD 915
            DQSQHGE+VVLE  KM+RL+IP  LIQLH +LKTNV+TQFGPLTCMRLTGEPGTYDDNTD
Sbjct: 1583 DQSQHGESVVLEALKMKRLNIPSHLIQLHVHLKTNVSTQFGPLTCMRLTGEPGTYDDNTD 1642

Query: 914  YNLAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPL-WITIGPMLHLRFKLEVTRYPLFCG 738
            YNLAVI+SQY + S P MVSGDDSLID  PLP    W ++   LHLRFKLE+T +PLFCG
Sbjct: 1643 YNLAVIYSQYDVGSCPIMVSGDDSLID-HPLPTRHDWPSVLKRLHLRFKLELTSHPLFCG 1701

Query: 737  YLVGPSGAVRSPITLFAKSLMALDDGSLDDKLASYLTEFSVGHSLGQEMWNLIPVEQVHY 558
            Y VGP+G +R+P+ LF K ++A+DD +LDD+  SYLTEF+ GH LG+ +W+L+P   V Y
Sbjct: 1702 YYVGPAGCIRNPLALFCKLMIAVDDDALDDRRLSYLTEFTTGHLLGESLWHLLPETHVQY 1761

Query: 557  QAALFDFFCRKASREQKLVLKIGEVPDTIISTILSSARAIARPLYAYLSSSARKLLLKGS 378
            Q+A FDFFCR+  R +K++L       +++  I SS R + +     L +  R  +   S
Sbjct: 1762 QSACFDFFCRRCPRHEKMLLDDSTPALSLLERITSSPRWLTKNAMYLLPAKLRLAITSLS 1821

Query: 377  KTYRPFDTEESLQFEGVLQHAV 312
            +T    ++ E    E  L H V
Sbjct: 1822 QTQSFPESIEVSHAESELLHYV 1843



 Score =  333 bits (855), Expect = 5e-88
 Identities = 215/582 (36%), Positives = 291/582 (50%), Gaps = 36/582 (6%)
 Frame = -1

Query: 5948 ESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTHPH 5769
            ++L+ T HRD    P++E+  D +R S++ YP+++   L   L+  GI  SG G   HPH
Sbjct: 8    DALAPTTHRDPSLHPILESTVDSIRSSIQTYPWSIPKELLPLLNSYGIPTSGLGTSHHPH 67

Query: 5768 PAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTRYP 5589
             AHK IE ++L   W       SSV+FMKPSKF KL Q +SNF EL NYRL P D+TRYP
Sbjct: 68   AAHKTIETFLLCTHWSFQATTPSSVMFMKPSKFNKLAQVNSNFRELKNYRLHPNDSTRYP 127

Query: 5588 SSSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFPEL 5409
             +S  LP   T+FMHDALMYY P  I DLFL  P+L +LYA+LVVPPE+  +D SF+P+L
Sbjct: 128  FTSPDLPVFPTIFMHDALMYYHPSQIMDLFLRKPNLERLYASLVVPPEAHLSDQSFYPKL 187

Query: 5408 YNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHLLI 5229
            Y +      L Y  EG+ +  Y QP  A  WLR ++IR  +  LS++ILES GPVH LLI
Sbjct: 188  YTYTTTRHTLHYVPEGHEAGSYNQPSDAHSWLRINSIRLGNHHLSVTILESWGPVHSLLI 247

Query: 5228 QRGLAP--------------------KHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVP 5109
            QRG  P                    +        F  PD   LP  T L Q +RDRLVP
Sbjct: 248  QRGTPPPDPSLQAPPTLMXSDLFRSYQEPRLDVVSFRIPDAIELPQATFLQQPLRDRLVP 307

Query: 5108 LAAYHSLRAYVMAVRTLRTTDPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAV 4929
             A Y++L  Y  AVRTLRT+DPA FVR  S+KP+  WVT+ AWD+LQ FALL    RP V
Sbjct: 308  RAVYNALFTYTRAVRTLRTSDPAAFVRMHSSKPDHDWVTSNAWDNLQTFALLNVPLRPNV 367

Query: 4928 SYLTFASSFARI-----KHWXXXXXXXXXXXXXXXXXAVSFTTVKVAHY---CSTRQIDS 4773
             Y    S  A +     +HW                  +SF T+            ++ S
Sbjct: 368  VYHVLQSPIASLSLYLRQHW--------RRLTATAVPILSFLTLLQRFLPLPIPLAEVKS 419

Query: 4772 LILFGKQIVR---PSCPLNSPFSLHQYFSRTAQLPPSLSTQLPRFELVTSPRIITKWSPC 4602
            +  F +++ R   P  PL+     H+  +  + +        P  +L   P  + K +  
Sbjct: 420  ITAFRRELYRKKEPHHPLDVFHLQHRVRNYHSAISAVRPASPPHQKL---PHALQKAALL 476

Query: 4601 LAR----FLLSTPFFRTLTTQLNFLSKKCFFAKGFPHSRKLXXXXXXXXXILWAYRRFMG 4434
            L R     L +TPFFR+    +   ++  +  K F    +                +   
Sbjct: 477  LLRPISPLLTATPFFRSEQKSMLPNAELSWTLKRFALPWQASLVLLALSESSILLHKLFS 536

Query: 4433 PDAPQAMFDQYNGYFNPKPWKLRIAQGPTKCSR-GQFLPFCP 4311
            P   QA  D Y+ + +P  + L+  + P    R   FLPF P
Sbjct: 537  PPTLQAQHDTYHRHLHPGSYSLQWERTPLSIPRTTAFLPFTP 578


>ref|YP_002048673.1| replicase-associated protein RP [Diascia yellow mottle virus]
            gi|194295001|gb|ACF40325.1| replicase-associated protein
            RP [Diascia yellow mottle virus]
          Length = 1790

 Score =  988 bits (2554), Expect = 0.0
 Identities = 550/1141 (48%), Positives = 701/1141 (61%), Gaps = 12/1141 (1%)
 Frame = -1

Query: 3764 STLILDPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAPFPTMPCLLDAVGSCLG 3585
            S L+ DPS  G V  F  L+P  Y      F  R+R    S+AP P   CLL ++   LG
Sbjct: 684  SDLLSDPSCVGPVVEFECLFPGVYHNSNGTFLTRQRAQASSSAPLPAKRCLLTSISPQLG 743

Query: 3584 VTPAELWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQFKAFVTSDQEPIPHPYGV 3405
            V  A LW+ LC  LPDSLL NP+I + GLSTDHLTAL+    F+  + +    +P  Y  
Sbjct: 744  VPEATLWNYLCEMLPDSLLDNPEIRNYGLSTDHLTALASRLNFECVIHTGHTTLP--YSC 801

Query: 3404 DSAPTTIRFSHTTGNPGHF-----FITSDPGAPPPPKXXXXXXXXXXXXXXLTTFRLNGE 3240
              A T ++ +   G P HF        S PG+ P                    F+LNG+
Sbjct: 802  VGASTRVQITFHPGPPKHFSPNIRLSASAPGSNPSKSPLVRAALR---------FQLNGD 852

Query: 3239 LLPFQTVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPNSAKEKFVTTDGILDIAKSR 3060
             LPF   H ++ +V  AKNL+SNMKNGFDG+ + +      S K+K +  D  +D+A  R
Sbjct: 853  FLPFMNSHKHKVSVPHAKNLVSNMKNGFDGITSQLSESSGRSPKQKLLELDATIDVAFPR 912

Query: 3059 SIKLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKASMDLEPKNNWRIG 2880
             + +IHIAGFPGCGKS+P+Q+LL T    R+FR+SVPT ELR EWK+ M L     WR+ 
Sbjct: 913  EVDVIHIAGFPGCGKSHPVQKLLQTKA-FRHFRLSVPTNELRTEWKSDMSLPESEIWRLC 971

Query: 2879 TWEXXXXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQGEYHSTHPQSSNH 2700
            TWE         LV+DEIYK+PRGYLDLA+L DP   +VI+LGDPLQGEYHS+HP SSN+
Sbjct: 972  TWETSLFKSSSILVIDEIYKLPRGYLDLALLADPSTSLVILLGDPLQGEYHSSHPSSSNN 1031

Query: 2699 KLSSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGFCRPVNHLPMNCPILTNSH 2520
            +L SE + L  Y+D YC WT RCP+ +AD FGV T + E GF R     P   P L NS 
Sbjct: 1032 RLESETSRLSKYIDCYCWWTYRCPRAVADLFGVKTFNTEQGFIRGELSHPQGLPNLVNSI 1091

Query: 2519 SAALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMALVALTRSTKGVLFSGD 2340
            + A T+      A TIS+SQG TYSSP  I LDRHS+ LS     VALTRS KG++F G+
Sbjct: 1092 ATATTMQNLGHHALTISSSQGMTYSSPTTILLDRHSTLLSPQNCFVALTRSRKGIIFIGN 1151

Query: 2339 QSILQPGPHSAKLFSQLTQFQSSHSPDD---RYPIQTHFIEQLRGVTLISTPLKSRK--L 2175
                     ++ +F+Q      + SP D    +P+          + LI  P+KSR+  L
Sbjct: 1152 MYQASGYFGTSYMFTQAL----TGSPVDLMCAFPLY-------HTLPLIFDPIKSRRQRL 1200

Query: 2174 VGACPSEVKHS-STVRDFTHHAIRGSTVRDPSYQPSLAHVVRHTSPAIYHSELNRLHPDF 1998
            V   P  +  S S +R++          R P + P+                      D+
Sbjct: 1201 VAGDPLPISTSESAIRNYG---------RLPPHIPT----------------------DY 1229

Query: 1997 KGDAVRSAVIVCGDGIDH-LPRVSPHFIAETRLPYHSDMPSAMPSQCSLSPPTFSAPVFE 1821
              D   S+ +V  +G D  LP +    +  +RLP H     A PS+  LS    S     
Sbjct: 1230 AKDCFVSSQVVFSEGEDRTLPTLH---LPPSRLPLHLLTEPAAPSEVLLSETEPSKSPIT 1286

Query: 1820 PVYPGEDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQTLIAAQHHGQ 1641
                GE FE LA+ FLPAHDP L+EIIF  + S+QFP+L+ PF+L  QP +L+AA H   
Sbjct: 1287 LALLGESFEELAAHFLPAHDPELKEIIFADQSSSQFPFLDVPFELSCQPSSLLAASHRPA 1346

Query: 1640 KDSTLLPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSVEPFDEALFA 1461
             D TLL +SI KRLRFR +  PY IS  D LLG+ LF SLC+A+NR P  V PFD  LFA
Sbjct: 1347 SDPTLLVSSIKKRLRFRPSDCPYFISSNDILLGQHLFNSLCRAFNRSPLEVIPFDPVLFA 1406

Query: 1460 DCINLNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIFGSWKACQTL 1281
            +CI LNE+AQLSSKT+ TI+ANASRSDPDWR++AVRIF+K+QHK N+ SIFGSWKACQTL
Sbjct: 1407 ECIALNEYAQLSSKTKATIVANASRSDPDWRFTAVRIFAKAQHKVNDGSIFGSWKACQTL 1466

Query: 1280 ALMHDAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCRENLSSCEHVANDYT 1101
            ALMHD V++ LGPVKKYQR+ D++DRP++IY H   TP Q+S WC++       + NDYT
Sbjct: 1467 ALMHDYVIMTLGPVKKYQRILDHQDRPSHIYTHCGKTPAQLSSWCQKFSLDGPSLCNDYT 1526

Query: 1100 AFDQSQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVTTQFGPLTCMRLTGEPGTYDDN 921
            +FDQSQHGEAVVLE  KMRR SIP+ LIQLH +LKTN++TQFGPLTCMRLTGEPGTYDDN
Sbjct: 1527 SFDQSQHGEAVVLECLKMRRCSIPDNLIQLHLHLKTNISTQFGPLTCMRLTGEPGTYDDN 1586

Query: 920  TDYNLAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPLWITIGPMLHLRFKLEVTRYPLFC 741
            TDYNLAVI+SQY M + P MVSGDDS+I   P  +P W  +  +LHLRFK E T  PLFC
Sbjct: 1587 TDYNLAVIYSQYQMGATPCMVSGDDSVIFANPPIHPTWPAVENLLHLRFKTESTTQPLFC 1646

Query: 740  GYLVGPSGAVRSPITLFAKSLMALDDGSLDDKLASYLTEFSVGHSLGQEMWNLIPVEQVH 561
            GY VGPSG  R+P+ LFAK ++  D G+LDD L+SYL E+S+GH LG    +L+P     
Sbjct: 1647 GYYVGPSGCCRNPLALFAKLMITTDKGNLDDTLSSYLYEYSIGHRLGDACLSLLPSHLHS 1706

Query: 560  YQAALFDFFCRKASREQKLVLKIGEVPDTIISTILSSARAIARPLYAYLSSSARKLLLKG 381
            YQ+A FDFFCRKAS  QK +L   E   +++  + SS+   + PL A L + + + LL+ 
Sbjct: 1707 YQSACFDFFCRKASPLQKTLLSFEEPSPSLLKKLASSSAWASGPLLAQLDNDSLQSLLER 1766

Query: 380  S 378
            S
Sbjct: 1767 S 1767



 Score =  336 bits (862), Expect = 7e-89
 Identities = 175/353 (49%), Positives = 225/353 (63%), Gaps = 6/353 (1%)
 Frame = -1

Query: 5948 ESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTHPH 5769
            E+LS T HRD+  +P++     PL+ SL+ +P+ ++     FL+  GI +SG+G   HPH
Sbjct: 8    EALSTTSHRDSSLNPVLYHSVSPLQRSLDLFPWIITRDALPFLNSCGIPVSGFGTTPHPH 67

Query: 5768 PAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTRYP 5589
              HK IE ++L   W +L    SSV+FMKPSKFRKL   + NF EL N+RLTP DT RYP
Sbjct: 68   AVHKAIETFLLFSHWSSLASTLSSVMFMKPSKFRKLAAINPNFDELTNFRLTPADTVRYP 127

Query: 5588 SSSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFPEL 5409
            ++S++LP H  VFMHDALMY+TP  I DLF   P L +L+ +LVVPPESSFTD S FP +
Sbjct: 128  TTSSSLPQHEIVFMHDALMYFTPHQIVDLFERCPLLNRLHCSLVVPPESSFTDLSLFPTI 187

Query: 5408 YNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHLLI 5229
            Y +  +  +L Y  EG+ +  Y QP+SA+ WL+   I      LS++ILES GPVH +LI
Sbjct: 188  YTYQLNSNNLHYTPEGHHAGSYDQPRSAIRWLKLRRITSPFFNLSVTILESWGPVHSILI 247

Query: 5228 QRG------LAPKHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVPLAAYHSLRAYVMAV 5067
            QRG      LAP H       F  P   +LP  T L+Q +R R+VP   Y +L  Y  AV
Sbjct: 248  QRGLPISDSLAPPH-----ASFKVPQARVLPEATFLNQPLRHRMVPSEVYDALFTYTRAV 302

Query: 5066 RTLRTTDPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAVSYLTFAS 4908
            RTLRT+DPAGFVRT S KP+ AWVT +AWD+LQ +ALL    RP V Y  F S
Sbjct: 303  RTLRTSDPAGFVRTHSNKPKHAWVTPQAWDNLQTYALLNAPVRPRVVYNFFLS 355


>sp|P20128.1|POLR_TYMVA RecName: Full=RNA replicase polyprotein gi|332246|gb|AAA46592.1|
            replicase polyprotein [Turnip yellow mosaic virus]
          Length = 1844

 Score =  986 bits (2548), Expect = 0.0
 Identities = 548/1162 (47%), Positives = 718/1162 (61%), Gaps = 16/1162 (1%)
 Frame = -1

Query: 3749 DPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAPFPTMPCLLDAVGSCLGVTPAE 3570
            DP+  G V  F +L+P  Y    A F  R R    +  P PT+ CLL AV     V+   
Sbjct: 739  DPTAIGPVLPFEELHPRRYPENTATFLTRLRSLPSNHLPQPTLNCLLSAVSDQTKVSEDH 798

Query: 3569 LWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQFKAFVTSDQEPIPHPYGVDSAPT 3390
            LW +L   LPDS L+N +I S GLST+HLTAL+H Y F+A + SD+ PI   +G      
Sbjct: 799  LWESLQTILPDSQLRNEEINSLGLSTEHLTALAHLYNFQATIYSDRGPIL--FGPSDTIK 856

Query: 3389 TIRFSHTTGNPGHF-----FITSDPGAPPPPKXXXXXXXXXXXXXXLTTFRLNGELLPFQ 3225
             I  +HTTG P HF      + S P A   P                 +F+++G  LPF 
Sbjct: 857  RIDITHTTGPPSHFSPGKRLLGSQPSAKGHPSDSLIRAMK--------SFKVSGNYLPFS 908

Query: 3224 TVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPN----SAKEKFVTTDGILDIAKSRS 3057
              HN+  ++  AKNL+SNMKNGFDG+++ +D         + K+  +  D  LD    ++
Sbjct: 909  EAHNHPTSISHAKNLVSNMKNGFDGILSLLDVSTGQRTGPTPKDAIIQIDHYLDTNPGKT 968

Query: 3056 IKLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKASMDLEPKNNWRIGT 2877
              ++H AGF GCGK+YPIQ+LL T    ++FR+S PT ELR EWK +M+L    +WR  T
Sbjct: 969  TPVVHFAGFAGCGKTYPIQQLLKTK-LFKDFRVSCPTTELRTEWKTAMELHGSQSWRFNT 1027

Query: 2876 WEXXXXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQGEYHSTHPQSSNHK 2697
            WE         LV+DEIYKMPRGYLDL+IL DP LE+VI+LGDPLQGEYHS    SSNH+
Sbjct: 1028 WESSILKSSRILVIDEIYKMPRGYLDLSILADPALELVIILGDPLQGEYHSQSKDSSNHR 1087

Query: 2696 LSSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGFCRPVNHLPMNCPILTNSHS 2517
            L SE   L PY+D YC W+ R P+ IA  F + + +   G    V+      P+LTNSH+
Sbjct: 1088 LPSETLRLLPYIDMYCWWSYRIPQCIARLFQIHSFNAWQGIIGSVSTPQDQSPVLTNSHA 1147

Query: 2516 AALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMALVALTRSTKGVLFSGDQ 2337
            ++LT      R+CTIS+SQG T+  P +I LD ++  LS++  LVALTRS  GV F G  
Sbjct: 1148 SSLTFNSLGYRSCTISSSQGLTFCDPAIIVLDNYTKWLSSANGLVALTRSRSGVQFMGPS 1207

Query: 2336 SILQPGPHSAKLFSQLTQFQSSHSPDDRYPIQTHFIEQLRGVTLISTPLKSR--KLVGAC 2163
            S +     S+ +FS    F +S    DRY     F      + LI++PL +R  KL GA 
Sbjct: 1208 SYVGGTNGSSAMFSD--AFNNSLIIMDRY-----FPSLFPQLKLITSPLTTRSPKLNGAT 1260

Query: 2162 PSEVKHSSTVRDFTHHAIRGSTVRDPSYQPSLAHVVRHTSPAIYHSELNRLHPDFKGDAV 1983
            PS                   T R P++     H+  H  P  Y  +   ++P       
Sbjct: 1261 PS----------------ASPTHRSPNF-----HLPPHI-PLSYDRDFVTVNPTLPDQGP 1298

Query: 1982 RSAVIVCGDGIDHLPRVSPHFIAETRLPYHSDMPSAM---PSQCSLSPPTFSAPVFEPVY 1812
             +             R+  HF+  +RLP H D+P A+   P   S+ PP   A    PVY
Sbjct: 1299 ET-------------RLDTHFLPPSRLPLHFDLPPAITPPPISTSVDPPQAKA---SPVY 1342

Query: 1811 PGEDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQTLIAAQHHGQKDS 1632
            PGE F++LA+ FLPAHDP  RE++ K + S QFP+ ++PF L  QP +LI+A+H    D 
Sbjct: 1343 PGEFFDSLAAFFLPAHDPSTREVLHKDQSSNQFPWFDRPFSLSCQPSSLISAKHAPNHDP 1402

Query: 1631 TLLPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSVEPFDEALFADCI 1452
            TLLPASI KRLRFR +  P+ I+  D +LG  LF SLC+AY+R P+   PF+  LFA+CI
Sbjct: 1403 TLLPASINKRLRFRPSEAPHQITADDVVLGLQLFHSLCRAYSRQPNITVPFNPELFAECI 1462

Query: 1451 NLNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIFGSWKACQTLALM 1272
            +LNE+AQLSSKTQ+TI+ANASRSDPDWR + V+IF+K+QHK N+ SIFGSWKACQTLALM
Sbjct: 1463 SLNEYAQLSSKTQSTIVANASRSDPDWRHTTVKIFAKAQHKVNDGSIFGSWKACQTLALM 1522

Query: 1271 HDAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCRENLS-SCEHVANDYTAF 1095
            HD V+L+LGPVKKYQR+FDN DRP++IY H   TP Q+ DWC+E+L+ S   +ANDYTAF
Sbjct: 1523 HDYVILVLGPVKKYQRIFDNVDRPSHIYSHCGKTPNQLRDWCQEHLTHSTPKIANDYTAF 1582

Query: 1094 DQSQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVTTQFGPLTCMRLTGEPGTYDDNTD 915
            DQSQHGE+VVLE  KM+RL+IP  LIQLH +LKTNV+TQFGPLTCMRLTGEPGTYDDNTD
Sbjct: 1583 DQSQHGESVVLEALKMKRLNIPSHLIQLHVHLKTNVSTQFGPLTCMRLTGEPGTYDDNTD 1642

Query: 914  YNLAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPL-WITIGPMLHLRFKLEVTRYPLFCG 738
            YNLAVI+SQY + S P MVSGDDSLID  PLP    W ++   LHLRFKLE+T +PLFCG
Sbjct: 1643 YNLAVIYSQYDVGSCPIMVSGDDSLID-HPLPTRHDWPSVLKRLHLRFKLELTSHPLFCG 1701

Query: 737  YLVGPSGAVRSPITLFAKSLMALDDGSLDDKLASYLTEFSVGHSLGQEMWNLIPVEQVHY 558
            Y VGP+G +R+P+ LF K ++A+DD +LDD+  SYLTEF+ GH LG+ +W+L+P   V Y
Sbjct: 1702 YYVGPAGCIRNPLALFCKLMIAVDDDALDDRRLSYLTEFTTGHLLGESLWHLLPETHVQY 1761

Query: 557  QAALFDFFCRKASREQKLVLKIGEVPDTIISTILSSARAIARPLYAYLSSSARKLLLKGS 378
            Q+A FDFFCR+  + +K++L       +++  I SS R + +     L +  R  +   S
Sbjct: 1762 QSACFDFFCRRCPKHEKMLLDDSTPTLSLLERITSSPRWLTKNAMYLLPAKLRLAITSLS 1821

Query: 377  KTYRPFDTEESLQFEGVLQHAV 312
            +T    ++ E    E  L H V
Sbjct: 1822 QTQSFPESIEVSHAESELLHYV 1843



 Score =  337 bits (864), Expect = 4e-89
 Identities = 215/581 (37%), Positives = 290/581 (49%), Gaps = 35/581 (6%)
 Frame = -1

Query: 5948 ESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTHPH 5769
            ++L+ T HRD    P++E+  D +R S++ YP+++   L   L+  GI  SG G   HPH
Sbjct: 8    DALAPTTHRDPSLHPILESTVDSIRSSIQTYPWSIPKELLPLLNSYGIPTSGLGTSHHPH 67

Query: 5768 PAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTRYP 5589
             AHK IE ++L   W       SSV+FMKPSKF KL Q +SNF EL NYRL P D+TRYP
Sbjct: 68   AAHKTIETFLLCTHWSFQATTPSSVMFMKPSKFNKLAQVNSNFRELKNYRLHPNDSTRYP 127

Query: 5588 SSSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFPEL 5409
             +S  LP   T+FMHDALMYY P  I DLFL  P+L +LYA+LVVPPE+  +D SFFP+L
Sbjct: 128  FTSPDLPVFPTIFMHDALMYYHPSQIMDLFLQKPNLERLYASLVVPPEAHLSDQSFFPKL 187

Query: 5408 YNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHLLI 5229
            Y +      L Y  EG+ +  Y QP  A  WLR ++IR  +  LS++ILES GPVH LLI
Sbjct: 188  YTYTTTRHTLHYVPEGHEAGSYNQPSDAHSWLRINSIRLGNHHLSVTILESWGPVHSLLI 247

Query: 5228 QRGLAP--------------------KHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVP 5109
            QRG  P                    +        F  PD   LP  T L Q +RDRLVP
Sbjct: 248  QRGTPPPDPSLQAPSTPMASDLFRSYQEPRLDVVSFRIPDAIELPQATFLQQPLRDRLVP 307

Query: 5108 LAAYHSLRAYVMAVRTLRTTDPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAV 4929
             A Y++L  Y  AVRTLRT+DPA FVR  S+KP+  WVT+ AWD+LQ FALL    RP V
Sbjct: 308  RAVYNALFTYTRAVRTLRTSDPAAFVRMHSSKPDHDWVTSNAWDNLQTFALLNVPLRPNV 367

Query: 4928 SYLTFASSFARI-----KHWXXXXXXXXXXXXXXXXXAVSFTTVKVAHY---CSTRQIDS 4773
             Y    S  A +     +HW                  +SF T+            ++ S
Sbjct: 368  VYHVLQSPIASLALYLRQHW--------RRLTATAVPILSFLTLLQRFLPLPIPLAEVKS 419

Query: 4772 LILFGKQIVRPSCPLN--SPFSLHQYFSRTAQLPPSLSTQLPRFELVTSPRIITKWSPCL 4599
            +  F +++ R   P +    F L Q+         ++    P  + +  P  + K +  L
Sbjct: 420  ITAFRRELYRKKAPHHPLDVFHLQQHLRNHHSAISAVRPASPPHQRL--PHALQKAALLL 477

Query: 4598 AR----FLLSTPFFRTLTTQLNFLSKKCFFAKGFPHSRKLXXXXXXXXXILWAYRRFMGP 4431
             R     L +TPFFR+    +   ++  +  K F    +                +   P
Sbjct: 478  LRPISPLLTATPFFRSEQKSMLPNAELSWTLKRFALPWQASLVLLSLSESSVLLHKLFSP 537

Query: 4430 DAPQAMFDQYNGYFNPKPWKLRIAQGPTKCSR-GQFLPFCP 4311
               QA  D Y+ + +P  + L+  + P    R   FLPF P
Sbjct: 538  PTLQAQHDTYHRHLHPGSYSLQWERTPLSIPRTTAFLPFTP 578


>ref|YP_007517180.1| viral replication protein [Andean potato latent virus]
            gi|452883301|gb|AGG15964.1| viral replication protein
            [Andean potato latent virus]
          Length = 1831

 Score =  982 bits (2538), Expect = 0.0
 Identities = 538/1145 (46%), Positives = 710/1145 (62%), Gaps = 11/1145 (0%)
 Frame = -1

Query: 3758 LILDPSGFGEVSTFAQLYPDDYVLGCAEFFCRKRHHGVSTAPFPTMPCLLDAVGSCLGVT 3579
            L+ DP+  G+V  F   +P  Y    A F  R R    S  P P + CLL+         
Sbjct: 717  LMADPTCAGDVIPFHNAFPGLYFSNTASFPTRIRILPSSNLPVPALNCLLETFSQLTHYP 776

Query: 3578 PAELWSTLCHHLPDSLLQNPQITSCGLSTDHLTALSHFYQFKAFVTSDQEPIPHPYGVDS 3399
               LW +LC  LPD LL N +I + GLSTD LTAL   Y  +  + +      HPYG+ +
Sbjct: 777  VLSLWQSLCSMLPDCLLDNEEIRTVGLSTDLLTALCFTYHIQCILHTPSGN--HPYGMPA 834

Query: 3398 APTTIRFSHTTGNPGHF-----FITSDPGAPPPPKXXXXXXXXXXXXXXLTTFRLNGELL 3234
            + T+I   +  G P HF     FI S PG+ P  +                 F+ NG  L
Sbjct: 835  SSTSIEIDYLPGPPRHFSPHNRFIASAPGSNPSSEPLVREALR---------FKHNGHFL 885

Query: 3233 PFQTVHNYRANVKRAKNLISNMKNGFDGVMATVDPQHPNSA--KEKFVTTDGILDIAKSR 3060
            PF   H +  +++ AKNLISNMKNGFDG+M ++     +S   K++ +T D I D+A+ R
Sbjct: 886  PFHQAHLHSVSLQHAKNLISNMKNGFDGIMHSISTSSSSSPSPKQQILTLDSICDVAQPR 945

Query: 3059 SIKLIHIAGFPGCGKSYPIQRLLLTAPRARNFRISVPTAELRHEWKASMDLEPKNNWRIG 2880
            ++ +IHIAGF GCGK++PIQ+LL + P  ++FRIS PT ELR EWK  MD  P N WR  
Sbjct: 946  TVPVIHIAGFAGCGKTHPIQKLLASKP-FKDFRISTPTNELRSEWKRDMDPSPSNLWRFS 1004

Query: 2879 TWEXXXXXXXXXLVVDEIYKMPRGYLDLAILMDPHLEMVIVLGDPLQGEYHSTHPQSSNH 2700
            TWE         L++DE+YK+PRGYLDL+IL DP+L++V +LGDPLQGEYHST+P SSN 
Sbjct: 1005 TWESSLFKHSSVLIIDEVYKLPRGYLDLSILADPNLKLVFILGDPLQGEYHSTNPHSSNI 1064

Query: 2699 KLSSEINHLRPYLDFYCAWTRRCPKLIADFFGVPTTSQEPGFCRPVNHLPMNCPILTNSH 2520
            +L SEI+  R Y+D YC WT R PKL+A+ F +PT S E G    V+  P     L NS 
Sbjct: 1065 RLPSEIDRFRRYIDCYCWWTYRLPKLVAELFQIPTFSSEQGSIIAVSSHPPGSKNLVNST 1124

Query: 2519 SAALTLTEAHSRACTISASQGSTYSSPVVIHLDRHSSQLSNSMALVALTRSTKGVLFSGD 2340
            S A +L +    A TIS+SQG T+     I LDRH++ LS +  LVA+TRS KG  F G+
Sbjct: 1125 STATSLQQMGHHAITISSSQGITFPEINTILLDRHTNLLSPNNCLVAMTRSRKGFAFVGN 1184

Query: 2339 QSILQPGPHSAKLFSQLTQFQSSHSPDDRYPI-QTHFIEQLRGVTLISTPLKSRKLVGAC 2163
              +      ++ +FSQ            R PI   +       + L+  P+ +R L    
Sbjct: 1185 LHLASNSFGTSYMFSQALA---------RQPINMANCFHSFHQLLLLHHPITTRNL---- 1231

Query: 2162 PSEVKHSSTVRDFTHHAIRGSTVRDPSYQPSLAHVVRHTSPAIYHSELNRLHPDFKGDAV 1983
                 H ST+ +      + ST    S  P +          I H+E          D +
Sbjct: 1232 RFVAGHQSTLPNVHKAHQKLSTSGKLSLPPHI---------PIDHAE----------DFI 1272

Query: 1982 RSAVIVCGDGIDHLPRVSPHFIAETRLPYHSDMPSAMPSQCSLSPP--TFSAPVFEPVYP 1809
             +  +V GD ID  PR+  + +  TRLP H+++    PS    S P   F+ P F     
Sbjct: 1273 ITNPVVFGDAID--PRLPTNHLPPTRLPLHTELLGTNPSSTDSSSPDLLFNTP-FSLGLS 1329

Query: 1808 GEDFETLASTFLPAHDPHLREIIFKGERSAQFPYLNQPFDLFLQPQTLIAAQHHGQKDST 1629
            GE FE LA+ FLPAHDP L+EI++  + S QFP+L++PF L  QP +LIAA H   +DST
Sbjct: 1330 GETFENLAAHFLPAHDPSLKEILYHDQSSLQFPWLDRPFSLSCQPSSLIAATHSPSQDST 1389

Query: 1628 LLPASIPKRLRFRRNSTPYVISPKDQLLGELLFISLCKAYNRHPSSVEPFDEALFADCIN 1449
            LLPASI KRLRFR +  PY I+  DQLLG+ LF SLCKAY R P S  PF+  LFA+CI+
Sbjct: 1390 LLPASIKKRLRFRESDQPYQITANDQLLGQHLFSSLCKAYGRSPLSSVPFNPVLFAECIS 1449

Query: 1448 LNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIFSKSQHKTNEASIFGSWKACQTLALMH 1269
            LNE+AQLSSKT+ TI+ANA RSDPDWR + V+IF+K+QHK N+ SIFGSWKACQTLALMH
Sbjct: 1450 LNEYAQLSSKTRATIVANAQRSDPDWRHTTVKIFAKAQHKVNDGSIFGSWKACQTLALMH 1509

Query: 1268 DAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTPFQMSDWCRENLSSCEHVANDYTAFDQ 1089
            D ++L+LGPVKKYQR+ D++DRP  +Y+H  HTP Q+S WC+ +LS   ++ANDYT+FDQ
Sbjct: 1510 DYIILILGPVKKYQRVIDSKDRPPQLYIHCGHTPHQLSSWCQTHLSGQTYLANDYTSFDQ 1569

Query: 1088 SQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNVTTQFGPLTCMRLTGEPGTYDDNTDYN 909
            SQHGEAVVLE+ KM+RL+ P   + LH +LKTNV TQFGPLTCMRLTGEPGTYDDN+DYN
Sbjct: 1570 SQHGEAVVLELLKMQRLNFPSFFLDLHLHLKTNVQTQFGPLTCMRLTGEPGTYDDNSDYN 1629

Query: 908  LAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPLWITIGPMLHLRFKLEVTRYPLFCGYLV 729
            LAVI S+YL+ S P M+SGDDS+I   P  +P W +I P+LHL+FK E   +PLFCGY V
Sbjct: 1630 LAVIFSKYLIHSHPIMISGDDSVICGNPSIHPSWSSIEPILHLKFKTETNSHPLFCGYYV 1689

Query: 728  GPSGAVRSPITLFAKSLMALDDGSLDDKLASYLTEFSVGHSLGQEMWNLIPVEQVHYQAA 549
             P GAVR+P  LFAK ++ +DD +LDDK+ SYL+EFSVGH+LG  + ++IP   + YQ+A
Sbjct: 1690 SPLGAVRNPFALFAKLMICIDDCTLDDKILSYLSEFSVGHTLGDSLIHVIPSAILPYQSA 1749

Query: 548  LFDFFCRKASREQKLVLKIGEVPDTIISTILSSARAIARPLYAYLSSSARKLLL-KGSKT 372
              DFFCR  +  QKL+L +  +P++ I  ++   +  ++  ++ L S AR LL+ KGS  
Sbjct: 1750 CHDFFCRNCTPSQKLLLSLDPLPESTILRLILKIKWASKAFFSLLPSKARDLLVSKGSLQ 1809

Query: 371  YRPFD 357
              PFD
Sbjct: 1810 SMPFD 1814



 Score =  332 bits (852), Expect = 1e-87
 Identities = 177/407 (43%), Positives = 232/407 (57%), Gaps = 52/407 (12%)
 Frame = -1

Query: 5948 ESLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTHPH 5769
            E+L++T+HRD  T+P++ +V +PL+ SL +YP+ +   +  FL   GI  SG G   HPH
Sbjct: 8    EALNSTVHRDAATNPILNSVVEPLQQSLVQYPWLLPKEVLPFLLSSGIPNSGLGTTPHPH 67

Query: 5768 PAHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTRYP 5589
            P HK IE ++L + W  L    S+++FMKP KF+KL   ++NF  L NYRLTP DTTRYP
Sbjct: 68   PTHKVIETFLLYNHWSCLANQPSTIMFMKPQKFQKLRNLNNNFTHLCNYRLTPADTTRYP 127

Query: 5588 SSSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFPEL 5409
            ++S  LP    VFMHDALMY+ P  I DLFL++P +  LY +L+VPPES FTD S  P L
Sbjct: 128  TTSLHLPNTPVVFMHDALMYFNPAQILDLFLNSPIINSLYCSLIVPPESDFTDLSLQPIL 187

Query: 5408 YNFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHLLI 5229
            Y F      L Y  EG+ +  Y QP  ALDWL+  +I   +L LS++ L+S GPVH +LI
Sbjct: 188  YQFSISGQTLHYVPEGHNAGSYNQPLHALDWLKIHSILSRELNLSVTKLDSWGPVHSILI 247

Query: 5228 QRGLAPKH-----------------------------------------------RENTT 5190
            QR L P H                                                 +  
Sbjct: 248  QRNLPPLHPARQSPINHSLSSLFPQHNRAPRALRSQRDSSQHLQSALQALFPPPQAAHAL 307

Query: 5189 RDFDTPDCFLLPAPTSLSQNVRDRLVPLAAYHSLRAYVMAVRTLRTTDPAGFVRTQSTKP 5010
              F  P+C  LP+ T L+Q +R RLVPL  Y++L  Y  AVRTLRT+DPAGFVRTQS K 
Sbjct: 308  ASFKIPECLELPSATFLNQPLRHRLVPLQVYNALFTYTRAVRTLRTSDPAGFVRTQSNKA 367

Query: 5009 EFAWVTAEAWDSLQNFALLTCNQRPAVSYLTFASSFARIK-----HW 4884
            E++WVT  AWD+LQ FAL+    RP V Y  F + F ++K     HW
Sbjct: 368  EYSWVTPNAWDNLQTFALMNAPIRPRVFYEFFLNPFQKLKLHFRQHW 414


>ref|NP_041257.1| replicase [Ononis yellow mosaic virus]
            gi|130553|sp|P20127.1|POLR_OYMV RecName: Full=RNA
            replicase polyprotein gi|332574|gb|AAA46796.1| replicase
            protein (RP) [Ononis yellow mosaic virus]
          Length = 1776

 Score =  971 bits (2510), Expect = 0.0
 Identities = 539/1164 (46%), Positives = 691/1164 (59%), Gaps = 16/1164 (1%)
 Frame = -1

Query: 3818 GSLDTVNVAIP----DDTTPE----RSTLILDPSGFGEVSTFAQLYPDDYVLGCAEFFCR 3663
            G+L+ + + +P    + T P+     S L+ D S  G V  F  ++P +Y +    F  R
Sbjct: 636  GALNQLPLPVPSPLQNSTNPKPPFPSSDLLSDMSCTGPVVEFETIFPAEYHMSNGSFPTR 695

Query: 3662 KRHHGVSTAPFPTMPCLLDAVGSCLGVTPAELWSTLCHHLPDSLLQNPQITSCGLSTDHL 3483
             R H  S+APFP   CLL AV S L  T  +LW  LC  LPDSLL N ++ + GLSTDHL
Sbjct: 696  LRGHPRSSAPFPQKHCLLTAVASQLSYTEHQLWEFLCDMLPDSLLTNSEVENFGLSTDHL 755

Query: 3482 TALSHFYQFKAFVTSDQEPIPHPYGVDSAPTTIRFSHTTGNPGHF-----FITSDPGAPP 3318
            T LS+   F+  + +    IP  YG+  A T I+ S+  G P HF        + PG+ P
Sbjct: 756  TCLSYRLHFECIIHTSHSTIP--YGIKKASTVIQISYIDGPPKHFKAFIKLAAAAPGSNP 813

Query: 3317 PPKXXXXXXXXXXXXXXLTTFRLNGELLPFQTVHNYRANVKRAKNLISNMKNGFDGVMAT 3138
                                F+ N   LPF   H +  +V  AKNLISNMKNGFDG+ + 
Sbjct: 814  SKSNLVRAALR---------FKYNDAFLPFWDAHQHTISVPHAKNLISNMKNGFDGITSQ 864

Query: 3137 VDPQHPNSAKEKFVTTDGILDIAKSRSIKLIHIAGFPGCGKSYPIQRLLLTAPRARNFRI 2958
            +      S K K +  D  +D++  R   +IHIAGFPGCGKS+PIQ+LL T P  R+FR+
Sbjct: 865  LSGPSNKSPKMKLLELDATIDVSFPRKCDVIHIAGFPGCGKSHPIQKLLQT-PAFRHFRL 923

Query: 2957 SVPTAELRHEWKASMDLEPKNNWRIGTWEXXXXXXXXXLVVDEIYKMPRGYLDLAILMDP 2778
            SVPT ELR EWK  ++L     WR+ TWE         LVVDEIYK+PRGYLDL +L DP
Sbjct: 924  SVPTNELRSEWKRDLNLPESEVWRLCTWETALFKSSNILVVDEIYKLPRGYLDLILLADP 983

Query: 2777 HLEMVIVLGDPLQGEYHSTHPQSSNHKLSSEINHLRPYLDFYCAWTRRCPKLIADFFGVP 2598
             +++VI+LGDPLQGEYHS+HP SSN +L SE   L  Y+D YC WT RCPK +AD FGV 
Sbjct: 984  SIQLVIMLGDPLQGEYHSSHPSSSNSRLESETTRLSKYIDCYCWWTYRCPKAVADLFGVK 1043

Query: 2597 TTSQEPGFCRPVNHLPMNCPILTNSHSAALTLTEAHSRACTISASQGSTYSSPVVIHLDR 2418
            T +   GF R V   P N P L NS + A T+      A TIS+SQG TYS PV + LDR
Sbjct: 1044 TFNSNEGFIRAVLSHPPNLPNLVNSIATANTMQSLGHHALTISSSQGMTYSDPVTVLLDR 1103

Query: 2417 HSSQLSNSMALVALTRSTKGVLFSGDQSILQPGPHSAKLFS-QLTQFQSSHSPDDRYPIQ 2241
            HS  ++   ALVALTRS  G+ F G          ++ +FS  LT           +P+ 
Sbjct: 1104 HSLLITPQTALVALTRSRSGIYFIGSMYTASGSAGTSYMFSCALTGLPVDMM--SAFPL- 1160

Query: 2240 THFIEQLRGVTLISTPLKSRKLVGACPSEVKHSSTVRDFTHHAIRGSTVRDPSYQPSLAH 2061
                     + LI  P++SR+                   H  + G T       PSL  
Sbjct: 1161 ------FHTLPLIHEPIRSRR-------------------HRLVAGHT-------PSL-- 1186

Query: 2060 VVRHTSPAIYHSELNRLHPDFKGDAVRSAVIVCGDGIDHLP--RVSPHFIAETRLPYHSD 1887
               H  P+        L P       +  ++  G    + P  R++   +  TRLP H D
Sbjct: 1187 ---HVPPSNKWPHRLHLPPHIPTSHSKDVILAHGIVASNAPERRLTTLHLPPTRLPLHFD 1243

Query: 1886 MPSAMPSQCSLSPPTFSAPVFEPVYPGEDFETLASTFLPAHDPHLREIIFKGERSAQFPY 1707
            + S  PS  S S  + S   F   + GE FE LA+ FLPAHDP L+E+    + S QFPY
Sbjct: 1244 LESCNPSTVSTSSTSNSEVPFTHAFLGESFEELAAHFLPAHDPDLKEVTVGDQTSQQFPY 1303

Query: 1706 LNQPFDLFLQPQTLIAAQHHGQKDSTLLPASIPKRLRFRRNSTPYVISPKDQLLGELLFI 1527
            L+QP+ L  QP +L+AA H    D TLL  SI KRLRFR +S+PY  +P D +LG LL+ 
Sbjct: 1304 LDQPYTLSCQPSSLLAASHKPASDPTLLIFSISKRLRFRASSSPYAFTPNDLILGHLLYT 1363

Query: 1526 SLCKAYNRHPSSVEPFDEALFADCINLNEFAQLSSKTQTTIMANASRSDPDWRWSAVRIF 1347
            + CKA+ R P+S  PF+ ALFA+CI LNE+AQLSSKTQ TI++NASRSDPDWR++ VRIF
Sbjct: 1364 NWCKAFGRCPNSTIPFNPALFAECICLNEYAQLSSKTQATIVSNASRSDPDWRYTVVRIF 1423

Query: 1346 SKSQHKTNEASIFGSWKACQTLALMHDAVVLLLGPVKKYQRLFDNRDRPANIYVHASHTP 1167
            +KSQHK N+ SIFGSWKACQTLALMHD V+L LGPVKKYQR+ D+ DRP  IY H   TP
Sbjct: 1424 AKSQHKVNDGSIFGSWKACQTLALMHDFVILTLGPVKKYQRIIDHYDRPNFIYTHCGKTP 1483

Query: 1166 FQMSDWCRENLSSCEHVANDYTAFDQSQHGEAVVLEIKKMRRLSIPEPLIQLHAYLKTNV 987
             ++S W    L    ++ NDYT+FDQSQHGEAV+ E  KM R+ IP  LI LH YLKTNV
Sbjct: 1484 SELSAWSHSFLKGDAYICNDYTSFDQSQHGEAVIFESLKMHRVGIPRHLIDLHIYLKTNV 1543

Query: 986  TTQFGPLTCMRLTGEPGTYDDNTDYNLAVIHSQYLMASIPHMVSGDDSLIDRQPLPNPLW 807
            +TQFGPLTCMRLTGEPGTYDDNTDYNLAVI SQY+++  P MVSGDDS+I   P  NP W
Sbjct: 1544 STQFGPLTCMRLTGEPGTYDDNTDYNLAVIFSQYVISDHPIMVSGDDSVICGHPPINPNW 1603

Query: 806  ITIGPMLHLRFKLEVTRYPLFCGYLVGPSGAVRSPITLFAKSLMALDDGSLDDKLASYLT 627
              +  +LHLRFK E T  PLFCGY VGP+G  R+P  LFAK +++ D G+L + L SYL 
Sbjct: 1604 PAVEKLLHLRFKTEETSLPLFCGYYVGPTGCCRNPFALFAKLMISYDKGNLFETLPSYLY 1663

Query: 626  EFSVGHSLGQEMWNLIPVEQVHYQAALFDFFCRKASREQKLVLKIGEVPDTIISTILSSA 447
            EFS+GH LG  +  L P   + Y +A +D FCRK +  QKL+L    +P +  S + S++
Sbjct: 1664 EFSIGHRLGDVVRLLFPDHLLKYYSACWDLFCRKCTASQKLILSFEPIPPSFFSKLASTS 1723

Query: 446  RAIARPLYAYLSSSARKLLLKGSK 375
            R +++ L++ L +  R +L+  SK
Sbjct: 1724 RWVSKVLFSDLPTKIRDMLISSSK 1747



 Score =  327 bits (837), Expect = 6e-86
 Identities = 166/353 (47%), Positives = 221/353 (62%), Gaps = 1/353 (0%)
 Frame = -1

Query: 5945 SLSNTIHRDTVTSPLVEAVADPLRDSLEKYPYAVSPSLTSFLSKRGINISGYGAKTHPHP 5766
            +L+++ H+D+  +P++ +   PL+ SL+ +P+ +      FL   GI  SG+G   HPH 
Sbjct: 9    ALASSTHKDSSLNPVLNSAVQPLQTSLQNFPWIIGKEHLPFLLAAGIPTSGFGCNPHPHA 68

Query: 5765 AHKNIENYILQDVWPNLIRNQSSVLFMKPSKFRKLEQKDSNFHELINYRLTPQDTTRYPS 5586
             HK IE ++L + W  +   Q+SV+FMKPSKF+KL   + NF EL+NYRLT  D+ RYPS
Sbjct: 69   VHKVIETFLLFNHWSFMATVQASVMFMKPSKFKKLASVNPNFSELVNYRLTAADSVRYPS 128

Query: 5585 SSTTLPAHSTVFMHDALMYYTPGDIADLFLSAPHLTQLYATLVVPPESSFTDTSFFPELY 5406
            +ST+LP +  VFMHDALMY+ P  I DLF+  P L +L+ +LVVPPESSFTD S  P LY
Sbjct: 129  TSTSLPKYEIVFMHDALMYFNPSQILDLFIQCPSLQRLHCSLVVPPESSFTDLSLHPNLY 188

Query: 5405 NFHFHDTDLVYELEGNPSHHYIQPKSALDWLRTSTIRCSDLTLSISILESIGPVHHLLIQ 5226
             +      L Y  EG+ +  Y QP  A+ WL+ ++I    L LS+S LES GPVH LLI 
Sbjct: 189  TYTISGNTLHYVPEGHHAGSYDQPLDAISWLKLNSIHSPHLNLSVSKLESWGPVHSLLIT 248

Query: 5225 RGLAP-KHRENTTRDFDTPDCFLLPAPTSLSQNVRDRLVPLAAYHSLRAYVMAVRTLRTT 5049
            RGL      E     F  P+C  LP  T L Q +R RLVP   Y +L  Y  AVRTLRT+
Sbjct: 249  RGLPHLPSSEKQQVSFHIPNCLPLPEATFLHQPLRHRLVPTEVYDALFTYTRAVRTLRTS 308

Query: 5048 DPAGFVRTQSTKPEFAWVTAEAWDSLQNFALLTCNQRPAVSYLTFASSFARIK 4890
            DPAGFVRT S KP+++WVT+ AWD+LQ +ALL    RP V +  F S   + +
Sbjct: 309  DPAGFVRTHSNKPQYSWVTSRAWDNLQTYALLNAPVRPVVLFDFFLSPLKKFQ 361


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