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= Coptis24_contig00005007
         (3778 letters)

Database: ./nr 
           23,641,837 sequences; 8,123,359,852 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|XP_002284914.1| PREDICTED: RNA-dependent RNA polymerase 1 [V...   925   0.0  
ref|XP_002311536.1| rna-dependent RNA polymerase [Populus tricho...   923   0.0  
ref|XP_002281315.1| PREDICTED: RNA-dependent RNA polymerase 1-li...   918   0.0  
gb|ABQ45352.1| RNA-dependent RNA polymerase [Gossypium hirsutum]      886   0.0  
emb|CAA09697.1| RNA-directed RNA polymerase [Nicotiana tabacum]       878   0.0  

>ref|XP_002284914.1| PREDICTED: RNA-dependent RNA polymerase 1 [Vitis vinifera]
          Length = 1121

 Score =  925 bits (2390), Expect(2) = 0.0
 Identities = 456/631 (72%), Positives = 515/631 (81%), Gaps = 10/631 (1%)
 Frame = -3

Query: 2096 GQSFSSSRETLTVDRHEIEVIPDVEVGSNGKRYVFSDGIGKISVEFARRVAKKCGVNGFT 1917
            GQSFSSS+ETL V + EIE IPD+E+      YVFSDGIGKIS + A RVA KCG    T
Sbjct: 492  GQSFSSSKETLKVAKDEIENIPDIEIHKGRTTYVFSDGIGKISPQLAHRVAIKCGCKSST 551

Query: 1916 PSSFQIRYGGYKGVVAVDPTSVMKLSLRKSMSKYISRNTKLDVLSWSKYQPCFLNRQLIS 1737
            PS+FQIRYGGYKGVVAVDPTS  KLSLRKSM KY S NT LDVL+WSKYQP FLNRQLI+
Sbjct: 552  PSAFQIRYGGYKGVVAVDPTSSRKLSLRKSMFKYESDNTNLDVLAWSKYQPSFLNRQLIT 611

Query: 1736 LLSTLGVKDHIFEKKQKEAVDQLDLILTDPSMALEALEVMSPGENVSVLKEMLMCGYKPD 1557
            LLSTLGVKDH+FEKKQ+ AVDQLD IL DP  A EALE+MSPGEN +VLKEMLMCGYKPD
Sbjct: 612  LLSTLGVKDHVFEKKQRAAVDQLDTILKDPVAAQEALELMSPGENTNVLKEMLMCGYKPD 671

Query: 1556 IEPFLSMMLQTFRALKLLELRKKTRIFVPNGRAMMGCLDENRMLEYGQVFVQFSHIGP-Q 1380
             EPFLSMMLQTFRA KLLELR KTRIFVPNGR+MMGCLDE R LEYG+VFVQ S  G  Q
Sbjct: 672  AEPFLSMMLQTFRAAKLLELRTKTRIFVPNGRSMMGCLDETRTLEYGEVFVQISGTGGRQ 731

Query: 1379 RFQGNTPFTTSINKSDQRKSIVKGRVIVAKNPCLHPGDVRVLQAVDIPALHHLVDCVVFP 1200
             F  +  F  S +  D    I++G+++VAKNPCLHPGDVRVL AV++P LHH+VDCVVFP
Sbjct: 732  SFGDSLMFRGSGSHHDN--FILEGKIVVAKNPCLHPGDVRVLWAVNVPTLHHMVDCVVFP 789

Query: 1199 QKGARPHPNECSGSDLDGDIYFVSWDHELIPPRQIDPMDYTPEPTVTLDHDVTIEEVQEY 1020
            QKG RPHPNECSGSDLDGDIYFV WD +LIPP+QI+PMDYTP PT  LDHDV IEEV+EY
Sbjct: 790  QKGKRPHPNECSGSDLDGDIYFVCWDRDLIPPQQINPMDYTPAPTKVLDHDVMIEEVEEY 849

Query: 1019 FTNYIVNDSLGIIANAHTAFADRELEKAESDACMELARLFSIAVDFPKTGVPAVIPTRLH 840
            FTNYIVNDSLGIIANAHT FAD+E +KA  D C ELA+LFSIAVDFPKTGVPA IP  L 
Sbjct: 850  FTNYIVNDSLGIIANAHTVFADKEYDKAYCDPCTELAKLFSIAVDFPKTGVPAEIPRNLR 909

Query: 839  VKEYPDFMEKLDKPTYESHRVIGKLFRAVKDIAPQTSCIKSFTKEIARRSYDRDMEIDGF 660
            VKEYPDFMEK DKPTYES  VIGKLFR VKDIAP    I+SFT+++AR+SYD DME+ GF
Sbjct: 910  VKEYPDFMEKADKPTYESQSVIGKLFREVKDIAPHNCNIRSFTRDVARQSYDPDMEVVGF 969

Query: 659  EDYIEDAYYYKGEYDFKLASRMDYYGIKTEAELLGGSVMKMSKAFDKRRDLEGIELAVRS 480
            EDY+ DA+YYK EYD+KL + MDYYGIKTE+E+L GS+M+MSK+FD+R+D E I LAV+S
Sbjct: 970  EDYVSDAFYYKSEYDYKLGNLMDYYGIKTESEILSGSIMRMSKSFDRRKDAEAIGLAVKS 1029

Query: 479  LKKEVRAWFDEKSSKSGCEADDIYAKASAWYHVTYHPDYWGCYNEGMGKDHFLSFPWCVS 300
            L+KE R WF++  S++  EADD+YAKASAWYHVTYHPDYWGCYNEGM +DHFLSFPWCV 
Sbjct: 1030 LRKEARTWFNKMGSETDSEADDVYAKASAWYHVTYHPDYWGCYNEGMDRDHFLSFPWCVY 1089

Query: 299  DKLIFIKR---------TSNMRERLSEALRL 234
            DKLI  KR          S++  RLS+ LRL
Sbjct: 1090 DKLIHTKRKKMSGRSLHLSSLERRLSQGLRL 1120



 Score =  532 bits (1370), Expect(2) = 0.0
 Identities = 276/481 (57%), Positives = 348/481 (72%), Gaps = 2/481 (0%)
 Frame = -1

Query: 3604 MSRTIQVSGLPSHVSAQVVKEFLERYAGEGTVFALKIRQSKSKGPNPRAFAVVQFTTTRC 3425
            MS+TIQV G PS VSA  +KEFLE+Y GEGT+ AL+I+Q +S        A VQFT+   
Sbjct: 1    MSKTIQVYGFPSIVSADEIKEFLEKYTGEGTIEALEIKQPRSGAS--MTHAKVQFTSFEL 58

Query: 3424 VETILK-SSQCLYYGISRLKVHNMERDIVPKPREMMLSLDVPALHFGCQVSGESFKAFWK 3248
             E I+    + ++YG + LK   M+ DI+PKPR  + S+D   LHFGCQ+S E F   WK
Sbjct: 59   AEFIITLCKKKVWYGRNYLKAREMDLDIIPKPRAFLHSMDRITLHFGCQMSDERFCVLWK 118

Query: 3247 RANVVVNFGFGLRKVELLLSHSGVDYKLELFYDSIWQIQLHRPRSRNTKYLVIQVFGAPR 3068
              NV V FG GLRK    LSH   +YKLEL Y++IWQIQL  PR + TK+L+IQ+ GAP+
Sbjct: 119  AINVSVKFGSGLRKFYFFLSHGSEEYKLELSYENIWQIQLQHPRGQITKFLLIQLLGAPQ 178

Query: 3067 IYEKLTCSSDDIYGDPDLNY-FRDTPDDQWVRATDFTTSSCIGQSSAICLELPQSCGLSA 2891
            IYEK      D+   P L+Y F++ PDDQWVR  DFT S  IGQS A+CLELP    L  
Sbjct: 179  IYEK------DV---PVLSYYFKEAPDDQWVREIDFTPSCFIGQSFALCLELPYGSQLPN 229

Query: 2890 VRDNFHYYSENEDRFMLESGSPFSQSLELVPIVGPPQGLELPYSVLFKVNSLVQNGCLAG 2711
             R+NF YY EN+ +F+LESGS +S +L LVPI+GPPQG  LP+ +LFK+N+LVQNGCL+G
Sbjct: 230  FRENFAYYKENDGKFILESGSSYSHNLHLVPILGPPQGSSLPFQILFKINTLVQNGCLSG 289

Query: 2710 PTLDIAFFRLVHPQYVPIAHIERALERLCQLKDCCYEPIRWLNEQYLKYRTSKTLIRARS 2531
            PTLD +FFRLV P+  PI+ IE ALE+L  LK+CCYEP+RWL+EQY  Y   K +  + +
Sbjct: 290  PTLDTSFFRLVDPERFPISFIEHALEKLYHLKECCYEPVRWLSEQYRTY-VKKPVAGSPA 348

Query: 2530 TSLDDGLVYIRRVRVTPSKVYFCEPDVNLSNRVIRHFHEYIDNFIRVSFYDEDWEKMRST 2351
             SLD GLVY+RRV++TP KVYFC P+VN+SNRV+R++ E IDNF+RVSF DE+ EK+ ST
Sbjct: 349  ISLDTGLVYVRRVQITPCKVYFCGPEVNVSNRVLRNYPEDIDNFLRVSFLDENLEKIHST 408

Query: 2350 DLSPRATSKNEDRRHTSIYKRILSTLRNGIVIGDKKFEFLAFSSSQLRDNSAWMFASENG 2171
             +SPR    +++ R T +Y+RILS L+NGIVIGDKKF+FLAFSSSQLRDNSAWMFAS  G
Sbjct: 409  VISPR---MSKEGRRTGVYRRILSILQNGIVIGDKKFDFLAFSSSQLRDNSAWMFASRPG 465

Query: 2170 L 2168
            L
Sbjct: 466  L 466


>ref|XP_002311536.1| rna-dependent RNA polymerase [Populus trichocarpa]
            gi|222851356|gb|EEE88903.1| rna-dependent RNA polymerase
            [Populus trichocarpa]
          Length = 1133

 Score =  923 bits (2385), Expect(2) = 0.0
 Identities = 450/617 (72%), Positives = 517/617 (83%), Gaps = 1/617 (0%)
 Frame = -3

Query: 2096 GQSFSSSRETLTVDRHEIEVIPDVEVGSNGKRYVFSDGIGKISVEFARRVAKKCGVNGFT 1917
            GQSF SS ETL+V  HEIE+IPD+EV   G RY+FSDGIGKIS EFAR+VA KCG  GFT
Sbjct: 503  GQSFGSSTETLSVSSHEIEIIPDIEVSRGGTRYLFSDGIGKISAEFARKVAIKCGCKGFT 562

Query: 1916 PSSFQIRYGGYKGVVAVDPTSVMKLSLRKSMSKYISRNTKLDVLSWSKYQPCFLNRQLIS 1737
            PS+FQIRY GYKGVVAVDPTS  KLSLR+SM KY S NTKLDVL+ SKYQPCFLNRQLI+
Sbjct: 563  PSAFQIRYAGYKGVVAVDPTSSKKLSLRRSMFKYESENTKLDVLAHSKYQPCFLNRQLIT 622

Query: 1736 LLSTLGVKDHIFEKKQKEAVDQLDLILTDPSMALEALEVMSPGENVSVLKEMLMCGYKPD 1557
            LLSTLGV DH FE+KQ+EAVDQLD +LTDP  A EALE+MSPGEN ++LKEML+CGY+PD
Sbjct: 623  LLSTLGVPDHHFERKQREAVDQLDAMLTDPLRAQEALELMSPGENTNILKEMLLCGYQPD 682

Query: 1556 IEPFLSMMLQTFRALKLLELRKKTRIFVPNGRAMMGCLDENRMLEYGQVFVQFSHIGPQR 1377
             EPFLSMMLQTFRA KLLELR KTRIF+PNGR+MMGCLDE R LE+GQVFV+FS     R
Sbjct: 683  AEPFLSMMLQTFRASKLLELRTKTRIFIPNGRSMMGCLDETRTLEHGQVFVKFSG---SR 739

Query: 1376 FQGNTPFTTSINKSDQRKS-IVKGRVIVAKNPCLHPGDVRVLQAVDIPALHHLVDCVVFP 1200
            F+     +   ++  + +  ++KG V+VAKNPCLHPGD+R+L+AVD+PALHH+VDCVVFP
Sbjct: 740  FRNLYDSSDMFSERGRGQCYLIKGSVVVAKNPCLHPGDLRILKAVDVPALHHMVDCVVFP 799

Query: 1199 QKGARPHPNECSGSDLDGDIYFVSWDHELIPPRQIDPMDYTPEPTVTLDHDVTIEEVQEY 1020
            QKG RPHPNECSGSDLDGDIYFV WD ELIP +QI PMDYTPEP + LDHDVTIEEV+EY
Sbjct: 800  QKGPRPHPNECSGSDLDGDIYFVCWDPELIPSQQISPMDYTPEPPLQLDHDVTIEEVEEY 859

Query: 1019 FTNYIVNDSLGIIANAHTAFADRELEKAESDACMELARLFSIAVDFPKTGVPAVIPTRLH 840
            FTNYIVNDSLG+IANAHTA AD+E  KA S+ C+ELAR FSIAVDFPKTGVPA IP+ L 
Sbjct: 860  FTNYIVNDSLGVIANAHTAHADKESLKAMSEPCVELARKFSIAVDFPKTGVPAEIPSNLR 919

Query: 839  VKEYPDFMEKLDKPTYESHRVIGKLFRAVKDIAPQTSCIKSFTKEIARRSYDRDMEIDGF 660
             +EYPDFMEK DKP+YES  VIGKLFR VKDIAP+TS I+SFT ++AR+ YD DME+DGF
Sbjct: 920  AREYPDFMEKPDKPSYESRNVIGKLFREVKDIAPRTSSIRSFTSDVARQCYDPDMEVDGF 979

Query: 659  EDYIEDAYYYKGEYDFKLASRMDYYGIKTEAELLGGSVMKMSKAFDKRRDLEGIELAVRS 480
            EDYI+DA+YYK  YD+KL + M+YYGIKTEAELL GS MKMSK+F K+RD E I +AVRS
Sbjct: 980  EDYIDDAFYYKSNYDYKLGNLMEYYGIKTEAELLSGSFMKMSKSFTKKRDAEAIGMAVRS 1039

Query: 479  LKKEVRAWFDEKSSKSGCEADDIYAKASAWYHVTYHPDYWGCYNEGMGKDHFLSFPWCVS 300
            LKKE R+WF+EK S    +ADD+ AKASAWYHVTYH +YWGCYNEGM +DHFLSFPWCV 
Sbjct: 1040 LKKEARSWFNEKGSGLDSQADDVDAKASAWYHVTYHHNYWGCYNEGMNRDHFLSFPWCVY 1099

Query: 299  DKLIFIKRTSNMRERLS 249
            DKLI IKR ++ R R S
Sbjct: 1100 DKLIQIKRRNSARIRRS 1116



 Score =  553 bits (1424), Expect(2) = 0.0
 Identities = 278/480 (57%), Positives = 353/480 (73%), Gaps = 1/480 (0%)
 Frame = -1

Query: 3604 MSRTIQVSGLPSHVSAQVVKEFLERYAGEGTVFALKIRQSKSKGPNPRAFAVVQFTTTRC 3425
            MS+T++VSG PS  +A  V+ FLE + G GTV ALKIR+ ++ G   R +A+VQFTTTR 
Sbjct: 1    MSKTVKVSGFPSSTTAGAVQVFLESHTGGGTVEALKIREIRTGGA--RKYAIVQFTTTRA 58

Query: 3424 VETILK-SSQCLYYGISRLKVHNMERDIVPKPREMMLSLDVPALHFGCQVSGESFKAFWK 3248
             E I+  ++  L+YG S L    M+RDI+P+PR  + +++   LHFG Q S E F A W 
Sbjct: 59   AEQIISLANPRLWYGHSYLNARPMDRDIIPQPRSFLHTMESVTLHFGYQTSKEKFSAVWS 118

Query: 3247 RANVVVNFGFGLRKVELLLSHSGVDYKLELFYDSIWQIQLHRPRSRNTKYLVIQVFGAPR 3068
              NV VNFG G+RK+   LSH+  +YKL L +++IWQI+LHRPR +  KYL+IQ++GAPR
Sbjct: 119  GNNVSVNFGLGMRKLHFFLSHNLAEYKLNLLFENIWQIELHRPRGQTVKYLLIQLYGAPR 178

Query: 3067 IYEKLTCSSDDIYGDPDLNYFRDTPDDQWVRATDFTTSSCIGQSSAICLELPQSCGLSAV 2888
            IYE+   SS +++ DP LNYFRD PD+QWVR TDFT S  IG SS++CLELP    L   
Sbjct: 179  IYERDVPSSSNVFEDPLLNYFRDVPDEQWVRTTDFTPSCGIGHSSSLCLELPNHLQLPNF 238

Query: 2887 RDNFHYYSENEDRFMLESGSPFSQSLELVPIVGPPQGLELPYSVLFKVNSLVQNGCLAGP 2708
             +NF YY ENE  F+LESG  FS++ +LVPIVGP  G+ LPY++LF+VN LVQNGCLAG 
Sbjct: 239  NENFFYYKENEGTFVLESGLTFSRNPDLVPIVGPSSGVNLPYNILFRVNLLVQNGCLAGS 298

Query: 2707 TLDIAFFRLVHPQYVPIAHIERALERLCQLKDCCYEPIRWLNEQYLKYRTSKTLIRARST 2528
             LD  F+RLV P  +P+  IE ALE+L  LK+CCYEP +W NEQY KY TS    R+   
Sbjct: 299  MLDDIFYRLVDPNRMPVRCIEYALEKLYHLKECCYEPSKWFNEQYKKYLTSGNPPRSPVL 358

Query: 2527 SLDDGLVYIRRVRVTPSKVYFCEPDVNLSNRVIRHFHEYIDNFIRVSFYDEDWEKMRSTD 2348
            SLD GLVY+ +V++TP KV+FC P+VN+SNRV+R + E IDNF+RVSF DE+ EK+ STD
Sbjct: 359  SLDAGLVYVYKVQITPCKVFFCGPEVNVSNRVLRQYREDIDNFLRVSFVDEELEKIHSTD 418

Query: 2347 LSPRATSKNEDRRHTSIYKRILSTLRNGIVIGDKKFEFLAFSSSQLRDNSAWMFASENGL 2168
            +SPR +S+NE RR T+IY RILSTL+NGIVIGDKKFEFLAFSSSQLR+NS WMFAS  GL
Sbjct: 419  VSPRTSSRNELRR-TAIYNRILSTLQNGIVIGDKKFEFLAFSSSQLRENSCWMFASRLGL 477


>ref|XP_002281315.1| PREDICTED: RNA-dependent RNA polymerase 1-like [Vitis vinifera]
          Length = 1109

 Score =  918 bits (2373), Expect(2) = 0.0
 Identities = 448/608 (73%), Positives = 504/608 (82%), Gaps = 1/608 (0%)
 Frame = -3

Query: 2096 GQSFSSSRETLTVDRHEIEVIPDVEVGSNGKRYVFSDGIGKISVEFARRVAKKCGVNGFT 1917
            GQSFSSS+ETL V +HEIE+IPD+E   +G  YVFSDGIGKIS E A RVA KCG    T
Sbjct: 490  GQSFSSSKETLKVAKHEIEIIPDIETHRDGTTYVFSDGIGKISAELAHRVAIKCGCKNST 549

Query: 1916 PSSFQIRYGGYKGVVAVDPTSVMKLSLRKSMSKYISRNTKLDVLSWSKYQPCFLNRQLIS 1737
            PS+FQIRYGGYKGVVAVDPTS  KLSLRKSM KY S NT LDVLSWSKY+PCFLNRQLI+
Sbjct: 550  PSAFQIRYGGYKGVVAVDPTSSRKLSLRKSMFKYESENTNLDVLSWSKYRPCFLNRQLIT 609

Query: 1736 LLSTLGVKDHIFEKKQKEAVDQLDLILTDPSMALEALEVMSPGENVSVLKEMLMCGYKPD 1557
            LLSTLGVKDH+FEKKQ+EAVDQLD IL DP  A EALE+MSPGEN ++LKEMLMCGYKPD
Sbjct: 610  LLSTLGVKDHVFEKKQREAVDQLDTILKDPLRAQEALELMSPGENTNILKEMLMCGYKPD 669

Query: 1556 IEPFLSMMLQTFRALKLLELRKKTRIFVPNGRAMMGCLDENRMLEYGQVFVQFSHIGP-Q 1380
             EPFLSMMLQTFRA KLLELR KTRIFVPNGR+MMGCLDE R LEYG+VFVQ S  G  Q
Sbjct: 670  AEPFLSMMLQTFRAAKLLELRTKTRIFVPNGRSMMGCLDETRTLEYGEVFVQISGTGGRQ 729

Query: 1379 RFQGNTPFTTSINKSDQRKSIVKGRVIVAKNPCLHPGDVRVLQAVDIPALHHLVDCVVFP 1200
             F  +  F  S +  D    I++G+V+VAKNPCLHPGDVR+L AVD+PALHH+VDCVVFP
Sbjct: 730  SFGDSLMFYGSGSHHDN--FILEGKVVVAKNPCLHPGDVRILSAVDVPALHHMVDCVVFP 787

Query: 1199 QKGARPHPNECSGSDLDGDIYFVSWDHELIPPRQIDPMDYTPEPTVTLDHDVTIEEVQEY 1020
            QKG RPHP+ECSGSDLDGDIYFV WDH+LIPPRQI+PMDYTP PT  LDHDV IEEV+EY
Sbjct: 788  QKGMRPHPDECSGSDLDGDIYFVCWDHDLIPPRQINPMDYTPAPTKVLDHDVMIEEVEEY 847

Query: 1019 FTNYIVNDSLGIIANAHTAFADRELEKAESDACMELARLFSIAVDFPKTGVPAVIPTRLH 840
            FTNYI ND LGIIANAHT FAD+E +KA    C ELA+LFSIA++FPKTGVPA IP  LH
Sbjct: 848  FTNYIGNDKLGIIANAHTVFADKEYDKALCPPCKELAKLFSIALEFPKTGVPAEIPFHLH 907

Query: 839  VKEYPDFMEKLDKPTYESHRVIGKLFRAVKDIAPQTSCIKSFTKEIARRSYDRDMEIDGF 660
            VKEYPDFMEK +KPTYES  VIGKLFR VKD+AP    ++SFT+++A +SYD DME+DGF
Sbjct: 908  VKEYPDFMEKANKPTYESQSVIGKLFREVKDVAPHNYDVRSFTRDVAMQSYDADMEVDGF 967

Query: 659  EDYIEDAYYYKGEYDFKLASRMDYYGIKTEAELLGGSVMKMSKAFDKRRDLEGIELAVRS 480
            EDY+ DA+YYK +YDFKL S MD  GI+TE+E+L GS+MKMSK+FDKR+D E I LAVRS
Sbjct: 968  EDYVRDAFYYKSQYDFKLGSLMDCCGIRTESEILSGSIMKMSKSFDKRKDAEAIALAVRS 1027

Query: 479  LKKEVRAWFDEKSSKSGCEADDIYAKASAWYHVTYHPDYWGCYNEGMGKDHFLSFPWCVS 300
            L+KE R WF++  S +   ADD+YA ASAWYHVTYHP YWGCYNEGM  DHFLSFPWCV 
Sbjct: 1028 LRKEARTWFNKMGSGTYAGADDVYAIASAWYHVTYHPYYWGCYNEGMYHDHFLSFPWCVY 1087

Query: 299  DKLIFIKR 276
            DKLI IKR
Sbjct: 1088 DKLIQIKR 1095



 Score =  531 bits (1368), Expect(2) = 0.0
 Identities = 277/479 (57%), Positives = 347/479 (72%)
 Frame = -1

Query: 3604 MSRTIQVSGLPSHVSAQVVKEFLERYAGEGTVFALKIRQSKSKGPNPRAFAVVQFTTTRC 3425
            M +TIQV G+PS+VSA  +KEFLE+Y GEGT+ AL+I+Q KS        A VQFT+ R 
Sbjct: 1    MGKTIQVYGVPSNVSANEIKEFLEKYTGEGTIEALEIKQPKSGVS--MTHAKVQFTSLRL 58

Query: 3424 VETILKSSQCLYYGISRLKVHNMERDIVPKPREMMLSLDVPALHFGCQVSGESFKAFWKR 3245
             E I+  ++ L+YG + LK   M+ DI+PKPR  + S+D   LHFG Q+S E F   WK 
Sbjct: 59   AELIISLAKQLWYGGNYLKAREMDLDIIPKPRTFLHSMDRITLHFGYQMSNERFCVLWKA 118

Query: 3244 ANVVVNFGFGLRKVELLLSHSGVDYKLELFYDSIWQIQLHRPRSRNTKYLVIQVFGAPRI 3065
             NV V FGFGLRK    LSH   +YKLEL  ++IWQIQL  PR +NTK+L+IQ+  AP+I
Sbjct: 119  INVSVKFGFGLRKFYFFLSHGSEEYKLELSCENIWQIQLREPRGQNTKFLLIQLLDAPQI 178

Query: 3064 YEKLTCSSDDIYGDPDLNYFRDTPDDQWVRATDFTTSSCIGQSSAICLELPQSCGLSAVR 2885
            YEK   +         L+YF++TPDDQWVR  DFT S  IGQSSA+CLELP    L    
Sbjct: 179  YEKDVSA---------LSYFKETPDDQWVREIDFTPSCSIGQSSALCLELPHGSQLPNFC 229

Query: 2884 DNFHYYSENEDRFMLESGSPFSQSLELVPIVGPPQGLELPYSVLFKVNSLVQNGCLAGPT 2705
            +NF  Y EN+ +F+LESG+ FS +L LVPIVGPPQG  LP+ +LFK+N+LVQNGCL+GPT
Sbjct: 230  ENFARYKENDRKFILESGASFSGNLHLVPIVGPPQGSNLPFKILFKINTLVQNGCLSGPT 289

Query: 2704 LDIAFFRLVHPQYVPIAHIERALERLCQLKDCCYEPIRWLNEQYLKYRTSKTLIRARSTS 2525
            LD  FFR V PQ + I+ IE ALE+L  L++CCYEP+RWL+EQY  Y  SK +  + + S
Sbjct: 290  LDTNFFRWVDPQRINISFIEHALEKLYYLEECCYEPVRWLHEQYRTY-ISKQVAGSPAIS 348

Query: 2524 LDDGLVYIRRVRVTPSKVYFCEPDVNLSNRVIRHFHEYIDNFIRVSFYDEDWEKMRSTDL 2345
            LD GLVY+RRV++TP KVYFC P+VN+SNRV+R++ E IDNF+RVSF DE+ EK+ ST +
Sbjct: 349  LDTGLVYVRRVQITPCKVYFCGPEVNVSNRVLRNYPEDIDNFLRVSFLDENSEKIHSTVI 408

Query: 2344 SPRATSKNEDRRHTSIYKRILSTLRNGIVIGDKKFEFLAFSSSQLRDNSAWMFASENGL 2168
            SPR +  NE RR T +Y+RILS L+NGIVIGDKKF+FLA SSSQLRDNSAWMFAS  GL
Sbjct: 409  SPRMS--NEGRR-TGVYRRILSILQNGIVIGDKKFDFLAVSSSQLRDNSAWMFASRPGL 464


>gb|ABQ45352.1| RNA-dependent RNA polymerase [Gossypium hirsutum]
          Length = 1110

 Score =  886 bits (2290), Expect(2) = 0.0
 Identities = 428/607 (70%), Positives = 499/607 (82%)
 Frame = -3

Query: 2096 GQSFSSSRETLTVDRHEIEVIPDVEVGSNGKRYVFSDGIGKISVEFARRVAKKCGVNGFT 1917
            GQSFSSS ETL+V + EI +IPD+E+  +G +YVFSDGIGKIS EFA++VA KC + G T
Sbjct: 496  GQSFSSSTETLSVSKDEINLIPDIEIMKDGIKYVFSDGIGKISAEFAKKVAAKCRLKGCT 555

Query: 1916 PSSFQIRYGGYKGVVAVDPTSVMKLSLRKSMSKYISRNTKLDVLSWSKYQPCFLNRQLIS 1737
            PS+FQIR GG+KGVVA+DPTS  KLSLRKSM KY S NTKLDVL+WSKYQPCFLNRQLI+
Sbjct: 556  PSAFQIRIGGFKGVVAIDPTSSWKLSLRKSMEKYESENTKLDVLAWSKYQPCFLNRQLIT 615

Query: 1736 LLSTLGVKDHIFEKKQKEAVDQLDLILTDPSMALEALEVMSPGENVSVLKEMLMCGYKPD 1557
            LLSTLGV D  FEKKQ+E VDQL+ +LTDP  A EALE+MSPGEN ++LKEML+CGYKPD
Sbjct: 616  LLSTLGVPDRAFEKKQREVVDQLNALLTDPLEAQEALELMSPGENTNILKEMLLCGYKPD 675

Query: 1556 IEPFLSMMLQTFRALKLLELRKKTRIFVPNGRAMMGCLDENRMLEYGQVFVQFSHIGPQR 1377
             EPFLSMML+TFRA KLLELR K RIFV  GR+MMGCLDE R L YGQVFVQFS      
Sbjct: 676  AEPFLSMMLETFRASKLLELRTKARIFVQKGRSMMGCLDETRTLNYGQVFVQFS------ 729

Query: 1376 FQGNTPFTTSINKSDQRKSIVKGRVIVAKNPCLHPGDVRVLQAVDIPALHHLVDCVVFPQ 1197
                           +R+ IV+G+VIVAKNPCLHPGDVRVL+AV++P LHH+VDCVVFPQ
Sbjct: 730  -----------GSRSERRFIVQGKVIVAKNPCLHPGDVRVLRAVNVPDLHHMVDCVVFPQ 778

Query: 1196 KGARPHPNECSGSDLDGDIYFVSWDHELIPPRQIDPMDYTPEPTVTLDHDVTIEEVQEYF 1017
            KG RPHPNECSGSDLDGD+YFV WD ELIP +QIDPMDY+P  T  LDH+VTIEE++EYF
Sbjct: 779  KGTRPHPNECSGSDLDGDVYFVCWDPELIPYKQIDPMDYSPASTTKLDHEVTIEEIEEYF 838

Query: 1016 TNYIVNDSLGIIANAHTAFADRELEKAESDACMELARLFSIAVDFPKTGVPAVIPTRLHV 837
            TNYIVNDSLGII+NAHTAFADRE +KA S  C+ELA+LFSIAVDFPKTGVPA IP  L V
Sbjct: 839  TNYIVNDSLGIISNAHTAFADREPDKAMSRPCLELAKLFSIAVDFPKTGVPAEIPQELRV 898

Query: 836  KEYPDFMEKLDKPTYESHRVIGKLFRAVKDIAPQTSCIKSFTKEIARRSYDRDMEIDGFE 657
            KEYPDFMEK DKP+Y+SH VIGKLFR VK++AP    IK  T+E  +R YD DME++GFE
Sbjct: 899  KEYPDFMEKPDKPSYQSHNVIGKLFREVKNLAPNECSIKFLTREKMQRFYDPDMEVEGFE 958

Query: 656  DYIEDAYYYKGEYDFKLASRMDYYGIKTEAELLGGSVMKMSKAFDKRRDLEGIELAVRSL 477
            DYI+DA+++K +YD+KL + MDYYG+KTEAE+LGG +MKMS++F K+RD E I +AVRSL
Sbjct: 959  DYIDDAFFHKSKYDYKLGNLMDYYGVKTEAEILGGGIMKMSRSFTKKRDAEAISMAVRSL 1018

Query: 476  KKEVRAWFDEKSSKSGCEADDIYAKASAWYHVTYHPDYWGCYNEGMGKDHFLSFPWCVSD 297
            +KE R+WF+EK S+   E DD YAKASAWY+VTYHP YWG YNEGM +DHFLSFPWCV D
Sbjct: 1019 RKEARSWFNEKGSELDEEIDDAYAKASAWYYVTYHPSYWGQYNEGMNRDHFLSFPWCVYD 1078

Query: 296  KLIFIKR 276
            KLI IK+
Sbjct: 1079 KLIQIKK 1085



 Score =  540 bits (1390), Expect(2) = 0.0
 Identities = 275/480 (57%), Positives = 349/480 (72%), Gaps = 1/480 (0%)
 Frame = -1

Query: 3604 MSRTIQVSGLPSHVSAQVVKEFLERYAGEGTVFALKIRQSKSKGPNPRAFAVVQFTTTRC 3425
            M +TIQV G  S VSA  VK FLE Y G  TV+ALKIRQ K  G   RAFA+VQFT +  
Sbjct: 1    MGKTIQVYGFLSDVSAGEVKTFLEGYTGRETVYALKIRQHKKSG---RAFAIVQFTRSSD 57

Query: 3424 VETILK-SSQCLYYGISRLKVHNMERDIVPKPREMMLSLDVPALHFGCQVSGESFKAFWK 3248
               I++ ++Q LYYG S LK   ME DIVPKPR  + +++   ++FGCQVS E F   WK
Sbjct: 58   AGLIIRLANQRLYYGRSYLKAREMETDIVPKPRVFLHTMERVTVNFGCQVSEEKFYVLWK 117

Query: 3247 RANVVVNFGFGLRKVELLLSHSGVDYKLELFYDSIWQIQLHRPRSRNTKYLVIQVFGAPR 3068
              NV +NFG G+RK+E LLS+    YKLELFY++IWQI+L  P S+ +K+L+IQ+FGAPR
Sbjct: 118  ADNVTLNFGTGMRKLEFLLSYCSSKYKLELFYENIWQIELRCPHSQTSKHLLIQLFGAPR 177

Query: 3067 IYEKLTCSSDDIYGDPDLNYFRDTPDDQWVRATDFTTSSCIGQSSAICLELPQSCGLSAV 2888
            IYEK   +S+ ++ DP LNYF+D PDDQWVR TDFT S+CIGQSS + LELP +  L   
Sbjct: 178  IYEKEVPASECVFDDPLLNYFKDMPDDQWVRTTDFTRSNCIGQSSVLWLELPHNLQLPNF 237

Query: 2887 RDNFHYYSENEDRFMLESGSPFSQSLELVPIVGPPQGLELPYSVLFKVNSLVQNGCLAGP 2708
            R+NF YY ENE R +LESGS +S +L LVPIV P + ++LP+ +LFKVN LVQNGC+ GP
Sbjct: 238  RENFAYYKENEGRLVLESGSSYSCNLSLVPIVCPSRVIDLPFEILFKVNLLVQNGCIPGP 297

Query: 2707 TLDIAFFRLVHPQYVPIAHIERALERLCQLKDCCYEPIRWLNEQYLKYRTSKTLIRARST 2528
             LD  F+RLV P  +   +I+ ALE+L  L++CCYEP RWL E+Y  +  S+    + + 
Sbjct: 298  ALDDTFYRLVDPCRMHKVYIDHALEKLYYLRECCYEPSRWLFEEYKNFSRSRKYQGSPTI 357

Query: 2527 SLDDGLVYIRRVRVTPSKVYFCEPDVNLSNRVIRHFHEYIDNFIRVSFYDEDWEKMRSTD 2348
            SLD+GLVY+RRV++TPS+VYFC P++N+SNRV+R FH  IDNF+R+SF DE+ EK+ ST+
Sbjct: 358  SLDEGLVYVRRVQITPSRVYFCGPEINVSNRVLRQFHNDIDNFLRISFVDEELEKIHSTN 417

Query: 2347 LSPRATSKNEDRRHTSIYKRILSTLRNGIVIGDKKFEFLAFSSSQLRDNSAWMFASENGL 2168
            +  R        R T IYKRILSTLRNGIVIG+K+FEFLAFSSSQLR+NSAWMFAS  GL
Sbjct: 418  VQARG-------RRTGIYKRILSTLRNGIVIGNKRFEFLAFSSSQLRENSAWMFASRKGL 470


>emb|CAA09697.1| RNA-directed RNA polymerase [Nicotiana tabacum]
          Length = 1116

 Score =  878 bits (2268), Expect(2) = 0.0
 Identities = 436/631 (69%), Positives = 505/631 (80%), Gaps = 1/631 (0%)
 Frame = -3

Query: 2096 GQSFSSSRETLTVDRHEIEVIPDVEVGSNGKRYVFSDGIGKISVEFARRVAKKCGVNGFT 1917
            GQSF SSRETL+V RHE+EVIPDV    +G  Y+FSDGIGKIS +FA RV  KCG+  +T
Sbjct: 492  GQSFGSSRETLSVGRHEVEVIPDVACSLHGTNYIFSDGIGKISADFAHRVTIKCGLQ-YT 550

Query: 1916 PSSFQIRYGGYKGVVAVDPTSVMKLSLRKSMSKYISRNTKLDVLSWSKYQPCFLNRQLIS 1737
            PSSFQIRYGGYKGVVAVDP S MKLSLRKSM KY S N KLDVL WSKYQPC+LNRQL++
Sbjct: 551  PSSFQIRYGGYKGVVAVDPYSSMKLSLRKSMLKYESNNIKLDVLGWSKYQPCYLNRQLVT 610

Query: 1736 LLSTLGVKDHIFEKKQKEAVDQLDLILTDPSMALEALEVMSPGENVSVLKEMLMCGYKPD 1557
            LLSTLGV D + E+KQ EAVDQLD IL D   A EALE+MSPGEN ++LKEML CGY PD
Sbjct: 611  LLSTLGVIDDVLEQKQNEAVDQLDAILHDSLKAQEALELMSPGENTNILKEMLNCGYMPD 670

Query: 1556 IEPFLSMMLQTFRALKLLELRKKTRIFVPNGRAMMGCLDENRMLEYGQVFVQFSHIGPQR 1377
             EPFLSMMLQTFRA KLL+LR +TRIF+PNGR MMGCLDE+R LEYGQVFVQFS  G ++
Sbjct: 671  AEPFLSMMLQTFRASKLLDLRTRTRIFIPNGRTMMGCLDESRTLEYGQVFVQFSGAGRRQ 730

Query: 1376 F-QGNTPFTTSINKSDQRKSIVKGRVIVAKNPCLHPGDVRVLQAVDIPALHHLVDCVVFP 1200
            F + + PF  S   S     I+KG V+VAKNPCLHPGD+RVL+AVD+PALHH+VDCVVFP
Sbjct: 731  FFEESHPFNDS--GSANCDFILKGNVVVAKNPCLHPGDIRVLRAVDVPALHHMVDCVVFP 788

Query: 1199 QKGARPHPNECSGSDLDGDIYFVSWDHELIPPRQIDPMDYTPEPTVTLDHDVTIEEVQEY 1020
            QKG RPHPNECSGSDLDGDIYFV WD +LIPPRQ+  MDYTP PT  LDHDVTIEEV+EY
Sbjct: 789  QKGKRPHPNECSGSDLDGDIYFVCWDPDLIPPRQVQSMDYTPAPTTQLDHDVTIEEVEEY 848

Query: 1019 FTNYIVNDSLGIIANAHTAFADRELEKAESDACMELARLFSIAVDFPKTGVPAVIPTRLH 840
            FTNYI+NDSLGIIANAH  FADRE + A SD C +LA+LFSIAVDFPKTGVPA IP++L 
Sbjct: 849  FTNYIINDSLGIIANAHVVFADREPDMAMSDPCKQLAQLFSIAVDFPKTGVPAEIPSQLR 908

Query: 839  VKEYPDFMEKLDKPTYESHRVIGKLFRAVKDIAPQTSCIKSFTKEIARRSYDRDMEIDGF 660
             KEYPDFMEK DKPTY S +VIGKLF+ VK+  PQ S I +FT+++AR+SYD DM +DGF
Sbjct: 909  PKEYPDFMEKPDKPTYPSEKVIGKLFQKVKNKTPQASSIATFTRDVARKSYDSDMIVDGF 968

Query: 659  EDYIEDAYYYKGEYDFKLASRMDYYGIKTEAELLGGSVMKMSKAFDKRRDLEGIELAVRS 480
            EDYI++A+YYK EYD KL + MDYYGIKTEAE+L G +MK SK FD+R+D E I +AVR 
Sbjct: 969  EDYIDEAFYYKSEYDNKLGNLMDYYGIKTEAEILSGGIMKASKTFDRRKDAEAIGVAVRC 1028

Query: 479  LKKEVRAWFDEKSSKSGCEADDIYAKASAWYHVTYHPDYWGCYNEGMGKDHFLSFPWCVS 300
            L+KE RAWF  +S     + DD+ AKASAWYHVTYH  YWG YNEG+ +DHF+SFPWCV 
Sbjct: 1029 LRKEARAWFKRRS-----DIDDMLAKASAWYHVTYHHTYWGLYNEGLKRDHFISFPWCVY 1083

Query: 299  DKLIFIKRTSNMRERLSEALRLI*ENRNRKL 207
            D+LI IK+ +  R+R    L  +    +RKL
Sbjct: 1084 DQLIQIKK-AKARKRPVPHLSSLGSQLSRKL 1113



 Score =  487 bits (1254), Expect(2) = 0.0
 Identities = 256/482 (53%), Positives = 342/482 (70%), Gaps = 3/482 (0%)
 Frame = -1

Query: 3604 MSRTIQVSGLPSHVSAQVVKEFLERYAGEGTVFALKIRQSKSKGPNPRAFAVVQFTTTRC 3425
            M +TIQV G P  +SA+ VK+FLE + G GTV+AL+++QSK      RAFA VQF   + 
Sbjct: 1    MGKTIQVFGFPYLLSAEAVKKFLENHTGNGTVYALEVKQSKG---GRRAFAKVQFANNKS 57

Query: 3424 VETILK-SSQCLYYGISRLKVHNMERDIVPKPREMMLSLDVPALHFGCQVSGESFKAFWK 3248
             E I+  +S+ LYYG S LK   M+ DIV +PR  +  +D   L+FGCQ+S + F     
Sbjct: 58   AEFIIDLASKGLYYGPSYLKAWEMKTDIV-QPRTYVEHMDGVTLNFGCQISDKKFAVLGS 116

Query: 3247 RANVVVNFGFGLRKVELLLSHSGVDYKLELFYDSIWQIQLHRPRSRNTKYLVIQVFGAPR 3068
            + +V + FG GL+K+   LSH+  DYKL+L Y++IWQ+ LHRP  +N ++L++Q+FGAPR
Sbjct: 117  K-DVSIKFGIGLKKIYFFLSHASADYKLQLSYENIWQVVLHRPYGQNAQFLLLQLFGAPR 175

Query: 3067 IYEKLTCSSDDIYGDPDLNYFRDTPDDQWVRATDFTTSSCIGQSSAICLELPQSCGLSAV 2888
            IY++L    D  Y     ++F++TPDDQWVR TDFT S  IG SS++CLE      L   
Sbjct: 176  IYKRL---EDSCY-----SFFKETPDDQWVRTTDFTPS-WIGLSSSLCLEFRNGVQLPNF 226

Query: 2887 RDNFHYYSENEDRFMLESGSPFS--QSLELVPIVGPPQGLELPYSVLFKVNSLVQNGCLA 2714
             ++F YY E+ ++F+L++G  FS  Q L LVPIV  P+G+ELPY +LFK++SL+Q+GC  
Sbjct: 227  SESFFYYKESMNQFILQTGFTFSFSQKLALVPIVHLPEGIELPYKILFKISSLIQHGCFP 286

Query: 2713 GPTLDIAFFRLVHPQYVPIAHIERALERLCQLKDCCYEPIRWLNEQYLKYRTSKTLIRAR 2534
            G  L+  FF+LV P+   IA IE ALE+L  LK+CCY+P+RWL EQY +Y   + L ++ 
Sbjct: 287  GLALNFNFFQLVDPRRRNIACIEHALEKLYYLKECCYDPVRWLTEQYDEYLKGRQLPKSP 346

Query: 2533 STSLDDGLVYIRRVRVTPSKVYFCEPDVNLSNRVIRHFHEYIDNFIRVSFYDEDWEKMRS 2354
              +LDDGLVY+RRV VTP KVYFC P+VN+SNRV+R++ E I+NF+RVSF DE+WEK+ S
Sbjct: 347  PITLDDGLVYVRRVVVTPCKVYFCGPEVNVSNRVLRNYSEDINNFLRVSFVDEEWEKIHS 406

Query: 2353 TDLSPRATSKNEDRRHTSIYKRILSTLRNGIVIGDKKFEFLAFSSSQLRDNSAWMFASEN 2174
            TDL PRA++ N  R  T IY+RILSTLRNG +IGDK+FEFLAFSSSQLRDNS WMFAS  
Sbjct: 407  TDLLPRASTGNGTR--TDIYERILSTLRNGFIIGDKRFEFLAFSSSQLRDNSVWMFASRP 464

Query: 2173 GL 2168
            GL
Sbjct: 465  GL 466