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= Atropa21_contig00023839
         (1418 letters)

Database: ./nr 
           37,332,560 sequences; 13,225,080,153 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

ref|XP_004230024.1| PREDICTED: LOW QUALITY PROTEIN: DNA-directed...   372   e-100
gb|AAY89359.1| RNA polymerase IV largest subunit [Solanum lycope...   285   3e-74
ref|XP_002303926.2| hypothetical protein POPTR_0003s19630g [Popu...   276   2e-71
emb|CBI40152.3| unnamed protein product [Vitis vinifera]              249   3e-63
ref|XP_002265533.1| PREDICTED: DNA-directed RNA polymerase E sub...   249   3e-63
gb|AAX12374.1| DNA-directed RNA polymerase alpha subunit [Spinac...   247   1e-62
gb|EMJ20080.1| hypothetical protein PRUPE_ppa000088mg [Prunus pe...   242   3e-61
gb|EOY19809.1| DNA-directed RNA polymerase E subunit 1, putative...   238   6e-60
gb|AAY89362.1| RNA polymerase IV largest subunit [Arabidopsis th...   236   1e-59
ref|NP_181532.2| nuclear RNA polymerase D1B [Arabidopsis thalian...   236   1e-59
gb|AAB95289.1| unknown protein [Arabidopsis thaliana]                 236   1e-59
ref|XP_004155767.1| PREDICTED: DNA-directed RNA polymerase E sub...   233   2e-58
ref|XP_004140346.1| PREDICTED: LOW QUALITY PROTEIN: DNA-directed...   233   2e-58
ref|XP_004308588.1| PREDICTED: DNA-directed RNA polymerase E sub...   232   3e-58
ref|XP_003627850.1| Protein DCL [Medicago truncatula] gi|3555218...   231   7e-58
ref|XP_003627838.1| DNA-directed RNA polymerase subunit [Medicag...   231   7e-58
ref|XP_006420718.1| hypothetical protein CICLE_v10004129mg [Citr...   230   1e-57
ref|XP_006470866.1| PREDICTED: DNA-directed RNA polymerase V sub...   229   3e-57
ref|XP_002879839.1| NRPD1b [Arabidopsis lyrata subsp. lyrata] gi...   229   3e-57
ref|XP_006293553.1| hypothetical protein CARUB_v10022497mg [Caps...   227   8e-57

>ref|XP_004230024.1| PREDICTED: LOW QUALITY PROTEIN: DNA-directed RNA polymerase E subunit
            1 [Solanum lycopersicum]
          Length = 1632

 Score =  372 bits (955), Expect = e-100
 Identities = 206/361 (57%), Positives = 232/361 (64%), Gaps = 8/361 (2%)
 Frame = +1

Query: 7    GSSWGQKVD---KDGGSWGKKVETKNSPQLSGKEHSGSWSSWAKPVEKDGGSSWGKKVDE 177
            GS+W +      K GGSW    +T+N  +  G   S SWS+W            GKKVDE
Sbjct: 1319 GSAWEKASSGSVKSGGSWDMAGKTQNGAE-EGVNQSDSWSAW------------GKKVDE 1365

Query: 178  PENNPHXXXXXXXXXXXXX----VEKDSGSWDGPNKSNSESSWGKATKGGGLGSTTAEGN 345
            PENN                   VEKD GSWD P + NSESSWGKA  GGGLGS TAEGN
Sbjct: 1366 PENNRQQSGSGEQSGSWSSWGKKVEKDGGSWDEPKQLNSESSWGKAPNGGGLGSATAEGN 1425

Query: 346  RKLDQSVNDWNASIGRDGQLNESTRDDSTKIGGWNSSTVGGWDSQKVGVEESDKQPQWGQ 525
            ++LDQSVNDW++S+ RDGQ   +T     K   W       W                  
Sbjct: 1426 KRLDQSVNDWSSSVSRDGQKXTNTXXLYKK---WWLEFFKRW------------------ 1464

Query: 526  RRRKSRGDFKENSRGWGSASGEDWKSNRPARSADDSNRGGNFTATRQKMDIFTAEEQEIL 705
                    + E S GW       WK+NRPARSADDSNRGG+FTATRQK+D+FTAEEQEI+
Sbjct: 1465 --------WLELSEGW------QWKNNRPARSADDSNRGGHFTATRQKIDLFTAEEQEII 1510

Query: 706  SDVDPIMLKIRKIMHGTGYNDGDPLSADDQSYVIDTVLNYHPDKAVKIGSGLDYIMVSKH 885
            SDVDPIMLK+R           DPLSADDQSY+IDTVLNYHPDKAVK+G+GLDYI VSKH
Sbjct: 1511 SDVDPIMLKVRS----------DPLSADDQSYIIDTVLNYHPDKAVKMGAGLDYITVSKH 1560

Query: 886  TNFQDTRCFYVVSTDGAKQDFSTRKCLENFIRSKYPDKAETFNGKYFKK-SQPRIPKVAS 1062
            TNFQDTRCFYVVSTDGAKQDFSTRKCLENF+RSKYPDKAETFN KYFKK   PR+PK+AS
Sbjct: 1561 TNFQDTRCFYVVSTDGAKQDFSTRKCLENFVRSKYPDKAETFNEKYFKKPPPPRVPKIAS 1620

Query: 1063 P 1065
            P
Sbjct: 1621 P 1621


>gb|AAY89359.1| RNA polymerase IV largest subunit [Solanum lycopersicum]
          Length = 1127

 Score =  285 bits (730), Expect = 3e-74
 Identities = 167/332 (50%), Positives = 192/332 (57%), Gaps = 17/332 (5%)
 Frame = +1

Query: 7    GSSWGQKVD---KDGGSWGKKVETKNSPQLSGKEHSGSWSSWAKPVEKDGGSSWGKKVDE 177
            GS+W +      K GGSW    +T+N  +  G   S SWSSW            GKKVDE
Sbjct: 870  GSAWEEASSGSVKSGGSWDMAGKTQNGAE-EGVNQSDSWSSW------------GKKVDE 916

Query: 178  PENNPHXXXXXXXXXXXXXVEKDSGSW--------------DGPNKSNSESSWGKATKGG 315
            PENN                 + SGSW              D P + NSESSWGKA  GG
Sbjct: 917  PENNRQQSGSG----------EQSGSWSPWGRRWKKMVVLGDEPKQLNSESSWGKAPNGG 966

Query: 316  GLGSTTAEGNRKLDQSVNDWNASIGRDGQLNESTRDDSTKIGGWNSSTVGGWDSQKVGVE 495
            GLGS TAEGNR+LDQSVNDW++S+ RDGQ  +           W       W        
Sbjct: 967  GLGSATAEGNRRLDQSVNDWSSSVSRDGQYKK-----------WWLEFFKRW-------- 1007

Query: 496  ESDKQPQWGQRRRKSRGDFKENSRGWGSASGEDWKSNRPARSADDSNRGGNFTATRQKMD 675
                              + E S GW       WK+NRPARSADDSNRGG+FTATRQK+D
Sbjct: 1008 ------------------WLELSGGW------QWKNNRPARSADDSNRGGHFTATRQKID 1043

Query: 676  IFTAEEQEILSDVDPIMLKIRKIMHGTGYNDGDPLSADDQSYVIDTVLNYHPDKAVKIGS 855
            +FTAEEQEI+SDVDPIMLK++           DPLSADDQSY+IDTVLNYHPDKAVK+G+
Sbjct: 1044 LFTAEEQEIISDVDPIMLKVK----------SDPLSADDQSYIIDTVLNYHPDKAVKMGA 1093

Query: 856  GLDYIMVSKHTNFQDTRCFYVVSTDGAKQDFS 951
            GLDYI VSKHTNFQDTRCFYVVSTDGAKQ+ +
Sbjct: 1094 GLDYITVSKHTNFQDTRCFYVVSTDGAKQELA 1125


>ref|XP_002303926.2| hypothetical protein POPTR_0003s19630g [Populus trichocarpa]
            gi|550343552|gb|EEE78905.2| hypothetical protein
            POPTR_0003s19630g [Populus trichocarpa]
          Length = 1920

 Score =  276 bits (705), Expect = 2e-71
 Identities = 157/357 (43%), Positives = 209/357 (58%), Gaps = 18/357 (5%)
 Frame = +1

Query: 16   WGQKVDKDGGSWGKKVETKNSPQLSGKEHSGSWSSWAKPVEKDGGSSWGKKVDEPENNPH 195
            WG  V   GG   KK E ++     GKE SG W +     + D  S WGK    P+++  
Sbjct: 1572 WG--VSSSGGGRDKKTENQSLAG-QGKE-SGGWGNKVTSNQADTASGWGK----PKSS-- 1621

Query: 196  XXXXXXXXXXXXXVEKDSGSWDGPNKSNSE-SSWGKATKGGGLGSTTAEGNRKLDQSVND 372
                           ++S  W    +S  E   WG     GG GS T   N   +QS+ +
Sbjct: 1622 ---------------ENSQGWGLSKESGKEVHEWGVPNSAGGNGSETNNNNE--NQSLVE 1664

Query: 373  WNASIGRDGQLNESTRDDSTKIG---------GWNS-----STVGGWD-SQKVGVEESDK 507
                 G D + + +    ++  G         GW S       V GW      G   S +
Sbjct: 1665 QGKESGWDNKASSNQEGTASGWGKPKSPALSEGWGSPREPVKAVHGWGVPNSGGGNGSGR 1724

Query: 508  QPQWGQRRRKSRGDFKENSRGWGSASGEDWKS--NRPARSADDSNRGGNFTATRQKMDIF 681
              QWGQ+ R+ + D  E SRGWGS +G DWK+  NRP++  +D N  G FT TRQ++D+F
Sbjct: 1725 DQQWGQQSREFKKDRFEGSRGWGSNNG-DWKNKRNRPSKPHEDLNASGIFTTTRQRLDVF 1783

Query: 682  TAEEQEILSDVDPIMLKIRKIMHGTGYNDGDPLSADDQSYVIDTVLNYHPDKAVKIGSGL 861
            T++EQ+ILSD++P+ML IR+IMH TGYNDGDPLSADDQSYV+D V +YHPDKAVK+G+G+
Sbjct: 1784 TSQEQDILSDIEPLMLSIRRIMHQTGYNDGDPLSADDQSYVLDNVFHYHPDKAVKMGAGI 1843

Query: 862  DYIMVSKHTNFQDTRCFYVVSTDGAKQDFSTRKCLENFIRSKYPDKAETFNGKYFKK 1032
            D++ VS+H+NFQ++RCFY+VSTDG KQDFS RKCLENFI+ KYPD A+ F  KYF +
Sbjct: 1844 DHVTVSRHSNFQESRCFYIVSTDGCKQDFSYRKCLENFIKGKYPDLADEFIAKYFAR 1900


>emb|CBI40152.3| unnamed protein product [Vitis vinifera]
          Length = 1890

 Score =  249 bits (635), Expect = 3e-63
 Identities = 160/393 (40%), Positives = 205/393 (52%), Gaps = 52/393 (13%)
 Frame = +1

Query: 10   SSWGQKVDK-DGGSWGKKVETKNSPQLSGKEHSGSWS---SWAKPVEKDGGS------SW 159
            S+WG+K+D+ D   W K       PQ+     S  W    +  K  +   G        W
Sbjct: 1471 SAWGKKIDEADKTGWNKN---DGKPQMDKLRESYDWDCKVAQEKTTQSTYGGISSTTGDW 1527

Query: 160  GKKVDEPENNPHXXXXXXXXXXXXXVEKD-------SGSWDGPN---------KSNSESS 291
             K   + E   H             + +D       S  WD            +S SE  
Sbjct: 1528 KKNELQMEVVQHDESPVNEHSWDANLPEDPLAQATTSVGWDSSTGKDWTKRKLQSPSEQQ 1587

Query: 292  WGKATKGGGLGSTTAEGNRKLDQSVNDWNA-------SIGRDGQLNES----TRDDSTKI 438
               A K         +       S + W++        +    Q N+       D S   
Sbjct: 1588 RDPAIKSWSSSHNVMKEQSNQPASTHGWDSPGAKGWNDVEEQSQWNQRGSAVKNDQSESS 1647

Query: 439  GGWNSS-------TVGGWDSQKVGV-EESDKQPQWGQRR-RKSRGDFKENSRGWGSASGE 591
             GW  S       +  GW S   G   ES+ Q QWGQ   +KSR    E SRGWGS + E
Sbjct: 1648 HGWGPSNEQNQLPSSQGWGSPNAGAGHESETQSQWGQPSGKKSR---PEGSRGWGSNNTE 1704

Query: 592  DWKS--NRPARSA----DDSNRGGNFTATRQKMDIFTAEEQEILSDVDPIMLKIRKIMHG 753
             WK+  NRP +      DD + GG FTATRQ++DIFT+EEQ+IL DV+PIM  IR+IMH 
Sbjct: 1705 -WKNKKNRPNKPQGPLNDDYSAGGIFTATRQRVDIFTSEEQDILLDVEPIMQSIRRIMHQ 1763

Query: 754  TGYNDGDPLSADDQSYVIDTVLNYHPDKAVKIGSGLDYIMVSKHTNFQDTRCFYVVSTDG 933
             GYNDGDPLSADDQSY++D V N HPDKAVK+G+G+DY+MVS+H++F ++RCFYVVSTDG
Sbjct: 1764 AGYNDGDPLSADDQSYILDKVFNNHPDKAVKMGTGIDYVMVSRHSSFLESRCFYVVSTDG 1823

Query: 934  AKQDFSTRKCLENFIRSKYPDKAETFNGKYFKK 1032
             K+DFS RKCLENFI+ KYPD AETF GKYF++
Sbjct: 1824 HKEDFSYRKCLENFIKEKYPDNAETFIGKYFRR 1856


>ref|XP_002265533.1| PREDICTED: DNA-directed RNA polymerase E subunit 1 [Vitis vinifera]
          Length = 1830

 Score =  249 bits (635), Expect = 3e-63
 Identities = 160/393 (40%), Positives = 205/393 (52%), Gaps = 52/393 (13%)
 Frame = +1

Query: 10   SSWGQKVDK-DGGSWGKKVETKNSPQLSGKEHSGSWS---SWAKPVEKDGGS------SW 159
            S+WG+K+D+ D   W K       PQ+     S  W    +  K  +   G        W
Sbjct: 1411 SAWGKKIDEADKTGWNKN---DGKPQMDKLRESYDWDCKVAQEKTTQSTYGGISSTTGDW 1467

Query: 160  GKKVDEPENNPHXXXXXXXXXXXXXVEKD-------SGSWDGPN---------KSNSESS 291
             K   + E   H             + +D       S  WD            +S SE  
Sbjct: 1468 KKNELQMEVVQHDESPVNEHSWDANLPEDPLAQATTSVGWDSSTGKDWTKRKLQSPSEQQ 1527

Query: 292  WGKATKGGGLGSTTAEGNRKLDQSVNDWNA-------SIGRDGQLNES----TRDDSTKI 438
               A K         +       S + W++        +    Q N+       D S   
Sbjct: 1528 RDPAIKSWSSSHNVMKEQSNQPASTHGWDSPGAKGWNDVEEQSQWNQRGSAVKNDQSESS 1587

Query: 439  GGWNSS-------TVGGWDSQKVGV-EESDKQPQWGQRR-RKSRGDFKENSRGWGSASGE 591
             GW  S       +  GW S   G   ES+ Q QWGQ   +KSR    E SRGWGS + E
Sbjct: 1588 HGWGPSNEQNQLPSSQGWGSPNAGAGHESETQSQWGQPSGKKSR---PEGSRGWGSNNTE 1644

Query: 592  DWKS--NRPARSA----DDSNRGGNFTATRQKMDIFTAEEQEILSDVDPIMLKIRKIMHG 753
             WK+  NRP +      DD + GG FTATRQ++DIFT+EEQ+IL DV+PIM  IR+IMH 
Sbjct: 1645 -WKNKKNRPNKPQGPLNDDYSAGGIFTATRQRVDIFTSEEQDILLDVEPIMQSIRRIMHQ 1703

Query: 754  TGYNDGDPLSADDQSYVIDTVLNYHPDKAVKIGSGLDYIMVSKHTNFQDTRCFYVVSTDG 933
             GYNDGDPLSADDQSY++D V N HPDKAVK+G+G+DY+MVS+H++F ++RCFYVVSTDG
Sbjct: 1704 AGYNDGDPLSADDQSYILDKVFNNHPDKAVKMGTGIDYVMVSRHSSFLESRCFYVVSTDG 1763

Query: 934  AKQDFSTRKCLENFIRSKYPDKAETFNGKYFKK 1032
             K+DFS RKCLENFI+ KYPD AETF GKYF++
Sbjct: 1764 HKEDFSYRKCLENFIKEKYPDNAETFIGKYFRR 1796


>gb|AAX12374.1| DNA-directed RNA polymerase alpha subunit [Spinacia oleracea]
          Length = 1902

 Score =  247 bits (630), Expect = 1e-62
 Identities = 146/379 (38%), Positives = 207/379 (54%), Gaps = 24/379 (6%)
 Frame = +1

Query: 10   SSWGQKVDKDGGSWGKKVETKNSPQLSGKEHSGSWSSWAKPVEKDGGSSWG-KKVDEPEN 186
            SSW Q+ D    +W    E ++S + +   +SG WS+  K +     SSWG +K D P+ 
Sbjct: 1517 SSWAQQGDS---TWKDSKEARSSVKANNSTNSGGWST-GKALVDGVSSSWGSQKEDRPQP 1572

Query: 187  NPHXXXXXXXXXXXXXVEKDSGSWDGPN-KSNSESSWGKATKGGGLGSTTAE--GNRKLD 357
              +              E+   SWD    +  ++SSWG+ ++      ++A+  G+ K +
Sbjct: 1573 KSNDRSVGDGNFDKDAKEEGLSSWDAKKVERKTQSSWGQPSESKNSAQSSADHWGSDKSN 1632

Query: 358  Q--SVNDWNASIGRDGQLNESTRDDSTKIGGWNSSTVGGW--DSQKVGVEESDKQPQWGQ 525
            Q    + W +     G+       DS K   W  S V  W  +S +      D Q  WGQ
Sbjct: 1633 QPGKSSGWGSEDTNAGK-------DSEKQDSWGKSNVSTWKKESGEKLHGSDDSQSPWGQ 1685

Query: 526  RRRKSRGDFK-ENSRGWGSASGEDWKS------------NRPARSADDSNRGGNFTATRQ 666
                     + E  RGWGS++  +WKS            NRP R  +D +     TATR+
Sbjct: 1686 PGGSGWNKKQPEGGRGWGSSNTGEWKSRKNQNQNQNQNQNRPPRGPNDDSPRVALTATRK 1745

Query: 667  KMDIFTAEEQEILSDVDPIMLKIRKIMHGTGYNDGDPLSADDQSYVIDTVLNYHPDKAVK 846
            +MD F  EE+++LS+V+ +M  IR+IMH +G  DG+PL  DDQ+Y+ID +LNYHPDKA K
Sbjct: 1746 RMDEFPTEEKDVLSEVESLMQSIRRIMHQSGCVDGEPLLPDDQTYLIDNILNYHPDKAAK 1805

Query: 847  IGSGLDYIMVSKHTNFQDTRCFYVVSTDGAKQDFSTRKCLENFIRSKYPDKAETFNGKYF 1026
            IG+G+D+I V KH+NFQ++RCFYVVSTDG   DFS  KC+E F++ KYP  AE+F  KYF
Sbjct: 1806 IGAGVDFITVKKHSNFQESRCFYVVSTDGKDTDFSYIKCIETFVKGKYPSVAESFTSKYF 1865

Query: 1027 KKS---QPRIPKVASPSPT 1074
            ++S   QP  P  ASPSPT
Sbjct: 1866 RRSQRPQPASPSPASPSPT 1884


>gb|EMJ20080.1| hypothetical protein PRUPE_ppa000088mg [Prunus persica]
          Length = 1855

 Score =  242 bits (617), Expect = 3e-61
 Identities = 140/349 (40%), Positives = 196/349 (56%), Gaps = 8/349 (2%)
 Frame = +1

Query: 10   SSWGQKVDKDGGSWGKKVETKNSPQLSGKEHS--GSWSSWA-KPVEKDGGSSWGKKVDEP 180
            S+WG     +    G+ V   +S  LSGK+ S   + S WA     +D  S+WGK     
Sbjct: 1529 STWGTTTASENDWCGRGVGHDDSASLSGKKSSVLNTSSVWATNTAREDATSAWGKN---- 1584

Query: 181  ENNPHXXXXXXXXXXXXXVEKDSGSWDGPNKSNSESSWGKATKGGGLGSTTAEGNRKLDQ 360
                                        P K N+ S+WG         +TTA        
Sbjct: 1585 ----------------------------PAKENTTSTWG---------TTTA-------- 1599

Query: 361  SVNDWNASIGRDGQLNESTRDDSTKIGGWNSSTVGGWDSQKVGVEESDKQPQWGQRRR-K 537
            S NDW    GR+    E      TK    +S+++ GWDS        ++  QWGQ R  +
Sbjct: 1600 SENDW---CGREAGKVEPVDLQPTKPQD-DSASLSGWDSPTGDGNSGERNHQWGQHRGDQ 1655

Query: 538  SRGDFKENSRGWGSASGEDWKSNRPARSA----DDSNRGGNFTATRQKMDIFTAEEQEIL 705
            ++ +  E +R W S+ GE    NRP +S     D+S  G  +T TRQ++D+FT+EEQ++L
Sbjct: 1656 TKKNRFEGARNWVSSPGEWKNKNRPPKSPGMVNDNSTMGALYTVTRQRLDMFTSEEQDVL 1715

Query: 706  SDVDPIMLKIRKIMHGTGYNDGDPLSADDQSYVIDTVLNYHPDKAVKIGSGLDYIMVSKH 885
            S+++P+M  +R+IMH +GYNDGDPLS DDQS+V+D V NYHPDKA K+G G+D++ V++H
Sbjct: 1716 SNIEPVMRSLRRIMHQSGYNDGDPLSGDDQSFVLDNVFNYHPDKAAKMGCGIDHLTVNRH 1775

Query: 886  TNFQDTRCFYVVSTDGAKQDFSTRKCLENFIRSKYPDKAETFNGKYFKK 1032
             +FQD+RCF+VVSTDG  +DFS RKCL+N+IR K+PD AETF GKYF +
Sbjct: 1776 GSFQDSRCFFVVSTDGRTEDFSYRKCLDNYIREKFPDLAETFIGKYFSR 1824


>gb|EOY19809.1| DNA-directed RNA polymerase E subunit 1, putative isoform 1
            [Theobroma cacao] gi|508727913|gb|EOY19810.1|
            DNA-directed RNA polymerase E subunit 1, putative isoform
            1 [Theobroma cacao]
          Length = 1788

 Score =  238 bits (606), Expect = 6e-60
 Identities = 129/284 (45%), Positives = 171/284 (60%), Gaps = 29/284 (10%)
 Frame = +1

Query: 268  NKSNSESSWGKATKGGGLGSTTAEGNRKLDQSVNDWNASI-----GRDGQLNESTRDDST 432
            N +   S   K  K  G  + T+ G    +    D N ++     G    +   T DDS+
Sbjct: 1495 NDTQDVSMEEKTFKSNGADTGTSWGTMGKESEKPDANDALPWSGWGTQDVIPTKTLDDSS 1554

Query: 433  KIGGWNS-------------------STVGGWDSQK-VGVEESDKQPQWGQRRRKSRGDF 552
            K  GW                     ++  GWD+   +G  +S+KQ QWGQ R       
Sbjct: 1555 KSSGWEQQKSPECSQGWGSLDESNQPASSNGWDTPNGLGSTQSEKQHQWGQSR------- 1607

Query: 553  KENSRGWGSASGEDWKSNRPARSA----DDSNRGGNFTATRQKMDIFTAEEQEILSDVDP 720
               SR W S +    K N P +SA    DDS+    +TATRQ++D+FT+EEQ+ILSDV+P
Sbjct: 1608 --GSRRWASDAS---KKNHPVKSARVMNDDSSMAAMYTATRQRLDMFTSEEQDILSDVEP 1662

Query: 721  IMLKIRKIMHGTGYNDGDPLSADDQSYVIDTVLNYHPDKAVKIGSGLDYIMVSKHTNFQD 900
            +M  IRKIMH +GYNDGDPLSA DQS++++ V  +HPDKA+K+G+G+DY+MVSKH+NF D
Sbjct: 1663 LMQSIRKIMHQSGYNDGDPLSALDQSFILENVFTHHPDKAIKMGAGVDYVMVSKHSNFPD 1722

Query: 901  TRCFYVVSTDGAKQDFSTRKCLENFIRSKYPDKAETFNGKYFKK 1032
            +RCFYVVSTDG KQDFS RKCL+NFI+ KYPD A+ F  KYF+K
Sbjct: 1723 SRCFYVVSTDGRKQDFSYRKCLDNFIKGKYPDMADVFIAKYFRK 1766


>gb|AAY89362.1| RNA polymerase IV largest subunit [Arabidopsis thaliana]
          Length = 1976

 Score =  236 bits (603), Expect = 1e-59
 Identities = 144/381 (37%), Positives = 196/381 (51%), Gaps = 39/381 (10%)
 Frame = +1

Query: 16   WGQK---VDKDGGSWGKKVETKNSPQLSGKEHSGSWSSWAKP-VEKDGG----SSWGKKV 171
            W +K    + +G +WG   +TK+         + +W+SW K  +E D       S GKK 
Sbjct: 1484 WNKKSSETESNGATWGSSDKTKSG--------AAAWNSWDKKNIETDSEPAAWGSQGKKN 1535

Query: 172  DEPENNPHXXXXXXXXXXXXXVEKDSGSWDGPNKSNSESSWGKATKGG------------ 315
             E E+ P               E     W   +K NSE+  G A  G             
Sbjct: 1536 SETESGP--AAWGAWDKKKSETEPGPAGWGMGDKKNSETELGPAAMGNWDKKKSDTKSGP 1593

Query: 316  -GLGSTTAEGNRKLDQSVNDWNASIGRDGQLNESTRDDSTKIGGWNSSTVGGWDSQKVGV 492
               GST A      D++ ++  +     G  N+ T +  +  G W S       ++    
Sbjct: 1594 AAWGSTDAAAWGSSDKNNSETESDAAAWGSRNKKTSEIESGAGAWGSWGQPSPTAEDKDT 1653

Query: 493  EESDKQPQWGQRRRKSRG-DFKENSR------------GWGSASGEDWKSNR-----PAR 618
             E D+ P    +  KSR  D KE S+            GW +  G DWK NR     P R
Sbjct: 1654 NEDDRNPWVSLKETKSREKDDKERSQWGNPAKKFPSSGGWSNGGGADWKGNRNHTPRPPR 1713

Query: 619  SADDSNRGGNFTATRQKMDIFTAEEQEILSDVDPIMLKIRKIMHGTGYNDGDPLSADDQS 798
            S D  N    FTATRQ++D FT+EEQE+LSDV+P+M  +RKIMH + Y DGDP+S DD++
Sbjct: 1714 SED--NLAPMFTATRQRLDSFTSEEQELLSDVEPVMRTLRKIMHPSAYPDGDPISDDDKT 1771

Query: 799  YVIDTVLNYHPDKAVKIGSGLDYIMVSKHTNFQDTRCFYVVSTDGAKQDFSTRKCLENFI 978
            +V++ +LN+HP K  K+GSG+D+I V KHT F D+RCF+VVSTDGAKQDFS RK L N++
Sbjct: 1772 FVLEKILNFHPQKETKLGSGVDFITVDKHTIFSDSRCFFVVSTDGAKQDFSYRKSLNNYL 1831

Query: 979  RSKYPDKAETFNGKYFKKSQP 1041
              KYPD+AE F  KYF K +P
Sbjct: 1832 MKKYPDRAEEFIDKYFTKPRP 1852


>ref|NP_181532.2| nuclear RNA polymerase D1B [Arabidopsis thaliana]
            gi|75320513|sp|Q5D869.1|NRPE1_ARATH RecName:
            Full=DNA-directed RNA polymerase V subunit 1; AltName:
            Full=DNA-directed RNA polymerase D subunit 1b;
            Short=AtNRPD1b; Short=Nuclear RNA polymerase D 1b;
            AltName: Full=DNA-directed RNA polymerase E subunit 1;
            Short=Nuclear RNA polymerase E 1; AltName: Full=Protein
            DEFECTIVE IN MERISTEM SILENCING 5; AltName: Full=Protein
            DEFECTIVE IN RNA-DIRECTED DNA METHYLATION 3; AltName:
            Full=Protein RNA-DIRECTED DNA METHYLATION DEFECTIVE 1;
            AltName: Full=RNA polymerase IV subunit 1; Short=POL IV 1
            gi|59939210|gb|AAX12373.1| DNA-directed RNA polymerase
            alpha subunit [Arabidopsis thaliana]
            gi|62822917|gb|AAY15198.1| DNA-dependent RNA polymerase
            large subunit [Arabidopsis thaliana]
            gi|330254673|gb|AEC09767.1| nuclear RNA polymerase D1B
            [Arabidopsis thaliana]
          Length = 1976

 Score =  236 bits (603), Expect = 1e-59
 Identities = 144/381 (37%), Positives = 196/381 (51%), Gaps = 39/381 (10%)
 Frame = +1

Query: 16   WGQK---VDKDGGSWGKKVETKNSPQLSGKEHSGSWSSWAKP-VEKDGG----SSWGKKV 171
            W +K    + +G +WG   +TK+         + +W+SW K  +E D       S GKK 
Sbjct: 1484 WNKKSSETESNGATWGSSDKTKSG--------AAAWNSWDKKNIETDSEPAAWGSQGKKN 1535

Query: 172  DEPENNPHXXXXXXXXXXXXXVEKDSGSWDGPNKSNSESSWGKATKGG------------ 315
             E E+ P               E     W   +K NSE+  G A  G             
Sbjct: 1536 SETESGP--AAWGAWDKKKSETEPGPAGWGMGDKKNSETELGPAAMGNWDKKKSDTKSGP 1593

Query: 316  -GLGSTTAEGNRKLDQSVNDWNASIGRDGQLNESTRDDSTKIGGWNSSTVGGWDSQKVGV 492
               GST A      D++ ++  +     G  N+ T +  +  G W S       ++    
Sbjct: 1594 AAWGSTDAAAWGSSDKNNSETESDAAAWGSRNKKTSEIESGAGAWGSWGQPSPTAEDKDT 1653

Query: 493  EESDKQPQWGQRRRKSRG-DFKENSR------------GWGSASGEDWKSNR-----PAR 618
             E D+ P    +  KSR  D KE S+            GW +  G DWK NR     P R
Sbjct: 1654 NEDDRNPWVSLKETKSREKDDKERSQWGNPAKKFPSSGGWSNGGGADWKGNRNHTPRPPR 1713

Query: 619  SADDSNRGGNFTATRQKMDIFTAEEQEILSDVDPIMLKIRKIMHGTGYNDGDPLSADDQS 798
            S D  N    FTATRQ++D FT+EEQE+LSDV+P+M  +RKIMH + Y DGDP+S DD++
Sbjct: 1714 SED--NLAPMFTATRQRLDSFTSEEQELLSDVEPVMRTLRKIMHPSAYPDGDPISDDDKT 1771

Query: 799  YVIDTVLNYHPDKAVKIGSGLDYIMVSKHTNFQDTRCFYVVSTDGAKQDFSTRKCLENFI 978
            +V++ +LN+HP K  K+GSG+D+I V KHT F D+RCF+VVSTDGAKQDFS RK L N++
Sbjct: 1772 FVLEKILNFHPQKETKLGSGVDFITVDKHTIFSDSRCFFVVSTDGAKQDFSYRKSLNNYL 1831

Query: 979  RSKYPDKAETFNGKYFKKSQP 1041
              KYPD+AE F  KYF K +P
Sbjct: 1832 MKKYPDRAEEFIDKYFTKPRP 1852


>gb|AAB95289.1| unknown protein [Arabidopsis thaliana]
          Length = 839

 Score =  236 bits (603), Expect = 1e-59
 Identities = 144/381 (37%), Positives = 196/381 (51%), Gaps = 39/381 (10%)
 Frame = +1

Query: 16   WGQK---VDKDGGSWGKKVETKNSPQLSGKEHSGSWSSWAKP-VEKDGG----SSWGKKV 171
            W +K    + +G +WG   +TK+         + +W+SW K  +E D       S GKK 
Sbjct: 347  WNKKSSETESNGATWGSSDKTKSG--------AAAWNSWDKKNIETDSEPAAWGSQGKKN 398

Query: 172  DEPENNPHXXXXXXXXXXXXXVEKDSGSWDGPNKSNSESSWGKATKGG------------ 315
             E E+ P               E     W   +K NSE+  G A  G             
Sbjct: 399  SETESGP--AAWGAWDKKKSETEPGPAGWGMGDKKNSETELGPAAMGNWDKKKSDTKSGP 456

Query: 316  -GLGSTTAEGNRKLDQSVNDWNASIGRDGQLNESTRDDSTKIGGWNSSTVGGWDSQKVGV 492
               GST A      D++ ++  +     G  N+ T +  +  G W S       ++    
Sbjct: 457  AAWGSTDAAAWGSSDKNNSETESDAAAWGSRNKKTSEIESGAGAWGSWGQPSPTAEDKDT 516

Query: 493  EESDKQPQWGQRRRKSRG-DFKENSR------------GWGSASGEDWKSNR-----PAR 618
             E D+ P    +  KSR  D KE S+            GW +  G DWK NR     P R
Sbjct: 517  NEDDRNPWVSLKETKSREKDDKERSQWGNPAKKFPSSGGWSNGGGADWKGNRNHTPRPPR 576

Query: 619  SADDSNRGGNFTATRQKMDIFTAEEQEILSDVDPIMLKIRKIMHGTGYNDGDPLSADDQS 798
            S D  N    FTATRQ++D FT+EEQE+LSDV+P+M  +RKIMH + Y DGDP+S DD++
Sbjct: 577  SED--NLAPMFTATRQRLDSFTSEEQELLSDVEPVMRTLRKIMHPSAYPDGDPISDDDKT 634

Query: 799  YVIDTVLNYHPDKAVKIGSGLDYIMVSKHTNFQDTRCFYVVSTDGAKQDFSTRKCLENFI 978
            +V++ +LN+HP K  K+GSG+D+I V KHT F D+RCF+VVSTDGAKQDFS RK L N++
Sbjct: 635  FVLEKILNFHPQKETKLGSGVDFITVDKHTIFSDSRCFFVVSTDGAKQDFSYRKSLNNYL 694

Query: 979  RSKYPDKAETFNGKYFKKSQP 1041
              KYPD+AE F  KYF K +P
Sbjct: 695  MKKYPDRAEEFIDKYFTKPRP 715


>ref|XP_004155767.1| PREDICTED: DNA-directed RNA polymerase E subunit 1-like [Cucumis
            sativus]
          Length = 1959

 Score =  233 bits (593), Expect = 2e-58
 Identities = 142/368 (38%), Positives = 203/368 (55%), Gaps = 13/368 (3%)
 Frame = +1

Query: 4    GGSSWGQKVDKDGGSWGKKVETKNSPQLSGKEHSGSWSSWAKPVEKDGGSSWGKKVDEPE 183
            G  +WGQ+  +D             P L+  E   + S W   +E + GS  G   D+  
Sbjct: 1604 GNDAWGQQKSRD----------VIKPSLANNE--SNLSGWGSQIESNEGSDHG--FDQVT 1649

Query: 184  NNPHXXXXXXXXXXXXXVEKDSGSWDGPNKSNSESSWGKATKGGGLGSTTAEGNRKLDQS 363
            N                 EK    WD      +  SWG  ++   LGS   +  R  ++ 
Sbjct: 1650 NEQKSSDTRGWDSQ----EKTDKPWDKQKSLEASQSWG--SQNDSLGSW-GQPQRASEEC 1702

Query: 364  VNDWNASIGRDGQLNESTRDDSTKIGGWNSSTVGGWDSQKVGVEESDKQPQWGQRRRKSR 543
                     R+ Q + ST+    K       T  GW+ QK      +    WG  +  S 
Sbjct: 1703 --------SRESQDDSSTQFSQLK----PPETSLGWEQQK----SPEVSHGWGSHKESSE 1746

Query: 544  -----GDFKEN--SRGWGSASGEDWKS--NRPARSA----DDSNRGGNFTATRQKMDIFT 684
                 G  K+N  S+GWG  +GE WK+  NRP +S     DD+N    +TA+ Q++D+FT
Sbjct: 1747 QTSSHGWDKKNQGSKGWGGNAGE-WKNRKNRPPKSPGMSNDDANLRALYTASGQRLDMFT 1805

Query: 685  AEEQEILSDVDPIMLKIRKIMHGTGYNDGDPLSADDQSYVIDTVLNYHPDKAVKIGSGLD 864
            +EEQ+IL+D++PIM  IRK+MH +GYNDGDPLSA+DQS+V+ +V N+HPDKA K+G+G+D
Sbjct: 1806 SEEQDILADIEPIMQSIRKVMHQSGYNDGDPLSAEDQSFVLQSVFNFHPDKAAKMGAGID 1865

Query: 865  YIMVSKHTNFQDTRCFYVVSTDGAKQDFSTRKCLENFIRSKYPDKAETFNGKYFKKSQPR 1044
            + MVS+H++FQ++RCFYVV+TDG K+DFS RKCL+NFI+ KYPD AE F  KYF+K +P 
Sbjct: 1866 HFMVSRHSSFQESRCFYVVTTDGHKEDFSYRKCLDNFIKGKYPDLAEMFVAKYFRKPRPN 1925

Query: 1045 IPKVASPS 1068
              +  +P+
Sbjct: 1926 RNRDRNPA 1933


>ref|XP_004140346.1| PREDICTED: LOW QUALITY PROTEIN: DNA-directed RNA polymerase E subunit
            1-like [Cucumis sativus]
          Length = 2019

 Score =  233 bits (593), Expect = 2e-58
 Identities = 142/368 (38%), Positives = 203/368 (55%), Gaps = 13/368 (3%)
 Frame = +1

Query: 4    GGSSWGQKVDKDGGSWGKKVETKNSPQLSGKEHSGSWSSWAKPVEKDGGSSWGKKVDEPE 183
            G  +WGQ+  +D             P L+  E   + S W   +E + GS  G   D+  
Sbjct: 1664 GNDAWGQQKSRD----------VIKPSLANNE--SNLSGWGSQIESNEGSDHG--FDQVT 1709

Query: 184  NNPHXXXXXXXXXXXXXVEKDSGSWDGPNKSNSESSWGKATKGGGLGSTTAEGNRKLDQS 363
            N                 EK    WD      +  SWG  ++   LGS   +  R  ++ 
Sbjct: 1710 NEQKSSDTRGWDSQ----EKTDKPWDKQKSLEASQSWG--SQNDSLGSW-GQPQRASEEC 1762

Query: 364  VNDWNASIGRDGQLNESTRDDSTKIGGWNSSTVGGWDSQKVGVEESDKQPQWGQRRRKSR 543
                     R+ Q + ST+    K       T  GW+ QK      +    WG  +  S 
Sbjct: 1763 --------SRESQDDSSTQFSQLK----PPETSLGWEQQK----SPEVSHGWGSNKESSE 1806

Query: 544  -----GDFKEN--SRGWGSASGEDWKS--NRPARSA----DDSNRGGNFTATRQKMDIFT 684
                 G  K+N  S+GWG  +GE WK+  NRP +S     DD+N    +TA+ Q++D+FT
Sbjct: 1807 QTSSHGWDKKNQGSKGWGGNAGE-WKNRKNRPPKSPGMSNDDANLRALYTASGQRLDMFT 1865

Query: 685  AEEQEILSDVDPIMLKIRKIMHGTGYNDGDPLSADDQSYVIDTVLNYHPDKAVKIGSGLD 864
            +EEQ+IL+D++PIM  IRK+MH +GYNDGDPLSA+DQS+V+ +V N+HPDKA K+G+G+D
Sbjct: 1866 SEEQDILADIEPIMQSIRKVMHQSGYNDGDPLSAEDQSFVLQSVFNFHPDKAAKMGAGID 1925

Query: 865  YIMVSKHTNFQDTRCFYVVSTDGAKQDFSTRKCLENFIRSKYPDKAETFNGKYFKKSQPR 1044
            + MVS+H++FQ++RCFYVV+TDG K+DFS RKCL+NFI+ KYPD AE F  KYF+K +P 
Sbjct: 1926 HFMVSRHSSFQESRCFYVVTTDGHKEDFSYRKCLDNFIKGKYPDLAEMFVAKYFRKPRPN 1985

Query: 1045 IPKVASPS 1068
              +  +P+
Sbjct: 1986 RNRDRNPA 1993


>ref|XP_004308588.1| PREDICTED: DNA-directed RNA polymerase E subunit 1-like [Fragaria
            vesca subsp. vesca]
          Length = 1991

 Score =  232 bits (591), Expect = 3e-58
 Identities = 141/409 (34%), Positives = 209/409 (51%), Gaps = 55/409 (13%)
 Frame = +1

Query: 10   SSWGQKVDKDGGSW----GKKVETKNSPQLSGKEHSGSWSSWA----KPVEKDGGSSWGK 165
            S+W    + + G W    G KVE+ +       E+   W+ ++    KP  ++ GS WG 
Sbjct: 1579 STWRTSTESENG-WSGRGGSKVESTDVQSQKAVENPKGWNDFSAGVRKPQTENAGSGWGM 1637

Query: 166  K---------VDEPENNPHXXXXXXXXXXXXXV-------EKDSGSWDGPNKSN-SESSW 294
            K         +++ E+  H                     +   G+W+ P  +  S  +W
Sbjct: 1638 KGSEKKGDIELEQDESTRHSWKQKSADASSQGAWERQKSPDTSKGTWEQPKSAEMSHGAW 1697

Query: 295  GKATKGG------GL---GSTTAEGNRKLDQSVN----DWNASIGRDGQLNESTRDDSTK 435
            G+           GL    ST ++G+    +S      +W      D       +  S +
Sbjct: 1698 GQQKSPDVSQGVWGLEKPASTNSQGSWGQQKSPEIPQGNWGQQTSPDISQGTWGQQKSPE 1757

Query: 436  I--GGWNS---------STVGGWDSQKVGVEESDKQPQWGQRRRKSRGDFKENSRGWGSA 582
            +  G W           +TV  WDSQ     E  +  QWG     ++    E  R WG  
Sbjct: 1758 MSQGSWGQQKPSDTSQPATVNQWDSQSEAAVE--RHQQWGHNGDSNKRKRFEGGRSWGPN 1815

Query: 583  SGEDWK--SNRPARSA----DDSNRGGNFTATRQKMDIFTAEEQEILSDVDPIMLKIRKI 744
            +GE WK  ++RPA+S     DDS+    +TATRQ++DIFT+EEQ++LS ++P ML IR+I
Sbjct: 1816 AGE-WKGKNSRPAKSPGMVNDDSSVAAIYTATRQRLDIFTSEEQDVLSHIEPTMLSIRRI 1874

Query: 745  MHGTGYNDGDPLSADDQSYVIDTVLNYHPDKAVKIGSGLDYIMVSKHTNFQDTRCFYVVS 924
            MH +GYNDGD LSA+D S+++D V N+HP+K  K+GSG+DY  V +H +FQ++RC +V+S
Sbjct: 1875 MHQSGYNDGDQLSAEDHSFILDKVFNFHPEKEAKMGSGIDYFTVDRHGSFQESRCLFVIS 1934

Query: 925  TDGAKQDFSTRKCLENFIRSKYPDKAETFNGKYFKKSQPRIPKVASPSP 1071
            TDG K+DFS RKCL+N I+ KYP+ AE FN KYF + +PR P      P
Sbjct: 1935 TDGRKEDFSYRKCLQNMIKEKYPELAEAFNDKYFSRPRPRNPMFGQTPP 1983


>ref|XP_003627850.1| Protein DCL [Medicago truncatula] gi|355521872|gb|AET02326.1| Protein
            DCL [Medicago truncatula]
          Length = 481

 Score =  231 bits (588), Expect = 7e-58
 Identities = 149/374 (39%), Positives = 206/374 (55%), Gaps = 20/374 (5%)
 Frame = +1

Query: 10   SSWGQ---KVDKDGGSWG-KKVETKNSPQLSGKEHSGSWS--------SWAKPVEKDGGS 153
            S+WG    K + +  SWG KK E    P+ S +  S +W         SW   V     S
Sbjct: 82   SAWGATKPKSNDNRSSWGQKKDEIHVMPEDSSR--SNAWEQKPENVKDSWVAKVPV-ANS 138

Query: 154  SWGKKVDEPENNPHXXXXXXXXXXXXXVEKDSGSWDGPNKSNSESSWGKATKGGGLGSTT 333
            SWGK    PEN P                +++  WD  +K+ S+SSWGK           
Sbjct: 139  SWGK-AKSPENRPWDSKNEPNNSFGKPNSQENEPWD--SKNESDSSWGKPK--------- 186

Query: 334  AEGNRKLDQSVNDWNASIGRDGQLNESTRDDSTKIGGWNSSTVG--GWDSQKVGVE-ESD 504
            ++ ++  D S N+ N+S G+         D   +    ++ T G  GWDSQ      ESD
Sbjct: 187  SQESQPWD-SKNESNSSWGKPKSQENHPWDSKNE----SNQTAGSRGWDSQVASANSESD 241

Query: 505  KQPQWGQRRRKSRGDFKENSRGWGSASGE----DWKS-NRPARSADDSNRGGNFTATRQK 669
            K  QWG++ R S   FK+N R  GS SG     DWK+ +RP R               Q+
Sbjct: 242  KSFQWGKQGRDS---FKKN-RFEGSQSGGPNAGDWKNRSRPVRPPG------------QR 285

Query: 670  MDIFTAEEQEILSDVDPIMLKIRKIMHGTGYNDGDPLSADDQSYVIDTVLNYHPDKAVKI 849
             +++T EEQ+I+ D++PI+  IR+IM   GYNDGDPL+ +DQ YV++ V  +HPDK  K+
Sbjct: 286  FELYTPEEQDIMKDIEPIVQSIRRIMQLQGYNDGDPLANEDQKYVLENVFEHHPDKETKM 345

Query: 850  GSGLDYIMVSKHTNFQDTRCFYVVSTDGAKQDFSTRKCLENFIRSKYPDKAETFNGKYFK 1029
            G G+D++MVSKH+NFQD+RC YVV  DG K+DFS RKCLEN +R KYP+ AE+F GKYF+
Sbjct: 346  GVGVDHVMVSKHSNFQDSRCLYVVLKDGKKEDFSYRKCLENLVRKKYPETAESFCGKYFR 405

Query: 1030 KSQPRIPKVASPSP 1071
            K QPR+ +  +P+P
Sbjct: 406  KPQPRVKRDQTPNP 419


>ref|XP_003627838.1| DNA-directed RNA polymerase subunit [Medicago truncatula]
            gi|355521860|gb|AET02314.1| DNA-directed RNA polymerase
            subunit [Medicago truncatula]
          Length = 2032

 Score =  231 bits (588), Expect = 7e-58
 Identities = 149/374 (39%), Positives = 206/374 (55%), Gaps = 20/374 (5%)
 Frame = +1

Query: 10   SSWGQ---KVDKDGGSWG-KKVETKNSPQLSGKEHSGSWS--------SWAKPVEKDGGS 153
            S+WG    K + +  SWG KK E    P+ S +  S +W         SW   V     S
Sbjct: 1633 SAWGATKPKSNDNRSSWGQKKDEIHVMPEDSSR--SNAWEQKPENVKDSWVAKVPV-ANS 1689

Query: 154  SWGKKVDEPENNPHXXXXXXXXXXXXXVEKDSGSWDGPNKSNSESSWGKATKGGGLGSTT 333
            SWGK    PEN P                +++  WD  +K+ S+SSWGK           
Sbjct: 1690 SWGK-AKSPENRPWDSKNEPNNSFGKPNSQENEPWD--SKNESDSSWGKPK--------- 1737

Query: 334  AEGNRKLDQSVNDWNASIGRDGQLNESTRDDSTKIGGWNSSTVG--GWDSQKVGVE-ESD 504
            ++ ++  D S N+ N+S G+         D   +    ++ T G  GWDSQ      ESD
Sbjct: 1738 SQESQPWD-SKNESNSSWGKPKSQENHPWDSKNE----SNQTAGSRGWDSQVASANSESD 1792

Query: 505  KQPQWGQRRRKSRGDFKENSRGWGSASGE----DWKS-NRPARSADDSNRGGNFTATRQK 669
            K  QWG++ R S   FK+N R  GS SG     DWK+ +RP R               Q+
Sbjct: 1793 KSFQWGKQGRDS---FKKN-RFEGSQSGGPNAGDWKNRSRPVRPPG------------QR 1836

Query: 670  MDIFTAEEQEILSDVDPIMLKIRKIMHGTGYNDGDPLSADDQSYVIDTVLNYHPDKAVKI 849
             +++T EEQ+I+ D++PI+  IR+IM   GYNDGDPL+ +DQ YV++ V  +HPDK  K+
Sbjct: 1837 FELYTPEEQDIMKDIEPIVQSIRRIMQLQGYNDGDPLANEDQKYVLENVFEHHPDKETKM 1896

Query: 850  GSGLDYIMVSKHTNFQDTRCFYVVSTDGAKQDFSTRKCLENFIRSKYPDKAETFNGKYFK 1029
            G G+D++MVSKH+NFQD+RC YVV  DG K+DFS RKCLEN +R KYP+ AE+F GKYF+
Sbjct: 1897 GVGVDHVMVSKHSNFQDSRCLYVVLKDGKKEDFSYRKCLENLVRKKYPETAESFCGKYFR 1956

Query: 1030 KSQPRIPKVASPSP 1071
            K QPR+ +  +P+P
Sbjct: 1957 KPQPRVKRDQTPNP 1970


>ref|XP_006420718.1| hypothetical protein CICLE_v10004129mg [Citrus clementina]
            gi|557522591|gb|ESR33958.1| hypothetical protein
            CICLE_v10004129mg [Citrus clementina]
          Length = 1867

 Score =  230 bits (586), Expect = 1e-57
 Identities = 151/378 (39%), Positives = 204/378 (53%), Gaps = 29/378 (7%)
 Frame = +1

Query: 10   SSWGQKVDKDGG--SWGKKVETKNSPQLSGKEHSGSWSSWAKPVEKDGGSS-------WG 162
            S W +  D      SWG+    +NS    G +   SW++ A     D GS+       WG
Sbjct: 1522 SDWSEWKDHANATASWGRNGSEENS----GWDTKASWNTKALDKLDDVGSAVENSSSVWG 1577

Query: 163  KKVD------EPENNPHXXXXXXXXXXXXXVEKDSGSWDGPN-KSNSESSWGKATKGGGL 321
             + D      E  + P              +    G W+ P+ K   +SSWGK       
Sbjct: 1578 AREDFSTKGWEDSSKPSANEKS--------IVHQIGGWNVPDAKGTDDSSWGK------- 1622

Query: 322  GSTTAEGNRKLDQSVNDWNASIGRDGQLNESTRDDSTKIGGWNSSTVGGWD-SQKVGVEE 498
                 E  +  D S   W      +   NES++  S+            WD     G  E
Sbjct: 1623 -QKLTENAKGTDDS--SWGKQKHTE---NESSQPASSN----------AWDLPDATGGSE 1666

Query: 499  SDKQPQWGQRRRKSRGDFKENSRGWGSASGEDWKS--NRPARSA----DDSNRGGNFTAT 660
            ++ Q  WGQ R++    FK+N RGW S+SGE WK   NRP RS     DDS     +T T
Sbjct: 1667 TEMQV-WGQSRKEP---FKKN-RGWASSSGE-WKGKKNRPPRSPGVVNDDSTVNAMYTVT 1720

Query: 661  RQKMDIFTAEEQEILSDVDPIMLKIRKIMHGTGYNDGDPLSADDQSYVIDTVLNYHPDKA 840
            RQ++D+FT+EEQ+ILSDV+PIM  IR+IMH +GYNDGD LSADD+S++ D V NYHPDKA
Sbjct: 1721 RQRLDMFTSEEQDILSDVEPIMRSIRRIMHQSGYNDGDRLSADDKSFIFDNVFNYHPDKA 1780

Query: 841  VKIGSGLDYIMVSKHTNFQDTRCFYVVSTDGAKQDFSTRKCLENFIRSKYPDKAETFNGK 1020
            +K+G+G+D+  V KH +FQD+RC +VVSTDG++QDFS RKCLE+FIR KYP+  + F GK
Sbjct: 1781 MKMGAGIDHFKVDKHGSFQDSRCLFVVSTDGSQQDFSYRKCLESFIRGKYPEFVDEFIGK 1840

Query: 1021 YFKK------SQPRIPKV 1056
            YF++       +P +P V
Sbjct: 1841 YFRRPRSGGNREPSLPPV 1858


>ref|XP_006470866.1| PREDICTED: DNA-directed RNA polymerase V subunit 1-like [Citrus
            sinensis]
          Length = 1865

 Score =  229 bits (583), Expect = 3e-57
 Identities = 156/392 (39%), Positives = 211/392 (53%), Gaps = 43/392 (10%)
 Frame = +1

Query: 10   SSWGQKV--DKDGGSWGKKVETKNSPQLSG-------KEHSGSWSSWAKPVEKDGGSSWG 162
            S+WG +   DK      +KV       LSG          S  WS W      +  +SWG
Sbjct: 1479 SAWGTEASWDKSSEVTLEKVAAPAENPLSGWGTEAQDSGKSSDWSEWKD--HANATASWG 1536

Query: 163  KKVDEPENNPHXXXXXXXXXXXXXVEKDSGSWDGPNKSNSESSWGK----ATKGGGLGST 330
            +   E EN+               ++ D GS       NS S WG     +TKG    S 
Sbjct: 1537 RNGSE-ENSGWDTKASWKTKALDKLD-DVGS----AVENSSSVWGAREDFSTKGWEDSSK 1590

Query: 331  TAEGNRKLDQSVNDWNA--SIGRDG------QLNESTR--DDS-------TKIGGWNSST 459
             +   + +   +  WN   + G D       +L E+ +  DDS       T+      ++
Sbjct: 1591 PSANEKSIVHQIGGWNVPDAKGTDDSCWGKQKLTENAKGTDDSSWGKQKHTENESPQPAS 1650

Query: 460  VGGWD-SQKVGVEESDKQPQWGQRRRKSRGDFKENSRGWGSASGEDWKS--NRPARSA-- 624
               WD     G  E++ Q  WGQ R++    FK+N RGW S+SGE WK   NRP RS   
Sbjct: 1651 SNAWDLPDATGGSETEMQV-WGQSRKEP---FKKN-RGWASSSGE-WKGKKNRPPRSPGV 1704

Query: 625  --DDSNRGGNFTATRQKMDIFTAEEQEILSDVDPIMLKIRKIMHGTGYNDGDPLSADDQS 798
              DDS     +T TRQ++D+FT+EEQ+ILS V+PIM  IR+IMH +GYNDGD LSADD+S
Sbjct: 1705 VNDDSTVNAMYTVTRQRLDMFTSEEQDILSHVEPIMRSIRRIMHQSGYNDGDRLSADDKS 1764

Query: 799  YVIDTVLNYHPDKAVKIGSGLDYIMVSKHTNFQDTRCFYVVSTDGAKQDFSTRKCLENFI 978
            ++ D V NYHPDKA+K+G+G+D+  V KH +FQD+RC +VVSTDG++QDFS RKCLE+FI
Sbjct: 1765 FIFDNVFNYHPDKAMKMGAGIDHFKVDKHGSFQDSRCLFVVSTDGSQQDFSYRKCLESFI 1824

Query: 979  RSKYPDKAETFNGKYFKK------SQPRIPKV 1056
            R KYPD  + F GKYF++       +P +P V
Sbjct: 1825 RGKYPDLVDEFIGKYFRRPRSGGNREPSLPPV 1856


>ref|XP_002879839.1| NRPD1b [Arabidopsis lyrata subsp. lyrata] gi|297325678|gb|EFH56098.1|
            NRPD1b [Arabidopsis lyrata subsp. lyrata]
          Length = 1947

 Score =  229 bits (583), Expect = 3e-57
 Identities = 146/369 (39%), Positives = 198/369 (53%), Gaps = 25/369 (6%)
 Frame = +1

Query: 10   SSWGQK---VDKDGGSWGKKVETKNSPQL-SGKEHSGSWSSWAKPVEKDGGSSWG---KK 168
            SSW +K    D +  +WG   ++KN P+  SG    G+W +  K   + G + WG   KK
Sbjct: 1512 SSWDKKNMETDSEPAAWGS--QSKNKPETESGPSTWGAWDT-KKSETESGPAGWGIVDKK 1568

Query: 169  VDEPENNPHXXXXXXXXXXXXXVEKDSGSWDGPNKSNSESSWGKATKGGGLGSTTAEGNR 348
              E E+ P                   G+WD   KSN+ES  G A  G    +     ++
Sbjct: 1569 NSETESGPAAM----------------GNWD-KKKSNTES--GPAAWGSTDAAVWGFSDK 1609

Query: 349  KLDQSVNDWNASIGRDGQLNESTRDDSTKIGGWNSSTVGGWDSQKVGVEESDKQPQWGQR 528
               ++ +D  A   RD + +E T   +   G W   T    +       E D+ P    +
Sbjct: 1610 NNSETESDAAAWGSRDKKTSE-TESGAAAWGSWGQPTPTAANED---ANEDDENPWVSLK 1665

Query: 529  RRKSRG-DFKE------------NSRGWGSASGEDWKSNR-----PARSADDSNRGGNFT 654
              KSR  D KE            +S GW +  G DWK  R     P RS D  N    FT
Sbjct: 1666 ETKSRDKDDKERIQWGNPAKKFPSSGGWSNGGGADWKGKRNHTPRPPRSED--NLAPMFT 1723

Query: 655  ATRQKMDIFTAEEQEILSDVDPIMLKIRKIMHGTGYNDGDPLSADDQSYVIDTVLNYHPD 834
            ATRQ++D FT+EEQE+LSDV+P+M  +RKIMH + Y DGDP+S DD+++V++ +LN+HP 
Sbjct: 1724 ATRQRLDSFTSEEQELLSDVEPVMRTLRKIMHPSAYPDGDPISDDDKTFVLEKILNFHPQ 1783

Query: 835  KAVKIGSGLDYIMVSKHTNFQDTRCFYVVSTDGAKQDFSTRKCLENFIRSKYPDKAETFN 1014
            K  K+GSG+D+I V KHT F D+RCF+VVSTDGAKQDFS RK L N++  KYPD+AE F 
Sbjct: 1784 KETKLGSGVDFITVDKHTIFSDSRCFFVVSTDGAKQDFSYRKSLNNYLMMKYPDRAEEFI 1843

Query: 1015 GKYFKKSQP 1041
             KYF K +P
Sbjct: 1844 DKYFTKPRP 1852


>ref|XP_006293553.1| hypothetical protein CARUB_v10022497mg [Capsella rubella]
            gi|482562261|gb|EOA26451.1| hypothetical protein
            CARUB_v10022497mg [Capsella rubella]
          Length = 1959

 Score =  227 bits (579), Expect = 8e-57
 Identities = 138/405 (34%), Positives = 199/405 (49%), Gaps = 62/405 (15%)
 Frame = +1

Query: 13   SWGQ------KVDKDGGSWGKKVETKNSPQLSGKEHSGSWSSWAKPVEKDGG-------- 150
            +WG       + + D  +WG + + +NS   SG    G W+  +   E D          
Sbjct: 1446 AWGSSNKKNSETESDAAAWGSR-DKRNSDIGSGAGVLGPWNKKSSETESDAAAWGSSGKT 1504

Query: 151  -------SSWGKKVDEPENNPHXXXXXXXXXXXXXVEKDSGSWDGPNKSNS-ESSWGKAT 306
                   S W K   EP++ P               E +  SW    K+ S  ++WG   
Sbjct: 1505 KSDAATWSPWDKNNMEPDSEPAGWGSQGNMKSETETESNGASWGSSGKTKSGAAAWGSCD 1564

Query: 307  KG-----------GGLGSTTAEGNR------KLDQSVNDWNASI---GRDGQLNESTRDD 426
            K            G  G   AE           D+ +++  + +   G   ++N  T   
Sbjct: 1565 KNNMETNSEPSAWGSQGKKKAETESGPASWGAWDKKISETESGLAGWGNGDKINSETESG 1624

Query: 427  STKIGGWN--SSTVGGWDSQ-------------KVGVEESDKQPQWGQRRRKSRGDFKEN 561
            +   G W   S T    D+              K G ++  ++ QWG   +K   D    
Sbjct: 1625 AAAWGSWGQPSPTAADKDTNEDDGNPWVSLKETKSGEKDEKEKSQWGNPAKKFPSDGSYG 1684

Query: 562  SRGWGSASGEDWKSNR-----PARSADDSNRGGNFTATRQKMDIFTAEEQEILSDVDPIM 726
              GW +  G +W+  R     P RS D  N    FTAT+Q++D FT+EEQE+LSDV+P+M
Sbjct: 1685 --GWSNGGGAEWRGKRNHTPRPPRSED--NLAPMFTATKQRLDSFTSEEQELLSDVEPVM 1740

Query: 727  LKIRKIMHGTGYNDGDPLSADDQSYVIDTVLNYHPDKAVKIGSGLDYIMVSKHTNFQDTR 906
              +RKIMH +GY DG+P+S DD+++V++ +LN+HP+K  K+GS +D+I V KHT F DTR
Sbjct: 1741 RTLRKIMHMSGYPDGEPISDDDKTFVLEKILNFHPEKERKLGSAVDFITVDKHTTFTDTR 1800

Query: 907  CFYVVSTDGAKQDFSTRKCLENFIRSKYPDKAETFNGKYFKKSQP 1041
            CF+VVSTDGAKQDFS RK L N++ +KYPD+AE F  KYFKK +P
Sbjct: 1801 CFFVVSTDGAKQDFSYRKSLNNYLMTKYPDRAEEFIDKYFKKPRP 1845