BLASTX 2.2.26 [Sep-21-2011]


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= Rehmannia29_contig00031692
         (2146 letters)

Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF excluding environmental samples
from WGS projects 
           149,584,005 sequences; 54,822,741,787 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gb|PNX71533.1| ribonuclease H [Trifolium pratense]                    404   e-126
gb|PNY02790.1| ribonuclease H, partial [Trifolium pratense]           397   e-122
gb|PNX98065.1| ribonuclease H [Trifolium pratense]                    397   e-122
gb|PNY02482.1| ribonuclease H, partial [Trifolium pratense]           397   e-121
gb|PNY15111.1| ribonuclease H [Trifolium pratense]                    400   e-120
gb|PNY16580.1| ribonuclease H, partial [Trifolium pratense]           390   e-120
gb|PNX72264.1| ribonuclease H [Trifolium pratense]                    387   e-119
gb|PNX80752.1| ribonuclease H, partial [Trifolium pratense]           381   e-119
gb|PNY01158.1| ribonuclease H, partial [Trifolium pratense]           391   e-119
gb|PNX95041.1| ribonuclease H, partial [Trifolium pratense]           394   e-118
gb|EEE50824.1| hypothetical protein OsJ_31232 [Oryza sativa Japo...   390   e-115
dbj|GAU39028.1| hypothetical protein TSUD_59840 [Trifolium subte...   390   e-115
ref|XP_015619246.1| PREDICTED: uncharacterized protein LOC107279...   389   e-115
gb|ABA98491.1| retrotransposon protein, putative, unclassified [...   389   e-115
gb|PNX71213.1| ribonuclease H [Trifolium pratense]                    376   e-114
gb|AAP53315.2| retrotransposon protein, putative, unclassified [...   386   e-114
gb|AAM18736.1|AC092548_14 putative reverse transcriptase [Oryza ...   386   e-114
gb|PNX71244.1| ribonuclease H, partial [Trifolium pratense]           375   e-114
dbj|GAU41525.1| hypothetical protein TSUD_140560 [Trifolium subt...   386   e-114
gb|PNY14301.1| ribonuclease H [Trifolium pratense]                    379   e-113

>gb|PNX71533.1| ribonuclease H [Trifolium pratense]
          Length = 798

 Score =  404 bits (1038), Expect = e-126
 Identities = 243/715 (33%), Positives = 366/715 (51%), Gaps = 10/715 (1%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I +CI        +NGQ S    P RG+RQGDPLSPYLFIL ++VLS LI ++ K     
Sbjct: 36   ILRCISSVSYQILINGQPSASFRPERGLRQGDPLSPYLFILCADVLSGLIHKAAKTKEIH 95

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            GIK+ R+ P L+HLFFADDS++F  AS  +   +  ILD + +ASGQ +NLDKS   FS+
Sbjct: 96   GIKVARSAPQLSHLFFADDSLLFTRASSHETSKILNILDTYQQASGQVVNLDKSEASFSR 155

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
            NV    K+ IC ++     + Q+RYLG P+  G+SKK +F FV++ V K+V  W   FLS
Sbjct: 156  NVRINDKDMICNMMGAKAVEAQSRYLGFPIPFGRSKKVVFSFVMDRVWKKVKGWKERFLS 215

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AGKE L+KAV  A+PNY++SC+K+PV  CK+I  + +KFWWG S    +KI W++W ++
Sbjct: 216  RAGKETLIKAVAQAIPNYILSCYKMPVGCCKDIDSMLAKFWWG-SKDESRKIHWMSWQKL 274

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
            +  K  GG+GF+ +  FN AL+ KQ WRL++  + L+ K+ K+KY+  G  ++ K     
Sbjct: 275  SKAKLDGGMGFRGMEDFNKALLGKQCWRLVTGESSLLEKIFKSKYYPNGNFMSAKEGYQP 334

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAKDF 1083
                               +++GNG+ ++IW+  WLP+    K+I  K   C L      
Sbjct: 335  SYGWRSILSARDLVDKGGLWKIGNGRKVKIWKDRWLPD---LKVIEFKGVNCPLPEDACV 391

Query: 1084 MRDSDCG-KVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAYQQ 1260
                D   K W ++L+          QI+ + +     +D  IW+WEK G +SV++AY  
Sbjct: 392  AELIDVDTKQWKRDLIFSCFDRLVAKQIINIPLSFRLPHDLLIWNWEKDGEYSVRSAYHL 451

Query: 1261 LLQHQKWEKDWPESSDRAANNGGNWRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKRGM 1440
            L   +   +  P    R+      W++ WR  + NK+K+FMW++  N +PT   L K+G+
Sbjct: 452  LCDEKARFQPGPSCPQRSK----LWKEIWRAPVPNKIKNFMWRLAKNILPTRSNLHKKGI 507

Query: 1441 DLDPRCPFCGDDNESVEHLFFHCERAKLVWKLAPLQWFSSHLP-DFCLKKW---WHQVCS 1608
             LD  CP C  + ES +HLF  C+  KL    + L    SH+P D  L  W   W  VC 
Sbjct: 508  TLDLLCPLCSSEEESSQHLFLKCDMFKLTLFASHL---GSHIPIDIDLHDWILKW-LVC- 562

Query: 1609 VKSDFFGQDRMELSVYILWWLWKTRNIWVFHKIKWEARDIVSNAYFEWQEFLRVDDYK-- 1782
               D  G   ++L   +LW  W  RN  +F+  + +   +  +A    QEF   +  +  
Sbjct: 563  --QDPLG---VQLFCTLLWKFWAGRNAVIFNGWQMDPTFLALDALSFVQEFNEANPSRNR 617

Query: 1783 --MVDGCEQVISSSKCEKPGNNLIQVGHYKIVLSAVNCLDKG-TAFGGCLVDDSGKIIKA 1953
              +V       S S C    +  +  G          C + G T +G  L + +G+ + +
Sbjct: 618  RALVSQSISEPSRSTCTSMNSMFVDAG----------CCNSGHTVWGLVLRNLNGETVFS 667

Query: 1954 WATSRELIQNPVEATLLCVRIGLCSVDYLKIKKVDICLDDKDIICSFTNRCGFVS 2118
                 ++   P+ A  L VR  L       I  V I  D  +++     R  F +
Sbjct: 668  ACKREDITAEPLLAEALGVRWALQVATDQGINSVSIYSDAANVVNCINKRSNFAA 722


>gb|PNY02790.1| ribonuclease H, partial [Trifolium pratense]
          Length = 916

 Score =  397 bits (1021), Expect = e-122
 Identities = 211/596 (35%), Positives = 331/596 (55%), Gaps = 3/596 (0%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I  C+        +NG  S    P RG+RQGDPLSPYLFI+ ++VLS LI ++ +  L  
Sbjct: 249  IMNCVRTVKFSILINGHPSQEFYPQRGLRQGDPLSPYLFIICADVLSGLITKAQQDKLIH 308

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            G+ IC   P ++HLFFADDS+VFC A+  +  +++ I+  +  ASGQ +N  KS ++FSK
Sbjct: 309  GVMICHEAPEISHLFFADDSLVFCRANTKEVSTIQNIIQIYQNASGQLVNFSKSEMVFSK 368

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
             VS++I+ DI  +L      Q ++YLG+P+ +G+SKK+IF F+ E + K++  W    LS
Sbjct: 369  GVSNQIQRDISNILPMKILNQFSKYLGMPVALGRSKKQIFNFIQEKIWKKLKGWKEKHLS 428

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AG+  L+KAV  A+P Y+MS F LP  +C ++ K+   FWWG S T  +KI W+ W  +
Sbjct: 429  FAGRGTLIKAVAQAIPTYLMSSFLLPKGVCDQLEKMICNFWWG-SSTDHRKIHWIKWSTV 487

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
               K +GG+GF+D+  FN+AL+AKQ WRLI+QP+ L++K+LKAKY+ KG  L        
Sbjct: 488  CKHKMEGGIGFRDLRAFNEALLAKQGWRLITQPDSLVAKILKAKYYPKGEFLKASHKQQM 547

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAKDF 1083
                               + +G+G+ I IWE  W+           KP  C L+  K+ 
Sbjct: 548  SYTWKSILQASWVIKRGSYWTIGSGQGINIWEDNWIQQKGNPTSTISKPNNCGLIKVKEL 607

Query: 1084 MRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAYQQL 1263
            M D+     WN  +++Q     + + I Q+ I  +  +D   W   + GH+SVK+ YQ +
Sbjct: 608  MDDN--YNDWNVTIINQIFNPYEAHMIQQIPILDKTQSDILTWDGTRDGHYSVKSGYQAI 665

Query: 1264 LQHQKWEKDWPESSDRAANNGGN-WRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKRGM 1440
            ++   W K+   ++  ++N+    W+  W+L +  K  HF+W+ ++N IP    L K+G+
Sbjct: 666  ME---WAKNSDNNNATSSNSSMEIWKVLWKLNVPPKHSHFIWRCLSNAIPVKGKLFKKGI 722

Query: 1441 DLDPRCPFCGDDNESVEHLFFHCERAKLVWKLAP--LQWFSSHLPDFCLKKWWHQVCSVK 1614
              DP CP C +  E+++H+F  C+ AK VW  +P  L   S+ L +F     W     + 
Sbjct: 723  RCDPLCPRCLNHVETIQHVFLECDWAKKVWFASPLTLNLNSNQLTEF---YDWFNYMIIN 779

Query: 1615 SDFFGQDRMELSVYILWWLWKTRNIWVFHKIKWEARDIVSNAYFEWQEFLRVDDYK 1782
            +D   ++ ME  V I + +W TRN+ VF       ++I +NA     EF   ++ +
Sbjct: 780  TD---KECMEKIVAITYEIWNTRNLLVFQNKDLPPQEISANALKRLHEFKSFEEQR 832


>gb|PNX98065.1| ribonuclease H [Trifolium pratense]
          Length = 1011

 Score =  397 bits (1021), Expect = e-122
 Identities = 211/596 (35%), Positives = 331/596 (55%), Gaps = 3/596 (0%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I  C+        +NG  S    P RG+RQGDPLSPYLFI+ ++VLS LI ++ +  L  
Sbjct: 249  IMNCVRTVKFSILINGHPSQEFYPQRGLRQGDPLSPYLFIICADVLSGLITKAQQDKLIH 308

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            G+ IC   P ++HLFFADDS+VFC A+  +  +++ I+  +  ASGQ +N  KS ++FSK
Sbjct: 309  GVMICHEAPEISHLFFADDSLVFCRANTKEVSTIQNIIQIYQNASGQLVNFSKSEMVFSK 368

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
             VS++I+ DI  +L      Q ++YLG+P+ +G+SKK+IF F+ E + K++  W    LS
Sbjct: 369  GVSNQIQRDISNILPMKILNQFSKYLGMPVALGRSKKQIFNFIQEKIWKKLKGWKEKHLS 428

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AG+  L+KAV  A+P Y+MS F LP  +C ++ K+   FWWG S T  +KI W+ W  +
Sbjct: 429  FAGRGTLIKAVAQAIPTYLMSSFLLPKGVCDQLEKMICNFWWG-SSTDHRKIHWIKWSTV 487

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
               K +GG+GF+D+  FN+AL+AKQ WRLI+QP+ L++K+LKAKY+ KG  L        
Sbjct: 488  CKHKMEGGIGFRDLRAFNEALLAKQGWRLITQPDSLVAKILKAKYYPKGEFLKASHKQQM 547

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAKDF 1083
                               + +G+G+ I IWE  W+           KP  C L+  K+ 
Sbjct: 548  SYTWKSILQASWVIKRGSYWTIGSGQGINIWEDNWIQQKGNPTSTISKPNNCGLIKVKEL 607

Query: 1084 MRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAYQQL 1263
            M D+     WN  +++Q     + + I Q+ I  +  +D   W   + GH+SVK+ YQ +
Sbjct: 608  MDDN--YNDWNVTIINQIFNPYEAHMIQQIPILDKTQSDILTWDGTRDGHYSVKSGYQAI 665

Query: 1264 LQHQKWEKDWPESSDRAANNGGN-WRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKRGM 1440
            ++   W K+   ++  ++N+    W+  W+L +  K  HF+W+ ++N IP    L K+G+
Sbjct: 666  ME---WAKNSDNNNATSSNSSMEIWKVLWKLNVPPKHSHFIWRCLSNAIPVKGKLFKKGI 722

Query: 1441 DLDPRCPFCGDDNESVEHLFFHCERAKLVWKLAP--LQWFSSHLPDFCLKKWWHQVCSVK 1614
              DP CP C +  E+++H+F  C+ AK VW  +P  L   S+ L +F     W     + 
Sbjct: 723  RCDPLCPRCLNHVETIQHVFLECDWAKKVWFASPLTLNLNSNQLTEF---YDWFNYMIIN 779

Query: 1615 SDFFGQDRMELSVYILWWLWKTRNIWVFHKIKWEARDIVSNAYFEWQEFLRVDDYK 1782
            +D   ++ ME  V I + +W TRN+ VF       ++I +NA     EF   ++ +
Sbjct: 780  TD---KECMEKIVAITYEIWNTRNLLVFQNKDLPPQEISANALKRLHEFKSFEEQR 832


>gb|PNY02482.1| ribonuclease H, partial [Trifolium pratense]
          Length = 1070

 Score =  397 bits (1021), Expect = e-121
 Identities = 211/596 (35%), Positives = 331/596 (55%), Gaps = 3/596 (0%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I  C+        +NG  S    P RG+RQGDPLSPYLFI+ ++VLS LI ++ +  L  
Sbjct: 403  IMNCVRTVKFSILINGHPSQEFYPQRGLRQGDPLSPYLFIICADVLSGLITKAQQDKLIH 462

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            G+ IC   P ++HLFFADDS+VFC A+  +  +++ I+  +  ASGQ +N  KS ++FSK
Sbjct: 463  GVMICHEAPEISHLFFADDSLVFCRANTKEVSTIQNIIQIYQNASGQLVNFSKSEMVFSK 522

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
             VS++I+ DI  +L      Q ++YLG+P+ +G+SKK+IF F+ E + K++  W    LS
Sbjct: 523  GVSNQIQRDISNILPMKILNQFSKYLGMPVALGRSKKQIFNFIQEKIWKKLKGWKEKHLS 582

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AG+  L+KAV  A+P Y+MS F LP  +C ++ K+   FWWG S T  +KI W+ W  +
Sbjct: 583  FAGRGTLIKAVAQAIPTYLMSSFLLPKGVCDQLEKMICNFWWG-SSTDHRKIHWIKWSTV 641

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
               K +GG+GF+D+  FN+AL+AKQ WRLI+QP+ L++K+LKAKY+ KG  L        
Sbjct: 642  CKHKMEGGIGFRDLRAFNEALLAKQGWRLITQPDSLVAKILKAKYYPKGEFLKASHKQQM 701

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAKDF 1083
                               + +G+G+ I IWE  W+           KP  C L+  K+ 
Sbjct: 702  SYTWKSILQASWVIKRGSYWTIGSGQGINIWEDNWIQQKGNPTSTISKPNNCGLIKVKEL 761

Query: 1084 MRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAYQQL 1263
            M D+     WN  +++Q     + + I Q+ I  +  +D   W   + GH+SVK+ YQ +
Sbjct: 762  MDDN--YNDWNVTIINQIFNPYEAHMIQQIPILDKTQSDILTWDGTRDGHYSVKSGYQAI 819

Query: 1264 LQHQKWEKDWPESSDRAANNGGN-WRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKRGM 1440
            ++   W K+   ++  ++N+    W+  W+L +  K  HF+W+ ++N IP    L K+G+
Sbjct: 820  ME---WAKNSDNNNATSSNSSMEIWKVLWKLNVPPKHSHFIWRCLSNAIPVKGKLFKKGI 876

Query: 1441 DLDPRCPFCGDDNESVEHLFFHCERAKLVWKLAP--LQWFSSHLPDFCLKKWWHQVCSVK 1614
              DP CP C +  E+++H+F  C+ AK VW  +P  L   S+ L +F     W     + 
Sbjct: 877  RCDPLCPRCLNHVETIQHVFLECDWAKKVWFASPLTLNLNSNQLTEF---YDWFNYMIIN 933

Query: 1615 SDFFGQDRMELSVYILWWLWKTRNIWVFHKIKWEARDIVSNAYFEWQEFLRVDDYK 1782
            +D   ++ ME  V I + +W TRN+ VF       ++I +NA     EF   ++ +
Sbjct: 934  TD---KECMEKIVAITYEIWNTRNLLVFQNKDLPPQEISANALKRLHEFKSFEEQR 986


>gb|PNY15111.1| ribonuclease H [Trifolium pratense]
          Length = 1334

 Score =  400 bits (1028), Expect = e-120
 Identities = 240/703 (34%), Positives = 371/703 (52%), Gaps = 3/703 (0%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I KCI        +NGQ S    P RG+RQGDPLSPYLFIL ++VLS L+ +  + G   
Sbjct: 581  IMKCICTVSYQILINGQPSKLFTPERGLRQGDPLSPYLFILCADVLSGLVKKQAETGSMH 640

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            GI+I R  P ++HLFFADDS++F  AS  +A  +  +L  + KASGQ +NLDKS V FS+
Sbjct: 641  GIQIARQAPKISHLFFADDSLLFARASAAEAGVILNVLAEYQKASGQVVNLDKSEVSFSQ 700

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
            NV +  K+ I   +   T    ++YLGLP+V G+SKK IF FV++ V K++  W    LS
Sbjct: 701  NVRNEDKDMIRNRMGVKTVDTHSKYLGLPVVFGRSKKIIFSFVIDRVWKKLKGWKEKCLS 760

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AGKEIL+KAV  A+PNY+M C+KLP   C+EI  + +KFWWG  G G +KI W++W+R+
Sbjct: 761  RAGKEILIKAVAQAIPNYIMGCYKLPNSCCQEIETMLAKFWWGSKG-GERKIHWMSWERL 819

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
            +  K  GG+GF+ I+ FN AL+ K  WRL++    L+ ++ K++YF +   L  K     
Sbjct: 820  SKTKKDGGMGFRGINNFNKALLGKHCWRLMTGEESLMGRIFKSRYFPRTSFLEAKIGYQP 879

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAKDF 1083
                              R+++GNG++++I E  WLPN  GFK+ S + EE +       
Sbjct: 880  SYAWRSIQSATDVMKLGTRWRIGNGESVKIREDRWLPNQVGFKVWS-RGEELENGALVSA 938

Query: 1084 MRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAYQQL 1263
            + D D  K WN++L+ Q    ++  QIL + I      D  IWH+E+ G +SV++A+  L
Sbjct: 939  LIDPDT-KQWNRQLVVQTFYPDEAKQILSIPISQRLPADKIIWHYERDGEYSVRSAHHLL 997

Query: 1264 LQHQKWEKDWPESSDRAANNGGNWRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKRGMD 1443
             QH    +D   SS +  NN   WR+ W+  + N++++F+W++  N +PT   L ++G+ 
Sbjct: 998  KQHN--SRDVAASSGQQMNN--LWREIWKAPVPNRVRNFLWRLGKNILPTRANLVRKGVQ 1053

Query: 1444 LDPRCPFCGDDNESVEHLFFHCERAKLVWKLAPLQWFSSHLPDFCLKKWWHQVCSVKSDF 1623
            ++  CP C    E+++HLF HC   +L W  + L    + +P       W        D 
Sbjct: 1054 IENLCPQCHSAPETIDHLFLHCHLTQLTWFASQL---GARVPQSVPVHIWLLQGLTCDDT 1110

Query: 1624 FGQDRMELSVYILWWLWKTRNIWVFHKIKWEARDIVSNAYFEWQEFLRVDDYKMVDGCEQ 1803
             G    +L   ++W +W  RN  VF+    +   I   A +  QE             + 
Sbjct: 1111 RG---AQLFCVLMWKIWNARNNLVFNNKLVDPIAIAQEAMYFMQELSPSPHEHNATPMQD 1167

Query: 1804 VISSSKCEKPGNNLIQVGHYKIVLSAVNCLD-KGTAFGGCLVDDSGKIIKAWATSRELIQ 1980
             + +++      ++  V           C     T +G  + + SG+++ + A  +ELI 
Sbjct: 1168 AVLAAQPMPSAPHVFYVD--------AGCFSGNATGWGMVIYNQSGRVVLS-ACRKELID 1218

Query: 1981 -NPVEATLLCVRIGLCSVDYLKIKKVDICLDDKDII-CSFTNR 2103
              PV A  + VR  L     L +  + I  D   ++ C  +N+
Sbjct: 1219 VEPVLAEAIGVRWCLQKAIELNMTDIVIVSDAATVVSCINSNK 1261


>gb|PNY16580.1| ribonuclease H, partial [Trifolium pratense]
          Length = 894

 Score =  390 bits (1001), Expect = e-120
 Identities = 211/570 (37%), Positives = 307/570 (53%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I  CI        VNGQ S    P RGIRQGDPLSPY+FIL + VLS ++ +  +     
Sbjct: 202  IMNCISTVSYQLLVNGQPSRSFKPERGIRQGDPLSPYVFILCANVLSGMLHKGARNNKIH 261

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            G+++ RN P +THL FADDS++F  A+  +A  +  IL  +  ASGQ ++L+KS V FS+
Sbjct: 262  GLQVARNAPKITHLLFADDSLLFARANQKEAEVIINILQTYQTASGQLVSLEKSEVSFSR 321

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
            N+    KN IC  +D       ++YLGLP++ G+SKKEIF  V E + K++  W    LS
Sbjct: 322  NLPTIEKNMICNKIDVKAVTNHSKYLGLPVIFGRSKKEIFASVQERIWKKIKGWKEKCLS 381

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AGKE L+K+V  A+PNY+MSC+KLP   C  I  + +KFWWG +    +KI WV+W+++
Sbjct: 382  RAGKETLIKSVAQAIPNYIMSCYKLPTGCCDNIEAMLAKFWWGTT-EKQRKIHWVSWNKL 440

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
               K KGGLGF+    FN AL+ KQ WRL+  P+ L++KV K++YF +   +        
Sbjct: 441  GKAKSKGGLGFRSFEDFNKALLGKQCWRLLQNPDSLLAKVFKSRYFPRSKFMDANVGYQP 500

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAKDF 1083
                              R+ +GNGK + IW   WLP    FK+ S            D 
Sbjct: 501  SYAWRSLCNSREVIDVGARWLIGNGKDVHIWNDKWLPAQDKFKVWSPVSNLAPNAMVSDL 560

Query: 1084 MRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAYQQL 1263
            +      K+W+K L+       +  QIL + +      D  IWHWEK G FSV++AY  L
Sbjct: 561  INLET--KMWDKNLVQNCFNSFEAEQILNIPLSWRLPADKLIWHWEKNGEFSVRSAYHML 618

Query: 1264 LQHQKWEKDWPESSDRAANNGGNWRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKRGMD 1443
             + +   ++ PE+S  ++ +   W+  W++ + N +K+F+W++    +PT   L K+G+ 
Sbjct: 619  SEIR--NQNSPEAS--SSRDHLLWKAIWKVKVPNCIKNFLWRLAKAILPTRSRLEKKGIT 674

Query: 1444 LDPRCPFCGDDNESVEHLFFHCERAKLVWKLAPLQWFSSHLPDFCLKKWWHQVCSVKSDF 1623
            LD  CP C +D E  EHLF HC  +K VW  +PL     H P+      W Q+     D 
Sbjct: 675  LDTTCPLCFNDIECNEHLFMHCPLSKQVWFSSPL---GLHAPNNVGLISWMQLWLSNPDK 731

Query: 1624 FGQDRMELSVYILWWLWKTRNIWVFHKIKW 1713
                  +L    LW +WK RN  +F  +K+
Sbjct: 732  LAS---QLFSTTLWMIWKGRNKLIFKNVKF 758


>gb|PNX72264.1| ribonuclease H [Trifolium pratense]
          Length = 854

 Score =  387 bits (993), Expect = e-119
 Identities = 239/721 (33%), Positives = 370/721 (51%), Gaps = 8/721 (1%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I +CI        +NGQ S    P RG+RQGDPLSPYLFIL ++VLS LI ++       
Sbjct: 93   ILRCISSVSYQILINGQPSKSFSPERGLRQGDPLSPYLFILCADVLSGLIHKAANSKEIH 152

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            GIK+ R  P L+HLFFADDS++F  AS  +A ++  IL  + +ASGQ +NLDKS   FS+
Sbjct: 153  GIKVARTAPRLSHLFFADDSLLFSRASSHEASTILNILATYEQASGQMVNLDKSEASFSR 212

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
            NV    K+ IC ++     +  +RYLG P+  G+SKK +F FV++ V K+V  W   FLS
Sbjct: 213  NVRIEDKDMICNMMGAKAVEAHSRYLGFPIPFGRSKKAVFSFVMDRVWKKVKGWKERFLS 272

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AGKE L+KAV  A+PNY++SC+K+PV  CK+I  + +KFWWG S    +KI W++W+R+
Sbjct: 273  RAGKETLIKAVAQAIPNYILSCYKMPVGCCKDIDSMLAKFWWG-SNEERRKIHWMSWERL 331

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
            +  K  GG+GF+ +  FN AL+ K  WRL++  + L+ KVLK++Y+ +G  L  K     
Sbjct: 332  SKAKLDGGMGFRGMEDFNKALLGKHCWRLVTGESSLLEKVLKSRYYPRGNFLCAKEGYQP 391

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQL---VWA 1074
                               +++GNG  +RIW+  W+ +    K I  +   C L      
Sbjct: 392  SYGWRSILSARDLVTKGGVWKIGNGSNVRIWKDTWMAD---LKCIESRGPNCPLPEDALV 448

Query: 1075 KDFMRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAY 1254
             D + D D  K W ++++      +    I+ + +      D  IW+WEK G +SV++AY
Sbjct: 449  SDLI-DVDT-KQWKRDMIFSCFNRQVAQTIISIPLSFRLPQDTLIWNWEKDGEYSVRSAY 506

Query: 1255 QQLLQHQKWEKDWPESSDRAANNGGNWRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKR 1434
              L   +   +  P    R+      W++ WR  + NK+K+F+W++  N +PT   L  +
Sbjct: 507  HLLCDEKARLQPGPSCPRRSK----LWKEIWRAPVPNKVKNFLWRLAKNILPTRTNLHNK 562

Query: 1435 GMDLDPRCPFCGDDNESVEHLFFHCERAKLVWKLAPLQWFSSHLP-DFCLKKWWHQVCSV 1611
            G+ LD +CP C  + ES +HLF  C+  KL    + L    SH+P +  L  W      +
Sbjct: 563  GITLDLQCPLCFREEESSQHLFLKCDIFKLTLFASHL---GSHIPMNIDLHDW------I 613

Query: 1612 KSDFFGQDRMELSVY--ILWWLWKTRNIWVFHKIKWEARDIVSNAYFEWQEFLRVDDYKM 1785
                  QD M + ++  +LW  W  RN  VF+ ++ +   +  +A     +F   +  + 
Sbjct: 614  LEWLLCQDPMGVQLFCVLLWKFWAGRNAAVFNGVQLDPGRLAIDAMSFVHDFNEANPPR- 672

Query: 1786 VDGCEQVISSSKCEKPG-NNLIQVGHYKIVLSAVNCLDKG-TAFGGCLVDDSGKIIKAWA 1959
               C +   +    +PG  N I    + + + A  C + G T +G  L +  G+ + +  
Sbjct: 673  ---CRRAPVAHVPIQPGMTNPI----FSLFVDA-GCSNSGHTVWGLVLRNSDGETVLSAC 724

Query: 1960 TSRELIQNPVEATLLCVRIGLCSVDYLKIKKVDICLDDKDIICSFTNRCGFVSEGAKIAE 2139
               +   +P+ A  L VR  L  V    I  V I  D  +++        F +    IAE
Sbjct: 725  KREDFYVDPLMAEALGVRWALQLVVDQGINSVSIYSDAANVVNCINRNSSFAAINL-IAE 783

Query: 2140 D 2142
            D
Sbjct: 784  D 784


>gb|PNX80752.1| ribonuclease H, partial [Trifolium pratense]
          Length = 696

 Score =  381 bits (979), Expect = e-119
 Identities = 203/516 (39%), Positives = 299/516 (57%), Gaps = 7/516 (1%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I  CI        +NGQ S    P RG+RQGDPLSPYLFIL ++VLS L+ +    G   
Sbjct: 167  ILNCISTVSYQILINGQPSKSFNPERGLRQGDPLSPYLFILCADVLSGLMKRKAVTGGIH 226

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            GIKI R  P ++HL FADDS++F  AS  +A  + ++L  + +ASGQ +NLDKS V FS+
Sbjct: 227  GIKIARQAPKISHLLFADDSLLFARASSTEADVILSVLAEYQQASGQVVNLDKSEVSFSQ 286

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
            NV +  K  I   +   T    ++YLGLP+V G+SKK IF  V++ V K+V  W   +LS
Sbjct: 287  NVRNEEKEMIRNRMGVKTVDNHSKYLGLPVVFGRSKKLIFSLVIDRVWKKVKGWKENYLS 346

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AGKEIL+KAV  A+PNY+MSC+KLP   C+EI  + +KFWWG S  G +KI W++W+R+
Sbjct: 347  RAGKEILIKAVAQAIPNYIMSCYKLPESCCQEIESMLAKFWWG-SKEGKRKIHWMSWERL 405

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
            +  K  GG+GF+ IS FN AL+ K  WRL +    L+ +V K++Y+ +   +  K     
Sbjct: 406  SKSKKGGGMGFRGISNFNSALLGKHCWRLTTGEESLMGRVFKSRYYPRASFMEAKIGYQP 465

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQ--KPEECQLVWAK 1077
                              R+++GNG+ ++I +  WLPN  GFK+ S+  + EE  LV   
Sbjct: 466  SYAWRSIQSAKEVIILGSRWRIGNGEKVKICKDKWLPNQVGFKVWSRCDELEEDALV--- 522

Query: 1078 DFMRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAYQ 1257
              + D D  K W ++L+S      +  QIL + I     +D  IWH+E+ G +SV++A+ 
Sbjct: 523  STLIDPDT-KQWKRDLVSHIFFPHEAKQILSLPISPRLPSDKIIWHFERNGEYSVRSAHH 581

Query: 1258 QLLQHQKWEKDWPESSDRAANNGGN-----WRKCWRLGIKNKLKHFMWKVINNCIPTAWL 1422
             L QH         SS  AA   G      WR+ W   + N++++F+W++  N +PT   
Sbjct: 582  LLKQH---------SSRNAAGTSGQQTDILWREIWXAPVPNRVRNFLWRLGKNILPTRAN 632

Query: 1423 LRKRGMDLDPRCPFCGDDNESVEHLFFHCERAKLVW 1530
            L ++G+ ++  CP C +  E+++HLF HC+ A+L W
Sbjct: 633  LSRKGVQVENLCPQCNNAPETIDHLFLHCQLAQLTW 668


>gb|PNY01158.1| ribonuclease H, partial [Trifolium pratense]
          Length = 1068

 Score =  391 bits (1004), Expect = e-119
 Identities = 202/512 (39%), Positives = 292/512 (57%), Gaps = 9/512 (1%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I  CI        +NGQ S    P+RGIRQGDPLSPY+FIL + VLS L+ +  +     
Sbjct: 573  IMSCISTVSYQILINGQPSSSFSPNRGIRQGDPLSPYIFILCANVLSGLLHKEAQSQAIH 632

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            GI++ RN P +THL FADDS++F  A+  +A ++  +L+++  ASGQ ++ +KS V FS+
Sbjct: 633  GIQVARNAPKITHLLFADDSLLFARANQNEANTIIQVLNKYQLASGQMVSYEKSEVSFSR 692

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
            NV D  KN IC  ++       +RYLGLP++ G+SKKE+F FV + + K+V  W    LS
Sbjct: 693  NVPDIEKNIICNKIEVKAVTSHSRYLGLPVIFGRSKKEVFAFVQDRIWKKVKGWKEKCLS 752

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AGKE L+KAV  A+P+Y+MSC+K+P   C  I  + SKFWWG S     KI W++WDR+
Sbjct: 753  KAGKETLIKAVAQAIPSYIMSCYKIPEGSCANIESMLSKFWWG-SSDQKNKIHWMSWDRL 811

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
               K+KGGLGF+  S FN AL+ KQ WRL+S  + L+S+V K+KYF +   L  K     
Sbjct: 812  GRAKNKGGLGFRGFSDFNKALLGKQCWRLMSNEDSLLSRVFKSKYFPRSCFLKSKCGYQP 871

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAKDF 1083
                              R+ +GNG+ ++IW+ PWLP    FK           VW+   
Sbjct: 872  SYAWRSLFNAKSVIDLGLRWTIGNGQQVKIWKDPWLPELSSFK-----------VWSPVC 920

Query: 1084 MRDSDCG---------KVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHF 1236
              D D           K W +EL+       + NQIL + +     +D  +W WE+ G++
Sbjct: 921  NLDEDAVVAELIDVDLKKWKRELVMNSFNEFEANQILNIPLSWRLPDDKKVWSWERNGNY 980

Query: 1237 SVKTAYQQLLQHQKWEKDWPESSDRAANNGGNWRKCWRLGIKNKLKHFMWKVINNCIPTA 1416
            SV++AY   L  ++  +D PE S   A N G W+  W++    ++K+F+W+V+   +PT 
Sbjct: 981  SVRSAYH--LLKEETLRDIPEPS--TAGNTGIWKSIWKVQAPQRVKNFLWRVVKRILPTR 1036

Query: 1417 WLLRKRGMDLDPRCPFCGDDNESVEHLFFHCE 1512
              L ++G+ LDP CP C D  E+ EHLF HC+
Sbjct: 1037 CRLEQKGVALDPICPLCHDGEETQEHLFMHCQ 1068


>gb|PNX95041.1| ribonuclease H, partial [Trifolium pratense]
          Length = 1348

 Score =  394 bits (1013), Expect = e-118
 Identities = 220/574 (38%), Positives = 311/574 (54%), Gaps = 3/574 (0%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I KCI        +NGQ S    P RG+RQGDP+SPYLFIL + VLS L+ + ++     
Sbjct: 695  IMKCISTVSYQILINGQPSISFTPDRGLRQGDPISPYLFILCANVLSGLLHKEVQSKRIH 754

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            GIK+ R  P ++HL FADDS++F  A+  +A  + + L  + +ASGQ +N+DKS   FS+
Sbjct: 755  GIKVARRAPQISHLQFADDSLLFARANQHEANVILSTLAAYQRASGQVVNMDKSEASFSR 814

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
            NV +     IC ++   T   Q RYLGLP++ G+SKK IF FV + V K++  W    LS
Sbjct: 815  NVLEADSQFICNMMGAKTVASQNRYLGLPVIFGRSKKVIFSFVKDRVWKKLKGWKEKSLS 874

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AGKE+L+KAV  A+PNYVMSCFK+P   CKEI  + + FWWG S  GG+K+ W++WDRM
Sbjct: 875  RAGKEVLIKAVAQAIPNYVMSCFKIPNDCCKEIESMLANFWWG-SKEGGQKMHWMSWDRM 933

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
            +  K KGG+GF+  S FN AL+ KQ WRLIS+   L+ ++ K++Y+     +        
Sbjct: 934  SSSKMKGGMGFRGFSNFNKALLGKQCWRLISEEESLLGRIFKSRYYPNHSFIEASSGFQP 993

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKL---ISQKPEECQLVWA 1074
                              R+ +GNG+ +RIW+  WLP    FK+   IS    E  +   
Sbjct: 994  SYAWRSILSAREHVQKGSRWIVGNGRKVRIWKDNWLPTLSNFKVCSPISFLDGEATV--- 1050

Query: 1075 KDFMRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAY 1254
               + D D  K W+  L++      +   I  + +      D  +W  EK G +SVK+AY
Sbjct: 1051 -SALIDEDLRK-WDLNLVNSIFNNFEAGIISSMPLSFSQHEDKLVWTGEKNGGYSVKSAY 1108

Query: 1255 QQLLQHQKWEKDWPESSDRAANNGGNWRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKR 1434
              L      E   PESS  AA  G  W+  W + + N++K+FMW++  N +PT   L +R
Sbjct: 1109 HLLCNES--EVRHPESSSSAA--GSFWKHLWAIPLPNRIKNFMWRLAKNILPTRGNLLRR 1164

Query: 1435 GMDLDPRCPFCGDDNESVEHLFFHCERAKLVWKLAPLQWFSSHLPDFCLKKWWHQVCSVK 1614
             + LDP CP C +D ES EHLF HC   K VW  +PL        D  L  W  Q  + K
Sbjct: 1165 RVPLDPVCPLCFNDLESTEHLFLHCPLIKQVWLASPLGVRPPPHSDLVL--WLTQWLNCK 1222

Query: 1615 SDFFGQDRMELSVYILWWLWKTRNIWVFHKIKWE 1716
              F     ++L    LW +W  RN  +F  + ++
Sbjct: 1223 EPF----AIQLFCTTLWKIWFFRNQTIFKNLAFD 1252


>gb|EEE50824.1| hypothetical protein OsJ_31232 [Oryza sativa Japonica Group]
          Length = 1594

 Score =  390 bits (1001), Expect = e-115
 Identities = 210/565 (37%), Positives = 315/565 (55%), Gaps = 4/565 (0%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I KC+        VNG++S    P RG+RQGDPLSPYLF+L +E  S L+ ++ + G   
Sbjct: 835  IMKCVSTVTYRIRVNGELSESFSPERGLRQGDPLSPYLFLLCAEGFSALLSKTEEEGRLH 894

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            GI+IC+  P ++HL FADDS++ C A+  +A  ++TIL  + + SGQ IN DKS+VMFS 
Sbjct: 895  GIRICQGAPSVSHLLFADDSLILCRANGGEAQQLQTILQIYEECSGQVINKDKSAVMFSP 954

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
            N S   K  +   L+   E    +YLGLP+ +G+S+ +IF ++ E + +R+  W    LS
Sbjct: 955  NTSSLEKGAVMAALNMQRETTNEKYLGLPVFVGRSRTKIFSYLKERIWQRIQGWKEKLLS 1014

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AGKEIL+KAV  A+P + M CF+L   +C +I K+ +K+WW  +     K+ W++W+++
Sbjct: 1015 RAGKEILIKAVAQAIPTFAMGCFELTKDLCDQISKMIAKYWWS-NQEKDNKMHWLSWNKL 1073

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
            TLPK+ GGLGF+DI +FN A++AKQ WRLI  P+ L S+VL+AKYF  G     K     
Sbjct: 1074 TLPKNMGGLGFRDIYIFNLAMLAKQGWRLIQDPDSLCSRVLRAKYFPLGDCFRPKQTSNV 1133

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAKDF 1083
                               +++G+G  I IW  PW+P   G+      P    LV   + 
Sbjct: 1134 SYTWRSIQKGLRVLQNGMIWRMGDGSKINIWADPWIPR--GWSRKPMTPRGANLVTKVEE 1191

Query: 1084 MRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAY--Q 1257
            + D   G  W+++LLSQ    EDV  I  + +  E   D   WH++ +G F+VK+AY  Q
Sbjct: 1192 LIDPYTG-TWDEDLLSQTFWEEDVAAIKSIPVHVE-MEDVLAWHFDARGCFTVKSAYKVQ 1249

Query: 1258 QLLQHQKWEKDWPESSDRAANNGGNWRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKRG 1437
            + ++ +      P  S+  + +   W+K W+LG+  K+KHF+W++ +N +     L+ RG
Sbjct: 1250 REMERRASRNGCPGVSNWESGDDDFWKKLWKLGVPGKIKHFLWRMCHNTLALRANLQHRG 1309

Query: 1438 MDLDPRCPFCGDDNESVEHLFFHCERAKLVWKLAPLQWFSSHLPDFCLKKWWHQVCSVKS 1617
            MD+D RC  CG  NE   HLFF C+  K VW+   L+   S L      K      +V  
Sbjct: 1310 MDVDTRCVMCGRYNEDAGHLFFKCKPVKKVWQALNLEELRSMLEQQTSGK------NVLQ 1363

Query: 1618 DFFGQDRME--LSVYILWWLWKTRN 1686
              + +  +E   ++  LW  WK RN
Sbjct: 1364 SIYCRPEIERTSAIVCLWQWWKERN 1388


>dbj|GAU39028.1| hypothetical protein TSUD_59840 [Trifolium subterraneum]
          Length = 1626

 Score =  390 bits (1001), Expect = e-115
 Identities = 234/668 (35%), Positives = 344/668 (51%), Gaps = 2/668 (0%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I  CI        VNGQ S    P RGIRQGDPLSPY+FIL + VLS++I +  +     
Sbjct: 875  IMNCISTVSYQLLVNGQPSRSFKPERGIRQGDPLSPYVFILCANVLSSMIHKGARNNEIH 934

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            GI++ RN P +THL FADDS++F  A+  ++  +  IL  +  ASGQ ++L+KS V FS+
Sbjct: 935  GIQVARNAPKITHLLFADDSLLFARANQKESEVILNILQTYQTASGQLVSLEKSEVSFSR 994

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
            N+    KN IC  +D       ++YL LP++ G+SKKEIF  V E + K++  W    LS
Sbjct: 995  NLPTIEKNMICNKIDVKAVTSHSKYLVLPVIFGRSKKEIFANVQERIWKKIKGWKEKCLS 1054

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AGKE L+K+V  A+PNY+MSC+KLP   C  I  + +KFWWG +    +KI WV+W+++
Sbjct: 1055 RAGKETLIKSVAQAIPNYLMSCYKLPTGCCDNIEAMLAKFWWGTT-EKQRKIHWVSWNKL 1113

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
               K KGGLGF+    FN AL+ KQ WRL+  P+ L++KV K++YF +   +        
Sbjct: 1114 GKAKSKGGLGFRSFEDFNKALLGKQCWRLLQNPDSLLAKVFKSRYFPRSNFMDASVGYQP 1173

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAKDF 1083
                              R+ +GNG+ + IW   WLP    FK+ S            D 
Sbjct: 1174 SYAWRSLCNAREVIDMGARWLIGNGQDVHIWNDKWLPEQDKFKVWSPVSNLVPNAMVSDL 1233

Query: 1084 MRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAYQQL 1263
            +  +   K W+K L+       +  QIL + I      D  IWHWEK G FSV++AY  L
Sbjct: 1234 I--NPVTKAWDKNLILNCFSPFEAEQILNIPISWRLPADKLIWHWEKNGEFSVRSAYHML 1291

Query: 1264 LQHQKWEKDWPESSDRAANNGGNWRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKRGMD 1443
             + +   K+ PE+S  ++ +   W+  W++ + N +K+F+W+V    +PT   L K+G+ 
Sbjct: 1292 SEDR--NKNSPEAS--SSRDQLLWKTIWKVNVPNCIKNFLWRVAKAILPTRGRLEKKGIT 1347

Query: 1444 LDPRCPFCGDDNESVEHLFFHCERAKLVWKLAPLQWFSSHLP-DFCLKKWWHQVCSVKSD 1620
            LD  CP C +D E  EHLF  C  +K VW  +PL     H P +F L  W     S    
Sbjct: 1348 LDTTCPLCFNDIECNEHLFMQCPLSKQVWFSSPL---GLHAPNNFSLNSWMQLWLSNPDK 1404

Query: 1621 FFGQDRMELSVYILWWLWKTRNIWVFHKIKWEARDIVSNAYFEWQEF-LRVDDYKMVDGC 1797
               Q    L    LW +WK RN  +F   K+    + + +     EF      ++ +  C
Sbjct: 1405 LASQ----LFSTTLWMIWKGRNKLIFKNEKFCPIYVAAASSDFVAEFNSGTCSFENIPSC 1460

Query: 1798 EQVISSSKCEKPGNNLIQVGHYKIVLSAVNCLDKGTAFGGCLVDDSGKIIKAWATSRELI 1977
            +   +  K E P     + G  K+ + A  C   GT   G ++ +   +++  AT  E I
Sbjct: 1461 D---NPGKWEHP-----EQGKLKVNIDA-GCFSNGTTGWGMIMRNHLGMVEFAATHLEKI 1511

Query: 1978 QNPVEATL 2001
            +  V +TL
Sbjct: 1512 K--VSSTL 1517


>ref|XP_015619246.1| PREDICTED: uncharacterized protein LOC107279669 [Oryza sativa
            Japonica Group]
          Length = 1587

 Score =  389 bits (999), Expect = e-115
 Identities = 210/563 (37%), Positives = 312/563 (55%), Gaps = 2/563 (0%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I KC+        VNG++S    P RG+RQGDPLSPYLF+L +E  S L+ ++ + G   
Sbjct: 862  IMKCVSTVTYRIRVNGELSESFSPGRGLRQGDPLSPYLFLLCAEGFSALLSKTEEEGRLH 921

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            GI+IC+  P ++HL FADDS++ C A+  +A  ++TIL  + + SGQ IN DKS+VMFS 
Sbjct: 922  GIRICQGAPSVSHLLFADDSLILCRANGGEAQQLQTILQIYEECSGQVINKDKSAVMFSP 981

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
            N S   K  +   L+   E    RYLGLP+ +G+S+ +IF ++ E + +R+  W    LS
Sbjct: 982  NTSSLEKRAVMAALNMQRETTNERYLGLPVFVGRSRTKIFSYLKERIWQRIQGWKEKLLS 1041

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AGKEIL+KAV  A+P + M CF+L   +C +I K+ +K+WW  +     K+ W++W+++
Sbjct: 1042 RAGKEILIKAVAQAIPTFAMGCFELTKDLCDQISKMIAKYWWS-NQEKDNKMHWLSWNKL 1100

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
            TLPK+ GGLGF+DI +FN A++AKQ WRLI  P+ L S+VL+AKYF  G     K     
Sbjct: 1101 TLPKNMGGLGFRDIYIFNLAMLAKQGWRLIQDPDSLCSRVLRAKYFPLGDCFRPKQTSNV 1160

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAKDF 1083
                               +++G+G  I IW  PW+P   G+      P    LV   + 
Sbjct: 1161 SYTWRSIQKGLRVLQNGMIWRVGDGSKINIWADPWIPR--GWSRKPMTPRGANLVTKVEE 1218

Query: 1084 MRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAY--Q 1257
            + D   G  W+++LLSQ    EDV  I  + +  E   D   WH++ +G F+VK+AY  Q
Sbjct: 1219 LIDPYTG-TWDEDLLSQTFWEEDVAAIKSIPVHVE-MEDVLAWHFDARGCFTVKSAYKVQ 1276

Query: 1258 QLLQHQKWEKDWPESSDRAANNGGNWRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKRG 1437
            + ++ +      P  S+  + +   W+K W+LG+  K+KHF+W++ +N +     L  RG
Sbjct: 1277 REMERRASRNGCPGVSNWESGDDDFWKKLWKLGVPGKIKHFLWRMCHNTLALRANLHHRG 1336

Query: 1438 MDLDPRCPFCGDDNESVEHLFFHCERAKLVWKLAPLQWFSSHLPDFCLKKWWHQVCSVKS 1617
            MD+D RC  CG  NE   HLFF C+  K VW+   L+   S L      K   Q    + 
Sbjct: 1337 MDVDTRCVMCGRYNEDAGHLFFKCKPVKKVWQALNLEELRSMLEQQTSGKNVLQSIYCRP 1396

Query: 1618 DFFGQDRMELSVYILWWLWKTRN 1686
                ++    ++  LW  WK RN
Sbjct: 1397 ----ENERTSAIVCLWQWWKERN 1415


>gb|ABA98491.1| retrotransposon protein, putative, unclassified [Oryza sativa
            Japonica Group]
          Length = 1621

 Score =  389 bits (999), Expect = e-115
 Identities = 210/563 (37%), Positives = 312/563 (55%), Gaps = 2/563 (0%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I KC+        VNG++S    P RG+RQGDPLSPYLF+L +E  S L+ ++ + G   
Sbjct: 862  IMKCVSTVTYRIRVNGELSESFSPGRGLRQGDPLSPYLFLLCAEGFSALLSKTEEEGRLH 921

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            GI+IC+  P ++HL FADDS++ C A+  +A  ++TIL  + + SGQ IN DKS+VMFS 
Sbjct: 922  GIRICQGAPSVSHLLFADDSLILCRANGGEAQQLQTILQIYEECSGQVINKDKSAVMFSP 981

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
            N S   K  +   L+   E    RYLGLP+ +G+S+ +IF ++ E + +R+  W    LS
Sbjct: 982  NTSSLEKRAVMAALNMQRETTNERYLGLPVFVGRSRTKIFSYLKERIWQRIQGWKEKLLS 1041

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AGKEIL+KAV  A+P + M CF+L   +C +I K+ +K+WW  +     K+ W++W+++
Sbjct: 1042 RAGKEILIKAVAQAIPTFAMGCFELTKDLCDQISKMIAKYWWS-NQEKDNKMHWLSWNKL 1100

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
            TLPK+ GGLGF+DI +FN A++AKQ WRLI  P+ L S+VL+AKYF  G     K     
Sbjct: 1101 TLPKNMGGLGFRDIYIFNLAMLAKQGWRLIQDPDSLCSRVLRAKYFPLGDCFRPKQTSNV 1160

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAKDF 1083
                               +++G+G  I IW  PW+P   G+      P    LV   + 
Sbjct: 1161 SYTWRSIQKGLRVLQNGMIWRVGDGSKINIWADPWIPR--GWSRKPMTPRGANLVTKVEE 1218

Query: 1084 MRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAY--Q 1257
            + D   G  W+++LLSQ    EDV  I  + +  E   D   WH++ +G F+VK+AY  Q
Sbjct: 1219 LIDPYTG-TWDEDLLSQTFWEEDVAAIKSIPVHVE-MEDVLAWHFDARGCFTVKSAYKVQ 1276

Query: 1258 QLLQHQKWEKDWPESSDRAANNGGNWRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKRG 1437
            + ++ +      P  S+  + +   W+K W+LG+  K+KHF+W++ +N +     L  RG
Sbjct: 1277 REMERRASRNGCPGVSNWESGDDDFWKKLWKLGVPGKIKHFLWRMCHNTLALRANLHHRG 1336

Query: 1438 MDLDPRCPFCGDDNESVEHLFFHCERAKLVWKLAPLQWFSSHLPDFCLKKWWHQVCSVKS 1617
            MD+D RC  CG  NE   HLFF C+  K VW+   L+   S L      K   Q    + 
Sbjct: 1337 MDVDTRCVMCGRYNEDAGHLFFKCKPVKKVWQALNLEELRSMLEQQTSGKNVLQSIYCRP 1396

Query: 1618 DFFGQDRMELSVYILWWLWKTRN 1686
                ++    ++  LW  WK RN
Sbjct: 1397 ----ENERTSAIVCLWQWWKERN 1415


>gb|PNX71213.1| ribonuclease H [Trifolium pratense]
          Length = 951

 Score =  376 bits (966), Expect = e-114
 Identities = 220/705 (31%), Positives = 356/705 (50%), Gaps = 5/705 (0%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I +C+        +NG  S    P RG+RQGDPLSP+LFI+ ++VLS LI Q+    L  
Sbjct: 186  ILQCVTTVQFSILINGNPSTPFRPQRGLRQGDPLSPFLFIICADVLSGLITQAKNKQLIH 245

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            G+K+    P +THL FADDS+ FC A+  +A +VR I+  + +ASGQ +N+ KS ++FSK
Sbjct: 246  GVKVANGAPEITHLLFADDSLFFCRATKQEATNVRNIILDYQRASGQLVNMQKSEIIFSK 305

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
             V + +K ++  +L        ++YLG+P  IG+SK++IF ++ + V K++  W    LS
Sbjct: 306  MVPNEVKVEVNHILPMTRVDHFSKYLGMPTDIGRSKQQIFNYIKDRVWKKLKGWKEKNLS 365

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AG+  LLKAV+ A+P Y+MSCF LP  +CK+I  +TS FWWG S T  KK+ W+ W +M
Sbjct: 366  YAGRGTLLKAVIQAIPTYIMSCFLLPKGLCKQIESMTSNFWWG-SNTDKKKLHWINWKKM 424

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
               K +GG GF++  +FN+AL+AKQ WR+ +QP+ L++KV KAKYF K   +  K     
Sbjct: 425  CKNKTQGGYGFRNTCMFNEALLAKQGWRIATQPDSLVAKVYKAKYFPKCQFMEAKNGNML 484

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAKDF 1083
                               + +GNG+++ IW+  WLP   GFK+ S +    +    KD 
Sbjct: 485  SYTWRSILHARWILQKGCFWTIGNGESVNIWKDSWLPKQNGFKVWSTQQGYTRYNLVKDL 544

Query: 1084 MRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAYQQL 1263
            +  +     WN+ L+ Q     + NQILQ+ +   +  D  +W   K G ++VK+ Y   
Sbjct: 545  INPAT--NQWNQNLIHQIFLPFEANQILQLPLVEPNSKDELVWSGTKDGLYTVKSGYHAA 602

Query: 1264 LQHQKWEKDWPESSDRAANNGGNWRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKRGMD 1443
            ++      +  + S  A      W+  W+L I  K    +W+++N+ +P    L  +G+ 
Sbjct: 603  MEWNHLRHN--QVSSNAIATDLTWQNLWKLKIPPKHATLIWRILNHSLPVRSSLSSKGIQ 660

Query: 1444 LDPRCPFCGDDNESVEHLFFHCERAKLVWKLAPLQ-WFSSHLPDFCLKKWWHQVCSVKSD 1620
             +P CP C    E+++H+F  CE AK+VW  +P+   F++        +W   +   K+ 
Sbjct: 661  CNPTCPRCNTSLETIDHVFMQCEWAKVVWFGSPMTIHFNTTDRHQSFSEWLSTMLKTKN- 719

Query: 1621 FFGQDRMELSVYILWWLWKTRNIWVFHKIKWEARDIVSNAYFEWQEFLRVDDYKMVDGCE 1800
               Q+ M     + + +W+ RN+ VF         +V  A     E+  +     +  C 
Sbjct: 720  ---QECMAPIAALTYHIWRARNLLVFQDKNVPVMCVVQQAISSSIEYQTLGHPHRLPMC- 775

Query: 1801 QVISSSKCEKPGNNLIQV----GHYKIVLSAVNCLDKGTAFGGCLVDDSGKIIKAWATSR 1968
                ++  +  GNN           K+ + A  C D     G  L  + GK + A     
Sbjct: 776  ----AAATQPRGNNTNWTPPPRNSLKLNVDAHPCGDGRWGLGMVLRTEEGKCVGAKTVVV 831

Query: 1969 ELIQNPVEATLLCVRIGLCSVDYLKIKKVDICLDDKDIICSFTNR 2103
              + + ++   L + + +     L   +V I LD   I+ +   R
Sbjct: 832  SGLSDILDGEALGLNVAIDFAQSLGNTQVIIELDSTSIVDAVKQR 876


>gb|AAP53315.2| retrotransposon protein, putative, unclassified [Oryza sativa
            Japonica Group]
          Length = 1505

 Score =  386 bits (992), Expect = e-114
 Identities = 208/563 (36%), Positives = 311/563 (55%), Gaps = 2/563 (0%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I KC+        VNG++S    P RG+RQGDPLSPYLF+L +E  S L+ ++ + G   
Sbjct: 803  IMKCVSTVTYRIRVNGELSESFSPERGLRQGDPLSPYLFLLCAEGFSALLSKTEEEGRLH 862

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            GI+IC+  P ++HL FADDS++ C A+  +A  ++TIL  + + SGQ IN DKS+VMFS 
Sbjct: 863  GIRICQGAPSVSHLLFADDSLILCRANGGEAQQLQTILQIYEECSGQVINKDKSAVMFSP 922

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
            N S   K  +   L+   E    +YLGLP+ +G+S+ +IF ++ E + +R+  W    LS
Sbjct: 923  NTSSLEKGAVMAALNMQRETTNEKYLGLPVFVGRSRTKIFSYLKERIWQRIQGWKEKLLS 982

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AGKEIL+KAV   +P + M CF+L   +C +I K+ +K+WW  +     K+ W++W+++
Sbjct: 983  RAGKEILIKAVAQVIPTFAMGCFELTKDLCDQISKMIAKYWWS-NQEKDNKMHWLSWNKL 1041

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
            TLPK+ GGLGF+DI +FN A++AKQ WRLI  P+ L S+VL+AKYF  G     K     
Sbjct: 1042 TLPKNMGGLGFRDIYIFNLAMLAKQGWRLIQDPDSLCSRVLRAKYFPLGDCFRPKQTSNV 1101

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAKDF 1083
                               +++G+G  I IW  PW+P   G+      P    LV   + 
Sbjct: 1102 SYTWRSIQKGLRVLQNGMIWRVGDGSKINIWADPWIPR--GWSRKPMTPRGANLVTKVEE 1159

Query: 1084 MRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAY--Q 1257
            + D   G  W+++LLSQ    EDV  I  + +  E   D   WH++ +G F+VK+AY  Q
Sbjct: 1160 LIDPYTG-TWDEDLLSQTFWEEDVAAIKSIPVHVE-MEDVLAWHFDARGCFTVKSAYKVQ 1217

Query: 1258 QLLQHQKWEKDWPESSDRAANNGGNWRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKRG 1437
            + ++ +      P  S+  + +   W+K W+LG+  K+KHF+W++ +N +     L  RG
Sbjct: 1218 REMERRASRNGCPGVSNWESGDDDFWKKLWKLGVPGKIKHFLWRMCHNTLALRANLHHRG 1277

Query: 1438 MDLDPRCPFCGDDNESVEHLFFHCERAKLVWKLAPLQWFSSHLPDFCLKKWWHQVCSVKS 1617
            MD+D RC  CG  NE   HLFF C+  K VW+   L+   S L      K   Q    + 
Sbjct: 1278 MDVDTRCVMCGRYNEDAGHLFFKCKPVKKVWQALNLEELRSMLEQQTSGKNVLQSIYCRP 1337

Query: 1618 DFFGQDRMELSVYILWWLWKTRN 1686
                ++    ++  LW  WK RN
Sbjct: 1338 ----ENERTSAIVCLWQWWKERN 1356


>gb|AAM18736.1|AC092548_14 putative reverse transcriptase [Oryza sativa Japonica Group]
          Length = 1509

 Score =  386 bits (992), Expect = e-114
 Identities = 208/563 (36%), Positives = 311/563 (55%), Gaps = 2/563 (0%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I KC+        VNG++S    P RG+RQGDPLSPYLF+L +E  S L+ ++ + G   
Sbjct: 807  IMKCVSTVTYRIRVNGELSESFSPERGLRQGDPLSPYLFLLCAEGFSALLSKTEEEGRLH 866

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            GI+IC+  P ++HL FADDS++ C A+  +A  ++TIL  + + SGQ IN DKS+VMFS 
Sbjct: 867  GIRICQGAPSVSHLLFADDSLILCRANGGEAQQLQTILQIYEECSGQVINKDKSAVMFSP 926

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
            N S   K  +   L+   E    +YLGLP+ +G+S+ +IF ++ E + +R+  W    LS
Sbjct: 927  NTSSLEKGAVMAALNMQRETTNEKYLGLPVFVGRSRTKIFSYLKERIWQRIQGWKEKLLS 986

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AGKEIL+KAV   +P + M CF+L   +C +I K+ +K+WW  +     K+ W++W+++
Sbjct: 987  RAGKEILIKAVAQVIPTFAMGCFELTKDLCDQISKMIAKYWWS-NQEKDNKMHWLSWNKL 1045

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
            TLPK+ GGLGF+DI +FN A++AKQ WRLI  P+ L S+VL+AKYF  G     K     
Sbjct: 1046 TLPKNMGGLGFRDIYIFNLAMLAKQGWRLIQDPDSLCSRVLRAKYFPLGDCFRPKQTSNV 1105

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAKDF 1083
                               +++G+G  I IW  PW+P   G+      P    LV   + 
Sbjct: 1106 SYTWRSIQKGLRVLQNGMIWRVGDGSKINIWADPWIPR--GWSRKPMTPRGANLVTKVEE 1163

Query: 1084 MRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAY--Q 1257
            + D   G  W+++LLSQ    EDV  I  + +  E   D   WH++ +G F+VK+AY  Q
Sbjct: 1164 LIDPYTG-TWDEDLLSQTFWEEDVAAIKSIPVHVE-MEDVLAWHFDARGCFTVKSAYKVQ 1221

Query: 1258 QLLQHQKWEKDWPESSDRAANNGGNWRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKRG 1437
            + ++ +      P  S+  + +   W+K W+LG+  K+KHF+W++ +N +     L  RG
Sbjct: 1222 REMERRASRNGCPGVSNWESGDDDFWKKLWKLGVPGKIKHFLWRMCHNTLALRANLHHRG 1281

Query: 1438 MDLDPRCPFCGDDNESVEHLFFHCERAKLVWKLAPLQWFSSHLPDFCLKKWWHQVCSVKS 1617
            MD+D RC  CG  NE   HLFF C+  K VW+   L+   S L      K   Q    + 
Sbjct: 1282 MDVDTRCVMCGRYNEDAGHLFFKCKPVKKVWQALNLEELRSMLEQQTSGKNVLQSIYCRP 1341

Query: 1618 DFFGQDRMELSVYILWWLWKTRN 1686
                ++    ++  LW  WK RN
Sbjct: 1342 ----ENERTSAIVCLWQWWKERN 1360


>gb|PNX71244.1| ribonuclease H, partial [Trifolium pratense]
          Length = 917

 Score =  375 bits (962), Expect = e-114
 Identities = 225/700 (32%), Positives = 359/700 (51%), Gaps = 5/700 (0%)
 Frame = +1

Query: 1    WIFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLF 180
            W+  C+        VN +  G +VP RG+RQGDPLSPYLF+L++E L+ LI +SL  G  
Sbjct: 164  WMMLCVSSVNYSVLVNFEKVGPIVPGRGLRQGDPLSPYLFLLVTEGLTKLIHKSLASGEL 223

Query: 181  QGIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFS 360
             G+KICR  P ++HL FADD  +FC A+  +   +  IL  + +ASGQ+INL KS V FS
Sbjct: 224  HGVKICRGAPSVSHLLFADDCFLFCRATVAETELLMKILKTYEEASGQEINLAKSEVFFS 283

Query: 361  KNVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFL 540
            +N+S   + D+  ++          YLGLP ++G+ KK IF F+ + + KR+N W    L
Sbjct: 284  RNLSAADQEDLSKIMGVRHVLGTGNYLGLPSMVGRKKKHIFAFLKDRIWKRINAWRGRSL 343

Query: 541  SNAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDR 720
            S AGKE+++K+V+ A+P+YVMS + LP  + K+I ++ + FWWG  G   K I W+AWDR
Sbjct: 344  SRAGKEVMIKSVLQAIPSYVMSVYLLPDGVIKDIERMMNSFWWG-GGANNKGIRWLAWDR 402

Query: 721  MTLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXX 900
            MT+PKD+GG+GF+D+  FN A+IAKQ W ++++P+ +++K+ KA+YF    L   K    
Sbjct: 403  MTIPKDQGGMGFRDLHSFNLAMIAKQGWNIMTKPHTILAKLYKARYFPNSSLFESKLGHN 462

Query: 901  XXXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAKD 1080
                               R+++GNGK I++   PWL    G  L S + +        D
Sbjct: 463  PSYAWRGIWKARQILMNGCRWRVGNGKNIKVMSEPWLRGENGAWLPSPQDQGVHNYNVND 522

Query: 1081 FMRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAYQQ 1260
             M  +    +W+K+ +     +   N+IL + +      D  +W     G+++VK+ Y+ 
Sbjct: 523  LMMSN--VTMWDKDKIESLFSIHIANRILGIPLFDMVEEDKLLWIDSTNGNYNVKSGYKL 580

Query: 1261 LLQHQKWEKDWPESSDRAANNGGNWRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKRGM 1440
            +++      D P+ +         WR  W +    K KH +W+V   C+PT   L++R +
Sbjct: 581  MMKIAGKVHDAPQQA--------AWRDLWSIQAPPKAKHLLWRVSKGCLPTRLRLQERQV 632

Query: 1441 DLDPRCPFCGDDNESVEHLFFHCERAKLVWKLAP-LQWFSSHLP-DFCLKKWWHQVCSVK 1614
                 CP C  +NE   H+FF CE +K  W+ A  LQ   + L  +    +  H +CS +
Sbjct: 633  SCPLLCPVCNQENEDDWHVFFGCEISKQAWQAAGILQNLEARLQHNNNANQLIHTICSTE 692

Query: 1615 SDFFGQDRMELSVYILWWLWKTRNIWVFHKIKWEARDIVSNAYFEWQEFLRVDDYKMVDG 1794
                 ++   +   + W LW  RN  V++      R +   A   W+E+  V   +    
Sbjct: 693  D----KETAGMFAMLAWVLWNNRNNMVWNDTNEPGRSLGIKARVLWEEWNSVQQVQQGHS 748

Query: 1795 -CEQVISSSKCEKPGNNLIQVGHYKIVLSA--VNCLDKGTAFGGCLVDDSGKIIKAWATS 1965
              EQ   +++ + P       G YK  + A     ++K T+ G  L DD G+ + A  T 
Sbjct: 749  RHEQQQHTTRWQTP-----DPGWYKCNVDAGFHQAINK-TSTGWVLRDDRGRFVMAETTW 802

Query: 1966 RELIQNPVEATLLCVRIGLCSVDYLKIKKVDICLDDKDII 2085
             E   + +E   + +   L ++    I KV    D K ++
Sbjct: 803  MEGNCSIMEGESIALIKALETLSQRGISKVIFETDSKSVV 842


>dbj|GAU41525.1| hypothetical protein TSUD_140560 [Trifolium subterraneum]
          Length = 1610

 Score =  386 bits (991), Expect = e-114
 Identities = 217/589 (36%), Positives = 316/589 (53%), Gaps = 3/589 (0%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I +CI        +NGQ S   +P RG+RQGDPLSPYLF+L ++VLS LI +++      
Sbjct: 941  IMRCISTVSYQVLINGQPSSPFIPQRGLRQGDPLSPYLFVLCADVLSGLIHKAVAANNIH 1000

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            GIKI R+ P ++HLFFADD+++   A+  +A  +  ILD + +ASGQ +NLDKS   FS+
Sbjct: 1001 GIKIARSAPQISHLFFADDTLLLARANQVEARIIMKILDEYQQASGQVVNLDKSEASFSR 1060

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
            NV     N IC L+     + Q+RYLG P+  G+SKK IF  V++ V K++  W   FLS
Sbjct: 1061 NVPIEEVNTICELMKVKAVEAQSRYLGFPVPFGRSKKVIFAGVMDRVWKKLKGWKEKFLS 1120

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AGKE L+KAV  A+PNY++SC+KLP   C +I  + ++FWWG S    +KI W++W R+
Sbjct: 1121 RAGKETLIKAVAQAIPNYILSCYKLPEGCCHDIDSMLARFWWG-SKDEERKIHWMSWVRL 1179

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
            +  K KG +G +  S FN AL+ K  WRL + P+ L+SKVLK++YF +   L        
Sbjct: 1180 SKSKSKGRMGLKGFSDFNKALLGKHCWRLSTDPDSLLSKVLKSRYFPRTSFLEAAIGFQP 1239

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAKDF 1083
                              R+ +GNG+  RIW+  WLP+   F  +  +   C L  + D 
Sbjct: 1240 SYGWRSILSAREVLVQGSRWCIGNGRITRIWKDTWLPD---FTKVRSRNATCTL--SDDA 1294

Query: 1084 MRD---SDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAY 1254
            +      D  + WN+ ++ ++   ++  +I+   +      D  IWHWE+ G +SV+ AY
Sbjct: 1295 LVSELIDDQTRQWNRAIIFKFFTNDEALKIVSTPLSLNLPADKIIWHWERDGVYSVRPAY 1354

Query: 1255 QQLLQHQKWEKDWPESSDRAANNGGNWRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKR 1434
              L   +      P SS     +   W+K W+  I NK+K+FM ++  N +PT   L+K+
Sbjct: 1355 HLLCDARDINLPGPSSS----GDDSLWKKIWKAPIPNKVKNFMSRLAKNILPTRDNLKKK 1410

Query: 1435 GMDLDPRCPFCGDDNESVEHLFFHCERAKLVWKLAPLQWFSSHLPDFCLKKWWHQVCSVK 1614
            G+ LD  CP C +D+E+  HLF HC   KL    +PL     H P       W       
Sbjct: 1411 GISLDTSCPLCHNDSENAHHLFMHCNMLKLALFASPL---GCHPPMNVDLNCWLLEWLNC 1467

Query: 1615 SDFFGQDRMELSVYILWWLWKTRNIWVFHKIKWEARDIVSNAYFEWQEF 1761
            SD  G    +L   ILW  W  RN +VF+    E   +  +A    QEF
Sbjct: 1468 SDKLG---AQLFCTILWKFWFARNQYVFNGYPIEPLRLAQSALLFVQEF 1513


>gb|PNY14301.1| ribonuclease H [Trifolium pratense]
          Length = 1196

 Score =  379 bits (974), Expect = e-113
 Identities = 230/725 (31%), Positives = 358/725 (49%), Gaps = 26/725 (3%)
 Frame = +1

Query: 4    IFKCIXXXXXXXNVNGQVSGYVVPSRGIRQGDPLSPYLFILLSEVLSNLIFQSLKCGLFQ 183
            I +CI        +NGQ S    P RG+RQGDPLSPYLFIL ++VLS L+ ++       
Sbjct: 440  IMRCITSVSYQILINGQPSTTFFPERGLRQGDPLSPYLFILCADVLSGLLHKASVSKKLH 499

Query: 184  GIKICRNGPMLTHLFFADDSIVFCEASPFQALSVRTILDRFCKASGQQINLDKSSVMFSK 363
            GIK+ R+ P L+HLFFADDS++F  A+  +A ++  IL  +  ASGQ +NLDKS   FS+
Sbjct: 500  GIKVARSAPQLSHLFFADDSLLFSRANSDEAHTIMKILKTYQNASGQVVNLDKSEASFSR 559

Query: 364  NVSDRIKNDICLLLDGVTEQQQARYLGLPMVIGKSKKEIFQFVVESVSKRVNNWSNTFLS 543
            NV    KN IC ++     + Q+RYLG P+  G+SKK IF FV++ + K+V  W    LS
Sbjct: 560  NVPSIDKNSICNMMGVKAVEAQSRYLGFPIPFGRSKKVIFSFVMDRIWKKVKGWKERCLS 619

Query: 544  NAGKEILLKAVVNALPNYVMSCFKLPVHICKEICKITSKFWWGVSGTGGKKISWVAWDRM 723
             AGKE L+KAV  A+PNY++SC+K+P+  CK+I  + +KFWWG S    +KI W++W R+
Sbjct: 620  RAGKETLIKAVAQAIPNYILSCYKMPLGCCKDIDAMLAKFWWG-SNDDKRKIHWMSWKRL 678

Query: 724  TLPKDKGGLGFQDISLFNDALIAKQLWRLISQPNLLISKVLKAKYFSKGGLLACKPXXXX 903
            + PK+ GG+GF+ +  FN AL+ K  WRL+     L+ KVL+++Y+ KG  +        
Sbjct: 679  SKPKNTGGMGFRGMEDFNKALLGKHCWRLVGGECSLLEKVLRSRYYPKGDFMTASEGYQP 738

Query: 904  XXXXXXXXXXXXXXXXXXRYQLGNGKAIRIWEVPWLPNSPGFKLISQKPEECQLVWAK-- 1077
                              R+ +GNG+ +RIW+  W+ +     L+  +   C L      
Sbjct: 739  SFAWRSIISAREVINLGERWCVGNGQNVRIWKDRWMVDR---NLLRSRTPSCDLDEDSKV 795

Query: 1078 DFMRDSDCGKVWNKELLSQYLCVEDVNQILQVDIKAEDCNDYWIWHWEKKGHFSVKTAYQ 1257
              + D D  + WN+ L+       +  +I+ + +      D  IWHWEK G +SV++AY 
Sbjct: 796  SALIDHDT-RQWNRTLVFNCFDEAEAKKIVSIPLSCRLPLDNRIWHWEKNGAYSVRSAYH 854

Query: 1258 QLLQHQKWEKDWPESSDRAANNGGNWRKCWRLGIKNKLKHFMWKVINNCIPTAWLLRKRG 1437
             L      EK   E           W++ W+  + NK+K+F+W+++ + +PT   L K+G
Sbjct: 855  LLCD----EKRKLEPGPSIVREEKIWKEIWKAPLPNKIKNFLWRLVKDILPTRENLAKKG 910

Query: 1438 MDLDPRCPFCGDDNESVEHLFFHCERAKLVWKLAPLQWFSSHLPDFCLKKWWHQVCSVKS 1617
            ++LD  CP C    ES  HLF HC   +L    + L    SH+P       W        
Sbjct: 911  INLDLSCPLCHHVLESSNHLFMHCNIMRLTLFASNL---GSHIPHSVDLSVWILSWLTCK 967

Query: 1618 DFFGQDRMELSVYILWWLWKTRNIWVFHKIKWEARDIVSNAYFEWQEFLRVDDYKMVDGC 1797
            D  G    +L   +LW  W  RN  +F    ++   + ++A     EF   +  +     
Sbjct: 968  DMIG---TQLFCVLLWKFWYGRNQVIFKDAVFDPILLAADAIEYVHEFNEANPRRCNQVV 1024

Query: 1798 EQVISSSKCEKPGNNLIQVGHYKIVLSAVNCLDKGTAFGGCLVDDSGKIIKAWATSRELI 1977
             Q IS+ + +          + +++ +   C + G    G ++ +        A  RE I
Sbjct: 1025 LQHISAPRLDD--------SNMQLMFTDAGCFNNGYTGWGLVLRNVDGTTSFSACKRENI 1076

Query: 1978 Q-NPVEATLLCVRIGL----------------------CSVDYLKIKKVDICLDD-KDII 2085
            +  P  A  L VR  L                      C      +  +++   D +D++
Sbjct: 1077 EVEPALAEALGVRWALEFALAQHLDNIIILSDAANVVNCIAKRTVLASIELIAQDCRDLL 1136

Query: 2086 CSFTN 2100
            C+F+N
Sbjct: 1137 CNFSN 1141