>gi|15239896|ref|NP_199166.1|  ATP binding / ATP-dependent helicase/ DNA binding / helicase/ 
nucleic acid binding / protein binding / ubiquitin-protein 
ligase/ zinc ion binding [Arabidopsis thaliana]
 gi|60390960|sp|Q9FIY7|SM3L3_ARATH  Putative SWI/SNF-related matrix-associated actin-dependent regulator 
of chromatin subfamily A member 3-like 3 (SMARCA3-like 
protein 3)
 gi|10178192|dbj|BAB11616.1|  DNA repair protein-like [Arabidopsis thaliana]
Length=1277

 Score = 79.7 bits (195),  Expect(2) = 1e-22
 Identities = 35/47 (74%), Positives = 42/47 (89%), Gaps = 0/47 (0%)
 Frame = +1

Query  301   TVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQK  441
             T+LL SLKA G G+NLTAAS V+L++PWWNPAVEEQA+ R+HRIGQK
Sbjct  1180  TILLMSLKAGGVGLNLTAASSVFLMDPWWNPAVEEQAIMRIHRIGQK  1226


 Score = 46.2 bits (108),  Expect(2) = 1e-22
 Identities = 22/46 (47%), Positives = 32/46 (69%), Gaps = 0/46 (0%)
 Frame = +3

Query  138   KKSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
             +KS+VFSQ+ + L LLE PL+  GF+ LR DG +  K R +V++ F
Sbjct  1128  EKSIVFSQWTSFLDLLEIPLRRRGFEFLRFDGKLAQKGREKVLKEF  1173


>gi|58531994|emb|CAE04094.3|  OSJNBa0096F01.3 [Oryza sativa (japonica cultivar-group)]
Length=1132

 Score = 78.6 bits (192),  Expect(2) = 1e-22
 Identities = 35/46 (76%), Positives = 41/46 (89%), Gaps = 0/46 (0%)
 Frame = +1

Query  304   VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQK  441
             VLL SLKA G G+NLTAAS V+L++PWWNPAVEEQA+ R+HRIGQK
Sbjct  1036  VLLMSLKAGGVGLNLTAASNVFLMDPWWNPAVEEQAIMRIHRIGQK  1081


 Score = 47.0 bits (110),  Expect(2) = 1e-22
 Identities = 22/50 (44%), Positives = 30/50 (60%), Gaps = 0/50 (0%)
 Frame = +3

Query  126   QNPTKKSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
             Q   +KS+VFSQF +   LLE P    G K LR DG ++ K R +V++ F
Sbjct  979   QEKREKSIVFSQFTSFFDLLEVPFNQKGIKFLRFDGKLSQKHREKVLKEF  1028


>gi|115457136|ref|NP_001052168.1|  Os04g0177300 [Oryza sativa (japonica cultivar-group)]
 gi|113563739|dbj|BAF14082.1|  Os04g0177300 [Oryza sativa (japonica cultivar-group)]
Length=664

 Score = 78.6 bits (192),  Expect(2) = 1e-22
 Identities = 35/46 (76%), Positives = 41/46 (89%), Gaps = 0/46 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQK  441
            VLL SLKA G G+NLTAAS V+L++PWWNPAVEEQA+ R+HRIGQK
Sbjct  568  VLLMSLKAGGVGLNLTAASNVFLMDPWWNPAVEEQAIMRIHRIGQK  613


 Score = 47.0 bits (110),  Expect(2) = 1e-22
 Identities = 22/50 (44%), Positives = 30/50 (60%), Gaps = 0/50 (0%)
 Frame = +3

Query  126  QNPTKKSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            Q   +KS+VFSQF +   LLE P    G K LR DG ++ K R +V++ F
Sbjct  511  QEKREKSIVFSQFTSFFDLLEVPFNQKGIKFLRFDGKLSQKHREKVLKEF  560


>gi|115446443|ref|NP_001047001.1|  Os02g0527100 [Oryza sativa (japonica cultivar-group)]
 gi|49388292|dbj|BAD25407.1|  putative DNA repair protein rad8 [Oryza sativa (japonica cultivar-group)]
 gi|113536532|dbj|BAF08915.1|  Os02g0527100 [Oryza sativa (japonica cultivar-group)]
Length=810

 Score = 74.7 bits (182),  Expect(2) = 2e-20
 Identities = 33/45 (73%), Positives = 39/45 (86%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            VLL SLKA G GINLTAAS  ++++PWWNPAVEEQA+ R+HRIGQ
Sbjct  714  VLLMSLKAGGVGINLTAASNAFVMDPWWNPAVEEQAIMRIHRIGQ  758


 Score = 43.5 bits (101),  Expect(2) = 2e-20
 Identities = 20/45 (44%), Positives = 30/45 (66%), Gaps = 0/45 (0%)
 Frame = +3

Query  141  KSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            KS++FSQ+   L LL+ PL    F   RLDG++N ++R +VI+ F
Sbjct  662  KSIIFSQWTAFLDLLQIPLSRHNFSFARLDGTLNLQQREKVIKEF  706


>gi|22326612|ref|NP_196132.2|  ATP binding / ATP-dependent helicase/ DNA binding / helicase/ 
nucleic acid binding / protein binding / ubiquitin-protein 
ligase/ zinc ion binding [Arabidopsis thaliana]
 gi|20260624|gb|AAM13210.1|  helicase-like transcription factor-like protein [Arabidopsis 
thaliana]
 gi|31711770|gb|AAP68241.1|  At5g05130 [Arabidopsis thaliana]
Length=862

 Score = 96.3 bits (238),  Expect = 5e-20
 Identities = 44/50 (88%), Positives = 47/50 (94%), Gaps = 0/50 (0%)
 Frame = +1

Query  295  GPTVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQKE  444
            GP VLLASLKASG GINLTAASRVYL +PWWNPAVEEQAMDR+HRIGQK+
Sbjct  759  GPVVLLASLKASGTGINLTAASRVYLFDPWWNPAVEEQAMDRIHRIGQKQ  808


 Score = 95.5 bits (236),  Expect = 9e-20
 Identities = 79/177 (44%), Positives = 100/177 (56%), Gaps = 19/177 (10%)
 Frame = +3

Query  3    QSDLFSAPSESSDADHT--EISSRNttssklsalltllQESQDQNPTKKSVVFSQFRTML  176
            QSDL++AP    D+ +T  E +  +T SSK+SALL+LL  S+ +NP  KSVVFSQFR ML
Sbjct  660  QSDLYNAPPPPPDSSNTDGEDAKSSTKSSKVSALLSLLMASRQENPNTKSVVFSQFRKML  719

Query  177  LLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQVPEADGP----DSFACKSQGFR----  332
            LLLE PLKAAGF ILRLDG+M  K+R QVI  F  PE  GP     S      G      
Sbjct  720  LLLETPLKAAGFTILRLDGAMTVKKRTQVIGEFGNPELTGPVVLLASLKASGTGINLTAA  779

Query  333  CRYQPYSCF*SLLVGAMVESSCRRTGYG*GSPDWAEGRM*RLCRLIARNSIEERVME  503
             R   +  + +  V         R G         + +  ++ R+IARNSIEERV+E
Sbjct  780  SRVYLFDPWWNPAVEEQAMDRIHRIG---------QKQEVKMIRMIARNSIEERVLE  827


>gi|60390959|sp|Q9FF61|SM3L1_ARATH  Putative SWI/SNF-related matrix-associated actin-dependent regulator 
of chromatin subfamily A member 3-like 1 (SMARCA3-like 
protein 1)
 gi|10178052|dbj|BAB11535.1|  helicase-like transcription factor-like protein [Arabidopsis 
thaliana]
Length=881

 Score = 96.3 bits (238),  Expect = 5e-20
 Identities = 44/50 (88%), Positives = 47/50 (94%), Gaps = 0/50 (0%)
 Frame = +1

Query  295  GPTVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQKE  444
            GP VLLASLKASG GINLTAASRVYL +PWWNPAVEEQAMDR+HRIGQK+
Sbjct  778  GPVVLLASLKASGTGINLTAASRVYLFDPWWNPAVEEQAMDRIHRIGQKQ  827


 Score = 95.5 bits (236),  Expect = 9e-20
 Identities = 79/177 (44%), Positives = 100/177 (56%), Gaps = 19/177 (10%)
 Frame = +3

Query  3    QSDLFSAPSESSDADHT--EISSRNttssklsalltllQESQDQNPTKKSVVFSQFRTML  176
            QSDL++AP    D+ +T  E +  +T SSK+SALL+LL  S+ +NP  KSVVFSQFR ML
Sbjct  679  QSDLYNAPPPPPDSSNTDGEDAKSSTKSSKVSALLSLLMASRQENPNTKSVVFSQFRKML  738

Query  177  LLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQVPEADGP----DSFACKSQGFR----  332
            LLLE PLKAAGF ILRLDG+M  K+R QVI  F  PE  GP     S      G      
Sbjct  739  LLLETPLKAAGFTILRLDGAMTVKKRTQVIGEFGNPELTGPVVLLASLKASGTGINLTAA  798

Query  333  CRYQPYSCF*SLLVGAMVESSCRRTGYG*GSPDWAEGRM*RLCRLIARNSIEERVME  503
             R   +  + +  V         R G         + +  ++ R+IARNSIEERV+E
Sbjct  799  SRVYLFDPWWNPAVEEQAMDRIHRIG---------QKQEVKMIRMIARNSIEERVLE  846


>gi|45935136|gb|AAS79594.1|  putative DNA repair protein [Ipomoea trifida]
 gi|117166029|dbj|BAF36331.1|  hypothetical protein [Ipomoea trifida]
Length=1040

 Score = 75.9 bits (185),  Expect(2) = 1e-19
 Identities = 35/45 (77%), Positives = 39/45 (86%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            VLL SLKA G GINLTAAS  ++L+PWWNPAVEEQA+ RVHRIGQ
Sbjct  944  VLLMSLKAGGVGINLTAASNAFVLDPWWNPAVEEQAVMRVHRIGQ  988


 Score = 39.7 bits (91),  Expect(2) = 1e-19
 Identities = 20/45 (44%), Positives = 29/45 (64%), Gaps = 0/45 (0%)
 Frame = +3

Query  141  KSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            KS+VFSQ+   L LL+  L       LRLDG++N ++R +VI+ F
Sbjct  892  KSIVFSQWTAFLDLLQIALARNDISFLRLDGTLNQQQREKVIKRF  936


>gi|15242960|ref|NP_197667.1|  RAD5; ATP binding / ATP-dependent helicase/ DNA binding / helicase/ 
nucleic acid binding / protein binding / ubiquitin-protein 
ligase/ zinc ion binding [Arabidopsis thaliana]
 gi|60390961|sp|Q9FNI6|SM3L2_ARATH  Putative SWI/SNF-related matrix-associated actin-dependent regulator 
of chromatin subfamily A member 3-like 2 (SMARCA3-like 
protein 2)
 gi|10178249|dbj|BAB11681.1|  DNA repair protein RAD5 protein [Arabidopsis thaliana]
 gi|110737306|dbj|BAF00599.1|  hypothetical protein [Arabidopsis thaliana]
Length=1029

 Score = 74.7 bits (182),  Expect(2) = 1e-19
 Identities = 33/45 (73%), Positives = 39/45 (86%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            VLL SLKA G GINLTAAS  ++++PWWNPAVEEQA+ R+HRIGQ
Sbjct  933  VLLMSLKAGGVGINLTAASNAFVMDPWWNPAVEEQAVMRIHRIGQ  977


 Score = 40.8 bits (94),  Expect(2) = 1e-19
 Identities = 18/45 (40%), Positives = 31/45 (68%), Gaps = 0/45 (0%)
 Frame = +3

Query  141  KSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            KS++FSQ+   L LL+ PL    F  +RLDG+++ ++R +V++ F
Sbjct  881  KSILFSQWTAFLDLLQIPLSRNNFSFVRLDGTLSQQQREKVLKEF  925


>gi|115472329|ref|NP_001059763.1|  Os07g0511500 [Oryza sativa (japonica cultivar-group)]
 gi|113611299|dbj|BAF21677.1|  Os07g0511500 [Oryza sativa (japonica cultivar-group)]
Length=635

 Score = 72.0 bits (175),  Expect(2) = 1e-18
 Identities = 30/45 (66%), Positives = 36/45 (80%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            + L SLKA G  +NLT AS V+L++PWWNPAVE QA DR+HRIGQ
Sbjct  536  IFLMSLKAGGVALNLTVASHVFLMDPWWNPAVESQAQDRIHRIGQ  580


 Score = 40.0 bits (92),  Expect(2) = 1e-18
 Identities = 18/51 (35%), Positives = 32/51 (62%), Gaps = 0/51 (0%)
 Frame = +3

Query  123  DQNPTKKSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            + + + K +VFSQF + L L+E  L+ +G K ++L+G MN   + + I+ F
Sbjct  478  EHDGSAKGIVFSQFTSFLDLIEFSLQKSGIKCVQLNGKMNIVEKGKAIDTF  528


>gi|50509490|dbj|BAD31171.1|  putative DNA repair protein rhp16 [Oryza sativa (japonica cultivar-group)]
Length=569

 Score = 72.0 bits (175),  Expect(2) = 1e-18
 Identities = 30/45 (66%), Positives = 36/45 (80%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            + L SLKA G  +NLT AS V+L++PWWNPAVE QA DR+HRIGQ
Sbjct  470  IFLMSLKAGGVALNLTVASHVFLMDPWWNPAVESQAQDRIHRIGQ  514


 Score = 40.0 bits (92),  Expect(2) = 1e-18
 Identities = 18/51 (35%), Positives = 32/51 (62%), Gaps = 0/51 (0%)
 Frame = +3

Query  123  DQNPTKKSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            + + + K +VFSQF + L L+E  L+ +G K ++L+G MN   + + I+ F
Sbjct  412  EHDGSAKGIVFSQFTSFLDLIEFSLQKSGIKCVQLNGKMNIVEKGKAIDTF  462


>gi|115473675|ref|NP_001060436.1|  Os07g0642400 [Oryza sativa (japonica cultivar-group)]
 gi|23237908|dbj|BAC16482.1|  putative RUSH-1alpha [Oryza sativa (japonica cultivar-group)]
 gi|50509930|dbj|BAD30251.1|  putative RUSH-1alpha [Oryza sativa (japonica cultivar-group)]
 gi|113611972|dbj|BAF22350.1|  Os07g0642400 [Oryza sativa (japonica cultivar-group)]
Length=821

 Score = 89.7 bits (221),  Expect = 5e-18
 Identities = 41/47 (87%), Positives = 44/47 (93%), Gaps = 0/47 (0%)
 Frame = +1

Query  298  PTVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            PTVLLASLKA+GAG+NLTAAS VYL +PWWNP VEEQAMDRVHRIGQ
Sbjct  717  PTVLLASLKAAGAGVNLTAASTVYLFDPWWNPGVEEQAMDRVHRIGQ  763


 Score = 84.3 bits (207),  Expect = 2e-16
 Identities = 70/181 (38%), Positives = 93/181 (51%), Gaps = 29/181 (16%)
 Frame = +3

Query  3    QSDLFSAPSESSDADHTEISSRNttssklsalltllQESQDQNPTKKSVVFSQFRTMLLL  182
            + DLF AP      + + ++     SSK+ ALL LL+ SQ ++P  KSV+FSQFR ML+L
Sbjct  619  KEDLFIAPEIKHPDEDSSVNLDRPLSSKVQALLKLLRRSQSEDPLSKSVIFSQFRKMLIL  678

Query  183  LEKPLKAAGFKILRLDGSMNAKRRAQVIENFQVPEADGPDSFACKSQGFRCRYQPYSCF*  362
            LE PLKAAGF ILRLDGSM AK+R++VI  F     D P       +             
Sbjct  679  LEGPLKAAGFNILRLDGSMTAKKRSEVIRQFGCVGPDSPTVLLASLKA------------  726

Query  363  SLLVGAMVESSCRRTGY------G*GSPDWAEGRM*RL--------CRLIARNSIEERVM  500
                GA V  +   T Y        G  + A  R+ R+         RLI ++SIEER++
Sbjct  727  ---AGAGVNLTAASTVYLFDPWWNPGVEEQAMDRVHRIGQTKEVKVVRLIVKDSIEERML  783

Query  501  E  503
            E
Sbjct  784  E  784


>gi|116061225|emb|CAL56613.1|  Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box 
superfamily (ISS) [Ostreococcus tauri]
Length=1008

 Score = 68.9 bits (167),  Expect(2) = 2e-17
 Identities = 31/46 (67%), Positives = 38/46 (82%), Gaps = 0/46 (0%)
 Frame = +1

Query  301  TVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            +V+L SLK+ G G+NL AA+ VY+LEPWWNPAVE QA+ R HRIGQ
Sbjct  908  SVILMSLKSGGEGLNLQAANYVYVLEPWWNPAVEMQAVMRAHRIGQ  953


 Score = 39.3 bits (90),  Expect(2) = 2e-17
 Identities = 20/54 (37%), Positives = 33/54 (61%), Gaps = 0/54 (0%)
 Frame = +3

Query  117  SQDQNPTKKSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQ  278
            +Q+     K++VFSQ+  M+ ++E  LK A F I +L GSM   +RA  ++ F+
Sbjct  849  NQENGQLNKAIVFSQYTAMIEIVEWRLKKAKFTIAKLLGSMPVTQRAANLQAFR  902


>gi|15217826|ref|NP_171767.1|  ATP binding / ATP-dependent helicase/ DNA binding / helicase/ 
nucleic acid binding [Arabidopsis thaliana]
Length=678

 Score = 73.2 bits (178),  Expect(2) = 7e-17
 Identities = 31/45 (68%), Positives = 38/45 (84%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            VLL SL+A G  +NLTAAS V++++PWWNPAVE QA DR+HRIGQ
Sbjct  579  VLLMSLQAGGVALNLTAASHVFMMDPWWNPAVERQAQDRIHRIGQ  623


 Score = 33.1 bits (74),  Expect(2) = 7e-17
 Identities = 16/46 (34%), Positives = 28/46 (60%), Gaps = 0/46 (0%)
 Frame = +3

Query  141  KSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQ  278
            K++VFSQF + L L+   L  +G   ++L GSM+   +   ++NF+
Sbjct  527  KAIVFSQFTSFLDLISYALGKSGVSCVQLVGSMSKAAKDAALKNFK  572


>gi|9972383|gb|AAG10633.1|AC022521_11  Similar nucleotide excision repair proteins [Arabidopsis thaliana]
Length=627

 Score = 73.2 bits (178),  Expect(2) = 7e-17
 Identities = 31/45 (68%), Positives = 38/45 (84%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            VLL SL+A G  +NLTAAS V++++PWWNPAVE QA DR+HRIGQ
Sbjct  496  VLLMSLQAGGVALNLTAASHVFMMDPWWNPAVERQAQDRIHRIGQ  540


 Score = 33.1 bits (74),  Expect(2) = 7e-17
 Identities = 16/46 (34%), Positives = 28/46 (60%), Gaps = 0/46 (0%)
 Frame = +3

Query  141  KSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQ  278
            K++VFSQF + L L+   L  +G   ++L GSM+   +   ++NF+
Sbjct  444  KAIVFSQFTSFLDLISYALGKSGVSCVQLVGSMSKAAKDAALKNFK  489


>gi|15220993|ref|NP_172004.1|  ATP binding / ATP-dependent helicase/ DNA binding / helicase/ 
nucleic acid binding / ubiquitin-protein ligase/ zinc ion binding 
[Arabidopsis thaliana]
Length=833

 Score = 71.6 bits (174),  Expect(2) = 3e-16
 Identities = 30/45 (66%), Positives = 36/45 (80%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            V L SLKA G  +NLT AS V++++PWWNPAVE QA DR+HRIGQ
Sbjct  734  VFLMSLKAGGVALNLTVASHVFMMDPWWNPAVERQAQDRIHRIGQ  778


 Score = 32.3 bits (72),  Expect(2) = 3e-16
 Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 0/52 (0%)
 Frame = +3

Query  123  DQNPTKKSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQ  278
            +++ + K++VFSQF + L L+   L   G   ++L GSM    R   I  F+
Sbjct  676  ERDGSAKAIVFSQFTSFLDLINYTLGKCGVSCVQLVGSMTMAARDTAINKFK  727


>gi|53792213|dbj|BAD52846.1|  putative ATPase [Oryza sativa (japonica cultivar-group)]
Length=1228

 Score = 62.0 bits (149),  Expect(2) = 2e-15
 Identities = 26/46 (56%), Positives = 35/46 (76%), Gaps = 0/46 (0%)
 Frame = +1

Query  301   TVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
             +V++ SLKA+  G+N+ AA  V LL+ WWNP  E+QA+DR HRIGQ
Sbjct  1126  SVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAVDRAHRIGQ  1171


 Score = 39.7 bits (91),  Expect(2) = 2e-15
 Identities = 19/47 (40%), Positives = 32/47 (68%), Gaps = 0/47 (0%)
 Frame = +3

Query  135   TKKSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
             T+K++VFSQ+  ML L+E  LK++     RLDG+M+   R + +++F
Sbjct  1073  TEKAIVFSQWTRMLDLVEVHLKSSHLSYRRLDGTMSVAARDRAVKDF  1119


>gi|115440307|ref|NP_001044433.1|  Os01g0779400 [Oryza sativa (japonica cultivar-group)]
 gi|53792212|dbj|BAD52845.1|  putative ATPase [Oryza sativa (japonica cultivar-group)]
 gi|113533964|dbj|BAF06347.1|  Os01g0779400 [Oryza sativa (japonica cultivar-group)]
Length=1213

 Score = 62.0 bits (149),  Expect(2) = 2e-15
 Identities = 26/46 (56%), Positives = 35/46 (76%), Gaps = 0/46 (0%)
 Frame = +1

Query  301   TVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
             +V++ SLKA+  G+N+ AA  V LL+ WWNP  E+QA+DR HRIGQ
Sbjct  1111  SVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAVDRAHRIGQ  1156


 Score = 39.7 bits (91),  Expect(2) = 2e-15
 Identities = 19/47 (40%), Positives = 32/47 (68%), Gaps = 0/47 (0%)
 Frame = +3

Query  135   TKKSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
             T+K++VFSQ+  ML L+E  LK++     RLDG+M+   R + +++F
Sbjct  1058  TEKAIVFSQWTRMLDLVEVHLKSSHLSYRRLDGTMSVAARDRAVKDF  1104


>gi|15219872|ref|NP_176309.1|  ATP binding / ATP-dependent helicase/ DNA binding / helicase/ 
nucleic acid binding / protein binding / ubiquitin-protein 
ligase/ zinc ion binding [Arabidopsis thaliana]
Length=1287

 Score = 62.8 bits (151),  Expect(2) = 2e-15
 Identities = 26/46 (56%), Positives = 35/46 (76%), Gaps = 0/46 (0%)
 Frame = +1

Query  301   TVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
             TV++ SLKA+  G+N+ AA  V +L+ WWNP  E+QA+DR HRIGQ
Sbjct  1183  TVMIMSLKAASLGLNMVAACHVLMLDLWWNPTTEDQAIDRAHRIGQ  1228


 Score = 38.5 bits (88),  Expect(2) = 2e-15
 Identities = 20/51 (39%), Positives = 34/51 (66%), Gaps = 1/51 (1%)
 Frame = +3

Query  138   KKSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQ-VPE  287
             +K++VFSQ+  ML LLE  L ++  +  RLDG+M+   R + +++F  +PE
Sbjct  1131  EKAIVFSQWTKMLNLLEASLVSSHIQYRRLDGTMSVAARDKAVQDFNTLPE  1181


>gi|2443887|gb|AAB71480.1|  Similar to transcription factor gb|Z46606|1658307 and others 
[Arabidopsis thaliana]
Length=1272

 Score = 62.8 bits (151),  Expect(2) = 2e-15
 Identities = 26/46 (56%), Positives = 35/46 (76%), Gaps = 0/46 (0%)
 Frame = +1

Query  301   TVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
             TV++ SLKA+  G+N+ AA  V +L+ WWNP  E+QA+DR HRIGQ
Sbjct  1183  TVMIMSLKAASLGLNMVAACHVLMLDLWWNPTTEDQAIDRAHRIGQ  1228


 Score = 38.5 bits (88),  Expect(2) = 2e-15
 Identities = 20/51 (39%), Positives = 34/51 (66%), Gaps = 1/51 (1%)
 Frame = +3

Query  138   KKSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQ-VPE  287
             +K++VFSQ+  ML LLE  L ++  +  RLDG+M+   R + +++F  +PE
Sbjct  1131  EKAIVFSQWTKMLNLLEASLVSSHIQYRRLDGTMSVAARDKAVQDFNTLPE  1181


>gi|1931638|gb|AAB65473.1|  transcription factor RUSH-1alpha isolog; 18684-24052 [Arabidopsis 
thaliana]
Length=1227

 Score = 61.2 bits (147),  Expect(2) = 4e-15
 Identities = 25/46 (54%), Positives = 35/46 (76%), Gaps = 0/46 (0%)
 Frame = +1

Query  301   TVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
             +V++ SLKA+  G+N+ AA  V +L+ WWNP  E+QA+DR HRIGQ
Sbjct  1125  SVMIMSLKAASLGLNMVAACHVIMLDLWWNPTTEDQAIDRAHRIGQ  1170


 Score = 38.9 bits (89),  Expect(2) = 4e-15
 Identities = 18/46 (39%), Positives = 29/46 (63%), Gaps = 0/46 (0%)
 Frame = +3

Query  138   KKSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
             +K++VF+Q+  ML LLE  LK++G +  R DG M    R   +++F
Sbjct  1073  EKAIVFTQWTKMLDLLEAGLKSSGIQYRRFDGKMTVPARDAAVQDF  1118


>gi|42561912|ref|NP_172577.2|  ATP binding / ATP-dependent helicase/ DNA binding / helicase/ 
nucleic acid binding / ubiquitin-protein ligase/ zinc ion binding 
[Arabidopsis thaliana]
Length=1226

 Score = 61.2 bits (147),  Expect(2) = 4e-15
 Identities = 25/46 (54%), Positives = 35/46 (76%), Gaps = 0/46 (0%)
 Frame = +1

Query  301   TVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
             +V++ SLKA+  G+N+ AA  V +L+ WWNP  E+QA+DR HRIGQ
Sbjct  1124  SVMIMSLKAASLGLNMVAACHVIMLDLWWNPTTEDQAIDRAHRIGQ  1169


 Score = 38.9 bits (89),  Expect(2) = 4e-15
 Identities = 18/46 (39%), Positives = 29/46 (63%), Gaps = 0/46 (0%)
 Frame = +3

Query  138   KKSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
             +K++VF+Q+  ML LLE  LK++G +  R DG M    R   +++F
Sbjct  1072  EKAIVFTQWTKMLDLLEAGLKSSGIQYRRFDGKMTVPARDAAVQDF  1117


>gi|90399293|emb|CAH68165.1|  H0323C08.5 [Oryza sativa (indica cultivar-group)]
 gi|116312065|emb|CAJ86429.1|  H0303G06.18 [Oryza sativa (indica cultivar-group)]
Length=1051

 Score = 63.5 bits (153),  Expect(2) = 4e-15
 Identities = 26/45 (57%), Positives = 34/45 (75%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            V+L SLKA   G+N+ AA  V +++PWWNP  E+QA+DR HRIGQ
Sbjct  950  VMLMSLKAGNLGLNMVAACHVIMIDPWWNPYAEDQAVDRAHRIGQ  994


 Score = 36.6 bits (83),  Expect(2) = 4e-15
 Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 0/55 (0%)
 Frame = +3

Query  111  QESQDQNPTKKSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            + S  +    K++VFSQ+  +L LLE  L ++  K  RLDG+M+   R   +  F
Sbjct  888  ESSPSEVAPSKAIVFSQWTGLLDLLELSLDSSRIKFRRLDGAMSLNLREAAVREF  942


>gi|115460732|ref|NP_001053966.1|  Os04g0629300 [Oryza sativa (japonica cultivar-group)]
 gi|39546244|emb|CAE04253.3|  OSJNBa0089N06.14 [Oryza sativa (japonica cultivar-group)]
 gi|113565537|dbj|BAF15880.1|  Os04g0629300 [Oryza sativa (japonica cultivar-group)]
Length=1051

 Score = 63.5 bits (153),  Expect(2) = 4e-15
 Identities = 26/45 (57%), Positives = 34/45 (75%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            V+L SLKA   G+N+ AA  V +++PWWNP  E+QA+DR HRIGQ
Sbjct  950  VMLMSLKAGNLGLNMVAACHVIMIDPWWNPYAEDQAVDRAHRIGQ  994


 Score = 36.6 bits (83),  Expect(2) = 4e-15
 Identities = 19/55 (34%), Positives = 30/55 (54%), Gaps = 0/55 (0%)
 Frame = +3

Query  111  QESQDQNPTKKSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            + S  +    K++VFSQ+  +L LLE  L ++  K  RLDG+M+   R   +  F
Sbjct  888  ESSPSEVAPSKAIVFSQWTGLLDLLELSLDSSRIKFRRLDGAMSLNLREAAVREF  942


>gi|15231009|ref|NP_188635.1|  ATP binding / ATP-dependent helicase/ DNA binding / helicase/ 
nucleic acid binding / protein binding / ubiquitin-protein 
ligase/ zinc ion binding [Arabidopsis thaliana]
 gi|11994776|dbj|BAB03166.1|  transcription factor-like protein [Arabidopsis thaliana]
Length=1047

 Score = 62.0 bits (149),  Expect(2) = 4e-15
 Identities = 27/45 (60%), Positives = 33/45 (73%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            V+L SLKA   G+N+ AA  V LL+ WWNP  E+QA+DR HRIGQ
Sbjct  946  VMLMSLKAGNLGLNMVAACHVILLDLWWNPTTEDQAIDRAHRIGQ  990


 Score = 38.1 bits (87),  Expect(2) = 4e-15
 Identities = 22/89 (24%), Positives = 43/89 (48%), Gaps = 3/89 (3%)
 Frame = +3

Query  18   SAPSESSDADHTEISSRNttssklsalltllQESQDQNPTK---KSVVFSQFRTMLLLLE  188
            S P   + A H ++ S +         +         +P++   K+++FSQ+  ML L+E
Sbjct  850  SQPDSPNSAQHGQMPSSSRPYDDDDVTIVEPMRLHSSSPSQGAVKTIIFSQWTGMLDLVE  909

Query  189  KPLKAAGFKILRLDGSMNAKRRAQVIENF  275
              +  +G +  RLDG+M+   R + ++ F
Sbjct  910  LRILESGIEFRRLDGTMSLAARDRAVKEF  938


>gi|115475083|ref|NP_001061138.1|  Os08g0180300 [Oryza sativa (japonica cultivar-group)]
 gi|46805057|dbj|BAD17038.1|  putative SNF2 domain-containing protein [Oryza sativa (japonica 
cultivar-group)]
 gi|113623107|dbj|BAF23052.1|  Os08g0180300 [Oryza sativa (japonica cultivar-group)]
Length=1030

 Score = 60.5 bits (145),  Expect(2) = 4e-14
 Identities = 26/45 (57%), Positives = 33/45 (73%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            V++ SLKA   G+N+ AA  V LL+ WWNP  E+QA+DR HRIGQ
Sbjct  929  VMIMSLKAGNLGLNMVAACHVILLDLWWNPYAEDQAIDRAHRIGQ  973


 Score = 36.6 bits (83),  Expect(2) = 4e-14
 Identities = 20/58 (34%), Positives = 36/58 (62%), Gaps = 4/58 (6%)
 Frame = +3

Query  114  ESQDQNPTK----KSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            ++ + NP++    K++VFSQ+  ML LLE  L +   +  RLDG+M+   R + +++F
Sbjct  864  DTVESNPSRVAPVKAIVFSQWTGMLDLLELSLNSNLIQYRRLDGTMSLNSRDKAVKDF  921


>gi|9454567|gb|AAF87890.1|AC012561_23  Similar tp transcription factors [Arabidopsis thaliana]
Length=1062

 Score = 60.8 bits (146),  Expect(2) = 6e-13
 Identities = 26/45 (57%), Positives = 33/45 (73%), Gaps = 0/45 (0%)
 Frame = +1

Query  304   VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
             V++ SLKA   G+N+ AA  V LL+ WWNP  E+QA+DR HRIGQ
Sbjct  961   VMIMSLKAGNLGLNMIAACHVILLDLWWNPTTEDQAIDRAHRIGQ  1005


 Score = 32.0 bits (71),  Expect(2) = 6e-13
 Identities = 16/45 (35%), Positives = 27/45 (60%), Gaps = 0/45 (0%)
 Frame = +3

Query  141  KSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            K+++FSQ+  ML L+E  L     +  RLDG+M+   R + ++ F
Sbjct  909  KTIIFSQWTGMLDLVELSLIENSIEFRRLDGTMSLIARDRAVKEF  953


>gi|18403061|ref|NP_564568.1|  ATP binding / ATP-dependent helicase/ DNA binding / helicase/ 
nucleic acid binding / protein binding / ubiquitin-protein 
ligase/ zinc ion binding [Arabidopsis thaliana]
 gi|14532630|gb|AAK64043.1|  putative DNA-binding protein [Arabidopsis thaliana]
 gi|23296945|gb|AAN13207.1|  putative DNA-binding protein [Arabidopsis thaliana]
Length=981

 Score = 60.8 bits (146),  Expect(2) = 6e-13
 Identities = 26/45 (57%), Positives = 33/45 (73%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            V++ SLKA   G+N+ AA  V LL+ WWNP  E+QA+DR HRIGQ
Sbjct  880  VMIMSLKAGNLGLNMIAACHVILLDLWWNPTTEDQAIDRAHRIGQ  924


 Score = 32.0 bits (71),  Expect(2) = 6e-13
 Identities = 16/45 (35%), Positives = 27/45 (60%), Gaps = 0/45 (0%)
 Frame = +3

Query  141  KSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            K+++FSQ+  ML L+E  L     +  RLDG+M+   R + ++ F
Sbjct  828  KTIIFSQWTGMLDLVELSLIENSIEFRRLDGTMSLIARDRAVKEF  872


>gi|4733988|gb|AAD28668.1|  putative chromodomain-helicase-DNA-binding protein [Arabidopsis 
thaliana]
Length=1738

 Score = 48.5 bits (114),  Expect(2) = 5e-12
 Identities = 23/45 (51%), Positives = 28/45 (62%), Gaps = 0/45 (0%)
 Frame = +1

Query  310   LASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQKE  444
             L S +A G GINL  A  V + +  WNP  + QAM R HRIGQ+E
Sbjct  1026  LLSTRAGGLGINLATADTVVIFDSDWNPQNDLQAMSRAHRIGQQE  1070


 Score = 41.2 bits (95),  Expect(2) = 5e-12
 Identities = 20/49 (40%), Positives = 30/49 (61%), Gaps = 0/49 (0%)
 Frame = +3

Query  147   VVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQVPEAD  293
             ++FSQ   ML +L + L   GF+  RLDGS  A+ R Q +++F  P +D
Sbjct  973   LIFSQMVRMLDILAEYLSLRGFQFQRLDGSTKAELRQQAMDHFNAPASD  1021


>gi|42569009|ref|NP_178970.2|  ATP binding / ATP-dependent helicase/ DNA binding / chromatin 
binding / helicase/ nucleic acid binding [Arabidopsis thaliana]
Length=1722

 Score = 48.5 bits (114),  Expect(2) = 5e-12
 Identities = 23/45 (51%), Positives = 28/45 (62%), Gaps = 0/45 (0%)
 Frame = +1

Query  310   LASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQKE  444
             L S +A G GINL  A  V + +  WNP  + QAM R HRIGQ+E
Sbjct  1010  LLSTRAGGLGINLATADTVVIFDSDWNPQNDLQAMSRAHRIGQQE  1054


 Score = 41.2 bits (95),  Expect(2) = 5e-12
 Identities = 20/49 (40%), Positives = 30/49 (61%), Gaps = 0/49 (0%)
 Frame = +3

Query  147   VVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQVPEAD  293
             ++FSQ   ML +L + L   GF+  RLDGS  A+ R Q +++F  P +D
Sbjct  957   LIFSQMVRMLDILAEYLSLRGFQFQRLDGSTKAELRQQAMDHFNAPASD  1005


>gi|62319947|dbj|BAD94038.1|  pseudogene [Arabidopsis thaliana]
Length=1221

 Score = 48.5 bits (114),  Expect(2) = 5e-12
 Identities = 23/45 (51%), Positives = 28/45 (62%), Gaps = 0/45 (0%)
 Frame = +1

Query  310   LASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQKE  444
             L S +A G GINL  A  V + +  WNP  + QAM R HRIGQ+E
Sbjct  1012  LLSTRAGGLGINLATADTVVIFDSDWNPQNDLQAMSRAHRIGQQE  1056


 Score = 41.2 bits (95),  Expect(2) = 5e-12
 Identities = 20/49 (40%), Positives = 30/49 (61%), Gaps = 0/49 (0%)
 Frame = +3

Query  147   VVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQVPEAD  293
             ++FSQ   ML +L + L   GF+  RLDGS  A+ R Q +++F  P +D
Sbjct  959   LIFSQMVRMLDILAEYLSLRGFQFQRLDGSTKAELRQQAMDHFNAPASD  1007


>gi|115473863|ref|NP_001060530.1|  Os07g0660200 [Oryza sativa (japonica cultivar-group)]
 gi|113612066|dbj|BAF22444.1|  Os07g0660200 [Oryza sativa (japonica cultivar-group)]
Length=631

 Score = 48.5 bits (114),  Expect(2) = 7e-12
 Identities = 23/45 (51%), Positives = 28/45 (62%), Gaps = 0/45 (0%)
 Frame = +1

Query  310  LASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQKE  444
            L S +A G GINL  A  V + +  WNP  + QAM R HRIGQ+E
Sbjct  76   LLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAMSRAHRIGQQE  120


 Score = 40.8 bits (94),  Expect(2) = 7e-12
 Identities = 21/49 (42%), Positives = 29/49 (59%), Gaps = 0/49 (0%)
 Frame = +3

Query  147  VVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQVPEAD  293
            ++FSQ   ML +L + L   GF+  RLDGS  A  R Q +E+F  P +D
Sbjct  23   LIFSQMVRMLDILAEYLSLRGFQFQRLDGSTRADLRHQAMEHFNAPGSD  71


>gi|22328039|ref|NP_201200.2|  ATP binding / ATP-dependent helicase/ DNA binding / helicase/ 
nucleic acid binding [Arabidopsis thaliana]
 gi|18087573|gb|AAL58917.1|AF462829_1  AT5g63950/MBM17_5 [Arabidopsis thaliana]
 gi|22655364|gb|AAM98274.1|  At5g63950/MBM17_5 [Arabidopsis thaliana]
Length=1090

 Score = 48.9 bits (115),  Expect(2) = 9e-12
 Identities = 22/49 (44%), Positives = 33/49 (67%), Gaps = 1/49 (2%)
 Frame = +1

Query  292  MGPTVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            + P  LL S +  G G+ LT A RV +++P WNP+ + Q++DR +RIGQ
Sbjct  799  VAPIFLLTS-QVGGLGLTLTKADRVIVVDPAWNPSTDNQSVDRAYRIGQ  846


 Score = 40.0 bits (92),  Expect(2) = 9e-12
 Identities = 18/44 (40%), Positives = 28/44 (63%), Gaps = 0/44 (0%)
 Frame = +3

Query  147  VVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQ  278
            ++FSQ R ML L++  L + G+  LR+DG+  A  R + +E FQ
Sbjct  752  LIFSQTRKMLNLIQDSLTSNGYSFLRIDGTTKAPDRLKTVEEFQ  795


>gi|30694618|ref|NP_191289.2|  ATP binding / ATP-dependent helicase/ DNA binding / helicase/ 
nucleic acid binding [Arabidopsis thaliana]
Length=1507

 Score = 54.7 bits (130),  Expect(2) = 2e-11
 Identities = 26/45 (57%), Positives = 30/45 (66%), Gaps = 0/45 (0%)
 Frame = +1

Query  304   VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
             V L S +A G GINLTAA  V   E  WNP ++ QAMDR HR+GQ
Sbjct  1276  VFLLSTRAGGLGINLTAADTVIFYESDWNPTLDLQAMDRAHRLGQ  1320


 Score = 32.7 bits (73),  Expect(2) = 2e-11
 Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 0/44 (0%)
 Frame = +3

Query  147   VVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQ  278
             ++F+Q   ML +LE  +    +K LRLDGS     R  ++ +FQ
Sbjct  1226  LLFAQMTKMLNILEDYMNYRKYKYLRLDGSSTIMDRRDMVRDFQ  1269


>gi|6735309|emb|CAB68136.1|  helicase-like protein [Arabidopsis thaliana]
Length=1496

 Score = 54.7 bits (130),  Expect(2) = 2e-11
 Identities = 26/45 (57%), Positives = 30/45 (66%), Gaps = 0/45 (0%)
 Frame = +1

Query  304   VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
             V L S +A G GINLTAA  V   E  WNP ++ QAMDR HR+GQ
Sbjct  1276  VFLLSTRAGGLGINLTAADTVIFYESDWNPTLDLQAMDRAHRLGQ  1320


 Score = 32.7 bits (73),  Expect(2) = 2e-11
 Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 0/44 (0%)
 Frame = +3

Query  147   VVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQ  278
             ++F+Q   ML +LE  +    +K LRLDGS     R  ++ +FQ
Sbjct  1226  LLFAQMTKMLNILEDYMNYRKYKYLRLDGSSTIMDRRDMVRDFQ  1269


>gi|19347965|gb|AAL86315.1|  putative helicase [Arabidopsis thaliana]
Length=744

 Score = 54.7 bits (130),  Expect(2) = 3e-11
 Identities = 26/45 (57%), Positives = 30/45 (66%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            V L S +A G GINLTAA  V   E  WNP ++ QAMDR HR+GQ
Sbjct  513  VFLLSTRAGGLGINLTAADTVIFYESDWNPTLDLQAMDRAHRLGQ  557


 Score = 32.7 bits (73),  Expect(2) = 3e-11
 Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 0/44 (0%)
 Frame = +3

Query  147  VVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQ  278
            ++F+Q   ML +LE  +    +K LRLDGS     R  ++ +FQ
Sbjct  463  LLFAQMTKMLNILEDYMNYRKYKYLRLDGSSTIMDRRDMVRDFQ  506


>gi|4056415|gb|AAC97989.1|AAC97989  Similar to the end of DNA repair protein gb|X74615 (rad8) gene. 
[Arabidopsis thaliana]
Length=95

 Score = 67.4 bits (163),  Expect = 3e-11
 Identities = 27/40 (67%), Positives = 33/40 (82%), Gaps = 0/40 (0%)
 Frame = +1

Query  319  LKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            LKA G  +NLT AS V++++PWWNPAVE QA DR+HRIGQ
Sbjct  1    LKAGGVALNLTVASHVFMMDPWWNPAVERQAQDRIHRIGQ  40


>gi|115461542|ref|NP_001054371.1|  Os04g0692700 [Oryza sativa (japonica cultivar-group)]
 gi|38567839|emb|CAE05788.2|  OSJNBb0020J19.17 [Oryza sativa (japonica cultivar-group)]
 gi|113565942|dbj|BAF16285.1|  Os04g0692700 [Oryza sativa (japonica cultivar-group)]
Length=1634

 Score = 48.5 bits (114),  Expect(2) = 3e-11
 Identities = 20/45 (44%), Positives = 31/45 (68%), Gaps = 0/45 (0%)
 Frame = +1

Query  304   VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
             +LL +    G G  LT A RV +++P WNP+++ Q++DR +RIGQ
Sbjct  1326  ILLLTSHVGGLGNTLTKADRVIVVDPAWNPSIDNQSVDRAYRIGQ  1370


 Score = 38.5 bits (88),  Expect(2) = 3e-11
 Identities = 16/44 (36%), Positives = 28/44 (63%), Gaps = 0/44 (0%)
 Frame = +3

Query  147   VVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQ  278
             ++FSQ R ML L++  +   G K LR+DG+     R +++++FQ
Sbjct  1276  LIFSQTRVMLNLIQDAVSIEGHKFLRIDGTTKISERKKILKDFQ  1319


 Score = 50.8 bits (120),  Expect = 2e-06
 Identities = 20/48 (41%), Positives = 33/48 (68%), Gaps = 0/48 (0%)
 Frame = +1

Query  295  GPTVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            G  + L + +  G G+ LT A+RV +++P WNP+ + Q++DR +RIGQ
Sbjct  660  GAPIFLLTTQVGGLGLTLTKAARVIVVDPAWNPSTDNQSVDRAYRIGQ  707


 Score = 40.0 bits (92),  Expect = 0.004
 Identities = 19/59 (32%), Positives = 35/59 (59%), Gaps = 2/59 (3%)
 Frame = +3

Query  147  VVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQVPEADGPDSFACKSQ  323
            ++FSQ R ML ++++ +   G+K LR+DG+     R +++++FQ  E  G   F   +Q
Sbjct  613  LIFSQTRKMLNIIQEAIILEGYKFLRIDGTTKISERERIVKDFQ--EGPGAPIFLLTTQ  669


>gi|108708155|gb|ABF95950.1|  transcriptional activator, putative, expressed [Oryza sativa 
(japonica cultivar-group)]
Length=1457

 Score = 54.7 bits (130),  Expect(2) = 5e-11
 Identities = 26/45 (57%), Positives = 30/45 (66%), Gaps = 0/45 (0%)
 Frame = +1

Query  304   VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
             V L S +A G GINLTAA  V   E  WNP  ++QAMDR HR+GQ
Sbjct  1209  VFLLSTRAGGLGINLTAADTVIFYEIDWNPTQDQQAMDRTHRLGQ  1253


 Score = 31.6 bits (70),  Expect(2) = 5e-11
 Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 0/44 (0%)
 Frame = +3

Query  147   VVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQ  278
             ++F+Q   ML +LE  +    FK  RLDGS     R  ++ +FQ
Sbjct  1159  LLFAQMTKMLDILEDYMNFRKFKYFRLDGSSAISDRRDMVRDFQ  1202


>gi|116061762|emb|CAL52480.1|  Cockayne syndrome group B [Oryza sativa (ISS) [Ostreococcus tauri]
Length=1134

 Score = 52.8 bits (125),  Expect(2) = 5e-11
 Identities = 24/50 (48%), Positives = 33/50 (66%), Gaps = 0/50 (0%)
 Frame = +1

Query  295  GPTVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQKE  444
            G  V L + K  G G+NLT A+RV L +P WNP+ + QA +R  RIGQ++
Sbjct  725  GIFVFLLTTKVGGLGVNLTGANRVMLFDPDWNPSTDAQARERAWRIGQQK  774


 Score = 33.5 bits (75),  Expect(2) = 5e-11
 Identities = 16/45 (35%), Positives = 27/45 (60%), Gaps = 0/45 (0%)
 Frame = +3

Query  141  KSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            + +VFSQ + ML +LE  +  AG+   R+DG+ +   R  +I+ F
Sbjct  675  RCLVFSQTQQMLDILEAAVARAGYSYRRMDGNTSIGMRMSLIDEF  719


>gi|15240074|ref|NP_201476.1|  DDM1 (DECREASED DNA METHYLATION 1); helicase [Arabidopsis thaliana]
 gi|4726079|gb|AAD28303.1|AF143940_1  SWI2/SNF2-like protein [Arabidopsis thaliana]
 gi|8843733|dbj|BAA97281.1|  SWI2/SNF2-like protein [Arabidopsis thaliana]
 gi|20466344|gb|AAM20489.1|  SWI2/SNF2-like protein [Arabidopsis thaliana]
 gi|25084090|gb|AAN72172.1|  SWI2/SNF2-like protein [Arabidopsis thaliana]
Length=764

 Score = 53.1 bits (126),  Expect(2) = 5e-11
 Identities = 25/46 (54%), Positives = 31/46 (67%), Gaps = 0/46 (0%)
 Frame = +1

Query  301  TVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            ++ L S +A G GINLTAA    L +  WNP ++ QAMDR HRIGQ
Sbjct  594  SIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQ  639


 Score = 33.1 bits (74),  Expect(2) = 5e-11
 Identities = 14/45 (31%), Positives = 28/45 (62%), Gaps = 0/45 (0%)
 Frame = +3

Query  141  KSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            K ++FSQ+  +L +++      GF++ R+DGS+    R + I++F
Sbjct  542  KVLIFSQWTKLLDIMDYYFSEKGFEVCRIDGSVKLDERRRQIKDF  586


>gi|116055839|emb|CAL57924.1|  Chromatin remodeling complex SWI/SNF, component SWI2 and related 
ATPases (DNA/RNA helicase superfamily) (ISS) [Ostreococcus 
tauri]
Length=708

 Score = 52.8 bits (125),  Expect(2) = 7e-11
 Identities = 25/45 (55%), Positives = 30/45 (66%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            + L S +A G GINLTA   V + +  WNP  + QAMDRVHRIGQ
Sbjct  542  IFLLSTRAGGLGINLTAGDTVIIYDSDWNPHQDLQAMDRVHRIGQ  586


 Score = 33.1 bits (74),  Expect(2) = 7e-11
 Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 0/45 (0%)
 Frame = +3

Query  141  KSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            K +VFSQ   ML LLE   +  G  + R+DGS+    R + I  F
Sbjct  490  KVLVFSQMTRMLDLLESYFQQRGENVCRIDGSVKQDDRREFIAKF  534


>gi|42571231|ref|NP_973689.1|  ATP binding / ATP-dependent helicase/ DNA binding / helicase/ 
nucleic acid binding / transcription regulator [Arabidopsis 
thaliana]
Length=870

 Score = 51.2 bits (121),  Expect(2) = 9e-11
 Identities = 23/45 (51%), Positives = 29/45 (64%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            V + S +A G G+NL AA  V   E  WNP V++QA+ R HRIGQ
Sbjct  458  VFMISTRAGGVGLNLVAADTVIFYEQDWNPQVDKQALQRAHRIGQ  502


 Score = 34.3 bits (77),  Expect(2) = 9e-11
 Identities = 20/61 (32%), Positives = 31/61 (50%), Gaps = 0/61 (0%)
 Frame = +3

Query  147  VVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQVPEADGPDSFACKSQG  326
            ++FSQ  + L +L+  ++   +   RLDGS+ A+ R   I+NF      G DS    S  
Sbjct  397  LLFSQMTSTLDILQDFMELRRYSYERLDGSVRAEERFAAIKNFSAKTERGLDSEVDGSNA  456

Query  327  F  329
            F
Sbjct  457  F  457


>gi|4895252|gb|AAD32837.1|AC007659_19  SNF2 subfamily global transcription activator [Arabidopsis thaliana]
Length=861

 Score = 51.2 bits (121),  Expect(2) = 9e-11
 Identities = 23/45 (51%), Positives = 29/45 (64%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            V + S +A G G+NL AA  V   E  WNP V++QA+ R HRIGQ
Sbjct  449  VFMISTRAGGVGLNLVAADTVIFYEQDWNPQVDKQALQRAHRIGQ  493


 Score = 34.3 bits (77),  Expect(2) = 9e-11
 Identities = 20/61 (32%), Positives = 31/61 (50%), Gaps = 0/61 (0%)
 Frame = +3

Query  147  VVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQVPEADGPDSFACKSQG  326
            ++FSQ  + L +L+  ++   +   RLDGS+ A+ R   I+NF      G DS    S  
Sbjct  388  LLFSQMTSTLDILQDFMELRRYSYERLDGSVRAEERFAAIKNFSAKTERGLDSEVDGSNA  447

Query  327  F  329
            F
Sbjct  448  F  448


>gi|115462049|ref|NP_001054624.1|  Os05g0144300 [Oryza sativa (japonica cultivar-group)]
 gi|53749343|gb|AAU90202.1|  putative transcriptional regulator [Oryza sativa (japonica cultivar-group)]
 gi|113578175|dbj|BAF16538.1|  Os05g0144300 [Oryza sativa (japonica cultivar-group)]
Length=1128

 Score = 50.4 bits (119),  Expect(2) = 1e-10
 Identities = 22/46 (47%), Positives = 30/46 (65%), Gaps = 0/46 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQK  441
            + L S +A G G+NL  A  V + +  WNP +++QA DR HRIGQK
Sbjct  818  LFLLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQK  863


 Score = 34.7 bits (78),  Expect(2) = 1e-10
 Identities = 17/56 (30%), Positives = 32/56 (57%), Gaps = 0/56 (0%)
 Frame = +3

Query  126  QNPTKKSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQVPEAD  293
            Q    + ++FSQ   +L +LE  L+   FK +RLDGS   + R +++ +F   +++
Sbjct  760  QRAGHRVLLFSQMTKLLDILEVYLQMYQFKYMRLDGSTKTEERGRLLADFNKKDSE  815


>gi|42569923|ref|NP_182025.2|  ATP binding / ATP-dependent helicase/ DNA binding / helicase/ 
nucleic acid binding / transcription regulator [Arabidopsis 
thaliana]
Length=851

 Score = 51.2 bits (121),  Expect(2) = 1e-10
 Identities = 23/45 (51%), Positives = 29/45 (64%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            V + S +A G G+NL AA  V   E  WNP V++QA+ R HRIGQ
Sbjct  439  VFMISTRAGGVGLNLVAADTVIFYEQDWNPQVDKQALQRAHRIGQ  483


 Score = 33.9 bits (76),  Expect(2) = 1e-10
 Identities = 19/54 (35%), Positives = 32/54 (59%), Gaps = 3/54 (5%)
 Frame = +3

Query  147  VVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQVPEADGPDSF  308
            ++FSQ  + L +L+  ++   +   RLDGS+ A+ R   I+NF V   DG ++F
Sbjct  388  LLFSQMTSTLDILQDFMELRRYSYERLDGSVRAEERFAAIKNFSV---DGSNAF  438


>gi|60544832|gb|AAX22754.1|  SWI2/SNF2-like protein [Arabidopsis thaliana]
Length=705

 Score = 53.1 bits (126),  Expect(2) = 1e-10
 Identities = 25/46 (54%), Positives = 31/46 (67%), Gaps = 0/46 (0%)
 Frame = +1

Query  301  TVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            ++ L S +A G GINLTAA    L +  WNP ++ QAMDR HRIGQ
Sbjct  569  SIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQ  614


 Score = 32.0 bits (71),  Expect(2) = 1e-10
 Identities = 13/43 (30%), Positives = 27/43 (62%), Gaps = 0/43 (0%)
 Frame = +3

Query  147  VVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            ++FSQ+  +L +++      GF++ R+DGS+    R + I++F
Sbjct  519  LIFSQWTKLLDIMDYYFSEKGFEVCRIDGSVKLDERRRQIKDF  561


>gi|115462129|ref|NP_001054664.1|  Os05g0150300 [Oryza sativa (japonica cultivar-group)]
 gi|54291826|gb|AAV32194.1|  putative ATPase [Oryza sativa (japonica cultivar-group)]
 gi|113578215|dbj|BAF16578.1|  Os05g0150300 [Oryza sativa (japonica cultivar-group)]
Length=1158

 Score = 52.8 bits (125),  Expect(2) = 2e-10
 Identities = 26/47 (55%), Positives = 30/47 (63%), Gaps = 0/47 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQKE  444
            V L S +A G GINL  A  V L +  WNP V+ QA DR HRIGQK+
Sbjct  657  VFLLSTRAGGLGINLATADVVILYDSDWNPQVDLQAQDRAHRIGQKK  703


 Score = 32.0 bits (71),  Expect(2) = 2e-10
 Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 0/49 (0%)
 Frame = +3

Query  147  VVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENFQVPEAD  293
            ++FSQ   +L +LE  L   G++  R+DG+   + R   IE F  P ++
Sbjct  606  LIFSQMTRLLDILEDYLMYKGYQYCRIDGNTGGEDRDASIEAFNKPGSE  654


>gi|33086941|gb|AAP92713.1|  Swi2/Snf2-related protein DDM1; decrease in DNA methylation 1; 
CHR1 [Arabidopsis arenosa]
Length=764

 Score = 53.1 bits (126),  Expect(2) = 2e-10
 Identities = 25/46 (54%), Positives = 31/46 (67%), Gaps = 0/46 (0%)
 Frame = +1

Query  301  TVLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            ++ L S +A G GINLTAA    L +  WNP ++ QAMDR HRIGQ
Sbjct  594  SIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQ  639


 Score = 31.6 bits (70),  Expect(2) = 2e-10
 Identities = 13/45 (28%), Positives = 27/45 (60%), Gaps = 0/45 (0%)
 Frame = +3

Query  141  KSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            K ++FSQ+  +L +++      GF++ R+DG +    R + I++F
Sbjct  542  KVLIFSQWTKLLDIMDYYFSEKGFEVCRIDGQVKLDERRRQIKDF  586


>gi|18463957|gb|AAL73042.1|AF461813_1  chromatin complex subunit A101 [Zea mays]
Length=779

 Score = 52.8 bits (125),  Expect(2) = 3e-10
 Identities = 25/45 (55%), Positives = 30/45 (66%), Gaps = 0/45 (0%)
 Frame = +1

Query  304  VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
            + L S +A G GINLTAA    L +  WNP ++ QAMDR HRIGQ
Sbjct  606  IFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQ  650


 Score = 31.2 bits (69),  Expect(2) = 3e-10
 Identities = 15/45 (33%), Positives = 27/45 (60%), Gaps = 0/45 (0%)
 Frame = +3

Query  141  KSVVFSQFRTMLLLLEKPLKAAGFKILRLDGSMNAKRRAQVIENF  275
            K +VFSQ+  +L ++E  L + G  + R+DG++  + R + I  F
Sbjct  553  KVLVFSQWTKVLDIIEYYLDSKGHAVCRIDGNVKLEERRRQIAEF  597


>gi|41052809|dbj|BAD07677.1|  putative photoperiod independent early flowering1 [Oryza sativa 
(japonica cultivar-group)]
Length=2021

 Score = 49.3 bits (116),  Expect(2) = 3e-10
 Identities = 21/45 (46%), Positives = 29/45 (64%), Gaps = 0/45 (0%)
 Frame = +1

Query  304   VLLASLKASGAGINLTAASRVYLLEPWWNPAVEEQAMDRVHRIGQ  438
             + + S ++ G GINL  A  V   +  WNPA+++QA DR HRIGQ
Sbjct  1126  LFILSTRSGGVGINLVGADTVIFYDSDWNPAMDQQAQDRCHRIGQ  1170