BLAST2 result
BLASTP 2.2.2 [Dec-14-2001]
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= AC142143.6 - phase: 0 /pseudo
(175 letters)
Database: ara_mips
26,719 sequences; 11,318,596 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
At2g31520 putative non-LTR retroelement reverse transcriptase 55 1e-08
At2g25550 putative non-LTR retroelement reverse transcriptase 55 1e-08
At3g45550 putative protein 53 1e-07
At4g10830 putative protein 48 3e-06
At2g05980 putative non-LTR retroelement reverse transcriptase 48 3e-06
At4g09710 RNA-directed DNA polymerase -like protein 45 2e-05
At1g47910 reverse transcriptase, putative 45 2e-05
At4g04000 putative reverse transcriptase 45 2e-05
At2g05200 putative non-LTR retroelement reverse transcriptase 45 2e-05
At2g45230 putative non-LTR retroelement reverse transcriptase 44 3e-05
At1g29650 reverse transcriptase, putative 44 4e-05
At2g23880 putative non-LTR retroelement reverse transcriptase 44 6e-05
At2g18820 putative non-LTR retroelement reverse transcriptase 43 8e-05
At1g25430 hypothetical protein 43 1e-04
At3g44650 putative protein 42 2e-04
At1g47850 hypothetical protein 41 3e-04
At1g31030 F17F8.5 41 3e-04
At2g11240 pseudogene 40 6e-04
At2g14430 putative non-LTR retroelement reverse transcriptase 40 8e-04
At4g08830 putative protein 39 0.001
>At2g31520 putative non-LTR retroelement reverse transcriptase
Length = 1524
Score = 55.5 bits (132), Expect = 1e-08
Identities = 30/74 (40%), Positives = 47/74 (62%), Gaps = 1/74 (1%)
Query: 11 YLGLPIGGDLSRLMFWEPVLDRIKKRLSRCS-KFLSFGGRMVLFKFVLSFIHVYALSFFK 69
YLGLP + +E ++DR+KKR S S +FLS G+ ++ K V + VYA+S FK
Sbjct: 906 YLGLPEQFGRKKKEMFEYIIDRVKKRTSTWSARFLSPAGKEIMLKSVALAMPVYAMSCFK 965
Query: 70 VPSGIISSMKSIFI 83
+P GI+S ++S+ +
Sbjct: 966 LPKGIVSEIESLLM 979
>At2g25550 putative non-LTR retroelement reverse transcriptase
Length = 1750
Score = 55.5 bits (132), Expect = 1e-08
Identities = 30/74 (40%), Positives = 47/74 (62%), Gaps = 1/74 (1%)
Query: 11 YLGLPIGGDLSRLMFWEPVLDRIKKRLSRCS-KFLSFGGRMVLFKFVLSFIHVYALSFFK 69
YLGLP + +E ++DR+KKR S S +FLS G+ ++ K V + VYA+S FK
Sbjct: 1132 YLGLPEQFGRKKKEMFEYIIDRVKKRTSTWSARFLSPAGKEIMLKSVALAMPVYAMSCFK 1191
Query: 70 VPSGIISSMKSIFI 83
+P GI+S ++S+ +
Sbjct: 1192 LPKGIVSEIESLLM 1205
>At3g45550 putative protein
Length = 851
Score = 52.8 bits (125), Expect = 1e-07
Identities = 29/74 (39%), Positives = 46/74 (61%), Gaps = 1/74 (1%)
Query: 11 YLGLPIGGDLSRLMFWEPVLDRIKKRLSRCS-KFLSFGGRMVLFKFVLSFIHVYALSFFK 69
YLGLP + + ++DR+K+R + S KFLS G+ +L K V + VYA+S FK
Sbjct: 371 YLGLPEQFGRKKKEMFNYIIDRVKERTASWSAKFLSPAGKEILLKSVALAMPVYAMSCFK 430
Query: 70 VPSGIISSMKSIFI 83
+P GI+S ++S+ +
Sbjct: 431 LPQGIVSEIESLLM 444
>At4g10830 putative protein
Length = 1294
Score = 47.8 bits (112), Expect = 3e-06
Identities = 26/74 (35%), Positives = 45/74 (60%), Gaps = 1/74 (1%)
Query: 11 YLGLPIGGDLSRLMFWEPVLDRIKKRLSRCS-KFLSFGGRMVLFKFVLSFIHVYALSFFK 69
YLGLP + + +++R+KKR S S K+LS G+ ++ K V + VYA+S FK
Sbjct: 1112 YLGLPEQFGRKKRDMFNYIIERVKKRTSSWSAKYLSPAGKEIMLKSVAMSMPVYAMSCFK 1171
Query: 70 VPSGIISSMKSIFI 83
+P I+S ++++ +
Sbjct: 1172 LPLNIVSEIEALLM 1185
>At2g05980 putative non-LTR retroelement reverse transcriptase
Length = 1352
Score = 47.8 bits (112), Expect = 3e-06
Identities = 27/81 (33%), Positives = 48/81 (58%), Gaps = 1/81 (1%)
Query: 3 QMGKVIFLYLGLPIGGDLSRLMFWEPVLDRIKKRL-SRCSKFLSFGGRMVLFKFVLSFIH 61
++G + YLGLP+ + P++++I+ R+ S ++FLSF GR+ L K VLS I
Sbjct: 910 ELGTLPVKYLGLPLLTKRMTQSDYLPLVEKIRARITSWTNRFLSFAGRLQLIKSVLSSIT 969
Query: 62 VYALSFFKVPSGIISSMKSIF 82
+ LS F++P + ++ +F
Sbjct: 970 NFWLSVFRLPKACLQEIEKMF 990
>At4g09710 RNA-directed DNA polymerase -like protein
Length = 1274
Score = 45.4 bits (106), Expect = 2e-05
Identities = 25/75 (33%), Positives = 43/75 (57%), Gaps = 1/75 (1%)
Query: 11 YLGLPIGGDLSRLMFWEPVLDRIKKRLSRCS-KFLSFGGRMVLFKFVLSFIHVYALSFFK 69
YLGLP + + ++DRI++R S +FLS G+ +L K VLS + YA+ FK
Sbjct: 691 YLGLPEHFGRRKRDIFSSIVDRIRQRSHSWSIRFLSSAGKQILLKAVLSSMPSYAMMCFK 750
Query: 70 VPSGIISSMKSIFIK 84
+P+ + ++S+ +
Sbjct: 751 LPASLCKQIQSVLTR 765
>At1g47910 reverse transcriptase, putative
Length = 1142
Score = 45.4 bits (106), Expect = 2e-05
Identities = 29/77 (37%), Positives = 46/77 (59%), Gaps = 5/77 (6%)
Query: 11 YLGLP--IGGDLSRLMFWEPVLDRIKKRLSRCS-KFLSFGGRMVLFKFVLSFIHVYALSF 67
YLGLP +GG +++ + V DR++ R++ S KFLS GG+ V+ K V + + Y +S
Sbjct: 534 YLGLPESLGGSKTKVFSF--VRDRLQSRINGWSAKFLSKGGKEVMIKSVAATLPRYVMSC 591
Query: 68 FKVPSGIISSMKSIFIK 84
F++P I S + S K
Sbjct: 592 FRLPKAITSKLTSAVAK 608
>At4g04000 putative reverse transcriptase
Length = 1077
Score = 45.1 bits (105), Expect = 2e-05
Identities = 26/71 (36%), Positives = 42/71 (58%), Gaps = 1/71 (1%)
Query: 11 YLGLPIGGDLSRLMFWEPVLDRIKKR-LSRCSKFLSFGGRMVLFKFVLSFIHVYALSFFK 69
YLGLP + + ++DRIK+R LS S+FLS G++ + K VLS + Y +S F+
Sbjct: 685 YLGLPELFGRKKKDLFTAIVDRIKQRALSWSSRFLSSAGKLTMLKSVLSTMPTYTMSCFQ 744
Query: 70 VPSGIISSMKS 80
+P + ++S
Sbjct: 745 LPLSLCKRIQS 755
>At2g05200 putative non-LTR retroelement reverse transcriptase
Length = 1229
Score = 45.1 bits (105), Expect = 2e-05
Identities = 24/75 (32%), Positives = 46/75 (61%), Gaps = 1/75 (1%)
Query: 11 YLGLPIGGDLSRLMFWEPVLDRIKKRL-SRCSKFLSFGGRMVLFKFVLSFIHVYALSFFK 69
YLGLP + + ++D+I+++ S S+FLS G+ V+ K VL+ + +Y++S FK
Sbjct: 645 YLGLPEHFGRRKRDIFGAIIDKIRQKSHSWASRFLSQAGKQVMLKAVLASMPLYSMSCFK 704
Query: 70 VPSGIISSMKSIFIK 84
+PS + ++S+ +
Sbjct: 705 LPSALCRKIQSLLTR 719
>At2g45230 putative non-LTR retroelement reverse transcriptase
Length = 1374
Score = 44.3 bits (103), Expect = 3e-05
Identities = 31/84 (36%), Positives = 45/84 (52%), Gaps = 4/84 (4%)
Query: 10 LYLGLPIGGDLSRLMFWEPVLDRI-KKRLSRCSKFLSFGGRMVLFKFVLSFIHVYALSFF 68
+YLGLP S++ + DR+ KK L S FLS GG+ +L K V + Y +S F
Sbjct: 749 VYLGLPESFQGSKVATLSYLKDRLGKKVLGWQSNFLSPGGKEILLKAVAMALPTYTMSCF 808
Query: 69 KVPSGIISSMKSI---FIKKKKKK 89
K+P I ++S+ F K KK+
Sbjct: 809 KIPKTICQQIESVMAEFWWKNKKE 832
>At1g29650 reverse transcriptase, putative
Length = 1557
Score = 43.9 bits (102), Expect = 4e-05
Identities = 26/71 (36%), Positives = 40/71 (55%), Gaps = 1/71 (1%)
Query: 11 YLGLPIGGDLSRLMFWEPVLDRIKKRLSRC-SKFLSFGGRMVLFKFVLSFIHVYALSFFK 69
YLGLP S++ + + DR+K RLS ++ LS GG+ +L K V + VYA+S FK
Sbjct: 1059 YLGLPECFSGSKVQLLDYIRDRLKSRLSGWFARILSLGGKQILLKAVAMAMPVYAISCFK 1118
Query: 70 VPSGIISSMKS 80
+ ++ S
Sbjct: 1119 LTKTTCENLSS 1129
>At2g23880 putative non-LTR retroelement reverse transcriptase
Length = 1216
Score = 43.5 bits (101), Expect = 6e-05
Identities = 25/79 (31%), Positives = 45/79 (56%), Gaps = 1/79 (1%)
Query: 4 MGKVIFLYLGLPIGGDLSRLMFWEPVLDRIKKRLSR-CSKFLSFGGRMVLFKFVLSFIHV 62
+GK+ YLGLP+ + P++D+I++R+ S++LSF GR+ L VL I
Sbjct: 485 VGKLPVRYLGLPLVTKRLTTSDYSPLIDQIRRRIGMWTSRYLSFAGRLSLINSVLWSITN 544
Query: 63 YALSFFKVPSGIISSMKSI 81
+ ++ F++P I+ + I
Sbjct: 545 FWMNAFRLPRECINEINRI 563
>At2g18820 putative non-LTR retroelement reverse transcriptase
Length = 1412
Score = 43.1 bits (100), Expect = 8e-05
Identities = 25/78 (32%), Positives = 44/78 (56%), Gaps = 1/78 (1%)
Query: 5 GKVIFLYLGLPIGGDLSRLMFWEPVLDRIKKRLSRC-SKFLSFGGRMVLFKFVLSFIHVY 63
G + YLGLP+ L P+L++I+ R+S ++FLS+ GR+ L V+S + +
Sbjct: 1020 GSLPVRYLGLPLMTKRMTLADCLPLLEKIRSRISSWKNRFLSYAGRLQLLNSVISSLTKF 1079
Query: 64 ALSFFKVPSGIISSMKSI 81
+S F++P I ++ I
Sbjct: 1080 WISAFRLPRACIREIEQI 1097
>At1g25430 hypothetical protein
Length = 1213
Score = 42.7 bits (99), Expect = 1e-04
Identities = 27/79 (34%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 4 MGKVIFLYLGLPIGGDLSRLMFWEPVLDRIKKRL-SRCSKFLSFGGRMVLFKFVLSFIHV 62
+G + YLGLP+ R+ +EP+L++I R S +K LSF GR+ L V+
Sbjct: 757 IGTLPIRYLGLPLMNRKLRIAEYEPLLEKITARFRSWVNKCLSFAGRIQLISSVIFGSIN 816
Query: 63 YALSFFKVPSGIISSMKSI 81
+ +S F +P G I ++S+
Sbjct: 817 FWMSTFLLPKGCIKRIESL 835
>At3g44650 putative protein
Length = 762
Score = 41.6 bits (96), Expect = 2e-04
Identities = 24/80 (30%), Positives = 46/80 (57%), Gaps = 1/80 (1%)
Query: 3 QMGKVIFLYLGLPIGGDLSRLMFWEPVLDRIKKRL-SRCSKFLSFGGRMVLFKFVLSFIH 61
++G++ YLGLP+ + + P++++I+KR+ S S+FLSF GR L ++
Sbjct: 316 EVGELPIRYLGLPLVTKRLSSVDYAPLIEQIRKRIGSWSSRFLSFAGRFNLISSIIWSSC 375
Query: 62 VYALSFFKVPSGIISSMKSI 81
+ LS F++P I ++ +
Sbjct: 376 NFWLSAFQLPRACIQEIEKL 395
>At1g47850 hypothetical protein
Length = 799
Score = 41.2 bits (95), Expect = 3e-04
Identities = 20/78 (25%), Positives = 45/78 (57%), Gaps = 1/78 (1%)
Query: 5 GKVIFLYLGLPIGGDLSRLMFWEPVLDRIKKRLSR-CSKFLSFGGRMVLFKFVLSFIHVY 63
G++ YLGLP+ + P+LD+++ ++S ++ LS+ GR+ L V+ + +
Sbjct: 338 GQLPVRYLGLPLLTKQMTTADYSPLLDKVRSKISSWTARSLSYAGRLALINSVIVSLSNF 397
Query: 64 ALSFFKVPSGIISSMKSI 81
+S +++P+G I ++ +
Sbjct: 398 WMSAYRLPAGCIKEIEKL 415
>At1g31030 F17F8.5
Length = 872
Score = 41.2 bits (95), Expect = 3e-04
Identities = 26/79 (32%), Positives = 44/79 (54%), Gaps = 1/79 (1%)
Query: 4 MGKVIFLYLGLPIGGDLSRLMFWEPVLDRIKKRLSRCS-KFLSFGGRMVLFKFVLSFIHV 62
+G++ YLGLP+ + P+L++IKKR++ + +F SF GR L K VL I
Sbjct: 411 VGQLPVRYLGLPLVTKRLTSADYSPLLEQIKKRIATWTFRFFSFAGRFNLIKSVLWSICN 470
Query: 63 YALSFFKVPSGIISSMKSI 81
+ L+ F++P I + +
Sbjct: 471 FWLAAFRLPRQCIREIDKL 489
>At2g11240 pseudogene
Length = 1044
Score = 40.0 bits (92), Expect = 6e-04
Identities = 24/71 (33%), Positives = 40/71 (55%), Gaps = 1/71 (1%)
Query: 11 YLGLPIGGDLSRLMFWEPVLDRIKKR-LSRCSKFLSFGGRMVLFKFVLSFIHVYALSFFK 69
YLGLP + + ++DRI++R LS S+FLS G+ + K VL+ + Y +S FK
Sbjct: 576 YLGLPKMFGRKKRDLFNQIVDRIRQRSLSWSSRFLSTAGKTTMLKSVLASMPTYTMSCFK 635
Query: 70 VPSGIISSMKS 80
+ + ++S
Sbjct: 636 LLVSLCKRIQS 646
>At2g14430 putative non-LTR retroelement reverse transcriptase
Length = 1277
Score = 39.7 bits (91), Expect = 8e-04
Identities = 19/78 (24%), Positives = 44/78 (56%), Gaps = 1/78 (1%)
Query: 5 GKVIFLYLGLPIGGDLSRLMFWEPVLDRIKKRLSR-CSKFLSFGGRMVLFKFVLSFIHVY 63
G++ YLG P+ + P+LD+++ ++S ++ LS+ GR+ L V+ + +
Sbjct: 907 GQLPVRYLGFPLLTKQMTTADYSPLLDKVRSKISSWTARSLSYAGRLALINSVIVSLSNF 966
Query: 64 ALSFFKVPSGIISSMKSI 81
+S +++P+G I ++ +
Sbjct: 967 WMSAYRLPAGCIKEIEKL 984
>At4g08830 putative protein
Length = 947
Score = 39.3 bits (90), Expect = 0.001
Identities = 31/100 (31%), Positives = 50/100 (50%), Gaps = 11/100 (11%)
Query: 1 SNQMGKVIFLYLGLPIGGDLSRLMFWEPVLDRIKKRLSRCS-KFLSFGGRMVLFKFVLSF 59
+ ++GK YLG+PI + VL+R+ RL+ + LSF GR+ L K VLS
Sbjct: 421 TRELGK----YLGMPILQRRINKDTFGEVLERVSSRLAGWKGRSLSFAGRLTLTKSVLSL 476
Query: 60 IHVYALSFFKVPSGIISSMKS---IFI---KKKKKKLGCV 93
I ++ +S +P + + +F+ +KKKL V
Sbjct: 477 IPIHTMSTISLPQSTLEGLDKLARVFLLGSSAEKKKLHLV 516
Database: ara_mips
Posted date: Jul 15, 2004 10:29 AM
Number of letters in database: 2,978,382
Number of sequences in database: 6832
Database: /data/blast2/ara_mips_chr2
Posted date: Jul 15, 2004 10:29 AM
Number of letters in database: 1,737,135
Number of sequences in database: 4184
Database: /data/blast2/ara_mips_chr3
Posted date: Jul 15, 2004 10:29 AM
Number of letters in database: 2,236,886
Number of sequences in database: 5377
Database: /data/blast2/ara_mips_chr4
Posted date: Jul 15, 2004 10:29 AM
Number of letters in database: 1,748,816
Number of sequences in database: 4030
Database: /data/blast2/ara_mips_chr5
Posted date: Jul 15, 2004 10:29 AM
Number of letters in database: 2,569,679
Number of sequences in database: 6098
Database: /data/blast2/ara_mips_chl
Posted date: Jul 15, 2004 10:29 AM
Number of letters in database: 25,951
Number of sequences in database: 85
Database: /data/blast2/ara_mips_mit
Posted date: Jul 15, 2004 10:29 AM
Number of letters in database: 21,747
Number of sequences in database: 113
Lambda K H
0.357 0.167 0.590
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,315,246
Number of Sequences: 26719
Number of extensions: 112441
Number of successful extensions: 577
Number of sequences better than 10.0: 47
Number of HSP's better than 10.0 without gapping: 36
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 533
Number of HSP's gapped (non-prelim): 47
length of query: 175
length of database: 11,318,596
effective HSP length: 93
effective length of query: 82
effective length of database: 8,833,729
effective search space: 724365778
effective search space used: 724365778
T: 11
A: 40
X1: 14 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 37 (21.7 bits)
S2: 56 (26.2 bits)
Medicago: description of AC142143.6