BLASTN 2.2.26+
Reference:
Zheng Zhang, Scott Schwartz, Lukas Wagner, and Webb Miller (2000),
"A greedy algorithm for aligning DNA sequences", J Comput Biol 2000;
7(1-2):203-14.
Database: TAIR10_cdna_20110103_representative_gene_model_updated
33,602 sequences; 51,074,197 total letters
Query= Ahg925322
Length=1580
Score E
Sequences producing significant alignments: (Bits) Value
AT1G64860.1 | Symbols: SIGA, SIG1, SIG2, SIGB, RPOD1 | sigma fa... 2512 0.0
> AT1G64860.1 | Symbols: SIGA, SIG1, SIG2, SIGB, RPOD1 | sigma
factor A | chr1:24097953-24100952 FORWARD LENGTH=1965
Length=1965
Score = 2512 bits (1360), Expect = 0.0
Identities = 1513/1586 (95%), Gaps = 13/1586 (1%)
Strand=Plus/Plus
Query 1 TTGAGTGC--AAGAGTGTTATATGATGGCTACTGCAGCTGTTATAGGACTCAACACTGGG 58
|||||||| ||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct 227 TTGAGTGCAAAAGAGTGTTATATAATGGCTACTGCAGCTGTTATAGGACTCAACACTGGC 286
Query 59 AAAAGATTGTTGAGTTCATCGTTTTATCACTCAGATGTTACCGAGAAGTTTTTATCTGTA 118
||||||||||||||||||||||||||||||||||||||||| ||||||||| ||||||||
Sbjct 287 AAAAGATTGTTGAGTTCATCGTTTTATCACTCAGATGTTACAGAGAAGTTTCTATCTGTA 346
Query 119 AATGATCATTGTTCATCACAGTATCATATTGCTTCAACGAAAAGCGGGATAACTGCGAAA 178
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 347 AATGATCATTGTTCATCACAGTATCATATTGCTTCAACGAAAAGCGGGATAACTGCGAAA 406
Query 179 AAGGCGTCATCATCGAACTATAGTCCGAGTTTTCCTTCATCGAATCGTCACACACAATCT 238
|||||| |||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct 407 AAGGCG------TCGAACTATAGTCCGAGTTTTCCTTCGTCGAATCGTCACACACAATCT 460
Query 239 GCCAAGGCTTTGAAAGAGAGTGTAGATGTTGCTTCTACTGAGAAGCCATGGATACATAAT 298
|| || ||||||||||||||||||||||||||||||||||||||||||||| ||| ||||
Sbjct 461 GCTAAAGCTTTGAAAGAGAGTGTAGATGTTGCTTCTACTGAGAAGCCATGGCTACCTAAT 520
Query 299 GGAAGTCATAAGGAATTGGAAGAGGAA-GGT-T-ATGATGATGATCTAATTGGTCATTCT 355
|||| | |||||||||||||||| ||| | | | ||||||||||||||||| ||||||||
Sbjct 521 GGAACTGATAAGGAATTGGAAGAAGAATGTTATGATGATGATGATCTAATTAGTCATTCT 580
Query 356 GTTGAGGCACTTTTACTGCTACAAAAGTCTATGTTGGAGAAAAGTTGGAATCTTTCGTTT 415
||||||||| |||||||| |||| ||||||||||| |||||||||||||||||||| |||
Sbjct 581 GTTGAGGCAATTTTACTGTTACAGAAGTCTATGTTAGAGAAAAGTTGGAATCTTTCATTT 640
Query 416 GAGAAGGCGGCGTCAAGTGAGTCCT-CGAGCAAGAGGACTATCCGGAAGAAGAAGATTCC 474
|| ||||||| ||| ||||||| | || ||||| ||||||| |||||||||||||||||
Sbjct 641 GAAAAGGCGGTGTCGAGTGAGT-ATCCGGGCAAGGGGACTATACGGAAGAAGAAGATTCC 699
Query 475 GGTCATCACCTGTTCAGGGATTTCAGCTAGGCAAAGGAGGATTGGTGCTAAGAAGAAAAC 534
||| |||||||||||||||||||||||| | ||||| |||||||||||||||||||||||
Sbjct 700 GGTTATCACCTGTTCAGGGATTTCAGCTCGTCAAAGAAGGATTGGTGCTAAGAAGAAAAC 759
Query 535 TAATATGACTCATGTTAAAGCAGTTTCAGATGTTTCTAGTGGAAAGCAAGTCAGAGGTTA 594
||||||||||||||||||||||||||| ||||||||||||||||||||||| ||||||||
Sbjct 760 TAATATGACTCATGTTAAAGCAGTTTCTGATGTTTCTAGTGGAAAGCAAGTTAGAGGTTA 819
Query 595 TGTGAAGGGTGTAATAAGTGAAGATGTGCTTAGTCACGCGGAAGTTGTGCGCTTGTCCAA 654
|||||| ||||||||||||||||||||||||||||| | |||||||||||||||||| ||
Sbjct 820 TGTGAAAGGTGTAATAAGTGAAGATGTGCTTAGTCATGTGGAAGTTGTGCGCTTGTCTAA 879
Query 655 GAAAATCAAATCTGGTCTTCGTCTTGATGATCATAAGTCAAGATTGAAGGATAGATTAGG 714
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 880 GAAAATCAAATCTGGTCTTCGTCTTGATGATCATAAGTCAAGATTGAAGGATAGATTAGG 939
Query 715 CTGTGAGCCTTCTGATGAACAGCTTGCAGTATCCTTGAAGATATCTCGGGCCGAGCTTCA 774
||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct 940 CTGTGAGCCTTCTGATGAACAGCTTGCAGTATCTTTGAAGATATCTCGGGCCGAGCTTCA 999
Query 775 GGCGTGGTTGATGGAATGTCATCTAGCTAGAGAGAAGTTGGCTATGAGCAATGTGCGTTT 834
||||||||||||||| |||||||||||||||||||||||||||||||| |||||||||||
Sbjct 1000 GGCGTGGTTGATGGAGTGTCATCTAGCTAGAGAGAAGTTGGCTATGAGTAATGTGCGTTT 1059
Query 835 GGTTATGTCTATTGCTCAGCGATACGATAATTTGGGAGCAGAAATGTCTGATCTTGTTCA 894
||||||||||||||||||||| || |||||||||||||||||||||||||| ||||||||
Sbjct 1060 GGTTATGTCTATTGCTCAGCGTTATGATAATTTGGGAGCAGAAATGTCTGACCTTGTTCA 1119
Query 895 GGGTGGTCTTATCGGACTTTTGCGGGGAATAGAGAAATTTGATTCTTCCAAAGGTTTCAG 954
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1120 GGGTGGTCTTATCGGACTTTTGCGGGGAATAGAGAAATTTGATTCTTCCAAAGGTTTCAG 1179
Query 955 AATTTCAACTTATGTATATTGGTGGATTCGACAGGGTGTCTCAAGAGCATTAGTGGACAA 1014
||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct 1180 AATTTCAACTTATGTATATTGGTGGATTCGACAGGGTGTCTCAAGAGCACTAGTGGACAA 1239
Query 1015 CTCAAGAACCTTGAGGTTACCTACTCACCTACATGAAAGACTCGGTCTAATCCGAAATGC 1074
|||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct 1240 CTCAAGAACCTTGAGGTTACCTACTCACCTACATGAAAGACTCGGTTTAATCCGAAATGC 1299
Query 1075 AAAGCTTAGACTTCAGGAGAAAGGAATCACACCCTCTATTGATAGGATTGCAGAGTCTCT 1134
||||||||||||||| |||||||||||||||||||| |||||||||||||||||||||||
Sbjct 1300 AAAGCTTAGACTTCAAGAGAAAGGAATCACACCCTCCATTGATAGGATTGCAGAGTCTCT 1359
Query 1135 AAACATGTCGCAGAAGAAAGTTAGAAATGCAACAGAGGCTGTTAGCAAAATATTTTCTCT 1194
|||||||||||||||||||||||||||||||||||||||||| |||||| ||||||||||
Sbjct 1360 AAACATGTCGCAGAAGAAAGTTAGAAATGCAACAGAGGCTGTAAGCAAAGTATTTTCTCT 1419
Query 1195 AGACAGAGATGCATTTCCTTCTTTGAACGGTCTCCCTGGAGAAACTCATCACAGTTACAT 1254
||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct 1420 AGACAGAGATGCATTTCCTTCTTTGAATGGTCTCCCTGGAGAAACTCATCACAGTTACAT 1479
Query 1255 TGCGGATAATCGTTTGGAGAACAATCCCTGGCACGGGTATGATGATCTGGCACTTAAGGA 1314
|||||||| |||||||||||||||||| |||||||||||||||||| ||||||| |||||
Sbjct 1480 TGCGGATACTCGTTTGGAGAACAATCCGTGGCACGGGTATGATGATTTGGCACTCAAGGA 1539
Query 1315 GGAAGTAAGCAAGCTTATAAGTGCAACACTCGGAGAACGGGAAAGGGAGATCATACGATT 1374
|||||||||||||||||||||||||||||||||||||||||||| |||||||| |||||
Sbjct 1540 GGAAGTAAGCAAGCTTATAAGTGCAACACTCGGAGAACGGGAAAAAGAGATCATTCGATT 1599
Query 1375 ATACTATGGTCTAGACAAAGAATGTCTCACATGGGAAGACATTAGCAAACGGATAGGATT 1434
||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct 1600 ATACTATGGTCTAGACAAAGAATGTCTCACATGGGAAGACATTAGTAAACGGATAGGATT 1659
Query 1435 ATCGAGAGAGAGGGTAAGACAGGTAGGGCTTGTGGCACTGGAGAAACTAAAACACGCAGC 1494
||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1660 ATCGAGAGAGAGGGTGAGACAGGTAGGGCTTGTGGCACTGGAGAAACTAAAACACGCAGC 1719
Query 1495 GAGGAAGAGAAAAATGGAAGCAATGATCCTCAAGAATTGATTTTGTTTTTGTACATTTTG 1554
|||||||||||||||||| ||||||||||| |||||||||||||||||||||||||||||
Sbjct 1720 GAGGAAGAGAAAAATGGAGGCAATGATCCTTAAGAATTGATTTTGTTTTTGTACATTTTG 1779
Query 1555 ATTACATCAGAGCCATAGAGAGCGGT 1580
||||||||||||||||||||||||||
Sbjct 1780 ATTACATCAGAGCCATAGAGAGCGGT 1805
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 78011646930
Database: TAIR10_cdna_20110103_representative_gene_model_updated
Posted date: Sep 25, 2014 6:13 PM
Number of letters in database: 51,074,197
Number of sequences in database: 33,602
Matrix: blastn matrix 1 -2
Gap Penalties: Existence: 0, Extension: 2.5