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= Ahg470915
Length=1944
Score E
Sequences producing significant alignments: (Bits) Value
AT1G08540.1 | Symbols: SIGB, SIG1, SIG2, SIGA, ATSIG1, ABC1, AT... 3092 0.0
> AT1G08540.1 | Symbols: SIGB, SIG1, SIG2, SIGA, ATSIG1, ABC1,
ATSIG2 | RNApolymerase sigma subunit 2 | chr1:2703336-2706845
FORWARD LENGTH=1993
Length=1993
Score = 3092 bits (1674), Expect = 0.0
Identities = 1845/1928 (96%), Gaps = 10/1928 (1%)
Strand=Plus/Plus
Query 1 CTCTTCTTCGTCTTCATCCGCC-ATCATCACCAG-TTtctctctctctctACAAATCTTC 58
|||||||||||||||||| || ||||||||| ||| |||||||||||||||||||||
Sbjct 6 CTCTTCTTCGTCTTCATCATCCGCGCATCACCAGTTTTTTCTCTCTCTCTACAAATCTTC 65
Query 59 TTTAACGGCCCTTGAATCAATCAATGGTCAGCAGACTTAGCTTTCGAATATAGGCTAAGA 118
||||||| |||| || |||||||||||||||||||||||||||||||||||||||||
Sbjct 66 -TTAACGG-CCTT---TC-ATCAATGGTCAGCAGACTTAGCTTTCGAATATAGGCTAAGA 119
Query 119 ACGAGCATGTCTTCTTGTCTTCTTCCTCAGTTCAAGTGCCCACCTGATTCTTTCTCTATT 178
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 120 ACGAGCATGTCTTCTTGTCTTCTTCCTCAGTTCAAGTGCCCACCTGATTCTTTCTCTATT 179
Query 179 CACTTCCGAACCTCTTTCTGCGCCCCAAAACACAATAAGGGTTCACTCTTCTTCCAACCG 238
|||||||||||||||||||| ||||| |||||||| ||||||||| ||||||||||||||
Sbjct 180 CACTTCCGAACCTCTTTCTGTGCCCCTAAACACAACAAGGGTTCAGTCTTCTTCCAACCG 239
Query 239 CAATGTGCAGTATCCACTTCACCGGCTTTATTAACTTCTATGCTTGATGTGGCAAAGCTT 298
|||||||||||||||||||||||||| ||||||||||||||||||||||| |||||||||
Sbjct 240 CAATGTGCAGTATCCACTTCACCGGCGTTATTAACTTCTATGCTTGATGTCGCAAAGCTT 299
Query 299 AGACTACCCTCTTTCGATACTGATTCAGATTCCCGAATATCAGACAGGCAATGGACTTAT 358
|||||||||||||||||||||||||| ||||||| |||||||||||||| |||||||||
Sbjct 300 AGACTACCCTCTTTCGATACTGATTCGGATTCCCTTATATCAGACAGGCAGTGGACTTAT 359
Query 359 ACAAGGGCTGATGGTCCTTCCACTGAGGCAAAATATTTAGAAGCTTTAGCCTCTGAGACA 418
|||||| | |||||||||||||||||||| || |||||||||||||||||||||||||||
Sbjct 360 ACAAGGCCCGATGGTCCTTCCACTGAGGCGAAGTATTTAGAAGCTTTAGCCTCTGAGACA 419
Query 419 CTTCTGACAAGTGATGAAGCCGTAGTTGCAGCTGCAGCAGCTGAAGCAGTCGCCCTTGCA 478
||||| ||||| |||||||| ||||||| ||| |||||||||||||||||||||||||||
Sbjct 420 CTTCTCACAAGCGATGAAGCAGTAGTTGTAGCAGCAGCAGCTGAAGCAGTCGCCCTTGCA 479
Query 479 AGAGCTGCTGTCAAAGTTGCGAAAGATGCAACATTATTTAAGAACAGTAACAACACAAAC 538
|||||||||||||||||||| ||||||||||||||||||||||||||||||||||| |||
Sbjct 480 AGAGCTGCTGTCAAAGTTGCCAAAGATGCAACATTATTTAAGAACAGTAACAACACGAAC 539
Query 539 CTATTAATTTCATCAATTGCCGACAAACGCTCTAAGTGGGACCAGTTTACTGAGAAGGAA 598
||||||| ||| |||| |||||||||||||| |||||||||||||||||||||||||||
Sbjct 540 CTATTAACTTCGTCAACGGCCGACAAACGCTCCAAGTGGGACCAGTTTACTGAGAAGGAA 599
Query 599 CGTGCTGGCATATTGGGACATCTCGCGGTTTCGGACAATGGAATCGTGAGTGATAAAATC 658
||||||||||||||||| ||||| |||||||||||||||||||| |||||||||||||||
Sbjct 600 CGTGCTGGCATATTGGGGCATCTAGCGGTTTCGGACAATGGAATTGTGAGTGATAAAATC 659
Query 659 ACTGCACCTGCCTCTAACAAAGAGTCGCCTGGTGATTTAGAATCAGAAAAACAAGAAGAA 718
|||||| ||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct 660 ACTGCATCTGCCTCTAACAAAGAGTCTATTGGTGATTTAGAATCAGAAAAACAAGAAGAA 719
Query 719 GCTGAGCTTCTGGAGGAGCAACCTTCAGTGAGTTTAGCTGTGAGATCTACACGCCAAACT 778
| ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct 720 GTTGAGCTTCTGGAGGAGCAACCTTCAGTGAGTTTAGCTGTGAGATCTACACGTCAAACT 779
Query 779 GAAAGGAAAGCTCGGAGGGCAAAAGGGTTAGAGAAAACTGCATCAGGTATTCCGTCTGTG 838
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 780 GAAAGGAAAGCTCGGAGGGCAAAAGGGTTAGAGAAAACTGCATCAGGTATTCCGTCTGTG 839
Query 839 AAGACTGGTTCGAGCCCTAGAAAGAAACGTCTTGTTGCGCAAGAAGTTGACCATAATGAT 898
||||||||||||||||||| ||||||||||||||||||||| |||||||| |||||||||
Sbjct 840 AAGACTGGTTCGAGCCCTAAAAAGAAACGTCTTGTTGCGCAGGAAGTTGATCATAATGAT 899
Query 899 CCTTTGCGTTATCTAAGAATGACAACAAGCAGTTCCAAGCTTCTCACTGTCAGAGAAGAA 958
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 900 CCTTTGCGTTATCTAAGAATGACAACAAGCAGTTCCAAGCTTCTCACTGTCAGAGAAGAA 959
Query 959 CATGAGCTGTCGGCAGGAATACAGGACCTTCTGAAGTTAGAAAGACTTCAAACAGAGCTT 1018
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 960 CATGAGCTGTCGGCAGGAATACAGGACCTTCTGAAGTTAGAAAGACTTCAAACAGAGCTT 1019
Query 1019 ACAGAGCGTTGTGGACGTCAGCCAACCTTTGCGCAGTGGGCTTCTGCTGCTGGAGTCGAT 1078
||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1020 ACAGAGCGTAGTGGACGTCAGCCAACCTTTGCGCAGTGGGCTTCTGCTGCTGGAGTCGAT 1079
Query 1079 CAAAAATCATTAAGGAAACGTATACATCATGGCACACTATGCAAAGACAAAATGATTAAA 1138
|| |||||||||||| |||||||||||||||||||||||||||||||||||||||| |||
Sbjct 1080 CAGAAATCATTAAGGCAACGTATACATCATGGCACACTATGCAAAGACAAAATGATCAAA 1139
Query 1139 AGCAACATTCGACTCGTTATTTCGATTGCAAAGAATTATCAAGGAGCTGGGATGAACCTC 1198
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1140 AGCAACATTCGACTCGTTATTTCGATTGCAAAGAATTATCAAGGAGCTGGGATGAACCTC 1199
Query 1199 CAAGATCTTGTCCAGGAAGGGTGCAGAGGGCTTGTGAGGGGAGCAGAGAAGTTTGATGCT 1258
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1200 CAAGATCTTGTCCAGGAAGGGTGCAGAGGGCTTGTGAGGGGAGCAGAGAAGTTTGATGCT 1259
Query 1259 ACAAAGGGTTTTAAATTTTCAACTTACGCTCATTGGTGGATCAAGCAAGCTGTGCGGAAA 1318
|||||||||||||||||||| |||||||| |||||||||||||||||||||||||||||
Sbjct 1260 ACAAAGGGTTTTAAATTTTCGACTTACGCGCATTGGTGGATCAAGCAAGCTGTGCGGAAG 1319
Query 1319 TCTCTTTCTGATCAGTCCAGAATGATAAGATTGCCTTTTCATATGGTGGAAGCAACATAT 1378
||||| ||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct 1320 TCTCTCTCTGATCAGTCCAGAATGATAAGATTGCCTTTTCACATGGTGGAAGCAACATAT 1379
Query 1379 CGGGTGAAAGAGGCACGGAAGCAACTGTACAGTGAAACAGGTAAGCACCCAAAGAACGAA 1438
|||||||||||||||| |||||||||||||||||||| |||||||||||||||||||||
Sbjct 1380 AGGGTGAAAGAGGCACGAAAGCAACTGTACAGTGAAACCGGTAAGCACCCAAAGAACGAA 1439
Query 1439 GAAATTGCAGAGGCAACAGGGCTATCGATGAAGAGGCTCATGGCGGTTCTACTCTCTCCT 1498
||||||||||||||||||||||| ||||||||||| ||||||||||||||||||||||||
Sbjct 1440 GAAATTGCAGAGGCAACAGGGCTGTCGATGAAGAGACTCATGGCGGTTCTACTCTCTCCT 1499
Query 1499 AAACCACCGAGGTCGCTAGACCAGAAAATAGGAATGAATCAAAACCTCAAACCTTCGGAA 1558
||||| ||||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct 1500 AAACCTCCGAGGTCGCTAGACCAGAAAATCGGAATGAATCAAAACCTCAAACCTTCGGAA 1559
Query 1559 GTGATAGCAGATCCAGAAGCAGTAACCTCAGAAGATATATTGATAAAGGAATTCATGAGG 1618
|||||||||||||||||||||||||| |||||||||||| ||||||||||||||||||||
Sbjct 1560 GTGATAGCAGATCCAGAAGCAGTAACGTCAGAAGATATACTGATAAAGGAATTCATGAGG 1619
Query 1619 CAGGACTTGGACAAAGTGTTGGACTCGTTAGGTACGAGGGAGAAGCAAGTGATACGTTGG 1678
||||||||||||||||||||||||||||| ||||| |||||||| |||||||||||||||
Sbjct 1620 CAGGACTTGGACAAAGTGTTGGACTCGTTGGGTACAAGGGAGAAACAAGTGATACGTTGG 1679
Query 1679 AGATTTGGGATGGAGGATGGGAGGATGAAGACGTTGCAAGAGATAGGAGAGATGATGGGA 1738
||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct 1680 AGATTTGGGATGGAGGATGGGAGAATGAAGACGTTGCAAGAGATAGGAGAGATGATGGGA 1739
Query 1739 GTGAGCAGGGAGAGAGTGAGGCAGATAGAGTCGTCTGCATTCAGGAAACTAAAGAACAAG 1798
||||||||||||||||| || ||||||||||| |||||||||||||||||||||||||||
Sbjct 1740 GTGAGCAGGGAGAGAGTAAGACAGATAGAGTCATCTGCATTCAGGAAACTAAAGAACAAG 1799
Query 1799 AAGAGAAGCAACCATTTGCAGCAATACTTGGTTGCACAATCATAATTATTTTT-TCTTTC 1857
||||||| ||||||||||||||||||||||||||||||||||||||| ||||| |||| |
Sbjct 1800 AAGAGAAACAACCATTTGCAGCAATACTTGGTTGCACAATCATAATTCTTTTTCTCTT-C 1858
Query 1858 AAAATGGAATGTTTTGTGCATAGAACCCACCCACCCGAGCATAACAAGCAGTAAATTATT 1917
|| |||||||||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct 1859 AATATGGAATGTTTTGTGCATAGAACCCACCCACCTGAGCATAACAAGCAGTAAATTATT 1918
Query 1918 ATTTTTTA 1925
| ||||||
Sbjct 1919 ACTTTTTA 1926
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 96284645310
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