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= Ahg476954
Length=2045
Score E
Sequences producing significant alignments: (Bits) Value
AT1G77890.1 | Symbols: | DNA-directed RNA polymerase II protei... 2931 0.0
> AT1G77890.1 | Symbols: | DNA-directed RNA polymerase II protein
| chr1:29292123-29296160 FORWARD LENGTH=2275
Length=2275
Score = 2931 bits (1587), Expect = 0.0
Identities = 1936/2092 (93%), Gaps = 73/2092 (3%)
Strand=Plus/Plus
Query 16 CTTGCTTAAGctctctctcctaaatcttcacgcaatgactctctccttcaaattcattcc 75
||| |||||||||| | | ||||||||||||||||||||||||||||||||||||| |||
Sbjct 45 CTTCCTTAAGCTCT-T-TGCTAAATCTTCACGCAATGACTCTCTCCTTCAAATTCAATCC 102
Query 76 tccttcttctcttctcttctcttcccgcttcatcctcctcctACGTACA-CCGGACGCTA 134
||||||||||||||| |||||||||||||||||||||||||||||| || ||||||||||
Sbjct 103 TCCTTCTTCTCTTCTATTCTCTTCCCGCTTCATCCTCCTCCTACGT-CATCCGGACGCTA 161
Query 135 CGTTTCTCCGGCGCCGGCGGATTCTACCGATTGATTGCGTTAGATTTGTTGCTTAGCCCT 194
|||||| ||||||||||||||||||||||||| |||||||||||||||| || ||||||
Sbjct 162 CGTTTCCCCGGCGCCGGCGGATTCTACCGATTCATTGCGTTAGATTTGTCACTGAGCCCT 221
Query 195 AAGAATTTGGGGGATTTTGGTCTGCTTCGGCGAAGGATCGATGGAGAAATCTAACAAATG 254
|||||||||||| |||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct 222 AAGAATTTGGGGAATTTTGGTCTGCTTCGGCGAAGGATCGATGGAGAAATCTACCAAATG 281
Query 255 TGCTGTTTGTC-ACAATTCGTTTCGTCCCTCAATCTGTGTAGCTTGTGTTAATCGCGGGT 313
||||||||| | |||| ||||||||||||||||||||||||| |||||||||||||||||
Sbjct 282 TGCTGTTTG-CTACAAGTCGTTTCGTCCCTCAATCTGTGTAGATTGTGTTAATCGCGGGT 340
Query 314 TAAACGAATACAAAGTTACGTTGGACTCGTTGAAGAGCCGTCGGGAGGTTTCGTACTTCA 373
||||||||||||| || | |||||||||||||||||| | ||||||||||||||| ||||
Sbjct 341 TAAACGAATACAAGGTCAAGTTGGACTCGTTGAAGAGTCTTCGGGAGGTTTCGTATTTCA 400
Query 374 GATTAAGTGGCTTGCTTGTCACAAAGGAGAAAGCAATTAGTCAACATTGTTGGAAGGAGC 433
||||||||||||| ||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct 401 GATTAAGTGGCTTACTTGTCACAAAGGAGAAAGCAATTAGTCAACGTTGTTGGAAGGAGC 460
Query 434 TTCAGAATGAGAAGCTTGCTAAGTTGCGGGAGAGGCTTCAGCTACAAGCGGAGAAATTGC 493
||||||||||||||||||||||||||||||||| |||||||||||||| |||||||||||
Sbjct 461 TTCAGAATGAGAAGCTTGCTAAGTTGCGGGAGAAGCTTCAGCTACAAGTGGAGAAATTGC 520
Query 494 AGCAAAGCAAAAACACATTTCGGAGTTTATCTCGCAATCTGAAAGAGAGATATGGCATTA 553
|||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct 521 AGCAAAGCAAAAACACATTTCGGAGTCTATCTCGCAATCTGAAAGAGAGATATGGCATTA 580
Query 554 TCGAATCAACTAACGTTGCTTTGGAGAAGAGCCGTGTTCGCCAACTGGAGAACCACTATT 613
| |||||||||||||||||||| ||| |||||||||||| |||||| |||||||||||||
Sbjct 581 TTGAATCAACTAACGTTGCTTTAGAGGAGAGCCGTGTTCACCAACTAGAGAACCACTATT 640
Query 614 CAGATACTATTGGCAATCACTACTTGGTATATATCGAGCTTACTTCGGAACGCCTTTATA 673
||||||||||||||||||||||||||||||||||||| || |||||||||||||||||||
Sbjct 641 CAGATACTATTGGCAATCACTACTTGGTATATATCGATCTAACTTCGGAACGCCTTTATA 700
Query 674 AACAGGCTTTGGTTATGAAACAGATATGCAAATTATTCCCTTTATCCAGGGTGACACTAG 733
||||||||||||||||||||||||||||||||||||||||||||||| |||||||| |||
Sbjct 701 AACAGGCTTTGGTTATGAAACAGATATGCAAATTATTCCCTTTATCCCGGGTGACAGTAG 760
Query 734 ATGGGCAGAACAAAGATGGGTTTAGCGGT-CAGTATGATCAAATCTGCAATGCTCTCTTA 792
| ||||||||||||||||||| ||| || || |||||||||||||||||||||||||||
Sbjct 761 AGGGGCAGAACAAAGATGGGTCTAG-TGTACAATATGATCAAATCTGCAATGCTCTCTTA 819
Query 793 CCACAAGGTCTCAACCCACTCTCTGTTCCGCCAAAAGAGCTCGCAGCCTCTTTAGGGTAC 852
|||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct 820 CCACAAGGTCTCAACCCACTCTCTGTTCCGCCAAAAGAGCTCGCAGCCTCATTAGGGTAC 879
Query 853 ATGGTGCAGCTTCTGAATCTTGTTGTCCATAAGCTCTCAGTGCCTGCACTTCATAACTTG 912
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 880 ATGGTGCAGCTTCTGAATCTTGTTGTCCATAAGCTCTCAGTGCCTGCACTTCATAACTTG 939
Query 913 GGTTTCGCGGGTTCTTGTTCAAGAATATGGCAACGAGATTCTTATTGGAACTCTCATCCG 972
|||||||||||||||||||||||||||||| ||||||||||||||||||||||| ||||
Sbjct 940 GGTTTCGCGGGTTCTTGTTCAAGAATATGGGAACGAGATTCTTATTGGAACTCTTATCCA 999
Query 973 TCTTCGCCAAGCGATAGGTATCCCCTTTTTGTACC-ATCCCATGATCACTACTCATTTGA 1031
||||| |||||| || ||||||||||||||||||| || |||||||||||||||||||||
Sbjct 1000 TCTTCTCCAAGCAATGGGTATCCCCTTTTTGTACCAAT-CCATGATCACTACTCATTTGA 1058
Query 1032 AGGGAAAAGTTCATGGACGGGTAAAAATACAACCAATTTTGGTGTCACTTCATTGAAATC 1091
|| |||||||||||||||||||| | ||||||||||||||||||||||||| ||||||||
Sbjct 1059 AGAGAAAAGTTCATGGACGGGTAGAGATACAACCAATTTTGGTGTCACTTCGTTGAAATC 1118
Query 1092 AGATGGAAGTGTAGAAGAAGATTATCATGACCTTGAACTTGACGTTGTTAGCCTTTCTTC 1151
|||||||||| ||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct 1119 AGATGGAAGTATAGAAGAAGATTATCATGACCTTGACCTTGACGTTGTTAGCCTTTCTTC 1178
Query 1152 TGCCTCTCCTCATTCCGTTGAAACATTCAGAAATCTGCAGCAAGGAATTGCACATCTCAA 1211
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1179 TGCCTCTCCTCATTCCGTTGAAACATTCAGAAATCTGCAGCAAGGAATTGCACATCTCAA 1238
Query 1212 GCAAAGCGTGGCTCACTTGACTGTGTATGGATACAGGTCCCTGTCTCTGGAAGTTCCTTC 1271
||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct 1239 GCAAAGCGTGGCTCACTTGACTGTGTACGGATACAGGTCCCTGTCTCTGGAAGTTCCTTC 1298
Query 1272 TGGAACCTCGACTTTTGAAACATTTGCAAAGTTGCTGGCCACATTATCTTCACTCAAGGA 1331
|||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct 1299 CGGAACCTCGACTTTTGAAACATTTGCAAAGTTGCTGGCTACATTATCTTCACTCAAGGA 1358
Query 1332 AGTTCAGTCTGCTCTTTCCCTTGGGTTGTCAAGTTCCAACAAGCAAAGACACGAGCCGAA 1391
|||||||||| ||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct 1359 GGTTCAGTCTGGTCTTTCCCTTGGGCTGTCAAGTTCCAACAAGCAAAGACACGAGCCGAA 1418
Query 1392 CAAATCGGTGTGGAATTTGAACTCCTCAAGTTCCAGCACCTTGCTGAACAGTTCTCATAC 1451
|||||| |||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct 1419 CAAATCCGTGTGGAATTTGAACTCCTCAAGTTCCAGCACCTTGCTTAACAGTTCTCATAC 1478
Query 1452 TCAGCCAACAACGTGGAACAGTTGCTATTATAATGTTCCGAATCGAGATCCCAGCTACAT 1511
|||||||||||||||||||||| |||||||||||||||||||||||||||| ||||||||
Sbjct 1479 TCAGCCAACAACGTGGAACAGTAGCTATTATAATGTTCCGAATCGAGATCCAAGCTACAT 1538
Query 1512 GGTGGAGTCTCCTGATGTTAAAAAGGATAAAAACTCTATTGGTGAATGGAATTTGGTTGA 1571
|||||||| |||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct 1539 GGTGGAGTTTCCTGATGTTAAAAAGGATAAAAACTCTATCGGTGAATGGAATTTGGTTGA 1598
Query 1572 TTATCCTCATTCTTCACATCAACCTAATCATCCCAAGAAGTATTGATCATCTCAAGGAAC 1631
|||||||||||||||| |||||||||||||||||| ||||||||||| | |||||||||
Sbjct 1599 GTATCCTCATTCTTCACGTCAACCTAATCATCCCAACAAGTATTGATCCTTTCAAGGAAC 1658
Query 1632 CCAAATTGTCGATATGT--T-----CATACCCAAAGCATCCTCAGTTCTTGGGATACCTT 1684
||| ||||||||||||| | ||||||||| ||||||||| |||| | ||||||||
Sbjct 1659 CCAGATTGTCGATATGTCATTTGTTCATACCCAAGGCATCCTCAATTCTAGTGATACCTT 1718
Query 1685 A-----------T-T--A--TTCA--A---A--TCTTTGATACCTTCTTCTGTAATTATG 1721
| | | | || | | | |||||||||||||||||||||||||||
Sbjct 1719 AGAAAAACCACATATGGAGCTTTATTATTTAAATCTTTGATACCTTCTTCTGTAATTATG 1778
Query 1722 AAACACAGATAATTATGTAAATTAGCA---A-TGGAGTAAATATGGTGA-A--A-GAGTC 1773
||||||||||||||||||||||||||| | ||||||||||||||||| | | |||||
Sbjct 1779 AAACACAGATAATTATGTAAATTAGCAGGCAATGGAGTAAATATGGTGACATTATGAGTC 1838
Query 1774 ACTGAAT-TGCCCAATGGAGTTTGATGATA-A-CAATGAAGGT-G---ATGTG---T-G- 1821
||||| | |||| ||||||||||||||||| | ||||||||| | ||||| | |
Sbjct 1839 ACTGA-TCTGCCTAATGGAGTTTGATGATACAACAATGAAGGAAGGTCATGTGCACTTGT 1897
Query 1822 G---CGTGAGAATATCCTCCGGCTTGTTTGGGCTTTAAAAGGAAAGGGCACCACAATAAC 1878
| ||||||||||||||||||||||||||| ||||||||||||||| ||||||||||||
Sbjct 1898 GTGACGTGAGAATATCCTCCGGCTTGTTTGGTCTTTAAAAGGAAAGGACACCACAATAAC 1957
Query 1879 AATTATCAATTA-AAAACAAAAA-TACTCCTTTT-TTCTTAGTCACCAGACAAATAATAT 1935
|||||||||||| |||||||||| |||||||||| ||||||||||||| |||||||| ||
Sbjct 1958 AATTATCAATTAGAAAACAAAAAATACTCCTTTTATTCTTAGTCACCAAACAAATAAAAT 2017
Query 1936 AAGCTCCTTTTT-CGTACCACACAATGGGAACAAAAGCAATGATAAGAGAAGAAGCCCAT 1994
||||||||||| | ||||||||||||||||||||||||||||||| | | |||||||||
Sbjct 2018 CAGCTCCTTTTTTCATACCACACAATGGGAACAAAAGCAATGATAA-A-A-GAAGCCCAT 2074
Query 1995 CACCTTCCTTTGCTTTTAAATTATTCATAATTGATGAAA-AC-Caaaaaaaa 2044
|||||||||||||||||||||||||||||||| |||||| | |||||||||
Sbjct 2075 CACCTTCCTTTGCTTTTAAATTATTCATAATTTATGAAAGAAACAAAAAAAA 2126
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 101354900355
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