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= Ahg351968
Length=1344
Score E
Sequences producing significant alignments: (Bits) Value
AT4G08540.1 | Symbols: | DNA-directed RNA polymerase II protei... 1136 0.0
> AT4G08540.1 | Symbols: | DNA-directed RNA polymerase II protein
| chr4:5433645-5436524 FORWARD LENGTH=1735
Length=1735
Score = 1136 bits (615), Expect = 0.0
Identities = 709/756 (94%), Gaps = 0/756 (0%)
Strand=Plus/Plus
Query 1 ATGATAAAACGATCCAGTAACTGCGCTATTTGCGAGAATACTAATCGTTCTTGTATCTGT 60
|||| |||||||||||||||||||||||||||||| || ||||||||| |||||||||||
Sbjct 116 ATGACAAAACGATCCAGTAACTGCGCTATTTGCGACAACACTAATCGTCCTTGTATCTGT 175
Query 61 AGTGCTTGCGTTAATCATAGATTGATTGAGTATAACACTTTGTTGAAGTCACTCAAGACT 120
| |||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct 176 ACTGCTTGCGTTAATCATAGATTGATTGAGTATAACACTTTGTTGAAGTCACTCAAAACT 235
Query 121 CGAAGAGATTCTTTATTATCAAGATTGAATCACCTATTGGAATCTAAGGGTAAAGCTGAT 180
||||||||||| |||||||||||||| ||| | |||||||||||||||||||||||||||
Sbjct 236 CGAAGAGATTCATTATTATCAAGATTCAATGAGCTATTGGAATCTAAGGGTAAAGCTGAT 295
Query 181 GATCAGAAGAATTGGAGATTGATTCAAAACGAGAATATTTTGAAGTTGAAGAAGAAACTT 240
||||||||||||||||||||||||||||||||||| |||| ||||||||||||||| |||
Sbjct 296 GATCAGAAGAATTGGAGATTGATTCAAAACGAGAAGATTTCGAAGTTGAAGAAGAAGCTT 355
Query 241 AAGAGTAATAAGGAATTGGTTACTCAAGGGAAGGGTAAGATTGAGAGAGGATCTTGTGAT 300
|||||||||||||| || |||||||||||||||| ||||||||||||||| |||| ||||
Sbjct 356 AAGAGTAATAAGGAGTTAGTTACTCAAGGGAAGGTTAAGATTGAGAGAGGGTCTTCTGAT 415
Query 301 CTTAAAGTTAAATATGGAGTTCTTGATTCAGCTCGTTCCACGCTTGAGAAAATTAGAGTT 360
|||||||||||||||||||||||||||||||||||||| || |||||||||| |||||||
Sbjct 416 CTTAAAGTTAAATATGGAGTTCTTGATTCAGCTCGTTCTACTCTTGAGAAAACTAGAGTT 475
Query 361 GAACAAGTGGAGAAGTATTTTCCTAATCTAATATGTACACAGAGCCTTGGTCATATGGCG 420
||||||||||||||||||||||||||| | |||||||| |||||||||||||||||||||
Sbjct 476 GAACAAGTGGAGAAGTATTTTCCTAATTTGATATGTACTCAGAGCCTTGGTCATATGGCG 535
Query 421 ATTTCATCTGAGCGTCTTCATAAGCAGTCGGTGGTTGTGAAACAGATATGCAAATTGTTT 480
||||| ||||||||||||||||||||||| || |||||||||||||||||||||||||||
Sbjct 536 ATTTCGTCTGAGCGTCTTCATAAGCAGTCAGTTGTTGTGAAACAGATATGCAAATTGTTT 595
Query 481 CCTCTGCGCCGAGTTAGTTTTGACGGAGAGAGTCAGAACGGTTCAGTTCGTCAATATGAT 540
||| | || |||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct 596 CCTTTACGTCGAGTTAGTTTTGATGGAGAGAGTCAGAACGGTTCAGTTCGTCAATATGAT 655
Query 541 GTAATTTGCAATTCACGTCTCCCGAGTGGTTTGGACCCTCATTCCATCCCATCAGAAGAG 600
|||||||||||||||||||| |||||||||||||| |||||||| |||||||||||||||
Sbjct 656 GTAATTTGCAATTCACGTCTTCCGAGTGGTTTGGATCCTCATTCTATCCCATCAGAAGAG 715
Query 601 CTCGCTGTCTCTTTGGGGTATATGGTCCAACTTCTGAACCTTGTTGTTCAAAACGTAGCT 660
|| |||||||| ||||||||||||||||| |||||||| ||||||||||| ||| ||||
Sbjct 716 CTTGCTGTCTCGTTGGGGTATATGGTCCAGCTTCTGAATCTTGTTGTTCATAACTTAGCC 775
Query 661 GCTCCTGCACTACATAGCTCAGGTTTTGCGAGCTCTTGCTCCCGTATTTGGCAACGAGAT 720
|||||||||||||||||||| ||||||||| |||||||||| ||||||||||||||||||
Sbjct 776 GCTCCTGCACTACATAGCTCGGGTTTTGCGGGCTCTTGCTCTCGTATTTGGCAACGAGAT 835
Query 721 TCCTATTGGGACGCACGTACCTCTACTCGAAGCAAT 756
|| |||||||||| |||||| |||||||||||||||
Sbjct 836 TCATATTGGGACGGACGTACTTCTACTCGAAGCAAT 871
Score = 889 bits (481), Expect = 0.0
Identities = 557/594 (94%), Gaps = 3/594 (1%)
Strand=Plus/Plus
Query 751 AGCAATTTTGGTGTTGCTTCCATGGAATCCGATAGAAAAGAACCGCGTCTGGACTCTACA 810
|||||||| ||||||||||||||||| ||||||||||||||||| |||||||||||| ||
Sbjct 947 AGCAATTTCGGTGTTGCTTCCATGGAGTCCGATAGAAAAGAACCCCGTCTGGACTCTCCA 1006
Query 811 GGAAGCAACAGCTTTAAGTACTCCTCTGCTTCTCCTCATTCGATTGAGTCACACAGAGAC 870
||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct 1007 GGAAGCAACAGCTTTAAGTACTCCTCTGCCTCTCCTCATTCGATTGAGTCACACAGAGAT 1066
Query 871 CTGCAGAAAGGGATAGCTCTTCTCAAGAAAAGTGTTGCATGCTTAACAGCGTATTGTTAC 930
|| ||||||||||||||||||||||||||||||||||| ||||| || ||||||||||||
Sbjct 1067 CTACAGAAAGGGATAGCTCTTCTCAAGAAAAGTGTTGCGTGCTTGACTGCGTATTGTTAC 1126
Query 931 AACTCACTTTGCCTTGAAGTACCTCCCGAGGCCTCGACTTTTGAAGCATTTGCCAAGTTA 990
|| ||||||||||||||||||||||||||||| || ||||||||||||||||||||||||
Sbjct 1127 AATTCACTTTGCCTTGAAGTACCTCCCGAGGCGTCAACTTTTGAAGCATTTGCCAAGTTA 1186
Query 991 TTGGCCACACTTTCGTCATCAAAGGAGGTCCGGTCTGTTTTCTCCCTGAAAATGGCTTCT 1050
|||| ||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct 1187 CTGGCTACACTTTCGTCATCAAAGGAGGTCCGGTCTGTTTTCTCCTTGAAAATGGCTTCT 1246
Query 1051 TCAAGATCATGCAAGCAGGCTCCACAACTCAACAAATCCATATGGAACGCTCACTCAGTC 1110
||||||||| |||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct 1247 TCAAGATCAGGCAAGCAGGCTCAACAACTCAACAAATCCATATGGAACGCTCACTCAGTC 1306
Query 1111 ATTTCAAGCTCTTTACTTGAAAGTGCACATCTTCCGGAGAGGAACACAAATTATAACCAG 1170
|| || ||||| ||||| |||||||| |||||||| ||||||||||| ||| ||||||
Sbjct 1307 ATCTCGAGCTCCTTACTCGAAAGTGCTCATCTTCC---GAGGAACACAAGTTACAACCAG 1363
Query 1171 GATCCAAACTCAGCAGCCAGTTATCTCTCTTCAACCGCATCATCAACCCGAAAGAACAAC 1230
|| || |||||| ||||||||||||||||| |||||| || |||||||||||||||||||
Sbjct 1364 GACCCGAACTCACCAGCCAGTTATCTCTCTGCAACCGAATTATCAACCCGAAAGAACAAC 1423
Query 1231 GATATGAACGGATGGGATTTGGTGGAACATCCTAAGTACCCGCCACCACCTTCACAGTCC 1290
|||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct 1424 GATATGAACGGATGGGATTTGGTGGAGCATCCTAAGTACCCGCCACCACCTTCACAGTCC 1483
Query 1291 GAGGATGTTGAACACTGGACTCGCGCTATGTTTATCGATGCCAAGAAGAAATGA 1344
|||||||||||||| |||||||| ||||||||||||||||||||||||||||||
Sbjct 1484 GAGGATGTTGAACATTGGACTCGTGCTATGTTTATCGATGCCAAGAAGAAATGA 1537
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 66164318310
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