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= Ahg923994
Length=490
Score E
Sequences producing significant alignments: (Bits) Value
AT1G54250.1 | Symbols: ATRPABC16.5, NRPB8A, NRPE8A | RNA polyme... 756 0.0
AT3G59600.1 | Symbols: NRPB8B, NRPD8B, NRPE8B | RNA polymerase ... 689 0.0
> AT1G54250.1 | Symbols: ATRPABC16.5, NRPB8A, NRPE8A | RNA polymerase
Rpb8 | chr1:20254938-20256557 FORWARD LENGTH=770
Length=770
Score = 756 bits (409), Expect = 0.0
Identities = 437/451 (97%), Gaps = 0/451 (0%)
Strand=Plus/Plus
Query 28 GATGGCGAGCAATATCATCTTGTTCGAGGATATCTTCGTGGTCGATAAGCTAGACCCTGA 87
|||||||||||||||||||||||||||||||||||||||||||||| || ||||||||||
Sbjct 107 GATGGCGAGCAATATCATCTTGTTCGAGGATATCTTCGTGGTCGATCAGTTAGACCCTGA 166
Query 88 TGGCAAAAAGTTTGATAAAGTTACTCGCGTTCAAGCTACGAGCCACAACTTGGAAATGTT 147
|||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 167 TGGCAAAAAGTTCGATAAAGTTACTCGCGTTCAAGCTACGAGCCACAACTTGGAAATGTT 226
Query 148 TATGCATTTAGATGTTAACACAGAGGTTTATCCATTGGCTGTTGGTGATAAGTTCACACT 207
|||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct 227 TATGCATTTAGATGTTAATACAGAGGTTTATCCATTGGCTGTTGGTGATAAGTTCACACT 286
Query 208 TGCGTTAGCTCCCACGCTTAATCTCGATGGAACCCCTGATACCGGATATTTTACTCCGGG 267
|||||| ||||| ||||| |||||||||||||||||||||||||| ||||||||||||||
Sbjct 287 TGCGTTGGCTCCTACGCTGAATCTCGATGGAACCCCTGATACCGGTTATTTTACTCCGGG 346
Query 268 AGCAAAGAAAACACTTGCGGATAAGTATGAATACATCATGCACGGGAAGCTTTACAAGAT 327
|||||||||||||||||| ||||||||||||||||| |||||||||||||||||||||||
Sbjct 347 AGCAAAGAAAACACTTGCCGATAAGTATGAATACATAATGCACGGGAAGCTTTACAAGAT 406
Query 328 CTCTGAGCGTGATGGCAAAACTCCAAAAGCAGAGCTATATGTTTCGTTTGGCGGCCTCCT 387
|||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 407 CTCTGAGCGTGACGGCAAAACTCCAAAAGCAGAGCTATATGTTTCGTTTGGCGGCCTCCT 466
Query 388 GATGTTGCTTAAGGGAGATCCTGCTCACATTTCTCACTTCGAACTCGACCAGAGGCTCTT 447
||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct 467 GATGTTGCTTAAGGGAGATCCAGCTCACATTTCTCACTTCGAACTCGACCAGAGGCTCTT 526
Query 448 CCTACTCATGAGGAAGCTGTGAGATACCATT 478
||||||||||||||||||||||| | |||||
Sbjct 527 CCTACTCATGAGGAAGCTGTGAGGTGCCATT 557
> AT3G59600.1 | Symbols: NRPB8B, NRPD8B, NRPE8B | RNA polymerase
Rpb8 | chr3:22016385-22018100 FORWARD LENGTH=749
Length=749
Score = 689 bits (373), Expect = 0.0
Identities = 436/467 (93%), Gaps = 2/467 (0%)
Strand=Plus/Plus
Query 22 TTTGCAGATGGCGAGCAATATCATCTTGTTCGAGGATATCTTCGTGGTCGATAAGCTAGA 81
|||| |||||||||||||||| ||| ||||||||||||||||||||||||||||||||||
Sbjct 125 TTTGAAGATGGCGAGCAATATTATCATGTTCGAGGATATCTTCGTGGTCGATAAGCTAGA 184
Query 82 CCCTGATGGCAAAAAGTTTGATAAAGTTACTCGCGTTCAAGCTACGAGCCACAACTTGGA 141
|||||||||||||||||| ||||||||||| || ||| |||| | |||||||||||||||
Sbjct 185 CCCTGATGGCAAAAAGTTCGATAAAGTTACGCGTGTTGAAGCAAGGAGCCACAACTTGGA 244
Query 142 AATGTTTATGCATTTAGATGTTAACACAGAGGTTTATCCATTGGCTGTTGGTGATAAGTT 201
||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct 245 AATGTTTATGCATTTAGATGTTAACACTGAGGTTTATCCATTGGCTGTTGGTGATAAGTT 304
Query 202 CACACTTGCGT-TAGCTCCCACGCTTAATCTCGATGGAACCCCTGATACCGGATATTTTA 260
||| || || | | |||||||||||||||||||||||||| |||||||||||||| ||||
Sbjct 305 CACGCTGGC-TATGGCTCCCACGCTTAATCTCGATGGAACTCCTGATACCGGATACTTTA 363
Query 261 CTCCGGGAGCAAAGAAAACACTTGCGGATAAGTATGAATACATCATGCACGGGAAGCTTT 320
||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct 364 CTCCGGGAGCAAAGAAAACACTTGCAGATAAGTATGAATACATCATGCACGGGAAGCTTT 423
Query 321 ACAAGATCTCTGAGCGTGATGGCAAAACTCCAAAAGCAGAGCTATATGTTTCGTTTGGCG 380
||||||||||||||||||| ||||||||||||||||||||| ||||||||||||| || |
Sbjct 424 ACAAGATCTCTGAGCGTGACGGCAAAACTCCAAAAGCAGAGTTATATGTTTCGTTCGGGG 483
Query 381 GCCTCCTGATGTTGCTTAAGGGAGATCCTGCTCACATTTCTCACTTCGAACTCGACCAGA 440
| ||||||||||||||| |||||||||| ||||| ||||||||||||||||| |||||||
Sbjct 484 GGCTCCTGATGTTGCTTCAGGGAGATCCAGCTCATATTTCTCACTTCGAACTTGACCAGA 543
Query 441 GGCTCTTCCTACTCATGAGGAAGCTGTGAGATACCATTGTCTGATCA 487
||||||| ||||||||||||||||| |||||| ||||||||| ||||
Sbjct 544 GGCTCTTTCTACTCATGAGGAAGCTTTGAGATGCCATTGTCTAATCA 590
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 23358878355
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