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= Ahg938978
Length=481
Score E
Sequences producing significant alignments: (Bits) Value
AT3G59600.1 | Symbols: NRPB8B, NRPD8B, NRPE8B | RNA polymerase ... 815 0.0
AT1G54250.1 | Symbols: ATRPABC16.5, NRPB8A, NRPE8A | RNA polyme... 651 0.0
> AT3G59600.1 | Symbols: NRPB8B, NRPD8B, NRPE8B | RNA polymerase
Rpb8 | chr3:22016385-22018100 FORWARD LENGTH=749
Length=749
Score = 815 bits (441), Expect = 0.0
Identities = 459/468 (98%), Gaps = 0/468 (0%)
Strand=Plus/Plus
Query 14 TTTGTAGATGGCGAGCAATATTATCATGTTCGAGGATATATTCGTGGTCGATAAGCTAGA 73
|||| |||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct 125 TTTGAAGATGGCGAGCAATATTATCATGTTCGAGGATATCTTCGTGGTCGATAAGCTAGA 184
Query 74 CCCTGATGGCAAAAAGTTCGATAAAGTTACGCGTGTTGAAGCAAGGAGCCACAACTTGGA 133
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 185 CCCTGATGGCAAAAAGTTCGATAAAGTTACGCGTGTTGAAGCAAGGAGCCACAACTTGGA 244
Query 134 AATGTTTATGCATTTAGATGTTAACACTGAGGTTTATCCATTGGCTGTTGGTGATAAATT 193
||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct 245 AATGTTTATGCATTTAGATGTTAACACTGAGGTTTATCCATTGGCTGTTGGTGATAAGTT 304
Query 194 CACGCTGGCTATGGCTCCCACGCTTAATCTCGATGGAACTCCTGATACCGGATACTTTAC 253
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 305 CACGCTGGCTATGGCTCCCACGCTTAATCTCGATGGAACTCCTGATACCGGATACTTTAC 364
Query 254 TCCGGGAGCAAAGAAAACACTTGCAGATAAGTATGAATACATCATGCACGGGAAGCTTTA 313
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 365 TCCGGGAGCAAAGAAAACACTTGCAGATAAGTATGAATACATCATGCACGGGAAGCTTTA 424
Query 314 CAAGATCTCTGAGCGTGACGGCAAAACTCCAAAAGCAGAGTTATATGTTTCGTTCGGCGG 373
||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct 425 CAAGATCTCTGAGCGTGACGGCAAAACTCCAAAAGCAGAGTTATATGTTTCGTTCGGGGG 484
Query 374 CCTCCTGATGTTGCTTCAGGGAGATCCAGCTCACATTTCTCACTTCGAACTTGACCAGAG 433
|||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct 485 GCTCCTGATGTTGCTTCAGGGAGATCCAGCTCATATTTCTCACTTCGAACTTGACCAGAG 544
Query 434 GCTCTTTTTACTAATGAGGAAGCTTTGAGATGCCATTGTCTGATCACT 481
||||||| |||| |||||||||||||||||||||||||||| ||||||
Sbjct 545 GCTCTTTCTACTCATGAGGAAGCTTTGAGATGCCATTGTCTAATCACT 592
> AT1G54250.1 | Symbols: ATRPABC16.5, NRPB8A, NRPE8A | RNA polymerase
Rpb8 | chr1:20254938-20256557 FORWARD LENGTH=770
Length=770
Score = 651 bits (352), Expect = 0.0
Identities = 419/452 (93%), Gaps = 2/452 (0%)
Strand=Plus/Plus
Query 20 GATGGCGAGCAATATTATCATGTTCGAGGATATATTCGTGGTCGATAAGCTAGACCCTGA 79
||||||||||||||| ||| ||||||||||||| |||||||||||| || ||||||||||
Sbjct 107 GATGGCGAGCAATATCATCTTGTTCGAGGATATCTTCGTGGTCGATCAGTTAGACCCTGA 166
Query 80 TGGCAAAAAGTTCGATAAAGTTACGCGTGTTGAAGCAAGGAGCCACAACTTGGAAATGTT 139
|||||||||||||||||||||||| || ||| |||| | |||||||||||||||||||||
Sbjct 167 TGGCAAAAAGTTCGATAAAGTTACTCGCGTTCAAGCTACGAGCCACAACTTGGAAATGTT 226
Query 140 TATGCATTTAGATGTTAACACTGAGGTTTATCCATTGGCTGTTGGTGATAAATTCACGCT 199
|||||||||||||||||| || ||||||||||||||||||||||||||||| ||||| ||
Sbjct 227 TATGCATTTAGATGTTAATACAGAGGTTTATCCATTGGCTGTTGGTGATAAGTTCACACT 286
Query 200 GGC-TATGGCTCCCACGCTTAATCTCGATGGAACTCCTGATACCGGATACTTTACTCCGG 258
|| | ||||||| ||||| |||||||||||||| ||||||||||| || ||||||||||
Sbjct 287 TGCGT-TGGCTCCTACGCTGAATCTCGATGGAACCCCTGATACCGGTTATTTTACTCCGG 345
Query 259 GAGCAAAGAAAACACTTGCAGATAAGTATGAATACATCATGCACGGGAAGCTTTACAAGA 318
||||||||||||||||||| ||||||||||||||||| ||||||||||||||||||||||
Sbjct 346 GAGCAAAGAAAACACTTGCCGATAAGTATGAATACATAATGCACGGGAAGCTTTACAAGA 405
Query 319 TCTCTGAGCGTGACGGCAAAACTCCAAAAGCAGAGTTATATGTTTCGTTCGGCGGCCTCC 378
||||||||||||||||||||||||||||||||||| ||||||||||||| ||||||||||
Sbjct 406 TCTCTGAGCGTGACGGCAAAACTCCAAAAGCAGAGCTATATGTTTCGTTTGGCGGCCTCC 465
Query 379 TGATGTTGCTTCAGGGAGATCCAGCTCACATTTCTCACTTCGAACTTGACCAGAGGCTCT 438
||||||||||| |||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct 466 TGATGTTGCTTAAGGGAGATCCAGCTCACATTTCTCACTTCGAACTCGACCAGAGGCTCT 525
Query 439 TTTTACTAATGAGGAAGCTTTGAGATGCCATT 470
| |||| ||||||||||| |||| |||||||
Sbjct 526 TCCTACTCATGAGGAAGCTGTGAGGTGCCATT 557
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 22906771032
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