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= Ahg495901
Length=642
Score E
Sequences producing significant alignments: (Bits) Value
AT5G57980.1 | Symbols: RPB5C | RNA polymerase II fifth largest ... 917 0.0
> AT5G57980.1 | Symbols: RPB5C | RNA polymerase II fifth largest
subunit, C | chr5:23469050-23469768 REVERSE LENGTH=633
Length=633
Score = 917 bits (496), Expect = 0.0
Identities = 596/643 (93%), Gaps = 11/643 (2%)
Strand=Plus/Plus
Query 1 ATGTCTGACTTGGATGATGAAATCACGAGGCTTTTCAAGGTGCGTCGCACGGTGCTTCAG 60
||||| ||| |||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct 1 ATGTCGGACATGGATGATGAAATCACGAGGATTTTCAAGGTGCGTCGCACGGTGCTTCAG 60
Query 61 ATGCTGAGGGATCGAGGTTATACTATAGAAGAATCTGATTTGAACTTGAAAAGAGAAGAG 120
|||||||||||||||||||| |||||||||||||| || |||||||||||||||||||||
Sbjct 61 ATGCTGAGGGATCGAGGTTACACTATAGAAGAATCGGACTTGAACTTGAAAAGAGAAGAG 120
Query 121 TTTGTTCAGAGATTTTGTAAACCTATGAACAATATGAACAAAGTGAACAAAGAAGCTCTT 180
||||||||||| |||||| | | ||| |||||||||||||||||| |||||||||
Sbjct 121 TTTGTTCAGAGGTTTTGT--A---A--AAC--TATGAACAAAGTGAACAAGGAAGCTCTT 171
Query 181 TTCGTCGCTGCCAATAAGGGGCCAAATCCAGCCGACAAGATTTATGTATTCTACCCGGAA 240
|||||| | ||||||||||||||||||||||||||||||||||| || ||||||||||||
Sbjct 172 TTCGTCTCAGCCAATAAGGGGCCAAATCCAGCCGACAAGATTTACGTGTTCTACCCGGAA 231
Query 241 GGCCCTAAGGTGGGAGTCCCAGTGATTAAGAAGGAAGTGGCAATAAAGATGCGAGACGAT 300
|| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 232 GGGCCTAAGGTGGGAGTCCCAGTGATTAAGAAGGAAGTGGCAATAAAGATGCGAGACGAT 291
Query 301 AAAGTTCCTCGAGGGATCGTAGTTGTTCCAATGCCCATAACTGGTCCAGCTAGAATGGCC 360
||||||| ||||||||||||||||||||||||| ||||||||| ||| ||||||||||||
Sbjct 292 AAAGTTCATCGAGGGATCGTAGTTGTTCCAATGGCCATAACTGCTCCCGCTAGAATGGCC 351
Query 361 ATATCAGAGCTTAACAAGATTCTAACTATTGAAGTCTTTGAGGAAGCCGAACTGGTGACC 420
||||||| || |||||||| ||||| |||||||||||||||||||| ||| ||||||||
Sbjct 352 GTATCAGAACTCAACAAGATGCTAACGATTGAAGTCTTTGAGGAAGCTGAATTGGTGACC 411
Query 421 AACATCACTGAGCATAAACTCATCAACAAGTACTATGTACTCGACGATCAAGCCAAGAAG 480
||||||||||||||||||||| |||||||||||||||| |||||||||||||| ||||||
Sbjct 412 AACATCACTGAGCATAAACTCGTCAACAAGTACTATGTTCTCGACGATCAAGCAAAGAAG 471
Query 481 GAATTACTCAAAACATACACAGTTCAAGACACACAGTTGCCTCGCATCCTTGTCTCTGAT 540
|||||||||| || ||||| || |||||||||||||||||||||||||||||| |||||
Sbjct 472 AAATTACTCAACACGTACACGGTGCAAGACACACAGTTGCCTCGCATCCTTGTCACTGAT 531
Query 541 CCTCTTGCCAGATACTATGGACTCAAGCGAGGACAAATTGTCAAGATCAGACGAAGCGAC 600
|||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||
Sbjct 532 CCTCTTGCCAGATACTATGGACTCAAGCGAGGACAAGTTGTCAAGATCAGACGAAGCGAT 591
Query 601 GTTACTTC-TCTGGACTATTATACCTACCGATTTGCTGTTTGA 642
| |||||| | ||||||||||||||||||||||||||||||||
Sbjct 592 GCTACTTCAT-TGGACTATTATACCTACCGATTTGCTGTTTGA 633
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 30994468699
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