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= Ahg487817

Length=626
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

  AT5G09920.1 | Symbols: RPB15.9, ATRPB15.9, RPB15.9.9, NRPB4 | R...   911    0.0  


> AT5G09920.1 | Symbols: RPB15.9, ATRPB15.9, RPB15.9.9, NRPB4 | 
RNA polymerase II, Rpb4, core protein | chr5:3096183-3097575 
FORWARD LENGTH=715
Length=715

 Score =  911 bits (493),  Expect = 0.0
 Identities = 537/559 (96%), Gaps = 0/559 (0%)
 Strand=Plus/Plus

Query  1    TTTAGGTTTCGATTTCCCTCCTTGGTAATTGCCATGTCCGGAGAAGAAGAAGAGAACGCC  60
            |||||| ||||||||| ||||||||||||  |||||||||||||||||||||||||||||
Sbjct  61   TTTAGGGTTCGATTTCGCTCCTTGGTAATCACCATGTCCGGAGAAGAAGAAGAGAACGCC  120

Query  61   GCCGAACTCAAGATCGGAGATGAGTTTTTGAAGGCAAAGTGCTTAATGAATTGTGAAGTC  120
            |||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct  121  GCCGAACTCAAGATCGGAGATGAGTTTTTGAAGGCAAAGTGCTTAATGAACTGTGAAGTC  180

Query  121  TCTTTGATTCTTGAGCACAAGTTTGAACAGCTTCAACAAGTCTCAGAGGATCCTATGAAT  180
            ||||||||||||||||||||||||||||||||||| ||| ||||||||||||||||||||
Sbjct  181  TCTTTGATTCTTGAGCACAAGTTTGAACAGCTTCAGCAAATCTCAGAGGATCCTATGAAT  240

Query  181  CAAGTTTCTCAAGTGTTTGAGAAGTCCTTGCAATATGTGAAGCGATTCAGCCGGTACAAG  240
            ||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct  241  CAAGTTTCTCAAGTGTTTGAGAAGTCCTTGCAATATGTGAAGCGATTCAGCCGCTACAAG  300

Query  241  AATCCAGACGCTGTTAGACAAGTTCGAGAAATACTGAGCAGACATCAACTCACTGAGTTT  300
            |||||||| |||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct  301  AATCCAGATGCTGTTAGACAAGTTCGAGAAATACTAAGCAGACATCAACTCACTGAGTTT  360

Query  301  GAGCTATGTGTTCTTGGCAATCTCTGTCCTGAAACTGTTGAAGAAGCAGTGGCAATGGTT  360
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct  361  GAGCTATGTGTTCTTGGCAATCTCTGTCCTGAAACTGTTGAAGAAGCAGTGGCAATGGTT  420

Query  361  CCTTCTCTTAAGACAAAAGGAAGAGCTCATGATGATGAAGCAATTGAGAAGATGCTTAAT  420
            ||||||||||||||||||||||||||||||||||||||||| |||||||||||||| |||
Sbjct  421  CCTTCTCTTAAGACAAAAGGAAGAGCTCATGATGATGAAGCTATTGAGAAGATGCTCAAT  480

Query  421  GATCTCTCTCTTGTCAAGAGATTCGAGTAGTGCAGAAGATTCTCAAGATCTTAGACTAAG  480
            |||||||| |||||||||||||||||||||||||||||||||||||||||| ||| |  |
Sbjct  481  GATCTCTCACTTGTCAAGAGATTCGAGTAGTGCAGAAGATTCTCAAGATCTAAGATTCTG  540

Query  481  AACATTTGGCAGGATGCTTTACTTGCCTTCTCGCTGATCTGGAGTTAATTTTCCATGTCT  540
            ||||||| ||||||||||||||||||||||| ||||||||||||||||||  ||| ||||
Sbjct  541  AACATTTAGCAGGATGCTTTACTTGCCTTCTAGCTGATCTGGAGTTAATTCGCCACGTCT  600

Query  541  GAAATTATAAAGCTTTAAT  559
            |||||||||||||||||||
Sbjct  601  GAAATTATAAAGCTTTAAT  619



Lambda     K      H
    1.33    0.621     1.12 

Gapped
Lambda     K      H
    1.28    0.460    0.850 

Effective search space used: 30190722347


  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