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= Ahg916931

Length=1236
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

  AT3G23890.1 | Symbols: TOPII, ATTOPII | topoisomerase II | chr3...   243    4e-63


> AT3G23890.1 | Symbols: TOPII, ATTOPII | topoisomerase II | chr3:8624750-8631327 
FORWARD LENGTH=4824
Length=4824

 Score =  243 bits (131),  Expect = 4e-63
 Identities = 204/240 (85%), Gaps = 2/240 (1%)
 Strand=Plus/Plus

Query  107  GTCCTGATTCTTATATAGGATCGATTGAGAAACATACCCAAACGCTTTGGGTTTATGAGA  166
            |||||||| | || || ||||| || |||||||| |||||||| ||||||||||||||||
Sbjct  321  GTCCTGATACATACATCGGATCTATCGAGAAACACACCCAAACACTTTGGGTTTATGAGA  380

Query  167  AGGAAGAGATGGTTTGTCGTTCTGTTACTTATGTTCCTGGATTGTATAAGATCTTTGATG  226
            | || |||||||||   ||| ||||||| ||||| |||||||||||||||||||||||||
Sbjct  381  AAGATGAGATGGTTCAACGTCCTGTTACCTATGTACCTGGATTGTATAAGATCTTTGATG  440

Query  227  AGATCCTTGTGAATGCTGCTGATAATAAACGGAGAGATCCGTCTATGGATTCTGT-CAAA  285
            |||| || || || || |||||||| |||| ||||||| ||   |||||||| || ||| 
Sbjct  441  AGATTCTCGTAAACGCCGCTGATAACAAACAGAGAGATGCGAAGATGGATTCCGTTCAA-  499

Query  286  GTTGTGATCGATGTTGAGAAGAATCAGATTAGTGTGTGTAACAGTGGTGATGGAGTTCCT  345
            |||||||| ||||||||| |||||| ||||||||| ||||||||||| | ||||||||||
Sbjct  500  GTTGTGATTGATGTTGAGCAGAATCTGATTAGTGTTTGTAACAGTGGAGCTGGAGTTCCT  559


 Score =  233 bits (126),  Expect = 3e-60
 Identities = 237/284 (83%), Gaps = 34/284 (12%)
 Strand=Plus/Plus

Query  986   TGGTAGTGTCCCCGGAGAAGAAAGTGAGGAAGCTGAGATCGTCTCCGTTTAACAAGAAGA  1045
             |||| ||||||||||||||||||||||||||| ||||||| |||||||| ||||||||||
Sbjct  4321  TGGT-GTGTCCCCGGAGAAGAAAGTGAGGAAGATGAGATCATCTCCGTTCAACAAGAAGA  4379

Query  1046  GTAGTTCAGTGATGAGCAGGTTGGC---TAATAAGGAAGAGGAGAGCAGCGAGAATGCAG  1102
             |||||||||||||||||||||||||   |||||||||||||||||||||||||||||  |
Sbjct  4380  GTAGTTCAGTGATGAGCAGGTTGGCTGATAATAAGGAAGAGGAGAGCAGCGAGAATGTGG  4439

Query  1103  CTGGAAACTCATCGTCAGAGAAATCT---GGAGATG-TT-T----T-T----G---C---  1142
             |||||||||||||||| |||||||||   ||||||| || |    | |    |   |   
Sbjct  4440  CTGGAAACTCATCGTCTGAGAAATCTGGAGGAGATGTTTCTGCGATATCGAGGCCTCAAA  4499

Query  1143  --G--AATAGG-GG-GTATG---TGTG-GTGGAGTGATTCGGAGAGTGAATCTGGGAATG  1192
               |  |||||| ||   |||   | || || ||||||||| ||||||||||||| |||||
Sbjct  4500  GAGCTAATAGGAGGAAAATGACCTATGTGTTGAGTGATTCCGAGAGTGAATCTGCGAATG  4559

Query  1193  AGTCTGAGTTTGATGACATTGAAGACGATGAAGATGATGAGTAG  1236
             | ||||||||||||||||||||||||||||||||||||||||||
Sbjct  4560  ATTCTGAGTTTGATGACATTGAAGACGATGAAGATGATGAGTAG  4603



Lambda     K      H
    1.33    0.621     1.12 

Gapped
Lambda     K      H
    1.28    0.460    0.850 

Effective search space used: 60742659450


  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