Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000310.1 Corchorus olitorius cultivar O-4 contig00310, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 1740
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35


Found at i:935 original size:53 final size:53

Alignment explanation


    Indices: 877--983  Score: 205
    Period size: 53  Copynumber: 2.0  Consensus size: 53

        867 CAAACATAGG

                                                                 
        877 AAAGTAAATTAAATTAAATTAAATTAATATGATAAGATTAGAAGATATTTTTT
          1 AAAGTAAATTAAATTAAATTAAATTAATATGATAAGATTAGAAGATATTTTTT

                                                          *      
        930 AAAGTAAATTAAATTAAATTAAATTAATATGATAAGATTAGAAGATTTTTTTT
          1 AAAGTAAATTAAATTAAATTAAATTAATATGATAAGATTAGAAGATATTTTTT

             
        983 A
          1 A

        984 GTGGTATATG


Statistics
Matches: 53,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  53   53  1.00

ACGTcount: A:0.50, C:0.00, G:0.09, T:0.40


Consensus pattern (53 bp):   
AAAGTAAATTAAATTAAATTAAATTAATATGATAAGATTAGAAGATATTTTTT

Found at i:1079 original size:62 final size:62

Alignment explanation


    Indices: 1003--1126  Score: 239
    Period size: 62  Copynumber: 2.0  Consensus size: 62

        993 GTGAAATCTC

                                *                                         
       1003 ATTACAATCAGAATAAATCTTCGTATGCCATAATCCAACCCAAACTAAGAAATTACCTTAAA
          1 ATTACAATCAGAATAAATCTCCGTATGCCATAATCCAACCCAAACTAAGAAATTACCTTAAA

                                                                          
       1065 ATTACAATCAGAATAAATCTCCGTATGCCATAATCCAACCCAAACTAAGAAATTACCTTAAA
          1 ATTACAATCAGAATAAATCTCCGTATGCCATAATCCAACCCAAACTAAGAAATTACCTTAAA

       1127 TAACCTACTT


Statistics
Matches: 61,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  62   61  1.00

ACGTcount: A:0.45, C:0.23, G:0.06, T:0.25


Consensus pattern (62 bp):   
ATTACAATCAGAATAAATCTCCGTATGCCATAATCCAACCCAAACTAAGAAATTACCTTAAA
Done.