Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004460.1 Corchorus capsularis cultivar CVL-1 contig04468, 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, 600

Length: 1001
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33


Found at i:718 original size:22 final size:22

Alignment explanation


    Indices: 665--709  Score: 81
    Period size: 22  Copynumber: 2.0  Consensus size: 22

        655 TTTATTTTAT

                   *              
        665 TAAATTTTAAATTCTATTTAAA
          1 TAAATTTAAAATTCTATTTAAA

                                  
        687 TAAATTTAAAATTCTATTTAAA
          1 TAAATTTAAAATTCTATTTAAA

             
        709 T
          1 T

        710 TCTATTAAAT


Statistics
Matches: 22,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  22   22  1.00

ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49


Consensus pattern (22 bp):   
TAAATTTAAAATTCTATTTAAA

Found at i:719 original size:10 final size:11

Alignment explanation


    Indices: 670--729  Score: 63
    Period size: 11  Copynumber: 5.6  Consensus size: 11

        660 TTTATTAAAT

                       
        670 TTTAAATTCTA
          1 TTTAAATTCTA

                    ** 
        681 TTTAAA-TAAA
          1 TTTAAATTCTA

                        
        691 TTTAAAATTCTA
          1 TTT-AAATTCTA

                       
        703 TTTAAATTCTA
          1 TTTAAATTCTA

                     * 
        714 -TTAAA-TCCA
          1 TTTAAATTCTA

                   
        723 TTTAAAT
          1 TTTAAAT

        730 ATTAAATCAA


Statistics
Matches: 40,  Mismatches: 5, Indels: 8
        0.75            0.09        0.15

Matches are distributed among these distances:
   9    3  0.08
  10   15  0.38
  11   17  0.43
  12    5  0.12

ACGTcount: A:0.43, C:0.08, G:0.00, T:0.48


Consensus pattern (11 bp):   
TTTAAATTCTA
Done.