Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_21976

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: 2838
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26


Found at i:2616 original size:51 final size:51

Alignment explanation


    Indices: 2533--2675  Score: 180
    Period size: 51  Copynumber: 2.8  Consensus size: 51

       2523 TCAACGATGG

                 *                 *   *                 *      
       2533 TTTCAGGGTGGGAT-TCATGCTTTCACTCCGGGGACTCAACCACTTGGCCAA
          1 TTTCACGGTGGGATCT-ATGCTTCCACACCGGGGACTCAACCACTAGGCCAA

                                       *                   *  *
       2584 TTTCACGGTGGGATCTATGCTTCCACAGCGGGGACTCAACCACTAGGGCAG
          1 TTTCACGGTGGGATCTATGCTTCCACACCGGGGACTCAACCACTAGGCCAA

            *               *                *       
       2635 CTTCACGGTGGGATCTTTGCTTCCACACCGGGGGCTCAACC
          1 TTTCACGGTGGGATCTATGCTTCCACACCGGGGACTCAACC

       2676 GCAAGAGCTA


Statistics
Matches: 80,  Mismatches: 11, Indels: 2
        0.86            0.12        0.02

Matches are distributed among these distances:
  51   79  0.99
  52    1  0.01

ACGTcount: A:0.19, C:0.29, G:0.27, T:0.24


Consensus pattern (51 bp):   
TTTCACGGTGGGATCTATGCTTCCACACCGGGGACTCAACCACTAGGCCAA
Done.