Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_28109

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, 786

Length: 1311
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24


Found at i:584 original size:24 final size:24

Alignment explanation


    Indices: 527--599  Score: 92
    Period size: 24  Copynumber: 3.0  Consensus size: 24

        517 GGCTACTCAT

                     *    *         
        527 CTGGAAGAAACAGTTATGTCAGCA
          1 CTGGAAGAAGCAGTCATGTCAGCA

                                   *
        551 CTGGAAGAAGCAGTCATGTCAGCG
          1 CTGGAAGAAGCAGTCATGTCAGCA

                      *  *    *     
        575 CTGGAAGAAGTAGCCATGGCAGCA
          1 CTGGAAGAAGCAGTCATGTCAGCA

             
        599 C
          1 C

        600 AATTACCCTT


Statistics
Matches: 42,  Mismatches: 7, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  24   42  1.00

ACGTcount: A:0.33, C:0.21, G:0.30, T:0.16


Consensus pattern (24 bp):   
CTGGAAGAAGCAGTCATGTCAGCA
Done.