Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_32101

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, 529

Length: 882
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23


Found at i:623 original size:57 final size:57

Alignment explanation


    Indices: 559--686  Score: 141
    Period size: 57  Copynumber: 2.2  Consensus size: 57

        549 CCACTCCCCT

                             *   *           * ** *                   
        559 AGGCGGTCTAGATCAATTTCTCA-GGATCGTGGTATGAGAGATGATTATCGCTCTCCC
          1 AGGCGGTCTAGATCAATGTC-AAGGGATCGTGGGACAAAAGATGATTATCGCTCTCCC

              *     *     *                  *                       
        616 AGTCGGTCCAGATCCATGTCAAGGGATCGTGGGGCAAAAGATGATTATCGCTCTCCC
          1 AGGCGGTCTAGATCAATGTCAAGGGATCGTGGGACAAAAGATGATTATCGCTCTCCC

                 *        
        673 AGGCGATCTAGATC
          1 AGGCGGTCTAGATC

        687 TGTTTCTCGG


Statistics
Matches: 57,  Mismatches: 13, Indels: 2
        0.79            0.18        0.03

Matches are distributed among these distances:
  56    1  0.02
  57   56  0.98

ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26


Consensus pattern (57 bp):   
AGGCGGTCTAGATCAATGTCAAGGGATCGTGGGACAAAAGATGATTATCGCTCTCCC
Done.