Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_18581

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: 2181
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27


Found at i:1889 original size:153 final size:153

Alignment explanation


    Indices: 1608--1905  Score: 488
    Period size: 153  Copynumber: 1.9  Consensus size: 153

       1598 GATCTATGGA

                                            *          *                *    
       1608 TTCTTTAGATTCCAACTTGGAGGCAGGTGTAACTAAGTTAGATTTACCGGAGGGGAGAACGAGGT
          1 TTCTTTAGATTCCAACTTGGAGGCAGGTGTAAATAAGTTAGATATACCGGAGGGGAGAACAAGGT

                                                         * *          *     *
       1673 TGGAGAAGAGTTGTTCCAAAAGCAAGGATAGAAAAGATGATAATATCGAAAGTGAGATTCAGGCG
         66 TGGAGAAGAGTTGTTCCAAAAGCAAGGATAGAAAAGATGATAATACCAAAAGTGAGATCCAGGCC

                                   
       1738 CTTGCTAAACTCAATTCAGGGCG
        131 CTTGCTAAACTCAATTCAGGGCG

                  *                                              *           
       1761 TTCTTTGGATTCCAACTTGGAGGCAGGTGTAAATAAGTTAGATATACCGGAGGTGAGAACAAGGT
          1 TTCTTTAGATTCCAACTTGGAGGCAGGTGTAAATAAGTTAGATATACCGGAGGGGAGAACAAGGT

                                  *                     *                    
       1826 TGGAGAAGAGTTGTTCCAAAAGTAAGGATAGAAAAGATGATAATGCCAAAAGTGAGATCCAGGCC
         66 TGGAGAAGAGTTGTTCCAAAAGCAAGGATAGAAAAGATGATAATACCAAAAGTGAGATCCAGGCC

                *          
       1891 CTTGTTAAACTCAAT
        131 CTTGCTAAACTCAAT

       1906 CTAAAGCTCC


Statistics
Matches: 133,  Mismatches: 12, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
 153  133  1.00

ACGTcount: A:0.35, C:0.13, G:0.28, T:0.24


Consensus pattern (153 bp):   
TTCTTTAGATTCCAACTTGGAGGCAGGTGTAAATAAGTTAGATATACCGGAGGGGAGAACAAGGT
TGGAGAAGAGTTGTTCCAAAAGCAAGGATAGAAAAGATGATAATACCAAAAGTGAGATCCAGGCC
CTTGCTAAACTCAATTCAGGGCG
Done.