Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_01685

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, 264

Length: 441
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26


Found at i:242 original size:102 final size:102

Alignment explanation


    Indices: 66--271  Score: 333
    Period size: 102  Copynumber: 2.0  Consensus size: 102

         56 TAGTTCTCTC

                                                *        *     *             
         66 AGTCGAGGGAAGATTTCTAAAATCACTGAGCAAAAATAATTCAAAGCAAGTCTTGCCACCCCCTA
          1 AGTCGAGGGAAGATTTCTAAAATCACTGAGCAAAAACAATTCAAACCAAGTATTGCCACCCCCTA

                       *    *                    
        131 CACCAACTAAAGCCTCGGATTTTGGTGACTCAATTGA
         66 CACCAACTAAAACCTCAGATTTTGGTGACTCAATTGA

                                             *    *                          
        168 AGTCGAGGGAAGACTTT-TAAAATCACTGAGCAGAAACGATTCAAACCAAGTATTGCCACCCCCT
          1 AGTCGAGGGAAGA-TTTCTAAAATCACTGAGCAAAAACAATTCAAACCAAGTATTGCCACCCCCT

                                                  
        232 ACACCAACTAAAACCTCAGATTTTGGTGACTCAATTGA
         65 ACACCAACTAAAACCTCAGATTTTGGTGACTCAATTGA

              
        270 AG
          1 AG

        272 GCTACAAAGA


Statistics
Matches: 96,  Mismatches: 7, Indels: 2
        0.91            0.07        0.02

Matches are distributed among these distances:
 102   93  0.97
 103    3  0.03

ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23


Consensus pattern (102 bp):   
AGTCGAGGGAAGATTTCTAAAATCACTGAGCAAAAACAATTCAAACCAAGTATTGCCACCCCCTA
CACCAACTAAAACCTCAGATTTTGGTGACTCAATTGA
Done.