Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_34531

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, 840

Length: 1401
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26


Found at i:887 original size:57 final size:55

Alignment explanation


    Indices: 823--934  Score: 163
    Period size: 57  Copynumber: 2.0  Consensus size: 55

        813 AAAATGGGTT

                                 *                         **         
        823 AAAAAGGGAAAATCAAGCTCGGTTGTTAATGGATTTGAGGAT-CCGGGGAAAATGGCA
          1 AAAAAGGGAAAATCAAGCTCGATTG-T--TGGATTTGAGGATACCGGAAAAAATGGCA

                                                                   
        880 AAAAAGGGAAAATCAAGCTCGATTGTTGGATTTGAGGATACCGGAAAAAATGGCA
          1 AAAAAGGGAAAATCAAGCTCGATTGTTGGATTTGAGGATACCGGAAAAAATGGCA

        935 TCAATGGCCA


Statistics
Matches: 51,  Mismatches: 3, Indels: 4
        0.88            0.05        0.07

Matches are distributed among these distances:
  54   13  0.25
  55   13  0.25
  56    1  0.02
  57   24  0.47

ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21


Consensus pattern (55 bp):   
AAAAAGGGAAAATCAAGCTCGATTGTTGGATTTGAGGATACCGGAAAAAATGGCA
Done.