Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_16965

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, 754

Length: 1257
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21


Found at i:561 original size:30 final size:32

Alignment explanation


    Indices: 527--589  Score: 94
    Period size: 33  Copynumber: 2.0  Consensus size: 32

        517 AGGAAGAGAA

                                            
        527 AGGATA-GG-GAAGAAGGGGAAGGAGGAGGAG
          1 AGGATAGGGAGAAGAAGGGGAAGGAGGAGGAG

                                 *           
        557 AGGATAGGGAAGAAGAAGGGGGAGGAGGAGGAG
          1 AGGATAGGG-AGAAGAAGGGGAAGGAGGAGGAG

        590 GAGAGTTGAG


Statistics
Matches: 29,  Mismatches: 1, Indels: 3
        0.88            0.03        0.09

Matches are distributed among these distances:
  30    6  0.21
  31    2  0.07
  33   21  0.72

ACGTcount: A:0.40, C:0.00, G:0.57, T:0.03


Consensus pattern (32 bp):   
AGGATAGGGAGAAGAAGGGGAAGGAGGAGGAG
Done.