Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_02700

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: 1998
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24


Found at i:1237 original size:45 final size:45

Alignment explanation


    Indices: 1161--1249  Score: 106
    Period size: 45  Copynumber: 2.0  Consensus size: 45

       1151 CTGATAAAAT

                     *     **                 **         
       1161 GAAGAAAGAGATGGCGCTGACAATAAATAGCTCAGTTGAGAAGAG
          1 GAAGAAAGAAATGGCAATGACAATAAATAGCTCAACTGAGAAGAG

                               *  *   *                 
       1206 GAAGAAAGAAATGGCAATGGCAGTAACTAGCTCAACTGAGAAGA
          1 GAAGAAAGAAATGGCAATGACAATAAATAGCTCAACTGAGAAGA

       1250 TGAGTCGAGA


Statistics
Matches: 36,  Mismatches: 8, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  45   36  1.00

ACGTcount: A:0.44, C:0.12, G:0.29, T:0.15


Consensus pattern (45 bp):   
GAAGAAAGAAATGGCAATGACAATAAATAGCTCAACTGAGAAGAG
Done.