Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_02140

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, 984

Length: 1641
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24


Found at i:1634 original size:20 final size:20

Alignment explanation


    Indices: 1579--1635  Score: 53
    Period size: 20  Copynumber: 2.8  Consensus size: 20

       1569 AGAAATATCT

                           *     
       1579 GAAGCAAGGGAAGG-TAAAAG
          1 GAAGCAA-GGAAGGAAAAAAG

            *       *  *         
       1599 AAAGGCAATGAGGGAAAAAAG
          1 GAA-GCAAGGAAGGAAAAAAG

                            
       1620 GAAGCAAGGAAGGAAA
          1 GAAGCAAGGAAGGAAA

       1636 GAGTAA


Statistics
Matches: 28,  Mismatches: 7, Indels: 4
        0.72            0.18        0.10

Matches are distributed among these distances:
  20   17  0.61
  21   11  0.39

ACGTcount: A:0.54, C:0.05, G:0.37, T:0.04


Consensus pattern (20 bp):   
GAAGCAAGGAAGGAAAAAAG
Done.