Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_09525

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: 3933
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29


Found at i:2138 original size:45 final size:45

Alignment explanation


    Indices: 2081--2172  Score: 157
    Period size: 45  Copynumber: 2.0  Consensus size: 45

       2071 GTAGAGAAAA

                                * *                      
       2081 TTAATGTCAATGAGGAGGTTGATAGCCAGCTAGCAAGTGAGAAGC
          1 TTAATGTCAATGAGGAGGTTAACAGCCAGCTAGCAAGTGAGAAGC

                                     *                   
       2126 TTAATGTCAATGAGGAGGTTAACAGTCAGCTAGCAAGTGAGAAGC
          1 TTAATGTCAATGAGGAGGTTAACAGCCAGCTAGCAAGTGAGAAGC

              
       2171 TT
          1 TT

       2173 TGTTCTGCAC


Statistics
Matches: 44,  Mismatches: 3, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  45   44  1.00

ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24


Consensus pattern (45 bp):   
TTAATGTCAATGAGGAGGTTAACAGCCAGCTAGCAAGTGAGAAGC
Done.