Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_20141

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: 2220
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28


Found at i:1587 original size:37 final size:38

Alignment explanation


    Indices: 1546--1621  Score: 100
    Period size: 39  Copynumber: 2.0  Consensus size: 38

       1536 TGATAACTCA

                     *                            
       1546 AAGCAAA-AGAAATCAGAAGATTCATCTGATATCTTAG
          1 AAGCAAACAAAAATCAGAAGATTCATCTGATATCTTAG

                           *         * *           
       1583 AAGCAAAGCAAAAATTAGAAGATTCTTGTGATATCTTAG
          1 AAGCAAA-CAAAAATCAGAAGATTCATCTGATATCTTAG

       1622 GGCCACATAG


Statistics
Matches: 33,  Mismatches: 4, Indels: 2
        0.85            0.10        0.05

Matches are distributed among these distances:
  37    7  0.21
  39   26  0.79

ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26


Consensus pattern (38 bp):   
AAGCAAACAAAAATCAGAAGATTCATCTGATATCTTAG
Done.