Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_19604

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: 2748
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25


Found at i:775 original size:15 final size:15

Alignment explanation


    Indices: 757--792  Score: 63
    Period size: 15  Copynumber: 2.4  Consensus size: 15

        747 GTTTTTGCAT

                           
        757 CAGCAGCAACAACAG
          1 CAGCAGCAACAACAG

                       *   
        772 CAGCAGCAACAGCAG
          1 CAGCAGCAACAACAG

                  
        787 CAGCAG
          1 CAGCAG

        793 TTGCTCCAAA


Statistics
Matches: 20,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  15   20  1.00

ACGTcount: A:0.42, C:0.33, G:0.25, T:0.00


Consensus pattern (15 bp):   
CAGCAGCAACAACAG

Found at i:789 original size:12 final size:12

Alignment explanation


    Indices: 757--791  Score: 61
    Period size: 12  Copynumber: 2.9  Consensus size: 12

        747 GTTTTTGCAT

                    *   
        757 CAGCAGCAACAA
          1 CAGCAGCAGCAA

                        
        769 CAGCAGCAGCAA
          1 CAGCAGCAGCAA

                       
        781 CAGCAGCAGCA
          1 CAGCAGCAGCA

        792 GTTGCTCCAA


Statistics
Matches: 22,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  12   22  1.00

ACGTcount: A:0.43, C:0.34, G:0.23, T:0.00


Consensus pattern (12 bp):   
CAGCAGCAGCAA
Done.