Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_17726

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, 538

Length: 897
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26


Found at i:818 original size:12 final size:12

Alignment explanation


    Indices: 801--843  Score: 77
    Period size: 12  Copynumber: 3.6  Consensus size: 12

        791 TAAGGGAAGA

                        
        801 GAGCCCAAGCAT
          1 GAGCCCAAGCAT

                     *  
        813 GAGCCCAAGTAT
          1 GAGCCCAAGCAT

                        
        825 GAGCCCAAGCAT
          1 GAGCCCAAGCAT

                   
        837 GAGCCCA
          1 GAGCCCA

        844 GGTATGTCGC


Statistics
Matches: 29,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  12   29  1.00

ACGTcount: A:0.33, C:0.33, G:0.26, T:0.09


Consensus pattern (12 bp):   
GAGCCCAAGCAT

Found at i:833 original size:24 final size:24

Alignment explanation


    Indices: 801--849  Score: 89
    Period size: 24  Copynumber: 2.0  Consensus size: 24

        791 TAAGGGAAGA

                                    
        801 GAGCCCAAGCATGAGCCCAAGTAT
          1 GAGCCCAAGCATGAGCCCAAGTAT

                               *    
        825 GAGCCCAAGCATGAGCCCAGGTAT
          1 GAGCCCAAGCATGAGCCCAAGTAT

             
        849 G
          1 G

        850 TCGCCTTTCA


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  24   24  1.00

ACGTcount: A:0.31, C:0.29, G:0.29, T:0.12


Consensus pattern (24 bp):   
GAGCCCAAGCATGAGCCCAAGTAT
Done.