Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_17942

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: 3333
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26


Found at i:2898 original size:42 final size:42

Alignment explanation


    Indices: 2839--2958  Score: 213
    Period size: 42  Copynumber: 2.9  Consensus size: 42

       2829 GGAACAACTG

                   *   *                *             
       2839 CAACAGTATGAGGCAAAGATGAAAAAAATGGAGGAGCAATTA
          1 CAACAGTCTGAAGCAAAGATGAAAAAAACGGAGGAGCAATTA

                                                      
       2881 CAACAGTCTGAAGCAAAGATGAAAAAAACGGAGGAGCAATTA
          1 CAACAGTCTGAAGCAAAGATGAAAAAAACGGAGGAGCAATTA

                                                
       2923 CAACAGTCTGAAGCAAAGATGAAAAAAACGGAGGAG
          1 CAACAGTCTGAAGCAAAGATGAAAAAAACGGAGGAG

       2959 ATGTTGCGAA


Statistics
Matches: 75,  Mismatches: 3, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  42   75  1.00

ACGTcount: A:0.50, C:0.12, G:0.26, T:0.12


Consensus pattern (42 bp):   
CAACAGTCTGAAGCAAAGATGAAAAAAACGGAGGAGCAATTA
Done.