Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_21488

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, 685

Length: 1143
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.24


Found at i:683 original size:81 final size:81

Alignment explanation


    Indices: 580--749  Score: 313
    Period size: 81  Copynumber: 2.1  Consensus size: 81

        570 GAAATTAAAA

                                      *                                      
        580 CCAAAGAAGGATGCAGAGCTGAAGCCCATGAATGATATATTTGGTGACAATTTAAATATAATAAA
          1 CCAAAGAAGGATGCAGAGCTGAAGCCAATGAATGATATATTTGGTGACAATTTAAATATAATAAA

                            
        645 AGACACTGAACTGAAG
         66 AGACACTGAACTGAAG

                   *                              *                          
        661 CCAAAGACGGATGCAGAGCTGAAGCCAATGAATGATATTTTTGGTGACAATTTAAATATAATAAA
          1 CCAAAGAAGGATGCAGAGCTGAAGCCAATGAATGATATATTTGGTGACAATTTAAATATAATAAA

                            
        726 AGACACTGAACTGAAG
         66 AGACACTGAACTGAAG

                    
        742 CCAAAGAA
          1 CCAAAGAA

        750 TAATTCTTTC


Statistics
Matches: 85,  Mismatches: 4, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  81   85  1.00

ACGTcount: A:0.44, C:0.14, G:0.21, T:0.22


Consensus pattern (81 bp):   
CCAAAGAAGGATGCAGAGCTGAAGCCAATGAATGATATATTTGGTGACAATTTAAATATAATAAA
AGACACTGAACTGAAG
Done.