Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_13175

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, 567

Length: 945
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24


Found at i:607 original size:3 final size:3

Alignment explanation


    Indices: 601--641  Score: 73
    Period size: 3  Copynumber: 13.7  Consensus size: 3

        591 ACAACAAGAA

                                                  *               
        601 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAA GAG GAG GAG GA
          1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA

        642 AGATGAGGAT


Statistics
Matches: 36,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
   3   36  1.00

ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00


Consensus pattern (3 bp):   
GAG

Found at i:642 original size:12 final size:12

Alignment explanation


    Indices: 601--650  Score: 73
    Period size: 12  Copynumber: 4.2  Consensus size: 12

        591 ACAACAAGAA

                 *      
        601 GAGGAGGAGGAG
          1 GAGGAAGAGGAG

                 *      
        613 GAGGAGGAGGAG
          1 GAGGAAGAGGAG

                        
        625 GAGGAAGAGGAG
          1 GAGGAAGAGGAG

                    *   
        637 GAGGAAGATGAG
          1 GAGGAAGAGGAG

              
        649 GA
          1 GA

        651 TGAAATGAAA


Statistics
Matches: 36,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  12   36  1.00

ACGTcount: A:0.38, C:0.00, G:0.60, T:0.02


Consensus pattern (12 bp):   
GAGGAAGAGGAG

Done.