Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_37599

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: 2256
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.24


Found at i:704 original size:93 final size:93

Alignment explanation


    Indices: 538--758  Score: 327
    Period size: 93  Copynumber: 2.4  Consensus size: 93

        528 TGAACCTCCA

                                    *                              **    **  
        538 AAGAA-AACCAAGAAGAAGATCAGCAAAGCTAAAGAATCTGTTGAACCTCCAAGGGGTTCATTAA
          1 AAGAAGAA-CAAGAAGAAGATCAGTAAAGCTAAAGAATCTGTTGAACCTCCAAGGAATTCACAAA

              * *                        
        602 TTTCGGAAGTTGTCCAAGAGAAAACAGAG
         65 TTCCAGAAGTTGTCCAAGAGAAAACAGAG

                          *               *                                  
        631 AAGAAGAACAAGAAAAAGATCAGTAAAGCTGAAGAATCTGTTGAACCTCCAAGGAATTCACAAAT
          1 AAGAAGAACAAGAAGAAGATCAGTAAAGCTAAAGAATCTGTTGAACCTCCAAGGAATTCACAAAT

                         *          *   
        696 TCCAGAAGTTGTCGAAGAGAAAACCGAG
         66 TCCAGAAGTTGTCCAAGAGAAAACAGAG

                                               
        724 AAGAAGAACAAGAAGAAGATCAGTAAAGCTAAAGA
          1 AAGAAGAACAAGAAGAAGATCAGTAAAGCTAAAGA

        759 TAACAAGGCT


Statistics
Matches: 114,  Mismatches: 13, Indels: 2
        0.88            0.10        0.02

Matches are distributed among these distances:
  93  112  0.98
  94    2  0.02

ACGTcount: A:0.47, C:0.15, G:0.22, T:0.16


Consensus pattern (93 bp):   
AAGAAGAACAAGAAGAAGATCAGTAAAGCTAAAGAATCTGTTGAACCTCCAAGGAATTCACAAAT
TCCAGAAGTTGTCCAAGAGAAAACAGAG
Done.