Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_12780

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, 649

Length: 1083
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31


Found at i:817 original size:42 final size:42

Alignment explanation


    Indices: 734--819  Score: 113
    Period size: 42  Copynumber: 2.0  Consensus size: 42

        724 GAAGCTAAAT

                                             *        
        734 TAGATCCAAAAAACTATGCTTGCAAGGAAAATAGTGTTTGTA
          1 TAGATCCAAAAAACTATGCTTGCAAGGAAAATACTGTTTGTA

                    *    *                              
        776 TAGATCCAGAAAATTATAG-TTGCAAGGAAAATACTAG-TTGTA
          1 TAGATCCAAAAAACTAT-GCTTGCAAGGAAAATACT-GTTTGTA

              
        818 TA
          1 TA

        820 AACCCTGGAT


Statistics
Matches: 39,  Mismatches: 3, Indels: 4
        0.85            0.07        0.09

Matches are distributed among these distances:
  42   37  0.95
  43    2  0.05

ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29


Consensus pattern (42 bp):   
TAGATCCAAAAAACTATGCTTGCAAGGAAAATACTGTTTGTA
Done.