Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_30328

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, 766

Length: 1278
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31


Found at i:97 original size:18 final size:18

Alignment explanation


    Indices: 59--99  Score: 57
    Period size: 18  Copynumber: 2.3  Consensus size: 18

         49 AGTCTGAGCA

                         *    
         59 AGAATGAGAGTGAGGCTG
          1 AGAATGAGAGTGAAGCTG

                               
         77 AGAATGAGAGTGTAAGC-G
          1 AGAATGAGAGTG-AAGCTG

                 
         95 AGAAT
          1 AGAAT

        100 AAGAATGAGA


Statistics
Matches: 21,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
  18   18  0.86
  19    3  0.14

ACGTcount: A:0.39, C:0.05, G:0.39, T:0.17


Consensus pattern (18 bp):   
AGAATGAGAGTGAAGCTG
Done.