Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_29443

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, 361

Length: 603
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28


Found at i:57 original size:18 final size:18

Alignment explanation


    Indices: 6--89  Score: 116
    Period size: 18  Copynumber: 4.7  Consensus size: 18

          1 ATGGA

                     **      *
          6 AGGAGAAATAATGGGAGA
          1 AGGAGAAATCCTGGGAGG

                              
         24 AGGAGAAATCCTGGGAGG
          1 AGGAGAAATCCTGGGAGG

                               
         42 AGGAGAAATGCC-GGGAGG
          1 AGGAGAAAT-CCTGGGAGG

                   *          
         60 AGGAGAAGTCCTGGGAGG
          1 AGGAGAAATCCTGGGAGG

                        
         78 AGGAGAAATCCT
          1 AGGAGAAATCCT

         90 AGAACGAACA


Statistics
Matches: 59,  Mismatches: 5, Indels: 4
        0.87            0.07        0.06

Matches are distributed among these distances:
  17    2  0.03
  18   55  0.93
  19    2  0.03

ACGTcount: A:0.37, C:0.10, G:0.43, T:0.11


Consensus pattern (18 bp):   
AGGAGAAATCCTGGGAGG
Done.