Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_24812

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, 840

Length: 1400
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30


Found at i:1282 original size:3 final size:3

Alignment explanation


    Indices: 1274--1321  Score: 53
    Period size: 3  Copynumber: 16.0  Consensus size: 3

       1264 AAGATGAAGT

                                          *   *     *                   
       1274 GAA GAA GAA GAA GAA GAA GAA GAT GAG GAA AAA GAA -AA GGAA GAA
          1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA

               
       1319 GAA
          1 GAA

       1322 TAAAAGGGCT


Statistics
Matches: 38,  Mismatches: 5, Indels: 4
        0.81            0.11        0.09

Matches are distributed among these distances:
   2    2  0.05
   3   34  0.89
   4    2  0.05

ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02


Consensus pattern (3 bp):   
GAA

Done.