Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_15743

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, 797

Length: 1329
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.24


Found at i:389 original size:18 final size:18

Alignment explanation


    Indices: 363--435  Score: 65
    Period size: 18  Copynumber: 4.1  Consensus size: 18

        353 ATGATGATCC

                *         *   
        363 TAACGAAAATAATATTAG
          1 TAACAAAAATAATAATAG

                      *      *
        381 TAACAAAAATCATAATAT
          1 TAACAAAAATAATAATAG

               * *       *   *
        399 TAATATAAATAATCATAT
          1 TAACAAAAATAATAATAG

               *              
        417 TAATAAAAATAATAATAG
          1 TAACAAAAATAATAATAG

             
        435 T
          1 T

        436 GGAAACGAGA


Statistics
Matches: 44,  Mismatches: 11, Indels: 0
        0.80            0.20        0.00

Matches are distributed among these distances:
  18   44  1.00

ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32


Consensus pattern (18 bp):   
TAACAAAAATAATAATAG
Done.