Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_23691

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, 723

Length: 1206
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29


Found at i:332 original size:96 final size:96

Alignment explanation


    Indices: 168--416  Score: 324
    Period size: 96  Copynumber: 2.6  Consensus size: 96

        158 GTTCCCGTAG

                                 *                 *                         
        168 TTCTGTGAACAATACTGGGAATCCTCCTGCATCCCTACCAAACAGCCAACTGAACTCCTTTGCCA
          1 TTCTGTGAACAATACTGGGAACCCTCCTGCATCCCTACCGAACAGCCAACTGAACTCCTTTGCCA

                         * ***               
        233 GTTTTAACAGCCTGAGTGC-GATCACT-TCTAA
         66 GTTTTAACAGCC-CAACCCAGATCACTAT-TAA

                         *                                     *             
        264 TTCTGTGAACAATTCTGGGAACCCTCCTGCATCCCTACCGAACAGCCAACTAAACTCCTCTT-CC
          1 TTCTGTGAACAATACTGGGAACCCTCCTGCATCCCTACCGAACAGCCAACTGAACTCCT-TTGCC

                                 *   *     *
        328 AGTTTTAACAGCCCAACCCAGTTCAGTATTAG
         65 AGTTTTAACAGCCCAACCCAGATCACTATTAA

               *          *                             *            
        360 TTCCGTGAACAATAGTGGGAACCCTCCTGCATCCCTACCGAACAACCAACTGAACTC
          1 TTCTGTGAACAATACTGGGAACCCTCCTGCATCCCTACCGAACAGCCAACTGAACTC

        417 TACTGCTTTT


Statistics
Matches: 134,  Mismatches: 16, Indels: 6
        0.86            0.10        0.04

Matches are distributed among these distances:
  95    2  0.01
  96  129  0.96
  97    3  0.02

ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25


Consensus pattern (96 bp):   
TTCTGTGAACAATACTGGGAACCCTCCTGCATCCCTACCGAACAGCCAACTGAACTCCTTTGCCA
GTTTTAACAGCCCAACCCAGATCACTATTAA
Done.