Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_20023

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, 747

Length: 1245
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27


Found at i:671 original size:42 final size:42

Alignment explanation


    Indices: 608--892  Score: 252
    Period size: 42  Copynumber: 6.8  Consensus size: 42

        598 TATCGTTACT

                *     *     *            *       *    
        608 GTTCCTACTCACCTGAAGATCGATACTATCGAAGGCGTGATC
          1 GTTCTTACTCTCCTGATGATCGATACTATAGAAGGCGGGATC

             *  *     *   *       *  *   * *  *       
        650 GGTCCTACTCACCTTATGATCGTTATTATCGTAGACGGGA-C
          1 GTTCTTACTCTCCTGATGATCGATACTATAGAAGGCGGGATC

                          *      *                *    *
        691 TGTTCTTACTCTCCCGATGATAGATACTATAGAAGGCGTGATAG
          1 -GTTCTTACTCTCCTGATGATCGATACTATAGAAGGCGGGAT-C

                                  *   *     *  *       
        735 GTT-TTACTCTCCTGATGATCGTTACCACT-GCAGACGGGATC
          1 GTTCTTACTCTCCTGATGATCGATACTA-TAGAAGGCGGGATC

                            *  *                    * 
        776 GTTCTTACTCTCCTGAGGACCGATACTATAGAAGGCGGGACC
          1 GTTCTTACTCTCCTGATGATCGATACTATAGAAGGCGGGATC

                            *      *                * 
        818 GTTCTTACTCTCCTGAGGATCGACACTATAGAAGGCGGGAAC
          1 GTTCTTACTCTCCTGATGATCGATACTATAGAAGGCGGGATC

                      *           *          
        860 GTTCTTACTCACCTGATGATCGGTACTATAGAA
          1 GTTCTTACTCTCCTGATGATCGATACTATAGAA

        893 TTTCACGTGA


Statistics
Matches: 194,  Mismatches: 43, Indels: 12
        0.78            0.17        0.05

Matches are distributed among these distances:
  41    5  0.03
  42  185  0.95
  43    4  0.02

ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29


Consensus pattern (42 bp):   
GTTCTTACTCTCCTGATGATCGATACTATAGAAGGCGGGATC

Done.