Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_02008

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, 1000

Length: 2828
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22


Found at i:817 original size:48 final size:48

Alignment explanation


    Indices: 732--924  Score: 205
    Period size: 48  Copynumber: 4.0  Consensus size: 48

        722 TGGCGGAAAT

                         *       *                             
        732 GGAAGATGAA-CCGAGGGTAAACAAACCAA-A-AATTCAAGACCAACTAGA
          1 GGAAGATGAACCCAAGGG-AACCAAA-CAACAGAA-TCAAGACCAACTAGA

               *                         *                  
        780 GGAGGATGAACCCAAGGGAACCAAACAACCGAATCAAGACCAACTAGA
          1 GGAAGATGAACCCAAGGGAACCAAACAACAGAATCAAGACCAACTAGA

                      * *     *                     *        
        828 GGAAGATGAATCGAAGGGGACCAAACAACTA-AATCAAGATCAACTAGA
          1 GGAAGATGAACCCAAGGGAACCAAACAAC-AGAATCAAGACCAACTAGA

             *                  *     *         *       *   
        876 GCAAGATGAACCCAAGGGAAACAAACTACAGAATCATGACCAACAAGA
          1 GGAAGATGAACCCAAGGGAACCAAACAACAGAATCAAGACCAACTAGA

             
        924 G
          1 G

        925 TCGCAGGTGC


Statistics
Matches: 121,  Mismatches: 19, Indels: 10
        0.81            0.13        0.07

Matches are distributed among these distances:
  47    4  0.03
  48  109  0.90
  49    8  0.07

ACGTcount: A:0.48, C:0.21, G:0.22, T:0.09


Consensus pattern (48 bp):   
GGAAGATGAACCCAAGGGAACCAAACAACAGAATCAAGACCAACTAGA
Done.