Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_10935

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, 700

Length: 1167
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29


Found at i:691 original size:54 final size:54

Alignment explanation


    Indices: 609--731  Score: 212
    Period size: 54  Copynumber: 2.3  Consensus size: 54

        599 TGGGTCATGT

                                                                  
        609 CAAGTCCTGCATGGACAATATCGTGAAAGAATCATGCCAGGATTGTGGTAACGA
          1 CAAGTCCTGCATGGACAATATCGTGAAAGAATCATGCCAGGATTGTGGTAACGA

                                 *                                
        663 CAAGTCCTGCATGGACAATATTGTGAAAGAATCATGCCAGGATTGTGGTAACGA
          1 CAAGTCCTGCATGGACAATATCGTGAAAGAATCATGCCAGGATTGTGGTAACGA

            *     *         
        717 AAAGT-TTGCATGGAC
          1 CAAGTCCTGCATGGAC

        732 TTACACCTCA


Statistics
Matches: 66,  Mismatches: 3, Indels: 1
        0.94            0.04        0.01

Matches are distributed among these distances:
  53    9  0.14
  54   57  0.86

ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24


Consensus pattern (54 bp):   
CAAGTCCTGCATGGACAATATCGTGAAAGAATCATGCCAGGATTGTGGTAACGA
Done.