Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_33346

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, 541

Length: 903
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24


Found at i:356 original size:42 final size:42

Alignment explanation


    Indices: 279--358  Score: 115
    Period size: 42  Copynumber: 1.9  Consensus size: 42

        269 CTGAGTTAGG

                                        * *           
        279 TAAAGATGAGAAATTTGAGGCAGATGATGGTCAGGAACCGGA
          1 TAAAGATGAGAAATTTGAGGCAGATGATAGCCAGGAACCGGA

                 *      *             *           
        321 TAAAGTTGAGAATTTTGAGGCAGATGGTAGCCAGGAAC
          1 TAAAGATGAGAAATTTGAGGCAGATGATAGCCAGGAAC

        359 TGCCTACTAA


Statistics
Matches: 33,  Mismatches: 5, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  42   33  1.00

ACGTcount: A:0.36, C:0.10, G:0.33, T:0.21


Consensus pattern (42 bp):   
TAAAGATGAGAAATTTGAGGCAGATGATAGCCAGGAACCGGA
Done.