Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_13906

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: 3846
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26


Found at i:822 original size:39 final size:39

Alignment explanation


    Indices: 766--850  Score: 136
    Period size: 39  Copynumber: 2.2  Consensus size: 39

        756 AAACACACTG

                                                    
        766 AAGCTTGCAACTCCAAAGCAAGT-AAGGGAAAAGAAACCA
          1 AAGCTTGCAACTCCAAAGCAAGTCAA-GGAAAAGAAACCA

             *                 *                   
        805 AGGCTTGCAACTCCAAAGCTAGTCAAGGAAAAGAAACCA
          1 AAGCTTGCAACTCCAAAGCAAGTCAAGGAAAAGAAACCA

                   
        844 AAGCTTG
          1 AAGCTTG

        851 TAGCTGCGAA


Statistics
Matches: 42,  Mismatches: 3, Indels: 2
        0.89            0.06        0.04

Matches are distributed among these distances:
  39   40  0.95
  40    2  0.05

ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13


Consensus pattern (39 bp):   
AAGCTTGCAACTCCAAAGCAAGTCAAGGAAAAGAAACCA
Done.