Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_19471

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: 6286
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27


Found at i:4730 original size:24 final size:24

Alignment explanation


    Indices: 4703--4748  Score: 92
    Period size: 24  Copynumber: 1.9  Consensus size: 24

       4693 TGAACCAACT

                                    
       4703 AATGATTACCTGAAAATGGGAGCC
          1 AATGATTACCTGAAAATGGGAGCC

                                  
       4727 AATGATTACCTGAAAATGGGAG
          1 AATGATTACCTGAAAATGGGAG

       4749 GTGGATTTTG


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  24   22  1.00

ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22


Consensus pattern (24 bp):   
AATGATTACCTGAAAATGGGAGCC

Found at i:5772 original size:33 final size:32

Alignment explanation


    Indices: 5725--5792  Score: 118
    Period size: 33  Copynumber: 2.1  Consensus size: 32

       5715 ACCCTTTTGA

                                             
       5725 TTCAAAGCAATCTAAGTGGATTATTGGAGGCCT
          1 TTCAAAGCAATCTAAGTGGATTATTGGAGG-CT

                *                           
       5758 TTCAGAGCAATCTAAGTGGATTATTGGAGGCT
          1 TTCAAAGCAATCTAAGTGGATTATTGGAGGCT

               
       5790 TTC
          1 TTC

       5793 TTCTTTTATT


Statistics
Matches: 34,  Mismatches: 1, Indels: 1
        0.94            0.03        0.03

Matches are distributed among these distances:
  32    5  0.15
  33   29  0.85

ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32


Consensus pattern (32 bp):   
TTCAAAGCAATCTAAGTGGATTATTGGAGGCT
Done.