Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_05462

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: 5880
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30


Found at i:2426 original size:72 final size:72

Alignment explanation


    Indices: 2309--2444  Score: 229
    Period size: 72  Copynumber: 1.9  Consensus size: 72

       2299 ATGCAATGGG

                              *                                              
       2309 AACATCTAATAAATCTGCCAACGCTTTCTCTCGCTACTTTTCCCAATTTAACATCGCTTCCGGAG
          1 AACATCTAATAAATCTGCAAACGCTTTCTCTCGCTACTTTTCCCAATTTAACATCGCTTCCGGAG

                   
       2374 TGGATTC
         66 TGGATTC

                                 *           *                               
       2381 AACATCTAATAAATCTGCAAAGGCTTTCTCTCGTTGAC-TTTCCCAATTTAACATCGCTTCCGGA
          1 AACATCTAATAAATCTGCAAACGCTTTCTCTCGCT-ACTTTTCCCAATTTAACATCGCTTCCGGA

       2445 TGAGATGCAT


Statistics
Matches: 60,  Mismatches: 3, Indels: 2
        0.92            0.05        0.03

Matches are distributed among these distances:
  72   58  0.97
  73    2  0.03

ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33


Consensus pattern (72 bp):   
AACATCTAATAAATCTGCAAACGCTTTCTCTCGCTACTTTTCCCAATTTAACATCGCTTCCGGAG
TGGATTC

Done.