Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_26859

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: 2340
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31


Found at i:537 original size:72 final size:72

Alignment explanation


    Indices: 376--537  Score: 209
    Period size: 72  Copynumber: 2.2  Consensus size: 72

        366 GAAGAGTTTG

                                *         **         *           *     *     
        376 AAACAGTTGGACCTATCCAATAACCAAATTCTTGGTCCCATTCCTTCTACCTTGGGCAACTTAAC
          1 AAACAGTTGGACCTATCCAAAAACCAAATTAGTGGTCCCATCCCTTCTACCTTAGGCAAATTAAC

              *    
        441 CACTTTA
         66 CAATTTA

                      *                           **                         
        448 AAA-ATGTTGAACCTATCCAAAAACCAAATTAGTGGTCGTATCCCTTCTACCTTAGGCAAATTAA
          1 AAACA-GTTGGACCTATCCAAAAACCAAATTAGTGGTCCCATCCCTTCTACCTTAGGCAAATTAA

                    
        512 CCAATTTA
         65 CCAATTTA

                        *     
        520 AAACAGTTGGACTTATCC
          1 AAACAGTTGGACCTATCC

        538 TTCAATCAAA


Statistics
Matches: 76,  Mismatches: 12, Indels: 4
        0.83            0.13        0.04

Matches are distributed among these distances:
  71    1  0.01
  72   74  0.97
  73    1  0.01

ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30


Consensus pattern (72 bp):   
AAACAGTTGGACCTATCCAAAAACCAAATTAGTGGTCCCATCCCTTCTACCTTAGGCAAATTAAC
CAATTTA
Done.