Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_17865

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, 586

Length: 977
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23


Found at i:897 original size:12 final size:12

Alignment explanation


    Indices: 882--919  Score: 67
    Period size: 12  Copynumber: 3.2  Consensus size: 12

        872 GAGTAGTGGT

                 *      
        882 AGTGGTAGCGGG
          1 AGTGGAAGCGGG

                        
        894 AGTGGAAGCGGG
          1 AGTGGAAGCGGG

                        
        906 AGTGGAAGCGGG
          1 AGTGGAAGCGGG

              
        918 AG
          1 AG

        920 CGAGAGCAGT


Statistics
Matches: 25,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  12   25  1.00

ACGTcount: A:0.24, C:0.08, G:0.58, T:0.11


Consensus pattern (12 bp):   
AGTGGAAGCGGG

Found at i:933 original size:24 final size:24

Alignment explanation


    Indices: 880--933  Score: 56
    Period size: 24  Copynumber: 2.2  Consensus size: 24

        870 GAGAGTAGTG

                   *        *      *
        880 GTAGTGGTAGCGGGAGTGGAAGCG
          1 GTAGTGGAAGCGGGAGCGGAAGCA

             *                       
        904 GGAGTGGAAGCGGGAGC-GAGAGCA
          1 GTAGTGGAAGCGGGAGCGGA-AGCA

                  
        928 GTAGTG
          1 GTAGTG

        934 ATAGTGAAAG


Statistics
Matches: 24,  Mismatches: 5, Indels: 2
        0.77            0.16        0.06

Matches are distributed among these distances:
  23    2  0.08
  24   22  0.92

ACGTcount: A:0.24, C:0.09, G:0.54, T:0.13


Consensus pattern (24 bp):   
GTAGTGGAAGCGGGAGCGGAAGCA
Done.