Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_12225

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, 574

Length: 957
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24


Found at i:889 original size:27 final size:27

Alignment explanation


    Indices: 851--921  Score: 88
    Period size: 27  Copynumber: 2.6  Consensus size: 27

        841 TCGAGTAGTA

                *        *     *       
        851 GTAGTGGAAGTGAGAGTAGTGGAAGCG
          1 GTAGCGGAAGTGAAAGTAGCGGAAGCG

                   *                 * 
        878 GTAGCGGTAGTGAAAGTAGCGGAAGTG
          1 GTAGCGGAAGTGAAAGTAGCGGAAGCG

                        *    
        905 GTAGCGGAAGTGGAAGT
          1 GTAGCGGAAGTGAAAGT

        922 GAAAGCAGTG


Statistics
Matches: 37,  Mismatches: 7, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  27   37  1.00

ACGTcount: A:0.30, C:0.06, G:0.46, T:0.18


Consensus pattern (27 bp):   
GTAGCGGAAGTGAAAGTAGCGGAAGCG

Found at i:910 original size:12 final size:12

Alignment explanation


    Indices: 893--917  Score: 50
    Period size: 12  Copynumber: 2.1  Consensus size: 12

        883 GGTAGTGAAA

                        
        893 GTAGCGGAAGTG
          1 GTAGCGGAAGTG

                        
        905 GTAGCGGAAGTG
          1 GTAGCGGAAGTG

             
        917 G
          1 G

        918 AAGTGAAAGC


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   13  1.00

ACGTcount: A:0.24, C:0.08, G:0.52, T:0.16


Consensus pattern (12 bp):   
GTAGCGGAAGTG
Done.