Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_32482

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: 3702
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25


Found at i:3327 original size:93 final size:93

Alignment explanation


    Indices: 3209--3410  Score: 291
    Period size: 93  Copynumber: 2.2  Consensus size: 93

       3199 AATGATTCTA

                   *     *                                                   
       3209 GTTGGGGGAAAAAGGGATCAGCAGATGCAAGTCAGGACTCTAA-CTGGGGTAAGAAAAATTGGGG
          1 GTTGGGGCAAAAAAGGATCAGCAGATGCAAGTCAGGACTC-AAGCTGGGGTAAGAAAAATTGGGG

                                      *  
       3273 CACTGGAAATGATGCTGGCCAAGACTGTG
         65 CACTGGAAATGATGCTGGCCAAGACTCTG

                                                  *                 * *      
       3302 GTTGGGGCAAAAAAGGATC-GACAGATGCAAGTCAGGATTCAAGCTGGGGTAAGAAGAGTTGGGG
          1 GTTGGGGCAAAAAAGGATCAG-CAGATGCAAGTCAGGACTCAAGCTGGGGTAAGAAAAATTGGGG

            *     *      *               
       3366 TACTGGCAATGATTCTGGCCAAGACTCTG
         65 CACTGGAAATGATGCTGGCCAAGACTCTG

                            
       3395 GTTGGGGCAAAAAAGG
          1 GTTGGGGCAAAAAAGG

       3411 TGGTTGGAAC


Statistics
Matches: 98,  Mismatches: 9, Indels: 4
        0.88            0.08        0.04

Matches are distributed among these distances:
  92    3  0.03
  93   95  0.97

ACGTcount: A:0.32, C:0.14, G:0.36, T:0.19


Consensus pattern (93 bp):   
GTTGGGGCAAAAAAGGATCAGCAGATGCAAGTCAGGACTCAAGCTGGGGTAAGAAAAATTGGGGC
ACTGGAAATGATGCTGGCCAAGACTCTG
Done.