Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_20971

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, 545

Length: 909
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24


Found at i:421 original size:111 final size:111

Alignment explanation


    Indices: 227--438  Score: 293
    Period size: 111  Copynumber: 1.9  Consensus size: 111

        217 TCATCAGTGC

                                     *              *                        
        227 GGTTTGATGAAGGTACCAGCGAGCTTGTATCGAGCAATGGGTTAAATGCAGTCGGTGTAAGCAAT
          1 GGTTTGATGAAGGTACCAGCGAGCTAGTATCGAGCAATGGATTAAATGCAGTCGGTGTAAGCAAT

                                 *   *                    
        292 GCAAGAAGGCAAAGTTTGAGATCAAGTGAGAGGCTTGCTAGAGAAG
         66 GCAAGAAGGCAAAGTTTGAGAGCAAATGAGAGGCTTGCTAGAGAAG

                            ** *                *                            
        338 GGTTTGATGAAGGTACTGGTGAGCTCAGT-TCGAGCTATGGATTAAATGCAGAT-GGTGTAAGCA
          1 GGTTTGATGAAGGTACCAGCGAGCT-AGTATCGAGCAATGGATTAAATGCAG-TCGGTGTAAGCA

            * *    *                              
        401 GTTCAAGCAGGCAAAGTTTGAGAGCAAATGAGAGGCTT
         64 ATGCAAGAAGGCAAAGTTTGAGAGCAAATGAGAGGCTT

        439 CCTGGAGCTG


Statistics
Matches: 88,  Mismatches: 11, Indels: 4
        0.85            0.11        0.04

Matches are distributed among these distances:
 111   85  0.97
 112    3  0.03

ACGTcount: A:0.31, C:0.12, G:0.33, T:0.24


Consensus pattern (111 bp):   
GGTTTGATGAAGGTACCAGCGAGCTAGTATCGAGCAATGGATTAAATGCAGTCGGTGTAAGCAAT
GCAAGAAGGCAAAGTTTGAGAGCAAATGAGAGGCTTGCTAGAGAAG
Done.