Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_05754

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: 2076
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23


Found at i:907 original size:42 final size:42

Alignment explanation


    Indices: 859--1028  Score: 252
    Period size: 42  Copynumber: 4.0  Consensus size: 42

        849 ACCAAATGAG

                                               *      
        859 GAATTGGTAGCTGATGAGACCAATGATGCTGCTGTATCTGAA
          1 GAATTGGTAGCTGATGAGACCAATGATGCTGCTGTTTCTGAA

                    *              *       *          
        901 GAATTGGTGGCTGATGAGACCAACGATGCTGTTGTTTCTGAA
          1 GAATTGGTAGCTGATGAGACCAATGATGCTGCTGTTTCTGAA

                    *                              *  
        943 GAATTGGTGGCTGATGAGACCAATGATGCTGCTGTTTCTCAA
          1 GAATTGGTAGCTGATGAGACCAATGATGCTGCTGTTTCTGAA

                   *                               *   
        985 GAATTGGCAGCTGATG-GAACCAATGATGCTGCTGTTTCCGAA
          1 GAATTGGTAGCTGATGAG-ACCAATGATGCTGCTGTTTCTGAA

              
       1027 GA
          1 GA

       1029 TGCACCTGAA


Statistics
Matches: 116,  Mismatches: 11, Indels: 2
        0.90            0.09        0.02

Matches are distributed among these distances:
  41    1  0.01
  42  115  0.99

ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29


Consensus pattern (42 bp):   
GAATTGGTAGCTGATGAGACCAATGATGCTGCTGTTTCTGAA

Done.