Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_18981

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: 3924
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30


Found at i:3699 original size:69 final size:69

Alignment explanation


    Indices: 3588--3804  Score: 290
    Period size: 69  Copynumber: 3.1  Consensus size: 69

       3578 AACACCTCAC

                      *      *       *     * *                               
       3588 CTCTCTTTCTCATTTGTGTATCTACTATTGTACAAAGCTCCAATCCATGCCGCCAAACATGCTCC
          1 CTCTCTTTCTTATTTGTATATCTACAATTGTCCCAAGCTCCAATCCATGCCGCCAAACATGCTCC

                
       3653 CACA
         66 CACA

                             *                  *              *           * 
       3657 CTCTCTTTCTTATTTGTTTATCTACAATTGTCCCAATCTCCAATCCATGCCCCCAAACATGCTTC
          1 CTCTCTTTCTTATTTGTATATCTACAATTGTCCCAAGCTCCAATCCATGCCGCCAAACATGCTCC

             *  
       3722 CGCA
         66 CACA

                     *             **                               *        
       3726 CTCTCTTTCGTATTTGTATATCTGTAATTGTCCCAAGCTCCAATCCATGCCGCCAAGCATGCTCC
          1 CTCTCTTTCTTATTTGTATATCTACAATTGTCCCAAGCTCCAATCCATGCCGCCAAACATGCTCC

             * *
       3791 CTCC
         66 CACA

                      
       3795 CTCTCTTTCT
          1 CTCTCTTTCT

       3805 CGTTTGTGCA


Statistics
Matches: 128,  Mismatches: 20, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  69  128  1.00

ACGTcount: A:0.21, C:0.35, G:0.10, T:0.35


Consensus pattern (69 bp):   
CTCTCTTTCTTATTTGTATATCTACAATTGTCCCAAGCTCCAATCCATGCCGCCAAACATGCTCC
CACA

Done.