Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_20274

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: 4011
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.28


Found at i:2984 original size:42 final size:42

Alignment explanation


    Indices: 2905--3041  Score: 141
    Period size: 42  Copynumber: 3.3  Consensus size: 42

       2895 TTCCCCAGTG

                     *         *   *        *         
       2905 ACAAGCACAAGCAATGGTACCTTCGGTGGTACCTCTGCAAGT
          1 ACAAGCACAGGCAATGGTATCTTTGGTGGTACATCTGCAAGT

            *               *           *           * 
       2947 GCAAGCACAGGCAATGCTATCTTTGGTGTTACATCTGCAACT
          1 ACAAGCACAGGCAATGGTATCTTTGGTGGTACATCTGCAAGT

                    *    *    * *              *       
       2989 ACAAGCACGGGCACTGGTTTATTTGGTGGTACATCAGC-AGCT
          1 ACAAGCACAGGCAATGGTATCTTTGGTGGTACATCTGCAAG-T

                       
       3031 ACAAGCACAGG
          1 ACAAGCACAGG

       3042 TAGTAGTATT


Statistics
Matches: 76,  Mismatches: 18, Indels: 2
        0.79            0.19        0.02

Matches are distributed among these distances:
  41    1  0.01
  42   75  0.99

ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23


Consensus pattern (42 bp):   
ACAAGCACAGGCAATGGTATCTTTGGTGGTACATCTGCAAGT
Done.