Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_27974

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, 702

Length: 1171
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.23


Found at i:104 original size:27 final size:27

Alignment explanation


    Indices: 46--124  Score: 79
    Period size: 27  Copynumber: 2.9  Consensus size: 27

         36 ACCAGCCGCT

                 *     *     *         
         46 TCTTCCTCTGAAGAAGATGAAGAGGTG
          1 TCTTCATCTGAGGAAGAAGAAGAGGTG

            *    *                      
         73 ACTTCTTCTGAGGAAGAAGAAGAAGG-G
          1 TCTTCATCTGAGGAAGAAGAAG-AGGTG

                  *             *    
        100 TCTTCAACTGAGGAAGAAGATGAGG
          1 TCTTCATCTGAGGAAGAAGAAGAGG

        125 AAGACCCAAA


Statistics
Matches: 43,  Mismatches: 8, Indels: 3
        0.80            0.15        0.06

Matches are distributed among these distances:
  26    3  0.07
  27   37  0.86
  28    3  0.07

ACGTcount: A:0.34, C:0.13, G:0.32, T:0.22


Consensus pattern (27 bp):   
TCTTCATCTGAGGAAGAAGAAGAGGTG
Done.