Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_34632

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: 2622
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24


Found at i:1797 original size:45 final size:45

Alignment explanation


    Indices: 1748--1916  Score: 157
    Period size: 45  Copynumber: 3.8  Consensus size: 45

       1738 AACAATATTA

                           *                  *          
       1748 ATCTTACATCTGAAACTGATACTATTTTGGAAGAGAAGAGGATTG
          1 ATCTTACATCTGAAAATGATACTATTTTGGAAGAAAAGAGGATTG

                 *       ** *        *                *    
       1793 ATCTTGCATCCATTCACA--ATACTCTTTTGGAAGAAAAGAGAATTG
          1 ATCTTACAT-C-TGAAAATGATACTATTTTGGAAGAAAAGAGGATTG

                       *          * *                     
       1838 ATCTTACATC-AAATAATGATATTCTTTTGGAAGAAAAGAGGATTG
          1 ATCTTACATCTGAA-AATGATACTATTTTGGAAGAAAAGAGGATTG

               * *                             
       1883 ATCCTGCATCTGAAAATGATACTAATTTT-GAAGA
          1 ATCTTACATCTGAAAATGATACT-ATTTTGGAAGA

       1917 GTATGGCTCT


Statistics
Matches: 98,  Mismatches: 19, Indels: 14
        0.75            0.15        0.11

Matches are distributed among these distances:
  42    1  0.01
  43    1  0.01
  44    1  0.01
  45   86  0.88
  46    7  0.07
  47    2  0.02

ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32


Consensus pattern (45 bp):   
ATCTTACATCTGAAAATGATACTATTTTGGAAGAAAAGAGGATTG
Done.