Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_35587

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: 2141
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.25


Found at i:663 original size:6 final size:6

Alignment explanation


    Indices: 641--687  Score: 67
    Period size: 6  Copynumber: 7.8  Consensus size: 6

        631 GTGGGTGTTG

                 *    *          *                                
        641 CTGGTG CTGTTC CTGGTC TTGGTC CTGGTC CTGGTC CTGGTC CTGGT
          1 CTGGTC CTGGTC CTGGTC CTGGTC CTGGTC CTGGTC CTGGTC CTGGT

        688 GTTGGTGCAA


Statistics
Matches: 36,  Mismatches: 5, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
   6   36  1.00

ACGTcount: A:0.00, C:0.28, G:0.34, T:0.38


Consensus pattern (6 bp):   
CTGGTC

Found at i:1959 original size:18 final size:18

Alignment explanation


    Indices: 1918--1961  Score: 52
    Period size: 18  Copynumber: 2.4  Consensus size: 18

       1908 CGCAACCGTG

                      *      *
       1918 ATAGGGAACGTGATCGAG
          1 ATAGGGAACGGGATCGAC

             *     *          
       1936 ACAGGGATCGGGATCGAC
          1 ATAGGGAACGGGATCGAC

                    
       1954 ATAGGGAA
          1 ATAGGGAA

       1962 GACAAAGACA


Statistics
Matches: 20,  Mismatches: 6, Indels: 0
        0.77            0.23        0.00

Matches are distributed among these distances:
  18   20  1.00

ACGTcount: A:0.34, C:0.14, G:0.39, T:0.14


Consensus pattern (18 bp):   
ATAGGGAACGGGATCGAC
Done.