Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_13382

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: 1863
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25


Found at i:1648 original size:24 final size:24

Alignment explanation


    Indices: 1621--1667  Score: 58
    Period size: 24  Copynumber: 2.0  Consensus size: 24

       1611 CTCTAGAGAT

                    *   * *         
       1621 CGTGACCGTGATCGTGATAGGGAG
          1 CGTGACCGAGATAGGGATAGGGAG

                 *                 
       1645 CGTGATCGAGATAGGGATAGGGA
          1 CGTGACCGAGATAGGGATAGGGA

       1668 TCGATATAGG


Statistics
Matches: 19,  Mismatches: 4, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  24   19  1.00

ACGTcount: A:0.26, C:0.13, G:0.43, T:0.19


Consensus pattern (24 bp):   
CGTGACCGAGATAGGGATAGGGAG

Found at i:1650 original size:18 final size:18

Alignment explanation


    Indices: 1627--1661  Score: 61
    Period size: 18  Copynumber: 1.9  Consensus size: 18

       1617 AGATCGTGAC

                    *         
       1627 CGTGATCGTGATAGGGAG
          1 CGTGATCGAGATAGGGAG

                             
       1645 CGTGATCGAGATAGGGA
          1 CGTGATCGAGATAGGGA

       1662 TAGGGATCGA


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  18   16  1.00

ACGTcount: A:0.26, C:0.11, G:0.43, T:0.20


Consensus pattern (18 bp):   
CGTGATCGAGATAGGGAG
Done.