Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_31415

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: 1932
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26


Found at i:759 original size:6 final size:6

Alignment explanation


    Indices: 751--803  Score: 79
    Period size: 6  Copynumber: 8.8  Consensus size: 6

        741 CGATGGGTCC

                 *      *      *                                   
        751 GGTTCC GGTTCG GGTTCC GGTTCT GGTTCT GGTTCT GGTTCT GGTTCT
          1 GGTTCT GGTTCT GGTTCT GGTTCT GGTTCT GGTTCT GGTTCT GGTTCT

                 
        799 GGTTC
          1 GGTTC

        804 CGCTATCCTG


Statistics
Matches: 44,  Mismatches: 3, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   6   44  1.00

ACGTcount: A:0.00, C:0.21, G:0.36, T:0.43


Consensus pattern (6 bp):   
GGTTCT

Found at i:769 original size:18 final size:18

Alignment explanation


    Indices: 748--805  Score: 89
    Period size: 18  Copynumber: 3.2  Consensus size: 18

        738 CAACGATGGG

                    *     *   
        748 TCCGGTTCCGGTTCGGGT
          1 TCCGGTTCTGGTTCTGGT

                              
        766 TCCGGTTCTGGTTCTGGT
          1 TCCGGTTCTGGTTCTGGT

              *               
        784 TCTGGTTCTGGTTCTGGT
          1 TCCGGTTCTGGTTCTGGT

                
        802 TCCG
          1 TCCG

        806 CTATCCTGGT


Statistics
Matches: 36,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  18   36  1.00

ACGTcount: A:0.00, C:0.24, G:0.34, T:0.41


Consensus pattern (18 bp):   
TCCGGTTCTGGTTCTGGT
Done.