Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_37701

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, 979

Length: 1632
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31


Found at i:34 original size:15 final size:15

Alignment explanation


    Indices: 10--46  Score: 56
    Period size: 15  Copynumber: 2.5  Consensus size: 15

          1 ATGGCAGGA

                 *        *
         10 GGAGGGGGTGGTGGT
          1 GGAGGAGGTGGTGGC

                           
         25 GGAGGAGGTGGTGGC
          1 GGAGGAGGTGGTGGC

                   
         40 GGAGGAG
          1 GGAGGAG

         47 CTGCACCACC


Statistics
Matches: 20,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  15   20  1.00

ACGTcount: A:0.14, C:0.03, G:0.70, T:0.14


Consensus pattern (15 bp):   
GGAGGAGGTGGTGGC

Found at i:46 original size:18 final size:18

Alignment explanation


    Indices: 6--46  Score: 55
    Period size: 18  Copynumber: 2.3  Consensus size: 18

          1 ATGGC

                           *  
          6 AGGAGGAGGGGGTGGTGG
          1 AGGAGGAGGGGGTGGCGG

            *        *        
         24 TGGAGGAGGTGGTGGCGG
          1 AGGAGGAGGGGGTGGCGG

                 
         42 AGGAG
          1 AGGAG

         47 CTGCACCACC


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

Matches are distributed among these distances:
  18   19  1.00

ACGTcount: A:0.17, C:0.02, G:0.68, T:0.12


Consensus pattern (18 bp):   
AGGAGGAGGGGGTGGCGG
Done.