Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_19009

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: 1793
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24


Found at i:246 original size:6 final size:6

Alignment explanation


    Indices: 235--269  Score: 52
    Period size: 6  Copynumber: 5.8  Consensus size: 6

        225 TGATCGCCAC

                            *     *                 
        235 AGGGAT AGGGAT AGAGAT AAGGAT AGGGAT AGGGA
          1 AGGGAT AGGGAT AGGGAT AGGGAT AGGGAT AGGGA

        270 CCGAGAAAAG


Statistics
Matches: 25,  Mismatches: 4, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
   6   25  1.00

ACGTcount: A:0.40, C:0.00, G:0.46, T:0.14


Consensus pattern (6 bp):   
AGGGAT

Found at i:275 original size:24 final size:24

Alignment explanation


    Indices: 235--282  Score: 69
    Period size: 24  Copynumber: 2.0  Consensus size: 24

        225 TGATCGCCAC

                       *     *      
        235 AGGGATAGGGATAGAGATAAGGAT
          1 AGGGATAGGGACAGAGAAAAGGAT

                        *           
        259 AGGGATAGGGACCGAGAAAAGGAT
          1 AGGGATAGGGACAGAGAAAAGGAT

        283 CGTGATCGTG


Statistics
Matches: 21,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  24   21  1.00

ACGTcount: A:0.42, C:0.04, G:0.42, T:0.12


Consensus pattern (24 bp):   
AGGGATAGGGACAGAGAAAAGGAT
Done.