Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g01649.F9

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: 3188
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28


Found at i:2609 original size:6 final size:6

Alignment explanation


    Indices: 2598--2650  Score: 61
    Period size: 6  Copynumber: 8.8  Consensus size: 6

       2588 TGATGCAAGC

                                          *  *   *      *      *   
       2598 GGGAGT GGGAGT GGGAGT GGGAGT GGAAGC GGCAGT GGTAGT GGTAGT
          1 GGGAGT GGGAGT GGGAGT GGGAGT GGGAGT GGGAGT GGGAGT GGGAGT

                 
       2646 GGGAG
          1 GGGAG

       2651 CAAAGCAGAC


Statistics
Matches: 41,  Mismatches: 6, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
   6   41  1.00

ACGTcount: A:0.19, C:0.04, G:0.60, T:0.17


Consensus pattern (6 bp):   
GGGAGT

Found at i:2611 original size:30 final size:30

Alignment explanation


    Indices: 2577--2650  Score: 87
    Period size: 30  Copynumber: 2.5  Consensus size: 30

       2567 AGCTGGGAAA

                                    *      
       2577 AGTGGAAGTGGTGA-TGCAAGCGGGAGTGGG
          1 AGTGGAAGTGG-GAGTGCAAGCGGCAGTGGG

                 *          *            *
       2607 AGTGGGAGTGGGAGTGGAAGCGGCAGTGGT
          1 AGTGGAAGTGGGAGTGCAAGCGGCAGTGGG

                 *        
       2637 AGTGGTAGTGGGAG
          1 AGTGGAAGTGGGAG

       2651 CAAAGCAGAC


Statistics
Matches: 38,  Mismatches: 5, Indels: 2
        0.84            0.11        0.04

Matches are distributed among these distances:
  29    2  0.05
  30   36  0.95

ACGTcount: A:0.22, C:0.05, G:0.55, T:0.18


Consensus pattern (30 bp):   
AGTGGAAGTGGGAGTGCAAGCGGCAGTGGG

Done.