Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g00822.N1

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: 2761
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30


Found at i:53 original size:18 final size:19

Alignment explanation


    Indices: 13--68  Score: 60
    Period size: 19  Copynumber: 3.0  Consensus size: 19

          3 CCCGTAATAG

                       *  *   *
         13 ATTTTCCCCAATTCACTAT
          1 ATTTTCCCCAAATCCCTAA

                     *    *    
         32 A-TTTCCCCTAATCTCTAA
          1 ATTTTCCCCAAATCCCTAA

                               
         50 ATTTTCCCCAAATCCCTAA
          1 ATTTTCCCCAAATCCCTAA

         69 GCATCCGAAG


Statistics
Matches: 30,  Mismatches: 6, Indels: 2
        0.79            0.16        0.05

Matches are distributed among these distances:
  18   14  0.47
  19   16  0.53

ACGTcount: A:0.29, C:0.34, G:0.00, T:0.38


Consensus pattern (19 bp):   
ATTTTCCCCAAATCCCTAA

Found at i:2680 original size:15 final size:15

Alignment explanation


    Indices: 2632--2681  Score: 52
    Period size: 15  Copynumber: 3.5  Consensus size: 15

       2622 AACTTAGAGC

                       *   
       2632 GGAGGCAGCAGAGAG
          1 GGAGGCAGCAGCGAG

                     *     
       2647 GGAGGCAGCGGC-A-
          1 GGAGGCAGCAGCGAG

              *            
       2660 -GCGGCAGCAGCGAG
          1 GGAGGCAGCAGCGAG

                    
       2674 GGAGGCAG
          1 GGAGGCAG

       2682 AGCAGAGTAG


Statistics
Matches: 27,  Mismatches: 5, Indels: 6
        0.71            0.13        0.16

Matches are distributed among these distances:
  12    9  0.33
  13    1  0.04
  14    1  0.04
  15   16  0.59

ACGTcount: A:0.26, C:0.20, G:0.54, T:0.00


Consensus pattern (15 bp):   
GGAGGCAGCAGCGAG
Done.