Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g00620.F12

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: 3273
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26


Found at i:3212 original size:39 final size:40

Alignment explanation


    Indices: 3156--3237  Score: 123
    Period size: 40  Copynumber: 2.1  Consensus size: 40

       3146 TTTCAGCATG

                                 *                  
       3156 AGTTTGACTTGGAACCAGA-GTTGTATACTGAATAAATAA
          1 AGTTTGACTTGGAACCAGAGGATGTATACTGAATAAATAA

                                                   * 
       3195 AGTTTGACTT-GACACCAGAGGATGTATACTGAATAAATGA
          1 AGTTTGACTTGGA-ACCAGAGGATGTATACTGAATAAATAA

               
       3235 AGT
          1 AGT

       3238 GCTGTGGAAT


Statistics
Matches: 39,  Mismatches: 2, Indels: 3
        0.89            0.05        0.07

Matches are distributed among these distances:
  38    2  0.05
  39   16  0.41
  40   21  0.54

ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29


Consensus pattern (40 bp):   
AGTTTGACTTGGAACCAGAGGATGTATACTGAATAAATAA

Done.