Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g00061.F3

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: 3858
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25


Found at i:78 original size:18 final size:19

Alignment explanation


    Indices: 25--67  Score: 56
    Period size: 17  Copynumber: 2.4  Consensus size: 19

         15 GATGAATCAT

                         *     
         25 ATAGAAAGAG--ATAGAAA
          1 ATAGAAAGAGAAAAAGAAA

                               
         42 ATAGAAAGAGAAAAAGAAA
          1 ATAGAAAGAGAAAAAGAAA

                    
         61 A-AGAAAG
          1 ATAGAAAG

         68 GGGAAGAGAA


Statistics
Matches: 23,  Mismatches: 1, Indels: 3
        0.85            0.04        0.11

Matches are distributed among these distances:
  17   10  0.43
  18    6  0.26
  19    7  0.30

ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07


Consensus pattern (19 bp):   
ATAGAAAGAGAAAAAGAAA

Found at i:366 original size:3 final size:3

Alignment explanation


    Indices: 358--387  Score: 60
    Period size: 3  Copynumber: 10.0  Consensus size: 3

        348 AAGGAAGAGG

                                                   
        358 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
          1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA

        388 TGAGAGCTGG


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   27  1.00

ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00


Consensus pattern (3 bp):   
AGA

Done.