Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00053.P1

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: 2385
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34


Found at i:1672 original size:10 final size:9

Alignment explanation


    Indices: 1639--1683  Score: 54
    Period size: 9  Copynumber: 4.8  Consensus size: 9

       1629 CATGTTTTTC

                 *   
       1639 ATTTTGAAA
          1 ATTTTTAAA

                     *
       1648 ATTTTCTAAT
          1 ATTTT-TAAA

                     
       1658 ATTTTTAAA
          1 ATTTTTAAA

                     
       1667 ATTTTTAAA
          1 ATTTTTAAA

                    
       1676 ATTATTTA
          1 ATT-TTTA

       1684 TTGACGTGAT


Statistics
Matches: 31,  Mismatches: 3, Indels: 3
        0.84            0.08        0.08

Matches are distributed among these distances:
   9   20  0.65
  10   11  0.35

ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56


Consensus pattern (9 bp):   
ATTTTTAAA

Found at i:1683 original size:19 final size:19

Alignment explanation


    Indices: 1639--1683  Score: 56
    Period size: 19  Copynumber: 2.4  Consensus size: 19

       1629 CATGTTTTTC

                 *            *
       1639 ATTTTGAAAATTTTCTAAT
          1 ATTTTTAAAATTTTCTAAA

                               
       1658 ATTTTTAAAATTTT-TAAA
          1 ATTTTTAAAATTTTCTAAA

                    
       1676 ATTATTTA
          1 ATT-TTTA

       1684 TTGACGTGAT


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
  18    6  0.26
  19   17  0.74

ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56


Consensus pattern (19 bp):   
ATTTTTAAAATTTTCTAAA
Done.