Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g01281.F4

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: 4225
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30


Found at i:24 original size:1 final size:1

Alignment explanation


    Indices: 18--53  Score: 54
    Period size: 1  Copynumber: 36.0  Consensus size: 1

          8 TCTGAAACTT

                                   **           
         18 AAAAAAAAAAAAAAAAAAAAAAAGGAAAAAAAAAAA
          1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

         54 CGAAATGCTG


Statistics
Matches: 33,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   1   33  1.00

ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00


Consensus pattern (1 bp):   
A

Found at i:58 original size:13 final size:12

Alignment explanation


    Indices: 18--58  Score: 55
    Period size: 13  Copynumber: 3.2  Consensus size: 12

          8 TCTGAAACTT

                       *
         18 AAAAAAAAAAAA
          1 AAAAAAAAAAAG

                         
         30 AAAAAAAAAAAGG
          1 AAAAAAAAAAA-G

                         
         43 AAAAAAAAAAACG
          1 AAAAAAAAAAA-G

               
         56 AAA
          1 AAA

         59 TGCTGGCAAA


Statistics
Matches: 26,  Mismatches: 2, Indels: 1
        0.90            0.07        0.03

Matches are distributed among these distances:
  12   11  0.42
  13   15  0.58

ACGTcount: A:0.90, C:0.02, G:0.07, T:0.00


Consensus pattern (12 bp):   
AAAAAAAAAAAG
Done.