Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g00549.F6

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: 3284
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29


Found at i:37 original size:21 final size:21

Alignment explanation


    Indices: 13--56  Score: 70
    Period size: 21  Copynumber: 2.1  Consensus size: 21

          3 CTAAAAGAAG

                         *       
         13 AAGAAAAAAAAAGGAAAAAAA
          1 AAGAAAAAAAAAGAAAAAAAA

                  *              
         34 AAGAAAGAAAAAGAAAAAAAA
          1 AAGAAAAAAAAAGAAAAAAAA

              
         55 AA
          1 AA

         57 CTTCTCTCTT


Statistics
Matches: 21,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  21   21  1.00

ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00


Consensus pattern (21 bp):   
AAGAAAAAAAAAGAAAAAAAA

Found at i:55 original size:10 final size:10

Alignment explanation


    Indices: 13--55  Score: 68
    Period size: 10  Copynumber: 4.2  Consensus size: 10

          3 CTAAAAGAAG

                      
         13 AAGAAAAAAA
          1 AAGAAAAAAA

                       
         23 AAGGAAAAAAA
          1 AA-GAAAAAAA

                  *   
         34 AAGAAAGAAA
          1 AAGAAAAAAA

                      
         44 AAGAAAAAAA
          1 AAGAAAAAAA

              
         54 AA
          1 AA

         56 ACTTCTCTCT


Statistics
Matches: 30,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
  10   20  0.67
  11   10  0.33

ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00


Consensus pattern (10 bp):   
AAGAAAAAAA
Done.