Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold785

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: 6629
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35


Found at i:4669 original size:12 final size:12

Alignment explanation


    Indices: 4652--4677  Score: 52
    Period size: 12  Copynumber: 2.2  Consensus size: 12

       4642 AAAAAACACT

                        
       4652 TCAAATAATTGC
          1 TCAAATAATTGC

                        
       4664 TCAAATAATTGC
          1 TCAAATAATTGC

              
       4676 TC
          1 TC

       4678 GAGTTGATCA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   14  1.00

ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35


Consensus pattern (12 bp):   
TCAAATAATTGC

Found at i:5640 original size:22 final size:23

Alignment explanation


    Indices: 5605--5649  Score: 58
    Period size: 22  Copynumber: 2.0  Consensus size: 23

       5595 CCATCTAACT

                     *              
       5605 AAAATAAATTAATT-ATATTAAAA
          1 AAAATAAATAAATTGAT-TTAAAA

                                   
       5628 AAAATAAA-AAATTGATTTAAAA
          1 AAAATAAATAAATTGATTTAAAA

       5650 GGAAAGCGCG


Statistics
Matches: 20,  Mismatches: 1, Indels: 3
        0.83            0.04        0.12

Matches are distributed among these distances:
  22   10  0.50
  23   10  0.50

ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31


Consensus pattern (23 bp):   
AAAATAAATAAATTGATTTAAAA
Done.