Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold342

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: 6701
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32


Found at i:191 original size:42 final size:43

Alignment explanation


    Indices: 125--209  Score: 136
    Period size: 42  Copynumber: 2.0  Consensus size: 43

        115 GGAGACGAGA

                   *     *                             
        125 TCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGTTAAGG
          1 TCTGTAAATTTCAACCTATTACCCTACTGCTTAGGGGTTAAGG

                             *                         
        168 TCTGTAAATTT-AACCTGTTACCCTACTGCTTAGGGGTTAAGG
          1 TCTGTAAATTTCAACCTATTACCCTACTGCTTAGGGGTTAAGG

        210 CTTGGTGAAT


Statistics
Matches: 39,  Mismatches: 3, Indels: 1
        0.91            0.07        0.02

Matches are distributed among these distances:
  42   29  0.74
  43   10  0.26

ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36


Consensus pattern (43 bp):   
TCTGTAAATTTCAACCTATTACCCTACTGCTTAGGGGTTAAGG
Done.