Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold3330

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: 36703
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34


Found at i:28698 original size:31 final size:31

Alignment explanation


    Indices: 28663--28732  Score: 113
    Period size: 31  Copynumber: 2.3  Consensus size: 31

      28653 GATACAAAAT

                            *              
      28663 AGTTACTGAACTATTTGAAAGTTTTCATTTA
          1 AGTTACTGAACTATTTAAAAGTTTTCATTTA

                      *              *     
      28694 AGTTACTGAATTATTTAAAAGTTTTTATTTA
          1 AGTTACTGAACTATTTAAAAGTTTTCATTTA

                    
      28725 AGTTACTG
          1 AGTTACTG

      28733 GGTTGTTAAG


Statistics
Matches: 36,  Mismatches: 3, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  31   36  1.00

ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47


Consensus pattern (31 bp):   
AGTTACTGAACTATTTAAAAGTTTTCATTTA

Found at i:30375 original size:15 final size:16

Alignment explanation


    Indices: 30348--30378  Score: 55
    Period size: 15  Copynumber: 2.0  Consensus size: 16

      30338 AGAAATCGAC

                            
      30348 AGAAAATAAAGAAAAG
          1 AGAAAATAAAGAAAAG

                            
      30364 AGAAAA-AAAGAAAAG
          1 AGAAAATAAAGAAAAG

      30379 GAAGCGAGAT


Statistics
Matches: 15,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  15    9  0.60
  16    6  0.40

ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03


Consensus pattern (16 bp):   
AGAAAATAAAGAAAAG
Done.