Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold459

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: 425620
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35


File 4 of 4

Found at i:424894 original size:13 final size:13

Alignment explanation


    Indices: 424876--424900  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

     424866 ATCAGGACCA

                         
     424876 ATTTTTTTTTTTT
          1 ATTTTTTTTTTTT

                        
     424889 ATTTTTTTTTTT
          1 ATTTTTTTTTTT

     424901 ATATACGCGC


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92


Consensus pattern (13 bp):   
ATTTTTTTTTTTT

Found at i:424895 original size:12 final size:12

Alignment explanation


    Indices: 424878--424902  Score: 50
    Period size: 12  Copynumber: 2.1  Consensus size: 12

     424868 CAGGACCAAT

                        
     424878 TTTTTTTTTTTA
          1 TTTTTTTTTTTA

                        
     424890 TTTTTTTTTTTA
          1 TTTTTTTTTTTA

             
     424902 T
          1 T

     424903 ATACGCGCTG


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   13  1.00

ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92


Consensus pattern (12 bp):   
TTTTTTTTTTTA

Found at i:425029 original size:27 final size:27

Alignment explanation


    Indices: 424987--425038  Score: 95
    Period size: 27  Copynumber: 1.9  Consensus size: 27

     424977 ACTTAAAACA

                       *               
     424987 TCTGCTTCTAGTAGGGGAGCCCATACC
          1 TCTGCTTCTAGCAGGGGAGCCCATACC

                                     
     425014 TCTGCTTCTAGCAGGGGAGCCCATA
          1 TCTGCTTCTAGCAGGGGAGCCCATA

     425039 AAGTCTTGAC


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  27   24  1.00

ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25


Consensus pattern (27 bp):   
TCTGCTTCTAGCAGGGGAGCCCATACC

Done.