Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold1936

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: 12525
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33


Found at i:7899 original size:19 final size:20

Alignment explanation


    Indices: 7855--7908  Score: 65
    Period size: 19  Copynumber: 2.8  Consensus size: 20

       7845 CTGCCAGTTT

                           *  **
       7855 CATGTATCGATACATTTGTT
          1 CATGTATCGATACATATGAA

                                
       7875 CATGTATCGATACA-ATGAA
          1 CATGTATCGATACATATGAA

                   *       
       7894 CATGTATTGATACAT
          1 CATGTATCGATACAT

       7909 TATATCGATA


Statistics
Matches: 29,  Mismatches: 4, Indels: 2
        0.83            0.11        0.06

Matches are distributed among these distances:
  19   15  0.52
  20   14  0.48

ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37


Consensus pattern (20 bp):   
CATGTATCGATACATATGAA

Found at i:7920 original size:32 final size:33

Alignment explanation


    Indices: 7879--7941  Score: 94
    Period size: 33  Copynumber: 1.9  Consensus size: 33

       7869 TTTGTTCATG

                       *                      
       7879 TATCGATACAATG-A-ACATGTATTGATACATTA
          1 TATCGATACAAAGCATA-ATGTATTGATACATTA

                                           
       7911 TATCGATACAAAGCATAATGTATTGATACAT
          1 TATCGATACAAAGCATAATGTATTGATACAT

       7942 CTGAAAGTAT


Statistics
Matches: 28,  Mismatches: 1, Indels: 3
        0.88            0.03        0.09

Matches are distributed among these distances:
  32   12  0.43
  33   15  0.54
  34    1  0.04

ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33


Consensus pattern (33 bp):   
TATCGATACAAAGCATAATGTATTGATACATTA

Done.