Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold798

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: 6370
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.23

Warning! 1664 characters in sequence are not A, C, G, or T


Found at i:5606 original size:23 final size:22

Alignment explanation


    Indices: 5562--5605  Score: 63
    Period size: 23  Copynumber: 2.0  Consensus size: 22

       5552 TTGTAGTTTC

                                   
       5562 AAAAAAAAATTTCGAAAAAAAAT
          1 AAAAAAAAA-TTCGAAAAAAAAT

                                  
       5585 AAAAAAAAA-TCGAAAAGAAAA
          1 AAAAAAAAATTCGAAAA-AAAA

       5606 AAATTGAAAA


Statistics
Matches: 20,  Mismatches: 0, Indels: 3
        0.87            0.00        0.13

Matches are distributed among these distances:
  21    7  0.35
  22    4  0.20
  23    9  0.45

ACGTcount: A:0.77, C:0.05, G:0.07, T:0.11


Consensus pattern (22 bp):   
AAAAAAAAATTCGAAAAAAAAT

Found at i:5607 original size:15 final size:14

Alignment explanation


    Indices: 5585--5619  Score: 52
    Period size: 15  Copynumber: 2.4  Consensus size: 14

       5575 GAAAAAAAAT

                          
       5585 AAAAAAAAATCGAA
          1 AAAAAAAAATCGAA

                       *   
       5599 AAGAAAAAAATTGAA
          1 AA-AAAAAAATCGAA

                  
       5614 AAAAAA
          1 AAAAAA

       5620 TTGCATACGG


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  14    6  0.32
  15   13  0.68

ACGTcount: A:0.80, C:0.03, G:0.09, T:0.09


Consensus pattern (14 bp):   
AAAAAAAAATCGAA

Done.