Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold1168

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: 2501
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36


Found at i:2354 original size:14 final size:13

Alignment explanation


    Indices: 2335--2369  Score: 61
    Period size: 14  Copynumber: 2.6  Consensus size: 13

       2325 ACTAGCTCTC

                          
       2335 TTTTTTTTTCACAA
          1 TTTTTTTTTCA-AA

                         
       2349 TTTTTTTTTCAAA
          1 TTTTTTTTTCAAA

                    
       2362 TTTTTTTT
          1 TTTTTTTT

       2370 CTTTTTTAAA


Statistics
Matches: 21,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  13   10  0.48
  14   11  0.52

ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74


Consensus pattern (13 bp):   
TTTTTTTTTCAAA

Found at i:2452 original size:13 final size:13

Alignment explanation


    Indices: 2434--2483  Score: 57
    Period size: 13  Copynumber: 3.9  Consensus size: 13

       2424 TGGGAACTAG

                         
       2434 TTTTTTTTTCGAA
          1 TTTTTTTTTCGAA

                    ***  
       2447 TTTTTTTTAAAAA
          1 TTTTTTTTTCGAA

                         
       2460 TTTTTTTTTC-AA
          1 TTTTTTTTTCGAA

            *           
       2472 GTTTTTTTTCGA
          1 TTTTTTTTTCGA

       2484 GAAACTACTA


Statistics
Matches: 30,  Mismatches: 6, Indels: 2
        0.79            0.16        0.05

Matches are distributed among these distances:
  12   11  0.37
  13   19  0.63

ACGTcount: A:0.20, C:0.06, G:0.06, T:0.68


Consensus pattern (13 bp):   
TTTTTTTTTCGAA
Done.