Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold824

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: 45263
ACGTcount: A:0.05, C:0.03, G:0.03, T:0.06

Warning! 37806 characters in sequence are not A, C, G, or T


Found at i:676 original size:15 final size:15

Alignment explanation


    Indices: 656--710  Score: 69
    Period size: 15  Copynumber: 3.8  Consensus size: 15

        646 GCTCTCATCA

                     *     
        656 TTCTTTTCTTTCTTT
          1 TTCTTTTCTCTCTTT

                    *      
        671 TTCTTTTCACTCTTT
          1 TTCTTTTCTCTCTTT

              *            
        686 TTGTTTT-TCTCTTT
          1 TTCTTTTCTCTCTTT

                        
        700 TTCTTTT-TCTC
          1 TTCTTTTCTCTC

        711 GCTCAATAGA


Statistics
Matches: 35,  Mismatches: 5, Indels: 1
        0.85            0.12        0.02

Matches are distributed among these distances:
  14   16  0.46
  15   19  0.54

ACGTcount: A:0.02, C:0.22, G:0.02, T:0.75


Consensus pattern (15 bp):   
TTCTTTTCTCTCTTT

Found at i:39605 original size:3 final size:3

Alignment explanation


    Indices: 39597--39632  Score: 72
    Period size: 3  Copynumber: 12.0  Consensus size: 3

      39587 GAATTAAAAC

                                                           
      39597 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
          1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA

      39633 TGTGTTTTAT


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   33  1.00

ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33


Consensus pattern (3 bp):   
ATA

Done.