Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold2404

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: 15590
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36


Found at i:8443 original size:25 final size:24

Alignment explanation


    Indices: 8408--8456  Score: 62
    Period size: 25  Copynumber: 2.0  Consensus size: 24

       8398 GCTAATCAAT

                  *          *       
       8408 TTTTTATTTAAAATATATATTTTTA
          1 TTTTTAATTAAAATA-AAATTTTTA

                       *            
       8433 TTTTTAATTAATATAAAATTTTTA
          1 TTTTTAATTAAAATAAAATTTTTA

       8457 ATTCAAACTC


Statistics
Matches: 21,  Mismatches: 3, Indels: 1
        0.84            0.12        0.04

Matches are distributed among these distances:
  24    8  0.38
  25   13  0.62

ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61


Consensus pattern (24 bp):   
TTTTTAATTAAAATAAAATTTTTA

Found at i:12083 original size:29 final size:29

Alignment explanation


    Indices: 12041--12107  Score: 73
    Period size: 29  Copynumber: 2.3  Consensus size: 29

      12031 TCACATGACG

                *    *               *    
      12041 AAAACAATATTATTTTAATAATGT-GTTTT
          1 AAAATAATAGTATTTTAATAAT-TAATTTT

                            *  *         
      12070 AAAATAATAGTATTTTGATGATTAATTTT
          1 AAAATAATAGTATTTTAATAATTAATTTT

                     
      12099 AAAATAATA
          1 AAAATAATA

      12108 TTGGTTCATG


Statistics
Matches: 32,  Mismatches: 5, Indels: 2
        0.82            0.13        0.05

Matches are distributed among these distances:
  28    1  0.03
  29   31  0.97

ACGTcount: A:0.46, C:0.01, G:0.07, T:0.45


Consensus pattern (29 bp):   
AAAATAATAGTATTTTAATAATTAATTTT
Done.