Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold2485

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: 28837
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35


Found at i:1653 original size:31 final size:32

Alignment explanation


    Indices: 1618--1687  Score: 90
    Period size: 31  Copynumber: 2.2  Consensus size: 32

       1608 TTTTGTTTTA

                                             
       1618 TTTTTCTCATTT-TCCAATGAATGCAGTT-ATT
          1 TTTTTCT-ATTTGTCCAATGAATGCAGTTGATT

                   *     *                  
       1649 TTTTTCTTTTTGTTCAATGAATGCAGTTGATT
          1 TTTTTCTATTTGTCCAATGAATGCAGTTGATT

             *     
       1681 TCTTTCT
          1 TTTTTCT

       1688 TTGATCAGTG


Statistics
Matches: 34,  Mismatches: 3, Indels: 3
        0.85            0.08        0.08

Matches are distributed among these distances:
  30    3  0.09
  31   22  0.65
  32    9  0.26

ACGTcount: A:0.19, C:0.14, G:0.11, T:0.56


Consensus pattern (32 bp):   
TTTTTCTATTTGTCCAATGAATGCAGTTGATT

Found at i:12907 original size:14 final size:14

Alignment explanation


    Indices: 12881--12921  Score: 57
    Period size: 13  Copynumber: 2.9  Consensus size: 14

      12871 AAATTCTTTG

                           
      12881 TTTTTTCTGATTTTC
          1 TTTTTTCT-ATTTTC

                          
      12896 TTTTTTCTA-TTTC
          1 TTTTTTCTATTTTC

            *            
      12909 CTTTTTCTATTTT
          1 TTTTTTCTATTTT

      12922 GAGTGGGAAA


Statistics
Matches: 24,  Mismatches: 1, Indels: 3
        0.86            0.04        0.11

Matches are distributed among these distances:
  13   12  0.50
  14    4  0.17
  15    8  0.33

ACGTcount: A:0.07, C:0.15, G:0.02, T:0.76


Consensus pattern (14 bp):   
TTTTTTCTATTTTC

Done.