Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold1287

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: 2127
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35


Found at i:418 original size:26 final size:26

Alignment explanation


    Indices: 369--420  Score: 77
    Period size: 26  Copynumber: 2.0  Consensus size: 26

        359 AAAATTAGTG

                   *           *      
        369 CTAATTAGACTGAAATATAGAATGTT
          1 CTAATTAAACTGAAATATACAATGTT

                              *       
        395 CTAATTAAACTGAAATATTCAATGTT
          1 CTAATTAAACTGAAATATACAATGTT

        421 TTCTTTTATT


Statistics
Matches: 23,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  26   23  1.00

ACGTcount: A:0.42, C:0.10, G:0.12, T:0.37


Consensus pattern (26 bp):   
CTAATTAAACTGAAATATACAATGTT

Found at i:1844 original size:24 final size:25

Alignment explanation


    Indices: 1800--1846  Score: 69
    Period size: 24  Copynumber: 1.9  Consensus size: 25

       1790 ATTTTCCAAG

                     *               
       1800 TTCCATTACTTATCCCACTAAAAGC
          1 TTCCATTACATATCCCACTAAAAGC

                         *         
       1825 TTCCATT-CATATTCCACTAAAA
          1 TTCCATTACATATCCCACTAAAA

       1847 CTGGGTCGGA


Statistics
Matches: 20,  Mismatches: 2, Indels: 1
        0.87            0.09        0.04

Matches are distributed among these distances:
  24   13  0.65
  25    7  0.35

ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34


Consensus pattern (25 bp):   
TTCCATTACATATCCCACTAAAAGC
Done.