Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold1233

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: 4632
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32


Found at i:3065 original size:46 final size:46

Alignment explanation


    Indices: 2901--3078  Score: 173
    Period size: 46  Copynumber: 3.8  Consensus size: 46

       2891 ATGTAACCGC

                                           *    ***  *    
       2901 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
          1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATATTTGCAT

                *  *            *        *              *  *   
       2947 CCATGAGTGAACTCGCGACTGAACTCAACAAGTTCGGATGCCTAGTTACAT
          1 CCATAAGCGAACTCG-GACTCAACTCAACGAGTTCGGA----TATTTGCAT

                *                                         
       2998 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATATTTGCAT
          1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATATTTGCAT

                   *                              
       3041 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
          1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAT

       3079 GCTAACATCC


Statistics
Matches: 105,  Mismatches: 19, Indels: 16
        0.75            0.14        0.11

Matches are distributed among these distances:
  43    7  0.07
  44    1  0.01
  45    2  0.02
  46   43  0.41
  47   38  0.36
  48    7  0.07
  49    2  0.02
  50    1  0.01
  51    4  0.04

ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22


Consensus pattern (46 bp):   
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATATTTGCAT

Done.