Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold2074

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: 5993
ACGTcount: A:0.19, C:0.32, G:0.29, T:0.20


Found at i:797 original size:102 final size:102

Alignment explanation


    Indices: 628--814  Score: 315
    Period size: 102  Copynumber: 1.8  Consensus size: 102

        618 GGCCAGGTGC

                                       *          *                          
        628 ACGGTGCGCGCCCTGCCCGCCCCCTGGTGTGGGGGCGGTCGGGGCGCACACCATGCGGAGCACCG
          1 ACGGTGCGCGCCCTGCCCGCCCCCTGGGGTGGGGGCGGGCGGGGCGCACACCATGCGGAGCACCG

                                                 
        693 GTGCGCGCCTCGCCCACCCTCGGCTGCGGGCGGGAGA
         66 GTGCGCGCCTCGCCCACCCTCGGCTGCGGGCGGGAGA

                                                               *             
        730 ACGGTGCGCGCCCAT-CCCGCCCCCTGGGGTCGGGGGCGGGCGGGGCGCACGCCATGCGGAGCA-
          1 ACGGTGCGCGCCC-TGCCCGCCCCCTGGGGT-GGGGGCGGGCGGGGCGCACACCATGCGGAGCAC

                                  
        793 CGGTGCGCGCCTCGCCCACCCT
         64 CGGTGCGCGCCTCGCCCACCCT

        815 GGGGGGTGCG


Statistics
Matches: 80,  Mismatches: 3, Indels: 4
        0.92            0.03        0.05

Matches are distributed among these distances:
 102   49  0.61
 103   31  0.39

ACGTcount: A:0.09, C:0.41, G:0.41, T:0.10


Consensus pattern (102 bp):   
ACGGTGCGCGCCCTGCCCGCCCCCTGGGGTGGGGGCGGGCGGGGCGCACACCATGCGGAGCACCG
GTGCGCGCCTCGCCCACCCTCGGCTGCGGGCGGGAGA

Found at i:885 original size:64 final size:62

Alignment explanation


    Indices: 725--900  Score: 168
    Period size: 64  Copynumber: 2.8  Consensus size: 62

        715 GCTGCGGGCG

                *                                             **         *  
        725 GGAGAACGGTGCGCGCCCATCCCGCCCCCTGGGGT-CGGGGGCGG-GCGGGGCGCACGCCATGC
          1 GGAGCACGGTGCGCGCCC-TCCCGCCCCCTGGGGTGC-GGGGCGGCGCGGCACGCACGCCAGGC

                                     *                                       
        787 GGAGCACGGTGCGCG-CCTCGCC-CACCCTGGGGGGTGCGGGGCGGCCGCGGCACGCAC-CC-GG
          1 GGAGCACGGTGCGCGCCCTC-CCGCCCCCT--GGGGTGCGGGGCGG-CGCGGCACGCACGCCAGG

              
        848 CC
         62 -C

                                                                
        850 AGGAGCACGGTGCGCGCCCTTCCCGCCCCCTGGGGTG-GGGGCGGTCGCGGC
          1 -GGAGCACGGTGCGCGCCC-TCCCGCCCCCTGGGGTGCGGGGCGG-CGCGGC

        901 GCACACCGTG


Statistics
Matches: 96,  Mismatches: 7, Indels: 21
        0.77            0.06        0.17

Matches are distributed among these distances:
  60    7  0.07
  61    4  0.04
  62   27  0.28
  63   17  0.18
  64   30  0.31
  65    4  0.04
  66    7  0.07

ACGTcount: A:0.08, C:0.39, G:0.45, T:0.09


Consensus pattern (62 bp):   
GGAGCACGGTGCGCGCCCTCCCGCCCCCTGGGGTGCGGGGCGGCGCGGCACGCACGCCAGGC
Done.