Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006462.1 Corchorus olitorius cultivar O-4 contig06487, whole genome shotgun sequence

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: 4956
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32


Found at i:2933 original size:40 final size:40

Alignment explanation


    Indices: 2889--2989  Score: 123
    Period size: 40  Copynumber: 2.5  Consensus size: 40

       2879 ATGACGAGAA

                  *                           * *   
       2889 GGGAATATGAACAACACCTTCCGATGAGGAAGGGCAGACT
          1 GGGAATTTGAACAACACCTTCCGATGAGGAAGGGAAAACT

                                    *  *           * 
       2929 GGGAATTTTG-ACAACACCTTCCGGTGGGGAAGGGAAAAGT
          1 GGGAA-TTTGAACAACACCTTCCGATGAGGAAGGGAAAACT

                    *            
       2969 GGGAATTTAAACAACACCTTC
          1 GGGAATTTGAACAACACCTTC

       2990 TGATCGTGCT


Statistics
Matches: 52,  Mismatches: 7, Indels: 4
        0.83            0.11        0.06

Matches are distributed among these distances:
  39    3  0.06
  40   46  0.88
  41    3  0.06

ACGTcount: A:0.34, C:0.19, G:0.29, T:0.19


Consensus pattern (40 bp):   
GGGAATTTGAACAACACCTTCCGATGAGGAAGGGAAAACT
Done.