Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023801.1 Corchorus olitorius cultivar O-4 contig23834, 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: 4678
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32


Found at i:2816 original size:24 final size:24

Alignment explanation


    Indices: 2783--2836  Score: 99
    Period size: 24  Copynumber: 2.2  Consensus size: 24

       2773 AGGCGGCAGC

                 *                  
       2783 GGCCTTGTGCTTGGCGCGCGGGCT
          1 GGCCTGGTGCTTGGCGCGCGGGCT

                                    
       2807 GGCCTGGTGCTTGGCGCGCGGGCT
          1 GGCCTGGTGCTTGGCGCGCGGGCT

                  
       2831 GGCCTG
          1 GGCCTG

       2837 CTGATGCCGC


Statistics
Matches: 29,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  24   29  1.00

ACGTcount: A:0.00, C:0.30, G:0.48, T:0.22


Consensus pattern (24 bp):   
GGCCTGGTGCTTGGCGCGCGGGCT

Found at i:2847 original size:21 final size:24

Alignment explanation


    Indices: 2794--2854  Score: 74
    Period size: 24  Copynumber: 2.7  Consensus size: 24

       2784 GCCTTGTGCT

                               *   *
       2794 TGGCGCGCGGGCTGGCCTGGTGCT
          1 TGGCGCGCGGGCTGGCCTGCTGCA

                                    
       2818 TGGCGCGCGGGCTGGCCTGCTG-A
          1 TGGCGCGCGGGCTGGCCTGCTGCA

                     *      
       2841 T-GC-CGCGTGCTGGC
          1 TGGCGCGCGGGCTGGC

       2855 GCGCGGGCTG


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

Matches are distributed among these distances:
  21   10  0.29
  22    2  0.06
  23    1  0.03
  24   21  0.62

ACGTcount: A:0.02, C:0.31, G:0.48, T:0.20


Consensus pattern (24 bp):   
TGGCGCGCGGGCTGGCCTGCTGCA
Done.