Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007627.1 Corchorus olitorius cultivar O-4 contig07653, 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, 601

Length: 1003
ACGTcount: A:0.26, C:0.34, G:0.21, T:0.19


Found at i:605 original size:21 final size:21

Alignment explanation


    Indices: 581--651  Score: 65
    Period size: 21  Copynumber: 3.4  Consensus size: 21

        571 CGCGCCACAA

                           *     
        581 CCGGCCATCCGCGCCGCCTGC
          1 CCGGCCATCCGCGCCTCCTGC

                 * *   *          
        602 CCGGCTAGCCGTGCCTTCCT--
          1 CCGGCCATCCGCGCC-TCCTGC

                              *   
        622 CCGCGCCATCCGCGCCTCATGC
          1 CCG-GCCATCCGCGCCTCCTGC

                    
        644 CCGGCCAT
          1 CCGGCCAT

        652 GCCCGCCATC


Statistics
Matches: 38,  Mismatches: 8, Indels: 8
        0.70            0.15        0.15

Matches are distributed among these distances:
  20    6  0.16
  21   26  0.68
  22    6  0.16

ACGTcount: A:0.07, C:0.52, G:0.25, T:0.15


Consensus pattern (21 bp):   
CCGGCCATCCGCGCCTCCTGC

Found at i:873 original size:21 final size:21

Alignment explanation


    Indices: 847--895  Score: 62
    Period size: 21  Copynumber: 2.3  Consensus size: 21

        837 CCGATTGCCA

                     **          
        847 CACCACCGGTTAAGCCCGTGC
          1 CACCACCGGCCAAGCCCGTGC

                        *        
        868 CACCACCGGCCATGCCCGTGC
          1 CACCACCGGCCAAGCCCGTGC

              *    
        889 CATCACC
          1 CACCACC

        896 ATTCCAAGCC


Statistics
Matches: 24,  Mismatches: 4, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  21   24  1.00

ACGTcount: A:0.18, C:0.49, G:0.20, T:0.12


Consensus pattern (21 bp):   
CACCACCGGCCAAGCCCGTGC
Done.