Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003782.1 Corchorus capsularis cultivar CVL-1 contig03790, 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: 1749
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29


Found at i:910 original size:23 final size:23

Alignment explanation


    Indices: 876--928  Score: 70
    Period size: 23  Copynumber: 2.3  Consensus size: 23

        866 GCACTAGTGA

                   *      *       *
        876 CCGGCCATGCGACTTGGAGAAGT
          1 CCGGCCACGCGACTCGGAGAAGC

                                *  
        899 CCGGCCACGCGACTCGGAGATGC
          1 CCGGCCACGCGACTCGGAGAAGC

                   
        922 CCGGCCA
          1 CCGGCCA

        929 TCACCGGCCA


Statistics
Matches: 26,  Mismatches: 4, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  23   26  1.00

ACGTcount: A:0.19, C:0.36, G:0.34, T:0.11


Consensus pattern (23 bp):   
CCGGCCACGCGACTCGGAGAAGC

Found at i:959 original size:33 final size:33

Alignment explanation


    Indices: 899--971  Score: 87
    Period size: 33  Copynumber: 2.2  Consensus size: 33

        889 TTGGAGAAGT

                              *               
        899 CCGGCCACGCGACTCGGAGATGCCCGGCCATC-A
          1 CCGGCCACGCGACTCGGACATGCCCGGCCA-CAA

                     *             *          
        932 CCGGCCACGGGACAT-GGACATGTCCGGCCACAA
          1 CCGGCCACGCGAC-TCGGACATGCCCGGCCACAA

                   
        965 CCGGCCA
          1 CCGGCCA

        972 TCGCTAGGCG


Statistics
Matches: 35,  Mismatches: 3, Indels: 4
        0.83            0.07        0.10

Matches are distributed among these distances:
  32    1  0.03
  33   33  0.94
  34    1  0.03

ACGTcount: A:0.21, C:0.41, G:0.30, T:0.08


Consensus pattern (33 bp):   
CCGGCCACGCGACTCGGACATGCCCGGCCACAA
Done.