Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018006.1 Corchorus olitorius cultivar O-4 contig18039, 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: 5602
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33


Found at i:631 original size:21 final size:21

Alignment explanation


    Indices: 606--666  Score: 104
    Period size: 21  Copynumber: 2.9  Consensus size: 21

        596 CCGGGCCATG

                                 
        606 GCCTCGGCATGGCTGGTGCCT
          1 GCCTCGGCATGGCTGGTGCCT

                                 
        627 GCCTCGGCATGGCTGGTGCCT
          1 GCCTCGGCATGGCTGGTGCCT

                 *             
        648 GCCTCAGCATGGCTAGGTG
          1 GCCTCGGCATGGCT-GGTG

        667 TGATTGCCGA


Statistics
Matches: 38,  Mismatches: 1, Indels: 1
        0.95            0.03        0.03

Matches are distributed among these distances:
  21   34  0.89
  22    4  0.11

ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23


Consensus pattern (21 bp):   
GCCTCGGCATGGCTGGTGCCT

Found at i:752 original size:22 final size:23

Alignment explanation


    Indices: 727--774  Score: 55
    Period size: 22  Copynumber: 2.2  Consensus size: 23

        717 CGGCCTGGCG

                                   
        727 CGGGGC-ATGGCCGAGTCATGAC
          1 CGGGGCTATGGCCGAGTCATGAC

                   *     *       * 
        749 C-GGGCTGTGGCCTAGTCATGTC
          1 CGGGGCTATGGCCGAGTCATGAC

                
        771 CGGG
          1 CGGG

        775 TGCCACCGAG


Statistics
Matches: 21,  Mismatches: 3, Indels: 3
        0.78            0.11        0.11

Matches are distributed among these distances:
  21    4  0.19
  22   15  0.71
  23    2  0.10

ACGTcount: A:0.12, C:0.27, G:0.42, T:0.19


Consensus pattern (23 bp):   
CGGGGCTATGGCCGAGTCATGAC
Done.