Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001369.1 Corchorus olitorius cultivar O-4 contig01369, 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, 669

Length: 1115
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28


Found at i:564 original size:25 final size:24

Alignment explanation


    Indices: 534--588  Score: 69
    Period size: 25  Copynumber: 2.3  Consensus size: 24

        524 GCGCGGCCCA

                                      
        534 AGCGCTTAGCCCAGGCGCAC-GGGCC
          1 AGCGCTTAGCCCA-GCGC-CTGGGCC

                   *                
        559 AGCGCTTGGCCCAGCGCCTGGGCC
          1 AGCGCTTAGCCCAGCGCCTGGGCC

                   
        583 AG-GCTT
          1 AGCGCTT

        589 GGGCCCCAAG


Statistics
Matches: 28,  Mismatches: 1, Indels: 4
        0.85            0.03        0.12

Matches are distributed among these distances:
  23    5  0.18
  24   11  0.39
  25   12  0.43

ACGTcount: A:0.13, C:0.38, G:0.36, T:0.13


Consensus pattern (24 bp):   
AGCGCTTAGCCCAGCGCCTGGGCC

Found at i:593 original size:11 final size:12

Alignment explanation


    Indices: 554--593  Score: 55
    Period size: 12  Copynumber: 3.4  Consensus size: 12

        544 CCAGGCGCAC

                        
        554 GGGCCAGCGCTT
          1 GGGCCAGCGCTT

              *       * 
        566 GGCCCAGCGCCT
          1 GGGCCAGCGCTT

                        
        578 GGGCCAG-GCTT
          1 GGGCCAGCGCTT

                 
        589 GGGCC
          1 GGGCC

        594 CCAAGCCCAA


Statistics
Matches: 24,  Mismatches: 4, Indels: 1
        0.83            0.14        0.03

Matches are distributed among these distances:
  11    8  0.33
  12   16  0.67

ACGTcount: A:0.07, C:0.38, G:0.42, T:0.12


Consensus pattern (12 bp):   
GGGCCAGCGCTT
Done.