Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012862.1 Corchorus capsularis cultivar CVL-1 contig12883, 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: 27523
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34


Found at i:11962 original size:25 final size:26

Alignment explanation


    Indices: 11933--11982  Score: 93
    Period size: 26  Copynumber: 2.0  Consensus size: 26

      11923 GCCCCCTTTC

                                      
      11933 TGATGG-AATTTTAATTATTAATTTT
          1 TGATGGAAATTTTAATTATTAATTTT

                                     
      11958 TGATGGAAATTTTAATTATTAATTT
          1 TGATGGAAATTTTAATTATTAATTT

      11983 ACATACTAAG


Statistics
Matches: 24,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  25    6  0.25
  26   18  0.75

ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54


Consensus pattern (26 bp):   
TGATGGAAATTTTAATTATTAATTTT

Found at i:15769 original size:12 final size:12

Alignment explanation


    Indices: 15752--15776  Score: 50
    Period size: 12  Copynumber: 2.1  Consensus size: 12

      15742 AGATAATTTA

                        
      15752 ATTGCAAAAGCT
          1 ATTGCAAAAGCT

                        
      15764 ATTGCAAAAGCT
          1 ATTGCAAAAGCT

             
      15776 A
          1 A

      15777 AGGAAAAAAA


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   13  1.00

ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24


Consensus pattern (12 bp):   
ATTGCAAAAGCT

Found at i:27220 original size:28 final size:30

Alignment explanation


    Indices: 27179--27235  Score: 82
    Period size: 28  Copynumber: 2.0  Consensus size: 30

      27169 AAAGCGAACA

                  *                       
      27179 AATTAATGAAAAAGA-AAAGAAAA-AGAAG
          1 AATTAAGGAAAAAGAGAAAGAAAAGAGAAG

                     *                   
      27207 AATTAAGGAGAAAGAGAAAGAAAAGAGAA
          1 AATTAAGGAAAAAGAGAAAGAAAAGAGAA

      27236 AAAATGACTC


Statistics
Matches: 25,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  28   13  0.52
  29    8  0.32
  30    4  0.16

ACGTcount: A:0.68, C:0.00, G:0.23, T:0.09


Consensus pattern (30 bp):   
AATTAAGGAAAAAGAGAAAGAAAAGAGAAG
Done.