Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019562.1 Corchorus olitorius cultivar O-4 contig19595, 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: 15263
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30


Found at i:7628 original size:25 final size:25

Alignment explanation


    Indices: 7591--7639  Score: 80
    Period size: 25  Copynumber: 2.0  Consensus size: 25

       7581 CCAACCAATC

                    *                
       7591 TTGAGCACTCTCGCTCGATCTCTAT
          1 TTGAGCACCCTCGCTCGATCTCTAT

                             *      
       7616 TTGAGCACCCTCGCTCGGTCTCTA
          1 TTGAGCACCCTCGCTCGATCTCTA

       7640 CAAACCAATC


Statistics
Matches: 22,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  25   22  1.00

ACGTcount: A:0.14, C:0.35, G:0.18, T:0.33


Consensus pattern (25 bp):   
TTGAGCACCCTCGCTCGATCTCTAT

Found at i:13782 original size:18 final size:19

Alignment explanation


    Indices: 13746--13784  Score: 53
    Period size: 19  Copynumber: 2.1  Consensus size: 19

      13736 ATAAATAAGC

                               
      13746 ATGGAAACCACAAAAAAAA
          1 ATGGAAACCACAAAAAAAA

                      *         
      13765 ATGG-AACCAGAAACAAAAA
          1 ATGGAAACCACAAA-AAAAA

             
      13784 A
          1 A

      13785 GATAAAGAAA


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  18    8  0.44
  19   10  0.56

ACGTcount: A:0.67, C:0.15, G:0.13, T:0.05


Consensus pattern (19 bp):   
ATGGAAACCACAAAAAAAA
Done.