Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013156.1 Corchorus capsularis cultivar CVL-1 contig13177, 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: 9105
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31


Found at i:874 original size:21 final size:21

Alignment explanation


    Indices: 848--887  Score: 71
    Period size: 21  Copynumber: 1.9  Consensus size: 21

        838 ACCATGGACG

                                 
        848 AGACAGATACAGAAATGAAAA
          1 AGACAGATACAGAAATGAAAA

                    *          
        869 AGACAGATTCAGAAATGAA
          1 AGACAGATACAGAAATGAA

        888 GAAGTTCAAC


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  21   18  1.00

ACGTcount: A:0.57, C:0.10, G:0.20, T:0.12


Consensus pattern (21 bp):   
AGACAGATACAGAAATGAAAA

Found at i:4929 original size:19 final size:20

Alignment explanation


    Indices: 4891--4929  Score: 53
    Period size: 20  Copynumber: 2.0  Consensus size: 20

       4881 GCTTCGTCCC

                  *      *      
       4891 TTTGCTTCCAAATTTCAATT
          1 TTTGCTACCAAATCTCAATT

                                
       4911 TTTGCTACCAAA-CTCAATT
          1 TTTGCTACCAAATCTCAATT

       4930 CCAACTTCAA


Statistics
Matches: 17,  Mismatches: 2, Indels: 1
        0.85            0.10        0.05

Matches are distributed among these distances:
  19    6  0.35
  20   11  0.65

ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44


Consensus pattern (20 bp):   
TTTGCTACCAAATCTCAATT
Done.