Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015059.1 Corchorus capsularis cultivar CVL-1 contig15080, 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: 21942
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32


Found at i:7 original size:2 final size:2

Alignment explanation


    Indices: 1--39  Score: 78
    Period size: 2  Copynumber: 19.5  Consensus size: 2

                                                                      
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

         40 CTGTGAACAA


Statistics
Matches: 37,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   37  1.00

ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49


Consensus pattern (2 bp):   
AT

Found at i:900 original size:2 final size:2

Alignment explanation


    Indices: 893--918  Score: 52
    Period size: 2  Copynumber: 13.0  Consensus size: 2

        883 AAGATGTCAC

                                                  
        893 AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT

        919 CTGTAGATGA


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   24  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Found at i:5201 original size:6 final size:6

Alignment explanation


    Indices: 5190--5215  Score: 52
    Period size: 6  Copynumber: 4.3  Consensus size: 6

       5180 AATTATAAGA

                                          
       5190 TAATAC TAATAC TAATAC TAATAC TA
          1 TAATAC TAATAC TAATAC TAATAC TA

       5216 TAGAATTAGT


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   20  1.00

ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35


Consensus pattern (6 bp):   
TAATAC

Done.