Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001096.1 Corchorus capsularis cultivar CVL-1 contig01096, 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: 3419
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30


Found at i:2651 original size:15 final size:16

Alignment explanation


    Indices: 2631--2687  Score: 80
    Period size: 16  Copynumber: 3.6  Consensus size: 16

       2621 CACCCAATAC

                            
       2631 AAATACTCACCTGGT-
          1 AAATACTCACCTGGTG

                      *     
       2646 AAATACTCACTTGGTG
          1 AAATACTCACCTGGTG

            *               
       2662 CAATACTCACCTGGTG
          1 AAATACTCACCTGGTG

             *        
       2678 AGATACTCAC
          1 AAATACTCAC

       2688 TTACAAAAAC


Statistics
Matches: 36,  Mismatches: 5, Indels: 1
        0.86            0.12        0.02

Matches are distributed among these distances:
  15   14  0.39
  16   22  0.61

ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26


Consensus pattern (16 bp):   
AAATACTCACCTGGTG

Found at i:3345 original size:2 final size:2

Alignment explanation


    Indices: 3338--3364  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

       3328 AAGAAATCAT

                                                    
       3338 TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA T

       3365 GAAAGGGCAA


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   25  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Done.