Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000289.1 Corchorus capsularis cultivar CVL-1 contig00289, 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: 8655
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33


Found at i:353 original size:2 final size:2

Alignment explanation


    Indices: 346--379  Score: 52
    Period size: 2  Copynumber: 17.5  Consensus size: 2

        336 CAAACGCCGT

                        *                                       
        346 TA TA TA TA AA TA TA TA TA TA TA TA TA TA T- TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

        380 TCATATAAAA


Statistics
Matches: 29,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
   1    1  0.03
   2   28  0.97

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


Consensus pattern (2 bp):   
TA

Found at i:8606 original size:2 final size:2

Alignment explanation


    Indices: 8599--8655  Score: 114
    Period size: 2  Copynumber: 28.5  Consensus size: 2

       8589 AATAATTTTT

                                                                          
       8599 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
          1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG

                                  
       8641 AG AG AG AG AG AG AG A
          1 AG AG AG AG AG AG AG A


Statistics
Matches: 55,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   55  1.00

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


Consensus pattern (2 bp):   
AG

Done.