Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002297.1 Corchorus olitorius cultivar O-4 contig02297, 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: 3391
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33


Found at i:812 original size:18 final size:19

Alignment explanation


    Indices: 771--813  Score: 63
    Period size: 18  Copynumber: 2.4  Consensus size: 19

        761 CAACTTGTCA

                  *            
        771 AGAGGCGTAGAATTATTTC
          1 AGAGGCATAGAATTATTTC

                               
        790 A-AGGCATAGAATTATTT-
          1 AGAGGCATAGAATTATTTC

                   
        807 AGAGGCA
          1 AGAGGCA

        814 ACTTGTTAAA


Statistics
Matches: 22,  Mismatches: 1, Indels: 3
        0.85            0.04        0.12

Matches are distributed among these distances:
  17    1  0.05
  18   20  0.91
  19    1  0.05

ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28


Consensus pattern (19 bp):   
AGAGGCATAGAATTATTTC

Found at i:3332 original size:2 final size:2

Alignment explanation


    Indices: 3327--3389  Score: 90
    Period size: 2  Copynumber: 31.5  Consensus size: 2

       3317 ATATATATGT

                            * *  *               *                        
       3327 AG AG AG AG AG AT TG TG AG AG AG AG AA 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

                                           
       3369 AG AG AG AG AG AG AG AG AG AG A
          1 AG AG AG AG AG AG AG AG AG AG A

       3390 TG


Statistics
Matches: 55,  Mismatches: 6, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
   2   55  1.00

ACGTcount: A:0.49, C:0.00, G:0.46, T:0.05


Consensus pattern (2 bp):   
AG

Done.