Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002250.1 Corchorus olitorius cultivar O-4 contig02250, 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: 4497
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33


Found at i:97 original size:30 final size:31

Alignment explanation


    Indices: 40--100  Score: 81
    Period size: 32  Copynumber: 2.0  Consensus size: 31

         30 TACAAGTAGT

                                  *         
         40 AGACTAGTAGTGTGTGTTCAGGGCAAAAAAAA
          1 AGACTAGTAGTGTGTG-TCAGGACAAAAAAAA

                                           
         72 AGACTAGTAGTGTGTG-C-GGTACAAAAAAA
          1 AGACTAGTAGTGTGTGTCAGG-ACAAAAAAA

        101 TAAAAAATAG


Statistics
Matches: 27,  Mismatches: 1, Indels: 4
        0.84            0.03        0.12

Matches are distributed among these distances:
  29    2  0.07
  30    9  0.33
  32   16  0.59

ACGTcount: A:0.41, C:0.10, G:0.28, T:0.21


Consensus pattern (31 bp):   
AGACTAGTAGTGTGTGTCAGGACAAAAAAAA

Found at i:470 original size:2 final size:2

Alignment explanation


    Indices: 465--495  Score: 62
    Period size: 2  Copynumber: 15.5  Consensus size: 2

        455 TCTCTCTCTC

                                                          
        465 TA TA 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 TA TA T

        496 TACCAACAAA


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   29  1.00

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


Consensus pattern (2 bp):   
TA

Done.