Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020164.1 Corchorus olitorius cultivar O-4 contig20197, 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: 13248
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31


Found at i:11502 original size:19 final size:18

Alignment explanation


    Indices: 11482--11529  Score: 51
    Period size: 19  Copynumber: 2.6  Consensus size: 18

      11472 AATTAATTAT

                              
      11482 TTTAATATTAAAATTTTA
          1 TTTAATATTAAAATTTTA

                       * *     
      11500 TTTATATATTATATTTTTA
          1 TTTA-ATATTAAAATTTTA

                  *    
      11519 CTTTAAAATTA
          1 -TTTAATATTA

      11530 CTCCTAATTA


Statistics
Matches: 25,  Mismatches: 3, Indels: 3
        0.81            0.10        0.10

Matches are distributed among these distances:
  18    4  0.16
  19   17  0.68
  20    4  0.16

ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58


Consensus pattern (18 bp):   
TTTAATATTAAAATTTTA

Found at i:12867 original size:15 final size:16

Alignment explanation


    Indices: 12847--12886  Score: 64
    Period size: 15  Copynumber: 2.6  Consensus size: 16

      12837 AGAGGTTGAA

                            
      12847 AGAAAACAATTAAAC-
          1 AGAAAACAATTAAACT

                        *   
      12862 AGAAAACAATTATACT
          1 AGAAAACAATTAAACT

                     
      12878 AGAAAACAA
          1 AGAAAACAA

      12887 AACAAACAAA


Statistics
Matches: 23,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  15   14  0.61
  16    9  0.39

ACGTcount: A:0.65, C:0.12, G:0.07, T:0.15


Consensus pattern (16 bp):   
AGAAAACAATTAAACT

Done.