Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022115.1 Corchorus olitorius cultivar O-4 contig22148, 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: 13001
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35


Found at i:5446 original size:30 final size:29

Alignment explanation


    Indices: 5407--5463  Score: 89
    Period size: 30  Copynumber: 1.9  Consensus size: 29

       5397 GTTTATTAAT

                                           
       5407 GAAACTTGAAAATTAAAGACATAAGATAAAG
          1 GAAACTTGAAAATTAAAG-CATAA-ATAAAG

                                       
       5438 GAAA-TTGAAAATTAAAGCATAAATAA
          1 GAAACTTGAAAATTAAAGCATAAATAA

       5464 CTAATCATAA


Statistics
Matches: 26,  Mismatches: 0, Indels: 3
        0.90            0.00        0.10

Matches are distributed among these distances:
  28    4  0.15
  29    5  0.19
  30   13  0.50
  31    4  0.15

ACGTcount: A:0.60, C:0.05, G:0.14, T:0.21


Consensus pattern (29 bp):   
GAAACTTGAAAATTAAAGCATAAATAAAG

Found at i:10039 original size:15 final size:16

Alignment explanation


    Indices: 10007--10045  Score: 62
    Period size: 15  Copynumber: 2.5  Consensus size: 16

       9997 TTGTTTGTTC

                            
      10007 TGTTTTCTAGTATAAT
          1 TGTTTTCTAGTATAAT

                       *    
      10023 TGTTTTCT-GTTTAAT
          1 TGTTTTCTAGTATAAT

                    
      10038 TGTTTTCT
          1 TGTTTTCT

      10046 TTCAACCTCT


Statistics
Matches: 22,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  15   14  0.64
  16    8  0.36

ACGTcount: A:0.15, C:0.08, G:0.13, T:0.64


Consensus pattern (16 bp):   
TGTTTTCTAGTATAAT
Done.