Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014067.1 Corchorus olitorius cultivar O-4 contig14100, 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: 6185
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33


Found at i:290 original size:39 final size:40

Alignment explanation


    Indices: 236--315  Score: 135
    Period size: 39  Copynumber: 2.0  Consensus size: 40

        226 TACCTAAGAC

                                            *       
        236 TTTAATTAATGTAAGTATTTCAGTTATTATA-CTATTACA
          1 TTTAATTAATGTAAGTATTTCAGTTATTATATATATTACA

                                *                   
        275 TTTAATTAATGTAAGTATTTTAGTTATTATATATATTACA
          1 TTTAATTAATGTAAGTATTTCAGTTATTATATATATTACA

             
        315 T
          1 T

        316 AGGAATAAAA


Statistics
Matches: 38,  Mismatches: 2, Indels: 1
        0.93            0.05        0.02

Matches are distributed among these distances:
  39   30  0.79
  40    8  0.21

ACGTcount: A:0.36, C:0.05, G:0.07, T:0.51


Consensus pattern (40 bp):   
TTTAATTAATGTAAGTATTTCAGTTATTATATATATTACA

Found at i:550 original size:6 final size:6

Alignment explanation


    Indices: 532--567  Score: 63
    Period size: 6  Copynumber: 5.8  Consensus size: 6

        522 GTTTAGACTT

                                                     
        532 ATATAG TATATAG ATATAG ATATAG ATATAG ATATA
          1 ATATAG -ATATAG ATATAG ATATAG ATATAG ATATA

        568 TATGAGAAAT


Statistics
Matches: 29,  Mismatches: 0, Indels: 1
        0.97            0.00        0.03

Matches are distributed among these distances:
   6   23  0.79
   7    6  0.21

ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36


Consensus pattern (6 bp):   
ATATAG

Done.