Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017803.1 Corchorus olitorius cultivar O-4 contig17836, 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: 15007
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33


Found at i:393 original size:31 final size:31

Alignment explanation


    Indices: 355--416  Score: 124
    Period size: 31  Copynumber: 2.0  Consensus size: 31

        345 GGAAGAAAGG

                                           
        355 AATTGGAAATTTAATTTTAAAAGAGAGAAGA
          1 AATTGGAAATTTAATTTTAAAAGAGAGAAGA

                                           
        386 AATTGGAAATTTAATTTTAAAAGAGAGAAGA
          1 AATTGGAAATTTAATTTTAAAAGAGAGAAGA

        417 TACTTGTTCC


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  31   31  1.00

ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29


Consensus pattern (31 bp):   
AATTGGAAATTTAATTTTAAAAGAGAGAAGA

Found at i:8035 original size:20 final size:20

Alignment explanation


    Indices: 8010--8056  Score: 76
    Period size: 20  Copynumber: 2.4  Consensus size: 20

       8000 AATTGACTTG

                             * *
       8010 GCGGGAACTTTTTTGGTTGT
          1 GCGGGAACTTTTTTGGTCGC

                                
       8030 GCGGGAACTTTTTTGGTCGC
          1 GCGGGAACTTTTTTGGTCGC

                   
       8050 GCGGGAA
          1 GCGGGAA

       8057 GCTATGCGAC


Statistics
Matches: 25,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  20   25  1.00

ACGTcount: A:0.13, C:0.15, G:0.38, T:0.34


Consensus pattern (20 bp):   
GCGGGAACTTTTTTGGTCGC
Done.