Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011694.1 Corchorus olitorius cultivar O-4 contig11727, 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: 3768
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29


Found at i:237 original size:23 final size:23

Alignment explanation


    Indices: 211--256  Score: 92
    Period size: 23  Copynumber: 2.0  Consensus size: 23

        201 GTCATAGTGT

                                   
        211 GAACTGAACTCCTTCAATATCGG
          1 GAACTGAACTCCTTCAATATCGG

                                   
        234 GAACTGAACTCCTTCAATATCGG
          1 GAACTGAACTCCTTCAATATCGG

        257 ACTAAGAGCC


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  23   23  1.00

ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26


Consensus pattern (23 bp):   
GAACTGAACTCCTTCAATATCGG

Found at i:883 original size:29 final size:29

Alignment explanation


    Indices: 841--899  Score: 118
    Period size: 29  Copynumber: 2.0  Consensus size: 29

        831 ACTTAGTCTC

                                         
        841 AACGAGCCTAATCTCTTATACATGATTTA
          1 AACGAGCCTAATCTCTTATACATGATTTA

                                         
        870 AACGAGCCTAATCTCTTATACATGATTTA
          1 AACGAGCCTAATCTCTTATACATGATTTA

             
        899 A
          1 A

        900 TTGCGAAATC


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  29   30  1.00

ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34


Consensus pattern (29 bp):   
AACGAGCCTAATCTCTTATACATGATTTA

Found at i:3744 original size:23 final size:23

Alignment explanation


    Indices: 3718--3765  Score: 96
    Period size: 23  Copynumber: 2.1  Consensus size: 23

       3708 CATTCAACAG

                                   
       3718 GAGCAGCTCAAACCATTACATTA
          1 GAGCAGCTCAAACCATTACATTA

                                   
       3741 GAGCAGCTCAAACCATTACATTA
          1 GAGCAGCTCAAACCATTACATTA

              
       3764 GA
          1 GA

       3766 TTC


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  23   25  1.00

ACGTcount: A:0.40, C:0.25, G:0.15, T:0.21


Consensus pattern (23 bp):   
GAGCAGCTCAAACCATTACATTA
Done.