Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002450.1 Corchorus capsularis cultivar CVL-1 contig02456, 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, 725

Length: 1209
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33


Found at i:169 original size:17 final size:17

Alignment explanation


    Indices: 147--180  Score: 59
    Period size: 17  Copynumber: 2.0  Consensus size: 17

        137 GCGAATCTAT

                  *          
        147 TCTATCGAGTTATTTGA
          1 TCTATCCAGTTATTTGA

                             
        164 TCTATCCAGTTATTTGA
          1 TCTATCCAGTTATTTGA

        181 AGATGCAGGG


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   16  1.00

ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47


Consensus pattern (17 bp):   
TCTATCCAGTTATTTGA

Found at i:313 original size:13 final size:13

Alignment explanation


    Indices: 295--322  Score: 56
    Period size: 13  Copynumber: 2.2  Consensus size: 13

        285 GAAAAGTGTA

                         
        295 ATTAGAATATAAT
          1 ATTAGAATATAAT

                         
        308 ATTAGAATATAAT
          1 ATTAGAATATAAT

              
        321 AT
          1 AT

        323 AATATAAAAG


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   15  1.00

ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39


Consensus pattern (13 bp):   
ATTAGAATATAAT

Found at i:459 original size:19 final size:19

Alignment explanation


    Indices: 435--472  Score: 76
    Period size: 19  Copynumber: 2.0  Consensus size: 19

        425 CTATTTTTTT

                               
        435 TTATATAGAATAGAAAGAA
          1 TTATATAGAATAGAAAGAA

                               
        454 TTATATAGAATAGAAAGAA
          1 TTATATAGAATAGAAAGAA

        473 GAAGTCTACA


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  19   19  1.00

ACGTcount: A:0.58, C:0.00, G:0.16, T:0.26


Consensus pattern (19 bp):   
TTATATAGAATAGAAAGAA
Done.