Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017494.1 Corchorus olitorius cultivar O-4 contig17527, 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: 3664
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.29


Found at i:2392 original size:3 final size:3

Alignment explanation


    Indices: 2384--2408  Score: 50
    Period size: 3  Copynumber: 8.3  Consensus size: 3

       2374 GCTCCATCAT

                                             
       2384 TTC TTC TTC TTC TTC TTC TTC TTC T
          1 TTC TTC TTC TTC TTC TTC TTC TTC T

       2409 GTTTTTACGT


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   22  1.00

ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68


Consensus pattern (3 bp):   
TTC

Found at i:3555 original size:31 final size:30

Alignment explanation


    Indices: 3517--3617  Score: 96
    Period size: 31  Copynumber: 3.3  Consensus size: 30

       3507 TTTCACCTAA

                     *                     
       3517 TTAGTCCCTGTACTATAGAAAAAAGATCAAT
          1 TTAGTCCCTCTACTAT-GAAAAAAGATCAAT

                      * *   *   ***       
       3548 TTAGTCCCTCCATTATCAAATCTG-TCAAT
          1 TTAGTCCCTCTACTATGAAAAAAGATCAAT

                                  *       *
       3577 TTAGTCCCTCTACTATTGAAAAGAGATCAAG
          1 TTAGTCCCTCTACTA-TGAAAAAAGATCAAT

                      
       3608 TTAGTCCCTC
          1 TTAGTCCCTC

       3618 CGTGAAATGG


Statistics
Matches: 54,  Mismatches: 14, Indels: 4
        0.75            0.19        0.06

Matches are distributed among these distances:
  29   18  0.33
  30    9  0.17
  31   27  0.50

ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33


Consensus pattern (30 bp):   
TTAGTCCCTCTACTATGAAAAAAGATCAAT
Done.