Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008189.1 Corchorus olitorius cultivar O-4 contig08216, 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, 607

Length: 1013
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34


Found at i:629 original size:42 final size:42

Alignment explanation


    Indices: 566--646  Score: 144
    Period size: 42  Copynumber: 1.9  Consensus size: 42

        556 GCTAAGTCTT

                   *        *                         
        566 GAAAATTCTTTGTAAATTAAGAAATACTCAACTCAAATCATA
          1 GAAAATTATTTGTAAACTAAGAAATACTCAACTCAAATCATA

                                                   
        608 GAAAATTATTTGTAAACTAAGAAATACTCAACTCAAATC
          1 GAAAATTATTTGTAAACTAAGAAATACTCAACTCAAATC

        647 TTGATCCTCA


Statistics
Matches: 37,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  42   37  1.00

ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30


Consensus pattern (42 bp):   
GAAAATTATTTGTAAACTAAGAAATACTCAACTCAAATCATA

Found at i:783 original size:56 final size:57

Alignment explanation


    Indices: 712--826  Score: 205
    Period size: 57  Copynumber: 2.0  Consensus size: 57

        702 TTTATTTTGT

                      *                   *                          
        712 AGAATAATTATGTAGAGATAG-GGGGATAGGATTTATTATAATATTTATTGTGTGAA
          1 AGAATAATTAAGTAGAGATAGAGGGGATAGAATTTATTATAATATTTATTGTGTGAA

                                                                     
        768 AGAATAATTAAGTAGAGATAGAGGGGATAGAATTTATTATAATATTTATTGTGTGAA
          1 AGAATAATTAAGTAGAGATAGAGGGGATAGAATTTATTATAATATTTATTGTGTGAA

              
        825 AG
          1 AG

        827 GAAACGGATA


Statistics
Matches: 56,  Mismatches: 2, Indels: 1
        0.95            0.03        0.02

Matches are distributed among these distances:
  56   20  0.36
  57   36  0.64

ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36


Consensus pattern (57 bp):   
AGAATAATTAAGTAGAGATAGAGGGGATAGAATTTATTATAATATTTATTGTGTGAA

Done.