Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007542.1 Corchorus olitorius cultivar O-4 contig07567, 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, 862

Length: 1437
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37


Found at i:164 original size:19 final size:19

Alignment explanation


    Indices: 146--182  Score: 67
    Period size: 19  Copynumber: 2.0  Consensus size: 19

        136 AATTAATTAT

                               
        146 TTTA-ATATTAAATTTTTA
          1 TTTATATATTAAATTTTTA

                               
        164 TTTATATATTAAATTTTTA
          1 TTTATATATTAAATTTTTA

        183 CTTAAAAATT


Statistics
Matches: 18,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  18    4  0.22
  19   14  0.78

ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62


Consensus pattern (19 bp):   
TTTATATATTAAATTTTTA

Found at i:193 original size:19 final size:19

Alignment explanation


    Indices: 152--193  Score: 57
    Period size: 19  Copynumber: 2.2  Consensus size: 19

        142 TTATTTTAAT

                        *   * *
        152 ATTAAATTTTTATTTATAT
          1 ATTAAATTTTTACTTAAAA

                               
        171 ATTAAATTTTTACTTAAAA
          1 ATTAAATTTTTACTTAAAA

                
        190 ATTA
          1 ATTA

        194 CTCCTAATTA


Statistics
Matches: 20,  Mismatches: 3, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  19   20  1.00

ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55


Consensus pattern (19 bp):   
ATTAAATTTTTACTTAAAA

Found at i:712 original size:22 final size:23

Alignment explanation


    Indices: 672--714  Score: 61
    Period size: 22  Copynumber: 1.9  Consensus size: 23

        662 TATAGTGCCA

                                   
        672 ATATATATTAAAATAAATTATCC
          1 ATATATATTAAAATAAATTATCC

                     *    *      
        695 ATATA-ATTGAAATTAATTAT
          1 ATATATATTAAAATAAATTAT

        715 GAAAAGAAGC


Statistics
Matches: 18,  Mismatches: 2, Indels: 1
        0.86            0.10        0.05

Matches are distributed among these distances:
  22   13  0.72
  23    5  0.28

ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42


Consensus pattern (23 bp):   
ATATATATTAAAATAAATTATCC
Done.