Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015473.1 Corchorus olitorius cultivar O-4 contig15506, 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: 12587
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33


Found at i:887 original size:31 final size:29

Alignment explanation


    Indices: 814--888  Score: 80
    Period size: 30  Copynumber: 2.5  Consensus size: 29

        804 TTTTGCCGTC

                                *          
        814 TGAACTTGTATGATTTTGACGTTTTGCCCCA
          1 TGAACTTGTA--ATTTTGACATTTTGCCCCA

             *                            *
        845 TAAACTT-TAATTTTGGACATTTTGTCCCCT
          1 TGAACTTGTAATTTT-GACATTTTG-CCCCA

                          
        875 TGAACTTGTAATTT
          1 TGAACTTGTAATTT

        889 GAAGTCATTT


Statistics
Matches: 37,  Mismatches: 4, Indels: 6
        0.79            0.09        0.13

Matches are distributed among these distances:
  28    5  0.14
  29    8  0.22
  30   12  0.32
  31   12  0.32

ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45


Consensus pattern (29 bp):   
TGAACTTGTAATTTTGACATTTTGCCCCA

Found at i:10673 original size:6 final size:6

Alignment explanation


    Indices: 10662--10687  Score: 52
    Period size: 6  Copynumber: 4.3  Consensus size: 6

      10652 GCTCTGCACT

                                          
      10662 TCGACA TCGACA TCGACA TCGACA TC
          1 TCGACA TCGACA TCGACA TCGACA TC

      10688 ACCCTGGTTC


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   20  1.00

ACGTcount: A:0.31, C:0.35, G:0.15, T:0.19


Consensus pattern (6 bp):   
TCGACA

Done.