Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007309.1 Corchorus olitorius cultivar O-4 contig07334, 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: 3023
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36


Found at i:785 original size:42 final size:43

Alignment explanation


    Indices: 738--826  Score: 126
    Period size: 46  Copynumber: 2.0  Consensus size: 43

        728 GTAAAGGATA

                     *             *                   
        738 GGATGAAGAGATTTGATT-AAGTTAACAAAAGTGTCATATATT
          1 GGATGAAGAAATTTGATTAAAGTCAACAAAAGTGTCATATATT

                                                          
        780 GGATGAAGAAATTTGATTAAGGAAGTCAACAAAAGTGTCATATATT
          1 GGATGAAGAAATTTGATT-A--AAGTCAACAAAAGTGTCATATATT

             
        826 G
          1 G

        827 ATTACTCTAG


Statistics
Matches: 41,  Mismatches: 2, Indels: 4
        0.87            0.04        0.09

Matches are distributed among these distances:
  42   17  0.41
  46   24  0.59

ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30


Consensus pattern (43 bp):   
GGATGAAGAAATTTGATTAAAGTCAACAAAAGTGTCATATATT

Found at i:885 original size:2 final size:2

Alignment explanation


    Indices: 878--902  Score: 50
    Period size: 2  Copynumber: 12.5  Consensus size: 2

        868 CAAAAGTTTC

                                                 
        878 AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT A

        903 CTAAATAGTA


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   23  1.00

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Done.