Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002006.1 Corchorus olitorius cultivar O-4 contig02006, 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: 7564
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30


Found at i:809 original size:12 final size:12

Alignment explanation


    Indices: 792--827  Score: 63
    Period size: 12  Copynumber: 3.0  Consensus size: 12

        782 TATAGATTTC

                        
        792 ACATTTACAAGA
          1 ACATTTACAAGA

                        
        804 ACATTTACAAGA
          1 ACATTTACAAGA

                   *    
        816 ACATTTATAAGA
          1 ACATTTACAAGA

        828 GAAGAGGTTT


Statistics
Matches: 23,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  12   23  1.00

ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28


Consensus pattern (12 bp):   
ACATTTACAAGA

Found at i:7422 original size:42 final size:42

Alignment explanation


    Indices: 7363--7463  Score: 193
    Period size: 42  Copynumber: 2.4  Consensus size: 42

       7353 GCTTTATTTT

                                                      
       7363 CCTTCAAACTTCAAACTTTTCAATTCTCTCAAATTCTCTCAA
          1 CCTTCAAACTTCAAACTTTTCAATTCTCTCAAATTCTCTCAA

                                                      
       7405 CCTTCAAACTTCAAACTTTTCAATTCTCTCAAATTCTCTCAA
          1 CCTTCAAACTTCAAACTTTTCAATTCTCTCAAATTCTCTCAA

                             
       7447 CCTTCAAACTTTCAAAC
          1 CCTTCAAAC-TTCAAAC

       7464 CTCAATCATT


Statistics
Matches: 58,  Mismatches: 0, Indels: 1
        0.98            0.00        0.02

Matches are distributed among these distances:
  42   51  0.88
  43    7  0.12

ACGTcount: A:0.32, C:0.32, G:0.00, T:0.37


Consensus pattern (42 bp):   
CCTTCAAACTTCAAACTTTTCAATTCTCTCAAATTCTCTCAA
Done.