Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021651.1 Corchorus olitorius cultivar O-4 contig21684, 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: 11633
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30


Found at i:9097 original size:19 final size:18

Alignment explanation


    Indices: 9064--9099  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       9054 TTGAAATTAT

                              
       9064 TCTTCAATGGTCTTCAAA
          1 TCTTCAATGGTCTTCAAA

                     *        
       9082 TCTTCAAATTGTCTTCAA
          1 TCTTC-AATGGTCTTCAA

       9100 TAAGTCTTCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    5  0.31
  19   11  0.69

ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42


Consensus pattern (18 bp):   
TCTTCAATGGTCTTCAAA

Found at i:10640 original size:30 final size:29

Alignment explanation


    Indices: 10601--10657  Score: 80
    Period size: 30  Copynumber: 1.9  Consensus size: 29

      10591 GTTTATTAAT

                         *                 
      10601 GAAACTTGAAAATTAAAGACATAAGATAAAG
          1 GAAACTTGAAAATAAAAG-CATAA-ATAAAG

                                       
      10632 GAAA-TTGAAAATAAAAGCATAAATAA
          1 GAAACTTGAAAATAAAAGCATAAATAA

      10658 CTAATCCTAA


Statistics
Matches: 25,  Mismatches: 1, Indels: 3
        0.86            0.03        0.10

Matches are distributed among these distances:
  28    4  0.16
  29    5  0.20
  30   12  0.48
  31    4  0.16

ACGTcount: A:0.61, C:0.05, G:0.14, T:0.19


Consensus pattern (29 bp):   
GAAACTTGAAAATAAAAGCATAAATAAAG
Done.