Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020155.1 Corchorus olitorius cultivar O-4 contig20188, 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: 12413
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30


Found at i:6662 original size:38 final size:38

Alignment explanation


    Indices: 6615--6720  Score: 178
    Period size: 38  Copynumber: 2.8  Consensus size: 38

       6605 ATGTTCTTAA

                                                  
       6615 TTAAGTAATTCCAAAAGAAGATTTTGGAAAATAAAAGT
          1 TTAAGTAATTCCAAAAGAAGATTTTGGAAAATAAAAGT

               *                                   
       6653 TTAGGTAATTCCAAAAGAAGATTTTGGAGAAATAAAAGT
          1 TTAAGTAATTCCAAAAGAAGATTTTGGA-AAATAAAAGT

                    *                     
       6692 TTAAG-AAATCCAAAAGAAGATTTTGGAAA
          1 TTAAGTAATTCCAAAAGAAGATTTTGGAAA

       6721 TTAATAAAAT


Statistics
Matches: 64,  Mismatches: 3, Indels: 3
        0.91            0.04        0.04

Matches are distributed among these distances:
  37    2  0.03
  38   48  0.75
  39   14  0.22

ACGTcount: A:0.49, C:0.06, G:0.18, T:0.27


Consensus pattern (38 bp):   
TTAAGTAATTCCAAAAGAAGATTTTGGAAAATAAAAGT

Found at i:9592 original size:15 final size:15

Alignment explanation


    Indices: 9572--9608  Score: 56
    Period size: 15  Copynumber: 2.5  Consensus size: 15

       9562 CAAGAGACGT

                        ** 
       9572 TTTTCAAGAAAATTG
          1 TTTTCAAGAAAAAGG

                           
       9587 TTTTCAAGAAAAAGG
          1 TTTTCAAGAAAAAGG

                   
       9602 TTTTCAA
          1 TTTTCAA

       9609 AAATGAGTTT


Statistics
Matches: 20,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  15   20  1.00

ACGTcount: A:0.41, C:0.08, G:0.14, T:0.38


Consensus pattern (15 bp):   
TTTTCAAGAAAAAGG
Done.