Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001782.1 Corchorus olitorius cultivar O-4 contig01782, 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, 644

Length: 1074
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29


Found at i:669 original size:12 final size:12

Alignment explanation


    Indices: 647--689  Score: 52
    Period size: 12  Copynumber: 3.6  Consensus size: 12

        637 AAAAAAAAAG

                        
        647 AAGAAAA-GAAA
          1 AAGAAAAGGAAA

                  *     
        658 AAGAAAGGGAAA
          1 AAGAAAAGGAAA

                         
        670 AAGGAAAAGGAAA
          1 AA-GAAAAGGAAA

             *     
        683 AGGAAAA
          1 AAGAAAA

        690 TAAAATTAAT


Statistics
Matches: 27,  Mismatches: 3, Indels: 3
        0.82            0.09        0.09

Matches are distributed among these distances:
  11    6  0.22
  12   11  0.41
  13   10  0.37

ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00


Consensus pattern (12 bp):   
AAGAAAAGGAAA

Found at i:676 original size:19 final size:18

Alignment explanation


    Indices: 634--689  Score: 58
    Period size: 19  Copynumber: 3.0  Consensus size: 18

        624 GAAGAAGAAG

                   *     *     
        634 AGAAAAAAAAAAGAAGAAA
          1 AGAAAAAGAAAAGGA-AAA

                       *      
        653 AGAAAAAGAAAGGGAAAA
          1 AGAAAAAGAAAAGGAAAA

                   *           
        671 AGGAAAAGGAAAAGGAAAA
          1 A-GAAAAAGAAAAGGAAAA

        690 TAAAATTAAT


Statistics
Matches: 31,  Mismatches: 5, Indels: 2
        0.82            0.13        0.05

Matches are distributed among these distances:
  18    4  0.13
  19   27  0.87

ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00


Consensus pattern (18 bp):   
AGAAAAAGAAAAGGAAAA
Done.