Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022253.1 Corchorus olitorius cultivar O-4 contig22286, 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: 11804
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36


Found at i:848 original size:25 final size:24

Alignment explanation


    Indices: 798--849  Score: 68
    Period size: 25  Copynumber: 2.1  Consensus size: 24

        788 CCTTGAATTT

                          *      *  
        798 TTTAATGTTTAATTCTTAAATTTA
          1 TTTAATGTTTAATTATTAAATCTA

                              *      
        822 TTTAATGTCTTAATTATTCAATCTA
          1 TTTAATGT-TTAATTATTAAATCTA

               
        847 TTT
          1 TTT

        850 TACAATCCAC


Statistics
Matches: 24,  Mismatches: 3, Indels: 1
        0.86            0.11        0.04

Matches are distributed among these distances:
  24    8  0.33
  25   16  0.67

ACGTcount: A:0.31, C:0.08, G:0.04, T:0.58


Consensus pattern (24 bp):   
TTTAATGTTTAATTATTAAATCTA

Found at i:11368 original size:28 final size:28

Alignment explanation


    Indices: 11336--11390  Score: 92
    Period size: 28  Copynumber: 2.0  Consensus size: 28

      11326 TTAGAAGAAA

                                        
      11336 ACTTTTCAACTTTCAACCAAAAGTTTTT
          1 ACTTTTCAACTTTCAACCAAAAGTTTTT

                     *      *          
      11364 ACTTTTCAATTTTCAAGCAAAAGTTTT
          1 ACTTTTCAACTTTCAACCAAAAGTTTT

      11391 AAAGGTAAAA


Statistics
Matches: 25,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  28   25  1.00

ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44


Consensus pattern (28 bp):   
ACTTTTCAACTTTCAACCAAAAGTTTTT
Done.