Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022122.1 Corchorus olitorius cultivar O-4 contig22155, 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: 6227
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28


Found at i:5614 original size:25 final size:25

Alignment explanation


    Indices: 5586--5641  Score: 76
    Period size: 25  Copynumber: 2.2  Consensus size: 25

       5576 GATTTTCTTT

                     *   *     *     
       5586 AAAAAAAAATAAATAAAAATTAAAA
          1 AAAAAAAAAGAAAAAAAAACTAAAA

                  *                  
       5611 AAAAAAGAAGAAAAAAAAACTAAAA
          1 AAAAAAAAAGAAAAAAAAACTAAAA

                  
       5636 AAAAAA
          1 AAAAAA

       5642 TATCCATTGC


Statistics
Matches: 27,  Mismatches: 4, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  25   27  1.00

ACGTcount: A:0.86, C:0.02, G:0.04, T:0.09


Consensus pattern (25 bp):   
AAAAAAAAAGAAAAAAAAACTAAAA

Found at i:5624 original size:21 final size:21

Alignment explanation


    Indices: 5584--5625  Score: 59
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       5574 TTGATTTTCT

                           *     
       5584 TTAAAAAAAAATAAATAAAAA
          1 TTAAAAAAAAATAAAGAAAAA

                                  
       5605 TTAAAAAAAAA-AGAAGAAAAA
          1 TTAAAAAAAAATA-AAGAAAAA

       5626 AAAACTAAAA


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  20    1  0.05
  21   18  0.95

ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14


Consensus pattern (21 bp):   
TTAAAAAAAAATAAAGAAAAA
Done.