Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016425.1 Corchorus olitorius cultivar O-4 contig16458, 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: 4163
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32


Found at i:3611 original size:13 final size:12

Alignment explanation


    Indices: 3602--3637  Score: 54
    Period size: 12  Copynumber: 2.9  Consensus size: 12

       3592 GAAAAAAATT

                        
       3602 AAAAAAAAAAAG
          1 AAAAAAAAAAAG

                 *      
       3614 AAAAAGAAAAAG
          1 AAAAAAAAAAAG

                        
       3626 AAAAAAGAAAAA
          1 AAAAAA-AAAAA

       3638 TGTAGTTAAT


Statistics
Matches: 21,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  12   16  0.76
  13    5  0.24

ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00


Consensus pattern (12 bp):   
AAAAAAAAAAAG

Found at i:3617 original size:19 final size:20

Alignment explanation


    Indices: 3595--3639  Score: 67
    Period size: 19  Copynumber: 2.4  Consensus size: 20

       3585 GTGGTCGGAA

                  *             
       3595 AAAAATTAAAAA-AAAAAAG
          1 AAAAATGAAAAAGAAAAAAG

                                
       3614 AAAAA-GAAAAAGAAAAAAG
          1 AAAAATGAAAAAGAAAAAAG

                   
       3633 AAAAATG
          1 AAAAATG

       3640 TAGTTAATAT


Statistics
Matches: 23,  Mismatches: 1, Indels: 3
        0.85            0.04        0.11

Matches are distributed among these distances:
  18    5  0.22
  19   17  0.74
  20    1  0.04

ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07


Consensus pattern (20 bp):   
AAAAATGAAAAAGAAAAAAG
Done.