Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017345.1 Corchorus olitorius cultivar O-4 contig17378, 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: 16824
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29


Found at i:3594 original size:19 final size:19

Alignment explanation


    Indices: 3572--3614  Score: 50
    Period size: 19  Copynumber: 2.3  Consensus size: 19

       3562 CAAGGGCTGA

                               
       3572 AATTAATTAATTAAATAAT
          1 AATTAATTAATTAAATAAT

                 *  *   *      
       3591 AATTATTTTATTGAATAAT
          1 AATTAATTAATTAAATAAT

            *    
       3610 TATTA
          1 AATTA

       3615 TCAAAAATCC


Statistics
Matches: 20,  Mismatches: 4, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  19   20  1.00

ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49


Consensus pattern (19 bp):   
AATTAATTAATTAAATAAT

Found at i:8326 original size:15 final size:15

Alignment explanation


    Indices: 8296--8337  Score: 66
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       8286 TTACTCTGCT

                            
       8296 TTGTTTTCTAGTTTAA
          1 TTGTTTTCT-GTTTAA

                           
       8312 TTGTTTTCTGTTTAA
          1 TTGTTTTCTGTTTAA

               *       
       8327 TTGCTTTCTGT
          1 TTGTTTTCTGT

       8338 CAATCTCTGT


Statistics
Matches: 25,  Mismatches: 1, Indels: 1
        0.93            0.04        0.04

Matches are distributed among these distances:
  15   16  0.64
  16    9  0.36

ACGTcount: A:0.12, C:0.10, G:0.14, T:0.64


Consensus pattern (15 bp):   
TTGTTTTCTGTTTAA
Done.