Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008533.1 Corchorus olitorius cultivar O-4 contig08560, 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, 630

Length: 1051
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34


Found at i:830 original size:14 final size:14

Alignment explanation


    Indices: 808--847  Score: 53
    Period size: 14  Copynumber: 2.8  Consensus size: 14

        798 CTTTTTAATT

                *         
        808 AAAAGAATTTTTCA
          1 AAAATAATTTTTCA

                        * 
        822 AAAATAATTTTTTA
          1 AAAATAATTTTTCA

                        
        836 AAAATTAATTTT
          1 AAAA-TAATTTT

        848 GAAAATATTA


Statistics
Matches: 23,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  14   16  0.70
  15    7  0.30

ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45


Consensus pattern (14 bp):   
AAAATAATTTTTCA

Found at i:833 original size:15 final size:15

Alignment explanation


    Indices: 813--847  Score: 54
    Period size: 14  Copynumber: 2.4  Consensus size: 15

        803 TAATTAAAAG

                   *       
        813 AATTTTTCAAAAA-T
          1 AATTTTTTAAAAATT

                           
        827 AATTTTTTAAAAATT
          1 AATTTTTTAAAAATT

                  
        842 AATTTT
          1 AATTTT

        848 GAAAATATTA


Statistics
Matches: 19,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  14   12  0.63
  15    7  0.37

ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51


Consensus pattern (15 bp):   
AATTTTTTAAAAATT

Found at i:862 original size:15 final size:14

Alignment explanation


    Indices: 814--862  Score: 53
    Period size: 14  Copynumber: 3.4  Consensus size: 14

        804 AATTAAAAGA

                         *
        814 ATTTTTCAAAAATA
          1 ATTTTTCAAAAATT

                  *       
        828 ATTTTTTAAAAATT
          1 ATTTTTCAAAAATT

             *    *        
        842 AATTTTGAAAATATT
          1 ATTTTTCAAAA-ATT

                  
        857 ATTTTT
          1 ATTTTT

        863 TGAACTAGAA


Statistics
Matches: 29,  Mismatches: 5, Indels: 1
        0.83            0.14        0.03

Matches are distributed among these distances:
  14   21  0.72
  15    8  0.28

ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53


Consensus pattern (14 bp):   
ATTTTTCAAAAATT
Done.