Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017499.1 Corchorus olitorius cultivar O-4 contig17532, 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: 2113
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32


Found at i:832 original size:13 final size:13

Alignment explanation


    Indices: 816--879  Score: 67
    Period size: 13  Copynumber: 4.7  Consensus size: 13

        806 ATAAAAACTT

                      *  
        816 TTTTCAAAAAAGA
          1 TTTTCAAAAATGA

                           
        829 TTTTCAAGAAACTG-
          1 TTTTCAA-AAA-TGA

                         
        843 TTTTCAAAAATGA
          1 TTTTCAAAAATGA

            *            
        856 CTTTCAAAAATGA
          1 TTTTCAAAAATGA

                       
        869 GTTTTCCAAAA
          1 -TTTT-CAAAA

        880 GGTTTTGAGT


Statistics
Matches: 43,  Mismatches: 3, Indels: 8
        0.80            0.06        0.15

Matches are distributed among these distances:
  12    2  0.05
  13   22  0.51
  14   13  0.30
  15    6  0.14

ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34


Consensus pattern (13 bp):   
TTTTCAAAAATGA

Found at i:874 original size:27 final size:27

Alignment explanation


    Indices: 810--862  Score: 79
    Period size: 27  Copynumber: 2.0  Consensus size: 27

        800 TTTCAAATAA

                 *             *       
        810 AAACTTTTTTCAAAAAAGATTTTCAAG
          1 AAACTGTTTTCAAAAAAGACTTTCAAG

                            *         
        837 AAACTGTTTTCAAAAATGACTTTCAA
          1 AAACTGTTTTCAAAAAAGACTTTCAA

        863 AAATGAGTTT


Statistics
Matches: 23,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  27   23  1.00

ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36


Consensus pattern (27 bp):   
AAACTGTTTTCAAAAAAGACTTTCAAG
Done.