Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010538.1 Corchorus olitorius cultivar O-4 contig10570, 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: 9794
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34


Found at i:3668 original size:16 final size:17

Alignment explanation


    Indices: 3643--3675  Score: 50
    Period size: 16  Copynumber: 2.0  Consensus size: 17

       3633 AAAATAAAAA

                             
       3643 TTAAGATTAAA-GAATT
          1 TTAAGATTAAAGGAATT

                 *           
       3659 TTAAGGTTAAAGGAATT
          1 TTAAGATTAAAGGAATT

       3676 ATTTTTTATT


Statistics
Matches: 15,  Mismatches: 1, Indels: 1
        0.88            0.06        0.06

Matches are distributed among these distances:
  16   10  0.67
  17    5  0.33

ACGTcount: A:0.45, C:0.00, G:0.18, T:0.36


Consensus pattern (17 bp):   
TTAAGATTAAAGGAATT

Found at i:8945 original size:60 final size:60

Alignment explanation


    Indices: 8797--9077  Score: 438
    Period size: 60  Copynumber: 4.7  Consensus size: 60

       8787 CGACGCCAGA

                                     *     *           *                
       8797 CCCTTATTTGAGCATTTTGGCAAACGTTAGGTCCTTATTTGACTAAATTAAAAGATC-GG
          1 CCCTTATTTGAGCATTTTGGCAAACATTAGGCCCTTATTTGACCAAATTAAAAGATCAGG

            *                                        * *         *   *  
       8856 GCCTTATTTGAGCATTTTGGCAAACATTAGGCCCTTATTTGGCTAAATTAAAAAATCGGG
          1 CCCTTATTTGAGCATTTTGGCAAACATTAGGCCCTTATTTGACCAAATTAAAAGATCAGG

                                                                      * 
       8916 CCCTTATTTGAGCATTTTGGCAAACATTAGGCCCTTATTTGACCAAATTAAAAGATCATG
          1 CCCTTATTTGAGCATTTTGGCAAACATTAGGCCCTTATTTGACCAAATTAAAAGATCAGG

                                                                       *
       8976 CCCTTATTTGAGCATTTTGGCAAACATTAGGCCCTTATTTGACCAAATTAAAAGATCAGA
          1 CCCTTATTTGAGCATTTTGGCAAACATTAGGCCCTTATTTGACCAAATTAAAAGATCAGG

                   *                 *     *          
       9036 CCCTTATCTGAGCATTTTGGCAAACGTTAGGTCCTTATTTGA
          1 CCCTTATTTGAGCATTTTGGCAAACATTAGGCCCTTATTTGA

       9078 GCAATTAGCA


Statistics
Matches: 205,  Mismatches: 16, Indels: 1
        0.92            0.07        0.00

Matches are distributed among these distances:
  59   52  0.25
  60  153  0.75

ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34


Consensus pattern (60 bp):   
CCCTTATTTGAGCATTTTGGCAAACATTAGGCCCTTATTTGACCAAATTAAAAGATCAGG

Done.