Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010309.1 Corchorus olitorius cultivar O-4 contig10341, 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, 854

Length: 1424
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38


Found at i:534 original size:35 final size:35

Alignment explanation


    Indices: 2--533  Score: 687
    Period size: 35  Copynumber: 15.0  Consensus size: 35

          1 G

                                               *
          2 CATTTCAAGAAGTTTTTGATGATCATGAGTTGATCA
          1 CATTTCAAGAAGTTTTTGATGATCA-GAGTTGATCT

                                      *        *
         38 CATTT-AAGAAG-TTTTGATGATCAGGGTTTGATCG
          1 CATTTCAAGAAGTTTTTGATGATCAGAG-TTGATCT

                            *        *         
         72 CATTTCAAGAAGTTTTCGATGATCAAAGTTGATCT
          1 CATTTCAAGAAGTTTTTGATGATCAGAGTTGATCT

                            *                 *
        107 CATTTCAAGAAGTTTTCGATGATCAGAGTTGATCG
          1 CATTTCAAGAAGTTTTTGATGATCAGAGTTGATCT

                            **                 
        142 CATTTCAAGAAGTTTTCAATGATCAGAGTTGATCT
          1 CATTTCAAGAAGTTTTTGATGATCAGAGTTGATCT

                                     *         
        177 CATTTCAAGAAGTTTTTGATGATCAAAGTTGATCT
          1 CATTTCAAGAAGTTTTTGATGATCAGAGTTGATCT

                            *                  
        212 CATTTCAAGAAGTTTTCGATGATCAGAGTTGATCT
          1 CATTTCAAGAAGTTTTTGATGATCAGAGTTGATCT

             *              *           *    * 
        247 CGTTTCAAGAAGTTTTCGATGATCAGAGATGATAT
          1 CATTTCAAGAAGTTTTTGATGATCAGAGTTGATCT

                             *                 
        282 CATTTCAAGAAGTTTTTTATGATCAGAGTTGATCT
          1 CATTTCAAGAAGTTTTTGATGATCAGAGTTGATCT

             *   *                              
        317 CCTTTTAAGAAGTTTTTG-TCGATCAGAGTTGATCT
          1 CATTTCAAGAAGTTTTTGAT-GATCAGAGTTGATCT

                             *                 
        352 CATTTCAAGAAGTTTTTTATGATCAGAGTTGATCT
          1 CATTTCAAGAAGTTTTTGATGATCAGAGTTGATCT

             *   *  *                            
        387 CCTTTTAAAAAGTTTTTTG-TCGATCAGAGTTGATCT
          1 CATTTCAAGAAG-TTTTTGAT-GATCAGAGTTGATCT

                                *   *              
        423 CATTTCAAGAAGTTTTTTTTTATGGTCAGAGTTGATCTT
          1 CATTTCAAGAAG---TTTTTGATGATCAGAGTTGATC-T

                                *                 
        462 C-TTTCAAGAAGTTTTTTTTTATGATCAGAGTTGATCT
          1 CATTTCAAGAAG---TTTTTGATGATCAGAGTTGATCT

            *                                  
        499 TATTTCAAGAAGTTTTTGATGATCAGAGTTGATCT
          1 CATTTCAAGAAGTTTTTGATGATCAGAGTTGATCT

        534 TCACATTGAT


Statistics
Matches: 443,  Mismatches: 41, Indels: 25
        0.87            0.08        0.05

Matches are distributed among these distances:
  33    2  0.00
  34   24  0.05
  35  303  0.68
  36   47  0.11
  37    1  0.00
  38   63  0.14
  39    3  0.01

ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41


Consensus pattern (35 bp):   
CATTTCAAGAAGTTTTTGATGATCAGAGTTGATCT
Done.