Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000145.1 Corchorus olitorius cultivar O-4 contig00145, 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, 634

Length: 1057
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31


Found at i:76 original size:36 final size:35

Alignment explanation


    Indices: 1--371  Score: 240
    Period size: 35  Copynumber: 10.4  Consensus size: 35

                  *        *  *        * * *  *
          1 AAATAACTTGAAGAATGACCGCCCTGGGTTAGCTA
          1 AAATAAATTGAAGAAAGATCGCCCTGGATCAACTG

                                           *    
         36 AAATAAATTGAAGGAAAGATCGCCCTGGATCGACTG
          1 AAATAAATTGAA-GAAAGATCGCCCTGGATCAACTG

                         *      *               
         72 AAATAAATTGAATAAAAGATTGCCCTGGATCAACTG
          1 AAATAAATTGAA-GAAAGATCGCCCTGGATCAACTG

            * *        *  *     *   *          
        108 GAGTAAATTGAGGAGAGATCACCCCGGATCAACTG
          1 AAATAAATTGAAGAAAGATCGCCCTGGATCAACTG

             *     *            * *      *        
        143 ACATAAACTGAATGAAAAGACCACCCTGGGTCAACTTG
          1 AAATAAATTGAA-G-AAAGATCGCCCTGGATCAAC-TG

                   *        * *                 
        181 AAATAAACTGAAGAACGGGTCGCCCTGGATCAACTG
          1 AAATAAATTGAAGAA-AGATCGCCCTGGATCAACTG

             **    *     *       **   *       *  
        217 AGGTAAAATGAATAAAAGATCATCCTAGATCAAATTG
          1 AAATAAATTGAA-GAAAGATCGCCCTGGATC-AACTG

                *             * *            *  
        254 AAATGAATTGAAGAAAGACCACCCTAGG-TCAATTG
          1 AAATAAATTGAAGAAAGATCGCCCT-GGATCAACTG

                           *  *        *       
        289 AAATAAATTGAAGAAGGACCGCCCTGGGTCAACTG
          1 AAATAAATTGAAGAAAGATCGCCCTGGATCAACTG

            *   *             *        * *     
        324 GAATGAATTGAAGAAAGACCGCCCTGGGTTAACTG
          1 AAATAAATTGAAGAAAGATCGCCCTGGATCAACTG

                *  *     
        359 AAATGAACTGAAG
          1 AAATAAATTGAAG

        372 CATCTGAAAT


Statistics
Matches: 264,  Mismatches: 63, Indels: 18
        0.77            0.18        0.05

Matches are distributed among these distances:
  34    2  0.01
  35  111  0.42
  36   93  0.35
  37   45  0.17
  38   13  0.05

ACGTcount: A:0.40, C:0.18, G:0.23, T:0.20


Consensus pattern (35 bp):   
AAATAAATTGAAGAAAGATCGCCCTGGATCAACTG

Done.