Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023485.1 Corchorus olitorius cultivar O-4 contig23518, 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: 5015
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31


Found at i:59 original size:40 final size:40

Alignment explanation


    Indices: 13--505  Score: 709
    Period size: 40  Copynumber: 12.3  Consensus size: 40

          3 TTAAAATTCC

                                                    
         13 CAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATACT
          1 CAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATACT

                                                    
         53 CAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATACT
          1 CAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATACT

             *                                   * *
         93 CGGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATTCC
          1 CAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATACT

                           *                        
        133 CAGTTTGCCCTTCCCGACCGGAAGGTGTTGTTTAAATACT
          1 CAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATACT

                                                    
        173 CAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATACT
          1 CAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATACT

                                                     
        213 CAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTTAAATACT
          1 CAGTTTGCCCTTCCCCACCGGAAGGTGTTG-TTTAAATACT

             *                             *    *  *
        254 CGGTTTGCCCTTCCCCACCGGAAGGTGTTGTCTAAAGACC
          1 CAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATACT

                  *                        *       *
        294 CAGTTTACCCTTCCCCACCGGAAGGTGTTGTCTAAATACC
          1 CAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATACT

                         *    *                    *
        334 CAGTTTGCCCTTCTCCACAGGAAGGTGTTGTTTAAATACC
          1 CAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATACT

                         *                 *     * *
        374 CAGTTTGCCCTTCACCACCGGAAGGTGTTGTCTAAATTCC
          1 CAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATACT

                    **     *       *       *     *  
        414 CAGTTTGCATTTCCCTACCGGAAAGTGTTGTCTAAATTCT
          1 CAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATACT

                     *             *     *           
        454 CAGTTTGCCTTTCCCCACCGGAAAGTGTTTTTTAAATTA-T
          1 CAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAA-TACT

              *         
        494 CAATTTGCCCTT
          1 CAGTTTGCCCTT

        506 TCTCATCGGG


Statistics
Matches: 415,  Mismatches: 36, Indels: 4
        0.91            0.08        0.01

Matches are distributed among these distances:
  40  375  0.90
  41   40  0.10

ACGTcount: A:0.20, C:0.28, G:0.20, T:0.33


Consensus pattern (40 bp):   
CAGTTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATACT

Done.