Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017984.1 Corchorus olitorius cultivar O-4 contig18017, 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: 3815
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29


Found at i:56 original size:40 final size:40

Alignment explanation


    Indices: 1--268  Score: 394
    Period size: 40  Copynumber: 6.7  Consensus size: 40

                                                   *
          1 TTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATTCCCAA
          1 TTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATTCCCAG

                                              *     
         41 TTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATACCCAG
          1 TTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATTCCCAG

                                                   *
         81 TTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATTCCCAA
          1 TTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATTCCCAG

              *                               *     
        121 TTCGCCCTTCCCCACCGGAAGGTGTTGTTTAAATACCCAG
          1 TTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATTCCCAG

                                               *    
        161 TTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAA-TACCAG
          1 TTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATTCCCAG

                  *     *       *       *       **  
        200 TTTGCCTTTCCCTACCGGAAAGTGTTGTCTAAATTCTTAG
          1 TTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATTCCCAG

                       *  *   *          
        240 TTTGCCCTTCCTCATCGGGAGGTGTTGTT
          1 TTTGCCCTTCCCCACCGGAAGGTGTTGTT

        269 CCTATTCCCT


Statistics
Matches: 203,  Mismatches: 24, Indels: 2
        0.89            0.10        0.01

Matches are distributed among these distances:
  39   33  0.16
  40  170  0.84

ACGTcount: A:0.19, C:0.28, G:0.20, T:0.33


Consensus pattern (40 bp):   
TTTGCCCTTCCCCACCGGAAGGTGTTGTTTAAATTCCCAG

Done.