Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021582.1 Corchorus olitorius cultivar O-4 contig21615, 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: 18690
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31


Found at i:8359 original size:34 final size:34

Alignment explanation


    Indices: 8316--8391  Score: 143
    Period size: 34  Copynumber: 2.2  Consensus size: 34

       8306 AACCATGTGG

                                              
       8316 GCGCCCAGGTGGAGTCGGGGTCCTTGTCCCGCGC
          1 GCGCCCAGGTGGAGTCGGGGTCCTTGTCCCGCGC

                                             *
       8350 GCGCCCAGGTGGAGTCGGGGTCCTTGTCCCGCGT
          1 GCGCCCAGGTGGAGTCGGGGTCCTTGTCCCGCGC

                    
       8384 GCGCCCAG
          1 GCGCCCAG

       8392 CAGCCAACGT


Statistics
Matches: 41,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  34   41  1.00

ACGTcount: A:0.07, C:0.36, G:0.41, T:0.17


Consensus pattern (34 bp):   
GCGCCCAGGTGGAGTCGGGGTCCTTGTCCCGCGC

Found at i:12928 original size:69 final size:69

Alignment explanation


    Indices: 12808--13037  Score: 347
    Period size: 69  Copynumber: 3.3  Consensus size: 69

      12798 ATTTCCCGCA

                *   *                                                        
      12808 ACAACTCCTGGACAGGACTTGGGTAACTCCTGCCCAGGTCTTGTCCTGTAATTTGCTCTCCTCAA
          1 ACAAGTCCGGGACAGGACTTGGGTAACTCCTGCCCAGGTCTTGTCCTGTAATTTGCTCTCCTCAA

                
      12873 CAGC
         66 CAGC

                                    *     *                         *        
      12877 ACAAGTCCGGGACAGGACTTGGGTGACTCCCGCCCAGGTCTTGTCCTGTAATTTGCGCTCCTCAA
          1 ACAAGTCCGGGACAGGACTTGGGTAACTCCTGCCCAGGTCTTGTCCTGTAATTTGCTCTCCTCAA

                
      12942 CAGC
         66 CAGC

                     *                                         *             
      12946 ACAAGTCCGAGACAGGACTTGGGTAACTCCTGCCCAGGTCTTGTCCTGTATTTTTGCAT-TCCTC
          1 ACAAGTCCGGGACAGGACTTGGGTAACTCCTGCCCAGGTCTTGTCCTGTA-ATTTGC-TCTCCTC

                  
      13010 AACAGC
         64 AACAGC

                     *             
      13016 -CTAAGTCCTGGACAGGACTTGG
          1 AC-AAGTCCGGGACAGGACTTGG

      13038 CCATGATCTG


Statistics
Matches: 146,  Mismatches: 12, Indels: 5
        0.90            0.07        0.03

Matches are distributed among these distances:
  69  112  0.77
  70   34  0.23

ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26


Consensus pattern (69 bp):   
ACAAGTCCGGGACAGGACTTGGGTAACTCCTGCCCAGGTCTTGTCCTGTAATTTGCTCTCCTCAA
CAGC
Done.