Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024645.1 Corchorus olitorius cultivar O-4 contig24678, 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: 2987
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33


Found at i:2143 original size:34 final size:34

Alignment explanation


    Indices: 2105--2188  Score: 123
    Period size: 34  Copynumber: 2.5  Consensus size: 34

       2095 AAAAATTGAA

                             **               
       2105 TGGGAACTTTCCCAATTTGAAAACTTAAAACCGG
          1 TGGGAACTTTCCCAATTACAAAACTTAAAACCGG

                         *                 *  
       2139 TGGGAACTTTCCCGATTACAAAACTTAAAACTGG
          1 TGGGAACTTTCCCAATTACAAAACTTAAAACCGG

                      *     
       2173 TGGGAACTTTTCCAAT
          1 TGGGAACTTTCCCAAT

       2189 AAAAAAAACT


Statistics
Matches: 44,  Mismatches: 6, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  34   44  1.00

ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29


Consensus pattern (34 bp):   
TGGGAACTTTCCCAATTACAAAACTTAAAACCGG

Found at i:2197 original size:35 final size:34

Alignment explanation


    Indices: 2105--2201  Score: 113
    Period size: 34  Copynumber: 2.8  Consensus size: 34

       2095 AAAAATTGAA

                            ***               
       2105 TGGGAACTTTCCCAATTTGAAAACTTAAAACCGG
          1 TGGGAACTTTCCCAATAAAAAAACTTAAAACCGG

                         *  * *            *  
       2139 TGGGAACTTTCCCGATTACAAAACTTAAAACTGG
          1 TGGGAACTTTCCCAATAAAAAAACTTAAAACCGG

                      *                  
       2173 TGGGAACTTTTCCAATAAAAAAAACTTAA
          1 TGGGAACTTTCCCAAT-AAAAAAACTTAA

       2202 TGATATTCTC


Statistics
Matches: 54,  Mismatches: 8, Indels: 1
        0.86            0.13        0.02

Matches are distributed among these distances:
  34   44  0.81
  35   10  0.19

ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27


Consensus pattern (34 bp):   
TGGGAACTTTCCCAATAAAAAAACTTAAAACCGG
Done.