Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017454.1 Corchorus olitorius cultivar O-4 contig17487, 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: 2672
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34


Found at i:133 original size:41 final size:41

Alignment explanation


    Indices: 117--349  Score: 348
    Period size: 41  Copynumber: 5.7  Consensus size: 41

        107 AAATAGTAAG

                   *           *                      
        117 TATTAACTTCAATCAA-GGACGAAATCGAACCAATTAAAAGA
          1 TATTAACATCAATCAAGGGGC-AAATCGAACCAATTAAAAGA

              *    *                                  
        158 TAATAACCTCAATC-AGGGAGCAAATCGAACCAATTAAAAGA
          1 TATTAACATCAATCAAGGG-GCAAATCGAACCAATTAAAAGA

                                                     
        199 TATTAACATCAATCAAGGGGCAAATCGAACCAATTAAAAGA
          1 TATTAACATCAATCAAGGGGCAAATCGAACCAATTAAAAGA

                           *                         
        240 TATTAACATCAATCAGGGGGCAAATCGAACCAATTAAAAGA
          1 TATTAACATCAATCAAGGGGCAAATCGAACCAATTAAAAGA

                                                     
        281 TATTAACATCAATC-AGGGGCAAATCGAACCAATTAAAAGA
          1 TATTAACATCAATCAAGGGGCAAATCGAACCAATTAAAAGA

               *            *             
        321 TATCAATC-TCAATCAGGGGGCAAATCGAA
          1 TATTAA-CATCAATCAAGGGGCAAATCGAA

        350 GAAGAAGACA


Statistics
Matches: 178,  Mismatches: 9, Indels: 10
        0.90            0.05        0.05

Matches are distributed among these distances:
  40   37  0.21
  41  136  0.76
  42    5  0.03

ACGTcount: A:0.47, C:0.18, G:0.15, T:0.20


Consensus pattern (41 bp):   
TATTAACATCAATCAAGGGGCAAATCGAACCAATTAAAAGA

Done.