Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023270.1 Corchorus olitorius cultivar O-4 contig23303, 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: 3144
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33


Found at i:54 original size:32 final size:32

Alignment explanation


    Indices: 13--96  Score: 159
    Period size: 32  Copynumber: 2.6  Consensus size: 32

          3 TTGATGTTTA

                                            
         13 AACTCTCAAAACTCCTTCAACCTTCATTTTCT
          1 AACTCTCAAAACTCCTTCAACCTTCATTTTCT

                                            
         45 AACTCTCAAAACTCCTTCAACCTTCATTTTCT
          1 AACTCTCAAAACTCCTTCAACCTTCATTTTCT

                         *      
         77 AACTCTCAAAACTTCTTCAA
          1 AACTCTCAAAACTCCTTCAA

         97 ACTCTCTAAA


Statistics
Matches: 51,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  32   51  1.00

ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36


Consensus pattern (32 bp):   
AACTCTCAAAACTCCTTCAACCTTCATTTTCT

Found at i:101 original size:19 final size:19

Alignment explanation


    Indices: 77--115  Score: 69
    Period size: 19  Copynumber: 2.1  Consensus size: 19

         67 TTCATTTTCT

                               
         77 AACTCTCAAAACTTCTTCA
          1 AACTCTCAAAACTTCTTCA

                   *           
         96 AACTCTCTAAACTTCTTCA
          1 AACTCTCAAAACTTCTTCA

             
        115 A
          1 A

        116 GAACATCATG


Statistics
Matches: 19,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  19   19  1.00

ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33


Consensus pattern (19 bp):   
AACTCTCAAAACTTCTTCA

Found at i:538 original size:17 final size:18

Alignment explanation


    Indices: 508--548  Score: 66
    Period size: 17  Copynumber: 2.3  Consensus size: 18

        498 TAGTTATTTT

                              
        508 ATTATTTGACTATAATTA
          1 ATTATTTGACTATAATTA

                              
        526 ATTATTT-ACTATAATTA
          1 ATTATTTGACTATAATTA

            *     
        543 TTTATT
          1 ATTATT

        549 ATTCTAATTA


Statistics
Matches: 22,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  17   15  0.68
  18    7  0.32

ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56


Consensus pattern (18 bp):   
ATTATTTGACTATAATTA
Done.