Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020738.1 Corchorus olitorius cultivar O-4 contig20771, 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: 10597
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33


Found at i:5459 original size:146 final size:146

Alignment explanation


    Indices: 5192--5469  Score: 448
    Period size: 146  Copynumber: 1.9  Consensus size: 146

       5182 AATTTTGTTT

                       *                  **                     *           
       5192 TCATTCAACCATTAAATACAGCATTAAACTCCAATTGCAAGTTTGCTAAACTGTTTCTATTGAAA
          1 TCATTCAACCAATAAATACAGCATTAAACTAAAATTGCAAGTTTGCTAAACTGCTTCTATTGAAA

               *                               *        **                   
       5257 AGGTAGGCCAATCATGGTGGTGACGTCAAAGATTCTTATAGATGTGGTATGCGCTAACTTGGCCT
         66 AGGCAGGCCAATCATGGTGGTGACGTCAAAGATTCATATAGATGCCGTATGCGCTAACTTGGCCT

                            
       5322 TTAAGTGACGTCACCA
        131 TTAAGTGACGTCACCA

                                       *                                     
       5338 TCATTCAACCAATAAATACAGCATTAAGCTAAAATTGCAAGTTTGCTAAACTGCTTCTATTGAAA
          1 TCATTCAACCAATAAATACAGCATTAAACTAAAATTGCAAGTTTGCTAAACTGCTTCTATTGAAA

                    *                      *                   *             
       5403 AGGCAGGCTAATCATGGTGGTGACGTCAAAGCTTCATATAGATGCCGTATGTGCTAACTTGGCCT
         66 AGGCAGGCCAATCATGGTGGTGACGTCAAAGATTCATATAGATGCCGTATGCGCTAACTTGGCCT

              
       5468 TT
        131 TT

       5470 CAGTAACCGA


Statistics
Matches: 120,  Mismatches: 12, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
 146  120  1.00

ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31


Consensus pattern (146 bp):   
TCATTCAACCAATAAATACAGCATTAAACTAAAATTGCAAGTTTGCTAAACTGCTTCTATTGAAA
AGGCAGGCCAATCATGGTGGTGACGTCAAAGATTCATATAGATGCCGTATGCGCTAACTTGGCCT
TTAAGTGACGTCACCA

Found at i:8812 original size:2 final size:2

Alignment explanation


    Indices: 8805--8830  Score: 52
    Period size: 2  Copynumber: 13.0  Consensus size: 2

       8795 GGATGCTTAA

                                                  
       8805 AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT

       8831 CTAAATCAAG


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   24  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Done.