Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018469.1 Corchorus olitorius cultivar O-4 contig18502, 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: 5938
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34


Found at i:65 original size:45 final size:45

Alignment explanation


    Indices: 1--97  Score: 169
    Period size: 45  Copynumber: 2.2  Consensus size: 45

                                                      *  
          1 AATATTACACTCCTCCATCTCTAGGTAATTCATCAAAATAAAGCT
          1 AATATTACACTCCTCCATCTCTAGGTAATTCATCAAAATAAACCT

                                                          
         46 AATATT-CTACTCCTCCATCTCTAGGTAATTCATCAAAATAAACCT
          1 AATATTAC-ACTCCTCCATCTCTAGGTAATTCATCAAAATAAACCT

                   
         91 AATATTA
          1 AATATTA

         98 ATTGTTGCTT


Statistics
Matches: 49,  Mismatches: 1, Indels: 3
        0.92            0.02        0.06

Matches are distributed among these distances:
  44    1  0.02
  45   48  0.98

ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33


Consensus pattern (45 bp):   
AATATTACACTCCTCCATCTCTAGGTAATTCATCAAAATAAACCT

Found at i:4879 original size:20 final size:21

Alignment explanation


    Indices: 4843--4881  Score: 62
    Period size: 20  Copynumber: 1.9  Consensus size: 21

       4833 GTTAAATTTC

                                 
       4843 ATTATATGAACAATAAATATA
          1 ATTATATGAACAATAAATATA

                      *        
       4864 ATTATAT-AAGAATAAATA
          1 ATTATATGAACAATAAATA

       4882 CTAAATCAGT


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  20   10  0.59
  21    7  0.41

ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33


Consensus pattern (21 bp):   
ATTATATGAACAATAAATATA
Done.