Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015681.1 Corchorus olitorius cultivar O-4 contig15714, 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: 8706
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32


Found at i:5514 original size:2 final size:2

Alignment explanation


    Indices: 5507--5541  Score: 61
    Period size: 2  Copynumber: 17.5  Consensus size: 2

       5497 CAACAACAAT

                           *                                    
       5507 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

       5542 TAATTATTTG


Statistics
Matches: 31,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   2   31  1.00

ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49


Consensus pattern (2 bp):   
TA

Found at i:7864 original size:42 final size:42

Alignment explanation


    Indices: 7805--7885  Score: 144
    Period size: 42  Copynumber: 1.9  Consensus size: 42

       7795 TAAGGATCAG

                                                      
       7805 GATTTGAGTTGAGTATTTCTTAATTTACAAAGAATTTTCTAT
          1 GATTTGAGTTGAGTATTTCTTAATTTACAAAGAATTTTCTAT

                       *                 *         
       7847 GATTTGAGTTGGGTATTTCTTAATTTACAGAGAATTTTC
          1 GATTTGAGTTGAGTATTTCTTAATTTACAAAGAATTTTC

       7886 AAGAATTAGC


Statistics
Matches: 37,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  42   37  1.00

ACGTcount: A:0.28, C:0.07, G:0.17, T:0.47


Consensus pattern (42 bp):   
GATTTGAGTTGAGTATTTCTTAATTTACAAAGAATTTTCTAT

Found at i:8664 original size:2 final size:2

Alignment explanation


    Indices: 8657--8705  Score: 80
    Period size: 2  Copynumber: 24.5  Consensus size: 2

       8647 ACTATACATA

                                                                      *  *
       8657 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

                      
       8699 AT AT AT A
          1 AT AT AT A

       8706 C


Statistics
Matches: 45,  Mismatches: 2, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
   2   45  1.00

ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45


Consensus pattern (2 bp):   
AT

Done.