Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016417.1 Corchorus olitorius cultivar O-4 contig16450, 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: 7332
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32


Found at i:4657 original size:21 final size:21

Alignment explanation


    Indices: 4628--4739  Score: 172
    Period size: 21  Copynumber: 5.3  Consensus size: 21

       4618 CTTAGGCAAT

                         *       
       4628 TCCAATGAGCTTGAAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

              *                  
       4649 TCTAATGAGCTTGGAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

                                 
       4670 TCCAATGAGCTTGGAACCTTC
          1 TCCAATGAGCTTGGAACCTTC

              *           *      
       4691 TCGAATGAGCTTGGGACCTTC
          1 TCCAATGAGCTTGGAACCTTC

                                  
       4712 TCCAATGAGCTTGGAA-CTTGC
          1 TCCAATGAGCTTGGAACCTT-C

                   
       4733 TCCAATG
          1 TCCAATG

       4740 GACTCCTAGC


Statistics
Matches: 83,  Mismatches: 7, Indels: 2
        0.90            0.08        0.02

Matches are distributed among these distances:
  20    3  0.04
  21   80  0.96

ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29


Consensus pattern (21 bp):   
TCCAATGAGCTTGGAACCTTC

Found at i:6718 original size:9 final size:9

Alignment explanation


    Indices: 6704--6728  Score: 50
    Period size: 9  Copynumber: 2.8  Consensus size: 9

       6694 GTTGGCCAAT

                     
       6704 CTTTGATGG
          1 CTTTGATGG

                     
       6713 CTTTGATGG
          1 CTTTGATGG

                   
       6722 CTTTGAT
          1 CTTTGAT

       6729 CTTCTCCTCA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   16  1.00

ACGTcount: A:0.12, C:0.12, G:0.28, T:0.48


Consensus pattern (9 bp):   
CTTTGATGG
Done.