Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011079.1 Kokia drynarioides strain JFW-HI SEQ_126052, 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: 1949
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36


Found at i:802 original size:23 final size:23

Alignment explanation


    Indices: 778--939  Score: 212
    Period size: 23  Copynumber: 7.3  Consensus size: 23

        768 TGCTGGGCAA

                            *     *
        778 CAGAGAGCACACAAAGCGCTAAA
          1 CAGAGAGCACACAAAGTGCTAAT

                   *               
        801 CAGAGAGTACACAAA--G-T-A-
          1 CAGAGAGCACACAAAGTGCTAAT

               *                   
        819 C--TGAGCACACAAAGTGCTAAT
          1 CAGAGAGCACACAAAGTGCTAAT

                                   
        840 CAGAGAGCACACAAAGTGCTAAT
          1 CAGAGAGCACACAAAGTGCTAAT

                        *          
        863 CAGAGAGCACACGAAGTGCTAAT
          1 CAGAGAGCACACAAAGTGCTAAT

                        *          
        886 CAGAGAGCACACGAAGTGCTAAT
          1 CAGAGAGCACACAAAGTGCTAAT

                         *         
        909 CAGAGAGCACACACAGTGCTAAT
          1 CAGAGAGCACACAAAGTGCTAAT

                    
        932 CAGAGAGC
          1 CAGAGAGC

        940 GCGCTAGTGT


Statistics
Matches: 125,  Mismatches: 7, Indels: 14
        0.86            0.05        0.10

Matches are distributed among these distances:
  16   10  0.08
  18    2  0.02
  19    2  0.02
  20    2  0.02
  21    2  0.02
  23  107  0.86

ACGTcount: A:0.42, C:0.23, G:0.23, T:0.12


Consensus pattern (23 bp):   
CAGAGAGCACACAAAGTGCTAAT

Found at i:838 original size:39 final size:39

Alignment explanation


    Indices: 782--856  Score: 123
    Period size: 39  Copynumber: 1.9  Consensus size: 39

        772 GGGCAACAGA

                                      *            
        782 GAGCACACAAAGCGCTAAACAGAGAGTACACAAAGTACT
          1 GAGCACACAAAGCGCTAAACAGAGAGCACACAAAGTACT

                        *     *                 
        821 GAGCACACAAAGTGCTAATCAGAGAGCACACAAAGT
          1 GAGCACACAAAGCGCTAAACAGAGAGCACACAAAGT

        857 GCTAATCAGA


Statistics
Matches: 33,  Mismatches: 3, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  39   33  1.00

ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11


Consensus pattern (39 bp):   
GAGCACACAAAGCGCTAAACAGAGAGCACACAAAGTACT

Done.