Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003736.1 Kokia drynarioides strain JFW-HI SEQ_116695, 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, 703

Length: 1173
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35


Found at i:783 original size:15 final size:16

Alignment explanation


    Indices: 765--794  Score: 53
    Period size: 16  Copynumber: 1.9  Consensus size: 16

        755 CTTTCCTATT

                            
        765 TTCTA-TTTCTTTTAA
          1 TTCTATTTTCTTTTAA

                           
        780 TTCTATTTTCTTTTA
          1 TTCTATTTTCTTTTA

        795 TTTTTAATTC


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  15    5  0.36
  16    9  0.64

ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70


Consensus pattern (16 bp):   
TTCTATTTTCTTTTAA

Found at i:787 original size:22 final size:22

Alignment explanation


    Indices: 760--820  Score: 72
    Period size: 22  Copynumber: 2.8  Consensus size: 22

        750 TTCTACTTTC

                                   
        760 CTATTTTCTATTT-CTTTTAATT
          1 CTATTTTCT-TTTACTTTTAATT

                         *        
        782 CTATTTTCTTTTATTTTTAATT
          1 CTATTTTCTTTTACTTTTAATT

               *         *    
        804 CT-GTTTCTTTTAGTTTT
          1 CTATTTTCTTTTACTTTT

        821 TCTTAGATAG


Statistics
Matches: 35,  Mismatches: 3, Indels: 3
        0.85            0.07        0.07

Matches are distributed among these distances:
  21   16  0.46
  22   19  0.54

ACGTcount: A:0.15, C:0.11, G:0.03, T:0.70


Consensus pattern (22 bp):   
CTATTTTCTTTTACTTTTAATT

Found at i:810 original size:21 final size:23

Alignment explanation


    Indices: 774--821  Score: 73
    Period size: 22  Copynumber: 2.2  Consensus size: 23

        764 TTTCTATTTC

                       *           
        774 TTTTAATTCTATTTTCTTTTA-T
          1 TTTTAATTCTAGTTTCTTTTAGT

                                   
        796 TTTTAATTCT-GTTTCTTTTAGT
          1 TTTTAATTCTAGTTTCTTTTAGT

                
        818 TTTT
          1 TTTT

        822 CTTAGATAGC


Statistics
Matches: 24,  Mismatches: 1, Indels: 2
        0.89            0.04        0.07

Matches are distributed among these distances:
  21    9  0.38
  22   15  0.62

ACGTcount: A:0.15, C:0.08, G:0.04, T:0.73


Consensus pattern (23 bp):   
TTTTAATTCTAGTTTCTTTTAGT

Done.