Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011468.1 Kokia drynarioides strain JFW-HI SEQ_126452, 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: 5610
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:882 original size:19 final size:19

Alignment explanation


    Indices: 821--882  Score: 72
    Period size: 19  Copynumber: 3.3  Consensus size: 19

        811 AAAGTTACAA

                                
        821 AAAAATTTAAAATAATTT-T
          1 AAAAATTTAAAA-AATTTAT

            *      *    *      
        840 TAAAATTCAAAATATTTAT
          1 AAAAATTTAAAAAATTTAT

                    *          
        859 AAAAATTTTAAAAATTTAT
          1 AAAAATTTAAAAAATTTAT

                 
        878 AAAAA
          1 AAAAA

        883 AATTAAACTT


Statistics
Matches: 35,  Mismatches: 7, Indels: 2
        0.80            0.16        0.05

Matches are distributed among these distances:
  18    4  0.11
  19   31  0.89

ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39


Consensus pattern (19 bp):   
AAAAATTTAAAAAATTTAT

Found at i:888 original size:19 final size:19

Alignment explanation


    Indices: 841--912  Score: 63
    Period size: 19  Copynumber: 3.6  Consensus size: 19

        831 AATAATTTTT

                                 
        841 AAAATTCAAAATATTTATAAA
          1 AAAATT-AAAA-ATTTATAAA

              **               
        862 AATTTTAAAAATTTATAAA
          1 AAAATTAAAAATTTATAAA

                     **   *    
        881 AAAATTAAACTTTTTTAAA
          1 AAAATTAAAAATTTATAAA

                         
        900 AAATATATAAAAA
          1 AAA-AT-TAAAAA

        913 AAAGTTAAAA


Statistics
Matches: 40,  Mismatches: 9, Indels: 4
        0.75            0.17        0.08

Matches are distributed among these distances:
  19   26  0.65
  20    6  0.15
  21    8  0.20

ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36


Consensus pattern (19 bp):   
AAAATTAAAAATTTATAAA

Found at i:941 original size:30 final size:28

Alignment explanation


    Indices: 860--934  Score: 89
    Period size: 30  Copynumber: 2.6  Consensus size: 28

        850 AATATTTATA

                                        
        860 AAAATTTTAAAAATTTAT-AAAAAAATT
          1 AAAATTTTAAAAATTTATAAAAAAAATT

                 *           *              
        887 AAACTTTTTTAAAAAATATATAAAAAAAAGTT
          1 AAA--ATTTT-AAAAATTTATAAAAAAAA-TT

                            
        919 AAAATTTTAAAAATTT
          1 AAAATTTTAAAAATTT

        935 TCTAAAATAA


Statistics
Matches: 39,  Mismatches: 4, Indels: 8
        0.76            0.08        0.16

Matches are distributed among these distances:
  27    3  0.08
  29   11  0.28
  30   13  0.33
  31    7  0.18
  32    5  0.13

ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37


Consensus pattern (28 bp):   
AAAATTTTAAAAATTTATAAAAAAAATT
Done.