Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002662.1 Kokia drynarioides strain JFW-HI SEQ_114913, 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: 2010
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39


Found at i:104 original size:19 final size:19

Alignment explanation


    Indices: 59--105  Score: 67
    Period size: 19  Copynumber: 2.5  Consensus size: 19

         49 AATTTTAATA

                            *  
         59 TTTCTTAAACATATATGAG
          1 TTTCTTAAACATATATAAG

                              *
         78 TTTCTTAAACATATATAAT
          1 TTTCTTAAACATATATAAG

               *     
         97 TTTTTTAAA
          1 TTTCTTAAA

        106 TTTAAAATAT


Statistics
Matches: 25,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  19   25  1.00

ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49


Consensus pattern (19 bp):   
TTTCTTAAACATATATAAG

Found at i:794 original size:17 final size:17

Alignment explanation


    Indices: 753--841  Score: 72
    Period size: 18  Copynumber: 5.1  Consensus size: 17

        743 AATTATCACA

                  *          
        753 ATTTTTTAATTATAATT
          1 ATTTTTAAATTATAATT

            *  *        *     
        770 GTAATTTAAATTCTAATT
          1 AT-TTTTAAATTATAATT

                        *  *  
        788 ATTTTTAAATGTGTACTT
          1 ATTTTTAAAT-TATAATT

               *             
        806 -TTATTAAATTATAATT
          1 ATTTTTAAATTATAATT

                          *   
        822 ATTTTTAAATGTATGATT
          1 ATTTTTAAAT-TATAATT

              
        840 AT
          1 AT

        842 AAAAAAAAAA


Statistics
Matches: 55,  Mismatches: 13, Indels: 7
        0.73            0.17        0.09

Matches are distributed among these distances:
  16    5  0.09
  17   24  0.44
  18   26  0.47

ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56


Consensus pattern (17 bp):   
ATTTTTAAATTATAATT
Done.