Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006581.1 Kokia drynarioides strain JFW-HI SEQ_121168, 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: 5461
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32


Found at i:1020 original size:15 final size:15

Alignment explanation


    Indices: 1000--1049  Score: 50
    Period size: 15  Copynumber: 3.3  Consensus size: 15

        990 TTAGGAGAAG

                           
       1000 GGCATTTCACCGTGA
          1 GGCATTTCACCGTGA

                      * *   
       1015 GGCATTT-A-GGAGAA
          1 GGCATTTCACCGTG-A

                            
       1029 GGGCATTTCACCGTGA
          1 -GGCATTTCACCGTGA

                 
       1045 GGCAT
          1 GGCAT

       1050 CCTCTATTCA


Statistics
Matches: 27,  Mismatches: 4, Indels: 8
        0.69            0.10        0.21

Matches are distributed among these distances:
  13    2  0.07
  14    2  0.07
  15   19  0.70
  16    2  0.07
  17    2  0.07

ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24


Consensus pattern (15 bp):   
GGCATTTCACCGTGA

Found at i:1026 original size:30 final size:30

Alignment explanation


    Indices: 990--1049  Score: 120
    Period size: 30  Copynumber: 2.0  Consensus size: 30

        980 TTCCACTGTG

                                          
        990 TTAGGAGAAGGGCATTTCACCGTGAGGCAT
          1 TTAGGAGAAGGGCATTTCACCGTGAGGCAT

                                          
       1020 TTAGGAGAAGGGCATTTCACCGTGAGGCAT
          1 TTAGGAGAAGGGCATTTCACCGTGAGGCAT

       1050 CCTCTATTCA


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  30   30  1.00

ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23


Consensus pattern (30 bp):   
TTAGGAGAAGGGCATTTCACCGTGAGGCAT
Done.