Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014137.1 Kokia drynarioides strain JFW-HI SEQ_129170, 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: 1976
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34

Warning! 10 characters in sequence are not A, C, G, or T


Found at i:702 original size:23 final size:23

Alignment explanation


    Indices: 676--817  Score: 198
    Period size: 23  Copynumber: 6.2  Consensus size: 23

        666 ACACTAGCGC

                                   
        676 GCTCTCTGATTAGCACTGTGTGT
          1 GCTCTCTGATTAGCACTGTGTGT

                    *          *    
        699 GCTCTCTGTTTAGCAC-GTCTCGT
          1 GCTCTCTGATTAGCACTGTGT-GT

                            *    * 
        722 GCTCTCTGATTAGCACCGTGTAT
          1 GCTCTCTGATTAGCACTGTGTGT

                    *               
        745 GCTCTCTGTTTAGCACT-TCGTGT
          1 GCTCTCTGATTAGCACTGT-GTGT

                                   
        768 GCTCTCTGATTAGCACTGTGTGT
          1 GCTCTCTGATTAGCACTGTGTGT

                             *     
        791 GCTCTCTGATTAGCACTTTGTGT
          1 GCTCTCTGATTAGCACTGTGTGT

                
        814 GCTC
          1 GCTC

        818 AGTACTTTGT


Statistics
Matches: 105,  Mismatches: 10, Indels: 8
        0.85            0.08        0.07

Matches are distributed among these distances:
  22    4  0.04
  23   97  0.92
  24    4  0.04

ACGTcount: A:0.12, C:0.25, G:0.23, T:0.39


Consensus pattern (23 bp):   
GCTCTCTGATTAGCACTGTGTGT

Found at i:882 original size:22 final size:23

Alignment explanation


    Indices: 818--885  Score: 102
    Period size: 23  Copynumber: 3.0  Consensus size: 23

        808 TTGTGTGCTC

                                   
        818 AGTACTTTGTGTACTCTCTGTTT
          1 AGTACTTTGTGTACTCTCTGTTT

              *         *          
        841 AGCACTTTGTGTGCTCTCTGTTT
          1 AGTACTTTGTGTACTCTCTGTTT

                   *               
        864 AGTACTTCG-GTACTCTCTGTTT
          1 AGTACTTTGTGTACTCTCTGTTT

        886 GTTCTATTTA


Statistics
Matches: 40,  Mismatches: 5, Indels: 1
        0.87            0.11        0.02

Matches are distributed among these distances:
  22   12  0.30
  23   28  0.70

ACGTcount: A:0.12, C:0.21, G:0.19, T:0.49


Consensus pattern (23 bp):   
AGTACTTTGTGTACTCTCTGTTT

Found at i:1737 original size:23 final size:23

Alignment explanation


    Indices: 1711--1783  Score: 137
    Period size: 23  Copynumber: 3.2  Consensus size: 23

       1701 ACACTAGTGC

                                   
       1711 GCTCTCTGATTAGCACTGTGTGT
          1 GCTCTCTGATTAGCACTGTGTGT

                                   
       1734 GCTCTCTGATTAGCACTGTGTGT
          1 GCTCTCTGATTAGCACTGTGTGT

                             *     
       1757 GCTCTCTGATTAGCACTTTGTGT
          1 GCTCTCTGATTAGCACTGTGTGT

                
       1780 GCTC
          1 GCTC

       1784 AGTACTTTGT


Statistics
Matches: 49,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  23   49  1.00

ACGTcount: A:0.12, C:0.23, G:0.25, T:0.40


Consensus pattern (23 bp):   
GCTCTCTGATTAGCACTGTGTGT

Found at i:1848 original size:22 final size:23

Alignment explanation


    Indices: 1784--1851  Score: 102
    Period size: 23  Copynumber: 3.0  Consensus size: 23

       1774 TTGTGTGCTC

                                   
       1784 AGTACTTTGTGTACTCTCTGTTT
          1 AGTACTTTGTGTACTCTCTGTTT

              *         *          
       1807 AGCACTTTGTGTGCTCTCTGTTT
          1 AGTACTTTGTGTACTCTCTGTTT

                   *               
       1830 AGTACTTCG-GTACTCTCTGTTT
          1 AGTACTTTGTGTACTCTCTGTTT

       1852 GTTCTATTTA


Statistics
Matches: 40,  Mismatches: 5, Indels: 1
        0.87            0.11        0.02

Matches are distributed among these distances:
  22   12  0.30
  23   28  0.70

ACGTcount: A:0.12, C:0.21, G:0.19, T:0.49


Consensus pattern (23 bp):   
AGTACTTTGTGTACTCTCTGTTT
Done.