Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001214.1 Kokia drynarioides strain JFW-HI SEQ_112565, 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: 26043
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:17709 original size:3 final size:3

Alignment explanation


    Indices: 17701--17740  Score: 62
    Period size: 3  Copynumber: 12.7  Consensus size: 3

      17691 GAACAAAAAG

                                                                
      17701 GAA GAA GAA TGAA GAA GAA TGAA GAA GAA GAA GAA GAA GA
          1 GAA GAA GAA -GAA GAA GAA -GAA GAA GAA GAA GAA GAA GA

      17741 TCAAGAAATC


Statistics
Matches: 35,  Mismatches: 0, Indels: 4
        0.90            0.00        0.10

Matches are distributed among these distances:
   3   29  0.83
   4    6  0.17

ACGTcount: A:0.62, C:0.00, G:0.33, T:0.05


Consensus pattern (3 bp):   
GAA

Found at i:17716 original size:10 final size:10

Alignment explanation


    Indices: 17701--17738  Score: 69
    Period size: 10  Copynumber: 3.9  Consensus size: 10

      17691 GAACAAAAAG

                      
      17701 GAAGAAGAAT
          1 GAAGAAGAAT

                      
      17711 GAAGAAGAAT
          1 GAAGAAGAAT

                      
      17721 GAAGAAGAA-
          1 GAAGAAGAAT

                     
      17730 GAAGAAGAA
          1 GAAGAAGAA

      17739 GATCAAGAAA


Statistics
Matches: 28,  Mismatches: 0, Indels: 1
        0.97            0.00        0.03

Matches are distributed among these distances:
   9    9  0.32
  10   19  0.68

ACGTcount: A:0.63, C:0.00, G:0.32, T:0.05


Consensus pattern (10 bp):   
GAAGAAGAAT

Found at i:19663 original size:10 final size:9

Alignment explanation


    Indices: 19637--19662  Score: 52
    Period size: 9  Copynumber: 2.9  Consensus size: 9

      19627 ACTCCATGCT

                     
      19637 AAATTTTTA
          1 AAATTTTTA

                     
      19646 AAATTTTTA
          1 AAATTTTTA

                    
      19655 AAATTTTT
          1 AAATTTTT

      19663 TTTTATATTT


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   17  1.00

ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58


Consensus pattern (9 bp):   
AAATTTTTA

Found at i:20254 original size:5 final size:5

Alignment explanation


    Indices: 20244--20269  Score: 52
    Period size: 5  Copynumber: 5.2  Consensus size: 5

      20234 TATAATTAAA

                                           
      20244 AAAAT AAAAT AAAAT AAAAT AAAAT A
          1 AAAAT AAAAT AAAAT AAAAT AAAAT A

      20270 TACACGCAAA


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   5   21  1.00

ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19


Consensus pattern (5 bp):   
AAAAT

Found at i:21086 original size:3 final size:3

Alignment explanation


    Indices: 21080--21117  Score: 76
    Period size: 3  Copynumber: 12.7  Consensus size: 3

      21070 TTAAAGCATA

                                                              
      21080 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
          1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA

      21118 GATATGATGA


Statistics
Matches: 35,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   35  1.00

ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32


Consensus pattern (3 bp):   
AAT

Done.