Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004257.1 Kokia drynarioides strain JFW-HI SEQ_117542, 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: 8842
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31

Warning! 43 characters in sequence are not A, C, G, or T


Found at i:2966 original size:33 final size:33

Alignment explanation


    Indices: 2923--2994  Score: 135
    Period size: 33  Copynumber: 2.2  Consensus size: 33

       2913 TAAGATGCTT

                 *                           
       2923 CAACACACTCGAATTCACATCCTCTTATATTGG
          1 CAACAAACTCGAATTCACATCCTCTTATATTGG

                                             
       2956 CAACAAACTCGAATTCACATCCTCTTATATTGG
          1 CAACAAACTCGAATTCACATCCTCTTATATTGG

                  
       2989 CAACAA
          1 CAACAA

       2995 TGCACATACC


Statistics
Matches: 38,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  33   38  1.00

ACGTcount: A:0.35, C:0.29, G:0.08, T:0.28


Consensus pattern (33 bp):   
CAACAAACTCGAATTCACATCCTCTTATATTGG

Found at i:6014 original size:30 final size:30

Alignment explanation


    Indices: 5980--6059  Score: 133
    Period size: 30  Copynumber: 2.7  Consensus size: 30

       5970 ACGGTTTTGC

                                     *    
       5980 GAAGGTGGATAATACTGCGGCTCCGGTTGT
          1 GAAGGTGGATAATACTGCGGCTCCGATTGT

                   *         *            
       6010 GAAGGTGAATAATACTGTGGCTCCGATTGT
          1 GAAGGTGGATAATACTGCGGCTCCGATTGT

                                
       6040 GAAGGTGGATAATACTGCGG
          1 GAAGGTGGATAATACTGCGG

       6060 GGAGGTATAG


Statistics
Matches: 45,  Mismatches: 5, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  30   45  1.00

ACGTcount: A:0.25, C:0.14, G:0.35, T:0.26


Consensus pattern (30 bp):   
GAAGGTGGATAATACTGCGGCTCCGATTGT

Found at i:8042 original size:26 final size:27

Alignment explanation


    Indices: 8011--8083  Score: 76
    Period size: 28  Copynumber: 2.6  Consensus size: 27

       8001 ATGCATATTT

                              * *      
       8011 AATTATTTATATTTCAT-CATATAATA
          1 AATTATTTATATTTCATAAAAATAATA

                         *  *            
       8037 AATTATTAATATAATTAATAAAAATAATA
          1 AATTATT--TATATTTCATAAAAATAATA

                              
       8066 AATTATTTAATATTTCAT
          1 AATTATTT-ATATTTCAT

       8084 TTTTATTTTA


Statistics
Matches: 37,  Mismatches: 6, Indels: 6
        0.76            0.12        0.12

Matches are distributed among these distances:
  26    7  0.19
  27    1  0.03
  28   15  0.41
  29   14  0.38

ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47


Consensus pattern (27 bp):   
AATTATTTATATTTCATAAAAATAATA
Done.