Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006798.1 Kokia drynarioides strain JFW-HI SEQ_121397, 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: 5318
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35


Found at i:4528 original size:25 final size:25

Alignment explanation


    Indices: 4433--4521  Score: 160
    Period size: 25  Copynumber: 3.6  Consensus size: 25

       4423 ATTTTGTCCA

                               *     
       4433 GGCTCGTAAGAGCGATATAATATTT
          1 GGCTCGTAAGAGCGATATACTATTT

                                     
       4458 GGCTCGTAAGAGCGATATACTATTT
          1 GGCTCGTAAGAGCGATATACTATTT

                              *      
       4483 GGCTCGTAAGAGCGATATTCTATTT
          1 GGCTCGTAAGAGCGATATACTATTT

                          
       4508 GGCTCGTAAGAGCG
          1 GGCTCGTAAGAGCG

       4522 TGATTCTGTC


Statistics
Matches: 62,  Mismatches: 2, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  25   62  1.00

ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30


Consensus pattern (25 bp):   
GGCTCGTAAGAGCGATATACTATTT

Found at i:4546 original size:26 final size:25

Alignment explanation


    Indices: 4432--4546  Score: 133
    Period size: 25  Copynumber: 4.6  Consensus size: 25

       4422 AATTTTGTCC

                               **    
       4432 AGGCTCGTAAGAGCGATATAATATT
          1 AGGCTCGTAAGAGCGATATTCTATT

            *                  *     
       4457 TGGCTCGTAAGAGCGATATACTATT
          1 AGGCTCGTAAGAGCGATATTCTATT

            *                        
       4482 TGGCTCGTAAGAGCGATATTCTATT
          1 AGGCTCGTAAGAGCGATATTCTATT

            *                      *   
       4507 TGGCTCGTAAGAGCG-TGATTCTGTCT
          1 AGGCTCGTAAGAGCGAT-ATTCTAT-T

                     *    
       4533 AGGCTCGTATGAGC
          1 AGGCTCGTAAGAGC

       4547 TAAATATTCT


Statistics
Matches: 82,  Mismatches: 6, Indels: 3
        0.90            0.07        0.03

Matches are distributed among these distances:
  24    1  0.01
  25   68  0.83
  26   13  0.16

ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31


Consensus pattern (25 bp):   
AGGCTCGTAAGAGCGATATTCTATT
Done.