Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003554.1 Kokia drynarioides strain JFW-HI SEQ_116413, 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: 11426
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36


Found at i:5989 original size:20 final size:20

Alignment explanation


    Indices: 5964--6017  Score: 58
    Period size: 20  Copynumber: 2.7  Consensus size: 20

       5954 TTAATTAAAA

                             *  
       5964 AAATTTATAATTTTTTTTAT
          1 AAATTTATAATTTTTTTAAT

                     *           
       5984 AAATTTTATGA-TTTTTTAAT
          1 AAA-TTTATAATTTTTTTAAT

                           
       6004 AAA-TTATATATTTT
          1 AAATTTATA-ATTTT

       6018 AAAAGGATTT


Statistics
Matches: 28,  Mismatches: 3, Indels: 6
        0.76            0.08        0.16

Matches are distributed among these distances:
  18    4  0.14
  19    1  0.04
  20   17  0.61
  21    6  0.21

ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61


Consensus pattern (20 bp):   
AAATTTATAATTTTTTTAAT

Found at i:6000 original size:19 final size:19

Alignment explanation


    Indices: 5975--6017  Score: 59
    Period size: 20  Copynumber: 2.2  Consensus size: 19

       5965 AATTTATAAT

                  *       *     
       5975 TTTTTTTATAAATTTTATGA
          1 TTTTTTAATAAATTATAT-A

                               
       5995 TTTTTTAATAAATTATATA
          1 TTTTTTAATAAATTATATA

                
       6014 TTTT
          1 TTTT

       6018 AAAAGGATTT


Statistics
Matches: 21,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  19    5  0.24
  20   16  0.76

ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65


Consensus pattern (19 bp):   
TTTTTTAATAAATTATATA
Done.