Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009217.1 Kokia drynarioides strain JFW-HI SEQ_123922, 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: 7026
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34


Found at i:932 original size:9 final size:9

Alignment explanation


    Indices: 918--943  Score: 52
    Period size: 9  Copynumber: 2.9  Consensus size: 9

        908 ATCCTTAAAA

                     
        918 ACAAATAAT
          1 ACAAATAAT

                     
        927 ACAAATAAT
          1 ACAAATAAT

                    
        936 ACAAATAA
          1 ACAAATAA

        944 ACTCCCAAAT


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:0.69, C:0.12, G:0.00, T:0.19


Consensus pattern (9 bp):   
ACAAATAAT

Found at i:3379 original size:16 final size:17

Alignment explanation


    Indices: 3348--3380  Score: 50
    Period size: 17  Copynumber: 2.0  Consensus size: 17

       3338 TTTCACATAT

                     *       
       3348 AAATGTAATGATTAAAA
          1 AAATGTAATAATTAAAA

                             
       3365 AAATGTAA-AATTAAAA
          1 AAATGTAATAATTAAAA

       3381 TAGTTATAAA


Statistics
Matches: 15,  Mismatches: 1, Indels: 1
        0.88            0.06        0.06

Matches are distributed among these distances:
  16    7  0.47
  17    8  0.53

ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27


Consensus pattern (17 bp):   
AAATGTAATAATTAAAA

Found at i:4332 original size:19 final size:19

Alignment explanation


    Indices: 4265--4332  Score: 66
    Period size: 19  Copynumber: 3.5  Consensus size: 19

       4255 TTAAGATTAT

                     *         
       4265 ATTTAAAAAAAAATATATA
          1 ATTTAAAAATAAATATATA

                       ** *     
       4284 ATTTAAAAA-ATTTCTATTA
          1 ATTTAAAAATAAATATA-TA

                       *        
       4303 ATTTAGAAAATGAATATATA
          1 ATTTA-AAAATAAATATATA

                      
       4323 ATTTAAAAAT
          1 ATTTAAAAAT

       4333 TATAATGAAG


Statistics
Matches: 39,  Mismatches: 7, Indels: 6
        0.75            0.13        0.12

Matches are distributed among these distances:
  18    4  0.10
  19   21  0.54
  20   11  0.28
  21    3  0.08

ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38


Consensus pattern (19 bp):   
ATTTAAAAATAAATATATA
Done.