Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008873.1 Kokia drynarioides strain JFW-HI SEQ_123559, 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: 4599
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31


Found at i:4475 original size:18 final size:19

Alignment explanation


    Indices: 4453--4507  Score: 58
    Period size: 19  Copynumber: 2.8  Consensus size: 19

       4443 TAAAAAAAAC

                 *             
       4453 AAAAAATAATAAATTTTAG
          1 AAAAATTAATAAATTTTAG

                    *          *
       4472 AAAAATTATTAAATTTTAAT
          1 AAAAATTAATAAATTTT-AG

                             
       4492 AAAAATTTAA-AAATTT
          1 AAAAA-TTAATAAATTT

       4508 AAAAATTATA


Statistics
Matches: 30,  Mismatches: 4, Indels: 3
        0.81            0.11        0.08

Matches are distributed among these distances:
  19   15  0.50
  20   12  0.40
  21    3  0.10

ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38


Consensus pattern (19 bp):   
AAAAATTAATAAATTTTAG

Found at i:4532 original size:38 final size:39

Alignment explanation


    Indices: 4485--4562  Score: 95
    Period size: 39  Copynumber: 2.0  Consensus size: 39

       4475 AATTATTAAA

                          *      * *           *   
       4485 TTTTAATAAAAAT-TTAAAAATTTAAAAATTATAATTTT
          1 TTTTAATAAAAATCGTAAAAAATAAAAAATTATAAATTT

                *                          *       
       4523 TTTTTATAAAAATCGTAAAAAATAAAAAATTGTAAATTT
          1 TTTTAATAAAAATCGTAAAAAATAAAAAATTATAAATTT

             
       4562 T
          1 T

       4563 ATAGAAATCA


Statistics
Matches: 33,  Mismatches: 6, Indels: 1
        0.82            0.15        0.03

Matches are distributed among these distances:
  38   12  0.36
  39   21  0.64

ACGTcount: A:0.53, C:0.01, G:0.03, T:0.44


Consensus pattern (39 bp):   
TTTTAATAAAAATCGTAAAAAATAAAAAATTATAAATTT
Done.