Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007730.1 Kokia drynarioides strain JFW-HI SEQ_122363, 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: 6260
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30


Found at i:661 original size:22 final size:21

Alignment explanation


    Indices: 636--683  Score: 51
    Period size: 22  Copynumber: 2.2  Consensus size: 21

        626 CAAATATTGA

                   *              
        636 TTAATAATAGGATAAATTAAGG
          1 TTAATAAGAGGATAAATTAA-G

                *    *   *       
        658 TTAAAAAGATGATTAATTAAG
          1 TTAATAAGAGGATAAATTAAG

                 
        679 TTAAT
          1 TTAAT

        684 TATGAAAGTC


Statistics
Matches: 21,  Mismatches: 5, Indels: 1
        0.78            0.19        0.04

Matches are distributed among these distances:
  21    5  0.24
  22   16  0.76

ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35


Consensus pattern (21 bp):   
TTAATAAGAGGATAAATTAAG

Found at i:1576 original size:41 final size:41

Alignment explanation


    Indices: 1526--1708  Score: 240
    Period size: 41  Copynumber: 4.4  Consensus size: 41

       1516 TTGTATAAAT

                       *                             
       1526 GGAAGACTCATATCTCGAGATGAGAATGAGATTATGAATAA
          1 GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAATAA

                                           *         
       1567 GGAAGACTCATGTCTCGAGATGAGAATGAGACTATGAATAA
          1 GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAATAA

             *                *              *   * * 
       1608 GTAAGACTCATGTCTCGAAATGAGAATGAGATTTTGATTTA
          1 GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAATAA

                                       *   *    **    
       1649 GGAAGACTCATGTCTCGAGATGAGAATTAGAATATGGTTAAA
          1 GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT-AA

                    *   *     
       1691 GGAAGACTTATGACTCGA
          1 GGAAGACTCATGTCTCGA

       1709 TAGAGCATAA


Statistics
Matches: 124,  Mismatches: 17, Indels: 1
        0.87            0.12        0.01

Matches are distributed among these distances:
  41  107  0.86
  42   17  0.14

ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26


Consensus pattern (41 bp):   
GGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAATAA

Done.