Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003471.1 Kokia drynarioides strain JFW-HI SEQ_116271, 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: 14610
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33


Found at i:14488 original size:4 final size:4

Alignment explanation


    Indices: 14479--14565  Score: 65
    Period size: 4  Copynumber: 22.2  Consensus size: 4

      14469 AAATAAACGG

                                                 *      *   *           
      14479 GAAA GAAA GAAA GGAAA GAAA GAAA GAAA GGAA GAAG GAGA GAAA -AAA
          1 GAAA GAAA GAAA -GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA

                         *     *                *  *            
      14527 -AAA G-AA GAAG GAGAG GAAA GAAA G-AA TAAG GAAA GAAA G
          1 GAAA GAAA GAAA GA-AA GAAA GAAA GAAA GAAA GAAA GAAA G

      14566 GTAATGTGTT


Statistics
Matches: 66,  Mismatches: 12, Indels: 10
        0.75            0.14        0.11

Matches are distributed among these distances:
   3   11  0.17
   4   47  0.71
   5    8  0.12

ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01


Consensus pattern (4 bp):   
GAAA

Found at i:14503 original size:21 final size:23

Alignment explanation


    Indices: 14479--14565  Score: 89
    Period size: 21  Copynumber: 4.0  Consensus size: 23

      14469 AAATAAACGG

                                   
      14479 GAAAGAAAG-A-AAGGAAAGAAA
          1 GAAAGAAAGAAGAAGGAAAGAAA

                              *     
      14500 GAAAGAAAGGAAGAAGGAGAGAAA
          1 GAAAGAAA-GAAGAAGGAAAGAAA

                                  *
      14524 -AAA-AAAGAAGAAGG--AG-AG
          1 GAAAGAAAGAAGAAGGAAAGAAA

                       *           
      14542 GAAAGAAAGAATAAGGAAAGAAA
          1 GAAAGAAAGAAGAAGGAAAGAAA

             
      14565 G
          1 G

      14566 GTAATGTGTT


Statistics
Matches: 54,  Mismatches: 4, Indels: 14
        0.75            0.06        0.19

Matches are distributed among these distances:
  18    1  0.02
  19    5  0.09
  20   10  0.19
  21   16  0.30
  22    6  0.11
  23    6  0.11
  24   10  0.19

ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01


Consensus pattern (23 bp):   
GAAAGAAAGAAGAAGGAAAGAAA
Done.