Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002916.1 Kokia drynarioides strain JFW-HI SEQ_115348, 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: 9953
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33


Found at i:9894 original size:11 final size:11

Alignment explanation


    Indices: 9878--9949  Score: 74
    Period size: 12  Copynumber: 6.3  Consensus size: 11

       9868 GAGGACCAAC

                  *   *
       9878 GAAAAATGAAG
          1 GAAAAAAGAAA

                       
       9889 GAAAAAAGAAA
          1 GAAAAAAGAAA

                         
       9900 GAAAAAAGAGAAA
          1 G-AAAAA-AGAAA

                        
       9913 GAAAGAAAGAAA
          1 GAAA-AAAGAAA

                        
       9925 GAAAGAAAGAAA
          1 GAAA-AAAGAAA

                *      
       9937 G-AAGAAGAAA
          1 GAAAAAAGAAA

               
       9947 GAA
          1 GAA

       9950 GGAG


Statistics
Matches: 54,  Mismatches: 3, Indels: 8
        0.83            0.05        0.12

Matches are distributed among these distances:
  10    7  0.13
  11   13  0.24
  12   26  0.48
  13    8  0.15

ACGTcount: A:0.74, C:0.00, G:0.25, T:0.01


Consensus pattern (11 bp):   
GAAAAAAGAAA

Found at i:9902 original size:4 final size:4

Alignment explanation


    Indices: 9889--9949  Score: 83
    Period size: 4  Copynumber: 15.8  Consensus size: 4

       9879 AAAAATGAAG

                                *                                       
       9889 GAAA -AAA GAAA GAAA AAAGA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
          1 GAAA GAAA GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA GAAA

                              
       9937 G-AA G-AA GAAA GAA
          1 GAAA GAAA GAAA GAA

       9950 GGAG


Statistics
Matches: 52,  Mismatches: 2, Indels: 6
        0.87            0.03        0.10

Matches are distributed among these distances:
   3    9  0.17
   4   40  0.77
   5    3  0.06

ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00


Consensus pattern (4 bp):   
GAAA

Done.