Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014284.1 Kokia drynarioides strain JFW-HI SEQ_129317, 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: 20719
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:2287 original size:12 final size:12

Alignment explanation


    Indices: 2270--2300  Score: 53
    Period size: 12  Copynumber: 2.6  Consensus size: 12

       2260 TTAACTTAAT

                        
       2270 CGAACATGTTCA
          1 CGAACATGTTCA

                        
       2282 CGAACATGTTCA
          1 CGAACATGTTCA

            *      
       2294 TGAACAT
          1 CGAACAT

       2301 ATAGTTTAAC


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  12   18  1.00

ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26


Consensus pattern (12 bp):   
CGAACATGTTCA

Found at i:20688 original size:5 final size:5

Alignment explanation


    Indices: 20680--20714  Score: 52
    Period size: 5  Copynumber: 6.6  Consensus size: 5

      20670 AAAAAAATGG

                                                     
      20680 GAAAA GAAAA GAAAA GAAAA GAAAAA GAAAGA GAA
          1 GAAAA GAAAA GAAAA GAAAA G-AAAA GAAA-A GAA

      20715 CGAGA


Statistics
Matches: 28,  Mismatches: 0, Indels: 3
        0.90            0.00        0.10

Matches are distributed among these distances:
   5   19  0.68
   6    9  0.32

ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00


Consensus pattern (5 bp):   
GAAAA

Found at i:20698 original size:15 final size:17

Alignment explanation


    Indices: 20680--20714  Score: 56
    Period size: 16  Copynumber: 2.2  Consensus size: 17

      20670 AAAAAAATGG

                             
      20680 GAAAAG-AAAAGAAA-A
          1 GAAAAGAAAAAGAAAGA

                             
      20695 GAAAAGAAAAAGAAAGA
          1 GAAAAGAAAAAGAAAGA

               
      20712 GAA
          1 GAA

      20715 CGAGA


Statistics
Matches: 18,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  15    6  0.33
  16    8  0.44
  17    4  0.22

ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00


Consensus pattern (17 bp):   
GAAAAGAAAAAGAAAGA
Done.