Skip to main content
. 2018 Dec 13;23(50):1800228. doi: 10.2807/1560-7917.ES.2018.23.50.1800228

Table 3. Summary of Nanopore mapping data on chikungunya and dengue virus positive samples by real-time reverse transcription-PCR, United Kingdom, 2017a (nā€‰=ā€‰8 samples).

Sample Ct value Total
reads
% reads mapping to appropriate viral sequence % 20x
coverage
20x genome
length (nt)
% 10x coverage Referenceb Reference size (nt) Max de novo contig (nt)
CHIKV 1 14.7 267,171 65.1 98.57 11,658 99.2 CHIKV 11,826 5,263
CHIKV 3 21.4 1,891,028 85.1 99.76 11,798 99.9 CHIKV 11,826 10,793
CHIKV 4 22.7 216,493 11.6 94.11 11,130 97.2 CHIKV 11,826 4,256
CHIKV 9 30.08 3,481,358 4.08 100 11,826 100 CHIKV 11,826 9,860
DENV 1 16.3 284,622 71.3 99.9 10,719 99.9 DENV 1 10,735 8,281
DENV 2 16.9 203,700 72.1 99.6 10,692 99.6 DENV 1 10,735 10,157
DENV 6 21.2 1,377,721 71.1 99.9 10,634 99.9 DENV 4 10,649 7,877
DENV 11 28.7 1,111,566 2.9 95.3 10,226 96.3 DENV 1 10,735 4,699

CHIKV: chikungunya virus; Ct: cycle threshold; DENV: dengue virus.

a The Nanopore data presented in the table were obtained in 2017 on samples that had been collected and found positive for chikungunya or dengue virus by real-time reverse transcription-PCR in 2016.

b For DENV the serotype is also indicated.

HHS Vulnerability Disclosure