Table 1.

Sequences of the hydrolysis probes and primers for dPCR and qPCR

Target	Probe sequences	Forward/reverse primers
RdRp	5′-[6-FAM]-CCGTAGCTGGTGTCTCTATCTGT-[SFCQ]-3′	5′-TGCAAAGAATAGAGCTCGCA-3′
		5′-CTCCTCTAGTGGCGGCTATT-3′
RdRp*	5′-[6-FAM]-CAGGTGGAACCTCATCAGGAGATGC-[SFCQ]-3′	5′-GTGARATGGTCATGTGTGGCGG-3′
(Germany Charité)		5′-CARATGTTAAASACACTATTAGCATA-3′
E	5′-[6-FAM]-TCTTGCTTTCGTGGTATTCTTGCT-[SFCQ]-3′	5′-CGGAAGAGACAGGTACGTTAA-3′
	5′-[HEX]-TCTTGCTTTCGTGGTATTCTTGCT-[SFCQ]-3′	5′-GCAGTAAGGATGGCTAGTGT-3′
E*	5′-[6-FAM]-ACACTAGCCATCCTTACTGCGCTTCG-[SFCQ]-3′	5′-ACAGGTACGTTAATAGTTAATAGCGT-3′
(Germany Charité)		5′-ATATTGCAGCAGTACGCACACA-3′
N	5′-[6-FAM]-CACCAATAGCAGTCCAGATGACC-[SFCQ]-3′	5′-ACTCAACATGGCAAGGAAGA-3′
		5′-GCTCTTCGGTAGTAGCCAAT-3′
N*	5′-[6-FAM]-TTGCTGCTGCTTGACAGATT-[SFCQ]-3′	5′-GGGGAACTTCTCCTGCTAGAAT-3′
(China CDC)		5′-CAGACATTTTGCTCTCAAGCTG-3′
N*	5′-[6-FAM]-AGAT/ZEN™/	5′-GACCCCAAAATCAGCGAAAT-3′
(US CDC N1)	ACCCCGCATTACGTTTGGTGGACC-[IBFQ]-3′	5′-TCTGGTTACTGCCAGTTGAATCTG-3′
S	5′-[SFC-V]-TCAGACAAATCGCTCCAGGGCA-[SFCQ]-3′	5′-TCTGCTTTACTAATGTCTATGC-3′
		5′-GCTATAACGCAGCCTGTAAA-3′

FAM, fluorescein; HEX, hexachloro-fluorescein. *Assay published by the WHO [15]