Table 1. Sets of nested PCR, Invader probes, and synthesized standard oligonucleotides.

	name	nucleotide sequences (5'-3')	nucleotide position for the NS5A region a
outer primers
	Y93_F	rgaygtytgggaytggatatgya	18–40
	Y93_R	yggtcatgccygtyacrtart	383–403
inner primers
	Y93_Fi	ttcaaracytggctycrrtcya	55–76
	Y93_Ri	ayctccacgtaytcctcrgcrg	341–362
invader probe set
	Invader oligo	gtgcaggggccccgtggtrtt	271–290
	Y93 wild probe b	CGCGCCGAGGahgcgttratgggraayg	254–271
	Y93 mutant probe c	ATGACGTGGCAGACghgcgttratgggraay	255–271
synthesized standard nucleotides
	std_YY	ttcaagacctggctccagtccagtgcaggggccccgtggtgtatgcgttgatggggaatggtgcaggggccccgtggtgtatgcgttgatggggaatgctgctgaggagtacgtggaggt
	std_YH	ttcaagacctggctccagtccagtgcaggggccccgtggtgtatgcgttgatggggaatggtgcaggggccccgtggtgtgtgcgttgatggggaatgctgctgaggagtacgtggaggt
	std_HH	ttcaagacctggctccagtccagtgcaggggccccgtggtgtgtgcgttgatggggaatggtgcaggggccccgtggtgtgtgcgttgatggggaatgctgctgaggagtacgtggaggt

Uppercase letters represent the 5' flap of probe.

^aHCV-KT9 (accession number AB435162) was used as a reference.

^blinked with FRET probe including Yakima-Yellow (Y-Y) as fluorescent reporter.

^clinked with FRET probe including 6-carboxyfluorescein amino hexy (FAM) as fluorescent reporter.