TABLE 2.

Oligonucleotide sequences for TaqMan primers and probes

Variant	Rolea	Length (no. of oligonucleotides)	Tmaxb	Conc.c (nM)	Sequence	Positiond
AZ-EF	F	21	60	900	GAATCCTGATAGCACGGAGGG	278-298
	R	20	60	900	CTTCCACATCGGTGCGTTTT	333-352
	P	29	70	250	CAAGATCACCCCAAATTCTCTTGTGGACA	303-331
AZ-SK	F	20	60	900	GTCGGCTGCTATATGGGTCAG	943-963
	R	19	60	900	ATCTCATGCGGAGCACAGG	995-1013
	P	29	70	250	TGAGGTCCTTGAATGCAACGGTAATAGCC	965-993
CASK	F	23	60	300	TCATGATGAATGGAGGTCGACTC	1226-1247
	R	25	60	300	TTGATGATTGGAACTGACTGAGACA	1296-1272
	P	21	70	200	AGAGATCGCATATACGGAGAT	1249-1270
NCSK	F	21	60	300	GGTGAAACCAGAAGTCCGGAA	1189-1209
	R	25	60	300	CCGTATATGCGATCTCTTTAGTCGA	1266-1242
	P	21	69	250	CTGTCTATACTCGAATCATGA	1211-1227
RAC	F	21	59	300	TGGTGAAACCAGGAGTCCAGA	1188-1208
	R	19	60	300	ATCTTTTGAGTCGGCCCCC	1255-1235
	P	19	70	250	CGGTCTATACTCGGATCAT	1211-1227
SCSK	F	26	60	300	ATGATGAAGACTATTTCTCCGGTGAG	1169-1191
	R	20	60	300	GTCGGCCTCCATTCATCATG	1246-1226
	P	16	70	250	CGGAGGCAGTCTATAC	1202-1219

^aF, forward PCR primer; R, reverse PCR primer; P, TaqMan probe.

^bT_m calculated by using Primer Express.

^cOptimal final concentration.

^dNucleotide position relative to the Pasteur virus N gene (GenBank accession number A492968).