Table 1.

SARS-CoV-2 RT-qPCR allelic discrimination primers and probes.

Target	Primer/probe	Primer sequence	Product length	Probe	Sequence	Reference
N1	F	GACCCCAAAATCAGCGAAAT	71	Universal	FAM-ACCCCGCATTACGTTTGGTGGACC-MGB	CDC, 2020a
	R	TCTGGTTACTGCCAGTTGAATCTG
N501Y	F	CGGTAGCACACCTTGTAATGG	144	WT	FAM-ACCCACTAATGGTGTTG-MGB	This study
	R	GTTGCTGGTGCATGTAGAAGTTC		Variant	FAM-ACCCACTTATGGTGTTG-MGB
Sdel69–70	F	CATTCAACTCAGGACTTGTTCTTACC	110	WT	FAM-ATGCTATACATGTCTCTG-MGB	This study
	R	GGTAGGACAGGGTTATCAAACCTC		Variant	FAM-TCCATGCTATCTCTG-MGB
N D3L	F	TTAGAGTATCATGACGTTCGTGTTG	94	WT	FAM-AATGTCTGATAATGGACC-MGB	This study
	R	GGTGCATTTCGCTGATTTTGG		Variant	FAM-AATGTCTCTAAATGGACC-MGB

^ahttps://www.cdc.gov/coronavirus/2019-ncov/lab/rt-pcr-panel-primer-probes.html