Table 1.

HIV-1 multiplex primers and probes

Multiplex assay	Primer/probe	Dye, quencher	Sequence 5′ to 3′	NC_001802 coordinates downloaded 27June19
assay1	3′pol F		AGAGATCCACTTTGGAAAGGACCAGCAAA	4466–4494
assay1	3′pol probe	FAM, BHQ	TGGAAAGGTGAAGG	4502–4515
assay1	3′pol R		CACTACTTTTATGTCACTATTATCTTGTATTACTACTGC	4517–4555
assay1	tat F		TTTGTTTCATAACAAAAGGCTTAGGCATCTCC	5483–5514
assay1	tat probe	FAM, BHQ	ATGGCAGGAAGAAG	5516–5529
assay1	tat R		TGAGGAGCTCTTCGTCGCTGTCTCC	5531–5555
	5′ pol F		TCCTTTAGCTTCCCTCAGATCACTCT	1787–1812
assay2	5′ pol probe	FAM, BHQ	TTGGCAACGACC	1813–1824
	5′ pol R		TACTGTATCATCTGCTCCTGTATCTAATAGAGCTTC	1859–1894
	gag F		GACTAGCGGAGGCTAGAAGGAGAGA	310–334
	gag probe	HEX, BHQ	ATGGGTGCGAGA	336–347
	gag R		CTAATTCTCCCCCGCTTAATAYTGACG	345–375
assay1&2	env F		TGTTCCTTGGGTTCTTGGGAGCAGCAGG	7323–7350
assay1&2	env probe	HEX, BHQ	AGCACTATGGG	7352–7362
assay1&2	env R		GCACTATACCAGACAATAATTGTCTGGCCTGTACC	7384–7418

Bold text indicates locked nucleic acids.