TABLE 1.

Summary of RSV primers used in this study

Target	Primer	Sequence (5′ to 3′)	Strand	Positiona	Tm (°C)b	% with 0 MMc	% with 0–3 MMd
RSVA	rsvas	ACGCGAAAAAATGCGTACAAC	Plus	1	57.13	18.28	18.97
RSVA	rsva52	TGTGCATGTTATTACAAGTAGTGATATTTG	Plus	266	56.96	95.52	98.97
RSVA	rsva50	GCATGTTATTACAAGTAGTGATATTTGCC	Plus	269	57.51	95.17	98.97
RSVA	rsva117	ATAAGAGATGCCATGGTTGGTTTAAGA	Plus	2849	58.44	95.86	100.00
RSVA	rsva86	AAGAGATGCCATGGTTGGTTTAAGA	Plus	2851	58.43	95.86	100.00
RSVA	rsva175	TTCTCTTAAACCAACCATGGCATCT	Minus	2878	58.43	95.86	100.00
RSVA	rsva39	CTTCTCTTAAACCAACCATGGCATC	Minus	2879	58.22	95.86	100.00
RSVA	rsva1820	GCAGCATATGCAGCAACAATC	Plus	5207	56.95	93.79	98.97
RSVA	rsva1914	CAGCATATGCAGCAACAATCCAA	Plus	5208	58.32	93.10	98.62
RSVA	rsva1644	CAACTCCATTGTTATTTGCCCC	Minus	5674	56.05	89.66	100.00
RSVA	rsva1688	CAACTCCATTGTTATTTGCCCCA	Minus	5674	57.54	89.66	100.00
RSVA	rsva704	ATGTGTTGCCATGAGCAAACTC	Plus	7893	57.95	91.03	100.00
RSVA	rsva731	GCCATGAGCAAACTCCTCACT	Plus	7900	58.49	71.38	99.31
RSVA	rsva341	TTGTCAGGTAGTATCATTATTTTTGGCATG	Minus	8196	58.53	98.97	99.31
RSVA	rsva312	AGGATATTTGTCAGGTAGTATCATTATTTTTGG	Minus	8203	58.08	98.97	100.00
RSVA	rsva374	AAGAGAACTCAGTGTAGGTAGAATGTTT	Plus	10360	57.89	96.55	100.00
RSVA	rsva350	AGAACTCAGTGTAGGTAGAATGTTTG	Plus	10363	56.64	96.55	100.00
RSVA	rsva497	GCTTGATTGAATTTGCTGAGATCTGT	Minus	10620	58.44	95.52	100.00
RSVA	rsva539	ATGCTTGATTGAATTTGCTGAGATCTG	Minus	10622	58.68	95.52	100.00
RSVA	rsva1220	GATTGGGTGTATGCATCTATAGATAACAAG	Plus	12386	57.94	95.86	99.31
RSVA	rsva1232	ATTGGGTGTATGCATCTATAGATAACAAG	Plus	12387	57.17	95.86	99.31
RSVA	rsva364	TTATATATCCCTCTCCCCAATCTTTTTCAAA	Minus	13070	58.32	96.21	100.00
RSVA	rsva385	ATCAGTTATATATCCCTCTCCCCAATCTT	Minus	13075	58.46	96.21	100.00
RSVA	rsva4066	GTTGTATAACAAACTACCTGTGATTTTAATCAG	Minus	14983	57.95	88.97	99.31
RSVA	rsva5632	TAACTATAATTGAATACAGTGTTAGTGTGTAGC	Minus	15063	57.95	29.31	95.17
RSVA	rsvae	ACGAGAAAAAAAGTGTCAAAAACTAATA	Minus	15223	55.09	17.59	18.28
RSVB	rsvbs	ACGCGAAAAAATGCGTACTACA	Plus	1	57.56	43.14	43.14
RSVB	rsvb3	TGGGGCAAATAAGAATTTGATAAGTGC	Plus	44	58.58	48.04	54.90
RSVB	rsvb1021	GGGGCAAATAAGAATTTGATAAGTGCTATT	Plus	45	58.75	47.06	54.90
RSVB	rsvb33	ATATTAGGAATGCTCCATACATTAGTAGTTG	Plus	2777	57.21	88.24	100.00
RSVB	rsvb71	TAAGAGATGCTATGGTTGGTCTAAGAGA	Plus	2841	58.69	90.20	100.00
RSVB	rsvb50	AGTCTTGCCATAGCCTCTAACCT	Minus	2937	58.57	93.14	100.00
RSVB	rsvb95	CCATTTTTTCGCTTTCCTCATTCCTA	Minus	2963	58.14	95.10	100.00
RSVB	rsvb7884	AGTATATGTGGCAACAATCAACTCTG	Plus	5202	57.48	81.37	100.00
RSVB	rsvb7996	TATGTGGCAACAATCAACTCTGC	Plus	5206	57.70	81.37	100.00
RSVB	rsvb7442	GATGTGGAGGGCTCGGATG	Minus	5548	57.92	75.49	100.00
RSVB	rsvb7423	CCATGGTTATTTGCCCCAGATTTAAT	Minus	5662	57.87	77.45	99.02
RSVB	rsvb3762	AGAGGTCATTGCTTGAATGGTAGAA	Plus	7642	57.98	93.14	100.00
RSVB	rsvb3712	AAGAGCATAGACACTTTGTCTGAAATAAG	Plus	7762	57.89	77.45	100.00
RSVB	rsvb3652	GCTTATGGTTATGCTTTTGTGGATATCTAAT	Minus	8130	58.41	89.22	98.04
RSVB	rsvb3660	GCAATCATGCTTTCACTTGAGATCAA	Minus	8247	58.67	64.71	98.04
RSVB	rsvb32	AAGAAGAGTACTAGAGTATTACTTGAGAGATAA	Plus	10236	57.04	90.20	100.00
RSVB	rsvb52	AAATCCAAATCTTAGCAGAGAAAATGATAG	Plus	10412	56.70	96.08	100.00
RSVB	rsvb47	CCATGCAGTTCATCTAATACATCACTG	Minus	10673	58.13	90.20	99.02
RSVB	rsvb168	TGCATGTCTATATGTACATATTATTGTGACAAG	Minus	10746	58.25	91.18	99.02
RSVB	rsvb651	ATCGACATTGTGTTTCAAAATTGCATAAG	Plus	12640	58.40	81.37	100.00
RSVB	rsvb165	TTCAAAATTGCATAAGTTTTGGTCTTAGC	Plus	12653	58.06	88.24	100.00
RSVB	rsvb27	TTAATGAACATATGATCAGTTATATACCCCTCT	Minus	13088	57.88	79.41	100.00
RSVB	rsvb60	AACTTAAAACTGTGACAGCCTTTTATTCT	Minus	13325	58.08	89.22	100.00
RSVB	rsvb1199	ATAGTACACTACCTGTTATTTTAATCAGCTTCT	Minus	14977	58.56	88.24	100.00
RSVB	rsvb989	TATAGTACACTACCTGTTATTTTAATCAGCTTC	Minus	14978	57.57	88.24	100.00
RSVB	rsvbe	ACGAGAAAAAAAGTGTCAAAAACTAATGT	Minus	15216	57.47	5.88	6.86

^aPrimer mapping position in RSVA (GenBank accession number FJ948820) or RSVB (GenBank accession number JQ582843).

^bT_m (melting temperature) calculated using a Python script that approximates the method of Breslauer et al. (51).

^cPercentage of full-length RSVA genomes (n = 290) or full-length RSVB genomes (n = 102) showing perfect homology to primer, i.e., 0 mismatches (MM).

^dPercentage of full-length RSVA genomes (n = 290) or full-length RSVB genomes (n = 102) showing the target sequence for the primer with up to 3 mismatches.