TABLE 1.

Sequencing considerations^a

Amplicon no.	Primer IDb	Primer sequence (5′–3′)	Location in reference sequence	Size (bp)	Annealing temp (°C)
1	1FCOVID	GCC TTC CCA GGT AAC AAA CCA ACC	15–1931	1,916	58
	2RCOVID	GAG CAG TTT CAA GAG TGC GGG AG
2	3FCOVID	GCA TTT GCA TCA GAG GCT GCT CG	1868–4148	2,280	56
	4RCOVID	CAC CCT CTT GAA CAA CAT CAC CCA C
3	5FCOVID	GGC AAT CTT CAT CCA GAT TCT GCC	4046–6371	2,325	58
	6RCOVID	TTC CCT GCG CGT CCT CTG ACT TC
4	7FCOVID	GTA CCA AAC CAA CCA TAT CCA AAC GC	6008–8372	2,364	56
	8RCOVID	CCT GCG CAT TAA TAT GAC GCG CAC
5	9FCOVID	CAG CAG CTC GGC AAG GGT TTG TTG	8169–10209	2,040	58
	10RCOVID	GGG TTA AGC ATG TCT TCA GAG GTG C
6	11FCOVID	CCA CAA ACC TCT ATC ACC TCA GCT G	10022–12261	2,239	56
	12RCOVID	CGT TGC ATG GCT GCA TCA CG
7	13FCOVID	GGG CAA CCT TAC AAG CTA TAG CC	12078–14333	2,255	55
	14RCOVID	CAA TTT GGG TGG TAT GTC TGA TCC C
8	15FCOVID	CTG CAG AGT CAC ATG TTG ACA CTG	14195–16411	2,216	55
	16RCOVID	CTG TGA CAT CAC AAC CTG GAG C
9	17FCOVID	CAC ACC GCA TAC AGT CTT ACA GGC	16215–18466	2,251	58
	18RCOVID	CAG GCG GTG GTT TAG CAC TAA C
10	19FCOVID	CGA TGT CGA GGG GTG TCA TGC TAC	18306–20099	1,793	57
	20RCOVID	GCT TGT TTG GGA CCT ACA GAT GG
11	21FCOVID	GGG TGT GGA CAT TGC TGC TAA TAC	19845–22446	2,601	56
	22RCOVID	GGG TCA AGT GCA CAG TCT ACA GC
12	23FCOVID	GTT GGA CAG CTG GTG CTG CA	22332–24239	1,907	58
	24RCOVID	CAG CAC CTG CAC CAA AGG TCC AAC
13	25FCOVID	GCC ACC TTT GCT CAC AGA TGA AAT G	24145–26353	2,208	55
	26RCOVID	GCG CAG TAA GGA TGG CTA GTG
14	27FCOVID	CGA CGA CGA CTA CTA GCG TGC	26192–28375	2,183	60
	28RCOVID	CCC ACT GCG TTC TCC ATT CTG G
15	29FCOVID	GCA CCC CGC ATT ACG TTT GGT G	28307–29798	1,491	60
	30RCOVID	CTT CCA TAT AGG CAG CTC TCC CTA GC

^aDescription of multiple sets of primers developed in this study to conduct the NGS amplicon sequencing described in this study. The location of the primers corresponds to the nucleotide positions in the reference sequence of SARS-CoV-2 under the accession no. NC045512.2.

^bID, identification.