Table 1 Peptides of SARS-CoV-2 used in this study.

From: Clonal diversity predicts persistence of SARS-CoV-2 epitope-specific T-cell response

#	AA sequence	Peptide name	Length	Protein	Position, aa	Allele	Binding score	Binding rank	Reference
1	ALSKGVHFV	ALS	9	ORF3a	72–80	A 02:01	0.7979	0.1068	^34,36,37
2	ALWEIQQVV	ALW	9	ORF1ab	4099–4107	A 02:01	0.8387	0.0523	³³
3	AQFAPSASAF	AQF	10	N	305–314	B 40:01	0.3137	1.247	⁵¹
3	AQFAPSASAF	AQF	10	N	305–314	B 44:03	0.3113	0.8978	⁵¹
4	ATSRTLSYYK	ATS	10	M	171–190	A 03:01	0.7239	0.0566	³³
5	FTSDYYQLY	FTS	9	ORF3a	207–215	C 07:02	0.4888	0.1246	^33,36,37
6	KCYGVSPTK	KCY	9	S	378–386	A 03:01	0.4513	0.9738	^33,37
7	KLWAQCVQL	KLW	9	ORF1ab	27–35	A 02:01	0.7972	0.1083	³³
8	KTFPPTEPK	KTF	9	N	361–369	A 03:01	0.7260	0.0548	^33,36,37
8	KTFPPTEPK	KTF	9	N	361–369	C 07:02	0.1164	8.268	^33,36,37
9	LLLDRLNQL	LLLD	9	N	222–230	A 02:01	0.7823	0.1398	³⁶
9	LLLDRLNQL	LLLD	9	N	222–230	C 07:02	0.2790	1.0954	³⁶
10	LLLLDRLNQL	LLL	10	N	221–230	A 02:01	0.5693	1.1237	³⁴
11	LLYDANYFL	LLY	9	ORF3a	139–147	A 02:01	0.9193	0.0071	^33,36
12	MEVTPSGTWL	MEV	10	N	322–331	B 40:01	0.6745	0.1078	³⁴
12	MEVTPSGTWL	MEV	10	N	322–331	B 44:03	0.5156	0.1862	³⁴
13	NRFLYIIKL	NRF	9	M	43–51	B 27:05	0.56461	0.368	^34,37
14	QLRARSVSPK	QLR	10	ORF7a	76–85	A 03:01	0.6563	0.1639	³⁴
15	RLQSLQTYV	RLQ	9	S	1000–1008	A 02:01	0.7709	0.1610	³⁸
16	SELVIGAVIL	SEL	10	M	136–145	B 40:01	0.7090	0.0713	³⁴
16	SELVIGAVIL	SEL	10	M	136–145	B 44:03	0.4388	0.3593	³⁴
17	VVFLHVTYV	VVH	9	S	1060–1068	C 07:02	0.2415	1.665	^36,37
18	VYFLQSINF	VYQ	9	ORF3a	112–120	C 07:02	0.4441	0.1981	^34,37
19	VYIGDPAQL	VYI	9	ORF1ab	5840–5848	C 07:02	0.4812	0.1400	^34,36,37
20	YLQPRTFLL	YLQ	9	S	269–277	A 02:01	0.8653	0.0227	^33,36,38
20	YLQPRTFLL	YLQ	9	S	269–277	C 07:02	0.5666	0.0523	^33,36,38

HLA binding score and rank were predicted by NetMHCpan 4.1. M Membrane, N Nucleocapsid, S Spike. Combinations of peptides and restricting HLA alleles selected for rapid in vitro antigen-specific expansion are highlighted in bold.

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