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Prediction results retrieved after performance evaluation of WHO approved 34 primers to estimate their binding affinities for 3892 SARS-CoV-2 variants.

Lineage (WHO label)	Target Gene	Primer Name	Primer Sequence	Primer Length	Primer GC Content (%)	Start Position	End Position	Primer Direction	ΔG (cal)	Primer first used
BA.1.1.12	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
BA.1.1.12	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
BA.1.1.12	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
BA.2.87	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
BA.2.87	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
BA.2.87	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
BA.5.2.33	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
BA.5.2.33	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
BA.5.2.33	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
BA.2.46	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
BA.2.46	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
BA.2.46	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
AY.58 (Delta)	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
AY.58 (Delta)	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
AY.58 (Delta)	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
BA.2.26	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
BA.2.26	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
BA.2.26	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
BA.2.15	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
BA.2.15	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
BA.2.15	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
BA.2.21	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
BA.2.21	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
BA.2.21	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
BA.2.31	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
BA.2.31	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
BA.2.31	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
CP.1.1	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
CP.1.1	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
CP.1.1	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
XBG	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
XBG	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
XBG	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
AY.98 (Delta)	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
AY.98 (Delta)	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
AY.98 (Delta)	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
BA.2.32	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
BA.2.32	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-17471.2	Singapore
BA.2.32	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
BA.1.1.13	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
BA.1.1.13	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
BA.1.1.13	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
EF.2	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
EF.2	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
EF.2	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
XP	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
XP	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
XP	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
DN.1	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
DN.1	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
Lineage (WHO label)	Target Gene	Primer Name	Primer Sequence	Primer Length	Primer GC Content (%)	Start Position	End Position	Primer Direction	ΔG (cal)	Primer first used