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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
B.1.177.47	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
B.1.177.47	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
B.1.1.38	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
B.1.1.38	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
B.1.1.38	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
B.1.251	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
B.1.251	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
B.1.251	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
A.2.3	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
A.2.3	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
B.1.1.144	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
B.1.1.144	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
B.1.1.144	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
B.1.1.288	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
B.1.1.288	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
B.1.1.288	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
B.1.249	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
B.1.249	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
B.1.249	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
B.1.1.378	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
B.1.1.378	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
B.1.1.378	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
B.1.97	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
B.1.97	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
B.1.97	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
B.1.9	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
B.1.9	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
B.1.9	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
B.1.439	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
B.1.439	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
B.1.439	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
B.1.1.408	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
B.1.1.408	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
B.1.1.408	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
B.1.1.256	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
B.1.1.256	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
B.1.1.256	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
Q.7 (Alpha)	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
Q.7 (Alpha)	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
Q.7 (Alpha)	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
B.1.460	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
B.1.460	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
B.1.460	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
B.1.1.262	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
B.1.1.262	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
B.1.1.262	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
EG.9	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
EG.9	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
EG.9	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
XBU	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
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