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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.1.177.33	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-21400.8	Japan
B.1.177.33	S	NIID WH-1 Seq F24383R24865	CAAAGACACCTTCACGAGG	19	52.63	24848	24830	R	-20677.6	Japan
B.1.1.326	S	Young-S	TATACATGTCTCTGGGACCA	20	45	21763	21782	F	-19121.1	Singapore
B.1.1.326	S	Young-S	ATCCAGCCTCTTATTATGTTAGAC	24	37.5	21876	21853	R	-22070.7	Singapore
B.1.1.326	S	Chan-S	CCTACTAAATTAAATGATCTCTGCTTTACT	30	30	22712	22741	F	-27219.1	China
B.1.379	S	WuhanCoV-spk1	TTGGCAAAATTCAAGACTCACTTT	24	33.33	24354	24377	F	-23366.4	Japan
B.1.379	S	WuhanCoV-spk1	TGTGGTTCATAAAAATTCCTTTGTG	25	32	24900	24876	R	-23857.7	Japan
B.1.379	S	NIID WH-1 F24381R24873	TCAAGACTCACTTTCTTCCAC	21	42.86	24364	24384	F	-20966	Japan
B.1.379	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
B.1.379	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-21400.8	Japan
B.1.379	S	NIID WH-1 Seq F24383R24865	CAAAGACACCTTCACGAGG	19	52.63	24848	24830	R	-20677.6	Japan
B.1.1.240	S	Young-S	TATACATGTCTCTGGGACCA	20	45	21763	21782	F	-19121.1	Singapore
B.1.1.240	S	Young-S	ATCCAGCCTCTTATTATGTTAGAC	24	37.5	21876	21853	R	-22070.7	Singapore
B.1.1.240	S	Chan-S	CCTACTAAATTAAATGATCTCTGCTTTACT	30	30	22712	22741	F	-27219.1	China
B.1.1.240	S	Chan-S	CAAGCTATAACGCAGCCTGTA	21	47.62	22869	22849	R	-22073.5	China
B.1.1.240	S	Won-S	CTACATGCACCAGCAACTGT	20	50	23114	23133	F	-22142.8	South Korea
B.1.1.240	S	Won-S	CACCTGTGCCTGTTAAACCA	20	50	23213	23194	R	-21965.9	South Korea
B.1.1.240	S	WuhanCoV-spk1	TTGGCAAAATTCAAGACTCACTTT	24	33.33	24354	24377	F	-23366.4	Japan
B.1.1.240	S	WuhanCoV-spk1	TGTGGTTCATAAAAATTCCTTTGTG	25	32	24900	24876	R	-23857.7	Japan
B.1.1.240	S	NIID WH-1 F24381R24873	TCAAGACTCACTTTCTTCCAC	21	42.86	24364	24384	F	-20966	Japan
B.1.1.240	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
B.1.1.240	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-21400.8	Japan
B.1.1.240	S	NIID WH-1 Seq F24383R24865	CAAAGACACCTTCACGAGG	19	52.63	24848	24830	R	-20677.6	Japan
B.1.240.2	S	Young-S	TATACATGTCTCTGGGACCA	20	45	21763	21782	F	-19121.1	Singapore
B.1.240.2	S	Young-S	ATCCAGCCTCTTATTATGTTAGAC	24	37.5	21876	21853	R	-22070.7	Singapore
B.1.240.2	S	Chan-S	CCTACTAAATTAAATGATCTCTGCTTTACT	30	30	22712	22741	F	-27219.1	China
B.1.240.2	S	Chan-S	CAAGCTATAACGCAGCCTGTA	21	47.62	22869	22849	R	-22073.5	China
B.1.240.2	S	Won-S	CTACATGCACCAGCAACTGT	20	50	23114	23133	F	-22142.8	South Korea
B.1.240.2	S	Won-S	CACCTGTGCCTGTTAAACCA	20	50	23213	23194	R	-21965.9	South Korea
B.1.240.2	S	WuhanCoV-spk1	TTGGCAAAATTCAAGACTCACTTT	24	33.33	24354	24377	F	-23366.4	Japan
B.1.240.2	S	WuhanCoV-spk1	TGTGGTTCATAAAAATTCCTTTGTG	25	32	24900	24876	R	-23857.7	Japan
B.1.240.2	S	NIID WH-1 F24381R24873	TCAAGACTCACTTTCTTCCAC	21	42.86	24364	24384	F	-20966	Japan
B.1.240.2	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
B.1.240.2	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-21400.8	Japan
B.1.240.2	S	NIID WH-1 Seq F24383R24865	CAAAGACACCTTCACGAGG	19	52.63	24848	24830	R	-20677.6	Japan
AY.121.1 (Delta)	S	Young-S	TATACATGTCTCTGGGACCA	20	45	21763	21782	F	-3872.72	Singapore
AY.121.1 (Delta)	S	Young-S	ATCCAGCCTCTTATTATGTTAGAC	24	37.5	21876	21853	R	-2999.47	Singapore
AY.121.1 (Delta)	S	Chan-S	CCTACTAAATTAAATGATCTCTGCTTTACT	30	30	22712	22741	F	-27219.1	China
AY.121.1 (Delta)	S	Chan-S	CAAGCTATAACGCAGCCTGTA	21	47.62	22869	22849	R	-22073.5	China
AY.121.1 (Delta)	S	Won-S	CTACATGCACCAGCAACTGT	20	50	23114	23133	F	-2729.83	South Korea
AY.121.1 (Delta)	S	Won-S	CACCTGTGCCTGTTAAACCA	20	50	23213	23194	R	-21965.9	South Korea
AY.121.1 (Delta)	S	WuhanCoV-spk1	TTGGCAAAATTCAAGACTCACTTT	24	33.33	24354	24377	F	-23366.4	Japan
AY.121.1 (Delta)	S	WuhanCoV-spk1	TGTGGTTCATAAAAATTCCTTTGTG	25	32	24900	24876	R	-23857.7	Japan
AY.121.1 (Delta)	S	NIID WH-1 F24381R24873	TCAAGACTCACTTTCTTCCAC	21	42.86	24364	24384	F	-20966	Japan
AY.121.1 (Delta)	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
AY.121.1 (Delta)	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-21400.8	Japan
AY.121.1 (Delta)	S	NIID WH-1 Seq F24383R24865	CAAAGACACCTTCACGAGG	19	52.63	24848	24830	R	-20677.6	Japan
B.1.1.46	S	Young-S	TATACATGTCTCTGGGACCA	20	45	21763	21782	F	-19121.1	Singapore
B.1.1.46	S	Young-S	ATCCAGCCTCTTATTATGTTAGAC	24	37.5	21876	21853	R	-22070.7	Singapore
B.1.1.46	S	Chan-S	CCTACTAAATTAAATGATCTCTGCTTTACT	30	30	22712	22741	F	-27219.1	China
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