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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.1.617.3	ORF1ab	HKU-ORF1b	TGGGGYTTTACRGGTAACCT	20	45	18778	18797	F	-7043.36	Hong Kong
B.1.617.3	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
B.1.617.3	N	HKU-N	TAATCAGACAAGGAACTGATTA	22	31.82	29145	29166	F	-18800.2	Hong Kong
B.1.617.3	N	HKU-N	CGAAGGTGTGACTTCCATG	19	52.63	29254	29236	R	-20936.4	Hong Kong
AY.109 (Delta)	ORF1ab	HKU-ORF1b	TGGGGYTTTACRGGTAACCT	20	45	18778	18797	F	-7043.36	Hong Kong
AY.109 (Delta)	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
AY.109 (Delta)	N	HKU-N	TAATCAGACAAGGAACTGATTA	22	31.82	29145	29166	F	-18800.2	Hong Kong
AY.109 (Delta)	N	HKU-N	CGAAGGTGTGACTTCCATG	19	52.63	29254	29236	R	-20936.4	Hong Kong
AY.4.2.2 (Delta)	ORF1ab	HKU-ORF1b	TGGGGYTTTACRGGTAACCT	20	45	18778	18797	F	-7043.36	Hong Kong
AY.4.2.2 (Delta)	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
AY.4.2.2 (Delta)	N	HKU-N	TAATCAGACAAGGAACTGATTA	22	31.82	29145	29166	F	-18800.2	Hong Kong
AY.4.2.2 (Delta)	N	HKU-N	CGAAGGTGTGACTTCCATG	19	52.63	29254	29236	R	-20936.4	Hong Kong
AY.4.2.3 (Delta)	ORF1ab	HKU-ORF1b	TGGGGYTTTACRGGTAACCT	20	45	18778	18797	F	-7043.36	Hong Kong
AY.4.2.3 (Delta)	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
AY.4.2.3 (Delta)	N	HKU-N	TAATCAGACAAGGAACTGATTA	22	31.82	29145	29166	F	-18800.2	Hong Kong
AY.4.2.3 (Delta)	N	HKU-N	CGAAGGTGTGACTTCCATG	19	52.63	29254	29236	R	-20936.4	Hong Kong
AY.4.8 (Delta)	ORF1ab	HKU-ORF1b	TGGGGYTTTACRGGTAACCT	20	45	18778	18797	F	-7043.36	Hong Kong
AY.4.8 (Delta)	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
AY.4.8 (Delta)	N	HKU-N	TAATCAGACAAGGAACTGATTA	22	31.82	29145	29166	F	-18800.2	Hong Kong
AY.4.8 (Delta)	N	HKU-N	CGAAGGTGTGACTTCCATG	19	52.63	29254	29236	R	-20936.4	Hong Kong
AY.4.2.1 (Delta)	N	HKU-N	TAATCAGACAAGGAACTGATTA	22	31.82	29145	29166	F	-18800.2	Hong Kong
AY.4.2.1 (Delta)	N	HKU-N	CGAAGGTGTGACTTCCATG	19	52.63	29254	29236	R	-16142.4	Hong Kong
BA.2.16	ORF1ab	HKU-ORF1b	TGGGGYTTTACRGGTAACCT	20	45	18778	18797	F	-7043.36	Hong Kong
BA.2.16	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
BA.2.16	N	HKU-N	TAATCAGACAAGGAACTGATTA	22	31.82	29145	29166	F	-14622	Hong Kong
BA.2.16	N	HKU-N	CGAAGGTGTGACTTCCATG	19	52.63	29254	29236	R	-20936.4	Hong Kong
BA.2.9.4	ORF1ab	HKU-ORF1b	TGGGGYTTTACRGGTAACCT	20	45	18778	18797	F	-7043.36	Hong Kong
BA.2.9.4	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
BA.2.9.4	N	HKU-N	TAATCAGACAAGGAACTGATTA	22	31.82	29145	29166	F	-18800.2	Hong Kong
BA.2.9.4	N	HKU-N	CGAAGGTGTGACTTCCATG	19	52.63	29254	29236	R	-20936.4	Hong Kong
BA.2.55	ORF1ab	HKU-ORF1b	TGGGGYTTTACRGGTAACCT	20	45	18778	18797	F	-7043.36	Hong Kong
BA.2.55	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
BA.2.55	N	HKU-N	TAATCAGACAAGGAACTGATTA	22	31.82	29145	29166	F	-18800.2	Hong Kong
BA.2.55	N	HKU-N	CGAAGGTGTGACTTCCATG	19	52.63	29254	29236	R	-20936.4	Hong Kong
BA.2.39	ORF1ab	HKU-ORF1b	TGGGGYTTTACRGGTAACCT	20	45	18778	18797	F	-7043.36	Hong Kong
BA.2.39	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
BA.2.39	N	HKU-N	TAATCAGACAAGGAACTGATTA	22	31.82	29145	29166	F	-18800.2	Hong Kong
BA.2.39	N	HKU-N	CGAAGGTGTGACTTCCATG	19	52.63	29254	29236	R	-20936.4	Hong Kong
BA.2.64	ORF1ab	HKU-ORF1b	TGGGGYTTTACRGGTAACCT	20	45	18778	18797	F	-7043.36	Hong Kong
BA.2.64	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
BA.2.64	N	HKU-N	TAATCAGACAAGGAACTGATTA	22	31.82	29145	29166	F	-18800.2	Hong Kong
BA.2.64	N	HKU-N	CGAAGGTGTGACTTCCATG	19	52.63	29254	29236	R	-20936.4	Hong Kong
AY.8 (Delta)	ORF1ab	HKU-ORF1b	TGGGGYTTTACRGGTAACCT	20	45	18778	18797	F	-7043.36	Hong Kong
AY.8 (Delta)	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
AY.8 (Delta)	N	HKU-N	TAATCAGACAAGGAACTGATTA	22	31.82	29145	29166	F	-18800.2	Hong Kong
AY.8 (Delta)	N	HKU-N	CGAAGGTGTGACTTCCATG	19	52.63	29254	29236	R	-20936.4	Hong Kong
AY.7 (Delta)	ORF1ab	HKU-ORF1b	TGGGGYTTTACRGGTAACCT	20	45	18778	18797	F	-7043.36	Hong Kong
AY.7 (Delta)	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
AY.7 (Delta)	N	HKU-N	TAATCAGACAAGGAACTGATTA	22	31.82	29145	29166	F	-18800.2	Hong Kong
AY.7 (Delta)	N	HKU-N	CGAAGGTGTGACTTCCATG	19	52.63	29254	29236	R	-20936.4	Hong Kong
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