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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.1.466	N	SC2	CTGCAGATTTGGATGATTTCTCC	23	43.48	29463	29485	F	-23117.2	US
B.1.466	N	SC2	CCTTGTGTGGTCTGCATGAGTTTAG	25	48	29554	29530	R	-26482.3	US
L.4	N	CN-CDC-N	GGGGAACTTCTCCTGCTAGAAT	22	50	28881	28902	F	-17926.1	China
L.4	N	CN-CDC-N	CAGACATTTTGCTCTCAAGCTG	22	45.45	28979	28958	R	-23140.2	China
L.4	N	NIH-TH_N	CGTTTGGTGGACCCTCAGAT	20	55	28320	28339	F	-22019.3	Thailand
L.4	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
L.4	N	US-CDC-N-1	GACCCCAAAATCAGCGAAAT	20	45	28287	28306	F	-20656.7	US
L.4	N	US-CDC-N-1	TCTGGTTACTGCCAGTTGAATCTG	24	45.83	28358	28335	R	-25148.4	US
L.4	N	US-CDC-N-2	TTACAAACATTGGCCGCAAA	20	40	29164	29183	F	-21115.5	US
L.4	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
L.4	N	US-CDC-N-3	GGGAGCCTTGAATACACCAAAA	22	45.45	28681	28702	F	-22824.1	US
L.4	N	US-CDC-N-3	TGTAGCACGATTGCAGCATTG	21	47.62	28752	28732	R	-23779.6	US
L.4	N	Young-N	CTCAGTCCAAGATGGTATTTCT	22	40.91	28583	28604	F	-21953.9	Singapore
L.4	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
L.4	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
L.4	N	Corman-N	GAGGAACGAGAAGAGGCTTG	20	55	28833	28814	R	-22527.5	Germany
L.4	N	Won-N	CAATGCTGCAATCGTGCTAC	20	50	28732	28751	F	-22388.1	South Korea
L.4	N	Won-N	GTTGCGACTACGTGATGAGG	20	55	28849	28830	R	-23088.1	South Korea
L.4	N	NIID-JP-N	AAATTTTGGGGACCAGGAAC	20	45	29125	29144	F	-20489.8	Japan
L.4	N	NIID-JP-N	TGGCAGCTGTGTAGGTCAAC	20	55	29282	29263	R	-20522.3	Japan
L.4	N	HKU-N	TAATCAGACAAGGAACTGATTA	22	31.82	29145	29166	F	-18800.2	Hong Kong
L.4	N	HKU-N	CGAAGGTGTGACTTCCATG	19	52.63	29254	29236	R	-20936.4	Hong Kong
L.4	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
L.4	N	Chan-N	TTGGATCTTTGTCATCCAATTTG	23	34.78	29306	29284	R	-21867.4	China
L.4	N	SC2	CTGCAGATTTGGATGATTTCTCC	23	43.48	29463	29485	F	-23117.2	US
L.4	N	SC2	CCTTGTGTGGTCTGCATGAGTTTAG	25	48	29554	29530	R	-26482.3	US
B.1.1.339	N	CN-CDC-N	GGGGAACTTCTCCTGCTAGAAT	22	50	28881	28902	F	-17926.1	China
B.1.1.339	N	CN-CDC-N	CAGACATTTTGCTCTCAAGCTG	22	45.45	28979	28958	R	-23140.2	China
B.1.1.339	N	NIH-TH_N	CGTTTGGTGGACCCTCAGAT	20	55	28320	28339	F	-22019.3	Thailand
B.1.1.339	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
B.1.1.339	N	US-CDC-N-1	GACCCCAAAATCAGCGAAAT	20	45	28287	28306	F	-20656.7	US
B.1.1.339	N	US-CDC-N-1	TCTGGTTACTGCCAGTTGAATCTG	24	45.83	28358	28335	R	-25148.4	US
B.1.1.339	N	US-CDC-N-2	TTACAAACATTGGCCGCAAA	20	40	29164	29183	F	-21115.5	US
B.1.1.339	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
B.1.1.339	N	US-CDC-N-3	GGGAGCCTTGAATACACCAAAA	22	45.45	28681	28702	F	-22824.1	US
B.1.1.339	N	US-CDC-N-3	TGTAGCACGATTGCAGCATTG	21	47.62	28752	28732	R	-23779.6	US
B.1.1.339	N	Young-N	CTCAGTCCAAGATGGTATTTCT	22	40.91	28583	28604	F	-21953.9	Singapore
B.1.1.339	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
B.1.1.339	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
B.1.1.339	N	Corman-N	GAGGAACGAGAAGAGGCTTG	20	55	28833	28814	R	-22527.5	Germany
B.1.1.339	N	Won-N	CAATGCTGCAATCGTGCTAC	20	50	28732	28751	F	-22388.1	South Korea
B.1.1.339	N	Won-N	GTTGCGACTACGTGATGAGG	20	55	28849	28830	R	-23088.1	South Korea
B.1.1.339	N	NIID-JP-N	AAATTTTGGGGACCAGGAAC	20	45	29125	29144	F	-20489.8	Japan
B.1.1.339	N	NIID-JP-N	TGGCAGCTGTGTAGGTCAAC	20	55	29282	29263	R	-20522.3	Japan
B.1.1.339	N	HKU-N	TAATCAGACAAGGAACTGATTA	22	31.82	29145	29166	F	-18800.2	Hong Kong
B.1.1.339	N	HKU-N	CGAAGGTGTGACTTCCATG	19	52.63	29254	29236	R	-20936.4	Hong Kong
B.1.1.339	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
B.1.1.339	N	Chan-N	TTGGATCTTTGTCATCCAATTTG	23	34.78	29306	29284	R	-21867.4	China
B.1.1.339	N	SC2	CTGCAGATTTGGATGATTTCTCC	23	43.48	29463	29485	F	-23117.2	US
B.1.1.339	N	SC2	CCTTGTGTGGTCTGCATGAGTTTAG	25	48	29554	29530	R	-26482.3	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