Browse

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.1.432	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
B.1.332	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-21969.5	Japan
B.1.1.391	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-21969.5	Japan
B.1.432	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
B.1.1.391	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
B.1.1.391	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
B.1.332	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
B.1.432	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-21969.5	Japan
B.1.1.388	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
B.1.1.388	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
B.1.332	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
AY.3.4 (Delta)	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-21969.5	Japan
B.1.1.388	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-21969.5	Japan
AY.3.4 (Delta)	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
AY.3.4 (Delta)	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
P.6	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
P.6	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
B.1.501	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
P.6	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-21969.5	Japan
B.1.1.176	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-21969.5	Japan
B.1.1.176	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
B.1.1.48	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
B.1.501	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
B.1.1.176	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-17340.4	Thailand
B.1.1.48	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
B.1.108	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-21969.5	Japan
B.1.1.48	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-21969.5	Japan
B.1.112	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-2082.55	Thailand
B.1.1.157	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-21969.5	Japan
B.1.501	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-21969.5	Japan
B.1.1.157	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
B.1.112	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
B.1.1.157	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
B.1.108	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
B.1.112	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-1981.59	Japan
B.1.274	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
B.1.108	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
B.1.274	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
B.1.203	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-21969.5	Japan
B.1.203	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
B.1.274	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-21969.5	Japan
B.1.203	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
B.1.515	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
B.1.515	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
B.1.515	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-21969.5	Japan
AY.25.1.1 (Delta)	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-21969.5	Japan
AY.25.1.1 (Delta)	N	Corman-N	CACATTGGCACCCGCAATC	19	57.89	28706	28724	F	-23131.5	Germany
B.1.1.72	ORF1ab	NIID WH-1 F509R854	CTCGAACTGCACCTCATGG	19	57.89	492	510	F	-21969.5	Japan
AY.25.1.1 (Delta)	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
B.1.258.23	N	NIH-TH_N	CCCCACTGCGTTCTCCATT	19	57.89	28376	28358	R	-22126.5	Thailand
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