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
LE.2	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-16797.4	Japan
JN.1.7.7	ORF1ab	CN-CDC-ORF1ab	CCCTGTGGGTTTTACACTTAA	21	42.86	13342	13362	F	-1313	China
JN.1.7.7	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-6910.96	Hong Kong
JN.1.7.7	S	Chan-S	CAAGCTATAACGCAGCCTGTA	21	47.62	22869	22849	R	-22073.5	China
JN.1.7.7	E	Won-E	TTCGGAAGAGACAGGTACGTT	21	47.62	26259	26279	F	-18253.7	South Korea
JN.1.7.7	N	US-CDC-N-3	TGTAGCACGATTGCAGCATTG	21	47.62	28752	28732	R	-23779.6	US
JN.1.7.7	ORF1ab	NIID WH-1 F501R913	TTCGGATGCTCGAACTGCACC	21	57.14	484	504	F	-24908.9	Japan
JN.1.7.7	S	NIID WH-1 F24381R24873	TCAAGACTCACTTTCTTCCAC	21	42.86	24364	24384	F	-16362.7	Japan
JN.1.7.7	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-16797.4	Japan
JN.1.49.2	ORF1ab	CN-CDC-ORF1ab	CCCTGTGGGTTTTACACTTAA	21	42.86	13342	13362	F	-20516.2	China
JN.1.49.2	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-14207.5	Hong Kong
JN.1.49.2	S	Chan-S	CAAGCTATAACGCAGCCTGTA	21	47.62	22869	22849	R	-22073.5	China
JN.1.49.2	E	Won-E	TTCGGAAGAGACAGGTACGTT	21	47.62	26259	26279	F	-18253.7	South Korea
JN.1.49.2	N	US-CDC-N-3	TGTAGCACGATTGCAGCATTG	21	47.62	28752	28732	R	-23779.6	US
JN.1.49.2	ORF1ab	NIID WH-1 F501R913	TTCGGATGCTCGAACTGCACC	21	57.14	484	504	F	-24908.9	Japan
JN.1.49.2	S	NIID WH-1 F24381R24873	TCAAGACTCACTTTCTTCCAC	21	42.86	24364	24384	F	-16362.7	Japan
JN.1.49.2	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-16797.4	Japan
JN.3.2.1	ORF1ab	CN-CDC-ORF1ab	CCCTGTGGGTTTTACACTTAA	21	42.86	13342	13362	F	-20516.2	China
JN.3.2.1	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
JN.3.2.1	S	Chan-S	CAAGCTATAACGCAGCCTGTA	21	47.62	22869	22849	R	-22073.5	China
JN.3.2.1	E	Won-E	TTCGGAAGAGACAGGTACGTT	21	47.62	26259	26279	F	-18253.7	South Korea
JN.3.2.1	N	US-CDC-N-3	TGTAGCACGATTGCAGCATTG	21	47.62	28752	28732	R	-23779.6	US
JN.3.2.1	ORF1ab	NIID WH-1 F501R913	TTCGGATGCTCGAACTGCACC	21	57.14	484	504	F	-24908.9	Japan
JN.3.2.1	S	NIID WH-1 F24381R24873	TCAAGACTCACTTTCTTCCAC	21	42.86	24364	24384	F	-16362.7	Japan
JN.3.2.1	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-16797.4	Japan
LB.1.6	ORF1ab	CN-CDC-ORF1ab	CCCTGTGGGTTTTACACTTAA	21	42.86	13342	13362	F	-20516.2	China
LB.1.6	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-6910.96	Hong Kong
LB.1.6	S	Chan-S	CAAGCTATAACGCAGCCTGTA	21	47.62	22869	22849	R	-22073.5	China
LB.1.6	E	Won-E	TTCGGAAGAGACAGGTACGTT	21	47.62	26259	26279	F	-18253.7	South Korea
LB.1.6	N	US-CDC-N-3	TGTAGCACGATTGCAGCATTG	21	47.62	28752	28732	R	-23779.6	US
LB.1.6	ORF1ab	NIID WH-1 F501R913	TTCGGATGCTCGAACTGCACC	21	57.14	484	504	F	-24908.9	Japan
LB.1.6	S	NIID WH-1 F24381R24873	TCAAGACTCACTTTCTTCCAC	21	42.86	24364	24384	F	-16362.7	Japan
LB.1.6	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-16797.4	Japan
JN.3.2	ORF1ab	CN-CDC-ORF1ab	CCCTGTGGGTTTTACACTTAA	21	42.86	13342	13362	F	-20516.2	China
JN.3.2	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-6910.96	Hong Kong
JN.3.2	S	Chan-S	CAAGCTATAACGCAGCCTGTA	21	47.62	22869	22849	R	-22073.5	China
JN.3.2	E	Won-E	TTCGGAAGAGACAGGTACGTT	21	47.62	26259	26279	F	-18253.7	South Korea
JN.3.2	N	US-CDC-N-3	TGTAGCACGATTGCAGCATTG	21	47.62	28752	28732	R	-23779.6	US
JN.3.2	ORF1ab	NIID WH-1 F501R913	TTCGGATGCTCGAACTGCACC	21	57.14	484	504	F	-2242.74	Japan
JN.3.2	S	NIID WH-1 F24381R24873	TCAAGACTCACTTTCTTCCAC	21	42.86	24364	24384	F	-2556.23	Japan
JN.3.2	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-5266.28	Japan
GE.1.2.2	ORF1ab	CN-CDC-ORF1ab	CCCTGTGGGTTTTACACTTAA	21	42.86	13342	13362	F	-20516.2	China
GE.1.2.2	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-6910.96	Hong Kong
GE.1.2.2	S	Chan-S	CAAGCTATAACGCAGCCTGTA	21	47.62	22869	22849	R	-22073.5	China
GE.1.2.2	E	Won-E	TTCGGAAGAGACAGGTACGTT	21	47.62	26259	26279	F	-15016.3	South Korea
GE.1.2.2	N	US-CDC-N-3	TGTAGCACGATTGCAGCATTG	21	47.62	28752	28732	R	-23779.6	US
GE.1.2.2	ORF1ab	NIID WH-1 F501R913	TTCGGATGCTCGAACTGCACC	21	57.14	484	504	F	-24908.9	Japan
GE.1.2.2	S	NIID WH-1 F24381R24873	TCAAGACTCACTTTCTTCCAC	21	42.86	24364	24384	F	-20966	Japan
GE.1.2.2	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-21400.8	Japan
JN.1.58.1	ORF1ab	CN-CDC-ORF1ab	CCCTGTGGGTTTTACACTTAA	21	42.86	13342	13362	F	-20516.2	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