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.52	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
B.52	S	Chan-S	CAAGCTATAACGCAGCCTGTA	21	47.62	22869	22849	R	-22073.5	China
B.52	E	Won-E	TTCGGAAGAGACAGGTACGTT	21	47.62	26259	26279	F	-22650	South Korea
B.52	N	US-CDC-N-3	TGTAGCACGATTGCAGCATTG	21	47.62	28752	28732	R	-23779.6	US
B.52	ORF1ab	NIID WH-1 F501R913	TTCGGATGCTCGAACTGCACC	21	57.14	484	504	F	-24908.9	Japan
B.52	S	NIID WH-1 F24381R24873	TCAAGACTCACTTTCTTCCAC	21	42.86	24364	24384	F	-20966	Japan
B.52	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-21400.8	Japan
W.3	ORF1ab	CN-CDC-ORF1ab	CCCTGTGGGTTTTACACTTAA	21	42.86	13342	13362	F	-11712.3	China
W.3	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
W.3	S	Chan-S	CAAGCTATAACGCAGCCTGTA	21	47.62	22869	22849	R	-22073.5	China
W.3	E	Won-E	TTCGGAAGAGACAGGTACGTT	21	47.62	26259	26279	F	-22650	South Korea
W.3	N	US-CDC-N-3	TGTAGCACGATTGCAGCATTG	21	47.62	28752	28732	R	-23779.6	US
W.3	ORF1ab	NIID WH-1 F501R913	TTCGGATGCTCGAACTGCACC	21	57.14	484	504	F	-24908.9	Japan
W.3	S	NIID WH-1 F24381R24873	TCAAGACTCACTTTCTTCCAC	21	42.86	24364	24384	F	-20966	Japan
W.3	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-21400.8	Japan
B.1.250	ORF1ab	CN-CDC-ORF1ab	CCCTGTGGGTTTTACACTTAA	21	42.86	13342	13362	F	-20516.2	China
B.1.250	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
B.1.250	S	Chan-S	CAAGCTATAACGCAGCCTGTA	21	47.62	22869	22849	R	-22073.5	China
B.1.250	E	Won-E	TTCGGAAGAGACAGGTACGTT	21	47.62	26259	26279	F	-22650	South Korea
B.1.250	N	US-CDC-N-3	TGTAGCACGATTGCAGCATTG	21	47.62	28752	28732	R	-23779.6	US
B.1.250	ORF1ab	NIID WH-1 F501R913	TTCGGATGCTCGAACTGCACC	21	57.14	484	504	F	-24908.9	Japan
B.1.250	S	NIID WH-1 F24381R24873	TCAAGACTCACTTTCTTCCAC	21	42.86	24364	24384	F	-20966	Japan
B.1.250	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-21400.8	Japan
B.1.177.63	ORF1ab	CN-CDC-ORF1ab	CCCTGTGGGTTTTACACTTAA	21	42.86	13342	13362	F	-20516.2	China
B.1.177.63	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
B.1.177.63	S	Chan-S	CAAGCTATAACGCAGCCTGTA	21	47.62	22869	22849	R	-22073.5	China
B.1.177.63	E	Won-E	TTCGGAAGAGACAGGTACGTT	21	47.62	26259	26279	F	-22650	South Korea
B.1.177.63	N	US-CDC-N-3	TGTAGCACGATTGCAGCATTG	21	47.62	28752	28732	R	-23779.6	US
B.1.177.63	ORF1ab	NIID WH-1 F501R913	TTCGGATGCTCGAACTGCACC	21	57.14	484	504	F	-24908.9	Japan
B.1.177.63	S	NIID WH-1 F24381R24873	TCAAGACTCACTTTCTTCCAC	21	42.86	24364	24384	F	-20966	Japan
B.1.177.63	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-21400.8	Japan
B.27	ORF1ab	CN-CDC-ORF1ab	CCCTGTGGGTTTTACACTTAA	21	42.86	13342	13362	F	-20516.2	China
B.27	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
B.27	S	Chan-S	CAAGCTATAACGCAGCCTGTA	21	47.62	22869	22849	R	-22073.5	China
B.27	E	Won-E	TTCGGAAGAGACAGGTACGTT	21	47.62	26259	26279	F	-22650	South Korea
B.27	N	US-CDC-N-3	TGTAGCACGATTGCAGCATTG	21	47.62	28752	28732	R	-23779.6	US
B.27	ORF1ab	NIID WH-1 F501R913	TTCGGATGCTCGAACTGCACC	21	57.14	484	504	F	-24908.9	Japan
B.27	S	NIID WH-1 F24381R24873	TCAAGACTCACTTTCTTCCAC	21	42.86	24364	24384	F	-20966	Japan
B.27	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-21400.8	Japan
B.23	ORF1ab	CN-CDC-ORF1ab	CCCTGTGGGTTTTACACTTAA	21	42.86	13342	13362	F	-20516.2	China
B.23	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
B.23	S	Chan-S	CAAGCTATAACGCAGCCTGTA	21	47.62	22869	22849	R	-22073.5	China
B.23	E	Won-E	TTCGGAAGAGACAGGTACGTT	21	47.62	26259	26279	F	-22650	South Korea
B.23	N	US-CDC-N-3	TGTAGCACGATTGCAGCATTG	21	47.62	28752	28732	R	-23779.6	US
B.23	ORF1ab	NIID WH-1 F501R913	TTCGGATGCTCGAACTGCACC	21	57.14	484	504	F	-24908.9	Japan
B.23	S	NIID WH-1 F24381R24873	TCAAGACTCACTTTCTTCCAC	21	42.86	24364	24384	F	-20966	Japan
B.23	S	NIID WH-1 Seq F24383R24865	AAGACTCACTTTCTTCCACAG	21	42.86	24366	24386	F	-21400.8	Japan
B.1.1.130	ORF1ab	CN-CDC-ORF1ab	CCCTGTGGGTTTTACACTTAA	21	42.86	13342	13362	F	-20516.2	China
B.1.1.130	ORF1ab	HKU-ORF1b	AACRCGCTTAACAAAGCACTC	21	42.86	18909	18889	R	-17655.9	Hong Kong
B.1.1.130	S	Chan-S	CAAGCTATAACGCAGCCTGTA	21	47.62	22869	22849	R	-22073.5	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