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
XF	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
S.1	N	Chan-N	TTGGATCTTTGTCATCCAATTTG	23	34.78	29306	29284	R	-21867.4	China
S.1	N	SC2	CTGCAGATTTGGATGATTTCTCC	23	43.48	29463	29485	F	-23117.2	US
S.1	ORF1ab	NIID WH-1 F501R913	CTTTACCAGCACGTGCTAGAAGG	23	52.17	896	874	R	-25657.5	Japan
S.1	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
B.1.221.1	N	Chan-N	TTGGATCTTTGTCATCCAATTTG	23	34.78	29306	29284	R	-21867.4	China
B.1.221.1	N	SC2	CTGCAGATTTGGATGATTTCTCC	23	43.48	29463	29485	F	-23117.2	US
B.1.221.1	ORF1ab	NIID WH-1 F501R913	CTTTACCAGCACGTGCTAGAAGG	23	52.17	896	874	R	-25657.5	Japan
B.1.221.1	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
B.1.258.3	N	Chan-N	TTGGATCTTTGTCATCCAATTTG	23	34.78	29306	29284	R	-21867.4	China
B.1.258.3	N	SC2	CTGCAGATTTGGATGATTTCTCC	23	43.48	29463	29485	F	-23117.2	US
B.1.258.3	ORF1ab	NIID WH-1 F501R913	CTTTACCAGCACGTGCTAGAAGG	23	52.17	896	874	R	-25657.5	Japan
B.1.258.3	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
B.1.215	N	Chan-N	TTGGATCTTTGTCATCCAATTTG	23	34.78	29306	29284	R	-21867.4	China
B.1.215	N	SC2	CTGCAGATTTGGATGATTTCTCC	23	43.48	29463	29485	F	-23117.2	US
B.1.215	ORF1ab	NIID WH-1 F501R913	CTTTACCAGCACGTGCTAGAAGG	23	52.17	896	874	R	-25657.5	Japan
B.1.215	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
B.1.36.20	N	Chan-N	TTGGATCTTTGTCATCCAATTTG	23	34.78	29306	29284	R	-21867.4	China
B.1.36.20	N	SC2	CTGCAGATTTGGATGATTTCTCC	23	43.48	29463	29485	F	-23117.2	US
B.1.36.20	ORF1ab	NIID WH-1 F501R913	CTTTACCAGCACGTGCTAGAAGG	23	52.17	896	874	R	-25657.5	Japan
B.1.36.20	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
B.1.177.82	N	Chan-N	TTGGATCTTTGTCATCCAATTTG	23	34.78	29306	29284	R	-21867.4	China
B.1.177.82	N	SC2	CTGCAGATTTGGATGATTTCTCC	23	43.48	29463	29485	F	-23117.2	US
B.1.177.82	ORF1ab	NIID WH-1 F501R913	CTTTACCAGCACGTGCTAGAAGG	23	52.17	896	874	R	-25657.5	Japan
B.1.177.82	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
B.1.1.462	N	Chan-N	TTGGATCTTTGTCATCCAATTTG	23	34.78	29306	29284	R	-21867.4	China
B.1.1.462	N	SC2	CTGCAGATTTGGATGATTTCTCC	23	43.48	29463	29485	F	-23117.2	US
B.1.1.462	ORF1ab	NIID WH-1 F501R913	CTTTACCAGCACGTGCTAGAAGG	23	52.17	896	874	R	-25657.5	Japan
B.1.1.462	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
B.1.218	N	Chan-N	TTGGATCTTTGTCATCCAATTTG	23	34.78	29306	29284	R	-21867.4	China
B.1.218	N	SC2	CTGCAGATTTGGATGATTTCTCC	23	43.48	29463	29485	F	-23117.2	US
B.1.218	ORF1ab	NIID WH-1 F501R913	CTTTACCAGCACGTGCTAGAAGG	23	52.17	896	874	R	-25657.5	Japan
B.1.218	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
EE.5	N	Chan-N	TTGGATCTTTGTCATCCAATTTG	23	34.78	29306	29284	R	-21867.4	China
EE.5	N	SC2	CTGCAGATTTGGATGATTTCTCC	23	43.48	29463	29485	F	-23117.2	US
EE.5	ORF1ab	NIID WH-1 F501R913	CTTTACCAGCACGTGCTAGAAGG	23	52.17	896	874	R	-25657.5	Japan
EE.5	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
BQ.1.1.52	N	Chan-N	TTGGATCTTTGTCATCCAATTTG	23	34.78	29306	29284	R	-21867.4	China
BQ.1.1.52	N	SC2	CTGCAGATTTGGATGATTTCTCC	23	43.48	29463	29485	F	-23117.2	US
BQ.1.1.52	ORF1ab	NIID WH-1 F501R913	CTTTACCAGCACGTGCTAGAAGG	23	52.17	896	874	R	-25657.5	Japan
BQ.1.1.52	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
XBF.9	N	Chan-N	TTGGATCTTTGTCATCCAATTTG	23	34.78	29306	29284	R	-21867.4	China
XBF.9	N	SC2	CTGCAGATTTGGATGATTTCTCC	23	43.48	29463	29485	F	-23117.2	US
XBF.9	ORF1ab	NIID WH-1 F501R913	CTTTACCAGCACGTGCTAGAAGG	23	52.17	896	874	R	-25657.5	Japan
XBF.9	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
BN.1.4.5	N	Chan-N	TTGGATCTTTGTCATCCAATTTG	23	34.78	29306	29284	R	-21867.4	China
BN.1.4.5	N	SC2	CTGCAGATTTGGATGATTTCTCC	23	43.48	29463	29485	F	-23117.2	US
BN.1.4.5	ORF1ab	NIID WH-1 F501R913	CTTTACCAGCACGTGCTAGAAGG	23	52.17	896	874	R	-25657.5	Japan
BN.1.4.5	S	NIID WH-1 F24381R24873	ATTTGAAACAAAGACACCTTCAC	23	34.78	24856	24834	R	-22193.2	Japan
DS.1	N	Chan-N	TTGGATCTTTGTCATCCAATTTG	23	34.78	29306	29284	R	-21867.4	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