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
BA.1.14.1	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
BA.1.14.1	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
BA.1 (Omicron)	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
BA.1 (Omicron)	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
BA.1 (Omicron)	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
BA.1.17.2	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
BA.1.17.2	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
BA.1.17.2	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
AY.99.2 (Delta)	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
AY.99.2 (Delta)	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
AY.99.2 (Delta)	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
JN.1.52	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
JN.1.52	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
JN.1.52	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
JN.1.42	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
JN.1.42	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
JN.1.42	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
KB.1	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
KB.1	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
KB.1	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
JN.1.14	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
JN.1.14	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
JN.1.14	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
MJ.1	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
MJ.1	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
MJ.1	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
JN.1.1.6	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
JN.1.1.6	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
JN.1.1.6	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
JN.1.39.2	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-18259.5	US
JN.1.39.2	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
JN.1.39.2	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-15848	China
JN.1.58.2	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
JN.1.58.2	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
JN.1.58.2	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
JN.1.18.3	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
JN.1.18.3	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
JN.1.18.3	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
LF.4.1	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
LF.4.1	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
LF.4.1	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
XDK.1.2	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
XDK.1.2	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
XDK.1.2	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
XBB.1.5.20	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
XBB.1.5.20	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
XBB.1.5.20	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	China
LB.1.7.3	N	US-CDC-N-2	GCGCGACATTCCGAAGAA	18	55.56	29230	29213	R	-21404.2	US
LB.1.7.3	N	Young-N	AGCACCATAGGGAAGTCC	18	55.56	28648	28631	R	-19874.5	Singapore
LB.1.7.3	N	Chan-N	GCGTTCTTCGGAATGTCG	18	55.56	29210	29227	F	-21207.6	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