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| 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 |
|---|---|---|---|---|---|---|---|---|---|---|
| CP.2 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| BQ.1.1.39 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| BQ.1.1.39 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| BF.40 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| BF.40 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| BN.1.3.3 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| BN.1.3.3 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| BM.2 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| BM.2 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| BQ.1.1.57 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -23154.8 | US |
| BQ.1.1.57 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| EF.1.3 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| EF.1.3 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| BQ.1.29 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| BQ.1.29 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| BA.5.1.32 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| BA.5.1.32 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| BW.1 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| BW.1 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| XBB.9 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| XBB.9 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| CK.1.2 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| CK.1.2 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| CM.8.1.3 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| CM.8.1.3 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| CA.3.1 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| CA.3.1 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| BA.5.2.61 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| BA.5.2.61 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| XBB.2.5 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| XBB.2.5 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| ED.2 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| ED.2 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| BU.2 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| BU.2 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| XBB.1.6 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| XBB.1.6 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| BN.1.3.11 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| BN.1.3.11 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| XCG | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| XCG | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| XBB.1.30 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| XBB.1.30 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| DT.2 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| DT.2 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| DT.1 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| DT.1 | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| XCA | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| XCA | S | WuhanCoV-spk1 | TGTGGTTCATAAAAATTCCTTTGTG | 25 | 32 | 24900 | 24876 | R | -23857.7 | Japan |
| XBB.1.5.50 | N | SC2 | CCTTGTGTGGTCTGCATGAGTTTAG | 25 | 48 | 29554 | 29530 | R | -26482.3 | US |
| 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 |