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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 |
|---|---|---|---|---|---|---|---|---|---|---|
| XBB.1.9.3 | ORF1ab | NIID WH-1 Seq F519R840 | GACATAGCGAGTGTATGCC | 19 | 52.63 | 823 | 805 | R | -20165.2 | Japan |
| FA.2 | ORF1ab | NIID WH-1 Seq F519R840 | GACATAGCGAGTGTATGCC | 19 | 52.63 | 823 | 805 | R | -20165.2 | Japan |
| BA.4.1.11 | ORF1ab | NIID WH-1 Seq F519R840 | GACATAGCGAGTGTATGCC | 19 | 52.63 | 823 | 805 | R | -20165.2 | Japan |
| CQ.1 | ORF1ab | NIID WH-1 Seq F519R840 | GACATAGCGAGTGTATGCC | 19 | 52.63 | 823 | 805 | R | -20165.2 | Japan |
| BA.5.2.13 | ORF1ab | NIID WH-1 Seq F519R840 | GACATAGCGAGTGTATGCC | 19 | 52.63 | 823 | 805 | R | -20165.2 | Japan |
| BA.2.87 | N | Corman-N | GAGGAACGAGAAGAGGCTTG | 20 | 55 | 28833 | 28814 | R | -20154.9 | Germany |
| JN.1.4.7 | ORF1ab | NIID WH-1 Seq F519R840 | ACCTCATGGTCATGTTATGG | 20 | 45 | 502 | 521 | F | -20139.6 | Japan |
| XDA | ORF1ab | NIID WH-1 Seq F519R840 | ACCTCATGGTCATGTTATGG | 20 | 45 | 502 | 521 | F | -20139.6 | Japan |
| HK.22 | ORF1ab | NIID WH-1 Seq F519R840 | ACCTCATGGTCATGTTATGG | 20 | 45 | 502 | 521 | F | -20139.6 | Japan |
| AY.90 (Delta) | N | US-CDC-N-3 | TGTAGCACGATTGCAGCATTG | 21 | 47.62 | 28752 | 28732 | R | -20129.2 | US |
| MB.1 | S | Won-S | CACCTGTGCCTGTTAAACCA | 20 | 50 | 23213 | 23194 | R | -20126 | South Korea |
| B.1.1.53 | N | CN-CDC-N | GGGGAACTTCTCCTGCTAGAAT | 22 | 50 | 28881 | 28902 | F | -20121 | China |
| A.30 | N | CN-CDC-N | GGGGAACTTCTCCTGCTAGAAT | 22 | 50 | 28881 | 28902 | F | -20121 | China |
| B.1.1.398 | ORF1ab | CN-CDC-ORF1ab | ACGATTGTGCATCAGCTGA | 19 | 47.37 | 13460 | 13442 | R | -20116.4 | China |
| B.1.540 | ORF1ab | CN-CDC-ORF1ab | ACGATTGTGCATCAGCTGA | 19 | 47.37 | 13460 | 13442 | R | -20116.4 | China |
| GB.1 | S | Won-S | CTACATGCACCAGCAACTGT | 20 | 50 | 23114 | 23133 | F | -20112 | South Korea |
| B.1.504 | E | Niu-E | CACGTTAACAATATTGCAGC | 20 | 40 | 26391 | 26372 | R | -20103.9 | China |
| BA.5.2.25 | N | US-CDC-N-3 | GGGAGCCTTGAATACACCAAAA | 22 | 45.45 | 28681 | 28702 | F | -20100.3 | US |
| HK.1.2 | S | Won-S | CTACATGCACCAGCAACTGT | 20 | 50 | 23114 | 23133 | F | -20083.2 | South Korea |
| BQ.2 | S | Won-S | CTACATGCACCAGCAACTGT | 20 | 50 | 23114 | 23133 | F | -20083.2 | South Korea |
| JD.1.1.3 | N | Won-N | GTTGCGACTACGTGATGAGG | 20 | 55 | 28849 | 28830 | R | -20075 | South Korea |
| B.1.432 | ORF1ab | Won-ORF1ab | CATGTGTGGCGGTTCACTAT | 20 | 50 | 15441 | 15460 | F | -20058.6 | South Korea |
| BA.5.5.2 | ORF1ab | Won-ORF1ab | CATGTGTGGCGGTTCACTAT | 20 | 50 | 15441 | 15460 | F | -20058.6 | South Korea |
| B.1.528 | N | Won-N | CAATGCTGCAATCGTGCTAC | 20 | 50 | 28732 | 28751 | F | -20047.3 | South Korea |
| BQ.1.1.58 | S | WuhanCoV-spk1 | TTGGCAAAATTCAAGACTCACTTT | 24 | 33.33 | 24354 | 24377 | F | -20040.1 | Japan |
| FG.3 | S | WuhanCoV-spk1 | TTGGCAAAATTCAAGACTCACTTT | 24 | 33.33 | 24354 | 24377 | F | -20040.1 | Japan |
| B.1.351 (Beta) | ORF1ab | NIID WH-1 F501R913 | CTTTACCAGCACGTGCTAGAAGG | 23 | 52.17 | 896 | 874 | R | -20038.1 | Japan |
| JW.1.1 | N | US-CDC-N-1 | TCTGGTTACTGCCAGTTGAATCTG | 24 | 45.83 | 28358 | 28335 | R | -20020 | US |
| XBB.1.16.10 | N | US-CDC-N-1 | TCTGGTTACTGCCAGTTGAATCTG | 24 | 45.83 | 28358 | 28335 | R | -20020 | US |
| CH.1.1.30 | ORF1ab | Young-ORF1ab | CACTTAATGTAAGGCTTTGTTAAG | 24 | 33.33 | 14243 | 14220 | R | -20011.4 | Singapore |
| JD.1.1.8 | N | CN-CDC-N | CAGACATTTTGCTCTCAAGCTG | 22 | 45.45 | 28979 | 28958 | R | -20002.5 | China |
| B.1.306 | N | CN-CDC-N | GGGGAACTTCTCCTGCTAGAAT | 22 | 50 | 28881 | 28902 | F | -19953.4 | China |
| B.1.390 | N | CN-CDC-N | GGGGAACTTCTCCTGCTAGAAT | 22 | 50 | 28881 | 28902 | F | -19953.4 | China |
| B.1.516 | N | CN-CDC-N | GGGGAACTTCTCCTGCTAGAAT | 22 | 50 | 28881 | 28902 | F | -19953.4 | China |
| B.1.9.4 | N | CN-CDC-N | GGGGAACTTCTCCTGCTAGAAT | 22 | 50 | 28881 | 28902 | F | -19953.4 | China |
| B.1.471 | N | CN-CDC-N | GGGGAACTTCTCCTGCTAGAAT | 22 | 50 | 28881 | 28902 | F | -19953.4 | China |
| B.1.478 | N | CN-CDC-N | GGGGAACTTCTCCTGCTAGAAT | 22 | 50 | 28881 | 28902 | F | -19953.4 | China |
| B.1.606 | N | CN-CDC-N | GGGGAACTTCTCCTGCTAGAAT | 22 | 50 | 28881 | 28902 | F | -19953.4 | China |
| B.1.220 | N | Won-N | GTTGCGACTACGTGATGAGG | 20 | 55 | 28849 | 28830 | R | -19943.4 | South Korea |
| BE.5 | ORF1ab | CN-CDC-ORF1ab | CCCTGTGGGTTTTACACTTAA | 21 | 42.86 | 13342 | 13362 | F | -19940.1 | China |
| CQ.1.1 | ORF1ab | CN-CDC-ORF1ab | CCCTGTGGGTTTTACACTTAA | 21 | 42.86 | 13342 | 13362 | F | -19940.1 | China |
| BE.2 | ORF1ab | CN-CDC-ORF1ab | CCCTGTGGGTTTTACACTTAA | 21 | 42.86 | 13342 | 13362 | F | -19940.1 | China |
| BE.4.1 | ORF1ab | CN-CDC-ORF1ab | CCCTGTGGGTTTTACACTTAA | 21 | 42.86 | 13342 | 13362 | F | -19940.1 | China |
| CQ.1 | ORF1ab | CN-CDC-ORF1ab | CCCTGTGGGTTTTACACTTAA | 21 | 42.86 | 13342 | 13362 | F | -19940.1 | China |
| CK.1.2 | ORF1ab | CN-CDC-ORF1ab | CCCTGTGGGTTTTACACTTAA | 21 | 42.86 | 13342 | 13362 | F | -19940.1 | China |
| BE.4.2 | ORF1ab | CN-CDC-ORF1ab | CCCTGTGGGTTTTACACTTAA | 21 | 42.86 | 13342 | 13362 | F | -19940.1 | China |
| BE.4.1.1 | ORF1ab | CN-CDC-ORF1ab | CCCTGTGGGTTTTACACTTAA | 21 | 42.86 | 13342 | 13362 | F | -19940.1 | China |
| BE.4 | ORF1ab | CN-CDC-ORF1ab | CCCTGTGGGTTTTACACTTAA | 21 | 42.86 | 13342 | 13362 | F | -19940.1 | China |
| CQ.2 | ORF1ab | CN-CDC-ORF1ab | CCCTGTGGGTTTTACACTTAA | 21 | 42.86 | 13342 | 13362 | F | -19940.1 | China |
| B.1.1.192 | N | Corman-N | CACATTGGCACCCGCAATC | 19 | 57.89 | 28706 | 28724 | F | -19930.1 | Germany |
| 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 |