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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 |
|---|---|---|---|---|---|---|---|---|---|---|
| BA.5.12 | ORF1ab | Pasteur-ORF1ab-2 | CTGGTCAAGGTTAATATAGG | 20 | 40 | 14186 | 14167 | R | -15159.2 | France |
| HN.4.1.1 | ORF1ab | Pasteur-ORF1ab-2 | CTGGTCAAGGTTAATATAGG | 20 | 40 | 14186 | 14167 | R | -15159.2 | France |
| A.19 | ORF1ab | Pasteur-ORF1ab-2 | CTGGTCAAGGTTAATATAGG | 20 | 40 | 14186 | 14167 | R | -15159.2 | France |
| JN.1.3 | ORF1ab | Pasteur-ORF1ab-2 | CTGGTCAAGGTTAATATAGG | 20 | 40 | 14186 | 14167 | R | -15159.2 | France |
| BA.5.3.3 | ORF1ab | Pasteur-ORF1ab-2 | CTGGTCAAGGTTAATATAGG | 20 | 40 | 14186 | 14167 | R | -15159.2 | France |
| GA.6.1 | ORF1ab | Pasteur-ORF1ab-2 | CTGGTCAAGGTTAATATAGG | 20 | 40 | 14186 | 14167 | R | -15159.2 | France |
| FL.21 | ORF1ab | Pasteur-ORF1ab-2 | CTGGTCAAGGTTAATATAGG | 20 | 40 | 14186 | 14167 | R | -15159.2 | France |
| GJ.4 | ORF1ab | Pasteur-ORF1ab-2 | CTGGTCAAGGTTAATATAGG | 20 | 40 | 14186 | 14167 | R | -15159.2 | France |
| FL.4.3 | ORF1ab | Pasteur-ORF1ab-2 | CTGGTCAAGGTTAATATAGG | 20 | 40 | 14186 | 14167 | R | -15159.2 | France |
| BA.1.1.3 | N | Chan-N | GCGTTCTTCGGAATGTCG | 18 | 55.56 | 29210 | 29227 | F | -15161.9 | China |
| CK.2 | N | CN-CDC-N | CAGACATTTTGCTCTCAAGCTG | 22 | 45.45 | 28979 | 28958 | R | -15175 | China |
| XBB.1.38 | ORF1ab | NIID WH-1 F501R913 | TTCGGATGCTCGAACTGCACC | 21 | 57.14 | 484 | 504 | F | -15177.6 | Japan |
| GK.11 | ORF1ab | NIID WH-1 F501R913 | TTCGGATGCTCGAACTGCACC | 21 | 57.14 | 484 | 504 | F | -15177.6 | Japan |
| B.1.1.236 | S | Young-S | TATACATGTCTCTGGGACCA | 20 | 45 | 21763 | 21782 | F | -15180.6 | Singapore |
| FL.39.1 | E | Huang-E | GCAGCAGTACGCACACAATC | 20 | 55 | 26376 | 26357 | R | -15334.4 | China |
| BA.2.86.4 | E | Niu-E | TTCTTGCTTTCGTGGTATTC | 20 | 40 | 26303 | 26322 | F | -15341.2 | China |
| DV.7.1.5 | E | Niu-E | TTCTTGCTTTCGTGGTATTC | 20 | 40 | 26303 | 26322 | F | -15341.2 | China |
| XDZ | ORF1ab | Won-ORF1ab | CATGTGTGGCGGTTCACTAT | 20 | 50 | 15441 | 15460 | F | -15341.9 | South Korea |
| XBB.1.38.1 | E | Charité-E | ATATTGCAGCAGTACGCACACA | 22 | 45.45 | 26381 | 26360 | R | -15364 | Germany |
| B.1.1.430 | N | CN-CDC-N | GGGGAACTTCTCCTGCTAGAAT | 22 | 50 | 28881 | 28902 | F | -15385 | China |
| AM.2 | ORF1ab | Pasteur-ORF1ab-2 | CTGGTCAAGGTTAATATAGG | 20 | 40 | 14186 | 14167 | R | -15397.9 | France |
| AM.3 | ORF1ab | Pasteur-ORF1ab-2 | CTGGTCAAGGTTAATATAGG | 20 | 40 | 14186 | 14167 | R | -15397.9 | France |
| XBB.1.5.36 | ORF1ab | Pasteur-ORF1ab-2 | CTGGTCAAGGTTAATATAGG | 20 | 40 | 14186 | 14167 | R | -15397.9 | France |
| BA.2.75.7 | ORF1ab | Pasteur-ORF1ab-2 | CTGGTCAAGGTTAATATAGG | 20 | 40 | 14186 | 14167 | R | -15397.9 | France |
| XBF.10 | ORF1ab | Pasteur-ORF1ab-2 | CTGGTCAAGGTTAATATAGG | 20 | 40 | 14186 | 14167 | R | -15397.9 | France |
| BA.2.81 | ORF1ab | Pasteur-ORF1ab-2 | CTGGTCAAGGTTAATATAGG | 20 | 40 | 14186 | 14167 | R | -15397.9 | France |
| B.1.501 | ORF1ab | Pasteur-ORF1ab-2 | CTGGTCAAGGTTAATATAGG | 20 | 40 | 14186 | 14167 | R | -15413.7 | France |
| XBB.1.16.11 | N | CN-CDC-N | GGGGAACTTCTCCTGCTAGAAT | 22 | 50 | 28881 | 28902 | F | -15429 | China |
| XDQ | N | CN-CDC-N | GGGGAACTTCTCCTGCTAGAAT | 22 | 50 | 28881 | 28902 | F | -15455.9 | China |
| B.1.1.334 | N | CN-CDC-N | GGGGAACTTCTCCTGCTAGAAT | 22 | 50 | 28881 | 28902 | F | -15455.9 | China |
| B.50 | E | Charité-E | ACAGGTACGTTAATAGTTAATAGCGT | 26 | 34.62 | 26269 | 26294 | F | -15465.7 | Germany |
| XBC.1.6.1 | ORF1ab | Won-ORF1ab | TGCATTAACATTGGCCGTGA | 20 | 45 | 15558 | 15539 | R | -15478.6 | South Korea |
| B.19 | N | US-CDC-N-3 | TGTAGCACGATTGCAGCATTG | 21 | 47.62 | 28752 | 28732 | R | -15518.6 | US |
| JN.5 | S | NIID WH-1 Seq F24383R24865 | AAGACTCACTTTCTTCCACAG | 21 | 42.86 | 24366 | 24386 | F | -15519.7 | Japan |
| BA.5.2.10 | N | Young-N | AGCACCATAGGGAAGTCC | 18 | 55.56 | 28648 | 28631 | R | -15533.3 | Singapore |
| BA.2.59 | N | Young-N | AGCACCATAGGGAAGTCC | 18 | 55.56 | 28648 | 28631 | R | -15533.3 | Singapore |
| B.1.442 | N | CN-CDC-N | CAGACATTTTGCTCTCAAGCTG | 22 | 45.45 | 28979 | 28958 | R | -15565 | China |
| B.50 | E | Huang-E | GCAGCAGTACGCACACAATC | 20 | 55 | 26376 | 26357 | R | -15585.8 | China |
| B.1.1.263 | S | Young-S | TATACATGTCTCTGGGACCA | 20 | 45 | 21763 | 21782 | F | -15593.6 | Singapore |
| EG.1.1 | S | Young-S | TATACATGTCTCTGGGACCA | 20 | 45 | 21763 | 21782 | F | -15597.1 | Singapore |
| P.1.16 (Gamma) | S | Young-S | TATACATGTCTCTGGGACCA | 20 | 45 | 21763 | 21782 | F | -15597.1 | Singapore |
| AY.2 (Delta) | S | Young-S | TATACATGTCTCTGGGACCA | 20 | 45 | 21763 | 21782 | F | -15597.1 | Singapore |
| AY.44 (Delta) | S | Young-S | TATACATGTCTCTGGGACCA | 20 | 45 | 21763 | 21782 | F | -15597.1 | Singapore |
| XBB.1.5 | N | US-CDC-N-1 | GACCCCAAAATCAGCGAAAT | 20 | 45 | 28287 | 28306 | F | -15598.4 | US |
| KP.3.3.1 | N | US-CDC-N-1 | GACCCCAAAATCAGCGAAAT | 20 | 45 | 28287 | 28306 | F | -15598.4 | US |
| KP.3.3.2 | N | US-CDC-N-1 | GACCCCAAAATCAGCGAAAT | 20 | 45 | 28287 | 28306 | F | -15598.4 | US |
| KP.3.3.3 | N | US-CDC-N-1 | GACCCCAAAATCAGCGAAAT | 20 | 45 | 28287 | 28306 | F | -15598.4 | US |
| ML.2 | N | US-CDC-N-1 | GACCCCAAAATCAGCGAAAT | 20 | 45 | 28287 | 28306 | F | -15598.4 | US |
| KP.3.3 | N | US-CDC-N-1 | GACCCCAAAATCAGCGAAAT | 20 | 45 | 28287 | 28306 | F | -15598.4 | US |
| ML.1 | N | US-CDC-N-1 | GACCCCAAAATCAGCGAAAT | 20 | 45 | 28287 | 28306 | F | -15598.4 | 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 |