CoV-GLUE | Mutations | Mutation
Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):
ORF | CodonNum | Mut | ORF1abMut | MutType | RefCodon | MutCodon | AACount | CodonCount | CodonProp | Genome Position |
ORF1ab/nsp2 | 36 | S36F | S216F | nonsyn | tCc | tTc | 3527 | 2516 | 0.713354 | 911-913 |
ORF1ab/nsp2 | 36 | S36F | S216F | nonsyn | tCC | tTT | 3527 | 1011 | 0.286646 | 911-913 |
Details of the mutation S36F within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):
ORF | CodonNum | Mut | RefCodon | MutCodon | CodonCount | AACount | Lineage | LineageCodonProp |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 2516 | 3527 | All | 0.000481 |
ORF1ab/nsp2 | 36 | S36F | tCC | tTT | 1011 | 3527 | All | 0.000193 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1854 | 1854 | AY.4 | 0.002886 |
ORF1ab/nsp2 | 36 | S36F | tCC | tTT | 994 | 994 | B.1.1.7 | 0.00089 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 143 | 143 | B.1.617.2 | 0.000538 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 44 | 44 | AY.43 | 0.000195 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 42 | 42 | AY.61 | 0.004401 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 39 | 41 | B.1.1.1 | 0.012741 |
ORF1ab/nsp2 | 36 | S36F | tCC | tTT | 2 | 41 | B.1.1.1 | 0.000653 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 38 | 38 | AY.103 | 0.000236 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 34 | 34 | AY.46 | 0.003539 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 30 | 30 | B.1.2 | 0.000264 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 20 | 20 | AY.25 | 0.00012 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 14 | 16 | B.1 | 0.000128 |
ORF1ab/nsp2 | 36 | S36F | tCC | tTT | 2 | 16 | B.1 | 0.000018 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 16 | 16 | B.1.525 | 0.001811 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 14 | 14 | P.1 | 0.000221 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 13 | 13 | B.1.177 | 0.000171 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 12 | 12 | AY.120 | 0.000446 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 9 | 12 | B.1.1 | 0.000163 |
ORF1ab/nsp2 | 36 | S36F | tCC | tTT | 3 | 12 | B.1.1 | 0.000054 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 10 | 10 | AY.44 | 0.000061 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 9 | 9 | AY.3 | 0.00009 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 8 | 8 | AY.102 | 0.000212 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 6 | 6 | B.1.236 | 0.01232 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 6 | 6 | B.1.628 | 0.002114 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 6 | 6 | D.2 | 0.00045 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 5 | 5 | AY.39 | 0.000124 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 5 | 5 | B.1.160 | 0.000156 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 5 | 5 | B.1.177.21 | 0.000382 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 4 | 4 | AY.20 | 0.000155 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 4 | 4 | AY.42 | 0.000161 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 4 | 4 | AY.47 | 0.000124 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 4 | 4 | B.1.1.153 | 0.004381 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 4 | 4 | B.1.1.519 | 0.000159 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 4 | 4 | B.1.160.31 | 0.032258 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 4 | 4 | B.1.258.17 | 0.000416 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 4 | 4 | B.1.429 | 0.000094 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 4 | 4 | B.1.568 | 0.004444 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 4 | 4 | B.1.609 | 0.001918 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 3 | 3 | AY.13 | 0.000483 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 3 | 3 | AY.26 | 0.000085 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 3 | 3 | AY.33 | 0.0002 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 3 | 3 | AY.4.2 | 0.000065 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 3 | 3 | B.1.1.192 | 0.006928 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 3 | 3 | B.1.617.1 | 0.000387 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 3 | 3 | C.36.3 | 0.001702 |
ORF1ab/nsp2 | 36 | S36F | tCC | tTT | 3 | 3 | Q.3 | 0.000435 |
ORF1ab/nsp2 | 36 | S36F | tCC | tTT | 3 | 3 | Q.8 | 0.000495 |
ORF1ab/nsp2 | 36 | S36F | tCC | tTT | 1 | 2 | 0.055556 | |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 2 | 0.055556 | |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 2 | 2 | AY.1 | 0.000791 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 2 | 2 | AY.10 | 0.00106 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 2 | 2 | AY.116.1 | 0.000623 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 2 | 2 | AY.24 | 0.000862 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 2 | 2 | AY.3.1 | 0.000171 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 2 | 2 | AY.4.5 | 0.000215 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 2 | 2 | AY.5 | 0.000041 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 2 | 2 | AY.65 | 0.001066 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 2 | 2 | AY.75 | 0.000112 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 2 | 2 | AY.75.1 | 0.000361 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 2 | 2 | AY.9.2 | 0.000073 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 2 | 2 | B.1.1.83 | 0.00542 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 2 | 2 | B.1.239 | 0.002442 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 2 | 2 | B.1.258 | 0.000133 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 2 | 2 | B.1.621 | 0.000177 |
ORF1ab/nsp2 | 36 | S36F | tCC | tTT | 2 | 2 | Q.1 | 0.000253 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.101 | 0.00049 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.113 | 0.000142 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.16 | 0.00038 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.16.1 | 0.00047 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.23 | 0.00007 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.4.3 | 0.000842 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.46.5 | 0.000198 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.55 | 0.000917 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.68 | 0.000274 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.7 | 0.000196 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.85 | 0.000427 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.99.1 | 0.001553 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | AY.99.2 | 0.000092 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.1.176 | 0.000439 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.1.214 | 0.000055 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.1.301 | 0.001179 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.1.312 | 0.001912 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.1.372 | 0.000689 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.177.6 | 0.000977 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.177.60 | 0.000218 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.206 | 0.000816 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.311 | 0.000275 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.324 | 0.001605 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.351 | 0.00003 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.36.17 | 0.000494 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.36.24 | 0.006173 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.389 | 0.001002 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.576 | 0.000907 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | C.23 | 0.005814 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | C.8 | 0.004464 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | P.1.14 | 0.000048 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | P.1.7 | 0.000319 |
ORF1ab/nsp2 | 36 | S36F | tCc | tTc | 1 | 1 | P.2 | 0.000187 |
ORF1ab/nsp2 | 36 | S36F | tCC | tTT | 1 | 1 | Q.4 | 0.000455 |
CoV-GLUE is still in development. CoV-GLUE was originally developed as part of COG-UK by Josh Singer using the GLUE framework at the MRC-University of Glasgow Centre for Virus Research (CVR). In 2021 it was redeveloped by Richard Orton to scale to the millions of genome sequences available. We acknowledge support from the MRC (MC_UU_12014/12), WT (220977/Z/20/Z) and UKRI G2P (MR/W005611/1). Please contact Richard Orton with any queries: Richard.Orton@glasgow.ac.uk
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