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 |
S | 892 | A892S | nonsyn | Gct | Tct | 1400 | 1400 | 1 | 24236-24238 |
Details of the mutation A892S 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 |
S | 892 | A892S | Gct | Tct | 1400 | 1400 | All | 0.000268 |
S | 892 | A892S | Gct | Tct | 310 | 310 | AY.4 | 0.000482 |
S | 892 | A892S | Gct | Tct | 207 | 207 | B.1.1.7 | 0.000185 |
S | 892 | A892S | Gct | Tct | 59 | 59 | B.1.617.2 | 0.000222 |
S | 892 | A892S | Gct | Tct | 55 | 55 | B.1.177 | 0.000724 |
S | 892 | A892S | Gct | Tct | 48 | 48 | AY.44 | 0.000292 |
S | 892 | A892S | Gct | Tct | 41 | 41 | B.1 | 0.000376 |
S | 892 | A892S | Gct | Tct | 41 | 41 | B.1.351 | 0.001219 |
S | 892 | A892S | Gct | Tct | 41 | 41 | B.1.36.22 | 0.049517 |
S | 892 | A892S | Gct | Tct | 39 | 39 | AY.43 | 0.000173 |
S | 892 | A892S | Gct | Tct | 37 | 37 | B.1.350 | 0.108504 |
S | 892 | A892S | Gct | Tct | 25 | 25 | AY.103 | 0.000155 |
S | 892 | A892S | Gct | Tct | 23 | 23 | AY.39.1 | 0.000911 |
S | 892 | A892S | Gct | Tct | 22 | 22 | AY.25 | 0.000132 |
S | 892 | A892S | Gct | Tct | 19 | 19 | AY.3 | 0.000189 |
S | 892 | A892S | Gct | Tct | 18 | 18 | B.1.1.16 | 1 |
S | 892 | A892S | Gct | Tct | 18 | 18 | B.1.429 | 0.000424 |
S | 892 | A892S | Gct | Tct | 18 | 18 | B.1.565 | 0.014587 |
S | 892 | A892S | Gct | Tct | 15 | 15 | B.1.160 | 0.000468 |
S | 892 | A892S | Gct | Tct | 14 | 14 | AY.102 | 0.000371 |
S | 892 | A892S | Gct | Tct | 13 | 13 | AY.5 | 0.000268 |
S | 892 | A892S | Gct | Tct | 13 | 13 | B.1.1.214 | 0.000721 |
S | 892 | A892S | Gct | Tct | 11 | 11 | B.1.1 | 0.0002 |
S | 892 | A892S | Gct | Tct | 11 | 11 | B.1.177.82 | 0.005251 |
S | 892 | A892S | Gct | Tct | 10 | 10 | B.1.2 | 0.000088 |
S | 892 | A892S | Gct | Tct | 10 | 10 | P.1.7 | 0.003193 |
S | 892 | A892S | Gct | Tct | 9 | 9 | B.1.469 | 0.032491 |
S | 892 | A892S | Gct | Tct | 9 | 9 | B.1.617.1 | 0.001161 |
S | 892 | A892S | Gct | Tct | 8 | 8 | B.1.1.270 | 0.082474 |
S | 892 | A892S | Gct | Tct | 8 | 8 | B.1.526 | 0.000188 |
S | 892 | A892S | Gct | Tct | 8 | 8 | D.2 | 0.0006 |
S | 892 | A892S | Gct | Tct | 7 | 7 | AU.3 | 0.014768 |
S | 892 | A892S | Gct | Tct | 7 | 7 | AY.34 | 0.000679 |
S | 892 | A892S | Gct | Tct | 7 | 7 | AY.53 | 0.002013 |
S | 892 | A892S | Gct | Tct | 7 | 7 | B.1.36.1 | 0.007982 |
S | 892 | A892S | Gct | Tct | 6 | 6 | AY.98.1 | 0.000291 |
S | 892 | A892S | Gct | Tct | 6 | 6 | B | 0.000767 |
S | 892 | A892S | Gct | Tct | 6 | 6 | B.1.1.230 | 0.055046 |
S | 892 | A892S | Gct | Tct | 6 | 6 | P.1 | 0.000095 |
S | 892 | A892S | Gct | Tct | 5 | 5 | AY.29 | 0.000079 |
S | 892 | A892S | Gct | Tct | 5 | 5 | AY.39 | 0.000124 |
S | 892 | A892S | Gct | Tct | 5 | 5 | AY.84 | 0.002187 |
S | 892 | A892S | Gct | Tct | 5 | 5 | B.1.1.284 | 0.000537 |
S | 892 | A892S | Gct | Tct | 5 | 5 | B.1.36 | 0.00073 |
S | 892 | A892S | Gct | Tct | 4 | 4 | B.1.1.348 | 0.003185 |
S | 892 | A892S | Gct | Tct | 4 | 4 | B.1.110.3 | 0.002874 |
S | 892 | A892S | Gct | Tct | 4 | 4 | B.1.160.10 | 0.032258 |
S | 892 | A892S | Gct | Tct | 4 | 4 | P.1.15 | 0.000929 |
S | 892 | A892S | Gct | Tct | 3 | 3 | AD.2 | 0.000657 |
S | 892 | A892S | Gct | Tct | 3 | 3 | AY.20 | 0.000117 |
S | 892 | A892S | Gct | Tct | 3 | 3 | AY.4.2 | 0.000065 |
S | 892 | A892S | Gct | Tct | 3 | 3 | B.1.139 | 0.002199 |
S | 892 | A892S | Gct | Tct | 3 | 3 | B.1.149 | 0.010274 |
S | 892 | A892S | Gct | Tct | 3 | 3 | B.1.586 | 0.032967 |
S | 892 | A892S | Gct | Tct | 3 | 3 | N.5 | 0.0053 |
S | 892 | A892S | Gct | Tct | 3 | 3 | P.4 | 0.011407 |
S | 892 | A892S | Gct | Tct | 2 | 2 | A.3 | 0.004193 |
S | 892 | A892S | Gct | Tct | 2 | 2 | AY.105 | 0.001286 |
S | 892 | A892S | Gct | Tct | 2 | 2 | AY.111 | 0.000366 |
S | 892 | A892S | Gct | Tct | 2 | 2 | AY.120 | 0.000074 |
S | 892 | A892S | Gct | Tct | 2 | 2 | AY.14 | 0.000176 |
S | 892 | A892S | Gct | Tct | 2 | 2 | AY.33 | 0.000134 |
S | 892 | A892S | Gct | Tct | 2 | 2 | AY.4.4 | 0.000818 |
S | 892 | A892S | Gct | Tct | 2 | 2 | AY.46.6 | 0.000144 |
S | 892 | A892S | Gct | Tct | 2 | 2 | AY.48 | 0.00093 |
S | 892 | A892S | Gct | Tct | 2 | 2 | AY.9.1 | 0.000167 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.1.204 | 0.006079 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.1.306 | 0.000877 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.1.326 | 0.003521 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.160.14 | 0.004237 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.240 | 0.000431 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.243 | 0.000139 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.258.17 | 0.000208 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.36.29 | 0.001035 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.36.7 | 0.008 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.375 | 0.001639 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.417 | 0.057143 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.428 | 0.002041 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.479 | 0.076923 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.525 | 0.000226 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.595 | 0.000522 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.596 | 0.000174 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.600 | 0.011696 |
S | 892 | A892S | Gct | Tct | 2 | 2 | B.1.621 | 0.000177 |
S | 892 | A892S | Gct | Tct | 2 | 2 | C.36.3 | 0.001134 |
S | 892 | A892S | Gct | Tct | 2 | 2 | P.2 | 0.000373 |
S | 892 | A892S | Gct | Tct | 2 | 2 | Q.1 | 0.000253 |
S | 892 | A892S | Gct | Tct | 1 | 1 | A.1 | 0.000282 |
S | 892 | A892S | Gct | Tct | 1 | 1 | A.2 | 0.000662 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AH.3 | 0.003802 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.100 | 0.000046 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.101 | 0.00049 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.106 | 0.000335 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.108 | 0.001103 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.114 | 0.000231 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.118 | 0.000063 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.119 | 0.000035 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.120.2 | 0.001285 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.120.2.1 | 0.000498 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.13 | 0.000161 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.23 | 0.00007 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.26 | 0.000028 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.28 | 0.00189 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.38 | 0.000499 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.4.2.1 | 0.000149 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.40 | 0.000964 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.45 | 0.000122 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.46 | 0.000104 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.47 | 0.000031 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.75.1 | 0.00018 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.9.2 | 0.000037 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.98 | 0.000079 |
S | 892 | A892S | Gct | Tct | 1 | 1 | AY.99.1 | 0.001553 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.1.1 | 0.000327 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.1.161 | 0.003534 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.1.222 | 0.000204 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.1.225 | 0.007194 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.1.311 | 0.000358 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.1.329 | 0.003846 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.1.367 | 0.055556 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.1.409 | 0.002833 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.128 | 0.000635 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.177.33 | 0.001645 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.177.56 | 0.000668 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.177.8 | 0.000752 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.177.81 | 0.000189 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.206 | 0.000816 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.210 | 0.002132 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.221 | 0.000071 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.222 | 0.001692 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.265 | 0.001271 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.311 | 0.000275 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.35 | 0.008475 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.383 | 0.009009 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.400 | 0.000429 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.409 | 0.000781 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.427 | 0.00005 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.438.1 | 0.000107 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.500 | 0.052632 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.528 | 0.047619 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.570 | 0.002941 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.582 | 0.000491 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.597 | 0.00463 |
S | 892 | A892S | Gct | Tct | 1 | 1 | B.1.9 | 0.006173 |
S | 892 | A892S | Gct | Tct | 1 | 1 | C.2 | 0.016129 |
S | 892 | A892S | Gct | Tct | 1 | 1 | C.37 | 0.000116 |
S | 892 | A892S | Gct | Tct | 1 | 1 | P.1.10 | 0.000269 |
S | 892 | A892S | Gct | Tct | 1 | 1 | Q.7 | 0.001111 |
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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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