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 | 694 | A694V | nonsyn | gCc | gTc | 1804 | 1802 | 0.998891 | 23642-23644 | |
S | 694 | A694V | nonsyn | gCC | gTA | 1804 | 2 | 0.00110865 | 23642-23644 |
Details of the mutation A694V 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 | 694 | A694V | gCc | gTc | 1802 | 1804 | All | 0.000345 |
S | 694 | A694V | gCC | gTA | 2 | 1804 | All | 0 |
S | 694 | A694V | gCc | gTc | 437 | 437 | AY.81 | 0.870518 |
S | 694 | A694V | gCc | gTc | 303 | 303 | B.1.1.7 | 0.000271 |
S | 694 | A694V | gCc | gTc | 171 | 171 | B.1.617.2 | 0.000644 |
S | 694 | A694V | gCc | gTc | 131 | 131 | AY.25 | 0.000788 |
S | 694 | A694V | gCc | gTc | 128 | 129 | AY.3 | 0.001273 |
S | 694 | A694V | gCC | gTA | 1 | 129 | AY.3 | 0.00001 |
S | 694 | A694V | gCc | gTc | 85 | 86 | AY.43 | 0.000377 |
S | 694 | A694V | gCC | gTA | 1 | 86 | AY.43 | 0.000004 |
S | 694 | A694V | gCc | gTc | 86 | 86 | AY.44 | 0.000523 |
S | 694 | A694V | gCc | gTc | 73 | 73 | P.1.1 | 0.023189 |
S | 694 | A694V | gCc | gTc | 43 | 43 | B.1.2 | 0.000379 |
S | 694 | A694V | gCc | gTc | 38 | 38 | AY.4 | 0.000059 |
S | 694 | A694V | gCc | gTc | 34 | 34 | AY.103 | 0.000211 |
S | 694 | A694V | gCc | gTc | 17 | 17 | B.1.1 | 0.000308 |
S | 694 | A694V | gCc | gTc | 14 | 14 | AY.100 | 0.000644 |
S | 694 | A694V | gCc | gTc | 13 | 13 | B.1.160 | 0.000405 |
S | 694 | A694V | gCc | gTc | 12 | 12 | AY.39 | 0.000297 |
S | 694 | A694V | gCc | gTc | 10 | 10 | B.1.177.21 | 0.000765 |
S | 694 | A694V | gCc | gTc | 10 | 10 | B.1.351 | 0.000297 |
S | 694 | A694V | gCc | gTc | 9 | 9 | B.1 | 0.000082 |
S | 694 | A694V | gCc | gTc | 9 | 9 | B.1.427 | 0.000454 |
S | 694 | A694V | gCc | gTc | 9 | 9 | B.1.526 | 0.000212 |
S | 694 | A694V | gCc | gTc | 8 | 8 | B.1.1.519 | 0.000318 |
S | 694 | A694V | gCc | gTc | 7 | 7 | B.1.177.33 | 0.011513 |
S | 694 | A694V | gCc | gTc | 6 | 6 | AY.102 | 0.000159 |
S | 694 | A694V | gCc | gTc | 5 | 5 | AY.13 | 0.000805 |
S | 694 | A694V | gCc | gTc | 5 | 5 | B.1.147 | 0.003779 |
S | 694 | A694V | gCc | gTc | 5 | 5 | B.1.177 | 0.000066 |
S | 694 | A694V | gCc | gTc | 4 | 4 | AY.117 | 0.000338 |
S | 694 | A694V | gCc | gTc | 4 | 4 | AY.20 | 0.000155 |
S | 694 | A694V | gCc | gTc | 4 | 4 | AY.23 | 0.000279 |
S | 694 | A694V | gCc | gTc | 4 | 4 | AY.26 | 0.000113 |
S | 694 | A694V | gCc | gTc | 4 | 4 | AY.4.2 | 0.000087 |
S | 694 | A694V | gCc | gTc | 4 | 4 | B.1.1.306 | 0.001754 |
S | 694 | A694V | gCc | gTc | 4 | 4 | B.1.429 | 0.000094 |
S | 694 | A694V | gCc | gTc | 4 | 4 | B.1.617.1 | 0.000516 |
S | 694 | A694V | gCc | gTc | 4 | 4 | B.1.621 | 0.000354 |
S | 694 | A694V | gCc | gTc | 4 | 4 | P.1 | 0.000063 |
S | 694 | A694V | gCc | gTc | 4 | 4 | Q.1 | 0.000505 |
S | 694 | A694V | gCc | gTc | 3 | 3 | AY.119 | 0.000106 |
S | 694 | A694V | gCc | gTc | 3 | 3 | AY.22 | 0.006276 |
S | 694 | A694V | gCc | gTc | 3 | 3 | AY.34 | 0.000291 |
S | 694 | A694V | gCc | gTc | 3 | 3 | B.1.1.1 | 0.00098 |
S | 694 | A694V | gCc | gTc | 3 | 3 | B.1.548 | 0.107143 |
S | 694 | A694V | gCc | gTc | 2 | 2 | AY.3.1 | 0.000171 |
S | 694 | A694V | gCc | gTc | 2 | 2 | AY.36 | 0.000296 |
S | 694 | A694V | gCc | gTc | 2 | 2 | AY.4.2.1 | 0.000298 |
S | 694 | A694V | gCc | gTc | 2 | 2 | AY.42 | 0.00008 |
S | 694 | A694V | gCc | gTc | 2 | 2 | AY.5 | 0.000041 |
S | 694 | A694V | gCc | gTc | 2 | 2 | AY.54 | 0.000191 |
S | 694 | A694V | gCc | gTc | 2 | 2 | AY.55 | 0.001835 |
S | 694 | A694V | gCc | gTc | 2 | 2 | AY.59 | 0.001059 |
S | 694 | A694V | gCc | gTc | 2 | 2 | AY.75 | 0.000112 |
S | 694 | A694V | gCc | gTc | 2 | 2 | AY.98.1 | 0.000097 |
S | 694 | A694V | gCc | gTc | 2 | 2 | B.1.1.362 | 0.011236 |
S | 694 | A694V | gCc | gTc | 2 | 2 | B.1.177.2 | 0.009091 |
S | 694 | A694V | gCc | gTc | 2 | 2 | B.1.221 | 0.000142 |
S | 694 | A694V | gCc | gTc | 2 | 2 | B.1.234 | 0.000264 |
S | 694 | A694V | gCc | gTc | 2 | 2 | D.2 | 0.00015 |
S | 694 | A694V | gCc | gTc | 1 | 1 | A.3 | 0.002096 |
S | 694 | A694V | gCc | gTc | 1 | 1 | AE.2 | 0.058824 |
S | 694 | A694V | gCc | gTc | 1 | 1 | AY.107 | 0.000466 |
S | 694 | A694V | gCc | gTc | 1 | 1 | AY.111 | 0.000183 |
S | 694 | A694V | gCc | gTc | 1 | 1 | AY.12 | 0.000316 |
S | 694 | A694V | gCc | gTc | 1 | 1 | AY.16.1 | 0.00047 |
S | 694 | A694V | gCc | gTc | 1 | 1 | AY.32 | 0.000532 |
S | 694 | A694V | gCc | gTc | 1 | 1 | AY.39.1 | 0.00004 |
S | 694 | A694V | gCc | gTc | 1 | 1 | AY.4.5 | 0.000107 |
S | 694 | A694V | gCc | gTc | 1 | 1 | AY.5.4 | 0.000277 |
S | 694 | A694V | gCc | gTc | 1 | 1 | AY.61 | 0.000105 |
S | 694 | A694V | gCc | gTc | 1 | 1 | AY.71 | 0.000475 |
S | 694 | A694V | gCc | gTc | 1 | 1 | AY.74 | 0.000116 |
S | 694 | A694V | gCc | gTc | 1 | 1 | AY.75.1 | 0.00018 |
S | 694 | A694V | gCc | gTc | 1 | 1 | AY.92 | 0.000287 |
S | 694 | A694V | gCc | gTc | 1 | 1 | AY.99.2 | 0.000092 |
S | 694 | A694V | gCc | gTc | 1 | 1 | AZ.2 | 0.000821 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B | 0.000128 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.1.308 | 0.011765 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.1.317 | 0.000412 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.1.318 | 0.000302 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.1.409 | 0.002833 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.1.424 | 0.045455 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.1.434 | 0.000349 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.112 | 0.005181 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.177.56 | 0.000668 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.177.57 | 0.000281 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.177.60 | 0.000218 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.240 | 0.000216 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.258 | 0.000067 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.311 | 0.000275 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.36.8 | 0.001 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.361 | 0.001289 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.400 | 0.000429 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.438.1 | 0.000107 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.465 | 0.003802 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.575.1 | 0.002439 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.582 | 0.000491 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.596 | 0.000087 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.1.623 | 0.000536 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.3 | 0.000831 |
S | 694 | A694V | gCc | gTc | 1 | 1 | B.58 | 0.010204 |
S | 694 | A694V | gCc | gTc | 1 | 1 | C.26 | 0.007353 |
S | 694 | A694V | gCc | gTc | 1 | 1 | P.1.15 | 0.000232 |
S | 694 | A694V | gCc | gTc | 1 | 1 | R.1 | 0.00009 |
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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