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 | 65 | F65del | del | TTC | --- | 1135 | 1135 | 1 | 21755-21757 |
Details of the mutation F65del 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 | 65 | F65del | TTC | --- | 1135 | 1135 | All | 0.000217 |
S | 65 | F65del | TTC | --- | 283 | 283 | C.37 | 0.032846 |
S | 65 | F65del | TTC | --- | 108 | 108 | AY.43 | 0.000478 |
S | 65 | F65del | TTC | --- | 82 | 82 | B.1.1.7 | 0.000073 |
S | 65 | F65del | TTC | --- | 79 | 79 | B.1.617.2 | 0.000297 |
S | 65 | F65del | TTC | --- | 62 | 62 | AY.4 | 0.000096 |
S | 65 | F65del | TTC | --- | 48 | 48 | AY.44 | 0.000292 |
S | 65 | F65del | TTC | --- | 41 | 41 | AY.25 | 0.000247 |
S | 65 | F65del | TTC | --- | 35 | 35 | AY.9 | 0.002366 |
S | 65 | F65del | TTC | --- | 20 | 20 | AY.103 | 0.000124 |
S | 65 | F65del | TTC | --- | 19 | 19 | AY.3 | 0.000189 |
S | 65 | F65del | TTC | --- | 17 | 17 | AY.102 | 0.000451 |
S | 65 | F65del | TTC | --- | 15 | 15 | B.1.1 | 0.000272 |
S | 65 | F65del | TTC | --- | 13 | 13 | AY.5 | 0.000268 |
S | 65 | F65del | TTC | --- | 13 | 13 | B.1.177 | 0.000171 |
S | 65 | F65del | TTC | --- | 12 | 12 | AY.34.1 | 0.006119 |
S | 65 | F65del | TTC | --- | 10 | 10 | AY.26 | 0.000283 |
S | 65 | F65del | TTC | --- | 9 | 9 | AY.4.5 | 0.000967 |
S | 65 | F65del | TTC | --- | 9 | 9 | B.1.429 | 0.000212 |
S | 65 | F65del | TTC | --- | 8 | 8 | AY.42 | 0.000322 |
S | 65 | F65del | TTC | --- | 8 | 8 | AY.47 | 0.000249 |
S | 65 | F65del | TTC | --- | 8 | 8 | AY.98 | 0.000632 |
S | 65 | F65del | TTC | --- | 8 | 8 | B.1.177.86 | 0.001468 |
S | 65 | F65del | TTC | --- | 7 | 7 | AY.101 | 0.003433 |
S | 65 | F65del | TTC | --- | 7 | 7 | AY.46 | 0.000729 |
S | 65 | F65del | TTC | --- | 7 | 7 | B.1 | 0.000064 |
S | 65 | F65del | TTC | --- | 6 | 6 | AY.100 | 0.000276 |
S | 65 | F65del | TTC | --- | 6 | 6 | AY.121 | 0.000812 |
S | 65 | F65del | TTC | --- | 6 | 6 | AY.45 | 0.00073 |
S | 65 | F65del | TTC | --- | 6 | 6 | P.1 | 0.000095 |
S | 65 | F65del | TTC | --- | 5 | 5 | AY.33 | 0.000334 |
S | 65 | F65del | TTC | --- | 5 | 5 | AY.85 | 0.002136 |
S | 65 | F65del | TTC | --- | 5 | 5 | AY.9.2 | 0.000184 |
S | 65 | F65del | TTC | --- | 5 | 5 | B.1.2 | 0.000044 |
S | 65 | F65del | TTC | --- | 4 | 4 | 0.222222 | |
S | 65 | F65del | TTC | --- | 4 | 4 | AY.119 | 0.000141 |
S | 65 | F65del | TTC | --- | 4 | 4 | AY.20 | 0.000155 |
S | 65 | F65del | TTC | --- | 4 | 4 | AY.39 | 0.000099 |
S | 65 | F65del | TTC | --- | 4 | 4 | AY.61 | 0.000419 |
S | 65 | F65del | TTC | --- | 4 | 4 | AY.99.2 | 0.000369 |
S | 65 | F65del | TTC | --- | 4 | 4 | B.1.108 | 0.023256 |
S | 65 | F65del | TTC | --- | 4 | 4 | B.1.160 | 0.000125 |
S | 65 | F65del | TTC | --- | 4 | 4 | B.1.221 | 0.000284 |
S | 65 | F65del | TTC | --- | 3 | 3 | AY.113 | 0.000427 |
S | 65 | F65del | TTC | --- | 3 | 3 | AY.118 | 0.000188 |
S | 65 | F65del | TTC | --- | 3 | 3 | AY.12 | 0.000948 |
S | 65 | F65del | TTC | --- | 3 | 3 | AY.120 | 0.000112 |
S | 65 | F65del | TTC | --- | 3 | 3 | AY.38 | 0.001498 |
S | 65 | F65del | TTC | --- | 3 | 3 | AY.39.1 | 0.000119 |
S | 65 | F65del | TTC | --- | 3 | 3 | AY.75 | 0.000168 |
S | 65 | F65del | TTC | --- | 3 | 3 | AY.75.1 | 0.000541 |
S | 65 | F65del | TTC | --- | 3 | 3 | AY.9.1 | 0.000251 |
S | 65 | F65del | TTC | --- | 3 | 3 | AY.98.1 | 0.000145 |
S | 65 | F65del | TTC | --- | 3 | 3 | B.1.525 | 0.000339 |
S | 65 | F65del | TTC | --- | 2 | 2 | AY.108 | 0.002205 |
S | 65 | F65del | TTC | --- | 2 | 2 | AY.111 | 0.000366 |
S | 65 | F65del | TTC | --- | 2 | 2 | AY.117 | 0.000169 |
S | 65 | F65del | TTC | --- | 2 | 2 | AY.3.1 | 0.000171 |
S | 65 | F65del | TTC | --- | 2 | 2 | AY.52 | 0.001629 |
S | 65 | F65del | TTC | --- | 2 | 2 | AY.54 | 0.000191 |
S | 65 | F65del | TTC | --- | 2 | 2 | AY.6 | 0.000082 |
S | 65 | F65del | TTC | --- | 2 | 2 | AY.7.2 | 0.001119 |
S | 65 | F65del | TTC | --- | 2 | 2 | AY.71 | 0.00095 |
S | 65 | F65del | TTC | --- | 2 | 2 | AY.94 | 0.000885 |
S | 65 | F65del | TTC | --- | 2 | 2 | B.1.177.81 | 0.000379 |
S | 65 | F65del | TTC | --- | 2 | 2 | B.1.258 | 0.000133 |
S | 65 | F65del | TTC | --- | 2 | 2 | B.1.351 | 0.000059 |
S | 65 | F65del | TTC | --- | 2 | 2 | R.1 | 0.00018 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.105 | 0.000643 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.14 | 0.000088 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.24 | 0.000431 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.29 | 0.000016 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.30 | 0.000396 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.34 | 0.000097 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.39.2 | 0.001541 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.4.2 | 0.000022 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.4.2.1 | 0.000149 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.4.4 | 0.000409 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.46.5 | 0.000198 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.46.6 | 0.000072 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.5.3 | 0.000337 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.5.4 | 0.000277 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.59 | 0.00053 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.60 | 0.000938 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.64 | 0.000595 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.67 | 0.000464 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.68 | 0.000274 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.70 | 0.000209 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.72 | 0.001361 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.73 | 0.000665 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.74 | 0.000116 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.84 | 0.000437 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.92 | 0.000287 |
S | 65 | F65del | TTC | --- | 1 | 1 | AY.99 | 0.001049 |
S | 65 | F65del | TTC | --- | 1 | 1 | AZ.2 | 0.000821 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.1.118 | 0.010204 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.1.148 | 0.008772 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.1.216 | 0.00089 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.1.306 | 0.000438 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.1.311 | 0.000358 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.1.312 | 0.001912 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.1.315 | 0.008475 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.1.318 | 0.000302 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.1.361 | 0.045455 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.1.434 | 0.000349 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.1.523 | 0.001563 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.1.70 | 0.000341 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.160.32 | 0.004292 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.177.15 | 0.000631 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.177.16 | 0.000664 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.177.17 | 0.000821 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.177.18 | 0.00116 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.177.21 | 0.000076 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.177.4 | 0.000211 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.177.51 | 0.004566 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.177.56 | 0.000668 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.177.57 | 0.000281 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.177.77 | 0.000726 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.177.83 | 0.001481 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.179 | 0.003759 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.239 | 0.001221 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.258.24 | 0.010753 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.391 | 0.001127 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.427 | 0.00005 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.596 | 0.000087 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.620 | 0.000946 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.621 | 0.000089 |
S | 65 | F65del | TTC | --- | 1 | 1 | B.1.637 | 0.000073 |
S | 65 | F65del | TTC | --- | 1 | 1 | C.35 | 0.000774 |
S | 65 | F65del | TTC | --- | 1 | 1 | C.36.3 | 0.000567 |
S | 65 | F65del | TTC | --- | 1 | 1 | P.1.10.1 | 0.00813 |
S | 65 | F65del | TTC | --- | 1 | 1 | P.1.12 | 0.000484 |
S | 65 | F65del | TTC | --- | 1 | 1 | Q.1 | 0.000126 |
S | 65 | F65del | TTC | --- | 1 | 1 | U.3 | 0.003861 |
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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