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 |
M | 3 | D3G | nonsyn | gAt | gGt | 4354 | 4354 | 1 | 26529-26531 |
Details of the mutation D3G 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 |
M | 3 | D3G | gAt | gGt | 4354 | 4354 | All | 0.000833 |
M | 3 | D3G | gAt | gGt | 1548 | 1548 | B.1 | 0.014179 |
M | 3 | D3G | gAt | gGt | 1533 | 1533 | B.1.128 | 0.973952 |
M | 3 | D3G | gAt | gGt | 449 | 449 | B.1.127 | 0.986813 |
M | 3 | D3G | gAt | gGt | 135 | 135 | B.1.617.2 | 0.000508 |
M | 3 | D3G | gAt | gGt | 99 | 99 | B.1.1.7 | 0.000089 |
M | 3 | D3G | gAt | gGt | 63 | 63 | AY.44 | 0.000383 |
M | 3 | D3G | gAt | gGt | 53 | 53 | B.1.96 | 1 |
M | 3 | D3G | gAt | gGt | 40 | 40 | B.1.205 | 0.952381 |
M | 3 | D3G | gAt | gGt | 39 | 39 | B.1.140 | 0.735849 |
M | 3 | D3G | gAt | gGt | 39 | 39 | B.1.97 | 1 |
M | 3 | D3G | gAt | gGt | 35 | 35 | AY.4 | 0.000054 |
M | 3 | D3G | gAt | gGt | 23 | 23 | B.1.2 | 0.000203 |
M | 3 | D3G | gAt | gGt | 18 | 18 | B.1.1 | 0.000327 |
M | 3 | D3G | gAt | gGt | 17 | 17 | AY.103 | 0.000106 |
M | 3 | D3G | gAt | gGt | 15 | 15 | B.1.177 | 0.000198 |
M | 3 | D3G | gAt | gGt | 12 | 12 | B.1.397 | 0.058252 |
M | 3 | D3G | gAt | gGt | 11 | 11 | AY.43 | 0.000049 |
M | 3 | D3G | gAt | gGt | 10 | 10 | AY.102 | 0.000265 |
M | 3 | D3G | gAt | gGt | 9 | 9 | AY.25 | 0.000054 |
M | 3 | D3G | gAt | gGt | 8 | 8 | B.1.177.82 | 0.003819 |
M | 3 | D3G | gAt | gGt | 8 | 8 | P.1 | 0.000126 |
M | 3 | D3G | gAt | gGt | 7 | 7 | AY.39 | 0.000173 |
M | 3 | D3G | gAt | gGt | 7 | 7 | B.1.241 | 0.005682 |
M | 3 | D3G | gAt | gGt | 6 | 6 | AY.27 | 0.000388 |
M | 3 | D3G | gAt | gGt | 6 | 6 | AY.98.1 | 0.000291 |
M | 3 | D3G | gAt | gGt | 6 | 6 | AY.99.2 | 0.000553 |
M | 3 | D3G | gAt | gGt | 5 | 5 | AY.13 | 0.000805 |
M | 3 | D3G | gAt | gGt | 5 | 5 | AY.3 | 0.00005 |
M | 3 | D3G | gAt | gGt | 5 | 5 | AY.40 | 0.004822 |
M | 3 | D3G | gAt | gGt | 5 | 5 | AY.9.2 | 0.000184 |
M | 3 | D3G | gAt | gGt | 5 | 5 | B.1.582 | 0.002453 |
M | 3 | D3G | gAt | gGt | 4 | 4 | AY.20 | 0.000155 |
M | 3 | D3G | gAt | gGt | 4 | 4 | AY.47 | 0.000124 |
M | 3 | D3G | gAt | gGt | 4 | 4 | AY.54 | 0.000381 |
M | 3 | D3G | gAt | gGt | 4 | 4 | AY.59 | 0.002119 |
M | 3 | D3G | gAt | gGt | 4 | 4 | B | 0.000511 |
M | 3 | D3G | gAt | gGt | 4 | 4 | B.1.177.16 | 0.002658 |
M | 3 | D3G | gAt | gGt | 4 | 4 | B.1.243 | 0.000278 |
M | 3 | D3G | gAt | gGt | 3 | 3 | AY.29.1 | 0.000662 |
M | 3 | D3G | gAt | gGt | 3 | 3 | AY.34 | 0.000291 |
M | 3 | D3G | gAt | gGt | 3 | 3 | AY.35 | 0.000699 |
M | 3 | D3G | gAt | gGt | 3 | 3 | AY.67 | 0.001393 |
M | 3 | D3G | gAt | gGt | 3 | 3 | AY.68 | 0.000821 |
M | 3 | D3G | gAt | gGt | 3 | 3 | AY.9.1 | 0.000251 |
M | 3 | D3G | gAt | gGt | 3 | 3 | B.1.1.369 | 0.001339 |
M | 3 | D3G | gAt | gGt | 3 | 3 | B.1.160 | 0.000094 |
M | 3 | D3G | gAt | gGt | 3 | 3 | B.1.258 | 0.0002 |
M | 3 | D3G | gAt | gGt | 3 | 3 | B.1.623 | 0.001609 |
M | 3 | D3G | gAt | gGt | 3 | 3 | B.1.8 | 0.005917 |
M | 3 | D3G | gAt | gGt | 2 | 2 | AY.26 | 0.000057 |
M | 3 | D3G | gAt | gGt | 2 | 2 | AY.33 | 0.000134 |
M | 3 | D3G | gAt | gGt | 2 | 2 | AY.42 | 0.00008 |
M | 3 | D3G | gAt | gGt | 2 | 2 | AY.75 | 0.000112 |
M | 3 | D3G | gAt | gGt | 2 | 2 | AY.8 | 0.001212 |
M | 3 | D3G | gAt | gGt | 2 | 2 | B.1.1.10 | 0.00223 |
M | 3 | D3G | gAt | gGt | 2 | 2 | B.1.1.466 | 0.017391 |
M | 3 | D3G | gAt | gGt | 2 | 2 | B.1.160.14 | 0.004237 |
M | 3 | D3G | gAt | gGt | 2 | 2 | B.1.177.73 | 0.001133 |
M | 3 | D3G | gAt | gGt | 2 | 2 | B.1.351 | 0.000059 |
M | 3 | D3G | gAt | gGt | 2 | 2 | B.1.36.18 | 0.00084 |
M | 3 | D3G | gAt | gGt | 2 | 2 | B.1.391 | 0.002255 |
M | 3 | D3G | gAt | gGt | 1 | 1 | A | 0.000387 |
M | 3 | D3G | gAt | gGt | 1 | 1 | A.1 | 0.000282 |
M | 3 | D3G | gAt | gGt | 1 | 1 | AY.100 | 0.000046 |
M | 3 | D3G | gAt | gGt | 1 | 1 | AY.107 | 0.000466 |
M | 3 | D3G | gAt | gGt | 1 | 1 | AY.113 | 0.000142 |
M | 3 | D3G | gAt | gGt | 1 | 1 | AY.119 | 0.000035 |
M | 3 | D3G | gAt | gGt | 1 | 1 | AY.23 | 0.00007 |
M | 3 | D3G | gAt | gGt | 1 | 1 | AY.37 | 0.000316 |
M | 3 | D3G | gAt | gGt | 1 | 1 | AY.4.2.1 | 0.000149 |
M | 3 | D3G | gAt | gGt | 1 | 1 | AY.45 | 0.000122 |
M | 3 | D3G | gAt | gGt | 1 | 1 | AY.49 | 0.003195 |
M | 3 | D3G | gAt | gGt | 1 | 1 | AY.51 | 0.000909 |
M | 3 | D3G | gAt | gGt | 1 | 1 | AY.7.2 | 0.000559 |
M | 3 | D3G | gAt | gGt | 1 | 1 | AY.71 | 0.000475 |
M | 3 | D3G | gAt | gGt | 1 | 1 | AY.74 | 0.000116 |
M | 3 | D3G | gAt | gGt | 1 | 1 | AY.9 | 0.000068 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.1.214 | 0.000055 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.1.222 | 0.000204 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.1.25 | 0.000569 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.1.301 | 0.001179 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.1.306 | 0.000438 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.1.318 | 0.000302 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.1.371 | 0.010417 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.1.372 | 0.000689 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.1.519 | 0.00004 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.126 | 0.001276 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.157 | 0.002985 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.177.33 | 0.001645 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.240 | 0.000216 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.279 | 0.000514 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.298 | 0.002114 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.311 | 0.000275 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.35 | 0.008475 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.36.16 | 0.001425 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.393 | 0.028571 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.398 | 0.002976 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.429 | 0.000024 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.459 | 0.004082 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.517 | 0.000427 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.565 | 0.00081 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.595 | 0.000261 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.599 | 0.00365 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.601 | 0.030303 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.619.1 | 0.000641 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.1.621 | 0.000089 |
M | 3 | D3G | gAt | gGt | 1 | 1 | B.35 | 0.007812 |
M | 3 | D3G | gAt | gGt | 1 | 1 | C.36.3 | 0.000567 |
M | 3 | D3G | gAt | gGt | 1 | 1 | Q.8 | 0.000165 |
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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