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 |
E | 49 | V49L | nonsyn | Gtg | Ttg | 2654 | 2645 | 0.996609 | 26389-26391 | |
E | 49 | V49L | nonsyn | Gtg | Ctg | 2654 | 9 | 0.00339111 | 26389-26391 |
Details of the mutation V49L 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 |
E | 49 | V49L | Gtg | Ttg | 2645 | 2654 | All | 0.000506 |
E | 49 | V49L | Gtg | Ctg | 9 | 2654 | All | 0.000002 |
E | 49 | V49L | Gtg | Ttg | 668 | 671 | B.1.1.7 | 0.000598 |
E | 49 | V49L | Gtg | Ctg | 3 | 671 | B.1.1.7 | 0.000003 |
E | 49 | V49L | Gtg | Ttg | 435 | 435 | AY.3 | 0.004327 |
E | 49 | V49L | Gtg | Ttg | 237 | 238 | AY.4 | 0.000369 |
E | 49 | V49L | Gtg | Ctg | 1 | 238 | AY.4 | 0.000002 |
E | 49 | V49L | Gtg | Ttg | 184 | 184 | B.1.590 | 0.836364 |
E | 49 | V49L | Gtg | Ttg | 159 | 160 | B.1.2 | 0.0014 |
E | 49 | V49L | Gtg | Ctg | 1 | 160 | B.1.2 | 0.000009 |
E | 49 | V49L | Gtg | Ttg | 102 | 102 | B.1.617.2 | 0.000384 |
E | 49 | V49L | Gtg | Ttg | 95 | 95 | AY.33 | 0.006344 |
E | 49 | V49L | Gtg | Ttg | 54 | 54 | AY.103 | 0.000335 |
E | 49 | V49L | Gtg | Ttg | 46 | 49 | B.1 | 0.000421 |
E | 49 | V49L | Gtg | Ctg | 3 | 49 | B.1 | 0.000027 |
E | 49 | V49L | Gtg | Ttg | 43 | 43 | B.1.1 | 0.00078 |
E | 49 | V49L | Gtg | Ttg | 31 | 31 | AY.43 | 0.000137 |
E | 49 | V49L | Gtg | Ttg | 31 | 31 | B.1.1.519 | 0.001231 |
E | 49 | V49L | Gtg | Ttg | 27 | 27 | B.1.36.29 | 0.013968 |
E | 49 | V49L | Gtg | Ttg | 25 | 25 | P.1 | 0.000394 |
E | 49 | V49L | Gtg | Ttg | 23 | 23 | AY.44 | 0.00014 |
E | 49 | V49L | Gtg | Ttg | 20 | 20 | AY.120 | 0.000744 |
E | 49 | V49L | Gtg | Ttg | 20 | 20 | AY.47 | 0.000622 |
E | 49 | V49L | Gtg | Ttg | 19 | 19 | AY.9.2 | 0.000698 |
E | 49 | V49L | Gtg | Ttg | 15 | 15 | B.1.526 | 0.000353 |
E | 49 | V49L | Gtg | Ttg | 15 | 15 | Q.8 | 0.002474 |
E | 49 | V49L | Gtg | Ttg | 14 | 14 | AY.5 | 0.000289 |
E | 49 | V49L | Gtg | Ttg | 13 | 13 | AY.117 | 0.001099 |
E | 49 | V49L | Gtg | Ttg | 13 | 13 | B.1.36.23 | 0.213115 |
E | 49 | V49L | Gtg | Ttg | 12 | 12 | AY.9 | 0.000811 |
E | 49 | V49L | Gtg | Ttg | 11 | 11 | AY.102 | 0.000292 |
E | 49 | V49L | Gtg | Ttg | 9 | 10 | B.1.177 | 0.000119 |
E | 49 | V49L | Gtg | Ctg | 1 | 10 | B.1.177 | 0.000013 |
E | 49 | V49L | Gtg | Ttg | 10 | 10 | B.1.177.57 | 0.00281 |
E | 49 | V49L | Gtg | Ttg | 10 | 10 | B.1.240 | 0.002156 |
E | 49 | V49L | Gtg | Ttg | 9 | 9 | AY.20 | 0.00035 |
E | 49 | V49L | Gtg | Ttg | 9 | 9 | AY.39 | 0.000222 |
E | 49 | V49L | Gtg | Ttg | 9 | 9 | B.1.1.523 | 0.014063 |
E | 49 | V49L | Gtg | Ttg | 8 | 8 | AY.25 | 0.000048 |
E | 49 | V49L | Gtg | Ttg | 8 | 8 | AY.4.2 | 0.000174 |
E | 49 | V49L | Gtg | Ttg | 8 | 8 | AY.68 | 0.00219 |
E | 49 | V49L | Gtg | Ttg | 8 | 8 | B.1.429 | 0.000188 |
E | 49 | V49L | Gtg | Ttg | 8 | 8 | B.1.466.2 | 0.00313 |
E | 49 | V49L | Gtg | Ttg | 8 | 8 | P.1.7 | 0.002554 |
E | 49 | V49L | Gtg | Ttg | 8 | 8 | P.2 | 0.001493 |
E | 49 | V49L | Gtg | Ttg | 7 | 7 | B.1.427 | 0.000353 |
E | 49 | V49L | Gtg | Ttg | 6 | 6 | AY.21 | 0.011385 |
E | 49 | V49L | Gtg | Ttg | 6 | 6 | AY.6 | 0.000247 |
E | 49 | V49L | Gtg | Ttg | 6 | 6 | AY.99.2 | 0.000553 |
E | 49 | V49L | Gtg | Ttg | 5 | 5 | AY.10 | 0.00265 |
E | 49 | V49L | Gtg | Ttg | 5 | 5 | AY.114 | 0.001156 |
E | 49 | V49L | Gtg | Ttg | 5 | 5 | AY.29 | 0.000079 |
E | 49 | V49L | Gtg | Ttg | 5 | 5 | AY.42 | 0.000201 |
E | 49 | V49L | Gtg | Ttg | 5 | 5 | AY.74 | 0.000578 |
E | 49 | V49L | Gtg | Ttg | 5 | 5 | AY.75 | 0.00028 |
E | 49 | V49L | Gtg | Ttg | 5 | 5 | B.1.160 | 0.000156 |
E | 49 | V49L | Gtg | Ttg | 5 | 5 | B.1.258.17 | 0.00052 |
E | 49 | V49L | Gtg | Ttg | 4 | 4 | AY.100 | 0.000184 |
E | 49 | V49L | Gtg | Ttg | 4 | 4 | AY.14 | 0.000352 |
E | 49 | V49L | Gtg | Ttg | 4 | 4 | AY.62 | 0.001743 |
E | 49 | V49L | Gtg | Ttg | 4 | 4 | B.1.595 | 0.001044 |
E | 49 | V49L | Gtg | Ttg | 4 | 4 | B.1.617.1 | 0.000516 |
E | 49 | V49L | Gtg | Ttg | 3 | 3 | AY.110 | 0.000338 |
E | 49 | V49L | Gtg | Ttg | 3 | 3 | AY.23 | 0.000209 |
E | 49 | V49L | Gtg | Ttg | 3 | 3 | AY.26 | 0.000085 |
E | 49 | V49L | Gtg | Ttg | 3 | 3 | AY.3.1 | 0.000256 |
E | 49 | V49L | Gtg | Ttg | 3 | 3 | AY.92 | 0.000862 |
E | 49 | V49L | Gtg | Ttg | 3 | 3 | B.1.1.216 | 0.002671 |
E | 49 | V49L | Gtg | Ttg | 3 | 3 | B.1.177.12 | 0.000455 |
E | 49 | V49L | Gtg | Ttg | 3 | 3 | B.1.36 | 0.000438 |
E | 49 | V49L | Gtg | Ttg | 3 | 3 | B.1.398 | 0.008929 |
E | 49 | V49L | Gtg | Ttg | 3 | 3 | B.1.465 | 0.011407 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | 0.111111 | |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | AD.2 | 0.000438 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | AY.113 | 0.000285 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | AY.118 | 0.000125 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | AY.2 | 0.000712 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | AY.30 | 0.000791 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | AY.61 | 0.00021 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | AY.65 | 0.001066 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | AY.69 | 0.000373 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | B | 0.000256 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | B.1.1.28 | 0.000622 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | B.1.177.73 | 0.001133 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | B.1.438.1 | 0.000215 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | B.1.596 | 0.000174 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | B.1.637 | 0.000146 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | D.2 | 0.00015 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | P.1.17 | 0.000324 |
E | 49 | V49L | Gtg | Ttg | 2 | 2 | P.3 | 0.00319 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | A | 0.000387 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | A.2.5 | 0.000499 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.101 | 0.00049 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.105 | 0.000643 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.106 | 0.000335 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.107 | 0.000466 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.119 | 0.000035 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.121 | 0.000135 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.16 | 0.00038 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.32 | 0.000532 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.34 | 0.000097 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.35 | 0.000233 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.39.1 | 0.00004 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.4.5 | 0.000107 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.45 | 0.000122 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.46 | 0.000104 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.46.4 | 0.000165 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.48 | 0.000465 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.5.3 | 0.000337 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.54 | 0.000095 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.59 | 0.00053 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.70 | 0.000209 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.71 | 0.000475 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.75.1 | 0.00018 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.84 | 0.000437 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.85 | 0.000427 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.9.1 | 0.000084 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.93 | 0.000273 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | AY.98.1 | 0.000048 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.1.1 | 0.000327 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.1.148 | 0.008772 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.1.176 | 0.000439 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.1.222 | 0.000204 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.1.226 | 0.005814 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.1.294 | 0.001266 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.1.326 | 0.001761 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.1.33 | 0.000421 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.1.372 | 0.000689 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.13 | 0.002375 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.160.15 | 0.00495 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.160.22 | 0.006757 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.177.16 | 0.000664 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.177.44 | 0.000519 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.177.60 | 0.000218 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.177.65 | 0.000665 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.177.8 | 0.000752 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.214 | 0.003663 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.247 | 0.014925 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.258.7 | 0.001912 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.289 | 0.00266 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.349 | 0.000715 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.351 | 0.00003 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.36.16 | 0.001425 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.36.22 | 0.001208 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.381 | 0.007812 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.396 | 0.000706 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.416 | 0.001269 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.416.1 | 0.001563 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.428 | 0.00102 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.456 | 0.003268 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.470 | 0.001404 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.582 | 0.000491 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | B.1.621 | 0.000089 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | C.1 | 0.002392 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | C.35 | 0.000774 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | C.36 | 0.000911 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | P.1.10.2 | 0.041667 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | P.1.12 | 0.000484 |
E | 49 | V49L | Gtg | Ttg | 1 | 1 | P.1.15 | 0.000232 |
E | 49 | V49L | Gtg | Ttg | 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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