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 | 924 | A924A | syn | gcC | gcT | 27014 | 26525 | 0.981898 | 24332-24334 |
Details of the mutation no 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 | 924 | A924A | gcC | gcT | 26525 | 27014 | All | 0.005073 |
S | 924 | A924A | gcC | gcT | 22947 | 22947 | B.1.177 | 0.302157 |
S | 924 | A924A | gcC | gcT | 1239 | 1239 | B.1.351.5 | 0.742806 |
S | 924 | A924A | gcC | gcT | 837 | 849 | B.1.1.7 | 0.000749 |
S | 924 | A924A | gcC | gcT | 357 | 357 | B.1.177.63 | 0.964865 |
S | 924 | A924A | gcC | gcT | 27 | 337 | AY.44 | 0.000164 |
S | 924 | A924A | gcC | gcT | 225 | 236 | AY.4 | 0.00035 |
S | 924 | A924A | gcC | gcT | 151 | 154 | B.1 | 0.001383 |
S | 924 | A924A | gcC | gcT | 66 | 66 | B.1.177.68 | 1 |
S | 924 | A924A | gcC | gcT | 64 | 64 | AY.43 | 0.000284 |
S | 924 | A924A | gcC | gcT | 42 | 53 | B.1.617.2 | 0.000158 |
S | 924 | A924A | gcC | gcT | 32 | 41 | AY.25 | 0.000192 |
S | 924 | A924A | gcC | gcT | 40 | 40 | AY.91 | 0.029218 |
S | 924 | A924A | gcC | gcT | 33 | 33 | AY.6 | 0.001357 |
S | 924 | A924A | gcC | gcT | 27 | 27 | AY.102 | 0.000716 |
S | 924 | A924A | gcC | gcT | 26 | 26 | R.1 | 0.00234 |
S | 924 | A924A | gcC | gcT | 22 | 23 | B.1.1 | 0.000399 |
S | 924 | A924A | gcC | gcT | 19 | 19 | AY.42 | 0.000764 |
S | 924 | A924A | gcC | gcT | 9 | 19 | B.1.2 | 0.000079 |
S | 924 | A924A | gcC | gcT | 18 | 18 | B.1.351 | 0.000535 |
S | 924 | A924A | gcC | gcT | 10 | 17 | AY.20 | 0.000389 |
S | 924 | A924A | gcC | gcT | 15 | 16 | AY.103 | 0.000093 |
S | 924 | A924A | gcC | gcT | 14 | 15 | AY.33 | 0.000935 |
S | 924 | A924A | gcC | gcT | 14 | 15 | P.1 | 0.000221 |
S | 924 | A924A | gcC | gcT | 13 | 13 | B.1.177.9 | 0.01731 |
S | 924 | A924A | gcC | gcT | 11 | 11 | B.1.177.64 | 1 |
S | 924 | A924A | gcC | gcT | 11 | 11 | B.1.575 | 0.003337 |
S | 924 | A924A | gcC | gcT | 9 | 10 | AY.119 | 0.000318 |
S | 924 | A924A | gcC | gcT | 10 | 10 | AY.3 | 0.000099 |
S | 924 | A924A | gcC | gcT | 9 | 9 | AY.5 | 0.000186 |
S | 924 | A924A | gcC | gcT | 8 | 8 | AY.26 | 0.000226 |
S | 924 | A924A | gcC | gcT | 7 | 8 | AY.39 | 0.000173 |
S | 924 | A924A | gcC | gcT | 8 | 8 | AY.5.3 | 0.002699 |
S | 924 | A924A | gcC | gcT | 8 | 8 | AY.99.2 | 0.000737 |
S | 924 | A924A | gcC | gcT | 6 | 7 | AY.23 | 0.000418 |
S | 924 | A924A | gcC | gcT | 7 | 7 | B.1.243 | 0.000487 |
S | 924 | A924A | gcC | gcT | 1 | 6 | AY.36 | 0.000148 |
S | 924 | A924A | gcC | gcT | 6 | 6 | B.1.1.519 | 0.000238 |
S | 924 | A924A | gcC | gcT | 6 | 6 | B.1.177.6 | 0.005859 |
S | 924 | A924A | gcC | gcT | 5 | 5 | AY.100 | 0.00023 |
S | 924 | A924A | gcC | gcT | 5 | 5 | AY.14 | 0.00044 |
S | 924 | A924A | gcC | gcT | 5 | 5 | AY.29 | 0.000079 |
S | 924 | A924A | gcC | gcT | 3 | 5 | AY.61 | 0.000314 |
S | 924 | A924A | gcC | gcT | 5 | 5 | B.1.1.216 | 0.004452 |
S | 924 | A924A | gcC | gcT | 5 | 5 | B.1.258 | 0.000333 |
S | 924 | A924A | gcC | gcT | 3 | 5 | C.37 | 0.000348 |
S | 924 | A924A | gcC | gcT | 4 | 4 | AY.47 | 0.000124 |
S | 924 | A924A | gcC | gcT | 4 | 4 | B.1.36.22 | 0.004831 |
S | 924 | A924A | gcC | gcT | 3 | 3 | A.2.5.2 | 0.004717 |
S | 924 | A924A | gcC | gcT | 3 | 3 | AY.111 | 0.000549 |
S | 924 | A924A | gcC | gcT | 3 | 3 | AY.113 | 0.000427 |
S | 924 | A924A | gcC | gcT | 3 | 3 | AY.4.2 | 0.000065 |
S | 924 | A924A | gcC | gcT | 3 | 3 | AY.46 | 0.000312 |
S | 924 | A924A | gcC | gcT | 3 | 3 | B.1.1.420 | 0.003018 |
S | 924 | A924A | gcC | gcT | 3 | 3 | B.1.160 | 0.000094 |
S | 924 | A924A | gcC | gcT | 3 | 3 | B.1.400 | 0.001287 |
S | 924 | A924A | gcC | gcT | 3 | 3 | P.1.12 | 0.001452 |
S | 924 | A924A | gcC | gcT | 2 | 2 | A.1 | 0.000564 |
S | 924 | A924A | gcC | gcT | 2 | 2 | AY.106 | 0.00067 |
S | 924 | A924A | gcC | gcT | 2 | 2 | AY.2 | 0.000712 |
S | 924 | A924A | gcC | gcT | 2 | 2 | AY.3.1 | 0.000171 |
S | 924 | A924A | gcC | gcT | 2 | 2 | AY.5.1 | 0.007519 |
S | 924 | A924A | gcC | gcT | 2 | 2 | AY.53 | 0.000575 |
S | 924 | A924A | gcC | gcT | 2 | 2 | AY.75 | 0.000112 |
S | 924 | A924A | gcC | gcT | 2 | 2 | AY.9.2 | 0.000073 |
S | 924 | A924A | gcC | gcT | 2 | 2 | AY.98 | 0.000158 |
S | 924 | A924A | gcC | gcT | 2 | 2 | B | 0.000256 |
S | 924 | A924A | gcC | gcT | 2 | 2 | B.1.1.284 | 0.000215 |
S | 924 | A924A | gcC | gcT | 2 | 2 | B.1.1.315 | 0.016949 |
S | 924 | A924A | gcC | gcT | 2 | 2 | B.1.1.318 | 0.000604 |
S | 924 | A924A | gcC | gcT | 2 | 2 | B.1.1.33 | 0.000842 |
S | 924 | A924A | gcC | gcT | 2 | 2 | B.1.177.5 | 0.002484 |
S | 924 | A924A | gcC | gcT | 2 | 2 | B.1.177.57 | 0.000562 |
S | 924 | A924A | gcC | gcT | 2 | 2 | B.1.221 | 0.000142 |
S | 924 | A924A | gcC | gcT | 2 | 2 | B.1.36 | 0.000292 |
S | 924 | A924A | gcC | gcT | 2 | 2 | B.1.36.17 | 0.000988 |
S | 924 | A924A | gcC | gcT | 1 | 2 | B.1.429 | 0.000024 |
S | 924 | A924A | gcC | gcT | 1 | 2 | B.1.525 | 0.000113 |
S | 924 | A924A | gcC | gcT | 2 | 2 | B.12 | 0.012821 |
S | 924 | A924A | gcC | gcT | 2 | 2 | B.6 | 0.00182 |
S | 924 | A924A | gcC | gcT | 2 | 2 | B.6.6 | 0.001778 |
S | 924 | A924A | gcC | gcT | 1 | 1 | A.23.1 | 0.000704 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AA.5 | 0.016129 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AD.2 | 0.000219 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AH.3 | 0.003802 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AY.108 | 0.001103 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AY.117 | 0.000085 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AY.16.1 | 0.00047 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AY.30 | 0.000396 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AY.38 | 0.000499 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AY.39.1 | 0.00004 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AY.45 | 0.000122 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AY.46.1 | 0.001027 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AY.46.6 | 0.000072 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AY.54 | 0.000095 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AY.59 | 0.00053 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AY.62 | 0.000436 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AY.73 | 0.000665 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AY.75.1 | 0.00018 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AY.9 | 0.000068 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AY.97 | 0.001701 |
S | 924 | A924A | gcC | gcT | 1 | 1 | AZ.1 | 0.000867 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.1.10 | 0.001115 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.1.127 | 0.0625 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.1.163 | 0.007634 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.1.170 | 0.001247 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.1.222 | 0.000204 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.1.25 | 0.000569 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.1.311 | 0.000358 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.1.317 | 0.000412 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.1.324 | 0.052632 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.1.377 | 0.001381 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.1.389 | 0.006061 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.1.416 | 0.000905 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.1.447 | 0.035714 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.1.50 | 0.000679 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.1.62 | 0.027027 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.1.63 | 0.000386 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.14 | 0.017544 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.160.7 | 0.002079 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.177.11 | 0.001698 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.177.17 | 0.000821 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.177.43 | 0.001477 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.177.62 | 0.001192 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.177.65 | 0.000665 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.234 | 0.000132 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.236 | 0.002053 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.242 | 0.018868 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.36.39 | 0.002217 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.375 | 0.00082 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.389 | 0.001002 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.427 | 0.00005 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.438.1 | 0.000107 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.510 | 0.026316 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.526 | 0.000024 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.580 | 0.004065 |
S | 924 | A924A | gcC | gcT | 1 | 1 | B.1.596 | 0.000087 |
S | 924 | A924A | gcC | gcT | 1 | 1 | C.18 | 0.002591 |
S | 924 | A924A | gcC | gcT | 1 | 1 | D.2 | 0.000075 |
S | 924 | A924A | gcC | gcT | 1 | 1 | P.2 | 0.000187 |
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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