CoV-GLUE | Mutations | Mutation
CoV-GLUE Mutation: ORF = ORF1ab/nsp14A2-B : Mut = A504del
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 |
| ORF1ab/nsp14A2-B | 504 | A504del | A6429del | del | GCT | --- | 367 | 367 | 1 | 19549-19551 |
Details of the mutation A504del 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 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 367 | 367 | All | 0.00007 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 50 | 50 | AY.43 | 0.000222 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 37 | 37 | B.1.617.2 | 0.000139 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 32 | 32 | B.1.2 | 0.000282 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 29 | 29 | B.1.1.7 | 0.000026 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 17 | 17 | AY.34.1 | 0.008669 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 16 | 16 | AY.25 | 0.000096 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 10 | 10 | B.1 | 0.000092 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 9 | 9 | AY.75 | 0.000504 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 8 | 8 | AY.3 | 0.00008 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 8 | 8 | AY.52 | 0.006515 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 8 | 8 | AY.9.2 | 0.000294 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 8 | 8 | B.1.526 | 0.000188 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 7 | 7 | AY.102 | 0.000186 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 7 | 7 | AY.39 | 0.000173 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 7 | 7 | AY.44 | 0.000043 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 6 | 6 | AY.103 | 0.000037 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 6 | 6 | AY.4 | 0.000009 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 6 | 6 | B.1.351 | 0.000178 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 5 | 5 | AY.118 | 0.000313 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 4 | 4 | AY.65 | 0.002132 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 4 | 4 | AY.98.1 | 0.000194 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 4 | 4 | B.1.617.1 | 0.000516 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 3 | 3 | AY.110 | 0.000338 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 3 | 3 | AY.23 | 0.000209 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 3 | 3 | B.1.596 | 0.000261 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 3 | 3 | P.1.15 | 0.000697 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 2 | 2 | 0.111111 | |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 2 | 2 | AY.101 | 0.000981 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 2 | 2 | AY.107 | 0.000932 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 2 | 2 | AY.11 | 0.002677 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 2 | 2 | AY.120 | 0.000074 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 2 | 2 | AY.3.1 | 0.000171 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 2 | 2 | AY.55 | 0.001835 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 2 | 2 | AY.75.1 | 0.000361 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 2 | 2 | B.1.429 | 0.000047 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 2 | 2 | B.1.517 | 0.000854 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.106 | 0.000335 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.108 | 0.001103 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.113 | 0.000142 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.116 | 0.000287 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.120.1 | 0.000321 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.120.2 | 0.001285 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.13 | 0.000161 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.16.1 | 0.00047 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.20 | 0.000039 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.21 | 0.001898 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.42 | 0.00004 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.45 | 0.000122 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.46 | 0.000104 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.46.2 | 0.000635 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.46.6 | 0.000072 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.5.4 | 0.000277 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.54 | 0.000095 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.59 | 0.00053 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.62 | 0.000436 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.66 | 0.00107 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.67 | 0.000464 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.84 | 0.000437 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.94 | 0.000443 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.97 | 0.001701 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.99 | 0.001049 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | AY.99.2 | 0.000092 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.1 | 0.000018 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.1.192 | 0.002309 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.1.218 | 0.007692 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.1.306 | 0.000438 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.1.348 | 0.000796 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.1.409 | 0.002833 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.1.434 | 0.000349 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.1.46 | 0.004367 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.177.62 | 0.001192 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.243 | 0.00007 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.265 | 0.001271 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.291 | 0.019231 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.349 | 0.000715 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.427 | 0.00005 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.551 | 0.00129 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.568 | 0.001111 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.575 | 0.000303 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | B.1.595 | 0.000261 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | C.1.2 | 0.004255 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | Q.1 | 0.000126 |
| ORF1ab/nsp14A2-B | 504 | A504del | GCT | --- | 1 | 1 | Q.8 | 0.000165 |
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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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