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 |
ORF3a | 57 | Q57H | nonsyn | caG | caC | 515896 | 1757 | 0.00340573 | 25561-25563 |
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 |
ORF3a | 57 | Q57H | caG | caC | 1757 | 515896 | All | 0.000336 |
ORF3a | 57 | Q57H | caG | caC | 2 | 112571 | B.1.2 | 0.000018 |
ORF3a | 57 | Q57H | caG | caC | 43 | 53227 | B.1 | 0.000394 |
ORF3a | 57 | Q57H | caG | caC | 4 | 42312 | B.1.429 | 0.000094 |
ORF3a | 57 | Q57H | caG | caC | 1 | 32707 | B.1.351 | 0.00003 |
ORF3a | 57 | Q57H | caG | caC | 2 | 30132 | B.1.160 | 0.000062 |
ORF3a | 57 | Q57H | caG | caC | 3 | 11248 | B.1.621 | 0.000266 |
ORF3a | 57 | Q57H | caG | caC | 3 | 10710 | B.1.596 | 0.000261 |
ORF3a | 57 | Q57H | caG | caC | 1 | 6777 | B.1.36 | 0.000146 |
ORF3a | 57 | Q57H | caG | caC | 2 | 3170 | B.1.497 | 0.00063 |
ORF3a | 57 | Q57H | caG | caC | 2 | 1993 | B.1.582 | 0.000981 |
ORF3a | 57 | Q57H | caG | caC | 3 | 1972 | B.1.621.1 | 0.001517 |
ORF3a | 57 | Q57H | caG | caC | 1 | 1796 | B.1.623 | 0.000536 |
ORF3a | 57 | Q57H | caG | caC | 755 | 1493 | B.1.1.7 | 0.000676 |
ORF3a | 57 | Q57H | caG | caC | 35 | 1118 | P.1 | 0.000551 |
ORF3a | 57 | Q57H | caG | caC | 32 | 1011 | AY.4 | 0.00005 |
ORF3a | 57 | Q57H | caG | caC | 39 | 804 | B.1.1 | 0.000707 |
ORF3a | 57 | Q57H | caG | caC | 1 | 773 | B.1.265 | 0.001271 |
ORF3a | 57 | Q57H | caG | caC | 49 | 749 | AY.43 | 0.000217 |
ORF3a | 57 | Q57H | caG | caC | 13 | 323 | AY.44 | 0.000079 |
ORF3a | 57 | Q57H | caG | caC | 1 | 301 | B.1.433 | 0.003195 |
ORF3a | 57 | Q57H | caG | caC | 42 | 266 | B.1.617.2 | 0.000158 |
ORF3a | 57 | Q57H | caG | caC | 179 | 182 | AY.42 | 0.007201 |
ORF3a | 57 | Q57H | caG | caC | 68 | 157 | AY.103 | 0.000422 |
ORF3a | 57 | Q57H | caG | caC | 27 | 150 | B.1.177 | 0.000356 |
ORF3a | 57 | Q57H | caG | caC | 1 | 132 | B.1.632 | 0.006711 |
ORF3a | 57 | Q57H | caG | caC | 16 | 114 | B.1.258 | 0.001065 |
ORF3a | 57 | Q57H | caG | caC | 6 | 95 | B.1.243 | 0.000418 |
ORF3a | 57 | Q57H | caG | caC | 11 | 82 | B.1.221 | 0.000781 |
ORF3a | 57 | Q57H | caG | caC | 21 | 69 | AY.25 | 0.000126 |
ORF3a | 57 | Q57H | caG | caC | 2 | 66 | B.1.1.220 | 0.003717 |
ORF3a | 57 | Q57H | caG | caC | 22 | 58 | AY.26 | 0.000623 |
ORF3a | 57 | Q57H | caG | caC | 4 | 58 | B.1.1.519 | 0.000159 |
ORF3a | 57 | Q57H | caG | caC | 2 | 58 | B.1.234 | 0.000264 |
ORF3a | 57 | Q57H | caG | caC | 9 | 53 | AY.23 | 0.000628 |
ORF3a | 57 | Q57H | caG | caC | 15 | 51 | AY.102 | 0.000398 |
ORF3a | 57 | Q57H | caG | caC | 43 | 43 | B.1.1.283 | 1 |
ORF3a | 57 | Q57H | caG | caC | 26 | 43 | B.1.1.432 | 0.032911 |
ORF3a | 57 | Q57H | caG | caC | 3 | 42 | AY.39 | 0.000074 |
ORF3a | 57 | Q57H | caG | caC | 1 | 41 | B.1.177.7 | 0.000165 |
ORF3a | 57 | Q57H | caG | caC | 1 | 39 | AY.4.5 | 0.000107 |
ORF3a | 57 | Q57H | caG | caC | 1 | 39 | B.1.396 | 0.000706 |
ORF3a | 57 | Q57H | caG | caC | 9 | 38 | AY.3 | 0.00009 |
ORF3a | 57 | Q57H | caG | caC | 3 | 31 | B.1.239 | 0.003663 |
ORF3a | 57 | Q57H | caG | caC | 6 | 26 | AY.4.2 | 0.00013 |
ORF3a | 57 | Q57H | caG | caC | 1 | 26 | AY.5 | 0.000021 |
ORF3a | 57 | Q57H | caG | caC | 8 | 23 | B.1.240 | 0.001725 |
ORF3a | 57 | Q57H | caG | caC | 4 | 22 | B.1.1.70 | 0.001364 |
ORF3a | 57 | Q57H | caG | caC | 18 | 20 | AY.88 | 0.015915 |
ORF3a | 57 | Q57H | caG | caC | 4 | 18 | AY.20 | 0.000155 |
ORF3a | 57 | Q57H | caG | caC | 10 | 18 | C.37 | 0.001161 |
ORF3a | 57 | Q57H | caG | caC | 5 | 18 | Q.8 | 0.000825 |
ORF3a | 57 | Q57H | caG | caC | 7 | 17 | AY.100 | 0.000322 |
ORF3a | 57 | Q57H | caG | caC | 1 | 17 | B.1.1.416 | 0.000905 |
ORF3a | 57 | Q57H | caG | caC | 17 | 17 | B.1.1.420 | 0.017103 |
ORF3a | 57 | Q57H | caG | caC | 2 | 17 | P.1.14 | 0.000096 |
ORF3a | 57 | Q57H | caG | caC | 14 | 16 | B.1.1.306 | 0.006138 |
ORF3a | 57 | Q57H | caG | caC | 6 | 15 | AY.29 | 0.000095 |
ORF3a | 57 | Q57H | caG | caC | 3 | 15 | B.1.1.263 | 0.004673 |
ORF3a | 57 | Q57H | caG | caC | 7 | 14 | AY.47 | 0.000218 |
ORF3a | 57 | Q57H | caG | caC | 7 | 14 | B.1.1.214 | 0.000388 |
ORF3a | 57 | Q57H | caG | caC | 1 | 14 | B.1.1.222 | 0.000204 |
ORF3a | 57 | Q57H | caG | caC | 5 | 14 | B.1.617.1 | 0.000645 |
ORF3a | 57 | Q57H | caG | caC | 2 | 12 | AY.33 | 0.000134 |
ORF3a | 57 | Q57H | caG | caC | 6 | 12 | AY.61 | 0.000629 |
ORF3a | 57 | Q57H | caG | caC | 1 | 12 | R.1 | 0.00009 |
ORF3a | 57 | Q57H | caG | caC | 9 | 11 | AY.46.4 | 0.001481 |
ORF3a | 57 | Q57H | caG | caC | 2 | 10 | AY.120 | 0.000074 |
ORF3a | 57 | Q57H | caG | caC | 2 | 10 | B.1.1.216 | 0.001781 |
ORF3a | 57 | Q57H | caG | caC | 3 | 9 | AY.45 | 0.000365 |
ORF3a | 57 | Q57H | caG | caC | 2 | 9 | B.1.177.81 | 0.000379 |
ORF3a | 57 | Q57H | caG | caC | 3 | 9 | B.1.525 | 0.000339 |
ORF3a | 57 | Q57H | caG | caC | 2 | 8 | AY.6 | 0.000082 |
ORF3a | 57 | Q57H | caG | caC | 1 | 7 | AY.54 | 0.000095 |
ORF3a | 57 | Q57H | caG | caC | 7 | 7 | AY.7.1 | 0.000789 |
ORF3a | 57 | Q57H | caG | caC | 6 | 7 | B.1.177.82 | 0.002864 |
ORF3a | 57 | Q57H | caG | caC | 3 | 7 | B.1.241 | 0.002435 |
ORF3a | 57 | Q57H | caG | caC | 1 | 7 | B.1.8 | 0.001972 |
ORF3a | 57 | Q57H | caG | caC | 2 | 6 | AY.116 | 0.000574 |
ORF3a | 57 | Q57H | caG | caC | 1 | 6 | AY.121 | 0.000135 |
ORF3a | 57 | Q57H | caG | caC | 1 | 6 | AY.30 | 0.000396 |
ORF3a | 57 | Q57H | caG | caC | 1 | 6 | AY.34 | 0.000097 |
ORF3a | 57 | Q57H | caG | caC | 2 | 6 | AY.9.2 | 0.000073 |
ORF3a | 57 | Q57H | caG | caC | 1 | 6 | B.1.628 | 0.000352 |
ORF3a | 57 | Q57H | caG | caC | 1 | 6 | C.16 | 0.00106 |
ORF3a | 57 | Q57H | caG | caC | 1 | 5 | B.1.1.372 | 0.000689 |
ORF3a | 57 | Q57H | caG | caC | 1 | 5 | B.1.103 | 0.019231 |
ORF3a | 57 | Q57H | caG | caC | 4 | 5 | B.1.177.57 | 0.001124 |
ORF3a | 57 | Q57H | caG | caC | 3 | 5 | B.1.620 | 0.002838 |
ORF3a | 57 | Q57H | caG | caC | 1 | 5 | B.1.94 | 0.027027 |
ORF3a | 57 | Q57H | caG | caC | 1 | 5 | Q.1 | 0.000126 |
ORF3a | 57 | Q57H | caG | caC | 1 | 4 | AY.119 | 0.000035 |
ORF3a | 57 | Q57H | caG | caC | 1 | 4 | AY.9 | 0.000068 |
ORF3a | 57 | Q57H | caG | caC | 1 | 4 | B.1.189 | 0.004292 |
ORF3a | 57 | Q57H | caG | caC | 1 | 4 | B.1.210 | 0.002132 |
ORF3a | 57 | Q57H | caG | caC | 4 | 4 | P.1.2 | 0.004624 |
ORF3a | 57 | Q57H | caG | caC | 1 | 3 | AY.106 | 0.000335 |
ORF3a | 57 | Q57H | caG | caC | 2 | 3 | AY.13 | 0.000322 |
ORF3a | 57 | Q57H | caG | caC | 1 | 3 | AY.24 | 0.000431 |
ORF3a | 57 | Q57H | caG | caC | 3 | 3 | AY.27 | 0.000194 |
ORF3a | 57 | Q57H | caG | caC | 1 | 3 | AY.32 | 0.000532 |
ORF3a | 57 | Q57H | caG | caC | 2 | 3 | AY.46.6 | 0.000144 |
ORF3a | 57 | Q57H | caG | caC | 3 | 3 | AY.99.2 | 0.000276 |
ORF3a | 57 | Q57H | caG | caC | 3 | 3 | B.1.1.176 | 0.001318 |
ORF3a | 57 | Q57H | caG | caC | 3 | 3 | B.1.177.4 | 0.000633 |
ORF3a | 57 | Q57H | caG | caC | 2 | 3 | B.1.177.42 | 0.001789 |
ORF3a | 57 | Q57H | caG | caC | 1 | 3 | Q.7 | 0.001111 |
ORF3a | 57 | Q57H | caG | caC | 1 | 2 | AY.12 | 0.000316 |
ORF3a | 57 | Q57H | caG | caC | 1 | 2 | AY.35 | 0.000233 |
ORF3a | 57 | Q57H | caG | caC | 1 | 2 | AY.48 | 0.000465 |
ORF3a | 57 | Q57H | caG | caC | 1 | 2 | AY.62 | 0.000436 |
ORF3a | 57 | Q57H | caG | caC | 2 | 2 | AY.89 | 0.009804 |
ORF3a | 57 | Q57H | caG | caC | 1 | 2 | AY.98 | 0.000079 |
ORF3a | 57 | Q57H | caG | caC | 2 | 2 | B.1.1.240 | 0.00939 |
ORF3a | 57 | Q57H | caG | caC | 1 | 2 | B.1.1.25 | 0.000569 |
ORF3a | 57 | Q57H | caG | caC | 1 | 2 | B.1.1.318 | 0.000302 |
ORF3a | 57 | Q57H | caG | caC | 2 | 2 | P.1.4 | 0.001953 |
ORF3a | 57 | Q57H | caG | caC | 1 | 1 | AY.120.2.1 | 0.000498 |
ORF3a | 57 | Q57H | caG | caC | 1 | 1 | AY.73 | 0.000665 |
ORF3a | 57 | Q57H | caG | caC | 1 | 1 | AY.74 | 0.000116 |
ORF3a | 57 | Q57H | caG | caC | 1 | 1 | AY.94 | 0.000443 |
ORF3a | 57 | Q57H | caG | caC | 1 | 1 | B.1.1.174 | 0.003378 |
ORF3a | 57 | Q57H | caG | caC | 1 | 1 | B.1.1.409 | 0.002833 |
ORF3a | 57 | Q57H | caG | caC | 1 | 1 | B.1.1.417 | 0.002703 |
ORF3a | 57 | Q57H | caG | caC | 1 | 1 | B.1.1.440 | 0.011765 |
ORF3a | 57 | Q57H | caG | caC | 1 | 1 | B.1.1.516 | 0.066667 |
ORF3a | 57 | Q57H | caG | caC | 1 | 1 | B.1.1.59 | 0.006494 |
ORF3a | 57 | Q57H | caG | caC | 1 | 1 | B.1.177.85 | 0.005435 |
ORF3a | 57 | Q57H | caG | caC | 1 | 1 | B.1.600 | 0.005848 |
ORF3a | 57 | Q57H | caG | caC | 1 | 1 | B.29 | 0.003509 |
ORF3a | 57 | Q57H | caG | caC | 1 | 1 | B.56 | 0.028571 |
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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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