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 |
ORF1ab/nsp1 | 45 | H45H | H45H | syn | caT | caC | 5524 | 5524 | 1 | 398-400 |
Details of the mutation H45H 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/nsp1 | 45 | H45H | caT | caC | 5524 | 5524 | All | 0.001057 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 2533 | 2533 | AY.4 | 0.003942 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 2274 | 2274 | B.1.1.7 | 0.002036 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 179 | 179 | B.1.617.2 | 0.000674 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 75 | 75 | AY.85 | 0.032038 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 52 | 52 | AY.43 | 0.00023 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 36 | 36 | AY.102 | 0.000955 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 28 | 28 | B.1.2 | 0.000247 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 23 | 23 | AY.25 | 0.000138 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 22 | 22 | B.1.177 | 0.00029 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 17 | 17 | AJ.1 | 0.772727 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 17 | 17 | AY.103 | 0.000106 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 17 | 17 | AY.3 | 0.000169 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 16 | 16 | R.1 | 0.00144 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 14 | 14 | AY.34 | 0.001358 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 13 | 13 | B.1 | 0.000119 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 10 | 10 | AY.77 | 0.011274 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 9 | 9 | AY.20 | 0.00035 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 9 | 9 | AY.38 | 0.004493 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 9 | 9 | AY.9.2 | 0.000331 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 8 | 8 | AY.39 | 0.000198 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 8 | 8 | P.1 | 0.000126 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 7 | 7 | AY.100 | 0.000322 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 7 | 7 | AY.29 | 0.00011 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 7 | 7 | AY.44 | 0.000043 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 6 | 6 | AY.14 | 0.000528 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 6 | 6 | AY.30 | 0.002374 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 6 | 6 | C.37 | 0.000696 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 5 | 5 | AY.114 | 0.001156 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 5 | 5 | AY.23 | 0.000349 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 5 | 5 | AY.4.2 | 0.000108 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 5 | 5 | AY.42 | 0.000201 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 5 | 5 | AY.46.6 | 0.000361 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 4 | 4 | B.1.243 | 0.000278 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 4 | 4 | B.1.351 | 0.000119 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 4 | 4 | B.1.596 | 0.000349 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 4 | 4 | B.1.621 | 0.000354 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 3 | 3 | AY.116 | 0.00086 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 3 | 3 | AY.119 | 0.000106 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 3 | 3 | AY.120 | 0.000112 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 3 | 3 | B.1.429 | 0.000071 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 3 | 3 | P.1.15 | 0.000697 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 2 | 2 | AY.26 | 0.000057 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 2 | 2 | AY.39.1 | 0.000079 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 2 | 2 | AY.45 | 0.000243 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 2 | 2 | AY.59 | 0.001059 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 2 | 2 | AY.6 | 0.000082 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 2 | 2 | B.1.1.216 | 0.001781 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 2 | 2 | B.1.1.311 | 0.000716 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 2 | 2 | B.1.1.526 | 0.007092 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 2 | 2 | B.1.160 | 0.000062 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 2 | 2 | B.1.221 | 0.000142 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 2 | 2 | B.1.258 | 0.000133 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 2 | 2 | B.1.279 | 0.001027 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 2 | 2 | P.1.7 | 0.000639 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 2 | 2 | Q.3 | 0.00029 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | AY.13 | 0.000161 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | AY.41 | 0.000294 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | AY.5 | 0.000021 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | AY.74 | 0.000116 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | AY.90 | 0.000684 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | AY.92 | 0.000287 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.1.1 | 0.000018 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.1.1.1 | 0.000327 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.1.1.164 | 0.005155 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.1.1.284 | 0.000107 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.1.1.3 | 0.008696 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.1.1.329 | 0.003846 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.1.177.31 | 0.011494 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.1.177.4 | 0.000211 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.1.232 | 0.000537 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.1.258.17 | 0.000104 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.1.3 | 0.002618 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.1.320 | 0.001245 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.1.351.3 | 0.000876 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.1.427 | 0.00005 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | B.6.6 | 0.000889 |
ORF1ab/nsp1 | 45 | H45H | caT | caC | 1 | 1 | Q.1 | 0.000126 |
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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