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/nsp2 | 585 | P585P | P765P | syn | ccA | ccG | 9847 | 9720 | 0.987103 | 2558-2560 |
ORF1ab/nsp2 | 585 | P585P | P765P | syn | ccA | ccT | 9847 | 74 | 0.00751498 | 2558-2560 |
ORF1ab/nsp2 | 585 | P585P | P765P | syn | ccA | ccC | 9847 | 53 | 0.00538235 | 2558-2560 |
Details of the mutation P585P 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/nsp2 | 585 | P585P | ccA | ccG | 9720 | 9847 | All | 0.001859 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 74 | 9847 | All | 0.000014 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccC | 53 | 9847 | All | 0.00001 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 4811 | 4822 | B.1.617.2 | 0.018115 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 10 | 4822 | B.1.617.2 | 0.000038 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccC | 1 | 4822 | B.1.617.2 | 0.000004 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 3165 | 3167 | AY.43 | 0.014022 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccC | 2 | 3167 | AY.43 | 0.000009 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 302 | 302 | AY.44 | 0.001838 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 298 | 299 | AY.39 | 0.007364 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 1 | 299 | AY.39 | 0.000025 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 165 | 165 | AY.103 | 0.001024 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 127 | 138 | AY.119 | 0.004484 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccC | 10 | 138 | AY.119 | 0.000353 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 1 | 138 | AY.119 | 0.000035 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 91 | 91 | AY.23 | 0.006347 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 66 | 67 | AY.4 | 0.000103 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccC | 1 | 67 | AY.4 | 0.000002 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 67 | 67 | AY.46 | 0.006973 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 55 | 55 | AY.25 | 0.000331 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 26 | 55 | B.1.1.7 | 0.000023 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 19 | 55 | B.1.1.7 | 0.000017 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccC | 10 | 55 | B.1.1.7 | 0.000009 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 35 | 40 | AY.102 | 0.000928 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 5 | 40 | AY.102 | 0.000133 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 34 | 34 | AY.45 | 0.004137 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 30 | 32 | AY.117 | 0.002535 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 2 | 32 | AY.117 | 0.000169 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 31 | 31 | AY.5 | 0.00064 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 26 | 26 | AY.5.4 | 0.007194 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccC | 25 | 25 | AY.36 | 0.003705 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 25 | 25 | AY.84 | 0.010936 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 20 | 20 | AY.86 | 0.016598 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 18 | 18 | AY.95 | 0.013699 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 15 | 15 | AY.116 | 0.004302 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 14 | 15 | B.1.177 | 0.000184 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 1 | 15 | B.1.177 | 0.000013 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 12 | 14 | B.1.2 | 0.000106 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 2 | 14 | B.1.2 | 0.000018 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 13 | 13 | AY.118 | 0.000814 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 12 | 13 | AY.35 | 0.002797 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 13 | AY.35 | 0.000233 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 12 | 12 | AY.46.1 | 0.01232 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 12 | 12 | AY.5.3 | 0.004049 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 12 | 12 | B.1 | 0.00011 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 11 | 11 | AY.33 | 0.000735 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 10 | 10 | AY.68 | 0.002737 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 10 | 10 | AY.75 | 0.00056 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 8 | 8 | AY.92 | 0.002298 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 6 | 8 | B.1.1 | 0.000109 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccC | 2 | 8 | B.1.1 | 0.000036 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 7 | 7 | AY.121 | 0.000947 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 3 | 7 | AY.26 | 0.000085 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 3 | 7 | AY.26 | 0.000085 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccC | 1 | 7 | AY.26 | 0.000028 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 4 | 7 | AY.29 | 0.000063 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 3 | 7 | AY.29 | 0.000047 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 7 | 7 | AY.78 | 0.010786 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 6 | 6 | AY.101 | 0.002943 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 6 | 6 | AY.105 | 0.003859 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 6 | 6 | AY.111 | 0.001099 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 6 | 6 | AY.67 | 0.002786 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 6 | 6 | AY.9.2 | 0.00022 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 6 | 6 | AY.99 | 0.006296 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 6 | 6 | B.1.1.369 | 0.002677 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 5 | 5 | AY.109 | 0.003698 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 5 | 5 | AY.41 | 0.00147 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 5 | 5 | AY.56 | 0.008026 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 5 | 5 | AY.58 | 0.004537 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 5 | 5 | AY.75.1 | 0.000902 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 3 | 4 | AY.100 | 0.000138 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 1 | 4 | AY.100 | 0.000046 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 4 | 4 | AY.108 | 0.00441 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 4 | 4 | AY.120 | 0.000149 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 4 | 4 | AY.19 | 0.004561 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 3 | 3 | AY.10 | 0.00159 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 3 | AY.110 | 0.000225 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 1 | 3 | AY.110 | 0.000113 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 3 | 3 | AY.30 | 0.001187 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 3 | 3 | AY.34.1 | 0.00153 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 3 | 3 | AY.42 | 0.000121 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 3 | 3 | AY.52 | 0.002443 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 3 | AY.62 | 0.000871 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 1 | 3 | AY.62 | 0.000436 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 3 | 3 | AY.82 | 0.004071 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 3 | 3 | AY.91 | 0.002191 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 3 | 3 | AY.94 | 0.001328 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 3 | 3 | B | 0.000383 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 3 | 3 | B.1.409 | 0.002344 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 3 | B.1.429 | 0.000047 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 1 | 3 | B.1.429 | 0.000024 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 2 | 3 | P.1.14 | 0.000096 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccC | 1 | 3 | P.1.14 | 0.000048 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 2 | AY.114 | 0.000462 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 2 | AY.16.1 | 0.00094 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 2 | AY.2 | 0.000712 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 2 | AY.20 | 0.000078 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 2 | AY.32 | 0.001065 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 2 | AY.46.6 | 0.000144 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 2 | AY.47 | 0.000062 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 2 | AY.53 | 0.000575 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 2 | AY.54 | 0.000191 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 2 | AY.59 | 0.001059 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 2 | AY.64 | 0.00119 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 2 | AY.71 | 0.00095 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 2 | AY.87 | 0.001665 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 2 | AY.88 | 0.001768 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 2 | AY.98 | 0.000158 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 2 | 2 | B.1.526 | 0.000047 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 1 | 2 | D.2 | 0.000075 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 2 | D.2 | 0.000075 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | A.27 | 0.001656 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | AY.12 | 0.000316 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | AY.27 | 0.000065 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | AY.3 | 0.00001 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | AY.38 | 0.000499 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | AY.4.2 | 0.000022 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | AY.40 | 0.000964 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | AY.46.4 | 0.000165 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | AY.61 | 0.000105 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | AY.7 | 0.000196 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | AY.73 | 0.000665 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | AY.89 | 0.004902 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 1 | 1 | AY.98.1 | 0.000048 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | AY.99.1 | 0.001553 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | B.1.1.336 | 0.016667 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 1 | 1 | B.1.1.61 | 0.008772 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | B.1.177.15 | 0.000631 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | B.1.177.73 | 0.000566 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | B.1.36.16 | 0.001425 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | B.1.470 | 0.001404 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 1 | 1 | B.1.497 | 0.000315 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccG | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 1 | 1 | P.1 | 0.000016 |
ORF1ab/nsp2 | 585 | P585P | ccA | ccT | 1 | 1 | P.1.15 | 0.000232 |
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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