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/nsp4 | 311 | Y311Y | Y3074Y | syn | taC | taT | 1481 | 1481 | 1 | 9485-9487 |
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 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1481 | 1481 | All | 0.000283 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 398 | 398 | B.1.1.7 | 0.000356 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 202 | 202 | AY.4 | 0.000314 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 77 | 77 | AY.3 | 0.000766 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 65 | 65 | B.1.617.2 | 0.000245 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 62 | 62 | AA.5 | 1 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 52 | 52 | AY.46.4 | 0.008554 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 50 | 50 | AY.80 | 0.056433 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 38 | 38 | B.1.2 | 0.000335 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 35 | 35 | AY.25 | 0.000211 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 26 | 26 | AY.44 | 0.000158 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 26 | 26 | B.1.160 | 0.000811 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 22 | 22 | AY.39 | 0.000544 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 22 | 22 | B.1.351 | 0.000654 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 21 | 21 | AY.102 | 0.000557 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 21 | 21 | B.1.1.1 | 0.006861 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 19 | 19 | AY.103 | 0.000118 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 19 | 19 | B.1 | 0.000174 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 18 | 18 | AY.43 | 0.00008 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 18 | 18 | B.1.36.8 | 0.018 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 12 | 12 | B.1.177 | 0.000158 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 10 | 10 | B.1.453 | 0.032362 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 9 | 9 | AY.13 | 0.001449 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 9 | 9 | B.1.177.83 | 0.013333 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 9 | 9 | P.1 | 0.000142 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 8 | 8 | AY.121 | 0.001083 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 8 | 8 | AY.34 | 0.000776 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 8 | 8 | AZ.1 | 0.006938 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 8 | 8 | B.1.429 | 0.000188 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 7 | 7 | AY.5 | 0.000145 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 7 | 7 | AY.75 | 0.000392 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 7 | 7 | B.1.1.25 | 0.00398 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 6 | 6 | AY.39.1 | 0.000238 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 6 | 6 | AY.4.2 | 0.00013 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 5 | 5 | AY.119 | 0.000177 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 5 | 5 | AY.20 | 0.000194 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 5 | 5 | B.1.313 | 0.032895 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 5 | 5 | B.1.526 | 0.000118 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 5 | 5 | P.2 | 0.000933 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 4 | 4 | AY.120 | 0.000149 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 4 | 4 | AY.48 | 0.00186 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 4 | 4 | AY.98.1 | 0.000194 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 4 | 4 | AY.99.2 | 0.000369 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 4 | 4 | B.1.1 | 0.000073 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 4 | 4 | B.1.221 | 0.000284 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 4 | 4 | B.1.346 | 0.005242 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 4 | 4 | B.1.577 | 0.002749 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 4 | 4 | C.37 | 0.000464 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 4 | 4 | P.1.15 | 0.000929 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 3 | 3 | AY.26 | 0.000085 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 3 | 3 | AY.61 | 0.000314 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 3 | 3 | AY.9.2 | 0.00011 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 3 | 3 | AY.94 | 0.001328 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 3 | 3 | B.1.1.70 | 0.001023 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 3 | 3 | B.1.243 | 0.000209 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 3 | 3 | B.1.478 | 0.035294 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 3 | 3 | B.1.596 | 0.000261 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 3 | 3 | B.1.628 | 0.001057 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | 0.111111 | |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | AY.100 | 0.000092 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | AY.12 | 0.000632 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | AY.23 | 0.000139 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | AY.24 | 0.000862 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | AY.29 | 0.000032 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | AY.38 | 0.000999 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | AY.58 | 0.001815 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | AY.77 | 0.002255 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | AY.9.1 | 0.000167 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | B.1.1.222 | 0.000408 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | B.1.1.28 | 0.000622 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | B.1.177.33 | 0.003289 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | B.1.311 | 0.000549 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | B.1.561 | 0.000794 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | B.1.637 | 0.000146 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | C.14 | 0.008658 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | D.2 | 0.00015 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | P.1.12 | 0.000968 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 2 | 2 | P.1.4 | 0.001953 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | A.25 | 0.018182 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | AY.110 | 0.000113 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | AY.14 | 0.000088 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | AY.34.1 | 0.00051 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | AY.37 | 0.000316 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | AY.4.1 | 0.000737 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | AY.42 | 0.00004 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | AY.46.3 | 0.000934 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | AY.7.1 | 0.000113 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | AY.86 | 0.00083 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B | 0.000128 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.1.214 | 0.000055 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.1.269 | 0.001353 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.1.306 | 0.000438 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.1.348 | 0.000796 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.1.37 | 0.000193 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.1.372 | 0.000689 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.149 | 0.003425 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.160.33 | 0.004425 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.177.15 | 0.000631 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.177.53 | 0.002392 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.177.87 | 0.000728 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.258.11 | 0.000396 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.36.29 | 0.000517 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.36.7 | 0.004 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.396 | 0.000706 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.400 | 0.000429 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.511 | 0.034483 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.568 | 0.001111 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.575 | 0.000303 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.609 | 0.000479 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.619 | 0.000871 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.620 | 0.000946 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | B.6.8 | 0.008264 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | C.16 | 0.00106 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | P.1.17 | 0.000162 |
ORF1ab/nsp4 | 311 | Y311Y | taC | taT | 1 | 1 | P.1.8 | 0.004785 |
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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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