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 |
S | 871 | A871V | nonsyn | gCt | gTt | 1188 | 1188 | 1 | 24173-24175 |
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 |
S | 871 | A871V | gCt | gTt | 1188 | 1188 | All | 0.000227 |
S | 871 | A871V | gCt | gTt | 379 | 379 | B.1.1.7 | 0.000339 |
S | 871 | A871V | gCt | gTt | 177 | 177 | B.1.2 | 0.001559 |
S | 871 | A871V | gCt | gTt | 99 | 99 | AY.4 | 0.000154 |
S | 871 | A871V | gCt | gTt | 45 | 45 | AY.43 | 0.000199 |
S | 871 | A871V | gCt | gTt | 30 | 30 | B.1.617.2 | 0.000113 |
S | 871 | A871V | gCt | gTt | 25 | 25 | B.1.177 | 0.000329 |
S | 871 | A871V | gCt | gTt | 24 | 24 | AY.6 | 0.000987 |
S | 871 | A871V | gCt | gTt | 18 | 18 | AY.25 | 0.000108 |
S | 871 | A871V | gCt | gTt | 18 | 18 | B.1.1.176 | 0.007909 |
S | 871 | A871V | gCt | gTt | 17 | 17 | AY.100 | 0.000782 |
S | 871 | A871V | gCt | gTt | 17 | 17 | AY.44 | 0.000103 |
S | 871 | A871V | gCt | gTt | 16 | 16 | AY.103 | 0.000099 |
S | 871 | A871V | gCt | gTt | 12 | 12 | B.1.429 | 0.000282 |
S | 871 | A871V | gCt | gTt | 11 | 11 | AY.4.5 | 0.001182 |
S | 871 | A871V | gCt | gTt | 11 | 11 | B.1 | 0.000101 |
S | 871 | A871V | gCt | gTt | 10 | 10 | AY.4.2 | 0.000217 |
S | 871 | A871V | gCt | gTt | 10 | 10 | B.1.1 | 0.000181 |
S | 871 | A871V | gCt | gTt | 10 | 10 | B.1.1.159 | 0.046729 |
S | 871 | A871V | gCt | gTt | 10 | 10 | B.1.1.28 | 0.003112 |
S | 871 | A871V | gCt | gTt | 9 | 9 | B.1.160 | 0.000281 |
S | 871 | A871V | gCt | gTt | 9 | 9 | B.1.351 | 0.000268 |
S | 871 | A871V | gCt | gTt | 8 | 8 | B.1.526 | 0.000188 |
S | 871 | A871V | gCt | gTt | 7 | 7 | AY.39 | 0.000173 |
S | 871 | A871V | gCt | gTt | 7 | 7 | AY.98.1 | 0.000339 |
S | 871 | A871V | gCt | gTt | 7 | 7 | B.1.258.17 | 0.000728 |
S | 871 | A871V | gCt | gTt | 6 | 6 | B.1.1.284 | 0.000644 |
S | 871 | A871V | gCt | gTt | 6 | 6 | B.1.1.329 | 0.023077 |
S | 871 | A871V | gCt | gTt | 6 | 6 | B.1.243 | 0.000418 |
S | 871 | A871V | gCt | gTt | 6 | 6 | P.1 | 0.000095 |
S | 871 | A871V | gCt | gTt | 5 | 5 | AY.20 | 0.000194 |
S | 871 | A871V | gCt | gTt | 5 | 5 | B.1.1.214 | 0.000277 |
S | 871 | A871V | gCt | gTt | 5 | 5 | B.1.366 | 0.02439 |
S | 871 | A871V | gCt | gTt | 5 | 5 | B.1.400 | 0.002145 |
S | 871 | A871V | gCt | gTt | 5 | 5 | C.37 | 0.00058 |
S | 871 | A871V | gCt | gTt | 4 | 4 | AY.119 | 0.000141 |
S | 871 | A871V | gCt | gTt | 4 | 4 | AY.26 | 0.000113 |
S | 871 | A871V | gCt | gTt | 4 | 4 | AY.29 | 0.000063 |
S | 871 | A871V | gCt | gTt | 4 | 4 | AY.5 | 0.000083 |
S | 871 | A871V | gCt | gTt | 4 | 4 | B.1.177.32 | 0.005398 |
S | 871 | A871V | gCt | gTt | 4 | 4 | B.1.517 | 0.001708 |
S | 871 | A871V | gCt | gTt | 3 | 3 | AY.120 | 0.000112 |
S | 871 | A871V | gCt | gTt | 3 | 3 | AY.121 | 0.000406 |
S | 871 | A871V | gCt | gTt | 3 | 3 | AY.3 | 0.00003 |
S | 871 | A871V | gCt | gTt | 3 | 3 | AY.47 | 0.000093 |
S | 871 | A871V | gCt | gTt | 3 | 3 | AZ.2 | 0.002463 |
S | 871 | A871V | gCt | gTt | 3 | 3 | B.1.234 | 0.000396 |
S | 871 | A871V | gCt | gTt | 3 | 3 | B.1.334 | 0.054545 |
S | 871 | A871V | gCt | gTt | 3 | 3 | P.2 | 0.00056 |
S | 871 | A871V | gCt | gTt | 2 | 2 | AY.102 | 0.000053 |
S | 871 | A871V | gCt | gTt | 2 | 2 | AY.113 | 0.000285 |
S | 871 | A871V | gCt | gTt | 2 | 2 | AY.53 | 0.000575 |
S | 871 | A871V | gCt | gTt | 2 | 2 | AY.62 | 0.000871 |
S | 871 | A871V | gCt | gTt | 2 | 2 | B.1.1.25 | 0.001137 |
S | 871 | A871V | gCt | gTt | 2 | 2 | B.1.1.312 | 0.003824 |
S | 871 | A871V | gCt | gTt | 2 | 2 | B.1.1.317 | 0.000823 |
S | 871 | A871V | gCt | gTt | 2 | 2 | B.1.1.39 | 0.001019 |
S | 871 | A871V | gCt | gTt | 2 | 2 | B.1.1.519 | 0.000079 |
S | 871 | A871V | gCt | gTt | 2 | 2 | B.1.177.45 | 0.000762 |
S | 871 | A871V | gCt | gTt | 2 | 2 | B.1.221 | 0.000142 |
S | 871 | A871V | gCt | gTt | 2 | 2 | B.1.36 | 0.000292 |
S | 871 | A871V | gCt | gTt | 2 | 2 | B.1.36.1 | 0.002281 |
S | 871 | A871V | gCt | gTt | 2 | 2 | B.1.361 | 0.002577 |
S | 871 | A871V | gCt | gTt | 2 | 2 | B.1.427 | 0.000101 |
S | 871 | A871V | gCt | gTt | 2 | 2 | B.1.523 | 0.004902 |
S | 871 | A871V | gCt | gTt | 2 | 2 | B.1.551 | 0.002581 |
S | 871 | A871V | gCt | gTt | 2 | 2 | B.1.564.1 | 0.003155 |
S | 871 | A871V | gCt | gTt | 2 | 2 | B.1.577 | 0.001375 |
S | 871 | A871V | gCt | gTt | 2 | 2 | B.1.621.1 | 0.001012 |
S | 871 | A871V | gCt | gTt | 2 | 2 | C.2.1 | 0.013333 |
S | 871 | A871V | gCt | gTt | 2 | 2 | Q.2 | 0.001227 |
S | 871 | A871V | gCt | gTt | 2 | 2 | Q.8 | 0.00033 |
S | 871 | A871V | gCt | gTt | 2 | 2 | R.1 | 0.00018 |
S | 871 | A871V | gCt | gTt | 1 | 1 | A.2.5 | 0.000499 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AD.2 | 0.000219 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AY.101 | 0.00049 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AY.117 | 0.000085 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AY.12 | 0.000316 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AY.16.1 | 0.00047 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AY.34.1 | 0.00051 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AY.39.1 | 0.00004 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AY.42 | 0.00004 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AY.46 | 0.000104 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AY.54 | 0.000095 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AY.61 | 0.000105 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AY.70 | 0.000209 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AY.75 | 0.000056 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AY.88 | 0.000884 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AY.9 | 0.000068 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AY.98 | 0.000079 |
S | 871 | A871V | gCt | gTt | 1 | 1 | AY.99 | 0.001049 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.1.1 | 0.000327 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.1.153 | 0.001095 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.1.301 | 0.001179 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.1.311 | 0.000358 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.1.33 | 0.000421 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.1.416 | 0.000905 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.1.49 | 0.017544 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.1.51 | 0.001718 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.177.12 | 0.000152 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.177.4 | 0.000211 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.177.44 | 0.000519 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.177.7 | 0.000165 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.177.73 | 0.000566 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.177.81 | 0.000189 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.177.86 | 0.000183 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.177.9 | 0.001332 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.189 | 0.004292 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.221.3 | 0.000833 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.232 | 0.000537 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.265 | 0.001271 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.279 | 0.000514 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.302 | 0.013333 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.311 | 0.000275 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.346 | 0.001311 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.351.2 | 0.000303 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.36.31 | 0.001751 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.36.35 | 0.002604 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.404 | 0.001302 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.568 | 0.001111 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.589 | 0.007576 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.621 | 0.000089 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.623 | 0.000536 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.628 | 0.000352 |
S | 871 | A871V | gCt | gTt | 1 | 1 | B.1.93 | 0.000934 |
S | 871 | A871V | gCt | gTt | 1 | 1 | D.2 | 0.000075 |
S | 871 | A871V | gCt | gTt | 1 | 1 | P.1.1 | 0.000318 |
S | 871 | A871V | gCt | gTt | 1 | 1 | P.1.14 | 0.000048 |
S | 871 | A871V | gCt | gTt | 1 | 1 | P.1.15 | 0.000232 |
S | 871 | A871V | gCt | gTt | 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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