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 |
N | 197 | S197L | nonsyn | tCa | tTa | 7824 | 7823 | 0.999872 | 28862-28864 | |
N | 197 | S197L | nonsyn | TCa | CTa | 7824 | 1 | 0.000127812 | 28862-28864 |
Details of the mutation S197L 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 |
N | 197 | S197L | tCa | tTa | 7823 | 7824 | All | 0.001496 |
N | 197 | S197L | TCa | CTa | 1 | 7824 | All | 0 |
N | 197 | S197L | tCa | tTa | 1950 | 1950 | A.2.5 | 0.973054 |
N | 197 | S197L | tCa | tTa | 1464 | 1464 | A.2 | 0.968895 |
N | 197 | S197L | tCa | tTa | 952 | 952 | B.1.499 | 1 |
N | 197 | S197L | tCa | tTa | 727 | 727 | AY.4 | 0.001132 |
N | 197 | S197L | tCa | tTa | 622 | 622 | A.2.5.2 | 0.977987 |
N | 197 | S197L | tCa | tTa | 578 | 578 | A.2.2 | 0.976351 |
N | 197 | S197L | tCa | tTa | 293 | 293 | A.2.4 | 0.986532 |
N | 197 | S197L | tCa | tTa | 207 | 207 | A.2.3 | 0.981043 |
N | 197 | S197L | tCa | tTa | 207 | 207 | A.2.5.1 | 0.995192 |
N | 197 | S197L | tCa | tTa | 114 | 114 | B.1.177.86 | 0.020914 |
N | 197 | S197L | tCa | tTa | 100 | 100 | B.1.576 | 0.090662 |
N | 197 | S197L | tCa | tTa | 95 | 95 | A.2.5.3 | 0.979381 |
N | 197 | S197L | tCa | tTa | 56 | 56 | B.1 | 0.000513 |
N | 197 | S197L | tCa | tTa | 54 | 54 | B.1.1.7 | 0.000048 |
N | 197 | S197L | tCa | tTa | 47 | 47 | B.1.617.2 | 0.000177 |
N | 197 | S197L | tCa | tTa | 34 | 34 | AY.103 | 0.000211 |
N | 197 | S197L | tCa | tTa | 30 | 30 | AY.25 | 0.00018 |
N | 197 | S197L | tCa | tTa | 17 | 17 | C.37 | 0.001973 |
N | 197 | S197L | tCa | tTa | 14 | 14 | AY.9.1 | 0.001172 |
N | 197 | S197L | tCa | tTa | 14 | 14 | B.1.2 | 0.000123 |
N | 197 | S197L | tCa | tTa | 14 | 14 | B.1.526 | 0.000329 |
N | 197 | S197L | tCa | tTa | 13 | 13 | AY.3 | 0.000129 |
N | 197 | S197L | tCa | tTa | 11 | 11 | B.1.409 | 0.008594 |
N | 197 | S197L | tCa | tTa | 11 | 11 | B.1.429 | 0.000259 |
N | 197 | S197L | tCa | tTa | 10 | 10 | AY.29 | 0.000158 |
N | 197 | S197L | tCa | tTa | 9 | 9 | B.1.499.1 | 1 |
N | 197 | S197L | tCa | tTa | 8 | 8 | AY.5 | 0.000165 |
N | 197 | S197L | tCa | tTa | 7 | 7 | AY.47 | 0.000218 |
N | 197 | S197L | tCa | tTa | 7 | 7 | B.1.427 | 0.000353 |
N | 197 | S197L | tCa | tTa | 6 | 6 | A | 0.002322 |
N | 197 | S197L | tCa | tTa | 6 | 6 | AY.4.4 | 0.002455 |
N | 197 | S197L | tCa | tTa | 6 | 6 | AY.44 | 0.000037 |
N | 197 | S197L | tCa | tTa | 6 | 6 | B.1.351 | 0.000178 |
N | 197 | S197L | tCa | tTa | 5 | 5 | AY.4.2 | 0.000108 |
N | 197 | S197L | tCa | tTa | 5 | 5 | AY.43 | 0.000022 |
N | 197 | S197L | tCa | tTa | 5 | 5 | B.1.1 | 0.000091 |
N | 197 | S197L | tCa | tTa | 5 | 5 | B.1.177 | 0.000066 |
N | 197 | S197L | tCa | tTa | 5 | 5 | C.36 | 0.004554 |
N | 197 | S197L | tCa | tTa | 4 | 4 | AY.6 | 0.000165 |
N | 197 | S197L | tCa | tTa | 4 | 4 | B.1.1.37 | 0.000771 |
N | 197 | S197L | tCa | tTa | 4 | 4 | B.1.1.519 | 0.000159 |
N | 197 | S197L | tCa | tTa | 4 | 4 | B.1.239 | 0.004884 |
N | 197 | S197L | tCa | tTa | 4 | 4 | B.1.525 | 0.000453 |
N | 197 | S197L | tCa | tTa | 4 | 4 | P.1 | 0.000063 |
N | 197 | S197L | tCa | tTa | 3 | 3 | AY.23 | 0.000209 |
N | 197 | S197L | tCa | tTa | 3 | 3 | B | 0.000383 |
N | 197 | S197L | tCa | tTa | 3 | 3 | B.1.157 | 0.008955 |
N | 197 | S197L | tCa | tTa | 3 | 3 | B.1.498 | 0.061224 |
N | 197 | S197L | tCa | tTa | 2 | 2 | AY.119 | 0.000071 |
N | 197 | S197L | tCa | tTa | 2 | 2 | AY.26 | 0.000057 |
N | 197 | S197L | tCa | tTa | 2 | 2 | AY.39.1 | 0.000079 |
N | 197 | S197L | tCa | tTa | 2 | 2 | AY.42 | 0.00008 |
N | 197 | S197L | tCa | tTa | 2 | 2 | AY.9.2 | 0.000073 |
N | 197 | S197L | tCa | tTa | 2 | 2 | B.1.1.284 | 0.000215 |
N | 197 | S197L | tCa | tTa | 2 | 2 | B.1.1.318 | 0.000604 |
N | 197 | S197L | tCa | tTa | 2 | 2 | B.1.1.368 | 0.006173 |
N | 197 | S197L | tCa | tTa | 2 | 2 | B.1.139 | 0.001466 |
N | 197 | S197L | tCa | tTa | 2 | 2 | B.1.234 | 0.000264 |
N | 197 | S197L | tCa | tTa | 2 | 2 | B.1.258 | 0.000133 |
N | 197 | S197L | tCa | tTa | 2 | 2 | B.1.503 | 0.004975 |
N | 197 | S197L | tCa | tTa | 1 | 2 | B.1.612 | 0.002653 |
N | 197 | S197L | TCa | CTa | 1 | 2 | B.1.612 | 0.002653 |
N | 197 | S197L | tCa | tTa | 2 | 2 | B.1.621 | 0.000177 |
N | 197 | S197L | tCa | tTa | 2 | 2 | B.40 | 0.000729 |
N | 197 | S197L | tCa | tTa | 2 | 2 | D.2 | 0.00015 |
N | 197 | S197L | tCa | tTa | 2 | 2 | P.1.15 | 0.000465 |
N | 197 | S197L | tCa | tTa | 2 | 2 | P.1.16 | 0.000748 |
N | 197 | S197L | tCa | tTa | 1 | 1 | 0.055556 | |
N | 197 | S197L | tCa | tTa | 1 | 1 | A.3 | 0.002096 |
N | 197 | S197L | tCa | tTa | 1 | 1 | AD.2 | 0.000219 |
N | 197 | S197L | tCa | tTa | 1 | 1 | AY.101 | 0.00049 |
N | 197 | S197L | tCa | tTa | 1 | 1 | AY.102 | 0.000027 |
N | 197 | S197L | tCa | tTa | 1 | 1 | AY.106 | 0.000335 |
N | 197 | S197L | tCa | tTa | 1 | 1 | AY.118 | 0.000063 |
N | 197 | S197L | tCa | tTa | 1 | 1 | AY.23.1 | 0.000417 |
N | 197 | S197L | tCa | tTa | 1 | 1 | AY.4.5 | 0.000107 |
N | 197 | S197L | tCa | tTa | 1 | 1 | AY.61 | 0.000105 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.1.205 | 0.003717 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.1.210 | 0.005714 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.1.216 | 0.00089 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.1.222 | 0.000204 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.1.305 | 0.003861 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.1.311 | 0.000358 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.1.33 | 0.000421 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.1.456 | 0.055556 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.1.54 | 0.003021 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.160 | 0.000031 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.177.21 | 0.000076 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.177.44 | 0.000519 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.177.60 | 0.000218 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.201 | 0.005682 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.285 | 0.090909 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.311 | 0.000275 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.330 | 0.028571 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.351.2 | 0.000303 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.354 | 0.043478 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.356 | 0.001727 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.367 | 0.000792 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.380 | 0.006623 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.542 | 0.03125 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.571 | 0.009709 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.595 | 0.000261 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.623 | 0.000536 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.1.633 | 0.041667 |
N | 197 | S197L | tCa | tTa | 1 | 1 | B.26 | 0.014706 |
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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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