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 | 845 | A845V | nonsyn | gCt | gTt | 1822 | 1821 | 0.999451 | 24095-24097 | |
S | 845 | A845V | nonsyn | gCT | gTC | 1822 | 1 | 0.000548847 | 24095-24097 |
Details of the mutation A845V 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 | 845 | A845V | gCt | gTt | 1821 | 1822 | All | 0.000348 |
S | 845 | A845V | gCT | gTC | 1 | 1822 | All | 0 |
S | 845 | A845V | gCt | gTt | 390 | 390 | B.1.1.7 | 0.000349 |
S | 845 | A845V | gCt | gTt | 361 | 361 | AY.4 | 0.000562 |
S | 845 | A845V | gCt | gTt | 98 | 98 | B.1.617.2 | 0.000369 |
S | 845 | A845V | gCt | gTt | 80 | 80 | AY.43 | 0.000354 |
S | 845 | A845V | gCt | gTt | 66 | 66 | AY.25 | 0.000397 |
S | 845 | A845V | gCt | gTt | 62 | 62 | AY.103 | 0.000385 |
S | 845 | A845V | gCt | gTt | 51 | 51 | B.1.2 | 0.000449 |
S | 845 | A845V | gCt | gTt | 47 | 47 | B.1.1 | 0.000853 |
S | 845 | A845V | gCt | gTt | 43 | 43 | AY.46.2 | 0.027319 |
S | 845 | A845V | gCt | gTt | 41 | 41 | AY.3 | 0.000408 |
S | 845 | A845V | gCt | gTt | 37 | 37 | B.1 | 0.000339 |
S | 845 | A845V | gCt | gTt | 19 | 19 | B.1.177 | 0.00025 |
S | 845 | A845V | gCt | gTt | 18 | 18 | AY.4.4 | 0.007365 |
S | 845 | A845V | gCt | gTt | 18 | 18 | B.1.497 | 0.005666 |
S | 845 | A845V | gCt | gTt | 17 | 17 | B.1.177.17 | 0.013957 |
S | 845 | A845V | gCt | gTt | 15 | 15 | AY.44 | 0.000091 |
S | 845 | A845V | gCt | gTt | 15 | 15 | B.1.429 | 0.000353 |
S | 845 | A845V | gCt | gTt | 15 | 15 | P.1 | 0.000236 |
S | 845 | A845V | gCt | gTt | 14 | 14 | AY.39 | 0.000346 |
S | 845 | A845V | gCt | gTt | 13 | 13 | AY.5 | 0.000268 |
S | 845 | A845V | gCt | gTt | 13 | 13 | B.1.240 | 0.002802 |
S | 845 | A845V | gCt | gTt | 13 | 13 | B.1.243 | 0.000905 |
S | 845 | A845V | gCt | gTt | 13 | 13 | P.1.17 | 0.002103 |
S | 845 | A845V | gCt | gTt | 11 | 11 | B.1.258.17 | 0.001144 |
S | 845 | A845V | gCt | gTt | 10 | 10 | B.1.1.198 | 0.014684 |
S | 845 | A845V | gCt | gTt | 10 | 10 | B.1.351 | 0.000297 |
S | 845 | A845V | gCt | gTt | 9 | 9 | B.1.1.33 | 0.003788 |
S | 845 | A845V | gCt | gTt | 9 | 9 | B.1.427 | 0.000454 |
S | 845 | A845V | gCt | gTt | 7 | 8 | AY.117 | 0.000592 |
S | 845 | A845V | gCT | gTC | 1 | 8 | AY.117 | 0.000085 |
S | 845 | A845V | gCt | gTt | 8 | 8 | B.1.177.5 | 0.009938 |
S | 845 | A845V | gCt | gTt | 8 | 8 | B.1.526 | 0.000188 |
S | 845 | A845V | gCt | gTt | 7 | 7 | AY.4.2 | 0.000152 |
S | 845 | A845V | gCt | gTt | 7 | 7 | AY.42 | 0.000282 |
S | 845 | A845V | gCt | gTt | 7 | 7 | AY.72 | 0.009524 |
S | 845 | A845V | gCt | gTt | 7 | 7 | AY.9.2 | 0.000257 |
S | 845 | A845V | gCt | gTt | 7 | 7 | B.1.177.21 | 0.000535 |
S | 845 | A845V | gCt | gTt | 7 | 7 | C.37 | 0.000812 |
S | 845 | A845V | gCt | gTt | 6 | 6 | AY.102 | 0.000159 |
S | 845 | A845V | gCt | gTt | 6 | 6 | AY.29 | 0.000095 |
S | 845 | A845V | gCt | gTt | 6 | 6 | B.1.1.255 | 0.018182 |
S | 845 | A845V | gCt | gTt | 6 | 6 | P.1.2 | 0.006936 |
S | 845 | A845V | gCt | gTt | 5 | 5 | AY.100 | 0.00023 |
S | 845 | A845V | gCt | gTt | 5 | 5 | AY.46 | 0.00052 |
S | 845 | A845V | gCt | gTt | 5 | 5 | B.1.177.51 | 0.022831 |
S | 845 | A845V | gCt | gTt | 5 | 5 | B.1.36 | 0.00073 |
S | 845 | A845V | gCt | gTt | 5 | 5 | Q.2 | 0.003067 |
S | 845 | A845V | gCt | gTt | 4 | 4 | AY.106 | 0.00134 |
S | 845 | A845V | gCt | gTt | 4 | 4 | AY.26 | 0.000113 |
S | 845 | A845V | gCt | gTt | 4 | 4 | AY.6 | 0.000165 |
S | 845 | A845V | gCt | gTt | 4 | 4 | B.1.1.428 | 0.037736 |
S | 845 | A845V | gCt | gTt | 4 | 4 | B.1.438.1 | 0.000429 |
S | 845 | A845V | gCt | gTt | 4 | 4 | D.2 | 0.0003 |
S | 845 | A845V | gCt | gTt | 3 | 3 | A.2.5.2 | 0.004717 |
S | 845 | A845V | gCt | gTt | 3 | 3 | AY.119 | 0.000106 |
S | 845 | A845V | gCt | gTt | 3 | 3 | AY.36 | 0.000445 |
S | 845 | A845V | gCt | gTt | 3 | 3 | AY.46.6 | 0.000217 |
S | 845 | A845V | gCt | gTt | 3 | 3 | B.1.1.284 | 0.000322 |
S | 845 | A845V | gCt | gTt | 3 | 3 | B.1.177.57 | 0.000843 |
S | 845 | A845V | gCt | gTt | 3 | 3 | B.1.177.86 | 0.00055 |
S | 845 | A845V | gCt | gTt | 3 | 3 | B.1.221 | 0.000213 |
S | 845 | A845V | gCt | gTt | 3 | 3 | B.1.525 | 0.000339 |
S | 845 | A845V | gCt | gTt | 3 | 3 | B.1.609 | 0.001438 |
S | 845 | A845V | gCt | gTt | 3 | 3 | P.1.14 | 0.000143 |
S | 845 | A845V | gCt | gTt | 2 | 2 | AD.2 | 0.000438 |
S | 845 | A845V | gCt | gTt | 2 | 2 | AY.108 | 0.002205 |
S | 845 | A845V | gCt | gTt | 2 | 2 | AY.118 | 0.000125 |
S | 845 | A845V | gCt | gTt | 2 | 2 | AY.120 | 0.000074 |
S | 845 | A845V | gCt | gTt | 2 | 2 | AY.120.1 | 0.000642 |
S | 845 | A845V | gCt | gTt | 2 | 2 | AY.29.1 | 0.000441 |
S | 845 | A845V | gCt | gTt | 2 | 2 | AY.54 | 0.000191 |
S | 845 | A845V | gCt | gTt | 2 | 2 | AY.55 | 0.001835 |
S | 845 | A845V | gCt | gTt | 2 | 2 | AY.61 | 0.00021 |
S | 845 | A845V | gCt | gTt | 2 | 2 | AY.63 | 0.000774 |
S | 845 | A845V | gCt | gTt | 2 | 2 | AY.75 | 0.000112 |
S | 845 | A845V | gCt | gTt | 2 | 2 | AY.85 | 0.000854 |
S | 845 | A845V | gCt | gTt | 2 | 2 | AY.98 | 0.000158 |
S | 845 | A845V | gCt | gTt | 2 | 2 | AY.98.1 | 0.000097 |
S | 845 | A845V | gCt | gTt | 2 | 2 | B.1.1.157 | 0.001826 |
S | 845 | A845V | gCt | gTt | 2 | 2 | B.1.1.158 | 0.02439 |
S | 845 | A845V | gCt | gTt | 2 | 2 | B.1.1.176 | 0.000879 |
S | 845 | A845V | gCt | gTt | 2 | 2 | B.1.1.222 | 0.000408 |
S | 845 | A845V | gCt | gTt | 2 | 2 | B.1.1.306 | 0.000877 |
S | 845 | A845V | gCt | gTt | 2 | 2 | B.1.1.46 | 0.008734 |
S | 845 | A845V | gCt | gTt | 2 | 2 | B.1.160 | 0.000062 |
S | 845 | A845V | gCt | gTt | 2 | 2 | B.1.258 | 0.000133 |
S | 845 | A845V | gCt | gTt | 2 | 2 | B.1.351.3 | 0.001753 |
S | 845 | A845V | gCt | gTt | 2 | 2 | B.1.36.17 | 0.000988 |
S | 845 | A845V | gCt | gTt | 2 | 2 | B.1.36.29 | 0.001035 |
S | 845 | A845V | gCt | gTt | 2 | 2 | B.1.396 | 0.001411 |
S | 845 | A845V | gCt | gTt | 2 | 2 | B.1.470 | 0.002809 |
S | 845 | A845V | gCt | gTt | 2 | 2 | B.1.595 | 0.000522 |
S | 845 | A845V | gCt | gTt | 2 | 2 | B.1.596 | 0.000174 |
S | 845 | A845V | gCt | gTt | 2 | 2 | P.1.1 | 0.000635 |
S | 845 | A845V | gCt | gTt | 1 | 1 | A.1 | 0.000282 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AA.7 | 0.009174 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AM.4 | 0.003571 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AU.3 | 0.00211 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.101 | 0.00049 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.2 | 0.000356 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.20 | 0.000039 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.23 | 0.00007 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.27 | 0.000065 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.32 | 0.000532 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.35 | 0.000233 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.4.2.1 | 0.000149 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.46.4 | 0.000165 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.49 | 0.003195 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.65 | 0.000533 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.69 | 0.000187 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.7.2 | 0.000559 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.75.1 | 0.00018 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.82 | 0.001357 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.83 | 0.001724 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.87 | 0.000833 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.9 | 0.000068 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.9.1 | 0.000084 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.92 | 0.000287 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.93 | 0.000273 |
S | 845 | A845V | gCt | gTt | 1 | 1 | AY.99.1 | 0.001553 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B | 0.000128 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.1.141 | 0.002012 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.1.161 | 0.003534 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.1.189 | 0.001513 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.1.275 | 0.011236 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.1.277 | 0.000759 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.1.326 | 0.001761 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.1.37 | 0.000193 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.1.370 | 0.012658 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.1.409 | 0.002833 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.1.420 | 0.001006 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.1.519 | 0.00004 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.1.52 | 0.012195 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.1.523 | 0.001563 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.1.525 | 0.005464 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.139 | 0.000733 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.160.12 | 0.00641 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.177.10 | 0.000878 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.177.12 | 0.000152 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.177.16 | 0.000664 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.177.23 | 0.003236 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.177.32 | 0.00135 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.177.4 | 0.000211 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.177.43 | 0.001477 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.177.60 | 0.000218 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.177.83 | 0.001481 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.234 | 0.000132 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.258.10 | 0.011364 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.279 | 0.000514 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.320 | 0.001245 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.324 | 0.001605 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.351.2 | 0.000303 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.36.39 | 0.002217 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.389 | 0.001002 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.400 | 0.000429 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.428.3 | 0.012821 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.433 | 0.003195 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.44 | 0.008333 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.441 | 0.009615 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.456 | 0.003268 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.511 | 0.034483 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.515 | 0.014493 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.561 | 0.000397 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.597 | 0.00463 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.619.1 | 0.000641 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.630 | 0.005236 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.1.637 | 0.000073 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.29 | 0.003509 |
S | 845 | A845V | gCt | gTt | 1 | 1 | B.4.5 | 0.011905 |
S | 845 | A845V | gCt | gTt | 1 | 1 | C.36 | 0.000911 |
S | 845 | A845V | gCt | gTt | 1 | 1 | C.36.3 | 0.000567 |
S | 845 | A845V | gCt | gTt | 1 | 1 | C.37.1 | 0.002618 |
S | 845 | A845V | gCt | gTt | 1 | 1 | C.38 | 0.008065 |
S | 845 | A845V | gCt | gTt | 1 | 1 | C.6 | 0.037037 |
S | 845 | A845V | gCt | gTt | 1 | 1 | P.2 | 0.000187 |
S | 845 | A845V | gCt | gTt | 1 | 1 | Q.4 | 0.000455 |
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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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