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/nsp13 | 47 | P47S | P5371S | nonsyn | Ccg | Tcg | 4936 | 4928 | 0.998379 | 16375-16377 |
ORF1ab/nsp13 | 47 | P47S | P5371S | nonsyn | CcG | TcA | 4936 | 4 | 0.000810373 | 16375-16377 |
ORF1ab/nsp13 | 47 | P47S | P5371S | nonsyn | CcG | TcT | 4936 | 3 | 0.00060778 | 16375-16377 |
ORF1ab/nsp13 | 47 | P47S | P5371S | nonsyn | CcG | TcC | 4936 | 1 | 0.000202593 | 16375-16377 |
Details of the mutation P47S 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/nsp13 | 47 | P47S | Ccg | Tcg | 4928 | 4936 | All | 0.000943 |
ORF1ab/nsp13 | 47 | P47S | CcG | TcA | 4 | 4936 | All | 0.000001 |
ORF1ab/nsp13 | 47 | P47S | CcG | TcT | 3 | 4936 | All | 0.000001 |
ORF1ab/nsp13 | 47 | P47S | CcG | TcC | 1 | 4936 | All | 0 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 3236 | 3238 | B.1.575 | 0.981796 |
ORF1ab/nsp13 | 47 | P47S | CcG | TcA | 2 | 3238 | B.1.575 | 0.000607 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 618 | 618 | B.1.1.7 | 0.000553 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 392 | 392 | B.1.575.1 | 0.956098 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 208 | 208 | B.1.575.2 | 1 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 100 | 101 | B.1 | 0.000916 |
ORF1ab/nsp13 | 47 | P47S | CcG | TcT | 1 | 101 | B.1 | 0.000009 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 40 | 40 | B.1.427 | 0.00202 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 24 | 24 | B.1.595 | 0.006263 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 21 | 21 | B.1.1.351 | 0.058659 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 16 | 16 | B.1.1 | 0.00029 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 16 | 16 | B.1.160 | 0.000499 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 16 | 16 | B.1.2 | 0.000141 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 13 | 13 | B.1.258 | 0.000865 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 12 | 12 | B.1.139 | 0.008798 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 5 | 10 | 0.277778 | |
ORF1ab/nsp13 | 47 | P47S | CcG | TcT | 2 | 10 | 0.111111 | |
ORF1ab/nsp13 | 47 | P47S | CcG | TcA | 2 | 10 | 0.111111 | |
ORF1ab/nsp13 | 47 | P47S | CcG | TcC | 1 | 10 | 0.055556 | |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 9 | 9 | AY.35 | 0.002097 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 9 | 9 | B.1.177 | 0.000119 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 8 | 8 | AY.4 | 0.000012 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 7 | 7 | A.2 | 0.004633 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 7 | 7 | B.1.1.186 | 0.024055 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 7 | 7 | D.2 | 0.000525 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 6 | 6 | AY.44 | 0.000037 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 5 | 5 | AY.103 | 0.000031 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 5 | 5 | AY.26 | 0.000142 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 5 | 5 | AY.43 | 0.000022 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 5 | 5 | B.1.243 | 0.000348 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 5 | 5 | B.1.617.2 | 0.000019 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 5 | 5 | Q.3 | 0.000725 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 4 | 4 | A.2.4 | 0.013468 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 4 | 4 | AY.3 | 0.00004 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 4 | 4 | B.1.1.214 | 0.000222 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 4 | 4 | B.1.351 | 0.000119 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 4 | 4 | B.1.517 | 0.001708 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 4 | 4 | B.1.621 | 0.000354 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 4 | 4 | B.40 | 0.001457 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 4 | 4 | P.1 | 0.000063 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 3 | 3 | AY.119 | 0.000106 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 3 | 3 | B.1.1.519 | 0.000119 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 3 | 3 | B.1.369 | 0.000856 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 3 | 3 | B.1.448 | 0.007874 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 3 | 3 | B.1.526 | 0.000071 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 2 | 2 | A | 0.000774 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 2 | 2 | A.1 | 0.000564 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 2 | 2 | AW.1 | 0.006098 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 2 | 2 | AY.102 | 0.000053 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 2 | 2 | AY.6 | 0.000082 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 2 | 2 | B | 0.000256 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 2 | 2 | B.1.1.277 | 0.001517 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 2 | 2 | B.1.1.434 | 0.000697 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 2 | 2 | B.1.1.48 | 0.005747 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 2 | 2 | B.1.177.60 | 0.000437 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 2 | 2 | B.1.177.73 | 0.001133 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 2 | 2 | B.1.497 | 0.00063 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 2 | 2 | B.1.619.1 | 0.001283 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 2 | 2 | B.39 | 0.004662 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 2 | 2 | B.55 | 0.0059 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | A.2.5 | 0.000499 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | A.4 | 0.012821 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | A.5 | 0.001923 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | A.6 | 0.005128 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | AY.39 | 0.000025 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | AY.5.3 | 0.000337 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.1.1 | 0.000327 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.1.157 | 0.000913 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.1.213 | 0.021739 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.1.220 | 0.001859 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.1.25 | 0.000569 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.1.284 | 0.000107 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.1.299 | 0.012195 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.1.308 | 0.011765 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.1.33 | 0.000421 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.1.371 | 0.010417 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.1.413 | 0.006897 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.1.417 | 0.002703 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.1.437 | 0.010417 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.1.448 | 0.002033 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.1.453 | 0.008475 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.160.16 | 0.000929 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.160.8 | 0.001289 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.177.15 | 0.000631 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.177.6 | 0.000977 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.177.7 | 0.000165 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.177.74 | 0.015152 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.177.77 | 0.000726 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.210 | 0.002132 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.320 | 0.001245 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.325 | 0.006897 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.36.29 | 0.000517 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.367 | 0.000792 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.371 | 0.001122 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.375 | 0.00082 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.399 | 0.001934 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.421 | 0.007463 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.429 | 0.000024 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.505 | 0.004386 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.29 | 0.003509 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.3.1 | 0.001658 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.31 | 0.003731 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.33 | 0.021277 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.4 | 0.002208 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | B.6 | 0.00091 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | C.37 | 0.000116 |
ORF1ab/nsp13 | 47 | P47S | Ccg | Tcg | 1 | 1 | P.1.14 | 0.000048 |
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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