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/nsp12 | 592 | S592S | S4984S | syn | agC | agT | 2156 | 2156 | 1 | 15214-15216 |
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/nsp12 | 592 | S592S | agC | agT | 2156 | 2156 | All | 0.000412 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 699 | 699 | B.1.1.7 | 0.000626 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 254 | 254 | B.1.617.2 | 0.000956 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 199 | 199 | AY.4 | 0.00031 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 91 | 91 | AY.43 | 0.000403 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 79 | 79 | AY.103 | 0.000491 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 75 | 75 | AY.100 | 0.00345 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 75 | 75 | B.1.1 | 0.001361 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 54 | 54 | B.1.2 | 0.000475 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 41 | 41 | U.3 | 0.158301 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 36 | 36 | AY.25 | 0.000217 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 34 | 34 | B.1 | 0.000311 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 33 | 33 | AY.3 | 0.000328 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 32 | 32 | N.4 | 0.13617 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 17 | 17 | P.1 | 0.000268 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 15 | 15 | AY.44 | 0.000091 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 14 | 14 | AY.102 | 0.000371 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 13 | 13 | C.37 | 0.001509 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 12 | 12 | AL.1 | 0.155844 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 12 | 12 | AY.41 | 0.003527 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 11 | 11 | B.1.177 | 0.000145 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 9 | 9 | AY.99.2 | 0.000829 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 9 | 9 | B.1.466.2 | 0.003521 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 9 | 9 | B.1.564 | 0.003833 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 9 | 9 | B.1.575 | 0.002731 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 9 | 9 | P.1.15 | 0.002091 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 8 | 8 | AY.87 | 0.006661 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 8 | 8 | B.1.110.1 | 0.8 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 8 | 8 | B.1.351 | 0.000238 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 7 | 7 | AY.119 | 0.000247 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 7 | 7 | AY.20 | 0.000272 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 7 | 7 | AY.26 | 0.000198 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 7 | 7 | AY.29 | 0.00011 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 7 | 7 | AY.34 | 0.000679 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 7 | 7 | AY.39.1 | 0.000277 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 7 | 7 | P.1.14 | 0.000335 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 6 | 6 | AY.113 | 0.000854 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 6 | 6 | AY.23 | 0.000418 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 6 | 6 | AY.47 | 0.000187 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 6 | 6 | AY.5 | 0.000124 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 6 | 6 | B.1.596 | 0.000523 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 6 | 6 | Q.8 | 0.000989 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 5 | 5 | B.1.160 | 0.000156 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 5 | 5 | B.1.22 | 0.006588 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 5 | 5 | B.1.429 | 0.000118 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 4 | 4 | AY.3.1 | 0.000341 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 4 | 4 | AY.39 | 0.000099 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 4 | 4 | AY.45 | 0.000487 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 4 | 4 | AY.6 | 0.000165 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 4 | 4 | AY.7 | 0.000784 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 4 | 4 | AY.74 | 0.000463 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 4 | 4 | AY.98 | 0.000316 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 4 | 4 | B.1.1.486 | 0.006309 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 4 | 4 | B.1.177.57 | 0.001124 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 4 | 4 | B.1.221 | 0.000284 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 4 | 4 | B.1.240 | 0.000862 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 4 | 4 | D.2 | 0.0003 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 3 | 3 | AY.1 | 0.001187 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 3 | 3 | AY.117 | 0.000254 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 3 | 3 | AY.19 | 0.003421 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 3 | 3 | AY.4.2 | 0.000065 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 3 | 3 | AY.81 | 0.005976 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 3 | 3 | B.1.1.219 | 0.015 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 3 | 3 | B.1.1.48 | 0.008621 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 3 | 3 | B.1.258 | 0.0002 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 3 | 3 | B.1.36.29 | 0.001552 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 3 | 3 | B.1.443 | 0.014019 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 3 | 3 | B.1.621 | 0.000266 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | AY.111 | 0.000366 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | AY.12 | 0.000632 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | AY.121 | 0.000271 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | AY.16.1 | 0.00094 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | AY.30 | 0.000791 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | AY.33 | 0.000134 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | AY.4.5 | 0.000215 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | AY.9 | 0.000135 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | AY.9.2 | 0.000073 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | B.1.1.1 | 0.000653 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | B.1.1.203 | 0.033898 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | B.1.1.216 | 0.001781 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | B.1.1.413 | 0.013793 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | B.1.177.54 | 0.001213 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | B.1.506 | 0.047619 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | B.1.595 | 0.000522 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | B.6 | 0.00182 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | C.1.2 | 0.008511 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 2 | 2 | Q.3 | 0.00029 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | A | 0.000387 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | A.1 | 0.000282 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | A.2.5 | 0.000499 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | A.23.1 | 0.000704 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | A.5 | 0.001923 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AD.1 | 0.004115 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.101 | 0.00049 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.106 | 0.000335 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.107 | 0.000466 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.14 | 0.000088 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.16 | 0.00038 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.24 | 0.000431 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.4.3 | 0.000842 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.42 | 0.00004 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.46.4 | 0.000165 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.51 | 0.000909 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.55 | 0.000917 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.62 | 0.000436 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.70 | 0.000209 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.9.1 | 0.000084 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.91 | 0.00073 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | AY.95 | 0.000761 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.10 | 0.001115 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.101 | 0.01 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.161 | 0.003534 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.164 | 0.005155 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.214 | 0.000055 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.273 | 0.006757 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.294 | 0.001266 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.306 | 0.000438 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.33 | 0.000421 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.348 | 0.000796 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.39 | 0.00051 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.409 | 0.002833 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.46 | 0.004367 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.519 | 0.00004 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.523 | 0.001563 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.1.70 | 0.000341 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.160.28 | 0.002924 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.177.15 | 0.000631 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.177.32 | 0.00135 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.177.35 | 0.000691 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.214.2 | 0.0006 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.221.1 | 0.002907 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.229 | 0.009709 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.232 | 0.000537 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.234 | 0.000132 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.258.17 | 0.000104 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.36.1 | 0.00114 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.36.31 | 0.001751 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.36.8 | 0.001 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.375 | 0.00082 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.427 | 0.00005 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.470 | 0.001404 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.526 | 0.000024 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.577 | 0.000687 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.598 | 0.016949 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.41 | 0.008 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | B.61 | 0.005747 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | C.16 | 0.00106 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | C.36.3 | 0.000567 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | P.1.12 | 0.000484 |
ORF1ab/nsp12 | 592 | S592S | agC | agT | 1 | 1 | P.1.7 | 0.000319 |
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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