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 |
ORF3a | 42 | P42S | nonsyn | Cct | Tct | 4964 | 4964 | 1 | 25516-25518 |
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 |
ORF3a | 42 | P42S | Cct | Tct | 4964 | 4964 | All | 0.000949 |
ORF3a | 42 | P42S | Cct | Tct | 2813 | 2813 | AY.12 | 0.889064 |
ORF3a | 42 | P42S | Cct | Tct | 600 | 600 | B.1.1.7 | 0.000537 |
ORF3a | 42 | P42S | Cct | Tct | 234 | 234 | AY.4 | 0.000364 |
ORF3a | 42 | P42S | Cct | Tct | 135 | 135 | AY.43 | 0.000598 |
ORF3a | 42 | P42S | Cct | Tct | 117 | 117 | B.1.617.2 | 0.000441 |
ORF3a | 42 | P42S | Cct | Tct | 76 | 76 | AY.44 | 0.000463 |
ORF3a | 42 | P42S | Cct | Tct | 66 | 66 | AY.25 | 0.000397 |
ORF3a | 42 | P42S | Cct | Tct | 61 | 61 | AY.103 | 0.000379 |
ORF3a | 42 | P42S | Cct | Tct | 57 | 57 | B.1.427 | 0.002878 |
ORF3a | 42 | P42S | Cct | Tct | 55 | 55 | B.1.177 | 0.000724 |
ORF3a | 42 | P42S | Cct | Tct | 49 | 49 | B.1.2 | 0.000431 |
ORF3a | 42 | P42S | Cct | Tct | 47 | 47 | B.1 | 0.00043 |
ORF3a | 42 | P42S | Cct | Tct | 42 | 42 | AY.3 | 0.000418 |
ORF3a | 42 | P42S | Cct | Tct | 42 | 42 | B.1.429 | 0.000988 |
ORF3a | 42 | P42S | Cct | Tct | 33 | 33 | AY.39 | 0.000815 |
ORF3a | 42 | P42S | Cct | Tct | 33 | 33 | AY.84 | 0.014436 |
ORF3a | 42 | P42S | Cct | Tct | 29 | 29 | B.1.160 | 0.000904 |
ORF3a | 42 | P42S | Cct | Tct | 26 | 26 | AY.61 | 0.002724 |
ORF3a | 42 | P42S | Cct | Tct | 25 | 25 | P.1 | 0.000394 |
ORF3a | 42 | P42S | Cct | Tct | 24 | 24 | AY.46.6 | 0.001733 |
ORF3a | 42 | P42S | Cct | Tct | 24 | 24 | B.1.221 | 0.001705 |
ORF3a | 42 | P42S | Cct | Tct | 22 | 22 | AY.5.3 | 0.007422 |
ORF3a | 42 | P42S | Cct | Tct | 21 | 21 | B.1.621 | 0.001859 |
ORF3a | 42 | P42S | Cct | Tct | 16 | 16 | AY.26 | 0.000453 |
ORF3a | 42 | P42S | Cct | Tct | 14 | 14 | AY.119 | 0.000494 |
ORF3a | 42 | P42S | Cct | Tct | 14 | 14 | B.1.409 | 0.010937 |
ORF3a | 42 | P42S | Cct | Tct | 13 | 13 | AY.102 | 0.000345 |
ORF3a | 42 | P42S | Cct | Tct | 13 | 13 | AY.39.1 | 0.000515 |
ORF3a | 42 | P42S | Cct | Tct | 13 | 13 | B.1.621.1 | 0.006576 |
ORF3a | 42 | P42S | Cct | Tct | 9 | 9 | AY.34 | 0.000873 |
ORF3a | 42 | P42S | Cct | Tct | 8 | 8 | B.1.258.17 | 0.000832 |
ORF3a | 42 | P42S | Cct | Tct | 8 | 8 | B.1.36.1 | 0.009122 |
ORF3a | 42 | P42S | Cct | Tct | 8 | 8 | B.1.36.8 | 0.008 |
ORF3a | 42 | P42S | Cct | Tct | 7 | 7 | B.1.617.1 | 0.000903 |
ORF3a | 42 | P42S | Cct | Tct | 6 | 6 | AY.120 | 0.000223 |
ORF3a | 42 | P42S | Cct | Tct | 6 | 6 | AY.4.5 | 0.000645 |
ORF3a | 42 | P42S | Cct | Tct | 6 | 6 | AY.74 | 0.000694 |
ORF3a | 42 | P42S | Cct | Tct | 5 | 5 | AY.117 | 0.000423 |
ORF3a | 42 | P42S | Cct | Tct | 5 | 5 | AY.29 | 0.000079 |
ORF3a | 42 | P42S | Cct | Tct | 5 | 5 | AY.33 | 0.000334 |
ORF3a | 42 | P42S | Cct | Tct | 5 | 5 | AY.46 | 0.00052 |
ORF3a | 42 | P42S | Cct | Tct | 5 | 5 | AY.8 | 0.00303 |
ORF3a | 42 | P42S | Cct | Tct | 5 | 5 | P.1.13 | 0.004492 |
ORF3a | 42 | P42S | Cct | Tct | 4 | 4 | 0.222222 | |
ORF3a | 42 | P42S | Cct | Tct | 4 | 4 | AY.20 | 0.000155 |
ORF3a | 42 | P42S | Cct | Tct | 4 | 4 | AY.52 | 0.003257 |
ORF3a | 42 | P42S | Cct | Tct | 4 | 4 | AY.75 | 0.000224 |
ORF3a | 42 | P42S | Cct | Tct | 4 | 4 | B.1.1.63 | 0.001543 |
ORF3a | 42 | P42S | Cct | Tct | 4 | 4 | B.1.369 | 0.001141 |
ORF3a | 42 | P42S | Cct | Tct | 3 | 3 | AY.106 | 0.001005 |
ORF3a | 42 | P42S | Cct | Tct | 3 | 3 | AY.113 | 0.000427 |
ORF3a | 42 | P42S | Cct | Tct | 3 | 3 | AY.116 | 0.00086 |
ORF3a | 42 | P42S | Cct | Tct | 3 | 3 | AY.14 | 0.000264 |
ORF3a | 42 | P42S | Cct | Tct | 3 | 3 | AY.95 | 0.002283 |
ORF3a | 42 | P42S | Cct | Tct | 3 | 3 | AY.98.1 | 0.000145 |
ORF3a | 42 | P42S | Cct | Tct | 3 | 3 | B.1.1 | 0.000054 |
ORF3a | 42 | P42S | Cct | Tct | 3 | 3 | B.1.1.28 | 0.000934 |
ORF3a | 42 | P42S | Cct | Tct | 3 | 3 | B.1.177.7 | 0.000495 |
ORF3a | 42 | P42S | Cct | Tct | 3 | 3 | B.1.258 | 0.0002 |
ORF3a | 42 | P42S | Cct | Tct | 3 | 3 | B.1.351 | 0.000089 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | AY.107 | 0.000932 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | AY.111 | 0.000366 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | AY.23 | 0.000139 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | AY.27 | 0.000129 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | AY.4.4 | 0.000818 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | AY.40 | 0.001929 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | AY.62 | 0.000871 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | AY.63 | 0.000774 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | AY.75.1 | 0.000361 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | AY.9.1 | 0.000167 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | AY.92 | 0.000575 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | AY.98 | 0.000158 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | B | 0.000256 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | B.1.1.207 | 0.002364 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | B.1.1.305 | 0.007722 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | B.1.1.317 | 0.000823 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | B.1.1.37 | 0.000386 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | B.1.1.519 | 0.000079 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | B.1.160.16 | 0.001859 |
ORF3a | 42 | P42S | Cct | Tct | 2 | 2 | D.2 | 0.00015 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | A.11 | 0.058824 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | A.2.5 | 0.000499 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.100 | 0.000046 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.109 | 0.00074 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.116.1 | 0.000311 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.118 | 0.000063 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.13 | 0.000161 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.22 | 0.002092 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.23.1 | 0.000417 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.38 | 0.000499 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.39.1.1 | 0.000725 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.4.2 | 0.000022 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.41 | 0.000294 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.45 | 0.000122 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.46.3 | 0.000934 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.46.4 | 0.000165 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.5 | 0.000021 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.5.4 | 0.000277 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.54 | 0.000095 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.6 | 0.000041 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.68 | 0.000274 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.9 | 0.000068 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.91 | 0.00073 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AY.99 | 0.001049 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | AZ.1 | 0.000867 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.1.117 | 0.009709 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.1.139 | 0.022727 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.1.159 | 0.004673 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.1.192 | 0.002309 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.1.306 | 0.000438 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.1.311 | 0.000358 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.1.448 | 0.002033 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.1.464 | 0.001473 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.1.524 | 0.020833 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.177.11 | 0.001698 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.177.4 | 0.000211 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.177.44 | 0.000519 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.177.73 | 0.000566 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.240 | 0.000216 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.243 | 0.00007 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.346 | 0.001311 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.350 | 0.002933 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.36 | 0.000146 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.36.16 | 0.001425 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.36.36 | 0.000602 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.396 | 0.000706 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.399 | 0.001934 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.413 | 0.004255 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.438.1 | 0.000107 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.456 | 0.003268 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.470 | 0.001404 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.499.1 | 0.111111 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.509 | 0.000866 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.548 | 0.035714 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.560 | 0.00463 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.587 | 0.001898 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.595 | 0.000261 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.596 | 0.000087 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.605 | 0.005952 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.1.628 | 0.000352 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | B.55 | 0.00295 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | N.5 | 0.001767 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | P.1.14 | 0.000048 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | Q.1 | 0.000126 |
ORF3a | 42 | P42S | Cct | Tct | 1 | 1 | W.3 | 0.005263 |
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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