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 | 30 | G30R | nonsyn | Gga | Aga | 3965 | 3281 | 0.827491 | 28361-28363 | |
N | 30 | G30R | nonsyn | Gga | Cga | 3965 | 684 | 0.172509 | 28361-28363 |
Details of the mutation G30R 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 | 30 | G30R | Gga | Aga | 3281 | 3965 | All | 0.000628 |
N | 30 | G30R | Gga | Cga | 684 | 3965 | All | 0.000131 |
N | 30 | G30R | Gga | Aga | 2276 | 2276 | B.1.1.176 | 1 |
N | 30 | G30R | Gga | Cga | 310 | 491 | B.1.2 | 0.00273 |
N | 30 | G30R | Gga | Aga | 181 | 491 | B.1.2 | 0.001594 |
N | 30 | G30R | Gga | Aga | 400 | 400 | B.1.177.81 | 0.075729 |
N | 30 | G30R | Gga | Cga | 126 | 129 | B.1.351 | 0.003746 |
N | 30 | G30R | Gga | Aga | 3 | 129 | B.1.351 | 0.000089 |
N | 30 | G30R | Gga | Cga | 42 | 61 | B.1.617.2 | 0.000158 |
N | 30 | G30R | Gga | Aga | 19 | 61 | B.1.617.2 | 0.000072 |
N | 30 | G30R | Gga | Aga | 47 | 51 | B.1 | 0.00043 |
N | 30 | G30R | Gga | Cga | 4 | 51 | B.1 | 0.000037 |
N | 30 | G30R | Gga | Aga | 29 | 37 | B.1.1 | 0.000526 |
N | 30 | G30R | Gga | Cga | 8 | 37 | B.1.1 | 0.000145 |
N | 30 | G30R | Gga | Aga | 33 | 33 | B.1.466.2 | 0.012911 |
N | 30 | G30R | Gga | Cga | 32 | 32 | AY.119 | 0.00113 |
N | 30 | G30R | Gga | Aga | 21 | 25 | AY.4 | 0.000033 |
N | 30 | G30R | Gga | Cga | 4 | 25 | AY.4 | 0.000006 |
N | 30 | G30R | Gga | Aga | 25 | 25 | B.1.1.519 | 0.000993 |
N | 30 | G30R | Gga | Cga | 23 | 24 | B.1.596 | 0.002004 |
N | 30 | G30R | Gga | Aga | 1 | 24 | B.1.596 | 0.000087 |
N | 30 | G30R | Gga | Cga | 23 | 23 | AY.4.2 | 0.000499 |
N | 30 | G30R | Gga | Cga | 11 | 22 | B.1.1.7 | 0.00001 |
N | 30 | G30R | Gga | Aga | 11 | 22 | B.1.1.7 | 0.00001 |
N | 30 | G30R | Gga | Aga | 21 | 21 | B.1.324 | 0.033708 |
N | 30 | G30R | Gga | Aga | 18 | 20 | B.1.160 | 0.000561 |
N | 30 | G30R | Gga | Cga | 2 | 20 | B.1.160 | 0.000062 |
N | 30 | G30R | Gga | Aga | 13 | 20 | B.1.177 | 0.000171 |
N | 30 | G30R | Gga | Cga | 7 | 20 | B.1.177 | 0.000092 |
N | 30 | G30R | Gga | Aga | 14 | 16 | AY.44 | 0.000085 |
N | 30 | G30R | Gga | Cga | 2 | 16 | AY.44 | 0.000012 |
N | 30 | G30R | Gga | Cga | 12 | 14 | B.1.429 | 0.000282 |
N | 30 | G30R | Gga | Aga | 2 | 14 | B.1.429 | 0.000047 |
N | 30 | G30R | Gga | Cga | 8 | 14 | R.1 | 0.00072 |
N | 30 | G30R | Gga | Aga | 6 | 14 | R.1 | 0.00054 |
N | 30 | G30R | Gga | Aga | 8 | 9 | AY.103 | 0.00005 |
N | 30 | G30R | Gga | Cga | 1 | 9 | AY.103 | 0.000006 |
N | 30 | G30R | Gga | Aga | 9 | 9 | AY.117 | 0.000761 |
N | 30 | G30R | Gga | Cga | 9 | 9 | B.1.1.222 | 0.001836 |
N | 30 | G30R | Gga | Aga | 8 | 8 | AY.47 | 0.000249 |
N | 30 | G30R | Gga | Aga | 7 | 7 | AS.1 | 0.066667 |
N | 30 | G30R | Gga | Aga | 7 | 7 | AY.42 | 0.000282 |
N | 30 | G30R | Gga | Aga | 7 | 7 | B.1.526 | 0.000165 |
N | 30 | G30R | Gga | Cga | 6 | 6 | AY.5 | 0.000124 |
N | 30 | G30R | Gga | Aga | 6 | 6 | B.1.1.1 | 0.00196 |
N | 30 | G30R | Gga | Aga | 6 | 6 | B.1.1.241 | 0.012422 |
N | 30 | G30R | Gga | Aga | 6 | 6 | B.1.1.284 | 0.000644 |
N | 30 | G30R | Gga | Cga | 5 | 5 | AY.29 | 0.000079 |
N | 30 | G30R | Gga | Cga | 5 | 5 | B.1.221 | 0.000355 |
N | 30 | G30R | Gga | Aga | 3 | 4 | AY.100 | 0.000138 |
N | 30 | G30R | Gga | Cga | 1 | 4 | AY.100 | 0.000046 |
N | 30 | G30R | Gga | Aga | 4 | 4 | AY.108 | 0.00441 |
N | 30 | G30R | Gga | Aga | 4 | 4 | AY.120 | 0.000149 |
N | 30 | G30R | Gga | Cga | 2 | 4 | AY.43 | 0.000009 |
N | 30 | G30R | Gga | Aga | 2 | 4 | AY.43 | 0.000009 |
N | 30 | G30R | Gga | Aga | 2 | 4 | AY.75 | 0.000112 |
N | 30 | G30R | Gga | Cga | 2 | 4 | AY.75 | 0.000112 |
N | 30 | G30R | Gga | Aga | 3 | 4 | B.1.427 | 0.000151 |
N | 30 | G30R | Gga | Cga | 1 | 4 | B.1.427 | 0.00005 |
N | 30 | G30R | Gga | Aga | 2 | 3 | AY.25 | 0.000012 |
N | 30 | G30R | Gga | Cga | 1 | 3 | AY.25 | 0.000006 |
N | 30 | G30R | Gga | Aga | 3 | 3 | AY.3 | 0.00003 |
N | 30 | G30R | Gga | Cga | 3 | 3 | AY.45 | 0.000365 |
N | 30 | G30R | Gga | Aga | 2 | 3 | AY.6 | 0.000082 |
N | 30 | G30R | Gga | Cga | 1 | 3 | AY.6 | 0.000041 |
N | 30 | G30R | Gga | Aga | 3 | 3 | B.1.1.298 | 0.002586 |
N | 30 | G30R | Gga | Aga | 3 | 3 | B.1.1.309 | 0.017544 |
N | 30 | G30R | Gga | Cga | 3 | 3 | B.1.1.434 | 0.001046 |
N | 30 | G30R | Gga | Aga | 3 | 3 | B.1.375 | 0.002459 |
N | 30 | G30R | Gga | Aga | 3 | 3 | B.1.400 | 0.001287 |
N | 30 | G30R | Gga | Aga | 3 | 3 | B.1.561 | 0.001191 |
N | 30 | G30R | Gga | Aga | 3 | 3 | C.37 | 0.000348 |
N | 30 | G30R | Gga | Cga | 3 | 3 | P.2 | 0.00056 |
N | 30 | G30R | Gga | Aga | 1 | 2 | AY.20 | 0.000039 |
N | 30 | G30R | Gga | Cga | 1 | 2 | AY.20 | 0.000039 |
N | 30 | G30R | Gga | Cga | 1 | 2 | AY.39 | 0.000025 |
N | 30 | G30R | Gga | Aga | 1 | 2 | AY.39 | 0.000025 |
N | 30 | G30R | Gga | Aga | 2 | 2 | AY.39.1 | 0.000079 |
N | 30 | G30R | Gga | Cga | 2 | 2 | AY.61 | 0.00021 |
N | 30 | G30R | Gga | Cga | 1 | 2 | AY.9.1 | 0.000084 |
N | 30 | G30R | Gga | Aga | 1 | 2 | AY.9.1 | 0.000084 |
N | 30 | G30R | Gga | Aga | 2 | 2 | B.1.1.39 | 0.001019 |
N | 30 | G30R | Gga | Aga | 2 | 2 | B.1.1.486 | 0.003155 |
N | 30 | G30R | Gga | Aga | 2 | 2 | B.1.1.526 | 0.007092 |
N | 30 | G30R | Gga | Aga | 2 | 2 | B.1.177.86 | 0.000367 |
N | 30 | G30R | Gga | Cga | 1 | 2 | B.1.234 | 0.000132 |
N | 30 | G30R | Gga | Aga | 1 | 2 | B.1.234 | 0.000132 |
N | 30 | G30R | Gga | Cga | 1 | 2 | B.1.243 | 0.00007 |
N | 30 | G30R | Gga | Aga | 1 | 2 | B.1.243 | 0.00007 |
N | 30 | G30R | Gga | Aga | 2 | 2 | B.1.258.17 | 0.000208 |
N | 30 | G30R | Gga | Aga | 2 | 2 | B.1.298 | 0.004228 |
N | 30 | G30R | Gga | Aga | 2 | 2 | B.1.36.29 | 0.001035 |
N | 30 | G30R | Gga | Cga | 1 | 2 | B.1.438.1 | 0.000107 |
N | 30 | G30R | Gga | Aga | 1 | 2 | B.1.438.1 | 0.000107 |
N | 30 | G30R | Gga | Aga | 2 | 2 | B.1.509 | 0.001732 |
N | 30 | G30R | Gga | Aga | 2 | 2 | B.1.589 | 0.015152 |
N | 30 | G30R | Gga | Aga | 2 | 2 | B.1.637 | 0.000146 |
N | 30 | G30R | Gga | Cga | 2 | 2 | B.1.93 | 0.001867 |
N | 30 | G30R | Gga | Cga | 2 | 2 | D.2 | 0.00015 |
N | 30 | G30R | Gga | Aga | 2 | 2 | P.1.1 | 0.000635 |
N | 30 | G30R | Gga | Aga | 2 | 2 | P.1.13 | 0.001797 |
N | 30 | G30R | Gga | Cga | 1 | 1 | A.23.1 | 0.000704 |
N | 30 | G30R | Gga | Aga | 1 | 1 | AU.3 | 0.00211 |
N | 30 | G30R | Gga | Aga | 1 | 1 | AY.102 | 0.000027 |
N | 30 | G30R | Gga | Aga | 1 | 1 | AY.121 | 0.000135 |
N | 30 | G30R | Gga | Cga | 1 | 1 | AY.23 | 0.00007 |
N | 30 | G30R | Gga | Cga | 1 | 1 | AY.24 | 0.000431 |
N | 30 | G30R | Gga | Aga | 1 | 1 | AY.26 | 0.000028 |
N | 30 | G30R | Gga | Cga | 1 | 1 | AY.33 | 0.000067 |
N | 30 | G30R | Gga | Aga | 1 | 1 | AY.37 | 0.000316 |
N | 30 | G30R | Gga | Aga | 1 | 1 | AY.48 | 0.000465 |
N | 30 | G30R | Gga | Aga | 1 | 1 | AY.73 | 0.000665 |
N | 30 | G30R | Gga | Cga | 1 | 1 | AY.93 | 0.000273 |
N | 30 | G30R | Gga | Aga | 1 | 1 | AZ.3 | 0.00152 |
N | 30 | G30R | Gga | Aga | 1 | 1 | B.1.1.10 | 0.001115 |
N | 30 | G30R | Gga | Aga | 1 | 1 | B.1.1.194 | 0.00495 |
N | 30 | G30R | Gga | Cga | 1 | 1 | B.1.1.217 | 0.003636 |
N | 30 | G30R | Gga | Aga | 1 | 1 | B.1.1.25 | 0.000569 |
N | 30 | G30R | Gga | Cga | 1 | 1 | B.1.1.294 | 0.001266 |
N | 30 | G30R | Gga | Cga | 1 | 1 | B.1.1.306 | 0.000438 |
N | 30 | G30R | Gga | Aga | 1 | 1 | B.1.177.57 | 0.000281 |
N | 30 | G30R | Gga | Aga | 1 | 1 | B.1.177.7 | 0.000165 |
N | 30 | G30R | Gga | Aga | 1 | 1 | B.1.177.80 | 0.001912 |
N | 30 | G30R | Gga | Aga | 1 | 1 | B.1.279 | 0.000514 |
N | 30 | G30R | Gga | Cga | 1 | 1 | B.1.337 | 0.005587 |
N | 30 | G30R | Gga | Aga | 1 | 1 | B.1.351.3 | 0.000876 |
N | 30 | G30R | Gga | Aga | 1 | 1 | B.1.36 | 0.000146 |
N | 30 | G30R | Gga | Aga | 1 | 1 | B.1.416 | 0.001269 |
N | 30 | G30R | Gga | Cga | 1 | 1 | B.1.480 | 0.002488 |
N | 30 | G30R | Gga | Aga | 1 | 1 | B.1.524 | 0.001406 |
N | 30 | G30R | Gga | Cga | 1 | 1 | B.1.538 | 0.008065 |
N | 30 | G30R | Gga | Cga | 1 | 1 | B.1.587 | 0.001898 |
N | 30 | G30R | Gga | Cga | 1 | 1 | B.1.595 | 0.000261 |
N | 30 | G30R | Gga | Aga | 1 | 1 | B.1.619 | 0.000871 |
N | 30 | G30R | Gga | Cga | 1 | 1 | B.1.621 | 0.000089 |
N | 30 | G30R | Gga | Cga | 1 | 1 | C.36.3 | 0.000567 |
N | 30 | G30R | Gga | Aga | 1 | 1 | P.1.17 | 0.000162 |
N | 30 | G30R | Gga | Aga | 1 | 1 | Z.1 | 0.00289 |
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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