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 |
noncoding | 136 | A136G | noncoding | A | G | 428 | 428 | 1 | 136-136 | |
noncoding | 136 | A136- | noncoding | A | - | 193 | 193 | 1 | 136-136 | |
noncoding | 136 | A136C | noncoding | A | C | 76 | 76 | 1 | 136-136 | |
noncoding | 136 | A136T | noncoding | A | T | 10 | 10 | 1 | 136-136 | |
noncoding | 136 | A136H | noncoding | A | H | 1 | 1 | 1 | 136-136 |
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 |
noncoding | 136 | A136G | A | G | 428 | 428 | All | 0.000082 |
noncoding | 136 | A136G | A | G | 256 | 256 | P.4 | 0.973384 |
noncoding | 136 | A136- | A | - | 193 | 193 | All | 0.000037 |
noncoding | 136 | A136G | A | G | 118 | 118 | B.1.1.7 | 0.000106 |
noncoding | 136 | A136C | A | C | 76 | 76 | All | 0.000015 |
noncoding | 136 | A136- | A | - | 34 | 34 | B.1.1.7 | 0.00003 |
noncoding | 136 | A136C | A | C | 23 | 23 | AY.4 | 0.000036 |
noncoding | 136 | A136- | A | - | 18 | 18 | AY.4 | 0.000028 |
noncoding | 136 | A136- | A | - | 16 | 16 | AY.43 | 0.000071 |
noncoding | 136 | A136C | A | C | 13 | 13 | B.1.1.7 | 0.000012 |
noncoding | 136 | A136C | A | C | 12 | 12 | B.1.567 | 0.04 |
noncoding | 136 | A136T | A | T | 10 | 10 | All | 0.000002 |
noncoding | 136 | A136- | A | - | 9 | 9 | AY.23 | 0.000628 |
noncoding | 136 | A136C | A | C | 9 | 9 | B.1.617.2 | 0.000034 |
noncoding | 136 | A136G | A | G | 8 | 8 | B.1.617.2 | 0.00003 |
noncoding | 136 | A136- | A | - | 7 | 7 | AY.39 | 0.000173 |
noncoding | 136 | A136G | A | G | 7 | 7 | B.1 | 0.000064 |
noncoding | 136 | A136- | A | - | 7 | 7 | B.1.177 | 0.000092 |
noncoding | 136 | A136- | A | - | 7 | 7 | B.1.305 | 0.015054 |
noncoding | 136 | A136C | A | C | 6 | 6 | AY.3 | 0.00006 |
noncoding | 136 | A136- | A | - | 4 | 4 | AY.33 | 0.000267 |
noncoding | 136 | A136- | A | - | 4 | 4 | B.1.1.33 | 0.001684 |
noncoding | 136 | A136- | A | - | 4 | 4 | B.1.1.348 | 0.003185 |
noncoding | 136 | A136- | A | - | 4 | 4 | C.1 | 0.009569 |
noncoding | 136 | A136G | A | G | 4 | 4 | P.1 | 0.000063 |
noncoding | 136 | A136G | A | G | 3 | 3 | AY.100 | 0.000138 |
noncoding | 136 | A136G | A | G | 3 | 3 | AY.4 | 0.000005 |
noncoding | 136 | A136- | A | - | 3 | 3 | AY.42 | 0.000121 |
noncoding | 136 | A136G | A | G | 3 | 3 | AY.44 | 0.000018 |
noncoding | 136 | A136- | A | - | 3 | 3 | AY.5 | 0.000062 |
noncoding | 136 | A136C | A | C | 3 | 3 | B.1 | 0.000027 |
noncoding | 136 | A136- | A | - | 3 | 3 | B.1.1 | 0.000054 |
noncoding | 136 | A136T | A | T | 3 | 3 | B.1.1.317 | 0.001235 |
noncoding | 136 | A136- | A | - | 3 | 3 | B.1.1.448 | 0.006098 |
noncoding | 136 | A136- | A | - | 3 | 3 | B.1.617.2 | 0.000011 |
noncoding | 136 | A136G | A | G | 2 | 2 | AY.102 | 0.000053 |
noncoding | 136 | A136G | A | G | 2 | 2 | AY.103 | 0.000012 |
noncoding | 136 | A136- | A | - | 2 | 2 | AY.12 | 0.000632 |
noncoding | 136 | A136- | A | - | 2 | 2 | AY.34 | 0.000194 |
noncoding | 136 | A136- | A | - | 2 | 2 | AY.34.1 | 0.00102 |
noncoding | 136 | A136- | A | - | 2 | 2 | AY.4.4 | 0.000818 |
noncoding | 136 | A136- | A | - | 2 | 2 | AY.45 | 0.000243 |
noncoding | 136 | A136- | A | - | 2 | 2 | AY.46 | 0.000208 |
noncoding | 136 | A136- | A | - | 2 | 2 | AY.75.1 | 0.000361 |
noncoding | 136 | A136- | A | - | 2 | 2 | B.1 | 0.000018 |
noncoding | 136 | A136- | A | - | 2 | 2 | B.1.1.28 | 0.000622 |
noncoding | 136 | A136- | A | - | 2 | 2 | N.6 | 0.014184 |
noncoding | 136 | A136- | A | - | 2 | 2 | P.2 | 0.000373 |
noncoding | 136 | A136G | A | G | 1 | 1 | A | 0.000387 |
noncoding | 136 | A136- | A | - | 1 | 1 | A.1 | 0.000282 |
noncoding | 136 | A136G | A | G | 1 | 1 | A.1 | 0.000282 |
noncoding | 136 | A136H | A | H | 1 | 1 | All | 0 |
noncoding | 136 | A136C | A | C | 1 | 1 | AY.103 | 0.000006 |
noncoding | 136 | A136- | A | - | 1 | 1 | AY.106 | 0.000335 |
noncoding | 136 | A136G | A | G | 1 | 1 | AY.109 | 0.00074 |
noncoding | 136 | A136G | A | G | 1 | 1 | AY.113 | 0.000142 |
noncoding | 136 | A136- | A | - | 1 | 1 | AY.116 | 0.000287 |
noncoding | 136 | A136C | A | C | 1 | 1 | AY.20 | 0.000039 |
noncoding | 136 | A136G | A | G | 1 | 1 | AY.23 | 0.00007 |
noncoding | 136 | A136G | A | G | 1 | 1 | AY.25 | 0.000006 |
noncoding | 136 | A136- | A | - | 1 | 1 | AY.3 | 0.00001 |
noncoding | 136 | A136G | A | G | 1 | 1 | AY.3 | 0.00001 |
noncoding | 136 | A136C | A | C | 1 | 1 | AY.34 | 0.000097 |
noncoding | 136 | A136G | A | G | 1 | 1 | AY.37 | 0.000316 |
noncoding | 136 | A136- | A | - | 1 | 1 | AY.38 | 0.000499 |
noncoding | 136 | A136T | A | T | 1 | 1 | AY.4 | 0.000002 |
noncoding | 136 | A136- | A | - | 1 | 1 | AY.4.5 | 0.000107 |
noncoding | 136 | A136- | A | - | 1 | 1 | AY.41 | 0.000294 |
noncoding | 136 | A136C | A | C | 1 | 1 | AY.46 | 0.000104 |
noncoding | 136 | A136- | A | - | 1 | 1 | AY.46.2 | 0.000635 |
noncoding | 136 | A136- | A | - | 1 | 1 | AY.53 | 0.000288 |
noncoding | 136 | A136- | A | - | 1 | 1 | AY.54 | 0.000095 |
noncoding | 136 | A136G | A | G | 1 | 1 | AY.55 | 0.000917 |
noncoding | 136 | A136- | A | - | 1 | 1 | AY.6 | 0.000041 |
noncoding | 136 | A136- | A | - | 1 | 1 | AY.60 | 0.000938 |
noncoding | 136 | A136- | A | - | 1 | 1 | AY.68 | 0.000274 |
noncoding | 136 | A136G | A | G | 1 | 1 | AY.9 | 0.000068 |
noncoding | 136 | A136- | A | - | 1 | 1 | AY.9.1 | 0.000084 |
noncoding | 136 | A136C | A | C | 1 | 1 | AY.91 | 0.00073 |
noncoding | 136 | A136- | A | - | 1 | 1 | AY.94 | 0.000443 |
noncoding | 136 | A136- | A | - | 1 | 1 | AY.95 | 0.000761 |
noncoding | 136 | A136- | A | - | 1 | 1 | AY.98.1 | 0.000048 |
noncoding | 136 | A136C | A | C | 1 | 1 | B | 0.000128 |
noncoding | 136 | A136G | A | G | 1 | 1 | B | 0.000128 |
noncoding | 136 | A136H | A | H | 1 | 1 | B.1 | 0.000009 |
noncoding | 136 | A136G | A | G | 1 | 1 | B.1.1.132 | 0.014925 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.1.139 | 0.022727 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.1.166 | 0.033333 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.1.170 | 0.001247 |
noncoding | 136 | A136T | A | T | 1 | 1 | B.1.1.214 | 0.000055 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.1.232 | 0.001815 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.1.294 | 0.001266 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.1.311 | 0.000358 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.1.322 | 0.008772 |
noncoding | 136 | A136C | A | C | 1 | 1 | B.1.1.519 | 0.00004 |
noncoding | 136 | A136T | A | T | 1 | 1 | B.1.1.7 | 0.000001 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.1.99 | 0.02381 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.160 | 0.000031 |
noncoding | 136 | A136G | A | G | 1 | 1 | B.1.177 | 0.000013 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.177.10 | 0.000878 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.177.17 | 0.000821 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.177.18 | 0.00116 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.177.4 | 0.000211 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.177.54 | 0.000606 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.2 | 0.000009 |
noncoding | 136 | A136T | A | T | 1 | 1 | B.1.234 | 0.000132 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.234 | 0.000132 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.258 | 0.000067 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.258.3 | 0.001675 |
noncoding | 136 | A136T | A | T | 1 | 1 | B.1.348 | 0.018182 |
noncoding | 136 | A136G | A | G | 1 | 1 | B.1.351.3 | 0.000876 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.36.17 | 0.000494 |
noncoding | 136 | A136G | A | G | 1 | 1 | B.1.36.18 | 0.00042 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.416 | 0.001269 |
noncoding | 136 | A136G | A | G | 1 | 1 | B.1.420 | 0.010417 |
noncoding | 136 | A136T | A | T | 1 | 1 | B.1.427 | 0.00005 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.429 | 0.000024 |
noncoding | 136 | A136G | A | G | 1 | 1 | B.1.517 | 0.000427 |
noncoding | 136 | A136C | A | C | 1 | 1 | B.1.617.1 | 0.000129 |
noncoding | 136 | A136- | A | - | 1 | 1 | B.1.617.1 | 0.000129 |
noncoding | 136 | A136G | A | G | 1 | 1 | B.1.617.3 | 0.002985 |
noncoding | 136 | A136C | A | C | 1 | 1 | B.1.637 | 0.000073 |
noncoding | 136 | A136G | A | G | 1 | 1 | B.1.78 | 0.008547 |
noncoding | 136 | A136T | A | T | 1 | 1 | B.4 | 0.002208 |
noncoding | 136 | A136- | A | - | 1 | 1 | C.35 | 0.000774 |
noncoding | 136 | A136- | A | - | 1 | 1 | N.4 | 0.004255 |
noncoding | 136 | A136- | A | - | 1 | 1 | P.1 | 0.000016 |
noncoding | 136 | A136G | A | G | 1 | 1 | P.1.15 | 0.000232 |
noncoding | 136 | A136C | A | C | 1 | 1 | P.1.17 | 0.000162 |
noncoding | 136 | A136G | A | G | 1 | 1 | P.2 | 0.000187 |
noncoding | 136 | A136G | A | G | 1 | 1 | Q.3 | 0.000145 |
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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