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 |
S | 949 | Q949Q | syn | caA | caG | 114 | 114 | 1 | 24407-24409 | |
S | 949 | Q949del | del | CAA | --- | 81 | 81 | 1 | 24407-24409 | |
S | 949 | Q949R | nonsyn | cAa | cGa | 65 | 65 | 1 | 24407-24409 | |
S | 949 | Q949E | nonsyn | Caa | Gaa | 33 | 33 | 1 | 24407-24409 | |
S | 949 | Q949X | nonsyn | Caa | Taa | 18 | 18 | 1 | 24407-24409 | |
S | 949 | Q949K | nonsyn | Caa | Aaa | 18 | 18 | 1 | 24407-24409 | |
S | 949 | Q949L | nonsyn | cAa | cTa | 11 | 11 | 1 | 24407-24409 | |
S | 949 | Q949H | nonsyn | caA | caT | 7 | 5 | 0.714286 | 24407-24409 | |
S | 949 | Q949H | nonsyn | caA | caC | 7 | 2 | 0.285714 | 24407-24409 | |
S | 949 | Q949del1 | del | Caa | -aa | 4 | 2 | 0.5 | 24407-24409 | |
S | 949 | Q949del1 | del | caA | ca- | 4 | 2 | 0.5 | 24407-24409 | |
S | 949 | Q949del2 | del | CAa | --a | 3 | 2 | 0.666667 | 24407-24409 | |
S | 949 | Q949del2 | del | cAA | c-- | 3 | 1 | 0.333333 | 24407-24409 | |
S | 949 | Q949P | nonsyn | cAa | cCa | 2 | 2 | 1 | 24407-24409 | |
S | 949 | Q949Y | nonsyn | CaA | TaC | 1 | 1 | 1 | 24407-24409 | |
S | 949 | Q949S | nonsyn | CAa | TCa | 1 | 1 | 1 | 24407-24409 |
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 |
S | 949 | Q949Q | caA | caG | 114 | 114 | All | 0.000022 |
S | 949 | Q949del | CAA | --- | 81 | 81 | All | 0.000015 |
S | 949 | Q949R | cAa | cGa | 65 | 65 | All | 0.000012 |
S | 949 | Q949Q | caA | caG | 52 | 52 | B.1.1.7 | 0.000047 |
S | 949 | Q949R | cAa | cGa | 41 | 41 | B.1.616 | 1 |
S | 949 | Q949del | CAA | --- | 34 | 34 | B.1.1.7 | 0.00003 |
S | 949 | Q949E | Caa | Gaa | 33 | 33 | All | 0.000006 |
S | 949 | Q949E | Caa | Gaa | 21 | 21 | AY.4 | 0.000033 |
S | 949 | Q949K | Caa | Aaa | 18 | 18 | All | 0.000003 |
S | 949 | Q949X | Caa | Taa | 18 | 18 | All | 0.000003 |
S | 949 | Q949L | cAa | cTa | 11 | 11 | All | 0.000002 |
S | 949 | Q949R | cAa | cGa | 10 | 10 | B.1.1.7 | 0.000009 |
S | 949 | Q949del | CAA | --- | 10 | 10 | B.1.177 | 0.000132 |
S | 949 | Q949Q | caA | caG | 9 | 9 | B.1.36 | 0.001313 |
S | 949 | Q949H | caA | caT | 5 | 7 | All | 0.000001 |
S | 949 | Q949H | caA | caC | 2 | 7 | All | 0 |
S | 949 | Q949Q | caA | caG | 7 | 7 | B.1.1.279 | 0.007848 |
S | 949 | Q949X | Caa | Taa | 5 | 5 | B.1.1.7 | 0.000004 |
S | 949 | Q949E | Caa | Gaa | 5 | 5 | B.1.526 | 0.000118 |
S | 949 | Q949del1 | Caa | -aa | 2 | 4 | All | 0 |
S | 949 | Q949del1 | caA | ca- | 2 | 4 | All | 0 |
S | 949 | Q949del | CAA | --- | 4 | 4 | AY.4 | 0.000006 |
S | 949 | Q949Q | caA | caG | 4 | 4 | AY.4 | 0.000006 |
S | 949 | Q949del2 | CAa | --a | 2 | 3 | All | 0 |
S | 949 | Q949del2 | cAA | c-- | 1 | 3 | All | 0 |
S | 949 | Q949L | cAa | cTa | 3 | 3 | AY.24 | 0.001293 |
S | 949 | Q949del | CAA | --- | 3 | 3 | AY.43 | 0.000013 |
S | 949 | Q949K | Caa | Aaa | 3 | 3 | AY.43 | 0.000013 |
S | 949 | Q949Q | caA | caG | 3 | 3 | AY.74 | 0.000347 |
S | 949 | Q949X | Caa | Taa | 3 | 3 | B.1 | 0.000027 |
S | 949 | Q949K | Caa | Aaa | 3 | 3 | B.1 | 0.000027 |
S | 949 | Q949Q | caA | caG | 3 | 3 | B.1.1 | 0.000054 |
S | 949 | Q949H | caA | caT | 3 | 3 | B.1.1.7 | 0.000003 |
S | 949 | Q949del2 | CAa | --a | 2 | 3 | B.1.1.7 | 0.000002 |
S | 949 | Q949del2 | cAA | c-- | 1 | 3 | B.1.1.7 | 0.000001 |
S | 949 | Q949Q | caA | caG | 3 | 3 | B.1.2 | 0.000026 |
S | 949 | Q949Q | caA | caG | 3 | 3 | B.1.525 | 0.000339 |
S | 949 | Q949del | CAA | --- | 3 | 3 | B.1.617.2 | 0.000011 |
S | 949 | Q949Q | caA | caG | 3 | 3 | P.1 | 0.000047 |
S | 949 | Q949P | cAa | cCa | 2 | 2 | 0.111111 | |
S | 949 | Q949X | Caa | Taa | 2 | 2 | 0.111111 | |
S | 949 | Q949P | cAa | cCa | 2 | 2 | All | 0 |
S | 949 | Q949Q | caA | caG | 2 | 2 | AY.102 | 0.000053 |
S | 949 | Q949Q | caA | caG | 2 | 2 | AY.26 | 0.000057 |
S | 949 | Q949K | Caa | Aaa | 2 | 2 | AY.3 | 0.00002 |
S | 949 | Q949L | cAa | cTa | 2 | 2 | AY.44 | 0.000012 |
S | 949 | Q949del | CAA | --- | 2 | 2 | B.1 | 0.000018 |
S | 949 | Q949Q | caA | caG | 2 | 2 | B.1.1.214 | 0.000111 |
S | 949 | Q949del | CAA | --- | 2 | 2 | B.1.1.312 | 0.003824 |
S | 949 | Q949L | cAa | cTa | 2 | 2 | B.1.1.7 | 0.000002 |
S | 949 | Q949Q | caA | caG | 2 | 2 | B.1.177 | 0.000026 |
S | 949 | Q949X | Caa | Taa | 2 | 2 | B.1.177 | 0.000026 |
S | 949 | Q949del | CAA | --- | 2 | 2 | B.1.177.7 | 0.00033 |
S | 949 | Q949R | cAa | cGa | 2 | 2 | B.1.2 | 0.000018 |
S | 949 | Q949Q | caA | caG | 2 | 2 | B.1.427 | 0.000101 |
S | 949 | Q949R | cAa | cGa | 2 | 2 | B.1.617.2 | 0.000008 |
S | 949 | Q949Q | caA | caG | 2 | 2 | B.1.621 | 0.000177 |
S | 949 | Q949X | Caa | Taa | 2 | 2 | D.2 | 0.00015 |
S | 949 | Q949H | caA | caC | 1 | 1 | 0.055556 | |
S | 949 | Q949K | Caa | Aaa | 1 | 1 | 0.055556 | |
S | 949 | Q949Y | CaA | TaC | 1 | 1 | 0.055556 | |
S | 949 | Q949S | CAa | TCa | 1 | 1 | 0.055556 | |
S | 949 | Q949del | CAA | --- | 1 | 1 | A | 0.000387 |
S | 949 | Q949Q | caA | caG | 1 | 1 | A.27 | 0.001656 |
S | 949 | Q949Y | CaA | TaC | 1 | 1 | All | 0 |
S | 949 | Q949S | CAa | TCa | 1 | 1 | All | 0 |
S | 949 | Q949Q | caA | caG | 1 | 1 | AY.100 | 0.000046 |
S | 949 | Q949R | cAa | cGa | 1 | 1 | AY.102 | 0.000027 |
S | 949 | Q949R | cAa | cGa | 1 | 1 | AY.103 | 0.000006 |
S | 949 | Q949Q | caA | caG | 1 | 1 | AY.107 | 0.000466 |
S | 949 | Q949L | cAa | cTa | 1 | 1 | AY.117 | 0.000085 |
S | 949 | Q949E | Caa | Gaa | 1 | 1 | AY.20 | 0.000039 |
S | 949 | Q949E | Caa | Gaa | 1 | 1 | AY.25 | 0.000006 |
S | 949 | Q949del1 | caA | ca- | 1 | 1 | AY.29 | 0.000016 |
S | 949 | Q949X | Caa | Taa | 1 | 1 | AY.39.1 | 0.00004 |
S | 949 | Q949H | caA | caC | 1 | 1 | AY.4 | 0.000002 |
S | 949 | Q949K | Caa | Aaa | 1 | 1 | AY.4 | 0.000002 |
S | 949 | Q949R | cAa | cGa | 1 | 1 | AY.4 | 0.000002 |
S | 949 | Q949L | cAa | cTa | 1 | 1 | AY.4 | 0.000002 |
S | 949 | Q949K | Caa | Aaa | 1 | 1 | AY.42 | 0.00004 |
S | 949 | Q949R | cAa | cGa | 1 | 1 | AY.43 | 0.000004 |
S | 949 | Q949del1 | caA | ca- | 1 | 1 | AY.44 | 0.000006 |
S | 949 | Q949K | Caa | Aaa | 1 | 1 | AY.44 | 0.000006 |
S | 949 | Q949del | CAA | --- | 1 | 1 | AY.46.2 | 0.000635 |
S | 949 | Q949del | CAA | --- | 1 | 1 | AY.5 | 0.000021 |
S | 949 | Q949K | Caa | Aaa | 1 | 1 | AY.62 | 0.000436 |
S | 949 | Q949del | CAA | --- | 1 | 1 | AY.81 | 0.001992 |
S | 949 | Q949E | Caa | Gaa | 1 | 1 | AY.84 | 0.000437 |
S | 949 | Q949del | CAA | --- | 1 | 1 | AY.9 | 0.000068 |
S | 949 | Q949K | Caa | Aaa | 1 | 1 | B | 0.000128 |
S | 949 | Q949R | cAa | cGa | 1 | 1 | B.1 | 0.000009 |
S | 949 | Q949K | Caa | Aaa | 1 | 1 | B.1.1 | 0.000018 |
S | 949 | Q949del | CAA | --- | 1 | 1 | B.1.1 | 0.000018 |
S | 949 | Q949del | CAA | --- | 1 | 1 | B.1.1.159 | 0.004673 |
S | 949 | Q949Q | caA | caG | 1 | 1 | B.1.1.189 | 0.001513 |
S | 949 | Q949E | Caa | Gaa | 1 | 1 | B.1.1.216 | 0.00089 |
S | 949 | Q949del | CAA | --- | 1 | 1 | B.1.1.236 | 0.006897 |
S | 949 | Q949K | Caa | Aaa | 1 | 1 | B.1.1.326 | 0.001761 |
S | 949 | Q949K | Caa | Aaa | 1 | 1 | B.1.1.519 | 0.00004 |
S | 949 | Q949del1 | Caa | -aa | 1 | 1 | B.1.1.7 | 0.000001 |
S | 949 | Q949del | CAA | --- | 1 | 1 | B.1.1.70 | 0.000341 |
S | 949 | Q949Q | caA | caG | 1 | 1 | B.1.1.70 | 0.000341 |
S | 949 | Q949R | cAa | cGa | 1 | 1 | B.1.139 | 0.000733 |
S | 949 | Q949Q | caA | caG | 1 | 1 | B.1.147 | 0.000756 |
S | 949 | Q949R | cAa | cGa | 1 | 1 | B.1.177 | 0.000013 |
S | 949 | Q949L | cAa | cTa | 1 | 1 | B.1.177 | 0.000013 |
S | 949 | Q949del | CAA | --- | 1 | 1 | B.1.177.15 | 0.000631 |
S | 949 | Q949del | CAA | --- | 1 | 1 | B.1.177.17 | 0.000821 |
S | 949 | Q949del | CAA | --- | 1 | 1 | B.1.177.21 | 0.000076 |
S | 949 | Q949del | CAA | --- | 1 | 1 | B.1.177.54 | 0.000606 |
S | 949 | Q949del | CAA | --- | 1 | 1 | B.1.177.58 | 0.001332 |
S | 949 | Q949del | CAA | --- | 1 | 1 | B.1.177.6 | 0.000977 |
S | 949 | Q949del | CAA | --- | 1 | 1 | B.1.177.63 | 0.002703 |
S | 949 | Q949del | CAA | --- | 1 | 1 | B.1.177.9 | 0.001332 |
S | 949 | Q949R | cAa | cGa | 1 | 1 | B.1.199 | 0.004132 |
S | 949 | Q949E | Caa | Gaa | 1 | 1 | B.1.2 | 0.000009 |
S | 949 | Q949K | Caa | Aaa | 1 | 1 | B.1.2 | 0.000009 |
S | 949 | Q949X | Caa | Taa | 1 | 1 | B.1.2 | 0.000009 |
S | 949 | Q949Q | caA | caG | 1 | 1 | B.1.221 | 0.000071 |
S | 949 | Q949del1 | Caa | -aa | 1 | 1 | B.1.222 | 0.001692 |
S | 949 | Q949del | CAA | --- | 1 | 1 | B.1.23 | 0.006061 |
S | 949 | Q949X | Caa | Taa | 1 | 1 | B.1.351 | 0.00003 |
S | 949 | Q949Q | caA | caG | 1 | 1 | B.1.351 | 0.00003 |
S | 949 | Q949R | cAa | cGa | 1 | 1 | B.1.351 | 0.00003 |
S | 949 | Q949del | CAA | --- | 1 | 1 | B.1.36.17 | 0.000494 |
S | 949 | Q949Q | caA | caG | 1 | 1 | B.1.429 | 0.000024 |
S | 949 | Q949Q | caA | caG | 1 | 1 | B.1.526 | 0.000024 |
S | 949 | Q949Q | caA | caG | 1 | 1 | B.1.560 | 0.00463 |
S | 949 | Q949E | Caa | Gaa | 1 | 1 | B.1.595 | 0.000261 |
S | 949 | Q949X | Caa | Taa | 1 | 1 | B.1.609 | 0.000479 |
S | 949 | Q949H | caA | caT | 1 | 1 | B.1.617.1 | 0.000129 |
S | 949 | Q949del | CAA | --- | 1 | 1 | B.1.617.1 | 0.000129 |
S | 949 | Q949Q | caA | caG | 1 | 1 | B.1.617.2 | 0.000004 |
S | 949 | Q949E | Caa | Gaa | 1 | 1 | B.1.617.2 | 0.000004 |
S | 949 | Q949Q | caA | caG | 1 | 1 | B.40 | 0.000364 |
S | 949 | Q949H | caA | caT | 1 | 1 | B.40 | 0.000364 |
S | 949 | Q949Q | caA | caG | 1 | 1 | B.6 | 0.00091 |
S | 949 | Q949Q | caA | caG | 1 | 1 | C.1.2 | 0.004255 |
S | 949 | Q949R | cAa | cGa | 1 | 1 | P.1 | 0.000016 |
S | 949 | Q949L | cAa | cTa | 1 | 1 | P.1.14 | 0.000048 |
S | 949 | Q949del | CAA | --- | 1 | 1 | Q.8 | 0.000165 |
![]() |
![]() |
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
|