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/nsp6 | 122 | L122S | L3691S | nonsyn | tTa | tCa | 2746 | 2746 | 1 | 11336-11338 |
ORF1ab/nsp6 | 122 | L122L | L3691L | syn | ttA | ttG | 188 | 137 | 0.728723 | 11336-11338 |
ORF1ab/nsp6 | 122 | L122L | L3691L | syn | Tta | Cta | 188 | 51 | 0.271277 | 11336-11338 |
ORF1ab/nsp6 | 122 | L122I | L3691I | nonsyn | Tta | Ata | 12 | 12 | 1 | 11336-11338 |
ORF1ab/nsp6 | 122 | L122F | L3691F | nonsyn | ttA | ttC | 12 | 10 | 0.833333 | 11336-11338 |
ORF1ab/nsp6 | 122 | L122F | L3691F | nonsyn | ttA | ttT | 12 | 2 | 0.166667 | 11336-11338 |
ORF1ab/nsp6 | 122 | L122del | L3691del | del | TTA | --- | 8 | 8 | 1 | 11336-11338 |
ORF1ab/nsp6 | 122 | L122V | L3691V | nonsyn | Tta | Gta | 4 | 4 | 1 | 11336-11338 |
ORF1ab/nsp6 | 122 | L122X | L3691X | nonsyn | tTa | tAa | 1 | 1 | 1 | 11336-11338 |
ORF1ab/nsp6 | 122 | L122Q | L3691Q | nonsyn | TTa | CAa | 1 | 1 | 1 | 11336-11338 |
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/nsp6 | 122 | L122S | tTa | tCa | 2746 | 2746 | All | 0.000525 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 1744 | 1744 | C.36.3 | 0.989223 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 523 | 523 | C.36 | 0.476321 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 328 | 328 | C.36.3.1 | 0.891304 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 137 | 188 | All | 0.000026 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 51 | 188 | All | 0.00001 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 41 | 41 | B.1 | 0.000376 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 26 | 38 | B.1.1.7 | 0.000023 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 12 | 38 | B.1.1.7 | 0.000011 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 22 | 23 | AY.103 | 0.000137 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 1 | 23 | AY.103 | 0.000006 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 18 | 18 | B.1.1 | 0.000327 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 17 | 17 | B.1.177.35 | 0.011748 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 10 | 14 | AY.3 | 0.000099 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 4 | 14 | AY.3 | 0.00004 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 14 | 14 | AY.46.6 | 0.001011 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 14 | 14 | B.1.195 | 0.070352 |
ORF1ab/nsp6 | 122 | L122I | Tta | Ata | 12 | 12 | All | 0.000002 |
ORF1ab/nsp6 | 122 | L122F | ttA | ttC | 10 | 12 | All | 0.000002 |
ORF1ab/nsp6 | 122 | L122F | ttA | ttT | 2 | 12 | All | 0 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 10 | 11 | AY.99.2 | 0.000922 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 1 | 11 | AY.99.2 | 0.000092 |
ORF1ab/nsp6 | 122 | L122F | ttA | ttC | 9 | 9 | AY.4 | 0.000014 |
ORF1ab/nsp6 | 122 | L122del | TTA | --- | 8 | 8 | All | 0.000002 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 8 | 8 | AY.100 | 0.000368 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 8 | 8 | AY.44 | 0.000049 |
ORF1ab/nsp6 | 122 | L122I | Tta | Ata | 7 | 7 | B.1.160 | 0.000218 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 6 | 6 | AY.102 | 0.000159 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 6 | 6 | AY.4 | 0.000009 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 6 | 6 | B.1.1.294 | 0.007595 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 6 | 6 | P.1 | 0.000095 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 3 | 5 | B.1.2 | 0.000026 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 2 | 5 | B.1.2 | 0.000018 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 5 | 5 | B.1.23 | 0.030303 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 5 | 5 | C.17 | 0.277778 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 5 | 5 | C.35 | 0.00387 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 5 | 5 | C.39 | 0.09434 |
ORF1ab/nsp6 | 122 | L122V | Tta | Gta | 4 | 4 | All | 0.000001 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 4 | 4 | B.1.1 | 0.000073 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 4 | 4 | B.1.1.1 | 0.001307 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 2 | 3 | AY.4 | 0.000003 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 1 | 3 | AY.4 | 0.000002 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 2 | 3 | AY.43 | 0.000009 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 1 | 3 | AY.43 | 0.000004 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 3 | 3 | B.1 | 0.000027 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 3 | 3 | B.1.1.7 | 0.000003 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 3 | 3 | B.1.160 | 0.000094 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 3 | 3 | B.1.177 | 0.00004 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 3 | 3 | B.1.243 | 0.000209 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 2 | 3 | B.1.617.2 | 0.000008 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 3 | B.1.617.2 | 0.000004 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 3 | 3 | C.38 | 0.024194 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 2 | 2 | AY.25 | 0.000012 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 2 | 2 | AY.39 | 0.000049 |
ORF1ab/nsp6 | 122 | L122V | Tta | Gta | 2 | 2 | AY.5 | 0.000041 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 2 | 2 | B.1.1.372 | 0.001377 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 2 | 2 | B.1.160 | 0.000062 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 2 | 2 | B.1.369 | 0.00057 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 2 | 2 | B.1.525 | 0.000226 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 2 | 2 | B.1.81 | 0.042553 |
ORF1ab/nsp6 | 122 | L122X | tTa | tAa | 1 | 1 | All | 0 |
ORF1ab/nsp6 | 122 | L122Q | TTa | CAa | 1 | 1 | All | 0 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 1 | AY.10 | 0.00053 |
ORF1ab/nsp6 | 122 | L122F | ttA | ttT | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 1 | AY.21 | 0.001898 |
ORF1ab/nsp6 | 122 | L122del | TTA | --- | 1 | 1 | AY.25 | 0.000006 |
ORF1ab/nsp6 | 122 | L122V | Tta | Gta | 1 | 1 | AY.26 | 0.000028 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 1 | 1 | AY.29.1 | 0.000221 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 1 | 1 | AY.3 | 0.00001 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 1 | 1 | AY.34.1 | 0.00051 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp6 | 122 | L122del | TTA | --- | 1 | 1 | AY.4 | 0.000002 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 1 | 1 | AY.44 | 0.000006 |
ORF1ab/nsp6 | 122 | L122Q | TTa | CAa | 1 | 1 | AY.44 | 0.000006 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 1 | 1 | AY.45 | 0.000122 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp6 | 122 | L122del | TTA | --- | 1 | 1 | AY.78 | 0.001541 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 1 | 1 | B | 0.000128 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 1 | B | 0.000128 |
ORF1ab/nsp6 | 122 | L122F | ttA | ttC | 1 | 1 | B.1 | 0.000009 |
ORF1ab/nsp6 | 122 | L122del | TTA | --- | 1 | 1 | B.1 | 0.000009 |
ORF1ab/nsp6 | 122 | L122I | Tta | Ata | 1 | 1 | B.1 | 0.000009 |
ORF1ab/nsp6 | 122 | L122X | tTa | tAa | 1 | 1 | B.1.1.139 | 0.022727 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 1 | 1 | B.1.1.205 | 0.003717 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 1 | 1 | B.1.1.216 | 0.00089 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 1 | 1 | B.1.1.27 | 0.00565 |
ORF1ab/nsp6 | 122 | L122I | Tta | Ata | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp6 | 122 | L122V | Tta | Gta | 1 | 1 | B.1.1.7 | 0.000001 |
ORF1ab/nsp6 | 122 | L122del | TTA | --- | 1 | 1 | B.1.1.7 | 0.000001 |
ORF1ab/nsp6 | 122 | L122F | ttA | ttT | 1 | 1 | B.1.160 | 0.000031 |
ORF1ab/nsp6 | 122 | L122I | Tta | Ata | 1 | 1 | B.1.160.28 | 0.002924 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 1 | B.1.177.72 | 0.00339 |
ORF1ab/nsp6 | 122 | L122I | Tta | Ata | 1 | 1 | B.1.177.83 | 0.001481 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 1 | 1 | B.1.2 | 0.000009 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 1 | B.1.258.17 | 0.000104 |
ORF1ab/nsp6 | 122 | L122del | TTA | --- | 1 | 1 | B.1.329 | 0.000608 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 1 | B.1.351 | 0.00003 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 1 | 1 | B.1.375 | 0.00082 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 1 | B.1.427 | 0.00005 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 1 | 1 | B.1.429 | 0.000024 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 1 | 1 | B.1.526 | 0.000024 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 1 | 1 | B.1.580 | 0.004065 |
ORF1ab/nsp6 | 122 | L122L | Tta | Cta | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 1 | 1 | B.1.617.2 | 0.000004 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp6 | 122 | L122del | TTA | --- | 1 | 1 | B.1.630 | 0.005236 |
ORF1ab/nsp6 | 122 | L122S | tTa | tCa | 1 | 1 | C.16 | 0.00106 |
ORF1ab/nsp6 | 122 | L122L | ttA | ttG | 1 | 1 | C.37.1 | 0.002618 |
ORF1ab/nsp6 | 122 | L122I | Tta | Ata | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp6 | 122 | L122del | TTA | --- | 1 | 1 | N.4 | 0.004255 |
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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