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 | 156 | E156del2 | del | gAG | g-- | 2223 | 1150 | 0.517319 | 22028-22030 | |
S | 156 | E156del2 | del | GAg | --g | 2223 | 1072 | 0.482231 | 22028-22030 | |
S | 156 | E156del2 | del | GAG | --T | 2223 | 1 | 0.000449843 | 22028-22030 |
Details of the mutation E156del2 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 | 156 | E156del2 | gAG | g-- | 1150 | 2223 | All | 0.00022 |
S | 156 | E156del2 | GAg | --g | 1072 | 2223 | All | 0.000205 |
S | 156 | E156del2 | GAG | --T | 1 | 2223 | All | 0 |
S | 156 | E156del2 | GAg | --g | 233 | 392 | AY.25 | 0.001401 |
S | 156 | E156del2 | gAG | g-- | 159 | 392 | AY.25 | 0.000956 |
S | 156 | E156del2 | gAG | g-- | 178 | 327 | AY.44 | 0.001083 |
S | 156 | E156del2 | GAg | --g | 149 | 327 | AY.44 | 0.000907 |
S | 156 | E156del2 | GAg | --g | 157 | 285 | AY.103 | 0.000975 |
S | 156 | E156del2 | gAG | g-- | 128 | 285 | AY.103 | 0.000795 |
S | 156 | E156del2 | GAg | --g | 78 | 125 | AY.118 | 0.004887 |
S | 156 | E156del2 | gAG | g-- | 47 | 125 | AY.118 | 0.002944 |
S | 156 | E156del2 | GAg | --g | 58 | 105 | AY.3 | 0.000577 |
S | 156 | E156del2 | gAG | g-- | 47 | 105 | AY.3 | 0.000467 |
S | 156 | E156del2 | gAG | g-- | 58 | 99 | B.1.617.2 | 0.000218 |
S | 156 | E156del2 | GAg | --g | 41 | 99 | B.1.617.2 | 0.000154 |
S | 156 | E156del2 | GAg | --g | 60 | 93 | AY.47 | 0.001866 |
S | 156 | E156del2 | gAG | g-- | 33 | 93 | AY.47 | 0.001026 |
S | 156 | E156del2 | gAG | g-- | 63 | 72 | AY.43 | 0.000279 |
S | 156 | E156del2 | GAg | --g | 9 | 72 | AY.43 | 0.00004 |
S | 156 | E156del2 | GAg | --g | 45 | 71 | AY.26 | 0.001274 |
S | 156 | E156del2 | gAG | g-- | 26 | 71 | AY.26 | 0.000736 |
S | 156 | E156del2 | gAG | g-- | 44 | 64 | AY.39 | 0.001087 |
S | 156 | E156del2 | GAg | --g | 20 | 64 | AY.39 | 0.000494 |
S | 156 | E156del2 | gAG | g-- | 32 | 43 | AY.4 | 0.00005 |
S | 156 | E156del2 | GAg | --g | 11 | 43 | AY.4 | 0.000017 |
S | 156 | E156del2 | GAg | --g | 25 | 42 | AY.119 | 0.000883 |
S | 156 | E156del2 | gAG | g-- | 17 | 42 | AY.119 | 0.0006 |
S | 156 | E156del2 | GAg | --g | 20 | 37 | AY.100 | 0.00092 |
S | 156 | E156del2 | gAG | g-- | 17 | 37 | AY.100 | 0.000782 |
S | 156 | E156del2 | GAg | --g | 20 | 31 | AY.5.3 | 0.006748 |
S | 156 | E156del2 | gAG | g-- | 11 | 31 | AY.5.3 | 0.003711 |
S | 156 | E156del2 | gAG | g-- | 20 | 29 | AY.39.1 | 0.000792 |
S | 156 | E156del2 | GAg | --g | 9 | 29 | AY.39.1 | 0.000357 |
S | 156 | E156del2 | gAG | g-- | 17 | 21 | AY.14 | 0.001496 |
S | 156 | E156del2 | GAg | --g | 4 | 21 | AY.14 | 0.000352 |
S | 156 | E156del2 | GAg | --g | 13 | 20 | AY.3.1 | 0.001108 |
S | 156 | E156del2 | gAG | g-- | 7 | 20 | AY.3.1 | 0.000597 |
S | 156 | E156del2 | GAg | --g | 10 | 19 | AY.55 | 0.009174 |
S | 156 | E156del2 | gAG | g-- | 9 | 19 | AY.55 | 0.008257 |
S | 156 | E156del2 | GAg | --g | 11 | 17 | AY.54 | 0.001049 |
S | 156 | E156del2 | gAG | g-- | 6 | 17 | AY.54 | 0.000572 |
S | 156 | E156del2 | GAg | --g | 9 | 16 | AY.114 | 0.00208 |
S | 156 | E156del2 | gAG | g-- | 7 | 16 | AY.114 | 0.001618 |
S | 156 | E156del2 | GAg | --g | 8 | 16 | AY.5.4 | 0.002214 |
S | 156 | E156del2 | gAG | g-- | 8 | 16 | AY.5.4 | 0.002214 |
S | 156 | E156del2 | gAG | g-- | 13 | 15 | AY.5 | 0.000268 |
S | 156 | E156del2 | GAg | --g | 2 | 15 | AY.5 | 0.000041 |
S | 156 | E156del2 | GAg | --g | 7 | 14 | AY.35 | 0.001631 |
S | 156 | E156del2 | gAG | g-- | 7 | 14 | AY.35 | 0.001631 |
S | 156 | E156del2 | GAg | --g | 7 | 14 | AY.98.1 | 0.000339 |
S | 156 | E156del2 | gAG | g-- | 7 | 14 | AY.98.1 | 0.000339 |
S | 156 | E156del2 | GAg | --g | 7 | 13 | AY.20 | 0.000272 |
S | 156 | E156del2 | gAG | g-- | 6 | 13 | AY.20 | 0.000233 |
S | 156 | E156del2 | gAG | g-- | 7 | 13 | AY.61 | 0.000733 |
S | 156 | E156del2 | GAg | --g | 6 | 13 | AY.61 | 0.000629 |
S | 156 | E156del2 | gAG | g-- | 7 | 11 | AY.34 | 0.000679 |
S | 156 | E156del2 | GAg | --g | 4 | 11 | AY.34 | 0.000388 |
S | 156 | E156del2 | gAG | g-- | 9 | 11 | AY.75 | 0.000504 |
S | 156 | E156del2 | GAg | --g | 2 | 11 | AY.75 | 0.000112 |
S | 156 | E156del2 | gAG | g-- | 9 | 10 | AY.13 | 0.001449 |
S | 156 | E156del2 | GAg | --g | 1 | 10 | AY.13 | 0.000161 |
S | 156 | E156del2 | gAG | g-- | 9 | 9 | AY.42 | 0.000362 |
S | 156 | E156del2 | gAG | g-- | 5 | 9 | AY.46.4 | 0.000823 |
S | 156 | E156del2 | GAg | --g | 4 | 9 | AY.46.4 | 0.000658 |
S | 156 | E156del2 | gAG | g-- | 6 | 7 | AY.102 | 0.000159 |
S | 156 | E156del2 | GAg | --g | 1 | 7 | AY.102 | 0.000027 |
S | 156 | E156del2 | gAG | g-- | 5 | 7 | AY.12 | 0.00158 |
S | 156 | E156del2 | GAg | --g | 2 | 7 | AY.12 | 0.000632 |
S | 156 | E156del2 | gAG | g-- | 4 | 7 | AY.120 | 0.000149 |
S | 156 | E156del2 | GAg | --g | 3 | 7 | AY.120 | 0.000112 |
S | 156 | E156del2 | gAG | g-- | 5 | 7 | AY.33 | 0.000334 |
S | 156 | E156del2 | GAg | --g | 2 | 7 | AY.33 | 0.000134 |
S | 156 | E156del2 | gAG | g-- | 6 | 6 | AY.1 | 0.002374 |
S | 156 | E156del2 | gAG | g-- | 6 | 6 | AY.101 | 0.002943 |
S | 156 | E156del2 | gAG | g-- | 5 | 6 | AY.117 | 0.000423 |
S | 156 | E156del2 | GAg | --g | 1 | 6 | AY.117 | 0.000085 |
S | 156 | E156del2 | gAG | g-- | 5 | 6 | AY.36 | 0.000741 |
S | 156 | E156del2 | GAg | --g | 1 | 6 | AY.36 | 0.000148 |
S | 156 | E156del2 | gAG | g-- | 6 | 6 | AY.46 | 0.000624 |
S | 156 | E156del2 | gAG | g-- | 5 | 6 | AY.92 | 0.001436 |
S | 156 | E156del2 | GAg | --g | 1 | 6 | AY.92 | 0.000287 |
S | 156 | E156del2 | gAG | g-- | 6 | 6 | AY.99.2 | 0.000553 |
S | 156 | E156del2 | gAG | g-- | 5 | 5 | AY.111 | 0.000916 |
S | 156 | E156del2 | gAG | g-- | 3 | 5 | AY.116.1 | 0.000934 |
S | 156 | E156del2 | GAg | --g | 2 | 5 | AY.116.1 | 0.000623 |
S | 156 | E156del2 | gAG | g-- | 5 | 5 | AY.34.1 | 0.00255 |
S | 156 | E156del2 | gAG | g-- | 4 | 4 | AY.106 | 0.00134 |
S | 156 | E156del2 | GAg | --g | 3 | 4 | AY.107 | 0.001398 |
S | 156 | E156del2 | gAG | g-- | 1 | 4 | AY.107 | 0.000466 |
S | 156 | E156del2 | gAG | g-- | 3 | 4 | AY.23 | 0.000209 |
S | 156 | E156del2 | GAg | --g | 1 | 4 | AY.23 | 0.00007 |
S | 156 | E156del2 | GAg | --g | 2 | 4 | AY.48 | 0.00093 |
S | 156 | E156del2 | gAG | g-- | 2 | 4 | AY.48 | 0.00093 |
S | 156 | E156del2 | GAg | --g | 4 | 4 | AY.75.1 | 0.000721 |
S | 156 | E156del2 | gAG | g-- | 2 | 3 | AY.37 | 0.000632 |
S | 156 | E156del2 | GAg | --g | 1 | 3 | AY.37 | 0.000316 |
S | 156 | E156del2 | gAG | g-- | 3 | 3 | AY.38 | 0.001498 |
S | 156 | E156del2 | gAG | g-- | 3 | 3 | AY.70 | 0.000626 |
S | 156 | E156del2 | gAG | g-- | 3 | 3 | AY.9.2 | 0.00011 |
S | 156 | E156del2 | gAG | g-- | 2 | 2 | AY.109 | 0.001479 |
S | 156 | E156del2 | gAG | g-- | 2 | 2 | AY.121 | 0.000271 |
S | 156 | E156del2 | gAG | g-- | 2 | 2 | AY.16.1 | 0.00094 |
S | 156 | E156del2 | gAG | g-- | 2 | 2 | AY.24 | 0.000862 |
S | 156 | E156del2 | GAg | --g | 1 | 2 | AY.32 | 0.000532 |
S | 156 | E156del2 | gAG | g-- | 1 | 2 | AY.32 | 0.000532 |
S | 156 | E156del2 | gAG | g-- | 2 | 2 | AY.4.5 | 0.000215 |
S | 156 | E156del2 | GAg | --g | 1 | 2 | AY.46.1 | 0.001027 |
S | 156 | E156del2 | gAG | g-- | 1 | 2 | AY.46.1 | 0.001027 |
S | 156 | E156del2 | GAg | --g | 1 | 2 | AY.62 | 0.000436 |
S | 156 | E156del2 | gAG | g-- | 1 | 2 | AY.62 | 0.000436 |
S | 156 | E156del2 | GAg | --g | 1 | 2 | AY.65 | 0.000533 |
S | 156 | E156del2 | gAG | g-- | 1 | 2 | AY.65 | 0.000533 |
S | 156 | E156del2 | gAG | g-- | 2 | 2 | AY.67 | 0.000929 |
S | 156 | E156del2 | gAG | g-- | 2 | 2 | AY.74 | 0.000231 |
S | 156 | E156del2 | gAG | g-- | 1 | 2 | AY.84 | 0.000437 |
S | 156 | E156del2 | GAg | --g | 1 | 2 | AY.84 | 0.000437 |
S | 156 | E156del2 | gAG | g-- | 2 | 2 | AY.88 | 0.001768 |
S | 156 | E156del2 | GAg | --g | 2 | 2 | AY.98 | 0.000158 |
S | 156 | E156del2 | gAG | g-- | 1 | 2 | B.1 | 0.000009 |
S | 156 | E156del2 | GAG | --T | 1 | 2 | B.1 | 0.000009 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | A.2.5 | 0.000499 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.10 | 0.00053 |
S | 156 | E156del2 | GAg | --g | 1 | 1 | AY.105 | 0.000643 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.108 | 0.001103 |
S | 156 | E156del2 | GAg | --g | 1 | 1 | AY.11 | 0.001339 |
S | 156 | E156del2 | GAg | --g | 1 | 1 | AY.110 | 0.000113 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.113 | 0.000142 |
S | 156 | E156del2 | GAg | --g | 1 | 1 | AY.115 | 0.005208 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.120.1 | 0.000321 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.16 | 0.00038 |
S | 156 | E156del2 | GAg | --g | 1 | 1 | AY.19 | 0.00114 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.2 | 0.000356 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.4.1 | 0.000737 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.4.2 | 0.000022 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.4.4 | 0.000409 |
S | 156 | E156del2 | GAg | --g | 1 | 1 | AY.46.2 | 0.000635 |
S | 156 | E156del2 | GAg | --g | 1 | 1 | AY.46.6 | 0.000072 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.5.2 | 0.002463 |
S | 156 | E156del2 | GAg | --g | 1 | 1 | AY.51 | 0.000909 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.53 | 0.000288 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.59 | 0.00053 |
S | 156 | E156del2 | GAg | --g | 1 | 1 | AY.6 | 0.000041 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.63 | 0.000387 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.64 | 0.000595 |
S | 156 | E156del2 | GAg | --g | 1 | 1 | AY.68 | 0.000274 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.7 | 0.000196 |
S | 156 | E156del2 | GAg | --g | 1 | 1 | AY.8 | 0.000606 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.96 | 0.002075 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | AY.99.1 | 0.001553 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | B.1.177 | 0.000013 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | B.1.621 | 0.000089 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | C.37 | 0.000116 |
S | 156 | E156del2 | gAG | g-- | 1 | 1 | P.1 | 0.000016 |
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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