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 | 145 | Y145del | del | TAC | --- | 3074 | 3074 | 1 | 21995-21997 |
Details of the mutation Y145del 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 | 145 | Y145del | TAC | --- | 3074 | 3074 | All | 0.000588 |
S | 145 | Y145del | TAC | --- | 2094 | 2094 | B.1.1.7 | 0.001875 |
S | 145 | Y145del | TAC | --- | 201 | 201 | B.1.618 | 0.810484 |
S | 145 | Y145del | TAC | --- | 189 | 189 | B.1.637 | 0.013811 |
S | 145 | Y145del | TAC | --- | 93 | 93 | AY.4 | 0.000145 |
S | 145 | Y145del | TAC | --- | 46 | 46 | AY.43 | 0.000204 |
S | 145 | Y145del | TAC | --- | 32 | 32 | Q.8 | 0.005277 |
S | 145 | Y145del | TAC | --- | 23 | 23 | AY.25 | 0.000138 |
S | 145 | Y145del | TAC | --- | 23 | 23 | B.1 | 0.000211 |
S | 145 | Y145del | TAC | --- | 20 | 20 | B.1.2 | 0.000176 |
S | 145 | Y145del | TAC | --- | 19 | 19 | B.1.526 | 0.000447 |
S | 145 | Y145del | TAC | --- | 16 | 16 | AY.4.2 | 0.000347 |
S | 145 | Y145del | TAC | --- | 15 | 15 | P.1 | 0.000236 |
S | 145 | Y145del | TAC | --- | 14 | 14 | B.1.582 | 0.006869 |
S | 145 | Y145del | TAC | --- | 12 | 12 | AY.102 | 0.000318 |
S | 145 | Y145del | TAC | --- | 12 | 12 | B.1.617.2 | 0.000045 |
S | 145 | Y145del | TAC | --- | 11 | 11 | B.1.177 | 0.000145 |
S | 145 | Y145del | TAC | --- | 10 | 10 | AY.42 | 0.000402 |
S | 145 | Y145del | TAC | --- | 9 | 9 | AY.44 | 0.000055 |
S | 145 | Y145del | TAC | --- | 9 | 9 | B.1.1 | 0.000163 |
S | 145 | Y145del | TAC | --- | 8 | 8 | B.1.160 | 0.00025 |
S | 145 | Y145del | TAC | --- | 8 | 8 | B.1.630 | 0.041885 |
S | 145 | Y145del | TAC | --- | 7 | 7 | AY.3 | 0.00007 |
S | 145 | Y145del | TAC | --- | 6 | 6 | AY.29 | 0.000095 |
S | 145 | Y145del | TAC | --- | 6 | 6 | B.1.1.318 | 0.001811 |
S | 145 | Y145del | TAC | --- | 6 | 6 | B.1.351 | 0.000178 |
S | 145 | Y145del | TAC | --- | 5 | 5 | AY.39 | 0.000124 |
S | 145 | Y145del | TAC | --- | 5 | 5 | AY.4.2.1 | 0.000745 |
S | 145 | Y145del | TAC | --- | 4 | 4 | A.2.5 | 0.001996 |
S | 145 | Y145del | TAC | --- | 4 | 4 | AY.103 | 0.000025 |
S | 145 | Y145del | TAC | --- | 4 | 4 | AY.34.1 | 0.00204 |
S | 145 | Y145del | TAC | --- | 4 | 4 | AZ.2 | 0.003284 |
S | 145 | Y145del | TAC | --- | 4 | 4 | B.1.177.21 | 0.000306 |
S | 145 | Y145del | TAC | --- | 4 | 4 | B.1.243 | 0.000278 |
S | 145 | Y145del | TAC | --- | 3 | 3 | AY.120 | 0.000112 |
S | 145 | Y145del | TAC | --- | 3 | 3 | AY.121 | 0.000406 |
S | 145 | Y145del | TAC | --- | 3 | 3 | B.1.1.284 | 0.000322 |
S | 145 | Y145del | TAC | --- | 3 | 3 | B.1.319 | 0.009146 |
S | 145 | Y145del | TAC | --- | 3 | 3 | B.1.36 | 0.000438 |
S | 145 | Y145del | TAC | --- | 3 | 3 | B.1.596 | 0.000261 |
S | 145 | Y145del | TAC | --- | 3 | 3 | B.1.621 | 0.000266 |
S | 145 | Y145del | TAC | --- | 2 | 2 | A.27 | 0.003311 |
S | 145 | Y145del | TAC | --- | 2 | 2 | AY.100 | 0.000092 |
S | 145 | Y145del | TAC | --- | 2 | 2 | AY.101 | 0.000981 |
S | 145 | Y145del | TAC | --- | 2 | 2 | AY.108 | 0.002205 |
S | 145 | Y145del | TAC | --- | 2 | 2 | AY.119 | 0.000071 |
S | 145 | Y145del | TAC | --- | 2 | 2 | AY.27 | 0.000129 |
S | 145 | Y145del | TAC | --- | 2 | 2 | AY.29.1 | 0.000441 |
S | 145 | Y145del | TAC | --- | 2 | 2 | AY.33 | 0.000134 |
S | 145 | Y145del | TAC | --- | 2 | 2 | AY.4.5 | 0.000215 |
S | 145 | Y145del | TAC | --- | 2 | 2 | AY.65 | 0.001066 |
S | 145 | Y145del | TAC | --- | 2 | 2 | AY.7.2 | 0.001119 |
S | 145 | Y145del | TAC | --- | 2 | 2 | AY.84 | 0.000875 |
S | 145 | Y145del | TAC | --- | 2 | 2 | AY.9 | 0.000135 |
S | 145 | Y145del | TAC | --- | 2 | 2 | AY.98.1 | 0.000097 |
S | 145 | Y145del | TAC | --- | 2 | 2 | AY.99 | 0.002099 |
S | 145 | Y145del | TAC | --- | 2 | 2 | AZ.5 | 0.007018 |
S | 145 | Y145del | TAC | --- | 2 | 2 | B.1.1.298 | 0.001724 |
S | 145 | Y145del | TAC | --- | 2 | 2 | B.1.1.311 | 0.000716 |
S | 145 | Y145del | TAC | --- | 2 | 2 | B.1.177.87 | 0.001456 |
S | 145 | Y145del | TAC | --- | 2 | 2 | B.1.221 | 0.000142 |
S | 145 | Y145del | TAC | --- | 2 | 2 | B.1.234 | 0.000264 |
S | 145 | Y145del | TAC | --- | 2 | 2 | B.1.258.17 | 0.000208 |
S | 145 | Y145del | TAC | --- | 2 | 2 | B.1.36.38 | 0.003284 |
S | 145 | Y145del | TAC | --- | 2 | 2 | B.1.39 | 0.007812 |
S | 145 | Y145del | TAC | --- | 2 | 2 | B.1.525 | 0.000226 |
S | 145 | Y145del | TAC | --- | 2 | 2 | B.1.595 | 0.000522 |
S | 145 | Y145del | TAC | --- | 2 | 2 | B.1.617.1 | 0.000258 |
S | 145 | Y145del | TAC | --- | 2 | 2 | B.1.620 | 0.001892 |
S | 145 | Y145del | TAC | --- | 2 | 2 | C.37 | 0.000232 |
S | 145 | Y145del | TAC | --- | 2 | 2 | P.1.11 | 0.020408 |
S | 145 | Y145del | TAC | --- | 2 | 2 | P.1.15 | 0.000465 |
S | 145 | Y145del | TAC | --- | 2 | 2 | P.3 | 0.00319 |
S | 145 | Y145del | TAC | --- | 2 | 2 | Q.2 | 0.001227 |
S | 145 | Y145del | TAC | --- | 2 | 2 | Q.3 | 0.00029 |
S | 145 | Y145del | TAC | --- | 1 | 1 | A | 0.000387 |
S | 145 | Y145del | TAC | --- | 1 | 1 | A.1 | 0.000282 |
S | 145 | Y145del | TAC | --- | 1 | 1 | A.19 | 0.009434 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.107 | 0.000466 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.109 | 0.00074 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.116 | 0.000287 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.117 | 0.000085 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.118 | 0.000063 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.120.2 | 0.001285 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.14 | 0.000088 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.36 | 0.000148 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.4.1 | 0.000737 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.46 | 0.000104 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.5 | 0.000021 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.5.3 | 0.000337 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.60 | 0.000938 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.62 | 0.000436 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.73 | 0.000665 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.78 | 0.001541 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.85 | 0.000427 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.9.2 | 0.000037 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.92 | 0.000287 |
S | 145 | Y145del | TAC | --- | 1 | 1 | AY.99.1 | 0.001553 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.1.139 | 0.022727 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.1.39 | 0.00051 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.1.41 | 0.006329 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.1.432 | 0.001266 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.1.447 | 0.035714 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.1.63 | 0.000386 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.139 | 0.000733 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.160.23 | 0.004831 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.160.30 | 0.002976 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.177.4 | 0.000211 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.177.57 | 0.000281 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.177.6 | 0.000977 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.177.73 | 0.000566 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.177.76 | 0.002494 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.177.86 | 0.000183 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.279 | 0.000514 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.36.31 | 0.001751 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.37 | 0.014706 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.380 | 0.006623 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.391 | 0.001127 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.415 | 0.014286 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.416 | 0.001269 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.427 | 0.00005 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.429 | 0.000024 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.466.1 | 0.007194 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.565 | 0.00081 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.568 | 0.001111 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.585 | 0.027778 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.596.1 | 0.009346 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.612 | 0.002653 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.9.4 | 0.006135 |
S | 145 | Y145del | TAC | --- | 1 | 1 | B.1.93 | 0.000934 |
S | 145 | Y145del | TAC | --- | 1 | 1 | C.36 | 0.000911 |
S | 145 | Y145del | TAC | --- | 1 | 1 | P.1.1 | 0.000318 |
S | 145 | Y145del | TAC | --- | 1 | 1 | P.1.17 | 0.000162 |
S | 145 | Y145del | TAC | --- | 1 | 1 | P.1.2 | 0.001156 |
S | 145 | Y145del | TAC | --- | 1 | 1 | P.2 | 0.000187 |
S | 145 | Y145del | TAC | --- | 1 | 1 | Q.1 | 0.000126 |
S | 145 | Y145del | TAC | --- | 1 | 1 | Q.7 | 0.001111 |
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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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