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 | 245 | H245del | del | CAT | --- | 540 | 540 | 1 | 22295-22297 |
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 | 245 | H245del | CAT | --- | 540 | 540 | All | 0.000103 |
S | 245 | H245del | CAT | --- | 149 | 149 | B.1.1.7 | 0.000133 |
S | 245 | H245del | CAT | --- | 32 | 32 | C.40 | 0.888889 |
S | 245 | H245del | CAT | --- | 30 | 30 | B.1 | 0.000275 |
S | 245 | H245del | CAT | --- | 29 | 29 | B.1.351 | 0.000862 |
S | 245 | H245del | CAT | --- | 21 | 21 | AY.4 | 0.000033 |
S | 245 | H245del | CAT | --- | 19 | 19 | B.1.351.3 | 0.016652 |
S | 245 | H245del | CAT | --- | 18 | 18 | B.1.617.2 | 0.000068 |
S | 245 | H245del | CAT | --- | 17 | 17 | B.1.2 | 0.00015 |
S | 245 | H245del | CAT | --- | 16 | 16 | B.1.177 | 0.000211 |
S | 245 | H245del | CAT | --- | 11 | 11 | C.37 | 0.001277 |
S | 245 | H245del | CAT | --- | 10 | 10 | AY.3 | 0.000099 |
S | 245 | H245del | CAT | --- | 10 | 10 | B.1.637 | 0.000731 |
S | 245 | H245del | CAT | --- | 8 | 8 | AY.43 | 0.000035 |
S | 245 | H245del | CAT | --- | 7 | 7 | P.1.15 | 0.001626 |
S | 245 | H245del | CAT | --- | 6 | 6 | AY.25 | 0.000036 |
S | 245 | H245del | CAT | --- | 6 | 6 | B.1.1 | 0.000109 |
S | 245 | H245del | CAT | --- | 6 | 6 | B.1.243 | 0.000418 |
S | 245 | H245del | CAT | --- | 6 | 6 | P.1 | 0.000095 |
S | 245 | H245del | CAT | --- | 5 | 5 | AY.4.2 | 0.000108 |
S | 245 | H245del | CAT | --- | 5 | 5 | B.1.526 | 0.000118 |
S | 245 | H245del | CAT | --- | 5 | 5 | P.5 | 0.068493 |
S | 245 | H245del | CAT | --- | 5 | 5 | Q.1 | 0.000632 |
S | 245 | H245del | CAT | --- | 4 | 4 | B.1.1.294 | 0.005063 |
S | 245 | H245del | CAT | --- | 4 | 4 | B.1.36 | 0.000584 |
S | 245 | H245del | CAT | --- | 4 | 4 | B.1.429 | 0.000094 |
S | 245 | H245del | CAT | --- | 4 | 4 | R.1 | 0.00036 |
S | 245 | H245del | CAT | --- | 3 | 3 | AY.102 | 0.00008 |
S | 245 | H245del | CAT | --- | 3 | 3 | AY.4.5 | 0.000322 |
S | 245 | H245del | CAT | --- | 3 | 3 | AY.44 | 0.000018 |
S | 245 | H245del | CAT | --- | 3 | 3 | AY.46 | 0.000312 |
S | 245 | H245del | CAT | --- | 3 | 3 | B.1.427 | 0.000151 |
S | 245 | H245del | CAT | --- | 3 | 3 | B.1.621 | 0.000266 |
S | 245 | H245del | CAT | --- | 2 | 2 | 0.111111 | |
S | 245 | H245del | CAT | --- | 2 | 2 | A | 0.000774 |
S | 245 | H245del | CAT | --- | 2 | 2 | A.2.5 | 0.000998 |
S | 245 | H245del | CAT | --- | 2 | 2 | AY.100 | 0.000092 |
S | 245 | H245del | CAT | --- | 2 | 2 | AY.29 | 0.000032 |
S | 245 | H245del | CAT | --- | 2 | 2 | AY.39 | 0.000049 |
S | 245 | H245del | CAT | --- | 2 | 2 | AY.5 | 0.000041 |
S | 245 | H245del | CAT | --- | 2 | 2 | AY.95 | 0.001522 |
S | 245 | H245del | CAT | --- | 2 | 2 | B.1.1.28 | 0.000622 |
S | 245 | H245del | CAT | --- | 2 | 2 | B.1.1.432 | 0.002532 |
S | 245 | H245del | CAT | --- | 2 | 2 | B.1.1.464 | 0.002946 |
S | 245 | H245del | CAT | --- | 2 | 2 | B.1.237 | 0.00995 |
S | 245 | H245del | CAT | --- | 2 | 2 | B.1.332 | 0.006993 |
S | 245 | H245del | CAT | --- | 2 | 2 | B.1.416 | 0.002538 |
S | 245 | H245del | CAT | --- | 2 | 2 | B.1.433 | 0.00639 |
S | 245 | H245del | CAT | --- | 2 | 2 | B.1.524 | 0.002813 |
S | 245 | H245del | CAT | --- | 2 | 2 | B.1.525 | 0.000226 |
S | 245 | H245del | CAT | --- | 2 | 2 | B.1.628 | 0.000705 |
S | 245 | H245del | CAT | --- | 2 | 2 | Q.4 | 0.00091 |
S | 245 | H245del | CAT | --- | 1 | 1 | A.23.1 | 0.000704 |
S | 245 | H245del | CAT | --- | 1 | 1 | AY.101 | 0.00049 |
S | 245 | H245del | CAT | --- | 1 | 1 | AY.103 | 0.000006 |
S | 245 | H245del | CAT | --- | 1 | 1 | AY.111 | 0.000183 |
S | 245 | H245del | CAT | --- | 1 | 1 | AY.118 | 0.000063 |
S | 245 | H245del | CAT | --- | 1 | 1 | AY.119 | 0.000035 |
S | 245 | H245del | CAT | --- | 1 | 1 | AY.12 | 0.000316 |
S | 245 | H245del | CAT | --- | 1 | 1 | AY.3.1 | 0.000085 |
S | 245 | H245del | CAT | --- | 1 | 1 | AY.54 | 0.000095 |
S | 245 | H245del | CAT | --- | 1 | 1 | AY.65 | 0.000533 |
S | 245 | H245del | CAT | --- | 1 | 1 | AY.75 | 0.000056 |
S | 245 | H245del | CAT | --- | 1 | 1 | AY.98 | 0.000079 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.1.159 | 0.004673 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.1.170 | 0.001247 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.1.284 | 0.000107 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.1.298 | 0.000862 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.1.318 | 0.000302 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.1.331 | 0.011628 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.1.352 | 0.03125 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.1.368 | 0.003086 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.1.389 | 0.006061 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.1.420 | 0.001006 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.1.434 | 0.000349 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.1.519 | 0.00004 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.1.54 | 0.003021 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.160.29 | 0.004219 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.177.17 | 0.000821 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.177.60 | 0.000218 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.177.69 | 0.001484 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.221 | 0.000071 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.404 | 0.001302 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.561 | 0.000397 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.575 | 0.000303 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.576 | 0.000907 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.617.1 | 0.000129 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.1.620 | 0.000946 |
S | 245 | H245del | CAT | --- | 1 | 1 | B.55 | 0.00295 |
S | 245 | H245del | CAT | --- | 1 | 1 | C.30 | 0.001727 |
S | 245 | H245del | CAT | --- | 1 | 1 | C.36.3 | 0.000567 |
S | 245 | H245del | CAT | --- | 1 | 1 | C.4 | 0.01 |
S | 245 | H245del | CAT | --- | 1 | 1 | C.6 | 0.037037 |
S | 245 | H245del | CAT | --- | 1 | 1 | L.1 | 0.001905 |
S | 245 | H245del | CAT | --- | 1 | 1 | L.3 | 0.003546 |
S | 245 | H245del | CAT | --- | 1 | 1 | P.1.1 | 0.000318 |
S | 245 | H245del | CAT | --- | 1 | 1 | P.1.14 | 0.000048 |
S | 245 | H245del | CAT | --- | 1 | 1 | Q.3 | 0.000145 |
S | 245 | H245del | CAT | --- | 1 | 1 | Q.8 | 0.000165 |
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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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