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/nsp7 | 78 | N78S | N3937S | nonsyn | aAc | aGc | 1268 | 1267 | 0.999211 | 12074-12076 |
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/nsp7 | 78 | N78S | aAc | aGc | 1267 | 1268 | All | 0.000242 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 276 | 276 | B.1.469 | 0.99639 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 155 | 155 | B.1.617.2 | 0.000584 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 94 | 94 | B.1.1.7 | 0.000084 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 72 | 73 | B.1 | 0.000659 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 72 | 72 | AY.43 | 0.000319 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 56 | 56 | AY.103 | 0.000348 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 56 | 56 | AY.4 | 0.000087 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 33 | 33 | B.1.177.37 | 0.891892 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 32 | 32 | B.1.1.1 | 0.010454 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 30 | 30 | AY.25 | 0.00018 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 30 | 30 | AY.44 | 0.000183 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 29 | 29 | B.1.177 | 0.000382 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 26 | 26 | B.1.2 | 0.000229 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 16 | 16 | B.1.427 | 0.000808 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 14 | 14 | AY.102 | 0.000371 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 14 | 14 | P.1.14 | 0.000669 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 13 | 13 | B.1.1.41 | 0.082278 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 12 | 12 | AY.46 | 0.001249 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 10 | 10 | AY.63 | 0.003868 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 8 | 8 | AY.39 | 0.000198 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 7 | 7 | AY.4.4 | 0.002864 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 7 | 7 | B.1.1.222 | 0.001428 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 7 | 7 | B.1.429 | 0.000165 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 6 | 6 | AY.20 | 0.000233 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 6 | 6 | AY.26 | 0.00017 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 5 | 5 | AY.61 | 0.000524 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 5 | 5 | B.1.1 | 0.000091 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 5 | 5 | B.1.36.8 | 0.005 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 5 | 5 | B.1.575 | 0.001517 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 4 | 4 | AY.100 | 0.000184 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 4 | 4 | AY.121 | 0.000541 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 4 | 4 | AY.33 | 0.000267 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 4 | 4 | AY.73 | 0.002661 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 4 | 4 | AY.9.2 | 0.000147 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 4 | 4 | B.1.1.28 | 0.001245 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 4 | 4 | B.1.160 | 0.000125 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 4 | 4 | B.1.160.10 | 0.032258 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 4 | 4 | B.1.177.17 | 0.003284 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 4 | 4 | B.1.239 | 0.004884 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 4 | 4 | B.1.258 | 0.000266 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 4 | 4 | B.1.605 | 0.02381 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 4 | 4 | B.1.93 | 0.003735 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 3 | 3 | AY.14 | 0.000264 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 3 | 3 | AY.4.2.1 | 0.000447 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 3 | 3 | AY.57 | 0.001969 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 3 | 3 | AY.74 | 0.000347 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 3 | 3 | B.1.1.113 | 0.020979 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 3 | 3 | B.1.1.157 | 0.00274 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 3 | 3 | B.1.1.317 | 0.001235 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 3 | 3 | B.1.177.86 | 0.00055 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 3 | 3 | B.1.36 | 0.000438 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 3 | 3 | B.1.438.1 | 0.000322 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 3 | 3 | B.1.609 | 0.001438 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 3 | 3 | C.37 | 0.000348 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 3 | 3 | P.1 | 0.000047 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 3 | 3 | Q.3 | 0.000435 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 2 | 2 | AY.111 | 0.000366 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 2 | 2 | AY.117 | 0.000169 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 2 | 2 | AY.118 | 0.000125 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 2 | 2 | AY.27 | 0.000129 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 2 | 2 | AY.29 | 0.000032 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 2 | 2 | AY.5 | 0.000041 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 2 | 2 | AY.59 | 0.001059 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 2 | 2 | AY.6 | 0.000082 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 2 | 2 | B.1.177.56 | 0.001335 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 2 | 2 | B.1.214.1 | 0.04 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 2 | 2 | B.1.223 | 0.005556 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 2 | 2 | B.1.234 | 0.000264 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 2 | 2 | B.1.243 | 0.000139 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 2 | 2 | B.1.389 | 0.002004 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 2 | 2 | B.1.396 | 0.001411 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 2 | 2 | B.1.558 | 0.009132 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | A | 0.000387 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | AY.105 | 0.000643 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | AY.113 | 0.000142 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | AY.116 | 0.000287 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | AY.23 | 0.00007 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | AY.47 | 0.000031 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | AY.5.4 | 0.000277 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | AY.68 | 0.000274 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | AY.98.1 | 0.000048 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.1.129 | 0.009174 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.1.214 | 0.000055 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.1.294 | 0.001266 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.1.318 | 0.000302 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.1.33 | 0.000421 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.1.347 | 0.018182 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.1.448 | 0.002033 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.1.486 | 0.001577 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.1.517 | 0.006803 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.170 | 0.00431 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.177.35 | 0.000691 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.315 | 0.006061 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.351 | 0.00003 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.391 | 0.001127 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.408 | 0.00369 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.468 | 0.005714 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.503 | 0.002488 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.526 | 0.000024 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.565 | 0.00081 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.610 | 0.003546 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | B.3 | 0.000831 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | C.16 | 0.00106 |
ORF1ab/nsp7 | 78 | N78S | aAc | aGc | 1 | 1 | R.1 | 0.00009 |
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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