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 |
N | 206 | S206del | del | TCT | --- | 1700 | 1700 | 1 | 28889-28891 |
Details of the mutation S206del 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 |
N | 206 | S206del | TCT | --- | 1700 | 1700 | All | 0.000325 |
N | 206 | S206del | TCT | --- | 486 | 486 | B.1.1.7 | 0.000435 |
N | 206 | S206del | TCT | --- | 297 | 297 | P.1 | 0.004679 |
N | 206 | S206del | TCT | --- | 85 | 85 | D.2 | 0.006379 |
N | 206 | S206del | TCT | --- | 59 | 59 | B.1.617.2 | 0.000222 |
N | 206 | S206del | TCT | --- | 47 | 47 | AY.74 | 0.005435 |
N | 206 | S206del | TCT | --- | 47 | 47 | B.1 | 0.00043 |
N | 206 | S206del | TCT | --- | 44 | 44 | AY.103 | 0.000273 |
N | 206 | S206del | TCT | --- | 38 | 38 | P.1.12 | 0.018393 |
N | 206 | S206del | TCT | --- | 35 | 35 | P.1.17 | 0.005662 |
N | 206 | S206del | TCT | --- | 34 | 34 | B.1.1.93 | 0.871795 |
N | 206 | S206del | TCT | --- | 30 | 30 | AY.25 | 0.00018 |
N | 206 | S206del | TCT | --- | 30 | 30 | P.1.14 | 0.001434 |
N | 206 | S206del | TCT | --- | 27 | 27 | AY.4 | 0.000042 |
N | 206 | S206del | TCT | --- | 25 | 25 | AY.100 | 0.00115 |
N | 206 | S206del | TCT | --- | 25 | 25 | P.1.15 | 0.005809 |
N | 206 | S206del | TCT | --- | 23 | 23 | Q.2 | 0.01411 |
N | 206 | S206del | TCT | --- | 22 | 22 | AY.4.2.1 | 0.003278 |
N | 206 | S206del | TCT | --- | 22 | 22 | AY.52 | 0.017915 |
N | 206 | S206del | TCT | --- | 15 | 15 | AY.26 | 0.000425 |
N | 206 | S206del | TCT | --- | 15 | 15 | AY.44 | 0.000091 |
N | 206 | S206del | TCT | --- | 15 | 15 | P.1.1 | 0.004765 |
N | 206 | S206del | TCT | --- | 14 | 14 | AY.43 | 0.000062 |
N | 206 | S206del | TCT | --- | 12 | 12 | AY.47 | 0.000373 |
N | 206 | S206del | TCT | --- | 11 | 11 | AY.3 | 0.000109 |
N | 206 | S206del | TCT | --- | 10 | 10 | AY.23 | 0.000697 |
N | 206 | S206del | TCT | --- | 10 | 10 | B.1.214 | 0.03663 |
N | 206 | S206del | TCT | --- | 9 | 9 | AY.118 | 0.000564 |
N | 206 | S206del | TCT | --- | 9 | 9 | AY.45 | 0.001095 |
N | 206 | S206del | TCT | --- | 9 | 9 | B.1.1.519 | 0.000357 |
N | 206 | S206del | TCT | --- | 8 | 8 | B.1.243 | 0.000557 |
N | 206 | S206del | TCT | --- | 8 | 8 | B.1.526 | 0.000188 |
N | 206 | S206del | TCT | --- | 6 | 6 | AY.119 | 0.000212 |
N | 206 | S206del | TCT | --- | 6 | 6 | AY.85 | 0.002563 |
N | 206 | S206del | TCT | --- | 6 | 6 | B.1.349 | 0.004289 |
N | 206 | S206del | TCT | --- | 5 | 5 | AY.27 | 0.000324 |
N | 206 | S206del | TCT | --- | 5 | 5 | AY.75 | 0.00028 |
N | 206 | S206del | TCT | --- | 5 | 5 | B.1.617.1 | 0.000645 |
N | 206 | S206del | TCT | --- | 4 | 4 | AD.2 | 0.000876 |
N | 206 | S206del | TCT | --- | 4 | 4 | AY.21 | 0.00759 |
N | 206 | S206del | TCT | --- | 4 | 4 | AY.39 | 0.000099 |
N | 206 | S206del | TCT | --- | 4 | 4 | AY.4.2 | 0.000087 |
N | 206 | S206del | TCT | --- | 4 | 4 | AY.59 | 0.002119 |
N | 206 | S206del | TCT | --- | 4 | 4 | AY.9.1 | 0.000335 |
N | 206 | S206del | TCT | --- | 4 | 4 | AY.9.2 | 0.000147 |
N | 206 | S206del | TCT | --- | 4 | 4 | B | 0.000511 |
N | 206 | S206del | TCT | --- | 4 | 4 | B.1.1 | 0.000073 |
N | 206 | S206del | TCT | --- | 4 | 4 | B.1.1.222 | 0.000816 |
N | 206 | S206del | TCT | --- | 4 | 4 | P.1.2 | 0.004624 |
N | 206 | S206del | TCT | --- | 3 | 3 | AY.102 | 0.00008 |
N | 206 | S206del | TCT | --- | 3 | 3 | AY.20 | 0.000117 |
N | 206 | S206del | TCT | --- | 3 | 3 | AY.30 | 0.001187 |
N | 206 | S206del | TCT | --- | 3 | 3 | AY.36 | 0.000445 |
N | 206 | S206del | TCT | --- | 3 | 3 | AY.4.5 | 0.000322 |
N | 206 | S206del | TCT | --- | 3 | 3 | AY.63 | 0.001161 |
N | 206 | S206del | TCT | --- | 3 | 3 | B.1.36 | 0.000438 |
N | 206 | S206del | TCT | --- | 3 | 3 | B.1.576 | 0.00272 |
N | 206 | S206del | TCT | --- | 3 | 3 | P.1.16 | 0.001122 |
N | 206 | S206del | TCT | --- | 3 | 3 | P.1.7 | 0.000958 |
N | 206 | S206del | TCT | --- | 2 | 2 | AY.29 | 0.000032 |
N | 206 | S206del | TCT | --- | 2 | 2 | AY.40 | 0.001929 |
N | 206 | S206del | TCT | --- | 2 | 2 | AY.42 | 0.00008 |
N | 206 | S206del | TCT | --- | 2 | 2 | AY.46 | 0.000208 |
N | 206 | S206del | TCT | --- | 2 | 2 | AY.5 | 0.000041 |
N | 206 | S206del | TCT | --- | 2 | 2 | AY.50 | 0.001599 |
N | 206 | S206del | TCT | --- | 2 | 2 | AY.54 | 0.000191 |
N | 206 | S206del | TCT | --- | 2 | 2 | AY.7.2 | 0.001119 |
N | 206 | S206del | TCT | --- | 2 | 2 | AY.98.1 | 0.000097 |
N | 206 | S206del | TCT | --- | 2 | 2 | AY.99.2 | 0.000184 |
N | 206 | S206del | TCT | --- | 2 | 2 | B.1.1.370 | 0.025316 |
N | 206 | S206del | TCT | --- | 2 | 2 | B.1.2 | 0.000018 |
N | 206 | S206del | TCT | --- | 2 | 2 | B.1.351 | 0.000059 |
N | 206 | S206del | TCT | --- | 2 | 2 | C.37 | 0.000232 |
N | 206 | S206del | TCT | --- | 2 | 2 | P.1.10 | 0.000539 |
N | 206 | S206del | TCT | --- | 2 | 2 | P.2 | 0.000373 |
N | 206 | S206del | TCT | --- | 1 | 1 | A.1 | 0.000282 |
N | 206 | S206del | TCT | --- | 1 | 1 | A.23.1 | 0.000704 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.110 | 0.000113 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.113 | 0.000142 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.120 | 0.000037 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.16 | 0.00038 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.16.1 | 0.00047 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.24 | 0.000431 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.29.1 | 0.000221 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.32 | 0.000532 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.33 | 0.000067 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.34 | 0.000097 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.37 | 0.000316 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.38 | 0.000499 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.39.1 | 0.00004 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.5.4 | 0.000277 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.57 | 0.000656 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.6 | 0.000041 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.61 | 0.000105 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.79 | 0.001211 |
N | 206 | S206del | TCT | --- | 1 | 1 | AY.98 | 0.000079 |
N | 206 | S206del | TCT | --- | 1 | 1 | B.1.1.25 | 0.000569 |
N | 206 | S206del | TCT | --- | 1 | 1 | B.1.1.301 | 0.001179 |
N | 206 | S206del | TCT | --- | 1 | 1 | B.1.1.307 | 0.002532 |
N | 206 | S206del | TCT | --- | 1 | 1 | B.1.1.33 | 0.000421 |
N | 206 | S206del | TCT | --- | 1 | 1 | B.1.1.369 | 0.000446 |
N | 206 | S206del | TCT | --- | 1 | 1 | B.1.1.50 | 0.000679 |
N | 206 | S206del | TCT | --- | 1 | 1 | B.1.160 | 0.000031 |
N | 206 | S206del | TCT | --- | 1 | 1 | B.1.177 | 0.000013 |
N | 206 | S206del | TCT | --- | 1 | 1 | B.1.324 | 0.001605 |
N | 206 | S206del | TCT | --- | 1 | 1 | B.1.427 | 0.00005 |
N | 206 | S206del | TCT | --- | 1 | 1 | B.1.465 | 0.003802 |
N | 206 | S206del | TCT | --- | 1 | 1 | B.1.525 | 0.000113 |
N | 206 | S206del | TCT | --- | 1 | 1 | B.1.596 | 0.000087 |
N | 206 | S206del | TCT | --- | 1 | 1 | C.37.1 | 0.002618 |
N | 206 | S206del | TCT | --- | 1 | 1 | N.5 | 0.001767 |
N | 206 | S206del | TCT | --- | 1 | 1 | P.1.13 | 0.000898 |
N | 206 | S206del | TCT | --- | 1 | 1 | P.1.8 | 0.004785 |
N | 206 | S206del | TCT | --- | 1 | 1 | Q.3 | 0.000145 |
N | 206 | S206del | TCT | --- | 1 | 1 | Q.8 | 0.000165 |
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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