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 |
noncoding | 29683 | A29683- | noncoding | A | - | 828 | 828 | 1 | 29683-29683 | |
noncoding | 29683 | A29683T | noncoding | A | T | 320 | 320 | 1 | 29683-29683 | |
noncoding | 29683 | A29683G | noncoding | A | G | 67 | 67 | 1 | 29683-29683 | |
noncoding | 29683 | A29683C | noncoding | A | C | 8 | 8 | 1 | 29683-29683 | |
noncoding | 29683 | A29683H | noncoding | A | H | 1 | 1 | 1 | 29683-29683 |
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 |
noncoding | 29683 | A29683- | A | - | 828 | 828 | All | 0.000158 |
noncoding | 29683 | A29683T | A | T | 320 | 320 | All | 0.000061 |
noncoding | 29683 | A29683T | A | T | 272 | 272 | B.23 | 0.795322 |
noncoding | 29683 | A29683- | A | - | 227 | 227 | AY.4 | 0.000353 |
noncoding | 29683 | A29683- | A | - | 149 | 149 | B.1.617.2 | 0.000561 |
noncoding | 29683 | A29683- | A | - | 68 | 68 | B.1.1.7 | 0.000061 |
noncoding | 29683 | A29683G | A | G | 67 | 67 | All | 0.000013 |
noncoding | 29683 | A29683- | A | - | 52 | 52 | AY.39 | 0.001285 |
noncoding | 29683 | A29683G | A | G | 27 | 27 | B.1.1.7 | 0.000024 |
noncoding | 29683 | A29683- | A | - | 19 | 19 | AY.25 | 0.000114 |
noncoding | 29683 | A29683- | A | - | 18 | 18 | AY.103 | 0.000112 |
noncoding | 29683 | A29683- | A | - | 17 | 17 | B.1.2 | 0.00015 |
noncoding | 29683 | A29683- | A | - | 16 | 16 | AY.44 | 0.000097 |
noncoding | 29683 | A29683- | A | - | 15 | 15 | B.1.351.3 | 0.013146 |
noncoding | 29683 | A29683- | A | - | 14 | 14 | AY.43 | 0.000062 |
noncoding | 29683 | A29683T | A | T | 14 | 14 | B | 0.001789 |
noncoding | 29683 | A29683- | A | - | 14 | 14 | B.1.349 | 0.010007 |
noncoding | 29683 | A29683- | A | - | 13 | 13 | AY.102 | 0.000345 |
noncoding | 29683 | A29683- | A | - | 12 | 12 | AY.47 | 0.000373 |
noncoding | 29683 | A29683- | A | - | 12 | 12 | B.1.234 | 0.001583 |
noncoding | 29683 | A29683- | A | - | 10 | 10 | B.1.177 | 0.000132 |
noncoding | 29683 | A29683- | A | - | 9 | 9 | B.1 | 0.000082 |
noncoding | 29683 | A29683T | A | T | 9 | 9 | B.1.1.7 | 0.000008 |
noncoding | 29683 | A29683C | A | C | 8 | 8 | All | 0.000002 |
noncoding | 29683 | A29683- | A | - | 8 | 8 | AY.4.2 | 0.000174 |
noncoding | 29683 | A29683- | A | - | 8 | 8 | B.1.429 | 0.000188 |
noncoding | 29683 | A29683T | A | T | 7 | 7 | AY.43 | 0.000031 |
noncoding | 29683 | A29683- | A | - | 7 | 7 | AY.98.1 | 0.000339 |
noncoding | 29683 | A29683- | A | - | 7 | 7 | P.1 | 0.00011 |
noncoding | 29683 | A29683- | A | - | 5 | 5 | AY.9.2 | 0.000184 |
noncoding | 29683 | A29683- | A | - | 5 | 5 | B.1.258 | 0.000333 |
noncoding | 29683 | A29683- | A | - | 4 | 4 | AY.75 | 0.000224 |
noncoding | 29683 | A29683G | A | G | 4 | 4 | B.1 | 0.000037 |
noncoding | 29683 | A29683G | A | G | 4 | 4 | B.1.617.2 | 0.000015 |
noncoding | 29683 | A29683- | A | - | 3 | 3 | AY.118 | 0.000188 |
noncoding | 29683 | A29683- | A | - | 3 | 3 | AY.120 | 0.000112 |
noncoding | 29683 | A29683- | A | - | 3 | 3 | AY.3.1 | 0.000256 |
noncoding | 29683 | A29683G | A | G | 3 | 3 | AY.4 | 0.000005 |
noncoding | 29683 | A29683- | A | - | 3 | 3 | AY.42 | 0.000121 |
noncoding | 29683 | A29683G | A | G | 3 | 3 | AY.44 | 0.000018 |
noncoding | 29683 | A29683- | A | - | 3 | 3 | AY.46.4 | 0.000494 |
noncoding | 29683 | A29683G | A | G | 3 | 3 | AY.47 | 0.000093 |
noncoding | 29683 | A29683- | A | - | 3 | 3 | B.1.1 | 0.000054 |
noncoding | 29683 | A29683- | A | - | 3 | 3 | B.1.1.194 | 0.014851 |
noncoding | 29683 | A29683G | A | G | 3 | 3 | B.1.232 | 0.001612 |
noncoding | 29683 | A29683- | A | - | 3 | 3 | B.1.509 | 0.002597 |
noncoding | 29683 | A29683C | A | C | 2 | 2 | 0.111111 | |
noncoding | 29683 | A29683- | A | - | 2 | 2 | AD.2 | 0.000438 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | AY.116 | 0.000574 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | AY.16.1 | 0.00094 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | AY.20 | 0.000078 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | AY.23 | 0.000139 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | AY.3 | 0.00002 |
noncoding | 29683 | A29683T | A | T | 2 | 2 | AY.3 | 0.00002 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | AY.30 | 0.000791 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | AY.33 | 0.000134 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | AY.34 | 0.000194 |
noncoding | 29683 | A29683T | A | T | 2 | 2 | AY.4.2 | 0.000043 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | AY.48 | 0.00093 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | AY.61 | 0.00021 |
noncoding | 29683 | A29683G | A | G | 2 | 2 | B.1.1.153 | 0.002191 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | B.1.1.216 | 0.001781 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | B.1.1.46 | 0.008734 |
noncoding | 29683 | A29683G | A | G | 2 | 2 | B.1.1.50 | 0.001358 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | B.1.1.519 | 0.000079 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | B.1.111 | 0.00235 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | B.1.221 | 0.000142 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | B.1.243 | 0.000139 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | B.1.362 | 0.003082 |
noncoding | 29683 | A29683T | A | T | 2 | 2 | B.1.369 | 0.00057 |
noncoding | 29683 | A29683- | A | - | 2 | 2 | B.1.427 | 0.000101 |
noncoding | 29683 | A29683G | A | G | 2 | 2 | P.1 | 0.000032 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | A.1 | 0.000282 |
noncoding | 29683 | A29683H | A | H | 1 | 1 | All | 0 |
noncoding | 29683 | A29683T | A | T | 1 | 1 | AY.100 | 0.000046 |
noncoding | 29683 | A29683G | A | G | 1 | 1 | AY.100 | 0.000046 |
noncoding | 29683 | A29683C | A | C | 1 | 1 | AY.103 | 0.000006 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.117 | 0.000085 |
noncoding | 29683 | A29683T | A | T | 1 | 1 | AY.119 | 0.000035 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.14 | 0.000088 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.16 | 0.00038 |
noncoding | 29683 | A29683T | A | T | 1 | 1 | AY.23 | 0.00007 |
noncoding | 29683 | A29683T | A | T | 1 | 1 | AY.23.1 | 0.000417 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.26 | 0.000028 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.29 | 0.000016 |
noncoding | 29683 | A29683G | A | G | 1 | 1 | AY.29 | 0.000016 |
noncoding | 29683 | A29683T | A | T | 1 | 1 | AY.4 | 0.000002 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.40 | 0.000964 |
noncoding | 29683 | A29683T | A | T | 1 | 1 | AY.42 | 0.00004 |
noncoding | 29683 | A29683G | A | G | 1 | 1 | AY.43 | 0.000004 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.45 | 0.000122 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.46.1 | 0.001027 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.46.6 | 0.000072 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.5 | 0.000021 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.5.3 | 0.000337 |
noncoding | 29683 | A29683G | A | G | 1 | 1 | AY.53 | 0.000288 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.53 | 0.000288 |
noncoding | 29683 | A29683G | A | G | 1 | 1 | AY.54 | 0.000095 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.62 | 0.000436 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.65 | 0.000533 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.7.2 | 0.000559 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.72 | 0.001361 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.75.1 | 0.00018 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.84 | 0.000437 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.89 | 0.004902 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.9 | 0.000068 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.90 | 0.000684 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.91 | 0.00073 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.92 | 0.000287 |
noncoding | 29683 | A29683G | A | G | 1 | 1 | AY.98.1 | 0.000048 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | AY.99 | 0.001049 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B | 0.000128 |
noncoding | 29683 | A29683C | A | C | 1 | 1 | B.1.1 | 0.000018 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.1.197 | 0.037037 |
noncoding | 29683 | A29683G | A | G | 1 | 1 | B.1.1.216 | 0.00089 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.1.218 | 0.007692 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.1.269 | 0.001353 |
noncoding | 29683 | A29683C | A | C | 1 | 1 | B.1.1.27 | 0.00565 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.1.277 | 0.000759 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.1.294 | 0.001266 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.1.33 | 0.000421 |
noncoding | 29683 | A29683T | A | T | 1 | 1 | B.1.1.33 | 0.000421 |
noncoding | 29683 | A29683C | A | C | 1 | 1 | B.1.1.7 | 0.000001 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.1.70 | 0.000341 |
noncoding | 29683 | A29683C | A | C | 1 | 1 | B.1.160 | 0.000031 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.160 | 0.000031 |
noncoding | 29683 | A29683T | A | T | 1 | 1 | B.1.160 | 0.000031 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.160.17 | 0.001701 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.177.35 | 0.000691 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.177.54 | 0.000606 |
noncoding | 29683 | A29683G | A | G | 1 | 1 | B.1.177.63 | 0.002703 |
noncoding | 29683 | A29683T | A | T | 1 | 1 | B.1.177.77 | 0.000726 |
noncoding | 29683 | A29683G | A | G | 1 | 1 | B.1.189 | 0.004292 |
noncoding | 29683 | A29683T | A | T | 1 | 1 | B.1.2 | 0.000009 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.213 | 0.014925 |
noncoding | 29683 | A29683G | A | G | 1 | 1 | B.1.214.2 | 0.0006 |
noncoding | 29683 | A29683H | A | H | 1 | 1 | B.1.221 | 0.000071 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.258.16 | 0.001637 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.298 | 0.002114 |
noncoding | 29683 | A29683G | A | G | 1 | 1 | B.1.351 | 0.00003 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.351 | 0.00003 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.356 | 0.001727 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.36.24 | 0.006173 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.380 | 0.006623 |
noncoding | 29683 | A29683G | A | G | 1 | 1 | B.1.429 | 0.000024 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.438.1 | 0.000107 |
noncoding | 29683 | A29683G | A | G | 1 | 1 | B.1.497 | 0.000315 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.517 | 0.000427 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.526 | 0.000024 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.549 | 0.007194 |
noncoding | 29683 | A29683C | A | C | 1 | 1 | B.1.617.1 | 0.000129 |
noncoding | 29683 | A29683T | A | T | 1 | 1 | B.1.617.2 | 0.000004 |
noncoding | 29683 | A29683G | A | G | 1 | 1 | B.1.619 | 0.000871 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.621 | 0.000089 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.1.637 | 0.000073 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | B.58 | 0.010204 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | C.37 | 0.000116 |
noncoding | 29683 | A29683T | A | T | 1 | 1 | C.37 | 0.000116 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | P.1.15 | 0.000232 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | P.1.17 | 0.000162 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | P.1.2 | 0.001156 |
noncoding | 29683 | A29683- | A | - | 1 | 1 | Q.1 | 0.000126 |
noncoding | 29683 | A29683- | A | - | 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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