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 | 940 | S940F | nonsyn | tCc | tTc | 4019 | 4013 | 0.998507 | 24380-24382 |
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 | 940 | S940F | tCc | tTc | 4013 | 4019 | All | 0.000768 |
S | 940 | S940F | tCc | tTc | 1292 | 1292 | B.1.1.7 | 0.001157 |
S | 940 | S940F | tCc | tTc | 516 | 516 | AY.4 | 0.000803 |
S | 940 | S940F | tCc | tTc | 428 | 428 | B.1.234 | 0.056472 |
S | 940 | S940F | tCc | tTc | 161 | 161 | B.1.617.2 | 0.000606 |
S | 940 | S940F | tCc | tTc | 124 | 124 | AY.13 | 0.019961 |
S | 940 | S940F | tCc | tTc | 116 | 116 | AY.43 | 0.000514 |
S | 940 | S940F | tCc | tTc | 75 | 76 | B.1.1 | 0.001361 |
S | 940 | S940F | tCc | tTc | 75 | 75 | AY.118 | 0.004699 |
S | 940 | S940F | tCc | tTc | 69 | 69 | B.1 | 0.000632 |
S | 940 | S940F | tCc | tTc | 66 | 66 | AY.103 | 0.00041 |
S | 940 | S940F | tCc | tTc | 62 | 62 | B.1.2 | 0.000546 |
S | 940 | S940F | tCc | tTc | 54 | 54 | AY.23 | 0.003766 |
S | 940 | S940F | tCc | tTc | 48 | 48 | B.1.258 | 0.003194 |
S | 940 | S940F | tCc | tTc | 45 | 45 | AY.44 | 0.000274 |
S | 940 | S940F | tCc | tTc | 44 | 44 | AY.25 | 0.000265 |
S | 940 | S940F | tCc | tTc | 34 | 34 | AY.9.1 | 0.002847 |
S | 940 | S940F | tCc | tTc | 32 | 32 | B.1.221 | 0.002273 |
S | 940 | S940F | tCc | tTc | 31 | 31 | B.1.160 | 0.000967 |
S | 940 | S940F | tCc | tTc | 29 | 29 | AY.3 | 0.000288 |
S | 940 | S940F | tCc | tTc | 28 | 28 | AY.29 | 0.000442 |
S | 940 | S940F | tCc | tTc | 27 | 27 | B.1.526 | 0.000635 |
S | 940 | S940F | tCc | tTc | 25 | 25 | AY.61 | 0.002619 |
S | 940 | S940F | tCc | tTc | 25 | 25 | B.1.1.374 | 0.059382 |
S | 940 | S940F | tCc | tTc | 24 | 24 | AY.100 | 0.001104 |
S | 940 | S940F | tCc | tTc | 22 | 22 | P.1 | 0.000347 |
S | 940 | S940F | tCc | tTc | 20 | 20 | AY.33 | 0.001336 |
S | 940 | S940F | tCc | tTc | 20 | 20 | B.1.177 | 0.000263 |
S | 940 | S940F | tCc | tTc | 16 | 16 | B.1.351 | 0.000476 |
S | 940 | S940F | tCc | tTc | 16 | 16 | B.1.429 | 0.000376 |
S | 940 | S940F | tCc | tTc | 14 | 14 | AY.6 | 0.000576 |
S | 940 | S940F | tCc | tTc | 14 | 14 | AY.9.2 | 0.000514 |
S | 940 | S940F | tCc | tTc | 13 | 13 | AY.75.1 | 0.002344 |
S | 940 | S940F | tCc | tTc | 12 | 12 | B.1.213 | 0.179104 |
S | 940 | S940F | tCc | tTc | 11 | 11 | AY.20 | 0.000428 |
S | 940 | S940F | tCc | tTc | 11 | 11 | B.1.1.519 | 0.000437 |
S | 940 | S940F | tCc | tTc | 11 | 11 | B.1.36 | 0.001605 |
S | 940 | S940F | tCc | tTc | 11 | 11 | B.1.637 | 0.000804 |
S | 940 | S940F | tCc | tTc | 10 | 10 | AY.102 | 0.000265 |
S | 940 | S940F | tCc | tTc | 10 | 10 | AY.39 | 0.000247 |
S | 940 | S940F | tCc | tTc | 10 | 10 | AY.4.2 | 0.000217 |
S | 940 | S940F | tCc | tTc | 10 | 10 | B.1.177.15 | 0.006309 |
S | 940 | S940F | tCc | tTc | 10 | 10 | B.1.351.3 | 0.008764 |
S | 940 | S940F | tCc | tTc | 8 | 8 | AY.46.4 | 0.001316 |
S | 940 | S940F | tCc | tTc | 8 | 8 | AY.5 | 0.000165 |
S | 940 | S940F | tCc | tTc | 8 | 8 | C.37 | 0.000929 |
S | 940 | S940F | tCc | tTc | 8 | 8 | D.2 | 0.0006 |
S | 940 | S940F | tCc | tTc | 7 | 7 | AY.36 | 0.001037 |
S | 940 | S940F | tCc | tTc | 7 | 7 | B.1.1.434 | 0.00244 |
S | 940 | S940F | tCc | tTc | 7 | 7 | B.1.427 | 0.000353 |
S | 940 | S940F | tCc | tTc | 6 | 6 | AY.45 | 0.00073 |
S | 940 | S940F | tCc | tTc | 6 | 6 | B.1.416.1 | 0.009375 |
S | 940 | S940F | tCc | tTc | 5 | 5 | A.1 | 0.001409 |
S | 940 | S940F | tCc | tTc | 5 | 5 | AY.119 | 0.000177 |
S | 940 | S940F | tCc | tTc | 5 | 5 | AY.121 | 0.000677 |
S | 940 | S940F | tCc | tTc | 5 | 5 | B.1.1.311 | 0.001791 |
S | 940 | S940F | tCc | tTc | 5 | 5 | B.1.177.65 | 0.003327 |
S | 940 | S940F | tCc | tTc | 5 | 5 | B.1.596 | 0.000436 |
S | 940 | S940F | tCc | tTc | 4 | 4 | AE.8 | 0.001956 |
S | 940 | S940F | tCc | tTc | 4 | 4 | AY.117 | 0.000338 |
S | 940 | S940F | tCc | tTc | 4 | 4 | AY.4.5 | 0.00043 |
S | 940 | S940F | tCc | tTc | 4 | 4 | AY.71 | 0.0019 |
S | 940 | S940F | tCc | tTc | 4 | 4 | AY.98.1 | 0.000194 |
S | 940 | S940F | tCc | tTc | 4 | 4 | B.1.1.39 | 0.002039 |
S | 940 | S940F | tCc | tTc | 4 | 4 | B.1.398 | 0.011905 |
S | 940 | S940F | tCc | tTc | 4 | 4 | B.1.628 | 0.001409 |
S | 940 | S940F | tCc | tTc | 3 | 3 | AY.108 | 0.003308 |
S | 940 | S940F | tCc | tTc | 3 | 3 | AY.111 | 0.000549 |
S | 940 | S940F | tCc | tTc | 3 | 3 | AY.116 | 0.00086 |
S | 940 | S940F | tCc | tTc | 3 | 3 | AY.116.1 | 0.000934 |
S | 940 | S940F | tCc | tTc | 3 | 3 | AY.26 | 0.000085 |
S | 940 | S940F | tCc | tTc | 3 | 3 | AY.34 | 0.000291 |
S | 940 | S940F | tCc | tTc | 3 | 3 | AY.42 | 0.000121 |
S | 940 | S940F | tCc | tTc | 3 | 3 | AY.47 | 0.000093 |
S | 940 | S940F | tCc | tTc | 3 | 3 | AY.75 | 0.000168 |
S | 940 | S940F | tCc | tTc | 3 | 3 | AY.85 | 0.001282 |
S | 940 | S940F | tCc | tTc | 3 | 3 | AY.99.2 | 0.000276 |
S | 940 | S940F | tCc | tTc | 3 | 3 | B.1.239 | 0.003663 |
S | 940 | S940F | tCc | tTc | 3 | 3 | B.1.241 | 0.002435 |
S | 940 | S940F | tCc | tTc | 3 | 3 | B.1.243 | 0.000209 |
S | 940 | S940F | tCc | tTc | 3 | 3 | B.1.369 | 0.000856 |
S | 940 | S940F | tCc | tTc | 3 | 3 | B.1.568 | 0.003333 |
S | 940 | S940F | tCc | tTc | 3 | 3 | B.1.8 | 0.005917 |
S | 940 | S940F | tCc | tTc | 3 | 3 | D.5 | 0.014925 |
S | 940 | S940F | tCc | tTc | 3 | 3 | P.1.10 | 0.000808 |
S | 940 | S940F | tCc | tTc | 3 | 3 | P.1.14 | 0.000143 |
S | 940 | S940F | tCc | tTc | 3 | 3 | Q.1 | 0.000379 |
S | 940 | S940F | tCc | tTc | 2 | 2 | 0.111111 | |
S | 940 | S940F | tCc | tTc | 2 | 2 | AD.2 | 0.000438 |
S | 940 | S940F | tCc | tTc | 2 | 2 | AU.3 | 0.004219 |
S | 940 | S940F | tCc | tTc | 2 | 2 | AY.110 | 0.000225 |
S | 940 | S940F | tCc | tTc | 2 | 2 | AY.120 | 0.000074 |
S | 940 | S940F | tCc | tTc | 2 | 2 | AY.32 | 0.001065 |
S | 940 | S940F | tCc | tTc | 2 | 2 | AY.39.1 | 0.000079 |
S | 940 | S940F | tCc | tTc | 2 | 2 | AY.5.3 | 0.000675 |
S | 940 | S940F | tCc | tTc | 2 | 2 | AY.98 | 0.000158 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.1.107 | 0.064516 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.1.214 | 0.000111 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.1.216 | 0.001781 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.1.222 | 0.000408 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.1.241 | 0.004141 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.1.301 | 0.002358 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.1.348 | 0.001592 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.1.48 | 0.005747 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.1.63 | 0.000772 |
S | 940 | S940F | tCc | tTc | 1 | 2 | B.1.111 | 0.001175 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.177.81 | 0.000379 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.258.14 | 0.001961 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.258.17 | 0.000208 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.36.1 | 0.002281 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.389 | 0.002004 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.408 | 0.00738 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.420 | 0.020833 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.459 | 0.008163 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.466.2 | 0.000782 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.588 | 0.00182 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.609 | 0.000959 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.617.1 | 0.000258 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.1.621 | 0.000177 |
S | 940 | S940F | tCc | tTc | 2 | 2 | B.4 | 0.004415 |
S | 940 | S940F | tCc | tTc | 2 | 2 | N.5 | 0.003534 |
S | 940 | S940F | tCc | tTc | 2 | 2 | P.2 | 0.000373 |
S | 940 | S940F | tCc | tTc | 1 | 1 | A.2 | 0.000662 |
S | 940 | S940F | tCc | tTc | 1 | 1 | A.5 | 0.001923 |
S | 940 | S940F | tCc | tTc | 1 | 1 | AY.1 | 0.000396 |
S | 940 | S940F | tCc | tTc | 1 | 1 | AY.106 | 0.000335 |
S | 940 | S940F | tCc | tTc | 1 | 1 | AY.113 | 0.000142 |
S | 940 | S940F | tCc | tTc | 1 | 1 | AY.115 | 0.005208 |
S | 940 | S940F | tCc | tTc | 1 | 1 | AY.19 | 0.00114 |
S | 940 | S940F | tCc | tTc | 1 | 1 | AY.22 | 0.002092 |
S | 940 | S940F | tCc | tTc | 1 | 1 | AY.35 | 0.000233 |
S | 940 | S940F | tCc | tTc | 1 | 1 | AY.39.1.1 | 0.000725 |
S | 940 | S940F | tCc | tTc | 1 | 1 | AY.46.5 | 0.000198 |
S | 940 | S940F | tCc | tTc | 1 | 1 | AY.55 | 0.000917 |
S | 940 | S940F | tCc | tTc | 1 | 1 | AY.62 | 0.000436 |
S | 940 | S940F | tCc | tTc | 1 | 1 | AY.68 | 0.000274 |
S | 940 | S940F | tCc | tTc | 1 | 1 | AY.69 | 0.000187 |
S | 940 | S940F | tCc | tTc | 1 | 1 | AY.83 | 0.001724 |
S | 940 | S940F | tCc | tTc | 1 | 1 | AY.97 | 0.001701 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.138 | 0.006061 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.149 | 0.016393 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.153 | 0.001095 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.157 | 0.000913 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.186 | 0.003436 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.209 | 0.008929 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.210 | 0.005714 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.25 | 0.000569 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.28 | 0.000311 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.291 | 0.000742 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.294 | 0.001266 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.336 | 0.016667 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.344 | 0.010753 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.362 | 0.005618 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.369 | 0.000446 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.37 | 0.000193 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.372 | 0.000689 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.409 | 0.002833 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.420 | 0.001006 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.423 | 0.0625 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.484 | 0.1 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.50 | 0.000679 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.1.70 | 0.000341 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.139 | 0.000733 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.157 | 0.002985 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.177.21 | 0.000076 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.177.4 | 0.000211 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.177.42 | 0.000894 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.177.57 | 0.000281 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.177.60 | 0.000218 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.177.68 | 0.015152 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.181 | 0.019608 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.208 | 0.04 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.240 | 0.000216 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.252 | 0.006623 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.254 | 0.025 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.289 | 0.00266 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.311 | 0.000275 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.36.20 | 0.016949 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.36.35 | 0.002604 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.36.8 | 0.001 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.377 | 0.004566 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.438.1 | 0.000107 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.471 | 0.002732 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.503 | 0.002488 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.517 | 0.000427 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.525 | 0.000113 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.538 | 0.008065 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.595 | 0.000261 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.595.4 | 0.007299 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.618 | 0.004032 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.1.625 | 0.002353 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.3.1 | 0.001658 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.40 | 0.000364 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.41 | 0.008 |
S | 940 | S940F | tCc | tTc | 1 | 1 | B.45 | 0.003831 |
S | 940 | S940F | tCc | tTc | 1 | 1 | C.1.2 | 0.004255 |
S | 940 | S940F | tCc | tTc | 1 | 1 | C.11 | 0.010638 |
S | 940 | S940F | tCc | tTc | 1 | 1 | C.16 | 0.00106 |
S | 940 | S940F | tCc | tTc | 1 | 1 | C.23 | 0.005814 |
S | 940 | S940F | tCc | tTc | 1 | 1 | C.30 | 0.001727 |
S | 940 | S940F | tCc | tTc | 1 | 1 | P.1.15 | 0.000232 |
S | 940 | S940F | tCc | tTc | 1 | 1 | Q.3 | 0.000145 |
S | 940 | S940F | tCc | tTc | 1 | 1 | Q.8 | 0.000165 |
S | 940 | S940F | tCc | tTc | 1 | 1 | R.1 | 0.00009 |
S | 940 | S940F | tCc | tTc | 1 | 1 | W.1 | 0.008696 |
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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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