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 | 180 | S180I | nonsyn | aGt | aTt | 1635 | 1634 | 0.999388 | 28811-28813 | |
N | 180 | S180I | nonsyn | aGT | aTC | 1635 | 1 | 0.000611621 | 28811-28813 | |
N | 180 | S180S | syn | agT | agC | 612 | 612 | 1 | 28811-28813 | |
N | 180 | S180T | nonsyn | aGt | aCt | 407 | 407 | 1 | 28811-28813 | |
N | 180 | S180N | nonsyn | aGt | aAt | 166 | 160 | 0.963855 | 28811-28813 | |
N | 180 | S180N | nonsyn | aGT | aAC | 166 | 6 | 0.0361446 | 28811-28813 | |
N | 180 | S180G | nonsyn | Agt | Ggt | 97 | 96 | 0.989691 | 28811-28813 | |
N | 180 | S180G | nonsyn | AgT | GgG | 97 | 1 | 0.0103093 | 28811-28813 | |
N | 180 | S180del | del | AGT | --- | 59 | 59 | 1 | 28811-28813 | |
N | 180 | S180C | nonsyn | Agt | Tgt | 49 | 49 | 1 | 28811-28813 | |
N | 180 | S180R | nonsyn | agT | agG | 48 | 36 | 0.75 | 28811-28813 | |
N | 180 | S180R | nonsyn | Agt | Cgt | 48 | 8 | 0.166667 | 28811-28813 | |
N | 180 | S180R | nonsyn | agT | agA | 48 | 3 | 0.0625 | 28811-28813 | |
N | 180 | S180R | nonsyn | AgT | CgA | 48 | 1 | 0.0208333 | 28811-28813 | |
N | 180 | S180del2 | del | AGt | --t | 3 | 2 | 0.666667 | 28811-28813 | |
N | 180 | S180del2 | del | AGT | --N | 3 | 1 | 0.333333 | 28811-28813 | |
N | 180 | S180del1 | del | Agt | -gt | 2 | 2 | 1 | 28811-28813 | |
N | 180 | S180D | nonsyn | AGt | GAt | 1 | 1 | 1 | 28811-28813 | |
N | 180 | S180F | nonsyn | AGt | TTt | 1 | 1 | 1 | 28811-28813 | |
N | 180 | S180K | nonsyn | aGT | aAG | 1 | 1 | 1 | 28811-28813 |
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 |
N | 180 | S180I | aGt | aTt | 1634 | 1635 | All | 0.000313 |
N | 180 | S180I | aGT | aTC | 1 | 1635 | All | 0 |
N | 180 | S180S | agT | agC | 612 | 612 | All | 0.000117 |
N | 180 | S180T | aGt | aCt | 407 | 407 | All | 0.000078 |
N | 180 | S180I | aGt | aTt | 193 | 193 | B.1.258 | 0.012844 |
N | 180 | S180N | aGt | aAt | 160 | 166 | All | 0.000031 |
N | 180 | S180N | aGT | aAC | 6 | 166 | All | 0.000001 |
N | 180 | S180S | agT | agC | 156 | 156 | B.1.258.17 | 0.01622 |
N | 180 | S180I | aGt | aTt | 149 | 149 | AY.4 | 0.000232 |
N | 180 | S180I | aGt | aTt | 116 | 116 | A.1 | 0.032694 |
N | 180 | S180I | aGt | aTt | 115 | 115 | AY.43 | 0.00051 |
N | 180 | S180I | aGt | aTt | 108 | 109 | B.1.1.7 | 0.000097 |
N | 180 | S180I | aGT | aTC | 1 | 109 | B.1.1.7 | 0.000001 |
N | 180 | S180I | aGt | aTt | 108 | 108 | B.1 | 0.000989 |
N | 180 | S180S | agT | agC | 107 | 107 | B.1.1.7 | 0.000096 |
N | 180 | S180S | agT | agC | 98 | 98 | B.1.621.1 | 0.04957 |
N | 180 | S180G | Agt | Ggt | 96 | 97 | All | 0.000018 |
N | 180 | S180G | AgT | GgG | 1 | 97 | All | 0 |
N | 180 | S180I | aGt | aTt | 79 | 79 | AY.25 | 0.000475 |
N | 180 | S180I | aGt | aTt | 68 | 68 | B.1.617.2 | 0.000256 |
N | 180 | S180T | aGt | aCt | 65 | 65 | B.1.293 | 0.8125 |
N | 180 | S180T | aGt | aCt | 63 | 63 | AY.4 | 0.000098 |
N | 180 | S180del | AGT | --- | 59 | 59 | All | 0.000011 |
N | 180 | S180S | agT | agC | 51 | 51 | AY.20 | 0.001982 |
N | 180 | S180C | Agt | Tgt | 49 | 49 | All | 0.000009 |
N | 180 | S180R | agT | agG | 36 | 48 | All | 0.000007 |
N | 180 | S180R | Agt | Cgt | 8 | 48 | All | 0.000002 |
N | 180 | S180R | agT | agA | 3 | 48 | All | 0.000001 |
N | 180 | S180R | AgT | CgA | 1 | 48 | All | 0 |
N | 180 | S180I | aGt | aTt | 46 | 46 | AY.26 | 0.001302 |
N | 180 | S180N | aGt | aAt | 41 | 41 | B.1.617.2 | 0.000154 |
N | 180 | S180I | aGt | aTt | 38 | 38 | B.1.1.519 | 0.001509 |
N | 180 | S180G | Agt | Ggt | 38 | 38 | B.1.1.7 | 0.000034 |
N | 180 | S180I | aGt | aTt | 36 | 36 | AY.54 | 0.003432 |
N | 180 | S180T | aGt | aCt | 36 | 36 | B.1.258 | 0.002396 |
N | 180 | S180T | aGt | aCt | 35 | 35 | B.1.1.7 | 0.000031 |
N | 180 | S180T | aGt | aCt | 29 | 29 | B.1.356 | 0.050086 |
N | 180 | S180S | agT | agC | 28 | 28 | AY.3 | 0.000278 |
N | 180 | S180I | aGt | aTt | 24 | 24 | AY.103 | 0.000149 |
N | 180 | S180I | aGt | aTt | 22 | 22 | AY.45 | 0.002677 |
N | 180 | S180I | aGt | aTt | 20 | 20 | AY.29 | 0.000315 |
N | 180 | S180T | aGt | aCt | 20 | 20 | AY.3 | 0.000199 |
N | 180 | S180I | aGt | aTt | 20 | 20 | B.1.358 | 1 |
N | 180 | S180S | agT | agC | 19 | 19 | AY.43 | 0.000084 |
N | 180 | S180I | aGt | aTt | 19 | 19 | B.1.160 | 0.000593 |
N | 180 | S180S | agT | agC | 19 | 19 | B.1.617.2 | 0.000072 |
N | 180 | S180I | aGt | aTt | 17 | 17 | AY.42 | 0.000684 |
N | 180 | S180I | aGt | aTt | 17 | 17 | AY.6 | 0.000699 |
N | 180 | S180N | aGt | aAt | 16 | 17 | B.1 | 0.000147 |
N | 180 | S180N | aGT | aAC | 1 | 17 | B.1 | 0.000009 |
N | 180 | S180I | aGt | aTt | 17 | 17 | B.1.1 | 0.000308 |
N | 180 | S180N | aGt | aAt | 16 | 16 | AY.4 | 0.000025 |
N | 180 | S180I | aGt | aTt | 15 | 15 | AY.109 | 0.011095 |
N | 180 | S180I | aGt | aTt | 15 | 15 | AY.67 | 0.006964 |
N | 180 | S180I | aGt | aTt | 15 | 15 | B.1.2 | 0.000132 |
N | 180 | S180S | agT | agC | 13 | 13 | AY.4 | 0.00002 |
N | 180 | S180G | Agt | Ggt | 13 | 13 | B.1 | 0.000119 |
N | 180 | S180del | AGT | --- | 13 | 13 | B.1 | 0.000119 |
N | 180 | S180I | aGt | aTt | 12 | 12 | AY.44 | 0.000073 |
N | 180 | S180S | agT | agC | 12 | 12 | AY.44 | 0.000073 |
N | 180 | S180I | aGt | aTt | 12 | 12 | B.1.1.112 | 0.705882 |
N | 180 | S180R | agT | agG | 12 | 12 | B.1.617.2 | 0.000045 |
N | 180 | S180I | aGt | aTt | 11 | 11 | AY.7 | 0.002156 |
N | 180 | S180N | aGt | aAt | 11 | 11 | B.1.1.7 | 0.00001 |
N | 180 | S180del | AGT | --- | 11 | 11 | B.1.1.7 | 0.00001 |
N | 180 | S180I | aGt | aTt | 11 | 11 | B.1.617.1 | 0.001419 |
N | 180 | S180I | aGt | aTt | 11 | 11 | P.1 | 0.000173 |
N | 180 | S180R | agT | agG | 10 | 10 | AY.75.1 | 0.001803 |
N | 180 | S180T | aGt | aCt | 10 | 10 | AY.9.2 | 0.000367 |
N | 180 | S180T | aGt | aCt | 10 | 10 | B.1 | 0.000092 |
N | 180 | S180T | aGt | aCt | 10 | 10 | B.1.1.274 | 0.050505 |
N | 180 | S180T | aGt | aCt | 10 | 10 | B.1.617.2 | 0.000038 |
N | 180 | S180I | aGt | aTt | 10 | 10 | B.3 | 0.008306 |
N | 180 | S180S | agT | agC | 9 | 9 | AY.25 | 0.000054 |
N | 180 | S180I | aGt | aTt | 9 | 9 | AY.5 | 0.000186 |
N | 180 | S180N | aGt | aAt | 9 | 9 | AY.61 | 0.000943 |
N | 180 | S180I | aGt | aTt | 9 | 9 | AY.61 | 0.000943 |
N | 180 | S180I | aGt | aTt | 9 | 9 | B.1.147 | 0.006803 |
N | 180 | S180T | aGt | aCt | 8 | 8 | AY.25 | 0.000048 |
N | 180 | S180T | aGt | aCt | 8 | 8 | AY.42 | 0.000322 |
N | 180 | S180I | aGt | aTt | 8 | 8 | B.1.1.302 | 0.016598 |
N | 180 | S180I | aGt | aTt | 8 | 8 | B.1.177 | 0.000105 |
N | 180 | S180I | aGt | aTt | 7 | 7 | AC.1 | 0.259259 |
N | 180 | S180T | aGt | aCt | 7 | 7 | AY.103 | 0.000043 |
N | 180 | S180I | aGt | aTt | 7 | 7 | AY.119 | 0.000247 |
N | 180 | S180C | Agt | Tgt | 7 | 7 | AY.4 | 0.000011 |
N | 180 | S180I | aGt | aTt | 7 | 7 | B.1.177.86 | 0.001284 |
N | 180 | S180S | agT | agC | 7 | 7 | B.1.2 | 0.000062 |
N | 180 | S180T | aGt | aCt | 7 | 7 | B.1.2 | 0.000062 |
N | 180 | S180T | aGt | aCt | 7 | 7 | B.1.221 | 0.000497 |
N | 180 | S180T | aGt | aCt | 7 | 7 | B.1.349 | 0.005004 |
N | 180 | S180I | aGt | aTt | 7 | 7 | B.1.351 | 0.000208 |
N | 180 | S180N | aGt | aAt | 7 | 7 | B.1.492 | 0.049296 |
N | 180 | S180I | aGt | aTt | 7 | 7 | P.1.17 | 0.001132 |
N | 180 | S180I | aGt | aTt | 6 | 6 | AY.3 | 0.00006 |
N | 180 | S180S | agT | agC | 6 | 6 | B.1 | 0.000055 |
N | 180 | S180N | aGt | aAt | 6 | 6 | B.1.1 | 0.000109 |
N | 180 | S180I | aGt | aTt | 6 | 6 | B.1.232 | 0.003224 |
N | 180 | S180I | aGt | aTt | 6 | 6 | B.1.429 | 0.000141 |
N | 180 | S180I | aGt | aTt | 6 | 6 | C.37 | 0.000696 |
N | 180 | S180I | aGt | aTt | 5 | 5 | AY.100 | 0.00023 |
N | 180 | S180G | Agt | Ggt | 5 | 5 | AY.102 | 0.000133 |
N | 180 | S180S | agT | agC | 5 | 5 | AY.102 | 0.000133 |
N | 180 | S180C | Agt | Tgt | 5 | 5 | AY.25 | 0.00003 |
N | 180 | S180N | aGt | aAt | 4 | 5 | AY.3 | 0.00004 |
N | 180 | S180N | aGT | aAC | 1 | 5 | AY.3 | 0.00001 |
N | 180 | S180I | aGt | aTt | 5 | 5 | AY.71 | 0.002375 |
N | 180 | S180G | Agt | Ggt | 5 | 5 | AY.75 | 0.00028 |
N | 180 | S180N | aGt | aAt | 5 | 5 | AY.75.1 | 0.000902 |
N | 180 | S180R | Agt | Cgt | 4 | 5 | B.1 | 0.000037 |
N | 180 | S180R | agT | agG | 1 | 5 | B.1 | 0.000009 |
N | 180 | S180S | agT | agC | 5 | 5 | B.1.1 | 0.000091 |
N | 180 | S180I | aGt | aTt | 5 | 5 | B.1.1.311 | 0.001791 |
N | 180 | S180T | aGt | aCt | 5 | 5 | B.1.177 | 0.000066 |
N | 180 | S180N | aGt | aAt | 5 | 5 | B.1.258 | 0.000333 |
N | 180 | S180I | aGt | aTt | 5 | 5 | B.1.595 | 0.001305 |
N | 180 | S180G | Agt | Ggt | 5 | 5 | B.1.617.2 | 0.000019 |
N | 180 | S180I | aGt | aTt | 5 | 5 | D.2 | 0.000375 |
N | 180 | S180I | aGt | aTt | 4 | 4 | AY.102 | 0.000106 |
N | 180 | S180G | Agt | Ggt | 4 | 4 | AY.103 | 0.000025 |
N | 180 | S180N | aGt | aAt | 4 | 4 | AY.103 | 0.000025 |
N | 180 | S180I | aGt | aTt | 4 | 4 | AY.16.1 | 0.00188 |
N | 180 | S180N | aGt | aAt | 4 | 4 | AY.39 | 0.000099 |
N | 180 | S180R | Agt | Cgt | 3 | 4 | AY.4 | 0.000005 |
N | 180 | S180R | AgT | CgA | 1 | 4 | AY.4 | 0.000002 |
N | 180 | S180N | aGt | aAt | 4 | 4 | AY.67 | 0.001857 |
N | 180 | S180T | aGt | aCt | 4 | 4 | AY.99.2 | 0.000369 |
N | 180 | S180I | aGt | aTt | 4 | 4 | B.1.1.17 | 0.066667 |
N | 180 | S180I | aGt | aTt | 4 | 4 | B.1.160.10 | 0.032258 |
N | 180 | S180S | agT | agC | 4 | 4 | B.1.160.14 | 0.008475 |
N | 180 | S180I | aGt | aTt | 4 | 4 | B.1.466.2 | 0.001565 |
N | 180 | S180I | aGt | aTt | 4 | 4 | B.1.474 | 0.007605 |
N | 180 | S180I | aGt | aTt | 4 | 4 | B.1.526 | 0.000094 |
N | 180 | S180I | aGt | aTt | 4 | 4 | B.1.609 | 0.001918 |
N | 180 | S180R | agT | agG | 4 | 4 | B.1.609 | 0.001918 |
N | 180 | S180S | agT | agC | 4 | 4 | B.1.637 | 0.000292 |
N | 180 | S180S | agT | agC | 4 | 4 | P.1 | 0.000063 |
N | 180 | S180I | aGt | aTt | 3 | 3 | A.3 | 0.006289 |
N | 180 | S180del2 | AGt | --t | 2 | 3 | All | 0 |
N | 180 | S180del2 | AGT | --N | 1 | 3 | All | 0 |
N | 180 | S180I | aGt | aTt | 3 | 3 | AY.13 | 0.000483 |
N | 180 | S180I | aGt | aTt | 3 | 3 | AY.14 | 0.000264 |
N | 180 | S180G | Agt | Ggt | 3 | 3 | AY.25 | 0.000018 |
N | 180 | S180N | aGt | aAt | 3 | 3 | AY.26 | 0.000085 |
N | 180 | S180G | Agt | Ggt | 3 | 3 | AY.30 | 0.001187 |
N | 180 | S180I | aGt | aTt | 3 | 3 | AY.36 | 0.000445 |
N | 180 | S180I | aGt | aTt | 3 | 3 | AY.37 | 0.000948 |
N | 180 | S180I | aGt | aTt | 3 | 3 | AY.4.2.1 | 0.000447 |
N | 180 | S180T | aGt | aCt | 3 | 3 | AY.43 | 0.000013 |
N | 180 | S180G | Agt | Ggt | 3 | 3 | AY.44 | 0.000018 |
N | 180 | S180T | aGt | aCt | 3 | 3 | AY.44 | 0.000018 |
N | 180 | S180T | aGt | aCt | 3 | 3 | AY.46.5 | 0.000595 |
N | 180 | S180I | aGt | aTt | 3 | 3 | AY.55 | 0.002752 |
N | 180 | S180I | aGt | aTt | 3 | 3 | AY.9 | 0.000203 |
N | 180 | S180C | Agt | Tgt | 3 | 3 | B.1 | 0.000027 |
N | 180 | S180C | Agt | Tgt | 3 | 3 | B.1.1 | 0.000054 |
N | 180 | S180I | aGt | aTt | 3 | 3 | B.1.1.214 | 0.000166 |
N | 180 | S180T | aGt | aCt | 3 | 3 | B.1.1.214 | 0.000166 |
N | 180 | S180I | aGt | aTt | 3 | 3 | B.1.1.222 | 0.000612 |
N | 180 | S180S | agT | agC | 3 | 3 | B.1.1.63 | 0.001157 |
N | 180 | S180T | aGt | aCt | 3 | 3 | B.1.160 | 0.000094 |
N | 180 | S180N | aGt | aAt | 3 | 3 | B.1.160 | 0.000094 |
N | 180 | S180N | aGt | aAt | 3 | 3 | B.1.2 | 0.000026 |
N | 180 | S180G | Agt | Ggt | 3 | 3 | B.1.258 | 0.0002 |
N | 180 | S180I | aGt | aTt | 3 | 3 | B.1.413 | 0.012766 |
N | 180 | S180C | Agt | Tgt | 3 | 3 | B.1.427 | 0.000151 |
N | 180 | S180I | aGt | aTt | 3 | 3 | B.1.427 | 0.000151 |
N | 180 | S180I | aGt | aTt | 3 | 3 | B.1.590 | 0.013636 |
N | 180 | S180T | aGt | aCt | 3 | 3 | B.1.617.1 | 0.000387 |
N | 180 | S180N | aGt | aAt | 3 | 3 | B.1.621 | 0.000266 |
N | 180 | S180S | agT | agC | 3 | 3 | B.1.621 | 0.000266 |
N | 180 | S180T | aGt | aCt | 3 | 3 | C.37 | 0.000348 |
N | 180 | S180S | agT | agC | 3 | 3 | C.37 | 0.000348 |
N | 180 | S180R | agT | agG | 2 | 2 | 0.111111 | |
N | 180 | S180del1 | Agt | -gt | 2 | 2 | All | 0 |
N | 180 | S180S | agT | agC | 2 | 2 | AY.103 | 0.000012 |
N | 180 | S180I | aGt | aTt | 2 | 2 | AY.117 | 0.000169 |
N | 180 | S180S | agT | agC | 2 | 2 | AY.23 | 0.000139 |
N | 180 | S180T | aGt | aCt | 2 | 2 | AY.29 | 0.000032 |
N | 180 | S180I | aGt | aTt | 2 | 2 | AY.33 | 0.000134 |
N | 180 | S180I | aGt | aTt | 2 | 2 | AY.35 | 0.000466 |
N | 180 | S180I | aGt | aTt | 2 | 2 | AY.39 | 0.000049 |
N | 180 | S180T | aGt | aCt | 2 | 2 | AY.39 | 0.000049 |
N | 180 | S180G | Agt | Ggt | 2 | 2 | AY.4 | 0.000003 |
N | 180 | S180I | aGt | aTt | 2 | 2 | AY.4.2 | 0.000043 |
N | 180 | S180T | aGt | aCt | 2 | 2 | AY.4.2.1 | 0.000298 |
N | 180 | S180del | AGT | --- | 2 | 2 | AY.40 | 0.001929 |
N | 180 | S180C | Agt | Tgt | 2 | 2 | AY.43 | 0.000009 |
N | 180 | S180del | AGT | --- | 2 | 2 | AY.43 | 0.000009 |
N | 180 | S180S | agT | agC | 2 | 2 | AY.46.6 | 0.000144 |
N | 180 | S180C | Agt | Tgt | 2 | 2 | AY.47 | 0.000062 |
N | 180 | S180T | aGt | aCt | 2 | 2 | AY.47 | 0.000062 |
N | 180 | S180del | AGT | --- | 2 | 2 | AY.50 | 0.001599 |
N | 180 | S180I | aGt | aTt | 2 | 2 | AY.70 | 0.000417 |
N | 180 | S180S | agT | agC | 2 | 2 | AY.75.1 | 0.000361 |
N | 180 | S180S | agT | agC | 2 | 2 | AY.9.1 | 0.000167 |
N | 180 | S180N | aGT | aAC | 2 | 2 | AY.9.2 | 0.000073 |
N | 180 | S180C | Agt | Tgt | 2 | 2 | AY.98.1 | 0.000097 |
N | 180 | S180I | aGt | aTt | 2 | 2 | AY.98.1 | 0.000097 |
N | 180 | S180I | aGt | aTt | 2 | 2 | AY.99.2 | 0.000184 |
N | 180 | S180T | aGt | aCt | 2 | 2 | B | 0.000256 |
N | 180 | S180del | AGT | --- | 2 | 2 | B.1.1 | 0.000036 |
N | 180 | S180T | aGt | aCt | 2 | 2 | B.1.1 | 0.000036 |
N | 180 | S180G | Agt | Ggt | 2 | 2 | B.1.1.1 | 0.000653 |
N | 180 | S180del | AGT | --- | 2 | 2 | B.1.1.28 | 0.000622 |
N | 180 | S180I | aGt | aTt | 2 | 2 | B.1.1.318 | 0.000604 |
N | 180 | S180I | aGt | aTt | 2 | 2 | B.1.1.39 | 0.001019 |
N | 180 | S180N | aGt | aAt | 2 | 2 | B.1.1.409 | 0.005666 |
N | 180 | S180I | aGt | aTt | 2 | 2 | B.1.1.50 | 0.001358 |
N | 180 | S180I | aGt | aTt | 2 | 2 | B.1.1.70 | 0.000682 |
N | 180 | S180del | AGT | --- | 2 | 2 | B.1.177 | 0.000026 |
N | 180 | S180G | Agt | Ggt | 2 | 2 | B.1.177 | 0.000026 |
N | 180 | S180T | aGt | aCt | 2 | 2 | B.1.243 | 0.000139 |
N | 180 | S180T | aGt | aCt | 2 | 2 | B.1.336 | 0.004878 |
N | 180 | S180C | Agt | Tgt | 2 | 2 | B.1.351 | 0.000059 |
N | 180 | S180S | agT | agC | 2 | 2 | B.1.351 | 0.000059 |
N | 180 | S180I | aGt | aTt | 2 | 2 | B.1.438.1 | 0.000215 |
N | 180 | S180T | aGt | aCt | 2 | 2 | B.1.438.1 | 0.000215 |
N | 180 | S180I | aGt | aTt | 2 | 2 | B.1.497 | 0.00063 |
N | 180 | S180I | aGt | aTt | 2 | 2 | B.1.621 | 0.000177 |
N | 180 | S180I | aGt | aTt | 2 | 2 | B.1.637 | 0.000146 |
N | 180 | S180I | aGt | aTt | 2 | 2 | B.42 | 0.066667 |
N | 180 | S180I | aGt | aTt | 2 | 2 | C.16 | 0.002121 |
N | 180 | S180I | aGt | aTt | 2 | 2 | C.35 | 0.001548 |
N | 180 | S180N | aGt | aAt | 2 | 2 | C.36.3 | 0.001134 |
N | 180 | S180del | AGT | --- | 2 | 2 | C.37.1 | 0.005236 |
N | 180 | S180I | aGt | aTt | 2 | 2 | P.1.10 | 0.000539 |
N | 180 | S180I | aGt | aTt | 2 | 2 | Q.1 | 0.000253 |
N | 180 | S180I | aGt | aTt | 2 | 2 | R.1 | 0.00018 |
N | 180 | S180N | aGt | aAt | 1 | 1 | 0.055556 | |
N | 180 | S180K | aGT | aAG | 1 | 1 | 0.055556 | |
N | 180 | S180I | aGt | aTt | 1 | 1 | A | 0.000387 |
N | 180 | S180S | agT | agC | 1 | 1 | A.1 | 0.000282 |
N | 180 | S180T | aGt | aCt | 1 | 1 | A.2.4 | 0.003367 |
N | 180 | S180I | aGt | aTt | 1 | 1 | A.2.5 | 0.000499 |
N | 180 | S180I | aGt | aTt | 1 | 1 | A.5 | 0.001923 |
N | 180 | S180S | agT | agC | 1 | 1 | AD.2 | 0.000219 |
N | 180 | S180K | aGT | aAG | 1 | 1 | All | 0 |
N | 180 | S180D | AGt | GAt | 1 | 1 | All | 0 |
N | 180 | S180F | AGt | TTt | 1 | 1 | All | 0 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AU.2 | 0.002421 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AW.1 | 0.003049 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.100 | 0.000046 |
N | 180 | S180T | aGt | aCt | 1 | 1 | AY.100 | 0.000046 |
N | 180 | S180del | AGT | --- | 1 | 1 | AY.102 | 0.000027 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | AY.103 | 0.000006 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.107 | 0.000466 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.108 | 0.001103 |
N | 180 | S180N | aGT | aAC | 1 | 1 | AY.110 | 0.000113 |
N | 180 | S180T | aGt | aCt | 1 | 1 | AY.110 | 0.000113 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.111 | 0.000183 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.116.1 | 0.000311 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.12 | 0.000316 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.120 | 0.000037 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.121 | 0.000135 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.14 | 0.000088 |
N | 180 | S180T | aGt | aCt | 1 | 1 | AY.16 | 0.00038 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.16 | 0.00038 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.16 | 0.00038 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.2 | 0.000356 |
N | 180 | S180R | agT | agA | 1 | 1 | AY.23 | 0.00007 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.24 | 0.000431 |
N | 180 | S180R | agT | agG | 1 | 1 | AY.25 | 0.000006 |
N | 180 | S180del | AGT | --- | 1 | 1 | AY.25 | 0.000006 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.26 | 0.000028 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | AY.26 | 0.000028 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.27 | 0.000065 |
N | 180 | S180G | Agt | Ggt | 1 | 1 | AY.29 | 0.000016 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | AY.29 | 0.000016 |
N | 180 | S180del1 | Agt | -gt | 1 | 1 | AY.29 | 0.000016 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.29 | 0.000016 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.29.1 | 0.000221 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | AY.3 | 0.00001 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.3.1 | 0.000085 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.30 | 0.000396 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.32 | 0.000532 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.33 | 0.000067 |
N | 180 | S180R | agT | agG | 1 | 1 | AY.33 | 0.000067 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.34 | 0.000097 |
N | 180 | S180G | Agt | Ggt | 1 | 1 | AY.35 | 0.000233 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.36 | 0.000148 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.39 | 0.000025 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.4.2 | 0.000022 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.4.5 | 0.000107 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.40 | 0.000964 |
N | 180 | S180N | aGt | aAt | 1 | 1 | AY.42 | 0.00004 |
N | 180 | S180G | Agt | Ggt | 1 | 1 | AY.43 | 0.000004 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | AY.44 | 0.000006 |
N | 180 | S180N | aGt | aAt | 1 | 1 | AY.44 | 0.000006 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.45 | 0.000122 |
N | 180 | S180T | aGt | aCt | 1 | 1 | AY.45 | 0.000122 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.46 | 0.000104 |
N | 180 | S180del | AGT | --- | 1 | 1 | AY.46 | 0.000104 |
N | 180 | S180T | aGt | aCt | 1 | 1 | AY.46 | 0.000104 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.46 | 0.000104 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.46.4 | 0.000165 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.46.6 | 0.000072 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.47 | 0.000031 |
N | 180 | S180T | aGt | aCt | 1 | 1 | AY.5 | 0.000021 |
N | 180 | S180del | AGT | --- | 1 | 1 | AY.5 | 0.000021 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.5.4 | 0.000277 |
N | 180 | S180T | aGt | aCt | 1 | 1 | AY.52 | 0.000814 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.53 | 0.000288 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | AY.54 | 0.000095 |
N | 180 | S180T | aGt | aCt | 1 | 1 | AY.55 | 0.000917 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.55 | 0.000917 |
N | 180 | S180N | aGt | aAt | 1 | 1 | AY.6 | 0.000041 |
N | 180 | S180F | AGt | TTt | 1 | 1 | AY.6 | 0.000041 |
N | 180 | S180G | AgT | GgG | 1 | 1 | AY.62 | 0.000436 |
N | 180 | S180T | aGt | aCt | 1 | 1 | AY.65 | 0.000533 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.72 | 0.001361 |
N | 180 | S180N | aGT | aAC | 1 | 1 | AY.75 | 0.000056 |
N | 180 | S180del | AGT | --- | 1 | 1 | AY.75 | 0.000056 |
N | 180 | S180T | aGt | aCt | 1 | 1 | AY.75 | 0.000056 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.75.1 | 0.00018 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.77 | 0.001127 |
N | 180 | S180S | agT | agC | 1 | 1 | AY.86 | 0.00083 |
N | 180 | S180R | agT | agA | 1 | 1 | AY.88 | 0.000884 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | AY.9 | 0.000068 |
N | 180 | S180G | Agt | Ggt | 1 | 1 | AY.9 | 0.000068 |
N | 180 | S180T | aGt | aCt | 1 | 1 | AY.9 | 0.000068 |
N | 180 | S180N | aGt | aAt | 1 | 1 | AY.9.1 | 0.000084 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.9.2 | 0.000037 |
N | 180 | S180del | AGT | --- | 1 | 1 | AY.95 | 0.000761 |
N | 180 | S180T | aGt | aCt | 1 | 1 | AY.98 | 0.000079 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AY.98 | 0.000079 |
N | 180 | S180T | aGt | aCt | 1 | 1 | AY.99.1 | 0.001553 |
N | 180 | S180I | aGt | aTt | 1 | 1 | AZ.2 | 0.000821 |
N | 180 | S180S | agT | agC | 1 | 1 | B | 0.000128 |
N | 180 | S180N | aGt | aAt | 1 | 1 | B | 0.000128 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B | 0.000128 |
N | 180 | S180del1 | Agt | -gt | 1 | 1 | B.1 | 0.000009 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.1.1 | 0.000327 |
N | 180 | S180S | agT | agC | 1 | 1 | B.1.1.203 | 0.016949 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.1.207 | 0.001182 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.1.216 | 0.00089 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.1.232 | 0.001815 |
N | 180 | S180S | agT | agC | 1 | 1 | B.1.1.25 | 0.000569 |
N | 180 | S180T | aGt | aCt | 1 | 1 | B.1.1.28 | 0.000311 |
N | 180 | S180T | aGt | aCt | 1 | 1 | B.1.1.284 | 0.000107 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.1.284 | 0.000107 |
N | 180 | S180T | aGt | aCt | 1 | 1 | B.1.1.318 | 0.000302 |
N | 180 | S180S | agT | agC | 1 | 1 | B.1.1.326 | 0.001761 |
N | 180 | S180del | AGT | --- | 1 | 1 | B.1.1.33 | 0.000421 |
N | 180 | S180S | agT | agC | 1 | 1 | B.1.1.33 | 0.000421 |
N | 180 | S180T | aGt | aCt | 1 | 1 | B.1.1.372 | 0.000689 |
N | 180 | S180N | aGt | aAt | 1 | 1 | B.1.1.39 | 0.00051 |
N | 180 | S180R | agT | agG | 1 | 1 | B.1.1.409 | 0.002833 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.1.448 | 0.002033 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.1.459 | 0.015385 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.1.462 | 0.008621 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | B.1.1.7 | 0.000001 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.110.1 | 0.1 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.113 | 0.015625 |
N | 180 | S180G | Agt | Ggt | 1 | 1 | B.1.142 | 0.002899 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.157 | 0.002985 |
N | 180 | S180R | Agt | Cgt | 1 | 1 | B.1.160 | 0.000031 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.169 | 0.014925 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | B.1.177.11 | 0.001698 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.177.30 | 0.002513 |
N | 180 | S180S | agT | agC | 1 | 1 | B.1.177.53 | 0.002392 |
N | 180 | S180T | aGt | aCt | 1 | 1 | B.1.177.58 | 0.001332 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.177.63 | 0.002703 |
N | 180 | S180del | AGT | --- | 1 | 1 | B.1.177.68 | 0.015152 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.177.8 | 0.000752 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | B.1.177.86 | 0.000183 |
N | 180 | S180R | agT | agG | 1 | 1 | B.1.180 | 0.05 |
N | 180 | S180N | aGt | aAt | 1 | 1 | B.1.180 | 0.05 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | B.1.2 | 0.000009 |
N | 180 | S180del | AGT | --- | 1 | 1 | B.1.2 | 0.000009 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | B.1.218 | 0.005155 |
N | 180 | S180S | agT | agC | 1 | 1 | B.1.22 | 0.001318 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | B.1.221.2 | 0.004016 |
N | 180 | S180T | aGt | aCt | 1 | 1 | B.1.222 | 0.001692 |
N | 180 | S180S | agT | agC | 1 | 1 | B.1.234 | 0.000132 |
N | 180 | S180S | agT | agC | 1 | 1 | B.1.243 | 0.00007 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | B.1.258 | 0.000067 |
N | 180 | S180R | agT | agG | 1 | 1 | B.1.258 | 0.000067 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.258.14 | 0.00098 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.3 | 0.002618 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.350 | 0.002933 |
N | 180 | S180del | AGT | --- | 1 | 1 | B.1.351 | 0.00003 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.351.2 | 0.000303 |
N | 180 | S180R | agT | agA | 1 | 1 | B.1.351.3 | 0.000876 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.36 | 0.000146 |
N | 180 | S180R | agT | agG | 1 | 1 | B.1.36 | 0.000146 |
N | 180 | S180T | aGt | aCt | 1 | 1 | B.1.36 | 0.000146 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.36.24 | 0.006173 |
N | 180 | S180S | agT | agC | 1 | 1 | B.1.36.29 | 0.000517 |
N | 180 | S180S | agT | agC | 1 | 1 | B.1.36.36 | 0.000602 |
N | 180 | S180S | agT | agC | 1 | 1 | B.1.367 | 0.000792 |
N | 180 | S180del2 | AGt | --t | 1 | 1 | B.1.369 | 0.000285 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.382 | 0.008929 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.396 | 0.000706 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | B.1.400 | 0.000429 |
N | 180 | S180T | aGt | aCt | 1 | 1 | B.1.404 | 0.001302 |
N | 180 | S180del | AGT | --- | 1 | 1 | B.1.416.1 | 0.001563 |
N | 180 | S180del | AGT | --- | 1 | 1 | B.1.427 | 0.00005 |
N | 180 | S180N | aGt | aAt | 1 | 1 | B.1.429 | 0.000024 |
N | 180 | S180T | aGt | aCt | 1 | 1 | B.1.429 | 0.000024 |
N | 180 | S180S | agT | agC | 1 | 1 | B.1.429 | 0.000024 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | B.1.436 | 0.001029 |
N | 180 | S180del | AGT | --- | 1 | 1 | B.1.465 | 0.003802 |
N | 180 | S180T | aGt | aCt | 1 | 1 | B.1.466 | 0.023256 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.479 | 0.038462 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.492 | 0.007042 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.499 | 0.00105 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.504 | 0.03125 |
N | 180 | S180N | aGt | aAt | 1 | 1 | B.1.505 | 0.004386 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.521 | 0.004975 |
N | 180 | S180del | AGT | --- | 1 | 1 | B.1.525 | 0.000113 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | B.1.543 | 0.01 |
N | 180 | S180del | AGT | --- | 1 | 1 | B.1.560 | 0.00463 |
N | 180 | S180S | agT | agC | 1 | 1 | B.1.561 | 0.000397 |
N | 180 | S180del | AGT | --- | 1 | 1 | B.1.576 | 0.000907 |
N | 180 | S180S | agT | agC | 1 | 1 | B.1.577 | 0.000687 |
N | 180 | S180del | AGT | --- | 1 | 1 | B.1.596 | 0.000087 |
N | 180 | S180S | agT | agC | 1 | 1 | B.1.596 | 0.000087 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.1.612 | 0.002653 |
N | 180 | S180del | AGT | --- | 1 | 1 | B.1.617.1 | 0.000129 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | B.1.617.1 | 0.000129 |
N | 180 | S180S | agT | agC | 1 | 1 | B.1.617.1 | 0.000129 |
N | 180 | S180del | AGT | --- | 1 | 1 | B.1.617.2 | 0.000004 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | B.1.617.2 | 0.000004 |
N | 180 | S180D | AGt | GAt | 1 | 1 | B.1.617.2 | 0.000004 |
N | 180 | S180G | Agt | Ggt | 1 | 1 | B.1.635 | 0.017544 |
N | 180 | S180N | aGt | aAt | 1 | 1 | B.1.637 | 0.000073 |
N | 180 | S180C | Agt | Tgt | 1 | 1 | B.27 | 0.015385 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.28 | 0.003279 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.39 | 0.002331 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.40 | 0.000364 |
N | 180 | S180T | aGt | aCt | 1 | 1 | B.6 | 0.00091 |
N | 180 | S180I | aGt | aTt | 1 | 1 | B.6 | 0.00091 |
N | 180 | S180S | agT | agC | 1 | 1 | C.1 | 0.002392 |
N | 180 | S180G | Agt | Ggt | 1 | 1 | C.1.2 | 0.004255 |
N | 180 | S180S | agT | agC | 1 | 1 | C.35 | 0.000774 |
N | 180 | S180del2 | AGT | --N | 1 | 1 | C.37.1 | 0.002618 |
N | 180 | S180G | Agt | Ggt | 1 | 1 | D.2 | 0.000075 |
N | 180 | S180del2 | AGt | --t | 1 | 1 | D.2 | 0.000075 |
N | 180 | S180S | agT | agC | 1 | 1 | D.2 | 0.000075 |
N | 180 | S180I | aGt | aTt | 1 | 1 | N.9 | 0.005952 |
N | 180 | S180del | AGT | --- | 1 | 1 | P.1 | 0.000016 |
N | 180 | S180R | agT | agG | 1 | 1 | P.1.1 | 0.000318 |
N | 180 | S180I | aGt | aTt | 1 | 1 | P.1.14 | 0.000048 |
N | 180 | S180S | agT | agC | 1 | 1 | P.1.15 | 0.000232 |
N | 180 | S180I | aGt | aTt | 1 | 1 | P.1.15 | 0.000232 |
N | 180 | S180del | AGT | --- | 1 | 1 | P.1.15 | 0.000232 |
N | 180 | S180I | aGt | aTt | 1 | 1 | P.1.2 | 0.001156 |
N | 180 | S180T | aGt | aCt | 1 | 1 | Q.1 | 0.000126 |
N | 180 | S180S | agT | agC | 1 | 1 | Q.8 | 0.000165 |
N | 180 | S180I | aGt | aTt | 1 | 1 | Q.8 | 0.000165 |
N | 180 | S180T | aGt | aCt | 1 | 1 | R.1 | 0.00009 |
N | 180 | S180S | agT | agC | 1 | 1 | R.1 | 0.00009 |
N | 180 | S180N | aGt | aAt | 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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