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/nsp3 | 660 | S660F | S1478F | nonsyn | tCt | tTt | 1749 | 1748 | 0.999428 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660F | S1478F | nonsyn | tCT | tTC | 1749 | 1 | 0.000571755 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660Y | S1478Y | nonsyn | tCt | tAt | 450 | 448 | 0.995556 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660Y | S1478Y | nonsyn | tCT | tAC | 450 | 2 | 0.00444444 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660S | S1478S | syn | tcT | tcC | 421 | 230 | 0.546318 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660S | S1478S | syn | tcT | tcG | 421 | 183 | 0.434679 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660S | S1478S | syn | tcT | tcA | 421 | 8 | 0.0190024 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660del | S1478del | del | TCT | --- | 81 | 81 | 1 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660A | S1478A | nonsyn | Tct | Gct | 44 | 44 | 1 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660P | S1478P | nonsyn | Tct | Cct | 30 | 30 | 1 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660T | S1478T | nonsyn | Tct | Act | 22 | 21 | 0.954545 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660T | S1478T | nonsyn | TcT | AcA | 22 | 1 | 0.0454545 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660L | S1478L | nonsyn | tCT | tTA | 5 | 4 | 0.8 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660L | S1478L | nonsyn | TCt | CTt | 5 | 1 | 0.2 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660C | S1478C | nonsyn | tCt | tGt | 4 | 4 | 1 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660V | S1478V | nonsyn | TCT | GTA | 2 | 1 | 0.5 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660V | S1478V | nonsyn | TCt | GTt | 2 | 1 | 0.5 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660del2 | S1478del2 | del | TCt | --t | 1 | 1 | 1 | 4697-4699 |
ORF1ab/nsp3 | 660 | S660G | S1478G | nonsyn | TCT | GGA | 1 | 1 | 1 | 4697-4699 |
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/nsp3 | 660 | S660F | tCt | tTt | 1748 | 1749 | All | 0.000334 |
ORF1ab/nsp3 | 660 | S660F | tCT | tTC | 1 | 1749 | All | 0 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 537 | 537 | B.1.1.7 | 0.000481 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 448 | 450 | All | 0.000086 |
ORF1ab/nsp3 | 660 | S660Y | tCT | tAC | 2 | 450 | All | 0 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 230 | 421 | All | 0.000044 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 183 | 421 | All | 0.000035 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcA | 8 | 421 | All | 0.000002 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 281 | 281 | B.1.617.2 | 0.001058 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 201 | 201 | B.1.160.23 | 0.971014 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 156 | 156 | AY.100 | 0.007177 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 146 | 146 | AY.4 | 0.000227 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 130 | 130 | AY.50 | 0.103917 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 113 | 113 | AY.42 | 0.004546 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 83 | 83 | AY.43 | 0.000368 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 81 | 81 | All | 0.000015 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 75 | 75 | AY.3 | 0.000746 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 60 | 60 | AY.25 | 0.000361 |
ORF1ab/nsp3 | 660 | S660A | Tct | Gct | 44 | 44 | All | 0.000008 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 42 | 43 | AY.4 | 0.000065 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 1 | 43 | AY.4 | 0.000002 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 42 | 43 | AY.44 | 0.000256 |
ORF1ab/nsp3 | 660 | S660F | tCT | tTC | 1 | 43 | AY.44 | 0.000006 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 17 | 32 | B.1.1.7 | 0.000015 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 15 | 32 | B.1.1.7 | 0.000013 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 31 | 31 | AY.46.4 | 0.0051 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 31 | 31 | B.1.177.12 | 0.004703 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 30 | 30 | All | 0.000006 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 29 | 29 | AY.103 | 0.00018 |
ORF1ab/nsp3 | 660 | S660A | Tct | Gct | 27 | 27 | B.1.1.7 | 0.000024 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 23 | 23 | B.1.1.214 | 0.001276 |
ORF1ab/nsp3 | 660 | S660T | Tct | Act | 21 | 22 | All | 0.000004 |
ORF1ab/nsp3 | 660 | S660T | TcT | AcA | 1 | 22 | All | 0 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 22 | 22 | B.1.2 | 0.000194 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 21 | 21 | B.1.177 | 0.000277 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 21 | 21 | B.1.221 | 0.001492 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 10 | 19 | AY.103 | 0.000062 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 9 | 19 | AY.103 | 0.000056 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 18 | 18 | B.1.1.7 | 0.000016 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 17 | 17 | P.1.1 | 0.0054 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 16 | 16 | B.1 | 0.000147 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 15 | 16 | B.1.617.2 | 0.000056 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 10 | 16 | B.1.617.2 | 0.000038 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 6 | 16 | B.1.617.2 | 0.000023 |
ORF1ab/nsp3 | 660 | S660Y | tCT | tAC | 1 | 16 | B.1.617.2 | 0.000004 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 14 | 14 | AY.102 | 0.000371 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 14 | 14 | B.1.265 | 0.017789 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 11 | 11 | AY.39 | 0.000272 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 11 | 11 | AY.85 | 0.004699 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 11 | 11 | B.1.177.16 | 0.007309 |
ORF1ab/nsp3 | 660 | S660T | Tct | Act | 10 | 10 | B.1.1.7 | 0.000009 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 9 | 9 | B.1.177.21 | 0.000688 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 9 | 9 | P.1 | 0.000142 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 8 | 8 | AY.3 | 0.00008 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 8 | 8 | B.1 | 0.000073 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 7 | 8 | B.1 | 0.000064 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcA | 1 | 8 | B.1 | 0.000009 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 7 | 7 | AY.106 | 0.002344 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 7 | 7 | B.1.1 | 0.000127 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 7 | 7 | B.1.1.519 | 0.000278 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 7 | 7 | B.1.160 | 0.000218 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 6 | 6 | 0.333333 | |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 6 | 6 | AY.4.2 | 0.00013 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 6 | 6 | B.1.1.7 | 0.000005 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 6 | 6 | B.1.429 | 0.000141 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 6 | 6 | B.1.561 | 0.002382 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 6 | 6 | P.1.14 | 0.000287 |
ORF1ab/nsp3 | 660 | S660L | tCT | tTA | 4 | 5 | All | 0.000001 |
ORF1ab/nsp3 | 660 | S660L | TCt | CTt | 1 | 5 | All | 0 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 5 | 5 | AY.113 | 0.000712 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 5 | 5 | AY.120 | 0.000186 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 5 | 5 | AY.29 | 0.000079 |
ORF1ab/nsp3 | 660 | S660A | Tct | Gct | 5 | 5 | AY.4 | 0.000008 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 5 | 5 | AY.4 | 0.000008 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 5 | 5 | AY.9.1 | 0.000419 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 5 | 5 | B.1.351 | 0.000149 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 5 | 5 | B.1.36.18 | 0.002101 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 5 | 5 | B.1.637 | 0.000365 |
ORF1ab/nsp3 | 660 | S660C | tCt | tGt | 4 | 4 | All | 0.000001 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 4 | 4 | AY.118 | 0.000251 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 4 | 4 | AY.35 | 0.000932 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 4 | 4 | AY.42 | 0.000161 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 3 | 4 | AY.44 | 0.000018 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 2 | 4 | AY.44 | 0.000012 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 2 | 4 | AY.44 | 0.000012 |
ORF1ab/nsp3 | 660 | S660Y | tCT | tAC | 1 | 4 | AY.44 | 0.000006 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 4 | 4 | AY.5 | 0.000083 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 4 | 4 | AY.59 | 0.002119 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 4 | 4 | AY.6 | 0.000165 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 4 | 4 | AY.6 | 0.000165 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 4 | 4 | B.1.1.7 | 0.000004 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 4 | 4 | B.1.177 | 0.000053 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 4 | 4 | B.1.177.81 | 0.000757 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 4 | 4 | B.1.243 | 0.000278 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 4 | 4 | B.1.36 | 0.000584 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 4 | 4 | B.1.558 | 0.018265 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 4 | 4 | P.1.15 | 0.000929 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 3 | 3 | AY.103 | 0.000019 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 3 | 3 | AY.26 | 0.000085 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 3 | 3 | AY.4.5 | 0.000322 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 3 | 3 | AY.43 | 0.000013 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 2 | 3 | AY.43 | 0.000009 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 3 | AY.43 | 0.000004 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 3 | 3 | AY.46 | 0.000312 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 3 | 3 | AY.46 | 0.000312 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 3 | 3 | AY.46 | 0.000312 |
ORF1ab/nsp3 | 660 | S660T | Tct | Act | 2 | 3 | B.1 | 0.000018 |
ORF1ab/nsp3 | 660 | S660T | TcT | AcA | 1 | 3 | B.1 | 0.000009 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 3 | 3 | B.1.1.138 | 0.018182 |
ORF1ab/nsp3 | 660 | S660L | tCT | tTA | 3 | 3 | B.1.1.7 | 0.000003 |
ORF1ab/nsp3 | 660 | S660C | tCt | tGt | 3 | 3 | B.1.1.7 | 0.000003 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 3 | 3 | B.1.160 | 0.000094 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 3 | 3 | B.1.177.7 | 0.000495 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 3 | 3 | B.1.429 | 0.000071 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 2 | 3 | B.1.526 | 0.000047 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcA | 1 | 3 | B.1.526 | 0.000024 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 3 | 3 | N.9 | 0.017857 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 3 | 3 | P.1.7 | 0.000958 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 3 | 3 | Q.1 | 0.000379 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 3 | 3 | R.1 | 0.00027 |
ORF1ab/nsp3 | 660 | S660A | Tct | Gct | 2 | 2 | 0.111111 | |
ORF1ab/nsp3 | 660 | S660V | TCT | GTA | 1 | 2 | All | 0 |
ORF1ab/nsp3 | 660 | S660V | TCt | GTt | 1 | 2 | All | 0 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 2 | 2 | AY.102 | 0.000053 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 2 | 2 | AY.121 | 0.000271 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 2 | 2 | AY.20 | 0.000078 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 2 | 2 | AY.25 | 0.000012 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 2 | 2 | AY.25 | 0.000012 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 2 | 2 | AY.4 | 0.000003 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 2 | 2 | AY.4 | 0.000003 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 2 | 2 | AY.43 | 0.000009 |
ORF1ab/nsp3 | 660 | S660A | Tct | Gct | 2 | 2 | AY.43 | 0.000009 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 2 | 2 | AY.46.5 | 0.000397 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 2 | 2 | AY.46.6 | 0.000144 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 2 | 2 | AY.49 | 0.00639 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 2 | AY.5 | 0.000021 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 1 | 2 | AY.5 | 0.000021 |
ORF1ab/nsp3 | 660 | S660A | Tct | Gct | 2 | 2 | AY.9.2 | 0.000073 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 2 | 2 | AY.99.2 | 0.000184 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 2 | 2 | B.1 | 0.000018 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 2 | 2 | B.1.1 | 0.000036 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 2 | 2 | B.1.1 | 0.000036 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 2 | 2 | B.1.1.214 | 0.000111 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 2 | 2 | B.1.1.28 | 0.000622 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 2 | B.1.1.519 | 0.00004 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcA | 1 | 2 | B.1.1.519 | 0.00004 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 2 | 2 | B.1.1.526 | 0.007092 |
ORF1ab/nsp3 | 660 | S660V | TCt | GTt | 1 | 2 | B.1.1.7 | 0.000001 |
ORF1ab/nsp3 | 660 | S660V | TCT | GTA | 1 | 2 | B.1.1.7 | 0.000001 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 2 | 2 | B.1.160.16 | 0.001859 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 2 | 2 | B.1.167 | 0.015625 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 2 | 2 | B.1.177 | 0.000026 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 2 | 2 | B.1.177.77 | 0.001452 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 2 | 2 | B.1.177.82 | 0.000955 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 2 | 2 | B.1.234 | 0.000264 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 2 | 2 | B.1.240 | 0.000431 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 2 | 2 | B.1.427 | 0.000101 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 2 | 2 | B.1.517 | 0.000854 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 2 | 2 | B.1.526 | 0.000047 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 2 | 2 | B.1.596 | 0.000174 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 2 | 2 | B.1.609 | 0.000959 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 2 | 2 | B.1.617.1 | 0.000258 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 2 | 2 | B.1.619 | 0.001742 |
ORF1ab/nsp3 | 660 | S660T | Tct | Act | 2 | 2 | B.1.619.1 | 0.001283 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 2 | 2 | B.31 | 0.007463 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 2 | 2 | P.1 | 0.000032 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 2 | 2 | P.1.15 | 0.000465 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 2 | 2 | Q.2 | 0.001227 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 2 | 2 | Q.8 | 0.00033 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 2 | 2 | U.3 | 0.007722 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | A.2.2 | 0.001689 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AD.2 | 0.000219 |
ORF1ab/nsp3 | 660 | S660del2 | TCt | --t | 1 | 1 | All | 0 |
ORF1ab/nsp3 | 660 | S660G | TCT | GGA | 1 | 1 | All | 0 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AT.1 | 0.005128 |
ORF1ab/nsp3 | 660 | S660T | Tct | Act | 1 | 1 | AT.1 | 0.005128 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.101 | 0.00049 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 1 | 1 | AY.102 | 0.000027 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 1 | 1 | AY.103 | 0.000006 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.109 | 0.00074 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.110 | 0.000113 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | AY.113 | 0.000142 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.116.1 | 0.000311 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.12 | 0.000316 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcA | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp3 | 660 | S660L | TCt | CTt | 1 | 1 | AY.120.1 | 0.000321 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.14 | 0.000088 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 1 | 1 | AY.14 | 0.000088 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.19 | 0.00114 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | AY.20 | 0.000039 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.23 | 0.00007 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.24 | 0.000431 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | AY.25 | 0.000006 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 1 | 1 | AY.3 | 0.00001 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | AY.3 | 0.00001 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.33 | 0.000067 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.34 | 0.000097 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | AY.34 | 0.000097 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 1 | 1 | AY.37 | 0.000316 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.38 | 0.000499 |
ORF1ab/nsp3 | 660 | S660A | Tct | Gct | 1 | 1 | AY.38 | 0.000499 |
ORF1ab/nsp3 | 660 | S660A | Tct | Gct | 1 | 1 | AY.4.2.1 | 0.000149 |
ORF1ab/nsp3 | 660 | S660L | tCT | tTA | 1 | 1 | AY.43 | 0.000004 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 1 | 1 | AY.44 | 0.000006 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | AY.44 | 0.000006 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.45 | 0.000122 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.46.2 | 0.000635 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 1 | 1 | AY.46.2 | 0.000635 |
ORF1ab/nsp3 | 660 | S660T | Tct | Act | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.47 | 0.000031 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 1 | 1 | AY.5 | 0.000021 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.5.4 | 0.000277 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | AY.56 | 0.001605 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 1 | 1 | AY.59 | 0.00053 |
ORF1ab/nsp3 | 660 | S660A | Tct | Gct | 1 | 1 | AY.70 | 0.000209 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | AY.72 | 0.001361 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.77 | 0.001127 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.83 | 0.001724 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | AY.84 | 0.000437 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | AY.90 | 0.000684 |
ORF1ab/nsp3 | 660 | S660T | Tct | Act | 1 | 1 | AY.96 | 0.002075 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | AY.99 | 0.001049 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 1 | 1 | AY.99.2 | 0.000092 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | B | 0.000128 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B | 0.000128 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 1 | 1 | B.1 | 0.000009 |
ORF1ab/nsp3 | 660 | S660del2 | TCt | --t | 1 | 1 | B.1 | 0.000009 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 1 | 1 | B.1.1 | 0.000018 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.1 | 0.000018 |
ORF1ab/nsp3 | 660 | S660A | Tct | Gct | 1 | 1 | B.1.1 | 0.000018 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.1.1 | 0.000327 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.1.142 | 0.017544 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.1.198 | 0.001468 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.1.205 | 0.003717 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.1.277 | 0.000759 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.1.280 | 0.003086 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.1.284 | 0.000107 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 1 | 1 | B.1.1.298 | 0.000862 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.1.306 | 0.000438 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.1.312 | 0.001912 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.1.318 | 0.000302 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.1.348 | 0.000796 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 1 | 1 | B.1.1.37 | 0.000193 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | B.1.1.39 | 0.00051 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.1.409 | 0.002833 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 1 | 1 | B.1.1.519 | 0.00004 |
ORF1ab/nsp3 | 660 | S660G | TCT | GGA | 1 | 1 | B.1.1.7 | 0.000001 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | B.1.126 | 0.001276 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.126 | 0.001276 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | B.1.146 | 0.004237 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcA | 1 | 1 | B.1.149 | 0.003425 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.149 | 0.003425 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.157 | 0.002985 |
ORF1ab/nsp3 | 660 | S660T | Tct | Act | 1 | 1 | B.1.160 | 0.000031 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcA | 1 | 1 | B.1.160 | 0.000031 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.160.7 | 0.002079 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.177.16 | 0.000664 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 1 | 1 | B.1.177.16 | 0.000664 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 1 | 1 | B.1.177.32 | 0.00135 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.177.4 | 0.000211 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 1 | 1 | B.1.177.44 | 0.000519 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.177.50 | 0.004695 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.177.54 | 0.000606 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.177.57 | 0.000281 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.177.63 | 0.002703 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.177.69 | 0.001484 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.177.81 | 0.000189 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.179 | 0.003759 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | B.1.2 | 0.000009 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 1 | 1 | B.1.2 | 0.000009 |
ORF1ab/nsp3 | 660 | S660T | Tct | Act | 1 | 1 | B.1.2 | 0.000009 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.210 | 0.002132 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | B.1.232 | 0.000537 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | B.1.234 | 0.000132 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 1 | 1 | B.1.234 | 0.000132 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.243 | 0.00007 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.258 | 0.000067 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.258 | 0.000067 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.258.12 | 0.007874 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | B.1.258.17 | 0.000104 |
ORF1ab/nsp3 | 660 | S660T | Tct | Act | 1 | 1 | B.1.258.17 | 0.000104 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.258.17 | 0.000104 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.319 | 0.003049 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.351.2 | 0.000303 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.355 | 0.011111 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.366 | 0.004878 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.400 | 0.000429 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 1 | 1 | B.1.429 | 0.000024 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.438.1 | 0.000107 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.469 | 0.00361 |
ORF1ab/nsp3 | 660 | S660P | Tct | Cct | 1 | 1 | B.1.497 | 0.000315 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.499 | 0.00105 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | B.1.515 | 0.014493 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.561 | 0.000397 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.564 | 0.000426 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.564.1 | 0.001577 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.568 | 0.001111 |
ORF1ab/nsp3 | 660 | S660A | Tct | Gct | 1 | 1 | B.1.576 | 0.000907 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.588 | 0.00091 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcA | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp3 | 660 | S660A | Tct | Gct | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp3 | 660 | S660T | Tct | Act | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.617.2 | 0.000004 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | B.15 | 0.017544 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcA | 1 | 1 | B.3 | 0.000831 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | B.4.8 | 0.071429 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 1 | 1 | B.57 | 0.015152 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 1 | 1 | B.6 | 0.00091 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | C.36 | 0.000911 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | C.37 | 0.000116 |
ORF1ab/nsp3 | 660 | S660C | tCt | tGt | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcC | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp3 | 660 | S660S | tcT | tcG | 1 | 1 | P.1 | 0.000016 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | P.1.1 | 0.000318 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | P.1.1 | 0.000318 |
ORF1ab/nsp3 | 660 | S660F | tCt | tTt | 1 | 1 | P.1.14 | 0.000048 |
ORF1ab/nsp3 | 660 | S660Y | tCt | tAt | 1 | 1 | P.1.14 | 0.000048 |
ORF1ab/nsp3 | 660 | S660del | TCT | --- | 1 | 1 | P.1.15 | 0.000232 |
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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