{ "version": "v2", "meta": { "title": "SARS-CoV-2 phylogeny", "updated": "2023-04-19", "build_url": "https://github.com/neherlab/nextclade_data_workflows", "maintainers": [ { "name": "Cornelius Roemer", "url": "https://neherlab.org" }, { "name": "Richard Neher", "url": "https://neherlab.org" } ], "display_defaults": { "color_by": "clade_membership", "distance_measure": "div", "map_triplicate": false, "branch_label": "clade", "transmission_lines": false }, "genome_annotations": { "nuc": { "end": 29903, "start": 1, "strand": "+", "seqid": "defaults/reference_seq.gb", "type": "source" }, "E": { "end": 26472, "seqid": "defaults/reference_seq.gb", "start": 26245, "strand": "+", "type": "CDS" }, "M": { "end": 27191, "seqid": "defaults/reference_seq.gb", "start": 26523, "strand": "+", "type": "CDS" }, "N": { "end": 29533, "seqid": "defaults/reference_seq.gb", "start": 28274, "strand": "+", "type": "CDS" }, "ORF1a": { "end": 13468, "seqid": "defaults/reference_seq.gb", "start": 266, "strand": "+", "type": "CDS" }, "ORF1b": { "end": 21555, "seqid": "defaults/reference_seq.gb", "start": 13468, "strand": "+", "type": "CDS" }, "ORF3a": { "end": 26220, "seqid": "defaults/reference_seq.gb", "start": 25393, "strand": "+", "type": "CDS" }, "ORF6": { "end": 27387, "seqid": "defaults/reference_seq.gb", "start": 27202, "strand": "+", "type": "CDS" }, "ORF7a": { "end": 27759, "seqid": "defaults/reference_seq.gb", "start": 27394, "strand": "+", "type": "CDS" }, "ORF7b": { "end": 27887, "seqid": "defaults/reference_seq.gb", "start": 27756, "strand": "+", "type": "CDS" }, "ORF8": { "end": 28259, "seqid": "defaults/reference_seq.gb", "start": 27894, "strand": "+", "type": "CDS" }, "ORF9b": { "end": 28577, "seqid": "defaults/reference_seq.gb", "start": 28284, "strand": "+", "type": "CDS" }, "S": { "end": 25384, "seqid": "defaults/reference_seq.gb", "start": 21563, "strand": "+", "type": "CDS" } }, "description": "This phylogeny shows evolutionary relationships of SARS-CoV-2 viruses from the ongoing novel coronavirus COVID-19 pandemic.\n\nAll data we use were deposited in GISAID by scientists around the world.\nWe gratefully acknowledge the authors, originating and submitting laboratories of the genetic sequence and metadata made available through [GISAID](https://gisaid.org) on which this research is based. A full listing of all originating and submitting laboratories is available below. An attribution table is available by clicking on \"Download Data\" at the bottom of the page and then clicking on \"Strain Metadata\" in the resulting dialog box.\n", "colorings": [ { "key": "clade_membership", "title": "Clade", "type": "categorical", "scale": [ ["20H", "#5E1D9D"], ["20I", "#4B26B1"], ["20J", "#4138C3"], ["21A", "#3F4FCC"], ["21I", "#4065CF"], ["21J", "#447ACD"], ["21B", "#4A8BC3"], ["21C", "#529AB6"], ["21D", "#5BA6A6"], ["21E", "#66AE95"], ["21F", "#73B583"], ["21G", "#81B973"], ["21H", "#91BC64"], ["21K", "#A1BE58"], ["21L", "#B1BD4E"], ["21M", "#C0BA47"], ["22A", "#CEB541"], ["22B", "#DAAD3D"], ["22C", "#E19F3A"], ["22D", "#E68E36"], ["22E", "#E67832"], ["22F", "#E35F2D"], ["23A", "#DF4328"], ["23B", "#DB2823"] ] }, { "key": "gt", "title": "Genotype", "type": "categorical" }, { "key": "designation_date", "title": "Designation date", "type": "categorical", "scale": [["2023-04-18", "#DD3225"]] }, { "key": "designation_recency", "title": "Designation recency", "type": "categorical" }, { "key": "Nextclade_pango", "title": "Nextclade Pango Lineage", "type": "categorical" }, { "key": "partiallyAliased", "title": "Unaliased Pango Lineage", "type": "categorical" }, { "key": "clade_who", "title": "WHO name", "type": "categorical", "scale": [ ["Alpha", "#403CC5"], ["Beta", "#4067CF"], ["Gamma", "#4A8BC3"], ["Delta", "#5AA4A9"], ["Epsilon", "#6FB488"], ["Eta", "#8BBB69"], ["Theta", "#A9BD53"], ["Iota", "#C7B944"], ["Kappa", "#DDA93C"], ["Lambda", "#E68A35"], ["Mu", "#E35C2C"], ["Omicron", "#DB2823"] ] }, { "key": "clade_nextstrain", "title": "Nextstrain clade name", "type": "categorical", "scale": [ ["19A", "#5E1D9D"], ["19B", "#4E21AD"], ["20A", "#462EB9"], ["20B", "#403CC5"], ["20C", "#3F4CCB"], ["20D", "#3E5DD0"], ["20E", "#416CCE"], ["20F", "#447BCD"], ["20G", "#4887C6"], ["20H", "#4D93BE"], ["20I", "#539CB3"], ["20J", "#5AA5A8"], ["21A", "#62AB9C"], ["21I", "#6AB18F"], ["21J", "#74B582"], ["21B", "#7EB876"], ["21C", "#89BB6B"], ["21D", "#94BD61"], ["21E", "#A0BE59"], ["21F", "#ABBD51"], ["21G", "#B7BD4B"], ["21H", "#C2BA46"], ["21K", "#CCB742"], ["21M", "#D5B13F"], ["21L", "#DDAA3C"], ["22A", "#E19F3A"], ["22B", "#E69537"], ["22C", "#E68534"], ["22D", "#E67631"], ["22E", "#E4632E"], ["22F", "#E14F2A"], ["23A", "#DE3C26"], ["23B", "#DB2823"] ] }, { "key": "clade_legacy", "title": "Legacy clade name", "type": "categorical", "scale": [ ["20H (Beta, V2)", "#5E1D9D"], ["20I (Alpha, V1)", "#4B26B1"], ["20J (Gamma, V3)", "#4138C3"], ["21A (Delta)", "#3F4FCC"], ["21I (Delta)", "#4065CF"], ["21J (Delta)", "#447ACD"], ["21B (Kappa)", "#4A8BC3"], ["21C (Epsilon)", "#529AB6"], ["21D (Eta)", "#5BA6A6"], ["21E (Theta)", "#66AE95"], ["21F (Iota)", "#73B583"], ["21G (Lambda)", "#81B973"], ["21H (Mu)", "#91BC64"], ["21K (Omicron)", "#A1BE58"], ["21L (Omicron)", "#B1BD4E"], ["21M (Omicron)", "#C0BA47"], ["22A (Omicron)", "#CEB541"], ["22B (Omicron)", "#DAAD3D"], ["22C (Omicron)", "#E19F3A"], ["22D (Omicron)", "#E68E36"], ["22E (Omicron)", "#E67832"], ["22F (Omicron)", "#E35F2D"], ["23A (Omicron)", "#DF4328"], ["23B (Omicron)", "#DB2823"] ] }, { "key": "immune_escape", "title": "RBD immune escape score", "type": "continuous" }, { "key": "ace2_binding", "title": "ACE2 affinity score", "type": "continuous" }, { "key": "qc.overallScore", "title": "Overall QC score", "type": "continuous" }, { "key": "totalFrameShifts", "title": "Total frame shifts", "type": "categorical" }, { "key": "qc.stopCodons.totalStopCodons", "title": "Total stop codons", "type": "categorical" }, { "key": "totalAminoacidSubstitutions", "title": "Total amino acid substitutions", "type": "continuous" }, { "key": "totalAminoacidDeletions", "title": "Total amino acid deletions", "type": "continuous" }, { "key": "clade_who", "title": "WHO name", "type": "categorical", "scale": [ ["Alpha", "#403CC5"], ["Beta", "#4067CF"], ["Gamma", "#4A8BC3"], ["Delta", "#5AA4A9"], ["Epsilon", "#6FB488"], ["Eta", "#8BBB69"], ["Theta", "#A9BD53"], ["Iota", "#C7B944"], ["Kappa", "#DDA93C"], ["Lambda", "#E68A35"], ["Mu", "#E35C2C"], ["Omicron", "#DB2823"] ] }, { "key": "clade_legacy", "title": "Legacy clade name", "type": "categorical", "scale": [ ["20H (Beta, V2)", "#5E1D9D"], ["20I (Alpha, V1)", "#4B26B1"], ["20J (Gamma, V3)", "#4138C3"], ["21A (Delta)", "#3F4FCC"], ["21I (Delta)", "#4065CF"], ["21J (Delta)", "#447ACD"], ["21B (Kappa)", "#4A8BC3"], ["21C (Epsilon)", "#529AB6"], ["21D (Eta)", "#5BA6A6"], ["21E (Theta)", "#66AE95"], ["21F (Iota)", "#73B583"], ["21G (Lambda)", "#81B973"], ["21H (Mu)", "#91BC64"], ["21K (Omicron)", "#A1BE58"], ["21L (Omicron)", "#B1BD4E"], ["21M (Omicron)", "#C0BA47"], ["22A (Omicron)", "#CEB541"], ["22B (Omicron)", "#DAAD3D"], ["22C (Omicron)", "#E19F3A"], ["22D (Omicron)", "#E68E36"], ["22E (Omicron)", "#E67832"], ["22F (Omicron)", "#E35F2D"], ["23A (Omicron)", "#DF4328"], ["23B (Omicron)", "#DB2823"] ] }, { "key": "clade_nextstrain", "title": "Nextstrain clade name", "type": "categorical", "scale": [ ["19A", "#5E1D9D"], ["19B", "#4E21AD"], ["20A", "#462EB9"], ["20B", "#403CC5"], ["20C", "#3F4CCB"], ["20D", "#3E5DD0"], ["20E", "#416CCE"], ["20F", "#447BCD"], ["20G", "#4887C6"], ["20H", "#4D93BE"], ["20I", "#539CB3"], ["20J", "#5AA5A8"], ["21A", "#62AB9C"], ["21I", "#6AB18F"], ["21J", "#74B582"], ["21B", "#7EB876"], ["21C", "#89BB6B"], ["21D", "#94BD61"], ["21E", "#A0BE59"], ["21F", "#ABBD51"], ["21G", "#B7BD4B"], ["21H", "#C2BA46"], ["21K", "#CCB742"], ["21M", "#D5B13F"], ["21L", "#DDAA3C"], ["22A", "#E19F3A"], ["22B", "#E69537"], ["22C", "#E68534"], ["22D", "#E67631"], ["22E", "#E4632E"], ["22F", "#E14F2A"], ["23A", "#DE3C26"], ["23B", "#DB2823"] ] }, { "key": "partiallyAliased", "title": "Unaliased Pango Lineage", "type": "categorical" }, { "key": "Nextclade_pango", "title": "Nextclade Pango Lineage", "type": "categorical" }, { "key": "placement_prior", "title": "Placement Prior (log10)", "type": "continuous" } ], "filters": [ "new_node", "clade_membership", "Nextclade_pango", "partiallyAliased", "clade_who", "clade_legacy", "designation_date", "designation_recency" ], "panels": ["tree", "entropy"], "extensions": { "nextclade": { "clade_node_attrs": [ { "name": "Nextclade_pango", "displayName": "Pango lineage (Nextclade)", "description": "Pango lineage as inferred by Nextclade from the nearest neighbour in the reference tree. 98% accurate for recent sequences, for higher accuracy use dedicated pangolin software in UShER or pangoLEARN mode. Recombinants may get (wrongly) assigned to a designated recombinant lineage if they have similar breakpoints.", "hideInWeb": false }, { "name": "partiallyAliased", "displayName": "Unaliased", "description": "Partially aliased reconstructed Pango lineage", "hideInWeb": false }, { "name": "clade_nextstrain", "displayName": "Nextstrain Clade", "description": "Nextstrain Clade", "hideInWeb": true }, { "name": "clade_who", "displayName": "WHO name", "description": "Greek letter WHO name", "hideInWeb": false }, { "name": "clade_legacy", "displayName": "Backwards compatible Nextstrain name", "description": "Combination of Nextstrain clade, WHO name and other names like EU1 for backwards compatibility", "hideInWeb": true } ] } } }, "tree": { "name": "NODE_0000000", "node_attrs": { "div": 0, "clade_nextstrain": { "value": "19A" }, "partiallyAliased": { "value": "B" }, "clade_membership": { "value": "19A" }, "Nextclade_pango": { "value": "B" }, "clade_legacy": { "value": "19A" }, "placement_prior": { "value": -3.7326818839420235 } }, "branch_attrs": { "mutations": {}, "labels": { "clade": "19A" } }, "children": [ { "name": "B", "node_attrs": { "div": 0, "clade_nextstrain": { "value": "19A" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "B" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "19A" }, "Nextclade_pango": { "value": "B" }, "totalAminoacidDeletions": { "value": 0 }, "totalAminoacidSubstitutions": { "value": 0 }, "clade_legacy": { "value": "19A" }, "placement_prior": { "value": -3.7326818839420235 } }, "branch_attrs": { "mutations": {} } }, { "name": "rec_parent", "node_attrs": { "div": 0, "clade_nextstrain": { "value": "19A" }, "partiallyAliased": { "value": "B" }, "clade_membership": { "value": "19A" }, "Nextclade_pango": { "value": "B" }, "clade_legacy": { "value": "19A" }, "placement_prior": { "value": -3.7326818839420235 } }, "branch_attrs": { "mutations": {} }, "children": [ { "name": "XA", "node_attrs": { "div": 33, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2021-05-05 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XA" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XA" }, "totalAminoacidDeletions": { "value": 3 }, "totalAminoacidSubstitutions": { "value": 23 }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.702778704186838 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T445C", "T2019C", "C3037T", "C4999T", "C6286T", "C8090T", "C9430T", "A10323G", "C13945T", "C14408T", "G20410A", "G21255C", "T21765-", "A21766-", "C21767-", "A21768-", "T21769-", "G21770-", "T21992-", "A21993-", "T21994-", "A23063T", "C23208T", "C23271A", "A23403G", "C23604A", "C23709T", "T24506G", "G24914C", "G25855T", "C27972T", "G28048T", "A28095T", "A28111G", "A28271-", "G28280C", "A28281T", "T28282A", "G28881A", "G28882A", "G28883C", "C28977T" ], "N": ["D3L", "R203K", "G204R", "S235F"], "ORF1a": ["M585T", "L2609F", "K3353R"], "ORF1b": ["P160S", "P314L", "E2315K"], "ORF3a": ["D155Y"], "ORF8": ["Q27*", "R52I", "K68*", "Y73C"], "S": [ "H69-", "V70-", "Y144-", "N501Y", "T549I", "A570D", "D614G", "P681H", "T716I", "S982A", "D1118H" ] }, "labels": { "aa": "N: D3L, R203K, G204R, S235F; ORF1a: M585T, L2609F, K3353R; ORF1b: P160S, P314L, E2315K; ORF3a: D155Y; ORF8: Q27*, R52I, K68*, Y73C; S: H69-, V70-, Y144-, N501Y, T549I, A570D, D614G, P681H, T716I, S982A, D1118H", "spike_mutations": "H69-, V70-, Y144-, N501Y, T549I, A570D, D614G, P681H, T716I, S982A, D1118H" } } }, { "name": "XAA", "node_attrs": { "div": 68, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-06-07 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAA" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAA" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 13 }, "totalAminoacidSubstitutions": { "value": 51 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.9694577641528435 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "A1610G", "A2832G", "C3037T", "T5386G", "G6513-", "T6514-", "T6515-", "C8247T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12445T", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "A19356G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "N449D", "K856R", "S2083-", "L2084I", "S2661F", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: N449D, K856R, S2083-, L2084I, S2661F, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAB", "node_attrs": { "div": 67, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-06-07 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAB" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAB" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 13 }, "totalAminoacidSubstitutions": { "value": 49 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.490055347635682 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "C2470T", "A2832G", "C3037T", "T5386G", "G6513-", "T6514-", "T6515-", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "C17010T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "C22792T", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "S2083-", "L2084I", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, S2083-, L2084I, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAC", "node_attrs": { "div": 67, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-06-10 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAC" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAC" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 51 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.607420300638369 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C8991T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "C15720T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C25731T", "C25810T", "C26028T", "C26270T", "A26530G", "C26577G", "G26709A", "A27259C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["D3G", "Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "G1307S", "A2909V", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["L140F"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3G, Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, G1307S, A2909V, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: L140F; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAD", "node_attrs": { "div": 66, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-06-13 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAD" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAD" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 50 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.805568645878097 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "A1250G", "C2790T", "C3037T", "G4184A", "C4321T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "C22792T", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "A26530G", "C26577G", "G26709A", "A27259C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "A28877T", "G28878C", "G28881A", "G28882A", "G28883C" ], "E": ["T9I"], "M": ["D3G", "Q19E", "A63T"], "N": ["P13L", "E31-", "R32-", "S33-", "R203K", "G204R"], "ORF1a": [ "S135R", "T329A", "T842I", "G1307S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3G, Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R; ORF1a: S135R, T329A, T842I, G1307S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAE", "node_attrs": { "div": 63, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-06-13 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAE" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAE" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 46 }, "ace2_binding": { "value": "-0.2679599999999999" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.1071970704766345 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "G4975A", "A6390C", "C9344T", "A9424G", "C9534T", "C9803T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "C11249T", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "G22813T", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25584T", "C26270T", "C26577G", "G26709A", "A27259C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "A28877T", "G28878C", "G28881A", "G28882A", "G28883C", "T29748C" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": ["P13L", "E31-", "R32-", "S33-", "R203K", "G204R"], "ORF1a": [ "S135R", "T842I", "G1307S", "E2042A", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "R3662C", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "K417N", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R; ORF1a: S135R, T842I, G1307S, E2042A, L3027F, T3090I, L3201F, T3255I, P3395H, R3662C, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, V213G, G339D, S371F, S373P, S375F, T376A, D405N, K417N, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, V213G, G339D, S371F, S373P, S375F, T376A, D405N, K417N, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAF", "node_attrs": { "div": 65, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-06-13 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAF" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAF" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 13 }, "totalAminoacidSubstitutions": { "value": 50 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.458513413357064 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "C2470T", "A2832G", "C3037T", "T5386G", "G6513-", "T6514-", "T6515-", "G8393A", "C10029T", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C11514T", "G11516T", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "C22792T", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "A24433G", "T24469A", "C25000T", "C25584T", "C25624T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "S2083-", "L2084I", "A2710T", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-", "T3750I", "V3751F" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["H78Y", "T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, S2083-, L2084I, A2710T, T3255I, P3395H, S3675-, G3676-, F3677-, T3750I, V3751F; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: H78Y, T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAG", "node_attrs": { "div": 66, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-06-14 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAG" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAG" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 13 }, "totalAminoacidSubstitutions": { "value": 46 }, "ace2_binding": { "value": "-0.28093999999999997" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.629745556958611 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "C2470T", "A2832G", "C2857T", "C3037T", "T5386G", "C5585A", "G6513-", "T6514-", "T6515-", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "A12334G", "C12880T", "C14408T", "C15714T", "C17410T", "C17502T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "T22200G", "G22578A", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "C22792T", "G22813T", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "L1774I", "S2083-", "L2084I", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "V213G", "G339D", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, L1774I, S2083-, L2084I, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, V213G, G339D, S373P, S375F, T376A, D405N, R408S, K417N, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, V213G, G339D, S373P, S375F, T376A, D405N, R408S, K417N, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAH", "node_attrs": { "div": 63, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-06-14 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAH" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAH" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 10 }, "totalAminoacidSubstitutions": { "value": 50 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.68296294155371 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C9344T", "A9424G", "C9534T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "G17242T", "C17410T", "A18163G", "C18246T", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "A26530G", "C26577G", "G26709A", "A27259C", "C27807T", "A28271T", "C28311T", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C" ], "E": ["T9I"], "M": ["D3G", "Q19E", "A63T"], "N": ["P13L", "E31-", "R32-", "S33G", "R203K", "G204R"], "ORF1a": [ "S135R", "T842I", "G1307S", "L3027F", "T3090I", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "A1259S", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF9b": ["P10S", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3G, Q19E, A63T; N: P13L, E31-, R32-, S33G, R203K, G204R; ORF1a: S135R, T842I, G1307S, L3027F, T3090I, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, A1259S, R1315C, I1566V, T2163I; ORF3a: T223I; ORF9b: P10S, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAJ", "node_attrs": { "div": 70, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-07-21 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAJ" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAJ" }, "immune_escape": { "value": "0.3863247170036884" }, "totalAminoacidDeletions": { "value": 14 }, "totalAminoacidSubstitutions": { "value": 51 }, "ace2_binding": { "value": "0.35483000000000003" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.808018760464463 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C11674T", "C12880T", "C14408T", "T15009C", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "T21765-", "A21766-", "C21767-", "A21768-", "T21769-", "G21770-", "G21987A", "T22200G", "G22578A", "T22679C", "C22686T", "A22688G", "G22775A", "G22813T", "T22882G", "T22917G", "G22992A", "C22995A", "A23013C", "T23018G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "A23535G", "T23599G", "C23604A", "C23673T", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25416T", "C25584T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "G1307S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "H69-", "V70-", "G142D", "V213G", "G339D", "S373P", "S375F", "T376A", "D405N", "K417N", "N440K", "L452R", "S477N", "T478K", "E484A", "F486V", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N658S", "N679K", "P681H", "S704L", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, G1307S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, G339D, S373P, S375F, T376A, D405N, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N658S, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, G339D, S373P, S375F, T376A, D405N, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N658S, N679K, P681H, S704L, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAK", "node_attrs": { "div": 68, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-07-22 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAK" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAK" }, "immune_escape": { "value": "0.2769375478127462" }, "totalAminoacidDeletions": { "value": 11 }, "totalAminoacidSubstitutions": { "value": 47 }, "ace2_binding": { "value": "1.15166" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.976190855414202 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C4927T", "T5386G", "C7834T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12049T", "C12880T", "C14408T", "C15240T", "A18163G", "T21765-", "A21766-", "C21767-", "A21768-", "T21769-", "G21770-", "G21987A", "A22001G", "T22200G", "G22578A", "G22599A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22942G", "G22992A", "C22995A", "A23013C", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C24863T", "C25000T", "C25584T", "C26060T", "C26270T", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "A27507G", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "G1307S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "I1566V"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "H69-", "V70-", "G142D", "K147E", "V213G", "G339D", "R346K", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N460K", "S477N", "T478K", "E484A", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K", "H1101Y" ] }, "labels": { "aa": "E: T9I; M: A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, G1307S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, I1566V; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: H69-, V70-, G142D, K147E, V213G, G339D, R346K, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N460K, S477N, T478K, E484A, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K, H1101Y", "spike_mutations": "H69-, V70-, G142D, K147E, V213G, G339D, R346K, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N460K, S477N, T478K, E484A, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K, H1101Y" } } }, { "name": "XAL", "node_attrs": { "div": 61, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-07-29 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAL" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAL" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 13 }, "totalAminoacidSubstitutions": { "value": 47 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.949863030860241 } }, "branch_attrs": { "mutations": { "nuc": [ "C21T", "C241T", "C2470T", "A2832G", "A2865G", "C3037T", "T5386G", "G6513-", "T6514-", "T6515-", "G8393A", "C10029T", "C10449A", "T11285-", "T11286-", "G11287-", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "A11537G", "T13195C", "C14408T", "C15240T", "A18163G", "C19955T", "A20055G", "G21586T", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "E867G", "S2083-", "L2084I", "A2710T", "T3255I", "P3395H", "L3674-", "S3675-", "G3676-", "I3758V" ], "ORF1b": ["P314L", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "L8F", "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, E867G, S2083-, L2084I, A2710T, T3255I, P3395H, L3674-, S3675-, G3676-, I3758V; ORF1b: P314L, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: L8F, T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, N764K, D796Y, Q954H, N969K", "spike_mutations": "L8F, T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAM", "node_attrs": { "div": 68, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-07-29 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAM" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAM" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 10 }, "totalAminoacidSubstitutions": { "value": 49 }, "ace2_binding": { "value": "0.75567" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.390550279176379 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "C2470T", "A2832G", "C3037T", "T5386G", "G6513-", "T6514-", "T6515-", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C11514T", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "C22792T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "A24433G", "T24469A", "C25000T", "C25584T", "C25624T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "S2083-", "L2084I", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-", "T3750I" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["H78Y", "T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, S2083-, L2084I, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-, T3750I; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: H78Y, T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAN", "node_attrs": { "div": 69, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-07-29 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAN" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAN" }, "immune_escape": { "value": "0.3863247170036884" }, "totalAminoacidDeletions": { "value": 14 }, "totalAminoacidSubstitutions": { "value": 52 }, "ace2_binding": { "value": "0.5583100000000001" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.881216549951819 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C7973A", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "C17410T", "C17822T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "T21765-", "A21766-", "C21767-", "A21768-", "T21769-", "G21770-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "T22917G", "G22992A", "C22995A", "A23013C", "T23018G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "C26577G", "G26709A", "T27438C", "T27696C", "C27807T", "C27889T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "C29666T", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-", "G29868A" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "G1307S", "L2570M", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "P1452L", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "H69-", "V70-", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "L452R", "S477N", "T478K", "E484A", "F486V", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, G1307S, L2570M, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, P1452L, I1566V, T2163I; ORF3a: T223I; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAP", "node_attrs": { "div": 63, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-07-30 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAP" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAP" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 49 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -3.8519027960650574 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C5407A", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "A26530G", "C26577G", "G26709A", "A27259C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C" ], "E": ["T9I"], "M": ["D3G", "Q19E", "A63T"], "N": ["P13L", "E31-", "R32-", "S33-", "R203K", "G204R"], "ORF1a": [ "S135R", "T842I", "G1307S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3G, Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R; ORF1a: S135R, T842I, G1307S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAQ", "node_attrs": { "div": 63, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-08-03 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAQ" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAQ" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 13 }, "totalAminoacidSubstitutions": { "value": 47 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.3673697995458065 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "A2832G", "C3037T", "C4586T", "T5386G", "G6513-", "T6514-", "T6515-", "G8393A", "C9857T", "C10029T", "C10449A", "T11285-", "T11286-", "G11287-", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "A11537G", "C12085T", "T13195C", "C14408T", "C15240T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "A23779T", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "S2083-", "L2084I", "A2710T", "T3255I", "P3395H", "L3674-", "S3675-", "G3676-", "I3758V" ], "ORF1b": ["P314L", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, S2083-, L2084I, A2710T, T3255I, P3395H, L3674-, S3675-, G3676-, I3758V; ORF1b: P314L, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAR", "node_attrs": { "div": 67, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-08-18 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAR" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAR" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 50 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.362148869835862 } }, "branch_attrs": { "mutations": { "nuc": [ "C21T", "C241T", "A2832G", "C3037T", "G4184A", "C4321T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21796T", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "G1307S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "R78S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, G1307S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, R78S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, R78S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAS", "node_attrs": { "div": 68, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-08-22 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAS" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAS" }, "immune_escape": { "value": "0.3863247170036884" }, "totalAminoacidDeletions": { "value": 14 }, "totalAminoacidSubstitutions": { "value": 51 }, "ace2_binding": { "value": "0.5583100000000001" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.397426116336084 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C9344T", "A9424G", "C9534T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "G12160A", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "T21765-", "A21766-", "C21767-", "A21768-", "T21769-", "G21770-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "T22917G", "G22992A", "C22995A", "A23013C", "T23018G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "C27945T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "G1307S", "L3027F", "T3090I", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF8": ["Q18*"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "H69-", "V70-", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "L452R", "S477N", "T478K", "E484A", "F486V", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, G1307S, L3027F, T3090I, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF8: Q18*; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAT", "node_attrs": { "div": 66, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-08-22 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAT" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAT" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 52 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.935086557334681 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C8991T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "C10277T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "C19317T", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C25810T", "C26060T", "C26270T", "A26530G", "C26577G", "G26709A", "A27259C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C" ], "E": ["T9I"], "M": ["D3G", "Q19E", "A63T"], "N": ["P13L", "E31-", "R32-", "S33-", "R203K", "G204R"], "ORF1a": [ "S135R", "T842I", "G1307S", "A2909V", "L3027F", "T3090I", "L3201F", "T3255I", "L3338F", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["L140F", "T223I"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3G, Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R; ORF1a: S135R, T842I, G1307S, A2909V, L3027F, T3090I, L3201F, T3255I, L3338F, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: L140F, T223I; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAU", "node_attrs": { "div": 70, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-08-23 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAU" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAU" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 50 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.667189355082635 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "C2470T", "A2832G", "C3037T", "G4184A", "C4321T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "T17407C", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "C22792T", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "A24433G", "T24469A", "C25000T", "C25584T", "C25624T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "G1307S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["H78Y", "T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, G1307S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: H78Y, T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAV", "node_attrs": { "div": 67, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-08-23 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAV" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAV" }, "immune_escape": { "value": "0.3863247170036884" }, "totalAminoacidDeletions": { "value": 14 }, "totalAminoacidSubstitutions": { "value": 53 }, "ace2_binding": { "value": "0.5583100000000001" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.300469633048024 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C6606T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "C15960T", "G17278T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "T21765-", "A21766-", "C21767-", "A21768-", "T21769-", "G21770-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "T22917G", "G22992A", "C22995A", "A23013C", "T23018G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "G26529A", "C26577G", "G26709A", "T27438C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["D3N", "Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "G1307S", "S2114F", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "V1271L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "H69-", "V70-", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "L452R", "S477N", "T478K", "E484A", "F486V", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3N, Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, G1307S, S2114F, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, V1271L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAW", "node_attrs": { "div": 96, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-08-25 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAW" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAW" }, "immune_escape": { "value": "0.2120001437046406" }, "totalAminoacidDeletions": { "value": 7 }, "totalAminoacidSubstitutions": { "value": 66 }, "ace2_binding": { "value": "0.91409" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.335231739307236 } }, "branch_attrs": { "mutations": { "nuc": [ "G210T", "C241T", "C335T", "G569A", "T689C", "G1048T", "G1125A", "C1973T", "C3037T", "G3246A", "G4181T", "G4561A", "C5052T", "C5167T", "G6149A", "C6402T", "T6640C", "C7124T", "G7427A", "C8986T", "G9053T", "T9676C", "C10029T", "A10323G", "A11201G", "G11330A", "A11332G", "C11866T", "C13806T", "C13994T", "C14408T", "C14585T", "G15451A", "C16466T", "C17304T", "C17550T", "A17973G", "G18525A", "C19220T", "C19290T", "C20402T", "G20493A", "C21575T", "C21618G", "C21636T", "A22029-", "G22030-", "T22031-", "T22032-", "C22033-", "A22034-", "A22194-", "T22195-", "T22196-", "T22283C", "G22289-", "C22290-", "T22291-", "T22292-", "T22293-", "A22294-", "G22578A", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22899A", "T22942A", "G22992A", "C22995A", "A23013C", "T23042C", "A23055G", "A23063T", "T23075C", "C23114T", "A23403G", "C23525T", "C23604A", "C23854A", "G23948T", "G24145A", "A24424T", "T24469A", "C25000T", "C25584T", "A25592G", "C26060T", "C26270T", "C26537T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "G28248-", "A28249-", "T28250-", "T28251-", "T28252-", "C28253-", "A28271-", "A28461G", "G28562A", "G28646A", "C28849T", "C28873T", "G28881T", "G28916T", "G29402T", "C29635T", "G29742T" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": ["D63G", "G97S", "A125T", "R203M", "G215C", "D377Y"], "ORF1a": [ "R24C", "E102K", "S142P", "K261N", "R287K", "S994N", "A1306S", "P1596L", "D1962N", "P2046L", "P2287S", "A2388T", "V2930L", "T3255I", "K3353R", "T3646A", "V3689M" ], "ORF1b": [ "A176V", "P314L", "A373V", "G662S", "P1000L", "A1918V", "S2312L" ], "ORF3a": ["K67R", "T223I"], "ORF6": ["D61L"], "ORF8": ["D119-", "F120-"], "ORF9b": ["T60A"], "S": [ "L5F", "T19R", "P25L", "E156-", "F157-", "R158G", "N211-", "L212I", "L242-", "A243-", "G339D", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "G446D", "N460K", "S477N", "T478K", "E484A", "S494P", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: D63G, G97S, A125T, R203M, G215C, D377Y; ORF1a: R24C, E102K, S142P, K261N, R287K, S994N, A1306S, P1596L, D1962N, P2046L, P2287S, A2388T, V2930L, T3255I, K3353R, T3646A, V3689M; ORF1b: A176V, P314L, A373V, G662S, P1000L, A1918V, S2312L; ORF3a: K67R, T223I; ORF6: D61L; ORF8: D119-, F120-; ORF9b: T60A; S: L5F, T19R, P25L, E156-, F157-, R158G, N211-, L212I, L242-, A243-, G339D, S373P, S375F, T376A, D405N, R408S, K417N, N440K, G446D, N460K, S477N, T478K, E484A, S494P, Q498R, N501Y, Y505H, D614G, H655Y, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "L5F, T19R, P25L, E156-, F157-, R158G, N211-, L212I, L242-, A243-, G339D, S373P, S375F, T376A, D405N, R408S, K417N, N440K, G446D, N460K, S477N, T478K, E484A, S494P, Q498R, N501Y, Y505H, D614G, H655Y, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XAZ", "node_attrs": { "div": 67, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-08-27 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XAZ" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAZ" }, "immune_escape": { "value": "0.3863247170036884" }, "totalAminoacidDeletions": { "value": 14 }, "totalAminoacidSubstitutions": { "value": 52 }, "ace2_binding": { "value": "0.5583100000000001" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -3.7614895994452606 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C1912T", "C2232T", "C2790T", "C3037T", "C3317T", "T3358C", "G4184A", "C4321T", "C9344T", "A9424G", "C9534T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "G12160A", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "T21765-", "A21766-", "C21767-", "A21768-", "T21769-", "G21770-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "T22917G", "G22992A", "C22995A", "A23013C", "T23018G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "G26529A", "C26577G", "G26709A", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["D3N", "Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "A656V", "T842I", "P1018S", "G1307S", "L3027F", "T3090I", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "H69-", "V70-", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "L452R", "S477N", "T478K", "E484A", "F486V", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3N, Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, A656V, T842I, P1018S, G1307S, L3027F, T3090I, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XB", "node_attrs": { "div": 29, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2021-11-18 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 1 }, "partiallyAliased": { "value": "XB" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XB" }, "totalAminoacidDeletions": { "value": 5 }, "totalAminoacidSubstitutions": { "value": 22 }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -3.6711263187046215 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "C3037T", "C3688T", "C3884T", "C6633T", "A7142G", "A9614G", "C9693T", "A9754C", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C14408T", "G15451A", "C16466T", "C21057T", "T21615G", "C21846T", "A22036C", "A23403G", "C23604A", "C23625T", "T23765G", "C24442T", "C24642T", "G26158-", "T26159-", "T26160-", "A26161-", "C26222T", "C27389T", "C27769T", "G28048A", "A28271-", "A28330G", "C28854T", "A28910T" ], "N": ["S194L", "N213Y"], "ORF1a": [ "P1207S", "A2123V", "S2293G", "T3117A", "A3143V", "R3163S", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "G662S", "P1000L"], "ORF3a": ["V256-", "N257-"], "ORF7b": ["S5L"], "ORF8": ["R52K"], "ORF9b": ["D16G"], "S": [ "L18R", "T95I", "R158S", "D614G", "P681H", "A688V", "S735A", "T1027I" ] }, "labels": { "aa": "N: S194L, N213Y; ORF1a: P1207S, A2123V, S2293G, T3117A, A3143V, R3163S, S3675-, G3676-, F3677-; ORF1b: P314L, G662S, P1000L; ORF3a: V256-, N257-; ORF7b: S5L; ORF8: R52K; ORF9b: D16G; S: L18R, T95I, R158S, D614G, P681H, A688V, S735A, T1027I", "spike_mutations": "L18R, T95I, R158S, D614G, P681H, A688V, S735A, T1027I" } } }, { "name": "XBA", "node_attrs": { "div": 69, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-09-14 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBA" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBA" }, "immune_escape": { "value": "0.3155024998230031" }, "totalAminoacidDeletions": { "value": 4 }, "totalAminoacidSubstitutions": { "value": 62 }, "ace2_binding": { "value": "0.20215999999999995" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -6.17928558526935 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4181T", "C6402T", "C7124T", "C8595T", "C8986T", "G9053T", "C10029T", "A11201G", "A11332G", "G13812T", "C14408T", "C14790T", "C15026T", "G15451A", "C16466T", "C19220T", "C21614T", "C21618G", "C21846T", "G21987A", "G22017T", "A22029-", "G22030-", "T22031-", "T22032-", "C22033-", "A22034-", "T22118C", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22899A", "C22916A", "T22917G", "A22991G", "G22992A", "C22995A", "A23013C", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C24912T", "C25413T", "C25469T", "T26767C", "T27638C", "A27663T", "C27752T", "C27874T", "G28248-", "A28249-", "T28250-", "T28251-", "T28252-", "C28253-", "A28271-", "C28311T", "A28461G", "G28881A", "G28882A", "G28883C", "G29402T", "G29742T" ], "M": ["I82T"], "N": ["P13L", "D63G", "R203K", "G204R", "D377Y"], "ORF1a": [ "S135R", "T842I", "A1306S", "P2046L", "P2287S", "T2777I", "V2930L", "T3255I", "T3646A" ], "ORF1b": [ "M115I", "P314L", "A520V", "G662S", "P1000L", "A1918V" ], "ORF3a": ["S26L"], "ORF7a": ["V82A", "Q90H", "T120I"], "ORF7b": ["T40I"], "ORF8": ["D119-", "F120-"], "ORF9b": ["P10S", "T60A"], "S": [ "L18F", "T19R", "T95I", "G142D", "W152L", "E156-", "F157-", "R158G", "F186L", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "G446D", "L452R", "S477D", "T478K", "E484A", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K", "T1117I" ] }, "labels": { "aa": "M: I82T; N: P13L, D63G, R203K, G204R, D377Y; ORF1a: S135R, T842I, A1306S, P2046L, P2287S, T2777I, V2930L, T3255I, T3646A; ORF1b: M115I, P314L, A520V, G662S, P1000L, A1918V; ORF3a: S26L; ORF7a: V82A, Q90H, T120I; ORF7b: T40I; ORF8: D119-, F120-; ORF9b: P10S, T60A; S: L18F, T19R, T95I, G142D, W152L, E156-, F157-, R158G, F186L, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, G446D, L452R, S477D, T478K, E484A, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K, T1117I", "spike_mutations": "L18F, T19R, T95I, G142D, W152L, E156-, F157-, R158G, F186L, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, G446D, L452R, S477D, T478K, E484A, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K, T1117I" } } }, { "name": "XBD", "node_attrs": { "div": 82, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-10-12 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBD" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBD" }, "immune_escape": { "value": "0.6338793782833749" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 64 }, "ace2_binding": { "value": "0.4677" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.555782671041611 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "C3796T", "C3927T", "G4184A", "C4321T", "C4586T", "C5183T", "C5192T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "A12444G", "C12880T", "C14408T", "G15451A", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "A22001G", "T22016C", "C22033A", "A22190G", "T22200G", "G22331A", "G22577C", "G22578A", "G22599C", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22898A", "T22942G", "G22992A", "C22995A", "A23013C", "T23019C", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "G24620T", "C25000T", "C25584T", "C26060T", "C26270T", "G26529A", "C26577G", "G26709A", "A27038G", "C27807T", "C27889T", "A28271T", "C28311T", "A28330G", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["D3N", "Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "S1221L", "G1307S", "P1640S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-", "N4060S" ], "ORF1b": ["P314L", "G662S", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF9b": ["P10S", "D16G", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "K147E", "W152R", "F157L", "I210V", "V213G", "G257S", "G339H", "R346T", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "G446S", "N460K", "S477N", "T478K", "E484A", "F486S", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K", "A1020S" ] }, "labels": { "aa": "E: T9I; M: D3N, Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, S1221L, G1307S, P1640S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-, N4060S; ORF1b: P314L, G662S, R1315C, I1566V, T2163I; ORF3a: T223I; ORF9b: P10S, D16G, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, I210V, V213G, G257S, G339H, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, G446S, N460K, S477N, T478K, E484A, F486S, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K, A1020S", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, I210V, V213G, G257S, G339H, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, G446S, N460K, S477N, T478K, E484A, F486S, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K, A1020S" } } }, { "name": "XBE", "node_attrs": { "div": 71, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-10-22 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBE" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBE" }, "immune_escape": { "value": "0.6014234018422104" }, "totalAminoacidDeletions": { "value": 14 }, "totalAminoacidSubstitutions": { "value": 53 }, "ace2_binding": { "value": "0.6697299999999999" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.459184815504169 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C1627T", "C2790T", "C3037T", "G4184A", "C4321T", "C9344T", "A9424G", "C9534T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "G12160A", "G12310A", "C12880T", "C14408T", "C15714T", "C16616A", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "T21765-", "A21766-", "C21767-", "A21768-", "T21769-", "G21770-", "G21987A", "T22200G", "G22578A", "G22599C", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "T22917G", "G22992A", "C22995A", "A23013C", "T23018G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "G26529A", "C26577G", "G26709A", "C27800T", "C27807T", "C27889T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28681T", "G28881A", "G28882A", "G28883C", "A29510C", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-", "G29868A" ], "E": ["T9I"], "M": ["D3N", "Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "E136D", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "G1307S", "L3027F", "T3090I", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "T1050N", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "H69-", "V70-", "G142D", "V213G", "G339D", "R346T", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "L452R", "S477N", "T478K", "E484A", "F486V", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3N, Q19E, A63T; N: P13L, E31-, R32-, S33-, E136D, R203K, G204R, S413R; ORF1a: S135R, T842I, G1307S, L3027F, T3090I, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, T1050N, R1315C, I1566V, T2163I; ORF3a: T223I; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, G339D, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, V213G, G339D, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XBG", "node_attrs": { "div": 74, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-11-14 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBG" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBG" }, "immune_escape": { "value": "0.6014234018422104" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 56 }, "ace2_binding": { "value": "0.6697299999999999" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.976190855414202 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10116T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C11665T", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "A19812G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "T22304A", "G22578A", "G22599C", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "T22917G", "G22992A", "C22995A", "A23013C", "T23018G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "A24676G", "C25000T", "C25584T", "C26060T", "T26180C", "C26270T", "G26529A", "C26577G", "G26709A", "C27012T", "C27513T", "C27807T", "C27889T", "A28271T", "C28311T", "A28330G", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["D3N", "Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "G1307S", "L3027F", "T3090I", "L3201F", "T3255I", "T3284I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I", "I263T"], "ORF9b": ["P10S", "D16G", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "Y248N", "G339D", "R346T", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "L452R", "S477N", "T478K", "E484A", "F486V", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3N, Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, G1307S, L3027F, T3090I, L3201F, T3255I, T3284I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I, I263T; ORF9b: P10S, D16G, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, Y248N, G339D, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, Y248N, G339D, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XBH", "node_attrs": { "div": 79, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-11-16 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBH" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBH" }, "immune_escape": { "value": "0.6338793782833749" }, "totalAminoacidDeletions": { "value": 6 }, "totalAminoacidSubstitutions": { "value": 60 }, "ace2_binding": { "value": "0.37244999999999995" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.939842354175258 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C7528T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C13730T", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "A22001G", "T22016C", "C22033A", "A22190G", "T22200G", "G22331A", "G22577C", "G22578A", "G22599C", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "G22813T", "T22882G", "G22898A", "T22942G", "G22992A", "C22995A", "A23013C", "T23019C", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "G25157A", "C25416T", "C25584T", "C26060T", "C26270T", "A26275G", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28881A", "G28882A", "G28883C", "A29510C", "A29735-", "G29736-", "C29738-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-" ], "E": ["T9I", "T11A"], "M": ["Q19E", "A63T"], "N": ["P13L", "R203K", "G204R", "S413R"], "ORF1a": [ "S135R", "T842I", "G1307S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["A88V", "P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "K147E", "W152R", "F157L", "I210V", "V213G", "G257S", "G339H", "R346T", "S371F", "S373P", "S375F", "T376A", "D405N", "K417N", "N440K", "G446S", "N460K", "S477N", "T478K", "E484A", "F486S", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K", "D1199N" ] }, "labels": { "aa": "E: T9I, T11A; M: Q19E, A63T; N: P13L, R203K, G204R, S413R; ORF1a: S135R, T842I, G1307S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: A88V, P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S; S: T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, I210V, V213G, G257S, G339H, R346T, S371F, S373P, S375F, T376A, D405N, K417N, N440K, G446S, N460K, S477N, T478K, E484A, F486S, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K, D1199N", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, I210V, V213G, G257S, G339H, R346T, S371F, S373P, S375F, T376A, D405N, K417N, N440K, G446S, N460K, S477N, T478K, E484A, F486S, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K, D1199N" } } }, { "name": "XBL", "node_attrs": { "div": 95, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-01-09 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBL" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBL" }, "immune_escape": { "value": "0.9070012868097488" }, "totalAminoacidDeletions": { "value": 3 }, "totalAminoacidSubstitutions": { "value": 67 }, "ace2_binding": { "value": "1.0124" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.675179801001587 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "A405G", "T670G", "C2790T", "C3037T", "G3446A", "C3796T", "C3927T", "G4184A", "C4321T", "C4586T", "C5183T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "C12880T", "C14408T", "G15451A", "C15714T", "C15738T", "T15939C", "T16342C", "C17410T", "T17859C", "A18163G", "A19326G", "C19955T", "A20055G", "A20379G", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "T21810C", "G21987A", "C22000A", "C22109G", "T22200A", "G22317T", "G22577C", "G22578A", "G22599C", "C22664A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22895C", "T22896C", "G22898A", "T22942G", "G22992A", "C22995A", "A23013C", "T23018C", "T23019C", "T23031C", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25416T", "C25584T", "C26060T", "C26270T", "A26275G", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "G27915T", "A28271T", "C28311T", "C28312T", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I", "T11A"], "M": ["Q19E", "A63T"], "N": ["P13L", "R203K", "G204R", "S413R"], "ORF1a": [ "K47R", "S135R", "T842I", "A1061T", "S1221L", "G1307S", "P1640S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H" ], "ORF1b": [ "P314L", "G662S", "S959P", "R1315C", "I1566V", "T2163I" ], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF8": ["G8*"], "ORF9b": ["P10F"], "S": [ "L24-", "P25-", "P26-", "A27S", "V83A", "G142D", "H146Q", "Q183E", "V213E", "G252V", "G339H", "R346T", "L368I", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "V445P", "G446S", "N460K", "S477N", "T478K", "E484A", "F486P", "F490S", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I, T11A; M: Q19E, A63T; N: P13L, R203K, G204R, S413R; ORF1a: K47R, S135R, T842I, A1061T, S1221L, G1307S, P1640S, L3027F, T3090I, L3201F, T3255I, P3395H; ORF1b: P314L, G662S, S959P, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF8: G8*; ORF9b: P10F; S: L24-, P25-, P26-, A27S, V83A, G142D, H146Q, Q183E, V213E, G252V, G339H, R346T, L368I, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, V445P, G446S, N460K, S477N, T478K, E484A, F486P, F490S, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "L24-, P25-, P26-, A27S, V83A, G142D, H146Q, Q183E, V213E, G252V, G339H, R346T, L368I, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, V445P, G446S, N460K, S477N, T478K, E484A, F486P, F490S, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XBM", "node_attrs": { "div": 73, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-01-09 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBM" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBM" }, "immune_escape": { "value": "0.6014234018422104" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 57 }, "ace2_binding": { "value": "0.6697299999999999" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.589257401425265 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "A19812G", "G19891A", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "T22304A", "G22578A", "G22599C", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "T22917G", "G22992A", "C22995A", "A23013C", "T23018G", "A23055G", "A23063T", "T23075C", "C23202T", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "G24620T", "C25000T", "C25584T", "C26060T", "C26270T", "G26529A", "C26577G", "G26709A", "A27038G", "C27549T", "C27807T", "C27889T", "A28271T", "C28311T", "A28330G", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["D3N", "Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "G1307S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "D2142N", "T2163I"], "ORF3a": ["T223I"], "ORF9b": ["P10S", "D16G", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "Y248N", "G339D", "R346T", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "L452R", "S477N", "T478K", "E484A", "F486V", "Q498R", "N501Y", "Y505H", "T547I", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K", "A1020S" ] }, "labels": { "aa": "E: T9I; M: D3N, Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, G1307S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, D2142N, T2163I; ORF3a: T223I; ORF9b: P10S, D16G, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, Y248N, G339D, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, T547I, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K, A1020S", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, Y248N, G339D, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, T547I, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K, A1020S" } } }, { "name": "XBN", "node_attrs": { "div": 93, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-01-14 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBN" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBN" }, "immune_escape": { "value": "0.9070012868097488" }, "totalAminoacidDeletions": { "value": 13 }, "totalAminoacidSubstitutions": { "value": 65 }, "ace2_binding": { "value": "0.40686999999999995" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.273083832558392 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "A2863G", "C3037T", "C3796T", "C3927T", "G4184A", "C4321T", "C4586T", "C5183T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "G15451A", "C15714T", "C15738T", "T15939C", "T16342C", "C17410T", "T17859C", "A18163G", "A19326G", "A19459G", "C19554T", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "T21810C", "G21987A", "T21992-", "A21993-", "T21994-", "C22000A", "C22109G", "T22200A", "G22577C", "G22578A", "G22599C", "C22664A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22895C", "T22896C", "G22898A", "T22942G", "G22992A", "C22995A", "A23013C", "T23019C", "T23031C", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25416T", "C25584T", "C25638T", "C26060T", "C26270T", "A26275G", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-" ], "E": ["T9I", "T11A"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "S1221L", "G1307S", "P1640S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": [ "P314L", "G662S", "S959P", "R1315C", "I1566V", "I1998V", "T2163I" ], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "V83A", "G142D", "Y144-", "H146Q", "Q183E", "V213E", "G339H", "R346T", "L368I", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "V445P", "G446S", "N460K", "S477N", "T478K", "E484A", "F486S", "F490S", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I, T11A; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, S1221L, G1307S, P1640S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, G662S, S959P, R1315C, I1566V, I1998V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, V83A, G142D, Y144-, H146Q, Q183E, V213E, G339H, R346T, L368I, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, V445P, G446S, N460K, S477N, T478K, E484A, F486S, F490S, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, V83A, G142D, Y144-, H146Q, Q183E, V213E, G339H, R346T, L368I, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, V445P, G446S, N460K, S477N, T478K, E484A, F486S, F490S, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XBP", "node_attrs": { "div": 78, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-01-30 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBP" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBP" }, "immune_escape": { "value": "0.3863247170036884" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 59 }, "ace2_binding": { "value": "0.5583100000000001" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.083395521659721 } }, "branch_attrs": { "mutations": { "nuc": [ "G204A", "C241T", "T670G", "C2790T", "C3037T", "C3796T", "C3927T", "G4184A", "C4321T", "C4586T", "C5183T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "A12444G", "C12880T", "C12952T", "C14408T", "G15451A", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "A22001G", "T22016C", "C22033A", "A22190G", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "T22917G", "G22992A", "C22995A", "A23013C", "T23018G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "T23773C", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "G26529A", "C26577G", "G26709A", "C27807T", "C27889T", "A28271T", "C28311T", "C28312T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["D3N", "Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "S1221L", "G1307S", "P1640S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-", "N4060S" ], "ORF1b": ["P314L", "G662S", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF9b": ["P10F", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "K147E", "W152R", "F157L", "I210V", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "L452R", "S477N", "T478K", "E484A", "F486V", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3N, Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, S1221L, G1307S, P1640S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-, N4060S; ORF1b: P314L, G662S, R1315C, I1566V, T2163I; ORF3a: T223I; ORF9b: P10F, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, I210V, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, I210V, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XBQ", "node_attrs": { "div": 88, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-02-19 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBQ" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBQ" }, "immune_escape": { "value": "0.8366421653363688" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 66 }, "ace2_binding": { "value": "1.04277" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.845493221198309 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C1627T", "C2790T", "C3037T", "C3796T", "C3927T", "G4184A", "C4321T", "C4586T", "C5183T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "A12444G", "C12880T", "C14408T", "G14829T", "G15451A", "C15714T", "C17410T", "A18163G", "G18583A", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "A22001G", "T22016C", "C22033A", "A22190G", "T22200G", "G22331A", "G22577C", "G22578A", "G22599C", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22898A", "T22942G", "G22992A", "C22995A", "A23013C", "T23018C", "T23019C", "T23031C", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25416T", "C25584T", "C26060T", "C26270T", "A26275G", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I", "T11A"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "S1221L", "G1307S", "P1640S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-", "N4060S" ], "ORF1b": [ "P314L", "M454I", "G662S", "R1315C", "I1566V", "V1706I", "T2163I" ], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "K147E", "W152R", "F157L", "I210V", "V213G", "G257S", "G339H", "R346T", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "G446S", "N460K", "S477N", "T478K", "E484A", "F486P", "F490S", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I, T11A; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, S1221L, G1307S, P1640S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-, N4060S; ORF1b: P314L, M454I, G662S, R1315C, I1566V, V1706I, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, I210V, V213G, G257S, G339H, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, G446S, N460K, S477N, T478K, E484A, F486P, F490S, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, I210V, V213G, G257S, G339H, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, G446S, N460K, S477N, T478K, E484A, F486P, F490S, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XBR", "node_attrs": { "div": 90, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-02-19 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBR" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBR" }, "immune_escape": { "value": "0.8313780783921618" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 69 }, "ace2_binding": { "value": "0.77543" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.578194027944162 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C1093T", "G1440A", "A1964G", "C2790T", "C3037T", "C3796T", "C3927T", "G4184A", "C4321T", "C4586T", "C5183T", "A5844G", "C8597T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "T12440C", "A12444G", "C12880T", "C14408T", "G15451A", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21077T", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "A22001G", "T22016C", "C22033A", "T22200G", "G22578A", "G22599C", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "C22855T", "T22882G", "A22893C", "T22917G", "T22942A", "G22992A", "C22995A", "A23013C", "T23018G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "G25471C", "C25553T", "T25569C", "C25584T", "G26031A", "C26060T", "C26270T", "G26529A", "C26577G", "G26709A", "C27807T", "C27889T", "A28271T", "C28311T", "C28312T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28681T", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["D3N", "Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "E136D", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "G392D", "I567V", "T842I", "S1221L", "G1307S", "P1640S", "K1860R", "L2778F", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-", "N4060S" ], "ORF1b": [ "P314L", "G662S", "R1315C", "I1566V", "T2163I", "T2537I" ], "ORF3a": ["D27H", "A54V", "T223I"], "ORF9b": ["P10F", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "K147E", "W152R", "F157L", "V213G", "G339D", "R346T", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "K444T", "L452R", "N460K", "S477N", "T478K", "E484A", "F486V", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3N, Q19E, A63T; N: P13L, E31-, R32-, S33-, E136D, R203K, G204R, S413R; ORF1a: S135R, G392D, I567V, T842I, S1221L, G1307S, P1640S, K1860R, L2778F, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-, N4060S; ORF1b: P314L, G662S, R1315C, I1566V, T2163I, T2537I; ORF3a: D27H, A54V, T223I; ORF9b: P10F, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, V213G, G339D, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, K444T, L452R, N460K, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, V213G, G339D, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, K444T, L452R, N460K, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XBS", "node_attrs": { "div": 82, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-02-19 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBS" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBS" }, "immune_escape": { "value": "0.8313780783921618" }, "totalAminoacidDeletions": { "value": 15 }, "totalAminoacidSubstitutions": { "value": 64 }, "ace2_binding": { "value": "0.77543" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.138909543525272 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "G510-", "T511-", "C512-", "A513-", "T514-", "G515-", "T516-", "T517-", "A518-", "T670G", "C2790T", "C2842T", "C3037T", "C3796T", "C3809T", "C3927T", "G4184A", "C4321T", "C4586T", "C5183T", "C6982T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "A12444G", "C12880T", "C14408T", "G15451A", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "T20748C", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "A22001G", "T22016C", "C22033A", "T22200G", "G22578A", "G22599C", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "A22893C", "T22917G", "T22942A", "G22992A", "C22995A", "A23013C", "T23018G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "G26529A", "C26577G", "G26709A", "C27807T", "C27889T", "A28271T", "C28311T", "C28312T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28681T", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["D3N", "Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "E136D", "R203K", "G204R", "S413R" ], "ORF1a": [ "G82-", "H83-", "V84-", "M85V", "S135R", "T842I", "L1182F", "S1221L", "G1307S", "P1640S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-", "N4060S" ], "ORF1b": ["P314L", "G662S", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF9b": ["P10F", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "K147E", "W152R", "F157L", "V213G", "G339D", "R346T", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "K444T", "L452R", "N460K", "S477N", "T478K", "E484A", "F486V", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3N, Q19E, A63T; N: P13L, E31-, R32-, S33-, E136D, R203K, G204R, S413R; ORF1a: G82-, H83-, V84-, M85V, S135R, T842I, L1182F, S1221L, G1307S, P1640S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-, N4060S; ORF1b: P314L, G662S, R1315C, I1566V, T2163I; ORF3a: T223I; ORF9b: P10F, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, V213G, G339D, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, K444T, L452R, N460K, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, V213G, G339D, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, K444T, L452R, N460K, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XBT", "node_attrs": { "div": 81, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-02-19 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBT" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBT" }, "immune_escape": { "value": "0.6115138664553013" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 61 }, "ace2_binding": { "value": "0.64255" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.733160924305909 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C829T", "C1627T", "C2790T", "C3037T", "A3207G", "G4184A", "G4288A", "C4321T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "A12444G", "C12880T", "C14408T", "G15451A", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "A22001G", "T22016C", "C22033A", "A22190G", "T22200G", "G22331A", "G22577C", "G22578A", "G22599C", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "T22917G", "G22992A", "C22995A", "A23013C", "T23018G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "G23587A", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "G26529A", "C26577G", "G26709A", "C27012T", "C27513T", "C27807T", "C27889T", "A28271T", "C28311T", "A28330G", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["D3N", "Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "D981G", "G1307S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-", "N4060S" ], "ORF1b": ["P314L", "G662S", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF9b": ["P10S", "D16G", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "K147E", "W152R", "F157L", "I210V", "V213G", "G257S", "G339H", "R346T", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "L452R", "S477N", "T478K", "E484A", "F486V", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3N, Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, D981G, G1307S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-, N4060S; ORF1b: P314L, G662S, R1315C, I1566V, T2163I; ORF3a: T223I; ORF9b: P10S, D16G, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, I210V, V213G, G257S, G339H, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, I210V, V213G, G257S, G339H, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, L452R, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XBU", "node_attrs": { "div": 87, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-03-19 00:00:00" }, "designation_recency": { "value": "4-8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBU" }, "qc.overallScore": { "value": 62.673611 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBU" }, "immune_escape": { "value": "0.8391726960276329" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 66 }, "ace2_binding": { "value": "0.74825" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.879299783657512 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "C3796T", "C3927T", "G4184A", "C4321T", "C4586T", "C5183T", "C5192T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "C11124T", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "A12444G", "C12880T", "T13324C", "C14408T", "G15451A", "C15714T", "C17410T", "A18163G", "G18583A", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "A22001G", "T22016C", "C22033A", "A22190G", "T22200G", "G22331A", "G22577C", "G22578A", "G22599C", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "A22893C", "T22917G", "T22942A", "G22992A", "C22995A", "A23013C", "T23018G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "A26275G", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I", "T11A"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "S1221L", "G1307S", "P1640S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "A3620V", "S3675-", "G3676-", "F3677-", "N4060S" ], "ORF1b": [ "P314L", "G662S", "R1315C", "I1566V", "V1706I", "T2163I" ], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "K147E", "W152R", "F157L", "I210V", "V213G", "G257S", "G339H", "R346T", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "K444T", "L452R", "N460K", "S477N", "T478K", "E484A", "F486V", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I, T11A; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, S1221L, G1307S, P1640S, L3027F, T3090I, L3201F, T3255I, P3395H, A3620V, S3675-, G3676-, F3677-, N4060S; ORF1b: P314L, G662S, R1315C, I1566V, V1706I, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, I210V, V213G, G257S, G339H, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, K444T, L452R, N460K, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, I210V, V213G, G257S, G339H, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, K444T, L452R, N460K, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XBV", "node_attrs": { "div": 89, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-03-19 00:00:00" }, "designation_recency": { "value": "4-8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBV" }, "qc.overallScore": { "value": 779.340278 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBV" }, "immune_escape": { "value": "0.9100655380041298" }, "totalAminoacidDeletions": { "value": 13 }, "totalAminoacidSubstitutions": { "value": 66 }, "ace2_binding": { "value": "0.32919999999999994" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.335231739307236 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C1627T", "C2790T", "C3037T", "G4184A", "C4321T", "A8040G", "C9344T", "A9424G", "C9534T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "G12160A", "G12310A", "C12880T", "C14408T", "C15714T", "G15957T", "C16616A", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "T21810C", "G21987A", "T21992-", "A21993-", "T21994-", "C22000A", "C22109G", "T22200A", "G22317T", "G22577C", "G22578A", "G22599C", "C22664A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22895C", "T22896C", "G22898A", "T22942G", "G22992A", "C22995A", "A23013C", "T23019C", "T23031C", "A23055G", "A23063T", "T23075C", "C23123A", "A23223G", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24170G", "A24424T", "T24469A", "C25000T", "C25416T", "C25584T", "C26060T", "C26270T", "A26275G", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "G27915T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C" ], "E": ["T9I", "T11A"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "G1307S", "D2592G", "L3027F", "T3090I", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "T1050N", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF8": ["G8*"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "V83A", "G142D", "Y144-", "H146Q", "Q183E", "V213E", "G252V", "G339H", "R346T", "L368I", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "V445P", "G446S", "N460K", "S477N", "T478K", "E484A", "F486S", "F490S", "Q498R", "N501Y", "Y505H", "P521T", "E554G", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "I870V", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I, T11A; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, G1307S, D2592G, L3027F, T3090I, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, T1050N, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF8: G8*; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, V83A, G142D, Y144-, H146Q, Q183E, V213E, G252V, G339H, R346T, L368I, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, V445P, G446S, N460K, S477N, T478K, E484A, F486S, F490S, Q498R, N501Y, Y505H, P521T, E554G, D614G, H655Y, N679K, P681H, N764K, D796Y, I870V, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, V83A, G142D, Y144-, H146Q, Q183E, V213E, G252V, G339H, R346T, L368I, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, V445P, G446S, N460K, S477N, T478K, E484A, F486S, F490S, Q498R, N501Y, Y505H, P521T, E554G, D614G, H655Y, N679K, P681H, N764K, D796Y, I870V, Q954H, N969K" } } }, { "name": "XBW", "node_attrs": { "div": 90, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-03-19 00:00:00" }, "designation_recency": { "value": "4-8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBW" }, "qc.overallScore": { "value": 667.361111 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBW" }, "immune_escape": { "value": "0.9070012868097488" }, "totalAminoacidDeletions": { "value": 13 }, "totalAminoacidSubstitutions": { "value": 64 }, "ace2_binding": { "value": "1.0124" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.083419766313437 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "A405G", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "G15451A", "C15714T", "C15738T", "T15939C", "T16342C", "T17124C", "C17410T", "T17859C", "A18163G", "A19326G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "T21810C", "G21987A", "T21992-", "A21993-", "T21994-", "C22000A", "C22109G", "T22200A", "G22317T", "G22577C", "G22578A", "G22599C", "T22612C", "C22664A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22895C", "T22896C", "G22898A", "T22942G", "G22992A", "C22995A", "A23013C", "T23018C", "T23019C", "T23031C", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "C24130T", "A24424T", "T24469A", "C25000T", "C25416T", "C25584T", "C26060T", "C26270T", "G26529A", "C26577G", "G26709A", "C27807T", "C27889T", "A28271T", "C28311T", "C28312T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28681T", "G28881A", "G28882A", "G28883C", "G29260A", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["D3N", "Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "E136D", "R203K", "G204R", "S413R" ], "ORF1a": [ "K47R", "S135R", "T842I", "G1307S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": [ "P314L", "G662S", "S959P", "R1315C", "I1566V", "T2163I" ], "ORF3a": ["T223I"], "ORF9b": ["P10F", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "V83A", "G142D", "Y144-", "H146Q", "Q183E", "V213E", "G252V", "G339H", "R346T", "L368I", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "V445P", "G446S", "N460K", "S477N", "T478K", "E484A", "F486P", "F490S", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3N, Q19E, A63T; N: P13L, E31-, R32-, S33-, E136D, R203K, G204R, S413R; ORF1a: K47R, S135R, T842I, G1307S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, G662S, S959P, R1315C, I1566V, T2163I; ORF3a: T223I; ORF9b: P10F, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, V83A, G142D, Y144-, H146Q, Q183E, V213E, G252V, G339H, R346T, L368I, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, V445P, G446S, N460K, S477N, T478K, E484A, F486P, F490S, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, V83A, G142D, Y144-, H146Q, Q183E, V213E, G252V, G339H, R346T, L368I, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, V445P, G446S, N460K, S477N, T478K, E484A, F486P, F490S, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XBY", "node_attrs": { "div": 91, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-03-19 00:00:00" }, "designation_recency": { "value": "4-8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBY" }, "qc.overallScore": { "value": 29.340278 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBY" }, "immune_escape": { "value": "0.8366421653363688" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 66 }, "ace2_binding": { "value": "1.04277" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.578194027944162 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "C3796T", "C3927T", "G4184A", "C4321T", "C4586T", "C5183T", "C5812T", "C9344T", "A9424G", "C9532T", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "A12444G", "C12880T", "C14408T", "G15451A", "C15714T", "C17410T", "A18163G", "C19955T", "G19962T", "A20055G", "C21054T", "G21305A", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "A22001G", "T22016C", "C22033A", "A22190G", "T22200G", "G22331A", "G22577C", "G22578A", "G22599C", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22898A", "T22942G", "G22992A", "C22995A", "A23013C", "T23018C", "T23019C", "T23031C", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25416T", "C25584T", "C26060T", "C26270T", "A26275G", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "T28137A", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I", "T11A"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "S1221L", "G1307S", "P1640S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-", "N4060S" ], "ORF1b": [ "P314L", "G662S", "R1315C", "I1566V", "T2163I", "R2613H" ], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF8": ["S82T"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "K147E", "W152R", "F157L", "I210V", "V213G", "G257S", "G339H", "R346T", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "G446S", "N460K", "S477N", "T478K", "E484A", "F486P", "F490S", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I, T11A; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, S1221L, G1307S, P1640S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-, N4060S; ORF1b: P314L, G662S, R1315C, I1566V, T2163I, R2613H; ORF3a: T223I; ORF6: D61L; ORF8: S82T; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, I210V, V213G, G257S, G339H, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, G446S, N460K, S477N, T478K, E484A, F486P, F490S, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, I210V, V213G, G257S, G339H, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, G446S, N460K, S477N, T478K, E484A, F486P, F490S, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XBZ", "node_attrs": { "div": 76, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-03-28 00:00:00" }, "designation_recency": { "value": "3-4 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBZ" }, "qc.overallScore": { "value": 189.0625 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBZ" }, "immune_escape": { "value": "0.8313780783921618" }, "totalAminoacidDeletions": { "value": 15 }, "totalAminoacidSubstitutions": { "value": 57 }, "ace2_binding": { "value": "0.77543" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.937274412887294 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C1627T", "C2790T", "T2954C", "C3037T", "G4184A", "C4321T", "C6040T", "C9344T", "A9424G", "C9534T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C11750T", "G12160A", "C12880T", "T14257C", "C14408T", "C15714T", "G16935A", "A17039G", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "T21765-", "A21766-", "C21767-", "A21768-", "T21769-", "G21770-", "G21987A", "T21992-", "A21993-", "T21994-", "T22200G", "G22578A", "G22599C", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "C22858T", "T22882G", "A22893C", "T22917G", "T22942A", "G22992A", "C22995A", "A23013C", "T23018G", "A23055G", "A23063T", "T23075C", "C23086T", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25584T", "C26060T", "C26270T", "G26428T", "G26709A", "C27807T", "C27889T", "A28271T", "C28311T", "C28312T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28681T", "G28881A", "G28882A", "G28883C", "A29510C", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I", "V62F"], "M": ["A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "E136D", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "G1307S", "L3027F", "T3090I", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-", "L3829F" ], "ORF1b": [ "Y264H", "P314L", "M1156I", "N1191S", "R1315C", "I1566V", "T2163I" ], "ORF3a": ["T223I"], "ORF9b": ["P10F", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "H69-", "V70-", "G142D", "Y144-", "V213G", "G339D", "R346T", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "K444T", "L452R", "N460K", "S477N", "T478K", "E484A", "F486V", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I, V62F; M: A63T; N: P13L, E31-, R32-, S33-, E136D, R203K, G204R, S413R; ORF1a: S135R, T842I, G1307S, L3027F, T3090I, T3255I, P3395H, S3675-, G3676-, F3677-, L3829F; ORF1b: Y264H, P314L, M1156I, N1191S, R1315C, I1566V, T2163I; ORF3a: T223I; ORF9b: P10F, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, Y144-, V213G, G339D, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, K444T, L452R, N460K, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, H69-, V70-, G142D, Y144-, V213G, G339D, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, K444T, L452R, N460K, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XC", "node_attrs": { "div": 39, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2021-11-29 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XC" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XC" }, "totalAminoacidDeletions": { "value": 2 }, "totalAminoacidSubstitutions": { "value": 30 }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.402004322155197 } }, "branch_attrs": { "mutations": { "nuc": [ "G210T", "C241T", "C3037T", "G4181T", "C5239T", "T5514C", "C6402T", "C7124T", "C8986T", "G9053T", "C10029T", "A11201G", "A11332G", "C14408T", "G15451A", "C16466T", "C19220T", "C21618G", "C21846T", "G21987A", "A22029-", "G22030-", "T22031-", "T22032-", "C22033-", "A22034-", "G22081T", "T22917G", "C22995A", "A23403G", "C23604G", "G24410A", "C25469T", "T26767C", "G27390T", "C27972T", "G28048T", "A28111G", "A28271-", "G28280C", "A28281T", "T28282A", "G28881A", "G28882A", "G28883C", "C28977T" ], "M": ["I82T"], "N": ["D3L", "R203K", "G204R", "S235F"], "ORF1a": [ "A1306S", "V1750A", "P2046L", "P2287S", "V2930L", "T3255I", "T3646A" ], "ORF1b": ["P314L", "G662S", "P1000L", "A1918V"], "ORF3a": ["S26L"], "ORF8": ["Q27*", "R52I", "Y73C"], "S": [ "T19R", "T95I", "G142D", "E156-", "F157-", "R158G", "Q173H", "L452R", "T478K", "D614G", "P681R", "D950N" ] }, "labels": { "aa": "M: I82T; N: D3L, R203K, G204R, S235F; ORF1a: A1306S, V1750A, P2046L, P2287S, V2930L, T3255I, T3646A; ORF1b: P314L, G662S, P1000L, A1918V; ORF3a: S26L; ORF8: Q27*, R52I, Y73C; S: T19R, T95I, G142D, E156-, F157-, R158G, Q173H, L452R, T478K, D614G, P681R, D950N", "spike_mutations": "T19R, T95I, G142D, E156-, F157-, R158G, Q173H, L452R, T478K, D614G, P681R, D950N" } } }, { "name": "XCA", "node_attrs": { "div": 93, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-04-03 00:00:00" }, "designation_recency": { "value": "2-3 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XCA" }, "qc.overallScore": { "value": 291.840278 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XCA" }, "immune_escape": { "value": "0.8391726960276329" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 70 }, "ace2_binding": { "value": "0.74825" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.034201743643255 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2062T", "C2790T", "C3037T", "C3796T", "C3927T", "G4184A", "C4321T", "C4586T", "C5183T", "C5192T", "C5748A", "C9344T", "A9424G", "T9454C", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "C11124T", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "A12444G", "C12880T", "T13324C", "C14408T", "G15451A", "C15714T", "C17410T", "A18163G", "G18583A", "C19017T", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21893A", "G21987A", "A22001G", "T22016C", "C22033A", "A22190G", "T22200G", "G22331A", "G22577C", "G22578A", "G22599C", "C22674T", "T22679C", "C22686T", "A22688G", "C22747T", "G22775A", "A22786C", "G22813T", "T22882G", "A22893C", "T22917G", "T22942A", "G22992A", "C22995A", "A23013C", "T23018G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "C23595T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "T25975C", "C26060T", "C26270T", "G26529A", "C26577G", "G26709A", "C27807T", "C27889T", "A28271T", "C28311T", "C28312T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28681T", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-", "T29760-", "A29761-", "C29762-", "A29763-", "G29764-" ], "E": ["T9I"], "M": ["D3N", "Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "E136D", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "S1221L", "G1307S", "P1640S", "T1828N", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "A3620V", "S3675-", "G3676-", "F3677-", "N4060S" ], "ORF1b": [ "P314L", "G662S", "R1315C", "I1566V", "V1706I", "T2163I" ], "ORF3a": ["S195P", "T223I"], "ORF9b": ["P10F", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "D111N", "G142D", "K147E", "W152R", "F157L", "I210V", "V213G", "G257S", "G339H", "R346T", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "K444T", "L452R", "N460K", "S477N", "T478K", "E484A", "F486V", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "T678I", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3N, Q19E, A63T; N: P13L, E31-, R32-, S33-, E136D, R203K, G204R, S413R; ORF1a: S135R, T842I, S1221L, G1307S, P1640S, T1828N, L3027F, T3090I, L3201F, T3255I, P3395H, A3620V, S3675-, G3676-, F3677-, N4060S; ORF1b: P314L, G662S, R1315C, I1566V, V1706I, T2163I; ORF3a: S195P, T223I; ORF9b: P10F, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, D111N, G142D, K147E, W152R, F157L, I210V, V213G, G257S, G339H, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, K444T, L452R, N460K, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, T678I, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, D111N, G142D, K147E, W152R, F157L, I210V, V213G, G257S, G339H, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, K444T, L452R, N460K, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, T678I, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XCB", "node_attrs": { "div": 70, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-04-14 00:00:00" }, "designation_recency": { "value": "3-7 days" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XCB" }, "qc.overallScore": { "value": 367.361111 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XCB" }, "immune_escape": { "value": "0.630694401494532" }, "totalAminoacidDeletions": { "value": 15 }, "totalAminoacidSubstitutions": { "value": 52 }, "ace2_binding": { "value": "1.41968" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.402178528937849 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C9344T", "A9424G", "C9534T", "C10029T", "C10198T", "G10447A", "C10449A", "A11126G", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "G12160A", "G12311A", "C12880T", "C14408T", "C14724T", "C15714T", "C17410T", "A18163G", "G18651A", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "T21765-", "A21766-", "C21767-", "A21768-", "T21769-", "G21770-", "T22200G", "G22302-", "T22303-", "T22304-", "T22348A", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "T22882G", "A22893C", "T22917G", "T22942A", "G22992A", "C22995A", "A23013C", "T23018G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25584T", "C26060T", "C26270T", "G26709A", "C27600T", "C27807T", "C27889T", "A28271T", "T28282C", "C28311T", "C28312T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28681T", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "E136D", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "G1307S", "L3027F", "T3090I", "T3255I", "P3395H", "M3621V", "S3675-", "G3676-", "F3677-", "A4016T" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF9b": ["P10F", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "H69-", "V70-", "V213G", "S247-", "Y248N", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "N440K", "K444T", "L452R", "N460K", "S477N", "T478K", "E484A", "F486V", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: A63T; N: P13L, E31-, R32-, S33-, E136D, R203K, G204R, S413R; ORF1a: S135R, T842I, G1307S, L3027F, T3090I, T3255I, P3395H, M3621V, S3675-, G3676-, F3677-, A4016T; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF9b: P10F, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, H69-, V70-, V213G, S247-, Y248N, G339D, S371F, S373P, S375F, T376A, D405N, R408S, N440K, K444T, L452R, N460K, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, H69-, V70-, V213G, S247-, Y248N, G339D, S371F, S373P, S375F, T376A, D405N, R408S, N440K, K444T, L452R, N460K, S477N, T478K, E484A, F486V, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XD", "node_attrs": { "div": 65, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-03-16 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XD" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XD" }, "immune_escape": { "value": "0.1527575222195948" }, "totalAminoacidDeletions": { "value": 5 }, "totalAminoacidSubstitutions": { "value": 56 }, "ace2_binding": { "value": "-0.029110000000000004" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.871956963319046 } }, "branch_attrs": { "mutations": { "nuc": [ "G210T", "C241T", "A1321C", "C3037T", "G4181T", "C6402T", "C7124T", "C7851T", "A8723G", "C8986T", "G9053T", "C10029T", "A11201G", "A11332G", "C14407T", "C14408T", "T15264C", "G15451A", "C16466T", "C19220T", "C21618G", "G21641T", "C21846T", "G21987A", "A22029-", "G22030-", "T22031-", "T22032-", "C22033-", "A22034-", "A22194-", "T22195-", "T22196-", "G22578A", "T22673C", "C22674T", "T22679C", "C22686T", "G22813T", "T22882G", "G22898A", "G22992A", "C22995A", "A23013C", "A23040G", "G23048A", "A23055G", "A23063T", "T23075C", "C23202A", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "C24130A", "A24424T", "T24469A", "C24503T", "C25000T", "C25667T", "G25855T", "T26767C", "T27638C", "C27752T", "C27874T", "G28248-", "A28249-", "T28250-", "T28251-", "T28252-", "C28253-", "A28271-", "A28461G", "G28881T", "G28916T", "G29402T", "G29540A", "G29645T", "G29742T" ], "M": ["I82T"], "N": ["D63G", "R203M", "G215C", "D377Y"], "ORF1a": [ "E352D", "A1306S", "P2046L", "P2287S", "A2529V", "I2820V", "V2930L", "T3255I", "T3646A" ], "ORF1b": ["P314F", "G662S", "P1000L", "A1918V"], "ORF3a": ["S92L", "D155Y"], "ORF7a": ["V82A", "T120I"], "ORF7b": ["T40I"], "ORF8": ["D119-", "F120-"], "ORF9b": ["T60A"], "S": [ "T19R", "A27S", "T95I", "G142D", "E156-", "F157-", "R158G", "N211-", "L212I", "G339D", "S371L", "S373P", "S375F", "K417N", "N440K", "G446S", "S477N", "T478K", "E484A", "Q493R", "G496S", "Q498R", "N501Y", "Y505H", "T547K", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "N856K", "Q954H", "N969K", "L981F" ] }, "labels": { "aa": "M: I82T; N: D63G, R203M, G215C, D377Y; ORF1a: E352D, A1306S, P2046L, P2287S, A2529V, I2820V, V2930L, T3255I, T3646A; ORF1b: P314F, G662S, P1000L, A1918V; ORF3a: S92L, D155Y; ORF7a: V82A, T120I; ORF7b: T40I; ORF8: D119-, F120-; ORF9b: T60A; S: T19R, A27S, T95I, G142D, E156-, F157-, R158G, N211-, L212I, G339D, S371L, S373P, S375F, K417N, N440K, G446S, S477N, T478K, E484A, Q493R, G496S, Q498R, N501Y, Y505H, T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F", "spike_mutations": "T19R, A27S, T95I, G142D, E156-, F157-, R158G, N211-, L212I, G339D, S371L, S373P, S375F, K417N, N440K, G446S, S477N, T478K, E484A, Q493R, G496S, Q498R, N501Y, Y505H, T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F" } } }, { "name": "XE", "node_attrs": { "div": 62, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-03-16 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XE" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XE" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 13 }, "totalAminoacidSubstitutions": { "value": 48 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -3.662072983552421 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "A2832G", "C3037T", "C3241T", "T5386G", "G5924A", "G6513-", "T6514-", "T6515-", "G8393A", "C10029T", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C14599T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "V1887I", "S2083-", "L2084I", "A2710T", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, V1887I, S2083-, L2084I, A2710T, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XF", "node_attrs": { "div": 57, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-03-16 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XF" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XF" }, "totalAminoacidDeletions": { "value": 16 }, "totalAminoacidSubstitutions": { "value": 47 }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.315856411186152 } }, "branch_attrs": { "mutations": { "nuc": [ "G210T", "C241T", "T1390C", "A2255G", "C3037T", "G4181T", "G6513-", "T6514-", "T6515-", "G8393A", "C10029T", "C10449A", "T11285-", "T11286-", "G11287-", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "A11537G", "T13195C", "C14408T", "C15240T", "A18163G", "C21762T", "T21765-", "A21766-", "C21767-", "A21768-", "T21769-", "G21770-", "C21846T", "G21987-", "T21988-", "G21989-", "T21990-", "T21991-", "T21992-", "A21993-", "T21994-", "T21995-", "A22194-", "T22195-", "T22196-", "G22578A", "T22673C", "C22674T", "T22679C", "C22686T", "G22813T", "T22882G", "G22898A", "G22992A", "C22995A", "A23013C", "A23040G", "G23048A", "A23055G", "A23063T", "T23075C", "C23202A", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "C24130A", "A24424T", "T24469A", "C24503T", "C25000T", "C25584T", "C26270T", "A26530G", "C26577G", "G26709A", "A27259C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "C29632T" ], "E": ["T9I"], "M": ["D3G", "Q19E", "A63T"], "N": ["P13L", "E31-", "R32-", "S33-", "R203K", "G204R"], "ORF1a": [ "I664V", "A1306S", "S2083-", "L2084I", "A2710T", "T3255I", "P3395H", "L3674-", "S3675-", "G3676-", "I3758V" ], "ORF1b": ["P314L", "I1566V"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "A67V", "H69-", "V70-", "T95I", "G142-", "V143-", "Y144-", "Y145D", "N211-", "L212I", "G339D", "S371L", "S373P", "S375F", "K417N", "N440K", "G446S", "S477N", "T478K", "E484A", "Q493R", "G496S", "Q498R", "N501Y", "Y505H", "T547K", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "N856K", "Q954H", "N969K", "L981F" ] }, "labels": { "aa": "E: T9I; M: D3G, Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R; ORF1a: I664V, A1306S, S2083-, L2084I, A2710T, T3255I, P3395H, L3674-, S3675-, G3676-, I3758V; ORF1b: P314L, I1566V; ORF9b: P10S, E27-, N28-, A29-; S: A67V, H69-, V70-, T95I, G142-, V143-, Y144-, Y145D, N211-, L212I, G339D, S371L, S373P, S375F, K417N, N440K, G446S, S477N, T478K, E484A, Q493R, G496S, Q498R, N501Y, Y505H, T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F", "spike_mutations": "A67V, H69-, V70-, T95I, G142-, V143-, Y144-, Y145D, N211-, L212I, G339D, S371L, S373P, S375F, K417N, N440K, G446S, S477N, T478K, E484A, Q493R, G496S, Q498R, N501Y, Y505H, T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F" } } }, { "name": "XG", "node_attrs": { "div": 66, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-03-25 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XG" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XG" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 9 }, "totalAminoacidSubstitutions": { "value": 48 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.497800192822621 } }, "branch_attrs": { "mutations": { "nuc": [ "C21T", "C241T", "A2832G", "C3037T", "T5386G", "C5672T", "G5924A", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "A19855G", "C19955T", "A20055G", "C21618T", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "C22792T", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25584T", "C26060T", "C26270T", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C" ], "E": ["T9I"], "M": ["A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "P1803S", "V1887I", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "I2130V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, P1803S, V1887I, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, I2130V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XH", "node_attrs": { "div": 62, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-03-25 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XH" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XH" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 10 }, "totalAminoacidSubstitutions": { "value": 48 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.919050304455758 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T902C", "C904A", "G1244A", "A2832G", "C3037T", "T5386G", "G6513-", "T6514-", "T6515-", "G8393A", "C10029T", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "C22792T", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25584T", "C25624T", "C26060T", "C26270T", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "C28435T", "G28881A", "G28882A", "G28883C", "A29510C" ], "E": ["T9I"], "M": ["A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "C213R", "G327S", "K856R", "S2083-", "L2084I", "A2710T", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["H78Y", "T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-", "P51L"], "S": [ "T19I", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: C213R, G327S, K856R, S2083-, L2084I, A2710T, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: H78Y, T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-, P51L; S: T19I, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XJ", "node_attrs": { "div": 65, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-03-25 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XJ" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XJ" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 11 }, "totalAminoacidSubstitutions": { "value": 51 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.739409716720062 } }, "branch_attrs": { "mutations": { "nuc": [ "C21T", "C241T", "A2832G", "C3037T", "C3241T", "T5386G", "G5924A", "G6513-", "T6514-", "T6515-", "G8393A", "C10029T", "C10449A", "G11287-", "T11288-", "C11289-", "A11537G", "T13195C", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "C22792T", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "C27945T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "V1887I", "S2083-", "L2084I", "A2710T", "T3255I", "P3395H", "L3674-", "S3675F", "I3758V" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF8": ["Q18*"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, V1887I, S2083-, L2084I, A2710T, T3255I, P3395H, L3674-, S3675F, I3758V; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF8: Q18*; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XK", "node_attrs": { "div": 59, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-03-25 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XK" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XK" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 13 }, "totalAminoacidSubstitutions": { "value": 45 }, "ace2_binding": { "value": "-3.62446" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.259511025369118 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "A2832G", "C3037T", "C5147T", "T5386G", "G6513-", "T6514-", "T6515-", "G8393A", "C10029T", "C10449A", "T11285-", "T11286-", "G11287-", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "A11537G", "T13195C", "C14408T", "C15240T", "A16064G", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "C22792T", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23403G", "C23525T", "T23599G", "C23604A", "A23767G", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "R1628C", "S2083-", "L2084I", "A2710T", "T3255I", "P3395H", "L3674-", "S3675-", "G3676-", "I3758V" ], "ORF1b": ["P314L", "Q866R", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, R1628C, S2083-, L2084I, A2710T, T3255I, P3395H, L3674-, S3675-, G3676-, I3758V; ORF1b: P314L, Q866R, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XL", "node_attrs": { "div": 68, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-03-25 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XL" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XL" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 13 }, "totalAminoacidSubstitutions": { "value": 51 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.868004008714221 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "C875T", "A2832G", "C3037T", "C3241T", "T5386G", "G5924A", "G6513-", "T6514-", "T6515-", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "G14229A", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "L204F", "K856R", "V1887I", "S2083-", "L2084I", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: L204F, K856R, V1887I, S2083-, L2084I, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XM", "node_attrs": { "div": 60, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-03-31 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XM" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XM" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 13 }, "totalAminoacidSubstitutions": { "value": 46 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.080153831452656 } }, "branch_attrs": { "mutations": { "nuc": [ "C21T", "C241T", "C2470T", "A2832G", "C3037T", "T5386G", "G6513-", "T6514-", "T6515-", "G8393A", "C10029T", "C10449A", "T11285-", "T11286-", "G11287-", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "A11537G", "T13195C", "C14408T", "C15240T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C" ], "E": ["T9I"], "M": ["A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "S2083-", "L2084I", "A2710T", "T3255I", "P3395H", "L3674-", "S3675-", "G3676-", "I3758V" ], "ORF1b": ["P314L", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, S2083-, L2084I, A2710T, T3255I, P3395H, L3674-, S3675-, G3676-, I3758V; ORF1b: P314L, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XN", "node_attrs": { "div": 67, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-04-01 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XN" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XN" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 50 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.467024888406752 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "A2832G", "C3037T", "G4184A", "C4321T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "G10986A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "C22792T", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "G1307S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "R3574K", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, G1307S, L3027F, T3090I, L3201F, T3255I, P3395H, R3574K, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XP", "node_attrs": { "div": 59, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-04-01 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 1 }, "partiallyAliased": { "value": "XP" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XP" }, "immune_escape": { "value": "0.358730338846468" }, "totalAminoacidDeletions": { "value": 17 }, "totalAminoacidSubstitutions": { "value": 49 }, "ace2_binding": { "value": "0.023200000000000068" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.331873965440395 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "C2470T", "A2832G", "C3037T", "T5386G", "G6513-", "T6514-", "T6515-", "G8393A", "C10029T", "C10449A", "T11285-", "T11286-", "G11287-", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "A11537G", "T13195C", "C14408T", "C15240T", "A18163G", "C21762T", "T21765-", "A21766-", "C21767-", "A21768-", "T21769-", "G21770-", "C21846T", "G21987-", "T21988-", "G21989-", "T21990-", "T21991-", "T21992-", "A21993-", "T21994-", "T21995-", "A22194-", "T22195-", "T22196-", "G22578A", "G22599A", "T22673C", "C22674T", "T22679C", "C22686T", "G22813T", "T22882G", "G22898A", "G22992A", "C22995A", "A23013C", "A23040G", "G23048A", "A23055G", "A23063T", "T23075C", "C23202A", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "C24130A", "A24190C", "A24424T", "T24469A", "C24503T", "C25000T", "C25584T", "C26270T", "A26530G", "C26577G", "G26709A", "C26880A", "A27259C", "C27807T", "A28254-", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["D3G", "Q19E", "A63T", "L120I"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "S2083-", "L2084I", "A2710T", "T3255I", "P3395H", "L3674-", "S3675-", "G3676-", "I3758V" ], "ORF1b": ["P314L", "I1566V"], "ORF8": ["I121-"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "A67V", "H69-", "V70-", "T95I", "G142-", "V143-", "Y144-", "Y145D", "N211-", "L212I", "G339D", "R346K", "S371L", "S373P", "S375F", "K417N", "N440K", "G446S", "S477N", "T478K", "E484A", "Q493R", "G496S", "Q498R", "N501Y", "Y505H", "T547K", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "N856K", "Q954H", "N969K", "L981F" ] }, "labels": { "aa": "E: T9I; M: D3G, Q19E, A63T, L120I; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, S2083-, L2084I, A2710T, T3255I, P3395H, L3674-, S3675-, G3676-, I3758V; ORF1b: P314L, I1566V; ORF8: I121-; ORF9b: P10S, E27-, N28-, A29-; S: A67V, H69-, V70-, T95I, G142-, V143-, Y144-, Y145D, N211-, L212I, G339D, R346K, S371L, S373P, S375F, K417N, N440K, G446S, S477N, T478K, E484A, Q493R, G496S, Q498R, N501Y, Y505H, T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F", "spike_mutations": "A67V, H69-, V70-, T95I, G142-, V143-, Y144-, Y145D, N211-, L212I, G339D, R346K, S371L, S373P, S375F, K417N, N440K, G446S, S477N, T478K, E484A, Q493R, G496S, Q498R, N501Y, Y505H, T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F" } } }, { "name": "XQ", "node_attrs": { "div": 66, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-04-01 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XQ" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XQ" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 49 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.491938816779143 } }, "branch_attrs": { "mutations": { "nuc": [ "C21T", "C241T", "C2470T", "A2832G", "C3037T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "C17410T", "A17615G", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "K1383R", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, K1383R, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XR", "node_attrs": { "div": 66, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-04-01 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XR" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XR" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 47 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.86031743907051 } }, "branch_attrs": { "mutations": { "nuc": [ "C21T", "C241T", "C2470T", "C3037T", "C4893T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "G13295A", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "A25524G", "C25584T", "C26060T", "G26709A", "C26858T", "C27131T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "M": ["A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "T1543I", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-", "D4344N" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "M: A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: T1543I, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-, D4344N; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XS", "node_attrs": { "div": 61, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-04-01 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 1 }, "partiallyAliased": { "value": "XS" }, "qc.overallScore": { "value": 56.25 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XS" }, "totalAminoacidDeletions": { "value": 15 }, "totalAminoacidSubstitutions": { "value": 20 }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.782631108848958 } }, "branch_attrs": { "mutations": { "nuc": [ "G210T", "C241T", "C3037T", "G4181T", "C5365T", "C6196T", "C6402T", "C7124T", "C8986T", "G9053T", "C10029T", "C10449A", "T11285-", "T11286-", "G11287-", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "A11537G", "T13195C", "C14408T", "C15240T", "A18163G", "C21595T", "C21762T", "T21765-", "A21766-", "C21767-", "A21768-", "T21769-", "G21770-", "C21846T", "G21987-", "T21988-", "G21989-", "T21990-", "T21991-", "T21992-", "A21993-", "T21994-", "T21995-", "T22196-", "G22578A", "G22599A", "T22673C", "C22674T", "T22679C", "C22686T", "G22813T", "T22882G", "G22898A", "G22992A", "C22995A", "A23013C", "A23040G", "G23048A", "A23055G", "A23063T", "T23075C", "C23202A", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "C24130A", "A24424T", "T24469A", "C24503T", "C25000T", "C25584T", "C26270T", "A26530G", "C26577G", "G26709A", "A27259C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C" ], "E": ["T9I"], "M": ["D3G", "Q19E", "A63T"], "N": ["P13L", "E31-", "R32-", "S33-", "R203K", "G204R"], "ORF1a": [ "A1306S", "P2046L", "P2287S", "V2930L", "T3255I", "P3395H", "L3674-", "S3675-", "G3676-", "I3758V" ], "ORF1b": ["P314L", "I1566V"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "A67V", "H69-", "V70-", "T95I", "G142-", "V143-", "Y144-", "Y145D", "L212-" ] }, "labels": { "aa": "E: T9I; M: D3G, Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R; ORF1a: A1306S, P2046L, P2287S, V2930L, T3255I, P3395H, L3674-, S3675-, G3676-, I3758V; ORF1b: P314L, I1566V; ORF9b: P10S, E27-, N28-, A29-; S: A67V, H69-, V70-, T95I, G142-, V143-, Y144-, Y145D, L212-", "spike_mutations": "A67V, H69-, V70-, T95I, G142-, V143-, Y144-, Y145D, L212-" } } }, { "name": "XT", "node_attrs": { "div": 62, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-04-14 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XT" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XT" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 49 }, "ace2_binding": { "value": "-0.17270999999999995" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -5.209963045884496 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C9344T", "A9424G", "C9534T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C13994T", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21786T", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "A26530G", "C26577G", "G26709A", "A27259C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C" ], "E": ["T9I"], "M": ["D3G", "Q19E", "A63T"], "N": ["P13L", "E31-", "R32-", "S33-", "R203K", "G204R"], "ORF1a": [ "S135R", "T842I", "G1307S", "L3027F", "T3090I", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["A176V", "P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G75V", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3G, Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R; ORF1a: S135R, T842I, G1307S, L3027F, T3090I, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: A176V, P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G75V, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G75V, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XU", "node_attrs": { "div": 63, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-04-19 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XU" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XU" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 47 }, "ace2_binding": { "value": "-0.09525000000000007" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.527449395585741 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "A2832G", "T5386G", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25416T", "C25584T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XV", "node_attrs": { "div": 60, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-05-11 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XV" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XV" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 10 }, "totalAminoacidSubstitutions": { "value": 45 }, "ace2_binding": { "value": "-0.17270999999999995" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.948959118047933 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "A2832G", "C3037T", "C3583T", "T5386G", "G6513-", "T6514-", "T6515-", "G8393A", "C10029T", "C10449A", "T11285-", "T11286-", "G11287-", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "A11537G", "T13195C", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "C22792T", "G22813T", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C" ], "E": ["T9I"], "M": ["A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "S2083-", "L2084I", "A2710T", "T3255I", "P3395H", "L3674-", "S3675-", "G3676-", "I3758V" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, S2083-, L2084I, A2710T, T3255I, P3395H, L3674-, S3675-, G3676-, I3758V; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XW", "node_attrs": { "div": 68, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-05-12 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XW" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XW" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 49 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.925057274218187 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "C2470T", "A2832G", "C3037T", "G4184A", "C4321T", "C9344T", "A9424G", "C9534T", "C10029T", "C10198T", "G10447A", "C10449A", "C10507T", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12756T", "C12880T", "C14408T", "C15714T", "G16020T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "G1307S", "L3027F", "T3090I", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-", "T4164I" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, G1307S, L3027F, T3090I, T3255I, P3395H, S3675-, G3676-, F3677-, T4164I; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XY", "node_attrs": { "div": 68, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-05-18 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XY" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XY" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 13 }, "totalAminoacidSubstitutions": { "value": 49 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.978783552574302 } }, "branch_attrs": { "mutations": { "nuc": [ "C21T", "C241T", "A1585G", "C2470T", "A2832G", "C3037T", "T5386G", "G6513-", "T6514-", "T6515-", "G8393A", "C10029T", "C10449A", "T11049C", "T11285-", "T11286-", "G11287-", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "A11537G", "C12085T", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "A22351G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "C22792T", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26058T", "C26060T", "C26270T", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "K856R", "S2083-", "L2084I", "A2710T", "T3255I", "P3395H", "V3595A", "L3674-", "S3675-", "G3676-", "I3758V" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I"], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: K856R, S2083-, L2084I, A2710T, T3255I, P3395H, V3595A, L3674-, S3675-, G3676-, I3758V; ORF1b: P314L, R1315C, I1566V, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "XZ", "node_attrs": { "div": 64, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-06-03 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XZ" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XZ" }, "immune_escape": { "value": "-0.00008999595024645948" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 50 }, "ace2_binding": { "value": "-0" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.17038210189321 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "C12880T", "C14408T", "C15714T", "C17410T", "A18163G", "C19955T", "A20055G", "G20398A", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "C22792T", "G22813T", "T22882G", "G22992A", "C22995A", "A23013C", "A23040G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C26060T", "C26270T", "A26530G", "C26577G", "G26709A", "A27259C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C" ], "E": ["T9I"], "M": ["D3G", "Q19E", "A63T"], "N": ["P13L", "E31-", "R32-", "S33-", "R203K", "G204R"], "ORF1a": [ "S135R", "T842I", "G1307S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-" ], "ORF1b": ["P314L", "R1315C", "I1566V", "T2163I", "E2311K"], "ORF3a": ["T223I"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "V213G", "G339D", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "S477N", "T478K", "E484A", "Q493R", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I; M: D3G, Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R; ORF1a: S135R, T842I, G1307S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-; ORF1b: P314L, R1315C, I1566V, T2163I, E2311K; ORF3a: T223I; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, S477N, T478K, E484A, Q493R, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } } }, { "name": "internal_XBK", "node_attrs": { "div": 88, "clade_who": { "value": "recombinant" }, "clade_nextstrain": { "value": "recombinant" }, "partiallyAliased": { "value": "XBK" }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBK" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.65891216208127 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C1627T", "C2790T", "C3037T", "C3796T", "C3927T", "G4184A", "C4321T", "C4586T", "C5183T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "A12444G", "T12574C", "C12880T", "C14408T", "G15451A", "C15714T", "C17410T", "A18163G", "G18583A", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "A22001G", "T22016C", "C22033A", "A22190G", "T22200G", "G22331A", "G22577C", "G22578A", "G22599C", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22898A", "T22942G", "G22992A", "C22995A", "A23013C", "T23018C", "T23019C", "T23031C", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25416T", "C25584T", "C26060T", "C26270T", "A26275G", "C26577G", "G26709A", "C26858T", "A27259C", "G27382C", "A27383T", "T27384C", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", "G29747-", "T29748-", "A29749-", "C29750-", "G29751-", "A29752-", "T29753-", "C29754-", "G29755-", "A29756-", "G29757-", "T29758-", "G29759-" ], "E": ["T9I", "T11A"], "M": ["Q19E", "A63T"], "N": [ "P13L", "E31-", "R32-", "S33-", "R203K", "G204R", "S413R" ], "ORF1a": [ "S135R", "T842I", "S1221L", "G1307S", "P1640S", "L3027F", "T3090I", "L3201F", "T3255I", "P3395H", "S3675-", "G3676-", "F3677-", "N4060S" ], "ORF1b": [ "P314L", "G662S", "R1315C", "I1566V", "V1706I", "T2163I" ], "ORF3a": ["T223I"], "ORF6": ["D61L"], "ORF9b": ["P10S", "E27-", "N28-", "A29-"], "S": [ "T19I", "L24-", "P25-", "P26-", "A27S", "G142D", "K147E", "W152R", "F157L", "I210V", "V213G", "G257S", "G339H", "R346T", "S371F", "S373P", "S375F", "T376A", "D405N", "R408S", "K417N", "N440K", "G446S", "N460K", "S477N", "T478K", "E484A", "F486P", "F490S", "Q498R", "N501Y", "Y505H", "D614G", "H655Y", "N679K", "P681H", "N764K", "D796Y", "Q954H", "N969K" ] }, "labels": { "aa": "E: T9I, T11A; M: Q19E, A63T; N: P13L, E31-, R32-, S33-, R203K, G204R, S413R; ORF1a: S135R, T842I, S1221L, G1307S, P1640S, L3027F, T3090I, L3201F, T3255I, P3395H, S3675-, G3676-, F3677-, N4060S; ORF1b: P314L, G662S, R1315C, I1566V, V1706I, T2163I; ORF3a: T223I; ORF6: D61L; ORF9b: P10S, E27-, N28-, A29-; S: T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, I210V, V213G, G257S, G339H, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, G446S, N460K, S477N, T478K, E484A, F486P, F490S, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K", "spike_mutations": "T19I, L24-, P25-, P26-, A27S, G142D, K147E, W152R, F157L, I210V, V213G, G257S, G339H, R346T, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, G446S, N460K, S477N, T478K, E484A, F486P, F490S, Q498R, N501Y, Y505H, D614G, H655Y, N679K, P681H, N764K, D796Y, Q954H, N969K" } }, "children": [ { "name": "XBK.1", "node_attrs": { "div": 89, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-02-19 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBK.1" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBK.1" }, "immune_escape": { "value": "0.8366421653363688" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 66 }, "ace2_binding": { "value": "1.04277" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.320991300192627 } }, "branch_attrs": { "mutations": { "nuc": ["C25046T"], "S": ["P1162S"] }, "labels": { "aa": "S: P1162S", "spike_mutations": "P1162S" } } }, { "name": "XBK", "node_attrs": { "div": 88, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-12-15 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBK" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBK" }, "immune_escape": { "value": "0.8366421653363688" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 65 }, "ace2_binding": { "value": "1.04277" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -4.65891216208127 } }, "branch_attrs": { "mutations": {} } } ] }, { "name": "internal_XBJ", "node_attrs": { "div": 88, "clade_who": { "value": "recombinant" }, "clade_nextstrain": { "value": "recombinant" }, "partiallyAliased": { "value": "XBJ" }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBJ" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -6.055163802201213 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C1471T", "C2445T", "C2790T", "C3037T", "G3072A", "G4184A", "C4321T", "T5406C", "A6770G", "C6786T", "C8016T", "C8208T", "C8991T", "C9344T", "A9424G", "C9534T", "C9866T", "C10029T", "C10189T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "A12030G", "C12880T", "C14408T", "C15714T", "C17410T", "C17678T", "A18163G", "C18252T", "C19955T", "A20055G", "C21618T", "T21633-", "A21634-", "C21635-", "C21636-", "C21637-", "C21638-", "C21639-", "T21640-", "G21641-", "G21987A", "T22020C", "T22054G", "T22200G", "C22295A", "G22332A", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "A22893G", "A22910G", "C22916A", "T22942G", "G22992A", "C22995A", "G23012A", "A23013G", "A23055G", "A23063T", "T23075C", "A23403G", "C23525T", "T23599G", "C23604A", "C23854A", "G23948T", "A24424T", "T24469A", "C25000T", "C25584T", "C25896T", "C26060T", "C26270T", "G26529A", "C26577G", "G26709A", "C27012T", "C27513T", "C27807T", "C27889T", "A28271T", "C28311T", "A28330G", "G28362-", "A28363-", 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{ "value": "recombinant" }, "clade_nextstrain": { "value": "recombinant" }, "partiallyAliased": { "value": "XBJ" }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBJ" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -6.055163802201213 } }, "branch_attrs": { "mutations": {} }, "children": [ { "name": "XBJ.2", "node_attrs": { "div": 90, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2023-03-19 00:00:00" }, "designation_recency": { "value": "4-8 weeks" }, "clade_nextstrain": { "value": "recombinant" }, "totalFrameShifts": { "value": 0 }, "partiallyAliased": { "value": "XBJ.2" }, "qc.overallScore": { "value": 0 }, "qc.stopCodons.totalStopCodons": { "value": 0 }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XBJ.2" }, "immune_escape": { "value": "0.592503786408845" }, "totalAminoacidDeletions": { "value": 12 }, "totalAminoacidSubstitutions": { "value": 68 }, 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"value": "recombinant" }, "placement_prior": { "value": -5.277239792329549 } }, "branch_attrs": { "mutations": { "nuc": [ "A253G", "C21682T", "G23016A", "T24349C", "C25452T", "C27741T", "C27847T", "G28857A" ], "N": ["R195K"], "ORF7b": ["S31L"], "S": ["G485D"] }, "labels": { "aa": "N: R195K; ORF7b: S31L; S: G485D", "spike_mutations": "G485D" } } } ] } ] } ] }, { "name": "internal_XAY", "node_attrs": { "div": 77, "clade_who": { "value": "recombinant" }, "clade_nextstrain": { "value": "recombinant" }, "partiallyAliased": { "value": "XAY" }, "clade_membership": { "value": "recombinant" }, "Nextclade_pango": { "value": "XAY" }, "clade_legacy": { "value": "recombinant" }, "placement_prior": { "value": -6.656542784532218 } }, "branch_attrs": { "mutations": { "nuc": [ "C241T", "T670G", "C2790T", "C3037T", "G4184A", "C4321T", "C4456T", "C5869T", "C7124T", "C8595T", "C8986T", "G9053T", "C10029T", "C10198T", "G10447A", "C10449A", "T11288-", "C11289-", "T11290-", "G11291-", "G11292-", "T11293-", "T11294-", "T11295-", "T11296-", "G12163A", "C12747T", "C12880T", "C14408T", "C15026T", "G15451A", "C16466T", "C19220T", "C21614T", "C21618G", "A21623G", "C21846T", "G21987A", "G22017T", "A22029-", "G22030-", "T22031-", "T22032-", "C22033-", "A22034-", "T22118C", "T22200G", "G22578A", "C22674T", "T22679C", "C22686T", "A22688G", "G22775A", "A22786C", "G22813T", "T22882G", "G22899A", "C22916A", "T22917G", "G22992A", "C22995A", "A23013C", "T23018C", "T23019C", "A23055G", "A23063T", "T23075C", "A23403G", "C23423T", "C23525T", "T23599G", "C23604A", "C23679T", "C23854A", "G23948T", "A24424T", "T24469A", "C24912T", "C25413T", "C25469T", "C26681T", "T26767C", "G26959A", "C27575G", "C27807T", "A28271T", "C28311T", "G28362-", "A28363-", "G28364-", "A28365-", "A28366-", "C28367-", "G28368-", "C28369-", "A28370-", "G28881A", "G28882A", "G28883C", "A29510C", "G29734-", "A29735-", "G29736-", "G29737-", "C29738-", "C29739-", "A29740-", "C29741-", "G29742-", "C29743-", "G29744-", "G29745-", "A29746-", 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P2287S, T2777I, V2930L, T3255I, P3395H, S3675-, G3676-, F3677-, T4161I; ORF1b: P314L, A520V, G662S, P1000L, A1918V; ORF3a: S26L; ORF7a: T61S; ORF9b: P10S, E27-, N28-, A29-; S: L18F, T19R, R21G, T95I, G142D, W152L, E156-, F157-, R158G, F186L, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, G446D, L452R, S477N, T478K, E484A, F486P, Q498R, N501Y, Y505H, D614G, P621S, H655Y, N679K, P681H, A706V, N764K, D796Y, Q954H, N969K, T1117I", "spike_mutations": "L18F, T19R, R21G, T95I, G142D, W152L, E156-, F157-, R158G, F186L, V213G, G339D, S371F, S373P, S375F, T376A, D405N, R408S, K417N, N440K, G446D, L452R, S477N, T478K, E484A, F486P, Q498R, N501Y, Y505H, D614G, P621S, H655Y, N679K, P681H, A706V, N764K, D796Y, Q954H, N969K, T1117I" } }, "children": [ { "name": "XAY", "node_attrs": { "div": 77, "clade_who": { "value": "recombinant" }, "designation_date": { "value": "2022-08-25 00:00:00" }, "designation_recency": { "value": ">8 weeks" }, "clade_nextstrain": { "value": 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