21Ltree20230808

gistfile0.txt

{"version":"v2","meta":{"title":"SARS-CoV-2 phylogeny","updated":"2023-08-08","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":{"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"},"nuc":{"end":29903,"start":1,"strand":"+","type":"source"}},"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":[["21L","#8FBC65"],["22A","#ABBD52"],["22B","#B9BC4A"],["22C","#C5B945"],["22D","#D1B440"],["22E","#DAAC3D"],["22F","#E1A13A"],["23A","#E69437"],["23B","#E68134"]]},{"key":"gt","title":"Genotype","type":"categorical"},{"key":"designation_date","title":"Designation 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