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subtreeAuspice1_genome_BA.5.1+ORF1a_3839R+ORF1a_519S+ORF9b_60I.json
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{ "version": "v2", "meta": { "title": "Subtree with USA/CA-CDC-QDX37910381/2022 and 80 other uploaded samples", "panels": [ "tree"] , "colorings": [ { "key": "pango_lineage", "title": "Pango lineage", "type": "categorical" }, { "key": "Nextstrain_clade", "scale": [ [ "20H (Beta, V2)", "#571EA2" ], [ "20I (Alpha, V1)", "#4334BF" ], [ "20J (Gamma, V3)", "#3F55CE" ], [ "21A (Delta)", "#4376CD" ], [ "21I (Delta)", "#4C91C0" ], [ "21J (Delta)", "#59A4A9" ], [ "21C (Epsilon)", "#7FB975" ], [ "21D (Eta)", "#97BD5F" ], [ "21F (Iota)", "#C7B944" ], [ "21G (Lambda)", "#D9AD3D" ], [ "21H (Mu)", "#E49838" ], [ "21K (Omicron)", "#DB2823" ], [ "21L (Omicron)", "#DB2823" ], [ "21M (Omicron)", "#DB2823" ], [ "uploaded sample", "#FF0000" ] ], "title": "Nextstrain Clade", "type": "categorical" }, { "key": "pango_lineage_usher", "title": "Pango lineage assigned by UShER", "type": "categorical" }, { "key": "Nextstrain_clade_usher", "scale": [ [ "20H (Beta, V2)", "#571EA2" ], [ "20I (Alpha, V1)", "#4334BF" ], [ "20J (Gamma, V3)", "#3F55CE" ], [ "20H (Beta,V2)", "#571EA2" ], [ "20I (Alpha,V1)", "#4334BF" ], [ "20J (Gamma,V3)", "#3F55CE" ], [ "21A (Delta)", "#4376CD" ], [ "21I (Delta)", "#4C91C0" ], [ "21J (Delta)", "#59A4A9" ], [ "21C (Epsilon)", "#7FB975" ], [ "21D (Eta)", "#97BD5F" ], [ "21F (Iota)", "#C7B944" ], [ "21G (Lambda)", "#D9AD3D" ], [ "21H (Mu)", "#E49838" ], [ "21K (Omicron)", "#DB2823" ], [ "21L", "#DB2823" ], [ "21L (Omicron)", "#DB2823" ], [ "21M (Omicron)", "#DB2823" ], [ "uploaded sample", "#FF0000" ] ], "title": "Nextstrain Clade assigned by UShER", "type": "categorical" }, { "key": "userOrOld", "scale": [ [ "uploaded sample", "#CC0000"] , [ "public", "#000000"] ], "title": "Sample type", "type": "categorical" }, {"key": "gt", "title": "Genotype", "type": "categorical"}, {"key": "country", "title": "Country", "type": "categorical"} ] , "filters": [ ], "genome_annotations":{"E":{"end":26472,"start":26245,"strand":"+","type":"CDS"}, "M":{"end":27191,"start":26523,"strand":"+","type":"CDS"}, "N":{"end":29533,"start":28274,"strand":"+","type":"CDS"}, "ORF1ab":{"end":21555,"start":266,"strand":"+","type":"CDS"}, "ORF3a":{"end":26220,"start":25393,"strand":"+","type":"CDS"}, "ORF6":{"end":27387,"start":27202,"strand":"+","type":"CDS"}, "ORF7a":{"end":27759,"start":27394,"strand":"+","type":"CDS"}, "ORF7b":{"end":27887,"start":27756,"strand":"+","type":"CDS"}, "ORF8":{"end":28259,"start":27894,"strand":"+","type":"CDS"}, "ORF9b":{"end":28577,"start":28284,"strand":"+","type":"CDS"}, "S":{"end":25384,"start":21563,"strand":"+","type":"CDS"}, "nuc":{"end":29903,"start":1,"strand":"+","type":"source"}},"display_defaults": { "branch_label": "none", "color_by": "Nextstrain_clade" }, "description": "Dataset generated by [UShER web interface](https://genome.ucsc.edu/cgi-bin/hgPhyloPlace) using the [usher](https://github.com/yatisht/usher/) program. If you have metadata you wish to display, you can now drag on a CSV file and it will be added into this view, [see here](https://docs.nextstrain.org/projects/auspice/en/latest/advanced-functionality/drag-drop-csv-tsv.html) for more info."} ,"tree": { "name": "wrapper", "children": [ { "name": "node_1004234", "branch_attrs": { "labels": { "nuc mutations": "C241T,T670G,C2790T,C3037T,G4184A,C4321T,C9344T,A9424G,C9534T,C10029T,C10198T,G10447A,C10449A,G12160A,C12880T,C14408T,C15714T,C17410T,A18163G,C19955T,A20055G,C21618T,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,C27889T,A28271T,C28311T,G28881A,G28882A,G28883C,A29510C,C29666T", "back-mutations": "", "aa mutations": 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