pango designations v1.1.8

• Reassigned lineage B.1.1.439 to B.1.1.29

pango designations v1.1.7

Added B.1.429.1

pango designations v1.1.6

Release notes

• Updating designations for sublineages of B.1.214. Now 4 sister lineages, B.1.214.1 from Congo, B.1.214.2 from Belgium with a defining 9bp insertion in the NTD of the spike gene, B.1.214.3 a french lineage and B.1.214.4 a Danish lineage.
• New designations:

B.1.214   43
B.1.214.1 20
B.1.214.2 344
B.1.214.3 58
B.1.214.4 89

pango designations v1.1.5

Added lineage B.1.617

pango designations v1.1.4

Release notes

• Related to commit f3476ed, reinstating lineage B.1.36.27. Hong Kong lineage associated with travel history from Nepal.

pango designations v1.1.3

Release notes

Adding 616 B.1.389 sequences to designations.

pango designations v1.1.2

Added B.1.616

pango designations v1.1.1

Release notes

• Minor release fixing designations of lineages B.1.214.1 and B.1.214.2

pango designations v1.1

Major release

• Update to lineages from full manual curation of global tree, with GISAID data recent of 2021-02-18.

Lineages designated:	          1,247
Total sequences designated:	  469,042

• Full curation notes found in curation_notes directory, with information on Lineage, number of SNPs, example sequence, designator, rough size and lineage description.

Full set of aliases

• Also hosted now in full_alias_key.txt

{'C': 'B.1.1.1',
 'D': 'B.1.1.25',
 'G': 'B.1.258.2',
 'K': 'B.1.1.277',
 'L': 'B.1.1.10',
 'M': 'B.1.1.294',
 'N': 'B.1.1.33',
 'P': 'B.1.1.28',
 'R': 'B.1.1.316',
 'S': 'B.1.1.217',
 'U': 'B.1.177.60',
 'V': 'B.1.177.54',
 'W': 'B.1.177.53',
 'Y': 'B.1.177.52',
 'Z': 'B.1.177.50',
 'AA': 'B.1.177.15',
 'AB': 'B.1.160.16',
 'AC': 'B.1.1.405',
 'AD': 'B.1.1.315',
 'AE': 'B.1.1.306',
 'AF': 'B.1.1.305',
 'AG': 'B.1.1.297',
 'AH': 'B.1.1.241',
 'AJ': 'B.1.1.240',
 'AK': 'B.1.1.232',
 'AL': 'B.1.1.231',
 'AM': 'B.1.1.216',
 'AN': 'B.1.1.200',
 'AP': 'B.1.1.70',
 'AQ': 'B.1.1.39',
 'AS': 'B.1.1.317'}

pango designations v1.0.9

Release notes

• Minor release with the addition of lineage P.3 described in #27
• P.3 is a lineage predominantly in the Philippines with spike mutations E484K, N501Y, P681H, 141-143del. Described in Tablizo et al 2021: https://www.medrxiv.org/content/10.1101/2021.03.03.21252812v2

Description

Current lineage count: 887
Total sequences designated a lineage: 176134
Total P.3 designated: 34