proposed1340 | BN.1.3/XBB.1

[ktmeaton]

• pango-designation issue: #1340
• covSPECTRUM query: TBD

Parents

Clade: Omicron/BA.2.75/22D,Omicron/XBB/22F
Lineage: BA.2.75*,XBB.1*
Lineage Confidence: 0.992,0.87

Immunity

RBD Level: 7
RBD Substitutions: S:R346T,S:V445P,S:G446S,S:N460K,S:F486S,S:F490S,S:R493Q
Immune Escape: 0.907
ACE2 Binding: 0.407

Immune Escape Ranking

Higher values indicate an increased capacity to evade antibodies.

TBD

ACE2 Binding Ranking

Higher values indicate an increased capacity for viral entry into the host cell.

TBD

Alleles

proposed1340 is successfully detected with the sc2rf mode for VOC:

python3 sc2rf/sc2rf.py results/proposed1340/nextclade/alignment.fasta --max-name-length 50 --clades BA.2.10 BA.2.3.17 BA.2.3.20 BA.2.75 BA.2.76 BA.4.6 BA.5.2 BA.5.3 XBB CJ.1 --ansi --parents 2-4 --breakpoints 1-5 --unique 1 --max-ambiguous 20 --max-intermission-length 2 --max-intermission-count 3 --ignore-shared --mutation-threshold 0.25 --csvfile results/proposed1340/sc2rf/stats.voc.csv

Breakpoints

Breakpoint 1: 20236:21809

Tasks

• resources/breakpoints.tsv Updated