ktmeaton / ncov-recombinant

Reproducible workflow for SARS-CoV-2 recombinant sequence detection.
MIT License
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XBB.1.5 | BA.2.10/BA.2.75 #217

Closed ktmeaton closed 1 year ago

ktmeaton commented 1 year ago

Parents

Clade: Omicron/BA.2.10,Omicron/BA.2.75/22D Lineage: BA.2*,BA.2* Lineage Confidence: 0.136,0.211

Immunity

RBD Level: 7 RBD Substitutions: S:R346T,S:V445P,S:G446S,S:N460K,S:F486P,S:F490S,S:R493Q Immune Escape: 0.9070 ACE2 Binding: 1.0124

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

XBB.1.5 is successfully detected with the sc2rf mode for XBB:

Note: The Ns near the breakpoints are handled from XBB-like ARTIC v4.1 Dropout

image

Breakpoints

Breakpoint 1: 22332:22576

Or alternatively, 22191:22576 when ARTIC dropout occurs.

breakpoints_clade

Tasks