WW_000001Y.1
Quentin Coldwater, Alice Quinn & Eliot Waugh
Sample
Collector sample ID
BB-2026-08-24
Sample collected by
Brakebills Department of Physical Magic
Purpose of sampling
Wastewater pathogen surveillance
Sampling site and collection
Collection (start) date
2026-08-24
Collection method
Composite sampling
Country
United States of America
State/province/region
Brakebills
Site name
Brakebills Sewage Works
Sampling site ID
US-BRAKEBILLS-SW-1
Environmental site
College or university
Environmental material
Wastewater
Wastewater system type
Sanitary sewer system
Scale of sampling
Institution-level surveillance
Catchment population
400
Sequencing
Purpose of sequencing
Longitudinal surveillance (repeat sampling)
Sequenced by
Fillory Genomics Laboratory
Sequencing contact name
Alice Quinn
Sequencing contact email
alice.quinn@brakebills.example
Sequencing instrument
Illumina MiSeq
Sequencing assay type
Amplicon sequencing assay
Raw data processing method
Reads mapped to NC_045512.2 and primer-clipped with samtools ampliconclip (ARTIC v5.4.2), subsampled to about 50000
Dehosting method
Only reads mapped to SARS-CoV-2
Genomic data
Genomic data type
Aligned reads
Mean depth
285.7
Genome covered at depth 10 or more
90.43%
Lineage prevalence
Predominant lineage
XFG.17
Lineage prevalence
XFG.17: 40.0%, XFG.4: 10.3%, XFG.19: 9.6%, PQ.32: 6.6%, PQ.10.1.4: 5.3%, PQ.39.1: 4.8%, QT.3: 4.7%, RE.2.1: 4.7%, XFG.4.5: 3.2%, PQ.18: 3.1%, Other: 7.6%
Lineage prevalence chart
Lineage analysis software
freyja 2.0.5
Lineage barcodes version
10_06_2026-05-25
Submission details
Submission ID
BB-2026-08-24
Version comment
Test data: the metadata are fictional. The reads are from WASAP sample https://db.wasap.genspectrum.org/seq/WISE_00013ZW.1 of the Swiss SARS-CoV-2 wastewater surveillance, sampled in Basel on 2025-12-14.
Submitting group
Date submitted
2026-10-11 23:49:55 UTC
Date released
2026-10-11 23:51:13 UTC
Files
Aligned reads (BAM)
SNV frequencies (VCF)
Depth per site (TSV)
Lineage prevalence (TSV, SVG)
