SARS-CoV-2 Sequencing

ARTIC v3 VarSkip Sequencing


Using the most current set of primers available (NEB VarSkip Short v2), SeqCenter will enrich your SARS-CoV-2 sample for viral reads using a tiled amplicon approach.  These primers are specifically designed to improve coverage across Omicron variants.  These amplicons are then prepared for sequencing using our standard whole genome sequencing pipeline with a target of 150Mbs of reads per sample.  As part of this service, reads are assembled using the SARS-CoV-2 reference genome as a scaffold and both fastq and genome fasta files are provided as deliverables.

The ARTIC enrichment method has proven to be effective at generating >70% coverage across genomes for samples with Ct values as high as 35.  Submitted samples are not measured for viral load before the library preparation process, so it is recommended that only samples with Ct values below 35 are used.  Raw samples in VTM media are also accepted and will be extracted using Qiagen Viral RNA kits.

   Sample Requirements:


  • Samples shipped frozen on dry ice
  • Total volume of 15µL or more (250uL or more for VTM sample)

   What You Will Receive:


  • Fastq files (2 x 151bp) for each sample
  • Assembled SARS-CoV-2 Genomes
  • Data QC Summary
  • Materials and Methods Summary 
  • Data shared via Box folder within 2 weeks.

Sample Type

Price per Sample*

Purified RNA


VTM Media (requiring viral RNA extraction)




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