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Pacbio Sequel IIe System


Pacbio Sequel IIe offers single molecule real-time (SMRT), long-read, DNA sequencing technology on at large though flexible scale. You may find Sequel IIe suitable for large scale projects such as de-novo sequencing of large and complex (plant) genomes, full length transcriptome analysis (Isoseq) large amplicon sequencing, Structural Varian detection and haplotype phasing.

The Sequel IIe system offers the ability to run multiple chips (SMRT cells) allowing flexible on-demand sequencing, using variable sequencing run time per SMRT cell analysis. Users deploy multiple flow cells as well as variable run times (up to 30 Hours) onto single experiments for greater speed or throughput resulting in high quality long read sequences (HiFi reads).

The performance of SMRT sequencing - whether that is data yields, accuracy or ease of use - has improved tremendously in recent years.  Each Sequel II SMRT cell now allows up to 8 Million ZMW wells to be loaded for sequencing simultaneous.

Technical Details

  • Variable, up to 30 hour run time per SMRT cell
  • Each Sequel IIe SMRT cell has approximately eight times the sequencing capacity of a Sequel SMRT cell
  • 8M wells per SMRT cell resulting typically in >5M reads
  • As much as 150 Gb per flow cell
  • Read lengths are determined by your sample and experimental needs
  • High Quality per base (<1% error rate) in HiFi reads, therefore making assembly, structural variation detection and phasing much more reliable, easier and faster
  • Sequel IIe sequences (native) DNA — meaning no amplification bias and retained modification information


  • De-novo sequencing of large genomes
  • Structural Variation analysis
  • Haplotype phasing
  • Full length transcriptome sequencing (isoSeq)
  • DNA modifications
  • High throughput high fidelity Long amplicon sequencing

  • Multiplexing bacterial genome sequencing

  •  Target enrichment Long read sequencing

Last edited by Daniella Stijnen on 2022-04-19

Our expert(s)
Elio Schijlen
Contact our expert(s)

Pacific Biosciences


Wageningen Plant Research
Shared Research Facilities


BIOS Applied Bioinformatics

To explore the potential of nature to improve the quality of life.

This Shared Research Facilities equipment database offers researchers from universities, research institutes and companies, including start-ups, the opportunity to find research equipment with their relevant expert and to use it, generally on a pay-per-use basis. The equipment is available at different locations at Wageningen Campus or other (company) locations. If you want to share your own research devices or if you need more information, please contact us.