 iSeq 100 |
 MiniSeq |
 MiSeq Series |
 NextSeq 550 Series |
 NextSeq 1000 & 2000 |
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|---|---|---|---|---|---|
Popular Applications & Methods |
Key Application | Key Application | Key Application | Key Application | Key Application |
| Large Whole-Genome Sequencing (human, plant, animal) | |||||
| Small Whole-Genome Sequencing (microbe, virus) | |||||
| Exome & Large Panel Sequencing (enrichment-based) | |||||
| Targeted Gene Sequencing (amplicon-based, gene panel) | |||||
| Single-Cell Profiling (scRNA-Seq, scDNA-Seq, oligo tagging assays) | |||||
| Transcriptome Sequencing (total RNA-Seq, mRNA-Seq, gene expression profiling) | |||||
| Targeted Gene Expression Profiling | |||||
| miRNA & Small RNA Analysis | |||||
| DNA-Protein Interaction Analysis (ChIP-Seq) | |||||
| Methylation Sequencing | |||||
| 16S Metagenomic Sequencing | |||||
| Metagenomic Profiling (shotgun metagenomics, metatranscriptomics) | |||||
| Cell-Free Sequencing & Liquid Biopsy Analysis | |||||
Are you interested in a sequencer demo?Fill out the form and our sales team will be in touch shortly. Request Demo |
|||||
| Run Time | 9.5–19 hrs | 4–24 hours | 4–55 hours | 12–30 hours | 11-48 hours |
| Maximum Output | 1.2 Gb | 7.5 Gb | 15 Gb | 120 Gb | 360 Gb * |
| Maximum Reads Per Run | 4 million | 25 million | 25 million † | 400 million | 1.2 billion * |
| Maximum Read Length | 2 × 150 bp | 2 × 150 bp | 2 × 300 bp | 2 × 150 bp | 2 × 300 bp |
| Order | Order | Order | Order | Order | |
MiSeq System |
 MiSeqDx System |
|
|---|---|---|
| Regulatory Status | For Research Use Only. Not for use in diagnostic procedures. | For In Vitro Diagnostic Use. Contact us for regional availability. |
| Key Applications |
|
|
| Research Applications | Benchtop sequencing for a variety of applications | Same as MiSeq (when using in Research Mode) |
| System Software | Fully integrated ecosystem including on instrument data analysis. IVD applications not available. | Fully integrated ecosystem including on instrument data analysis. Software partitioned for IVD and Research applications. |
| Explore MiSeq | Explore MiSeqDx |
 NextSeq 550 Instrument |
 NextSeq 550Dx Instrument |
|
|---|---|---|
| Regulatory Status | For Research Use Only. Not for use in diagnostic procedures. | For In Vitro Diagnostic Use. Contact us for regional availability. |
| Key Applications |
|
|
| Sequencing Applications |
|
|
| Array Scanning | Cytogenomic Array Scanning | Cytogenomic Array Scanning |
| Explore NextSeq 550 | Explore NextSeq 550Dx |
NextSeq 1000 & 2000 |
 NovaSeq 6000 Series |
 NovaSeq X Series |
|||
|---|---|---|---|---|---|
Popular Applications & Methods |
Key Application | Key Application | Key Application | ||
| Large Whole-Genome Sequencing (human, plant, animal) | |||||
| Small Whole-Genome Sequencing (microbe, virus) | |||||
| Exome & Large Panel Sequencing (enrichment-based) | |||||
| Targeted Gene Sequencing (amplicon-based, gene panel) | |||||
| Single-Cell Profiling (scRNA-Seq, scDNA-Seq, oligo tagging assays) | |||||
| Transcriptome Sequencing (total RNA-Seq, mRNA-Seq, gene expression profiling) | |||||
| Chromatin Analysis (ATAC-Seq, ChIP-Seq) | |||||
| Methylation Sequencing | |||||
| Metagenomic Profiling (shotgun metagenomics, metatranscriptomics) | |||||
| Cell-Free Sequencing & Liquid Biopsy Analysis | |||||
See what's possible with the NovaSeq X seriesLarger projects, deeper sequencing, faster than ever. Breakthrough innovations for groundbreaking discoveries. Contact an Instrument Specialist |
|||||
| Run Time | 11-48 hours | ~13–38 hours (dual SP flow cells) ~13–25 hours (dual S1 flow cells) ~16–36 hours (dual S2 flow cells) ~44 hours (dual S4 flow cells) |
~13–21 hours (1.5B flow cells‡) ~18–24 hours (10B flow cells‡) ~48 hours (25B flow cells‡) |
||
| Maximum Output | 360 Gb * | 6000 Gb | 16 Tb | ||
| Maximum Reads Per Run | 1.2 billion * | 20 billion | 26 billion (single flow cells) 52 billion (dual flow cells) |
||
| Maximum Read Length | 2 × 150 bp | 2 x 250 bp** | 2 × 150 bp | ||
| Order | Request Pricing | Request Pricing | |||
NovaSeq 6000 |
 NovaSeq 6000Dx |
|
|---|---|---|
| Regulatory Status | For research use only. Not for use in diagnostic procedures (except as specifically noted). | For In Vitro Diagnostic Use (except as specifically noted). Contact an Illumina representative for regional availability. |
| Key Applications - Diagnostic Mode | Not Available | Target Enrichment Future Illumina Assays Future Partner Assays IVD Assay Development |
| Key Applications - Research Mode |
|
|
| Software | The fully integrated RUO software suite enables sequencing runs, on-instrument analysis, and output file transfer to desired location (output folder/BaseSpace Hub). DRAGEN Somatic and Germline Pipelines enable accurate and comprehensive secondary analysis efficiently in as little as ~25 minutes and support a broad menu of applications. | Illumina Run Manager offers a fully integrated, intuitive operating system that requires minimal training to configure, launch, and monitor runs. Illumina Run Manager automatically starts secondary data analysis using the paired DRAGEN Server with the application-specific analysis module selected during run setup. |
| Explore NovaSeq 6000 | Explore NovaSeq 6000Dx |
* Specifications based on Illumina PhiX control library at supported cluster densities.
** Specification based on dual flow cell run of SP flow cells.
† For MiSeq V3 kits only.
‡ 10B flow cell available Q1 2023. 1.5B and 25B flow cells available H2 2023.
When determining the best sequencing platform for your lab, you’ll want to ask the right questions to evaluate your needs. These include:
Use this checklist as a framework. For detailed insight on the factors to consider in each area, download the full NGS System Buyer’s Guide.
Download Buyer’s GuideIllumina NGS instruments have been adopted by leading institutions around the globe, both big and small, and are the production platform for many genome centers. Illumina NGS technology is cited in over 300,000 peer-reviewed publications—5× more than all other NGS technologies combined*
Each sequencing platform delivers exceptional data quality and performance, with flexible throughput and simple, streamlined workflows—for every kind of researcher, for every scale of study.
*Data calculations on file, Illumina, Inc. 2022.
Illumina has pioneered major advances in sequencing simplicity, flexibility, and platform performance. Sequencing output has grown over ten thousand-fold, from less than 1 gigabase to 16 terabases per run, while the number of reads has increased from millions to tens of billions. Experiments that once required complex workflows now use simple push-button sequencing.
Learn More About NGSUse our interactive comparison tool to identify the best sequencing instrument for your lab and applications. This tool will help you compare next-generation sequencing systems and find the one that's right for your lab or application. You can email the results or request a consultation.
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