System specifications for the NextSeq Series

High-accuracy sequencing performance, with tunable read length, and multiple output configurations

NextSeq Series Specifications

Illumina no longer accepts orders for the NextSeq 500 Sequencing System. Reagent kits and full support for the instrument will continue to be available. The NextSeq 550 System is an alternative solution that provides the increased flexibility of microarray scanning in addition to sequencing.

NextSeq Series High-Output Kit* NextSeq Series Mid-Output Kit*
Read Length Total Time Output Read Length Total Time Output
2 × 150 bp 29 hrs 100–120 Gb 2 × 150 bp 26 hrs 32.5–39 Gb
2 × 75 bp 18 hrs 50–60 Gb 2 × 75 bp 15 hrs 16.25–19.5 Gb
1 × 75 bp 11 hrs 25–30 Gb      

*Install specifications based on Illumina PhiX control library at supported cluster densities (between 129 and 165 k/mm² clusters passing filter). Actual performance parameters may vary based on sample type, sample quality, and clusters passing filter. All NextSeq 500 kits are paired-end capable.
†Total time includes cluster generation, sequencing, and base calling on a NextSeq 500 System enabled with dual-surface scanning.

  NextSeq Series High-Output Kit NextSeq Series Mid-Output Kit
Single Reads Up to 400 Million Up to 130 Million
Paired-End Reads Up to 800 Million Up to 260 Million
NextSeq Series High-Output Kit NextSeq Series Mid-Output Kit
> 75% bases higher than Q30 at 2 × 150 bp > 75% bases higher than Q30 at 2 × 150 bp
> 80% bases higher than Q30 at 2 × 75 bp > 80% bases higher than Q30 at 2 × 75 bp
> 80% bases higher than Q30 at 1 × 75 bp  

††A quality score (Q-score) is a prediction of the probability of an error in base calling. The percentage of bases > Q30 is averaged across the entire run.

NextSeq Series High-Output Kit NextSeq Series Mid-Output Kit
1 human whole genome 3 exomes
12 exomes 12 enrichment panels
16 transcriptomes 96 amplicon panels
NextSeq Series Specification Sheet

NextSeq Series System Specification Sheet

Fast, flexible, high-throughput benchtop sequencers enable whole-genome, transcriptome, and targeted resequencing applications with the accuracy of Illumina SBS technology.

View Specification Sheet
Sequencing by Synthesis Technology

The NextSeq Series harnesses proven Illumina sequencing by synthesis (SBS) technology to deliver highly accurate data and robust performance for multiple applications. SBS uses a reversible-terminator method, with fluorescently labeled nucleotides to detect single bases as they are incorporated into growing DNA strands.

Learn More

View SBS video
2-Channel SBS Technology

The NextSeq Series leverages 2-channel SBS chemistry to offer efficient sequencing and data generation. 2-channel SBS reduces cycle and data processing times, while delivering the same high quality and accuracy that sets Illumina systems apart. This innovation makes NGS an affordable solution for use as an everyday tool.

Learn More

Read technology spotlight