NextSeq 550 Sequencing System

Illumina NextSeq 550 Sequencing System is an integrated system for automated generation of DNA clonal clusters by bridge amplification, sequencing, primary analysis, and array scanning. System includes embedded touchscreen monitor and on-instrument computer, NextSeq Control Software, installation and training, and 12 months warranty (including parts and labor).

The NextSeq 550 System provides flexible power to enable benchtop sequencing and array capabilities across a range of applications.

Reliable benchtop sequencing

One simple, integrated workflow from prep to analysis

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Specifications

Output per flow cell for various read lengths

Read length	NextSeq 550 System Mid-Output Kit	NextSeq 550 System High-Output Kit
1 × 75 bp	N/A	25–30 Gb
2 × 75 bp	16.25–19.5 Gb	50–60 Gb
2 × 150 bp	32.5–39 Gb	100–120 Gb

Estimated sample throughput for key applications

NextSeq 550 System Mid-Output Kit	NextSeq 550 System High-Output Kit
3 exomes	1 whole human genome
12 enrichment panels	12 exomes
96 amplicon panels	16 transcriptomes

Reads passing filter per flow cell

	NextSeq 550 System Mid-Output Kit	NextSeq 550 System High-Output Kit
Single reads	≤ 130M	≤ 400M
Paired-end reads	≤ 260 M	≤ 800 M

Quality scores

Read length	NextSeq 550 System Mid-Output Kit	NextSeq 550 System High-Output Kit
1 × 75 bp	N/A	> 80% bases higher than Q30
2 × 75 bp	> 80% bases higher than Q30 at 2 × 75 bp	> 80% bases higher than Q30
2 × 150 bp	> 75% bases higher than Q30 at 2 × 150 bp	> 75% bases higher than Q30

Run time

Read length	NextSeq 550 System Mid-Output Kit	NextSeq 550 System High-Output Kit
1 × 75 bp	N/A	11 hr
2 × 75 bp	15 hr	18 hr
2 × 150 bp	26 hr	29 hr

Array scanning parameters

Array	Scan time per array	Scan time per sample
Infinium MethylationEPIC BeadChip	40 min	5 min
Infinium CytoSNP-850K BeadChip	40 min	5 min

Documents

• Laboratory Experience Using Illumina Next-Generation Sequencing for Noninvasive Prenatal Testing Application Note
• Direct Bacterial Colony Sequencing with the Nextera™ DNA Flex Library Preparation Kit
• Microbial whole-genome sequencing with Illumina DNA PCR-Free Prep, Tagmentation
• Illumina Sequencing Platforms Brochure
• NextSeq 550 amplicon sequencing solution
• NextSeq 550 exome sequencing solution

Support Documentation

• NextSeq System Suite Release Notes Documentation
• Sequencing Analysis Viewer (SAV) Computing Requirements Documentation
• NextSeq System Safety and Compliance Guides Documentation
• NextSeq 500 and NextSeq 550 Sequencing Systems Product Documentation
• Security and Networking Documentation
• Denature and Dilute Protocol Generator Documentation