NextSeq 1000 Sequencing System

Illumina NextSeq 1000 Sequencing System is an integrated system for automated generation of DNA clonal clusters by bridge amplification, sequencing, primary analysis, and secondary analysis. System includes embedded touchscreen monitor and on-instrument computer, control software, hardware accelerated Dragen Bio-IT secondary analysis pipelines, Installation and training, and 12 months warranty (including parts and labor).

The NextSeq 1000 and NextSeq 2000 Systems deliver user-friendly, flexible, and reliable benchtop sequencing for current and emerging applications.

Flexibility to do more

Intuitive workflows from start to finish

Specifications

NextSeq 1000 and NextSeq 2000 with XLEAP-SBS chemistry

Flow cell type	P1b	P2b	P3b,c	P4c
1 × 50 bp				90 Gb
2 × 50 bp	10 Gb	40 Gb	120 Gb	180 Gb
2 × 100 bp		80 Gb	240 Gb	360 Gb
2 × 150 bp	30 Gb	120 Gb	360 Gb	540 Gb
2 × 300 bp	60 Gb	240 Gb

NextSeq 1000 and NextSeq 2000 Sequencing Systems

Item	Storage temperature	P1, P2, P3, P4 Shelf Life
Cartridge	-25°C to -15°C	6 months
Flow cell	2°C to 8°C	6 months
RSB with Tween 20a	2°C to 8°C	6 months

NextSeq 1000 and NextSeq 2000 with XLEAP-SBS chemistry

Flow cell type	P1a	P2a	P3a,b	P4b
Single reads	100M	400M	1.2B	1.8B
Paired-end reads	200M	800M	2.4B	3.6B

Flow cell type	P1 a	P2 a	P3 a,b	P4 b
Quality Scoresc
1 × 50 bp	≥ 90% of bases higher than Q30
2 × 50 bp	≥ 90% of bases higher than Q30
2 × 100 bp	≥ 90% of bases higher than Q30
2 × 150 bp	≥ 90% of bases higher than Q30
2 × 300 bp	≥ 85% of bases higher than Q30
Run Timed
1 × 50 bp				12 hr
2 × 50 bp	8 hr	12 hr	18 hr	20 hr
2 × 100 bp		19 hr	31 hr	34 hr
2 × 150 bp	17 hr	22 hr	40 hr	44 hr
2 × 300 bp	34 hr	42 hr

Application	P1b	P2b	P3b,c	P4c
	No. samples	No. samples	No. samples	No. samples
Small whole-genome sequencing (300 cycles) 130 Mb genome, 30× coverage	7	30	92	138
Whole-exome sequencing (200 cycles) ~8 Gb per exome, 90× mean coverage	~2d	10	30	45
Total RNA-Seq (200 cycles) 50M read pairs per sample	2d	8	24	36
mRNA-Seq (200 cycles) 25M read pairs per sample	4d	16	48	72
Single-cell RNA-Seq (100 cycles) 5K cells, 20K reads per cell	1e	4	12	18
miRNA-Seq or small RNA analysis (50 cycles) 11M reads per sample	9f	36f	108f	163
16S RNA sequencing (600 cycles)	384g	384g

Documents

• Data concordance between the NextSeq 1000/2000 and NextSeq 550 Sequencing Systems
• NextSeq 2000 Exome Sequencing Solution
• NextSeq 1000 and NextSeq 2000 Systems FAQ
• XLEAP-SBS chemistry on the NextSeq 1000 and NextSeq 2000 Systems infographic
• NextSeq 1000 and NextSeq 2000 Systems standard SBS reagent kit specifications
• Gain higher output and increased flexibility by upgrading from a NextSeq 1000 to a NextSeq 2000 Sequencing System
• Illumina Sequencing Platforms Brochure
• Illumina single-cell RNA sequencing flyer

Support Documentation

• Security and Networking Documentation
• NextSeq 1000/2000 Product Documentation
• Denature and Dilute Protocol Generator Documentation
• Illumina Cloud Run Planning Product Documentation
• Indexed Sequencing Overview Documentation
• RFID Reader Compliance Guide Documentation
• All NextSeq 1000/2000 System Support
• Library prep kit