Order the MiSeq System
With the MiSeq System you can access focused applications such as targeted resequencing, metagenomics, small genome sequencing, targeted gene expression profiling, and more. MiSeq reagents enable up to 15 Gb of output with 25 million sequencing reads and 2 × 300 bp read lengths.
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Instrument
Services
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Required Sequencing Reagents
MiSeq Reagent Kits v2
MiSeq sequencing reagents in pre-filled, ready-to-use cartridges. Micro and nano formats are available for low output applications.
Pricing & SpecificationsSelect Product(s)
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Specifications
MiSeq Reagent Kit v3
Optimized chemistry to increase cluster density and read length, and improve sequencing quality scores, compared to earlier MiSeq reagent kit versions.
Pricing & Specifications
Optimized Sequencing Chemistry
You'll need one reagent kit to use the MiSeq System. Each MiSeq Reagent Kit includes a flow cell and the chemistry necessary for a sequencing run. Two versions are currently available: v2 and v3.
Flexible Library Prep Options
The choice of library prep kit depends on your sample type and application. Select one of these recommended kits, or browse all MiSeq-compatible products.
Recommended Library Prep Kits
Illumina DNA Prep
A fast, integrated workflow for a wide range of applications, from human whole-genome sequencing to amplicons, plasmids, and microbial species.
Pricing & SpecificationsLibrary Prep
Index Adapters
Services
Illumina DNA Prep Training
20022900
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Specifications
TruSeq DNA Nano
Generate whole-genome sequencing libraries and efficiently interrogate samples with limited available DNA.
Pricing & SpecificationsLibrary Prep
Index Adapters
Illumina Advantage Products
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Specifications
Instrument Services
MiSeq Operational Qualification
Verify instrument operation and obtain an audit-ready report from certified Illumina engineers to help meet regulatory requirements.
Order NowMiSeq Performance Qualification
Verify instrument performance and obtain an audit-ready PQ report from certified Illumina engineers to help meet regulatory requirements.
Order NowMiSeq Installation and Operational Qualification
Verify instrument installation and operation, and obtain an audit-ready report from certified Illumina engineers to help meet regulatory requirements.
Order Now
Peace of Mind with Illumina Services
Our service and support teams provide a full suite of solutions, from product support to personalized consulting, to help you make the most of your instrument.
Want to learn more about the MiSeq System or explore additional MiSeq-compatible products?
Frequently Purchased Together
Trade in your MiSeq instrument for accelerated decision making.
If you currently own a MiSeq, you may be eligible for a trade-in to a new NextSeq 1000 or NextSeq 2000. Experience our simplest workflow yet with dry instrumentation, easier run set up, and 6x faster secondary analysis. This program is available for a limited time only. Terms and conditions apply. Fill out the form below to contact a sales representative to see if you are eligible.
Product Literature
Illumina Proactive Service connectivity guide - MiSeq
Brochure | PDF < 1 MB
MiSeq System applications,MiSeq Applications Brochure
Brochure | PDF 3 MB
Brochure | PDF 3 MB
High-Speed, Multiplexed 16S Microbial Sequencing on the MiSeq System
Application Note | PDF < 1 MB
Microbial whole-genome sequencing with Illumina DNA PCR-Free Prep, Tagmentation
Application Note | PDF < 1 MB
Nextera Sample Prep for the MiSeq System
Application Note | PDF < 1 MB
Sequencing the Rapidly Evolving Influenza A Virus on the MiSeq System
Application Note | PDF < 1 MB
16S Metagenomics Studies with the MiSeq System
Application Note | PDF < 1 MB
Sequencing Library QC on the MiSeq System
Application Note | PDF < 1 MB
E. coli Sequencing on the MiSeq System and Ion Torrent PGM System
Application Note | PDF < 1 MB
Pan-Viral Sequencing on Illumina Benchtop Systems Application Note
Application Note | HTML
Optimizing Cluster Density on Illumina Sequencing Systems
Technical Note | PDF 3 MB
De novo Bacterial Sequencing on the MiSeq System
Technical Note | PDF < 1 MB
TruSight Portfolio: New Possibilities for Next-Generation Sequencing
Data Sheet | PDF < 1 MB
Brochure | PDF | 5 versions
Microbial de novo assembly with linked-read technology
Application Note | PDF 2 MB
Technical Note | PDF | 11 versions
Data Sheet | PDF | 9 versions
Data Sheet | PDF | 5 versions
Manuals and Support Information
MiSeq System Site Prep Guide Documentation
MiSeq Reporter Software Guide Documentation
MiSeq System Guide for Windows 10 Documentation
MiSeq System Denature and Dilute Libraries Guide Documentation
MiSeq System Product Documentation
MiSeq System Guide for Windows 7 Documentation
Installing MiSeq Reporter on an Off-Instrument Computer Documentation
BlueFuse Workflow Manager Quick Reference Card (15056206) Documentation
MiSeq System Safety and Compliance Guide Documentation
BlueFuse Workflow Manager User Guide (1000000028842) Documentation
Custom Protocol Selector
Generates customized, end-to-end instructions
MiSeq Reagent Kits v2
MiSeq sequencing reagents in pre-filled, ready-to-use cartridges. Micro and nano formats are available for low output applications.
MiSeq Reagent Kit v3
Optimized chemistry to increase cluster density and read length, and improve sequencing quality scores, compared to earlier MiSeq reagent kit versions.
Illumina DNA PCR-Free Prep
A high-performing, fast, and integrated workflow for sensitive applications such as human whole-genome sequencing.
TruSight Cardio Sequencing Panel
This kit provides researchers with a comprehensive, cost-effective solution for identifying causal variants implicated in inherited cardiac conditions (ICCs).
TruSight Hereditary Cancer Panel
Expert-defined content targeting 113 genes associated with genetic cancer risk predisposition.
MiSeq Installation and Operational Qualification
Verify instrument installation and operation, and obtain an audit-ready report from certified Illumina engineers to help meet regulatory requirements.