Illumina MiSeq i100

MiSeq i100 is a sequencer released by Illumina in March 2025. It is based on Sequencing by Synthesis (SBS).

Illumina MiSeq i100
Photo of MiSeq i100: https://www.illumina.com/systems/sequencing-platforms/miseq-i100/specifications.html by Illumina

Specifications

Manufacturer Illumina
Technology Sequencing by Synthesis (SBS)
Release date March 2025
Price [2] $49,000
MSRP as of October 2024
Type Benchtop
Weight 36 Kg
Supports real-time analysis No
Demultiplexing support Yes
File format FASTQ
Read length
Run time
Reagent cost per Gb [1]
Data quality [3]
Maximum output per run (Gb)[4]
Primary error type [5] Substitutions
Notes about the specifications

  1. Cost per Gb: The cost per Gb is calculated by dividing the costs of sequencing reagents by the manufacturer’s maximum output per run. For these runs, the manufacturer may have included their own controls and used specific library preparation kits. Actual performance may vary based on sample and library type and quality, loading concentration, and other experimental factors. The sequencing reagent costs used for calculations do not include any other costs associated with preparing the samples or running the instrument, including reagents used for extraction, quality control or library preparation, labor, electricity, lab consumables, storage, etc. Performance metrics and prices are subject to change.
  2. Price: The final price may be different depending on the supplier, the region and any discounts provided through bulk orders or negotiation. Other factors that may influence the final price are warranty options, maintenance contracts, possible trade-ins of older instruments, and any financing arrangements chosen.
  3. Data quality: This is the maximum data quality that the instrument can offer based on manufacturer’s specifications and optimizations. The quality of a specific run will depend on multiple factors, including sample quality, sample quantity, library prep protocol, run conditions, etc.
  4. Maximum output: This is the maximum output of a full instrument run. This number is based on manufacturer’s specifications and optimizations.
  5. Primary error type: This is the most common type of error that may occur due to sequencing. Other types of error may occur as well.

The Illumina MiSeq i100: A Compact Sequencer for Targeted Applications

The Illumina MiSeq i100 is a benchtop next-generation sequencing (NGS) system designed for targeted sequencing applications. It represents a successor to the Illumina MiSeq, offering a streamlined workflow and improved performance for specific research needs.

Key Innovations

The MiSeq i100 incorporates several key innovations:

  • Quicker Run Times: The instrument delivers the data 4x faster than the MiSeq system with the fastest run time being only 4 hours. This means researchers can obtain same-day results at similar depth to the original MiSeq.
  • Simplified Workflow: The instrument boasts a streamlined workflow with reduced hands-on time, minimizing the risk of errors and increasing laboratory efficiency. A typical run setup can be done within 20 minutes. This is achieved through features like integrated cartridges that remove the need for washes between runs and simplified data analysis software through the onboard DRAGEN pipelines.
  • User- and Environmentally-Friendly Design: The instrument's compact footprint and intuitive user interface make it suitable for a wide range of laboratory settings, from small research groups to core facilities. Illumina also states the MiSeq i100 has an 85% reduction in packaging waste compared to the MiSeq.

Features and Technologies

  • Sequencing Technology: The MiSeq i100 utilizes Illumina's proprietary sequencing-by-synthesis technology (XLEAP-SBS), which eliminates the need to thaw reagents and contributes to faster prep time, while maintaining high quality standards.
  • Read Lengths: The instrument can generate paired-end reads with the max being 2x300 bp, with the appropriate sequencing reagent kit.
  • Data Output: The MiSeq i100 typically generates up to 15 Gb of data per run, suitable for targeted sequencing applications such as amplicon sequencing, exome sequencing, and small genome sequencing. The full range is 1.5-30 Gb per run, where the max output is based on the 100M flow cell.
  • Data Quality Metrics: The instrument delivers high-quality sequence data with typically greater than 90% base call accuracy above Q30.

Intended Uses and Specific Applications

The MiSeq i100 is well-suited for a variety of targeted sequencing applications, including:

  • Targeted Gene Sequencing: Ideal for studying a subset of specific genes within the genome. A suitable library preparation kit includes the Illumina Nextera XT DNA Library Preparation Kit.
  • 16S Metagenomic Sequencing: Enables the identification and analysis of bacteria within mixed samples. A suitable preparation protocol is the 16S Metagenomic Sequencing Library Preparation protocol from Illumina.
  • Small Genome Sequencing: Ideal for sequencing the whole genomes of bacteria, viruses, and other small organisms. Suitable library preparation kits include the Illumina Nextera DNA Flex Library Preparation Kit and the Illumina TruSeq DNA PCR-Free Library Preparation Kit.

Comparison with Competing Instruments

  • Illumina MiSeq: The MiSeq i100 offers a streamlined workflow and vastly improved speeds compared to the original MiSeq, while maintaining a similar data output and even higher with the 100M flow cell.
  • Illumina iSeq 100: The iSeq 100 is a more cost-effective option than the MiSeq i100, but the MiSeq i100 has faster average run times and can offer much higher output.
  • Complete Genomics DNBSEQ-E25: The DNBSEQ-E25 can offer potentially lower per-Gb costs than the MiSeq i100 as well as similar run times, but the max output of the MiSeq i100 is higher and it can also offer longer paired-end reads.

Special Considerations for Selecting this Instrument

The MiSeq i100 is an ideal choice for researchers who require:

  • A balance of throughput and data quality for small or targeted sequencing
  • A user-friendly, benchtop sequencer for routine lab use or teaching
  • Rapid, same-day results

Need sequencing done on a Illumina MiSeq i100 or a specific instrument? Tell us about your project here, and we'll connect you with a qualified provider.

This information on this page is up-to-date as of October 17, 2024 and based on the spec sheets published by the manufacturer.