Pre-owned / Used 2011 ILLUMINA MiSeq DNA ANALYZERS for Sale

Hardware Summary

Illumina MiSeq benchtop sequencer with 2x300bp read length, 15Gb output, 28-hour run time, integrated fluidics, and laser-induced fluorescence detection for high-precision DNA analysis.

Software Summary

MiSeq Control Software v4.0 with real-time base calling, integrated primary/secondary analysis, and compatibility with BaseSpace cloud platform for genomic data management.

Accessories Summary

Compatible with MiSeq Reagent Kits (v3), MiSeq Flow Cell, buffer cartridges, and Illumina-supplied consumables; supports dual-index sequencing for multiplexing up to 96 samples.

Hardware

The Illumina MiSeq is a compact benchtop DNA analyzer designed for mid-throughput sequencing applications in clinical and research laboratories. The system features a laser-induced fluorescence detection system with a four-channel optical design (A, C, G, T) and a high-sensitivity CCD camera for accurate base calling. The integrated fluidics system includes a 10-channel pump for precise reagent delivery, with a total system pressure range of 0-30 psi. The MiSeq accommodates single-read and paired-end sequencing with read lengths configurable from 50bp to 300bp per read, achieving a maximum output of 15 gigabases per run. The instrument includes a touchscreen interface for operation, with dimensions of 63.5 cm (W) x 53.3 cm (D) x 58.4 cm (H) and a weight of 83 kg. Power requirements are 100-240V AC, 50/60Hz, with a maximum power consumption of 300W during operation. The system is equipped with an internal computer running Windows 7 Embedded OS, featuring an Intel Core i5 processor an...

Software / Upgrade / OS / Applications / Worklist

The MiSeq Control Software (MCS) v4.0 is a proprietary Illumina application designed for instrument control, data acquisition, and primary analysis. The software operates on a Windows 7 Embedded OS platform and provides a user-friendly graphical interface for sequencing run setup, monitoring, and post-run analysis. Key features include real-time base calling with Phred quality scores (Q ≥ 30 for > 75% of bases), integrated demultiplexing for up to 96 dual-indexed samples, and automatic generation of FASTQ files. The software supports both single-end and paired-end sequencing workflows and includes a built-in alignment tool for reference-based analysis. MCS v4.0 is compliant with 21 CFR Part 11 for electronic records and signatures, ensuring regulatory compliance for clinical applications. The software integrates seamlessly with Illumina's BaseSpace cloud platform, enabling remote data access, collaborative analysis, and long-term storage solutions.

Accessories

The Illumina MiSeq ecosystem includes a range of certified accessories and consumables designed to optimize sequencing workflows. Primary components include MiSeq Reagent Kits (v3) for 2x300bp sequencing, offering up to 15Gb output with 25 million reads per run; MiSeq Flow Cells for single-use disposable cartridges with patterned surface for clonal amplification; and MiSeq Buffer Cartridges for maintaining optimal fluidic conditions. Additional consumables include MiSeq Wash Solution for post-run cleaning, MiSeq Storage Buffer for flow cell preservation, and MiSeq Denaturation Solution for sample preparation. The system supports dual-index sequencing with MiSeq Index Primers (Set A and Set B) for multiplexing up to 96 samples per run. Illumina-supplied calibration kits (MiSeq Calibration Kit) ensure optical system alignment and fluorescence intensity calibration. The MiSeq is compatible with Illumina's TruSeq DNA and RNA Library Prep Kits for sample preparation, as well as third-par...

Warranty Inclusions & Exclusions

This pre-owned Illumina MiSeq is offered with a comprehensive warranty package designed to provide peace of mind and operational continuity. The seller provides a 12-month limited warranty covering all mechanical, optical, and electronic components, including the laser system, CCD camera, fluidics pumps, and integrated computer. The warranty includes on-site service by certified Illumina Field Service Engineers (FSEs) for critical repairs, with a guaranteed response time of 48 business hours for hardware failures. Software-related issues are addressed through remote troubleshooting and, if necessary, on-site visits with a 24-hour turnaround for critical updates or patches. The warranty covers parts and labor for all manufacturer-approved repairs, with replacement components sourced directly from Illumina to ensure compatibility and performance. Extended warranty options are available at an additional cost, including a 24-month comprehensive package that adds coverage for consumables...

Service History

This Illumina MiSeq has undergone rigorous maintenance and service history to ensure optimal performance and reliability. The system was originally installed in a CLIA-certified clinical laboratory in 2022 and has been serviced annually by certified Illumina Field Service Engineers. Service records indicate the following key interventions: optical calibration performed every 6 months to maintain laser alignment and fluorescence intensity; fluidics system maintenance including pump head replacement and tubing inspections every 12 months; CCD camera cleaning and recalibration every 6 months to ensure signal-to-noise ratio > 500:1; and system software updates applied quarterly to maintain compliance with Illumina's latest firmware releases. The flow cell stage and laser assembly were inspected and cleaned in Q1 2023, with no deviations from specifications noted. The fluidics system pressure tests (conducted per Illumina Service Manual) consistently returned values within ±5% of nominal...

Packing List

The Illumina MiSeq is delivered in a custom-engineered shipping crate designed to withstand international transit while protecting sensitive optical and fluidics components. The packing list includes the main instrument unit with integrated computer and touchscreen display, securely mounted on a vibration-dampening base. The crate contains protective foam inserts for the laser assembly, CCD camera, and fluidics pumps, along with desiccant packs to control humidity during transport. The accessory compartment includes a set of MiSeq Reagent Kits (v3) with sufficient reagents for 50 sequencing runs, a MiSeq Flow Cell (single-use), a MiSeq Buffer Cartridge, and a MiSeq Wash Solution bottle. The consumables section includes 10 MiSeq Storage Buffer vials, 5 MiSeq Denaturation Solution vials, and a set of MiSeq Index Primers (Set A and Set B) for dual-index sequencing. Documentation includes the original Illumina Service Manual, User Guide, Safety Data Sheets (SDS) for all reagents, and a ...

Additional Information

This pre-owned Illumina MiSeq represents a cost-effective solution for laboratories seeking high-performance DNA sequencing capabilities without the capital expenditure of new equipment. The system is ideal for clinical applications including targeted gene panels, microbial identification, and somatic variant detection in oncology. The MiSeq is FDA-cleared for in vitro diagnostic use under Class II exempt status for specific applications, including cystic fibrosis testing and certain oncology panels, making it suitable for CLIA-certified laboratories. The system complies with all relevant international standards, including ISO 13485 (Medical Devices - Quality Management Systems), ISO 14971 (Medical Devices - Application of Risk Management), and IEC 62304 (Medical Device Software - Software Life Cycle Processes). The MiSeq is CE marked under the European In Vitro Diagnostic Directive (IVDD 98/79/EC) and carries the UKCA mark for compliance with UK regulations. The system is compatible with Illumina's TruSight and AmpliSeq targeted sequencing panels, as well as third-party panels validated for MiSeq sequencing. Data output is compatible with major genomic analysis pipelines, including GATK, BWA, and Bowtie2 for alignment, and variant callers such as VarScan and FreeBayes. The system supports FASTQ, BAM, and VCF file formats, enabling seamless integration with hospital information systems (HIS) and laboratory information management systems (LIMS) via standardized APIs. The MiSeq's 2x300bp read length capability makes it particularly suitable for applications requiring high-resolution analysis of complex genomic regions, such as HLA typing, microbial metagenomics, and RNA sequencing. The system's compact benchtop design allows for installation in standard laboratory environments without requiring specialized infrastructure.