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Illumina MiSeq

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Illumina MiSeq Sequencing Service

Fast, Reliable and High-Quality Next Generation Sequencing

The Illumina MiSeq sequencing is the perfect solution for any small scale sequencing project. Ideal projects include small RNA sequencing, small genome sequencing, targeted resequencing, library QC, PCR amplicon sequencing, and more. The instrument provides basic on board data analysis such as genome alignment and assembly. Additional bioinformatics and consultation services are also available.

SeqMatic offers high quality MiSeq sequencing services with short turnaround times. Receive sequencing data via our secure FTP server within two weeks after library submission. All of our MiSeq runs utilize our custom developed Dual Indexed PhiX, eliminating cross contamination of PhiX in your reads.

Need your samples sequenced right away? Check out our MiSeq Express services.

Available Run Types:

Read Length	Read Count	Data Output
2 x 25 bp or 1 x 50bp (V2)		750 – 850Mb
2 x 150 bp (V2)	12-15M Single End 24-30M Paired End	4.0 – 5.1 Gb
2 x 250 bp (V2)		7.5 – 8.5 Gb
2 x 75 bp or 1 x 150bp (V3)	22-25M Single End 44-50M Paired End	3.3 – 3.8 Gb
2 x 300 bp (V3)		13.2 – 15 Gb

Illumina Sequencer Comparison

MiSeq Series

MiSeq Series

NextSeq Series

NextSeq Series

Popular Applications & Methods

MiSeq

NextSeq

Antibody Repertoire Sequencing

×

×

Large Whole-Genome Sequencing (human, plant, animal)

×

Small Whole-Genome Sequencing (microbe, virus)

×

×

Exome & Large Panel Sequencing (enrichment-based)

×

Targeted Gene Sequencing (amplicon-based, gene panel)

×

×

Single-Cell Profiling (scRNA-Seq, scDNA-Seq, oligo tagging assays)

×

Transcriptome Sequencing (total RNA-Seq, mRNA-Seq, gene expression profiling)

×

×

miRNA & Small RNA Analysis

×

×

DNA-Protein Interaction Analysis (ChIP-Seq)

×

×

Methylation Sequencing

×

16S Metagenomic Sequencing

×

×

Metagenomic Profiling (shotgun metagenomics, metatranscriptomics)

×

Cell-Free Sequencing & Liquid Biopsy Analysis

×

Run Time

4–55 hours

12–30 hours

Maximum Output

15 Gb

120 Gb

Maximum Reads Per Run

25 million †

400 million

Maximum Read Length

2 × 300 bp

2 × 150 bp

† For MiSeq v3 kits only

“SeqMatic exhibits the best in sequencing performance, customer service, and turnaround. My experience in getting several runs completed was an absolute pleasure, and I would recommend SeqMatic to anyone with sequencing needs!”

Customer F.G.

San Francisco, CA

Priluck, Aaron, et al. “Validation of 16S rRNA Gene Sequencing of the Periocular Microbiome and Lack of Alteration by Topical Eyedrops.” Translational Vision Science & Technology 12.2 (2023): 32-32.
Didion, Elise M., Megan Doyle, and Joshua B. Benoit. “Bacterial communities of lab and Field northern house mosquitoes (Diptera: Culicidae) throughout diapause.” Journal of Medical Entomology 59.2 (2022): 648-658.
Kim, Harper S., et al. “Gut-and oral-dysbiosis differentially impact spinal-and bulbar-onset ALS, predicting ALS severity and potentially determining the location of disease onset.” BMC neurology 22.1 (2022): 62.
Ward, Lewis M., et al. “Draft genome sequence of Leptolinea tardivitalis YMTK-2, a mesophilic anaerobe from the Chloroflexi class Anaerolineae.” Genome announcements 3.6 (2015): 10-1128.
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