HiSeq2000​Illumina HiSeq 4000 Genome Sequencer

The IIHG Genomics Division currently operates the Illumina HiSeq 4000 genome sequencing platform. The HiSeq 4000 instrument has 2 flow cells that each accommodates 8 sequencing lanes and only operates in the High Output mode.  The Genomics Division houses two HiSeq 4000 instruments to ensure that genome sequencing projects for both clinical and research applications are sequenced in a timely manner.

While we guarantee at least 260 M reads (single-end using the HiSeq4000), the HiSeq 4000 instruments typically yield approximately >350 million reads per lane. Since most applications require fewer reads, the IIHG Genomics Division can barcode (index) samples to permit the ability to load more than 1 sample per lane. Please contact the Division if you have questions about the depth of coverage needed for your project. Below are the HiSeq 4000 instrumentation run metrics.

Performance Parameter  Run Type
    Read length (bp) 2 x 150 bp 2 x 75 bp 1 x 50 bp
    Yield (Gb/lane) >81 >40 >13
    Run time 3.5 days  2 days >1 day
    Bases>Q30 >75% >80% >85%


Illumina MiSeq Seqencer​Illumina MiSeq Sequencer

The Illumina MiSeq is a “benchtop” version of the HiSeq instruments that uses a single lane flow cell capable of yielding 20 to 25 million reads per run. The run time ranges from 24 h (2 x 75 bp PE run) to 65 h (2 x 300 bp PE run) using the v3 sequencing chemistries. Typically 85% of the bases are greater than Q30 for 75 bp reads and are greater than 70% Q30 for 300 bp reads. This instrument is recommend for projects that require fast turn-around but do not require great numbers of reads.


Contact Information

116 EMRB

Phone: (319) 335-6736 

Fax: (319) 335-6737

For information about downstream bioinformatics support, contact the IIHG Bioinformatics Division (319) 335-6717.