NGS UDI Primer Sets

Our NGS UDI Primer Sets use advanced 12-base Unique Dual Indexes (UDIs) with high edit distances for maximum demultiplexing precision. Engineered for compatibility with Illumina platforms, these primers reduce index hopping, minimize cross-contamination, and deliver unmatched sequencing reliability. Ideal for high-throughput applications, complex multiplex setups, and RNA-seq. NGS UDI Primer Sets are delivered in a full-skirted 96-well PCR plate with a pierceable foil seal. Each primer pair has a concentration of 10µM provided in bidest water in 10µl for single use. Enter the quantity you need and click "Add to Cart".

Validated In-House

ISO 13485 Certified

Ready-to-ship 96-well plates

The problem

NGS Multiplexing Without a Safety Net

Multiplexing is a smart way to reduce sequencing costs — but it comes with risks.

If you're experiencing any of the following issues, you're not alone:

❌ Index hopping

❌ Cross-contamination

❌ Misassignment of reads

❌ Unpredictable results and re-runs

❌ Long delivery times or inflexible set combinations

Scientists today are under pressure to deliver clean, reproducible data — and compromised index primers are a common root cause of unreliable sequencing results.

OUR SOLUTION

UDI Primers That You Can Trust

Eurofins Genomics’ NGS UDI Primer Sets offer a reliable way to safely multiplex without compromising on precision:

✔️ 12-base unique dual indexes (UDI) – long and safe 

✔️  ≥4 base edit distance – minimizes misassignment

✔️ Ultra-low cross-contamination – just 0.0014% in real-world sequencing 

✔️ NGS performance-verified in-house

✔️ Certified under ISO 13485 

✔️ Compatible with Illumina TruSeq & NEB adapters 

✔️ Scalable: Combine 4 x 96 sets to reach 384 indices 

✔️ Transparent pricing: Only €299 per 96-primer set

Proven Performance

• 99.9986% of reads correctly assigned in Illumina NovaSeq 6000 tests
• 10x cleaner than leading competitor primers
• Validated across 14 unique index combinations
• Available in ready-to-ship 96-well plates – combine to 384 UDIs

Read the full Application Note →

Why Double Indexing Matters

Think of your sequencing pool like a shared washing machine. You toss in dozens of samples — and hope everything comes back to the right owner.

• Single indexes = Risky laundry
• Poorly designed UDIs = Mismatched socks
• Index hopping = Total chaos
• Unique Dual Indexing means every DNA fragment gets two matching labels — dramatically reducing errors, contamination, and frustration.

Product Specifications

Get Started
Ready to bring clarity to your sequencing results?

• €299 per set
• One-click ordering
• Available with rapid delivery
• Talk to our smart 24/7 assistant.
  

  Call us anytime at +49 30 219 244 13
  Let´s discuss product options and specifications – in English or German.

Explore More

Deepen your understanding with curated resources

Whether you need technical validation, inspiration, or application know-how – these links lead the way.

Application Note NGSgrade Oligos 2.0 

Blog: Oligonucleotides for Diagnostics

Blog: How to do NGS 50% faster

Blog: Meet the team

Frequently Asked Questions (FAQ)

Quick answers to common concerns: We know that time matters. Here are some of the most common questions we get – and how our NGS UDI Primer Sets can help.

1. Can I use these primers for RNA-seq?
   Yes. They are ideal for RNA-seq, microbiome analysis, and all Illumina-based NGS workflows.
   
   
2. Are the sets combinable??
   Yes, you can freely combine 4 x 96 UDI sets for up to 384 unique index pairs.
   
   
3. How are the primers tested?
   Each batch undergoes NGS-based QC in our in-house lab to ensure performance and purity.
   
   
4. Is cross-contamination really that low?
   Yes. With a verified rate of 0.0014%, we outperform most market standards 10x.
   What if it doesn’t work? We stand behind our product. If your results are not as expected, we’ll work with you through our dedicated customer support to investigate. This includes free replacement, reruns, or refund where applicable. Your success is our priority.

>> More FAQ's Here

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