About Custom Sequencing

Sequence any sample and receive the raw data files with custom sequencing.

Our custom sequencing service is designed around maximum data output and flexibility. Instead of mapping the process and assembly to a sample type, customers can submit any double-stranded DNA—linear or circular—ranging from 100 bp to a massive 300 kb for full-length sequencing. Custom sequencing is run on the Oxford Nanopore platform for highly accurate, fast results. If you need a specific amount of data, let us know in the project request and we can stop the run once the desired output is reached. Whether you’re working with barcode libraries, variant pools, or complex eukaryotic genomes, this service is designed to deliver exactly the amount and quality of data your research demands. 

  • Full-length sequencing.
  • ANY double-stranded linear or circular DNA.
  • Raw .fastq files will be provided as data deliverable. 

Turnaround Time

In most cases, we’ll have your results ready within 2–4 business days of receiving your samples.

Size and Pricing

  Price Length
Base service  $500 base price up to 1 Gb of raw data 100 bp to a massive 300 kb 
Additional Data  $50 per additional Gb 
Barcoding  $50 per sample if multiplexing / barcoding required

 

How to Plan for Your Data Requirements and Price Estimate

  • For Variant Libraries:
    Total Data = Samples × Insert Size × Variant Count × Desired Coverage
  • For Genomic Sequencing:
    Total Data = Samples × Genome Size × Desired Coverage

How to Start

To get going, email us at GenomicsSupport@genomics.eurofins-info.com with your project details. We'll calculate your data needs, provide a price estimate, and guide you through setup.

Request Custom Sequencing Project

 


More Information

Custom sequencing projects include raw .fastq reads. Post-processing steps like barcode demultiplexing, variant binning, or consensus generation are handled by the customer. 

This service is primer-free, so please don’t send primers—separately or mixed in.

We rely on you to prepare samples that are clean and ready for sequencing. We do not provide DNA extraction or QC services. Use this checklist before shipping:

Concentration:
Normalize your samples to the required volume and concentration, measured using Qubit or a comparable fluorometric method. Do not use Nanodrop for concentration—it’s unreliable for this purpose.

Quantity:
DNA must be double-stranded. Verify the full-length size using gel electrophoresis:

  • Use linear ladders for linear DNA
  • Use supercoiled ladders for circular DNA
  • For DNA >10–15 kb, we recommend pulsed-field electrophoresis with high-molecular-weight markers

Purity:
Ideal absorbance ratios:

  • 260/280 > 1.8
  • 260/230 between 2.0–2.2
    Nanodrop can be used only for purity checks—not for quantification.

Samples must be free of:

  • RNA (RNase treatment strongly advised)
  • Denaturants (e.g., guanidinium, phenol)
  • Detergents (e.g., SDS, Triton-X100)
  • Biological contaminants (e.g., heme, humic acid, polyphenols)
  • Insoluble material or visible cloudiness/color

Refer to our Results Interpretation Guide for a complete breakdown of how to read and evaluate your sequencing output.

 

 

Important Note for Multi-Sample Projects
We quantify your DNA fluorometrically and pool it in equimolar ratios. Natural variations in sample quality may result in uneven data yield. To help offset this, we include a free data buffer, but please keep the following in mind:

  • A sample yielding ≥75% of the per-sample data target is considered complete.
  • A sample yielding <75% will be rerun once for free. We may request a new sample if the initial run underperforms severely.

Have strict per-sample requirements? Let us know upfront—we can adjust the target so even 75% of that value meets your minimum threshold. Pricing will be based on this raised target.

Need Uneven Multiplexing?
We default to equal pooling, but if you need different data volumes per sample, no problem—just let us know during project setup. Each sample’s success is measured against 75% of its individual target.

 

Technology


Your project is powered by Oxford Nanopore Technologies’ cutting-edge long-read sequencing, using the latest R10.4.1 flow cells and v14 library prep chemistry. No amplification, no primers—just accurate, long-read data. Here's how it works:

  • Library Construction (Amplification-Free):
    • Circular DNA: Linearized without sequence bias.
    • Linear DNA: End-ligated without sequence dependence.
    • Genomic DNA: Lightly fragmented using unbiased tagmentation (unless end-ligation is preferred).
  • Sequencing: Primer-free protocol using ONT’s most accurate platform. Output is delivered in standard .fastq format.

Go to Sample Submission Guide and General FAQ >

Testimonials

“Your sequencing reactions were perhaps the turning point in my work. Obtaining such good quality reads is rare. I have submitted many samples but this is was the best, we should explore all variable associated with the success to make it reproducible, quality, quantity of DNA to reagents used at Eurofins.”

Shyam G

Shyam G

Customer

“We got the sequences back and are quite happy with the quality. One of the orders had amplicons that we have been sequencing routinely for many years and quality from Eurofins seems to be better. Also, our overall experience with Eurofins website, sample submission, email notifications and sequencing results was positive and user friendly. We are looking forward to sequencing with Eurofins.”

Anna M.

Anna M.

Customer

“This was really impressive. Cannot believe we can get full plasmid sequencing for $15 a pop. Greatly appreciated.”

Drake R. PhD

Drake R. PhD

Customer

“Whole Plasmid Sequencing is good service at a great price point that saves me time. A great addition to the sequencing toolkit that I will be using more in the future.”

Shane A

Shane A

Customer

“Beautiful sequences”

Dr. Dorothy E.

Dr. Dorothy E.

Customer

“Speed of analysis is exceptional!”

Adeleye A.

Adeleye A.

Customer

“I have to say, your sequencing is outstanding. From ease of drop off to rapid turn around, to your customer support people if I do have a question and call. I refer everyone to Eurofins. Thanks for doing a great job!”

Amy H.

Amy H.

Customer

“Incredibly fast turnaround, and the sequences are stellar. I’m really thankful for your services, they make my job much easier.”

Joseph D.

Joseph D.

Customer

“I am consistently surprised and pleased with how quickly you can provide sequencing data! I dropped my samples off late last evening at my local dropbox and my results were waiting in my inbox when I arrived at work this morning! My PI and I were just joking that we make a comment every time about how the results come so quickly. Maybe we just aren't used to such good customer service. Great job.”

Eva J.

Eva J.

Customer

“Love your service. You guys are my go to service, and I constantly recommend you to local folks who do sequencing.”

Daniel K

Daniel K

Customer

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