Oligo Pool Design & QC Before Vendor Upload
Run sequence QC, check synthesis risk, and export vendor-ready files before you submit CRISPR libraries, NGS panels, gene assembly pools, or mutagenesis designs for synthesis.
Choose a calculator, check a sequence set, or prepare an order file without sending sequence data to a server.
Pre-Order Checks for Oligo Pools
Check the sequence file before synthesis: clean formats, flag risky rows, estimate synthesis loss, and size the pool for the experiment.
Format Converter
Transform sequences between FASTA and CSV with strict validation rules.
Batch Sequence QC
Review up to 10,000 sequences for Tm spread, GC limits, homopolymers, and secondary-structure risk.
Error Rate & Uniformity
Estimate full-length yield, coupling efficiency effects, and representation risk before ordering.
Coverage Calculator
Estimate the material and coverage needed to reduce dropout in pooled experiments.
Built for High-Throughput Applications
Open focused guides for CRISPR libraries, NGS panels, and multiplex PCR primer sets.
CRISPR sgRNA Libraries
Plan sgRNA libraries with balanced guide sets, clean sequences, and fewer off-target risks.
NGS Target Enrichment
Design hybridization capture probes with balanced GC content for uniform enrichment.
Multiplex PCR Panels
Mitigate primer-dimer formation and Tm imbalances to ensure even amplification across hundreds of targets.
Why Use These Tools
Published Method Basis
Tm and related calculations reference peer-reviewed methods, including SantaLucia 1998 and Breslauer 1986, with assumptions documented in the method pages.
Privacy Focused
All calculations run in your browser. Sequences and result rows are not transmitted to our servers; analytics only records aggregate site interactions.
Open Access
No registration, no paywall, and no vendor lock-in. Use the calculators directly when you need a quick design check.
Vendor-Agnostic Order Preparation
Move from a checked sequence pool to a vendor shortlist and export format. Compare pool fit, QC scope, delivery assumptions, and file requirements before ordering.
Open the Oligo Pool GuideCompare pool vendorsHow We Compare
Compare common oligo analysis tools by methods, inputs, privacy model, and batch support.
Start with the Right Calculator
Browse all available tools or open the relevant guide before checking a sequence set. No registration is required. For common experimental contexts, see the use case examples and related design notes.
Built for research use
What is an Oligo Pool?
An oligo pool is a complex mixture of thousands to millions of distinct single-stranded DNA oligonucleotides synthesized in parallel on a microarray surface. Unlike traditional column-based synthesis which produces individual oligos in separate tubes, microarray synthesis generates massive libraries of sequences simultaneously in a single pool.
Parallel synthesis makes large sequence libraries practical for functional genomics. Oligo pools support high-throughput applications such as designing CRISPR sgRNA pools for pooled screening, assembling synthetic genes from oligo pools, and building custom NGS target-enrichment panels.
Due to the inherent constraints of parallel synthesis, such as varying coupling efficiencies and edge effects on the microarray, computational quality control is critical. Predicting error rates and ensuring uniform sequence representation before ordering your pool can prevent costly experimental failures downstream.