// features

Viewers, editors, and analysis - all in your browser

Stranded combines the core tools you need for sequence analysis in one platform:

01 - Viewer

Multi-mode sequence viewer

Navigate sequences with a track-based viewer. Linear maps, circular plasmid views, and raw sequence text. Toggle annotation tracks, translation frames, restriction sites, and GC content as independent layers. For NGS data, generate per-sample quality reports and apply read filtering before downstream analysis.

Linear Wrapped Circular Quality Read filtering

02 - Chromatograms

Sanger trace viewer

Import .ab1 files and view chromatograms with per-base quality scores. Trim ends, review ambiguous calls, easily merge multiple sanger tracers, and confirm your sequencing results.

.ab1 import Quality scores End trimming Read merging

Merging multiple Sanger reads in Stranded

03 - Alignment

Multiple sequence alignment

Align with popular tools direclty in-app - no command line needed. View consensus tracks, conservation scores, and color-coded residues. Edit gaps, adjust boundaries, and annotate directly within the alignment grid. Pairwise similarity matrices are computed automatically alongside every alignment.

Consensus Similarity matrix

04 - Assembly

Assembly & read mapping

Assemble reads entirely in-app - both short- and long-read pipelines are supported, no local compute needed. Map reads to a reference with coverage graphs, variant overlays, and contig navigation. Inspect individual reads, view mismatches, and navigate to regions of interest. Alrady have assemblies? No problem, BAM imports are built right in.

Short-read assembly Long-read assembly BAM / read mapping Coverage Variants

05 - Annotations

Annotations

Create, edit, and manage annotations such as - gene names, products, qualifiers, and other genetic features. All annotations render as synchronized tracks across every view. Auto-detect open reading frames with configurable parameters across all six reading frames. Design primers with our built-in mapping tool - visualize binding sites and predicted amplicons directly on your sequences.

Annotation editor ORF finder Primer mapping

06 - Phylogenetics

Trees, distances & recombination

Perform phylogenetic analysis on your alignments, model-testing, maximum likelihood, and boostrapping, no problem! Use our built-in tree editor to zoom, reroot, collapse and highlight clades. We also provide recombination detection and visualization in an iteractive viewer, publication-ready, and exportable.

ML trees Distance matrix Recombination Newick export

07 - Export

Export & sharing

Checkout your data in common formats; FASTA, GenBank, Nexus, Newick, or generate password-protected share links for collaborators. Your data is never locked in.

.fa & .fq .gb .nwk

08 - Provenance

Full data provenance

Every result in Stranded knows where it came from. Open any document and see the exact workflow that produced it, which sequences were used as input, what parameters were set, and how long it took. Reproducibility is built in - not bolted on.

Audit trail Input tracking Parameter log Reproducible

// workflow

How it works

It runs entirely in your browser - all heavy computation happens on our servers, so you don't need powerful hardware. Drag in your files and start working with nothing to install. Your subscription includes monthly tokens that cover your analyses.

Every analysis - from alignments to phylogenetic trees - runs on Stranded's distributed compute infrastructure, not your laptop. Select sequences, pick a workflow, configure parameters, and click Run. Results land back in your project automatically, ready for the next step.

Each subscription tier comes with a monthly token allowance that resets on the 1st. Simple workflows are free; more demanding analyses like de novo assembly cost more tokens. Your balance updates in real time, and if a workflow fails you get a full refund - so you only pay for results.

Import

Drag files into your project. We parse server-side and index for fast retrieval - even multi-GB files.

.fasta .gb .ab1 .bam .fastq

Explore

Open sequences in the viewer. Add annotations, find ORFs, check Sanger traces. Organize in folders.

Analyze

Run alignments, assemblies, phylogenies, and more - all executed on our infrastructure. Workflows cost tokens based on complexity, and results appear right in your project.

Share results with collaborators using secure links, then export annotated sequences and figures in standard formats with no lock-in.

// practical fit

Why switch from desktop tools?

We built Stranded because the tools we relied on were expensive, bloated for our use-cases, and always tied to a limited number of devices. If any of this sounds familiar, you'll probbably appreciate what we have to offer.

Desktop tools

✕ €1K+ per year
✕ Local install + license server
✕ Manual updates, version conflicts
✕ One machine, local computation
✕ Sharing via email attachments
✓ Broad feature coverage
✓ Established ecosystem

Stranded

✓ Affordable academic & commercial pricing
✓ Browser-native access across devices
✓ Automatic updates, zero downtime
✓ Any device, anywhere, server side execution
✓ Share links
✓ Core workflows covered
✓ Rapidly evolving with researcher feedback

// pricing

Expected pricing*

Simple pricing, no lock in, paid per month. Cancel any time.

PhD Student

€8/mo

All viewers & analysis tools
5 GB sequence storage
100 Analysis token per month
EU cloud data storage

Academic

€20/mo

All viewers & analysis tools
10 GB sequence storage
Priority batch processing
150 Analysis token per month
EU cloud data storage

Commercial

€55/mo

Everything in Academic
50 GB sequence storage
API access**
Additional analysis tokens
Dedicated support

Talk to us

+ Additional storage available for all plans at €0.50/GB per month.

* Subject to change based on beta test outcomes.

** API access will be available from Q4 2026.

A modern workbench formolecular biology.