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SeqBench

Batch FASTA, cloning, CRISPR, workflows — MCP & REST API

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SeqBench runs DNA, RNA, and protein sequence tools entirely client-side in the browser: primer design, restriction and cloning simulation, CRISPR guide design, codon optimization, alignment, and plasmid annotation. Batch FASTA processing and multi-tool workflow pipelines handle bulk analysis, and every tool is also exposed as a REST API and MCP server so agents and scripts can call the same operations directly.

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Features

  • Primer design & Tm calculation
  • Restriction digest and cloning simulation
  • CRISPR guide design
  • Codon optimization
  • Sequence alignment and plasmid annotation
  • Batch FASTA processing and multi-tool workflow pipelines
  • REST API and MCP server for automation

Use Cases

  • Designing a primer set and checking Tm before ordering oligos
  • Simulating a restriction cloning step before running it at the bench
  • Designing and validating CRISPR guides against a target sequence
  • Cleaning up and batch-processing a whole multi-FASTA file at once
  • Calling sequence tools from an AI agent via MCP or REST

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