Sequence Visualizer

Design silent mutations or insertions and preview primers on your plasmid sequence

Pick where to insert, then click any item — PEEK fills the form and designs the primers for you.

Insert at position

The item is inserted just before this base (1-based).

Inserts the enzyme's recognition site as DNA at your chosen position.

Inputs

Silent Mutation

Insertion

From Primers

Indels

Plasmid / Template Sequence *

Original window *

Must be an exact substring found in your plasmid

Mutated window *

Same length as original; changed bases encode the same amino acids

New here? Load an example to see how PEEK works.

Quick Mutations

Pull a result from another PEEK tab — choose one to load its inputs & visualize.

Silent mutation — Silent Mutation Generator

Enzyme insertion — Primer Design

Amino acid insertion — Primer Design

Indel primers — Primer Design

Run a mutation on the Silent Mutations or Primer Design tab — results show up here.

How to use

From Primers (easiest): paste primers you already designed from the other PEEK tabs — the viewer will find where they bind and draw them on the sequence.
Silent Mutation: copy the codon region you want to change as the original window, paste the synonymous version as the mutated window.
Insertion: pick the position (1-based) where you want to insert extra DNA or amino acids.
Primers are designed using Q5 polymerase / NEB rules targeting 60-70 °C.
Highlighted bases show where each primer binds (blue = forward, red = reverse) and where changes occur (amber).

Paste your plasmid sequence, configure a mutation or insertion, and click Visualize & Design Primers.