DNA Analysis Tools

Free online DNA sequence analysis tools — reverse complement, GC content, base counter, sequence cleaner, transcription, ORF finder, primer Tm, PCR calculator, and agarose gel simulation.

DNA Reverse Complement

Compute the reverse complement of a DNA sequence (A↔T, C↔G) instantly.

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GC Content Calculator

Calculate the GC content percentage and base composition of a DNA sequence.

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DNA Base Counter

Count the occurrence of each nucleotide (A, T, C, G) in a DNA sequence.

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DNA Sequence Cleaner

Clean a DNA sequence by removing whitespace, numbers, and non-standard characters.

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DNA to RNA Transcription

Transcribe a DNA sequence into RNA by replacing thymine with uracil (T→U).

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ORF Finder

Find open reading frames (ORFs) in a DNA sequence across all 6 reading frames, from start (ATG) to stop codon.

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Agarose Gel Calculator

Recommend agarose gel percentage by DNA size and calculate agarose powder and buffer volumes for gel preparation.

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GC Content Distribution

Plot GC percentage along a DNA sequence with a sliding window to spot GC-rich and AT-rich regions.

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Local Alignment + Dot Plot

Compare two DNA sequences with a dot plot and Smith-Waterman local alignment, showing score and identity.

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CDS Protein Editor

Edit the protein encoded by a CDS and get back a minimally changed DNA sequence, with every base change labelled.

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Restriction Analysis

Find restriction sites in a sequence and simulate single or double digests with fragment sizes.

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Restriction Enzyme Database

Search restriction enzymes by recognition site, overhang, buffer, methylation sensitivity and supplier.

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CRISPR gRNA Design

Find SpCas9 target sites with PAM, GC content and an on-target quality score.

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Codon Optimization

Reverse-translate a protein into DNA using host codon usage, or optimize an existing CDS.

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Synonymous Mutation Design

Add or remove restriction sites without changing the encoded protein sequence.

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Chromatogram Viewer (.ab1)

Open Sanger .ab1 trace files in your browser and read called bases with quality values.

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