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Selected EMBOSS tools for sequence analysis

Pairwise Sequence Alignment

Needle More Information & Help Documentation

Create an optimal global alignment of two sequences using the Needleman-Wunsch algorithm

Protein Nucleotide

Stretcher More Information & Help Documentation

Improved version of the Needleman-Wunsch algorithm that allows larger sequences to be globally aligned

Protein Nucleotide

Water More Information & Help Documentation

Use the Smith-Waterman algorithm to calculate the local alignment of two sequences

Protein Nucleotide

Matcher More Information & Help Documentation

Identify local similarities between two sequences using a rigorous algorithm based on the LALIGN application

Protein Nucleotide

Sequence Translation

Transeq More Information & Help Documentation

Translate nucleic acid sequences to the corresponding peptide sequences

Launch Transeq

Sixpack More Information & Help Documentation

Display DNA sequences with 6-frame translation and ORFs

Launch Sixpack

Backtranseq More Information & Help Documentation

Back-translate protein sequences to nucleotide sequences

Launch Backtranseq

Backtranambig More Information & Help Documentation

Back-translate protein sequences to ambiguous nucleotide sequences

Launch Backtranambig

Sequence Statistics

Pepinfo More Information & Help Documentation

Create a variety of plots that display different amino acid properties, such as hydropathy or charged residues, and their position in the sequence

Launch Pepinfo

Pepstats More Information & Help Documentation

Calculate properties of protein sequences such as molecular weight

Launch Pepstats

Pepwindow More Information & Help Documentation

Draw a hydropathy plot for protein sequences

Launch Pepwindow

Cpgplot More Information & Help Documentation

Identify and plot CpG islands in nucleotide sequence(s)

Launch Cpgplot

Newcpgreport More Information & Help Documentation

Identify CpG islands in nucleotide sequence(s)

Launch Newcpgreport

Isochore More Information & Help Documentation

Plot isochores in DNA sequences

Launch Isochore

Sequence Format Conversion

Seqret More Information & Help Documentation

Read and Reformat biosequences.

Launch EMBOSS Seqret

The tools described on this page are provided using the EMBL-EBI bioinformatics web and programmatic tools framework. If you have any feedback or encounter any issues please let us know via EMBL-EBI support.