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Tools for DNA & protein sequence analysis

A variety of popular, and also severalless well known, web-based tools for performing nucleotide or amino acid sequence alignments.


Basic Local Alignment Search Tool (to search DNA and protein sequence databases for matching sequences)

BLAT/BLAST (at Ensembl)

BLAT is a newer, much faster version of the BLAST tool that searches through only non-overlapping sequences (which together represent the full genome).

Pfam protein sequence analysis

Tool for identifying functional protein domains. Click on "Sequence Search"


Protein or DNA sequence alignment tool.

Restriction enzyme cutting site finder

Provided by the New England Biolabs

For more details regarding these databases and a user's guide on how to make the most efficient use of these databases, see Part 3 of Essential Medical Genetics 6th Edition