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Updated: May 9, 2026

An Integrated Approach for Microprotein Identification and Sequence Analysis
Published on: July 12, 2022
SAPA tool: finding protein regions by combination of amino acid composition, scaled profiles, patterns and rules
Josef Maier1, Alexei A Adzhubei, Wolfgang Egge-Jacobsen
1IStLS, 78727 Oberndorf, Germany, Engelhardt Institute of Molecular Biology, Moscow 119991, Russia, Department of Molecular Biosciences, Glyconor Mass Spectrometry, University of Oslo, 0316 Oslo and Norbrain Mass Spectrometry Facility, Unit for Genome Dynamics, Department of Microbiology, Oslo University Hospital, 0372 Oslo, Norway.
Summary:
Functional modules within protein sequences are often extracted by consensus sequence patterns representing a linear motif; however, other functional regions may only be described by combined features such as amino acid composition, profiles of amino acid properties and randomly distributed short sequence motifs. If only a small number of functional examples are well characterized, the researcher needs a tool to extract similar sequences for further investigation.
Availability And Implementation:
We provide the web application 'SAPA tool', which allows the user to search with combined properties, ranks the extracted target regions by an integrated score, estimates false discovery rates by using decoy sequences and provides them as a sequence file or spreadsheet. Source code, user manual and the web application implemented in Perl, HTML, CSS and JavaScript and running on Apache are freely available at http://sapa-tool.uio.no/sapa/
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