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Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W540-3.

YASS: enhancing the sensitivity of DNA similarity search.

Author information

  • 1LORIA/INRIA-Lorraine 615 rue du Jardin Botanique, 54602 Villers-les-Nancy, France. Laurent.Noe@loria.fr

Abstract

YASS is a DNA local alignment tool based on an efficient and sensitive filtering algorithm. It applies transition-constrained seeds to specify the most probable conserved motifs between homologous sequences, combined with a flexible hit criterion used to identify groups of seeds that are likely to exhibit significant alignments. A web interface (http://www.loria.fr/projects/YASS/) is available to upload input sequences in fasta format, query the program and visualize the results obtained in several forms (dot-plot, tabular output and others). A standalone version is available for download from the web page.

PMID:
15980530
[PubMed - indexed for MEDLINE]
PMCID:
PMC1160238
Free PMC Article

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