DNA sequence

MPsrch is a biological sequence sequence comparison tool that implements the true Smith and Waterman algorithm. It allows an rigorous search in a reasonable computational time. MPsrch utilises an exhaustive algorithm, which is recognised as the most sensitive sequence comparison method available, whereas BLAST and FASTA utilise a heuristic one. As a consequence, MPsrch is capable of identifying hits in cases where BLAST and FASTA fail and also reports fewer false-positive hits.

This service provides an external access to the GeneWiz software developed at CBS (Pedersen AG et al. 2000)
The program visualizes DNA parameters and annotations in either a circular or linear representation.

This Web Service accesses the database records and various tools of the
CBS GenomeAtlas database v3. The records maintained by this database are synchronized regularly
with the Entrez Genome Project (http://www.ncbi.nlm.nih.gov/genomes/lproks.cgi?view=1)

SIDDbase-WS is a SOAP based Web Service created in a collaboration between the
Comparative Microbial Genomics Group at CBS, The Technical University of Denmark and
Prof. Craig Benham's research group at the UC Davis Genome Center. It provides
interoperable access to the SIDD software, and access to the repository of stored
results from calculations previously performed on complete bacterial genomes.

SIDD (Stress-induced DNA Duplex Destabilization) is the propensity for the DNA duplex to

This BLASTatlas service creates maps of genome homology of a list of sequences against a reference
genome using either blastp, blastn, tblastn, or blastx.

The resolution is per-residue or per nucleotide depending on the regime of the blast
search: For each annotation in the reference genome, the best hit in the database
genome is found using one of the above algorithms. Each matching or mismatching
residue/nucleotide of the best hit (based on BLAST score) is then mapped back to the
genome sequence, using the coordinates provided in the annotations.