The mission of the Sequence Analysis & Consulting Service
) is to bring visualization, networking, computional and bioinformatic tools to the UCSF research community. These tools provide methods for characterization and interpretion of genomic data, including nucleic acid and protein sequence analysis, pharmacogenomics and data mining. As part of the Resource for Biocomputing, Visualization, and Informatics (RBVI)
, an NIH National Center for Research Resources
Biomedical Technology Research Center here at UCSF, SACS provides its services primarily on a recharge basis to UCSF researchers. Collaboration opportunities may also be possible.
There are a number of alignment programs available for use through SACS web interfaces.
These programs are open to the general public. The user supplies a fasta file for their
sequences of interest and the selected program then generates an alignment.
There are four pairwise alignment programs: needle and
stretcher which preform global alignments plus
matcher and water which
preform local alignments.
Multiple alignments are handled by clustalw,
multalin, muscle and
t_coffee. The multalin and t_coffee
programs produces colored images of their alignments. Clustalw, multalin and
t_coffee produce files that can be used in the drawgram or
The image at the left is from a t_coffee run.