ALICAO
:: DESCRIPTION
ALICAO is a program to perform contact-based sequence alignment, where the structure of the first sequence is known (template) and the sequence of the second sequence is unknown (query). A contact map is extracted from the template structure and the program aligns the two sequences by maximizing a combination of contact mutation and sequence mutation probability. The combination of structure and sequence information overall improves alignments between sequences with < 30% sequence identity.
::DEVELOPER
The Centre for Integrative Bioinformatics VU
:: SCREENSHOTS
N/A
:: REQUIREMENTS
- Linux
:: DOWNLOAD
:: MORE INFORMATION
Citation
J. Kleinjung, J. Romein, K. Lin and J. Heringa,
Contact-based sequence alignment,
Nucleic Acids Research 32(8) (2004) 2464-2473