SilkDB
Home News Genome Microarray Tools Download Document Resource Links About SilkDB  

Clustalw: Multiple Alignments (Des Higgins)



your e-mail



Please input the sequence in Fasta format or silkworm Gene ID.

Notes:If you input Gene ID, the line must start with "BmID:", and gene name must suffix with "-TA" to indicates this sequence is nucleotide, and suffix with "-PA" indicates it is protein peptides.

For example, BmID:BGIBMGA012615-PA,BGIBMGA012616-PA,BGIBMGA012617-PA




Phylip alignment output format (-output)

Toggle Slow/Fast pairwise alignments (-quicktree) ? Slow Fast



Advanced clustalw form

Some explanations about the options

Toggle Slow/Fast pairwise alignments (-quicktree)
slow: by dynamic programming (slow but accurate)
fast: method of Wilbur and Lipman (extremely fast but approximate)
Sequence format
The sequence will be automatically converted in the format needed for the program
providing you enter a sequence either:
in plain (raw) sequence format or in one of the following known formats:
IG,GenBank,NBRF,EMBL,GCG,DNAStrider,Fitch,fasta,Phylip,PIR,MSF,ASN,PAUP
You may enter in the text area a database entry code, or an accession number, in this form:

database:entry_name

or:

database:accession.

References:

Thompson, J.D., Higgins, D.G. and Gibson, T.J. (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice. Nucleic Acids Research, 22:4673-4680.