Submit query
     
Click here to show/hide the option menu Clear this form Show help for the chosen program
  • Select the program of choice.
  • Paste your query in the query box. Click Submit button to pass on the query with default options. Please note that some programs might have some options/parameters that are required. Also note that SeWeR doesn't check whether the required option(s)/parameter(s) is supplied or not. See program description for details.
  • Click Options button to fill up options. The button is a toggle. Clicking it again will close the option.
  • Click Customize to customize this search. Fill up all the options that you require, then click Customize. SeWeR will open another window with a customized page. Save that file on your computer.
  • Click Help to check the help page of the selected program. SeWeR will open a new window to show the help page.
  • Click Submit to pass on the query. SeWeR will open a new window for results.
Home | NucleicAcid | Protein | Database | PCR | Alignment | Tools | Bookmarklets | Customize

Copyright © 2000, 2003 Malay Kumar Basu
Send your comments/suggestions/bug-report to me:
malay@bioinformatics.org
Disclaimer


Program Name

clustalw

Output format

Pairwise Alignment Fast/approximate Slow/Accurate


Pairwise alignment parameters for fast/approximate

K-tuple(word) size

Window size

Gap Penalty

Number of Top Diagonals

Scoring Method


Pairwise alignment parameters for slow/accurate

Gap Open Penalty

Gap Extension Penalty

Weight Matrix


Multiple alignment parameters

Gap Open Penalty

Gap Extension Penalty

Weight Transition Yes No

Weight transition value

Hydrophilic Residues for Proteins

Hydrophilic Gaps Yes No

Weight Matrix

Additional options (delimited by whitespaces)

block maker  
Your email Sequence Description
ClustalW
At Kyoto university bioinformatics center. Align multiple sequence. Input type, DNA or protein sequences. See help to find out the input format of the sequences. Required option, none.
Block Maker
At Fred Hutchinson Cancer Research Center. Finds conserved blocks in a group of two or more unaligned protein sequences. At least two protein sequences must be provided to make blocks. Each sequence must have a unique name of 10 characters or less. All sequences must be of same format (FASTA). Input type- protein sequences. Required option- email for 25 sequences or more than 15,000 amino acids.