SeWeR: Sequence Alignment
Author: Malay

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.
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Your Email | Alignment Title | CPU Mode | Color Alignment
Output Format | Alignment | Output order
Fast Pairwise Alignment Options
KTUP (Word Size) | Window Length | Score Type | Pairgap | Topdiag
Multiple Sequence Alignment Options
Matrix | Gap Open | End Gaps | Gap Distances | Gap Extension
Phylogenetic Tree
Tree Type | Correct Distances | Ignore Gaps

block maker |
Your email | Sequence Description

ClustalW |
At EBI server. 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.