Visualize/output of global alignment and shows matrix map

Question

[l.roca]

Hi,

I am looking for a site that perform global alignment and shows the matrix map (for example this output)

Does it exists?

Thanks

Answer 1

[Devon Ryan]

You might try this excel implementation: http://rmtheis.wordpress.com/2010/02/16/microsoft-excel-implementation-of-the-needleman-wunsch-sequence-alignment-algorithm/

I haven't checked to see if that's DNA only or if it supports a custom substitution matrix and amino acid sequences as well, but it's at least something. For what it's worth, global alignment algorithms are actually pretty easy to write.

Answer 2

[Pierre Lindenbaum]

Something like http://ds9a.nl/nwunsch/ or this: https://github.com/aebruno/needleman-wunsch