I know it may seem kind of strange but I was wondering if anybody has ever seen some javascript code for the multiple sequence alignment problem. If not (as I suppose) also some easily portable code (i.e. I need no kitchen sink) will do. Keep in mind that I won't be aligning more than 4-5 sequences less than 100-200 symbols long.
Note: I know javascript is not really the best choice for this kind of things. Trust me, there's a good reason why I have to do it in javascript.
The closest thing I found is just a pairwise sequence alignment algorithm. I turned it into something that would do MSA but it's definitely too slow to be usable for anything longer than a hundred symbols.