Re^2: Per residue sequence alignment - per character string comparison?

[perldigious]

It looks like choroba has provided you with a working solution to your problem.

Just a tip for this type of forum for asking questions, it's usually helpful if you reply directly to each node where a follow up question is asked with the answer to that question. In the case here of your node I'm replying directly to, your first paragraph would fit more logically as a response to my question and your second would fit more logically as a response to choroba's question. That way questions and answers "stick" together and make it easier for other monks to read and understand what's going on, which in turn makes it easier for them to help you :-).

Not using direct replies this way means your node here may not necessarily stay near to the follow up questions that were asked, which can be confusing. It's not a big deal here because there were not very many nodes in the thread anyway, but if the thread gets larger the sequence of the conversation can quickly be lost.

[proteins]

Thank you for the tip. I didn't realize the nodes floated around by replies instead of being in a traditional threaded format.