posting a question to the list?


I’m trying to post a question to the list, but it rejects me right away. Do I have to be subscribed in order to post questions? If you could help me with this I would greatly appreciate it! Please see my question below.

Thank you!




We’re currently using Jalview to display MUSCLE alignments in our web app DNA Subway (

Currently, jalview colors all conserved nucleotides, however what I am interested in is coloring only the unconserved bases and possibly even hiding all the conserved nucleotides so all you see is the nucleotides which are different from the consensus. Has this ever been discussed and is it possible?

Any advice would be greatly appreciated!

Thank you,


Mohammed Khalfan

Bioinformatics Developer

DNA Learning Center

Cold Spring Harbor Laboratory

1 Bungtown Road

Cold Spring Harbor NY 11724


I do have some java experience, and I’d be happy to give this a go. I’ll wait to hear from you.