10.0 years ago by
If you have many sequences and restricted width, I don't see how vertical scrolling can be avoided.
One approach is to put each sequence on one line and scroll horizontally. This is how Seaview (not a web application) displays alignment and it can be quite effective, since the eye is drawn to conserved "blocks".
Another approach would be to provide the option of downloading the alignment as a text file and use a different visualisation in the browser to summarise the alignment graphically, without showing the sequences. I'm not sure how that would look, but I'm sure there are examples or ideas from other people.