When I reset the "Vis.elements" or "Show meta info (Gaps/Ident)", the menu and the alignment panel are not aligned any more, the alignment panel is shifted to the right.
When exporting a png from the Export menu "Export MSA image (PNG)" button, only the visible part of the MSA is in the image. Whould it be possible to see the whole alignment (with multiple pages maybe)? Also the sequence id / labels are not in the png.
I have added a consensus seq from the Extras menu button. Don't know how to remove this consensus seq
Tested with latest msa.min.js (2016-08-05)