Theres a new Jalview release, 2.1.1, available for download now which addresses a number of bug reports we've had other the past couple of weeks. As they affect data input (if using annotation files with sequence references) and image output we deemed it necessary to get this bug fix release out as soon as possible.
* Image output - rightmost residues are rendered if sequence id
panel has been resized or /start-end suffix is omitted.
* Image output - all offscreen group boundaries are rendered
* Annotation files with sequence references - all elements in file
are relative to sequence position
* Mac Applet users can use Alt key for group editing
A simple new feature added is the ability to copy the consensus sequence to clipboard.
Thanks again for using Jalview!