Preferences
+The preferences panel is opened from the Jalview Desktop’s Tools menu.
There are six tabs in the Preferences dialog box:
+Automatically set ID width
+When enabled, the column containing sequence and annotation labels at the left hand side of an exported figure will be made large enough to display each sequence ID and annotation label in its own line. Enable this if you have particularly long sequence IDs and need to generate EPS or PNG figures or web pages.
Figure ID column width
+Manually specify the width of the left hand column where sequence IDs and annotation labels will be rendered in exported alignment figures. This setting will be ignored if "Automatically set ID width" is set.
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Sequence//Start-End Numbering
The output tab also has a group of checkboxes for each file format. If
these are ticked, then Jalview will write files with the start and end