Loading an alignment using a so-called "alignment provider". Currently there are alignment providers for Superhirn (tabular format)and SpecArray. Providers for other tools or formats (i.e. Superhirn XML format) can be added easily (once they are implemented ...).

Create a new inclusion list from the features shown in the master table (big table on the top right). Filters (as shown on the bottom right) are used to select only features fulfilling specified criteria from the overall list of features.

Assign feature in selected inclusion list to segments.

Modify the settings of a filter. A filter can also be negated.

Modify the mode of a "meta filter". A meta filter combines several regular filters using a logical operator (AND, OR, XOR). There can be additional meta filters (using different operators). However, meta filters are always combined using AND, i.e. a feature has to pass every meta filter to be included in the filtered list.

All inclusion lists created from the master table, which is represented by the top entry called "Superhirn Alignment" (technically the master table is an inclusion list as well). Some preliminary statistics are shown. This will be extended.