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Prepare a query schema and save it to a file.

Open a nucleotide sequence that you want to analyze with this query schema. You can see the sequence displayed in the Sequence view.

To learn more about the Sequence view read the main UGENE User Manual.

Select the Analyze ‣ Analyze with Query Schema item in the Actions main menu or in the context menu:

The Analyze with query schema dialog appears:

Browse for the file with a query schema. The selected schema preview appears in the dialog, for example:

You can also adjust other parameters:

Region — the sequence range to analyze with the query schema, you can select:

    • Whole sequence — to analyze the whole sequence.
    • Selected range — to analyze the currently selected sequence region. This item is disabled if there is no region selected.
    • Custom range — to specify manually a range to analyze.

In the Save annotation(s) to group you can set up a file to store annotations.  It could be either an existing annotation table object, a new annotation table or auto-annotations table (if it is available).

In the Annotation parameters group you can specify the name of the group. If the group name is set to <auto> UGENE will use the group name as the name for the group. Also you can add a description in the corresponding text field.

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