Next, identify is called to create a .nam file, containing the names of entries containing the keywords, and a .fnd file, containing the actual lines from each entry containing hits. As shown in the example above, the keyword thionin was specified as the keyword to search for. By default, option 3 is set to p, and the PIR protein database is searched.
Messages describe the progress of the search.
If you want to search for a single keyword, option 1 lets you type the keyword, without having to create a file. To search for more than one keyword, choose option 2, and specify the name of a file containing the keywords. As you might expect, it takes longer to search for multiple keywords than a single keyword. Setting one will negate the other. If option 2 is chosen, the name of the keyword file will appear at the top of the menu.