How do I do an online BLAST search with my sequence?.

The MacVector interface to the BLAST server has been designed to give the same results as the NCBI web page interface. To accomplish this, a standard search is provided on a dialog box with few options. The version number of the selected BLAST program is displayed on the right of the Program selector.

Choose Database | Online search for Similar Sequences (Blast).
While the connection is being made to the NCBI server, an information box is displayed. The Online search for Similar Sequences (Blast) dialog box is then displayed.NOTE: If any part of the connection process fails, an appropriate error message is displayed and the entire BLAST search is aborted.
Choose a search program from the Program drop-down menu.
MacVector only displays program options relevant to the current query sequence type.
Choose a database to search from the Database drop-down menu.
MacVector only displays databases relevant to the current search program you have requested.
Choose a threshold score for the BLAST search from the Expect drop-down menu.
Lower Expect thresholds are more stringent, leading to fewer chance matches being reported.
If you do not want a gapped search, click in the Perform gapped alignment check box to deselect it.
You can limit the query sequence to a region of an entire sequence. One way to do this is to type, in the Region text boxes, the numbers of the first and last residues in the region. Another way is to select a region from the features table drop-down menu, which appears to the right of the text boxes.
Select More choices to expand the dialog box and modify the default settings.
NOTE: If you have a Fewer Choices button, you already have the expanded form of the BLAST Search dialog box displayed. The extra settings are described in "Performing an advanced BLAST search", below.
Select OK to perform the BLAST search.

How do I do an online BLAST search with my sequence?.

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