-<p> This alignment method is applied to the selected region, if any, or the whole \r
- sequence set when the <strong>Web Service→Alignment→MAFFT Multiple \r
- Sequence Alignment</strong> menu item is selected. </p>\r
+<p>MAFFT is a program for the multiple alignment of nucleic acid or protein\r
+sequences, and is available from the <strong>Web\r
+Service→Alignment→MAFFT Multiple Sequence\r
+Alignment</strong> entry in the web services menu.</p>\r
+<p>MAFFT utilizes algorithms for spectral correlation to identify\r
+homologous regions in a fast-fourier transform representation of each\r
+sequence. The Jalview web service runs MAFFT using the\r
+'--auto' option which picks optimal parameters\r
+for the set of sequences to be aligned.</p>\r