Mutation is easily detected through sequence analysis using the following programs the first one for translation of the gene into protein and the second one for alignment of the protein with a wild strain and so you can detect mutation.
1- ExPASy (Expert Protein Analysis System) Translate Tool, Swiss Institute of Bioinformatics (SIB), Geneva, Switzerland, link, http://www.expasy.org/
2- MEGA5 program, product version 5.1, link, http://www.megasoftware.net