Download and Install the Blast Suite of Programs

To perform sequence alignments for identification of segmental duplications in the genome, download and install the BLAST suite of programs on your computing environment. The BLAST suite of programs is available from the NCBI as precompiled binary distributions or as source code. The precompiled binaries are available from These are compiled for many operating systems and hardware architectures (see Note 9). Installation is a simple matter of downloading and then uncompressing the distribution for your computing environment. Documentation supplied with the BLAST suite of programs describes command line options for each of the utilities. In this protocol, the formatdb and MegaBLAST (16) command line tools are used to identify segmental duplications in the genome. Formatdb is used to create BLAST databases, and MegaBLAST is used to perform sequence alignments.

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