aligning 2 fasta file genomes

Question

[taimur.al-said]

Hi all,

Is there a way to align 2 fasta file genomes? Since bwa and bowtie2 cant read large genomes with more than one sequence. The fasta files are about 2GB in size.

Taimur

[GenoMax]

You can also check programs like mauve (LINK) and lastz (LINK).

Answer 1

[guillaume.rbt]

There are tools specifically designed to align genomes, mummer for example.