Genome aligner that shows annotations too

Question

[danvoronov]

Hi,

I am looking for a tool that can align two closely related eukaryotic genomes (or parts of the genomes, because the genomes themselves are quite large). I also need this tools to show genome annotations, such as genes or BED regions along with the alignments. Can anyone suggest anything?

Thanks.

Best,

Dan

[Anima Mundi]

Hi, you may try MacVector, SnapGene or VectorNTI (actually, the latter has been recently discontinued).

Answer 1

[danvoronov]

So far the only one I was able to find for the genomes is Mauve . It allows to align the sequences and allows visualization of the alignment while showing the annotation features of your sequences.