Mauve Alignment in Geneious Prime

Course Content

Align Draft Genomes with Mauve

Order draft genomes against a reference sequence with the Mauve contig mover.
LENGTH 4 minutes

Align Whole Genomes with Mauve

Align whole genomes in Geneious Prime using the Mauve plugin. This tutorial covers running progressive Mauve, interpreting locally collinear blocks, rearrangements and inversions in the Mauve viewer, and adjusting the LCB weight slider.
LENGTH 4 minutes

Convert Mauve Alignment to Standard Alignment

Convert a Mauve genome alignment into a standard alignment in Geneious Prime, using Extract Mauve Regions and Concatenate Sequences or Alignments, so it can be used for downstream analysis such as phylogenetic tree building.
LENGTH 3 minutes

Recommended Resources

Plugin - Install Mauve

Align multiple genomes to identify large-scale evolutionary events using Mauve.

Why is my alignment taking so long?

How to choose the appropriate alignment algorithm for your dataset.

Manual for the Mauve Aligner

A guide to aligning bacterial genomes with Mauve in Geneious.

Manual for Installing Plugins

A guide extending to the functionality of Geneious Prime by installing plugins.

More Geneious Academy

TUTORIALHow to Align Genomes with Mauve in Geneious Prime
Align three M. tuberculosis complex genomes with Mauve, then order a draft assembly against a reference.
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VIDEO SERIESPhylogenetic Trees in Geneious Prime
Build and manipulate a phylogenetic tree using the Geneious tree viewer.
Watch Series
VIDEO SERIESMultiple Alignments in Geneious Prime
Perform multiple alignments and assess levels of homology among sequences before constructing a phylogeny.
Watch Series
VIDEO SERIESAnnotate Sequences in Geneious Prime
Annotate your sequences by customizing the view, adding new annotations or annotating your sequence with BLAST.
Watch Series
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