Skip to main content

Advertisement

Figure 3 | Genome Biology

Figure 3

From: The Harvest suite for rapid core-genome alignment and visualization of thousands of intraspecific microbial genomes

Figure 3

Gingr visualization of 826 P. difficile genomes aligned with Parsnp. The leaves of the reconstructed phylogenetic tree (left) are paired with their corresponding rows in the multi-alignment. A genome has been selected (rectangular aqua highlight), resulting in a fisheye zoom of several leaves and their rows. A SNP density plot (center) reveals the phylogenetic signature of several clades, in this case within the fully-aligned hpd operon (hpdB, hpdC, hpdA). The light gray regions flanking the operon indicate unaligned sequence. When fully zoomed (right), individual bases and SNPs can be inspected.

Back to article page