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Plot catalogue · Comparisons and alignments

Compare sequences without losing orientation

Choose by whether the comparison is column-wise, pairwise, block-wise or anchored on gene neighbourhood. Reversals remain reversals rather than being normalised into forward-looking matches.

5 track types2+ sequences
Multiple nucleotide sequence alignment Column-wise comparisonMsaTrackAligned nucleotides or residues coloured against a reference, consensus or residue class.Open reference Protein domain architectures aligned to the leaves of a phylogeny Interval architectureDomainTrackDomains, motifs, exons or repeats as labelled intervals, optionally sorted and justified by an adjacent tree.Open reference Pairwise sequence dotplot with forward and reverse blocks Two coordinate axesDotplotTrackAlignment blocks as diagonals or anti-diagonals, preserving exact position on both sequences.Open reference Synteny ribbons crossing at an inversion Block correspondenceSyntenyTrackTwo sequence bars joined by ribbons that cross where order or orientation changes.Open reference One homologous locus compared across several genomes Gene neighbourhoodLocusTrackHomologous loci as gene arrows and identity ribbons, with absent homologues kept explicit.Open reference

Choose the comparison unit

The shared unit is… Start with
an aligned column across many sequences MsaTrack
domains or motifs along many sequences DomainTrack
a coordinate pair between two sequences DotplotTrack
an aligned block whose order matters SyntenyTrack
a gene and its neighbourhood across genomes LocusTrack

For two trees over the same taxa, use the TanglegramTrack route.