Circos facilitates the identification and analysis of similarities and differences arising from comparisons of genomes. The genome-wide alignments are performed with MUMMER.

References:

Krzywinski, M., Schein, J., Birol, I., Connors, J., Gascoyne, R., Horsman, D., ... & Marra, M. A. (2009). Circos: an information aesthetic for comparative genomics. Genome research, 19(9), 1639-1645. 10.1101/gr.092759.109

Marçais G, Delcher AL, Phillippy AM, Coston R, Salzberg SL, Zimin A. MUMmer4: A fast and versatile genome alignment system. PLoS Comput Biol. 2018 Jan 26;14(1):e1005944. 10.1371/journal.pcbi.1005944

Versions: {{ all_stats_dicts['VERSIONS']['CIRCOS']['circos'] }} (CIRCOS), {{ all_stats_dicts['VERSIONS']['MUMMER']['nucmer'] }} (MUMMER)

Notes:

  • Alignments within a distance of {{ all_stats_dicts['PARAMS_DICT']['synteny_mummer_max_gap'] }}bp have been bundled together.
  • After bundling, any bundle smaller than {{ all_stats_dicts['PARAMS_DICT']['synteny_mummer_min_bundle_size'] }}bp has been filtered out.
  • The sequence labels shown on the plot are based on the labelling file provided to the pipeline. These labels may or may not be same as the sequence IDs in the corresponding FASTA files.
{% include 'synteny_circos/dropdown.html' %} {% include 'synteny_circos/report_contents.html' %}