Mobile elements

Created with MobileElementFinder.

MobileElementFinder can detect the following types of MGEs: Insertion sequences (IS), Unit-transposons (Tn), Composite transposons (ComTn), Integrative Mobilizable Elements (IME) and Miniature Inverted Repeats (MITEs), Integrative and Conjugative Element (ICE), Composite Integrative and Mobilizable Element (CIME).

Review of mobile elements

Prophages

Created with Phaster.

A prophage region is considered to be incomplete if its completeness score is less than 60, questionable if the score is between 60 and 90, and intact if the score is above 90 as in original Phast article.

Plasmides

Created with PlasmideFinder.

These tools will facilitate bacterial typing based on draft genomes of multi-drug resistant Enterobacteriaceae by a rapid detection of known plasmid types.Replicon sequences were collected from 559 fully sequenced plasmids present at the NCBI nucleotide database associated with the family Enterobacteriaceae, to build a consensus database for integration into a web-tool called PlasmidFinder usable for replicon sequence analysis of raw as well as group of contigs or completely assembled and closed plasmids sequencing data. The PlasmidFinder database currently consists of 116 replicon sequences that match at least at 80% nucleotide identity with all replicon sequences identified in the 559 fully sequenced plasmids.

Antibiotic resistance

Created with ResFinder.

Virulence factors

Created with VirulenceFinder.

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