Please Note: Working with Plasmid Databases requires the Long-read Data Plasmid Transmission Analysis Module
The function Search Similar Plasmids in Mash Database allows to search a Mash database by the DNA-sequence of a plasmid. Matching plasmids in the selected database below a given distance threshold are displayed in a Plasmid Table. The query plasmid sequences are fetched from the Sample attachment. The resulting table will contain the default Project fields for the Sample, the MLST ST fields for all found plasmids, and the MOB-Suite results for each plasmid.
All available Mash databases for each Task Entry of the Sample are listed in the drop down menu and can be selected for a similarity search. Mash databases that do not contain the selected plasmid are displayed in orange.
The distance settings for similarity searches can be changed, the default is 0.001. Size difference compensation can be turned on or off and the thresholds can also be changed.
Important:
- If SeqSphere+ is installed on Windows, Mash Plasmid Typing requires the Windows Subsystem for Linux (WSL).
- If SeqSphere+ is installed on Linux, Mash Plasmid Typing must once be installed by calling the installation of Bioinformatic Tools on Linux.