| Dotplot | *.dpt | + | + | Stores a dotplot of a sequence. |
| | | | See also: Dotplot |
| UGENE database file | *.ugenedb | + | + | UGENE database files store information for imported BAM or SAM files and can be used for converting this information into a SAM file. |
| | | | See also: Import BAM/SAM File |
| Short Reads FASTA | *.srfa, *.srfasta | + | + | A multiple sequence alignment file format. |
| | | | See also: Alignment Editor |
| UGENE Workflow Language | *.uwl | + | + | Human-readable format to store workflows created in the UGENE Workflow Designer. |
| | | | See also: Workflow Designer |
| UGENE Query Language | *.uql | + | + | Human-readable format to store schemas created in the UGENE Query Designer. |
| | | | See also: Query Designer |
| Workflow element for command line tool | *.etc | + | + | Format for storing workflow elements that can launch an external command line tool. |
| | | | See also: Workflow Designer |