These files will be used to search for cis-regulatory elements in the promoters of the genes, according to your selection.
The regulatory elements available for search are PIP-box, hrp-box, mxiE-box, exs-box, and tts-box.
If you wish to upload more than one file (to analyze multiple genomes), compress them in a single zip archive.
In this case, make sure the names of the files are matching to the ORFs and gff files. For example, if the ORFs files are named 'genome1.fasta' and genome2.fasta', the names of the corresponding gff files are 'genome1.gff3' and genome2.gff3', then the corresponding full genome files should be named 'genome1.txt' and 'genome2.txt' (note that the file extension is just an example, and is of no importance).
The files should not be packed inside directories - directories packed in the zip archive will be ignored. Also files with names starting with a dot (.) or an underscore (_), or with names not found in the ORFs files will be ignored.