REAGENT or RESOURCE	SOURCE	IDENTIFIER
Software and Algorithms
eCIS screening pipeline	This paper	https://github.com/ipb-jianyang/eCIS-screen
Clustal-Omega	Sievers et al., 2011	https://www.ebi.ac.uk/Tools/msa/clustalo/
HMMER3 v3.1b2	Mistry et al., 2013	http://hmmer.org/
BioPerl	Stajich et al., 2002	https://bioperl.org/
OrthoMCL v1.4	Li et al., 2003	https://orthomcl.org/orthomcl/
FastTree v2.1	Price et al., 2010	http://meta.microbesonline.org/fasttree/
iTOL	Letunic and Bork, 2016	https://itol.embl.de/
EnteroBase	Alikhan et al., 2018	https://enterobase.warwick.ac.uk/
RaxML v8.2.4	Stamatakis, 2014	https://github.com/stamatak/standard-RAxML
GrapeTree	Zhou et al., 2018	https://achtman-lab.github.io/GrapeTree/
Other
Verified eCIS loci for initial seed dataset	GenBank	GenBank: AF135182, BX470251, KF724687
Complete prokaryotic genomes for analysis (See Table S1)	GenBank	https://www.ncbi.nlm.nih.gov/genome/browse#!/prokaryotes/
dbeCIS: the database of eCIS (See Figure S7)	This paper	http://www.mgc.ac.cn/dbeCIS/