safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

ARGs	VFs	PGs	PPRS
15	10	4	18.47

PPRS is classified as low-risk (≤4), medium-risk (4-6), and high-risk (≥6).

Comprehensive Antibiotic Resistance Database (CARD)

Query ID	Begin	End	ARO name	ARO accession	CARD name	Identity	Coverage	Accession no.
CBHAEFHF_1	2533338	2534192	aadK	ARO:3002627	aadK	100.00	100.00	AL009126.1
CBHAEFHF_1	2514629	2515831	blt	ARO:3003006	blt	100.00	100.00	L32599.1
CBHAEFHF_1	2337402	2338571	bmr	ARO:3003007	bmr	99.74	100.00	M33768.1
CBHAEFHF_1	1700035	1700685	Streptococcus suis chloramphenicol acetyltransferase	ARO:3004455	Ssui_ACT_CHL	94.91	100.00	AB080798.1
CBHAEFHF_1	1294558	1294875	ykkD	ARO:3003064	ykkD	100.00	100.00	AL009126.1
CBHAEFHF_1	1294220	1294558	ykkC	ARO:3003063	ykkC	100.00	100.00	AL009126.1
CBHAEFHF_1	868701	871271	Bacillus subtilis mprF	ARO:3003324	Bsub_mprF	100.00	100.00	AL009126.3
CBHAEFHF_1	568142	569785	vmlR	ARO:3004476	vmlR	100.00	100.00	NC_000964.3
CBHAEFHF_1	323072	323665	tmrB	ARO:3003059	tmrB	100.00	100.00	AL009126.3
CBHAEFHF_1	311537	312400	ErmD	ARO:3000495	ErmD	99.65	100.00	L08389.1
CBHAEFHF_1	270629	272062	lmrB	ARO:3002813	lmrB	100.00	100.00	JYFL01000006.1
CBHAEFHF_1	257814	258734	mphK	ARO:3004541	mphK	100.00	100.00	CP010314.1

RGI v6.0.3 (Database: CARD Variants v4.0.2, Nov. 2023 release)

ResFinder

Query ID	Begin	End	Resistance gene	Phenotype	Identity	Coverage	Accession no.
CBHAEFHF_1	2533338	2534192	aadK	Streptomycin	100.00	100.00	M26879
CBHAEFHF_1	1700035	1700685	cat(pC194)	Chloramphenicol	100.00	100.00	NC_002013
CBHAEFHF_1	257814	258734	mph(K)	Spiramycin, Telithromycin	100.00	100.00	NC_000964
CBHAEFHF_1	3985338	3986714	tet(L)	Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline	100.00	100.00	X08034
CBHAEFHF_1	311537	312400	erm(D)	Erythromycin, Lincomycin, Clindamycin, Quinupristin, Pristinamycin IA, Virginiamycin S	99.77	100.00	M29832

ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)

AMRFinderPlus

Query ID	Begin	End	Gene symbol	Sequence name	Method	Identity	Coverage	Accession no.
CBHAEFHF_1	2533341	2534192	aadK	aminoglycoside 6-adenylyltransferase AadK	EXACTX	100.00	100.00	WP_003229862.1
CBHAEFHF_1	1700035	1700682	catA	type A-9 chloramphenicol O-acetyltransferase	EXACTX	100.00	100.00	WP_001010387.1
CBHAEFHF_1	311537	312397	erm(D)	23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(D)	EXACTX	100.00	100.00	WP_025811090.1
CBHAEFHF_1	257814	258731	mphK	macrolide 2'-phosphotransferase MphK	EXACTX	100.00	100.00	WP_003246254.1
CBHAEFHF_1	3982820	3983338	satA	streptothricin N-acetyltransferase SatA	EXACTX	100.00	100.00	WP_003242546.1
CBHAEFHF_1	3985341	3986714	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_003242953.1
CBHAEFHF_1	568145	569785	vmlR	ABC-F type ribosomal protection protein VmlR	EXACTX	100.00	100.00	WP_003234144.1
CBHAEFHF_1	1894083	1896677	rphC	rifamycin-inactivating phosphotransferase RphC	BLASTX	81.15	99.88	WP_087347987.1

AMRFinderPlus v4.0.3 (Database: Oct. 2024 release)

Virulence Factor Database (VFDB)

Query ID	qstart	qend	Gene name	VF name	VF category	Identity	Coverage	Accession no.
CBHAEFHF_1	3495477	3496619	capA	Capsule	Immune modulation	100.00	100.00	NP_391469
CBHAEFHF_1	3497102	3498283	capB	Capsule	Immune modulation	100.00	100.00	NP_391471
CBHAEFHF_1	3496638	3497087	capC	Capsule	Immune modulation	100.00	100.00	NP_391470
CBHAEFHF_1	1847425	1849188	dep/capD	Capsule	Immune modulation	100.00	100.00	NP_389723
CBHAEFHF_1	3089167	3089952	dhbA	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391080
CBHAEFHF_1	3085331	3086269	dhbB	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391077
CBHAEFHF_1	3087945	3089141	dhbC	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391079
CBHAEFHF_1	3086297	3087916	dhbE	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391078
CBHAEFHF_1	3078175	3085311	dhbF	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391076
CBHAEFHF_1	2138050	2138691	hlyIII	Hemolysin III	Exotoxin	100.00	100.00	NP_390062

BLASTN v2.16.0 (Database: VFDB, Dec. 2024 release)

VirulenceFinder

Query ID	Begin	End	Database	Virulence factor	Protein function	Identity	Coverage	Accession no.
No hit found

VirulenceFinder v2.0. 4 (Database: virulencefinder_db, Feb . 2024 release)

PHI-base

Query ID	qstart	qend	Gene name	e-value	Function	Identity	Coverage	Gene ID
CBHAEFHF_1	132882	134018	tufA	0.0	elongation factor Tu	84.96	95.69	AHM69299
CBHAEFHF_1	19074	19943	pdxS	2.98e-149	encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS	83.79	98.31	ACE61268
CBHAEFHF_1	1607822	1608598	CodY	3.26e-124	nutrient-responsive regulator	81.08	100.00	ACJ80679
CBHAEFHF_1	3343890	3344459	ClpP	2.41e-98	part of proteolytic complex	81.05	97.44	BAB94595

BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)

PlasmidFinder

Query ID	Begin	End	Plasmid	Query / Template	Identity	Accession no.
No hit found

PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)

PlasmidHunter

Query ID	Prediction	Chromosome	Plasmid
CBHAEFHF_1	0.0	1.0	0.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
No hit found

Phigaro v2.4.0 (Database: Jan. 2024 release)