safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

ARGs	VFs	PGs	PPRS
15	10	3	18.28

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.
EKFEBFEA_1	3258978	3260897	tet(M)	ARO:3000186	tet(M)	98.75	100.00	AB039845.1
EKFEBFEA_1	2753691	2754545	aadK	ARO:3002627	aadK	100.00	100.00	AL009126.1
EKFEBFEA_1	2734982	2736184	blt	ARO:3003006	blt	100.00	100.00	L32599.1
EKFEBFEA_1	2512664	2513833	bmr	ARO:3003007	bmr	99.74	100.00	M33768.1
EKFEBFEA_1	1487222	1489141	tet(M)	ARO:3000186	tet(M)	98.75	100.00	AB039845.1
EKFEBFEA_1	1376829	1377146	ykkD	ARO:3003064	ykkD	100.00	100.00	AL009126.1
EKFEBFEA_1	1376491	1376829	ykkC	ARO:3003063	ykkC	100.00	100.00	AL009126.1
EKFEBFEA_1	916754	919324	Bacillus subtilis mprF	ARO:3003324	Bsub_mprF	100.00	100.00	AL009126.3
EKFEBFEA_1	604721	606364	vmlR	ARO:3004476	vmlR	100.00	100.00	NC_000964.3
EKFEBFEA_1	339142	339735	tmrB	ARO:3003059	tmrB	100.00	100.00	AL009126.3
EKFEBFEA_1	288639	290072	lmrB	ARO:3002813	lmrB	100.00	100.00	JYFL01000006.1
EKFEBFEA_1	275824	276744	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.
EKFEBFEA_1	2753691	2754545	aadK	Streptomycin	100.00	100.00	M26879
EKFEBFEA_1	275824	276744	mph(K)	Spiramycin, Telithromycin	100.00	100.00	NC_000964
EKFEBFEA_1	4223727	4225103	tet(L)	Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline	100.00	100.00	X08034
EKFEBFEA_1	1487222	1489141	tet(M)	Doxycycline, Tetracycline, Minocycline	100.00	100.00	X92947

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

AMRFinderPlus

Query ID	Begin	End	Gene symbol	Sequence name	Method	Identity	Coverage	Accession no.
EKFEBFEA_1	2753694	2754545	aadK	aminoglycoside 6-adenylyltransferase AadK	EXACTX	100.00	100.00	WP_003229862.1
EKFEBFEA_1	275824	276741	mphK	macrolide 2'-phosphotransferase MphK	EXACTX	100.00	100.00	WP_003246254.1
EKFEBFEA_1	4221209	4221727	satA	streptothricin N-acetyltransferase SatA	EXACTX	100.00	100.00	WP_003242546.1
EKFEBFEA_1	4223730	4225103	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_003242953.1
EKFEBFEA_1	1487222	1489138	tet(M)	tetracycline resistance ribosomal protection protein Tet(M)	EXACTX	100.00	100.00	WP_000691749.1
EKFEBFEA_1	3258981	3260897	tet(M)	tetracycline resistance ribosomal protection protein Tet(M)	EXACTX	100.00	100.00	WP_000691749.1
EKFEBFEA_1	604724	606364	vmlR	ABC-F type ribosomal protection protein VmlR	EXACTX	100.00	100.00	WP_003234144.1
EKFEBFEA_1	2069347	2071941	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.
EKFEBFEA_1	3733866	3735008	capA	Capsule	Immune modulation	100.00	100.00	NP_391469
EKFEBFEA_1	3735491	3736672	capB	Capsule	Immune modulation	100.00	100.00	NP_391471
EKFEBFEA_1	3735027	3735476	capC	Capsule	Immune modulation	100.00	100.00	NP_391470
EKFEBFEA_1	2022689	2024452	dep/capD	Capsule	Immune modulation	100.00	100.00	NP_389723
EKFEBFEA_1	3327556	3328341	dhbA	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391080
EKFEBFEA_1	3323720	3324658	dhbB	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391077
EKFEBFEA_1	3326334	3327530	dhbC	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391079
EKFEBFEA_1	3324686	3326305	dhbE	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391078
EKFEBFEA_1	3316564	3323700	dhbF	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391076
EKFEBFEA_1	2313312	2313953	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
EKFEBFEA_1	132878	134014	tufA	0.0	elongation factor Tu	84.96	95.69	AHM69299
EKFEBFEA_1	19074	19943	pdxS	3.16e-149	encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS	83.79	98.31	ACE61268
EKFEBFEA_1	3582279	3582848	ClpP	2.56e-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.
EKFEBFEA_1	1477743	1478948	repUS43	1206 / 1206	99.83	CP003584

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

PlasmidHunter

Query ID	Prediction	Chromosome	Plasmid
EKFEBFEA_1	0.0	1.0	0.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
EKFEBFEA_1	1320544	1346652	False	Myoviridae	VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705
EKFEBFEA_1	2685054	2715298	False	Myoviridae	VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG10227, VOG0796, VOG4673, VOG9587, VOG4693, VOG0189, VOG11060, VOG1309, VOG4600

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