safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

ARGs	VFs	PGs	PPRS
16	10	3	19.10

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.
ILBMFJNK_1	3741139	3741900	ANT(4')-Ia	ARO:3002623	ANT(4')-Ia	99.60	100.00	K02551.1
ILBMFJNK_1	3541122	3541772	Streptococcus suis chloramphenicol acetyltransferase	ARO:3004455	Ssui_ACT_CHL	94.91	100.00	AB080798.1
ILBMFJNK_1	2869207	2870583	tet(L)	ARO:3000179	tet(L)	99.78	100.00	M11036.1
ILBMFJNK_1	2714982	2715836	aadK	ARO:3002627	aadK	100.00	100.00	AL009126.1
ILBMFJNK_1	2696273	2697475	blt	ARO:3003006	blt	100.00	100.00	L32599.1
ILBMFJNK_1	2473955	2475124	bmr	ARO:3003007	bmr	99.74	100.00	M33768.1
ILBMFJNK_1	1356005	1356319	ykkD	ARO:3003064	ykkD	99.05	99.05	AL009126.1
ILBMFJNK_1	1355667	1356005	ykkC	ARO:3003063	ykkC	100.00	100.00	AL009126.1
ILBMFJNK_1	895862	898432	Bacillus subtilis mprF	ARO:3003324	Bsub_mprF	100.00	100.00	AL009126.3
ILBMFJNK_1	583823	585466	vmlR	ARO:3004476	vmlR	100.00	100.00	NC_000964.3
ILBMFJNK_1	338755	339348	tmrB	ARO:3003059	tmrB	100.00	100.00	AL009126.3
ILBMFJNK_1	288252	289685	lmrB	ARO:3002813	lmrB	100.00	100.00	JYFL01000006.1
ILBMFJNK_1	275437	276357	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.
ILBMFJNK_1	3741139	3741900	aadD	Amikacin, Tobramycin	100.00	100.00	M19465
ILBMFJNK_1	2714982	2715836	aadK	Streptomycin	100.00	100.00	M26879
ILBMFJNK_1	3541122	3541772	cat(pC194)	Chloramphenicol	100.00	100.00	NC_002013
ILBMFJNK_1	275437	276357	mph(K)	Spiramycin, Telithromycin	100.00	100.00	NC_000964
ILBMFJNK_1	2869207	2870583	tet(L)	Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline	100.00	100.00	M29725

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

AMRFinderPlus

Query ID	Begin	End	Gene symbol	Sequence name	Method	Identity	Coverage	Accession no.
ILBMFJNK_1	3741142	3741909	aadD1	aminoglycoside O-nucleotidyltransferase ANT(4')-Ia	EXACTX	100.00	100.00	WP_001795128.1
ILBMFJNK_1	2714985	2715836	aadK	aminoglycoside 6-adenylyltransferase AadK	EXACTX	100.00	100.00	WP_003229862.1
ILBMFJNK_1	3541122	3541769	catA	type A-9 chloramphenicol O-acetyltransferase	EXACTX	100.00	100.00	WP_001010387.1
ILBMFJNK_1	275437	276354	mphK	macrolide 2'-phosphotransferase MphK	EXACTX	100.00	100.00	WP_003246254.1
ILBMFJNK_1	4164077	4164595	satA	streptothricin N-acetyltransferase SatA	EXACTX	100.00	100.00	WP_003242546.1
ILBMFJNK_1	2869210	2870583	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_001574277.1
ILBMFJNK_1	4166598	4167971	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_003242953.1
ILBMFJNK_1	583826	585466	vmlR	ABC-F type ribosomal protection protein VmlR	EXACTX	100.00	100.00	WP_003234144.1
ILBMFJNK_1	2030638	2033232	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.
ILBMFJNK_1	3679731	3680873	capA	Capsule	Immune modulation	100.00	100.00	NP_391469
ILBMFJNK_1	3681356	3682537	capB	Capsule	Immune modulation	100.00	100.00	NP_391471
ILBMFJNK_1	3680892	3681341	capC	Capsule	Immune modulation	100.00	100.00	NP_391470
ILBMFJNK_1	1983980	1985743	dep/capD	Capsule	Immune modulation	100.00	100.00	NP_389723
ILBMFJNK_1	3272453	3273238	dhbA	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391080
ILBMFJNK_1	3268617	3269555	dhbB	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391077
ILBMFJNK_1	3271231	3272427	dhbC	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391079
ILBMFJNK_1	3269583	3271202	dhbE	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391078
ILBMFJNK_1	3261461	3268597	dhbF	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391076
ILBMFJNK_1	2274603	2275244	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
ILBMFJNK_1	132472	133608	tufA	0.0	elongation factor Tu	84.96	95.69	AHM69299
ILBMFJNK_1	18665	19534	pdxS	3.12e-149	encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS	83.79	98.31	ACE61268
ILBMFJNK_1	3527177	3527746	ClpP	2.52e-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
ILBMFJNK_1	0.0	1.0	0.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
ILBMFJNK_1	1299720	1325828	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
ILBMFJNK_1	2646345	2676589	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)