safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

ARGs	VFs	PGs	PPRS
13	10	4	16.88

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.
NFIFPMGL_1	2728986	2729840	aadK	ARO:3002627	aadK	100.00	100.00	AL009126.1
NFIFPMGL_1	2710277	2711479	blt	ARO:3003006	blt	100.00	100.00	L32599.1
NFIFPMGL_1	2487958	2489127	bmr	ARO:3003007	bmr	99.74	100.00	M33768.1
NFIFPMGL_1	1370140	1370457	ykkD	ARO:3003064	ykkD	100.00	100.00	AL009126.1
NFIFPMGL_1	1369802	1370140	ykkC	ARO:3003063	ykkC	100.00	100.00	AL009126.1
NFIFPMGL_1	910060	912630	Bacillus subtilis mprF	ARO:3003324	Bsub_mprF	100.00	100.00	AL009126.3
NFIFPMGL_1	598019	599662	vmlR	ARO:3004476	vmlR	100.00	100.00	NC_000964.3
NFIFPMGL_1	332436	333029	tmrB	ARO:3003059	tmrB	100.00	100.00	AL009126.3
NFIFPMGL_1	281934	283367	lmrB	ARO:3002813	lmrB	100.00	100.00	JYFL01000006.1
NFIFPMGL_1	269119	270039	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.
NFIFPMGL_1	2728986	2729840	aadK	Streptomycin	100.00	100.00	M26879
NFIFPMGL_1	269119	270039	mph(K)	Spiramycin, Telithromycin	100.00	100.00	NC_000964
NFIFPMGL_1	4184541	4185917	tet(L)	Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline	100.00	100.00	X08034

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

AMRFinderPlus

Query ID	Begin	End	Gene symbol	Sequence name	Method	Identity	Coverage	Accession no.
NFIFPMGL_1	2728989	2729840	aadK	aminoglycoside 6-adenylyltransferase AadK	EXACTX	100.00	100.00	WP_003229862.1
NFIFPMGL_1	269119	270036	mphK	macrolide 2'-phosphotransferase MphK	EXACTX	100.00	100.00	WP_003246254.1
NFIFPMGL_1	4182023	4182541	satA	streptothricin N-acetyltransferase SatA	EXACTX	100.00	100.00	WP_003242546.1
NFIFPMGL_1	4184544	4185917	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_003242953.1
NFIFPMGL_1	598022	599662	vmlR	ABC-F type ribosomal protection protein VmlR	EXACTX	100.00	100.00	WP_003234144.1
NFIFPMGL_1	2044633	2047227	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.
NFIFPMGL_1	3694678	3695820	capA	Capsule	Immune modulation	100.00	100.00	NP_391469
NFIFPMGL_1	3696303	3697484	capB	Capsule	Immune modulation	100.00	100.00	NP_391471
NFIFPMGL_1	3695839	3696288	capC	Capsule	Immune modulation	100.00	100.00	NP_391470
NFIFPMGL_1	1997975	1999738	dep/capD	Capsule	Immune modulation	100.00	100.00	NP_389723
NFIFPMGL_1	3288365	3289150	dhbA	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391080
NFIFPMGL_1	3284529	3285467	dhbB	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391077
NFIFPMGL_1	3287143	3288339	dhbC	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391079
NFIFPMGL_1	3285495	3287114	dhbE	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391078
NFIFPMGL_1	3277373	3284509	dhbF	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391076
NFIFPMGL_1	2288603	2289244	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
NFIFPMGL_1	126151	127287	tufA	0.0	elongation factor Tu	84.96	95.69	AHM69299
NFIFPMGL_1	19112	19981	pdxS	3.13e-149	encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS	83.79	98.31	ACE61268
NFIFPMGL_1	1683415	1684191	CodY	3.42e-124	nutrient-responsive regulator	81.08	100.00	ACJ80679
NFIFPMGL_1	3543089	3543658	ClpP	2.53e-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
NFIFPMGL_1	0.0	1.0	0.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
NFIFPMGL_1	1313855	1339963	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
NFIFPMGL_1	2660347	2690593	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)