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.
DPAMHKFL_1	3704388	3705308	mphK	ARO:3004541	mphK	97.71	100.00	CP010314.1
DPAMHKFL_1	3691061	3692494	lmrB	ARO:3002813	lmrB	99.37	100.00	JYFL01000006.1
DPAMHKFL_1	3641374	3641967	tmrB	ARO:3003059	tmrB	98.48	100.00	AL009126.3
DPAMHKFL_1	3371521	3373164	vmlR	ARO:3004476	vmlR	100.00	100.00	NC_000964.3
DPAMHKFL_1	3056222	3058792	Bacillus subtilis mprF	ARO:3003324	Bsub_mprF	100.00	100.00	AL009126.3
DPAMHKFL_1	2596767	2597105	ykkC	ARO:3003063	ykkC	100.00	100.00	AL009126.1
DPAMHKFL_1	2596450	2596767	ykkD	ARO:3003064	ykkD	99.05	100.00	AL009126.1
DPAMHKFL_1	1612162	1613331	bmr	ARO:3003007	bmr	99.74	100.00	M33768.1
DPAMHKFL_1	1389818	1391020	blt	ARO:3003006	blt	100.00	100.00	L32599.1
DPAMHKFL_1	1371461	1372315	aadK	ARO:3002627	aadK	100.00	100.00	AL009126.1

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.
DPAMHKFL_1	1371461	1372315	aadK	Streptomycin	100.00	100.00	M26879
DPAMHKFL_1	4005923	4007299	tet(L)	Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline	100.00	100.00	X08034
DPAMHKFL_1	3704388	3705308	mph(K)	Spiramycin, Telithromycin	97.72	100.00	NC_000964

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

AMRFinderPlus

Query ID	Begin	End	Gene symbol	Sequence name	Method	Identity	Coverage	Accession no.
DPAMHKFL_1	1371461	1372312	aadK	aminoglycoside 6-adenylyltransferase AadK	EXACTX	100.00	100.00	WP_003229862.1
DPAMHKFL_1	4005923	4007296	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_003242953.1
DPAMHKFL_1	3371521	3373161	vmlR	ABC-F type ribosomal protection protein VmlR	EXACTX	100.00	100.00	WP_003234144.1
DPAMHKFL_1	3704391	3705308	mphK	macrolide 2'-phosphotransferase MphK	BLASTX	97.71	100.00	WP_003246254.1
DPAMHKFL_1	4009240	4009758	satA	streptothricin N-acetyltransferase SatA	BLASTX	90.75	100.00	WP_003242546.1
DPAMHKFL_1	1919663	1922257	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.
DPAMHKFL_1	409019	410161	capA	Capsule	Immune modulation	100.00	100.00	NP_391469
DPAMHKFL_1	407355	408536	capB	Capsule	Immune modulation	100.00	100.00	NP_391471
DPAMHKFL_1	408551	409000	capC	Capsule	Immune modulation	100.00	100.00	NP_391470
DPAMHKFL_1	1967137	1968900	dep/capD	Capsule	Immune modulation	100.00	100.00	NP_389723
DPAMHKFL_1	815715	816500	dhbA	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391080
DPAMHKFL_1	1812067	1812708	hlyIII	Hemolysin III	Exotoxin	100.00	100.00	NP_390062
DPAMHKFL_1	819398	820336	dhbB	Bacillibactin	Nutritional/Metabolic factor	99.89	100.00	NP_391077
DPAMHKFL_1	816526	817722	dhbC	Bacillibactin	Nutritional/Metabolic factor	99.67	100.00	NP_391079
DPAMHKFL_1	820356	827492	dhbF	Bacillibactin	Nutritional/Metabolic factor	99.58	100.00	NP_391076
DPAMHKFL_1	817751	819370	dhbE	Bacillibactin	Nutritional/Metabolic factor	99.57	100.00	NP_391078

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
DPAMHKFL_1	3848279	3847143	tufA	0.0	elongation factor Tu	84.96	95.69	AHM69299
DPAMHKFL_1	3962091	3961222	pdxS	3.03e-149	encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS	83.79	98.31	ACE61268
DPAMHKFL_1	2283473	2282697	CodY	3.31e-124	nutrient-responsive regulator	81.08	100.00	ACJ80679
DPAMHKFL_1	561774	561205	ClpP	2.46e-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
DPAMHKFL_1	0.0	1.0	0.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
DPAMHKFL_1	1410572	1440949	False	Myoviridae	VOG4600, VOG1309, VOG11060, VOG0189, VOG4693, VOG9587, VOG4673, VOG0796, VOG10227, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718
DPAMHKFL_1	2626906	2653014	False	Myoviridae	VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667

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