safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

ARGs	VFs	PGs	PPRS
13	10	8	18.25

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.
KINDDNBL_4	464283	465137	aadK	ARO:3002627	aadK	100.00	100.00	AL009126.1
KINDDNBL_4	445574	446776	blt	ARO:3003006	blt	100.00	100.00	L32599.1
KINDDNBL_9	425544	425861	ykkD	ARO:3003064	ykkD	100.00	100.00	AL009126.1
KINDDNBL_9	425206	425544	ykkC	ARO:3003063	ykkC	100.00	100.00	AL009126.1
KINDDNBL_7	276689	279259	Bacillus subtilis mprF	ARO:3003324	Bsub_mprF	100.00	100.00	AL009126.3
KINDDNBL_4	223256	224425	bmr	ARO:3003007	bmr	99.74	100.00	M33768.1
KINDDNBL_6	162846	163439	tmrB	ARO:3003059	tmrB	100.00	100.00	AL009126.3
KINDDNBL_6	112343	113782	lmrB	ARO:3002813	lmrB	99.79	100.42	JYFL01000006.1
KINDDNBL_6	99528	100448	mphK	ARO:3004541	mphK	100.00	100.00	CP010314.1
KINDDNBL_13	29147	30790	vmlR	ARO:3004476	vmlR	100.00	100.00	NC_000964.3

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.
KINDDNBL_4	464283	465137	aadK	Streptomycin	100.00	100.00	M26879
KINDDNBL_6	99528	100448	mph(K)	Spiramycin, Telithromycin	100.00	100.00	NC_000964
KINDDNBL_1	36360	37736	tet(L)	Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline	99.93	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.
KINDDNBL_4	464286	465137	aadK	aminoglycoside 6-adenylyltransferase AadK	EXACTX	100.00	100.00	WP_003229862.1
KINDDNBL_6	99528	100445	mphK	macrolide 2'-phosphotransferase MphK	EXACTX	100.00	100.00	WP_003246254.1
KINDDNBL_1	39736	40254	satA	streptothricin N-acetyltransferase SatA	EXACTX	100.00	100.00	WP_003242546.1
KINDDNBL_13	29147	30787	vmlR	ABC-F type ribosomal protection protein VmlR	EXACTX	100.00	100.00	WP_003234144.1
KINDDNBL_1	36360	37733	tet(L)	tetracycline efflux MFS transporter Tet(L)	BLASTX	99.78	100.00	WP_003242953.1
KINDDNBL_10	10035	12629	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.
KINDDNBL_1	526455	527597	capA	Capsule	Immune modulation	100.00	100.00	NP_391469
KINDDNBL_1	524791	525972	capB	Capsule	Immune modulation	100.00	100.00	NP_391471
KINDDNBL_1	525987	526436	capC	Capsule	Immune modulation	100.00	100.00	NP_391470
KINDDNBL_10	57524	59287	dep/capD	Capsule	Immune modulation	100.00	100.00	NP_389723
KINDDNBL_1	933122	933907	dhbA	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391080
KINDDNBL_1	936805	937743	dhbB	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391077
KINDDNBL_1	933933	935129	dhbC	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391079
KINDDNBL_1	935158	936777	dhbE	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391078
KINDDNBL_1	937763	944899	dhbF	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391076
KINDDNBL_4	23904	24545	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
KINDDNBL_3	31780	32916	tufA	0.0	elongation factor Tu	84.96	95.69	AHM69299
KINDDNBL_14	4270	5139	pdxS	1.11e-151	encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS	83.79	98.31	ACE61268
KINDDNBL_9	738808	739584	CodY	7.46e-125	nutrient-responsive regulator	81.08	100.00	ACJ80679
KINDDNBL_1	679184	678615	ClpP	6.30e-99	part of proteolytic complex	81.05	97.44	BAB94595
KINDDNBL_9	276383	276775	spxA1	2.21e-69	redox-responsive transcription factor	83.21	100.00	AAF21893
KINDDNBL_2	34684	34442	SpoVG	2.74e-38	RNA-binding protein	80.25	79.41	AAT02994
KINDDNBL_13	76262	76065	CspA	3.38e-32	cold shock protein	90.91	100.00	CAA62903
KINDDNBL_4	36507	36701	CspD	3.45e-27	cold shock protein	80.00	98.48	CAC99957

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
KINDDNBL_1	0.0	1.0	0.0
KINDDNBL_2	0.0	1.0	0.0
KINDDNBL_3	0.0	1.0	0.0
KINDDNBL_4	0.0	1.0	0.0
KINDDNBL_5	0.0	1.0	0.0
KINDDNBL_6	0.0	1.0	0.0
KINDDNBL_7	0.0	1.0	0.0
KINDDNBL_9	0.0	1.0	0.0
KINDDNBL_10	0.0	1.0	0.0
KINDDNBL_12	0.0	1.0	0.0
KINDDNBL_13	0.0	1.0	0.0
KINDDNBL_14	0.0	1.0	0.0
KINDDNBL_15	0.0	1.0	0.0
KINDDNBL_16	0.0	1.0	0.0
KINDDNBL_17	0.0	1.0	0.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
KINDDNBL_4	395646	425890	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
KINDDNBL_9	369259	395367	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

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