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.
DBCCGLGE_4	865608	865946	ykkC	ARO:3003063	ykkC	100.00	100.00	AL009126.1
DBCCGLGE_4	865291	865608	ykkD	ARO:3003064	ykkD	100.00	100.00	AL009126.1
DBCCGLGE_3	678011	679180	bmr	ARO:3003007	bmr	99.74	100.00	M33768.1
DBCCGLGE_3	455659	456861	blt	ARO:3003006	blt	100.00	100.00	L32599.1
DBCCGLGE_3	437298	438152	aadK	ARO:3002627	aadK	100.00	100.00	AL009126.1
DBCCGLGE_5	280326	281246	mphK	ARO:3004541	mphK	100.00	100.00	CP010314.1
DBCCGLGE_5	266992	268431	lmrB	ARO:3002813	lmrB	99.79	100.42	JYFL01000006.1
DBCCGLGE_5	217335	217928	tmrB	ARO:3003059	tmrB	100.00	100.00	AL009126.3
DBCCGLGE_10	47438	49081	vmlR	ARO:3004476	vmlR	100.00	100.00	NC_000964.3
DBCCGLGE_2	27268	29838	Bacillus subtilis mprF	ARO:3003324	Bsub_mprF	100.00	100.00	AL009126.3

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.
DBCCGLGE_3	437298	438152	aadK	Streptomycin	100.00	100.00	M26879
DBCCGLGE_5	280326	281246	mph(K)	Spiramycin, Telithromycin	100.00	100.00	NC_000964
DBCCGLGE_1	36417	37793	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.
DBCCGLGE_3	437298	438149	aadK	aminoglycoside 6-adenylyltransferase AadK	EXACTX	100.00	100.00	WP_003229862.1
DBCCGLGE_5	280329	281246	mphK	macrolide 2'-phosphotransferase MphK	EXACTX	100.00	100.00	WP_003246254.1
DBCCGLGE_1	39793	40311	satA	streptothricin N-acetyltransferase SatA	EXACTX	100.00	100.00	WP_003242546.1
DBCCGLGE_1	36417	37790	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_003242953.1
DBCCGLGE_10	47441	49081	vmlR	ABC-F type ribosomal protection protein VmlR	EXACTX	100.00	100.00	WP_003234144.1
DBCCGLGE_4	192904	195498	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.
DBCCGLGE_1	526511	527653	capA	Capsule	Immune modulation	100.00	100.00	NP_391469
DBCCGLGE_1	524847	526028	capB	Capsule	Immune modulation	100.00	100.00	NP_391471
DBCCGLGE_1	526043	526492	capC	Capsule	Immune modulation	100.00	100.00	NP_391470
DBCCGLGE_4	240393	242156	dep/capD	Capsule	Immune modulation	100.00	100.00	NP_389723
DBCCGLGE_6	58774	59559	dhbA	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391080
DBCCGLGE_6	62457	63395	dhbB	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391077
DBCCGLGE_6	59585	60781	dhbC	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391079
DBCCGLGE_6	60810	62429	dhbE	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391078
DBCCGLGE_6	63415	70551	dhbF	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391076
DBCCGLGE_9	48284	48925	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
DBCCGLGE_11	31903	33039	tufA	0.0	elongation factor Tu	84.96	95.69	AHM69299
DBCCGLGE_13	11305	10436	pdxS	1.12e-151	encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS	83.79	98.31	ACE61268
DBCCGLGE_4	552344	551568	CodY	1.05e-124	nutrient-responsive regulator	81.08	100.00	ACJ80679
DBCCGLGE_1	679265	678696	ClpP	5.26e-99	part of proteolytic complex	81.05	97.44	BAB94595
DBCCGLGE_4	1014769	1014377	spxA1	3.10e-69	redox-responsive transcription factor	83.21	100.00	AAF21893
DBCCGLGE_8	20961	21203	SpoVG	7.54e-39	RNA-binding protein	81.48	79.41	AAT02994
DBCCGLGE_10	1966	2163	CspA	3.38e-32	cold shock protein	90.91	100.00	CAA62903
DBCCGLGE_9	60887	61081	CspD	1.02e-28	cold shock protein	81.54	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
DBCCGLGE_1	0.0	1.0	0.0
DBCCGLGE_2	0.0	1.0	0.0
DBCCGLGE_3	0.0	1.0	0.0
DBCCGLGE_4	0.0	1.0	0.0
DBCCGLGE_5	0.0	1.0	0.0
DBCCGLGE_6	0.0	1.0	0.0
DBCCGLGE_7	1.0	0.0	1.0
DBCCGLGE_8	0.0	1.0	0.0
DBCCGLGE_9	0.0	1.0	0.0
DBCCGLGE_10	0.0	1.0	0.0
DBCCGLGE_11	0.0	1.0	0.0
DBCCGLGE_13	0.0	1.0	0.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
DBCCGLGE_3	476413	506790	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
DBCCGLGE_4	895785	921893	False	Myoviridae	VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667
DBCCGLGE_7	11080	34728	False	Siphoviridae	VOG3616, VOG1024, VOG10944, VOG9244, VOG4599, VOG4605, VOG6163, VOG5852, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG4553, VOG4568, VOG4556, VOG4544, VOG4581, VOG0221
DBCCGLGE_7	62783	73213	False	Unknown	VOG4549, VOG2725, VOG3851, VOG2352, VOG4714, VOG4561, VOG1198, VOG0397

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