safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	21	28	35.00

PPRS is classified as low-risk (≤4), medium-risk (4-6), and high-risk (≥6).

Antibiotic resistance genes

Comprehensive Antibiotic Resistance Database (CARD)

Query ID	Begin	End	ARO name	ARO accession	CARD name	Identity	Coverage	Accession no.
No hit found

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.
No hit found

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

AMRFinderPlus

Query ID	Begin	End	Gene symbol	Sequence name	Method	Identity	Coverage	Accession no.
No hit found

AMRFinderPlus v4.0.3 (Database: Oct. 2024 release)

Virulence factors

Virulence Factor Database (VFDB)

Query ID	qstart	qend	Gene name	e-value	VF name	VF category	Identity	Coverage	Accession no.
MLCCOFDP_1	1038047	1038837	cshA	0.0	Cell surface hydrophobicity proteins	Adherence	100.00	100.00	-
MLCCOFDP_1	1296259	1297110	rfbD	0.0	Capsule	Immune modulation	100.00	100.00	WP_014621820
MLCCOFDP_1	1082866	1083459	STU_RS15260	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226149
MLCCOFDP_1	1285808	1287592	STU_RS16230	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226325
MLCCOFDP_1	1287589	1288644	STU_RS16235	0.0	Capsule	Immune modulation	100.00	100.00	WP_002948022
MLCCOFDP_1	1288664	1289869	STU_RS16240	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226326
MLCCOFDP_1	1289869	1290678	STU_RS16245	0.0	Capsule	Immune modulation	100.00	100.00	WP_002948020
MLCCOFDP_1	1290662	1291618	STU_RS16250	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226328
MLCCOFDP_1	1292872	1293882	STU_RS16260	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226330
MLCCOFDP_1	1293882	1295156	STU_RS16265	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226331
MLCCOFDP_1	1291615	1292763	STU_RS16255	0.0	Capsule	Immune modulation	99.91	100.00	WP_041828290
MLCCOFDP_1	1118225	1118986	srtA	0.0	Sortase A	Exoenzyme	99.87	100.00	-
MLCCOFDP_1	972211	973665	STR_RS05265	0.0	Capsule	Immune modulation	99.86	100.00	WP_041827043
MLCCOFDP_1	1082866	1083459	STR_RS05880	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
MLCCOFDP_1	1082866	1083459	STER_RS06030	0.0	Capsule	Immune modulation	99.66	100.00	WP_011226149
MLCCOFDP_1	44879	45718	cbpD	0.0	Autolysin	Exoenzyme	99.64	100.00	WP_011226733
MLCCOFDP_1	864776	866434	fbp54	0.0	FBPs	Adherence	99.58	100.00	WP_011227179
MLCCOFDP_1	1083459	1084328	rfbA	0.0	Capsule	Immune modulation	99.54	100.00	WP_011681286
MLCCOFDP_1	972211	973665	STU_RS14650	0.0	Capsule	Immune modulation	97.94	100.00	WP_011226049
MLCCOFDP_1	972211	973665	STER_RS05320	0.0	Capsule	Immune modulation	96.92	99.79	WP_011681177
MLCCOFDP_1	602091	603394	eno	0.0	Streptococcal enolase	Exoenzyme	88.09	99.54	WP_000022832
MLCCOFDP_1	1582874	1583884	plr/gapA	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	86.92	99.51	WP_002986042
MLCCOFDP_1	1081390	1082436	rfbB	0.0	Capsule	Immune modulation	80.71	100.00	WP_009659423
MLCCOFDP_1	150275	151558	tig/ropA	0.0	Trigger factor	Stress survival	80.50	99.77	WP_000107753
MLCCOFDP_1	968240	968823	SPD_RS01775	1.06e-146	Capsule	Immune modulation	83.08	96.20	WP_001819836
MLCCOFDP_1	971746	972210	STR_RS05260	0.0	Capsule	Immune modulation	99.78	63.52	WP_011227248
MLCCOFDP_1	971746	972210	STU_RS14645	0.0	Capsule	Immune modulation	98.28	63.52	WP_011226048
MLCCOFDP_1	971746	972210	STER_RS05315	0.0	Capsule	Immune modulation	97.20	63.52	WP_011681176

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)

Pathogenic genes

PHI-base

Query ID	qstart	qend	Gene name	e-value	Function	Identity	Coverage	Gene ID
MLCCOFDP_1	1121673	1122656	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
MLCCOFDP_1	710858	711931	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
MLCCOFDP_1	519854	520822	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
MLCCOFDP_1	1460302	1462605	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
MLCCOFDP_1	1201130	1202611	SPD_0310	0.0	UPF0371 protein SPD_0310	91.90	100.00	ABJ54480
MLCCOFDP_1	739134	741380	metE	0.0	methionine biosynthesis enzymes	91.86	100.00	AAK74738
MLCCOFDP_1	65754	66746	recA	0.0	DNA recombination and repair	91.24	85.31	AAL00560
MLCCOFDP_1	28396	29367	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
MLCCOFDP_1	1346565	1345414	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.06	99.74	AAL00050
MLCCOFDP_1	1312092	1310110	uvrB	0.0	excinuclease ABC, B subunit	88.96	99.70	AE014259_2
MLCCOFDP_1	1105479	1103749	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	87.87	100.00	AAK34199
MLCCOFDP_1	1776618	1775140	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.22	100.00	ADE32434
MLCCOFDP_1	602091	603392	Eno	0.0	enolase	86.21	99.77	ABP90468
MLCCOFDP_1	1761882	1759990	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.89	98.90	ABP91129
MLCCOFDP_1	744305	742596	PGM	0.0	phosphoglucomutase	83.89	99.65	ACH87041
MLCCOFDP_1	1625815	1626825	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
MLCCOFDP_1	891859	890498	mnmE	0.0	central tRNA-modifying GTPase	82.02	99.56	ABP90420
MLCCOFDP_1	1677832	1675940	PepO	0.0	endopeptidase	80.03	100.00	ABF32980
MLCCOFDP_1	587661	588551	bglB	1.29e-178	putative phospho--glucosidase	88.89	99.66	AAK33487
MLCCOFDP_1	803698	802763	SP_0676	7.13e-168	transcription facot	81.73	96.89	AAK74821
MLCCOFDP_1	741572	742429	metF	8.35e-165	methionine biosynthesis enzymes	86.36	99.31	AAK74739
MLCCOFDP_1	1010368	1009664	covR	3.38e-130	responder protein	84.68	100.00	AAK71319
MLCCOFDP_1	1174858	1174187	rr01	6.41e-126	response regulator	84.38	99.56	CAB54566
MLCCOFDP_1	1010368	1009664	walR	2.42e-120	DNA-binding response regulator	80.85	100.00	ANC99504
MLCCOFDP_1	307934	308620	CovR	9.71e-118	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
MLCCOFDP_1	748259	748927	CiaR	6.86e-117	two-component response regulator	83.86	99.55	AAK74935
MLCCOFDP_1	748259	748930	ciaR	6.82e-115	two component system response regulator	81.70	99.12	AIK75708
MLCCOFDP_1	67043	67438	SpxA2	3.57e-74	transcriptional regulator	90.91	100.00	ERL21461
MLCCOFDP_1	151716	152216	RopE (M5005_Spy_1611)	9.54e-75	probable DNA-directed RNA polymerase subunit delta	80.84	87.43	AAK34603
MLCCOFDP_1	1460302	1462599	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
MLCCOFDP_1	1663371	1662352	ilvC (SPD_0406)	0.0	ketol-acid reductoisomerase (NADP(+))	96.18	100.00	ABJ55451

BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)

Plasmid

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
MLCCOFDP_1	0.0	1.0	0.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Prophage

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
No hit found