safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	20	31	36.89

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.
CMAHBEIB_1	1743423	1744154	STR_RS05260	0.0	Capsule	Immune modulation	94.54	100.00	WP_011227248
CMAHBEIB_1	1049402	1050253	rfbD	0.0	Capsule	Immune modulation	94.13	100.00	WP_014621820
CMAHBEIB_1	1743423	1744154	STU_RS14645	0.0	Capsule	Immune modulation	93.85	100.00	WP_011226048
CMAHBEIB_1	1743423	1744154	STER_RS05315	0.0	Capsule	Immune modulation	93.58	100.00	WP_011681176
CMAHBEIB_1	1052515	1053324	STU_RS16245	0.0	Capsule	Immune modulation	92.85	99.88	WP_002948020
CMAHBEIB_1	1055581	1057337	STU_RS16230	0.0	Capsule	Immune modulation	92.60	98.43	WP_011226325
CMAHBEIB_1	1053324	1054529	STU_RS16240	0.0	Capsule	Immune modulation	92.29	100.00	WP_011226326
CMAHBEIB_1	1051575	1052531	STU_RS16250	0.0	Capsule	Immune modulation	91.85	100.00	WP_011226328
CMAHBEIB_1	1050430	1051578	STU_RS16255	0.0	Capsule	Immune modulation	91.57	99.83	WP_041828290
CMAHBEIB_1	1892107	1892700	STR_RS05880	0.0	Capsule	Immune modulation	91.08	100.00	WP_011226149
CMAHBEIB_1	1054550	1055584	STU_RS16235	0.0	Capsule	Immune modulation	91.00	99.15	WP_002948022
CMAHBEIB_1	1892107	1892700	STER_RS06030	0.0	Capsule	Immune modulation	90.91	100.00	WP_011226149
CMAHBEIB_1	1892107	1892700	STU_RS15260	0.0	Capsule	Immune modulation	90.91	100.00	WP_011226149
CMAHBEIB_1	1744155	1745615	STER_RS05320	0.0	Capsule	Immune modulation	90.85	99.86	WP_011681177
CMAHBEIB_1	1637229	1638887	fbp54	0.0	FBPs	Adherence	90.72	99.94	WP_011227179
CMAHBEIB_1	1744155	1745615	STU_RS14650	0.0	Capsule	Immune modulation	90.58	100.00	WP_011226049
CMAHBEIB_1	1744155	1745615	STR_RS05265	0.0	Capsule	Immune modulation	89.90	100.00	WP_041827043
CMAHBEIB_1	1742722	1743414	STU_RS14640	0.0	Capsule	Immune modulation	89.90	100.00	WP_011226047
CMAHBEIB_1	967823	968662	cbpD	0.0	Autolysin	Exoenzyme	89.77	99.88	WP_011226733
CMAHBEIB_1	1742722	1743414	STR_RS05255	0.0	Capsule	Immune modulation	89.61	100.00	WP_011227247
CMAHBEIB_1	1742722	1743414	STER_RS05310	0.0	Capsule	Immune modulation	89.47	100.00	WP_011681175
CMAHBEIB_1	2074370	2075673	eno	0.0	Streptococcal enolase	Exoenzyme	88.24	99.54	WP_000022832
CMAHBEIB_1	321184	322197	plr/gapA	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	85.57	99.90	WP_002986042
CMAHBEIB_1	1475209	1475970	srtA	0.0	Sortase A	Exoenzyme	83.88	99.87	-
CMAHBEIB_1	1890791	1891837	rfbB	0.0	Capsule	Immune modulation	80.90	100.00	WP_009659423
CMAHBEIB_1	673890	675173	tig/ropA	0.0	Trigger factor	Stress survival	80.76	99.61	WP_000107753
CMAHBEIB_1	1892700	1893569	rfbA	0.0	Capsule	Immune modulation	80.16	99.77	WP_002904719
CMAHBEIB_1	1742042	1742712	STU_RS14635	2.79e-148	Capsule	Immune modulation	81.13	90.28	WP_011226046
CMAHBEIB_1	1742042	1742712	STER_RS05305	1.30e-146	Capsule	Immune modulation	80.98	90.28	WP_011681174
CMAHBEIB_1	1742042	1742712	STR_RS05250	1.32e-136	Capsule	Immune modulation	80.09	89.20	WP_011227246

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
CMAHBEIB_1	1472519	1471536	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	96.95	100.00	AAK75326
CMAHBEIB_1	1484104	1485177	MntE	0.0	manganese homeostasis	95.81	99.72	ABF32167
CMAHBEIB_1	191166	193469	pfl2(Sp_0459)	0.0	formate acetyltransferase	94.40	99.10	AAK74619
CMAHBEIB_1	1302838	1301357	SPD_0310	0.0	UPF0371 protein SPD_0310	93.32	100.00	ABJ54480
CMAHBEIB_1	2171240	2170272	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
CMAHBEIB_1	1503647	1505893	metE	0.0	methionine biosynthesis enzymes	92.52	100.00	AAK74738
CMAHBEIB_1	567583	568554	prsA2	0.0	ribose-phosphate pyrophosphokinase	91.67	100.00	ABF36968
CMAHBEIB_1	1405875	1412348	PrtA	0.0	serine protease	91.39	100.61	ABJ55268
CMAHBEIB_1	1920119	1918389	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	89.95	100.00	AAK34199
CMAHBEIB_1	58937	57786	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.58	99.74	AAL00050
CMAHBEIB_1	1037200	1039188	uvrB	0.0	excinuclease ABC, B subunit	89.44	100.00	AE014259_2
CMAHBEIB_1	532169	530691	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.83	100.00	ADE32434
CMAHBEIB_1	2075673	2074372	Eno	0.0	enolase	86.44	99.77	ABP90468
CMAHBEIB_1	516389	514497	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.58	98.90	ABP91129
CMAHBEIB_1	603588	604679	recA	0.0	DNA recombination and repair	84.91	95.36	AAL00560
CMAHBEIB_1	1508811	1507102	PGM	0.0	phosphoglucomutase	84.76	99.65	ACH87041
CMAHBEIB_1	1652815	1651454	mnmE	0.0	central tRNA-modifying GTPase	82.89	99.56	ABP90420
CMAHBEIB_1	372880	373890	pdh	0.0	pyruvate dehydrogenase	82.79	99.70	ABP91006
CMAHBEIB_1	2090084	2089194	bglB	2.19e-175	putative phospho--glucosidase	86.87	99.66	AAK33487
CMAHBEIB_1	1552050	1551100	SP_0676	3.25e-169	transcription facot	81.39	98.45	AAK74821
CMAHBEIB_1	1506083	1506940	metF	9.54e-168	methionine biosynthesis enzymes	87.06	99.31	AAK74739
CMAHBEIB_1	1956980	1957837	mtsA	6.30e-151	substrate-binding lipoprotein of manganese transporter	80.49	92.86	AIK76191
CMAHBEIB_1	1779409	1778705	covR	9.81e-126	responder protein	85.53	100.00	AAK71319
CMAHBEIB_1	1382068	1382739	rr01	6.01e-125	response regulator	84.38	99.56	CAB54566
CMAHBEIB_1	1513476	1514147	ciaR	9.82e-124	two component system response regulator	85.71	99.12	AIK75708
CMAHBEIB_1	1513476	1514144	CiaR	1.22e-123	two-component response regulator	87.00	99.55	AAK74935
CMAHBEIB_1	821525	822211	CovR	1.85e-119	serves to repress GAS virulence factor-encoding genes	82.10	100.00	ACE75886
CMAHBEIB_1	1779409	1778705	walR	2.23e-119	DNA-binding response regulator	82.13	100.00	ANC99504
CMAHBEIB_1	605940	606335	SpxA2	2.17e-74	transcriptional regulator	91.67	100.00	ERL21461
CMAHBEIB_1	1664272	1664673	SpxA1	1.40e-68	transcriptional regulator	82.09	100.00	ERL19273
CMAHBEIB_1	654528	654941	GrpE	1.71e-66	protein grpE	81.88	80.59	ABP89267
CMAHBEIB_1	675340	675831	RopE (M5005_Spy_1611)	1.07e-71	probable DNA-directed RNA polymerase subunit delta	82.93	85.86	AAK34603
CMAHBEIB_1	191166	193466	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	83.22	98.08	MYN69560
CMAHBEIB_1	410852	409833	ilvC (SPD_0406)	0.0	ketol-acid reductoisomerase (NADP(+))	85.88	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
CMAHBEIB_1	0.0	1.0	0.0
CMAHBEIB_2	1.0	0.0	1.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Prophage

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
No hit found