ProBioPred - Results

Genomic view of input genome and its ProBioPred annotation

Genome Statistics of input genome

Parameters	Values
Total No. of Sequences	1
Total No. of Bases	7585470
Min. Sequence Length	7585470
Max. Sequence Length	7585470
Average Sequence Length	7585470.00
Median Sequence Length	7585470
N50 Length	7585470
N75 Length	7585470
Total As (%)	27.15
Total Ts (%)	27.12
Total Gs (%)	22.89
Total Cs (%)	22.84
Total Ns (%)	0.00
Total ATs (%)	54.27
Total GCs (%)	45.73

Input parameters used to run the job

Parameters	Values
Job Submitted On	2019-10-28
Genera	Bacillus
Genome Label	GenomeLabel
16S rRNA	NO
16S rRNA Gene Sequence	-

Probiotic gene annotation + Add Columns

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  Gene Name

  Contig Id

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  Strand

  % Identity

  e-Value

  Bit Score

  Query Coverage

  Copy Number

  Gene Full Name

  Functional Category

  ProBioPred Category

Gene Name	Contig Id	Start	End	Length	Strand	% Identity	e-Value	Bit Score	Query Coverage	Copy Number	Gene Full Name	Functional Category	ProBioPred Category
dltD	Contig_00001	7325204	7326379	392	+	100.00	0.0	708	100	1	d-Alanylation of LTA	Cell Envelope	Biofilm, Immune-modulation, Simulated Gastric juice
dltA	Contig_00001	7322256	7323764	503	+	100.00	0.0	1041	100	1	d-Alanylation of LTA	Cell Envelope	Resistance Acid, Biofilm
clpE	Contig_00001	3204923	3202827	699	-	100.00	0.0	1362	100	1	Clp ATPase (chaperone)	Protection and repair DNA and proteins	Resistance Bile
clpC	Contig_00001	103571	105994	811	+	86.03	0.0	1340	99	2	Clp ATPase (chaperone)	Protection and repair DNA and proteins	Persistance
msrB	Contig_00001	3904914	3904486	143	-	100.00	7e-95	302	100	1	Methionine sulfoxide reductase	Protection and repair DNA and proteins	Persistance
rrp1	Contig_00001	7524269	7523562	236	-	100.00	3e-146	454	100	1	Response regulator	2 CRS Regulators	Resistance Acid
copA	Contig_00001	6818254	6815849	802	-	99.88	0.0	1554	100	1	Copper-transporting ATPase	Active removal of stressors	Competitive
LBA0867	Contig_00001	101448	101909	154	+	99.35	1e-84	273	100	1	Transcriptional regulator	Active removal of stressors	Resistance Acid, Resistance Bile
LBA0995	Contig_00001	7513941	7512541	467	-	99.79	0.0	872	100	1	Amino acid permease	Active removal of stressors	Resistance Acid, Resistance Bile
Lr1265	Contig_00001	6949469	6947703	589	-	100.00	0.0	1012	100	1	Multidrug resistance protein (ABC transporter family)	Active removal of stressors	Adaption
Lr1584	Contig_00001	6749693	6751249	535	+	84.59	0.0	848	97	1	MDR protein (major facilitator family)	Active removal of stressors	Adaption
Lj1656	Contig_00001	577387	577773	129	+	100.00	2e-64	214	100	1	PTS sugar transporter	Carbohydrate metabolism	Persistance
LBA0996	Contig_00001	7331510	7330230	433	-	60.89	8e-162	509	99	2	Ornithine decarboxylase	Active removal of stressors	Resistance Acid
xylA	Contig_00001	3659135	3660439	441	+	75.86	0.0	685	99	1	Xylose isomerase	Carbohydrate metabolism	Competitive
msmE	Contig_00001	6779162	6778221	314	-	100.00	0.0	609	100	1	ABC transporter substrate binding protein	Carbohydrate metabolism	Growth
treC	Contig_00001	827082	828764	561	+	100.00	0.0	1178	100	1	Trehalase, osmoprotection	Carbohydrate metabolism	Growth
Lj1021	Contig_00001	7454363	7452903	487	-	100.00	0.0	1001	100	1	Entire EPS cluster	EPS	Persistance
fbpA	Contig_00001	3405039	3403339	569	-	61.44	0.0	629	99	1	Putative fibronectin-binding	Cell surface Proteins	Adherance
LBA1428	Contig_00001	988490	987027	488	-	100.00	0.0	639	100	1	MDR protein (major facilitator family)	Active removal of stressors	Resistance Bile
cdpA	Contig_00001	7101750	7100989	254	-	100.00	2e-160	496	100	1	Cell wall-modifying enzyme involved in cell division and separation	Cell surface Proteins	Osmotic, Resistance Bile
wzb	Contig_00001	4170041	4170373	111	+	99.10	4e-68	223	100	1	EPS biosynthesis,phosphotyrosine protein phosphatase	EPS	Biofilm
luxS	Contig_00001	6512078	6511608	157	-	100.00	3e-104	330	100	1	Activated methyl cycle	Protection and repair DNA and proteins	Persistance, Anti-bacterial
dltB	Contig_00001	7323764	7324948	395	+	100.00	0.0	705	100	1	d-Alanylation of LTA	Immunomodulation	Immune-modulation

Antibiotic resistant(AR) gene annotation + Add Columns

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  Contig Id

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  Bit Score

  Copy Number

  Drug Class

  Resistance Mechanism

  AMR Gene Family

Gene Name	Contig Id	Start	End	Length	Strand	RGI Cut-off	% Identity	Bit Score	Copy Number	Drug Class	Resistance Mechanism	AMR Gene Family
ANT(4')-Ib	Contig_00001	5799060	5799803	743	+	Strict	100.0	515.768	2	aminoglycoside antibiotic	antibiotic inactivation	ANT(4')
Bacillus subtilis mprF	Contig_00001	892010	894580	2570	+	Strict	100.0	1726.45	1	peptide antibiotic	antibiotic target alteration	defensin resistant mprF
Lactobacillus reuteri cat-TC	Contig_00001	5602222	5602872	650	-	Strict	99.02	414.461	1	phenicol antibiotic	antibiotic inactivation	chloramphenicol acetyltransferase (CAT)
Shigella flexneri chloramphenicol acetyltransferase	Contig_00001	6891877	6892110	233	-	Strict	100.0	154.451	1	phenicol antibiotic	antibiotic inactivation	chloramphenicol acetyltransferase (CAT)
TEM-1	Contig_00001	1358195	1359055	860	+	Perfect	100.0	591.267	5	monobactam; cephalosporin; penam; penem	antibiotic inactivation	TEM beta-lactamase
aadK	Contig_00001	4305033	4305887	854	-	Perfect	100.0	590.497	1	aminoglycoside antibiotic	antibiotic inactivation	ANT(6)
blt	Contig_00001	4286324	4287526	1202	+	Perfect	100.0	790.415	1	fluoroquinolone antibiotic; acridine dye	antibiotic efflux	major facilitator superfamily (MFS) antibiotic efflux pump
bmr	Contig_00001	4112044	4113213	1169	+	Strict	99.74	763.451	1	fluoroquinolone antibiotic; nucleoside antibiotic; acridine dye; phenicol antibiotic	antibiotic efflux	major facilitator superfamily (MFS) antibiotic efflux pump
lmrB	Contig_00001	288648	290087	1439	-	Strict	99.79	937.176	1	lincosamide antibiotic	antibiotic efflux	ATP-binding cassette (ABC) antibiotic efflux pump
sul3	Contig_00001	5076154	5077143	989	+	Strict	100.0	25.409	1	sulfonamide antibiotic; sulfone antibiotic	antibiotic target replacement	sulfonamide resistant sul
tet(C)	Contig_00001	1354791	1355981	1190	-	Perfect	100.0	779.245	4	tetracycline antibiotic	antibiotic efflux	major facilitator superfamily (MFS) antibiotic efflux pump
tet(L)	Contig_00001	1356127	1357503	1376	-	Strict	99.78	903.664	4	tetracycline antibiotic	antibiotic efflux	major facilitator superfamily (MFS) antibiotic efflux pump
tmrB	Contig_00001	339151	339744	593	-	Perfect	100.0	411.379	1	nucleoside antibiotic	reduced permeability to antibiotic	tunicamycin resistance protein
ykkC	Contig_00001	1351752	1352090	338	+	Perfect	100.0	214.542	1	aminoglycoside antibiotic; tetracycline antibiotic; phenicol antibiotic	antibiotic efflux	small multidrug resistance (SMR) antibiotic efflux pump
ykkD	Contig_00001	1352090	1352407	317	+	Perfect	100.0	209.149	1	aminoglycoside antibiotic; tetracycline antibiotic; phenicol antibiotic	antibiotic efflux	small multidrug resistance (SMR) antibiotic efflux pump

Virulance factor (VF) annotation + Add Columns

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  Copy Number

Gene Name	Contig Id	Start	End	Length	Strand	% Identity	e-Value	Bit Score	Query Coverage	Copy Number
VFG000681(gb\|AAF13662)	Contig_00001	7069412	7068969	149	-	78.38	1e-57	195	99	1
VFG000682(gb\|AAF13663)	Contig_00001	7070608	7069445	464	-	67.10	3e-175	549	97	1
VFG045350(gb\|NP_390986)	Contig_00001	6562228	6562770	181	+	100.00	2e-102	326	100	1

You have selected genus Bacillus for the ProBioPred to run the prediction. Therefore by selecting Bacillus model, your genome is Probiotic with score 0.523736.

Genomic view of input genome and its ProBioPred annotation

Genome Statistics of input genome

Input parameters used to run the job

Probiotic gene annotation + Add Columns show / hide columns × Select All Gene Name Contig Id Start End Length Strand % Identity e-Value Bit Score Query Coverage Copy Number Gene Full Name Functional Category ProBioPred Category Cancel Update Table View

Antibiotic resistant(AR) gene annotation + Add Columns show / hide columns × Select All Gene Name Contig Id Start End Length Strand RGI Cut-off % Identity Bit Score Copy Number Drug Class Resistance Mechanism AMR Gene Family Cancel Update Table View

Virulance factor (VF) annotation + Add Columns show / hide columns × Select All Gene Name Contig Id Start End Length Strand % Identity e-Value Bit Score Query Coverage Copy Number Cancel Update Table View

Probiotic gene annotation + Add Columns

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Gene Full Name

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ProBioPred Category

Antibiotic resistant(AR) gene annotation + Add Columns

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Drug Class

Resistance Mechanism

AMR Gene Family

Virulance factor (VF) annotation + Add Columns

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