CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
CP033377	Enterococcus faecium strain Gr17 plasmid pGR17, complete sequence	0 crisprs	NA	0	0	0	0
CP033376	Enterococcus faecium strain Gr17 chromosome, complete genome	0 crisprs	cas3,DinG,csa3,DEDDh	0	0	3	0

Results visualization

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CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

229367 : 332779

Bacillus_phage(24.14%)

tail,terminase,holin,integrase,capsid,tRNA

attL 295378:295396|attR 320757:320775

The bacterium proteins that are colored denote the protein is present at specific phage-related keywords (such as 'capsid', 'head', 'integrase', 'plate', 'tail', 'fiber', 'coat', 'transposase', 'portal', 'terminase', 'protease' or 'lysin' and 'tRNA')

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AYQ59347.1\|229367_229673_+\|tRNA	Asp-tRNA(Asn)/Glu-tRNA(Gln) amidotransferase subunit GatC	NA	NA	NA	NA
AYQ59348.1\|231140_232571_+\|tRNA	Asp-tRNA(Asn)/Glu-tRNA(Gln) amidotransferase subunit GatB	NA	NA	NA	NA
AYQ59349.1\|232580_233636_+	diacylglycerol kinase	A0A1V0SBJ0	Catovirus	1.1e-15	27.4
AYQ59350.1\|233746_235120_+	23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD	D0R096	Streptococcus_phage	1.4e-140	56.1
AYQ59351.1\|235122_235251_+	30S ribosomal protein S9	NA	NA	NA	NA
AYQ61102.1\|239777_240203_+	hypothetical protein	NA	NA	NA	NA
AYQ59352.1\|258151_258340_-	hypothetical protein	NA	NA	NA	NA
AYQ59353.1\|259264_259843_-	response regulator	NA	NA	NA	NA
AYQ59354.1\|260116_261403_+	carbohydrate ABC transporter substrate-binding protein	NA	NA	NA	NA
AYQ59355.1\|261539_262409_+	sugar ABC transporter permease	NA	NA	NA	NA
AYQ59356.1\|264905_265304_+	P-II family nitrogen regulator	NA	NA	NA	NA
AYQ59357.1\|266665_267334_+	2,3-bisphosphoglycerate-dependent phosphoglycerate mutase	NA	NA	NA	NA
AYQ59358.1\|270875_271817_+	rhodanese-related sulfurtransferase	NA	NA	NA	NA
AYQ59359.1\|271885_272617_+	serine/threonine protein phosphatase	A0A127AVW0	Bacillus_phage	2.0e-32	35.9
AYQ59360.1\|274959_275430_+	SprT family protein	NA	NA	NA	NA
AYQ59361.1\|276348_277683_+	UDP-N-acetylmuramate--L-alanine ligase	NA	NA	NA	NA
AYQ59362.1\|281958_282795_+	DNA-formamidopyrimidine glycosylase	A0A127AWE5	Bacillus_phage	1.0e-24	30.5
AYQ59363.1\|282758_283388_+	dephospho-CoA kinase	NA	NA	NA	NA
AYQ59364.1\|283439_283772_+	CsbD family protein	NA	NA	NA	NA
AYQ59365.1\|284085_284589_+	transcriptional repressor NrdR	NA	NA	NA	NA
AYQ59366.1\|284611_285985_+	Replication initiation and membrane attachment	NA	NA	NA	NA
AYQ59367.1\|285984_286911_+	primosomal protein DnaI	S5MU12	Brevibacillus_phage	5.1e-33	41.3
AYQ59368.1\|287039_287480_+	hypothetical protein	NA	NA	NA	NA
AYQ59369.1\|287622_288324_+\|tRNA	tRNA (adenine(22)-N(1))-methyltransferase TrmK	NA	NA	NA	NA
AYQ59370.1\|288320_289442_+	Nif3-like dinuclear metal center hexameric protein	NA	NA	NA	NA
AYQ59371.1\|289455_290688_+	peptidase T	NA	NA	NA	NA
AYQ59372.1\|290818_291727_+	YegS/Rv2252/BmrU family lipid kinase	NA	NA	NA	NA
AYQ59373.1\|291761_292034_+	DUF1294 domain-containing protein	NA	NA	NA	NA
AYQ59374.1\|292044_293091_+	UPF0104 family protein	NA	NA	NA	NA
AYQ59375.1\|293340_295950_+	ATP-dependent chaperone ClpB	A0A2I7SAX5	Vibrio_phage	1.6e-132	35.0
295378:295396	attL	NA	NA	NA	NA
AYQ59376.1\|296099_296771_-	hypothetical protein	NA	NA	NA	NA
AYQ59377.1\|296763_297258_-	nucleoside 2-deoxyribosyltransferase	A0A1W6JK28	Lactococcus_phage	4.2e-42	56.5
AYQ59378.1\|297277_298498_-	GNAT family N-acetyltransferase	NA	NA	NA	NA
AYQ59379.1\|298644_300480_+	elongation factor 4	E4ZFJ7	Streptococcus_phage	5.8e-20	24.4
AYQ59380.1\|300572_301709_-\|integrase	site-specific integrase	A0A2I7SCV1	Paenibacillus_phage	1.0e-115	55.6
AYQ59381.1\|301886_302873_-	hypothetical protein	NA	NA	NA	NA
AYQ59382.1\|302995_303562_-	DUF5067 domain-containing protein	NA	NA	NA	NA
AYQ59383.1\|303626_304055_-	ImmA/IrrE family metallo-endopeptidase	I3VYZ2	Thermoanaerobacterium_phage	1.3e-07	31.4
AYQ59384.1\|304061_304454_-	XRE family transcriptional regulator	O03970	Lactobacillus_phage	7.0e-16	38.6
AYQ59385.1\|304592_304847_+	XRE family transcriptional regulator	NA	NA	NA	NA
AYQ59386.1\|305058_305604_+	hypothetical protein	NA	NA	NA	NA
AYQ61103.1\|305609_305888_+	DNA-binding protein	NA	NA	NA	NA
AYQ59387.1\|305884_306070_+	hypothetical protein	NA	NA	NA	NA
AYQ59388.1\|306206_307148_+	endonuclease	D2IZK1	Enterococcus_phage	4.4e-141	76.4
AYQ59389.1\|307239_308145_+	recombinase RecT	D2IYT9	Enterococcus_phage	1.8e-99	61.5
AYQ59390.1\|309445_309607_+	antitoxin	NA	NA	NA	NA
AYQ59391.1\|309603_309930_+	hypothetical protein	NA	NA	NA	NA
AYQ59392.1\|309926_310130_+	toxin PIN	NA	NA	NA	NA
AYQ59393.1\|310126_310426_+	hypothetical protein	NA	NA	NA	NA
AYQ59394.1\|311932_312157_+	hypothetical protein	NA	NA	NA	NA
AYQ59395.1\|312187_312805_+\|terminase	terminase small subunit	A0A2K9V3C4	Faecalibacterium_phage	7.1e-23	44.2
AYQ59396.1\|316856_317426_+\|capsid	capsid protein	S5MUG0	Brevibacillus_phage	3.0e-07	33.1
AYQ59397.1\|318304_318553_+	Ig domain-containing protein	A5GYM0	Lactococcus_phage	1.9e-19	71.8
AYQ59398.1\|318982_319324_+\|capsid	minor capsid protein	Q5YA67	Bacillus_phage	3.4e-35	59.3
AYQ59399.1\|319323_319650_+\|capsid	capsid protein	Q5YA66	Bacillus_phage	6.6e-28	54.4
AYQ59400.1\|319649_320051_+\|capsid	capsid protein	Q5YA65	Bacillus_phage	7.1e-40	55.7
AYQ59401.1\|320047_320506_+\|tail	phage tail protein	Q5YA64	Bacillus_phage	3.2e-28	48.3
AYQ59402.1\|320495_320843_+	fibronectin type III domain-containing protein	D2J067	Enterococcus_phage	2.6e-22	47.7
320757:320775	attR	NA	NA	NA	NA
AYQ59403.1\|320883_321333_+	hypothetical protein	B3GW11	Streptococcus_phage	1.7e-10	30.0
AYQ59404.1\|321341_321923_+	hypothetical protein	Q5YA62	Bacillus_phage	2.5e-41	49.2
AYQ59405.1\|321915_325398_+\|tail	phage tail tape measure protein	Q938K3	Temperate_phage	4.2e-11	53.9
AYQ59406.1\|326243_327287_+	hypothetical protein	Q9T1A5	Listeria_phage	4.8e-104	53.7
AYQ59407.1\|327286_328333_+	hypothetical protein	Q9T1A4	Listeria_phage	1.0e-21	28.7
AYQ59408.1\|328332_330594_+	DUF2479 domain-containing protein	A0A288TYH2	Enterococcus_phage	1.0e-98	54.0
AYQ59409.1\|330612_331059_+	hypothetical protein	NA	NA	NA	NA
AYQ59410.1\|331060_331198_+	XkdX family protein	NA	NA	NA	NA
AYQ59411.1\|331235_331529_+	hypothetical protein	NA	NA	NA	NA
AYQ59412.1\|331551_331749_+\|holin	holin	A0A0S2MYF6	Enterococcus_phage	7.8e-24	85.9
AYQ59413.1\|331759_332779_+	N-acetylmuramoyl-L-alanine amidase	A0A1G5SA77	Enterococcus_phage	3.2e-60	65.5

DBSCAN-SWA_2

1029338 : 1038071

Streptococcus_phage(71.43%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AYQ59918.1\|1029338_1029941_+	anaerobic ribonucleoside-triphosphate reductase activating protein	A0A288TZV3	Enterococcus_phage	4.9e-53	58.0
AYQ59919.1\|1029994_1031116_-	DNA polymerase IV	D0R0A3	Streptococcus_phage	2.0e-15	25.9
AYQ59920.1\|1031224_1032097_-	16S rRNA (cytidine(1402)-2'-O)-methyltransferase	M1PLC5	Streptococcus_phage	2.1e-89	60.1
AYQ59921.1\|1032165_1032513_-	DNA replication initiation control protein YabA	M1PFV3	Streptococcus_phage	5.1e-18	41.1
AYQ59922.1\|1032505_1033330_-	signal peptidase	NA	NA	NA	NA
AYQ59923.1\|1033365_1034304_-	DNA polymerase III subunit delta'	M1NSC1	Streptococcus_phage	6.1e-34	33.8
AYQ59924.1\|1034317_1034647_-	hypothetical protein	NA	NA	NA	NA
AYQ59925.1\|1034661_1035306_-	dTMP kinase	M1PSC7	Streptococcus_phage	4.2e-58	52.6
AYQ59926.1\|1035369_1035966_-	recombination protein RecR	NA	NA	NA	NA
AYQ59927.1\|1035990_1036305_-	YbaB/EbfC family nucleoid-associated protein	NA	NA	NA	NA
AYQ59928.1\|1036325_1038071_-	DNA polymerase III subunit gamma/tau	A0A1U9WR94	Streptococcus_virus	2.1e-48	36.1

DBSCAN-SWA_3

1261765 : 1280812

Enterococcus_phage(37.5%)

head,terminase,portal,integrase,transposase

attL 1258732:1258750|attR 1280902:1280920

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1258732:1258750	attL	NA	NA	NA	NA
AYQ60091.1\|1261765_1261963_-	cold-shock protein	Q9AZD3	Lactococcus_phage	3.9e-23	78.5
AYQ60092.1\|1262382_1263075_-	hypothetical protein	NA	NA	NA	NA
AYQ60093.1\|1263197_1264151_+\|transposase	IS30 family transposase	W5R8L2	Staphylococcus_phage	1.4e-33	35.8
AYQ60094.1\|1264179_1265088_-\|head	phage head morphogenesis protein	A0A1L2JXH2	Streptococcus_phage	1.1e-91	58.8
AYQ60095.1\|1265092_1266592_-\|portal	phage portal protein	A0A097BY86	Enterococcus_phage	1.2e-220	78.3
AYQ60096.1\|1266604_1267903_-\|terminase	PBSX family phage terminase large subunit	A0A1B1UZZ1	Enterococcus_phage	4.9e-231	88.4
AYQ60097.1\|1267895_1268351_-\|terminase	terminase small subunit	D7RWC4	Brochothrix_phage	2.7e-19	41.4
AYQ60098.1\|1268369_1268600_-	hypothetical protein	NA	NA	NA	NA
AYQ60099.1\|1268606_1268819_-	hypothetical protein	D2IZF7	Enterococcus_phage	1.3e-08	61.7
AYQ60100.1\|1269106_1269454_-	hypothetical protein	NA	NA	NA	NA
AYQ60101.1\|1269800_1270214_-	autolysin	C9E2P5	Enterococcus_phage	2.5e-56	81.0
AYQ60102.1\|1270456_1270756_-	hypothetical protein	NA	NA	NA	NA
AYQ60103.1\|1270752_1271247_-	hypothetical protein	A0A0D3MVS9	Staphylococcus_phage	3.2e-26	57.0
AYQ60104.1\|1271243_1271546_-	hypothetical protein	NA	NA	NA	NA
AYQ60105.1\|1271548_1271710_-	antitoxin	NA	NA	NA	NA
AYQ60106.1\|1271706_1272009_-	hypothetical protein	NA	NA	NA	NA
AYQ60107.1\|1272171_1272441_-	hypothetical protein	NA	NA	NA	NA
AYQ60108.1\|1272452_1273199_-	helix-turn-helix domain-containing protein	F8J194	Lactobacillus_virus	2.5e-30	61.4
AYQ60109.1\|1273202_1273889_-	hypothetical protein	C9E2N1	Enterococcus_phage	9.2e-88	68.6
AYQ60110.1\|1273894_1274566_-	DUF1071 domain-containing protein	A0A1B1P7F0	Bacillus_phage	4.2e-29	47.4
AYQ60111.1\|1274558_1274900_-	hypothetical protein	NA	NA	NA	NA
AYQ60112.1\|1275222_1275411_-	hypothetical protein	D2IZW5	Enterococcus_phage	3.7e-07	56.9
AYQ60113.1\|1275431_1275716_-	hypothetical protein	NA	NA	NA	NA
AYQ60114.1\|1275763_1276063_-	hypothetical protein	NA	NA	NA	NA
AYQ60115.1\|1276075_1276831_-	phage antirepressor Ant	A0A2D1GPQ2	Lactobacillus_phage	5.8e-59	47.4
AYQ60116.1\|1276844_1277036_-	hypothetical protein	NA	NA	NA	NA
AYQ60117.1\|1277328_1277649_+	XRE family transcriptional regulator	A0A182BQC8	Lactococcus_phage	2.1e-18	49.1
AYQ60118.1\|1277666_1278098_+	ImmA/IrrE family metallo-endopeptidase	NA	NA	NA	NA
AYQ60119.1\|1278867_1279569_+	hypothetical protein	NA	NA	NA	NA
AYQ60120.1\|1279663_1280812_+\|integrase	site-specific integrase	A0A1P8BMN3	Lactococcus_phage	1.6e-89	48.7
1280902:1280920	attR	NA	NA	NA	NA

Anti-CRISPR protein detection

Acr ID	Acr position	Acr size	Homology with known anti	Neighbor HTH/AcRanker	Neighbor Aca	In prophage	Protospacer in prophage