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
NZ_LN999844	Enterococcus faecium isolate EFE10021 genome assembly, chromosome: chr	0 crisprs	DEDDh,cas3,csa3,DinG,cas2,cas14j	0	0	4	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

981236 : 1058839

Enterococcus_phage(25.0%)

terminase,tRNA,holin,capsid,integrase,tail,portal,head,protease

attL 981158:981174|attR 1016462:1016478

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
981158:981174	attL	NA	NA	NA	NA
WP_061605160.1\|981236_982379_-\|integrase	site-specific integrase	M1PRU8	Streptococcus_phage	8.2e-57	37.2
WP_002306332.1\|982494_982701_-	hypothetical protein	NA	NA	NA	NA
WP_047929334.1\|983096_983768_-	hypothetical protein	NA	NA	NA	NA
WP_002293175.1\|983901_984555_-	hypothetical protein	NA	NA	NA	NA
WP_025479728.1\|984604_985033_-	ImmA/IrrE family metallo-endopeptidase	NA	NA	NA	NA
WP_061605161.1\|985037_985412_-	helix-turn-helix transcriptional regulator	A0A2P0ZLA1	Lactobacillus_phage	4.5e-20	43.8
WP_002337282.1\|985694_985880_+	helix-turn-helix transcriptional regulator	Q5YAA3	Bacillus_phage	5.4e-11	53.3
WP_002337281.1\|985892_986120_+	hypothetical protein	NA	NA	NA	NA
WP_061605162.1\|986346_986529_+	hypothetical protein	NA	NA	NA	NA
WP_061605163.1\|986511_986856_-	hypothetical protein	NA	NA	NA	NA
WP_047927437.1\|986936_987635_+	antirepressor	D2IYT0	Enterococcus_phage	7.8e-26	35.1
WP_010726204.1\|987812_988154_+	hypothetical protein	NA	NA	NA	NA
WP_010726205.1\|988146_988818_+	DUF1071 domain-containing protein	A0A1B1P7F0	Bacillus_phage	4.2e-29	47.4
WP_061605164.1\|988823_989510_+	hypothetical protein	C9E2N1	Enterococcus_phage	2.9e-89	70.5
WP_061605165.1\|989528_990338_+	phage replisome organizer	A0A2H4J2I9	uncultured_Caudovirales_phage	2.8e-35	56.6
WP_002323158.1\|990354_991206_+	ATP-binding protein	A0A0P0I3L9	Lactobacillus_phage	6.2e-25	28.7
WP_002321420.1\|991202_991562_+	DUF1064 domain-containing protein	A0A1P8BKR1	Lactococcus_phage	1.1e-18	48.3
WP_061605166.1\|991576_991738_+	hypothetical protein	NA	NA	NA	NA
WP_080447974.1\|991734_992046_+	hypothetical protein	NA	NA	NA	NA
WP_002329411.1\|992039_992330_+	hypothetical protein	D2IZR3	Enterococcus_phage	4.8e-14	44.4
WP_002336328.1\|992329_992647_+	DUF1140 family protein	A0A2H4JAZ4	uncultured_Caudovirales_phage	1.0e-09	36.4
WP_053002976.1\|992643_992994_+	DUF1642 domain-containing protein	A0A126GGJ0	Streptococcus_phage	5.3e-07	36.7
WP_002318885.1\|993665_994082_+	autolysin	C9E2P5	Enterococcus_phage	4.8e-47	68.1
WP_010726607.1\|995080_995290_+	hypothetical protein	NA	NA	NA	NA
WP_002305386.1\|995654_995999_+	HNH endonuclease	A0A1B1P757	Bacillus_phage	1.0e-26	58.1
WP_061605167.1\|996003_996285_+	hypothetical protein	NA	NA	NA	NA
WP_002286538.1\|996387_996702_+\|terminase	terminase	A0A1S7FYW6	Listeria_phage	3.3e-08	37.9
WP_061605168.1\|996679_998317_+\|terminase	terminase large subunit	A0A1B1P766	Bacillus_phage	1.9e-139	47.6
WP_002342088.1\|998336_999515_+\|portal	phage portal protein	A0A1B1P754	Bacillus_phage	3.2e-80	40.4
WP_061605169.1\|999477_1000164_+\|protease	Clp protease ClpP	A0A2I6PDD0	Staphylococcus_phage	6.1e-31	40.2
WP_002318250.1\|1000163_1001324_+\|capsid	phage major capsid protein	A0A1B1P752	Bacillus_phage	2.7e-100	50.4
WP_061605170.1\|1001333_1002209_+	hypothetical protein	D2IYX3	Enterococcus_phage	1.1e-130	74.9
WP_002318248.1\|1002205_1002517_+	hypothetical protein	A0A1B1P751	Bacillus_phage	1.1e-11	43.5
WP_002318247.1\|1002506_1002860_+\|head,tail	head-tail adaptor protein	NA	NA	NA	NA
WP_002318246.1\|1002849_1003251_+	hypothetical protein	A0A1B1P759	Bacillus_phage	3.0e-14	34.1
WP_002319774.1\|1003243_1003648_+	hypothetical protein	R4IBU7	Listeria_phage	6.1e-07	29.5
WP_002318244.1\|1003659_1004265_+	hypothetical protein	Q8W5Z9	Listeria_phage	6.7e-34	41.2
WP_002286510.1\|1004286_1004649_+	hypothetical protein	NA	NA	NA	NA
WP_002305377.1\|1004651_1004834_+	hypothetical protein	NA	NA	NA	NA
WP_061605171.1\|1004850_1008270_+\|tail	phage tail tape measure protein	A0A1D3SNL5	Enterococcus_phage	8.7e-78	41.5
WP_061605172.1\|1008320_1009058_+\|tail	phage tail protein	NA	NA	NA	NA
WP_061605173.1\|1009067_1011359_+	hypothetical protein	A0A1D3SNL1	Enterococcus_phage	4.6e-91	30.0
WP_061605174.1\|1011382_1013617_+	hypothetical protein	A0A288TYH2	Enterococcus_phage	6.9e-100	48.6
WP_002322123.1\|1013688_1013931_+\|holin	holin	D2J075	Enterococcus_phage	2.1e-23	68.4
WP_002302122.1\|1013946_1014144_+\|holin	holin	A0A0S2MYF6	Enterococcus_phage	7.8e-24	85.9
WP_016631930.1\|1014154_1015174_+	N-acetylmuramoyl-L-alanine amidase	A0A1G5SA77	Enterococcus_phage	2.4e-60	66.1
WP_002333318.1\|1015937_1016240_-	hypothetical protein	NA	NA	NA	NA
WP_002288592.1\|1016997_1017771_-	Cof-type HAD-IIB family hydrolase	NA	NA	NA	NA
1016462:1016478	attR	NA	NA	NA	NA
WP_002288595.1\|1017914_1018265_+	SdpI family protein	NA	NA	NA	NA
WP_061605175.1\|1018245_1018962_+	response regulator transcription factor	W8CYM9	Bacillus_phage	6.1e-34	37.0
WP_002302594.1\|1018961_1020410_+	HAMP domain-containing histidine kinase	A0A1V0SGX0	Hokovirus	1.7e-19	29.3
WP_002331483.1\|1020480_1020990_-	hypothetical protein	NA	NA	NA	NA
WP_002297641.1\|1020979_1021705_-	hypothetical protein	NA	NA	NA	NA
WP_002306399.1\|1021927_1024048_-	LTA synthase family protein	W6LM83	Streptococcus_phage	1.7e-220	58.3
WP_002306400.1\|1024277_1025456_+	class I SAM-dependent rRNA methyltransferase	W6LLI2	Streptococcus_phage	6.0e-103	49.5
WP_002293935.1\|1025471_1026230_+	type I 3-dehydroquinate dehydratase	W6LP76	Streptococcus_phage	8.5e-26	36.9
WP_002288577.1\|1026252_1026738_+\|tRNA	Cys-tRNA(Pro) deacylase	NA	NA	NA	NA
WP_002293934.1\|1026808_1028062_-	NAD(P)/FAD-dependent oxidoreductase	A0A2H4PQX1	Staphylococcus_phage	4.5e-24	55.3
WP_002306402.1\|1028178_1029528_+	NADP-specific glutamate dehydrogenase	NA	NA	NA	NA
WP_002288574.1\|1029639_1030986_+	glucose-6-phosphate isomerase	NA	NA	NA	NA
WP_002288573.1\|1031290_1031677_-	YxeA family protein	NA	NA	NA	NA
WP_002297633.1\|1032556_1032769_+	hypothetical protein	NA	NA	NA	NA
WP_010829607.1\|1033046_1034846_-	glycerophosphodiesterase	I6XE30	Staphylococcus_phage	1.8e-10	26.9
WP_002287776.1\|1034969_1035566_-	TVP38/TMEM64 family protein	M1Q152	Streptococcus_phage	8.7e-34	41.7
WP_002293927.1\|1035914_1036259_+	carboxymuconolactone decarboxylase family protein	NA	NA	NA	NA
WP_002306407.1\|1036259_1036679_+	cupin domain-containing protein	NA	NA	NA	NA
WP_002293923.1\|1036770_1037124_-	hypothetical protein	NA	NA	NA	NA
WP_002331481.1\|1037089_1038421_-	DUF1576 domain-containing protein	NA	NA	NA	NA
WP_002302607.1\|1038676_1039243_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_002306408.1\|1039813_1040788_+	choloylglycine hydrolase family protein	M1H001	Paramecium_bursaria_Chlorella_virus	6.6e-23	29.7
WP_002293915.1\|1041112_1043008_+	asparagine synthase (glutamine-hydrolyzing)	F2Y2L7	Organic_Lake_phycodnavirus	6.0e-20	26.2
WP_002293914.1\|1043201_1043648_-	DUF2188 domain-containing protein	NA	NA	NA	NA
WP_002296119.1\|1043877_1044027_+	50S ribosomal protein L33	NA	NA	NA	NA
WP_061605176.1\|1044114_1044633_+	dihydrofolate reductase	G3MBI7	Bacillus_virus	4.9e-25	40.4
WP_002293906.1\|1044709_1045666_-	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_002293905.1\|1045831_1046638_+	ABC transporter ATP-binding protein	A0A1V0SJ29	Klosneuvirus	1.0e-13	32.1
WP_002293904.1\|1046634_1047624_+	iron ABC transporter permease	NA	NA	NA	NA
WP_002293903.1\|1047620_1048625_+	iron ABC transporter permease	NA	NA	NA	NA
WP_002289886.1\|1048756_1049299_+	5-formyltetrahydrofolate cyclo-ligase	NA	NA	NA	NA
WP_002330096.1\|1049318_1050017_+\|protease	rhomboid family intramembrane serine protease	NA	NA	NA	NA
WP_002293902.1\|1050037_1050250_+	YqgQ family protein	NA	NA	NA	NA
WP_002293901.1\|1050249_1051212_+	ROK family glucokinase	NA	NA	NA	NA
WP_002293900.1\|1051229_1051625_+	rhodanese-like domain-containing protein	NA	NA	NA	NA
WP_002330097.1\|1051787_1052153_+	DUF488 family protein	NA	NA	NA	NA
WP_061605177.1\|1052149_1053961_+	FAD/NAD(P)-binding protein	NA	NA	NA	NA
WP_002288457.1\|1054022_1054190_-	DUF3042 family protein	NA	NA	NA	NA
WP_002331476.1\|1054438_1055428_+	UDP-glucose 4-epimerase GalE	A0A1V0SG19	Hokovirus	2.7e-48	36.8
WP_002288451.1\|1055439_1056924_+	UDP-glucose--hexose-1-phosphate uridylyltransferase	NA	NA	NA	NA
WP_002288449.1\|1056946_1057927_+	LacI family DNA-binding transcriptional regulator	C6ZCU4	Enterobacteria_phage	5.8e-19	28.9
WP_002331474.1\|1058014_1058839_+\|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex dimerization subunit type 1 TsaB	NA	NA	NA	NA

DBSCAN-SWA_2

1544719 : 1553780

Synechococcus_phage(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002331832.1\|1544719_1545298_-	phosphoribosylglycinamide formyltransferase	M4QRX9	Synechococcus_phage	1.0e-26	38.8
WP_016628360.1\|1545294_1546338_-	phosphoribosylformylglycinamidine cyclo-ligase	A0A1D7SE90	Cyanophage	2.7e-62	43.7
WP_002306860.1\|1546369_1547809_-	amidophosphoribosyltransferase	A0A0M3SGR2	Mollivirus	5.3e-53	33.1
WP_016628361.1\|1547793_1550016_-	phosphoribosylformylglycinamidine synthase subunit PurL	A6N228	Microbacterium_phage	1.1e-150	41.4
WP_002331835.1\|1550016_1550688_-	phosphoribosylformylglycinamidine synthase subunit PurQ	NA	NA	NA	NA
WP_002295474.1\|1550689_1550944_-	phosphoribosylformylglycinamidine synthase subunit PurS	NA	NA	NA	NA
WP_061605215.1\|1550943_1551672_-	phosphoribosylaminoimidazolesuccinocarboxamide synthase	E3SPA9	Prochlorococcus_phage	9.2e-46	41.8
WP_002297115.1\|1551927_1552305_+	hypothetical protein	NA	NA	NA	NA
WP_002288023.1\|1552484_1553780_-	adenylosuccinate lyase	A0A1B3B081	Gordonia_phage	4.5e-19	33.1

DBSCAN-SWA_3

1946884 : 1952257

Enterococcus_phage(66.67%)

holin

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_016628040.1\|1946884_1947274_-\|holin	phage holin family protein	F0PIJ6	Enterococcus_phage	2.6e-39	69.7
WP_002332086.1\|1948276_1949011_-	DUF1071 domain-containing protein	A0A1X9IGE5	Lactococcus_phage	6.3e-42	48.4
WP_061605234.1\|1949003_1949345_-	hypothetical protein	NA	NA	NA	NA
WP_002332090.1\|1949670_1949859_-	hypothetical protein	D2IZW5	Enterococcus_phage	4.8e-07	56.9
WP_002332091.1\|1949879_1950164_-	hypothetical protein	NA	NA	NA	NA
WP_002322001.1\|1950141_1950354_-	helix-turn-helix transcriptional regulator	D2IZW2	Enterococcus_phage	3.4e-09	52.7
WP_016628038.1\|1950356_1951133_-	hypothetical protein	B2ZYU5	Staphylococcus_phage	8.0e-72	54.4
WP_002321999.1\|1951209_1951410_+	hypothetical protein	NA	NA	NA	NA
WP_002321998.1\|1951381_1951612_-	hypothetical protein	NA	NA	NA	NA
WP_002301535.1\|1951909_1952257_+	helix-turn-helix transcriptional regulator	A0A097QQ00	Enterococcus_phage	9.2e-28	61.6

DBSCAN-SWA_4

1974039 : 1982635

Streptococcus_phage(66.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002288083.1\|1974039_1976229_+	anaerobic ribonucleoside-triphosphate reductase	A0A0C5KKX3	Enterococcus_phage	1.8e-286	66.6
WP_002332102.1\|1976667_1977270_+	anaerobic ribonucleoside-triphosphate reductase activating protein	A0A288TZV3	Enterococcus_phage	8.4e-53	57.8
WP_002391657.1\|1977323_1978445_-	DNA polymerase IV	NA	NA	NA	NA
WP_002298874.1\|1978553_1979426_-	16S rRNA (cytidine(1402)-2'-O)-methyltransferase	M1PLC5	Streptococcus_phage	4.0e-88	60.4
WP_002288076.1\|1979494_1979842_-	DNA replication initiation control protein YabA	M1PFV3	Streptococcus_phage	5.1e-18	41.1
WP_002332104.1\|1979834_1980659_-	stage 0 sporulation family protein	NA	NA	NA	NA
WP_002288071.1\|1980694_1981633_-	DNA polymerase III subunit delta'	M1NSC1	Streptococcus_phage	3.3e-35	34.4
WP_002292340.1\|1981646_1981976_-	hypothetical protein	NA	NA	NA	NA
WP_002294039.1\|1981990_1982635_-	dTMP kinase	M1PSC7	Streptococcus_phage	4.2e-58	52.6

Anti-CRISPR protein detection

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