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_CP010796	Carnobacterium sp. CP1, complete genome	0 crisprs	DinG,DEDDh,cas3,csa3	0	0	5	0
NZ_CP010819	Carnobacterium sp. CP1 plasmid pCP1, complete sequence	0 crisprs	csa3	0	0	0	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

69283 : 108985

Enterococcus_phage(33.33%)

tail,portal,terminase,integrase,protease,capsid

attL 67468:67481|attR 80826:80839

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
67468:67481	attL	NA	NA	NA	NA
WP_058918123.1\|69283_70462_-\|integrase	site-specific integrase	D2J023	Enterococcus_phage	2.8e-84	40.3
WP_058918124.1\|70585_71248_-	hypothetical protein	NA	NA	NA	NA
WP_058918125.1\|71247_71646_-	hypothetical protein	NA	NA	NA	NA
WP_058918126.1\|71638_72604_-	AAA family ATPase	A0A1X9IGI7	Lactococcus_phage	1.4e-25	32.4
WP_058918127.1\|72708_73239_-	hypothetical protein	Q4ZA70	Staphylococcus_virus	2.2e-12	33.5
WP_058918128.1\|73444_73789_-	ImmA/IrrE family metallo-endopeptidase	NA	NA	NA	NA
WP_058918129.1\|73799_74120_-	helix-turn-helix transcriptional regulator	A0A097QQ00	Enterococcus_phage	4.5e-21	43.8
WP_058918130.1\|74397_74592_+	helix-turn-helix transcriptional regulator	Q5YAA3	Bacillus_phage	2.4e-09	48.3
WP_058918131.1\|74592_75312_+	hypothetical protein	A0A1S5S954	Streptococcus_phage	1.2e-48	45.5
WP_058918132.1\|75314_75575_+	hypothetical protein	D2J029	Enterococcus_phage	2.1e-24	54.7
WP_058918133.1\|75851_76136_+	hypothetical protein	NA	NA	NA	NA
WP_058918134.1\|76148_76334_+	hypothetical protein	NA	NA	NA	NA
WP_058918135.1\|76344_76551_+	hypothetical protein	NA	NA	NA	NA
WP_058918136.1\|76604_78620_+	AAA family ATPase	A0A1L2K2K3	Aeribacillus_phage	6.1e-71	34.5
WP_058918137.1\|78622_79396_+	phage recombination protein Bet	A8ATK8	Listeria_phage	8.8e-71	54.4
WP_058918138.1\|79398_80094_+	MBL fold metallo-hydrolase	A0A1L2JY21	Aeribacillus_phage	6.7e-70	52.8
WP_058918140.1\|81085_81325_+	hypothetical protein	NA	NA	NA	NA
80826:80839	attR	NA	NA	NA	NA
WP_082664140.1\|81317_81896_+	hypothetical protein	A0A2K9V2V4	Faecalibacterium_phage	9.6e-38	46.5
WP_058918141.1\|81917_82205_+	hypothetical protein	NA	NA	NA	NA
WP_058918142.1\|82197_82428_+	hypothetical protein	NA	NA	NA	NA
WP_058918143.1\|82428_82899_+	single-stranded DNA-binding protein	A0A097PAQ3	Streptococcus_pyogenes_phage	1.3e-40	56.4
WP_058918144.1\|82934_83249_+	hypothetical protein	D2IZR4	Enterococcus_phage	4.3e-32	70.7
WP_058918145.1\|83253_83487_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_058918146.1\|83483_83675_+	hypothetical protein	B0YL92	Streptococcus_virus	2.7e-05	40.7
WP_058918147.1\|83671_83941_+	hypothetical protein	NA	NA	NA	NA
WP_156413239.1\|83996_84368_+	DUF722 domain-containing protein	A0A2I7SC40	Paenibacillus_phage	1.8e-13	36.1
WP_058918149.1\|84825_85041_+	hypothetical protein	NA	NA	NA	NA
WP_058918150.1\|85131_85929_+	hypothetical protein	A0A2H4J4R0	uncultured_Caudovirales_phage	8.8e-50	48.3
WP_058918151.1\|85918_87211_+\|terminase	PBSX family phage terminase large subunit	V5UTH5	Oenococcus_phage	7.1e-174	68.4
WP_058918152.1\|87222_88626_+\|portal	phage portal protein	D2J002	Enterococcus_phage	3.7e-144	56.8
WP_058918153.1\|88606_88882_+	hypothetical protein	NA	NA	NA	NA
WP_058918154.1\|88878_89190_+\|protease	ribosomal-processing cysteine protease Prp	NA	NA	NA	NA
WP_058918155.1\|89252_89885_+	DUF4145 domain-containing protein	NA	NA	NA	NA
WP_082664141.1\|89924_91625_+	hypothetical protein	D7RWI8	Brochothrix_phage	2.5e-110	55.4
WP_058918156.1\|91608_91863_+	hypothetical protein	NA	NA	NA	NA
WP_058918157.1\|91923_92121_+	hypothetical protein	NA	NA	NA	NA
WP_156413240.1\|92130_92280_+	hypothetical protein	NA	NA	NA	NA
WP_058918158.1\|92299_92632_+	hypothetical protein	U5PYW6	Salmonella_phage	6.7e-36	55.1
WP_058918159.1\|92837_93518_+	DUF4355 domain-containing protein	D7RWI9	Brochothrix_phage	2.4e-19	38.7
WP_058918160.1\|93535_93850_+	hypothetical protein	C9E2J4	Enterococcus_phage	3.5e-26	60.0
WP_058918161.1\|93877_94945_+\|capsid	major capsid protein	S5MA55	Brevibacillus_phage	1.0e-122	64.1
WP_058918162.1\|94964_95225_+	hypothetical protein	NA	NA	NA	NA
WP_058918163.1\|95240_95558_+	hypothetical protein	NA	NA	NA	NA
WP_156413304.1\|95602_95902_+	hypothetical protein	A0A2H4JD74	uncultured_Caudovirales_phage	6.3e-09	43.5
WP_058918165.1\|95898_96330_+	hypothetical protein	D2J008	Enterococcus_phage	7.4e-27	46.9
WP_058918166.1\|96334_96880_+	hypothetical protein	D7RWJ3	Brochothrix_phage	1.8e-54	54.7
WP_058918167.1\|96879_97242_+	hypothetical protein	D2J010	Enterococcus_phage	1.9e-28	53.8
WP_156413241.1\|97261_97741_+\|tail	phage tail protein	D2J011	Enterococcus_phage	5.2e-29	48.3
WP_058918168.1\|97870_98281_+	hypothetical protein	A0A059NTA0	Lactococcus_phage	7.8e-18	40.8
WP_058918169.1\|98316_98670_+	hypothetical protein	D2J013	Enterococcus_phage	2.5e-20	48.7
WP_058918170.1\|98670_103764_+	peptidoglycan DD-metalloendopeptidase family protein	D2J014	Enterococcus_phage	1.6e-197	43.9
WP_058918171.1\|103779_104145_+	hypothetical protein	D7RWK1	Brochothrix_phage	1.3e-37	62.3
WP_058918172.1\|104158_108985_+	hypothetical protein	D7RWK2	Brochothrix_phage	9.6e-131	57.2

DBSCAN-SWA_2

159230 : 166624

Lactococcus_phage(66.67%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_058918223.1\|159230_161876_+\|tRNA	valine--tRNA ligase	A0A1V0S951	Catovirus	7.8e-159	42.0
WP_082664256.1\|162097_163420_+	bifunctional folylpolyglutamate synthase/dihydrofolate synthase	NA	NA	NA	NA
WP_058918224.1\|163433_164108_+	HAD family phosphatase	M1I5S4	Acanthocystis_turfacea_Chlorella_virus	2.2e-09	27.7
WP_058918225.1\|164199_164892_+	JAB domain-containing protein	NA	NA	NA	NA
WP_058918226.1\|165115_165316_+	cold shock domain-containing protein	Q9AZD3	Lactococcus_phage	4.1e-20	71.2
WP_058918226.1\|165556_165757_+	cold shock domain-containing protein	Q9AZD3	Lactococcus_phage	4.1e-20	71.2
WP_058918227.1\|165981_166182_+	cold shock domain-containing protein	Q9AZD3	Lactococcus_phage	1.8e-20	71.2
WP_058918227.1\|166423_166624_+	cold shock domain-containing protein	Q9AZD3	Lactococcus_phage	1.8e-20	71.2

DBSCAN-SWA_3

349371 : 396787

Streptococcus_phage(28.57%)

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

attL 361288:361304|attR 373608:373624

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_058918386.1\|349371_350583_+\|tRNA	CCA tRNA nucleotidyltransferase	H7BUW3	unidentified_phage	1.0e-44	48.4
WP_058918387.1\|350674_351277_+	nitroreductase family protein	NA	NA	NA	NA
WP_058918388.1\|351458_351932_+	hypothetical protein	NA	NA	NA	NA
WP_058918389.1\|352049_354854_+	ATP-dependent DNA helicase DinG	A0A127AW80	Bacillus_phage	1.4e-41	24.6
WP_058918390.1\|354884_355361_+	hypothetical protein	NA	NA	NA	NA
WP_058918391.1\|355513_356812_+\|tRNA	asparagine--tRNA ligase	A0A2P1EMB4	Moumouvirus	4.0e-60	30.6
WP_058918392.1\|356928_357642_+	DnaD domain-containing protein	A0A0N7AE27	Bacillus_phage	2.3e-17	41.8
WP_058918393.1\|357658_358309_+	endonuclease III	NA	NA	NA	NA
WP_058918394.1\|358450_361081_-	PBP1A family penicillin-binding protein	NA	NA	NA	NA
WP_058918395.1\|361158_361794_-	Holliday junction resolvase RecU	A0A1C8E9C3	Bacillus_phage	2.5e-23	37.2
361288:361304	attL	NA	NA	NA	NA
WP_058920199.1\|361864_362404_+	DUF1273 domain-containing protein	NA	NA	NA	NA
WP_058918396.1\|362564_362900_+	cell division regulator GpsB	NA	NA	NA	NA
WP_058918397.1\|363409_364555_+	class I SAM-dependent RNA methyltransferase	NA	NA	NA	NA
WP_058918398.1\|365008_365281_+	hypothetical protein	NA	NA	NA	NA
WP_058918399.1\|365687_366869_-\|integrase	site-specific integrase	A8ATX2	Listeria_phage	6.7e-86	42.8
WP_058918400.1\|367017_367209_-	hypothetical protein	NA	NA	NA	NA
WP_058918401.1\|367247_367910_-	hypothetical protein	NA	NA	NA	NA
WP_058918402.1\|367982_368633_-	helix-turn-helix domain-containing protein	A0A2H4J245	uncultured_Caudovirales_phage	9.8e-39	39.0
WP_058918403.1\|368804_369065_+	helix-turn-helix transcriptional regulator	Q9G0C3	Lactococcus_phage	1.6e-05	40.0
WP_058918404.1\|369101_369809_+	antirepressor	W5R8M8	Staphylococcus_phage	4.7e-63	48.9
WP_156413247.1\|369809_369959_+	hypothetical protein	NA	NA	NA	NA
WP_058918405.1\|369939_370275_-	hypothetical protein	S6B1N1	Thermus_phage	1.6e-13	36.5
WP_058918406.1\|370412_370610_+	helix-turn-helix transcriptional regulator	A0A1X9I6I3	Streptococcus_phage	6.8e-12	59.7
WP_058918407.1\|370615_370954_+	DUF771 domain-containing protein	A0A0P0IQT9	Lactobacillus_phage	7.4e-06	38.6
WP_058918408.1\|370958_371222_+	hypothetical protein	NA	NA	NA	NA
WP_156413248.1\|371208_371349_+	hypothetical protein	NA	NA	NA	NA
WP_156413249.1\|371361_371520_+	hypothetical protein	NA	NA	NA	NA
WP_058918409.1\|371629_372550_+	DnaD domain protein	F0PIG9	Enterococcus_phage	1.3e-23	55.0
WP_156413250.1\|372571_372775_+	hypothetical protein	NA	NA	NA	NA
WP_058918411.1\|372771_372987_+	hypothetical protein	NA	NA	NA	NA
WP_058918412.1\|372983_373481_+	hypothetical protein	NA	NA	NA	NA
WP_058918413.1\|373477_373684_+	hypothetical protein	NA	NA	NA	NA
373608:373624	attR	NA	NA	NA	NA
WP_058918414.1\|373680_374103_+	hypothetical protein	Q708P3	Streptococcus_phage	3.3e-35	59.5
WP_058918415.1\|374103_374574_+	single-stranded DNA-binding protein	A0A290GHL8	Caldibacillus_phage	2.0e-41	59.0
WP_082664152.1\|374554_375286_+	hypothetical protein	D7RWH3	Brochothrix_phage	1.6e-34	37.2
WP_058918417.1\|375312_375603_+	hypothetical protein	NA	NA	NA	NA
WP_058918418.1\|375595_375820_+	hypothetical protein	NA	NA	NA	NA
WP_156413251.1\|376029_376203_+	hypothetical protein	NA	NA	NA	NA
WP_058918419.1\|376199_376403_+	hypothetical protein	NA	NA	NA	NA
WP_156413252.1\|376402_376567_+	hypothetical protein	NA	NA	NA	NA
WP_058918420.1\|376567_377068_+	DUF1642 domain-containing protein	A0A1S5SGG0	Streptococcus_phage	1.4e-05	38.8
WP_058918421.1\|377060_377285_+	hypothetical protein	NA	NA	NA	NA
WP_082664153.1\|377300_377813_+	DUF1599 domain-containing protein	A0A2H4J4N1	uncultured_Caudovirales_phage	2.0e-23	63.2
WP_058918422.1\|377827_378280_+	hypothetical protein	NA	NA	NA	NA
WP_058918423.1\|378544_379045_+	HNH endonuclease	A0A219UR92	Bacillus_phage	4.6e-28	43.5
WP_058918424.1\|379166_379532_+	hypothetical protein	NA	NA	NA	NA
WP_058918425.1\|379521_379863_+	HNH endonuclease	A0A2H4JDE9	uncultured_Caudovirales_phage	1.0e-26	51.4
WP_058918427.1\|380031_380556_+\|terminase	phage terminase small subunit P27 family	A0A2H4JH50	uncultured_Caudovirales_phage	1.3e-33	44.8
WP_058918428.1\|380603_381551_+	hypothetical protein	A0A1D6Z2A9	Staphylococcus_phage	8.7e-12	25.2
WP_058918429.1\|381561_383277_+\|terminase	terminase large subunit	A0A2H4JBN3	uncultured_Caudovirales_phage	2.3e-204	59.9
WP_058918430.1\|383539_384760_+\|portal	phage portal protein	J7KDU3	Streptococcus_phage	1.0e-150	65.3
WP_058918431.1\|384737_385457_+\|protease	Clp protease ClpP	Q0SPK3	Clostridium_phage	2.0e-48	49.8
WP_058918432.1\|385513_386713_+\|capsid	phage major capsid protein	J7KJ82	Streptococcus_phage	8.8e-110	55.1
WP_082664154.1\|386730_386853_+	hypothetical protein	NA	NA	NA	NA
WP_058918433.1\|386855_387167_+	DNA packaging protein, QLRG family	J7KC36	Streptococcus_phage	5.2e-30	65.6
WP_058918434.1\|387156_387507_+\|head	phage head closure protein	A0A2H4JDE1	uncultured_Caudovirales_phage	7.1e-20	45.2
WP_058918435.1\|387503_387872_+	HK97 gp10 family phage protein	M1PKN1	Streptococcus_phage	6.3e-27	52.4
WP_058918436.1\|387871_388294_+	hypothetical protein	J7KBZ9	Streptococcus_phage	5.2e-33	56.3
WP_058918437.1\|388315_388879_+\|tail	phage tail protein	M1PRQ7	Streptococcus_phage	1.7e-68	68.1
WP_058918438.1\|388990_389308_+	hypothetical protein	NA	NA	NA	NA
WP_156413253.1\|389331_389496_+	hypothetical protein	NA	NA	NA	NA
WP_156413308.1\|389831_393563_+\|tail	phage tail tape measure protein	A0A2H4JEN9	uncultured_Caudovirales_phage	4.2e-118	38.5
WP_058918440.1\|393559_394264_+	hypothetical protein	A0A1S5SA63	Streptococcus_phage	9.6e-16	28.3
WP_058918441.1\|394263_395838_+	hypothetical protein	A0A1B2APX2	Phage_Wrath	1.1e-83	40.2
WP_156413254.1\|395850_396015_+	hypothetical protein	NA	NA	NA	NA
WP_058918442.1\|395998_396787_-	DUF4393 domain-containing protein	E9LUL1	Lactobacillus_phage	1.1e-28	32.4

DBSCAN-SWA_4

665096 : 674287

Staphylococcus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_058918661.1\|665096_666155_-	BMP family ABC transporter substrate-binding protein	A0A0A7DN02	Lactobacillus_phage	1.1e-55	36.6
WP_058918662.1\|666531_667827_+	NCS2 family permease	NA	NA	NA	NA
WP_058918663.1\|667893_668154_-	metal-sensitive transcriptional regulator	NA	NA	NA	NA
WP_058918664.1\|668153_668450_-	rhodanese-like domain-containing protein	A0A2H4PQR9	Staphylococcus_phage	7.1e-13	41.1
WP_058918665.1\|668449_670099_-	pyridine nucleotide-disulfide oxidoreductase family protein	A0A2K5B2C5	Erysipelothrix_phage	1.6e-13	24.2
WP_058918666.1\|670098_670404_-	rhodanese-like domain-containing protein	NA	NA	NA	NA
WP_082664166.1\|670447_670717_-	membrane protein insertion efficiency factor YidD	A0A2H4PQM5	Staphylococcus_phage	1.1e-20	63.4
WP_058918668.1\|670800_672546_-	ABC transporter ATP-binding protein	W8CYL7	Bacillus_phage	3.3e-41	27.5
WP_058918669.1\|672532_674287_-	ABC transporter ATP-binding protein	W8CYL7	Bacillus_phage	4.6e-51	28.5

DBSCAN-SWA_5

2245268 : 2252784

Streptococcus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_058919922.1\|2245268_2246189_+	UTP--glucose-1-phosphate uridylyltransferase GalU	A0A127AW70	Bacillus_phage	3.0e-78	51.9
WP_058919923.1\|2246334_2246766_+	hypothetical protein	NA	NA	NA	NA
WP_058919924.1\|2246865_2247828_+	thioredoxin-disulfide reductase	G3MA85	Bacillus_virus	1.8e-89	54.0
WP_058919925.1\|2247973_2249701_+	phospho-sugar mutase	A0A1X9I671	Streptococcus_phage	1.1e-193	57.2
WP_058919926.1\|2249873_2250761_+	RNase adapter RapZ	A0A0R8VB27	Thermobifida_phage	2.8e-12	34.7
WP_058919927.1\|2250757_2251771_+	YvcK family protein	A1IMD5	Streptococcus_phage	2.6e-102	56.4
WP_058919928.1\|2251830_2252784_+	DNA-binding protein WhiA	Q7AWZ3	Streptococcus_phage	6.2e-50	38.0

Anti-CRISPR protein detection

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