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_CP024162	Vibrio cholerae strain E7946 chromosome 1, complete sequence	0 crisprs	DEDDh,DinG,csa3,cas3,WYL,csx1,RT	0	0	5	0
NZ_CP024163	Vibrio cholerae strain E7946 chromosome 2, complete sequence	0 crisprs	PD-DExK,csa3,cas3	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

561053 : 568316

uncultured_Mediterranean_phage(33.33%)

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
WP_001883363.1\|561053_561845_+	5'/3'-nucleotidase SurE	A0A1B1ITZ2	uncultured_Mediterranean_phage	8.4e-69	51.6
WP_000002982.1\|561837_562464_+	protein-L-isoaspartate(D-aspartate) O-methyltransferase	A0A1B1IU40	uncultured_Mediterranean_phage	2.0e-36	52.1
WP_000177568.1\|562463_563399_+	murein hydrolase activator NlpD	D7RWE0	Brochothrix_phage	7.8e-05	34.7
WP_000116737.1\|563472_564480_+	RNA polymerase sigma factor RpoS	F4YCU2	Synechococcus_phage	6.0e-35	34.2
WP_001894770.1\|564572_567161_-	DNA mismatch repair protein MutS	A0A1V0SC35	Catovirus	2.2e-33	23.0
WP_001279365.1\|567428_568316_-	cysteine synthase CysM	A0A1X9I5K7	Streptococcus_phage	4.1e-56	41.1

DBSCAN-SWA_2

799946 : 807139

Faustovirus(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000775253.1\|799946_801161_+	IscS subfamily cysteine desulfurase	A0A0H3TPH2	Faustovirus	1.1e-32	30.5
WP_000331703.1\|801197_801581_+	Fe-S cluster assembly scaffold IscU	A0A218MKD1	uncultured_virus	5.4e-53	78.2
WP_000301571.1\|801641_801965_+	iron-sulfur cluster assembly protein IscA	A0A2H4N7N5	Lake_Baikal_phage	3.0e-25	50.5
WP_001105747.1\|802013_802529_+	co-chaperone HscB	NA	NA	NA	NA
WP_001196560.1\|802552_804403_+	Fe-S protein assembly chaperone HscA	A0A0N9QXN8	Chrysochromulina_ericina_virus	5.3e-106	41.1
WP_001124187.1\|804416_804755_+	ISC system 2Fe-2S type ferredoxin	NA	NA	NA	NA
WP_000872176.1\|804803_804998_+	Fe-S cluster assembly protein IscX	NA	NA	NA	NA
WP_000107237.1\|805217_806507_+	aminopeptidase PepB	Q6GYZ8	Mycoplasma_phage	1.7e-34	34.3
WP_001162850.1\|806710_807139_+	nucleoside-diphosphate kinase	D2E8E1	Anguillid_herpesvirus	1.0e-20	38.4

DBSCAN-SWA_3

1545508 : 1578118

Vibrio_phage(42.11%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_149591715.1\|1545508_1547614_-	RTX toxin T1SS ABC transporter subunit RtxB	W8CYL7	Bacillus_phage	4.9e-39	27.1
WP_000514481.1\|1548028_1548388_+	hypothetical protein	NA	NA	NA	NA
WP_001881196.1\|1548413_1548875_+	RTX toxin-activating lysine-acyltransferase RtxC	NA	NA	NA	NA
WP_001881197.1\|1548859_1562536_+	MARTX multifunctional-autoprocessing repeats-in-toxin holotoxin RtxA	B3Y8K3	Vibrio_virus	8.4e-07	100.0
WP_000053920.1\|1562903_1563128_-	RstC protein	U5TMI6	Satellite_phage	1.1e-34	100.0
WP_010895442.1\|1563221_1563596_-	hypothetical protein	B9V3G5	Vibrio_virus	1.2e-68	100.0
WP_000743997.1\|1563573_1564653_-	hypothetical protein	U5TQR3	Satellite_phage	2.2e-213	100.0
WP_000693566.1\|1564778_1565117_+	helix-turn-helix transcriptional regulator	U5TNA1	Satellite_phage	7.3e-54	100.0
WP_000593522.1\|1565718_1566093_-	cholera enterotoxin binding subunit CtxB	Q77DH7	Vibrio_virus	7.8e-65	100.0
WP_001881225.1\|1566089_1566866_-	cholera enterotoxin catalytic subunit CtxA	A0A142I6Y0	Vibrio_phage	1.3e-151	100.0
WP_000021616.1\|1566964_1568164_-	zonula occludens toxin ZOT	A0A142I6Z1	Vibrio_phage	5.3e-240	100.0
WP_000979342.1\|1568160_1568454_-	accessory cholera enterotoxin	A0A0F6YNQ7	Vibrio_phage	3.7e-46	100.0
WP_001881237.1\|1568450_1569734_-	hypothetical protein	A0A142I701	Vibrio_phage	9.1e-222	100.0
WP_000493022.1\|1569744_1569993_-	colonization factor	A0A0N7F140	Vibrio_phage	8.8e-33	100.0
WP_001890610.1\|1570128_1570512_-	hypothetical protein	F1CC65	Vibrio_virus	4.8e-70	100.0
WP_000743997.1\|1570489_1571569_-	hypothetical protein	U5TQR3	Satellite_phage	2.2e-213	100.0
WP_000693566.1\|1571694_1572033_+	helix-turn-helix transcriptional regulator	U5TNA1	Satellite_phage	7.3e-54	100.0
WP_000170634.1\|1572522_1573107_-	DNA-binding protein	E3U9I9	Vibrio_phage	6.4e-114	100.0
WP_001161489.1\|1573099_1573267_-	hypothetical protein	E3U9J0	Vibrio_phage	2.3e-13	100.0
WP_001052672.1\|1573344_1574037_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_001881265.1\|1574166_1574451_-	hypothetical protein	NA	NA	NA	NA
WP_001881266.1\|1574455_1576024_-	replication protein	A7BJY2	Enterobacteria_phage	2.7e-58	32.3
WP_001265358.1\|1576185_1576752_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_000170632.1\|1577790_1577958_-	hypothetical protein	NA	NA	NA	NA
WP_001161489.1\|1577950_1578118_-	hypothetical protein	E3U9J0	Vibrio_phage	2.3e-13	100.0

DBSCAN-SWA_4

2316769 : 2365602

Vibrio_phage(89.13%)

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

attL 2332702:2332725|attR 2365812:2365835

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000186559.1\|2316769_2317252_-\|tRNA	Cys-tRNA(Pro) deacylase	NA	NA	NA	NA
WP_000809002.1\|2317385_2319047_-	bifunctional UDP-sugar hydrolase/5'-nucleotidase	NA	NA	NA	NA
WP_000400335.1\|2319588_2320440_-	3-deoxy-8-phosphooctulonate synthase	E3T537	Cafeteria_roenbergensis_virus	2.6e-47	40.7
WP_000933144.1\|2320459_2321272_-	tetratricopeptide repeat protein	NA	NA	NA	NA
WP_000272895.1\|2321287_2321671_-	SirB2 family protein	NA	NA	NA	NA
WP_000117270.1\|2321670_2322531_-	peptide chain release factor N(5)-glutamine methyltransferase	NA	NA	NA	NA
WP_000647701.1\|2322534_2323623_-	peptide chain release factor 1	W8EDB3	Pseudomonas_phage	2.4e-05	46.4
WP_000054219.1\|2323652_2324912_-\|tRNA	glutamyl-tRNA reductase	NA	NA	NA	NA
WP_000993150.1\|2325070_2325688_+	lipoprotein localization protein LolB	NA	NA	NA	NA
WP_001881862.1\|2325669_2326557_+	4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase	NA	NA	NA	NA
WP_001113134.1\|2326587_2327532_+	ribose-phosphate pyrophosphokinase	A0A2K9L2G2	Tupanvirus	1.7e-44	38.0
WP_000081944.1\|2327700_2328291_+\|tRNA	aminoacyl-tRNA hydrolase	NA	NA	NA	NA
WP_000505884.1\|2328301_2329393_+	redox-regulated ATPase YchF	NA	NA	NA	NA
WP_000290380.1\|2331252_2332386_-	flagellin	NA	NA	NA	NA
2332702:2332725	attL	NA	NA	NA	NA
WP_000779002.1\|2333409_2335041_-	hypothetical protein	U3PB83	Vibrio_phage	0.0e+00	100.0
WP_000457681.1\|2335037_2335511_-	hypothetical protein	U3PDI0	Vibrio_phage	6.6e-77	100.0
WP_000267787.1\|2335498_2336392_-	hypothetical protein	U3PIM3	Vibrio_phage	2.8e-161	100.0
WP_000369864.1\|2336394_2336919_-	hypothetical protein	A9ZT45	Vibrio_virus	4.8e-97	100.0
WP_000083759.1\|2336918_2338781_-\|tail	phage tail protein	Q8HA58	Vibrio_phage	0.0e+00	100.0
WP_000005870.1\|2338777_2339437_-	hypothetical protein	U3PB79	Vibrio_phage	8.2e-126	100.0
WP_000044509.1\|2339433_2340633_-	hypothetical protein	U3PDH5	Vibrio_phage	1.0e-222	100.0
WP_001113003.1\|2340629_2340962_-	DUF2590 family protein	U3PIM1	Vibrio_phage	1.7e-55	100.0
WP_000343647.1\|2340951_2342769_-\|tail	phage tail tape measure protein	U3PFL8	Vibrio_phage	0.0e+00	100.0
WP_000165786.1\|2342965_2343247_-	hypothetical protein	A9ZT39	Vibrio_virus	5.1e-45	100.0
WP_001881877.1\|2343243_2343546_-	hypothetical protein	U3PCH1	Vibrio_phage	1.5e-50	100.0
WP_000990572.1\|2343454_2343796_-	hypothetical protein	U3PB75	Vibrio_phage	1.1e-52	100.0
WP_000705022.1\|2343770_2344358_-	lysozyme	U3PDH1	Vibrio_phage	2.5e-110	100.0
WP_001077689.1\|2344344_2344572_-	hypothetical protein	U3PIL8	Vibrio_phage	2.1e-36	100.0
WP_000382491.1\|2344568_2344778_-	TraR/DksA family transcriptional regulator	U3PFL5	Vibrio_phage	2.0e-33	100.0
WP_000063627.1\|2344792_2345251_-	DUF2597 family protein	U3PCG7	Vibrio_phage	1.3e-82	100.0
WP_000312540.1\|2345250_2346360_-	DUF2586 family protein	U3PB71	Vibrio_phage	1.5e-209	100.0
WP_000461677.1\|2346361_2347021_-	phage virion morphogenesis protein	U3PDG7	Vibrio_phage	9.1e-117	100.0
WP_000122189.1\|2347007_2347496_-	hypothetical protein	U3PIL4	Vibrio_phage	1.6e-89	100.0
WP_000493401.1\|2347492_2347954_-\|head	head completion/stabilization protein	U3PFL1	Vibrio_phage	1.5e-78	100.0
WP_000059165.1\|2348060_2348777_-\|terminase	terminase endonuclease subunit	U3PCG2	Vibrio_phage	1.3e-132	100.0
WP_000078361.1\|2348792_2349803_-\|capsid	phage major capsid protein, P2 family	U3PB67	Vibrio_phage	7.0e-193	100.0
WP_001127095.1\|2349839_2350739_-\|capsid	GPO family capsid scaffolding protein	A0A160DHM4	Vibrio_phage	4.0e-123	100.0
WP_000331803.1\|2350912_2352730_+\|terminase	terminase ATPase subunit family protein	U3PIL1	Vibrio_phage	0.0e+00	100.0
WP_001999948.1\|2352726_2353773_+\|portal	phage portal protein	U3PFK6	Vibrio_phage	5.7e-206	100.0
WP_000729650.1\|2353756_2353972_+	hypothetical protein	U3PCF7	Vibrio_phage	3.1e-34	100.0
WP_001263191.1\|2354042_2354294_+	ogr/Delta-like zinc finger family protein	U3PB63	Vibrio_phage	1.9e-43	100.0
WP_001292395.1\|2354294_2354540_-	hypothetical protein	U3PDF9	Vibrio_phage	1.5e-37	100.0
WP_001140408.1\|2354777_2355116_+	helix-turn-helix transcriptional regulator	U3PIK7	Vibrio_phage	2.8e-53	100.0
WP_000756239.1\|2355189_2355726_-	DUF262 domain-containing protein	U3PFK3	Vibrio_phage	4.1e-99	100.0
WP_001909657.1\|2355735_2358321_-	replication endonuclease	A0A166YHE2	Vibrio_phage	0.0e+00	99.9
WP_000613058.1\|2358317_2358902_-	hypothetical protein	U3PB60	Vibrio_phage	3.2e-105	100.0
WP_000629095.1\|2358898_2359009_-	hypothetical protein	NA	NA	NA	NA
WP_000099608.1\|2359005_2359623_-	DNA methyltransferase	U3PDF3	Vibrio_phage	1.2e-118	100.0
WP_001198814.1\|2359619_2359847_-	hypothetical protein	U3PIK2	Vibrio_phage	3.2e-37	100.0
WP_000997540.1\|2360096_2360507_-	hypothetical protein	U3PCE8	Vibrio_phage	1.8e-75	100.0
WP_001031152.1\|2360503_2361037_-	hypothetical protein	U3PB56	Vibrio_phage	3.9e-86	100.0
WP_001272765.1\|2361118_2361553_-	hypothetical protein	U3PDF0	Vibrio_phage	2.8e-74	100.0
WP_000253093.1\|2361565_2362105_-	hypothetical protein	U3PIJ8	Vibrio_phage	5.5e-96	100.0
WP_000959026.1\|2362215_2362428_-	hypothetical protein	U3PFJ1	Vibrio_phage	6.4e-32	100.0
WP_001881894.1\|2362573_2363221_+	phage repressor protein CI	A0A166YHA0	Vibrio_phage	1.1e-119	100.0
WP_000132153.1\|2363246_2364152_+	NAD-dependent DNA ligase	U3PB51	Vibrio_phage	1.3e-161	100.0
WP_000985033.1\|2364151_2364565_+	hypothetical protein	U3PDE6	Vibrio_phage	8.9e-70	100.0
WP_000116333.1\|2364564_2365602_+\|integrase	site-specific integrase	U3PIJ4	Vibrio_phage	1.5e-198	100.0
2365812:2365835	attR	NA	NA	NA	NA

DBSCAN-SWA_5

2454174 : 2460791

Staphylococcus_phage(66.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000864130.1\|2454174_2454645_-	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	6.8e-34	48.7
WP_001122865.1\|2454909_2456019_-	bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	A0A2H4PQS2	Staphylococcus_phage	6.7e-64	39.8
WP_000493874.1\|2456059_2456713_-	riboflavin synthase	A0A2H4PQS5	Staphylococcus_phage	1.2e-31	38.2
WP_001131994.1\|2456717_2457821_-	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A2H4PQS8	Staphylococcus_phage	1.3e-43	33.1
WP_000543544.1\|2457846_2458296_-	transcriptional regulator NrdR	NA	NA	NA	NA
WP_001890340.1\|2458395_2459649_-	glutamate-5-semialdehyde dehydrogenase	A0A1X9I5D4	Streptococcus_phage	5.0e-100	49.5
WP_000210573.1\|2459657_2460791_-	glutamate 5-kinase	A0A1X9I5D0	Streptococcus_phage	1.4e-64	40.4

Anti-CRISPR protein detection

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