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_CP013313	Vibrio cholerae strain E9120 chromosome 1, complete sequence	0 crisprs	DEDDh,DinG,csa3,cas3,WYL,csx1,RT	0	0	4	0
NZ_CP013314	Vibrio cholerae strain E9120 chromosome 2	0 crisprs	Cas9_archaeal,RT,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

558772 : 631485

Vibrio_phage(73.77%)

plate,tail,transposase,head,tRNA,integrase

attL 557355:557368|attR 577850:577863

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
557355:557368	attL	NA	NA	NA	NA
WP_001129562.1\|558772_560014_-\|integrase	tyrosine-type recombinase/integrase	A0A1V0E8G8	Vibrio_phage	1.4e-105	47.3
WP_000372618.1\|560399_562277_-	RNA polymerase sigma factor RpoD	A0A2I7SAT0	Vibrio_phage	1.5e-34	32.9
WP_000907210.1\|562375_564139_-	DNA primase	A0A1S5RG58	Helicobacter_phage	1.1e-44	30.7
WP_001173892.1\|564228_564672_-	GatB/YqeY domain-containing protein	A0A292GL36	Xanthomonas_phage	3.7e-29	49.3
WP_001145625.1\|564701_564917_-	30S ribosomal protein S21	NA	NA	NA	NA
WP_001220122.1\|565157_566177_+\|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex transferase subunit TsaD	A0A0R6PI74	Moraxella_phage	2.6e-107	57.4
WP_001087495.1\|566330_567143_+	alpha/beta fold hydrolase	NA	NA	NA	NA
WP_000188027.1\|567191_567818_-	glycerol-3-phosphate 1-O-acyltransferase PlsY	NA	NA	NA	NA
WP_000361954.1\|568006_568360_+	bifunctional dihydroneopterin aldolase/7,8-dihydroneopterin epimerase	NA	NA	NA	NA
WP_000627006.1\|568356_568863_+	2-amino-4-hydroxy-6- hydroxymethyldihydropteridine diphosphokinase	NA	NA	NA	NA
WP_000119813.1\|568859_569663_+	undecaprenyl-diphosphate phosphatase	NA	NA	NA	NA
WP_001263189.1\|569777_570062_+	cell division protein FtsB	NA	NA	NA	NA
WP_001061951.1\|570058_570757_+	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase	NA	NA	NA	NA
WP_000619209.1\|570753_571230_+	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase	NA	NA	NA	NA
WP_000129752.1\|571259_572345_+\|tRNA	tRNA pseudouridine(13) synthase TruD	NA	NA	NA	NA
WP_000698379.1\|572346_573099_+	5'/3'-nucleotidase SurE	A0A1B1ITZ2	uncultured_Mediterranean_phage	8.0e-69	53.3
WP_000002982.1\|573091_573718_+	protein-L-isoaspartate(D-aspartate) O-methyltransferase	A0A1B1IU40	uncultured_Mediterranean_phage	2.0e-36	52.1
WP_000177568.1\|573717_574653_+	murein hydrolase activator NlpD	D7RWE0	Brochothrix_phage	7.8e-05	34.7
WP_000116737.1\|574726_575734_+	RNA polymerase sigma factor RpoS	F4YCU2	Synechococcus_phage	6.0e-35	34.2
WP_001894770.1\|575826_578415_-	DNA mismatch repair protein MutS	A0A1V0SC35	Catovirus	2.2e-33	23.0
577850:577863	attR	NA	NA	NA	NA
WP_001279365.1\|578682_579570_-	cysteine synthase CysM	A0A1X9I5K7	Streptococcus_phage	4.1e-56	41.1
WP_001079835.1\|579953_580955_+	thiosulfate ABC transporter substrate-binding protein CysP	NA	NA	NA	NA
WP_000531810.1\|581031_581883_+	sulfate/thiosulfate ABC transporter permease CysT	NA	NA	NA	NA
WP_000951362.1\|581893_582757_+	sulfate ABC transporter permease subunit CysW	NA	NA	NA	NA
WP_000027776.1\|582753_583884_+	sulfate/molybdate ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	3.3e-34	37.7
WP_000853811.1\|584050_584557_+	nicotinamide-nucleotide amidase	B5TK85	Pseudomonas_phage	4.0e-24	42.0
WP_000344154.1\|584690_585755_+	recombinase RecA	A0A2D1GPX2	Mycobacterium_phage	1.9e-111	60.4
WP_000006855.1\|585887_586346_+	recombination regulator RecX	NA	NA	NA	NA
WP_000481017.1\|586518_589101_+\|tRNA	alanine--tRNA ligase	A0A1V0SK38	Klosneuvirus	1.6e-76	37.0
WP_001883372.1\|589304_590492_+	aspartate kinase	NA	NA	NA	NA
WP_000906485.1\|590583_590781_+	carbon storage regulator CsrA	A0A2I7RT00	Vibrio_phage	4.0e-12	66.7
WP_000148780.1\|592351_592612_+	oxaloacetate decarboxylase subunit gamma	NA	NA	NA	NA
WP_000042727.1\|592646_594434_+	sodium-extruding oxaloacetate decarboxylase subunit alpha	NA	NA	NA	NA
WP_000348847.1\|594443_595574_+	sodium ion-translocating decarboxylase subunit beta	NA	NA	NA	NA
WP_071917789.1\|596609_597149_-	hypothetical protein	H9C146	Vibrio_phage	1.2e-29	58.5
WP_071917790.1\|597148_598393_-	hypothetical protein	H9C145	Vibrio_phage	2.6e-141	66.4
WP_000510163.1\|598392_598980_-	DUF2313 domain-containing protein	A0A2I7S9L6	Vibrio_phage	2.1e-93	79.5
WP_071917791.1\|598964_600032_-\|plate	baseplate J/gp47 family protein	A0A2I7S9E5	Vibrio_phage	8.0e-147	71.8
WP_000095018.1\|600021_600471_-	phage GP46 family protein	M4MB61	Vibrio_phage	1.1e-54	73.6
WP_050401618.1\|600473_601055_-\|plate	phage baseplate assembly protein V	M4MCP6	Vibrio_phage	2.1e-72	72.6
WP_071917792.1\|601084_602161_-\|tail	phage tail protein	M4M9L5	Vibrio_phage	4.1e-159	75.6
WP_071917793.1\|602153_603473_-	DNA circularization N-terminal domain-containing protein	A0A2I7S9E8	Vibrio_phage	5.0e-167	68.0
WP_071917794.1\|603484_605242_-\|tail	phage tail tape measure protein	M4MHE6	Vibrio_phage	6.0e-208	67.3
WP_071917795.1\|605367_605712_-\|tail	phage tail assembly protein	M4MB64	Vibrio_phage	1.4e-44	80.5
WP_000024434.1\|605711_606065_-\|tail	phage tail tube protein	A0A2I7S9D5	Vibrio_phage	8.7e-42	68.4
WP_071917796.1\|606079_607564_-\|tail	phage tail sheath subtilisin-like domain-containing protein	M1Q565	Vibrio_phage	7.8e-209	72.9
WP_071917797.1\|607566_607758_-	DUF2635 domain-containing protein	NA	NA	NA	NA
WP_000431250.1\|607765_607993_-	hypothetical protein	A0A076G7K2	Pseudoalteromonas_phage	1.5e-23	73.3
WP_032474387.1\|608007_608607_-	hypothetical protein	M4MHF0	Vibrio_phage	2.4e-68	61.2
WP_071917798.1\|608603_609146_-	phage virion morphogenesis protein	A0A2I7S9D7	Vibrio_phage	1.2e-69	71.5
WP_071917799.1\|609145_609580_-	DUF1320 domain-containing protein	A0A2I7S9E9	Vibrio_phage	5.5e-62	81.2
WP_071917800.1\|609585_610161_-	hypothetical protein	M4M9M3	Vibrio_phage	1.5e-19	45.7
WP_071917801.1\|610227_611127_-\|head	Mu-like prophage major head subunit gpT family protein	M4MB71	Vibrio_phage	3.0e-147	82.1
WP_071917802.1\|611129_612086_-	peptidase	M1Q578	Vibrio_phage	2.1e-98	59.5
WP_071917803.1\|612418_612703_-	hypothetical protein	NA	NA	NA	NA
WP_071917804.1\|612702_613338_-	hypothetical protein	A0A1V0E8A2	Vibrio_phage	3.0e-40	47.3
WP_071917805.1\|613334_613847_-	hypothetical protein	A0A0F6N5P8	Escherichia_phage	1.4e-32	47.5
WP_000246042.1\|613843_614092_-	hypothetical protein	NA	NA	NA	NA
WP_001125594.1\|614103_614877_-	hypothetical protein	M1PVV7	Vibrio_phage	1.8e-116	76.3
WP_071917806.1\|614869_616429_-	DUF935 domain-containing protein	M4M9P3	Vibrio_phage	6.0e-228	75.9
WP_071917807.1\|616425_617991_-	hypothetical protein	M4MHG0	Vibrio_phage	4.5e-231	78.2
WP_000492645.1\|617994_618189_-	hypothetical protein	M4MB75	Vibrio_phage	1.9e-14	68.4
WP_071917808.1\|618189_618771_-	DUF3486 family protein	M4MCR3	Vibrio_phage	2.7e-64	70.5
WP_000008606.1\|618782_619073_-	hypothetical protein	A0A2I7S9D8	Vibrio_phage	3.9e-40	82.3
WP_000230647.1\|619081_619384_-	DUF2730 family protein	M4M9P7	Vibrio_phage	3.6e-20	51.5
WP_001281318.1\|619383_619614_-	TraR/DksA C4-type zinc finger protein	M4MHG5	Vibrio_phage	1.1e-18	63.2
WP_001120999.1\|619610_620210_-	hypothetical protein	M1NVP4	Vibrio_phage	4.5e-46	57.3
WP_071917809.1\|620472_621039_-	N-acetylmuramidase	A0A2I7S9B9	Vibrio_phage	8.2e-66	68.3
WP_001029055.1\|621123_621540_-	hypothetical protein	M4MHG9	Vibrio_phage	6.3e-31	50.0
WP_000837431.1\|621618_622065_-	hypothetical protein	NA	NA	NA	NA
WP_000040559.1\|622054_622600_-	regulatory protein GemA	A0A2I7S9B8	Vibrio_phage	1.8e-54	58.8
WP_071917822.1\|622612_622891_-	hypothetical protein	NA	NA	NA	NA
WP_000466683.1\|623094_623328_-	hypothetical protein	M4M9N5	Vibrio_phage	8.3e-25	67.5
WP_071917810.1\|623408_623618_-	SEC-C domain-containing protein	A0A2I7S9A6	Vibrio_phage	1.6e-14	56.2
WP_071917811.1\|623621_624158_-	hypothetical protein	A0A0M3LPP6	Mannheimia_phage	2.2e-28	42.9
WP_071917812.1\|624154_624625_-	hypothetical protein	M4MHH2	Vibrio_phage	8.6e-45	61.5
WP_000414665.1\|624621_624819_-	hypothetical protein	NA	NA	NA	NA
WP_000551393.1\|624802_625045_-	hypothetical protein	M4MCS5	Vibrio_phage	4.2e-19	62.0
WP_000512064.1\|625037_625310_-	hypothetical protein	A0A2I7S9G2	Vibrio_phage	2.9e-21	61.2
WP_071917813.1\|625319_625928_-	DUF3164 family protein	M4MHH7	Vibrio_phage	1.5e-86	79.6
WP_071917814.1\|625920_626193_-	hypothetical protein	NA	NA	NA	NA
WP_046126512.1\|626179_626377_-	hypothetical protein	NA	NA	NA	NA
WP_071917815.1\|626342_626717_-	hypothetical protein	M4MB90	Vibrio_phage	2.7e-25	59.6
WP_071917816.1\|626726_627143_-	hypothetical protein	NA	NA	NA	NA
WP_070381230.1\|627152_627377_-	hypothetical protein	NA	NA	NA	NA
WP_000800334.1\|627384_628329_-	AAA family ATPase	M4M9P4	Vibrio_phage	1.1e-126	73.7
WP_071917817.1\|628355_630359_-\|transposase	Mu transposase C-terminal domain-containing protein	A0A2I7S9A8	Vibrio_phage	8.5e-275	69.6
WP_000373567.1\|630370_630595_-	helix-turn-helix domain-containing protein	M1PVU4	Vibrio_phage	2.3e-16	61.9
WP_071917818.1\|630747_631485_+	transcriptional regulator	A0A2I7S9A5	Vibrio_phage	4.0e-81	59.9

DBSCAN-SWA_2

846432 : 853625

Faustovirus(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000775253.1\|846432_847647_+	IscS subfamily cysteine desulfurase	A0A0H3TPH2	Faustovirus	1.1e-32	30.5
WP_000331703.1\|847683_848067_+	Fe-S cluster assembly scaffold IscU	A0A218MKD1	uncultured_virus	5.4e-53	78.2
WP_000301571.1\|848127_848451_+	iron-sulfur cluster assembly protein IscA	A0A2H4N7N5	Lake_Baikal_phage	3.0e-25	50.5
WP_001105747.1\|848499_849015_+	co-chaperone HscB	NA	NA	NA	NA
WP_001196560.1\|849038_850889_+	Fe-S protein assembly chaperone HscA	A0A0N9QXN8	Chrysochromulina_ericina_virus	5.3e-106	41.1
WP_001124187.1\|850902_851241_+	ISC system 2Fe-2S type ferredoxin	NA	NA	NA	NA
WP_000872176.1\|851289_851484_+	Fe-S cluster assembly protein IscX	NA	NA	NA	NA
WP_000107237.1\|851703_852993_+	aminopeptidase PepB	Q6GYZ8	Mycoplasma_phage	1.7e-34	34.3
WP_001162850.1\|853196_853625_+	nucleoside-diphosphate kinase	D2E8E1	Anguillid_herpesvirus	1.0e-20	38.4

DBSCAN-SWA_3

1550703 : 1578495

Vibrio_phage(61.54%)

coat

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_149591715.1\|1550703_1552809_-	RTX toxin T1SS ABC transporter subunit RtxB	W8CYL7	Bacillus_phage	4.9e-39	27.1
WP_001906284.1\|1553235_1553583_+	hypothetical protein	NA	NA	NA	NA
WP_001881196.1\|1553608_1554070_+	RTX toxin-activating lysine-acyltransferase RtxC	NA	NA	NA	NA
WP_000517826.1\|1554093_1567731_+	MARTX multifunctional-autoprocessing repeats-in-toxin holotoxin RtxA	B3Y8K3	Vibrio_virus	8.4e-07	100.0
WP_000593522.1\|1568188_1568563_-	cholera enterotoxin binding subunit CtxB	Q77DH7	Vibrio_virus	7.8e-65	100.0
WP_001881225.1\|1568559_1569336_-	cholera enterotoxin catalytic subunit CtxA	A0A142I6Y0	Vibrio_phage	1.3e-151	100.0
WP_000021616.1\|1569434_1570634_-	zonula occludens toxin ZOT	A0A142I6Z1	Vibrio_phage	5.3e-240	100.0
WP_000979342.1\|1570630_1570924_-	accessory cholera enterotoxin	A0A0F6YNQ7	Vibrio_phage	3.7e-46	100.0
WP_001268534.1\|1570920_1572108_-\|coat	minor coat protein pIII	A0A142I701	Vibrio_phage	1.4e-200	100.0
WP_000493022.1\|1572214_1572463_-	colonization factor	A0A0N7F140	Vibrio_phage	8.8e-33	100.0
WP_001911548.1\|1572598_1572958_-	hypothetical protein	A0A0N9HE73	Vibrio_phage	4.4e-65	100.0
WP_000693566.1\|1574165_1574504_+	helix-turn-helix transcriptional regulator	U5TNA1	Satellite_phage	7.3e-54	100.0
WP_000170634.1\|1574993_1575578_-	DNA-binding protein	E3U9I9	Vibrio_phage	6.4e-114	100.0
WP_001161489.1\|1575570_1575738_-	hypothetical protein	E3U9J0	Vibrio_phage	2.3e-13	100.0
WP_001052672.1\|1575815_1576508_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_000512956.1\|1576637_1576907_-	hypothetical protein	NA	NA	NA	NA
WP_001881266.1\|1576926_1578495_-	replication protein	A7BJY2	Enterobacteria_phage	2.7e-58	32.3

DBSCAN-SWA_4

2423327 : 2429944

Staphylococcus_phage(66.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000864130.1\|2423327_2423798_-	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	6.8e-34	48.7
WP_001122865.1\|2424062_2425172_-	bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	A0A2H4PQS2	Staphylococcus_phage	6.7e-64	39.8
WP_000493874.1\|2425212_2425866_-	riboflavin synthase	A0A2H4PQS5	Staphylococcus_phage	1.2e-31	38.2
WP_001131994.1\|2425870_2426974_-	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A2H4PQS8	Staphylococcus_phage	1.3e-43	33.1
WP_000543544.1\|2426999_2427449_-	transcriptional regulator NrdR	NA	NA	NA	NA
WP_000366574.1\|2427548_2428799_-	glutamate-5-semialdehyde dehydrogenase	A0A1X9I5D4	Streptococcus_phage	5.0e-100	49.5
WP_000210573.1\|2428810_2429944_-	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