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_CP015582	Tatumella citrea strain ATCC 39140 plasmid unnamed, complete sequence	0 crisprs	NA	0	0	0	0
NZ_CP015581	Tatumella citrea strain ATCC 39140 chromosome, complete genome	0 crisprs	cas3,csa3,DEDDh,DinG	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

1405342 : 1415125

Planktothrix_phage(16.67%)

protease

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_087490396.1\|1405342_1406071_-	arginine ABC transporter ATP-binding protein ArtP	G9BWD6	Planktothrix_phage	5.4e-30	36.2
WP_087487861.1\|1406248_1407073_+	N-acetylmuramoyl-L-alanine amidase	A0A0F6R5Z1	Sinorhizobium_phage	1.4e-10	29.1
WP_087490397.1\|1407093_1408095_-	low-specificity L-threonine aldolase	NA	NA	NA	NA
WP_087487862.1\|1408160_1409882_-	ubiquinone-dependent pyruvate dehydrogenase	G8DDL3	Micromonas_pusilla_virus	3.9e-26	23.1
WP_087487863.1\|1410249_1411884_+	DUF2813 domain-containing protein	NA	NA	NA	NA
WP_087487864.1\|1411934_1412162_-	cold shock domain-containing protein CspD	A0A2H4N7Y6	Lake_Baikal_phage	1.4e-16	62.7
WP_038019755.1\|1412466_1412790_+\|protease	ATP-dependent Clp protease adapter ClpS	A0A1B1IT64	uncultured_Mediterranean_phage	1.1e-14	44.9
WP_087487865.1\|1412842_1415125_+\|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	A0A223W0B1	Agrobacterium_phage	1.8e-164	41.1

DBSCAN-SWA_2

1804346 : 1814899

Tupanvirus(12.5%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_087488181.1\|1804346_1806275_+\|tRNA	threonine--tRNA ligase	A0A2K9L297	Tupanvirus	1.4e-125	36.5
WP_087488182.1\|1806278_1806821_+	translation initiation factor IF-3	A0A2L0UZ54	Agrobacterium_phage	7.4e-16	31.9
WP_011146889.1\|1806919_1807117_+	50S ribosomal protein L35	NA	NA	NA	NA
WP_038020526.1\|1807159_1807516_+	50S ribosomal protein L20	NA	NA	NA	NA
WP_156994596.1\|1807639_1807684_+	pheST operon leader peptide PheM	NA	NA	NA	NA
WP_087488184.1\|1807832_1808816_+\|tRNA	phenylalanine--tRNA ligase subunit alpha	A0A2H4UW22	Bodo_saltans_virus	2.0e-35	38.4
WP_087488185.1\|1808830_1811218_+\|tRNA	phenylalanine--tRNA ligase subunit beta	A0A1L3IZU3	BeAn_58058_virus	2.8e-06	27.8
WP_038020529.1\|1811222_1811522_+	integration host factor subunit alpha	A0A0H3UZA0	Geobacillus_virus	4.2e-13	40.0
WP_087488186.1\|1811786_1812248_+	endopeptidase	A0A1V0DZX6	Clostridioides_phage	3.5e-14	37.1
WP_087490431.1\|1812396_1813836_+	YdiU family protein	A0A075BSJ0	Microcystis_phage	2.2e-59	37.5
WP_087490432.1\|1813852_1814899_-	3-deoxy-7-phosphoheptulonate synthase	S4W5F1	Pandoravirus	3.3e-81	46.6

DBSCAN-SWA_3

2687012 : 2731104

Cronobacter_phage(32.56%)

lysis,tail,terminase,head,coat

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_087488912.1\|2687012_2689091_-	hypothetical protein	A0A2H5BN49	Klebsiella_phage	2.1e-42	34.5
WP_087488913.1\|2689158_2691636_-\|tail	phage tail protein	F1C5A7	Cronobacter_phage	7.9e-198	44.4
WP_087488914.1\|2691622_2692018_-	C40 family peptidase	F1C5F2	Cronobacter_phage	8.0e-36	52.3
WP_087488915.1\|2692014_2692485_-	hypothetical protein	F1C5F1	Cronobacter_phage	1.2e-25	39.2
WP_087488916.1\|2692484_2692958_-	hypothetical protein	F1C5F0	Cronobacter_phage	1.0e-45	59.6
WP_087488917.1\|2693015_2693555_-	hypothetical protein	NA	NA	NA	NA
WP_087488918.1\|2693554_2696623_-	hypothetical protein	F1C5E9	Cronobacter_phage	3.5e-86	38.5
WP_087488919.1\|2696685_2697531_-	hypothetical protein	Q7Y5V4	Haemophilus_phage	1.5e-52	55.1
WP_087488920.1\|2697597_2697744_-	Arc family DNA-binding protein	A0A0M4S6R9	Salmonella_phage	5.6e-11	68.9
WP_087488921.1\|2697839_2698091_+	Arc family DNA-binding protein	A5VW59	Enterobacteria_phage	2.4e-25	74.7
WP_087488922.1\|2698087_2698486_+	hypothetical protein	NA	NA	NA	NA
WP_087490499.1\|2698534_2698915_-	hypothetical protein	NA	NA	NA	NA
WP_157665952.1\|2699186_2699567_+	hypothetical protein	H6WRU4	Salmonella_phage	1.3e-11	34.4
WP_087488924.1\|2699585_2700254_-	hypothetical protein	G0ZNE7	Cronobacter_phage	5.3e-72	58.2
WP_087488925.1\|2700307_2701069_-	DNA breaking-rejoining protein	G0ZNE6	Cronobacter_phage	3.2e-57	56.8
WP_087488926.1\|2701133_2701523_-	hypothetical protein	F1C5E4	Cronobacter_phage	2.6e-39	59.7
WP_087488927.1\|2701519_2701963_-	hypothetical protein	A0A2P1MXA4	Escherichia_phage	1.5e-30	50.0
WP_087488928.1\|2701964_2702312_-	hypothetical protein	G0ZNE2	Cronobacter_phage	8.3e-37	62.6
WP_087490500.1\|2702308_2702479_-	50S ribosomal protein L13	Q5G8X7	Enterobacteria_phage	5.9e-12	46.4
WP_087488929.1\|2702478_2702856_-	hypothetical protein	A0A0M3LQS8	Mannheimia_phage	3.3e-23	46.4
WP_087488930.1\|2702858_2703221_-	hypothetical protein	NA	NA	NA	NA
WP_087488931.1\|2703230_2704307_-\|coat	phage coat protein	F1C5E1	Cronobacter_phage	2.1e-118	60.2
WP_087488932.1\|2704317_2704758_-	hypothetical protein	F1C5E0	Cronobacter_phage	4.0e-44	66.4
WP_087488933.1\|2704764_2705967_-	DUF2213 domain-containing protein	F1C5D9	Cronobacter_phage	5.7e-93	44.7
WP_087488934.1\|2705986_2706898_-\|head	phage head morphogenesis protein	F1C5D8	Cronobacter_phage	8.4e-97	57.2
WP_087488935.1\|2706929_2708312_-	DUF1073 domain-containing protein	F1C5D7	Cronobacter_phage	4.0e-167	63.7
WP_087488936.1\|2708395_2709691_-\|terminase	terminase	A0A1V0E5Q3	Salmonella_phage	5.0e-236	91.1
WP_087488937.1\|2709674_2710106_-\|terminase	terminase small subunit	A0A1V0E5Q4	Salmonella_phage	5.8e-56	79.6
WP_087488938.1\|2710825_2711185_-	hypothetical protein	NA	NA	NA	NA
WP_087488939.1\|2711329_2711638_-	hypothetical protein	NA	NA	NA	NA
WP_087488940.1\|2711634_2712111_-\|lysis	lysis protein	Q2A095	Sodalis_phage	1.0e-08	32.2
WP_087488941.1\|2712107_2712593_-	lysozyme	A0A0M3ULD1	Salmonella_phage	2.6e-44	52.7
WP_087488942.1\|2712595_2712847_-\|lysis	lysis protein	NA	NA	NA	NA
WP_087488943.1\|2713243_2713900_-	antitermination protein	Q76H66	Enterobacteria_phage	9.8e-55	50.2
WP_087488944.1\|2714169_2714745_-	protein NinG	A0A0P0ZG59	Escherichia_phage	4.2e-33	42.7
WP_087488945.1\|2714849_2715029_-	NinE family protein	NA	NA	NA	NA
WP_087488947.1\|2715227_2715767_-	phage N-6-adenine-methyltransferase	E5AGF8	Erwinia_phage	4.7e-63	60.2
WP_087488948.1\|2715776_2716226_-	DUF1367 family protein	A0A2I7RQ46	Vibrio_phage	1.4e-47	63.1
WP_157665954.1\|2716931_2717564_-	DUF4755 domain-containing protein	NA	NA	NA	NA
WP_087488952.1\|2718938_2719637_-	DNA replication protein	A0A2H4J1B6	uncultured_Caudovirales_phage	3.8e-65	54.3
WP_087488953.1\|2719633_2720449_-	replication protein	K7PGT1	Enterobacteria_phage	6.6e-77	70.1
WP_087488954.1\|2720448_2721267_-	DNA-binding protein	A0A2H4J902	uncultured_Caudovirales_phage	6.2e-99	68.6
WP_087488955.1\|2721301_2721580_-	hypothetical protein	A0A220NRS4	Escherichia_phage	1.1e-26	64.1
WP_087488956.1\|2721683_2721899_-	helix-turn-helix domain-containing protein	Q716D6	Shigella_phage	4.0e-13	57.7
WP_087488957.1\|2721997_2722639_+	helix-turn-helix domain-containing protein	K7P850	Enterobacteria_phage	2.2e-75	63.8
WP_157665956.1\|2723130_2723781_+	type II toxin-antitoxin system MqsA family antitoxin	NA	NA	NA	NA
WP_087488959.1\|2723770_2724145_+	hypothetical protein	NA	NA	NA	NA
WP_087488961.1\|2725276_2725522_+	hypothetical protein	A0A077KC43	Edwardsiella_phage	1.6e-05	50.0
WP_157665958.1\|2725551_2725704_+	hypothetical protein	NA	NA	NA	NA
WP_157665960.1\|2725825_2725999_+	DUF551 domain-containing protein	K7PK20	Enterobacteria_phage	5.4e-05	41.2
WP_087490504.1\|2726122_2726875_+	methyltransferase	A0A1P8VVC9	Erythrobacter_phage	6.2e-37	41.8
WP_157665962.1\|2727352_2727565_+	hypothetical protein	NA	NA	NA	NA
WP_087490505.1\|2727564_2728284_+	recombinase	Q76H40	Enterobacteria_phage	1.2e-74	57.9
WP_087488964.1\|2728284_2728806_+	single-stranded DNA-binding protein	A0A220NRQ8	Escherichia_phage	7.0e-56	77.5
WP_087488965.1\|2728819_2729206_+	hypothetical protein	NA	NA	NA	NA
WP_087490506.1\|2729296_2729833_+	hypothetical protein	J9Q748	Salmonella_phage	1.3e-68	68.5
WP_087488966.1\|2729829_2730027_+	hypothetical protein	NA	NA	NA	NA
WP_087488967.1\|2730023_2730524_+	hypothetical protein	NA	NA	NA	NA
WP_087488968.1\|2730523_2730841_+	hypothetical protein	NA	NA	NA	NA
WP_087488969.1\|2730840_2731104_+	hypothetical protein	S4TNB5	Salmonella_phage	2.1e-32	74.7

DBSCAN-SWA_4

3834588 : 3899165

Staphylococcus_phage(10.0%)

tRNA,integrase,transposase

attL 3835328:3835342|attR 3853797:3853811

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_157666013.1\|3834588_3835699_+\|transposase	IS3 family transposase	A0A0N9SIX5	Staphylococcus_phage	6.4e-06	29.7
3835328:3835342	attL	NA	NA	NA	NA
WP_087489832.1\|3835853_3836330_-	protein kinase	NA	NA	NA	NA
WP_087489833.1\|3836322_3838332_-\|integrase	integrase	NA	NA	NA	NA
WP_087489834.1\|3838324_3839908_-\|integrase	tyrosine-type recombinase/integrase	NA	NA	NA	NA
WP_087489835.1\|3839913_3841086_-\|integrase	tyrosine-type recombinase/integrase	NA	NA	NA	NA
WP_087489836.1\|3841306_3841843_-	single-stranded DNA-binding protein	A0A0A0P1Q9	Enterobacteria_phage	1.6e-50	90.7
WP_087489837.1\|3842308_3845140_+	excinuclease ABC subunit UvrA	A0A1B1IVR3	uncultured_Mediterranean_phage	1.0e-310	55.5
WP_087489838.1\|3845332_3846397_+	NAD(P)-dependent alcohol dehydrogenase	A0A2K9L339	Tupanvirus	1.1e-82	45.8
WP_087489839.1\|3846485_3847379_-	LysR family transcriptional regulator	NA	NA	NA	NA
WP_087489840.1\|3847484_3848480_+	aldo/keto reductase	A0A2I2L334	Orpheovirus	3.0e-07	25.6
WP_087490582.1\|3848530_3849454_-	LysR family transcriptional regulator	NA	NA	NA	NA
WP_087489841.1\|3849558_3849948_+	tautomerase family protein	NA	NA	NA	NA
WP_087489842.1\|3850265_3851279_+	LacI family DNA-binding transcriptional regulator	NA	NA	NA	NA
WP_087490583.1\|3851604_3852813_-	aspartate/tyrosine/aromatic aminotransferase	NA	NA	NA	NA
WP_087489843.1\|3852843_3853464_-	YitT family protein	NA	NA	NA	NA
WP_087489844.1\|3853709_3854192_-	Lrp/AsnC family transcriptional regulator	NA	NA	NA	NA
3853797:3853811	attR	NA	NA	NA	NA
WP_087489845.1\|3854291_3855698_-	replicative DNA helicase	A0A1B0VG30	Salmonella_phage	1.6e-195	77.5
WP_087489846.1\|3855808_3856792_+	quinone oxidoreductase	NA	NA	NA	NA
WP_087489847.1\|3857000_3857276_-	envelope stress response protein PspG	NA	NA	NA	NA
WP_087489848.1\|3857466_3858501_-\|tRNA	tRNA dihydrouridine(20/20a) synthase DusA	NA	NA	NA	NA
WP_087489850.1\|3859076_3860030_+	glycosyltransferase	NA	NA	NA	NA
WP_087489851.1\|3860174_3860693_+	zinc uptake transcriptional repressor Zur	NA	NA	NA	NA
WP_087489852.1\|3860710_3862033_-	MATE family efflux transporter DinF	NA	NA	NA	NA
WP_087489853.1\|3862205_3862820_-	repressor LexA	Q9G0C2	Lactococcus_phage	1.3e-13	38.9
WP_087489854.1\|3862928_3863294_-	diacylglycerol kinase	NA	NA	NA	NA
WP_087489855.1\|3863426_3865856_+	glycerol-3-phosphate 1-O-acyltransferase PlsB	NA	NA	NA	NA
WP_087490584.1\|3865929_3866814_-	4-hydroxybenzoate octaprenyltransferase	NA	NA	NA	NA
WP_087489856.1\|3866822_3867350_-	chorismate lyase	NA	NA	NA	NA
WP_087489857.1\|3867509_3867935_-	phosphate-starvation-inducible protein PsiE	NA	NA	NA	NA
WP_087489858.1\|3868084_3869731_-	glucose-6-phosphate isomerase	NA	NA	NA	NA
WP_087489859.1\|3869931_3871743_+	sodium:proton antiporter	NA	NA	NA	NA
WP_087489860.1\|3872075_3873431_+	lysine-sensitive aspartokinase 3	NA	NA	NA	NA
WP_087489861.1\|3873687_3874605_+	ketopantoate/pantoate/pantothenate transporter PanS	NA	NA	NA	NA
WP_087489862.1\|3874646_3876272_-	Na/Pi cotransporter family protein	NA	NA	NA	NA
WP_157666015.1\|3876273_3876426_-	hypothetical protein	NA	NA	NA	NA
WP_087489863.1\|3876436_3877429_-	ABC transporter ATP-binding protein	G3M9Y6	Bacillus_virus	2.8e-29	34.6
WP_087489864.1\|3877437_3878217_-	ABC transporter permease	NA	NA	NA	NA
WP_087489865.1\|3878228_3879074_-	ABC transporter permease subunit	NA	NA	NA	NA
WP_087489866.1\|3879070_3879892_-	alkaline phosphatase family protein	NA	NA	NA	NA
WP_087489867.1\|3879916_3880978_-	extracellular solute-binding protein	NA	NA	NA	NA
WP_087490585.1\|3881228_3881909_+	UTRA domain-containing protein	NA	NA	NA	NA
WP_087489868.1\|3881986_3882988_+	L-glyceraldehyde 3-phosphate reductase	NA	NA	NA	NA
WP_087489869.1\|3883007_3883937_-	homoserine O-succinyltransferase	NA	NA	NA	NA
WP_087489870.1\|3884043_3884895_-	LysR family transcriptional regulator	A0A2P0ZL89	Lactobacillus_phage	3.6e-09	21.5
WP_087490586.1\|3885118_3886237_+	M20 family metallopeptidase	NA	NA	NA	NA
WP_087489871.1\|3886253_3887042_+	transporter substrate-binding domain-containing protein	NA	NA	NA	NA
WP_087487838.1\|3887123_3888446_-\|transposase	IS4 family transposase	NA	NA	NA	NA
WP_087489873.1\|3894895_3896491_+	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase	Q58MG4	Prochlorococcus_phage	7.7e-69	49.5
WP_087489874.1\|3896510_3897794_+	phosphoribosylamine--glycine ligase	NA	NA	NA	NA
WP_087487838.1\|3897842_3899165_-\|transposase	IS4 family transposase	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