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
CP026568	Pseudomonas syringae pv. syringae strain Pss9097 chromosome, complete genome	0 crisprs	cas3,DEDDh,csa3,DinG,RT	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

2098598 : 2137606

uncultured_Caudovirales_phage(75.0%)

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

attL 2099610:2099625|attR 2140091:2140106

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
AVB25365.1\|2098598_2098868_-	Pyocin activator protein PrtN	A0A2K8HN48	Pseudomonas_phage	2.5e-20	59.1
AVB28502.1\|2098864_2099530_-	hypothetical protein	Q5QF30	Pseudomonas_virus	1.9e-42	47.2
2099610:2099625	attL	NA	NA	NA	NA
AVB25366.1\|2100009_2100513_-	hypothetical protein	NA	NA	NA	NA
AVB25367.1\|2100585_2101395_-	DUF2303 domain-containing protein	I3PUY7	Vibrio_phage	1.6e-43	38.4
AVB25368.1\|2101438_2101789_-	hypothetical protein	A0A0P0ZGH3	Escherichia_phage	7.4e-17	46.2
AVB25369.1\|2101838_2102081_-	transcriptional regulator	A0A2H4J8B4	uncultured_Caudovirales_phage	7.6e-21	62.5
AVB25370.1\|2102077_2102452_-	hypothetical protein	A0A2H4J897	uncultured_Caudovirales_phage	3.4e-44	71.8
AVB25371.1\|2102448_2102685_-	hypothetical protein	A0A2H4JBX5	uncultured_Caudovirales_phage	6.3e-20	60.8
AVB25372.1\|2102734_2103307_-	deoxynucleotide monophosphate kinase	A0A2H4J8A1	uncultured_Caudovirales_phage	1.0e-63	63.0
AVB25373.1\|2103303_2103498_-	hypothetical protein	NA	NA	NA	NA
AVB25374.1\|2103591_2104272_-	helix-turn-helix domain-containing protein	A0A2H4J8I0	uncultured_Caudovirales_phage	1.0e-38	54.2
AVB28503.1\|2104371_2104569_+	hypothetical protein	NA	NA	NA	NA
AVB25375.1\|2104795_2105284_+	hypothetical protein	A0A2H4JFM0	uncultured_Caudovirales_phage	2.0e-36	59.4
AVB25376.1\|2105276_2105483_+	transcriptional regulator	A0A2H4JDJ0	uncultured_Caudovirales_phage	9.0e-15	55.9
AVB25377.1\|2105479_2108173_+	DNA primase	A0A2H4JF22	uncultured_Caudovirales_phage	0.0e+00	76.2
AVB25378.1\|2108501_2108984_+	hypothetical protein	NA	NA	NA	NA
AVB25379.1\|2109235_2109559_+\|holin	phage holin, lambda family	A0A1V0DYG4	Shewanella_phage	2.3e-09	39.0
AVB25380.1\|2109555_2109942_+	hypothetical protein	NA	NA	NA	NA
AVB28504.1\|2109943_2110090_+	hypothetical protein	NA	NA	NA	NA
AVB25381.1\|2110099_2110282_-	hypothetical protein	NA	NA	NA	NA
AVB25382.1\|2110315_2110885_+\|terminase	terminase small subunit	A0A2H4JG15	uncultured_Caudovirales_phage	8.5e-63	64.8
AVB25383.1\|2110889_2112911_+\|terminase	phage terminase large subunit family protein	A0A2H4J898	uncultured_Caudovirales_phage	0.0e+00	79.2
AVB25384.1\|2112912_2114013_+	hypothetical protein	A0A2H4J898	uncultured_Caudovirales_phage	6.0e-89	50.3
AVB25385.1\|2113967_2114174_+	hypothetical protein	A0A2H4JA19	uncultured_Caudovirales_phage	1.2e-22	77.9
AVB25386.1\|2114170_2115652_+\|portal	phage portal protein	A0A2H4JFL5	uncultured_Caudovirales_phage	9.5e-223	77.6
AVB25387.1\|2115648_2116800_+\|protease	Clp protease ClpP	A0A2H4JDI2	uncultured_Caudovirales_phage	3.0e-131	66.6
AVB25388.1\|2116796_2117141_+\|head	head decoration protein	A0A2H4JF15	uncultured_Caudovirales_phage	5.0e-34	69.3
AVB25389.1\|2117228_2118224_+\|capsid	minor capsid protein E	A0A2H4J890	uncultured_Caudovirales_phage	8.8e-156	80.7
AVB25390.1\|2118226_2118541_+	hypothetical protein	A0A2H4J879	uncultured_Caudovirales_phage	9.8e-29	56.3
AVB25391.1\|2118537_2119194_+	hypothetical protein	A0A2H4JBV1	uncultured_Caudovirales_phage	2.5e-74	65.2
AVB25392.1\|2119186_2119714_+	hypothetical protein	A0A2H4J881	uncultured_Caudovirales_phage	2.6e-50	55.4
AVB25393.1\|2119713_2120298_+\|plate	phage baseplate assembly protein V	A0A2H4JG06	uncultured_Caudovirales_phage	7.4e-54	64.1
AVB25394.1\|2120341_2120620_+	hypothetical protein	NA	NA	NA	NA
AVB25395.1\|2120623_2120950_+\|plate	phage baseplate protein	A0A2H4JA09	uncultured_Caudovirales_phage	3.6e-34	64.8
AVB25396.1\|2120946_2121828_+\|plate	baseplate assembly protein	A0A2H4JFK9	uncultured_Caudovirales_phage	1.5e-103	66.4
AVB25397.1\|2121829_2122435_+\|tail	phage tail protein I	A0A2H4JDH5	uncultured_Caudovirales_phage	2.9e-77	68.5
AVB25398.1\|2122431_2124054_+\|tail	phage tail protein	A4PE45	Ralstonia_virus	1.9e-67	42.6
AVB25399.1\|2124054_2124486_+\|tail	phage tail protein	Q9ZXK5	Pseudomonas_virus	8.8e-28	45.4
AVB25400.1\|2124561_2125725_+\|tail	phage tail sheath family protein	A0A2H4J869	uncultured_Caudovirales_phage	4.9e-182	81.9
AVB25401.1\|2125737_2126247_+\|tail	phage major tail tube protein	A0A2H4JBU0	uncultured_Caudovirales_phage	7.8e-68	74.9
AVB25402.1\|2126263_2126566_+\|tail	phage tail assembly protein	NA	NA	NA	NA
AVB25403.1\|2126704_2129440_+\|tail	phage tail tape measure protein	A0A2H4JG00	uncultured_Caudovirales_phage	4.5e-101	41.4
AVB28505.1\|2129530_2130295_+\|tail	phage tail protein	A0A2H4J875	uncultured_Caudovirales_phage	4.3e-94	66.4
AVB25404.1\|2130269_2130476_+\|tail	phage tail protein	A0A2H4J9Z9	uncultured_Caudovirales_phage	1.5e-22	73.1
AVB25405.1\|2130572_2131616_+	late control protein	A0A2H4JBF6	uncultured_Caudovirales_phage	5.2e-143	75.9
AVB25406.1\|2131654_2132200_+	chitinase	A0A2H4JHX4	uncultured_Caudovirales_phage	6.9e-70	72.8
AVB25407.1\|2132403_2133198_+	restriction endonuclease subunit M	Q5ZQW7	Pseudomonas_phage	1.4e-100	66.9
AVB25408.1\|2133315_2134179_-	restriction endonuclease	NA	NA	NA	NA
AVB28506.1\|2134178_2135135_-	DNA cytosine methyltransferase	A0A191SB20	Nostoc_phage	2.0e-19	27.2
AVB25409.1\|2135354_2136485_-\|integrase	integrase	A0A2K8I325	Pseudomonas_phage	2.0e-148	69.4
AVB25410.1\|2136586_2137606_+\|tRNA	tRNA dihydrouridine(20/20a) synthase DusA	NA	NA	NA	NA
2140091:2140106	attR	NA	NA	NA	NA

DBSCAN-SWA_2

3654771 : 3665227

uncultured_Caudovirales_phage(75.0%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVB26505.1\|3654771_3655443_-	BAX inhibitor (BI)-1/YccA family protein	A0A2H4JFM9	uncultured_Caudovirales_phage	8.7e-107	92.8
AVB26506.1\|3655794_3656703_+	LysR family transcriptional regulator	NA	NA	NA	NA
AVB26507.1\|3656688_3657468_-	molybdenum ABC transporter substrate-binding protein	NA	NA	NA	NA
AVB26508.1\|3657484_3658786_-	MFS transporter	Q6JIH2	Burkholderia_virus	5.3e-60	36.0
AVB28556.1\|3659020_3659413_+	sulfurtransferase TusD	A0A2H4JA39	uncultured_Caudovirales_phage	3.7e-57	82.3
AVB26509.1\|3659414_3659777_+	sulfurtransferase complex subunit TusC	A0A2H4J8C0	uncultured_Caudovirales_phage	1.3e-35	60.8
AVB26510.1\|3659776_3660076_+	sulfurtransferase complex subunit TusB	A0A2H4JG28	uncultured_Caudovirales_phage	1.6e-28	61.6
AVB26511.1\|3660072_3660408_+	sulfurtransferase TusE	A0A2H4J8B6	uncultured_Caudovirales_phage	1.2e-43	78.4
AVB26512.1\|3660404_3661406_+	glycosyl transferase family protein	A0A2H4JBY5	uncultured_Caudovirales_phage	3.0e-164	84.5
AVB26513.1\|3661502_3662501_+	glutathione S-transferase family protein	NA	NA	NA	NA
AVB26514.1\|3662551_3663946_-	siroheme synthase	NA	NA	NA	NA
AVB26515.1\|3663946_3665227_-\|tRNA	serine--tRNA ligase	A0A1B1IVT2	uncultured_Mediterranean_phage	4.1e-97	45.8

DBSCAN-SWA_3

5300067 : 5333571

Pseudomonas_phage(57.69%)

plate,tail,tRNA,bacteriocin,lysis

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVB27884.1\|5300067_5301279_-\|tRNA	tyrosine--tRNA ligase	NA	NA	NA	NA
AVB27885.1\|5301382_5301484_+	hypothetical protein	NA	NA	NA	NA
AVB27886.1\|5301480_5302908_+	peptidase M23	A8ATH6	Listeria_phage	4.2e-18	44.7
AVB27887.1\|5302911_5304006_+	anhydro-N-acetylmuramic acid kinase	NA	NA	NA	NA
AVB27888.1\|5304068_5304419_-	iron-sulfur cluster insertion protein ErpA	A0A2H4N7M3	Lake_Baikal_phage	7.4e-25	50.5
AVB27889.1\|5304620_5305655_-	N-acetyl-gamma-glutamyl-phosphate reductase	NA	NA	NA	NA
AVB27890.1\|5305788_5306217_+	protoporphyrinogen oxidase HemJ	NA	NA	NA	NA
AVB27891.1\|5306302_5307217_+	DUF805 domain-containing protein	NA	NA	NA	NA
AVB27892.1\|5307273_5308050_+	SDR family NAD(P)-dependent oxidoreductase	NA	NA	NA	NA
AVB27893.1\|5308153_5308492_+	histidine triad nucleotide-binding protein	NA	NA	NA	NA
AVB27894.1\|5308613_5309261_+	demethoxyubiquinone hydroxylase family protein	NA	NA	NA	NA
AVB27895.1\|5309330_5310125_-	S-adenosylmethionine decarboxylase proenzyme	NA	NA	NA	NA
AVB27896.1\|5310367_5310790_-	OsmC family protein	NA	NA	NA	NA
AVB27897.1\|5310991_5311636_+	cAMP-activated global transcriptional regulator CRP	NA	NA	NA	NA
AVB27898.1\|5311647_5312343_-	lipoate--protein ligase family protein	NA	NA	NA	NA
AVB27899.1\|5312377_5313214_-	indole-3-glycerol phosphate synthase TrpC	A0A0P0IR83	Acinetobacter_phage	2.3e-69	56.5
AVB27900.1\|5313210_5314260_-	anthranilate phosphoribosyltransferase	A0A0N7IRD9	Acinetobacter_phage	1.2e-110	57.7
AVB27901.1\|5314281_5314881_-	aminodeoxychorismate/anthranilate synthase component II	A0A0P0IKJ1	Acinetobacter_phage	3.0e-74	64.7
AVB27902.1\|5315040_5315259_-	hypothetical protein	NA	NA	NA	NA
AVB28613.1\|5315292_5315790_-\|lysis	lysis protein	B5TK84	Pseudomonas_phage	4.5e-28	48.4
AVB27903.1\|5315801_5316347_-	lysozyme	A0A2H4JHX4	uncultured_Caudovirales_phage	1.2e-69	73.3
AVB27904.1\|5316457_5317003_-\|tail	phage tail protein	NA	NA	NA	NA
AVB27905.1\|5317013_5318888_-\|tail	phage tail protein	A0A077K818	Ralstonia_phage	1.7e-38	53.7
AVB27906.1\|5318898_5319498_-	DUF2313 domain-containing protein	B5TK76	Pseudomonas_phage	1.9e-84	71.9
AVB27907.1\|5319485_5320526_-\|plate	baseplate J protein	B5TK75	Pseudomonas_phage	1.2e-131	69.8
AVB27908.1\|5320515_5320914_-	hypothetical protein	B5TK74	Pseudomonas_phage	4.4e-42	62.9
AVB27909.1\|5320910_5321423_-\|plate	phage baseplate assembly protein V	B5TK73	Pseudomonas_phage	1.4e-64	73.8
AVB27910.1\|5321419_5322547_-\|plate	baseplate protein	B5TK72	Pseudomonas_phage	2.7e-113	60.2
AVB27911.1\|5322550_5323975_-	hydroxyacid dehydrogenase	B5TK71	Pseudomonas_phage	4.0e-109	46.0
AVB27912.1\|5323971_5326131_-\|tail	phage tail tape measure protein	U5P420	Shigella_phage	1.3e-71	40.2
AVB27913.1\|5326130_5326337_-	hypothetical protein	NA	NA	NA	NA
AVB27914.1\|5326261_5326558_-\|tail	phage tail assembly protein	B5TK69	Pseudomonas_phage	4.3e-34	76.0
AVB27915.1\|5326554_5326902_-\|tail	phage tail protein	B5TK68	Pseudomonas_phage	5.0e-42	70.4
AVB27916.1\|5326962_5328459_-\|tail	phage tail protein	B5TK67	Pseudomonas_phage	1.1e-234	80.5
AVB27917.1\|5328477_5328666_-	DUF2635 domain-containing protein	B5TK66	Pseudomonas_phage	1.8e-14	73.5
AVB27918.1\|5328662_5329253_-	hypothetical protein	B5TK65	Pseudomonas_phage	2.4e-52	52.6
AVB27919.1\|5329298_5329637_-	hypothetical protein	A0A059VJW1	Pseudomonas_phage	9.0e-20	59.2
AVB27920.1\|5329617_5330007_-	chemotaxis protein	A0A059VK40	Pseudomonas_phage	2.3e-43	76.4
AVB27921.1\|5330241_5331210_-\|bacteriocin	bacteriocin	NA	NA	NA	NA
AVB27922.1\|5331092_5331287_-	Com family DNA-binding transcriptional regulator	B5TK59	Pseudomonas_phage	8.8e-12	84.2
AVB27923.1\|5331559_5332003_-	hypothetical protein	A0A2H4J8A5	uncultured_Caudovirales_phage	4.6e-24	45.8
AVB27924.1\|5332114_5332804_+	peptidase	Q8HAG7	Salmonella_phage	1.8e-51	47.9
AVB27925.1\|5332958_5333207_+	DUF1654 domain-containing protein	NA	NA	NA	NA
AVB27926.1\|5333304_5333571_+	transcriptional regulator	A0A2H4J8B4	uncultured_Caudovirales_phage	2.1e-16	51.2

DBSCAN-SWA_4

5401431 : 5457259

Bacillus_virus(20.0%)

holin,protease,transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVB27979.1\|5401431_5402807_-\|transposase	IS3 family transposase	A0A1B1P773	Bacillus_phage	1.9e-76	52.8
AVB27980.1\|5403399_5405205_-	acyl-CoA dehydrogenase	NA	NA	NA	NA
AVB27981.1\|5405538_5405835_-	pyrroloquinoline quinone biosynthesis protein PqqE	NA	NA	NA	NA
AVB27982.1\|5405988_5406669_-	dethiobiotin synthase	NA	NA	NA	NA
AVB27983.1\|5406686_5407502_-	malonyl-[acyl-carrier protein] O-methyltransferase BioC	NA	NA	NA	NA
AVB27984.1\|5407494_5408226_-	transporter	NA	NA	NA	NA
AVB27985.1\|5408218_5409409_-	8-amino-7-oxononanoate synthase	NA	NA	NA	NA
AVB27986.1\|5409473_5410532_-	biotin synthase	NA	NA	NA	NA
AVB27987.1\|5410622_5411357_+	ComF family protein	NA	NA	NA	NA
AVB27988.1\|5411495_5412260_+	molybdenum-dependent transcriptional regulator	NA	NA	NA	NA
AVB27989.1\|5412338_5414258_+	PhoX family phosphatase	NA	NA	NA	NA
AVB27990.1\|5414526_5415360_-	phosphodiesterase	NA	NA	NA	NA
AVB27991.1\|5415385_5416417_-	ABC transporter ATP-binding protein	G3M9Y6	Bacillus_virus	1.2e-27	35.0
AVB27992.1\|5416413_5417208_-	ABC transporter permease	NA	NA	NA	NA
AVB27993.1\|5417204_5418074_-	ABC transporter permease	NA	NA	NA	NA
AVB27994.1\|5418073_5419075_-	ABC transporter substrate-binding protein	NA	NA	NA	NA
AVB27995.1\|5419058_5420078_-	GntR family transcriptional regulator	NA	NA	NA	NA
AVB27996.1\|5420271_5421246_+	serine/threonine protein kinase	NA	NA	NA	NA
AVB27997.1\|5421584_5422472_+	EamA family transporter RarD	NA	NA	NA	NA
AVB27998.1\|5422669_5423212_-	glycine cleavage system protein R	NA	NA	NA	NA
AVB27999.1\|5423534_5425712_+	malate synthase G	NA	NA	NA	NA
AVB28000.1\|5425778_5426225_-	response regulator	A0A220YL79	Alteromonas_virus	2.2e-05	29.6
AVB28618.1\|5426456_5428391_+	CBS domain-containing protein	NA	NA	NA	NA
AVB28001.1\|5428387_5429101_+	3'-5' exonuclease	A0A1P8DIX6	Virus_Rctr197k	3.5e-05	28.2
AVB28002.1\|5429126_5429429_-	cell division protein ZapA	NA	NA	NA	NA
AVB28003.1\|5429425_5429659_-	hypothetical protein	NA	NA	NA	NA
AVB28004.1\|5430070_5431696_+	methyl-accepting chemotaxis protein	A0A2H4J162	uncultured_Caudovirales_phage	8.6e-68	44.6
AVB28005.1\|5432104_5432563_-\|transposase	transposase	NA	NA	NA	NA
AVB28006.1\|5432689_5433793_-	GlxA family transcriptional regulator	NA	NA	NA	NA
AVB28007.1\|5434576_5435524_+\|holin	choline ABC transporter substrate-binding protein	NA	NA	NA	NA
AVB28008.1\|5435591_5436437_+\|holin	choline ABC transporter permease subunit	NA	NA	NA	NA
AVB28009.1\|5436433_5437612_+\|holin	choline ABC transporter ATP-binding protein	G3M9Y6	Bacillus_virus	2.9e-25	36.4
AVB28010.1\|5437870_5439124_+	serine hydroxymethyltransferase	A0A240F3L3	Aeromonas_phage	1.9e-102	54.0
AVB28011.1\|5439141_5440392_+	sarcosine oxidase subunit beta family protein	NA	NA	NA	NA
AVB28012.1\|5440407_5440704_+	sarcosine oxidase subunit delta family protein	NA	NA	NA	NA
AVB28013.1\|5440700_5443721_+	sarcosine oxidase subunit alpha	NA	NA	NA	NA
AVB28014.1\|5443771_5444404_+	sarcosine oxidase subunit gamma family protein	NA	NA	NA	NA
AVB28015.1\|5444609_5445467_+	formyltetrahydrofolate deformylase	NA	NA	NA	NA
AVB28016.1\|5445582_5446782_+	formaldehyde dehydrogenase, glutathione-independent	A0A2K9L7I1	Tupanvirus	2.2e-12	27.7
AVB28017.1\|5446813_5447860_-	RHS repeat-associated core domain-containing protein	A0A1W5K0N1	Bacteriophage	1.1e-26	42.3
AVB28018.1\|5454007_5454571_+	hypothetical protein	NA	NA	NA	NA
AVB28019.1\|5454550_5455618_-	RHS repeat-associated core domain-containing protein	B6SD27	Bacteriophage	1.5e-28	38.3
AVB28020.1\|5455668_5456562_-	acyltransferase	NA	NA	NA	NA
AVB28021.1\|5456755_5457259_+\|protease	ATP-dependent zinc protease	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