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_CP014474	Serratia rubidaea strain 1122 chromosome, complete genome	0 crisprs	cas3,DEDDh,csa3,DinG,WYL,RT	0	0	3	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

2640814 : 2707523

Salmonella_phage(37.7%)

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

attL 2655990:2656004|attR 2689104:2689118

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_061323178.1\|2640814_2641894_-\|integrase	tyrosine-type recombinase/integrase	A0A2H4IYC8	uncultured_Caudovirales_phage	2.3e-101	51.7
WP_061323181.1\|2641871_2642144_-	hypothetical protein	NA	NA	NA	NA
WP_061323184.1\|2642213_2642399_-	hypothetical protein	NA	NA	NA	NA
WP_061323187.1\|2642401_2642902_-	siphovirus Gp157 family protein	H9C156	Pectobacterium_phage	1.4e-61	74.1
WP_061323190.1\|2642898_2645544_-	hypothetical protein	H9C157	Pectobacterium_phage	7.1e-96	62.6
WP_061323193.1\|2645884_2646079_-	hypothetical protein	NA	NA	NA	NA
WP_158510612.1\|2646602_2647721_-	AAA family ATPase	Q7M293	Enterobacteria_phage	3.1e-69	43.7
WP_061323198.1\|2647823_2648213_-	helix-turn-helix domain-containing protein	A0A0M4REM4	Salmonella_phage	1.4e-32	56.3
WP_071889302.1\|2648315_2648546_+	Rha family transcriptional regulator	A0A0M4QX15	Salmonella_phage	7.2e-21	64.4
WP_061323201.1\|2648548_2649118_+	hypothetical protein	K7P7P2	Enterobacteria_phage	1.3e-18	38.7
WP_061323203.1\|2649136_2649379_+	hypothetical protein	NA	NA	NA	NA
WP_148654776.1\|2649430_2649625_-	hypothetical protein	NA	NA	NA	NA
WP_082763327.1\|2650739_2651273_+	replication protein	A0A0U2JGJ0	Escherichia_phage	8.3e-44	51.4
WP_061323209.1\|2651277_2651670_+	hypothetical protein	NA	NA	NA	NA
WP_061323211.1\|2651666_2651879_+	hypothetical protein	A0A2R2Z313	Escherichia_phage	1.6e-22	72.3
WP_148654777.1\|2651868_2652084_+	hypothetical protein	NA	NA	NA	NA
WP_071889303.1\|2652305_2652539_+	hypothetical protein	H6WRY6	Salmonella_phage	3.1e-19	64.3
WP_061323214.1\|2652581_2653178_+	DUF1367 family protein	K7PKS6	Enterobacteria_phage	2.4e-92	82.7
WP_071889304.1\|2653177_2653384_+	hypothetical protein	H6WRY8	Salmonella_phage	5.8e-22	68.2
WP_061325500.1\|2653386_2653674_+	DUF1364 domain-containing protein	E5AGG0	Erwinia_phage	1.7e-32	68.8
WP_061323216.1\|2653673_2654027_+	antitermination protein	A0A0P0ZCW0	Stx2-converting_phage	9.0e-39	62.8
WP_148654778.1\|2654067_2654673_-	hypothetical protein	NA	NA	NA	NA
WP_148654779.1\|2655200_2655422_-	hypothetical protein	NA	NA	NA	NA
2655990:2656004	attL	NA	NA	NA	NA
WP_071889305.1\|2656209_2656437_+	hypothetical protein	I6R0S9	Salmonella_phage	3.8e-06	46.0
WP_061323221.1\|2656442_2656937_+	lysozyme	A0A2H4FND7	Salmonella_phage	5.1e-56	66.7
WP_099050074.1\|2656954_2657308_+	DUF2570 domain-containing protein	NA	NA	NA	NA
WP_061323225.1\|2657513_2657750_-	hypothetical protein	NA	NA	NA	NA
WP_061325502.1\|2658623_2659118_+	DUF1441 family protein	K7PJY2	Enterobacterial_phage	2.1e-49	64.0
WP_061323228.1\|2659117_2661235_+\|terminase	phage terminase large subunit family protein	A0A291AWY5	Escherichia_phage	9.5e-293	67.8
WP_061323231.1\|2661231_2661447_+	hypothetical protein	NA	NA	NA	NA
WP_061323235.1\|2661454_2662966_+\|portal	phage portal protein	K7PHM5	Enterobacterial_phage	1.9e-149	53.1
WP_082763328.1\|2662919_2665007_+\|protease	Clp protease ClpP	A0A1W6JT88	Pseudomonas_phage	1.1e-200	57.8
WP_061323240.1\|2665085_2665430_+	DUF2190 family protein	NA	NA	NA	NA
WP_061323243.1\|2665430_2665790_+	hypothetical protein	NA	NA	NA	NA
WP_061323246.1\|2665792_2666464_+	hypothetical protein	R9TR34	Vibrio_phage	3.3e-21	34.5
WP_061325504.1\|2666482_2667004_+	hypothetical protein	NA	NA	NA	NA
WP_061323248.1\|2667003_2667621_+\|plate	phage baseplate assembly protein V	NA	NA	NA	NA
WP_033638731.1\|2667658_2668018_+\|plate	baseplate assembly protein	V5YTB2	Pseudomonas_phage	2.4e-23	48.6
WP_054306632.1\|2667992_2668910_+\|plate	baseplate assembly protein	V5YTH6	Pseudomonas_phage	3.0e-57	41.9
WP_082763329.1\|2668896_2669433_+\|tail	phage tail protein I	A0A193GYD1	Enterobacter_phage	3.1e-30	44.1
WP_061323254.1\|2669437_2670583_+	hypothetical protein	E5FJ29	Escherichia_phage	9.8e-26	47.2
WP_061323256.1\|2670582_2671164_+\|tail	tail fiber assembly protein	A0A0M4RTP2	Salmonella_phage	1.0e-26	38.6
WP_061323259.1\|2671203_2672730_+\|tail	phage tail protein	R9TMQ0	Vibrio_phage	4.1e-72	36.0
WP_054306627.1\|2672726_2673233_+\|tail	phage tail protein	NA	NA	NA	NA
WP_061323261.1\|2673290_2673590_+\|tail	phage tail assembly protein	K4I007	Acidithiobacillus_phage	4.2e-05	34.2
WP_061323264.1\|2673693_2675322_+	hypothetical protein	R9TRP8	Vibrio_phage	9.3e-46	32.9
WP_061323267.1\|2675318_2675795_+\|tail	phage tail protein	V5YTC2	Pseudomonas_phage	1.4e-21	39.8
WP_061325506.1\|2675769_2675985_+\|tail	phage tail protein	NA	NA	NA	NA
WP_061323270.1\|2675986_2677114_+	late control protein D	R9TNM7	Vibrio_phage	3.0e-35	31.8
WP_061323273.1\|2677128_2679297_+	hypothetical protein	NA	NA	NA	NA
WP_061323276.1\|2679310_2680108_+	hypothetical protein	NA	NA	NA	NA
WP_158510613.1\|2680142_2680301_-	hypothetical protein	NA	NA	NA	NA
WP_061323278.1\|2680635_2680950_-	hypothetical protein	NA	NA	NA	NA
WP_061323280.1\|2681509_2682988_+	SulP family inorganic anion transporter	A0A2H4J153	uncultured_Caudovirales_phage	4.0e-197	73.2
WP_061323283.1\|2683006_2683834_+	universal stress protein	A0A2H4J154	uncultured_Caudovirales_phage	1.4e-53	42.8
WP_082763330.1\|2684216_2685305_-\|integrase	tyrosine-type recombinase/integrase	A0A0M4S6G4	Salmonella_phage	5.7e-124	60.6
WP_071844562.1\|2685424_2685643_-	hypothetical protein	Q53ZE7	Salmonella_virus	6.2e-22	65.3
WP_061323286.1\|2685716_2686814_-	phage late control D family protein	A0A1S6KZZ5	Salmonella_phage	3.7e-123	65.5
WP_046373895.1\|2686810_2687275_-\|tail	phage tail protein	E5G6Q2	Salmonella_phage	1.4e-47	63.3
WP_061323290.1\|2687271_2689815_-\|tail	phage tail tape measure protein	E5G6Q1	Salmonella_phage	1.7e-155	49.2
2689104:2689118	attR	NA	NA	NA	NA
WP_071844561.1\|2689807_2689927_-\|tail	GpE family phage tail protein	A0A0F7LCR6	Escherichia_phage	2.5e-09	66.7
WP_061323293.1\|2689941_2690232_-\|tail	phage tail assembly protein	E5G6P9	Salmonella_phage	7.4e-23	58.9
WP_061323296.1\|2690292_2690808_-\|tail	phage major tail tube protein	E5G6P8	Salmonella_phage	1.2e-63	69.0
WP_061323298.1\|2690818_2691994_-\|tail	phage tail sheath protein	A0A1S6KZY7	Salmonella_phage	6.0e-180	81.5
WP_061323301.1\|2692193_2693282_-\|tail	phage tail protein	F1BUP1	Erwinia_phage	2.2e-35	51.2
WP_148654780.1\|2693292_2694003_-	hypothetical protein	NA	NA	NA	NA
WP_061323304.1\|2694002_2695340_-	hypothetical protein	A0A0S1S0B7	Acinetobacter_phage	1.4e-18	28.5
WP_061323307.1\|2695401_2695977_-	hypothetical protein	A0A2D1GNM3	Pseudomonas_phage	6.6e-23	42.6
WP_061323310.1\|2695978_2696578_-\|tail	phage tail protein I	E5G6N9	Salmonella_phage	3.6e-56	55.1
WP_061323314.1\|2696570_2697479_-\|plate	baseplate assembly protein	F1BUP3	Erwinia_phage	1.0e-110	68.5
WP_061323316.1\|2697475_2697826_-\|plate	baseplate assembly protein	A0A218M4K8	Erwinia_phage	1.6e-27	53.7
WP_061323319.1\|2697822_2698416_-\|plate	phage baseplate assembly protein V	Q6K1H6	Salmonella_virus	1.1e-52	54.0
WP_061323322.1\|2698560_2699007_-	phage virion morphogenesis protein	A0A1S6L001	Salmonella_phage	1.2e-35	50.7
WP_061323325.1\|2698999_2699431_-\|tail	phage tail protein	A0A1S6KZY0	Salmonella_phage	3.4e-40	59.3
WP_061323328.1\|2699538_2699997_-\|lysis	LysB family phage lysis regulatory protein	E5FFH9	Burkholderia_phage	2.0e-06	49.2
WP_061323333.1\|2699993_2700491_-	glycoside hydrolase family 104 protein	A0A0F7LBS0	Escherichia_phage	6.1e-49	62.4
WP_061323336.1\|2700465_2700795_-\|holin	phage holin family protein	A0A077KER0	Ralstonia_phage	1.2e-08	41.0
WP_061323339.1\|2700797_2701166_-	hypothetical protein	NA	NA	NA	NA
WP_046373880.1\|2701170_2701374_-\|tail	tail protein X	E5G6M9	Salmonella_phage	3.4e-22	70.1
WP_061323342.1\|2701373_2701838_-\|head	head completion/stabilization protein	E5G6M8	Salmonella_phage	6.7e-42	55.2
WP_082763359.1\|2701936_2702572_-\|terminase	terminase endonuclease subunit	F1BUQ7	Erwinia_phage	3.6e-54	54.3
WP_061323349.1\|2702610_2703675_-\|capsid	phage major capsid protein, P2 family	E5G6M6	Salmonella_phage	4.4e-145	74.1
WP_061323352.1\|2703735_2704569_-\|capsid	GPO family capsid scaffolding protein	A0A1S6KZW9	Salmonella_phage	4.3e-79	68.2
WP_061323355.1\|2704712_2706479_+\|terminase	terminase ATPase subunit family protein	A0A1S6KZW3	Salmonella_phage	9.7e-299	83.3
WP_061323358.1\|2706479_2707523_+\|portal	phage portal protein	A0A1S6KZW5	Salmonella_phage	4.3e-153	79.2

DBSCAN-SWA_2

2711373 : 2718013

Erwinia_phage(57.14%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_071889308.1\|2711373_2713848_-	replication endonuclease	F1BUS0	Erwinia_phage	1.3e-237	57.6
WP_158510614.1\|2713850_2713991_-	hypothetical protein	NA	NA	NA	NA
WP_061323369.1\|2713987_2714206_-	hypothetical protein	NA	NA	NA	NA
WP_061323372.1\|2714199_2715024_-	Dam family site-specific DNA-(adenine-N6)-methyltransferase	E5G6L8	Salmonella_phage	1.9e-63	46.3
WP_061323374.1\|2715026_2715245_-	TraR/DksA family transcriptional regulator	A0A218M4I6	Erwinia_phage	4.6e-17	61.1
WP_061323377.1\|2715244_2715517_-	DUF2732 family protein	NA	NA	NA	NA
WP_061323380.1\|2715583_2715937_-	DUF5347 domain-containing protein	E5G6L5	Salmonella_phage	2.1e-27	54.5
WP_071889396.1\|2715900_2716110_-	DUF2724 domain-containing protein	F1BUS5	Erwinia_phage	1.7e-08	52.8
WP_060430006.1\|2716120_2716630_-	phage regulatory CII family protein	F1BUS6	Erwinia_phage	9.0e-48	58.0
WP_061323383.1\|2716661_2717054_-	hypothetical protein	NA	NA	NA	NA
WP_071889309.1\|2717167_2718013_+	phage repressor protein CI	Q6K1G0	Salmonella_virus	7.4e-71	47.0

DBSCAN-SWA_3

4575574 : 4622456

Erwinia_phage(31.25%)

plate,tail,tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_015671032.1\|4575574_4576648_-	3-deoxy-7-phosphoheptulonate synthase	A0A0F6R6T6	Escherichia_coli_O157_typing_phage	2.4e-90	52.3
WP_061324916.1\|4577187_4578531_+	anaerobic C4-dicarboxylate transporter	NA	NA	NA	NA
WP_054305793.1\|4578540_4579440_-	phage repressor protein CI	Q6K1G0	Salmonella_virus	1.3e-78	51.8
WP_015671029.1\|4579874_4580072_+	hypothetical protein	NA	NA	NA	NA
WP_041411715.1\|4580279_4580483_+\|tail	tail protein X	F1BUQ5	Erwinia_phage	2.5e-17	62.7
WP_061324917.1\|4580486_4580705_+	hypothetical protein	NA	NA	NA	NA
WP_061324918.1\|4580688_4581201_+	lysozyme	A0A218M4K3	Erwinia_phage	1.3e-57	63.9
WP_061324919.1\|4581197_4581611_+	LysB family transcriptional regulator	NA	NA	NA	NA
WP_061325667.1\|4581721_4582186_+\|tail	phage tail protein	A0A077K8R3	Ralstonia_phage	1.0e-21	43.5
WP_061324920.1\|4582275_4582911_+\|plate	phage baseplate assembly protein V	A0A0F7LDY9	Escherichia_phage	1.1e-63	59.5
WP_015671021.1\|4582907_4583258_+\|plate	phage baseplate assembly protein W	F1BUP4	Erwinia_phage	7.6e-38	66.4
WP_061324921.1\|4583262_4584171_+\|plate	baseplate assembly protein	A0A1J0I2M3	Salmonella_phage	3.8e-121	75.2
WP_061324922.1\|4584163_4584772_+\|tail	phage tail protein I	A0A218M4J3	Erwinia_phage	4.2e-76	69.8
WP_061324923.1\|4584768_4585893_+\|tail	phage tail protein	A0A2I8TVA9	Erwinia_phage	2.5e-90	51.9
WP_061324924.1\|4585893_4586493_+\|tail	tail fiber assembly protein	A0A218M4J2	Erwinia_phage	4.7e-56	52.8
WP_061324925.1\|4586680_4587850_+\|tail	phage tail sheath protein	F1BUU3	Erwinia_phage	1.9e-186	80.7
WP_061324926.1\|4587863_4588373_+\|tail	phage major tail tube protein	A0A218M4J0	Erwinia_phage	1.3e-65	69.0
WP_015671014.1\|4588442_4588730_+\|tail	phage tail assembly protein	A0A0F7LDQ8	Escherichia_phage	5.6e-23	56.7
WP_071889358.1\|4588750_4588885_+\|tail	GpE family phage tail protein	Q6K1G8	Salmonella_virus	2.5e-10	76.3
WP_061324928.1\|4588877_4591058_+\|tail	phage tail tape measure protein	A0A219Y9T7	Aeromonas_phage	2.7e-24	25.0
WP_061324929.1\|4591074_4591548_+\|tail	phage tail protein	F1BUT6	Erwinia_phage	3.3e-44	59.3
WP_061324930.1\|4591544_4592636_+	phage late control D family protein	A0A218M4J7	Erwinia_phage	1.2e-97	46.6
WP_071889407.1\|4592723_4592957_+	late control protein B	Q37973	Salmonella_virus	2.9e-17	67.8
WP_071889359.1\|4592960_4593527_+\|tail	phage tail protein I	Q858V5	Yersinia_virus	6.9e-73	73.6
WP_061324932.1\|4593538_4595287_+	hypothetical protein	A0A0M3ULH6	Salmonella_phage	9.3e-60	50.8
WP_061324933.1\|4595288_4595711_+\|tail	tail fiber assembly protein	U5P083	Shigella_phage	1.3e-15	38.0
WP_004932484.1\|4596173_4596530_-	50S ribosomal protein L19	NA	NA	NA	NA
WP_015671005.1\|4596573_4597341_-\|tRNA	tRNA (guanosine(37)-N1)-methyltransferase TrmD	NA	NA	NA	NA
WP_054307972.1\|4597393_4597942_-	ribosome maturation factor RimM	NA	NA	NA	NA
WP_004932501.1\|4597960_4598209_-	30S ribosomal protein S16	NA	NA	NA	NA
WP_054307971.1\|4598424_4599786_-	signal recognition particle protein	NA	NA	NA	NA
WP_054307970.1\|4599954_4600746_+	inner membrane protein YpjD	NA	NA	NA	NA
WP_015671001.1\|4600805_4602095_+	HlyC/CorC family transporter	NA	NA	NA	NA
WP_015671000.1\|4602165_4602681_-	S-ribosylhomocysteine lyase	NA	NA	NA	NA
WP_061324934.1\|4602848_4604411_-	glutamate--cysteine ligase	NA	NA	NA	NA
WP_054307968.1\|4604561_4604990_-	DedA family protein	NA	NA	NA	NA
WP_054307967.1\|4604986_4605553_-	fructose-1-phosphate/6-phosphogluconate phosphatase	G3MA51	Bacillus_virus	7.8e-08	27.0
WP_004091602.1\|4606508_4606694_-	carbon storage regulator CsrA	A0A2I7RT00	Vibrio_phage	4.9e-12	66.7
WP_061324935.1\|4606946_4609574_-\|tRNA	alanine--tRNA ligase	A0A1V0SK38	Klosneuvirus	9.3e-80	37.5
WP_061325669.1\|4609709_4610204_-	recombination regulator RecX	NA	NA	NA	NA
WP_061324936.1\|4610301_4611354_-	recombinase RecA	A0A2D1GPX2	Mycobacterium_phage	4.8e-112	61.2
WP_061324937.1\|4611466_4611955_-	nicotinamide-nucleotide amidase	B5TK85	Pseudomonas_phage	3.4e-28	48.4
WP_061324938.1\|4612190_4613600_+	MFS transporter	NA	NA	NA	NA
WP_061325671.1\|4613638_4614730_-	lytic murein transglycosylase B	NA	NA	NA	NA
WP_061324939.1\|4615051_4617604_+	DNA mismatch repair protein MutS	E3T5Q7	Cafeteria_roenbergensis_virus	4.0e-27	19.8
WP_015670988.1\|4617676_4618675_-	RNA polymerase sigma factor RpoS	G8CLC7	Synechococcus_phage	1.2e-32	37.6
WP_054305168.1\|4618729_4619728_-	murein hydrolase activator NlpD	D7RWE0	Brochothrix_phage	2.0e-06	37.5
WP_015670986.1\|4620047_4620674_-	protein-L-isoaspartate(D-aspartate) O-methyltransferase	A0A1B1IU40	uncultured_Mediterranean_phage	1.0e-32	48.2
WP_015670985.1\|4620667_4621429_-	5'/3'-nucleotidase SurE	A0A1B1ITZ2	uncultured_Mediterranean_phage	6.7e-55	47.2
WP_061324940.1\|4621409_4622456_-\|tRNA	tRNA pseudouridine(13) synthase TruD	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