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
NC_021659	Serratia plymuthica S13, complete sequence	0 crisprs	RT,DEDDh,DinG,csa3,cas3,WYL,c2c9_V-U4	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

796959 : 874537

Erwinia_phage(22.22%)

integrase,tail,plate,tRNA

attL 803676:803694|attR 831042:831060

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_006323649.1\|796959_797721_+	5'/3'-nucleotidase SurE	A0A1B1ITZ2	uncultured_Mediterranean_phage	3.5e-56	47.2
WP_006323650.1\|797714_798341_+	protein-L-isoaspartate(D-aspartate) O-methyltransferase	A0A1B1IU40	uncultured_Mediterranean_phage	9.1e-34	49.4
WP_006323651.1\|798666_799653_+	murein hydrolase activator NlpD	D7RWE0	Brochothrix_phage	7.9e-08	38.6
WP_004950287.1\|799707_800706_+	RNA polymerase sigma factor RpoS	G8CLC7	Synechococcus_phage	9.4e-33	37.6
WP_144080255.1\|800786_803342_-	DNA mismatch repair protein MutS	A0A1V0SJ67	Klosneuvirus	2.6e-26	23.4
WP_020438448.1\|803581_804865_+\|integrase	site-specific integrase	I6R9B6	Salmonella_phage	5.3e-20	27.8
803676:803694	attL	NA	NA	NA	NA
WP_020438449.1\|804884_806102_+	ATP-binding protein	NA	NA	NA	NA
WP_020438450.1\|806121_806745_+	hypothetical protein	NA	NA	NA	NA
WP_144080229.1\|806991_807261_-	hypothetical protein	NA	NA	NA	NA
WP_020438452.1\|807406_807799_-	hypothetical protein	NA	NA	NA	NA
WP_071825592.1\|808414_809731_+	serine/threonine protein kinase	M1ICX0	Acanthocystis_turfacea_Chlorella_virus	4.2e-12	26.9
WP_187293377.1\|809755_810454_+	serine/threonine-protein phosphatase	NA	NA	NA	NA
WP_020438455.1\|810533_810869_-	hypothetical protein	NA	NA	NA	NA
WP_020438456.1\|810899_811259_-	hypothetical protein	NA	NA	NA	NA
WP_040211792.1\|811273_811801_-	hypothetical protein	NA	NA	NA	NA
WP_039695432.1\|811990_812365_+	helix-turn-helix transcriptional regulator	A0A1W6JNW5	Morganella_phage	1.1e-05	40.8
WP_044033779.1\|812634_813027_+	DUF2787 family protein	NA	NA	NA	NA
WP_041417689.1\|813146_813608_+	hypothetical protein	NA	NA	NA	NA
WP_041417529.1\|813609_814062_+	DNA repair protein RadC	NA	NA	NA	NA
WP_020438462.1\|814108_815038_+\|integrase	site-specific integrase	A0A1B1P7C7	Bacillus_phage	4.7e-10	30.0
WP_020438463.1\|815078_815606_-	hypothetical protein	NA	NA	NA	NA
WP_001543679.1\|815892_816099_+	AlpA family transcriptional regulator	NA	NA	NA	NA
WP_020438464.1\|816095_816974_+	hypothetical protein	NA	NA	NA	NA
WP_020438465.1\|817141_818830_+	DUF927 domain-containing protein	A0A1B0VP75	Pseudomonas_phage	2.7e-24	35.7
WP_020438466.1\|818885_819635_-	hypothetical protein	NA	NA	NA	NA
WP_020438467.1\|819653_820106_-	hypothetical protein	NA	NA	NA	NA
WP_020438468.1\|821153_822626_+	hypothetical protein	NA	NA	NA	NA
WP_020438469.1\|823042_823750_+	hypothetical protein	NA	NA	NA	NA
WP_071825593.1\|824637_825405_+	hypothetical protein	NA	NA	NA	NA
WP_041417530.1\|825580_827542_-	DUF3732 domain-containing protein	NA	NA	NA	NA
WP_071825594.1\|827538_828027_-	hypothetical protein	NA	NA	NA	NA
WP_020438473.1\|828023_829247_-	hypothetical protein	NA	NA	NA	NA
WP_020438474.1\|829830_830001_+	hypothetical protein	NA	NA	NA	NA
WP_020438475.1\|829997_830615_-	Fic family protein	NA	NA	NA	NA
WP_006317708.1\|831690_832008_+	PTS sugar transporter subunit IIB	NA	NA	NA	NA
831042:831060	attR	NA	NA	NA	NA
WP_013811541.1\|832019_833381_+	PTS N,N'-diacetylchitobiose transporter subunit IIC	NA	NA	NA	NA
WP_020438476.1\|833429_834815_+	glycoside hydrolase family 1 protein	NA	NA	NA	NA
WP_013811543.1\|834814_835678_+	transcriptional regulator ChbR	NA	NA	NA	NA
WP_006323656.1\|835830_836592_+	chitin disaccharide deacetylase	NA	NA	NA	NA
WP_006323665.1\|836626_838012_-	MFS transporter	NA	NA	NA	NA
WP_006323667.1\|838266_838755_+	nicotinamide-nucleotide amidase	B5TK85	Pseudomonas_phage	2.6e-28	48.4
WP_004950320.1\|838867_839932_+	recombinase RecA	A0A2D1GPX2	Mycobacterium_phage	6.4e-112	61.6
WP_004950322.1\|840016_840523_+	recombination regulator RecX	NA	NA	NA	NA
WP_020438477.1\|840655_843283_+\|tRNA	alanine--tRNA ligase	A0A1V0SK38	Klosneuvirus	3.8e-81	37.4
WP_004950328.1\|843535_843721_+	carbon storage regulator CsrA	A0A2I7RT00	Vibrio_phage	4.9e-12	66.7
WP_004950329.1\|845086_845653_+	fructose-1-phosphate/6-phosphogluconate phosphatase	NA	NA	NA	NA
WP_037430245.1\|845649_846078_+	DedA family protein	NA	NA	NA	NA
WP_020438478.1\|846160_847723_+	glutamate--cysteine ligase	NA	NA	NA	NA
WP_004950350.1\|847889_848405_+	S-ribosylhomocysteine lyase	NA	NA	NA	NA
WP_004950356.1\|848474_849764_-	HlyC/CorC family transporter	NA	NA	NA	NA
WP_006323686.1\|849806_850598_-	inner membrane protein YpjD	NA	NA	NA	NA
WP_006323687.1\|850767_852129_+	signal recognition particle protein	NA	NA	NA	NA
WP_004932501.1\|852345_852594_+	30S ribosomal protein S16	NA	NA	NA	NA
WP_004950368.1\|852612_853161_+	ribosome maturation factor RimM	NA	NA	NA	NA
WP_006323688.1\|853213_853981_+\|tRNA	tRNA (guanosine(37)-N1)-methyltransferase TrmD	NA	NA	NA	NA
WP_004950372.1\|854035_854392_+	50S ribosomal protein L19	NA	NA	NA	NA
WP_004950376.1\|854554_854773_-	DNA-binding transcriptional regulator	Q37973	Salmonella_virus	2.8e-22	67.6
WP_006323690.1\|854861_855953_-	phage late control D family protein	Q6K1G4	Salmonella_virus	5.5e-103	49.0
WP_006323691.1\|855949_856414_-\|tail	phage tail protein	A0A0F7LBX3	Escherichia_phage	8.5e-45	59.0
WP_020438480.1\|856430_858428_-\|tail	phage tail tape measure protein	A0A2H4JE61	uncultured_Caudovirales_phage	1.7e-17	31.0
WP_006323693.1\|858420_858555_-\|tail	GpE family phage tail protein	Q6K1G8	Salmonella_virus	1.1e-10	78.9
WP_006323694.1\|858575_858863_-\|tail	phage tail assembly protein	F1BUU0	Erwinia_phage	3.9e-24	60.2
WP_006323695.1\|858926_859436_-\|tail	phage major tail tube protein	A0A218M4J0	Erwinia_phage	1.3e-65	69.0
WP_006323696.1\|859449_860619_-\|tail	phage tail sheath protein	F1BUU3	Erwinia_phage	1.3e-182	79.2
WP_006323697.1\|860760_861309_-\|tail	tail fiber assembly protein	F1BUK2	Cronobacter_phage	1.4e-33	44.8
WP_006323698.1\|861305_862769_-\|tail	phage tail protein	Q37842	Escherichia_phage	6.8e-64	37.9
WP_144080230.1\|862805_863519_-	hypothetical protein	NA	NA	NA	NA
WP_020438483.1\|863515_865588_-\|tail	phage tail protein	M1TAS6	Escherichia_phage	4.8e-31	48.4
WP_006323701.1\|865584_866193_-\|tail	phage tail protein I	A0A218M4J3	Erwinia_phage	1.9e-60	55.4
WP_006323702.1\|866185_867094_-\|plate	baseplate assembly protein	A0A1J0I2M3	Salmonella_phage	3.3e-125	78.5
WP_006323703.1\|867098_867449_-	GPW/gp25 family protein	F1BUP4	Erwinia_phage	1.9e-36	65.5
WP_006323704.1\|867445_868081_-\|plate	phage baseplate assembly protein V	A0A0F7LBP2	Escherichia_phage	5.0e-64	58.8
WP_006323705.1\|868169_868634_-\|tail	phage tail protein	F1BUP9	Erwinia_phage	4.8e-40	56.3
WP_020438484.1\|868703_869216_-	lysozyme	A0A218M4K3	Erwinia_phage	1.4e-56	64.7
WP_041417532.1\|869231_869417_-	hypothetical protein	B6SD15	Bacteriophage	2.4e-06	50.9
WP_037430256.1\|869420_869624_-\|tail	tail protein X	F1BUQ5	Erwinia_phage	2.8e-21	68.7
WP_020438485.1\|869830_870025_-	hypothetical protein	NA	NA	NA	NA
WP_020438486.1\|870355_870577_-	TraR/DksA C4-type zinc finger protein	A0A0M4S5Q7	Salmonella_phage	3.4e-12	52.9
WP_006323711.1\|870652_870961_-	hypothetical protein	NA	NA	NA	NA
WP_006323712.1\|871190_872087_+	phage repressor protein CI	Q6K1G0	Salmonella_virus	5.4e-64	44.7
WP_004950379.1\|872133_872898_-	DUF481 domain-containing protein	NA	NA	NA	NA
WP_006323715.1\|873463_874537_+	3-deoxy-7-phosphoheptulonate synthase	A0A0F6R6T6	Escherichia_coli_O157_typing_phage	2.6e-89	50.3

DBSCAN-SWA_2

2198440 : 2238441

Moraxella_phage(25.0%)

protease,transposase,coat

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_004943492.1\|2198440_2199373_-\|coat	spore coat protein U domain-containing protein	NA	NA	NA	NA
WP_020438902.1\|2199391_2201881_-	fimbrial biogenesis outer membrane usher protein	NA	NA	NA	NA
WP_006324878.1\|2201888_2202653_-	molecular chaperone	NA	NA	NA	NA
WP_020438903.1\|2202676_2203225_-\|coat	spore coat protein U domain-containing protein	NA	NA	NA	NA
WP_006324879.1\|2203230_2203734_-\|coat	spore coat protein U domain-containing protein	NA	NA	NA	NA
WP_004943503.1\|2203736_2204276_-\|coat	spore coat protein U domain-containing protein	NA	NA	NA	NA
WP_006324880.1\|2204546_2205983_-	16S rRNA (cytosine(1407)-C(5))-methyltransferase RsmF	NA	NA	NA	NA
WP_006324881.1\|2206085_2208716_-	PqiB family protein	NA	NA	NA	NA
WP_006324882.1\|2208684_2209932_-	membrane integrity lipid transport subunit YebS	NA	NA	NA	NA
WP_006324884.1\|2210536_2211034_+	GAF domain-containing protein	NA	NA	NA	NA
WP_004943519.1\|2211129_2211840_+	RNA chaperone ProQ	NA	NA	NA	NA
WP_004943522.1\|2211859_2213905_+	carboxy terminal-processing peptidase	A0A0R6PIZ1	Moraxella_phage	9.8e-85	34.2
WP_004943526.1\|2214565_2215444_+\|protease	protease HtpX	NA	NA	NA	NA
WP_041417722.1\|2215491_2216886_-	MFS transporter	NA	NA	NA	NA
WP_004943529.1\|2217116_2217908_+	DNA-binding transcriptional regulator KdgR	NA	NA	NA	NA
WP_006324887.1\|2218035_2219427_-	L-cystine transporter	NA	NA	NA	NA
WP_004943534.1\|2219609_2220158_-	metal-dependent hydrolase	A0A127AVX7	Bacillus_phage	3.7e-07	36.1
WP_004943536.1\|2220607_2221273_-	hexitol phosphatase HxpB	NA	NA	NA	NA
WP_004943539.1\|2221336_2222629_-	hypothetical protein	NA	NA	NA	NA
WP_004943543.1\|2222824_2223385_+	YniB family protein	NA	NA	NA	NA
WP_004943546.1\|2223425_2224295_-	fructosamine kinase family protein	NA	NA	NA	NA
WP_004943550.1\|2224550_2225000_+	GNAT family N-acetyltransferase	NA	NA	NA	NA
WP_006324890.1\|2225037_2225898_-	metal ABC transporter permease	NA	NA	NA	NA
WP_006324891.1\|2225897_2226758_-	metal ABC transporter permease	NA	NA	NA	NA
WP_013812621.1\|2226757_2227648_-	manganese/iron ABC transporter ATP-binding protein	A0A1V0SKJ1	Klosneuvirus	5.5e-08	27.5
WP_006324893.1\|2227644_2228589_-	metal ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_006324894.1\|2228719_2229019_-	type V toxin-antitoxin system endoribonuclease antitoxin GhoS	NA	NA	NA	NA
WP_004943568.1\|2229128_2229794_+	transglycosylase SLT domain-containing protein	I6ZXX9	Escherichia_phage	2.0e-07	48.1
WP_006324895.1\|2230103_2230823_+	gluconate 2-dehydrogenase subunit 3 family protein	NA	NA	NA	NA
WP_004943573.1\|2230825_2232607_+	GMC family oxidoreductase	NA	NA	NA	NA
WP_006324896.1\|2232619_2233957_+	cytochrome c	NA	NA	NA	NA
WP_006324897.1\|2234212_2235496_+	hypothetical protein	NA	NA	NA	NA
WP_020438905.1\|2235647_2236781_+	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_172458735.1\|2236819_2237497_-	MarC family NAAT transporter	NA	NA	NA	NA
WP_020438906.1\|2237643_2237868_-	hypothetical protein	NA	NA	NA	NA
WP_020438907.1\|2238153_2238441_-\|transposase	transposase	NA	NA	NA	NA

DBSCAN-SWA_3

4858381 : 4920712

uncultured_Caudovirales_phage(33.33%)

integrase,protease,head,tRNA,capsid,tail

attL 4910152:4910211|attR 4920898:4920977

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_004948605.1\|4858381_4859722_-\|protease	metalloprotease PmbA	NA	NA	NA	NA
WP_004948607.1\|4859899_4860448_+	ribosome-associated protein	NA	NA	NA	NA
WP_004948609.1\|4860478_4860778_-	barstar family protein	NA	NA	NA	NA
WP_004948611.1\|4860783_4861233_-	ribonuclease N1	NA	NA	NA	NA
WP_020439863.1\|4861486_4863454_-	p-hydroxybenzoic acid efflux pump subunit AaeB	NA	NA	NA	NA
WP_020439864.1\|4863453_4864389_-	p-hydroxybenzoic acid efflux pump subunit AaeA	NA	NA	NA	NA
WP_004948617.1\|4864396_4864600_-	AaeX family protein	NA	NA	NA	NA
WP_004948619.1\|4864908_4865820_+	HTH-type transcriptional activator AaeR	NA	NA	NA	NA
WP_037433696.1\|4865782_4866160_-	hypothetical protein	NA	NA	NA	NA
WP_020439866.1\|4866368_4867310_+	nucleoside hydrolase	NA	NA	NA	NA
WP_020439867.1\|4867672_4867957_+	hypothetical protein	NA	NA	NA	NA
WP_187293384.1\|4868306_4868807_-	hypothetical protein	NA	NA	NA	NA
WP_080654427.1\|4869037_4869586_-	DUF3916 domain-containing protein	NA	NA	NA	NA
WP_020439870.1\|4871708_4871927_-	hypothetical protein	NA	NA	NA	NA
WP_037431823.1\|4873612_4873903_-	barstar family protein	NA	NA	NA	NA
WP_020439873.1\|4873905_4883919_-	hemagglutinin repeat-containing protein	A0A0R6PJK4	Moraxella_phage	2.3e-30	36.3
WP_020439874.1\|4883945_4885619_-	ShlB/FhaC/HecB family hemolysin secretion/activation protein	NA	NA	NA	NA
WP_004948634.1\|4885887_4887333_-\|protease	metalloprotease TldD	NA	NA	NA	NA
WP_004948637.1\|4887340_4888201_-	carbon-nitrogen hydrolase family protein	NA	NA	NA	NA
WP_020439875.1\|4888197_4892010_-	AsmA2 domain-containing protein YhdP	NA	NA	NA	NA
WP_004948644.1\|4892105_4893575_-	ribonuclease G	NA	NA	NA	NA
WP_004948648.1\|4893612_4894197_-	septum formation inhibitor Maf	NA	NA	NA	NA
WP_004948651.1\|4894205_4894694_-	rod shape-determining protein MreD	NA	NA	NA	NA
WP_004948652.1\|4894690_4895695_-	rod shape-determining protein MreC	NA	NA	NA	NA
WP_004948655.1\|4895789_4896833_-	rod shape-determining protein MreB	F2Y0P3	Organic_Lake_phycodnavirus	6.7e-05	22.3
WP_020439876.1\|4897245_4899177_-	RNase E specificity factor CsrD	NA	NA	NA	NA
WP_020439877.1\|4899484_4900462_+	oxidoreductase	NA	NA	NA	NA
WP_004948661.1\|4900708_4901710_+	protein-methionine-sulfoxide reductase catalytic subunit MsrP	NA	NA	NA	NA
WP_006328310.1\|4901710_4902310_+	protein-methionine-sulfoxide reductase heme-binding subunit MsrQ	NA	NA	NA	NA
WP_004948665.1\|4902551_4903004_+	type II 3-dehydroquinate dehydratase	NA	NA	NA	NA
WP_004948669.1\|4903036_4903504_+	acetyl-CoA carboxylase biotin carboxyl carrier protein	NA	NA	NA	NA
WP_004948672.1\|4903514_4904864_+	acetyl-CoA carboxylase biotin carboxylase subunit	NA	NA	NA	NA
WP_020439878.1\|4905017_4905260_+	YhdT family protein	NA	NA	NA	NA
WP_004948678.1\|4905249_4906695_+	sodium/pantothenate symporter	NA	NA	NA	NA
WP_020439879.1\|4906706_4907588_+	50S ribosomal protein L11 methyltransferase	NA	NA	NA	NA
WP_004948687.1\|4907779_4908514_+	carbonic anhydrase	NA	NA	NA	NA
WP_004948691.1\|4908884_4909850_+\|tRNA	tRNA dihydrouridine synthase DusB	NA	NA	NA	NA
WP_000462905.1\|4909871_4910168_+	DNA-binding transcriptional regulator Fis	NA	NA	NA	NA
4910152:4910211	attL	NA	NA	NA	NA
WP_020439880.1\|4910339_4911023_-	hypothetical protein	NA	NA	NA	NA
WP_041417783.1\|4911659_4912286_-\|tail	tail assembly protein	A0A1B0VMI5	Pseudomonas_phage	3.1e-50	53.8
WP_020439882.1\|4912651_4913005_-	AlpA family phage regulatory protein	NA	NA	NA	NA
WP_020439883.1\|4913014_4913353_-\|head	head decoration protein	E4WL24	Enterobacteria_phage	4.2e-09	44.7
WP_020439884.1\|4913363_4914407_-\|capsid	major capsid protein	C6ZCY2	Enterobacteria_phage	3.4e-65	41.2
WP_020439885.1\|4914956_4917044_-	DUF927 domain-containing protein	A0A1B0VP75	Pseudomonas_phage	3.3e-72	33.9
WP_020439886.1\|4917040_4917391_-	hypothetical protein	NA	NA	NA	NA
WP_020439887.1\|4917383_4917578_-	hypothetical protein	NA	NA	NA	NA
WP_020439888.1\|4917570_4917756_-	hypothetical protein	NA	NA	NA	NA
WP_020439889.1\|4917748_4917928_-	host cell division inhibitor Icd-like protein	NA	NA	NA	NA
WP_187293375.1\|4918057_4918228_+	hypothetical protein	A0A2H4JB52	uncultured_Caudovirales_phage	1.7e-06	45.5
WP_041417660.1\|4918398_4918614_-	AlpA family phage regulatory protein	A0A2H4JB58	uncultured_Caudovirales_phage	1.3e-19	80.0
WP_020439891.1\|4918748_4919492_-	hypothetical protein	NA	NA	NA	NA
WP_020439892.1\|4919488_4920712_-\|integrase	site-specific integrase	A0A2H4JB45	uncultured_Caudovirales_phage	6.1e-167	66.3
4920898:4920977	attR	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