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_LN879429	Bartonella henselae strain MVT02 chromosome I	0 crisprs	cas3,csa3	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

337414 : 428201

102

Haemophilus_phage(14.81%)

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

attL 370567:370585|attR 424882:424900

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_011180208.1\|337414_340330_+\|tRNA	isoleucine--tRNA ligase	A0A2I2L3Y0	Orpheovirus	8.8e-63	24.8
WP_011180209.1\|340525_341119_+	hypothetical protein	NA	NA	NA	NA
WP_011180210.1\|341181_341628_-	nucleoside deaminase	NA	NA	NA	NA
WP_011180211.1\|341903_343301_+	rRNA pseudouridine synthase	NA	NA	NA	NA
WP_011180212.1\|343281_343851_+	16S rRNA (guanine(966)-N(2))-methyltransferase RsmD	NA	NA	NA	NA
WP_011180213.1\|346705_348037_+	TldD/PmbA family protein	NA	NA	NA	NA
WP_034447481.1\|348023_348827_+	3'(2'),5'-bisphosphate nucleotidase CysQ	NA	NA	NA	NA
WP_011180215.1\|348872_349118_+	DUF4170 domain-containing protein	K4JVU0	Caulobacter_phage	2.0e-05	37.9
WP_011180216.1\|349941_351264_+	lipid IV(A) 3-deoxy-D-manno-octulosonic acid transferase	NA	NA	NA	NA
WP_011180217.1\|351253_352273_+	tetraacyldisaccharide 4'-kinase	NA	NA	NA	NA
WP_011180218.1\|352317_352554_-	DUF2093 domain-containing protein	NA	NA	NA	NA
WP_011180219.1\|352674_354513_-	DNA mismatch repair endonuclease MutL	A0A1B2LRQ5	Wolbachia_phage	7.1e-111	39.9
WP_034447477.1\|354810_355899_+	2'-deoxycytidine 5'-triphosphate deaminase	NA	NA	NA	NA
WP_011180221.1\|356734_357886_+	FMN-dependent L-lactate dehydrogenase LldD	NA	NA	NA	NA
WP_011180223.1\|360373_360694_-	hypothetical protein	NA	NA	NA	NA
WP_011180224.1\|360874_362302_+	amino acid permease	NA	NA	NA	NA
WP_011180225.1\|362343_363024_+	ATP-binding cassette domain-containing protein	G9BWD6	Planktothrix_phage	7.9e-15	27.9
WP_011180226.1\|363020_363659_+	energy-coupling factor transporter transmembrane protein EcfT	NA	NA	NA	NA
WP_011180227.1\|363672_364227_+	biotin transporter BioY	NA	NA	NA	NA
WP_038525120.1\|368262_368706_+	hypothetical protein	NA	NA	NA	NA
WP_034447472.1\|369395_369623_+	hypothetical protein	NA	NA	NA	NA
WP_034447468.1\|369754_369973_+	hypothetical protein	NA	NA	NA	NA
370567:370585	attL	NA	NA	NA	NA
WP_011180232.1\|370783_371941_+\|integrase	site-specific integrase	A0A1X9HVL9	Ruegeria_phage	8.0e-76	40.8
WP_011180234.1\|372212_372803_+	antA/AntB antirepressor family protein	Q7Y5W2	Haemophilus_phage	6.2e-24	49.6
WP_011180235.1\|372922_373198_+	type II toxin-antitoxin system RelB/DinJ family antitoxin	NA	NA	NA	NA
WP_011180236.1\|373210_373501_+	type II toxin-antitoxin system YafQ family toxin	NA	NA	NA	NA
WP_034447463.1\|373623_373836_-	hypothetical protein	NA	NA	NA	NA
WP_011180238.1\|373964_374192_-	hypothetical protein	NA	NA	NA	NA
WP_011180239.1\|374188_374851_-	glycoside hydrolase family protein	A0A141GEY9	Brucella_phage	2.6e-47	61.5
WP_011180240.1\|375010_375313_+	type II toxin-antitoxin system RelE/ParE family toxin	A0A141GEX6	Brucella_phage	5.4e-16	45.8
WP_011180241.1\|375299_375620_+	putative addiction module antidote protein	A0A141GEX5	Brucella_phage	3.3e-16	46.2
WP_011180242.1\|375663_375942_-	hypothetical protein	NA	NA	NA	NA
WP_011180243.1\|375938_376670_-	phage antirepressor Ant	Q7Y5W2	Haemophilus_phage	1.4e-46	40.7
WP_011180244.1\|376921_377494_-	antA/AntB antirepressor family protein	Q7Y5W2	Haemophilus_phage	8.9e-28	40.7
WP_011180245.1\|377521_378070_-	phage antirepressor Ant	A0A0N6WET9	Escherichia_phage	5.9e-21	52.6
WP_011180246.1\|378381_379689_-	phage late control protein	K4HZC6	Acidithiobacillus_phage	1.6e-69	39.8
WP_011180247.1\|379685_379910_-\|tail	tail protein X	A0A2H4J946	uncultured_Caudovirales_phage	8.3e-06	53.1
WP_011180248.1\|379906_380287_-\|tail	phage tail protein	D5LGY3	Escherichia_phage	5.7e-23	43.1
WP_011180249.1\|380292_382593_-\|tail	tail protein	A0A0E3U2N9	Fusobacterium_phage	5.4e-15	26.7
WP_075320635.1\|382589_382706_-\|tail	GpE family phage tail protein	NA	NA	NA	NA
WP_011180250.1\|382702_382987_-\|tail	phage tail assembly protein	NA	NA	NA	NA
WP_011180251.1\|382988_383495_-\|tail	phage major tail tube protein	K4I1G5	Acidithiobacillus_phage	2.6e-31	42.2
WP_011180252.1\|383494_384727_-\|tail	phage tail sheath subtilisin-like domain-containing protein	A0A088FVH5	Escherichia_phage	1.9e-128	52.2
WP_011180253.1\|385196_385718_+	Rha family transcriptional regulator	A0A159B6D5	Gordonia_phage	3.8e-25	57.1
WP_011180254.1\|385763_386093_-	HigA family addiction module antidote protein	NA	NA	NA	NA
WP_011180255.1\|386180_386360_+	hypothetical protein	A0A222YXG1	Escherichia_phage	4.3e-13	62.5
WP_011180256.1\|386655_387981_-	hypothetical protein	NA	NA	NA	NA
WP_011180257.1\|387995_391139_-	DUF4815 domain-containing protein	K4ICQ5	Acidithiobacillus_phage	6.2e-155	34.9
WP_034447459.1\|391140_392247_-	phage protein	K4I1F8	Acidithiobacillus_phage	5.0e-19	36.4
WP_011180259.1\|392246_393074_-\|plate	baseplate J/gp47 family protein	A0A219VH98	Ochrobactrum_phage	1.7e-40	34.9
WP_011180260.1\|393070_393400_-	GPW/gp25 family protein	Q75QM0	Wolbachia_phage	4.9e-31	59.3
WP_011180261.1\|393408_394098_-\|plate	phage baseplate assembly protein V	V5YUM9	Pseudomonas_phage	4.1e-19	34.5
WP_011180262.1\|394078_394621_-	hypothetical protein	NA	NA	NA	NA
WP_011180263.1\|394672_394945_+	toxin HicA	A0A2P1A0R7	Gordonia_phage	1.0e-05	60.0
WP_004856761.1\|394934_395252_+	type II toxin-antitoxin system HicB family antitoxin	NA	NA	NA	NA
WP_011180264.1\|395492_395771_-	hypothetical protein	NA	NA	NA	NA
WP_011180265.1\|395767_396526_-	phage antirepressor Ant	Q7Y5W2	Haemophilus_phage	1.7e-42	38.3
WP_011180266.1\|396544_397099_-	phage antirepressor Ant	Q7Y5W2	Haemophilus_phage	2.4e-22	56.2
WP_011180267.1\|397483_398557_+	hypothetical protein	NA	NA	NA	NA
WP_011180268.1\|398592_398946_-	hypothetical protein	NA	NA	NA	NA
WP_011180269.1\|398947_400024_-\|capsid	major capsid protein	A0A0A8ILA9	Aurantimonas_phage	3.8e-56	35.2
WP_011180270.1\|400036_400405_-\|head	head decoration protein	A0A0A8IL52	Aurantimonas_phage	5.7e-12	46.1
WP_049784565.1\|400401_400722_-	hypothetical protein	NA	NA	NA	NA
WP_034454126.1\|400664_401708_-	S49 family peptidase	K4HZZ6	Acidithiobacillus_phage	8.3e-64	46.6
WP_011180273.1\|401697_403254_-\|portal	phage portal protein	Q75QM9	Wolbachia_phage	3.5e-74	35.5
WP_011180274.1\|403253_403502_-	hypothetical protein	NA	NA	NA	NA
WP_011180275.1\|403505_405434_-\|terminase	phage terminase large subunit family protein	K4I3Y9	Acidithiobacillus_phage	1.8e-165	52.4
WP_011180276.1\|405426_406008_-	hypothetical protein	NA	NA	NA	NA
WP_011180277.1\|406070_406385_+	type II toxin-antitoxin system RelE/ParE family toxin	A0A222YWE2	Escherichia_phage	1.6e-10	39.8
WP_011180278.1\|406401_406698_+	HigA family addiction module antidote protein	M9MUN2	Rhodococcus_phage	6.4e-14	49.4
WP_011180280.1\|407107_407371_+	type II toxin-antitoxin system RelB/DinJ family antitoxin	NA	NA	NA	NA
WP_011180281.1\|407357_407639_+	type II toxin-antitoxin system YafQ family toxin	NA	NA	NA	NA
WP_011180242.1\|407681_407960_-	hypothetical protein	NA	NA	NA	NA
WP_011180282.1\|407956_408715_-	phage antirepressor Ant	Q7Y5W2	Haemophilus_phage	3.0e-47	40.7
WP_011180283.1\|408774_409290_-	phage antirepressor Ant	Q7Y5W2	Haemophilus_phage	7.8e-23	55.6
WP_011180285.1\|410177_410720_-	phage antirepressor Ant	A0A0P0ZG08	Escherichia_phage	1.6e-18	46.9
WP_011180287.1\|411316_411895_-	hypothetical protein	A0A0A8IL87	Aurantimonas_phage	3.8e-10	35.0
WP_011180288.1\|411898_412219_-	hypothetical protein	NA	NA	NA	NA
WP_011180290.1\|412691_413087_-	type II toxin-antitoxin system HicB family antitoxin	A0A0U4ISP5	Pseudomonas_phage	1.7e-06	31.1
WP_034447446.1\|413083_413284_-	type II toxin-antitoxin system HicA family toxin	A0A1L2JY37	Aeribacillus_phage	1.6e-08	49.1
WP_034447444.1\|413348_413885_-	hypothetical protein	NA	NA	NA	NA
WP_011180293.1\|413895_414342_-	single-stranded DNA-binding protein	A0A0K1LLZ9	Caulobacter_phage	6.7e-31	55.7
WP_011180826.1\|414532_414814_+	type II toxin-antitoxin system RelE/ParE family toxin	A0A0M3LQB1	Mannheimia_phage	1.1e-18	47.3
WP_034447441.1\|414830_415124_+	HigA family addiction module antidote protein	A0A0M3LPV0	Mannheimia_phage	6.0e-12	46.6
WP_034447437.1\|415165_415492_-	hypothetical protein	NA	NA	NA	NA
WP_038525124.1\|415656_416076_-	hypothetical protein	NA	NA	NA	NA
WP_011180297.1\|416068_417181_-	DUF1376 domain-containing protein	A0A218M9P5	Mycobacterium_phage	1.6e-12	51.5
WP_011180298.1\|417170_417518_-	DUF1376 domain-containing protein	A0A076GD06	Sinorhizobium_phage	1.6e-16	44.1
WP_011180299.1\|417510_417987_-	hypothetical protein	K4ICN3	Acidithiobacillus_phage	3.7e-51	63.8
WP_011180300.1\|418114_418891_+	hypothetical protein	NA	NA	NA	NA
WP_099358257.1\|418899_419265_-	hypothetical protein	NA	NA	NA	NA
WP_034447428.1\|419364_419724_-	hypothetical protein	NA	NA	NA	NA
WP_011180303.1\|419807_420425_+	transcriptional regulator	K7PH71	Enterobacterial_phage	1.4e-05	27.1
WP_011180304.1\|420666_421041_+	hypothetical protein	NA	NA	NA	NA
WP_011180305.1\|421105_421498_+	Rha family transcriptional regulator	B5AX29	Iodobacteriophage	2.5e-21	49.5
WP_038525127.1\|421507_422266_+	antA/AntB antirepressor family protein	Q7Y5W2	Haemophilus_phage	6.0e-40	38.2
WP_034452685.1\|422278_422662_+	hypothetical protein	K4Q356	Edwardsiella_phage	1.0e-11	57.9
WP_038525129.1\|423103_423883_+	ERF family protein	K4NWX3	Pseudomonas_phage	2.4e-15	31.5
WP_011180604.1\|423884_424508_+	YqaJ viral recombinase family protein	A0A0U2BXF3	Paracoccus_phage	7.4e-44	43.6
WP_011180314.1\|424580_424784_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_011180315.1\|425359_426523_+	phosphoserine transaminase	NA	NA	NA	NA
424882:424900	attR	NA	NA	NA	NA
WP_011180316.1\|426911_428201_+	adenylosuccinate synthase	A0A285PX35	Cedratvirus	4.3e-54	31.8

DBSCAN-SWA_2

800034 : 809115

Mannheimia_phage(22.22%)

integrase

attL 784517:784548|attR 814441:814472

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
784517:784548	attL	NA	NA	NA	NA
WP_011180600.1\|800034_800316_+	type II toxin-antitoxin system RelE/ParE family toxin	A0A0M3LQB1	Mannheimia_phage	1.1e-15	45.1
WP_011180601.1\|800334_800634_+	HigA family addiction module antidote protein	A0A0M3LPV0	Mannheimia_phage	2.8e-17	47.7
WP_011180602.1\|800690_801728_-\|integrase	tyrosine-type recombinase/integrase	A0A291AUF0	Sinorhizobium_phage	4.1e-31	30.3
WP_034448587.1\|801730_801979_-	hypothetical protein	NA	NA	NA	NA
WP_011180604.1\|802089_802713_-	YqaJ viral recombinase family protein	A0A0U2BXF3	Paracoccus_phage	7.4e-44	43.6
WP_038525165.1\|802714_803494_-	ERF family protein	K4NWX3	Pseudomonas_phage	6.3e-16	32.0
WP_034452685.1\|803936_804320_-	hypothetical protein	K4Q356	Edwardsiella_phage	1.0e-11	57.9
WP_011180605.1\|804332_805064_-	phage regulatory protein/antirepressor Ant	B5AX29	Iodobacteriophage	5.1e-28	41.3
WP_011180606.1\|805078_805435_-	antA/AntB antirepressor family protein	NA	NA	NA	NA
WP_011180607.1\|805498_805873_-	hypothetical protein	NA	NA	NA	NA
WP_099358259.1\|806111_806381_-	hypothetical protein	NA	NA	NA	NA
WP_011180610.1\|806899_807259_+	hypothetical protein	NA	NA	NA	NA
WP_011180611.1\|807395_807875_+	hypothetical protein	K4ICN3	Acidithiobacillus_phage	1.4e-50	64.0
WP_034448599.1\|807864_809115_+	DUF1376 domain-containing protein	A0A218M9P5	Mycobacterium_phage	4.2e-14	52.9
814441:814472	attR	NA	NA	NA	NA

DBSCAN-SWA_3

1102111 : 1112715

uncultured_Mediterranean_phage(71.43%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011180873.1\|1102111_1103230_-\|tRNA	tRNA guanosine(34) transglycosylase Tgt	A0A1B1IVQ4	uncultured_Mediterranean_phage	1.0e-96	52.1
WP_011180874.1\|1104393_1104906_-	peptidylprolyl isomerase	A0A1B1IVS0	uncultured_Mediterranean_phage	1.2e-47	59.6
WP_011180875.1\|1104928_1105501_-	peptidylprolyl isomerase	A0A1B1IVS0	uncultured_Mediterranean_phage	1.2e-43	54.7
WP_034448154.1\|1105490_1106009_-	pantetheine-phosphate adenylyltransferase	A0A1B1IVQ3	uncultured_Mediterranean_phage	7.1e-24	37.0
WP_038525424.1\|1106033_1108829_-	DNA gyrase subunit A	G3M9Z5	Bacillus_virus	7.0e-102	33.7
WP_011180878.1\|1108940_1109459_-	single-stranded DNA-binding protein	A0A0K1LLZ9	Caulobacter_phage	1.1e-45	59.3
WP_038487855.1\|1109799_1112715_+	excinuclease ABC subunit UvrA	A0A1B1IVR3	uncultured_Mediterranean_phage	0.0e+00	60.4

Anti-CRISPR protein detection

Acr ID	Acr position	Acr size	Homology with known anti	Neighbor HTH/AcRanker	Neighbor Aca	In prophage	Protospacer in prophage