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
CP031092	Ruegeria sp. NKC1-1 chromosome, complete genome	0 crisprs	c2c10_CAS-V-U3,cas3,DEDDh,cas14j,csa3,Cas14u_CAS-V,PrimPol,c2c9_V-U4,PD-DExK,RT,WYL,cas6,cas8b1,cas7b,cas5,cas4,cas1,cas2,TnsE_C	0	0	5	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

35302 : 71221

Anoxybacillus_phage(30.3%)

head,tail,terminase,integrase,portal,coat

attL 34549:34564|attR 74413:74428

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
34549:34564	attL	NA	NA	NA	NA
AXF54586.1\|35302_36133_-	DUF4352 domain-containing protein	A0A2H4PQN2	Staphylococcus_phage	1.8e-13	31.9
AXF54587.1\|36227_36581_-	XRE family transcriptional regulator	S5MUA5	Brevibacillus_phage	4.0e-10	46.5
AXF54588.1\|36738_36963_+	XRE family transcriptional regulator	NA	NA	NA	NA
AXF54589.1\|37731_38037_+	XRE family transcriptional regulator	NA	NA	NA	NA
AXF54590.1\|38054_38789_+	hypothetical protein	A0A2H4J152	uncultured_Caudovirales_phage	1.3e-31	38.3
AXF54591.1\|39013_39220_+	hypothetical protein	NA	NA	NA	NA
AXF54592.1\|39330_39621_+	hypothetical protein	NA	NA	NA	NA
AXF54593.1\|39617_40100_+	ATPase	E5DV79	Deep-sea_thermophilic_phage	1.0e-24	41.1
AXF54594.1\|40112_40799_+	DNA-binding protein	A8ATF0	Listeria_phage	1.1e-75	59.0
AXF54595.1\|40779_42111_+	ATP-dependent helicase	Q8W5V9	Listeria_phage	1.4e-137	58.8
AXF54596.1\|42126_42627_+	DUF669 domain-containing protein	Q9G0E5	Lactococcus_phage	4.9e-22	42.3
AXF54597.1\|42639_44940_+	DNA primase	Q8W5V7	Listeria_phage	4.7e-253	56.6
AXF54598.1\|45259_45451_+	hypothetical protein	NA	NA	NA	NA
AXF57788.1\|45440_45758_+	VRR-NUC domain-containing protein	A8ATF4	Listeria_phage	7.9e-26	58.8
AXF54599.1\|46019_46343_+	hypothetical protein	NA	NA	NA	NA
AXF54600.1\|46627_46918_+	XRE family transcriptional regulator	NA	NA	NA	NA
AXF54601.1\|46918_47155_+	hypothetical protein	A0A2H4JCC5	uncultured_Caudovirales_phage	6.9e-19	61.3
AXF54602.1\|47156_47750_+	HNH endonuclease	M1PKJ5	Streptococcus_phage	1.4e-15	28.0
AXF57789.1\|47842_48151_+	DUF1599 domain-containing protein	A0A142F1S9	Bacillus_phage	7.9e-15	48.8
AXF54603.1\|48155_48494_+	deaminase	F8WPT6	Bacillus_phage	4.9e-26	49.1
AXF54604.1\|48490_48757_+	hypothetical protein	NA	NA	NA	NA
AXF54605.1\|48768_49008_+	hypothetical protein	A0A2H4IZN4	uncultured_Caudovirales_phage	2.3e-09	41.0
AXF54606.1\|49183_49657_+	SAM-dependent methyltransferase	A8ATY8	Listeria_phage	5.4e-63	69.5
AXF57790.1\|49658_50204_+	Holliday junction resolvase RecU	S5MCC4	Brevibacillus_phage	3.9e-33	42.9
AXF54607.1\|50206_50386_+	hypothetical protein	NA	NA	NA	NA
AXF54608.1\|50385_50769_+	hypothetical protein	NA	NA	NA	NA
AXF54609.1\|50765_51035_+	hypothetical protein	NA	NA	NA	NA
AXF54610.1\|51167_51392_+	hypothetical protein	NA	NA	NA	NA
AXF54611.1\|51726_51918_+	hypothetical protein	NA	NA	NA	NA
AXF57791.1\|51952_52120_+	DUF3954 domain-containing protein	NA	NA	NA	NA
AXF54612.1\|52129_52357_+	hypothetical protein	NA	NA	NA	NA
AXF54613.1\|52716_53169_+	DNA-binding response regulator	A0A2P1JTX0	Anoxybacillus_phage	3.3e-09	27.5
AXF57792.1\|53472_54072_+	HNH endonuclease	A0A0N7EMH0	Pseudomonas_phage	1.2e-38	45.2
AXF54614.1\|54008_54632_+\|terminase	terminase small subunit	A7J290	Streptococcus_phage	2.2e-16	43.1
AXF54615.1\|54600_55833_+\|terminase	PBSX family phage terminase large subunit	A0A2H4J8B0	uncultured_Caudovirales_phage	5.8e-149	63.0
AXF54616.1\|55845_57318_+\|portal	phage portal protein	A0A2P1JTZ3	Anoxybacillus_phage	4.6e-145	59.1
AXF54617.1\|57301_58198_+	hypothetical protein	A0A2P1JTW9	Anoxybacillus_phage	3.9e-38	33.8
AXF54618.1\|58219_58441_+	hypothetical protein	NA	NA	NA	NA
AXF54619.1\|58850_59510_+	DUF4355 domain-containing protein	A0A2P1JTW7	Anoxybacillus_phage	6.7e-19	51.0
AXF54620.1\|59528_60539_+\|coat	coat protein	A0A2P1JTX1	Anoxybacillus_phage	2.3e-148	76.9
AXF57793.1\|60566_60896_+\|head,tail	phage head-tail adapter protein	A0A2P1JTX2	Anoxybacillus_phage	2.3e-20	48.6
AXF54621.1\|61006_61546_+	endodeoxyribonuclease	E5DV63	Deep-sea_thermophilic_phage	1.0e-33	46.6
AXF54622.1\|61632_61908_+	hypothetical protein	A0A2P1JTW8	Anoxybacillus_phage	1.3e-16	50.6
AXF54623.1\|61910_62258_+	hypothetical protein	A0A097BY98	Enterococcus_phage	2.6e-06	29.5
AXF54624.1\|62262_62679_+	hypothetical protein	A0A2P1JTV2	Anoxybacillus_phage	6.9e-30	51.1
AXF57794.1\|62776_63292_+\|tail	phage major tail protein, TP901-1 family	A0A2P1JTU8	Anoxybacillus_phage	1.7e-49	57.9
AXF54625.1\|63384_63786_+	hypothetical protein	NA	NA	NA	NA
AXF57795.1\|63920_64133_+	hypothetical protein	A0A2P1JTY6	Anoxybacillus_phage	3.2e-07	46.4
AXF54626.1\|64174_68071_+	hypothetical protein	A0A1X9IGH8	Lactococcus_phage	1.1e-31	34.4
AXF54627.1\|68077_68860_+	hypothetical protein	NA	NA	NA	NA
AXF54628.1\|68871_69546_+	hypothetical protein	NA	NA	NA	NA
AXF54629.1\|69545_69752_+	hypothetical protein	NA	NA	NA	NA
AXF54630.1\|69799_70045_+	hypothetical protein	NA	NA	NA	NA
AXF54631.1\|70378_71221_+\|integrase	integrase	A0A1B1IQT7	uncultured_Mediterranean_phage	4.2e-18	24.7
74413:74428	attR	NA	NA	NA	NA

DBSCAN-SWA_2

1986190 : 1991732

Staphylococcus_phage(66.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AXF57950.1\|1986190_1986634_-	nucleoside deaminase	A0A0B5J096	Pandoravirus	2.6e-11	39.3
AXF56333.1\|1986672_1987149_-	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	1.3e-43	68.9
AXF56334.1\|1987159_1988356_-	bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	A0A2H4PQS2	Staphylococcus_phage	5.3e-115	53.2
AXF56335.1\|1988355_1989021_-	riboflavin synthase	A0A2H4PQS5	Staphylococcus_phage	4.8e-33	36.8
AXF56336.1\|1989005_1990067_-	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A2H4PQS8	Staphylococcus_phage	3.3e-60	38.8
AXF56337.1\|1990520_1991732_+	formaldehyde dehydrogenase, glutathione-independent	A0A2K9L7I1	Tupanvirus	1.8e-09	26.6

DBSCAN-SWA_3

3216823 : 3240818

Caldibacillus_phage(23.08%)

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

attL 3207877:3207893|attR 3229776:3229792

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
3207877:3207893	attL	NA	NA	NA	NA
AXF57396.1\|3216823_3217285_+\|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex ATPase subunit type 1 TsaE	NA	NA	NA	NA
AXF57397.1\|3217281_3217974_+\|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex dimerization subunit type 1 TsaB	NA	NA	NA	NA
AXF58034.1\|3217997_3218429_+	ribosomal-protein-alanine N-acetyltransferase	NA	NA	NA	NA
AXF57398.1\|3218444_3219458_+\|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex transferase subunit TsaD	A0A0R6PI74	Moraxella_phage	3.0e-63	41.7
AXF57399.1\|3220046_3221981_-	ATP-binding cassette domain-containing protein	A0A2K9L3Z8	Tupanvirus	1.6e-57	30.9
AXF57400.1\|3222123_3222756_+	redox-sensing transcriptional repressor Rex	NA	NA	NA	NA
AXF57401.1\|3222787_3222976_+	twin-arginine translocase TatA/TatE family subunit	NA	NA	NA	NA
AXF57402.1\|3222990_3223752_+	twin-arginine translocase subunit TatC	NA	NA	NA	NA
AXF57403.1\|3223797_3224001_-	DUF4305 domain-containing protein	NA	NA	NA	NA
AXF57404.1\|3223991_3224714_-\|protease	CPBP family intramembrane metalloprotease	NA	NA	NA	NA
AXF57405.1\|3224987_3225272_+	co-chaperone GroES	A0A221S4G8	uncultured_virus	3.9e-16	49.5
AXF57406.1\|3225330_3226974_+	chaperonin GroEL	A0A219YK78	uncultured_virus	4.7e-154	56.0
AXF57407.1\|3227051_3228239_-\|integrase	site-specific integrase	A0A1W6JPB2	Staphylococcus_phage	2.5e-96	50.4
AXF57408.1\|3228256_3228862_-	XRE family transcriptional regulator	NA	NA	NA	NA
AXF57409.1\|3229048_3229270_+	XRE family transcriptional regulator	NA	NA	NA	NA
AXF57410.1\|3229272_3229587_+	helix-turn-helix domain-containing protein	A0A1W6JPE8	Staphylococcus_phage	9.5e-24	54.8
AXF57411.1\|3229908_3230211_+	hypothetical protein	NA	NA	NA	NA
3229776:3229792	attR	NA	NA	NA	NA
AXF57412.1\|3230311_3232702_+	DNA primase	A0A1P8BMT9	Lactococcus_phage	4.3e-108	46.7
AXF57413.1\|3233078_3233537_+	hypothetical protein	NA	NA	NA	NA
AXF57414.1\|3233533_3233725_+	hypothetical protein	NA	NA	NA	NA
AXF57415.1\|3233860_3235102_+\|portal	phage portal protein	A0A290G4I4	Caldibacillus_phage	1.3e-55	34.6
AXF57416.1\|3235046_3235622_+\|head,protease	HK97 family phage prohead protease	A0A060ANH0	Enterococcus_phage	9.0e-20	35.9
AXF57417.1\|3235625_3236855_+\|capsid	phage major capsid protein	NA	NA	NA	NA
AXF57418.1\|3236918_3237194_+\|head,tail	phage gp6-like head-tail connector protein	NA	NA	NA	NA
AXF57419.1\|3237196_3237487_+	HNH endonuclease	A0A0P0HRY0	Lactobacillus_phage	6.7e-16	45.9
AXF57420.1\|3237606_3237954_+	hypothetical protein	A0A290GJQ7	Caldibacillus_phage	1.4e-15	39.1
AXF57421.1\|3237953_3239600_+\|terminase	terminase large subunit	A0A290GJW3	Caldibacillus_phage	5.7e-152	49.0
AXF57422.1\|3239614_3240271_+	hypothetical protein	NA	NA	NA	NA
AXF57423.1\|3240276_3240498_+	hypothetical protein	NA	NA	NA	NA
AXF57424.1\|3240494_3240818_+\|head,tail	head-tail adaptor protein	A6M954	Geobacillus_virus	4.7e-10	36.9

DBSCAN-SWA_4

3310977 : 3318573

Pneumococcus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AXF57483.1\|3310977_3311763_-	class I SAM-dependent methyltransferase	A0A1B1IS97	uncultured_Mediterranean_phage	7.7e-06	29.1
AXF57484.1\|3311874_3312465_+	TIGR00730 family Rossman fold protein	A0A1V0S9E9	Catovirus	3.9e-10	30.3
AXF57485.1\|3312559_3312946_+	hypothetical protein	NA	NA	NA	NA
AXF57486.1\|3312970_3313693_+	7-cyano-7-deazaguanine synthase QueC	A0A2H4J8Q7	uncultured_Caudovirales_phage	6.8e-65	57.1
AXF57487.1\|3313692_3314118_+	6-carboxytetrahydropterin synthase QueD	NA	NA	NA	NA
AXF57488.1\|3314114_3314837_+	7-carboxy-7-deazaguanine synthase QueE	E7DN68	Pneumococcus_phage	2.2e-55	46.7
AXF57489.1\|3314849_3315338_+	NADPH-dependent 7-cyano-7-deazaguanine reductase QueF	E7DN65	Pneumococcus_phage	1.4e-45	63.3
AXF57490.1\|3315578_3315776_-	hypothetical protein	NA	NA	NA	NA
AXF57491.1\|3316031_3316883_+	GMC family oxidoreductase	NA	NA	NA	NA
AXF57492.1\|3317061_3318573_+	BCCT family transporter	A0A2I7QNT1	Vibrio_phage	5.8e-10	23.2

DBSCAN-SWA_5

3345616 : 3353812

Synechococcus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AXF57519.1\|3345616_3346909_+	adenylosuccinate lyase	A0A1B3B081	Gordonia_phage	3.8e-18	33.2
AXF57520.1\|3346921_3347632_+	phosphoribosylaminoimidazolesuccinocarboxamide synthase	A0A1D8KNF0	Synechococcus_phage	1.1e-38	38.7
AXF57521.1\|3347624_3347876_+	phosphoribosylformylglycinamidine synthase subunit PurS	NA	NA	NA	NA
AXF57522.1\|3347872_3348559_+	phosphoribosylformylglycinamidine synthase subunit PurQ	NA	NA	NA	NA
AXF57523.1\|3348542_3350765_+	phosphoribosylformylglycinamidine synthase subunit PurL	A6N228	Microbacterium_phage	1.0e-151	40.6
AXF57524.1\|3350740_3352159_+	amidophosphoribosyltransferase	A0A1B1ISH6	uncultured_Mediterranean_phage	9.6e-47	28.9
AXF57525.1\|3352172_3353201_+	phosphoribosylformylglycinamidine cyclo-ligase	A0A1D8KND6	Synechococcus_phage	7.1e-68	43.5
AXF57526.1\|3353197_3353812_+	phosphoribosylglycinamide formyltransferase	M4QRX9	Synechococcus_phage	1.6e-22	33.3

Anti-CRISPR protein detection

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