CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Prophage number
NZ_CP023000	Rhizobium sp. 11515TR strain 10195 plasmid p11515TR-B, complete sequence	0 crisprs	csa3	1
NZ_CP022999	Rhizobium sp. 11515TR strain 10195 plasmid p11515TR-A, complete sequence	0 crisprs	csa3,RT,PD-DExK,WYL	0
NZ_CP022998	Rhizobium sp. 11515TR strain 10195 chromosome, complete genome	0 crisprs	DEDDh,WYL,csa3,cas3,RT	6

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

155095 : 220248

Planktothrix_phage(13.33%)

plate,transposase

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_095433215.1\|155095_156314_+\|transposase	IS3 family transposase	A0A1B0Z042	Pseudomonas_phage	1.2e-74	53.0
WP_095437852.1\|156328_157666_-	oxygen-independent coproporphyrinogen III oxidase	NA	NA	NA	NA
WP_095437853.1\|157745_157859_-	cytochrome bd-I oxidase subunit CydX	NA	NA	NA	NA
WP_095437854.1\|157881_159036_-	cytochrome d ubiquinol oxidase subunit II	NA	NA	NA	NA
WP_095437855.1\|159041_160637_-	cytochrome ubiquinol oxidase subunit I	NA	NA	NA	NA
WP_095437856.1\|160718_162407_-	ATP-binding cassette domain-containing protein	NA	NA	NA	NA
WP_095437857.1\|162403_164164_-	thiol reductant ABC exporter subunit CydD	G9BWD6	Planktothrix_phage	1.5e-12	33.2
WP_095437858.1\|164620_165334_-	CBS domain-containing protein	NA	NA	NA	NA
WP_095438908.1\|165565_166858_-	divalent metal cation transporter	NA	NA	NA	NA
WP_095437859.1\|166875_167580_-	CBS domain-containing protein	A0A2I6B2H4	Macacine_betaherpesvirus	6.3e-07	28.9
WP_095437860.1\|167671_167983_-	hypothetical protein	NA	NA	NA	NA
WP_095437861.1\|168124_170059_-	heavy metal translocating P-type ATPase	E4ZFI9	Streptococcus_phage	1.9e-50	26.7
WP_095437862.1\|170239_170995_-	glycosyltransferase family 25 protein	A0A1S5NQ44	Burkholderia_phage	1.0e-07	26.6
WP_095437863.1\|170998_171853_-	glycosyltransferase family 25 protein	A0A1S5NQ44	Burkholderia_phage	1.7e-11	27.2
WP_095437865.1\|172218_172896_+	response regulator transcription factor	W8CYM9	Bacillus_phage	1.6e-20	30.6
WP_095437866.1\|172892_174230_+	hypothetical protein	NA	NA	NA	NA
WP_095437867.1\|174438_175086_+	BON domain-containing protein	NA	NA	NA	NA
WP_095437868.1\|175118_175418_+	hypothetical protein	NA	NA	NA	NA
WP_095437869.1\|175427_175856_+	universal stress protein	NA	NA	NA	NA
WP_095437870.1\|176199_176595_+	cytochrome c	NA	NA	NA	NA
WP_095437872.1\|177425_178127_-\|transposase	IS6 family transposase	NA	NA	NA	NA
WP_095437873.1\|178802_179066_-	hypothetical protein	NA	NA	NA	NA
WP_095437874.1\|179070_180603_-	RHS repeat protein	NA	NA	NA	NA
WP_095437872.1\|180588_181290_+\|transposase	IS6 family transposase	NA	NA	NA	NA
WP_095437875.1\|181974_182961_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_095437876.1\|183064_184471_+	aldehyde dehydrogenase family protein	NA	NA	NA	NA
WP_095437877.1\|184474_186070_+	GMC family oxidoreductase N-terminal domain-containing protein	A0A1V0SI18	Klosneuvirus	2.2e-55	31.5
WP_095437878.1\|186128_187382_+	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_095437879.1\|187444_188311_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA
WP_095437880.1\|188307_189345_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA
WP_095437881.1\|189341_190046_+	ABC transporter ATP-binding protein	A0A2R8FG22	Brazilian_cedratvirus	1.4e-06	26.1
WP_095437882.1\|190047_190764_+	ABC transporter ATP-binding protein	W6JKT0	Anomala_cuprea_entomopoxvirus	9.2e-06	25.4
WP_095437883.1\|190778_191495_+	SDR family oxidoreductase	F2NZ40	Diadromus_pulchellus_ascovirus	5.4e-14	31.4
WP_095438909.1\|191506_192451_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_095437884.1\|192493_192883_-	nuclear transport factor 2 family protein	NA	NA	NA	NA
WP_095437885.1\|192890_193670_-	MoaF N-terminal domain-containing protein	NA	NA	NA	NA
WP_095437886.1\|193689_194478_-	SDR family oxidoreductase	Q06VL0	Trichoplusia_ni_ascovirus	2.2e-08	26.5
WP_095437887.1\|195041_195827_+	SDR family oxidoreductase	NA	NA	NA	NA
WP_095437888.1\|195839_197231_+	FAD-dependent oxidoreductase	NA	NA	NA	NA
WP_095437889.1\|197267_197603_-	hypothetical protein	NA	NA	NA	NA
WP_095438910.1\|197602_198469_-	hypothetical protein	NA	NA	NA	NA
WP_095437890.1\|198526_199672_-	mandelate racemase/muconate lactonizing enzyme family protein	Q6A202	Oenococcus_phage	9.8e-34	27.9
WP_095437891.1\|199811_200570_+	FadR family transcriptional regulator	NA	NA	NA	NA
WP_095437892.1\|200566_201355_+	SDR family oxidoreductase	NA	NA	NA	NA
WP_095437893.1\|201457_202705_+	sugar ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_095437894.1\|202715_203639_+	sugar ABC transporter permease	NA	NA	NA	NA
WP_095437895.1\|203635_204484_+	carbohydrate ABC transporter permease	NA	NA	NA	NA
WP_095437896.1\|204497_205574_+	ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	1.4e-26	34.4
WP_095437897.1\|206443_207586_+	polysaccharide export protein	NA	NA	NA	NA
WP_095437898.1\|207597_208509_-	protein kinase	NA	NA	NA	NA
WP_095437899.1\|208505_209891_-	type VI secretion system-associated protein TagF	I6PCV8	Cronobacter_phage	6.8e-05	34.6
WP_095437900.1\|209901_213384_-	type VI secretion system membrane subunit TssM	NA	NA	NA	NA
WP_095437901.1\|213380_214904_-	type VI secretion system protein TssL	NA	NA	NA	NA
WP_095437902.1\|214900_216241_-\|plate	type VI secretion system baseplate subunit TssK	NA	NA	NA	NA
WP_158225463.1\|216237_217431_-	FHA domain-containing protein	NA	NA	NA	NA
WP_095437904.1\|217420_218446_-\|plate	type VI secretion system baseplate subunit TssG	NA	NA	NA	NA
WP_095437905.1\|218466_220248_-\|plate	type VI secretion system baseplate subunit TssF	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

2. NZ_CP022998

Click the left colored region to show detailed information

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

354671 : 374526

Pseudomonas_phage(20.0%)

transposase,tail

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_095433215.1\|354671_355890_+\|transposase	IS3 family transposase	A0A1B0Z042	Pseudomonas_phage	1.2e-74	53.0
WP_095433216.1\|356337_358677_+	methyl-accepting chemotaxis protein	A0A2H4J162	uncultured_Caudovirales_phage	1.0e-05	85.3
WP_158225400.1\|359464_359914_+\|transposase	transposase	NA	NA	NA	NA
WP_095433219.1\|359910_360267_+	IS66 family insertion sequence element accessory protein TnpB	NA	NA	NA	NA
WP_095433220.1\|360338_361871_+\|transposase	IS66 family transposase	A0A0P0ZEB3	Stx2-converting_phage	1.0e-102	40.4
WP_095436090.1\|361928_362816_-	sigma-70 family RNA polymerase sigma factor	NA	NA	NA	NA
WP_095433221.1\|363036_363492_+	carboxymuconolactone decarboxylase family protein	NA	NA	NA	NA
WP_146214366.1\|363998_364289_+	hypothetical protein	NA	NA	NA	NA
WP_158225401.1\|364486_366160_-	flagellin	NA	NA	NA	NA
WP_158225402.1\|366893_372170_-	putative Ig domain-containing protein	A0A142KBU8	Gordonia_phage	1.3e-11	58.3
WP_095433225.1\|372884_373442_-\|tail	tail fiber protein	NA	NA	NA	NA
WP_095433226.1\|373452_374001_-\|tail	phage tail protein	A0A2R3ZX78	Enterobacter_phage	9.8e-08	43.9
WP_095433227.1\|374016_374526_-\|tail	phage tail protein	NA	NA	NA	NA

DBSCAN-SWA_2

486303 : 496655

Escherichia_phage(37.5%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_095433318.1\|486303_487404_+	UDP-N-acetylglucosamine 2-epimerase (non-hydrolyzing)	A0A1V0SAG5	Catovirus	1.2e-28	29.5
WP_174718577.1\|487538_488558_+	glycosyl transferase	NA	NA	NA	NA
WP_095433319.1\|488586_489384_+	glycosyltransferase	NA	NA	NA	NA
WP_095433320.1\|489624_491214_-\|transposase	IS66 family transposase	S5VTP8	Leptospira_phage	1.4e-25	38.3
WP_016557443.1\|491267_491621_-	IS66 family insertion sequence element accessory protein TnpB	S5VXZ8	Leptospira_phage	1.2e-19	47.3
WP_095433321.1\|491601_492024_-\|transposase	transposase	A0A0P0ZBP6	Stx2-converting_phage	3.7e-07	37.8
WP_095433322.1\|493111_493660_-	dTDP-4-dehydrorhamnose 3,5-epimerase	A0A291LA62	Escherichia_phage	8.8e-49	56.5
WP_095433323.1\|493715_494603_-	glucose-1-phosphate thymidylyltransferase RfbA	A0A291LA53	Escherichia_phage	1.8e-99	61.8
WP_095433324.1\|494688_495591_-	dTDP-4-dehydrorhamnose reductase	A0A291LA50	Escherichia_phage	5.3e-27	34.6
WP_095433325.1\|495587_496655_-	dTDP-glucose 4,6-dehydratase	I7HTA3	Enterobacteria_phage	4.9e-88	48.1

DBSCAN-SWA_3

2134161 : 2139511

Sinorhizobium_phage(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_095436246.1\|2134161_2134551_-	HNH endonuclease	A0A076G6E7	Sinorhizobium_phage	2.1e-49	76.0
WP_095434582.1\|2134547_2135303_-	DUF5131 family protein	A0A240F4U9	Ochrobactrum_phage	3.7e-106	72.5
WP_095434583.1\|2135304_2136441_-	hypothetical protein	A0A0F6TJP0	Escherichia_coli_O157_typing_phage	7.2e-29	34.5
WP_095434584.1\|2136437_2137496_-	PD-(D/E)XK nuclease-like domain-containing protein	A0A141GF09	Brucella_phage	4.8e-27	30.4
WP_095434585.1\|2137528_2137738_-	hypothetical protein	NA	NA	NA	NA
WP_095434586.1\|2137734_2138091_-	hypothetical protein	NA	NA	NA	NA
WP_095434587.1\|2138083_2138296_-	hypothetical protein	NA	NA	NA	NA
WP_095434588.1\|2138292_2138472_-	hypothetical protein	NA	NA	NA	NA
WP_095434589.1\|2138471_2138744_-	hypothetical protein	A0A0U2BX35	Paracoccus_phage	3.7e-08	42.4
WP_095434590.1\|2138809_2139004_-	hypothetical protein	NA	NA	NA	NA
WP_095434591.1\|2139000_2139249_-	hypothetical protein	NA	NA	NA	NA
WP_146214379.1\|2139289_2139511_-	hypothetical protein	W6E8N4	Rhizobium_phage	5.5e-18	63.9

DBSCAN-SWA_4

2158713 : 2187561

Burkholderia_phage(22.73%)

capsid,plate

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_095434618.1\|2158713_2160216_+	DUF1073 domain-containing protein	A0A0U5AT52	Pseudomonas_phage	1.3e-121	51.5
WP_158225421.1\|2160202_2161030_+\|capsid	minor capsid protein	Q6IWU3	Burkholderia_phage	6.4e-35	34.8
WP_095434620.1\|2161019_2161520_+	hypothetical protein	NA	NA	NA	NA
WP_095434621.1\|2161549_2161735_+	hypothetical protein	NA	NA	NA	NA
WP_095434622.1\|2161809_2163525_+	DUF2213 domain-containing protein	Q6IWU4	Burkholderia_phage	1.3e-74	40.9
WP_095434623.1\|2163540_2164269_+	hypothetical protein	NA	NA	NA	NA
WP_095434624.1\|2164283_2165423_+	DUF2184 domain-containing protein	Q6IWU6	Burkholderia_phage	2.8e-89	49.0
WP_095434625.1\|2165529_2165919_+	hypothetical protein	NA	NA	NA	NA
WP_095434626.1\|2165925_2166348_+	DUF4054 domain-containing protein	A0A0F6WDD5	Pseudomonas_phage	2.0e-16	40.4
WP_095436251.1\|2166389_2166902_+	hypothetical protein	Q6IWU9	Burkholderia_phage	1.2e-15	33.1
WP_095434627.1\|2166898_2167276_+	hypothetical protein	H9C0W3	Aeromonas_phage	7.7e-28	50.0
WP_095434628.1\|2167282_2168014_+	hypothetical protein	NA	NA	NA	NA
WP_095434629.1\|2168048_2170010_+	DUF3383 domain-containing protein	Q6UKE8	Burkholderia_virus	2.7e-60	30.6
WP_095434630.1\|2170033_2170465_+	hypothetical protein	Q2NPD1	Xanthomonas_phage	5.7e-19	39.0
WP_158225434.1\|2172187_2173357_+	hypothetical protein	A0A0S2MWG1	Cellulophaga_phage	4.4e-05	37.1
WP_095434632.1\|2173356_2173998_+	hypothetical protein	K4IBX5	Acinetobacter_phage	1.5e-15	31.8
WP_095434633.1\|2174003_2174306_+	hypothetical protein	A0A077K9U4	Edwardsiella_phage	3.0e-14	39.4
WP_095434634.1\|2174312_2174735_-	hypothetical protein	NA	NA	NA	NA
WP_146214383.1\|2174771_2175632_+	MBL fold metallo-hydrolase	A0A068CDF8	Acinetobacter_phage	3.3e-26	29.7
WP_095434636.1\|2175633_2176293_+\|plate	baseplate assembly protein	NA	NA	NA	NA
WP_095434637.1\|2176294_2176645_+	hypothetical protein	A0A068CCM1	Acinetobacter_phage	6.2e-16	43.5
WP_095434638.1\|2176657_2178091_+\|plate	baseplate J/gp47 family protein	E2GM17	Acinetobacter_phage	2.5e-42	32.2
WP_095434639.1\|2178090_2178834_+	DUF2612 domain-containing protein	H9C0Y0	Aeromonas_phage	1.6e-29	41.7
WP_095434640.1\|2178852_2179851_+	hypothetical protein	H9C0Y2	Aeromonas_phage	4.7e-16	31.6
WP_146214384.1\|2179852_2181535_+	hypothetical protein	A0A0U1ZHH3	Ralstonia_phage	6.3e-05	40.0
WP_158225422.1\|2181652_2182720_+	acyltransferase family protein	NA	NA	NA	NA
WP_095434643.1\|2182787_2184059_+	hypothetical protein	A0A1B1IR31	uncultured_Mediterranean_phage	1.2e-08	38.1
WP_158225423.1\|2184149_2184884_+	peptidoglycan-binding protein	E5E3R7	Burkholderia_phage	1.4e-09	59.4
WP_095434645.1\|2184935_2185319_+	hypothetical protein	NA	NA	NA	NA
WP_146214386.1\|2185331_2185640_+	hypothetical protein	NA	NA	NA	NA
WP_095434647.1\|2185662_2185917_+	hypothetical protein	NA	NA	NA	NA
WP_146214387.1\|2186040_2186337_+	hypothetical protein	B4UTS1	Rhizobium_phage	9.3e-05	44.6
WP_146214388.1\|2186466_2187561_+	hypothetical protein	G8DCV8	Silicibacter_phage	1.2e-52	38.9

DBSCAN-SWA_5

2343637 : 2356111

uncultured_Mediterranean_phage(88.89%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_069612288.1\|2343637_2344435_+	segregation/condensation protein A	A0A1B1IVW1	uncultured_Mediterranean_phage	5.2e-34	36.9
WP_095434758.1\|2344448_2345171_+	SMC-Scp complex subunit ScpB	A0A1B1IVT7	uncultured_Mediterranean_phage	1.4e-38	45.3
WP_095434759.1\|2345416_2345617_+	twin-arginine translocase TatA/TatE family subunit	A0A1B1IVR9	uncultured_Mediterranean_phage	2.7e-08	58.5
WP_095434760.1\|2345672_2346398_+	twin-arginine translocase subunit TatB	NA	NA	NA	NA
WP_095434761.1\|2346394_2347216_+	twin-arginine translocase subunit TatC	A0A1B1IVR7	uncultured_Mediterranean_phage	7.5e-52	46.1
WP_095434762.1\|2347322_2348606_+\|tRNA	serine--tRNA ligase	A0A1B1IVT2	uncultured_Mediterranean_phage	1.6e-96	46.4
WP_095434763.1\|2348621_2349386_+	5'/3'-nucleotidase SurE	A0A1B1ITZ2	uncultured_Mediterranean_phage	2.3e-23	31.3
WP_092715710.1\|2349390_2350044_+	protein-L-isoaspartate(D-aspartate) O-methyltransferase	A0A1B1IU40	uncultured_Mediterranean_phage	8.9e-16	36.5
WP_095434764.1\|2350214_2351903_+	peptidoglycan DD-metalloendopeptidase family protein	I3PV24	Clostridium_phage	2.0e-14	34.2
WP_095436266.1\|2351981_2352854_-	ATP-binding protein	NA	NA	NA	NA
WP_047634659.1\|2353060_2353408_+	preprotein translocase subunit YajC	NA	NA	NA	NA
WP_095434765.1\|2353567_2356111_+	protein translocase subunit SecDF	A0A1B1IVP7	uncultured_Mediterranean_phage	1.1e-56	47.4

DBSCAN-SWA_6

2501170 : 2515173

uncultured_Mediterranean_phage(62.5%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_095434877.1\|2501170_2504092_-	excinuclease ABC subunit UvrA	A0A1B1IVR3	uncultured_Mediterranean_phage	0.0e+00	62.2
WP_095436273.1\|2504363_2504930_+	single-stranded DNA-binding protein	R9TP78	Rhizobium_phage	2.1e-45	73.7
WP_095436274.1\|2505361_2505994_-	MarC family protein	NA	NA	NA	NA
WP_095434879.1\|2506218_2509014_+	DNA gyrase subunit A	G3M9Z5	Bacillus_virus	6.2e-98	34.1
WP_095436275.1\|2509170_2510061_-	NAD(P)-dependent oxidoreductase	A0A2C9DSV6	Western_grey_kangaroopox_virus	3.0e-06	34.1
WP_015339886.1\|2510448_2510607_-	hypothetical protein	NA	NA	NA	NA
WP_015339888.1\|2511124_2511637_+	pantetheine-phosphate adenylyltransferase	A0A1B1IVQ3	uncultured_Mediterranean_phage	1.8e-24	36.5
WP_095434880.1\|2511666_2512239_+	peptidylprolyl isomerase	A0A1B1IVS0	uncultured_Mediterranean_phage	2.5e-46	57.0
WP_092715425.1\|2512352_2512862_+	peptidylprolyl isomerase	A0A1B1IVS0	uncultured_Mediterranean_phage	6.9e-48	62.3
WP_095434881.1\|2512950_2514036_+\|tRNA	tRNA preQ1(34) S-adenosylmethionine ribosyltransferase-isomerase QueA	NA	NA	NA	NA
WP_095434882.1\|2514042_2515173_+\|tRNA	tRNA guanosine(34) transglycosylase Tgt	A0A1B1IVQ4	uncultured_Mediterranean_phage	1.4e-101	52.5

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NZ_CP023000

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. NZ_CP022998

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection