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_CP010447	Francisella tularensis subsp. tularensis str. SCHU S4 substr. NR-28534 plasmid, complete sequence	0 crisprs	NA	0	0	0	0
NZ_CP010446	Francisella tularensis subsp. tularensis str. SCHU S4 substr. NR-28534, complete genome	0 crisprs	DEDDh,cas9,cas4,csa3,cas3	0	0	4	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

208686 : 270124

Morganella_phage(25.0%)

protease,tRNA,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_003021848.1\|208686_210417_+\|tRNA	lysine--tRNA ligase	A0A1V0SAC0	Catovirus	7.7e-91	36.0
WP_003017470.1\|210801_211344_-	TIGR00645 family protein	K4K6D8	Caulobacter_phage	7.9e-10	24.2
WP_003021845.1\|211442_212315_-\|protease	CPBP family intramembrane metalloprotease	NA	NA	NA	NA
WP_003021841.1\|212323_213865_-	glutaminase A	NA	NA	NA	NA
WP_003021839.1\|213946_214984_-	glutamine synthetase	A0A1V0SAX1	Catovirus	1.1e-76	46.1
WP_003021836.1\|215103_216081_-	DNA polymerase III subunit delta	NA	NA	NA	NA
WP_003021833.1\|216166_216685_+	lipocalin	A0A1W6JNX6	Morganella_phage	6.6e-38	47.2
WP_155104720.1\|218262_218418_+	hypothetical protein	NA	NA	NA	NA
WP_003028736.1\|218619_218829_+	serine permease	NA	NA	NA	NA
WP_003019836.1\|218820_219564_-\|transposase	IS5-like element ISFtu2 family transposase	A0A0N9SJT9	Paenibacillus_phage	1.2e-11	33.3
WP_003021830.1\|220814_222362_-	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase	Q58MG4	Prochlorococcus_phage	1.2e-71	49.1
WP_003021829.1\|222538_223825_+	adenylosuccinate synthase	G5CQQ4	Megavirus	9.6e-54	31.0
WP_003013909.1\|223828_224362_+	hypoxanthine phosphoribosyltransferase	A0A2K9L634	Tupanvirus	1.6e-15	31.4
WP_003028739.1\|225196_226039_-	metal ABC transporter permease	NA	NA	NA	NA
WP_003017524.1\|225980_226658_-	ATP-binding cassette domain-containing protein	F2Y2R6	Organic_Lake_phycodnavirus	7.3e-13	33.5
WP_003017523.1\|226659_227577_-	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_003021820.1\|228992_229457_-	hypothetical protein	NA	NA	NA	NA
WP_003013898.1\|229467_230064_-	NAD(P)H:quinone oxidoreductase	NA	NA	NA	NA
WP_003017519.1\|230070_231258_+	YihY family inner membrane protein	NA	NA	NA	NA
WP_003021817.1\|231276_231834_+	nicotinamide mononucleotide transporter	NA	NA	NA	NA
WP_003021811.1\|231847_234001_+	primosomal protein N'	NA	NA	NA	NA
WP_003028744.1\|233984_234140_-	hypothetical protein	NA	NA	NA	NA
WP_004578540.1\|234130_234914_+\|transposase	IS630-like element ISFtu1 family transposase	NA	NA	NA	NA
WP_004578475.1\|234955_235252_+	hypothetical protein	NA	NA	NA	NA
WP_003023114.1\|235258_235606_-	cytochrome b561	NA	NA	NA	NA
WP_003014140.1\|235853_236849_-	inorganic phosphate transporter	NA	NA	NA	NA
WP_003017784.1\|236866_237523_-	hypothetical protein	NA	NA	NA	NA
WP_003021808.1\|237759_239304_+	acid phosphatase	NA	NA	NA	NA
WP_003021805.1\|239310_240087_-	biotin-dependent carboxyltransferase	NA	NA	NA	NA
WP_003021803.1\|240128_240827_-	LamB/YcsF family protein	NA	NA	NA	NA
WP_075360622.1\|241481_242513_-	MFS transporter	NA	NA	NA	NA
WP_004578540.1\|242611_243396_-\|transposase	IS630-like element ISFtu1 family transposase	NA	NA	NA	NA
WP_003023117.1\|243419_243614_-	hypothetical protein	NA	NA	NA	NA
WP_003021796.1\|243648_244185_-	oligoribonuclease	Q8B5Y0	Diachasmimorpha_longicaudata_entomopoxvirus	5.4e-27	36.4
WP_003014194.1\|244187_244757_-	elongation factor P	NA	NA	NA	NA
WP_003021793.1\|244796_245204_-	prepilin-type N-terminal cleavage/methylation domain-containing protein	NA	NA	NA	NA
WP_003021790.1\|245216_246140_-	lysophospholipid acyltransferase family protein	A0A1W6JP29	Morganella_phage	7.4e-32	33.2
WP_003021787.1\|246200_247100_-	lysophospholipid acyltransferase family protein	A0A1W6JP29	Morganella_phage	4.3e-37	36.5
WP_003021785.1\|247106_248762_-	membrane protein insertase YidC	NA	NA	NA	NA
WP_003031021.1\|248770_249043_-	membrane protein insertion efficiency factor YidD	A0A2H4PQM5	Staphylococcus_phage	3.5e-14	53.5
WP_003042890.1\|248994_249396_-	ribonuclease P protein component	NA	NA	NA	NA
WP_003014180.1\|249337_249472_-	50S ribosomal protein L34	NA	NA	NA	NA
WP_003021779.1\|249563_250022_-	hypothetical protein	NA	NA	NA	NA
WP_003021776.1\|250148_250922_+	shikimate dehydrogenase	NA	NA	NA	NA
WP_003021772.1\|250988_252344_+	UDP-N-acetylmuramate--L-alanine ligase	NA	NA	NA	NA
WP_003021769.1\|252336_253209_+	16S rRNA (cytidine(1402)-2'-O)-methyltransferase	M1PLC5	Streptococcus_phage	5.9e-39	38.5
WP_003021766.1\|253219_253690_-	hypothetical protein	NA	NA	NA	NA
WP_003014157.1\|254029_254593_+	haloacid dehalogenase	NA	NA	NA	NA
WP_003021763.1\|254665_255445_+	hypothetical protein	NA	NA	NA	NA
WP_003021760.1\|255428_258170_+	DEAD/DEAH box helicase	Q9T1H9	Lactobacillus_phage	9.5e-27	27.4
WP_003021757.1\|258245_259082_+	universal stress protein	A0A1W6JNV4	Morganella_phage	8.2e-06	31.0
WP_003023124.1\|259197_259380_+	hypothetical protein	NA	NA	NA	NA
WP_004578540.1\|259441_260225_+\|transposase	IS630-like element ISFtu1 family transposase	NA	NA	NA	NA
WP_011242228.1\|260395_260767_+	hypothetical protein	NA	NA	NA	NA
WP_011242229.1\|260867_263111_+	Fe(2+) transporter permease subunit FeoB	NA	NA	NA	NA
WP_003021745.1\|266971_267859_+	branched-chain amino acid transaminase	NA	NA	NA	NA
WP_003021743.1\|267869_269243_+	2-isopropylmalate synthase	NA	NA	NA	NA
WP_004578540.1\|269339_270124_-\|transposase	IS630-like element ISFtu1 family transposase	NA	NA	NA	NA

DBSCAN-SWA_2

351079 : 384322

Only_Syngen_Nebraska_virus(25.0%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_004578540.1\|351079_351863_+\|transposase	IS630-like element ISFtu1 family transposase	NA	NA	NA	NA
WP_003020021.1\|352792_353788_+	hypothetical protein	NA	NA	NA	NA
WP_004578540.1\|354079_354864_-\|transposase	IS630-like element ISFtu1 family transposase	NA	NA	NA	NA
WP_102947977.1\|354854_355112_+	hypothetical protein	NA	NA	NA	NA
WP_003020023.1\|355230_356289_+	hypothetical protein	NA	NA	NA	NA
WP_003020026.1\|358206_359847_+	CTP synthase	A0A1J0FA14	Only_Syngen_Nebraska_virus	2.2e-148	50.7
WP_003020029.1\|359919_360342_+	nucleoside-diphosphate kinase	A0A167REB2	Powai_lake_megavirus	9.5e-19	42.1
WP_003027135.1\|360383_361286_+	acetyl-CoA carboxylase carboxyltransferase subunit beta	NA	NA	NA	NA
WP_003020032.1\|361300_362482_+	bifunctional folylpolyglutamate synthase/dihydrofolate synthase	NA	NA	NA	NA
WP_003020038.1\|362953_364015_+	sel1 repeat family protein	NA	NA	NA	NA
WP_003020041.1\|364037_365582_+	murein biosynthesis integral membrane protein MurJ	NA	NA	NA	NA
WP_003027123.1\|367351_367567_-	50S ribosomal protein L31	NA	NA	NA	NA
WP_003020049.1\|367688_368420_-	ferredoxin--NADP reductase	NA	NA	NA	NA
WP_003020051.1\|368900_369350_+	nuclear transport factor 2 family protein	NA	NA	NA	NA
WP_004578540.1\|369473_370258_-\|transposase	IS630-like element ISFtu1 family transposase	NA	NA	NA	NA
WP_003020053.1\|370425_371298_+	hypothetical protein	NA	NA	NA	NA
WP_003020056.1\|371556_372906_+	amino acid permease	NA	NA	NA	NA
WP_003019314.1\|372927_373752_-	SDR family NAD(P)-dependent oxidoreductase	NA	NA	NA	NA
WP_003016458.1\|373888_374359_-	hypothetical protein	NA	NA	NA	NA
WP_003027159.1\|375498_375636_-	hypothetical protein	NA	NA	NA	NA
WP_004578540.1\|375626_376410_+\|transposase	IS630-like element ISFtu1 family transposase	NA	NA	NA	NA
WP_003020060.1\|376734_378621_-	molecular chaperone HtpG	A0A1B1ISV4	uncultured_Mediterranean_phage	2.8e-102	35.1
WP_004578540.1\|378782_379566_+\|transposase	IS630-like element ISFtu1 family transposase	NA	NA	NA	NA
WP_003020021.1\|379858_380854_-	hypothetical protein	NA	NA	NA	NA
WP_003020063.1\|381890_383240_-	NADP-specific glutamate dehydrogenase	NA	NA	NA	NA
WP_003019836.1\|383578_384322_+\|transposase	IS5-like element ISFtu2 family transposase	A0A0N9SJT9	Paenibacillus_phage	1.2e-11	33.3

DBSCAN-SWA_3

1624955 : 1684137

Erysipelothrix_phage(33.33%)

tRNA,holin,transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003014896.1\|1624955_1625720_+\|holin	phosphatidylcholine synthase	NA	NA	NA	NA
WP_003014894.1\|1625789_1626599_+	polyphosphate kinase 2	NA	NA	NA	NA
WP_003022467.1\|1626969_1628013_-	glycoside hydrolase family 3 protein	NA	NA	NA	NA
WP_003022469.1\|1628419_1628716_-	hypothetical protein	NA	NA	NA	NA
WP_003018080.1\|1628886_1629474_-	membrane protein	NA	NA	NA	NA
WP_003014884.1\|1629532_1630675_-	lipid-A-disaccharide synthase	NA	NA	NA	NA
WP_003022475.1\|1630674_1631454_-	acyl-ACP--UDP-N-acetylglucosamine O-acyltransferase	NA	NA	NA	NA
WP_003014877.1\|1631456_1631948_-	3-hydroxyacyl-ACP dehydratase FabZ	NA	NA	NA	NA
WP_003014857.1\|1631962_1632976_-	UDP-3-O-(3-hydroxymyristoyl)glucosamine N-acyltransferase	NA	NA	NA	NA
WP_003022478.1\|1632994_1633498_-	OmpH family outer membrane protein	NA	NA	NA	NA
WP_003022480.1\|1633633_1636012_-	outer membrane protein assembly factor BamA	NA	NA	NA	NA
WP_003018074.1\|1636017_1637175_-	1-deoxy-D-xylulose-5-phosphate reductoisomerase	NA	NA	NA	NA
WP_003022482.1\|1637180_1639787_-	DNA gyrase subunit A	G3M9Z5	Bacillus_virus	2.0e-106	32.2
WP_003022484.1\|1640045_1640591_+	hypothetical protein	NA	NA	NA	NA
WP_003022487.1\|1640626_1641712_+	sugar-binding protein	Q2A0D0	Sodalis_phage	4.1e-05	47.6
WP_003018069.1\|1641746_1642409_-	uracil-DNA glycosylase	A0A172DS90	Canid_alphaherpesvirus	4.9e-54	48.4
WP_003022490.1\|1642405_1645279_-	DEAD/DEAH box helicase	A0A2K5B2C2	Erysipelothrix_phage	4.6e-64	26.8
WP_003022493.1\|1645515_1646046_-	hypothetical protein	NA	NA	NA	NA
WP_003022494.1\|1646114_1646399_-	GIY-YIG nuclease family protein	NA	NA	NA	NA
WP_003022496.1\|1646403_1646847_-\|transposase	transposase	A0A2K5B255	Erysipelothrix_phage	3.4e-11	51.9
WP_003022498.1\|1646893_1647514_-	site-specific DNA-methyltransferase	Q1MVP0	Enterobacteria_phage	1.1e-18	34.8
WP_003022500.1\|1647498_1648059_-	hypothetical protein	A0A2K5B255	Erysipelothrix_phage	2.2e-15	32.7
WP_004578540.1\|1648754_1649539_-\|transposase	IS630-like element ISFtu1 family transposase	NA	NA	NA	NA
WP_003024940.1\|1649620_1649785_+	hypothetical protein	NA	NA	NA	NA
WP_003022503.1\|1649798_1650080_-	DUF4282 domain-containing protein	NA	NA	NA	NA
WP_003017060.1\|1650092_1651595_-	APC family permease	NA	NA	NA	NA
WP_003017058.1\|1651727_1651964_-	hypothetical protein	NA	NA	NA	NA
WP_003022505.1\|1651960_1652704_-	hypothetical protein	NA	NA	NA	NA
WP_003022507.1\|1652706_1653402_-	bifunctional 2-polyprenyl-6-hydroxyphenol methylase/3-demethylubiquinol 3-O-methyltransferase UbiG	NA	NA	NA	NA
WP_003022509.1\|1653504_1654644_+	VacJ family lipoprotein	NA	NA	NA	NA
WP_003022513.1\|1658566_1659559_+	LysR family transcriptional regulator	NA	NA	NA	NA
WP_011242287.1\|1660127_1660526_+	hypothetical protein	NA	NA	NA	NA
WP_003022515.1\|1660592_1662050_+	hypothetical protein	NA	NA	NA	NA
WP_003022517.1\|1662113_1664948_+	hypothetical protein	NA	NA	NA	NA
WP_004578540.1\|1665044_1665829_-\|transposase	IS630-like element ISFtu1 family transposase	NA	NA	NA	NA
WP_003022519.1\|1666313_1667828_-	fumarate hydratase	NA	NA	NA	NA
WP_003024150.1\|1668381_1668579_-	hypothetical protein	NA	NA	NA	NA
WP_003022521.1\|1668582_1670622_-	ATP-dependent DNA helicase RecG	NA	NA	NA	NA
WP_003022524.1\|1670751_1671096_+	lipoprotein	NA	NA	NA	NA
WP_003014822.1\|1671229_1671466_+	50S ribosomal protein L28	NA	NA	NA	NA
WP_003014820.1\|1671492_1671648_+	50S ribosomal protein L33	NA	NA	NA	NA
WP_003022526.1\|1671682_1672369_+	septum site-determining protein MinC	NA	NA	NA	NA
WP_003014814.1\|1672408_1673233_+	septum site-determining protein MinD	NA	NA	NA	NA
WP_003014812.1\|1673235_1673508_+	cell division topological specificity factor MinE	NA	NA	NA	NA
WP_003022528.1\|1673521_1674325_+	ABC transporter ATP-binding protein	G3M9Y6	Bacillus_virus	5.6e-20	29.2
WP_003022530.1\|1674328_1675093_+	ABC transporter permease	NA	NA	NA	NA
WP_003022532.1\|1675092_1675626_+	outer membrane lipid asymmetry maintenance protein MlaD	NA	NA	NA	NA
WP_003022534.1\|1675693_1676362_+	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_003014804.1\|1676361_1676655_+	STAS domain-containing protein	NA	NA	NA	NA
WP_003022536.1\|1676671_1676908_+	BolA/IbaG family iron-sulfur metabolism protein	NA	NA	NA	NA
WP_004578645.1\|1677187_1678114_-	hypothetical protein	NA	NA	NA	NA
WP_004578540.1\|1678104_1678888_+\|transposase	IS630-like element ISFtu1 family transposase	NA	NA	NA	NA
WP_003024161.1\|1679062_1679293_+	hypothetical protein	NA	NA	NA	NA
WP_003022540.1\|1679360_1680755_+\|tRNA	cysteine--tRNA ligase	A0A2L2DK39	Acanthamoeba_polyphaga_mimivirus	7.4e-52	30.4
WP_003022542.1\|1680758_1681703_+	50S ribosomal protein L3 N(5)-glutamine methyltransferase	NA	NA	NA	NA
WP_004578540.1\|1683353_1684137_+\|transposase	IS630-like element ISFtu1 family transposase	NA	NA	NA	NA

DBSCAN-SWA_4

1739498 : 1748318

Indivirus(28.57%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_014551217.1\|1739498_1740113_-	sodium:proton antiporter	A0A2H4J428	uncultured_Caudovirales_phage	1.1e-15	35.0
WP_003022623.1\|1740503_1741571_+	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A1V0SE20	Indivirus	4.8e-51	35.4
WP_003022624.1\|1741563_1742169_+	riboflavin synthase	A0A1V0SE20	Indivirus	2.7e-19	36.8
WP_003022626.1\|1742161_1743373_+	3,4-dihydroxy-2-butanone-4-phosphate synthase	A0A2H4PQS2	Staphylococcus_phage	7.3e-88	44.6
WP_003017614.1\|1743382_1743826_+	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	2.2e-26	46.4
WP_003017613.1\|1743822_1744347_+	peptide deformylase	E3SLL2	Synechococcus_phage	7.2e-16	39.7
WP_003022628.1\|1744428_1745421_+	hypothetical protein	NA	NA	NA	NA
WP_003024261.1\|1745440_1746586_-\|tRNA	tRNA 2-thiouridine(34) synthase MnmA	NA	NA	NA	NA
WP_003022642.1\|1746533_1748318_-	elongation factor 4	A0A2K9L6L3	Tupanvirus	4.2e-23	42.6

Anti-CRISPR protein detection

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