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_CP047308	Citrobacter freundii strain L75 plasmid pCf75, complete sequence	0 crisprs	DEDDh	1
NZ_CP047307	Citrobacter freundii strain L75 chromosome, complete genome	2 crisprs	WYL,csa3,cas3,DEDDh,DinG,RT	7
NZ_CP047309	Citrobacter freundii strain L75 plasmid pCf76, complete sequence	0 crisprs	csa3,DEDDh	1

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

18006 : 42297

Escherichia_phage(55.56%)

integrase,transposase

attL 17955:18014|attR 39375:42350

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
17955:18014	attL	NA	NA	NA	NA
WP_001067855.1\|18006_18711_-\|transposase	IS6-like element IS26 family transposase	A0A077SL39	Escherichia_phage	1.8e-139	100.0
WP_000557454.1\|18943_19804_+	aminoglycoside N-acetyltransferase AAC(3)-IId	NA	NA	NA	NA
WP_001067855.1\|20172_20877_+\|transposase	IS6-like element IS26 family transposase	A0A077SL39	Escherichia_phage	1.8e-139	100.0
WP_000845048.1\|21351_22365_-\|integrase	class 1 integron integrase IntI1	A0A1P8DJJ6	Virus_Rctr41k	1.0e-71	45.5
WP_063840321.1\|22656_23211_+	fluoroquinolone-acetylating aminoglycoside 6'-N-acetyltransferase AAC(6')-Ib-cr5	NA	NA	NA	NA
WP_001749986.1\|23307_23760_+	NAD(+)--rifampin ADP-ribosyltransferase Arr-3	NA	NA	NA	NA
WP_001749985.1\|23892_24366_+	trimethoprim-resistant dihydrofolate reductase DfrA27	G3MBI7	Bacillus_virus	1.4e-15	29.1
WP_001749984.1\|24546_25392_+	ANT(3'')-Ia family aminoglycoside nucleotidyltransferase AadA16	NA	NA	NA	NA
WP_000679427.1\|25508_25856_+	quaternary ammonium compound efflux SMR transporter QacE delta 1	NA	NA	NA	NA
WP_000259031.1\|25849_26689_+	sulfonamide-resistant dihydropteroate synthase Sul1	A0A0B5J4J5	Pandoravirus	5.0e-11	27.2
WP_000050481.1\|27093_28635_+\|transposase	IS91 family transposase	NA	NA	NA	NA
WP_004201167.1\|29311_29677_-	bleomycin binding protein Ble-MBL	NA	NA	NA	NA
WP_004201164.1\|29680_30493_-	subclass B1 metallo-beta-lactamase NDM-1	NA	NA	NA	NA
WP_001749986.1\|31233_31686_+	NAD(+)--rifampin ADP-ribosyltransferase Arr-3	NA	NA	NA	NA
WP_000679427.1\|31908_32256_+	quaternary ammonium compound efflux SMR transporter QacE delta 1	NA	NA	NA	NA
WP_000259031.1\|32249_33089_+	sulfonamide-resistant dihydropteroate synthase Sul1	A0A0B5J4J5	Pandoravirus	5.0e-11	27.2
WP_000376616.1\|33216_33420_+	hypothetical protein	NA	NA	NA	NA
WP_000184001.1\|33575_34781_+	chromate efflux transporter	NA	NA	NA	NA
WP_000130000.1\|34791_35097_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_001389365.1\|35323_36088_+\|transposase	IS6-like element IS6100 family transposase	A0A077SL39	Escherichia_phage	4.3e-86	65.7
WP_001137892.1\|36580_37165_-	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_000004159.1\|37164_38403_-	MFS transporter	NA	NA	NA	NA
WP_000219391.1\|38399_39305_-	Mph(A) family macrolide 2'-phosphotransferase	NA	NA	NA	NA
WP_001067855.1\|39426_40131_-\|transposase	IS6-like element IS26 family transposase	A0A077SL39	Escherichia_phage	1.8e-139	100.0
WP_000557454.1\|40363_41224_+	aminoglycoside N-acetyltransferase AAC(3)-IId	NA	NA	NA	NA
WP_001067855.1\|41592_42297_+\|transposase	IS6-like element IS26 family transposase	A0A077SL39	Escherichia_phage	1.8e-139	100.0
39375:42350	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

2. NZ_CP047307

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CRISPR-Cas detection and classification

Crispr_ID: NZ_CP047307_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP047307_1

590161-590538

Orphan

Consensus_repeat	Method
TAGGCCAGATGAATGACTGTCCACGACGCTATGCTCAAAAGAACGCGGCTTATC	PILER-CR

3 spacers

The CRISPR arrays of NZ_CP047307_1

>merge|NZ_CP047307|1|590161-590538|PILER-CR
TAGGCCAGATGAATGACTGTCCACGACGCTATACTCAAAAGAACGCGGCTTATCGGTCAACTTCACTCTTTATGAAACCCCGCTTCGGCGGGGTTTTTGCTTTCCGTATAGGCCAGATGAATGACTGTCCACGACGCTATGCTCAAAAGAACGCGGCTTATCGGTCAGCTTCACTCTTTATGAAACCCCGCTTTGATGGGTTTTTTGCTTTCCGGATAGGCCAGATGAATGACTGTCCACGACGCTATGCTCAAAAGAACGCGGCTTATCGGTCAGCTCCACTCTTTATGAAACCCCGCTTCGGCGGGGTTTTTGCTTTCCGGATAGGCCAGATGAATGACTGTCCACGACGCTATGCTCAAAAGAACGCGGCTTATC

>NZ_CP047307|1|1|590161-590538|PILER-CR
TAGGCCAGATGAATGACTGTCCACGACGCTATACTCAAAAGAACGCGGCTTATC	GGTCAACTTCACTCTTTATGAAACCCCGCTTCGGCGGGGTTTTTGCTTTCCGTA
TAGGCCAGATGAATGACTGTCCACGACGCTATGCTCAAAAGAACGCGGCTTATC	GGTCAGCTTCACTCTTTATGAAACCCCGCTTTGATGGGTTTTTTGCTTTCCGGA
TAGGCCAGATGAATGACTGTCCACGACGCTATGCTCAAAAGAACGCGGCTTATC	GGTCAGCTCCACTCTTTATGAAACCCCGCTTCGGCGGGGTTTTTGCTTTCCGGA
TAGGCCAGATGAATGACTGTCCACGACGCTATGCTCAAAAGAACGCGGCTTATC

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP047307.1\|WP_044701300.1\|581868_583128_-\|sugar-ABC-transporter-substrate-binding-protein	unknown	unknown	gnl\|CDD\|270303
NZ_CP047307.1\|WP_049001679.1\|588565_589711_+\|glycerate-2-kinase	unknown	unknown	gnl\|CDD\|182392
NZ_CP047307.1\|WP_071684986.1\|587609_588500_+\|2-hydroxy-3-oxopropionate-reductase	unknown	unknown	gnl\|CDD\|183197
NZ_CP047307.1\|WP_003840018.1\|586808_587579_+\|2-dehydro-3-deoxyglucarate-aldolase	unknown	unknown	gnl\|CDD\|182547
NZ_CP047307.1\|WP_048232843.1\|598852_600217_+\|L-serine-ammonia-lyase	unknown	unknown	gnl\|CDD\|185000
NZ_CP047307.1\|WP_003024870.1\|598369_598765_+\|enamine/imine-deaminase	unknown	unknown	gnl\|CDD\|105214
NZ_CP047307.1\|WP_016151027.1\|600500_601832_+\|HAAAP-family-serine/threonine-permease	unknown	unknown	gnl\|CDD\|273283
NZ_CP047307.1\|WP_003840008.1\|578892_579999_-\|sn-glycerol-3-phosphate-ABC-transporter-ATP-binding-protein-UgpC	unknown	unknown	gnl\|CDD\|236947
NZ_CP047307.1\|WP_003841507.1\|603221_603371_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP047307.1\|WP_071685301.1\|594824_596033_+\|propionate-kinase	unknown	unknown	gnl\|CDD\|183484
NZ_CP047307.1\|WP_016151026.1\|601856_603167_+\|serine-dehydratase-subunit-alpha-family-protein	unknown	unknown	gnl\|CDD\|226206
NZ_CP047307.1\|WP_003840006.1\|577599_578856_-\|Gfo/Idh/MocA-family-oxidoreductase	unknown	unknown	gnl\|CDD\|223745
NZ_CP047307.1\|WP_003024882.1\|591412_592351_+\|transcriptional-regulator-TdcA	unknown	unknown	gnl\|CDD\|182391
NZ_CP047307.1\|WP_003024877.1\|592449_593439_+\|bifunctional-threonine-ammonia-lyase/L-serine-ammonia-lyase-TdcB	unknown	unknown	gnl\|CDD\|236317
NZ_CP047307.1\|WP_003024907.1\|580010_580835_-\|carbohydrate-ABC-transporter-permease	unknown	unknown	gnl\|CDD\|223472
NZ_CP047307.1\|WP_003024871.1\|596061_598356_+\|formate-C-acetyltransferase	unknown	unknown	gnl\|CDD\|153087
NZ_CP047307.1\|WP_003024875.1\|593461_594793_+\|threonine/serine-transporter-TdcC	unknown	unknown	gnl\|CDD\|184191
NZ_CP047307.1\|WP_003024898.1\|585458_586793_+\|MFS-transporter	unknown	unknown	gnl\|CDD\|273326
NZ_CP047307.1\|WP_071684988.1\|583483_585055_-\|galactarate-dehydratase	unknown	unknown	gnl\|CDD\|274491
NZ_CP047307.1\|WP_003840012.1\|580845_581790_-\|sugar-ABC-transporter-permease	unknown	unknown	gnl\|CDD\|224096

Protein	Function_ID	Function_description	E-value
NZ_CP047307.1\|WP_044701300.1\|581868_583128_-\|sugar-ABC-transporter-substrate-binding-protein	gnl\|CDD\|270303	cd13585, PBP2_TMBP_like, The periplasmic-binding component of ABC transport systems specific for trehalose/maltose and similar oligosaccharides; possess type 2 periplasmic binding fold. This family includes the periplasmic trehalose/maltose-binding component of an ABC transport system and related proteins from archaea and bacteria. Members of this group belong to the type 2 periplasmic-binding fold superfamily. PBP2 is comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. The majority of PBP2 proteins function in the uptake of small soluble substrates in eubacteria and archaea. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.	6.44964e-85
NZ_CP047307.1\|WP_049001679.1\|588565_589711_+\|glycerate-2-kinase	gnl\|CDD\|182392	PRK10342, PRK10342, glycerate kinase I; Provisional.	0
NZ_CP047307.1\|WP_071684986.1\|587609_588500_+\|2-hydroxy-3-oxopropionate-reductase	gnl\|CDD\|183197	PRK11559, garR, tartronate semialdehyde reductase; Provisional.	0
NZ_CP047307.1\|WP_003840018.1\|586808_587579_+\|2-dehydro-3-deoxyglucarate-aldolase	gnl\|CDD\|182547	PRK10558, PRK10558, alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional.	0
NZ_CP047307.1\|WP_048232843.1\|598852_600217_+\|L-serine-ammonia-lyase	gnl\|CDD\|185000	PRK15040, PRK15040, L-serine ammonia-lyase.	0
NZ_CP047307.1\|WP_003024870.1\|598369_598765_+\|enamine/imine-deaminase	gnl\|CDD\|105214	PRK11401, PRK11401, enamine/imine deaminase.	8.73486e-78
NZ_CP047307.1\|WP_016151027.1\|600500_601832_+\|HAAAP-family-serine/threonine-permease	gnl\|CDD\|273283	TIGR00814, membrane_transport_protein_YhjV, serine transporter. The Hydroxy/Aromatic Amino Acid Permease (HAAAP) Family- serine/threonine subfamily (TC 2.A.42.2) The HAAAP family includes well characterized aromatic amino acid:H+ symport permeases and hydroxy amino acid permeases. This subfamily is specific for hydroxy amino acid transporters and includes the serine permease, SdaC, of E. coli, and the threonine permease, TdcC, of E. coli.//added GO terms, none avaialbelf or ser/thr specifically [SS 2/6/05] [Transport and binding proteins, Amino acids, peptides and amines].	1.8673e-161
NZ_CP047307.1\|WP_003840008.1\|578892_579999_-\|sn-glycerol-3-phosphate-ABC-transporter-ATP-binding-protein-UgpC	gnl\|CDD\|236947	PRK11650, ugpC, sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC.	6.40601e-170
NZ_CP047307.1\|WP_071685301.1\|594824_596033_+\|propionate-kinase	gnl\|CDD\|183484	PRK12379, PRK12379, propionate kinase.	0
NZ_CP047307.1\|WP_016151026.1\|601856_603167_+\|serine-dehydratase-subunit-alpha-family-protein	gnl\|CDD\|226206	COG3681, COG3681, L-cysteine desulfidase [Amino acid transport and metabolism].	0
NZ_CP047307.1\|WP_003840006.1\|577599_578856_-\|Gfo/Idh/MocA-family-oxidoreductase	gnl\|CDD\|223745	COG0673, MviM, Predicted dehydrogenases and related proteins [General function prediction only].	7.06063e-41
NZ_CP047307.1\|WP_003024882.1\|591412_592351_+\|transcriptional-regulator-TdcA	gnl\|CDD\|182391	PRK10341, PRK10341, transcriptional regulator TdcA.	0
NZ_CP047307.1\|WP_003024877.1\|592449_593439_+\|bifunctional-threonine-ammonia-lyase/L-serine-ammonia-lyase-TdcB	gnl\|CDD\|236317	PRK08638, PRK08638, bifunctional threonine ammonia-lyase/L-serine ammonia-lyase TdcB.	0
NZ_CP047307.1\|WP_003024907.1\|580010_580835_-\|carbohydrate-ABC-transporter-permease	gnl\|CDD\|223472	COG0395, UgpE, ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism].	5.75388e-83
NZ_CP047307.1\|WP_003024871.1\|596061_598356_+\|formate-C-acetyltransferase	gnl\|CDD\|153087	cd01678, PFL1, Pyruvate formate lyase 1. Pyruvate formate lyase catalyzes a key step in anaerobic glycolysis, the conversion of pyruvate and CoenzymeA to formate and acetylCoA. The PFL mechanism involves an unusual radical cleavage of pyruvate in which two cysteines and one glycine form radicals that are required for catalysis. PFL has a ten-stranded alpha/beta barrel domain that is structurally similar to those of all three ribonucleotide reductase (RNR) classes as well as benzylsuccinate synthase and B12-independent glycerol dehydratase.	0
NZ_CP047307.1\|WP_003024875.1\|593461_594793_+\|threonine/serine-transporter-TdcC	gnl\|CDD\|184191	PRK13629, PRK13629, threonine/serine transporter TdcC; Provisional.	0
NZ_CP047307.1\|WP_003024898.1\|585458_586793_+\|MFS-transporter	gnl\|CDD\|273326	TIGR00893, Probable_glucarate_transporter, D-galactonate transporter. [Transport and binding proteins, Carbohydrates, organic alcohols, and acids].	1.44831e-135
NZ_CP047307.1\|WP_071684988.1\|583483_585055_-\|galactarate-dehydratase	gnl\|CDD\|274491	TIGR03248, galactar-dH20, galactarate dehydratase. Galactarate dehydratase converts D-galactarate to 5-dehydro-4-deoxyglucarate which is subsequently acted on by GarL, tartronate semialdehyde reductase and glycerate kinase (GenProp0714).	0
NZ_CP047307.1\|WP_003840012.1\|580845_581790_-\|sugar-ABC-transporter-permease	gnl\|CDD\|224096	COG1175, UgpA, ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism].	7.82514e-75

>NZ_CP047307.1|WP_049001679.1|588565_589711_+|glycerate-2-kinase
MKIVIAPDSYKESLSATEVAQAIEKGFREIFPDAQYVSVPVADGGEGTVEAMIAATQGSEYSAWVTGPLGEKVNACWGMSGDGKTAFIEMAAASGLALVPPDKRNPLVTTSRGTGELILQALDSGAQSIIIGIGGSATNDGGAGMVQALGAKLCDANGTEIGYGGGSLMSLNSIDISGLDPRLKTCSIRVACDVTNPLTGDTGASRIFGPQKGATEERILELDRNLSHYADIIKKSLRVDVKDVPGAGAAGGMGAALMAFLGADLRSGIEIVTQALNLEEHIHDCTLVVTGEGRIDSQSIHGKVPVGVAIVAKKYHKPVIGIGGSLTRDVEVVHQYGIDAVFSVLTSISTLEEAFRGAFDNIYRASRNIAATLAIGMRSAG
>NZ_CP047307.1|WP_071684986.1|587609_588500_+|2-hydroxy-3-oxopropionate-reductase
MTMKVGFIGLGIMGKPMSKNLLKAGYSLVVTDRNPESIAEVIAAGAETAATAKDIAEQCDVIITMLPNSPHVKEVALGEGGIIEGAKPGTVLIDMSSIAPLASREISDALKAKGVDMLDAPVSGGEPKAIDGTLSVMVGGDKAIFDKYYDLLKAMAGSVVHTGDIGAGNVTKLANQVIVALNIAAMSEALTLATKAGVNPDLVYQAIRGGLAGSTVLDAKAPMVMDRNFKPGFRIDLHIKDLANALDTSHGVGAQLPLTAAVMEMMQALRADGLGTADHSALACYYEKLAKVEVTR
>NZ_CP047307.1|WP_003840018.1|586808_587579_+|2-dehydro-3-deoxyglucarate-aldolase
MNNTIFPNKFKAALAAQQIQIGCWSALASPISTEVLGLAGFDWLVLDGEHAPNDISTFIPQLMALKGSASAPVVRVPTNEPVIIKRLLDIGFYNFLIPFVETQEEAVNAVASTRYPPEGIRGVSVSHRANMFGTVPDYFAQSNKNITIIVQIESQQGVDNVDAIAATEGVDGVFVGPSDLAAALGHLGNASHPDVQKAIQHIFARAKAHGKPSGILAPVEADARRYLEWGATFVAVGSDLGVFRSATQKLADSFKK
>NZ_CP047307.1|WP_003024898.1|585458_586793_+|MFS-transporter
MILDTVVEKKKGTHTRYLILLIIFIVTAVNYADRATLSIAGTEVAKELQLSAISMGYIFSAFGWAYLLMQIPGGWLLDKFGSKKVYTYSLFFWSLFTFLQGFVDMFPLAWAGISMFIMRFMLGFSEAPSFPANARIVAAWFPTKERGTASAIFNSAQYFSLALFSPLLGWLTFAWGWEHVFTVMGVIGFVLTGLWVKFIHNPTDHPRMSQEELKFISENGAVVDMDHKKPGDVKSGGPKLHYIKQLLTNRMMLGVFFGQYFINTITWFFLTWFPIYLVQEKGMSILKVGLVASIPALCGFAGGVLGGVFSDYLIKRGFSITLARKLPIVLGMLLASTIILCNYTDNTTLVVALMALAFFGKGFGALGWPVISDTAPKEIVGLCGGVFNVFGNVASIVTPLVIGYLVSELHSFNAALMFVGCSALMAMVCYLFIVGDIKRMELQK
>NZ_CP047307.1|WP_071684988.1|583483_585055_-|galactarate-dehydratase
MADIEIRQESPTAFYIKVHETDNVAIIVNDNGLKAGTRFPDGLELVEHIPQGHKVALVDIPVHGEIVRYGEVIGYAVRDIPRGSWIDESMVELPKAPPLETLPLATKVPEPLPPLEGYTFEGYRNADGSVGTKNLLGISTSVHCVAGVVDYVVKIIERDLLPKYPNVDGVVGLNHLYGCGVAINAPAAIVPIRTIHNIALNPNFGGEVMVIGLGCEKLQPERLLEGTHDVKSIPVDSASIVSLQDEKHVGFQSMVADILQVAERHLAKLNQRQRETCPASELVVGMQCGGSDAFSGVTANPAVGYASDLLVRCGATVMFSEVTEVRDAIHLLTPRAINEEVGKRLLEEMAWYDNYLDMGKTDRSANPSPGNKKGGLANVVEKALGSIAKSGKSAIVEVLSPGQRPTKHGLIYAATPASDFVCGTQQVASGITVQVFTTGRGTPYGLMAVPVIKMATRTELANRWFDLMDINAGTIATGEETIEDVGLKLFEFILDVASGRKKTFSDQWGLHNQLAVFNPAPVT
>NZ_CP047307.1|WP_044701300.1|581868_583128_-|sugar-ABC-transporter-substrate-binding-protein
MYTLNKNNVALACLISCLLATPVFASAEGQSDAKPVKLRYTLWDRNQLPGEQQLVNEFEKDNPGIKVEIELTPYDQYFIKLSSAVGGNVAPDVFWMNMPNFQQYVKNGMLEPLSNYLKDKSAPKLDDFVKSSVDAYQYQSQQYAIPRDIDAIAVWYNKKMFDQAGVSYPDKNWTWDDLKQKSEQLRKGLDKQSYPLAMEFSSGQDSYFNLLLQAGDKIVLPEGKTDVANDKAIAVYRDVQGMLNAGLIQPPGEMEASDVFQSNRVAMVYAGSWWALPFSQNELIKDHIGVVPMPKMAEQAGVSHSLAFAMSAKSQHKDAAWKFIEFMSSEHAQQTLATGKVVIPANQKVAKEWAEGFKDIDVSAYIDSLAFSHKYPTAGSNTAKWNSILNDGLKKVWTGTDPEKVMPGVAKRVEREMQK
>NZ_CP047307.1|WP_003840012.1|580845_581790_-|sugar-ABC-transporter-permease
MSYSDEAASPQLPAREAQKKSLTKLEKEERFWGWIMIMPLLAGLIVFYFTPFFQNVFYSFTDLGEFQIWTTISLDNYINLFSDDEFRSAIYNTLAYVFICVPIITVLSLLLAIGLNQAIRGQWLFRTLLFLPAVTMPAAIAMVWQWLMNRNFGLINQILAFFDLPAIGWLSDPDVVRLSASLVIIWSAIALKMIILLAGLQGIPKQIYEAMSLDGISKLRGFWSITLPLMIPTLFFVLVISFIETLQIFDVVYLLFGSSSMVDDQTMTIAYLFYKYAFIYHEKGYASAIAVVIFVITMVLTLLQIWIGKRLKAQ
>NZ_CP047307.1|WP_003024907.1|580010_580835_-|carbohydrate-ABC-transporter-permease
MFMTKREKWLIYGLMILATLVTVVPFIWMIITSFKTQAESIAFPPILLPANPGFQAYGKILHEMPFGSFYFNSIVSTLVIVILQTLIAAMAAYGFSRLRFKGRDVLFMLCISILMVPGQIFLIPQFLTVEKIGLLNSIPGLVLPGLFSIYSAFLLRQFFLSVPKELEEAAIMDGYNHLTIFFKIMLPLIKPGLIACVIINGLWSWNNLMWPLIVNTSMDKMTLPVGLASLSGRSGVEYPMLMAGALLAIIPMLLLYIFFQRYFIRGIAGAGIKG
>NZ_CP047307.1|WP_003840008.1|578892_579999_-|sn-glycerol-3-phosphate-ABC-transporter-ATP-binding-protein-UgpC
MSGIQLQAVSKVYPNGFQAIHGVDLEIHDGEFMVFVGPSGCAKSTLLRMIAGLEDITHGHIAIGEKCVNDLLPKERGVAMVFQNYALYPHMTIYKNMAFSLLGKMSKEEIDIRVREAAHKLEIETLLDKKPGQLSGGQCQRVAVGRAIVRKPDVFLFDEPLSNLDAKLRVSMRVRLTELHRQLRQEGVSATMVYVTHDQIEAMTMGDRICVLNGGRIMQVDTPGNIYHHPRNKFVAGFIGNPAMNIMLLDIEPGTRGLRLAENLILPLNTRLSNLLEQYPHSSVWFGIRSEAIQLASQHDVSAFDAHITNVERMGNEDLLHFDIGEQHMILRINSSPDWAPLPGESIKVKFNLEAAFLFDKKHEENLA
>NZ_CP047307.1|WP_003840006.1|577599_578856_-|Gfo/Idh/MocA-family-oxidoreductase
MCANKVTVLVVGAGARGEIYARYALEHPDRMQVVGVAEPREAYRQQFVAQHKIAPNNVFCDWQEAAAQPKMADVVLICTQDNMHKDPAVAFANLGYHILLEKPLAPTPEDCRIIIDAVKRNNVLLAVAHVLRYTRYTQKLKSLLDDGVIGDIVSMQHLEPVGYWHQAHSFVRGNWRNEAESSFMLLQKSCHDLDWIRYIMGDNCKDVGSFGSLSHFVKENQPAGAADRCLDCQVEATCPWSACKIYLGENHKCTPHFRRVLTADPSEENVRQALRDGPYGRCVYRCDNDVVDHQVVNLRFAHQQTVTFTMTAFTKMEDRKTRLFGTRGYLEGDGEQIRVFDFLTDKETVHQIEEIAAGTQTQMGGHGGGDYYLMDRFIHAVMANDQNMILSGPDESLESHLMVFAAERARKENSLVTL
>NZ_CP047307.1|WP_003024882.1|591412_592351_+|transcriptional-regulator-TdcA
MNTITLPKTQHLVVFQEVIRSGSIGSAAKELGLTQPAVSKIINDVEAYFGIELVVRKNTGVTLTQAGQVMLSWSESITREMKNMVDEMNSMTSNAVVDVSFGFPSLIAFTIMSGMIKKFKEVFPKAQVSMYEAQLSSFLPAIRDGRLDFAIGTLSDEMKLHDLHVEPLFESDFILVASKSRTCTGITSLSALKNEQWVLPQTNMGYYSELLTTLQNNGISSENIVNTDSVVTIYNLVLNADFLTVIPCDMTTPFGSNQFITIPVQETLPVARYAAVWSKNYRIKKAASILVELAKEYSSYNCRRRRQLIEID
>NZ_CP047307.1|WP_003024877.1|592449_593439_+|bifunctional-threonine-ammonia-lyase/L-serine-ammonia-lyase-TdcB
MHITYDLPVAIEDILEAKKRLAGKIYKTGMPRSNYFSERCKGEIFLKFENMQRTGSFKIRGAFNKLSSLTEAERMKGVVACSAGNHAQGVSLSCAMLGIDGKVVMPKGAPKSKVAATCDYSAEVVLHGDNFNDTIAKVSEIVETEGRIFIPPYDDPKVIAGQGTIGLEILEDLYDVDNVIVPIGGGGLIAGIAVAIKSINPTIKIIGVQSENVHGMAASFHAGEITTHRTTGTLADGCDVSRPGTLTYEIVRELVDDIVLVSEDEIRNSMVALIQRNKVVTEGAGALACAALLSGKLDSYIQNRKTVSIISGGNIDLSRVSQITGLVDA
>NZ_CP047307.1|WP_003024875.1|593461_594793_+|threonine/serine-transporter-TdcC
MSTTDSIVSSQTKQSSWRKSDTTWTLGLFGTAIGAGVLFFPIRAGFGGLIPILIMLVLAYPIAFYCHRALARLCLSGSNPSGNITETVEEHFGKTGGVVITFLYFFAICPLLWIYGVTITNTFMTFWENQLQMPALNRGFVALFLLLLMAFVIWFGKDLMVKVMSYLVWPFIASLVLISLSLIPYWNSAVIDQVDISNIALTGHDGILVTVWLGISIMVFSFNFSPIVSSFVVSKREEYEKDFGREFTEQKCSKIISRASMLMVAVVMFFAFSCLFTLSPANMADAKAQNIPVLSYLANHFASLSGTKSTFATVLEYGASIIALVAIFKSFFGHYLGTLEGLNGLVLKFGYKGDKTKVSAGKLNTISMIFIMGSTWVVAYANPNILDLIEAMGAPIIASLLCLLPMYAIRKAPSLAKYRGRLDNVFVTVIGLLTILNIVYKLF
>NZ_CP047307.1|WP_071685301.1|594824_596033_+|propionate-kinase
MNEFPVVLVINCGSSSIKFSVLDAANCEVLMAGIADGINSENAFIAINGGEPAKLAHHSYEDALKAIAVELEKRNLMDSVALIGHRIAHGGNIFTESAIITDEVIDNIRRVSPLAPLHNYANLSGIESAQHLFPGRQQVAVFDTSFHQTMAPEAYLYGLPWKYFEELGVRRYGFHGTSHRYVSQQAHDLLDLQSDDSGLVVAHLGNGASICAVRNGQSVDTSMGMTPLEGLMMGTRSGDVDFGAMAWIASETNQTLSDLERVVNKESGLLGISGLSSDLRTLEKAWHEGHERAQLAIKTFVHRIARHIAGHAASLYRLDGIIFTGGIGENSVLIRRLVIEHLAVLGVNIDNEMNSLPNSHGERIISNKDARVICAVIPTNEEKMIARDAIALGKINTPVAFA
>NZ_CP047307.1|WP_003024871.1|596061_598356_+|formate-C-acetyltransferase
MKVNIDTSDMLYAEAWNGFKGTDWKEEINVRDFIQHNYTPYEGDESFLAEATPATTALWEKVMAGIRIENSTHAPVDFDTNIATTITAHDAGYIEQELEKIVGLQTDKPLKRALHPFGGINMIKSSFDAYGREMDADFEYQFTELRKTHNQGVFDAYSPDMLRCRKSGVLTGLPDGYGRGRIIGDYRRVALYGIRYLVRERELQFADLQSNLEWGQNLEATIRLREELSEHRRALLQMQEMAAKYGCDISRPARNAQEAVQWVYFAYLAAVKSQNGGAMSLGRTASFLDIYIERDFKAGILNEQQAQELIDHFIMKIRMVRFLRTPEFDTLFSGDPIWATEVIGGMGLDGRTLVTKNSFRYLHTLHTMGPAPEPNLTVLWSEQLPIAFKKYAAQVSIITSSLQYENDDLMRADFDSDDYAIACCVSPMVIGKQMQFFGARANLAKTLLYAINGGVDEKLKIQVGPKTAPLMDDVLDYDTVMESLDHFMDWLAVQYISALNIIHYMHDKYSYEASLMALHDRDVYRTMACGMAGLSVAADSLSAIKYARVKPIRDENGLAIDFEIEGDYPQYGNNDERVDSIACDLVERFMKKIKVLPTYRNAVPTQSILTITSNVVYGQKTGNTPDGRRAGTPFAPGANPMHGRDRKGAVASLTSVAKLPFTYAKDGISYTFSIVPAALGKEDGVRKTNLVGLLDGYFHHEAHVEGGQHLNVNVMNREMLMDAIEHPENYPNLTIRVSGYAVRFNALTREQQQDVISRTFTQAL
>NZ_CP047307.1|WP_003024870.1|598369_598765_+|enamine/imine-deaminase
MRKVIATECAPGAIGPYVQGVDLGSMVLTSGQIPVCPQTGEVAENVSDQARQSLENVKAIVESAGLKVSDIVKTTVFVSDLNDFATINQVYQQFFDEHKAIYPTRSCVQVARLPKDVKLEIEAIAVRGDTL
>NZ_CP047307.1|WP_048232843.1|598852_600217_+|L-serine-ammonia-lyase
MISAFDIFKIGIGPSSSHTVGPMNAGKSFIDLLVSCGELPKATHIVVDLYGSLSLTGKGHATDVAIMMGLAGNSPQNVNIDSIAGFTQEVARTGRLPVAEGTHVVDFSPDENILFHTETLPRHENGMRITAWNGSETLLSKTYYSVGGGFIVEEEQFGQAHDVEAHVPYNFHSASELLKLCERNGLSVSGLMMQNELAMRSKEEIDAGFAAIWDVMHAGIERGMNTEGVLPGPLNVPRRAVALRRLLVSSDNLSSDPMNVIDWINMFALAVSEENAAGCRVVTAPTNGACGIIPAVLAYYDKFRRPVNANSIARYLLAAGAIGALYKMNASISGAEVGCQGEIGVACSMAAAGLTELLGGSPSQVCIAAEIAMEHNLGLTCDPVAGQVQIPCIERNAINAVKAVNAARMALRRTSEPRVSLDKVIETMYETGKDMNDKYRETSRGGLAIKVICT
>NZ_CP047307.1|WP_016151027.1|600500_601832_+|HAAAP-family-serine/threonine-permease
METATNNSVILDASAPARRAGMTESEWREAIKFDSMDTGWVIMSIGMAIGAGIVFLPVQVGLMGLWVFLLSSIIGYPAMYLFQRLFINTLAESPECKDYPSVISGYLGKNWGILLGALYFVMLVIWMFVYSTAITNDSASYLHTFGVTEGLLSDSPFYGLVLICILVAISSRGEKLLFKISTGMVLTKLLVVAALGVSMVGMWHLYNVGLLPPMALLIKNAIITLPFTLTSILFIQTLSPMVISYRSRNKSIEVARHKALRAMNIAFGILFVTVFFYAVSFTLAMGHDEAVKAYEQNISALAIAAQFISGAGAGWVKIVSVVLNIFAVMTAFFGVYLGFREATQGIVMNVLRRKMPAEKINETLVQRGIMIFAILLAWSAIVLNAPVLSFTSICSPIFGMVGCLIPAWLVYKVPSLHKYKGASLYLIIITGLLLCVSPFLAFS
>NZ_CP047307.1|WP_016151026.1|601856_603167_+|serine-dehydratase-subunit-alpha-family-protein
MFETTLNPLWDSFIRAVQEEVKPALGCTEPISLALAAAVASSELDGAVERIDAWVSPNLMKNGMGVTVPGTGMVGLPVAAALGALGGNARAGLEVLKDASPQAIADAKAMLCAGKVAVMLQEPCEDILFSRAKVYSAEGWACVTIVGGHTNIVHIETNKGVVFTTEQNAQEEELESPLAVLSHTSLEEIVAFVNAVPFESIRFILDAAKLNGALSQEGLRGNWGLHIGTTLEKQCARGLLANDLSTSILIRTSAASDARMGGATLPAMSNSGSGNQGITATVPVMVVAEHFGADEEKLARALMLSHLSAIYIHHQLPRLSALCAATTAAMGAAAGMAWIVDGRYNTIAMAISSMIGDVSGMICDGASNSCAMKVSTSASAAWKAVLMALDDTAVTGNEGIVAHNVEQSIANLCALACRSMQETDKQIIEIMASKAH
>NZ_CP047307.1|WP_003841507.1|603221_603371_-|hypothetical-protein
MSKKSSKKRQPQVELKKQETVAFGYEEMLTELEAIVADAELRLEDEEAA

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Crispr_ID: NZ_CP047307_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP047307_2

855544-855624

Orphan

Consensus_repeat	Method
TTAACAATTTCTGCGAAATTGAA	CRISPRCasFinder

1 spacers

The CRISPR arrays of NZ_CP047307_2

>merge|NZ_CP047307|2|855544-855624|CRISPRCasFinder
TTAACAATTTCTGCGAAATTGAATTTTCTGTCCGCACTCCACGTGCTTATTTTACGGCTTAACAATTTCTTCGAAATTGAA

>NZ_CP047307|2|1|855544-855624|CRISPRCasFinder
TTAACAATTTCTGCGAAATTGAA	TTTTCTGTCCGCACTCCACGTGCTTATTTTACGGC
TTAACAATTTCTTCGAAATTGAA

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP047307.1\|WP_072146387.1\|855700_856006_-\|dpoa-decarboxylase	unknown	unknown	unknown
NZ_CP047307.1\|WP_057108599.1\|856405_856804_-\|Cag-pathogenicity-island-protein-Cag12	unknown	unknown	gnl\|CDD\|372486
NZ_CP047307.1\|WP_060589128.1\|846281_847874_-\|IS66-family-transposase	unknown	unknown	gnl\|CDD\|376980
NZ_CP047307.1\|WP_140415848.1\|850370_850628_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP047307.1\|WP_057108625.1\|852116_852431_+\|CcdB-family-protein	unknown	unknown	gnl\|CDD\|376629
NZ_CP047307.1\|WP_057108513.1\|861946_862162_-\|EexN-family-lipoprotein	unknown	unknown	unknown
NZ_CP047307.1\|WP_057108600.1\|856054_856357_-\|conjugal-transfer-protein	unknown	unknown	gnl\|CDD\|237548
NZ_CP047307.1\|WP_064388587.1\|859960_860644_-\|type-IV-secretion-system-protein	unknown	unknown	gnl\|CDD\|377310
NZ_CP047307.1\|WP_064388592.1\|856800_857826_-\|P-type-DNA-transfer-ATPase-VirB11	unknown	unknown	gnl\|CDD\|274301
NZ_CP047307.1\|WP_057108464.1\|851877_852114_+\|type-II-toxin-antitoxin-system-CcdA-family-antitoxin	unknown	unknown	gnl\|CDD\|377822
NZ_CP047307.1\|WP_057108462.1\|849439_849736_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|176164
NZ_CP047307.1\|WP_057108463.1\|850610_851555_+\|DUF1738-domain-containing-protein	unknown	unknown	gnl\|CDD\|226680
NZ_CP047307.1\|WP_064388579.1\|860867_861935_-\|type-IV-secretion-system-protein	unknown	unknown	gnl\|CDD\|377390
NZ_CP047307.1\|WP_064388589.1\|859055_859961_-\|P-type-conjugative-transfer-protein-VirB9	unknown	unknown	gnl\|CDD\|274296
NZ_CP047307.1\|WP_009309932.1\|848251_848656_-\|IS66-family-insertion-sequence-hypothetical-protein	unknown	unknown	gnl\|CDD\|225511
NZ_CP047307.1\|WP_064388590.1\|857815_859036_-\|TrbI/VirB10-family-protein	unknown	unknown	gnl\|CDD\|319755
NZ_CP047307.1\|WP_057108504.1\|862192_862897_-\|type-IV-secretion-system-protein-VirB5	unknown	unknown	gnl\|CDD\|369643
NZ_CP047307.1\|WP_009309933.1\|847904_848255_-\|IS66-family-insertion-sequence-element-accessory-protein-TnpB	unknown	unknown	gnl\|CDD\|377551
NZ_CP047307.1\|WP_064388593.1\|853188_854925_-\|type-IV-secretion-system-DNA-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|274760
NZ_CP047307.1\|WP_064388594.1\|852427_853180_-\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NZ_CP047307.1\|WP_057108599.1\|856405_856804_-\|Cag-pathogenicity-island-protein-Cag12	gnl\|CDD\|372486	pfam13117, Cag12, Cag pathogenicity island protein Cag12. This is a Proteobacterial family of Cag pathogenicity island proteins.	8.87073e-27
NZ_CP047307.1\|WP_060589128.1\|846281_847874_-\|IS66-family-transposase	gnl\|CDD\|376980	pfam03050, DDE_Tnp_IS66, Transposase IS66 family. Transposase proteins are necessary for efficient DNA transposition. This family includes IS66 from Agrobacterium tumefaciens.	6.25481e-115
NZ_CP047307.1\|WP_064388590.1\|857815_859036_-\|TrbI/VirB10-family-protein	gnl\|CDD\|319755	cd16429, VirB10, VirB10 forms part of core complex in Type IV secretion system (T4SS). This family contains VirB10, a component of the type IV secretion system (T4SS), including homologs TrbI, TraF, TrwE and TraL. T4S system is employed by pathogenic bacteria to export virulence DNAs and/or proteins directly from the bacterial cytoplasm into the host cell. It forms a large multiprotein complex consisting of 12 proteins termed VirB1-11 and VirD4. VirB10, interacts with VirB7 and VirB9, forming the membrane-spanning 'core complex' (CC), around which all other components assemble. The CC is inserted in both, the outer and inner membranes, playing a fundamental role as a scaffold for the rest of the T4SS components and actively participating in T4S substrate transfer through the bacterial envelope via conformational changes regulating channel opening and closing. TrwE in R33 plasmid has been shown to be anchored to the inner membrane and its C-terminal is necessary for conjugation; the transmembrane domains of TrwB and TrwE are involved in TrwB-TrwE interactions. TraF protein of the RP4 plasmid is involved in circularization of pilin subunits of P-type pili. In gonococcal genetic island (GGI) of Neisseria gonorrhoeae, T4SS encodes TrbI and circularization occurs via a covalent intermediate between the C terminus of putative pilin protein TraA and TrbI.	6.88405e-57
NZ_CP047307.1\|WP_057108625.1\|852116_852431_+\|CcdB-family-protein	gnl\|CDD\|376629	pfam01845, CcdB, CcdB protein.	5.53473e-37
NZ_CP047307.1\|WP_064388587.1\|859960_860644_-\|type-IV-secretion-system-protein	gnl\|CDD\|377310	pfam04335, VirB8, VirB8 protein. VirB8 is a bacterial virulence protein with cytoplasmic, transmembrane, and periplasmic regions. It is thought that it is a primary constituent of a DNA transporter. The periplasmic region interacts with VirB9, VirB10, and itself. This family also includes the conjugal transfer protein family TrbF, a family of proteins known to be involved in conjugal transfer. The TrbF protein is thought to compose part of the pilus required for transfer. This domain has a similar fold to the NTF2 protein.	4.36483e-47
NZ_CP047307.1\|WP_064388592.1\|856800_857826_-\|P-type-DNA-transfer-ATPase-VirB11	gnl\|CDD\|274301	TIGR02788, conjugal_transfer_protein, P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.	1.02469e-105
NZ_CP047307.1\|WP_057108464.1\|851877_852114_+\|type-II-toxin-antitoxin-system-CcdA-family-antitoxin	gnl\|CDD\|377822	pfam07362, CcdA, Post-segregation antitoxin CcdA. This family consists of several Enterobacterial post-segregation antitoxin CcdA proteins. The F plasmid-carried bacterial toxin, the CcdB protein, is known to act on DNA gyrase in two different ways. CcdB poisons the gyrase-DNA complex, blocking the passage of polymerases and leading to double-strand breakage of the DNA. Alternatively, in cells that overexpress CcdB, the A subunit of DNA gyrase (GyrA) has been found as an inactive complex with CcdB. Both poisoning and inactivation can be prevented and reversed in the presence of the F plasmid-encoded antidote, the CcdA protein.	6.81345e-24
NZ_CP047307.1\|WP_057108600.1\|856054_856357_-\|conjugal-transfer-protein	gnl\|CDD\|237548	PRK13893, PRK13893, conjugal transfer protein TrbM; Provisional.	0.000568273
NZ_CP047307.1\|WP_057108462.1\|849439_849736_-\|hypothetical-protein	gnl\|CDD\|176164	cd08475, PBP2_CrgA_like_6, The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold. This CD represents the substrate binding domain of an uncharacterized LysR-type transcriptional regulator (LTTR) CrgA-like 6. The LTTRs are acting as both auto-repressors and activators of target promoters, controlling operons involved in a wide variety of cellular processes such as amino acid biosynthesis, CO2 fixation, antibiotic resistance, degradation of aromatic compounds, nodule formation of nitrogen-fixing bacteria, and synthesis of virulence factors, to name a few. In contrast to the tetrameric form of other LTTRs, CrgA from Neisseria meningitides assembles into an octameric ring, which can bind up to four 63-bp DNA oligonucleotides. Phylogenetic cluster analysis showed that the CrgA-like regulators form a subclass of the LTTRs that function as octamers. The CrgA is an auto-repressor of its own gene and activates the expression of the mdaB gene which coding for an NADPH-quinone reductase and that its action is increased by MBL (alpha-methylene-gamma-butyrolactone), an inducer of NADPH-quinone oxidoreductase. The structural topology of this substrate-binding domain is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.	3.62712e-33
NZ_CP047307.1\|WP_064388579.1\|860867_861935_-\|type-IV-secretion-system-protein	gnl\|CDD\|377390	pfam04610, TrbL, TrbL/VirB6 plasmid conjugal transfer protein.	4.79213e-35
NZ_CP047307.1\|WP_064388589.1\|859055_859961_-\|P-type-conjugative-transfer-protein-VirB9	gnl\|CDD\|274296	TIGR02781, Protein_virB9, P-type conjugative transfer protein VirB9. The VirB9 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in a type IV secretion system . VirB9 is a homolog of the F-type conjugative transfer system TraK protein (which is believed to be an outer membrane pore-forming secretin, TIGR02756) as well as the Ti system TrbG protein. [Cellular processes, Conjugation].	4.86421e-78
NZ_CP047307.1\|WP_009309932.1\|848251_848656_-\|IS66-family-insertion-sequence-hypothetical-protein	gnl\|CDD\|225511	COG2963, COG2963, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	2.58726e-13
NZ_CP047307.1\|WP_057108504.1\|862192_862897_-\|type-IV-secretion-system-protein-VirB5	gnl\|CDD\|369643	pfam07996, T4SS, Type IV secretion system proteins. Members of this family are components of the type IV secretion system. They mediate intracellular transfer of macromolecules via a mechanism ancestrally related to that of bacterial conjugation machineries.	4.647e-34
NZ_CP047307.1\|WP_057108463.1\|850610_851555_+\|DUF1738-domain-containing-protein	gnl\|CDD\|226680	COG4227, COG4227, Antirestriction protein [DNA replication, recombination, and repair].	3.6683e-100
NZ_CP047307.1\|WP_009309933.1\|847904_848255_-\|IS66-family-insertion-sequence-element-accessory-protein-TnpB	gnl\|CDD\|377551	pfam05717, TnpB_IS66, IS66 Orf2 like protein. This protein is found in insertion sequences related to IS66. The function of these proteins is uncertain, but they are probably essential for transposition.	1.77527e-49
NZ_CP047307.1\|WP_064388593.1\|853188_854925_-\|type-IV-secretion-system-DNA-binding-domain-containing-protein	gnl\|CDD\|274760	TIGR03743, SXT_TraD, conjugative coupling factor TraD, SXT/TOL subfamily. Members of this protein family are the putative conjugative coupling factor, TraD (or TraG), rather distantly related to the well-characterized TraD of the F plasmid. Members are associated with conjugative-transposon-like mobile genetic elements of the class that includes SXT, an antibiotic resistance transfer element in some Vibrio cholerae strains. [Mobile and extrachromosomal element functions, Other].	1.6133e-06

>NZ_CP047307.1|WP_064388593.1|853188_854925_-|type-IV-secretion-system-DNA-binding-domain-containing-protein
MGTHLMQRLNAFSDAFSVFLLWLQHNPVILSLFAGLTLPFIFHLSREERKNAPFWLKSVACVSIFFFISGPLSPLTIQGLSFFFTVLDNHILLRLSLWILTIGLTLAGLAFHITARRLLAGEIDSLKHRMIKKSKLERNIRTDVRDVRDMLPDSIEYNPLDYINLKKGIFIGLDKDNQPQYITAEEFQTQHADLIGTTGSGKGVSACVLLYQAILSGEGVFVEDPKNDEWAPHVLRDACLKAEKPFVLINLNDLHFQLDLLADISHEQLEELFNAGFSLGKKGEGADFYRIADRRAARNTAAIYEKGMTLRDLFNTDFVKSLSEDVPAFYGELEEIALVNSINAHNGFSLKTIFNEGGCCYIIGSMRNQKIISAQRMILTRLIQIAETRDRIKGKPRPVAIFLDELKYHLSRPALEGLGAARDKGVHIIMAHQSVKDLYDCPADLEGDAVAGSVIENCKFMLVYRLRDPDTADWVARMTGSILVDDEMRKVKTDISLTEKMETDRMIRQAERYYIDSNMLLNLPKFVGFVFTWNDLAKATKLFHIPAKKQYIDLLSFEHKHPLYTEKDHQVHKPSINL
>NZ_CP047307.1|WP_064388594.1|852427_853180_-|hypothetical-protein
MLIHNVAERNEAANRRMEALLSFLKEETFSDFLTLKKVVGYKGRHNHAMYNLLNKAVALGFLSKHEYPVLTGKKALWGITMPGLARVVNADDPVFPAYFEPGKLRHRTLEHRLLNQRVRLALEEKGGTGWLNGDRGAFIARYPGVRHRPDGIITLSSGAIIAVETERSLKTRARYITIINSHLAASDAGCWHYAMYVMPDDKTRVSLGRLFDSIRTVMRNSVPVPFDAKNREMFLFRTIAELEQAPDSHD
>NZ_CP047307.1|WP_057108625.1|852116_852431_+|CcdB-family-protein
MQFTVYGNTGKSAVYPLLLDVTSDIIGQLNRRIVIPLLPVDRYPAGRRPDRLVPVVRLTDGQEYAVMTHELASVPVRALGAVFCDASQYRTQVKAAIDFLIDGI
>NZ_CP047307.1|WP_057108464.1|851877_852114_+|type-II-toxin-antitoxin-system-CcdA-family-antitoxin
MTAKQRNTLSVTMTVERALLVRAREAGINLSATLTAALDAELRHHEAKKWQEENREAIDALNRFHDEYGCFSDEYRTF
>NZ_CP047307.1|WP_057108463.1|850610_851555_+|DUF1738-domain-containing-protein
MTISLHTQTCAPNTAAATSVSSLDPSGSSKTKFPRTRTDIYQTVTDNIITALEAGVKPWVCPWQRVAGMSGLPSNYATGAAYSGMNIMLLWCSASEQGFSDSRWMTWKQAQAEGGQVRKGEHGTTAIFYTTLEKENDAGDIDHIPMLKTFTVFNVEQIDGLSLTTEAVSPAETFDPLPQAENLFRNSGATIIEKGQNAFFMPSTDEVWLPERRFFSDAANFYATGLHELVHWSGGKSRLNREMKGKFGSEGYAFEELCAELGSAFLMADLGIVGEVQHESYIASWLKALKNDKRYIFKAASAASKAHRYLMDKA
>NZ_CP047307.1|WP_140415848.1|850370_850628_-|hypothetical-protein
MQGNRHGFFSVSGVIFVFVSPDGSLSRSRSGQQGRSMRAIYPCWTGCAGKRLTGSKYGGGKHAGEKICTCIAGRDAPCSAAVKQV
>NZ_CP047307.1|WP_057108462.1|849439_849736_-|hypothetical-protein
MMPVLLEIAAKYPEIRLVLTFNDRVIDPLDMGFDLAVRFGPLKDTADLIARALNPQKLIRCASPDYLLRYGTPGNVGDLHNECHRVAEQRDPACHQKA
>NZ_CP047307.1|WP_009309932.1|848251_848656_-|IS66-family-insertion-sequence-hypothetical-protein
MENTANWRTESRTVYSNDFKLRIVELASQPDANVAKIARENGVAHNLIFKWLRMWQNEGRVSRRLPATITPPSELSLLPVEIVSEPPTSDNGSGQCPLNASSCSVEFRHGKISLENPSPELLGVLLRELTGRSQ
>NZ_CP047307.1|WP_009309933.1|847904_848255_-|IS66-family-insertion-sequence-element-accessory-protein-TnpB
MISLPSGTRIWLVAGVTDMRKSFNGLGELVQHALDENPFSGHLFIFRGRRGDTVKILWADADGLCLLTKRLEEGQFIWPAVRDGKIAITRSQLAMLLDKLDWRQPKTARLNSLTML
>NZ_CP047307.1|WP_060589128.1|846281_847874_-|IS66-family-transposase
MSQDYLARIAALEDALRQKDSQLSLVAETESFLRSALARAEEKIENEEREIEHLRAQIEKLRRMLFGTRSEKLRRQVEEAEALLKQQEQQSDRYNGRDNDQQVPRQLRQSRHRRPLPDHLPREINRLEPAETCCPDCGSDMAYLSEVSAEQLELVSSALKVLRTVRVKKACTRCDCIVEASAPSRPIDRGIAGPGLLARVLTAKYCEHLPLYRQCEIFARQGVDLSRALLSNWVDACCRLMAPLDEALYRYVMDCRKLHTDDTPVPVLAPGRKKTKTGRIWTYVRDDRSAGSSDPPAAWFAFSPDRQGKHPQQHLRHYHGVLQADAFAGYDRLFSAERNGGPLTEAACWAHARRKIHDVYISTQTATAGEALKRIGELYAVEEEIRGLPATERLATRQSRSKPLLISLHDWLVEKSATLSKKSRLGEAFAYALNQWDALCYYCDDGLAEPDNNAAERALRAVCLGKKNFIFFGSDHSGERGALLYGLIGTCRLNGIDPETYLRHILSVLPEWPSNKVAELLPWNVELTNK
>NZ_CP047307.1|WP_072146387.1|855700_856006_-|dpoa-decarboxylase
MNKEHLFISNIHSTHQDRISVTCIYNSLSKEACRGCGLYYEIYESRFIHLLRHHLSQLNEPDAEKLRRYAESQGTKTDDETYRAALNAERECLAEIAHEQR
>NZ_CP047307.1|WP_057108600.1|856054_856357_-|conjugal-transfer-protein
MKYSAITAAMLCIAAGTPVYSFAADPCEVVLCLYGKATGNSGGSECHSAERAFFNIVKKNRHGFLPNHTLNARKVFLGECASADPAAVNKILSRFGRVRG
>NZ_CP047307.1|WP_057108599.1|856405_856804_-|Cag-pathogenicity-island-protein-Cag12
MMKVINMLLFSLVLSGCSSPPPPVPVEWNKPGQSVNTGLPQWRDNLVIIPSPVVNDKWLLSIHARNYNETRWTPAVFYAVAHSARIVVAAPSGADFFTAKNWLRQYGAKGVIAYQPVSDCLTCSDTRIYFSR
>NZ_CP047307.1|WP_064388592.1|856800_857826_-|P-type-DNA-transfer-ATPase-VirB11
MTAKNISLDRYKQRFFGDFLALPGLTEIAVNRPGELFTKINGVWEQHAVPLDYEGYYNFARCLAKHHGDNIEDIKPGLSATLESGERCQVIVPPACERDTVSITLRKPSRVQIPHQDYIDAGFYNRVAGTEKTQTHDEELLTLYHAKDIPRFMEKCVEYGKTLAVAGETSTGKTTYMKMLIGYIPPHLRITTIEDNPEITFFIHKNYVHLFYPSESADEKWSMVTPASLLRWNYRMNPDRILLTEVRGGEAWDFLKITGSGHEGSMTSLHAGSAREAVDGFITRCYENPQCARLPYTFMLRKVLDSLDVIVSIDLDGNVRRMNDIYFRPLHRSAFFEEMKA
>NZ_CP047307.1|WP_064388590.1|857815_859036_-|TrbI/VirB10-family-protein
MNDEHPHPEPDESRSSPAQPEDDIAALEREARARREAALLTMQEDEENDPVQPAINKLKKRRRGKATAFLALAAVALIGLAWAGNWVYRNLLWPPGEEKRQDAAPQPNRSDYRQRTDLGAHDTAADTPEPVDSIPRSTTVTGPETPPELDKARFLVRRDNSAAAARNPVRTRQQEMTQATSTGQQTDTTPTPTESSPAAVRRIPYNPDLYVPENTAIPCSLDYRFVSDRAGKIRCTIADDIWSASGNTKLIEKGTTATGIYQTGAETGMTHGQGRAFLIITKLRTRQPPYLDIPLVDTRAAGELGEAGVDGWIDSHFSERFGGALLVGMIPDVAAWASNSAGQKDRNTDYTENSRQAMADMARTTLENSINIPPTVHKNQGEIINLVTGQDIDFSGIYTLRMKNDR
>NZ_CP047307.1|WP_064388589.1|859055_859961_-|P-type-conjugative-transfer-protein-VirB9
MKSIIFILLALMLCGTAWSAAIPQASRYDARVQQVVYNPLNVTVVSTRPGFMTTLVFDSDEAVISARPGFEEAWEATPVANRVSVRPVALVQGAPGADGNTTQVVIPPNSRDWHTNLLVVTTRRLYNVELNVIDDKSPQQPAYQVSYRYPGEDREKASRETATSALEREQKQQQADIQQALNAAQTPRNWDYLSYPGRDSVRIVPDFAYDDGRFTFVGFSPAKSIPSVTKVLNGQEHVVNSSVRRKGNFTVLLIQEATPRLVLRSGNAVVGLENRGFGRVRAADGATVSPQVERVEKPATH
>NZ_CP047307.1|WP_064388587.1|859960_860644_-|type-IV-secretion-system-protein
MSEQTLIADSRTFEQQMIERDKRATKAGFMVGGTGLLTAMLALIALVLMLPLKQTVVELYTVDNHTGRVEHVTRVSKTHLTAEDAYQKAMTASYVRLRERYVYPSLQDDYATVQIYNSPQVNDDYLALYAGKDAPDKVYQNGAHTVRIDILSNQLTGGTDPDKVATLRYKKIIRRLADNSTRTEYWDARLTFHSDPGREMSDTEREVNPFGFTVTSWQADREIRGGE
>NZ_CP047307.1|WP_064388579.1|860867_861935_-|type-IV-secretion-system-protein
MADLGTFEFIEKQLIGGITQSTSGLMMEHSAMVMGLAAASATLYILWRGYQTLAGKLSTPMEDVMWDLMRMAIILSFVANVSGYLDSVIDSINGLKEGFSGGDNIWQMLDTLWDKAKVLGKTLHDMDNSTYIKDEGMTAQLYVWLGVFVLMLVTAFVSMIAEVMILLLSITAPIFIFCLIYGFLRPMFNNWLQNIFAAILTVLFSALSLRMVINFVTKILTQSLAGAAKANIVELGAQVCLAGICAAILVYLSARLAGALAGASATISMQGLAAVGIGAAAFGAGKLAAGAGKQTTRAVQDTLQGWRDASAGKPGSGPGYSAAKARKYAIEQMIARNEARRLAQARDSAVQKFHR
>NZ_CP047307.1|WP_057108513.1|861946_862162_-|EexN-family-lipoprotein
MVILTLSFITIISGCDEEAKTTQWYRDHPDELKTVYEKCQKTGSASENCKNANEAHYQIQQLNAPTLKFHE
>NZ_CP047307.1|WP_057108504.1|862192_862897_-|type-IV-secretion-system-protein-VirB5
MKRRFHALIFACVMVSPLAHAGIPVLVDADPLREAEWLKEAQRWMQTAQHYQSQIQAYKDQLATATGIRDIADFVDQAKSLKSDLEKLRKPGQALNDLLLSGGSSGQFDALYEKYKIFDTCNTEQSENYARVCKQQVINKAIQFEQTDEIQGQVSQMLGEINSLSNRIALSRDTKESQDLANSIQLKSVMLNTLTDQWEISVKAAEQREKVLENERIKQWNQQQLNAPTLKFHE

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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

791152 : 833303

Salmonella_phage(33.33%)

transposase,plate

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_044713759.1\|791152_791578_+\|plate	type VI secretion system baseplate subunit TssE	NA	NA	NA	NA
WP_071684650.1\|791580_793416_+\|plate	type VI secretion system baseplate subunit TssF	NA	NA	NA	NA
WP_071684649.1\|793382_794429_+\|plate	type VI secretion system baseplate subunit TssG	NA	NA	NA	NA
WP_071684678.1\|794445_795744_+	type VI secretion system-associated FHA domain protein TagH	NA	NA	NA	NA
WP_071684648.1\|795740_796274_+	type VI secretion system lipoprotein TssJ	NA	NA	NA	NA
WP_159359331.1\|796276_797620_+\|plate	type VI secretion system baseplate subunit TssK	NA	NA	NA	NA
WP_044713767.1\|797624_798434_+	DotU family type IV/VI secretion system protein	NA	NA	NA	NA
WP_071684647.1\|798442_801178_+	type VI secretion system ATPase TssH	K4FB40	Cronobacter_phage	9.1e-86	31.4
WP_071684646.1\|801174_801930_+	type VI secretion system-associated protein TagO	NA	NA	NA	NA
WP_071684645.1\|801934_803356_+	type VI secretion system protein TssA	NA	NA	NA	NA
WP_071684644.1\|803379_806904_+	type VI secretion system membrane subunit TssM	NA	NA	NA	NA
WP_044713776.1\|806914_808282_+	membrane protein	NA	NA	NA	NA
WP_044713777.1\|808284_808764_+	Hcp family type VI secretion system effector	NA	NA	NA	NA
WP_159359332.1\|808964_809822_-	hypothetical protein	NA	NA	NA	NA
WP_038917748.1\|811411_811705_+	DUF1778 domain-containing protein	NA	NA	NA	NA
WP_057108449.1\|811701_812190_+	GNAT family N-acetyltransferase	NA	NA	NA	NA
WP_064388374.1\|812282_813386_+	hypothetical protein	NA	NA	NA	NA
WP_057108451.1\|814721_816131_+	type I restriction-modification system subunit M	NA	NA	NA	NA
WP_057108452.1\|816217_817747_+	hypothetical protein	F2Y1N5	Organic_Lake_phycodnavirus	1.5e-05	26.1
WP_057108453.1\|817743_819342_+	restriction system-associated AAA family ATPase	NA	NA	NA	NA
WP_057108454.1\|819341_820427_+	hypothetical protein	NA	NA	NA	NA
WP_088169078.1\|821067_822274_+\|transposase	IS3 family transposase	Q9ZXG3	Shigella_phage	4.0e-102	63.1
WP_057108457.1\|823175_823391_+	hypothetical protein	NA	NA	NA	NA
WP_064388615.1\|823993_824602_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_064388613.1\|824598_825750_+	efflux RND transporter periplasmic adaptor subunit	NA	NA	NA	NA
WP_064388612.1\|825746_826952_+	ABC transporter permease	NA	NA	NA	NA
WP_064388610.1\|826953_827664_+	ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	2.8e-31	38.8
WP_064388621.1\|827692_828166_+	cytochrome c	NA	NA	NA	NA
WP_064388608.1\|828152_829640_+	efflux transporter outer membrane subunit	NA	NA	NA	NA
WP_064388619.1\|829770_830328_+	recombinase family protein	A0A1B0V7I5	Salmonella_phage	7.5e-48	80.5
WP_064388606.1\|830330_833303_+\|transposase	Tn3 family transposase	A0A1B0V7H9	Salmonella_phage	0.0e+00	71.9

DBSCAN-SWA_2

1275395 : 1282730

Enterobacteria_phage(66.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_081366019.1\|1275395_1275686_-	hypothetical protein	A0A1V0E8G8	Vibrio_phage	2.8e-06	50.0
WP_001592532.1\|1275988_1276489_-	hypothetical protein	A0A2H4J2P5	uncultured_Caudovirales_phage	8.9e-40	61.3
WP_159359341.1\|1276930_1279264_-	DNA primase	Q7M2A8	Enterobacteria_phage	0.0e+00	84.7
WP_000743144.1\|1279278_1279599_-	DUF5375 domain-containing protein	NA	NA	NA	NA
WP_137377536.1\|1279595_1279823_-	hypothetical protein	NA	NA	NA	NA
WP_159359342.1\|1279819_1280371_-	host cell division inhibitor Icd-like protein	Q7M2A7	Enterobacteria_phage	8.0e-26	61.2
WP_061357474.1\|1281161_1281905_+	hypothetical protein	NA	NA	NA	NA
WP_000468229.1\|1281908_1282148_+	hypothetical protein	Q7M294	Enterobacteria_phage	1.7e-20	61.7
WP_159359343.1\|1282163_1282730_+	Polarity suppression protein	Q7M2A1	Enterobacteria_phage	1.5e-59	64.9

DBSCAN-SWA_3

1835152 : 1843571

Enterobacteria_phage(66.67%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_071685240.1\|1835152_1836100_+	ABC transporter ATP-binding protein	F2Y1V5	Organic_Lake_phycodnavirus	2.6e-08	26.1
WP_071685241.1\|1836083_1836815_+	ABC transporter permease	NA	NA	NA	NA
WP_003027354.1\|1836795_1836903_-	protein YohO	NA	NA	NA	NA
WP_003844381.1\|1836954_1837686_-	HTH-type transcriptional regulator MlrA	Q9EYF2	Enterobacteria_phage	1.8e-105	93.5
WP_003027348.1\|1837911_1839597_+	sensor histidine kinase	Q9EYF3	Enterobacteria_phage	6.7e-281	91.6
WP_003840155.1\|1839593_1840313_+	two-component system response regulator BtsR	NA	NA	NA	NA
WP_071685280.1\|1840359_1840830_+	DUF1456 family protein	Q9EYF4	Enterobacteria_phage	2.4e-63	76.3
WP_003840158.1\|1840872_1841331_-	YehR family lipoprotein	Q9EYF5	Enterobacteria_phage	5.1e-50	68.0
WP_060854718.1\|1841537_1843571_-\|tRNA	methionine--tRNA ligase	A0A1V0SDF2	Indivirus	4.0e-54	27.6

DBSCAN-SWA_4

1881717 : 1891295

Bacillus_phage(28.57%)

protease,tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003036815.1\|1881717_1883664_+	macrolide ABC transporter ATP-binding protein/permease MacB	G9BWD6	Planktothrix_phage	1.6e-39	41.3
WP_003036813.1\|1883738_1883963_-	cold shock-like protein CspD	A0A2H4N7Y6	Lake_Baikal_phage	3.6e-17	62.7
WP_003036810.1\|1884286_1884607_+\|protease	ATP-dependent Clp protease adapter ClpS	A0A1B1IT64	uncultured_Mediterranean_phage	3.5e-13	45.7
WP_003036804.1\|1884637_1886914_+\|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	A0A223W0B1	Agrobacterium_phage	1.4e-164	42.1
WP_071685250.1\|1887183_1888545_-\|tRNA	tRNA 5-hydroxyuridine modification protein YegQ	Q6DW11	Phage_TP	7.7e-203	92.6
WP_003841759.1\|1888704_1889037_-	YegP family protein	NA	NA	NA	NA
WP_003036797.1\|1889172_1889895_-	two-component system response regulator BaeR	W8CYM9	Bacillus_phage	9.2e-30	32.7
WP_003844344.1\|1889891_1891295_-	two-component system sensor histidine kinase BaeS	W8CYF6	Bacillus_phage	5.0e-32	29.2

DBSCAN-SWA_5

2786068 : 2847936

Enterobacteria_phage(25.35%)

head,tRNA,tail,integrase,lysis,transposase,terminase

attL 2799685:2799707|attR 2848117:2848139

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003836641.1\|2786068_2786848_+	heme ABC transporter ATP-binding protein	A0A285PWH2	Cedratvirus	7.9e-11	26.7
WP_003843460.1\|2786844_2788287_-	YdiU family protein	A0A075BSJ0	Microcystis_phage	7.7e-52	35.3
WP_003836643.1\|2788348_2789062_-	EAL domain-containing protein	NA	NA	NA	NA
WP_003836644.1\|2789378_2789843_-	lipoprotein nlpC	A0A1V0DZX6	Clostridioides_phage	3.5e-14	38.2
WP_003030567.1\|2789920_2790670_-	vitamin B12 ABC transporter ATP-binding protein BtuD	A0A2R8FG22	Brazilian_cedratvirus	9.3e-09	30.3
WP_003030569.1\|2790669_2791221_-	glutathione peroxidase	NA	NA	NA	NA
WP_003832584.1\|2791281_2792262_-	vitamin B12 ABC transporter permease BtuC	A0A2H4IY97	uncultured_Caudovirales_phage	6.7e-15	24.8
WP_003030571.1\|2792415_2792715_-	integration host factor subunit alpha	A0A0H3UZA0	Geobacillus_virus	7.2e-13	40.0
WP_003030574.1\|2792719_2795107_-\|tRNA	phenylalanine--tRNA ligase subunit beta	NA	NA	NA	NA
WP_003832580.1\|2795122_2796106_-\|tRNA	phenylalanine--tRNA ligase subunit alpha	A0A2K9L3A8	Tupanvirus	1.4e-33	38.5
WP_152659856.1\|2796305_2796437_-	pheST operon leader peptide PheM	NA	NA	NA	NA
WP_003030578.1\|2796475_2796832_-	50S ribosomal protein L20	NA	NA	NA	NA
WP_003030583.1\|2796887_2797085_-	50S ribosomal protein L35	NA	NA	NA	NA
WP_048997935.1\|2797181_2797724_-	translation initiation factor IF-3	A0A2L0UZ54	Agrobacterium_phage	8.2e-15	32.9
WP_003832572.1\|2797727_2799656_-\|tRNA	threonine--tRNA ligase	A0A2K9L297	Tupanvirus	4.4e-127	36.8
2799685:2799707	attL	NA	NA	NA	NA
WP_001752311.1\|2800680_2801712_+\|transposase	IS630-like element ISEc33 family transposase	NA	NA	NA	NA
WP_159359380.1\|2801727_2801970_-	hypothetical protein	H6WRU9	Salmonella_phage	1.1e-16	54.8
WP_159359438.1\|2802037_2802748_-	hypothetical protein	H6WRU8	Salmonella_phage	6.0e-42	44.2
WP_159359381.1\|2802734_2802902_-	Arc family DNA-binding protein	G9L6D7	Escherichia_phage	7.3e-15	70.9
WP_047500852.1\|2803027_2803483_+	Arc family DNA-binding protein	G9L6D6	Escherichia_phage	1.0e-26	53.6
WP_159359382.1\|2803634_2805596_+	acyltransferase family protein	A0A193GZ69	Enterobacter_phage	3.2e-77	33.8
WP_159359383.1\|2807929_2810407_-	MoaD/ThiS family protein	F1C5A7	Cronobacter_phage	0.0e+00	87.9
WP_159359439.1\|2810393_2810759_-	peptidoglycan endopeptidase	F1C5F2	Cronobacter_phage	5.4e-63	89.9
WP_096218619.1\|2810772_2811243_-	hypothetical protein	F1C5F1	Cronobacter_phage	1.2e-78	92.9
WP_159359384.1\|2811242_2811740_-	hypothetical protein	F1C5F0	Cronobacter_phage	1.0e-88	90.3
WP_159359385.1\|2811739_2814676_-\|tail	tail protein (tape measure)	B1GS57	Salmonella_phage	5.3e-108	50.6
WP_071685493.1\|2814688_2815366_-	hypothetical protein	G0ZNE7	Cronobacter_phage	2.9e-54	49.1
WP_071685492.1\|2815423_2816167_-	DNA breaking-rejoining protein	F1C5E5	Cronobacter_phage	2.6e-72	84.6
WP_109908296.1\|2816231_2816615_-	hypothetical protein	F1C5E4	Cronobacter_phage	7.2e-42	66.1
WP_109908295.1\|2816611_2817052_-	hypothetical protein	A0A1V0E5P5	Salmonella_phage	3.5e-32	52.6
WP_071685489.1\|2817054_2817405_-	hypothetical protein	G0ZNE2	Cronobacter_phage	2.0e-38	66.1
WP_057064516.1\|2817401_2817641_-	hypothetical protein	NA	NA	NA	NA
WP_057064517.1\|2817633_2817807_-	hypothetical protein	I6R0P9	Salmonella_phage	9.6e-10	46.4
WP_071685488.1\|2817806_2818208_-	hypothetical protein	G0ZNE1	Cronobacter_phage	7.8e-55	78.2
WP_057064519.1\|2818270_2818564_-	hypothetical protein	A0A1V0E5P8	Salmonella_phage	9.4e-42	88.7
WP_057064520.1\|2818573_2819650_-	hypothetical protein	Q5G8Y0	Enterobacteria_phage	1.5e-190	91.6
WP_159359386.1\|2819667_2820117_-	hypothetical protein	H6WRT3	Salmonella_phage	3.5e-64	84.6
WP_071697815.1\|2820129_2821395_-	hypothetical protein	Q5G8Y2	Enterobacteria_phage	1.0e-217	90.3
WP_071697814.1\|2821397_2822324_-\|head	phage head morphogenesis protein	A0A1V0E5Q2	Salmonella_phage	5.8e-162	92.2
WP_071697813.1\|2822283_2823633_-	DUF1073 domain-containing protein	Q5G8Y4	Enterobacteria_phage	3.0e-231	86.4
WP_071697812.1\|2823648_2824896_-\|terminase	terminase	I6RSK1	Salmonella_phage	1.5e-213	96.7
WP_109908294.1\|2824892_2825348_-	DUF2280 domain-containing protein	I6S1P9	Salmonella_phage	7.5e-78	98.7
WP_109908293.1\|2825380_2826019_-	hypothetical protein	I6S676	Salmonella_phage	6.3e-115	92.9
WP_109908292.1\|2826101_2826377_+	hypothetical protein	NA	NA	NA	NA
WP_109908291.1\|2826461_2826653_-	hypothetical protein	NA	NA	NA	NA
WP_063961213.1\|2826808_2827327_-	Rha family transcriptional regulator	Q38450	Enterobacteria_phage	9.4e-93	98.3
WP_063137394.1\|2827505_2827970_-\|lysis	lysis protein	M9NYX9	Enterobacteria_phage	9.4e-44	64.3
WP_017383026.1\|2827966_2828497_-	lysozyme	I6PBN2	Cronobacter_phage	2.6e-50	63.3
WP_017383027.1\|2828474_2828795_-	hypothetical protein	H6WRZ3	Salmonella_phage	1.1e-40	85.9
WP_159359387.1\|2829058_2829565_-	hypothetical protein	A0A2D2W6Q0	Pectobacterium_phage	9.0e-16	34.6
WP_159359388.1\|2829806_2830496_-	antiterminator	I6PDF8	Cronobacter_phage	3.9e-54	51.3
WP_159359389.1\|2830495_2830633_-	YlcG family protein	H6WRZ0	Salmonella_phage	9.2e-08	78.9
WP_088732242.1\|2830629_2830992_-	RusA family crossover junction endodeoxyribonuclease	K7PM48	Enterobacteria_phage	2.5e-52	81.7
WP_096218531.1\|2830988_2831279_-	DUF1364 domain-containing protein	K7PGZ6	Enterobacteria_phage	6.9e-45	90.6
WP_063854148.1\|2831271_2831442_-	NinE family protein	K7P7K0	Enterobacteria_phage	5.9e-20	92.5
WP_039024849.1\|2831441_2831897_-	hypothetical protein	K7P7B8	Enterobacteria_phage	9.1e-84	97.4
WP_159359390.1\|2832057_2832795_-	hypothetical protein	A0A0K1YAE4	Cronobacter_phage	1.1e-22	38.3
WP_159359391.1\|2832791_2833544_-	DUF551 domain-containing protein	K7P7E4	Enterobacteria_phage	1.6e-29	36.8
WP_151564544.1\|2833547_2833736_-	diguanylate phosphodiesterase	A0A192Y8X2	Salmonella_phage	1.5e-24	95.2
WP_159359392.1\|2834091_2834271_-	hypothetical protein	NA	NA	NA	NA
WP_159359393.1\|2834267_2834630_-	hypothetical protein	G9L6B1	Escherichia_phage	2.3e-13	81.2
WP_159359394.1\|2834626_2834926_-	protein ren	M1FPD5	Enterobacteria_phage	1.1e-16	51.6
WP_159359395.1\|2834922_2835702_-	replication protein	A0A193GYX1	Enterobacter_phage	1.2e-94	64.2
WP_159359440.1\|2835698_2836427_-	HTH domain-containing protein	H9C164	Pectobacterium_phage	4.3e-35	63.6
WP_159359396.1\|2836560_2837103_-	regulator	M9NZI6	Enterobacteria_phage	1.3e-73	78.3
WP_040117293.1\|2837132_2837360_-	helix-turn-helix domain-containing protein	Q76H55	Enterobacteria_phage	1.5e-23	70.4
WP_045355023.1\|2837471_2838176_+	helix-turn-helix transcriptional regulator	Q76H56	Enterobacteria_phage	2.7e-103	79.1
WP_159359397.1\|2838212_2838698_+	lipoprotein	NA	NA	NA	NA
WP_159359398.1\|2839118_2839460_+	hypothetical protein	G8C7T6	Escherichia_phage	5.1e-55	95.6
WP_104652169.1\|2839593_2839890_+	regulator	M9P0E2	Enterobacteria_phage	1.6e-41	86.7
WP_049041165.1\|2839989_2840238_+	hypothetical protein	NA	NA	NA	NA
WP_001752704.1\|2840389_2840596_+	cell division protein FtsZ	G8C7T2	Escherichia_phage	3.6e-32	100.0
WP_109908282.1\|2840672_2841644_+	hypothetical protein	A0A077KCC0	Edwardsiella_phage	3.8e-39	76.3
WP_109908281.1\|2841651_2841936_+	host nuclease inhibitor GamL	G8C7T1	Escherichia_phage	3.0e-45	88.3
WP_109908280.1\|2841954_2842800_+	phage recombination protein Bet	A0A1I9KF88	Aeromonas_phage	6.2e-70	61.2
WP_109908279.1\|2842796_2843477_+	YqaJ viral recombinase family protein	M9NZE1	Enterobacteria_phage	4.2e-125	93.4
WP_109908278.1\|2843467_2843629_+	DUF1317 family protein	M1FJ61	Enterobacteria_phage	1.2e-14	69.8
WP_109908277.1\|2843625_2844177_+	phage N-6-adenine-methyltransferase	E5AGF8	Erwinia_phage	1.1e-54	58.3
WP_048232207.1\|2844173_2844392_+	hypothetical protein	NA	NA	NA	NA
WP_109908276.1\|2844489_2844711_+	TraR/DksA family transcriptional regulator	A0A0N7C211	Escherichia_phage	6.5e-11	47.1
WP_071685470.1\|2844707_2845427_+	DNA cytosine methyltransferase	Q6UAU0	Klebsiella_phage	2.4e-94	70.2
WP_159359399.1\|2845389_2845629_+	DUF4222 domain-containing protein	Q6H9Z8	Enterobacteria_phage	2.9e-12	50.0
WP_159359400.1\|2845678_2846431_+	methyltransferase	M4M9L8	Vibrio_phage	1.3e-29	44.4
WP_032936075.1\|2846533_2846770_+	hypothetical protein	A0A1P8DTG1	Proteus_phage	3.3e-13	53.7
WP_159359401.1\|2846727_2847936_-\|integrase	tyrosine-type recombinase/integrase	I6R9B6	Salmonella_phage	1.6e-180	76.4
2848117:2848139	attR	NA	NA	NA	NA

DBSCAN-SWA_6

2941314 : 2947348

uncultured_Caudovirales_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_075206724.1\|2941314_2941527_-	isocitrate dehydrogenase	Q77Z09	Phage_21	4.6e-22	90.7
WP_003030760.1\|2941770_2942196_-	glutaredoxin-dependent arsenate reductase	A0A2H4J8T1	uncultured_Caudovirales_phage	7.3e-51	70.7
WP_071684642.1\|2942208_2943498_-	arsenic transporter	A0A2H4J144	uncultured_Caudovirales_phage	1.2e-165	70.2
WP_003030762.1\|2943542_2943863_-	transcriptional regulator	A0A2H4J145	uncultured_Caudovirales_phage	3.2e-19	44.8
WP_008320415.1\|2943948_2944647_+	arsenical resistance protein ArsH	A0A2H4J5V6	uncultured_Caudovirales_phage	3.8e-89	68.1
WP_071684635.1\|2944723_2944957_-	DNA polymerase V	A0A222YZE2	Escherichia_phage	3.0e-22	81.8
WP_003840850.1\|2945035_2945278_+	DinI family protein	Q6UAW0	Klebsiella_phage	1.5e-29	77.9
WP_003030767.1\|2945452_2945962_+	hypothetical protein	NA	NA	NA	NA
WP_071684636.1\|2946097_2947348_-	NADP-dependent isocitrate dehydrogenase	Q77Z09	Phage_21	3.6e-21	92.6

DBSCAN-SWA_7

4538950 : 4584085

Enterobacteria_phage(30.77%)

integrase,transposase

attL 4537999:4538013|attR 4559246:4559260

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
4537999:4538013	attL	NA	NA	NA	NA
WP_016154414.1\|4538950_4540141_+\|integrase	tyrosine-type recombinase/integrase	Q7M297	Enterobacteria_phage	1.5e-122	54.7
WP_016154415.1\|4540542_4541565_+\|transposase	IS110 family transposase	NA	NA	NA	NA
WP_016154416.1\|4542132_4543356_+	hypothetical protein	NA	NA	NA	NA
WP_016154417.1\|4543352_4543841_+	hypothetical protein	NA	NA	NA	NA
WP_016154418.1\|4543837_4545799_+	DUF3732 domain-containing protein	NA	NA	NA	NA
WP_094898333.1\|4546250_4547491_-\|transposase	IS3 family transposase	Q6H9S3	Enterobacteria_phage	1.4e-131	79.4
WP_016154424.1\|4549824_4550562_+	ATP-binding protein	U5N3V8	Enterobacteria_phage	9.7e-27	32.6
WP_016154425.1\|4550988_4551201_+	DUF1471 domain-containing protein	NA	NA	NA	NA
WP_016154429.1\|4552611_4553979_+	outer membrane porin, OprD family	NA	NA	NA	NA
WP_016154430.1\|4554155_4554608_+	peptide deformylase	Q6VT21	Vibrio_phage	7.8e-11	32.6
WP_023302365.1\|4555653_4559094_-	molybdopterin-dependent oxidoreductase	NA	NA	NA	NA
WP_023336667.1\|4559243_4559678_-	Cu(I)-responsive transcriptional regulator	NA	NA	NA	NA
4559246:4559260	attR	NA	NA	NA	NA
WP_023302364.1\|4559897_4560845_-	UDP-3-O-acyl-N-acetylglucosamine deacetylase	NA	NA	NA	NA
WP_009654822.1\|4561157_4561421_-	hypothetical protein	NA	NA	NA	NA
WP_071532327.1\|4561410_4561815_-	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_016154432.1\|4561907_4564403_-	heavy metal translocating P-type ATPase	E4ZFI9	Streptococcus_phage	3.9e-144	45.8
WP_009654812.1\|4564484_4564937_+	Cd(II)/Pb(II)-responsive transcriptional regulator	NA	NA	NA	NA
WP_016154433.1\|4565026_4565491_-	Cu(I)-responsive transcriptional regulator	NA	NA	NA	NA
WP_009654818.1\|4565504_4568000_-	copper-translocating P-type ATPase	A0A218MNH6	uncultured_virus	2.0e-92	34.6
WP_009654826.1\|4568185_4569190_+	cation diffusion facilitator family transporter	A0A1V0SED0	Indivirus	7.8e-19	25.1
WP_016154435.1\|4569235_4569598_+	winged helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_016154436.1\|4569982_4570231_-	hypothetical protein	NA	NA	NA	NA
WP_009654821.1\|4570511_4572650_-	AAA family ATPase	NA	NA	NA	NA
WP_016154438.1\|4573926_4574553_+	hypothetical protein	A0A2H4J137	uncultured_Caudovirales_phage	5.7e-44	42.6
WP_087121881.1\|4575269_4576416_+\|transposase	IS3 family transposase	U5P429	Shigella_phage	1.1e-146	92.2
WP_009309932.1\|4577329_4577734_+	IS66 family insertion sequence hypothetical protein	Q6H9S5	Enterobacteria_phage	1.6e-23	67.5
WP_009309933.1\|4577730_4578081_+	IS66 family insertion sequence element accessory protein TnpB	A0A0P0ZBY2	Stx2-converting_phage	9.6e-41	67.2
WP_060589128.1\|4578111_4579704_+\|transposase	IS66 family transposase	A0A0P0ZBS5	Stx2-converting_phage	8.8e-174	60.6
WP_016154439.1\|4579851_4580181_-	hypothetical protein	NA	NA	NA	NA
WP_032443218.1\|4582107_4582317_-	DUF1471 domain-containing protein	NA	NA	NA	NA
WP_085954962.1\|4582934_4584085_-\|transposase	IS3 family transposase	U5P429	Shigella_phage	9.8e-50	41.6

Anti-CRISPR protein detection

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

3. NZ_CP047309

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

43160 : 54977

Bacillus_phage(20.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000697973.1\|43160_43841_+	copper/silver response regulator transcription factor SilR	W8CYM9	Bacillus_phage	1.9e-32	36.5
WP_001230590.1\|43833_45312_+	Cu(+)/Ag(+) sensor histidine kinase	W8CYF6	Bacillus_phage	1.8e-27	31.0
WP_000725002.1\|45548_45980_+	hypothetical protein	NA	NA	NA	NA
WP_000695683.1\|46128_46479_+	DUF305 domain-containing protein	A0A218MND9	uncultured_virus	2.4e-20	55.2
WP_003830762.1\|46650_48477_-	AAA family ATPase	E5E3R2	Burkholderia_phage	1.5e-12	23.2
WP_000817638.1\|49084_50290_+	ParA family protein	Q1MVJ3	Enterobacteria_phage	1.7e-206	90.5
WP_000756331.1\|50286_51258_+	ParB/RepB/Spo0J family partition protein	Q1MVJ4	Enterobacteria_phage	9.6e-115	68.9
WP_000457553.1\|51403_52675_-	Y-family DNA polymerase	F1C5A5	Cronobacter_phage	2.7e-157	64.2
WP_000600201.1\|52674_53097_-	translesion error-prone DNA polymerase V autoproteolytic subunit	A0A1W6JNS2	Morganella_phage	3.1e-30	51.5
WP_000334635.1\|53276_53948_-	DNA breaking-rejoining protein	A0A2H4J5W2	uncultured_Caudovirales_phage	1.5e-79	59.5
WP_000085947.1\|54299_54977_+	DNA methylase	A0A2I7RE86	Vibrio_phage	1.9e-29	37.4

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NZ_CP047308

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_CP047307

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

3. NZ_CP047309

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