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
NC_013441	Gordonia bronchialis DSM 43247, complete sequence	3 crisprs	WYL,csa3,cas3,DinG,DEDDh,cas4	0	1	6	0
NC_013442	Gordonia bronchialis DSM 43247 plasmid pGBRO01, complete sequence	0 crisprs	NA	0	0	0	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_013441_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_013441_1

479032-479127

Orphan

Consensus_repeat	Method
AAAGTAGGGGAAGGAAATCCTTCCCC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_013441_1

>merge|NC_013441|1|479032-479127|CRISPRCasFinder
AAAGTAGGGGAAGGAAATCCTTCCCCTACTTCCGGTTTCGTTCTCGAGAAACTTCCCGGGGACAGAACGAAAAGTGGGGGAAGGAAATCCTTCCCC

>NC_013441|1|1|479032-479127|CRISPRCasFinder
AAAGTAGGGGAAGGAAATCCTTCCCC	TACTTCCGGTTTCGTTCTCGAGAAACTTCCCGGGGACAGAACGA
AAAGTGGGGGAAGGAAATCCTTCCCC

Protein	Signature genes	Signature genes Name	Protein_function
NC_013441.1\|WP_012832353.1\|481936_482377_+\|SRPBCC-family-protein	unknown	unknown	gnl\|CDD\|378454
NC_013441.1\|WP_012832346.1\|471048_471255_-\|hypothetical-protein	unknown	unknown	unknown
NC_013441.1\|WP_012832339.1\|465197_466280_+\|ATP-dependent-DNA-ligase	unknown	unknown	gnl\|CDD\|240135
NC_013441.1\|WP_012832352.1\|480474_481857_-\|FAD-binding-oxidoreductase	unknown	unknown	gnl\|CDD\|223354
NC_013441.1\|WP_012832357.1\|484455_485100_+\|dihydrofolate-reductase-family-protein	unknown	unknown	gnl\|CDD\|223340
NC_013441.1\|WP_012832355.1\|483416_484052_+\|glyoxalase	unknown	unknown	gnl\|CDD\|319914
NC_013441.1\|WP_012832354.1\|482387_483341_+\|pseudouridine-synthase	unknown	unknown	gnl\|CDD\|211332
NC_013441.1\|WP_012832358.1\|485202_485532_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379733
NC_013441.1\|WP_012832344.1\|469717_470362_+\|hypothetical-protein	unknown	unknown	unknown
NC_013441.1\|WP_012832359.1\|485552_485921_+\|YbaB/EbfC-family-nucleoid-associated-protein	unknown	unknown	gnl\|CDD\|234669
NC_013441.1\|WP_012832349.1\|473639_476090_-\|hypothetical-protein	unknown	unknown	unknown
NC_013441.1\|WP_012832360.1\|485946_486558_+\|recombination-protein-RecR	unknown	unknown	gnl\|CDD\|234616
NC_013441.1\|WP_012832348.1\|472760_473603_-\|hypothetical-protein	unknown	unknown	unknown
NC_013441.1\|WP_012832341.1\|467306_468410_+\|HtaA-domain-containing-protein	unknown	unknown	gnl\|CDD\|367875
NC_013441.1\|WP_012832351.1\|479155_480478_-\|class-I-SAM-dependent-methyltransferase	unknown	unknown	gnl\|CDD\|367049
NC_013441.1\|WP_041919675.1\|471486_472758_+\|aminotransferase-class-I/II-fold-pyridoxal-phosphate-dependent-enzyme	unknown	unknown	gnl\|CDD\|372371
NC_013441.1\|WP_012832345.1\|470668_471052_-\|type-II-toxin-antitoxin-system-death-on-curing-family-toxin	unknown	unknown	gnl\|CDD\|226180
NC_013441.1\|WP_115311764.1\|484079_484394_+\|hypothetical-protein	unknown	unknown	unknown
NC_013441.1\|WP_012832350.1\|476695_479020_+\|DNA-polymerase-III-subunit-gamma-and-tau	unknown	unknown	gnl\|CDD\|236090
NC_013441.1\|WP_012832340.1\|466289_467234_-\|calcium/sodium-antiporter	unknown	unknown	gnl\|CDD\|273039

Protein	Function_ID	Function_description	E-value
NC_013441.1\|WP_012832353.1\|481936_482377_+\|SRPBCC-family-protein	gnl\|CDD\|378454	pfam10604, Polyketide_cyc2, Polyketide cyclase / dehydrase and lipid transport. This family contains polyketide cylcases/dehydrases which are enzymes involved in polyketide synthesis. It also includes other proteins of the START superfamily.	4.1717e-05
NC_013441.1\|WP_012832339.1\|465197_466280_+\|ATP-dependent-DNA-ligase	gnl\|CDD\|240135	cd04865, LigD_Pol_like_2, LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for non-homologous end joining (NHEJ)-mediated repair of DNA double-strand breaks (DSB). NHEJ-mediated DNA DSB repair is error-prone. It has been suggested that LigD Pol contributes to NHEJ-mediated DNA DSB repair in vivo, by filling in short 5'-overhangs with ribonucleotides; the filled in termini would then be sealed by the associated LigD ligase domain, resulting in short stretches of RNA incorporated into the genomic DNA. The Pol domains of PaeLigD and Mycobacterium tuberculosis (Mt)LigD are stimulated by manganese, are error-prone, and prefer adding rNTPs to dNTPs in vitro; however PaeLigD and MtLigD belong to other subgroups, proteins in this subgroup await functional characterization.	3.86801e-108
NC_013441.1\|WP_012832352.1\|480474_481857_-\|FAD-binding-oxidoreductase	gnl\|CDD\|223354	COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production and conversion].	4.94768e-30
NC_013441.1\|WP_012832357.1\|484455_485100_+\|dihydrofolate-reductase-family-protein	gnl\|CDD\|223340	COG0262, FolA, Dihydrofolate reductase [Coenzyme metabolism].	9.26733e-10
NC_013441.1\|WP_012832355.1\|483416_484052_+\|glyoxalase	gnl\|CDD\|319914	cd07251, VOC_like, uncharacterized subfamily of vicinal oxygen chelate (VOC) family. The vicinal oxygen chelate (VOC) superfamily is composed of structurally related proteins with paired beta.alpha.beta.beta.beta motifs that provide a metal coordination environment with two or three open or readily accessible coordination sites to promote direct electrophilic participation of the metal ion in catalysis. VOC domain is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping. The proteins of this family share three conserved metal binding amino acids with the type I extradiol dioxygenases, which shows no domain swapping.	2.96317e-14
NC_013441.1\|WP_012832359.1\|485552_485921_+\|YbaB/EbfC-family-nucleoid-associated-protein	gnl\|CDD\|234669	PRK00153, PRK00153, YbaB/EbfC family nucleoid-associated protein.	9.91305e-39
NC_013441.1\|WP_012832354.1\|482387_483341_+\|pseudouridine-synthase	gnl\|CDD\|211332	cd02558, PSRA_1, Pseudouridine synthase, a subgroup of the RluA family. This group is comprised of bacterial proteins assigned to the RluA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. The RluA family is comprised of proteins related to Escherichia coli RluA.	2.85938e-111
NC_013441.1\|WP_012832360.1\|485946_486558_+\|recombination-protein-RecR	gnl\|CDD\|234616	PRK00076, recR, recombination protein RecR; Reviewed.	1.38022e-105
NC_013441.1\|WP_012832345.1\|470668_471052_-\|type-II-toxin-antitoxin-system-death-on-curing-family-toxin	gnl\|CDD\|226180	COG3654, Doc, Prophage maintenance system killer protein [General function prediction only].	2.57508e-18
NC_013441.1\|WP_012832340.1\|466289_467234_-\|calcium/sodium-antiporter	gnl\|CDD\|273039	TIGR00367, Uncharacterized_membrane_protein_MJ0091, K+-dependent Na+/Ca+ exchanger related-protein. This model models a family of bacterial and archaeal proteins that is homologous, except for lacking a central region of ~ 250 amino acids and an N-terminal region of > 100 residues, to a functionally proven potassium-dependent sodium-calcium exchanger of the rat. [Unknown function, General].	7.39163e-62
NC_013441.1\|WP_012832351.1\|479155_480478_-\|class-I-SAM-dependent-methyltransferase	gnl\|CDD\|367049	pfam02353, CMAS, Mycolic acid cyclopropane synthetase. This family consist of Cyclopropane-fatty-acyl-phospholipid synthase or CFA synthase EC:2.1.1.79 this enzyme catalyze the reaction: S-adenosyl-L-methionine + phospholipid olefinic fatty acid <=> S-adenosyl-L-homocysteine + phospholipid cyclopropane fatty acid.	7.29095e-123
NC_013441.1\|WP_041919675.1\|471486_472758_+\|aminotransferase-class-I/II-fold-pyridoxal-phosphate-dependent-enzyme	gnl\|CDD\|372371	pfam12897, Aminotran_MocR, Alanine-glyoxylate amino-transferase. These proteins catalyze the reversible transfer of an amino group from the amino acid substrate to an acceptor alpha-keto acid. They require pyridoxal 5'-phosphate (PLP) as a cofactor to catalyze this reaction. Trans-amination reactions are of central importance in amino acid metabolism and in links to carbohydrate and fat metabolism. This class of aminotransferases acts as dimers in a head-to-tail configuration.	0
NC_013441.1\|WP_012832358.1\|485202_485532_+\|hypothetical-protein	gnl\|CDD\|379733	pfam15588, Imm10, Immunity protein 10. A predicted immunity protein with a mostly all-beta fold and a conserved arginine residue. Proteins containing this domain are present in bacterial polymorphic toxin systems as an immediate gene neighbor of the toxin gene, usually containing a Pput_2613 deaminase domain. The protein is also found in heterogeneous poly-immunity loci.	2.20442e-05
NC_013441.1\|WP_012832350.1\|476695_479020_+\|DNA-polymerase-III-subunit-gamma-and-tau	gnl\|CDD\|236090	PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated.	0
NC_013441.1\|WP_012832341.1\|467306_468410_+\|HtaA-domain-containing-protein	gnl\|CDD\|367875	pfam04213, HtaA, Htaa. This domain is found in HtaA, a secreted protein implicated in iron acquisition and transport.	1.38162e-07

>NC_013441.1|WP_012832350.1|476695_479020_+|DNA-polymerase-III-subunit-gamma-and-tau
MALYRTYRPATFADVVGQEHVTDPLSHALDAGRINHAYLFSGPRGCGKTSSARILARSLNCVQGPTSTPCGECVSCVALAPGGPGNLDVIELDAASHGGVDDTRELRDRAFYAPAESRYRVFIVDEAHMVTNAGFNALLKIVEEPPEHLIFVFATTEPEKVLPTIRSRTHHYPFRLLAPPVMRGLLERICAQEHVTVAPEVYPLVIRAGGGSPRDSLSILDQLLAGADDRGVTYDRALALLGVTDIALIDDTIDALATGDGATLFGTVEKVVDAGHDPRRFAVDLLERLRDLILLQAVPDAAERGLVEAPGDQLARMNRQIETLGAASLTRFAELVHAALGEMRGTTSPRLLLEVMCARMLLPAVSADEIAVLQRLERLESGVRASVPIPAAPSEPEPEPKFVRPSQRKAMEEAKASAVAERTEAEEAEADDVQGIEPGAVGVDGEPVRGGGTPTAPQPPARTPAARVEPEPEPQPAPVPEPEPREPEPVASREPEPEPEAEPVVSQEPETQHVASRDPEPQPGAPREPEPRSVAEPAPETESIVAEDIPLPDEPFDEYDAPPDEPSSPRRAPDPEPEPEAAPTVPGLDADTLRKRFQEVRAAVRAQSPQGKTVEPMLSPATVHDLDGDVVVLSHPTELLVGRLSAPHNVAIIRAALQEVFGTPLDVRTIHVPPGAAAPAGAPRQSRTAQQSKPRQTFSRPSRARDQGAPSAPAPEPVAEPEEPEPPRADEDIPDEERKEMVADAQAASPEGRHDPDKVALELLKTELGARPLE
>NC_013441.1|WP_012832349.1|473639_476090_-|hypothetical-protein
MSTPAAFDVTLWQPQMMLPVAADLRTMARTILDQGNPTYNAVVGLDRTSDWVGKSRGAADDRADAVKKWLFNISDNLSDVATSIEKGCENIANQKSYLDKLTAEADDAGYVLSDPMDASWPLQLKTGREEKSGDPDAMRSWSGRLVAQANDTFTAVNDFARSLTVELGQITTLTPPQLALNGTMGTRDVAMARDGWTPDEIRRVAQHLKDAQLTPEQIQALRNGGTANVPPGLVSYLRNLYNGLSPKDALALRYALNGLGDGSGRAFANGITSLSSERVAGGGTAGGFSELPKWMQDMMTERVPVDRPENYDGFARSFALGQLLSGATVPPGVRTGTELTLKTANLAAAARSRFGVDSYMADFALRSEWGVDNGLADPTGTDGRIASPARYHSTMEALLNTGLINHESATTVLTGQGPGLPENYDRAATIEHLASHDWRDHGAVLGHLTDWIDDYALDQQDGYKPELSARAFRGLFDATTGPQQFDHLMNIGGADKPALGDINPLFAKALEEASHPYFNVLAGGNPYNYGFNPGAADHLIGLGDPKEGELTRDFDLQDRVRRLFGLISSGDTNPPGLTGLTAREQLIQDIGYRQSVNAGMVPDALRQGNGFDADIAARNGWLQHLLRDGVTANSFDNWFDARPGDQRIDAQDFNSIKSNVNTIVKEGIKLLPIPGSSYVATGAGMLIDWAHAPTSTPPHEGIAPTRVGVDDTLLEQHWAAWMATHPQAIPGNKIDALLFYPDGSLKPLGVVVAENNSDTAKHPTISEPTLVQIIVKRLQAQGLDLTNYDATYNRYAGDDDDAISADEYDKELLGRK
>NC_013441.1|WP_012832348.1|472760_473603_-|hypothetical-protein
MLVIRRNLRIVTAIVLASALFVAACSDVTPSDGASSTAADSARSYSFPIALGSMTTVWQASPGISLTTPDATLVRAFFESRFIVEVLGMPYAFPGFADTVRIVQNSIYDIPEGHPSADDRRAGTRRLMLLSLARTDDRLDALVCDDQAGLYFEKNIGHKHRGLPPLFDLRDGRWFMPDAFPYSVSLRKSGTSVWHPTVDRDTDRAPNWNAFTGWTAKQNRLNLDGSNSILCSNWASRNYPGIPSGQSQGAPQRIYPTGPTDPAFQPTLPQSPGWTRLGQR
>NC_013441.1|WP_041919675.1|471486_472758_+|aminotransferase-class-I/II-fold-pyridoxal-phosphate-dependent-enzyme
MHFHSMSSDQLRATQLDLKKLYDELCAAGLKLDLTRGKPAPEQLDLSNELLSLPGEKYKADDGTDTRNYGGIKGLPELRSIFGELLAVDPDNLIAFGNSSLELMHDLTAFALLTGTPDSDGPWHGQKVKFLCPAPGYDRHFAITENYGIEMIPVPMLPNGPDVDVCAELTANDPSIKGMWAVPTYSNPTGVTFTEEVTRGLLSMPAAPDFRIYWDNAYAVHTLVDAPPTPLPVIEMAAEAGNPNRVYVLGSTSKITFAGAGVSFFGSSQANVDWFTKHLSFKTIGPDKVNQLRHAMFFGDADGVRAHMARHREILAPKFQMVLDILSDRLAESKVATWSEPEGGYFINLDVLDGAAKRTIQLAKDAGIALTGAGSAFPYKTDPYDRNIRLAPTFPSTDDLRVAMDGVSTCVLLAATETLLGKS
>NC_013441.1|WP_012832346.1|471048_471255_-|hypothetical-protein
MGMTLRTSEAQTEALRRQAELEGRSMQAVALSAIDEYIARRAHTDKVERAARRVVDEQAGLLERLKDA
>NC_013441.1|WP_012832345.1|470668_471052_-|type-II-toxin-antitoxin-system-death-on-curing-family-toxin
MTEFLDLEDLITISALATGIDAEVRDYGLLESAVARPRTTVFGEDAYPDLHLKAAALLQSLTRNHALIDGNKPTAWVACLTFLGINDQWITAPEDDRFDFIIRVATGQDGELESIAAQLRAWSDPGR
>NC_013441.1|WP_012832344.1|469717_470362_+|hypothetical-protein
MRRRVMAGVLLSVGMLAAAPAVTAEAAPATTVRSGMEIDVEESILTQSKCTLGAVVSPTRAITAGHCGEVGRAVYNARGTRIGTISANRITKGLDIAVIRLAPRQRVQVDRIDWNAGFFRGQVVTKNGVTTGFSRGVVTDPKPTKRTARGIVWAPPFLLQHSTVSVRTNLLSKAGDSGSGVRDASGRIVGILSSGSSDRNTAVAPVSMLPGYLR
>NC_013441.1|WP_012832341.1|467306_468410_+|HtaA-domain-containing-protein
MQRRILSRRLGILVVLAVALTGLVLPSSVTGAHAAPVFRPHIDVFAADGVTPIGNTVVHPGDTLVVKGRGLDPNANRGGGFPLPVPPGVPHGTFIAFGAFAPHWKPSAGAPESARAATRLGVQWALAPSALAQVPSAPFDMRRTIRQQWVPLSPQGTFTARVVASTPKDTPAGARYGVYTYGAAGAVNAAQELSVPINYSTTPGANTPKPAPRNLIWAYSPSFYRTVTKQLQGGVYGTDGAGVDDAGRLTFALRDGAVRNGNGVLRFRGTIVAFTRFHLSEIALADPVIRVANGRGVLSMRTSTTNTNGTDALRRIDIADVDLSRIGNGRDVFGASVRFRPGITPEALALLSVGPAAPLDLRFPVAR
>NC_013441.1|WP_012832340.1|466289_467234_-|calcium/sodium-antiporter
MTEYVLVVAGLAGLILGAELLVRGGSAIATRLGVSPLLVGLTVVSIGTSLPELAVGIDATLNDAGPLAVGNIAGTNIVNILLILGLSAALVPLALRPQTVRFDLPVMVISALLLLILCANGTLSRYDGLALVAIAVAYTVWSIRQELVTRDTLPLENHTAQDAGSMWWRGAQLVAGIGVVVIGAEWLVDGSVQVATDLGVSEAFIGLTIIAIGTSAPELATTVMSTIRGDRDLAIGNLIGSSVYNVTFILGATALVRPLEVTDELIRIDIPLMAAVALLCIPVFITGRKVTRAEGVGFVLVYCVYLGLLIAFRT
>NC_013441.1|WP_012832339.1|465197_466280_+|ATP-dependent-DNA-ligase
MASRSPAEELDVDGVPVRMSNPDKIYFPELGENGGRKRDLVGYYRTMALGPDGSDGPIMRALRDRPTFLQRFPDGVEGDEIYQKHIAKKRPEHVQSTRIVFPSGRTGDAIKPTVPADVVWGANLGTVTFHSWPTVDPDNDHPDQLRIDLDPQPGTTFDDVRRVALDGLRPLLEELGFTGFPKTSGGRGVHVFVPIEPKWDFIATRRAVIALARELERRDPDSVTTSWWKEERGERIFIDFNQNARDRTMASPYSVRRSAIGRVSTPVTWEELADVDPDDCTMTTVPTMISDRGDPWADIAKHRKGIERLLEMVQADDANGLGDMPYPPSYPKMPGEPPRVQPSKKVAEHWDEKGNRVEGA
>NC_013441.1|WP_012832351.1|479155_480478_-|class-I-SAM-dependent-methyltransferase
MTTFKDSSSSGLEISSGKMTLAEIFESLMGGNLKIRITAYDGSAAGPPDAKYGLNLKTPRGTTYLVTAPGDLGLARAYIAGDLELVGAHPADPYEALRALAGDLEFTRPSALTLAQVARSLGIEHFKPIAPPPQEAVPRWRRFAEGFRHSKSRDAEVIHHHYDVSNTFYEWVLGPSMTYTCAVYPDRDASLETAQDNKYRLVFDKLRLKPGDRLLDIGCGWGGMVRYAARRGVKVIGATLSAEQAEWAQKAIADEGLGDLAEVRHSDYRDVPEGDFDAVSSIGLTEHIGVSNYPAYFGFMRDKLRDGGMLLNHCITRPDNSSRSRAGSFIDRYVFPDGELTGSGKIISKLQDIGGMEVVHEENFREHYAMTLRDWNRNLVEHWDEAVEEVGEGTARLWGLYMAGCRIGFDRNIIQLHHVLATKLDKQGRSNLPLRPWWQA
>NC_013441.1|WP_012832352.1|480474_481857_-|FAD-binding-oxidoreductase
MGARAFDQGVSTLLESYRAIPPEATVRLAKKTSNLFRKRAANPHPGLDVSGLDRVISVDPDARTADVAGMCTYENLVAATLPYGLAPTVVPQLKTITLGGAVTGLGIESTSFRNGLPHEAVREIDILTGSGEIITATPEGEHSDLFFGFPNSYGTLGYSVRLKIELEQVPPYVELRHIRFRSLAELQSTMEAIVTDRSFDGQPVDYLDGVVFSADESYLTLGRQTAETGPTSDYTGMDIYYRSIQHKQNDRLTIGDYLWRWDTDWFWCSRAFGAQNPRIRRFWPKRYLRSSFYWKLIALDQRYDIGDRLNARKGEPPGERVVQDIEVPIENTTAYLEWFLQNIPIEPIWLCPLRLRDPALPGADPARPWPLYPLEPHRTYVNVGFWSAVPVTPGDPGHTNKMIEAKVAELDGHKSLYSESFYSPEDFDELYGGEHYRLLKKRYDPRGRLLDLYAKAVKRQ
>NC_013441.1|WP_012832353.1|481936_482377_+|SRPBCC-family-protein
MGQISATQSIDIAAAPDAVIGALADYNEVRPAILPEQYRDYAVIKGGNGDGTVVHWILQATSKRQRDVKATVSVVPDTVTERDENSTMVTTYQVSAAGNGSKVTTTTTWNSQASGIGGFFEKTFAPKGLARIQAALLANLKKRLES
>NC_013441.1|WP_012832354.1|482387_483341_+|pseudouridine-synthase
MRRRRPSPLPIRDGVDATRVVLRAGPESTIGDCLRTTPALADLTDDDLRLRAQAGEIVDAAGDPVSLDAPARLNTAIYLYRDLPDEVPIPFELPILYADENIVVVDKPHFLATMPRGRHVTETALVRLRRQLGSDDVAPAHRLDRLTAGVLLFTLRREVRAAYQDLFATRAATKEYRALAPVDDALTTTVTIRNRIEKTAGDLRARVVDGPVNAISDITLLSDAGLYRLVPHTGRTHQLRLHMASLRVPIVDDPLYPDVRPELAQRPDVGDFSAPLRLVAHALEFTDPFTGERRRFESRRSFPPAQPASGRGGSTSG
>NC_013441.1|WP_012832355.1|483416_484052_+|glyoxalase
MTTSIDFITLTVPDVDAAKAFYRTAFGDALGDRLRFAEGADTTSGFRGYVLSLVVADPVVADSFLEPALEAGATEVKPAKKSFWGYGGVIAAPDGALWKVASSKKKATGAPARQLEDVVLLLGVDDVAATKEFYVERGLAVAKSFGRKYVEFQSEPQSVTLALYGRRAAAKDAGVPADGSGSHRLTIGGGIGPCTDPDGFVWTPHSVPARG
>NC_013441.1|WP_115311764.1|484079_484394_+|hypothetical-protein
MSVQLCCLLWARPGRRAELSAYEDKVLPLVADHGGTVVSRVISADPGRDDPGDEDPDEVQVFDFENRAALDAYLADPRRTALHAERDDVVARTRLFGVRIVSDR
>NC_013441.1|WP_012832357.1|484455_485100_+|dihydrofolate-reductase-family-protein
MAAQLLRVQNFGVSRDGYGAGEGQSAQTPFGHADPASIFAWAGATASWPNRTEPGGSRGLDDYFTRDFHHNIGAEIMGANKFSPHRGPWENHDWLGWWGDEPPFHTPVFVMTHHLRPSFTLSDTTFHFVDDEPAVVLEKAREAADGKDVRLGGGAAIIRSFLDADLVDTLHVAVCDIELGAGSRLWERPTDLEDRFRHEVIPSPSGVTHHLFWR
>NC_013441.1|WP_012832358.1|485202_485532_+|hypothetical-protein
MTIRASYERHPDLGCEAVVFIDDESMACFQIQRDLVGGPRSDEHCVTTGASAPVYGGITQWRRVDDRFEFALTRRAGRLFGDDVLSFEISPADESSVDDIAEHVDRLLR
>NC_013441.1|WP_012832359.1|485552_485921_+|YbaB/EbfC-family-nucleoid-associated-protein
MTQPFDPSALFGGGGAGGENPMAGLLAQAQQMQAQLVNAQNEIAAAEVTGTAGNGLVTVTGNGTGEITAVTIDPKVVDPDDVETLQDLLLGALADLSSKREALASEKMGPLAGGLGGLPGLG
>NC_013441.1|WP_012832360.1|485946_486558_+|recombination-protein-RecR
MYEGPIQDLIDELAKQPGLGPKGAQRIAFALLAGEKSEIDRLVAALGRVRDDVTFCAECGNVSANRLCRICSDARRDATKICVVEEPKDVHAIERTKEFNGRYHVLGGALDPLSGIGPDQLRIRELLRRLANTDDGNDVTEIIVATDPNTEGEATATYLLRMLKEFPGLSVTRLASGLPMGGDLEFADELTLGRALSGRRVLA

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Crispr_ID: NC_013441_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_013441_2

598058-598467

Orphan

Consensus_repeat	Method
ACACTGTTGGCTACGTTCGCCTCT	CRISPRCasFinder

6 spacers

The CRISPR arrays of NC_013441_2

>merge|NC_013441|2|598058-598467|CRISPRCasFinder
TCACTGTTGGCTACGTTGGCCTTCTGTGACGGCTTTTCATGGTCGACACTGTTGGCTACGTTCGCCTCTTGACAGCACTACTGTCCCTTGATGGTCGACAGCGTCGGCTATTGATAGCCAACACTGTTGGCTACGTTCGCCTCTCGTAGAGCCTGTTGACCATCAAGGGACAGTATTGTCGTCCCGATTCGCCTCCACTGCTGTCCTTGTTCGCCTCCACTGTCGACCACGTTCGCCTCTTCGGGGCGGTAGAGGCGAATTGGGACGGTAATGCTGGCTACGTTCGCCTCTCGTGTCGACCATCGACAGCCACCTATGTCGGCTACGTTCGCCTCTTGGCCATGAAGCGGCTCTTAGCAGCCAGCAGTGTTGGCTATCAATAGCCAACAATGCTGTCCACGTTCGCCTCT

>NC_013441|2|2|598058-598467|CRISPRCasFinder
TCACTGTTGGCTACGTTGGCCTTC	TGTGACGGCTTTTCATGGTCG
ACACTGTTGGCTACGTTCGCCTCT	TGACAGCACTACTGTCCCTTGATGGTCGACAGCGTCGGCTATTGATAGCCA
ACACTGTTGGCTACGTTCGCCTCT	CGTAGAGCCTGTTGACCATCAAGGGACAGTATTGTCGTCCCGATTCGCCT
CCACTGCTGTCCTTGTTCGCCTCC	ACTGTCGACCACGTTCGCCTCTTCGGGGCGGTAGAGGCGAATTGGGACG
GTAATGCTGGCTACGTTCGCCTCT	CGTGTCGACCATCGACAGCCA
CCTATGTCGGCTACGTTCGCCTCT	TGGCCATGAAGCGGCTCTTAGCAGCCAGCAGTGTTGGCTATCAATAGCCA
ACAATGCTGTCCACGTTCGCCTCT

Protein	Signature genes	Signature genes Name	Protein_function
NC_013441.1\|WP_012832483.1\|601167_601368_-\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|378935
NC_013441.1\|WP_012832472.1\|591014_591293_+\|hypothetical-protein	unknown	unknown	unknown
NC_013441.1\|WP_115311648.1\|598848_601089_-\|DNA-primase	unknown	unknown	gnl\|CDD\|225913
NC_013441.1\|WP_012832475.1\|593158_594067_+\|TraM-recognition-domain-containing-protein	unknown	unknown	gnl\|CDD\|378923
NC_013441.1\|WP_012832474.1\|591764_593027_-\|ISL3-family-transposase	unknown	unknown	gnl\|CDD\|376574
NC_013441.1\|WP_012832489.1\|606310_608638_-\|DEAD/DEAH-box-helicase	unknown	unknown	gnl\|CDD\|274800
NC_013441.1\|WP_012832477.1\|594609_594822_-\|hypothetical-protein	unknown	unknown	unknown
NC_013441.1\|WP_012832486.1\|605038_605383_+\|hypothetical-protein	unknown	unknown	unknown
NC_013441.1\|WP_012832480.1\|596966_597464_-\|hypothetical-protein	unknown	unknown	unknown
NC_013441.1\|WP_012832473.1\|591299_591752_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|238546
NC_013441.1\|WP_147290620.1\|601561_601957_-\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|378935
NC_013441.1\|WP_012832485.1\|603081_604815_-\|recombinase-family-protein	unknown	unknown	gnl\|CDD\|214861
NC_013441.1\|WP_012832488.1\|605760_606318_-\|hypothetical-protein	unknown	unknown	unknown
NC_013441.1\|WP_012832471.1\|590739_590907_-\|hypothetical-protein	unknown	unknown	unknown
NC_013441.1\|WP_012832476.1\|594125_594578_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|237171
NC_013441.1\|WP_012832481.1\|598616_598847_-\|glutaredoxin-family-protein	unknown	unknown	gnl\|CDD\|239274
NC_013441.1\|WP_012832479.1\|595281_596967_-\|hypothetical-protein	unknown	unknown	unknown
NC_013441.1\|WP_004022110.1\|608978_609182_+\|cold-shock-protein	unknown	unknown	gnl\|CDD\|224197
NC_013441.1\|WP_012832478.1\|594830_595310_-\|hypothetical-protein	unknown	unknown	unknown
NC_013441.1\|WP_012832487.1\|605379_605751_+\|flp-pilus-assembly-TadE/G-like-family-protein	unknown	unknown	gnl\|CDD\|274799

Protein	Function_ID	Function_description	E-value
NC_013441.1\|WP_012832483.1\|601167_601368_-\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|378935	pfam12728, HTH_17, Helix-turn-helix domain. This domain is a DNA-binding helix-turn-helix domain.	1.42149e-05
NC_013441.1\|WP_147290620.1\|601561_601957_-\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|378935	pfam12728, HTH_17, Helix-turn-helix domain. This domain is a DNA-binding helix-turn-helix domain.	0.000266211
NC_013441.1\|WP_012832475.1\|593158_594067_+\|TraM-recognition-domain-containing-protein	gnl\|CDD\|378923	pfam12696, TraG-D_C, TraM recognition site of TraD and TraG. This family includes both TraG and TraD as well as VirD4 proteins. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems. This domain interacts with the relaxosome component TraM via the latter's tetramerisation domain. TraD is a hexameric ring ATPase that forms the cytoplasmic face of the conjugative pore.	9.82311e-07
NC_013441.1\|WP_012832474.1\|591764_593027_-\|ISL3-family-transposase	gnl\|CDD\|376574	pfam01610, DDE_Tnp_ISL3, Transposase. Transposase proteins are necessary for efficient DNA transposition. Contains transposases for IS204, IS1001, IS1096 and IS1165.	4.93852e-93
NC_013441.1\|WP_012832489.1\|606310_608638_-\|DEAD/DEAH-box-helicase	gnl\|CDD\|274800	TIGR03817, DECH_helic, helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.	0
NC_013441.1\|WP_012832473.1\|591299_591752_+\|hypothetical-protein	gnl\|CDD\|238546	cd01126, TraG_VirD4, The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer to plant cells and is required for virulence.	1.71856e-05
NC_013441.1\|WP_012832485.1\|603081_604815_-\|recombinase-family-protein	gnl\|CDD\|214861	smart00857, Resolvase, Resolvase, N terminal domain. The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.	4.14776e-27
NC_013441.1\|WP_004022110.1\|608978_609182_+\|cold-shock-protein	gnl\|CDD\|224197	COG1278, CspC, Cold shock proteins [Transcription].	8.71258e-36
NC_013441.1\|WP_012832476.1\|594125_594578_-\|hypothetical-protein	gnl\|CDD\|237171	PRK12678, PRK12678, transcription termination factor Rho; Provisional.	0.00216119
NC_013441.1\|WP_115311648.1\|598848_601089_-\|DNA-primase	gnl\|CDD\|225913	COG3378, COG3378, Phage associated DNA primase [General function prediction only].	9.61915e-73
NC_013441.1\|WP_012832481.1\|598616_598847_-\|glutaredoxin-family-protein	gnl\|CDD\|239274	cd02976, NrdH, NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase activity that is dependent on TRX reductase, not glutathione (GSH). It is part of the NrdHIEF operon, where NrdEF codes for class Ib ribonucleotide reductase (RNR-Ib), an efficient enzyme at low oxygen levels. Under these conditions when GSH is mostly conjugated to spermidine, NrdH can still function and act as a hydrogen donor for RNR-Ib. It has been suggested that the NrdHEF system may be the oldest RNR reducing system, capable of functioning in a microaerophilic environment, where GSH was not yet available. NrdH from Corynebacterium ammoniagenes can form domain-swapped dimers, although it is unknown if this happens in vivo. Domain-swapped dimerization, which results in the blocking of the TRX reductase binding site, could be a mechanism for regulating the oxidation state of the protein.	8.61264e-29
NC_013441.1\|WP_012832487.1\|605379_605751_+\|flp-pilus-assembly-TadE/G-like-family-protein	gnl\|CDD\|274799	TIGR03816, tadE_like_DECH, helicase/secretion neighborhood TadE-like protein. Members of this small, highly hydrophobic protein family occur in a pilus/secretion-like region that usually is next to an uncharacterized DEAH-box helicase, in Actinobacteria. Members show sequence similarity to the TadE-like family described by pfam07811. The function is unknown. [Unknown function, General].	2.08966e-13

>NC_013441.1|WP_012832480.1|596966_597464_-|hypothetical-protein
MTTVIGTEGQGATAPDPGVPGAVGTAAAERSPKPRGARKEAPIAFRPRPGTRARLAKRAGGRSISHEVELAVDAWLGRKVAEVDPVLRDHLAAELSAIGDRLAEVAHQEAGVARNYNQMQHFLNTYRELPVGLREEVSKIVVQREQILTQLRFIRQELAVLVEAR
>NC_013441.1|WP_012832479.1|595281_596967_-|hypothetical-protein
MAITEISPAGNLEALDRYTGSIAAKDADSPEPTQRDEFVSTIGDCTPEHFVDRVRANARRFGKEKLKHEAYHLIVSQTHEEADQRDPQAGHRQHTMVRELARRRFPGHMAKLVTQRDNGRWVEVDGERVWQPGKWHTHCIIANVSSREAVLELVDKDGTPHERHERHYAAGRAIDGAKKNIHQIRHGPGGTDEQILEHFGYDNARYVEECRSAAKGRGDRATTRDVVQRADPDGRGYSNHDEVRVKLRAARALADSWDDYTARLAADGVHTRVTGASGVSYAWVSDDGVEHKASARSRKGRDGLGNDFTRAEVEAQCAINAERIGRGETLDVPERAPVPAPPAPAERPVPVYLTPGGRPPWERDADAFAARVRESGGTYEGRAREAVDAALADALDRDDLVAVAAEHGVEIAGDDTVRVRSGRRGRVAVALDTERAERVRSVEPLDLGEVRVDRIDRIDINESAKEEERDDLDDIIDLDGIEIERFGGAAEGAGRGAERGGGRAEVAHVGGGGARGRDEDADRSGGGPGGADQCAERATPLRDRAVADAVGRDDGGREIGD
>NC_013441.1|WP_012832478.1|594830_595310_-|hypothetical-protein
MTEAVKSVIEAGIADLNPLLNSTAVGKHLVANLGDEVSQRAVQHADEVAAALDRATDRLDRVGDRAARLNDSLAVAGLTKLALAAIPYAVVIALLLFLVVPAAEVTGIGPLSRWVWGGFETADGWPMRAAIASGWFAALGVLGFGVYKAGHALARIYRK
>NC_013441.1|WP_012832477.1|594609_594822_-|hypothetical-protein
MSILDRLTAHIEATRPKCALCGRNAVVRITYTTRYSRGDTWGETWCCADHADEEVDYRSPRGMIREIKWL
>NC_013441.1|WP_012832476.1|594125_594578_-|hypothetical-protein
MSDESKESTSVRDRLDAAKEADRRIEERRREQEDAAREVADRRRVLDDAEKRSAPGQRDLDAERVGQIRHELAKGGDDAVRRRFGGAAVKSPEAAKARAQQRSAQRRGREAMERGVDEARSREASRTPLRDAAVKQQQGRERERDTSRGR
>NC_013441.1|WP_012832475.1|593158_594067_+|TraM-recognition-domain-containing-protein
MAPLAGLLRAAGEDGIRWVRRAVGRIEPPTPEDRATPCWLNAIGRLEQLGSMMLAEELVNTAAFSDRLRDSIQATMKVAVAPWWREAVVGPTDAKPFIPAMLEDPRSTLFMVAPADGIAAAAAVGVVDAISAHWRDGQTRPVPLQHLLIVCDEMCNTLPWQKLPIVITESRSMGISVLAAVQDTQQFARRYNREIMEELRRVFPSILILSGSEEKELLDKAAWAAGRTERHKLSRDHAGKQSQSSEMAPAYEGSDLLPKRIGEGRLLRGTRPGASPDDPIEPAGLLVDLFDISQLDIDIDVA
>NC_013441.1|WP_012832474.1|591764_593027_-|ISL3-family-transposase
MQNATLWRALLGVEKTVVEDIEFDEDEQTLVACVRPTRRAGARCGRCQRRSPWYDRGEGRRRWRALDLGTIQVHLEADAPRVNCREHGPTVRAVPWARHGAGHTTGFDEQVAWLATQCSKSAVTELMRIAWRTVGAIITRVWADVEKLHDRFADLRRIGIDEISYKRGHRYLTVVVDHDTGRLVWAAPGRDKATLEGFFDALGEERCSQITHVSADGADWISTVVADHCPHAVRCADPFHVVRWATDALDEVRRAAWNQARGAATQRRAGRASGHAKALKHARYALWKNPENLTVRQQAKLAWVAKTDPRLHRAYLLKEGLRLVFQLPHAEAAEALEVWIRWARRCRIPAFVELQRRIVKHQASILAAIEHGLSNGRIESVNTKIRLITRVAFGFRSPEALIALAMLNLGGHRPVLPGRS
>NC_013441.1|WP_012832473.1|591299_591752_+|hypothetical-protein
MSLYRKDSGPYKPKPTPFGGFIDGARAITAPHLLCVGPTGRGKSRRVLGPALLMWEGPGVAISSKPDLIELAIEKRLGMGGHGKTYVLDLSGKVPASVMPDGAEMVVADPVALITDDDTAIDMTEILLRTSGSSAGGGDSAKKDPFFGLS
>NC_013441.1|WP_012832472.1|591014_591293_+|hypothetical-protein
MADPTEDPTAPTVRTAMTVSPIDAKRLKQVGLDFGTPAAVAARTFVNYCLDRLDDPAISGALTEAAKAERERRSRAAAMGGRLGGGSNKKKE
>NC_013441.1|WP_012832471.1|590739_590907_-|hypothetical-protein
MAKAAKPRIWRRRWVLIAIAMIASFAVGLTVGAGAQITRDANPRCGAPASVTTDG
>NC_013441.1|WP_012832481.1|598616_598847_-|glutaredoxin-family-protein
MSITVYTRPSCGPCRATKAALDKARLEYDVVDISQDDAARDYVMALGYLQAPVVVAGDQHWSGFRPERIRKLAAVA
>NC_013441.1|WP_115311648.1|598848_601089_-|DNA-primase
MTRKSRSVYNNESNGVDFDAVDLDSISAPDLPDDVVEAVPGGPTDPEEALLRRVADVKESLRGSASTAPGRNRDGIPYATPTAILAATVTDDYLSPDNLPTLRHMVSGGTKGTPAQRAECAKQGTRDVAQDLVGRINDRIAYENALIKGSEDNPPALIGTKRNMLTQLGFAEVARLMGALYSVVSITPSTSNTDPDLNILAAYDDDPTSEHFGTYRSEVGHLRKIARRYQPNMSVKEFSDVLAAMGDFAPTVTRGGDRDLIACRNGVVDYNGGSPVFHEFDPKYVFLAKLDVDWNPDAQNPVFDTPDGDQWDVESWMASLSDDPEVVDLLWKGIGAIARPYNSWNKAMFFYSRKGNNGKGTLLSLMRNMLGVGNYASIPLADFGKDFLLEPLTRANAILVDENDVGTFVEKAANFKAVITNDVITINRKYKAPIAHQHFGFMVQCLNDEPVFKDKSESIYRRQIFVPFEKCFTGAERKYIKDDYLRRPEVLEYVLRRVLTMDYYELPEPAAVQAALNQFRESNDPVRAFWNENQMLFQWDLLPFPFLHEFYVAWMGRYMPNSKPIGKNKFISELVQLVDADPTSQWYCDDHTAQHRPARRMVDPEPLIVEYSLVNWGDTSTKPGDKNYRTRRATIPGDMLKANYRGLLRRDDVDVVNVGFADPLADTDGPVDPPVDQASMGPAVVGGLVATGERPTPAPPAKPTTPRSKPKRVKRPTPPVPAEPGCNPFAPGYTFINNPYAPDAGE
>NC_013441.1|WP_012832483.1|601167_601368_-|helix-turn-helix-domain-containing-protein
MAKTAGYLTVSEYAALMRISKWAVYDRIRAGLIPGVHQIAKGATYRIPRAAVPAEAGADSPAAPAA
>NC_013441.1|WP_147290620.1|601561_601957_-|helix-turn-helix-domain-containing-protein
MPAVFESIAITADPGYRPVAHYIALPGAPCRATVLRAIRSGRLPAVFVSTGWRVTEADWAAWMAGRCRPSIPPTVPSEVDAAVAALVAAAPPLTDAQIGVVARAVGDGLRATHRRDYDQDHTGVSARASEA
>NC_013441.1|WP_012832485.1|603081_604815_-|recombinase-family-protein
MGKSRPRALIVVRLSRVTDATTSPERQLEACRELCDQRGYEVVGVAEDLDVSAGATTPFDRPQLGPWLANRHNEIDVIVMYRMDRLVRRLLDLADVIRWGQERDVAIVSATEAFLDLTAPFGDIIAMLVAKTAEMELAAISARNASASTHNIRSGKWRGGVPPWGYVPERGDDKVWRLVQDPQQVEVIQEVAERVLAGERLRPIAADLTKRGVLTPKDRFAQVKGREVKGYAWSSQRMKESLLSRTLLGQIVTRDPVLDAKGEIQRDAKGQRILGPEFVVTDETGAPVVRAEPILTRAVFDRLGAALRSREVDRTATVTSGLLLQVLFCGECGRPAYRLTGGPGRKPRYRCAFAQDRSGAAGALGPCDNRSVPLDWADHEVEAHVLERLGSMERMTRVWFSGNDSRSELAEVDELLGDLTDQLGTGAFRRGTPQRERLDGRIRALTERQEELRVRPVEAPSWRYEGTGETVRAWWERSDSATRTAWLREHGIRATWLSSTEGGRTKIDSFEIDMGAPNLESGALPGWVASAAELKARGGWAWSVDDPVLKRAEESLPDVLAQIHWTQGDPDEGDSVE
>NC_013441.1|WP_012832486.1|605038_605383_+|hypothetical-protein
MVTVEAAYAIAAIVVTVLIAVGGVSAMIAQIRCTDAAREVARLTAAGDGGARDAGQRMVGDDVTIAIAEEHERVSVVVSSHVLFLPGLTVSATAVAVKEPRGEDQVDFAPGVTP
>NC_013441.1|WP_012832487.1|605379_605751_+|flp-pilus-assembly-TadE/G-like-family-protein
MRATGSLVSDERGVATVLGAFVIAALAAVTVLVLYIGAAVVARHRAQSAADLSALAATVAHAEAQQEPCVAARELASAQRPPAQLTDCRIDGDDVIVRTTIPIDLGLFGVRAASAQARAGPVG
>NC_013441.1|WP_012832488.1|605760_606318_-|hypothetical-protein
MYDDASNRGIDAPRLITRQSQVYFLLARPIEDTDSLPSSIGESDVFFSEAEALDALDVHYAWCAARSGGFTRVVTTAQWYLQSALVGPRIAPALGEVYLAATDNHSGETWAAAGGFLTEGELIHWSAFVRAVRPWIPTPGTAEIFELAYRGDTAVHFHQIWFAPLKSVRVYPKEIVVDSGDDTED
>NC_013441.1|WP_012832489.1|606310_608638_-|DEAD/DEAH-box-helicase
MHNSTYGTELLRRSLAGSDSESSPITHIEVIPSAPPSFDDWPEWLPPALIDAFGADGIQRPWTHQVSAACAARRGEHVVICTGTASGKSLAYQMPILTELLTDPHSTALYLSPTKALGADQIRSVSALIAGREEYSHLQPCAYDGDTDPEIRQWARAHSRWIFTNPDMLHIGILSGHARWRQFFRHLRYIVIDECHHYRGVFGAHTSLVMRRLLRIARAAGAEVTVIAASATVADPAESLSRLIGEPAVAVTQDGSPRGERTVALWEPDFLPAVTGENGAPVRRSAGSESARLLADFVVEGARTLCFARSRRGVELTALGAARLLAESAPQLVDRVAAYRAGYLAEDRRRLEQAINDGSLVGVATTNALELGVDISGLDAVIVSGYPGTVASFWQQAGRAGRQRESGDSLVVLVARDDPLDTYLVHHPAALLGKPVEATVFDPGNPYVLGPHLLCAAAEIPLSDKEIDAWGASEVAAELAADGLLRRRKAGWYVTPGVEPHADIDIRGGIGGQVLIVDTTTSQLLGTVDSGRAPGTVHPGAVHIHQGRTYLIDELDLDDGLALAHPEEPDWTTSARDITDVSIIRVIESEVYGPLTVALVEVDVTHQVVGYLRTLYSGEVLDAVELDMPRQTLHTRAVMYTLTPESLESAGIDATRLPGSLHAAEHAAIGLLPLVATCDRADIGGLSTDLHPDTGLPTVFVYDGYLGGAGFADRGYGAFATWIEATRAAVAGCECDSGCPSCVQSPKCGNGNEPLDKSGAVAVLELLGRQYLTHV
>NC_013441.1|WP_004022110.1|608978_609182_+|cold-shock-protein
MAQGTVKWFNAEKGFGFIAPDEGSDDVFVHYSEIQGSGFRTLEENQRVEFEVGQGTKGPQATGVRAV

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Crispr_ID: NC_013441_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_013441_3

4400637-4400772

Orphan

Consensus_repeat	Method
CCACCCGCTGGTTGAGCCGCGAC	CRISPRCasFinder

2 spacers

The CRISPR arrays of NC_013441_3

>merge|NC_013441|3|4400637-4400772|CRISPRCasFinder
CCTTCCGCCGGTTCAGCCACGCCCCGCCCGCCGATCGAGCGCGCCCCCTGTCCACCCGCTGGTTGAGCCGCGACCGACGAGCGAAGCGAGGCGGCCGCGCGTCGAAACCCACCCCACCCGCTGGTTGAGCCGCGAC

>NC_013441|3|3|4400637-4400772|CRISPRCasFinder
CCTTCCGCCGGTTCAGCCACGCC	CCGCCCGCCGATCGAGCGCGCCCCCTGT
CCACCCGCTGGTTGAGCCGCGAC	CGACGAGCGAAGCGAGGCGGCCGCGCGTCGAAACCCACC
CCACCCGCTGGTTGAGCCGCGAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_013441.1\|WP_012835757.1\|4393820_4395980_-\|potassium-transporting-ATPase-subunit-KdpB	unknown	unknown	gnl\|CDD\|234905
NC_013441.1\|WP_012835775.1\|4414809_4415349_-\|MarR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|197670
NC_013441.1\|WP_012835764.1\|4399985_4400576_-\|DNA-3-methyladenine-glycosylase-I	unknown	unknown	gnl\|CDD\|377025
NC_013441.1\|WP_012835773.1\|4412627_4412996_-\|RidA-family-protein	unknown	unknown	gnl\|CDD\|100004
NC_013441.1\|WP_012835755.1\|4390606_4393144_-\|sensor-histidine-kinase-KdpD	unknown	unknown	gnl\|CDD\|225115
NC_013441.1\|WP_012835772.1\|4412065_4412584_-\|cupin-domain-containing-protein	unknown	unknown	gnl\|CDD\|380354
NC_013441.1\|WP_041920001.1\|4402653_4404291_+\|dihydroxyacetone-kinase-family-protein	unknown	unknown	gnl\|CDD\|237723
NC_013441.1\|WP_012835761.1\|4398311_4398731_-\|PPOX-class-F420-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|274712
NC_013441.1\|WP_155825195.1\|4408871_4409033_-\|hypothetical-protein	unknown	unknown	unknown
NC_013441.1\|WP_012835754.1\|4389911_4390607_-\|response-regulator	unknown	unknown	gnl\|CDD\|182522
NC_013441.1\|WP_012835756.1\|4393180_4393813_-\|potassium-transporting-ATPase-subunit-C	unknown	unknown	gnl\|CDD\|376890
NC_013441.1\|WP_012835759.1\|4397795_4397894_-\|potassium-transporting-ATPase-subunit-F	unknown	unknown	unknown
NC_013441.1\|WP_012835762.1\|4398727_4399477_-\|Asp/Glu/hydantoin-racemase	unknown	unknown	gnl\|CDD\|226004
NC_013441.1\|WP_012835765.1\|4400987_4401818_-\|MerR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|133382
NC_013441.1\|WP_115311851.1\|4401926_4402610_+\|ECF-RNA-polymerase-sigma-factor-SigK	unknown	unknown	gnl\|CDD\|182015
NC_013441.1\|WP_012835774.1\|4413034_4414585_-\|aldehyde-dehydrogenase	unknown	unknown	gnl\|CDD\|143432
NC_013441.1\|WP_012835758.1\|4395976_4397791_-\|potassium-transporting-ATPase-subunit-KdpA	unknown	unknown	gnl\|CDD\|235494
NC_013441.1\|WP_012835763.1\|4399543_4399951_-\|SgcJ/EcaC-family-oxidoreductase	unknown	unknown	gnl\|CDD\|274053
NC_013441.1\|WP_012835770.1\|4409140_4409866_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|239320
NC_013441.1\|WP_012835768.1\|4404876_4407429_-\|ATP-dependent-chaperone-ClpB	unknown	unknown	gnl\|CDD\|274529

Protein	Function_ID	Function_description	E-value
NC_013441.1\|WP_012835757.1\|4393820_4395980_-\|potassium-transporting-ATPase-subunit-KdpB	gnl\|CDD\|234905	PRK01122, PRK01122, potassium-transporting ATPase subunit KdpB.	0
NC_013441.1\|WP_012835775.1\|4414809_4415349_-\|MarR-family-transcriptional-regulator	gnl\|CDD\|197670	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein.	8.50118e-20
NC_013441.1\|WP_012835764.1\|4399985_4400576_-\|DNA-3-methyladenine-glycosylase-I	gnl\|CDD\|377025	pfam03352, Adenine_glyco, Methyladenine glycosylase. The DNA-3-methyladenine glycosylase I is constitutively expressed and is specific for the alkylated 3-methyladenine DNA.	7.20264e-101
NC_013441.1\|WP_012835773.1\|4412627_4412996_-\|RidA-family-protein	gnl\|CDD\|100004	cd00448, YjgF_YER057c_UK114_family, YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.	3.4191e-21
NC_013441.1\|WP_012835755.1\|4390606_4393144_-\|sensor-histidine-kinase-KdpD	gnl\|CDD\|225115	COG2205, KdpD, Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms].	0
NC_013441.1\|WP_012835772.1\|4412065_4412584_-\|cupin-domain-containing-protein	gnl\|CDD\|380354	cd02225, cupin_PA3510-like, Pseudomonas aeruginosa PA3510 and related proteins, cupin domain. This family includes bacterial proteins homologous to PA3510, a Pseudomonas aeruginosa protein of unknown function with a beta-barrel fold that belongs to the cupin superfamily.	1.75214e-63
NC_013441.1\|WP_041920001.1\|4402653_4404291_+\|dihydroxyacetone-kinase-family-protein	gnl\|CDD\|237723	PRK14479, PRK14479, dihydroxyacetone kinase; Provisional.	0
NC_013441.1\|WP_012835761.1\|4398311_4398731_-\|PPOX-class-F420-dependent-oxidoreductase	gnl\|CDD\|274712	TIGR03666, Rv2061_F420, PPOX class probable F420-dependent enzyme, Rv2061 family. A Genome Properties metabolic reconstruction for F420 biosynthesis shows that slightly over 10 percent of all prokaryotes with fully sequenced genomes, including about two thirds of the Actinomycetales, make F420. A variant of the Partial Phylogenetic Profiling algorithm, SIMBAL, shows that this protein likely binds F420 in a cleft similar to that in which the homologous enzyme pyridoxamine phosphate oxidase (PPOX) binds FMN. [Unknown function, Enzymes of unknown specificity].	3.75268e-48
NC_013441.1\|WP_012835754.1\|4389911_4390607_-\|response-regulator	gnl\|CDD\|182522	PRK10529, PRK10529, DNA-binding transcriptional activator KdpE; Provisional.	1.01085e-81
NC_013441.1\|WP_012835756.1\|4393180_4393813_-\|potassium-transporting-ATPase-subunit-C	gnl\|CDD\|376890	pfam02669, KdpC, K+-transporting ATPase, c chain. This family consists of K+-transporting ATPase, c chain, KdpC. KdpC forms strong interactions with the KdpA subunit, serving to assemble and stabilize the Kdp complex. It has been suggested that KdpC could be one of the connecting links between the energy providing subunit KdpB and the K+-transporting subunit KdpA. The K+ transport system actively transports K+ ions via ATP hydrolysis.	3.15188e-73
NC_013441.1\|WP_012835762.1\|4398727_4399477_-\|Asp/Glu/hydantoin-racemase	gnl\|CDD\|226004	COG3473, COG3473, Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism].	2.74807e-40
NC_013441.1\|WP_012835765.1\|4400987_4401818_-\|MerR-family-transcriptional-regulator	gnl\|CDD\|133382	cd01107, HTH_BmrR, Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BmrR and YdfL of Bacillus subtilis, and related proteins; N-terminal domain. Bmr is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. BmrR is comprised of two distinct domains that harbor a regulatory (effector-binding) site and an active (DNA-binding) site. The conserved N-terminal domain contains a winged HTH motif that mediates DNA binding, while the C-terminal domain binds coactivating, toxic compounds. BmrR shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.	2.13068e-48
NC_013441.1\|WP_115311851.1\|4401926_4402610_+\|ECF-RNA-polymerase-sigma-factor-SigK	gnl\|CDD\|182015	PRK09646, PRK09646, ECF RNA polymerase sigma factor SigK.	3.63318e-74
NC_013441.1\|WP_012835774.1\|4413034_4414585_-\|aldehyde-dehydrogenase	gnl\|CDD\|143432	cd07114, ALDH_DhaS, Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like. Uncharacterized aldehyde dehydrogenase from Candidatus pelagibacter (DhaS) and other related sequences are present in this CD.	0
NC_013441.1\|WP_012835758.1\|4395976_4397791_-\|potassium-transporting-ATPase-subunit-KdpA	gnl\|CDD\|235494	PRK05482, PRK05482, potassium-transporting ATPase subunit A; Provisional.	0
NC_013441.1\|WP_012835763.1\|4399543_4399951_-\|SgcJ/EcaC-family-oxidoreductase	gnl\|CDD\|274053	TIGR02246, hypothetical_protein, conserved hypothetical protein. This family consists of uncharacterized proteins found in a number of genera and species, including Streptomyces, Xanthomonas, Oceanobacillus iheyensis, Caulobacter crescentus CB15, and Xylella fastidiosa. The function is unknown.	7.26427e-08
NC_013441.1\|WP_012835770.1\|4409140_4409866_+\|hypothetical-protein	gnl\|CDD\|239320	cd03022, DsbA_HCCA_Iso, DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1,2-dihydroxynapthalene by a dioxygenase, into cis-o-hydroxybenzylidenepyruvate (cHBPA). This is the fourth reaction in a six-step pathway that converts napthalene into salicylate. HCCA isomerase is unique to bacteria that degrade polycyclic aromatic compounds. It is closely related to the eukaryotic protein, GSH transferase kappa (GSTK).	9.00025e-06
NC_013441.1\|WP_012835768.1\|4404876_4407429_-\|ATP-dependent-chaperone-ClpB	gnl\|CDD\|274529	TIGR03346, chaperone_ClpB, ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins. [Protein fate, Protein folding and stabilization].	0

>NC_013441.1|WP_012835764.1|4399985_4400576_-|DNA-3-methyladenine-glycosylase-I
MSDVVVGADGRSRCSWAAKEPETTYHDTEWGFPLAGDVALFERVCLEGFQSGLSWRTILTKRENFRAAFSGFDFEKIARFGDADVSRLLDDAGIIRHRGKIEATINNARAALDLIDAEGSLESFFWRYAPADDHVPGSMTTSPESVALSKDLKKRGWRFVGPTTMFALMQATGMVNDHAVDCVIRDEVTAAHLRNA
>NC_013441.1|WP_012835763.1|4399543_4399951_-|SgcJ/EcaC-family-oxidoreductase
MSDSRNRPVLNLRQPEAFAAVDALVDALQSGVDDSDADAYDALFADDILWGTPKGAVLQGFASLNAIHHRLFAQQVAPPSDFSVAQATNPAPGVAVVQIGRHARGGGFSDMAMYVLVERGGRWWVAAGQNTPIGP
>NC_013441.1|WP_012835762.1|4398727_4399477_-|Asp/Glu/hydantoin-racemase
MEAQIGIGMVCPFDMALDRELWRWMPDAVSLYFTRTGFIDAPVDVELCRDLNNHAEITAAVRAVASVGPQAFGYACASGSFVYGLAGAVEISNCMRAAGAERAVTTSEALLRALDAMNIGRLAVATPYTSSLTGLLCDFLAESGRSVVSQAGLGRDHRIWTIPYEVTAALIRAADHPEADAVFVSCTNLWTYDILAEMEAELGKPVLSANQVTAWATLVDAGVIGGERIPMAATHTAHRQSLFARNMAA
>NC_013441.1|WP_012835761.1|4398311_4398731_-|PPOX-class-F420-dependent-oxidoreductase
MTQDSSAAGFGTAGTAKYVQLTTFRKDGTPVATPVWAALDGGRLLVWTETEAWKVKRLRRDPRVVVQACDARGKKVTGDRVEGTGAILDAAGTERTRSAISKKYGLLGWLLIKASLLRRGKDGTIGIAITAGSDATSFR
>NC_013441.1|WP_012835759.1|4397795_4397894_-|potassium-transporting-ATPase-subunit-F
MTGAGITNILLVALAAGVVLYLVVALIAPERF
>NC_013441.1|WP_012835758.1|4395976_4397791_-|potassium-transporting-ATPase-subunit-KdpA
MSTTTAGLIQVGILILVLALAYVPLGDYMARVYGSSRDLRVERVVYRIGRIDSRREQTWVGYVLAVLAFSLISFLFLYALQRLQGVLPWSDGKPGVSPSMSFNTAISFVSNTNWQSYSPEVVMSNLTQMLGLAVQNFVSAAVGLAVAMALVRGIVNRRGSGEVGNFWVDLIRSTVRILLPMAFIVALILLTQGAVQSLGTGFDFTTLGGEQAHSVLGPFASQEAIKELGTNGGGTLSANSAHPFSNPTPLSNLVEILALLIIPVCLTRTYGTMVGDRRQGLTLMGVMATIWSAMLAIVWIFESRTDGIAGQAAGAMMEGKEQRFGIPGSVLFAVSTTGTSTGAVNSAHDSFSAVGGGALIWNMLLGEVAPGGVGSGLYGILIMAIVTVFVGGLLVGRSPEFLGKKIGQNEITVAALYILVMPALVLTGTAITAILSSTIGFQGNSGDPGSPGSIHGFSEVLYAFASAANNNGSAFGGLTVTSDWFQTSLGLAMLLGRFLPIVFVLALAGLLARQRPRGSTADAASTDTSPVAVSAVVEGGAGAQPAAGGMAVATHGATGPADDAATLPTHGILFGALLFGTILLVAGLTFFPAMALGPIAEAVL
>NC_013441.1|WP_012835757.1|4393820_4395980_-|potassium-transporting-ATPase-subunit-KdpB
MTPLLGGPTSPTPDGPPSHPRVPADDAGPELVTTGAFDVRQLVTSIPQALRKLTPRAQARNPVMFVVYLGAIVTTVLAVWHPSWFSWTVAVWLWFTVVFANLAEAVSEGRGRAQADSLRKLKRDTMARRLSADGEIVEVPGGDLKIGDLIVVEAGEIIAGDGDVVDGIATVDESAITGESAPVVRESGGDRSAVTGGTVVLSDKIIVRITTAPGETFVDRMIALVEGASRKKTPNEIALDILLTSLTIIFLMAVVAVGPMQQYAGQSPDPVKLIALLVCLIPTTIGALLSSIGIAGMDRLVQRNVLAMSGRAVEAAGDIDTLLMDKTGTITFGNRRATALAPAPGVDETELAAVSYRCSLADDTPEGRSIVDLCVRDHGVAQLDGEELAAARAEIHPGYRVVPFTAQTRMSGVDAEERTGTVEYRKGAADAVTRWVNANGGQVDPEVTDEVSAIAAQGGTPLMVGMRTAGEPARVLGVIRLSDVVKPGMAQRFAQLRAMGIRTVMVTGDNPLTARAIASEAGVDDFIAEATPEDKLALIRKEQSRRRLVAMTGDGTNDAPALAQADVGLAMNTGTSAAKEAGNMVDLDSDPTKLIDVVAIGKQLLITRGALTTFSLANDLAKYFAILPAMFTGIYPQLDALNVMHLHSAQSAIVSAVIFNALIIIALIPLSLRGVRYRPSSASRLLGRNLLIYGVGGVIAPFIGIWLIDLVVRFLPGMG
>NC_013441.1|WP_012835756.1|4393180_4393813_-|potassium-transporting-ATPase-subunit-C
MNMTVTGFVRQCVAALGVIVALTLLLGVAYPAAVWAVSRIGSNSAEGSQVTDARGCDVGSSLIGLDPNVAAGQPDPYLHARVLGGSGEPMATGDPAASAASNKGPNNSDLVEWINARRTIIATREGVAPARVPADAVTGSGSGLDPDISPAYAALQVPRIARVNKLSEQRVREIIAEHTDGRQLGVLGSPTVNVLDVNLALGLGPLTCRS
>NC_013441.1|WP_012835755.1|4390606_4393144_-|sensor-histidine-kinase-KdpD
MADSGDGRAGDGRGRLEVFLGCAPGVGKTYEMLATARGLIDEGSDVVVAVVESHGRSATAALVEGLEVVERTSVAYRDATLEEMDLEAVLERHPQVALVDEMAHTNAPGLRNTKRWQDIEVLRDAGIDVLTTINIQHLESLNDVVAQITGVTQRETVPDEAVRAADQIELVDIDPQALRQRLTAGKVYPGRRIDGALTNYFRQGNLTALRELALLWLADRVDDTLADYRAANAITATWEARERVVVAITGGPESAALIRRASRIASRSSAELVVVHVVRGDGLAQRTPIDMTALRDLAAGFGAKIHTVVGDDVPATLLEFARGVNATQLVLGTSRRPRWQRILDEGVGATVVRESGRIDVHMVTHEETRRRHRLDIRETRFHRPLSWAAAVLVPLAVTGILMLLDPWLGFSSESALFFVAVLAVSMLGGIAPAVLSAVVSGLLLNYFLTNPRYTFTIDEPDNLITIMVMLMIAIAVAVLVDSATVRRAQAQRAGRDAELLSLFSTTVLGGADVPALLEKVRETYDQRGVTLIRRPKRGAPVIESKVGTEPPADEQAATTVCPVPGGEFEMWLTGPELGGRDRRVLTSVATQAAGAVQRRQLESEAAEAAALAQTDELRRALLSAVSHDLRTPLAAAKAAVSSLRSTDVTFSPEDTEELLATIEESTDQLSALVGNLLDSSRLAAGVVRPELRRTYLAEVIHRALYAVDRRSVDTPDVTVDLQQEWAYTDAGLLERALANLVDNAVRHGGDEVRVQARPDGTRCVIRVIDHGRGIPPEQRERVFTAFQQYGDRNGSSTGVGLGLSVAQGFVRAVGGSISVSGTPGGGTTMEVSLPMFASPAEAGEL
>NC_013441.1|WP_012835754.1|4389911_4390607_-|response-regulator
MEPQVRVLVVDDEPQLLRALRINLNARGFAVTTAADGREALTAASRMDPHVVVLDLGLPDMDGLTVLEGLRGWTTVPVIVLSARSDAADKVSALDAGADDYVTKPFGMEEFLARLRAAVRRGAVSSGLPEVPMVDAGSFQVDLAAKQVTRHGERIHLTPTEWEILEILVRNEGKLVSQKEILNSVWGPTYLGQSNYLRVYLASLRRKLEDDPVHPRHLITEAGMGYRFVAT
>NC_013441.1|WP_012835765.1|4400987_4401818_-|MerR-family-transcriptional-regulator
MFTIGDFATMGRVSIRMLRHYDRIGLLPPARVDEFTGYRYYTADQLRRLNRVVALKDLGFTLAEVARILDADVAPAELRGMLRLRRAQVAEQITADQDRLTRIEARLRMIEKEGTMSTNNVTVKSLAAVRAATLSDTAESTTSDVIGPVISRLFATLYEAVMGSGGVPAGPAVATYAPAGGDALIVTAACPIDDGPTVSCVDGLDVVTLPGTEQAATYVHHGRMADIGEGYQALATWIEDNGYRTDGTARETYLVGYPEPEDAWLTELAMPIVALG
>NC_013441.1|WP_115311851.1|4401926_4402610_+|ECF-RNA-polymerase-sigma-factor-SigK
MRAPVRCRPEAPSVDDNDDVTVRRPTTPEVGRGPTMTISAHPTAGPDDLGALLDRVGKGDAAAFATFYDLTAQRVYGMALRVIRDRGFSEEITQEVYLTVWRTANTFDGSSGSALSWVLTMAHRRAVDRVRSEVASRRRTLAHGQAAITPPFDEVTEISERREAARLVRSGLQRLTPAQRESIELAYFDGLTYREVAERLQVALPTVKSRIRDGMRRLRLSVADTAA
>NC_013441.1|WP_041920001.1|4402653_4404291_+|dihydroxyacetone-kinase-family-protein
MVSTRPYVLNSPDSFITDALRGLLAANPAIVWQADPGFLYRRDTDDDRVAVISGGGSGHEPMHSGMIGAGMLDAACPGLVFTSPNALQIAAATRQVDRGRGVLHIVKNYTGDVMNFRIARHMLRDEVTTDHVVVDDDVATESESGPGRRGTGATIIVEKICGAAAARGDELTEVAEIGRRVGADARSFAVAYRACTTPGSSAPSFELDDEEMELGVGIHGEAGEDRTTIVGARELVGRMLDRIVDSLSLTSDEQVICLVNGLGSAHPLELSLVFGEVICNLDERGVTVERAMVGTFVTALDMTGFSITLVRVDDAILELFDAETSAPAWPSVIARPTQVDEVTFAEPADTAADGPECGWLSDFVSRVVDSVDDLTELDKQAGDGDFGTNMTAALGHFDLPLRGSDTAVLHAISTSFFVRAGGTSGAVFGVLFRYLATAFEDANSFDEALGDGASSALGEIGDLGGAQVGDNTMVDALAPAVDALRDGRSLAEVADAAESGAESTRDTTASKGRASYVGENARGVVDPGALVTSWLFRAAAQSQAR
>NC_013441.1|WP_012835768.1|4404876_4407429_-|ATP-dependent-chaperone-ClpB
MDSFTPTTKTQQALSAAVQAAASAGNPDVRPAHILVALLDQSDGIASPLLKAVGVDPSNVRAQAQAMVDRMPTVSGASSTPQLSRESIAAISAAQQLAGELDDEYVSTEHMVVGLATGDSDVAKLLHNAGATPQALREAFVAVRGNARVTSEDPESTYQALEKYSTDLTAAAREGKLDPVIGRDTEIRRVVQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVAGDVPESLRGKTVISLDMGSMVAGAKYRGEFEERLKAVLDEIKGSAGQVITFIDELHTIVGAGATGDSAMDAGNMIKPMLARGELRLVGATTLEEYRKYIEKDAALERRFQQVYVGEPSVEDAIGILRGLKDRYEVHHGVRITDSALVAAATLSDRYITSRFLPDKAIDLVDEAASRLRMEIDSRPVEIDEVERIVRRLEVEEVALQKETDAASKERLEKLRQELADQKEKLNELSARWQSEKTAIDAVRDLKEELERLRGEADRAERDGDLGRAAELRYGKIPGLEKNLEAAIEKTGTDPGQDVMLQEEVGPDDVAQVVSSWTGIPAGRMLEGETAKLLRMEEELGHRVIGQKAAVVAVSDAVRRARAGVADPNRPLGSFMFLGPTGVGKTELAKALAEFLFDDERAMVRIDMSEYGEKHSVARLVGAPPGYVGYEAGGQLTEAVRRRPYTVVLFDEIEKAHPDVFDVLLQVLDEGRLTDGQGRTVDFRNTILVLTSNLGAGGDKDQVMAAVRSRFKPEFINRLDDVIIFDALSPEELVSIVDIQLAQLGKRLAQRRLELQVTPKAKEWLAERGFDPLYGARPLRRLVQQAIGDSLAKALLAGDIRDGDVVPVNVSADGESLVLG
>NC_013441.1|WP_155825195.1|4408871_4409033_-|hypothetical-protein
MTATPGPRLMSLDDWRDLGEMADVHTELQEGVRMVAPRPFPAEPWDLRIDLNR
>NC_013441.1|WP_012835770.1|4409140_4409866_+|hypothetical-protein
MADDIRFYFDPVCPFAWMTSKWVRQVQAQRDYSVDWRFISLRLLNAHIDYASHFPPEYEAGHTAGLLLLRAATSIRREHGRAPLGPLYQAFGTRIFEQHNGTYLVDGTDFRGTEGFLGPILDELGLPRQHIAALDDESLDTEIQAETDEALALTGRDVGTPIIHFEPPEGVAFFGPVISRLPDDEHAAQLWDHVIGLARFPGFAELKRSLREKPQLKAFGVDADETGEQEDWHGGSRRTKH
>NC_013441.1|WP_012835772.1|4412065_4412584_-|cupin-domain-containing-protein
MTAPKKTAVDLDQLIDSCIASRETRHEDWDTLGFQAAAGGDRFKRAQIRYIGSGATGNHEGDNRTLGSDHFTFSNMRLPVGAVGPEHTHHDVEEVFFVLEGELEVAVHDVEDGNRKAVRRLGYRDLIRVPAGVPRSLANVGDTDALFCVIIGSKKPELPTYPPSSEIYGVTR
>NC_013441.1|WP_012835773.1|4412627_4412996_-|RidA-family-protein
MTITADTTAPAAHPYSPAYEAAGFGFVSGALSVDENGKAVAGVEPALDAAVARLTERLATIDMALTDVVKTTYFVTDVSLRDAANRHYEKIFDAPRPAHSFVEVAALPYGASVEIEAIAHRA
>NC_013441.1|WP_012835774.1|4413034_4414585_-|aldehyde-dehydrogenase
MSLATSPAHLHDGSPVCASTPTVDPARDLRDRIFVAGRWEIGTGDLIESIDPATGAVFATLHGATADTVDTAVREGLSAARASGWASALPHERAAVLHRIGNAVEDACDRIAALQTLDTGKTLTETRALAMSAANTFRYMAAALETMDSALTTPRGPWLTMSTHRPMGVVGAITPWNSPIASDAQKLAPALAAGNAVISKPPVWAPWVTLLLAQLCEEAGLPAGVLSVLPGPGRTVGEALVSHPLVSKVSFTGGTATGRHLAHVAADKLMPITLELGGKSPTIVFDDADIERAVAGVLFGIFSSSGQSCIAGSRIFVQRSIFDAFTTDLVERAQQLRLGRGTDPGTDVAPMIARAHRDSVAAMVDDAVAAGARILCGGAIPDDPRLADGNYYPPTILTGVANTDTICQEEVFGPVAVILPFDDEADVIAQANDTVYGLACGIWTEDYRRALRLGEAVDAGTVWVNTYKQFSISTPFTGLRDSGLGTEKGRDAVRAYCDQKSIYLDRSDAPIAWGKH
>NC_013441.1|WP_012835775.1|4414809_4415349_-|MarR-family-transcriptional-regulator
MDGVDVIVSHWAVARPELDVSALKVFGRLHRSFLVYRARIARTFEAYDISEAGFDVLACLRRAEPDHRLTAGQLAEQTLVTTGGLSLRVKRLEDAGLVTRSRDAGDARVVYVTLTPQGAALVDRIADDHFAKLASMLGELSEEEAAELASLLSRLEHSSRSAVLEDGLDPGETDPITIG

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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
NC_013441_3	3.1\|4400660\|28\|NC_013441\|CRISPRCasFinder	4400660-4400687	28	NZ_CP013069	Pannonibacter phragmitetus strain 31801 plasmid p.p-1, complete sequence	100496-100523	4	0.857
NC_013441_3	3.1\|4400660\|28\|NC_013441\|CRISPRCasFinder	4400660-4400687	28	NZ_CP049244	Rhizobium pseudoryzae strain DSM 19479 plasmid unnamed3, complete sequence	583828-583855	6	0.786
NC_013441_3	3.1\|4400660\|28\|NC_013441\|CRISPRCasFinder	4400660-4400687	28	NZ_CP021653	Ralstonia solanacearum strain RS 488 plasmid unnamed, complete sequence	1842467-1842494	6	0.786
NC_013441_3	3.1\|4400660\|28\|NC_013441\|CRISPRCasFinder	4400660-4400687	28	NC_015377	Burkholderia gladioli BSR3 plasmid bgla_2p, complete sequence	106119-106146	6	0.786
NC_013441_3	3.1\|4400660\|28\|NC_013441\|CRISPRCasFinder	4400660-4400687	28	NZ_CP022209	Burkholderia gladioli pv. gladioli strain FDAARGOS_188 plasmid unnamed1, complete sequence	35858-35885	6	0.786
NC_013441_3	3.1\|4400660\|28\|NC_013441\|CRISPRCasFinder	4400660-4400687	28	NZ_CP009321	Burkholderia gladioli strain ATCC 10248 plasmid 1, complete sequence	88033-88060	6	0.786
NC_013441_3	3.1\|4400660\|28\|NC_013441\|CRISPRCasFinder	4400660-4400687	28	NZ_CP021767	Ralstonia solanacearum strain RS 489 plasmid unnamed, complete sequence	1842504-1842531	6	0.786
NC_013441_3	3.1\|4400660\|28\|NC_013441\|CRISPRCasFinder	4400660-4400687	28	NZ_CP012688	Ralstonia solanacearum strain UY031 plasmid unnamed, complete sequence	1842465-1842492	6	0.786
NC_013441_3	3.1\|4400660\|28\|NC_013441\|CRISPRCasFinder	4400660-4400687	28	NZ_CP022007	Burkholderia gladioli pv. gladioli strain KACC 11889 plasmid pls1, complete sequence	17934-17961	6	0.786
NC_013441_3	3.1\|4400660\|28\|NC_013441\|CRISPRCasFinder	4400660-4400687	28	NZ_CP029357	Azospirillum sp. CFH 70021 plasmid unnamed2	135737-135764	6	0.786
NC_013441_3	3.1\|4400660\|28\|NC_013441\|CRISPRCasFinder	4400660-4400687	28	NZ_CP033429	Burkholderia gladioli strain Burkholderia gladioli Co14 plasmid p1, complete sequence	10425-10452	6	0.786
NC_013441_3	3.1\|4400660\|28\|NC_013441\|CRISPRCasFinder	4400660-4400687	28	CP047139	Ralstonia solanacearum strain CFBP 8695 plasmid unnamed, complete sequence	257974-258001	6	0.786
NC_013441_3	3.1\|4400660\|28\|NC_013441\|CRISPRCasFinder	4400660-4400687	28	CP047137	Ralstonia solanacearum strain CFBP 8697 plasmid unnamed, complete sequence	238314-238341	6	0.786
NC_013441_3	3.1\|4400660\|28\|NC_013441\|CRISPRCasFinder	4400660-4400687	28	NZ_CP035710	Sphaerotilus natans subsp. sulfidivorans strain D-507 plasmid pSna507_unt10, complete sequence	228089-228116	6	0.786
NC_013441_3	3.1\|4400660\|28\|NC_013441\|CRISPRCasFinder	4400660-4400687	28	NC_007901	Rhodoferax ferrireducens T118 plasmid unnamed1, complete sequence	130524-130551	8	0.714

1. spacer 3.1|4400660|28|NC_013441|CRISPRCasFinder matches to NZ_CP013069 (Pannonibacter phragmitetus strain 31801 plasmid p.p-1, complete sequence) position: , mismatch: 4, identity: 0.857

ccgcccgccgatcgagcgcgcc-ccctgt	CRISPR spacer
ccgcccgcagatcgagcgcgccggtctg-	Protospacer
******** *************  .***

2. spacer 3.1|4400660|28|NC_013441|CRISPRCasFinder matches to NZ_CP049244 (Rhizobium pseudoryzae strain DSM 19479 plasmid unnamed3, complete sequence) position: , mismatch: 6, identity: 0.786

ccgcccgccgatcgagcgcgccccctgt	CRISPR spacer
gcgcccgccgatcgacagcgcccccgaa	Protospacer
 **************  ******** .

3. spacer 3.1|4400660|28|NC_013441|CRISPRCasFinder matches to NZ_CP021653 (Ralstonia solanacearum strain RS 488 plasmid unnamed, complete sequence) position: , mismatch: 6, identity: 0.786

ccgcccgccgatcgagcgcgccccctgt	CRISPR spacer
gggcctgccgatcgagcgcgccgccagc	Protospacer
  ***.**************** ** *.

4. spacer 3.1|4400660|28|NC_013441|CRISPRCasFinder matches to NC_015377 (Burkholderia gladioli BSR3 plasmid bgla_2p, complete sequence) position: , mismatch: 6, identity: 0.786

ccgcccgccgatcgagcgcgccccctgt	CRISPR spacer
ccgccggccgatcgagcgcgaccacgcg	Protospacer
***** ************** ** *

5. spacer 3.1|4400660|28|NC_013441|CRISPRCasFinder matches to NZ_CP022209 (Burkholderia gladioli pv. gladioli strain FDAARGOS_188 plasmid unnamed1, complete sequence) position: , mismatch: 6, identity: 0.786

ccgcccgccgatcgagcgcgccccctgt	CRISPR spacer
ccgccggccgatcgagcgcgaccacgcg	Protospacer
***** ************** ** *

6. spacer 3.1|4400660|28|NC_013441|CRISPRCasFinder matches to NZ_CP009321 (Burkholderia gladioli strain ATCC 10248 plasmid 1, complete sequence) position: , mismatch: 6, identity: 0.786

ccgcccgccgatcgagcgcgccccctgt	CRISPR spacer
ccgccggccgatcgagcgcgaccacgcg	Protospacer
***** ************** ** *

7. spacer 3.1|4400660|28|NC_013441|CRISPRCasFinder matches to NZ_CP021767 (Ralstonia solanacearum strain RS 489 plasmid unnamed, complete sequence) position: , mismatch: 6, identity: 0.786

ccgcccgccgatcgagcgcgccccctgt	CRISPR spacer
gggcctgccgatcgagcgcgccgccagc	Protospacer
  ***.**************** ** *.

8. spacer 3.1|4400660|28|NC_013441|CRISPRCasFinder matches to NZ_CP012688 (Ralstonia solanacearum strain UY031 plasmid unnamed, complete sequence) position: , mismatch: 6, identity: 0.786

ccgcccgccgatcgagcgcgccccctgt	CRISPR spacer
gggcctgccgatcgagcgcgccgccagc	Protospacer
  ***.**************** ** *.

9. spacer 3.1|4400660|28|NC_013441|CRISPRCasFinder matches to NZ_CP022007 (Burkholderia gladioli pv. gladioli strain KACC 11889 plasmid pls1, complete sequence) position: , mismatch: 6, identity: 0.786

ccgcccgccgatcgagcgcgccccctgt	CRISPR spacer
ccgccggccgatcgagcgcgaccacgcg	Protospacer
***** ************** ** *

10. spacer 3.1|4400660|28|NC_013441|CRISPRCasFinder matches to NZ_CP029357 (Azospirillum sp. CFH 70021 plasmid unnamed2) position: , mismatch: 6, identity: 0.786

ccgcccgccgatcgagcgcgccccctgt	CRISPR spacer
cgccccggcgaccgagcgcgccccctcg	Protospacer
*  **** ***.**************

11. spacer 3.1|4400660|28|NC_013441|CRISPRCasFinder matches to NZ_CP033429 (Burkholderia gladioli strain Burkholderia gladioli Co14 plasmid p1, complete sequence) position: , mismatch: 6, identity: 0.786

ccgcccgccgatcgagcgcgccccctgt	CRISPR spacer
ccgccggccgatcgagcgcgaccacgcg	Protospacer
***** ************** ** *

12. spacer 3.1|4400660|28|NC_013441|CRISPRCasFinder matches to CP047139 (Ralstonia solanacearum strain CFBP 8695 plasmid unnamed, complete sequence) position: , mismatch: 6, identity: 0.786

ccgcccgccgatcgagcgcgccccctgt	CRISPR spacer
gggcctgccgatcgagcgcgccgccagc	Protospacer
  ***.**************** ** *.

13. spacer 3.1|4400660|28|NC_013441|CRISPRCasFinder matches to CP047137 (Ralstonia solanacearum strain CFBP 8697 plasmid unnamed, complete sequence) position: , mismatch: 6, identity: 0.786

ccgcccgccgatcgagcgcgccccctgt	CRISPR spacer
gggcctgccgatcgagcgcgccgccagc	Protospacer
  ***.**************** ** *.

14. spacer 3.1|4400660|28|NC_013441|CRISPRCasFinder matches to NZ_CP035710 (Sphaerotilus natans subsp. sulfidivorans strain D-507 plasmid pSna507_unt10, complete sequence) position: , mismatch: 6, identity: 0.786

ccgcccgccgatcgagcgcgccccctgt	CRISPR spacer
gagcacgccgatcgagcgcgcgcccagc	Protospacer
  ** **************** *** *.

15. spacer 3.1|4400660|28|NC_013441|CRISPRCasFinder matches to NC_007901 (Rhodoferax ferrireducens T118 plasmid unnamed1, complete sequence) position: , mismatch: 8, identity: 0.714

ccgcccgccgatcgagcgcgccccctgt	CRISPR spacer
attgccgccgatcgagctcgcccccgca	Protospacer
 .  ************* *******

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

733850 : 796422

Mycobacterium_phage(33.33%)

holin,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_052298213.1\|733850_734912_-\|holin	phosphatidylcholine/phosphatidylserine synthase	NA	NA	NA	NA
WP_085950357.1\|734920_735718_-	phosphatidylserine decarboxylase	NA	NA	NA	NA
WP_012832589.1\|735787_737008_-	molybdopterin molybdotransferase MoeA	NA	NA	NA	NA
WP_012832590.1\|737085_737880_+	HAD-IIA family hydrolase	NA	NA	NA	NA
WP_041919700.1\|737938_738367_-	hypothetical protein	NA	NA	NA	NA
WP_012832591.1\|738675_739134_-	SRPBCC family protein	NA	NA	NA	NA
WP_012832592.1\|739236_739692_-	DUF350 domain-containing protein	NA	NA	NA	NA
WP_012832593.1\|740346_741312_-	WYL domain-containing protein	NA	NA	NA	NA
WP_012832594.1\|741436_741832_+	RidA family protein	NA	NA	NA	NA
WP_052298356.1\|743657_744857_-	LLM class flavin-dependent oxidoreductase	NA	NA	NA	NA
WP_012832596.1\|745021_745198_+	hypothetical protein	NA	NA	NA	NA
WP_012832598.1\|746650_747763_-	acyl-CoA dehydrogenase family protein	NA	NA	NA	NA
WP_012832599.1\|747815_749012_-	acyl-CoA dehydrogenase family protein	NA	NA	NA	NA
WP_012832600.1\|749140_749749_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_012832601.1\|749960_751379_+	amidase	NA	NA	NA	NA
WP_012832603.1\|751823_753455_-	cation acetate symporter	NA	NA	NA	NA
WP_012832604.1\|753451_753808_-	DUF485 domain-containing protein	NA	NA	NA	NA
WP_169309856.1\|753876_754185_+	PIN domain-containing protein	NA	NA	NA	NA
WP_012832606.1\|754185_755928_-	cation acetate symporter	NA	NA	NA	NA
WP_012832607.1\|755924_756335_-	membrane protein	NA	NA	NA	NA
WP_012832608.1\|756331_757159_-	response regulator transcription factor	NA	NA	NA	NA
WP_012832609.1\|757169_758378_-	histidine kinase	Q9EYF3	Enterobacteria_phage	1.5e-29	32.5
WP_012832610.1\|758541_760143_-	polyamine aminopropyltransferase	NA	NA	NA	NA
WP_012832611.1\|760149_760581_-	DUF350 domain-containing protein	NA	NA	NA	NA
WP_012832612.1\|760633_761146_-	DUF4247 domain-containing protein	NA	NA	NA	NA
WP_012832613.1\|761142_761697_-	DUF2617 family protein	NA	NA	NA	NA
WP_012832614.1\|761693_762329_-	DUF4178 domain-containing protein	NA	NA	NA	NA
WP_012832615.1\|762608_764234_+	chaperonin GroEL	A0A219YK78	uncultured_virus	1.4e-155	57.2
WP_115311771.1\|764481_764964_+	hypothetical protein	NA	NA	NA	NA
WP_012832617.1\|765078_766035_-	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_041920194.1\|766117_766735_-	TetR family transcriptional regulator	NA	NA	NA	NA
WP_083775518.1\|766762_768181_+	MFS transporter	A0A0M3UL24	Mycobacterium_phage	4.3e-55	38.1
WP_169309857.1\|768792_769818_+\|transposase	IS30 family transposase	Q9MBM9	Staphylococcus_prophage	3.7e-24	33.2
WP_041919704.1\|771958_772285_-\|transposase	transposase	A0A2P1JR43	Mycobacterium_phage	2.1e-21	50.5
WP_041919705.1\|772365_772647_+	hypothetical protein	NA	NA	NA	NA
WP_052298215.1\|772717_773536_-	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_155825219.1\|773712_773877_+	hypothetical protein	NA	NA	NA	NA
WP_012832621.1\|773949_774759_+	tyrosine-protein phosphatase	NA	NA	NA	NA
WP_012832622.1\|774776_775589_+	tyrosine-protein phosphatase	NA	NA	NA	NA
WP_012832623.1\|775681_777436_+	DUF1266 domain-containing protein	A0A2H4UVE2	Bodo_saltans_virus	1.5e-12	27.4
WP_012832624.1\|777450_778278_-	glycosyltransferase family 2 protein	NA	NA	NA	NA
WP_012832625.1\|778274_779249_-	hypothetical protein	NA	NA	NA	NA
WP_012832626.1\|779245_780337_-	glycosyltransferase	NA	NA	NA	NA
WP_012832627.1\|780329_781409_-	hypothetical protein	NA	NA	NA	NA
WP_012832628.1\|781525_782005_-	PaaI family thioesterase	NA	NA	NA	NA
WP_012832629.1\|782043_782646_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_012832630.1\|782911_783589_+	DUF4166 domain-containing protein	NA	NA	NA	NA
WP_012832631.1\|783654_784095_+	SRPBCC family protein	NA	NA	NA	NA
WP_012832632.1\|784263_784779_+	hypothetical protein	NA	NA	NA	NA
WP_041920200.1\|784861_785809_+	polyphosphate kinase 2	NA	NA	NA	NA
WP_012832634.1\|785858_786758_+	hypothetical protein	NA	NA	NA	NA
WP_012832635.1\|786849_787545_+	hypothetical protein	NA	NA	NA	NA
WP_012832636.1\|787555_788749_-	lipase	NA	NA	NA	NA
WP_012832637.1\|788952_790998_-	S9 family peptidase	NA	NA	NA	NA
WP_041920202.1\|791226_792792_+	serine hydrolase	NA	NA	NA	NA
WP_012832639.1\|792837_793854_-\|transposase	IS30 family transposase	W5R8L2	Staphylococcus_phage	3.3e-25	30.6
WP_083775521.1\|793945_794908_-\|transposase	IS3 family transposase	A0A1B3AZE5	Gordonia_phage	7.7e-165	87.8
WP_012831990.1\|795111_796422_+\|transposase	ISL3 family transposase	A0A2H4PDF8	Mycobacterium_phage	1.5e-107	50.2

DBSCAN-SWA_2

2743685 : 2771836

Gordonia_phage(33.33%)

integrase,transposase

attL 2759580:2759595|attR 2768477:2768492

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_169309875.1\|2743685_2743988_+\|transposase	IS3 family transposase	NA	NA	NA	NA
WP_169309844.1\|2743934_2744129_-	hypothetical protein	NA	NA	NA	NA
WP_012834355.1\|2744302_2745214_-	xanthine dehydrogenase family protein subunit M	NA	NA	NA	NA
WP_012834356.1\|2745210_2745717_-	2Fe-2S iron-sulfur cluster binding domain-containing protein	NA	NA	NA	NA
WP_012834357.1\|2745876_2746380_+	hypothetical protein	NA	NA	NA	NA
WP_012834358.1\|2746473_2747409_+	NADP-dependent oxidoreductase	NA	NA	NA	NA
WP_012834359.1\|2747497_2747734_-	CsbD family protein	NA	NA	NA	NA
WP_012834360.1\|2748033_2748897_+	alpha/beta fold hydrolase	A0A2L0HKZ0	Mycobacterium_phage	1.6e-12	26.9
WP_083775588.1\|2748964_2749969_-	lactonase family protein	NA	NA	NA	NA
WP_083775693.1\|2750221_2750677_-	SRPBCC domain-containing protein	NA	NA	NA	NA
WP_041919878.1\|2752711_2752912_-	serine hydrolase	NA	NA	NA	NA
WP_012834364.1\|2752908_2753625_-	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_012834365.1\|2753710_2753995_+	hypothetical protein	NA	NA	NA	NA
WP_052298266.1\|2753994_2754579_+	FAD-dependent oxidoreductase	NA	NA	NA	NA
WP_052298267.1\|2754536_2755406_+	BBE domain-containing protein	NA	NA	NA	NA
WP_012834366.1\|2755402_2756290_+	NAD(P)H-binding protein	NA	NA	NA	NA
WP_012834367.1\|2756623_2756839_+	hypothetical protein	NA	NA	NA	NA
WP_012834368.1\|2757066_2757405_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_012834369.1\|2757510_2757978_-	hypothetical protein	NA	NA	NA	NA
WP_012834370.1\|2758296_2760012_+	acyl-CoA dehydrogenase	NA	NA	NA	NA
2759580:2759595	attL	NA	NA	NA	NA
WP_041919879.1\|2760091_2760673_-	hypothetical protein	NA	NA	NA	NA
WP_012834373.1\|2761641_2763468_-\|integrase	tyrosine-type recombinase/integrase	W6MYA3	Pseudomonas_phage	2.3e-05	29.0
WP_012834374.1\|2763467_2764442_-\|integrase	tyrosine-type recombinase/integrase	S5M9V8	Brevibacillus_phage	1.1e-09	23.4
WP_085950369.1\|2764413_2765397_-\|transposase	IS3 family transposase	A0A160DCU2	Gordonia_phage	8.1e-154	91.3
WP_012834375.1\|2765399_2765717_-\|transposase	transposase	A0A1B3AZF8	Gordonia_phage	1.6e-50	98.1
WP_012834376.1\|2767777_2768947_-	L,D-transpeptidase family protein	NA	NA	NA	NA
2768477:2768492	attR	NA	NA	NA	NA
WP_075863355.1\|2769122_2769605_-	M23 family metallopeptidase	NA	NA	NA	NA
WP_012834377.1\|2770447_2771836_-\|transposase	IS256 family transposase	A0A218MNI5	uncultured_virus	2.9e-32	34.3

DBSCAN-SWA_3

2792712 : 2857161

Mycobacterium_phage(15.38%)

integrase,transposase

attL 2844344:2844403|attR 2859017:2859179

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_085948627.1\|2792712_2793965_-\|transposase	IS3 family transposase	A0A2P1JR32	Mycobacterium_phage	1.0e-121	71.2
WP_115311699.1\|2794305_2796126_+	cytochrome c oxidase assembly protein	NA	NA	NA	NA
WP_115311821.1\|2796122_2798324_-	copper-translocating P-type ATPase	A0A218MNH6	uncultured_virus	8.3e-82	33.7
WP_012834396.1\|2798500_2798872_+	BlaI/MecI/CopY family transcriptional regulator	NA	NA	NA	NA
WP_012834397.1\|2798874_2799840_+	M56 family metallopeptidase	NA	NA	NA	NA
WP_041919884.1\|2800079_2800301_-	hypothetical protein	NA	NA	NA	NA
WP_012834399.1\|2800375_2802160_-	cytochrome c oxidase subunit I	NA	NA	NA	NA
WP_012834400.1\|2802393_2803329_-	M23 family metallopeptidase	A0A1D8EVX2	Mycobacterium_phage	2.6e-16	40.8
WP_012834401.1\|2803721_2804336_+	TlpA family protein disulfide reductase	NA	NA	NA	NA
WP_012834402.1\|2804332_2805145_+	cytochrome c biogenesis protein CcdA	NA	NA	NA	NA
WP_012834403.1\|2805381_2806323_+	cation transporter	NA	NA	NA	NA
WP_012834404.1\|2806428_2807001_-	vitamin K epoxide reductase family protein	NA	NA	NA	NA
WP_012834405.1\|2807060_2807705_-	thioredoxin	NA	NA	NA	NA
WP_083775695.1\|2807967_2809419_+	apolipoprotein N-acyltransferase	NA	NA	NA	NA
WP_041920499.1\|2810163_2811342_-	L,D-transpeptidase family protein	NA	NA	NA	NA
WP_012834408.1\|2811882_2813481_+	cytochrome c biogenesis protein ResB	NA	NA	NA	NA
WP_012834409.1\|2813615_2813942_+	DUF4229 domain-containing protein	NA	NA	NA	NA
WP_115311822.1\|2814124_2815117_-	M23 family metallopeptidase	A0A2H4JB19	uncultured_Caudovirales_phage	1.6e-11	36.6
WP_012834411.1\|2815944_2816625_-	YHS domain-containing protein	NA	NA	NA	NA
WP_012834412.1\|2816621_2817221_-	class I SAM-dependent methyltransferase	NA	NA	NA	NA
WP_006896188.1\|2817877_2820919_+	MMPL family transporter	NA	NA	NA	NA
WP_006896189.1\|2820957_2822181_-\|transposase	IS110 family transposase	NA	NA	NA	NA
WP_115311700.1\|2822676_2823216_+	hypothetical protein	NA	NA	NA	NA
WP_115311701.1\|2823217_2823664_+	hypothetical protein	NA	NA	NA	NA
WP_012834415.1\|2823717_2824671_-	DUF2971 domain-containing protein	NA	NA	NA	NA
WP_012833431.1\|2824931_2826320_-\|transposase	IS256 family transposase	A0A218MNI5	uncultured_virus	2.9e-32	34.3
WP_041919889.1\|2826505_2831398_+	DEAD/DEAH box helicase	A0A1V0SLK7	Klosneuvirus	1.5e-27	24.4
WP_012834417.1\|2831568_2831847_-	hypothetical protein	NA	NA	NA	NA
WP_012834418.1\|2831888_2832179_-	type II toxin-antitoxin system RelE/ParE family toxin	NA	NA	NA	NA
WP_012834419.1\|2832175_2832451_-	type II toxin-antitoxin system Phd/YefM family antitoxin	NA	NA	NA	NA
WP_005179592.1\|2833348_2833990_-	organomercurial lyase MerB	NA	NA	NA	NA
WP_005179589.1\|2833931_2834483_-	MerR family transcriptional regulator	NA	NA	NA	NA
WP_012834420.1\|2834507_2835944_-	mercury(II) reductase	A0A2K5B2C5	Erysipelothrix_phage	2.4e-45	31.4
WP_005179587.1\|2836068_2836446_+	winged helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_005179582.1\|2837058_2837280_-	hypothetical protein	NA	NA	NA	NA
WP_012834421.1\|2837415_2839671_-	MMPL family transporter	NA	NA	NA	NA
WP_005179570.1\|2839786_2840176_+	winged helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_006902503.1\|2840172_2842137_+	cadmium-translocating P-type ATPase	E4ZFI9	Streptococcus_phage	2.3e-107	40.6
WP_012834422.1\|2842133_2842664_+	signal peptidase II	NA	NA	NA	NA
2844344:2844403	attL	NA	NA	NA	NA
WP_005179560.1\|2845363_2845954_+	cadmium resistance transporter	NA	NA	NA	NA
WP_012834423.1\|2846877_2847615_+	M23 family metallopeptidase	A0A2H4JB19	uncultured_Caudovirales_phage	1.3e-10	35.6
WP_083775591.1\|2847880_2848183_-	DUF4229 domain-containing protein	NA	NA	NA	NA
WP_012834424.1\|2848310_2849915_-	cytochrome c biogenesis protein ResB	NA	NA	NA	NA
WP_041920503.1\|2850455_2851634_+	L,D-transpeptidase family protein	NA	NA	NA	NA
WP_012834426.1\|2851897_2852542_+	thioredoxin	NA	NA	NA	NA
WP_012834427.1\|2852565_2853171_+	vitamin K epoxide reductase family protein	NA	NA	NA	NA
WP_012834428.1\|2853917_2854706_-	ATP-binding protein	U5N3V8	Enterobacteria_phage	3.7e-32	34.0
WP_012832290.1\|2854911_2855229_+\|transposase	transposase	A0A1B3AZF8	Gordonia_phage	1.7e-41	83.8
WP_083775592.1\|2855231_2856215_+\|transposase	IS3 family transposase	A0A160DCU2	Gordonia_phage	1.5e-139	80.9
WP_012834374.1\|2856186_2857161_+\|integrase	tyrosine-type recombinase/integrase	S5M9V8	Brevibacillus_phage	1.1e-09	23.4
2859017:2859179	attR	NA	NA	NA	NA

DBSCAN-SWA_4

3513774 : 3522893

Gordonia_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_085950419.1\|3513774_3516648_+	DEAD/DEAH box helicase	A0A160DHD3	Gordonia_phage	1.9e-38	27.1
WP_012835007.1\|3516644_3517421_+	SWIM zinc finger family protein	NA	NA	NA	NA
WP_012835008.1\|3517642_3518647_-	class 1b ribonucleoside-diphosphate reductase subunit beta	A0A160DHK0	Gordonia_phage	9.8e-155	86.2
WP_012835009.1\|3518702_3520898_-	class 1b ribonucleoside-diphosphate reductase subunit alpha	V9VI16	Lactococcus_phage	2.8e-207	51.3
WP_012835010.1\|3520958_3521429_-	class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI	A0A076GDF1	Bacillus_phage	4.2e-07	30.6
WP_012835011.1\|3521621_3521855_-	redoxin NrdH	V5UN81	Mycobacterium_phage	1.7e-22	67.1
WP_012835012.1\|3522326_3522893_-	NAD(P)H-dependent oxidoreductase	A0A2P0ZL77	Lactobacillus_phage	1.6e-08	27.7

DBSCAN-SWA_5

4993595 : 5042084

Mycobacterium_phage(57.14%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_085948627.1\|4993595_4994848_-\|transposase	IS3 family transposase	A0A2P1JR32	Mycobacterium_phage	1.0e-121	71.2
WP_041920812.1\|4995607_4995943_+	VOC family protein	NA	NA	NA	NA
WP_012836270.1\|4996059_4997409_+	NADP-specific glutamate dehydrogenase	NA	NA	NA	NA
WP_012836271.1\|4998002_4998167_-	hypothetical protein	NA	NA	NA	NA
WP_012836272.1\|4998201_4998645_-	Hsp20/alpha crystallin family protein	A0A1B2LRT2	Wolbachia_phage	1.0e-07	27.9
WP_012836273.1\|4998824_4998989_+	hypothetical protein	NA	NA	NA	NA
WP_012836274.1\|4998988_4999309_+	hypothetical protein	NA	NA	NA	NA
WP_012836275.1\|5000530_5001403_-	acetoacetate decarboxylase	NA	NA	NA	NA
WP_012836276.1\|5001559_5002243_+	type 1 glutamine amidotransferase domain-containing protein	NA	NA	NA	NA
WP_012836277.1\|5002279_5002852_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_012836278.1\|5002852_5004268_-	hypothetical protein	NA	NA	NA	NA
WP_052298452.1\|5004343_5005771_-	cytochrome P450	NA	NA	NA	NA
WP_012836280.1\|5005923_5006436_-	hypothetical protein	NA	NA	NA	NA
WP_012836281.1\|5006532_5007174_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_012836282.1\|5007222_5008626_+	MFS transporter	A0A0M3UL24	Mycobacterium_phage	4.1e-26	28.1
WP_012836283.1\|5008822_5010130_+	SWIM zinc finger family protein	NA	NA	NA	NA
WP_012836284.1\|5010126_5011593_+	hypothetical protein	NA	NA	NA	NA
WP_012836285.1\|5011589_5012690_+	AAA family ATPase	NA	NA	NA	NA
WP_012836286.1\|5012686_5014954_+	hypothetical protein	NA	NA	NA	NA
WP_012836287.1\|5014950_5016126_+	VWA domain-containing protein	NA	NA	NA	NA
WP_147290680.1\|5016189_5016762_-	hypothetical protein	NA	NA	NA	NA
WP_147290681.1\|5016761_5017043_-	hypothetical protein	NA	NA	NA	NA
WP_041920063.1\|5017009_5017678_-	glycosyltransferase family 39 protein	NA	NA	NA	NA
WP_012836288.1\|5017839_5018943_-	MSMEG_0565 family glycosyltransferase	NA	NA	NA	NA
WP_012836289.1\|5018946_5019801_-	carbon-nitrogen hydrolase family protein	NA	NA	NA	NA
WP_012836290.1\|5019831_5021277_-	GNAT family N-acetyltransferase	NA	NA	NA	NA
WP_012836291.1\|5021281_5022337_-	MSMEG_0568 family radical SAM protein	NA	NA	NA	NA
WP_012836292.1\|5022333_5023641_-	MSMEG_0569 family flavin-dependent oxidoreductase	NA	NA	NA	NA
WP_012836293.1\|5023637_5023958_-	MSMEG_0570 family nitrogen starvation response protein	NA	NA	NA	NA
WP_012836294.1\|5023950_5024850_-	carbon-nitrogen hydrolase family protein	M1HUQ7	Acanthocystis_turfacea_Chlorella_virus	1.8e-14	32.3
WP_012836295.1\|5024863_5025388_-	MSMEG_0572 family nitrogen starvation response protein	NA	NA	NA	NA
WP_012832538.1\|5025443_5026517_+\|transposase	IS630 family transposase	NA	NA	NA	NA
WP_012836297.1\|5027722_5029117_-\|transposase	IS1380 family transposase	A0A222ZN33	Mycobacterium_phage	1.4e-122	54.2
WP_012832711.1\|5029575_5030952_+\|transposase	IS1380-like element ISGbr1 family transposase	NA	NA	NA	NA
WP_085948627.1\|5032673_5033926_-\|transposase	IS3 family transposase	A0A2P1JR32	Mycobacterium_phage	1.0e-121	71.2
WP_012836299.1\|5036138_5037983_-	CHAT domain-containing protein	NA	NA	NA	NA
WP_115311741.1\|5038117_5038525_+	pentapeptide repeat-containing protein	NA	NA	NA	NA
WP_041920066.1\|5038708_5039128_+	hypothetical protein	NA	NA	NA	NA
WP_041920067.1\|5039440_5039728_+	hypothetical protein	NA	NA	NA	NA
WP_012836303.1\|5039700_5040216_+	hypothetical protein	NA	NA	NA	NA
WP_012836304.1\|5040655_5040853_-	hypothetical protein	NA	NA	NA	NA
WP_085950383.1\|5040931_5042084_+\|transposase	IS3 family transposase	S5WIU1	Leptospira_phage	5.6e-37	33.8

DBSCAN-SWA_6

5047475 : 5102675

Gordonia_phage(23.53%)

protease,integrase,transposase

attL 5054214:5054231|attR 5092820:5092837

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012836312.1\|5047475_5049725_-\|integrase,transposase	DDE-type integrase/transposase/recombinase	NA	NA	NA	NA
WP_012836313.1\|5049711_5050542_-\|transposase	TnsA-like heteromeric transposase endonuclease subunit	NA	NA	NA	NA
WP_012836315.1\|5051664_5051979_+	hypothetical protein	NA	NA	NA	NA
WP_012836316.1\|5051975_5052485_+	hypothetical protein	NA	NA	NA	NA
WP_041920070.1\|5053259_5054114_+	hypothetical protein	NA	NA	NA	NA
WP_012836318.1\|5054190_5054664_+	DUF488 domain-containing protein	A0A1B3AYW8	Gordonia_phage	2.3e-53	73.1
5054214:5054231	attL	NA	NA	NA	NA
WP_012836319.1\|5054660_5055452_-	hypothetical protein	A0A1B3AYQ9	Gordonia_phage	1.0e-69	51.4
WP_012836320.1\|5055657_5058726_+	N-6 DNA methylase	Q8V6N5	Halorubrum_phage	1.0e-16	33.3
WP_012836321.1\|5058974_5060801_-\|integrase	tyrosine-type recombinase/integrase	W6MYA3	Pseudomonas_phage	2.3e-05	29.0
WP_012834374.1\|5060800_5061775_-\|integrase	tyrosine-type recombinase/integrase	S5M9V8	Brevibacillus_phage	1.1e-09	23.4
WP_083775657.1\|5061746_5062730_-\|transposase	IS3 family transposase	A0A160DCU2	Gordonia_phage	4.9e-135	79.3
WP_012836322.1\|5062732_5063050_-\|transposase	transposase	A0A1B3AZF8	Gordonia_phage	7.8e-42	83.8
WP_041920071.1\|5063016_5063484_-	excisionase family DNA-binding protein	NA	NA	NA	NA
WP_012836323.1\|5063480_5064044_-	recombinase family protein	A0A219Y9V9	Aeromonas_phage	4.2e-30	45.9
WP_085950384.1\|5064235_5065488_-\|transposase	IS3 family transposase	A0A2P1JR32	Mycobacterium_phage	1.0e-121	71.2
WP_147290682.1\|5065671_5066097_+	hypothetical protein	NA	NA	NA	NA
WP_012836326.1\|5066319_5068569_-	replicative DNA helicase	G9L681	Escherichia_phage	2.2e-53	26.3
WP_041920821.1\|5069069_5069753_+	hypothetical protein	NA	NA	NA	NA
WP_012836328.1\|5070050_5070503_-	50S ribosomal protein L9	NA	NA	NA	NA
WP_005194109.1\|5070522_5070780_-	30S ribosomal protein S18	NA	NA	NA	NA
WP_012836329.1\|5070807_5071329_-	single-stranded DNA-binding protein	A0A2H4JEL4	uncultured_Caudovirales_phage	1.9e-53	85.2
WP_012836330.1\|5071441_5071723_-	30S ribosomal protein S6	NA	NA	NA	NA
WP_052298453.1\|5071985_5073431_+	hypothetical protein	NA	NA	NA	NA
WP_012836332.1\|5073427_5074018_+	GNAT family N-acetyltransferase	NA	NA	NA	NA
WP_012836333.1\|5074010_5074520_-	hypothetical protein	NA	NA	NA	NA
WP_115311869.1\|5074634_5076305_-	DUF2029 domain-containing protein	NA	NA	NA	NA
WP_012836335.1\|5076523_5078833_-	penicillin-binding protein	NA	NA	NA	NA
WP_012836336.1\|5078986_5079376_-	DUF5318 domain-containing protein	NA	NA	NA	NA
WP_012836337.1\|5079571_5080330_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_012836338.1\|5080322_5081414_+	inositol-3-phosphate synthase	A0A0H4IPK5	Stenotrophomonas_phage	3.7e-75	42.0
WP_083775659.1\|5081477_5081696_-	hypothetical protein	NA	NA	NA	NA
WP_147290683.1\|5083077_5083404_-	hypothetical protein	NA	NA	NA	NA
WP_041920824.1\|5083926_5084502_+	TerD family protein	K4JRX3	Caulobacter_phage	6.4e-34	41.7
WP_012836341.1\|5084620_5085763_+	DUF475 domain-containing protein	A0A172Q0Y5	Acinetobacter_phage	5.1e-59	40.5
WP_012836342.1\|5085828_5086563_-	tellurium resistance protein	NA	NA	NA	NA
WP_012836343.1\|5086672_5088742_-	hypothetical protein	NA	NA	NA	NA
WP_012836344.1\|5088746_5090423_-	Hsp70 family protein	A0A1V0SAK3	Catovirus	7.1e-33	25.9
WP_012836345.1\|5090489_5090954_+	nucleotide exchange factor GrpE	NA	NA	NA	NA
WP_012836346.1\|5090963_5091725_-	AIM24 family protein	NA	NA	NA	NA
WP_012836347.1\|5091721_5092426_-	AIM24 family protein	NA	NA	NA	NA
WP_012836348.1\|5092434_5093055_-	AIM24 family protein	NA	NA	NA	NA
5092820:5092837	attR	NA	NA	NA	NA
WP_012836349.1\|5093269_5094385_+	hypothetical protein	NA	NA	NA	NA
WP_041920074.1\|5094381_5095587_+	HpcH/HpaI aldolase/citrate lyase family protein	NA	NA	NA	NA
WP_012836351.1\|5095583_5096876_+	phosphoribosyltransferase family protein	NA	NA	NA	NA
WP_012836352.1\|5096872_5098000_+\|protease	cysteine protease StiP family protein	A0A172Q0S8	Acinetobacter_phage	4.8e-33	28.7
WP_012836353.1\|5097996_5098860_+	hypothetical protein	NA	NA	NA	NA
WP_012836354.1\|5098843_5100079_+	TerD family protein	K4JRX3	Caulobacter_phage	7.6e-16	38.9
WP_012836355.1\|5100640_5101549_+	NADP-dependent oxidoreductase	NA	NA	NA	NA
WP_012836356.1\|5101583_5102675_+\|transposase	IS630 family transposase	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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NC_013441

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

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection