CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Target MGE spacer number	Prophage number
NZ_CP041016	Sphingobium fuliginis ATCC 27551 chromosome cSF1, complete sequence	1 crisprs	csa3,DEDDh,cas3	0	5
NZ_CP041021	Sphingobium fuliginis ATCC 27551 plasmid pSF4, complete sequence	2 crisprs	NA	2	0
NZ_CP041017	Sphingobium fuliginis ATCC 27551 chromosome cSF2, complete sequence	0 crisprs	csa3	0	0
NZ_CP041019	Sphingobium fuliginis ATCC 27551 plasmid pSF2, complete sequence	0 crisprs	NA	0	0
NZ_CP041018	Sphingobium fuliginis ATCC 27551 plasmid pSF1, complete sequence	0 crisprs	WYL,csa3	0	2
NZ_CP041020	Sphingobium fuliginis ATCC 27551 plasmid pSF3, complete sequence	1 crisprs	NA	1	1

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NZ_CP041016_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP041016_1

1884077-1884187

Orphan

Consensus_repeat	Method
GCCTTCTTGGCCGGAGCTTTCTTGGCC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NZ_CP041016_1

>merge|NZ_CP041016|1|1884077-1884187|CRISPRCasFinder
TCAGCCTTGGCGGCAGCCTTCTTGGCCGGAGCTTTCTTGGCCTTGGGCTTCTCCTCGGCAGCGGCTTCCTCAGCCACGGCCTCATCCTTCTTGGCAGCGGCCTTCTTGGCC

>NZ_CP041016|1|1|1884077-1884187|CRISPRCasFinder
TCAGCCTTGGCGGCAGCCTTCTTGGCC	GGAGCTTTCTTGGCCTTGGGCTTCTCCTCGGCAGCGGCTTCCTCAGCCACGGCCTCA
TCCTTCTTGGCAGCGGCCTTCTTGGCC

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP041016.1\|WP_044662444.1\|1885985_1886177_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|227665
NZ_CP041016.1\|WP_061938857.1\|1890396_1890828_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|377555
NZ_CP041016.1\|WP_140042104.1\|1874097_1875063_+\|RluA-family-pseudouridine-synthase	unknown	unknown	gnl\|CDD\|161659
NZ_CP041016.1\|WP_140042106.1\|1889698_1890349_+\|endonuclease-III	unknown	unknown	gnl\|CDD\|223255
NZ_CP041016.1\|WP_140042108.1\|1891560_1892961_-\|efflux-transporter-outer-membrane-subunit	unknown	unknown	gnl\|CDD\|182103
NZ_CP041016.1\|WP_140042102.1\|1871894_1872947_+\|nitronate-monooxygenase	unknown	unknown	gnl\|CDD\|240081
NZ_CP041016.1\|WP_007685070.1\|1882099_1882735_-\|ATP-dependent-Clp-endopeptidase-proteolytic-subunit-ClpP	unknown	unknown	gnl\|CDD\|178955
NZ_CP041016.1\|WP_044662436.1\|1872943_1873597_-\|histidine-phosphotransferase	unknown	unknown	gnl\|CDD\|227675
NZ_CP041016.1\|WP_007685085.1\|1869747_1870086_+\|P-II-family-nitrogen-regulator	unknown	unknown	gnl\|CDD\|223424
NZ_CP041016.1\|WP_048575718.1\|1886323_1886929_+\|sigma-70-family-RNA-polymerase-sigma-factor	unknown	unknown	gnl\|CDD\|274376
NZ_CP041016.1\|WP_140042107.1\|1890993_1891479_-\|methylated-DNA--[protein]-cysteine-S-methyltransferase	unknown	unknown	gnl\|CDD\|234860
NZ_CP041016.1\|WP_140042103.1\|1873678_1874080_-\|M67-family-metallopeptidase	unknown	unknown	gnl\|CDD\|163701
NZ_CP041016.1\|WP_044662446.1\|1886846_1887872_+\|DUF4880-domain-containing-protein	unknown	unknown	gnl\|CDD\|226235
NZ_CP041016.1\|WP_025548839.1\|1875138_1876053_+\|RNA-polymerase-sigma-factor-RpoH	unknown	unknown	gnl\|CDD\|235838
NZ_CP041016.1\|WP_099185727.1\|1896145_1897306_-\|efflux-RND-transporter-periplasmic-adaptor-subunit	unknown	unknown	gnl\|CDD\|184990
NZ_CP041016.1\|WP_044662447.1\|1888927_1889692_+\|4-hydroxy-tetrahydrodipicolinate-reductase	unknown	unknown	gnl\|CDD\|234595
NZ_CP041016.1\|WP_044662442.1\|1882848_1883826_-\|glycosyltransferase	unknown	unknown	gnl\|CDD\|275035
NZ_CP041016.1\|WP_007685079.1\|1870181_1871594_+\|type-I-glutamate--ammonia-ligase	unknown	unknown	gnl\|CDD\|181884
NZ_CP041016.1\|WP_140042997.1\|1888041_1888740_-\|NAD-dependent-deacylase	unknown	unknown	gnl\|CDD\|234777
NZ_CP041016.1\|WP_007685071.1\|1880695_1881964_-\|ATP-dependent-Clp-protease-ATP-binding-subunit-ClpX	unknown	unknown	gnl\|CDD\|235422

Protein	Function_ID	Function_description	E-value
NZ_CP041016.1\|WP_044662444.1\|1885985_1886177_+\|hypothetical-protein	gnl\|CDD\|227665	COG5373, COG5373, Predicted membrane protein [Function unknown].	0.00107506
NZ_CP041016.1\|WP_061938857.1\|1890396_1890828_+\|hypothetical-protein	gnl\|CDD\|377555	pfam05751, FixH, FixH. This family consists of several Rhizobium FixH like proteins. It has been suggested that suggested that the four proteins FixG, FixH, FixI, and FixS may participate in a membrane-bound complex coupling the FixI cation pump with a redox process catalyzed by FixG.	0.00576966
NZ_CP041016.1\|WP_140042104.1\|1874097_1875063_+\|RluA-family-pseudouridine-synthase	gnl\|CDD\|161659	TIGR00005, Ribosomal_large_subunit_pseudouridine_synthase_D, pseudouridine synthase, RluA family. In E. coli, RluD (SfhB) modifies uridine to pseudouridine at 23S RNA U1911, 1915, and 1917, RluC modifies 955, 2504 and 2580, and RluA modifies U746 and tRNA U32. An additional homolog from E. coli outside this family, TruC (SP\|Q46918), modifies uracil-65 in transfer RNAs to pseudouridine. [Protein synthesis, tRNA and rRNA base modification].	8.25684e-127
NZ_CP041016.1\|WP_140042106.1\|1889698_1890349_+\|endonuclease-III	gnl\|CDD\|223255	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair].	2.22433e-107
NZ_CP041016.1\|WP_140042108.1\|1891560_1892961_-\|efflux-transporter-outer-membrane-subunit	gnl\|CDD\|182103	PRK09837, PRK09837, Cu(I)/Ag(I) efflux RND transporter outer membrane protein.	9.41321e-105
NZ_CP041016.1\|WP_140042102.1\|1871894_1872947_+\|nitronate-monooxygenase	gnl\|CDD\|240081	cd04730, NPD_like, 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase family that reduce a range of alternative electron acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as electron donor. Some contain 4Fe-4S cluster to transfer electron from FAD to FMN.	3.2062e-78
NZ_CP041016.1\|WP_007685070.1\|1882099_1882735_-\|ATP-dependent-Clp-endopeptidase-proteolytic-subunit-ClpP	gnl\|CDD\|178955	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed.	2.55951e-139
NZ_CP041016.1\|WP_044662436.1\|1872943_1873597_-\|histidine-phosphotransferase	gnl\|CDD\|227675	COG5385, COG5385, Uncharacterized protein conserved in bacteria [Function unknown].	1.11367e-36
NZ_CP041016.1\|WP_007685085.1\|1869747_1870086_+\|P-II-family-nitrogen-regulator	gnl\|CDD\|223424	COG0347, GlnK, Nitrogen regulatory protein PII [Amino acid transport and metabolism].	3.91978e-56
NZ_CP041016.1\|WP_048575718.1\|1886323_1886929_+\|sigma-70-family-RNA-polymerase-sigma-factor	gnl\|CDD\|274376	TIGR02985, Sig70_bacteroi1, RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.	2.77071e-26
NZ_CP041016.1\|WP_140042107.1\|1890993_1891479_-\|methylated-DNA--[protein]-cysteine-S-methyltransferase	gnl\|CDD\|234860	PRK00901, PRK00901, methylated-DNA--protein-cysteine methyltransferase; Provisional.	4.33801e-66
NZ_CP041016.1\|WP_140042103.1\|1873678_1874080_-\|M67-family-metallopeptidase	gnl\|CDD\|163701	cd08070, MPN_like, Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding). This family contains archaeal and bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.	4.05174e-37
NZ_CP041016.1\|WP_044662446.1\|1886846_1887872_+\|DUF4880-domain-containing-protein	gnl\|CDD\|226235	COG3712, FecR, periplasmic ferric-dicitrate binding protein FecR, regulates iron transport through sigma-19 [Inorganic ion transport and metabolism, Signal transduction mechanisms].	5.05916e-57
NZ_CP041016.1\|WP_025548839.1\|1875138_1876053_+\|RNA-polymerase-sigma-factor-RpoH	gnl\|CDD\|235838	PRK06596, PRK06596, RNA polymerase factor sigma-32; Reviewed.	3.14497e-175
NZ_CP041016.1\|WP_099185727.1\|1896145_1897306_-\|efflux-RND-transporter-periplasmic-adaptor-subunit	gnl\|CDD\|184990	PRK15030, PRK15030, multidrug efflux RND transporter periplasmic adaptor subunit AcrA.	3.67831e-110
NZ_CP041016.1\|WP_044662447.1\|1888927_1889692_+\|4-hydroxy-tetrahydrodipicolinate-reductase	gnl\|CDD\|234595	PRK00048, PRK00048, dihydrodipicolinate reductase; Provisional.	5.83617e-114
NZ_CP041016.1\|WP_044662442.1\|1882848_1883826_-\|glycosyltransferase	gnl\|CDD\|275035	TIGR04182, glyco_TIGR04182, glycosyltransferase, TIGR04182 family. Members of this family are glycosyltransferases restricted to the archaea. All but two members are from species with the PGF-CTERM/archaeosortase A system, a proposed maturation system for exported, glycosylated proteins as are found often in S-layers.	2.51097e-65
NZ_CP041016.1\|WP_007685079.1\|1870181_1871594_+\|type-I-glutamate--ammonia-ligase	gnl\|CDD\|181884	PRK09469, glnA, glutamate--ammonia ligase.	0
NZ_CP041016.1\|WP_140042997.1\|1888041_1888740_-\|NAD-dependent-deacylase	gnl\|CDD\|234777	PRK00481, PRK00481, NAD-dependent deacetylase; Provisional.	3.32262e-115
NZ_CP041016.1\|WP_007685071.1\|1880695_1881964_-\|ATP-dependent-Clp-protease-ATP-binding-subunit-ClpX	gnl\|CDD\|235422	PRK05342, clpX, ATP-dependent Clp protease ATP-binding subunit ClpX.	0

>NZ_CP041016.1|WP_044662442.1|1882848_1883826_-|glycosyltransferase
MKEFPAVESGEGVATPRIAVILPCYNEAGAIVRTVGDFRRALPSAEIYVFDNNSTDGSRELAAGAGAIVRRVAQQGKGHVVRRMFADVDADIYIMADGDATYEAAAAPKMVAAMLEDNLDMVVGARRSEIEEAYRRGHRFGNWALTSLLKRLFGRSFTDILSGYRVFSRRFVKSFPVLSAGFEIETEISVHALELAMPVSEVVTAYGARPEGSVSKLSTYRDGWRILRTIITLYRIERPILFFGIIAALLALTGLVLAAPLILTYMKTGLVPRFPTAILVTGLMILATLSGMCGLILDTVVRGRREVRRLAYLAFKAPSDFARRD
>NZ_CP041016.1|WP_007685070.1|1882099_1882735_-|ATP-dependent-Clp-endopeptidase-proteolytic-subunit-ClpP
MTDIMSDPMAALVPIVIEQSNRGERSFDIYSRLLRERIIFVTGQVEDHMASLIVAQLLFLESENPKKDIWMYINSPGGVVTSGMAIHDTMKYIRPQVGTVCIGQAASMGSFLLAAGEPGKRIALSNARIMVHQPSGGAQGMASDIEIQAKEILRIRSRLNNLYVQYTGRSLEEVERAMDRDTFLEAEEAKAFGLVDEVFDRRPAMAETPEG
>NZ_CP041016.1|WP_007685071.1|1880695_1881964_-|ATP-dependent-Clp-protease-ATP-binding-subunit-ClpX
MTKLTGSDSKSTLYCSFCGKSQHEVRKLIAGPTVFICDECVELCNDIIREETKGGLVGKKDGGVPTPQEICDVLDDYVIGQNRAKRVLSVAVHNHYKRLNHGTKPGEVELAKSNILLVGPTGCGKTLLAQTLAKTFDVPFTMADATTLTEAGYVGEDVENIILKLLQASDYNVEKAQRGIVYIDEIDKISRKAENPSITRDVSGEGVQQALLKLMEGTTASVPPQGGRKHPQQEFLQVDTTNILFICGGAFAGLEKIIGDRLEAKSIGFGAHVAAPEERKTGELLRQSEPEDLLKFGLIPEFVGRLPVIATLEDLDVAALVKILVEPKNALVKQYAKLFDMENVELSFTDDALTAIAKKAIERKTGARGLRSILEAILLDTMFDLPSMEGVGEVVVDKDVVAGSKEPIRVFSEKDKRAEDAA
>NZ_CP041016.1|WP_025548839.1|1875138_1876053_+|RNA-polymerase-sigma-factor-RpoH
MADKSNVPAVPALGGEASLNRYLSEIRKFPILTPEQEYMLAKRYAEHADSEAAAQLVTSHLRLVAKIAMGYRGYGLPVSELISEGNIGLMQGVKKFEPDRGFRLATYAMWWIRASIQEFILRSWSLVKMGTTAAQKKLFFNLRRMKNNIEAFEDGDLHPDDVRKIATDLGVTEEDVISMNRRMAMGGDTSLNVPMREDGEGQWQDWLADTDPLQDERVADQQESELRHDMLVEAMDDLNDREKHILAERRLAEEPKTLEELSQVYGVSRERVRQIEVRAFEKLQKAMMRIAGDKLGKISRLAAV
>NZ_CP041016.1|WP_140042104.1|1874097_1875063_+|RluA-family-pseudouridine-synthase
MGPGVSIIEATIGEAQAGMRLDKALAELVPDLSRERLKALIVEGQVTEDQGKGGARSPNPSMKVAAGQAFAIALPPPVEAEAVAQDIPLVVVYEDADLIVIDKPAGLVVHPAAGNLDGTLVNALLHHCQGQLSGIGGVARPGIVHRIDKDTSGLLVVAKSDRAHEGLAQQFKAHSIDRLYAAIVYGVPQPATGTIDTWIGRSDADRKKMAVHREGRGKHAVTHYRTMERLRSAAMVECRLETGRTHQVRVHMAHLGHPLIGDPVYGRERKGFKSILETLGFERQALHAKRLGFIHPLTGEALSFDSKLPVDMQELLSELHV
>NZ_CP041016.1|WP_140042103.1|1873678_1874080_-|M67-family-metallopeptidase
MRVGISRGLLEQIMSEAAAHRHEVCGLLLGKAGRIEAVRPAANVAGDPARHFELDPVELIAAHRAARAGGAAIVGHYHSHPGGQAVPSQTDAACATPDGSLWLIVGGGAARLWLATAGRDGQVQFVEALLDIM
>NZ_CP041016.1|WP_044662436.1|1872943_1873597_-|histidine-phosphotransferase
MTNPIDSIDFASLLCSRLCHDLLSPVGALNNGLELMADETDPEMRQRCLDLLADSAKTSANKLKFFRLAFGSAGGFGDAVPTHEARVAIEGMFAASGRVKIGWLVEDDMLEKLPVKVLLNLALIAGDALVRGGQLDIGAEKRPGVTEIVVRAEGPKLVLDPDLRAALAGTLPPEGLASRTSAAWMVRTLVTSVGGEIALSPAGEPILLFGASIPDAR
>NZ_CP041016.1|WP_140042102.1|1871894_1872947_+|nitronate-monooxygenase
MSIIESLGLSHPIIQAPMAGVSTPAMAAAVSNAGALGSIAVGATDAAGARAMIEAVRAQTSGPFNVNLFTHRPARSDPVREGAWLATLTPLFQAYDAQPPTGLREIYRSFVEDDAMLSTLVELAPPVVSFHFGLPNPTSIAALKRAGCLLLATVTSPVEARAAREAGIDAIVAQGYEAGGHRGAFDPEAPDDQLGTFALTRLLAAQCDLPVVAAGGIMDGQGIRAALALGAVAAQLGTAFIACTESSADAAYRAALTSPAAHHTAMTRAISGRPARCLANRFTAWGAEAALQPPAYPIAYDVGKALNTAAKAKGEGGFGAQWAGQGAPLARALPAAELIGLLAREMQESA
>NZ_CP041016.1|WP_007685079.1|1870181_1871594_+|type-I-glutamate--ammonia-ligase
MANTPKDILKMIEEKEIEWVDVRFTDPKGKWQHLTMVSSVLGEDELTQGLMFDGSSIEGWKAINESDMILKPDLDAVYVDPFSATPMLIIFCDIVEPDTGELYSRDPRSTAKRAEAFVKSAGFGDTVYVGPEAEFFMFDDVRFNSDYNESFFKIDDVELPTNTGKEYEGGNLAHRPRAKGGYFPVAPVDPCTDIRAEMVSTMLEMGLPCDKHHHEVAAAQHELGLTFGTLVQTADRMQIYKYVVQMVAQAYGKTATFMPKPIAQDNGSGMHTHMSIWEGGKPLFAGEGYAGLSETCLYFIGGVIKHAKALNAFTNPTTNSYKRLVPGFEAPVLLAYSARNRSASCRIPYGAGAKAKRVEFRFPDAMANPYLCYSALLMAGLDGIENKIHPGAAMDKNLYDLPPEELSQVPTVCGSLREALNSLAADHDFLLKGDVFTKDQIEAYLELKWPEVYRWEMAPSPVEFDMYYSA
>NZ_CP041016.1|WP_007685085.1|1869747_1870086_+|P-II-family-nitrogen-regulator
MKKIEAIIKPFKLDEVKEALHEVGVSGITVTEAKGFGRQKGHTELYRGAEYVVDFLPKVKLEVVVDDSLAERVVEAISAAAQTGRIGDGKIFISNIEGAVRIRTGERDSDAI
>NZ_CP041016.1|WP_044662444.1|1885985_1886177_+|hypothetical-protein
MATHPDPAPDGVPPPDRIDPQSPPETPAPLTPDETPAGEPPEIVPNGPDFDQPDSAPPELPPV
>NZ_CP041016.1|WP_048575718.1|1886323_1886929_+|sigma-70-family-RNA-polymerase-sigma-factor
MHRVRAKLEWFKTVILPQEAALRGRLRRILPANQELEDMVAEVLARAYATENWENVTTGRAYLFTIARNLVIDTARRNKVVSFETIADLELLQGENNVEAQLHAREALRQVETIVDSLPTQCRRVFILRRIHEKSMLEIAEEMSLSVSTVEKHLAKAIAIVMRAWAEREETDFERAGVGTRFGLRKQGQDRGGSRAPAGKA
>NZ_CP041016.1|WP_044662446.1|1886846_1887872_+|DUF4880-domain-containing-protein
MQASGPDSGYESRDKIEAEAARLLARLNGDPRPEVEAEICRWVEADPRHAVAFARAEAAWEAAERLKSAAAEVNLPPLEAIVSEEQQRRLSRNIMIAAAVAVMLFIVAAIVTVRTFSGVDHYETRIGQISDIALDDGSTLHLNSDSAAEVRFTDHGRKVRILKGEASFDVAHDRSRPFDVEARSAVIRAVGTAFNVRLRPSLVELTVTQGTVTVHSGNDLAQQISAGSGAVIQPRSVSLTHLDSRLIGQRTAWREQMVELDGETIEQAASEFNRYRAAPILIGDTRVSSLRIGGRFRITDSKEFLSALQLSLPIRVVAGQDGSVMLLYQDEPEPADNAAGE
>NZ_CP041016.1|WP_140042997.1|1888041_1888740_-|NAD-dependent-deacylase
MDDIRNIVILTGAGISAESGLATFRGPDGLWEGHRVEDVCTPEALARNAPLVHRFYDERRARLEEVKPNAAHEALAALDAAWPGELLIVTQNVDDLHERAGAKRLVHMHGELRSALCAACGKAVPWTPALPPGSACDGCGRPALRPDIVFFGEMPYRMDLIDDALRRSDLFVSVGTSGAVYPAAGFVQTARHVGARTLELNLEPSAGSFYFEESRMGAASILVPELVRELLG
>NZ_CP041016.1|WP_044662447.1|1888927_1889692_+|4-hydroxy-tetrahydrodipicolinate-reductase
MTRIGIFGAAGRMGRAIAQVAQEAGLEIAGGTDRGGAGELAPGIAITADPLALAEQSDVLIDFSVPAALSAHLDACIAAKKPILIGTTGLESAHHALIDEASRQVPILQTGNTSLGVNLLAALVEQAAARLNDDWDIEIVEMHHRHKVDAPSGTALLLGEAAARGRGIALADHSERGRDGITGARARGAIGFAALRGGSVAGDHQVILAAEGERIEIGHRAENRVIFARGAVKGAQWLIGQPVGRYDMKGVLGL
>NZ_CP041016.1|WP_140042106.1|1889698_1890349_+|endonuclease-III
MKKDQIFDFFSRLAEANPAPRTELEYGNVYQLLVAVVLSAQATDVGVNKATRALFRDVHTPQQMVELGEEGLKQHIKTIGLFNAKAKNVIALSEILLRDFGGEVPQDRDVLTTLPGVGRKTANVVVNTAFGQETFAVDTHIFRVGNRTGLAPGKTPLAVELKLEKNVPGPFRRDAHHWLILHGRYVCKARKPECWRCIVADLCRFKPKTPAPGAGH
>NZ_CP041016.1|WP_061938857.1|1890396_1890828_+|hypothetical-protein
MTGSRDVIRTVNRRDDMSAPLIRQFALAAALACTAAPALAGKAPDNLVPAGKPVDCVQLNAIRSTEVRDDRTIDFIMNGNKVYRNILPMSCPSLGFERRFLYKTSLSQLCSVDIITVLYQTGGLQRGPSCGLGKFQPMQKMAK
>NZ_CP041016.1|WP_140042107.1|1890993_1891479_-|methylated-DNA--[protein]-cysteine-S-methyltransferase
MTYAYRTLASPVGALTLVACEAGLEAVLWQDDDPRRVPMGQRTERGDHPVLEEAGRQLNEYFAGQRETFDLPLHFKGTDFQKSVWTALLTIPFGETRSYADIARQIGRPSACRAVGAANGRNPISIIAPCHRVVGANGALTGFAGGLKAKSYLLGLERKFL
>NZ_CP041016.1|WP_140042108.1|1891560_1892961_-|efflux-transporter-outer-membrane-subunit
MNKMKPFSTAALALTLAACDMAPKYVRPALPVPAGSPQGPAYPAGQGQAIVPADTAWKDFFVDPRLARVIETSLADNRDLRVALANVEQARAQYRVRRADIFPTVNASGSATYQDTPFSQVGTGRMDIYSASVGVSAWEIDLFGRVRNLSRAAQEQYFASVENRNAAQTALVAEVANAWLAMAADQERLRIARDLEKAFGQTLDLTKARFAKGIASELEVRQAQTSHDRARSDIAEATTLVAQDQNALNLLAGMTVAAEDLPAAMPDGDVTLSNLPADLPSTALLRRPDIMAAEHQLLAANANIGAARAAFFPNISLTAAFGTLSLGLSNLFKSGSDTWSVVPSASLPIFDFGRNRGNLRYARATYDAMVATYEKSVQAGFREVADALARRGTMTEQMEAQTSLRDAARVSYRLSEARFRAGVDPFLTTLDAQRTLYNAEQSLLATRLARAANMVELYRAMGGGLK
>NZ_CP041016.1|WP_099185727.1|1896145_1897306_-|efflux-RND-transporter-periplasmic-adaptor-subunit
MQKGIFVGLFACASALALGACGEQQQPAPPPPAVGVVKLTVENAPLTTELPGRIAAVETAEVRPQISGVIRRRLFTEGAVVRAGQLLYEIEDAPYRAALGQAQGALSRAQASIRATGLQAQRYKELVGINAVSRQEADNAAASAQQARADVAAQRAAVQAAQVNQDFTRIRAPISGRIGRSLFTPGALVQAGQADPLATIQRTDVVYVDVTQSAAQIIDLKQAMKAGGVSAADGARVQLLLPNGSVYPIEGRLQFSEVTVDPSSGAVTLRATFANPDGLLLPGMYVRARLVEGQRSQAILAPQQGITRDARGRATAMVVGADNKVELRQVETDRAIGDKWIVTKGLKAGDRLVVEGLVNLRPGTVVKPGAPQQVTAGRQANAGGAN

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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

1288633 : 1309655

Helicobacter_phage(20.0%)

integrase,transposase

attL 1306326:1306343|attR 1309656:1309673

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_140041843.1\|1288633_1289053_+\|transposase	IS200/IS605 family transposase	G9CU69	Helicobacter_phage	2.7e-18	33.6
WP_140041844.1\|1289182_1290208_+\|transposase	IS110 family transposase	NA	NA	NA	NA
WP_140041845.1\|1290550_1291039_-	GFA family protein	NA	NA	NA	NA
WP_167706602.1\|1291216_1291357_-	hypothetical protein	NA	NA	NA	NA
WP_140041846.1\|1291903_1293133_-	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA
WP_030538512.1\|1293241_1294741_+\|transposase	IS21 family transposase	NA	NA	NA	NA
WP_030538513.1\|1294761_1295565_+	ATP-binding protein	U5N3V8	Enterobacteria_phage	8.9e-42	39.4
WP_140041847.1\|1295665_1296556_-	hypothetical protein	NA	NA	NA	NA
WP_140042970.1\|1296552_1298211_-	SIR2 family protein	NA	NA	NA	NA
WP_167706603.1\|1298548_1298701_+	hypothetical protein	NA	NA	NA	NA
WP_140041849.1\|1298709_1300614_-	AAA family ATPase	A0A068EQC7	Bacillus_phage	9.9e-07	20.0
WP_140041850.1\|1300616_1302590_-	AAA family ATPase	NA	NA	NA	NA
WP_140041851.1\|1302786_1303242_-	hypothetical protein	NA	NA	NA	NA
WP_140041852.1\|1303363_1304863_+	gamma-glutamylcyclotransferase	NA	NA	NA	NA
1306326:1306343	attL	NA	NA	NA	NA
WP_140041853.1\|1306405_1307395_-\|integrase	tyrosine-type recombinase/integrase	A0A1B1IQT7	uncultured_Mediterranean_phage	2.4e-12	33.3
WP_140041854.1\|1307391_1308297_-\|integrase	tyrosine-type recombinase/integrase	NA	NA	NA	NA
WP_140041855.1\|1308296_1309655_-\|integrase	tyrosine-type recombinase/integrase	A0A0K2CP59	Brevibacillus_phage	1.1e-15	26.9
1309656:1309673	attR	NA	NA	NA	NA

DBSCAN-SWA_2

1565418 : 1574883

Sinorhizobium_phage(12.5%)

terminase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_140041909.1\|1565418_1566513_-	hypothetical protein	A0A076G8D7	Sinorhizobium_phage	1.3e-14	34.7
WP_140041910.1\|1566509_1566848_-	hypothetical protein	NA	NA	NA	NA
WP_140041911.1\|1566844_1567057_-	hypothetical protein	NA	NA	NA	NA
WP_140041912.1\|1567179_1567668_-	hypothetical protein	NA	NA	NA	NA
WP_167706608.1\|1567937_1568585_-	helix-turn-helix domain-containing protein	A0A076FRF7	Pseudomonas_phage	9.8e-07	26.2
WP_140041914.1\|1568679_1568895_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_140041915.1\|1569096_1569519_+	hypothetical protein	NA	NA	NA	NA
WP_140041916.1\|1569559_1569916_+	hypothetical protein	A0A2H4PFW0	Mycobacterium_phage	1.5e-36	70.2
WP_140041917.1\|1569912_1570101_+	hypothetical protein	NA	NA	NA	NA
WP_140041918.1\|1570097_1570328_+	hypothetical protein	NA	NA	NA	NA
WP_140041919.1\|1570320_1570563_+	DUF2312 domain-containing protein	B0VK10	Azospirillum_phage	4.2e-19	58.8
WP_140041920.1\|1570562_1571435_+	MmcB family DNA repair protein	A9YWY3	Burkholderia_phage	1.1e-37	35.4
WP_140042982.1\|1571461_1571851_+	hypothetical protein	A0A240F4S6	Ochrobactrum_phage	1.1e-21	40.8
WP_167706609.1\|1571847_1572390_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_140041922.1\|1572510_1573050_+	hypothetical protein	NA	NA	NA	NA
WP_167706610.1\|1573165_1573312_+	hypothetical protein	NA	NA	NA	NA
WP_140041923.1\|1573340_1573553_+	hypothetical protein	NA	NA	NA	NA
WP_140041924.1\|1573536_1573803_+	DUF2442 domain-containing protein	NA	NA	NA	NA
WP_140041925.1\|1573799_1574027_+	hypothetical protein	NA	NA	NA	NA
WP_140041926.1\|1574023_1574518_+\|terminase	terminase small subunit	G0ZND3	Cronobacter_phage	3.9e-32	48.6
WP_140041927.1\|1574514_1574883_+	DUF4031 domain-containing protein	R9TSA1	Rhizobium_phage	8.8e-37	70.5

DBSCAN-SWA_3

1587691 : 1598904

Pseudomonas_phage(22.22%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_140041946.1\|1587691_1590760_+	tape measure protein	A0A2H4GY41	Pseudomonas_phage	2.9e-40	38.3
WP_140041947.1\|1590756_1591956_+	hypothetical protein	NA	NA	NA	NA
WP_140041948.1\|1591964_1592261_+	hypothetical protein	G8DCS1	Silicibacter_phage	1.8e-11	36.6
WP_140041949.1\|1592251_1592830_+	hypothetical protein	A0A1V0DX31	Synechococcus_virus	2.3e-31	41.2
WP_140041950.1\|1592839_1593067_+	hypothetical protein	M4R174	Loktanella_phage	4.2e-13	51.5
WP_140042983.1\|1593281_1593473_+	hypothetical protein	A0A2K8I9R5	Pseudomonas_phage	5.8e-08	50.9
WP_140041951.1\|1593465_1593819_+	hypothetical protein	A0A2D2W296	Stenotrophomonas_phage	7.2e-12	49.2
WP_140041952.1\|1593707_1596248_+	hypothetical protein	G8DCR8	Silicibacter_phage	2.4e-109	33.6
WP_140041953.1\|1596247_1597615_+	hypothetical protein	A0A077K818	Ralstonia_phage	4.0e-18	47.2
WP_140041954.1\|1597798_1598206_+	hypothetical protein	NA	NA	NA	NA
WP_140041955.1\|1598205_1598904_+	DUF3380 domain-containing protein	A0A0K1LN56	Caulobacter_phage	4.5e-50	48.7

DBSCAN-SWA_4

2606687 : 2612360

uncultured_Mediterranean_phage(66.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_044662761.1\|2606687_2607683_-	cysteine synthase A	A0A1X9I5K7	Streptococcus_phage	6.9e-52	41.0
WP_140043019.1\|2607857_2608826_+	cell wall hydrolase	A0A1B0UXM4	Roseobacter_phage	3.2e-17	39.7
WP_025546951.1\|2609210_2609339_+	entericidin A/B family lipoprotein	NA	NA	NA	NA
WP_025546953.1\|2609376_2610162_-	twin-arginine translocase subunit TatC	A0A1B1IVR7	uncultured_Mediterranean_phage	2.0e-46	42.6
WP_007685564.1\|2610626_2610857_-	twin-arginine translocase TatA/TatE family subunit	A0A1B1IVR9	uncultured_Mediterranean_phage	5.0e-06	75.0
WP_025546958.1\|2610987_2611581_-	SMC-Scp complex subunit ScpB	A0A1B1IVT7	uncultured_Mediterranean_phage	1.4e-39	44.1
WP_044660143.1\|2611577_2612360_-	segregation/condensation protein A	A0A1B1IVW1	uncultured_Mediterranean_phage	1.3e-29	32.0

DBSCAN-SWA_5

3142580 : 3209109

Burkholderia_phage(14.29%)

capsid,tRNA,terminase,head,integrase,tail,portal,transposase,plate

attL 3147089:3147106|attR 3213688:3213705

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_140042674.1\|3142580_3143495_-\|tRNA	methionyl-tRNA formyltransferase	NA	NA	NA	NA
WP_044660463.1\|3143457_3144054_-	sugar transferase	NA	NA	NA	NA
WP_140042675.1\|3144050_3145235_-	glycosyltransferase	NA	NA	NA	NA
WP_061934918.1\|3145637_3147776_+	polysaccharide biosynthesis protein	A0A1V0SAI8	Catovirus	1.4e-17	27.5
3147089:3147106	attL	NA	NA	NA	NA
WP_140042676.1\|3147791_3149048_+	DegT/DnrJ/EryC1/StrS family aminotransferase	A0A2K9L0G1	Tupanvirus	9.0e-73	38.9
WP_140042677.1\|3149044_3149887_+	sulfotransferase domain-containing protein	NA	NA	NA	NA
WP_140042678.1\|3150059_3150635_+	polysaccharide export protein	NA	NA	NA	NA
WP_140042679.1\|3150634_3151873_+	outer membrane beta-barrel protein	NA	NA	NA	NA
WP_061934928.1\|3152007_3153144_+	glycosyltransferase family 4 protein	NA	NA	NA	NA
WP_140042680.1\|3153140_3154004_+	sulfotransferase domain-containing protein	NA	NA	NA	NA
WP_140042681.1\|3154005_3155142_+	glycosyltransferase	NA	NA	NA	NA
WP_140042682.1\|3155132_3155849_+	metallophosphoesterase	NA	NA	NA	NA
WP_140042683.1\|3155845_3156829_+	carbamoyl phosphate synthase	NA	NA	NA	NA
WP_140042684.1\|3156825_3157704_+	NAD-dependent epimerase/dehydratase family protein	A0A0P0YMS6	Yellowstone_lake_phycodnavirus	6.0e-07	23.7
WP_037481813.1\|3157893_3158463_-	outer membrane protein assembly factor BamE	NA	NA	NA	NA
WP_044662835.1\|3158551_3159067_+	ubiquinol-cytochrome c chaperone	NA	NA	NA	NA
WP_140042685.1\|3159063_3159588_+	DUF177 domain-containing protein	NA	NA	NA	NA
WP_140042686.1\|3159584_3160124_+	hypothetical protein	NA	NA	NA	NA
WP_140042687.1\|3160176_3161256_+	DNA polymerase IV	NA	NA	NA	NA
WP_140042688.1\|3161393_3162206_-	DUF1134 domain-containing protein	NA	NA	NA	NA
WP_140042689.1\|3162680_3164027_+\|integrase	integrase arm-type DNA-binding domain-containing protein	Q8W6M6	Sinorhizobium_phage	1.9e-97	46.8
WP_140042690.1\|3164029_3164362_-	AlpA family phage regulatory protein	Q7M299	Enterobacteria_phage	1.1e-06	45.8
WP_140042691.1\|3164315_3164558_-	DUF2312 domain-containing protein	A0A2L0V115	Agrobacterium_phage	1.3e-17	64.0
WP_140042692.1\|3164569_3164749_-	hypothetical protein	NA	NA	NA	NA
WP_140042693.1\|3164748_3165192_-	hypothetical protein	NA	NA	NA	NA
WP_140042694.1\|3165209_3167930_-	toprim domain-containing protein	A0A077K8T2	Ralstonia_phage	3.9e-198	41.9
WP_167706702.1\|3168034_3168376_-	ogr/Delta-like zinc finger family protein	NA	NA	NA	NA
WP_140042696.1\|3168375_3168864_-	hypothetical protein	NA	NA	NA	NA
WP_140042697.1\|3168860_3169058_-	hypothetical protein	NA	NA	NA	NA
WP_140042698.1\|3169054_3169339_-	hypothetical protein	NA	NA	NA	NA
WP_140042699.1\|3169338_3169692_-	helix-turn-helix domain-containing protein	W6MWX8	Pseudomonas_phage	1.0e-05	48.3
WP_140042700.1\|3169738_3170263_+	helix-turn-helix domain-containing protein	K7P850	Enterobacteria_phage	2.3e-06	44.8
WP_140042701.1\|3170473_3171136_+	hypothetical protein	NA	NA	NA	NA
WP_167706704.1\|3171204_3171348_-	hypothetical protein	NA	NA	NA	NA
WP_140042702.1\|3171549_3172674_+	hypothetical protein	NA	NA	NA	NA
WP_140042703.1\|3172780_3173215_+	hypothetical protein	NA	NA	NA	NA
WP_167706740.1\|3173219_3174215_-	phage late control D family protein	R4JDM6	Burkholderia_phage	4.6e-72	45.4
WP_140043043.1\|3174226_3174622_-\|tail	phage tail protein	A0A2H4JG54	uncultured_Caudovirales_phage	2.3e-27	48.0
WP_140042705.1\|3174641_3177161_-\|tail	phage tail tape measure protein	V9IQL1	Stenotrophomonas_phage	2.4e-72	47.0
WP_137710118.1\|3177160_3177298_-\|tail	GpE family phage tail protein	A0A0F7LCR6	Escherichia_phage	2.5e-05	61.8
WP_140042706.1\|3177306_3177615_-\|tail	phage tail assembly protein	Q9ZXK2	Pseudomonas_virus	3.1e-19	60.5
WP_137710116.1\|3177677_3178193_-\|tail	phage major tail tube protein	A0A2H4J916	uncultured_Caudovirales_phage	1.6e-44	54.4
WP_140042707.1\|3178232_3179408_-\|tail	phage tail protein	F1BUU3	Erwinia_phage	6.4e-113	55.5
WP_140042708.1\|3179422_3179773_-	oxidoreductase	V9IQW0	Stenotrophomonas_phage	8.1e-24	51.8
WP_140042709.1\|3179772_3180327_-\|plate	phage baseplate assembly protein V	A0A0M3LPY9	Mannheimia_phage	1.6e-18	42.5
WP_140042710.1\|3180410_3180677_-	hypothetical protein	NA	NA	NA	NA
WP_140042711.1\|3180688_3181072_-\|tail	phage tail protein	C7U0A6	Ostreococcus_tauri_virus	1.9e-05	38.7
WP_140042712.1\|3181082_3183248_-\|tail	phage tail protein	V9IQX0	Stenotrophomonas_phage	7.7e-64	36.0
WP_140042713.1\|3183259_3183811_-\|tail	phage tail protein I	V9IQK7	Stenotrophomonas_phage	1.6e-45	50.8
WP_140042714.1\|3183807_3184701_-\|plate	baseplate assembly protein	V5YTH6	Pseudomonas_phage	1.2e-74	54.9
WP_140042715.1\|3184789_3185476_+	hypothetical protein	NA	NA	NA	NA
WP_140042716.1\|3185479_3186151_-	phage virion morphogenesis protein	A0A2H4J927	uncultured_Caudovirales_phage	1.6e-12	38.8
WP_140042717.1\|3186147_3186663_-\|tail	phage tail protein	A0A1S5NPS3	Burkholderia_phage	1.7e-25	48.9
WP_167706706.1\|3186662_3186920_-	hypothetical protein	NA	NA	NA	NA
WP_140042719.1\|3186891_3187371_-	hypothetical protein	NA	NA	NA	NA
WP_140042720.1\|3187375_3187858_-	N-acetylmuramoyl-L-alanine amidase	A0A1B0Z0F0	Vibrio_phage	1.5e-28	44.5
WP_137710101.1\|3187863_3188196_-	hypothetical protein	NA	NA	NA	NA
WP_137710453.1\|3188199_3188418_-\|tail	phage tail protein	K4PAW7	Burkholderia_phage	1.5e-07	44.4
WP_140042721.1\|3188429_3188912_-\|head	head completion/stabilization protein	E5E3S2	Burkholderia_phage	2.0e-33	51.9
WP_137710099.1\|3188908_3189136_-	hypothetical protein	NA	NA	NA	NA
WP_140042722.1\|3189256_3190126_-\|terminase	terminase	A0A077K804	Ralstonia_phage	1.1e-26	35.5
WP_140042723.1\|3190168_3191221_-\|capsid	phage major capsid protein, P2 family	Q9ZXM3	Pseudomonas_virus	8.3e-80	45.1
WP_140042724.1\|3191275_3192118_-\|capsid	GPO family capsid scaffolding protein	A0A2H4J928	uncultured_Caudovirales_phage	5.5e-42	42.1
WP_140042725.1\|3192282_3194136_+	oxidoreductase	A4JWU9	Burkholderia_virus	7.8e-174	52.9
WP_167706707.1\|3194132_3195176_+\|portal	phage portal protein	E5E3X1	Burkholderia_phage	4.2e-100	53.9
WP_140042726.1\|3195448_3195937_-	hypothetical protein	NA	NA	NA	NA
WP_140042727.1\|3195946_3197092_-	ImmA/IrrE family metallo-endopeptidase	NA	NA	NA	NA
WP_103000632.1\|3198452_3199316_+	OmpA family protein	NA	NA	NA	NA
WP_167706709.1\|3200229_3200436_-	hypothetical protein	NA	NA	NA	NA
WP_140042729.1\|3201058_3202165_+	DUF4172 domain-containing protein	D7RWK9	Brochothrix_phage	2.6e-07	24.0
WP_140042730.1\|3202207_3202786_-	hypothetical protein	NA	NA	NA	NA
WP_099185604.1\|3203152_3203881_-	ATP-binding protein	A0A059NT77	Lactococcus_phage	8.1e-34	38.6
WP_140042175.1\|3203867_3205382_-\|transposase	IS21 family transposase	NA	NA	NA	NA
WP_140042731.1\|3205613_3206516_+	hypothetical protein	NA	NA	NA	NA
WP_140042732.1\|3206488_3207865_+	hypothetical protein	NA	NA	NA	NA
WP_140042733.1\|3207840_3209109_-\|integrase	integrase arm-type DNA-binding domain-containing protein	B7SYF8	Stenotrophomonas_phage	5.3e-97	47.7
3213688:3213705	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_CP041021

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Crispr_ID: NZ_CP041021_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP041021_1

5401-5489

Orphan

Consensus_repeat	Method
AAAGTGAGTGTTGGGGTCGAGTC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NZ_CP041021_1

>merge|NZ_CP041021|1|5401-5489|CRISPRCasFinder
AAAGTGAGTGTTGGGGTCGAGTCGCGTGAGTTTTCGGGTAGCCTTCGGTGAGCTTTGGGGTCGGTAAAGGTGAGTGTTGGGGTCGAGTC

>NZ_CP041021|1|1|5401-5489|CRISPRCasFinder
AAAGTGAGTGTTGGGGTCGAGTC	GCGTGAGTTTTCGGGTAGCCTTCGGTGAGCTTTGGGGTCGGTA
AAGGTGAGTGTTGGGGTCGAGTC

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP041021.1\|WP_015063471.1\|11429_11795_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP041021.1\|WP_015063481.1\|3611_4715_+\|IS110-family-transposase	unknown	unknown	gnl\|CDD\|226077
NZ_CP041021.1\|WP_015063480.1\|5605_6517_+\|replication-initiation-protein	unknown	unknown	gnl\|CDD\|376444
NZ_CP041021.1\|WP_020817760.1\|6588_6855_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP041021.1\|WP_015063472.1\|11023_11395_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP041021.1\|WP_020817759.1\|7596_8232_-\|transcription-elongation-protein-SprT	unknown	unknown	gnl\|CDD\|370932
NZ_CP041021.1\|WP_020817757.1\|9156_9435_+\|toxin-antitoxin-system-HicB-family-antitoxin	unknown	unknown	gnl\|CDD\|310261
NZ_CP041021.1\|WP_015063478.1\|6880_7516_-\|AAA-family-ATPase	unknown	unknown	gnl\|CDD\|222854
NZ_CP041021.1\|WP_020817756.1\|10058_11027_-\|tyrosine-type-recombinase/integrase	unknown	unknown	gnl\|CDD\|271196
NZ_CP041021.1\|WP_015063474.1\|9441_10062_+\|histidine-phosphatase-family-protein	unknown	unknown	gnl\|CDD\|366010
NZ_CP041021.1\|WP_020817758.1\|8734_9154_+\|putative-toxin-antitoxin-system-toxin-component,-PIN-family	unknown	unknown	gnl\|CDD\|379205

Protein	Function_ID	Function_description	E-value
NZ_CP041021.1\|WP_015063481.1\|3611_4715_+\|IS110-family-transposase	gnl\|CDD\|226077	COG3547, COG3547, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	4.76488e-23
NZ_CP041021.1\|WP_015063480.1\|5605_6517_+\|replication-initiation-protein	gnl\|CDD\|376444	pfam01051, Rep_3, Initiator Replication protein. This protein is an initiator of plasmid replication. RepB possesses nicking-closing (topoisomerase I) like activity. It is also able to perform a strand transfer reaction on ssDNA that contains its target. This family also includes RepA which is an E.coli protein involved in plasmid replication. The RepA protein binds to DNA repeats that flank the repA gene.	1.26621e-25
NZ_CP041021.1\|WP_020817759.1\|7596_8232_-\|transcription-elongation-protein-SprT	gnl\|CDD\|370932	pfam10263, SprT-like, SprT-like family. This family represents a domain found in eukaryotes and prokaryotes. The domain contains a characteristic motif of the zinc metallopeptidases. This family includes the bacterial SprT protein.	0.00124626
NZ_CP041021.1\|WP_020817757.1\|9156_9435_+\|toxin-antitoxin-system-HicB-family-antitoxin	gnl\|CDD\|310261	pfam05534, HicB, HicB family. This family consists of several bacterial HicB related proteins. The function of HicB is unknown although it is thought to be involved in pilus formation. It has been speculated that HicB performs a function antagonistic to that of pili and yet is necessary for invasion of certain niches.	0.0013652
NZ_CP041021.1\|WP_015063478.1\|6880_7516_-\|AAA-family-ATPase	gnl\|CDD\|222854	PHA02518, PHA02518, ParA-like protein; Provisional.	3.73073e-47
NZ_CP041021.1\|WP_020817756.1\|10058_11027_-\|tyrosine-type-recombinase/integrase	gnl\|CDD\|271196	cd01196, INT_C_like_6, Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain. Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.	3.87448e-104
NZ_CP041021.1\|WP_015063474.1\|9441_10062_+\|histidine-phosphatase-family-protein	gnl\|CDD\|366010	pfam00300, His_Phos_1, Histidine phosphatase superfamily (branch 1). The histidine phosphatase superfamily is so named because catalysis centers on a conserved His residue that is transiently phosphorylated during the catalytic cycle. Other conserved residues contribute to a 'phosphate pocket' and interact with the phospho group of substrate before, during and after its transfer to the His residue. Structure and sequence analyses show that different families contribute different additional residues to the 'phosphate pocket' and, more surprisingly, differ in the position, in sequence and in three dimensions, of a catalytically essential acidic residue. The superfamily may be divided into two main branches. The larger branch 1 contains a wide variety of catalytic functions, the best known being fructose 2,6-bisphosphatase (found in a bifunctional protein with 2-phosphofructokinase) and cofactor-dependent phosphoglycerate mutase. The latter is an unusual example of a mutase activity in the superfamily: the vast majority of members appear to be phosphatases. The bacterial regulatory protein phosphatase SixA is also in branch 1 and has a minimal, and possible ancestral-like structure, lacking the large domain insertions that contribute to binding of small molecules in branch 1 members.	1.16273e-23
NZ_CP041021.1\|WP_020817758.1\|8734_9154_+\|putative-toxin-antitoxin-system-toxin-component,-PIN-family	gnl\|CDD\|379205	pfam13470, PIN_3, PIN domain. Members of this family of bacterial domains are predicted to be RNases (from similarities to 5'-exonucleases).	3.39164e-23

>NZ_CP041021.1|WP_015063481.1|3611_4715_+|IS110-family-transposase
MSISKFVGLDVHKETIAVALADDGRTGEIRFYGTIPNTQDSIRRLVARLSSPDVALHFCYEAGGCGYGIHRQLVDLGAECSVIAPSVMPRKPADRIKTDRRDAMTLARLLRSGELTAIWVPDEAHEAIRDLIRGRRQAKHDLVAGRQMLLSFLLRHGRKFAGRSNWTKAHWRWLGEQAFDAPHQQFVFGESIRRIEEAQQRCDRLDAMLVEALPYWSLAPLVQALQALRGVGLIVAATLVAEIGDLGRFDTPKQLMGWLGLVPSEASSGARTRRGAITKTGNREARAMLVEAAWSYRLPAREERRYRARVEGLPDEVKAIAWKAQVRLCQRYRMLAASGKPLPKVITAIARELVGFVWDIGRRMQPA
>NZ_CP041021.1|WP_015063480.1|5605_6517_+|replication-initiation-protein
MNHATSPVNGGKAKVALDGDTALTLAQKGRGNPFDPANYGEIVKPGELVDIVELSPLTLADRRIYNLLIANAWERIGEPVIHRIPKSALKGTHQGNERIESSLLRLMGTIAIVTIRKGGKSFKRRVQLLGPSDESLEKDGFLHYRIPEELIEILRNSEVYARLKTQVMYCFESKYALCLYEMIERRIGLEYKQSEEFTIAELRGLLNVPEGKLERFADFNKYCLKVAQEEINKLCPFWVEFTPIKKGRKVERVSMMWLPKTMSGRRDAQNLIDQHSIVRRAKLRGDIPEMPVLVDFSAPAAQR
>NZ_CP041021.1|WP_020817760.1|6588_6855_-|hypothetical-protein
MAIARKPNSKPKPPVTDDAADAFIAGAAKPTAPAITEAAEDGPRKSPVMLRFDRALLAKVDAAAKRRGISRSAWIQFTVSRALDAGEG
>NZ_CP041021.1|WP_015063478.1|6880_7516_-|AAA-family-ATPase
MILAVGNTKGGVGKTTLAVNLAVARALAGRDLLLVDGDEQGTALTFTELRAERLGEAGYTAVALTGAALRSQVRQLAPKYDDIIIDVGGRDTGSLRAALTVADTLLVPVQPRSFDVWALDQVAALVAEAREINEGLRAVAVLNGADPQGGDNEAALQMIGDIEGIEVLPTSIVRRKAFPNAAAEGRAVVEQSPRDAKAIDELAALVSAVFV
>NZ_CP041021.1|WP_020817759.1|7596_8232_-|transcription-elongation-protein-SprT
MTQDNRESWLNAVAAGMAPLFEALDAPLPAHIRVAIGFTSTGRKGKAIGECWDNRLSADGHFEIFIRPDLAHAADAMPAQIAAILAHELVHAAVGIPAGHGKAFKRVALGLGLVGPMRATTPGEAFLVAIAPILKAVGPLPHARLDTDGESTAPKKQKTRMLKCECATCGYTVRTARKWLELAGAPLCPIEDHGQMEHEPLDDEDEGEGGE
>NZ_CP041021.1|WP_020817758.1|8734_9154_+|putative-toxin-antitoxin-system-toxin-component,-PIN-family
MQRVVLDTSVIATALRSQTGASFALLRAVEYGRLKILATPSLFLEYEDVLKRPEQRQVSGLTLEAVDELLGELAALIEPVEVHLLWRPQLRDPDDEMVLEAAINGRADALVTYNIRDFRGAAPRFGIRLMQPADLLKEL
>NZ_CP041021.1|WP_020817757.1|9156_9435_+|toxin-antitoxin-system-HicB-family-antitoxin
MSKATYPLKLPTSIKAAAARLAKEDGVSLNQWIATAVAQKIGAVETAAEFFTRRAKGHTGSGLGRILDKVPNRPPEAGDELPEGWTLDRLRQ
>NZ_CP041021.1|WP_015063474.1|9441_10062_+|histidine-phosphatase-family-protein
MRAIFIRHGESTGNAGVPCHDLATIELTERGQEQARAVAASWTEAPALIVTSPYTRTRQTAAPTIARFPGVPVETWPIEEFTYLQPSRWNGTRSAERMPHLERYWSAADPDYCDGEGAESFGTLLRRCEAALARLAAMPADSLAYVFGHGQFIQAARAIVADAHMDDRAKMRAFWRKGEPPAIGNAQRVGFHWQGDRWACGPAVAA
>NZ_CP041021.1|WP_020817756.1|10058_11027_-|tyrosine-type-recombinase/integrase
MNQLAPLPSPASSPALPALIAAADDDTRRRFLEFFAVTIRNPHTRRAYARAAGDFLAWCEARGVASLAGVQPLHVAAWVEALGRELAAPSVKQQLAGVRHLFDWLVTGHIVPVNPAGSVRGPAHSQRRGKTPVLAPDEARRLLDSIDVTTHAGLRDRALIGLMVYSFARIGAALSMRVEDVFVQNRRLWVRLHEKGGKRHEMPCHHNLEHYLVEYIDGCGLREDRKGPLFRTIARGTKRLSDTPLPQANAFAMVRRRAAAAEIGTAIGNHSFRATGITTYLKNGGTLETAATMANHSSTRTTQLYDRRPDDVTLDEVERVLI
>NZ_CP041021.1|WP_015063472.1|11023_11395_-|hypothetical-protein
MTDDELPDDNPAERAQAKALREQARAGGLRFEAYLPGSMADWLLAQIERGRFADPSEAVFLIVQNFIEMEPHRDLQDELLRRILQARIDDPRPGIPHDEACARIDRLLAEPRPDPARWEKIAR
>NZ_CP041021.1|WP_015063471.1|11429_11795_-|hypothetical-protein
MTEKAATTPPQRRPIIRAVSFDEVGEAIGRLLPIAMPPTRAAETGASAKVADFLLAWWNGDECGHFPILHLCNVDAVIAEDMLTIMAYLAQEPTTYADAWGYRDAMHDLWVRYRGDPTESV

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Crispr_ID: NZ_CP041021_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP041021_2

24876-24964

Orphan

Consensus_repeat	Method
AAAGTGAGTGTTGGGGTCGAGTC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NZ_CP041021_2

>merge|NZ_CP041021|2|24876-24964|CRISPRCasFinder
AAAGTGAGTGTTGGGGTCGAGTCGCGTGAGTTTTCGGGTAGCCTTCGGTGAGCTTTGGGGTCGGTAAAGGTGAGTGTTGGGGTCGAGTC

>NZ_CP041021|2|2|24876-24964|CRISPRCasFinder
AAAGTGAGTGTTGGGGTCGAGTC	GCGTGAGTTTTCGGGTAGCCTTCGGTGAGCTTTGGGGTCGGTA
AAGGTGAGTGTTGGGGTCGAGTC

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP041021.1\|WP_140043586.1\|16281_16584_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP041021.1\|WP_015063478.1\|26354_26990_-\|AAA-family-ATPase	unknown	unknown	gnl\|CDD\|222854
NZ_CP041021.1\|WP_004213210.1\|19224_19776_-\|recombinase-family-protein	unknown	unknown	gnl\|CDD\|239737
NZ_CP041021.1\|WP_015063481.1\|23087_24191_+\|IS110-family-transposase	unknown	unknown	gnl\|CDD\|226077
NZ_CP041021.1\|WP_004213209.1\|18442_19228_-\|SDR-family-NAD(P)-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|223377
NZ_CP041021.1\|WP_020817760.1\|26062_26329_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP041021.1\|WP_140043583.1\|13191_13812_-\|histidine-phosphatase-family-protein	unknown	unknown	gnl\|CDD\|366010
NZ_CP041021.1\|WP_140043584.1\|13827_14280_-\|DUF2442-domain-containing-protein	unknown	unknown	gnl\|CDD\|224313
NZ_CP041021.1\|WP_140043582.1\|12232_13195_+\|tyrosine-type-recombinase/integrase	unknown	unknown	gnl\|CDD\|271196
NZ_CP041021.1\|WP_140043587.1\|16648_17749_-\|RepB-family-plasmid-replication-initiator-protein	unknown	unknown	gnl\|CDD\|370826
NZ_CP041021.1\|WP_008829513.1\|19915_22873_+\|Tn3-family-transposase	unknown	unknown	gnl\|CDD\|376561
NZ_CP041021.1\|WP_140043585.1\|14276_14495_-\|DUF4160-domain-containing-protein	unknown	unknown	gnl\|CDD\|379344

Protein	Function_ID	Function_description	E-value
NZ_CP041021.1\|WP_140043582.1\|12232_13195_+\|tyrosine-type-recombinase/integrase	gnl\|CDD\|271196	cd01196, INT_C_like_6, Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain. Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.	5.44719e-102
NZ_CP041021.1\|WP_140043584.1\|13827_14280_-\|DUF2442-domain-containing-protein	gnl\|CDD\|224313	COG1395, COG1395, Predicted transcriptional regulator [Transcription].	0.00223206
NZ_CP041021.1\|WP_140043583.1\|13191_13812_-\|histidine-phosphatase-family-protein	gnl\|CDD\|366010	pfam00300, His_Phos_1, Histidine phosphatase superfamily (branch 1). The histidine phosphatase superfamily is so named because catalysis centers on a conserved His residue that is transiently phosphorylated during the catalytic cycle. Other conserved residues contribute to a 'phosphate pocket' and interact with the phospho group of substrate before, during and after its transfer to the His residue. Structure and sequence analyses show that different families contribute different additional residues to the 'phosphate pocket' and, more surprisingly, differ in the position, in sequence and in three dimensions, of a catalytically essential acidic residue. The superfamily may be divided into two main branches. The larger branch 1 contains a wide variety of catalytic functions, the best known being fructose 2,6-bisphosphatase (found in a bifunctional protein with 2-phosphofructokinase) and cofactor-dependent phosphoglycerate mutase. The latter is an unusual example of a mutase activity in the superfamily: the vast majority of members appear to be phosphatases. The bacterial regulatory protein phosphatase SixA is also in branch 1 and has a minimal, and possible ancestral-like structure, lacking the large domain insertions that contribute to binding of small molecules in branch 1 members.	1.41729e-22
NZ_CP041021.1\|WP_004213210.1\|19224_19776_-\|recombinase-family-protein	gnl\|CDD\|239737	cd03768, SR_ResInv, Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. Resolvases and invertases affect resolution or inversion and comprise a major phylogenic group. Resolvases (e.g. Tn3, gamma-delta, and Tn5044) normally recombine two sites in direct repeat causing deletion of the DNA between the sites. Invertases (e.g. Gin and Hin) recombine sites in inverted repeat to invert the DNA between the sites. Cointegrate resolution with gamma-delta resolvase requires the formation of a synaptosome of three resolvase dimers bound to each of two res sites on the DNA. Also included in this subfamily are some putative integrases including a sequence from bacteriophage phi-FC1.	3.98542e-63
NZ_CP041021.1\|WP_015063478.1\|26354_26990_-\|AAA-family-ATPase	gnl\|CDD\|222854	PHA02518, PHA02518, ParA-like protein; Provisional.	3.73073e-47
NZ_CP041021.1\|WP_008829513.1\|19915_22873_+\|Tn3-family-transposase	gnl\|CDD\|376561	pfam01526, DDE_Tnp_Tn3, Tn3 transposase DDE domain. This family includes transposases of Tn3, Tn21, Tn1721, Tn2501, Tn3926 transposons from E-coli. The specific binding of the Tn3 transposase to DNA has been demonstrated. Sequence analysis has suggested that the invariant triad of Asp689, Asp765, Glu895 (numbering as in Tn3) may correspond to the D-D-35-E motif previously implicated in the catalysis of numerous transposases.	2.11171e-170
NZ_CP041021.1\|WP_015063481.1\|23087_24191_+\|IS110-family-transposase	gnl\|CDD\|226077	COG3547, COG3547, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	4.76488e-23
NZ_CP041021.1\|WP_140043587.1\|16648_17749_-\|RepB-family-plasmid-replication-initiator-protein	gnl\|CDD\|370826	pfam10134, RPA, Replication initiator protein A. Members of this family of bacterial proteins are single-stranded DNA binding proteins that are involved in DNA replication, repair and recombination.	1.82461e-106
NZ_CP041021.1\|WP_004213209.1\|18442_19228_-\|SDR-family-NAD(P)-dependent-oxidoreductase	gnl\|CDD\|223377	COG0300, DltE, Short-chain dehydrogenases of various substrate specificities [General function prediction only].	2.64327e-46
NZ_CP041021.1\|WP_140043585.1\|14276_14495_-\|DUF4160-domain-containing-protein	gnl\|CDD\|379344	pfam13711, DUF4160, Domain of unknown function (DUF4160).	5.66608e-12

>NZ_CP041021.1|WP_015063481.1|23087_24191_+|IS110-family-transposase
MSISKFVGLDVHKETIAVALADDGRTGEIRFYGTIPNTQDSIRRLVARLSSPDVALHFCYEAGGCGYGIHRQLVDLGAECSVIAPSVMPRKPADRIKTDRRDAMTLARLLRSGELTAIWVPDEAHEAIRDLIRGRRQAKHDLVAGRQMLLSFLLRHGRKFAGRSNWTKAHWRWLGEQAFDAPHQQFVFGESIRRIEEAQQRCDRLDAMLVEALPYWSLAPLVQALQALRGVGLIVAATLVAEIGDLGRFDTPKQLMGWLGLVPSEASSGARTRRGAITKTGNREARAMLVEAAWSYRLPAREERRYRARVEGLPDEVKAIAWKAQVRLCQRYRMLAASGKPLPKVITAIARELVGFVWDIGRRMQPA
>NZ_CP041021.1|WP_008829513.1|19915_22873_+|Tn3-family-transposase
MARRRLVSLEIWARHYGAPLDEREIARHYTLTSDDLEIVGRRRGDATRLGYAMLMLYMRWPGRALEAGEVPPAPVLAYVAQQLGVAPAAFADYAHRDQTRREHLVEIRRSHGFRIFDRNAFREVVAFSVPIAQTIIHPGQMADVIVDELRRLQILLPSPSILEAVLRRARQQAEQLTYEVLTNGLLPDTLQGLDDLLARRPGQVATWLSWMRNAPQSPAARNILRLIERLAYIRALGLDRARADMIPALTFDRLADEGSRITPQHLGELNALRRHATLAATGIRLEESLTDATLTMFDKLLGSMARRAENRTRDKALKTVRELQGHLRTLTGSCRLLIDARSKGVDSLAQIEALDWQHFAVAVEQAEVLGRPETVDRTAELIERHRTVKLFVGAFLNAFEFRGAGAVQGLLSALAIIAELYRTGKRRLPDRVPLRFVPPAWRPFVLRDGIVDRAAYELCALSQLRERLRAGDIWVAGSRQFRDFDSYLIPPATFAALREKGPLPLAIETDFERHIEERRTRLDTAIEQVTVLARQGELPQVKLDENGLIISPLKAATPPATEIARRAAYDRLPRVKITDLLLEVDAWTGFSECFIHRRSGREADDRNALLTVILADGINLGLTRMAETCRGASLRQLAHLHDWHISEAAYGEALGRLIDAHRAMPLAALWGDGTTSSSDGQQFHAGGRGAAIGDINARSGNEPGVAFYTHVSDRYDPFASRVIAATAGEAPYVLDGLLYHQTGLTIEEHYTDTGGASDHVFGLMPFFGYRFAPRLRDIKERRLHLLPGQESGPLLPGMTAEPIALGHVAAHWDELLRFATSIRTGTVTASAMLRRLSAYPRQNGLALALRELGRLERSIFMLDWLRDIDLRRRTQAGLNKGEARNALARALFFNQLGELRDRRFENQTYRASGLNLLVAAIILWNTRYLEMALADIGTADEIARHIAPLGWEHISLTGDYSWNVEDQPDPDALRPLRAVNSLLAA
>NZ_CP041021.1|WP_004213210.1|19224_19776_-|recombinase-family-protein
MALIGYARVSTADQKLSLQLDALNTAGCDRIFDDHASGAKADRPGLTEALAYLRPGDTLVVWKLDRLGRSMSHLIEKVGELAARGIGFRSLTENIDTTTSGGMLVFNIFGSLAQFERDLIRERTHAGLKAARERGNKGGRRPVVTPDKLRKARAHIAAGLTVREAAARLKIGKTALYKALENA
>NZ_CP041021.1|WP_004213209.1|18442_19228_-|SDR-family-NAD(P)-dependent-oxidoreductase
MKPLAIKNSWVLVTGASTGLGRASALRLAASYQAKPLIVGRRLDNLRELQTEIDERFNVPCEIIVADQREIEGREKIAAKVAELQVTAALLVAGMTSVGSFDAGRADTYAEVIETNILGFTDLLARLIAIFREQPFESSVIAVSSLAGETSVPFQAVYGASKAYVSTLMRALSVELAGTGVSVGSFAPGGIDTDMAALSDLKWGRLGLMDVDRCAAHAVHALVYRQSFAIPGMGNQLTYLASRVLPRSLVNRIAALPYRRP
>NZ_CP041021.1|WP_140043587.1|16648_17749_-|RepB-family-plasmid-replication-initiator-protein
MTIDPAPSLFDAVPPPAVDGDDRTPLLPVRHPNQDLFICDVLDAIPKDDMASMEHPVFSLSTKPDNRMRRYEHNGNVIEIIPSGKGLATIHDKDILIYCISQLVAKMNRGEQPSRTVRLQAYDMLVATNRQTSGEGYRLMADALTRLRGTTVRTNIQTGGVEETRIFGLIEEAKITRKTFDGRMLDLEITLSEWVYRSVISKNVLTLHRDYFRLRKPFERRMYELARKHCGVKDEWKIGLELLQKKCGSNSPLRVFRALVKKVCEHDADHGHFPDYAVTMEDDVILFRNRSGLKAKPDPVALADDAPYIDPETMHDAKTAAPGYDVYALYDEWVSWWHDMGKPELKSPAGAFLGFCKKRHERKPLR
>NZ_CP041021.1|WP_140043586.1|16281_16584_+|hypothetical-protein
MSRKGSLLALRDRDPAPSPATAEPEGKASAPIAGGTGTATGSSPVAPSRQGKKAMTGYFSPDMSFAMHMTARRHGMSLQDAMAEAFNDWLRKMGESPVGK
>NZ_CP041021.1|WP_140043585.1|14276_14495_-|DUF4160-domain-containing-protein
MYRGPRWKIAVYGRDHGVPHFHIEGPDYRCSVAIVSFELIVGTVPAAVLKDALEWAMPNQALLMQTWQELNG
>NZ_CP041021.1|WP_140043584.1|13827_14280_-|DUF2442-domain-containing-protein
MNITDKARTITAVRAIGPASLHLAWSDGTAADLDLGAILDDRAFAALRDAGEFAKVEVGDWGHSLAWPSGAELGADMLWLETLSATGHGDVRAFLEWRLRHALSLSKAADALGVSRRMVAYYSNGEKRVPKPILLACRGWEVSDGLHQAA
>NZ_CP041021.1|WP_140043583.1|13191_13812_-|histidine-phosphatase-family-protein
MRAIFIRHGESTGNAGVPCHDLAAIELTERGHEQARHVAASWAEAPALIVTSPYIRTRQTAAPTIARFPSVPVETWPIEEFTYLQPARWNGTRSAERMPHLERYWSAADPDYCDGEGAESFRALLRRCDAALARLAAMPPASLVYVFGHGQFIQAARAIVADAHLDDRGKMLGFWRKGEPPAIGNAERIGFCWAADRWECAVAVAA
>NZ_CP041021.1|WP_140043582.1|12232_13195_+|tyrosine-type-recombinase/integrase
MNQLAPLPSPALALPALIAAADDAARLRFLEFFAVNIRNVHTRRAYARAAGDFLAWAAERGVLSLAGVQPLHVAAWVEALGRELAAPSVKQQLAGVRHLFDWLVTGHVVPVNPAASVRGPAHSQRRGKTPVLAPDEARALLDRIDVTTHAGLRDRALIGLMVYSFARIGAALAMRVEDVFMQNRRLWVRLHEKGGKRHEMPCHHNLEEYLIAYIDGCELREDRKGALFRTIARGTKRLSDTPLPQANAFAMVRRRAAAAEIGTAIGNHSFRATGITTYLKNGGTLETAATMANHSSTRTTQLYDRRPDDVTLDEVERVLI
>NZ_CP041021.1|WP_020817760.1|26062_26329_-|hypothetical-protein
MAIARKPNSKPKPPVTDDAADAFIAGAAKPTAPAITEAAEDGPRKSPVMLRFDRALLAKVDAAAKRRGISRSAWIQFTVSRALDAGEG
>NZ_CP041021.1|WP_015063478.1|26354_26990_-|AAA-family-ATPase
MILAVGNTKGGVGKTTLAVNLAVARALAGRDLLLVDGDEQGTALTFTELRAERLGEAGYTAVALTGAALRSQVRQLAPKYDDIIIDVGGRDTGSLRAALTVADTLLVPVQPRSFDVWALDQVAALVAEAREINEGLRAVAVLNGADPQGGDNEAALQMIGDIEGIEVLPTSIVRRKAFPNAAAEGRAVVEQSPRDAKAIDELAALVSAVFV

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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
NZ_CP041021_1	1.1\|5424\|43\|NZ_CP041021\|CRISPRCasFinder	5424-5466	43	NZ_CP041020	Sphingobium fuliginis ATCC 27551 plasmid pSF3, complete sequence	43053-43095	0	1.0
NZ_CP041021_1	1.1\|5424\|43\|NZ_CP041021\|CRISPRCasFinder	5424-5466	43	NZ_CP041021	Sphingobium fuliginis ATCC 27551 plasmid pSF4, complete sequence	5424-5466	0	1.0
NZ_CP041021_1	1.1\|5424\|43\|NZ_CP041021\|CRISPRCasFinder	5424-5466	43	NZ_CP041021	Sphingobium fuliginis ATCC 27551 plasmid pSF4, complete sequence	24899-24941	0	1.0
NZ_CP041021_1	1.1\|5424\|43\|NZ_CP041021\|CRISPRCasFinder	5424-5466	43	NZ_CP015989	Sphingobium sp. EP60837 plasmid pEP2, complete sequence	169570-169612	0	1.0
NZ_CP041021_1	1.1\|5424\|43\|NZ_CP041021\|CRISPRCasFinder	5424-5466	43	NC_019376	Sphingobium fuliginis ATCC 27551 plasmid pPDL2, complete sequence	34846-34888	0	1.0
NZ_CP041021_2	2.1\|24899\|43\|NZ_CP041021\|CRISPRCasFinder	24899-24941	43	NZ_CP041020	Sphingobium fuliginis ATCC 27551 plasmid pSF3, complete sequence	43053-43095	0	1.0
NZ_CP041021_2	2.1\|24899\|43\|NZ_CP041021\|CRISPRCasFinder	24899-24941	43	NZ_CP041021	Sphingobium fuliginis ATCC 27551 plasmid pSF4, complete sequence	5424-5466	0	1.0
NZ_CP041021_2	2.1\|24899\|43\|NZ_CP041021\|CRISPRCasFinder	24899-24941	43	NZ_CP041021	Sphingobium fuliginis ATCC 27551 plasmid pSF4, complete sequence	24899-24941	0	1.0
NZ_CP041021_2	2.1\|24899\|43\|NZ_CP041021\|CRISPRCasFinder	24899-24941	43	NZ_CP015989	Sphingobium sp. EP60837 plasmid pEP2, complete sequence	169570-169612	0	1.0
NZ_CP041021_2	2.1\|24899\|43\|NZ_CP041021\|CRISPRCasFinder	24899-24941	43	NC_019376	Sphingobium fuliginis ATCC 27551 plasmid pPDL2, complete sequence	34846-34888	0	1.0
NZ_CP041021_1	1.1\|5424\|43\|NZ_CP041021\|CRISPRCasFinder	5424-5466	43	NZ_AP017658	Sphingobium cloacae strain JCM 10874 plasmid pSCLO_4, complete sequence	34772-34814	2	0.953
NZ_CP041021_1	1.1\|5424\|43\|NZ_CP041021\|CRISPRCasFinder	5424-5466	43	NZ_CP047220	Sphingobium yanoikuyae strain YC-JY1 plasmid unnamed3, complete sequence	56937-56979	2	0.953
NZ_CP041021_2	2.1\|24899\|43\|NZ_CP041021\|CRISPRCasFinder	24899-24941	43	NZ_AP017658	Sphingobium cloacae strain JCM 10874 plasmid pSCLO_4, complete sequence	34772-34814	2	0.953
NZ_CP041021_2	2.1\|24899\|43\|NZ_CP041021\|CRISPRCasFinder	24899-24941	43	NZ_CP047220	Sphingobium yanoikuyae strain YC-JY1 plasmid unnamed3, complete sequence	56937-56979	2	0.953

1. spacer 1.1|5424|43|NZ_CP041021|CRISPRCasFinder matches to NZ_CP041020 (Sphingobium fuliginis ATCC 27551 plasmid pSF3, complete sequence) position: , mismatch: 0, identity: 1.0

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttcgggtagccttcggtgagctttggggtcggta	Protospacer
*******************************************

2. spacer 1.1|5424|43|NZ_CP041021|CRISPRCasFinder matches to NZ_CP041021 (Sphingobium fuliginis ATCC 27551 plasmid pSF4, complete sequence) position: , mismatch: 0, identity: 1.0

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttcgggtagccttcggtgagctttggggtcggta	Protospacer
*******************************************

3. spacer 1.1|5424|43|NZ_CP041021|CRISPRCasFinder matches to NZ_CP041021 (Sphingobium fuliginis ATCC 27551 plasmid pSF4, complete sequence) position: , mismatch: 0, identity: 1.0

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttcgggtagccttcggtgagctttggggtcggta	Protospacer
*******************************************

4. spacer 1.1|5424|43|NZ_CP041021|CRISPRCasFinder matches to NZ_CP015989 (Sphingobium sp. EP60837 plasmid pEP2, complete sequence) position: , mismatch: 0, identity: 1.0

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttcgggtagccttcggtgagctttggggtcggta	Protospacer
*******************************************

5. spacer 1.1|5424|43|NZ_CP041021|CRISPRCasFinder matches to NC_019376 (Sphingobium fuliginis ATCC 27551 plasmid pPDL2, complete sequence) position: , mismatch: 0, identity: 1.0

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttcgggtagccttcggtgagctttggggtcggta	Protospacer
*******************************************

6. spacer 2.1|24899|43|NZ_CP041021|CRISPRCasFinder matches to NZ_CP041020 (Sphingobium fuliginis ATCC 27551 plasmid pSF3, complete sequence) position: , mismatch: 0, identity: 1.0

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttcgggtagccttcggtgagctttggggtcggta	Protospacer
*******************************************

7. spacer 2.1|24899|43|NZ_CP041021|CRISPRCasFinder matches to NZ_CP041021 (Sphingobium fuliginis ATCC 27551 plasmid pSF4, complete sequence) position: , mismatch: 0, identity: 1.0

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttcgggtagccttcggtgagctttggggtcggta	Protospacer
*******************************************

8. spacer 2.1|24899|43|NZ_CP041021|CRISPRCasFinder matches to NZ_CP041021 (Sphingobium fuliginis ATCC 27551 plasmid pSF4, complete sequence) position: , mismatch: 0, identity: 1.0

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttcgggtagccttcggtgagctttggggtcggta	Protospacer
*******************************************

9. spacer 2.1|24899|43|NZ_CP041021|CRISPRCasFinder matches to NZ_CP015989 (Sphingobium sp. EP60837 plasmid pEP2, complete sequence) position: , mismatch: 0, identity: 1.0

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttcgggtagccttcggtgagctttggggtcggta	Protospacer
*******************************************

10. spacer 2.1|24899|43|NZ_CP041021|CRISPRCasFinder matches to NC_019376 (Sphingobium fuliginis ATCC 27551 plasmid pPDL2, complete sequence) position: , mismatch: 0, identity: 1.0

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttcgggtagccttcggtgagctttggggtcggta	Protospacer
*******************************************

11. spacer 1.1|5424|43|NZ_CP041021|CRISPRCasFinder matches to NZ_AP017658 (Sphingobium cloacae strain JCM 10874 plasmid pSCLO_4, complete sequence) position: , mismatch: 2, identity: 0.953

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttggggtagccttcggtgagttttggggtcggta	Protospacer
*********** *****************.*************

12. spacer 1.1|5424|43|NZ_CP041021|CRISPRCasFinder matches to NZ_CP047220 (Sphingobium yanoikuyae strain YC-JY1 plasmid unnamed3, complete sequence) position: , mismatch: 2, identity: 0.953

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttagggtagccttcggtgagttttggggtcggta	Protospacer
*********** *****************.*************

13. spacer 2.1|24899|43|NZ_CP041021|CRISPRCasFinder matches to NZ_AP017658 (Sphingobium cloacae strain JCM 10874 plasmid pSCLO_4, complete sequence) position: , mismatch: 2, identity: 0.953

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttggggtagccttcggtgagttttggggtcggta	Protospacer
*********** *****************.*************

14. spacer 2.1|24899|43|NZ_CP041021|CRISPRCasFinder matches to NZ_CP047220 (Sphingobium yanoikuyae strain YC-JY1 plasmid unnamed3, complete sequence) position: , mismatch: 2, identity: 0.953

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttagggtagccttcggtgagttttggggtcggta	Protospacer
*********** *****************.*************

Prophage detection

Region	Region Position	Protein_number	Hit_taxonomy	Key_proteins	Att_site	Prophage annotation

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_CP041018

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

68279 : 74917

uncultured_Caudovirales_phage(66.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_020820499.1\|68279_69020_-	arsenical resistance protein ArsH	A0A2H4J5V6	uncultured_Caudovirales_phage	7.4e-75	71.6
WP_007688071.1\|69019_69451_-	GNAT family N-acetyltransferase	A0A2H4J155	uncultured_Caudovirales_phage	1.8e-20	44.7
WP_007688072.1\|69447_70515_-	ACR3 family arsenite efflux transporter	NA	NA	NA	NA
WP_007688073.1\|70511_70952_-	arsenate reductase (glutaredoxin)	A0A2H4J8T1	uncultured_Caudovirales_phage	7.0e-49	69.3
WP_140043509.1\|70948_71485_-	arsenate reductase ArsC	A0A2H4J8A6	uncultured_Caudovirales_phage	2.6e-21	36.9
WP_037444718.1\|71497_71917_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_007688077.1\|71888_72812_-	DUF1738 domain-containing protein	K4JTS1	Caulobacter_virus	8.1e-47	40.2
WP_007688079.1\|72904_74917_-	ParB N-terminal domain-containing protein	G8DH78	Emiliania_huxleyi_virus	4.5e-34	27.5

DBSCAN-SWA_2

87782 : 122822

Salmonella_phage(40.0%)

integrase,transposase

attL 78610:78624|attR 92095:92109

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
78610:78624	attL	NA	NA	NA	NA
WP_140043555.1\|87782_88943_+\|integrase	tyrosine-type recombinase/integrase	NA	NA	NA	NA
WP_025552283.1\|89058_89445_-\|transposase	IS5 family transposase	NA	NA	NA	NA
WP_011627729.1\|90638_93596_-\|transposase	Tn3 family transposase	A0A1B0V7H9	Salmonella_phage	1.5e-235	44.6
92095:92109	attR	NA	NA	NA	NA
WP_013039114.1\|93735_94329_+	recombinase family protein	A0A1S6L009	Salmonella_phage	2.2e-45	56.6
WP_140043511.1\|94380_94491_+	hypothetical protein	NA	NA	NA	NA
WP_140043512.1\|94732_95329_+	hypothetical protein	NA	NA	NA	NA
WP_140043513.1\|95321_95531_+	hypothetical protein	NA	NA	NA	NA
WP_140043514.1\|95619_95889_-	metal-sensing transcriptional repressor	NA	NA	NA	NA
WP_140043515.1\|98961_99447_-	hypothetical protein	NA	NA	NA	NA
WP_140043556.1\|100281_100623_-	hypothetical protein	NA	NA	NA	NA
WP_140043516.1\|100880_101360_-	SRPBCC domain-containing protein	NA	NA	NA	NA
WP_140043557.1\|101404_101671_-	hypothetical protein	NA	NA	NA	NA
WP_140043517.1\|102882_104280_-	TolC family outer membrane protein	NA	NA	NA	NA
WP_140043518.1\|104276_106763_-	heavy metal translocating P-type ATPase	E4ZFI9	Streptococcus_phage	1.9e-122	41.4
WP_140043519.1\|106968_107439_-	hypothetical protein	NA	NA	NA	NA
WP_140043520.1\|107571_107916_-	DUF190 domain-containing protein	NA	NA	NA	NA
WP_140043521.1\|107927_111173_-	CusA/CzcA family heavy metal efflux RND transporter	NA	NA	NA	NA
WP_140043522.1\|111176_112337_-	efflux RND transporter periplasmic adaptor subunit	NA	NA	NA	NA
WP_140043523.1\|112333_112567_-	hypothetical protein	NA	NA	NA	NA
WP_140043524.1\|112563_113871_-	TolC family protein	NA	NA	NA	NA
WP_140043525.1\|114403_115066_-	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_167706870.1\|115771_116383_+	hypothetical protein	NA	NA	NA	NA
WP_167706866.1\|116496_116895_+	hypothetical protein	NA	NA	NA	NA
WP_140043528.1\|117055_117598_-	MAPEG family protein	NA	NA	NA	NA
WP_140043558.1\|117614_118865_-	sodium:proton exchanger	NA	NA	NA	NA
WP_161489738.1\|118948_119341_+\|transposase	transposase	NA	NA	NA	NA
WP_048939664.1\|119394_119694_+	IS66 family insertion sequence element accessory protein TnpB	A0A0P0ZDM8	Stx2-converting_phage	3.8e-22	54.7
WP_081215341.1\|119749_121357_+\|transposase	IS66 family transposase	A0A0P0ZEB3	Stx2-converting_phage	4.5e-101	39.9
WP_037472584.1\|121377_121947_+	plasmid pRiA4b ORF-3 family protein	NA	NA	NA	NA
WP_167706872.1\|122137_122287_-	hypothetical protein	NA	NA	NA	NA
WP_140042936.1\|122441_122822_+\|transposase	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

4. NZ_CP041020

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Crispr_ID: NZ_CP041020_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP041020_1

43030-43118

Orphan

Consensus_repeat	Method
AAAGTGAGTGTTGGGGTCGAGTC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NZ_CP041020_1

>merge|NZ_CP041020|1|43030-43118|CRISPRCasFinder
AAAGTGAGTGTTGGGGTCGAGTCGCGTGAGTTTTCGGGTAGCCTTCGGTGAGCTTTGGGGTCGGTAAAGGTGAGTGTTGGGGTCGAGTC

>NZ_CP041020|1|1|43030-43118|CRISPRCasFinder
AAAGTGAGTGTTGGGGTCGAGTC	GCGTGAGTTTTCGGGTAGCCTTCGGTGAGCTTTGGGGTCGGTA
AAGGTGAGTGTTGGGGTCGAGTC

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP041020.1\|WP_015063481.1\|41240_42344_+\|IS110-family-transposase	unknown	unknown	gnl\|CDD\|226077
NZ_CP041020.1\|WP_015063459.1\|37847_38249_+\|SnoaL-like-domain-containing-protein	unknown	unknown	gnl\|CDD\|379275
NZ_CP041020.1\|WP_140043580.1\|35507_36779_-\|MFS-transporter	unknown	unknown	gnl\|CDD\|273327
NZ_CP041020.1\|WP_140043577.1\|31918_33442_-\|IS21-like-element-ISFlsp1-family-transposase	unknown	unknown	gnl\|CDD\|226950
NZ_CP041020.1\|WP_049881452.1\|37129_37855_+\|alpha/beta-fold-hydrolase	unknown	unknown	gnl\|CDD\|131480
NZ_CP041020.1\|WP_031668810.1\|33596_34331_-\|alpha/beta-hydrolase	unknown	unknown	gnl\|CDD\|178549
NZ_CP041020.1\|WP_015063456.1\|39627_40578_+\|LysR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|274127
NZ_CP041020.1\|WP_015063458.1\|38315_39197_+\|gallate-dioxygenase	unknown	unknown	gnl\|CDD\|153387
NZ_CP041020.1\|WP_015063457.1\|39200_39569_+\|protocatechuate-4,5-dioxygenase-alpha-chain	unknown	unknown	gnl\|CDD\|184014
NZ_CP041020.1\|WP_031668809.1\|34438_35446_-\|MBL-fold-metallo-hydrolase	unknown	unknown	gnl\|CDD\|293805

Protein	Function_ID	Function_description	E-value
NZ_CP041020.1\|WP_015063481.1\|41240_42344_+\|IS110-family-transposase	gnl\|CDD\|226077	COG3547, COG3547, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	4.76488e-23
NZ_CP041020.1\|WP_015063459.1\|37847_38249_+\|SnoaL-like-domain-containing-protein	gnl\|CDD\|379275	pfam13577, SnoaL_4, SnoaL-like domain. This family contains a large number of proteins that share the SnoaL fold.	9.45526e-14
NZ_CP041020.1\|WP_140043580.1\|35507_36779_-\|MFS-transporter	gnl\|CDD\|273327	TIGR00895, transport_protein, benzoate transport. [Transport and binding proteins, Carbohydrates, organic alcohols, and acids].	1.27336e-80
NZ_CP041020.1\|WP_140043577.1\|31918_33442_-\|IS21-like-element-ISFlsp1-family-transposase	gnl\|CDD\|226950	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	6.87393e-33
NZ_CP041020.1\|WP_049881452.1\|37129_37855_+\|alpha/beta-fold-hydrolase	gnl\|CDD\|131480	TIGR02427, b-ketoadipate_enol-lactone_hydrolase, 3-oxoadipate enol-lactonase. Members of this family are 3-oxoadipate enol-lactonase. Note that the substrate is known as 3-oxoadipate enol-lactone, 2-oxo-2,3-dihydrofuran-5-acetate, 4,5-Dihydro-5-oxofuran-2-acetate, and 5-oxo-4,5-dihydrofuran-2-acetate. The enzyme the catalyzes the fourth step in the protocatechuate degradation to beta-ketoadipate and then to succinyl-CoA and acetyl-CoA. 4-hydroxybenzoate, 3-hydroxybenzoate, and vanillate all can be converted in one step to protocatechuate. This enzyme also acts in catechol degradation. In genomes that catabolize both catechol and protocatechuate, two forms of this enzyme may be found. All members of the seed alignment for this model were chosen from within protocatechuate degradation operons of at least three genes of the pathway, from genomes with the complete pathway through beta-ketoadipate. [Energy metabolism, Other].	2.36899e-23
NZ_CP041020.1\|WP_031668810.1\|33596_34331_-\|alpha/beta-hydrolase	gnl\|CDD\|178549	PLN02965, PLN02965, Probable pheophorbidase.	1.95026e-12
NZ_CP041020.1\|WP_015063456.1\|39627_40578_+\|LysR-family-transcriptional-regulator	gnl\|CDD\|274127	TIGR02424, TF_pcaQ, pca operon transcription factor PcaQ. Members of this family are LysR-family transcription factors associated with operons for catabolism of protocatechuate. Members occur only in Proteobacteria. [Energy metabolism, Other, Regulatory functions, DNA interactions].	4.83768e-41
NZ_CP041020.1\|WP_015063458.1\|38315_39197_+\|gallate-dioxygenase	gnl\|CDD\|153387	cd07950, Gallate_Doxase_N, The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate. Gallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of gallate, an intermediate in the degradation of the aromatic compound, syringate. The reaction product of gallate dioxygenase is 4-oxalomesaconate. The amino acid sequence of the N-terminal and C-terminal regions of gallate dioxygenase exhibits homology with the sequence of PCA 4,5-dioxygenase B (catalytic) and A subunits, respectively. The enzyme is estimated to be a homodimer according to the Escherichia coli enzyme. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. In this subfamily, the subunits A and B are fused to make a single polypeptide chain. The dimer interface for this subfamily may resemble the tetramer interface of classical LigAB enzymes. Gallate Dioxygenase belongs to the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon.	2.53076e-180
NZ_CP041020.1\|WP_015063457.1\|39200_39569_+\|protocatechuate-4,5-dioxygenase-alpha-chain	gnl\|CDD\|184014	PRK13379, PRK13379, protocatechuate 4,5-dioxygenase subunit alpha; Provisional.	1.96441e-58
NZ_CP041020.1\|WP_031668809.1\|34438_35446_-\|MBL-fold-metallo-hydrolase	gnl\|CDD\|293805	cd07719, arylsulfatase_AtsA-like_MBL-fold, Pseudoalteromonas carrageenovora arylsulfatase AtsA and related proteins; MBL-fold metallo-hydrolase domain. Arylsulfatase (also known as aryl-sulfate sulfohydrolase, EC 3.1.6.1). Pseudoalteromonas carrageenovora arylsulfatase AtsA may function as a glycosulfohydrolase involved with desulfation of sulfated polysaccharides, which catalyzes hydrolysis of the arylsulfate ester bond, producing the aryl compounds and inorganic sulfate. CD also includes some sequences annotated as ribonucleases. Members of this subgroup belong to the MBL-fold metallo-hydrolase superfamily.	1.9846e-76

>NZ_CP041020.1|WP_015063481.1|41240_42344_+|IS110-family-transposase
MSISKFVGLDVHKETIAVALADDGRTGEIRFYGTIPNTQDSIRRLVARLSSPDVALHFCYEAGGCGYGIHRQLVDLGAECSVIAPSVMPRKPADRIKTDRRDAMTLARLLRSGELTAIWVPDEAHEAIRDLIRGRRQAKHDLVAGRQMLLSFLLRHGRKFAGRSNWTKAHWRWLGEQAFDAPHQQFVFGESIRRIEEAQQRCDRLDAMLVEALPYWSLAPLVQALQALRGVGLIVAATLVAEIGDLGRFDTPKQLMGWLGLVPSEASSGARTRRGAITKTGNREARAMLVEAAWSYRLPAREERRYRARVEGLPDEVKAIAWKAQVRLCQRYRMLAASGKPLPKVITAIARELVGFVWDIGRRMQPA
>NZ_CP041020.1|WP_015063456.1|39627_40578_+|LysR-family-transcriptional-regulator
MARYLEQRLKIRHLRVIEALDQHKSLLRASKALGVSQPGLSRTLQEVEDIVGCELFERHPRGVQPNAVGRLLARGAQRLLGGMRQIEADLGELFEEHKRTIRVGALPVAAHGLLPTVISDATDRGSHLGVEVIEGLTTQLLPALHSGEIDVVVGRLYEPDAPDGLIRRALYSEPVGLIARSDHPLFELDGVTAEDVRRFHVVSPAVSTRVEHDVRTALSAMQVDLDVSIRSTSVGFMRELLLTGNFISAMPKVLVAGDLERGLLRLIPIPLPAPPRRAGIIYREGLSDAGKLLVAAIGREVERLAASGIIDAFNED
>NZ_CP041020.1|WP_015063457.1|39200_39569_+|protocatechuate-4,5-dioxygenase-alpha-chain
MFTQNPQTVGIEELTGTYVFDLRTCNRTLAFNRFFWNMIRPKYRQAFLDDEEAAMTVASLSDEEKALVRARDWLGIVQYGVNFFVLEKWARVVRRTNLEVYAIMRGETLEEFMQTRAVPHAT
>NZ_CP041020.1|WP_015063458.1|38315_39197_+|gallate-dioxygenase
MARIIGGIGTSHVPTIGVAYDKGRQADPVWAPLFDGYKPVAEWLAEKKPDVLLFFYNDHASTMFFDLYPTFALGIGDRFPIADEGAGLRDLPQIRGNVDFQAHIGESLVNDEFDLAFFQNKPIDHGIASPLPLMWPHEPDWPGVVVPIAVNVLQYPLPTGRRCYRLGQAVRRAIESYPEDLSVVVVGTGGLSHQIHGERAGYNDTDWDMEFLEQLCDTPEKLLHLRHADYVRLGGAESVEQIMWLAMRGALPDRLTEIHRNYYLMTTTAMTVVVYEEAGERAQPSAASTSVEA
>NZ_CP041020.1|WP_015063459.1|37847_38249_+|SnoaL-like-domain-containing-protein
MNDAARFGIEHACERLIKRFAQLNDAHDHDALAEMFVSEGSFARPTDPTNPVTGREDIRAFFRDRPKRITRHVMTNIVVEVLDENAACARSYVVLYSGEKGAQVLLGDFDDTFRRDDDGAWKFQSRAGSLAFG
>NZ_CP041020.1|WP_049881452.1|37129_37855_+|alpha/beta-fold-hydrolase
MAETLVLIPGLLCDAIIWKHQVAALGERYDILIPDLTRFASIEAMAASVLNKTSAQLSVAGHSMGARVAMEMARMAPERVERLALLDTGIHPMRAGEPEKRAHLVELGQREGMRAAADAWLPPMVAPGALDADPSLRSDLYAMVERMNPAIHQAQITALLTRPDARQVLPLLRCPVLVGVGELDAWSPPAQHLDIVDVVPQATYVVFAGSGHMAPLEAPEAVSQALSEWMLTPLSKEHAHE
>NZ_CP041020.1|WP_140043580.1|35507_36779_-|MFS-transporter
MHSRQILAVALAAALNALDGFDVLSISFAAPGIAREWGIDRAALGAVLSMELIGMGVGAFVLGAMADRIGRRPTILNCLVIMAFGMFAASMAPNVTTLSIFRLFTGLGIGGMLAATNAIVAECSNARRRNLSVAVMAGGYPVGAIVGGLIASELLELTERWESVFEFGAVATACFIPLVLWLVPETIAFLLHKRPKGALEKINRTMTRQGRAPLLELPPQDEAPERVGVAAFFSPGIAAVTVLLVVAYAMHMMTFYFLMKWIPKIVADLGFPAASAGGVLVWANVGGASGSLVLSLLTQKVGVRLLVIGSMFLGAVAIAAFGQGFTTLASLSLLAAIGGFFTNGATAGLYAVIAQSFPAALRAGGTGLVIGIGRAGAAMGPIVAGLLFASGASLSLVAVLMAGGTLIGGIALSFVRYRESEVA
>NZ_CP041020.1|WP_031668809.1|34438_35446_-|MBL-fold-metallo-hydrolase
MRETVASLLLLLGSAETGAPAFAQASAPAPAPAANTQLASADMVVTLLGTGTPTLSPARFGYSTLVQVGGLNLVFDAGRGSSIRLAQLGVKLGSIDATFITHYHSDHVNGLGDLWSTSLLPSPQNGRTAPFELYGPVGIKQVAAGMQAMFEPDLVIRRHDNEVTAAAEKLNVHEFTRDGVVFEKNGVRVTAFTVDHGAAIKPAVGYKVQYKGRTVVLSGDTKYDLEVVRQATGADLLVHEASIVAASHVNDAWAKPSIAHHTSAEEAGDVFRQAHPKLAVFSHISRPGPQDETNTDAALKRRALSHWPNGNVVVGTDLMRIAIGSAVSVIPSPAQ
>NZ_CP041020.1|WP_031668810.1|33596_34331_-|alpha/beta-hydrolase
MAVTPARKRSFVLIHGAWHGGWCWRDVAALLRAQGHTVYTPSLTGLADRSHLLSNSITLQTHIDDIVNLFAWEDIEDAVLVAHSYGGWPVSAALAKIGNKVASVVFVDAFVPENGQRVIDLNSPQFQQALKDAIAKGEAGRPAPKAEVFGIKDTARAVWVQAKMTPQPSGVAIQPIVLSGARDRVARKTYVRATGFAMPTFDSYFAKAQKDPSWTAIGLAAEECGHDVMIDIPQQLSEILLSAA
>NZ_CP041020.1|WP_140043577.1|31918_33442_-|IS21-like-element-ISFlsp1-family-transposase
MKSVEIYAKVRRAVLVEGMTRREAARYFGVHRNTITKMLQYAEPPGYRRAVPRVSEKLAPFETLIDEILRSDKGAPPKQRHTCKRIYERLRTEHGYTGGLTILSDYVRSQRLRSREVFIPLSHRPGHAQVDFGEADAIIAGKRVRLHYFCMDLPQSDGCFVKAYPAEVAEAFCDGHVSAFAFFGGVPTRILYDNTRLAVARILGDGRRERSRMFAGLQSHYLFDDRFGRPGKGNDKGKVEGLVGYVRRNFMVPIPAAASIEELNARFADQCRRRGAAVLRGQSQSITARMEADSAAFMPLPEVAFDPCHIVSGCASSMALVRYRTNDYSVPTAFAHQQVVIKGYVDRVDIVCRGTCIASHVRSYEREDFIANPLHYLALLEHKPGALDQAAPLDGWHLSEPVHRLRRLMEARSGKEGRRAFIQVLRLCEHYEQSLVEWAVARALELGAISFDAVKMILLARLEHRPARLDMSLYPYLPRANVGVTDTRAYLGLIPDAHRVTMKGASA

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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
NZ_CP041020_1	1.1\|43053\|43\|NZ_CP041020\|CRISPRCasFinder	43053-43095	43	NZ_CP041020	Sphingobium fuliginis ATCC 27551 plasmid pSF3, complete sequence	43053-43095	0	1.0
NZ_CP041020_1	1.1\|43053\|43\|NZ_CP041020\|CRISPRCasFinder	43053-43095	43	NZ_CP041021	Sphingobium fuliginis ATCC 27551 plasmid pSF4, complete sequence	5424-5466	0	1.0
NZ_CP041020_1	1.1\|43053\|43\|NZ_CP041020\|CRISPRCasFinder	43053-43095	43	NZ_CP041021	Sphingobium fuliginis ATCC 27551 plasmid pSF4, complete sequence	24899-24941	0	1.0
NZ_CP041020_1	1.1\|43053\|43\|NZ_CP041020\|CRISPRCasFinder	43053-43095	43	NZ_CP015989	Sphingobium sp. EP60837 plasmid pEP2, complete sequence	169570-169612	0	1.0
NZ_CP041020_1	1.1\|43053\|43\|NZ_CP041020\|CRISPRCasFinder	43053-43095	43	NC_019376	Sphingobium fuliginis ATCC 27551 plasmid pPDL2, complete sequence	34846-34888	0	1.0
NZ_CP041020_1	1.1\|43053\|43\|NZ_CP041020\|CRISPRCasFinder	43053-43095	43	NZ_AP017658	Sphingobium cloacae strain JCM 10874 plasmid pSCLO_4, complete sequence	34772-34814	2	0.953
NZ_CP041020_1	1.1\|43053\|43\|NZ_CP041020\|CRISPRCasFinder	43053-43095	43	NZ_CP047220	Sphingobium yanoikuyae strain YC-JY1 plasmid unnamed3, complete sequence	56937-56979	2	0.953

1. spacer 1.1|43053|43|NZ_CP041020|CRISPRCasFinder matches to NZ_CP041020 (Sphingobium fuliginis ATCC 27551 plasmid pSF3, complete sequence) position: , mismatch: 0, identity: 1.0

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttcgggtagccttcggtgagctttggggtcggta	Protospacer
*******************************************

2. spacer 1.1|43053|43|NZ_CP041020|CRISPRCasFinder matches to NZ_CP041021 (Sphingobium fuliginis ATCC 27551 plasmid pSF4, complete sequence) position: , mismatch: 0, identity: 1.0

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttcgggtagccttcggtgagctttggggtcggta	Protospacer
*******************************************

3. spacer 1.1|43053|43|NZ_CP041020|CRISPRCasFinder matches to NZ_CP041021 (Sphingobium fuliginis ATCC 27551 plasmid pSF4, complete sequence) position: , mismatch: 0, identity: 1.0

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttcgggtagccttcggtgagctttggggtcggta	Protospacer
*******************************************

4. spacer 1.1|43053|43|NZ_CP041020|CRISPRCasFinder matches to NZ_CP015989 (Sphingobium sp. EP60837 plasmid pEP2, complete sequence) position: , mismatch: 0, identity: 1.0

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttcgggtagccttcggtgagctttggggtcggta	Protospacer
*******************************************

5. spacer 1.1|43053|43|NZ_CP041020|CRISPRCasFinder matches to NC_019376 (Sphingobium fuliginis ATCC 27551 plasmid pPDL2, complete sequence) position: , mismatch: 0, identity: 1.0

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttcgggtagccttcggtgagctttggggtcggta	Protospacer
*******************************************

6. spacer 1.1|43053|43|NZ_CP041020|CRISPRCasFinder matches to NZ_AP017658 (Sphingobium cloacae strain JCM 10874 plasmid pSCLO_4, complete sequence) position: , mismatch: 2, identity: 0.953

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttggggtagccttcggtgagttttggggtcggta	Protospacer
*********** *****************.*************

7. spacer 1.1|43053|43|NZ_CP041020|CRISPRCasFinder matches to NZ_CP047220 (Sphingobium yanoikuyae strain YC-JY1 plasmid unnamed3, complete sequence) position: , mismatch: 2, identity: 0.953

gcgtgagttttcgggtagccttcggtgagctttggggtcggta	CRISPR spacer
gcgtgagttttagggtagccttcggtgagttttggggtcggta	Protospacer
*********** *****************.*************

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

12866 : 27189

Salmonella_phage(50.0%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_004213364.1\|12866_13502_+	AAA family ATPase	A0A2H4EW66	Aeromonas_phage	6.9e-13	32.2
WP_004213365.1\|13501_13786_+	hypothetical protein	NA	NA	NA	NA
WP_004213366.1\|13814_14918_-	replication initiator protein A	A0A0K1Y6J9	Rhodobacter_phage	2.8e-62	40.5
WP_011627729.1\|16133_19091_-\|transposase	Tn3 family transposase	A0A1B0V7H9	Salmonella_phage	1.5e-235	44.6
WP_013039114.1\|19230_19824_+	recombinase family protein	A0A1S6L009	Salmonella_phage	2.2e-45	56.6
WP_007015735.1\|20683_21253_-	recombinase family protein	I1ZBD6	Salisaeta_icosahedral_phage	7.0e-33	45.5
WP_011627729.1\|22069_25027_-\|transposase	Tn3 family transposase	A0A1B0V7H9	Salmonella_phage	1.5e-235	44.6
WP_013039114.1\|25166_25760_+	recombinase family protein	A0A1S6L009	Salmonella_phage	2.2e-45	56.6
WP_007015735.1\|26619_27189_-	recombinase family protein	I1ZBD6	Salisaeta_icosahedral_phage	7.0e-33	45.5

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NZ_CP041016

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CRISPR-Cas detection and classification

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Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. NZ_CP041021

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CRISPR-Cas detection and classification

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Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

3. NZ_CP041018

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CRISPR-Cas detection and classification

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

4. NZ_CP041020

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CRISPR-Cas detection and classification

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Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection