CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
NZ_CP042175	Bradyrhizobium sp. KBS0725 chromosome, complete genome	2 crisprs	csa3,cas3,PD-DExK,WYL	1	3	3	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NZ_CP042175_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP042175_1

595628-595711

Orphan

Consensus_repeat	Method
AAGTGGGTACCGGTTTTCGGAAAAGA	CRISPRCasFinder

1 spacers

The CRISPR arrays of NZ_CP042175_1

>merge|NZ_CP042175|1|595628-595711|CRISPRCasFinder
AAGTGGGTACCGGTTTTCGGAAAAGATCATGCCCAGCTTCAGAAGGCATGATCCCGAGAAGTGGGTACCGGTTTTCGGACAAGA

>NZ_CP042175|1|1|595628-595711|CRISPRCasFinder
AAGTGGGTACCGGTTTTCGGAAAAGA	TCATGCCCAGCTTCAGAAGGCATGATCCCGAG
AAGTGGGTACCGGTTTTCGGACAAGA

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP042175.1\|WP_138832702.1\|593837_595565_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042175.1\|WP_138832710.1\|598494_598899_+\|PIN-domain-containing-protein	unknown	unknown	gnl\|CDD\|350259
NZ_CP042175.1\|WP_138832696.1\|589275_590337_-\|ATP-binding-cassette-domain-containing-protein	unknown	unknown	gnl\|CDD\|226361
NZ_CP042175.1\|WP_138832698.1\|590491_591676_-\|aminotransferase-class-V-fold-PLP-dependent-enzyme	unknown	unknown	gnl\|CDD\|223153
NZ_CP042175.1\|WP_138832694.1\|588181_589249_-\|extracellular-solute-binding-protein	unknown	unknown	gnl\|CDD\|270265
NZ_CP042175.1\|WP_138832718.1\|605120_607172_-\|AsmA-family-protein	unknown	unknown	gnl\|CDD\|236772
NZ_CP042175.1\|WP_138832700.1\|592846_593572_-\|thermonuclease-family-protein	unknown	unknown	gnl\|CDD\|224442
NZ_CP042175.1\|WP_138832712.1\|598960_599389_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042175.1\|WP_138832708.1\|598264_598498_+\|AbrB/MazE/SpoVT-family-DNA-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|225215
NZ_CP042175.1\|WP_138832689.1\|583668_585105_+\|MBOAT-family-protein	unknown	unknown	gnl\|CDD\|224610
NZ_CP042175.1\|WP_138832714.1\|599375_600137_-\|N-6-DNA-methylase	unknown	unknown	gnl\|CDD\|223363
NZ_CP042175.1\|WP_138831594.1\|600745_601705_-\|IS110-family-transposase	unknown	unknown	gnl\|CDD\|376564
NZ_CP042175.1\|WP_138832691.1\|585104_586211_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042175.1\|WP_138832706.1\|597179_598082_-\|HlyD-family-efflux-transporter-periplasmic-adaptor-subunit	unknown	unknown	gnl\|CDD\|273776
NZ_CP042175.1\|WP_138832693.1\|586318_588040_-\|ABC-transporter-permease-subunit	unknown	unknown	gnl\|CDD\|224099
NZ_CP042175.1\|WP_138836041.1\|591874_592624_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379450
NZ_CP042175.1\|WP_138832687.1\|581188_583306_-\|prolyl-oligopeptidase-family-serine-peptidase	unknown	unknown	gnl\|CDD\|224684
NZ_CP042175.1\|WP_138832720.1\|607393_608068_+\|cyclic-nucleotide-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|223736
NZ_CP042175.1\|WP_138832716.1\|602485_604939_-\|HAMP-domain-containing-protein	unknown	unknown	gnl\|CDD\|143636
NZ_CP042175.1\|WP_138832704.1\|596029_596869_+\|caspase-family-protein	unknown	unknown	gnl\|CDD\|334197

Protein	Function_ID	Function_description	E-value
NZ_CP042175.1\|WP_138832710.1\|598494_598899_+\|PIN-domain-containing-protein	gnl\|CDD\|350259	cd18692, PIN_VapC-like, uncharacterized subfamily of the VapC-like nuclease family of the PIN domain superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. Other members of the VapC-like nuclease family include FitB toxin of the FitAB TA system, eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. The PIN domain belongs to a large nuclease superfamily. The structural properties of the PIN (PilT N terminus) domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions, in some members, additional metal coordinating residues can be found. Some members of the superfamily lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons.	7.18704e-52
NZ_CP042175.1\|WP_138832696.1\|589275_590337_-\|ATP-binding-cassette-domain-containing-protein	gnl\|CDD\|226361	COG3842, PotA, ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism].	7.59907e-143
NZ_CP042175.1\|WP_138832708.1\|598264_598498_+\|AbrB/MazE/SpoVT-family-DNA-binding-domain-containing-protein	gnl\|CDD\|225215	COG2336, MazE, Growth regulator [Signal transduction mechanisms].	2.05971e-13
NZ_CP042175.1\|WP_138832694.1\|588181_589249_-\|extracellular-solute-binding-protein	gnl\|CDD\|270265	cd13547, PBP2_Fbp_like_2, Substrate binding domain of an uncharacterized ferric iron transporter, a member of the type 2 periplasmic binding fold superfamily. The periplasmic iron binding protein plays an essential role in the iron uptake pathway of Gram-negative pathogenic bacteria from the Pasteurellaceae and Neisseriaceae families and is critical for survival of these pathogens within the host. This periplasmic domain (Fbp) has high affinity for ferric iron and serves as the primary receptor for transport. After binding iron with high affinity, Fbp interacts with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. The ferric iron-binding proteins belong to the PBP2 superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.	1.64324e-60
NZ_CP042175.1\|WP_138832718.1\|605120_607172_-\|AsmA-family-protein	gnl\|CDD\|236772	PRK10833, PRK10833, putative assembly protein; Provisional.	3.63249e-13
NZ_CP042175.1\|WP_138832706.1\|597179_598082_-\|HlyD-family-efflux-transporter-periplasmic-adaptor-subunit	gnl\|CDD\|273776	TIGR01730, COG0845:_Membrane-fusion_protein, RND family efflux transporter, MFP subunit. This model represents the MFP (membrane fusion protein) component of the RND family of transporters. RND refers to Resistance, Nodulation, and cell Division. It is, in part, a subfamily of pfam00529 (Pfam release 7.5) but hits substantial numbers of proteins missed by that model. The related HlyD secretion protein, for which pfam00529 is named, is outside the scope of this model. Attributed functions imply outward transport. These functions include nodulation, acriflavin resistance, heavy metal efflux, and multidrug resistance proteins. Most members of this family are found in Gram-negative bacteria. The proposed function of MFP proteins is to bring the inner and outer membranes together and enable transport to the outside of the outer membrane. Note, however, that a few members of this family are found in Gram-positive bacteria, where there is no outer membrane. [Transport and binding proteins, Unknown substrate].	1.68189e-14
NZ_CP042175.1\|WP_138832689.1\|583668_585105_+\|MBOAT-family-protein	gnl\|CDD\|224610	COG1696, DltB, Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane].	4.37672e-86
NZ_CP042175.1\|WP_138832714.1\|599375_600137_-\|N-6-DNA-methylase	gnl\|CDD\|223363	COG0286, HsdM, Type I restriction-modification system methyltransferase subunit [Defense mechanisms].	2.92682e-34
NZ_CP042175.1\|WP_138831594.1\|600745_601705_-\|IS110-family-transposase	gnl\|CDD\|376564	pfam01548, DEDD_Tnp_IS110, Transposase. Transposase proteins are necessary for efficient DNA transposition. This family includes an amino-terminal region of the pilin gene inverting protein (PIVML) and of members of the IS111A/IS1328/IS1533 family of transposases. The C-terminus is represented by family pfam02371.	5.52826e-22
NZ_CP042175.1\|WP_138832700.1\|592846_593572_-\|thermonuclease-family-protein	gnl\|CDD\|224442	COG1525, COG1525, Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair].	2.9111e-21
NZ_CP042175.1\|WP_138836041.1\|591874_592624_-\|hypothetical-protein	gnl\|CDD\|379450	pfam14067, LssY_C, LssY C-terminus. This domain is found at the C-terminus of Legionella LssY proteins, which may be a part of the type I secretion system. This domain is functionally uncharacterized. This domain is found in bacteria, and is typically between 182 and 195 amino acids in length. It is often found in association with pfam09335 and PF01569. There are two completely conserved residues (P and W) that may be functionally important.	3.33195e-84
NZ_CP042175.1\|WP_138832693.1\|586318_588040_-\|ABC-transporter-permease-subunit	gnl\|CDD\|224099	COG1178, ThiP, ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism].	5.33486e-84
NZ_CP042175.1\|WP_138832704.1\|596029_596869_+\|caspase-family-protein	gnl\|CDD\|334197	pfam00656, Peptidase_C14, Caspase domain.	1.45191e-34
NZ_CP042175.1\|WP_138832687.1\|581188_583306_-\|prolyl-oligopeptidase-family-serine-peptidase	gnl\|CDD\|224684	COG1770, PtrB, Protease II [Amino acid transport and metabolism].	0
NZ_CP042175.1\|WP_138832720.1\|607393_608068_+\|cyclic-nucleotide-binding-domain-containing-protein	gnl\|CDD\|223736	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms].	8.47947e-42
NZ_CP042175.1\|WP_138832716.1\|602485_604939_-\|HAMP-domain-containing-protein	gnl\|CDD\|143636	cd07302, CHD, cyclase homology domain. Catalytic domains of the mononucleotidyl cyclases (MNC's), also called cyclase homology domains (CHDs), are part of the class III nucleotidyl cyclases. This class includes eukaryotic and prokaryotic adenylate cyclases (AC's) and guanylate cyclases (GC's). They seem to share a common catalytic mechanism in their requirement for two magnesium ions to bind the polyphosphate moiety of the nucleotide.	4.81999e-49
NZ_CP042175.1\|WP_138832698.1\|590491_591676_-\|aminotransferase-class-V-fold-PLP-dependent-enzyme	gnl\|CDD\|223153	COG0075, COG0075, Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism].	1.62694e-104

>NZ_CP042175.1|WP_138832702.1|593837_595565_-|hypothetical-protein
MGFQYFAGAAFRALTARKDGPSLYDVCDPVLLNYRGGDPHLGKFYKTALGNPALRPLLRRTGLPALNDEARLQRLRAALTHARDAAEPDWAAVGAPIAELMADIDVCHPEPAKVTATARAPGMAEIERVIRRCGAHLLGSFSKNGFIPTYAAFNLLGDPDVGGREMLMALTGLNARGYKNSTLLFNLARIFIAHSPARALINPPWRGIAEPMWEPMQIRHRSAYYDAFFTEALLSFVETGLASGEETAASQRAIAEMVEFCLKTSAEEVPSHDGSTVKVITALAPGSGPRFSRFFAQIKQDLGFGIYVPDCDTTACSFSAATQAGSTDPILDQPLLDFYRGYQVREGANEPRVTVPLNDHVDYEGGVVTWIDNLAGDRPYGNDLDPTLNLDILEVSFRNLARWNILETPQRLETVHRIIGFQRKLAENSAFANPRTHIYYLPELYSAYFGRCHAAFMALPLAARQAIDPGGSFDFIKGKVLAYVEGELITREMNAFDAALALMALAHLGADVATFTPALACIVASFGEGGRHGPYKAYEWNKMKTPTRILVGGPEVTSAFVLMGLALARRKMASG
>NZ_CP042175.1|WP_138832700.1|592846_593572_-|thermonuclease-family-protein
MTSKFLLAAILSLLPVLAQAADISGVPKIREGDHIQIGNSRIRLGGIDAPAVDQLCLNNSGERWTCGVAARDELIKHVGNKSWTCHPRNTDRRGHTVARCEVEGEDIQKWLVGNGWALSYTRISHDYDADEKAAREAKAGMWQGAFIAPWDWRARNKKTTILGAAKPPENASTILLASASGPVAPSPDCTIKGNVNTSGECIYHTPTSRWYARIQMKISKGTRWFCSVDEAEAAGCRETKR
>NZ_CP042175.1|WP_138836041.1|591874_592624_-|hypothetical-protein
MVYTALAYLLLPLFWTHYEHQKGLANLPMVTRTGQGIPGDPMNVGLVGDIGDVVCAMHAAGWYPADPITLKSSIEIVGSVLLDRPYRDAPVSHLYYLGRREDLAFEKPIGQNADRRNHVRYWKVLAEGEEKRPVWLGAATEDRGVGVSKYTVAVTHHISADLDAERALLAADLENAGMVDAKYQVTGIGPTFAGHNGGGDLYYTDGEIWVLRLVEACKKRDGPAVTIPSPPATEMKDQIWHAIADAVSK
>NZ_CP042175.1|WP_138832698.1|590491_591676_-|aminotransferase-class-V-fold-PLP-dependent-enzyme
MTVRAGREFLAIPGPTTMPDEVLQAMHRPALDIYSNEMVELTHGLLADLSKLFKTKGHSYIYIANGHGAWEATLSNVLSRGDKLLVLESGRFAIGWGMAAKAMGADVEVLKGDWRRAIRPAEVEARLKQDKDHSIKAIVAVQVDTASGAYNDVEAIGKAIKASGHPALFMVDTVASLGCMPFEMDAWGIDVAMSGSQKGLMTPPGLGFVAANDRAREVHKKANLRTPYWDWTERDGSEHYRKYSGTAPVHLLFALRKAIDMLHSEGLENAFLRHSLLAEAVRRAVSVWAEGQVLGFNIAEANERSNTVTTVTMNGHDPAALQRYCKEKCGVVLGTGIGDLSGQAFRIAHMGHVNAPMILGTLGVIEVALNALDVPHGKGGTEAAIEYLGESVSA
>NZ_CP042175.1|WP_138832696.1|589275_590337_-|ATP-binding-cassette-domain-containing-protein
MASVDLRGLTKRFGALAVVDDVSLRIDHGQLVCLLGPSGCGKTTTLRLMAGFLEPSDGEIHVGDRLVSSKARTLPPEQRKMSMIFQSYALWPHMTVTENIVYGLRLRKMDRDTIAKKLAAILATTKLEPLAQRYPGELSGGQQQRVALARALIVEPETLLLDEPLSNLDANLREEMRFEIRRLHDEYRYTTVYVTHDQSEAMTTADLIAVMNGGKIDQLGSPEDIYARPESEFVARFIGASNVIKGTARDGNHVSFAGATLQVIGAPLTAGQSAAVAIRQHDIGLSTQAPASPDNTIKAVVTRQVFLGAARDYMVEVADGTALRVTTPTETNVGKGSEVWLTLPPDRCRALSR
>NZ_CP042175.1|WP_138832694.1|588181_589249_-|extracellular-solute-binding-protein
MKGRKLSRRDILQGAAALAAGSIFASPARAEAPAPVAITPELVDAAKKEGKVILYSSMDLPVGEKLGKAFEAAYPGISVQIERSGSERLFQRLDQEFASNIHAADVVNTSDASHIISWKKNNWLAPFVSDDMARHFLPEYRDPDGMSATSRIYLSSIAYNTKLVKPEDAPKSYADLLDPKWAGKMVKGHPAYSGTIMTATFQLVRELGWDYLDKLSKQRVMQVQSSTDPPKKLALGERAVMADGNEYGVVLLKEAGQPVEPIYPTEGTPTISGPTAIFASAPHPNAARLFQAWLHTRETQQFFTDYTAQYSAHAQVVPHPGRRKLSDIKLMKEDAAGVEKMAEEIKTRYARLFRV
>NZ_CP042175.1|WP_138832693.1|586318_588040_-|ABC-transporter-permease-subunit
MTAAATTAAPKTRIDWTKPVLSLVALCMVVLIALPMSWLAIYAFTDKARHPTLQNFVTLFTNPDFLDPLLTTAIIATTSALICCLVAAPIGWLVSRTDMPGRQTIRALVTASFVTPPFLGAVAWELLAAPNSGLLNQFYRYLTGTESDSVLFNIYSLTGIIFVISCYTFPFVFVLVANALDNMPGELEDASAILGGKAWTTARRVTIPLALPALVAGALIAFLQAMTLFGSPAILALPAGFHTMTTKIWSLFQYPPKLELAAAAAVPLLVLTILLLQGQKFLLGRRGYSVVGGKYGAPRQVELKAWRWVALAFCLVVLLNPVFLPYLALLNAAFSPNATTLVTPSTATWHNVVFVFTELSSTQLALKNTVILGASTATIGTILALVIAYVTTRRVITGHRILGFLATAPVAVPGIVLGVGLFLSYTRPPFVLYGTLWILLIAFLTINLPSAYQQLQAAFATIHPELEDASRILGATRLQSLRQITAPLLRTGVIATWCFIFIGVMRELSAAIVLFTSQTKVLSVLIYDLNESGDLAAISVLGIAMLVITFAVVMAVNRIPVFGGNATARLRNS
>NZ_CP042175.1|WP_138832691.1|585104_586211_+|hypothetical-protein
MSPISKILLKFLCASAFIMLMAAALNFVVDPLQLFRQARPFPAMYSADTRMQDAGLIRSQPFDTAFMGTSLAIHFRQRDIDRILGGRSLKLSMTGSNSREQSFVLDAAMARHPKRVVWQLDDWIFRDTPEIDSDIFLPSGLYRRSAAGLAGYLFSGQMARESLWILARSLPPLEPAIARLTSDLVFKFPIADVDDINALPPDYDVAAGYNARKAFAAFRHITDPVRSRYLADGYEYEAMVRAFERDAISLIARNPDVAFDIYFPPYSVLQFVAMRDAAPSALKTVYDFTAYAFPRLLQFPNVRLSDFRAVKEVTHDLENYGDVIHHSPAVDLKVLQWLAQGKYQVDRSAPLASLERLKVQVDAYRLER
>NZ_CP042175.1|WP_138832689.1|583668_585105_+|MBOAT-family-protein
MLFNSYSFIFLFLPVGLAGYFALGRGGNLAPVLWLALASLAFYAFGNWQYVPLLLASIAFNYGIGYLLVERKLRPKVRFAVLTAGVAGDLLVLGVFKYAGFLVANFNAVFSTGFVVHILLPVGISFYTFTQIAFLVDAYRGQVARYAVPHYALFVTYFPHLIAGPILHHRDMIPQFERTEAKRPDPHLILCGLIIFAIGLFKKTCLADGIQPLVGPVFGPGSPTFDQAWIGALAYTFQLYFDFSGYSDMAIGISLMFGIFLPLNFNSPYKATSIIDFWRCWHMTLSQFLRDYLYIPLGGNRRGPVWRYVNLVITMLLGGLWHGAAWTFVVWGALHGAYLCINHAWNRFGPDVAPRLRPAATFAGAMLTFLSVVVAWVFFRADDIDSAIYVLVRMADPTRLALGRVEIVNLAFIACYAALAWFAPNTQTIMGYDHARRTVGDSLAQARLRPWFLYATAAVLAFGILGIQQHSEFIYFRF
>NZ_CP042175.1|WP_138832687.1|581188_583306_-|prolyl-oligopeptidase-family-serine-peptidase
MTQAAAKKPSLSAPTAPRRPHTFTTHGIAVTDDYAWLKDEKWQEVLRDPSILDGDIRTYLEAENDYTESLLGHTTPLQKNLVAEMRGRIKEDDSSVPSPDGPFAYFRKFREGGQHEIFARTPRDGGDATTVLDGDALAAAHDYFKFGGSRHSPDHQLHAWSADTKGSEYFSIRVRDWADGTDRNDLVEETDGGVVWSKDSKSFFYIKLDDNHRPMQVWRHRLGTKQADDALVYEEADSGWFTHLHESSSGRFCVIAGGDHETSEQRLIDLDHPEMPPRLVAAREEGVQYSIADRGDELFILTNADGAIDFKVVTAPLASPERANWRDLIPHREGIYVLDVELYANHMVRLERANALPAIIIRDLTTGEEHAIAFDEAAYSLDTMGGYEFETTNLRFSYSSMTTPSEVYDYDMAKRTRVLRKRQEIPSGHNPADYVTTRIMATAKDGAQVPVSILHRKDLVRDGSAPLLLYGYGSYGMAMPASFAANRLSLVDRGFVYAIAHVRGGADKGWSWYLDGKREKKTNTFDDFAASARALIKAQYTNAKRIVGHGGSAGGMLMGAVANRSGELFAGIVAEVPFVDVLNTMLDDTLPLTPPEWPEWGNPIESEKDFRTILSYSPYDNVAAKDYPAILAMGGLTDPRVTYWEPAKWIARLRATMTGGGPVLLRTNMGAGHGGASGRFNRLDEVAIVYAFALWAVGLAEKSEV
>NZ_CP042175.1|WP_138832704.1|596029_596869_+|caspase-family-protein
MNLTQARISRRPVTIAAALVGLVSLAIGAHAALNKRSLEAAKAVGTEQTGSIGKDASRVALVIGNGHYPDAAAPLAQPINDARGLTAALRAQGVDVDVVEDATKDDMVRAIERMKSRISKDTVVMLFFGGYGIQVGRESFMIPVDATIWKESDVRRTGVSIEQALDAMTEKGAKAKLVVVDASRRNPYERRFRSFSHGLAPISPPENALVLSAATPGTVTDDGKGQYSVLVTELLNNLNAQTGAETAFNKTRVAISRASEGEQVPSVSSSLLEDVRIGG
>NZ_CP042175.1|WP_138832706.1|597179_598082_-|HlyD-family-efflux-transporter-periplasmic-adaptor-subunit
MPYFSAFASSRIFFVSAVAGLLSLTASPTLAADDPEVVPKGAAVTVLKAAKSCFANIVEVSGTIIPREETQVRPERMGLKVSEVLADAGDSVTAGQVLARLTLPEGGTATVQTPVAGLISASTAAVGAVASGKGEALFSVIARSEFDLVGLVPTRDISKLAVNQPARIKVIGVGEVDGKVRRLSTTVQPDSQLGQAFIGITTNRRLLVNSSGRALITTGQSCGLSVPLTAILYGSAGTVVQVVRRARVETRRVETGLMSGGQVEIREGSQLVEGDVVVARAGALLREGDPVRAVTAADVK
>NZ_CP042175.1|WP_138832708.1|598264_598498_+|AbrB/MazE/SpoVT-family-DNA-binding-domain-containing-protein
MQVSKWGNSLAVRLPKALVEQLGLKEGDELNVVAASSDTLAVETKEARRLRALANIRARNWTLPADYKFDRDEANER
>NZ_CP042175.1|WP_138832710.1|598494_598899_+|PIN-domain-containing-protein
MSAFLDTNILVYAQQTGRKAEVSQNLIAEGGTISAQVLNELVNVLRKKLGQSFGEIAAVLDDIDNALDPARPLTAQNCRSALALAGEHGLSFYDALIVASAIEAGCHTLYSEDMQHGRTIGALTIRNPFNEGVR
>NZ_CP042175.1|WP_138832712.1|598960_599389_-|hypothetical-protein
MTRRNRKDSTPGEHKQLNAILDQAVERYKSLYEANQEEFKVKLVSFRNLYSFLSQIIPYQDSDLEKFYTYARFLLLKLPRRESGLGYEMEDEGLFIDRMEGNEEIFDRIMQDASFRDVASAHLMREIYERLRAGAKAEENPK
>NZ_CP042175.1|WP_138832714.1|599375_600137_-|N-6-DNA-methylase
MLAEGHQRLADKIWSVANKLRGPYRPPQYRKVMLPLIVLRRLDCVLEPTKDQVLKQVDKLKAKKLSPEAIEKALAKVASKDRKQPLFNTSKYTFGKLLGESSGIARNLTNYIKGFSPNVRKIFERFEFEAEIEKLDANNMLFEIIKEFSTLDLHPNTVPNLEMGYVFEYLIRKFNEQANEEAGDHFTPREVIQLMAHVLYTGDEDIHVPGISRTIYDPACGTGGMLSVSEEYIREQNPQAHLTLFGQDYNDEA
>NZ_CP042175.1|WP_138831594.1|600745_601705_-|IS110-family-transposase
MAQNDLVVVGIDVAKDKVDACIRRFTLRQTFPNTAQGHRKLVAWLRRYQVGKAVMEASGGYELEWRNVLHKAGIEVRIVDPRRVRSFAQSAGRLAKNDPIDAEMIAWFAETFSQAPGQTPDAAREELAALAKARTALVDVKIRLQAQDEHAAPEPARKAYARVLKNLAAEMDKLEAAISAKVKATPEFAERAEIIESVPGLAHVTSAILIAGMPELGQVSDEVAAALIGVAPYDDDSGKRRGERYIKGGRRWVRNAFYMPCLGAATQCNPVLKAFYQRLLAKGKEPKVALVACMRKLIIILNTMLARRQKWNPGRHATG
>NZ_CP042175.1|WP_138832716.1|602485_604939_-|HAMP-domain-containing-protein
MSGVKDKIWFLREGLFAKYVIALVGLVVFVLAVNGAMEIWISYRGIKTTLNDGMSEKAEATARHIEQSMADLERQISWATRAYSNTIELRRADYAQLLRQVPQVSQLSLLDPRGHEQLRLSRRTVNVGSNLDFSRDVSFTEAFARGTGYSPPYFRGEHPYMSIALSHSDSNVTVAEIDLDFLTEFLGDAQVGKVAFAYIVDGMGQVLASSSKGPEVGKILSALPQVAALIKPGGAALSTGTDGAGHDVLTTSSPVPKLGWHVFYEQPTAQALTPIRDQLARIALLIALGLVVAIIAGTIMARRMLVPITALRAGARRLGAGEFGHRIEVKTSDELEELANQFNSMAGQLAETYSDLEWKVTERTRDLAQSINELKVLEEVGRAVASSLDLNAVLPTVAARALEITHADAVLIYGYDAANRQFNLTEAIGIDSADEGGHRAIDEAGSPLGDAAANSEPISIPNLDATSEHPLRDMAVDAGFHSVLVVPLVDQQGILGSLVVLRRNAGEFSPNLIGLMKTFAHQAVLAMRNARLFTEVDHKSRELLTANDTVRRQADKLQQQTDQLKDWNKSLEQRVETQLGEIERIRRLERFLAPQVAQLIASSDGHEGLLDSHRREVTVVFCDLRGFTAFTEQTEPEEAMNVLREYHAALGELIFRYEGTLDRYAGDGVMILFNAPIQFEDHTARAVRMSVEMRDTIGLLTEKWRNRGHNLGFGIGIALGYATLGQIGFEQRLEYAAIGSVTNLASRLCDEAKANQIVVSRRVYGMVEPWVEGRAIDDLNLKGFNHPVLAAEILSWREEVDNVVDAAAAAARRKKQS
>NZ_CP042175.1|WP_138832718.1|605120_607172_-|AsmA-family-protein
MRALKFAGAAIAAVIVVIALLLLVGVPSSFLTAQITARVERETGYRLTVNGGAGIGLWPSLNVTLNDVTLQDPKERDNDNRITAGSIQADMTLASVWAGKPAITELVVVRPVVNVPLQRERLKDAAPAPMPRAAGAGNAVSIEHVSITGGTVVFSNLRDRVENRIETINADVTVDADRRIRISGNARSGDSPLKFEIKAAPSAPPLERQNIPTEIKLDAPGLLPAQLSAKAEVRLNGAVVMINGLSGVLGDDAFNGWASIDLASKPLVKLDLDFQRLALAKSPDRADSAAQPWSNATIDLTGLNYVDVQARISAAELTIGDGHFAPAAIEATLASGVLKARVSNLGAYGGTANGDVTIDASTANPTFTLRTDLTGVRALPLLNGLADFDKLDGKLQTRISVRSSGTSQRAIMANMSGTTFAVFQDGAIKGLNLAQMIRSLTASTLSGWQESSEQATDLTQLSASFKIDKGQAQTTDLNLVGPLVKMTGVGTIDLGTKQIGFRVEPKLVMTTEGQGRTAEPVGLGIPVMIEGPWGAPRIYPEMQGMLDNPEAAYARLREMGKGLFGAGGAGLDSAGIGAALGGLLGGGQAGAPGTGQSGKANDPLGGQLGEAIGNLLQQGLSGLGQGGTGQGTTRPSQGRNIPSPNASTPAAPAETTAPPAPADTTAQQDSQPMNDVLRQLFNR
>NZ_CP042175.1|WP_138832720.1|607393_608068_+|cyclic-nucleotide-binding-domain-containing-protein
MSKQAEFAVILKMNPMFADLGADELQRISGLCHTQQLAVGEMLFQKGDAGDALYGVRRGQIRIETGASDGSRLTLNFMGPGDLFGEVAVLDGQSRTADAAAGEPSELFVLRREDFLAFLEREPKVAIKIIMLLCQRIRWQSERMEESVLQPLPVRLARRLCALSDDFGSEVHISQEQLGIFVGAARESVNRQLQLWRKDGILDLQRGRILLQNMTKLTAVARND

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Crispr_ID: NZ_CP042175_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP042175_2

4063687-4063992

Orphan

Consensus_repeat	Method
CAGCTTCGGGACCAGCTT	CRT

6 spacers

The CRISPR arrays of NZ_CP042175_2

>merge|NZ_CP042175|2|4063687-4063992|CRT
AAGCTTCGGGGCCAGCTTTGGGGCCAGCTTCGGGACCAGCTTTGGGACCAGCTTCGGGGCCAGCTTTGGGGCCAGCTTTGGGACCAGCTTTGGGGCCAGCTTCGGGACCAGCTTCGGGGCCAGCTTCGGGACCAGCTTCGGGGCCAGCTTCGGGGCCAGCTTTGGGGCCAGCTTCGGGACCAGCTTCGGGGCCAGCTTTGGGGCCAGCTTCGGGACCAGCTTCGGGACCAGCTTCGGGACCAGCTTTGGGGCCAGCTTCGGGACCAGCTTCGGGACCAGCTTCGGGACCAGCTTCGGGACCAGCTT

>NZ_CP042175|2|1|4063687-4063992|CRT
AAGCTTCGGGGCCAGCTT	TGGGGCCAGCTTCGGGACCAGCTTTGGGAC
CAGCTTCGGGGCCAGCTT	TGGGGCCAGCTTTGGGACCAGCTTTGGGGCCAGCTTCGGGACCAGCTTCGGGGC
CAGCTTCGGGACCAGCTT	CGGGGCCAGCTTCGGGGCCAGCTTTGGGGC
CAGCTTCGGGACCAGCTT	CGGGGCCAGCTTTGGGGC
CAGCTTCGGGACCAGCTT	CGGGACCAGCTTCGGGACCAGCTTTGGGGC
CAGCTTCGGGACCAGCTT	CGGGACCAGCTTCGGGAC
CAGCTTCGGGACCAGCTT

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP042175.1\|WP_138839129.1\|4059603_4059921_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|198306
NZ_CP042175.1\|WP_138839135.1\|4061334_4061832_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379302
NZ_CP042175.1\|WP_138829214.1\|4074667_4076242_-\|histidine-ammonia-lyase	unknown	unknown	gnl\|CDD\|236484
NZ_CP042175.1\|WP_138829212.1\|4069081_4070269_-\|6-phosphofructokinase	unknown	unknown	gnl\|CDD\|274155
NZ_CP042175.1\|WP_138839131.1\|4060139_4060319_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042175.1\|WP_138839125.1\|4059077_4059353_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042175.1\|WP_168212947.1\|4060419_4061331_+\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|119396
NZ_CP042175.1\|WP_138839140.1\|4062760_4063276_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042175.1\|WP_138839127.1\|4059349_4059607_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042175.1\|WP_138839136.1\|4061956_4062439_+\|phospholipase	unknown	unknown	unknown
NZ_CP042175.1\|WP_138835457.1\|4072399_4072978_-\|HutD-family-protein	unknown	unknown	gnl\|CDD\|377578
NZ_CP042175.1\|WP_138835451.1\|4066880_4067912_-\|MBL-fold-metallo-hydrolase	unknown	unknown	gnl\|CDD\|293805
NZ_CP042175.1\|WP_138829210.1\|4065295_4066663_-\|tyrosine-type-recombinase/integrase	unknown	unknown	gnl\|CDD\|271184
NZ_CP042175.1\|WP_138839138.1\|4062497_4062698_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042175.1\|WP_138829207.1\|4064660_4064921_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042175.1\|WP_138829211.1\|4068012_4068822_-\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|378964
NZ_CP042175.1\|WP_138829208.1\|4064920_4065151_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042175.1\|WP_138835452.1\|4070325_4071471_-\|fructose-1,6-bisphosphatase	unknown	unknown	gnl\|CDD\|376679
NZ_CP042175.1\|WP_168212948.1\|4063286_4063430_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP042175.1\|WP_138829213.1\|4073003_4074671_-\|urocanate-hydratase	unknown	unknown	gnl\|CDD\|235448

Protein	Function_ID	Function_description	E-value
NZ_CP042175.1\|WP_138839129.1\|4059603_4059921_-\|hypothetical-protein	gnl\|CDD\|198306	cd03197, GST_C_mPGES2, C-terminal, alpha helical domain of microsomal Prostaglandin E synthase Type 2. Glutathione S-transferase (GST) C-terminal domain family, microsomal Prostaglandin E synthase Type 2 (mPGES2) subfamily; mPGES2 is a membrane-anchored dimeric protein containing a CXXC motif which catalyzes the isomerization of PGH2 to PGE2. Unlike cytosolic PGE synthase (cPGES) and microsomal PGES Type 1 (mPGES1), mPGES2 does not require glutathione (GSH) for its activity, although its catalytic rate is increased two- to four-fold in the presence of DTT, GSH, or other thiol compounds. PGE2 is widely distributed in various tissues and is implicated in the sleep/wake cycle, relaxation/contraction of smooth muscle, excretion of sodium ions, maintenance of body temperature, and mediation of inflammation. mPGES2 contains an N-terminal hydrophobic domain which is membrane associated and a C-terminal soluble domain with a GST-like structure. The C-terminal GST-like domain contains two structural domains, an N-terminal thioredoxin-fold domain and a C-terminal alpha helical domain. The GST active site is located in a cleft between the two structural domains.	0.00460346
NZ_CP042175.1\|WP_138835457.1\|4072399_4072978_-\|HutD-family-protein	gnl\|CDD\|377578	pfam05962, HutD, HutD. HutD from Pseudomonas fluorescens SBW25 is a component of the histidine uptake and utilisation operon. HutD is operonic with the well characterized repressor protein HutC. Genetic analysis using transcriptional fusions (lacZ) and deletion mutants shows that hutD is necessary to maintain fitness in environments replete with histidine. Evidence outlined by Zhang & Rainey (2007) suggests that HutD functions as a governor that sets an upper bound on the level of hut operon transcription. The mechanistic basis is unknown, but in silico molecular docking studies based on the crystal structure of PA5104 (HutD from Pseudomonas aeruginosa) show that urocanate (the first breakdown product of histidine) docks with the active site of HutD.	2.08024e-59
NZ_CP042175.1\|WP_138835451.1\|4066880_4067912_-\|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.	3.99934e-75
NZ_CP042175.1\|WP_138839135.1\|4061334_4061832_-\|hypothetical-protein	gnl\|CDD\|379302	pfam13629, T2SS-T3SS_pil_N, Pilus formation protein N terminal region.	3.1101e-05
NZ_CP042175.1\|WP_138829210.1\|4065295_4066663_-\|tyrosine-type-recombinase/integrase	gnl\|CDD\|271184	cd01184, INT_C_like_1, Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain. Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain containing 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.	3.25493e-25
NZ_CP042175.1\|WP_138829214.1\|4074667_4076242_-\|histidine-ammonia-lyase	gnl\|CDD\|236484	PRK09367, PRK09367, histidine ammonia-lyase; Provisional.	0
NZ_CP042175.1\|WP_138835452.1\|4070325_4071471_-\|fructose-1,6-bisphosphatase	gnl\|CDD\|376679	pfam01950, FBPase_3, Fructose-1,6-bisphosphatase. This is a family of bacterial and archaeal fructose-1,6-bisphosphatases (FBPases). FBPase catalyzes the hydrolysis of D-fructose-1,6-bisphosphate (FBP) to D-fructose-6-phosphate (F6P) and orthophosphate and is an essential regulatory enzyme in the glyconeogenic pathway.	0
NZ_CP042175.1\|WP_138829211.1\|4068012_4068822_-\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|378964	pfam12833, HTH_18, Helix-turn-helix domain.	5.57211e-17
NZ_CP042175.1\|WP_168212947.1\|4060419_4061331_+\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|119396	cd06462, Peptidase_S24_S26, The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The S26 type I signal peptidase (SPase) family also includes mitochondrial inner membrane protease (IMP)-like members. SPases are essential membrane-bound proteases which function to cleave away the amino-terminal signal peptide from the translocated pre-protein, thus playing a crucial role in the transport of proteins across membranes in all living organisms. All members in this superfamily are unique serine proteases that carry out catalysis using a serine/lysine dyad instead of the prototypical serine/histidine/aspartic acid triad found in most serine proteases.	1.66618e-08
NZ_CP042175.1\|WP_138829212.1\|4069081_4070269_-\|6-phosphofructokinase	gnl\|CDD\|274155	TIGR02483, ATP-dependent_6-phosphofructokinase_1, phosphofructokinase. Members of this family that are characterized, save one, are phosphofructokinases dependent on pyrophosphate (EC 2.7.1.90) rather than ATP (EC 2.7.1.11). The exception is one of three phosphofructokinases from Streptomyces coelicolor. Family members are both bacterial and archaeal. [Energy metabolism, Glycolysis/gluconeogenesis].	4.17052e-85
NZ_CP042175.1\|WP_138829213.1\|4073003_4074671_-\|urocanate-hydratase	gnl\|CDD\|235448	PRK05414, PRK05414, urocanate hydratase; Provisional.	0

>NZ_CP042175.1|WP_168212948.1|4063286_4063430_+|hypothetical-protein
MDAAALAASCLIGLVWFDQWWAVGEAAGAWLGTAICNLIFGGDHEED
>NZ_CP042175.1|WP_138839140.1|4062760_4063276_+|hypothetical-protein
MNIRDYDPSKGQAFQGDVSIIPIPVDITIATSQEISPVKGRLILQEGEVSGHHHAIDLHQRHFQAQPRETGDPLLATKSPRLRKAFGGMTKKNVEQVTGTAHLYRDDVAVSEMVRRGILTRADLAVGCLVVSGAPMALTHEEHDGIRLPPGSYLIGRQVESAGAEERVVAD
>NZ_CP042175.1|WP_138839138.1|4062497_4062698_+|hypothetical-protein
MPLYSADYTMLRLLKFAAFERHGDRWRFGTRSIADSVVTRLVNAGRAERVGDRVQLIACQRPEGKT
>NZ_CP042175.1|WP_138839136.1|4061956_4062439_+|phospholipase
MAPRRAHLDLSPKEFRDALVDHGFAYLTPIGRYVDIRERQVGRYLDPVRDRSGRILRRQTLAALLAARDQAEAARAMIRQAHARRQAIAGKIAPHVVSPCRADLKGTAAIAQLADDFLTRFASAGHVQFLDLIQMGWRADQLKAHADDARAVADRKAVLA
>NZ_CP042175.1|WP_138839135.1|4061334_4061832_-|hypothetical-protein
MLISRILSCLAAACLVVLANAAMAQAMREVTLPIDGTIHLQMGETRFFRFENPIDRIDIPVQNLVEITPRSDSTIAFKAITEGVSTVELSRADGKGIQRLQVIVGPHQVKIYGLPGEADYVGFLCDPYGCGAGQGSNRNKPSSEAVTTRIPTGNGGFFERTRSFQ
>NZ_CP042175.1|WP_168212947.1|4060419_4061331_+|helix-turn-helix-domain-containing-protein
MMRGHNPTEMRPRRFISDPVDDPFNSSTRENALGPPKASKTSSTVLGESISGMARTYMIRVDRVNMTCVNTICDHVPMDTMGERLRYAREKAGFPSAMAAAKRFGWPTSTYAAHENGQNLIPVDTVKIYARTFKVSAGWLLAREGEVNRSNMVKVAGLVGAGGTIDTSVENLGHEGLDEIELPFSLPEEAIAYRINGDSMWPRYDDGDVIVVFTRPYAISEMLNVPEALVTTADGSRYLKRIVEGSRKDHYDLMSHNAPPMHNVRLQSVAGVHAVVRRGSWRALSNSKKAKQLQQQIKKAKPA
>NZ_CP042175.1|WP_138839131.1|4060139_4060319_+|hypothetical-protein
MAGISDHDEARRGERNQDATEIEDRISRVLREWRAEVLAAKAARWRSRLKGWWWWWRLS
>NZ_CP042175.1|WP_138839129.1|4059603_4059921_-|hypothetical-protein
MQTIKDLLPAQKAAWALHILTQAGLSTCQKMLSGHRPENLDLVLALLRSEHGLAVLRAIMAETPQPWFDELLDLADIAQLKRDQLRMKRDLDRREQRILEARGPR
>NZ_CP042175.1|WP_138839127.1|4059349_4059607_-|hypothetical-protein
MMNFLDHVCDAAPLYFLGGSICLLALLLAVLIAVIAWPFNSPVRLSDEAALPPRRPYPPRPVFGQRQMDEPGDFDPSRLPRRWQP
>NZ_CP042175.1|WP_138839125.1|4059077_4059353_-|hypothetical-protein
MTGAGTVDRRQSGALRGTGGTVPAVRAVRARLTGFDHAELAIVRLVIADSAPLLIMFEGEPFLHEGFAGDLLVYAKARPYRVDLGMVEVIR
>NZ_CP042175.1|WP_138829207.1|4064660_4064921_+|hypothetical-protein
MSKAPERLSNRQIATMKLMAVCGARGDPVRLTRDQREAMTPLWRRSLVEIWWRRSPTERALQGPFFRLTEPGRTLILSILAAKKAA
>NZ_CP042175.1|WP_138829208.1|4064920_4065151_+|hypothetical-protein
MNMRSPSAAVLHQPPRGAAERGRAHRLDLWRLRGQAARAAHQPRQVPPAPRSTDPELRDEIEAAWLAGYDGRNGGK
>NZ_CP042175.1|WP_138829210.1|4065295_4066663_-|tyrosine-type-recombinase/integrase
MTERLTKRNGVWHFVRRVPEPYAAVDPRGIVKLSTKIKVADDRAGVRAGRVAKQMDLDLQASWRALAAGTVQQASINVEQARALARALGLHYKPVEAVVQEGLADILARVDQLALGARRDDAATTAAVLGGVPLPEIMLSTLCDEFFAAKRTASAKKSPGQLKKWMNGKRNAAALLISVVGDKAIHALTRDNALKFAEHWEQRVLDDEVKAGTANRNLTHITGMLRAVSKRHQLRLEPVFAGTRLEGDKARSRPPFTAPFIVSVMLAPGALDAMNVEERAAVHVIINTGARPSEIVNLRRPHIILDSNIPFIRIRPDDRELKTDQSERDIPLVGIALEAMRAFPDGFPRYRDNGDSFSAAVNKFFAEHSMKPTELHTLYSLRHGFKDRLRDARAPDELTNELMGHATGKPKYGDGHGLEVKLHYLSEIALAPGMVLRPQLVRVPGLHVPGAASRG
>NZ_CP042175.1|WP_138835451.1|4066880_4067912_-|MBL-fold-metallo-hydrolase
MVVGEKTIRRLLLVAAAALLAAAAGSISGNAGAAENFPAPDEIIVTLLGTGSPVPSTTRFGPATLVQAGGLNLLFDAGRGVTVRLYQLGMSFGKGIDAVFLTHYHSDHVEGLPDLWMTGYMFGPFGSRAKPLRLWGPSDDTAGLNGVVKIAKGLTEAFSDDVRIRQADEHVTAAATGIEPHNFAQDGVVFEEGGVKVTAFAVNHGDLIKPSVGYRVDYASRSVTISGDTQPDENLIRHAAGTDLLIHEVFAISPQLAAVPALKPVADHHTSPEQAGTVFSQVKPKLAVYTHFVLIGTAGEEIVTRTRTTYQGPLASGEDLMRLTIGSSVSLKRWDPNLGAYPK
>NZ_CP042175.1|WP_138829211.1|4068012_4068822_-|helix-turn-helix-domain-containing-protein
MEIIRIKPHPALGGIVRSFEERRSNLGTTVLTWPLPARPHQIIDIYLAEPFKLRVDGGPMTQAPETVVVGPQSSRHTQLYLSGEIHVFNILFQPTGLNRLVGIDMTSLVNEGIAARDVFGNRASVLSDLVRSAPDFPARVAAAERYIGAMLDTLAPADAIEKASRSMLATCGRIRIEDLAARSGLSARQFQRRFTRQVGLSPKLYARTIRFDTALMMHRKTPAKPWTEIAHATGYFDQAHFVRECHALAGAVPSQFIGDWENILSPIHD
>NZ_CP042175.1|WP_138829212.1|4069081_4070269_-|6-phosphofructokinase
MARKRIGILTGGGDVPGLNAIIKTVTYRGSENDIEVVGFRRGWEALTHLNLDDPTSRSHYLIPLDRENTRTIDRRGGTVLHSSRTNPSKMQKLPDHLVGKDFPVSLSTKGGIAAKTWDLTSQVLANLSGLGIEHLIAIGGDDTLSYAARLNELGVKIIAIPKTMDNDVRNTEYCIGFSTAITRASDAIQRQRTTVGSHERIGIFRVFGRDAGFTALYTAYATSIRCVIPEYKVNLDKLVQLLIEEKRANPSNYALIVLSEGAEWEGYKLQEYGEPDAYGHRKKASVAEALADEIKRRAGEETITSDLTYDLRSGDPDFIDKLVALTFGNMAYDAILEGKTGLMSALVEGRYDLVPIPDARLGPRTLDVASAYNTERYRPIYANKLGLPIFLNRAS
>NZ_CP042175.1|WP_138835452.1|4070325_4071471_-|fructose-1,6-bisphosphatase
MRLTLSVIKADVGSVGGHTKPSSRMMATVEGEVAKAICNGLLIDGFICHTGDDIAIIMTHTRGEGSSEVHQLAWKTFLAATSVAKTSGLYGAGQDLLVDAPSGNIRGAGPAVAELSFDHSLSGSRPAESFMVFAADKCGPGAYNLPLYLAFADPMYCAGLMLPPMIKGFRFHVIDMDNTAGDSVIELDAPADGYHIAALLRDNERFGIDRIVSRTFDEVVVAVSAQRLHSIAGKYTGKDDPVAIVRNQGIFPAPEEIVSPFAKAHFVGGDARGSHVMPLMPVPLNTPVTGLYCLPIVSCAGFSIDKDGRFSESFTDFFDNPAWDEVRRRAQRKAIEMRSQGWSGAAMLPYSELEYGGFRDTVSALVKRFRLREERKPEAAE
>NZ_CP042175.1|WP_138835457.1|4072399_4072978_-|HutD-family-protein
MKLLRAHEHRRMPWKNGGGVTTEIAVAPPDASLASFDWRVSTAEVASDGAFSLFPGIDRTLLLLEGQGMRLQVGDRSPLTLVVGGEPAIFPGDSPASASLVDGPIRDLNVMTRRGHFSHSVSVVDFAGSTSLRAAADISLLLLRHGRISLHSPHGAAELEPGDAVIDEAARAGDPLRCEGAGVLYHVSILRA
>NZ_CP042175.1|WP_138829213.1|4073003_4074671_-|urocanate-hydratase
MNARLDNDRTIRAPRGSEISAKSWLTEAPLRMLMNNLDPDVAEKPSELVVYGGIGRAARDWNSFDRIVSALRKLDADQTLVVQSGKPVGIFRTHPDAPRVLIANSNLVPHWATLDHFNHLDKLGLMMFGQMTAGSWIYIGSQGIVQGTYETFVEVGRRHYGGSLAGKWILTAGLGGMGGAQPLAATMAGASMLAVECQPSRIEMRLRTGYLDRRAETLDQALAIMAEAAQTGKPISVGLLGNAADIFPELVRRGVRPDIVTDQTSAHDPINGYLPKGWTLAEWESRREADPKAVEAAAKTSMVGHVQAMLDFHARGIPTLDYGNNIRQMAQDMGLKNAFDFPGFVPAYIRPLFCRGIGPFRWAALSGDPEDIFRTDAKVKELIPDNKHLHNWLDMAKARIKFQGLPARICWVGLGDRDRLGLAFNEMVARGELKAPIVIGRDHLDSGSVASPNRETEAMRDGSDAVSDWPLLNALLNCASGATWVSLHHGGGVGIGYSQHAGMVIVADGTPEAARRIARVLWNDPATGVMRHADAGYETAIACAREHGLDLPGLT
>NZ_CP042175.1|WP_138829214.1|4074667_4076242_-|histidine-ammonia-lyase
MSGAATSIVVSPGRVGLDDLAQVLAGASVVLDPSFWPRVEAACVIVSKAARADTPAYGINTGFGKLASKRIAPDQTELLQRNLIVSHCCGVGRPTPEAIVRLMMALKIVSLGRGASGVRRQVIEQLQAMLARGVYPLVPQQGSVGASGDLAPLAHMTAVMIGEGQATIDGRLVPGREALAAAGLAPLTLGPKEGLALINGTQFSTAYAISGLLRAHGLLCAALVTGALSVDAAMASTAPFRSEIQQLRGHAGQIAAGAALTALLEGSDIRKSHLEGDERVQDPYCLRCQPQVAGAALDLLIQAARTLTIEANAVTDNPLVLVESGEIVSGGNFHAEPVAFAADQMALALSEIGAISERRIATLVDPALNFGLPPFLTPEPGVNSGFMIAEVTAAALYAENKQRAAACSIDSTPTSANQEDHVSMAAHAARRLSDMADNLANIVGIELLAAAQGIGLRAPHTTSPALAAVVAVLRELVPALGHDRYMADDLAKATALVEAGALPAAALSVLPTNPFPTLAEKGLS

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity
NZ_CP042175_2	2.6\|4063957\|18\|NZ_CP042175\|CRT	4063957-4063974	18	NZ_CP042175.1	4063981-4063998	0	1.0

1. spacer 2.6|4063957|18|NZ_CP042175|CRT matches to position: 4063981-4063998, mismatch: 0, identity: 1.0

cgggaccagcttcgggac	CRISPR spacer
cgggaccagcttcgggac	Protospacer
******************

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NZ_CP042175_2	2.3\|4063825\|30\|NZ_CP042175\|CRT	4063825-4063854	30	CP054927	Streptomyces fulvissimus strain NA06532 plasmid unnamed1, complete sequence	573921-573950	5	0.833
NZ_CP042175_2	2.3\|4063825\|30\|NZ_CP042175\|CRT	4063825-4063854	30	NZ_CP030828	Neorhizobium sp. NCHU2750 plasmid pNCHU2750a, complete sequence	401859-401888	7	0.767
NZ_CP042175_2	2.3\|4063825\|30\|NZ_CP042175\|CRT	4063825-4063854	30	NZ_CP021355	Rhodococcus sp. S2-17 plasmid pRB98, complete sequence	933083-933112	7	0.767
NZ_CP042175_2	2.3\|4063825\|30\|NZ_CP042175\|CRT	4063825-4063854	30	NZ_CP046573	Rhodococcus sp. WAY2 plasmid pRWAY01, complete sequence	936447-936476	7	0.767
NZ_CP042175_2	2.3\|4063825\|30\|NZ_CP042175\|CRT	4063825-4063854	30	NZ_CP054618	Azospirillum oryzae strain KACC 14407 plasmid unnamed4, complete sequence	275201-275230	7	0.767
NZ_CP042175_2	2.5\|4063909\|30\|NZ_CP042175\|CRT	4063909-4063938	30	MK279863	Arthrobacter phage Litotes, complete genome	5651-5680	8	0.733
NZ_CP042175_2	2.5\|4063909\|30\|NZ_CP042175\|CRT	4063909-4063938	30	NC_031908	Pseudoalteromonas phage PH1, complete genome	39422-39451	8	0.733
NZ_CP042175_1	1.1\|595654\|32\|NZ_CP042175\|CRISPRCasFinder	595654-595685	32	NZ_CP015595	Acinetobacter sp. NCu2D-2 plasmid unnamed, complete sequence	132081-132112	9	0.719
NZ_CP042175_2	2.3\|4063825\|30\|NZ_CP042175\|CRT	4063825-4063854	30	NZ_CP045549	Streptomyces sp. SYP-A7193 plasmid unnamed2, complete sequence	83845-83874	9	0.7
NZ_CP042175_2	2.3\|4063825\|30\|NZ_CP042175\|CRT	4063825-4063854	30	CP047139	Ralstonia solanacearum strain CFBP 8695 plasmid unnamed, complete sequence	1094659-1094688	9	0.7

1. spacer 2.3|4063825|30|NZ_CP042175|CRT matches to CP054927 (Streptomyces fulvissimus strain NA06532 plasmid unnamed1, complete sequence) position: , mismatch: 5, identity: 0.833

cggggccagcttcggggccagctttggggc	CRISPR spacer
cgacgacggcttcggggccggctttggggc	Protospacer
**. * *.***********.**********

2. spacer 2.3|4063825|30|NZ_CP042175|CRT matches to NZ_CP030828 (Neorhizobium sp. NCHU2750 plasmid pNCHU2750a, complete sequence) position: , mismatch: 7, identity: 0.767

cggggccagcttcggggccagctttggggc	CRISPR spacer
ctgcgccagcatgggggccagctttggcca	Protospacer
* * ****** * **************

3. spacer 2.3|4063825|30|NZ_CP042175|CRT matches to NZ_CP021355 (Rhodococcus sp. S2-17 plasmid pRB98, complete sequence) position: , mismatch: 7, identity: 0.767

cggggccagcttcggggccag-----ctttggggc	CRISPR spacer
cggggcgagcttcggcgccagctcatcttt-----	Protospacer
****** ******** *****     ****

4. spacer 2.3|4063825|30|NZ_CP042175|CRT matches to NZ_CP046573 (Rhodococcus sp. WAY2 plasmid pRWAY01, complete sequence) position: , mismatch: 7, identity: 0.767

cggggccagcttcggggccag-----ctttggggc	CRISPR spacer
cggggcgagcttcggcgccagctcatcttt-----	Protospacer
****** ******** *****     ****

5. spacer 2.3|4063825|30|NZ_CP042175|CRT matches to NZ_CP054618 (Azospirillum oryzae strain KACC 14407 plasmid unnamed4, complete sequence) position: , mismatch: 7, identity: 0.767

cggggccagctt---cggggccagctttggggc	CRISPR spacer
---aatcggcttctccggggccagctttggggc	Protospacer
   ...*.****   ******************

6. spacer 2.5|4063909|30|NZ_CP042175|CRT matches to MK279863 (Arthrobacter phage Litotes, complete genome) position: , mismatch: 8, identity: 0.733

cgggaccagcttcgggaccagctttggggc	CRISPR spacer
cgggtccagcttcgggaccaggaacgagtt	Protospacer
**** ****************   .*.* .

7. spacer 2.5|4063909|30|NZ_CP042175|CRT matches to NC_031908 (Pseudoalteromonas phage PH1, complete genome) position: , mismatch: 8, identity: 0.733

cgggaccagcttcgggaccagctttggggc	CRISPR spacer
gagcaccagcttcggcaccagctttaccac	Protospacer
 .* *********** *********.  .*

8. spacer 1.1|595654|32|NZ_CP042175|CRISPRCasFinder matches to NZ_CP015595 (Acinetobacter sp. NCu2D-2 plasmid unnamed, complete sequence) position: , mismatch: 9, identity: 0.719

tcatgcccagcttcagaaggcatgatcccgag	CRISPR spacer
ttgcttcacgcttcagaaggcatgattcccag	Protospacer
*... .*  *****************.** **

9. spacer 2.3|4063825|30|NZ_CP042175|CRT matches to NZ_CP045549 (Streptomyces sp. SYP-A7193 plasmid unnamed2, complete sequence) position: , mismatch: 9, identity: 0.7

cggggccagcttcggggccagctttggggc	CRISPR spacer
gggggccagcttccgggccagccgctgcaa	Protospacer
 ************ ********. . * .

10. spacer 2.3|4063825|30|NZ_CP042175|CRT matches to CP047139 (Ralstonia solanacearum strain CFBP 8695 plasmid unnamed, complete sequence) position: , mismatch: 9, identity: 0.7

cggggccagcttcggggccagctttggggc	CRISPR spacer
cggggccagcttggcggccagctgcatcag	Protospacer
************ * ******** ..  .

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

2345443 : 2354887

Escherichia_phage(42.86%)

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_138835434.1\|2345443_2346178_+	ATP-binding cassette domain-containing protein	A0A2H4PQG7	Staphylococcus_phage	4.0e-12	25.6
WP_138835437.1\|2346161_2346866_+	ATP-binding cassette domain-containing protein	A0A2H4PQG7	Staphylococcus_phage	1.0e-12	26.6
WP_138835439.1\|2346987_2347647_-	aldolase	A0A077SK32	Escherichia_phage	6.2e-49	48.3
WP_138835442.1\|2347746_2348661_+	NAD-binding protein	A0A077SLF7	Escherichia_phage	1.5e-69	49.7
WP_138835444.1\|2348685_2349468_+	TIM barrel protein	NA	NA	NA	NA
WP_138835447.1\|2349464_2350754_+	four-carbon acid sugar kinase family protein	A0A077SLJ7	Escherichia_phage	2.0e-67	39.5
WP_138835448.1\|2350936_2352628_+	HAMP domain-containing protein	A0A2H4J162	uncultured_Caudovirales_phage	4.8e-13	65.7
WP_138836268.1\|2352859_2354887_+	HAMP domain-containing protein	A0A2H4J162	uncultured_Caudovirales_phage	5.8e-13	69.2

DBSCAN-SWA_2

3627391 : 3634126

uncultured_Mediterranean_phage(100.0%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_138838362.1\|3627391_3628213_+	segregation/condensation protein A	A0A1B1IVW1	uncultured_Mediterranean_phage	1.8e-29	34.7
WP_138838364.1\|3628231_3628981_+	SMC-Scp complex subunit ScpB	A0A1B1IVT7	uncultured_Mediterranean_phage	1.5e-43	50.3
WP_138838366.1\|3629147_3629381_+	twin-arginine translocase TatA/TatE family subunit	A0A1B1IVR9	uncultured_Mediterranean_phage	3.2e-08	63.6
WP_138838368.1\|3629515_3630028_+	twin-arginine translocase subunit TatB	NA	NA	NA	NA
WP_138838370.1\|3630024_3630846_+	twin-arginine translocase subunit TatC	A0A1B1IVR7	uncultured_Mediterranean_phage	1.5e-47	51.3
WP_138838372.1\|3631013_3632345_+\|tRNA	serine--tRNA ligase	A0A1B1IVT2	uncultured_Mediterranean_phage	4.5e-99	48.3
WP_138838375.1\|3633358_3634126_+	5'/3'-nucleotidase SurE	A0A1B1ITZ2	uncultured_Mediterranean_phage	2.4e-36	38.7

DBSCAN-SWA_3

5024084 : 5075078

Bacillus_virus(40.0%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_138830004.1\|5024084_5025113_-\|transposase	IS110 family transposase	NA	NA	NA	NA
WP_138830005.1\|5025434_5025752_+	GcrA cell cycle regulator	NA	NA	NA	NA
WP_138830006.1\|5025779_5025962_+	hypothetical protein	NA	NA	NA	NA
WP_168213009.1\|5026245_5026416_+	hypothetical protein	NA	NA	NA	NA
WP_138830007.1\|5026647_5027277_-	NYN domain-containing protein	NA	NA	NA	NA
WP_138830009.1\|5027853_5028390_-	recombinase family protein	NA	NA	NA	NA
WP_138830010.1\|5028546_5028741_+	hypothetical protein	NA	NA	NA	NA
WP_168213010.1\|5028973_5029150_+	hypothetical protein	NA	NA	NA	NA
WP_138830011.1\|5030146_5030620_+	hypothetical protein	NA	NA	NA	NA
WP_138830012.1\|5030866_5031130_+	hypothetical protein	NA	NA	NA	NA
WP_168213011.1\|5031476_5031653_-	hypothetical protein	NA	NA	NA	NA
WP_138830013.1\|5032266_5032470_-	hypothetical protein	NA	NA	NA	NA
WP_168213012.1\|5033290_5034058_-	ABC transporter ATP-binding protein	G3M9Y6	Bacillus_virus	6.3e-29	36.8
WP_138830015.1\|5034054_5034870_-	ABC transporter permease subunit	NA	NA	NA	NA
WP_168213013.1\|5034866_5035844_-	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_138830017.1\|5035883_5036702_-	3-oxoadipate enol-lactonase	NA	NA	NA	NA
WP_138830018.1\|5036707_5037175_-	carbon monoxide dehydrogenase subunit G	NA	NA	NA	NA
WP_138830019.1\|5037184_5038162_-	amidohydrolase family protein	NA	NA	NA	NA
WP_138830020.1\|5038167_5040570_-	molybdopterin-dependent oxidoreductase	NA	NA	NA	NA
WP_138830021.1\|5040566_5041079_-	2Fe-2S iron-sulfur cluster binding domain-containing protein	A0A0P0IVM8	Acinetobacter_phage	1.2e-20	35.4
WP_138830022.1\|5041075_5041963_-	xanthine dehydrogenase family protein subunit M	NA	NA	NA	NA
WP_138830023.1\|5041969_5042296_-	NIPSNAP family protein	NA	NA	NA	NA
WP_138830024.1\|5042590_5043964_+	aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme	NA	NA	NA	NA
WP_138830025.1\|5044373_5045282_+	LysR family transcriptional regulator	NA	NA	NA	NA
WP_168213014.1\|5045350_5046664_-	MFS transporter	NA	NA	NA	NA
WP_138830027.1\|5046763_5047732_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA
WP_138830028.1\|5047790_5049035_-	amidohydrolase family protein	NA	NA	NA	NA
WP_138830029.1\|5049031_5049391_-	hypothetical protein	NA	NA	NA	NA
WP_138830030.1\|5049377_5049743_-	Rieske 2Fe-2S domain-containing protein	NA	NA	NA	NA
WP_138835611.1\|5050247_5051684_-	aldehyde dehydrogenase family protein	NA	NA	NA	NA
WP_138830031.1\|5051911_5053015_+	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_138830032.1\|5053097_5053520_-	Zn-ribbon domain-containing OB-fold protein	NA	NA	NA	NA
WP_138830033.1\|5053520_5054690_-	thiolase family protein	NA	NA	NA	NA
WP_138830034.1\|5054709_5055468_-	enoyl-CoA hydratase	NA	NA	NA	NA
WP_138830035.1\|5055610_5056273_-	TetR family transcriptional regulator	NA	NA	NA	NA
WP_138830036.1\|5056547_5057375_+	ATP-binding cassette domain-containing protein	G3M9Y6	Bacillus_virus	1.1e-34	41.5
WP_138830037.1\|5057371_5058154_+	ABC transporter permease subunit	NA	NA	NA	NA
WP_138830038.1\|5058177_5059779_+	AMP-binding protein	A0A1V0SBX8	Catovirus	2.0e-16	26.6
WP_138830039.1\|5060714_5062100_-\|transposase	transposase	NA	NA	NA	NA
WP_138830040.1\|5062359_5063763_-\|transposase	IS1182 family transposase	A0A1X9I5T2	Streptococcus_phage	4.9e-43	26.8
WP_138830041.1\|5065344_5065554_+	PRC-barrel domain containing protein	NA	NA	NA	NA
WP_138830042.1\|5065891_5067328_+\|transposase	IS1182 family transposase	NA	NA	NA	NA
WP_138830043.1\|5067652_5068735_+	beta-propeller fold lactonase family protein	NA	NA	NA	NA
WP_138830044.1\|5069329_5070466_+	beta-propeller fold lactonase family protein	NA	NA	NA	NA
WP_138830045.1\|5070958_5071951_-	solute-binding protein	NA	NA	NA	NA
WP_138830047.1\|5072169_5073234_+\|transposase	IS110 family transposase	NA	NA	NA	NA
WP_138830048.1\|5074046_5075078_-\|transposase	IS110 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. NZ_CP042175

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection