CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
NC_009142	Saccharopolyspora erythraea NRRL 2338, complete genome	18 crisprs	cas14j,cas3,c2c9_V-U4,csa3,DinG,DEDDh,Cas9_archaeal,WYL,cas4,RT,casR,cas1,cas2,csb2gr5,csm3gr7,csx10gr5,cas10	2	19	7	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_009142_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_1

329432-329820

TypeV

Consensus_repeat	Method
CTGCCGGTCGTGGGNGACGTNGCCGG	CRT

7 spacers

cas14j

The CRISPR arrays of NC_009142_1

>merge|NC_009142|1|329432-329820|CRT
GGTGGCGACGTGACCGACGTCGCGGGCAACGTGACCGGTGTCGCGGGCGACCTGCCGGTCGTGGGCGACGTCGCGGGCACCGTGGGTGGCGTGGCCGGTGGCCTGCCGGTCGTGGGTGACGTGGCCGGTGCCGCCGGCTCCGGTGAGCTGCCGGTCGTGGGTGACGTGGCCGGCACCGTGGGTGGCGTGGCCGGTGGCCTGCCGGTCGTGGGTGACGTGGCCGGTGCCGCCGGCTCCGGTGAGCTGCCCGCCGTGGGCGACGTGGCCGGCACCGTCGGTGGCGTGACCGACCTGGCCGGCGGCGTGACCGGTGGCCTGCCGGTCGTCGGTGACGTGGCCCCGGCGATCTCCGACCCGGCCGCGCTGCCGGTCGTGGGCGACGTCGCCGG

>NC_009142|1|1|329432-329820|CRT
GGTGGCGACGTGACCGACGTCGCGGG	CAACGTGACCGGTGTCGCGGGCGAC
CTGCCGGTCGTGGGCGACGTCGCGGG	CACCGTGGGTGGCGTGGCCGGTGGC
CTGCCGGTCGTGGGTGACGTGGCCGG	TGCCGCCGGCTCCGGTGAG
CTGCCGGTCGTGGGTGACGTGGCCGG	CACCGTGGGTGGCGTGGCCGGTGGC
CTGCCGGTCGTGGGTGACGTGGCCGG	TGCCGCCGGCTCCGGTGAG
CTGCCCGCCGTGGGCGACGTGGCCGG	CACCGTCGGTGGCGTGACCGACCTGGCCGGCGGCGTGACCGGTGGC
CTGCCGGTCGTCGGTGACGTGGCCCC	GGCGATCTCCGACCCGGCCGCG
CTGCCGGTCGTGGGCGACGTCGCCGG

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_009946953.1\|333790_335005_-\|FAD-dependent-monooxygenase	unknown	unknown	gnl\|CDD\|169028
NC_009142.1\|WP_009946954.1\|332141_333608_+\|dynamin-family-protein	unknown	unknown	gnl\|CDD\|206739
NC_009142.1\|WP_009946960.1\|323750_324230_-\|nucleoside-deaminase	unknown	unknown	gnl\|CDD\|238612
NC_009142.1\|WP_009946961.1\|322561_323638_+\|alpha/beta-hydrolase	unknown	unknown	gnl\|CDD\|369561
NC_009142.1\|WP_009946952.1\|335025_335553_-\|TetR/AcrR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224228
NC_009142.1\|WP_009946949.1\|337187_337376_+\|DUF397-domain-containing-protein	unknown	unknown	gnl\|CDD\|377231
NC_009142.1\|WP_009946963.1\|320496_321054_-\|NAD(P)H-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|377026
NC_009142.1\|WP_011873006.1\|321212_322412_+\|IS200/IS605-family-element-transposase-accessory-protein-TnpB	cas14j	-	gnl\|CDD\|223747
NC_009142.1\|WP_009946948.1\|337477_338932_-\|catalase	unknown	unknown	gnl\|CDD\|365942
NC_009142.1\|WP_011873009.1\|336340_337198_+\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|238045
NC_009142.1\|WP_009946958.1\|326974_328366_-\|Hsp70-family-protein	unknown	unknown	gnl\|CDD\|212667
NC_009142.1\|WP_143538276.1\|335944_336190_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|374829
NC_009142.1\|WP_009946967.1\|318633_319125_+\|MarR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|197670
NC_009142.1\|WP_009946947.1\|339415_339979_-\|TetR/AcrR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224228
NC_009142.1\|WP_009946959.1\|324326_326795_-\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|99777
NC_009142.1\|WP_009946945.1\|340017_340521_+\|GNAT-family-N-acetyltransferase	unknown	unknown	gnl\|CDD\|366181
NC_009142.1\|WP_009946964.1\|319929_320421_-\|DNA-starvation/stationary-phase-protection-protein	unknown	unknown	gnl\|CDD\|153102
NC_009142.1\|WP_009946966.1\|319250_319814_+\|Uma2-family-endonuclease	unknown	unknown	gnl\|CDD\|99749
NC_009142.1\|WP_009946956.1\|330333_332145_+\|dynamin-family-protein	unknown	unknown	gnl\|CDD\|206739
NC_009142.1\|WP_009946969.1\|317601_318531_-\|NAD(P)/FAD-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|223566

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_009946953.1\|333790_335005_-\|FAD-dependent-monooxygenase	gnl\|CDD\|169028	PRK07588, PRK07588, FAD-binding domain.	3.72785e-90
NC_009142.1\|WP_009946954.1\|332141_333608_+\|dynamin-family-protein	gnl\|CDD\|206739	cd09912, DLP_2, Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins. The dynamin family of large mechanochemical GTPases includes the classical dynamins and dynamin-like proteins (DLPs) that are found throughout the Eukarya. This family also includes bacterial DLPs. These proteins catalyze membrane fission during clathrin-mediated endocytosis. Dynamin consists of five domains; an N-terminal G domain that binds and hydrolyzes GTP, a middle domain (MD) involved in self-assembly and oligomerization, a pleckstrin homology (PH) domain responsible for interactions with the plasma membrane, GED, which is also involved in self-assembly, and a proline arginine rich domain (PRD) that interacts with SH3 domains on accessory proteins. To date, three vertebrate dynamin genes have been identified; dynamin 1, which is brain specific, mediates uptake of synaptic vesicles in presynaptic terminals; dynamin-2 is expressed ubiquitously and similarly participates in membrane fission; mutations in the MD, PH and GED domains of dynamin 2 have been linked to human diseases such as Charcot-Marie-Tooth peripheral neuropathy and rare forms of centronuclear myopathy. Dynamin 3 participates in megakaryocyte progenitor amplification, and is also involved in cytoplasmic enlargement and the formation of the demarcation membrane system. This family also includes mitofusins (MFN1 and MFN2 in mammals) that are involved in mitochondrial fusion. Dynamin oligomerizes into helical structures around the neck of budding vesicles in a GTP hydrolysis-dependent manner.	4.50461e-12
NC_009142.1\|WP_009946960.1\|323750_324230_-\|nucleoside-deaminase	gnl\|CDD\|238612	cd01285, nucleoside_deaminase, Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate. The functional enzyme is a homodimer. Cytosine deaminase catalyzes the deamination of cytosine to uracil and ammonia and is a member of the pyrimidine salvage pathway. Cytosine deaminase is found in bacteria and fungi but is not present in mammals; for this reason, the enzyme is currently of interest for antimicrobial drug design and gene therapy applications against tumors. Some members of this family are tRNA-specific adenosine deaminases that generate inosine at the first position of their anticodon (position 34) of specific tRNAs; this modification is thought to enlarge the codon recognition capacity during protein synthesis. Other members of the family are guanine deaminases which deaminate guanine to xanthine as part of the utilization of guanine as a nitrogen source.	1.99944e-29
NC_009142.1\|WP_009946961.1\|322561_323638_+\|alpha/beta-hydrolase	gnl\|CDD\|369561	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.	1.05201e-83
NC_009142.1\|WP_009946952.1\|335025_335553_-\|TetR/AcrR-family-transcriptional-regulator	gnl\|CDD\|224228	COG1309, AcrR, Transcriptional regulator [Transcription].	1.36805e-09
NC_009142.1\|WP_009946949.1\|337187_337376_+\|DUF397-domain-containing-protein	gnl\|CDD\|377231	pfam04149, DUF397, Domain of unknown function (DUF397). The function of this family is unknown.	2.56323e-16
NC_009142.1\|WP_009946963.1\|320496_321054_-\|NAD(P)H-dependent-oxidoreductase	gnl\|CDD\|377026	pfam03358, FMN_red, NADPH-dependent FMN reductase.	2.63319e-26
NC_009142.1\|WP_011873006.1\|321212_322412_+\|IS200/IS605-family-element-transposase-accessory-protein-TnpB	gnl\|CDD\|223747	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	1.37535e-65
NC_009142.1\|WP_009946948.1\|337477_338932_-\|catalase	gnl\|CDD\|365942	pfam00199, Catalase, Catalase.	0
NC_009142.1\|WP_011873009.1\|336340_337198_+\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|238045	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.	2.79382e-10
NC_009142.1\|WP_009946958.1\|326974_328366_-\|Hsp70-family-protein	gnl\|CDD\|212667	cd10170, HSP70_NBD, Nucleotide-binding domain of the HSP70 family. HSP70 (70-kDa heat shock protein) family chaperones assist in protein folding and assembly and can direct incompetent "client" proteins towards degradation. Typically, HSP70s have a nucleotide-binding domain (NBD) and a substrate-binding domain (SBD). The nucleotide sits in a deep cleft formed between the two lobes of the NBD. The two subdomains of each lobe change conformation between ATP-bound, ADP-bound, and nucleotide-free states. ATP binding opens up the substrate-binding site; substrate-binding increases the rate of ATP hydrolysis. HSP70 chaperone activity is regulated by various co-chaperones: J-domain proteins and nucleotide exchange factors (NEFs). Some HSP70 family members are not chaperones but instead, function as NEFs to remove ADP from their HSP70 chaperone partners during the ATP hydrolysis cycle, some may function as both chaperones and NEFs.	4.01316e-63
NC_009142.1\|WP_143538276.1\|335944_336190_-\|hypothetical-protein	gnl\|CDD\|374829	pfam16827, zf-HC3, zinc-finger. This is a family of putative zinc-fingers from Actinobacteriales.	0.00219475
NC_009142.1\|WP_009946967.1\|318633_319125_+\|MarR-family-transcriptional-regulator	gnl\|CDD\|197670	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein.	4.62482e-15
NC_009142.1\|WP_009946947.1\|339415_339979_-\|TetR/AcrR-family-transcriptional-regulator	gnl\|CDD\|224228	COG1309, AcrR, Transcriptional regulator [Transcription].	6.20194e-06
NC_009142.1\|WP_009946959.1\|324326_326795_-\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|99777	cd06170, LuxR_C_like, C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental nitrate or nitrite is present under anerobic conditions. FixJ is involved in the transcriptional activation of nitrogen fixation genes. The group also includes small proteins which lack an N-terminal signaling domain, such as Bacillus subtilis GerE. GerE is dimeric and acts in conjunction with sigmaK as an activator or a repressor modulating the expression of various genes in particular those encoding the spore-coat. These LuxR family regulators may share a similar organization of their target binding sites. For example the LuxR dimer binds the lux box, a 20bp inverted repeat, GerE dimers bind two 12bp consensus sequences in inverted orientation having the central four bases overlap, and the NarL dimer binds two 7bp inverted repeats separated by 2 bp.	1.96452e-15
NC_009142.1\|WP_009946945.1\|340017_340521_+\|GNAT-family-N-acetyltransferase	gnl\|CDD\|366181	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions such as Elp3-related proteins.	3.92969e-15
NC_009142.1\|WP_009946964.1\|319929_320421_-\|DNA-starvation/stationary-phase-protection-protein	gnl\|CDD\|153102	cd01043, DPS, DPS protein, ferritin-like diiron-binding domain. DPS (DNA Protecting protein under Starved conditions) domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. Some DPS proteins nonspecifically bind DNA, protecting it from cleavage caused by reactive oxygen species such as the hydroxyl radicals produced during oxidation of Fe(II) by hydrogen peroxide. These proteins assemble into dodecameric structures, some form DPS-DNA co-crystalline complexes, and possess iron and H2O2 detoxification capabilities. Expression of DPS is induced by oxidative or nutritional stress, including metal ion starvation. Members of the DPS family are homopolymers formed by 12 four-helix bundle subunits that assemble with 23 symmetry into a hollow shell. The DPS ferroxidase site is unusual in that it is not located in a four-helix bundle as in ferritin, but is shared by 2-fold symmetry-related subunits providing the iron ligands. Many DPS sequences (e.g., E. coli) display an N-terminal extension of variable length that contains two or three positively charged lysine residues that extends into the solvent and is thought to play an important role in the stabilization of the complex with DNA. DPS Listeria Flp, Bacillus anthracis Dlp-1 and Dlp-2, and Helicobacter pylori HP-NAP which lack the N-terminal extension, do not bind DNA. DPS proteins from Helicobacter pylori, Treponema pallidum, and Borrelia burgdorferi are highly immunogenic.	1.61954e-44
NC_009142.1\|WP_009946966.1\|319250_319814_+\|Uma2-family-endonuclease	gnl\|CDD\|99749	cd06260, DUF820, Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of nucleases.	5.88787e-22
NC_009142.1\|WP_009946956.1\|330333_332145_+\|dynamin-family-protein	gnl\|CDD\|206739	cd09912, DLP_2, Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins. The dynamin family of large mechanochemical GTPases includes the classical dynamins and dynamin-like proteins (DLPs) that are found throughout the Eukarya. This family also includes bacterial DLPs. These proteins catalyze membrane fission during clathrin-mediated endocytosis. Dynamin consists of five domains; an N-terminal G domain that binds and hydrolyzes GTP, a middle domain (MD) involved in self-assembly and oligomerization, a pleckstrin homology (PH) domain responsible for interactions with the plasma membrane, GED, which is also involved in self-assembly, and a proline arginine rich domain (PRD) that interacts with SH3 domains on accessory proteins. To date, three vertebrate dynamin genes have been identified; dynamin 1, which is brain specific, mediates uptake of synaptic vesicles in presynaptic terminals; dynamin-2 is expressed ubiquitously and similarly participates in membrane fission; mutations in the MD, PH and GED domains of dynamin 2 have been linked to human diseases such as Charcot-Marie-Tooth peripheral neuropathy and rare forms of centronuclear myopathy. Dynamin 3 participates in megakaryocyte progenitor amplification, and is also involved in cytoplasmic enlargement and the formation of the demarcation membrane system. This family also includes mitofusins (MFN1 and MFN2 in mammals) that are involved in mitochondrial fusion. Dynamin oligomerizes into helical structures around the neck of budding vesicles in a GTP hydrolysis-dependent manner.	2.50182e-18
NC_009142.1\|WP_009946969.1\|317601_318531_-\|NAD(P)/FAD-dependent-oxidoreductase	gnl\|CDD\|223566	COG0492, TrxB, Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones].	4.89729e-48

>NC_009142.1|WP_009946958.1|326974_328366_-|Hsp70-family-protein
MPYVLGIHLGATATSAAIARREGGRWAAAAPVPLGSGSAGVPTVLCRAQDGSYLAGEQAQRQELTHHQWVARGFTRRVGEDAPLLVGNDFVQPHALAATMIEWVADAVAHRQGHPPEHIAVAHSANWGPHRTHVVHQALAQLGISDVTLLPEPVAVAMDYASKQRVDDGGAIAVGNIGGTGFDATVLRRRTPGFEVVGPPLDSPHPGGQDLDDALFEHIRAELGGLAGLDVTDFNVRATLAQLRGDCVHARETLSFHPGATLRIHLPKVNTDFAVSRSRFEKLARTHLERVPELVLQAVQSANLTPGELDAVVLAGGVARTPLLKQLVQERLERQPLVDGAPELVAACGAAVSAVKAVSTEGDQAASMAETSVLMRIEAPDDDPNLLDPLDDDVAESPRPPVEVEPMHIEPPDEKRQRLFKILKLTLAALLVIAGLIMTFYGTPSTGGLLGGAGGPAPQQQQR
>NC_009142.1|WP_009946959.1|324326_326795_-|helix-turn-helix-transcriptional-regulator
MNHPTNPQAASAAGVHAAGLRAAIAAEPAAPVVAGIQGAGGYGKSALLSQLAGIYQAAGIPVSSSPDASRDGAHLVDDAHLLDETSLYALRAIAEKPGARVVVAYRPGPRSHALSELIATLGAPVLLTGLGRDEVARGLPGPASREWIDWLIEQTGGVPRFVGRVTGTIDPSQLGDRTLPRLALEQFRHDFDQLGEHARACVTAMSVGAAPHPEVLASVLELDPGHVAGALASVRSGGLVDDHDMPWPIVRAAAQLLTPLEVRLGIVRRLVDAQLAHGGPVLPLVRPLLGARVALLPEATLSAAFEKGGDEALAEAPELAGRLFDAAVSAGVPESRVAARRARAAAAAGRLDEALRLADRVIVDPAVPDRALGVQVAASVLAHRGLLAQSADLCAWSVDNLRWSGDTAYAAVGLVGTGRLREADELLSSRRESGPPTSLSGAAAKLAGGVRESVTGAATSALSTLVRAAALADPVGPGVMLPDSPAAIAATVALHCGELDVAESSLAKAVESGSGGPLLEVRHRLLAAWVPLMRGDTVTARQALGSVPSELAARDRLLATALHAGIAGRDNDMTALTAIRGQARQAAAEHSPDLFCLLPLGELVVATARLHDQDWLTPYLHEAQALLSALGNPPLWTSMLTWKCLQAAVVVEDMDSAARHAADLGETAHHNPMSAAMAEAARMWLRVLDGQVDQDEAERAARGLHAAGLTWDGARLAGQAAIRTTDRKAMLSLLECARALQGKQPRPRAMSANAGEGELLSDREREVAQLVLAGLTYKQVGKRLFISAKTVEHHIGRIRQRLGCQSREELLDRLRELVGSEA
>NC_009142.1|WP_009946960.1|323750_324230_-|nucleoside-deaminase
MTDDDLRHLRRAIELSARARESGDEPFGSLLVGPDGAVLAEDVNTVRTDRDISAHPELKLAVWAARHLDPATSAATTMYTSCENCAMCSAAMVSSGVGRLVFALDGRRLASFRGEQRPGLDLPAADVFARASRTIAVEGPLLAEEALVPHEGFWSHAQG
>NC_009142.1|WP_009946961.1|322561_323638_+|alpha/beta-hydrolase
MPKAIERVALQAQALALRTALALPSPVRRAIAGPPIRIDGGELALDAQLLLKLQHLSGHRNLSAPTVELARAAMLQSTHLLPKAPVSGVSVGERRVPGATGELAARLYRPLQLTEPGELLVFYHGGGFVIGDLESHDDMCRFLAKHAGIRVLSVEYRLAPESRFPAAFDDALAAYRYAVDNAAALGSSPEAIAVGGDSAGGNLAAVVAYHAARSGLPKPSLQLLLYPAVDATKRRRSRELFGEGFLLTDRDMDWFMDHYAPDVGERGDDRLSVLLAEDLTGLSPAYVVTAGFDPLRDEGRAYAERLAEDGVPVIERCFDDLIHGFASLRRAGGRFGEAMFEIAGTLRAALALRVDQQR
>NC_009142.1|WP_011873006.1|321212_322412_+|IS200/IS605-family-element-transposase-accessory-protein-TnpB
MRRAYKCRAYPDREQAAMLSRTFGCVRLVWNKTLAERHRRYHAEGKRLSYKETDAALTRWKRTEELAFLSEVSSVPLQQTLRHQHTAFANFFAGRSRYPRFKSRNGRQSAHYTRSAFRMRDGNLYLAKTTTPLEFVWSWPDIDITTLNPTMVIISREPDGRWYVTFAVDTDDPVPEPETGHTVGVDLGVKDFAVTSDGERIANPRHLERKARNLARYQRMMARKQRGSVNRRKAKQRVARAHRKVHNTRQDFLHRTSTRLVRSADVIAVEDLAVKNMVGNKRLARVISDCGWGEFRRQLEYKTERAGKTLVVVDRWYPSSKTCSYCGHLLGHLKLSVRAWTCPNCRTRHDRDHNAAKNILAAGLAVAACGADVRRGELARARSATKQETQPARVGTPRL
>NC_009142.1|WP_009946963.1|320496_321054_-|NAD(P)H-dependent-oxidoreductase
MTLTVVGIGGSVRPDSQSERAMRAALAGARDAGAKVRAITGSDLALPFYDPQVPERTENAIELVEALRTADGVVISSPGYHGTISGLIKNALDYVEDLRGDERVYLDGRAVGCIGVAYGWQATVTTLQALRSVVHSLRGWPTPLGAAVNSAETQLGPEGESEDEKVTRTLRTIGQQVVDFANSRR
>NC_009142.1|WP_009946964.1|319929_320421_-|DNA-starvation/stationary-phase-protection-protein
MATKTAAKAPITSALNDSDRDVTGKALQGTLLDLIDLHLVAKQAHWNVVGKFFRDVHLQLDELIDTARAFADDVAERASAIGVSPDGRSSTVASGSGMPKFDAGWKNDREVIEYIVSALSELISRVRMRIDETDKTDLVTQDLLLSIASELEKSHWMWQAQLA
>NC_009142.1|WP_009946966.1|319250_319814_+|Uma2-family-endonuclease
MSTMSWPGHLLTLEEFDQLPEDNSRRYELQEGVLLVTPKAATLHQRVVRALGSVLVAQLPAEWEAVPDVEVVLKHKWPPTVRIPDVLIAPTELIDKNPNRLQAADVAVAVEVISPGSRQMDQVTKRYEYAAAGIQGYWVLETDDVVKLTASRLIGEVYEVDFCGGGMFKTAHPFELTLDLDTLIKRA
>NC_009142.1|WP_009946967.1|318633_319125_+|MarR-family-transcriptional-regulator
MLPLQARTVELWRERNPGLDTSPMEVVALVKRVRVLLDRAVEDLYDGAALTSAEVELLVPLRHADEPVTAARLAARLGMSRAGISKTLAKLEKRGLITRAANPADRRAALIRMTPEGEEVIDDLFPRELEAHGKLLAGLGADRRRVVDALTRFAEAMEAQLEE
>NC_009142.1|WP_009946969.1|317601_318531_-|NAD(P)/FAD-dependent-oxidoreductase
MDATRYDAVVVGGGAAGLSAATLLARSRRRVVVVDAGEPRNAPSAHLHNFLSRDGMAPAELLAAGRRELAGYGGEVVEALATSIERAEHGFAVRLASGAELTTRGVLVATGLRDELPDIPGLRDRWGDTVLHCPYCHGHEVRDQPLGVLGGDNRPFTVHQAALVRLWSDDVAFFPNRIALEAGERERLTAWGVRIVDGEVARLSSGDGLTVELADGRQVRRQAVFAGPRFVPNDRLLTGLGCEVGDNGWVATDASGRTSVAGVWAAGNVVDSPAQLISAAGAGSTAAIALNHHLLAQDVERAATALSRA
>NC_009142.1|WP_009946956.1|330333_332145_+|dynamin-family-protein
MIETALVELIDRATAECAEQQRADLHGRLRQIRTRVLDPAQLVLIVGESKQGKSELVNAIVNAPVCASGEDVTTVVPTLVRHSDEPTAMLVEHEPARGPAALERHPVPIERIRENLGRAVELGRPLTRGEVGLPRAVLEDGLVLMDTPGVGSVSSTLTTTTLAVAAEADALLMVSDATQELTTSELAFLKQVTALCPNVAVVQPKIDVTPHWRRVMEVNRKHLANAGVTTKIFPVSSVVRMRAMQTKDGQLNAESGFPALLEYLRNEMAGKHAQLTRRLVAHNLAEVINQLTTSLKAELAAQNPRTAAETLVELETAQRRAEDLRRMASRWQKTLSDGISELFADIEFDFRERTWAVMHQVNETFDEADPKEVWDEFIDWLTERLTDAIVQSFEWLDMRRERLAEQVADELRREYGDSLPDVERIRPPDPFDAVPKPKEPKSSDYPGLDQVLTSLRGSYGGVLMFGLITTMAGLPLMNVVSISAGLLLGSKSLKEEKDSRLRRRQTEARASVQRYVEHVVFQVNKEAKDAIRSVHRRLHEHFSQLTEEAQMEVSREIQNIKRSAERSAVDRDRRAREIKKKLEELAVLRQRASLLTQNRITAA
>NC_009142.1|WP_009946954.1|332141_333608_+|dynamin-family-protein
MSERLLEHARALMVRAMTFYRDDTRTSTWLRGRMERLDQPLRIAVSGRVKSGKSTLINALVGEELAPTDAEERTQVSTFYQYGPEPKVLVHTPSGAVQNVPVPSLDTGTIRDLQRWRPDEVARLVIESPSPGLQAITLIETPGVASSAVQETGRSALAQILSEADAVLYLTRHPHQTDLQFLQSVHELQIARYAPINTIIAFSRADETGSGGVDALDAAERIAQRYRDDPTVRSFSQHVIPVVGLLGQAASTMTAEEFASFVGLARLSQSDLEALLLSADRFANSTVPESVPAAVRAKLLERFGRYGIARAMTCLRDGSVTDLKGLRTALLEDSRLNDLQEAVHLQFVERQDALRARSILLAVDMVLRANPRPGVQRLLGEFEHLMVNAAHEWDELRLLSSLASGQVRFPRSLQSEAHRMLGAYGHDARSRLGGDDNAMEADLADEAAATLARWREQAVNPLHDRAHREAVQTVVRSCERLIASQMRG
>NC_009142.1|WP_009946953.1|333790_335005_-|FAD-dependent-monooxygenase
MKVIVVGAGMAGLSLANRVSTLGGEVVLLERATGPRAQGYMMDFFGPGYDAIEAMGLLPAVEDVAYHIAEATFVDEHGRRRAGVRPRQFANGPLLNLMRPDLERVLREHLPPEVDLRFGTGPTAVTDHNDGVRVTLADGTRLDADMLVGADGIHSTVRHLVFGREAEFLRYLGFHTAAFCFDAPEVEAIVRDRACLTDTVGRQMGFYSLRDGRVAAFGVHRTADPTLPEDLRTAVRDAFAGLGWVAPRALDRCPPPSEIYYDQVAQIEMPRWSRGRVVLVGDACYAVSLLAGQGASLSIAGAYLLADRLAHARTIEQAVAEYEQLWRPVVREKQQVGRTGARWFLPESRWQLRFRRAVLRLARLPVLDRYLAALLAGKSSALVRNLRQGGGPSELTGGRQATPR
>NC_009142.1|WP_009946952.1|335025_335553_-|TetR/AcrR-family-transcriptional-regulator
MRQRLLTAAAELIPERGWTAVSTRVLAERAGVTPSVVHYHFPSLPALLNEAVVGLMRQMLADVDAFLSAAATPADAVDAMLESVDRYTGADPMSLLFVEACLAATRDEQLRGEIGAVVEEFRQRVGRWLGEHGVSAPAETAAALIAVVDGLLLHRGLGVGPDTGSAARVLRRLVA
>NC_009142.1|WP_143538276.1|335944_336190_-|hypothetical-protein
MLPFHWVPCDGARHASRDTRPAGGYPTGTEVKTLCGRELAADNSQHAWFWGTCPDCNREAHRLAASRQEAQSRVQKCGRRK
>NC_009142.1|WP_011873009.1|336340_337198_+|helix-turn-helix-transcriptional-regulator
MPVDTSGVTPRARALSAAIRSIRERSGVSGRELSKRLGLSHGTVSHWETGRRVPTPEDVASLLTAAGITGDEKQRVVELARHASEPNWLTVGMPGIPQQLAGAVECERAASSIAEWAPMGLPGLLQTADYARTISKASGLATADVEQRVMLRIARREVLTRRDPVRFLALIGEDALRDRIGEPEVMEEQLRYLLDLGLHDNVTVQVVQPRIGWHPGLAGPFVLYDFPDAPSVVHFEHFSSGAFVPDADDVQAYQCAVDNIRRVALSPAQTTERITEILKELRHEA
>NC_009142.1|WP_009946949.1|337187_337376_+|DUF397-domain-containing-protein
MKPENWRKSSRSQPNGNCVEVGGSAAGAAVRDSKDRDAGYFTASRAQWSAFVGAVKAGRFDR
>NC_009142.1|WP_009946948.1|337477_338932_-|catalase
MSSARFTTTNAGIPVGSDDHSLSAGANGPLLLQDHYLIEKNAQFNRERVPERVVHAKGGGAFGFFEVTEDVSQFTKAAVFQPGTRTEALIRFSSVAGELGSPDTWRDPRGTAIKFYTSEGNYDLVGNNTPVFFIRDAIKFPDFIRSQKRRADNHLRDHDMQWDFWTNCPESAHQVTWLMGDRGIPKTWRHMNLYGSHTFMWQNAGGEKFWVKYHFKTEQGHDFLTQAEADQLAGTDADHHIRDLWNTIKAGENPEWTLYVQVMPYADAADYRFNPFDLTKVWPHGDYPLIKVGRFVLNRNPENYFAQIEQAAFEPSNLVPGIGPSPDKMLQGRLFSYPDAHRYRIGTNYAELPVNRPVSEVNSYSKDGAMRFSNTQDPVYAPNSYGGPHADTERFADDVAAAGIEQEILRTAYTLRSEDDDFGQPGTMVRNVFSDEERARFVDNVAGHLNGGVSAPVLERALAYWRNVDKATGDRIAEKVQAAG
>NC_009142.1|WP_009946947.1|339415_339979_-|TetR/AcrR-family-transcriptional-regulator
MTRTDESRRRRELLSKLLEYSADHGLSEVSLRPLAAAVGSSPRMLLYFFGSKEGLVREVHRHAREAQLALLADALGDRLATGSRADALRALWEWLSDPAHHNVVRFFFESYARSLHAREDAWEGFGEASVREWLPHIRRALGSSDAEATLVLAALRGLMLDLLATGDTERVRAGFESLVAGLPVEPA
>NC_009142.1|WP_009946945.1|340017_340521_+|GNAT-family-N-acetyltransferase
MGGIEIRTGPRPGDLGTVLAMHGRLYAREYGFDERFEAHVARGLAAFAAALGDARDTGAEPGVLWVAERGDDPVGTVALTGEGGGVAQLRWFLVAPSARGTGLGRELLRTLLDHARGRGYAHVKLWTVDGLDAAARLYTEAGFRRTERNPVRQWGHDLTEARYDLDL

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Crispr_ID: NC_009142_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_2

472318-472404

Orphan

Consensus_repeat	Method
GGTCAGGCGCCGGTCAGGAACGT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_009142_2

>merge|NC_009142|2|472318-472404|CRISPRCasFinder
GGTCAGGCGCCGGTCAGGAACGTCAGTGCGGCACGGCGGAAACGGCTGTCGCGGCTGCGTTCCGGGTCAGGCGCCGGTCAGGAACGT

>NC_009142|2|1|472318-472404|CRISPRCasFinder
GGTCAGGCGCCGGTCAGGAACGT	CAGTGCGGCACGGCGGAAACGGCTGTCGCGGCTGCGTTCCG
GGTCAGGCGCCGGTCAGGAACGT

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_009947463.1\|480441_480948_-\|MarR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|197670
NC_009142.1\|WP_011873046.1\|461743_462829_+\|iron-ABC-transporter-permease	unknown	unknown	gnl\|CDD\|376439
NC_009142.1\|WP_009947466.1\|477437_478268_-\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|366444
NC_009142.1\|WP_044547099.1\|469472_470273_+\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|180607
NC_009142.1\|WP_009947464.1\|479362_480370_+\|endonuclease/exonuclease/phosphatase-family-protein	unknown	unknown	gnl\|CDD\|377028
NC_009142.1\|WP_044547102.1\|473404_476542_+\|winged-helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|226418
NC_009142.1\|WP_021341537.1\|482688_482997_-\|antibiotic-biosynthesis-monooxygenase	unknown	unknown	gnl\|CDD\|225209
NC_009142.1\|WP_009951580.1\|471779_472283_+\|winged-helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|197670
NC_009142.1\|WP_009946416.1\|462825_463680_+\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|224045
NC_009142.1\|WP_009951579.1\|472468_473254_-\|DedA-family-protein	unknown	unknown	gnl\|CDD\|223659
NC_009142.1\|WP_011873045.1\|460676_461747_+\|iron-ABC-transporter-permease	unknown	unknown	gnl\|CDD\|376439
NC_009142.1\|WP_011873054.1\|480995_482618_+\|FUSC-family-protein	unknown	unknown	gnl\|CDD\|379231
NC_009142.1\|WP_143538279.1\|466584_467628_-\|IS30-family-transposase	unknown	unknown	gnl\|CDD\|225382
NC_009142.1\|WP_011873053.1\|476901_477138_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_011873051.1\|470605_471682_-\|FAD-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|224172
NC_009142.1\|WP_011873047.1\|463958_466520_+\|ATP-dependent-Clp-protease-ATP-binding-subunit	unknown	unknown	gnl\|CDD\|214361
NC_009142.1\|WP_011873055.1\|483014_484955_-\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|274414
NC_009142.1\|WP_009946421.1\|458153_459677_+\|lysine--tRNA-ligase	unknown	unknown	gnl\|CDD\|234778
NC_009142.1\|WP_009946420.1\|459844_460195_+\|Lsr2-family-protein	unknown	unknown	gnl\|CDD\|378714
NC_009142.1\|WP_009947465.1\|478264_479233_-\|daunorubicin-resistance-protein-DrrA-family-ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|130256

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_009947463.1\|480441_480948_-\|MarR-family-transcriptional-regulator	gnl\|CDD\|197670	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein.	5.95267e-14
NC_009142.1\|WP_011873046.1\|461743_462829_+\|iron-ABC-transporter-permease	gnl\|CDD\|376439	pfam01032, FecCD, FecCD transport family. This is a sub-family of bacterial binding protein-dependent transport systems family. This Pfam entry contains the inner components of this multicomponent transport system.	1.75152e-73
NC_009142.1\|WP_009947466.1\|477437_478268_-\|ABC-transporter-permease	gnl\|CDD\|366444	pfam01061, ABC2_membrane, ABC-2 type transporter.	1.8643e-15
NC_009142.1\|WP_044547099.1\|469472_470273_+\|ATP-binding-protein	gnl\|CDD\|180607	PRK06526, PRK06526, transposase; Provisional.	9.96801e-174
NC_009142.1\|WP_009947464.1\|479362_480370_+\|endonuclease/exonuclease/phosphatase-family-protein	gnl\|CDD\|377028	pfam03372, Exo_endo_phos, Endonuclease/Exonuclease/phosphatase family. This large family of proteins includes magnesium dependent endonucleases and a large number of phosphatases involved in intracellular signalling. This family includes: AP endonuclease proteins EC:4.2.99.18, DNase I proteins EC:3.1.21.1, Synaptojanin an inositol-1,4,5-trisphosphate phosphatase EC:3.1.3.56, Sphingomyelinase EC:3.1.4.12, and Nocturnin.	3.68244e-25
NC_009142.1\|WP_044547102.1\|473404_476542_+\|winged-helix-turn-helix-domain-containing-protein	gnl\|CDD\|226418	COG3903, COG3903, Predicted ATPase [General function prediction only].	2.95616e-49
NC_009142.1\|WP_021341537.1\|482688_482997_-\|antibiotic-biosynthesis-monooxygenase	gnl\|CDD\|225209	COG2329, COG2329, Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only].	5.78957e-26
NC_009142.1\|WP_009951580.1\|471779_472283_+\|winged-helix-turn-helix-transcriptional-regulator	gnl\|CDD\|197670	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein.	3.11173e-15
NC_009142.1\|WP_009946416.1\|462825_463680_+\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|224045	COG1120, FepC, ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism].	2.99738e-133
NC_009142.1\|WP_009951579.1\|472468_473254_-\|DedA-family-protein	gnl\|CDD\|223659	COG0586, DedA, Uncharacterized membrane-associated protein [Function unknown].	2.87711e-44
NC_009142.1\|WP_011873045.1\|460676_461747_+\|iron-ABC-transporter-permease	gnl\|CDD\|376439	pfam01032, FecCD, FecCD transport family. This is a sub-family of bacterial binding protein-dependent transport systems family. This Pfam entry contains the inner components of this multicomponent transport system.	1.59858e-85
NC_009142.1\|WP_011873054.1\|480995_482618_+\|FUSC-family-protein	gnl\|CDD\|379231	pfam13515, FUSC_2, Fusaric acid resistance protein-like.	7.00589e-22
NC_009142.1\|WP_143538279.1\|466584_467628_-\|IS30-family-transposase	gnl\|CDD\|225382	COG2826, Tra8, Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair].	1.24428e-111
NC_009142.1\|WP_011873051.1\|470605_471682_-\|FAD-dependent-oxidoreductase	gnl\|CDD\|224172	COG1252, Ndh, NADH dehydrogenase, FAD-containing subunit [Energy production and conversion].	1.48038e-24
NC_009142.1\|WP_011873047.1\|463958_466520_+\|ATP-dependent-Clp-protease-ATP-binding-subunit	gnl\|CDD\|214361	CHL00095, clpC, Clp protease ATP binding subunit.	0
NC_009142.1\|WP_011873055.1\|483014_484955_-\|ABC-transporter-permease	gnl\|CDD\|274414	TIGR03062, hypothetical_protein_lp_1332, YhgE/Pip C-terminal domain. This family contains the C-terminal domain of a family of multiple membrane-spanning proteins of Gram-positive bacteria. One member was shown to be a host protein essential for phage infection, so many members of this family are called "phage infection protein". A separate model, TIGR03061, represents the conserved N-terminal domain. The domains are separated by regions highly variable in both length and sequence, often containing extended heptad repeats as described in model TIGR03057.	4.82759e-73
NC_009142.1\|WP_009946421.1\|458153_459677_+\|lysine--tRNA-ligase	gnl\|CDD\|234778	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed.	0
NC_009142.1\|WP_009946420.1\|459844_460195_+\|Lsr2-family-protein	gnl\|CDD\|378714	pfam11774, Lsr2, Lsr2. Lsr2 is a small, basic DNA-bridging protein present in Mycobacterium and related actinomycetes. It is a functional homolog of the H-NS-like proteins. H-NS proteins play a role in nucleoid organisation and also function as a pleiotropic regulator of gene expression.	5.90964e-55
NC_009142.1\|WP_009947465.1\|478264_479233_-\|daunorubicin-resistance-protein-DrrA-family-ABC-transporter-ATP-binding-protein	gnl\|CDD\|130256	TIGR01188, drrA, daunorubicin resistance ABC transporter ATP-binding subunit. This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc. [Transport and binding proteins, Other].	1.17939e-119

>NC_009142.1|WP_009951580.1|471779_472283_+|winged-helix-turn-helix-transcriptional-regulator
MTETLAEPDRGPDRAADRGPDRGAECEIETGLAAGLVRLTHLVQHVFAEVNRDFDLTPQQAQLLCMLIDGPIGMGELSRLLHLEKSSLTGLVDRVERRSLVERVRDDRDRRACRIALTAEGVRLGNESHSAVGARLEEMGSALPSAERKRLADAIGRILAGNGVPGA
>NC_009142.1|WP_011873051.1|470605_471682_-|FAD-dependent-oxidoreductase
MPATVAVLGGGYGGMTVAKALDDVADVVLVEPRDAFVHNVAALRGVVDREWTDRLFYRYDRLLERGRVVHDRAVRVSGTEIALGSGQTIEADYVVLATGSSYPFPAKIDVLDSAAAKDRLHATRDSLERADRVLLLGAGPVGLEFAGEIRAAWPEKAVTIVDPAGDVLPAFPVEFRSELRRQLEVLRIELVMGTSLRDQPPSEPGEHKTFTATTGTGAEITADIWFRCFGVEPATGYLAGDLAAARTAGGHVEVTGDLRLPGQERVFAIGDITALPEAKMAKSAGDHANVVAANIRTLINGGGEALTTYEPAPPMIALPLGPKGGVSYTADTGVLGPDVTSEIKGADLRAGYYAEMLG
>NC_009142.1|WP_044547099.1|469472_470273_+|ATP-binding-protein
MPGKPTTSSRNVAAEIAYLARALKAPSLAGAVERLAERARAEDWSHEEFLAACLQREVAARESHGGEGRIRTARFPSRKSLEEFDFDHQRSLKRDTITHLGTLDFIAGKENVVFLGPPGTGKTHLSIGLGIRACQAGHRVSFATAAGWVARLAEASHAGRLQQELVKLGRIPLLIIDEVGYIPFEAEAANLFFQLVSARYERASLIVTSNKPFGRWGEVFGDDVVAAAMIDRLVHHAEVISLKGDSYRLKDRQDLGRVPAATNTND
>NC_009142.1|WP_143538279.1|466584_467628_-|IS30-family-transposase
MVDVNSPAPKLSALDKQLHPRLLTLAERERIRDLRAEGHSLRDIGSALGRSASTISREIRANSTHGAYRPYAAHRAAAARRPRPKQRKLIAQGPLRQFVADGLRERWSPEQICHALGKEHPGDQRMRVSVETIYQALYFQARGGLKREVQAAIRTGRTRRKPRRNPNQRTARFIDPMVMISDRPAEAADRAVPGHWEGDLIIGAGNQSAIGTLVERTTRYTMLVHLPNGHDAETVRDGLVATITTLPTHLRGSLTWDQGAEMARHKQFTMATDMPVYFCDPASPWQRGTNENTNGLLRQYFPKGTDLSVYGPEDLEHVAQQLNGRPRKTLGWDSPAERLAMLLTKAS
>NC_009142.1|WP_011873047.1|463958_466520_+|ATP-dependent-Clp-protease-ATP-binding-subunit
MFERFTDRARRVVVLAQEEARMLNHNYIGTEHILLGLIHEGEGVAAKALESLGIALEGVRQQVEEIIGQGQQAPSGHIPFTPRAKKVLELSLREALQLGHNYIGTEHILLGLIREGEGVAAQVLVKLGADLNRVRQQVLQLLSGYQGKEPAEAGGRGEGTPSSSLVLDQFGRNLTQSARESKLDPVIGREKEIERIMQVLSRRTKNNPVLIGEAGVGKTAVVEGLAQKVVKGEVPETLKDKQLYTLDLGSLVAGSRYRGDFEERLKKVLKEIKTRGDIILFIDEIHTLVGAGAAEGAIDAASILKPMLARGELQTIGATTLEEYRKYVEKDPALERRFQPIQVGEPSLEHTIEILKGLRDRYEAHHRVSITDGALVSAATLADRYINDRFLPDKAIDLIDEAGARMRIRRMTAPPDLREFDEKIADVRRDKESAIDAQDFERAARLRDEEKQLLGQKDEREKQWKAGDLDVVAEVDDEQIAEVLANWTGIPVFKLTEEETTRLLRMEDELHKRIIGQDDAVKAVSQAIRRTRAGLKDPKRPSGSFIFAGPSGVGKTELSKALAEFLFGDDDALVQIDMGEFHDRYTASRLFGAPPGYVGYEEGGQLTEKVRRKPFSVVLFDEIEKAHQEIYNTLLQVLEDGRLTDGQGRTVDFKNTVLIFTSNLGTQDISKAVGLGFSAGTDSESNYERMKSKVNEEMKKHFRPEFLNRIDDVIVFHQLTEAEIIQMVDLLGARVEKALKGKDMSLELTTLAKKLLAKRGFDPVLGARPLRRTIQREIEDRLSEKILFGEIEPGQIVIVDVEGWDGEGSDDKAHFTFRGETKPSLVPDAPPVDLAGSTGSSTDDKSEGTSDQE
>NC_009142.1|WP_009946416.1|462825_463680_+|ABC-transporter-ATP-binding-protein
MTPGVSTQTTGTAVAEDGRQRLHARDLKLAYGERVVVDGLDVDVVDGTITAVIGPNGCGKSTLLRALGRLLQPQRGSVLLDGKRIHKMATKDVAKVLGLLPQSPQAPEGLTVADLVARGRHPHQSWYRQWSSDDEAAVAEALGMTGIEDLAERTVDELSGGQRQRAWLSMALAQGTDLLLLDEPTTYLDLSHQVDVLDLIGRLHDDSGRTVVMVLHDLNLAARYADRLVAMKDGAIVAEGAPGEVLTEELLAAVFGLKARVIDDPVVGTPMVVPVGGRRTANGR
>NC_009142.1|WP_011873046.1|461743_462829_+|iron-ABC-transporter-permease
MTRTVQAPKVAGRRSVRVGPVSGVLRLRPALVLLAGLVLLLLLFVLNVGLGEYQISPAEVLTTLVGGGDRAEQVIIWELRMPRSLTGLLVGAALGAAGAIMQAIARNPLASPDMLGITWGAGTAATAVIVLGGSVGTVTGALESVGLPLVALAGGLLVGLAVYVLSYRNGVDSYRLVLVGVGMSALAGNATYWLLSVGDVNDAGRAMVWLTGSLNARGWEHVVPVAIVLALLVPLTLVGAHVLGALQFDDDTVRGLGIRMDAARGGLLIAAVLLAAVATAAAGPIQFVALAVPQIALRLARTAMPPLLTSMVLGAALVVGSDLISRTAFGGIEMPVGIVTSVLGAPYLIYLLVRRYREVRA
>NC_009142.1|WP_011873045.1|460676_461747_+|iron-ABC-transporter-permease
MSRSAIVGDPPEAAREPAAGGRLAARRRRRLVGIGVLAVLLLLSCLLSVLLGAKPMSLEAVWSALFAPTGTENDLIVRELRVPRTIVGVLAGVALGLAGALMQGHTRNPIADPGILGITHGAALGIVLSVYVFGITSLFGFIWFGFGGALLGALAVFAIGSIGRGGPTPVTLALAGMAIGYLLQAITSALVLVDQQSLETYRFWKVGSIAVTDTSVIWQVLPFLAVGVVVALANASGLNALSLGEDVARSLGHRVQWSRRLGIAAIAVLVGGAVAICGPIGFVGLIVPHVARFFTGADYRWLLPFAALMGASVVLLADVLGRLVARPAEIQVGVMLAVVGAPFFIGLVRRRKLVRL
>NC_009142.1|WP_009946420.1|459844_460195_+|Lsr2-family-protein
MAQKVTVTLVDDLDGGQADETVEFALDGVSYQIDLSNDNATELRDALANYVSSARRAGGRKKPGPRPGAGRSAGGSTSADREQNQAIREWARKRGLKVSDRGRIPADVVEQYHKAN
>NC_009142.1|WP_009946421.1|458153_459677_+|lysine--tRNA-ligase
MTDQDRSIPTAADAEGVDDLPEQLRVRREKRERMLAGGVDPYPVNLPITHTLAEVRAAHPDLAPDTYTGDQVGVAGRVMFLRNTGKLCFATLRGGDGTELQAMLSLKQVGEDALASWKSDVDLGDHVFVHGEVITSRRGELSVMADEWRLAAKTLRPLPVAHKELGDETRVRQRYVDLIVRKQAADTVRTRATVQRSLRDSFQRRGFIEVETPMLQTLHGGAAARPFVTHSNAFDMELYLRIAPELYLKRCVVGGIEKVFEINRNFRNEGSDSSHSPEFAMLEFYQAYSDYDGMARLTRQLVQEAAEALTGSQVVTWFDGTEYDLSGEWSSVTMYGSLSEALDSEITPETPVEVLRKHADSVGLQTDPAHGHGKLVEELWEHLVGDHLYAPTFVRDFPLETAPLTRQHRSEPGVAEKWDLYTRGFELATGYSELVDPVVERARLEEQARLAASGDEEAMHVDEDFLRALEYGMPPSGGVGMGIDRLLMALTGLGIRETILFPLVRPE
>NC_009142.1|WP_009951579.1|472468_473254_-|DedA-family-protein
METFMPLPATATAEPTGFTGWVIGVMEALGGPGAGLIIALENLFPPIPSELILPLAGFTASRGGMTVGGAIFWTTLGSLLGALALYALGAKLGRQRTHAIAAKMPLVKLEDVDRTEAWFAKHGVKAVFFGRMIPLFRSFISLPAGVDRMPVSTFALFTTLGSLVWNSIFVLAGFYLGENWHLVEQYAGVLSKAVLVAVAAAVVWFVVKRVRQEGRTKHEAEAPTEEFAAVGVGADYLEGATSRIPALEPSEAPTVQFRRVR
>NC_009142.1|WP_044547102.1|473404_476542_+|winged-helix-turn-helix-domain-containing-protein
MRVAVLGPFRLCAADGHPIDVGGARVRMLLARLALDAGRTVATETLIDDLWGANQPSGALNALQSLVSRARRALPDDLVLQSAATGYALKADAADVDAHRFARLAADGRGLLRDGRFAAAARTLREALRLWRGGALVDFVDAPFAAAQAARLEELRLGALEDRIDADLRAGRDGEPVELVELVAELDGLCARHPLRERFTGLRMRALYSAGRQADALGAYEALRRRLADELGVDPSQELRDLHGAVLRGEPREHRDRPPVLPSRLSSFVGREAEIEQVRTAMARSKLVTLFGPGGAGKTRLATETAAGVDDRRVWFVELASVRQGEDLPSAVLASVGVRETRLLDTAPADAMTRLVDGLSGAPALLVLDNCEHVIGAAAQFVQDLLTWCPQLGVLATSREPLALTGEELLPVGPLGLPDGEAPLEADAVRLFADRARSARPGFVLDDATIGDVVEVCRRLDGMPLAIELAAARLRAMSVRQVAARLDDRFRLLTSGNRASLARHRTLRAVVEWSWDLLGEPERLLARRLSVFAGPARAESAAAVCSDARLPAEDVFYVLSSLVEKSFVEAVDGDRYRMLETVRAYCDDRLAESGERDRVRTAHAEHFVELAETASPRLHRVEQVEWLERLDADHDNLMTALRWAISSQNADLGVRMGAALAWYWSMSAHGELASRLEALTPIPGDAPSEGRAVLEFIQAMLCQTTSWTERIGAAAARLRDTGAGRRYLYVTIMEPMAWMFVGDRAEMDAAVRRNLEHPDPWGRAAALFSRAFGAEHGGDAAGGEEHMRAAARAFREQGDRWGIAQSMGSLAGFRSLRGDHAGAIEALEESAETLRELRSDEEVAPTMVRIGMEHVRAGDIAEGRRCLEQADELAAASFAEFARLGSLTALGEAARRAGDVERARAYFAQARELLAGTPMAPPPLHQVALATEARVDIDELRLDDARARLRESLDSSGEIPMMPTIAMIAEQTALLRFAAGDHRQASYLLGVAVALRGMLDEGDPDIRAVLPALDAPDLRSERDRGAALTHEAALAVLREVLGPRG
>NC_009142.1|WP_011873053.1|476901_477138_+|hypothetical-protein
MAAAVVAGAPAFAADAGAAAAAAAQNGNGGDGGNAGNSTNALSCLVEVGVANPNSPGGCNPNSNGGAGGAATAAQQED
>NC_009142.1|WP_009947466.1|477437_478268_-|ABC-transporter-permease
MTTTLEPTPGATSAAPAPAAERVGPLRAVRHGLTLAGRSILKIRKSPAGLLDVTLQPILFLVMFVYLFGGAISGDTGTYLQITLPGVLAMNMVFASLGTGMQLNTDITKGVFDRFRSLPVARSAPLIGAVLGDIVRYVVSIAVLLVFGTIMGFRIQTDAVSALLAVVVVIAFSLAMCWISVFLGMLIRSQQALPGVAMSFMFPLTMGSNVFVPLETMPGWLQAWNGINPVTKLADTARGLMIGGPVAGPLTATLIWMVVLVAVFFPLAMWAYRRRV
>NC_009142.1|WP_009947465.1|478264_479233_-|daunorubicin-resistance-protein-DrrA-family-ABC-transporter-ATP-binding-protein
MSFAIQAEGLVKRFGSTTALAGVDLEVPAGSIRGVLGPNGAGKTTAVRILATLLRPDAGRAVVAGHDVLRHPVAVRNRIGLAGQYASVDEELTGTENLVLIGRLLEMTRRDARARAAELLDRFGLTDAGGRAIKTYSGGMRRRLDLAASLVGRPEVLYLDEPTTGLDPRSRNQVWDMVRALSGEGVTVLLTTQYLEEADQLADRISVIDRGRVVADGRADELKRRTGGQTLQVRPSALADLATVRTILAELTGAQPKVDDDSGLLTAPVDDPVLLSTLVRRLDDAGITADELALRLPSLDEVFLAITGESSDRDDEEEGTAA
>NC_009142.1|WP_009947464.1|479362_480370_+|endonuclease/exonuclease/phosphatase-family-protein
MERTLDDVEADEDREPGRRKSPAVTALLVLAALGFLGWAALPLTGYDSNRYAAALVALTQYAVPVGLLLVVLALVLRRWLTTLVVGLVTAALVASVAPRAIPDPPTPVQGTPLNVMSANLYFGEADAARIVELVRSNDVDVLSLQELTPALAAALDRAGLAQVLPHRVFEAHPGAEGTGIASRYPLRSLALVPPTTMRQPSALVDLPGSRDVEFVAVHPVIPVGSDTVGDWRREITVLPHTPAEGRPPRVLAGDFNATLDHSPLRGLLGRGYADAAEVAGAGLAPTWPRAGAWLPPPVTIDHVLVSEGVVVQDYRTFEVAGADHRAVVAHLVVAG
>NC_009142.1|WP_009947463.1|480441_480948_-|MarR-family-transcriptional-regulator
MERTPDLIDTARSQWREVHPDLDTTSIDVVGRVLRASAVLRQRLDAAFAEEGLNRAEFDLLCALRRSDAPVTPGRLNSLTVSSGAATTKRIQQLAERGLLERAVDARDRRSARIALTEQGREVIDRAFRRNLEAERHLLSGLDPGRRQELVTGLADLLGALEGPGPLG
>NC_009142.1|WP_011873054.1|480995_482618_+|FUSC-family-protein
MPTTVLTRRLGDTFRLRRGGPVVWPATRAFVSVLAPMAVLLQLHRLDLAAGAVFGALTSVYGRSEPYRQQARTLAAVAVTMVLAVAAGDLIAVFGAGHAWHEALALLGTAVVGAVTTAAATAAKVGAPGGLIFAFATGACAHLALEPADLGPHLAVAAASAAFAWAVSTAGAVVSGLGPQRRAVAAALEATAAHLESGGDLATRHRAAVAVETAWNSVALVGRRHRETRAHLDLVRAVETCEALLVESGDADVDALRAAATAVGAGRPLPLSGRSAATVVPPAPQSRWVLVRGVMRAALRPKRHGSSWLLPYAARVGVAALLAGALADLAGIGHAYWAAVSAVSVLQATSTSTSVPRMIQRVLGTVFGVFVGVAVLAAQPGPWVLVAVLAVLQWGAEMTVMANYALGLFFATPVALLVSGLATPAEPAELASNRFWATLLGGAIAVGVAWLAPRGPWLGRVHRALARVRDLSAETPPRPKALRAALVELHDAYDVAQGEVRDAELPTEELLEVSHRAYALADSAPPATGHPTPTPAAPPT
>NC_009142.1|WP_021341537.1|482688_482997_-|antibiotic-biosynthesis-monooxygenase
MAVVKINAIEVPEGKGPELEKRFASRHGSVDSAPGFLGFELLRPVNGENRYFVYTRWETEEDFQNWAQGPAKEAHAGEHKNPVATGSSLLEFEVVQESKPQG
>NC_009142.1|WP_011873055.1|483014_484955_-|ABC-transporter-permease
MKAIRLARLEFLRFRGPVRRWVPLVLILVPLLYGGLYLWSNWDPYGRLGAVPVAVVNNDRPVLHDRELIDAGGQFVGQLKAARTFDWHFTDGADARRGLEQGRYYFTIEVPRDFSAKLASAADAEPKRAELLVTKNDANGFIVGIMADTVKSQLQNQINAAAHASYARALYGELDQAREKLQMASEASKELVKGSELGEQGTAALTKGLSGVRDGAGRISRGVSDISSATAQLDAQIGDLTDVATEKLPDAVGSVVGASGVAVRTLDEISTATAAVRDGSATGVTDLQELARKHPAVGDDPVYRRALDNARRLSATATATSDAAERALGTAQDADSRARALQKEVEPLREQVRESTGPMETLTKGTGELEAGSRGVTSGLSTLVANSGVLQTGADQLNTGAKRIEGLIAGGLDQIPPTNPGRVAQAADVLASPARIETANLNPASVYGRGLAPFFFSIALWVFGLFAYLLLRPLNSRAVAGRVGATTITLAGYLPAAALGVVGGLLLYGAVDLGLGLQPRHMWWTIGLVALAVAAFVAIDHLLRTAFGAVGGLLSLVLLMVQLTACGGLYPVETTPGPFQVIHPYLPMTYLVDGLRVTISGGLTDVLVRSAVMLAGFLVVALAMTTAVVMRQRMWTVGRLHPQVAL

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Crispr_ID: NC_009142_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_3

1314743-1314813

Orphan

Consensus_repeat	Method
CGCGAGCTTCGCCCGCCACCCGC	CRISPRCasFinder

1 spacers

DinG

The CRISPR arrays of NC_009142_3

>merge|NC_009142|3|1314743-1314813|CRISPRCasFinder
CGCGAGCTTCGCCCGCCACCCGCTCGCTCATGCCGCCAGCACTCATCCCGCGAGCTTCGCCCGCCACCCAC

>NC_009142|3|2|1314743-1314813|CRISPRCasFinder
CGCGAGCTTCGCCCGCCACCCGC	TCGCTCATGCCGCCAGCACTCATCC
CGCGAGCTTCGCCCGCCACCCAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_009945471.1\|1324391_1324955_+\|DUF2017-domain-containing-protein	unknown	unknown	gnl\|CDD\|378185
NC_009142.1\|WP_009945472.1\|1324093_1324387_+\|ATP-dependent-Clp-protease-adapter-ClpS	unknown	unknown	gnl\|CDD\|178809
NC_009142.1\|WP_143538290.1\|1313594_1314602_-\|acetyl-CoA-C-acyltransferase	unknown	unknown	gnl\|CDD\|238383
NC_009142.1\|WP_009945476.1\|1320554_1320770_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009945484.1\|1311101_1311914_+\|peptidyl-tRNA-hydrolase	unknown	unknown	gnl\|CDD\|376699
NC_009142.1\|WP_044547799.1\|1318195_1320187_-\|ATP-dependent-DNA-helicase	DinG	COG1199_DinG_CAS-IV-A	gnl\|CDD\|224120
NC_009142.1\|WP_009945473.1\|1322332_1323637_-\|nicotinate-phosphoribosyltransferase	unknown	unknown	gnl\|CDD\|236426
NC_009142.1\|WP_009945486.1\|1307578_1309333_+\|cytochrome-c-oxidase-subunit-I	unknown	unknown	gnl\|CDD\|238832
NC_009142.1\|WP_009945480.1\|1315104_1316592_-\|long-chain-fatty-acid--CoA-ligase	unknown	unknown	gnl\|CDD\|223395
NC_009142.1\|WP_011873280.1\|1309472_1310714_+\|phosphoserine-phosphatase-SerB	unknown	unknown	gnl\|CDD\|319803
NC_009142.1\|WP_011873278.1\|1306553_1307162_-\|DUF305-domain-containing-protein	unknown	unknown	gnl\|CDD\|367619
NC_009142.1\|WP_009945474.1\|1321750_1322323_-\|isochorismatase-family-protein	unknown	unknown	gnl\|CDD\|238493
NC_009142.1\|WP_009945478.1\|1317546_1317966_+\|DUF3052-domain-containing-protein	unknown	unknown	gnl\|CDD\|378615
NC_009142.1\|WP_009945492.1\|1304048_1304294_+\|SAM-dependent-methyltransferase	unknown	unknown	gnl\|CDD\|252734
NC_009142.1\|WP_009945482.1\|1312923_1313598_-\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|213192
NC_009142.1\|WP_009945491.1\|1304372_1305731_+\|acyl-CoA-thioesterase/BAAT-N-terminal-domain-containing-protein	unknown	unknown	gnl\|CDD\|377407
NC_009142.1\|WP_009945483.1\|1312306_1312927_-\|energy-coupling-factor-transporter-transmembrane-protein-EcfT	unknown	unknown	gnl\|CDD\|223692
NC_009142.1\|WP_029621519.1\|1320846_1321653_-\|maleylpyruvate-isomerase-family-mycothiol-dependent-enzyme	unknown	unknown	gnl\|CDD\|371689
NC_009142.1\|WP_009945489.1\|1305736_1306459_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_081468284.1\|1316593_1317289_-\|biotin-transporter-BioY	unknown	unknown	gnl\|CDD\|224187

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_009945471.1\|1324391_1324955_+\|DUF2017-domain-containing-protein	gnl\|CDD\|378185	pfam09438, DUF2017, Domain of unknown function (DUF2017). This is an alpha-helical domain found in gene neighborhoods that contain genes encoding ubiquitin, cysteine synthases and JAB peptidases.	4.04981e-68
NC_009142.1\|WP_143538290.1\|1313594_1314602_-\|acetyl-CoA-C-acyltransferase	gnl\|CDD\|238383	cd00751, thiolase, Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and eukaryotes (cytosol, microbodies and mitochondria). There are 2 functional different classes: thiolase-I (3-ketoacyl-CoA thiolase) and thiolase-II (acetoacetyl-CoA thiolase). Thiolase-I can cleave longer fatty acid molecules and plays an important role in the beta-oxidative degradation of fatty acids. Thiolase-II has a high substrate specificity. Although it can cleave acetoacyl-CoA, its main function is the synthesis of acetoacyl-CoA from two molecules of acetyl-CoA, which gives it importance in several biosynthetic pathways.	1.35517e-117
NC_009142.1\|WP_009945484.1\|1311101_1311914_+\|peptidyl-tRNA-hydrolase	gnl\|CDD\|376699	pfam01981, PTH2, Peptidyl-tRNA hydrolase PTH2. Peptidyl-tRNA hydrolases are enzymes that release tRNAs from peptidyl-tRNA during translation.	6.66049e-12
NC_009142.1\|WP_044547799.1\|1318195_1320187_-\|ATP-dependent-DNA-helicase	gnl\|CDD\|224120	COG1199, DinG, Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair].	6.36766e-144
NC_009142.1\|WP_009945473.1\|1322332_1323637_-\|nicotinate-phosphoribosyltransferase	gnl\|CDD\|236426	PRK09243, PRK09243, nicotinate phosphoribosyltransferase; Validated.	0
NC_009142.1\|WP_009945486.1\|1307578_1309333_+\|cytochrome-c-oxidase-subunit-I	gnl\|CDD\|238832	cd01662, Ubiquinol_Oxidase_I, Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits in ubiquinol oxidase varies from two to five. Subunit I contains a heme-copper binuclear center (the active site where O2 is reduced to water) formed by a high-spin heme and a copper ion. It also contains a low-spin heme, believed to participate in the transfer of electrons from ubiquinol to the binuclear center. For every reduction of an O2 molecule, eight protons are taken from the inside aqueous compartment and four electrons are taken from ubiquinol on the opposite side of the membrane. The four electrons and four of the protons are used in the reduction of O2; the four remaining protons are pumped across the membrane. This charge separation of four charges contributes to the electrochemical gradient used for ATP synthesis. Two proton channels, the D-pathway and K-pathway, leading to the binuclear center have been identified in subunit I. It is generally believed that the channels contain water molecules that act as 'proton wires' to transfer the protons. A well-defined pathway for the transfer of pumped protons beyond the binuclear center has not been identified. Electrons are believed to be transferred directly from ubiquinol (the electron donor) to the low-spin heme, and directly from the low-spin heme to the binuclear center.	0
NC_009142.1\|WP_009945480.1\|1315104_1316592_-\|long-chain-fatty-acid--CoA-ligase	gnl\|CDD\|223395	COG0318, CaiC, Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism].	6.62164e-63
NC_009142.1\|WP_011873280.1\|1309472_1310714_+\|phosphoserine-phosphatase-SerB	gnl\|CDD\|319803	cd07500, HAD_PSP, phosphoserine phosphatase (PSP), similar to Methanococcus Jannaschii PSP and Saccharomyces cerevisiae SER2p. This family includes Methanococcus jannaschii PSP, and Saccharomyces cerevisiae phosphoserine phosphatase SER2p, EC 3.1.3.3, which participates in a pathway whereby serine and glycine are synthesized from the glycolytic intermediate 3-phosphoglycerate; phosphoserine phosphatase catalyzes the hydrolysis of phospho-L-serine to L-serine and inorganic phosphate, the third reaction in this pathway. This family belongs to the haloacid dehalogenase-like (HAD) hydrolases, a large superfamily of diverse enzymes that catalyze carbon or phosphoryl group transfer reactions on a range of substrates, using an active site aspartate in nucleophilic catalysis. Members of this superfamily include 2-L-haloalkanoic acid dehalogenase, azetidine hydrolase, phosphonoacetaldehyde hydrolase, phosphoserine phosphatase, phosphomannomutase, P-type ATPases and many others. HAD hydrolases are found in all three kingdoms of life, and most genomes are predicted to contain multiple HAD-like proteins. Members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. HAD hydrolases are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.	2.77808e-90
NC_009142.1\|WP_011873278.1\|1306553_1307162_-\|DUF305-domain-containing-protein	gnl\|CDD\|367619	pfam03713, DUF305, Domain of unknown function (DUF305). Domain found in small family of bacterial secreted proteins with no known function. Also found in Paramecium bursaria chlorella virus 1. This domain is short and found in one or two copies. The domain has a conserved HH motif that may be functionally important. This domain belongs to the ferritin superfamily. It contains two sequence similar repeats each of which is composed of two alpha helices.	6.12876e-36
NC_009142.1\|WP_009945474.1\|1321750_1322323_-\|isochorismatase-family-protein	gnl\|CDD\|238493	cd01011, nicotinamidase, Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is also called pyrazinamidase, because in converts the tuberculosis drug pyrazinamide (PZA) into its active form pyrazinoic acid (POA).	1.6883e-74
NC_009142.1\|WP_009945478.1\|1317546_1317966_+\|DUF3052-domain-containing-protein	gnl\|CDD\|378615	pfam11253, DUF3052, Protein of unknown function (DUF3052). This family of proteins with unknown function appears to be restricted to Actinobacteria.	9.18096e-50
NC_009142.1\|WP_009945492.1\|1304048_1304294_+\|SAM-dependent-methyltransferase	gnl\|CDD\|252734	pfam04672, Methyltransf_19, S-adenosyl methyltransferase. This family contains a SAM (S-adenosyl methyltransferase) domain, with a central beta sheet with 3 alpha-helices on both sides. Crystal packing analysis of the structure Structure 3giw suggests that a monomer is the solution state oligomeric form. An unidentified ligand (UNL, cyan) was found at the putative active site surrounded by the residues His57, His170, Phe171, Tyr216 and Met22. The UNL is likely to be a phenylalanine or phenylalanine-like molecule. (details derived from TOPSAN).	1.02209e-11
NC_009142.1\|WP_009945482.1\|1312923_1313598_-\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|213192	cd03225, ABC_cobalt_CbiO_domain1, First domain of the ATP-binding cassette component of cobalt transport system. Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.	4.11139e-81
NC_009142.1\|WP_009945491.1\|1304372_1305731_+\|acyl-CoA-thioesterase/BAAT-N-terminal-domain-containing-protein	gnl\|CDD\|377407	pfam04775, Bile_Hydr_Trans, Acyl-CoA thioester hydrolase/BAAT N-terminal region. This family consists of the amino termini of acyl-CoA thioester hydrolase and bile acid-CoA:amino acid N-acetyltransferase (BAAT). This region is not thought to contain the active site of either enzyme. Thioesterase isoforms have been identified in peroxisomes, cytoplasm and mitochondria, where they are thought to have distinct functions in lipid metabolism. For example, in peroxisomes, the hydrolase acts on bile-CoA esters.	5.03945e-33
NC_009142.1\|WP_009945483.1\|1312306_1312927_-\|energy-coupling-factor-transporter-transmembrane-protein-EcfT	gnl\|CDD\|223692	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism].	9.86446e-22
NC_009142.1\|WP_029621519.1\|1320846_1321653_-\|maleylpyruvate-isomerase-family-mycothiol-dependent-enzyme	gnl\|CDD\|371689	pfam11716, MDMPI_N, Mycothiol maleylpyruvate isomerase N-terminal domain.	3.57776e-12
NC_009142.1\|WP_009945472.1\|1324093_1324387_+\|ATP-dependent-Clp-protease-adapter-ClpS	gnl\|CDD\|178809	PRK00033, clpS, ATP-dependent Clp protease adaptor protein ClpS; Reviewed.	4.74051e-39
NC_009142.1\|WP_081468284.1\|1316593_1317289_-\|biotin-transporter-BioY	gnl\|CDD\|224187	COG1268, BioY, Uncharacterized conserved protein [General function prediction only].	2.19488e-38

>NC_009142.1|WP_143538290.1|1313594_1314602_-|acetyl-CoA-C-acyltransferase
MDRRFAIPLDDVVLGNVLGPGGNTARVASLLAGLGHDVPGMTVDRQCASGLSAITTAAALIRAGAGDWYLAGGAESPSTAPWRAWRPRSAAEPPRFYARAPFAPPEIGDPEMGPAADLVAAEAGISRQRQDAFAARSHARAVAAQAEGRFDAEVVDVDGITTDQRPRPNFTPERLARFRPAFTADGTATAANSCGISDGAAAVLMTTEANRRRLGVPGLRLAGWQTSGVDPNRLGLGAVPAMRALLAGHAPEVVEFNEAFAGQALACLDAAGVDDRIASPDGGAIALGHPWGASGAVLVVRLFSRMVRAGGPRTGLAALSSGGGLGVATVWERVD
>NC_009142.1|WP_009945482.1|1312923_1313598_-|ABC-transporter-ATP-binding-protein
MIEFEDVAHAYGERTVLRGIDLKLTEQRVAFVGANGSGKSTLARMINGLVHPERGRVLVDGLDPVRDGRRVRKRVGFVFTHPDSQIVMPTAGEDVAFSLRGQGLPKAERSRRAAEVLARHGLGGYEDHPAHQLSGGQKQLLALCSMLVLDPDVLVCDEPTTLLDLRNKRHFAEVLAGLPQQVVLVTHDLDLLDGFDRVVVLDDGKIVADDLPDAALAHYRALIG
>NC_009142.1|WP_009945483.1|1312306_1312927_-|energy-coupling-factor-transporter-transmembrane-protein-EcfT
MSATASPLGLYEPGSSPLHRLGAGWKFLALLGFAVLVFVLGSPLSLGIATAVAVAGYAVARIPPRRCWQAVRLAVPMLVFVFLLQWWLLGLDNAAVICLRLLAALGAANLFTLTTRVDDLVTAIERGLAPARRIGVRPERVGLLVGLTLQAVAALSTIAAETREAQRARGAGRSVTAFAVPFLVRTLRHADQLGEALAARGVGDED
>NC_009142.1|WP_009945484.1|1311101_1311914_+|peptidyl-tRNA-hydrolase
MFDVAAVLDPLLARYASWLALPGAATADTSDEDPDNVVLMPMVLRIERKEPPRRTALLEAAAAAAIAVCLDERCKPGGEWHEPMREWISGRIRKVARRARGAHWEAVQSLPGITVEVDGAQVRAFLPARVADMPKELTRLQISGSELEADEPDEPIAGLPVLWLNPEVPMSAGKTAAQVGHATMMMAALLRGEGLEAELERWAADGFRCSVREADEETWQLLHPKDDPETAWRERRVTVVRDAGFTEVEPGTVTVLAQWVHDPRRELSGS
>NC_009142.1|WP_011873280.1|1309472_1310714_+|phosphoserine-phosphatase-SerB
MSTPNATTVLITVTGKDKPGVTSVLFAALTRHGVDIVDVEQVVIRGRLVLGVLVATERDPEELQEAVEQAMATIGMTVDIEIGAEDGNATKLGSSHVVVVLGQPVTARQFSSVARGLADIGVNIDSIRRVADYPVTGLELLVSAPEDGDVDTVLTSAMADLSATIGVDVAVERAGLSRRAKRLVVFDVDSTLIQGEVIEMLAAKAGCEQEVREVTEQAMRGEIDFEESLRRRVAVLEGLPESVLGEVAADLELTPGARTTIRTLRRLGYHTGVVSGGFTQIIEQLVDELGLDFAAANELEIVDGKLTGRVLGEIVDRPGKAKALRRFAESFGVPAAQCVAVGDGANDIDMLTAAGLGVAFNAKPALREVADTALSHPFLDAVLFVLGVTRAEVEAADAEDGGIRRVPLETLHA
>NC_009142.1|WP_009945486.1|1307578_1309333_+|cytochrome-c-oxidase-subunit-I
MTAVAPQPIATRPYPVRKTVKGSFLARMFRTTDHKQIGILYLVTSIAFFLVGGLMAMLIRGELAAPGMQFLSQEQYNQLFTMHGTIMLLLYATPILFGFANYILPLQIGSPDVAFPRLNAFGYWLYLFGGLMVVSGFLLPGGAADFGWFAYTPLSDALHSPGHGADMWIAGLAVSGLGTILGAVNMVTTVVCLRAPGMTMWRMPIFTWNILVTSVLILMAFPILTAALFGLMADRHLGAHVFDPANGGVILWQHLFWFFGHPEVYIVALPFFGIVSEIFPVFSRKPLFGYTGLVYATLGIAALSVVVWAHHMYATGAVLLPFFAFTTFLIAVPTGMKFFNWIGTMWKGQLTFESPMIFSVGFLVTFLFGGLTGVLLAMPPVDFHVSDTYFVVAHFHYVLYGTIVFATFAGIYFWFPKMTGRMMDERLGKLHFWLTFIGFHGTFLVQHWLGNEGMPRRYADYLESDGFTLLNTISTVGAFILGASMLPFLWNVFKSYRYGEIVTVDDPWGYGNSLEWATSCPPPRHNFTELPRIRSERPAFELHYPHIVERMRAEGHMTLTGKTIVHHDKKQAVATSEEATSEQK
>NC_009142.1|WP_011873278.1|1306553_1307162_-|DUF305-domain-containing-protein
MRRSTIIGAVLAGGLALAACSPGEEAAPPAPGTPPPATAQEHADHGGNTEHSATDQEFARQFLAHQGQILDLAELASEQSTNAQVKTLAGQIQQAQKPELDAVNNWLESSSGQESGSAPEDNAAEQAPGGTLLSDQRIQQISALQGPEFDKQWAQAMVGLHEAVLGLARTELEEGSAEELRGICERVISSQQAELQQLRNFA
>NC_009142.1|WP_009945489.1|1305736_1306459_+|hypothetical-protein
MIFGAGYAVLVGLLVVANHPLPVDAAGTATCGALGIGLTATAAVAMSAYRRGTRIPLGLLAAATALATGGEVLAPSDEVVIEGIRLSTGPQWLPALAESWPRLLLCAAAFLAATTWGRTWGVAGAVAAGTAACLLYGTAVPGWVLAWGVVGQACTVALAAFLLARWRLVLPLTAVAIGLVAAGVEERLVDVGTPVAMHLVLWPAYLATALVLALLEGVARRLVARVRRDNAPREEALSVA
>NC_009142.1|WP_009945491.1|1304372_1305731_+|acyl-CoA-thioesterase/BAAT-N-terminal-domain-containing-protein
MRRYVFALLTAVLVGGCAGPPPARPVLDTGPDGLLVDEPLRVAVSGLEPGSTATVWARMTDDQGRPWTSWGVFAADGTGRVDLARQAPTGGSYSGTEPEGLLWSMRLPDGAPATDPRPALDSGEVAYTVGVDVAGRTVARDSLVRRLRAPGVRSLPVAEDGLVGDLYLPPGDGPHPGVVLLGGSEGGRPNPRLATLLAGRGFATLGLAYFGVEGLPPALGRIPVEYGTRAVDWLRSRPEVGDGQVGVVGHSKGGEFALLLGSATPHVGAVASVAGSGVVFGGIVAQGGSSQPVSSWTRGGVDVPPLTSGATANPLGPLLPVAHGRPLRFDSTFAGLLDAEPALDRASIPVEDINGEALLVSGQVDELWPSSGLLDVAARRLGDRAEHVVEPGAGHFILDVPNLPTTYTTAFPLVPGLLWTAGGGTPRANAAATADTFRRVVGLFEAELGGQR
>NC_009142.1|WP_009945492.1|1304048_1304294_+|SAM-dependent-methyltransferase
MSARPASLVLAHATVENEDVNVDALVGTYRNTETPFHPRSRRELERLLDGYELEEPGLVYAPERPWENPALSGFHAAVARL
>NC_009142.1|WP_009945480.1|1315104_1316592_-|long-chain-fatty-acid--CoA-ligase
MLLGGYGGEPHPERLPGGRPAGVSHPGGDLTRAELRAQVSRAAHALAAHDGRRIAIEADDALGGLCWFLGAELAGAAALIVEPTWTAREREAVLDDARPAAVVTGAVPTGPVPDVPAVGDADTPFYLPTTSGSSGRPKVLVRSRRSWLDSFAALDLGLRADDVVLIPGPLSSSLFLFGAVHTLHGGAGLRLLERWSVTEAAEACRTATVVHLVPSMIASLLPHLDPADCALRLVVCGGAKADPALRRRLEATLPDCELVAYYGSAEHSFVAVDRGDGLRPVVEVEIRGGDVGRDGHEVGGGDEVGDGVRDGDEIRDGNAARDGNEIRDGHAVRDGELWTRSGLVFDGYLDRGAVTWPADWHDGWSSVGDRAVLHDDGTLEILGRSSAVLNSGGRIVSAEEVEEVLRGAEGVRDVLVAATPHPRLGDLITAVVEVGPAASPLAALRERARTALEPAKRPRRWLATAELPRTAAGKPARALVAERLRDGTLAAETLA
>NC_009142.1|WP_081468284.1|1316593_1317289_-|biotin-transporter-BioY
MPGRLSSLRASRNPLQRAAQVNHESWRSAPEDPEGANVPGTRNPAPAANLARTVVFAAFIAVLGIFPGLYIGGAAVPIVLQNMGPLLAGSILGARRGGAAVLLFVALVALGLPLLSGGRGGIAPFAGPSGGFVLGWIASAVVVGLIVQRAMPRPGLVTLLVANVAGVAVDYLVGIPYWGAFTGDIGSAAVQSLVFLPGDAVKLVAVSLVAVAVHRAVPTLSAPRSTATTGS
>NC_009142.1|WP_009945478.1|1317546_1317966_+|DUF3052-domain-containing-protein
MTAKQDQQIEPAVRLGFEPGQVVLEIGFDDDADPALRAAIEEVTGQDVVLDETEDTADAAVLWFREDDGDLVEALVDARSQLGEAAFVWVLTPADGRAGYVEPADIGESAVVAGLVHDQTTSPVDGWTGSRLVAPPSRW
>NC_009142.1|WP_044547799.1|1318195_1320187_-|ATP-dependent-DNA-helicase
MEIAVAAVGGTERTGQSQMAEAVEHSIRSGEHLAVQAGTGTGKSLAYLVPAIRHAVAEETTVIVSTATIALQRQLVDRDLPRLATALTDALGRAPKFAILKGRRNYLCLNRVDGGAPEEPDEGALFDPFAASALERQVKRLREWSSETETGDRDELVPGVTDQAWRQVSVTAKECLGAHRCPVGTDCFAERARAEAGRADVVVTNHALLAIDALDDRPILPEHDVVMVDEAHDLVDRVTSAATGELTAGSVKLAARRCGRAIDQEIADRLDEAGEGLDAVLQDAQPRRLEELPRDLGGALAATRDAAAACVTALGPERKEDVEGSTARKLALALTEDVHDTAVRVLEAFDEEDDRRRDVVWVAADPNRPPTVRVAPLGVGGLLRERLFGQRTTVLTSATLALGGSFDTLARQWGLPPEQRARKAEGAATDKEVPSDDGGPKWTGLDVGSPFEHQRSGILYIARHLPQPGRDGLPPQYLDELTELVRAAGGRTLGLFSSMRAARQASEELRQRLDTPVLCQGEDSTALLVTKFADDPRTSLFGTLSLWQGVDVPGQSLQLVVMDRIPFPRPDDPLASARQKAVSEHGGNGFLTIAGTHAALLLAQGAGRLLRSIDDRGVIAVLDPRLATARYGGFLRASLPPFWTTHDPEVVRGALRRLDAAAS
>NC_009142.1|WP_009945476.1|1320554_1320770_+|hypothetical-protein
MLVVTGPSGNVGSELVEELRAMPATRRPSPQTPRLGRTVRYTCPGLLRFALRLRRRGVGFGVPRRHGVALR
>NC_009142.1|WP_029621519.1|1320846_1321653_-|maleylpyruvate-isomerase-family-mycothiol-dependent-enzyme
MLGKMSSPTTADMADAVSRSAERFVRLVRSAPDPDLPIPATPGWSLTDVVGHLAMEPPRYEDLARGGDDWLRTAAELPAYNARQLRELPTRDLHELTALLRRGVDSLLATVLEFGADQPDMRFDGGTKLPADRALGTLIAEYLVHGWDIATAMGRRWPIDAADVSRVMEALVHIAPGWVDPDDTHTANYELRLRGQRRYYFEFRSGALTVTTTPPDRVDLRISADPESFLLVNYGRRSPVRESLSWRIVAWGRKPWLATAFNRRFLNP
>NC_009142.1|WP_009945474.1|1321750_1322323_-|isochorismatase-family-protein
MAKALIVVDVQNDFCEGGALAVAGGAAVAAAISRYAVQSGHDHIVATRDYHIDPGAHFSEEPDFVRSWPVHCVAGTPGAAFHPDLEVGPVEAVFSKGQYSDGYSGFEGTDHQDRALVEWLRERGVDQVDVVGIATDHCVRATALDAVEAGIATTVLLDLTAGVSRPTVDAAMEDLRAAGVRLVGEPVVAA
>NC_009142.1|WP_009945473.1|1322332_1323637_-|nicotinate-phosphoribosyltransferase
MTAASTLAASTALLTDQYELTMLASALRDGSADRQCAFEVFTRRLPDGRRYGVVGGLDRVLEAIENFRFGEAELEQLASAGVVGDSTLEWLADYRFRGDVDGYPEGEVYFPGSPLLSVRGTFAEAVVLETVVLSILNHDSAIAAAAARMASAANGRRLIEMGSRRTHEESAVASARVAYLAGFTATSNLEAGRRYGIPTAGTAAHAFTLLHDTERAAFESQVAMLGAGTTLLVDTYDITNGIALAIDVAGIGLGAIRIDSGDVGVLARQAREQLDSLGAFETKIVVSGDLDEHAIAALRAEPVDGYGVGTALVTGSGAPTSEMVYKLVEVDGRPVAKRSTHKTSRGGRKIAVRRHKPTGTAVEEAVYPAAAGPELGAHDRFLQIPLLRSGKRVDDLPSLEDNRQRLKDALVSLPWEGLKLSHGEPAIPTVFPEQ
>NC_009142.1|WP_009945472.1|1324093_1324387_+|ATP-dependent-Clp-protease-adapter-ClpS
MTSPTELERAQLDPGELGTEDKPWVTVVWNDPVNLMSYVTYVLQKIFGYSKDHATKLMLDVHHKGRAAVSSGSKEKVEGDVAKLHAAGLWATMQKDS
>NC_009142.1|WP_009945471.1|1324391_1324955_+|DUF2017-domain-containing-protein
MNGWTRKNGHVVAEFSQQEAAVVRGLVGQIKDMLTARADEAPQDELSELTGIRTGPTTPPQDRVLGRLLPDFYRHDPETGESDAEDADAAGAMRSLHEPELLDRKTGVAELVLETCPRDGGRVELTGEQADGWLAALNDVRLALGTALDVDDDMPDELPEDDLRREHLGVYQWLTWVQDSLVDAVMS

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Crispr_ID: NC_009142_4

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_4

1858868-1858959

Orphan

Consensus_repeat	Method
TCGGCATCGGATCGCGATCAGCG	CRISPRCasFinder

1 spacers

DEDDh

The CRISPR arrays of NC_009142_4

>merge|NC_009142|4|1858868-1858959|CRISPRCasFinder
TCGGCATCGGATCGCGATCAGCGTTGGTGGGACGCTCGGCGCCGGATCGCGATCACGTTGGTGGGCCGCTCGGCATCGGATCGCGATCACCG

>NC_009142|4|3|1858868-1858959|CRISPRCasFinder
TCGGCATCGGATCGCGATCAGCG	TTGGTGGGACGCTCGGCGCCGGATCGCGATCACGTTGGTGGGCCGC
TCGGCATCGGATCGCGATCACCG

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_011873434.1\|1863644_1865453_-\|long-chain-fatty-acid--CoA-ligase	unknown	unknown	gnl\|CDD\|223953
NC_009142.1\|WP_011873435.1\|1868753_1869155_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_029621440.1\|1851195_1851624_-\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_011873432.1\|1856998_1858717_-\|DEDD-exonuclease-domain-containing-protein	DEDDh	cd06127_DEDDh_CAS-I	gnl\|CDD\|236123
NC_009142.1\|WP_011873436.1\|1869148_1870102_+\|ROK-family-glucokinase	unknown	unknown	gnl\|CDD\|273246
NC_009142.1\|WP_009943854.1\|1856125_1856914_-\|maleylpyruvate-isomerase-family-mycothiol-dependent-enzyme	unknown	unknown	gnl\|CDD\|274422
NC_009142.1\|WP_011873429.1\|1849611_1850667_-\|anthranilate-phosphoribosyltransferase	unknown	unknown	gnl\|CDD\|234682
NC_009142.1\|WP_009943845.1\|1867545_1868748_+\|ArsA-family-ATPase	unknown	unknown	gnl\|CDD\|349755
NC_009142.1\|WP_011873433.1\|1861159_1862134_+\|C40-family-peptidase	unknown	unknown	gnl\|CDD\|366353
NC_009142.1\|WP_009943861.1\|1850686_1851097_-\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009943855.1\|1854345_1856004_+\|cytochrome-bc-complex-cytochrome-b-subunit	unknown	unknown	gnl\|CDD\|379304
NC_009142.1\|WP_009943850.1\|1862292_1863579_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|367948
NC_009142.1\|WP_009943856.1\|1853218_1854349_+\|Rieske-2Fe-2S-domain-containing-protein	unknown	unknown	gnl\|CDD\|239550
NC_009142.1\|WP_009943848.1\|1865759_1866158_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009943853.1\|1859231_1860518_+\|NYN-domain-containing-protein	unknown	unknown	gnl\|CDD\|377585
NC_009142.1\|WP_009943846.1\|1867082_1867526_+\|SRPBCC-family-protein	unknown	unknown	gnl\|CDD\|176861
NC_009142.1\|WP_009943857.1\|1852415_1853222_+\|c-type-cytochrome	unknown	unknown	gnl\|CDD\|224921
NC_009142.1\|WP_081468251.1\|1851739_1852351_+\|heme-copper-oxidase-subunit-III	unknown	unknown	gnl\|CDD\|224758
NC_009142.1\|WP_009943847.1\|1866183_1866972_+\|metallophosphoesterase-family-protein	unknown	unknown	gnl\|CDD\|225040
NC_009142.1\|WP_009943865.1\|1849161_1849446_+\|Lrp/AsnC-ligand-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|366431

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_011873434.1\|1863644_1865453_-\|long-chain-fatty-acid--CoA-ligase	gnl\|CDD\|223953	COG1022, FAA1, Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism].	0
NC_009142.1\|WP_009943846.1\|1867082_1867526_+\|SRPBCC-family-protein	gnl\|CDD\|176861	cd07819, SRPBCC_2, Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins. Uncharacterized group of the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain superfamily. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands. SRPBCC domains include the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domains of mammalian STARD1-STARD15, the C-terminal catalytic domains of the alpha oxygenase subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases (RHOs_alpha_C), Class I and II phosphatidylinositol transfer proteins (PITPs), Bet v 1 (the major pollen allergen of white birch, Betula verrucosa), CoxG, CalC, and related proteins. Other members of the superfamily include PYR/PYL/RCAR plant proteins, the aromatase/cyclase (ARO/CYC) domains of proteins such as Streptomyces glaucescens tetracenomycin, and the SRPBCC domains of Streptococcus mutans Smu.440 and related proteins.	1.88014e-52
NC_009142.1\|WP_011873432.1\|1856998_1858717_-\|DEDD-exonuclease-domain-containing-protein	gnl\|CDD\|236123	PRK07883, PRK07883, DEDD exonuclease domain-containing protein.	0
NC_009142.1\|WP_011873436.1\|1869148_1870102_+\|ROK-family-glucokinase	gnl\|CDD\|273246	TIGR00744, Glucokinase_Glucose_kinase., ROK family protein (putative glucokinase). This model models one branch of the ROK superfamily of proteins. The three members of the seed alignment for this model all have experimental evidence for activity as glucokinase, but the set of related proteins is crowded with paralogs of different or unknown function. Proteins scoring above the trusted_cutoff will show strong similarity to at least one known glucokinase and may be designated as putative glucokinases. However, definitive identification of glucokinases should be done only with extreme caution. [Unknown function, General].	1.36866e-73
NC_009142.1\|WP_009943850.1\|1862292_1863579_+\|hypothetical-protein	gnl\|CDD\|367948	pfam04450, BSP, Peptidase of plants and bacteria. These basic secretory proteins (BSPs) are believed to be part of the plants defense mechanism against pathogens.	0.00194184
NC_009142.1\|WP_011873429.1\|1849611_1850667_-\|anthranilate-phosphoribosyltransferase	gnl\|CDD\|234682	PRK00188, trpD, anthranilate phosphoribosyltransferase; Provisional.	9.52569e-165
NC_009142.1\|WP_009943845.1\|1867545_1868748_+\|ArsA-family-ATPase	gnl\|CDD\|349755	cd02035, ArsA, Arsenical pump-driving ATPase ArsA. ArsA ATPase functions as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes, respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.	2.85688e-76
NC_009142.1\|WP_011873433.1\|1861159_1862134_+\|C40-family-peptidase	gnl\|CDD\|366353	pfam00877, NLPC_P60, NlpC/P60 family. The function of this domain is unknown. It is found in several lipoproteins.	1.35557e-29
NC_009142.1\|WP_009943855.1\|1854345_1856004_+\|cytochrome-bc-complex-cytochrome-b-subunit	gnl\|CDD\|379304	pfam13631, Cytochrom_B_N_2, Cytochrome b(N-terminal)/b6/petB.	4.19931e-74
NC_009142.1\|WP_009943854.1\|1856125_1856914_-\|maleylpyruvate-isomerase-family-mycothiol-dependent-enzyme	gnl\|CDD\|274422	TIGR03083, TIGR03083, uncharacterized Actinobacterial protein TIGR03083. This protein family pulls together several groups of proteins, each very different from the others. They share in common three conserved regions. The first is a region of about 38 amino acids, nearly always at the N-terminus of a protein. This region has a bulky hydrophobic residue, usually Trp, at position 29, and a His residue at position 37 that is invariant, so far, in over 150 instances. The second conserved region has a motif [DE]xxxHxxD. The third conserved region contains a hydrophobic patch and a well-conserved Arg residue. Most examples are found in the Actinobacteria, including the genera Mycobacterium, Corynebacterium, Streptomyces, Nocardia, Frankia, etc. The pattern of near-invariant residues against a backdrop of extreme sequence divergence suggests enzymatic activity and conservation of active site residues.	2.34254e-18
NC_009142.1\|WP_009943856.1\|1853218_1854349_+\|Rieske-2Fe-2S-domain-containing-protein	gnl\|CDD\|239550	cd03467, Rieske, Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes. The Rieske domain can be divided into two subdomains, with an incomplete six-stranded, antiparallel beta-barrel at one end, and an iron-sulfur cluster binding subdomain at the other. The Rieske iron-sulfur center contains a [2Fe-2S] cluster, which is involved in electron transfer, and is liganded to two histidine and two cysteine residues present in conserved sequences called Rieske motifs. In RO systems, the N-terminal Rieske domain of the alpha subunit acts as an electron shuttle that accepts electrons from a reductase or ferredoxin component and transfers them to the mononuclear iron in the alpha subunit C-terminal domain to be used for catalysis.	7.08512e-21
NC_009142.1\|WP_009943853.1\|1859231_1860518_+\|NYN-domain-containing-protein	gnl\|CDD\|377585	pfam05991, NYN_YacP, YacP-like NYN domain. This family consists of bacterial proteins related to YacP. This family is uncharacterized functionally, but it has been suggested that these proteins are nucleases due to them containing a NYN domain. NYN (for N4BP1, YacP-like Nuclease) domains were discovered by Anantharaman and Aravind. Based on gene neighborhoods it was suggested that the bacterial YacP proteins interact with the Ribonuclease III and TrmH methylase in a processome complex that catalyzes the maturation of rRNA and tRNA.	1.11457e-18
NC_009142.1\|WP_009943857.1\|1852415_1853222_+\|c-type-cytochrome	gnl\|CDD\|224921	COG2010, CccA, Cytochrome c, mono- and diheme variants [Energy production and conversion].	1.49887e-13
NC_009142.1\|WP_081468251.1\|1851739_1852351_+\|heme-copper-oxidase-subunit-III	gnl\|CDD\|224758	COG1845, CyoC, Heme/copper-type cytochrome/quinol oxidase, subunit 3 [Energy production and conversion].	1.3574e-57
NC_009142.1\|WP_009943847.1\|1866183_1866972_+\|metallophosphoesterase-family-protein	gnl\|CDD\|225040	COG2129, COG2129, Predicted phosphoesterases, related to the Icc protein [General function prediction only].	3.45359e-14
NC_009142.1\|WP_009943865.1\|1849161_1849446_+\|Lrp/AsnC-ligand-binding-domain-containing-protein	gnl\|CDD\|366431	pfam01037, AsnC_trans_reg, Lrp/AsnC ligand binding domain. The l-leucine-responsive regulatory protein (Lrp/AsnC) family is a family of similar bacterial transcription regulatory proteins. The family is named after two E. coli proteins involved in regulating amino acid metabolism. This entry corresponds to the usually C-terminal regulatory ligand binding domain. Structurally this domain has a dimeric alpha/beta barrel fold.	1.59831e-09

>NC_009142.1|WP_011873432.1|1856998_1858717_-|DEDD-exonuclease-domain-containing-protein
MTAHAQLSFDEIVPEVEVPLNEVTFVVVDLETTGGSNAQDAVTEIGAVKVRGGEVVGEFQTLVDPERDIPPSVVTITGITEAMVRDAPRLDSVLPAFLEFCRGSVLVAHNAPFDTGFLRAGCERLGLRWPKPKVVCTVRLARRVLTRDETPNYRLGTLAGVLGARTEPVHRALDDARATVDVLHALLERLGPIGVRTLEDLLGHLPDVTPLQRRKRGLADALPNASGVYLFRGPNEEVLYVGTATDLRRRVRQYFTAGEKRSRIKEMVGLAERIDHVVCAHPLEAEVRELRLLAAHQPRYNRRSKFPQRAWWVVLTDEPFPRLSVVRTPRPTALGPFASRRAAAEAVDALQEATKVRRCTERIPARDPRGRPCALYELQRCAAPCAGLQSAEDYAPEVIAISDVVAGLGTGVLHRLRAELERLSRAQRFEDAAVHRDRLAALVRSLDRGQRLSALAAVPELVAARPDGRGGWHLAVVRHGRLAAAGTARRGVPPMPVVDLLQASAETVTEGAGPLRGASPDEVRVVHRWLTTGGTRMVRCSQPWVEPARGAGAWHTWLERAVSGRTPYAAVD
>NC_009142.1|WP_009943854.1|1856125_1856914_-|maleylpyruvate-isomerase-family-mycothiol-dependent-enzyme
MTTIVRAHDVARTDHDHAADLLRPEVDAMRDLLGALTPEEWRRPTECTGWTVHDVVAHLVGNAENALDTELLAQRVREGTTRYAGRPRLDAMNEVAVDAWRDRPDDELLAEFDRLWPQVLQALPEMPEQARELRFDTGYPDVPPVSLGYVVDVILTRDMWMHRVDICRATGRTFAMHHHDRGVAEQVLRDLDDEWAGPPFVLELSGLVNGDWRIGDDAPEATVEGDAMEVMRGLSGRTSPDLTVMQGDSGVADPVRAARVLF
>NC_009142.1|WP_009943855.1|1854345_1856004_+|cytochrome-bc-complex-cytochrome-b-subunit
MSSITTPTKSESAVYKKAATAADELDQRFRFAKGMRRQLNKVFPTHWSFLLGEIALYSFVLLLLTGVWLTLFFDPSMEEVVYDGVYRNLQGVEMSKAFASTLDISFEVRGGLFIRQLHHWAALIFVASMMAHMARIFFTGAFRKPRESNWTIGALLLILGMFEGFFGYSLPDDLLSGTGIRATLSGIVLSIPLLGTWLHWALFGGEFPGMEIIPRLYVLHVLLIPGIMLGLIAAHLALVWYQKHTQFPGVRRKETNVVGIRIMPTFAVKGGSLFAVVTGVLAIMSGLFQINPIWNLGPYNASQVSAASQPDWYLAWADGILRVWPAWELYLGPYTVPPVFFAGAIGMGILFTVLIAYPAIERKLSKDDAHHNLLQRPRDVPVRTSLGMMALSFFMVLMISGNNDVIAFQFNISLNAMTWFGRLGLLLLPPIAYWVTYRICLGLQRADREVLEHGVETGIIKRLPHGEFIEIHQPLGPVDEHGHPEELPYQGAPVPKKMNKLGAAGHPVPGSLLKPDPQEETEALERALHEDAEREREEREQRELISGKPKVD
>NC_009142.1|WP_009943856.1|1853218_1854349_+|Rieske-2Fe-2S-domain-containing-protein
MSEQQKREYTEAELAEMSRDEKVRLGVELDDVELVEYRDRWPVKNTRAERRAERAVAAWFMLAGLSALAFLAAFIFWPWGYADPLTQPREYFIYSLYTPLVGTFLGLSVLAVGFGAVLYAKKFIPHEVAVQQRHDGHPSEEIDRQTAAALLADAGDRSGIARRSMIKRTAGFGAGALGLGAGVVAIGGFVRNPWANEGPDSLQHTPWMSENGEKVYLRRSTGNSHDISLVRPEDIDAGGFETVYPFRESERHDEHALSAAFRKGDAPVMLIRLRPGSAPIKRKGQEDFNYGDYYAYSKICTHVGCPTSLFEQQTGRLLCPCHQSQFDVVNTYAKPVFGPATRSLPQLPITVDEEGYFVAKHDFIEPVGPAYWERKA
>NC_009142.1|WP_009943857.1|1852415_1853222_+|c-type-cytochrome
MTTIKKRNRAGSKLRRRISGALALGIALISAGGLYTVLTPEPQTAHAAADPALVRQGEQLYSNACISCHGSNLQGVQDRGPSLVGVGEAAVHFQVATGRMPMVRQEAQAMRKPPKFSPEEIDALAAYVQTYGGGPESPKQTGEQLWGANPARGGELFRLNCASCHNFTGRGIAMSSGKYAPNLHEATEQDIYNAMLTGPQNMPKFSDRQLTPEEKKDIIAYVKSVSNGNNNPGGNDLGGYGPASEMVIAWVVGIGALIGITLWIGARA
>NC_009142.1|WP_081468251.1|1851739_1852351_+|heme-copper-oxidase-subunit-III
MRRVTTAAPSISQRVHSLNRPNMVSVGTIVWLASELMFFAGLFAMFFTVKAQNEGEWPPPPTHLNLPYALPFTIILVASSFTCQWGVFAAERGDVYGLRRWYVITLIMGTVFVLGQAGEYYQLITEHHTTIASSAYGTVFYMTTGFHGLHVIGGLIAFVFLIVRTRLSKFTPAQAIAAIVVSYYWHFVDIVWIGLFAVIYLVP
>NC_009142.1|WP_029621440.1|1851195_1851624_-|hypothetical-protein
MSGRFRARKQPVISIDDPGLRVVVSAFDEAEAASSALGRSAQWRADEPAVLRHHLVVPEHEVATAQELLAPDGWTLRTGGEVAEQGEHFDAEGPGTVVALRVQVLDALHCSQESSRMAGLAQRLGGRALGWDALQPAPPEAG
>NC_009142.1|WP_009943861.1|1850686_1851097_-|hypothetical-protein
MNAPTTTVLVFSHKPEVREAIITAIGRRPAPDLPRVHYIEAGTVADVLSEADAGTADLVILDGEAQPTGGMGVSRQLKNEIEPCPPIIVAVRRKDDRWLATWSQADAVIVHPLDPISAAETVAEVLRTHARPPARA
>NC_009142.1|WP_011873429.1|1849611_1850667_-|anthranilate-phosphoribosyltransferase
MGTMAGSWAALLGHLVAGNDLSAEDTAWAMDLVMTGEATPARVAAFVVALRAKGETPAEVRGMADAMLSHSRPLEIRRRAVDIVGTGGDRSGSVNISTMASIVVAAAGVPVVKHGNRAASSKCGTADVLEALGVAIDLPPEGVRRCVEDLGIGFCFAPVFHPAMRHAAGPRREIGIPTAFNVLGPLTNPARPSAGLIGCGDQRMAPVMAEVFAARGGSVLLVRGDDGMDEITTTTTTTVWVVQGGTVTEESIDPAEFGIGYSTPAELQGGDAEVNAEVVRRLVAGEAGPVRDAVLLNAAGALAAFEGPGTDLRGRLGADVERVAAAIDSGAAADLLDRWAKRSTEIMRESE
>NC_009142.1|WP_009943865.1|1849161_1849446_+|Lrp/AsnC-ligand-binding-domain-containing-protein
MITAIVLIQTAAERLTEAAQEIADLEGVAEVYSCAGDVDLIAVLRVSDHEKVADIVPGRINKVTGVLDTDTHIAFRSYSRQDTEAGFSLGMEDE
>NC_009142.1|WP_009943853.1|1859231_1860518_+|NYN-domain-containing-protein
MRVDWDGLAGPLRSRLAELAADALGEMRAADVPAQLRPVVRFAPAKRAKLGQAALIAALRDSAVFRTAVVDWCRGERPEALSLTDDDPVVVAAAAVLQESPVAAHYVELVALRTEQGQLRGERDSAATRAEKLAAEAERLRAELAEAKVAVERACGQNSAEADRLRKRLREQGVRLKEAKDDAEAARADLERVREDADAAIAEIAAERDRELARAREERLRADRAAADAETARHSAREARQGDEVRLALLLETLDGALGGLRRELGATGSGPRPADVVQRVRSHSGATGQVQDVAALDRLLALPAVHLIVDGYNVTKTGYPELPLADQRDRLAHQLAALAARTGAEVTLVFDGADVLAVPAAGPRGVRVLFSEPGVQADDVIRDLVAAEPQGRQLVVATSDRAVVESVRRRGAYAVPSAILLSRLHRV
>NC_009142.1|WP_011873433.1|1861159_1862134_+|C40-family-peptidase
MSTAPAMADPPLPDNASDAAKQVRELTHQAERLTEEKKKAEEDHEAKKAELGRANAEAAQAEQVANQARAEEERFRGQVDRLTNASYQGARLNKLSALLVSESPDDFLDRASALDVLAKDNNDAVKRLSAAVDQAEAAESRAHDARNRAVQAEVDAGRLAGDLARKETEMRSAIDKAEQRYNQLSGEDQESLKGDGETSYNGPIDGAGAAAAAVRAALSKTGSPYVYGAKGPSNFDCSGLMQWAYKQAGVSIGGSTGTQKTEGRSVSASDLRAGDLIFYYDSQSHVSMYIGNGKAVHAPTTGDVVKVADYKSIGDVNGIRRVVG
>NC_009142.1|WP_009943850.1|1862292_1863579_+|hypothetical-protein
MAAAAAAAVVSGLSVLALPGDGSPPRPGPERLAGRPPKAPADSRTAAVSALLEERAAALRARDELAFLSSVDPKAPTDFHDRQRALFHNLADVPLARWSYHLDAADVLPSAPLPPVPGDEVWAPRVSLEYALQAVDTVPTRRTMGYLFVRRGDSWYLTSDDALETRGRTTWRGPWDFAPCRTATTAAGLVVGHDDNRELVERVAGMLDESADRVSRVWGTDWARRVAVLLPSTGDELRSLVGAEFAVDGIAAVAVADGVDTSARRVEGPRIVLNPMTAAGLSDTALGVVLRHEITHVAARADTADGAPMWMLEGFADYVGYRDSGIAPEHVAPELARQVRGGGPPADLPSDRDFHLAGRRLDLAYQQAWSVVGYLAGRVGEQRLVLLYRRVAGSSSPGAVDVALREVAGMSTAQLLAGWREHLVRTFG
>NC_009142.1|WP_011873434.1|1863644_1865453_-|long-chain-fatty-acid--CoA-ligase
MREFSVPATTTVADDENLTDMVWANAERFGGTVSFRRRVDGTWIDVTAADFAAQVLAVSKGLIAAGLQRGDRVALMSKTRYEWTLLDFAIWAAGCATVPIYETSSADQVEWILTDSGAKAVVLETAAHRAEVDSVVDRLSEVGHVWQIDGPTDGGAAGAVDELTALGSDIDDREAHQRRREVGADELATLIYTSGTTGRPKGCELTHRNLLAEARAEIHAFPQLMQPGNSMLMFLPLAHVLARAVAIGCIYGRTTLGHTGDVKDLISDLGSFRPTFVLAVPRVFEKVYNTAKQKAHAEGKGRIFDLAEETAVAHSKAHDDGGAGIGLRLKHLVFDKLVYGKLRAALGGRCIAAVSGGAPLGERLAHFYRGIGVAVLEGYGLTETTAAATVNVENAFKIGTVGRPVAGTTVRIAEDGEILIKGDVVFRSYWNNPTATEESLEDGWFHTGDLGSLDDEGFLRITGRKKEIIVTAGGKNVAPAVLEDHLRAHPLISQCMVVGDKKPFIGALVTIDPEFLPSWLANHGRKETTTAAELVDDPELRAEVQKAIDEANKAVSRAEQIKQFRILPEDFTEATGELTPSMKLKRNKVAENHARTIESIYA
>NC_009142.1|WP_009943848.1|1865759_1866158_+|hypothetical-protein
MGMPAIDVSDEVFIAATPGAVAERFADPAQHRRYWPDLVLRVDEARGAKGVRWSVAGPLTGTMEVWLEPVLDGTVLHYFLRADLPAGVRRSAAAEARRRRLAARAVAFALKDQLESGRAPGCPPALVSDQVH
>NC_009142.1|WP_009943847.1|1866183_1866972_+|metallophosphoesterase-family-protein
MRVHVVSDVHGNVEDLKRAGDGADALVVLGDLIDFVDYHDHDKGILGAVFGPEKVARFAELRRGHRGKEISAYARSLWESLSDPAKVVEDAVRDQYSELFGAMTAPTYATPGNVDAPRLWPEFEREGIHVLDGRSALIGGLRFGFIGGTLLPEGAVLRKHAPWVPYLRPEQEYDDALAALDPVDVLCSHLPPAVPELLYDVVARRPEHGSAALLRRIRTDTPRWSLFGHVHQPLAQRVRIGRTECVNVGHFKRTGRPYVLEW
>NC_009142.1|WP_009943846.1|1867082_1867526_+|SRPBCC-family-protein
MVDQSTQSIVIEAPAAEIMAVISDFAAYPEWAAAVKETEVLSTTTGGRAEKVRFVLDAGVVKDTYVNVYDWAEDGLSVSWTLSEGQVQKAQRGSYRLDPQGDSRTEVTYSLAVDLAIPMIGMFKRKAEKMIMDTALKELKRRVETSR
>NC_009142.1|WP_009943845.1|1867545_1868748_+|ArsA-family-ATPase
MRILLFTGKGGVGKTTLAAATAARLAARGERVLAVSTDPAHSLADALGVPLGPEPREIPLGMHAAEVQTRGLVDKNWAELREHLRTMLLAAGIAELEAEELTLLPGVEDLLALAEVHRLAASGLWDAVIVDCGPTAETLRLLALPESVSGYLERLFPAHRRVVRGMLAGMAGSENVQRWDAAAEALSRLAERLTALREMLADPGTGVRLVLTPESVVAAETRRTLTALALQRIRVDGLVANRLVPNPGAARGEAANWMRTRRREQEAVLDSVRAATDVPLRTVEHRAAEPVGVEALRELADELYGGSDPLAAGEDIPDMQVTGGGRALDSEYSLRIALPLHEDAELDLARIADEIAVTVDGRRRLIALPAVLRRCVVTSAVAGDDGLTIGFRPDPDQWMR
>NC_009142.1|WP_011873435.1|1868753_1869155_+|hypothetical-protein
MAEEPGRDQVAEELRLLLDGLAVRAEDYLRGVGESGVPCEGGCGWCPVCAVVAIARGERPELTAKLADLVHALREALAEHSGHPSPGPATEAATGTAPEPGGEPEAAATKVQRIDVRRVGGRVFSENGAGSGC
>NC_009142.1|WP_011873436.1|1869148_1870102_+|ROK-family-glucokinase
MLTVGVDVGGTSVRASVVDPRGAVLDTLRVPTPDTGEELDSAIADVVRGLALRHPVAAVGLAVAGFVSEDRRVVRFAPHLAWRHVAVADRIAARVELPVVLEHDANAAAIAEQRFGAAAGARVAALVALGTGIGGALVIDGEVFRGAYGVAPELGHLRLVPDGRPCPCGKRGCWERYCSGTALVSTVRELQERGDGTAGPLLDESTPLTGVRVARAAEEGDPLARRAMRELARWLGEGLALVADVYDPEVVVIAGGVSGSAHLFLGEARKHYAKALTGAGHRPLARIAVAKRGDDAGMVGAATLAREHVVAHQVTGR

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Crispr_ID: NC_009142_5

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_5

1893387-1893527

Orphan

Consensus_repeat	Method
CGCACCGGCTGCGGTGAGTGCGCGG	CRISPRCasFinder

2 spacers

WYL

The CRISPR arrays of NC_009142_5

>merge|NC_009142|5|1893387-1893527|CRISPRCasFinder
CGCACCGGCTGCGGTGAGTGCGCGGCGTGCGGTGCGGCTGACGTCGCACCGCTGGCCGTGAGTGCGCGGTGCGCCGATGGCGTCGCACCGGCTGCGGTGAATGCGCGGGGTACGGCGCCAGCGGCGGCCGTGAGTGCGCGG

>NC_009142|5|4|1893387-1893527|CRISPRCasFinder
CGCACCGGCTGCGGTGAGTGCGCGG	CGTGCGGTGCGGCTGACGT
CGCACCGCTGGCCGTGAGTGCGCGG	TGCGCCGATGGCGTCGCACCGGCTGCGGTGAATGCGCGGGGTACGGC
GCCAGCGGCGGCCGTGAGTGCGCGG

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_009943816.1\|1891618_1893295_+\|DUF885-domain-containing-protein	unknown	unknown	gnl\|CDD\|377577
NC_009142.1\|WP_009943822.1\|1888016_1888466_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|319805
NC_009142.1\|WP_009943825.1\|1884293_1885760_-\|phytoene-desaturase	unknown	unknown	gnl\|CDD\|274273
NC_009142.1\|WP_009943810.1\|1899651_1900779_-\|PLP-dependent-cysteine-synthase-family-protein	unknown	unknown	gnl\|CDD\|223110
NC_009142.1\|WP_009943808.1\|1901586_1902765_-\|FAD-dependent-monooxygenase	unknown	unknown	gnl\|CDD\|169028
NC_009142.1\|WP_011873451.1\|1908124_1908619_-\|DUF3291-domain-containing-protein	unknown	unknown	gnl\|CDD\|378694
NC_009142.1\|WP_009943815.1\|1893626_1894202_-\|GNAT-family-N-acetyltransferase	unknown	unknown	gnl\|CDD\|223532
NC_009142.1\|WP_009943806.1\|1902761_1903352_-\|TetR/AcrR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224228
NC_009142.1\|WP_173401304.1\|1882885_1883251_+\|DNA-binding-protein	unknown	unknown	gnl\|CDD\|375793
NC_009142.1\|WP_009943812.1\|1896742_1897945_-\|phosphodiester-glycosidase-family-protein	unknown	unknown	gnl\|CDD\|378342
NC_009142.1\|WP_011873442.1\|1887066_1887951_+\|methylenetetrahydrofolate-reductase-[NAD(P)H]	unknown	unknown	gnl\|CDD\|273212
NC_009142.1\|WP_011873441.1\|1885759_1886836_-\|polyprenyl-synthetase-family-protein	unknown	unknown	gnl\|CDD\|173833
NC_009142.1\|WP_143538094.1\|1883654_1884269_+\|VanZ-family-protein	unknown	unknown	gnl\|CDD\|377417
NC_009142.1\|WP_029621438.1\|1888642_1889680_-\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_011873445.1\|1890843_1891503_-\|DUF3153-domain-containing-protein	unknown	unknown	gnl\|CDD\|371485
NC_009142.1\|WP_011873448.1\|1901022_1901418_-\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009943814.1\|1894509_1894962_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|376149
NC_009142.1\|WP_009943811.1\|1898401_1899652_-\|MFS-transporter	unknown	unknown	gnl\|CDD\|340887
NC_009142.1\|WP_009943804.1\|1903527_1908090_-\|ATP-dependent-helicase	unknown	unknown	gnl\|CDD\|137505
NC_009142.1\|WP_009943819.1\|1889802_1890801_+\|WYL-domain-containing-protein	WYL	COG2378_WYL_CAS-I:CAS-III	gnl\|CDD\|225253

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_009943816.1\|1891618_1893295_+\|DUF885-domain-containing-protein	gnl\|CDD\|377577	pfam05960, DUF885, Bacterial protein of unknown function (DUF885). This family consists of several hypothetical bacterial proteins several of which are putative membrane proteins.	0
NC_009142.1\|WP_009943822.1\|1888016_1888466_+\|hypothetical-protein	gnl\|CDD\|319805	cd07502, HAD_PNKP-C, C-terminal phosphatase domain of T4 polynucleotide kinase/phosphatase (PNKP) and related phosphatases. This family includes the C-terminal domain of the bifunctional enzyme T4 polynucleotide kinase/phosphatase, PNKP. The PNKP phosphatase domain can catalyze the hydrolytic removal of the 3'-phosphoryl of DNA, RNA and deoxynucleoside 3'-monophosphates. This family belongs to the haloacid dehalogenase-like (HAD) hydrolases, a large superfamily of diverse enzymes that catalyze carbon or phosphoryl group transfer reactions on a range of substrates, using an active site aspartate in nucleophilic catalysis. Members of this superfamily include 2-L-haloalkanoic acid dehalogenase, azetidine hydrolase, phosphonoacetaldehyde hydrolase, phosphoserine phosphatase, phosphomannomutase, P-type ATPases and many others. HAD hydrolases are found in all three kingdoms of life, and most genomes are predicted to contain multiple HAD-like proteins. Members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. HAD hydrolases are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.	4.46828e-29
NC_009142.1\|WP_009943825.1\|1884293_1885760_-\|phytoene-desaturase	gnl\|CDD\|274273	TIGR02734, Phytoene_desaturase_lycopene-forming, phytoene desaturase. Phytoene is converted to lycopene by desaturation at four (two symmetrical pairs of) sites. This is achieved by two enzymes (crtP and crtQ) in cyanobacteria (Gloeobacter being an exception) and plants, but by a single enzyme in most other bacteria and in fungi. This single enzyme is called the bacterial-type phytoene desaturase, or CrtI. Most members of this family, part of the larger pfam01593, which also contains amino oxidases, are CrtI itself; it is likely that all members act on either phytoene or on related compounds such as dehydrosqualene, for carotenoid biosynthesis. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other].	0
NC_009142.1\|WP_009943810.1\|1899651_1900779_-\|PLP-dependent-cysteine-synthase-family-protein	gnl\|CDD\|223110	COG0031, CysK, Cysteine synthase [Amino acid transport and metabolism].	4.47687e-103
NC_009142.1\|WP_009943808.1\|1901586_1902765_-\|FAD-dependent-monooxygenase	gnl\|CDD\|169028	PRK07588, PRK07588, FAD-binding domain.	1.02157e-104
NC_009142.1\|WP_011873451.1\|1908124_1908619_-\|DUF3291-domain-containing-protein	gnl\|CDD\|378694	pfam11695, DUF3291, Domain of unknown function (DUF3291). This bacterial family of proteins has no known function.	2.35554e-76
NC_009142.1\|WP_009943815.1\|1893626_1894202_-\|GNAT-family-N-acetyltransferase	gnl\|CDD\|223532	COG0456, RimI, Acetyltransferases [General function prediction only].	8.01426e-07
NC_009142.1\|WP_009943806.1\|1902761_1903352_-\|TetR/AcrR-family-transcriptional-regulator	gnl\|CDD\|224228	COG1309, AcrR, Transcriptional regulator [Transcription].	3.62547e-10
NC_009142.1\|WP_173401304.1\|1882885_1883251_+\|DNA-binding-protein	gnl\|CDD\|375793	pfam18367, Rv2175c_C, Rv2175c C-terminal domain of unknown function. This is the C-terminal domain of unknown function found in actinomycetes such as M. tuberculosis Rv2175c. Rv2175c has a DNA binding activity and possesses a winged helix-turn-helix fold, furthermore it is identified as a substrate of the PknL kinase.	1.93213e-29
NC_009142.1\|WP_009943812.1\|1896742_1897945_-\|phosphodiester-glycosidase-family-protein	gnl\|CDD\|378342	pfam09992, NAGPA, Phosphodiester glycosidase. This is a family conserved from bacteria to humans. The structure of a member from Bacteroides has been crystallized and modelled onto the luminal region of the human member of the family, the transmembrane glycoprotein N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase. There is some conservation of potentially functional residues, implying that in the bacterial members this family acts in some way as a phosphodiester glycosidase. The human protein is also present, so the eukaryotic members are likely to be catalyzing the second step in the formation of the mannose 6-phosphate targeting signal on lysosomal enzyme oligosaccharides.	2.3603e-30
NC_009142.1\|WP_011873442.1\|1887066_1887951_+\|methylenetetrahydrofolate-reductase-[NAD(P)H]	gnl\|CDD\|273212	TIGR00676, 510-methylenetetrahydrofolate_reductase., 5,10-methylenetetrahydrofolate reductase, prokaryotic form. The enzyme activities methylenetetrahydrofolate reductase (EC 1.5.1.20) and 5,10-methylenetetrahydrofolate reductase (FADH) (EC 1.7.99.5) differ in that 1.5.1.20 (assigned in many eukaryotes) is defined to use NADP+ as an acceptor, while 1.7.99.5 (assigned in many bacteria) is flexible with respect to the acceptor; both convert 5-methyltetrahydrofolate to 5,10-methylenetetrahydrofolate. From a larger set of proteins assigned as 1.5.1.20 and 1.7.99.5, this model describes the subset of proteins found in bacteria, and currently designated 1.7.99.5. This protein is an FAD-containing flavoprotein. [Amino acid biosynthesis, Aspartate family].	4.3003e-118
NC_009142.1\|WP_011873441.1\|1885759_1886836_-\|polyprenyl-synthetase-family-protein	gnl\|CDD\|173833	cd00685, Trans_IPPS_HT, Trans-Isoprenyl Diphosphate Synthases, head-to-tail. These trans-Isoprenyl Diphosphate Synthases (Trans_IPPS) catalyze head-to-tail (HT) (1'-4) condensation reactions. This CD includes all-trans (E)-isoprenyl diphosphate synthases which synthesize various chain length (C10, C15, C20, C25, C30, C35, C40, C45, and C50) linear isoprenyl diphosphates from precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). They catalyze the successive 1'-4 condensation of the 5-carbon IPP to allylic substrates geranyl-, farnesyl-, or geranylgeranyl-diphosphate. Isoprenoid chain elongation reactions proceed via electrophilic alkylations in which a new carbon-carbon single bond is generated through interaction between a highly reactive electron-deficient allylic carbocation and an electron-rich carbon-carbon double bond. The catalytic site consists of a large central cavity formed by mostly antiparallel alpha helices with two aspartate-rich regions (DDXX(XX)D) located on opposite walls. These residues mediate binding of prenyl phosphates via bridging Mg2+ ions, inducing proposed conformational changes that close the active site to solvent, protecting and stabilizing reactive carbocation intermediates. Farnesyl diphosphate synthases produce the precursors of steroids, cholesterol, sesquiterpenes, farnsylated proteins, heme, and vitamin K12; and geranylgeranyl diphosphate and longer chain synthases produce the precursors of carotenoids, retinoids, diterpenes, geranylgeranylated chlorophylls, ubiquinone, and archaeal ether linked lipids. Isoprenyl diphosphate synthases are widely distributed among archaea, bacteria, and eukareya.	2.58002e-70
NC_009142.1\|WP_143538094.1\|1883654_1884269_+\|VanZ-family-protein	gnl\|CDD\|377417	pfam04892, VanZ, VanZ like family. This family contains several examples of the VanZ protein, but also contains examples of phosphotransbutyrylases.	9.87624e-14
NC_009142.1\|WP_011873445.1\|1890843_1891503_-\|DUF3153-domain-containing-protein	gnl\|CDD\|371485	pfam11353, DUF3153, Protein of unknown function (DUF3153). This family of proteins with unknown function appear to be restricted to Cyanobacteria. Some members are annotated as membrane proteins however this cannot be confirmed.	6.07192e-41
NC_009142.1\|WP_009943814.1\|1894509_1894962_+\|hypothetical-protein	gnl\|CDD\|376149	pfam18726, HEPN_SAV_6107, SAV_6107-like HEPN. SAV_6107-like HEPN.	7.2803e-23
NC_009142.1\|WP_009943811.1\|1898401_1899652_-\|MFS-transporter	gnl\|CDD\|340887	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily. This family is composed of Escherichia coli MdtH and similar multidrug resistance (MDR) transporters from bacteria and archaea, many of which remain uncharacterized. MDR transporters are drug/H+ antiporters (DHA) that mediate the efflux of a variety of drugs and toxic compounds, and confer resistance to these compounds. MdtH confers resistance to norfloxacin and enoxacin. MdtH-like MDR transporters belong to the Major Facilitator Superfamily (MFS) of membrane transport proteins, which are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	2.19908e-59
NC_009142.1\|WP_009943804.1\|1903527_1908090_-\|ATP-dependent-helicase	gnl\|CDD\|137505	PRK09751, PRK09751, putative ATP-dependent helicase Lhr; Provisional.	0
NC_009142.1\|WP_009943819.1\|1889802_1890801_+\|WYL-domain-containing-protein	gnl\|CDD\|225253	COG2378, COG2378, Predicted transcriptional regulator [Transcription].	4.64425e-40

>NC_009142.1|WP_009943816.1|1891618_1893295_+|DUF885-domain-containing-protein
MGSNHNGVHEISDRFVDELAALDPIAGTYLGIPGGDDKLTDYSPQGHQARAELAQRCLAEVSAATPADEGERIAQAVFAERVGLDLELHDVGADMAALNVIASPVQDLRQVFDLMPTSTAEDWRTIAKRLAAMPGAVDGLRAGLSEAAARGNVAAARQVNKVAEQCETWSGRDGESFFAAMVSRAEVDQALRADLDSAAGAAAEAYAGLARFLRTELLPEAPEKDAVGEERYRLWSRYFTGARLDLREAYEWGWGEFSSIEAEMKQVADRIKPGATLAEAAALLDAEPRYQVRGRREFENWMQQLSDEALRELRGKHFDIPDRLMTLECKIAPPGGGVGAYYTGPTDDFSRPGRMWWSVPADREEFPTWREVSTVYHEGVPGHHLQVATSVHESGRLNKFQRLACFVSGHGEGWALYAERLMRELGYLDDDGNLLGMLNDQLFRAARVVVDIGMHLELEIPAGTGFHEGERWTPELGLEFLLTRTIQDPAHVRDEVDRYLGWPGQAPSYKLGERLWLAAREDARKRHGDAFSLKDFHRDALRMGAMGLDTLREQLARL
>NC_009142.1|WP_011873445.1|1890843_1891503_-|DUF3153-domain-containing-protein
MRAALLLVIGLSAVLLSGCLHARASLSIDNEDLVSGELLVSTQTPDGQVPFRLEPPPDLADRVSVEPYSADGRVGSHLSFQGLTFEELDRLAKALNPSDSRYRLQLKRSGSLVILDGAVDLTPLSGTDSAFTVELSAPGEITNTNGQETAGMVTWHPEAGELNELSATYQYSGDQDQAWLTWALLIGGVALGAAVLVGVLAQQSHERAHRPNDERRTSR
>NC_009142.1|WP_009943819.1|1889802_1890801_+|WYL-domain-containing-protein
MPETSARLLLLLSLLQARREWPTDELAARLEVSRRTVRRDVDRLRDLGYPVHVTRGPGAAYRLDAGSRLPPLLFDDEQAVAVAVALRTAPTTVSGIDEAAARALATIRQVMPARLRHAIDAMRVTPLANPWELAAPRVDSGLLLSLGTAVRGGEVLAFDYLDHSGPGEERQPSRRVEPHHLVIWSGRWYLVGWDQGLPGWAAFRVDRVSAPTATGRRFARRELPGGDVAAFVTSQFDRGDVPGHWPCRGEVVLDAPAEVVARWAPGGPVVEALGPDRCRLVLGAWSWIGLAALVGTFAADIEVIGPPELVAACAELSHRYAAAAGFPAPQGG
>NC_009142.1|WP_029621438.1|1888642_1889680_-|hypothetical-protein
MPPVAVHFNGGVNLPDTTTVLRTLAERVPRGLRRLPDGETGERAQWIGYQRPRLEATPGLELVAGEPGAEGPYGGGPTLRVSDATDPDRIAWPEIGYASEYRASYATFRELRAEGVVPADVRFQVEYPTPQAVSQLFHPADRPRITPSYERALLADLDRILAAVPHRDLAVQWDAAVETVTADLAPETLDEHSGQLAGLVDRVPGDVHAGVHLCYGDAGHEHMVEPESLATQVRLANAVVRRARRPLDWLSFTVPQYRADEAYFAPLADLRTGPGTELFFALVPYHPEEQAAGTTEAQVALVDRYLPGGSGPWGICTECGMARADRADVPRLLDLHREILAQHSA
>NC_009142.1|WP_009943822.1|1888016_1888466_+|hypothetical-protein
MVNVSRPAVIADMDGTLVDVSGIRHHVTGPERDFAAFHAASIDCPPNPGVVAEVREHAALGRDVVVVTSRSRRWERLTSMWLALHDVPTDALFMRRDGDYRPDVEVKRDILAGIRRRWDVRHAIDDNPAVIALWREAAIPVSVVPGWPG
>NC_009142.1|WP_011873442.1|1887066_1887951_+|methylenetetrahydrofolate-reductase-[NAD(P)H]
MTAVVDRLAGGRTGFSVEFFPPRDDEEERILWRAVRELEPLDPAFVSVTYGAGGSSRDRTIRTTGRIAQETTLTPVAHLTAVNHSVAELRNVIGWYAAVGVCNVLAIRGDPPGDPNGEWVTHPEGLTYAEELVRLVRELGDFCVGVAAFPHGHPRSTCLDTDVEHLVRKIQTGAEFAVAQLFLEPEHFLRLRDRMSERGCDVPLLPGIMPITTPRVLRKFGELSGAPVPPAVLERLEPLADDAAAFRAEGVVLATELCERLIAEGVPALHFYTLNRSKATREVVSNLGLLPARA
>NC_009142.1|WP_011873441.1|1885759_1886836_-|polyprenyl-synthetase-family-protein
MEADLPGRVQETLADYLRTRRTQSRELDAAFATAVDELVRFVLGGGKRIRPTFAWWGWRAAGGAADGPQAQAMLRAASSLELLQACALVHDDLIDDSDTRRGNPTVHQAFAALHRHQRWNGEDRQFGMAAAILLGDLALAWADDMLHASGLPPEAMARGLRPWRAMRTEVLAGQYLDLLGPVRGDETPQAALRIDELKSASYTVQRPLELGAELAGADETALEALRRFGSDIGVAFQLRDDLLGVFGDPEVTGKPAGDDLREGKRTLLIAEALESAQGQGDQDALDLLRGVLGDENLDEKRVEQSREALRRLGAVDAVERRITELTGTAMAALHGAGLAEPAASRLAELAVAVTDRNR
>NC_009142.1|WP_009943825.1|1884293_1885760_-|phytoene-desaturase
MRRVSGPVDHVLVVGAGLAGLSAALYLAGAGRRVTVVERESTPGGRAGTLRVDGYRIDTGPTVLTMPDLVDDALAAVGSSLRERLDLVPLRPAYRARFADGSALDVHTDAEAMEAEVRRFAGAAEAAGYRRLRRWLTEVYRAEMRRFIDANFDSPLDLVSPELARLTALGGFGRLGPAIGRYLHDERLRRVFSFQALYAGLDPRRALALYSVISYMDTVNGVWFPRGGMHAVPAAMADAAREVGADFRYDTEITGLERRGDRITAATTAAGERISADAVVMTPDLPVTYRLLGAAPRRRLRWSPSALVLHAGTTRSWPGTAHHTISFGAAWDRTFTEIIRDGTLMSDPSLLVTRPTATDASLAPPGRELHYVLAPCPNLAAGRIDWERIGPAYTDELFAVLERRGFTGFADSVEVRRLVTPLDWAAQGHAAGTPFSAAHTFAQTGPFRPRNLVRGLDNVVLAGSGTTPGVGVPPVLISGRLAAHRITG
>NC_009142.1|WP_143538094.1|1883654_1884269_+|VanZ-family-protein
MRQFDAAFGGVIHTTLFMFPLAVVVAVVAVLVRCRWLRVQHAIRISVVDVALVYSTLFVVHLVVIPQPVVVENAVRLVPGTDLGVAVHAEPGDIAPWLQLLGNLLLLLPLGALLPLRLAAVDSCAKAALVVLATTCCIELVQYAVLTGRVVSADDVLLNTAGGLAGALLSRRWWADFRVPQPRPEAARARAAALRPQYARPHGG
>NC_009142.1|WP_173401304.1|1882885_1883251_+|DNA-binding-protein
MSAIPAAPDVLAPDVEVIPLPDVAERLGQPVTRVHQLIRDGHLLAVRRDGVLGVPTAFLAGDAVVKGLGGTITLLKDNGYNADEILSWLFTADDSLPGTPIDALRGDRGREVKRRAQAMGF
>NC_009142.1|WP_009943815.1|1893626_1894202_-|GNAT-family-N-acetyltransferase
MTAAPSPRHDRVAELSADQLRQRLGEAIEIYVNAMGYPPSTAQQRAPMWSAHMLRPGWRCVGAFNERDELVGIGYGYLGNSGQWWHEQVRRGLLAKHDDEAVETWLHDYFELTELHVRPDSQGGGLGEEVLRRLLDGAPGGKVLLSTPEGPTRAWRLYRRVGFQDVLRDYHFTGDPRPFAVLGRPLPLDPR
>NC_009142.1|WP_009943814.1|1894509_1894962_+|hypothetical-protein
MSLSAHLSIPAPRRSPDDHWPAPAPAAQAPAGSLSLLVQARACLLEAERTEKPAERYIAAHIAALRAATAVVVARSWQRERSRPTSVWRLLTDAAPELRDWAGFYAAKSDRRAAAEAGIPGITAGDADELLRRSEEFLDIVARSLSGVIR
>NC_009142.1|WP_009943812.1|1896742_1897945_-|phosphodiester-glycosidase-family-protein
MVCGLALVQSSTAAAAPEPLASDVLFSGEEQVAPGVTFRSFTWETGHGSTQGYVLEADLANPLVDLGLLHRKTVTEPTAISALADGQGAVAGVNGDFFNNTDEHEGVEPTGSAVGAEIAAGEARKGAVPDGQRFGPGLPEGTSTEDVFGLGSDRTARVASVRLEGKIETGHGVLGVDGLNQYAIPVGGVGVFTEAWGTTSRVRATCGTDTDRGAPCSDTTIEIVVRDGKVAEVRPEPGAGAIAAGDFVLVGREDGVGELDDLKPGDPVSVDYQLAPVGVPEFRFVVGGFPILRDGTALPGLDDQALAPRTSAGASADGKRVYLVAMDGRSQVSAGLTVSELADLLKRSGADDAVNLDGGGSTTLVAREAGAQHVTVRNNPSDGRERPVANGIGIFSGGGR
>NC_009142.1|WP_009943811.1|1898401_1899652_-|MFS-transporter
MRLLTRFRSFPAPVRMLMLNQLTINLGFYMLIPYLAAYLAGDLGLAVWVVGLVLGVRNFAQQGMFLIGGTLADRFGYKPLIVAGCALRTGGFALIGLVDSLPALLVASAATGFAGALFNPAVRAYLSAEAGDRRVEAFALFNVFYQTGILLGPLAGLALTGVAFEITCLAAAGIFLVLTVLQIRSLPQRTGAPARGRTSVLAEWRTMLGNGPFVLFSLVMTGSYVLNYQIYLALPLEARRLAGDERTATAAVAVLFAVSGVLAIAGQVRITAWCQEKFSPGTCLAGGLALMGLSFLPLLAGAAQPGQSTVATFGPLVLSAAMLSLGTLVVFPFEMDTIVRLSGERLVASYYGLYNTVCGVGIMLGNLLTGSALDVARGAGLPWLPWSALCALGLVCGGLLWRLHRSRRWNAQLAAV
>NC_009142.1|WP_009943810.1|1899651_1900779_-|PLP-dependent-cysteine-synthase-family-protein
METLTPHAQIPSQTGLSPAQLTAAAAPCRRPAAAVGGTPVLWIDQPFNRSGSGFWAKLEGFNPGGMKDRPALHMVEAARARGELAPGGTIIESTSGTLGLGLALAGATYGHPVTLVTDPGMEPIMRTLLAAYGATVDVVTEPHPTGGWQEARRERVRALLASNDGSFCPDQYNNPDNVAGYRSLALELVAQLGRIDVLVCSVGTGGHSAGVSRTLREYFPHLKLVGVDTTGSTIFGQPARKRLMRGLGSSIHPSNVDHQAFDEVHWVGAAEAVWAARRLAAAHCTSGGWSVGAVALVAGWLARTEPSEARIAAVFPDGPERYFDTVYNDGYCREHGLLLDTAPVEPERIADPFSVKVERWTRCRTVLDPIRFGRS
>NC_009142.1|WP_011873448.1|1901022_1901418_-|hypothetical-protein
MRATGSTARNRSAIRLFVVLSFLGSFLAAHVTFGEPHEAVAAPAQNVSTHCAPQHEHDPHVHTAHGEICFASSRDLQHAELPAPVWSPAVEAVAADDLRVHDAGCTRESPVPVSQSRSGRALLTRVCITRV
>NC_009142.1|WP_009943808.1|1901586_1902765_-|FAD-dependent-monooxygenase
MKAVICGAGIAGLALANRLHAHGWDVVVLEKAPGPRETGYMIDFFGPGYDAAEAMGLLPRLRELGYRVEEVSYVDETGRRRAGLSTSKLTKAVGGRLLSIMRPDLERALREQLPDQVDLRFATAPEHIDNDSDRVRVTLPDGSVLDADLLVGADGIHSSVRAAVFGAEERFLRYLGFHTAAFLFDDPRVHAEVNGRFCLTDTLGRQLACYGLRDGRVAVFAVHRAADPALPDDARAALRDVYGSLGWVAPRALAACPPSDQVYYDQVAQIESPQWTKGRVVLLGDACQAVSLLAGQGASLAIAGAYVLAEQLARAGTIDAALGEYERLWRPVVAEKQRVARSSARWFVPDTRTQLAVRRTALRLAGLPVFDRYLSGALAGKPTNVVRQLGAR
>NC_009142.1|WP_009943806.1|1902761_1903352_-|TetR/AcrR-family-transcriptional-regulator
MVNTAAERGREVRRRLTGAAVELIAEKGWTGVHTRVVAERAGVAPGLVHYHFASLQALLTEAAVGVLREAVAGMGPLFDAATTPDDLLDAILGTLERYASDDPASLLVSEAYLAATRDPELKRAVAEVVDDFRRDLTDWLRARGEATPRETAMVLAAAVDGVVLHQALSGDLTAATARPVLRRMFRSAHPPEEGQP
>NC_009142.1|WP_009943804.1|1903527_1908090_-|ATP-dependent-helicase
MTDVLDRFSPATRDWFRGAFDAPTEAQSGAWEAIADGEHALVIAPTGSGKTLAAFLSALDRLAAEGPPGDPKQRCRVLYVSPLKALAVDVERNLRAPLAGIRQATQRLGGEPPDITVGMRTGDTPADQRRSFARTPPDVLVTTPESLFLLLTSAARESLRGVETVIVDEVHAVAGTKRGAHLALSLERLDELLPRPAQRIGLSATVRPVDEVRAFLAGGRPVRTVQPANVKQVEVRVEVPVPDLAELGGADDDQHPSIWPSVQTRVLELIRQHRSTIVFTNSRRLAERLTAGINELAAEEAEEEDEPMQRFPAEAVGGSGITRGSAATVAKAHHGSMSKEQRAVVEEELKSGRLPCVVATSSLELGIDMGAVDLVVQVETPPSVASGLQRIGRGGHHVGAVSRGVVFPKFRGDLVGCAVTAERMADGLIEALSFPRNPLDVLAQHVVSMVAMDTWSLERLATVVRRSASFAGLPDSALHAVLDMLAGRYPSEEFGELRARIVWDRINDELRARPGAQRLAVTSGGTIPDRGLFAVTTPGDDAAGKGGVRVGELDEEMVYESRVGDTFLLGTSSWRVEDITHDRVVVTPAPGEPARMPFWKGDSPGRPLELGRALGAFVRELTAAGPEAARSRISEAGLDQWAGDNLLSYLDEQRRATRHVPDDRTILVERFRDELGDWRMVVHSPFGAKVNGPWALAIGARLRERRGIDPQVASSDDGIVVRLADALDDAGTEILPAAEDVLLAPDEVQQVVTDEVGGSALFAARFRECAARALLLPRRDPRRRSPLWQQRQRAAQLLSVAAQYEQFPIVLEAMRECLQDVYDVPGLTELMSQVAARKVRVVEVETPTPSPFARSLLFGYIGMFLYETDAPLAERRSAALSLDSTLLAELLGSEALRELLDPEVVAEVESQLQRLAPERHARDSEGAIDLLSFLGDLSTAEAAERGVRPEWLEDLHAQRRVLRVRIAGEERWIPIEDAGKVRDALGVALPVGVPEAFTEPVADPLADLVIRYARSRGPFTADAAAHRFGLGVAVMHGVLDRLTGSGRLIRGELRPLEAGGGRSLEYCDAEVLRRMRRASLARLRAEVEPVEPAALGRFLPSWHGIGARLRTAPTVDDVFSVVEQLAGAPVPASALESLVLPARLPGYSPALLDELTSTGEVVWVGSGSLAGGDGWIALAPADVADLLLPDVPEERPDSPLHRAIVSTLEGGAQFYRQLADRAGAILLEQGEAAPDDQAVTAALWDLVWGGSATNDTLAPLRALVSGRGATHKPRRSAPRGRYARLRAGRPAMPSRTGPPAVSGRWSLAPPPSSEPTRRAHARAEAFLERHGVLTRGALDTERVTGGFSAVYKVLRAMEESGRCRRGYVVEGLGAAQFAVPGAIDRLRASSRTERPDEDPQAVVLAAADPAQPYGAALEWPAAVSDTRHRPGRKAGALVVLVAGSAALYVERGGKSLLSFTEDEDVLRLAAAGLARAVREGWLDQLAVQRADGEGALGSRMAEILTEAGFRATPKGLRLRA
>NC_009142.1|WP_011873451.1|1908124_1908619_-|DUF3291-domain-containing-protein
MTDHHLAQVNIALPVAPMDSAELAGFVAALEPVNAAADAAPGFVWRLQTEDGDATAVRGFGDDRIIVNMSVWESVEALADYVYRDPEHVAVLRRRREWFPKMAEAHTVLWWVPAGHRPTVAEAEQRLALLRANGPSPAAFTFREPFPAPGGAQVSADDDWMCPA

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Crispr_ID: NC_009142_6

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_6

2049617-2049716

Orphan

Consensus_repeat	Method
CGCCACACCGCATCCGCCCGCCACGC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_009142_6

>merge|NC_009142|6|2049617-2049716|CRISPRCasFinder
CGCCACACCGCATCCGCCCGCCACGCCGCATCCGCCCGCCACACGGCGGTCGACCCGGTATGCGGCGGCCGACCCGCCACACCGCATCCGCCCGCGACGC

>NC_009142|6|5|2049617-2049716|CRISPRCasFinder
CGCCACACCGCATCCGCCCGCCACGC	CGCATCCGCCCGCCACACGGCGGTCGACCCGGTATGCGGCGGCCGACC
CGCCACACCGCATCCGCCCGCGACGC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_009942645.1\|2055492_2056275_+\|VOC-family-protein	unknown	unknown	gnl\|CDD\|319911
NC_009142.1\|WP_009942655.1\|2046419_2047448_+\|cell-division-protein-ZapE	unknown	unknown	gnl\|CDD\|281902
NC_009142.1\|WP_009942650.1\|2051162_2052203_+\|lactonase-family-protein	unknown	unknown	gnl\|CDD\|378416
NC_009142.1\|WP_009942661.1\|2043550_2043847_-\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_011873491.1\|2045632_2046367_-\|pyrimidine-reductase-family-protein	unknown	unknown	gnl\|CDD\|184482
NC_009142.1\|WP_009942648.1\|2052660_2053323_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|198062
NC_009142.1\|WP_011873490.1\|2042984_2043167_-\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009942647.1\|2053401_2055165_-\|serine/threonine-protein-kinase	unknown	unknown	gnl\|CDD\|270916
NC_009142.1\|WP_009942644.1\|2056532_2057996_+\|sugar-ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|224053
NC_009142.1\|WP_009942640.1\|2060134_2061319_-\|antibiotic-resistance-macrolide-glycosyltransferase	unknown	unknown	gnl\|CDD\|273616
NC_009142.1\|WP_143538097.1\|2052379_2052616_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009942641.1\|2059039_2060047_+\|substrate-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|380663
NC_009142.1\|WP_009942643.1\|2057988_2058984_+\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|224093
NC_009142.1\|WP_009942660.1\|2043883_2044399_-\|Asp23/Gls24-family-envelope-stress-response-protein	unknown	unknown	gnl\|CDD\|377129
NC_009142.1\|WP_011873493.1\|2049741_2051001_-\|ornithine--oxo-acid-transaminase	unknown	unknown	gnl\|CDD\|234848
NC_009142.1\|WP_009942663.1\|2043293_2043551_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|367272
NC_009142.1\|WP_011873492.1\|2047693_2048926_+\|FAD-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|235729
NC_009142.1\|WP_009942653.1\|2048922_2049552_-\|TetR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|132427
NC_009142.1\|WP_009942658.1\|2045072_2045636_-\|sigma-70-family-RNA-polymerase-sigma-factor	unknown	unknown	gnl\|CDD\|237024
NC_009142.1\|WP_009942659.1\|2044501_2045080_-\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_009942645.1\|2055492_2056275_+\|VOC-family-protein	gnl\|CDD\|319911	cd07247, SgaA_N_like, N-terminal domain of Streptomyces griseus SgaA and similar domains. SgaA suppresses the growth disturbances caused by high osmolarity and a high concentration of A-factor, a microbial hormone, during the early growth phase in Streptomyces griseus. A-factor (2-isocapryloyl-3R-hydroxymethyl-gamma-butyrolactone) controls morphological differentiation and secondary metabolism in Streptomyces griseus. It is a chemical signaling molecule that at a very low concentration acts as a switch for yellow pigment production, aerial mycelium formation, streptomycin production, and streptomycin resistance. The structure and amino acid sequence of SgaA are closely related to a group of antibiotics resistance proteins, including bleomycin resistance protein, mitomycin resistance protein, and fosfomycin resistance proteins. SgaA might also function as a streptomycin resistance protein.	3.10045e-32
NC_009142.1\|WP_009942655.1\|2046419_2047448_+\|cell-division-protein-ZapE	gnl\|CDD\|281902	pfam03969, AFG1_ATPase, AFG1-like ATPase. This P-loop motif-containing family of proteins includes AFG1, LACE1 and ZapE. ATPase family gene 1 (AFG1) is a 377 amino acid yeast protein with an ATPase motif typical of the family. LACE1, the mammalian homolog of AFG1, is a mitochondrial integral membrane protein that is essential for maintenance of fused mitochondrial reticulum and lamellar cristae morphology. It has also been demonstrated that LACE1 mediates degradation of nuclear-encoded complex IV subunits COX4 (cytochrome c oxidase 4), COX5A and COX6A, and is required for normal activity of complexes III and IV of the respiratory chain. ZapE is a cell division protein found in Gram-negative bacteria. The bacterial cell division process relies on the assembly, positioning, and constriction of FtsZ ring (the so-called Z-ring), a ring-like network that marks the future site of the septum of bacterial cell division. ZapE is a Z-ring associated protein required for cell division under low-oxygen conditions. It is an ATPase that appears at the constricting Z-ring late in cell division. It reduces the stability of FtsZ polymers in the presence of ATP in vitro.	8.19843e-66
NC_009142.1\|WP_009942650.1\|2051162_2052203_+\|lactonase-family-protein	gnl\|CDD\|378416	pfam10282, Lactonase, Lactonase, 7-bladed beta-propeller. This entry contains bacterial 6-phosphogluconolactonases (6PGL)YbhE-type (EC:3.1.1.31) which hydrolyze 6-phosphogluconolactone to 6-phosphogluconate. The entry also contains the fungal muconate lactonising enzyme carboxy-cis,cis-muconate cyclase (EC:5.5.1.5) and muconate cycloisomerase (EC:5.5.1.1), which convert cis,cis-muconates to muconolactones and vice versa as part of the microbial beta-ketoadipate pathway. Structures of proteins in this family have revealed a 7-bladed beta-propeller fold.	3.41616e-118
NC_009142.1\|WP_011873491.1\|2045632_2046367_-\|pyrimidine-reductase-family-protein	gnl\|CDD\|184482	PRK14059, PRK14059, pyrimidine reductase family protein.	5.46084e-93
NC_009142.1\|WP_009942648.1\|2052660_2053323_-\|hypothetical-protein	gnl\|CDD\|198062	smart00994, zf-C4_ClpX, ClpX C4-type zinc finger. The ClpX heat shock protein of Escherichia coli is a member of the universally conserved Hsp100 family of proteins, and possesses a putative zinc finger motif of the C4 type. This presumed zinc binding domain is found at the N-terminus of the ClpX protein. ClpX is an ATPase which functions both as a substrate specificity component of the ClpXP protease and as a molecular chaperone. The molecular function of this domain is now known.	1.12796e-13
NC_009142.1\|WP_009942647.1\|2053401_2055165_-\|serine/threonine-protein-kinase	gnl\|CDD\|270916	cd14014, STKc_PknB_like, Catalytic domain of bacterial Serine/Threonine kinases, PknB and similar proteins. STKs catalyze the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. This subfamily includes many bacterial eukaryotic-type STKs including Staphylococcus aureus PknB (also called PrkC or Stk1), Bacillus subtilis PrkC, and Mycobacterium tuberculosis Pkn proteins (PknB, PknD, PknE, PknF, PknL, and PknH), among others. S. aureus PknB is the only eukaryotic-type STK present in this species, although many microorganisms encode for several such proteins. It is important for the survival and pathogenesis of S. aureus as it is involved in the regulation of purine and pyrimidine biosynthesis, cell wall metabolism, autolysis, virulence, and antibiotic resistance. M. tuberculosis PknB is essential for growth and it acts on diverse substrates including proteins involved in peptidoglycan synthesis, cell division, transcription, stress responses, and metabolic regulation. B. subtilis PrkC is located at the inner membrane of endospores and functions to trigger spore germination. Bacterial STKs in this subfamily show varied domain architectures. The well-characterized members such as S. aureus and M. tuberculosis PknB, and B. subtilis PrkC, contain an N-terminal cytosolic kinase domain, a transmembrane (TM) segment, and mutliple C-terminal extracellular PASTA domains. The PknB subfamily is part of a larger superfamily that includes the catalytic domains of other protein STKs, protein tyrosine kinases, RIO kinases, aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase.	2.414e-90
NC_009142.1\|WP_009942644.1\|2056532_2057996_+\|sugar-ABC-transporter-ATP-binding-protein	gnl\|CDD\|224053	COG1129, MglA, ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism].	0
NC_009142.1\|WP_009942640.1\|2060134_2061319_-\|antibiotic-resistance-macrolide-glycosyltransferase	gnl\|CDD\|273616	TIGR01426, Glycosyl_transferase, glycosyltransferase, MGT family. This model describes the MGT (macroside glycosyltransferase) subfamily of the UDP-glucuronosyltransferase family. Members include a number of glucosyl transferases for macrolide antibiotic inactivation, but also include transferases of glucose-related sugars for macrolide antibiotic production. [Cellular processes, Toxin production and resistance].	5.25652e-107
NC_009142.1\|WP_009942641.1\|2059039_2060047_+\|substrate-binding-domain-containing-protein	gnl\|CDD\|380663	cd20008, PBP1_ABC_sugar_binding-like, monosaccharide ABC transporter substrate-binding protein such as CUT2. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type 1 periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.	2.41567e-79
NC_009142.1\|WP_009942643.1\|2057988_2058984_+\|ABC-transporter-permease	gnl\|CDD\|224093	COG1172, AraH, Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism].	1.22325e-84
NC_009142.1\|WP_009942660.1\|2043883_2044399_-\|Asp23/Gls24-family-envelope-stress-response-protein	gnl\|CDD\|377129	pfam03780, Asp23, Asp23 family, cell envelope-related function. The alkaline shock protein Asp23 was identified as an alkaline shock protein that was expressed in a sigmaB-dependent manner in Staphylococcus aureus. Following an alkaline shock Asp23 accumulates in the soluble protein fraction of the S. aureus cell. Asp23 is one of the most abundant proteins in the cytosolic protein fraction of stationary S. aureus cells, with a copy-number of >25000 per cell. A second Asp23-family protein, AmaP, which is encoded within the asp23-operon, is required to localize Asp23 to the cell membrane. The overall function for the family is thus a cell envelope-related one in Gram-positive bacteria.	3.12067e-34
NC_009142.1\|WP_011873493.1\|2049741_2051001_-\|ornithine--oxo-acid-transaminase	gnl\|CDD\|234848	PRK00854, rocD, ornithine--oxo-acid transaminase; Reviewed.	0
NC_009142.1\|WP_009942663.1\|2043293_2043551_-\|hypothetical-protein	gnl\|CDD\|367272	pfam02956, TT_ORF1, TT viral orf 1. TT virus (TTV), isolated initially from a Japanese patient with hepatitis of unknown aetiology, has since been found to infect both healthy and diseased individuals and numerous prevalence studies have raised questions about its role in unexplained hepatitis. ORF1 is a large 750 residue protein. The N-terminal half of this protein corresponds to the capsid protein.	0.00823692
NC_009142.1\|WP_011873492.1\|2047693_2048926_+\|FAD-dependent-oxidoreductase	gnl\|CDD\|235729	PRK06185, PRK06185, FAD-dependent oxidoreductase.	0
NC_009142.1\|WP_009942653.1\|2048922_2049552_-\|TetR-family-transcriptional-regulator	gnl\|CDD\|132427	TIGR03384, betaine_BetI, transcriptional repressor BetI. BetI is a DNA-binding transcriptional repressor of the bet (betaine) regulon. In sequence, it is related to TetR (pfam00440). Choline, through BetI, induces the expression of the betaine biosynthesis genes betA and betB by derepression. The choline porter gene betT is also part of this regulon in Escherichia coli. Note that a different transcriptional regulator, ArcA, controls the expression of bet regulon genes in response to oxygen, as BetA is an oxygen-dependent enzyme. [Regulatory functions, DNA interactions].	1.00904e-14
NC_009142.1\|WP_009942658.1\|2045072_2045636_-\|sigma-70-family-RNA-polymerase-sigma-factor	gnl\|CDD\|237024	PRK11922, PRK11922, RNA polymerase sigma factor; Provisional.	9.39627e-41

>NC_009142.1|WP_009942653.1|2048922_2049552_-|TetR-family-transcriptional-regulator
MTASRPGPRRTAATFTERARRRQIIDSTIELISVRGYTGTSLSAIAEAAGISKAAVLYHFSSKDNLTEATLQHVFEQYTAYVMERVERAADAREAVLAYVRAMISYSRDNRRHIRLITEVLLDDKGGTRLKAPGSHEAGGRLRGLADLLAAGQEAGLLRDFDTTTIALAIGGAIDGVVSQWLADPELDLDAATEELESFVILAIDRRAA
>NC_009142.1|WP_011873492.1|2047693_2048926_+|FAD-dependent-oxidoreductase
MESTRCCVVGGGPAGMMLGLLLARAGVEVTVLEKHRDFLRDFRGDTVHPSTLRLLDDLGLGERFAALPQRKLERMRMLIGESTVVAADFGRLRGRRNYIAMVPQWDFLDLLAKAAADEPSFTLRMCTEVTGLRSEGGRVTGVRYLDEDGSPGELAADLTVGCDGRDSVVRRSAGMRSRAFDIPMDVWSVRVRAVPGSGAGGQVFARFADGQVAVTMDRGDYFQTSYLIRKGDDARLRARGIEWFRGALAELFGWAPHVLEEIGSFDDVKLLETSMDRLPRWYADGVLCIGDAAHTMSPVGGVGVNLAVQDAAATARLLAEPLLRGTIGVADLARVQRRRLLPTAVAQRLQLGEHEMLLRPALEGTLGTKRLPFPMRLLRRFPALGAVTAYVGGVGVRPERAPGFARRARR
>NC_009142.1|WP_009942655.1|2046419_2047448_+|cell-division-protein-ZapE
MSTPRLADRRPELSPDEMVGAMTPPPRFDEVRFDTYVPNPDEPSQAAAVEACGAFAERVAAASSGGGSWWKSLFGGRKADPGKPGLYLDGGFGVGKTHLLASTWHAVPGPKSYGTFVELTNLVGALGFAETVRRLSEHRLLAIDEFELDDPGDTMLVTQLIAKLSDAGVHVAATSNTLPDKLGEGRFAAVDFLREIHAMAARFDVVRVDGPDYRHRGLPDAPDPMGDGELTELAAATDGATLDDFEELCAFLARLHPSKYGRLVDGVSAVHLRGVQAAPDQDVALRLVALADRLYDRAIPVRVSGESLPSLFTEEMLAGGYRKKYLRATSRLTALSRDLAKS
>NC_009142.1|WP_011873491.1|2045632_2046367_-|pyrimidine-reductase-family-protein
MSGAPQADDELEQFYAYPEALERPWVRVNFVSSLDGAVTIKGRSRGLSAPEDQRVLGLIRDLSDVVLVGVSTAVLEGYRGVKRTEVRSERRSRLGLSPVPPIALVTRSCSLPVDSPLLTDTLVPPIVLTCQAAPADRRAALADAGADVVVAGDEQVDLPAALAALDERGLRRIGCEGGPTLFGSLVESDLVDELCLTMSPLLAGGDAGRIAKGTGVGVPRRMRLLSALHTDESLLLLRYARMPA
>NC_009142.1|WP_009942658.1|2045072_2045636_-|sigma-70-family-RNA-polymerase-sigma-factor
MTARADTDQALIAAAQRGDASAFDELVRRHTTTMYRVAVRILGNSSEAEDAVQDAWVSAWRSLKRFRGDAAPSTWLYRVVTNAALAQIRRRRPTVPLDVSDEAVGGLFADHRDPEGQAVRNEEATMVHRAIATLEPSQRVPLVLHEFEGMGYEEIAEVLDVGAPALRSRLHRARLALLARLKEMHHG
>NC_009142.1|WP_009942659.1|2044501_2045080_-|hypothetical-protein
MADRSSDADRALPCGRTVGELVGYHADGGTPELAAHVAGCPHCQAELAELDSAWAAVRRAASLPVEPPDGLVDRALTTVRGIRGGAGSAPLEFDQDGGSLRISPQAVLVLARRTCAEILTAHPGVHLRGCGGDVDEVRIDLQVQYPLPAPALAEMIRTELADRLHVALGGAAPAVWIRIADVAPPESSDWVT
>NC_009142.1|WP_009942660.1|2043883_2044399_-|Asp23/Gls24-family-envelope-stress-response-protein
MAQPQTGQTQTGSTESGQETRRVPDSRTGGASPARLADETSQGRTSIAASVVQKIAGIAAKEISGVHAMGGGVSRAFGALRERIPGGSAASSTSGVQVEVGEKQAAVDLDIVVEYGASIVDLARAVRRNVIGAVERMTGLEVIEVNISVNDIHLPSEDEESDGTAPASRVE
>NC_009142.1|WP_009942661.1|2043550_2043847_-|hypothetical-protein
MTATDEELVEQVAAAVLAHPSVLRLDGGEYGVVATHLPGRRVTGVRSRDDGTPAEVAVVLRLDRPLPEIIAELRAEITRVAGRGPVDITVSDVEQAGA
>NC_009142.1|WP_009942663.1|2043293_2043551_-|hypothetical-protein
MTGRDAAVRADLRAFVRTHHPDVGGDPEVFAAGLAELRARQARELELDDARYDAPIVIVHRPGVVRGVARRIRGWRRRRHRPRVR
>NC_009142.1|WP_011873490.1|2042984_2043167_-|hypothetical-protein
MNATQTGLLAGLILGTAAAVGGFAGFLIALAVGAIGLVVGRVLDGEMDVRDILGRRGRDR
>NC_009142.1|WP_011873493.1|2049741_2051001_-|ornithine--oxo-acid-transaminase
MPMTAAPSRVPAQADTTTTDATDRFLGLADHYSAHNYHPLPVVIAEASGAWMTDVDGRRYLDFLAGYSALNFGHGHPDLVAAATEQLGRVTLTSRAFHHDQFGPFCAELAELTGTDMVLPMNSGAEAVESAIKVARKWAYQVKGVPEDRAEIVVAGSNFHGRTTTIVSFSTDPTARSDFGPFTPGFVITPYGDADAVEAAITERTAAVLVEPIQGEAGVLVPPADYLPRLRALCDDNEVLLIADEIQSGLARTGELLASEHDGIRADLYTLGKALGGGIMPVSAVVGRREVLGVLRPGEHGSTFGGNPLACAVGRAVIALLRTGEFQRRSRELGAHLHRRLGELVGQGVAEVRGRGLWAGVEIEPGGPTGRQASTALAERGVLCKETQDTTLRIAPPLVISRADLDAGIDAVAEVLTGR
>NC_009142.1|WP_009942650.1|2051162_2052203_+|lactonase-family-protein
MPDNGEYRMYVGAYTADESKADGIRLAVADGTGAVRCTDVVHTAADPSFLALSPDGSTLFAVSEVWEGRVLSFAVCDDGSLREVNSQPTLGSGPCHLSVHPSGRFLLTANYVSGNVVVHPVAEGGVLREPCHVVQHSGSGPSDRQDGPHAHQVLSDPTGKRVLAADLGTDSVYVYDFDAESGHLAIRTEVTVAAGAGPRHLAFHPSGTRFYLLNELALALTEVAYDPETGAAEAGRTLPTVPDDHREKSLAAEVVVSPDGRFAFASNRGHDSIAVFGCDDFRLLGIHPAGVAGPRHIALSPDGAVLFAAGQDSGTLRALRVRGDGGLEPVGEPVETPAPVCLLPVA
>NC_009142.1|WP_143538097.1|2052379_2052616_+|hypothetical-protein
MPIWVPGQLTVRNPEQGWSGMSVRGYRYLGSDVDVPPVRDFVVVAFHHGHTDLHRKIDGHLVPCPPAKFHTMLSARNL
>NC_009142.1|WP_009942648.1|2052660_2053323_-|hypothetical-protein
MDAPEGTGSNPACSFCGAGTAEVEHLVSGPGVWICGGCVRGSYEIIKGLRQKEAGSADEPAATAGADAAVPVDDPIMATIAQVQQAALQGRREQAASAYERLWSQVEHGRPLHRVSVAHYMADLQDGPAEELRWDERALEAAAEVTPQHADASPVAPLRASLHVNAARALHELGRGEDARRQLEAARQTERMLPEDGYGRLVRSRIDALSTEMDGQQTLL
>NC_009142.1|WP_009942647.1|2053401_2055165_-|serine/threonine-protein-kinase
MQPLLTSEPTRVGDYRLLARLGRGAMGAVYLARSRGGRVVAVKLVRPDLADDTEFRERFRREVQMARSVGGFWTATVVDADTEAEQPWLATEYVPGPTLHQAVADHGALPEHTVRSLAAGLAEALAAIHRADLVHRDLKPANVLLGPDGPRVIDFGISRAMTGNALTATGMFLGTPGFFSPEQTVGNEVGPPSDVFSLGAVLVFAATGMGPFGNENTAAMLYRVVHTEPDLDEVPDGLRPLLASCLAKDPAQRPTPAQLLDGVGEQSPQGSQWLPPAITAVITEHATELQRTASAAALADAPAEPKPATRAYTQAQPQPQVQAPTPNQAQAPIPPAGQAPAPPAQPRVQATAEPRPVTRTFTPAQPASPQQVQPAAQQQAQPVAEQQVQPQRDKIVPARPRQTAQTQAAVARVRADVPGPTFATGGRVGALVSAVVIVLLMIGARELSSAIGTNPNVRGLFNLGMLLLAISAGWSLLRVVMPSLRLKVNSDGLRVSRLGLGREIPWSHVRHVGVVGRGKKQSVAVWLADGIPEPRSNLWHRTRSYHGGTRVFPIGATGGWWTRRQEAKRVRLALQQYAPGRYDQKLL
>NC_009142.1|WP_009942645.1|2055492_2056275_+|VOC-family-protein
MFRTTDVGAPIWLDLGTPDTEAAAAFYRRLFGWRLQSAGPDAGGYGFFMLDGRMVGAIGPLTEQGATSAWTVYFRTADADATAGAVVQAGGEVRVGPLDVFDQGRMAALTDSAGARFGVWQPKRNTGLEVVGEPGALAWTELYTPDAGKAGEFYRSVFGWRVDDASMPGVTYAVVSAADAGPDGGHGGIMQLSRENLDAGSGPEWHPYVEVADCDAVFATATANGATELVAPVSAPRIGRLAMFLDPFGAQLAVITSESS
>NC_009142.1|WP_009942644.1|2056532_2057996_+|sugar-ABC-transporter-ATP-binding-protein
MGKRFPGVVAVSDVDLEVFAGEVHVFAGENGAGKSTLMKLIAQVEPPSSGRIELAGAPVSYQGPGAARGLGVSMVHQEFALAPDLSVAENLFIGDEPGGFGWISRGRERRAAAELLARVGLDVDPGRRVGLLSTAEQQRVELAKALAVRAKVLILDEPTATLTERETAELFAIVRELTAQGIAVLYISHRLDEIFEIGDRVTVMRDGAVVDTHPVSELDEARLVQLMVGRDVENLYPRTHSAPGEVRLRVSGLSRDDVVHDVSFDVRAGEIVGLAGLVGAGRTELARAVFGAELPDAGTVSLDGRRLRIRGPADAIAAGIGYLTESRKSDGLALQLGVDKNVTMARLPMRAGLIDLRAERRVAERERDSLRIRVPWVGRPVQTLSGGNQQKVVLARWLETGAEVLFFDEPGRGMDVGAKSEMFQQMDALAGQGKAIVFISSYLPELLNMCDRILVMRGGRITGEVPRAEFSEERVVALATGAKENHG
>NC_009142.1|WP_009942643.1|2057988_2058984_+|ABC-transporter-permease
MAEQTKDRGVVGGLLDRASGAVSQVAAAGALIVAFIALSFVAPSFLTADNLFNLGSQTSVNAVMAVGVTLVIITGGIDLSVGSVAALSGVLGVMLMADFGFNPLIGVLGGIAVGAIAGLINGLLVSVVGLPPFIATLGMLSVGRGLVLIFTGAVAVFGAPESFRLLGQGVIGVIPIPIVLIAVVAVAGHLVLTRTRLGRYAYVMGSNMEAARLSGVPVRKYTTSVYVLSGALAGLGGMIAASRINSGQPNFGEGLELDVIAAVVIGGASLFGGRGTVVGSLIGAFLVAVIRNGAVQLDISTFYQNVLIGVIIWLAVWWDRYQRRKLTGDAG
>NC_009142.1|WP_009942641.1|2059039_2060047_+|substrate-binding-domain-containing-protein
MRKVLATGCLLALSVVATSCSVGVREQTGDNAAKEGPVKIAVVPKAIGFDFWEQVRVGAECAASKQPDVKVHWDGVPAESDVSGQQNLLQDLLSKGDVNGLVYAATDAKALSDITRTATQQGTTVVNMDSGTNPQPPDVPVFATNNVAAAEQGTDLLAKELGGQGKVAFIEFQPGTSTNETRAEGFRRGLARNPGLKLVAQQSSESDYNTALQVTQDILTANPDLNGIYAANEPSVLGAAEAVRQAGKTGQVKIIGWDTSEGEINALREGVITGLIAQNPFKMGFASVDAAIAKIRAQQRPAPATDTGSMLLTKENLDSPEVQKLLNPSCENPPQ
>NC_009142.1|WP_009942640.1|2060134_2061319_-|antibiotic-resistance-macrolide-glycosyltransferase
MHLAFFVPPAPGHVNPALPLVAELVRRGHRVGFATGASMVPAVRAAGAEPVPLPSEIPDRPLSGTAFTAGDLAAMLEGVLANARADLPVMLEHFGAERPDVVCFDAINPFGRVVADSLGVPAAALVPNLTGHDDAPLSETFMPEAFDFGDARLLAARRAMTDFAAEHGVGALPDPMSEVMAPLNLVFVPRRFQPGGEAFDDRFHFVGPSPRPEDASRWRPRRPDAPLVFVSLGTVFNERPDFFRACAEAFEGTPWQVAMSVGSHLEVSTLGTLPENVEVRPHFPQLAVLREADVFVTHCGMGSTMEALYHEVPMVAAPQVPEQRRNARRVAELGLGRLLEEPDAASIRAAVESVADDARIGEALSRMREAIEESGGAAAGADALERYVDEAKTA

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Crispr_ID: NC_009142_7

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_7

2467949-2468087

Orphan

Consensus_repeat	Method
GCTGCCGCTCGGTCTGCTCGACCT	CRISPRCasFinder

2 spacers

The CRISPR arrays of NC_009142_7

>merge|NC_009142|7|2467949-2468087|CRISPRCasFinder
GCTGCCGCTCGGTCTGCTCGACCTCAGCGCTTGTTGATCAGCCTGGCCGACTCGGTAGCTGCCGCTCGGTCTGGTCGACCTTGGTAGTTGCCGCTCGACCCGGTCTGCCTCGAGCGCTGCCGCTCGGTCTGCTCCTCCT

>NC_009142|7|6|2467949-2468087|CRISPRCasFinder
GCTGCCGCTCGGTCTGCTCGACCT	CAGCGCTTGTTGATCAGCCTGGCCGACTCGGTA
GCTGCCGCTCGGTCTGGTCGACCT	TGGTAGTTGCCGCTCGACCCGGTCTGCCTCGAGC
GCTGCCGCTCGGTCTGCTCCTCCT

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_009945815.1\|2473875_2474499_+\|FxsA-family-protein	unknown	unknown	gnl\|CDD\|377238
NC_009142.1\|WP_009945831.1\|2462672_2463617_+\|1-phosphofructokinase	unknown	unknown	gnl\|CDD\|274464
NC_009142.1\|WP_011873618.1\|2472638_2473718_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|238861
NC_009142.1\|WP_009945830.1\|2463613_2464066_+\|PTS-sugar-transporter-subunit-IIA	unknown	unknown	gnl\|CDD\|273298
NC_009142.1\|WP_009945822.1\|2469142_2470297_+\|aminopeptidase-P-family-protein	unknown	unknown	gnl\|CDD\|223085
NC_009142.1\|WP_009945826.1\|2466082_2466373_+\|HPr-family-phosphocarrier-protein	unknown	unknown	gnl\|CDD\|376329
NC_009142.1\|WP_009945808.1\|2478928_2479717_+\|polyprenol-monophosphomannose-synthase	unknown	unknown	gnl\|CDD\|133062
NC_009142.1\|WP_009945828.1\|2464062_2465535_+\|PTS-transporter-subunit-EIIC	unknown	unknown	gnl\|CDD\|236740
NC_009142.1\|WP_009945824.1\|2466388_2467915_+\|glycoside-hydrolase-family-32-protein	unknown	unknown	gnl\|CDD\|350134
NC_009142.1\|WP_009945833.1\|2460174_2461818_-\|phosphoenolpyruvate--protein-phosphotransferase	unknown	unknown	gnl\|CDD\|224006
NC_009142.1\|WP_009945832.1\|2461917_2462676_+\|DeoR/GlpR-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224268
NC_009142.1\|WP_009945814.1\|2474634_2476260_+\|amidohydrolase	unknown	unknown	gnl\|CDD\|224490
NC_009142.1\|WP_009945837.1\|2458295_2459213_+\|MBL-fold-metallo-hydrolase	unknown	unknown	gnl\|CDD\|293828
NC_009142.1\|WP_009945819.1\|2470778_2471468_+\|class-I-SAM-dependent-methyltransferase	unknown	unknown	gnl\|CDD\|369777
NC_009142.1\|WP_009945835.1\|2459189_2460107_-\|5'-3'-exonuclease	unknown	unknown	gnl\|CDD\|214682
NC_009142.1\|WP_009945810.1\|2477378_2478857_+\|apolipoprotein-N-acyltransferase	unknown	unknown	gnl\|CDD\|143595
NC_009142.1\|WP_009945839.1\|2457726_2458275_+\|TetR/AcrR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|366102
NC_009142.1\|WP_009945807.1\|2479778_2480123_-\|RNA-polymerase-binding-protein-RbpA	unknown	unknown	gnl\|CDD\|379162
NC_009142.1\|WP_009945820.1\|2470326_2470767_+\|Lrp/AsnC-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|214628
NC_009142.1\|WP_009945812.1\|2476553_2477156_+\|DUF1707-and-DUF2154-domain-containing-protein	unknown	unknown	gnl\|CDD\|377959

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_009945815.1\|2473875_2474499_+\|FxsA-family-protein	gnl\|CDD\|377238	pfam04186, FxsA, FxsA cytoplasmic membrane protein. This is a bacterial family of cytoplasmic membrane proteins. It includes two transmembrane regions. The molecular function of FxsA is unknown, but in Escherichia coli its over-expression has been shown to alleviate the exclusion of phage T7 in those cells with an F plasmid.	6.58922e-45
NC_009142.1\|WP_009945831.1\|2462672_2463617_+\|1-phosphofructokinase	gnl\|CDD\|274464	TIGR03168, 1-PFK, hexose kinase, 1-phosphofructokinase family. This family consists largely of 1-phosphofructokinases, but also includes tagatose-6-kinases and 6-phosphofructokinases.	1.18533e-107
NC_009142.1\|WP_011873618.1\|2472638_2473718_-\|hypothetical-protein	gnl\|CDD\|238861	cd01823, SEST_like, SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles two of the three components of typical Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxylic acid.	4.90988e-23
NC_009142.1\|WP_009945830.1\|2463613_2464066_+\|PTS-sugar-transporter-subunit-IIA	gnl\|CDD\|273298	TIGR00848, Includes:_Phosphotransferase_enzyme_IIA_component, PTS system, fructose subfamily, IIA component. 4.A.2 The PTS Fructose-Mannitol (Fru) Family Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Fru family is a large and complex family which includes several sequenced fructose and mannitol-specific permeases as well as several putative PTS permeases of unknown specificities. The fructose permeases of this family phosphorylate fructose on the 1-position. Those of family 4.6 phosphorylate fructose on the 6-position. The Fru family PTS systems typically have 3 domains, IIA, IIB and IIC, which may be found as 1 or more proteins. The fructose and mannitol transporters form separate phylogenetic clusters in this family. This model is specific for the IIA domain of the fructose PTS transporters. Also similar to the Enzyme IIA Fru subunits of the PTS, but included in TIGR01419 rather than this model, is enzyme IIA Ntr (nitrogen), also called PtsN, found in E. coli and other organisms, which may play a solely regulatory role. [Transport and binding proteins, Carbohydrates, organic alcohols, and acids, Signal transduction, PTS].	2.21e-39
NC_009142.1\|WP_009945822.1\|2469142_2470297_+\|aminopeptidase-P-family-protein	gnl\|CDD\|223085	COG0006, PepP, Xaa-Pro aminopeptidase [Amino acid transport and metabolism].	2.36997e-103
NC_009142.1\|WP_009945826.1\|2466082_2466373_+\|HPr-family-phosphocarrier-protein	gnl\|CDD\|376329	pfam00381, PTS-HPr, PTS HPr component phosphorylation site.	3.07265e-21
NC_009142.1\|WP_009945808.1\|2478928_2479717_+\|polyprenol-monophosphomannose-synthase	gnl\|CDD\|133062	cd06442, DPM1_like, DPM1_like represents putative enzymes similar to eukaryotic DPM1. Proteins similar to eukaryotic DPM1, including enzymes from bacteria and archaea; DPM1 is the catalytic subunit of eukaryotic dolichol-phosphate mannose (DPM) synthase. DPM synthase is required for synthesis of the glycosylphosphatidylinositol (GPI) anchor, N-glycan precursor, protein O-mannose, and C-mannose. In higher eukaryotes,the enzyme has three subunits, DPM1, DPM2 and DPM3. DPM is synthesized from dolichol phosphate and GDP-Man on the cytosolic surface of the ER membrane by DPM synthase and then is flipped onto the luminal side and used as a donor substrate. In lower eukaryotes, such as Saccharomyces cerevisiae and Trypanosoma brucei, DPM synthase consists of a single component (Dpm1p and TbDpm1, respectively) that possesses one predicted transmembrane region near the C terminus for anchoring to the ER membrane. In contrast, the Dpm1 homologues of higher eukaryotes, namely fission yeast, fungi, and animals, have no transmembrane region, suggesting the existence of adapter molecules for membrane anchoring. This family also includes bacteria and archaea DPM1_like enzymes. However, the enzyme structure and mechanism of function are not well understood. This protein family belongs to Glycosyltransferase 2 superfamily.	9.23224e-103
NC_009142.1\|WP_009945828.1\|2464062_2465535_+\|PTS-transporter-subunit-EIIC	gnl\|CDD\|236740	PRK10712, PRK10712, PTS system fructose-specific transporter subunits IIBC; Provisional.	8.58103e-120
NC_009142.1\|WP_009945824.1\|2466388_2467915_+\|glycoside-hydrolase-family-32-protein	gnl\|CDD\|350134	cd18622, GH32_Inu-like, glycoside hydrolase family 32 protein such as Aspergillus ficuum endo-inulinase (Inu2). This subfamily of glycosyl hydrolase family GH32 includes endo-inulinase (inu2, EC 3.2.1.7), exo-inulinase (Inu1, EC 3.2.1.80), invertase (EC 3.2.1.26), and levan fructotransferase (LftA, EC 4.2.2.16), among others. These enzymes cleave sucrose into fructose and glucose via beta-fructofuranosidase activity, producing invert sugar that is a mixture of dextrorotatory D-glucose and levorotatory D-fructose, thus named invertase (EC 3.2.1.26). These retaining enzymes (i.e. they retain the configuration at anomeric carbon atom of the substrate) catalyze hydrolysis in two steps involving a covalent glycosyl enzyme intermediate: an aspartate located close to the N-terminus acts as the catalytic nucleophile and a glutamate acts as the general acid/base; a conserved aspartate residue in the Arg-Asp-Pro (RDP) motif stabilizes the transition state. These enzymes are predicted to display a 5-fold beta-propeller fold as found for GH43 and CH68. The breakdown of sucrose is widely used as a carbon or energy source by bacteria, fungi, and plants. Invertase is used commercially in the confectionery industry, since fructose has a sweeter taste than sucrose and a lower tendency to crystallize. A common structural feature of all these enzymes is a 5-bladed beta-propeller domain, similar to GH43, that contains the catalytic acid and catalytic base. A long V-shaped groove, partially enclosed at one end, forms a single extended substrate-binding surface across the face of the propeller.	9.80741e-160
NC_009142.1\|WP_009945833.1\|2460174_2461818_-\|phosphoenolpyruvate--protein-phosphotransferase	gnl\|CDD\|224006	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism].	3.18118e-158
NC_009142.1\|WP_009945832.1\|2461917_2462676_+\|DeoR/GlpR-transcriptional-regulator	gnl\|CDD\|224268	COG1349, GlpR, Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism].	1.29794e-81
NC_009142.1\|WP_009945814.1\|2474634_2476260_+\|amidohydrolase	gnl\|CDD\|224490	COG1574, COG1574, Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only].	1.25042e-106
NC_009142.1\|WP_009945837.1\|2458295_2459213_+\|MBL-fold-metallo-hydrolase	gnl\|CDD\|293828	cd07742, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain. Members of the MBL-fold metallohydrolase superfamily are mainly hydrolytic enzymes which carry out a variety of biological functions. The class B metal beta-lactamases (MBLs) from which this fold was named are only a small fraction of the activities which are included in this superfamily. Activities carried out by superfamily members include class B beta-lactamases, hydroxyacylglutathione hydrolases, AHL (acyl homoserine lactone) lactonases, persulfide dioxygenases, flavodiiron proteins, cleavage and polyadenylation specificity factors such as the Int9 and Int11 subunits of Integrator, Sdsa1-like and AtsA-like arylsulfatases, 5'-exonucleases human SNM1A and yeast Pso2p, ribonuclease J and ribonuclease Z, cyclic nucleotide phosphodiesterases, insecticide hydrolases, and proteins required for natural transformation competence. Classical members of the superfamily are di-, or less commonly mono-, zinc-ion-dependent hydrolases, however the diversity of biological roles is reflected in variations in the active site metallo-chemistry.	1.76384e-123
NC_009142.1\|WP_009945819.1\|2470778_2471468_+\|class-I-SAM-dependent-methyltransferase	gnl\|CDD\|369777	pfam08241, Methyltransf_11, Methyltransferase domain. Members of this family are SAM dependent methyltransferases.	1.67312e-21
NC_009142.1\|WP_009945835.1\|2459189_2460107_-\|5'-3'-exonuclease	gnl\|CDD\|214682	smart00475, 53EXOc, 5'-3' exonuclease.	2.82959e-81
NC_009142.1\|WP_009945810.1\|2477378_2478857_+\|apolipoprotein-N-acyltransferase	gnl\|CDD\|143595	cd07571, ALP_N-acyl_transferase, Apolipoprotein N-acyl transferase (class 9 nitrilases). ALP N-acyl transferase (Lnt), is an essential membrane-bound enzyme in gram-negative bacteria, which catalyzes the N-acylation of apolipoproteins, the final step in lipoprotein maturation. This is a reverse amidase (i.e. condensation) reaction. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 9.	1.85316e-80
NC_009142.1\|WP_009945839.1\|2457726_2458275_+\|TetR/AcrR-family-transcriptional-regulator	gnl\|CDD\|366102	pfam00440, TetR_N, Bacterial regulatory proteins, tetR family.	6.27228e-07
NC_009142.1\|WP_009945807.1\|2479778_2480123_-\|RNA-polymerase-binding-protein-RbpA	gnl\|CDD\|379162	pfam13397, RbpA, RNA polymerase-binding protein. RbpA is a family bacterial RNA polymerase-binding proteins. RbpA acts as a transcription factor by binding to the sigma subunit of RNA polymerase.	1.40067e-52
NC_009142.1\|WP_009945820.1\|2470326_2470767_+\|Lrp/AsnC-family-transcriptional-regulator	gnl\|CDD\|214628	smart00344, HTH_ASNC, helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli).	5.99772e-39
NC_009142.1\|WP_009945812.1\|2476553_2477156_+\|DUF1707-and-DUF2154-domain-containing-protein	gnl\|CDD\|377959	pfam08044, DUF1707, Domain of unknown function (DUF1707). This domain is found in a variety of Actinomycetales proteins. All of the proteins containing this domain are hypothetical and probably membrane bound or associated. Currently, it is unclear to the function of this domain.	2.40204e-19

>NC_009142.1|WP_009945824.1|2466388_2467915_+|glycoside-hydrolase-family-32-protein
MRHHKGKSAFELPRRGFLAGAGALVGLGLTGAAAPASARPRGRTAQWRPAVHFTPRRNWMNDPNGLVHHQGEYHLFFQHNPESSDHANLSWGHAVSTDLSHWEELPVALLPDDLGEIYSGSAVVDHDNTSGFFDTEPGLVALYTSAGETQQQSLAYSTDRGHTWTKYEGNPVIPNPGVADFRDPKVIRYGDKWVLMLAAGDRIAFYDSADLKNWNRISEFGVGHGSHGGVWECPDLFELPVDGDTGRTRWVLIVSINPGGPAGGSATQYFLGDFDGTTFTSEAPPEEVRWVEEGADFYAPQSWSDVPDRRIWLGWLSNWDYAKQVPTEPWRGAMTVPRTVGLTETASGVRITQNPVPELESRRGKPQNWSGVISEQGPAPEFSGAVLDIVAEFRLDTATTFGVDVFVGEGQRTRIGYDVAARRLFVDRTASGTSISPGFAATHSAELHPDGDVLRLRVLVDRSCVEVFGGRGETVLTELVFPGEGDRVRPFATGGQVRVESLELYPLR
>NC_009142.1|WP_009945826.1|2466082_2466373_+|HPr-family-phosphocarrier-protein
MQRRVTIASAVGLHARPASLLSQAAGAQPVAVRIAKVTDGVAGEPVDAASVLGLMTLNAQHGDEVELSAQGDTAESVLDELVSMLSRDLDNEPVNA
>NC_009142.1|WP_009945828.1|2464062_2465535_+|PTS-transporter-subunit-EIIC
MKFVAVTACPTGIAHTYMAAEALEQAAKAAGHEIKVETQGSAGANSLSAAEVAEADAVVFAADVGVQDRDRFAGKPTVEATVKQAINDAAGLLERAAAASAEAPATAEPAPGVAQAGPELATKVVAGAGIGSKLRQWLMTGVSYVIPFVAAGGLLVALSFALGGYQITDAPSVTEHFDAASLTSWAALANQIGSAAMDFLVPVLAGFIAFAMADRPAIAPGFVGGAIAVTVGAGFLGGLVAGLLAGAVVGALRRIKVPRAVAGVMPVMVLPLLGSLVVGVLMFVVIGGPIAGAMAALTGWLNGLTGANAALLGALLGAMIAFDMGGPINKVAYTFAVGGLTTGTETSLEIMAAVMAAGMTPPLALALAATVRAKLFTPAERESARPAWLLGASFITEGAIPFAASDPLRVIPSIVVGSTATGALSMIFGATLRAPHGGLFVLPLVGQPLLYLVAILAGVVISAVAVIFAKQLGRAQAPADTTADASAVPA
>NC_009142.1|WP_009945830.1|2463613_2464066_+|PTS-sugar-transporter-subunit-IIA
MSTELITTELVDLDLADDDRRAAVRSLAERLVTAGRVTDLDRFLTDVEARESQMPTGLEGGIGIPHCRSAAVTTPTLAFGRSTGGIDFGAEDGPAKLIFLIAAPEGGGSDHMTVLAALARRLVRAEFKQTLLEATDPAQVAEYVREEVTP
>NC_009142.1|WP_009945831.1|2462672_2463617_+|1-phosphofructokinase
MIVTVTPNPSLDRTILVGHMQRGAVHRASRVRLDPGGKGVNVARALAAADRPTLALLPSGGAEGARLAELLAPEAVPVVEVPISMPTRSNVAVVEADGTTSKFNEPGPELTASEVAALETRAVELAGRADWLVTCGSLPRGCPDDLHARLVRAGHRAGARVAVDASGPALAAACQAGPDLIKPNLTELAELAGRHLPTLGDVLRVAREVRAGGVGAVLVSLGEHGALLVTGTGAWHALSTATAVLSTVGAGDATLAGFLHEGGDGPGALRTAVAYGTAAVGLAGSRMPHPSDLRTAAVRVHEVDESLSLTGAAA
>NC_009142.1|WP_009945832.1|2461917_2462676_+|DeoR/GlpR-transcriptional-regulator
MYGAERQQLLAQRARRDGRIDVMAAAEELAVAPETIRRDLGALERQGLVRRVYGGAIPVERLDFEPGVSQRDQTNAAEKERIARAAFDLLPNRGTLLLDAGTTTGRLAGMLPADREFTVVTNSLPVAGQLAGRNHCTVHMLGGRIRGTTLASVESWALDVLDGLTVDVGFFGTNGFSVDRGCTTPDTAESAVKAAMVRACRRRVLLADHSKYGDDQFSRFAELSEIDVLITDSGLDEAAVAELSAQTEVVAA
>NC_009142.1|WP_009945833.1|2460174_2461818_-|phosphoenolpyruvate--protein-phosphotransferase
MTTTTAHGVGVSPGQVSGPVARVEEPLPEPKATPAPADRDQEAARIGPAAAAVARRLAERAESVKGEARAILETTSAMAGDPTLLANAEKLVRERGLPAPRAVFEAAEEFAALLASAGGYLAERVRDVRDVADRLIAELTGTAPPGVPELSGPAVLVARDLAPADTADLDPRLVLALVTEEGGPTGHTAILARSLGIPAVVAARGVLAAGAVGARVDGDTGEVELSDEPVAVQVAQRPAQRPWDGVGRTADGHPVKVLANIGSATDAAAAAAAGAEGVGLFRTEFCFLAATSEPGVEAQRAAYAEALAPFAGKPVVVRTLDAGADKPLPFLSATDEPNPALGVRGIRVAFDRPEIVDRQLEAIAGAAADTGAEVSVMAPMVATADEAAWFARRARAAGITRAGVMIEVPAAALSAAEVLDAVDFVSIGTNDLAQYTFAADRMLGALAQLNDPWQPALLRLVELVARAGRERGKPVGVCGEAAADGLLAGVLAGLGVTSLSMVTAALGAVGASLAEHSMATCEQAARTAVATAEPAQARQAARDVLHR
>NC_009142.1|WP_009945835.1|2459189_2460107_-|5'-3'-exonuclease
MLIDSAGLWFRSYFALPDSLTAPDGTPVNSVRGFCDMLAKLVTERRPARLVACLDNDWRPQFRVDALPSYKAHRVAEEDPDAEEVPDTLTPQIPVILELLDALGIATAEAEGFEADDVIGALAHRETQDRVEVVTGDRDLFQLVRTEPTPVRVIYVGGGLSKAQNYGPEELAERYGLSPGRAGDDYADMAVLRGDPSDGLPGVAGIGEKTAAKLITQFGSLDALLAAAVEGTGVTPRVRALLADAADYLAAAPAVVRTVNTAPVVVDRVDDALPSKAVDHERVVELQKRWGLGASVDRLLAAVTL
>NC_009142.1|WP_009945837.1|2458295_2459213_+|MBL-fold-metallo-hydrolase
MRVHHLNCGTMRPWGGGLVNRAGGLLGAARMVCHCLLVETEQGLVLVDTGLGTRDVTTDRDKLERSWRWLARPVLDAGETAAAQVVRLGHRLEDVRHIVLTHLDRDHAGGLPDFPHAQVHVLDAEYQAMRDNPERDRYLGHQWQHGPRWNPHRGDDGERWFGFEAVRDIPGLPPEILLVPLPGHTRGHTAVAVRTADKWLVHAGDAYFFHGEMAQQPWCTPGLRYFQRQMQVDGPARVRNRARLRELAIAHPDEVEVFCAHDPVELERYRAHDPGELERHRGHDPVDPERYRAHDPVELERHRGQ
>NC_009142.1|WP_009945839.1|2457726_2458275_+|TetR/AcrR-family-transcriptional-regulator
MLDTAMELFQRQGYHATGLNQVLAESAAPRGSLYFHFPGGKQQLAAESVAVAGRRMGELIEAALDRADGPREAVSLVVDALAAILEGSDFQLGCPVATVALEASAASEDVRDACHGAYAAWLEALRVRFLRWGIAPERAGELATVALSMLEGALLLARVQRDVSALRTAAGQLAGLLEAARQ
>NC_009142.1|WP_009945822.1|2469142_2470297_+|aminopeptidase-P-family-protein
MATVSMKQDPSVLAARLGRAAETAAGADLDALLISPGSDLRYLIGAGAGSFERLSCLVLPAAGHDAPPALVLPKLEELGYADVPASELGIEVVTWVDGENPYAIVTDLLRRGGAAPARVAVADVMPALHTFPLRDALPGAEQVLAGGVLRELRMRKDAAEVEALRKAGAAIDRVHARMAEFLKAGRTEAEVGADITEAIVAEGHVEAAFVIVGSGPNGASPHHALSDRVVQEGDVVVIDIGGPIAEGYNSDCTRTYAVGEPSQDDVRDTYAVLQAAQRAAVEAVRPGVTAESIDAAAREPIAAAGFGDFFVHRTGHGIGLDVHEDPYVVDGDKTVLEPGMAFSVEPGIYQPGRWGARIEDIVIVTEDGVESVNNQPHELIVLPA
>NC_009142.1|WP_009945820.1|2470326_2470767_+|Lrp/AsnC-family-transcriptional-regulator
MEATDRAILRELARDGRCSFTELAERVGLSVSAVHQRVRRLEQRGALQGYVAKVDGEQIGLPLTAFISLTPIDPAAPDDYPQRLEHLPQIESCYSVAGDESYILQVRVASPLGLEDLLRQIREAAKVSTRTTVVLSTPFENRPPEI
>NC_009142.1|WP_009945819.1|2470778_2471468_+|class-I-SAM-dependent-methyltransferase
MYGRFAEAYARHSEDSPANAYYDRSAVLELAGDVAGKRVLELGSAAGALTEQLVYRGAHVLGLDREPEMVRLARLRLGQRARFEVADLAEPLTTVPTGSIDLVVASLVLHYLADWAPVLAELHRCLVPGGALVLSVHHPAADWQWAGRPVYLDTTLVTETWHLGDQPVEVSFYRRPLSQIFRLLRQAGFTIEQLEEPRPLPALEAANPKAYKTLSSEPVFLLVRAVAAR
>NC_009142.1|WP_011873618.1|2472638_2473718_-|hypothetical-protein
MRAHITKLVTLLLVVGVLVLAVLVSDRYLPDLPQQPERLPAAVVTMGDSTLSGEGGGNYEAGTNGENDNWCHRSPAAPVHQLRLPADVTPINLACSGARTDVVGANPESGRLETSQARQLAELAHRYRVTDVIVQVGANDDPGFSDVVNRCVEAWASRSAVGCAEQMRAEWPKRVERMKPKVHAALGDIRAAMDSAGYTPGSYSLVVQSYASPVGPEVAPELQNLSGCPFLTPDLAWIRDTGVQQLSDGLHDVAQQVGARFLDLSQAGRGHEACTGGNKTPEEEWFTRLTVDWPSLKDELRAPHAMQESFHANATGHAQFARCLRAFLATEDPTAVCLPDERGNLQAVSPEVAAQRSNP
>NC_009142.1|WP_009945815.1|2473875_2474499_+|FxsA-family-protein
MPILVLLLVAAIVEISVLVAIGQVIGVWPTLGLLVVAAVLGSWLVRREGRRTLREINEAVRAKRPPTREFADGALIAVGGILIILPGFVSDVLGLLCLFPPTRALARRRMQRAAERRSQQMQDQVWLHTQRIRREQTAAGGGAAAGFGSRSGADDGVIDGEVISVTEDDDPSHGDDGTRSQIPGARGGTGPSGSSSQAASPDDSSGR
>NC_009142.1|WP_009945814.1|2474634_2476260_+|amidohydrolase
MSDTTLLLGGRIHSPAGPDVTAMAVIDGTVAWVGSDQVGRALHPDAEVVDLGGAFVTPAFVDAHVHATSTGLLLNGLDLTGCASLTEFLHALRDHVEEHPGSLVWGHGWDETWWPERRPPTRSEIDSAAAGAAVYLSRIDVHSALVSSALVERAPLARGAEGWSQEGPLTRVAHHHARSAARESLSSAQRREAQLEFLRDVASKGVACVHECAGPDISGADDLADLLDVAAKGGLPEVVGYWGELGALERARELGVRGLGGDLFVDGAIGSRTAALHEPYTDDPSTSGVLYLDAQAVAEHLVECTRNGLQAGFHVIGDAGVAEVAEGFRRAAETVGVPALAGARHRLEHLEMIDAEQAAELGRYGVAASVQPAFDAAWGGTEDMYARRLGTARGTRLNPFSQLAASGVLLAFGSDAPVTPVDPWRSVQAAVNHRTEGFGISPRAAFTAHTKGGWRAAGVDDGVTGTLVPGAPATYAVWDAGELVVAAPDSRVQRWSTDPRAGVPGLPDLSSGARLPRCLRTVLRGETIYVRQSDDDESHDH
>NC_009142.1|WP_009945812.1|2476553_2477156_+|DUF1707-and-DUF2154-domain-containing-protein
MSSSEGGGERPPAIRASDAERDQVAKRLTEAVGEGRLALAEFTQRVDAAYAAATRAELEALTADLPAERGDQDQGGEPEHKRRWKLAIMGGSDYEGRWRVPRRVGVFALMGGSKVDLREAVLPGGEVEITLVSIMGGSDVIVPRGVRVVVEATDFLGGNKVKVDEDAELPDAPLVRIRTYSFMGGNDVRHPKLKLSRRDR
>NC_009142.1|WP_009945810.1|2477378_2478857_+|apolipoprotein-N-acyltransferase
MLLAVAAGFALYAVSPPHDVWWLAPVAFAGFALVVLGRRARAGFGYGLLFGFAFMLPLLGWLQDFLSAQFGPWPWLGVAAVEALFFGLAGAGMARVSRLAAAPVWMAAVFVVAESLRSSVPFGGFPWGRLAFTQATGALLPLASLGGAVFVTFAVALIGAAVAQFVARLRERSGLVAPVATALVPVLAGLAALPTIGTEPDAGTARVAVIQGNAPDIGLDLLYEDDVLHDNHMRAADRFADDVRAGRVPRPDLVVLPEQVGSWGPAKYDPELSRIAAEIGVPMLVGGLGVDEDGQLRNKIVQWDPVTGPGGEYHKQHLVPFAETIPMRPVARLVSPFVDRFERDMVPGRRPGVLDAGPARVGLGMCYDVAYDDVFTGATREGATLLAVPTNNAWYGHSEMSYQQLAMSRLRAVEHGRAVVVAATSGVSAIVRPDGTVAQQTGQFVAQNVVGEVPLRSSGTPATWLGNAPLWVLVALGVGALAFTLRRRSRDV
>NC_009142.1|WP_009945808.1|2478928_2479717_+|polyprenol-monophosphomannose-synthase
MAKRQDPLDGPAGSPGSAVVVIPTYNERDNLGPIVDRLLTALPQVHVLVVDDGSPDGTGEVADRLAAADERVHVMHRTQKAGLGAAYVAGFEWALQRDYEAVIEMDADGSHSPEELPRLFAVLAAGADVVIGSRYVPGGRVVNWPWHREALSRGANLYSKLALGLSINDITAGYRVYRREVLEKLDLRGVESAGYCFQVDLTWRAVKAGCTVVEAPITFIEREVGESKMSGSVVREALLRVTEWGVRRRGGQALDLLRRTLR
>NC_009142.1|WP_009945807.1|2479778_2480123_-|RNA-polymerase-binding-protein-RbpA
MADRVLRGSRLGAVSYETDRNHDLAPRRTVRYACTKDHEFEVPFSDDAEIPPTWECRLHGTESKIVDGSEPEQKKAKPPRTHWDMLLERRSIPELEELLNERLEMLRGRRSHSA

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Crispr_ID: NC_009142_8

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_8

2779878-2780124

Orphan

Consensus_repeat	Method
CTCGCCGTCCCCGCCGGGACGGCCCTTCATT	CRISPRCasFinder
CCGGGACGGCCCTTCATTGAGGC	PILER-CR

3 spacers

The CRISPR arrays of NC_009142_8

>merge|NC_009142|8|2779878-2780124|CRISPRCasFinder,PILER-CR
CTCGCCGTCCCTACCGGAACGGCCCTTCATTGAGGCCGCCTGGTCGAGCGTGACGGGGAGCGGATCGCCCAGCTCGCCGTCCCTACCGGGACGGCCCTTCATTGAGGCGACGCCGCCGTACGCGCGACACGGGCTGTGCTGCACCGCTCGCCGTCCCCGCCGGGACGGCCCTTCATTGAGGCTCGGGCCAGGCAAACATCGCCAACTCGCTACTGTCTCGCCGTCCCCGCCGGGACGGCCCTTCATT

>NC_009142|8|7|2779878-2780124|CRISPRCasFinder
CTCGCCGTCCCTACCGGAACGGCCCTTCATT	GAGGCCGCCTGGTCGAGCGTGACGGGGAGCGGATCGCCCAG
CTCGCCGTCCCTACCGGGACGGCCCTTCATT	GAGGCGACGCCGCCGTACGCGCGACACGGGCTGTGCTGCACCG
CTCGCCGTCCCCGCCGGGACGGCCCTTCATT	GAGGCTCGGGCCAGGCAAACATCGCCAACTCGCTACTGT
CTCGCCGTCCCCGCCGGGACGGCCCTTCATT

>NC_009142|8|1|2779891-2780059|PILER-CR
CCGGAACGGCCCTTCATTGAGGC	CGCCTGGTCGAGCGTGACGGGGAGCGGATCGCCCAGCTCGCCGTCCCTA
CCGGGACGGCCCTTCATTGAGGC	GACGCCGCCGTACGCGCGACACGGGCTGTGCTGCACCGCTCGCCGTCCCCG
CCGGGACGGCCCTTCATTGAGGC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_081494999.1\|2780716_2781244_-\|IS5-family-transposase	unknown	unknown	gnl\|CDD\|290319
NC_009142.1\|WP_081468437.1\|2771935_2772646_+\|TetR/AcrR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|379883
NC_009142.1\|WP_009951573.1\|2770898_2771858_-\|zinc-binding-alcohol-dehydrogenase-family-protein	unknown	unknown	gnl\|CDD\|223677
NC_009142.1\|WP_009951258.1\|2784555_2785326_-\|SDR-family-oxidoreductase	unknown	unknown	gnl\|CDD\|235546
NC_009142.1\|WP_009951533.1\|2777567_2778488_-\|TIGR03564-family-F420-dependent-LLM-class-oxidoreductase	unknown	unknown	gnl\|CDD\|274651
NC_009142.1\|WP_021342208.1\|2770411_2770750_+\|MFS-transporter	unknown	unknown	gnl\|CDD\|225371
NC_009142.1\|WP_009951256.1\|2785360_2786500_-\|mandelate-racemase/muconate-lactonizing-enzyme-family-protein	unknown	unknown	gnl\|CDD\|239432
NC_009142.1\|WP_021341968.1\|2788165_2789494_-\|MFS-transporter	unknown	unknown	gnl\|CDD\|340927
NC_009142.1\|WP_009951535.1\|2776030_2776900_-\|AAA-family-ATPase	unknown	unknown	gnl\|CDD\|316042
NC_009142.1\|WP_009951536.1\|2775337_2775973_-\|MFS-transporter	unknown	unknown	gnl\|CDD\|340951
NC_009142.1\|WP_009951254.1\|2786540_2788166_-\|amidohydrolase-family-protein	unknown	unknown	gnl\|CDD\|238622
NC_009142.1\|WP_170108607.1\|2779606_2779816_+\|IS3-family-transposase	unknown	unknown	gnl\|CDD\|222853
NC_009142.1\|WP_009951250.1\|2790937_2791429_+\|Rrf2-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224870
NC_009142.1\|WP_009951262.1\|2781995_2783384_-\|sugar-porter-family-MFS-transporter	unknown	unknown	gnl\|CDD\|340917
NC_009142.1\|WP_011873739.1\|2778598_2779165_+\|TetR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|188483
NC_009142.1\|WP_011873737.1\|2773742_2774891_+\|IS30-family-transposase	unknown	unknown	gnl\|CDD\|225382
NC_009142.1\|WP_009951252.1\|2789609_2790248_+\|GntR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224715
NC_009142.1\|WP_143538125.1\|2773037_2773670_-\|IS3-family-transposase	unknown	unknown	gnl\|CDD\|222853
NC_009142.1\|WP_009951259.1\|2784145_2784541_-\|sensory-rhodopsin-transducer	unknown	unknown	gnl\|CDD\|377776
NC_009142.1\|WP_031334623.1\|2791395_2792145_+\|SDR-family-oxidoreductase	unknown	unknown	gnl\|CDD\|235816

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_081494999.1\|2780716_2781244_-\|IS5-family-transposase	gnl\|CDD\|290319	pfam13586, DDE_Tnp_1_2, Transposase DDE domain. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contain three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis.	1.2614e-06
NC_009142.1\|WP_081468437.1\|2771935_2772646_+\|TetR/AcrR-family-transcriptional-regulator	gnl\|CDD\|379883	pfam16859, TetR_C_11, Bacterial transcriptional repressor C-terminal. This family of bacterial transcriptional repressors is characterized by the short approximately 50 amino acid stretch of residues constituting the helix-turn-helix DNA binding motif, around the YRFhY motif. The target proteins that are repressed are involved in the transcriptional control of multi-drug efflux pumps, pathways for the biosynthesis of antibiotics, response to osmotic stress and toxic chemicals, control of catabolic pathways, differentiation processes, and pathogenicity. Another target protein is BetI, an osmoprotectant which controls the choline-glycine betaine pathway in E.coli.	2.5237e-15
NC_009142.1\|WP_009951573.1\|2770898_2771858_-\|zinc-binding-alcohol-dehydrogenase-family-protein	gnl\|CDD\|223677	COG0604, Qor, NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only].	1.1623e-30
NC_009142.1\|WP_009951258.1\|2784555_2785326_-\|SDR-family-oxidoreductase	gnl\|CDD\|235546	PRK05653, fabG, 3-oxoacyl-ACP reductase FabG.	1.51157e-62
NC_009142.1\|WP_009951533.1\|2777567_2778488_-\|TIGR03564-family-F420-dependent-LLM-class-oxidoreductase	gnl\|CDD\|274651	TIGR03564, F420_MSMEG_4879, F420-dependent oxidoreductase, MSMEG_4879 family. Coenzyme F420 is produced by methanogenic archaea, a number of the Actinomycetes (including Mycobacterium tuberculosis), and rare members of other lineages. The resulting information-rich phylogenetic profile identifies candidate F420-dependent oxidoreductases within the family of luciferase-like enzymes (pfam00296), where the species range for the subfamily encompasses many F420-positive genomes without straying beyond. This family is uncharacterized, and named for member MSMEG_4879 from Mycobacterium smegmatis. [Unknown function, Enzymes of unknown specificity].	1.53706e-92
NC_009142.1\|WP_021342208.1\|2770411_2770750_+\|MFS-transporter	gnl\|CDD\|225371	COG2814, AraJ, Arabinose efflux permease [Carbohydrate transport and metabolism].	4.6975e-07
NC_009142.1\|WP_009951256.1\|2785360_2786500_-\|mandelate-racemase/muconate-lactonizing-enzyme-family-protein	gnl\|CDD\|239432	cd03316, MR_like, Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues, a Lys-X-Lys motif and a conserved histidine-aspartate dyad. Members of the MR subgroup are mandelate racemase, D-glucarate/L-idarate dehydratase (GlucD), D-altronate/D-mannonate dehydratase , D-galactonate dehydratase (GalD) , D-gluconate dehydratase (GlcD), and L-rhamnonate dehydratase (RhamD).	4.94743e-111
NC_009142.1\|WP_021341968.1\|2788165_2789494_-\|MFS-transporter	gnl\|CDD\|340927	cd17369, MFS_ShiA_like, Shikimate transporter and similar proteins of the Major Facilitator Superfamily. This subfamily is composed of Escherichia coli shikimate transporter (ShiA), inner membrane metabolite transport protein YhjE, and other putative metabolite transporters. ShiA is involved in the uptake of shikimate, an aromatic compound involved in siderophore biosynthesis. It has been suggested that YhjE may mediate the uptake of osmoprotectants. The ShiA-like subfamily belongs to the Metazoan Synaptic Vesicle Glycoprotein 2 (SV2) and related small molecule transporter family (SV2-like) of the Major Facilitator Superfamily (MFS) of membrane transport proteins. MFS proteins are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	1.23083e-116
NC_009142.1\|WP_009951535.1\|2776030_2776900_-\|AAA-family-ATPase	gnl\|CDD\|316042	pfam13481, AAA_25, AAA domain. This AAA domain is found in a wide variety of presumed DNA repair proteins.	8.97784e-09
NC_009142.1\|WP_009951536.1\|2775337_2775973_-\|MFS-transporter	gnl\|CDD\|340951	cd17393, MFS_MosC_like, Membrane protein MosC and similar proteins of the Major Facilitator Superfamily of transporters. The gene encoding Sinorhizobium meliloti membrane protein MosC is part of the mos locus, which encodes the biosynthesis of the rhizopine 3-O-methyl-scyllo-inosamine. MosC belongs to the bacterial fucose permease, eukaryotic Major facilitator superfamily domain-containing protein 4 (FucP/MFSD4) family of the Major Facilitator Superfamily (MFS) of transporters. MFS proteins are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	0.000137531
NC_009142.1\|WP_009951254.1\|2786540_2788166_-\|amidohydrolase-family-protein	gnl\|CDD\|238622	cd01297, D-aminoacylase, D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics.	2.88743e-63
NC_009142.1\|WP_170108607.1\|2779606_2779816_+\|IS3-family-transposase	gnl\|CDD\|222853	PHA02517, PHA02517, putative transposase OrfB; Reviewed.	5.45589e-08
NC_009142.1\|WP_009951250.1\|2790937_2791429_+\|Rrf2-family-transcriptional-regulator	gnl\|CDD\|224870	COG1959, COG1959, Predicted transcriptional regulator [Transcription].	3.64607e-30
NC_009142.1\|WP_009951262.1\|2781995_2783384_-\|sugar-porter-family-MFS-transporter	gnl\|CDD\|340917	cd17359, MFS_XylE_like, D-xylose-proton symporter and similar transporters of the Major Facilitator Superfamily. This subfamily includes bacterial transporters such as D-xylose-proton symporter (XylE or XylT), arabinose-proton symporter (AraE), galactose-proton symporter (GalP), major myo-inositol transporter IolT, glucose transport protein, putative metabolite transport proteins YfiG, YncC, and YwtG, and similar proteins. The symporters XylE, AraE, and GalP facilitate the uptake of D-xylose, arabinose, and galactose, respectively, across the boundary membrane with the concomitant transport of protons into the cell. IolT is involved in polyol metabolism and myo-inositol degradation into acetyl-CoA. The XylE-like subfamily belongs to the Glucose transporter -like (GLUT-like) family of the Major Facilitator Superfamily (MFS) of membrane transport proteins. MFS proteins are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	3.67649e-127
NC_009142.1\|WP_011873739.1\|2778598_2779165_+\|TetR-family-transcriptional-regulator	gnl\|CDD\|188483	TIGR03968, transcriptional_regulator_TetR_family, mycofactocin system transcriptional regulator. Members of this family are TetR family putative transcriptional regulators that occur in genome contexts near proteins of the mycofactocin system. These include the precursor peptide (TIGR03969), a radical SAM peptide maturase (TIGR03962), and a putative carrier protein (TIGR03967). [Regulatory functions, DNA interactions].	1.02513e-13
NC_009142.1\|WP_011873737.1\|2773742_2774891_+\|IS30-family-transposase	gnl\|CDD\|225382	COG2826, Tra8, Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair].	1.13295e-98
NC_009142.1\|WP_009951252.1\|2789609_2790248_+\|GntR-family-transcriptional-regulator	gnl\|CDD\|224715	COG1802, GntR, Transcriptional regulators [Transcription].	3.68404e-40
NC_009142.1\|WP_143538125.1\|2773037_2773670_-\|IS3-family-transposase	gnl\|CDD\|222853	PHA02517, PHA02517, putative transposase OrfB; Reviewed.	1.61771e-44
NC_009142.1\|WP_009951259.1\|2784145_2784541_-\|sensory-rhodopsin-transducer	gnl\|CDD\|377776	pfam07100, ASRT, Anabaena sensory rhodopsin transducer. The family of bacterial Anabaena sensory rhodopsin transducers are likely to bind sugars or related metabolites. The entire protein is comprised of a single globular domain with an eight-stranded beta-sandwich fold. There are a few characteristics which define this beta-sandwich fold as being distinct from other so-named folds, and these are: 1) a well conserved tryptophan, usually following a polar residue, present at the start of the first strand; this tryptophan appears to be central to a hydrophobic interaction required to hold the two beta-sheets of the sandwich together, and 2) a nearly absolutely conserved asparagine located at the end of the second beta-strand, that hydrogen bonds with the backbone carbonyls of the residues 2 and 4 positions downstream from it, thereby stabilizing the characteristic tight turn between strands 2 and 3 of the structure.	4.71975e-60
NC_009142.1\|WP_031334623.1\|2791395_2792145_+\|SDR-family-oxidoreductase	gnl\|CDD\|235816	PRK06500, PRK06500, SDR family oxidoreductase.	2.43417e-85

>NC_009142.1|WP_170108607.1|2779606_2779816_+|IS3-family-transposase
MELVYRNSWRTRDEAENAIFGYIDGWYNTQRIQKDLGWLSPDEYESAWHANQEVQPLPDTIPASPTGTR
>NC_009142.1|WP_011873739.1|2778598_2779165_+|TetR-family-transcriptional-regulator
MGRWPAGAQERLQRAAIELFSERGYERTTVADITQSAGLTERTFYNHFVDKREVLFPDQDRFIADVVEAVGAAPADRSPLDVIIAALTVDTEWFDRRRDAAQRRRRILDTRAELRERELAKMAALDTAITGALRARGSSNTSAALTAAAAVAAYRLGTDNWLADPRGRTLRHHLRSIFEELRRTAENW
>NC_009142.1|WP_009951533.1|2777567_2778488_-|TIGR03564-family-F420-dependent-LLM-class-oxidoreductase
MFLGGTFAQEPGIGNIVDRAVELAHEAADAGVHTLWFGQGVDFDAIQLAAHVGRAEPRVHVGTSTVPMYPRHPLLVAAAAKTAQAATAGRFRLGVGLGARNLLEPEFGLPYPPQIRHLREYFAALRPLLDGDDSAFEGETLVSRPVTPTAVAGAAPAIPILAAAMGPRALAVAGELADGTATYLAGPRTLAERIVPGITEAAAAVGRPAPQIVAGVPAVVTDDVAAARAHAADVLGFYDNIPSYQKVVATEGLSSAADLLLAGGEDTVAAGLRRYIDAGATEIMISHAELFGEQARARTWALARRL
>NC_009142.1|WP_009951535.1|2776030_2776900_-|AAA-family-ATPase
MYVATEDSWEYTLAPRLAAAGADLDRVLAVHTESRLGDEVAVGTVSLSVDMPALKAAVQATGTRVVVLDALLSAMTGADLAKQGVVRSLLEPLSQLVQECGLAIVGIAHFRKSAGTDPLLMISGSAEFGQVVRSALGFARDPAAEDGSCVLSLIKTNLAPMGTRSLRYCIKPASAEAEDGRSASVGRFELVGESEQTVAELLVAVPVSRDEQAERAEAQEWLRRYLVEAGGRAEAGTVIRAAEAAGLSRDQVKKARRKIGARTTKAGFAGSGWEWVLSDGDEGAEGAHE
>NC_009142.1|WP_009951536.1|2775337_2775973_-|MFS-transporter
MAEGARGLRELLGIRSFRYLLAQRLFSGQNVMMSFGIVFLVEERGFSTSTASLAALPFSLGYVVGTLLGGRLLDRLHLALPRSGRVIRLQASQLAFAAVAFVALQLAAEGIAPYVVLFAMLGLLQGQVPVVNRPLVMGVVPPHLRSLAFAVSVYLVESVAYGGYALLAGYLGDQIGLQPALLLITVALTVANGLASAALYRPYARDSTDIS
>NC_009142.1|WP_011873737.1|2773742_2774891_+|IS30-family-transposase
MARLGRPGMSDEMKEDLWRRWRAGESISVISREIGKPPGSVFTVLKHHGGIAPQSRRQRAGSLTLPEREEISRGLSAGYSFQAIAAFLQRAVSTISREVTKNGGRHAYRATAAQERAREQARRPKPCLLARQPALRDEIVALLGEEWSPEQIVGHLRRHGGDAAERTISHETIYRSIYTTRWKVIPRELCKRLRTGRPIRKNKRNTVKGQWRSQIIDARPIEQRPDTAQDRSTLGHFEGDLVIGANHSQVATLVDRKTRYLVIVKLPSRHSTVVVPELIKTYAGLDPRLRDTLTWDRGMELAEHKRFTAATGVDVFFAAPRSPWQRGTNENTNKLVRQYLPKGTNLATFTQAELDAIATKLNTRPRKCLGFRTPAEAVALTG
>NC_009142.1|WP_143538125.1|2773037_2773670_-|IS3-family-transposase
MNQRCALIEAEKAHYSIAWMCRMLGVSRSSFYAWRHRAETPTRTRRRELAEHVRRVFDDSRQTYGCRRVCAQLAREGIAASVGLVADLMRELGLTAVQPRAYKTTTVPGEEPIISPDLLDRDFTAQQPGNRLVGDITYLRTGEGWLYLATVIDLATRMVIGWAMAEHMRTSLVIDALAMARTHGHLRDGAVFHSDRGAQYTSKEFSRYCW
>NC_009142.1|WP_081468437.1|2771935_2772646_+|TetR/AcrR-family-transcriptional-regulator
MLRAYDGGLRYASGSNCLVESLEIDVRGVAVSEGRTKSTPARRRGAVLENAIIDAAWEVLVERGYNGFTFEAVAAHAGTSKPVLYRRWPQRADLLIATLTRHWYPLEIPDTGSLRQDALALLRAVNAERARTVMLMRIQLADYFRETGTNFSDLRSRLRLADEKPPFAQLVDSAVERGELAEVPRPERVVNLPFDLLRHDLLMGTGAVPDETIVEIVDAVWLPLLDLTLHGTQPRR
>NC_009142.1|WP_009951573.1|2770898_2771858_-|zinc-binding-alcohol-dehydrogenase-family-protein
MPLINAALVESFDEPPHFRSIPAPEAAPGQEVVDVLAVGVHPATRGIAAGKHHTSPQSLPALAGADAVVRRADGSLAYVMVMGAGTLAERIVIDPATAIPVPGGADPALLVATMNPALSSWCALRTRVPFQAGQSVLVHGATGNAGSMAIKVAKHLGAARVIAAGRNRARLDELTGQGADHIVQLTPDQDVTAAALAEAAADVDVALDYVWGPPTELAMRAVLGARTQHTRLLDWVQIGGMGGDAITLSGHALRSNAFRVLGSGFGSVDMQIMQREFTQLITVIAAGAMAVRPHPFPLAEVEAAWAHHDAPGERTVIIL
>NC_009142.1|WP_021342208.1|2770411_2770750_+|MFS-transporter
MPTATLPAASTGHLPLVTCVLAVGVFLMGTTGYVVAGVLPEIVGDVGISVTYVARVIIMFAVGMIVDTPTMAILTLRLACQRASGLALVVFAIGHASSQSVRVSRSSSAPGC
>NC_009142.1|WP_081494999.1|2780716_2781244_-|IS5-family-transposase
MSPASWPNAICGSRRPTSRWGSARWGGRRCWSWCRDRSGIPLAVVISAANRNDHRELQTVIDAVAPVRGSAGRPRRRPRKLHADKGYDYPVCRHALRRRGIIARIARRGIESTTRLGRHRYVIERTLEWVSRFRRLARRYERKAAHYAAFASLACAVICYRRAAKLDLLTHNNPK
>NC_009142.1|WP_009951262.1|2781995_2783384_-|sugar-porter-family-MFS-transporter
MDNATATERKTDVSRSRYTSPFIAFVAALGGLLFGYDTGVVSGALLFFKDEFALSSFEQGIVVSVMQLGAVIGALCCGPVSDRYGRRWALAGSAAAFACGAVLAAVAPSYFWLVIARIAQGLGVGSAALTVPVYIAEIAPPRIRGTLVSLNQLLITVGILLSYVVNYLLAPAGAWRWMFGLAAVPSVILLLSLRFLPESPRWLVTRGRMTEARSTLAAVSESDLDIEREIAGIRESATGGSGSWRSLFGRVARPALAIGLILALFQTITGIDTVIYFAPTILHSAGFDAVSSVLSTVGIGVVNVGMTVVSILLLDRIGRRGPLLAGTAVMATGLVLLGFTFSGPAASPSWLSVVTLMVFVGAFAIGLGPVFWLINAEIYPLRLRAKAAGMATMTIFGSNAVVSATFLPLVDVLGQAGVFWLYAAITVLAVGFIHFRVPETKGRTLEEIEATLRSGALRPKSR
>NC_009142.1|WP_009951259.1|2784145_2784541_-|sensory-rhodopsin-transducer
MHQLQHESRLGATRWAIGDGWIPPYSTGDDPALRSHESVCILNSGREDADVEIVLYFADRPPVGPYQVTIPAERVRHVTLNDLVEPEPVPVATDFSADVTSSHPIVVQHTRLDSRQAANTLFSTIAFSAGA
>NC_009142.1|WP_009951258.1|2784555_2785326_-|SDR-family-oxidoreductase
MTRSALLITGAGSGIGRAVACAAARDGWYVHATDIDHAAAAETLDRVRQRGGHGTSHGLDVTDAAAVAQTFSALDAASVPLRGLFTAAGIDSGGASHELDPAVWRRVLDVNATGTFLVVQQALEAMMHGGGSIVLCGSPAAQVGFAAGGVTAYGASKGAISSMTRTLAVDYARFGIRINAIVPGPTETPLMWANVPSADVERMRDQVAREVPLGRMAQPEEIAESVLWLLSDRASYTTGSLIGCDGGVLAKSSISV
>NC_009142.1|WP_009951256.1|2785360_2786500_-|mandelate-racemase/muconate-lactonizing-enzyme-family-protein
MKIIDIRATGLRGATPEGGWQEELTQDDVVHTLVTVHAEDGLVGIGSVFTSESLVRGALEVLRPVIIGANALEPERTSERLHRTTFWMGRGGSITHAISGIDTALWDILGKATAQPVGRLLGGRYRERVRPYASLLMEQPEPMRDHLLQLRDTGWTAFKIGWGPFGRIDQRLDERIVAAAREAVGPDAMLMVDAGASDSAWTQGYKWALRSAHMLRDYDVAWFEEPLPPDAIDDYTHLRRLAPVAISGGEVLTRRQSFHPWIEAGALDIVQPDVTKVGGISELRRIGWAAHDHGVKLIPHGWNTAVGLATDLQLASALPDTDLVEYVTGSPYIDDITARPWQLDDDGMLAIPDEPGLGIDLDPGKLAQYTDAVHLLGAV
>NC_009142.1|WP_009951254.1|2786540_2788166_-|amidohydrolase-family-protein
MPAATAPAVDFVLLGGKVVDGSGTPARVADVAVKDGRVVAVESGLRAEAGQRIDVTELTVVPGFIDPHSHSDWSVLGNRDAQSTIRQGVTTEVVGNCGVTYAPLSAAGVDPARNALSAYGYDGKVTWRGFAELLDVVHRHGGGTSQNLAWFVGHTALRDAAELRGTGADAGGIRRMVRHLEEAMDAGALGMSSGLEYGSGRDATTDELTGVAAALARYDGIYASHIRNRDAHLLDAVDEFLAIAGRNGLRAQLSHLNVRHDTGALPDAWHEAVGRLAAEREAGMDVLADMTPYPHGIGLATGLLPGWLLGDGPAHAARLLDDAEVRARLRGDCDRYWRFVHKGQWDRVVLATSPATPELEGLSFPQIAERRGQDCWDAFFDVLQAAGTDMQAVQLMGRLFTPEHVAEAIAHPLFCLGVDGFTSRTDGPLAERTRHPLFFTGHTHYIAHHVLQAGTLTLEEAVRKGTSMVADRFALHGRGRVQVGAHADLAVLDLAALAAQDTFAFTGRYAAGVPHVIVNGRLVVHDGQHLGTRAGQYLPRS
>NC_009142.1|WP_021341968.1|2788165_2789494_-|MFS-transporter
MERGTPARQRRTDTGRRVPGKVTTAAVLGTVLEWYDFAIYGAMAGVIGRLFFPSDDPTVSLLVSLASYAVGFVCRPLGAILLGRLGDRAGRRSMLALTMVIVGVSSLLIGLLPTYASVGLLAPALLVALRMLQGLAVGAEWTGGATYLIEHARTGRRGLFSGIVQASTVAGFLLGTGIATVIVRVVPEQTVDAWGWRVPFLVGGVVAAVGLFVRLKLDESPAYRALGEEEVRSRQMSTNDVPATDNEGRTTTRRNWLLVLGIVFGVTLYGYTATSFPTFLTGVDALPLADALMTNVVALLIEVPLIIAAGVLSDRVGRKKLMTGAMALFALGTYPVFALVASGTIAGALLGQVVFVVLFATVSGPMAAMFVELFPTRVRSAAFSSSYNIGVAVFGGTAPFVNTFLATSTGVDVAPAFYLTFGALISLVFLSRVRDGHDQELR
>NC_009142.1|WP_009951252.1|2789609_2790248_+|GntR-family-transcriptional-regulator
MSALPASPPESRRDWILRNLRERIASGELAAGERLVERDISADYGISRGPVREAIMVLEREGLIVSHPYRGAVVAEITQQEISDILVPIRLVIEKVAFRDAAKAWNEELLAALEVIVRRMESAAQPLDARRLADLDVTFHETVIAAAQHTQSLQIWRTIQPRVRAYFLRDAPHHGSPHAVVEQHRALLDALGSGDPQRAETEITKHIGIYLD
>NC_009142.1|WP_009951250.1|2790937_2791429_+|Rrf2-family-transcriptional-regulator
MAGNSRLTVAAHALTWIELHHRREGGTATSERIAGSVNTNPVVIRRLLGRMRDAGLVHSRRGAEAGWVLARPLEEMTLRDVYEAIEPAPLFAVHRSEPNLDCPIGSGIRPVMRLAYARVEQAVRAELECITLADVLRDVLAGSDPTELEHDLPWGNLTERPPS
>NC_009142.1|WP_031334623.1|2791395_2792145_+|SDR-family-oxidoreductase
MGQLDGKTAIVTGGNSGIGLASAKRFAAEGAHVFITGRRQEALDTALSEIGSNATGVRGDVSDLSDIDRLYAAVADQGRRVDVLFANAGGGEFSTLEHVTEEHFDITFGTNVRGMLFTVQKALPLLNDGASVILTGSTAAGSGGEAFGVYAASKAAVRSFSRTWANELKHRKIRVNTLVPGPIATPGTAGLAPNPDEAAKLWAFFASQVPLGRMGRPDEAAAAALFLAGDQSSFVTGTELFVDGGLNQI

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Crispr_ID: NC_009142_9

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_9

5389161-5389263

Orphan

Consensus_repeat	Method
TGCGGGACACCGGCACCCGGTCGGCAACC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_009142_9

>merge|NC_009142|9|5389161-5389263|CRISPRCasFinder
TGCGGGACACCGGCACCCGGTCGGCAACCGCGAGCGGAAATGGACGATGCACGCTCACGGTTGCCTCCATGCCTTGCGGGACACCCGCACCCGGTCGGCAACC

>NC_009142|9|8|5389161-5389263|CRISPRCasFinder
TGCGGGACACCGGCACCCGGTCGGCAACC	GCGAGCGGAAATGGACGATGCACGCTCACGGTTGCCTCCATGCCT
TGCGGGACACCCGCACCCGGTCGGCAACC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_009950321.1\|5400902_5401892_-\|BtrH-N-terminal-domain-containing-protein	unknown	unknown	gnl\|CDD\|379786
NC_009142.1\|WP_009950324.1\|5396426_5397362_+\|sugar-ABC-transporter-permease	unknown	unknown	gnl\|CDD\|224096
NC_009142.1\|WP_009950325.1\|5395149_5396430_+\|extracellular-solute-binding-protein	unknown	unknown	gnl\|CDD\|270303
NC_009142.1\|WP_044547527.1\|5392561_5393749_-\|Gfo/Idh/MocA-family-oxidoreductase	unknown	unknown	gnl\|CDD\|223745
NC_009142.1\|WP_009950326.1\|5393812_5394868_+\|LacI-family-DNA-binding-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224525
NC_009142.1\|WP_011874473.1\|5388187_5389144_-\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|223674
NC_009142.1\|WP_011874471.1\|5380524_5381775_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_011873634.1\|5378091_5378916_+\|IS5-family-transposase	unknown	unknown	gnl\|CDD\|379129
NC_009142.1\|WP_009950329.1\|5391693_5392569_-\|PmoA-family-protein	unknown	unknown	gnl\|CDD\|379468
NC_009142.1\|WP_009950323.1\|5397448_5398246_+\|carbohydrate-ABC-transporter-permease	unknown	unknown	gnl\|CDD\|223472
NC_009142.1\|WP_009950331.1\|5391082_5391634_+\|DUF488-domain-containing-protein	unknown	unknown	gnl\|CDD\|377317
NC_009142.1\|WP_009950337.1\|5383636_5385625_-\|CocE/NonD-family-hydrolase	unknown	unknown	gnl\|CDD\|225487
NC_009142.1\|WP_009950322.1\|5398257_5400882_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009950336.1\|5385621_5387349_-\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|224048
NC_009142.1\|WP_011874472.1\|5387345_5388188_-\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|224094
NC_009142.1\|WP_011874470.1\|5379972_5380515_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009950338.1\|5383025_5383640_-\|TetR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|379409
NC_009142.1\|WP_009950340.1\|5381778_5382957_+\|cytochrome-P450	unknown	unknown	gnl\|CDD\|225035
NC_009142.1\|WP_011874469.1\|5379481_5379943_+\|transcriptional-regulator	unknown	unknown	unknown
NC_009142.1\|WP_044547970.1\|5389289_5390846_-\|ABC-transporter-substrate-binding-protein	unknown	unknown	gnl\|CDD\|173868

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_009950324.1\|5396426_5397362_+\|sugar-ABC-transporter-permease	gnl\|CDD\|224096	COG1175, UgpA, ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism].	7.57559e-90
NC_009142.1\|WP_009950325.1\|5395149_5396430_+\|extracellular-solute-binding-protein	gnl\|CDD\|270303	cd13585, PBP2_TMBP_like, The periplasmic-binding component of ABC transport systems specific for trehalose/maltose and similar oligosaccharides; possess type 2 periplasmic binding fold. This family includes the periplasmic trehalose/maltose-binding component of an ABC transport system and related proteins from archaea and bacteria. Members of this group belong to the type 2 periplasmic-binding fold superfamily. PBP2 is comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. The majority of PBP2 proteins function in the uptake of small soluble substrates in eubacteria and archaea. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.	7.57444e-34
NC_009142.1\|WP_044547527.1\|5392561_5393749_-\|Gfo/Idh/MocA-family-oxidoreductase	gnl\|CDD\|223745	COG0673, MviM, Predicted dehydrogenases and related proteins [General function prediction only].	2.19175e-33
NC_009142.1\|WP_009950326.1\|5393812_5394868_+\|LacI-family-DNA-binding-transcriptional-regulator	gnl\|CDD\|224525	COG1609, PurR, Transcriptional regulators [Transcription].	5.07126e-99
NC_009142.1\|WP_009950329.1\|5391693_5392569_-\|PmoA-family-protein	gnl\|CDD\|379468	pfam14100, PmoA, Methane oxygenase PmoA. This family is a putative methane oxygenase.	1.92263e-72
NC_009142.1\|WP_011873634.1\|5378091_5378916_+\|IS5-family-transposase	gnl\|CDD\|379129	pfam13340, DUF4096, Putative transposase of IS4/5 family (DUF4096).	9.80836e-25
NC_009142.1\|WP_011874473.1\|5388187_5389144_-\|ABC-transporter-permease	gnl\|CDD\|223674	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism].	1.76272e-108
NC_009142.1\|WP_009950323.1\|5397448_5398246_+\|carbohydrate-ABC-transporter-permease	gnl\|CDD\|223472	COG0395, UgpE, ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism].	4.74547e-88
NC_009142.1\|WP_009950331.1\|5391082_5391634_+\|DUF488-domain-containing-protein	gnl\|CDD\|377317	pfam04343, DUF488, Protein of unknown function, DUF488. This family includes several proteins of uncharacterized function.	6.10158e-37
NC_009142.1\|WP_009950321.1\|5400902_5401892_-\|BtrH-N-terminal-domain-containing-protein	gnl\|CDD\|379786	pfam16169, DUF4872, Domain of unknown function (DUF4872). Members of this family are often found in the gene neighborhood, or fused to, non-ribosomal peptide synthetases.	1.18985e-61
NC_009142.1\|WP_009950336.1\|5385621_5387349_-\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|224048	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only].	0
NC_009142.1\|WP_011874472.1\|5387345_5388188_-\|ABC-transporter-permease	gnl\|CDD\|224094	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism].	6.55882e-73
NC_009142.1\|WP_009950338.1\|5383025_5383640_-\|TetR-family-transcriptional-regulator	gnl\|CDD\|379409	pfam13977, TetR_C_6, BetI-type transcriptional repressor, C-terminal. This family comprises the C-terminal portion of proteins that belong to the TetR family of transcriptional regulators. The C-terminus represents the regulatory region, and does not include the DNA binding helix-turn-helix domain. The target proteins that are repressed are involved in the transcriptional control of multi-drug efflux pumps, pathways for the biosynthesis of antibiotics, response to osmotic stress and toxic chemicals, control of catabolic pathways, differentiation processes, and pathogenicity. One of the target proteins is BetI, an osmoprotectant which controls the choline-glycine betaine pathway in E.coli.	5.11218e-21
NC_009142.1\|WP_009950340.1\|5381778_5382957_+\|cytochrome-P450	gnl\|CDD\|225035	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism].	5.60682e-45
NC_009142.1\|WP_009950337.1\|5383636_5385625_-\|CocE/NonD-family-hydrolase	gnl\|CDD\|225487	COG2936, COG2936, Predicted acyl esterases [General function prediction only].	1.88371e-132
NC_009142.1\|WP_044547970.1\|5389289_5390846_-\|ABC-transporter-substrate-binding-protein	gnl\|CDD\|173868	cd08503, PBP2_NikA_DppA_OppA_like_17, The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold. This CD represents the substrate-binding domain of an uncharacterized ATP-binding cassette (ABC) type nickel/dipeptide/oligopeptide-like transporter. The oligopeptide-binding protein OppA and the dipeptide-binding protein DppA show significant sequence similarity to NikA, the initial nickel receptor. The DppA binds dipeptides and some tripeptides and is involved in chemotaxis toward dipeptides, whereas the OppA binds peptides of a wide range of lengths (2-35 amino acid residues) and plays a role in recycling of cell wall peptides, which precludes any involvement in chemotaxis. Most of other periplasmic binding proteins are comprised of only two globular subdomains corresponding to domains I and III of the dipeptide/oligopeptide binding proteins. The structural topology of these domains is most similar to that of the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. Besides transport proteins, the PBP2 superfamily includes the ligand-binding domains from ionotropic glutamate receptors, LysR-type transcriptional regulators, and unorthodox sensor proteins involved in signal transduction.	0

>NC_009142.1|WP_011874473.1|5388187_5389144_-|ABC-transporter-permease
MPNFVLKRLGSAVLTIVLSSLMVFFAVQALPGDVASQVLGRDATPEAVAAMREQLHLDEPAWQRYLSWVGSALHGEFGTSLVSGDPVAADLGLHLRNTALIAVVTVVLAITLSLALGVIAGLYRDRWPDLAISWLSLIGMSIPEFVVATLLVLVFSVTVPLLPAVVLDGPNATVADLLPAIWLPAAALGVVMAAYIVRMARTSVIDVMAADFVTTATLKGLGRWRVVTRHALPSALLPTLNVIAMNIAWLVGGVVVVENVFNYPGAGKLMLESVYNRDLPMLQAIALLGACVYVVCNLAADLAAMALNPRLRTGGGRA
>NC_009142.1|WP_011874472.1|5387345_5388188_-|ABC-transporter-permease
MVALRTRLPRSATARVGLAVVGVHILLAVVAPLLAPYSPVANDPAQALLGAGWQHWAGTDQYGRDVLSRVLHGGRYALAVSFLATLCTVGLGTLIGSFVALRGGWLDNVVMRVLDAVLSVPPILALLVIVTVFGTGPGVIVLAVTVVYTPAVVRVVRAAAQGVVPADYVTAARARGERTMPILVREIFPNVVDVVCVEFAMRASWAVLLISSLSFLGFGVNPPAPDWGLMVAENRTAITVVPLASLAPIVALATLVVGLNLAADGLSKAWGVDRIRKGAA
>NC_009142.1|WP_009950336.1|5385621_5387349_-|ABC-transporter-ATP-binding-protein
MSIVEVRDLSIAYRAGRREVPVVREVSLSVEAGQTLALVGESGSGKSTIAGTLLGHLRHGSRKTAGEVRIDGEDVFSLSGKRLRALRGRTAAMVAQNAGSALTPSMRVGRQLDEALHGQGLTAAARRSRAVELLGQVRLPEPESLVKRYAHQLSGGQQQRVAIAMAIAARPKVLVLDEPTTGLDVITQRGILDLLSALAGELSLATVLVSHDLGVVAAMADHVHVLRAGRTVESAPSRRLFSAPAESYTRQLLASVPRIFDRGLVEVGEDGERHARPRAEVADAEPVVDLDAVRVGYGKRTVVSDVSLQLRRGEVLALVGESGSGKSTLAASLAGLRAPASGRLRYLGETPGDLRVPAGKRPRDLRRKVQLVFQNADTALNPRRSIRDSVRRPLRLFGIVPRAQRAARTAELIESVRLDAALAERLPAQLSGGQRQRVGIARALAGAPEVIIADEITTALDVSVQARVLALLDDLRREHRLACLFISHDLAVVRGMADRVVVLHQGEVVEQGSTEAVFAGPNHPYTRALLDAALEPDPEAAGTAEPALAWAHDDHDETWIDAGEGHLIRRWKEIR
>NC_009142.1|WP_009950337.1|5383636_5385625_-|CocE/NonD-family-hydrolase
MNFREHFDRQVAVEECWIPMRDGTRLHARIWRPADGEPVPALLEYLPYRKGDWTAPRDAQRHPYYAGHGYASVRVDLRGSGNSEGVMLDEYTETELSDGVEVIEWLADQPWCSGEVGMFGISWGGFNSLQIAALRPEPLKAVVTVCSTDDRYDNDVHYTGGAVLGVDMAAWAGTMLAFTARPPDPAVVGDDWSKMWRERLEAAEPFLHAWLAHQERDDYWRHGSICEDYSAVQAAVLAVGGWADPYRDTVFRLAEHLSAPVRGIVGPWSHQYPDRGLPPGPAIGFLQETLRWWDHWLKGADTGVLDEPLLRTWMQEPAAPSTFYPERPGRWVGDDSWPSPSVRPTRYGFDAELAGSQVVVSSPEHTGIDAGRFFPFGNRSDLPPDQREEDGRSACFDSAPLAGRVEILGRPRVSLRMSCDVERANVTVRLCDVAPDGSSTLVTRGVLNLLTRNGRERADPWVPGEVEEVTVDLSAIAYAFPPGHRIRVAVSTAYFPWVWPHGERATVELEPAASALVLPVRSAPERAIDFAKPEHAPPLEVRTGSAAQRPERVVRRDVASGEWVLEVDPNYGGSRTFPDGLTYTENATETYRIREDDPLSASATSQWTIRLQRDDWLAEVNATTELRATRQEYIVDSRLDTSSGGVEVLSRSWQQRIPRTSA
>NC_009142.1|WP_009950338.1|5383025_5383640_-|TetR-family-transcriptional-regulator
MTGRRAVPAEKRSRHPTEVRRRQVVRAALELISEQGIAGVSARDIARHAGVSPGTITYHFSGVREIIAEAIALEIDEYYTPLMAELRTLGPREALSRLVEALFTPETERHWRMWFEYWLAGLHDDDFVDRQAGRYATWQGQIRDIIVAGQDAGVFTSGDAAEVAVRFVALTDGLALQWLRGVPPLTGEQARDHLRRFAADELGA
>NC_009142.1|WP_009950340.1|5381778_5382957_+|cytochrome-P450
MLEQDVLDEVTNPFPGLAALQEQTPAVRVRTPDGPPAWLVTRYADVRDLLRDDTRLSVDPDHGAGEDYAGFELPPQLRPHLLAVDAAQHDRLRELISSPFTGTGLHRTVEVVEAEAHRLVAALAPDQPVDLVAELAFPLALTAVRAVLPLPDPAHQAFAEWAHDALLAPRRQEDGAEVRARDTLGRMAEIIQTATTVPGDGLLGELQAAYHHGRLSAHELAAQVFYLLFVPTEPLVDAFGVVLLRLLAGTRHRAVLRDSPAARHVAVAEALRFDTPQGLAAPRFALVDLDIDGVRVRAGQTLLLSLAAANRDPRQFDDPDELVLTRSPNPHLALGRGDHACPATALSYQLLSSSVAALLSRYPSTTVVPEKTQWRGNFRHRGPASVWADLKP
>NC_009142.1|WP_011874471.1|5380524_5381775_+|hypothetical-protein
MLYTLGYALAGALMLAVVASKTRALILDPKNVRVLGLAVAHFALTIAFVAAIPTNYEAIDRLTGVPNLATLVVYSGVTISLGAAVVCHHALEMPQRRARAAGRRQLVVTAAAVAAMAVLFTLADVHDASHPLDFDAHYALDPLAVAFQIAWWSAYSTNLVHLARVCRRTALASRLPWLRAGLGLVPIGCVIALGYTAGKAAQVAAAWAGADLTWVSTALAPGLATLGAVTMALGWSVPLVPRWALRVRTWRDLRPLYAALRVVNPALADNTPAVTVLYRRLIATNDLLRALRPHLDPEVDRFAHAEADRLGLDGRVRHAAIEAARIAAGLRAHAAGQTFDGTTMIREYQRADADPGQADMAAHGALLWRNPPGDPDYRLAMEVRALCEIGRAWRLPHPLVAAVPAHRATNPLTEPG
>NC_009142.1|WP_011874470.1|5379972_5380515_+|hypothetical-protein
MGNHAGWLWTRPVLRWRSGRRLRELGVPRRFRMEHLRGALEGRLGKPIFFGVVDLPAAAPSGLVLTTGEAILVVADAQLRTSHRWHVWLHELMHLVWGHVGTPEPDSLGALRTMFPTLPDDVLEQVLSRTTCEHGHEIEAEMLAALCHVRMASWRAAEEERQDMPAEVAAALQRFQDLLG
>NC_009142.1|WP_011874469.1|5379481_5379943_+|transcriptional-regulator
MNDPGVTDESLADAFRTRLRTLFEQTNPQTGRPYTAAQAADWIRANTNHSISHTQVWKLLTGRAVPRLTEVELLARFFDVSPSALLPGPQGEDLDRLALVGSLGVRELALRQLTADVAPESREQLAGAIKAVLEAFRARPDPAPDEGERRRDG
>NC_009142.1|WP_011873634.1|5378091_5378916_+|IS5-family-transposase
MARPRPWEVSDELWALIEPLLPRHERRFRYPGRRRIDDRKTLQGILFVLYTGIQWEFLPQELGFGSGSTCWRRLAEWQQAGVWEQLQRVLLDRLRAADQLDFSRAVVDSSQIQAKRGRGCPKVGPSPVDRGRPGSKHHVITDACGTPLRVVLTGSNRNDVTQLVPLVEAIPPVRGRPGRPRRKPRRLYADRAYDHDVYRDKLRARGITPRIARRGDDHGSGLGKLRWVVEAAIAWLHGPRRLRIRWETRDDIHDGFLQLTHCMILAAKLPTHAI
>NC_009142.1|WP_044547970.1|5389289_5390846_-|ABC-transporter-substrate-binding-protein
MRRRTLLAAGLGLAGTSALTSGCGGAGAAPLPDGAATGTPRAGGVLRIARPPASQAETLDPASSLSAYEYLGALYNRVVRLGRDGEVVPDLAESWESDPLGVRWRFRLRRDVHFHDGKPFTAADVVHTVRRILDPATSSPQEGVLSPLLDPAGITAPDEHTVEFALKSPNAEFPSLLTAYQCYVVPEGSGATIGDTGIGTGPFRLESFTAAGRGRVVANPDHFAGAPVLSAIEYFSIADMQARANALLAGQVHLLSQTNLDFATARVINASPRTTIARSPNSQWYGLPMLCTAPPFTDPLVRKAFKLAYDQESVFGVAIQRAGSPGNDNPVPPGNPMWTDYRVPHDPDRARALLKQAGQENLALDVYTSAYDPVFTPMALAFADSVAAAGIRLRVRNASADSYYSQIWMRQPLCATYWYTGRPIDQLLNQIFRSGSSYNETSWADPAFDAMLDAARREMDEGRRRVLYQDAQRYLVDNSGSITPMFADRLVGISRDVVNYSEYGFEFDHLHIGLRRQP
>NC_009142.1|WP_009950331.1|5391082_5391634_+|DUF488-domain-containing-protein
MAKATLLTVGHGTAAKAEIVRLLRSAGVTSLVDVRTAPGSRRNPDMSRSAMEHWLPREDIAYRWDRRLGGFRKLTPDSPDLMWRNESFRAYAGHMRTPEFVDAADELAEEAHTRTTAIMCGESLWWRCHRRMISDFLQLTRGIAVRHLMHDGSITEHQPIRGVRVRDDGLLVYDGGQQTLDST
>NC_009142.1|WP_009950329.1|5391693_5392569_-|PmoA-family-protein
MSELALCMTADAVEVGFGGTTLLRYLFRPDLARTDSPRPYAHPVRTLAGDEITAVGPEDHPWHLGISMAVADVDGDNFWGGPTYVDGSGYRYREDHGEVRHRRWADVSVSADSCELTEELSWLAADGRVVLAEARVLRVDGVDPRFGRWMLHWSYRLRNVSDRCVRLGSPATSGRSGAGYGGLFWRGAATFRDGPVSTEDASGEHAVNGASARSLTFTGETAALTFASADADPATWFVRSAEYPGACPALAFHDRLPLDPGGVLTGRYRFEITSRAAPGATAAGEYRDRES
>NC_009142.1|WP_044547527.1|5392561_5393749_-|Gfo/Idh/MocA-family-oxidoreductase
MPSLLGQQALSTDGTGPLPEVALVGVGGYGAWHLRNLERLRQAGEARLAAACDPIPAARTAELGPVPVYGDLDELLARHRIDVTVIASPIPTHARLAATALRAGTDVLLEKPPVTSSHELSRLRALAAETGRSVQVGFQSLGSHALPALTELIGSGALGAVTGIGGAGVWVRPFEYYRRAPWAGRRLLNGEAVVDGTLTNPFAHAVATAFAVAQTGSPERTPDGVEVELYRAHDIEADDTACLRARFGGSAAVVVATTVCGPRDQDPYVVVHGEEGRAVLHYERDRLTVESRESGTWRRTYGRTDLLEDLLAHVADGRSTPLLAPLHRSGAFTAVVDAVRQAQEVRRVPPRYWRDDAGRNRVIHGIDEFVRRAAEDMALFSEQGIEWASGSTSGE
>NC_009142.1|WP_009950326.1|5393812_5394868_+|LacI-family-DNA-binding-transcriptional-regulator
MASTLADVAARAGVSTATVSRVLNGNYPVSAATRERVQRALEELSYVGNAPARALAAHSSDVIGVIVSDVSDPFFGIQASGLQWEAADSGLLAVICNTAGSPAAELKYLRLLLGQRMRAIVLTGGGSDEPEHLDATAALIDQAQSAGTGVVLCGRPAPPGVEAPVIAYDNRGGAQALTRHVLALGHRRIAYVAGPPGHGTTRSRLEGHRAALADAGLGDGAAPVVHGDFSRASGFDAALELMRVASGSTAVVVANDLMALGVIAALRQHGVAVPAEVSVAGFDDLPAAVDAVPALTTVRLPLREGARRAGRIAAGAEPLTAPGRMLWMPAELLARESVAPPGAGLPQWPPR
>NC_009142.1|WP_009950325.1|5395149_5396430_+|extracellular-solute-binding-protein
MRRSTGAVIGAAAVALATLAACAPGTDFGPASNGSPPGHLTYTYFTDGPDEKVTRDLIAEFERRTGATVDLQILPYSELEQQLQGRLAAGHAPDVARLTNLSPFRSDLLDLSANGADIGDQFLDQARETTSGPAGETVAVASDLTMNGPLVNTDLFARAGVALPPKDRPVSWPELIAKARVVQQKSGSPYAIAFDKSGARVAGLFNQFGTNYFGTDGAVQLDPAKAAAATRLFVDLNNDGTMYRDFWVQSGTKYEGADDMFLREDVPVYFSGNWQTGQFDEEAQFGWTVLPNPCAERCGGFPGGKFMVALRQTTNPRLAAEFVAFMNSRQAQEKYAREAHFLPTRKDLLAEGVDYPRRDAEMDVFLDDVRRTDPAAFSSAYSPGMDSTADAVVDELAAAIVGRQSVPDTVARMRTSAQEALEAAIP
>NC_009142.1|WP_009950324.1|5396426_5397362_+|sugar-ABC-transporter-permease
MTTTESPPATSVRPPSARKRGAKPWNQRLAPYLFVLPNMLVFGVFIIYPALNGFNISLYNSNNGRAFTPVGTRNYRRLFTDEEFWQAAGATVIFVVAFVAVCTAASIGLAMLLTKPIRARGFFRAVFFLPVLLSPVVVGLLWGWILERRSGALNAILGAVGLPEPGWLVSGPLALGATVFVGVWAHAGFYTLIMMAGLQAIDSSYYEAAHLDGAGAWHRFRHITWPLLRPTTLVVVILAMIAGFQSFDFIYTLSGGGPLGATTLMVQYIYEHAFQSPIQYGLAAAGSVVLFCTIFALTVLNFLYGRRKESM
>NC_009142.1|WP_009950323.1|5397448_5398246_+|carbohydrate-ABC-transporter-permease
MLTYAALIALSVLVLAPVVWAVLASFKTRTELAARPPSLLPESFRLDNYTGALSEFDFGVYVTNSAIVTVGATALTLAINAMAAYALAKYNFRGRNALFLVTLGTIMIPLQIILIPLHQVVAQLGMTNSLLGMIIPPAATPTGVFLLRQYMLTIPDELIEAARVDGAGELRIFLRLVLPLCRPALAVVTIFSVIWRWNDFLWPLVIAQSQDLYTLPVAIAQFNSQEVVPFNYILAMSVVSMIPVVIIFLVLQKHVVRGIAQTGLK
>NC_009142.1|WP_009950322.1|5398257_5400882_+|hypothetical-protein
MTGRTVHRLDEAGTVRDWLVAGAWGEPVAALPDLVPSTGSSWGRDGRWVLTNGPDVTPLKARLHRAAPLREQAPPAVVEGGPVSYTGPDGSAHAGTWRRTHTAGDGLVDWSEFCFTPQCRVALAATALEVDQAEWRTLRLASTGPTLLYVNGECVARSESVTYMEPAEQATRVWLPPGVNEVVVCSWQVGFRECRQILRLRVEGLPVRVVLPSPGADERIGELAEQVLDSVGTPSWGNLGTEVELHGPDGPALRVEVGGVGKRVRLDGGKAVVELPPPDSGERDSASMLSTGEAVLRVFLDDERSPVFREFPVRLLPRHYRAEPAGDERTWRRELLEHARTQPNGCAGELASAALDPGHRLHAESLDRSLWMIEKRADCADFEALGLLHLWHRLPEGTWPEGVRTRVADALRGFKYWIDQPGLDAMCYFTENHQLVWHTAELLAGQTFADEVFANSGWTGRQHAEHGRVLAEKWLVRKLAAGFSEFDSNAYVAVDVLALVSLVEFADDAKLAELAAGLLDKTLFTLAVNSWRGAHACAHGRSYVHTQRSARMEETASIMWVCWGTGALNAATLPATVLATAHRYTVPEAIVAAAQELPEEWIGRQRYAGEYRSHHDLLSRPYASDLLVYKTPDVMLSSVQDYRSGLPGLQEHVWGAVLGPETQVHVTHPPSAATHSSARPNAWAGHRVLPRTRQHTDTVLAVHDIPEHDPMGFTHGWFPLSTMDEWTTRGPWVAGRRAEGYVALATEGGCGFLTSGPNAWQELRPRGPGVAWVCVVGRGATDGSFAEFVDALGEPDFRHDGVEYRTRHGVRLALHRHGAFTIDGRVADLDENGRPAELPHLDNPLCRVDFGAPEMVIGEKRHVIDLRTGRSLPG
>NC_009142.1|WP_009950321.1|5400902_5401892_-|BtrH-N-terminal-domain-containing-protein
MTTVIDIDARGARHCETTALGVLLRHQGLDLSEPMLFGLGSGLSFIYWDSKNMGFPFLGGRVKPFELTRNLATGLGLELVVRETASPRRAWENVVASIDAGHPVGLQLDSYYLDYFGSPVHFGGHVVAMYGYDDRDAYLVDTDQQGGAVSTSLTSLAQARAARGPMAAKHRSFNLTAPQNLPSPQGQIIPAITACAEAFLNPPIANLGHRGIEKAGKLVRTWLQRTDSPQRDLPQAALLMEKAGTGGALFRNLYRDFLAESAELVDSRHMRTGHRLYTEAATLWTETAALIAKAGESGDVEDLVRAGTVLGDLSRVEREAMQALSCLGE

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Crispr_ID: NC_009142_10

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_10

5687530-5688961

TypeIII

Consensus_repeat	Method
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	CRISPRCasFinder
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	CRT
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	PILER-CR

19 spacers

cas1,cas2,csb2gr5,csm3gr7,csx10gr5,cas10

The CRISPR arrays of NC_009142_10

>merge|NC_009142|10|5687530-5688961|CRISPRCasFinder,CRT,PILER-CR
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCCTCCAGCATCGCCGGGTCCTTGAACAGCGCCTCGATCCCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCCTCCAGCATCGCCGGGTCCTTGAACAGCGCCTCGATCCCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCCAGGCGTTCGGCGGAGAGCAGGCCCGGGAGTTCGGGCCCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCATTCGGCCTGGGGATGGATCTCAGCCTGCTCGCGTACCCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCGCCGCATACGCAGGTCCAGTTGCCGTCGGCATCGACGGCCCTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCAGGAACCACGCGATCAGCGCGCCGGGCAGACCGTTCCCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCCGGCGCCGGTGGGTGCGGAGACGGACGTTGGTGTGCAACGCCCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCGGCACGTCGCTCGCCTGCGATGTGCGCAGCTTCCTCCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCAGTACGCAGGAGTCCAGCCGTGAAGATCCAGACCCGCCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCATTCGGCCTGGGGATGGATCTCAGCCTGCTCGCGTACCCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCGCCGCATACGCAGGTCCAGTTGCCGTCGGCATCGACGGCCCTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCAGGAACCACGCGATCAGCGCGCCGGGCAGACCGTTCCCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCCGGCGCCGGTGGGTGCGGAGACGGACGTTGGTGTGCAACGCCCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCGGCACGTCGCTCGCCTGCGATGTGCGCAGCTTCCTCCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCAGTACGCAGGAGTCCAGCCGTGAAGATCCAGACCCGCCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCATCGGGTGTGCGTGCTTGCTGATTGGTGCCGGTACGACCGTCACCGACGCGCAGCCTCGGTCCTCATTGCGGCCCTACTACAACACCGGCAACGTCAGCTCGTTCTCGACCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGCGTCGCGGGCGAAGTCGTGGCTCCGGTGAATCTCCATCTCAGCCGTCACCGACGCGCAGCGCCGGTCCTCATTGCGGCCCACATCGAGAGATCCCCTACTACAGCGTGTAGCCCGGCAGCCGTCATCGACGCGCAGCGTCGGTCTTACTGCGGCT

>NC_009142|10|9|5687530-5688961|CRISPRCasFinder
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	CTCCAGCATCGCCGGGTCCTTGAACAGCGCCTCGATC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	CTCCAGCATCGCCGGGTCCTTGAACAGCGCCTCGATC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	CAGGCGTTCGGCGGAGAGCAGGCCCGGGAGTTCGGGC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	ATTCGGCCTGGGGATGGATCTCAGCCTGCTCGCGTAC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	GCCGCATACGCAGGTCCAGTTGCCGTCGGCATCGACGG
CCCTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	AGGAACCACGCGATCAGCGCGCCGGGCAGACCGTTC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	CGGCGCCGGTGGGTGCGGAGACGGACGTTGGTGTGCAACGC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	GGCACGTCGCTCGCCTGCGATGTGCGCAGCTTCCT
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	AGTACGCAGGAGTCCAGCCGTGAAGATCCAGACCCG
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	ATTCGGCCTGGGGATGGATCTCAGCCTGCTCGCGTAC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	GCCGCATACGCAGGTCCAGTTGCCGTCGGCATCGACGG
CCCTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	AGGAACCACGCGATCAGCGCGCCGGGCAGACCGTTC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	CGGCGCCGGTGGGTGCGGAGACGGACGTTGGTGTGCAACGC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	GGCACGTCGCTCGCCTGCGATGTGCGCAGCTTCCT
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	AGTACGCAGGAGTCCAGCCGTGAAGATCCAGACCCG
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	ATCGGGTGTGCGTGCTTGCTGATTGGTGCCGGTACGA
CCGTCACCGACGCGCAGCCTCGGTCCTCATTGCGGC	CCTACTACAACACCGGCAACGTCAGCTCGTTCTCGA
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	GTCGCGGGCGAAGTCGTGGCTCCGGTGAATCTCCATCTCAG
CCGTCACCGACGCGCAGCGCCGGTCCTCATTGCGGC	CCACATCGAGAGATCCCCTACTACAGCGTGTAGCCCGGCAG
CCGTCATCGACGCGCAGCGTCGGTCTTACTGCGGCT

>NC_009142|10|2|5687530-5688961|CRT
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	CTCCAGCATCGCCGGGTCCTTGAACAGCGCCTCGATC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	CTCCAGCATCGCCGGGTCCTTGAACAGCGCCTCGATC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	CAGGCGTTCGGCGGAGAGCAGGCCCGGGAGTTCGGGC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	ATTCGGCCTGGGGATGGATCTCAGCCTGCTCGCGTAC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	GCCGCATACGCAGGTCCAGTTGCCGTCGGCATCGACGG
CCCTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	AGGAACCACGCGATCAGCGCGCCGGGCAGACCGTTC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	CGGCGCCGGTGGGTGCGGAGACGGACGTTGGTGTGCAACGC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	GGCACGTCGCTCGCCTGCGATGTGCGCAGCTTCCT
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	AGTACGCAGGAGTCCAGCCGTGAAGATCCAGACCCG
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	ATTCGGCCTGGGGATGGATCTCAGCCTGCTCGCGTAC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	GCCGCATACGCAGGTCCAGTTGCCGTCGGCATCGACGG
CCCTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	AGGAACCACGCGATCAGCGCGCCGGGCAGACCGTTC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	CGGCGCCGGTGGGTGCGGAGACGGACGTTGGTGTGCAACGC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	GGCACGTCGCTCGCCTGCGATGTGCGCAGCTTCCT
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	AGTACGCAGGAGTCCAGCCGTGAAGATCCAGACCCG
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	ATCGGGTGTGCGTGCTTGCTGATTGGTGCCGGTACGA
CCGTCACCGACGCGCAGCCTCGGTCCTCATTGCGGC	CCTACTACAACACCGGCAACGTCAGCTCGTTCTCGA
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	GTCGCGGGCGAAGTCGTGGCTCCGGTGAATCTCCATCTCAG
CCGTCACCGACGCGCAGCGCCGGTCCTCATTGCGGC	CCACATCGAGAGATCCCCTACTACAGCGTGTAGCCCGGCAG
CCGTCATCGACGCGCAGCGTCGGTCTTACTGCGGCT

>NC_009142|10|2|5687749-5688884|PILER-CR
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	ATTCGGCCTGGGGATGGATCTCAGCCTGCTCGCGTAC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	GCCGCATACGCAGGTCCAGTTGCCGTCGGCATCGACGG
CCCTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	AGGAACCACGCGATCAGCGCGCCGGGCAGACCGTTC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	CGGCGCCGGTGGGTGCGGAGACGGACGTTGGTGTGCAACGC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	GGCACGTCGCTCGCCTGCGATGTGCGCAGCTTCCT
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	AGTACGCAGGAGTCCAGCCGTGAAGATCCAGACCCG
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	ATTCGGCCTGGGGATGGATCTCAGCCTGCTCGCGTAC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	GCCGCATACGCAGGTCCAGTTGCCGTCGGCATCGACGG
CCCTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	AGGAACCACGCGATCAGCGCGCCGGGCAGACCGTTC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	CGGCGCCGGTGGGTGCGGAGACGGACGTTGGTGTGCAACGC
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	GGCACGTCGCTCGCCTGCGATGTGCGCAGCTTCCT
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	AGTACGCAGGAGTCCAGCCGTGAAGATCCAGACCCG
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	ATCGGGTGTGCGTGCTTGCTGATTGGTGCCGGTACGA
CCGTCACCGACGCGCAGCCTCGGTCCTCATTGCGGC	CCTACTACAACACCGGCAACGTCAGCTCGTTCTCGA
CCGTCACCGACGCGCAGCGTCGGTCCTCATTGCGGC	GTCGCGGGCGAAGTCGTGGCTCCGGTGAATCTCCATCTCAG
CCGTCACCGACGCGCAGCGCCGGTCCTCATTGCGGC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_009942500.1\|5701706_5702207_-\|hypothetical-protein	csm3gr7	cls001827_csm3gr7_CAS-III-D	unknown
NC_009142.1\|WP_143538213.1\|5699140_5700487_-\|hypothetical-protein	csm3gr7	pfam03787_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|377130
NC_009142.1\|WP_009951457.1\|5689321_5690971_+\|CRISPR-associated-endonuclease-Cas4/Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|187766
NC_009142.1\|WP_009951453.1\|5691296_5692034_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_143538212.1\|5686273_5687320_+\|SAVED-domain-containing-protein	unknown	unknown	unknown
NC_009142.1\|WP_009951451.1\|5692058_5693759_+\|DEAD/DEAH-box-helicase-family-protein	unknown	unknown	gnl\|CDD\|223989
NC_009142.1\|WP_011874599.1\|5679997_5680387_+\|IS3-family-transposase	unknown	unknown	gnl\|CDD\|222853
NC_009142.1\|WP_031334572.1\|5682576_5683521_+\|tyrosine-type-recombinase/integrase	unknown	unknown	gnl\|CDD\|234698
NC_009142.1\|WP_009951011.1\|5682075_5682324_+\|transposase	unknown	unknown	gnl\|CDD\|222853
NC_009142.1\|WP_029622171.1\|5679671_5679992_+\|transposase	unknown	unknown	gnl\|CDD\|366690
NC_009142.1\|WP_081468226.1\|5697949_5699122_-\|type-I-U-CRISPR-associated-protein-Cas5/Cas6	csb2gr5	cls000315_csb2gr5_CAS-I-U	gnl\|CDD\|274005
NC_009142.1\|WP_009951012.1\|5680829_5681999_+\|IS30-family-transposase	unknown	unknown	gnl\|CDD\|225382
NC_009142.1\|WP_009951455.1\|5690976_5691264_+\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_009142.1\|WP_009951018.1\|5675000_5678576_+\|DEAD/DEAH-box-helicase	unknown	unknown	gnl\|CDD\|224125
NC_009142.1\|WP_009942499.1\|5702238_5703612_-\|hypothetical-protein	cas10	mkCas0133_cas10_CAS-III	gnl\|CDD\|187810
NC_009142.1\|WP_143538211.1\|5674044_5675016_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009951013.1\|5680383_5680620_+\|IS3-family-transposase	unknown	unknown	gnl\|CDD\|222853
NC_009142.1\|WP_044547549.1\|5683909_5684869_-\|tyrosine-type-recombinase/integrase	unknown	unknown	gnl\|CDD\|234698
NC_009142.1\|WP_009942501.1\|5700489_5701710_-\|hypothetical-protein	csx10gr5	cls000715_csx10gr5_CAS-III-D	gnl\|CDD\|131722
NC_009142.1\|WP_044547099.1\|5695281_5696082_-\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|180607

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_143538213.1\|5699140_5700487_-\|hypothetical-protein	gnl\|CDD\|377130	pfam03787, RAMPs, RAMP superfamily. The molecular function of these proteins is not yet known. However, they have been identified and called the RAMP (Repair Associated Mysterious Proteins) superfamily. The members of this family have no known function they are around 300 amino acids in length and have several conserved motifs.	1.55536e-20
NC_009142.1\|WP_009951457.1\|5689321_5690971_+\|CRISPR-associated-endonuclease-Cas4/Cas1	gnl\|CDD\|187766	cd09634, Cas1_I-II-III, CRISPR/Cas system-associated protein Cas1. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas1 is the most universal CRISPR system protein thought to be involved in spacer integration; Cas1 is metal-dependent deoxyribonuclease, also binds RNA; Shown to possess a unique fold consisting of a N-terminal beta-strand domain and a C-terminal alpha-helical domain.	4.35501e-103
NC_009142.1\|WP_009951451.1\|5692058_5693759_+\|DEAD/DEAH-box-helicase-family-protein	gnl\|CDD\|223989	COG1061, SSL2, DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair].	1.86438e-29
NC_009142.1\|WP_011874599.1\|5679997_5680387_+\|IS3-family-transposase	gnl\|CDD\|222853	PHA02517, PHA02517, putative transposase OrfB; Reviewed.	1.07895e-25
NC_009142.1\|WP_031334572.1\|5682576_5683521_+\|tyrosine-type-recombinase/integrase	gnl\|CDD\|234698	PRK00236, xerC, site-specific tyrosine recombinase XerC; Reviewed.	6.66547e-35
NC_009142.1\|WP_009951011.1\|5682075_5682324_+\|transposase	gnl\|CDD\|222853	PHA02517, PHA02517, putative transposase OrfB; Reviewed.	3.63803e-22
NC_009142.1\|WP_029622171.1\|5679671_5679992_+\|transposase	gnl\|CDD\|366690	pfam01527, HTH_Tnp_1, Transposase. Transposase proteins are necessary for efficient DNA transposition. This family consists of various E. coli insertion elements and other bacterial transposases some of which are members of the IS3 family.	5.81923e-15
NC_009142.1\|WP_081468226.1\|5697949_5699122_-\|type-I-U-CRISPR-associated-protein-Cas5/Cas6	gnl\|CDD\|274005	TIGR02165, CRISPR-associated_protein_GSU0054_family, CRISPR-associated protein GSU0054/csb2, Dpsyc system. This model represents a CRISPR-associated protein from the Dpsyc subtype (a type I-C variant), named for Desulfotalea psychrophila LSv54. CRISPR systems confer resistance in prokaryotes to invasive DNA or RNA, including phage and plasmids. CRISPR-associated proteins typically are found near CRISPR repeats and other CRISPR-associated proteins, have low levels of sequence identify, have sequence relationships that suggest lateral transfer, and show some sequence similarity to DNA-active proteins such as helicases and repair proteins.	6.36961e-27
NC_009142.1\|WP_009951012.1\|5680829_5681999_+\|IS30-family-transposase	gnl\|CDD\|225382	COG2826, Tra8, Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair].	4.26448e-90
NC_009142.1\|WP_009951455.1\|5690976_5691264_+\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|378256	pfam09827, CRISPR_Cas2, CRISPR associated protein Cas2. Members of this family of bacterial proteins comprise various hypothetical proteins, as well as CRISPR (clustered regularly interspaced short palindromic repeats) associated proteins, conferring resistance to infection by certain bacteriophages.	6.18211e-19
NC_009142.1\|WP_009951018.1\|5675000_5678576_+\|DEAD/DEAH-box-helicase	gnl\|CDD\|224125	COG1204, COG1204, Superfamily II helicase [General function prediction only].	2.71088e-37
NC_009142.1\|WP_009942499.1\|5702238_5703612_-\|hypothetical-protein	gnl\|CDD\|187810	cd09679, Cas10_III, CRISPR/Cas system-associated protein Cas10. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Multidomain protein with permuted HD nuclease domain, palm domain and Zn-ribbon; MTH326-like has inactivated polymerase catalytic domain; alr1562 and slr7011 - predicted only on the basis of size, presence of HD domain, and location with RAMPs in one operon; signature gene for type III; also known as Crm2 family.	7.8638e-15
NC_009142.1\|WP_009951013.1\|5680383_5680620_+\|IS3-family-transposase	gnl\|CDD\|222853	PHA02517, PHA02517, putative transposase OrfB; Reviewed.	1.12901e-21
NC_009142.1\|WP_044547549.1\|5683909_5684869_-\|tyrosine-type-recombinase/integrase	gnl\|CDD\|234698	PRK00236, xerC, site-specific tyrosine recombinase XerC; Reviewed.	6.14196e-38
NC_009142.1\|WP_009942501.1\|5700489_5701710_-\|hypothetical-protein	gnl\|CDD\|131722	TIGR02674, cas_cyan_RAMP_2, CRISPR-associated RAMP protein, Csx10 family. CRISPR is a widespread repeat family in prokaryotes. At least 45 different protein families occur in prokaryotes only when these repeats are present. This family, a minor CRISPR-associated protein family, seems largely restricted to the Cyanobacteria. It belongs to the RAMP superfamily (pfam03787).	3.23027e-13
NC_009142.1\|WP_044547099.1\|5695281_5696082_-\|ATP-binding-protein	gnl\|CDD\|180607	PRK06526, PRK06526, transposase; Provisional.	9.96801e-174

>NC_009142.1|WP_143538212.1|5686273_5687320_+|SAVED-domain-containing-protein
MDDDMRQTPQITVEGSSEPARSHGWQAVWDGTLAFAFGGMFTGGFGVEFVKSFATGDDKGRWWITACLAIAVATLVLGTVQRRRQQRLQQVGIVATADDRKRGAYPDRDALAFSCTAYAATLKTSIILPENKPWNDHEIDALADEVVRAIQIATTTVSDSARINLIPTMPLNVGFWFGTRLKSDKAHEIAIHGRKRNNGSPSYFPATILRETTTTATPLEVGMETFEDGDPDVAAIALDLQGRGNDFLVPVRKVCQEHGARTLLSLRTWSTTIPETREAFTAVVEQACREWRKHTETTGAQRHRLIFLSGPIPIAVALGARFAPERGRWTAFTFDRDTSRYVPFPTRD
>NC_009142.1|WP_044547549.1|5683909_5684869_-|tyrosine-type-recombinase/integrase
MPPMDLERITDGLSVTWAGYLRDWDRSLRSGNRPETTRYNYVLAAAQLARYLAEHAPDPEADAAAEDPAEVAKAHIEAFQAWMIETRSAATAVNKHKALQQLFKWLMLDEEEIDRSPMERVRLPKAPTKLVPVLEEEATTRLLEVCKGKDFLSLRDQAIIRLFCNTGARLAEVAHLRLEDVDLKTESVTLYGKGGKVRRVRMGARTARALSRYLRARAKRKGADLPNLWLADRGGQALNANGIKIRLKRLGQRAGLDHVHAHRWRHTYAHQWKRAGGDTGDLMLLLGWSSDAMPRHYGASAAAERAQESQVRMGIGDDV
>NC_009142.1|WP_031334572.1|5682576_5683521_+|tyrosine-type-recombinase/integrase
MDVSRISTGLTSAWSHLLADWDRTLRSSGKPETTRYNYLLAVAQFARFLTDNAADCAAGPAAPAESTRAHIEEFQAWMIETRSASTALNKHKVLQQFFKWLAEDEQEIDRSPMERVKAPTTPTKLVPVMGDEDTKKILDTCNGKTFTDLRDQAIIRLYYGTGARLAEVANLTTDDLDMATDSVVYQGKGGKSRRVRFGPKTARALSRYLRARSRHRAADVPSLWLAARGAQPLQANGIKIMLKRRGKHAGVSGVHAHRWRHNYAHAWKLAGGDTGDLMLLLGWSTDAMARHYGASAAAERAQEVQLRMRIGENV
>NC_009142.1|WP_009951011.1|5682075_5682324_+|transposase
MTASVGSVADSYDNAMAEALNGTFKAELIERRSWPNPAAVQRAVLQWVGWYNHDRLHSAIGHVPPAEYEAMHYRSTITPKTA
>NC_009142.1|WP_009951012.1|5680829_5681999_+|IS30-family-transposase
MPPISLDPPCGRYLSFAEREEITVLRAKECGVREIARRLGRSASTISRELRRNAATRGGRLDYRASVAQWHADRQAGRPKVCKLAANDLLREYVQDRLAGTVSAPDGREVPGPETRWIGRRHGRRQDRRWALAWSPEQIAHRLPVDFPEDETMRISHEAIYQALYIQGRGALRRELTACLRTGRALRVPRARTRGRGKKFVTEEVMISQRPAEVEDRAVPGHWEGDLIIGLDSSAIGTLVERSTRFTMLLHLPPMPGHGGPRAKNGPALAGHGAEAVRDAVATTITNLPDQLRKSLTWDQGAEMAQHAQIRIDTGLQIYFADPHSPWQRGTNENTNGLLRQYFPKGTDLSRHSRSDLDAVAAALNARPRKTLGWKTPAEELNELLLLHQ
>NC_009142.1|WP_009951013.1|5680383_5680620_+|IS3-family-transposase
MTYVRTWTGWVYVAFVLDVYSRMIVGWQLAGHLRTDLPLEALEMALWQRKIRHSDGLIHHSDRGSQGGFNWSSQHLNV
>NC_009142.1|WP_011874599.1|5679997_5680387_+|IS3-family-transposase
MIDDHKDRFGVEPICRVLEFPPSTYYAHKARKPARRSLRDEELLVQIRRVHEASARTYGARRIWHQLRRDGIEVAPCTIERLMHVHGIEGVVRGGKRRTTIPEPTAPRPPDLVDRRFVAAEPNRLRSRT
>NC_009142.1|WP_029622171.1|5679671_5679992_+|transposase
MGDPRFDGCSEEVPDELRERAVREVAESGRPIAHVARDLGIHPEALRNWVRQAEADRGERTDRATTSEKDELTRLRREVAELRRANEILKAASVYFAKELDRPRTK
>NC_009142.1|WP_009951018.1|5675000_5678576_+|DEAD/DEAH-box-helicase
MDRALNSEALADALGQHAEGALPSVEELINLIADLEVQTFIRPEAIDENLLRAGWYLHGIASAAASPELYTPARQQRAFAVSAHIFDLALNESGRDVRDRLTLAFGAQVGYRRADLDPNATAIWRRVDDLLDGPGSAPEGDHDSGESGDLGADMRAASLSTESFMTMALRAGVAFLGLDVARIGQLLRVWRTEAAAMASRIEMDSLQSTMFGPAEAVTRAVAELMAFLRYGNRERLRAARAGLHSVIDLRAGGGDHDARWVTAHLLAIADGMETSSIWSVLPDGTPDAVAQAFTVGAPPVLTLWPPQRDLLMRTTANPLEPATTRLLLSVPTSAGKTLLAQILICHHLATQPGDVCYVTPLRSLGREMRQALSGRLRVLQKGLGADLPDFGAISIDDFFTFIDESGDSSVEVMTPERLAHLLRRDPEGVLDRFSMFVIDEAHLLAQQDRGFLLEWLLAVLATTDARLILLSGVMGNADKVAAWLDPTRPDVLFSSDWRGPRRLHALLYSDVVWEAEQRLPLKSKTFTSRSSYPVIADLRVRPAESNVQRLTTPRDEPIGEMESKRRTNGTYERNRTPFYLLCARTAHVLLPTGSLLMILSRRDYARNAAQEVAKRLDVTSRTEALREFLEERLGVQHPLVDCVLHGVAYHHAGLPVDVLDALEQAMRSEVLLAMFATSTLTDGVNLPVRTVLICETRYQGQDPGQQMDGPRLLNAVGRAGRAGRETEGWIVLGVQAKPADRHFEVLQPAADDLEIVSTLHSNDALHQLAEAEALIAETADALFELASGAAADFATFVWFVLSTLERLDPWASATDPRDVVRRLLAFTQMPDHIERRWMAFANHVEQQYARTPAESRRRWTVTGTALRSARRIEQIAVKVADEVTARHEDLPQADSGMTSLTTMSLTTEEALAVFDDAGIFELLLELPEAGKVWRFKPTVGAKTTVDVSVASALRGWLAGLDMPALAAAILPTVDNPSWRLEQTVDAVSGAFEHFLSWTVGVVVSQANELLVERGSATVLPEDLSYFIRYGVDTTTALKLLTSGVKSRRIAHQIGRKAQAQDIEWREVRDWLRNLHIAGWRHDFEATPREIEDLAEFCRSPARSPLRQLLEDHETTVDLARPLDFLPTSPRAVELRMPSPSAPVEVWTVDSPASRIGIIAAASHADIHLLHSSGVECSATTDGIVVRLREAD
>NC_009142.1|WP_143538211.1|5674044_5675016_+|hypothetical-protein
MGGEENAVVTGATQQSSASPGSTQSAAATWEPLVAANDAQRVANSYGAKLTNLITTVPKTQPSPGVCVWFLGTVIGAGERERAAIAWIIADSVMKNRAGSSRAGELWRSAALAGTRLSGRDRKIVSAFLDGVFGLPPDGKSEIHVIGHVAEWLWYLHARETVHGSRNIALLDPPKFNVTEPGGDGFVVFSDAVTSETSFRLWEIKQHVGGSAVSTTVGTAYKQLSTNATRYLAQLTGIHSTQPGPVGELCQQLVDFWIDCSHRAGAGVSVASATTPAPPRCFSTMGRHFPGFTQPGQMEGLLMAVEDLPGLARDVRGYLWTVL
>NC_009142.1|WP_009951457.1|5689321_5690971_+|CRISPR-associated-endonuclease-Cas4/Cas1
MDPPLPIGARALSDFRFCPRLFHLEHAEGYRFDSEEMRLGRHVHASVDVTSGRERPAQRIDPSNWRICALALSSDELGLVAVCDVVEAVGGNVRPVEYRRGAPQRDGQPWPNDRIQLLAQIVLLRHHGYHCTHGYLWYDSVRRRVPVPWSATAEAELRHHLFRARHVASQGQPPPPLRHSPKCPRCALLPICMPDEINELSERDSEKPRKLLARAPARDPVYVTEPGTTVGIRSERLAVRKDHEELLSCRLRDVLHLVAAGPVQVTSQAVHALAEQGSPVVWTSTTGRLKSVDIPTVGKHVELRRRQFTATPNTALDFARRIVGGKIRNARTLLRRNPHVEEPDLLNRLDADAVRAERAPTRSTLLGIEGAAARTYFAGLVETFRTDHRLPGPAFDTMGRTRRPPRDAVSCLLSFLYCLLIKDITTACYALGLDPYFGFYHQPRHGRPALTLDLAEEFRPLIADSTALTLINNLQADPAMFHVHSTAVALTSSGRRDVIDAYERRLTTEVIHPVFRYKTTYRRAIEIQARLFAAHLLDEIPHYTAFTSR
>NC_009142.1|WP_009951455.1|5690976_5691264_+|CRISPR-associated-endonuclease-Cas2
MRRHRYLVAYDIRDPRRLRLVAKKMEDFGDRTQYSVFLCDLTRADVADMTRALLTVIDSTIDRILIVDLGSGDSDSRFEFLGRRHGLPTTGHRVL
>NC_009142.1|WP_009951453.1|5691296_5692034_+|hypothetical-protein
MTANTDTTDFTPPYNITWRTFLGSLDRMASDASLPSVIDRSYLSWMPGSVQTSYLTLCRQFGLIDDDGSPMSLLSEIVYTPNSRPEVVARLLRVHYAAIVELGKTHATLQQLMDLWKETFGQNGETRRKAITFYMQAADFAQIPVSPLWERGVAKASRQATPARRARPRARRTKQKPTAPQSTSTPSDTVVLASGAGTLSISVDIDPLLLSEEDRGFVFGVIDSVHEYQNKHTSDTTNDPEDTTS
>NC_009142.1|WP_009951451.1|5692058_5693759_+|DEAD/DEAH-box-helicase-family-protein
MSTYGFDPQRRPYQHDRVLLYVRAGGRCQRCGTELGADYHAAHLVAWNNGGGTTLANMQAWCPRCNLGLGDHDVEPFGELALRPWQSQALPVIAERIFNYGTAVLHAAPGAGKTIFAAALFRILHDAGYVERMVVVVPNTALVRQWRSELAQLRIHLDPHPTDGALETTGLAGVIVTYQSLPTYAGVHATRIRQRPTLIVFDEVHHVATDASWGWAVRNMVGDVASGDIHAHAVLNMTGTLFRSDPRRRISTVNYDRLIVEGVPKLQAAADWSVPTRDLVGTELRAPDLYCYGGRAEYIDLTSAKAQPRKQIADLDEQERVGILPQVFASPEWINGFAAEAVRLLAEQRAALDGAEHLKLLFVAPTIVAARHAAHALNKATGTDFARLVVHDEPHALNTLRIAAEEPRSCGIVTVRMVTEGFDCPRIATIAYATNIVAPLFVAQMMARAMRLTPTERDTGTHLPAKILIPDHPALRDAFVDAIRDTIPLTEDTEPDERGAAPETLGAHHYDLLGIDDPRLHNVNVLDQDEAVSTEELTEAQTLCEKLHIPTAFAARVAIGIRGRGT
>NC_009142.1|WP_044547099.1|5695281_5696082_-|ATP-binding-protein
MPGKPTTSSRNVAAEIAYLARALKAPSLAGAVERLAERARAEDWSHEEFLAACLQREVAARESHGGEGRIRTARFPSRKSLEEFDFDHQRSLKRDTITHLGTLDFIAGKENVVFLGPPGTGKTHLSIGLGIRACQAGHRVSFATAAGWVARLAEASHAGRLQQELVKLGRIPLLIIDEVGYIPFEAEAANLFFQLVSARYERASLIVTSNKPFGRWGEVFGDDVVAAAMIDRLVHHAEVISLKGDSYRLKDRQDLGRVPAATNTND
>NC_009142.1|WP_081468226.1|5697949_5699122_-|type-I-U-CRISPR-associated-protein-Cas5/Cas6
MVARPGTRGTNCWNSPAGGRPRGPITSAFTRTSCPLSRRKPRTCGRGHDTGGCEFASITTTGGPHSSSRGTKSRDHPGSRRSPWTRRTSPRSRTGAVTVPSNSTDLPRERKTFSTVTTCSNSCHCARPPHCSSVTTRPAEHRKNPMTNTFSDHAGDSDVAVDSSLAERMVVFGFPSGIRVEAKRSGVVTAMLRKAIMSRMPEPLPPEVSGHNADELTHVAYLAVPDAGGVGARGDITSVAVWTPRGTPNLVSQISAALTTGKPLHLDLPGVRLRLRPQDAEPVTAGLSGPSRSWTTVTPMVLDRYPGKGREAAEIARTCIRSGLPSPIEVTTSRNPFVHGAADLGRSQLPRRDNRPYTHAKITFAEPATGPVLLGSQRYLGMGLFLPTHS
>NC_009142.1|WP_143538213.1|5699140_5700487_-|hypothetical-protein
MTLITARLRFETAGGVGGTEAGAGENGYLQPIRRDPAPKGKAKGKVSLPGTTIAGSLRAHCAAFDAGLGDLFGDTPEQLADKHGKAEAMRRSQKRNDEKPERAMPSAIQVLGTLLHRRGETFSHTRNSSDRKRGAARTHHFHRVEMLETGTEFDVVLRWDNADEELLERFLDVLKQWHPTLGRGVTRGAGRCSLVGWGRVDYDLDSPDGLMAWLNTERRPNPAETPETRSAETYALDVDLSIVDAIHCGTELNSVNGPKHNTLTAFRHGEEFVVPGSTLKGVLRSRAEYICRVLGLLACKDQQCGECRPCLLFGFAGEENARRGRIAVDDAVIEDAQPDFRPHVAIDRFTGGARDQALYEHEVVAAGWFPMRVRWLGTETGAEAAQDARLLHAVVADLDARYVGIGARTTAGFGTVAVRECRSATFEVSELAGVLRDPVIASTEDVNA
>NC_009142.1|WP_009942501.1|5700489_5701710_-|hypothetical-protein
MKDLARITVTLLEPMAAGKRLRADFLQDTYDHVPGTVVRGALAGRWINERGVEVTTTEEFLDVFEGDGAFGPLHNENSLPAPLSVKVHKYAAKDDCPRLWWDRAASDGEQEHCKCGQALEDSKGESTGSVARQRRTRAALDEDGVVREGQLFTQNSLQRDTRFSGWLHGPAVRALWIVDQPVDTVYLGGRLKHQGAAVVQVDTEVEPEPVEQRGNKLILRLLGPGAFVDKHGFPSVKPDLDELTDVLQVEAQAVENCWTRWCEVEGWHAASGLPKPVERAVQPGSTYVIRLERAADEQARKRLMARGIGLRRREGFGALYSVKQEPLTVQRLVQGSAPLRNPARLRTDVPLLRQRYEQMLRGEVDDTMFQESLTGDGGYEKALRRLLNVVEPTLFYAVLTDLESHR
>NC_009142.1|WP_009942500.1|5701706_5702207_-|hypothetical-protein
MARGQGGGGSHDTIDERDQLPATSMAGVVRATAKKLLGSQNPVIDEVFGSDGNPSPWRWSPVRPDGDWHGAQPAARVRIDQHSRTAQGHMLILADHTGADQGRFSITKFRYVPRERLAVHQAVLKVAAQATCSLGAWRRRGSGWVGIRCAEEINEETVRIFLGLKR
>NC_009142.1|WP_009942499.1|5702238_5703612_-|hypothetical-protein
MSDYMDIGVVRIQSWLTRTPKLRGRRGGSTLITQATDHDAIREVLSGFGETVEVHSEGGRIDGVVPLKLHDEAQAAAAEKAVVRHIRSRMPGVSLSVKRYSGDTYAVARSVGARQEHEWPAPAVDWPAGLPCQWCRTLPADPAPGARDEDGLRRCAECLARDAAAGRADGRDVPFAESELLHRLGIAEAKVPDEFKPMAELDRKGNRPDADGQTHLALVYADGNAIGKFITSALRHAPRKKRRSPDFAAAIDGSTWQALVTAVEQIRQEDQELLPVVPHFVGGDDVLVSVPACRAWRFTRALLGAFDEAIKEASGLHTDLPSLSAGVVFHHYTVPLYEVNELAKTALRRAKVHTSGEAASLAWHDTTHDGHDPVARSALTLADLEQKWDALHRLAKLPRSAHARLEAVTRAYGSRSSELLTHAIRVGSDQVIRQFQGSFDLADALGMARWWWHDDQA

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Crispr_ID: NC_009142_11

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_11

5694051-5695231

TypeIII

Consensus_repeat	Method
CCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCC	PILER-CR
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CRISPRCasFinder
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CRT
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	PILER-CR

15 spacers

cas2,cas1,csb2gr5,csm3gr7,csx10gr5,cas10

The CRISPR arrays of NC_009142_11

>merge|NC_009142|11|5694051-5695231|PILER-CR,CRISPRCasFinder,CRT,PILER-CR
CCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCCTCGTCGGTCATGGATTTGCGCGCTTCTTCGCGCCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCTCGTAGTTGACCGACGCGTCGGTCATGGTGCGGTACTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCCCCTCGGCTGGTGGACTATCAGCGGCGTCGCCCTCCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCCGATGCCCTTCGTGCTGGCCTTGCCCAGCGCGTTCAGCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCACGGAGTAGAACGGCACCCCGGGCACCCCGGGGTTGAAGTAGTACTCCGCCCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCACCAAGCCAAGCTTGTCGCCGAGCACACCACGCACGAAGCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCTCCTGGGCCTGCTTGGTGAACCACAACGGCCTGCTCGGTGAACCACAACGGCAGCACAGCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCCAAGAACGCCTCGGAGATGATCCGCGAGTGCGGCTTGATCCGGCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCCTGCCACCAGTAGCGCAGCAGGGGGAACGCCAGCTCCACTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCTTTCCGAGGCGAAGGTTTCTGGTGTTCGCCATGTCGCCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCAACTCGGTGTCATAGAAGTACTTCATCGTTTGAGTTCTTGCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCTGTCCTGCGCCTCGTCCAACAGGATCACGTCGTACGGCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCCACGTGCCAGTGCGGGTCACCGATCGGCGCGTCGCCGACCGGCTGTCACCGGCGCCAAGCGTCGGTCGTCATTGCGGCCTCGGAAGGTTGGCCATGCGTGGTCCGGGCAGGGACTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCACGTCCACGCCGAGGTAGTCGGTGCCGAGGCGATCGTCGGTGCTGTCACCGGCGCCAAGCTGTCAACGGCGGCCGAAT

>NC_009142|11|3|5694051-5694300|PILER-CR
CCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCC	TCGTCGGTCATGGATTTGCGCGCTTCTTCGCG
CCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCT	CGTAGTTGACCGACGCGTCGGTCATGGTGCGGT
ACTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCC	CCTCGGCTGGTGGACTATCAGCGGCGTCGCCCT
CCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCCGATGCCCTTCGTGCTGGCCTTGCCCAGCGCGTTCAGCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCACGGAGTAGAACGGCACCCCGGGCACCCCGGGGTTGAAGTAGTACTCCGCCCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCACCAAGCCAAGCTTGTCGCCGAGCACACCACGCACGAAGCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCTCCTGGGCCTGCTTGGTGAACCACAACGGCCTGCTCGGTGAACCACAACGGCAGCACAGCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CAAGAACGCCTCGGAGATGATCCGCGAGTGCGGCTTGATCCGG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CTGCCACCAGTAGCGCAGCAGGGGGAACGCCAGCTCCA
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	TTTCCGAGGCGAAGGTTTCTGGTGTTCGCCATGTCGC
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	AACTCGGTGTCATAGAAGTACTTCATCGTTTGAGTTCTTG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	TGTCCTGCGCCTCGTCCAACAGGATCACGTCGTACGG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CACGTGCCAGTGCGGGTCACCGATCGGCGCGTCGCCGACCGG
CTGTCACCGGCGCCAAGCGTCGGTCGTCATTGCGGC	CTCGGAAGGTTGGCCATGCGTGGTCCGGGCAGGGA


>NC_009142|11|10|5694052-5695153|CRISPRCasFinder
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CTCGTCGGTCATGGATTTGCGCGCTTCTTCGCGC
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	TCGTAGTTGACCGACGCGTCGGTCATGGTGCGGTA
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CCCTCGGCTGGTGGACTATCAGCGGCGTCGCCCTC
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CGATGCCCTTCGTGCTGGCCTTGCCCAGCGCGTTCAG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	ACGGAGTAGAACGGCACCCCGGGCACCCCGGGGTTGAAGTAGTACTCCGCC
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	ACCAAGCCAAGCTTGTCGCCGAGCACACCACGCACGAAG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	TCCTGGGCCTGCTTGGTGAACCACAACGGCCTGCTCGGTGAACCACAACGGCAGCACAG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CAAGAACGCCTCGGAGATGATCCGCGAGTGCGGCTTGATCCGG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CTGCCACCAGTAGCGCAGCAGGGGGAACGCCAGCTCCA
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	TTTCCGAGGCGAAGGTTTCTGGTGTTCGCCATGTCGC
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	AACTCGGTGTCATAGAAGTACTTCATCGTTTGAGTTCTTG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	TGTCCTGCGCCTCGTCCAACAGGATCACGTCGTACGG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CACGTGCCAGTGCGGGTCACCGATCGGCGCGTCGCCGACCGG
CTGTCACCGGCGCCAAGCGTCGGTCGTCATTGCGGC	CTCGGAAGGTTGGCCATGCGTGGTCCGGGCAGGGA
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC

>NC_009142|11|3|5694052-5695231|CRT
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CTCGTCGGTCATGGATTTGCGCGCTTCTTCGCGC
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	TCGTAGTTGACCGACGCGTCGGTCATGGTGCGGTA
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CCCTCGGCTGGTGGACTATCAGCGGCGTCGCCCTC
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CGATGCCCTTCGTGCTGGCCTTGCCCAGCGCGTTCAG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	ACGGAGTAGAACGGCACCCCGGGCACCCCGGGGTTGAAGTAGTACTCCGCC
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	ACCAAGCCAAGCTTGTCGCCGAGCACACCACGCACGAAG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	TCCTGGGCCTGCTTGGTGAACCACAACGGCCTGCTCGGTGAACCACAACGGCAGCACAG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CAAGAACGCCTCGGAGATGATCCGCGAGTGCGGCTTGATCCGG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CTGCCACCAGTAGCGCAGCAGGGGGAACGCCAGCTCCA
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	TTTCCGAGGCGAAGGTTTCTGGTGTTCGCCATGTCGC
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	AACTCGGTGTCATAGAAGTACTTCATCGTTTGAGTTCTTG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	TGTCCTGCGCCTCGTCCAACAGGATCACGTCGTACGG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CACGTGCCAGTGCGGGTCACCGATCGGCGCGTCGCCGACCGG
CTGTCACCGGCGCCAAGCGTCGGTCGTCATTGCGGC	CTCGGAAGGTTGGCCATGCGTGGTCCGGGCAGGGA
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	ACGTCCACGCCGAGGTAGTCGGTGCCGAGGCGATCGTCGGTG
CTGTCACCGGCGCCAAGCTGTCAACGGCGGCCGAAT

>NC_009142|11|4|5694594-5695153|PILER-CR
	TCGTCGGTCATGGATTTGCGCGCTTCTTCGCG
CCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCT	CGTAGTTGACCGACGCGTCGGTCATGGTGCGGT
ACTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCC	CCTCGGCTGGTGGACTATCAGCGGCGTCGCCCT
CCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCCGATGCCCTTCGTGCTGGCCTTGCCCAGCGCGTTCAGCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCACGGAGTAGAACGGCACCCCGGGCACCCCGGGGTTGAAGTAGTACTCCGCCCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCACCAAGCCAAGCTTGTCGCCGAGCACACCACGCACGAAGCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCTCCTGGGCCTGCTTGGTGAACCACAACGGCCTGCTCGGTGAACCACAACGGCAGCACAGCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CAAGAACGCCTCGGAGATGATCCGCGAGTGCGGCTTGATCCGG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CTGCCACCAGTAGCGCAGCAGGGGGAACGCCAGCTCCA
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	TTTCCGAGGCGAAGGTTTCTGGTGTTCGCCATGTCGC
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	AACTCGGTGTCATAGAAGTACTTCATCGTTTGAGTTCTTG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	TGTCCTGCGCCTCGTCCAACAGGATCACGTCGTACGG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CACGTGCCAGTGCGGGTCACCGATCGGCGCGTCGCCGACCGG
CTGTCACCGGCGCCAAGCGTCGGTCGTCATTGCGGC	CTCGGAAGGTTGGCCATGCGTGGTCCGGGCAGGGA
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_009942500.1\|5701706_5702207_-\|hypothetical-protein	csm3gr7	cls001827_csm3gr7_CAS-III-D	unknown
NC_009142.1\|WP_157355914.1\|5703608_5705561_-\|TIGR03986-family-CRISPR-associated-RAMP-protein	csm3gr7	cls000253_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|274902
NC_009142.1\|WP_143538213.1\|5699140_5700487_-\|hypothetical-protein	csm3gr7	pfam03787_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|377130
NC_009142.1\|WP_009951457.1\|5689321_5690971_+\|CRISPR-associated-endonuclease-Cas4/Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|187766
NC_009142.1\|WP_021341696.1\|5708466_5708829_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_143538212.1\|5686273_5687320_+\|SAVED-domain-containing-protein	unknown	unknown	unknown
NC_009142.1\|WP_009951451.1\|5692058_5693759_+\|DEAD/DEAH-box-helicase-family-protein	unknown	unknown	gnl\|CDD\|223989
NC_009142.1\|WP_031334572.1\|5682576_5683521_+\|tyrosine-type-recombinase/integrase	unknown	unknown	gnl\|CDD\|234698
NC_009142.1\|WP_009942493.1\|5706888_5707818_-\|IS3-family-transposase	unknown	unknown	gnl\|CDD\|222853
NC_009142.1\|WP_009951011.1\|5682075_5682324_+\|transposase	unknown	unknown	gnl\|CDD\|222853
NC_009142.1\|WP_009951453.1\|5691296_5692034_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_081468226.1\|5697949_5699122_-\|type-I-U-CRISPR-associated-protein-Cas5/Cas6	csb2gr5	cls000315_csb2gr5_CAS-I-U	gnl\|CDD\|274005
NC_009142.1\|WP_009951012.1\|5680829_5681999_+\|IS30-family-transposase	unknown	unknown	gnl\|CDD\|225382
NC_009142.1\|WP_009951455.1\|5690976_5691264_+\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_009142.1\|WP_009942499.1\|5702238_5703612_-\|hypothetical-protein	cas10	mkCas0133_cas10_CAS-III	gnl\|CDD\|187810
NC_009142.1\|WP_009942492.1\|5707814_5708126_-\|transposase	unknown	unknown	gnl\|CDD\|366690
NC_009142.1\|WP_009951013.1\|5680383_5680620_+\|IS3-family-transposase	unknown	unknown	gnl\|CDD\|222853
NC_009142.1\|WP_044547549.1\|5683909_5684869_-\|tyrosine-type-recombinase/integrase	unknown	unknown	gnl\|CDD\|234698
NC_009142.1\|WP_009942501.1\|5700489_5701710_-\|hypothetical-protein	csx10gr5	cls000715_csx10gr5_CAS-III-D	gnl\|CDD\|131722
NC_009142.1\|WP_044547099.1\|5695281_5696082_-\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|180607

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_157355914.1\|5703608_5705561_-\|TIGR03986-family-CRISPR-associated-RAMP-protein	gnl\|CDD\|274902	TIGR03986, CRISPR-associated_protein, CRISPR-associated protein. Members of this protein family, part of the larger RAMP family, are found exclusively in species with CRISPR systems, in local contexts containing other RAMP (Repeat-Associated Mystery Proteins).	1.34837e-76
NC_009142.1\|WP_143538213.1\|5699140_5700487_-\|hypothetical-protein	gnl\|CDD\|377130	pfam03787, RAMPs, RAMP superfamily. The molecular function of these proteins is not yet known. However, they have been identified and called the RAMP (Repair Associated Mysterious Proteins) superfamily. The members of this family have no known function they are around 300 amino acids in length and have several conserved motifs.	1.55536e-20
NC_009142.1\|WP_009951457.1\|5689321_5690971_+\|CRISPR-associated-endonuclease-Cas4/Cas1	gnl\|CDD\|187766	cd09634, Cas1_I-II-III, CRISPR/Cas system-associated protein Cas1. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas1 is the most universal CRISPR system protein thought to be involved in spacer integration; Cas1 is metal-dependent deoxyribonuclease, also binds RNA; Shown to possess a unique fold consisting of a N-terminal beta-strand domain and a C-terminal alpha-helical domain.	4.35501e-103
NC_009142.1\|WP_009951451.1\|5692058_5693759_+\|DEAD/DEAH-box-helicase-family-protein	gnl\|CDD\|223989	COG1061, SSL2, DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair].	1.86438e-29
NC_009142.1\|WP_031334572.1\|5682576_5683521_+\|tyrosine-type-recombinase/integrase	gnl\|CDD\|234698	PRK00236, xerC, site-specific tyrosine recombinase XerC; Reviewed.	6.66547e-35
NC_009142.1\|WP_009942493.1\|5706888_5707818_-\|IS3-family-transposase	gnl\|CDD\|222853	PHA02517, PHA02517, putative transposase OrfB; Reviewed.	4.20269e-68
NC_009142.1\|WP_009951011.1\|5682075_5682324_+\|transposase	gnl\|CDD\|222853	PHA02517, PHA02517, putative transposase OrfB; Reviewed.	3.63803e-22
NC_009142.1\|WP_081468226.1\|5697949_5699122_-\|type-I-U-CRISPR-associated-protein-Cas5/Cas6	gnl\|CDD\|274005	TIGR02165, CRISPR-associated_protein_GSU0054_family, CRISPR-associated protein GSU0054/csb2, Dpsyc system. This model represents a CRISPR-associated protein from the Dpsyc subtype (a type I-C variant), named for Desulfotalea psychrophila LSv54. CRISPR systems confer resistance in prokaryotes to invasive DNA or RNA, including phage and plasmids. CRISPR-associated proteins typically are found near CRISPR repeats and other CRISPR-associated proteins, have low levels of sequence identify, have sequence relationships that suggest lateral transfer, and show some sequence similarity to DNA-active proteins such as helicases and repair proteins.	6.36961e-27
NC_009142.1\|WP_009951012.1\|5680829_5681999_+\|IS30-family-transposase	gnl\|CDD\|225382	COG2826, Tra8, Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair].	4.26448e-90
NC_009142.1\|WP_009951455.1\|5690976_5691264_+\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|378256	pfam09827, CRISPR_Cas2, CRISPR associated protein Cas2. Members of this family of bacterial proteins comprise various hypothetical proteins, as well as CRISPR (clustered regularly interspaced short palindromic repeats) associated proteins, conferring resistance to infection by certain bacteriophages.	6.18211e-19
NC_009142.1\|WP_009942499.1\|5702238_5703612_-\|hypothetical-protein	gnl\|CDD\|187810	cd09679, Cas10_III, CRISPR/Cas system-associated protein Cas10. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Multidomain protein with permuted HD nuclease domain, palm domain and Zn-ribbon; MTH326-like has inactivated polymerase catalytic domain; alr1562 and slr7011 - predicted only on the basis of size, presence of HD domain, and location with RAMPs in one operon; signature gene for type III; also known as Crm2 family.	7.8638e-15
NC_009142.1\|WP_009942492.1\|5707814_5708126_-\|transposase	gnl\|CDD\|366690	pfam01527, HTH_Tnp_1, Transposase. Transposase proteins are necessary for efficient DNA transposition. This family consists of various E. coli insertion elements and other bacterial transposases some of which are members of the IS3 family.	4.14991e-14
NC_009142.1\|WP_009951013.1\|5680383_5680620_+\|IS3-family-transposase	gnl\|CDD\|222853	PHA02517, PHA02517, putative transposase OrfB; Reviewed.	1.12901e-21
NC_009142.1\|WP_044547549.1\|5683909_5684869_-\|tyrosine-type-recombinase/integrase	gnl\|CDD\|234698	PRK00236, xerC, site-specific tyrosine recombinase XerC; Reviewed.	6.14196e-38
NC_009142.1\|WP_009942501.1\|5700489_5701710_-\|hypothetical-protein	gnl\|CDD\|131722	TIGR02674, cas_cyan_RAMP_2, CRISPR-associated RAMP protein, Csx10 family. CRISPR is a widespread repeat family in prokaryotes. At least 45 different protein families occur in prokaryotes only when these repeats are present. This family, a minor CRISPR-associated protein family, seems largely restricted to the Cyanobacteria. It belongs to the RAMP superfamily (pfam03787).	3.23027e-13
NC_009142.1\|WP_044547099.1\|5695281_5696082_-\|ATP-binding-protein	gnl\|CDD\|180607	PRK06526, PRK06526, transposase; Provisional.	9.96801e-174

>NC_009142.1|WP_009951451.1|5692058_5693759_+|DEAD/DEAH-box-helicase-family-protein
MSTYGFDPQRRPYQHDRVLLYVRAGGRCQRCGTELGADYHAAHLVAWNNGGGTTLANMQAWCPRCNLGLGDHDVEPFGELALRPWQSQALPVIAERIFNYGTAVLHAAPGAGKTIFAAALFRILHDAGYVERMVVVVPNTALVRQWRSELAQLRIHLDPHPTDGALETTGLAGVIVTYQSLPTYAGVHATRIRQRPTLIVFDEVHHVATDASWGWAVRNMVGDVASGDIHAHAVLNMTGTLFRSDPRRRISTVNYDRLIVEGVPKLQAAADWSVPTRDLVGTELRAPDLYCYGGRAEYIDLTSAKAQPRKQIADLDEQERVGILPQVFASPEWINGFAAEAVRLLAEQRAALDGAEHLKLLFVAPTIVAARHAAHALNKATGTDFARLVVHDEPHALNTLRIAAEEPRSCGIVTVRMVTEGFDCPRIATIAYATNIVAPLFVAQMMARAMRLTPTERDTGTHLPAKILIPDHPALRDAFVDAIRDTIPLTEDTEPDERGAAPETLGAHHYDLLGIDDPRLHNVNVLDQDEAVSTEELTEAQTLCEKLHIPTAFAARVAIGIRGRGT
>NC_009142.1|WP_009951453.1|5691296_5692034_+|hypothetical-protein
MTANTDTTDFTPPYNITWRTFLGSLDRMASDASLPSVIDRSYLSWMPGSVQTSYLTLCRQFGLIDDDGSPMSLLSEIVYTPNSRPEVVARLLRVHYAAIVELGKTHATLQQLMDLWKETFGQNGETRRKAITFYMQAADFAQIPVSPLWERGVAKASRQATPARRARPRARRTKQKPTAPQSTSTPSDTVVLASGAGTLSISVDIDPLLLSEEDRGFVFGVIDSVHEYQNKHTSDTTNDPEDTTS
>NC_009142.1|WP_009951455.1|5690976_5691264_+|CRISPR-associated-endonuclease-Cas2
MRRHRYLVAYDIRDPRRLRLVAKKMEDFGDRTQYSVFLCDLTRADVADMTRALLTVIDSTIDRILIVDLGSGDSDSRFEFLGRRHGLPTTGHRVL
>NC_009142.1|WP_009951457.1|5689321_5690971_+|CRISPR-associated-endonuclease-Cas4/Cas1
MDPPLPIGARALSDFRFCPRLFHLEHAEGYRFDSEEMRLGRHVHASVDVTSGRERPAQRIDPSNWRICALALSSDELGLVAVCDVVEAVGGNVRPVEYRRGAPQRDGQPWPNDRIQLLAQIVLLRHHGYHCTHGYLWYDSVRRRVPVPWSATAEAELRHHLFRARHVASQGQPPPPLRHSPKCPRCALLPICMPDEINELSERDSEKPRKLLARAPARDPVYVTEPGTTVGIRSERLAVRKDHEELLSCRLRDVLHLVAAGPVQVTSQAVHALAEQGSPVVWTSTTGRLKSVDIPTVGKHVELRRRQFTATPNTALDFARRIVGGKIRNARTLLRRNPHVEEPDLLNRLDADAVRAERAPTRSTLLGIEGAAARTYFAGLVETFRTDHRLPGPAFDTMGRTRRPPRDAVSCLLSFLYCLLIKDITTACYALGLDPYFGFYHQPRHGRPALTLDLAEEFRPLIADSTALTLINNLQADPAMFHVHSTAVALTSSGRRDVIDAYERRLTTEVIHPVFRYKTTYRRAIEIQARLFAAHLLDEIPHYTAFTSR
>NC_009142.1|WP_143538212.1|5686273_5687320_+|SAVED-domain-containing-protein
MDDDMRQTPQITVEGSSEPARSHGWQAVWDGTLAFAFGGMFTGGFGVEFVKSFATGDDKGRWWITACLAIAVATLVLGTVQRRRQQRLQQVGIVATADDRKRGAYPDRDALAFSCTAYAATLKTSIILPENKPWNDHEIDALADEVVRAIQIATTTVSDSARINLIPTMPLNVGFWFGTRLKSDKAHEIAIHGRKRNNGSPSYFPATILRETTTTATPLEVGMETFEDGDPDVAAIALDLQGRGNDFLVPVRKVCQEHGARTLLSLRTWSTTIPETREAFTAVVEQACREWRKHTETTGAQRHRLIFLSGPIPIAVALGARFAPERGRWTAFTFDRDTSRYVPFPTRD
>NC_009142.1|WP_044547549.1|5683909_5684869_-|tyrosine-type-recombinase/integrase
MPPMDLERITDGLSVTWAGYLRDWDRSLRSGNRPETTRYNYVLAAAQLARYLAEHAPDPEADAAAEDPAEVAKAHIEAFQAWMIETRSAATAVNKHKALQQLFKWLMLDEEEIDRSPMERVRLPKAPTKLVPVLEEEATTRLLEVCKGKDFLSLRDQAIIRLFCNTGARLAEVAHLRLEDVDLKTESVTLYGKGGKVRRVRMGARTARALSRYLRARAKRKGADLPNLWLADRGGQALNANGIKIRLKRLGQRAGLDHVHAHRWRHTYAHQWKRAGGDTGDLMLLLGWSSDAMPRHYGASAAAERAQESQVRMGIGDDV
>NC_009142.1|WP_031334572.1|5682576_5683521_+|tyrosine-type-recombinase/integrase
MDVSRISTGLTSAWSHLLADWDRTLRSSGKPETTRYNYLLAVAQFARFLTDNAADCAAGPAAPAESTRAHIEEFQAWMIETRSASTALNKHKVLQQFFKWLAEDEQEIDRSPMERVKAPTTPTKLVPVMGDEDTKKILDTCNGKTFTDLRDQAIIRLYYGTGARLAEVANLTTDDLDMATDSVVYQGKGGKSRRVRFGPKTARALSRYLRARSRHRAADVPSLWLAARGAQPLQANGIKIMLKRRGKHAGVSGVHAHRWRHNYAHAWKLAGGDTGDLMLLLGWSTDAMARHYGASAAAERAQEVQLRMRIGENV
>NC_009142.1|WP_009951011.1|5682075_5682324_+|transposase
MTASVGSVADSYDNAMAEALNGTFKAELIERRSWPNPAAVQRAVLQWVGWYNHDRLHSAIGHVPPAEYEAMHYRSTITPKTA
>NC_009142.1|WP_009951012.1|5680829_5681999_+|IS30-family-transposase
MPPISLDPPCGRYLSFAEREEITVLRAKECGVREIARRLGRSASTISRELRRNAATRGGRLDYRASVAQWHADRQAGRPKVCKLAANDLLREYVQDRLAGTVSAPDGREVPGPETRWIGRRHGRRQDRRWALAWSPEQIAHRLPVDFPEDETMRISHEAIYQALYIQGRGALRRELTACLRTGRALRVPRARTRGRGKKFVTEEVMISQRPAEVEDRAVPGHWEGDLIIGLDSSAIGTLVERSTRFTMLLHLPPMPGHGGPRAKNGPALAGHGAEAVRDAVATTITNLPDQLRKSLTWDQGAEMAQHAQIRIDTGLQIYFADPHSPWQRGTNENTNGLLRQYFPKGTDLSRHSRSDLDAVAAALNARPRKTLGWKTPAEELNELLLLHQ
>NC_009142.1|WP_009951013.1|5680383_5680620_+|IS3-family-transposase
MTYVRTWTGWVYVAFVLDVYSRMIVGWQLAGHLRTDLPLEALEMALWQRKIRHSDGLIHHSDRGSQGGFNWSSQHLNV
>NC_009142.1|WP_044547099.1|5695281_5696082_-|ATP-binding-protein
MPGKPTTSSRNVAAEIAYLARALKAPSLAGAVERLAERARAEDWSHEEFLAACLQREVAARESHGGEGRIRTARFPSRKSLEEFDFDHQRSLKRDTITHLGTLDFIAGKENVVFLGPPGTGKTHLSIGLGIRACQAGHRVSFATAAGWVARLAEASHAGRLQQELVKLGRIPLLIIDEVGYIPFEAEAANLFFQLVSARYERASLIVTSNKPFGRWGEVFGDDVVAAAMIDRLVHHAEVISLKGDSYRLKDRQDLGRVPAATNTND
>NC_009142.1|WP_081468226.1|5697949_5699122_-|type-I-U-CRISPR-associated-protein-Cas5/Cas6
MVARPGTRGTNCWNSPAGGRPRGPITSAFTRTSCPLSRRKPRTCGRGHDTGGCEFASITTTGGPHSSSRGTKSRDHPGSRRSPWTRRTSPRSRTGAVTVPSNSTDLPRERKTFSTVTTCSNSCHCARPPHCSSVTTRPAEHRKNPMTNTFSDHAGDSDVAVDSSLAERMVVFGFPSGIRVEAKRSGVVTAMLRKAIMSRMPEPLPPEVSGHNADELTHVAYLAVPDAGGVGARGDITSVAVWTPRGTPNLVSQISAALTTGKPLHLDLPGVRLRLRPQDAEPVTAGLSGPSRSWTTVTPMVLDRYPGKGREAAEIARTCIRSGLPSPIEVTTSRNPFVHGAADLGRSQLPRRDNRPYTHAKITFAEPATGPVLLGSQRYLGMGLFLPTHS
>NC_009142.1|WP_143538213.1|5699140_5700487_-|hypothetical-protein
MTLITARLRFETAGGVGGTEAGAGENGYLQPIRRDPAPKGKAKGKVSLPGTTIAGSLRAHCAAFDAGLGDLFGDTPEQLADKHGKAEAMRRSQKRNDEKPERAMPSAIQVLGTLLHRRGETFSHTRNSSDRKRGAARTHHFHRVEMLETGTEFDVVLRWDNADEELLERFLDVLKQWHPTLGRGVTRGAGRCSLVGWGRVDYDLDSPDGLMAWLNTERRPNPAETPETRSAETYALDVDLSIVDAIHCGTELNSVNGPKHNTLTAFRHGEEFVVPGSTLKGVLRSRAEYICRVLGLLACKDQQCGECRPCLLFGFAGEENARRGRIAVDDAVIEDAQPDFRPHVAIDRFTGGARDQALYEHEVVAAGWFPMRVRWLGTETGAEAAQDARLLHAVVADLDARYVGIGARTTAGFGTVAVRECRSATFEVSELAGVLRDPVIASTEDVNA
>NC_009142.1|WP_009942501.1|5700489_5701710_-|hypothetical-protein
MKDLARITVTLLEPMAAGKRLRADFLQDTYDHVPGTVVRGALAGRWINERGVEVTTTEEFLDVFEGDGAFGPLHNENSLPAPLSVKVHKYAAKDDCPRLWWDRAASDGEQEHCKCGQALEDSKGESTGSVARQRRTRAALDEDGVVREGQLFTQNSLQRDTRFSGWLHGPAVRALWIVDQPVDTVYLGGRLKHQGAAVVQVDTEVEPEPVEQRGNKLILRLLGPGAFVDKHGFPSVKPDLDELTDVLQVEAQAVENCWTRWCEVEGWHAASGLPKPVERAVQPGSTYVIRLERAADEQARKRLMARGIGLRRREGFGALYSVKQEPLTVQRLVQGSAPLRNPARLRTDVPLLRQRYEQMLRGEVDDTMFQESLTGDGGYEKALRRLLNVVEPTLFYAVLTDLESHR
>NC_009142.1|WP_009942500.1|5701706_5702207_-|hypothetical-protein
MARGQGGGGSHDTIDERDQLPATSMAGVVRATAKKLLGSQNPVIDEVFGSDGNPSPWRWSPVRPDGDWHGAQPAARVRIDQHSRTAQGHMLILADHTGADQGRFSITKFRYVPRERLAVHQAVLKVAAQATCSLGAWRRRGSGWVGIRCAEEINEETVRIFLGLKR
>NC_009142.1|WP_009942499.1|5702238_5703612_-|hypothetical-protein
MSDYMDIGVVRIQSWLTRTPKLRGRRGGSTLITQATDHDAIREVLSGFGETVEVHSEGGRIDGVVPLKLHDEAQAAAAEKAVVRHIRSRMPGVSLSVKRYSGDTYAVARSVGARQEHEWPAPAVDWPAGLPCQWCRTLPADPAPGARDEDGLRRCAECLARDAAAGRADGRDVPFAESELLHRLGIAEAKVPDEFKPMAELDRKGNRPDADGQTHLALVYADGNAIGKFITSALRHAPRKKRRSPDFAAAIDGSTWQALVTAVEQIRQEDQELLPVVPHFVGGDDVLVSVPACRAWRFTRALLGAFDEAIKEASGLHTDLPSLSAGVVFHHYTVPLYEVNELAKTALRRAKVHTSGEAASLAWHDTTHDGHDPVARSALTLADLEQKWDALHRLAKLPRSAHARLEAVTRAYGSRSSELLTHAIRVGSDQVIRQFQGSFDLADALGMARWWWHDDQA
>NC_009142.1|WP_157355914.1|5703608_5705561_-|TIGR03986-family-CRISPR-associated-RAMP-protein
MSGQFVNPYTFVPLPAVPPERSGPRGHSGEDPELLTGKLSVRIKAVSPLLIRGFNKRKRDDVADGRIPMRPDGTPFIPGSSLKGAVRSLHETLTGSCLRVFDTDFVPSYRESVLPRRQRRMAVVTAPPKDGRPPEIRLCHSGDSRKHRVHQDILRQYKGELVSGQRLNVLSWDKKGSPDKIELSEYGDWVLFLSDSGAREKDKAYRAHIRKLSQDMGVLDDDVWSTFLRVVEETDDRRTAQRERYGDETTADVFFEYAPAKGKAEYLHIGRRYRASPHLVPGQPVWVDVTGLNRISWIGLAMNWRHAKSRTSAGQRATGYEPCAKSTELCPSCRLFGSIDPNERAPEERAVQSAYRGHVRFGDALAQHAVTGEEVTLPPMGAPHPGAGQAYLDNRQVAATAGDPPLREWGSSADGRTPRRLRGRKHYWQAERNGREKAREHHSAEMVTTAHVFPEGTEFRATITFVDIDEAQLGGLLATLSPSTALDAPDLRVHIGGGKPLGFGQCGIEVDLEHSELDRSGSRYGVGGGVRDLEAEADALVESFRSSLNAEVTDLWPLVAKVLNPETVPGDLVWYPPGAEWAKRHSGNPDDVKEFDDGFEFWKRTSGASTSGEAKGVSDSPLVSLPHLTKDASETNQAMDIVVKSGEQDA
>NC_009142.1|WP_009942493.1|5706888_5707818_-|IS3-family-transposase
MSFIDDHDFSVGLVLRVLDIPASTYYDWRARAAWPSRRHREDAELLERITKIRSSHEFAATYGSPRVWLELRRQGVRCSRKRIERIMRENGLAGAHLRRGWKPRSTRQDLRHSSAPDLVERDFTADAPNRLWVADLTRLLTGEGVLWLASVRDAFSNRIVGWATAARADTELVLTALEYGLWSRDVRSGELVHHSDKGCQYTALRFTRRLADAGVTPSTGSVGDSFDNALAENLWSTIKIELLYWPGTTFATRAEADAAIFRYVDGWYNPRRIQHGLGGLSPDEYEEAHHTQHDQHHVDSIRPTPAGAR
>NC_009142.1|WP_009942492.1|5707814_5708126_-|transposase
MAAPKKYPDELRERAVRLYRESDPKPAIRRLAEQLNVHPEALRNWIRQDEADRGQRQDRPATDMAEENRRLKRENAELKRVNDVLRAASAYFAGEIDPTRRRS
>NC_009142.1|WP_021341696.1|5708466_5708829_+|hypothetical-protein
MVELFPSGGFAAVGRYSRRVWLRDGVDRRYMGVVSWVSAPDEFNLLGAMPLRDGVTNTTSGCAGFRGYNDIAVGTSVTVYDQKGSLVASGQLTHSSVRDDGACVFAFTPAVPGDHAFYQV

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Crispr_ID: NC_009142_12

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_12

5697385-5697858

TypeIII

Consensus_repeat	Method
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CRISPRCasFinder
GNNCCAAGCGNCGGTCCTCATTGCGGC	CRT

6 spacers

cas2,cas1,csb2gr5,csm3gr7,csx10gr5,cas10

The CRISPR arrays of NC_009142_12

>merge|NC_009142|12|5697385-5697858|CRISPRCasFinder,CRT
CCCGTCCGCGACACAAGCGTCGGTCCTCATTGCGGCACCATGCCCGGGTGCGCATCCGCACGGCCGCCGACCTTCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCGCCTTCACCTTTGCCGGCATCCGGCCGGAGTTGTTCAGCCGGCTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGCCCAAAACCCTGCGTCGTGCATCAACCAGTACCCGGCTGTCACAGGCGCCAAGCGCCGGTCCTCATTGCGGCATCACGATGGCGGTAGAGCTGTCGGTGTAGTCGGCGACTGTCACCGGCGCCCAGCGTCGGCCCTCATTGCGGCAACCAGAGGGAGAGGGCTATGGGCAGCGGCCACATCTGTAACCGGGGCCCAGCGTCGGGTCCTCATTGCGGCTGGTCACGGAACTGGCCCGCACCGAACTCGCCGCAATGGGATCGACACCTGGCGTCGGTCCCATTGCGGC

>NC_009142|12|11|5697385-5697716|CRISPRCasFinder
CCCGTCCGCGACACAAGCGTCGGTCCTCATTGCGGC	ACCATGCCCGGGTGCGCATCCGCACGGCCGCCGACCTT
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	GCCTTCACCTTTGCCGGCATCCGGCCGGAGTTGTTCAGCCGG
CTGTCACCGGCGCCAAGCGTCGGTCCTCATTGCGGC	CCAAAACCCTGCGTCGTGCATCAACCAGTACCCGG
CTGTCACAGGCGCCAAGCGCCGGTCCTCATTGCGGC	ATCACGATGGCGGTAGAGCTGTCGGTGTAGTCGGCGA
CTGTCACCGGCGCCCAGCGTCGGCCCTCATTGCGGC

>NC_009142|12|4|5697394-5697858|CRT
GACACAAGCGTCGGTCCTCATTGCGGC	ACCATGCCCGGGTGCGCATCCGCACGGCCGCCGACCTTCTGTCACCG
GCGCCAAGCGTCGGTCCTCATTGCGGC	GCCTTCACCTTTGCCGGCATCCGGCCGGAGTTGTTCAGCCGGCTGTCACCG
GCGCCAAGCGTCGGTCCTCATTGCGGC	CCAAAACCCTGCGTCGTGCATCAACCAGTACCCGGCTGTCACAG
GCGCCAAGCGCCGGTCCTCATTGCGGC	ATCACGATGGCGGTAGAGCTGTCGGTGTAGTCGGCGACTGTCACCG
GCGCCCAGCGTCGGCCCTCATTGCGGC	AACCAGAGGGAGAGGGCTATGGGCAGCGGCCACATCTGTAACCGG
GGCCCAGCGTCGGGTCCTCATTGCGGC	TGGTCACGGAACTGGCCCGCACCGAACTCGCCGCAATGGGATC
GACACCTGGCGTCGGTCCCATTGCGGC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_009942500.1\|5701706_5702207_-\|hypothetical-protein	csm3gr7	cls001827_csm3gr7_CAS-III-D	unknown
NC_009142.1\|WP_011874610.1\|5708966_5710451_-\|SAVED-domain-containing-protein	unknown	unknown	gnl\|CDD\|380122
NC_009142.1\|WP_157355914.1\|5703608_5705561_-\|TIGR03986-family-CRISPR-associated-RAMP-protein	csm3gr7	cls000253_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|274902
NC_009142.1\|WP_143538213.1\|5699140_5700487_-\|hypothetical-protein	csm3gr7	pfam03787_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|377130
NC_009142.1\|WP_009951457.1\|5689321_5690971_+\|CRISPR-associated-endonuclease-Cas4/Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|187766
NC_009142.1\|WP_021341696.1\|5708466_5708829_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_143538212.1\|5686273_5687320_+\|SAVED-domain-containing-protein	unknown	unknown	unknown
NC_009142.1\|WP_009951451.1\|5692058_5693759_+\|DEAD/DEAH-box-helicase-family-protein	unknown	unknown	gnl\|CDD\|223989
NC_009142.1\|WP_031334572.1\|5682576_5683521_+\|tyrosine-type-recombinase/integrase	unknown	unknown	gnl\|CDD\|234698
NC_009142.1\|WP_009942493.1\|5706888_5707818_-\|IS3-family-transposase	unknown	unknown	gnl\|CDD\|222853
NC_009142.1\|WP_009951011.1\|5682075_5682324_+\|transposase	unknown	unknown	gnl\|CDD\|222853
NC_009142.1\|WP_009951453.1\|5691296_5692034_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_081468226.1\|5697949_5699122_-\|type-I-U-CRISPR-associated-protein-Cas5/Cas6	csb2gr5	cls000315_csb2gr5_CAS-I-U	gnl\|CDD\|274005
NC_009142.1\|WP_009951012.1\|5680829_5681999_+\|IS30-family-transposase	unknown	unknown	gnl\|CDD\|225382
NC_009142.1\|WP_009951455.1\|5690976_5691264_+\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_009142.1\|WP_009942499.1\|5702238_5703612_-\|hypothetical-protein	cas10	mkCas0133_cas10_CAS-III	gnl\|CDD\|187810
NC_009142.1\|WP_009942492.1\|5707814_5708126_-\|transposase	unknown	unknown	gnl\|CDD\|366690
NC_009142.1\|WP_044547549.1\|5683909_5684869_-\|tyrosine-type-recombinase/integrase	unknown	unknown	gnl\|CDD\|234698
NC_009142.1\|WP_009942501.1\|5700489_5701710_-\|hypothetical-protein	csx10gr5	cls000715_csx10gr5_CAS-III-D	gnl\|CDD\|131722
NC_009142.1\|WP_044547099.1\|5695281_5696082_-\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|180607

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_011874610.1\|5708966_5710451_-\|SAVED-domain-containing-protein	gnl\|CDD\|380122	pfam18145, SAVED, SMODS-associated and fused to various effectors sensor domain. Predicted to function as a sensor domain, sensing nucleotides or nucleotide derivatives generated by SMODS and other nucleotide synthetase domains. The sensing of ligands by SAVED is predicted to activate effectors deployed by a class of conflict systems which are reliant on the on the production and sensing of the nucleotide second messengers.	7.60945e-34
NC_009142.1\|WP_157355914.1\|5703608_5705561_-\|TIGR03986-family-CRISPR-associated-RAMP-protein	gnl\|CDD\|274902	TIGR03986, CRISPR-associated_protein, CRISPR-associated protein. Members of this protein family, part of the larger RAMP family, are found exclusively in species with CRISPR systems, in local contexts containing other RAMP (Repeat-Associated Mystery Proteins).	1.34837e-76
NC_009142.1\|WP_143538213.1\|5699140_5700487_-\|hypothetical-protein	gnl\|CDD\|377130	pfam03787, RAMPs, RAMP superfamily. The molecular function of these proteins is not yet known. However, they have been identified and called the RAMP (Repair Associated Mysterious Proteins) superfamily. The members of this family have no known function they are around 300 amino acids in length and have several conserved motifs.	1.55536e-20
NC_009142.1\|WP_009951457.1\|5689321_5690971_+\|CRISPR-associated-endonuclease-Cas4/Cas1	gnl\|CDD\|187766	cd09634, Cas1_I-II-III, CRISPR/Cas system-associated protein Cas1. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas1 is the most universal CRISPR system protein thought to be involved in spacer integration; Cas1 is metal-dependent deoxyribonuclease, also binds RNA; Shown to possess a unique fold consisting of a N-terminal beta-strand domain and a C-terminal alpha-helical domain.	4.35501e-103
NC_009142.1\|WP_009951451.1\|5692058_5693759_+\|DEAD/DEAH-box-helicase-family-protein	gnl\|CDD\|223989	COG1061, SSL2, DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair].	1.86438e-29
NC_009142.1\|WP_031334572.1\|5682576_5683521_+\|tyrosine-type-recombinase/integrase	gnl\|CDD\|234698	PRK00236, xerC, site-specific tyrosine recombinase XerC; Reviewed.	6.66547e-35
NC_009142.1\|WP_009942493.1\|5706888_5707818_-\|IS3-family-transposase	gnl\|CDD\|222853	PHA02517, PHA02517, putative transposase OrfB; Reviewed.	4.20269e-68
NC_009142.1\|WP_009951011.1\|5682075_5682324_+\|transposase	gnl\|CDD\|222853	PHA02517, PHA02517, putative transposase OrfB; Reviewed.	3.63803e-22
NC_009142.1\|WP_081468226.1\|5697949_5699122_-\|type-I-U-CRISPR-associated-protein-Cas5/Cas6	gnl\|CDD\|274005	TIGR02165, CRISPR-associated_protein_GSU0054_family, CRISPR-associated protein GSU0054/csb2, Dpsyc system. This model represents a CRISPR-associated protein from the Dpsyc subtype (a type I-C variant), named for Desulfotalea psychrophila LSv54. CRISPR systems confer resistance in prokaryotes to invasive DNA or RNA, including phage and plasmids. CRISPR-associated proteins typically are found near CRISPR repeats and other CRISPR-associated proteins, have low levels of sequence identify, have sequence relationships that suggest lateral transfer, and show some sequence similarity to DNA-active proteins such as helicases and repair proteins.	6.36961e-27
NC_009142.1\|WP_009951012.1\|5680829_5681999_+\|IS30-family-transposase	gnl\|CDD\|225382	COG2826, Tra8, Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair].	4.26448e-90
NC_009142.1\|WP_009951455.1\|5690976_5691264_+\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|378256	pfam09827, CRISPR_Cas2, CRISPR associated protein Cas2. Members of this family of bacterial proteins comprise various hypothetical proteins, as well as CRISPR (clustered regularly interspaced short palindromic repeats) associated proteins, conferring resistance to infection by certain bacteriophages.	6.18211e-19
NC_009142.1\|WP_009942499.1\|5702238_5703612_-\|hypothetical-protein	gnl\|CDD\|187810	cd09679, Cas10_III, CRISPR/Cas system-associated protein Cas10. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Multidomain protein with permuted HD nuclease domain, palm domain and Zn-ribbon; MTH326-like has inactivated polymerase catalytic domain; alr1562 and slr7011 - predicted only on the basis of size, presence of HD domain, and location with RAMPs in one operon; signature gene for type III; also known as Crm2 family.	7.8638e-15
NC_009142.1\|WP_009942492.1\|5707814_5708126_-\|transposase	gnl\|CDD\|366690	pfam01527, HTH_Tnp_1, Transposase. Transposase proteins are necessary for efficient DNA transposition. This family consists of various E. coli insertion elements and other bacterial transposases some of which are members of the IS3 family.	4.14991e-14
NC_009142.1\|WP_044547549.1\|5683909_5684869_-\|tyrosine-type-recombinase/integrase	gnl\|CDD\|234698	PRK00236, xerC, site-specific tyrosine recombinase XerC; Reviewed.	6.14196e-38
NC_009142.1\|WP_009942501.1\|5700489_5701710_-\|hypothetical-protein	gnl\|CDD\|131722	TIGR02674, cas_cyan_RAMP_2, CRISPR-associated RAMP protein, Csx10 family. CRISPR is a widespread repeat family in prokaryotes. At least 45 different protein families occur in prokaryotes only when these repeats are present. This family, a minor CRISPR-associated protein family, seems largely restricted to the Cyanobacteria. It belongs to the RAMP superfamily (pfam03787).	3.23027e-13
NC_009142.1\|WP_044547099.1\|5695281_5696082_-\|ATP-binding-protein	gnl\|CDD\|180607	PRK06526, PRK06526, transposase; Provisional.	9.96801e-174

>NC_009142.1|WP_044547099.1|5695281_5696082_-|ATP-binding-protein
MPGKPTTSSRNVAAEIAYLARALKAPSLAGAVERLAERARAEDWSHEEFLAACLQREVAARESHGGEGRIRTARFPSRKSLEEFDFDHQRSLKRDTITHLGTLDFIAGKENVVFLGPPGTGKTHLSIGLGIRACQAGHRVSFATAAGWVARLAEASHAGRLQQELVKLGRIPLLIIDEVGYIPFEAEAANLFFQLVSARYERASLIVTSNKPFGRWGEVFGDDVVAAAMIDRLVHHAEVISLKGDSYRLKDRQDLGRVPAATNTND
>NC_009142.1|WP_009951451.1|5692058_5693759_+|DEAD/DEAH-box-helicase-family-protein
MSTYGFDPQRRPYQHDRVLLYVRAGGRCQRCGTELGADYHAAHLVAWNNGGGTTLANMQAWCPRCNLGLGDHDVEPFGELALRPWQSQALPVIAERIFNYGTAVLHAAPGAGKTIFAAALFRILHDAGYVERMVVVVPNTALVRQWRSELAQLRIHLDPHPTDGALETTGLAGVIVTYQSLPTYAGVHATRIRQRPTLIVFDEVHHVATDASWGWAVRNMVGDVASGDIHAHAVLNMTGTLFRSDPRRRISTVNYDRLIVEGVPKLQAAADWSVPTRDLVGTELRAPDLYCYGGRAEYIDLTSAKAQPRKQIADLDEQERVGILPQVFASPEWINGFAAEAVRLLAEQRAALDGAEHLKLLFVAPTIVAARHAAHALNKATGTDFARLVVHDEPHALNTLRIAAEEPRSCGIVTVRMVTEGFDCPRIATIAYATNIVAPLFVAQMMARAMRLTPTERDTGTHLPAKILIPDHPALRDAFVDAIRDTIPLTEDTEPDERGAAPETLGAHHYDLLGIDDPRLHNVNVLDQDEAVSTEELTEAQTLCEKLHIPTAFAARVAIGIRGRGT
>NC_009142.1|WP_009951453.1|5691296_5692034_+|hypothetical-protein
MTANTDTTDFTPPYNITWRTFLGSLDRMASDASLPSVIDRSYLSWMPGSVQTSYLTLCRQFGLIDDDGSPMSLLSEIVYTPNSRPEVVARLLRVHYAAIVELGKTHATLQQLMDLWKETFGQNGETRRKAITFYMQAADFAQIPVSPLWERGVAKASRQATPARRARPRARRTKQKPTAPQSTSTPSDTVVLASGAGTLSISVDIDPLLLSEEDRGFVFGVIDSVHEYQNKHTSDTTNDPEDTTS
>NC_009142.1|WP_009951455.1|5690976_5691264_+|CRISPR-associated-endonuclease-Cas2
MRRHRYLVAYDIRDPRRLRLVAKKMEDFGDRTQYSVFLCDLTRADVADMTRALLTVIDSTIDRILIVDLGSGDSDSRFEFLGRRHGLPTTGHRVL
>NC_009142.1|WP_009951457.1|5689321_5690971_+|CRISPR-associated-endonuclease-Cas4/Cas1
MDPPLPIGARALSDFRFCPRLFHLEHAEGYRFDSEEMRLGRHVHASVDVTSGRERPAQRIDPSNWRICALALSSDELGLVAVCDVVEAVGGNVRPVEYRRGAPQRDGQPWPNDRIQLLAQIVLLRHHGYHCTHGYLWYDSVRRRVPVPWSATAEAELRHHLFRARHVASQGQPPPPLRHSPKCPRCALLPICMPDEINELSERDSEKPRKLLARAPARDPVYVTEPGTTVGIRSERLAVRKDHEELLSCRLRDVLHLVAAGPVQVTSQAVHALAEQGSPVVWTSTTGRLKSVDIPTVGKHVELRRRQFTATPNTALDFARRIVGGKIRNARTLLRRNPHVEEPDLLNRLDADAVRAERAPTRSTLLGIEGAAARTYFAGLVETFRTDHRLPGPAFDTMGRTRRPPRDAVSCLLSFLYCLLIKDITTACYALGLDPYFGFYHQPRHGRPALTLDLAEEFRPLIADSTALTLINNLQADPAMFHVHSTAVALTSSGRRDVIDAYERRLTTEVIHPVFRYKTTYRRAIEIQARLFAAHLLDEIPHYTAFTSR
>NC_009142.1|WP_143538212.1|5686273_5687320_+|SAVED-domain-containing-protein
MDDDMRQTPQITVEGSSEPARSHGWQAVWDGTLAFAFGGMFTGGFGVEFVKSFATGDDKGRWWITACLAIAVATLVLGTVQRRRQQRLQQVGIVATADDRKRGAYPDRDALAFSCTAYAATLKTSIILPENKPWNDHEIDALADEVVRAIQIATTTVSDSARINLIPTMPLNVGFWFGTRLKSDKAHEIAIHGRKRNNGSPSYFPATILRETTTTATPLEVGMETFEDGDPDVAAIALDLQGRGNDFLVPVRKVCQEHGARTLLSLRTWSTTIPETREAFTAVVEQACREWRKHTETTGAQRHRLIFLSGPIPIAVALGARFAPERGRWTAFTFDRDTSRYVPFPTRD
>NC_009142.1|WP_044547549.1|5683909_5684869_-|tyrosine-type-recombinase/integrase
MPPMDLERITDGLSVTWAGYLRDWDRSLRSGNRPETTRYNYVLAAAQLARYLAEHAPDPEADAAAEDPAEVAKAHIEAFQAWMIETRSAATAVNKHKALQQLFKWLMLDEEEIDRSPMERVRLPKAPTKLVPVLEEEATTRLLEVCKGKDFLSLRDQAIIRLFCNTGARLAEVAHLRLEDVDLKTESVTLYGKGGKVRRVRMGARTARALSRYLRARAKRKGADLPNLWLADRGGQALNANGIKIRLKRLGQRAGLDHVHAHRWRHTYAHQWKRAGGDTGDLMLLLGWSSDAMPRHYGASAAAERAQESQVRMGIGDDV
>NC_009142.1|WP_031334572.1|5682576_5683521_+|tyrosine-type-recombinase/integrase
MDVSRISTGLTSAWSHLLADWDRTLRSSGKPETTRYNYLLAVAQFARFLTDNAADCAAGPAAPAESTRAHIEEFQAWMIETRSASTALNKHKVLQQFFKWLAEDEQEIDRSPMERVKAPTTPTKLVPVMGDEDTKKILDTCNGKTFTDLRDQAIIRLYYGTGARLAEVANLTTDDLDMATDSVVYQGKGGKSRRVRFGPKTARALSRYLRARSRHRAADVPSLWLAARGAQPLQANGIKIMLKRRGKHAGVSGVHAHRWRHNYAHAWKLAGGDTGDLMLLLGWSTDAMARHYGASAAAERAQEVQLRMRIGENV
>NC_009142.1|WP_009951011.1|5682075_5682324_+|transposase
MTASVGSVADSYDNAMAEALNGTFKAELIERRSWPNPAAVQRAVLQWVGWYNHDRLHSAIGHVPPAEYEAMHYRSTITPKTA
>NC_009142.1|WP_009951012.1|5680829_5681999_+|IS30-family-transposase
MPPISLDPPCGRYLSFAEREEITVLRAKECGVREIARRLGRSASTISRELRRNAATRGGRLDYRASVAQWHADRQAGRPKVCKLAANDLLREYVQDRLAGTVSAPDGREVPGPETRWIGRRHGRRQDRRWALAWSPEQIAHRLPVDFPEDETMRISHEAIYQALYIQGRGALRRELTACLRTGRALRVPRARTRGRGKKFVTEEVMISQRPAEVEDRAVPGHWEGDLIIGLDSSAIGTLVERSTRFTMLLHLPPMPGHGGPRAKNGPALAGHGAEAVRDAVATTITNLPDQLRKSLTWDQGAEMAQHAQIRIDTGLQIYFADPHSPWQRGTNENTNGLLRQYFPKGTDLSRHSRSDLDAVAAALNARPRKTLGWKTPAEELNELLLLHQ
>NC_009142.1|WP_081468226.1|5697949_5699122_-|type-I-U-CRISPR-associated-protein-Cas5/Cas6
MVARPGTRGTNCWNSPAGGRPRGPITSAFTRTSCPLSRRKPRTCGRGHDTGGCEFASITTTGGPHSSSRGTKSRDHPGSRRSPWTRRTSPRSRTGAVTVPSNSTDLPRERKTFSTVTTCSNSCHCARPPHCSSVTTRPAEHRKNPMTNTFSDHAGDSDVAVDSSLAERMVVFGFPSGIRVEAKRSGVVTAMLRKAIMSRMPEPLPPEVSGHNADELTHVAYLAVPDAGGVGARGDITSVAVWTPRGTPNLVSQISAALTTGKPLHLDLPGVRLRLRPQDAEPVTAGLSGPSRSWTTVTPMVLDRYPGKGREAAEIARTCIRSGLPSPIEVTTSRNPFVHGAADLGRSQLPRRDNRPYTHAKITFAEPATGPVLLGSQRYLGMGLFLPTHS
>NC_009142.1|WP_143538213.1|5699140_5700487_-|hypothetical-protein
MTLITARLRFETAGGVGGTEAGAGENGYLQPIRRDPAPKGKAKGKVSLPGTTIAGSLRAHCAAFDAGLGDLFGDTPEQLADKHGKAEAMRRSQKRNDEKPERAMPSAIQVLGTLLHRRGETFSHTRNSSDRKRGAARTHHFHRVEMLETGTEFDVVLRWDNADEELLERFLDVLKQWHPTLGRGVTRGAGRCSLVGWGRVDYDLDSPDGLMAWLNTERRPNPAETPETRSAETYALDVDLSIVDAIHCGTELNSVNGPKHNTLTAFRHGEEFVVPGSTLKGVLRSRAEYICRVLGLLACKDQQCGECRPCLLFGFAGEENARRGRIAVDDAVIEDAQPDFRPHVAIDRFTGGARDQALYEHEVVAAGWFPMRVRWLGTETGAEAAQDARLLHAVVADLDARYVGIGARTTAGFGTVAVRECRSATFEVSELAGVLRDPVIASTEDVNA
>NC_009142.1|WP_009942501.1|5700489_5701710_-|hypothetical-protein
MKDLARITVTLLEPMAAGKRLRADFLQDTYDHVPGTVVRGALAGRWINERGVEVTTTEEFLDVFEGDGAFGPLHNENSLPAPLSVKVHKYAAKDDCPRLWWDRAASDGEQEHCKCGQALEDSKGESTGSVARQRRTRAALDEDGVVREGQLFTQNSLQRDTRFSGWLHGPAVRALWIVDQPVDTVYLGGRLKHQGAAVVQVDTEVEPEPVEQRGNKLILRLLGPGAFVDKHGFPSVKPDLDELTDVLQVEAQAVENCWTRWCEVEGWHAASGLPKPVERAVQPGSTYVIRLERAADEQARKRLMARGIGLRRREGFGALYSVKQEPLTVQRLVQGSAPLRNPARLRTDVPLLRQRYEQMLRGEVDDTMFQESLTGDGGYEKALRRLLNVVEPTLFYAVLTDLESHR
>NC_009142.1|WP_009942500.1|5701706_5702207_-|hypothetical-protein
MARGQGGGGSHDTIDERDQLPATSMAGVVRATAKKLLGSQNPVIDEVFGSDGNPSPWRWSPVRPDGDWHGAQPAARVRIDQHSRTAQGHMLILADHTGADQGRFSITKFRYVPRERLAVHQAVLKVAAQATCSLGAWRRRGSGWVGIRCAEEINEETVRIFLGLKR
>NC_009142.1|WP_009942499.1|5702238_5703612_-|hypothetical-protein
MSDYMDIGVVRIQSWLTRTPKLRGRRGGSTLITQATDHDAIREVLSGFGETVEVHSEGGRIDGVVPLKLHDEAQAAAAEKAVVRHIRSRMPGVSLSVKRYSGDTYAVARSVGARQEHEWPAPAVDWPAGLPCQWCRTLPADPAPGARDEDGLRRCAECLARDAAAGRADGRDVPFAESELLHRLGIAEAKVPDEFKPMAELDRKGNRPDADGQTHLALVYADGNAIGKFITSALRHAPRKKRRSPDFAAAIDGSTWQALVTAVEQIRQEDQELLPVVPHFVGGDDVLVSVPACRAWRFTRALLGAFDEAIKEASGLHTDLPSLSAGVVFHHYTVPLYEVNELAKTALRRAKVHTSGEAASLAWHDTTHDGHDPVARSALTLADLEQKWDALHRLAKLPRSAHARLEAVTRAYGSRSSELLTHAIRVGSDQVIRQFQGSFDLADALGMARWWWHDDQA
>NC_009142.1|WP_157355914.1|5703608_5705561_-|TIGR03986-family-CRISPR-associated-RAMP-protein
MSGQFVNPYTFVPLPAVPPERSGPRGHSGEDPELLTGKLSVRIKAVSPLLIRGFNKRKRDDVADGRIPMRPDGTPFIPGSSLKGAVRSLHETLTGSCLRVFDTDFVPSYRESVLPRRQRRMAVVTAPPKDGRPPEIRLCHSGDSRKHRVHQDILRQYKGELVSGQRLNVLSWDKKGSPDKIELSEYGDWVLFLSDSGAREKDKAYRAHIRKLSQDMGVLDDDVWSTFLRVVEETDDRRTAQRERYGDETTADVFFEYAPAKGKAEYLHIGRRYRASPHLVPGQPVWVDVTGLNRISWIGLAMNWRHAKSRTSAGQRATGYEPCAKSTELCPSCRLFGSIDPNERAPEERAVQSAYRGHVRFGDALAQHAVTGEEVTLPPMGAPHPGAGQAYLDNRQVAATAGDPPLREWGSSADGRTPRRLRGRKHYWQAERNGREKAREHHSAEMVTTAHVFPEGTEFRATITFVDIDEAQLGGLLATLSPSTALDAPDLRVHIGGGKPLGFGQCGIEVDLEHSELDRSGSRYGVGGGVRDLEAEADALVESFRSSLNAEVTDLWPLVAKVLNPETVPGDLVWYPPGAEWAKRHSGNPDDVKEFDDGFEFWKRTSGASTSGEAKGVSDSPLVSLPHLTKDASETNQAMDIVVKSGEQDA
>NC_009142.1|WP_009942493.1|5706888_5707818_-|IS3-family-transposase
MSFIDDHDFSVGLVLRVLDIPASTYYDWRARAAWPSRRHREDAELLERITKIRSSHEFAATYGSPRVWLELRRQGVRCSRKRIERIMRENGLAGAHLRRGWKPRSTRQDLRHSSAPDLVERDFTADAPNRLWVADLTRLLTGEGVLWLASVRDAFSNRIVGWATAARADTELVLTALEYGLWSRDVRSGELVHHSDKGCQYTALRFTRRLADAGVTPSTGSVGDSFDNALAENLWSTIKIELLYWPGTTFATRAEADAAIFRYVDGWYNPRRIQHGLGGLSPDEYEEAHHTQHDQHHVDSIRPTPAGAR
>NC_009142.1|WP_009942492.1|5707814_5708126_-|transposase
MAAPKKYPDELRERAVRLYRESDPKPAIRRLAEQLNVHPEALRNWIRQDEADRGQRQDRPATDMAEENRRLKRENAELKRVNDVLRAASAYFAGEIDPTRRRS
>NC_009142.1|WP_021341696.1|5708466_5708829_+|hypothetical-protein
MVELFPSGGFAAVGRYSRRVWLRDGVDRRYMGVVSWVSAPDEFNLLGAMPLRDGVTNTTSGCAGFRGYNDIAVGTSVTVYDQKGSLVASGQLTHSSVRDDGACVFAFTPAVPGDHAFYQV
>NC_009142.1|WP_011874610.1|5708966_5710451_-|SAVED-domain-containing-protein
MAHLPTTGPTSVRTTGDYYQWLVAWEACLVLLRETAARSHNPVRAVGVELDGVGNLDDVVLLRDVPPNTYKQVKYAVDSATPVNEEYLTKPSANGGPSILAKIARTWKGLTADGGSADLRLVTNRAADSEDGLMAGRDARTGLLMPRAAVGGARSDRGKARARWAQEAGLTEAELIDLLSVLRFDLPLDMVWYQENLRLLMAVTGLRHDQRALEEGAGWVAKMVREGQRELTLTMIETAVAELDLEAGPARAVLSIATLKPDPLASDADHAINWVDRFDGDSPYTKRRPLPPNTWSQLQADIEAAPGRLPAETTAVSVTGSIRLAPAFLVGTTFRMVTGTDLATVQRGRAGSQLWSTNDPFDTALVPGVSEDEIGQGDEIAVAIAVATDPTENVVEYLQEQNIPVRKLTVLTPPDGAANDGSLPDSTTANALAVGIRDHLRRSTRRVRRLHLFLACPMGLAVLLGNRWNRLCQTVVYEDIKIDDGYEPAFTVEA

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Crispr_ID: NC_009142_13

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_13

5966587-5966853

Orphan

Consensus_repeat	Method
CAGCGACCCACCCAGCCGAGCCG	CRISPRCasFinder

4 spacers

The CRISPR arrays of NC_009142_13

>merge|NC_009142|13|5966587-5966853|CRISPRCasFinder
CCGAGGCCCACCCCGCCGAGCCGTGCGCCAGTCAGCGACCCGTCACGTGGAGTCCCCATTCCCTCCGAACCACCCCGCGGAGCCGCTCGCCCAGCGAGCACCACGCCGAGCCTCACCGCCGCCGAGCCACCCCGCCGAGCCGCGCGCCAGCCAGCGGACCCGCCTCGCCGCGCCGCGCGAGTCAGCGACCCACCCAGCCGAGCCGTGCGCCGACCGAGCCACCGGGTGCGCGTCCCGCGCCGGCCGGCGACCCACCCAGCCGAGCCG

>NC_009142|13|12|5966587-5966853|CRISPRCasFinder
CCGAGGCCCACCCCGCCGAGCCG	TGCGCCAGTCAGCGACCCGTCACGTGGAGTCCCCATTCC
CTCCGAACCACCCCGCGGAGCCG	CTCGCCCAGCGAGCACCACGCCGAGCCTCACCGC
CGCCGAGCCACCCCGCCGAGCCG	CGCGCCAGCCAGCGGACCCGCCTCGCCGCGCCGCGCGAGT
CAGCGACCCACCCAGCCGAGCCG	TGCGCCGACCGAGCCACCGGGTGCGCGTCCCGCGCCGGC
CGGCGACCCACCCAGCCGAGCCG

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_009951269.1\|5963881_5965120_+\|PQQ-binding-like-beta-propeller-repeat-protein	unknown	unknown	gnl\|CDD\|274824
NC_009142.1\|WP_009950785.1\|5977091_5977655_+\|GNAT-family-N-acetyltransferase	unknown	unknown	gnl\|CDD\|224584
NC_009142.1\|WP_009950792.1\|5971049_5971409_-\|PRC-barrel-domain-containing-protein	unknown	unknown	gnl\|CDD\|368352
NC_009142.1\|WP_009951273.1\|5960237_5961434_-\|cation:proton-antiporter	unknown	unknown	gnl\|CDD\|366411
NC_009142.1\|WP_009950787.1\|5975758_5976634_-\|NAD(P)-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|224995
NC_009142.1\|WP_011874684.1\|5961492_5962203_-\|M15-family-metallopeptidase	unknown	unknown	gnl\|CDD\|379247
NC_009142.1\|WP_009950786.1\|5976788_5977004_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009950794.1\|5968675_5970562_-\|DUF2339-domain-containing-protein	unknown	unknown	gnl\|CDD\|378390
NC_009142.1\|WP_009951267.1\|5965229_5965793_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|273727
NC_009142.1\|WP_009950795.1\|5967791_5968664_+\|LysR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|223656
NC_009142.1\|WP_009950790.1\|5971573_5972311_-\|mechanosensitive-ion-channel-family-protein	unknown	unknown	gnl\|CDD\|223740
NC_009142.1\|WP_009951278.1\|5956938_5957709_-\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_143538222.1\|5959936_5960209_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009950793.1\|5970664_5971066_+\|class-I-SAM-dependent-methyltransferase	unknown	unknown	gnl\|CDD\|225136
NC_009142.1\|WP_009950796.1\|5966868_5967720_-\|PhzF-family-phenazine-biosynthesis-isomerase	unknown	unknown	gnl\|CDD\|334973
NC_009142.1\|WP_009950789.1\|5972541_5975715_+\|winged-helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|226418
NC_009142.1\|WP_037306473.1\|5955821_5956823_+\|LacI-family-DNA-binding-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224525
NC_009142.1\|WP_009951276.1\|5957748_5958471_-\|SDR-family-NAD(P)-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|180458
NC_009142.1\|WP_143538341.1\|5962366_5963491_-\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|379258
NC_009142.1\|WP_011874682.1\|5958615_5959692_-\|peptidase-C45	unknown	unknown	gnl\|CDD\|367486

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_009951269.1\|5963881_5965120_+\|PQQ-binding-like-beta-propeller-repeat-protein	gnl\|CDD\|274824	TIGR03866, PQQ_ABC_repeats, PQQ-dependent catabolism-associated beta-propeller protein. Members of this protein family consist of seven repeats each of the YVTN family beta-propeller repeat (see TIGR02276). Members occur invariably as part of a transport operon that is associated with PQQ-dependent catabolism of alcohols such as phenylethanol.	4.39912e-08
NC_009142.1\|WP_009950785.1\|5977091_5977655_+\|GNAT-family-N-acetyltransferase	gnl\|CDD\|224584	COG1670, RimL, Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis].	2.42468e-27
NC_009142.1\|WP_009950792.1\|5971049_5971409_-\|PRC-barrel-domain-containing-protein	gnl\|CDD\|368352	pfam05239, PRC, PRC-barrel domain. The PRC-barrel is an all beta barrel domain found in photosystem reaction centre subunit H of the purple bacteria and RNA metabolism proteins of the RimM group. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the carboxyl terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain.	0.00939206
NC_009142.1\|WP_009951273.1\|5960237_5961434_-\|cation:proton-antiporter	gnl\|CDD\|366411	pfam00999, Na_H_Exchanger, Sodium/hydrogen exchanger family. Na/H antiporters are key transporters in maintaining the pH of actively metabolising cells. The molecular mechanisms of antiport are unclear. These antiporters contain 10-12 transmembrane regions (M) at the amino-terminus and a large cytoplasmic region at the carboxyl terminus. The transmembrane regions M3-M12 share identity with other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the region that is involved in the transport of sodium and hydrogen ions. The cytoplasmic region has little similarity throughout the family.	1.14541e-35
NC_009142.1\|WP_011874684.1\|5961492_5962203_-\|M15-family-metallopeptidase	gnl\|CDD\|379247	pfam13539, Peptidase_M15_4, D-alanyl-D-alanine carboxypeptidase. This family resembles VanY, pfam02557, which is part of the peptidase M15 family.	1.11042e-23
NC_009142.1\|WP_009950794.1\|5968675_5970562_-\|DUF2339-domain-containing-protein	gnl\|CDD\|378390	pfam10101, DUF2339, Predicted membrane protein (DUF2339). This domain, found in various hypothetical bacterial proteins, has no known function.	2.76168e-13
NC_009142.1\|WP_009951267.1\|5965229_5965793_-\|hypothetical-protein	gnl\|CDD\|273727	TIGR01642, Splicing_factor_U2AF_59_kDa_subunit, U2 snRNP auxilliary factor, large subunit, splicing factor. These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.	4.74861e-07
NC_009142.1\|WP_009950795.1\|5967791_5968664_+\|LysR-family-transcriptional-regulator	gnl\|CDD\|223656	COG0583, LysR, Transcriptional regulator [Transcription].	1.9188e-36
NC_009142.1\|WP_009950790.1\|5971573_5972311_-\|mechanosensitive-ion-channel-family-protein	gnl\|CDD\|223740	COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane].	2.26623e-16
NC_009142.1\|WP_009950787.1\|5975758_5976634_-\|NAD(P)-dependent-oxidoreductase	gnl\|CDD\|224995	COG2084, MmsB, 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism].	2.92232e-33
NC_009142.1\|WP_009950793.1\|5970664_5971066_+\|class-I-SAM-dependent-methyltransferase	gnl\|CDD\|225136	COG2226, UbiE, Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism].	1.84645e-17
NC_009142.1\|WP_009950796.1\|5966868_5967720_-\|PhzF-family-phenazine-biosynthesis-isomerase	gnl\|CDD\|334973	pfam02567, PhzC-PhzF, Phenazine biosynthesis-like protein. PhzC/PhzF is involved in dimerization of two 2,3-dihydro-3-oxo-anthranilic acid molecules to create PCA by P. fluorescens. This family also contains uncharacterized Mycobacterial proteins, though there is no significant sequence similarity to pfam00303 members. This family appears to be distantly related to pfam01678, including containing a weak internal duplication. However members of this family do not contain the conserved cysteines that are hypothesized to be active site residues (Bateman A pers obs).	4.75535e-64
NC_009142.1\|WP_009950789.1\|5972541_5975715_+\|winged-helix-turn-helix-domain-containing-protein	gnl\|CDD\|226418	COG3903, COG3903, Predicted ATPase [General function prediction only].	1.64796e-54
NC_009142.1\|WP_037306473.1\|5955821_5956823_+\|LacI-family-DNA-binding-transcriptional-regulator	gnl\|CDD\|224525	COG1609, PurR, Transcriptional regulators [Transcription].	3.90681e-62
NC_009142.1\|WP_009951276.1\|5957748_5958471_-\|SDR-family-NAD(P)-dependent-oxidoreductase	gnl\|CDD\|180458	PRK06194, PRK06194, hypothetical protein; Provisional.	2.27803e-45
NC_009142.1\|WP_143538341.1\|5962366_5963491_-\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|379258	pfam13556, HTH_30, PucR C-terminal helix-turn-helix domain. This helix-turn-helix domain is often found at the C-terminus of PucR-like transcriptional regulators such as Bacillus subtilis pucR and is likely to be DNA-binding.	1.57656e-16
NC_009142.1\|WP_011874682.1\|5958615_5959692_-\|peptidase-C45	gnl\|CDD\|367486	pfam03417, AAT, Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase.	9.34803e-11

>NC_009142.1|WP_009951267.1|5965229_5965793_-|hypothetical-protein
MRYEQAPAWQEPEPPPSRYDDPDPYDYYDRDRDYDAPYDRESDRDWDRDWDRHDRERDRYERDRYDRDRDRDRYEPPPARYDRPERSYEEKRARRADRANTLAMVVHLFTGVVATVFVLHIVFQLFGANPDSGFVSFVYQTARIFVFGFGDVFTPGDATIGLVLNYGLAAAVYLVVGRVVAGALRRR
>NC_009142.1|WP_009951269.1|5963881_5965120_+|PQQ-binding-like-beta-propeller-repeat-protein
MRRRLTTGLAALALAGAAVVTPGYATAPAPRDVLFVGNNWDGTVEVVSAEGGLTSIGRINAVPDRAERMREIYANPVRLAYFLGIRALVGEGHDQFVDDAYSVQDGRLLVVSRPSFADVVAIDIAGGELVWRFAVDGRRSDHMAISPDGTEVAVSASTGNVVHLLDVATGRETGRFPSGDSPHENVYSADGRWILHASIGHVYSPLDHPALDTTKGERHFQIVDRATGEVVRRVDMGAELDETGYPHMSSAVRPMTLSPDARYAYLQVSFFHGFVEYDLVQDRVTRVANLPISDEVEDLPRERYLLDSAHHGIAMNPAGTDLCVAGTMSDYATIVSPETFRHKGLVRSGKKPYWATPSADGQHCYVSWSGDDKVSAISYETGQEVGSVQVGDHPQRMRLGQVPAGWRGGPAA
>NC_009142.1|WP_143538341.1|5962366_5963491_-|helix-turn-helix-domain-containing-protein
MPAELLRGDVTRIIGAGVRAFAEVVRTGQRPSPRFLSSLRENIAQRAEEGVPIDVVLSAHHLGVRVSWELLGPHAEPADLPGLLRLNRLQLGYLQDVTAAVSAGYFQERQAVFSEVQAARQALLSALLEGGASAETAARAGILLPPAYLVLELVIGAHPDEDRSDVDGSVAARRKLRRLRTELEHGARDPVLCALTPAGGVALVPCAQPADEVGEADWRRLAALVESASRAAGADVTAGAMPAAPAGVGEAAVVAREVLDVALACGRPPGVHRLDDVALEYQLSRPGPAAEKLAALLEPVARRPELLETLRTHFGHGLNRRHTARALHIHPNTVDYRLRRIAALTGLDTTVPAELPRIRAALIARQALTSARRR
>NC_009142.1|WP_011874684.1|5961492_5962203_-|M15-family-metallopeptidase
MRTRHHPHPARRACLAVALAAVLAQCSSPASPPAGGPPPASPPPTVPARSPFTAEVVPVTAAELGPSWRPGCPVGPAELRRVRLTHVGMDGATHVGELDVHQDRVRQVVDVFGQLYAIGYPVERMRPAGTYPGAEDELSMRDNNTSAFSCRDIPGSGRWSQHALGRAVDVNPLINPYVDDTGAFQPANAAPYLDRARRDPGVLHDGDPAVRAFTDRGWTWGGHWTTPIDYQHFEMP
>NC_009142.1|WP_009951273.1|5960237_5961434_-|cation:proton-antiporter
MPDLANLLVVTVVALLAPLLLGMAPRVRVPSVVLEIVAGVVLGPSVLGLVEVDEAVRIVALLGLAFLLFLSGLEVDVHRLRGSLLRTALLGYALTMVIGVLAGFSFGAAGWVRDPLLIAVALSATSLGLVVPVLKDAGRADDAAGQTTIAASSVADFGAVVLVSLLFSVSETTPGERIAFLAVFVVFVAAIGVAVALAGRWSRLDMVFLRLQDTTAELRVRAAVALLVAFVVLAELFGLESILGAFLAGAVVGLIDRDTSTHPHFRTKLDAIGYGFLIPVFFISSGVTLDLRGLVEEPTALLRVPLFLLALLLVRGVPALLYVRALGSRSAVAAGFLQATSLPFLVTTTQIGESVGLIAPVTGAALVCAGLLSVLLFPSAALALLRRDRRPRAGSRTG
>NC_009142.1|WP_143538222.1|5959936_5960209_+|hypothetical-protein
MATASPDRERAGSGVAQRGQVRLVLHPGQQLRGAPAAARARIRVPSAGGSVRGTFKLSQDMPPDVRARVRADLRAAHPQLAELMAAHDPG
>NC_009142.1|WP_011874682.1|5958615_5959692_-|peptidase-C45
MSLPVHRSDELDPAQRGRGFGRAWRKQVQRSYAGYAELFAAVGASDVRGWSEQAHAETAAWAPALAEEIADVAEGCGLPTWQVAALNARTEILAAAASNGEGECSTSVVLPGAGVAPRTVQTWDWHDTLADGMVIWSLEPRAGHRVHTFTEFGVLGKIGVNSAGLGVHFNVLRHVRDSADIGVPVHVVARRILDEASTVGEAVAIAGSARLSASSLITVATFDGERGEVRGLELSPAGVAGLEPDGTGTFLHTNHFLDVELSAGERTTEAESSTYQRHALLRQRTHALSADDPTARARALHAHHADGAPVCAHADQALPAHRRGQTLATLTLDLAAARLGVHEGGPCGVSAESWQWTA
>NC_009142.1|WP_009951276.1|5957748_5958471_-|SDR-family-NAD(P)-dependent-oxidoreductase
MSTGIKTAVVTGAASGIGRALAEELRARGTDLVLADTDTDALSEVATRLDATGVPADVSDQAAMDALAAKAPDARLVCLNAGVVGASLGAPWEVPPGEWDRVFGVNVVGVVNGLRAFVPKLLASGERAHVLITASLAGLAVFPGGGAYGPSKHAVTAVAQHAAMALADTPVRVSMICPALVATGMSSEGADPADVAREALRTLDDGVFSVVPAEWRTAVVEQAERLACGQQPKPPTPDSR
>NC_009142.1|WP_009951278.1|5956938_5957709_-|hypothetical-protein
MRSLALIGSLDGDEVGRGARRVLAWLLAALAIALVAAVTVVVVWFPPLAATTCPGCYGLERVAPGVYAEPGLPASRRQQVVSAVEEANRRVDRFYGGRVSSPRIVACLTDGCYRRIGGGGERGVAVLNSAVMLSPRGVDPVIASHEMSHVELHTRLHSSGARVPQWFDEGLAVLVSGDPRHLAPATAPDRCLVPAAEPLPETLDGWLKAAAADPRTYAEAACRVDGWVAAHGGSPAVLDLVRRLNSGEDFHAITGM
>NC_009142.1|WP_037306473.1|5955821_5956823_+|LacI-family-DNA-binding-transcriptional-regulator
MSADAPVTLVEVARAAGVSKTTASDALRRSGRVSEKTRQLVAETADRLGYTPNLSARSLRAATTGAIGLHLPEVLTRSEYYMSFVFGVIDQASRHDYDVTLLTSRGARARAAFHRLDGVVLGDPLVTDPVVHGLLASSVPVVTCERFTGDAEPAGTVRSDHAAMLSLLFDRLHDAGAARPALLASSTITDWGAILQRAYREWCERRGTAVRLRELPYGAPPEVTQDEIRALLSAEPGIDALVCAPDGSAAAALPVLREEGREVGRDVLLAACVDSGPLAHTDPPITAIDLRPREAGAACAELLFDLLAGRADEGAVRDLPIGLVERGSTAPRG
>NC_009142.1|WP_009950796.1|5966868_5967720_-|PhzF-family-phenazine-biosynthesis-isomerase
MDDIDVLRYSAFDDGGRGGNPAGVVLDARGLTEQRMQQIAAEVGYSETAFLVERPGDRHHRIRYFSPVAEVGFCGHATIATAVALAERDGTGELLLTAPVGDVAVDTRTEGGRVAATLTSVAPAVREADEGDLATVLGALGWDAAELDPDLPPRIANAGNDHLVLAAATRRRLAELDYDREALGALMAERDWTTVHLVWRGEDGEFHARDPFPPGGVYEDPATGAAAAAFGAYLRALGAVEPPARITIHQGEDMGRPSRLLVDIPAGATSGIAVTGSAVPITG
>NC_009142.1|WP_009950795.1|5967791_5968664_+|LysR-family-transcriptional-regulator
MDTRLLRSFLAVVRTGGITAAAAELSYAQSTVTAHVQALERSTGARLLDRSAAGAVATSAGARLAEHARHILDLEDRMFAELAAADRTPAGEVRLRAPESVCAYRLPGVLRGLSERYPDVRLSLAPAATGDALSAVADRRADLALVFEPSVSGNGLDVVDLGPQHLSLVAAPTTGLPRERRVTAAELAEAGALLLEEGCGYSDELAALLSAAAPAAAPTRFGSVETVKRCVAAGLGVALLPTPTVEEEITDGRLVELHGPRTSEHHLWLVRSATRWASPAVMAVHSLLRT
>NC_009142.1|WP_009950794.1|5968675_5970562_-|DUF2339-domain-containing-protein
MSHSSSGEQADGGPDQDGTLVLLAGELNAIGQRLTELGAVLQSRAAGPAPRQTRVPQQQAMPQPPGVPQPAMLPQQQEAWAQQPYGMPPAPPPQAPQDPPYPAMPQPVQAARSPRRVSAGQLTTSRVLAVAGTAVTLLGVVFLLVLAAQQGWLLPQLRVGGGAALGATLVASAVWVHRKQAGRIGAYALAATGFTAVHLAVVAATSLYGYFPKPAGLGLGLLVAAAGLALADRWRAQSPAVGAVLGSAVCAPMITARPDAMLVGFLLVLQIAATPVQIRRGWRGLTLAAAVPCVLGALVADVWNLVLPRHDGTTLLAVLAVSLLGVVLAAVTAGARRGDDVTAVGLLVASPAPALLSAPMVERVHAGLLAALVAAMLLAVWAVGRFLPAFRSLLPGRFTAVAGGAGAVAALQATVTFVDPSAWATALLCEALLLALGAFQLRSSGILLGALCFGVAGFLVSTVHEVPIAALLGLGRAQGVPGVLAGLLIAAVAVLVPAVAVRLGALSREPGGVWALPGVVLLYGSASTIMALVLIVRDDRTGFLTGHILITLSWVGAAIYLLLRGVRLTHLRVAGMVLIAVALAKLFLFDLATLDGFARVVAFLCAGLVLLAAGVRYARLVAAEQADG
>NC_009142.1|WP_009950793.1|5970664_5971066_+|class-I-SAM-dependent-methyltransferase
MPYVPEQLFAQAAPFYARYRPGYPAELVELLAERTGLDSGDLVLDVGCGTGQLALPLARRVRQVVAVDPQPGMLDHAREAARRAGVGNIDWRQADASALARLGVADARAAFFGASFHWTDRADRDRPGVRSAG
>NC_009142.1|WP_009950792.1|5971049_5971409_-|PRC-barrel-domain-containing-protein
MDDLGRPIAYLALAEGTPVFDRSGERIGVVEHVVADLPMDIFEGVVVQGARLPGRRLFADPDQIAQMHEHGVLLRVGRDELAEYRDRANPKRDSAGRPLPEGRLHALLRRTWDLISRRS
>NC_009142.1|WP_009950790.1|5971573_5972311_-|mechanosensitive-ion-channel-family-protein
MASPNEDPGTGRRGWWRAPRLKPRRPSADVKRGAVASALAVAMIVAAAVVDPAALFRHGSALYKTAAIAGAIVFVVLGAVAVQSLAREAGRRTRVRLSPSHAGALRLVVSLAGYALVAVVALGELGVRVDQLLLGGAVTGVIIGIAAQQSLGNVFAGLMLVTARPFTLGDHLVIHSGTLGGPLQGRVTEMGLVYLTLESDEGPVKLPNTAVLNSAIAPNNKIDPAQSGQNNGLGSEQTPAGWKTA
>NC_009142.1|WP_009950789.1|5972541_5975715_+|winged-helix-turn-helix-domain-containing-protein
MRFGVLGPLAAWAADGRPVRVPEAKVRALLASLLVDPGRVVSVDRLADRLWGERLPRNPANTIQTKISQLRRVLDAAEPGARDLVGHQPPGYVLHVDDESLDARRFESLTERARAAADPRERVALLTDALALWRGPVLADFADAPFAAPLARRLEEQRLVAEEDRAQARLDLGEHDVLAGELAELVAAHPLRERLRAVQMRALYRAGRQSEALDAYLDLRERLDRELGLEPGPEISALHGSILRQDAALEVRPARRTNLPAPLTELVGRDDAVAAVRSLVSGARLVTLTGPGGVGKTGLAVEVARSLEAADGVWLVEFAGLERQVGAGPDSLDEWGVAVVTAALDIRDEAAGASADRLTDVLRGKDVVLLLDNCEQVVEPVAALVARLLRAAPGLRVLATGQVPLGLTGEVVWTVPPLEVPGADVVAAAEVGRFSAVRLFLARAAAARPGVALDSGNAAAVAAICRRLDGIPLALELAATRVRALGVGDLLSRLDDRFGLLTTGPRDAPARQRTLRAVIDWSWEPLGEAERTVLRRLAVHADGCTLAAAEAVCSGDGVRPEDVLDVLARLVDRSLVVSQPGRTGQRYRLLESVAAYCLDRLREAGELEAVRLRHARHHLVAAERAEPLLRGPHQRARLDELDAEAANLRSALDTFVEHGEAGAALRLARALTWFWFLRGRFCEACRALRGALSVPGASRSRRGEVAVWAAGLAVLGGDPVDEEAFGQAAGIADPGARSRALWFAGYVRSTIGDMAAGRRFTDAALRDFEALGDKWGIAAALADRTSQALGAGDLAAADRAARRSAELFDELGDRWGQLQASFARGVLAETFGDHERARRLHSEGLHKARELELWPEVSYQLTWLGRNALLTGDHALAREHHERAAEIARDRGFRAGELYAVTGLALGARREGDLDLAEHHLDEVLRWYRDSAFEPSSTLVHAEFGFVAELRGDAERAAEHHHRGFELALQLGDSRAVALAMEGLAGAEALAGRHARAARLLGAAARARESVGTPLIPAESADVDRITAAARAELGDELFAAEFERGAQSSPEEFRRR
>NC_009142.1|WP_009950787.1|5975758_5976634_-|NAD(P)-dependent-oxidoreductase
MNEHKEAVTVIGLGPMGRSIVRVLLAAGHPVTVWNRTPGRADALVAEGAVRAQTPAEAVAASGLVLLSLTDYQAMYDILGDGESLSGKVVVNLSSDTPERGREAAKWAAERGARFLTGGIMVPENLVGDESAYTYYSGPREVLDAHEPVLRLIGRPDYVGTDPGLAQLYYLAQMDIFLGSLSLYLHATALLGSAGVPPKEFLPWAVQNFDGVSYFLAGAAEAVDEGVHPGEAASALMMGASADHLVGASEAAGIDLVLPKAIQSHYARAVAAGHGKDSWTSLINVIRDPSL
>NC_009142.1|WP_009950786.1|5976788_5977004_+|hypothetical-protein
MNQVWKPLAGEPGLEAVEELAQPGLEEREMREYVRACQELAITNGRGEQDQGPLNRAARSVTLKPYSVQPV
>NC_009142.1|WP_009950785.1|5977091_5977655_+|GNAT-family-N-acetyltransferase
MLSCRLDEGAELRPLEPWQAAEFAAHADRDRAHFEPWLQWTQLVTDEESARAFLQRYADRQAADDGRIYGIWSHGRLVGGTLFRIFSPADGLCEIGVWLSPEAQGRGLITRAARLMIDWAVGERGMHRVEWRNAVENERSKAVAKRLGMTLDGVLREAFPYLGRRFDIEVWSLLASEWRSGDAPPRA

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Crispr_ID: NC_009142_14

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_14

5986973-5987087

Orphan

Consensus_repeat	Method
GCCTGAGCGGAGCACCTGACAGCCTGAGC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_009142_14

>merge|NC_009142|14|5986973-5987087|CRISPRCasFinder
TTCTTCGCGGAGCACCTGACAGCCTGAGCGGAGCACCTGACAGCCTGAGCCGAACACCCTCGCCGCCTGAGCGGAACACCCTGGCCGCCTGAGCGGAACACCTGACAGCCTGAGC

>NC_009142|14|13|5986973-5987087|CRISPRCasFinder
TTCTTCGCGGAGCACCTGACAGCCTGAGC	GGAGCACCTGACAGCCTGAGCCGAACACCCTCGCCGCCTGAGCGGAACACCCTGGCC
GCCTGAGCGGAACACCTGACAGCCTGAGC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_009950784.1\|5977823_5979650_-\|long-chain-fatty-acid--CoA-ligase	unknown	unknown	gnl\|CDD\|223953
NC_009142.1\|WP_009950783.1\|5980017_5980281_-\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009951419.1\|5996444_5996849_-\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009950790.1\|5971573_5972311_-\|mechanosensitive-ion-channel-family-protein	unknown	unknown	gnl\|CDD\|223740
NC_009142.1\|WP_009951215.1\|5989998_5990766_-\|3-oxoacyl-ACP-reductase	unknown	unknown	gnl\|CDD\|180371
NC_009142.1\|WP_143538224.1\|5980445_5981690_-\|glycoside-hydrolase	unknown	unknown	gnl\|CDD\|119374
NC_009142.1\|WP_009951217.1\|5988313_5989057_-\|MerR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|133405
NC_009142.1\|WP_009951214.1\|5990866_5992237_-\|aldehyde-dehydrogenase	unknown	unknown	gnl\|CDD\|365919
NC_009142.1\|WP_009950785.1\|5977091_5977655_+\|GNAT-family-N-acetyltransferase	unknown	unknown	gnl\|CDD\|224584
NC_009142.1\|WP_011874690.1\|5982194_5984585_+\|RNA-binding-transcriptional-accessory-protein	unknown	unknown	gnl\|CDD\|225094
NC_009142.1\|WP_029622200.1\|5989202_5989928_-\|GntR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|225097
NC_009142.1\|WP_009950787.1\|5975758_5976634_-\|NAD(P)-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|224995
NC_009142.1\|WP_009951211.1\|5992942_5994304_-\|glutamine-synthetase	unknown	unknown	gnl\|CDD\|223252
NC_009142.1\|WP_009950789.1\|5972541_5975715_+\|winged-helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|226418
NC_009142.1\|WP_009951417.1\|5997150_5998680_-\|tripartite-tricarboxylate-transporter-permease	unknown	unknown	gnl\|CDD\|225870
NC_009142.1\|WP_011874695.1\|5994570_5996019_+\|ethanolamine-permease	unknown	unknown	gnl\|CDD\|129986
NC_009142.1\|WP_009951220.1\|5985608_5986217_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|239489
NC_009142.1\|WP_011874691.1\|5987146_5988085_-\|endonuclease/exonuclease/phosphatase-family-protein	unknown	unknown	gnl\|CDD\|273186
NC_009142.1\|WP_009950786.1\|5976788_5977004_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009951212.1\|5992233_5992962_-\|gamma-glutamyl-gamma-aminobutyrate-hydrolase-family-protein	unknown	unknown	gnl\|CDD\|224982

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_009950784.1\|5977823_5979650_-\|long-chain-fatty-acid--CoA-ligase	gnl\|CDD\|223953	COG1022, FAA1, Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism].	0
NC_009142.1\|WP_009950790.1\|5971573_5972311_-\|mechanosensitive-ion-channel-family-protein	gnl\|CDD\|223740	COG0668, MscS, Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane].	2.26623e-16
NC_009142.1\|WP_009951215.1\|5989998_5990766_-\|3-oxoacyl-ACP-reductase	gnl\|CDD\|180371	PRK06057, PRK06057, short chain dehydrogenase; Provisional.	0
NC_009142.1\|WP_143538224.1\|5980445_5981690_-\|glycoside-hydrolase	gnl\|CDD\|119374	cd06412, GH25_CH-type, CH-type (Chalaropsis-type) lysozymes represent one of four functionally-defined classes of peptidoglycan hydrolases (also referred to as endo-N-acetylmuramidases) that cleave bacterial cell wall peptidoglycans. CH-type lysozymes exhibit both lysozyme (acetylmuramidase) and diacetylmuramidase activity. The first member of this family to be described was a muramidase from the fungus Chalaropsis. However, a majority of the CH-type lysozymes are found in bacteriophages and Gram-positive bacteria such as Streptomyces and Clostridium. CH-type lysozymes have a single glycosyl hydrolase family 25 (GH25) domain with an unusual beta/alpha-barrel fold in which the last strand of the barrel is antiparallel to strands beta7 and beta1. Most CH-type lysozymes appear to lack the cell wall-binding domain found in other GH25 muramidases.	2.8471e-103
NC_009142.1\|WP_009951217.1\|5988313_5989057_-\|MerR-family-transcriptional-regulator	gnl\|CDD\|133405	cd04778, HTH_MerR-like_sg2, Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 2). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.	5.25075e-65
NC_009142.1\|WP_009951214.1\|5990866_5992237_-\|aldehyde-dehydrogenase	gnl\|CDD\|365919	pfam00171, Aldedh, Aldehyde dehydrogenase family. This family of dehydrogenases act on aldehyde substrates. Members use NADP as a cofactor. The family includes the following members: The prototypical members are the aldehyde dehydrogenases EC:1.2.1.3. Succinate-semialdehyde dehydrogenase EC:1.2.1.16. Lactaldehyde dehydrogenase EC:1.2.1.22. Benzaldehyde dehydrogenase EC:1.2.1.28. Methylmalonate-semialdehyde dehydrogenase EC:1.2.1.27. Glyceraldehyde-3-phosphate dehydrogenase EC:1.2.1.9. Delta-1-pyrroline-5-carboxylate dehydrogenase EC: 1.5.1.12. Acetaldehyde dehydrogenase EC:1.2.1.10. Glutamate-5-semialdehyde dehydrogenase EC:1.2.1.41. This family also includes omega crystallin, an eye lens protein from squid and octopus that has little aldehyde dehydrogenase activity.	0
NC_009142.1\|WP_009950785.1\|5977091_5977655_+\|GNAT-family-N-acetyltransferase	gnl\|CDD\|224584	COG1670, RimL, Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis].	2.42468e-27
NC_009142.1\|WP_011874690.1\|5982194_5984585_+\|RNA-binding-transcriptional-accessory-protein	gnl\|CDD\|225094	COG2183, Tex, Transcriptional accessory protein [Transcription].	0
NC_009142.1\|WP_029622200.1\|5989202_5989928_-\|GntR-family-transcriptional-regulator	gnl\|CDD\|225097	COG2186, FadR, Transcriptional regulators [Transcription].	1.00338e-31
NC_009142.1\|WP_009950787.1\|5975758_5976634_-\|NAD(P)-dependent-oxidoreductase	gnl\|CDD\|224995	COG2084, MmsB, 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism].	2.92232e-33
NC_009142.1\|WP_009951211.1\|5992942_5994304_-\|glutamine-synthetase	gnl\|CDD\|223252	COG0174, GlnA, Glutamine synthetase [Amino acid transport and metabolism].	3.07638e-137
NC_009142.1\|WP_009950789.1\|5972541_5975715_+\|winged-helix-turn-helix-domain-containing-protein	gnl\|CDD\|226418	COG3903, COG3903, Predicted ATPase [General function prediction only].	1.64796e-54
NC_009142.1\|WP_009951417.1\|5997150_5998680_-\|tripartite-tricarboxylate-transporter-permease	gnl\|CDD\|225870	COG3333, COG3333, Uncharacterized protein conserved in bacteria [Function unknown].	0
NC_009142.1\|WP_011874695.1\|5994570_5996019_+\|ethanolamine-permease	gnl\|CDD\|129986	TIGR00908, putative_ethanolamine_permease, ethanolamine permease. The three genes used as the seed for this model (from Burkholderia pseudomallei, Pseudomonas aeruginosa and Clostridium acetobutylicum are all adjacent to genes for the catabolism of ethanolamine. Most if not all of the hits to this model have a similar arrangement of genes. This group is a member of the Amino Acid-Polyamine-Organocation (APC) Superfamily. [Transport and binding proteins, Amino acids, peptides and amines].	9.63164e-149
NC_009142.1\|WP_009951220.1\|5985608_5986217_+\|hypothetical-protein	gnl\|CDD\|239489	cd03395, PAP2_like_4, PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase.	0.000269893
NC_009142.1\|WP_011874691.1\|5987146_5988085_-\|endonuclease/exonuclease/phosphatase-family-protein	gnl\|CDD\|273186	TIGR00633, DNA-apurinic_or_apyrimidinic_site_lyase, exodeoxyribonuclease III (xth). All proteins in this family for which functions are known are 5' AP endonucleases that funciton in base excision repair and the repair of abasic sites in DNA.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair].	8.24861e-12
NC_009142.1\|WP_009951212.1\|5992233_5992962_-\|gamma-glutamyl-gamma-aminobutyrate-hydrolase-family-protein	gnl\|CDD\|224982	COG2071, COG2071, Predicted glutamine amidotransferases [General function prediction only].	3.27779e-84

>NC_009142.1|WP_009951220.1|5985608_5986217_+|hypothetical-protein
MAATEEGPQAAGIRLARIVAEVFAPAVLVCAVTVAIALASSPDLPAGLLWALVSAGFCSGIPIWFLARGARAGRWDTHHVRDREDRILPLTVAVGSVLLGLVILVFGGAPGALVSLVTTMLVCLTAATVVTKWWKISMHAAIAAGTVAITALTFGLWWWLATSVVTLVGWSRVVTGDHTPAQAIGGAVLGTALGGGLYAVLL
>NC_009142.1|WP_011874690.1|5982194_5984585_+|RNA-binding-transcriptional-accessory-protein
MTTSVHNKIAEELGVRERQVQAAVDLLDGGATVPFIARYRKEATGALDDAQLRTLEDRLRYLRELEERRATVLESIRSQDKLDDALEASIMAADSKARLEDIYLPFKPKRRTKAQIAIEAGLQPLADLLLSDPSHDPRETAAGYVDADKGVADAQAALDGARAILVERFSEDADLIGDLRERMWTRGRLVSRVRDGKDEEGAKFSDYFEFSEAFTDLPSHRILAMFRGEKEEFLDIALEPDDGTEQPEGPTEYERRIAQRFDIADQGRPADRWLSDVVRWAWRTRILTHLGIDLRLRLRQSAEDEAVRIFAANLRDLLLAAPAGTRATMGLDPGYRTGVKVAVVDGTGKVVATDTIYPHQPQQRWDEAIAKLEKLARAHGVQLVAIGNGTASRETDKLAGELIKKHADLKLTKISVSEAGASVYSASPYASRELPDLDVSLRGAVSIARRLQDPLAELVKIDPKSIGVGQYQHDVSETKLSRSLDAVVEDCVNAVGVDVNTASAPLLTRVSGIGEGLADNIVLHRDSNGPFRSRKALKDVARLGPKAFEQCAGFLRIPDGDDPLDSSAVHPEAYPVVRRILERTDNGISGLIGNTRVLRGLKPESFVDDKFGLPTVTDILAELEKPGRDPRPTFKTATFADGVEKIGDLKPGMRLEGVVTNVAAFGAFVDVGVHQDGLVHVSAMSKNFVSDPHDVVKSGDVVRVKVLDVDIPRKRISLTLRLDDEAGGSGGRAERGQSAGGSGAGGAAGRRNGGGNGGGKRPQRGGQQRREAPQGALADALRRAGFDNGGGQRSGR
>NC_009142.1|WP_143538224.1|5980445_5981690_-|glycoside-hydrolase
MWGHVRPESPDQSRNPETPDTSNETQDRGLRSTALKADHAVRSAVDQVRPVVHRIGESPAAQRVRQWLAPLLLRIQQWIAPLARRLWERVAPQVEAAQDKVQGRLNSAFGNDLTAGKQSPVPARVRSMQLGAAAAALGIVAVVVGSAGGVSGGQDVEEAAQTAALPAGAPQNPGQAPVPADPHGGDGDVPPEAPPAPEPEAPWGPPAEGIDVSNHNGSIDWRKVAADGKQFTFVLATDGTSFTNPRYSEQYHGAKEAGLIAGAYHFARPDKSAEAQADRLLATADYQPDGRSLPPVLDLEVDPKGGGCYGLSVQEMHQWTDTFNRKIKDATGKDPIIYANPSFWNQCMGGTADYGDHPLWLASYGVSNPKVPAGFDNWDFWQYTDSGKVAGISKPTDLNQFQGGIERLKQLASN
>NC_009142.1|WP_009950783.1|5980017_5980281_-|hypothetical-protein
MILNQSPCAHGESGLLPVLTALESARVLRYRIDVLDTADADDLTGLRHEAAMLRHWLEVGHREAEYTALLEGLAAFADHVDHLLAEA
>NC_009142.1|WP_009950784.1|5977823_5979650_-|long-chain-fatty-acid--CoA-ligase
MEASTQTPTGVERRPASVGRMFLDRVADTPDLEAYRFPRGDRWESVTWAQAADRVAELAAGLLTLGIGPQERVAIASGTRYEWVLADLAIMCAGAATTTVYPSTVSSEVAYILSDSGSRIVFAEDDEQIAKLREHRDELGDVCKVVTFDGTPDGDWVISLAELEDLGGQLLSERPDVVRERVEATAPDALATVIYTSGTTGAPKGVRLLHSAWTYEGWAVAEQGIVSPDDLQYFWLPMAHAFGKVLMCAQLAVGFATAIDGRIDRLVDNLAVVRPTIMGAAPRIFEKAHARILTMAAGEGGVKKKIFDWAFDVGRRVSRLRQDKKPVPPRLAMAHKVADRLVFTKIRERFGGRVRFFISGSAPLDPQIAEWFDAAGVLILEGYGLTETSAGTSINRPDNYRFGTIGEPLPGTEMRIADDGEILIKGPGVMSGYHHRETETAETLDADGWLHTGDIGEQDPDGLIRITDRKKDLFKTSGGKYIAPTAIEGRFKAICPYVSQFLVHGPGRNYCTALVTLDEETIVPWARDNGLEGRSYAEIVSSAEVRDLVQDYVDQLNAGLNRWETIKSFTILTRDLSIEDGELTPSLKVKRRVVEERNKDALDGMYSS
>NC_009142.1|WP_009950785.1|5977091_5977655_+|GNAT-family-N-acetyltransferase
MLSCRLDEGAELRPLEPWQAAEFAAHADRDRAHFEPWLQWTQLVTDEESARAFLQRYADRQAADDGRIYGIWSHGRLVGGTLFRIFSPADGLCEIGVWLSPEAQGRGLITRAARLMIDWAVGERGMHRVEWRNAVENERSKAVAKRLGMTLDGVLREAFPYLGRRFDIEVWSLLASEWRSGDAPPRA
>NC_009142.1|WP_009950786.1|5976788_5977004_+|hypothetical-protein
MNQVWKPLAGEPGLEAVEELAQPGLEEREMREYVRACQELAITNGRGEQDQGPLNRAARSVTLKPYSVQPV
>NC_009142.1|WP_009950787.1|5975758_5976634_-|NAD(P)-dependent-oxidoreductase
MNEHKEAVTVIGLGPMGRSIVRVLLAAGHPVTVWNRTPGRADALVAEGAVRAQTPAEAVAASGLVLLSLTDYQAMYDILGDGESLSGKVVVNLSSDTPERGREAAKWAAERGARFLTGGIMVPENLVGDESAYTYYSGPREVLDAHEPVLRLIGRPDYVGTDPGLAQLYYLAQMDIFLGSLSLYLHATALLGSAGVPPKEFLPWAVQNFDGVSYFLAGAAEAVDEGVHPGEAASALMMGASADHLVGASEAAGIDLVLPKAIQSHYARAVAAGHGKDSWTSLINVIRDPSL
>NC_009142.1|WP_009950789.1|5972541_5975715_+|winged-helix-turn-helix-domain-containing-protein
MRFGVLGPLAAWAADGRPVRVPEAKVRALLASLLVDPGRVVSVDRLADRLWGERLPRNPANTIQTKISQLRRVLDAAEPGARDLVGHQPPGYVLHVDDESLDARRFESLTERARAAADPRERVALLTDALALWRGPVLADFADAPFAAPLARRLEEQRLVAEEDRAQARLDLGEHDVLAGELAELVAAHPLRERLRAVQMRALYRAGRQSEALDAYLDLRERLDRELGLEPGPEISALHGSILRQDAALEVRPARRTNLPAPLTELVGRDDAVAAVRSLVSGARLVTLTGPGGVGKTGLAVEVARSLEAADGVWLVEFAGLERQVGAGPDSLDEWGVAVVTAALDIRDEAAGASADRLTDVLRGKDVVLLLDNCEQVVEPVAALVARLLRAAPGLRVLATGQVPLGLTGEVVWTVPPLEVPGADVVAAAEVGRFSAVRLFLARAAAARPGVALDSGNAAAVAAICRRLDGIPLALELAATRVRALGVGDLLSRLDDRFGLLTTGPRDAPARQRTLRAVIDWSWEPLGEAERTVLRRLAVHADGCTLAAAEAVCSGDGVRPEDVLDVLARLVDRSLVVSQPGRTGQRYRLLESVAAYCLDRLREAGELEAVRLRHARHHLVAAERAEPLLRGPHQRARLDELDAEAANLRSALDTFVEHGEAGAALRLARALTWFWFLRGRFCEACRALRGALSVPGASRSRRGEVAVWAAGLAVLGGDPVDEEAFGQAAGIADPGARSRALWFAGYVRSTIGDMAAGRRFTDAALRDFEALGDKWGIAAALADRTSQALGAGDLAAADRAARRSAELFDELGDRWGQLQASFARGVLAETFGDHERARRLHSEGLHKARELELWPEVSYQLTWLGRNALLTGDHALAREHHERAAEIARDRGFRAGELYAVTGLALGARREGDLDLAEHHLDEVLRWYRDSAFEPSSTLVHAEFGFVAELRGDAERAAEHHHRGFELALQLGDSRAVALAMEGLAGAEALAGRHARAARLLGAAARARESVGTPLIPAESADVDRITAAARAELGDELFAAEFERGAQSSPEEFRRR
>NC_009142.1|WP_009950790.1|5971573_5972311_-|mechanosensitive-ion-channel-family-protein
MASPNEDPGTGRRGWWRAPRLKPRRPSADVKRGAVASALAVAMIVAAAVVDPAALFRHGSALYKTAAIAGAIVFVVLGAVAVQSLAREAGRRTRVRLSPSHAGALRLVVSLAGYALVAVVALGELGVRVDQLLLGGAVTGVIIGIAAQQSLGNVFAGLMLVTARPFTLGDHLVIHSGTLGGPLQGRVTEMGLVYLTLESDEGPVKLPNTAVLNSAIAPNNKIDPAQSGQNNGLGSEQTPAGWKTA
>NC_009142.1|WP_011874691.1|5987146_5988085_-|endonuclease/exonuclease/phosphatase-family-protein
MRAGSRLMAVPLAAALLCTAAGSAAAGPPGDDDATFGVVSLNAWHGGTQVDDGVAKTEAFVRSSGADVFGMQETEGTLADELAGRLGWHSYQTGDVALLSRYPIVERFQSRVGVGARLQLDDGRQAVVWTVHLNYTPYGPYDACFDHMTPQQILDREESSGRVDEIRETLEKMAPQIEQARAGGAPVFLTGDFNAPSHLDWTGAAQDSHCGYTVQWPTSVAVAEAGLADSFREANADPVATPGNTWSPVYPKHDGSTGADEPQDRIDFVHHAGSARTVSSTAEVRGEPAPVPDHAGNEWPTDHAAVVSFFSW
>NC_009142.1|WP_009951217.1|5988313_5989057_-|MerR-family-transcriptional-regulator
MAEYRIDDLAQAAGTTVRNVRVYQDRELLPPPRREGRAAIYSDAHLVRLRMIINMLERGYAFAQIREMLSAWESGRSLADVLGLEEVMGESWAEEAPRAVTTTDLRTMFGKQFTPSNMRRAQDLGLLERRGAKFVAPSPQLLDAGRELVSLGVPLNEVLDLAEQLQSDVDHVAGLLVEVVRKHVLGPAEWTPSRDEVPHYADVLQRLRTLVMSALSAAAARSAQRVIPEVLGDKLIELLEKKPGEAS
>NC_009142.1|WP_029622200.1|5989202_5989928_-|GntR-family-transcriptional-regulator
MVLRNRASDALFRAVRTGNAFEETVERLLQAIRLGVVAPGERLPAERELATRLGVSRVTLREAIRALQESGYVESRRGRYGGTFVNVEPPRASRKGPRRIAREMGVDLHDALTHRHVLETGAAELAASRELGEAERAHLVSRLSSAGTAELHTYRRQDSRLHLAIAELTGSASLTSAVADVRMRLNELLDAIPLLERNIVHSNEQHEEVVRAILDGDPAAARKAMAEHLEGTASLLRGFLS
>NC_009142.1|WP_009951215.1|5989998_5990766_-|3-oxoacyl-ACP-reductase
MSQRLQDRVAVVTGGAGGIGLATARRFASEGAKVVVADVDADAGKRAADAVGGLFVQVDVTSEADVEELFARAKREHGSVDIAFNNAGISPPEDDSILDTGLQAWRRVQEVNLTSVYLCCKYAIPHMREQGRGSIINTASFVAKMGAATSQISYTASKGGVLSMSRELGVQFAREGIRVNALCPGPVDTPLLRELFAKDPERAQRRLVHVPMGRFAEADEIAAAVAFLASDDASFITASEFLVDGGISGAYVTPL
>NC_009142.1|WP_009951214.1|5990866_5992237_-|aldehyde-dehydrogenase
MSTAHPVINPATEDVFRTVAMCTEDDTDQAIARAVRAQRSWNALAPADRARLLRRFAEAVDADREHLAWLEVQNSGHTIGNARGEAGNVRDVLHYYSAAPERLFGRQIPVAGGVNATFQEPLGVVGVIVPWNFPMPIAAWGFAPALAAGNAVVLKPAELTPLTAIRIGELALEAGLPEGLLQVLPGQGAVVGQRFVTHPDVGKVVFTGSTQVGKSIMAGCSEQVKRVTLELGGKSANIVFADADLERAAATAPYGVFDNAGQDCCARSRILVQRAVYERFMDLLEPAVRGVVVGDPSDEKTEMGPLISAQHRARVAAHVPDGAPVAFRGEHPSGPGFWYPPTVLAPVDLDDPVFAEEVFGPVVAVVPFDDEADAVRIANRTDYGLSGSIWTRDVGRALRVSRAVQAGNLSVNSHASVRYSTPFGGFKQSGLGRELGPDAVDAFTETKNVFIATEPD
>NC_009142.1|WP_009951212.1|5992233_5992962_-|gamma-glutamyl-gamma-aminobutyrate-hydrolase-family-protein
MVSSGSDRPRIGISTYVETASWGVWQRDAALLPTSYVHAVHRAGGIPVLLPVLPDGESAALSAVDGLVLAGGADVDPARYRRAPHETVRVTRPERDDWETRLLRAALDRDLPVLGVCRGAQVLNVALGGSLHQHLPERVAHERHQPAPAVFGRTRVRLRPGSRIARALGEEAEVPCYHHQALDRVADRLEVTGHAEDGTVEAVELPGHRFVVGVQWHPEEDTDDIRLFEALSASAGDSGGMR
>NC_009142.1|WP_009951211.1|5992942_5994304_-|glutamine-synthetase
MGPSDQPLAVEELRGLVESGAVDTVVVAMTDMQGRLQGKRCSGRYFLEQVLDHGTEACNYLLAVDVDMTTVDGYAMTSWETGYGDFVLRPDLATLRLVPWQEATALVLCDVLWHSGEPVAPSPRQVLRGQLDRLAELGLTAHVGTELEFLVFRDSYEQAWDKRYEGLTPANQYNVDYSVAGTGRIERLLRRIRNDMGGAGLYVESAKGECNLGQHEIAIRYSDALTSCDNHALYKNGAKEIAAQEGLSLSFMAKFDAREGNSSHIHVSLRDAGGPVLPGDGPHGFSPLMEHFIAGQLACLPELTYFFAPNINSYKRFAKGSFAPTAVAWGRDNRTCALRVVGHGDGLRVENRVPGGDINPYLAVAATLAAGLHGIAERLPLEPMLEGNAYAAQKESVPTTLRDAARLLADSKVAAEAFGPEVVEHYVNAARVELDAFDTAVTDWERIRGFERL
>NC_009142.1|WP_011874695.1|5994570_5996019_+|ethanolamine-permease
MTAQRRHRQQVDYEHVGHDYLENRSLKGGAAGWVLLAGLGVAYVISGDFAGWNFGLAEGGWGGLLIATALMATMYTCMVFGLAEMASALPVAGAGYGFARRALGPLGGFATGTAILIEYSIAPAAIAVFIGGYVESLGLFGLTNSWPVYLVCFAVFVGIHLWGVGEALRLMFVITAVAAVALVAFVLGMIPEFSTDKLFDIAPTGAAGASEFLPFGYAGVLAALVYGIWFFLAVEGVPLAAEEARDPRRDMPRGIIAAVLVLLCSGLAILLVAPGGAGSSVIAGADNPLPAAVRAAKGEGSLLAEVVNYVGLAGLVASFFSIIFAYSRQLFALSRAGYLPRWLSVTGRRRTPYAALIVPGAIGFALAAITQDGAQLINIAVFGATVSYVLLNLSHIVLRRREPGLERPYRTPGGTATTGTALVLAVAAVVATFFVDEVAAAITAAIFVAALAYFWFYSRHHLIANAPEEEFAAVEAAEAELS
>NC_009142.1|WP_009951419.1|5996444_5996849_-|hypothetical-protein
MDVVLSRDRTQTFIVIGFYETWRQTYRFVPRCRRCRNGHGLERGLRRVLIGSAAFTGLMLLPLAAGNLSGEPWKDQWLAVFPVLLTLGLLMLWWGVLDSWFGWHRLAPRPERYALEHPAVQEMFEEGWGGGTSP
>NC_009142.1|WP_009951417.1|5997150_5998680_-|tripartite-tricarboxylate-transporter-permease
MESLNLLLEGFSTALTPMNLVWAAIGVLLGTAIGVLPGIGPAMAVALLLPVTYALEPTGAFIMFAGIYFGGMFGGSTTSILLNTPGESAAVVAAMEGNPMARKGRGAQALAAAAIGHFIGAIVGITLLTLLAPTVASLAVNIGAPDYLAIMVLAFIAVTSVLGSSRIRGIASLLIGLTIGLIGLDEMTGQQRLTFGLLHLADGVDVVIVAVGLFAIGESLWVAAHLRRTSGQAIPVGRPWLGAEDVKRSWKPWLRGPLIGFPFGAIPAGGAEIPTFLSYVTEKRLSKRRDEFGKGAIEGVAGPEATASASAAGTMVSMLTLGLPTTAVAAVMLAAFQQYGIQPGPLLFERESELVWALIASMFIGSVLLLVLNLPLAPLWAKLLQIPRPYLYAGILFFASVGAYAVGGESLDLLLLFVIGLIGFAMRRYGLPVLPAIIAVILGPSAEQQMRRALQISDGDLTGLVNTPFSVTVYGVVVLILLWPLIVRFTPWGRARRAAAAEEKESVEV

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Crispr_ID: NC_009142_15

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_15

6477248-6477328

Orphan

Consensus_repeat	Method
CCGGCAACAGCCGGGCAACCGGC	CRISPRCasFinder

1 spacers

csa3

The CRISPR arrays of NC_009142_15

>merge|NC_009142|15|6477248-6477328|CRISPRCasFinder
CCGGCAACAGCCGGGCAACCGGCAACAGCCGGGCAACCGGCCGACGGACGGGCGACAACCGGCAACAGCCGGGCAGCCGGC

>NC_009142|15|14|6477248-6477328|CRISPRCasFinder
CCGGCAACAGCCGGGCAACCGGC	AACAGCCGGGCAACCGGCCGACGGACGGGCGACAA
CCGGCAACAGCCGGGCAGCCGGC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_009943240.1\|6481936_6482218_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|226318
NC_009142.1\|WP_009943241.1\|6478291_6479905_-\|sensor-histidine-kinase	unknown	unknown	gnl\|CDD\|225827
NC_009142.1\|WP_011874829.1\|6476024_6477236_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009943249.1\|6472723_6472906_-\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009943235.1\|6483995_6484469_+\|SRPBCC-family-protein	unknown	unknown	gnl\|CDD\|176868
NC_009142.1\|WP_009948069.1\|6468331_6468715_+\|PPOX-class-F420-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|274712
NC_009142.1\|WP_009943238.1\|6482227_6483445_+\|sigma-70-family-RNA-polymerase-sigma-factor	unknown	unknown	gnl\|CDD\|227277
NC_009142.1\|WP_009943231.1\|6487177_6487798_-\|imidazoleglycerol-phosphate-dehydratase-HisB	unknown	unknown	gnl\|CDD\|234873
NC_009142.1\|WP_029621412.1\|6483667_6484012_+\|winged-helix-turn-helix-transcriptional-regulator	csa3	COG0640_csa3_CAS-I-A	gnl\|CDD\|238042
NC_009142.1\|WP_009943244.1\|6475453_6475915_+\|redox-sensitive-transcriptional-activator-SoxR	unknown	unknown	gnl\|CDD\|133385
NC_009142.1\|WP_009943229.1\|6487794_6488913_-\|histidinol-phosphate-transaminase	unknown	unknown	gnl\|CDD\|235115
NC_009142.1\|WP_009943234.1\|6484526_6484685_-\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009943242.1\|6477611_6478295_-\|response-regulator	unknown	unknown	gnl\|CDD\|226931
NC_009142.1\|WP_011874830.1\|6480280_6481669_+\|C4-dicarboxylate-transporter-DctA	unknown	unknown	gnl\|CDD\|234968
NC_009142.1\|WP_009948068.1\|6469130_6470612_-\|alpha/beta-hydrolase	unknown	unknown	gnl\|CDD\|312032
NC_009142.1\|WP_009948070.1\|6467501_6468275_-\|imidazole-glycerol-phosphate-synthase-subunit-HisF	unknown	unknown	gnl\|CDD\|234996
NC_009142.1\|WP_009948067.1\|6471041_6471773_-\|bifunctional-1-(5-phosphoribosyl)-5-((5--phosphoribosylamino)methylideneamino)imidazole-4--carboxamide-isomerase/phosphoribosylanthranilate-isomerase-PriA	unknown	unknown	gnl\|CDD\|237589
NC_009142.1\|WP_009943245.1\|6474671_6475370_-\|transketolase	unknown	unknown	gnl\|CDD\|238970
NC_009142.1\|WP_011874828.1\|6473742_6474663_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|132916
NC_009142.1\|WP_009943248.1\|6472923_6473556_-\|imidazole-glycerol-phosphate-synthase-subunit-HisH	unknown	unknown	gnl\|CDD\|237290

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_009943240.1\|6481936_6482218_+\|hypothetical-protein	gnl\|CDD\|226318	COG3795, COG3795, Uncharacterized protein conserved in bacteria [Function unknown].	5.10159e-20
NC_009142.1\|WP_009943241.1\|6478291_6479905_-\|sensor-histidine-kinase	gnl\|CDD\|225827	COG3290, CitA, Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms].	1.29395e-128
NC_009142.1\|WP_011874830.1\|6480280_6481669_+\|C4-dicarboxylate-transporter-DctA	gnl\|CDD\|234968	PRK01663, PRK01663, C4-dicarboxylate transporter DctA; Reviewed.	4.80373e-159
NC_009142.1\|WP_009943235.1\|6483995_6484469_+\|SRPBCC-family-protein	gnl\|CDD\|176868	cd07826, SRPBCC_CalC_Aha1-like_9, Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins. SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain of a functionally uncharacterized subgroup of CalC- and Aha1-like proteins. This group shows similarity to the SRPBCC domains of Micromonospora echinospora CalC (a protein which confers resistance to enediynes) and human Aha1 (one of several co-chaperones which regulate the dimeric chaperone Hsp90), and belongs to the SRPBCC domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket and they bind diverse ligands.	8.99235e-70
NC_009142.1\|WP_009948069.1\|6468331_6468715_+\|PPOX-class-F420-dependent-oxidoreductase	gnl\|CDD\|274712	TIGR03666, Rv2061_F420, PPOX class probable F420-dependent enzyme, Rv2061 family. A Genome Properties metabolic reconstruction for F420 biosynthesis shows that slightly over 10 percent of all prokaryotes with fully sequenced genomes, including about two thirds of the Actinomycetales, make F420. A variant of the Partial Phylogenetic Profiling algorithm, SIMBAL, shows that this protein likely binds F420 in a cleft similar to that in which the homologous enzyme pyridoxamine phosphate oxidase (PPOX) binds FMN. [Unknown function, Enzymes of unknown specificity].	1.08502e-40
NC_009142.1\|WP_009943238.1\|6482227_6483445_+\|sigma-70-family-RNA-polymerase-sigma-factor	gnl\|CDD\|227277	COG4941, COG4941, Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription].	1.44233e-146
NC_009142.1\|WP_009943231.1\|6487177_6487798_-\|imidazoleglycerol-phosphate-dehydratase-HisB	gnl\|CDD\|234873	PRK00951, hisB, imidazoleglycerol-phosphate dehydratase HisB.	5.71256e-111
NC_009142.1\|WP_029621412.1\|6483667_6484012_+\|winged-helix-turn-helix-transcriptional-regulator	gnl\|CDD\|238042	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.	1.27254e-18
NC_009142.1\|WP_009943244.1\|6475453_6475915_+\|redox-sensitive-transcriptional-activator-SoxR	gnl\|CDD\|133385	cd01110, HTH_SoxR, Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator. Helix-turn-helix (HTH) transcriptional regulator SoxR. The global regulator, SoxR, up-regulates gene expression of another transcription activator, SoxS, which directly stimulates the oxidative stress regulon genes in E. coli. The soxRS response renders the bacterial cell resistant to superoxide-generating agents, macrophage-generated nitric oxide, organic solvents, and antibiotics. The SoxR proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the unusually long spacer between the -35 and -10 promoter elements. They also harbor a regulatory C-terminal domain containing an iron-sulfur center.	5.67233e-72
NC_009142.1\|WP_009943229.1\|6487794_6488913_-\|histidinol-phosphate-transaminase	gnl\|CDD\|235115	PRK03317, PRK03317, histidinol-phosphate aminotransferase; Provisional.	0
NC_009142.1\|WP_009943242.1\|6477611_6478295_-\|response-regulator	gnl\|CDD\|226931	COG4565, CitB, Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms].	1.249e-67
NC_009142.1\|WP_009948068.1\|6469130_6470612_-\|alpha/beta-hydrolase	gnl\|CDD\|312032	pfam08386, Abhydrolase_4, TAP-like protein. This is a family of putative bacterial peptidases and hydrolases that bear similarity to a tripeptidyl aminopeptidase isolated from Streptomyces lividans. A member of this family is thought to be involved in the C-terminal processing of propionicin F, a bacteriocidin characterized from Propionibacterium freudenreichii.	1.53599e-15
NC_009142.1\|WP_009948070.1\|6467501_6468275_-\|imidazole-glycerol-phosphate-synthase-subunit-HisF	gnl\|CDD\|234996	PRK02083, PRK02083, imidazole glycerol phosphate synthase subunit HisF; Provisional.	1.53349e-163
NC_009142.1\|WP_009948067.1\|6471041_6471773_-\|bifunctional-1-(5-phosphoribosyl)-5-((5--phosphoribosylamino)methylideneamino)imidazole-4--carboxamide-isomerase/phosphoribosylanthranilate-isomerase-PriA	gnl\|CDD\|237589	PRK14024, PRK14024, phosphoribosyl isomerase A; Provisional.	8.81386e-155
NC_009142.1\|WP_009943245.1\|6474671_6475370_-\|transketolase	gnl\|CDD\|238970	cd02012, TPP_TK, Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the pentose phosphate pathway and provides precursors for nucleotide, aromatic amino acid and vitamin biosynthesis. In addition, the enzyme plays a central role in the Calvin cycle in plants. Typically, TKs are homodimers. They require TPP and divalent cations, such as magnesium ions, for activity.	1.83135e-60
NC_009142.1\|WP_011874828.1\|6473742_6474663_-\|hypothetical-protein	gnl\|CDD\|132916	cd07033, TPP_PYR_DXS_TK_like, Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins. Thiamine pyrophosphate (TPP) family, pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and the beta subunits of the E1 component of the human pyruvate dehydrogenase complex (E1- PDHc), subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. A polar interaction between the conserved glutamate of the PYR domain and the N1' of the TPP aminopyrimidine ring is shared by most TPP-dependent enzymes, and participates in the activation of TPP. The PYR and PP domains have a common fold, but do not share strong sequence conservation. The PP domain is not included in this sub-family. Like many TPP-dependent enzymes DXS and TK are homodimers having a PYR and a PP domain on the same subunit. TK has two active sites per dimer which lie between PYR and PP domains of different subunits. For DXS each active site is located at the interface of a PYR and a PP domain from the same subunit. E1-PDHc is an alpha2beta2 dimer-of-heterodimers having two active sites but having the PYR and PP domains arranged on separate subunits, the PYR domains on the beta subunits, the PP domains on the alpha subunits. DXS is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis, it catalyzes a transketolase-type condensation of pyruvate with D-glyceraldehyde-3-phosphate to form 1-deoxy-D-xylulose-5-phosphate (DXP) and carbon dioxide. TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the pentose phosphate pathway and provides precursors for nucleotide, aromatic amino acid and vitamin biosynthesis. TK also plays a central role in the Calvin cycle in plants. PDHc catalyzes the irreversible oxidative decarboxylation of pyruvate to produce acetyl-CoA in the bridging step between glycolysis and the citric acid cycle. This subfamily includes the beta subunits of the E1 component of the acetoin dehydrogenase complex (ADC) and the branched chain alpha-keto acid dehydrogenase/2-oxoisovalerate dehydrogenase complex (BCADC). ADC participates in the breakdown of acetoin. BCADC catalyzes the oxidative decarboxylation of 4-methyl-2-oxopentanoate, 3-methyl-2-oxopentanoate and 3-methyl-2-oxobutanoate during the breakdown of branched chain amino acids.	3.60698e-46
NC_009142.1\|WP_009943248.1\|6472923_6473556_-\|imidazole-glycerol-phosphate-synthase-subunit-HisH	gnl\|CDD\|237290	PRK13146, hisH, imidazole glycerol phosphate synthase subunit HisH; Provisional.	7.51519e-114

>NC_009142.1|WP_011874829.1|6476024_6477236_+|hypothetical-protein
MLATLAVPVLIAVPAAGTTSAAAPTLTALDATFTVSERGSFDTYGARVAALDGLLEKAPVDTVFGEANRDAVDAGAGSCPAGIPAPDASWFCWYGAQNDPPNDDAGTENWMPQGITGSWDAAAGGGTSARGLLVSWYDAQNLGKGVRISFVDNSDPANVRYRHALLVEPTAGDDFRGVTVPDGKSLHAGGIAWVGHHLYVVDTDRGVRVFDLDHIWRTAADPSKSKIGNDGNGNFHAFDYRFVIPQVGEYTQDGTCVRPAPNPKTDPLCWSYVGVDHSSNSLVTGEYISGKPGGRVVHWPIDETTGRLVTGGGGAVSSVAAYQTSRTNVQGATSHDGTFWLSSSTGRGNDGQLHRTRVGQSGTTSATPTGPEDLSFDPASGDLWSVSEWPELRVVFRTPNAAG
>NC_009142.1|WP_009943244.1|6475453_6475915_+|redox-sensitive-transcriptional-activator-SoxR
MSKPPKLLTIGEVSYRSGVAQTALRFYEQRDLITATRTSGNQRRYDRTVLRRLAFIRAAQRVGLSLEQIADALSTLPADRAPGKADWSRLSRSWRDELDARIEGLQKLRDNLTGCIACGCLSLRTCALNNPDDIAMDRLGPGRTLLQPAADTR
>NC_009142.1|WP_009943245.1|6474671_6475370_-|transketolase
MTITTAPGYGYADLGALMSEMTGDEKHEPAATSTLDVLWVLYDQVLAVDPRRTDDPDRDRFLLSKGHGPMAYYAVLAAKGFFDRSELRRFAEFGSVLGHHPDRMLVPGVEIGSGSLGHGLPLALGVVLGLRARGRRDPRVVVLVGDAELDEGSNHEAIAVAGRRGLGQLTAVVVDNASASYGWPGGIGERFAREGWAQRTVDGRDHEALREALTDTRPGRPLVVVAEVEPKG
>NC_009142.1|WP_011874828.1|6473742_6474663_-|hypothetical-protein
MTAIAEKTTMREAFVDTVAAALDTDPRLAVVLAEISADRFTDAARRHPDRVVNVGIREQAMIGVAGGMALTGLRPVVHSITPFLVERPFEQLKLDLNHQGVGAVVVSTGASYDYPGAGRTHMAPGDVALLDTLPGWTVHVPGHPEEAAELIRSALPGDDPVYVRLSERVNAEPVARGPGWRRVREGREGVVLAVGPMLRPVLSATAGLDVTVLYTATVRPFDVTGLRHAVQGARPDVVLVEPYLAGTSAHAVGDALTDIPHRVLALGVRRDAELRAYGTAEEHEVAHGLGPSAIRAAVGSFLAGVR
>NC_009142.1|WP_009943248.1|6472923_6473556_-|imidazole-glycerol-phosphate-synthase-subunit-HisH
MARVVVLDYGSGNLRSAERALQRVGADVEVTSDHRAAMEADGLVVPGVGAFAACMRGLLAAGGDKIIDHRLAGDRPVLGICVGMQVLFDRGVEHGVPTDGCGQWPGVVERIEADVLPHMGWNTVTAPENTTLFAGLDADTRFYFVHSFGVRKWEMPESGSALPAPLVTWAEHGEPFVAAVENGALSATQFHPEKSGEAGAVLLRNWLGSL
>NC_009142.1|WP_009943249.1|6472723_6472906_-|hypothetical-protein
MRRDGVVKAIALLLAVGMVLGFASTYLAQAGVPGWLIILLVLVVLAVPVVAAVRSGRRER
>NC_009142.1|WP_009948067.1|6471041_6471773_-|bifunctional-1-(5-phosphoribosyl)-5-((5--phosphoribosylamino)methylideneamino)imidazole-4--carboxamide-isomerase/phosphoribosylanthranilate-isomerase-PriA
MSFTLLPAVDVADGQAVRLVQGAAGTETSYGDPLEAALAWQRAGAEWVHLVDLDAAFGRGSNRELLADVVAKLDVRVELSGGIRDDASLEAALATGCERVNLGTAALENPEWADRVVAEYGDRVAVGLDVRITEQGHRLAARGWTTDGGDLWEVLARLDAAGCRRYVVTDVSKDGTLQGPNVALLREVCSRTDAPVIASGGVSSVDDLVELSRLAGDGLEGSIVGKALYAGNFTLEEALAAVR
>NC_009142.1|WP_009948068.1|6469130_6470612_-|alpha/beta-hydrolase
MRKRRTPALGALLALAAVTASAAPALAAPAAGAPAPQTAVDWQPCEQNPQVQCATMRVPVDWSQPDGASITIPLARQPAADPAARIGTLVHMPGGPGGSGVAEIVGGSRFSPEVAARFDIVSFDPRGVGLPDQVKCDAGLVEQPPPLVSDDPRHFEVVRDYNKRLGESCRELTGPLLDHVDTVSVARDIDALRAALGEERISLYGISYGTQTGQAYAENFPTRVRALLLDSVFDHNLSPREFLTTQAATAEDSFAEFVRWCESEERCALHGQDVGAFFDGLYARAERGELTDPQDPSKPLTPERLTQLTVSALYEPMWEQLAERLRSFSEQTGPVAVAEPRTLPSALPMVCSDQQFRVGSAEEYAELWKAQRENAPHVRFGVGAAALHCVDFPVRSGNPPHDPDLGSAPPVLIMNALHDPATGYNWAKNVNAQIEQSTLLTYDGWGHGVYSRSECTTRAADRYLIDLRMPPEGAHCPAVPPKPLPQAATVGPW
>NC_009142.1|WP_009948069.1|6468331_6468715_+|PPOX-class-F420-dependent-oxidoreductase
MDKVTRILADSRYLLLTTFRRNGKPVPTPVWVVGDGGSLAVWSDAESGKVKRIRREPGVELAPCDALGNPRGEPVRGRATVLDPFELERVQRLLTRKYGLAGRAYLAANRLRRDRPEMVAVSITVGG
>NC_009142.1|WP_009948070.1|6467501_6468275_-|imidazole-glycerol-phosphate-synthase-subunit-HisF
MAVAVRVIPCLDVDQGRVVKGVNFTNLVDAGDPVELAEAYDAEGADELTFLDVTASSSDRETTFDVVRRTAEQVFIPLTVGGGVRSPEDIDRLLRAGADKVSLNTAAIARPELLRESSERFGAQCVVLSVDARRVPEGGEPTASGFEVTTHGGRRGTGICAVEWAARGQELGVGEILLNSMDADGTKAGFDLEIIRAVRAAVDVPLIASGGAGAVEHFAPAVRAGADAVLAASVFHFGQLRIGEVKDAMRAEGITVR
>NC_009142.1|WP_009943242.1|6477611_6478295_-|response-regulator
MIRVLVVEDDPLVGEAHAAYVDRVEGFEVAGRVRTGQDALRFLEKTGVDLVLLDLGLPDIDGLQVARALRTAGNGPDVIAVTSARDLKVVRASIASGVVQYLLKPFTFAAMREKLEDYARFRASLSDDREASGQAEIDRAFSALRGTDRTPLPKGMGEETLAAVLSALREAPEGASAGAVGESAGVSRVTARRYLEYLVGNGMADRQPQYGGVGRPEMTYRWRSSSR
>NC_009142.1|WP_009943241.1|6478291_6479905_-|sensor-histidine-kinase
MHVELTRNRPGRGWSLSRRLFVLQIVVVALVVLGGAALSWYDARRQAEDAATGEVVSVARAVASLPAVRAAMGRPDASAELQPLAEEVRTATGVAFVTIMTPEGIRYTHPDPTRIGRPFIGHIDQARTGLVFTETYTGSLGPSVRAVVPVFGDGGQVRGLVSVGIHMRVLTAEVQGHVTALVLVAAAALAIGGALTYLVNRRLARHTHGLTPAELSRMYEYHDAILHAVREGLLLVSPSGRVTLCNDGAAVLLSSQPSEVEGALVSELGLPEQLADDLASGHAVRDEVHLTDDRVLLVNSSAVRSGGRDLGSVVTLRDHTELQALSGELDTLHGFSESLRSQAHESANRLHAVVSLIELGRAEEAAGLATAELELAQQLTDRVVGAVSEPVLAAVLLGKSAEASERGVEVVLSEDTEIDESVRGRVDSRDLVTILGNLIDNAVEATQDAADPKVVVTARRTGAELLIRVADNGPGIDPEAAQRVFQRGWSTKDGSRGLGLALVGQSVRRYGGTVEVGDDGGAVFTVRIPAEPEAGAR
>NC_009142.1|WP_011874830.1|6480280_6481669_+|C4-dicarboxylate-transporter-DctA
MASKDAAPPGTRRRDRTHYLYIAVIVAVLAGIAVGFAAPKLGVALKPLGTGFVDLIKMMISPVIFCTIVLGVGGVRKAAKVGKVGGLALGYFMVMSVVALIIGLVVGNFLHPGEGLQITESLRGQGQDQAGEGAKSTTEFLLGIIPETLVSALTEGEVLQTLLVALLAGFALQALGDKGTPILRGIEHIQRLVFKILAMVMWAAPVGAFGAIAAVVGATGVDALKGLAVIMFGFYLTCLLFVFVILGPLLWFAARVSLLKLLRYLGREFLLIVSTSSSEAALPRLIAKMEHLGVSKPVVGITVPTGYSFNLDGTAIYLTMASLFIASAMGDPLTIGEQISLLLFMIVASKGAAGVSGAGLATLAGGLQSHRPELLDGVGLIVGIDRFMSEARALTNFAGNAVATVLIGSWTKEIDRTQVQRVFSGAAPFDEQAFADDPDGKGSGDAEKPPAGEETAKVGADK
>NC_009142.1|WP_009943240.1|6481936_6482218_+|hypothetical-protein
MRDAGAVNDEMRAAGAWMFAGGLHAPSTATVLKAQGSGMLTADGPFAEGEELLGGLAVIRAADLDEALRWGRELARATTLPIEVRPFHDQPES
>NC_009142.1|WP_009943238.1|6482227_6483445_+|sigma-70-family-RNA-polymerase-sigma-factor
MPEVSPPEVERVFREEYGRAVAVLVGVCGDIDLAEEAVQEAFTEAVRRWPSSGLPPSPAGWIVTTARNRAIDRLRRESTRKDRQAQATLLHARDEVPEEGPVRDDRLRMIFTCCHPALSTPARVALTLRLLGGLTTAEIARAFLVPEPTMAQRLVRAKGKIRDARIPYRVPDGAELPDRLRSVLAVVYLVFNEGHTASSGERLVRDDLCAEAIRLGRLLAELMPDEPEVLGLLALMLLVESRRAARTTAGGALVRLSEQDRARWDRELVAEGQAIVRRCLRIGRPGPYQIQAAINAVHSDAPSADDTDWRQIVLLYDQLMAVAPSPVVALNRAVAEVDGADVALGLVDALDLDGYHLFHAVRADLLRRLGRPGEAAEAYEAAIARTANDAEREHLRRGLRSLAPS
>NC_009142.1|WP_029621412.1|6483667_6484012_+|winged-helix-turn-helix-transcriptional-regulator
MPGDPLSDVFAALADPTRRAILARLAEGEATVNELAAPFPMSLQAISKHLKVLERAGLISRGRDAQWRPCRFEPAPLREVADWAEQYRRFWEERYAQLDSYLREMKENRDEPDR
>NC_009142.1|WP_009943235.1|6483995_6484469_+|SRPBCC-family-protein
MSPTDDLVVTTPSDLEVRMSRVFDAPRDLVFAAHGKCEHIKRWWGRGNPLDCEMDFRPGGRYRFVEHAPDGEDYAFRGEYLEIVEPEKLSYTFEFEGMPGHVCVDTLVFEEHDGKTTLTSTTRFDSVEDRDGMINSGMEEGANESMRALDALLATWK
>NC_009142.1|WP_009943234.1|6484526_6484685_-|hypothetical-protein
MQDYLPIILLGLGGFLVGGAYSTWKNNRFVAAVLGVLAIMAIAGGVGWLAWG
>NC_009142.1|WP_009943231.1|6487177_6487798_-|imidazoleglycerol-phosphate-dehydratase-HisB
MTAMQPGTRVGRVERTTRESSVLVELDLDGTGQVDIDTTVPFYDHMLTALGTHAAFDLKVKSSGDVHIDAHHTVEDTAIVFGQALRQALGGKLGIRRFGDAWIPMDETLAHAAVDVSGRSYCVMTGEPEQYNSFTIGGNYPFVLNRHVFESIAFHSQINLHVRVIHGRDPHHIAEAQYKAIARALRAAVEPDPRFSGVVPSTKGAL
>NC_009142.1|WP_009943229.1|6487794_6488913_-|histidinol-phosphate-transaminase
MSDVLGGDATLADLPLRDDLRGRSPYGAPQLDVPVRLNTNENPYPPPPELVADVTEAVREAAASLHRYPDRDAVALREDLAAYLAEATGVPVTAANVWAANGSNEVLQQILQAFGGPDRVALGFEPSYSMHPILAAGTRTEWLPAPRRADFSLDSAEAARIVAERRPDVVFVTSPNNPTGQSISPEDLRPVLDAAPGVVVVDEAYAEFSAQPSAIALVEQYPAKLIVSRTMSKAFAFAGGRLGYLAASPAVIDALLLVRLPYHLSAVTQAAARASLRHADATLSSVHKLARERDRVVESLREMGFQPVPSDANFVLFGRFADAHRAWQRYLDADVLIRDVGIPGHLRVTIGTPEENDSFLAACKIVSEELDQ

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Crispr_ID: NC_009142_16

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_16

6962936-6963021

Orphan

Consensus_repeat	Method
CCCGCAAGGCCAGGGTGAGTACGTCGAAAA	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_009142_16

>merge|NC_009142|16|6962936-6963021|CRISPRCasFinder
CCCGCAAGGCCAGGGTGAGTACGTCGAAAATCCGTGCGCCCCCGCACCCAAAGCGACCCGCAAGGCCAGGGTGAGTACGTCGAAAA

>NC_009142|16|15|6962936-6963021|CRISPRCasFinder
CCCGCAAGGCCAGGGTGAGTACGTCGAAAA	TCCGTGCGCCCCCGCACCCAAAGCGA
CCCGCAAGGCCAGGGTGAGTACGTCGAAAA

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_009944332.1\|6973505_6973709_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009944347.1\|6957404_6958388_-\|class-I-SAM-dependent-methyltransferase	unknown	unknown	gnl\|CDD\|369777
NC_009142.1\|WP_009944338.1\|6965875_6966529_+\|CPBP-family-intramembrane-metalloprotease	unknown	unknown	gnl\|CDD\|376806
NC_009142.1\|WP_037303802.1\|6960599_6961145_+\|cysteine-dioxygenase	unknown	unknown	gnl\|CDD\|380416
NC_009142.1\|WP_009944346.1\|6958431_6959214_-\|enoyl-CoA-hydratase/isomerase-family-protein	unknown	unknown	gnl\|CDD\|235632
NC_009142.1\|WP_009944330.1\|6974204_6974705_+\|MarR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|197670
NC_009142.1\|WP_031334419.1\|6961757_6962594_+\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|379262
NC_009142.1\|WP_009944331.1\|6973777_6974074_-\|MTH1187-family-thiamine-binding-protein	unknown	unknown	gnl\|CDD\|376658
NC_009142.1\|WP_021341671.1\|6966557_6969113_-\|alpha-glucan-family-phosphorylase	unknown	unknown	gnl\|CDD\|340852
NC_009142.1\|WP_044548054.1\|6959326_6960091_-\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|224044
NC_009142.1\|WP_009944341.1\|6962616_6962823_+\|DUF397-domain-containing-protein	unknown	unknown	gnl\|CDD\|377231
NC_009142.1\|WP_009944343.1\|6961141_6961552_+\|sulfurtransferase	unknown	unknown	gnl\|CDD\|238724
NC_009142.1\|WP_011874979.1\|6955023_6955680_-\|acyltransferase	unknown	unknown	gnl\|CDD\|100053
NC_009142.1\|WP_009944333.1\|6972169_6973093_-\|tetratricopeptide-repeat-protein	unknown	unknown	gnl\|CDD\|225660
NC_009142.1\|WP_009944335.1\|6969197_6970457_+\|peptidase	unknown	unknown	gnl\|CDD\|225203
NC_009142.1\|WP_009944340.1\|6963380_6964505_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|273126
NC_009142.1\|WP_009944348.1\|6956089_6957247_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|380115
NC_009142.1\|WP_009944334.1\|6970596_6972066_+\|neutral-zinc-metallopeptidase	unknown	unknown	gnl\|CDD\|225203
NC_009142.1\|WP_011874978.1\|6950949_6954894_-\|ATP-dependent-RNA-helicase-HrpA	unknown	unknown	gnl\|CDD\|182986
NC_009142.1\|WP_011874983.1\|6964497_6965307_-\|TetR-family-transcriptional-regulator-C-terminal-domain-containing-protein	unknown	unknown	gnl\|CDD\|379409

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_009944347.1\|6957404_6958388_-\|class-I-SAM-dependent-methyltransferase	gnl\|CDD\|369777	pfam08241, Methyltransf_11, Methyltransferase domain. Members of this family are SAM dependent methyltransferases.	1.68705e-27
NC_009142.1\|WP_009944338.1\|6965875_6966529_+\|CPBP-family-intramembrane-metalloprotease	gnl\|CDD\|376806	pfam02517, Abi, CAAX protease self-immunity. Members of this family are probably proteases (after a isoprenyl group is attached to the Cys residue in the C-terminal CAAX motif of a protein to attach it to the membrane, the AAX tripeptide being removed by one of the CAAX prenyl proteases). The family contains the CAAX prenyl protease. The proteins contain a highly conserved Glu-Glu motif at the amino end of the alignment. The alignment also contains two histidine residues that may be involved in zinc binding. While they are involved in membrane anchoring of proteins in eukaryotes, little is known about their function in prokaryotes. In some known bacteriocin loci, Abi genes have been found downstream of bacteriocin structural genes where they are probably involved in self-immunity. Investigation of the bacteriocin-like loci in the Gram positive bacteria locus from Lactobacillus sakei 23K confirmed that the bacteriocin-like genes (sak23Kalphabeta) exhibited antimicrobial activity when expressed in a heterologous host and that the associated Abi gene (sak23Ki) conferred immunity against the cognate bacteriocin. Interestingly, the immunity genes from three similar systems conferred a high degree of cross-immunity against each other's bacteriocins, suggesting the recognition of a common receptor. Site-directed mutagenesis demonstrated that the conserved motifs constituting the putative proteolytic active site of the Abi proteins are essential for the immunity function of Sak23Ki - thus a new concept in self-immunity.	1.92128e-12
NC_009142.1\|WP_037303802.1\|6960599_6961145_+\|cysteine-dioxygenase	gnl\|CDD\|380416	cd10548, cupin_CDO, cysteine dioxygenase, cupin domain. This family contains cysteine dioxygenase (CDO; EC 1.13.11.20), which catalyzes the conversion of cysteine to cysteine sulfinic acid, the first step in the biosynthesis of essential oxidized cysteine metabolites such as sulfate, hypotaurine, and taurine. CDO also plays an important role in the regulation of intracellular cysteine levels in mammals; CDO expression is altered in cancer cells, and abnormal or deficient CDO activity has been linked to Parkinson's disease, Alzheimer's disease, and rheumatoid arthritis. CDO is an iron-dependent thiol dioxygenase that uses molecular oxygen to oxidize the sulfhydryl group of cysteine to generate cysteine sulfinic acid. The CDO active site contains an amino acid-derived cofactor. These enzymes are found in prokaryotes as well as eukaryotes and belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.	3.29696e-20
NC_009142.1\|WP_009944346.1\|6958431_6959214_-\|enoyl-CoA-hydratase/isomerase-family-protein	gnl\|CDD\|235632	PRK05869, PRK05869, enoyl-CoA hydratase; Validated.	7.70955e-73
NC_009142.1\|WP_009944330.1\|6974204_6974705_+\|MarR-family-transcriptional-regulator	gnl\|CDD\|197670	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein.	3.175e-21
NC_009142.1\|WP_031334419.1\|6961757_6962594_+\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|379262	pfam13560, HTH_31, Helix-turn-helix domain. This domain is a helix-turn-helix domain that probably binds to DNA.	6.77301e-09
NC_009142.1\|WP_009944331.1\|6973777_6974074_-\|MTH1187-family-thiamine-binding-protein	gnl\|CDD\|376658	pfam01910, Thiamine_BP, Thiamine-binding protein. The crystal structure of two of these members shows that this domain has a ferredoxin like fold and is likely to exists as at least homodimers. Sulphate ions are are located at the dimer interfaces, which are thought to confer additional stability. Although the function of this domain remains to be identified, its structure suggests a role in protein-protein interactions possibly regulated by the binding of small-molecule ligands. Solution of the structure of the hyperthermophilic anaerobic Thermotoga maritima sequence, UniProtKB:Q9WYV6, shows that this has a beta-alpha-beta-beta-alpha-beta ferredoxin-like fold and assembles as a homotetramer. It was possible to identify a pocket in each monmer that bound an unidentified ligand. It was also found that it bound charged thiamine though not hydroxymethyl pyrimidine. It is proposed that it is transporting charged thiamine around the cytoplasm. Under oxidative conditions this bacterium is under stress, and the transcriiptional unit within which this protein is expressed is up-regulated in these conditions, suggesting that the chelation of cytoplasmic thaimine is part of the response mechanism to such oxidatvie stress, which is mediated by this family.	1.69821e-33
NC_009142.1\|WP_021341671.1\|6966557_6969113_-\|alpha-glucan-family-phosphorylase	gnl\|CDD\|340852	cd04299, GT35_Glycogen_Phosphorylase-like, proteins similar to glycogen phosphorylase. This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important allosteric enzymes in carbohydrate metabolism.	0
NC_009142.1\|WP_044548054.1\|6959326_6960091_-\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|224044	COG1119, ModF, ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism].	7.30821e-101
NC_009142.1\|WP_009944341.1\|6962616_6962823_+\|DUF397-domain-containing-protein	gnl\|CDD\|377231	pfam04149, DUF397, Domain of unknown function (DUF397). The function of this family is unknown.	1.59824e-20
NC_009142.1\|WP_009944343.1\|6961141_6961552_+\|sulfurtransferase	gnl\|CDD\|238724	cd01447, Polysulfide_ST, Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a terminal electron acceptor. The active site contains the same conserved cysteine that is the catalytic residue in other Rhodanese Homology Domain proteins.	1.61497e-22
NC_009142.1\|WP_011874979.1\|6955023_6955680_-\|acyltransferase	gnl\|CDD\|100053	cd04647, LbH_MAT_like, Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively while GAT specifically acetylates galactopyranosides. XAT catalyzes the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and streptogramin, among others. XATs are implicated in inactivating xenobiotics leading to xenobiotic resistance in patients. Members of this family contain a a left-handed parallel beta-helix (LbH) domain with at least 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). They are trimeric in their active form.	5.5438e-35
NC_009142.1\|WP_009944333.1\|6972169_6973093_-\|tetratricopeptide-repeat-protein	gnl\|CDD\|225660	COG3118, COG3118, Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones].	4.70513e-66
NC_009142.1\|WP_009944335.1\|6969197_6970457_+\|peptidase	gnl\|CDD\|225203	COG2321, COG2321, Predicted metalloprotease [General function prediction only].	2.39203e-09
NC_009142.1\|WP_009944340.1\|6963380_6964505_+\|hypothetical-protein	gnl\|CDD\|273126	TIGR00540, TPR_hemY_coli, heme biosynthesis-associated TPR protein. Members of this protein family are uncharacterized tetratricopeptide repeat (TPR) proteins invariably found in heme biosynthesis gene clusters. The absence of any invariant residues other than Ala argues against this protein serving as an enzyme per se. The gene symbol hemY assigned in E. coli is unfortunate in that an unrelated protein, protoporphyrinogen oxidase (HemG in E. coli) is designated HemY in Bacillus subtilis. [Unknown function, General].	0.00663706
NC_009142.1\|WP_009944348.1\|6956089_6957247_-\|hypothetical-protein	gnl\|CDD\|380115	pfam18096, Thump_like, THUMP domain-like. This is a domain of unknown function found in bacteria.	5.21362e-18
NC_009142.1\|WP_009944334.1\|6970596_6972066_+\|neutral-zinc-metallopeptidase	gnl\|CDD\|225203	COG2321, COG2321, Predicted metalloprotease [General function prediction only].	4.78351e-26
NC_009142.1\|WP_011874978.1\|6950949_6954894_-\|ATP-dependent-RNA-helicase-HrpA	gnl\|CDD\|182986	PRK11131, PRK11131, ATP-dependent RNA helicase HrpA; Provisional.	0
NC_009142.1\|WP_011874983.1\|6964497_6965307_-\|TetR-family-transcriptional-regulator-C-terminal-domain-containing-protein	gnl\|CDD\|379409	pfam13977, TetR_C_6, BetI-type transcriptional repressor, C-terminal. This family comprises the C-terminal portion of proteins that belong to the TetR family of transcriptional regulators. The C-terminus represents the regulatory region, and does not include the DNA binding helix-turn-helix domain. The target proteins that are repressed are involved in the transcriptional control of multi-drug efflux pumps, pathways for the biosynthesis of antibiotics, response to osmotic stress and toxic chemicals, control of catabolic pathways, differentiation processes, and pathogenicity. One of the target proteins is BetI, an osmoprotectant which controls the choline-glycine betaine pathway in E.coli.	1.44328e-17

>NC_009142.1|WP_009944341.1|6962616_6962823_+|DUF397-domain-containing-protein
MFAVDLSRARWRKSSRSDTGSGGNCVEVAFAATVTAVRDSKEPHGPKLIFTAAQWRQFLTTTQRGDLD
>NC_009142.1|WP_031334419.1|6961757_6962594_+|helix-turn-helix-domain-containing-protein
MSSGNSPTWWRRKLGRRVRAMREGAGLTLEAAAAALDFSSSKLARLEAGVQGIDVHWVRSMMDLYDQRDDELVEMARRSKQKGWWHKHGFNDQGYVGLETEAVLVHCFYAALVPGLLQTDEYARAVFKGSHVRRSEEWINSQVTVRAHRQRRLHDAAKPLRLNAVTTDSALRQCIGDAHVLRRQMQRLLELAALPSVEFRILPAAAGMHDGLNGPFTMLHFAEPEDGAVVYAEHALGAIHTDKPSEVHACRVKFEHLRTIALSPADSTAVVGEVMNAL
>NC_009142.1|WP_009944343.1|6961141_6961552_+|sulfurtransferase
MSAPTTGPYGVEHLLAESRTELERVSPREAAELQRQGGLIIDIRPDANRLAEGEIPGALTVERIVLEWRLDPSSPHRLAGLRPHQPVVLVCNEGYASSLAAAQARELGLTRATDLDGGFRAWKAAGLPVTTATAAA
>NC_009142.1|WP_037303802.1|6960599_6961145_+|cysteine-dioxygenase
MPEPGQVQLHPELDVPLLRDLVPADRLLWTPHELRDLTSTVTSELTGLLLDVVRVDDEERWWARLGLTAGVELWLLSWAPGQGTKPHDHGGASGSFAVLFGELREDYVYPGGPVRTARHDIGSAIGFGSGRAHQVRNVSSVNAASVHAYSPPLLPVRHYADLADVPPVPPQRHPFQPEVIR
>NC_009142.1|WP_044548054.1|6959326_6960091_-|ABC-transporter-ATP-binding-protein
MDGVGVRRGETTLVADVNWSVELDERWVVLGPNGAGKTTLLKMAGAEMHPSEGTVDVLSERMGRTNVFELRPRIGLCSAALAARVPGEEPVRDVVVSAGWSVVGRWREQYDEMDTDRAAELLDLLGVAHLADRAFGTLSEGERKRALIARALMTDPELLLLDEPAAGLDLGGREDLVARLSALAMDPDAPASVLVTHHVEEIPPGFTHALLLRDGAVVAQGLLGDVITEDNLSKTFDQDLELTRSGDRYFARRR
>NC_009142.1|WP_009944346.1|6958431_6959214_-|enoyl-CoA-hydratase/isomerase-family-protein
MGEFVRLEVDGAIGTIRLDRPPMNALNRQIERELHDVAIEAAERDDVRAVIVYGGEKVFAAGADIKEMAEMSYGDMAAKEQRGLSAAMSAVAAIPKPTVAALTGYALGGGFELALTCDRRIAGDNVKVGQPEILLGVIPGAGGTQRLARLVGPSKAKDIVYTGRFVEAQEALALGMVDEVVAPDDVYAAARRWAEQFANGAARALAAAKAAIDGGLDVDLDSGLKLETHLFAGTFATEDQKIGMRSFIENGPGKAKFTGK
>NC_009142.1|WP_009944347.1|6957404_6958388_-|class-I-SAM-dependent-methyltransferase
MTTDRDPAPNPHATAEQVQEAYSDPKLANVLYHDWEAGTYDEKWSISYDQRCIDYAVDRFRVATGGTGRYGRALELGCGTGFFLLNLMQGGLVERGSVTDLSPGMVEVALRNAKSLDLEVDGRVTDAETIPYDDDTFDLVVGHAVLHHIPDVPAAMREVLRVLKPGGRFVFAGDPTKVGDYYARRLGRLTWWLTTNITKLGPLSQWRRPQEELDESSRAAALEAVVDLHTFEPSKLEGMALGAGAVDVRAVTEELSAALFGWPVRTFEAAVPKERLGFGWGMFAYRTWQKLAKFDQDVLSKVLPRDLFYNVLVTGRKPDGTAGRPGS
>NC_009142.1|WP_009944348.1|6956089_6957247_-|hypothetical-protein
MGYDFDLDDVAFLRSPEGAGAVAELSRLPLTASSRLADVAAARKLVGPRFAAAALETAVLRRKAGSKLDDAGGWLLTADALQQATASEVARHRAARLAGRDVHDVTCSIGADLHETAKVAARCVGSDLDPVRLEMARHNLAEAAAIVRADALRPVTRGTAVVADPARRDDAGRRRWNPADLVPPLDELLAVYSGRDLVVKCAPGLDFEQVPQEAEVEVVSLAGQVREAALWLGGLAGGVRRRASVLSTGETFTDAESDDCPVLEVGQWVVDPDGAVVRAGLVRHYAARHGLAQIDRRIAYLTGDTPPPGIRAFRVIDHGHYNEKALRALLRRHDVGRLEILVRGLDIDPDALRRRLKLKGAQEATAVLTRIGDAPTMVLTRAERT
>NC_009142.1|WP_011874979.1|6955023_6955680_-|acyltransferase
MWSWLCALVRRDPRQARFLTAGSLRWVLRHRAFTPWYLLRYWRLLKLRVTQPHIVLRGMVFLGRGVEITCRPGFGRMEIGRWAHIGDGTALRCHEGSVRIGDKVVFGRDNTVNCWLDVEIGASTLVADWIYVCDFDHVTDDVDVPIKDQGIVKTPVRIGPDCWLGAKVTVLRGTRVGRGSVLGANAVVRGEIPEYSIAVGSPARVVRRRAGDDDHAGA
>NC_009142.1|WP_011874978.1|6950949_6954894_-|ATP-dependent-RNA-helicase-HrpA
MGTSSVERPLGALRERLPDLMLHDQRRLRRRIEGARKIRDAQALEPVVAEISADLAAAEQRVQQRRGAVPEIRYPQELPVSRRREDLLAAIRDNQVVIVAGETGSGKTTQIPKMCLELGRGVQGMIGHTQPRRLAARTVAERVAEELGTELGEAIGYQVRFTDRAGSNTLVKLMTDGILLAEIQQDRLLRRYDTLIIDEAHERSLNIDFILGYLKQLLPRRPDLKVIITSATIDPERFSRHFDDAPVVEVSGRTYPVEVRYRPLVDDSADEEDVERDQVQAICDAVDELGAEGPGDVLVFLSGEREIRDTAEALQQQNLRNTEILPLYARLSAAEQHRVFQPHAGRRIVLATNVAETSLTVPGIKYVIDPGTARISRYSFRTKVQRLPIEPVSQASANQRKGRCGRVSEGICIRLYSEQDFESRPEFTDPEILRTNLASVILQMTSLGLGDIASFPFIEPPDRRQVTDGVNLLHELGAIDPAQKDVHKRLTSTGRKLAQLPVDPRLARMVLEAERNGCVRETLVIAAALSIQDPRERPADKQQAAGEKHARFADKESDFLSYLNLWQYLREQQRELSGNQFRKLCKAEFLNYLRVREWQDLYAQLRQMTKSMGITPNSHPADPAHIHQSLLAGLLSHIGLKDTDKKQGPQNRGGGNEYLGARNAKFAVFPGSALFKKPPRWVMAAELVETSRLWARIAARVEPEWIEKLAQHLVKRSYSEPHWEKDRAAVMAYEKVTLYGVPLVAGRKVQYGRIEPELSRELFIRHALVEGDWNTRHEFFHANRALLEEVEDLEERARRRDILVDDQTLFDFYDQRVGAEVVSGAHFDSWWKKTRREQPDLLNFEKSMLINQESAAVSDRDYPDAWQQGGHRLPLSYQFEPGADADGVTVHIPLQVLNQIDPDGFDRQIPGMREELVTALIKSLPKQLRRNFVPVPDHARAALARMEPGGDLLESLEQELRRMTGVTVPRESWDFDRIPDHLRMTFRVVDGKGRKLAESKDLGALKQRLKPKVRAEISKAADEVEKSGLREWDFGELPRTFQTQRSGHAVKAYPALVDEGESVAVRIFDTEEEQREAHWRGTRRLLLLNLPSPLKSIQRGMGGATRLVFGASPHGDVAGVLDDCLKCAVDKLIADHGGPVWDQASFATLLGRVGSQLGSATADTVSKVERVLTARQQVDALLADRTRRLPAESMADITDQLSGLLHPGFVTGTGWTRLLDVVRYLKAVEQRVDKLQFHPQRDQDWMYQVFEVQDRYRDMLDAVPAGRPVPEELRQVGWMIEELRVSLFAQTLGTPHPVSLKRVHRAMDKAQKKS
>NC_009142.1|WP_009944340.1|6963380_6964505_+|hypothetical-protein
MVIAVAGLLAVGVVEVVAGSGPAGYLLGALGALVGVILLPMATQLGLLAGSFVFGLRVRHIVFGAMRALGSWTVGRVTITLRALPVTIGSEIGPWRKPVILRCWLAGLVSALTGIGIVVVSWLLADGPFGRGFVLAATPLMLYKLWPRRVPLATSTGWLLFGLPRMPEPKRTEFCAGPMAARAYEALREGDLDRAQAVTDELTAEHPELNTTVSCRVSMHEARGEYAQAVMMLLQHISAADIPPREMSYTLAGMAGLGFAAVEAGQLPADDLLPLSKKALDDAVKLGFPPFDLSGTRGLLALVEGDVDEAARLAAVGSDHNTSPLARADCYATLARAHMAQHDNAAAREALTKAEELAAWWPRVRETRARLQVS
>NC_009142.1|WP_011874983.1|6964497_6965307_-|TetR-family-transcriptional-regulator-C-terminal-domain-containing-protein
MPKLVDHDQRRAELTRVVWQVIARDGIEGATVRKVAEEAGVSVGGLRHYFDSQRGLLRFAAQEMGKHVAARVADHLRAELPGQERAQRVLEELLPLDADRRREADVWLAFLVRSCVDDSLAEMCRASWGGERHLCRIAVACCRGVRPPEAVGEQLPDPALEQRSARLHVFVDGLTLQAAVFPGELAVERTRELVRDELAAIAAGAEDSGASADSGGSADLGGSAGSFGGSADFRGSTGAFRGPAGTSGDSAETLGGSAETFGGSAESFS
>NC_009142.1|WP_009944338.1|6965875_6966529_+|CPBP-family-intramembrane-metalloprotease
MSLRLAGGGEPAHTILKLALLLGVPATMFWLLRRHHRLRRSHDGLHPSREGLRRRHDAPQPDHRKSEPRTSTEPRHRFGPLIPVAAWFAISSVGPFATPPSDYGRTVDPVTLLVTIAVVFAVNAVLEEVFYRRWLQSSCEALLGRWPAIVLASLLWASWHIGIQGTGPLPDDLASVLVNQGVQGLFLGYLYSKHRRMWPILTVHGLTNSAPILLGLL
>NC_009142.1|WP_021341671.1|6966557_6969113_-|alpha-glucan-family-phosphorylase
MRAVHRFTVRAHLPEALSALGTLATNLRWTWHPPTQDLFASVDPEVWSAVGGDPLRLLAEVPAGRLSRLARDEDFLARTRAVDDDLRRYLTVPRWYQQRQDEGGLLPDSVAYFSMEFGVAEALPNYSGGLGVLAGDHLKSASDLGVPLVGVGLLYRSGYFRQALSSEGWQVEHYPVLDPRALPLETVNDRAGSPVLVRVAMPEGRTLRARIWKAQVGRVPLLLLDTDLPENDDDLRGTTDRLYGGDADHRIRQEILAGVGGMRAVRAYCELSGHPQPAVFHTNEGHAGFLGLERVRELQDDHGLQFDEAVVAVRAGTVFTTHTPVPAGIDRFPVDLVRHYFGDGSPQALVPGVPTERVLALGAEENPGMFNMAHMGLRLAQRANGVSQLHGGVSRKMFRGLWPGFGTEEVPIGSVTNGVHGPTWSARELGKLLGESEMDSGAGLRGMEPVSDSLLWELRCSLRQRLVDEVRRRLRHAWRQRGASDLELGWCDSVFDPDVLTIGFARRVPTYKRLTLMLRDTELLRELLLDPERPVQVVVAGKSHPADEGGKVMIQKIVQFADQADVRHRIVFLPDYDMALARYLVSGCDVWLNNPVRPLEACGTSGMKAALNGGLNLSVRDGWWDEMFDGHNGWAIPDADGVTDPNRRDDLEAAALYELISTQVAPAFYERNTDGVPGKWMSMVRHTLATLGPRVQSSRMVREYVDHHYAPAARSAAAVAVQGYRGAKEIADYRSRLSAAWTWVRIHDTEMAVEDGGTPLLGGQVVVRAQVDLAGLDPSDVNVEVVVGRVDDSDELHDFVTEPMEPTAEGHYSATVTLPHAGPAGYTVRVLPKHPLLSGPAELGKVVLAGA
>NC_009142.1|WP_009944335.1|6969197_6970457_+|peptidase
MGARRFLAALIAPVAALGACATPPAQAPSVAVRAVDPSFVHGTDGGETDRLAATVVTDVQEYWKAQYPATFGGPWRPVDGGFFSVDTANTSAAAPPCSGDAADVEGNAYYCATVDAVAWDRTALLPVLREHYGEAAVVVVLAHELGHAVQQRSGAGTDDPRRTEAMADCYAGSFVRWAADGRAPHLRVRPDQLDGAMRALTVFRDPVGGGQAADPHGSAFDRVAAFQDGYRGGPGRCAQPSPALPAKAPEEPNRPVPEVLAAPDVRDYFTGLVSRRGARWSAPPVVDDPGSRCGETAVEYCTDPARVAVDEPALAALDHDIGDQAITTLVASRYAVAALDALGLPAHGVEGGRRVSCLAGAYTGRAALSPGDLDEAVEVLLAGNGVSRDVDGVNALTGFDRFLSFRGGALGGPGACGLR
>NC_009142.1|WP_009944334.1|6970596_6972066_+|neutral-zinc-metallopeptidase
MEAVSARNRRRRRIIGTTTAVITCAALVAGCSQAVSGTPTTPGGFATDTVAGLPAANGPSGPKAGAPESSLPVEGTDNGEMDKLARNAVADVDEFWAEEFPKAFGGKKFDPVKRLVSYDSEGPGATVCGENTAGLVNAFYCPTDDLIAWDRAGLLPQLESSFGSMSVVAVIAHEMGHAIQHRAGIVSANDPTIVLEQQADCFTGAFFRHVAEDESQYFEVSTGEGLNQVMGVLSSIRDPIGSDFKDTSAHGSSFDRVTAFQYGFSDGAKRCADMDAADVKQRTTQFEFWKQGQESDLPISQENIDVVEKSLQEVFKDTGAEPPSITTSQTACSGVEATTPAAYCPDTNTVSLNLEELRKIGTPPAQDEAATGYGDFAAYAQVASRYALSVQKAAGLSLDDEAAGLRTACLVGSWSGLLIEDPIGQRNPVGKLRVAPGDIDEGVAALLGEDSLIAANVNGEQVPAGFARVEAFRVGFQEGFAPCSAKYGG
>NC_009142.1|WP_009944333.1|6972169_6973093_-|tetratricopeptide-repeat-protein
MAGAVDLSALKSRADATARAGDQQPAAKGEAGAAPPAGGSVIDVTEATFQAEVVERSMQVPVVVDLWATWCGPCKQLSPMLERLAAEAGGSWVLAKIDVDANPRIAQLFQVQSVPMVIAIAGGQPVEAFAGAQPEPQIRQWINSLLDAMRDQLPGIREAEAAAGGAAPAEQEDPRFTAAEEALERGDYAAAESAYQQILESEPANEQAKAALAQVRFSARAESADPSAVERADAAPDDLDAQLAAADAEVAAQRVEEAFDRLVRTVKRTSGDDRNRVRQHLVEMFELFPDGDERVTAARRALASALF
>NC_009142.1|WP_009944332.1|6973505_6973709_+|hypothetical-protein
MTLGAPAFADSVDNNGVNVVNDNNISAVPVQACGNDIGAIVGVILKLGSEQTTSCVNAPIVDHAQQR
>NC_009142.1|WP_009944331.1|6973777_6974074_-|MTH1187-family-thiamine-binding-protein
MLLAFSVAPANSGDGVSEAVAAAVRVVRDSGLPYETTAMFTTIEGEWDEVMDVVKRATEAVSSRSPRTSLVIKADIRPGYTDQLRQKVERVNEHLEQD
>NC_009142.1|WP_009944330.1|6974204_6974705_+|MarR-family-transcriptional-regulator
MSTRSPLPFDPIARAAELWAERVGPSTTMAAVTSVMRVQQILQSAVDTALRPHNLTFARYEALVLLSFSRRGSLPMRVMGDRLQLHPTSVTNIVDRLEQDDLVRRVPHPTDRRTTLVEITDEGRDLVKRATESVTEIDFGLRGVTERQTQQLTELLGRVRHAAGDF

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Crispr_ID: NC_009142_17

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_17

7106441-7106655

Orphan

Consensus_repeat	Method
CCGCAAACCCACGCGCCCCCGCCC	CRISPRCasFinder

3 spacers

The CRISPR arrays of NC_009142_17

>merge|NC_009142|17|7106441-7106655|CRISPRCasFinder
CCGAAAACCCGCGCGCCCCCGCCCTCAAAGCGACCCGCCAGCCCCGCCGGATGCGCCGCAAACCCACGCGCCCCCGCCCCTAAAGGAAGCCGCAAGGCCACGCCGACCATCCCGAAACCCACGCGCCCCCGCCCTCAAAGCGCCTCACAAGGCCAGCGCAACCCAAAGCCGCTACTCCACCACCCCCCAGCCCTCAACCCCACCCGGCACCGGCC

>NC_009142|17|16|7106441-7106655|CRISPRCasFinder
CCGAAAACCCGCGCGCCCCCGCCC	TCAAAGCGACCCGCCAGCCCCGCCGGATGCG
CCGCAAACCCACGCGCCCCCGCCC	CTAAAGGAAGCCGCAAGGCCACGCCGACCAT
CCCGAAACCCACGCGCCCCCGCCC	TCAAAGCGCCTCACAAGGCCAGCGCAACCCAAAGCCGCTACTCCACCACCCCCCAGC
CCTCAACCCCACCCGGCACCGGCC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_009946019.1\|7115954_7116389_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|226944
NC_009142.1\|WP_009946022.1\|7112924_7115042_-\|penicillin-binding-protein	unknown	unknown	gnl\|CDD\|223815
NC_009142.1\|WP_009946012.1\|7120468_7121341_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|237537
NC_009142.1\|WP_009946021.1\|7115418_7115799_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_021341992.1\|7098061_7099225_-\|trypsin-like-peptidase-domain-containing-protein	unknown	unknown	gnl\|CDD\|273938
NC_009142.1\|WP_009946024.1\|7110665_7111601_+\|CPBP-family-intramembrane-metalloprotease	unknown	unknown	gnl\|CDD\|376806
NC_009142.1\|WP_009946016.1\|7117646_7118801_-\|MFS-transporter	unknown	unknown	gnl\|CDD\|341042
NC_009142.1\|WP_081468298.1\|7111624_7112512_-\|squalene/phytoene-synthase-family-protein	unknown	unknown	gnl\|CDD\|366130
NC_009142.1\|WP_009946030.1\|7104786_7105221_-\|aminoacyl-tRNA-hydrolase	unknown	unknown	gnl\|CDD\|181730
NC_009142.1\|WP_009946033.1\|7102000_7102276_+\|DUF3311-domain-containing-protein	unknown	unknown	gnl\|CDD\|371707
NC_009142.1\|WP_009946026.1\|7108289_7110578_+\|5-methyltetrahydropteroyltriglutamate---homocysteine-S-methyltransferase	unknown	unknown	gnl\|CDD\|235367
NC_009142.1\|WP_009946034.1\|7100275_7101931_+\|amidohydrolase	unknown	unknown	gnl\|CDD\|238625
NC_009142.1\|WP_011875023.1\|7099439_7100030_-\|dihydrofolate-reductase-family-protein	unknown	unknown	gnl\|CDD\|223340
NC_009142.1\|WP_009946017.1\|7116473_7117637_-\|glycerophosphoryl-diester-phosphodiesterase	unknown	unknown	gnl\|CDD\|176510
NC_009142.1\|WP_009946032.1\|7102272_7103751_+\|sodium:solute-symporter-family-protein	unknown	unknown	gnl\|CDD\|271357
NC_009142.1\|WP_009946039.1\|7096513_7097176_+\|DUF742-domain-containing-protein	unknown	unknown	gnl\|CDD\|283084
NC_009142.1\|WP_009946031.1\|7103779_7104724_-\|patatin-like-phospholipase-family-protein	unknown	unknown	gnl\|CDD\|132848
NC_009142.1\|WP_009946041.1\|7096065_7096506_+\|roadblock/LC7-domain-containing-protein	unknown	unknown	gnl\|CDD\|214939
NC_009142.1\|WP_011875021.1\|7097255_7097858_+\|ATP/GTP-binding-protein	unknown	unknown	gnl\|CDD\|225138
NC_009142.1\|WP_011875026.1\|7118975_7120235_+\|peptidase-M14	unknown	unknown	gnl\|CDD\|214748

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_009946019.1\|7115954_7116389_-\|hypothetical-protein	gnl\|CDD\|226944	COG4578, GutM, Glucitol operon activator [Transcription].	3.17435e-10
NC_009142.1\|WP_009946022.1\|7112924_7115042_-\|penicillin-binding-protein	gnl\|CDD\|223815	COG0744, MrcB, Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane].	2.06844e-114
NC_009142.1\|WP_009946012.1\|7120468_7121341_-\|hypothetical-protein	gnl\|CDD\|237537	PRK13875, PRK13875, conjugal transfer protein TrbL; Provisional.	4.91916e-07
NC_009142.1\|WP_011875026.1\|7118975_7120235_+\|peptidase-M14	gnl\|CDD\|214748	smart00631, Zn_pept, Zn_pept domain.	1.09902e-19
NC_009142.1\|WP_021341992.1\|7098061_7099225_-\|trypsin-like-peptidase-domain-containing-protein	gnl\|CDD\|273938	TIGR02037, Probable_periplasmic_serine_protease_do/HhoA-like, periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures. [Protein fate, Protein folding and stabilization, Protein fate, Degradation of proteins, peptides, and glycopeptides].	9.4417e-89
NC_009142.1\|WP_009946024.1\|7110665_7111601_+\|CPBP-family-intramembrane-metalloprotease	gnl\|CDD\|376806	pfam02517, Abi, CAAX protease self-immunity. Members of this family are probably proteases (after a isoprenyl group is attached to the Cys residue in the C-terminal CAAX motif of a protein to attach it to the membrane, the AAX tripeptide being removed by one of the CAAX prenyl proteases). The family contains the CAAX prenyl protease. The proteins contain a highly conserved Glu-Glu motif at the amino end of the alignment. The alignment also contains two histidine residues that may be involved in zinc binding. While they are involved in membrane anchoring of proteins in eukaryotes, little is known about their function in prokaryotes. In some known bacteriocin loci, Abi genes have been found downstream of bacteriocin structural genes where they are probably involved in self-immunity. Investigation of the bacteriocin-like loci in the Gram positive bacteria locus from Lactobacillus sakei 23K confirmed that the bacteriocin-like genes (sak23Kalphabeta) exhibited antimicrobial activity when expressed in a heterologous host and that the associated Abi gene (sak23Ki) conferred immunity against the cognate bacteriocin. Interestingly, the immunity genes from three similar systems conferred a high degree of cross-immunity against each other's bacteriocins, suggesting the recognition of a common receptor. Site-directed mutagenesis demonstrated that the conserved motifs constituting the putative proteolytic active site of the Abi proteins are essential for the immunity function of Sak23Ki - thus a new concept in self-immunity.	3.77984e-10
NC_009142.1\|WP_009946016.1\|7117646_7118801_-\|MFS-transporter	gnl\|CDD\|341042	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily. This subfamily is composed of Escherichia coli membrane proteins, YfcJ and YhhS, Bacillus subtilis uncharacterized MFS-type transporter YwoG, and similar proteins. YfcJ and YhhS are putative arabinose efflux transporters. YhhS has been implicated glyphosate resistance. YfcJ-like arabinose efflux transporters belong to the bacterial MdtG-like and eukaryotic solute carrier 18 (SLC18) family of the Major Facilitator Superfamily (MFS) of transporters. MFS proteins are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	3.52253e-42
NC_009142.1\|WP_081468298.1\|7111624_7112512_-\|squalene/phytoene-synthase-family-protein	gnl\|CDD\|366130	pfam00494, SQS_PSY, Squalene/phytoene synthase.	2.6515e-26
NC_009142.1\|WP_009946030.1\|7104786_7105221_-\|aminoacyl-tRNA-hydrolase	gnl\|CDD\|181730	PRK09256, PRK09256, aminoacyl-tRNA hydrolase.	5.84889e-59
NC_009142.1\|WP_009946033.1\|7102000_7102276_+\|DUF3311-domain-containing-protein	gnl\|CDD\|371707	pfam11755, DUF3311, Protein of unknown function (DUF3311). This is a family of short bacterial proteins of unknown function.	5.83875e-15
NC_009142.1\|WP_009946026.1\|7108289_7110578_+\|5-methyltetrahydropteroyltriglutamate---homocysteine-S-methyltransferase	gnl\|CDD\|235367	PRK05222, PRK05222, 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional.	0
NC_009142.1\|WP_009946034.1\|7100275_7101931_+\|amidohydrolase	gnl\|CDD\|238625	cd01300, YtcJ_like, YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling.	5.79212e-127
NC_009142.1\|WP_011875023.1\|7099439_7100030_-\|dihydrofolate-reductase-family-protein	gnl\|CDD\|223340	COG0262, FolA, Dihydrofolate reductase [Coenzyme metabolism].	5.83042e-17
NC_009142.1\|WP_009946017.1\|7116473_7117637_-\|glycerophosphoryl-diester-phosphodiesterase	gnl\|CDD\|176510	cd08567, GDPD_SpGDE_like, Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in a group of uncharacterized bacterial glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46) and similar proteins. The prototype of this CD is a putative GP-GDE from Silicibacter pomeroyi (SpGDE). It shows high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.	1.34429e-99
NC_009142.1\|WP_009946032.1\|7102272_7103751_+\|sodium:solute-symporter-family-protein	gnl\|CDD\|271357	cd10322, SLC5sbd, Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain. This family represents the solute-binding domain of SLC5 proteins (also called the sodium/glucose cotransporter family or solute sodium symporter family) that co-transport Na+ with sugars, amino acids, inorganic ions or vitamins. Family members include: the human glucose (SGLT1, 2, 4, 5), chiro-inositol (SGLT5), myo-inositol (SMIT), choline (CHT), iodide (NIS), multivitamin (SMVT), and monocarboxylate (SMCT) cotransporters, as well as Vibrio parahaemolyticus glucose/galactose (vSGLT), and Escherichia coli proline (PutP) and pantothenate (PutF) cotransporters. Vibrio parahaemolyticus Na(+)/galactose cotransporter (vSGLT) has 13 transmembrane helices (TMs): TM-1, an inverted topology repeat: TMs1-5 and TMs6-10, and TMs 11-12 (TMs numbered to conform to the solute carrier 6 family Aquifex aeolicus LeuT). One member of this family, human SGLT3, has been characterized as a glucose sensor and not a transporter. Members of this family are important in human physiology and disease.	3.92994e-58
NC_009142.1\|WP_009946039.1\|7096513_7097176_+\|DUF742-domain-containing-protein	gnl\|CDD\|283084	pfam05331, DUF742, Protein of unknown function (DUF742). This family consists of several uncharacterized Streptomyces proteins as well as one from Mycobacterium tuberculosis. The function of these proteins is unknown.	2.07893e-26
NC_009142.1\|WP_009946031.1\|7103779_7104724_-\|patatin-like-phospholipase-family-protein	gnl\|CDD\|132848	cd07209, Pat_hypo_Ecoli_Z1214_like, Hypothetical patatin similar to Z1214 protein of Escherichia coli. Patatin-like phospholipase similar to Z1214 protein of Escherichia coli. This family predominantly consists of bacterial patatin glycoproteins and some representatives from eukaryotes and archaea. The patatin protein accounts for up to 40% of the total soluble protein in potato tubers. Patatin is a storage protein, but it also has the enzymatic activity of a lipid acyl hydrolase, catalyzing the cleavage of fatty acids from membrane lipids. Members of this family have also been found in vertebrates.	9.22317e-49
NC_009142.1\|WP_009946041.1\|7096065_7096506_+\|roadblock/LC7-domain-containing-protein	gnl\|CDD\|214939	smart00960, Robl_LC7, Roadblock/LC7 domain. This family includes proteins that are about 100 amino acids long and have been shown to be related. Members of this family of proteins are associated with both flagellar outer arm dynein and Drosophila and rat brain cytoplasmic dynein. It is proposed that roadblock/LC7 family members may modulate specific dynein functions. This family also includes Golgi-associated MP1 adapter protein and MglB from Myxococcus xanthus, a protein involved in gliding motility. However the family also includes members from non-motile bacteria such as Streptomyces coelicolor, suggesting that the protein may play a structural or regulatory role.	3.66963e-23
NC_009142.1\|WP_011875021.1\|7097255_7097858_+\|ATP/GTP-binding-protein	gnl\|CDD\|225138	COG2229, COG2229, Predicted GTPase [General function prediction only].	3.22228e-45

>NC_009142.1|WP_009946030.1|7104786_7105221_-|aminoacyl-tRNA-hydrolase
MADDLPVTRRLAIPAAELSERFSRSSGPGGQGVNTTDSRVELSFDLARTPSLPDELRRRAVERLGHRLVDGVVTIAASEHRSQLANRQAARERLAALLAEAVAPPPRKRRATKPTRASQHRRLAGKKRRSEVKRGRRRGDPGDD
>NC_009142.1|WP_009946031.1|7103779_7104724_-|patatin-like-phospholipase-family-protein
MRTVWVLPGGSTFGAIQAGLVTSLFEAGEAPDAVIGTSVGSLNAAWLAGDPTARGAEKLREVWLSMRRSDVFAIQPMRILAGKLGLTNHLMSNRGLARWLYQTLPYRRLEDARIPLTVTATDIDSGEAVYFDRGPALPALVASCSIPGMFPPIKVGDRWLVDGGPAAFMPISRAVEQGAERVYVLPCGGSEPFEFDRRRRGVGTVATWPPPQSPPKSITGVNGAAMGAAMVAAARLDMQVNAAKCELYVMPAPSVIGLSPYSFEHVGALMDAAMAIGRRWFPTARPVAADRPVDIGGNVVLESSDTEHAAPTRG
>NC_009142.1|WP_009946032.1|7102272_7103751_+|sodium:solute-symporter-family-protein
MNANATVSVGIFALFIVAAVALGLLSLRGRDKANLAEWSVGGRSLGVVLIFVLMAGETYTSFSYLGAAGWAYDYGMPVFYLVAYLAIGFAVGYVVGPILWHYAHRHHLHNITDITSHRFDSPWLGGAVAVLTTVFLLPYIQLQITGMGVVVSTISYGTISLGVGYVVAFVVAEAFIIASGLRGSAWVSILKDGLVIITLLVVFVYVPLHYFGGFGPLLDRLVAERPQWLMLPGQGKESLGMLWFATTGLLNGVVYTIFPTTVAGYLGARSPAVLRRNAIIMPFYQVLLFVPILLGLAAVFVVPGLGDSNLAMFELVVDSMPAWLVGLVGVAGALSSIVPMAVFMLVIGTMWGRSILGAHPRTAPHQKRLSQLVTFLVGLLALVFTFASPTTLVQLSVLSYQGLAQLLPVVLVGLLWRRMSTAGAASGLAAGVAVVAVLVVTGNDPLLGINAGLLGLVVNFAVNVAVSLARPADTPADRLAVPELREAPSARV
>NC_009142.1|WP_009946033.1|7102000_7102276_+|DUF3311-domain-containing-protein
MFEGRRSLWWLLGPVVLYLLALPLYNRVDPVVLGLPFFMFWTLMATVLTPVCIWLAARSDPLWAADRDRERGTGDTGAASDAPADSEGDVR
>NC_009142.1|WP_009946034.1|7100275_7101931_+|amidohydrolase
MVGNAQRQVLVTAERIVTAADGRASPYASGPRPALLLLGERVVATGDLDALRKRAPEAELVDLGAATVVPGFNDAHQHLTMTAANLRGVDLSTADSAGELLGALRERARSADPGEWVLGTRYDHGRATGGTPLTRWDLDELGSSHPVLLINVGAHWGVLNSAGLRAAGLSDDSEDPVGGELVRDAAGRLTGVVHEQALFDLAYPSLARRPTVLPRQDVESGLRHLEQTFRALNAAGITSVGDAMVGPDELALLQEARGRGRLTARVNALLTYPHVDTFHAAGLRTGFGDHWLRVGGVKAFADGAVAGGTCLVEQPFEGTEDHGIQTLSQDELEELALRVHGAGSRLAIHANGDRAIRHVLTALERARERTPRPGLKHRIEHCSIVDDDILARMTALDAIAVPFGSYVAFHGDKLLDYYGADRLERMFAHRALLDAGVAVAGSSDFPCGPYEPLVALASCVTRQSTAGRTSGRVLGGSQRITPLEALGLYTTGSAHASGEAEHKGRLLPGYLADFAVLSEDPLEADPHRLPGVQVLQTWVGGRPVWRQDDPS
>NC_009142.1|WP_011875023.1|7099439_7100030_-|dihydrofolate-reductase-family-protein
MGVLVYSAITSLDGYIADEKGNFDWAVPDAQVHAFINDLERSAGTYLYGRRMYETMAGWDDPEALPDQSPLSEEFSEIWRSADKVVYSTTLEAVSTARTRMEREFDPEAVHRMKAAAKRDLIVGGPGLAEHAFRARLVDECHLFVTPVVVGGGTRALPDGLRLDLELLAERRFDAGTVYLRYRVRNSDVAGAERNL
>NC_009142.1|WP_021341992.1|7098061_7099225_-|trypsin-like-peptidase-domain-containing-protein
MSGGIVAAALIAGLVGGAAGTGGGYLLAQGTGGTSPLSQQDPVQGRQVSAQTGTAQFAAEKVSASTVDISVKSRTGGSEGTGVVLTADGYVLTNNHVVADQGEITVTLSDGRKTSAKVVGTAPSYDLAVIKLDQVDGLVPAQLGKSSALKVGQPVVAIGSPLGLEGTVTSGIVSAMDRTVEVSGDNGEAVVYNGIQTDASINPGNSGGPLVNLDGQVIGINSSILSGQGGGRGSSAGNIGLGFAIPVDTAARVADEIMAKGVATKPQLGVTGTDGVEGHATVSQVVAGGAADEAGIKEGETILKVGDKSVTAFTDLMAQIGAHAPGSKVTLTVGDSRGENPRQVEVTLGSVEDRAPQTTSGEAPQQNPYPQQQQRPYWPEGELPYGG
>NC_009142.1|WP_011875021.1|7097255_7097858_+|ATP/GTP-binding-protein
MTSETRSRPAQARRTATTTSAKIVVAGGFGVGKTTFVGSVSEIVPLTTEAVMTEASRGIDDLRATPNKQTTTVAMDFGRLSLDSDLILYLFGTPGQHRFWFMWDDLVRGAIGAVVLVDTRRLADCFSAIDFFEDRGLPYVVGLNCFNAQMYHRIDDVREAIAVGAHVPIVTCDARNRESTKQALIVLVEYAMRWWVQRGS
>NC_009142.1|WP_009946039.1|7096513_7097176_+|DUF742-domain-containing-protein
MTTGSDSPGRRSSDADAMAEVFSRFTLDSGRGRRRHRAADEGTQPRGAVHSRVPAHSRGDAQHHVAAREFDQPANETPWPAEEPLEDEEAADAAEPPPHDQVEGGAESAAATYIRPYAWTGGRTRSNHRLELETLVSTSEMCRPAVLQRLEHHSIAGLCQHPRSVAEIGALLGVPLGVVRVLIGDMADLGLITVHRTVSENGSTSHLDLMERVLKGLRRL
>NC_009142.1|WP_009946041.1|7096065_7096506_+|roadblock/LC7-domain-containing-protein
MNPHQPQPSQFGWLVTDFTERVPGVAHAVVVSADGLLLTASAKLPTDRADQLAAVASGLLSLTQGAARCFEAGAVTETVVEMERGLMLQMAISDGSCLTVLAAPHCDMGLIAYEMAMLVERVGQILTPELRSQLQGSNRVMTGQSV
>NC_009142.1|WP_009946026.1|7108289_7110578_+|5-methyltetrahydropteroyltriglutamate---homocysteine-S-methyltransferase
MSSRIGSTVLGHPRIGPRRELKRALEGYWASRSTEAELREVARSLRAGTWRELAAAGLDSVPGNTFSYYDQVLDTAATFGAVPRRFAELGLGPLDTYFAMARGVESTPPLEMTKWFDTNYHYLVPEIGPGTTFSLADRTAVEDYREAAADGVGTRPVVVGPLTFLLLSKSAEDAPKSFRPLDKLDELVQRYAELLTELHDAGAGWVQLDEPAFAADRTPEELELLRGAYRTLSQLDRRPDILVATYFGDPGDALPTLASTDVEGIAVDLVSNASTVDSLARVDGLRSKTLVSGLVDGRNVWRTDLDAALGTAAALLEVAGEVAVSTSCSLLHVPYDVDAEANLDPHVRPWLAFAKQKAAEVVTLGRALREGRDSVADELAAARNAVQDRRSSERLRDNRVRGRLDALSADSYRRSPYDARRAAQRRTLDLPPLPTTTIGSFPQTPDVRKARAALRNGSIDQAAYDQRMLEEISRVIALQEALGLDVLVHGEPERNDMVQYFAEHLDGFVSTENGWVQSYGSRCVRPPILFGDVSRPEPITTRWAERAQRLTEKPVKGMLTGPITILAWSFVRDDQPLGETAAQVALAIRDEVRDLEAAGIRVIQVDEPALRELLPLRAEQHEDYLDWAVGSFRLATSGVADRTQVHTHLCYSEFGEVIDAIVALDADVTSIEAARSRMEVLDDLNAVGFGRGVGPGVYDIHSPRVPSTEEIEGLLAAALRSVPAERLWVNPDCGLKTRGYAEVEPALRSMVEAAARMRADLA
>NC_009142.1|WP_009946024.1|7110665_7111601_+|CPBP-family-intramembrane-metalloprotease
MDVRGVVGFVAIAYLPAWLMTLPLWLTGQGLTWAWSPLVLVAMMFMPAVAALVVNRWISPRPKPLRATGLTNPGGIRKWWRYALLAWLAPPATMFVALVVGYMLNFYEADWTGFSGLAEQLQGGVVGSAPQAAGTLALGQIAQVFLLGWLNVIPALGEELGWRGYLVPALLPLGQPGALLTSGVLWGLWHAPVLVLGYNYPTVPVVVSFIMMTCFCVLVGALLSWLRLAGGSVWPAAIAHGFLNASAGLSLVFSAAGHPVDNVSAGLLGWTGWLVLVLLILTLVMFDKLPVRIEQPKEEGISRGVQRRSRR
>NC_009142.1|WP_081468298.1|7111624_7112512_-|squalene/phytoene-synthase-family-protein
MGSPDRVRHLRRRPRRRSAPARVAAHRGLRRPRERVLRAAGDGCAAAERAGQSPAPPRPAARTCLRALVRTWDVPRESVREFMDTIATDLRVTHYPTYTDLRRYVDAVCGHNGLWVNALLSHPPHGTEHCAVHAIHASAGLQLTDYLRDLREDIEDGRCYLPLEDLDAFGISTDDLAEAARSGRMTEPLRELVRFEAERARLHFAQAADWWRSVHPSMRELPRLYVRLGQHGLERITRSGHDIFRATRTARAVCATASCAEFAAGYARAATRRLTARTPSGVQRAASREDKAGAA
>NC_009142.1|WP_009946022.1|7112924_7115042_-|penicillin-binding-protein
MRSGVLLKMFGLCVLAGVLVASLMMPLATGAGAVVNQATDAMSRMSSSLAQRDMPQVSTVTDKDGDPIAYFFKDYRVETPPEQIPDTMKAAITAVEDKRFWDHGGVDWQGTMRALATNVSSGETAQGASTITQQYVKNYLVHVVAQTEMDAEKAKETTIARKLREAKIAVELERTMTKEEILTGYLNVVPFGNQTFGVGAAAQTYFGTTPDKLTIAQSALLAAIVNQPGSLNPNSNPADAMARRNLVIDLMADPNNNIRITPQDAEQAKKEPLGVMSPLGRPPNGCVGLGDGTTDGFFCSYVKDYLERLGIDSDDLKTGGYTVRTTLDRKSSDAAKQAAQKQVPTQTEGIANVMSVVQPGKDKHKVRALVANRDFGNDLSKGQSAYDIVSRVQPFGAGSIYKVFTAASAMEQGMSPYDVIDVPPSYTSRVYKNGTAPYTVGNADGVQPGPRTLQMALATSPNTAFVALQERAGLSNVVDMAARLGLRHGMLGVNSSGQTLKDDGSNGPSQAEVIKKGNRGAFTLGYTPTSVLELSNVAATIMSDGVYCPPTPLEEVKDRNGNIVPLNEGACEQAIAPHVANQLAQGMSKDDTDGTSRQAAQAVGWNRPMIGKTGTTQEHKSAGFLAATPQMAGAVLTYADGNSPQGICDGGGDAPPYLCGKHGGNIYGGKVPARTWFDAMTRIHEGLPSAPLPGAPAPPPAAPPR
>NC_009142.1|WP_009946021.1|7115418_7115799_+|hypothetical-protein
MTDPFMDALATALAGQAVTALGAAGTAALVKVRELLRRRSDRDPETLAALEAAEGPDAGAPQIKALAERLDRVSQEDPGFGEELRTEGAPIHNDITASENSVVNVNHGNVDKLIQSREIHGGITFN
>NC_009142.1|WP_009946019.1|7115954_7116389_-|hypothetical-protein
MNRSLLTPRWLLLHLLFLAATIATGFLARWQWDRAHEAGGSAQNLGYALMWPLFGAFTIFLWVRVARMHKVAEAVPALPETGTAEAAPSISGAAAASAEQAAEKHRRRPLVPPPAPPVDDDEDPAMAEYNRYLAELNEADRRAG
>NC_009142.1|WP_009946017.1|7116473_7117637_-|glycerophosphoryl-diester-phosphodiesterase
MGALDAEASPHRNLPHARTTPGAGSLPPMRSKSLRAVSSLLVSVALSAGIVAPAAAGPPGHGPGFDLQAHRGGIAHYPEGTLPAFANAMRIGVTTLELDVQITADGREVVTHDRQIKPGKCLDTAPAFPGDPQFPYAGSYVKDLTFAQVRTLDCGSRTHPDYPEQQPAPGARMPTLREVFALVRACRAHDVRFNIETKVEAAAPHETAPREQFVRVVAEQVRQAGMLGRVTVQSFDWGALRLMRRVEPWLPVVALTEPKFLEVGEPGASPWLGGLDIDDFGGSPVRAVRTFGAAALSPLHGEPQGGAVGDPGYVPFTTPALVEEAHRAGLAVVPWTVNDEATMNALIDMGVDGLITDYPARLRRLLEAGGVPVAEPVRDCEQPASGA
>NC_009142.1|WP_009946016.1|7117646_7118801_-|MFS-transporter
MRVVSDRRAANPLRGRSFLLMLLAVLGGFAGYVLLLPVVPLWAVVGGAGEIAAGATNAVFMLVTVLTQLAMPWLLRRVGHRLALGAGTLLIGLPTPLFAVSQEMWALLAVSGLRGIGFGLLTVAGSALVAELVPVAMRGRAAGLYGLSVGLPNVVFLPAGVWLAQHVGFVPLFWIATALPVAMTAAVFWIAPVRRPEAGPAAARTFPLTLFSPWLVMCVVATAAGGLVAFLPLAITAWAVTPALLSFGLATVAGRWLAGQVGDRFGGGLVVVPSVVLAGAGTAAIALASAGAAAVAIAGAFALGAGFGAVQNVTLVMMFERAESGAASTAWNIAYDAGNGIGAVGFGVLVTATDYPTTFGAMAAVVLAFTSLAIADQRGRARSR
>NC_009142.1|WP_011875026.1|7118975_7120235_+|peptidase-M14
MRRLRALTLATIVAGTAFTAPAAATAPPAAPAEPAAAPAEPCSEEPRENPVTEFTSYDEMLVELGRIERVSRGRVAVETAGESNRGRDLVTARVGDGPKAVLITAEIHGNEKTGPDAVLHLLDFLGTSDSPKARQIRSELTVVAMPKINPDAGALDRRGNDMTWEEAKLRHPQLASAPPPWNYYTGSLQGDDYSQQPGFDVNRDYNPDLDYRPRPQDFPGASDRPGWFLSPETSTVRDVYRGLQREFGGVDSYIDLHHQGACYTVPGTGRFVTMSLSGKFVADPAAPGSPYAAYADGFPLDYSKQLNVAAYNALQAAANQNPAFGDITLYPQDIDLPGTGLGTFQLNGSGAVLFEVRGQTQTLGERHREMLTRTVEIGLDGILASVAGGQVHNLDPAAYDRIPPTDRDQTRGTITEIED
>NC_009142.1|WP_009946012.1|7120468_7121341_-|hypothetical-protein
MSQARALSSDEVRGLREQLAAGETPTVWFTPAAVGVQEGRSGKVMALDEPAEGDFIQVRPAGSKDVLSFSVGEVTMVKPPRKRSDDSAGSRGRSRSGSGSGAGSASGAGTASGSGSAKGSGSAPAPAKASGSASGSGSAGAASSKPAASSPSGGATSGRSSAGQGTAGSGASRASDAADAARTSSSATAAKSSSAGARRKQRQPTEATVTLTADQAGQWSVEVSTGKKRVLRPMAVPASAVAQAAKALHDDVADAVEPLIDAAREQQRARVEQLQQELADAQRMLDELTD

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Crispr_ID: NC_009142_18

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009142_18

7943191-7943276

Orphan

Consensus_repeat	Method
GAGGAGCGCCGCCAGGAGCTGGA	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_009142_18

>merge|NC_009142|18|7943191-7943276|CRISPRCasFinder
GAGGAGCGCCGCCAGGAGCTGGAAGCCGAACGGCAGCGGCTGGACAGCGAGCGCTACGCGCTGGAGCAGCGCCGCCAGGAGCTGGA

>NC_009142|18|17|7943191-7943276|CRISPRCasFinder
GAGGAGCGCCGCCAGGAGCTGGA	AGCCGAACGGCAGCGGCTGGACAGCGAGCGCTACGCGCTG
GAGCAGCGCCGCCAGGAGCTGGA

Protein	Signature genes	Signature genes Name	Protein_function
NC_009142.1\|WP_009949148.1\|7935036_7935450_-\|PRC-barrel-domain-containing-protein	unknown	unknown	gnl\|CDD\|368352
NC_009142.1\|WP_009949152.1\|7932507_7933311_-\|LuxR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|197715
NC_009142.1\|WP_009949153.1\|7932268_7932460_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_009949155.1\|7931072_7931273_-\|DUF397-domain-containing-protein	unknown	unknown	gnl\|CDD\|377231
NC_009142.1\|WP_009948797.1\|7952738_7953509_-\|DUF2334-domain-containing-protein	unknown	unknown	gnl\|CDD\|200603
NC_009142.1\|WP_011875263.1\|7933611_7934787_-\|S8-family-peptidase	unknown	unknown	gnl\|CDD\|173790
NC_009142.1\|WP_011875266.1\|7950436_7951438_+\|epimerase	unknown	unknown	gnl\|CDD\|187575
NC_009142.1\|WP_009948807.1\|7945297_7946344_+\|pentapeptide-repeat-containing-protein	unknown	unknown	gnl\|CDD\|379274
NC_009142.1\|WP_009949154.1\|7931287_7932136_-\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|379262
NC_009142.1\|WP_009948805.1\|7948660_7949362_-\|phosphoribosylformylglycinamidine-synthase-subunit-PurQ	unknown	unknown	gnl\|CDD\|235140
NC_009142.1\|WP_029621891.1\|7936990_7938871_+\|glucoamylase	unknown	unknown	gnl\|CDD\|225922
NC_009142.1\|WP_009948799.1\|7951511_7952147_+\|MBL-fold-metallo-hydrolase	unknown	unknown	gnl\|CDD\|225130
NC_009142.1\|WP_011875264.1\|7935647_7936232_+\|SseB-family-protein	unknown	unknown	gnl\|CDD\|377787
NC_009142.1\|WP_009948804.1\|7949358_7949598_-\|phosphoribosylformylglycinamidine-synthase-subunit-PurS	unknown	unknown	gnl\|CDD\|235659
NC_009142.1\|WP_009948798.1\|7952218_7952626_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|237171
NC_009142.1\|WP_009948806.1\|7946372_7948664_-\|phosphoribosylformylglycinamidine-synthase-subunit-PurL	unknown	unknown	gnl\|CDD\|234921
NC_009142.1\|WP_009948808.1\|7944112_7945219_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|215180
NC_009142.1\|WP_173401330.1\|7939551_7941666_-\|EAL-domain-containing-protein	unknown	unknown	gnl\|CDD\|236645
NC_009142.1\|WP_009948803.1\|7949891_7950314_+\|hypothetical-protein	unknown	unknown	unknown
NC_009142.1\|WP_031334201.1\|7942142_7942982_+\|lysozyme	unknown	unknown	gnl\|CDD\|119374

Protein	Function_ID	Function_description	E-value
NC_009142.1\|WP_009949148.1\|7935036_7935450_-\|PRC-barrel-domain-containing-protein	gnl\|CDD\|368352	pfam05239, PRC, PRC-barrel domain. The PRC-barrel is an all beta barrel domain found in photosystem reaction centre subunit H of the purple bacteria and RNA metabolism proteins of the RimM group. PRC-barrels are approximately 80 residues long, and found widely represented in bacteria, archaea and plants. This domain is also present at the carboxyl terminus of the pan-bacterial protein RimM, which is involved in ribosomal maturation and processing of 16S rRNA. A family of small proteins conserved in all known euryarchaea are composed entirely of a single stand-alone copy of the domain.	0.00359687
NC_009142.1\|WP_009949152.1\|7932507_7933311_-\|LuxR-family-transcriptional-regulator	gnl\|CDD\|197715	smart00421, HTH_LUXR, helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon.	1.86249e-05
NC_009142.1\|WP_009949155.1\|7931072_7931273_-\|DUF397-domain-containing-protein	gnl\|CDD\|377231	pfam04149, DUF397, Domain of unknown function (DUF397). The function of this family is unknown.	9.18082e-18
NC_009142.1\|WP_009948797.1\|7952738_7953509_-\|DUF2334-domain-containing-protein	gnl\|CDD\|200603	cd11374, CE4_u10, Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily. The family corresponds to a group of uncharacterized bacterial proteins with high sequence similarity to the catalytic domain of the six-stranded barrel rhizobial NodB-like proteins, which remove N-linked or O-linked acetyl groups of cell wall polysaccharides and belong to the larger carbohydrate esterase 4 (CE4) superfamily.	1.00929e-30
NC_009142.1\|WP_011875263.1\|7933611_7934787_-\|S8-family-peptidase	gnl\|CDD\|173790	cd04077, Peptidases_S8_PCSK9_ProteinaseK_like, Peptidase S8 family domain in ProteinaseK-like proteins. The peptidase S8 or Subtilase clan of proteases have a Asp/His/Ser catalytic triad that is not homologous to trypsin. This CD contains several members of this clan including: PCSK9 (Proprotein convertase subtilisin/kexin type 9), Proteinase_K, Proteinase_T, and other subtilisin-like serine proteases. PCSK9 posttranslationally regulates hepatic low-density lipoprotein receptors (LDLRs) by binding to LDLRs on the cell surface, leading to their degradation. The binding site of PCSK9 has been localized to the epidermal growth factor-like repeat A (EGF-A) domain of the LDLR. Characterized Proteinases K are secreted endopeptidases with a high degree of sequence conservation. Proteinases K are not substrate-specific and function in a wide variety of species in different pathways. It can hydrolyze keratin and other proteins with subtilisin-like specificity. The number of calcium-binding motifs found in these differ. Proteinase T is a novel proteinase from the fungus Tritirachium album Limber. The amino acid sequence of proteinase T as deduced from the nucleotide sequence is about 56% identical to that of proteinase K.	1.12576e-115
NC_009142.1\|WP_011875266.1\|7950436_7951438_+\|epimerase	gnl\|CDD\|187575	cd05265, SDR_a1, atypical (a) SDRs, subgroup 1. Atypical SDRs in this subgroup are poorly defined and have been identified putatively as isoflavones reductase, sugar dehydratase, mRNA binding protein etc. Atypical SDRs are distinct from classical SDRs. Members of this subgroup retain the canonical active site triad (though not the upstream Asn found in most SDRs) but have an unusual putative glycine-rich NAD(P)-binding motif, GGXXXXG, in the usual location. Atypical SDRs generally lack the catalytic residues characteristic of the SDRs, and their glycine-rich NAD(P)-binding motif is often different from the forms normally seen in classical or extended SDRs. Atypical SDRs include biliverdin IX beta reductase (BVR-B,aka flavin reductase), NMRa (a negative transcriptional regulator of various fungi), progesterone 5-beta-reductase like proteins, phenylcoumaran benzylic ether and pinoresinol-lariciresinol reductases, phenylpropene synthases, eugenol synthase, triphenylmethane reductase, isoflavone reductases, and others. SDRs are a functionally diverse family of oxidoreductases that have a single domain with a structurally conserved Rossmann fold, an NAD(P)(H)-binding region, and a structurally diverse C-terminal region. Sequence identity between different SDR enzymes is typically in the 15-30% range; they catalyze a wide range of activities including the metabolism of steroids, cofactors, carbohydrates, lipids, aromatic compounds, and amino acids, and act in redox sensing. Classical SDRs have an TGXXX[AG]XG cofactor binding motif and a YXXXK active site motif, with the Tyr residue of the active site motif serving as a critical catalytic residue (Tyr-151, human 15-hydroxyprostaglandin dehydrogenase numbering). In addition to the Tyr and Lys, there is often an upstream Ser and/or an Asn, contributing to the active site; while substrate binding is in the C-terminal region, which determines specificity. The standard reaction mechanism is a 4-pro-S hydride transfer and proton relay involving the conserved Tyr and Lys, a water molecule stabilized by Asn, and nicotinamide. In addition to the Rossmann fold core region typical of all SDRs, extended SDRs have a less conserved C-terminal extension of approximately 100 amino acids, and typically have a TGXXGXXG cofactor binding motif. Complex (multidomain) SDRs such as ketoreductase domains of fatty acid synthase have a GGXGXXG NAD(P)-binding motif and an altered active site motif (YXXXN). Fungal type ketoacyl reductases have a TGXXXGX(1-2)G NAD(P)-binding motif.	1.10697e-50
NC_009142.1\|WP_009948807.1\|7945297_7946344_+\|pentapeptide-repeat-containing-protein	gnl\|CDD\|379274	pfam13576, Pentapeptide_3, Pentapeptide repeats (9 copies).	1.27205e-06
NC_009142.1\|WP_009949154.1\|7931287_7932136_-\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|379262	pfam13560, HTH_31, Helix-turn-helix domain. This domain is a helix-turn-helix domain that probably binds to DNA.	2.8147e-08
NC_009142.1\|WP_009948805.1\|7948660_7949362_-\|phosphoribosylformylglycinamidine-synthase-subunit-PurQ	gnl\|CDD\|235140	PRK03619, PRK03619, phosphoribosylformylglycinamidine synthase subunit PurQ.	1.45763e-142
NC_009142.1\|WP_029621891.1\|7936990_7938871_+\|glucoamylase	gnl\|CDD\|225922	COG3387, SGA1, Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism].	4.40172e-130
NC_009142.1\|WP_009948799.1\|7951511_7952147_+\|MBL-fold-metallo-hydrolase	gnl\|CDD\|225130	COG2220, COG2220, Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only].	7.91434e-24
NC_009142.1\|WP_011875264.1\|7935647_7936232_+\|SseB-family-protein	gnl\|CDD\|377787	pfam07179, SseB, SseB protein N-terminal domain. This family consists of several SseB proteins which appear to be found exclusively in Enterobacteria. SseB is known to enhance serine-sensitivity in Escherichia coli and is part of the Salmonella pathogenicity island 2 (SPI-2) translocon. This entry contains the presumed N-terminal domain of SseB.	0.00160512
NC_009142.1\|WP_009948804.1\|7949358_7949598_-\|phosphoribosylformylglycinamidine-synthase-subunit-PurS	gnl\|CDD\|235659	PRK05974, PRK05974, phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed.	1.90413e-32
NC_009142.1\|WP_009948798.1\|7952218_7952626_-\|hypothetical-protein	gnl\|CDD\|237171	PRK12678, PRK12678, transcription termination factor Rho; Provisional.	0.0011117
NC_009142.1\|WP_009948806.1\|7946372_7948664_-\|phosphoribosylformylglycinamidine-synthase-subunit-PurL	gnl\|CDD\|234921	PRK01213, PRK01213, phosphoribosylformylglycinamidine synthase subunit PurL.	0
NC_009142.1\|WP_009948808.1\|7944112_7945219_-\|hypothetical-protein	gnl\|CDD\|215180	PLN02316, PLN02316, synthase/transferase.	0.00156078
NC_009142.1\|WP_173401330.1\|7939551_7941666_-\|EAL-domain-containing-protein	gnl\|CDD\|236645	PRK10060, PRK10060, cyclic di-GMP phosphodiesterase.	6.25711e-108
NC_009142.1\|WP_031334201.1\|7942142_7942982_+\|lysozyme	gnl\|CDD\|119374	cd06412, GH25_CH-type, CH-type (Chalaropsis-type) lysozymes represent one of four functionally-defined classes of peptidoglycan hydrolases (also referred to as endo-N-acetylmuramidases) that cleave bacterial cell wall peptidoglycans. CH-type lysozymes exhibit both lysozyme (acetylmuramidase) and diacetylmuramidase activity. The first member of this family to be described was a muramidase from the fungus Chalaropsis. However, a majority of the CH-type lysozymes are found in bacteriophages and Gram-positive bacteria such as Streptomyces and Clostridium. CH-type lysozymes have a single glycosyl hydrolase family 25 (GH25) domain with an unusual beta/alpha-barrel fold in which the last strand of the barrel is antiparallel to strands beta7 and beta1. Most CH-type lysozymes appear to lack the cell wall-binding domain found in other GH25 muramidases.	1.44524e-107

>NC_009142.1|WP_031334201.1|7942142_7942982_+|lysozyme
MNHPSGRGRKRRLISLLSVACASALLFGAPAHATATPPPGTERPMSNQADDAEMGSQIRKHEGGDPEAAPQDVDAQATVAGIDVSGHQRNVDWQYWWNQGKRFAYVKATEGTGYKNPYFAQQYNGSYNIGMIRGAYHFALPDRSSGAAQANYFVDNGGGWSKDGKTLPGALDMEYNPYGGTCYGKTPAQMTAWIKDFSDTYHARTGRWPVIYTSTSWWSSCVNGDFSSTNPLWVARYASTVGKLPYNWGFHTIWQYTSSPIDQNSFNGGYDRLQALANG
>NC_009142.1|WP_173401330.1|7939551_7941666_-|EAL-domain-containing-protein
MRRADRRRYASAWAQALMGTSYVPMTSAEVEGRLCGYTDRLVDALLSEPFDAAPARDVGVDLVGVHFTSAESLARTVDLIGANLLRTLKLGPGPDWDCRIAALQGAVCSGFVQAVRKRTLDEQEAIRQAVLDARDSVEQALRTSEARFRAIFTEAAIGIGIADMSGRILEVNASLRRILGRPAEKLRGSMVNDWIHPADNAGIWRLYEEMVRGERDQYRVEKKFSRPDGGTVWTEMIVSLVRGEDGLPLYQVAMIEDVTDRRLLQERLRHQAMHDPLTGLPNRALFLEKLGVALENHGPGERVALCYMDLDGFKVINDSLGHHVGDDLLIAVSERLALSARGENRLVARMGGDEFVILVQDSPGTEQAIEVADRVLDALVEPVRIGGHELSVSASIGIVERPVRGQTAAELMRDADVTLYWAKAEGKGQWALFDPDRNATEVAQFRLSAKMPAALDSEEFYVEYQPLIGLRDFGVVGVEALVRWWHPELGRLGPDRFIGLAEETGLIVPLGRWVLRQACRQARQWQDEFGDAAPFVSVNLAVRQSRDPNLVDDVAAILRETGLEPSRLQLELTESAIMGTADEPLDALRALSRMGVRIAIDDFGTGYSNLAYLRHLPVHELKIAGSFMEGLRDAERADPVDARIVGTLVDLAHALGLTVTAEGVETHAQARRVADIGCETGQGYFFARPCSPERINAIIADHLA
>NC_009142.1|WP_029621891.1|7936990_7938871_+|glucoamylase
MDTDRGGPGLIEDYALLSDLRTAALVGRDGSVDWLCLPRFDWPSCFARLLGADHDGHWQIAPVAPVRRVERRYRENSLVLETDFHTDNGVVRVVDSMPPHEKNHDDQPCLVRMVEGVSGEVAVRMRWVVRFAYGDTTPWVRRVRETDPVLDEYILAVAGPHTVVLRGDDLPRRVPHQRAHEAVCTVRAGERKSWVMQWSPDPDELPAPMDPEQETRDSEDFWRTWTRKITYCGPHRDAVYRSLATLKALTYAPTGGIVAAPTASLPETLGGDRNWDYRFCWLRDATFVLLALDNFGCQMEAGDWRRWLVRATAGDPRELQIMYGVGGERHLLEWEADWLPGYQGAAPVRIGNAAHRQRQLDVYGEVMDALHLARERGLTETPESWAVQRGMMRHLEQIWRAPDRGLWEVRGPERYFTHSQVMVWVAFDRAVRAIEEDGLPGPLDRWRGIRDTVRAEVLEHGWNDDVGAFTQYYGGRTLDAATLLLPAVGFLPADDERMRSTVRAIQRELQPGGLLVERYSTSDDTSVVGVDGLTGREGAFLACSFWLVDALALGGRRDEAEEMFSKLVALANDVGLYAEEYDVRSGRFVGNFPQAFTHVALVNSAAVLYGGHARHEASRRDGRGDR
>NC_009142.1|WP_011875264.1|7935647_7936232_+|SseB-family-protein
MSQQPQRPAPPPITDQMREEARQTPGTWLYIVDPGYQESGDEVPPEGVIGAYRIDDSGEIDEDFQFNDEYVPSEMAVSLPEPTNDLEQVLHRIATGQAPESDLPPAVLDAEILLYAEEGEDDAIFAAEMDDGSQLVPACTSESRVPRSWPGFRRVPGADLPEVLSGLDLGLNVDDAIRAIIPHSVLVQAAAERG
>NC_009142.1|WP_009949148.1|7935036_7935450_-|PRC-barrel-domain-containing-protein
MIGQREALRLFGCEVFDPDGHRIGIVGQLFLDDFTEQPAWITVQTGLFGTNESFVPLEAAAFDGDTLTVAVTKDAVRQAPRVALDEGDLPPDQERALYLYYGVTYGVTPESPDEEPEVSAEYVEAVRLRLRRWVAAS
>NC_009142.1|WP_011875263.1|7933611_7934787_-|S8-family-peptidase
MKKLLYGTGASVAAAALVFAAAPAGAAPQPELAPLTEHPHAAAAGADADTYIVNLKDGIAPQGVDRELGVQARSVYTKTINGFSAKLSKEQLQKVRESGKVQNVSQSFRIQVQPSTKAPAIGSWGIDRIDQPELPLDDKYEPKGTGEGVTAFILDTGIDPSHPDFGGRASVGFDATGGNGQDGHGHGTHVAGTIGSNTYGVAKGAKLVGVKVLDDQGSGTTEQIIKGMDWVAQNSNGPSVANMSLGGSKDPALDEAATNLVNDGVFLAVAAGNESQDAANVSPASAEGVFTTAASGQDDTSADFTNFGKVVEGYAPGVDIVSTVPGGGTETMSGTSMASPHMAGVGALFLQANPDAKPADVITGLQGQAAKGVVKNAPQDTIADLLQIGEL
>NC_009142.1|WP_009949152.1|7932507_7933311_-|LuxR-family-transcriptional-regulator
MLPGYTEALERTQADGRETRDSSVTERAVQAQVEAREAVASVAKAAKAQSGSGGVLQVVNGAKRVGWAAYELQRNASHLVQGVAKPPYITTGPLDSLESRKLAEGVEFQVLYDRSALARPPQLEITSKLVALGEQARVIHVAPTKLIVVDNEIALLPLTASETSVESAVVIRSSAMLGALARIFEDLWRFAAPFSADQDPMIGDNQPSEEERWILSLLASGATDDTIGRLMGFSARTAHRRVRELIARLGVETRFQAGMQAVKLGWL
>NC_009142.1|WP_009949153.1|7932268_7932460_+|hypothetical-protein
MGAWAMIDRCPIDYNVCKDVIELRVGDGGDVLELTATESGLANLVAKATEALGAFRAAQVAGT
>NC_009142.1|WP_009949154.1|7931287_7932136_-|helix-turn-helix-domain-containing-protein
MAARTDPAALRWLVGIELRHFRSRARISAAAAGKEIRTNQSKIAHMESGRYRQKPDEVAVLLKLYGAPQSEVDRVVAIASQDDGPAWWEPWRKVVSDDFGIFLGLEGMAEREFRYDPMGVPALFQTEAYAMAVTALSHRVSIDRQDMVVELRMERQRRLFEEEPLKVHAVIEESVLRRVAGDATAMRDQLERLIYLGELPNVTINVLPTARGIRAAMFGDFNLLSLPSGREVVYLESLYGSEYVYDRDAVRGYNLMVNSVQADMLDEQESVDLIKSVMAEAT
>NC_009142.1|WP_009949155.1|7931072_7931273_-|DUF397-domain-containing-protein
MKATDLPGASWRKSSRSGDNFNCVEVARSGSVVGIRDSKDPGGDVLAVSASAFRSFVAGLRSGRVR
>NC_009142.1|WP_009948808.1|7944112_7945219_-|hypothetical-protein
MRTLFDGEVHVHYGQIYVQSEIGALTLEEHRAGQSNGLCGAAVPGQLFLTTGLHTGHVGFTVEVHDERPDVDEAWEEAVEASFRPLSPEVALVEWGGEAAWSLDLEEIDYRVRYCAVAMDESRRVDTRTDGEPMVDRYLLQFWPAPPGPDAVVKQTSVTAEYWHQVARSLPPPPTPEEKAEAERERRLEEERRREEVRARAEAESWAGRAPSERLRQAGGHAWAMAQLDRDLVDEIADLDADAQRSLARWAVRRAYELAGLDGIDWIAPALAALEQGRELPPPFDDKLGVWEVLLNDPRVPHTTVTLPDRSTENFLQQAAALPAIFGATEDDPLSAAFEALHSAAGAFGTDYPDLFAEVRREFTRRTP
>NC_009142.1|WP_009948807.1|7945297_7946344_+|pentapeptide-repeat-containing-protein
MGERGAGLVVTIALAVLALVGVSAALLVLDPRTTGADALRTGGLAAGSIVALYALWLNDRRRRVEEQRQDVERQRQELETRRTDLDRDRVSDERFARAVELLGSEADQVRVGALHALAGLARSNPSYTQTVLDVLCSYLRRPFLHPRYGDAPAKPDDDGGWPGPATANAERKLQVRLSAQRIIADLLPEAGDAEAPRYDLDLTGATLEYFDLSDRRMGTLVLRYARLFSSSNLSRCVVTGPAWFTGMTTGSGRLSSRFRCAETEFQDRAWFSKVHFHGRAEFDGTTFRGRAKFADSTVEGSLSMTGCAFADDANFKAVRFAGHVDLAGTTWQGEVPELGETRESSAPQ
>NC_009142.1|WP_009948806.1|7946372_7948664_-|phosphoribosylformylglycinamidine-synthase-subunit-PurL
MTDTDLHVDSVQHAKSTPETPQPYAELGLKDDEYARIREILGRRPTDAELAMYSVMWSEHCSYKSSKVHLKYFGETTTAEMKAKMLAGIGENAGVVDIGDGWAVTFKLESHNHPSYVEPYQGAATGVGGIVRDIMAMGARPVAVADPLRFGPADAPDTKRVLPGVVAGVGGYGNCLGLPNIGGEVVFDESYASNPLVNAMCVGVMKTEDLHLAHASGTGNKIILFGARTGLDGIGGVSVLASETFEGDESGAGRKKLPSVQVGDPFAEKVLIECCLELYHSGLVVGIQDLGGAGLSCATSELASAGDGGMRVDLDQVPLRAKGMNPAEILSSESQERMCAVVKPSDVDAFMDVCAKWDVTATVIGEVTEGENLEIYWHDELVVDVPPRTVAHQGPVYERPVERPAEQDLIAADSAATLARPSTPDELRQTVLRMAASPNLCSRAWVTDQYDRYVRGNTVLAQPSDGGVLRIDEETGRGIAVSTDCNARYTRLDPYAGAQLALAEAYRNVATTGATPLAVTNCLNFGSPEDPGVMWQFQEAVRGLADGCRELGIPVTGGNVSFYNQTGSKPILPTPVVGVLGTIDDVTRRIPTGIGGEQGETLILLGETREEFGGSEWAKVVHDHLGGTPPQVDLAREKLLAEVLVAGSRDGMISAAHDLSEGGLAQALVETALIGETGARVVLPEDADPFVWLFSESAGRVLVAVPRSEELRFTEMCSARSLPWAKVGVADAGSKSLEIQDIADIPLAELREAWEGTLPKLFG
>NC_009142.1|WP_009948805.1|7948660_7949362_-|phosphoribosylformylglycinamidine-synthase-subunit-PurQ
MSPAEGAGTGARVGVVTFPGTLDDVDAQRAVRRAGAEAVPLWHGDHDLRGVDAVVVPGGFSYGDYLRCGAIAKFAPVMTEIVSAAGKGMPVLGVCNGFQVLCEAGLLPGVLTRNEGLHYVCRDQWLKVENNTSAWTARYERGAELLIPVKHGEGNYVADEAVLDELEGEGRVLFRYAGENPNGSRRGIAGITDARGRVAGMMPHPEHAIDPLTGPTDDGLGMFLSVLDALVAA
>NC_009142.1|WP_009948804.1|7949358_7949598_-|phosphoribosylformylglycinamidine-synthase-subunit-PurS
MARVVVDVMPKQEILDPQGQAVANALPRLGFEGISEVRQGKRFELEVADSVDDATLARIAETLLANPVIEDFAVRRVEA
>NC_009142.1|WP_009948803.1|7949891_7950314_+|hypothetical-protein
MRKPTVLVTAALACGLAFAPATPMLAAPALAAQATAPAAAVRPAGQPGLTADLSVVRAGNTLHLDLDHGQEAVSWISSPAFVRDAEHPMGADEGVARIVGDHDGHASAVATIADVPPGVYEVHTRVGGGVGPSTTITVVE
>NC_009142.1|WP_011875266.1|7950436_7951438_+|epimerase
MRLLVLGGTEFLSQAVAADGVRRGHDVVCAARGVTGPVPEGARLVKVDRDAPGSVDVLAGERFDAVVDVAKMSYPWVRDALAAVGATAGHWTFVSTVNVYADTATATDELLEPLAEPPAEIPDDKLAEVYGAIKVASENAVRDAVGDRAFIVRPGLITGARDATDRFGYWVARFARGGRVLVPDEPAQPIQHVDVVALAKWIVDSAEQRTTGTFDATGPVLELGDLLREVAALVAPEGTELAAVAPADLTGAGVNPWSGPKSLPFWAPKTHYGVVTRDASAAWGAGLGIRPLGGTVQDALDTERRLGTDRERKAGLTPGQEAALLADLPQRAW
>NC_009142.1|WP_009948799.1|7951511_7952147_+|MBL-fold-metallo-hydrolase
MQITHFGHSCVLLETGSARLLLDPGTFSSGFEDLRDLDGVLITHQHPDHLDFDRVPALLEHNPHARFIADHGSAEIAESKGFGVTTAAPGDTLSFGATTVDVVGGKHAVIHPDLPLVDNIGYLVDGGAFYHPGDSFHVPQQRVDVLGLPTGAPWLKLSESVDFLRAVGPRVAVPIHEAVLARPEMHYRMFEQLGPEDTTVNVLDREVPTRF
>NC_009142.1|WP_009948798.1|7952218_7952626_-|hypothetical-protein
MRIRNTKRAWLVATAVTAAVGVGGAGVALAGETGAPPAPPQQQVPGQPGAVVPGQVPAAVPCVDDDRDDRFDDRDDRFDGRFDNDADDRFDDCDDRFDDDRFDNPADDHDDRFDDPADDRDDHHDDADDVAGRDD
>NC_009142.1|WP_009948797.1|7952738_7953509_-|DUF2334-domain-containing-protein
MSMPLVVSLSGLDHRVLDQCADFAAEMDRRRVPLSLLFAPRPGTDEQLLDWIRHRRRGRDTVELHGFGRGETAMGVLSRLGRPAATLRRAEFATIPAHEAGLRLLPALALLDRLGLRTDTFVPPRWFASPGTLMALRRHGFAVCADALAVRELEAGHAHRARVHSLGSGERAEPWWCRALVLGVGRAARRGRMVRIAVDAADLRRSGPRQAVLDAVDLALHHGAQPTTYASYAGPVRIPRPREPRHRSRNTDPLSS

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity
NC_009142_17	17.1\|7106465\|31\|NC_009142\|CRISPRCasFinder	7106465-7106495	31	NC_009142.1	1071542-1071572	1	0.968
NC_009142_5	5.1\|1893412\|19\|NC_009142\|CRISPRCasFinder	1893412-1893430	19	NC_009142.1	3790111-3790129	2	0.895

1. spacer 17.1|7106465|31|NC_009142|CRISPRCasFinder matches to position: 1071542-1071572, mismatch: 1, identity: 0.968

tcaaagcgacccgccagccccgccggatgcg	CRISPR spacer
tcaaagcgacccgccagccccgctggatgcg	Protospacer
***********************.*******

2. spacer 5.1|1893412|19|NC_009142|CRISPRCasFinder matches to position: 3790111-3790129, mismatch: 2, identity: 0.895

cgtgcggtgcggctgacgt	CRISPR spacer
cgtgcggtgcgcctggcgt	Protospacer
*********** ***.***

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_009142_1	1.7\|329773\|22\|NC_009142\|CRT	329773-329794	22	NZ_CP015867	Streptomyces parvulus strain 2297 plasmid pSPA1, complete sequence	540627-540648	1	0.955
NC_009142_1	1.2\|329509\|25\|NC_009142\|CRT	329509-329533	25	NZ_CP032322	Azospirillum brasilense strain MTCC4035 plasmid p1, complete sequence	266767-266791	2	0.92
NC_009142_1	1.2\|329509\|25\|NC_009142\|CRT	329509-329533	25	NZ_CP032346	Azospirillum brasilense strain MTCC4039 plasmid p1, complete sequence	210883-210907	2	0.92
NC_009142_1	1.4\|329605\|25\|NC_009142\|CRT	329605-329629	25	NZ_CP032322	Azospirillum brasilense strain MTCC4035 plasmid p1, complete sequence	266767-266791	2	0.92
NC_009142_1	1.4\|329605\|25\|NC_009142\|CRT	329605-329629	25	NZ_CP032346	Azospirillum brasilense strain MTCC4039 plasmid p1, complete sequence	210883-210907	2	0.92
NC_009142_1	1.7\|329773\|22\|NC_009142\|CRT	329773-329794	22	NZ_LR134452	Tsukamurella tyrosinosolvens strain NCTC13231 plasmid 10, complete sequence	25631-25652	2	0.909
NC_009142_1	1.7\|329773\|22\|NC_009142\|CRT	329773-329794	22	NZ_AP022593	Mycolicibacterium arabiense strain JCM 18538 plasmid pJCM18538, complete sequence	3072671-3072692	2	0.909
NC_009142_1	1.2\|329509\|25\|NC_009142\|CRT	329509-329533	25	NZ_CP022367	Azospirillum sp. TSH58 plasmid TSH58_p02, complete sequence	1698917-1698941	3	0.88
NC_009142_1	1.2\|329509\|25\|NC_009142\|CRT	329509-329533	25	MH727548	Mycobacterium phage Galactic, complete genome	43107-43131	3	0.88
NC_009142_1	1.2\|329509\|25\|NC_009142\|CRT	329509-329533	25	NZ_CP007794	Azospirillum brasilense strain Az39 plasmid AbAZ39_p1, complete sequence	858477-858501	3	0.88
NC_009142_1	1.4\|329605\|25\|NC_009142\|CRT	329605-329629	25	NZ_CP022367	Azospirillum sp. TSH58 plasmid TSH58_p02, complete sequence	1698917-1698941	3	0.88
NC_009142_1	1.4\|329605\|25\|NC_009142\|CRT	329605-329629	25	MH727548	Mycobacterium phage Galactic, complete genome	43107-43131	3	0.88
NC_009142_1	1.4\|329605\|25\|NC_009142\|CRT	329605-329629	25	NZ_CP007794	Azospirillum brasilense strain Az39 plasmid AbAZ39_p1, complete sequence	858477-858501	3	0.88
NC_009142_1	1.2\|329509\|25\|NC_009142\|CRT	329509-329533	25	NZ_CP013855	Pseudonocardia sp. HH130630-07 plasmid pLS2-1, complete sequence	211686-211710	4	0.84
NC_009142_1	1.2\|329509\|25\|NC_009142\|CRT	329509-329533	25	CP054927	Streptomyces fulvissimus strain NA06532 plasmid unnamed1, complete sequence	495706-495730	4	0.84
NC_009142_1	1.4\|329605\|25\|NC_009142\|CRT	329605-329629	25	NZ_CP013855	Pseudonocardia sp. HH130630-07 plasmid pLS2-1, complete sequence	211686-211710	4	0.84
NC_009142_1	1.4\|329605\|25\|NC_009142\|CRT	329605-329629	25	CP054927	Streptomyces fulvissimus strain NA06532 plasmid unnamed1, complete sequence	495706-495730	4	0.84
NC_009142_1	1.1\|329458\|25\|NC_009142\|CRT	329458-329482	25	NZ_CP032346	Azospirillum brasilense strain MTCC4039 plasmid p1, complete sequence	1563883-1563907	5	0.8
NC_009142_3	3.1\|1314766\|25\|NC_009142\|CRISPRCasFinder	1314766-1314790	25	MH593831	Podoviridae sp. isolate ctdb7, complete genome	22631-22655	5	0.8
NC_009142_16	16.1\|6962966\|26\|NC_009142\|CRISPRCasFinder	6962966-6962991	26	MN694114	Marine virus AFVG_250M252, complete genome	35088-35113	5	0.808
NC_009142_17	17.1\|7106465\|31\|NC_009142\|CRISPRCasFinder	7106465-7106495	31	NC_014309	Ralstonia solanacearum CFBP2957 plasmid RCFBPv3_mp, complete genome	713715-713745	5	0.839
NC_009142_10	10.6\|5687932\|36\|NC_009142\|CRISPRCasFinder,CRT,PILER-CR	5687932-5687967	36	NZ_CP013917	Sphingomonas sp. LK11 plasmid unnamed2, complete sequence	35198-35233	6	0.833
NC_009142_10	10.6\|5687932\|36\|NC_009142\|CRISPRCasFinder,CRT,PILER-CR	5687932-5687967	36	NZ_CP009573	Sphingomonas taxi strain ATCC 55669 plasmid STP2, complete sequence	37345-37380	6	0.833
NC_009142_10	10.12\|5688371\|36\|NC_009142\|CRISPRCasFinder,CRT,PILER-CR	5688371-5688406	36	NZ_CP013917	Sphingomonas sp. LK11 plasmid unnamed2, complete sequence	35198-35233	6	0.833
NC_009142_10	10.12\|5688371\|36\|NC_009142\|CRISPRCasFinder,CRT,PILER-CR	5688371-5688406	36	NZ_CP009573	Sphingomonas taxi strain ATCC 55669 plasmid STP2, complete sequence	37345-37380	6	0.833
NC_009142_11	11.1\|5694089\|32\|NC_009142\|PILER-CR	5694089-5694120	32	NZ_CP017076	Novosphingobium resinovorum strain SA1 plasmid pSA1, complete sequence	728494-728525	6	0.812
NC_009142_17	17.1\|7106465\|31\|NC_009142\|CRISPRCasFinder	7106465-7106495	31	NZ_CP049031	Fluviibacterium aquatile strain SC52 plasmid pSC52_3, complete sequence	146864-146894	7	0.774
NC_009142_17	17.1\|7106465\|31\|NC_009142\|CRISPRCasFinder	7106465-7106495	31	NZ_AP022593	Mycolicibacterium arabiense strain JCM 18538 plasmid pJCM18538, complete sequence	3924072-3924102	7	0.774
NC_009142_17	17.1\|7106465\|31\|NC_009142\|CRISPRCasFinder	7106465-7106495	31	MN234215	Gordonia phage SteamedHams, complete genome	23092-23122	7	0.774
NC_009142_17	17.1\|7106465\|31\|NC_009142\|CRISPRCasFinder	7106465-7106495	31	NZ_AP022320	Burkholderia sp. THE68 plasmid BTHE68_p2, complete sequence	165311-165341	7	0.774
NC_009142_17	17.1\|7106465\|31\|NC_009142\|CRISPRCasFinder	7106465-7106495	31	NC_004808	Streptomyces rochei plasmid pSLA2-L DNA, complete sequence	128976-129006	7	0.774
NC_009142_15	15.1\|6477271\|35\|NC_009142\|CRISPRCasFinder	6477271-6477305	35	NZ_CP009453	Sphingopyxis sp. 113P3 plasmid unnamed, complete sequence	191523-191557	8	0.771
NC_009142_17	17.1\|7106465\|31\|NC_009142\|CRISPRCasFinder	7106465-7106495	31	LC155906	Achromobacter xylosoxidans plasmid pKUN4507_1 DNA, complete sequence, strain: KUN4507	6350-6380	8	0.742
NC_009142_7	7.2\|2468030\|34\|NC_009142\|CRISPRCasFinder	2468030-2468063	34	NZ_CP011771	Croceicoccus naphthovorans strain PQ-2 plasmid p1, complete sequence	136501-136534	9	0.735
NC_009142_7	7.2\|2468030\|34\|NC_009142\|CRISPRCasFinder	2468030-2468063	34	NZ_CP027859	Streptomyces clavuligerus strain ATCC 27064 plasmid pCLA1, complete sequence	933811-933844	9	0.735
NC_009142_7	7.2\|2468030\|34\|NC_009142\|CRISPRCasFinder	2468030-2468063	34	NZ_CP032054	Streptomyces clavuligerus strain F1D-5 plasmid pSCL1, complete sequence	535571-535604	9	0.735
NC_009142_7	7.2\|2468030\|34\|NC_009142\|CRISPRCasFinder	2468030-2468063	34	NZ_CP016560	Streptomyces clavuligerus strain F613-1 plasmid pSCL4, complete sequence	192827-192860	9	0.735
NC_009142_10	10.1\|5687566\|37\|NC_009142\|CRISPRCasFinder,CRT	5687566-5687602	37	NZ_CP029357	Azospirillum sp. CFH 70021 plasmid unnamed2	314777-314813	9	0.757
NC_009142_10	10.2\|5687639\|37\|NC_009142\|CRISPRCasFinder,CRT	5687639-5687675	37	NZ_CP029357	Azospirillum sp. CFH 70021 plasmid unnamed2	314777-314813	9	0.757
NC_009142_17	17.2\|7106520\|31\|NC_009142\|CRISPRCasFinder	7106520-7106550	31	NZ_CP021127	Rhizobium sp. Kim5 plasmid pRetKim5c, complete sequence	611524-611554	9	0.71
NC_009142_7	7.2\|2468030\|34\|NC_009142\|CRISPRCasFinder	2468030-2468063	34	NZ_AP014705	Methylobacterium aquaticum strain MA-22A plasmid pMaq22A_1p, complete sequence	90155-90188	10	0.706
NC_009142_11	11.7\|5694300\|37\|NC_009142\|CRISPRCasFinder,CRT	5694300-5694336	37	GU911304	Burkholderia phage KL3, complete genome	15077-15113	10	0.73
NC_009142_12	12.3\|5697573\|35\|NC_009142\|CRISPRCasFinder	5697573-5697607	35	NZ_AP022593	Mycolicibacterium arabiense strain JCM 18538 plasmid pJCM18538, complete sequence	4867329-4867363	10	0.714
NC_009142_13	13.2\|5966672\|34\|NC_009142\|CRISPRCasFinder	5966672-5966705	34	NZ_CP014169	Sphingomonas panacis strain DCY99 plasmid unnamed, complete sequence	311186-311219	10	0.706
NC_009142_11	11.1\|5694089\|32\|NC_009142\|PILER-CR	5694089-5694120	32	NC_008712	Paenarthrobacter aurescens TC1 plasmid pTC1, complete sequence	268566-268597	11	0.656
NC_009142_13	13.2\|5966672\|34\|NC_009142\|CRISPRCasFinder	5966672-5966705	34	NC_010625	Paraburkholderia phymatum STM815 plasmid pBPHY01, complete sequence	1796351-1796384	11	0.676
NC_009142_13	13.3\|5966729\|40\|NC_009142\|CRISPRCasFinder	5966729-5966768	40	NC_013855	Azospirillum sp. B510 plasmid pAB510a, complete sequence	124056-124095	11	0.725

1. spacer 1.7|329773|22|NC_009142|CRT matches to NZ_CP015867 (Streptomyces parvulus strain 2297 plasmid pSPA1, complete sequence) position: , mismatch: 1, identity: 0.955

ggcgatctccgacccggccgcg	CRISPR spacer
ggcgatctccgagccggccgcg	Protospacer
************ *********

2. spacer 1.2|329509|25|NC_009142|CRT matches to NZ_CP032322 (Azospirillum brasilense strain MTCC4035 plasmid p1, complete sequence) position: , mismatch: 2, identity: 0.92

caccgtgggtggcgtggccggtggc	CRISPR spacer
ccccgtggctggcgtggccggtggc	Protospacer
* ****** ****************

3. spacer 1.2|329509|25|NC_009142|CRT matches to NZ_CP032346 (Azospirillum brasilense strain MTCC4039 plasmid p1, complete sequence) position: , mismatch: 2, identity: 0.92

caccgtgggtggcgtggccggtggc	CRISPR spacer
ccccgtggctggcgtggccggtggc	Protospacer
* ****** ****************

4. spacer 1.4|329605|25|NC_009142|CRT matches to NZ_CP032322 (Azospirillum brasilense strain MTCC4035 plasmid p1, complete sequence) position: , mismatch: 2, identity: 0.92

caccgtgggtggcgtggccggtggc	CRISPR spacer
ccccgtggctggcgtggccggtggc	Protospacer
* ****** ****************

5. spacer 1.4|329605|25|NC_009142|CRT matches to NZ_CP032346 (Azospirillum brasilense strain MTCC4039 plasmid p1, complete sequence) position: , mismatch: 2, identity: 0.92

caccgtgggtggcgtggccggtggc	CRISPR spacer
ccccgtggctggcgtggccggtggc	Protospacer
* ****** ****************

6. spacer 1.7|329773|22|NC_009142|CRT matches to NZ_LR134452 (Tsukamurella tyrosinosolvens strain NCTC13231 plasmid 10, complete sequence) position: , mismatch: 2, identity: 0.909

ggcgatctccgacccggccgcg	CRISPR spacer
cgcgctctccgacccggccgcg	Protospacer
 *** *****************

7. spacer 1.7|329773|22|NC_009142|CRT matches to NZ_AP022593 (Mycolicibacterium arabiense strain JCM 18538 plasmid pJCM18538, complete sequence) position: , mismatch: 2, identity: 0.909

ggcgatctccgacccggccgcg	CRISPR spacer
ggtgatctccgacccggccgca	Protospacer
**.******************.

8. spacer 1.2|329509|25|NC_009142|CRT matches to NZ_CP022367 (Azospirillum sp. TSH58 plasmid TSH58_p02, complete sequence) position: , mismatch: 3, identity: 0.88

caccgtgggtggcgtggccggtggc	CRISPR spacer
cgccgtggctggcgtgcccggtggc	Protospacer
*.****** ******* ********

9. spacer 1.2|329509|25|NC_009142|CRT matches to MH727548 (Mycobacterium phage Galactic, complete genome) position: , mismatch: 3, identity: 0.88

caccgtgggtggcgtggccggtggc	CRISPR spacer
caccgtgtgtggcgtggtcggtgac	Protospacer
******* *********.*****.*

10. spacer 1.2|329509|25|NC_009142|CRT matches to NZ_CP007794 (Azospirillum brasilense strain Az39 plasmid AbAZ39_p1, complete sequence) position: , mismatch: 3, identity: 0.88

caccgtgggtggcgtggccggtggc	CRISPR spacer
cgccgtggctggcgtggccggtcgc	Protospacer
*.****** ************* **

11. spacer 1.4|329605|25|NC_009142|CRT matches to NZ_CP022367 (Azospirillum sp. TSH58 plasmid TSH58_p02, complete sequence) position: , mismatch: 3, identity: 0.88

caccgtgggtggcgtggccggtggc	CRISPR spacer
cgccgtggctggcgtgcccggtggc	Protospacer
*.****** ******* ********

12. spacer 1.4|329605|25|NC_009142|CRT matches to MH727548 (Mycobacterium phage Galactic, complete genome) position: , mismatch: 3, identity: 0.88

caccgtgggtggcgtggccggtggc	CRISPR spacer
caccgtgtgtggcgtggtcggtgac	Protospacer
******* *********.*****.*

13. spacer 1.4|329605|25|NC_009142|CRT matches to NZ_CP007794 (Azospirillum brasilense strain Az39 plasmid AbAZ39_p1, complete sequence) position: , mismatch: 3, identity: 0.88

caccgtgggtggcgtggccggtggc	CRISPR spacer
cgccgtggctggcgtggccggtcgc	Protospacer
*.****** ************* **

14. spacer 1.2|329509|25|NC_009142|CRT matches to NZ_CP013855 (Pseudonocardia sp. HH130630-07 plasmid pLS2-1, complete sequence) position: , mismatch: 4, identity: 0.84

caccgtgggtggcgtggccggtggc	CRISPR spacer
agccgtgggtggcgtgtccggtggg	Protospacer
 .************** *******

15. spacer 1.2|329509|25|NC_009142|CRT matches to CP054927 (Streptomyces fulvissimus strain NA06532 plasmid unnamed1, complete sequence) position: , mismatch: 4, identity: 0.84

caccgtgggtggcgtggccggtggc	CRISPR spacer
gtccgtgggtggcgcgggcggtggc	Protospacer
  ************.** *******

16. spacer 1.4|329605|25|NC_009142|CRT matches to NZ_CP013855 (Pseudonocardia sp. HH130630-07 plasmid pLS2-1, complete sequence) position: , mismatch: 4, identity: 0.84

caccgtgggtggcgtggccggtggc	CRISPR spacer
agccgtgggtggcgtgtccggtggg	Protospacer
 .************** *******

17. spacer 1.4|329605|25|NC_009142|CRT matches to CP054927 (Streptomyces fulvissimus strain NA06532 plasmid unnamed1, complete sequence) position: , mismatch: 4, identity: 0.84

caccgtgggtggcgtggccggtggc	CRISPR spacer
gtccgtgggtggcgcgggcggtggc	Protospacer
  ************.** *******

18. spacer 1.1|329458|25|NC_009142|CRT matches to NZ_CP032346 (Azospirillum brasilense strain MTCC4039 plasmid p1, complete sequence) position: , mismatch: 5, identity: 0.8

caacgtgaccggtgtcgcgggcgac	CRISPR spacer
agcggtgaccggtgtcgctggcgac	Protospacer
 .  ************** ******

19. spacer 3.1|1314766|25|NC_009142|CRISPRCasFinder matches to MH593831 (Podoviridae sp. isolate ctdb7, complete genome) position: , mismatch: 5, identity: 0.8

tcgctcatgccgccagcactcatcc	CRISPR spacer
tcgctcatgccgccagcacgccaga	Protospacer
******************* *

20. spacer 16.1|6962966|26|NC_009142|CRISPRCasFinder matches to MN694114 (Marine virus AFVG_250M252, complete genome) position: , mismatch: 5, identity: 0.808

tccgtgcgcccccgcacccaaagcga	CRISPR spacer
accgtgcggccccgcacccatagccc	Protospacer
 ******* *********** ***

21. spacer 17.1|7106465|31|NC_009142|CRISPRCasFinder matches to NC_014309 (Ralstonia solanacearum CFBP2957 plasmid RCFBPv3_mp, complete genome) position: , mismatch: 5, identity: 0.839

tcaaagcgacccgccagccccgccggatgcg-	CRISPR spacer
cgaaagcgacccgcccgcccggccgga-gcgc	Protospacer
. ************* **** ****** ***

22. spacer 10.6|5687932|36|NC_009142|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP013917 (Sphingomonas sp. LK11 plasmid unnamed2, complete sequence) position: , mismatch: 6, identity: 0.833

aggaaccacgcgatcagcgcgccgggcagaccgttc-	CRISPR spacer
aggaaccgctcgatcagcgcgccgggc-gtcggctcg	Protospacer
*******.* ***************** * * *.**

23. spacer 10.6|5687932|36|NC_009142|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP009573 (Sphingomonas taxi strain ATCC 55669 plasmid STP2, complete sequence) position: , mismatch: 6, identity: 0.833

aggaaccacgcgatcagcgcgccgggcagaccgttc-	CRISPR spacer
aggaaccgctcgatcagcgcgccgggc-gtcggctcg	Protospacer
*******.* ***************** * * *.**

24. spacer 10.12|5688371|36|NC_009142|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP013917 (Sphingomonas sp. LK11 plasmid unnamed2, complete sequence) position: , mismatch: 6, identity: 0.833

aggaaccacgcgatcagcgcgccgggcagaccgttc-	CRISPR spacer
aggaaccgctcgatcagcgcgccgggc-gtcggctcg	Protospacer
*******.* ***************** * * *.**

25. spacer 10.12|5688371|36|NC_009142|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP009573 (Sphingomonas taxi strain ATCC 55669 plasmid STP2, complete sequence) position: , mismatch: 6, identity: 0.833

aggaaccacgcgatcagcgcgccgggcagaccgttc-	CRISPR spacer
aggaaccgctcgatcagcgcgccgggc-gtcggctcg	Protospacer
*******.* ***************** * * *.**

26. spacer 11.1|5694089|32|NC_009142|PILER-CR matches to NZ_CP017076 (Novosphingobium resinovorum strain SA1 plasmid pSA1, complete sequence) position: , mismatch: 6, identity: 0.812

tcgtcggtcatggatttgcgcgcttcttcgcg	CRISPR spacer
tcgtcggtcatggatgtgcgcgccttaccgct	Protospacer
*************** *******.*. .***

27. spacer 17.1|7106465|31|NC_009142|CRISPRCasFinder matches to NZ_CP049031 (Fluviibacterium aquatile strain SC52 plasmid pSC52_3, complete sequence) position: , mismatch: 7, identity: 0.774

tcaaagcgacccgccagccccgccggatgcg	CRISPR spacer
ccaaagcgatccgccagccccgcaagtttgg	Protospacer
.********.************* .* *  *

28. spacer 17.1|7106465|31|NC_009142|CRISPRCasFinder matches to NZ_AP022593 (Mycolicibacterium arabiense strain JCM 18538 plasmid pJCM18538, complete sequence) position: , mismatch: 7, identity: 0.774

-tcaaagcgacccgccagccccgccggatgcg	CRISPR spacer
gccgccgc-acccgccggcccggccggatgcg	Protospacer
 .*.  ** *******.**** **********

29. spacer 17.1|7106465|31|NC_009142|CRISPRCasFinder matches to MN234215 (Gordonia phage SteamedHams, complete genome) position: , mismatch: 7, identity: 0.774

tcaaagcgacccgccagccccgccggatgcg	CRISPR spacer
gctaccggccccgccggccccgccggatgcg	Protospacer
 * *   * ******.***************

30. spacer 17.1|7106465|31|NC_009142|CRISPRCasFinder matches to NZ_AP022320 (Burkholderia sp. THE68 plasmid BTHE68_p2, complete sequence) position: , mismatch: 7, identity: 0.774

tcaaagcgacccgccagccccgccgga-tgcg	CRISPR spacer
gtctagcgagccgccagccgcgccggactgc-	Protospacer
 .  ***** ********* ******* ***

31. spacer 17.1|7106465|31|NC_009142|CRISPRCasFinder matches to NC_004808 (Streptomyces rochei plasmid pSLA2-L DNA, complete sequence) position: , mismatch: 7, identity: 0.774

tcaaagcgacccgccagccccgccggatgcg	CRISPR spacer
ccgcagcgacccgctggccccgccggagtcg	Protospacer
.*. **********..***********  **

32. spacer 15.1|6477271|35|NC_009142|CRISPRCasFinder matches to NZ_CP009453 (Sphingopyxis sp. 113P3 plasmid unnamed, complete sequence) position: , mismatch: 8, identity: 0.771

aacagccg--ggcaaccggccgacggacgggcgacaa	CRISPR spacer
--ctgctgaaagcaaccggccggctgacgggcgacac	Protospacer
  * **.*  .***********.* ***********

33. spacer 17.1|7106465|31|NC_009142|CRISPRCasFinder matches to LC155906 (Achromobacter xylosoxidans plasmid pKUN4507_1 DNA, complete sequence, strain: KUN4507) position: , mismatch: 8, identity: 0.742

tcaaagcgacccgccagccccgccggatgcg	CRISPR spacer
tgacgaagaaccgccagccgcgccggatgca	Protospacer
* * .. ** ********* **********.

34. spacer 7.2|2468030|34|NC_009142|CRISPRCasFinder matches to NZ_CP011771 (Croceicoccus naphthovorans strain PQ-2 plasmid p1, complete sequence) position: , mismatch: 9, identity: 0.735

tggtagttgccgctcgacccggtctgcctcgagc	CRISPR spacer
ggccatctgccgctggtcccggtctgcctcgatg	Protospacer
 * .* .******* * ***************

35. spacer 7.2|2468030|34|NC_009142|CRISPRCasFinder matches to NZ_CP027859 (Streptomyces clavuligerus strain ATCC 27064 plasmid pCLA1, complete sequence) position: , mismatch: 9, identity: 0.735

tggtagttgccgctcgacccggtctgcctcgagc	CRISPR spacer
gcggagttgccgctcgacacggtcggccaggtcc	Protospacer
  * ************** ***** ***  *  *

36. spacer 7.2|2468030|34|NC_009142|CRISPRCasFinder matches to NZ_CP032054 (Streptomyces clavuligerus strain F1D-5 plasmid pSCL1, complete sequence) position: , mismatch: 9, identity: 0.735

tggtagttgccgctcgacccggtctgcctcgagc	CRISPR spacer
gcggagttgccgctcgacacggtcggccaggtcc	Protospacer
  * ************** ***** ***  *  *

37. spacer 7.2|2468030|34|NC_009142|CRISPRCasFinder matches to NZ_CP016560 (Streptomyces clavuligerus strain F613-1 plasmid pSCL4, complete sequence) position: , mismatch: 9, identity: 0.735

tggtagttgccgctcgacccggtctgcctcgagc	CRISPR spacer
gcggagttgccgctcgacacggtcggccaggtcc	Protospacer
  * ************** ***** ***  *  *

38. spacer 10.1|5687566|37|NC_009142|CRISPRCasFinder,CRT matches to NZ_CP029357 (Azospirillum sp. CFH 70021 plasmid unnamed2) position: , mismatch: 9, identity: 0.757

ctccagcatcgccgggtccttgaacagcgcctcgatc	CRISPR spacer
gctctgcatcgcctggtccttgatcagcgcctccggc	Protospacer
 ..* ******** ********* ********* . *

39. spacer 10.2|5687639|37|NC_009142|CRISPRCasFinder,CRT matches to NZ_CP029357 (Azospirillum sp. CFH 70021 plasmid unnamed2) position: , mismatch: 9, identity: 0.757

ctccagcatcgccgggtccttgaacagcgcctcgatc	CRISPR spacer
gctctgcatcgcctggtccttgatcagcgcctccggc	Protospacer
 ..* ******** ********* ********* . *

40. spacer 17.2|7106520|31|NC_009142|CRISPRCasFinder matches to NZ_CP021127 (Rhizobium sp. Kim5 plasmid pRetKim5c, complete sequence) position: , mismatch: 9, identity: 0.71

ctaaaggaagccgcaaggccacgccgaccat	CRISPR spacer
gcaaaggaagccgcaaggacactccccacga	Protospacer
 .**************** *** **   *.

41. spacer 7.2|2468030|34|NC_009142|CRISPRCasFinder matches to NZ_AP014705 (Methylobacterium aquaticum strain MA-22A plasmid pMaq22A_1p, complete sequence) position: , mismatch: 10, identity: 0.706

tggtagttgccgctcgacccggtctgcctcgagc	CRISPR spacer
gccgagttgccgcacgacccgggctgccgcttcc	Protospacer
    ********* ******** ***** *   *

42. spacer 11.7|5694300|37|NC_009142|CRISPRCasFinder,CRT matches to GU911304 (Burkholderia phage KL3, complete genome) position: , mismatch: 10, identity: 0.73

cgatgcccttcgtgctggccttgcccagcgcgttcag	CRISPR spacer
gcgtgcccttcgtgccggccttgccaagcgccgcgat	Protospacer
  .************.********* *****  . *

43. spacer 12.3|5697573|35|NC_009142|CRISPRCasFinder matches to NZ_AP022593 (Mycolicibacterium arabiense strain JCM 18538 plasmid pJCM18538, complete sequence) position: , mismatch: 10, identity: 0.714

ccaaaaccctgcgtcgtgcatcaaccagtacccgg	CRISPR spacer
atcgcccgcggcgtcgtgcaccaaccggtacccgg	Protospacer
 . .  * * **********.*****.********

44. spacer 13.2|5966672|34|NC_009142|CRISPRCasFinder matches to NZ_CP014169 (Sphingomonas panacis strain DCY99 plasmid unnamed, complete sequence) position: , mismatch: 10, identity: 0.706

ctcgcccagcgagcaccacgccgagcctcaccgc	CRISPR spacer
ttcgcgcagcgagcaccgcgccgagaagctgcaa	Protospacer
.**** ***********.*******   *  *.

45. spacer 11.1|5694089|32|NC_009142|PILER-CR matches to NC_008712 (Paenarthrobacter aurescens TC1 plasmid pTC1, complete sequence) position: , mismatch: 11, identity: 0.656

tcgtcggtcatggatttgcgcgcttcttcgcg	CRISPR spacer
ggtacggtcatggatttgagcgcctctcgagt	Protospacer
    ************** ****.***. .

46. spacer 13.2|5966672|34|NC_009142|CRISPRCasFinder matches to NC_010625 (Paraburkholderia phymatum STM815 plasmid pBPHY01, complete sequence) position: , mismatch: 11, identity: 0.676

ctcgcccagcgagcaccacgccgagcctcaccgc	CRISPR spacer
cgacgacagcgagcacgacgccgagcgtcatgca	Protospacer
*     ********** ********* ***.

47. spacer 13.3|5966729|40|NC_009142|CRISPRCasFinder matches to NC_013855 (Azospirillum sp. B510 plasmid pAB510a, complete sequence) position: , mismatch: 11, identity: 0.725

cgcgccagccagcggacccgcctcgccgcgccgcgcgagt	CRISPR spacer
gccgcgcgccagcggacccgcctcgccgcgcaggaagccg	Protospacer
  ***  ************************ * . *

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

441710 : 500689

Pandoravirus(13.33%)

protease,tail,tRNA,transposase

The bacterium proteins that are colored denote the protein is present at specific phage-related keywords (such as 'capsid', 'head', 'integrase', 'plate', 'tail', 'fiber', 'coat', 'transposase', 'portal', 'terminase', 'protease' or 'lysin' and 'tRNA')

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_009946443.1\|441710_442823_+\|protease	zinc-dependent metalloprotease	NA	NA	NA	NA
WP_009946441.1\|443115_444108_+\|tRNA	tRNA lysidine(34) synthetase TilS	NA	NA	NA	NA
WP_009946440.1\|444191_444749_+	hypoxanthine phosphoribosyltransferase	A0A1V0SEQ1	Hokovirus	3.4e-08	27.6
WP_009946439.1\|444998_447386_+\|protease	ATP-dependent zinc metalloprotease FtsH	H8ZJI5	Ostreococcus_tauri_virus	9.3e-111	46.4
WP_173401337.1\|447534_448101_+	GTP cyclohydrolase I FolE	E7DN69	Pneumococcus_phage	7.9e-45	51.6
WP_021341312.1\|448100_448949_+	dihydropteroate synthase	A0A0B5J4J5	Pandoravirus	2.0e-23	34.4
WP_009946434.1\|448941_449331_+	dihydroneopterin aldolase	NA	NA	NA	NA
WP_011873043.1\|449352_449856_+	2-amino-4-hydroxy-6- hydroxymethyldihydropteridine diphosphokinase	S4VNV0	Pandoravirus	9.9e-15	38.9
WP_009946432.1\|449914_450859_-	MerR family transcriptional regulator	NA	NA	NA	NA
WP_009946430.1\|450976_451441_+	DUF3180 domain-containing protein	NA	NA	NA	NA
WP_009946428.1\|451623_452868_+	hypothetical protein	NA	NA	NA	NA
WP_009946427.1\|452921_454628_+\|protease	PrsW family intramembrane metalloprotease	NA	NA	NA	NA
WP_081468305.1\|454703_455687_+	DUF2520 domain-containing protein	NA	NA	NA	NA
WP_009946424.1\|455757_456666_+	pantoate--beta-alanine ligase	NA	NA	NA	NA
WP_009946423.1\|456718_457210_+	aspartate 1-decarboxylase	NA	NA	NA	NA
WP_009946422.1\|457266_458064_+	type III pantothenate kinase	NA	NA	NA	NA
WP_009946421.1\|458153_459677_+\|tRNA	lysine--tRNA ligase	A0A2K9KZX5	Tupanvirus	4.9e-73	35.2
WP_009946420.1\|459844_460195_+	Lsr2 family protein	S5W0B7	Mycobacterium_phage	1.1e-15	42.0
WP_011873045.1\|460676_461747_+	iron ABC transporter permease	A0A2H4IY97	uncultured_Caudovirales_phage	7.8e-17	26.4
WP_011873046.1\|461743_462829_+	iron ABC transporter permease	NA	NA	NA	NA
WP_009946416.1\|462825_463680_+	ABC transporter ATP-binding protein	G3M9Y6	Bacillus_virus	2.9e-14	26.5
WP_011873047.1\|463958_466520_+\|protease	ATP-dependent Clp protease ATP-binding subunit	K4FB40	Cronobacter_phage	1.7e-126	38.4
WP_143538279.1\|466584_467628_-\|transposase	IS30 family transposase	W5R8L2	Staphylococcus_phage	6.0e-38	35.5
WP_044547099.1\|469472_470273_+	ATP-binding protein	U5N3V8	Enterobacteria_phage	8.3e-56	45.5
WP_011873051.1\|470605_471682_-	FAD-dependent oxidoreductase	NA	NA	NA	NA
WP_009951580.1\|471779_472283_+	winged helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_009951579.1\|472468_473254_-	DedA family protein	NA	NA	NA	NA
WP_044547102.1\|473404_476542_+	winged helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_011873053.1\|476901_477138_+	hypothetical protein	NA	NA	NA	NA
WP_009947466.1\|477437_478268_-	ABC transporter permease	NA	NA	NA	NA
WP_009947465.1\|478264_479233_-	daunorubicin resistance protein DrrA family ABC transporter ATP-binding protein	W6JKT0	Anomala_cuprea_entomopoxvirus	4.7e-21	31.2
WP_009947464.1\|479362_480370_+	endonuclease/exonuclease/phosphatase family protein	NA	NA	NA	NA
WP_009947463.1\|480441_480948_-	MarR family transcriptional regulator	NA	NA	NA	NA
WP_011873054.1\|480995_482618_+	FUSC family protein	NA	NA	NA	NA
WP_021341537.1\|482688_482997_-	antibiotic biosynthesis monooxygenase	NA	NA	NA	NA
WP_011873055.1\|483014_484955_-	ABC transporter permease	NA	NA	NA	NA
WP_009947457.1\|484951_485629_-	ATP-binding cassette domain-containing protein	NA	NA	NA	NA
WP_009947456.1\|485787_486315_-	2'-5' RNA ligase family protein	NA	NA	NA	NA
WP_009947455.1\|486318_487227_-	A/G-specific adenine glycosylase	NA	NA	NA	NA
WP_009947454.1\|487285_487819_-	carbonic anhydrase	NA	NA	NA	NA
WP_157355943.1\|488005_488572_+	hypothetical protein	NA	NA	NA	NA
WP_009947452.1\|488624_489737_-	DNA integrity scanning protein DisA	NA	NA	NA	NA
WP_009947451.1\|489733_491116_-	DNA repair protein RadA	NA	NA	NA	NA
WP_009947450.1\|491340_491955_-	hypothetical protein	NA	NA	NA	NA
WP_009947449.1\|492294_492783_+	CarD family transcriptional regulator	NA	NA	NA	NA
WP_009947447.1\|492810_493485_+	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase	NA	NA	NA	NA
WP_009947445.1\|493481_493958_+	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase	NA	NA	NA	NA
WP_009947443.1\|494043_494244_+	hypothetical protein	NA	NA	NA	NA
WP_157355942.1\|494283_494436_-	hypothetical protein	NA	NA	NA	NA
WP_009947442.1\|494454_495138_+	HAD-IA family hydrolase	NA	NA	NA	NA
WP_011873058.1\|495270_496665_+\|tRNA	cysteine--tRNA ligase	A0A2K9L4N2	Tupanvirus	2.2e-40	33.3
WP_009947438.1\|496670_497636_+	23S rRNA (guanosine(2251)-2'-O)-methyltransferase RlmB	NA	NA	NA	NA
WP_011873059.1\|497657_498710_-	DUF2510 domain-containing protein	NA	NA	NA	NA
WP_009947436.1\|498891_500325_+	MBOAT family protein	A0A125RNP0	Pseudomonas_phage	8.4e-67	41.5
WP_009947435.1\|500353_500689_+\|tail	lamin tail domain-containing protein	NA	NA	NA	NA

DBSCAN-SWA_2

2450233 : 2574262

Bacillus_phage(23.08%)

transposase,holin,integrase

attL 2460542:2460559|attR 2490915:2490932

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_009945847.1\|2450233_2450440_+\|holin	bacteriophage holin	NA	NA	NA	NA
WP_009945846.1\|2450509_2450782_+	Sec-independent protein translocase subunit TatA	NA	NA	NA	NA
WP_009945845.1\|2450801_2451755_+	twin-arginine translocase subunit TatC	NA	NA	NA	NA
WP_009945843.1\|2451815_2452700_+	sphingosine kinase	NA	NA	NA	NA
WP_009945842.1\|2452917_2455695_+	DEAD/DEAH box helicase	M1HJE2	Paramecium_bursaria_Chlorella_virus	3.9e-68	32.6
WP_011873616.1\|2455801_2456368_+	DUF4333 domain-containing protein	NA	NA	NA	NA
WP_009945840.1\|2456423_2457629_+	GNAT family N-acetyltransferase	NA	NA	NA	NA
WP_009945839.1\|2457726_2458275_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_009945837.1\|2458295_2459213_+	MBL fold metallo-hydrolase	NA	NA	NA	NA
WP_009945835.1\|2459189_2460107_-	5'-3' exonuclease	F8WQ40	Bacillus_phage	1.0e-12	28.5
WP_009945833.1\|2460174_2461818_-	phosphoenolpyruvate--protein phosphotransferase	NA	NA	NA	NA
2460542:2460559	attL	NA	NA	NA	NA
WP_009945832.1\|2461917_2462676_+	DeoR/GlpR transcriptional regulator	NA	NA	NA	NA
WP_009945831.1\|2462672_2463617_+	1-phosphofructokinase	NA	NA	NA	NA
WP_009945830.1\|2463613_2464066_+	PTS sugar transporter subunit IIA	NA	NA	NA	NA
WP_009945828.1\|2464062_2465535_+	PTS transporter subunit EIIC	NA	NA	NA	NA
WP_009945826.1\|2466082_2466373_+	HPr family phosphocarrier protein	NA	NA	NA	NA
WP_009945824.1\|2466388_2467915_+	glycoside hydrolase family 32 protein	S6ATV4	Bacillus_phage	9.9e-66	33.4
WP_009945822.1\|2469142_2470297_+	aminopeptidase P family protein	NA	NA	NA	NA
WP_009945820.1\|2470326_2470767_+	Lrp/AsnC family transcriptional regulator	NA	NA	NA	NA
WP_009945819.1\|2470778_2471468_+	class I SAM-dependent methyltransferase	NA	NA	NA	NA
WP_011873618.1\|2472638_2473718_-	hypothetical protein	NA	NA	NA	NA
WP_009945815.1\|2473875_2474499_+	FxsA family protein	NA	NA	NA	NA
WP_009945814.1\|2474634_2476260_+	amidohydrolase	NA	NA	NA	NA
WP_009945812.1\|2476553_2477156_+	DUF1707 and DUF2154 domain-containing protein	NA	NA	NA	NA
WP_009945810.1\|2477378_2478857_+	apolipoprotein N-acyltransferase	NA	NA	NA	NA
WP_009945808.1\|2478928_2479717_+	polyprenol monophosphomannose synthase	A0A0N7A8R9	Sulfolobus_monocaudavirus	2.4e-23	36.8
WP_009945807.1\|2479778_2480123_-	RNA polymerase-binding protein RbpA	NA	NA	NA	NA
WP_011873620.1\|2480607_2482014_-	MFS transporter	NA	NA	NA	NA
WP_081468295.1\|2482119_2482929_-	glycerophosphodiester phosphodiesterase	U3PBH7	Lactobacillus_phage	2.4e-10	25.5
WP_011873621.1\|2482997_2483348_+	hypothetical protein	NA	NA	NA	NA
WP_009945802.1\|2483457_2484141_+	hypothetical protein	NA	NA	NA	NA
WP_009945801.1\|2484101_2485091_-\|integrase	tyrosine-type recombinase/integrase	S5W9T9	Leptospira_phage	9.4e-09	31.8
WP_009945799.1\|2485189_2486545_-	M20/M25/M40 family metallo-hydrolase	NA	NA	NA	NA
WP_081468294.1\|2486757_2488089_-	recombinase family protein	NA	NA	NA	NA
WP_009945797.1\|2488939_2490322_+	hypothetical protein	NA	NA	NA	NA
WP_009945795.1\|2490801_2491185_+	hypothetical protein	NA	NA	NA	NA
2490915:2490932	attR	NA	NA	NA	NA
WP_009945794.1\|2491181_2494922_+	caspase family protein	NA	NA	NA	NA
WP_143538112.1\|2495312_2497091_+	translation initiation factor IF-2 N-terminal domain-containing protein	NA	NA	NA	NA
WP_009945792.1\|2497087_2498236_+	hypothetical protein	NA	NA	NA	NA
WP_009945788.1\|2500631_2501603_-	SAM-dependent methyltransferase	F8TUQ0	EBPR_podovirus	3.6e-05	33.3
WP_009945786.1\|2501662_2502121_-	hypothetical protein	NA	NA	NA	NA
WP_031334398.1\|2504352_2505039_+	hypothetical protein	NA	NA	NA	NA
WP_011873631.1\|2505146_2505641_-\|transposase	transposase family protein	NA	NA	NA	NA
WP_081494996.1\|2505683_2505947_-\|transposase	transposase	NA	NA	NA	NA
WP_044547283.1\|2505997_2506351_-\|transposase	IS5/IS1182 family transposase	NA	NA	NA	NA
WP_037306590.1\|2506395_2507448_+	group II intron reverse transcriptase/maturase	NA	NA	NA	NA
WP_011873634.1\|2507611_2508436_+\|transposase	IS5 family transposase	NA	NA	NA	NA
WP_009951627.1\|2508708_2509260_+	hypothetical protein	NA	NA	NA	NA
WP_085982275.1\|2509420_2510229_-\|transposase	IS5 family transposase	A0A0N9SHJ4	Paenibacillus_phage	2.1e-06	30.1
WP_009951201.1\|2510265_2511021_-	hypothetical protein	NA	NA	NA	NA
WP_009951199.1\|2512734_2513061_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_009951198.1\|2513126_2514329_+	hypothetical protein	NA	NA	NA	NA
WP_009951194.1\|2516346_2517621_-	SLC13 family permease	NA	NA	NA	NA
WP_044547853.1\|2517673_2518855_-	CoA transferase	NA	NA	NA	NA
WP_029622195.1\|2518938_2519826_+	LysR family transcriptional regulator	NA	NA	NA	NA
WP_009951191.1\|2519916_2520459_+	MaoC family dehydratase	NA	NA	NA	NA
WP_009951190.1\|2520455_2521268_+	CoA ester lyase	NA	NA	NA	NA
WP_011873643.1\|2522322_2523702_+\|transposase	IS256-like element ISSer2 family transposase	A0A218MNI5	uncultured_virus	6.2e-35	35.7
WP_029622053.1\|2526560_2527661_-	lytic transglycosylase domain-containing protein	NA	NA	NA	NA
WP_009950143.1\|2528990_2529974_-	aldo/keto reductase	NA	NA	NA	NA
WP_009950142.1\|2529978_2530788_-	SDR family oxidoreductase	W8CYX9	Bacillus_phage	3.0e-05	39.7
WP_011873648.1\|2531111_2537738_+	type I polyketide synthase	NA	NA	NA	NA
WP_085982034.1\|2537734_2542105_+	polyketide synthase dehydratase domain-containing protein	D0R7J2	Paenibacillus_phage	3.9e-14	24.6
WP_009950137.1\|2542101_2542395_+	acyl carrier protein	NA	NA	NA	NA
WP_009950136.1\|2542399_2543191_+	alpha/beta hydrolase	NA	NA	NA	NA
WP_009950135.1\|2543187_2544402_+	glycosyltransferase family 1 protein	NA	NA	NA	NA
WP_009950134.1\|2544385_2546245_-	winged helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_143538114.1\|2546349_2546976_-	hypothetical protein	NA	NA	NA	NA
WP_009950132.1\|2547292_2547934_-	hypothetical protein	NA	NA	NA	NA
WP_009950130.1\|2548618_2549947_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_011873651.1\|2550004_2550892_-\|transposase	IS5 family transposase	NA	NA	NA	NA
WP_029622100.1\|2551471_2552665_-\|transposase	IS110-like element ISSer1 family transposase	NA	NA	NA	NA
WP_021341661.1\|2553086_2554376_-	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_021341660.1\|2554484_2555765_-	triacylglycerol lipase	NA	NA	NA	NA
WP_009950530.1\|2556225_2557434_+	hypothetical protein	NA	NA	NA	NA
WP_081494997.1\|2557430_2558273_+	ABC transporter permease	NA	NA	NA	NA
WP_009950529.1\|2558277_2559117_+	ABC transporter permease	NA	NA	NA	NA
WP_009950528.1\|2559113_2560328_+	MCE family protein	NA	NA	NA	NA
WP_009950527.1\|2560324_2561344_+	MCE family protein	NA	NA	NA	NA
WP_009950526.1\|2561340_2562336_+	MCE family protein	NA	NA	NA	NA
WP_009950524.1\|2562335_2563379_+	MCE family protein	NA	NA	NA	NA
WP_009950523.1\|2563378_2564443_+	MCE family protein	NA	NA	NA	NA
WP_009950521.1\|2564442_2565555_+	MCE family protein	NA	NA	NA	NA
WP_011873657.1\|2565560_2566103_+	hypothetical protein	NA	NA	NA	NA
WP_009950519.1\|2566134_2566686_+	hypothetical protein	NA	NA	NA	NA
WP_009950518.1\|2566702_2567335_+	VanZ family protein	NA	NA	NA	NA
WP_009950516.1\|2567441_2569064_-	AMP-binding protein	A0A2H4PQM9	Staphylococcus_phage	2.4e-25	28.4
WP_009950514.1\|2569416_2570637_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_009950513.1\|2570790_2571717_+	alpha/beta hydrolase	A0A249XU20	Mycobacterium_phage	1.9e-19	33.2
WP_011873659.1\|2571991_2572687_+\|transposase	IS5/IS1182 family transposase	NA	NA	NA	NA
WP_085982276.1\|2573438_2574262_-\|transposase	IS5 family transposase	NA	NA	NA	NA

DBSCAN-SWA_3

2692692 : 2744229

Neodiprion_sertifer_nucleopolyhedrovirus(12.5%)

protease,transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_009947260.1\|2692692_2693472_+\|protease	serine protease	Q6JKF3	Neodiprion_sertifer_nucleopolyhedrovirus	3.7e-16	29.4
WP_173401306.1\|2693778_2694228_+	hypothetical protein	NA	NA	NA	NA
WP_009947257.1\|2694841_2695708_+	SAM-dependent methyltransferase	NA	NA	NA	NA
WP_009947256.1\|2695735_2698177_+	pyruvate, water dikinase	A0A1V0SGR7	Hokovirus	5.3e-21	27.8
WP_143538117.1\|2700732_2701527_+\|protease	CPBP family intramembrane metalloprotease	NA	NA	NA	NA
WP_081468325.1\|2701767_2702772_+	trypsin-like peptidase domain-containing protein	A0A1B1IT49	uncultured_Mediterranean_phage	3.6e-08	23.1
WP_009947251.1\|2703132_2704785_+	BCCT family transporter	A0A2I7QNT1	Vibrio_phage	1.7e-18	27.4
WP_009947249.1\|2704921_2705200_-	DUF3040 domain-containing protein	NA	NA	NA	NA
WP_011873701.1\|2705252_2705609_-	DUF1049 domain-containing protein	NA	NA	NA	NA
WP_011873702.1\|2705912_2707019_-	SPFH/Band 7/PHB domain protein	NA	NA	NA	NA
WP_009947245.1\|2707021_2707453_-	NfeD family protein	NA	NA	NA	NA
WP_143538118.1\|2707724_2708867_-	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_157355941.1\|2708895_2709558_+	MarR family transcriptional regulator	NA	NA	NA	NA
WP_009947242.1\|2709567_2709864_-	DUF3040 domain-containing protein	NA	NA	NA	NA
WP_009947240.1\|2709899_2710253_-	DUF1049 domain-containing protein	NA	NA	NA	NA
WP_143538120.1\|2710270_2710924_-	ATP-dependent DNA ligase	NA	NA	NA	NA
WP_021341296.1\|2711121_2711853_-	copper chaperone PCu(A)C	NA	NA	NA	NA
WP_143538121.1\|2712649_2713078_+	CrcB family protein	NA	NA	NA	NA
WP_009947235.1\|2713074_2715261_-	MMPL family transporter	NA	NA	NA	NA
WP_143538122.1\|2715267_2715933_-	hypothetical protein	NA	NA	NA	NA
WP_143538123.1\|2715976_2716369_+	hypothetical protein	NA	NA	NA	NA
WP_009947229.1\|2716390_2717590_-\|protease	site-2 protease family protein	NA	NA	NA	NA
WP_081468324.1\|2717903_2719166_+	Na+/H+ antiporter NhaA	A0A2H4J5W3	uncultured_Caudovirales_phage	2.4e-49	38.8
WP_009947227.1\|2719474_2719900_+	MFS transporter	NA	NA	NA	NA
WP_009947226.1\|2720580_2721039_-	RidA family protein	M1I5B0	Acanthocystis_turfacea_Chlorella_virus	6.7e-18	38.1
WP_021341293.1\|2721069_2722239_-	aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme	NA	NA	NA	NA
WP_009947223.1\|2722235_2722715_-	DinB family protein	NA	NA	NA	NA
WP_009947222.1\|2722803_2723343_+	ABATE domain-containing protein	NA	NA	NA	NA
WP_009947221.1\|2723507_2724890_+	MFS transporter	NA	NA	NA	NA
WP_009947220.1\|2725649_2726501_-	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_009947218.1\|2726588_2727392_+	glucose 1-dehydrogenase	A0A0M4JSW6	Mollivirus	3.0e-13	29.1
WP_009947213.1\|2728777_2729356_-	dihydrofolate reductase family protein	NA	NA	NA	NA
WP_009947211.1\|2729685_2730186_+	activator of HSP90 ATPase	NA	NA	NA	NA
WP_085982277.1\|2731280_2732089_-\|transposase	IS5 family transposase	A0A0N9SHJ4	Paenibacillus_phage	2.1e-06	30.1
WP_044547322.1\|2732275_2733091_-	urease accessory protein UreD	NA	NA	NA	NA
WP_009951496.1\|2733087_2733798_-	urease accessory protein UreG	NA	NA	NA	NA
WP_011873716.1\|2733820_2734495_-	urease accessory protein UreF	NA	NA	NA	NA
WP_009951494.1\|2734498_2736325_-	urease subunit alpha	NA	NA	NA	NA
WP_009951493.1\|2736317_2736992_-	urease subunit gamma	NA	NA	NA	NA
WP_009951491.1\|2737707_2738196_+	hypothetical protein	NA	NA	NA	NA
WP_085982278.1\|2738205_2739041_-\|transposase	IS5 family transposase	NA	NA	NA	NA
WP_011873722.1\|2740366_2740729_-	GreA/GreB family elongation factor	NA	NA	NA	NA
WP_011873723.1\|2742027_2742288_+	hypothetical protein	NA	NA	NA	NA
WP_009949922.1\|2742349_2742517_-	hypothetical protein	NA	NA	NA	NA
WP_011873724.1\|2743011_2744229_+\|transposase	IS110 family transposase	NA	NA	NA	NA

DBSCAN-SWA_4

2760104 : 2821963

Shigella_phage(25.0%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_009949902.1\|2760104_2760374_-\|transposase	IS3 family transposase	Q716C1	Shigella_phage	2.8e-08	37.2
WP_009949900.1\|2760455_2760821_+	hypothetical protein	G9FHQ7	Rhodococcus_virus	2.5e-31	57.6
WP_098505308.1\|2761123_2761348_+	hypothetical protein	NA	NA	NA	NA
WP_029622028.1\|2761833_2762802_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_011873730.1\|2763459_2764089_+	response regulator transcription factor	NA	NA	NA	NA
WP_009949892.1\|2765263_2766220_-	alpha/beta hydrolase	NA	NA	NA	NA
WP_009949891.1\|2766257_2767412_-	MFS transporter	NA	NA	NA	NA
WP_009949889.1\|2767580_2768171_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_085982276.1\|2769492_2770315_+\|transposase	IS5 family transposase	NA	NA	NA	NA
WP_021342208.1\|2770411_2770750_+	MFS transporter	NA	NA	NA	NA
WP_009951573.1\|2770898_2771858_-	zinc-binding alcohol dehydrogenase family protein	NA	NA	NA	NA
WP_081468437.1\|2771935_2772646_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_143538125.1\|2773037_2773670_-\|transposase	IS3 family transposase	U5P429	Shigella_phage	4.6e-25	37.9
WP_011873737.1\|2773742_2774891_+\|transposase	IS30 family transposase	W5R8L2	Staphylococcus_phage	3.1e-40	37.3
WP_009951536.1\|2775337_2775973_-	MFS transporter	NA	NA	NA	NA
WP_009951535.1\|2776030_2776900_-	AAA family ATPase	NA	NA	NA	NA
WP_009951533.1\|2777567_2778488_-	TIGR03564 family F420-dependent LLM class oxidoreductase	NA	NA	NA	NA
WP_011873739.1\|2778598_2779165_+	TetR family transcriptional regulator	NA	NA	NA	NA
WP_170108607.1\|2779606_2779816_+\|transposase	IS3 family transposase	NA	NA	NA	NA
WP_081494999.1\|2780716_2781244_-\|transposase	IS5 family transposase	NA	NA	NA	NA
WP_009951262.1\|2781995_2783384_-	sugar porter family MFS transporter	O13311	Aichi_virus	2.1e-30	29.7
WP_009951259.1\|2784145_2784541_-	sensory rhodopsin transducer	NA	NA	NA	NA
WP_009951258.1\|2784555_2785326_-	SDR family oxidoreductase	NA	NA	NA	NA
WP_009951256.1\|2785360_2786500_-	mandelate racemase/muconate lactonizing enzyme family protein	NA	NA	NA	NA
WP_009951254.1\|2786540_2788166_-	amidohydrolase family protein	NA	NA	NA	NA
WP_021341968.1\|2788165_2789494_-	MFS transporter	Q6JIH2	Burkholderia_virus	3.1e-55	33.2
WP_009951252.1\|2789609_2790248_+	GntR family transcriptional regulator	NA	NA	NA	NA
WP_009951250.1\|2790937_2791429_+	Rrf2 family transcriptional regulator	NA	NA	NA	NA
WP_031334623.1\|2791395_2792145_+	SDR family oxidoreductase	NA	NA	NA	NA
WP_009951650.1\|2792174_2792357_-	hypothetical protein	NA	NA	NA	NA
WP_044547874.1\|2792525_2793770_+\|transposase	IS701 family transposase	NA	NA	NA	NA
WP_011873748.1\|2793928_2795023_+\|transposase	IS630 family transposase	NA	NA	NA	NA
WP_081468439.1\|2795019_2795241_-	HNH endonuclease	NA	NA	NA	NA
WP_011873750.1\|2795624_2796707_-	DUF418 domain-containing protein	NA	NA	NA	NA
WP_009950509.1\|2798973_2800074_-	VanZ family protein	NA	NA	NA	NA
WP_009950507.1\|2800119_2801115_-	YdcF family protein	NA	NA	NA	NA
WP_009950505.1\|2801516_2808623_+	type I polyketide synthase	D0R7J2	Paenibacillus_phage	4.1e-29	30.4
WP_009950504.1\|2808631_2810116_+	NAD(P)/FAD-dependent oxidoreductase	NA	NA	NA	NA
WP_011873752.1\|2810239_2810416_-	hypothetical protein	NA	NA	NA	NA
WP_011873753.1\|2810663_2811293_-	response regulator transcription factor	NA	NA	NA	NA
WP_011873754.1\|2811513_2812911_-	MFS transporter	NA	NA	NA	NA
WP_009950499.1\|2814164_2815262_+	AMP-binding protein	NA	NA	NA	NA
WP_009950498.1\|2815261_2816707_+	aldehyde dehydrogenase family protein	NA	NA	NA	NA
WP_143538129.1\|2816945_2818679_+	SAM-dependent methyltransferase	NA	NA	NA	NA
WP_009950495.1\|2819918_2820725_-	ATP-binding protein	U5N3V8	Enterobacteria_phage	1.4e-55	45.0
WP_011873757.1\|2820724_2821963_-\|transposase	IS21 family transposase	NA	NA	NA	NA

DBSCAN-SWA_5

2837132 : 2915627

Paenibacillus_phage(30.0%)

transposase,protease,tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011873634.1\|2837132_2837957_-\|transposase	IS5 family transposase	NA	NA	NA	NA
WP_009951132.1\|2838065_2839970_-	FAD-dependent oxidoreductase	NA	NA	NA	NA
WP_009951130.1\|2840044_2840971_-	thioester reductase	NA	NA	NA	NA
WP_162131615.1\|2841068_2844350_-	amino acid adenylation domain-containing protein	A0A2K9KZV5	Tupanvirus	5.4e-101	27.4
WP_009951128.1\|2844388_2848957_-	acyltransferase domain-containing protein	D0R7J2	Paenibacillus_phage	3.9e-33	33.1
WP_009951127.1\|2849651_2850875_+	cytochrome P450	NA	NA	NA	NA
WP_085982277.1\|2851210_2852019_-\|transposase	IS5 family transposase	A0A0N9SHJ4	Paenibacillus_phage	2.1e-06	30.1
WP_009948608.1\|2852251_2853010_+\|protease	trypsin-like serine protease	NA	NA	NA	NA
WP_009948607.1\|2853427_2854129_-	fumarylacetoacetate hydrolase family protein	NA	NA	NA	NA
WP_011873764.1\|2854119_2855325_-	alpha-hydroxy-acid oxidizing protein	NA	NA	NA	NA
WP_009948604.1\|2855321_2856134_-	thioesterase	NA	NA	NA	NA
WP_009948603.1\|2856130_2862484_-	SDR family NAD(P)-dependent oxidoreductase	NA	NA	NA	NA
WP_011873765.1\|2862519_2876250_-	type I polyketide synthase	D0R7J2	Paenibacillus_phage	5.6e-35	30.3
WP_009948601.1\|2876304_2877468_-	cytochrome P450	NA	NA	NA	NA
WP_021341468.1\|2877962_2879060_+	AMP-binding protein	NA	NA	NA	NA
WP_009948598.1\|2879059_2880448_+	aldehyde dehydrogenase family protein	NA	NA	NA	NA
WP_037303331.1\|2881026_2881998_+	hypothetical protein	NA	NA	NA	NA
WP_009948595.1\|2883234_2884383_-	galactonate dehydratase	Q6A202	Oenococcus_phage	2.8e-57	37.7
WP_011873769.1\|2884420_2885035_-	2-dehydro-3-deoxy-6-phosphogalactonate aldolase	NA	NA	NA	NA
WP_011873770.1\|2885025_2886012_-	2-dehydro-3-deoxygalactonokinase	NA	NA	NA	NA
WP_009948592.1\|2886077_2886848_+	IclR family transcriptional regulator	NA	NA	NA	NA
WP_081468358.1\|2886921_2887512_-	LysR family transcriptional regulator	NA	NA	NA	NA
WP_009948590.1\|2887623_2888634_+	bile acid:sodium symporter	NA	NA	NA	NA
WP_009948588.1\|2890143_2890311_+	hypothetical protein	NA	NA	NA	NA
WP_009948587.1\|2890337_2891291_-	LysR family transcriptional regulator	NA	NA	NA	NA
WP_029621860.1\|2891412_2892522_+	hypothetical protein	NA	NA	NA	NA
WP_021341474.1\|2892555_2893806_+	SLC13 family permease	NA	NA	NA	NA
WP_009948584.1\|2893955_2895287_-	aspartate aminotransferase family protein	NA	NA	NA	NA
WP_011873775.1\|2895372_2896299_+	LysR family transcriptional regulator	NA	NA	NA	NA
WP_081468357.1\|2896526_2898224_-	alpha/beta hydrolase	NA	NA	NA	NA
WP_009948580.1\|2898526_2899456_+	SPFH domain-containing protein	NA	NA	NA	NA
WP_009948579.1\|2899461_2899677_+	hypothetical protein	NA	NA	NA	NA
WP_037303327.1\|2900110_2901178_+	NAD(P)-dependent alcohol dehydrogenase	L7RC95	Acanthamoeba_polyphaga_moumouvirus	3.8e-64	38.6
WP_009948577.1\|2901213_2901594_+	MerR family transcriptional regulator	NA	NA	NA	NA
WP_009942492.1\|2902001_2902313_+\|transposase	transposase	A0A1B3AZF8	Gordonia_phage	1.5e-13	45.5
WP_009942493.1\|2902309_2903239_+\|transposase	IS3 family transposase	Q6H9S6	Enterobacteria_phage	3.4e-45	38.9
WP_009951406.1\|2904112_2904256_-	hypothetical protein	NA	NA	NA	NA
WP_009951405.1\|2904561_2904738_-	DUF2188 domain-containing protein	NA	NA	NA	NA
WP_009951404.1\|2905387_2905591_-	cold-shock protein	Q9AZD3	Lactococcus_phage	2.9e-13	57.4
WP_011873778.1\|2905814_2906126_-	MerR family transcriptional regulator	NA	NA	NA	NA
WP_037304219.1\|2906856_2908605_-	right-handed parallel beta-helix repeat-containing protein	NA	NA	NA	NA
WP_009951401.1\|2908665_2909514_+	TetR/AcrR family transcriptional regulator C-terminal domain-containing protein	NA	NA	NA	NA
WP_009951399.1\|2909571_2910294_-	class I SAM-dependent methyltransferase	NA	NA	NA	NA
WP_011873780.1\|2910379_2911582_-\|protease	site-2 protease family protein	NA	NA	NA	NA
WP_143538133.1\|2911659_2911938_-	hypothetical protein	NA	NA	NA	NA
WP_009947676.1\|2912164_2912878_+	hypothetical protein	NA	NA	NA	NA
WP_009947671.1\|2913980_2914202_+	hypothetical protein	NA	NA	NA	NA
WP_009947670.1\|2914499_2915627_+\|tRNA	cysteine--tRNA ligase	A0A2K9L6B7	Tupanvirus	1.2e-28	27.8

DBSCAN-SWA_6

5476867 : 5535420

Tupanvirus(25.0%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_085982277.1\|5476867_5477676_-\|transposase	IS5 family transposase	A0A0N9SHJ4	Paenibacillus_phage	2.1e-06	30.1
WP_031334300.1\|5478350_5479763_+	cyclic nucleotide-binding domain-containing protein	A0A2K9L690	Tupanvirus	1.6e-30	34.6
WP_009948856.1\|5479774_5482066_+	terpene synthase metal-binding domain-containing protein	NA	NA	NA	NA
WP_009948855.1\|5482108_5483509_+	cyclic nucleotide-binding domain-containing protein	A0A2K9L690	Tupanvirus	5.4e-26	31.3
WP_009948854.1\|5483521_5484559_+	polyprenyl synthetase family protein	NA	NA	NA	NA
WP_011874503.1\|5484882_5486088_-	NAD(P)/FAD-dependent oxidoreductase	NA	NA	NA	NA
WP_011874504.1\|5486113_5487472_-	NAD(P)/FAD-dependent oxidoreductase	NA	NA	NA	NA
WP_009948850.1\|5487468_5489541_-	molybdopterin oxidoreductase family protein	NA	NA	NA	NA
WP_011874506.1\|5489533_5489764_-	hypothetical protein	NA	NA	NA	NA
WP_081468364.1\|5490626_5491640_+	ParB N-terminal domain-containing protein	NA	NA	NA	NA
WP_009948846.1\|5491726_5492890_+	DUF711 family protein	NA	NA	NA	NA
WP_009948845.1\|5493292_5493787_+	winged helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_081468363.1\|5493684_5494275_+\|transposase	IS630 family transposase	NA	NA	NA	NA
WP_009948842.1\|5494351_5495941_-	tryptophan 7-halogenase	A0A1Z1LWL6	Synechococcus_phage	9.3e-67	35.6
WP_009948841.1\|5495966_5497184_-	cytochrome P450	NA	NA	NA	NA
WP_081468366.1\|5497180_5497885_-	thioesterase	NA	NA	NA	NA
WP_009948839.1\|5497947_5499546_-	non-ribosomal peptide synthetase	A0A2K9L3I8	Tupanvirus	1.1e-46	26.9
WP_009948837.1\|5500012_5500603_-	TIGR03086 family protein	NA	NA	NA	NA
WP_009948836.1\|5500644_5502303_-	acyl--CoA ligase	NA	NA	NA	NA
WP_009948835.1\|5502354_5503845_-	aldehyde dehydrogenase family protein	NA	NA	NA	NA
WP_143538337.1\|5504028_5505624_-	tryptophan 7-halogenase	NA	NA	NA	NA
WP_009948833.1\|5505767_5506367_-	flavin reductase family protein	NA	NA	NA	NA
WP_037303425.1\|5506881_5508039_-	acyl-CoA/acyl-ACP dehydrogenase	NA	NA	NA	NA
WP_143538197.1\|5508421_5510173_-	cation:proton antiporter	NA	NA	NA	NA
WP_009948830.1\|5510257_5510710_-	hypothetical protein	NA	NA	NA	NA
WP_009948829.1\|5511177_5511423_-	hypothetical protein	NA	NA	NA	NA
WP_021341523.1\|5511465_5512320_-	NAD(P)H-binding protein	NA	NA	NA	NA
WP_009948826.1\|5512402_5513359_+	AraC family transcriptional regulator	NA	NA	NA	NA
WP_011874517.1\|5513734_5514706_-	sugar kinase	NA	NA	NA	NA
WP_009948824.1\|5514702_5515350_-	bifunctional 4-hydroxy-2-oxoglutarate aldolase/2-dehydro-3-deoxy-phosphogluconate aldolase	NA	NA	NA	NA
WP_011874518.1\|5515370_5516615_-	D-galactonate dehydratase family protein	Q6A202	Oenococcus_phage	1.3e-44	28.4
WP_009948820.1\|5516720_5518121_-	MFS transporter	NA	NA	NA	NA
WP_009948819.1\|5518168_5519173_-	L-idonate 5-dehydrogenase	NA	NA	NA	NA
WP_011874519.1\|5519207_5520683_-	mannitol dehydrogenase family protein	G9E6E2	Micromonas_pusilla_virus	1.5e-34	28.6
WP_009948816.1\|5520834_5521626_+	IclR family transcriptional regulator	NA	NA	NA	NA
WP_044547532.1\|5522218_5522572_-\|transposase	IS5/IS1182 family transposase	NA	NA	NA	NA
WP_009951483.1\|5523539_5523983_+	Rrf2 family transcriptional regulator	NA	NA	NA	NA
WP_009951482.1\|5524165_5525401_+	amidohydrolase family protein	NA	NA	NA	NA
WP_143538198.1\|5525617_5526037_-	hypothetical protein	NA	NA	NA	NA
WP_009951481.1\|5526355_5526955_-	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_011874525.1\|5527072_5527822_+	SDR family oxidoreductase	A0A0M4JSW6	Mollivirus	3.8e-10	41.9
WP_044547533.1\|5529094_5530243_-\|transposase	IS30 family transposase	W5R8L2	Staphylococcus_phage	2.4e-40	37.3
WP_011874528.1\|5530648_5532532_+	Hsp70 family protein	E5EQT9	Bathycoccus_sp._RCC1105_virus	3.8e-19	27.8
WP_009950726.1\|5533245_5533866_+\|transposase	IS3 family transposase	A0A1B3AZE5	Gordonia_phage	6.5e-24	42.2
WP_021341843.1\|5535138_5535420_+\|transposase	transposase	Q6H9S3	Enterobacteria_phage	4.4e-12	43.4

DBSCAN-SWA_7

5660436 : 5713839

Gordonia_phage(37.5%)

transposase,integrase

attL 5656620:5656635|attR 5706270:5706288

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
5656620:5656635	attL	NA	NA	NA	NA
WP_011874587.1\|5660436_5661816_-\|transposase	IS256 family transposase	A0A218MNI5	uncultured_virus	8.2e-35	35.7
5656620:5656635	attL	NA	NA	NA	NA
WP_031334651.1\|5665368_5666559_-	FAD-dependent monooxygenase	NA	NA	NA	NA
WP_009951326.1\|5667769_5668777_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_011874592.1\|5668773_5669019_-	hypothetical protein	NA	NA	NA	NA
WP_011874593.1\|5669015_5669408_-	hypothetical protein	NA	NA	NA	NA
WP_009951323.1\|5669684_5669909_-	hypothetical protein	NA	NA	NA	NA
WP_009951322.1\|5671110_5671749_-\|integrase	site-specific integrase	NA	NA	NA	NA
WP_011874594.1\|5671765_5672590_-\|transposase	IS5 family transposase	NA	NA	NA	NA
WP_143538210.1\|5673070_5673541_-	hypothetical protein	NA	NA	NA	NA
WP_009951019.1\|5673761_5673935_+	hypothetical protein	NA	NA	NA	NA
5673550:5673565	attR	NA	NA	NA	NA
WP_143538211.1\|5674044_5675016_+	hypothetical protein	NA	NA	NA	NA
5673550:5673565	attR	NA	NA	NA	NA
WP_009951018.1\|5675000_5678576_+	DEAD/DEAH box helicase	NA	NA	NA	NA
WP_029622171.1\|5679671_5679992_+\|transposase	transposase	A0A1B3AZF8	Gordonia_phage	8.2e-15	50.5
WP_011874599.1\|5679997_5680387_+\|transposase	IS3 family transposase	NA	NA	NA	NA
WP_009951013.1\|5680383_5680620_+\|transposase	IS3 family transposase	A0A1B3AZE5	Gordonia_phage	3.2e-16	61.8
WP_009951012.1\|5680829_5681999_+\|transposase	IS30 family transposase	W5R8L2	Staphylococcus_phage	3.2e-32	36.3
WP_009951011.1\|5682075_5682324_+\|transposase	transposase	A0A0N7C035	Escherichia_phage	9.5e-19	57.3
WP_031334572.1\|5682576_5683521_+\|integrase	tyrosine-type recombinase/integrase	NA	NA	NA	NA
WP_044547549.1\|5683909_5684869_-\|integrase	tyrosine-type recombinase/integrase	NA	NA	NA	NA
WP_143538212.1\|5686273_5687320_+	SAVED domain-containing protein	NA	NA	NA	NA
WP_009951457.1\|5689321_5690971_+	CRISPR-associated endonuclease Cas4/Cas1	NA	NA	NA	NA
WP_009951455.1\|5690976_5691264_+	CRISPR-associated endonuclease Cas2	NA	NA	NA	NA
WP_009951453.1\|5691296_5692034_+	hypothetical protein	NA	NA	NA	NA
WP_009951451.1\|5692058_5693759_+	DEAD/DEAH box helicase family protein	NA	NA	NA	NA
WP_044547099.1\|5695281_5696082_-	ATP-binding protein	U5N3V8	Enterobacteria_phage	8.3e-56	45.5
WP_081468226.1\|5697949_5699122_-	type I-U CRISPR-associated protein Cas5/Cas6	NA	NA	NA	NA
WP_143538213.1\|5699140_5700487_-	hypothetical protein	NA	NA	NA	NA
WP_009942501.1\|5700489_5701710_-	hypothetical protein	NA	NA	NA	NA
WP_009942500.1\|5701706_5702207_-	hypothetical protein	NA	NA	NA	NA
WP_009942499.1\|5702238_5703612_-	hypothetical protein	NA	NA	NA	NA
WP_157355914.1\|5703608_5705561_-	TIGR03986 family CRISPR-associated RAMP protein	NA	NA	NA	NA
WP_009942493.1\|5706888_5707818_-\|transposase	IS3 family transposase	Q6H9S6	Enterobacteria_phage	3.4e-45	38.9
WP_009942492.1\|5707814_5708126_-\|transposase	transposase	A0A1B3AZF8	Gordonia_phage	1.5e-13	45.5
WP_021341696.1\|5708466_5708829_+	hypothetical protein	NA	NA	NA	NA
WP_011874610.1\|5708966_5710451_-	SAVED domain-containing protein	NA	NA	NA	NA
WP_143538214.1\|5712075_5712774_+	hypothetical protein	NA	NA	NA	NA
WP_009942489.1\|5713341_5713839_+\|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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NC_009142

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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