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_004342	Leptospira interrogans serovar Lai str. 56601 chromosome I, complete sequence	14 crisprs	Cas9_archaeal,cas1,cas4,cas7,cas8c,cas5,csa3,DinG,cas3,WYL,cas6,cas2,cas8b3	3	15	2	0
NC_004343	Leptospira interrogans serovar Lai str. 56601 chromosome II, complete sequence	0 crisprs	csa3	0	0	1	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_004342_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_004342_1

1347143-1347585

Orphan

Consensus_repeat	Method
TTCCTAAAGAAATCGGAAAACTAC	CRISPRCasFinder

6 spacers

The CRISPR arrays of NC_004342_1

>merge|NC_004342|1|1347143-1347585|CRISPRCasFinder
TTCCGAGACAAATCGGAAATCTACAAAATTTAACAGAGTTGAATTTAGGGAGCAATTCACTTACGACAGTTCCTAAAGAAATCGGTCGGCTACGCAACTTACAAAGTTTGTGGTTGTTTGGAAACTGGCTGGCAACCTTCCTGAAGAAGTCGGGGAACTTCACAATTTAGAAGAGCTAAGTTTAAGCAGGAACCTTCTCATTACACTTCCAAAAGAAATCAGGCGGCTACAAAATTTACAAGTATTGAATCTATCTGACAATCGTCCCACTTTCACCGTTCTTCCAAAAGAAATCGGAGAACTACGGAATTTAAAAGAGTTGAATTTAGAGAACAATTCACTTACGACAATTCCTAAAGAAATCGGAAAACTACAAAATTTAAAATGGTTGCGTTTAGGGAGCAATTCACTTACGACGCTTCCAAAAGAAATCGGAAAACTAC

>NC_004342|1|1|1347143-1347585|CRISPRCasFinder
TTCCGAGACAAATCGGAAATCTAC	AAAATTTAACAGAGTTGAATTTAGGGAGCAATTCACTTACGACAG
TTCCTAAAGAAATCGGTCGGCTAC	GCAACTTACAAAGTTTGTGGTTGTTTGGAAACTGGCTGGCAACC
TTCCTGAAGAAGTCGGGGAACTTC	ACAATTTAGAAGAGCTAAGTTTAAGCAGGAACCTTCTCATTACAC
TTCCAAAAGAAATCAGGCGGCTAC	AAAATTTACAAGTATTGAATCTATCTGACAATCGTCCCACTTTCACCGTTC
TTCCAAAAGAAATCGGAGAACTAC	GGAATTTAAAAGAGTTGAATTTAGAGAACAATTCACTTACGACAA
TTCCTAAAGAAATCGGAAAACTAC	AAAATTTAAAATGGTTGCGTTTAGGGAGCAATTCACTTACGACGC
TTCCAAAAGAAATCGGAAAACTAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_004342.2\|WP_000675225.1\|1338951_1340811_-\|alpha/beta-hydrolase	unknown	unknown	gnl\|CDD\|223669
NC_004342.2\|WP_000445690.1\|1354826_1355900_+\|IS110-like-element-ISLin1-family-transposase	unknown	unknown	gnl\|CDD\|376773
NC_004342.2\|WP_000402846.1\|1343769_1344633_-\|class-I-SAM-dependent-methyltransferase	unknown	unknown	gnl\|CDD\|372616
NC_004342.2\|WP_000779367.1\|1356119_1356635_+\|MepB-family-protein	unknown	unknown	gnl\|CDD\|378077
NC_004342.2\|WP_000282526.1\|1341050_1341506_-\|response-regulator	unknown	unknown	gnl\|CDD\|381108
NC_004342.2\|WP_001155666.1\|1352180_1352837_+\|ankyrin-repeat-domain-containing-protein	unknown	unknown	gnl\|CDD\|293786
NC_004342.2\|WP_000447940.1\|1353314_1353767_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|176856
NC_004342.2\|WP_000392265.1\|1337911_1338619_+\|lysophospholipid-acyltransferase-family-protein	unknown	unknown	gnl\|CDD\|153245
NC_004342.2\|WP_000872130.1\|1343518_1343710_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000133081.1\|1356808_1358005_+\|LCP-family-protein	unknown	unknown	gnl\|CDD\|379163
NC_004342.2\|WP_000347004.1\|1334996_1335926_-\|EamA-family-transporter	unknown	unknown	gnl\|CDD\|273359
NC_004342.2\|WP_000053900.1\|1337367_1337577_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000577066.1\|1358418_1359951_+\|MBOAT-family-protein	unknown	unknown	gnl\|CDD\|224610
NC_004342.2\|WP_001070122.1\|1358011_1358383_+\|ribosome-silencing-factor	unknown	unknown	gnl\|CDD\|376779
NC_004342.2\|WP_001259338.1\|1350393_1351557_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|271320
NC_004342.2\|WP_000517762.1\|1348280_1350392_+\|TonB-dependent-receptor	unknown	unknown	gnl\|CDD\|238657
NC_004342.2\|WP_000942239.1\|1347782_1347962_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_001250026.1\|1344719_1345748_+\|CapA-family-protein	unknown	unknown	gnl\|CDD\|277327
NC_004342.2\|WP_000790898.1\|1341498_1342887_-\|histidine-kinase	unknown	unknown	gnl\|CDD\|226702
NC_004342.2\|WP_000445511.1\|1336234_1337101_-\|bile-acid:sodium-symporter-family-protein	unknown	unknown	gnl\|CDD\|223462

Protein	Function_ID	Function_description	E-value
NC_004342.2\|WP_000675225.1\|1338951_1340811_-\|alpha/beta-hydrolase	gnl\|CDD\|223669	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only].	3.61047e-07
NC_004342.2\|WP_000445690.1\|1354826_1355900_+\|IS110-like-element-ISLin1-family-transposase	gnl\|CDD\|376773	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family. Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS116, IS110 and IS902. This region is often found with pfam01548. The exact function of this region is uncertain. This family contains a HHH motif suggesting a DNA-binding function.	1.48384e-28
NC_004342.2\|WP_000402846.1\|1343769_1344633_-\|class-I-SAM-dependent-methyltransferase	gnl\|CDD\|372616	pfam13489, Methyltransf_23, Methyltransferase domain. This family appears to be a methyltransferase domain.	3.26219e-23
NC_004342.2\|WP_000779367.1\|1356119_1356635_+\|MepB-family-protein	gnl\|CDD\|378077	pfam08877, MepB, MepB protein. MepB is a functionally uncharacterized protein in the mepRAB gene cluster of Staphylococcus aureus.	6.44519e-70
NC_004342.2\|WP_000282526.1\|1341050_1341506_-\|response-regulator	gnl\|CDD\|381108	cd17557, REC_Rcp-like, phosphoacceptor receiver (REC) domain of cyanobacterial phytochrome response regulator Rcp and similar domains. This family is composed of response regulators (RRs) that are members of phytochrome-associated, light-sensing two-component signal transduction pathways such as Synechocystis sp. Rcp1, Tolypothrix sp. RcpA, and Agrobacterium tumefaciens bacteriophytochrome response regulator AtBRR. They are stand-alone RRs containing only a REC domain with no output/effector domain. The REC domain itself functions as an effector domain. Also included in this family us Methanosaeta harundinacea methanogenesis regulatory protein FilR2, also a stand-alone RR. REC domains function as phosphorylation-mediated switches within response regulators, but some also transfer phosphoryl groups in multistep phosphorelays.	1.20697e-60
NC_004342.2\|WP_000447940.1\|1353314_1353767_+\|hypothetical-protein	gnl\|CDD\|176856	cd07814, SRPBCC_CalC_Aha1-like, Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins. This family includes the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain of Micromonospora echinospora CalC, human Aha1, and related proteins. Proteins in this group belong to the SRPBCC domain superfamily of proteins, which bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. MeCalC confers resistance to the enediyne, calicheamicin gamma 1 (CLM), by a self sacrificing mechanism which results in inactivation of both CalC and the highly reactive diradical enediyne species. MeCalC can also inactivate two other enediynes, shishijimicin and namenamicin. A crucial Gly of the MeCalC CLM resistance mechanism is not conserved in this subgroup. This family also includes the C-terminal, Bet v1-like domain of Aha1, one of several co-chaperones, which regulate the dimeric chaperone Hsp90. Aha1 promotes dimerization of the N-terminal domains of Hsp90, and stimulates its low intrinsic ATPase activity, and may regulate the dwell time of Hsp90 with client proteins. Aha1 can act as either a positive or negative regulator of chaperone-dependent activation, depending on the client protein, but the mechanisms by which these opposing functions are achieved are unclear. Aha1 is upregulated in a number of tumor lines co-incident with the activation of several signaling kinases.	1.7068e-05
NC_004342.2\|WP_000392265.1\|1337911_1338619_+\|lysophospholipid-acyltransferase-family-protein	gnl\|CDD\|153245	cd07983, LPLAT_DUF374-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374. Lysophospholipid acyltransferase (LPLAT) superfamily member: acyltransferases of de novo and remodeling pathways of glycerophospholipid biosynthesis which catalyze the incorporation of an acyl group from either acylCoAs or acyl-acyl carrier proteins (acylACPs) into acceptors such as glycerol 3-phosphate, dihydroxyacetone phosphate or lyso-phosphatidic acid. Included in this subgroup are the uncharacterized DUF374 phospholipid/glycerol acyltransferases and similar proteins.	3.28116e-81
NC_004342.2\|WP_000133081.1\|1356808_1358005_+\|LCP-family-protein	gnl\|CDD\|379163	pfam13399, LytR_C, LytR cell envelope-related transcriptional attenuator. This family appears at the C-terminus of members of the LytR_cpsA_psr, pfam03816, family.	8.82019e-09
NC_004342.2\|WP_000347004.1\|1334996_1335926_-\|EamA-family-transporter	gnl\|CDD\|273359	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter. [Transport and binding proteins, Amino acids, peptides and amines].	4.50203e-18
NC_004342.2\|WP_001155666.1\|1352180_1352837_+\|ankyrin-repeat-domain-containing-protein	gnl\|CDD\|293786	sd00045, ANK, ankyrin repeats. Ankyrin repeats are one of the most abundant repeat motifs, and generally function as scaffolds for protein-protein interactions in processes including cell cycle, transcriptional regulation, signal transduction, vesicular trafficking, and inflammatory response. Although predominantly found in eukaryotic proteins, they are also found in some bacterial and viral proteins. Less is known of their physiological roles in prokaryotes. Some bacterial ANK proteins play key roles in microbial pathogenesis by mimicking or manipulating host function(s). The pathogen Providencia alcalifaciens N-formyltransferase ankyrin repeats function in small molecule binding and allosteric control. Ankyrin-repeat proteins have been associated with a number of human diseases.	1.84557e-29
NC_004342.2\|WP_000577066.1\|1358418_1359951_+\|MBOAT-family-protein	gnl\|CDD\|224610	COG1696, DltB, Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane].	2.22005e-55
NC_004342.2\|WP_001070122.1\|1358011_1358383_+\|ribosome-silencing-factor	gnl\|CDD\|376779	pfam02410, RsfS, Ribosomal silencing factor during starvation. This family is expressed by almost all bacterial and eukaryotic genomes but not by archaea. Its function is to down-regulate protein synthesis under conditions of nutrient shortage, and it does this by binding to protein L14 of the large ribosomal subunit, thus acting as a ribosomal silencing factor (RsfS) by blocking the joining of the ribosomal subunits. This family is structurally homologous to nucleotidyltransferases.	8.24928e-35
NC_004342.2\|WP_001259338.1\|1350393_1351557_+\|hypothetical-protein	gnl\|CDD\|271320	cd05819, NHL, NHL repeat unit of beta-propeller proteins. The NHL(NCL-1, HT2A and LIN-41)-repeat is found in multiple tandem copies, typically as 6 instances. It is about 40 residues long and resembles the WD repeat and other beta-propeller structures. The repeats have a catalytic activity in Peptidyl-glycine alpha-amidating monooxygenase; proteolysis has shown that the Peptidyl-alpha-hydroxyglycine alpha-amidating lyase (PAL) activity is localized to the repeats. Tripartite motif-containing protein 32 interacts with the activation domain of Tat. This interaction is mediated by the NHL repeats.	0.00114184
NC_004342.2\|WP_000517762.1\|1348280_1350392_+\|TonB-dependent-receptor	gnl\|CDD\|238657	cd01347, ligand_gated_channel, TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel. Energy (proton-motive force) and TonB-dependent conformational alteration of channel (parts of plug, and loops 7 and 8) allow passage of ligand. FepA residues 12-18 form the TonB box, which mediates the interaction with the TonB-containing inner membrane complex. TonB preferentially interacts with ligand-bound receptors. Transport thru the channel may resemble passage thru an air lock. In this model, ligand binding leads to closure of the extracellular end of pore, then a TonB-mediated signal facillitates opening of the interior side of pore, deforming the N-terminal plug and allowing passage of the ligand to the periplasm. Such a mechanism would prevent the free diffusion of small molecules thru the pore.	1.07077e-57
NC_004342.2\|WP_001250026.1\|1344719_1345748_+\|CapA-family-protein	gnl\|CDD\|277327	cd07381, MPP_CapA, CapA and related proteins, metallophosphatase domain. CapA is one of three membrane-associated enzymes in Bacillus anthracis that is required for synthesis of gamma-polyglutamic acid (PGA), a major component of the bacterial capsule. The YwtB and PgsA proteins of Bacillus subtilis are closely related to CapA and are also included in this alignment model. CapA belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.	2.35279e-78
NC_004342.2\|WP_000790898.1\|1341498_1342887_-\|histidine-kinase	gnl\|CDD\|226702	COG4251, COG4251, Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms].	1.54805e-63
NC_004342.2\|WP_000445511.1\|1336234_1337101_-\|bile-acid:sodium-symporter-family-protein	gnl\|CDD\|223462	COG0385, COG0385, Predicted Na+-dependent transporter [General function prediction only].	3.94598e-61

>NC_004342.2|WP_001250026.1|1344719_1345748_+|CapA-family-protein
MRQTFILSVLFLFSFGLLGDSKTIKIKAVGDMVPGTNFPQPLNIQDPRSFLFGKVESYLKGADLLFGNFESTLTDYPNTSKDTSRKMIFAFRTPPAYAKVLKEVGFDILSIANNHSLDFHEQGFVDTQKNLSDVGIRYTGKKGMITYMNVKDISVAWIGFSHLKSHNNVNEIGEGVALVKEAKKKAQLVFISFHGGAEGGPALHVKNQMERFYGEYRGNLVEFSHSLIDAGADLVIGHGPHLVRAMELYKGRLIAYSLGNFMGYRALSSRGIVGYSLVLEVEVDSQGKFVKGKILPLQLDSASIPEYDPEKKTIDLMKKLTKEDFPGKGPKIADDGTILPGT
>NC_004342.2|WP_000402846.1|1343769_1344633_-|class-I-SAM-dependent-methyltransferase
MEIIPCNTCGSSEFKPLFSKSNHKNELFHIVQCIRCSLVQVSPQPSPKEVASYYSEEYFLKRSDRGYDNYFSEGIRNEISRVFGLNLKDLDFQTWEKSLSTTKRCLDVGCAAGYFVDYMQSRGWDSYGMDIAQAPVKFARDKLKLKVEQVDFLEWKPTNVDQFDLITLWASIEHLHKPKETLEKIYTHLKPGGRVILSTCRWGILAKLQGPSWRYLNVPEHLYYYSLPGIVKLCRSLGFQKKKHITYGSGLTAKKNSSLLYKTLKYFADPTVKFLDQGDMMALCFSK
>NC_004342.2|WP_000872130.1|1343518_1343710_+|hypothetical-protein
MKWSIEAGLLVVAMEFLNNSIQVSHISVLGDFYKIDYRYNFYRKTLFQCKILALNSSEYNFEI
>NC_004342.2|WP_000790898.1|1341498_1342887_-|histidine-kinase
MKNKIEKNIVYGLIVILFLNLIMTGSAYYTLQQSLELRKWETHTQEVLLNLEETLSSFRETHSVLRAYILYRDKELIDSYFKNKRIVLEKIQELRNKTVDNPVEQKRLLNIESNLKEKFSYMEDILLIKKYKSFQDYVELYRSPNGFTLSEKIKFLLQEIKDEELRLLNIRKHNSKINMTISVTLLFSGIVLNLSFILLQNWLIYKESQRRLKTEEILEKSNQNLKLYSEQLERSNRDLEAFSYSVSHDLRSPIRGILGFSKILLEDHGAELREDSRRIVNIIIRNSENMGKLIDDLLEYSRLGRREPMFSVVNMKVLVEKVIEEVISYYPDMKAEISVAELPYANADTSLLKQLLFNLISNAFKYSQKKEIPKIEIGSYQNGEETVFFVKDNGAGFDMKYQHKLFNIFQRLHHTDQFEGTGVGLAIVKRVIERHNGRVWGKGNLNEGACFYFTLGVNDKNV
>NC_004342.2|WP_000282526.1|1341050_1341506_-|response-regulator
MYNLQDELIEILYAEDNPQDSELTLRSLKKHKLTDQVKHVRDGEEALEYLYATGRYANRDKTRVPSLILLDLKMPKVDGIEVLRRVRNEENTKMLPVVILTSSAEEKDIIESYKLGVNSYVVKPFEFDKFGEVASEIGFYWVLINQSVSRT
>NC_004342.2|WP_000675225.1|1338951_1340811_-|alpha/beta-hydrolase
MKFYFWFLPILIFVLRCATYSTFSYSQFEQEKLVNLSGVSSNKLSLLTTRYLKSNDLYDKFEESPLVVIYDLDYELMANKSRNLAYYLSELCYFTGNSLDMEDPQFAKMYASALVYSYTYLFDKKANPTPDPFSAEFRFALFTYNRSLAQLVRFAKKNRKLTNVTDLSLPLVRGTLQMLGAEVETAWKPQNFLQIEVAYDYRVKGFSNHISKYGIGTPVILNRKFPENESQERIKYEFINGVGQAYPATAFVSLEESYLENKDLLNLPAKIHVYDPVFRDRITLGGISLPMESDTTTPLAYMLKIAQQRDSILAIFDGETSMSRKGLYLVYPYHKDKIPVIFIHGLASSPFIWFPMINELLSDSEIKSKYQFWVYWYPTVNPIPLNAAEFRDTLYDLRKIYDPKNEHKSFDKTVLIGHSMGGLIAKLAVTRSNKEQWLNTAEIPNSIFDTMSEEIKKEIRRLFDFEPVPFVKRVIFIATPHKGSNLAEGILGSIARFLFIIPKEVTKKFEEGYKYLSADYKNKDIVPKVYGVDGLAPKSLFMKVTGRYKPEVKFHSIIGNSKLVDLDWISDTVVSYESSHLENPESEMLIQSEHSVQTHLPTFLEVKRILKEHVLVPEH
>NC_004342.2|WP_000392265.1|1337911_1338619_+|lysophospholipid-acyltransferase-family-protein
MEENSESHKGKKRSFKRKFLIWLIPFFVVNLQRLIGLTSRRINIGDESIRKIRKEKKPYILSGWHTNVLYSPYLNRNERMAVLISESKDGDFINQVVHRFGNYSIRGSSSKGGSKALKALIVHLKKNFPAAITPDGPRGPALVVQPGLIAAAQVSQVPIVSFHYECTRQWIAEKTWDKHRIPKPFTTFVVSYGEPIYIPRNLDEKGFEEARLMVEKAMLENRQKSIDKAEELRKK
>NC_004342.2|WP_000053900.1|1337367_1337577_+|hypothetical-protein
MSLKNSEGIGAKSAPDLPKFYYTEFTKLELFKNESSISVFWKRSIESLPLSTTLLLKCKLLNSISVLSF
>NC_004342.2|WP_000445511.1|1336234_1337101_-|bile-acid:sodium-symporter-family-protein
MESNLLTTVFLPIALGIIMLGMGMSLTVEDFKRIFVLPKAVITGLILQLFLLPLTGWFIANVFKLPSELSVGLMILAICPGGATSNLITHLAKGDVALSITLTAITSCITVLSIPFLLNISMHHFLGSGQMIKLNIPQTILQIFMITVLPVSIGMILNSKKPELSRKFEKTVKVLSGIFLVLIILGAIVRERQNIIPYFIQVGPASLALNLITMFLGYLGATLMKVTHPQRTSITIEVGIQNGTLGITIASAILNNPTMAIPSAIYSLIMFATGAIFSIWTNKSSNPT
>NC_004342.2|WP_000347004.1|1334996_1335926_-|EamA-family-transporter
MDFMEVSESKWKPFLGTCIVLIGAIFFSAKAIFVKLVYRYDIDSITALTLRMLFAIPFFAWIAFRSKNTKTSVNLTKKDWGLIFILGFLGFYLASLFDFIGLEYISAGLERLTLFVYPTIVLIIGSFLFKRKIKKAEVFAIFLTYSGILVAFIGDIQTEGPNATKGVLFVLASAISYSLYLVGSESLIPKLGSVRFTSYLMLISGLIVVIHFFIVRNPKNLIQPPNVYLYGLALGILTTVIPAYLTTEGIRMIGSGRAAIIGSTGPISTILLAWIFLEEPITSSGIAGTILVLTGVLWIGRKKTDLKND
>NC_004342.2|WP_000942239.1|1347782_1347962_+|hypothetical-protein
MLQVAVKRAAFNSVSKVEFKNGFLSSFEVSKPGFNKIIFYLQTCPIHYSVSRRIFPFLQ
>NC_004342.2|WP_000517762.1|1348280_1350392_+|TonB-dependent-receptor
MGKNQYIQILKYSVIPFLLVFALTLSAQNQVPATKAETVQVIGKVPDSSSQNFRSNPSGFQTAIKLDETSARYTSLPEVLEREAGLRVRSFGGLGSYSTLSIRGTNPNQSRIYLDGIPLNNSQGGEVNLADLPFDSLESVEVYRSGNPIGFSGSAIGGSVNLVTKKDSQKPKTRINLGGGSFNTGKASVSHTGNYKGIGTSFLALGEKSDQNFSYKNDHGTVVLNTLDDTIDRRKNASFERAALFGSLKYQIGKTELKFLNDFNHRIHGLPGPGSNQTDRVHRKYDRNTSSFATDTKGLFVDSFRLETRGFYTAAKDDLYDPLSEFSKGTPNSRAEIRQAGFQVMPTLYLTDYHQILRGFVSLEKESFDRERLTSSNVVGRVEPKKERTYSSFRLEDEIRIWNSKILLIPSVTWDHYKDRFPSEEPWYRRQDPLSGDIKKTTFTNPKLGFVWKIFEKESWDVQFQANISKQYRIPSFLEMFGEQGSIVANPNLKPEQSENGDAGFIYKTNHSFLKTKTSISYFKKDMRDMILFLPNSQFTLRPENVDSAKIRGLEFSHRGDWKYGIKFLFNYTYQEAINTSSSPYLHGKILPLRPRHEFSSTFSWKGKKLETGIELLYIGAVFRDRTNEYINYIPERQIWNYFFTWVIDSESKDSDLNGNSKEITREVLLTFEVKNFTDKRISDLIGYPLPGRSWYTTLSMRF
>NC_004342.2|WP_001259338.1|1350393_1351557_+|hypothetical-protein
MRTKLKVFILFFFLNVFCRDIERPSFLSLLLIQNLPGNIGVVTTDFGGGGRFKVINPTLFYAYPGLTPIHSDAVARFGNGKVYVLNRLNRDSIQVLDPNYGFITTSELSLGSKVNPVDMEFASASKAYVSLYGSNRLMIIDPTYMTITGFIDLGSYAESFSLGASPDGIPEMSGLKIVGDSLFVCLQRLDRNDPSGYFPPNTSSILLELNVSTDQVVGTYTFPSSNPVGKPQLVELFGESHLVIATPAKMGFQSQIDGGVSAFRLSTRTFVSRFLYSEAIAGGDILSVQIKSDTMGYVAVLDSGFTKTLQAFNPSTGEKISTLLTIPTSYDASLSSVLLASDQILYVGNTQFQQPGVTMFDTERGNRLLTPTPISVDLQPYDIIELK
>NC_004342.2|WP_001155666.1|1352180_1352837_+|ankyrin-repeat-domain-containing-protein
MQEIFQAIASGQKAKVIGLLKRDPNLFQSLTEEGITPVLFSLYYGKLDISKEIYEISPSRNLFEAVALGDLEETKRLISKSTDVVNFLSADGWSALHLASYFGHLEIAKFLIFSGADLSLTSKSKLSYGNTALHSAVATGKKEVVELLLEKGADSNSLQNPGEITPLHIAASRSGSVDIIRLLLKKGADKKLISSEGQTPYTIAFEKGNMTEAKLLEV
>NC_004342.2|WP_000447940.1|1353314_1353767_+|hypothetical-protein
METIRFSILIDADVKTVWHKMLEDSSYRIWAKEFHEGSYFEGSWEKGSEIRFLAQDENDKPQGMYAKIRENIPYQFISIEHIGLISGGVIDTESEEVKKWTPAFENYTFQEESNGKTKLIIEMQTIEEYKSMFEEMWPKALKSLKELCEK
>NC_004342.2|WP_000445690.1|1354826_1355900_+|IS110-like-element-ISLin1-family-transposase
MESQEVKYVGVDCGKKSIEVVRINSENSLERRQFSTTESGINNLLQWLTLNDIVGLEAGSQSFRIAKSILNKGVQVIVLNPGNLATIYQSLKKTDKEDSLKIARLIQRFPIEELPTVPIPNDEEEDNRRLCTEQENWTKQLTQGKNRLHSLFTQAGLTQITKKHLRTKANREISVALLPSRYQKEAERILKVLDLVEQNLKLIEKEIQEALKKNKAYVQTIMSMPGIGMITSLAIMSYMGDCKRFSSAKQAAYYAGLVPRVDISGDTVRYGRIINRGCHSIRRVIVQAAWSLVRCQHGGKVKEFYQRLYLKKGAKKSIIATSRKMIEVLYVMIRTGKLFDSMPENILNRKLTQYGLM
>NC_004342.2|WP_000779367.1|1356119_1356635_+|MepB-family-protein
MKLTRTELIKILDNFQENVLKPCDVSMGSLFFEKEGSDYGACNFELKKWKITFRVAKITPKKVGQFVTLWKRNIQGQIQPYDIQDGTDYFIIYIYDKNRTGQFIFTKDVLLQQGILNGNGEGKLGFRVYPSWDVPYNQQAKKTQKWQLEYFLENLKKDSNQEDRVKHFLKL
>NC_004342.2|WP_000133081.1|1356808_1358005_+|LCP-family-protein
MTDWFCRLEWNWDGASLESKESSKKKSGWLLYIAAGILLFSALIFLISKFNRTGLEEKIAAGKPIYFLFHAVNDSQEYEFGLLATLFPSNNRCALYFIHPITSFDDPDDSLDLLKSGAKSSVKSAITDLIDTKPNYTISISSSQWIRIVDLLGGLDVYTDNKTVRSSSEYNREPGVYTMSGQDVYDYTSKIDKKETLDYLERISRQESVVLTLYEALSQKKEFLTTPLLIFAHSLIESDLSKEDFVSLIKFVNSRRIQFGISELPGEPMNDPKTKKLYLKTDIARARIAFRKFSKDMNSDVFTDAEFARTEVLNGTEVAGLAKDVRGILSDKRIKVLAADNAWKKGFPKTVVIDRSGNTAIMDRISTVLEKAEVHHVLRKDLGLDATVVVGSDYEPRK
>NC_004342.2|WP_001070122.1|1358011_1358383_+|ribosome-silencing-factor
MNPTHKQNPSTEDILRIIRDIMTDKKCEEVSILNLESVNSYLSYFVICTVNSAVQANAVAREVRKTLKEYKLSHKETDKTGTSATSGWTLLDFGEIIVHIMTPEKREYYNLDRLWRDAKRIEL
>NC_004342.2|WP_000577066.1|1358418_1359951_+|MBOAT-family-protein
MIFNSAVFIYFFLVVLAVCYFFAVRKTSRTIQNLFLLIASYIFYGWWDWIFLILIVFVSVSNFYIALLMEQKESIRGHLLFVAVVIDMGILGFFKYYNFFIENLSTILKTSAVFLGAQNSTLFRDDIFLQIILPVGISFFTFQTLSYVIDVYFRKLKAETNLMDFCLFVCFFPQLVAGPIERAGDLLPQIKKDRKIDLDLFYKGCLLILVGYYMKTYVADNLAELADLVLLENSGLYKSNPELAGGHSAIHTVLALCAFIFQIYCDFAGYSYIARGCAFLLGFQLSENFITPEFSVNFRELFRRWHVTLNRWFTDYVYIPLGGSKVSKFHNYRNLFIIFVLSGIWHGASWNFALWGLCCGFYIVLYMVFREPFEKLKIFVKFKFPFLNHPFFIKGFFFWSCFFTMFMFAMSSIFFRSYDGNHVKILFTNVVENFFILKGPNDQIGISNYSMEILKLIGPLLVWDYFHYKNNSAFFIFEKPVIVRVLTYLFFFYCIVLKGVFGKNVIYFAF

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Crispr_ID: NC_004342_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_004342_2

2269996-2270086

Orphan

Consensus_repeat	Method
TGAACTCAATGCATCACTTCCTA	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_004342_2

>merge|NC_004342|2|2269996-2270086|CRISPRCasFinder
TGAACTCAATGCATCACTTCCTACGGGTCGCTGCAGGTCGTTTGAAGGAACTAAAGCGTCTCACTCCCTGAACTCAATGCATCACTTCCTA

>NC_004342|2|2|2269996-2270086|CRISPRCasFinder
TGAACTCAATGCATCACTTCCTA	CGGGTCGCTGCAGGTCGTTTGAAGGAACTAAAGCGTCTCACTCCC
TGAACTCAATGCATCACTTCCTA

Protein	Signature genes	Signature genes Name	Protein_function
NC_004342.2\|WP_000873009.1\|2278986_2279667_-\|TIGR00266-family-protein	unknown	unknown	gnl\|CDD\|376704
NC_004342.2\|WP_000445690.1\|2270436_2271510_+\|IS110-like-element-ISLin1-family-transposase	unknown	unknown	gnl\|CDD\|376773
NC_004342.2\|WP_000486444.1\|2273808_2275143_-\|glucose-dehydrogenase	unknown	unknown	gnl\|CDD\|369642
NC_004342.2\|WP_000194184.1\|2281117_2281786_+\|SDR-family-oxidoreductase	unknown	unknown	gnl\|CDD\|187586
NC_004342.2\|WP_000424879.1\|2263179_2263824_+\|fructose-6-phosphate-aldolase	unknown	unknown	gnl\|CDD\|234947
NC_004342.2\|WP_001053851.1\|2267885_2268626_-\|rRNA-pseudouridine-synthase	unknown	unknown	gnl\|CDD\|224108
NC_004342.2\|WP_000725569.1\|2265410_2266457_-\|DUF1574-domain-containing-protein	unknown	unknown	gnl\|CDD\|369442
NC_004342.2\|WP_001009414.1\|2266470_2267889_-\|MBOAT-family-protein	unknown	unknown	gnl\|CDD\|224610
NC_004342.2\|WP_000394962.1\|2261611_2262238_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_154643026.1\|2276813_2277080_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_001105364.1\|2280369_2281035_-\|TIGR00266-family-protein	unknown	unknown	gnl\|CDD\|376704
NC_004342.2\|WP_001019283.1\|2279679_2280354_-\|TIGR00266-family-protein	unknown	unknown	gnl\|CDD\|376704
NC_004342.2\|WP_000454161.1\|2275383_2276694_+\|radical-SAM-protein	unknown	unknown	gnl\|CDD\|274940
NC_004342.2\|WP_000433870.1\|2269618_2269918_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000021489.1\|2263975_2264284_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_001217817.1\|2262268_2263000_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000714030.1\|2272542_2273709_-\|lipoprotein-LipL45	unknown	unknown	gnl\|CDD\|380173
NC_004342.2\|WP_001113032.1\|2277563_2278661_+\|DNA-alkylation-repair-protein	unknown	unknown	gnl\|CDD\|226785
NC_004342.2\|WP_000614727.1\|2260073_2261609_+\|bifunctional-phosphoribosylaminoimidazolecarboxamide-formyltransferase/IMP-cyclohydrolase	unknown	unknown	gnl\|CDD\|234854
NC_004342.2\|WP_001068714.1\|2268725_2269631_+\|lipoyl-synthase	unknown	unknown	gnl\|CDD\|235493

Protein	Function_ID	Function_description	E-value
NC_004342.2\|WP_000873009.1\|2278986_2279667_-\|TIGR00266-family-protein	gnl\|CDD\|376704	pfam01987, AIM24, Mitochondrial biogenesis AIM24. In eukaryotes, this domain is involved in mitochondrial biogenesis. Its function in prokaryotes in unknown.	5.98011e-74
NC_004342.2\|WP_000445690.1\|2270436_2271510_+\|IS110-like-element-ISLin1-family-transposase	gnl\|CDD\|376773	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family. Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS116, IS110 and IS902. This region is often found with pfam01548. The exact function of this region is uncertain. This family contains a HHH motif suggesting a DNA-binding function.	1.48384e-28
NC_004342.2\|WP_000486444.1\|2273808_2275143_-\|glucose-dehydrogenase	gnl\|CDD\|369642	pfam07995, GSDH, Glucose / Sorbosone dehydrogenase. Members of this family are glucose/sorbosone dehydrogenases that possess a beta-propeller fold.	2.9484e-38
NC_004342.2\|WP_000194184.1\|2281117_2281786_+\|SDR-family-oxidoreductase	gnl\|CDD\|187586	cd05325, carb_red_sniffer_like_SDR_c, carbonyl reductase sniffer-like, classical (c) SDRs. Sniffer is an NADPH-dependent carbonyl reductase of the classical SDR family. Studies in Drosophila melanogaster implicate Sniffer in the prevention of neurodegeneration due to aging and oxidative-stress. This subgroup also includes Rhodococcus sp. AD45 IsoH, which is an NAD-dependent 1-hydroxy-2-glutathionyl-2-methyl-3-butene dehydrogenase involved in isoprene metabolism, Aspergillus nidulans StcE encoded by a gene which is part of a proposed sterigmatocystin biosynthesis gene cluster, Bacillus circulans SANK 72073 BtrF encoded by a gene found in the butirosin biosynthesis gene cluster, and Aspergillus parasiticus nor-1 involved in the biosynthesis of aflatoxins. SDRs are a functionally diverse family of oxidoreductases that have a single domain with a structurally conserved Rossmann fold (alpha/beta folding pattern with a central beta-sheet), an NAD(P)(H)-binding region, and a structurally diverse C-terminal region. Classical SDRs are typically about 250 residues long, while extended SDRs are approximately 350 residues. Sequence identity between different SDR enzymes are typically in the 15-30% range, but the enzymes share the Rossmann fold NAD-binding motif and characteristic NAD-binding and catalytic sequence patterns. These enzymes 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 (15-PGDH) numbering). In addition to the Tyr and Lys, there is often an upstream Ser (Ser-138, 15-PGDH numbering) and/or an Asn (Asn-107, 15-PGDH numbering) 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. Extended SDRs have additional elements in the C-terminal region, 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. Some atypical SDRs have lost catalytic activity and/or have an unusual NAD(P)-binding motif and missing or unusual active site residues. Reactions catalyzed within the SDR family include isomerization, decarboxylation, epimerization, C=N bond reduction, dehydratase activity, dehalogenation, Enoyl-CoA reduction, and carbonyl-alcohol oxidoreduction.	2.07629e-81
NC_004342.2\|WP_000424879.1\|2263179_2263824_+\|fructose-6-phosphate-aldolase	gnl\|CDD\|234947	PRK01362, PRK01362, fructose-6-phosphate aldolase.	1.45744e-146
NC_004342.2\|WP_001053851.1\|2267885_2268626_-\|rRNA-pseudouridine-synthase	gnl\|CDD\|224108	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis].	2.40485e-73
NC_004342.2\|WP_000725569.1\|2265410_2266457_-\|DUF1574-domain-containing-protein	gnl\|CDD\|369442	pfam07611, DUF1574, Protein of unknown function (DUF1574). A family of hypothetical proteins in Leptospira interrogans.	1.87105e-138
NC_004342.2\|WP_001009414.1\|2266470_2267889_-\|MBOAT-family-protein	gnl\|CDD\|224610	COG1696, DltB, Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane].	5.6491e-54
NC_004342.2\|WP_001105364.1\|2280369_2281035_-\|TIGR00266-family-protein	gnl\|CDD\|376704	pfam01987, AIM24, Mitochondrial biogenesis AIM24. In eukaryotes, this domain is involved in mitochondrial biogenesis. Its function in prokaryotes in unknown.	1.83686e-76
NC_004342.2\|WP_000454161.1\|2275383_2276694_+\|radical-SAM-protein	gnl\|CDD\|274940	TIGR04043, hypothetical_protein_WH5701_02349, radical SAM protein, MSMEG_0568 family. Members of this protein family are radical SAM proteins related to MSMEG_0568 from Mycobacterium smegmatis. Members occur within 8-gene operons in species as diverse as M. smegmatis, Rhizobium leguminosarum, Synechococcus elongatus, and Sorangium cellulosum. The function of the operon is unknown, but similarity of MSMEG_0568 to some cofactor biosynthesis radical SAM proteins suggests a similar biosynthetic function. [Unknown function, Enzymes of unknown specificity].	0.000366125
NC_004342.2\|WP_001019283.1\|2279679_2280354_-\|TIGR00266-family-protein	gnl\|CDD\|376704	pfam01987, AIM24, Mitochondrial biogenesis AIM24. In eukaryotes, this domain is involved in mitochondrial biogenesis. Its function in prokaryotes in unknown.	3.31316e-76
NC_004342.2\|WP_001068714.1\|2268725_2269631_+\|lipoyl-synthase	gnl\|CDD\|235493	PRK05481, PRK05481, lipoyl synthase; Provisional.	9.89927e-178
NC_004342.2\|WP_001113032.1\|2277563_2278661_+\|DNA-alkylation-repair-protein	gnl\|CDD\|226785	COG4335, COG4335, DNA alkylation repair enzyme [DNA replication, recombination, and repair].	1.01986e-46
NC_004342.2\|WP_000614727.1\|2260073_2261609_+\|bifunctional-phosphoribosylaminoimidazolecarboxamide-formyltransferase/IMP-cyclohydrolase	gnl\|CDD\|234854	PRK00881, purH, bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional.	0
NC_004342.2\|WP_000714030.1\|2272542_2273709_-\|lipoprotein-LipL45	gnl\|CDD\|380173	NF033165, lipo_LipL45, lipoprotein LipL45. Members of this family are lipoprotein LipL45, as described in Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130 but found broadly in the genus Leptospira. Close homologs that are not lipoproteins by sequence are likely defective in their reported coding region.	0

>NC_004342.2|WP_000433870.1|2269618_2269918_+|hypothetical-protein
MEPVENSHLGPPSEEIKKLIYHSIIRFLSNRETPISRSEIKELLEKTINLIPDLEAHWAEINRFGKNKMILHWKKKVMLIDMEEILESIDLLWNQRFDI
>NC_004342.2|WP_001068714.1|2268725_2269631_+|lipoyl-synthase
MNPLKKKPRTHSLQNAPEKPDWLKVKLAFPDPKNNPVAIVRNSLEEKKLNTVCESASCPNLNHCWSRKTATYMLGGDICTRRCSYCDVASGKPFPLDPEEPKRIAESSIALDLRHVVITSVNRDDLEDGGAAHFAKTVKEIRKGLPDCKIELLIPDLKVKQEALEIIFECNPDIFNHNLETVKRLFPEVAPQKRYERSLDVLKIASARGFLTKSGLILGMGETLEEVKECMQDLASVGVSLLTLGQYLQPTSTHLPVKEYVVPQVFKDLRIYGKSIGFKGVFSGPLVRSSYHADEQISWNP
>NC_004342.2|WP_001053851.1|2267885_2268626_-|rRNA-pseudouridine-synthase
MNLSEMEEFMQHLEIRLNRFLADCGLGSRRKTEELIQKGHIEINGKRVTNLGTRIDPEIDVVSYLGDVVKPIVESKKILIFNKPIGYLCSHADRFHEKTIFSLLPSDYKNFKIAGRLDLNSRGLLILTNDGALAQKITHPSNGSEKEYLVTLKHDPGEKLIQAAFQKGILDAGEILHAKMVKLVPGKKCVYRVILEEGKKRQIRRMFRWFGVSVVDLQRIRIGPLKLEKFNLEEGQYLLTETGIWK
>NC_004342.2|WP_001009414.1|2266470_2267889_-|MBOAT-family-protein
MNFISIEFLLFFLVFYLLYWNIPAKSRKYLLIVGSAFFYSIFSLNFLFHLILVVLINWCLYRYFYEKFWYVKSVVVFNLLNLGLFKYFYLLMEFIGFIFSIPTLQEKTSLDVKFSALFGLAGFEVILPATISYYTFQLISFAVDSKRENFDKKVSLTGFFSFLFFFPVMIAGPILRFDQVRKQFENPTMTPSKLIDGLWLFLRGLVKKGLLSAAILPLIAPVFLSPKDYSGIALLLTCFLFAANLYFDFSGLTDMARGIGKLIGFELPENFKAPFFFQNFGDLWRRWHLTFSLWIRDYIYIPLGGSRKGEFKTSINLIVTFMLGGLWHGANLNFLIWGLLTGIYLSLERLFEVQNWKVFPEIPYIKPILRYLFVLLVYSISWTFFFTPNFNSAISSIVRILTFQKGQSLTGLETGMYMLFFLFLFHISEEWPERYSVPERWRVGLLPILGLLILFIMVGMNAGNADFFYSRF
>NC_004342.2|WP_000725569.1|2265410_2266457_-|DUF1574-domain-containing-protein
MKKIYIYYPILFLGFVFCLDKVFTLEYFQKNFIQAGNTVYYTQRKSLFEKLIRDKDLEVKSLALAFGDSRAYPYSSMGIEQKLQKDWVLYNFSGPQAVPAYGLYWFEKIIKQGLKPKLVFYVVSPEGFDDTKGIFYNPFLKYGADDDFLLKYMDQISFEDRKKLFLDRLFAVRRINPDLKLFIKRFQEKKLSEYDPAFNTDYMVLNLKRGEQFAYTTFVNDPDRLEKDAVRIRNLYLSTFILGTTQFFFVEQFLKLAKENDVKVYLIWPKVYETYRKRYYELEMEKSWWPKIENLAKRYSAVPVDLNTQTSCDLFYDASHQSIMCFLESMKLMIDDYYGFKKIPLYHP
>NC_004342.2|WP_000021489.1|2263975_2264284_+|hypothetical-protein
MSIEYHTSTKLTIEQIQILETSILNNGNYILLETSLQNKFQSENLKFRLSDDHGSFHAEITQAENGLIVSFRISTKKDREKFLNLVITSLKQKGIHCIFEEI
>NC_004342.2|WP_000424879.1|2263179_2263824_+|fructose-6-phosphate-aldolase
MELYLDTANVDEIKEIASYGLVDGVTTNPSLIAKSGRSFKEVIKEICSIVSGPVSAEVLSTKFDGMMKEALELVEIAENVVIKVPLIPEGLKTVVELTKRNIPTNVTLCFSAPQALLAAKAGATFISPFIGRVDDTSWDGMELISEIREIYDNYGYDTRILAASIRGPIHLKESALRGADCATMPHSAFLQLFKHPLTDIGLEKFLEDSKKLKW
>NC_004342.2|WP_001217817.1|2262268_2263000_+|hypothetical-protein
MRIFALLFCLFLISTAELFAQLPDETPTPNRRQPTNTTQQAINLLEGFAESSWGESYANLREKFLSLSTNPQNDEKVEIVYEDKEKTLLIRRNGILYSYRFYSTPKIVTESRPKDQRQPTTENKSEIEEENHSAPGVLFSVGVLFRYLPGKEVQQKLEQKYGKPKKESLAENKIGGAVLWEKTDEKQSPPRGGYVVQWKEAYKKMPFTRRVDYFSSSIKFQIEKEYKEFFNAEEIKTLRDLIP
>NC_004342.2|WP_000394962.1|2261611_2262238_+|hypothetical-protein
MEFLLYLIFFGIVSILLVLASYYFKLLFLSGRESFERLELVDWIRIVPNELIKLLESGGSLQYAGIAFFVSAFVSYLWTLLGGMIGAPHYADSFGNYFFLSFLLPVTLLTTYGILVELVLKDLPSTNPNHFLVLFLEQEVAILSGCSISVIASNLAVYGLFHEISFLFVFPNISIIAVLLVLRWNGKVKIGGIQFSGSKNRSFQEDSE
>NC_004342.2|WP_000614727.1|2260073_2261609_+|bifunctional-phosphoribosylaminoimidazolecarboxamide-formyltransferase/IMP-cyclohydrolase
MIQIKRALISVSDKSGLVEFAKFLNQNGVEIISTGGTLKLLKDNGIAAIAIDDYTGFPEILDGRVKTLHPKVHGGLLGVISNPAHKQKMEELKIPKIDLVVVNLYPFLKTVSKPEVQLEEAIENIDIGGPSMIRSAAKNYKHTLVLTDPNDYKKIQNLISSSGISEEISASYMRKAFSHTAMYDAAISSWFYKQSGEVFPDVLNLSFIKKQKLRYGENPHQAASFYEPLFTKSDFSPLQGKELSFNNMLDFDAAFHISSLLPENTVCIIKHLNPCGIAYADNPLEAFQLARRTDPISAFGGVIGIKGQVNGELATSITENFVEGVIAQKFTQEALEVFSKKPNIRLIEIQDFKEALDELDLRPIHHGLLIQDRDYTTITEKDLKVVTKKQPSPDDIRGLMFAWSCVRFIKSNAIVYTEENATLGIGAGQMSRVDSVQLGANKALNVGLSVVGSYVASDAFFPFRDGIDALAKAGAKAIIQPGGSVRDEEVIQAADEHGLIMVFTGMRHFRH
>NC_004342.2|WP_000445690.1|2270436_2271510_+|IS110-like-element-ISLin1-family-transposase
MESQEVKYVGVDCGKKSIEVVRINSENSLERRQFSTTESGINNLLQWLTLNDIVGLEAGSQSFRIAKSILNKGVQVIVLNPGNLATIYQSLKKTDKEDSLKIARLIQRFPIEELPTVPIPNDEEEDNRRLCTEQENWTKQLTQGKNRLHSLFTQAGLTQITKKHLRTKANREISVALLPSRYQKEAERILKVLDLVEQNLKLIEKEIQEALKKNKAYVQTIMSMPGIGMITSLAIMSYMGDCKRFSSAKQAAYYAGLVPRVDISGDTVRYGRIINRGCHSIRRVIVQAAWSLVRCQHGGKVKEFYQRLYLKKGAKKSIIATSRKMIEVLYVMIRTGKLFDSMPENILNRKLTQYGLM
>NC_004342.2|WP_000714030.1|2272542_2273709_-|lipoprotein-LipL45
MKKFLIVFSSVLTTGLLVFNACKKPTESSKAAATKGNSPSAVVVFSVGEAKILHADLTEEKAALGASLKTGDKVSTKQKSKVDIQFADGSAIRISENSVIDFDALSINSHGNSDTRLALVSGKVFAKVNKASKEDQFSVVTPTAIAGVRGTSFIVDRSKSDKAVVKVLDGAVAVAPRVVVLEGLSDEEIAKNEDLKKIQQTVASSEIVLEKNQASVVKADEKSLDVKDTSKISEKNITGVVKKLDNSGISKKEEEEIRTIVTVDKDTTEKMVRLNEESSGKVDEQKAAVLEAERKKLESEVAARQEEEAKKFKQVLISAPKELKSSKDIVNYYERIEKIIMMDGSSMIGAIVDQQGSTMIVHTEQGIKKINQADVQEVIYDFQTKAKF
>NC_004342.2|WP_000486444.1|2273808_2275143_-|glucose-dehydrogenase
MFQIRDICSIFLRVYFYRFCRLEWILLLVSKLFSLFCNLENFITRFIRLYSCIFLFRVLLTIGVVLILDSPLTADKKQPRRNVIKTKVESIGYVSVADGFQEPTDIQFFPGDPKRMIILEKRGKLIEVDLTTKVKTLRADFTGQIETRSEEGLLGLAFSPDFQTDSKFFVNVIVKEGGKDYSKILEFEWKEHLVQKIEHSKRMILKLEQPYSNHNGGQLAFGPDRKLYIGFGDGGGANDPYKNGQNPGTFLGKLLRILPNPHAAGATYKVPEDNPFVHHPGFLPEIWSYGFRNPWRFSFDKLTGELYVADVGQNEFEEIDLIQKGGNYGWNIREGFHCFKKNPGCVDNFLIDPIHEYSREEGQSITGGYVYRGKEIPKLVGSYLYGDFVTGKIWALKQKNGRKISNELVIQVPFQISTFGQDISGEVYFTDFGSGNIFRIAKKN
>NC_004342.2|WP_000454161.1|2275383_2276694_+|radical-SAM-protein
MEVTNSVRQISTISLLEEMEKKYKSIPIEAIVKQDILRQGIHFLKEVFEVTDPYKTKDYFIFSFDHIPLSELGDVKAPEEIKVSGGHFDLLPTVISTRNNPSSPYKVKKSSDGKPVLYLGETFLGNLEFPPLPAWYRHKTKNGKIPGEIAPVIEWGYLIYLTVFRNCQYFGKEEECAYCDINHNYRQQKNAGRPYTGVKDIEDILEVLSWIDSEDHTAKVYTITGGSVITSLKKKNEIDFYLDYATAIESKFPGRWMGKIVSQAWEIEDCKKFKEAGIQVYHPNYEVWDKNLFQKICPGKEAYIGRDNWIRRVVDSAEVFGPSYVIPNFVGGVELSKPYGFSTVAEAIASTGEGLDFFMSKGIMPRFTAWCPEPYTTLGTQAGPPLEYFCELLTVWKATFEKYNLPIPPGYGEPGPGKAVFSVSAFMDVIGYSGRN
>NC_004342.2|WP_154643026.1|2276813_2277080_-|hypothetical-protein
MNVKFLLLGLFLSLNCYTGPYRYYDDCSLQYSIDCGRNFDYRNRSGYYPYRNHSNYYKVINNGRYRHNPFYVPSGRFHNFGRPSKWKF
>NC_004342.2|WP_001113032.1|2277563_2278661_+|DNA-alkylation-repair-protein
MPDLLKDLYSKNVLERIAISFSKEIPSISEKEWIQKFKQKDWKQLELKQRIRRIGEVLAKVLPKPFPQSLLKITDSLEKSFEGKEIFLTIFLGDVVEILGIDYPKKSMQAIERITKLISCEFSIRPFLIRHPELTWKQMLEWSSHEHPGVRRLSSEGSRPRLPWGMGIPGLKQDPEKTLPILENLKDDKDEVVRRSVANHLNDISKDHPDLVLKIAQQWIGFSKERDLLLKHALRGLLKSGNPKALAIFKFDSDVKVKISNLKLKSKTVKIGEDLFFSFTVRSEQSKQTRLRIEYKIQYAKISGKTSKKVFQVEERLFQPNESTSYQKKQSFKQMTTRVHISGKHVLEIYINGNLKSKTDFQVIV
>NC_004342.2|WP_000873009.1|2278986_2279667_-|TIGR00266-family-protein
MKYEILLKPDFPIVQVQLNDGESIRAESGAMVAMSPTVKMITKAEGGVFASAKRALLGGESFFQNTFKSEGGTGTLFLTSATQGDIEYRKMNGEDLILSRGAYVAGSESITIDSKWGGFKGFFSGEGLFFLKVGGTGDLFFSSFGAIHTIDVNGQYVVDTGHIVGFEGTLDYTIQKVGGLKSLFLSGEGLVAVFSGSGKLYIQSRNQNSFVSWANQWRRVEKSSSD
>NC_004342.2|WP_001019283.1|2279679_2280354_-|TIGR00266-family-protein
MNIEIISKPSYSFAKVLLNGGESIKAESGSMMSMSSGITIQTHKAQQGGFFKSLKVAFLGGESFWMNTFTASSGNGEVLLAPTLPGDVERIELSGTVYVQSSSFLASSPNIEMDTKFQGLKGFISGESLFFLRLSGNGFLLISSYGGIDVLNVDGEMIVDTGHIVAFEEGLNYEMTKFGGWKSFFLGGEGFVARFKGKGKVWIQSRNVPSLGSWFRNQLPPIKR
>NC_004342.2|WP_001105364.1|2280369_2281035_-|TIGR00266-family-protein
MNYEIIHKPSYSFLKVKLSPGQTIKAESGAMVYMTPGIDVETKMGSGFLSAISRRFFGGESFFFNVFKASVTGGEIGLAPELPGDVVGIDLTDTGLIVESGAYLASDETISIKPMFGGIRSFFGGEGIFLLEAFGNGKLFLNAYGGIIPIDVQGSYTIDTGHIVAFDKSLQYKIAKAGGSWKSTFFGGEGLVMEFTGHGRVLIQTRVPSGFLSWLTALLPN
>NC_004342.2|WP_000194184.1|2281117_2281786_+|SDR-family-oxidoreductase
MTQRNILITGSNRGIGLELTKQFLSQGDQVFALCRKSSSELIHLKPTRIFEGMDVLNSNSIRDLPSKLLDTKIDILINNAGILIPDNLQSLDEENVFTQFLVNALGPLKVVKVLLSSLKKNAKLIFLTSRMGSIADNNSGSYYGYRASKAALNAIAVSLAKDLSPRGISVGIFHPGMVATRMSGGQGISITESVEGLIKRIESLNLHNSGKFFHQNGEELPW

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Crispr_ID: NC_004342_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_004342_3

2415309-2415408

Orphan

Consensus_repeat	Method
TTAGTGGTAGTTCCTACATTTTAG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_004342_3

>merge|NC_004342|3|2415309-2415408|CRISPRCasFinder
TTAGTGGTAGTTCCTACATTTTAGTGTAAATCTTTGACTTAGTGGTAGTTCCCACATTTTAGTGTAAATCTTTGACTTAGTGGTAGTTCCCACATTTTAG

>NC_004342|3|3|2415309-2415408|CRISPRCasFinder
TTAGTGGTAGTTCCTACATTTTAG	TGTAAATCTTTGACTTAGTGGTAGTTCCCACATTTTAGTGTAAATCTTTGAC
TTAGTGGTAGTTCCCACATTTTAG

Protein	Signature genes	Signature genes Name	Protein_function
NC_004342.2\|WP_002067182.1\|2405330_2406983_-\|acetyl-CoA-carboxylase-carboxyltransferase-subunit	unknown	unknown	gnl\|CDD\|227136
NC_004342.2\|WP_000004280.1\|2410218_2410527_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_020380978.1\|2402167_2402506_+\|YceK/YidQ-family-lipoprotein	unknown	unknown	unknown
NC_004342.2\|WP_000612757.1\|2407387_2410204_-\|SpoIIE-family-protein-phosphatase	unknown	unknown	gnl\|CDD\|369272
NC_004342.2\|WP_000464836.1\|2420415_2421918_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|215061
NC_004342.2\|WP_001281423.1\|2410816_2411497_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000116243.1\|2411499_2412036_+\|peptide-deformylase	unknown	unknown	gnl\|CDD\|237227
NC_004342.2\|WP_000915032.1\|2422083_2423055_-\|membrane-protein	unknown	unknown	gnl\|CDD\|275130
NC_004342.2\|WP_000425211.1\|2432605_2433523_-\|DUF350-domain-containing-protein	unknown	unknown	gnl\|CDD\|226289
NC_004342.2\|WP_000616854.1\|2400706_2401750_+\|chemotaxis-response-regulator-protein-glutamate-methylesterase	unknown	unknown	gnl\|CDD\|234828
NC_004342.2\|WP_000564921.1\|2402579_2405324_-\|biotin-carboxylase	unknown	unknown	gnl\|CDD\|236307
NC_004342.2\|WP_002077265.1\|2433533_2434292_-\|type-I-methionyl-aminopeptidase	unknown	unknown	gnl\|CDD\|235576
NC_004342.2\|WP_000572974.1\|2430206_2431145_-\|tRNA-epoxyqueuosine(34)-reductase-QueG	unknown	unknown	gnl\|CDD\|272993
NC_004342.2\|WP_000348053.1\|2429007_2429853_-\|leucine-rich-repeat-domain-containing-protein	unknown	unknown	gnl\|CDD\|275380
NC_004342.2\|WP_001080345.1\|2415449_2416532_-\|PepSY-domain-containing-protein	unknown	unknown	gnl\|CDD\|377164
NC_004342.2\|WP_000406879.1\|2407074_2407404_-\|STAS-domain-containing-protein	unknown	unknown	gnl\|CDD\|132914
NC_004342.2\|WP_001976156.1\|2425400_2426687_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|275380
NC_004342.2\|WP_011069710.1\|2426896_2428798_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|215061
NC_004342.2\|WP_001168400.1\|2431165_2431600_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000839353.1\|2412055_2415298_+\|efflux-RND-transporter-permease-subunit	unknown	unknown	gnl\|CDD\|223911

Protein	Function_ID	Function_description	E-value
NC_004342.2\|WP_002067182.1\|2405330_2406983_-\|acetyl-CoA-carboxylase-carboxyltransferase-subunit	gnl\|CDD\|227136	COG4799, COG4799, Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism].	1.7975e-128
NC_004342.2\|WP_000348053.1\|2429007_2429853_-\|leucine-rich-repeat-domain-containing-protein	gnl\|CDD\|275380	sd00033, LRR_RI, leucine-rich repeats, ribonuclease inhibitor (RI)-like subfamily. A leucine-rich repeat (LRR) is a structural protein motif of 20-30 amino acids that is unusually rich in the hydrophobic amino acid leucine. The conserved eleven-residue sequence motif (LxxLxLxxN/CxL) within the LRRs corresponds to the beta-strand and adjacent loop regions, whereas the remaining parts of the repeats are variable. LRRs fold together to form a solenoid protein domain, termed leucine-rich repeat domain. Leucine-rich repeats are usually involved in protein-protein interactions.	6.01516e-40
NC_004342.2\|WP_000612757.1\|2407387_2410204_-\|SpoIIE-family-protein-phosphatase	gnl\|CDD\|369272	pfam07228, SpoIIE, Stage II sporulation protein E (SpoIIE). This family contains a number of bacterial stage II sporulation E proteins (EC:3.1.3.16). These are required for formation of a normal polar septum during sporulation. The N-terminal region is hydrophobic and is expected to contain up to 12 membrane-spanning segments.	7.32649e-56
NC_004342.2\|WP_000464836.1\|2420415_2421918_-\|hypothetical-protein	gnl\|CDD\|215061	PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional.	2.88363e-28
NC_004342.2\|WP_000116243.1\|2411499_2412036_+\|peptide-deformylase	gnl\|CDD\|237227	PRK12846, PRK12846, peptide deformylase; Reviewed.	6.93109e-80
NC_004342.2\|WP_011069710.1\|2426896_2428798_-\|hypothetical-protein	gnl\|CDD\|215061	PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional.	1.17685e-50
NC_004342.2\|WP_000425211.1\|2432605_2433523_-\|DUF350-domain-containing-protein	gnl\|CDD\|226289	COG3766, COG3766, Predicted membrane protein [Function unknown].	1.84718e-05
NC_004342.2\|WP_000616854.1\|2400706_2401750_+\|chemotaxis-response-regulator-protein-glutamate-methylesterase	gnl\|CDD\|234828	PRK00742, PRK00742, chemotaxis-specific protein-glutamate methyltransferase CheB.	2.87962e-174
NC_004342.2\|WP_000839353.1\|2412055_2415298_+\|efflux-RND-transporter-permease-subunit	gnl\|CDD\|223911	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms].	0
NC_004342.2\|WP_000564921.1\|2402579_2405324_-\|biotin-carboxylase	gnl\|CDD\|236307	PRK08591, PRK08591, acetyl-CoA carboxylase biotin carboxylase subunit; Validated.	9.06789e-45
NC_004342.2\|WP_002077265.1\|2433533_2434292_-\|type-I-methionyl-aminopeptidase	gnl\|CDD\|235576	PRK05716, PRK05716, methionine aminopeptidase; Validated.	1.34861e-143
NC_004342.2\|WP_000572974.1\|2430206_2431145_-\|tRNA-epoxyqueuosine(34)-reductase-QueG	gnl\|CDD\|272993	TIGR00276, iron-sulfur_cluster-binding_protein, epoxyqueuosine reductase. This model was rebuilt to exclude archaeal homologs, now that there is new information that bacterial members are epoxyqueuosine reductase, QueG, involved in queuosine biosynthesis for tRNA maturation. [Protein synthesis, tRNA and rRNA base modification].	2.58951e-79
NC_004342.2\|WP_001080345.1\|2415449_2416532_-\|PepSY-domain-containing-protein	gnl\|CDD\|377164	pfam03929, PepSY_TM, PepSY-associated TM region. The PepSY_TM family is so named because it is an alignment of up to five transmembranes helices found in bacterial species some of which carry a nested PepSY domain, pfam03413.	2.14678e-51
NC_004342.2\|WP_000406879.1\|2407074_2407404_-\|STAS-domain-containing-protein	gnl\|CDD\|132914	cd07043, STAS_anti-anti-sigma_factors, Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation. Anti-anti-sigma factors play an important role in the regulation of several sigma factors and their corresponding anti-sigma factors. Upon dephosphorylation they bind the anti-sigma factor and induce the release of the sigma factor from the anti-sigma factor. In a feedback mechanism the anti-anti-sigma factor can be inactivated via phosphorylation by the anti-sigma factor. Well studied examples from Bacillus subtilis are SpoIIAA (regulating sigmaF and sigmaC which play an important role in sporulation) and RsbV (regulating sigmaB involved in the general stress response). The STAS domain is also found in the C- terminal region of sulphate transporters and stressosomes.	4.89607e-25
NC_004342.2\|WP_001976156.1\|2425400_2426687_-\|hypothetical-protein	gnl\|CDD\|275380	sd00033, LRR_RI, leucine-rich repeats, ribonuclease inhibitor (RI)-like subfamily. A leucine-rich repeat (LRR) is a structural protein motif of 20-30 amino acids that is unusually rich in the hydrophobic amino acid leucine. The conserved eleven-residue sequence motif (LxxLxLxxN/CxL) within the LRRs corresponds to the beta-strand and adjacent loop regions, whereas the remaining parts of the repeats are variable. LRRs fold together to form a solenoid protein domain, termed leucine-rich repeat domain. Leucine-rich repeats are usually involved in protein-protein interactions.	2.21785e-46
NC_004342.2\|WP_000915032.1\|2422083_2423055_-\|membrane-protein	gnl\|CDD\|275130	TIGR04327, hypothetical_protein_LlicsVM_10020, outer membrane protein, LA_2444/LA_4059 family. Members of this family are predicted outer membrane proteins, apparently restricted to the Leptospiraceae (Leptospira and Leptonema).	1.58383e-103

>NC_004342.2|WP_000839353.1|2412055_2415298_+|efflux-RND-transporter-permease-subunit
MKSLVEFFLSKSIFVNLLTFLVILIGGFTAVKMNREAFPNINFDIVSVVTVFPGASPSEMEKLVTKPLEEAIQEVDGIKEFRSASIENRSGIVITLDPDSKNTQKVVDDIKSAIDRVEDLPEEAEDPIVTEITTSRQPVIEINISLKSNDSSIEAEKHLKAQAKIVEQALEDIPGVARISKRGWRDTEMQVDIDPVAMFSKYLTSQDIIFALKNRNINFPGGNIAGNQKEVILRTIGEFNSPKEIETVHVRSNEVGNSIRIDNVARVTEGLKEAEYLDKVNGKKTIALTVIKREKADAILVVDEAKKIIEEFKKNSKNEFEYAFVNDLSKYIRRRLGVLLSNAIGGLILVTASLFLFLGWRVALMTALGIPVSFGATFVIMDYLGLTLNLISMFGLIIVVGILVDDAIIICENVYRYMEEGMPAYEAALKGTSEVIDPVTATVTTTVAAFAPMLFMTGIFGKFIYSIPLVVIIALLASLSEAFFILPSHLYDINKHKFHSGEIKEESGWFYKLKVNYYLPLLKFALKHRLQIFIYLFAMLVGSFALFAVFGRFKLFPGSVDVFQIKLTGQTGISLQEMEKFTHALETELAKISKEEIENYVTRVGIIQKDPNDPFTKRGKHYAQVLVYMTPEENRKRGTDTIISEIREKTIWLLNEKSVKTLEETRKKEAEKKKEEYKPFNLNEYPAEFSRFKGQLLALDFEKLAGGPPVGKPVAIEIRGDDYDTLIRIGEEYKSVMAKVPGVTDIGDDFNEGKDEIRIKVNESLASTAGVSVFKVAQAINTAFQGTVATKIKRADEEVEVKVRFPEEVRKSIGSLNNIFVSNQLGKLIPVSRLINYVREPGFANINHLDGKRLLTVTANLDEIKTDTRRANAEIAKLSKGIIDKYPGYRMRFGGENKDTEESLASLGRAFLVAFIIIFMILASLFRSLIQPVIVVSSIPFSLIGVILAFVLHGEYFGFLAFLGIVGLAGVVVNDSIVLVDFANQLKLEKPGEDIDSILVETGLLRLRPVVLTTVTTVLGLLPTAYGIGGKDPFLVPMALAFGWGLAFSSFLTLVAVPVLYKTVHNVQLKINRVFLKSKR
>NC_004342.2|WP_000116243.1|2411499_2412036_+|peptide-deformylase
MSVRKILRMGDPILRKISEPVTEDEIQTKEFKKLIRDMFDTMRHAEGVGLAAPQIGILKQIVVVGSEDNERYPGTPDVPERIILNPVITPLTKDTSGFWEGCLSVPGMRGYVERPNQIRMQWMDEKGNQFDETIDGYKAIVYQHECDHLQGILYVDRLKDTKLFGFNETLDSSHNVLD
>NC_004342.2|WP_001281423.1|2410816_2411497_+|hypothetical-protein
MSDLIQIRRWNIDNKNVLILIPDLESKERQLYAKNFYSHFSIREVELSTKLVRFDFPKTEEWIDRLSREILDSKRKVKLIGEGLWGGIVFELLKKYPQMIEAACILNPPLNRKEENWFPKNVEWILERFPWNLFSEGIYTFYQTLETKLQFGLTNSKLLPTIVFTKTPEKITKQIQTLQKFPVFRIESSNLKSIHELLENLILKILTEVPISSVQKKSKFKIDPGF
>NC_004342.2|WP_000004280.1|2410218_2410527_-|hypothetical-protein
MSESIEDLQKKLKIQNDIIKGYEKVLRLNEQELENADEIIRMYEGIIQYSGKELKDVKEAFDATNVVTNLSREELMSALSRIKELENVNKKLREEALKFQTG
>NC_004342.2|WP_000612757.1|2407387_2410204_-|SpoIIE-family-protein-phosphatase
MIPNKKQDSLLRQGSDGSLYLEDNPGLTVVFESLLTEIIHITSAKFGIFSFRLEDGTLKSIYGNHPSNKIEEAKLVSEFCFKTGQDLNLKKGESPNKLIPQLEQNSVCCVLHVGELGDSSLEDQKKIFGTILLGRSDQEGGEFRESDFIHLKATVRIISDLLEKSFISGESSLVVLSLMTISRVALESVQIRKQTDRFDFLLTEIIRVSGLINKSLDLSQLLEAIMLSSKSVFRTEACSVLLLDDTKEYLYFHTVLGEKRDEVTKVKVPVGKGIAGMVVQDKKPMIINDAMNDPRVYREVDKASHFVTRNIMAAPLLVEGQVIGVIETINTIDRNSFTEEDLELFLSFSGTSALAIQKTGLLQNLEDANKDLRKKVSELESLFELSQVVSSAKSQADLMKHSIPVIHNEMDAGRTGIFLINRRMGLLTCISYTSEKIVEIFRTKDYQGSFIYRSVEEEKTTIKEDIQNFEFNHELDLEFLKGSYIVLPLTNPERNAFGVITVSDRVDKLSYNYSHLRLLQTFASLIARGHETLKLQNEMISRKAMQRSLEREIEITREIQKNILPESKVFHSNFDLGVKSVPAKEVSGDFYDYYQYQDGQYSFLISDVSGKSLPAAIFMAMSSSIIRTLARDHDLDPEEILKQGNALIYEDSHNGMFVTTFFIHYNPAIFTLDYASAGHNDQVLIRKDDSWEIIKGSGPPLGVLPSASYKGGSLTVEPGDMLILYTDGAIEEKNSKDEEFGLERMIREVIARKHLTSQEIVEELFGLVRKFSGAPELFDDFTVMILKFNDNYQFSRIFEAKTSEIPLFREFVYQTIKVRNLEDSQRDDILLACDEAGTNIVMHGYENTDLKNPKFECKIRFTGDWITIVLIDSGKVFHREEVQDPSIEDNLSGKRKGGFGVYLIEKLMDSVDYSSEGGKNFLVLKKNFRNKASNGNNV
>NC_004342.2|WP_000406879.1|2407074_2407404_-|STAS-domain-containing-protein
MEITSEIKNHSKIIHLIGNLDVHNTHKIESAFMEQIKTGNSRVIVLDLSSVEFISSAGLRIIVAALRICREKDVEFRLAGIKPAVKKVFEIIDMNSMFSIFETLESAIK
>NC_004342.2|WP_002067182.1|2405330_2406983_-|acetyl-CoA-carboxylase-carboxyltransferase-subunit
MSEAKYSLENPFQSTSEPEVLKPRGLYEEANELGKELLNKPLLGGGVDRILVQHSKDRMTVWERIKVLTDQEPNILYQNWGKSLDGASLVTGILNINGRDVAVYGHDFTLRAGSMDATNGSKLARLIYMAGEHGIPLIGMNDSAGAYVPAGVGGLDGYSEAFTALRKISGVVPSLMLMFGFNAGGGAYLPRQGSFMIQCDNTFFGLTGPGVVKSVLGEDISADDLGGPKVHGQSGVVDIVTGDELGSLRTALRLLSYLPDNNHSFAPFHATSDPTNRFIYEEEILFKKTFNSPTGMNTPFDITLYLQNICDHGQYFEIQGQRSRNLVTAFGRIGGHVVAFVANNSAVASGQIDIGAARKGTRFIRFCNLYNIPIVFLEDTTGFLPGKEQEQNGIVLEGRKLLDSIIDIRTPRLTLIIRNAFGGAYACFNSYHTGADMVFALPTARIAVMGPAGKDYVYKDEVSSIQKEYQENVKKGMSEKEAIVIRDKKLQTLSTQYEKELMNPKEALSLGSVSRIVLPGTTRNILFQNLDYLIRHYKPAPLSGPQREFE
>NC_004342.2|WP_000564921.1|2402579_2405324_-|biotin-carboxylase
MIDFQNNRIQFHQSSSPWIRSFSLESIKCLIVCRGPVRKEAMEIFDSIGIREYGILLSEKDSVVYPMALAPELRGFRFPNNIHRVPDYMGAGKEEKMERIEQIISIAKDNKYTHIFAGYGFMAEDSEFISAIEKSGVVFMGPASYVADQAGSKDAAKKIARKLEVSVTPGVDNISSLALLAKAPDAKSLEKIAKEKGIDFIFDPSLSLEVNAENLLELGYSKIIEFVSIADLQVEAEKECKKIWEKYSKNRIRFKYIGGGGGKGQRVVSKPEEVKGAVQEILSESKVTAPGTNKNFLIELNIENTRHNEIQLIGNGEWCLALGGRDCSVQMHEQKLLELSLTQELLEKEIAACAATHPKKAEVLKGDLKVLREMEEQSERFGAAVKLNSVSTFESIVEGTNHFFMEVNTRIQVEHRVTEMVYSLKFKNPENQNEFFIVDSLIEAMALLSLHGKRLQKPERIFRFPSGAEVRINATNKAIQPHAGGVIMNWSKPLADEIRDDQGISIRNPDMGLFVHYKVAGAYDSNIALLISHGENRKDNLIRLGNILRKTELRGYDLQTNLLVHYGLIHWILGKDAMFKPSTSFMISYLAGVGALEKIIKDVDLEIAWKKIISEASADLKKVLSRKLTLITRPIGELIKDAHLSAGFIGFHLNRSWKISDSKIEWLRNPIFILADLYHYLNMEADPSLPPSEQIWDHDDEVLQKALSFYQELAKRTGSNPDSIELVASLNAGKSLNGIEAGLLSSVLASHNGYQSGLELLKLLPYAGLNSGFYKLEVDEKLEAVIPEEFRKTETRDSLIKFLAPPPKASSDEIVAPMGGMFYSKEAPDLPPMIKVGDHFKAGQPLFIVEVMKMFNKISAPFSGTVKEILLNDSDGKIISKGQTIFKIVPDEVIHIETEAEITERKKKITLSLI
>NC_004342.2|WP_020380978.1|2402167_2402506_+|YceK/YidQ-family-lipoprotein
MRIKPFFLILIVLQISIFLNCGTIFGIFQTYSYEKRMENRKSSMILGMPTDHSPIFAGVNFEYSMMKFLKAENIYFYLLILDFPLTILMDSVFLPISVPLSIHHYYKDKQQL
>NC_004342.2|WP_000616854.1|2400706_2401750_+|chemotaxis-response-regulator-protein-glutamate-methylesterase
MIQVFIVDDSAVVRQVLTQILNKDPEIEIIGFASDPIFASEKLSSVWPDVFILDIEMPRMDGISFLKKIMSEKPTPVIICSSLAEKESETAVLAMKLGAVDIIEKPKVGLKNFLEESEILFIDSVRAASNARVKTHSFQNDDSKFLENHKQPKTDFSKIDTTDKLIAIGTSTGGTQALEFILTQLNIHCPGIVIVQHMPEKFTEAFANRLNQVCKIQVKEAKDGDRVQLGSAYIAPGNKHMEIYLSGAQFHIRVLDGPLVNRHRPSVDTLFHSVAKAAGKNAKGIIMTGMGNDGANGLLKMKQSGAHTIAQDEASCVVFGMPKEAILKGAVNTILPLSKIVGEVQYF
>NC_004342.2|WP_001080345.1|2415449_2416532_-|PepSY-domain-containing-protein
MNRKKLYKLHSILGISTGVFLVIVGLSGSLLVFGKEIDQLLNPNLWYISASKERLSIDVLRAKLKQELPSHALAGWLLSEKQNQPDQVWLHFLDSKDRKESIILLNPYTGKILGILSEKRSDSFYSWMLKLHYSLLMGSFGYFLTTLFGVIFIFQGFSGVILYRSIWQNLFRLRTKQSLRTFFSDLHKLVGVFSLVFNISLGFTGAWWNVQAIVGLLSAQEERKVEKFFKESISVDSLLKEIKMQLPEFQTGFVSFPHHHEKDPIQFYGTERLTNPFRSRFGSYFRFDSESGKLLEIFNLSNENLFYTIIDSFRPIHYGTFGGIITKILWVILGLSPGILYISGIGILISKRNLQEKRKN
>NC_004342.2|WP_000464836.1|2420415_2421918_-|hypothetical-protein
MFFGFRRHVRIFLTIVFGLFSVQLQANDGYETFTNLKEALEHASSFSSSNVRILDLSRQKFAVFPKEIWELEYLEILKLEENRITTLPREINKLKNLKELYLNGNKLTIVPKEIWELENLTILRLENNRISTLPKEIEKSKNLQELNLRGNRLVTLPGEIGELKLLEELNLENNRIKILPNEIGALENLWIFNLSGNKLASIPKEIGNLQNLRMLYLENNQLKTLPRQMEKLQDLEVLNLLINPLLSKERKKIQALLPDCDIDLRDVEEGETYRNLNLALEQPLKILSLSLEYQQFPLFSKEILRLKNLRSLSLYDTSLVALPKEIVRLKHLEHLSLGLNQLKSLPKEIGLLRNLRSLDIGANNEFEVLPKEIARLQNLRSLLLNQNRFKIFPKEIWELKKLVILNVNTNQLDALPEKIGRLKGLQMLDLSHNRLTTLPSEIGQLHNLTELYLQYNRIKTLPEEIARLQNLRKLTLYENPIPPQELDKIRKLLPNCEIRF
>NC_004342.2|WP_000915032.1|2422083_2423055_-|membrane-protein
MLKKTSYFSIWQKGFKVSIFLIFYILFPSSVLSQTEENKKNTFELLIKRQTYRWTPYDYTSYTERSILETTIKTDSIKQNQKVLIPLVFRYDQLEKKFRIEVSAYEIELANPNTNVIESGTLGYETRKQYFNPMLRSEAELNYYKILNLYPNWDFFAGAGIRNINKYKYGYFLREGVYEEYFYTYGPQFVFRTEYRFAENWSLSLAADLFYTQGTRFYKPQVLTLESMTVSAGTAGAQGIYRGYELDVSLGYRVFDAVKFFVGYNYIYSYFSYYSFHQTDIRLQTSSLDPFISENSSAPILHMFRSGNHDILQGLYLGMSVSF
>NC_004342.2|WP_001976156.1|2425400_2426687_-|hypothetical-protein
MNFRITLIYLQKITIGLLFLITLSCEIQADEVKPGTYMDLTKALQNPLNVRVLDLSGQNFTTLPKEIEQLKNLQKLYLFDNRLKTLPKEIGQLKNLQELNLSSNQLTILPKEIGKLENLQRLDLYDNRLTILPIEIGKLQNLQTLYLSSNQLTTLPRESGKLENLQELNLSDNQLTTLPQEIGQLQNLQTLNLKSNQLTTLFKEIEQLKNLQTLNLSDNQLTTLPIEIGKLQNLHTLNLSDNQLTTLPIEIGKLQNLHTLNLSDNQLTTLPIEIGKLQNLHTLNLSGNQLTTLSIEIGKLQNLQDLNLHSNQLTTLSKEIEQLKNLQTLSLSYNRLVILPKEIGQLQNLQELNLWNNQLTALPIEIGQLQNLQTLSLYKNRLMTFPKEIGQLKNLQTLYLGGHNQFSSEEKERIRKLLPNCKIYFGDN
>NC_004342.2|WP_011069710.1|2426896_2428798_-|hypothetical-protein
MNFRITLIYLQKITIGLLFLITLSCEIQAEAPEDEPGTYRDLTEALQNPLNVRVLNLSGQNFTTLPKEIEQLKNLQELDLGDNQLATFPAVIVELQKLESLDLSENRLVMLPNEIGRLQNLQELGLYKNKLITFPKEIGQLQNLQTLNLQDNQLATLPVEIGQLQNLEKLNLRKNRLTVLPKEIGQLQNLQTLNLQDNQLATLPVEIGQLQNLQTLGLSENQLTTFPKEIGQLENLQELNLKWNRLTALPKEIGQLKNLENLELSENQLTTFPKEIGQLKKLRDLGLGRNQLTTFPKEIGQLKNLQMLDLCYNQFKTVSKEIGQLKNLLQLNLSYNQLATLPAEIGQLKKLQDLSLGRNQLTTLPKEIGQLKNLYNLDLGTNQLTTLPKEIGQLKNLYNLGLGRNQLATFPKEIGQLENLQELDLWNNRLTALPKEIGQLKNLENLELSENQLTTFPKEIGQLKKLQDLGLSYNRLVILPKEIGQLEKLQDLGLSYNRLVILPKEIGQLKNLQMLDLCYNQFKTVSKEIGQLKNLLQLNLSYNQLATLPAEIGQLKNLYNLDLGTNQLTTLPKEIGQLKNLYNLGLGTNQLTTLPKEIGQLKKLQWLLLSVNPILPQEKERIRKLLPNCEIRF
>NC_004342.2|WP_000348053.1|2429007_2429853_-|leucine-rich-repeat-domain-containing-protein
MDFTLRFRIKSCGESTMKFRITLIYLQKITIFLLFLIYLSCEIQAEAPEDEPGTYRDLTEALQNSLDVRILILSEQKLTTLPKKIEQLKNLQMLDLCYNQFKTVPKEIEQLKNLQMLDLCYNQFKTVPKKIGQLKNLQVLNLSSNQLTTLPKEIGKLENLQVLNLSSNQLITFPKEIGKLENLQVLNLGSNRLKTLPKGIEQLKNLQTLYLNYNQLTTLPREIGRLQSLTKLHLQHNQIATLPDEIIQLQNLRKLTLYENPIPPQELDKIRKLLPNCEIRF
>NC_004342.2|WP_000572974.1|2430206_2431145_-|tRNA-epoxyqueuosine(34)-reductase-QueG
MIESKEIISEFKTLIEGSGFDLYGICEANIPEEDRENILLWVKEHKHGNMEWYPKNMDLRLDFKNLGFDPQSVIVLGAIYNDPEYEKIRSGMTFQFSKYAVGEDYHRVLRKHAKPLIKALQKKYPNHHFRQGVDSLPVPEKVLARLAGLGWKGKNTNLIHPEIGSFFFITVILTDLPIYTTQVQIKDRCGTCTACIDACPTGALKPYQIDAGKCISHHTLEDGSEEIPDTYGWLVGCDICQDVCPWNRVKAFKKGIRTGLEEFKVRSYLKENPESILTLNEQEFEKTFSDSAISRMNFKMYQRNVNKLKNKI
>NC_004342.2|WP_001168400.1|2431165_2431600_+|hypothetical-protein
MQKELSENSNFTRKDLTIFAKPPISISRSDFITAARLTLSSTNINFATSNPSEQRTLKNNRKFSKQIIFASVLGALKGFEERDLKPFHVNHKPIFTEIGSEILNTEFNPILNEDKIQILKNAFDYGIRKVYHLEWKLYTSKELY
>NC_004342.2|WP_000425211.1|2432605_2433523_-|DUF350-domain-containing-protein
MEMILGYLSVLGRDAVFFLISFILFYIGKKIKDWIEPGDLDQEIVVKNNTAVSTGLSGYYLGLTLILLVILSSPGTDFISDCFQVLYYGILGILLLNLSYFINDKLIFRSLDFNELVYSGRNVAVGAVVFGSSLASSIIIAASLSGENAGLAFSIWKNSGLLEPVQKLLDGTLLGIVFFIVGQIALILFTIAYRKIVPYSLDVELKEKENLASGISYSGALVALGIIIARALHKDPVSMEHTLFQIFLDFILGLLVIPAVRLLTDAVILPGSTLKEEISRDQNVGVGILEAVVLVSFAGILFYAV
>NC_004342.2|WP_002077265.1|2433533_2434292_-|type-I-methionyl-aminopeptidase
MIFIKNKSEIEKMRAAGKLAARLLDYISSYVQPGVSTLQLNDLCEEFTKKHGARSAPLGYKGFPKSICTSVNQVVCHGIPKANEVLKEGDIINIDVTPILDGYHGDSSRTFIVGGNTSSEVKTLVQDTEKAMFIGIEQVRPGNRVHDIANAIDDFLTPKGYGIVRDLMGHGIGRGFHEDPQIPHFRQNRKLAKLEPGMVFTVEPMVNLGTWQVNFSKEDHWTVTTRDGKWSAQFEHTVLVTEKGYEILTVSD

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Crispr_ID: NC_004342_4

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_004342_4

2677849-2677942

Orphan

Consensus_repeat	Method
AAAACTCAACACAACGCTTTCCT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_004342_4

>merge|NC_004342|4|2677849-2677942|CRISPRCasFinder
AAAACTCAACACAACGCTTTCCTCAAACTCAATGCATCGCTCCCTAAGGGTCGCTCTGCAGGTCGCGTTGGAAAACTCAACACAACGCTTTCCT

>NC_004342|4|4|2677849-2677942|CRISPRCasFinder
AAAACTCAACACAACGCTTTCCT	CAAACTCAATGCATCGCTCCCTAAGGGTCGCTCTGCAGGTCGCGTTGG
AAAACTCAACACAACGCTTTCCT

Protein	Signature genes	Signature genes Name	Protein_function
NC_004342.2\|WP_001097878.1\|2681234_2682485_-\|KamA-family-radical-SAM-protein	unknown	unknown	gnl\|CDD\|224426
NC_004342.2\|WP_000287368.1\|2673574_2674693_-\|thiolase-family-protein	unknown	unknown	gnl\|CDD\|238425
NC_004342.2\|WP_000146501.1\|2686650_2687754_-\|dehypoxanthine-futalosine-cyclase	unknown	unknown	gnl\|CDD\|274731
NC_004342.2\|WP_001190719.1\|2679418_2680105_-\|iron-containing-redox-enzyme-family-protein	unknown	unknown	gnl\|CDD\|379634
NC_004342.2\|WP_001016360.1\|2676569_2677682_+\|acetylglutamate-kinase	unknown	unknown	gnl\|CDD\|235306
NC_004342.2\|WP_001038596.1\|2680117_2681242_-\|D-alanine--D-alanine-ligase	unknown	unknown	gnl\|CDD\|273498
NC_004342.2\|WP_000215708.1\|2682568_2683243_+\|HAD-family-hydrolase	unknown	unknown	gnl\|CDD\|223620
NC_004342.2\|WP_000027963.1\|2669978_2670506_-\|P-loop-domain-containing-protein	unknown	unknown	gnl\|CDD\|284995
NC_004342.2\|WP_001967602.1\|2672529_2673561_-\|glycosyltransferase-family-9-protein	unknown	unknown	gnl\|CDD\|340821
NC_004342.2\|WP_000181054.1\|2675303_2676554_+\|N-6-DNA-methylase	unknown	unknown	gnl\|CDD\|236981
NC_004342.2\|WP_000830940.1\|2668795_2669347_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_001112541.1\|2683286_2684096_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|214905
NC_004342.2\|WP_000173137.1\|2685422_2685827_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000205134.1\|2671243_2672533_-\|M24-family-metallopeptidase	unknown	unknown	gnl\|CDD\|238520
NC_004342.2\|WP_002068674.1\|2688019_2688181_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000677991.1\|2674839_2675307_+\|bacterioferritin	unknown	unknown	gnl\|CDD\|153099
NC_004342.2\|WP_000862844.1\|2669432_2669912_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_002117318.1\|2670550_2670892_-\|DUF1564-family-protein	unknown	unknown	gnl\|CDD\|284922
NC_004342.2\|WP_001194243.1\|2679097_2679442_+\|DUF393-domain-containing-protein	unknown	unknown	gnl\|CDD\|367833
NC_004342.2\|WP_001239790.1\|2684209_2685439_+\|GGDEF-domain-containing-protein	unknown	unknown	gnl\|CDD\|143635

Protein	Function_ID	Function_description	E-value
NC_004342.2\|WP_001097878.1\|2681234_2682485_-\|KamA-family-radical-SAM-protein	gnl\|CDD\|224426	COG1509, KamA, Lysine 2,3-aminomutase [Amino acid transport and metabolism].	2.14014e-125
NC_004342.2\|WP_000287368.1\|2673574_2674693_-\|thiolase-family-protein	gnl\|CDD\|238425	cd00829, SCP-x_thiolase, Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal 3-ketacyl-Coa thiolase specific for branched-chain acyl CoAs, which is proteolytically cleaved from the sterol carrier protein.	2.29943e-91
NC_004342.2\|WP_000146501.1\|2686650_2687754_-\|dehypoxanthine-futalosine-cyclase	gnl\|CDD\|274731	TIGR03699, menaquin_MqnC, dehypoxanthine futalosine cyclase. members of this protein family are involved in menaquinone biosynthesis by an alternate pathway via futalosine. [Biosynthesis of cofactors, prosthetic groups, and carriers, Menaquinone and ubiquinone].	0
NC_004342.2\|WP_001190719.1\|2679418_2680105_-\|iron-containing-redox-enzyme-family-protein	gnl\|CDD\|379634	pfam14518, Haem_oxygenas_2, Iron-containing redox enzyme. The CADD, Chlamydia protein associating with death domains, crystal structure reveals a dimer of seven-helical bundles. Each bundle contains a di-iron centre adjacent to an internal cavity that forms an active site similar to that of methane mono-oxygenase hydrolase.	4.37451e-24
NC_004342.2\|WP_001016360.1\|2676569_2677682_+\|acetylglutamate-kinase	gnl\|CDD\|235306	PRK04531, PRK04531, acetylglutamate kinase; Provisional.	0
NC_004342.2\|WP_001038596.1\|2680117_2681242_-\|D-alanine--D-alanine-ligase	gnl\|CDD\|273498	TIGR01205, D-alanine--D-alanine_ligase, D-alanine--D-alanine ligase. This model describes D-Ala--D-Ala ligase, an enzyme that makes a required precursor of the bacterial cell wall. It also describes some closely related proteins responsible for resistance to glycopeptide antibiotics such as vancomycin. The mechanism of glyopeptide antibiotic resistance involves the production of D-alanine-D-lactate (VanA and VanB families) or D-alanine-D-serine (VanC). The seed alignment contains only chromosomally encoded D-ala--D-ala ligases, but a number of antibiotic resistance proteins score above the trusted cutoff of this model. [Cell envelope, Biosynthesis and degradation of murein sacculus and peptidoglycan].	1.91794e-23
NC_004342.2\|WP_000215708.1\|2682568_2683243_+\|HAD-family-hydrolase	gnl\|CDD\|223620	COG0546, Gph, Predicted phosphatases [General function prediction only].	2.4355e-26
NC_004342.2\|WP_000027963.1\|2669978_2670506_-\|P-loop-domain-containing-protein	gnl\|CDD\|284995	pfam07693, KAP_NTPase, KAP family P-loop domain. The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals. Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side.	9.80394e-22
NC_004342.2\|WP_001967602.1\|2672529_2673561_-\|glycosyltransferase-family-9-protein	gnl\|CDD\|340821	cd03789, GT9_LPS_heptosyltransferase, lipopolysaccharide heptosyltransferase and similar proteins. Lipopolysaccharide heptosyltransferase (2.4.99.B6) is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from ADP-heptose to 3-deoxy-D-manno-octulosonic acid (KDO), a part of the inner core component of LPS. This family also contains lipopolysaccharide 1,2-N-acetylglucosaminetransferase EC 2.4.1.56 and belongs to the GT-B structural superfamily of glycoslytransferases, which have characteristic N- and C-terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homology. The large cleft that separates the two domains includes the catalytic center and permits a high degree of flexibility.	1.20319e-66
NC_004342.2\|WP_000181054.1\|2675303_2676554_+\|N-6-DNA-methylase	gnl\|CDD\|236981	PRK11783, rlmL, bifunctional 23S rRNA (guanine(2069)-N(7))-methyltransferase RlmK/23S rRNA (guanine(2445)-N(2))-methyltransferase RlmL.	3.4615e-84
NC_004342.2\|WP_001112541.1\|2683286_2684096_+\|hypothetical-protein	gnl\|CDD\|214905	smart00909, Germane, Sporulation and spore germination. The GerMN domain is a region of approximately 100 residues that is found, duplicated, in the Bacillus GerM protein and is implicated in both sporulation and spore germination. The domain is found in a number of different bacterial species both alone and in association with other domains such as Amidase_3 pfam01520 Gmad1 and Gmad2. It is predicted to have a novel alpha-beta fold.	1.0435e-11
NC_004342.2\|WP_000205134.1\|2671243_2672533_-\|M24-family-metallopeptidase	gnl\|CDD\|238520	cd01087, Prolidase, Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on Pro-Pro.	8.67161e-123
NC_004342.2\|WP_000677991.1\|2674839_2675307_+\|bacterioferritin	gnl\|CDD\|153099	cd00907, Bacterioferritin, Bacterioferritin, ferritin-like diiron-binding domain. Bacterioferritins, also known as cytochrome b1, are members of a broad superfamily of ferritin-like diiron-carboxylate proteins. Similar to ferritin in architecture, Bfr forms an oligomer of 24 subunits that assembles to form a hollow sphere with 432 symmetry. Up to 12 heme cofactor groups (iron protoporphyrin IX or coproporphyrin III) are bound between dimer pairs. The role of the heme is unknown, although it may be involved in mediating iron-core reduction and iron release. Each subunit is composed of a four-helix bundle which carries a diiron ferroxidase center; it is here that initial oxidation of ferrous iron by molecular oxygen occurs, facilitating the detoxification of iron, protection against dioxygen and radical products, and storage of ferric-hydroxyphosphate at the core. Some bacterioferritins are composed of two subunit types, one conferring heme-binding ability (alpha) and the other (beta) bestowing ferroxidase activity.	3.15748e-76
NC_004342.2\|WP_002117318.1\|2670550_2670892_-\|DUF1564-family-protein	gnl\|CDD\|284922	pfam07600, DUF1564, Protein of unknown function (DUF1564). A family of paralogous proteins in Leptospira interrogans. Several have been annotated as possible CopG-like transcriptional regulators (see pfam01402).	2.04718e-07
NC_004342.2\|WP_001194243.1\|2679097_2679442_+\|DUF393-domain-containing-protein	gnl\|CDD\|367833	pfam04134, DUF393, Protein of unknown function, DUF393. Members of this family have two highly conserved cysteine residues near their N-terminus. The function of these proteins is unknown.	1.1554e-11
NC_004342.2\|WP_001239790.1\|2684209_2685439_+\|GGDEF-domain-containing-protein	gnl\|CDD\|143635	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain. Diguanylate-cyclase (DGC) or GGDEF domain: Originally named after a conserved residue pattern, and initially described as a domain of unknown function 1 (DUF1). This domain is widely present in bacteria, linked to a wide range of non-homologous domains in a variety of cell signaling proteins. The domain shows homology to the adenylyl cyclase catalytic domain. This correlates with the functional information available on two GGDEF-containing proteins, namely diguanylate cyclase and phosphodiesterase A of Acetobacter xylinum, both of which regulate the turnover of cyclic diguanosine monophosphate. Together with the EAL domain, GGDEF might be involved in regulating cell surface adhesion in bacteria.	2.43468e-56

>NC_004342.2|WP_001016360.1|2676569_2677682_+|acetylglutamate-kinase
MNHQEILLKLLEVTENTQDSFQFLKRFRSIEPEKFAVIYADSSTLMESAEALLYNLKLLHKLDLFPVVVLDKDGISYTNLFYRNQNKDDTPSILPGKLFRHPQDLAGAVRSALDEEKLPVFIAEEKGQVLFDFLTKLCSILRTKKLVHLYSRGGVYLKGNKISIFDVDSSIKPDPEDESILSICLELYKNVKDKDFEIAITSASSLLKELFTIKGSGTLLRRKNRIDFIEDPLTVSSEKLNLLIEKAFQKSLKKDFWNQKFAGILLESEFKGCALVKNTSFGTFLSKFAVDEIARGEGVGRDIWDELIYRFPILFWRARKENTISKWYMKVCDGMQKEGIWIYFWIGVQEIQVPNICSFLKNLPEDMSST
>NC_004342.2|WP_000181054.1|2675303_2676554_+|N-6-DNA-methylase
MTNFKKPIPKKSLRLKSKRSDRKNFPNDPRQKQNPLKSEWDFSKPDSFEYHASCPDGLSGLLREEVIEAGLKIISENRGGIFFQGPAKALKEFILSTGIASGISISLKYWRVENPEDLYDQALQFPFEKILNSEHSLRIDSTTKDSLKDSRYATYKLKDAIFDRFRSKGKEPPKISREEPDFLFYLRSHSDHAKLSLGLNTRPLQQRGHGRIGGEAPIREILASALIRYSGWDAKSQLYDPFCGSGTVVVEAALKLLYGGHTNYRSLASSLPFQKLFGQPNFKENLNLSSEIKIFASDLDPKTLGLARLNAKNAGVDHLIHFFESDAKISENEEKISEGFIVTNPPYGVRLGTKEEAKETYLAWGKKLKDHFSGNVLAIVCGDTSLLGFLKLKKDKEQSLTIGKLKGKLVAYTLGR
>NC_004342.2|WP_000677991.1|2674839_2675307_+|bacterioferritin
MKGNKEVLEILGEVLSAELTAINQYFIHAKMNKNWGFKKLADFMKRESIDEMKHADEVIDRILYLDGVPDLQRYMKINVGNNIEEILKVDLELEYAAVERFNRGIVIAVKNNDNGTRELFEKILISEEEHIDWIESQQEIIRQIGVENYLAQQIE
>NC_004342.2|WP_000287368.1|2673574_2674693_-|thiolase-family-protein
MYSSAFIIDSELSHFGKTELDYHSLSYQTAIQLLERNSEFEPQFLIFAAMAPERYTGEVFVSARIKESLGLKNLFTIRTETASSSGASALHTAVYLLRSGAFQRGIIIATEVMSRLEREENNLLLGSVLSERQKGFAMSMAQGGGMIATRYLQQYGYDRRDLYLLSKKLHDNGLKNEKAHIKKNITEVEYFNSPVFTSPLCLYDISPLSDGSCAVLLSSEKTKSSRSLEIRGIGHGIGNLSNPPGDLSFSSSVTAFQGAYKEANLKPEQIQIAELHDAFTPFELIGAEDAKLFPRGSALRYVKEGKTHPEGQLPINASGGLKTRGHPVGVSGLAQIAELQSWMFKKERFQNGLALSIGGLGVNNFATILSKV
>NC_004342.2|WP_001967602.1|2672529_2673561_-|glycosyltransferase-family-9-protein
MNEKILLIQTAFLGDLILTTSFFREVKKKYPNSYLTVVVNKGTESVLEANPYIDSLIPLDKKEFKKSIWKFFSFLRELRKENYTLCILPHFSFRSTLIGFASGAKERIGYETAGFSFLLTKKIPRPILGMHEVEKLFSLLYSKEEYSNIQKRPELYWKEESVFRIRELMKENRLESGNYVLLAPSSVWETKRMPASKFRVLGERIFKETGKKVVLIGSKADLDLCEEVGSGYAINFAGKTNLPELSFLVSKAALVISNDSSPIHFASAFNIPTLAVFGATVPDFGYTPLADLSFISEIHGLTCRPCGIHGGRTCPEGHFRCMKEQDTNKMFEVAVQLEQGNVK
>NC_004342.2|WP_000205134.1|2671243_2672533_-|M24-family-metallopeptidase
MTSYIYSERIEKVQKRLKDGEVLIVFAASHLIRNRDVEYKFRQDSDYYYLTGIEESDGILILKNSYKSIFVLPKDKDKEIWTGIRIGKEKAKELLGLDESFDTNEWESKLDEILLNQHTLFHFFGKNLIRDSKLIEWIYSLNQRSREGKFGPKRIETPDFLHWMRMFKSAVEIEALRESARITALGHVRLMRESKPGMFEYELEAILESEYLKHGAWGGGYGHIVASGENATILHYTSNNCQLKPGDLVLVDSGAEKGYYTADVTRNFPVGKKFSPEQKAVYEVVLKAQKEAVSNTKEGVEFASIHNQAVKTLVEGLKDLGLLEGSMDFILEQNTFKKYYMHRTSHYLGMDVHDVGSYYKDGASWSLQDGQVITIEPGLYFDPTDLTIPEKFRGIGIRIEDDVLVQGQNPVNLTSLIPKEIDEIESLKN
>NC_004342.2|WP_002117318.1|2670550_2670892_-|DUF1564-family-protein
MIKKDQTSSQHIRNLRNEQKKSKFITDKKSISKRKRDSPSDLWIPRVKIPHLTRRISQFKSLKCTLHFLLKKNRNRLHSLFAQPEKEKTLYQETELELVRFSFRPNAADWAEF
>NC_004342.2|WP_000027963.1|2669978_2670506_-|P-loop-domain-containing-protein
MSISDYFEIESKLNDKSNATLKSEISLLLSRREAKLLIIVDNLDRLTGEEIRKMFAVIRANSDFPNVIFLLAFNRAAIEKSLEGENGISSREFLEKIVQVSFEIPTLRRILLTEIESLISNYPKIKNRFFGENNANWANVYYSGFEELFTSLRNIRRYMNNFCFNFTHLLNEDIL
>NC_004342.2|WP_000862844.1|2669432_2669912_-|hypothetical-protein
MKVHDYVFISLGSYRYDLSTKDERKENFENSLLIVRNEKNRSSVERIVRRLFPQIDGLYTNTTYSNRESSWFSNLNICSPDRFGRYFTLLPGYDESELTELQIQTVLKSFSNLEMLEKVFDDFLEEGKFRLLLDQLQNYTSDEHYIKITDLKNLSIGSI
>NC_004342.2|WP_000830940.1|2668795_2669347_-|hypothetical-protein
MKRSNDKKSNYLTLRDAILNSEGLNAVIYTVNVLSINDKNERNSGPIENENLILLQELCVVKIKENLNTLIQSRLFIDILYRWKEWGNPVDVQEYLKEISDNSENLIVLLCQFTGISRILSDHMQTRIPVFQLKVFKDFVDIEEIDFKVNAINPQEIVLDEKGSKAISLFKIAKNKFVSETRT
>NC_004342.2|WP_001194243.1|2679097_2679442_+|DUF393-domain-containing-protein
MQTLVFLYDGECSFCRNLAKKLQSLNLNPKIRFRSFRDFTEKELKEIHPTLNIRVAEGNVQMIANGRRYPGFFAVRKLSHSLKGYRWVSPLLYLPLIPIFGMIGMIFLKSLKSR
>NC_004342.2|WP_001190719.1|2679418_2680105_-|iron-containing-redox-enzyme-family-protein
MQSINTASTFRKTLEESVRNHPVLTFNLWLEKKEHKMEREDLLLWLRQEYFVSVDFVNWFLNTASICDSVEAKIVLVSNIWEELGEGNVENSHVFILKKFLSDMGEVVHEKHVLPETTSYLNLMQKITTSDFYSALGALGPANEYLLKLEYSRMFKSYLNLRERIILPEGKFFQVNLNADESHAEKLFRLIEVVADTEEKRNRVMEGSQLALDARLVFYEGLTTFQGL
>NC_004342.2|WP_001038596.1|2680117_2681242_-|D-alanine--D-alanine-ligase
MNKMTPTVLVYADLHEFEGNFPEIYKQEWESKKSVDAILELLNEVGESIELVVTPNELLEKLKCYCDLDFSKRPVIFHLMEGFCSRNRESLIPAVAELFGFPHTGSDSYSQNVSLDKNLTRIFAQSIGVPVASGFWIRSKDVLFKELLQLECNSEIKKRFSFSKGNELNLKNFSFPAFIKPAGEGSSLGIGEKNIIYSFEELNTLLSEAPEIFFPYLLEEYLTGNEYTISVIGSATFGYKVSSAGRLILREDLKVEDVYGEKTKSKSIMPETLVFDCPKDLEVIIQQQSVLFCESLGTSGPARLDWKLDSLGNPFFLEMNLTPGLSPFYSTFPICYRHSLGDEKNLFQEILKIARLDFETDRFLYSKNKIRNLI
>NC_004342.2|WP_001097878.1|2681234_2682485_-|KamA-family-radical-SAM-protein
MNTSHSFVQKSKGESFINRSRLFSSFDWTDYKAQLQNRVKGFELERYFDLTESEKIGIENTIRLNVSATPYYISLADPEDPNCPIRKMILPREDECIFSPEESPDPLHEERLSPVKGLTHMYPDRVLLFTNHECSVYCRHCMRGRKVSDSKERMLTEDLEICFDYIKSHPEITDVVLSGGDPLNLSDSKIDWILERLEKIEHVKICRLGTRNPVTLPFRVTFDLCNIIESHNTDRLSIFCNTQFNHSKECTPEAKEAILKLLKAGVNVGNQCVLLKEVNDSGQTMLELHKKLLELRVRAYYMYDPELIPGSRGFRTPLAKGIEIIEFMRGKIGGMGIPQFVNDLPGGGGKITLTPNWYLGFYKPERIHVFKSALRGTYHFSPEPIDSKMEEFYPEISLEIWERVFSNSFGIYKSNE
>NC_004342.2|WP_000215708.1|2682568_2683243_+|HAD-family-hydrolase
MTVFSVESLQALAFDVDGTLFSSEGIILEVYRDSILNFSKTSGIQIELPSRDRIMAEIGKPVKTIFFNLLPQLNEEQRDSISDSVLRFLCDRIKKGEGEFYPNVLETIEILAQKGYRILAASNGRKPYIQTILEVSGILPKFEPILVLDNKRIRTKAEILEEYIKLYHLKPNQILMIGDRLSDHEAARQNGCPFAFCSYGHAPEGEIPDFDLKLKNISDLNEVL
>NC_004342.2|WP_001112541.1|2683286_2684096_+|hypothetical-protein
MPDFEKRKNIIFILTGIIFTLVLLDKSTGSGFSISNEGFNFNNIGKLTPKPYSSSKENFNHKEIMDQAEEEILEELLQNGDIQTSTDSSNSIEEDLNEDVPVLEPPIFSMDSTNEPDFPIPSEKGELSLFFLKFYGKGSKSHSRLVKVLRLSKGGDRVKLILNSLIAGPVSQEKEKGILNSIPQSLRYDDNYRIEKGILKLSLSSDLEKEAGPEILKDRIDQLIYSLMENLPIQGVQLKINGKFVRSLGGEGLPLPSLLTKNPRKIVVF
>NC_004342.2|WP_001239790.1|2684209_2685439_+|GGDEF-domain-containing-protein
MRLSLGNNQKIKLLARRVFFNPFPDDYLRIYQPDVRRATVIYFFFCIGISFLSFLLPDGASLLGKENQILVYSRLTVLLLSAFFAFLLIKWRPFFRRRIERYSILSSGVIVFSILPYVFLDPGRMGLYFHFYTTLVVSGNILLWLTGTTVVIFNGLFYFSLVLCTSLTGNKNVLQHDFANVLIYLFTGIFGNLLINFWRVMDHRAKKKLQKAVSKLRDKNIQIEKISKVDELTGLYNRRYLIEQFELFLKRAQRYRFSLAMIILDMDYLKEINDSYGHLAGDLSLRTISDVMKQRVRATDICSRIGGDEFCILLDAIKKEDLVQLCENLRMEVAEKELSYRTQKGSPVKITVSIGACIFGPGEEFSFDDIYHSIDSALYESKKKGRNRVSFIEPIRYFPREYPGTTAAS
>NC_004342.2|WP_000173137.1|2685422_2685827_-|hypothetical-protein
MTLKTKNLRGTKVIRILNCILVFLLAFGACTKQVKEHIHVDTGVTVEVLGVHKYKLIAIGGASSTSVEENDTFKMKNTSCTAAKSIAARKLEELEPEQKNRLFFMETVDTKYIDDGAYCEITYHYELPAPKKQQ
>NC_004342.2|WP_000146501.1|2686650_2687754_-|dehypoxanthine-futalosine-cyclase
MASIFSSQPTDRILEKALDGNRISPEEALALYREGDHLKIMATARSLREKILPHHYASYTMFRVVNYTNYCNVECSFCSFMDEIGNGKGYVLSVEEILEKMDYAVGEGADQMFLQGGVYPDLSFDYYLNVISAVKKKYPHMHIRAFSPVEIINLEKITGLPLKEVLQILKQTGLDSVPGAGAEILTDRMRNIISPKKATTEEWVRAMETCHEVGLPGSANIVFGSEETQEEVIEHLNVVRNLQDRTGGFLSFIPWTFQPQTKRFKVRAVPTQEYLKVLGICRIFLDNILHIETSVMVLGKGVGQLALTSGADDISSVVIEENVLRSYGLKTEKEAVKFLKEGGFTPKRRDLLYNYDRYENELIVDFV
>NC_004342.2|WP_002068674.1|2688019_2688181_-|hypothetical-protein
MIIIASIRSKKPIYFIKKSRLQGLSFASGIILERLDRLKIETNLLLQPHLKNT

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Crispr_ID: NC_004342_5

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_004342_5

3145771-3145866

Unclear

Consensus_repeat	Method
AGGAAAGCGTTGTGTTGAGTTTTCC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_004342_5

>merge|NC_004342|5|3145771-3145866|CRISPRCasFinder
AGGAAAGCGTTGTGTTGAGTTTTCCAACGCGACCTGCAGAGCGACCCTTAGGGAGCGATGCATTGAGTTTGAGGAAAGCGTTGTGCTGAGTTTTCC

>NC_004342|5|5|3145771-3145866|CRISPRCasFinder
AGGAAAGCGTTGTGTTGAGTTTTCC	AACGCGACCTGCAGAGCGACCCTTAGGGAGCGATGCATTGAGTTTG
AGGAAAGCGTTGTGCTGAGTTTTCC

Protein	Signature genes	Signature genes Name	Protein_function
NC_004342.2\|WP_001011576.1\|3143059_3145051_+\|(E)-4-hydroxy-3-methylbut-2-enyl-diphosphate-synthase	unknown	unknown	gnl\|CDD\|179361
NC_004342.2\|WP_100220721.1\|3138602_3139115_+\|transposase	unknown	unknown	gnl\|CDD\|372577
NC_004342.2\|WP_001136708.1\|3150302_3152069_+\|SpoIIE-family-protein-phosphatase	unknown	unknown	gnl\|CDD\|369272
NC_004342.2\|WP_000445690.1\|3148486_3149560_-\|IS110-like-element-ISLin1-family-transposase	unknown	unknown	gnl\|CDD\|376773
NC_004342.2\|WP_000759961.1\|3135234_3135609_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|223049
NC_004342.2\|WP_086004483.1\|3147522_3147606_-\|SLEI-motif-protein	unknown	unknown	unknown
NC_004342.2\|WP_001110347.1\|3156932_3157484_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000744482.1\|3132890_3135224_+\|TonB-dependent-receptor	unknown	unknown	gnl\|CDD\|238657
NC_004342.2\|WP_000602915.1\|3132512_3132845_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000590871.1\|3154497_3155994_+\|ABC-F-family-ATP-binding-cassette-domain-containing-protein	unknown	unknown	gnl\|CDD\|223562
NC_004342.2\|WP_000479729.1\|3142710_3142950_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000802875.1\|3146621_3147287_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|226989
NC_004342.2\|WP_000870126.1\|3141259_3142273_-\|NAD(P)-dependent-alcohol-dehydrogenase	unknown	unknown	gnl\|CDD\|176237
NC_004342.2\|WP_100220722.1\|3147587_3148481_-\|metallophosphoesterase	unknown	unknown	gnl\|CDD\|277331
NC_004342.2\|WP_000120679.1\|3142487_3142721_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_001072139.1\|3157826_3158213_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000451413.1\|3158396_3158609_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000512024.1\|3136152_3136689_-\|DUF1564-domain-containing-protein	unknown	unknown	gnl\|CDD\|284922
NC_004342.2\|WP_000839957.1\|3139467_3140835_+\|NAD(P)-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|109787
NC_004342.2\|WP_001060166.1\|3153295_3154132_+\|aldo/keto-reductase	unknown	unknown	gnl\|CDD\|381297

Protein	Function_ID	Function_description	E-value
NC_004342.2\|WP_001011576.1\|3143059_3145051_+\|(E)-4-hydroxy-3-methylbut-2-enyl-diphosphate-synthase	gnl\|CDD\|179361	PRK02048, PRK02048, 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional.	0
NC_004342.2\|WP_100220721.1\|3138602_3139115_+\|transposase	gnl\|CDD\|372577	pfam13359, DDE_Tnp_4, DDE superfamily endonuclease. This family of proteins are related to pfam00665 and are probably endonucleases of the DDE superfamily. 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. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction.	4.57104e-26
NC_004342.2\|WP_001136708.1\|3150302_3152069_+\|SpoIIE-family-protein-phosphatase	gnl\|CDD\|369272	pfam07228, SpoIIE, Stage II sporulation protein E (SpoIIE). This family contains a number of bacterial stage II sporulation E proteins (EC:3.1.3.16). These are required for formation of a normal polar septum during sporulation. The N-terminal region is hydrophobic and is expected to contain up to 12 membrane-spanning segments.	1.78454e-47
NC_004342.2\|WP_000445690.1\|3148486_3149560_-\|IS110-like-element-ISLin1-family-transposase	gnl\|CDD\|376773	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family. Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS116, IS110 and IS902. This region is often found with pfam01548. The exact function of this region is uncertain. This family contains a HHH motif suggesting a DNA-binding function.	1.48384e-28
NC_004342.2\|WP_000759961.1\|3135234_3135609_+\|hypothetical-protein	gnl\|CDD\|223049	PHA03334, PHA03334, putative DNA polymerase catalytic subunit; Provisional.	0.00993179
NC_004342.2\|WP_001060166.1\|3153295_3154132_+\|aldo/keto-reductase	gnl\|CDD\|381297	cd19071, AKR_AKR1-5-like, AKR1/2/3/4/5 family of aldo-keto reductase (AKR) and similar proteins. Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. The family includes AKR1A/B/C/D/E/G/I, AKR2A/B/C/D/E, AKR3A/B/C/D/E/G, AKR4A/B/C, AKR5A/B/C/D/E/F/G/H, and similar proteins.	7.60377e-136
NC_004342.2\|WP_000744482.1\|3132890_3135224_+\|TonB-dependent-receptor	gnl\|CDD\|238657	cd01347, ligand_gated_channel, TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel. Energy (proton-motive force) and TonB-dependent conformational alteration of channel (parts of plug, and loops 7 and 8) allow passage of ligand. FepA residues 12-18 form the TonB box, which mediates the interaction with the TonB-containing inner membrane complex. TonB preferentially interacts with ligand-bound receptors. Transport thru the channel may resemble passage thru an air lock. In this model, ligand binding leads to closure of the extracellular end of pore, then a TonB-mediated signal facillitates opening of the interior side of pore, deforming the N-terminal plug and allowing passage of the ligand to the periplasm. Such a mechanism would prevent the free diffusion of small molecules thru the pore.	1.05162e-50
NC_004342.2\|WP_000590871.1\|3154497_3155994_+\|ABC-F-family-ATP-binding-cassette-domain-containing-protein	gnl\|CDD\|223562	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only].	2.82035e-156
NC_004342.2\|WP_000802875.1\|3146621_3147287_-\|hypothetical-protein	gnl\|CDD\|226989	COG4642, COG4642, Uncharacterized protein conserved in bacteria [Function unknown].	2.47119e-10
NC_004342.2\|WP_000870126.1\|3141259_3142273_-\|NAD(P)-dependent-alcohol-dehydrogenase	gnl\|CDD\|176237	cd08276, MDR7, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family. This group is a member of the medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, but lacks the zinc-binding sites of the zinc-dependent alcohol dehydrogenases. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P)-binding Rossmann fold domain of a beta-alpha form and an N-terminal catalytic domain with distant homology to GroES. The MDR group contains a host of activities, including the founding alcohol dehydrogenase (ADH), quinone reductase, sorbitol dehydrogenase, formaldehyde dehydrogenase, butanediol DH, ketose reductase, cinnamyl reductase, and numerous others. The zinc-dependent alcohol dehydrogenases (ADHs) catalyze the NAD(P)(H)-dependent interconversion of alcohols to aldehydes or ketones. Active site zinc has a catalytic role, while structural zinc aids in stability. ADH-like proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and generally have 2 tightly bound zinc atoms per subunit. The active site zinc is coordinated by a histidine, two cysteines, and a water molecule. The second zinc seems to play a structural role, affects subunit interactions, and is typically coordinated by 4 cysteines.	0
NC_004342.2\|WP_100220722.1\|3147587_3148481_-\|metallophosphoesterase	gnl\|CDD\|277331	cd07385, MPP_YkuE_C, Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain. YkuE is an uncharacterized Bacillus subtilis protein with a C-terminal metallophosphatase domain and an N-terminal twin-arginine (RR) motif. An RR-signal peptide derived from the Bacillus subtilis YkuE protein can direct Tat-dependent secretion of agarase in Streptomyces lividans. This is an indication that YkuE is transported by the Bacillus subtilis Tat (Twin-arginine translocation) pathway machinery. YkuE belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.	4.48102e-97
NC_004342.2\|WP_000512024.1\|3136152_3136689_-\|DUF1564-domain-containing-protein	gnl\|CDD\|284922	pfam07600, DUF1564, Protein of unknown function (DUF1564). A family of paralogous proteins in Leptospira interrogans. Several have been annotated as possible CopG-like transcriptional regulators (see pfam01402).	2.05242e-87
NC_004342.2\|WP_000839957.1\|3139467_3140835_+\|NAD(P)-binding-domain-containing-protein	gnl\|CDD\|109787	pfam00743, FMO-like, Flavin-binding monooxygenase-like. This family includes FMO proteins, cyclohexanone mono-oxygenase and a number of different mono-oxygenases.	6.63749e-77

>NC_004342.2|WP_001011576.1|3143059_3145051_+|(E)-4-hydroxy-3-methylbut-2-enyl-diphosphate-synthase
MNFRYNQTPFGYQRRKTREVKVGDVKVGGNNPIVIQSMINSDTTDTQGSVKQILELERAGCEIVRLTVPSQADADNLPSIRQELKKAGSKVPLVADIHFTPSVAMKAVEYVEKVRINPGNFADKKKFAVRDYTDLEYNQELERISEVFSPLVLRCKELGVSMRIGTNHGSLSDRIMNRYGDTPQGMVESALEFIRIAESLGYYDIIVSMKASNPQVMVQAYRMLASRFNELKMDYPLHLGVTEAGDGNDGRIKSAIGIGSLLEDGLGDTIRVSLTEDPVLEVPVAKLLADKFNKKISNLNSVKGYSEFRNPFSYNRFYSSEIKIVQFEAGENHPVRVETILPFENSNSFLENVAKLYQYGKSLSIEPESILVDSPLPDQLKEISEAATALSIPVGILLSKNVSLNEKLQKELLSFPKIVFDPFLQFQDGEKMLSFLKERQNAGLFSEIHTSGDKLDSLRGLPDTLSEIGIKNVLFSLDSKEILYDYRKLGSILSRFEFPILLHGSFSNPEEALYNSAIGIGGLLIDGIGDLIRISTSKIKDIEEIFQLSYDLLQGTRLRLTKTEYISCPSCGRTLFDLQETTARIKSRTGHLKGVKIAVMGCIVNGPGEMADADFGYVGAGPGKVHLYRGKEIVLKNVPSEIADEKLVQLIKDNGLWQDPSND
>NC_004342.2|WP_000479729.1|3142710_3142950_-|hypothetical-protein
MFLQVLHKNGVSFTFERTVKLCKFLSRIFTGRIDFESSQSDSTNTSSEIINHGISLFETNRNLPNTGYCRYLSGQYFVL
>NC_004342.2|WP_000120679.1|3142487_3142721_-|hypothetical-protein
MSYKNEVIIPSEYLRRTEARAHIQKEISERLIHSNFFRSPRPDYDLVRYTEEATCNTFLRYRILSLKSGEGLIRERI
>NC_004342.2|WP_000870126.1|3141259_3142273_-|NAD(P)-dependent-alcohol-dehydrogenase
MKVYEIQNQFGLENLKISERPDPVPVQGEVLVRFRAASLNYRDYLMAIGRYNPKQKLPLIPLSDGAGEVVQVGPGVTRWKIGDKVCANFAQTWFDGAPEKDMLKNTLGGPLDGTLCEYRIFREEGLVLMPENLSFAEASTLPCAALTAYTAIVTHGNIQPGATVVVQGTGGVSIFALQFAKMMGCRVIATSSSEEKLAKVKELGADEVINYNEKTNWDREVRKITEMKGADLVIEVGGAGTLQKSISSTKPWGTIALIGVLAGGESNNLSLFPILMQGIRIQGIIVGSKRNFEDMNLAINTNKIKPVVDQVYSFEEVPKAFESLKAGKHFGKICIEI
>NC_004342.2|WP_000839957.1|3139467_3140835_+|NAD(P)-binding-domain-containing-protein
MKSNARVCVVGAGPSGIAAGKNCVEYGLDVVIFEKNDKVGGNWVFNAKTGHSSVYENTHIISSKVWSEYEDFPMPEDYPEYPNHKQLQAYFESYAKHFGVYKKIRFHHTIQKITKTPNEEWKVEYTNASKKKKVEFFDVLMVANGHHWDPKYPEYEGKFTGKFLHSHDFKGVTNEWKGKDILVIGAGNSACDVAVESARVANSVKLSMRSPQWFFPKFLFGMPSDVFAAKTPNWIPSIIKQFALSKLIYILQGSYKNYGLPENKNLALSHHPTLNSDLLDFIRHGRINPRPAIKKLHGKEVEFIDGTKERFDIICACTGFWTTFPFFDKSFIDFQHVEKIPLFRKMIHNDFQNLYFIGLFQPVGCIWPMADYQAKLACLEILGKYKRPKNLKAAIQYEIDHPHFTFERGQRHAVEVDYHSFRKELRLELLKAGVDIGKPPGGNKSLYKNFPKAAS
>NC_004342.2|WP_100220721.1|3138602_3139115_+|transposase
MDETEKPIRRPTDKDLQKEFYSGKKKRHTIKNLILTNKDKAILFLSNTISGKTHDLKVAENVMITSAVPKDVACILDSGFEGIEKTSKKTNIIKPENKPKKRELTAKQKAKNRKISKKRIFAENAFAGIKRFRITSDVIRSFRKNFKHLVFVLAAGLWNFHLFFDKRFNW
>NC_004342.2|WP_000512024.1|3136152_3136689_-|DUF1564-domain-containing-protein
MGILLLNSDHEISSALQKNRSETVTLLIPKDTWLLFSEKDVRLLTKRIPTLLKVYAKYLSSSERLGKKADRTLYQPSPGKLKMKRISVRVPSASWTLLGTLAQAHGVSKCYLFNYLLKLEALGVGNSILNTVRAGVPTFHWSYSYILDIDLSNNQVTRKLHCEPESYFYALDLEWFST
>NC_004342.2|WP_000759961.1|3135234_3135609_+|hypothetical-protein
MKKYILIFLTILILFCQNEDKKNNQDLMIRLLANTFNETRSDCVYCTDTQAFQGNCSCFSNIPIWSCQGYSSGRQKSNSIRISCEDLTSKGVWFENSDNQGAKSCSFLSCPPEAYRAAFTPDGF
>NC_004342.2|WP_000744482.1|3132890_3135224_+|TonB-dependent-receptor
MKKQLYYYFRIFLFSILISPISILALDVTITGIVKDKNGNSISNVKIIVQESRKTTITNEKGEFVLNHVPPGKYTLVAISRGYQSETISITIGEKDEKTQFTLLESSLDQSAINVTAKSTNSDFLTAPQPITVLSGRQLDRQRGETAMSAINNTPGVSNLTTGSGTSKPIIRGLTGQRVLVMTDGIRQEEQQFGDDHTVELDSFNIQKIEIIRGPGSLLYGSDALGGVVNVIRDKAPLSGEGIPKMAGIFNSNSYSNNKQDAGNFAIYGNLNGFGYRASSNSRKAGKITTPNGTLRNTGMIEKNQSASIGLDGDWGNFYLDSFKREQTQDLLDNPNENPGATVSQKLLHEKSHFHSFFIFSAGNLELDFSYQRNNRREIESKNKLLPIQDILLDENAEVLDKSFQFYQVTSKEKYQGLNLFLDTTTADAKFHHKPIFNFLKGTIGISGLEQRNKTIGTEPLIPSYGIINIAGYFLEELKLGSLTFSAGIRGDKRSVDIRNNQTLGVFEQTKNYYMTTGSTGVVWRIYKSFSTIFNYGRGFRAPTPFELFSYGVHEGTGKFEIGNNHLKPEYSNNLDFSLRFASSKIQTEISVFQNHIQNFIYAASIAQIDLDSGLPKYEYKQGNAILKGGEFSIQAELFRKLVFSGGIDIVYSRNQSDTHPLPRTTPNRARAGLRWTEDSILGLKNFYFSINGRFYDSQYRVDPKETPTKGYNLIDVGLGFELPHFGDGTSKPTVDLSIQNVFNVSYVDHLSRYKDYALNPGLNAILKVSFPFTAIP
>NC_004342.2|WP_000602915.1|3132512_3132845_+|hypothetical-protein
MILQGIKSGFLSILLILFVSSGLHIHVEQEIQKFSGTYFSTNKDTKQIVACPICQFQRESNSLWNPNFLTGNQPSVFLKKIRISFVIFIHHFNPYQNRFGRAPPFLLPLS
>NC_004342.2|WP_000802875.1|3146621_3147287_-|hypothetical-protein
MKPKLDSDIKTKEAAMVLFGIDRKIIFALGVVLLLFFVFLDCGKKNKGTTKKENVKTSNLQKKNKEVELEPDLKERKFFQEDALGQPKKYVEEVADSEPNRPYREETKSISAYLGATPGCKNGNCKSGQGIYVYDTGEVYSGTFKNDKRHGYGRIQYKDGDLYSGYFQNDKKVGTGTYRFANGAIFSGRFYDDGESAEGHLIVGKRKKECSIIRNKLSCHG
>NC_004342.2|WP_086004483.1|3147522_3147606_-|SLEI-motif-protein
MEEKFLRVVQKPQKILRDNSLEIFNKM
>NC_004342.2|WP_100220722.1|3147587_3148481_-|metallophosphoesterase
MTGGLDTRNIGESETEELIQRKEFLNRVLSFSVLGLAGGLTGIGFYQAHKKLKVISVEVIEKNLHTSLDGFRIVQISDVHIGPTIKKSFLESVVKRINELEPDLVAITGDLVDGPVSKLGHHITPLGDLKSKHGTFFVTGNHEYYSGVLSWIRELEKHGIRVLLNENKILEHGKASLTLAGVTDLKAGTILEEHKTDPYRAMKGGEKTDYKILLAHQPNSVFEGAEAGFDLQLSGHTHGGQYFPGNLLIYLAQKFVAGLHKHKDTWIYVSRGTGYWGPPIRLGAPSEISVIQLKKNS
>NC_004342.2|WP_000445690.1|3148486_3149560_-|IS110-like-element-ISLin1-family-transposase
MESQEVKYVGVDCGKKSIEVVRINSENSLERRQFSTTESGINNLLQWLTLNDIVGLEAGSQSFRIAKSILNKGVQVIVLNPGNLATIYQSLKKTDKEDSLKIARLIQRFPIEELPTVPIPNDEEEDNRRLCTEQENWTKQLTQGKNRLHSLFTQAGLTQITKKHLRTKANREISVALLPSRYQKEAERILKVLDLVEQNLKLIEKEIQEALKKNKAYVQTIMSMPGIGMITSLAIMSYMGDCKRFSSAKQAAYYAGLVPRVDISGDTVRYGRIINRGCHSIRRVIVQAAWSLVRCQHGGKVKEFYQRLYLKKGAKKSIIATSRKMIEVLYVMIRTGKLFDSMPENILNRKLTQYGLM
>NC_004342.2|WP_001136708.1|3150302_3152069_+|SpoIIE-family-protein-phosphatase
MPQTVLEFQKLKSILNVSTIFTANLDLYQLLPLIMLYSKDLLEAEASSLFLINETREFLYCEVALGEKGEIIQKYGRLNLGEGIAGWVAKEKKTIILEDAYSDSRFNPSWDQKTGYRTRSLICVPLFVENKVIGTLEILNKTQNRSFDSSDLNYLTSLSEVAAIAIQNAKIHENLKKRILELSLLYEFEKLIVSEKSIHELGNWVLQRILEFLEARTGTIYLADHTNQTLRILAAKGIPKEAVQTITVPFGEGVAGWVAKEKKSLLIHNLEEDNRYDKNAKYKFETNSLISSPLIYRNELLGVISVNSKKSGFAFHQNDLEMLDTVANRLALTIKNADLFHRVIDSDRELQRAREVMSKFIPTTIPYIKNLEVSAEYIPYSNVGGDFYNIFRLDPERTGFLIADVSGHGLSASVIAAMMNTIISTYDKEILSSPSQFFTELNHALYNKMVGNFVTAFYCVINTNQNTILYSNAGHNHPLLLQNSTNNLISLETKGKLIGVIPDLFFEENLIDFDFGDRLVLYTDGISEHYSEDRTKRYNEELISLSIHKSISKTSKEVASQIISDCIEFCNRPKFDDDVTLLVIDRLK
>NC_004342.2|WP_001060166.1|3153295_3154132_+|aldo/keto-reductase
MNNKENPLKQTIMLNNGISMPILGLGVWKTKSGKECKEAVLNALEAGYRHIDTARIYDNEVDVGQAIRESGIPRKEIFITTKLWNADQGSDKTRKALENSLDRLGIDFVDLYLIHFPVTSKRMDSWKELEKLYHDKLCKAIGVSNYTIIHLTELLKNSQITPAVNQVEFHPFLNQIHLLEYCKKHKIQLEAYSPLAHGQKIEDPTIAKIAQKYDKTPAQILIRWAIEQKIVVIPKSIKKERIIENSKVFDFAISEEDMKILNSLDEDFRTCWDPSEVV
>NC_004342.2|WP_000590871.1|3154497_3155994_+|ABC-F-family-ATP-binding-cassette-domain-containing-protein
MIKISGLNKAFTTKVLFDDLNLSINRGEKVGLVGRNGHGKSTLFQVILGNVEADSGTISIPKGYKIGHLQQHLHFTKPTVLEECSLGLPEGEEYETWKVEKILSGLGFSEQDMEKNPNEFSGGYQIRMNLAKLLVSSPDMLMLDEPNNYLDIVTIRWLEEFLREWEGEIILVTHDRGFMDAVVTHTIAIHRTKAIKVQGDTDKLYNQINQSEEIYEKTRLNEAKKRKQEEIFIAKFKAKASFASRAQSRVKKLEKQGEMKELEKIQDLELYFNSAPFNANQMLSAENLSFSYDGKEPFLIENFSISVGSRERICIIGKNGKGKSTLLKILAGELETSQGTIKKHPVLKEGYFGQTNKLNLNENSTVVEEIMISDPSCNEWKARTIAGGLMFSEDQALKKIKVLSGGEKSRVLLGKILVTPCHLLYLDEPTNHLDMQSCDSLIEAIDEFDGSVIMVTHDELHLRAVATKLIVFDNDSIQIFNGSYDDFLNDVGWSNEHY
>NC_004342.2|WP_001110347.1|3156932_3157484_+|hypothetical-protein
MNYYILEEVNYHLNIPYIGDLPEELDTIDVMTGRKIEISNLPIRVPIKIDYESEIVYPDIMTADLPLFSEKIRNSLDQIGIKNIQYYPVELFEDQTGQTKANYYMSILPVSVECLKSGINRSPAGRLILKNPIIDPTKILGLKLFRLGEEPSLIIIDSMVKDTLTNAHLNGVSFIPLEEYTSS
>NC_004342.2|WP_001072139.1|3157826_3158213_+|hypothetical-protein
MNQKIFKSIWAIIAGFLTIFILSTAVDLILHQTGIYPPMGVIMSDELFALATAYRVFFGILSGYVTAKIAPDQPVKHSLALGVLGLIVSITGAIVMWDAGPAWYSLAIIAIALPCSWAGGILYERSQT
>NC_004342.2|WP_000451413.1|3158396_3158609_-|hypothetical-protein
MEVAFSKAGQPVRSRMLKYSLMFSLLYLLRDSEYLWSVLISAFFISLTVHLWFGYKTKVWTTALGNVNKL

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Crispr_ID: NC_004342_8

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_004342_8

3164138-3164239

Unclear

I-A,I-B,II-B

Consensus_repeat	Method
CTGAATATAACTTTGATGCCGTTAGGCG	CRISPRCasFinder

1 spacers

cas2,cas1,cas6,cas3,cas8b3,cas7,cas5

The CRISPR arrays of NC_004342_8

>merge|NC_004342|8|3164138-3164239|CRISPRCasFinder
CTTACAAAAATCGGGATGCCGGTAGGCGTTGAGCACAAGGAAACAGGTCTCTTAAGTTTAGCACCTGCTGCAGCTGAATATAACTTTGATGCCGTTAGGCGG

>NC_004342|8|8|3164138-3164239|CRISPRCasFinder
CTTACAAAAATCGGGATGCCGGTAGGCG	TTGAGCACAAGGAAACAGGTCTCTTAAGTTTAGCACCTGCTGCAG
CTGAATATAACTTTGATGCCGTTAGGCGG

Protein	Signature genes	Signature genes Name	Protein_function
NC_004342.2\|WP_000199604.1\|3176356_3177898_+\|type-I-restriction-modification-system-subunit-M	unknown	unknown	gnl\|CDD\|211578
NC_004342.2\|WP_002068643.1\|3160978_3162604_+\|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|274899
NC_004342.2\|WP_000533549.1\|3175999_3176182_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000578381.1\|3158870_3159746_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379539
NC_004342.2\|WP_000601707.1\|3167309_3169568_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	cd09639_cas3_CAS-I	gnl\|CDD\|187770
NC_004342.2\|WP_001110347.1\|3156932_3157484_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000573601.1\|3159897_3160194_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000590871.1\|3154497_3155994_+\|ABC-F-family-ATP-binding-cassette-domain-containing-protein	unknown	unknown	gnl\|CDD\|223562
NC_004342.2\|WP_001140542.1\|3175578_3176007_+\|RNA-binding-protein	unknown	unknown	gnl\|CDD\|227269
NC_004342.2\|WP_000110276.1\|3163004_3163211_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000153246.1\|3173425_3173647_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_001072139.1\|3157826_3158213_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000451413.1\|3158396_3158609_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_080010676.1\|3160269_3160479_+\|hypothetical-protein	cas6	cd09703_cas6_CAS-I:CAS-III	gnl\|CDD\|370559
NC_004342.2\|WP_000445684.1\|3174203_3175277_+\|IS110-like-element-ISLin1-family-transposase	unknown	unknown	gnl\|CDD\|376773
NC_004342.2\|WP_000683530.1\|3162603_3162888_+\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_004342.2\|WP_000098773.1\|3169569_3171453_+\|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1	cas8b3	cd09713_cas8b3_CAS-I-B	gnl\|CDD\|132524
NC_004342.2\|WP_000371340.1\|3172377_3173001_+\|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS	cas5	cd09688_cas5_CAS-I-B	gnl\|CDD\|131635
NC_004342.2\|WP_000026911.1\|3166680_3167313_+\|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6	cas6	cd09703_cas6_CAS-I:CAS-III	gnl\|CDD\|274308
NC_004342.2\|WP_000052104.1\|3171517_3172357_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	cas7	cd09687_cas7_CAS-I-B	gnl\|CDD\|187818

Protein	Function_ID	Function_description	E-value
NC_004342.2\|WP_002068643.1\|3160978_3162604_+\|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274899	TIGR03983, hypothetical_protein_LA3181, CRISPR-associated endonuclease Cas1, subtype MYXAN. Members of this protein are the Cas1 endonuclease, or Cas1 domain in Cas4/Cas1 fusion proteins, of the MYXAN subtype of CRISPR/Cas systems. These systems typically feature repeats and spacers each about 36 base pairs in length. Species with this type of CRISPR system include Myxococcus xanthus, Cyanothece sp., Leptospira interrogans, Sorangium cellulosum, Anabaena variabilis ATCC 29413, etc.	0
NC_004342.2\|WP_000601707.1\|3167309_3169568_+\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|187770	cd09639, Cas3_I, CRISPR/Cas system-associated protein Cas3. 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; DEAD/DEAH box helicase DNA helicase cas3'; Often but not always is fused to HD nuclease domain; signature gene for Type I.	6.9629e-45
NC_004342.2\|WP_000371340.1\|3172377_3173001_+\|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS	gnl\|CDD\|131635	TIGR02586, CRISPR-associated_protein_Cas5, CRISPR-associated protein Cas5/DevS, subtype MYXAN. This model represents DevS of Myxococcus xanthus and related proteins of Leptospira interrogans and Gemmata obscuriglobus. This protein is encoded in a cluster of CRISPR-associated (cas) genes, and in the special case of Myxococcus xanthus has taken on a role in the control of fruiting body development. CRISPRs are clustered, regularly interspaced short palidromic repeats. This protein family is related to models TIGR01868, TIGR01895, and TIGR01876.	2.20305e-103
NC_004342.2\|WP_000199604.1\|3176356_3177898_+\|type-I-restriction-modification-system-subunit-M	gnl\|CDD\|211578	TIGR00497, hsdM, type I restriction system adenine methylase (hsdM). Function: methylation of specific adenine residues; required for both restriction and modification activities. The ECOR124/3 I enzyme recognizes 5'GAA(N7)RTCG. for E.coli see (J. Mol. Biol. 257: 960-969 (1996)). [DNA metabolism, Restriction/modification].	0
NC_004342.2\|WP_000590871.1\|3154497_3155994_+\|ABC-F-family-ATP-binding-cassette-domain-containing-protein	gnl\|CDD\|223562	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only].	2.82035e-156
NC_004342.2\|WP_001140542.1\|3175578_3176007_+\|RNA-binding-protein	gnl\|CDD\|227269	COG4933, COG4933, Uncharacterized conserved protein [Function unknown].	8.13427e-15
NC_004342.2\|WP_000578381.1\|3158870_3159746_+\|hypothetical-protein	gnl\|CDD\|379539	pfam14284, PcfJ, PcfJ-like protein. The PcfJ-like protein family includes the E. faecalis PcfJ protein, which is functionally uncharacterized. It is found in bacteria and viruses, and is typically between 159 and 170 amino acids in length. There is a conserved HCV sequence motif.	0.000758652
NC_004342.2\|WP_080010676.1\|3160269_3160479_+\|hypothetical-protein	gnl\|CDD\|370559	pfam09559, Cas6, Cas6 Crispr. The Cas6 Crispr family of proteins averaging 140 residues are characterized by having a GhGxxxxxGhG motif, where h indicates a hydrophobic residue, at the C-terminus. The CRISPR-Cas system is possibly a mechanism of defense against invading pathogens and plasmids that functions analogously to the RNA interference (RNAi) systems in eukaryotes.	5.55155e-11
NC_004342.2\|WP_000445684.1\|3174203_3175277_+\|IS110-like-element-ISLin1-family-transposase	gnl\|CDD\|376773	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family. Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS116, IS110 and IS902. This region is often found with pfam01548. The exact function of this region is uncertain. This family contains a HHH motif suggesting a DNA-binding function.	1.57227e-27
NC_004342.2\|WP_000683530.1\|3162603_3162888_+\|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.	8.42665e-19
NC_004342.2\|WP_000098773.1\|3169569_3171453_+\|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1	gnl\|CDD\|132524	TIGR03485, hypothetical_protein_L8106_30105, CRISPR-associated protein Cas8a1/Csx13, MYXAN subtype. Members of this family are found among cas (CRISPR-Associated) genes close to CRISPR repeats in Leptospira interrogans (a spirochete), Myxococcus xanthus (a delta-proteobacterium), and Lyngbya sp. PCC 8106 (a cyanobacterium). It is found with other cas genes in Anabaena variabilis ATCC 29413. In Lyngbya sp., the protein is split into two tandem genes. This model corresponds to the N-terminal region or upstream gene; the C-terminal region is described by TIGR03486. CRISPR/cas systems are associated with prokaryotic acquired resistance to phage and other exogenous DNA.	4.83831e-166
NC_004342.2\|WP_000026911.1\|3166680_3167313_+\|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6	gnl\|CDD\|274308	TIGR02807, hypothetical_protein_LA_3189, CRISPR-associated protein Cas6, subtype MYXAN. Members of this protein family resemble the Cas6 proteins described by TIGR01877 in having a C-terminal motif GXGXXXXXGXG, where the single X of each GXG is hydrophobic and the spacer XXXXX has at least one Lys or Arg. Examples are found in cas gene operons of CRISPR regions in Anabaena variabilis ATCC 29413, Leptospira interrogans, Gemmata obscuriglobus UQM 2246, and twice in Myxococcus xanthus DK 1622. Oddly, an orphan member is found in Thiobacillus denitrificans ATCC 25259, whose genome does not seem to contain other evidence of CRISPR repeats or cas genes.	6.95928e-102
NC_004342.2\|WP_000052104.1\|3171517_3172357_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	gnl\|CDD\|187818	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7. 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; Cas7 is a RAMP superfamily protein; Subunit of the Cascade complex; also known as Cst2/DevR family.	9.32745e-84

>NC_004342.2|WP_000110276.1|3163004_3163211_-|hypothetical-protein
MSVFKGGEQVYRFLSLFFMFGFFRSAYFVSKDHFVSNIKIQVCLSSSPIINLAGIFTRKKNERWPIIR
>NC_004342.2|WP_000683530.1|3162603_3162888_+|CRISPR-associated-endonuclease-Cas2
MKHWRLVSYDIREPKRLRRVAKIMEGFGERIQYSVFRIYSTDKELEKLRWKLAKVTEEEDNIFYLTLCTKCASGAHTQEKKSAWPEAPKTLKIL
>NC_004342.2|WP_002068643.1|3160978_3162604_+|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1
MGIHSLLYCERLFYLEEVEGILVADDRVYAGRTLHEELEPNEDSSGRIESFHYTSEKLEVSGKVDRIQKRDGDWIPYEHKRGRARIGTNGPEAWESDQCQVTVYALLLEEATGRNISEGKIRYHGSKDLVKIEIDEELRSKALKTIDRAKGLSTSTNRPPVAQNENLCKNCSLAPVCLPEETRVITENEYEPIRLFPEKREKTTLHVFGHDSRIKKSDNVLLVEKVTETGEKSKSEKIPIQEIESVNIHGNCQISSQMIKFLVSEEIPVHWFSGGGNYIGGININPSGVQRRIRQFKALTKETIRLNLAKKLVSAKCESQLRYLLRATRGKDETRNETESYLATIRSGLKNIESADSPSQLLGIEGSSARAYFSGLPALLKNSDPFLVPNGRSKRPPKDPFNATLSFLYSLLYKSVRQAIIAVGLDPSFGFYHTPRSSAEPLVLDLMELFRVSLCDMTLIGSINRKSWIDEDFEITKNKVWLSESGRKKATQLYETRLDDTWKHPVVNYSLSYYRMIELEVRLLEKEWSGEANIFAQARLR
>NC_004342.2|WP_080010676.1|3160269_3160479_+|hypothetical-protein
MGPLQSNLHLNTTSKLRIRAEQPLLSHLLKLAGKNLEVSQDKIQLGIPIIGLLKPHKTLYSRLIGSANI
>NC_004342.2|WP_000573601.1|3159897_3160194_+|hypothetical-protein
MIEVIRNRFDYKANETNLRDWFIIHACKKSHHRNLLGYTGKEHPEYLLAKRKNRFRITISERSFSKNKPFSLHCNLGESQSPGLLYLAVNRFISNSIL
>NC_004342.2|WP_000578381.1|3158870_3159746_+|hypothetical-protein
MIFVLEYCLENPKSIFLVIPKDFETVREKFPFLKRKVIATYFGFHPSSLNVLEKITDSAVQNGYLKTFQNLYSIPVFQKAFHHLPIINEFIIQFFNYSRAKNWNEKWDILFLKDLLFRFPNPNFEEEDFERTFQLYEEVKRFSPSWKIRSLEHLKDLEQKMIQKIQKNEFIGPDQPYPTPPMEKEDWLEPINSRKELFLESRIQHNCIFSYDTRILEGEYYIYRIFFPERCTLSLFYINGDWYLDQIAAAFNKEAKAETLRKVEEWRMQNGIFVLGDAFRLGIPPDWIFAR
>NC_004342.2|WP_000451413.1|3158396_3158609_-|hypothetical-protein
MEVAFSKAGQPVRSRMLKYSLMFSLLYLLRDSEYLWSVLISAFFISLTVHLWFGYKTKVWTTALGNVNKL
>NC_004342.2|WP_001072139.1|3157826_3158213_+|hypothetical-protein
MNQKIFKSIWAIIAGFLTIFILSTAVDLILHQTGIYPPMGVIMSDELFALATAYRVFFGILSGYVTAKIAPDQPVKHSLALGVLGLIVSITGAIVMWDAGPAWYSLAIIAIALPCSWAGGILYERSQT
>NC_004342.2|WP_001110347.1|3156932_3157484_+|hypothetical-protein
MNYYILEEVNYHLNIPYIGDLPEELDTIDVMTGRKIEISNLPIRVPIKIDYESEIVYPDIMTADLPLFSEKIRNSLDQIGIKNIQYYPVELFEDQTGQTKANYYMSILPVSVECLKSGINRSPAGRLILKNPIIDPTKILGLKLFRLGEEPSLIIIDSMVKDTLTNAHLNGVSFIPLEEYTSS
>NC_004342.2|WP_000590871.1|3154497_3155994_+|ABC-F-family-ATP-binding-cassette-domain-containing-protein
MIKISGLNKAFTTKVLFDDLNLSINRGEKVGLVGRNGHGKSTLFQVILGNVEADSGTISIPKGYKIGHLQQHLHFTKPTVLEECSLGLPEGEEYETWKVEKILSGLGFSEQDMEKNPNEFSGGYQIRMNLAKLLVSSPDMLMLDEPNNYLDIVTIRWLEEFLREWEGEIILVTHDRGFMDAVVTHTIAIHRTKAIKVQGDTDKLYNQINQSEEIYEKTRLNEAKKRKQEEIFIAKFKAKASFASRAQSRVKKLEKQGEMKELEKIQDLELYFNSAPFNANQMLSAENLSFSYDGKEPFLIENFSISVGSRERICIIGKNGKGKSTLLKILAGELETSQGTIKKHPVLKEGYFGQTNKLNLNENSTVVEEIMISDPSCNEWKARTIAGGLMFSEDQALKKIKVLSGGEKSRVLLGKILVTPCHLLYLDEPTNHLDMQSCDSLIEAIDEFDGSVIMVTHDELHLRAVATKLIVFDNDSIQIFNGSYDDFLNDVGWSNEHY
>NC_004342.2|WP_000026911.1|3166680_3167313_+|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6
MSIPNVIELNFPVLGSLLPADHGYGLYSAICHLCPTLHEHDSLSIQTISGLPDRPGILRLTANSQLRIRIPVEQIPLVYPLAGKSLTIGIHKIQLSIPAIRILQPYSVLKSRITVIKGFSEPETFLEAAQKQLNAREISGRVILLQDPKGNPKRNTIKIKRFTIVGFGLKVEGLNEKDSLELQVTGLGGKRRMGCGVFYGDSNKVESKAS
>NC_004342.2|WP_000601707.1|3167309_3169568_+|CRISPR-associated-helicase/endonuclease-Cas3
MILLAKSYPGIEKQLKSGDPESWALLEHHSSATYQVAEVLLKILEPILRKWTRLSESEYNKFVLVVCLSAGLHDLGKANEDFQKMLQRRKYLQRFRHEIWSVLALTGSGPFSDWFRKTIGDETWVRIGQMGILSHHLKATRETLYADHETAEIKVFWKDQGVIKTFQSICRLAGISSPDFSSSSISSYTCLGEDADKSIRIWTREILNARIDPRYQHSIGAVRAMIIAADRLASAYKGADALKLWAEEALNRVLSEQECSKIVKQGLGEKNLRPFQKQVGDSTSRVTLVRAGCGNGKTIAAFQWAKTHSAGRKLFFCYPTMGTATEGFRDYVSDIPGLDALLSHSRASLDLGELASTGEEDEGDSLNMHSRMLQEWTAQVTFCTVDQILGLLQNYRSSLTLSPAIFLGAFVFDEIHMYDSILFGNLLTFLKEFSHTSILLMTASLPETMLSAIQETVGADLGPVISGEAQIEERLRYRILHSSREDALQKAIQEFKNGGRVLWVCNKVEHCLKLYDELSEKYDIEALVYHSRFKYEDRKERHRAVIDSFQEGYKKSLPVFAITTQVCEVSLDISATLLISELCPFAALIQRLGRVNRPGQEMEGIAQVLIIPFQGKPYEKENEDDGESELERCKEILKPLLDRELSQKDLALALENAKGTEHQKIPSQWLSLGWEAKPDSIRESGYTLDVILESDAYKVLKNERPWEKSKLYTIPMPIQKQFSYGEPPLRIPVVPDSQIQYSSVRGGEWNLN
>NC_004342.2|WP_000098773.1|3169569_3171453_+|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1
MSSRPSASIETTPNTPVVFQRGLSECTSPLLRAGLAGLYSTLYSLKDEKKPKTLSWELTQDSIQITSKGEFSKDFQWIINHGYQTKEGIFYCPGIHRTKTIHKDRMHFHNAMMGTFLQHGRIQVRTKGAGTAVSIEDECKLLYFPLLVEEKKIKYRKDAESILFAEKRGSTWSFENLVELSGYVMPGAPPRFTHETSWIGTIADAFLLFFAPLSCSFAEIEPSRGTWCILIPELEDLETFERFRRDYEVNTINMFAGGPGDAALRYLTEMDLTGNKKDFSPNGCEVYVIGKVAWNKKQQVRRLMMRIHPTEKNFRIYKKMRGIFQNKIHLKKTDASSKSKKSRTRSTDKNKTQKKKDENYHWVSSPYAAARIAENLVQGKRWYYQFAKPLSWYIDTLERKRKSSPGSSHEKIWFESIRRFERAELIKFMENNEIWNSEEEQWFVKSFHETLSRLYAKEASHLNRRGGSRTLGDRWKHMNEKIYRDLAQAKTSPQIRTVISDLWAKSGRPPSLQEHTGALWKFISKDSEYARDLSLVALASYQGSSSLFRETVKDAVQKDEGRQLSLNLEKATTQEQVLKAYQTLWDFVETNDEEKNDLEVFVTKNWKRALEIGQEEIQKAKKKSNDA
>NC_004342.2|WP_000052104.1|3171517_3172357_+|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR
MSLHIFGTILTPHGVAANNRGENEGNLSTLQKLLWNGEVHSTVSGEAIRYALRETWMEDHENLLNRKIKSEGYDWQDETFKKPDRYLDDTILGFMDPKKETNKRRASLEITRAVSTRPWIGDVSFNVASVGAQRTNKNPIPYATEIHATRYQYSFALSGDDVKSEWKGLALDGLASLRRVAGNHSRFLYDFSPESIVLRVTHDPAPRILYCFREEGDTIDLKNLAKRVASGDVKAEELILGGEIASEQDAIELKTKGATVFPGIKAAVEDAKKRIGKSA
>NC_004342.2|WP_000371340.1|3172377_3173001_+|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS
MDPLILYYEIPIASFRPYQSREYQDSYPVPPPSTLIGMSLSLCGLSMDHRKFFSSCEMCSAVADSNPARSTVLRRMRRLGDSGRDPKQRRPEYQELVTGIRGIVAYRGLPAELAKPMKTVLTTPEKIIRYGGLSLGESSFLVDVIRLFELPDTTQSNWSWLIPDMKGSLDLPVWIDTISPSLTTKFRFSFQSAEGIPENAWFKLRPS
>NC_004342.2|WP_000153246.1|3173425_3173647_-|hypothetical-protein
MTIKSGETGTKRKVKSLASWPFLFQERSFKTFDQQTTVLRSVKEKPDKYVWLFAFLARVITERNKSYIQLNPL
>NC_004342.2|WP_000445684.1|3174203_3175277_+|IS110-like-element-ISLin1-family-transposase
MESQEVKYVGVDCGKKSIEVVRINSENSLERRQFSTTESGINNLLQWLTLNDIVGLEAGSQSFRIAKSILNKGVQVIVLNPGNLATIYQSLKKTDKEDSLKIARLIQRFPIEELPTVPIPNDEEEDNRRLCPEQENWTKQLTQGKNRLHSLFTQAGLTQITKKHLRTKANREISVALLPSRYQKEAERILKVLDLVEQNLKLIEKEIQEALKKNKAYVQTIMSMPGIGMITSLAIMSYMGDCKRFSSAKQAAYYAGLVPRVDISGDTVRYGRIINLGCHSIRRVIVQAAWSLVRCQHGGKVKEFYQRLYLKKGAKKSIIATSRKMIEVLYVMIRTGKLFDSMPENILNRKLTQYGLM
>NC_004342.2|WP_001140542.1|3175578_3176007_+|RNA-binding-protein
MAKTKNRRVVFLPIKPEFAHKIINGEKNIEFRKKFSSQEVETIVIYSSSPEKRVIGYATVDSIVIDTPDSLWKRFYKKGGIDKDRFSFYFNGKETGVGIRIKNVSRLKEAVTPTQLGIQGAIPQNFKFLEKGIITILERNLI
>NC_004342.2|WP_000533549.1|3175999_3176182_-|hypothetical-protein
MGRRGKIATEHNASEILRDLSLPNFTFLAMILKKALKFLLSFVSRSLVSKANSNLVFFLK
>NC_004342.2|WP_000199604.1|3176356_3177898_+|type-I-restriction-modification-system-subunit-M
MTSAQQRAALQRQIWQIANDVRGAVDGWDFKQYVLGTLFYRFISENFTNYMEGGDSSIQYSKLNDKKITKEIKDDAIKTRGYFIYPSQLFANIVIKADKNERLNTDLAGIFKDIESSANGFPSEHDIKGLFADFDTTSNRLGNTVKDKNSRLTAVLKRVAELDFGDFDSSHIDLFGDAYEFLISNYAANAGKSGGEFFTPQHVSKLIARLAIHKQTRINKIYDPACGSGSLLLQAKKQFDDHIIEEGFFGQEINHTTYNLARMNMFLHNINYDKFDIELGNTLIDPQHNHEKPFDAIVSNPPYSINWKGSDDPTLINDERFAPAGVLAPKSKADFAFVLHALSYLSSKGRAAIVCFPGIFYRSGAEQKIRQYLVGNNFVETVISLAPNLFFGTTIAVNILVLSKHKTDTNTQFIDASGLFKKETNNNILTEDHIERIMQTFDSKVDMEHFAKSVSVETIANNDYNLSVSSYVEAKDNREVIDIQKLNAELKTTVEKIDQLRADIDAIVAEIEG

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Crispr_ID: NC_004342_6

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_004342_6

3163253-3163502

Unclear

I-A,I-B,II-B

Consensus_repeat	Method
TCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACAC	PILER-CR
TCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCAC	CRT
CTGAATATAACTTTGATGCCGTTAGGCG	CRISPRCasFinder

3 spacers

cas2,cas1,cas6,cas3,cas8b3,cas7,cas5

The CRISPR arrays of NC_004342_6

>merge|NC_004342|6|3163253-3163502|PILER-CR,CRT,CRISPRCasFinder
TCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACCCGTTCTGATTTTTTCTTTTCCTTCCTTTTGTTATCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACACCCCACGATACTACCTGTCAGACCGTGCCCGGATCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACGCACTCCTCGAACTGGTAAAACTACCGATGCTCGCCTGAATATAACTTTGATGCCGTTAGGCGGTTTAGAA

>NC_004342|6|1|3163253-3163433|PILER-CR
TCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACCC	GTTCTGATTTTTTCTTTTCCTTCCTTTTGTTA
TCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACAC	CCCACGATACTACCTGTCAGACCGTGCCCGGA
TCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACGC

>NC_004342|6|1|3163253-3163502|CRT
TCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCAC	CCGTTCTGATTTTTTCTTTTCCTTCCTTTTGTTA
TCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCAC	ACCCCACGATACTACCTGTCAGACCGTGCCCGGA
TCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCAC	GCACTCCTCGAACTGGTAAAACTACCGATGCTCG
CCTGAATATAACTTTGATGCCGTTAGGCGGTTTAGAA

>NC_004342|6|6|3163254-3163495|CRISPRCasFinder
CTGAATATAACTTTGATGCCGTTAGGCG	TTGAGCACCCGTTCTGATTTTTTCTTTTCCTTCCTTTTGTTAT
CTGAATATAACTTTGATGCCGTTAGGCG	TTGAGCACACCCCACGATACTACCTGTCAGACCGTGCCCGGAT
CTGAATATAACTTTGATGCCGTTAGGCG	TTGAGCACGCACTCCTCGAACTGGTAAAACTACCGATGCTCGC
CTGAATATAACTTTGATGCCGTTAGGCGG

Protein	Signature genes	Signature genes Name	Protein_function
NC_004342.2\|WP_000199604.1\|3176356_3177898_+\|type-I-restriction-modification-system-subunit-M	unknown	unknown	gnl\|CDD\|211578
NC_004342.2\|WP_002068643.1\|3160978_3162604_+\|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|274899
NC_004342.2\|WP_000533549.1\|3175999_3176182_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000578381.1\|3158870_3159746_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379539
NC_004342.2\|WP_000601707.1\|3167309_3169568_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	cd09639_cas3_CAS-I	gnl\|CDD\|187770
NC_004342.2\|WP_001110347.1\|3156932_3157484_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000573601.1\|3159897_3160194_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000590871.1\|3154497_3155994_+\|ABC-F-family-ATP-binding-cassette-domain-containing-protein	unknown	unknown	gnl\|CDD\|223562
NC_004342.2\|WP_001140542.1\|3175578_3176007_+\|RNA-binding-protein	unknown	unknown	gnl\|CDD\|227269
NC_004342.2\|WP_000110276.1\|3163004_3163211_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000153246.1\|3173425_3173647_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_001072139.1\|3157826_3158213_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000451413.1\|3158396_3158609_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_080010676.1\|3160269_3160479_+\|hypothetical-protein	cas6	cd09703_cas6_CAS-I:CAS-III	gnl\|CDD\|370559
NC_004342.2\|WP_000445684.1\|3174203_3175277_+\|IS110-like-element-ISLin1-family-transposase	unknown	unknown	gnl\|CDD\|376773
NC_004342.2\|WP_000683530.1\|3162603_3162888_+\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_004342.2\|WP_000098773.1\|3169569_3171453_+\|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1	cas8b3	cd09713_cas8b3_CAS-I-B	gnl\|CDD\|132524
NC_004342.2\|WP_000371340.1\|3172377_3173001_+\|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS	cas5	cd09688_cas5_CAS-I-B	gnl\|CDD\|131635
NC_004342.2\|WP_000026911.1\|3166680_3167313_+\|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6	cas6	cd09703_cas6_CAS-I:CAS-III	gnl\|CDD\|274308
NC_004342.2\|WP_000052104.1\|3171517_3172357_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	cas7	cd09687_cas7_CAS-I-B	gnl\|CDD\|187818

Protein	Function_ID	Function_description	E-value
NC_004342.2\|WP_002068643.1\|3160978_3162604_+\|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274899	TIGR03983, hypothetical_protein_LA3181, CRISPR-associated endonuclease Cas1, subtype MYXAN. Members of this protein are the Cas1 endonuclease, or Cas1 domain in Cas4/Cas1 fusion proteins, of the MYXAN subtype of CRISPR/Cas systems. These systems typically feature repeats and spacers each about 36 base pairs in length. Species with this type of CRISPR system include Myxococcus xanthus, Cyanothece sp., Leptospira interrogans, Sorangium cellulosum, Anabaena variabilis ATCC 29413, etc.	0
NC_004342.2\|WP_000601707.1\|3167309_3169568_+\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|187770	cd09639, Cas3_I, CRISPR/Cas system-associated protein Cas3. 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; DEAD/DEAH box helicase DNA helicase cas3'; Often but not always is fused to HD nuclease domain; signature gene for Type I.	6.9629e-45
NC_004342.2\|WP_000371340.1\|3172377_3173001_+\|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS	gnl\|CDD\|131635	TIGR02586, CRISPR-associated_protein_Cas5, CRISPR-associated protein Cas5/DevS, subtype MYXAN. This model represents DevS of Myxococcus xanthus and related proteins of Leptospira interrogans and Gemmata obscuriglobus. This protein is encoded in a cluster of CRISPR-associated (cas) genes, and in the special case of Myxococcus xanthus has taken on a role in the control of fruiting body development. CRISPRs are clustered, regularly interspaced short palidromic repeats. This protein family is related to models TIGR01868, TIGR01895, and TIGR01876.	2.20305e-103
NC_004342.2\|WP_000199604.1\|3176356_3177898_+\|type-I-restriction-modification-system-subunit-M	gnl\|CDD\|211578	TIGR00497, hsdM, type I restriction system adenine methylase (hsdM). Function: methylation of specific adenine residues; required for both restriction and modification activities. The ECOR124/3 I enzyme recognizes 5'GAA(N7)RTCG. for E.coli see (J. Mol. Biol. 257: 960-969 (1996)). [DNA metabolism, Restriction/modification].	0
NC_004342.2\|WP_000590871.1\|3154497_3155994_+\|ABC-F-family-ATP-binding-cassette-domain-containing-protein	gnl\|CDD\|223562	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only].	2.82035e-156
NC_004342.2\|WP_001140542.1\|3175578_3176007_+\|RNA-binding-protein	gnl\|CDD\|227269	COG4933, COG4933, Uncharacterized conserved protein [Function unknown].	8.13427e-15
NC_004342.2\|WP_000578381.1\|3158870_3159746_+\|hypothetical-protein	gnl\|CDD\|379539	pfam14284, PcfJ, PcfJ-like protein. The PcfJ-like protein family includes the E. faecalis PcfJ protein, which is functionally uncharacterized. It is found in bacteria and viruses, and is typically between 159 and 170 amino acids in length. There is a conserved HCV sequence motif.	0.000758652
NC_004342.2\|WP_080010676.1\|3160269_3160479_+\|hypothetical-protein	gnl\|CDD\|370559	pfam09559, Cas6, Cas6 Crispr. The Cas6 Crispr family of proteins averaging 140 residues are characterized by having a GhGxxxxxGhG motif, where h indicates a hydrophobic residue, at the C-terminus. The CRISPR-Cas system is possibly a mechanism of defense against invading pathogens and plasmids that functions analogously to the RNA interference (RNAi) systems in eukaryotes.	5.55155e-11
NC_004342.2\|WP_000445684.1\|3174203_3175277_+\|IS110-like-element-ISLin1-family-transposase	gnl\|CDD\|376773	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family. Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS116, IS110 and IS902. This region is often found with pfam01548. The exact function of this region is uncertain. This family contains a HHH motif suggesting a DNA-binding function.	1.57227e-27
NC_004342.2\|WP_000683530.1\|3162603_3162888_+\|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.	8.42665e-19
NC_004342.2\|WP_000098773.1\|3169569_3171453_+\|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1	gnl\|CDD\|132524	TIGR03485, hypothetical_protein_L8106_30105, CRISPR-associated protein Cas8a1/Csx13, MYXAN subtype. Members of this family are found among cas (CRISPR-Associated) genes close to CRISPR repeats in Leptospira interrogans (a spirochete), Myxococcus xanthus (a delta-proteobacterium), and Lyngbya sp. PCC 8106 (a cyanobacterium). It is found with other cas genes in Anabaena variabilis ATCC 29413. In Lyngbya sp., the protein is split into two tandem genes. This model corresponds to the N-terminal region or upstream gene; the C-terminal region is described by TIGR03486. CRISPR/cas systems are associated with prokaryotic acquired resistance to phage and other exogenous DNA.	4.83831e-166
NC_004342.2\|WP_000026911.1\|3166680_3167313_+\|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6	gnl\|CDD\|274308	TIGR02807, hypothetical_protein_LA_3189, CRISPR-associated protein Cas6, subtype MYXAN. Members of this protein family resemble the Cas6 proteins described by TIGR01877 in having a C-terminal motif GXGXXXXXGXG, where the single X of each GXG is hydrophobic and the spacer XXXXX has at least one Lys or Arg. Examples are found in cas gene operons of CRISPR regions in Anabaena variabilis ATCC 29413, Leptospira interrogans, Gemmata obscuriglobus UQM 2246, and twice in Myxococcus xanthus DK 1622. Oddly, an orphan member is found in Thiobacillus denitrificans ATCC 25259, whose genome does not seem to contain other evidence of CRISPR repeats or cas genes.	6.95928e-102
NC_004342.2\|WP_000052104.1\|3171517_3172357_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	gnl\|CDD\|187818	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7. 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; Cas7 is a RAMP superfamily protein; Subunit of the Cascade complex; also known as Cst2/DevR family.	9.32745e-84

>NC_004342.2|WP_000110276.1|3163004_3163211_-|hypothetical-protein
MSVFKGGEQVYRFLSLFFMFGFFRSAYFVSKDHFVSNIKIQVCLSSSPIINLAGIFTRKKNERWPIIR
>NC_004342.2|WP_000683530.1|3162603_3162888_+|CRISPR-associated-endonuclease-Cas2
MKHWRLVSYDIREPKRLRRVAKIMEGFGERIQYSVFRIYSTDKELEKLRWKLAKVTEEEDNIFYLTLCTKCASGAHTQEKKSAWPEAPKTLKIL
>NC_004342.2|WP_002068643.1|3160978_3162604_+|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1
MGIHSLLYCERLFYLEEVEGILVADDRVYAGRTLHEELEPNEDSSGRIESFHYTSEKLEVSGKVDRIQKRDGDWIPYEHKRGRARIGTNGPEAWESDQCQVTVYALLLEEATGRNISEGKIRYHGSKDLVKIEIDEELRSKALKTIDRAKGLSTSTNRPPVAQNENLCKNCSLAPVCLPEETRVITENEYEPIRLFPEKREKTTLHVFGHDSRIKKSDNVLLVEKVTETGEKSKSEKIPIQEIESVNIHGNCQISSQMIKFLVSEEIPVHWFSGGGNYIGGININPSGVQRRIRQFKALTKETIRLNLAKKLVSAKCESQLRYLLRATRGKDETRNETESYLATIRSGLKNIESADSPSQLLGIEGSSARAYFSGLPALLKNSDPFLVPNGRSKRPPKDPFNATLSFLYSLLYKSVRQAIIAVGLDPSFGFYHTPRSSAEPLVLDLMELFRVSLCDMTLIGSINRKSWIDEDFEITKNKVWLSESGRKKATQLYETRLDDTWKHPVVNYSLSYYRMIELEVRLLEKEWSGEANIFAQARLR
>NC_004342.2|WP_080010676.1|3160269_3160479_+|hypothetical-protein
MGPLQSNLHLNTTSKLRIRAEQPLLSHLLKLAGKNLEVSQDKIQLGIPIIGLLKPHKTLYSRLIGSANI
>NC_004342.2|WP_000573601.1|3159897_3160194_+|hypothetical-protein
MIEVIRNRFDYKANETNLRDWFIIHACKKSHHRNLLGYTGKEHPEYLLAKRKNRFRITISERSFSKNKPFSLHCNLGESQSPGLLYLAVNRFISNSIL
>NC_004342.2|WP_000578381.1|3158870_3159746_+|hypothetical-protein
MIFVLEYCLENPKSIFLVIPKDFETVREKFPFLKRKVIATYFGFHPSSLNVLEKITDSAVQNGYLKTFQNLYSIPVFQKAFHHLPIINEFIIQFFNYSRAKNWNEKWDILFLKDLLFRFPNPNFEEEDFERTFQLYEEVKRFSPSWKIRSLEHLKDLEQKMIQKIQKNEFIGPDQPYPTPPMEKEDWLEPINSRKELFLESRIQHNCIFSYDTRILEGEYYIYRIFFPERCTLSLFYINGDWYLDQIAAAFNKEAKAETLRKVEEWRMQNGIFVLGDAFRLGIPPDWIFAR
>NC_004342.2|WP_000451413.1|3158396_3158609_-|hypothetical-protein
MEVAFSKAGQPVRSRMLKYSLMFSLLYLLRDSEYLWSVLISAFFISLTVHLWFGYKTKVWTTALGNVNKL
>NC_004342.2|WP_001072139.1|3157826_3158213_+|hypothetical-protein
MNQKIFKSIWAIIAGFLTIFILSTAVDLILHQTGIYPPMGVIMSDELFALATAYRVFFGILSGYVTAKIAPDQPVKHSLALGVLGLIVSITGAIVMWDAGPAWYSLAIIAIALPCSWAGGILYERSQT
>NC_004342.2|WP_001110347.1|3156932_3157484_+|hypothetical-protein
MNYYILEEVNYHLNIPYIGDLPEELDTIDVMTGRKIEISNLPIRVPIKIDYESEIVYPDIMTADLPLFSEKIRNSLDQIGIKNIQYYPVELFEDQTGQTKANYYMSILPVSVECLKSGINRSPAGRLILKNPIIDPTKILGLKLFRLGEEPSLIIIDSMVKDTLTNAHLNGVSFIPLEEYTSS
>NC_004342.2|WP_000590871.1|3154497_3155994_+|ABC-F-family-ATP-binding-cassette-domain-containing-protein
MIKISGLNKAFTTKVLFDDLNLSINRGEKVGLVGRNGHGKSTLFQVILGNVEADSGTISIPKGYKIGHLQQHLHFTKPTVLEECSLGLPEGEEYETWKVEKILSGLGFSEQDMEKNPNEFSGGYQIRMNLAKLLVSSPDMLMLDEPNNYLDIVTIRWLEEFLREWEGEIILVTHDRGFMDAVVTHTIAIHRTKAIKVQGDTDKLYNQINQSEEIYEKTRLNEAKKRKQEEIFIAKFKAKASFASRAQSRVKKLEKQGEMKELEKIQDLELYFNSAPFNANQMLSAENLSFSYDGKEPFLIENFSISVGSRERICIIGKNGKGKSTLLKILAGELETSQGTIKKHPVLKEGYFGQTNKLNLNENSTVVEEIMISDPSCNEWKARTIAGGLMFSEDQALKKIKVLSGGEKSRVLLGKILVTPCHLLYLDEPTNHLDMQSCDSLIEAIDEFDGSVIMVTHDELHLRAVATKLIVFDNDSIQIFNGSYDDFLNDVGWSNEHY
>NC_004342.2|WP_000026911.1|3166680_3167313_+|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6
MSIPNVIELNFPVLGSLLPADHGYGLYSAICHLCPTLHEHDSLSIQTISGLPDRPGILRLTANSQLRIRIPVEQIPLVYPLAGKSLTIGIHKIQLSIPAIRILQPYSVLKSRITVIKGFSEPETFLEAAQKQLNAREISGRVILLQDPKGNPKRNTIKIKRFTIVGFGLKVEGLNEKDSLELQVTGLGGKRRMGCGVFYGDSNKVESKAS
>NC_004342.2|WP_000601707.1|3167309_3169568_+|CRISPR-associated-helicase/endonuclease-Cas3
MILLAKSYPGIEKQLKSGDPESWALLEHHSSATYQVAEVLLKILEPILRKWTRLSESEYNKFVLVVCLSAGLHDLGKANEDFQKMLQRRKYLQRFRHEIWSVLALTGSGPFSDWFRKTIGDETWVRIGQMGILSHHLKATRETLYADHETAEIKVFWKDQGVIKTFQSICRLAGISSPDFSSSSISSYTCLGEDADKSIRIWTREILNARIDPRYQHSIGAVRAMIIAADRLASAYKGADALKLWAEEALNRVLSEQECSKIVKQGLGEKNLRPFQKQVGDSTSRVTLVRAGCGNGKTIAAFQWAKTHSAGRKLFFCYPTMGTATEGFRDYVSDIPGLDALLSHSRASLDLGELASTGEEDEGDSLNMHSRMLQEWTAQVTFCTVDQILGLLQNYRSSLTLSPAIFLGAFVFDEIHMYDSILFGNLLTFLKEFSHTSILLMTASLPETMLSAIQETVGADLGPVISGEAQIEERLRYRILHSSREDALQKAIQEFKNGGRVLWVCNKVEHCLKLYDELSEKYDIEALVYHSRFKYEDRKERHRAVIDSFQEGYKKSLPVFAITTQVCEVSLDISATLLISELCPFAALIQRLGRVNRPGQEMEGIAQVLIIPFQGKPYEKENEDDGESELERCKEILKPLLDRELSQKDLALALENAKGTEHQKIPSQWLSLGWEAKPDSIRESGYTLDVILESDAYKVLKNERPWEKSKLYTIPMPIQKQFSYGEPPLRIPVVPDSQIQYSSVRGGEWNLN
>NC_004342.2|WP_000098773.1|3169569_3171453_+|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1
MSSRPSASIETTPNTPVVFQRGLSECTSPLLRAGLAGLYSTLYSLKDEKKPKTLSWELTQDSIQITSKGEFSKDFQWIINHGYQTKEGIFYCPGIHRTKTIHKDRMHFHNAMMGTFLQHGRIQVRTKGAGTAVSIEDECKLLYFPLLVEEKKIKYRKDAESILFAEKRGSTWSFENLVELSGYVMPGAPPRFTHETSWIGTIADAFLLFFAPLSCSFAEIEPSRGTWCILIPELEDLETFERFRRDYEVNTINMFAGGPGDAALRYLTEMDLTGNKKDFSPNGCEVYVIGKVAWNKKQQVRRLMMRIHPTEKNFRIYKKMRGIFQNKIHLKKTDASSKSKKSRTRSTDKNKTQKKKDENYHWVSSPYAAARIAENLVQGKRWYYQFAKPLSWYIDTLERKRKSSPGSSHEKIWFESIRRFERAELIKFMENNEIWNSEEEQWFVKSFHETLSRLYAKEASHLNRRGGSRTLGDRWKHMNEKIYRDLAQAKTSPQIRTVISDLWAKSGRPPSLQEHTGALWKFISKDSEYARDLSLVALASYQGSSSLFRETVKDAVQKDEGRQLSLNLEKATTQEQVLKAYQTLWDFVETNDEEKNDLEVFVTKNWKRALEIGQEEIQKAKKKSNDA
>NC_004342.2|WP_000052104.1|3171517_3172357_+|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR
MSLHIFGTILTPHGVAANNRGENEGNLSTLQKLLWNGEVHSTVSGEAIRYALRETWMEDHENLLNRKIKSEGYDWQDETFKKPDRYLDDTILGFMDPKKETNKRRASLEITRAVSTRPWIGDVSFNVASVGAQRTNKNPIPYATEIHATRYQYSFALSGDDVKSEWKGLALDGLASLRRVAGNHSRFLYDFSPESIVLRVTHDPAPRILYCFREEGDTIDLKNLAKRVASGDVKAEELILGGEIASEQDAIELKTKGATVFPGIKAAVEDAKKRIGKSA
>NC_004342.2|WP_000371340.1|3172377_3173001_+|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS
MDPLILYYEIPIASFRPYQSREYQDSYPVPPPSTLIGMSLSLCGLSMDHRKFFSSCEMCSAVADSNPARSTVLRRMRRLGDSGRDPKQRRPEYQELVTGIRGIVAYRGLPAELAKPMKTVLTTPEKIIRYGGLSLGESSFLVDVIRLFELPDTTQSNWSWLIPDMKGSLDLPVWIDTISPSLTTKFRFSFQSAEGIPENAWFKLRPS
>NC_004342.2|WP_000153246.1|3173425_3173647_-|hypothetical-protein
MTIKSGETGTKRKVKSLASWPFLFQERSFKTFDQQTTVLRSVKEKPDKYVWLFAFLARVITERNKSYIQLNPL
>NC_004342.2|WP_000445684.1|3174203_3175277_+|IS110-like-element-ISLin1-family-transposase
MESQEVKYVGVDCGKKSIEVVRINSENSLERRQFSTTESGINNLLQWLTLNDIVGLEAGSQSFRIAKSILNKGVQVIVLNPGNLATIYQSLKKTDKEDSLKIARLIQRFPIEELPTVPIPNDEEEDNRRLCPEQENWTKQLTQGKNRLHSLFTQAGLTQITKKHLRTKANREISVALLPSRYQKEAERILKVLDLVEQNLKLIEKEIQEALKKNKAYVQTIMSMPGIGMITSLAIMSYMGDCKRFSSAKQAAYYAGLVPRVDISGDTVRYGRIINLGCHSIRRVIVQAAWSLVRCQHGGKVKEFYQRLYLKKGAKKSIIATSRKMIEVLYVMIRTGKLFDSMPENILNRKLTQYGLM
>NC_004342.2|WP_001140542.1|3175578_3176007_+|RNA-binding-protein
MAKTKNRRVVFLPIKPEFAHKIINGEKNIEFRKKFSSQEVETIVIYSSSPEKRVIGYATVDSIVIDTPDSLWKRFYKKGGIDKDRFSFYFNGKETGVGIRIKNVSRLKEAVTPTQLGIQGAIPQNFKFLEKGIITILERNLI
>NC_004342.2|WP_000533549.1|3175999_3176182_-|hypothetical-protein
MGRRGKIATEHNASEILRDLSLPNFTFLAMILKKALKFLLSFVSRSLVSKANSNLVFFLK
>NC_004342.2|WP_000199604.1|3176356_3177898_+|type-I-restriction-modification-system-subunit-M
MTSAQQRAALQRQIWQIANDVRGAVDGWDFKQYVLGTLFYRFISENFTNYMEGGDSSIQYSKLNDKKITKEIKDDAIKTRGYFIYPSQLFANIVIKADKNERLNTDLAGIFKDIESSANGFPSEHDIKGLFADFDTTSNRLGNTVKDKNSRLTAVLKRVAELDFGDFDSSHIDLFGDAYEFLISNYAANAGKSGGEFFTPQHVSKLIARLAIHKQTRINKIYDPACGSGSLLLQAKKQFDDHIIEEGFFGQEINHTTYNLARMNMFLHNINYDKFDIELGNTLIDPQHNHEKPFDAIVSNPPYSINWKGSDDPTLINDERFAPAGVLAPKSKADFAFVLHALSYLSSKGRAAIVCFPGIFYRSGAEQKIRQYLVGNNFVETVISLAPNLFFGTTIAVNILVLSKHKTDTNTQFIDASGLFKKETNNNILTEDHIERIMQTFDSKVDMEHFAKSVSVETIANNDYNLSVSSYVEAKDNREVIDIQKLNAELKTTVEKIDQLRADIDAIVAEIEG

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Crispr_ID: NC_004342_9

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_004342_9

3164474-3164726

Unclear

I-A,I-B,II-B

Consensus_repeat	Method
CTCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACA	PILER-CR
CTGAATATAACTTTGATGCCGTTAGGCG	CRISPRCasFinder
CTGAATATAACTTTGATGCCGTTAGGCGTTGAGCAC	CRT

3 spacers

cas2,cas1,cas6,cas3,cas8b3,cas7,cas5

The CRISPR arrays of NC_004342_9

>merge|NC_004342|9|3164474-3164726|PILER-CR,CRISPRCasFinder,CRT
CTCTGAATATAACTTTGATGCCGTTAGGTGTTGAGCACAAAGACAAATCGGTTCATTTGATTTTTTCGGATCTCTGAATATAACTTTGATGCCGGTAGGCGTTGAGCACGAGTTAAATTCTGCCCACTCCATGGCCTAAAATCAGCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACAGGGGCTATAAAATTGAGGTATCCTCAAAACGTAAACTGAATATAACTTTGATGCCGTTAGGCGGTTTAGAA

>NC_004342|9|3|3164474-3164655|PILER-CR
CTCTGAATATAACTTTGATGCCGTTAGGTGTTGAGCACA	AAGACAAATCGGTTCATTTGATTTTTTCGGAT
CTCTGAATATAACTTTGATGCCGGTAGGCGTTGAGCACG	AGTTAAATTCTGCCCACTCCATGGCCTAAAATC
AGCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACA

>NC_004342|9|9|3164476-3164719|CRISPRCasFinder
CTGAATATAACTTTGATGCCGTTAGGTG	TTGAGCACAAAGACAAATCGGTTCATTTGATTTTTTCGGATCT
CTGAATATAACTTTGATGCCGGTAGGCG	TTGAGCACGAGTTAAATTCTGCCCACTCCATGGCCTAAAATCAG
CTGAATATAACTTTGATGCCGTTAGGCG	TTGAGCACAGGGGCTATAAAATTGAGGTATCCTCAAAACGTAAA
CTGAATATAACTTTGATGCCGTTAGGCGG

>NC_004342|9|3|3164476-3164726|CRT
CTGAATATAACTTTGATGCCGTTAGGTGTTGAGCAC	AAAGACAAATCGGTTCATTTGATTTTTTCGGATCT
CTGAATATAACTTTGATGCCGGTAGGCGTTGAGCAC	GAGTTAAATTCTGCCCACTCCATGGCCTAAAATCAG
CTGAATATAACTTTGATGCCGTTAGGCGTTGAGCAC	AGGGGCTATAAAATTGAGGTATCCTCAAAACGTAAA
CTGAATATAACTTTGATGCCGTTAGGCGGTTTAGAA

Protein	Signature genes	Signature genes Name	Protein_function
NC_004342.2\|WP_000199604.1\|3176356_3177898_+\|type-I-restriction-modification-system-subunit-M	unknown	unknown	gnl\|CDD\|211578
NC_004342.2\|WP_002068643.1\|3160978_3162604_+\|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|274899
NC_004342.2\|WP_000533549.1\|3175999_3176182_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000578381.1\|3158870_3159746_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379539
NC_004342.2\|WP_000601707.1\|3167309_3169568_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	cd09639_cas3_CAS-I	gnl\|CDD\|187770
NC_004342.2\|WP_001110347.1\|3156932_3157484_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000573601.1\|3159897_3160194_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000590871.1\|3154497_3155994_+\|ABC-F-family-ATP-binding-cassette-domain-containing-protein	unknown	unknown	gnl\|CDD\|223562
NC_004342.2\|WP_001140542.1\|3175578_3176007_+\|RNA-binding-protein	unknown	unknown	gnl\|CDD\|227269
NC_004342.2\|WP_000110276.1\|3163004_3163211_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000153246.1\|3173425_3173647_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_001072139.1\|3157826_3158213_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000451413.1\|3158396_3158609_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_080010676.1\|3160269_3160479_+\|hypothetical-protein	cas6	cd09703_cas6_CAS-I:CAS-III	gnl\|CDD\|370559
NC_004342.2\|WP_000445684.1\|3174203_3175277_+\|IS110-like-element-ISLin1-family-transposase	unknown	unknown	gnl\|CDD\|376773
NC_004342.2\|WP_000683530.1\|3162603_3162888_+\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_004342.2\|WP_000098773.1\|3169569_3171453_+\|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1	cas8b3	cd09713_cas8b3_CAS-I-B	gnl\|CDD\|132524
NC_004342.2\|WP_000371340.1\|3172377_3173001_+\|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS	cas5	cd09688_cas5_CAS-I-B	gnl\|CDD\|131635
NC_004342.2\|WP_000026911.1\|3166680_3167313_+\|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6	cas6	cd09703_cas6_CAS-I:CAS-III	gnl\|CDD\|274308
NC_004342.2\|WP_000052104.1\|3171517_3172357_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	cas7	cd09687_cas7_CAS-I-B	gnl\|CDD\|187818

Protein	Function_ID	Function_description	E-value
NC_004342.2\|WP_002068643.1\|3160978_3162604_+\|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274899	TIGR03983, hypothetical_protein_LA3181, CRISPR-associated endonuclease Cas1, subtype MYXAN. Members of this protein are the Cas1 endonuclease, or Cas1 domain in Cas4/Cas1 fusion proteins, of the MYXAN subtype of CRISPR/Cas systems. These systems typically feature repeats and spacers each about 36 base pairs in length. Species with this type of CRISPR system include Myxococcus xanthus, Cyanothece sp., Leptospira interrogans, Sorangium cellulosum, Anabaena variabilis ATCC 29413, etc.	0
NC_004342.2\|WP_000601707.1\|3167309_3169568_+\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|187770	cd09639, Cas3_I, CRISPR/Cas system-associated protein Cas3. 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; DEAD/DEAH box helicase DNA helicase cas3'; Often but not always is fused to HD nuclease domain; signature gene for Type I.	6.9629e-45
NC_004342.2\|WP_000371340.1\|3172377_3173001_+\|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS	gnl\|CDD\|131635	TIGR02586, CRISPR-associated_protein_Cas5, CRISPR-associated protein Cas5/DevS, subtype MYXAN. This model represents DevS of Myxococcus xanthus and related proteins of Leptospira interrogans and Gemmata obscuriglobus. This protein is encoded in a cluster of CRISPR-associated (cas) genes, and in the special case of Myxococcus xanthus has taken on a role in the control of fruiting body development. CRISPRs are clustered, regularly interspaced short palidromic repeats. This protein family is related to models TIGR01868, TIGR01895, and TIGR01876.	2.20305e-103
NC_004342.2\|WP_000199604.1\|3176356_3177898_+\|type-I-restriction-modification-system-subunit-M	gnl\|CDD\|211578	TIGR00497, hsdM, type I restriction system adenine methylase (hsdM). Function: methylation of specific adenine residues; required for both restriction and modification activities. The ECOR124/3 I enzyme recognizes 5'GAA(N7)RTCG. for E.coli see (J. Mol. Biol. 257: 960-969 (1996)). [DNA metabolism, Restriction/modification].	0
NC_004342.2\|WP_000590871.1\|3154497_3155994_+\|ABC-F-family-ATP-binding-cassette-domain-containing-protein	gnl\|CDD\|223562	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only].	2.82035e-156
NC_004342.2\|WP_001140542.1\|3175578_3176007_+\|RNA-binding-protein	gnl\|CDD\|227269	COG4933, COG4933, Uncharacterized conserved protein [Function unknown].	8.13427e-15
NC_004342.2\|WP_000578381.1\|3158870_3159746_+\|hypothetical-protein	gnl\|CDD\|379539	pfam14284, PcfJ, PcfJ-like protein. The PcfJ-like protein family includes the E. faecalis PcfJ protein, which is functionally uncharacterized. It is found in bacteria and viruses, and is typically between 159 and 170 amino acids in length. There is a conserved HCV sequence motif.	0.000758652
NC_004342.2\|WP_080010676.1\|3160269_3160479_+\|hypothetical-protein	gnl\|CDD\|370559	pfam09559, Cas6, Cas6 Crispr. The Cas6 Crispr family of proteins averaging 140 residues are characterized by having a GhGxxxxxGhG motif, where h indicates a hydrophobic residue, at the C-terminus. The CRISPR-Cas system is possibly a mechanism of defense against invading pathogens and plasmids that functions analogously to the RNA interference (RNAi) systems in eukaryotes.	5.55155e-11
NC_004342.2\|WP_000445684.1\|3174203_3175277_+\|IS110-like-element-ISLin1-family-transposase	gnl\|CDD\|376773	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family. Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS116, IS110 and IS902. This region is often found with pfam01548. The exact function of this region is uncertain. This family contains a HHH motif suggesting a DNA-binding function.	1.57227e-27
NC_004342.2\|WP_000683530.1\|3162603_3162888_+\|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.	8.42665e-19
NC_004342.2\|WP_000098773.1\|3169569_3171453_+\|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1	gnl\|CDD\|132524	TIGR03485, hypothetical_protein_L8106_30105, CRISPR-associated protein Cas8a1/Csx13, MYXAN subtype. Members of this family are found among cas (CRISPR-Associated) genes close to CRISPR repeats in Leptospira interrogans (a spirochete), Myxococcus xanthus (a delta-proteobacterium), and Lyngbya sp. PCC 8106 (a cyanobacterium). It is found with other cas genes in Anabaena variabilis ATCC 29413. In Lyngbya sp., the protein is split into two tandem genes. This model corresponds to the N-terminal region or upstream gene; the C-terminal region is described by TIGR03486. CRISPR/cas systems are associated with prokaryotic acquired resistance to phage and other exogenous DNA.	4.83831e-166
NC_004342.2\|WP_000026911.1\|3166680_3167313_+\|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6	gnl\|CDD\|274308	TIGR02807, hypothetical_protein_LA_3189, CRISPR-associated protein Cas6, subtype MYXAN. Members of this protein family resemble the Cas6 proteins described by TIGR01877 in having a C-terminal motif GXGXXXXXGXG, where the single X of each GXG is hydrophobic and the spacer XXXXX has at least one Lys or Arg. Examples are found in cas gene operons of CRISPR regions in Anabaena variabilis ATCC 29413, Leptospira interrogans, Gemmata obscuriglobus UQM 2246, and twice in Myxococcus xanthus DK 1622. Oddly, an orphan member is found in Thiobacillus denitrificans ATCC 25259, whose genome does not seem to contain other evidence of CRISPR repeats or cas genes.	6.95928e-102
NC_004342.2\|WP_000052104.1\|3171517_3172357_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	gnl\|CDD\|187818	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7. 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; Cas7 is a RAMP superfamily protein; Subunit of the Cascade complex; also known as Cst2/DevR family.	9.32745e-84

>NC_004342.2|WP_000110276.1|3163004_3163211_-|hypothetical-protein
MSVFKGGEQVYRFLSLFFMFGFFRSAYFVSKDHFVSNIKIQVCLSSSPIINLAGIFTRKKNERWPIIR
>NC_004342.2|WP_000683530.1|3162603_3162888_+|CRISPR-associated-endonuclease-Cas2
MKHWRLVSYDIREPKRLRRVAKIMEGFGERIQYSVFRIYSTDKELEKLRWKLAKVTEEEDNIFYLTLCTKCASGAHTQEKKSAWPEAPKTLKIL
>NC_004342.2|WP_002068643.1|3160978_3162604_+|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1
MGIHSLLYCERLFYLEEVEGILVADDRVYAGRTLHEELEPNEDSSGRIESFHYTSEKLEVSGKVDRIQKRDGDWIPYEHKRGRARIGTNGPEAWESDQCQVTVYALLLEEATGRNISEGKIRYHGSKDLVKIEIDEELRSKALKTIDRAKGLSTSTNRPPVAQNENLCKNCSLAPVCLPEETRVITENEYEPIRLFPEKREKTTLHVFGHDSRIKKSDNVLLVEKVTETGEKSKSEKIPIQEIESVNIHGNCQISSQMIKFLVSEEIPVHWFSGGGNYIGGININPSGVQRRIRQFKALTKETIRLNLAKKLVSAKCESQLRYLLRATRGKDETRNETESYLATIRSGLKNIESADSPSQLLGIEGSSARAYFSGLPALLKNSDPFLVPNGRSKRPPKDPFNATLSFLYSLLYKSVRQAIIAVGLDPSFGFYHTPRSSAEPLVLDLMELFRVSLCDMTLIGSINRKSWIDEDFEITKNKVWLSESGRKKATQLYETRLDDTWKHPVVNYSLSYYRMIELEVRLLEKEWSGEANIFAQARLR
>NC_004342.2|WP_080010676.1|3160269_3160479_+|hypothetical-protein
MGPLQSNLHLNTTSKLRIRAEQPLLSHLLKLAGKNLEVSQDKIQLGIPIIGLLKPHKTLYSRLIGSANI
>NC_004342.2|WP_000573601.1|3159897_3160194_+|hypothetical-protein
MIEVIRNRFDYKANETNLRDWFIIHACKKSHHRNLLGYTGKEHPEYLLAKRKNRFRITISERSFSKNKPFSLHCNLGESQSPGLLYLAVNRFISNSIL
>NC_004342.2|WP_000578381.1|3158870_3159746_+|hypothetical-protein
MIFVLEYCLENPKSIFLVIPKDFETVREKFPFLKRKVIATYFGFHPSSLNVLEKITDSAVQNGYLKTFQNLYSIPVFQKAFHHLPIINEFIIQFFNYSRAKNWNEKWDILFLKDLLFRFPNPNFEEEDFERTFQLYEEVKRFSPSWKIRSLEHLKDLEQKMIQKIQKNEFIGPDQPYPTPPMEKEDWLEPINSRKELFLESRIQHNCIFSYDTRILEGEYYIYRIFFPERCTLSLFYINGDWYLDQIAAAFNKEAKAETLRKVEEWRMQNGIFVLGDAFRLGIPPDWIFAR
>NC_004342.2|WP_000451413.1|3158396_3158609_-|hypothetical-protein
MEVAFSKAGQPVRSRMLKYSLMFSLLYLLRDSEYLWSVLISAFFISLTVHLWFGYKTKVWTTALGNVNKL
>NC_004342.2|WP_001072139.1|3157826_3158213_+|hypothetical-protein
MNQKIFKSIWAIIAGFLTIFILSTAVDLILHQTGIYPPMGVIMSDELFALATAYRVFFGILSGYVTAKIAPDQPVKHSLALGVLGLIVSITGAIVMWDAGPAWYSLAIIAIALPCSWAGGILYERSQT
>NC_004342.2|WP_001110347.1|3156932_3157484_+|hypothetical-protein
MNYYILEEVNYHLNIPYIGDLPEELDTIDVMTGRKIEISNLPIRVPIKIDYESEIVYPDIMTADLPLFSEKIRNSLDQIGIKNIQYYPVELFEDQTGQTKANYYMSILPVSVECLKSGINRSPAGRLILKNPIIDPTKILGLKLFRLGEEPSLIIIDSMVKDTLTNAHLNGVSFIPLEEYTSS
>NC_004342.2|WP_000590871.1|3154497_3155994_+|ABC-F-family-ATP-binding-cassette-domain-containing-protein
MIKISGLNKAFTTKVLFDDLNLSINRGEKVGLVGRNGHGKSTLFQVILGNVEADSGTISIPKGYKIGHLQQHLHFTKPTVLEECSLGLPEGEEYETWKVEKILSGLGFSEQDMEKNPNEFSGGYQIRMNLAKLLVSSPDMLMLDEPNNYLDIVTIRWLEEFLREWEGEIILVTHDRGFMDAVVTHTIAIHRTKAIKVQGDTDKLYNQINQSEEIYEKTRLNEAKKRKQEEIFIAKFKAKASFASRAQSRVKKLEKQGEMKELEKIQDLELYFNSAPFNANQMLSAENLSFSYDGKEPFLIENFSISVGSRERICIIGKNGKGKSTLLKILAGELETSQGTIKKHPVLKEGYFGQTNKLNLNENSTVVEEIMISDPSCNEWKARTIAGGLMFSEDQALKKIKVLSGGEKSRVLLGKILVTPCHLLYLDEPTNHLDMQSCDSLIEAIDEFDGSVIMVTHDELHLRAVATKLIVFDNDSIQIFNGSYDDFLNDVGWSNEHY
>NC_004342.2|WP_000026911.1|3166680_3167313_+|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6
MSIPNVIELNFPVLGSLLPADHGYGLYSAICHLCPTLHEHDSLSIQTISGLPDRPGILRLTANSQLRIRIPVEQIPLVYPLAGKSLTIGIHKIQLSIPAIRILQPYSVLKSRITVIKGFSEPETFLEAAQKQLNAREISGRVILLQDPKGNPKRNTIKIKRFTIVGFGLKVEGLNEKDSLELQVTGLGGKRRMGCGVFYGDSNKVESKAS
>NC_004342.2|WP_000601707.1|3167309_3169568_+|CRISPR-associated-helicase/endonuclease-Cas3
MILLAKSYPGIEKQLKSGDPESWALLEHHSSATYQVAEVLLKILEPILRKWTRLSESEYNKFVLVVCLSAGLHDLGKANEDFQKMLQRRKYLQRFRHEIWSVLALTGSGPFSDWFRKTIGDETWVRIGQMGILSHHLKATRETLYADHETAEIKVFWKDQGVIKTFQSICRLAGISSPDFSSSSISSYTCLGEDADKSIRIWTREILNARIDPRYQHSIGAVRAMIIAADRLASAYKGADALKLWAEEALNRVLSEQECSKIVKQGLGEKNLRPFQKQVGDSTSRVTLVRAGCGNGKTIAAFQWAKTHSAGRKLFFCYPTMGTATEGFRDYVSDIPGLDALLSHSRASLDLGELASTGEEDEGDSLNMHSRMLQEWTAQVTFCTVDQILGLLQNYRSSLTLSPAIFLGAFVFDEIHMYDSILFGNLLTFLKEFSHTSILLMTASLPETMLSAIQETVGADLGPVISGEAQIEERLRYRILHSSREDALQKAIQEFKNGGRVLWVCNKVEHCLKLYDELSEKYDIEALVYHSRFKYEDRKERHRAVIDSFQEGYKKSLPVFAITTQVCEVSLDISATLLISELCPFAALIQRLGRVNRPGQEMEGIAQVLIIPFQGKPYEKENEDDGESELERCKEILKPLLDRELSQKDLALALENAKGTEHQKIPSQWLSLGWEAKPDSIRESGYTLDVILESDAYKVLKNERPWEKSKLYTIPMPIQKQFSYGEPPLRIPVVPDSQIQYSSVRGGEWNLN
>NC_004342.2|WP_000098773.1|3169569_3171453_+|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1
MSSRPSASIETTPNTPVVFQRGLSECTSPLLRAGLAGLYSTLYSLKDEKKPKTLSWELTQDSIQITSKGEFSKDFQWIINHGYQTKEGIFYCPGIHRTKTIHKDRMHFHNAMMGTFLQHGRIQVRTKGAGTAVSIEDECKLLYFPLLVEEKKIKYRKDAESILFAEKRGSTWSFENLVELSGYVMPGAPPRFTHETSWIGTIADAFLLFFAPLSCSFAEIEPSRGTWCILIPELEDLETFERFRRDYEVNTINMFAGGPGDAALRYLTEMDLTGNKKDFSPNGCEVYVIGKVAWNKKQQVRRLMMRIHPTEKNFRIYKKMRGIFQNKIHLKKTDASSKSKKSRTRSTDKNKTQKKKDENYHWVSSPYAAARIAENLVQGKRWYYQFAKPLSWYIDTLERKRKSSPGSSHEKIWFESIRRFERAELIKFMENNEIWNSEEEQWFVKSFHETLSRLYAKEASHLNRRGGSRTLGDRWKHMNEKIYRDLAQAKTSPQIRTVISDLWAKSGRPPSLQEHTGALWKFISKDSEYARDLSLVALASYQGSSSLFRETVKDAVQKDEGRQLSLNLEKATTQEQVLKAYQTLWDFVETNDEEKNDLEVFVTKNWKRALEIGQEEIQKAKKKSNDA
>NC_004342.2|WP_000052104.1|3171517_3172357_+|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR
MSLHIFGTILTPHGVAANNRGENEGNLSTLQKLLWNGEVHSTVSGEAIRYALRETWMEDHENLLNRKIKSEGYDWQDETFKKPDRYLDDTILGFMDPKKETNKRRASLEITRAVSTRPWIGDVSFNVASVGAQRTNKNPIPYATEIHATRYQYSFALSGDDVKSEWKGLALDGLASLRRVAGNHSRFLYDFSPESIVLRVTHDPAPRILYCFREEGDTIDLKNLAKRVASGDVKAEELILGGEIASEQDAIELKTKGATVFPGIKAAVEDAKKRIGKSA
>NC_004342.2|WP_000371340.1|3172377_3173001_+|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS
MDPLILYYEIPIASFRPYQSREYQDSYPVPPPSTLIGMSLSLCGLSMDHRKFFSSCEMCSAVADSNPARSTVLRRMRRLGDSGRDPKQRRPEYQELVTGIRGIVAYRGLPAELAKPMKTVLTTPEKIIRYGGLSLGESSFLVDVIRLFELPDTTQSNWSWLIPDMKGSLDLPVWIDTISPSLTTKFRFSFQSAEGIPENAWFKLRPS
>NC_004342.2|WP_000153246.1|3173425_3173647_-|hypothetical-protein
MTIKSGETGTKRKVKSLASWPFLFQERSFKTFDQQTTVLRSVKEKPDKYVWLFAFLARVITERNKSYIQLNPL
>NC_004342.2|WP_000445684.1|3174203_3175277_+|IS110-like-element-ISLin1-family-transposase
MESQEVKYVGVDCGKKSIEVVRINSENSLERRQFSTTESGINNLLQWLTLNDIVGLEAGSQSFRIAKSILNKGVQVIVLNPGNLATIYQSLKKTDKEDSLKIARLIQRFPIEELPTVPIPNDEEEDNRRLCPEQENWTKQLTQGKNRLHSLFTQAGLTQITKKHLRTKANREISVALLPSRYQKEAERILKVLDLVEQNLKLIEKEIQEALKKNKAYVQTIMSMPGIGMITSLAIMSYMGDCKRFSSAKQAAYYAGLVPRVDISGDTVRYGRIINLGCHSIRRVIVQAAWSLVRCQHGGKVKEFYQRLYLKKGAKKSIIATSRKMIEVLYVMIRTGKLFDSMPENILNRKLTQYGLM
>NC_004342.2|WP_001140542.1|3175578_3176007_+|RNA-binding-protein
MAKTKNRRVVFLPIKPEFAHKIINGEKNIEFRKKFSSQEVETIVIYSSSPEKRVIGYATVDSIVIDTPDSLWKRFYKKGGIDKDRFSFYFNGKETGVGIRIKNVSRLKEAVTPTQLGIQGAIPQNFKFLEKGIITILERNLI
>NC_004342.2|WP_000533549.1|3175999_3176182_-|hypothetical-protein
MGRRGKIATEHNASEILRDLSLPNFTFLAMILKKALKFLLSFVSRSLVSKANSNLVFFLK
>NC_004342.2|WP_000199604.1|3176356_3177898_+|type-I-restriction-modification-system-subunit-M
MTSAQQRAALQRQIWQIANDVRGAVDGWDFKQYVLGTLFYRFISENFTNYMEGGDSSIQYSKLNDKKITKEIKDDAIKTRGYFIYPSQLFANIVIKADKNERLNTDLAGIFKDIESSANGFPSEHDIKGLFADFDTTSNRLGNTVKDKNSRLTAVLKRVAELDFGDFDSSHIDLFGDAYEFLISNYAANAGKSGGEFFTPQHVSKLIARLAIHKQTRINKIYDPACGSGSLLLQAKKQFDDHIIEEGFFGQEINHTTYNLARMNMFLHNINYDKFDIELGNTLIDPQHNHEKPFDAIVSNPPYSINWKGSDDPTLINDERFAPAGVLAPKSKADFAFVLHALSYLSSKGRAAIVCFPGIFYRSGAEQKIRQYLVGNNFVETVISLAPNLFFGTTIAVNILVLSKHKTDTNTQFIDASGLFKKETNNNILTEDHIERIMQTFDSKVDMEHFAKSVSVETIANNDYNLSVSSYVEAKDNREVIDIQKLNAELKTTVEKIDQLRADIDAIVAEIEG

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Crispr_ID: NC_004342_7

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_004342_7

3163660-3163980

Unclear

I-A,I-B,II-B

Consensus_repeat	Method
CTGAATATAACTTTGATGCCGTTAGGCGTTGAGCAC	CRT
CTGAATATAACTTTGATGCCGTTAGGCGTTGAGCAC	PILER-CR
CTGAATATAACTTTGATGCCGTTAGGCG	CRISPRCasFinder

4 spacers

cas2,cas1,cas6,cas3,cas8b3,cas7,cas5

The CRISPR arrays of NC_004342_7

>merge|NC_004342|7|3163660-3163980|CRT,PILER-CR,CRISPRCasFinder
ACTTACAAAAATCGGGTGCCGGTAGGCGTTGAGCACTTGATTGGTGCAGTTGTGCTTGTTTTGATTGGTGTCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACCCGTTCTGATTTTTTCTTTTCCTTCCTTTTGTTATCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACCAGTAGATTTTGGATACACAAACCCGTTTGTGTTTCCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACGAATACAACCTCTTCAAAAAAGAGGAACCGGCGTACTGAATATAACTTTGATGCCGTTAGGCGATTTAGAT

>NC_004342|7|2|3163660-3163980|CRT
ACTTACAAAAATCGGGTGCCGGTAGGCGTTGAGCAC	TTGATTGGTGCAGTTGTGCTTGTTTTGATTGGTGT
CTGAATATAACTTTGATGCCGTTAGGCGTTGAGCAC	CCGTTCTGATTTTTTCTTTTCCTTCCTTTTGTTAT
CTGAATATAACTTTGATGCCGTTAGGCGTTGAGCAC	CAGTAGATTTTGGATACACAAACCCGTTTGTGTTTC
CTGAATATAACTTTGATGCCGTTAGGCGTTGAGCAC	GAATACAACCTCTTCAAAAAAGAGGAACCGGCGTA
CTGAATATAACTTTGATGCCGTTAGGCGATTTAGAT

>NC_004342|7|2|3163731-3163909|PILER-CR
CTGAATATAACTTTGATGCCGTTAGGCGTTGAGCAC	CCGTTCTGATTTTTTCTTTTCCTTCCTTTTGTTAT
CTGAATATAACTTTGATGCCGTTAGGCGTTGAGCAC	CAGTAGATTTTGGATACACAAACCCGTTTGTGTTTC
CTGAATATAACTTTGATGCCGTTAGGCGTTGAGCAC

>NC_004342|7|7|3163731-3163973|CRISPRCasFinder
CTGAATATAACTTTGATGCCGTTAGGCG	TTGAGCACCCGTTCTGATTTTTTCTTTTCCTTCCTTTTGTTAT
CTGAATATAACTTTGATGCCGTTAGGCG	TTGAGCACCAGTAGATTTTGGATACACAAACCCGTTTGTGTTTC
CTGAATATAACTTTGATGCCGTTAGGCG	TTGAGCACGAATACAACCTCTTCAAAAAAGAGGAACCGGCGTA
CTGAATATAACTTTGATGCCGTTAGGCGA

Protein	Signature genes	Signature genes Name	Protein_function
NC_004342.2\|WP_000199604.1\|3176356_3177898_+\|type-I-restriction-modification-system-subunit-M	unknown	unknown	gnl\|CDD\|211578
NC_004342.2\|WP_002068643.1\|3160978_3162604_+\|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|274899
NC_004342.2\|WP_000533549.1\|3175999_3176182_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000578381.1\|3158870_3159746_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379539
NC_004342.2\|WP_000601707.1\|3167309_3169568_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	cd09639_cas3_CAS-I	gnl\|CDD\|187770
NC_004342.2\|WP_001110347.1\|3156932_3157484_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000573601.1\|3159897_3160194_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000590871.1\|3154497_3155994_+\|ABC-F-family-ATP-binding-cassette-domain-containing-protein	unknown	unknown	gnl\|CDD\|223562
NC_004342.2\|WP_001140542.1\|3175578_3176007_+\|RNA-binding-protein	unknown	unknown	gnl\|CDD\|227269
NC_004342.2\|WP_000110276.1\|3163004_3163211_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000153246.1\|3173425_3173647_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_001072139.1\|3157826_3158213_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000451413.1\|3158396_3158609_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_080010676.1\|3160269_3160479_+\|hypothetical-protein	cas6	cd09703_cas6_CAS-I:CAS-III	gnl\|CDD\|370559
NC_004342.2\|WP_000445684.1\|3174203_3175277_+\|IS110-like-element-ISLin1-family-transposase	unknown	unknown	gnl\|CDD\|376773
NC_004342.2\|WP_000683530.1\|3162603_3162888_+\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_004342.2\|WP_000098773.1\|3169569_3171453_+\|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1	cas8b3	cd09713_cas8b3_CAS-I-B	gnl\|CDD\|132524
NC_004342.2\|WP_000371340.1\|3172377_3173001_+\|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS	cas5	cd09688_cas5_CAS-I-B	gnl\|CDD\|131635
NC_004342.2\|WP_000026911.1\|3166680_3167313_+\|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6	cas6	cd09703_cas6_CAS-I:CAS-III	gnl\|CDD\|274308
NC_004342.2\|WP_000052104.1\|3171517_3172357_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	cas7	cd09687_cas7_CAS-I-B	gnl\|CDD\|187818

Protein	Function_ID	Function_description	E-value
NC_004342.2\|WP_002068643.1\|3160978_3162604_+\|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274899	TIGR03983, hypothetical_protein_LA3181, CRISPR-associated endonuclease Cas1, subtype MYXAN. Members of this protein are the Cas1 endonuclease, or Cas1 domain in Cas4/Cas1 fusion proteins, of the MYXAN subtype of CRISPR/Cas systems. These systems typically feature repeats and spacers each about 36 base pairs in length. Species with this type of CRISPR system include Myxococcus xanthus, Cyanothece sp., Leptospira interrogans, Sorangium cellulosum, Anabaena variabilis ATCC 29413, etc.	0
NC_004342.2\|WP_000601707.1\|3167309_3169568_+\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|187770	cd09639, Cas3_I, CRISPR/Cas system-associated protein Cas3. 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; DEAD/DEAH box helicase DNA helicase cas3'; Often but not always is fused to HD nuclease domain; signature gene for Type I.	6.9629e-45
NC_004342.2\|WP_000371340.1\|3172377_3173001_+\|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS	gnl\|CDD\|131635	TIGR02586, CRISPR-associated_protein_Cas5, CRISPR-associated protein Cas5/DevS, subtype MYXAN. This model represents DevS of Myxococcus xanthus and related proteins of Leptospira interrogans and Gemmata obscuriglobus. This protein is encoded in a cluster of CRISPR-associated (cas) genes, and in the special case of Myxococcus xanthus has taken on a role in the control of fruiting body development. CRISPRs are clustered, regularly interspaced short palidromic repeats. This protein family is related to models TIGR01868, TIGR01895, and TIGR01876.	2.20305e-103
NC_004342.2\|WP_000199604.1\|3176356_3177898_+\|type-I-restriction-modification-system-subunit-M	gnl\|CDD\|211578	TIGR00497, hsdM, type I restriction system adenine methylase (hsdM). Function: methylation of specific adenine residues; required for both restriction and modification activities. The ECOR124/3 I enzyme recognizes 5'GAA(N7)RTCG. for E.coli see (J. Mol. Biol. 257: 960-969 (1996)). [DNA metabolism, Restriction/modification].	0
NC_004342.2\|WP_000590871.1\|3154497_3155994_+\|ABC-F-family-ATP-binding-cassette-domain-containing-protein	gnl\|CDD\|223562	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only].	2.82035e-156
NC_004342.2\|WP_001140542.1\|3175578_3176007_+\|RNA-binding-protein	gnl\|CDD\|227269	COG4933, COG4933, Uncharacterized conserved protein [Function unknown].	8.13427e-15
NC_004342.2\|WP_000578381.1\|3158870_3159746_+\|hypothetical-protein	gnl\|CDD\|379539	pfam14284, PcfJ, PcfJ-like protein. The PcfJ-like protein family includes the E. faecalis PcfJ protein, which is functionally uncharacterized. It is found in bacteria and viruses, and is typically between 159 and 170 amino acids in length. There is a conserved HCV sequence motif.	0.000758652
NC_004342.2\|WP_080010676.1\|3160269_3160479_+\|hypothetical-protein	gnl\|CDD\|370559	pfam09559, Cas6, Cas6 Crispr. The Cas6 Crispr family of proteins averaging 140 residues are characterized by having a GhGxxxxxGhG motif, where h indicates a hydrophobic residue, at the C-terminus. The CRISPR-Cas system is possibly a mechanism of defense against invading pathogens and plasmids that functions analogously to the RNA interference (RNAi) systems in eukaryotes.	5.55155e-11
NC_004342.2\|WP_000445684.1\|3174203_3175277_+\|IS110-like-element-ISLin1-family-transposase	gnl\|CDD\|376773	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family. Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS116, IS110 and IS902. This region is often found with pfam01548. The exact function of this region is uncertain. This family contains a HHH motif suggesting a DNA-binding function.	1.57227e-27
NC_004342.2\|WP_000683530.1\|3162603_3162888_+\|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.	8.42665e-19
NC_004342.2\|WP_000098773.1\|3169569_3171453_+\|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1	gnl\|CDD\|132524	TIGR03485, hypothetical_protein_L8106_30105, CRISPR-associated protein Cas8a1/Csx13, MYXAN subtype. Members of this family are found among cas (CRISPR-Associated) genes close to CRISPR repeats in Leptospira interrogans (a spirochete), Myxococcus xanthus (a delta-proteobacterium), and Lyngbya sp. PCC 8106 (a cyanobacterium). It is found with other cas genes in Anabaena variabilis ATCC 29413. In Lyngbya sp., the protein is split into two tandem genes. This model corresponds to the N-terminal region or upstream gene; the C-terminal region is described by TIGR03486. CRISPR/cas systems are associated with prokaryotic acquired resistance to phage and other exogenous DNA.	4.83831e-166
NC_004342.2\|WP_000026911.1\|3166680_3167313_+\|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6	gnl\|CDD\|274308	TIGR02807, hypothetical_protein_LA_3189, CRISPR-associated protein Cas6, subtype MYXAN. Members of this protein family resemble the Cas6 proteins described by TIGR01877 in having a C-terminal motif GXGXXXXXGXG, where the single X of each GXG is hydrophobic and the spacer XXXXX has at least one Lys or Arg. Examples are found in cas gene operons of CRISPR regions in Anabaena variabilis ATCC 29413, Leptospira interrogans, Gemmata obscuriglobus UQM 2246, and twice in Myxococcus xanthus DK 1622. Oddly, an orphan member is found in Thiobacillus denitrificans ATCC 25259, whose genome does not seem to contain other evidence of CRISPR repeats or cas genes.	6.95928e-102
NC_004342.2\|WP_000052104.1\|3171517_3172357_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	gnl\|CDD\|187818	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7. 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; Cas7 is a RAMP superfamily protein; Subunit of the Cascade complex; also known as Cst2/DevR family.	9.32745e-84

>NC_004342.2|WP_000110276.1|3163004_3163211_-|hypothetical-protein
MSVFKGGEQVYRFLSLFFMFGFFRSAYFVSKDHFVSNIKIQVCLSSSPIINLAGIFTRKKNERWPIIR
>NC_004342.2|WP_000683530.1|3162603_3162888_+|CRISPR-associated-endonuclease-Cas2
MKHWRLVSYDIREPKRLRRVAKIMEGFGERIQYSVFRIYSTDKELEKLRWKLAKVTEEEDNIFYLTLCTKCASGAHTQEKKSAWPEAPKTLKIL
>NC_004342.2|WP_002068643.1|3160978_3162604_+|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1
MGIHSLLYCERLFYLEEVEGILVADDRVYAGRTLHEELEPNEDSSGRIESFHYTSEKLEVSGKVDRIQKRDGDWIPYEHKRGRARIGTNGPEAWESDQCQVTVYALLLEEATGRNISEGKIRYHGSKDLVKIEIDEELRSKALKTIDRAKGLSTSTNRPPVAQNENLCKNCSLAPVCLPEETRVITENEYEPIRLFPEKREKTTLHVFGHDSRIKKSDNVLLVEKVTETGEKSKSEKIPIQEIESVNIHGNCQISSQMIKFLVSEEIPVHWFSGGGNYIGGININPSGVQRRIRQFKALTKETIRLNLAKKLVSAKCESQLRYLLRATRGKDETRNETESYLATIRSGLKNIESADSPSQLLGIEGSSARAYFSGLPALLKNSDPFLVPNGRSKRPPKDPFNATLSFLYSLLYKSVRQAIIAVGLDPSFGFYHTPRSSAEPLVLDLMELFRVSLCDMTLIGSINRKSWIDEDFEITKNKVWLSESGRKKATQLYETRLDDTWKHPVVNYSLSYYRMIELEVRLLEKEWSGEANIFAQARLR
>NC_004342.2|WP_080010676.1|3160269_3160479_+|hypothetical-protein
MGPLQSNLHLNTTSKLRIRAEQPLLSHLLKLAGKNLEVSQDKIQLGIPIIGLLKPHKTLYSRLIGSANI
>NC_004342.2|WP_000573601.1|3159897_3160194_+|hypothetical-protein
MIEVIRNRFDYKANETNLRDWFIIHACKKSHHRNLLGYTGKEHPEYLLAKRKNRFRITISERSFSKNKPFSLHCNLGESQSPGLLYLAVNRFISNSIL
>NC_004342.2|WP_000578381.1|3158870_3159746_+|hypothetical-protein
MIFVLEYCLENPKSIFLVIPKDFETVREKFPFLKRKVIATYFGFHPSSLNVLEKITDSAVQNGYLKTFQNLYSIPVFQKAFHHLPIINEFIIQFFNYSRAKNWNEKWDILFLKDLLFRFPNPNFEEEDFERTFQLYEEVKRFSPSWKIRSLEHLKDLEQKMIQKIQKNEFIGPDQPYPTPPMEKEDWLEPINSRKELFLESRIQHNCIFSYDTRILEGEYYIYRIFFPERCTLSLFYINGDWYLDQIAAAFNKEAKAETLRKVEEWRMQNGIFVLGDAFRLGIPPDWIFAR
>NC_004342.2|WP_000451413.1|3158396_3158609_-|hypothetical-protein
MEVAFSKAGQPVRSRMLKYSLMFSLLYLLRDSEYLWSVLISAFFISLTVHLWFGYKTKVWTTALGNVNKL
>NC_004342.2|WP_001072139.1|3157826_3158213_+|hypothetical-protein
MNQKIFKSIWAIIAGFLTIFILSTAVDLILHQTGIYPPMGVIMSDELFALATAYRVFFGILSGYVTAKIAPDQPVKHSLALGVLGLIVSITGAIVMWDAGPAWYSLAIIAIALPCSWAGGILYERSQT
>NC_004342.2|WP_001110347.1|3156932_3157484_+|hypothetical-protein
MNYYILEEVNYHLNIPYIGDLPEELDTIDVMTGRKIEISNLPIRVPIKIDYESEIVYPDIMTADLPLFSEKIRNSLDQIGIKNIQYYPVELFEDQTGQTKANYYMSILPVSVECLKSGINRSPAGRLILKNPIIDPTKILGLKLFRLGEEPSLIIIDSMVKDTLTNAHLNGVSFIPLEEYTSS
>NC_004342.2|WP_000590871.1|3154497_3155994_+|ABC-F-family-ATP-binding-cassette-domain-containing-protein
MIKISGLNKAFTTKVLFDDLNLSINRGEKVGLVGRNGHGKSTLFQVILGNVEADSGTISIPKGYKIGHLQQHLHFTKPTVLEECSLGLPEGEEYETWKVEKILSGLGFSEQDMEKNPNEFSGGYQIRMNLAKLLVSSPDMLMLDEPNNYLDIVTIRWLEEFLREWEGEIILVTHDRGFMDAVVTHTIAIHRTKAIKVQGDTDKLYNQINQSEEIYEKTRLNEAKKRKQEEIFIAKFKAKASFASRAQSRVKKLEKQGEMKELEKIQDLELYFNSAPFNANQMLSAENLSFSYDGKEPFLIENFSISVGSRERICIIGKNGKGKSTLLKILAGELETSQGTIKKHPVLKEGYFGQTNKLNLNENSTVVEEIMISDPSCNEWKARTIAGGLMFSEDQALKKIKVLSGGEKSRVLLGKILVTPCHLLYLDEPTNHLDMQSCDSLIEAIDEFDGSVIMVTHDELHLRAVATKLIVFDNDSIQIFNGSYDDFLNDVGWSNEHY
>NC_004342.2|WP_000026911.1|3166680_3167313_+|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6
MSIPNVIELNFPVLGSLLPADHGYGLYSAICHLCPTLHEHDSLSIQTISGLPDRPGILRLTANSQLRIRIPVEQIPLVYPLAGKSLTIGIHKIQLSIPAIRILQPYSVLKSRITVIKGFSEPETFLEAAQKQLNAREISGRVILLQDPKGNPKRNTIKIKRFTIVGFGLKVEGLNEKDSLELQVTGLGGKRRMGCGVFYGDSNKVESKAS
>NC_004342.2|WP_000601707.1|3167309_3169568_+|CRISPR-associated-helicase/endonuclease-Cas3
MILLAKSYPGIEKQLKSGDPESWALLEHHSSATYQVAEVLLKILEPILRKWTRLSESEYNKFVLVVCLSAGLHDLGKANEDFQKMLQRRKYLQRFRHEIWSVLALTGSGPFSDWFRKTIGDETWVRIGQMGILSHHLKATRETLYADHETAEIKVFWKDQGVIKTFQSICRLAGISSPDFSSSSISSYTCLGEDADKSIRIWTREILNARIDPRYQHSIGAVRAMIIAADRLASAYKGADALKLWAEEALNRVLSEQECSKIVKQGLGEKNLRPFQKQVGDSTSRVTLVRAGCGNGKTIAAFQWAKTHSAGRKLFFCYPTMGTATEGFRDYVSDIPGLDALLSHSRASLDLGELASTGEEDEGDSLNMHSRMLQEWTAQVTFCTVDQILGLLQNYRSSLTLSPAIFLGAFVFDEIHMYDSILFGNLLTFLKEFSHTSILLMTASLPETMLSAIQETVGADLGPVISGEAQIEERLRYRILHSSREDALQKAIQEFKNGGRVLWVCNKVEHCLKLYDELSEKYDIEALVYHSRFKYEDRKERHRAVIDSFQEGYKKSLPVFAITTQVCEVSLDISATLLISELCPFAALIQRLGRVNRPGQEMEGIAQVLIIPFQGKPYEKENEDDGESELERCKEILKPLLDRELSQKDLALALENAKGTEHQKIPSQWLSLGWEAKPDSIRESGYTLDVILESDAYKVLKNERPWEKSKLYTIPMPIQKQFSYGEPPLRIPVVPDSQIQYSSVRGGEWNLN
>NC_004342.2|WP_000098773.1|3169569_3171453_+|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1
MSSRPSASIETTPNTPVVFQRGLSECTSPLLRAGLAGLYSTLYSLKDEKKPKTLSWELTQDSIQITSKGEFSKDFQWIINHGYQTKEGIFYCPGIHRTKTIHKDRMHFHNAMMGTFLQHGRIQVRTKGAGTAVSIEDECKLLYFPLLVEEKKIKYRKDAESILFAEKRGSTWSFENLVELSGYVMPGAPPRFTHETSWIGTIADAFLLFFAPLSCSFAEIEPSRGTWCILIPELEDLETFERFRRDYEVNTINMFAGGPGDAALRYLTEMDLTGNKKDFSPNGCEVYVIGKVAWNKKQQVRRLMMRIHPTEKNFRIYKKMRGIFQNKIHLKKTDASSKSKKSRTRSTDKNKTQKKKDENYHWVSSPYAAARIAENLVQGKRWYYQFAKPLSWYIDTLERKRKSSPGSSHEKIWFESIRRFERAELIKFMENNEIWNSEEEQWFVKSFHETLSRLYAKEASHLNRRGGSRTLGDRWKHMNEKIYRDLAQAKTSPQIRTVISDLWAKSGRPPSLQEHTGALWKFISKDSEYARDLSLVALASYQGSSSLFRETVKDAVQKDEGRQLSLNLEKATTQEQVLKAYQTLWDFVETNDEEKNDLEVFVTKNWKRALEIGQEEIQKAKKKSNDA
>NC_004342.2|WP_000052104.1|3171517_3172357_+|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR
MSLHIFGTILTPHGVAANNRGENEGNLSTLQKLLWNGEVHSTVSGEAIRYALRETWMEDHENLLNRKIKSEGYDWQDETFKKPDRYLDDTILGFMDPKKETNKRRASLEITRAVSTRPWIGDVSFNVASVGAQRTNKNPIPYATEIHATRYQYSFALSGDDVKSEWKGLALDGLASLRRVAGNHSRFLYDFSPESIVLRVTHDPAPRILYCFREEGDTIDLKNLAKRVASGDVKAEELILGGEIASEQDAIELKTKGATVFPGIKAAVEDAKKRIGKSA
>NC_004342.2|WP_000371340.1|3172377_3173001_+|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS
MDPLILYYEIPIASFRPYQSREYQDSYPVPPPSTLIGMSLSLCGLSMDHRKFFSSCEMCSAVADSNPARSTVLRRMRRLGDSGRDPKQRRPEYQELVTGIRGIVAYRGLPAELAKPMKTVLTTPEKIIRYGGLSLGESSFLVDVIRLFELPDTTQSNWSWLIPDMKGSLDLPVWIDTISPSLTTKFRFSFQSAEGIPENAWFKLRPS
>NC_004342.2|WP_000153246.1|3173425_3173647_-|hypothetical-protein
MTIKSGETGTKRKVKSLASWPFLFQERSFKTFDQQTTVLRSVKEKPDKYVWLFAFLARVITERNKSYIQLNPL
>NC_004342.2|WP_000445684.1|3174203_3175277_+|IS110-like-element-ISLin1-family-transposase
MESQEVKYVGVDCGKKSIEVVRINSENSLERRQFSTTESGINNLLQWLTLNDIVGLEAGSQSFRIAKSILNKGVQVIVLNPGNLATIYQSLKKTDKEDSLKIARLIQRFPIEELPTVPIPNDEEEDNRRLCPEQENWTKQLTQGKNRLHSLFTQAGLTQITKKHLRTKANREISVALLPSRYQKEAERILKVLDLVEQNLKLIEKEIQEALKKNKAYVQTIMSMPGIGMITSLAIMSYMGDCKRFSSAKQAAYYAGLVPRVDISGDTVRYGRIINLGCHSIRRVIVQAAWSLVRCQHGGKVKEFYQRLYLKKGAKKSIIATSRKMIEVLYVMIRTGKLFDSMPENILNRKLTQYGLM
>NC_004342.2|WP_001140542.1|3175578_3176007_+|RNA-binding-protein
MAKTKNRRVVFLPIKPEFAHKIINGEKNIEFRKKFSSQEVETIVIYSSSPEKRVIGYATVDSIVIDTPDSLWKRFYKKGGIDKDRFSFYFNGKETGVGIRIKNVSRLKEAVTPTQLGIQGAIPQNFKFLEKGIITILERNLI
>NC_004342.2|WP_000533549.1|3175999_3176182_-|hypothetical-protein
MGRRGKIATEHNASEILRDLSLPNFTFLAMILKKALKFLLSFVSRSLVSKANSNLVFFLK
>NC_004342.2|WP_000199604.1|3176356_3177898_+|type-I-restriction-modification-system-subunit-M
MTSAQQRAALQRQIWQIANDVRGAVDGWDFKQYVLGTLFYRFISENFTNYMEGGDSSIQYSKLNDKKITKEIKDDAIKTRGYFIYPSQLFANIVIKADKNERLNTDLAGIFKDIESSANGFPSEHDIKGLFADFDTTSNRLGNTVKDKNSRLTAVLKRVAELDFGDFDSSHIDLFGDAYEFLISNYAANAGKSGGEFFTPQHVSKLIARLAIHKQTRINKIYDPACGSGSLLLQAKKQFDDHIIEEGFFGQEINHTTYNLARMNMFLHNINYDKFDIELGNTLIDPQHNHEKPFDAIVSNPPYSINWKGSDDPTLINDERFAPAGVLAPKSKADFAFVLHALSYLSSKGRAAIVCFPGIFYRSGAEQKIRQYLVGNNFVETVISLAPNLFFGTTIAVNILVLSKHKTDTNTQFIDASGLFKKETNNNILTEDHIERIMQTFDSKVDMEHFAKSVSVETIANNDYNLSVSSYVEAKDNREVIDIQKLNAELKTTVEKIDQLRADIDAIVAEIEG

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Crispr_ID: NC_004342_11

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_004342_11

3165387-3165487

Unclear

I-A,I-B,II-B

Consensus_repeat	Method
CTGAATATAACTTTGATGCCGTTAGGCG	CRISPRCasFinder

1 spacers

cas2,cas1,cas6,cas3,cas8b3,cas7,cas5

The CRISPR arrays of NC_004342_11

>merge|NC_004342|11|3165387-3165487|CRISPRCasFinder
CTGAATATAACTTTGATGCCATTAGGCGTTGAGCACGTGCCTTGAGAGACCTTAAGTTTATCCGCGACATTGCTGAATATAACTTTGATGCCGTTAGGCGA

>NC_004342|11|11|3165387-3165487|CRISPRCasFinder
CTGAATATAACTTTGATGCCATTAGGCG	TTGAGCACGTGCCTTGAGAGACCTTAAGTTTATCCGCGACATTG
CTGAATATAACTTTGATGCCGTTAGGCGA

Protein	Signature genes	Signature genes Name	Protein_function
NC_004342.2\|WP_000199604.1\|3176356_3177898_+\|type-I-restriction-modification-system-subunit-M	unknown	unknown	gnl\|CDD\|211578
NC_004342.2\|WP_002068643.1\|3160978_3162604_+\|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|274899
NC_004342.2\|WP_000533549.1\|3175999_3176182_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000578381.1\|3158870_3159746_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379539
NC_004342.2\|WP_000601707.1\|3167309_3169568_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	cd09639_cas3_CAS-I	gnl\|CDD\|187770
NC_004342.2\|WP_001110347.1\|3156932_3157484_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000573601.1\|3159897_3160194_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000590871.1\|3154497_3155994_+\|ABC-F-family-ATP-binding-cassette-domain-containing-protein	unknown	unknown	gnl\|CDD\|223562
NC_004342.2\|WP_001140542.1\|3175578_3176007_+\|RNA-binding-protein	unknown	unknown	gnl\|CDD\|227269
NC_004342.2\|WP_000110276.1\|3163004_3163211_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000153246.1\|3173425_3173647_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_001072139.1\|3157826_3158213_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000451413.1\|3158396_3158609_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_080010676.1\|3160269_3160479_+\|hypothetical-protein	cas6	cd09703_cas6_CAS-I:CAS-III	gnl\|CDD\|370559
NC_004342.2\|WP_000445684.1\|3174203_3175277_+\|IS110-like-element-ISLin1-family-transposase	unknown	unknown	gnl\|CDD\|376773
NC_004342.2\|WP_000683530.1\|3162603_3162888_+\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_004342.2\|WP_000098773.1\|3169569_3171453_+\|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1	cas8b3	cd09713_cas8b3_CAS-I-B	gnl\|CDD\|132524
NC_004342.2\|WP_000371340.1\|3172377_3173001_+\|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS	cas5	cd09688_cas5_CAS-I-B	gnl\|CDD\|131635
NC_004342.2\|WP_000026911.1\|3166680_3167313_+\|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6	cas6	cd09703_cas6_CAS-I:CAS-III	gnl\|CDD\|274308
NC_004342.2\|WP_000052104.1\|3171517_3172357_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	cas7	cd09687_cas7_CAS-I-B	gnl\|CDD\|187818

Protein	Function_ID	Function_description	E-value
NC_004342.2\|WP_002068643.1\|3160978_3162604_+\|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274899	TIGR03983, hypothetical_protein_LA3181, CRISPR-associated endonuclease Cas1, subtype MYXAN. Members of this protein are the Cas1 endonuclease, or Cas1 domain in Cas4/Cas1 fusion proteins, of the MYXAN subtype of CRISPR/Cas systems. These systems typically feature repeats and spacers each about 36 base pairs in length. Species with this type of CRISPR system include Myxococcus xanthus, Cyanothece sp., Leptospira interrogans, Sorangium cellulosum, Anabaena variabilis ATCC 29413, etc.	0
NC_004342.2\|WP_000601707.1\|3167309_3169568_+\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|187770	cd09639, Cas3_I, CRISPR/Cas system-associated protein Cas3. 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; DEAD/DEAH box helicase DNA helicase cas3'; Often but not always is fused to HD nuclease domain; signature gene for Type I.	6.9629e-45
NC_004342.2\|WP_000371340.1\|3172377_3173001_+\|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS	gnl\|CDD\|131635	TIGR02586, CRISPR-associated_protein_Cas5, CRISPR-associated protein Cas5/DevS, subtype MYXAN. This model represents DevS of Myxococcus xanthus and related proteins of Leptospira interrogans and Gemmata obscuriglobus. This protein is encoded in a cluster of CRISPR-associated (cas) genes, and in the special case of Myxococcus xanthus has taken on a role in the control of fruiting body development. CRISPRs are clustered, regularly interspaced short palidromic repeats. This protein family is related to models TIGR01868, TIGR01895, and TIGR01876.	2.20305e-103
NC_004342.2\|WP_000199604.1\|3176356_3177898_+\|type-I-restriction-modification-system-subunit-M	gnl\|CDD\|211578	TIGR00497, hsdM, type I restriction system adenine methylase (hsdM). Function: methylation of specific adenine residues; required for both restriction and modification activities. The ECOR124/3 I enzyme recognizes 5'GAA(N7)RTCG. for E.coli see (J. Mol. Biol. 257: 960-969 (1996)). [DNA metabolism, Restriction/modification].	0
NC_004342.2\|WP_000590871.1\|3154497_3155994_+\|ABC-F-family-ATP-binding-cassette-domain-containing-protein	gnl\|CDD\|223562	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only].	2.82035e-156
NC_004342.2\|WP_001140542.1\|3175578_3176007_+\|RNA-binding-protein	gnl\|CDD\|227269	COG4933, COG4933, Uncharacterized conserved protein [Function unknown].	8.13427e-15
NC_004342.2\|WP_000578381.1\|3158870_3159746_+\|hypothetical-protein	gnl\|CDD\|379539	pfam14284, PcfJ, PcfJ-like protein. The PcfJ-like protein family includes the E. faecalis PcfJ protein, which is functionally uncharacterized. It is found in bacteria and viruses, and is typically between 159 and 170 amino acids in length. There is a conserved HCV sequence motif.	0.000758652
NC_004342.2\|WP_080010676.1\|3160269_3160479_+\|hypothetical-protein	gnl\|CDD\|370559	pfam09559, Cas6, Cas6 Crispr. The Cas6 Crispr family of proteins averaging 140 residues are characterized by having a GhGxxxxxGhG motif, where h indicates a hydrophobic residue, at the C-terminus. The CRISPR-Cas system is possibly a mechanism of defense against invading pathogens and plasmids that functions analogously to the RNA interference (RNAi) systems in eukaryotes.	5.55155e-11
NC_004342.2\|WP_000445684.1\|3174203_3175277_+\|IS110-like-element-ISLin1-family-transposase	gnl\|CDD\|376773	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family. Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS116, IS110 and IS902. This region is often found with pfam01548. The exact function of this region is uncertain. This family contains a HHH motif suggesting a DNA-binding function.	1.57227e-27
NC_004342.2\|WP_000683530.1\|3162603_3162888_+\|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.	8.42665e-19
NC_004342.2\|WP_000098773.1\|3169569_3171453_+\|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1	gnl\|CDD\|132524	TIGR03485, hypothetical_protein_L8106_30105, CRISPR-associated protein Cas8a1/Csx13, MYXAN subtype. Members of this family are found among cas (CRISPR-Associated) genes close to CRISPR repeats in Leptospira interrogans (a spirochete), Myxococcus xanthus (a delta-proteobacterium), and Lyngbya sp. PCC 8106 (a cyanobacterium). It is found with other cas genes in Anabaena variabilis ATCC 29413. In Lyngbya sp., the protein is split into two tandem genes. This model corresponds to the N-terminal region or upstream gene; the C-terminal region is described by TIGR03486. CRISPR/cas systems are associated with prokaryotic acquired resistance to phage and other exogenous DNA.	4.83831e-166
NC_004342.2\|WP_000026911.1\|3166680_3167313_+\|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6	gnl\|CDD\|274308	TIGR02807, hypothetical_protein_LA_3189, CRISPR-associated protein Cas6, subtype MYXAN. Members of this protein family resemble the Cas6 proteins described by TIGR01877 in having a C-terminal motif GXGXXXXXGXG, where the single X of each GXG is hydrophobic and the spacer XXXXX has at least one Lys or Arg. Examples are found in cas gene operons of CRISPR regions in Anabaena variabilis ATCC 29413, Leptospira interrogans, Gemmata obscuriglobus UQM 2246, and twice in Myxococcus xanthus DK 1622. Oddly, an orphan member is found in Thiobacillus denitrificans ATCC 25259, whose genome does not seem to contain other evidence of CRISPR repeats or cas genes.	6.95928e-102
NC_004342.2\|WP_000052104.1\|3171517_3172357_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	gnl\|CDD\|187818	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7. 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; Cas7 is a RAMP superfamily protein; Subunit of the Cascade complex; also known as Cst2/DevR family.	9.32745e-84

>NC_004342.2|WP_000110276.1|3163004_3163211_-|hypothetical-protein
MSVFKGGEQVYRFLSLFFMFGFFRSAYFVSKDHFVSNIKIQVCLSSSPIINLAGIFTRKKNERWPIIR
>NC_004342.2|WP_000683530.1|3162603_3162888_+|CRISPR-associated-endonuclease-Cas2
MKHWRLVSYDIREPKRLRRVAKIMEGFGERIQYSVFRIYSTDKELEKLRWKLAKVTEEEDNIFYLTLCTKCASGAHTQEKKSAWPEAPKTLKIL
>NC_004342.2|WP_002068643.1|3160978_3162604_+|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1
MGIHSLLYCERLFYLEEVEGILVADDRVYAGRTLHEELEPNEDSSGRIESFHYTSEKLEVSGKVDRIQKRDGDWIPYEHKRGRARIGTNGPEAWESDQCQVTVYALLLEEATGRNISEGKIRYHGSKDLVKIEIDEELRSKALKTIDRAKGLSTSTNRPPVAQNENLCKNCSLAPVCLPEETRVITENEYEPIRLFPEKREKTTLHVFGHDSRIKKSDNVLLVEKVTETGEKSKSEKIPIQEIESVNIHGNCQISSQMIKFLVSEEIPVHWFSGGGNYIGGININPSGVQRRIRQFKALTKETIRLNLAKKLVSAKCESQLRYLLRATRGKDETRNETESYLATIRSGLKNIESADSPSQLLGIEGSSARAYFSGLPALLKNSDPFLVPNGRSKRPPKDPFNATLSFLYSLLYKSVRQAIIAVGLDPSFGFYHTPRSSAEPLVLDLMELFRVSLCDMTLIGSINRKSWIDEDFEITKNKVWLSESGRKKATQLYETRLDDTWKHPVVNYSLSYYRMIELEVRLLEKEWSGEANIFAQARLR
>NC_004342.2|WP_080010676.1|3160269_3160479_+|hypothetical-protein
MGPLQSNLHLNTTSKLRIRAEQPLLSHLLKLAGKNLEVSQDKIQLGIPIIGLLKPHKTLYSRLIGSANI
>NC_004342.2|WP_000573601.1|3159897_3160194_+|hypothetical-protein
MIEVIRNRFDYKANETNLRDWFIIHACKKSHHRNLLGYTGKEHPEYLLAKRKNRFRITISERSFSKNKPFSLHCNLGESQSPGLLYLAVNRFISNSIL
>NC_004342.2|WP_000578381.1|3158870_3159746_+|hypothetical-protein
MIFVLEYCLENPKSIFLVIPKDFETVREKFPFLKRKVIATYFGFHPSSLNVLEKITDSAVQNGYLKTFQNLYSIPVFQKAFHHLPIINEFIIQFFNYSRAKNWNEKWDILFLKDLLFRFPNPNFEEEDFERTFQLYEEVKRFSPSWKIRSLEHLKDLEQKMIQKIQKNEFIGPDQPYPTPPMEKEDWLEPINSRKELFLESRIQHNCIFSYDTRILEGEYYIYRIFFPERCTLSLFYINGDWYLDQIAAAFNKEAKAETLRKVEEWRMQNGIFVLGDAFRLGIPPDWIFAR
>NC_004342.2|WP_000451413.1|3158396_3158609_-|hypothetical-protein
MEVAFSKAGQPVRSRMLKYSLMFSLLYLLRDSEYLWSVLISAFFISLTVHLWFGYKTKVWTTALGNVNKL
>NC_004342.2|WP_001072139.1|3157826_3158213_+|hypothetical-protein
MNQKIFKSIWAIIAGFLTIFILSTAVDLILHQTGIYPPMGVIMSDELFALATAYRVFFGILSGYVTAKIAPDQPVKHSLALGVLGLIVSITGAIVMWDAGPAWYSLAIIAIALPCSWAGGILYERSQT
>NC_004342.2|WP_001110347.1|3156932_3157484_+|hypothetical-protein
MNYYILEEVNYHLNIPYIGDLPEELDTIDVMTGRKIEISNLPIRVPIKIDYESEIVYPDIMTADLPLFSEKIRNSLDQIGIKNIQYYPVELFEDQTGQTKANYYMSILPVSVECLKSGINRSPAGRLILKNPIIDPTKILGLKLFRLGEEPSLIIIDSMVKDTLTNAHLNGVSFIPLEEYTSS
>NC_004342.2|WP_000590871.1|3154497_3155994_+|ABC-F-family-ATP-binding-cassette-domain-containing-protein
MIKISGLNKAFTTKVLFDDLNLSINRGEKVGLVGRNGHGKSTLFQVILGNVEADSGTISIPKGYKIGHLQQHLHFTKPTVLEECSLGLPEGEEYETWKVEKILSGLGFSEQDMEKNPNEFSGGYQIRMNLAKLLVSSPDMLMLDEPNNYLDIVTIRWLEEFLREWEGEIILVTHDRGFMDAVVTHTIAIHRTKAIKVQGDTDKLYNQINQSEEIYEKTRLNEAKKRKQEEIFIAKFKAKASFASRAQSRVKKLEKQGEMKELEKIQDLELYFNSAPFNANQMLSAENLSFSYDGKEPFLIENFSISVGSRERICIIGKNGKGKSTLLKILAGELETSQGTIKKHPVLKEGYFGQTNKLNLNENSTVVEEIMISDPSCNEWKARTIAGGLMFSEDQALKKIKVLSGGEKSRVLLGKILVTPCHLLYLDEPTNHLDMQSCDSLIEAIDEFDGSVIMVTHDELHLRAVATKLIVFDNDSIQIFNGSYDDFLNDVGWSNEHY
>NC_004342.2|WP_000026911.1|3166680_3167313_+|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6
MSIPNVIELNFPVLGSLLPADHGYGLYSAICHLCPTLHEHDSLSIQTISGLPDRPGILRLTANSQLRIRIPVEQIPLVYPLAGKSLTIGIHKIQLSIPAIRILQPYSVLKSRITVIKGFSEPETFLEAAQKQLNAREISGRVILLQDPKGNPKRNTIKIKRFTIVGFGLKVEGLNEKDSLELQVTGLGGKRRMGCGVFYGDSNKVESKAS
>NC_004342.2|WP_000601707.1|3167309_3169568_+|CRISPR-associated-helicase/endonuclease-Cas3
MILLAKSYPGIEKQLKSGDPESWALLEHHSSATYQVAEVLLKILEPILRKWTRLSESEYNKFVLVVCLSAGLHDLGKANEDFQKMLQRRKYLQRFRHEIWSVLALTGSGPFSDWFRKTIGDETWVRIGQMGILSHHLKATRETLYADHETAEIKVFWKDQGVIKTFQSICRLAGISSPDFSSSSISSYTCLGEDADKSIRIWTREILNARIDPRYQHSIGAVRAMIIAADRLASAYKGADALKLWAEEALNRVLSEQECSKIVKQGLGEKNLRPFQKQVGDSTSRVTLVRAGCGNGKTIAAFQWAKTHSAGRKLFFCYPTMGTATEGFRDYVSDIPGLDALLSHSRASLDLGELASTGEEDEGDSLNMHSRMLQEWTAQVTFCTVDQILGLLQNYRSSLTLSPAIFLGAFVFDEIHMYDSILFGNLLTFLKEFSHTSILLMTASLPETMLSAIQETVGADLGPVISGEAQIEERLRYRILHSSREDALQKAIQEFKNGGRVLWVCNKVEHCLKLYDELSEKYDIEALVYHSRFKYEDRKERHRAVIDSFQEGYKKSLPVFAITTQVCEVSLDISATLLISELCPFAALIQRLGRVNRPGQEMEGIAQVLIIPFQGKPYEKENEDDGESELERCKEILKPLLDRELSQKDLALALENAKGTEHQKIPSQWLSLGWEAKPDSIRESGYTLDVILESDAYKVLKNERPWEKSKLYTIPMPIQKQFSYGEPPLRIPVVPDSQIQYSSVRGGEWNLN
>NC_004342.2|WP_000098773.1|3169569_3171453_+|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1
MSSRPSASIETTPNTPVVFQRGLSECTSPLLRAGLAGLYSTLYSLKDEKKPKTLSWELTQDSIQITSKGEFSKDFQWIINHGYQTKEGIFYCPGIHRTKTIHKDRMHFHNAMMGTFLQHGRIQVRTKGAGTAVSIEDECKLLYFPLLVEEKKIKYRKDAESILFAEKRGSTWSFENLVELSGYVMPGAPPRFTHETSWIGTIADAFLLFFAPLSCSFAEIEPSRGTWCILIPELEDLETFERFRRDYEVNTINMFAGGPGDAALRYLTEMDLTGNKKDFSPNGCEVYVIGKVAWNKKQQVRRLMMRIHPTEKNFRIYKKMRGIFQNKIHLKKTDASSKSKKSRTRSTDKNKTQKKKDENYHWVSSPYAAARIAENLVQGKRWYYQFAKPLSWYIDTLERKRKSSPGSSHEKIWFESIRRFERAELIKFMENNEIWNSEEEQWFVKSFHETLSRLYAKEASHLNRRGGSRTLGDRWKHMNEKIYRDLAQAKTSPQIRTVISDLWAKSGRPPSLQEHTGALWKFISKDSEYARDLSLVALASYQGSSSLFRETVKDAVQKDEGRQLSLNLEKATTQEQVLKAYQTLWDFVETNDEEKNDLEVFVTKNWKRALEIGQEEIQKAKKKSNDA
>NC_004342.2|WP_000052104.1|3171517_3172357_+|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR
MSLHIFGTILTPHGVAANNRGENEGNLSTLQKLLWNGEVHSTVSGEAIRYALRETWMEDHENLLNRKIKSEGYDWQDETFKKPDRYLDDTILGFMDPKKETNKRRASLEITRAVSTRPWIGDVSFNVASVGAQRTNKNPIPYATEIHATRYQYSFALSGDDVKSEWKGLALDGLASLRRVAGNHSRFLYDFSPESIVLRVTHDPAPRILYCFREEGDTIDLKNLAKRVASGDVKAEELILGGEIASEQDAIELKTKGATVFPGIKAAVEDAKKRIGKSA
>NC_004342.2|WP_000371340.1|3172377_3173001_+|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS
MDPLILYYEIPIASFRPYQSREYQDSYPVPPPSTLIGMSLSLCGLSMDHRKFFSSCEMCSAVADSNPARSTVLRRMRRLGDSGRDPKQRRPEYQELVTGIRGIVAYRGLPAELAKPMKTVLTTPEKIIRYGGLSLGESSFLVDVIRLFELPDTTQSNWSWLIPDMKGSLDLPVWIDTISPSLTTKFRFSFQSAEGIPENAWFKLRPS
>NC_004342.2|WP_000153246.1|3173425_3173647_-|hypothetical-protein
MTIKSGETGTKRKVKSLASWPFLFQERSFKTFDQQTTVLRSVKEKPDKYVWLFAFLARVITERNKSYIQLNPL
>NC_004342.2|WP_000445684.1|3174203_3175277_+|IS110-like-element-ISLin1-family-transposase
MESQEVKYVGVDCGKKSIEVVRINSENSLERRQFSTTESGINNLLQWLTLNDIVGLEAGSQSFRIAKSILNKGVQVIVLNPGNLATIYQSLKKTDKEDSLKIARLIQRFPIEELPTVPIPNDEEEDNRRLCPEQENWTKQLTQGKNRLHSLFTQAGLTQITKKHLRTKANREISVALLPSRYQKEAERILKVLDLVEQNLKLIEKEIQEALKKNKAYVQTIMSMPGIGMITSLAIMSYMGDCKRFSSAKQAAYYAGLVPRVDISGDTVRYGRIINLGCHSIRRVIVQAAWSLVRCQHGGKVKEFYQRLYLKKGAKKSIIATSRKMIEVLYVMIRTGKLFDSMPENILNRKLTQYGLM
>NC_004342.2|WP_001140542.1|3175578_3176007_+|RNA-binding-protein
MAKTKNRRVVFLPIKPEFAHKIINGEKNIEFRKKFSSQEVETIVIYSSSPEKRVIGYATVDSIVIDTPDSLWKRFYKKGGIDKDRFSFYFNGKETGVGIRIKNVSRLKEAVTPTQLGIQGAIPQNFKFLEKGIITILERNLI
>NC_004342.2|WP_000533549.1|3175999_3176182_-|hypothetical-protein
MGRRGKIATEHNASEILRDLSLPNFTFLAMILKKALKFLLSFVSRSLVSKANSNLVFFLK
>NC_004342.2|WP_000199604.1|3176356_3177898_+|type-I-restriction-modification-system-subunit-M
MTSAQQRAALQRQIWQIANDVRGAVDGWDFKQYVLGTLFYRFISENFTNYMEGGDSSIQYSKLNDKKITKEIKDDAIKTRGYFIYPSQLFANIVIKADKNERLNTDLAGIFKDIESSANGFPSEHDIKGLFADFDTTSNRLGNTVKDKNSRLTAVLKRVAELDFGDFDSSHIDLFGDAYEFLISNYAANAGKSGGEFFTPQHVSKLIARLAIHKQTRINKIYDPACGSGSLLLQAKKQFDDHIIEEGFFGQEINHTTYNLARMNMFLHNINYDKFDIELGNTLIDPQHNHEKPFDAIVSNPPYSINWKGSDDPTLINDERFAPAGVLAPKSKADFAFVLHALSYLSSKGRAAIVCFPGIFYRSGAEQKIRQYLVGNNFVETVISLAPNLFFGTTIAVNILVLSKHKTDTNTQFIDASGLFKKETNNNILTEDHIERIMQTFDSKVDMEHFAKSVSVETIANNDYNLSVSSYVEAKDNREVIDIQKLNAELKTTVEKIDQLRADIDAIVAEIEG

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Crispr_ID: NC_004342_12

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_004342_12

3165651-3165821

Unclear

I-A,I-B,II-B

Consensus_repeat	Method
CTGAATATAACTTTGATGCCGTTAGGCG	CRISPRCasFinder

2 spacers

cas2,cas1,cas6,cas3,cas8b3,cas7,cas5

The CRISPR arrays of NC_004342_12

>merge|NC_004342|12|3165651-3165821|CRISPRCasFinder
CTTACAAAAATCGGGATGCCGGTAGGCGTTGAGCACACCCGGTTTGCATTTACCGAAGTCCAAATCAATTTCCTGAATATAACTTTGATGCCGGTAGGCGTTGAGCACTAAGAGTAAGTGGAGGCTAGATTTAGAGGGATTGTCTGAATATAACTTTGATGCCGTTAGGCG

>NC_004342|12|12|3165651-3165821|CRISPRCasFinder
CTTACAAAAATCGGGATGCCGGTAGGCG	TTGAGCACACCCGGTTTGCATTTACCGAAGTCCAAATCAATTTC
CTGAATATAACTTTGATGCCGGTAGGCG	TTGAGCACTAAGAGTAAGTGGAGGCTAGATTTAGAGGGATTGT
CTGAATATAACTTTGATGCCGTTAGGCG

Protein	Signature genes	Signature genes Name	Protein_function
NC_004342.2\|WP_000199604.1\|3176356_3177898_+\|type-I-restriction-modification-system-subunit-M	unknown	unknown	gnl\|CDD\|211578
NC_004342.2\|WP_002068643.1\|3160978_3162604_+\|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|274899
NC_004342.2\|WP_000533549.1\|3175999_3176182_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000578381.1\|3158870_3159746_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379539
NC_004342.2\|WP_000601707.1\|3167309_3169568_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	cd09639_cas3_CAS-I	gnl\|CDD\|187770
NC_004342.2\|WP_001110347.1\|3156932_3157484_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000573601.1\|3159897_3160194_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000590871.1\|3154497_3155994_+\|ABC-F-family-ATP-binding-cassette-domain-containing-protein	unknown	unknown	gnl\|CDD\|223562
NC_004342.2\|WP_001140542.1\|3175578_3176007_+\|RNA-binding-protein	unknown	unknown	gnl\|CDD\|227269
NC_004342.2\|WP_000110276.1\|3163004_3163211_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000153246.1\|3173425_3173647_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_001072139.1\|3157826_3158213_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000451413.1\|3158396_3158609_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_080010676.1\|3160269_3160479_+\|hypothetical-protein	cas6	cd09703_cas6_CAS-I:CAS-III	gnl\|CDD\|370559
NC_004342.2\|WP_000445684.1\|3174203_3175277_+\|IS110-like-element-ISLin1-family-transposase	unknown	unknown	gnl\|CDD\|376773
NC_004342.2\|WP_000683530.1\|3162603_3162888_+\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_004342.2\|WP_000098773.1\|3169569_3171453_+\|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1	cas8b3	cd09713_cas8b3_CAS-I-B	gnl\|CDD\|132524
NC_004342.2\|WP_000371340.1\|3172377_3173001_+\|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS	cas5	cd09688_cas5_CAS-I-B	gnl\|CDD\|131635
NC_004342.2\|WP_000026911.1\|3166680_3167313_+\|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6	cas6	cd09703_cas6_CAS-I:CAS-III	gnl\|CDD\|274308
NC_004342.2\|WP_000052104.1\|3171517_3172357_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	cas7	cd09687_cas7_CAS-I-B	gnl\|CDD\|187818

Protein	Function_ID	Function_description	E-value
NC_004342.2\|WP_002068643.1\|3160978_3162604_+\|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274899	TIGR03983, hypothetical_protein_LA3181, CRISPR-associated endonuclease Cas1, subtype MYXAN. Members of this protein are the Cas1 endonuclease, or Cas1 domain in Cas4/Cas1 fusion proteins, of the MYXAN subtype of CRISPR/Cas systems. These systems typically feature repeats and spacers each about 36 base pairs in length. Species with this type of CRISPR system include Myxococcus xanthus, Cyanothece sp., Leptospira interrogans, Sorangium cellulosum, Anabaena variabilis ATCC 29413, etc.	0
NC_004342.2\|WP_000601707.1\|3167309_3169568_+\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|187770	cd09639, Cas3_I, CRISPR/Cas system-associated protein Cas3. 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; DEAD/DEAH box helicase DNA helicase cas3'; Often but not always is fused to HD nuclease domain; signature gene for Type I.	6.9629e-45
NC_004342.2\|WP_000371340.1\|3172377_3173001_+\|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS	gnl\|CDD\|131635	TIGR02586, CRISPR-associated_protein_Cas5, CRISPR-associated protein Cas5/DevS, subtype MYXAN. This model represents DevS of Myxococcus xanthus and related proteins of Leptospira interrogans and Gemmata obscuriglobus. This protein is encoded in a cluster of CRISPR-associated (cas) genes, and in the special case of Myxococcus xanthus has taken on a role in the control of fruiting body development. CRISPRs are clustered, regularly interspaced short palidromic repeats. This protein family is related to models TIGR01868, TIGR01895, and TIGR01876.	2.20305e-103
NC_004342.2\|WP_000199604.1\|3176356_3177898_+\|type-I-restriction-modification-system-subunit-M	gnl\|CDD\|211578	TIGR00497, hsdM, type I restriction system adenine methylase (hsdM). Function: methylation of specific adenine residues; required for both restriction and modification activities. The ECOR124/3 I enzyme recognizes 5'GAA(N7)RTCG. for E.coli see (J. Mol. Biol. 257: 960-969 (1996)). [DNA metabolism, Restriction/modification].	0
NC_004342.2\|WP_000590871.1\|3154497_3155994_+\|ABC-F-family-ATP-binding-cassette-domain-containing-protein	gnl\|CDD\|223562	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only].	2.82035e-156
NC_004342.2\|WP_001140542.1\|3175578_3176007_+\|RNA-binding-protein	gnl\|CDD\|227269	COG4933, COG4933, Uncharacterized conserved protein [Function unknown].	8.13427e-15
NC_004342.2\|WP_000578381.1\|3158870_3159746_+\|hypothetical-protein	gnl\|CDD\|379539	pfam14284, PcfJ, PcfJ-like protein. The PcfJ-like protein family includes the E. faecalis PcfJ protein, which is functionally uncharacterized. It is found in bacteria and viruses, and is typically between 159 and 170 amino acids in length. There is a conserved HCV sequence motif.	0.000758652
NC_004342.2\|WP_080010676.1\|3160269_3160479_+\|hypothetical-protein	gnl\|CDD\|370559	pfam09559, Cas6, Cas6 Crispr. The Cas6 Crispr family of proteins averaging 140 residues are characterized by having a GhGxxxxxGhG motif, where h indicates a hydrophobic residue, at the C-terminus. The CRISPR-Cas system is possibly a mechanism of defense against invading pathogens and plasmids that functions analogously to the RNA interference (RNAi) systems in eukaryotes.	5.55155e-11
NC_004342.2\|WP_000445684.1\|3174203_3175277_+\|IS110-like-element-ISLin1-family-transposase	gnl\|CDD\|376773	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family. Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS116, IS110 and IS902. This region is often found with pfam01548. The exact function of this region is uncertain. This family contains a HHH motif suggesting a DNA-binding function.	1.57227e-27
NC_004342.2\|WP_000683530.1\|3162603_3162888_+\|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.	8.42665e-19
NC_004342.2\|WP_000098773.1\|3169569_3171453_+\|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1	gnl\|CDD\|132524	TIGR03485, hypothetical_protein_L8106_30105, CRISPR-associated protein Cas8a1/Csx13, MYXAN subtype. Members of this family are found among cas (CRISPR-Associated) genes close to CRISPR repeats in Leptospira interrogans (a spirochete), Myxococcus xanthus (a delta-proteobacterium), and Lyngbya sp. PCC 8106 (a cyanobacterium). It is found with other cas genes in Anabaena variabilis ATCC 29413. In Lyngbya sp., the protein is split into two tandem genes. This model corresponds to the N-terminal region or upstream gene; the C-terminal region is described by TIGR03486. CRISPR/cas systems are associated with prokaryotic acquired resistance to phage and other exogenous DNA.	4.83831e-166
NC_004342.2\|WP_000026911.1\|3166680_3167313_+\|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6	gnl\|CDD\|274308	TIGR02807, hypothetical_protein_LA_3189, CRISPR-associated protein Cas6, subtype MYXAN. Members of this protein family resemble the Cas6 proteins described by TIGR01877 in having a C-terminal motif GXGXXXXXGXG, where the single X of each GXG is hydrophobic and the spacer XXXXX has at least one Lys or Arg. Examples are found in cas gene operons of CRISPR regions in Anabaena variabilis ATCC 29413, Leptospira interrogans, Gemmata obscuriglobus UQM 2246, and twice in Myxococcus xanthus DK 1622. Oddly, an orphan member is found in Thiobacillus denitrificans ATCC 25259, whose genome does not seem to contain other evidence of CRISPR repeats or cas genes.	6.95928e-102
NC_004342.2\|WP_000052104.1\|3171517_3172357_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	gnl\|CDD\|187818	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7. 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; Cas7 is a RAMP superfamily protein; Subunit of the Cascade complex; also known as Cst2/DevR family.	9.32745e-84

>NC_004342.2|WP_000110276.1|3163004_3163211_-|hypothetical-protein
MSVFKGGEQVYRFLSLFFMFGFFRSAYFVSKDHFVSNIKIQVCLSSSPIINLAGIFTRKKNERWPIIR
>NC_004342.2|WP_000683530.1|3162603_3162888_+|CRISPR-associated-endonuclease-Cas2
MKHWRLVSYDIREPKRLRRVAKIMEGFGERIQYSVFRIYSTDKELEKLRWKLAKVTEEEDNIFYLTLCTKCASGAHTQEKKSAWPEAPKTLKIL
>NC_004342.2|WP_002068643.1|3160978_3162604_+|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1
MGIHSLLYCERLFYLEEVEGILVADDRVYAGRTLHEELEPNEDSSGRIESFHYTSEKLEVSGKVDRIQKRDGDWIPYEHKRGRARIGTNGPEAWESDQCQVTVYALLLEEATGRNISEGKIRYHGSKDLVKIEIDEELRSKALKTIDRAKGLSTSTNRPPVAQNENLCKNCSLAPVCLPEETRVITENEYEPIRLFPEKREKTTLHVFGHDSRIKKSDNVLLVEKVTETGEKSKSEKIPIQEIESVNIHGNCQISSQMIKFLVSEEIPVHWFSGGGNYIGGININPSGVQRRIRQFKALTKETIRLNLAKKLVSAKCESQLRYLLRATRGKDETRNETESYLATIRSGLKNIESADSPSQLLGIEGSSARAYFSGLPALLKNSDPFLVPNGRSKRPPKDPFNATLSFLYSLLYKSVRQAIIAVGLDPSFGFYHTPRSSAEPLVLDLMELFRVSLCDMTLIGSINRKSWIDEDFEITKNKVWLSESGRKKATQLYETRLDDTWKHPVVNYSLSYYRMIELEVRLLEKEWSGEANIFAQARLR
>NC_004342.2|WP_080010676.1|3160269_3160479_+|hypothetical-protein
MGPLQSNLHLNTTSKLRIRAEQPLLSHLLKLAGKNLEVSQDKIQLGIPIIGLLKPHKTLYSRLIGSANI
>NC_004342.2|WP_000573601.1|3159897_3160194_+|hypothetical-protein
MIEVIRNRFDYKANETNLRDWFIIHACKKSHHRNLLGYTGKEHPEYLLAKRKNRFRITISERSFSKNKPFSLHCNLGESQSPGLLYLAVNRFISNSIL
>NC_004342.2|WP_000578381.1|3158870_3159746_+|hypothetical-protein
MIFVLEYCLENPKSIFLVIPKDFETVREKFPFLKRKVIATYFGFHPSSLNVLEKITDSAVQNGYLKTFQNLYSIPVFQKAFHHLPIINEFIIQFFNYSRAKNWNEKWDILFLKDLLFRFPNPNFEEEDFERTFQLYEEVKRFSPSWKIRSLEHLKDLEQKMIQKIQKNEFIGPDQPYPTPPMEKEDWLEPINSRKELFLESRIQHNCIFSYDTRILEGEYYIYRIFFPERCTLSLFYINGDWYLDQIAAAFNKEAKAETLRKVEEWRMQNGIFVLGDAFRLGIPPDWIFAR
>NC_004342.2|WP_000451413.1|3158396_3158609_-|hypothetical-protein
MEVAFSKAGQPVRSRMLKYSLMFSLLYLLRDSEYLWSVLISAFFISLTVHLWFGYKTKVWTTALGNVNKL
>NC_004342.2|WP_001072139.1|3157826_3158213_+|hypothetical-protein
MNQKIFKSIWAIIAGFLTIFILSTAVDLILHQTGIYPPMGVIMSDELFALATAYRVFFGILSGYVTAKIAPDQPVKHSLALGVLGLIVSITGAIVMWDAGPAWYSLAIIAIALPCSWAGGILYERSQT
>NC_004342.2|WP_001110347.1|3156932_3157484_+|hypothetical-protein
MNYYILEEVNYHLNIPYIGDLPEELDTIDVMTGRKIEISNLPIRVPIKIDYESEIVYPDIMTADLPLFSEKIRNSLDQIGIKNIQYYPVELFEDQTGQTKANYYMSILPVSVECLKSGINRSPAGRLILKNPIIDPTKILGLKLFRLGEEPSLIIIDSMVKDTLTNAHLNGVSFIPLEEYTSS
>NC_004342.2|WP_000590871.1|3154497_3155994_+|ABC-F-family-ATP-binding-cassette-domain-containing-protein
MIKISGLNKAFTTKVLFDDLNLSINRGEKVGLVGRNGHGKSTLFQVILGNVEADSGTISIPKGYKIGHLQQHLHFTKPTVLEECSLGLPEGEEYETWKVEKILSGLGFSEQDMEKNPNEFSGGYQIRMNLAKLLVSSPDMLMLDEPNNYLDIVTIRWLEEFLREWEGEIILVTHDRGFMDAVVTHTIAIHRTKAIKVQGDTDKLYNQINQSEEIYEKTRLNEAKKRKQEEIFIAKFKAKASFASRAQSRVKKLEKQGEMKELEKIQDLELYFNSAPFNANQMLSAENLSFSYDGKEPFLIENFSISVGSRERICIIGKNGKGKSTLLKILAGELETSQGTIKKHPVLKEGYFGQTNKLNLNENSTVVEEIMISDPSCNEWKARTIAGGLMFSEDQALKKIKVLSGGEKSRVLLGKILVTPCHLLYLDEPTNHLDMQSCDSLIEAIDEFDGSVIMVTHDELHLRAVATKLIVFDNDSIQIFNGSYDDFLNDVGWSNEHY
>NC_004342.2|WP_000026911.1|3166680_3167313_+|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6
MSIPNVIELNFPVLGSLLPADHGYGLYSAICHLCPTLHEHDSLSIQTISGLPDRPGILRLTANSQLRIRIPVEQIPLVYPLAGKSLTIGIHKIQLSIPAIRILQPYSVLKSRITVIKGFSEPETFLEAAQKQLNAREISGRVILLQDPKGNPKRNTIKIKRFTIVGFGLKVEGLNEKDSLELQVTGLGGKRRMGCGVFYGDSNKVESKAS
>NC_004342.2|WP_000601707.1|3167309_3169568_+|CRISPR-associated-helicase/endonuclease-Cas3
MILLAKSYPGIEKQLKSGDPESWALLEHHSSATYQVAEVLLKILEPILRKWTRLSESEYNKFVLVVCLSAGLHDLGKANEDFQKMLQRRKYLQRFRHEIWSVLALTGSGPFSDWFRKTIGDETWVRIGQMGILSHHLKATRETLYADHETAEIKVFWKDQGVIKTFQSICRLAGISSPDFSSSSISSYTCLGEDADKSIRIWTREILNARIDPRYQHSIGAVRAMIIAADRLASAYKGADALKLWAEEALNRVLSEQECSKIVKQGLGEKNLRPFQKQVGDSTSRVTLVRAGCGNGKTIAAFQWAKTHSAGRKLFFCYPTMGTATEGFRDYVSDIPGLDALLSHSRASLDLGELASTGEEDEGDSLNMHSRMLQEWTAQVTFCTVDQILGLLQNYRSSLTLSPAIFLGAFVFDEIHMYDSILFGNLLTFLKEFSHTSILLMTASLPETMLSAIQETVGADLGPVISGEAQIEERLRYRILHSSREDALQKAIQEFKNGGRVLWVCNKVEHCLKLYDELSEKYDIEALVYHSRFKYEDRKERHRAVIDSFQEGYKKSLPVFAITTQVCEVSLDISATLLISELCPFAALIQRLGRVNRPGQEMEGIAQVLIIPFQGKPYEKENEDDGESELERCKEILKPLLDRELSQKDLALALENAKGTEHQKIPSQWLSLGWEAKPDSIRESGYTLDVILESDAYKVLKNERPWEKSKLYTIPMPIQKQFSYGEPPLRIPVVPDSQIQYSSVRGGEWNLN
>NC_004342.2|WP_000098773.1|3169569_3171453_+|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1
MSSRPSASIETTPNTPVVFQRGLSECTSPLLRAGLAGLYSTLYSLKDEKKPKTLSWELTQDSIQITSKGEFSKDFQWIINHGYQTKEGIFYCPGIHRTKTIHKDRMHFHNAMMGTFLQHGRIQVRTKGAGTAVSIEDECKLLYFPLLVEEKKIKYRKDAESILFAEKRGSTWSFENLVELSGYVMPGAPPRFTHETSWIGTIADAFLLFFAPLSCSFAEIEPSRGTWCILIPELEDLETFERFRRDYEVNTINMFAGGPGDAALRYLTEMDLTGNKKDFSPNGCEVYVIGKVAWNKKQQVRRLMMRIHPTEKNFRIYKKMRGIFQNKIHLKKTDASSKSKKSRTRSTDKNKTQKKKDENYHWVSSPYAAARIAENLVQGKRWYYQFAKPLSWYIDTLERKRKSSPGSSHEKIWFESIRRFERAELIKFMENNEIWNSEEEQWFVKSFHETLSRLYAKEASHLNRRGGSRTLGDRWKHMNEKIYRDLAQAKTSPQIRTVISDLWAKSGRPPSLQEHTGALWKFISKDSEYARDLSLVALASYQGSSSLFRETVKDAVQKDEGRQLSLNLEKATTQEQVLKAYQTLWDFVETNDEEKNDLEVFVTKNWKRALEIGQEEIQKAKKKSNDA
>NC_004342.2|WP_000052104.1|3171517_3172357_+|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR
MSLHIFGTILTPHGVAANNRGENEGNLSTLQKLLWNGEVHSTVSGEAIRYALRETWMEDHENLLNRKIKSEGYDWQDETFKKPDRYLDDTILGFMDPKKETNKRRASLEITRAVSTRPWIGDVSFNVASVGAQRTNKNPIPYATEIHATRYQYSFALSGDDVKSEWKGLALDGLASLRRVAGNHSRFLYDFSPESIVLRVTHDPAPRILYCFREEGDTIDLKNLAKRVASGDVKAEELILGGEIASEQDAIELKTKGATVFPGIKAAVEDAKKRIGKSA
>NC_004342.2|WP_000371340.1|3172377_3173001_+|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS
MDPLILYYEIPIASFRPYQSREYQDSYPVPPPSTLIGMSLSLCGLSMDHRKFFSSCEMCSAVADSNPARSTVLRRMRRLGDSGRDPKQRRPEYQELVTGIRGIVAYRGLPAELAKPMKTVLTTPEKIIRYGGLSLGESSFLVDVIRLFELPDTTQSNWSWLIPDMKGSLDLPVWIDTISPSLTTKFRFSFQSAEGIPENAWFKLRPS
>NC_004342.2|WP_000153246.1|3173425_3173647_-|hypothetical-protein
MTIKSGETGTKRKVKSLASWPFLFQERSFKTFDQQTTVLRSVKEKPDKYVWLFAFLARVITERNKSYIQLNPL
>NC_004342.2|WP_000445684.1|3174203_3175277_+|IS110-like-element-ISLin1-family-transposase
MESQEVKYVGVDCGKKSIEVVRINSENSLERRQFSTTESGINNLLQWLTLNDIVGLEAGSQSFRIAKSILNKGVQVIVLNPGNLATIYQSLKKTDKEDSLKIARLIQRFPIEELPTVPIPNDEEEDNRRLCPEQENWTKQLTQGKNRLHSLFTQAGLTQITKKHLRTKANREISVALLPSRYQKEAERILKVLDLVEQNLKLIEKEIQEALKKNKAYVQTIMSMPGIGMITSLAIMSYMGDCKRFSSAKQAAYYAGLVPRVDISGDTVRYGRIINLGCHSIRRVIVQAAWSLVRCQHGGKVKEFYQRLYLKKGAKKSIIATSRKMIEVLYVMIRTGKLFDSMPENILNRKLTQYGLM
>NC_004342.2|WP_001140542.1|3175578_3176007_+|RNA-binding-protein
MAKTKNRRVVFLPIKPEFAHKIINGEKNIEFRKKFSSQEVETIVIYSSSPEKRVIGYATVDSIVIDTPDSLWKRFYKKGGIDKDRFSFYFNGKETGVGIRIKNVSRLKEAVTPTQLGIQGAIPQNFKFLEKGIITILERNLI
>NC_004342.2|WP_000533549.1|3175999_3176182_-|hypothetical-protein
MGRRGKIATEHNASEILRDLSLPNFTFLAMILKKALKFLLSFVSRSLVSKANSNLVFFLK
>NC_004342.2|WP_000199604.1|3176356_3177898_+|type-I-restriction-modification-system-subunit-M
MTSAQQRAALQRQIWQIANDVRGAVDGWDFKQYVLGTLFYRFISENFTNYMEGGDSSIQYSKLNDKKITKEIKDDAIKTRGYFIYPSQLFANIVIKADKNERLNTDLAGIFKDIESSANGFPSEHDIKGLFADFDTTSNRLGNTVKDKNSRLTAVLKRVAELDFGDFDSSHIDLFGDAYEFLISNYAANAGKSGGEFFTPQHVSKLIARLAIHKQTRINKIYDPACGSGSLLLQAKKQFDDHIIEEGFFGQEINHTTYNLARMNMFLHNINYDKFDIELGNTLIDPQHNHEKPFDAIVSNPPYSINWKGSDDPTLINDERFAPAGVLAPKSKADFAFVLHALSYLSSKGRAAIVCFPGIFYRSGAEQKIRQYLVGNNFVETVISLAPNLFFGTTIAVNILVLSKHKTDTNTQFIDASGLFKKETNNNILTEDHIERIMQTFDSKVDMEHFAKSVSVETIANNDYNLSVSSYVEAKDNREVIDIQKLNAELKTTVEKIDQLRADIDAIVAEIEG

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Crispr_ID: NC_004342_10

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_004342_10

3164839-3165161

Unclear

I-A,I-B,II-B

Consensus_repeat	Method
CTGAATATAACTTTGATGCCGTTAGGCG	CRISPRCasFinder
CTGAATATAACTTTGATGCCGNTAGGCGTTGAGCAC	CRT
CTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACAGCAT	PILER-CR

4 spacers

cas2,cas1,cas6,cas3,cas8b3,cas7,cas5

The CRISPR arrays of NC_004342_10

>merge|NC_004342|10|3164839-3165161|CRISPRCasFinder,CRT,PILER-CR
CTTACAAAAATCGGGATGCCGGTAGGCGTTGAGCACGAATAACTCGTTCGGAAAGCGTTCTGCGGATCTTCTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACTCGTAAAGATCGTCTGCGTGTTCGTCGTGATACGTGTCTGAATATAACTTTGATGCCGGTAGGCGTTGAGCACAGCATAGCGGACGTGTTCTTTGTTCGTTTTATCGAACTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACAGCGTGCAACAAAACACGGAATACAATTCTCTTTGCCTGAATATAACTTTGATGCCGTTAGGCGATTTAGAC

>NC_004342|10|10|3164839-3165154|CRISPRCasFinder
CTTACAAAAATCGGGATGCCGGTAGGCG	TTGAGCACGAATAACTCGTTCGGAAAGCGTTCTGCGGATCTT
CTGAATATAACTTTGATGCCGTTAGGCG	TTGAGCACTCGTAAAGATCGTCTGCGTGTTCGTCGTGATACGTGT
CTGAATATAACTTTGATGCCGGTAGGCG	TTGAGCACAGCATAGCGGACGTGTTCTTTGTTCGTTTTATCGAA
CTGAATATAACTTTGATGCCGTTAGGCG	TTGAGCACAGCGTGCAACAAAACACGGAATACAATTCTCTTTGC
CTGAATATAACTTTGATGCCGTTAGGCGA

>NC_004342|10|4|3164839-3165161|CRT
CTTACAAAAATCGGGATGCCGGTAGGCGTTGAGCAC	GAATAACTCGTTCGGAAAGCGTTCTGCGGATCTT
CTGAATATAACTTTGATGCCGTTAGGCGTTGAGCAC	TCGTAAAGATCGTCTGCGTGTTCGTCGTGATACGTGT
CTGAATATAACTTTGATGCCGGTAGGCGTTGAGCAC	AGCATAGCGGACGTGTTCTTTGTTCGTTTTATCGAA
CTGAATATAACTTTGATGCCGTTAGGCGTTGAGCAC	AGCGTGCAACAAAACACGGAATACAATTCTCTTTGC
CTGAATATAACTTTGATGCCGTTAGGCGATTTAGAC

>NC_004342|10|4|3164909-3165094|PILER-CR
CTGAATATAACTTTGATGCCGTTAGGCGTTGAGCACTCGTA	AAGATCGTCTGCGTGTTCGTCGTGATACGTGTCTGAA
TATAACTTTGATGCCGGTAGGCGTTGAGCACAGCATAGCGG	ACGTGTTCTTTGTTCGTTTTATCGAACTGAA
TATAACTTTGATGCCGTTAGGCGTTGAGCACAGCGT

Protein	Signature genes	Signature genes Name	Protein_function
NC_004342.2\|WP_000199604.1\|3176356_3177898_+\|type-I-restriction-modification-system-subunit-M	unknown	unknown	gnl\|CDD\|211578
NC_004342.2\|WP_002068643.1\|3160978_3162604_+\|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1	cas1	cd09634_cas1_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|274899
NC_004342.2\|WP_000533549.1\|3175999_3176182_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000578381.1\|3158870_3159746_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379539
NC_004342.2\|WP_000601707.1\|3167309_3169568_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	cd09639_cas3_CAS-I	gnl\|CDD\|187770
NC_004342.2\|WP_001110347.1\|3156932_3157484_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000573601.1\|3159897_3160194_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000590871.1\|3154497_3155994_+\|ABC-F-family-ATP-binding-cassette-domain-containing-protein	unknown	unknown	gnl\|CDD\|223562
NC_004342.2\|WP_001140542.1\|3175578_3176007_+\|RNA-binding-protein	unknown	unknown	gnl\|CDD\|227269
NC_004342.2\|WP_000110276.1\|3163004_3163211_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000153246.1\|3173425_3173647_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_001072139.1\|3157826_3158213_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000451413.1\|3158396_3158609_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_080010676.1\|3160269_3160479_+\|hypothetical-protein	cas6	cd09703_cas6_CAS-I:CAS-III	gnl\|CDD\|370559
NC_004342.2\|WP_000445684.1\|3174203_3175277_+\|IS110-like-element-ISLin1-family-transposase	unknown	unknown	gnl\|CDD\|376773
NC_004342.2\|WP_000683530.1\|3162603_3162888_+\|CRISPR-associated-endonuclease-Cas2	cas2	pfam09827_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|378256
NC_004342.2\|WP_000098773.1\|3169569_3171453_+\|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1	cas8b3	cd09713_cas8b3_CAS-I-B	gnl\|CDD\|132524
NC_004342.2\|WP_000371340.1\|3172377_3173001_+\|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS	cas5	cd09688_cas5_CAS-I-B	gnl\|CDD\|131635
NC_004342.2\|WP_000026911.1\|3166680_3167313_+\|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6	cas6	cd09703_cas6_CAS-I:CAS-III	gnl\|CDD\|274308
NC_004342.2\|WP_000052104.1\|3171517_3172357_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	cas7	cd09687_cas7_CAS-I-B	gnl\|CDD\|187818

Protein	Function_ID	Function_description	E-value
NC_004342.2\|WP_002068643.1\|3160978_3162604_+\|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274899	TIGR03983, hypothetical_protein_LA3181, CRISPR-associated endonuclease Cas1, subtype MYXAN. Members of this protein are the Cas1 endonuclease, or Cas1 domain in Cas4/Cas1 fusion proteins, of the MYXAN subtype of CRISPR/Cas systems. These systems typically feature repeats and spacers each about 36 base pairs in length. Species with this type of CRISPR system include Myxococcus xanthus, Cyanothece sp., Leptospira interrogans, Sorangium cellulosum, Anabaena variabilis ATCC 29413, etc.	0
NC_004342.2\|WP_000601707.1\|3167309_3169568_+\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|187770	cd09639, Cas3_I, CRISPR/Cas system-associated protein Cas3. 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; DEAD/DEAH box helicase DNA helicase cas3'; Often but not always is fused to HD nuclease domain; signature gene for Type I.	6.9629e-45
NC_004342.2\|WP_000371340.1\|3172377_3173001_+\|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS	gnl\|CDD\|131635	TIGR02586, CRISPR-associated_protein_Cas5, CRISPR-associated protein Cas5/DevS, subtype MYXAN. This model represents DevS of Myxococcus xanthus and related proteins of Leptospira interrogans and Gemmata obscuriglobus. This protein is encoded in a cluster of CRISPR-associated (cas) genes, and in the special case of Myxococcus xanthus has taken on a role in the control of fruiting body development. CRISPRs are clustered, regularly interspaced short palidromic repeats. This protein family is related to models TIGR01868, TIGR01895, and TIGR01876.	2.20305e-103
NC_004342.2\|WP_000199604.1\|3176356_3177898_+\|type-I-restriction-modification-system-subunit-M	gnl\|CDD\|211578	TIGR00497, hsdM, type I restriction system adenine methylase (hsdM). Function: methylation of specific adenine residues; required for both restriction and modification activities. The ECOR124/3 I enzyme recognizes 5'GAA(N7)RTCG. for E.coli see (J. Mol. Biol. 257: 960-969 (1996)). [DNA metabolism, Restriction/modification].	0
NC_004342.2\|WP_000590871.1\|3154497_3155994_+\|ABC-F-family-ATP-binding-cassette-domain-containing-protein	gnl\|CDD\|223562	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only].	2.82035e-156
NC_004342.2\|WP_001140542.1\|3175578_3176007_+\|RNA-binding-protein	gnl\|CDD\|227269	COG4933, COG4933, Uncharacterized conserved protein [Function unknown].	8.13427e-15
NC_004342.2\|WP_000578381.1\|3158870_3159746_+\|hypothetical-protein	gnl\|CDD\|379539	pfam14284, PcfJ, PcfJ-like protein. The PcfJ-like protein family includes the E. faecalis PcfJ protein, which is functionally uncharacterized. It is found in bacteria and viruses, and is typically between 159 and 170 amino acids in length. There is a conserved HCV sequence motif.	0.000758652
NC_004342.2\|WP_080010676.1\|3160269_3160479_+\|hypothetical-protein	gnl\|CDD\|370559	pfam09559, Cas6, Cas6 Crispr. The Cas6 Crispr family of proteins averaging 140 residues are characterized by having a GhGxxxxxGhG motif, where h indicates a hydrophobic residue, at the C-terminus. The CRISPR-Cas system is possibly a mechanism of defense against invading pathogens and plasmids that functions analogously to the RNA interference (RNAi) systems in eukaryotes.	5.55155e-11
NC_004342.2\|WP_000445684.1\|3174203_3175277_+\|IS110-like-element-ISLin1-family-transposase	gnl\|CDD\|376773	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family. Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS116, IS110 and IS902. This region is often found with pfam01548. The exact function of this region is uncertain. This family contains a HHH motif suggesting a DNA-binding function.	1.57227e-27
NC_004342.2\|WP_000683530.1\|3162603_3162888_+\|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.	8.42665e-19
NC_004342.2\|WP_000098773.1\|3169569_3171453_+\|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1	gnl\|CDD\|132524	TIGR03485, hypothetical_protein_L8106_30105, CRISPR-associated protein Cas8a1/Csx13, MYXAN subtype. Members of this family are found among cas (CRISPR-Associated) genes close to CRISPR repeats in Leptospira interrogans (a spirochete), Myxococcus xanthus (a delta-proteobacterium), and Lyngbya sp. PCC 8106 (a cyanobacterium). It is found with other cas genes in Anabaena variabilis ATCC 29413. In Lyngbya sp., the protein is split into two tandem genes. This model corresponds to the N-terminal region or upstream gene; the C-terminal region is described by TIGR03486. CRISPR/cas systems are associated with prokaryotic acquired resistance to phage and other exogenous DNA.	4.83831e-166
NC_004342.2\|WP_000026911.1\|3166680_3167313_+\|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6	gnl\|CDD\|274308	TIGR02807, hypothetical_protein_LA_3189, CRISPR-associated protein Cas6, subtype MYXAN. Members of this protein family resemble the Cas6 proteins described by TIGR01877 in having a C-terminal motif GXGXXXXXGXG, where the single X of each GXG is hydrophobic and the spacer XXXXX has at least one Lys or Arg. Examples are found in cas gene operons of CRISPR regions in Anabaena variabilis ATCC 29413, Leptospira interrogans, Gemmata obscuriglobus UQM 2246, and twice in Myxococcus xanthus DK 1622. Oddly, an orphan member is found in Thiobacillus denitrificans ATCC 25259, whose genome does not seem to contain other evidence of CRISPR repeats or cas genes.	6.95928e-102
NC_004342.2\|WP_000052104.1\|3171517_3172357_+\|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR	gnl\|CDD\|187818	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7. 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; Cas7 is a RAMP superfamily protein; Subunit of the Cascade complex; also known as Cst2/DevR family.	9.32745e-84

>NC_004342.2|WP_000110276.1|3163004_3163211_-|hypothetical-protein
MSVFKGGEQVYRFLSLFFMFGFFRSAYFVSKDHFVSNIKIQVCLSSSPIINLAGIFTRKKNERWPIIR
>NC_004342.2|WP_000683530.1|3162603_3162888_+|CRISPR-associated-endonuclease-Cas2
MKHWRLVSYDIREPKRLRRVAKIMEGFGERIQYSVFRIYSTDKELEKLRWKLAKVTEEEDNIFYLTLCTKCASGAHTQEKKSAWPEAPKTLKIL
>NC_004342.2|WP_002068643.1|3160978_3162604_+|type-I-MYXAN-CRISPR-associated-endonuclease-Cas1
MGIHSLLYCERLFYLEEVEGILVADDRVYAGRTLHEELEPNEDSSGRIESFHYTSEKLEVSGKVDRIQKRDGDWIPYEHKRGRARIGTNGPEAWESDQCQVTVYALLLEEATGRNISEGKIRYHGSKDLVKIEIDEELRSKALKTIDRAKGLSTSTNRPPVAQNENLCKNCSLAPVCLPEETRVITENEYEPIRLFPEKREKTTLHVFGHDSRIKKSDNVLLVEKVTETGEKSKSEKIPIQEIESVNIHGNCQISSQMIKFLVSEEIPVHWFSGGGNYIGGININPSGVQRRIRQFKALTKETIRLNLAKKLVSAKCESQLRYLLRATRGKDETRNETESYLATIRSGLKNIESADSPSQLLGIEGSSARAYFSGLPALLKNSDPFLVPNGRSKRPPKDPFNATLSFLYSLLYKSVRQAIIAVGLDPSFGFYHTPRSSAEPLVLDLMELFRVSLCDMTLIGSINRKSWIDEDFEITKNKVWLSESGRKKATQLYETRLDDTWKHPVVNYSLSYYRMIELEVRLLEKEWSGEANIFAQARLR
>NC_004342.2|WP_080010676.1|3160269_3160479_+|hypothetical-protein
MGPLQSNLHLNTTSKLRIRAEQPLLSHLLKLAGKNLEVSQDKIQLGIPIIGLLKPHKTLYSRLIGSANI
>NC_004342.2|WP_000573601.1|3159897_3160194_+|hypothetical-protein
MIEVIRNRFDYKANETNLRDWFIIHACKKSHHRNLLGYTGKEHPEYLLAKRKNRFRITISERSFSKNKPFSLHCNLGESQSPGLLYLAVNRFISNSIL
>NC_004342.2|WP_000578381.1|3158870_3159746_+|hypothetical-protein
MIFVLEYCLENPKSIFLVIPKDFETVREKFPFLKRKVIATYFGFHPSSLNVLEKITDSAVQNGYLKTFQNLYSIPVFQKAFHHLPIINEFIIQFFNYSRAKNWNEKWDILFLKDLLFRFPNPNFEEEDFERTFQLYEEVKRFSPSWKIRSLEHLKDLEQKMIQKIQKNEFIGPDQPYPTPPMEKEDWLEPINSRKELFLESRIQHNCIFSYDTRILEGEYYIYRIFFPERCTLSLFYINGDWYLDQIAAAFNKEAKAETLRKVEEWRMQNGIFVLGDAFRLGIPPDWIFAR
>NC_004342.2|WP_000451413.1|3158396_3158609_-|hypothetical-protein
MEVAFSKAGQPVRSRMLKYSLMFSLLYLLRDSEYLWSVLISAFFISLTVHLWFGYKTKVWTTALGNVNKL
>NC_004342.2|WP_001072139.1|3157826_3158213_+|hypothetical-protein
MNQKIFKSIWAIIAGFLTIFILSTAVDLILHQTGIYPPMGVIMSDELFALATAYRVFFGILSGYVTAKIAPDQPVKHSLALGVLGLIVSITGAIVMWDAGPAWYSLAIIAIALPCSWAGGILYERSQT
>NC_004342.2|WP_001110347.1|3156932_3157484_+|hypothetical-protein
MNYYILEEVNYHLNIPYIGDLPEELDTIDVMTGRKIEISNLPIRVPIKIDYESEIVYPDIMTADLPLFSEKIRNSLDQIGIKNIQYYPVELFEDQTGQTKANYYMSILPVSVECLKSGINRSPAGRLILKNPIIDPTKILGLKLFRLGEEPSLIIIDSMVKDTLTNAHLNGVSFIPLEEYTSS
>NC_004342.2|WP_000590871.1|3154497_3155994_+|ABC-F-family-ATP-binding-cassette-domain-containing-protein
MIKISGLNKAFTTKVLFDDLNLSINRGEKVGLVGRNGHGKSTLFQVILGNVEADSGTISIPKGYKIGHLQQHLHFTKPTVLEECSLGLPEGEEYETWKVEKILSGLGFSEQDMEKNPNEFSGGYQIRMNLAKLLVSSPDMLMLDEPNNYLDIVTIRWLEEFLREWEGEIILVTHDRGFMDAVVTHTIAIHRTKAIKVQGDTDKLYNQINQSEEIYEKTRLNEAKKRKQEEIFIAKFKAKASFASRAQSRVKKLEKQGEMKELEKIQDLELYFNSAPFNANQMLSAENLSFSYDGKEPFLIENFSISVGSRERICIIGKNGKGKSTLLKILAGELETSQGTIKKHPVLKEGYFGQTNKLNLNENSTVVEEIMISDPSCNEWKARTIAGGLMFSEDQALKKIKVLSGGEKSRVLLGKILVTPCHLLYLDEPTNHLDMQSCDSLIEAIDEFDGSVIMVTHDELHLRAVATKLIVFDNDSIQIFNGSYDDFLNDVGWSNEHY
>NC_004342.2|WP_000026911.1|3166680_3167313_+|type-I-MYXAN-CRISPR-associated-protein-Cas6/Cmx6
MSIPNVIELNFPVLGSLLPADHGYGLYSAICHLCPTLHEHDSLSIQTISGLPDRPGILRLTANSQLRIRIPVEQIPLVYPLAGKSLTIGIHKIQLSIPAIRILQPYSVLKSRITVIKGFSEPETFLEAAQKQLNAREISGRVILLQDPKGNPKRNTIKIKRFTIVGFGLKVEGLNEKDSLELQVTGLGGKRRMGCGVFYGDSNKVESKAS
>NC_004342.2|WP_000601707.1|3167309_3169568_+|CRISPR-associated-helicase/endonuclease-Cas3
MILLAKSYPGIEKQLKSGDPESWALLEHHSSATYQVAEVLLKILEPILRKWTRLSESEYNKFVLVVCLSAGLHDLGKANEDFQKMLQRRKYLQRFRHEIWSVLALTGSGPFSDWFRKTIGDETWVRIGQMGILSHHLKATRETLYADHETAEIKVFWKDQGVIKTFQSICRLAGISSPDFSSSSISSYTCLGEDADKSIRIWTREILNARIDPRYQHSIGAVRAMIIAADRLASAYKGADALKLWAEEALNRVLSEQECSKIVKQGLGEKNLRPFQKQVGDSTSRVTLVRAGCGNGKTIAAFQWAKTHSAGRKLFFCYPTMGTATEGFRDYVSDIPGLDALLSHSRASLDLGELASTGEEDEGDSLNMHSRMLQEWTAQVTFCTVDQILGLLQNYRSSLTLSPAIFLGAFVFDEIHMYDSILFGNLLTFLKEFSHTSILLMTASLPETMLSAIQETVGADLGPVISGEAQIEERLRYRILHSSREDALQKAIQEFKNGGRVLWVCNKVEHCLKLYDELSEKYDIEALVYHSRFKYEDRKERHRAVIDSFQEGYKKSLPVFAITTQVCEVSLDISATLLISELCPFAALIQRLGRVNRPGQEMEGIAQVLIIPFQGKPYEKENEDDGESELERCKEILKPLLDRELSQKDLALALENAKGTEHQKIPSQWLSLGWEAKPDSIRESGYTLDVILESDAYKVLKNERPWEKSKLYTIPMPIQKQFSYGEPPLRIPVVPDSQIQYSSVRGGEWNLN
>NC_004342.2|WP_000098773.1|3169569_3171453_+|type-I-MYXAN-CRISPR-associated-Cas8a1/Cmx1
MSSRPSASIETTPNTPVVFQRGLSECTSPLLRAGLAGLYSTLYSLKDEKKPKTLSWELTQDSIQITSKGEFSKDFQWIINHGYQTKEGIFYCPGIHRTKTIHKDRMHFHNAMMGTFLQHGRIQVRTKGAGTAVSIEDECKLLYFPLLVEEKKIKYRKDAESILFAEKRGSTWSFENLVELSGYVMPGAPPRFTHETSWIGTIADAFLLFFAPLSCSFAEIEPSRGTWCILIPELEDLETFERFRRDYEVNTINMFAGGPGDAALRYLTEMDLTGNKKDFSPNGCEVYVIGKVAWNKKQQVRRLMMRIHPTEKNFRIYKKMRGIFQNKIHLKKTDASSKSKKSRTRSTDKNKTQKKKDENYHWVSSPYAAARIAENLVQGKRWYYQFAKPLSWYIDTLERKRKSSPGSSHEKIWFESIRRFERAELIKFMENNEIWNSEEEQWFVKSFHETLSRLYAKEASHLNRRGGSRTLGDRWKHMNEKIYRDLAQAKTSPQIRTVISDLWAKSGRPPSLQEHTGALWKFISKDSEYARDLSLVALASYQGSSSLFRETVKDAVQKDEGRQLSLNLEKATTQEQVLKAYQTLWDFVETNDEEKNDLEVFVTKNWKRALEIGQEEIQKAKKKSNDA
>NC_004342.2|WP_000052104.1|3171517_3172357_+|type-I-B-CRISPR-associated-protein-Cas7/Cst2/DevR
MSLHIFGTILTPHGVAANNRGENEGNLSTLQKLLWNGEVHSTVSGEAIRYALRETWMEDHENLLNRKIKSEGYDWQDETFKKPDRYLDDTILGFMDPKKETNKRRASLEITRAVSTRPWIGDVSFNVASVGAQRTNKNPIPYATEIHATRYQYSFALSGDDVKSEWKGLALDGLASLRRVAGNHSRFLYDFSPESIVLRVTHDPAPRILYCFREEGDTIDLKNLAKRVASGDVKAEELILGGEIASEQDAIELKTKGATVFPGIKAAVEDAKKRIGKSA
>NC_004342.2|WP_000371340.1|3172377_3173001_+|type-I-MYXAN-CRISPR-associated-protein-Cas5/Cmx5/DevS
MDPLILYYEIPIASFRPYQSREYQDSYPVPPPSTLIGMSLSLCGLSMDHRKFFSSCEMCSAVADSNPARSTVLRRMRRLGDSGRDPKQRRPEYQELVTGIRGIVAYRGLPAELAKPMKTVLTTPEKIIRYGGLSLGESSFLVDVIRLFELPDTTQSNWSWLIPDMKGSLDLPVWIDTISPSLTTKFRFSFQSAEGIPENAWFKLRPS
>NC_004342.2|WP_000153246.1|3173425_3173647_-|hypothetical-protein
MTIKSGETGTKRKVKSLASWPFLFQERSFKTFDQQTTVLRSVKEKPDKYVWLFAFLARVITERNKSYIQLNPL
>NC_004342.2|WP_000445684.1|3174203_3175277_+|IS110-like-element-ISLin1-family-transposase
MESQEVKYVGVDCGKKSIEVVRINSENSLERRQFSTTESGINNLLQWLTLNDIVGLEAGSQSFRIAKSILNKGVQVIVLNPGNLATIYQSLKKTDKEDSLKIARLIQRFPIEELPTVPIPNDEEEDNRRLCPEQENWTKQLTQGKNRLHSLFTQAGLTQITKKHLRTKANREISVALLPSRYQKEAERILKVLDLVEQNLKLIEKEIQEALKKNKAYVQTIMSMPGIGMITSLAIMSYMGDCKRFSSAKQAAYYAGLVPRVDISGDTVRYGRIINLGCHSIRRVIVQAAWSLVRCQHGGKVKEFYQRLYLKKGAKKSIIATSRKMIEVLYVMIRTGKLFDSMPENILNRKLTQYGLM
>NC_004342.2|WP_001140542.1|3175578_3176007_+|RNA-binding-protein
MAKTKNRRVVFLPIKPEFAHKIINGEKNIEFRKKFSSQEVETIVIYSSSPEKRVIGYATVDSIVIDTPDSLWKRFYKKGGIDKDRFSFYFNGKETGVGIRIKNVSRLKEAVTPTQLGIQGAIPQNFKFLEKGIITILERNLI
>NC_004342.2|WP_000533549.1|3175999_3176182_-|hypothetical-protein
MGRRGKIATEHNASEILRDLSLPNFTFLAMILKKALKFLLSFVSRSLVSKANSNLVFFLK
>NC_004342.2|WP_000199604.1|3176356_3177898_+|type-I-restriction-modification-system-subunit-M
MTSAQQRAALQRQIWQIANDVRGAVDGWDFKQYVLGTLFYRFISENFTNYMEGGDSSIQYSKLNDKKITKEIKDDAIKTRGYFIYPSQLFANIVIKADKNERLNTDLAGIFKDIESSANGFPSEHDIKGLFADFDTTSNRLGNTVKDKNSRLTAVLKRVAELDFGDFDSSHIDLFGDAYEFLISNYAANAGKSGGEFFTPQHVSKLIARLAIHKQTRINKIYDPACGSGSLLLQAKKQFDDHIIEEGFFGQEINHTTYNLARMNMFLHNINYDKFDIELGNTLIDPQHNHEKPFDAIVSNPPYSINWKGSDDPTLINDERFAPAGVLAPKSKADFAFVLHALSYLSSKGRAAIVCFPGIFYRSGAEQKIRQYLVGNNFVETVISLAPNLFFGTTIAVNILVLSKHKTDTNTQFIDASGLFKKETNNNILTEDHIERIMQTFDSKVDMEHFAKSVSVETIANNDYNLSVSSYVEAKDNREVIDIQKLNAELKTTVEKIDQLRADIDAIVAEIEG

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Crispr_ID: NC_004342_13

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_004342_13

3487606-3487730

Orphan

Consensus_repeat	Method
GATCTTGAGATAACACTTGTGGGTTGGTTATGG	CRISPRCasFinder

1 spacers

csa3

The CRISPR arrays of NC_004342_13

>merge|NC_004342|13|3487606-3487730|CRISPRCasFinder
GATCTTGAGATAACACTTGTGGGTTGGTTATGGGTCGCTCTGCATGGTGGGAACTAAGTTTTACAGAGGATTTGTTGTAATTCCGACAGATTGATCTTGAGATAACACTTGTGGGTTGGTTATGG

>NC_004342|13|13|3487606-3487730|CRISPRCasFinder
GATCTTGAGATAACACTTGTGGGTTGGTTATGG	GTCGCTCTGCATGGTGGGAACTAAGTTTTACAGAGGATTTGTTGTAATTCCGACAGATT
GATCTTGAGATAACACTTGTGGGTTGGTTATGG

Protein	Signature genes	Signature genes Name	Protein_function
NC_004342.2\|WP_000275007.1\|3482521_3482770_-\|phosphoribosylformylglycinamidine-synthase-subunit-PurS	unknown	unknown	gnl\|CDD\|376904
NC_004342.2\|WP_000049030.1\|3491510_3492086_+\|DUF4256-domain-containing-protein	unknown	unknown	gnl\|CDD\|339073
NC_004342.2\|WP_000686200.1\|3481865_3482525_-\|phosphoribosylformylglycinamidine-synthase-subunit-PurQ	unknown	unknown	gnl\|CDD\|235140
NC_004342.2\|WP_001141162.1\|3489829_3490594_-\|ATP-binding-cassette-domain-containing-protein	unknown	unknown	gnl\|CDD\|224049
NC_004342.2\|WP_000026697.1\|3493058_3493964_-\|restriction-endonuclease	unknown	unknown	gnl\|CDD\|224629
NC_004342.2\|WP_000770652.1\|3485488_3486160_-\|heme-exporter-protein-B	unknown	unknown	gnl\|CDD\|225260
NC_004342.2\|WP_000702045.1\|3484739_3485432_-\|cytochrome-c-biogenesis-protein-CcsA	unknown	unknown	gnl\|CDD\|273492
NC_004342.2\|WP_001079544.1\|3479502_3480522_-\|c-type-cytochrome	unknown	unknown	gnl\|CDD\|163503
NC_004342.2\|WP_000666507.1\|3478793_3479153_-\|cytochrome-c	unknown	unknown	gnl\|CDD\|379187
NC_004342.2\|WP_000908409.1\|3479152_3479470_-\|methylamine-utilization-protein	unknown	unknown	gnl\|CDD\|259883
NC_004342.2\|WP_001088078.1\|3494088_3494505_-\|acyl-CoA-thioesterase	unknown	unknown	gnl\|CDD\|238329
NC_004342.2\|WP_001071058.1\|3496458_3496851_+\|DoxX-family-protein	unknown	unknown	gnl\|CDD\|379266
NC_004342.2\|WP_001015340.1\|3488006_3489143_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|274350
NC_004342.2\|WP_000689249.1\|3487791_3487971_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000754808.1\|3489139_3489829_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_001974629.1\|3486131_3486776_-\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|224054
NC_004342.2\|WP_001070066.1\|3482745_3483603_-\|phosphoribosylaminoimidazolesuccinocarboxamide-synthase	unknown	unknown	gnl\|CDD\|237571
NC_004342.2\|WP_000250563.1\|3496097_3496478_+\|winged-helix-turn-helix-transcriptional-regulator	csa3	COG0640_csa3_CAS-I-A	gnl\|CDD\|238042
NC_004342.2\|WP_001132427.1\|3492765_3493053_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|183687
NC_004342.2\|WP_000075445.1\|3483599_3484733_-\|response-regulator	unknown	unknown	gnl\|CDD\|225118

Protein	Function_ID	Function_description	E-value
NC_004342.2\|WP_000275007.1\|3482521_3482770_-\|phosphoribosylformylglycinamidine-synthase-subunit-PurS	gnl\|CDD\|376904	pfam02700, PurS, Phosphoribosylformylglycinamidine (FGAM) synthase. This family forms a component of the de novo purine biosynthesis pathway.	8.80541e-29
NC_004342.2\|WP_000049030.1\|3491510_3492086_+\|DUF4256-domain-containing-protein	gnl\|CDD\|339073	pfam14066, DUF4256, Protein of unknown function (DUF4256). This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria. Proteins in this family are approximately 190 amino acids in length.	9.78319e-138
NC_004342.2\|WP_000686200.1\|3481865_3482525_-\|phosphoribosylformylglycinamidine-synthase-subunit-PurQ	gnl\|CDD\|235140	PRK03619, PRK03619, phosphoribosylformylglycinamidine synthase subunit PurQ.	4.00945e-130
NC_004342.2\|WP_001141162.1\|3489829_3490594_-\|ATP-binding-cassette-domain-containing-protein	gnl\|CDD\|224049	COG1124, DppF, ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism].	6.80862e-62
NC_004342.2\|WP_000026697.1\|3493058_3493964_-\|restriction-endonuclease	gnl\|CDD\|224629	COG1715, Mrr, Restriction endonuclease [Defense mechanisms].	1.15306e-107
NC_004342.2\|WP_000770652.1\|3485488_3486160_-\|heme-exporter-protein-B	gnl\|CDD\|225260	COG2386, CcmB, ABC-type transport system involved in cytochrome c biogenesis, permease component [Posttranslational modification, protein turnover, chaperones].	5.44686e-05
NC_004342.2\|WP_000702045.1\|3484739_3485432_-\|cytochrome-c-biogenesis-protein-CcsA	gnl\|CDD\|273492	TIGR01191, Heme_exporter_protein_C, heme exporter protein CcmC. This model describes the cyt c biogenesis protein encoded by ccmC in bacteria. It must be noted an arabidopsis, a tritcum and a piscum plant proteins were recognizable in the clade. Quite likely they are of organellar origin. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes, ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in the heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c. [Protein fate, Protein and peptide secretion and trafficking, Transport and binding proteins, Other].	1.19076e-14
NC_004342.2\|WP_001079544.1\|3479502_3480522_-\|c-type-cytochrome	gnl\|CDD\|163503	TIGR03791, TTQ_mauG, tryptophan tryptophylquinone biosynthesis enzyme MauG. Members of this protein family are the tryptophan tryptophylquinone biosynthesis (TTQ) enzyme MauG, as found in Methylobacterium extorquens and related species. This protein is required to complete the maturation of the TTQ cofactor in the methylamine dehydrogenase light (beta) chain.	3.0352e-109
NC_004342.2\|WP_000666507.1\|3478793_3479153_-\|cytochrome-c	gnl\|CDD\|379187	pfam13442, Cytochrome_CBB3, Cytochrome C oxidase, cbb3-type, subunit III.	7.08939e-12
NC_004342.2\|WP_001015340.1\|3488006_3489143_+\|hypothetical-protein	gnl\|CDD\|274350	TIGR02917, TPR_domain_protein, putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.	3.31511e-09
NC_004342.2\|WP_001088078.1\|3494088_3494505_-\|acyl-CoA-thioesterase	gnl\|CDD\|238329	cd00586, 4HBT, 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites. There is no evidence to suggest that 4HBT is related to the type I thioesterases functioning in primary or secondary metabolic pathways. Each subunit of the 4HBT tetramer adopts a so-called hot-dog fold similar to those of beta-hydroxydecanoyl-ACP dehydratase, (R)-specific enoyl-CoA hydratase, and type II, thioesterase (TEII).	2.56707e-29
NC_004342.2\|WP_001071058.1\|3496458_3496851_+\|DoxX-family-protein	gnl\|CDD\|379266	pfam13564, DoxX_2, DoxX-like family. This family of uncharacterized proteins are related to DoxX pfam07681.	2.40984e-19
NC_004342.2\|WP_000908409.1\|3479152_3479470_-\|methylamine-utilization-protein	gnl\|CDD\|259883	cd04221, MauL, Methylamine utilization protein MauL. MauL is one of the products from the methylamine utilization gene cluster in Methylobacterium extorquens AM1. Mutants generated by insertions in mauL were not able to grow on methylamine or any other primary amine as carbon sources. MauL belongs to the blue or type I copper protein family. They are involved in electron transfer reactions with the Cu center transitioning between the oxidized Cu(II) form and the reduced Cu(I) form.	1.38653e-34
NC_004342.2\|WP_001974629.1\|3486131_3486776_-\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|224054	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms].	3.04366e-37
NC_004342.2\|WP_001070066.1\|3482745_3483603_-\|phosphoribosylaminoimidazolesuccinocarboxamide-synthase	gnl\|CDD\|237571	PRK13961, PRK13961, phosphoribosylaminoimidazole-succinocarboxamide synthase; Provisional.	3.83091e-158
NC_004342.2\|WP_000250563.1\|3496097_3496478_+\|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.	2.84923e-16
NC_004342.2\|WP_001132427.1\|3492765_3493053_-\|hypothetical-protein	gnl\|CDD\|183687	PRK12693, flgG, flagellar basal body rod protein FlgG; Provisional.	1.63169e-05
NC_004342.2\|WP_000075445.1\|3483599_3484733_-\|response-regulator	gnl\|CDD\|225118	COG2208, RsbU, Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription].	2.59181e-33

>NC_004342.2|WP_001974629.1|3486131_3486776_-|ABC-transporter-ATP-binding-protein
MPPNEQALFVCKDLSYSIGKKKILKQVSFSIFRGEISLLRGDNGAGKTTLLRAILNHDRHKNCFTFQNRLSAVKISYLGHELGLYTSLSLEENLRYFLSIAKIQYSKEKVETLLRAFQLWTRRLDPIFTFSRGMKQKAALVRTLLTGGDLILLDEPFTALDRSGLETAIRLLNEYSQNSAVLMVTHDPGISFGRRTVSLTLKEGNLETSILSSP
>NC_004342.2|WP_000770652.1|3485488_3486160_-|heme-exporter-protein-B
MKLLFSLLHKEFLLLGKAINGILSVLVLITSIVFIFNYALEQTGRLDRQTLIGIKWSVLFLTSYVFIGQSAWEERESGGGRISSLFLPVWMRFLSKSLVVFVGLSIAAIYLMILLSVFFQAFSLGWKDLFVNLIFLLPGVLCISFLGVALSHISDSSRLKEILLPLLMIPFTIPILLFGMEAERKLERLPVFDPIPGLSILLSFCVFYAGIGILLLELSGDEP
>NC_004342.2|WP_000702045.1|3484739_3485432_-|cytochrome-c-biogenesis-protein-CcsA
MKIRIAHPFWDWVLSAIFLTGFPIVVLFSLNYPNVILQQGTAHRIFYFHVPVAWVALYGPIFSLIFAVLYLIRKESKWDLLSLSANQIALLFAVGVIFSGRIWAASAWGVPWDKTDARLQSFTVLFISLIAYFVFRILITDVSKKKIFSAFLSILCAINAVITWGAIRWIDNPGNHPESIMGKGGMDSDIRLSFWLGVLAYHVLFLVLFRFVYRLSKIENLKENLPEREA
>NC_004342.2|WP_000075445.1|3483599_3484733_-|response-regulator
MSPTPNYSSYTVLAVDDSEINLKLIVHTLQPFGFQIFTAESAADARNVLLTNRVDVLLLDVSMPDQDGFSFCRELREIERFKLLPILFITGINREVGFDEAISHGGDDFIQKPFQPKELIAKIRAFIRIKILQDELLEQKKNYERELIMARKVQQELLPEKELEWNGVSLSTIFQPLMQIGGDYTDAWIEDDSLHIFIADCSGHGPSAALLAAMLKMQVSSLSPDQSLQEKVQTLRHNLEKILPDEFSITFFYGILHKDLSFEYSNGGHPAPMLYQNGEVSILPGMGPLIIPIEINVKEEFKSVQLQKDSYMLLYTDGATEISDKSMNILGEDKLKKIFQESVSIGGDILVSMMESILAHSDRGTNDDDIAMMVLKL
>NC_004342.2|WP_001070066.1|3482745_3483603_-|phosphoribosylaminoimidazolesuccinocarboxamide-synthase
MNPSYKGKVRDIYDLGDKLILSSSDRISAFDVVFPQLVPDKGKVLNRISVSWFEFFKDVPNHILETDVKYFPIPFQNHPDLEGRSVLVKKCKRIDYECVVRGYISGSGWKEYKNDGTLAGIKLPSGFKESQKLPEPVFTPAVKNDQGHDENISEKEMENRIGKELFNILKEKSISIFLRASEVVDKAGIILCDTKFEFGILDGQVILIDELLTPDSSRYWSTDTYSVGISPPSLDKQILRNYLETTSWNKMPPAPNLPAELIQELREKYQKIEDLILSCTSQKSK
>NC_004342.2|WP_000275007.1|3482521_3482770_-|phosphoribosylformylglycinamidine-synthase-subunit-PurS
MYIAKIQVVLKESVLDPQGSTVKKVLSEVGEKSVQDVRVGKYIELKIDAPSEEVARKDVERLCDKILVNHIIETYSMNIQKI
>NC_004342.2|WP_000686200.1|3481865_3482525_-|phosphoribosylformylglycinamidine-synthase-subunit-PurQ
MKIAVITFPGSNCDSDIYRVLKDQYNAEVDRIWHRDGLDKKYELVILPGGFSYGDYLRSGAMAGFSPVMKSVKEHVDKGGKLFGICNGFQILTEAEYLPGALIRNKTLKYICKTVILTKGSAGNPVTASMDVRKELKIPIAHADGCYYATSDVLKQLEDEDRILFRYSGENPNGSLDSIAGITSKNFKIVGMMPHPERAMNPITGEMDGKVVLDLILGS
>NC_004342.2|WP_001079544.1|3479502_3480522_-|c-type-cytochrome
MNRIFIASFLILNSLLTLSCKDEKKEVVRKDDQTKRLEIASYPFPPDNVPTPERILLGKTLFFDPIVSGSNWISCASCHNPGLAWTDGLKTAVGHNMKILGKNTPTILNGAYGNKMFWDGRADNLEEQALGPITSPDEMNQNMEELILELKNIPGYKNLFSKAYPSEEISAATIGKAIASFERTIFSTESAFDRWKKGDKAALSESAQRGFTVFNGKANCSSCHQGEQFSDNGFHNIGLKNAVKEVGRFKIVPVKSMKGAFKTPGLRDVALTGPYMHDGSYTTLEEVIEHYDRGGDEKNNLDPNMLALKLTDQEKTDLVEFMKSLSGKRVSITIPEFPR
>NC_004342.2|WP_000908409.1|3479152_3479470_-|methylamine-utilization-protein
MLIRFLVVFISLVFWNGNVSAAEHEVGQKNKGFTVESLKIKVGDVVSFPNYDTFYHNVYSLSPAKIFDLGSYSQGKTQKVKFEKSGKITVQCAIHPEMKMTIEVQ
>NC_004342.2|WP_000666507.1|3478793_3479153_-|cytochrome-c
MKEYSKFIILFLISASLFSLTALDTMEKSAVRGSIVFRTYCVLCHGEAADGKGRLATGKVPPPANLTITKLTDAQKEEIIKKGGGGVNRSPFMPPWKDELSEEQIKDVISYINFLSKSK
>NC_004342.2|WP_000689249.1|3487791_3487971_+|hypothetical-protein
MKIFSFIQAIFYRLLGLLNEPKPIDEKKNVFHSLLLVSKLPASPHILESILKLREGSAF
>NC_004342.2|WP_001015340.1|3488006_3489143_+|hypothetical-protein
MNHFLYLNPVRLRFYKLSCSNLILNRILNDLKKINFSFFQFVFHSYFQKILFYFLFVFAFTDQTIEAQIQIGGQYYSGLLWGENEILSPEYYNNGSFLRTEQDFILTAGRNWKGDPPLSQGSFQFEGKEILNSGLFNNEAVSLLEKGKTEDRLKAITMLEEGVRFDPKFFPFRYNLGRAYHLEKKYQKSIIQFEYASSEIPEYYRTFIHLGTLYEIMREPINATILWKKAVSLNKFHTEALLLLADHYIRTDLRNRALIYIKEAAKIDEQSPDARLGKARIELLSSKDLYAYRIFKNTELVDDLGQKKQYNKKFHFYYAETASKVGDYVTAADQYEQLLKYPNDPFFSEFSYKVIERRRDLAQRFAEIKSLEEENKNE
>NC_004342.2|WP_000754808.1|3489139_3489829_+|hypothetical-protein
MKKVCFFQFSSFILNVEEFMKKITWLTILFILLNVPAFAQNKEKGQADLSRSDVFSEQGSSYTKSLQKIVRDLEATINERLTDLEKKHSLLVILRPELEKVQTIVTEDIPFTFDEGYESNLLKYVRFRFEAGKIKEVELASEKKRIQYEFAFENKRLIFTPPDVLASQVKLERFDKIENTKVADISLENQIKALRLLESSLRSSIYRIDIMIALYKDKKDRKNLYQIDI
>NC_004342.2|WP_001141162.1|3489829_3490594_-|ATP-binding-cassette-domain-containing-protein
MPSSDKAIEIQKLNLRLGQRIILDSISFEVNSGTILGILGRSGSGKTSLFRAILGVPTTTNLEQSGSIYFFGKARKKIPIHHLQPVFQDPVGSFNPAWSLEKALKEPLRILGGEIANRGEAFFPDLLESFRLANKDLNRNVLSFSGGELQRAAILRALLTEPKILFLDEALGALDPILLNDVLQFLKRISRERKITILLITHSLRTAQKFCNQIGILEKGKLLDFGTTEEVFTNYKSSFTGELIRAIDLSSLRA
>NC_004342.2|WP_000049030.1|3491510_3492086_+|DUF4256-domain-containing-protein
MSKVNKNKKKLAAEQREELLSTLKDRFAKNMNRHKDLKWTKVKTKLEANSEKLWSLNEMEKTGGEPDVIAYDQKTSEYIFYDCSMESPKGRRSVCYDREALESRKEHKPKDNALDMAASMGIEILAEEQYRELQKFGKFDTKTSSWIKTPSNIRKLGGAIFADFRYGHVFVYHNGAESYYAVRGFRGLLRV
>NC_004342.2|WP_001132427.1|3492765_3493053_-|hypothetical-protein
MPNFDLLHLAEDGILSVRDDMNEFKKVGRIKFSLSKILKFFILKRNVIALHSKQKPIENIPGLNHTIALIFGFLELSNVNIVVGQVNCLELICFL
>NC_004342.2|WP_000026697.1|3493058_3493964_-|restriction-endonuclease
MSIPDFQSAMLPILKILNEKRESSTSTIRDGVAIVFKTTEQERRELLPSGKTRIFDNRVAWSITYLKMAGLIQSPKRSFYSITNEGSQFLKTNPERIDNNVLQQFESFQEKKFKTNVLQGDSLGVNEYIQTPDEMMETGYSKIRKDLAEELLNKIKSCNPYFFESIVLDLLIKLGYGGSDEKNKKVTKKSNDEGIDGIIKEDKLGLDLIYVQAKKWENPVSGTEIQKFAGALQVQRAKKGIFITTSMFTTNAHEYVSKMDSKIVLIDGAELTDLMIEYNVGVSTKQTYEIKKVDLEYFNED
>NC_004342.2|WP_001088078.1|3494088_3494505_-|acyl-CoA-thioesterase
MNSQLKEFTYEIPVLWSQCDPNGHLNVGNFQVFLHEGRMVALEEAGFSYEKMREENIGPMILRSETDYKAEIRYPEAVIVITSFGELKGSRCKIFQKLIRKSDGKIACESVSDCILFDFSKKRPWKYPDSLLVAFGAK
>NC_004342.2|WP_000250563.1|3496097_3496478_+|winged-helix-turn-helix-transcriptional-regulator
MVQQETDSLSLTFAALADPTRRKILATLRYGEVTVKQLAEPFAISLPAITKHLKVLEKAGLISRGREAQWRPSRLEAGPLKEAADWIDEYRQMWEARLDRLDEYLRELQQKESQHKRKTDHESGKN
>NC_004342.2|WP_001071058.1|3496458_3496851_+|DoxX-family-protein
MNQEKIKTIIYWIVTAVIAANYAFASYAYFNRGPEVVAGITKLGYPMYFITILGVWKLLGAIAITAPRFPLLKEWAYAGMFFNLTSASISNAAAGMEIIHVIMPMIGLVLVALSWALRPASRRLEGIWHL

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Crispr_ID: NC_004342_14

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_004342_14

4059671-4059766

Orphan

Consensus_repeat	Method
AGGAAAGCGTTGTGTTGAGTTTTCC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_004342_14

>merge|NC_004342|14|4059671-4059766|CRISPRCasFinder
AGGAAAGCGTTGTGTTGAGTTTTCCAACGCGACCTGCAGAGCGACCCTTAGGGAGCGATGCATTGAGTTTGAGGAAAGCGTTGTGTTGAGTTTCCC

>NC_004342|14|14|4059671-4059766|CRISPRCasFinder
AGGAAAGCGTTGTGTTGAGTTTTCC	AACGCGACCTGCAGAGCGACCCTTAGGGAGCGATGCATTGAGTTTG
AGGAAAGCGTTGTGTTGAGTTTCCC

Protein	Signature genes	Signature genes Name	Protein_function
NC_004342.2\|WP_154644740.1\|4049833_4050007_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000086941.1\|4067554_4069027_-\|amidophosphoribosyltransferase	unknown	unknown	gnl\|CDD\|236384
NC_004342.2\|WP_042709723.1\|4055042_4056830_-\|apolipoprotein-N-acyltransferase	unknown	unknown	gnl\|CDD\|234721
NC_004342.2\|WP_000695970.1\|4051918_4053307_-\|DUF1554-domain-containing-protein	unknown	unknown	gnl\|CDD\|369437
NC_004342.2\|WP_002080364.1\|4064274_4064742_+\|DUF3347-domain-containing-protein	unknown	unknown	gnl\|CDD\|378730
NC_004342.2\|WP_000801153.1\|4060652_4061141_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000682546.1\|4059073_4059445_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_162839745.1\|4067250_4067394_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000798179.1\|4061952_4062504_-\|LEA-type-2-family-protein	unknown	unknown	gnl\|CDD\|377000
NC_004342.2\|WP_000445690.1\|4050257_4051331_+\|IS110-like-element-ISLin1-family-transposase	unknown	unknown	gnl\|CDD\|376773
NC_004342.2\|WP_000181227.1\|4063527_4063854_-\|(2Fe-2S)-ferredoxin-domain-containing-protein	unknown	unknown	gnl\|CDD\|239278
NC_004342.2\|WP_001080163.1\|4058375_4059032_+\|4Fe-4S-dicluster-domain-containing-protein	unknown	unknown	gnl\|CDD\|319895
NC_004342.2\|WP_000468938.1\|4048685_4049801_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000264550.1\|4064720_4065710_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|371795
NC_004342.2\|WP_000250245.1\|4061150_4061486_-\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_001053082.1\|4062508_4063531_-\|zinc-binding-dehydrogenase	unknown	unknown	gnl\|CDD\|176251
NC_004342.2\|WP_000776815.1\|4065718_4066501_-\|PhzF-family-phenazine-biosynthesis-protein	unknown	unknown	gnl\|CDD\|223461
NC_004342.2\|WP_001257925.1\|4057080_4058379_+\|UDP-N-acetylglucosamine-1-carboxyvinyltransferase	unknown	unknown	gnl\|CDD\|236486
NC_004342.2\|WP_033108066.1\|4048234_4048654_+\|hypothetical-protein	unknown	unknown	unknown
NC_004342.2\|WP_000931452.1\|4054405_4054894_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379725

Protein	Function_ID	Function_description	E-value
NC_004342.2\|WP_000086941.1\|4067554_4069027_-\|amidophosphoribosyltransferase	gnl\|CDD\|236384	PRK09123, PRK09123, amidophosphoribosyltransferase; Provisional.	0
NC_004342.2\|WP_042709723.1\|4055042_4056830_-\|apolipoprotein-N-acyltransferase	gnl\|CDD\|234721	PRK00302, lnt, apolipoprotein N-acyltransferase; Reviewed.	4.06739e-69
NC_004342.2\|WP_000695970.1\|4051918_4053307_-\|DUF1554-domain-containing-protein	gnl\|CDD\|369437	pfam07588, DUF1554, Protein of unknown function (DUF1554). A family of proteins identified in Leptospira interrogans.	1.07387e-48
NC_004342.2\|WP_002080364.1\|4064274_4064742_+\|DUF3347-domain-containing-protein	gnl\|CDD\|378730	pfam11827, DUF3347, Protein of unknown function (DUF3347). This family of proteins are functionally uncharacterized. This protein is found in bacteria. Proteins in this family are typically between 169 to 570 amino acids in length.	9.14762e-07
NC_004342.2\|WP_000798179.1\|4061952_4062504_-\|LEA-type-2-family-protein	gnl\|CDD\|377000	pfam03168, LEA_2, Late embryogenesis abundant protein. Different types of LEA proteins are expressed at different stages of late embryogenesis in higher plant seed embryos and under conditions of dehydration stress. The function of these proteins is unknown. This family represents a group of LEA proteins that appear to be distinct from those in pfam02987. The family DUF1511, pfam07427, has now been merged into this family.	4.75264e-09
NC_004342.2\|WP_000445690.1\|4050257_4051331_+\|IS110-like-element-ISLin1-family-transposase	gnl\|CDD\|376773	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family. Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS116, IS110 and IS902. This region is often found with pfam01548. The exact function of this region is uncertain. This family contains a HHH motif suggesting a DNA-binding function.	1.48384e-28
NC_004342.2\|WP_000181227.1\|4063527_4063854_-\|(2Fe-2S)-ferredoxin-domain-containing-protein	gnl\|CDD\|239278	cd02980, TRX_Fd_family, Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:ubiquinone oxidoreductase (NuoE). TRX-like Fds are soluble low-potential electron carriers containing a single [2Fe-2S] cluster. The exact role of TRX-like Fd is still unclear. It has been suggested that it may be involved in nitrogen fixation. Its homologous domains in large redox enzymes (such as Nuo and hydrogenases) function as electron carriers.	2.97611e-18
NC_004342.2\|WP_001080163.1\|4058375_4059032_+\|4Fe-4S-dicluster-domain-containing-protein	gnl\|CDD\|319895	cd16373, DMSOR_beta_like, uncharacterized subfamily of DMSO Reductase beta subunit family. This family consists of the small beta iron-sulfur (FeS) subunit of the DMSO Reductase (DMSOR) family. Members of this family also contain a large, periplasmic molybdenum-containing alpha subunit and may have a small gamma subunit as well. Examples of heterodimeric members with alpha and beta subunits include arsenite oxidase, and tungsten-containing formate dehydrogenase (FDH-T) while heterotrimeric members containing alpha, beta, and gamma subunits include formate dehydrogenase-N (FDH-N), and nitrate reductase (NarGHI). The beta subunit contains four Fe4/S4 and/or Fe3/S4 clusters which transfer the electrons from the alpha subunit to a hydrophobic integral membrane protein, presumably a cytochrome containing two b-type heme groups. The reducing equivalents are then transferred to menaquinone, which finally reduces the electron-accepting enzyme system.	2.71366e-38
NC_004342.2\|WP_000776815.1\|4065718_4066501_-\|PhzF-family-phenazine-biosynthesis-protein	gnl\|CDD\|223461	COG0384, COG0384, Predicted epimerase, PhzC/PhzF homolog [General function prediction only].	7.4343e-73
NC_004342.2\|WP_000264550.1\|4064720_4065710_+\|hypothetical-protein	gnl\|CDD\|371795	pfam11916, Vac14_Fig4_bd, Vacuolar protein 14 C-terminal Fig4p binding. Vac14 is a scaffold for the Fab1 kinase complex, a complex that allows for the dynamic interconversion of PI3P and PI(3,5)P2p (phosphoinositide phosphate (PIP) lipids, that are generated transiently on the cytoplasmic face of selected intracellular membranes). This interconversion is regulated by at least five proteins in yeast: the lipid kinase Fab1p, lipid phosphatase Fig4p, the Fab1p activator Vac7p, the Fab1p inhibitor Atg18p, and Vac14p, a protein required for the activity of both Fab1p and Fig4p. The C-terminal region of Vac14 binds to Fig4p. The full length Vac14 in yeasts is likely to be a protein carrying a succession of HEAT repeats, most of which have now degenerated. This regulatory system is crucial for the proper functioning of the mammalian nervous system.	0.00388451
NC_004342.2\|WP_001053082.1\|4062508_4063531_-\|zinc-binding-dehydrogenase	gnl\|CDD\|176251	cd08291, ETR_like_1, 2-enoyl thioester reductase (ETR) like proteins, child 1. 2-enoyl thioester reductase (ETR) like proteins. ETR catalyzes the NADPH-dependent conversion of trans-2-enoyl acyl carrier protein/coenzyme A (ACP/CoA) to acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl thioester reductase activity has been linked in Candida tropicalis as essential in maintaining mitiochondrial respiratory function. This ETR family is a part of the medium chain dehydrogenase/reductase family, but lack the zinc coordination sites characteristic of the 2-enoyl thioester reductase (ETR) like proteins. ETR catalyzes the NADPH-dependent dependent conversion of trans-2-enoyl acyl carrier protein/coenzyme A (ACP/CoA) to acyl-(ACP/CoA) in fatty acid synthesis. 2-enoyl thioester reductase activity has been linked in Candida tropicalis as essential in maintaining mitiochondrial respiratory function. This ETR family is a part of the medium chain dehydrogenase/reductase family, but lack the zinc coordination sites characteristic of the alcohol dehydrogenases in this family. NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes, or ketones. Alcohol dehydrogenase in the liver converts ethanol and NAD+ to acetaldehyde and NADH, while in yeast and some other microorganisms ADH catalyzes the conversion acetaldehyde to ethanol in alcoholic fermentation. ADH is a member of the medium chain alcohol dehydrogenase family (MDR), which has a NAD(P)(H)-binding domain in a Rossmann fold of a beta-alpha form. The NAD(H)-binding region is comprised of 2 structurally similar halves, each of which contacts a mononucleotide. The N-terminal catalytic domain has a distant homology to GroES. These proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and have 2 tightly bound zinc atoms per subunit, a catalytic zinc at the active site and a structural zinc in a lobe of the catalytic domain. NAD(H) binding occurs in the cleft between the catalytic and coenzyme-binding domains at the active site, and coenzyme binding induces a conformational closing of this cleft. Coenzyme binding typically precedes and contributes to substrate binding. Candida tropicalis enoyl thioester reductase (Etr1p) catalyzes the NADPH-dependent reduction of trans-2-enoyl thioesters in mitochondrial fatty acid synthesis. Etr1p forms homodimers, with each subunit containing a nucleotide-binding Rossmann fold domain and a catalytic domain.	5.11295e-155
NC_004342.2\|WP_001257925.1\|4057080_4058379_+\|UDP-N-acetylglucosamine-1-carboxyvinyltransferase	gnl\|CDD\|236486	PRK09369, PRK09369, UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated.	0
NC_004342.2\|WP_000931452.1\|4054405_4054894_-\|hypothetical-protein	gnl\|CDD\|379725	pfam15428, Imm26, Immunity protein 26. A predicted immunity protein with mostly all-beta fold and several conserved hydrophobic residues. Proteins containing this domain are present in bacterial polymorphic toxin systems as an immediate gene neighbor of the toxin gene, usually containing a domain of the Tox-URI1 or Tox-HNH family. The protein is also found heterogeneous poly-immunity loci.	1.01121e-20

>NC_004342.2|WP_000682546.1|4059073_4059445_+|hypothetical-protein
MKHPLLFFLSVQFILSGLFAESNPKATPCSKDVENFCSHRKSEDRLSQMQCLMEKESDLSTTCSDWLKLKKEEIRKSSEECSEDRSKFCKFVIPGGGRILRCLMNHESSLSISCKEMIKRHLP
>NC_004342.2|WP_001080163.1|4058375_4059032_+|4Fe-4S-dicluster-domain-containing-protein
MNRKDFFKKGLARILDFAQENATELVSGFQEIVSKETPPPAPKKTNTKKVKKQTEFLLPEQIKSNRKRKIRNVQFPPGALDETEFLKKCTGCGDCIYACPYSVLFPVFEENLEKHIPRMDVNLNACMLCKDWPCINSCKTGALIPLEGAPKFGQAKGIFEYCINSKTGESTCSNCRDSCPIEGVVNFKGNKPSFSKNCTGCGQCVSACPTFPRAIRIK
>NC_004342.2|WP_001257925.1|4057080_4058379_+|UDP-N-acetylglucosamine-1-carboxyvinyltransferase
MRSSYFKIIGKTPLHGTVVPQGNKNEALPLLGAVCMVPGTVRISNIPVISDVLMLMEVLRHLGMEITEEEPGTYIFKHDGNLKNQLPEELCSRIRGAVTLAGPILAMTGRVFLPKPGGDKIGRRRLDTHLLALQALGASIEVFPDGYEIKADQLKGTDILMDEASVTGTENAVMAAVFAEGTTILRHAASEPHVQRLCHFLNSAGAKISGIGSNILTIEGVTSLKPPAKEHKIGSDYLEVGSFISLAAVTGGELMIRDVELEDIRMIRMVYSRLGIEVRPHENGILVPSDQKMEIIPDYHGATPKIDDSPWPGFPADMTSVALVTATQCKGTVLIHEKMFESRLFFVDNIIAMGAQIILCDPHRAIVIGHSRLYGQKVASPDIRAGMAMIIAALCAEGTSYIHNIGQIDRGFENIDTRLRALGARIERVNAD
>NC_004342.2|WP_042709723.1|4055042_4056830_-|apolipoprotein-N-acyltransferase
MDTLHHRFQQFQKTIWFNIFCYLWTGIFSFLAFAPVSLTHFVWIAPFGFFWLSLKYHGKYKKLFFHGLLIGVVFYAISFHWIIHMAITFGNFPYVVAILILLFAGLLFGLKFPIFMMSFSFLSGKIGRHSVWVAGFCGLLSELIGPQLFPWYWGNLAAGNIILAQNAEITGVYGISFLVFIVSYTLFQSNPWHWKEIIHSKEKRKQYLRFITLPALLLLTFIVSGIFLFKKWENVKPVKSLNVLIVQPDAPLSFRDGREIKESIEALMARIEKLTDEGAVRLGKKPDLIVLPEAGVPFFSAHKTEITTKVRRMYWDRFDSLMFLLANRYKANVFFNEIDAGFKGAPSPRNLRYYNNNVLYDPNGDRRDSYQKKFLLMFGEYMPFDFLYELSQQTGRFEPGLTHNLIRYYTPRYYTLAEKEKSPKGRHLGWTDTETFNHEAVRSYYETTRTEVSETGKFLPLICYEVILPEFVREFRTAGNPEFIVNLTNDKWYGATTESDQHMELGRLRSIELRRWMVRSTNSGISANIDHLGRFVGNKKTGLMTAEALSETIDVIDSPPTFYTQYGNLIPWLMLFLTGIYYLNLLIGIRRGKSS
>NC_004342.2|WP_000931452.1|4054405_4054894_-|hypothetical-protein
MLNEVKYPFVPKSNRSLIPGQFWAIPLNNGKFACGRVIEIHPFETKMFLAGLVNWIGEVVPKENDLAGKQTIKQGQVHIKTIHETGSDGMIIGYRNLSLDKIEPDFFKSQDGYQSGTSKLMKGYQEIRPLTKDESDLYPTFSTWGYDVIRVLAEELSVSKKI
>NC_004342.2|WP_000695970.1|4051918_4053307_-|DUF1554-domain-containing-protein
MKIKYKFAILSAFTLVFVACLDKSSGNDSAVLSGLISLISNEQGCVGLDCSKNRTLRSNQLQSGQSLQAAFPQGYLPYIFATSSFGAVHNGNFGGISGADAFCQSHIPSSVPSTGIYKAMIVDGVNRVATTVGPNSTVGQVNWVFQPNQQYRRADDGAIVMTTNGSGMLDFSNGARLENSFALKGESGQWTGLNSDWTTWTSGGVPMTCSSWTSSALNLFGLFGSSTSTDSEILKASASTGGNTTSSCSSTRTFYGPYNLGLVCVEQPPPPKYIFTTSSFGTVHNGNFGGISGADAFCQSHIPSNVPGTGIYKAMLVDGVNRVATTVGPNSTVGQVNWVFKPNQKYQRAEDGAIVMTTNGSGMFDFAGGARLENPFTQVKESGQWTGLNSDWTTWTSGGVPMTCSSWTSSALNLFGLFGSSTSTDSEILKASASTGGNTTSSCSSTRTFYGPYNLGLVCIEQ
>NC_004342.2|WP_000445690.1|4050257_4051331_+|IS110-like-element-ISLin1-family-transposase
MESQEVKYVGVDCGKKSIEVVRINSENSLERRQFSTTESGINNLLQWLTLNDIVGLEAGSQSFRIAKSILNKGVQVIVLNPGNLATIYQSLKKTDKEDSLKIARLIQRFPIEELPTVPIPNDEEEDNRRLCTEQENWTKQLTQGKNRLHSLFTQAGLTQITKKHLRTKANREISVALLPSRYQKEAERILKVLDLVEQNLKLIEKEIQEALKKNKAYVQTIMSMPGIGMITSLAIMSYMGDCKRFSSAKQAAYYAGLVPRVDISGDTVRYGRIINRGCHSIRRVIVQAAWSLVRCQHGGKVKEFYQRLYLKKGAKKSIIATSRKMIEVLYVMIRTGKLFDSMPENILNRKLTQYGLM
>NC_004342.2|WP_154644740.1|4049833_4050007_-|hypothetical-protein
MNRVGKLNTTLSMNRVGKLNTTLSMNRVGKLNTTLFMNRVVGCKFYRGFVVIPTDLY
>NC_004342.2|WP_000468938.1|4048685_4049801_+|hypothetical-protein
MFHQADSKKNSILTLLKFQTFLFLFFFASYSTLKADDSTSLKKASLKDYTFQPYTQEGYFQAWNYSYRDDKIFIYATFLISNLGPGTKNCGISLVIHTLGEGTKFVTKEFSVKELSAEKGKFDLKIENNRMSLNSEGIEIQQDVENIKLFLSFKSDLKQGVSLSGGKHTVKDPGGFVQADMAFSFQSVWGYLIQDGKKKELLGTGGLEHLLTNYEVYKYSKRWELFRSINSKEFRFYTGGFLGNDSFPGGYFRTAALLNPEGKTILSGRIIKFEVLETAKEPFSGYDLPLKEKFYFEDDCSAEIIRKQSVGSIYVLSNISSVLRFFIRLFFAKPYQIYSLADLNVQCSNKNLSSDSLETFSGILSYYLINP
>NC_004342.2|WP_033108066.1|4048234_4048654_+|hypothetical-protein
MKNTIDSNQEIWMKLISKKDDFIKIVSTLNEFYIPKVHFSKLDQGQKIRIQLVQKKVKNFEVFLKKRNDHEFIIFLKVGDQFTSWIHQDGIGEAKERFLMEGKTDHLVFKFPCIGDLYQKHCSIAQADEMKTLNGKDSA
>NC_004342.2|WP_000801153.1|4060652_4061141_-|hypothetical-protein
MKPAEWFFVLSLLFAGLIYLFLLLVKRKEKDTSNSIVKYSLPKEDLNSSINRTSDSEDSRNSKMNVLEVFDYNGIKIMHENGIYTVNTGGEIEVYGSWQALPSRYQRMVKEMDHRATGEKKAGKYYMEILNGVYYVIFPDGKKHKYKRFEDIPEKIRKNLGY
>NC_004342.2|WP_000250245.1|4061150_4061486_-|hypothetical-protein
MVQKIQFKTIIRIQLAIFILALFLSIGCYQKNTDADFYSFEDANTKLISAYESKDVICNTNRRLTAFVPGRSRKKDIDLCVSAVLAVSCESWASTSIDATPTTCKSIEFRY
>NC_004342.2|WP_000798179.1|4061952_4062504_-|LEA-type-2-family-protein
MKNSKLRWIFLYLTLISLYSCSSLQENYKALQKCKFQVLSLETQKAEWLSFPPVPKIVFLAKIEIENPNETEVTLYKFDLSFIVPDNFEKEFLLAKIQSEEKIIIPALQKKTVDLQVETLFEKKMDRNLLQIVLGILQAGLAGKELEFKIQGNFEYDTILGSVRIPVNEKIPLKMGKKKGFEI
>NC_004342.2|WP_001053082.1|4062508_4063531_-|zinc-binding-dehydrogenase
MNLPTTYKALELREYSENRNRANIVEKTIRPLKKGEVLIRMHSASINPSDLMFMRGLYGIKKKLPIVPGFEGSGNVVSSGGGFYASYLKGKNVACTASGRGDGVYAEYMITDAFNCLPIGKDLSLEQGACLYVNPITAIAMVERVQSLGIKALVQTAAASALGKMVVGIAARKGMKVINIVRKPEQEEVLKKIGAEYILNSESSNFERQLRILSKDLNATVCLDAVAGELTSRVLLAMPYGSRAIVYGALSEKEIPIHAGMMIFQDKKLEGFWLSTWVPQQTPYKIWKLSKELRSLAKKELKTDIASRFPLEKAVEAIDHYAVNMTKGKVLIQTSFAEGN
>NC_004342.2|WP_000181227.1|4063527_4063854_-|(2Fe-2S)-ferredoxin-domain-containing-protein
MTNFYTKHVFVCENVRAEGERVSCGRSGSIQLLASLKKKMKDLSIEGKVRIQRAGCLDRCELGPVQVSYPEGRWFSLKTEEDVDIFLKYYIQSEQIQKIEHLIIKENQ
>NC_004342.2|WP_002080364.1|4064274_4064742_+|DUF3347-domain-containing-protein
MKKFLILIISILTFFSSCKKPDPAVTEQEKDILQQILMENESIHKFLMKEEEKIPDTNQLIAHVVELVSLNGGLKSQAEKMQNSLKDKETQDVEKFFQAYSSFSENLAESLKLAGGTGVFNRFYCPMVNKTWVSQGTKIRNPYAPEMRDCGDLVH
>NC_004342.2|WP_000264550.1|4064720_4065710_+|hypothetical-protein
MWGPSTLNVEVCLDKEIKTRCKIGVSLGEPCPANCRQNLLHNEWSSEIRESCIAGEKMNAFAEGKAGINVGASAFLQALPFVLEEFISKGRVYLEILIYFLSIIEPEKVKEVIDSFSNKLLYKIIIYEYNIYQQTEDERKSLKKNASFLDLRENAYWGSLSPERICSFIAYCLKEAKDPEFASQFLTVLPSEAVSDLRNLAGLNVEEEKELYLSLKDGIYELPIQIPGIYRHILSLFEDDPEIFLILSTMEELVLRKQQIIESSHAILEKYKSGKLNHQSLFGDLSVLELEISMEILGIFEEKEILGRSEKNLIKELLFKHKHLKNEIT
>NC_004342.2|WP_000776815.1|4065718_4066501_-|PhzF-family-phenazine-biosynthesis-protein
MKLRMLQIDSFAEKVFQGNPAAVCPLQEWISDEWMQKIASENNLSETAFFVLEGESYRIRWFTPLREVDLCGHATLAAAYHLFREGEVIGDKLNFQSLSGELNVFKKENILYLDFPSRKPEKVETPKEILNSFSISPKEVFKSRDYMLLYENENQLKKLEYSVEGVRELNTLGIIATCVGNDSYDFLSRFFAPSVGLYEDPVTGSAHCTLIPFWSERLGKKIMKAYQTSARGGKLFCEDLGERVRIGGTCVPYLDGWIEI
>NC_004342.2|WP_162839745.1|4067250_4067394_+|hypothetical-protein
MDRVVGTKFHRGLVVIPTRLILRYNTCGVGYWLLIGSLLEHSTNRVL
>NC_004342.2|WP_000086941.1|4067554_4069027_-|amidophosphoribosyltransferase
MSRIPDKSRIRRQAQDDKPKEECAIFGIFNSSEASNFTYLGLYSMQHRGQESSGIVSSDGEHLYRYAGMGLVAHIFTETKLKELQGNAAIGHNRYSTTGASFLRNAQPLRVESHLGAVSLAHNGNLVNSWELRSQLEKEGSIFQTTIDSEVIVHLMARSGETDFLSALSSALKKVRGAYSLVILTKTQLIAVRDPNGFRPLVMGRREDGSIVFASETCAFDITDTKYERDVEPGEMIVVDKNGMNSYYPFPKASPSLCIFEYIYFARPDSSIFGESVYKVRKNLGRFLARELPVPADVVIPVPDSANIAALGYAEESGISYQSGLIRSHYIGRTFIEPDQKIRDFGAKIKYNVVRNVVEGKRVIVVDDSIMRGTTSRKIIKMIRNAGAKEIHLRVSAPPTISPCYYGIDIPTHNELIAATHTIEEIRKYLRVDSIAYLSVESMNRAVMDHKGGGFCNACFTAQYPVEFQSELGNQKSLFKEYQVEERVVY

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Click the colored protein region to show detailed information

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Identity
NC_004342_4	4.1\|2677872\|48\|NC_004342\|CRISPRCasFinder	2677872-2677919	48	NC_004342.2	2711049-2711096	1.0
NC_004342_4	4.1\|2677872\|48\|NC_004342\|CRISPRCasFinder	2677872-2677919	48	NC_004342.2	2711120-2711167	1.0
NC_004342_5	5.1\|3145796\|46\|NC_004342\|CRISPRCasFinder	3145796-3145841	46	NC_004342.2	2711051-2711096	1.0
NC_004342_5	5.1\|3145796\|46\|NC_004342\|CRISPRCasFinder	3145796-3145841	46	NC_004342.2	2711122-2711167	1.0
NC_004342_14	14.1\|4059696\|46\|NC_004342\|CRISPRCasFinder	4059696-4059741	46	NC_004342.2	2711051-2711096	1.0
NC_004342_14	14.1\|4059696\|46\|NC_004342\|CRISPRCasFinder	4059696-4059741	46	NC_004342.2	2711122-2711167	1.0

1. spacer 4.1|2677872|48|NC_004342|CRISPRCasFinder matches to position: 2711049-2711096, mismatch: 0, identity: 1.0

caaactcaatgcatcgctccctaagggtcgctctgcaggtcgcgttgg	CRISPR spacer
caaactcaatgcatcgctccctaagggtcgctctgcaggtcgcgttgg	Protospacer
************************************************

2. spacer 4.1|2677872|48|NC_004342|CRISPRCasFinder matches to position: 2711120-2711167, mismatch: 0, identity: 1.0

caaactcaatgcatcgctccctaagggtcgctctgcaggtcgcgttgg	CRISPR spacer
caaactcaatgcatcgctccctaagggtcgctctgcaggtcgcgttgg	Protospacer
************************************************

3. spacer 5.1|3145796|46|NC_004342|CRISPRCasFinder matches to position: 2711051-2711096, mismatch: 0, identity: 1.0

aacgcgacctgcagagcgacccttagggagcgatgcattgagtttg	CRISPR spacer
aacgcgacctgcagagcgacccttagggagcgatgcattgagtttg	Protospacer
**********************************************

4. spacer 5.1|3145796|46|NC_004342|CRISPRCasFinder matches to position: 2711122-2711167, mismatch: 0, identity: 1.0

aacgcgacctgcagagcgacccttagggagcgatgcattgagtttg	CRISPR spacer
aacgcgacctgcagagcgacccttagggagcgatgcattgagtttg	Protospacer
**********************************************

5. spacer 14.1|4059696|46|NC_004342|CRISPRCasFinder matches to position: 2711051-2711096, mismatch: 0, identity: 1.0

aacgcgacctgcagagcgacccttagggagcgatgcattgagtttg	CRISPR spacer
aacgcgacctgcagagcgacccttagggagcgatgcattgagtttg	Protospacer
**********************************************

6. spacer 14.1|4059696|46|NC_004342|CRISPRCasFinder matches to position: 2711122-2711167, mismatch: 0, identity: 1.0

aacgcgacctgcagagcgacccttagggagcgatgcattgagtttg	CRISPR spacer
aacgcgacctgcagagcgacccttagggagcgatgcattgagtttg	Protospacer
**********************************************

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	NZ_CP039286	Leptospira interrogans strain FMAS_AW1 plasmid pLiSL3, complete sequence	65288-65319	0	1.0
NC_004342_6	6.3\|3163290\|34\|NC_004342\|CRT	3163290-3163323	34	NZ_CP039286	Leptospira interrogans strain FMAS_AW1 plasmid pLiSL3, complete sequence	65288-65321	0	1.0
NC_004342_7	7.2\|3163767\|35\|NC_004342\|CRT,PILER-CR	3163767-3163801	35	NZ_CP039286	Leptospira interrogans strain FMAS_AW1 plasmid pLiSL3, complete sequence	65287-65321	0	1.0
NC_004342_7	7.4\|3163910\|35\|NC_004342\|CRT	3163910-3163944	35	NZ_CP006725	Leptospira interrogans serovar Linhai str. 56609 plasmid lcp1, complete sequence	31227-31261	0	1.0
NC_004342_7	7.4\|3163910\|35\|NC_004342\|CRT	3163910-3163944	35	NZ_CP039285	Leptospira interrogans strain FMAS_AW1 plasmid pLiSL2, complete sequence	49049-49083	0	1.0
NC_004342_9	9.1\|3164513\|32\|NC_004342\|PILER-CR	3164513-3164544	32	NZ_CP040842	Leptospira weilii strain CUDO6 plasmid pDO6, complete sequence	80499-80530	0	1.0
NC_004342_9	9.1\|3164513\|32\|NC_004342\|PILER-CR	3164513-3164544	32	NZ_CP040845	Leptospira weilii strain CUD13 plasmid pD13, complete sequence	86750-86781	0	1.0
NC_004342_9	9.1\|3164513\|32\|NC_004342\|PILER-CR	3164513-3164544	32	KF114877	Leptospira phage LnoZ_CZ214, complete genome	72965-72996	0	1.0
NC_004342_9	9.2\|3164584\|33\|NC_004342\|PILER-CR	3164584-3164616	33	NZ_CP006727	Leptospira interrogans serovar Linhai str. 56609 plasmid lcp3, complete sequence	35635-35667	0	1.0
NC_004342_9	9.6\|3164512\|35\|NC_004342\|CRT	3164512-3164546	35	NZ_CP040842	Leptospira weilii strain CUDO6 plasmid pDO6, complete sequence	80497-80531	0	1.0
NC_004342_9	9.6\|3164512\|35\|NC_004342\|CRT	3164512-3164546	35	NZ_CP040845	Leptospira weilii strain CUD13 plasmid pD13, complete sequence	86748-86782	0	1.0
NC_004342_9	9.6\|3164512\|35\|NC_004342\|CRT	3164512-3164546	35	KF114877	Leptospira phage LnoZ_CZ214, complete genome	72964-72998	0	1.0
NC_004342_9	9.7\|3164583\|36\|NC_004342\|CRT	3164583-3164618	36	NZ_CP006727	Leptospira interrogans serovar Linhai str. 56609 plasmid lcp3, complete sequence	35633-35668	0	1.0
NC_004342_7	7.1\|3163696\|35\|NC_004342\|CRT	3163696-3163730	35	NZ_CP039285	Leptospira interrogans strain FMAS_AW1 plasmid pLiSL2, complete sequence	43641-43675	5	0.857
NC_004342_7	7.1\|3163696\|35\|NC_004342\|CRT	3163696-3163730	35	NZ_CP006725	Leptospira interrogans serovar Linhai str. 56609 plasmid lcp1, complete sequence	36638-36672	5	0.857
NC_004342_7	7.7\|3163902\|43\|NC_004342\|CRISPRCasFinder	3163902-3163944	43	NZ_CP006725	Leptospira interrogans serovar Linhai str. 56609 plasmid lcp1, complete sequence	31219-31261	5	0.884
NC_004342_7	7.7\|3163902\|43\|NC_004342\|CRISPRCasFinder	3163902-3163944	43	NZ_CP039285	Leptospira interrogans strain FMAS_AW1 plasmid pLiSL2, complete sequence	49049-49091	5	0.884
NC_004342_9	9.3\|3164504\|43\|NC_004342\|CRISPRCasFinder	3164504-3164546	43	KF114877	Leptospira phage LnoZ_CZ214, complete genome	72956-72998	5	0.884
NC_004342_9	9.4\|3164575\|44\|NC_004342\|CRISPRCasFinder	3164575-3164618	44	NZ_CP006727	Leptospira interrogans serovar Linhai str. 56609 plasmid lcp3, complete sequence	35633-35676	5	0.886
NC_004342_12	12.2\|3165751\|43\|NC_004342\|CRISPRCasFinder	3165751-3165793	43	NZ_CP039285	Leptospira interrogans strain FMAS_AW1 plasmid pLiSL2, complete sequence	112456-112498	5	0.884
NC_004342_12	12.2\|3165751\|43\|NC_004342\|CRISPRCasFinder	3165751-3165793	43	NZ_CP044515	Leptospira interrogans serovar Canicola strain 611 plasmid p1, complete sequence	53965-54007	5	0.884
NC_004342_12	12.2\|3165751\|43\|NC_004342\|CRISPRCasFinder	3165751-3165793	43	NC_025136	Leptospira interrogans serovar Canicola strain Gui44 plasmid pGui1, complete sequence	53020-53062	5	0.884
NC_004342_12	12.2\|3165751\|43\|NC_004342\|CRISPRCasFinder	3165751-3165793	43	NZ_CP044511	Leptospira interrogans serovar Canicola strain LJ178 plasmid p1, complete sequence	53892-53934	5	0.884
NC_004342_12	12.2\|3165751\|43\|NC_004342\|CRISPRCasFinder	3165751-3165793	43	NZ_CP006725	Leptospira interrogans serovar Linhai str. 56609 plasmid lcp1, complete sequence	2529-2571	5	0.884
NC_004342_6	6.6\|3163282\|43\|NC_004342\|CRISPRCasFinder	3163282-3163324	43	NZ_CP039286	Leptospira interrogans strain FMAS_AW1 plasmid pLiSL3, complete sequence	65287-65329	6	0.86
NC_004342_7	7.5\|3163759\|43\|NC_004342\|CRISPRCasFinder	3163759-3163801	43	NZ_CP039286	Leptospira interrogans strain FMAS_AW1 plasmid pLiSL3, complete sequence	65287-65329	6	0.86
NC_004342_9	9.3\|3164504\|43\|NC_004342\|CRISPRCasFinder	3164504-3164546	43	NZ_CP040842	Leptospira weilii strain CUDO6 plasmid pDO6, complete sequence	80497-80539	6	0.86
NC_004342_9	9.3\|3164504\|43\|NC_004342\|CRISPRCasFinder	3164504-3164546	43	NZ_CP040845	Leptospira weilii strain CUD13 plasmid pD13, complete sequence	86748-86790	6	0.86
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	MH884508	Bacillus phage vB_BcoS-136, complete genome	152113-152144	7	0.781
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	NZ_CP045289	Curtobacterium flaccumfaciens pv. flaccumfaciens strain P990 plasmid pCff2, complete sequence	818-849	7	0.781
NC_004342_9	9.1\|3164513\|32\|NC_004342\|PILER-CR	3164513-3164544	32	NC_010478	Synechococcus sp. PCC 7002 plasmid pAQ4, complete sequence	21064-21095	7	0.781
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	NZ_CP049031	Fluviibacterium aquatile strain SC52 plasmid pSC52_3, complete sequence	5839-5870	8	0.75
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	KT997873	Uncultured Mediterranean phage uvDeep-CGR2-KM21-C368, complete genome	4333-4364	8	0.75
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	NZ_CP039703	Clostridium butyricum strain 29-1 plasmid p-butyl_plas_29-1, complete sequence	385746-385777	8	0.75
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	NZ_CP039706	Clostridium butyricum strain 4-1 plasmid p-butyl_plas_4-1, complete sequence	290213-290244	8	0.75
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	NZ_CP033246	Clostridium butyricum strain CFSA3987 plasmid pCFSA3987, complete sequence	875651-875682	8	0.75
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	NZ_CP033248	Clostridium butyricum strain CFSA3989 plasmid pCFSA3989, complete sequence	875666-875697	8	0.75
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	CP027480	Pseudomonas koreensis strain P19E3 plasmid p3, complete sequence	204918-204949	8	0.75
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	NZ_CP013238	Clostridium butyricum strain CDC_51208 plasmid pNPD4_2, complete sequence	503401-503432	8	0.75
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	NZ_AP019717	Clostridium butyricum strain NBRC 13949 plasmid pCBU1, complete sequence	325243-325274	8	0.75
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	AP014201	Uncultured Mediterranean phage uvMED isolate uvMED-GF-C75-MedDCM-OCT-S25-C132, * SEQUENCING IN PROGRESS *	2093-2124	8	0.75
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	AP014202	Uncultured Mediterranean phage uvMED isolate uvMED-GF-C75-MedDCM-OCT-S34-C124, * SEQUENCING IN PROGRESS *	13864-13895	8	0.75
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	NZ_CP045289	Curtobacterium flaccumfaciens pv. flaccumfaciens strain P990 plasmid pCff2, complete sequence	428-459	9	0.719
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	NZ_CP045289	Curtobacterium flaccumfaciens pv. flaccumfaciens strain P990 plasmid pCff2, complete sequence	13163-13194	9	0.719
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	MW084976	Bacillus phage Kirov, complete genome	164209-164240	9	0.719
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	NZ_CP023350	Escherichia coli strain ETEC-2264 plasmid unnamed1, complete sequence	65593-65624	9	0.719
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	NZ_CP022446	Bacillus cereus C1L plasmid pC1L1, complete sequence	47139-47170	9	0.719
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	NZ_CP024241	Escherichia coli O114:H49 strain 90-9280 plasmid unnamed1	63946-63977	9	0.719
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	NZ_CP024238	Escherichia coli O15:H11 strain 90-9272 plasmid unnamed	252060-252091	9	0.719
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	MN693454	Marine virus AFVG_25M276, complete genome	1344-1375	9	0.719
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	AP013581	Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C23-MedDCM-OCT-S23-C56, * SEQUENCING IN PROGRESS *	13486-13517	9	0.719
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	MN693568	Marine virus AFVG_25M275, complete genome	28428-28459	9	0.719
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	MH319749	Marine virus AG-345-F15 Ga0172271_11 genomic sequence	75208-75239	9	0.719
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	AP013457	Uncultured Mediterranean phage uvMED DNA, complete genome, group G17, isolate: uvMED-CGR-U-MedDCM-OCT-S28-C20	9239-9270	9	0.719
NC_004342_6	6.3\|3163290\|34\|NC_004342\|CRT	3163290-3163323	34	MH884508	Bacillus phage vB_BcoS-136, complete genome	152111-152144	9	0.735
NC_004342_6	6.3\|3163290\|34\|NC_004342\|CRT	3163290-3163323	34	NZ_CP049031	Fluviibacterium aquatile strain SC52 plasmid pSC52_3, complete sequence	5839-5872	9	0.735
NC_004342_7	7.2\|3163767\|35\|NC_004342\|CRT,PILER-CR	3163767-3163801	35	MH884508	Bacillus phage vB_BcoS-136, complete genome	152111-152145	9	0.743
NC_004342_6	6.1\|3163292\|32\|NC_004342\|PILER-CR	3163292-3163323	32	MN698241	Pelagibacter phage HTVC027P, complete genome	31106-31137	10	0.688
NC_004342_6	6.3\|3163290\|34\|NC_004342\|CRT	3163290-3163323	34	KT997873	Uncultured Mediterranean phage uvDeep-CGR2-KM21-C368, complete genome	4333-4366	10	0.706
NC_004342_7	7.2\|3163767\|35\|NC_004342\|CRT,PILER-CR	3163767-3163801	35	NZ_CP049031	Fluviibacterium aquatile strain SC52 plasmid pSC52_3, complete sequence	5838-5872	10	0.714
NC_004342_6	6.3\|3163290\|34\|NC_004342\|CRT	3163290-3163323	34	NZ_CP045289	Curtobacterium flaccumfaciens pv. flaccumfaciens strain P990 plasmid pCff2, complete sequence	426-459	11	0.676
NC_004342_6	6.3\|3163290\|34\|NC_004342\|CRT	3163290-3163323	34	MW084976	Bacillus phage Kirov, complete genome	164209-164242	11	0.676
NC_004342_7	7.2\|3163767\|35\|NC_004342\|CRT,PILER-CR	3163767-3163801	35	KT997873	Uncultured Mediterranean phage uvDeep-CGR2-KM21-C368, complete genome	4332-4366	11	0.686
NC_004342_6	6.3\|3163290\|34\|NC_004342\|CRT	3163290-3163323	34	MN698241	Pelagibacter phage HTVC027P, complete genome	31106-31139	12	0.647

1. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to NZ_CP039286 (Leptospira interrogans strain FMAS_AW1 plasmid pLiSL3, complete sequence) position: , mismatch: 0, identity: 1.0

gttctgattttttcttttccttccttttgtta	CRISPR spacer
gttctgattttttcttttccttccttttgtta	Protospacer
********************************

2. spacer 6.3|3163290|34|NC_004342|CRT matches to NZ_CP039286 (Leptospira interrogans strain FMAS_AW1 plasmid pLiSL3, complete sequence) position: , mismatch: 0, identity: 1.0

ccgttctgattttttcttttccttccttttgtta	CRISPR spacer
ccgttctgattttttcttttccttccttttgtta	Protospacer
**********************************

3. spacer 7.2|3163767|35|NC_004342|CRT,PILER-CR matches to NZ_CP039286 (Leptospira interrogans strain FMAS_AW1 plasmid pLiSL3, complete sequence) position: , mismatch: 0, identity: 1.0

ccgttctgattttttcttttccttccttttgttat	CRISPR spacer
ccgttctgattttttcttttccttccttttgttat	Protospacer
***********************************

4. spacer 7.4|3163910|35|NC_004342|CRT matches to NZ_CP006725 (Leptospira interrogans serovar Linhai str. 56609 plasmid lcp1, complete sequence) position: , mismatch: 0, identity: 1.0

gaatacaacctcttcaaaaaagaggaaccggcgta	CRISPR spacer
gaatacaacctcttcaaaaaagaggaaccggcgta	Protospacer
***********************************

5. spacer 7.4|3163910|35|NC_004342|CRT matches to NZ_CP039285 (Leptospira interrogans strain FMAS_AW1 plasmid pLiSL2, complete sequence) position: , mismatch: 0, identity: 1.0

gaatacaacctcttcaaaaaagaggaaccggcgta	CRISPR spacer
gaatacaacctcttcaaaaaagaggaaccggcgta	Protospacer
***********************************

6. spacer 9.1|3164513|32|NC_004342|PILER-CR matches to NZ_CP040842 (Leptospira weilii strain CUDO6 plasmid pDO6, complete sequence) position: , mismatch: 0, identity: 1.0

aagacaaatcggttcatttgattttttcggat	CRISPR spacer
aagacaaatcggttcatttgattttttcggat	Protospacer
********************************

7. spacer 9.1|3164513|32|NC_004342|PILER-CR matches to NZ_CP040845 (Leptospira weilii strain CUD13 plasmid pD13, complete sequence) position: , mismatch: 0, identity: 1.0

aagacaaatcggttcatttgattttttcggat	CRISPR spacer
aagacaaatcggttcatttgattttttcggat	Protospacer
********************************

8. spacer 9.1|3164513|32|NC_004342|PILER-CR matches to KF114877 (Leptospira phage LnoZ_CZ214, complete genome) position: , mismatch: 0, identity: 1.0

aagacaaatcggttcatttgattttttcggat	CRISPR spacer
aagacaaatcggttcatttgattttttcggat	Protospacer
********************************

9. spacer 9.2|3164584|33|NC_004342|PILER-CR matches to NZ_CP006727 (Leptospira interrogans serovar Linhai str. 56609 plasmid lcp3, complete sequence) position: , mismatch: 0, identity: 1.0

agttaaattctgcccactccatggcctaaaatc	CRISPR spacer
agttaaattctgcccactccatggcctaaaatc	Protospacer
*********************************

10. spacer 9.6|3164512|35|NC_004342|CRT matches to NZ_CP040842 (Leptospira weilii strain CUDO6 plasmid pDO6, complete sequence) position: , mismatch: 0, identity: 1.0

aaagacaaatcggttcatttgattttttcggatct	CRISPR spacer
aaagacaaatcggttcatttgattttttcggatct	Protospacer
***********************************

11. spacer 9.6|3164512|35|NC_004342|CRT matches to NZ_CP040845 (Leptospira weilii strain CUD13 plasmid pD13, complete sequence) position: , mismatch: 0, identity: 1.0

aaagacaaatcggttcatttgattttttcggatct	CRISPR spacer
aaagacaaatcggttcatttgattttttcggatct	Protospacer
***********************************

12. spacer 9.6|3164512|35|NC_004342|CRT matches to KF114877 (Leptospira phage LnoZ_CZ214, complete genome) position: , mismatch: 0, identity: 1.0

aaagacaaatcggttcatttgattttttcggatct	CRISPR spacer
aaagacaaatcggttcatttgattttttcggatct	Protospacer
***********************************

13. spacer 9.7|3164583|36|NC_004342|CRT matches to NZ_CP006727 (Leptospira interrogans serovar Linhai str. 56609 plasmid lcp3, complete sequence) position: , mismatch: 0, identity: 1.0

gagttaaattctgcccactccatggcctaaaatcag	CRISPR spacer
gagttaaattctgcccactccatggcctaaaatcag	Protospacer
************************************

14. spacer 7.1|3163696|35|NC_004342|CRT matches to NZ_CP039285 (Leptospira interrogans strain FMAS_AW1 plasmid pLiSL2, complete sequence) position: , mismatch: 5, identity: 0.857

ttgattggtgcagttgtgcttgttttgattggtgt	CRISPR spacer
ctcggtggtgcagttgtgcttgttttgattggcgt	Protospacer
.* . ***************************.**

15. spacer 7.1|3163696|35|NC_004342|CRT matches to NZ_CP006725 (Leptospira interrogans serovar Linhai str. 56609 plasmid lcp1, complete sequence) position: , mismatch: 5, identity: 0.857

ttgattggtgcagttgtgcttgttttgattggtgt	CRISPR spacer
ctcggtggtgcagttgtgcttgttttgattggcgt	Protospacer
.* . ***************************.**

16. spacer 7.7|3163902|43|NC_004342|CRISPRCasFinder matches to NZ_CP006725 (Leptospira interrogans serovar Linhai str. 56609 plasmid lcp1, complete sequence) position: , mismatch: 5, identity: 0.884

ttgagcacgaatacaacctcttcaaaaaagaggaaccggcgta	CRISPR spacer
gaacgctcgaatacaacctcttcaaaaaagaggaaccggcgta	Protospacer
  . ** ************************************

17. spacer 7.7|3163902|43|NC_004342|CRISPRCasFinder matches to NZ_CP039285 (Leptospira interrogans strain FMAS_AW1 plasmid pLiSL2, complete sequence) position: , mismatch: 5, identity: 0.884

ttgagca--cgaatacaacctcttcaaaaaagaggaaccggcgta	CRISPR spacer
--gaacgatggaatacaacctcttcaaaaaagaggaaccggcgta	Protospacer
  **.*.   ***********************************

18. spacer 9.3|3164504|43|NC_004342|CRISPRCasFinder matches to KF114877 (Leptospira phage LnoZ_CZ214, complete genome) position: , mismatch: 5, identity: 0.884

ttgagcacaaagacaaatcggttcatttgattttttcggatct	CRISPR spacer
ctaagataaaagacaaatcggttcatttgattttttcggatct	Protospacer
.*.**   ***********************************

19. spacer 9.4|3164575|44|NC_004342|CRISPRCasFinder matches to NZ_CP006727 (Leptospira interrogans serovar Linhai str. 56609 plasmid lcp3, complete sequence) position: , mismatch: 5, identity: 0.886

ttgagca--cgagttaaattctgcccactccatggcctaaaatcag	CRISPR spacer
--ggccaatggagttaaattctgcccactccatggcctaaaatcag	Protospacer
  *. **   ************************************

20. spacer 12.2|3165751|43|NC_004342|CRISPRCasFinder matches to NZ_CP039285 (Leptospira interrogans strain FMAS_AW1 plasmid pLiSL2, complete sequence) position: , mismatch: 5, identity: 0.884

----ttgagcactaagagtaagtggaggctagatttagagggattgt	CRISPR spacer
tgtcttta----taagagtaagtggaggctagatttagagggattgt	Protospacer
    ** *    ***********************************

21. spacer 12.2|3165751|43|NC_004342|CRISPRCasFinder matches to NZ_CP044515 (Leptospira interrogans serovar Canicola strain 611 plasmid p1, complete sequence) position: , mismatch: 5, identity: 0.884

-----ttgagcactaagagtaagtggaggctagatttagagggattgt	CRISPR spacer
tgtctttg-----taagagtaagtggaggctagatttagagggattgt	Protospacer
     ***     ***********************************

22. spacer 12.2|3165751|43|NC_004342|CRISPRCasFinder matches to NC_025136 (Leptospira interrogans serovar Canicola strain Gui44 plasmid pGui1, complete sequence) position: , mismatch: 5, identity: 0.884

-----ttgagcactaagagtaagtggaggctagatttagagggattgt	CRISPR spacer
tgtctttg-----taagagtaagtggaggctagatttagagggattgt	Protospacer
     ***     ***********************************

23. spacer 12.2|3165751|43|NC_004342|CRISPRCasFinder matches to NZ_CP044511 (Leptospira interrogans serovar Canicola strain LJ178 plasmid p1, complete sequence) position: , mismatch: 5, identity: 0.884

-----ttgagcactaagagtaagtggaggctagatttagagggattgt	CRISPR spacer
tgtctttg-----taagagtaagtggaggctagatttagagggattgt	Protospacer
     ***     ***********************************

24. spacer 12.2|3165751|43|NC_004342|CRISPRCasFinder matches to NZ_CP006725 (Leptospira interrogans serovar Linhai str. 56609 plasmid lcp1, complete sequence) position: , mismatch: 5, identity: 0.884

-----ttgagcactaagagtaagtggaggctagatttagagggattgt	CRISPR spacer
tgtctttg-----taagagtaagtggaggctagatttagagggattgt	Protospacer
     ***     ***********************************

25. spacer 6.6|3163282|43|NC_004342|CRISPRCasFinder matches to NZ_CP039286 (Leptospira interrogans strain FMAS_AW1 plasmid pLiSL3, complete sequence) position: , mismatch: 6, identity: 0.86

-ttgagcacccgttctgattttttcttttccttccttttgttat	CRISPR spacer
ggtaaatg-ccgttctgattttttcttttccttccttttgttat	Protospacer
  *.*... ***********************************

26. spacer 7.5|3163759|43|NC_004342|CRISPRCasFinder matches to NZ_CP039286 (Leptospira interrogans strain FMAS_AW1 plasmid pLiSL3, complete sequence) position: , mismatch: 6, identity: 0.86

-ttgagcacccgttctgattttttcttttccttccttttgttat	CRISPR spacer
ggtaaatg-ccgttctgattttttcttttccttccttttgttat	Protospacer
  *.*... ***********************************

27. spacer 9.3|3164504|43|NC_004342|CRISPRCasFinder matches to NZ_CP040842 (Leptospira weilii strain CUDO6 plasmid pDO6, complete sequence) position: , mismatch: 6, identity: 0.86

ttgagcacaaagacaaatcggttcatttgattttttcggatct	CRISPR spacer
ctaaaattaaagacaaatcggttcatttgattttttcggatct	Protospacer
.*.*.  .***********************************

28. spacer 9.3|3164504|43|NC_004342|CRISPRCasFinder matches to NZ_CP040845 (Leptospira weilii strain CUD13 plasmid pD13, complete sequence) position: , mismatch: 6, identity: 0.86

ttgagcacaaagacaaatcggttcatttgattttttcggatct	CRISPR spacer
ctaaaattaaagacaaatcggttcatttgattttttcggatct	Protospacer
.*.*.  .***********************************

29. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to MH884508 (Bacillus phage vB_BcoS-136, complete genome) position: , mismatch: 7, identity: 0.781

gttctgattttttcttttccttccttttgtta	CRISPR spacer
tatttccttttttcttttctttccttttatta	Protospacer
  *.*  ************.********.***

30. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to NZ_CP045289 (Curtobacterium flaccumfaciens pv. flaccumfaciens strain P990 plasmid pCff2, complete sequence) position: , mismatch: 7, identity: 0.781

gttctgattttttcttttccttccttttgtta	CRISPR spacer
tttttcctttttttttttccttccttttcttt	Protospacer
 **.*  ******.************** **

31. spacer 9.1|3164513|32|NC_004342|PILER-CR matches to NC_010478 (Synechococcus sp. PCC 7002 plasmid pAQ4, complete sequence) position: , mismatch: 7, identity: 0.781

aagacaaatcggttcatttgattttttcggat	CRISPR spacer
agaacaaatcggttgttttgattttttagttt	Protospacer
*..***********  *********** *  *

32. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to NZ_CP049031 (Fluviibacterium aquatile strain SC52 plasmid pSC52_3, complete sequence) position: , mismatch: 8, identity: 0.75

gttctgattttttcttttccttccttttgtta	CRISPR spacer
ggattgagtttgtcttttccttccttttggcg	Protospacer
*  .*** *** ***************** ..

33. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to KT997873 (Uncultured Mediterranean phage uvDeep-CGR2-KM21-C368, complete genome) position: , mismatch: 8, identity: 0.75

gttctgattttttcttttccttccttttgtta	CRISPR spacer
acccagattttttcttttccttctttatgtat	Protospacer
...* ******************.** ***

34. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to NZ_CP039703 (Clostridium butyricum strain 29-1 plasmid p-butyl_plas_29-1, complete sequence) position: , mismatch: 8, identity: 0.75

gttctgattttttcttttccttccttttgtta	CRISPR spacer
gttctgatttttcattttccttctcctttcaa	Protospacer
************. *********...** . *

35. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to NZ_CP039706 (Clostridium butyricum strain 4-1 plasmid p-butyl_plas_4-1, complete sequence) position: , mismatch: 8, identity: 0.75

gttctgattttttcttttccttccttttgtta	CRISPR spacer
gttctgatttttcattttccttctcctttcaa	Protospacer
************. *********...** . *

36. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to NZ_CP033246 (Clostridium butyricum strain CFSA3987 plasmid pCFSA3987, complete sequence) position: , mismatch: 8, identity: 0.75

gttctgattttttcttttccttccttttgtta	CRISPR spacer
gttctgatttttcattttccttctcctttcaa	Protospacer
************. *********...** . *

37. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to NZ_CP033248 (Clostridium butyricum strain CFSA3989 plasmid pCFSA3989, complete sequence) position: , mismatch: 8, identity: 0.75

gttctgattttttcttttccttccttttgtta	CRISPR spacer
gttctgatttttcattttccttctcctttcaa	Protospacer
************. *********...** . *

38. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to CP027480 (Pseudomonas koreensis strain P19E3 plasmid p3, complete sequence) position: , mismatch: 8, identity: 0.75

gttctgat-tttttcttttccttccttttgtta	CRISPR spacer
-tcatagtgtttttcttttccttcctattcttg	Protospacer
 *. *..* ***************** ** **.

39. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to NZ_CP013238 (Clostridium butyricum strain CDC_51208 plasmid pNPD4_2, complete sequence) position: , mismatch: 8, identity: 0.75

gttctgattttttcttttccttccttttgtta	CRISPR spacer
gttctgatttttcattttccttctcctttcaa	Protospacer
************. *********...** . *

40. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to NZ_AP019717 (Clostridium butyricum strain NBRC 13949 plasmid pCBU1, complete sequence) position: , mismatch: 8, identity: 0.75

gttctgattttttcttttccttccttttgtta	CRISPR spacer
gttctgatttttcattttccttctcctttcaa	Protospacer
************. *********...** . *

41. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to AP014201 (Uncultured Mediterranean phage uvMED isolate uvMED-GF-C75-MedDCM-OCT-S25-C132, *** SEQUENCING IN PROGRESS ***) position: , mismatch: 8, identity: 0.75

gttctgattttttcttttccttccttttgtta	CRISPR spacer
gttcgggttttttcttttccttctctctatct	Protospacer
**** *.****************..*.*.*.

42. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to AP014202 (Uncultured Mediterranean phage uvMED isolate uvMED-GF-C75-MedDCM-OCT-S34-C124, *** SEQUENCING IN PROGRESS ***) position: , mismatch: 8, identity: 0.75

gttctgattttttcttttccttccttttgtta	CRISPR spacer
gttcgggttttttcttttccttctgtctatct	Protospacer
**** *.****************. *.*.*.

43. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to NZ_CP045289 (Curtobacterium flaccumfaciens pv. flaccumfaciens strain P990 plasmid pCff2, complete sequence) position: , mismatch: 9, identity: 0.719

gttctgattttttcttttccttccttttgtta	CRISPR spacer
tcttccttttcttcttttccttcctttttttc	Protospacer
 .*..  ***.***************** **

44. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to NZ_CP045289 (Curtobacterium flaccumfaciens pv. flaccumfaciens strain P990 plasmid pCff2, complete sequence) position: , mismatch: 9, identity: 0.719

gttctgattttttcttttccttccttttgtta	CRISPR spacer
cctgcaagtttttcttttcctccctttttttc	Protospacer
 .* ..* *************.****** **

45. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to MW084976 (Bacillus phage Kirov, complete genome) position: , mismatch: 9, identity: 0.719

gttctgattttttcttttccttccttttgtta	CRISPR spacer
acttgacttttttcgttttcttccttttgttc	Protospacer
..*. . ******* ***.************

46. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to NZ_CP023350 (Escherichia coli strain ETEC-2264 plasmid unnamed1, complete sequence) position: , mismatch: 9, identity: 0.719

gttctgattttttcttttccttccttttgtta	CRISPR spacer
ttttcttcattttcttttccttctttttctta	Protospacer
 **..  . **************.**** ***

47. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to NZ_CP022446 (Bacillus cereus C1L plasmid pC1L1, complete sequence) position: , mismatch: 9, identity: 0.719

gttctgattttttcttttccttccttttgtta	CRISPR spacer
ttaaatactttttcttttcatttcttttgttt	Protospacer
 *    *.*********** **.********

48. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to NZ_CP024241 (Escherichia coli O114:H49 strain 90-9280 plasmid unnamed1) position: , mismatch: 9, identity: 0.719

gttctgattttttcttttccttccttttgtta	CRISPR spacer
ttttcttcattttcttttccttctttttctta	Protospacer
 **..  . **************.**** ***

49. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to NZ_CP024238 (Escherichia coli O15:H11 strain 90-9272 plasmid unnamed) position: , mismatch: 9, identity: 0.719

gttctgattttttcttttccttccttttgtta	CRISPR spacer
ttttcttcattttcttttccttctttttctta	Protospacer
 **..  . **************.**** ***

50. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to MN693454 (Marine virus AFVG_25M276, complete genome) position: , mismatch: 9, identity: 0.719

gttctgattttttcttttccttccttttgtta	CRISPR spacer
agtaatattttttcttttctttgcttttgctt	Protospacer
. *   *************.** ******.*

51. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to AP013581 (Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C23-MedDCM-OCT-S23-C56, *** SEQUENCING IN PROGRESS ***) position: , mismatch: 9, identity: 0.719

gttctgattttttcttttccttccttttgtta	CRISPR spacer
tggataattttttcttttctctccttttgatc	Protospacer
    *.*************..******** *

52. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to MN693568 (Marine virus AFVG_25M275, complete genome) position: , mismatch: 9, identity: 0.719

gttctgattttttcttttccttccttttgtta	CRISPR spacer
agtaatattttttcttttctttgcttttgctt	Protospacer
. *   *************.** ******.*

53. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to MH319749 (Marine virus AG-345-F15 Ga0172271_11 genomic sequence) position: , mismatch: 9, identity: 0.719

gttctgattttttcttttccttccttttgtta	CRISPR spacer
agtaagattttttctttttcttctttttatat	Protospacer
. *  *************.****.****.*

54. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to AP013457 (Uncultured Mediterranean phage uvMED DNA, complete genome, group G17, isolate: uvMED-CGR-U-MedDCM-OCT-S28-C20) position: , mismatch: 9, identity: 0.719

gttctgattttttcttttccttccttttgtta	CRISPR spacer
gttttgattttttcttttacttcttcgtacat	Protospacer
***.************** ****.*. *..

55. spacer 6.3|3163290|34|NC_004342|CRT matches to MH884508 (Bacillus phage vB_BcoS-136, complete genome) position: , mismatch: 9, identity: 0.735

ccgttctgattttttcttttccttccttttgtta	CRISPR spacer
tttatttccttttttcttttctttccttttatta	Protospacer
..  *.*  ************.********.***

56. spacer 6.3|3163290|34|NC_004342|CRT matches to NZ_CP049031 (Fluviibacterium aquatile strain SC52 plasmid pSC52_3, complete sequence) position: , mismatch: 9, identity: 0.735

ccgttctgattttttcttttccttccttttgtta	CRISPR spacer
cgggattgagtttgtcttttccttccttttggcg	Protospacer
* *  .*** *** ***************** ..

57. spacer 7.2|3163767|35|NC_004342|CRT,PILER-CR matches to MH884508 (Bacillus phage vB_BcoS-136, complete genome) position: , mismatch: 9, identity: 0.743

ccgttctgattttttcttttccttccttttgttat	CRISPR spacer
tttatttccttttttcttttctttccttttattat	Protospacer
..  *.*  ************.********.****

58. spacer 6.1|3163292|32|NC_004342|PILER-CR matches to MN698241 (Pelagibacter phage HTVC027P, complete genome) position: , mismatch: 10, identity: 0.688

gttctgattttttcttttccttccttttgtta	CRISPR spacer
aacagatttttttctttttcttccttttcttt	Protospacer
. .  . ***********.********* **

59. spacer 6.3|3163290|34|NC_004342|CRT matches to KT997873 (Uncultured Mediterranean phage uvDeep-CGR2-KM21-C368, complete genome) position: , mismatch: 10, identity: 0.706

ccgttctgattttttcttttccttccttttgtta	CRISPR spacer
gtacccagattttttcttttccttctttatgtat	Protospacer
 ....* ******************.** ***

60. spacer 7.2|3163767|35|NC_004342|CRT,PILER-CR matches to NZ_CP049031 (Fluviibacterium aquatile strain SC52 plasmid pSC52_3, complete sequence) position: , mismatch: 10, identity: 0.714

ccgttctgattttttcttttccttccttttgttat	CRISPR spacer
cgggattgagtttgtcttttccttccttttggcgc	Protospacer
* *  .*** *** ***************** ...

61. spacer 6.3|3163290|34|NC_004342|CRT matches to NZ_CP045289 (Curtobacterium flaccumfaciens pv. flaccumfaciens strain P990 plasmid pCff2, complete sequence) position: , mismatch: 11, identity: 0.676

ccgttctgattttttcttttccttccttttgtta	CRISPR spacer
tttcttccttttcttcttttccttcctttttttc	Protospacer
.. .*..  ***.***************** **

62. spacer 6.3|3163290|34|NC_004342|CRT matches to MW084976 (Bacillus phage Kirov, complete genome) position: , mismatch: 11, identity: 0.676

ccgttctgattttttcttttccttccttttgtta	CRISPR spacer
ttacttgacttttttcgttttcttccttttgttc	Protospacer
....*. . ******* ***.************

63. spacer 7.2|3163767|35|NC_004342|CRT,PILER-CR matches to KT997873 (Uncultured Mediterranean phage uvDeep-CGR2-KM21-C368, complete genome) position: , mismatch: 11, identity: 0.686

ccgttctgattttttcttttccttccttttgttat	CRISPR spacer
gtacccagattttttcttttccttctttatgtata	Protospacer
 ....* ******************.** ***

64. spacer 6.3|3163290|34|NC_004342|CRT matches to MN698241 (Pelagibacter phage HTVC027P, complete genome) position: , mismatch: 12, identity: 0.647

ccgttctgattttttcttttccttccttttgtta	CRISPR spacer
taaacagatttttttctttttcttccttttcttt	Protospacer
. . .  . ***********.********* **

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

1653918 : 1663354

uncultured_marine_virus(37.5%)

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_000575178.1\|1653918_1655010_+	DegT/DnrJ/EryC1/StrS family aminotransferase	A0A2P1ELT3	Moumouvirus	3.1e-37	31.6
WP_000125497.1\|1655152_1655950_+	glycosyltransferase	A0A0F7L2F7	uncultured_marine_virus	4.6e-06	35.3
WP_000282880.1\|1656459_1657281_+	glycosyltransferase	A0A0F7L2F7	uncultured_marine_virus	2.4e-10	30.0
WP_000853994.1\|1657994_1659743_+	glycosyltransferase	A0A0F7L2F7	uncultured_marine_virus	7.7e-06	33.3
WP_001159758.1\|1659938_1660499_+	dTDP-4-dehydrorhamnose 3,5-epimerase	I7HJC4	Enterobacteria_phage	3.5e-45	52.9
WP_000642163.1\|1660502_1661423_+	dTDP-4-dehydrorhamnose reductase	H9NCE8	Sphingomonas_phage	1.4e-11	27.8
WP_000723092.1\|1661419_1662469_+	dTDP-glucose 4,6-dehydratase	I7HTA3	Enterobacteria_phage	2.0e-94	51.5
WP_000842260.1\|1662469_1663354_+	glucose-1-phosphate thymidylyltransferase RfbA	I7I009	Enterobacteria_phage	4.8e-97	60.3

DBSCAN-SWA_2

1739786 : 1795135

Leptospira_phage(75.0%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_148263381.1\|1739786_1740933_+\|transposase	IS3 family transposase	A0A0P0I4A4	Acinetobacter_phage	1.8e-40	34.2
WP_000245253.1\|1740879_1741728_-	hypothetical protein	NA	NA	NA	NA
WP_000426853.1\|1741890_1742226_-	hypothetical protein	NA	NA	NA	NA
WP_000656664.1\|1742209_1742755_-	hypothetical protein	NA	NA	NA	NA
WP_000634193.1\|1743553_1744018_-	hypothetical protein	NA	NA	NA	NA
WP_080010642.1\|1748631_1750752_-	choice-of-anchor D domain-containing protein	NA	NA	NA	NA
WP_164920159.1\|1751867_1752065_-	hypothetical protein	NA	NA	NA	NA
WP_011069690.1\|1752045_1754013_+	hypothetical protein	NA	NA	NA	NA
WP_001001535.1\|1756442_1764086_+	membrane protein	NA	NA	NA	NA
WP_001017976.1\|1764085_1764568_+	hypothetical protein	NA	NA	NA	NA
WP_000033047.1\|1765951_1767124_-	AraC family transcriptional regulator	S5WIW9	Leptospira_phage	2.2e-150	71.7
WP_000236474.1\|1767142_1767370_-	hypothetical protein	NA	NA	NA	NA
WP_000410390.1\|1767626_1768007_+	hypothetical protein	S5WIL9	Leptospira_phage	6.1e-49	77.0
WP_000110231.1\|1768013_1768913_-	membrane protein	S5W9K9	Leptospira_phage	1.0e-131	78.6
WP_000060574.1\|1768937_1769558_-	hypothetical protein	S5VXZ7	Leptospira_phage	2.2e-96	84.0
WP_000691822.1\|1770838_1771315_+	hypothetical protein	NA	NA	NA	NA
WP_000532164.1\|1771563_1771767_-	hypothetical protein	NA	NA	NA	NA
WP_001206461.1\|1771826_1772201_-	hypothetical protein	NA	NA	NA	NA
WP_100220714.1\|1772582_1772876_+	hypothetical protein	NA	NA	NA	NA
WP_000703027.1\|1773188_1773980_+	hypothetical protein	NA	NA	NA	NA
WP_000443825.1\|1774315_1774552_+	AbrB/MazE/SpoVT family DNA-binding domain-containing protein	NA	NA	NA	NA
WP_000240418.1\|1774545_1774887_+	endoribonuclease MazF	A0A1S5SEX8	Streptococcus_phage	5.7e-14	36.1
WP_000844450.1\|1775336_1775603_-	hypothetical protein	S5VKW0	Leptospira_phage	9.5e-33	79.3
WP_000414906.1\|1775994_1776717_-	hypothetical protein	S5VSS3	Leptospira_phage	2.0e-80	65.8
WP_002080465.1\|1776679_1776826_-	hypothetical protein	NA	NA	NA	NA
WP_080010645.1\|1776929_1777136_+	BrnT family toxin	NA	NA	NA	NA
WP_000811796.1\|1777864_1778326_+	hypothetical protein	NA	NA	NA	NA
WP_002095367.1\|1778688_1779042_+	hypothetical protein	NA	NA	NA	NA
WP_001282191.1\|1779629_1780520_-\|transposase	Rpn family recombination-promoting nuclease/putative transposase	S5VY82	Leptospira_phage	1.3e-145	89.3
WP_100220713.1\|1780895_1781045_+\|transposase	IS3 family transposase	NA	NA	NA	NA
WP_000161327.1\|1781266_1782283_+	DUF4917 family protein	NA	NA	NA	NA
WP_000835630.1\|1783785_1784085_+	hypothetical protein	NA	NA	NA	NA
WP_001240340.1\|1784087_1784534_+	PIN domain-containing protein	NA	NA	NA	NA
WP_002078026.1\|1784814_1785138_+	hypothetical protein	NA	NA	NA	NA
WP_000833998.1\|1785902_1786142_+	antitoxin	NA	NA	NA	NA
WP_000445079.1\|1786473_1786920_+	GNAT family N-acetyltransferase	NA	NA	NA	NA
WP_001058386.1\|1787645_1788167_+	hypothetical protein	NA	NA	NA	NA
WP_000830370.1\|1788213_1788477_+	hypothetical protein	S5VKH6	Leptospira_phage	3.4e-14	81.2
WP_001282185.1\|1789097_1790000_-\|transposase	Rpn family recombination-promoting nuclease/putative transposase	S5VY82	Leptospira_phage	1.0e-147	89.3
WP_001228553.1\|1791116_1791764_+	hypothetical protein	NA	NA	NA	NA
WP_100218943.1\|1792349_1793497_-\|transposase	IS3-like element IS1500B family transposase	A0A0P0I4A4	Acinetobacter_phage	6.3e-41	34.5
WP_002080723.1\|1793735_1794275_+	hypothetical protein	NA	NA	NA	NA
WP_000409552.1\|1794357_1794768_+	hypothetical protein	NA	NA	NA	NA
WP_100220573.1\|1794985_1795135_+\|transposase	IS3 family transposase	NA	NA	NA	NA

Anti-CRISPR protein detection

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

2. NC_004343

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

170186 : 257130

Pseudomonas_phage(18.18%)

transposase,tRNA,protease

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000264281.1\|170186_171074_+\|protease	protease HtpX	NA	NA	NA	NA
WP_000029425.1\|171595_172129_+	adenine phosphoribosyltransferase	A0A1V0SKE5	Klosneuvirus	8.0e-31	45.2
WP_000125226.1\|172166_173681_+\|protease	serine protease	A0A1V0CPG8	Kaumoebavirus	4.0e-19	24.9
WP_000944579.1\|173695_175279_+	PDZ domain-containing protein	NA	NA	NA	NA
WP_000599987.1\|176650_177883_-	hypothetical protein	NA	NA	NA	NA
WP_001083737.1\|177879_179457_-	hypothetical protein	NA	NA	NA	NA
WP_000444125.1\|179453_179846_-	transcriptional repressor	NA	NA	NA	NA
WP_000050532.1\|181530_182208_+	biliverdin-producing heme oxygenase	M4QDD1	Prochlorococcus_phage	2.0e-42	42.5
WP_000612013.1\|182182_183391_+	MFS transporter	NA	NA	NA	NA
WP_002081013.1\|183575_184106_-	DUF1564 domain-containing protein	NA	NA	NA	NA
WP_000449670.1\|184996_187129_-	TonB-dependent receptor	NA	NA	NA	NA
WP_001079023.1\|187107_187809_-	hypothetical protein	NA	NA	NA	NA
WP_001226840.1\|187833_188412_-	hypothetical protein	NA	NA	NA	NA
WP_000614776.1\|188883_189609_+	leucine-rich repeat domain-containing protein	NA	NA	NA	NA
WP_033109745.1\|189621_190374_-	hypothetical protein	NA	NA	NA	NA
WP_000492446.1\|190812_191118_-	YbaB/EbfC family nucleoid-associated protein	NA	NA	NA	NA
WP_000691276.1\|191222_192578_-	membrane protein	NA	NA	NA	NA
WP_000595826.1\|192835_194458_-	AAA family ATPase	NA	NA	NA	NA
WP_000897624.1\|194483_195542_-\|tRNA	tRNA preQ1(34) S-adenosylmethionine ribosyltransferase-isomerase QueA	NA	NA	NA	NA
WP_042709816.1\|195773_197183_+	DUF2029 domain-containing protein	NA	NA	NA	NA
WP_001122447.1\|197202_198345_+	glycosyltransferase family 4 protein	NA	NA	NA	NA
WP_000812265.1\|198349_198922_+	hypothetical protein	NA	NA	NA	NA
WP_029781409.1\|199155_199344_+	hypothetical protein	NA	NA	NA	NA
WP_000632684.1\|199354_200740_+	hypothetical protein	NA	NA	NA	NA
WP_000898540.1\|200811_202224_+	MBOAT family protein	A0A125RNP0	Pseudomonas_phage	4.6e-57	34.2
WP_000666150.1\|202238_203399_+	SGNH/GDSL hydrolase family protein	NA	NA	NA	NA
WP_000578213.1\|203395_204793_+	MBOAT family protein	A0A125RNP0	Pseudomonas_phage	8.8e-61	37.8
WP_002088179.1\|204802_205870_+	DUF1574 domain-containing protein	NA	NA	NA	NA
WP_001004761.1\|205866_206211_+	nucleotide pyrophosphohydrolase	NA	NA	NA	NA
WP_000739913.1\|206966_207380_-	biopolymer transporter ExbD	NA	NA	NA	NA
WP_000453428.1\|207376_207904_-	MotA/TolQ/ExbB proton channel family protein	NA	NA	NA	NA
WP_000012765.1\|208518_209268_+	ubiquinone/menaquinone biosynthesis methyltransferase	NA	NA	NA	NA
WP_000721925.1\|209407_211504_+	LruC domain-containing protein	NA	NA	NA	NA
WP_000928215.1\|211548_212940_+\|protease	PrsW family intramembrane metalloprotease	NA	NA	NA	NA
WP_162839744.1\|212922_214986_-	hypothetical protein	NA	NA	NA	NA
WP_000125527.1\|216333_216786_-	TraR/DksA family transcriptional regulator	NA	NA	NA	NA
WP_001206796.1\|216803_216968_-	50S ribosomal protein L33	NA	NA	NA	NA
WP_100221575.1\|217222_218370_-\|transposase	IS3-like element IS1500B family transposase	A0A0P0I4A4	Acinetobacter_phage	6.3e-41	34.5
WP_000791251.1\|219780_222363_+	DUF1566 domain-containing protein	NA	NA	NA	NA
WP_000252094.1\|222469_222997_+	DUF1566 domain-containing protein	NA	NA	NA	NA
WP_000995308.1\|224114_225338_+	AraC family transcriptional regulator	S5VXW9	Leptospira_phage	1.0e-25	30.4
WP_148263386.1\|226286_227427_+\|transposase	IS3 family transposase	U5P429	Shigella_phage	3.3e-42	36.6
WP_001070553.1\|228472_228874_-	hypothetical protein	NA	NA	NA	NA
WP_000528391.1\|230361_232080_-	REC domain-containing phosphodiesterase	NA	NA	NA	NA
WP_001103840.1\|234524_236099_-	sensor domain-containing diguanylate cyclase	A0A127AWB9	Bacillus_phage	3.9e-17	35.3
WP_002081021.1\|236630_239156_+	response regulator	A0A1V0SGX0	Hokovirus	1.5e-50	36.9
WP_000822485.1\|239630_240332_-	FecR domain-containing protein	NA	NA	NA	NA
WP_001068355.1\|240374_240782_-	hypothetical protein	NA	NA	NA	NA
WP_001134756.1\|241064_242069_-	patatin-like phospholipase family protein	NA	NA	NA	NA
WP_000879805.1\|242937_244326_-	sodium:solute symporter family protein	NA	NA	NA	NA
WP_000491586.1\|244733_245105_+	hypothetical protein	NA	NA	NA	NA
WP_000925582.1\|245368_246826_+	curli assembly protein CsgG	NA	NA	NA	NA
WP_000757100.1\|247075_247357_-	TIGR04454 family lipoprotein	NA	NA	NA	NA
WP_000391771.1\|247353_249318_-	cellulase family glycosylhydrolase	NA	NA	NA	NA
WP_000816747.1\|249445_250324_-	patatin-like phospholipase family protein	A0A161HUS6	Powai_lake_megavirus	1.7e-06	43.2
WP_000094632.1\|250914_252129_-	MFS transporter	NA	NA	NA	NA
WP_001211395.1\|252641_253931_+	acetyl-CoA hydrolase/transferase family protein	NA	NA	NA	NA
WP_001049248.1\|254259_254718_+	hypothetical protein	NA	NA	NA	NA
WP_001221442.1\|254730_257130_+\|protease	cysteine protease	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_004342

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. NC_004343

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection