assembly_id	genome_id	genome_def	crispr_array_locus_merge	crispr_array_location_merge	crispr_locus_id	crispr_pred_method	array_in_prot	prot_within_array_20000	prot_in_genome	crispr_type_by_cas_prot	consensus_repeat	repeat_length	self-targeting_spacer_number	self-targeting_target_number	spacer_location	protospacer_location	repeat_type	spacer_locus_num	spacer_num	correct_crispr_type	genome_cas_prots	unknown_protein_around_crispr	L10	L10_domain	L9	L9_domain	L8	L8_domain	L7	L7_domain	L6	L6_domain	L5	L5_domain	L4	L4_domain	L3	L3_domain	L2	L2_domain	L1	L1_domain	R1	R1_domain	R2	R2_domain	R3	R3_domain	R4	R4_domain	R5	R5_domain	R6	R6_domain	R7	R7_domain	R8	R8_domain	R9	R9_domain	R10	R10_domain
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	1	17863-17952	1	CRISPRCasFinder	no		cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	TGTGCGTTAGCACTTTAAGCAACAGAAT	28	1	7	17891-17924|17891-17924|17891-17924|17891-17924|17891-17924|17891-17924|17891-17924	CP012309.1_12436-12469|CP012309.1_32125-32158|CP012309.1_131190-131223|CP012309.1_148750-148783|CP012309.1_1112512-1112545|CP012309.1_3934487-3934454|CP012309.1_4074849-4074816	NA	1	1	Orphan	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|87aa|up_3|CP012309.1_8856_9117_+,NA|74aa|down_7|CP012309.1_28542_28764_+,NA|138aa|down_9|CP012309.1_39397_39811_+	NA|369aa|up_9|CP012309.1_1561_2668_+	PRK05643, PRK05643, DNA polymerase III subunit beta; Validated	NA|69aa|up_8|CP012309.1_2804_3011_+	pfam13275, S4_2, S4 domain	NA|372aa|up_7|CP012309.1_3028_4144_+	PRK00064, recF, recombination protein F; Reviewed	NA|634aa|up_6|CP012309.1_4144_6046_+	PRK05644, gyrB, DNA gyrase subunit B; Validated	NA|809aa|up_5|CP012309.1_6065_8492_+	PRK05560, PRK05560, DNA gyrase subunit A; Validated	NA|99aa|up_4|CP012309.1_8560_8857_+	pfam12732, YtxH, YtxH-like protein	NA|87aa|up_3|CP012309.1_8856_9117_+	NA	NA|106aa|up_2|CP012309.1_9128_9446_+	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	NA|136aa|up_1|CP012309.1_9449_9857_+	PRK04069, PRK04069, serine-protein kinase RsbW; Provisional	NA|258aa|up_0|CP012309.1_9856_10630_+	TIGR02980, SigBFG, RNA polymerase sigma-70 factor, sigma-B/F/G subfamily	NA|170aa|down_0|CP012309.1_21364_21874_+	COG1827, COG1827, Predicted small molecule binding protein (contains 3H domain) [General function prediction only]	NA|294aa|down_1|CP012309.1_21885_22767_+	PRK10334, PRK10334, small-conductance mechanosensitive channel MscS	NA|424aa|down_2|CP012309.1_23225_24497_+	PRK05431, PRK05431, seryl-tRNA synthetase; Provisional	NA|152aa|down_3|CP012309.1_24817_25273_+	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|546aa|down_4|CP012309.1_25743_27381_+	PRK05563, PRK05563, DNA polymerase III subunits gamma and tau; Validated	NA|117aa|down_5|CP012309.1_27439_27790_+	PRK00153, PRK00153, YbaB/EbfC family nucleoid-associated protein	NA|200aa|down_6|CP012309.1_27802_28402_+	PRK00076, recR, recombination protein RecR; Reviewed	NA|74aa|down_7|CP012309.1_28542_28764_+	NA	NA|402aa|down_8|CP012309.1_28834_30040_-	cd17507, GT28_Beta-DGS-like, beta-diglucosyldiacylglycerol synthase and similar proteins	NA|138aa|down_9|CP012309.1_39397_39811_+	NA
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	2	138113-138199	2	CRISPRCasFinder	no		cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTAGCACTTTAAGCAACAGAATAA	25	1	7	138138-138174|138138-138174|138138-138174|138138-138174|138138-138174|138138-138174|138138-138174	CP012309.1_12438-12474|CP012309.1_32127-32163|CP012309.1_131192-131228|CP012309.1_148752-148788|CP012309.1_1112514-1112550|CP012309.1_3934485-3934449|CP012309.1_4074847-4074811	NA	1	1	Orphan	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|226aa|down_7|CP012309.1_163674_164352_+	NA|208aa|up_9|CP012309.1_121603_122227_+	PRK05327, rpsD, 30S ribosomal protein S4; Validated	NA|316aa|up_8|CP012309.1_122304_123252_+	PRK05182, PRK05182, DNA-directed RNA polymerase subunit alpha; Provisional	NA|114aa|up_7|CP012309.1_123272_123614_+	PRK05591, rplQ, 50S ribosomal protein L17; Validated	NA|278aa|up_6|CP012309.1_123733_124567_+	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase	NA|289aa|up_5|CP012309.1_124554_125421_+	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|268aa|up_4|CP012309.1_125414_126218_+	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|244aa|up_3|CP012309.1_126249_126981_+	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|144aa|up_2|CP012309.1_127100_127532_+	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|131aa|up_1|CP012309.1_127560_127953_+	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|251aa|up_0|CP012309.1_128411_129164_+	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|395aa|down_0|CP012309.1_141759_142944_-	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|784aa|down_1|CP012309.1_143316_145668_+	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|180aa|down_2|CP012309.1_145689_146229_+	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|280aa|down_3|CP012309.1_159360_160200_+	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|394aa|down_4|CP012309.1_160196_161378_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|301aa|down_5|CP012309.1_161681_162584_+	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|360aa|down_6|CP012309.1_162605_163685_+	PRK03011, PRK03011, butyrate kinase; Provisional	NA|226aa|down_7|CP012309.1_163674_164352_+	NA	NA|72aa|down_8|CP012309.1_164394_164610_+	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|360aa|down_9|CP012309.1_164638_165718_+	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	3	146710-146788	3	CRISPRCasFinder	no		cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	TGTTTATAATGTGGATAATATTTAA	25	0	0	NA	NA	NA	1	1	Orphan	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|226aa|down_4|CP012309.1_163674_164352_+	NA|278aa|up_9|CP012309.1_123733_124567_+	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase	NA|289aa|up_8|CP012309.1_124554_125421_+	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|268aa|up_7|CP012309.1_125414_126218_+	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|244aa|up_6|CP012309.1_126249_126981_+	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|144aa|up_5|CP012309.1_127100_127532_+	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|131aa|up_4|CP012309.1_127560_127953_+	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|251aa|up_3|CP012309.1_128411_129164_+	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|395aa|up_2|CP012309.1_141759_142944_-	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|784aa|up_1|CP012309.1_143316_145668_+	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|180aa|up_0|CP012309.1_145689_146229_+	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|280aa|down_0|CP012309.1_159360_160200_+	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|394aa|down_1|CP012309.1_160196_161378_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|301aa|down_2|CP012309.1_161681_162584_+	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|360aa|down_3|CP012309.1_162605_163685_+	PRK03011, PRK03011, butyrate kinase; Provisional	NA|226aa|down_4|CP012309.1_163674_164352_+	NA	NA|72aa|down_5|CP012309.1_164394_164610_+	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|360aa|down_6|CP012309.1_164638_165718_+	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated	NA|251aa|down_7|CP012309.1_165717_166470_+	cd03375, TPP_OGFOR, Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor	NA|186aa|down_8|CP012309.1_166470_167028_+	pfam01558, POR, Pyruvate ferredoxin/flavodoxin oxidoreductase	NA|449aa|down_9|CP012309.1_167197_168544_+	PRK14316, glmM, phosphoglucosamine mutase; Provisional
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	4	154239-154323	4	CRISPRCasFinder	no		cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	TGTGTGTTAGCACTTTAAGCAAC	23	1	5	154262-154300|154262-154300|154262-154300|154262-154300|154262-154300	CP012309.1_12431-12469|CP012309.1_131185-131223|CP012309.1_148745-148783|CP012309.1_3934492-3934454|CP012309.1_4074854-4074816	NA	1	1	Orphan	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|226aa|down_4|CP012309.1_163674_164352_+	NA|278aa|up_9|CP012309.1_123733_124567_+	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase	NA|289aa|up_8|CP012309.1_124554_125421_+	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|268aa|up_7|CP012309.1_125414_126218_+	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|244aa|up_6|CP012309.1_126249_126981_+	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|144aa|up_5|CP012309.1_127100_127532_+	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|131aa|up_4|CP012309.1_127560_127953_+	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|251aa|up_3|CP012309.1_128411_129164_+	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|395aa|up_2|CP012309.1_141759_142944_-	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|784aa|up_1|CP012309.1_143316_145668_+	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|180aa|up_0|CP012309.1_145689_146229_+	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|280aa|down_0|CP012309.1_159360_160200_+	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|394aa|down_1|CP012309.1_160196_161378_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|301aa|down_2|CP012309.1_161681_162584_+	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|360aa|down_3|CP012309.1_162605_163685_+	PRK03011, PRK03011, butyrate kinase; Provisional	NA|226aa|down_4|CP012309.1_163674_164352_+	NA	NA|72aa|down_5|CP012309.1_164394_164610_+	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|360aa|down_6|CP012309.1_164638_165718_+	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated	NA|251aa|down_7|CP012309.1_165717_166470_+	cd03375, TPP_OGFOR, Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor	NA|186aa|down_8|CP012309.1_166470_167028_+	pfam01558, POR, Pyruvate ferredoxin/flavodoxin oxidoreductase	NA|449aa|down_9|CP012309.1_167197_168544_+	PRK14316, glmM, phosphoglucosamine mutase; Provisional
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	5	572206-572530	1	CRT	no	WYL	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	GATAATAAGTGNAATTGATATAG	23	0	0	NA	NA	NA	6	6	Orphan	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|53aa|up_8|CP012309.1_559453_559612_-,NA|157aa|up_1|CP012309.1_570379_570850_-,NA	NA|235aa|up_9|CP012309.1_558462_559167_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|53aa|up_8|CP012309.1_559453_559612_-	NA	NA|1033aa|up_7|CP012309.1_560336_563435_+	cd01948, EAL, EAL domain	NA|429aa|up_6|CP012309.1_563557_564844_+	pfam08220, HTH_DeoR, DeoR-like helix-turn-helix domain	NA|369aa|up_5|CP012309.1_565054_566161_-	cd05683, M20_peptT_like, M20 Peptidase T like enzymes specifically cleave tripeptides	NA|514aa|up_4|CP012309.1_566195_567737_-	COG2978, AbgT, Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]	NA|249aa|up_3|CP012309.1_568098_568845_-	cd07721, yflN-like_MBL-fold, uncharacterized subgroup which includes Bacillus subtilis yflN; MBL-fold metallo hydrolase domain	NA|437aa|up_2|CP012309.1_569056_570367_-	cd09849, M20_Acy1L2-like, M20 Peptidase aminoacylase 1-like protein 2, amidohydrolase family	NA|157aa|up_1|CP012309.1_570379_570850_-	NA	NA|284aa|up_0|CP012309.1_570853_571705_-	pfam11299, DUF3100, Protein of unknown function (DUF3100)	WYL|304aa|down_0|CP012309.1_572655_573567_+	COG2378, COG2378, Predicted transcriptional regulator [Transcription]	NA|166aa|down_1|CP012309.1_573741_574239_+	pfam14526, Cass2, Integron-associated effector binding protein	NA|121aa|down_2|CP012309.1_574981_575344_+	cd17542, REC_CheY, phosphoacceptor receiver (REC) domain of chemotaxis protein CheY	NA|174aa|down_3|CP012309.1_575504_576026_+	cd17909, CheC_ClassI, chemotaxis protein CheC, Class I	NA|162aa|down_4|CP012309.1_576022_576508_+	cd16352, CheD, chemotaxis protein CheD stimulates methylation of methyl-accepting chemotaxis proteins	NA|173aa|down_5|CP012309.1_576550_577069_+	COG0835, CheW, Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]	NA|320aa|down_6|CP012309.1_577204_578164_+	COG3706, PleD, Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]	NA|568aa|down_7|CP012309.1_578189_579893_+	smart00283, MA, Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer)	NA|711aa|down_8|CP012309.1_580123_582256_+	COG0643, CheA, Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]	NA|147aa|down_9|CP012309.1_582268_582709_+	cd00732, CheW, CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	6	1112547-1112635	5	CRISPRCasFinder	no		cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTGCGTTAGCACTTTAAGTAACGGAAT	27	1	4	1112574-1112608|1112574-1112608|1112574-1112608|1112574-1112608	CP012309.1_131252-131286|CP012309.1_3091909-3091875|CP012309.1_138198-138232|CP012309.1_148812-148846	NA	1	1	Orphan	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|638aa|down_2|CP012309.1_1121018_1122932_+	NA|279aa|up_9|CP012309.1_1098485_1099322_+	COG1176, PotB, ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]	NA|243aa|up_8|CP012309.1_1099372_1100101_+	COG1177, PotC, ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]	NA|351aa|up_7|CP012309.1_1100100_1101153_+	cd13590, PBP2_PotD_PotF_like, The periplasmic-binding component of ABC transporters involved in uptake of polyamines; possess the type 2 periplasmic binding fold	NA|283aa|up_6|CP012309.1_1101382_1102231_+	COG2199, COG2199, c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal    transduction mechanisms]	NA|555aa|up_5|CP012309.1_1102220_1103885_+	cd10923, CE4_COG5298, Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria	NA|419aa|up_4|CP012309.1_1103933_1105190_+	cd06423, CESA_like, CESA_like is  the cellulose synthase superfamily	NA|694aa|up_3|CP012309.1_1105212_1107294_+	pfam03170, BcsB, Bacterial cellulose synthase subunit	NA|358aa|up_2|CP012309.1_1107342_1108416_+	cd19608, GH113_mannanase-like, Glycoside hydrolase family 113 beta-1,4-mannanase and similar proteins	NA|375aa|up_1|CP012309.1_1108469_1109594_+	COG0381, WecB, UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]	NA|325aa|up_0|CP012309.1_1109671_1110646_+	COG1705, FlgJ, Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]	NA|673aa|down_0|CP012309.1_1116241_1118260_+	cd02696, MurNAc-LAA, N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3	NA|671aa|down_1|CP012309.1_1118764_1120777_+	pfam01520, Amidase_3, N-acetylmuramoyl-L-alanine amidase	NA|638aa|down_2|CP012309.1_1121018_1122932_+	NA	NA|740aa|down_3|CP012309.1_1122924_1125144_+	COG0210, UvrD, Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]	NA|277aa|down_4|CP012309.1_1125252_1126083_+	pfam12705, PDDEXK_1, PD-(D/E)XK nuclease superfamily	NA|1156aa|down_5|CP012309.1_1126072_1129540_+	TIGR02773, ATP-dependent_helicase/deoxyribonuclease_subunit_B, helicase-exonuclease AddAB, AddB subunit	NA|1276aa|down_6|CP012309.1_1129539_1133367_+	TIGR02785, ATP-dependent_helicase/nuclease_subunit_A, helicase-exonuclease AddAB, AddA subunit, Firmicutes type	NA|404aa|down_7|CP012309.1_1133412_1134624_+	TIGR00619, Nuclease_SbcCD_subunit_D, exonuclease SbcD	NA|1176aa|down_8|CP012309.1_1134610_1138138_+	TIGR00618, Nuclease_SbcCD_subunit_C, exonuclease SbcC	NA|418aa|down_9|CP012309.1_1138268_1139522_+	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	7	1311260-1312010	1,6,2	PILER-CR,CRISPRCasFinder,CRT	no		cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTATATTAACTAAGTGGTATGTAAAG,GTTTTATATTAACTAAGTGGTATGTAAAG,GTTTTATATTAACTAAGTGGTATGTAAAG	29,29,29	0	0	NA	NA	I-A:I-A:I-A	11,11,11	11	Orphan	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|52aa|down_1|CP012309.1_1313199_1313355_+,NA|84aa|down_2|CP012309.1_1313600_1313852_+,NA|38aa|down_3|CP012309.1_1314172_1314286_+,NA|128aa|down_4|CP012309.1_1315071_1315455_-,NA|115aa|down_5|CP012309.1_1315581_1315926_+,NA|106aa|down_6|CP012309.1_1317309_1317627_-,NA|190aa|down_7|CP012309.1_1317940_1318510_-	NA|271aa|up_9|CP012309.1_1298369_1299182_+	cd09009, PNP-EcPNPII_like, purine nucleoside phosphorylases similar to human PNP and Escherichia coli PNP-II (XapA)	NA|442aa|up_8|CP012309.1_1299385_1300711_+	TIGR02644, Thymidine_phosphorylase, pyrimidine-nucleoside phosphorylase	NA|360aa|up_7|CP012309.1_1300923_1302003_+	pfam02618, YceG, YceG-like family	NA|225aa|up_6|CP012309.1_1302174_1302849_+	COG4122, COG4122, Predicted O-methyltransferase [General function prediction only]	NA|416aa|up_5|CP012309.1_1302835_1304083_+	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|555aa|up_4|CP012309.1_1304154_1305819_+	COG0768, FtsI, Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]	NA|95aa|up_3|CP012309.1_1305915_1306200_-	PRK05803, PRK05803, RNA polymerase sporulation sigma factor SigK	NA|506aa|up_2|CP012309.1_1306222_1307740_-	cd00338, Ser_Recombinase, Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain	NA|274aa|up_1|CP012309.1_1307864_1308686_-	sd00006, TPR, Tetratricopeptide repeat	NA|476aa|up_0|CP012309.1_1308876_1310304_+	NF033435, S-layer_Clost, S-layer protein SlpA	NA|75aa|down_0|CP012309.1_1312296_1312521_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|52aa|down_1|CP012309.1_1313199_1313355_+	NA	NA|84aa|down_2|CP012309.1_1313600_1313852_+	NA	NA|38aa|down_3|CP012309.1_1314172_1314286_+	NA	NA|128aa|down_4|CP012309.1_1315071_1315455_-	NA	NA|115aa|down_5|CP012309.1_1315581_1315926_+	NA	NA|106aa|down_6|CP012309.1_1317309_1317627_-	NA	NA|190aa|down_7|CP012309.1_1317940_1318510_-	NA	NA|48aa|down_8|CP012309.1_1318952_1319096_+	pfam03965, Penicillinase_R, Penicillinase repressor	NA|170aa|down_9|CP012309.1_1319661_1320171_+	pfam04892, VanZ, VanZ like family
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	8	1523898-1526179	2,7,3	PILER-CR,CRISPRCasFinder,CRT	no	DinG	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Type IV-A	GTTTTATATTAACTAAGTGGTATGTAAAT,GTTTTATATTAACTAAGTGGTATGTAAAT,GTTTTATATTAACTAAGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	33,34,33	34	Orphan	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|183aa|up_5|CP012309.1_1516910_1517459_-,NA|82aa|up_0|CP012309.1_1522393_1522639_-,NA|80aa|down_4|CP012309.1_1533325_1533565_+,NA|59aa|down_5|CP012309.1_1533735_1533912_-,NA|45aa|down_9|CP012309.1_1536538_1536673_+	NA|195aa|up_9|CP012309.1_1512114_1512699_-	pfam00882, Zn_dep_PLPC, Zinc dependent phospholipase C	NA|477aa|up_8|CP012309.1_1512898_1514329_-	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|315aa|up_7|CP012309.1_1514646_1515591_+	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter	NA|312aa|up_6|CP012309.1_1515855_1516791_-	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only]	NA|183aa|up_5|CP012309.1_1516910_1517459_-	NA	NA|143aa|up_4|CP012309.1_1517610_1518039_+	pfam04657, DMT_YdcZ, Putative inner membrane exporter, YdcZ	NA|217aa|up_3|CP012309.1_1518123_1518774_+	cd01994, Alpha_ANH_like_IV, This is a subfamily of Adenine nucleotide alpha hydrolases superfamily	NA|452aa|up_2|CP012309.1_1518891_1520247_-	cd13143, MATE_MepA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA	NA|132aa|up_1|CP012309.1_1520949_1521345_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|82aa|up_0|CP012309.1_1522393_1522639_-	NA	NA|578aa|down_0|CP012309.1_1526504_1528238_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|282aa|down_1|CP012309.1_1528477_1529323_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|745aa|down_2|CP012309.1_1529353_1531588_-	cd01948, EAL, EAL domain	NA|270aa|down_3|CP012309.1_1532371_1533181_+	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators	NA|80aa|down_4|CP012309.1_1533325_1533565_+	NA	NA|59aa|down_5|CP012309.1_1533735_1533912_-	NA	NA|225aa|down_6|CP012309.1_1534416_1535091_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|185aa|down_7|CP012309.1_1535310_1535865_-	cd01014, nicotinamidase_related, Nicotinamidase_ related amidohydrolases	NA|122aa|down_8|CP012309.1_1535942_1536308_-	COG1733, COG1733, Predicted transcriptional regulators [Transcription]	NA|45aa|down_9|CP012309.1_1536538_1536673_+	NA
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	9	1637482-1638629	8,4	CRISPRCasFinder,CRT	no	cas14j	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	GTTTTATATTAACTATATGGAATGTAAAT,GTTTTATATTAACTATATGGAATGTAAAT	29,29	0	0	NA	NA	I-A:I-A	17,17	17	TypeV	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|190aa|up_7|CP012309.1_1627372_1627942_+,NA|61aa|up_4|CP012309.1_1630891_1631074_-,NA|133aa|down_0|CP012309.1_1638786_1639185_-,NA|323aa|down_5|CP012309.1_1643542_1644511_+	NA|195aa|up_9|CP012309.1_1625731_1626316_+	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|300aa|up_8|CP012309.1_1626468_1627368_+	TIGR02163, Ferredoxin-type_protein_NapH_homolog, ferredoxin-type protein, NapH/MauN family	NA|190aa|up_7|CP012309.1_1627372_1627942_+	NA	NA|216aa|up_6|CP012309.1_1628108_1628756_-	pfam02589, LUD_dom, LUD domain	NA|305aa|up_5|CP012309.1_1629145_1630060_-	pfam11155, DUF2935, Domain of unknown function (DUF2935)	NA|61aa|up_4|CP012309.1_1630891_1631074_-	NA	NA|283aa|up_3|CP012309.1_1631484_1632333_-	PRK00380, panC, pantoate--beta-alanine ligase; Reviewed	NA|276aa|up_2|CP012309.1_1632351_1633179_-	PRK00311, panB, 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed	NA|299aa|up_1|CP012309.1_1633153_1634050_-	pfam10728, DUF2520, Domain of unknown function (DUF2520)	NA|698aa|up_0|CP012309.1_1634729_1636823_+	cd01948, EAL, EAL domain	NA|133aa|down_0|CP012309.1_1638786_1639185_-	NA	NA|273aa|down_1|CP012309.1_1639278_1640097_+	cd04782, HTH_BltR, Helix-Turn-Helix DNA binding domain of the BltR transcription regulator	NA|707aa|down_2|CP012309.1_1640229_1642350_-	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]	NA|76aa|down_3|CP012309.1_1642375_1642603_-	pfam04023, FeoA, FeoA domain	NA|147aa|down_4|CP012309.1_1642929_1643370_-	COG2153, ElaA, Predicted acyltransferase [General function prediction only]	NA|323aa|down_5|CP012309.1_1643542_1644511_+	NA	NA|403aa|down_6|CP012309.1_1644987_1646196_+	PRK13354, PRK13354, tyrosyl-tRNA synthetase; Provisional	NA|294aa|down_7|CP012309.1_1646256_1647138_-	cd10944, CE4_SmPgdA_like, Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins	NA|305aa|down_8|CP012309.1_1647553_1648468_+	COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]	NA|182aa|down_9|CP012309.1_1648690_1649236_+	cd01046, Rubrerythrin_like, rubrerythrin-like, diiron-binding domain
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	10	1726531-1726691	9	CRISPRCasFinder	no		cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTAGATTAACTATATGGAATGTAAAT	29	0	0	NA	NA	I-A	2	2	Orphan	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|134aa|up_8|CP012309.1_1721213_1721615_+,NA|116aa|up_7|CP012309.1_1721608_1721956_+,NA|146aa|up_5|CP012309.1_1722373_1722811_+,NA|62aa|up_4|CP012309.1_1722794_1722980_+,NA|35aa|up_0|CP012309.1_1726133_1726238_+,NA|294aa|down_0|CP012309.1_1726817_1727699_+	NA|78aa|up_9|CP012309.1_1720970_1721204_+	TIGR03752, conj_TIGR03752, integrating conjugative element protein, PFL_4705 family	NA|134aa|up_8|CP012309.1_1721213_1721615_+	NA	NA|116aa|up_7|CP012309.1_1721608_1721956_+	NA	NA|142aa|up_6|CP012309.1_1721955_1722381_+	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component	NA|146aa|up_5|CP012309.1_1722373_1722811_+	NA	NA|62aa|up_4|CP012309.1_1722794_1722980_+	NA	NA|437aa|up_3|CP012309.1_1722981_1724292_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_2|CP012309.1_1724308_1724779_+	pfam09393, DUF2001, Phage tail tube protein	NA|147aa|up_1|CP012309.1_1724850_1725291_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|35aa|up_0|CP012309.1_1726133_1726238_+	NA	NA|294aa|down_0|CP012309.1_1726817_1727699_+	NA	NA|797aa|down_1|CP012309.1_1727722_1730113_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|230aa|down_2|CP012309.1_1730124_1730814_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|655aa|down_3|CP012309.1_1730806_1732771_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_4|CP012309.1_1732784_1733045_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_5|CP012309.1_1733049_1733469_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|350aa|down_6|CP012309.1_1733469_1734519_+	pfam04865, Baseplate_J, Baseplate J-like protein	NA|206aa|down_7|CP012309.1_1734511_1735129_+	pfam10076, DUF2313, Uncharacterized protein conserved in bacteria (DUF2313)	NA|342aa|down_8|CP012309.1_1735140_1736166_+	pfam12571, DUF3751, Phage tail-collar fibre protein	NA|528aa|down_9|CP012309.1_1736180_1737764_+	pfam12810, Gly_rich, Glycine rich protein
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	11	1875709-1876591	3,10,5	PILER-CR,CRISPRCasFinder,CRT	no		cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTATATTAACTATGTGGTATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	13,13,13	13	Orphan	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|96aa|down_0|CP012309.1_1876999_1877287_+,NA|33aa|down_1|CP012309.1_1877311_1877410_+,NA|59aa|down_6|CP012309.1_1883677_1883854_-,NA|341aa|down_7|CP012309.1_1884428_1885451_+,NA|258aa|down_9|CP012309.1_1886357_1887131_+	NA|200aa|up_9|CP012309.1_1859228_1859828_-	COG4110, COG4110, Uncharacterized protein involved in stress response [General function prediction only]	NA|266aa|up_8|CP012309.1_1859930_1860728_-	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|329aa|up_7|CP012309.1_1861037_1862024_-	TIGR00545, Probable_lipoate-protein_ligase_A, lipoyltransferase and lipoate-protein ligase	NA|577aa|up_6|CP012309.1_1862507_1864238_+	COG1757, NhaC, Na+/H+ antiporter [Energy production and conversion]	NA|172aa|up_5|CP012309.1_1864762_1865278_+	pfam13787, HXXEE, Protein of unknown function with HXXEE motif	NA|825aa|up_4|CP012309.1_1866083_1868558_+	PRK00451, PRK00451, aminomethyl-transferring glycine dehydrogenase subunit GcvPA	NA|486aa|up_3|CP012309.1_1868557_1870015_+	PRK04366, PRK04366, aminomethyl-transferring glycine dehydrogenase subunit GcvPB	NA|786aa|up_2|CP012309.1_1870437_1872795_+	cd02609, P-type_ATPase, uncharacterized subfamily of P-type ATPase transporter, similar to uncharacterized Streptococcus pneumoniae exported protein 7, Exp7	NA|106aa|up_1|CP012309.1_1872880_1873198_-	pfam06865, DUF1255, Protein of unknown function (DUF1255)	NA|424aa|up_0|CP012309.1_1873781_1875053_-	cd01303, GDEase, Guanine deaminase (GDEase)	NA|96aa|down_0|CP012309.1_1876999_1877287_+	NA	NA|33aa|down_1|CP012309.1_1877311_1877410_+	NA	NA|184aa|down_2|CP012309.1_1877825_1878377_-	cd02209, cupin_XRE_C, XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain	NA|321aa|down_3|CP012309.1_1878567_1879530_+	cd01561, CBS_like, CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase	NA|615aa|down_4|CP012309.1_1879824_1881669_+	cd08579, GDPD_memb_like, Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases	NA|195aa|down_5|CP012309.1_1881990_1882575_+	cd03357, LbH_MAT_GAT, Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates	NA|59aa|down_6|CP012309.1_1883677_1883854_-	NA	NA|341aa|down_7|CP012309.1_1884428_1885451_+	NA	NA|296aa|down_8|CP012309.1_1885464_1886352_+	cd03264, ABC_drug_resistance_like, ABC-type multidrug transport system, ATPase component	NA|258aa|down_9|CP012309.1_1886357_1887131_+	NA
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	12	2189084-2189375	11,6,4	CRISPRCasFinder,CRT,PILER-CR	no	csa3	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Type I-A	CTTTACATACCACATAGTTGATATAAAAC,CTTTACATACCACATAGTTGATATAAAAC,GTTTTATATCAACTATGTGGTATGTAAAG	29,29,29	0	0	NA	NA	I-A:I-A:I-A	4,4,4	4	Orphan	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|55aa|up_6|CP012309.1_2183891_2184056_+,NA|133aa|up_4|CP012309.1_2185587_2185986_-,NA|59aa|up_1|CP012309.1_2188117_2188294_+,NA|55aa|down_1|CP012309.1_2190923_2191088_-,NA|45aa|down_5|CP012309.1_2193742_2193877_-	NA|113aa|up_9|CP012309.1_2179493_2179832_+	pfam12650, DUF3784, Domain of unknown function (DUF3784)	NA|479aa|up_8|CP012309.1_2180238_2181675_-	PRK14328, PRK14328, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	NA|479aa|up_7|CP012309.1_2181922_2183359_-	NF033435, S-layer_Clost, S-layer protein SlpA	NA|55aa|up_6|CP012309.1_2183891_2184056_+	NA	NA|184aa|up_5|CP012309.1_2184186_2184738_-	pfam17099, TrpP, Tryptophan transporter TrpP	NA|133aa|up_4|CP012309.1_2185587_2185986_-	NA	NA|162aa|up_3|CP012309.1_2186341_2186827_-	pfam08239, SH3_3, Bacterial SH3 domain	NA|61aa|up_2|CP012309.1_2187557_2187740_-	pfam03965, Penicillinase_R, Penicillinase repressor	NA|59aa|up_1|CP012309.1_2188117_2188294_+	NA	NA|67aa|up_0|CP012309.1_2188519_2188720_+	COG1278, CspC, Cold shock proteins [Transcription]	NA|282aa|down_0|CP012309.1_2189854_2190700_+	pfam13026, DUF3887, Protein of unknown function (DUF3887)	NA|55aa|down_1|CP012309.1_2190923_2191088_-	NA	NA|111aa|down_2|CP012309.1_2191628_2191961_-	pfam02627, CMD, Carboxymuconolactone decarboxylase family	NA|214aa|down_3|CP012309.1_2192204_2192846_-	COG5658, COG5658, Predicted integral membrane protein [Function unknown]	csa3|99aa|down_4|CP012309.1_2192826_2193123_-	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|45aa|down_5|CP012309.1_2193742_2193877_-	NA	NA|251aa|down_6|CP012309.1_2194087_2194840_-	PRK10621, PRK10621, hypothetical protein; Provisional	NA|552aa|down_7|CP012309.1_2194898_2196554_-	COG4753, COG4753, Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]	NA|360aa|down_8|CP012309.1_2197826_2198906_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|219aa|down_9|CP012309.1_2198989_2199646_-	COG1309, AcrR, Transcriptional regulator [Transcription]
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	13	2240400-2242001	7,5,12	CRT,PILER-CR,CRISPRCasFinder	no		cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	ATTTACATTCCATATAGTTAATATAAAAC,GTTTTATATTAACTATATGGAATGTAAAT,ATTTACATTCCATATAGTTAATATAAAAC	29,29,29	0	0	NA	NA	I-A:I-A:I-A	24,23,23	24	Orphan	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|95aa|up_0|CP012309.1_2240005_2240290_-,NA|206aa|down_7|CP012309.1_2250620_2251238_-,NA|567aa|down_8|CP012309.1_2251407_2253108_-,NA|188aa|down_9|CP012309.1_2253504_2254068_-	NA|287aa|up_9|CP012309.1_2230244_2231105_-	cd04250, AAK_NAGK-C, AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the non-acetylated, cyclic route of ornithine biosynthesis	NA|406aa|up_8|CP012309.1_2231119_2232337_-	cd02152, OAT, Ornithine acetyltransferase (OAT) family; also referred to as ArgJ	NA|345aa|up_7|CP012309.1_2232377_2233412_-	PRK00436, argC, N-acetyl-gamma-glutamyl-phosphate reductase; Validated	NA|256aa|up_6|CP012309.1_2234096_2234864_-	pfam14268, YoaP, YoaP-like	NA|158aa|up_5|CP012309.1_2235163_2235637_+	pfam13673, Acetyltransf_10, Acetyltransferase (GNAT) domain	NA|186aa|up_4|CP012309.1_2236005_2236563_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|233aa|up_3|CP012309.1_2236820_2237519_+	TIGR03502, lipase_Pla1_cef, extracellular lipase, Pla-1/cef family	NA|156aa|up_2|CP012309.1_2238541_2239009_+	pfam11188, DUF2975, Protein of unknown function (DUF2975)	NA|72aa|up_1|CP012309.1_2239019_2239235_+	COG3655, COG3655, Predicted transcriptional regulator [Transcription]	NA|95aa|up_0|CP012309.1_2240005_2240290_-	NA	NA|291aa|down_0|CP012309.1_2242831_2243704_-	COG1737, RpiR, Transcriptional regulators [Transcription]	NA|193aa|down_1|CP012309.1_2244097_2244676_-	pfam06962, rRNA_methylase, Putative rRNA methylase	NA|239aa|down_2|CP012309.1_2244733_2245450_-	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|362aa|down_3|CP012309.1_2245640_2246726_+	COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]	NA|220aa|down_4|CP012309.1_2246880_2247540_-	pfam03154, Atrophin-1, Atrophin-1 family	NA|431aa|down_5|CP012309.1_2247756_2249049_-	cd06828, PLPDE_III_DapDC, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase	NA|398aa|down_6|CP012309.1_2249066_2250260_-	PRK06635, PRK06635, aspartate kinase; Reviewed	NA|206aa|down_7|CP012309.1_2250620_2251238_-	NA	NA|567aa|down_8|CP012309.1_2251407_2253108_-	NA	NA|188aa|down_9|CP012309.1_2253504_2254068_-	NA
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	14	2600653-2601339	13,8,6	CRISPRCasFinder,CRT,PILER-CR	no	c2c9_V-U4	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Type V-U4	ATTTACATTCCATATAGTTAATCTAAAAC,ATTTACATTCCATATAGTTAATCTAAAAC,GTTTTAGATTAACTATATGGAATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	10,10,9	10	TypeV-U4	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|138aa|up_7|CP012309.1_2595365_2595779_+,NA|67aa|up_6|CP012309.1_2595797_2595998_+,NA|155aa|up_4|CP012309.1_2598368_2598833_+,NA|54aa|up_3|CP012309.1_2599161_2599323_-,NA|151aa|up_2|CP012309.1_2599374_2599827_-,NA|51aa|up_0|CP012309.1_2600309_2600462_-,NA|51aa|down_1|CP012309.1_2602713_2602866_-,NA|111aa|down_2|CP012309.1_2603139_2603472_-,NA|90aa|down_3|CP012309.1_2603498_2603768_-	NA|53aa|up_9|CP012309.1_2594771_2594930_-	pfam03965, Penicillinase_R, Penicillinase repressor	NA|78aa|up_8|CP012309.1_2595148_2595382_+	COG1476, COG1476, Predicted transcriptional regulators [Transcription]	NA|138aa|up_7|CP012309.1_2595365_2595779_+	NA	NA|67aa|up_6|CP012309.1_2595797_2595998_+	NA	NA|552aa|up_5|CP012309.1_2596247_2597903_-	cd09302, Jacalin_like, Jacalin-like lectin domain	NA|155aa|up_4|CP012309.1_2598368_2598833_+	NA	NA|54aa|up_3|CP012309.1_2599161_2599323_-	NA	NA|151aa|up_2|CP012309.1_2599374_2599827_-	NA	NA|122aa|up_1|CP012309.1_2599823_2600189_-	smart01040, Bro-N, BRO family, N-terminal domain	NA|51aa|up_0|CP012309.1_2600309_2600462_-	NA	NA|305aa|down_0|CP012309.1_2601605_2602520_-	pfam09851, SHOCT, Short C-terminal domain	NA|51aa|down_1|CP012309.1_2602713_2602866_-	NA	NA|111aa|down_2|CP012309.1_2603139_2603472_-	NA	NA|90aa|down_3|CP012309.1_2603498_2603768_-	NA	c2c9_V-U4|144aa|down_4|CP012309.1_2603901_2604333_-	pfam07282, OrfB_Zn_ribbon, Putative transposase DNA-binding domain	NA|64aa|down_5|CP012309.1_2605031_2605223_-	pfam03965, Penicillinase_R, Penicillinase repressor	NA|126aa|down_6|CP012309.1_2605327_2605705_-	pfam03965, Penicillinase_R, Penicillinase repressor	NA|165aa|down_7|CP012309.1_2606509_2607004_+	TIGR01710, Type_II_secretion_system_protein_G, type II secretion system protein G	NA|78aa|down_8|CP012309.1_2607995_2608229_-	COG2963, COG2963, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|117aa|down_9|CP012309.1_2608390_2608741_+	pfam12676, DUF3796, Protein of unknown function (DUF3796)
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	15	2765900-2766057	7	PILER-CR	no	cas3,cas5,cas7,cas6	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	AGGTTTAAGATTAACTAAGTGGATTTCA	28	0	0	NA	NA	NA	2	2	Unclear	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|492aa|down_3|CP012309.1_2770479_2771955_-	NA|448aa|up_9|CP012309.1_2758356_2759700_-	pfam06898, YqfD, Putative stage IV sporulation protein YqfD	NA|79aa|up_8|CP012309.1_2759712_2759949_-	pfam07873, YabP, YabP family	NA|188aa|up_7|CP012309.1_2760161_2760725_-	cd00552, RaiA, RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY,  is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site	NA|166aa|up_6|CP012309.1_2760917_2761415_-	cd15904, TSPO_MBR, Translocator protein (TSPO)/peripheral-type benzodiazepine receptor (MBR) family	NA|148aa|up_5|CP012309.1_2761525_2761969_-	pfam09424, YqeY, Yqey-like protein	NA|60aa|up_4|CP012309.1_2761998_2762178_-	PRK00270, rpsU, 30S ribosomal protein S21; Reviewed	NA|117aa|up_3|CP012309.1_2762340_2762691_-	cd01276, PKCI_related, Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides	NA|433aa|up_2|CP012309.1_2762733_2764032_-	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|253aa|up_1|CP012309.1_2764033_2764792_-	PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional	NA|316aa|up_0|CP012309.1_2764810_2765758_-	pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA)	cas3|803aa|down_0|CP012309.1_2766198_2768607_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|266aa|down_1|CP012309.1_2768633_2769431_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|338aa|down_2|CP012309.1_2769446_2770460_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	NA|492aa|down_3|CP012309.1_2770479_2771955_-	NA	cas6|246aa|down_4|CP012309.1_2771959_2772697_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	NA|370aa|down_5|CP012309.1_2772954_2774064_+	PRK11650, ugpC, sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC	NA|256aa|down_6|CP012309.1_2774093_2774861_+	pfam13556, HTH_30, PucR C-terminal helix-turn-helix domain	NA|458aa|down_7|CP012309.1_2775048_2776422_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|312aa|down_8|CP012309.1_2776457_2777393_-	COG1940, NagC, Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]	NA|385aa|down_9|CP012309.1_2778358_2779513_-	PRK10767, PRK10767, chaperone protein DnaJ; Provisional
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	16	2847332-2847503	8	PILER-CR	no		cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTATATTAACTATATGGAATGTAAATTGTATCTGAATAA	42	0	0	NA	NA	I-A	2	2	Orphan	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|33aa|up_0|CP012309.1_2846781_2846880_-,NA|53aa|down_0|CP012309.1_2847788_2847947_-	NA|260aa|up_9|CP012309.1_2835671_2836451_-	COG2169, Ada, Adenosine deaminase [Nucleotide transport and metabolism]	NA|451aa|up_8|CP012309.1_2836560_2837913_-	cd05298, GH4_GlvA_pagL_like, Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases	NA|517aa|up_7|CP012309.1_2838009_2839560_-	TIGR02005, PTS-IIBC-alpha, PTS system, alpha-glucoside-specific IIBC component	NA|272aa|up_6|CP012309.1_2839610_2840426_-	PRK09772, PRK09772, transcriptional antiterminator BglG; Provisional	NA|161aa|up_5|CP012309.1_2840446_2840929_-	pfam00358, PTS_EIIA_1, phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 1	NA|127aa|up_4|CP012309.1_2841212_2841593_-	TIGR00004, RutC_family_protein, reactive intermediate/imine deaminase	NA|406aa|up_3|CP012309.1_2841687_2842905_-	PRK08198, PRK08198, threonine dehydratase; Provisional	NA|543aa|up_2|CP012309.1_2843563_2845192_+	TIGR03801, For_A_Pyridoxal-5-_Phosphate, aspartate 4-decarboxylase	NA|332aa|up_1|CP012309.1_2845312_2846308_+	cd08964, L-asparaginase_II, Type II (periplasmic) bacterial L-asparaginase	NA|33aa|up_0|CP012309.1_2846781_2846880_-	NA	NA|53aa|down_0|CP012309.1_2847788_2847947_-	NA	NA|457aa|down_1|CP012309.1_2848305_2849676_-	NF033435, S-layer_Clost, S-layer protein SlpA	NA|223aa|down_2|CP012309.1_2851223_2851892_-	pfam04892, VanZ, VanZ like family	NA|807aa|down_3|CP012309.1_2852743_2855164_-	PRK00390, leuS, leucyl-tRNA synthetase; Validated	NA|117aa|down_4|CP012309.1_2855517_2855868_-	pfam02410, RsfS, Ribosomal silencing factor during starvation	NA|191aa|down_5|CP012309.1_2855984_2856557_-	COG1713, COG1713, Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]	NA|230aa|down_6|CP012309.1_2856557_2857247_-	PRK00071, nadD, nicotinate-nucleotide adenylyltransferase	NA|213aa|down_7|CP012309.1_2857522_2858161_+	PRK00117, recX, recombination regulator RecX; Reviewed	NA|668aa|down_8|CP012309.1_2858313_2860317_+	PLN02447, PLN02447, 1,4-alpha-glucan-branching enzyme	NA|214aa|down_9|CP012309.1_2860490_2861132_+	COG1309, AcrR, Transcriptional regulator [Transcription]
GCA_003490105.1_ASM349010v1	CP012309	Clostridioides difficile strain DSM 28668 chromosome, complete genome	21	3362887-3365008	18,9,9,19	CRISPRCasFinder,CRT,PILER-CR,CRISPRCasFinder	no	cas2,cas1,cas4,cas3,cas5,cas7,cas8b2,cas6,WYL	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	ATTTACATACCACTTAGTTAATATAAAAC,ATTTACATACCACTTAGTTAATATAAAAC,GTTTTATATTAACTAAGTGGTATGTAAAT,ATTTACATACCACTTAGTTAATATAAAAC	29,29,29,29	0	0	NA	NA	I-A:I-A:I-A:I-A	30,32,29,30	32	Unclear	cas14k,csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|67aa|up_7|CP012309.1_3355780_3355981_+,NA|260aa|up_1|CP012309.1_3361163_3361943_+,NA	NA|740aa|up_9|CP012309.1_3350127_3352347_-	cd01948, EAL, EAL domain	NA|885aa|up_8|CP012309.1_3352622_3355277_-	PRK13805, PRK13805, bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional	NA|67aa|up_7|CP012309.1_3355780_3355981_+	NA	NA|197aa|up_6|CP012309.1_3356187_3356778_-	PRK08305, spoVFB, dipicolinate synthase subunit B; Reviewed	NA|292aa|up_5|CP012309.1_3356780_3357656_-	PRK08306, PRK08306, dipicolinate synthase subunit DpsA	NA|464aa|up_4|CP012309.1_3357731_3359123_-	cd17633, AFD_YhfT-like, fatty acid-CoA ligase VraA	NA|379aa|up_3|CP012309.1_3359126_3360263_-	cd00751, thiolase, Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine	NA|182aa|up_2|CP012309.1_3360294_3360840_-	pfam02632, BioY, BioY family	NA|260aa|up_1|CP012309.1_3361163_3361943_+	NA	NA|143aa|up_0|CP012309.1_3362397_3362826_-	PRK10562, PRK10562, putative acetyltransferase; Provisional	cas2|89aa|down_0|CP012309.1_3365191_3365458_-	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	cas1|327aa|down_1|CP012309.1_3365460_3366441_-	TIGR03641, cas1_HMARI, CRISPR-associated endonuclease Cas1, subtype I-B/HMARI/TNEAP	cas4|190aa|down_2|CP012309.1_3366443_3367013_-	pfam01930, Cas_Cas4, Domain of unknown function DUF83	cas3|774aa|down_3|CP012309.1_3367009_3369331_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|234aa|down_4|CP012309.1_3369341_3370043_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|305aa|down_5|CP012309.1_3370044_3370959_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas8b2|626aa|down_6|CP012309.1_3370960_3372838_-	cd09665, Cas8a1_I-A, CRISPR/Cas system-associated protein Cas8a1	cas6|246aa|down_7|CP012309.1_3372843_3373581_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	WYL|296aa|down_8|CP012309.1_3373658_3374546_-	pfam13280, WYL, WYL domain	NA|639aa|down_9|CP012309.1_3374854_3376771_-	pfam02687, FtsX, FtsX-like permease family
