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
GCF_009362915.1_ASM936291v1	NZ_CP045224	Clostridioides difficile strain TW11 chromosome, complete genome	1	337030-338120	1	CRT	no	cas14j	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Unclear	GGAGNAACAGGNNCAACAGG	20	2	2	337251-337272|337347-337371	NZ_CP045224.1_338103-338124|NZ_CP045224.1_337023-337047	NA	16	16	TypeV	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA,NA	NA|238aa|up_9|NZ_CP045224.1_326405_327119_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|513aa|up_8|NZ_CP045224.1_327395_328934_-	COG0488, Uup, ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]	NA|109aa|up_7|NZ_CP045224.1_330215_330542_+	cd03135, GATase1_DJ-1, Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1	NA|108aa|up_6|NZ_CP045224.1_330546_330870_-	COG1733, COG1733, Predicted transcriptional regulators [Transcription]	NA|173aa|up_5|NZ_CP045224.1_331021_331540_+	cd20609, nitroreductase, nitroreductase family protein	NA|223aa|up_4|NZ_CP045224.1_331730_332399_-	COG3382, COG3382, Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]	NA|472aa|up_3|NZ_CP045224.1_332513_333929_+	COG1167, ARO8, Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]	NA|153aa|up_2|NZ_CP045224.1_334151_334610_+	COG2207, AraC, AraC-type DNA-binding domain-containing proteins [Transcription]	NA|195aa|up_1|NZ_CP045224.1_334606_335191_+	PRK00277, clpP, ATP-dependent Clp protease proteolytic subunit; Reviewed	NA|359aa|up_0|NZ_CP045224.1_335493_336570_+	cd02511, Beta4Glucosyltransferase, UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide	NA|254aa|down_0|NZ_CP045224.1_338853_339615_+	COG1600, COG1600, Uncharacterized Fe-S protein [Energy production and conversion]	NA|93aa|down_1|NZ_CP045224.1_339919_340198_+	pfam08765, Mor, Mor transcription activator family	NA|192aa|down_2|NZ_CP045224.1_340492_341068_+	pfam06353, DUF1062, Protein of unknown function (DUF1062)	cas14j|373aa|down_3|NZ_CP045224.1_341717_342836_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|210aa|down_4|NZ_CP045224.1_343134_343764_-	pfam12654, DUF3786, Domain of unknown function (DUF3786)	NA|220aa|down_5|NZ_CP045224.1_344073_344733_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|353aa|down_6|NZ_CP045224.1_344943_346002_+	pfam03706, LPG_synthase_TM, Lysylphosphatidylglycerol synthase TM region	NA|715aa|down_7|NZ_CP045224.1_346252_348397_+	TIGR01591, Formate_dehydrogenase_subunit_alpha, formate dehydrogenase, alpha subunit, archaeal-type	NA|278aa|down_8|NZ_CP045224.1_348445_349279_+	pfam02634, FdhD-NarQ, FdhD/NarQ family	NA|184aa|down_9|NZ_CP045224.1_349499_350051_+	cd10554, HycB_like, HycB, HydN and similar proteins
GCF_009362915.1_ASM936291v1	NZ_CP045224	Clostridioides difficile strain TW11 chromosome, complete genome	2	454359-455366	2	CRT	no		cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Orphan	NCAACAGGNCCAACNGGA	18	1	1	455313-455348	NZ_CP045224.1_455448-455483	NA	15	15	Orphan	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA|46aa|up_3|NZ_CP045224.1_449451_449589_+,NA	NA|156aa|up_9|NZ_CP045224.1_444325_444793_+	TIGR04480, D-proline_reductase_PrdA_proprotein, D-proline reductase (dithiol), PrdA proprotein	NA|161aa|up_8|NZ_CP045224.1_444809_445292_+	TIGR04480, D-proline_reductase_PrdA_proprotein, D-proline reductase (dithiol), PrdA proprotein	NA|336aa|up_7|NZ_CP045224.1_445311_446319_+	PRK13969, PRK13969, proline racemase; Provisional	NA|294aa|up_6|NZ_CP045224.1_446438_447320_+	pfam01925, TauE, Sulfite exporter TauE/SafE	NA|212aa|up_5|NZ_CP045224.1_447985_448621_+	PRK05813, PRK05813, single-stranded DNA-binding protein; Provisional	NA|190aa|up_4|NZ_CP045224.1_448804_449374_+	COG2226, UbiE, Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]	NA|46aa|up_3|NZ_CP045224.1_449451_449589_+	NA	NA|592aa|up_2|NZ_CP045224.1_449585_451361_+	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|436aa|up_1|NZ_CP045224.1_451784_453092_+	COG3681, COG3681, L-cysteine desulfidase [Amino acid transport and metabolism]	NA|180aa|up_0|NZ_CP045224.1_453420_453960_+	COG0634, Hpt, Hypoxanthine-guanine phosphoribosyltransferase [Nucleotide transport and metabolism]	NA|252aa|down_0|NZ_CP045224.1_456275_457031_-	PRK00048, PRK00048, dihydrodipicolinate reductase; Provisional	NA|330aa|down_1|NZ_CP045224.1_457473_458463_+	cd03402, SPFH_like_u2, Uncharacterized family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily	NA|239aa|down_2|NZ_CP045224.1_458745_459462_-	TIGR03532, DapD_Ac, 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase	NA|250aa|down_3|NZ_CP045224.1_459643_460393_-	PRK00048, PRK00048, dihydrodipicolinate reductase; Provisional	NA|296aa|down_4|NZ_CP045224.1_460460_461348_-	PRK03170, PRK03170, dihydrodipicolinate synthase; Provisional	NA|334aa|down_5|NZ_CP045224.1_461464_462466_-	PRK14874, PRK14874, aspartate-semialdehyde dehydrogenase; Provisional	NA|294aa|down_6|NZ_CP045224.1_462895_463777_-	PRK03170, PRK03170, dihydrodipicolinate synthase; Provisional	NA|398aa|down_7|NZ_CP045224.1_464099_465293_+	TIGR00720, hypothetical_protein_NEICINOT_00681, L-serine dehydratase, iron-sulfur-dependent, single chain form	NA|373aa|down_8|NZ_CP045224.1_465497_466616_+	cd05670, M20_Acy1_YkuR-like, M20 Peptidase aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins	NA|82aa|down_9|NZ_CP045224.1_466746_466992_+	pfam00269, SASP, Small, acid-soluble spore proteins, alpha/beta type
GCF_009362915.1_ASM936291v1	NZ_CP045224	Clostridioides difficile strain TW11 chromosome, complete genome	3	778952-781073	1,1,3	PILER-CR,CRISPRCasFinder,CRT	no	WYL,cas6,cas8b2,cas7,cas5,cas3,cas4,cas1,cas2	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Unclear	GTTTTATATTAACTAAGTGGTATGTAAAG,GTTTTATATTAACTAAGTGGTATGTAAAG,GTTTTATATTAACTAAGTGGTATGTAAAG	29,29,29	0	0	NA	NA	I-A:I-A:I-A	31,32,32	32	Unclear	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA,NA|56aa|down_1|NZ_CP045224.1_781697_781865_+,NA|257aa|down_2|NZ_CP045224.1_782024_782795_-,NA|67aa|down_8|NZ_CP045224.1_787966_788167_-	NA|639aa|up_9|NZ_CP045224.1_767215_769132_+	pfam02687, FtsX, FtsX-like permease family	WYL|306aa|up_8|NZ_CP045224.1_769410_770328_+	pfam13280, WYL, WYL domain	cas6|246aa|up_7|NZ_CP045224.1_770405_771143_+	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	cas8b2|617aa|up_6|NZ_CP045224.1_771148_772999_+	pfam09706, Cas_CXXC_CXXC, CRISPR-associated protein (Cas_CXXC_CXXC)	cas7|305aa|up_5|NZ_CP045224.1_773000_773915_+	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas5|234aa|up_4|NZ_CP045224.1_773916_774618_+	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas3|774aa|up_3|NZ_CP045224.1_774628_776950_+	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas4|184aa|up_2|NZ_CP045224.1_776964_777516_+	pfam01930, Cas_Cas4, Domain of unknown function DUF83	cas1|327aa|up_1|NZ_CP045224.1_777518_778499_+	TIGR03641, cas1_HMARI, CRISPR-associated endonuclease Cas1, subtype I-B/HMARI/TNEAP	cas2|89aa|up_0|NZ_CP045224.1_778501_778768_+	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	NA|143aa|down_0|NZ_CP045224.1_781133_781562_+	PRK10562, PRK10562, putative acetyltransferase; Provisional	NA|56aa|down_1|NZ_CP045224.1_781697_781865_+	NA	NA|257aa|down_2|NZ_CP045224.1_782024_782795_-	NA	NA|182aa|down_3|NZ_CP045224.1_783118_783664_+	pfam02632, BioY, BioY family	NA|379aa|down_4|NZ_CP045224.1_783684_784821_+	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|464aa|down_5|NZ_CP045224.1_784824_786216_+	cd17633, AFD_YhfT-like, fatty acid-CoA ligase VraA	NA|292aa|down_6|NZ_CP045224.1_786291_787167_+	PRK08306, PRK08306, dipicolinate synthase subunit DpsA	NA|197aa|down_7|NZ_CP045224.1_787169_787760_+	PRK08305, spoVFB, dipicolinate synthase subunit B; Reviewed	NA|67aa|down_8|NZ_CP045224.1_787966_788167_-	NA	NA|885aa|down_9|NZ_CP045224.1_788670_791325_+	PRK13805, PRK13805, bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional
GCF_009362915.1_ASM936291v1	NZ_CP045224	Clostridioides difficile strain TW11 chromosome, complete genome	4	886576-886658	2	CRISPRCasFinder	no		cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Orphan	AATCCACCAGTACCACCATCAGAAGA	26	0	0	NA	NA	NA	1	1	Orphan	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA,NA	NA|534aa|up_9|NZ_CP045224.1_866870_868472_+	cd01300, YtcJ_like, YtcJ_like metal dependent amidohydrolases	NA|424aa|up_8|NZ_CP045224.1_869258_870530_+	PRK05431, PRK05431, seryl-tRNA synthetase; Provisional	NA|502aa|up_7|NZ_CP045224.1_870802_872308_+	cd16956, HATPase_YehU-like, Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Escherichia coli YehU	NA|233aa|up_6|NZ_CP045224.1_872421_873120_+	cd17536, REC_YesN-like, phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response regulators	NA|363aa|up_5|NZ_CP045224.1_873403_874492_+	COG3949, COG3949, Uncharacterized membrane protein [Function unknown]	NA|395aa|up_4|NZ_CP045224.1_874722_875907_+	cd03886, M20_Acy1, M20 Peptidase Aminoacylase 1 family	NA|501aa|up_3|NZ_CP045224.1_876005_877508_+	COG2978, AbgT, Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]	NA|419aa|up_2|NZ_CP045224.1_877579_878836_+	PRK00011, glyA, serine hydroxymethyltransferase; Reviewed	NA|925aa|up_1|NZ_CP045224.1_879006_881781_+	COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and metabolism]	NA|393aa|up_0|NZ_CP045224.1_882471_883650_+	COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]	NA|221aa|down_0|NZ_CP045224.1_887247_887910_+	cd20183, M34_PPEP, Pro-Pro endopeptidase (PPEP) and similar proteins; belongs to peptidase family M34	NA|321aa|down_1|NZ_CP045224.1_888031_888994_-	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter	NA|397aa|down_2|NZ_CP045224.1_889163_890354_-	PRK06836, PRK06836, pyridoxal phosphate-dependent aminotransferase	NA|149aa|down_3|NZ_CP045224.1_890659_891106_+	COG1846, MarR, Transcriptional regulators [Transcription]	NA|365aa|down_4|NZ_CP045224.1_891107_892202_+	cd02803, OYE_like_FMN_family, Old yellow enzyme (OYE)-like FMN binding domain	NA|177aa|down_5|NZ_CP045224.1_892283_892814_+	pfam12641, Flavodoxin_3, Flavodoxin domain	NA|278aa|down_6|NZ_CP045224.1_893140_893974_+	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators	NA|371aa|down_7|NZ_CP045224.1_895620_896733_-	cd06820, PLPDE_III_LS_D-TA_like, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like	NA|194aa|down_8|NZ_CP045224.1_897030_897612_+	COG0262, FolA, Dihydrofolate reductase [Coenzyme metabolism]	NA|576aa|down_9|NZ_CP045224.1_897856_899584_+	COG1132, MdlB, ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]
GCF_009362915.1_ASM936291v1	NZ_CP045224	Clostridioides difficile strain TW11 chromosome, complete genome	5	982522-983105	3	CRISPRCasFinder	no		cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Orphan	TATATGTTTAGAAGCTGTAAAAAAA	25	0	0	NA	NA	NA	8	8	Orphan	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA|222aa|up_0|NZ_CP045224.1_981251_981917_-,NA	NA|157aa|up_9|NZ_CP045224.1_970265_970736_-	pfam14270, DUF4358, Domain of unknown function (DUF4358)	NA|215aa|up_8|NZ_CP045224.1_970874_971519_+	cd00475, Cis_IPPS, Cis (Z)-Isoprenyl Diphosphate Synthases	NA|302aa|up_7|NZ_CP045224.1_971561_972467_+	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|516aa|up_6|NZ_CP045224.1_972778_974326_+	cd01948, EAL, EAL domain	NA|133aa|up_5|NZ_CP045224.1_974328_974727_+	COG1959, COG1959, Predicted transcriptional regulator [Transcription]	NA|578aa|up_4|NZ_CP045224.1_974766_976500_+	NF033452, BREX_1_MTaseX, BREX-1 system adenine-specific DNA-methyltransferase PglX	NA|404aa|up_3|NZ_CP045224.1_976731_977943_+	cd07209, Pat_hypo_Ecoli_Z1214_like, Hypothetical patatin similar to Z1214 protein of Escherichia coli	NA|87aa|up_2|NZ_CP045224.1_978134_978395_+	pfam00381, PTS-HPr, PTS HPr component phosphorylation site	NA|571aa|up_1|NZ_CP045224.1_978747_980460_+	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]	NA|222aa|up_0|NZ_CP045224.1_981251_981917_-	NA	NA|49aa|down_0|NZ_CP045224.1_984666_984813_+	TIGR04223, quorum_AgrD, cyclic lactone autoinducer peptide	NA|460aa|down_1|NZ_CP045224.1_985112_986492_+	TIGR03974, six-Cys-in-45_modification_radical_SAM_protein, SCIFF radical SAM maturase	NA|166aa|down_2|NZ_CP045224.1_986520_987018_+	cd04645, LbH_gamma_CA_like, Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E	NA|555aa|down_3|NZ_CP045224.1_987315_988980_+	COG0661, AarF, Predicted unusual protein kinase [General function prediction only]	NA|817aa|down_4|NZ_CP045224.1_988992_991443_+	TIGR00644, recJ, single-stranded-DNA-specific exonuclease RecJ	NA|171aa|down_5|NZ_CP045224.1_991455_991968_+	PRK02304, PRK02304, adenine phosphoribosyltransferase; Provisional	NA|736aa|down_6|NZ_CP045224.1_992041_994249_+	COG0317, SpoT, Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]	NA|150aa|down_7|NZ_CP045224.1_994273_994723_+	PRK05273, PRK05273, D-tyrosyl-tRNA(Tyr) deacylase; Provisional	NA|205aa|down_8|NZ_CP045224.1_994737_995352_+	cd06262, metallo-hydrolase-like_MBL-fold, mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain	NA|519aa|down_9|NZ_CP045224.1_995442_996999_+	PRK08207, PRK08207, coproporphyrinogen III oxidase; Provisional
GCF_009362915.1_ASM936291v1	NZ_CP045224	Clostridioides difficile strain TW11 chromosome, complete genome	6	983212-983386	4	CRISPRCasFinder	no		cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Orphan	TATATGTTTAGAAGCTGTAAAAAAA	25	0	0	NA	NA	NA	2	2	Orphan	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA|222aa|up_0|NZ_CP045224.1_981251_981917_-,NA	NA|157aa|up_9|NZ_CP045224.1_970265_970736_-	pfam14270, DUF4358, Domain of unknown function (DUF4358)	NA|215aa|up_8|NZ_CP045224.1_970874_971519_+	cd00475, Cis_IPPS, Cis (Z)-Isoprenyl Diphosphate Synthases	NA|302aa|up_7|NZ_CP045224.1_971561_972467_+	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|516aa|up_6|NZ_CP045224.1_972778_974326_+	cd01948, EAL, EAL domain	NA|133aa|up_5|NZ_CP045224.1_974328_974727_+	COG1959, COG1959, Predicted transcriptional regulator [Transcription]	NA|578aa|up_4|NZ_CP045224.1_974766_976500_+	NF033452, BREX_1_MTaseX, BREX-1 system adenine-specific DNA-methyltransferase PglX	NA|404aa|up_3|NZ_CP045224.1_976731_977943_+	cd07209, Pat_hypo_Ecoli_Z1214_like, Hypothetical patatin similar to Z1214 protein of Escherichia coli	NA|87aa|up_2|NZ_CP045224.1_978134_978395_+	pfam00381, PTS-HPr, PTS HPr component phosphorylation site	NA|571aa|up_1|NZ_CP045224.1_978747_980460_+	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]	NA|222aa|up_0|NZ_CP045224.1_981251_981917_-	NA	NA|49aa|down_0|NZ_CP045224.1_984666_984813_+	TIGR04223, quorum_AgrD, cyclic lactone autoinducer peptide	NA|460aa|down_1|NZ_CP045224.1_985112_986492_+	TIGR03974, six-Cys-in-45_modification_radical_SAM_protein, SCIFF radical SAM maturase	NA|166aa|down_2|NZ_CP045224.1_986520_987018_+	cd04645, LbH_gamma_CA_like, Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E	NA|555aa|down_3|NZ_CP045224.1_987315_988980_+	COG0661, AarF, Predicted unusual protein kinase [General function prediction only]	NA|817aa|down_4|NZ_CP045224.1_988992_991443_+	TIGR00644, recJ, single-stranded-DNA-specific exonuclease RecJ	NA|171aa|down_5|NZ_CP045224.1_991455_991968_+	PRK02304, PRK02304, adenine phosphoribosyltransferase; Provisional	NA|736aa|down_6|NZ_CP045224.1_992041_994249_+	COG0317, SpoT, Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]	NA|150aa|down_7|NZ_CP045224.1_994273_994723_+	PRK05273, PRK05273, D-tyrosyl-tRNA(Tyr) deacylase; Provisional	NA|205aa|down_8|NZ_CP045224.1_994737_995352_+	cd06262, metallo-hydrolase-like_MBL-fold, mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain	NA|519aa|down_9|NZ_CP045224.1_995442_996999_+	PRK08207, PRK08207, coproporphyrinogen III oxidase; Provisional
GCF_009362915.1_ASM936291v1	NZ_CP045224	Clostridioides difficile strain TW11 chromosome, complete genome	7	1068945-1071941	2,5,4	PILER-CR,CRISPRCasFinder,CRT	no		cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Orphan	GTTTTATATTAACTATGTGGTATGTAAAG,GTTTTATATTAACTATGTGGTATGTAAAG,GTTTTATATTAACTATGTGGTATGTAAAG	29,29,29	0	0	NA	NA	I-A:I-A:I-A	42,45,45	45	Orphan	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA|49aa|up_4|NZ_CP045224.1_1063226_1063373_-,NA|55aa|up_2|NZ_CP045224.1_1065362_1065527_+,NA|51aa|up_0|NZ_CP045224.1_1068513_1068666_+,NA|78aa|down_1|NZ_CP045224.1_1073031_1073265_+,NA|86aa|down_2|NZ_CP045224.1_1073251_1073509_+,NA|127aa|down_3|NZ_CP045224.1_1073501_1073882_+,NA|65aa|down_4|NZ_CP045224.1_1074418_1074613_+,NA|124aa|down_6|NZ_CP045224.1_1076613_1076985_+,NA|86aa|down_7|NZ_CP045224.1_1077123_1077381_+,NA|95aa|down_8|NZ_CP045224.1_1077703_1077988_+	NA|396aa|up_9|NZ_CP045224.1_1056849_1058037_+	pfam12683, DUF3798, Protein of unknown function (DUF3798)	NA|99aa|up_8|NZ_CP045224.1_1059238_1059535_+	PRK10519, PRK10519, hypothetical protein; Provisional	NA|397aa|up_7|NZ_CP045224.1_1059929_1061120_+	COG1168, MalY, Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]	NA|334aa|up_6|NZ_CP045224.1_1061567_1062569_+	PRK05425, PRK05425, asparagine synthetase AsnA; Provisional	NA|130aa|up_5|NZ_CP045224.1_1062672_1063062_+	COG3339, COG3339, Uncharacterized conserved protein [Function unknown]	NA|49aa|up_4|NZ_CP045224.1_1063226_1063373_-	NA	NA|277aa|up_3|NZ_CP045224.1_1064132_1064963_+	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|55aa|up_2|NZ_CP045224.1_1065362_1065527_+	NA	NA|282aa|up_1|NZ_CP045224.1_1065750_1066596_-	pfam13026, DUF3887, Protein of unknown function (DUF3887)	NA|51aa|up_0|NZ_CP045224.1_1068513_1068666_+	NA	NA|63aa|down_0|NZ_CP045224.1_1072655_1072844_-	smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|78aa|down_1|NZ_CP045224.1_1073031_1073265_+	NA	NA|86aa|down_2|NZ_CP045224.1_1073251_1073509_+	NA	NA|127aa|down_3|NZ_CP045224.1_1073501_1073882_+	NA	NA|65aa|down_4|NZ_CP045224.1_1074418_1074613_+	NA	NA|191aa|down_5|NZ_CP045224.1_1075598_1076171_+	pfam10543, ORF6N, ORF6N domain	NA|124aa|down_6|NZ_CP045224.1_1076613_1076985_+	NA	NA|86aa|down_7|NZ_CP045224.1_1077123_1077381_+	NA	NA|95aa|down_8|NZ_CP045224.1_1077703_1077988_+	NA	NA|79aa|down_9|NZ_CP045224.1_1078264_1078501_-	PRK11199, tyrA, bifunctional chorismate mutase/prephenate dehydrogenase; Provisional
GCF_009362915.1_ASM936291v1	NZ_CP045224	Clostridioides difficile strain TW11 chromosome, complete genome	8	1793062-1795725	5,6,3	CRT,CRISPRCasFinder,PILER-CR	no	cas6,cas8b1,cas7b,cas5,cas3,cas4,cas1,cas2	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Type I-B	NGTTAAACAGTAACATGAGATGTATTTAAAT,GTTAAACAGTAACATGAGATGTATTTAAAT,GTTAAACAGTAACATGAGATGTATTTAAAT	31,30,30	0	0	NA	NA	III-B:III-B:III-B	40,39,35	40	TypeI-B	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA|194aa|up_5|NZ_CP045224.1_1784417_1784999_-,NA|275aa|down_7|NZ_CP045224.1_1802651_1803476_+,NA|75aa|down_9|NZ_CP045224.1_1805270_1805495_+	NA|260aa|up_9|NZ_CP045224.1_1780675_1781455_+	pfam01148, CTP_transf_1, Cytidylyltransferase family	NA|48aa|up_8|NZ_CP045224.1_1781983_1782127_+	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|33aa|up_7|NZ_CP045224.1_1782216_1782315_+	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|607aa|up_6|NZ_CP045224.1_1782512_1784333_+	cd01948, EAL, EAL domain	NA|194aa|up_5|NZ_CP045224.1_1784417_1784999_-	NA	cas6|232aa|up_4|NZ_CP045224.1_1786184_1786880_+	TIGR01877, CRISPR-associated_endoribonuclease_Cas6_1, CRISPR-associated endoribonuclease Cas6	cas8b1|587aa|up_3|NZ_CP045224.1_1786870_1788631_+	TIGR02591, cas_Csh1, CRISPR-associated protein Cas8b/Csh1, subtype I-B/HMARI	cas7b|330aa|up_2|NZ_CP045224.1_1788623_1789613_+	pfam05107, Cas_Cas7, CRISPR-associated protein Cas7	cas5|247aa|up_1|NZ_CP045224.1_1789614_1790355_+	TIGR02592, hypothetical_protein_CTC_01466, CRISPR-associated protein Cas5, subtype I-B/HMARI	cas3|853aa|up_0|NZ_CP045224.1_1790378_1792937_+	cd09639, Cas3_I, CRISPR/Cas system-associated protein Cas3	cas4|165aa|down_0|NZ_CP045224.1_1795809_1796304_+	pfam01930, Cas_Cas4, Domain of unknown function DUF83	cas1|333aa|down_1|NZ_CP045224.1_1796338_1797337_+	cd09722, Cas1_I-B, CRISPR/Cas system-associated protein Cas1	cas2|97aa|down_2|NZ_CP045224.1_1797547_1797838_+	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	NA|68aa|down_3|NZ_CP045224.1_1798527_1798731_+	COG3655, COG3655, Predicted transcriptional regulator [Transcription]	NA|385aa|down_4|NZ_CP045224.1_1798894_1800049_+	PRK05447, PRK05447, 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional	NA|335aa|down_5|NZ_CP045224.1_1800061_1801066_+	pfam02163, Peptidase_M50, Peptidase family M50	NA|352aa|down_6|NZ_CP045224.1_1801248_1802304_+	pfam04551, GcpE, GcpE protein	NA|275aa|down_7|NZ_CP045224.1_1802651_1803476_+	NA	NA|375aa|down_8|NZ_CP045224.1_1803949_1805074_-	pfam12725, DUF3810, Protein of unknown function (DUF3810)	NA|75aa|down_9|NZ_CP045224.1_1805270_1805495_+	NA
GCF_009362915.1_ASM936291v1	NZ_CP045224	Clostridioides difficile strain TW11 chromosome, complete genome	9	1905827-1906793	4,7,6	PILER-CR,CRISPRCasFinder,CRT	no		cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Orphan	GTTTTATATTAACTAAGTGGTATGTAAA,GTTTTATATTAACTAAGTGGTATGTAAAT,NNNNNNGTTTTATATTAACTAAGTGGTATGTAAAT	28,29,35	0	0	NA	NA	I-A:I-A:I-A	12,13,14	14	Orphan	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA|567aa|up_9|NZ_CP045224.1_1894921_1896622_+,NA|206aa|up_8|NZ_CP045224.1_1896791_1897409_+,NA|95aa|down_0|NZ_CP045224.1_1907430_1907715_+,NA|58aa|down_1|NZ_CP045224.1_1908623_1908797_-	NA|567aa|up_9|NZ_CP045224.1_1894921_1896622_+	NA	NA|206aa|up_8|NZ_CP045224.1_1896791_1897409_+	NA	NA|398aa|up_7|NZ_CP045224.1_1897769_1898963_+	PRK06635, PRK06635, aspartate kinase; Reviewed	NA|431aa|up_6|NZ_CP045224.1_1898980_1900273_+	cd06828, PLPDE_III_DapDC, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase	NA|225aa|up_5|NZ_CP045224.1_1900469_1901144_+	pfam03154, Atrophin-1, Atrophin-1 family	NA|362aa|up_4|NZ_CP045224.1_1901297_1902383_-	COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]	NA|239aa|up_3|NZ_CP045224.1_1902573_1903290_+	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|193aa|up_2|NZ_CP045224.1_1903346_1903925_+	pfam06962, rRNA_methylase, Putative rRNA methylase	NA|291aa|up_1|NZ_CP045224.1_1904318_1905191_+	COG1737, RpiR, Transcriptional regulators [Transcription]	NA|62aa|up_0|NZ_CP045224.1_1905343_1905529_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|95aa|down_0|NZ_CP045224.1_1907430_1907715_+	NA	NA|58aa|down_1|NZ_CP045224.1_1908623_1908797_-	NA	NA|72aa|down_2|NZ_CP045224.1_1908939_1909155_-	COG3655, COG3655, Predicted transcriptional regulator [Transcription]	NA|156aa|down_3|NZ_CP045224.1_1909165_1909633_-	pfam11188, DUF2975, Protein of unknown function (DUF2975)	NA|233aa|down_4|NZ_CP045224.1_1910618_1911317_-	TIGR03502, lipase_Pla1_cef, extracellular lipase, Pla-1/cef family	NA|186aa|down_5|NZ_CP045224.1_1911574_1912132_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|158aa|down_6|NZ_CP045224.1_1912512_1912986_-	pfam13673, Acetyltransf_10, Acetyltransferase (GNAT) domain	NA|256aa|down_7|NZ_CP045224.1_1913278_1914046_+	pfam14268, YoaP, YoaP-like	NA|345aa|down_8|NZ_CP045224.1_1914723_1915758_+	PRK00436, argC, N-acetyl-gamma-glutamyl-phosphate reductase; Validated	NA|406aa|down_9|NZ_CP045224.1_1915798_1917016_+	cd02152, OAT, Ornithine acetyltransferase (OAT) family; also referred to as ArgJ
GCF_009362915.1_ASM936291v1	NZ_CP045224	Clostridioides difficile strain TW11 chromosome, complete genome	10	2318759-2319907	5,8,7	PILER-CR,CRISPRCasFinder,CRT	no	cas14j	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Unclear	GTTTTATATTAACTATGTGGTATGTAAAT,ATTTACATACCACATAGTTAATATAAAAC,ATTTACATACCACATAGTTAATATAAAAC	29,29,29	0	0	NA	NA	I-A:I-A:I-A	17,17,17	17	TypeV	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA|258aa|up_7|NZ_CP045224.1_2308455_2309229_-,NA|341aa|up_5|NZ_CP045224.1_2310134_2311157_-,NA|59aa|up_4|NZ_CP045224.1_2312205_2312382_+,NA|96aa|up_0|NZ_CP045224.1_2317900_2318188_-,NA	NA|468aa|up_9|NZ_CP045224.1_2306211_2307615_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|242aa|up_8|NZ_CP045224.1_2307618_2308344_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|258aa|up_7|NZ_CP045224.1_2308455_2309229_-	NA	NA|296aa|up_6|NZ_CP045224.1_2309234_2310122_-	cd03264, ABC_drug_resistance_like, ABC-type multidrug transport system, ATPase component	NA|341aa|up_5|NZ_CP045224.1_2310134_2311157_-	NA	NA|59aa|up_4|NZ_CP045224.1_2312205_2312382_+	NA	NA|616aa|up_3|NZ_CP045224.1_2313533_2315381_-	cd08579, GDPD_memb_like, Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases	NA|321aa|up_2|NZ_CP045224.1_2315661_2316624_-	cd01561, CBS_like, CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase	NA|184aa|up_1|NZ_CP045224.1_2316814_2317366_+	cd02209, cupin_XRE_C, XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain	NA|96aa|up_0|NZ_CP045224.1_2317900_2318188_-	NA	cas14j|373aa|down_0|NZ_CP045224.1_2322110_2323229_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|106aa|down_1|NZ_CP045224.1_2324331_2324649_+	pfam06865, DUF1255, Protein of unknown function (DUF1255)	NA|786aa|down_2|NZ_CP045224.1_2324733_2327091_-	cd02609, P-type_ATPase, uncharacterized subfamily of P-type ATPase transporter, similar to uncharacterized Streptococcus pneumoniae exported protein 7, Exp7	NA|486aa|down_3|NZ_CP045224.1_2327508_2328966_-	PRK04366, PRK04366, aminomethyl-transferring glycine dehydrogenase subunit GcvPB	NA|825aa|down_4|NZ_CP045224.1_2328965_2331440_-	PRK00451, PRK00451, aminomethyl-transferring glycine dehydrogenase subunit GcvPA	NA|577aa|down_5|NZ_CP045224.1_2332722_2334453_-	COG1757, NhaC, Na+/H+ antiporter [Energy production and conversion]	NA|329aa|down_6|NZ_CP045224.1_2334936_2335923_+	TIGR00545, Probable_lipoate-protein_ligase_A, lipoyltransferase and lipoate-protein ligase	NA|266aa|down_7|NZ_CP045224.1_2336232_2337030_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|200aa|down_8|NZ_CP045224.1_2337132_2337732_+	COG4110, COG4110, Uncharacterized protein involved in stress response [General function prediction only]	NA|620aa|down_9|NZ_CP045224.1_2337931_2339791_-	cd01948, EAL, EAL domain
GCF_009362915.1_ASM936291v1	NZ_CP045224	Clostridioides difficile strain TW11 chromosome, complete genome	11	2466569-2466666	9	CRISPRCasFinder	no		cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Orphan	TTTATCAAGTAAAATATAGTTATATTAATATAA	33	0	0	NA	NA	NA	1	1	Orphan	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA,NA	NA|464aa|up_9|NZ_CP045224.1_2451100_2452492_-	cd13143, MATE_MepA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA	NA|627aa|up_8|NZ_CP045224.1_2452610_2454491_-	pfam02687, FtsX, FtsX-like permease family	NA|249aa|up_7|NZ_CP045224.1_2454490_2455237_-	COG1136, SalX, ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]	NA|740aa|up_6|NZ_CP045224.1_2455389_2457609_-	cd01948, EAL, EAL domain	NA|465aa|up_5|NZ_CP045224.1_2457973_2459368_-	PRK12831, PRK12831, putative oxidoreductase; Provisional	NA|298aa|up_4|NZ_CP045224.1_2459367_2460261_-	PRK06222, PRK06222, sulfide/dihydroorotate dehydrogenase-like FAD/NAD-binding protein	NA|284aa|up_3|NZ_CP045224.1_2460886_2461738_+	COG2897, SseA, Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]	NA|538aa|up_2|NZ_CP045224.1_2461865_2463479_-	COG0405, Ggt, Gamma-glutamyltransferase [Amino acid transport and metabolism]	NA|646aa|up_1|NZ_CP045224.1_2463710_2465648_-	pfam02687, FtsX, FtsX-like permease family	NA|256aa|up_0|NZ_CP045224.1_2465634_2466402_-	COG1136, SalX, ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]	NA|225aa|down_0|NZ_CP045224.1_2466689_2467364_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|335aa|down_1|NZ_CP045224.1_2467387_2468392_+	cd16948, HATPase_BceS-YxdK-YvcQ-like, Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Bacillus subtilis BceS, YxdK, and Bacillus thuringiensis YvcQ	NA|411aa|down_2|NZ_CP045224.1_2468502_2469735_+	COG0845, AcrA, Membrane-fusion protein [Cell envelope biogenesis, outer membrane]	NA|225aa|down_3|NZ_CP045224.1_2469742_2470417_+	cd03255, ABC_MJ0796_LolCDE_FtsE, ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein	NA|411aa|down_4|NZ_CP045224.1_2470419_2471652_+	COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]	NA|422aa|down_5|NZ_CP045224.1_2471936_2473202_-	PRK09357, pyrC, dihydroorotase; Validated	NA|383aa|down_6|NZ_CP045224.1_2473254_2474403_-	COG2006, COG2006, Uncharacterized conserved protein [Function unknown]	NA|182aa|down_7|NZ_CP045224.1_2474493_2475039_-	cd01046, Rubrerythrin_like, rubrerythrin-like, diiron-binding domain	NA|315aa|down_8|NZ_CP045224.1_2475261_2476206_-	COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]	NA|294aa|down_9|NZ_CP045224.1_2476591_2477473_+	cd10944, CE4_SmPgdA_like, Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins
GCF_009362915.1_ASM936291v1	NZ_CP045224	Clostridioides difficile strain TW11 chromosome, complete genome	12	2802314-2802940	6,10,8	PILER-CR,CRISPRCasFinder,CRT	no		cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Orphan	GTTTTATATTAACTAAGTGGTATGTAAAG,CTTTACATACCACTTAGTTAATATAAAAC,CTTTACATACCACTTAGTTAATATAAAAC	29,29,29	1	1	2802673-2802710	NZ_CP045224.1_4043957-4043994	I-A:I-A:I-A	9,9,9	9	Orphan	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA|121aa|up_9|NZ_CP045224.1_2796034_2796397_-,NA|65aa|up_7|NZ_CP045224.1_2797872_2798067_+,NA|220aa|up_3|NZ_CP045224.1_2800201_2800861_+,NA|63aa|up_2|NZ_CP045224.1_2801318_2801507_+,NA|84aa|up_1|NZ_CP045224.1_2801671_2801923_-,NA|53aa|down_0|NZ_CP045224.1_2803226_2803385_-,NA|271aa|down_2|NZ_CP045224.1_2805007_2805820_-	NA|121aa|up_9|NZ_CP045224.1_2796034_2796397_-	NA	NA|139aa|up_8|NZ_CP045224.1_2796963_2797380_+	PRK05803, PRK05803, RNA polymerase sporulation sigma factor SigK	NA|65aa|up_7|NZ_CP045224.1_2797872_2798067_+	NA	NA|170aa|up_6|NZ_CP045224.1_2798175_2798685_-	pfam04892, VanZ, VanZ like family	NA|55aa|up_5|NZ_CP045224.1_2799220_2799385_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|146aa|up_4|NZ_CP045224.1_2799708_2800146_+	COG1846, MarR, Transcriptional regulators [Transcription]	NA|220aa|up_3|NZ_CP045224.1_2800201_2800861_+	NA	NA|63aa|up_2|NZ_CP045224.1_2801318_2801507_+	NA	NA|84aa|up_1|NZ_CP045224.1_2801671_2801923_-	NA	NA|45aa|up_0|NZ_CP045224.1_2802101_2802236_+	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|53aa|down_0|NZ_CP045224.1_2803226_2803385_-	NA	NA|482aa|down_1|NZ_CP045224.1_2803522_2804968_-	NF033435, S-layer_Clost, S-layer protein SlpA	NA|271aa|down_2|NZ_CP045224.1_2805007_2805820_-	NA	NA|505aa|down_3|NZ_CP045224.1_2806001_2807516_+	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|95aa|down_4|NZ_CP045224.1_2807541_2807826_+	PRK05803, PRK05803, RNA polymerase sporulation sigma factor SigK	NA|555aa|down_5|NZ_CP045224.1_2807923_2809588_-	COG0768, FtsI, Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]	NA|416aa|down_6|NZ_CP045224.1_2809659_2810907_-	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|225aa|down_7|NZ_CP045224.1_2810893_2811568_-	COG4122, COG4122, Predicted O-methyltransferase [General function prediction only]	NA|360aa|down_8|NZ_CP045224.1_2811739_2812819_-	pfam02618, YceG, YceG-like family	NA|442aa|down_9|NZ_CP045224.1_2813031_2814357_-	TIGR02644, Thymidine_phosphorylase, pyrimidine-nucleoside phosphorylase
GCF_009362915.1_ASM936291v1	NZ_CP045224	Clostridioides difficile strain TW11 chromosome, complete genome	13	3182227-3182790	11	CRISPRCasFinder	no		cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Orphan	TAACTGCTTCCATACATATTTCTTCTGTTTGATTTT	36	0	0	NA	NA	NA	8	8	Orphan	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA,NA|115aa|down_0|NZ_CP045224.1_3183329_3183674_+	NA|231aa|up_9|NZ_CP045224.1_3170025_3170718_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|283aa|up_8|NZ_CP045224.1_3171377_3172226_-	PRK09772, PRK09772, transcriptional antiterminator BglG; Provisional	NA|469aa|up_7|NZ_CP045224.1_3172253_3173660_-	COG2723, BglB, Beta-glucosidase/6-phospho-beta-glucosidase/beta-galactosidase [Carbohydrate transport and metabolism]	NA|626aa|up_6|NZ_CP045224.1_3173990_3175868_-	TIGR01995, beta-glucosides_PTS_EIIBCA, PTS system, beta-glucoside-specific IIABC component	NA|396aa|up_5|NZ_CP045224.1_3176203_3177391_+	cd17490, MFS_YxlH_like, Bacillus subtilis YxlH and similar transporters of the Major Facilitator Superfamily	NA|232aa|up_4|NZ_CP045224.1_3177416_3178112_+	COG2186, FadR, Transcriptional regulators [Transcription]	NA|101aa|up_3|NZ_CP045224.1_3178283_3178586_-	cd05569, PTS_IIB_fructose, PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS)	NA|137aa|up_2|NZ_CP045224.1_3178607_3179018_-	cd00293, USP_Like, Usp: Universal stress protein family	NA|643aa|up_1|NZ_CP045224.1_3179216_3181145_-	cd01948, EAL, EAL domain	NA|163aa|up_0|NZ_CP045224.1_3181207_3181696_-	COG0716, FldA, Flavodoxins [Energy production and conversion]	NA|115aa|down_0|NZ_CP045224.1_3183329_3183674_+	NA	NA|459aa|down_1|NZ_CP045224.1_3184004_3185381_-	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|341aa|down_2|NZ_CP045224.1_3185479_3186502_-	COG2025, FixB, Electron transfer flavoprotein, alpha subunit [Energy production and conversion]	NA|265aa|down_3|NZ_CP045224.1_3186512_3187307_-	cd01714, ETF_beta, The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases	NA|381aa|down_4|NZ_CP045224.1_3187317_3188460_-	cd01158, SCAD_SBCAD, Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases	NA|411aa|down_5|NZ_CP045224.1_3188499_3189732_-	COG1804, CaiB, Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]	NA|447aa|down_6|NZ_CP045224.1_3189868_3191209_-	COG2610, GntT, H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]	NA|265aa|down_7|NZ_CP045224.1_3191302_3192097_-	PRK05809, PRK05809, short-chain-enoyl-CoA hydratase	NA|240aa|down_8|NZ_CP045224.1_3192840_3193560_-	PRK00110, PRK00110, YebC/PmpR family DNA-binding transcriptional regulator	NA|252aa|down_9|NZ_CP045224.1_3193642_3194398_-	cd00553, NAD_synthase, NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD)
GCF_009362915.1_ASM936291v1	NZ_CP045224	Clostridioides difficile strain TW11 chromosome, complete genome	14	3936168-3936247	12	CRISPRCasFinder	no		cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Orphan	TTATAATATTATCCACATTATAAACA	26	0	0	NA	NA	NA	1	1	Orphan	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA|226aa|up_4|NZ_CP045224.1_3918827_3919505_-,NA	NA|449aa|up_9|NZ_CP045224.1_3914633_3915980_-	PRK14316, glmM, phosphoglucosamine mutase; Provisional	NA|186aa|up_8|NZ_CP045224.1_3916151_3916709_-	pfam01558, POR, Pyruvate ferredoxin/flavodoxin oxidoreductase	NA|251aa|up_7|NZ_CP045224.1_3916709_3917462_-	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|360aa|up_6|NZ_CP045224.1_3917461_3918541_-	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated	NA|72aa|up_5|NZ_CP045224.1_3918569_3918785_-	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|226aa|up_4|NZ_CP045224.1_3918827_3919505_-	NA	NA|360aa|up_3|NZ_CP045224.1_3919494_3920574_-	PRK03011, PRK03011, butyrate kinase; Provisional	NA|301aa|up_2|NZ_CP045224.1_3920595_3921498_-	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|394aa|up_1|NZ_CP045224.1_3921801_3922983_-	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|280aa|up_0|NZ_CP045224.1_3922979_3923819_-	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|180aa|down_0|NZ_CP045224.1_3936726_3937266_-	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|784aa|down_1|NZ_CP045224.1_3937287_3939639_-	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|395aa|down_2|NZ_CP045224.1_3940011_3941196_+	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|235aa|down_3|NZ_CP045224.1_3953678_3954383_-	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|131aa|down_4|NZ_CP045224.1_3954891_3955284_-	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|144aa|down_5|NZ_CP045224.1_3955312_3955744_-	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|244aa|down_6|NZ_CP045224.1_3955863_3956595_-	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|268aa|down_7|NZ_CP045224.1_3956627_3957431_-	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|289aa|down_8|NZ_CP045224.1_3957424_3958291_-	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|278aa|down_9|NZ_CP045224.1_3958278_3959112_-	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase
GCF_009362915.1_ASM936291v1	NZ_CP045224	Clostridioides difficile strain TW11 chromosome, complete genome	15	4054075-4054160	13	CRISPRCasFinder	no		cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Orphan	AAAGTGCTAACGCACAGCGCCAAC	24	1	10	4054099-4054136|4054099-4054136|4054099-4054136|4054099-4054136|4054099-4054136|4054099-4054136|4054099-4054136|4054099-4054136|4054099-4054136|4054099-4054136	NZ_CP045224.1_2999059-2999096|NZ_CP045224.1_4087925-4087962|NZ_CP045224.1_143484-143447|NZ_CP045224.1_273965-273928|NZ_CP045224.1_1027220-1027183|NZ_CP045224.1_3928769-3928806|NZ_CP045224.1_3934183-3934220|NZ_CP045224.1_3944744-3944781|NZ_CP045224.1_3951628-3951665|NZ_CP045224.1_4082427-4082464	NA	1	1	Orphan	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA|138aa|up_0|NZ_CP045224.1_4046435_4046849_-,NA|54aa|down_1|NZ_CP045224.1_4057522_4057684_-,NA|54aa|down_8|NZ_CP045224.1_4071621_4071783_-	NA|365aa|up_9|NZ_CP045224.1_4031815_4032910_-	COG4956, COG4956, Integral membrane protein (PIN domain superfamily) [General function prediction only]	NA|357aa|up_8|NZ_CP045224.1_4032998_4034069_-	PRK13482, PRK13482, DNA integrity scanning protein DisA; Provisional	NA|458aa|up_7|NZ_CP045224.1_4034071_4035445_-	PRK11823, PRK11823, DNA repair protein RadA; Provisional	NA|816aa|up_6|NZ_CP045224.1_4035624_4038072_-	COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]	NA|342aa|up_5|NZ_CP045224.1_4038058_4039084_-	PRK01059, PRK01059, ATP:guanido phosphotransferase; Provisional	NA|165aa|up_4|NZ_CP045224.1_4039099_4039594_-	COG3880, COG3880, Modulator of heat shock repressor CtsR, McsA [Signal transduction    mechanisms]	NA|155aa|up_3|NZ_CP045224.1_4039600_4040065_-	COG4463, CtsR, Transcriptional repressor of class III stress genes [Transcription]	NA|643aa|up_2|NZ_CP045224.1_4040521_4042450_-	PRK12740, PRK12740, elongation factor G-like protein EF-G2	NA|1144aa|up_1|NZ_CP045224.1_4042691_4046123_-	PRK12999, PRK12999, pyruvate carboxylase; Reviewed	NA|138aa|up_0|NZ_CP045224.1_4046435_4046849_-	NA	NA|402aa|down_0|NZ_CP045224.1_4056246_4057452_+	cd17507, GT28_Beta-DGS-like, beta-diglucosyldiacylglycerol synthase and similar proteins	NA|54aa|down_1|NZ_CP045224.1_4057522_4057684_-	NA	NA|200aa|down_2|NZ_CP045224.1_4057884_4058484_-	PRK00076, recR, recombination protein RecR; Reviewed	NA|117aa|down_3|NZ_CP045224.1_4058496_4058847_-	PRK00153, PRK00153, YbaB/EbfC family nucleoid-associated protein	NA|152aa|down_4|NZ_CP045224.1_4061012_4061468_-	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|424aa|down_5|NZ_CP045224.1_4061789_4063061_-	PRK05431, PRK05431, seryl-tRNA synthetase; Provisional	NA|294aa|down_6|NZ_CP045224.1_4063519_4064401_-	PRK10334, PRK10334, small-conductance mechanosensitive channel MscS	NA|170aa|down_7|NZ_CP045224.1_4064412_4064922_-	COG1827, COG1827, Predicted small molecule binding protein (contains 3H domain) [General function prediction only]	NA|54aa|down_8|NZ_CP045224.1_4071621_4071783_-	NA	NA|117aa|down_9|NZ_CP045224.1_4072594_4072945_-	PRK00153, PRK00153, YbaB/EbfC family nucleoid-associated protein
