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_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	1	32087-32179	1	CRISPRCasFinder	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	GTTGGCGCTGTGCGTTAGCACTTTAAGCAAC	31	1	2	32118-32148|32118-32148	NZ_CP029152.1_17782-17812|NZ_CP029152.1_1209960-1209990	NA	1	1	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA|74aa|up_1|NZ_CP029152.1_28502_28724_+,NA|138aa|down_0|NZ_CP029152.1_39446_39860_+	NA|258aa|up_9|NZ_CP029152.1_9856_10630_+	TIGR02980, SigBFG, RNA polymerase sigma-70 factor, sigma-B/F/G subfamily	NA|170aa|up_8|NZ_CP029152.1_21323_21833_+	COG1827, COG1827, Predicted small molecule binding protein (contains 3H domain) [General function prediction only]	NA|294aa|up_7|NZ_CP029152.1_21844_22726_+	PRK10334, PRK10334, small-conductance mechanosensitive channel MscS	NA|424aa|up_6|NZ_CP029152.1_23184_24456_+	PRK05431, PRK05431, seryl-tRNA synthetase; Provisional	NA|152aa|up_5|NZ_CP029152.1_24776_25232_+	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|546aa|up_4|NZ_CP029152.1_25702_27340_+	PRK05563, PRK05563, DNA polymerase III subunits gamma and tau; Validated	NA|117aa|up_3|NZ_CP029152.1_27398_27749_+	PRK00153, PRK00153, YbaB/EbfC family nucleoid-associated protein	NA|200aa|up_2|NZ_CP029152.1_27761_28361_+	PRK00076, recR, recombination protein RecR; Reviewed	NA|74aa|up_1|NZ_CP029152.1_28502_28724_+	NA	NA|402aa|up_0|NZ_CP029152.1_28794_30000_-	cd17507, GT28_Beta-DGS-like, beta-diglucosyldiacylglycerol synthase and similar proteins	NA|138aa|down_0|NZ_CP029152.1_39446_39860_+	NA	NA|1144aa|down_1|NZ_CP029152.1_40168_43600_+	PRK12999, PRK12999, pyruvate carboxylase; Reviewed	NA|643aa|down_2|NZ_CP029152.1_43841_45770_+	PRK12740, PRK12740, elongation factor G-like protein EF-G2	NA|155aa|down_3|NZ_CP029152.1_46226_46691_+	COG4463, CtsR, Transcriptional repressor of class III stress genes [Transcription]	NA|165aa|down_4|NZ_CP029152.1_46697_47192_+	COG3880, COG3880, Modulator of heat shock repressor CtsR, McsA [Signal transduction    mechanisms]	NA|342aa|down_5|NZ_CP029152.1_47207_48233_+	PRK01059, PRK01059, ATP:guanido phosphotransferase; Provisional	NA|816aa|down_6|NZ_CP029152.1_48219_50667_+	COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]	NA|458aa|down_7|NZ_CP029152.1_50846_52220_+	PRK11823, PRK11823, DNA repair protein RadA; Provisional	NA|357aa|down_8|NZ_CP029152.1_52222_53293_+	PRK13482, PRK13482, DNA integrity scanning protein DisA; Provisional	NA|365aa|down_9|NZ_CP029152.1_53381_54476_+	COG4956, COG4956, Integral membrane protein (PIN domain superfamily) [General function prediction only]
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	2	671903-672027	2	CRISPRCasFinder	no	WYL	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Unclear	TGATGGTTGATAAGAATAGTAAGAAAAAAATAGATAATTAAAG	43	0	0	NA	NA	NA	1	1	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA|204aa|up_4|NZ_CP029152.1_666605_667217_+,NA|219aa|down_0|NZ_CP029152.1_672238_672895_+	NA|147aa|up_9|NZ_CP029152.1_662574_663015_+	cd00732, CheW, CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea	NA|268aa|up_8|NZ_CP029152.1_663050_663854_+	COG1352, CheR, Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]	NA|199aa|up_7|NZ_CP029152.1_663893_664490_+	cd16432, CheB_Rec, Chemotaxis response regulator protein-glutamate methylesterase, CheB, with N-terminal REC domain	NA|288aa|up_6|NZ_CP029152.1_664595_665459_+	pfam13739, DUF4163, Domain of unknown function (DUF4163)	NA|330aa|up_5|NZ_CP029152.1_665525_666515_+	PRK08618, PRK08618, ornithine cyclodeaminase family protein	NA|204aa|up_4|NZ_CP029152.1_666605_667217_+	NA	NA|260aa|up_3|NZ_CP029152.1_667663_668443_+	pfam06161, DUF975, Protein of unknown function (DUF975)	NA|120aa|up_2|NZ_CP029152.1_668647_669007_+	pfam03965, Penicillinase_R, Penicillinase repressor	NA|461aa|up_1|NZ_CP029152.1_669017_670400_+	cd07341, M56_BlaR1_MecR1_like, Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase	NA|137aa|up_0|NZ_CP029152.1_670615_671026_+	pfam02181, FH2, Formin Homology 2 Domain	NA|219aa|down_0|NZ_CP029152.1_672238_672895_+	NA	NA|424aa|down_1|NZ_CP029152.1_673365_674637_-	pfam01471, PG_binding_1, Putative peptidoglycan binding domain	NA|239aa|down_2|NZ_CP029152.1_674881_675598_+	pfam13367, PrsW-protease, Protease prsW family	NA|437aa|down_3|NZ_CP029152.1_675676_676987_+	PRK11933, yebU, rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed	NA|179aa|down_4|NZ_CP029152.1_677086_677623_+	TIGR02227, Inactive_signal_peptidase_IA	NA|179aa|down_5|NZ_CP029152.1_677788_678325_+	TIGR02227, Inactive_signal_peptidase_IA	NA|252aa|down_6|NZ_CP029152.1_678334_679090_+	pfam01261, AP_endonuc_2, Xylose isomerase-like TIM barrel	NA|556aa|down_7|NZ_CP029152.1_679163_680831_+	cd02028, UMPK_like, Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2	NA|310aa|down_8|NZ_CP029152.1_681786_682716_+	TIGR03814, Glutaminase_1, glutaminase A	NA|188aa|down_9|NZ_CP029152.1_682813_683377_+	pfam12840, HTH_20, Helix-turn-helix domain
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	3	840941-841031	3	CRISPRCasFinder	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	ATTGATGGTAAAAAATATTACTTTAAT	27	0	0	NA	NA	?	1	1	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA|58aa|up_5|NZ_CP029152.1_834984_835158_+,NA|101aa|down_3|NZ_CP029152.1_843997_844300_-	NA|127aa|up_9|NZ_CP029152.1_824646_825027_+	pfam03965, Penicillinase_R, Penicillinase repressor	NA|185aa|up_8|NZ_CP029152.1_826045_826600_+	COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]	NA|2368aa|up_7|NZ_CP029152.1_826930_834034_+	pfam12920, TcdA_TcdB_pore, TcdA/TcdB pore forming domain	NA|167aa|up_6|NZ_CP029152.1_834155_834656_+	TIGR01593, Uncharacterized_protein_CPE0383, toxin secretion/phage lysis holin	NA|58aa|up_5|NZ_CP029152.1_834984_835158_+	NA	NA|47aa|up_4|NZ_CP029152.1_835374_835515_+	cd16840, toxin_MLD, toxin effector region membrane localization domain	NA|86aa|up_3|NZ_CP029152.1_835548_835806_+	pfam12919, TcdA_TcdB, TcdA/TcdB catalytic glycosyltransferase domain	NA|142aa|up_2|NZ_CP029152.1_835775_836201_+	pfam12919, TcdA_TcdB, TcdA/TcdB catalytic glycosyltransferase domain	NA|336aa|up_1|NZ_CP029152.1_836233_837241_+	pfam12919, TcdA_TcdB, TcdA/TcdB catalytic glycosyltransferase domain	NA|835aa|up_0|NZ_CP029152.1_837258_839763_+	pfam12920, TcdA_TcdB_pore, TcdA/TcdB pore forming domain	NA|233aa|down_0|NZ_CP029152.1_842018_842717_-	pfam12569, NARP1, NMDA receptor-regulated protein 1	NA|82aa|down_1|NZ_CP029152.1_843133_843379_+	pfam11731, Cdd1, Pathogenicity locus	NA|90aa|down_2|NZ_CP029152.1_843596_843866_-	pfam12675, DUF3795, Protein of unknown function (DUF3795)	NA|101aa|down_3|NZ_CP029152.1_843997_844300_-	NA	NA|246aa|down_4|NZ_CP029152.1_844778_845516_-	COG4200, COG4200, Uncharacterized protein conserved in bacteria [Function unknown]	NA|254aa|down_5|NZ_CP029152.1_845527_846289_-	pfam12730, ABC2_membrane_4, ABC-2 family transporter protein	NA|305aa|down_6|NZ_CP029152.1_846288_847203_-	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]	NA|236aa|down_7|NZ_CP029152.1_847373_848081_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|469aa|down_8|NZ_CP029152.1_848125_849532_+	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|130aa|down_9|NZ_CP029152.1_850930_851320_+	pfam03965, Penicillinase_R, Penicillinase repressor
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	4	841157-841370	4	CRISPRCasFinder	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	ATTGATGGTAAAAAATATTACTTTAAT	27	0	0	NA	NA	?	3	3	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA|58aa|up_5|NZ_CP029152.1_834984_835158_+,NA|101aa|down_3|NZ_CP029152.1_843997_844300_-	NA|127aa|up_9|NZ_CP029152.1_824646_825027_+	pfam03965, Penicillinase_R, Penicillinase repressor	NA|185aa|up_8|NZ_CP029152.1_826045_826600_+	COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]	NA|2368aa|up_7|NZ_CP029152.1_826930_834034_+	pfam12920, TcdA_TcdB_pore, TcdA/TcdB pore forming domain	NA|167aa|up_6|NZ_CP029152.1_834155_834656_+	TIGR01593, Uncharacterized_protein_CPE0383, toxin secretion/phage lysis holin	NA|58aa|up_5|NZ_CP029152.1_834984_835158_+	NA	NA|47aa|up_4|NZ_CP029152.1_835374_835515_+	cd16840, toxin_MLD, toxin effector region membrane localization domain	NA|86aa|up_3|NZ_CP029152.1_835548_835806_+	pfam12919, TcdA_TcdB, TcdA/TcdB catalytic glycosyltransferase domain	NA|142aa|up_2|NZ_CP029152.1_835775_836201_+	pfam12919, TcdA_TcdB, TcdA/TcdB catalytic glycosyltransferase domain	NA|336aa|up_1|NZ_CP029152.1_836233_837241_+	pfam12919, TcdA_TcdB, TcdA/TcdB catalytic glycosyltransferase domain	NA|835aa|up_0|NZ_CP029152.1_837258_839763_+	pfam12920, TcdA_TcdB_pore, TcdA/TcdB pore forming domain	NA|233aa|down_0|NZ_CP029152.1_842018_842717_-	pfam12569, NARP1, NMDA receptor-regulated protein 1	NA|82aa|down_1|NZ_CP029152.1_843133_843379_+	pfam11731, Cdd1, Pathogenicity locus	NA|90aa|down_2|NZ_CP029152.1_843596_843866_-	pfam12675, DUF3795, Protein of unknown function (DUF3795)	NA|101aa|down_3|NZ_CP029152.1_843997_844300_-	NA	NA|246aa|down_4|NZ_CP029152.1_844778_845516_-	COG4200, COG4200, Uncharacterized protein conserved in bacteria [Function unknown]	NA|254aa|down_5|NZ_CP029152.1_845527_846289_-	pfam12730, ABC2_membrane_4, ABC-2 family transporter protein	NA|305aa|down_6|NZ_CP029152.1_846288_847203_-	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]	NA|236aa|down_7|NZ_CP029152.1_847373_848081_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|469aa|down_8|NZ_CP029152.1_848125_849532_+	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|130aa|down_9|NZ_CP029152.1_850930_851320_+	pfam03965, Penicillinase_R, Penicillinase repressor
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	5	841556-841648	5	CRISPRCasFinder	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	ATTGATGGTAAAAAATATTACTTTAAT	27	0	0	NA	NA	?	1	1	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA|58aa|up_5|NZ_CP029152.1_834984_835158_+,NA|101aa|down_3|NZ_CP029152.1_843997_844300_-	NA|127aa|up_9|NZ_CP029152.1_824646_825027_+	pfam03965, Penicillinase_R, Penicillinase repressor	NA|185aa|up_8|NZ_CP029152.1_826045_826600_+	COG1595, RpoE, DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]	NA|2368aa|up_7|NZ_CP029152.1_826930_834034_+	pfam12920, TcdA_TcdB_pore, TcdA/TcdB pore forming domain	NA|167aa|up_6|NZ_CP029152.1_834155_834656_+	TIGR01593, Uncharacterized_protein_CPE0383, toxin secretion/phage lysis holin	NA|58aa|up_5|NZ_CP029152.1_834984_835158_+	NA	NA|47aa|up_4|NZ_CP029152.1_835374_835515_+	cd16840, toxin_MLD, toxin effector region membrane localization domain	NA|86aa|up_3|NZ_CP029152.1_835548_835806_+	pfam12919, TcdA_TcdB, TcdA/TcdB catalytic glycosyltransferase domain	NA|142aa|up_2|NZ_CP029152.1_835775_836201_+	pfam12919, TcdA_TcdB, TcdA/TcdB catalytic glycosyltransferase domain	NA|336aa|up_1|NZ_CP029152.1_836233_837241_+	pfam12919, TcdA_TcdB, TcdA/TcdB catalytic glycosyltransferase domain	NA|835aa|up_0|NZ_CP029152.1_837258_839763_+	pfam12920, TcdA_TcdB_pore, TcdA/TcdB pore forming domain	NA|233aa|down_0|NZ_CP029152.1_842018_842717_-	pfam12569, NARP1, NMDA receptor-regulated protein 1	NA|82aa|down_1|NZ_CP029152.1_843133_843379_+	pfam11731, Cdd1, Pathogenicity locus	NA|90aa|down_2|NZ_CP029152.1_843596_843866_-	pfam12675, DUF3795, Protein of unknown function (DUF3795)	NA|101aa|down_3|NZ_CP029152.1_843997_844300_-	NA	NA|246aa|down_4|NZ_CP029152.1_844778_845516_-	COG4200, COG4200, Uncharacterized protein conserved in bacteria [Function unknown]	NA|254aa|down_5|NZ_CP029152.1_845527_846289_-	pfam12730, ABC2_membrane_4, ABC-2 family transporter protein	NA|305aa|down_6|NZ_CP029152.1_846288_847203_-	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]	NA|236aa|down_7|NZ_CP029152.1_847373_848081_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|469aa|down_8|NZ_CP029152.1_848125_849532_+	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|130aa|down_9|NZ_CP029152.1_850930_851320_+	pfam03965, Penicillinase_R, Penicillinase repressor
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	6	1619834-1620061	1,6,1	PILER-CR,CRISPRCasFinder,CRT	no	DinG	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Type IV-A	TGTTTTATATTAACTAAGTGGTATGTAAATAAAATAAAATT,GTTTTATATTAACTAAGTGGTATGTAAATA,GTTTTATATTAACTAAGTGGTATGTAAATA	41,30,30	0	0	NA	NA	I-A:I-A:I-A	2,3,3	3	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA,NA|80aa|down_4|NZ_CP029152.1_1627210_1627450_+	NA|195aa|up_9|NZ_CP029152.1_1609708_1610293_-	pfam00882, Zn_dep_PLPC, Zinc dependent phospholipase C	NA|477aa|up_8|NZ_CP029152.1_1610492_1611923_-	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|315aa|up_7|NZ_CP029152.1_1612250_1613195_+	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter	NA|312aa|up_6|NZ_CP029152.1_1613465_1614401_-	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only]	NA|198aa|up_5|NZ_CP029152.1_1614520_1615114_-	COG3247, HdeD, Uncharacterized conserved protein [Function unknown]	NA|143aa|up_4|NZ_CP029152.1_1615220_1615649_+	pfam04657, DMT_YdcZ, Putative inner membrane exporter, YdcZ	NA|223aa|up_3|NZ_CP029152.1_1615715_1616384_+	cd01994, Alpha_ANH_like_IV, This is a subfamily of Adenine nucleotide alpha hydrolases superfamily	NA|452aa|up_2|NZ_CP029152.1_1616501_1617857_-	cd13143, MATE_MepA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA	NA|165aa|up_1|NZ_CP029152.1_1618360_1618855_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|119aa|up_0|NZ_CP029152.1_1618950_1619307_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|578aa|down_0|NZ_CP029152.1_1620385_1622119_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|282aa|down_1|NZ_CP029152.1_1622355_1623201_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|745aa|down_2|NZ_CP029152.1_1623231_1625466_-	cd01948, EAL, EAL domain	NA|270aa|down_3|NZ_CP029152.1_1626248_1627058_+	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators	NA|80aa|down_4|NZ_CP029152.1_1627210_1627450_+	NA	NA|225aa|down_5|NZ_CP029152.1_1628304_1628979_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|185aa|down_6|NZ_CP029152.1_1629198_1629753_-	cd01014, nicotinamidase_related, Nicotinamidase_ related amidohydrolases	NA|122aa|down_7|NZ_CP029152.1_1629830_1630196_-	COG1733, COG1733, Predicted transcriptional regulators [Transcription]	NA|262aa|down_8|NZ_CP029152.1_1630660_1631446_+	COG3393, COG3393, Predicted acetyltransferase [General function prediction only]	NA|275aa|down_9|NZ_CP029152.1_1631541_1632366_-	cd10948, CE4_BsPdaA_like, Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	7	1729254-1729940	7,2	CRISPRCasFinder,CRT	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	GTTTTATATTAACTATATGGAATGTAAAT,GTTTTATATTAACTATATGGAATGTAAAT	29,29	0	0	NA	NA	I-A:I-A	10,10	10	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA|190aa|up_7|NZ_CP029152.1_1719408_1719978_+,NA|61aa|up_4|NZ_CP029152.1_1722661_1722844_-,NA|330aa|down_4|NZ_CP029152.1_1734831_1735821_+	NA|195aa|up_9|NZ_CP029152.1_1717767_1718352_+	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|300aa|up_8|NZ_CP029152.1_1718504_1719404_+	TIGR02163, Ferredoxin-type_protein_NapH_homolog, ferredoxin-type protein, NapH/MauN family	NA|190aa|up_7|NZ_CP029152.1_1719408_1719978_+	NA	NA|216aa|up_6|NZ_CP029152.1_1720144_1720792_-	pfam02589, LUD_dom, LUD domain	NA|305aa|up_5|NZ_CP029152.1_1721181_1722096_-	pfam11155, DUF2935, Domain of unknown function (DUF2935)	NA|61aa|up_4|NZ_CP029152.1_1722661_1722844_-	NA	NA|283aa|up_3|NZ_CP029152.1_1723254_1724103_-	PRK00380, panC, pantoate--beta-alanine ligase; Reviewed	NA|276aa|up_2|NZ_CP029152.1_1724121_1724949_-	PRK00311, panB, 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed	NA|308aa|up_1|NZ_CP029152.1_1724923_1725847_-	pfam10728, DUF2520, Domain of unknown function (DUF2520)	NA|698aa|up_0|NZ_CP029152.1_1726499_1728593_+	cd01948, EAL, EAL domain	NA|273aa|down_0|NZ_CP029152.1_1730588_1731407_+	cd04782, HTH_BltR, Helix-Turn-Helix DNA binding domain of the BltR transcription regulator	NA|707aa|down_1|NZ_CP029152.1_1731539_1733660_-	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]	NA|76aa|down_2|NZ_CP029152.1_1733685_1733913_-	pfam04023, FeoA, FeoA domain	NA|147aa|down_3|NZ_CP029152.1_1734239_1734680_-	COG2153, ElaA, Predicted acyltransferase [General function prediction only]	NA|330aa|down_4|NZ_CP029152.1_1734831_1735821_+	NA	NA|403aa|down_5|NZ_CP029152.1_1736297_1737506_+	PRK13354, PRK13354, tyrosyl-tRNA synthetase; Provisional	NA|294aa|down_6|NZ_CP029152.1_1737566_1738448_-	cd10944, CE4_SmPgdA_like, Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins	NA|315aa|down_7|NZ_CP029152.1_1738833_1739778_+	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_8|NZ_CP029152.1_1740000_1740546_+	cd01046, Rubrerythrin_like, rubrerythrin-like, diiron-binding domain	NA|383aa|down_9|NZ_CP029152.1_1740636_1741785_+	COG2006, COG2006, Uncharacterized conserved protein [Function unknown]
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	8	1820723-1821017	2,8,3	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	GTTTTAGATTAACTATATGGAATGTAAAT,GTTTTAGATTAACTATATGGAATGTAAA,GTTTTAGATTAACTATATGGAATGTAAAT	29,28,29	0	0	NA	NA	I-A:NA:I-A	3,4,4	4	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA|300aa|up_8|NZ_CP029152.1_1814266_1815166_+,NA|134aa|up_6|NZ_CP029152.1_1815408_1815810_+,NA|116aa|up_5|NZ_CP029152.1_1815803_1816151_+,NA|146aa|up_3|NZ_CP029152.1_1816568_1817006_+,NA|58aa|down_1|NZ_CP029152.1_1822190_1822364_+	NA|188aa|up_9|NZ_CP029152.1_1813691_1814255_+	pfam06810, Phage_GP20, Phage minor structural protein GP20	NA|300aa|up_8|NZ_CP029152.1_1814266_1815166_+	NA	NA|78aa|up_7|NZ_CP029152.1_1815165_1815399_+	TIGR03752, conj_TIGR03752, integrating conjugative element protein, PFL_4705 family	NA|134aa|up_6|NZ_CP029152.1_1815408_1815810_+	NA	NA|116aa|up_5|NZ_CP029152.1_1815803_1816151_+	NA	NA|142aa|up_4|NZ_CP029152.1_1816150_1816576_+	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component	NA|146aa|up_3|NZ_CP029152.1_1816568_1817006_+	NA	NA|437aa|up_2|NZ_CP029152.1_1817175_1818486_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_1|NZ_CP029152.1_1818502_1818973_+	pfam09393, DUF2001, Phage tail tube protein	NA|147aa|up_0|NZ_CP029152.1_1819044_1819485_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|251aa|down_0|NZ_CP029152.1_1821134_1821887_+	pfam09851, SHOCT, Short C-terminal domain	NA|58aa|down_1|NZ_CP029152.1_1822190_1822364_+	NA	NA|276aa|down_2|NZ_CP029152.1_1822487_1823315_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|193aa|down_3|NZ_CP029152.1_1823952_1824531_+	pfam00542, Ribosomal_L12, Ribosomal protein L7/L12 C-terminal domain	NA|789aa|down_4|NZ_CP029152.1_1824606_1826973_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|234aa|down_5|NZ_CP029152.1_1826988_1827690_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|655aa|down_6|NZ_CP029152.1_1827682_1829647_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_7|NZ_CP029152.1_1829660_1829921_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_8|NZ_CP029152.1_1829925_1830345_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|349aa|down_9|NZ_CP029152.1_1830345_1831392_+	pfam04865, Baseplate_J, Baseplate J-like protein
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	9	1823617-1823842	4,9,3	CRT,CRISPRCasFinder,PILER-CR	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	GTTTTATATTAACTATGTGGTATGTAAAT,TTTTATATTAACTATGTGGTATGTAAAT,TTTTATATTAACTATGTGGTATGTAAATA	29,28,29	0	0	NA	NA	I-A:I-A:I-A	3,3,2	3	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA|134aa|up_9|NZ_CP029152.1_1815408_1815810_+,NA|116aa|up_8|NZ_CP029152.1_1815803_1816151_+,NA|146aa|up_6|NZ_CP029152.1_1816568_1817006_+,NA|58aa|up_1|NZ_CP029152.1_1822190_1822364_+,NA|116aa|down_9|NZ_CP029152.1_1834755_1835103_+	NA|134aa|up_9|NZ_CP029152.1_1815408_1815810_+	NA	NA|116aa|up_8|NZ_CP029152.1_1815803_1816151_+	NA	NA|142aa|up_7|NZ_CP029152.1_1816150_1816576_+	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component	NA|146aa|up_6|NZ_CP029152.1_1816568_1817006_+	NA	NA|437aa|up_5|NZ_CP029152.1_1817175_1818486_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_4|NZ_CP029152.1_1818502_1818973_+	pfam09393, DUF2001, Phage tail tube protein	NA|147aa|up_3|NZ_CP029152.1_1819044_1819485_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|251aa|up_2|NZ_CP029152.1_1821134_1821887_+	pfam09851, SHOCT, Short C-terminal domain	NA|58aa|up_1|NZ_CP029152.1_1822190_1822364_+	NA	NA|276aa|up_0|NZ_CP029152.1_1822487_1823315_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|193aa|down_0|NZ_CP029152.1_1823952_1824531_+	pfam00542, Ribosomal_L12, Ribosomal protein L7/L12 C-terminal domain	NA|789aa|down_1|NZ_CP029152.1_1824606_1826973_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|234aa|down_2|NZ_CP029152.1_1826988_1827690_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|655aa|down_3|NZ_CP029152.1_1827682_1829647_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_4|NZ_CP029152.1_1829660_1829921_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_5|NZ_CP029152.1_1829925_1830345_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|349aa|down_6|NZ_CP029152.1_1830345_1831392_+	pfam04865, Baseplate_J, Baseplate J-like protein	NA|206aa|down_7|NZ_CP029152.1_1831384_1832002_+	pfam10076, DUF2313, Uncharacterized protein conserved in bacteria (DUF2313)	NA|331aa|down_8|NZ_CP029152.1_1832013_1833006_+	pfam12571, DUF3751, Phage tail-collar fibre protein	NA|116aa|down_9|NZ_CP029152.1_1834755_1835103_+	NA
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	10	1965007-1965426	4,10,5	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	GTTTTATATTAACTATGTGGTATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	6,6,6	6	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA|72aa|up_0|NZ_CP029152.1_1964595_1964811_+,NA|96aa|down_0|NZ_CP029152.1_1965832_1966120_+,NA|341aa|down_5|NZ_CP029152.1_1973249_1974272_+,NA|258aa|down_7|NZ_CP029152.1_1975178_1975952_+	NA|266aa|up_9|NZ_CP029152.1_1948949_1949747_-	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|329aa|up_8|NZ_CP029152.1_1950056_1951043_-	TIGR00545, Probable_lipoate-protein_ligase_A, lipoyltransferase and lipoate-protein ligase	NA|577aa|up_7|NZ_CP029152.1_1951525_1953256_+	COG1757, NhaC, Na+/H+ antiporter [Energy production and conversion]	NA|172aa|up_6|NZ_CP029152.1_1953780_1954296_+	pfam13787, HXXEE, Protein of unknown function with HXXEE motif	NA|825aa|up_5|NZ_CP029152.1_1955085_1957560_+	PRK00451, PRK00451, aminomethyl-transferring glycine dehydrogenase subunit GcvPA	NA|486aa|up_4|NZ_CP029152.1_1957559_1959017_+	PRK04366, PRK04366, aminomethyl-transferring glycine dehydrogenase subunit GcvPB	NA|786aa|up_3|NZ_CP029152.1_1959439_1961797_+	cd02609, P-type_ATPase, uncharacterized subfamily of P-type ATPase transporter, similar to uncharacterized Streptococcus pneumoniae exported protein 7, Exp7	NA|106aa|up_2|NZ_CP029152.1_1961882_1962200_-	pfam06865, DUF1255, Protein of unknown function (DUF1255)	NA|424aa|up_1|NZ_CP029152.1_1963090_1964362_-	cd01303, GDEase, Guanine deaminase (GDEase)	NA|72aa|up_0|NZ_CP029152.1_1964595_1964811_+	NA	NA|96aa|down_0|NZ_CP029152.1_1965832_1966120_+	NA	NA|184aa|down_1|NZ_CP029152.1_1966658_1967210_-	cd02209, cupin_XRE_C, XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain	NA|321aa|down_2|NZ_CP029152.1_1967400_1968363_+	cd01561, CBS_like, CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase	NA|615aa|down_3|NZ_CP029152.1_1968654_1970499_+	cd08579, GDPD_memb_like, Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases	NA|195aa|down_4|NZ_CP029152.1_1970819_1971404_+	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|341aa|down_5|NZ_CP029152.1_1973249_1974272_+	NA	NA|296aa|down_6|NZ_CP029152.1_1974285_1975173_+	cd03264, ABC_drug_resistance_like, ABC-type multidrug transport system, ATPase component	NA|258aa|down_7|NZ_CP029152.1_1975178_1975952_+	NA	NA|242aa|down_8|NZ_CP029152.1_1976063_1976789_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|468aa|down_9|NZ_CP029152.1_1976792_1978196_+	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	11	2793211-2793371	11,5	CRISPRCasFinder,PILER-CR	no	cas3,cas5,cas7,cas6,c2c9_V-U4	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Unclear	TGAAATCCACTTAGTTAATCTTAAAC,TAGGTTTAAGATTAACTAAGTGGATTTCA	26,29	0	0	NA	NA	NA:NA	2,2	2	Unclear	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA,NA|489aa|down_3|NZ_CP029152.1_2797792_2799259_-	NA|448aa|up_9|NZ_CP029152.1_2785667_2787011_-	pfam06898, YqfD, Putative stage IV sporulation protein YqfD	NA|79aa|up_8|NZ_CP029152.1_2787023_2787260_-	pfam07873, YabP, YabP family	NA|188aa|up_7|NZ_CP029152.1_2787474_2788038_-	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|NZ_CP029152.1_2788230_2788728_-	cd15904, TSPO_MBR, Translocator protein (TSPO)/peripheral-type benzodiazepine receptor (MBR) family	NA|148aa|up_5|NZ_CP029152.1_2788838_2789282_-	pfam09424, YqeY, Yqey-like protein	NA|60aa|up_4|NZ_CP029152.1_2789311_2789491_-	PRK00270, rpsU, 30S ribosomal protein S21; Reviewed	NA|117aa|up_3|NZ_CP029152.1_2789653_2790004_-	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|NZ_CP029152.1_2790046_2791345_-	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|253aa|up_1|NZ_CP029152.1_2791346_2792105_-	PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional	NA|316aa|up_0|NZ_CP029152.1_2792123_2793071_-	pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA)	cas3|803aa|down_0|NZ_CP029152.1_2793511_2795920_-	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	cas5|266aa|down_1|NZ_CP029152.1_2795946_2796744_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|338aa|down_2|NZ_CP029152.1_2796759_2797773_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	NA|489aa|down_3|NZ_CP029152.1_2797792_2799259_-	NA	cas6|246aa|down_4|NZ_CP029152.1_2799263_2800001_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	c2c9_V-U4|388aa|down_5|NZ_CP029152.1_2800809_2801973_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|370aa|down_6|NZ_CP029152.1_2802125_2803235_+	PRK11650, ugpC, sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC	NA|256aa|down_7|NZ_CP029152.1_2803264_2804032_+	COG2508, COG2508, Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]	NA|458aa|down_8|NZ_CP029152.1_2804219_2805593_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|312aa|down_9|NZ_CP029152.1_2805628_2806564_-	COG1940, NagC, Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	12	2882960-2883248	6,6	CRT,PILER-CR	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	ANTCCATATAGTNTAATATAAAAC,GGTTTTATATTAACTATATGGAATGTAAATT	24,31	0	0	NA	NA	NA:I-A	4,3	4	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA,NA	NA|406aa|up_9|NZ_CP029152.1_2872846_2874064_-	PRK08198, PRK08198, threonine dehydratase; Provisional	NA|543aa|up_8|NZ_CP029152.1_2874721_2876350_+	TIGR03801, For_A_Pyridoxal-5-_Phosphate, aspartate 4-decarboxylase	NA|332aa|up_7|NZ_CP029152.1_2876470_2877466_+	cd08964, L-asparaginase_II, Type II (periplasmic) bacterial L-asparaginase	NA|128aa|up_6|NZ_CP029152.1_2877650_2878034_-	pfam03965, Penicillinase_R, Penicillinase repressor	NA|67aa|up_5|NZ_CP029152.1_2878815_2879016_+	COG1278, CspC, Cold shock proteins [Transcription]	NA|446aa|up_4|NZ_CP029152.1_2879446_2880784_+	cd16935, HATPase_AgrC-ComD-like, Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Staphylococcus aureus AgrC and Streptococcus pneumoniae ComD which are involved in quorum sensing	NA|194aa|up_3|NZ_CP029152.1_2880826_2881408_+	pfam04647, AgrB, Accessory gene regulator B	NA|54aa|up_2|NZ_CP029152.1_2881425_2881587_+	TIGR04223, quorum_AgrD, cyclic lactone autoinducer peptide	NA|266aa|up_1|NZ_CP029152.1_2881608_2882406_-	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|87aa|up_0|NZ_CP029152.1_2882402_2882663_-	pfam16079, Phage_holin_5_2, Phage holin family Hol44, in holin superfamily V	NA|457aa|down_0|NZ_CP029152.1_2884048_2885419_-	NF033435, S-layer_Clost, S-layer protein SlpA	NA|141aa|down_1|NZ_CP029152.1_2885817_2886240_+	pfam14659, Phage_int_SAM_3, Phage integrase, N-terminal SAM-like domain	NA|223aa|down_2|NZ_CP029152.1_2887225_2887894_-	pfam04892, VanZ, VanZ like family	NA|128aa|down_3|NZ_CP029152.1_2887992_2888376_-	smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|807aa|down_4|NZ_CP029152.1_2888775_2891196_-	PRK00390, leuS, leucyl-tRNA synthetase; Validated	NA|117aa|down_5|NZ_CP029152.1_2891549_2891900_-	pfam02410, RsfS, Ribosomal silencing factor during starvation	NA|191aa|down_6|NZ_CP029152.1_2892016_2892589_-	COG1713, COG1713, Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]	NA|230aa|down_7|NZ_CP029152.1_2892589_2893279_-	PRK00071, nadD, nicotinate-nucleotide adenylyltransferase	NA|213aa|down_8|NZ_CP029152.1_2893554_2894193_+	PRK00117, recX, recombination regulator RecX; Reviewed	NA|668aa|down_9|NZ_CP029152.1_2894345_2896349_+	PLN02447, PLN02447, 1,4-alpha-glucan-branching enzyme
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	13	3115800-3116065	12	CRISPRCasFinder	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	TTACCATCTATTTGTTGCCATCCTGT	26	0	0	NA	NA	NA	4	4	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA,NA|107aa|down_2|NZ_CP029152.1_3118988_3119309_-,NA|664aa|down_3|NZ_CP029152.1_3119298_3121290_-,NA|458aa|down_7|NZ_CP029152.1_3131977_3133351_-	NA|218aa|up_9|NZ_CP029152.1_3100789_3101443_-	COG1357, COG1357, Pentapeptide repeats containing protein [Function unknown]	NA|448aa|up_8|NZ_CP029152.1_3101945_3103289_+	COG2252, COG2252, Xanthine/uracil/vitamin C permease [Nucleotide transport and    metabolism]	NA|455aa|up_7|NZ_CP029152.1_3103466_3104831_+	cd01298, ATZ_TRZ_like, TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases	NA|622aa|up_6|NZ_CP029152.1_3105005_3106871_-	smart00910, HIRAN, The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p	NA|403aa|up_5|NZ_CP029152.1_3107115_3108324_-	cd17396, MFS_YdiM_like, Inner membrane transport protein YdiM and similar proteins of the Major Facilitator Superfamily of transporters	NA|288aa|up_4|NZ_CP029152.1_3108523_3109387_-	PRK12548, PRK12548, shikimate dehydrogenase	NA|641aa|up_3|NZ_CP029152.1_3109468_3111391_-	TIGR03997, NADH:flavin_oxidoreductase, mycofactocin system FadH/OYE family oxidoreductase 2	NA|283aa|up_2|NZ_CP029152.1_3111469_3112318_-	COG1082, IolE, Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]	NA|294aa|up_1|NZ_CP029152.1_3112731_3113613_+	cd08434, PBP2_GltC_like, The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold	NA|270aa|up_0|NZ_CP029152.1_3113820_3114630_-	cd01027, TOPRIM_RNase_M5_like, TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea	NA|338aa|down_0|NZ_CP029152.1_3116884_3117898_-	PLN02240, PLN02240, UDP-glucose 4-epimerase	NA|292aa|down_1|NZ_CP029152.1_3117921_3118797_-	COG1210, GalU, UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]	NA|107aa|down_2|NZ_CP029152.1_3118988_3119309_-	NA	NA|664aa|down_3|NZ_CP029152.1_3119298_3121290_-	NA	NA|854aa|down_4|NZ_CP029152.1_3121412_3123974_-	PTZ00121, PTZ00121, MAEBL; Provisional	NA|226aa|down_5|NZ_CP029152.1_3124717_3125395_+	cd05826, Sortase_B, Sortase domain found in class B sortases	NA|313aa|down_6|NZ_CP029152.1_3130679_3131618_+	cd10948, CE4_BsPdaA_like, Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs	NA|458aa|down_7|NZ_CP029152.1_3131977_3133351_-	NA	NA|441aa|down_8|NZ_CP029152.1_3133537_3134860_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|235aa|down_9|NZ_CP029152.1_3134852_3135557_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	14	3170551-3170793	13	CRISPRCasFinder	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	TTTCTTTTACAGCTTCTAAACATATA	26	0	0	NA	NA	NA	3	3	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA,NA|222aa|down_0|NZ_CP029152.1_3172085_3172751_+	NA|205aa|up_9|NZ_CP029152.1_3158645_3159260_-	cd06262, metallo-hydrolase-like_MBL-fold, mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain	NA|150aa|up_8|NZ_CP029152.1_3159274_3159724_-	PRK05273, PRK05273, D-tyrosyl-tRNA(Tyr) deacylase; Provisional	NA|736aa|up_7|NZ_CP029152.1_3159748_3161956_-	COG0317, SpoT, Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]	NA|171aa|up_6|NZ_CP029152.1_3162029_3162542_-	PRK02304, PRK02304, adenine phosphoribosyltransferase; Provisional	NA|817aa|up_5|NZ_CP029152.1_3162554_3165005_-	TIGR00644, recJ, single-stranded-DNA-specific exonuclease RecJ	NA|555aa|up_4|NZ_CP029152.1_3165017_3166682_-	COG0661, AarF, Predicted unusual protein kinase [General function prediction only]	NA|166aa|up_3|NZ_CP029152.1_3166979_3167477_-	cd04645, LbH_gamma_CA_like, Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E	NA|460aa|up_2|NZ_CP029152.1_3167505_3168885_-	TIGR03974, six-Cys-in-45_modification_radical_SAM_protein, SCIFF radical SAM maturase	NA|49aa|up_1|NZ_CP029152.1_3169189_3169336_-	TIGR04223, quorum_AgrD, cyclic lactone autoinducer peptide	NA|193aa|up_0|NZ_CP029152.1_3169365_3169944_-	pfam04647, AgrB, Accessory gene regulator B	NA|222aa|down_0|NZ_CP029152.1_3172085_3172751_+	NA	NA|571aa|down_1|NZ_CP029152.1_3173543_3175256_-	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]	NA|87aa|down_2|NZ_CP029152.1_3175608_3175869_-	pfam00381, PTS-HPr, PTS HPr component phosphorylation site	NA|404aa|down_3|NZ_CP029152.1_3176060_3177272_-	cd07209, Pat_hypo_Ecoli_Z1214_like, Hypothetical patatin similar to Z1214 protein of Escherichia coli	NA|578aa|down_4|NZ_CP029152.1_3177503_3179237_-	NF033452, BREX_1_MTaseX, BREX-1 system adenine-specific DNA-methyltransferase PglX	NA|133aa|down_5|NZ_CP029152.1_3179275_3179674_-	COG1959, COG1959, Predicted transcriptional regulator [Transcription]	NA|516aa|down_6|NZ_CP029152.1_3179676_3181224_-	cd01948, EAL, EAL domain	NA|302aa|down_7|NZ_CP029152.1_3181537_3182443_-	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|215aa|down_8|NZ_CP029152.1_3182485_3183130_-	cd00475, Cis_IPPS, Cis (Z)-Isoprenyl Diphosphate Synthases	NA|157aa|down_9|NZ_CP029152.1_3183268_3183739_+	pfam14270, DUF4358, Domain of unknown function (DUF4358)
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	15	3170965-3171189	14	CRISPRCasFinder	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	TTTCTTTTACAGCTTCTAAACATATA	26	0	0	NA	NA	NA	3	3	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA,NA|222aa|down_0|NZ_CP029152.1_3172085_3172751_+	NA|205aa|up_9|NZ_CP029152.1_3158645_3159260_-	cd06262, metallo-hydrolase-like_MBL-fold, mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain	NA|150aa|up_8|NZ_CP029152.1_3159274_3159724_-	PRK05273, PRK05273, D-tyrosyl-tRNA(Tyr) deacylase; Provisional	NA|736aa|up_7|NZ_CP029152.1_3159748_3161956_-	COG0317, SpoT, Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]	NA|171aa|up_6|NZ_CP029152.1_3162029_3162542_-	PRK02304, PRK02304, adenine phosphoribosyltransferase; Provisional	NA|817aa|up_5|NZ_CP029152.1_3162554_3165005_-	TIGR00644, recJ, single-stranded-DNA-specific exonuclease RecJ	NA|555aa|up_4|NZ_CP029152.1_3165017_3166682_-	COG0661, AarF, Predicted unusual protein kinase [General function prediction only]	NA|166aa|up_3|NZ_CP029152.1_3166979_3167477_-	cd04645, LbH_gamma_CA_like, Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E	NA|460aa|up_2|NZ_CP029152.1_3167505_3168885_-	TIGR03974, six-Cys-in-45_modification_radical_SAM_protein, SCIFF radical SAM maturase	NA|49aa|up_1|NZ_CP029152.1_3169189_3169336_-	TIGR04223, quorum_AgrD, cyclic lactone autoinducer peptide	NA|193aa|up_0|NZ_CP029152.1_3169365_3169944_-	pfam04647, AgrB, Accessory gene regulator B	NA|222aa|down_0|NZ_CP029152.1_3172085_3172751_+	NA	NA|571aa|down_1|NZ_CP029152.1_3173543_3175256_-	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]	NA|87aa|down_2|NZ_CP029152.1_3175608_3175869_-	pfam00381, PTS-HPr, PTS HPr component phosphorylation site	NA|404aa|down_3|NZ_CP029152.1_3176060_3177272_-	cd07209, Pat_hypo_Ecoli_Z1214_like, Hypothetical patatin similar to Z1214 protein of Escherichia coli	NA|578aa|down_4|NZ_CP029152.1_3177503_3179237_-	NF033452, BREX_1_MTaseX, BREX-1 system adenine-specific DNA-methyltransferase PglX	NA|133aa|down_5|NZ_CP029152.1_3179275_3179674_-	COG1959, COG1959, Predicted transcriptional regulator [Transcription]	NA|516aa|down_6|NZ_CP029152.1_3179676_3181224_-	cd01948, EAL, EAL domain	NA|302aa|down_7|NZ_CP029152.1_3181537_3182443_-	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|215aa|down_8|NZ_CP029152.1_3182485_3183130_-	cd00475, Cis_IPPS, Cis (Z)-Isoprenyl Diphosphate Synthases	NA|157aa|down_9|NZ_CP029152.1_3183268_3183739_+	pfam14270, DUF4358, Domain of unknown function (DUF4358)
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	16	3171391-3171482	15	CRISPRCasFinder	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	TTTCTTTTACAGCTTCTAAACATATA	26	0	0	NA	NA	NA	1	1	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA,NA|222aa|down_0|NZ_CP029152.1_3172085_3172751_+	NA|205aa|up_9|NZ_CP029152.1_3158645_3159260_-	cd06262, metallo-hydrolase-like_MBL-fold, mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain	NA|150aa|up_8|NZ_CP029152.1_3159274_3159724_-	PRK05273, PRK05273, D-tyrosyl-tRNA(Tyr) deacylase; Provisional	NA|736aa|up_7|NZ_CP029152.1_3159748_3161956_-	COG0317, SpoT, Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]	NA|171aa|up_6|NZ_CP029152.1_3162029_3162542_-	PRK02304, PRK02304, adenine phosphoribosyltransferase; Provisional	NA|817aa|up_5|NZ_CP029152.1_3162554_3165005_-	TIGR00644, recJ, single-stranded-DNA-specific exonuclease RecJ	NA|555aa|up_4|NZ_CP029152.1_3165017_3166682_-	COG0661, AarF, Predicted unusual protein kinase [General function prediction only]	NA|166aa|up_3|NZ_CP029152.1_3166979_3167477_-	cd04645, LbH_gamma_CA_like, Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E	NA|460aa|up_2|NZ_CP029152.1_3167505_3168885_-	TIGR03974, six-Cys-in-45_modification_radical_SAM_protein, SCIFF radical SAM maturase	NA|49aa|up_1|NZ_CP029152.1_3169189_3169336_-	TIGR04223, quorum_AgrD, cyclic lactone autoinducer peptide	NA|193aa|up_0|NZ_CP029152.1_3169365_3169944_-	pfam04647, AgrB, Accessory gene regulator B	NA|222aa|down_0|NZ_CP029152.1_3172085_3172751_+	NA	NA|571aa|down_1|NZ_CP029152.1_3173543_3175256_-	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]	NA|87aa|down_2|NZ_CP029152.1_3175608_3175869_-	pfam00381, PTS-HPr, PTS HPr component phosphorylation site	NA|404aa|down_3|NZ_CP029152.1_3176060_3177272_-	cd07209, Pat_hypo_Ecoli_Z1214_like, Hypothetical patatin similar to Z1214 protein of Escherichia coli	NA|578aa|down_4|NZ_CP029152.1_3177503_3179237_-	NF033452, BREX_1_MTaseX, BREX-1 system adenine-specific DNA-methyltransferase PglX	NA|133aa|down_5|NZ_CP029152.1_3179275_3179674_-	COG1959, COG1959, Predicted transcriptional regulator [Transcription]	NA|516aa|down_6|NZ_CP029152.1_3179676_3181224_-	cd01948, EAL, EAL domain	NA|302aa|down_7|NZ_CP029152.1_3181537_3182443_-	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|215aa|down_8|NZ_CP029152.1_3182485_3183130_-	cd00475, Cis_IPPS, Cis (Z)-Isoprenyl Diphosphate Synthases	NA|157aa|down_9|NZ_CP029152.1_3183268_3183739_+	pfam14270, DUF4358, Domain of unknown function (DUF4358)
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	17	3276491-3276651	16	CRISPRCasFinder	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	TCTTCTGATGGTGGTATTGGTGGATT	26	0	0	NA	NA	NA	2	2	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA|459aa|up_7|NZ_CP029152.1_3267543_3268920_+,NA|59aa|down_1|NZ_CP029152.1_3281002_3281179_-	NA|216aa|up_9|NZ_CP029152.1_3265442_3266090_-	COG3314, COG3314, Uncharacterized protein conserved in bacteria [Function unknown]	NA|391aa|up_8|NZ_CP029152.1_3266103_3267276_-	cd03885, M20_CPDG2, M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme	NA|459aa|up_7|NZ_CP029152.1_3267543_3268920_+	NA	NA|278aa|up_6|NZ_CP029152.1_3269168_3270002_-	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators	NA|177aa|up_5|NZ_CP029152.1_3270328_3270859_-	pfam12641, Flavodoxin_3, Flavodoxin domain	NA|365aa|up_4|NZ_CP029152.1_3270946_3272041_-	cd02803, OYE_like_FMN_family, Old yellow enzyme (OYE)-like FMN binding domain	NA|149aa|up_3|NZ_CP029152.1_3272042_3272489_-	COG1846, MarR, Transcriptional regulators [Transcription]	NA|397aa|up_2|NZ_CP029152.1_3272794_3273985_+	PRK06836, PRK06836, pyridoxal phosphate-dependent aminotransferase	NA|321aa|up_1|NZ_CP029152.1_3274154_3275117_+	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter	NA|221aa|up_0|NZ_CP029152.1_3275237_3275900_-	cd20183, M34_PPEP, Pro-Pro endopeptidase (PPEP) and similar proteins; belongs to peptidase family M34	NA|393aa|down_0|NZ_CP029152.1_3279519_3280698_-	COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]	NA|59aa|down_1|NZ_CP029152.1_3281002_3281179_-	NA	NA|463aa|down_2|NZ_CP029152.1_3281241_3282630_-	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|467aa|down_3|NZ_CP029152.1_3282776_3284177_+	COG0076, GadB, Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]	NA|925aa|down_4|NZ_CP029152.1_3284234_3287009_-	COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and metabolism]	NA|419aa|down_5|NZ_CP029152.1_3287180_3288437_-	PRK00011, glyA, serine hydroxymethyltransferase; Reviewed	NA|517aa|down_6|NZ_CP029152.1_3288508_3290059_-	COG2978, AbgT, Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]	NA|397aa|down_7|NZ_CP029152.1_3290101_3291292_-	cd03886, M20_Acy1, M20 Peptidase Aminoacylase 1 family	NA|363aa|down_8|NZ_CP029152.1_3291531_3292620_-	COG3949, COG3949, Uncharacterized membrane protein [Function unknown]	NA|233aa|down_9|NZ_CP029152.1_3292904_3293603_-	cd17536, REC_YesN-like, phosphoacceptor receiver (REC) domain of YesN and related helix-turn-helix containing response regulators
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	18	3773862-3774065	17	CRISPRCasFinder	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	TCATCATATAAACCTATTAAATATTATCTTATTTATTGGTATATGGAAT	49	0	0	NA	NA	NA	1	1	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA,NA	NA|82aa|up_9|NZ_CP029152.1_3762849_3763095_-	pfam00269, SASP, Small, acid-soluble spore proteins, alpha/beta type	NA|373aa|up_8|NZ_CP029152.1_3763225_3764344_-	cd05670, M20_Acy1_YkuR-like, M20 Peptidase aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins	NA|398aa|up_7|NZ_CP029152.1_3764549_3765743_-	TIGR00720, hypothetical_protein_NEICINOT_00681, L-serine dehydratase, iron-sulfur-dependent, single chain form	NA|294aa|up_6|NZ_CP029152.1_3766065_3766947_+	PRK03170, PRK03170, dihydrodipicolinate synthase; Provisional	NA|334aa|up_5|NZ_CP029152.1_3767376_3768378_+	PRK14874, PRK14874, aspartate-semialdehyde dehydrogenase; Provisional	NA|296aa|up_4|NZ_CP029152.1_3768494_3769382_+	PRK03170, PRK03170, dihydrodipicolinate synthase; Provisional	NA|250aa|up_3|NZ_CP029152.1_3769448_3770198_+	PRK00048, PRK00048, dihydrodipicolinate reductase; Provisional	NA|239aa|up_2|NZ_CP029152.1_3770416_3771133_+	TIGR03532, DapD_Ac, 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase	NA|330aa|up_1|NZ_CP029152.1_3771563_3772553_-	cd03402, SPFH_like_u2, Uncharacterized family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily	NA|252aa|up_0|NZ_CP029152.1_3772992_3773748_+	PRK00048, PRK00048, dihydrodipicolinate reductase; Provisional	NA|556aa|down_0|NZ_CP029152.1_3774180_3775848_-	PRK13875, PRK13875, conjugal transfer protein TrbL; Provisional	NA|180aa|down_1|NZ_CP029152.1_3776026_3776566_-	COG0634, Hpt, Hypoxanthine-guanine phosphoribosyltransferase [Nucleotide transport and metabolism]	NA|436aa|down_2|NZ_CP029152.1_3776893_3778201_-	COG3681, COG3681, L-cysteine desulfidase [Amino acid transport and metabolism]	NA|592aa|down_3|NZ_CP029152.1_3778612_3780388_-	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|190aa|down_4|NZ_CP029152.1_3780599_3781169_-	COG2226, UbiE, Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]	NA|212aa|down_5|NZ_CP029152.1_3781352_3781988_-	PRK05813, PRK05813, single-stranded DNA-binding protein; Provisional	NA|294aa|down_6|NZ_CP029152.1_3782655_3783537_-	pfam01925, TauE, Sulfite exporter TauE/SafE	NA|336aa|down_7|NZ_CP029152.1_3783656_3784664_-	PRK13969, PRK13969, proline racemase; Provisional	NA|161aa|down_8|NZ_CP029152.1_3784683_3785166_-	TIGR04480, D-proline_reductase_PrdA_proprotein, D-proline reductase (dithiol), PrdA proprotein	NA|156aa|down_9|NZ_CP029152.1_3785183_3785651_-	TIGR04480, D-proline_reductase_PrdA_proprotein, D-proline reductase (dithiol), PrdA proprotein
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	19	3774598-3775179	7	CRT	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	TGCTCCGGTTGGNCCTGTTGNTCC	24	0	0	NA	NA	NA	9	9	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA,NA	NA|82aa|up_9|NZ_CP029152.1_3762849_3763095_-	pfam00269, SASP, Small, acid-soluble spore proteins, alpha/beta type	NA|373aa|up_8|NZ_CP029152.1_3763225_3764344_-	cd05670, M20_Acy1_YkuR-like, M20 Peptidase aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins	NA|398aa|up_7|NZ_CP029152.1_3764549_3765743_-	TIGR00720, hypothetical_protein_NEICINOT_00681, L-serine dehydratase, iron-sulfur-dependent, single chain form	NA|294aa|up_6|NZ_CP029152.1_3766065_3766947_+	PRK03170, PRK03170, dihydrodipicolinate synthase; Provisional	NA|334aa|up_5|NZ_CP029152.1_3767376_3768378_+	PRK14874, PRK14874, aspartate-semialdehyde dehydrogenase; Provisional	NA|296aa|up_4|NZ_CP029152.1_3768494_3769382_+	PRK03170, PRK03170, dihydrodipicolinate synthase; Provisional	NA|250aa|up_3|NZ_CP029152.1_3769448_3770198_+	PRK00048, PRK00048, dihydrodipicolinate reductase; Provisional	NA|239aa|up_2|NZ_CP029152.1_3770416_3771133_+	TIGR03532, DapD_Ac, 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase	NA|330aa|up_1|NZ_CP029152.1_3771563_3772553_-	cd03402, SPFH_like_u2, Uncharacterized family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily	NA|252aa|up_0|NZ_CP029152.1_3772992_3773748_+	PRK00048, PRK00048, dihydrodipicolinate reductase; Provisional	NA|180aa|down_0|NZ_CP029152.1_3776026_3776566_-	COG0634, Hpt, Hypoxanthine-guanine phosphoribosyltransferase [Nucleotide transport and metabolism]	NA|436aa|down_1|NZ_CP029152.1_3776893_3778201_-	COG3681, COG3681, L-cysteine desulfidase [Amino acid transport and metabolism]	NA|592aa|down_2|NZ_CP029152.1_3778612_3780388_-	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|190aa|down_3|NZ_CP029152.1_3780599_3781169_-	COG2226, UbiE, Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]	NA|212aa|down_4|NZ_CP029152.1_3781352_3781988_-	PRK05813, PRK05813, single-stranded DNA-binding protein; Provisional	NA|294aa|down_5|NZ_CP029152.1_3782655_3783537_-	pfam01925, TauE, Sulfite exporter TauE/SafE	NA|336aa|down_6|NZ_CP029152.1_3783656_3784664_-	PRK13969, PRK13969, proline racemase; Provisional	NA|161aa|down_7|NZ_CP029152.1_3784683_3785166_-	TIGR04480, D-proline_reductase_PrdA_proprotein, D-proline reductase (dithiol), PrdA proprotein	NA|156aa|down_8|NZ_CP029152.1_3785183_3785651_-	TIGR04480, D-proline_reductase_PrdA_proprotein, D-proline reductase (dithiol), PrdA proprotein	NA|253aa|down_9|NZ_CP029152.1_3785665_3786424_-	TIGR04482, D_pro_red_PrdD, proline reductase cluster protein PrdD
GCF_003095695.1_ASM309569v1	NZ_CP029152	Clostridioides difficile strain CDT4 chromosome, complete genome	20	4093693-4093827	18	CRISPRCasFinder	no		csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	Orphan	GTTGCTTAAAGTGCTAACGCACAGCGCCAAC	31	1	2	4093724-4093796|4093724-4093796	NZ_CP029152.1_32190-32118|NZ_CP029152.1_1210032-1209960	NA	1	1	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA,NA|65aa|down_0|NZ_CP029152.1_4095709_4095904_-	NA|477aa|up_9|NZ_CP029152.1_4081465_4082896_+	PRK09243, PRK09243, nicotinate phosphoribosyltransferase; Validated	NA|143aa|up_8|NZ_CP029152.1_4082932_4083361_+	COG1522, Lrp, Transcriptional regulators [Transcription]	NA|235aa|up_7|NZ_CP029152.1_4083548_4084253_-	TIGR02692, putative_tRNA_nucleotidyltransferase, tRNA adenylyltransferase	NA|278aa|up_6|NZ_CP029152.1_4084275_4085109_-	cd11648, RsmI, Ribosomal RNA small subunit methyltransferase I (RsmI), also known as rRNA (cytidine-2'-O-)-methyltransferase	NA|249aa|up_5|NZ_CP029152.1_4085109_4085856_-	COG4123, COG4123, Predicted O-methyltransferase [General function prediction only]	NA|298aa|up_4|NZ_CP029152.1_4085933_4086827_-	COG1774, COG1774, Uncharacterized homolog of PSP1 [Function unknown]	NA|312aa|up_3|NZ_CP029152.1_4086823_4087759_-	PRK05564, PRK05564, DNA polymerase III subunit delta'; Validated	NA|230aa|up_2|NZ_CP029152.1_4087761_4088451_-	COG0125, Tmk, Thymidylate kinase [Nucleotide transport and metabolism]	NA|470aa|up_1|NZ_CP029152.1_4088571_4089981_-	COG1982, LdcC, Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]	NA|64aa|up_0|NZ_CP029152.1_4090135_4090327_-	pfam04070, DUF378, Domain of unknown function (DUF378)	NA|65aa|down_0|NZ_CP029152.1_4095709_4095904_-	NA	NA|510aa|down_1|NZ_CP029152.1_4096212_4097742_-	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed	NA|160aa|down_2|NZ_CP029152.1_4097756_4098236_-	PRK00226, greA, transcription elongation factor GreA; Reviewed	NA|323aa|down_3|NZ_CP029152.1_4098344_4099313_-	TIGR00737, Probable_tRNA-dihydrouridine_synthase, putative TIM-barrel protein, nifR3 family	NA|257aa|down_4|NZ_CP029152.1_4099449_4100220_-	PRK13318, PRK13318, type III pantothenate kinase	NA|197aa|down_5|NZ_CP029152.1_4100238_4100829_-	COG4684, COG4684, Predicted membrane protein [Function unknown]	NA|323aa|down_6|NZ_CP029152.1_4101011_4101980_-	cd02252, nylC_like, nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC	NA|326aa|down_7|NZ_CP029152.1_4101972_4102950_-	PRK11886, PRK11886, bifunctional biotin--[acetyl-CoA-carboxylase] ligase/biotin operon repressor BirA	NA|657aa|down_8|NZ_CP029152.1_4103271_4105242_-	TIGR01241, ATP-dependent_zinc_metalloprotease_FtsH, ATP-dependent metalloprotease FtsH	NA|143aa|down_9|NZ_CP029152.1_4106847_4107276_-	pfam09148, DUF1934, Domain of unknown function (DUF1934)
GCF_003095695.1_ASM309569v1	NZ_CP029153	Clostridioides difficile strain CDT4 plasmid unnamed1, complete sequence	1	46467-46565	1	CRISPRCasFinder	no			Orphan	GTCACAAATCGGACATTTTTTAG	23	0	0	NA	NA	NA	1	1	Orphan	csa3,cas14j,PD-DExK,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,c2c9_V-U4	NA|308aa|up_9|NZ_CP029153.1_38058_38982_-,NA|109aa|up_7|NZ_CP029153.1_39638_39965_-,NA|68aa|up_4|NZ_CP029153.1_42053_42257_-,NA|580aa|up_3|NZ_CP029153.1_42257_43997_-,NA|182aa|up_0|NZ_CP029153.1_45872_46418_-,NA|86aa|down_0|NZ_CP029153.1_47113_47371_-,NA|162aa|down_1|NZ_CP029153.1_47390_47876_-,NA|87aa|down_2|NZ_CP029153.1_47899_48160_-	NA|308aa|up_9|NZ_CP029153.1_38058_38982_-	NA	NA|201aa|up_8|NZ_CP029153.1_39010_39613_-	pfam14265, DUF4355, Domain of unknown function (DUF4355)	NA|109aa|up_7|NZ_CP029153.1_39638_39965_-	NA	NA|254aa|up_6|NZ_CP029153.1_40024_40786_-	TIGR01641, Uncharacterized_protein_MJ0329, phage putative head morphogenesis protein, SPP1 gp7 family	NA|426aa|up_5|NZ_CP029153.1_40763_42041_-	pfam05133, Phage_prot_Gp6, Phage portal protein, SPP1 Gp6-like	NA|68aa|up_4|NZ_CP029153.1_42053_42257_-	NA	NA|580aa|up_3|NZ_CP029153.1_42257_43997_-	NA	NA|153aa|up_2|NZ_CP029153.1_44551_45010_-	pfam13518, HTH_28, Helix-turn-helix domain	NA|215aa|up_1|NZ_CP029153.1_45224_45869_-	cd01192, INT_C_like_3, Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain	NA|182aa|up_0|NZ_CP029153.1_45872_46418_-	NA	NA|86aa|down_0|NZ_CP029153.1_47113_47371_-	NA	NA|162aa|down_1|NZ_CP029153.1_47390_47876_-	NA	NA|87aa|down_2|NZ_CP029153.1_47899_48160_-	NA	NA|NA	NA	NA|NA	NA	NA|NA	NA	NA|NA	NA	NA|NA	NA	NA|NA	NA	NA|NA	NA
