assembly_id	genome_id	genome_def	crispr_array_locus_merge	crispr_array_location_merge	crispr_locus_id	crispr_pred_method	array_in_prot	prot_within_array_20000	prot_in_genome	crispr_type_by_cas_prot	consensus_repeat	repeat_length	self-targeting_spacer_number	self-targeting_target_number	spacer_location	protospacer_location	repeat_type	spacer_locus_num	spacer_num	correct_crispr_type	genome_cas_prots	unknown_protein_around_crispr	L10	L10_domain	L9	L9_domain	L8	L8_domain	L7	L7_domain	L6	L6_domain	L5	L5_domain	L4	L4_domain	L3	L3_domain	L2	L2_domain	L1	L1_domain	R1	R1_domain	R2	R2_domain	R3	R3_domain	R4	R4_domain	R5	R5_domain	R6	R6_domain	R7	R7_domain	R8	R8_domain	R9	R9_domain	R10	R10_domain
GCA_002946535.2_ASM294653v2	CP026615	Clostridioides difficile strain R3 chromosome, complete genome	1	780487-782608	1,1,1	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|257aa|down_1|CP026615.2_783559_784330_-,NA|67aa|down_7|CP026615.2_789501_789702_-	NA|639aa|up_9|CP026615.2_768750_770667_+	pfam02687, FtsX, FtsX-like permease family	WYL|306aa|up_8|CP026615.2_770945_771863_+	pfam13280, WYL, WYL domain	cas6|246aa|up_7|CP026615.2_771940_772678_+	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	cas8b2|617aa|up_6|CP026615.2_772683_774534_+	pfam09706, Cas_CXXC_CXXC, CRISPR-associated protein (Cas_CXXC_CXXC)	cas7|305aa|up_5|CP026615.2_774535_775450_+	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas5|234aa|up_4|CP026615.2_775451_776153_+	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas3|774aa|up_3|CP026615.2_776163_778485_+	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas4|173aa|up_2|CP026615.2_778532_779051_+	pfam01930, Cas_Cas4, Domain of unknown function DUF83	cas1|327aa|up_1|CP026615.2_779053_780034_+	TIGR03641, cas1_HMARI, CRISPR-associated endonuclease Cas1, subtype I-B/HMARI/TNEAP	cas2|89aa|up_0|CP026615.2_780036_780303_+	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	NA|143aa|down_0|CP026615.2_782668_783097_+	PRK10562, PRK10562, putative acetyltransferase; Provisional	NA|257aa|down_1|CP026615.2_783559_784330_-	NA	NA|182aa|down_2|CP026615.2_784653_785199_+	pfam02632, BioY, BioY family	NA|379aa|down_3|CP026615.2_785219_786356_+	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_4|CP026615.2_786359_787751_+	cd17633, AFD_YhfT-like, fatty acid-CoA ligase VraA	NA|292aa|down_5|CP026615.2_787826_788702_+	PRK08306, PRK08306, dipicolinate synthase subunit DpsA	NA|197aa|down_6|CP026615.2_788704_789295_+	PRK08305, spoVFB, dipicolinate synthase subunit B; Reviewed	NA|67aa|down_7|CP026615.2_789501_789702_-	NA	NA|885aa|down_8|CP026615.2_790205_792860_+	PRK13805, PRK13805, bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional	NA|740aa|down_9|CP026615.2_793135_795355_+	cd01948, EAL, EAL domain
GCA_002946535.2_ASM294653v2	CP026615	Clostridioides difficile strain R3 chromosome, complete genome	5	1733088-1735751	2,2,5	CRT,PILER-CR,CRISPRCasFinder	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	40,38,39	40	TypeI-B	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA|194aa|up_6|CP026615.2_1724443_1725025_-,NA|69aa|up_5|CP026615.2_1725460_1725667_-,NA|275aa|down_7|CP026615.2_1742677_1743502_+,NA|35aa|down_8|CP026615.2_1743759_1743864_+	NA|38aa|up_9|CP026615.2_1722039_1722153_+	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|33aa|up_8|CP026615.2_1722242_1722341_+	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|607aa|up_7|CP026615.2_1722538_1724359_+	cd01948, EAL, EAL domain	NA|194aa|up_6|CP026615.2_1724443_1725025_-	NA	NA|69aa|up_5|CP026615.2_1725460_1725667_-	NA	cas6|232aa|up_4|CP026615.2_1726210_1726906_+	TIGR01877, CRISPR-associated_endoribonuclease_Cas6_1, CRISPR-associated endoribonuclease Cas6	cas8b1|587aa|up_3|CP026615.2_1726896_1728657_+	TIGR02591, cas_Csh1, CRISPR-associated protein Cas8b/Csh1, subtype I-B/HMARI	cas7b|330aa|up_2|CP026615.2_1728649_1729639_+	pfam05107, Cas_Cas7, CRISPR-associated protein Cas7	cas5|247aa|up_1|CP026615.2_1729640_1730381_+	TIGR02592, hypothetical_protein_CTC_01466, CRISPR-associated protein Cas5, subtype I-B/HMARI	cas3|853aa|up_0|CP026615.2_1730404_1732963_+	cd09639, Cas3_I, CRISPR/Cas system-associated protein Cas3	cas4|165aa|down_0|CP026615.2_1735835_1736330_+	pfam01930, Cas_Cas4, Domain of unknown function DUF83	cas1|333aa|down_1|CP026615.2_1736364_1737363_+	cd09722, Cas1_I-B, CRISPR/Cas system-associated protein Cas1	cas2|97aa|down_2|CP026615.2_1737573_1737864_+	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	NA|68aa|down_3|CP026615.2_1738553_1738757_+	COG3655, COG3655, Predicted transcriptional regulator [Transcription]	NA|385aa|down_4|CP026615.2_1738920_1740075_+	PRK05447, PRK05447, 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional	NA|335aa|down_5|CP026615.2_1740087_1741092_+	pfam02163, Peptidase_M50, Peptidase family M50	NA|352aa|down_6|CP026615.2_1741274_1742330_+	pfam04551, GcpE, GcpE protein	NA|275aa|down_7|CP026615.2_1742677_1743502_+	NA	NA|35aa|down_8|CP026615.2_1743759_1743864_+	NA	NA|375aa|down_9|CP026615.2_1743975_1745100_-	pfam12725, DUF3810, Protein of unknown function (DUF3810)
GCA_002946535.2_ASM294653v2	CP026615	Clostridioides difficile strain R3 chromosome, complete genome	6	1845853-1846819	3,6,3	PILER-CR,CRISPRCasFinder,CRT	no		cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Orphan	GTTTTATATTAACTAAGTGGTATGTAAAT,GTTTTATATTAACTAAGTGGTATGTAAAT,NNNNNNGTTTTATATTAACTAAGTGGTATGTAAAT	29,29,35	0	0	NA	NA	I-A:I-A:I-A	10,13,14	14	Orphan	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA|216aa|up_9|CP026615.2_1836787_1837435_+,NA|80aa|up_8|CP026615.2_1837605_1837845_+,NA|98aa|down_0|CP026615.2_1847447_1847741_+,NA|58aa|down_1|CP026615.2_1848649_1848823_-,NA|53aa|down_4|CP026615.2_1849766_1849925_-	NA|216aa|up_9|CP026615.2_1836787_1837435_+	NA	NA|80aa|up_8|CP026615.2_1837605_1837845_+	NA	NA|398aa|up_7|CP026615.2_1837795_1838989_+	PRK06635, PRK06635, aspartate kinase; Reviewed	NA|431aa|up_6|CP026615.2_1839006_1840299_+	cd06828, PLPDE_III_DapDC, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase	NA|219aa|up_5|CP026615.2_1840513_1841170_+	pfam03154, Atrophin-1, Atrophin-1 family	NA|362aa|up_4|CP026615.2_1841323_1842409_-	COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]	NA|239aa|up_3|CP026615.2_1842599_1843316_+	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|193aa|up_2|CP026615.2_1843372_1843951_+	pfam06962, rRNA_methylase, Putative rRNA methylase	NA|291aa|up_1|CP026615.2_1844344_1845217_+	COG1737, RpiR, Transcriptional regulators [Transcription]	NA|62aa|up_0|CP026615.2_1845369_1845555_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|98aa|down_0|CP026615.2_1847447_1847741_+	NA	NA|58aa|down_1|CP026615.2_1848649_1848823_-	NA	NA|72aa|down_2|CP026615.2_1848965_1849181_-	COG3655, COG3655, Predicted transcriptional regulator [Transcription]	NA|156aa|down_3|CP026615.2_1849191_1849659_-	pfam11188, DUF2975, Protein of unknown function (DUF2975)	NA|53aa|down_4|CP026615.2_1849766_1849925_-	NA	NA|233aa|down_5|CP026615.2_1850644_1851343_-	TIGR03502, lipase_Pla1_cef, extracellular lipase, Pla-1/cef family	NA|186aa|down_6|CP026615.2_1851600_1852158_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|158aa|down_7|CP026615.2_1852538_1853012_-	pfam13673, Acetyltransf_10, Acetyltransferase (GNAT) domain	NA|256aa|down_8|CP026615.2_1853304_1854072_+	pfam14268, YoaP, YoaP-like	NA|345aa|down_9|CP026615.2_1854749_1855784_+	PRK00436, argC, N-acetyl-gamma-glutamyl-phosphate reductase; Validated
GCA_002946535.2_ASM294653v2	CP026615	Clostridioides difficile strain R3 chromosome, complete genome	7	1893615-1896545	4,7,4,5	PILER-CR,CRISPRCasFinder,CRT,PILER-CR	no	csa3	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	Type I-A	GTTTTATATTAACTATGTGGTATGTAAAG,GTTTTATATTAACTATGTGGTATGTAAAG,GTTTTATATTAACTATGTGGTATGTAAAG,GTTTTATATTAACTATGTGGTATGTAAAG	29,29,29,29	0	0	NA	NA	I-A:I-A:I-A:I-A	42,44,44,42	44	Orphan	cas3,cas14j,WYL,csa3,cas6,cas8b2,cas7,cas5,cas4,cas1,cas2,DEDDh,cas8b1,cas7b,cas14k,RT,DinG	NA|45aa|up_8|CP026615.2_1887236_1887371_+,NA|20aa|up_7|CP026615.2_1887541_1887601_-,NA|55aa|up_4|CP026615.2_1890032_1890197_+,NA|81aa|up_1|CP026615.2_1892421_1892664_-,NA|51aa|up_0|CP026615.2_1893183_1893336_+,NA|78aa|down_1|CP026615.2_1897635_1897869_+,NA|86aa|down_2|CP026615.2_1897855_1898113_+,NA|127aa|down_3|CP026615.2_1898105_1898486_+,NA|41aa|down_4|CP026615.2_1899279_1899402_+,NA|125aa|down_5|CP026615.2_1899484_1899859_-,NA|124aa|down_7|CP026615.2_1901217_1901589_+,NA|86aa|down_8|CP026615.2_1901727_1901985_+,NA|95aa|down_9|CP026615.2_1902307_1902592_+	NA|251aa|up_9|CP026615.2_1886273_1887026_+	PRK10621, PRK10621, hypothetical protein; Provisional	NA|45aa|up_8|CP026615.2_1887236_1887371_+	NA	NA|20aa|up_7|CP026615.2_1887541_1887601_-	NA	csa3|99aa|up_6|CP026615.2_1887991_1888288_+	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|214aa|up_5|CP026615.2_1888268_1888910_+	COG5658, COG5658, Predicted integral membrane protein [Function unknown]	NA|55aa|up_4|CP026615.2_1890032_1890197_+	NA	NA|282aa|up_3|CP026615.2_1890420_1891266_-	pfam13026, DUF3887, Protein of unknown function (DUF3887)	NA|182aa|up_2|CP026615.2_1891810_1892356_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|81aa|up_1|CP026615.2_1892421_1892664_-	NA	NA|51aa|up_0|CP026615.2_1893183_1893336_+	NA	NA|63aa|down_0|CP026615.2_1897259_1897448_-	smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|78aa|down_1|CP026615.2_1897635_1897869_+	NA	NA|86aa|down_2|CP026615.2_1897855_1898113_+	NA	NA|127aa|down_3|CP026615.2_1898105_1898486_+	NA	NA|41aa|down_4|CP026615.2_1899279_1899402_+	NA	NA|125aa|down_5|CP026615.2_1899484_1899859_-	NA	NA|191aa|down_6|CP026615.2_1900202_1900775_+	pfam10543, ORF6N, ORF6N domain	NA|124aa|down_7|CP026615.2_1901217_1901589_+	NA	NA|86aa|down_8|CP026615.2_1901727_1901985_+	NA	NA|95aa|down_9|CP026615.2_1902307_1902592_+	NA
GCA_002946535.2_ASM294653v2	CP026615	Clostridioides difficile strain R3 chromosome, complete genome	8	2347809-2348957	6,8,5	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|CP026615.2_2337505_2338279_-,NA|341aa|up_5|CP026615.2_2339184_2340207_-,NA|59aa|up_4|CP026615.2_2341255_2341432_+,NA|96aa|up_0|CP026615.2_2346950_2347238_-,NA	NA|468aa|up_9|CP026615.2_2335261_2336665_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|242aa|up_8|CP026615.2_2336668_2337394_-	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|CP026615.2_2337505_2338279_-	NA	NA|296aa|up_6|CP026615.2_2338284_2339172_-	cd03264, ABC_drug_resistance_like, ABC-type multidrug transport system, ATPase component	NA|341aa|up_5|CP026615.2_2339184_2340207_-	NA	NA|59aa|up_4|CP026615.2_2341255_2341432_+	NA	NA|616aa|up_3|CP026615.2_2342583_2344431_-	cd08579, GDPD_memb_like, Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases	NA|321aa|up_2|CP026615.2_2344711_2345674_-	cd01561, CBS_like, CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase	NA|184aa|up_1|CP026615.2_2345864_2346416_+	cd02209, cupin_XRE_C, XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain	NA|96aa|up_0|CP026615.2_2346950_2347238_-	NA	NA|52aa|down_0|CP026615.2_2349199_2349355_+	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	cas14j|373aa|down_1|CP026615.2_2351160_2352279_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|106aa|down_2|CP026615.2_2353381_2353699_+	pfam06865, DUF1255, Protein of unknown function (DUF1255)	NA|786aa|down_3|CP026615.2_2353783_2356141_-	cd02609, P-type_ATPase, uncharacterized subfamily of P-type ATPase transporter, similar to uncharacterized Streptococcus pneumoniae exported protein 7, Exp7	NA|486aa|down_4|CP026615.2_2356558_2358016_-	PRK04366, PRK04366, aminomethyl-transferring glycine dehydrogenase subunit GcvPB	NA|825aa|down_5|CP026615.2_2358015_2360490_-	PRK00451, PRK00451, aminomethyl-transferring glycine dehydrogenase subunit GcvPA	NA|577aa|down_6|CP026615.2_2361772_2363503_-	COG1757, NhaC, Na+/H+ antiporter [Energy production and conversion]	NA|329aa|down_7|CP026615.2_2363986_2364973_+	TIGR00545, Probable_lipoate-protein_ligase_A, lipoyltransferase and lipoate-protein ligase	NA|266aa|down_8|CP026615.2_2365282_2366080_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|200aa|down_9|CP026615.2_2366182_2366782_+	COG4110, COG4110, Uncharacterized protein involved in stress response [General function prediction only]
GCA_002946535.2_ASM294653v2	CP026615	Clostridioides difficile strain R3 chromosome, complete genome	9	2513657-2513754	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|74aa|up_8|CP026615.2_2506663_2506885_-,NA|51aa|up_6|CP026615.2_2508155_2508308_-,NA|40aa|up_2|CP026615.2_2510463_2510583_-,NA	NA|166aa|up_9|CP026615.2_2506049_2506547_-	pfam07275, ArdA, Antirestriction protein (ArdA)	NA|74aa|up_8|CP026615.2_2506663_2506885_-	NA	NA|402aa|up_7|CP026615.2_2506927_2508133_-	pfam02486, Rep_trans, Replication initiation factor	NA|51aa|up_6|CP026615.2_2508155_2508308_-	NA	NA|462aa|up_5|CP026615.2_2508310_2509696_-	COG1674, FtsK, DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]	NA|129aa|up_4|CP026615.2_2509724_2510111_-	pfam06125, DUF961, Bacterial protein of unknown function (DUF961)	NA|105aa|up_3|CP026615.2_2510126_2510441_-	pfam06125, DUF961, Bacterial protein of unknown function (DUF961)	NA|40aa|up_2|CP026615.2_2510463_2510583_-	NA	NA|646aa|up_1|CP026615.2_2510798_2512736_-	pfam02687, FtsX, FtsX-like permease family	NA|256aa|up_0|CP026615.2_2512722_2513490_-	COG1136, SalX, ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]	NA|225aa|down_0|CP026615.2_2513777_2514452_+	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|CP026615.2_2514475_2515480_+	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|CP026615.2_2515590_2516823_+	COG0845, AcrA, Membrane-fusion protein [Cell envelope biogenesis, outer membrane]	NA|225aa|down_3|CP026615.2_2516830_2517505_+	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|CP026615.2_2517507_2518740_+	COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]	NA|422aa|down_5|CP026615.2_2519024_2520290_-	PRK09357, pyrC, dihydroorotase; Validated	NA|383aa|down_6|CP026615.2_2520342_2521491_-	COG2006, COG2006, Uncharacterized conserved protein [Function unknown]	NA|182aa|down_7|CP026615.2_2521581_2522127_-	cd01046, Rubrerythrin_like, rubrerythrin-like, diiron-binding domain	NA|305aa|down_8|CP026615.2_2522349_2523264_-	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|CP026615.2_2523679_2524561_+	cd10944, CE4_SmPgdA_like, Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins
GCA_002946535.2_ASM294653v2	CP026615	Clostridioides difficile strain R3 chromosome, complete genome	10	2849402-2850028	7,10,6	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	2849761-2849798	CP026615.2_4052380-4052417	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|65aa|up_8|CP026615.2_2844960_2845155_+,NA|220aa|up_3|CP026615.2_2847289_2847949_+,NA|63aa|up_2|CP026615.2_2848406_2848595_+,NA|84aa|up_1|CP026615.2_2848759_2849011_-,NA|53aa|down_0|CP026615.2_2850314_2850473_-,NA|271aa|down_2|CP026615.2_2852095_2852908_-	NA|139aa|up_9|CP026615.2_2844051_2844468_+	PRK05803, PRK05803, RNA polymerase sporulation sigma factor SigK	NA|65aa|up_8|CP026615.2_2844960_2845155_+	NA	NA|170aa|up_7|CP026615.2_2845263_2845773_-	pfam04892, VanZ, VanZ like family	NA|55aa|up_6|CP026615.2_2846308_2846473_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|56aa|up_5|CP026615.2_2846488_2846656_+	pfam12642, TpcC, Conjugative transposon protein TcpC	NA|146aa|up_4|CP026615.2_2846796_2847234_+	COG1846, MarR, Transcriptional regulators [Transcription]	NA|220aa|up_3|CP026615.2_2847289_2847949_+	NA	NA|63aa|up_2|CP026615.2_2848406_2848595_+	NA	NA|84aa|up_1|CP026615.2_2848759_2849011_-	NA	NA|45aa|up_0|CP026615.2_2849189_2849324_+	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|53aa|down_0|CP026615.2_2850314_2850473_-	NA	NA|482aa|down_1|CP026615.2_2850610_2852056_-	NF033435, S-layer_Clost, S-layer protein SlpA	NA|271aa|down_2|CP026615.2_2852095_2852908_-	NA	NA|505aa|down_3|CP026615.2_2853089_2854604_+	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|555aa|down_4|CP026615.2_2855011_2856676_-	COG0768, FtsI, Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]	NA|416aa|down_5|CP026615.2_2856747_2857995_-	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|225aa|down_6|CP026615.2_2857981_2858656_-	COG4122, COG4122, Predicted O-methyltransferase [General function prediction only]	NA|360aa|down_7|CP026615.2_2858827_2859907_-	pfam02618, YceG, YceG-like family	NA|447aa|down_8|CP026615.2_2860119_2861460_-	TIGR02644, Thymidine_phosphorylase, pyrimidine-nucleoside phosphorylase	NA|271aa|down_9|CP026615.2_2861647_2862460_-	cd09009, PNP-EcPNPII_like, purine nucleoside phosphorylases similar to human PNP and Escherichia coli PNP-II (XapA)
GCA_002946535.2_ASM294653v2	CP026615	Clostridioides difficile strain R3 chromosome, complete genome	12	3944591-3944670	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_5|CP026615.2_3927250_3927928_-,NA|40aa|up_2|CP026615.2_3930108_3930228_-,NA	NA|186aa|up_9|CP026615.2_3924574_3925132_-	pfam01558, POR, Pyruvate ferredoxin/flavodoxin oxidoreductase	NA|251aa|up_8|CP026615.2_3925132_3925885_-	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_7|CP026615.2_3925884_3926964_-	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated	NA|72aa|up_6|CP026615.2_3926992_3927208_-	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|226aa|up_5|CP026615.2_3927250_3927928_-	NA	NA|360aa|up_4|CP026615.2_3927917_3928997_-	PRK03011, PRK03011, butyrate kinase; Provisional	NA|301aa|up_3|CP026615.2_3929018_3929921_-	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|40aa|up_2|CP026615.2_3930108_3930228_-	NA	NA|394aa|up_1|CP026615.2_3930224_3931406_-	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|280aa|up_0|CP026615.2_3931402_3932242_-	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|180aa|down_0|CP026615.2_3945149_3945689_-	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|784aa|down_1|CP026615.2_3945710_3948062_-	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|395aa|down_2|CP026615.2_3948434_3949619_+	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|235aa|down_3|CP026615.2_3962101_3962806_-	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|131aa|down_4|CP026615.2_3963314_3963707_-	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|144aa|down_5|CP026615.2_3963735_3964167_-	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|244aa|down_6|CP026615.2_3964286_3965018_-	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|268aa|down_7|CP026615.2_3965050_3965854_-	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|289aa|down_8|CP026615.2_3965847_3966714_-	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|278aa|down_9|CP026615.2_3966701_3967535_-	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase
GCA_002946535.2_ASM294653v2	CP026615	Clostridioides difficile strain R3 chromosome, complete genome	13	4062498-4062583	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	4062522-4062559|4062522-4062559|4062522-4062559|4062522-4062559|4062522-4062559|4062522-4062559|4062522-4062559|4062522-4062559|4062522-4062559|4062522-4062559	CP026615.2_145046-145009|CP026615.2_275527-275490|CP026615.2_1028646-1028609|CP026615.2_3046147-3046184|CP026615.2_4082294-4082331|CP026615.2_3937192-3937229|CP026615.2_3942606-3942643|CP026615.2_3953167-3953204|CP026615.2_3960051-3960088|CP026615.2_4076754-4076791	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|CP026615.2_4054858_4055272_-,NA|74aa|down_1|CP026615.2_4065945_4066167_-	NA|365aa|up_9|CP026615.2_4040238_4041333_-	COG4956, COG4956, Integral membrane protein (PIN domain superfamily) [General function prediction only]	NA|357aa|up_8|CP026615.2_4041421_4042492_-	PRK13482, PRK13482, DNA integrity scanning protein DisA; Provisional	NA|458aa|up_7|CP026615.2_4042494_4043868_-	PRK11823, PRK11823, DNA repair protein RadA; Provisional	NA|816aa|up_6|CP026615.2_4044047_4046495_-	COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]	NA|342aa|up_5|CP026615.2_4046481_4047507_-	PRK01059, PRK01059, ATP:guanido phosphotransferase; Provisional	NA|165aa|up_4|CP026615.2_4047522_4048017_-	COG3880, COG3880, Modulator of heat shock repressor CtsR, McsA [Signal transduction    mechanisms]	NA|155aa|up_3|CP026615.2_4048023_4048488_-	COG4463, CtsR, Transcriptional repressor of class III stress genes [Transcription]	NA|643aa|up_2|CP026615.2_4048944_4050873_-	PRK12740, PRK12740, elongation factor G-like protein EF-G2	NA|1144aa|up_1|CP026615.2_4051114_4054546_-	PRK12999, PRK12999, pyruvate carboxylase; Reviewed	NA|138aa|up_0|CP026615.2_4054858_4055272_-	NA	NA|402aa|down_0|CP026615.2_4064669_4065875_+	cd17507, GT28_Beta-DGS-like, beta-diglucosyldiacylglycerol synthase and similar proteins	NA|74aa|down_1|CP026615.2_4065945_4066167_-	NA	NA|200aa|down_2|CP026615.2_4066308_4066908_-	PRK00076, recR, recombination protein RecR; Reviewed	NA|117aa|down_3|CP026615.2_4066920_4067271_-	PRK00153, PRK00153, YbaB/EbfC family nucleoid-associated protein	NA|546aa|down_4|CP026615.2_4067329_4068967_-	PRK05563, PRK05563, DNA polymerase III subunits gamma and tau; Validated	NA|152aa|down_5|CP026615.2_4069437_4069893_-	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|424aa|down_6|CP026615.2_4070214_4071486_-	PRK05431, PRK05431, seryl-tRNA synthetase; Provisional	NA|294aa|down_7|CP026615.2_4071944_4072826_-	PRK10334, PRK10334, small-conductance mechanosensitive channel MscS	NA|176aa|down_8|CP026615.2_4072837_4073365_-	COG1827, COG1827, Predicted small molecule binding protein (contains 3H domain) [General function prediction only]	NA|258aa|down_9|CP026615.2_4084081_4084855_-	TIGR02980, SigBFG, RNA polymerase sigma-70 factor, sigma-B/F/G subfamily
