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_003482345.1_ASM348234v1	CP019857	Clostridioides difficile strain DSM 29745 chromosome, complete genome	1	146625-146703	1	CRISPRCasFinder	no		csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Orphan	TGTTTATAATGTGGATAATATTTAA	25	0	0	NA	NA	NA	1	1	Orphan	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA,NA|226aa|down_4|CP019857.1_163584_164262_+	NA|278aa|up_9|CP019857.1_123713_124547_+	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase	NA|289aa|up_8|CP019857.1_124534_125401_+	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|268aa|up_7|CP019857.1_125394_126198_+	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|244aa|up_6|CP019857.1_126229_126961_+	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|144aa|up_5|CP019857.1_127080_127512_+	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|131aa|up_4|CP019857.1_127540_127933_+	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|251aa|up_3|CP019857.1_128391_129144_+	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|395aa|up_2|CP019857.1_141674_142859_-	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|784aa|up_1|CP019857.1_143231_145583_+	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|180aa|up_0|CP019857.1_145604_146144_+	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|280aa|down_0|CP019857.1_159270_160110_+	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|394aa|down_1|CP019857.1_160106_161288_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|301aa|down_2|CP019857.1_161591_162494_+	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|360aa|down_3|CP019857.1_162515_163595_+	PRK03011, PRK03011, butyrate kinase; Provisional	NA|226aa|down_4|CP019857.1_163584_164262_+	NA	NA|72aa|down_5|CP019857.1_164304_164520_+	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|360aa|down_6|CP019857.1_164548_165628_+	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated	NA|251aa|down_7|CP019857.1_165627_166380_+	cd03375, TPP_OGFOR, Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor	NA|186aa|down_8|CP019857.1_166380_166938_+	pfam01558, POR, Pyruvate ferredoxin/flavodoxin oxidoreductase	NA|449aa|down_9|CP019857.1_167107_168454_+	PRK14316, glmM, phosphoglucosamine mutase; Provisional
GCA_003482345.1_ASM348234v1	CP019857	Clostridioides difficile strain DSM 29745 chromosome, complete genome	2	1290628-1290855	1,2,1	PILER-CR,CRISPRCasFinder,CRT	no		csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Orphan	GTTTTATATTAACTATGTGGTATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	2,3,3	3	Orphan	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA,NA|59aa|down_1|CP019857.1_1291871_1292048_+,NA|73aa|down_6|CP019857.1_1294361_1294580_+,NA|54aa|down_7|CP019857.1_1294694_1294856_+,NA|81aa|down_8|CP019857.1_1295058_1295301_+,NA|106aa|down_9|CP019857.1_1295431_1295749_+	NA|391aa|up_9|CP019857.1_1276893_1278066_+	PRK05362, PRK05362, phosphopentomutase; Provisional	NA|271aa|up_8|CP019857.1_1278112_1278925_+	cd09009, PNP-EcPNPII_like, purine nucleoside phosphorylases similar to human PNP and Escherichia coli PNP-II (XapA)	NA|442aa|up_7|CP019857.1_1279128_1280454_+	TIGR02644, Thymidine_phosphorylase, pyrimidine-nucleoside phosphorylase	NA|360aa|up_6|CP019857.1_1280656_1281736_+	pfam02618, YceG, YceG-like family	NA|225aa|up_5|CP019857.1_1281907_1282582_+	COG4122, COG4122, Predicted O-methyltransferase [General function prediction only]	NA|416aa|up_4|CP019857.1_1282568_1283816_+	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|555aa|up_3|CP019857.1_1283887_1285552_+	COG0768, FtsI, Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]	NA|506aa|up_2|CP019857.1_1285955_1287473_-	cd00338, Ser_Recombinase, Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain	NA|274aa|up_1|CP019857.1_1287597_1288419_-	sd00006, TPR, Tetratricopeptide repeat	NA|476aa|up_0|CP019857.1_1288609_1290037_+	NF033435, S-layer_Clost, S-layer protein SlpA	NA|73aa|down_0|CP019857.1_1290896_1291115_-	smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|59aa|down_1|CP019857.1_1291871_1292048_+	NA	NA|107aa|down_2|CP019857.1_1292053_1292374_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|75aa|down_3|CP019857.1_1292531_1292756_+	pfam02954, HTH_8, Bacterial regulatory protein, Fis family	NA|109aa|down_4|CP019857.1_1293057_1293384_+	COG3617, COG3617, Prophage antirepressor [Transcription]	NA|272aa|down_5|CP019857.1_1293493_1294309_+	pfam10543, ORF6N, ORF6N domain	NA|73aa|down_6|CP019857.1_1294361_1294580_+	NA	NA|54aa|down_7|CP019857.1_1294694_1294856_+	NA	NA|81aa|down_8|CP019857.1_1295058_1295301_+	NA	NA|106aa|down_9|CP019857.1_1295431_1295749_+	NA
GCA_003482345.1_ASM348234v1	CP019857	Clostridioides difficile strain DSM 29745 chromosome, complete genome	3	1314698-1315056	2,3,2	PILER-CR,CRISPRCasFinder,CRT	no		csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Orphan	GTTTTAGATTAACTATATGGAATGTAAAT,GTTTTAGATTAACTATATGGAATGTAAAT,GTTTTAGATTAACTATATGGAATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	4,5,5	5	Orphan	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA|116aa|up_9|CP019857.1_1309094_1309442_+,NA|269aa|up_7|CP019857.1_1309841_1310648_+,NA|146aa|up_6|CP019857.1_1310996_1311434_+,NA|62aa|up_5|CP019857.1_1311417_1311603_+,NA|40aa|up_1|CP019857.1_1313986_1314106_+,NA|54aa|up_0|CP019857.1_1314254_1314416_+,NA|66aa|down_0|CP019857.1_1315125_1315323_+,NA|81aa|down_2|CP019857.1_1316096_1316339_+,NA|52aa|down_4|CP019857.1_1317380_1317536_+,NA|175aa|down_5|CP019857.1_1318126_1318651_+,NA|59aa|down_7|CP019857.1_1320018_1320195_+	NA|116aa|up_9|CP019857.1_1309094_1309442_+	NA	NA|97aa|up_8|CP019857.1_1309441_1309732_+	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component	NA|269aa|up_7|CP019857.1_1309841_1310648_+	NA	NA|146aa|up_6|CP019857.1_1310996_1311434_+	NA	NA|62aa|up_5|CP019857.1_1311417_1311603_+	NA	NA|437aa|up_4|CP019857.1_1311603_1312914_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_3|CP019857.1_1312930_1313401_+	pfam09393, DUF2001, Phage tail tube protein	NA|147aa|up_2|CP019857.1_1313471_1313912_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|40aa|up_1|CP019857.1_1313986_1314106_+	NA	NA|54aa|up_0|CP019857.1_1314254_1314416_+	NA	NA|66aa|down_0|CP019857.1_1315125_1315323_+	NA	NA|122aa|down_1|CP019857.1_1315297_1315663_-	pfam10711, DUF2513, Hypothetical protein (DUF2513)	NA|81aa|down_2|CP019857.1_1316096_1316339_+	NA	NA|289aa|down_3|CP019857.1_1316459_1317326_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|52aa|down_4|CP019857.1_1317380_1317536_+	NA	NA|175aa|down_5|CP019857.1_1318126_1318651_+	NA	NA|274aa|down_6|CP019857.1_1319134_1319956_+	COG3617, COG3617, Prophage antirepressor [Transcription]	NA|59aa|down_7|CP019857.1_1320018_1320195_+	NA	NA|258aa|down_8|CP019857.1_1320560_1321334_+	pfam14471, DUF4428, Domain of unknown function (DUF4428)	NA|763aa|down_9|CP019857.1_1321400_1323689_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain
GCA_003482345.1_ASM348234v1	CP019857	Clostridioides difficile strain DSM 29745 chromosome, complete genome	4	1317634-1317993	4,3	CRISPRCasFinder,PILER-CR	no		csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Orphan	GTTTTAGATTAACTATATGGAATGTAAAT,GTTTTAGATTAACTATATGGAATGTAAAT	29,29	0	0	NA	NA	I-A:I-A	5,2	5	Orphan	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA|40aa|up_6|CP019857.1_1313986_1314106_+,NA|54aa|up_5|CP019857.1_1314254_1314416_+,NA|66aa|up_4|CP019857.1_1315125_1315323_+,NA|81aa|up_2|CP019857.1_1316096_1316339_+,NA|52aa|up_0|CP019857.1_1317380_1317536_+,NA|175aa|down_0|CP019857.1_1318126_1318651_+,NA|59aa|down_2|CP019857.1_1320018_1320195_+	NA|437aa|up_9|CP019857.1_1311603_1312914_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_8|CP019857.1_1312930_1313401_+	pfam09393, DUF2001, Phage tail tube protein	NA|147aa|up_7|CP019857.1_1313471_1313912_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|40aa|up_6|CP019857.1_1313986_1314106_+	NA	NA|54aa|up_5|CP019857.1_1314254_1314416_+	NA	NA|66aa|up_4|CP019857.1_1315125_1315323_+	NA	NA|122aa|up_3|CP019857.1_1315297_1315663_-	pfam10711, DUF2513, Hypothetical protein (DUF2513)	NA|81aa|up_2|CP019857.1_1316096_1316339_+	NA	NA|289aa|up_1|CP019857.1_1316459_1317326_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|52aa|up_0|CP019857.1_1317380_1317536_+	NA	NA|175aa|down_0|CP019857.1_1318126_1318651_+	NA	NA|274aa|down_1|CP019857.1_1319134_1319956_+	COG3617, COG3617, Prophage antirepressor [Transcription]	NA|59aa|down_2|CP019857.1_1320018_1320195_+	NA	NA|258aa|down_3|CP019857.1_1320560_1321334_+	pfam14471, DUF4428, Domain of unknown function (DUF4428)	NA|763aa|down_4|CP019857.1_1321400_1323689_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|230aa|down_5|CP019857.1_1323704_1324394_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|631aa|down_6|CP019857.1_1324386_1326279_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_7|CP019857.1_1326292_1326553_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_8|CP019857.1_1326557_1326977_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|350aa|down_9|CP019857.1_1326977_1328027_+	pfam04865, Baseplate_J, Baseplate J-like protein
GCA_003482345.1_ASM348234v1	CP019857	Clostridioides difficile strain DSM 29745 chromosome, complete genome	5	1320277-1320431	5	CRISPRCasFinder	no		csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Orphan	TTATATTAACTAAGTGGTATGTAAA	25	0	0	NA	NA	NA	2	2	Orphan	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA|40aa|up_9|CP019857.1_1313986_1314106_+,NA|54aa|up_8|CP019857.1_1314254_1314416_+,NA|66aa|up_7|CP019857.1_1315125_1315323_+,NA|81aa|up_5|CP019857.1_1316096_1316339_+,NA|52aa|up_3|CP019857.1_1317380_1317536_+,NA|175aa|up_2|CP019857.1_1318126_1318651_+,NA|59aa|up_0|CP019857.1_1320018_1320195_+,NA|487aa|down_9|CP019857.1_1329440_1330901_+	NA|40aa|up_9|CP019857.1_1313986_1314106_+	NA	NA|54aa|up_8|CP019857.1_1314254_1314416_+	NA	NA|66aa|up_7|CP019857.1_1315125_1315323_+	NA	NA|122aa|up_6|CP019857.1_1315297_1315663_-	pfam10711, DUF2513, Hypothetical protein (DUF2513)	NA|81aa|up_5|CP019857.1_1316096_1316339_+	NA	NA|289aa|up_4|CP019857.1_1316459_1317326_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|52aa|up_3|CP019857.1_1317380_1317536_+	NA	NA|175aa|up_2|CP019857.1_1318126_1318651_+	NA	NA|274aa|up_1|CP019857.1_1319134_1319956_+	COG3617, COG3617, Prophage antirepressor [Transcription]	NA|59aa|up_0|CP019857.1_1320018_1320195_+	NA	NA|258aa|down_0|CP019857.1_1320560_1321334_+	pfam14471, DUF4428, Domain of unknown function (DUF4428)	NA|763aa|down_1|CP019857.1_1321400_1323689_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|230aa|down_2|CP019857.1_1323704_1324394_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|631aa|down_3|CP019857.1_1324386_1326279_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_4|CP019857.1_1326292_1326553_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_5|CP019857.1_1326557_1326977_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|350aa|down_6|CP019857.1_1326977_1328027_+	pfam04865, Baseplate_J, Baseplate J-like protein	NA|206aa|down_7|CP019857.1_1328019_1328637_+	pfam10076, DUF2313, Uncharacterized protein conserved in bacteria (DUF2313)	NA|259aa|down_8|CP019857.1_1328648_1329425_+	pfam12571, DUF3751, Phage tail-collar fibre protein	NA|487aa|down_9|CP019857.1_1329440_1330901_+	NA
GCA_003482345.1_ASM348234v1	CP019857	Clostridioides difficile strain DSM 29745 chromosome, complete genome	6	1535237-1536121	4,6,3	PILER-CR,CRISPRCasFinder,CRT	no	DinG	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Type IV-A	GTTTTATATTAACTAAGTGGTATGTAAAT,GTTTTATATTAACTAAGTGGTATGTAAAT,GTTTTATATTAACTAAGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	12,13,12	13	Orphan	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA|183aa|up_5|CP019857.1_1528211_1528760_-,NA|82aa|up_0|CP019857.1_1533732_1533978_-,NA|80aa|down_4|CP019857.1_1543267_1543507_+,NA|59aa|down_5|CP019857.1_1543693_1543870_-,NA|45aa|down_9|CP019857.1_1546496_1546631_+	NA|195aa|up_9|CP019857.1_1523410_1523995_-	pfam00882, Zn_dep_PLPC, Zinc dependent phospholipase C	NA|477aa|up_8|CP019857.1_1524194_1525625_-	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|315aa|up_7|CP019857.1_1525942_1526887_+	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter	NA|329aa|up_6|CP019857.1_1527157_1528144_-	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only]	NA|183aa|up_5|CP019857.1_1528211_1528760_-	NA	NA|143aa|up_4|CP019857.1_1528911_1529340_+	pfam04657, DMT_YdcZ, Putative inner membrane exporter, YdcZ	NA|217aa|up_3|CP019857.1_1529424_1530075_+	cd01994, Alpha_ANH_like_IV, This is a subfamily of Adenine nucleotide alpha hydrolases superfamily	NA|452aa|up_2|CP019857.1_1530192_1531548_-	cd13143, MATE_MepA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA	NA|76aa|up_1|CP019857.1_1532456_1532684_-	pfam14659, Phage_int_SAM_3, Phage integrase, N-terminal SAM-like domain	NA|82aa|up_0|CP019857.1_1533732_1533978_-	NA	NA|578aa|down_0|CP019857.1_1536446_1538180_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|282aa|down_1|CP019857.1_1538419_1539265_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|745aa|down_2|CP019857.1_1539295_1541530_-	cd01948, EAL, EAL domain	NA|270aa|down_3|CP019857.1_1542313_1543123_+	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators	NA|80aa|down_4|CP019857.1_1543267_1543507_+	NA	NA|59aa|down_5|CP019857.1_1543693_1543870_-	NA	NA|225aa|down_6|CP019857.1_1544374_1545049_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|185aa|down_7|CP019857.1_1545268_1545823_-	cd01014, nicotinamidase_related, Nicotinamidase_ related amidohydrolases	NA|122aa|down_8|CP019857.1_1545900_1546266_-	COG1733, COG1733, Predicted transcriptional regulators [Transcription]	NA|45aa|down_9|CP019857.1_1546496_1546631_+	NA
GCA_003482345.1_ASM348234v1	CP019857	Clostridioides difficile strain DSM 29745 chromosome, complete genome	7	1646383-1646874	5,7,4	PILER-CR,CRISPRCasFinder,CRT	no	cas14j	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Unclear	GTTTTATATTAACTATATGGAATGTAAAT,GTTTTATATTAACTATATGGAATGTAAAT,GTTTTATATTAACTATATGGAATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	6,7,7	7	TypeV	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA|190aa|up_6|CP019857.1_1636273_1636843_+,NA|91aa|down_0|CP019857.1_1647041_1647314_-,NA|323aa|down_5|CP019857.1_1651796_1652765_+	NA|442aa|up_9|CP019857.1_1632918_1634244_-	cd13143, MATE_MepA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA	NA|195aa|up_8|CP019857.1_1634632_1635217_+	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|300aa|up_7|CP019857.1_1635369_1636269_+	TIGR02163, Ferredoxin-type_protein_NapH_homolog, ferredoxin-type protein, NapH/MauN family	NA|190aa|up_6|CP019857.1_1636273_1636843_+	NA	NA|216aa|up_5|CP019857.1_1637009_1637657_-	pfam02589, LUD_dom, LUD domain	NA|305aa|up_4|CP019857.1_1638046_1638961_-	pfam11155, DUF2935, Domain of unknown function (DUF2935)	NA|283aa|up_3|CP019857.1_1640385_1641234_-	PRK00380, panC, pantoate--beta-alanine ligase; Reviewed	NA|276aa|up_2|CP019857.1_1641252_1642080_-	PRK00311, panB, 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed	NA|299aa|up_1|CP019857.1_1642054_1642951_-	pfam10728, DUF2520, Domain of unknown function (DUF2520)	NA|698aa|up_0|CP019857.1_1643630_1645724_+	cd01948, EAL, EAL domain	NA|91aa|down_0|CP019857.1_1647041_1647314_-	NA	NA|273aa|down_1|CP019857.1_1647532_1648351_+	cd04782, HTH_BltR, Helix-Turn-Helix DNA binding domain of the BltR transcription regulator	NA|707aa|down_2|CP019857.1_1648483_1650604_-	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]	NA|76aa|down_3|CP019857.1_1650629_1650857_-	pfam04023, FeoA, FeoA domain	NA|147aa|down_4|CP019857.1_1651183_1651624_-	COG2153, ElaA, Predicted acyltransferase [General function prediction only]	NA|323aa|down_5|CP019857.1_1651796_1652765_+	NA	NA|403aa|down_6|CP019857.1_1653241_1654450_+	PRK13354, PRK13354, tyrosyl-tRNA synthetase; Provisional	NA|294aa|down_7|CP019857.1_1654510_1655392_-	cd10944, CE4_SmPgdA_like, Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins	NA|305aa|down_8|CP019857.1_1655807_1656722_+	COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]	NA|182aa|down_9|CP019857.1_1656944_1657490_+	cd01046, Rubrerythrin_like, rubrerythrin-like, diiron-binding domain
GCA_003482345.1_ASM348234v1	CP019857	Clostridioides difficile strain DSM 29745 chromosome, complete genome	8	1848004-1849414	6,8,5	PILER-CR,CRISPRCasFinder,CRT	no		csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Orphan	GTTTTATATTAACTAAGTGGTATGTAAAT,GTTTTATATTAACTAAGTGGTATGTAAAT,GTTTTATATTAACTAAGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	16,21,21	21	Orphan	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA,NA|96aa|down_0|CP019857.1_1849822_1850110_+,NA|33aa|down_1|CP019857.1_1850134_1850233_+,NA|59aa|down_6|CP019857.1_1856500_1856677_-,NA|341aa|down_7|CP019857.1_1857251_1858274_+,NA|258aa|down_9|CP019857.1_1859180_1859954_+	NA|200aa|up_9|CP019857.1_1831511_1832111_-	COG4110, COG4110, Uncharacterized protein involved in stress response [General function prediction only]	NA|266aa|up_8|CP019857.1_1832213_1833011_-	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|329aa|up_7|CP019857.1_1833320_1834307_-	TIGR00545, Probable_lipoate-protein_ligase_A, lipoyltransferase and lipoate-protein ligase	NA|577aa|up_6|CP019857.1_1834790_1836521_+	COG1757, NhaC, Na+/H+ antiporter [Energy production and conversion]	NA|172aa|up_5|CP019857.1_1837045_1837561_+	pfam13787, HXXEE, Protein of unknown function with HXXEE motif	NA|825aa|up_4|CP019857.1_1838366_1840841_+	PRK00451, PRK00451, aminomethyl-transferring glycine dehydrogenase subunit GcvPA	NA|486aa|up_3|CP019857.1_1840840_1842298_+	PRK04366, PRK04366, aminomethyl-transferring glycine dehydrogenase subunit GcvPB	NA|786aa|up_2|CP019857.1_1842741_1845099_+	cd02609, P-type_ATPase, uncharacterized subfamily of P-type ATPase transporter, similar to uncharacterized Streptococcus pneumoniae exported protein 7, Exp7	NA|106aa|up_1|CP019857.1_1845184_1845502_-	pfam06865, DUF1255, Protein of unknown function (DUF1255)	NA|424aa|up_0|CP019857.1_1846085_1847357_-	cd01303, GDEase, Guanine deaminase (GDEase)	NA|96aa|down_0|CP019857.1_1849822_1850110_+	NA	NA|33aa|down_1|CP019857.1_1850134_1850233_+	NA	NA|184aa|down_2|CP019857.1_1850648_1851200_-	cd02209, cupin_XRE_C, XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain	NA|321aa|down_3|CP019857.1_1851390_1852353_+	cd01561, CBS_like, CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase	NA|615aa|down_4|CP019857.1_1852647_1854492_+	cd08579, GDPD_memb_like, Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases	NA|195aa|down_5|CP019857.1_1854813_1855398_+	cd03357, LbH_MAT_GAT, Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates	NA|59aa|down_6|CP019857.1_1856500_1856677_-	NA	NA|341aa|down_7|CP019857.1_1857251_1858274_+	NA	NA|296aa|down_8|CP019857.1_1858287_1859175_+	cd03264, ABC_drug_resistance_like, ABC-type multidrug transport system, ATPase component	NA|258aa|down_9|CP019857.1_1859180_1859954_+	NA
GCA_003482345.1_ASM348234v1	CP019857	Clostridioides difficile strain DSM 29745 chromosome, complete genome	9	2569851-2570337	9,6,7	CRISPRCasFinder,CRT,PILER-CR	no	c2c9_V-U4	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Type V-U4	TTTTACATTCCATATAGTTAATCTAAAAC,TTTACATTCCATATAGTTAATCTAAAAC,GTTTTAGATTAACTATATGGAATGTAAA	29,28,28	0	0	NA	NA	NA:NA:NA	7,7,6	7	TypeV-U4	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA|138aa|up_7|CP019857.1_2566104_2566518_+,NA|99aa|up_6|CP019857.1_2566536_2566833_+,NA|106aa|up_5|CP019857.1_2567115_2567433_+,NA|155aa|up_4|CP019857.1_2567568_2568033_+,NA|54aa|up_3|CP019857.1_2568360_2568522_-,NA|151aa|up_2|CP019857.1_2568573_2569026_-,NA|51aa|up_0|CP019857.1_2569507_2569660_-,NA|51aa|down_1|CP019857.1_2571720_2571873_-,NA|111aa|down_2|CP019857.1_2572146_2572479_-,NA|85aa|down_3|CP019857.1_2572505_2572760_-	NA|125aa|up_9|CP019857.1_2565294_2565669_-	pfam03965, Penicillinase_R, Penicillinase repressor	NA|78aa|up_8|CP019857.1_2565887_2566121_+	COG1476, COG1476, Predicted transcriptional regulators [Transcription]	NA|138aa|up_7|CP019857.1_2566104_2566518_+	NA	NA|99aa|up_6|CP019857.1_2566536_2566833_+	NA	NA|106aa|up_5|CP019857.1_2567115_2567433_+	NA	NA|155aa|up_4|CP019857.1_2567568_2568033_+	NA	NA|54aa|up_3|CP019857.1_2568360_2568522_-	NA	NA|151aa|up_2|CP019857.1_2568573_2569026_-	NA	NA|122aa|up_1|CP019857.1_2569022_2569388_-	smart01040, Bro-N, BRO family, N-terminal domain	NA|51aa|up_0|CP019857.1_2569507_2569660_-	NA	NA|295aa|down_0|CP019857.1_2570642_2571527_-	COG3247, HdeD, Uncharacterized conserved protein [Function unknown]	NA|51aa|down_1|CP019857.1_2571720_2571873_-	NA	NA|111aa|down_2|CP019857.1_2572146_2572479_-	NA	NA|85aa|down_3|CP019857.1_2572505_2572760_-	NA	c2c9_V-U4|98aa|down_4|CP019857.1_2573191_2573485_-	pfam07282, OrfB_Zn_ribbon, Putative transposase DNA-binding domain	NA|64aa|down_5|CP019857.1_2574181_2574373_-	pfam03965, Penicillinase_R, Penicillinase repressor	NA|125aa|down_6|CP019857.1_2574477_2574852_-	pfam03965, Penicillinase_R, Penicillinase repressor	NA|163aa|down_7|CP019857.1_2575655_2576144_+	COG2165, PulG, Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]	NA|78aa|down_8|CP019857.1_2577135_2577369_-	COG2963, COG2963, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|117aa|down_9|CP019857.1_2577530_2577881_+	pfam12676, DUF3796, Protein of unknown function (DUF3796)
GCA_003482345.1_ASM348234v1	CP019857	Clostridioides difficile strain DSM 29745 chromosome, complete genome	10	2735581-2735738	8	PILER-CR	no	cas3,cas5,cas7,cas6	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Unclear	AGGTTTAAGATTAACTAAGTGGATTTCA	28	0	0	NA	NA	NA	2	2	Unclear	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA,NA|492aa|down_3|CP019857.1_2740161_2741637_-	NA|448aa|up_9|CP019857.1_2728037_2729381_-	pfam06898, YqfD, Putative stage IV sporulation protein YqfD	NA|79aa|up_8|CP019857.1_2729393_2729630_-	pfam07873, YabP, YabP family	NA|188aa|up_7|CP019857.1_2729842_2730406_-	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|CP019857.1_2730598_2731096_-	cd15904, TSPO_MBR, Translocator protein (TSPO)/peripheral-type benzodiazepine receptor (MBR) family	NA|148aa|up_5|CP019857.1_2731206_2731650_-	pfam09424, YqeY, Yqey-like protein	NA|60aa|up_4|CP019857.1_2731679_2731859_-	PRK00270, rpsU, 30S ribosomal protein S21; Reviewed	NA|117aa|up_3|CP019857.1_2732021_2732372_-	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|CP019857.1_2732414_2733713_-	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|253aa|up_1|CP019857.1_2733714_2734473_-	PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional	NA|316aa|up_0|CP019857.1_2734491_2735439_-	pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA)	cas3|803aa|down_0|CP019857.1_2735880_2738289_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|266aa|down_1|CP019857.1_2738315_2739113_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|338aa|down_2|CP019857.1_2739128_2740142_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	NA|492aa|down_3|CP019857.1_2740161_2741637_-	NA	cas6|246aa|down_4|CP019857.1_2741641_2742379_-	TIGR01877, CRISPR-associated_endoribonuclease_Cas6_1, CRISPR-associated endoribonuclease Cas6	NA|370aa|down_5|CP019857.1_2742636_2743746_+	PRK11650, ugpC, sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC	NA|256aa|down_6|CP019857.1_2743775_2744543_+	pfam13556, HTH_30, PucR C-terminal helix-turn-helix domain	NA|458aa|down_7|CP019857.1_2744730_2746104_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|312aa|down_8|CP019857.1_2746139_2747075_-	COG1940, NagC, Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]	NA|385aa|down_9|CP019857.1_2748040_2749195_-	PRK10767, PRK10767, chaperone protein DnaJ; Provisional
GCA_003482345.1_ASM348234v1	CP019857	Clostridioides difficile strain DSM 29745 chromosome, complete genome	11	2817029-2817524	9,10,7	PILER-CR,CRISPRCasFinder,CRT	no		csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Orphan	GTTTTATATTAACTATATGGAATGTAAAT,ATTTACATTCCATATAGTTAATATAAAAC,ATTTACATTCCATATAGTTAATATAAAAC	29,29,29	0	0	NA	NA	I-A:I-A:I-A	7,7,7	7	Orphan	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA|33aa|up_0|CP019857.1_2816465_2816564_-,NA|53aa|down_0|CP019857.1_2817809_2817968_-	NA|238aa|up_9|CP019857.1_2805353_2806067_-	COG2169, Ada, Adenosine deaminase [Nucleotide transport and metabolism]	NA|451aa|up_8|CP019857.1_2806242_2807595_-	cd05298, GH4_GlvA_pagL_like, Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases	NA|517aa|up_7|CP019857.1_2807691_2809242_-	TIGR02005, PTS-IIBC-alpha, PTS system, alpha-glucoside-specific IIBC component	NA|272aa|up_6|CP019857.1_2809294_2810110_-	PRK09772, PRK09772, transcriptional antiterminator BglG; Provisional	NA|161aa|up_5|CP019857.1_2810130_2810613_-	pfam00358, PTS_EIIA_1, phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 1	NA|127aa|up_4|CP019857.1_2810896_2811277_-	TIGR00004, RutC_family_protein, reactive intermediate/imine deaminase	NA|406aa|up_3|CP019857.1_2811371_2812589_-	PRK08198, PRK08198, threonine dehydratase; Provisional	NA|543aa|up_2|CP019857.1_2813247_2814876_+	TIGR03801, For_A_Pyridoxal-5-_Phosphate, aspartate 4-decarboxylase	NA|332aa|up_1|CP019857.1_2814996_2815992_+	cd08964, L-asparaginase_II, Type II (periplasmic) bacterial L-asparaginase	NA|33aa|up_0|CP019857.1_2816465_2816564_-	NA	NA|53aa|down_0|CP019857.1_2817809_2817968_-	NA	NA|457aa|down_1|CP019857.1_2818326_2819697_-	NF033435, S-layer_Clost, S-layer protein SlpA	NA|223aa|down_2|CP019857.1_2821503_2822172_-	pfam04892, VanZ, VanZ like family	NA|807aa|down_3|CP019857.1_2823007_2825428_-	PRK00390, leuS, leucyl-tRNA synthetase; Validated	NA|117aa|down_4|CP019857.1_2825781_2826132_-	pfam02410, RsfS, Ribosomal silencing factor during starvation	NA|191aa|down_5|CP019857.1_2826248_2826821_-	COG1713, COG1713, Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]	NA|230aa|down_6|CP019857.1_2826821_2827511_-	PRK00071, nadD, nicotinate-nucleotide adenylyltransferase	NA|213aa|down_7|CP019857.1_2827786_2828425_+	PRK00117, recX, recombination regulator RecX; Reviewed	NA|668aa|down_8|CP019857.1_2828577_2830581_+	PLN02447, PLN02447, 1,4-alpha-glucan-branching enzyme	NA|214aa|down_9|CP019857.1_2830754_2831396_+	COG1309, AcrR, Transcriptional regulator [Transcription]
GCA_003482345.1_ASM348234v1	CP019857	Clostridioides difficile strain DSM 29745 chromosome, complete genome	16	3314685-3315427	15,8,10,16	CRISPRCasFinder,CRT,PILER-CR,CRISPRCasFinder	no	cas2,cas1,cas4,cas3,cas5,cas7,cas8b2,cas6,WYL	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Unclear	ATTTACATACCACTTAGTTAATATAAAAC,ATTTACATACCACTTAGTTAATATAAAAC,GTTTTATATTAACTAAGTGGTATGTAAAT,ATTTACATACCACTTAGTTAATATAAAAC	29,29,29,29	0	0	NA	NA	I-A:I-A:I-A:I-A	9,11,8,9	11	Unclear	csa3,WYL,cas3,DEDDh,cas14j,DinG,c2c9_V-U4,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA|67aa|up_7|CP019857.1_3307578_3307779_+,NA|260aa|up_1|CP019857.1_3312961_3313741_+,NA	NA|740aa|up_9|CP019857.1_3301925_3304145_-	cd01948, EAL, EAL domain	NA|885aa|up_8|CP019857.1_3304420_3307075_-	PRK13805, PRK13805, bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional	NA|67aa|up_7|CP019857.1_3307578_3307779_+	NA	NA|197aa|up_6|CP019857.1_3307985_3308576_-	PRK08305, spoVFB, dipicolinate synthase subunit B; Reviewed	NA|292aa|up_5|CP019857.1_3308578_3309454_-	PRK08306, PRK08306, dipicolinate synthase subunit DpsA	NA|464aa|up_4|CP019857.1_3309529_3310921_-	cd17633, AFD_YhfT-like, fatty acid-CoA ligase VraA	NA|379aa|up_3|CP019857.1_3310924_3312061_-	cd00751, thiolase, Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine	NA|182aa|up_2|CP019857.1_3312092_3312638_-	pfam02632, BioY, BioY family	NA|260aa|up_1|CP019857.1_3312961_3313741_+	NA	NA|143aa|up_0|CP019857.1_3314195_3314624_-	PRK10562, PRK10562, putative acetyltransferase; Provisional	cas2|89aa|down_0|CP019857.1_3315610_3315877_-	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	cas1|327aa|down_1|CP019857.1_3315879_3316860_-	TIGR03641, cas1_HMARI, CRISPR-associated endonuclease Cas1, subtype I-B/HMARI/TNEAP	cas4|163aa|down_2|CP019857.1_3316943_3317432_-	pfam01930, Cas_Cas4, Domain of unknown function DUF83	cas3|774aa|down_3|CP019857.1_3317428_3319750_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|234aa|down_4|CP019857.1_3319760_3320462_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|305aa|down_5|CP019857.1_3320463_3321378_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas8b2|626aa|down_6|CP019857.1_3321379_3323257_-	cd09665, Cas8a1_I-A, CRISPR/Cas system-associated protein Cas8a1	cas6|246aa|down_7|CP019857.1_3323262_3324000_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	WYL|296aa|down_8|CP019857.1_3324077_3324965_-	pfam13280, WYL, WYL domain	NA|639aa|down_9|CP019857.1_3325273_3327190_-	pfam02687, FtsX, FtsX-like permease family
