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_002946135.1_ASM294613v1	CP026598	Clostridioides difficile strain 10-00253 chromosome, complete genome	1	150429-150507	1	CRISPRCasFinder	no		csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	TGTTTATAATGTGGATAATATTTAA	25	0	0	NA	NA	NA	1	1	Orphan	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|40aa|down_2|CP026598.1_165043_165163_+,NA|226aa|down_5|CP026598.1_167343_168021_+	NA|278aa|up_9|CP026598.1_127679_128513_+	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase	NA|289aa|up_8|CP026598.1_128500_129367_+	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|268aa|up_7|CP026598.1_129360_130164_+	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|244aa|up_6|CP026598.1_130195_130927_+	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|144aa|up_5|CP026598.1_131046_131478_+	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|131aa|up_4|CP026598.1_131506_131899_+	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|235aa|up_3|CP026598.1_132405_133110_+	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|395aa|up_2|CP026598.1_145478_146663_-	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|784aa|up_1|CP026598.1_147035_149387_+	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|180aa|up_0|CP026598.1_149408_149948_+	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|280aa|down_0|CP026598.1_163029_163869_+	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|394aa|down_1|CP026598.1_163865_165047_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|40aa|down_2|CP026598.1_165043_165163_+	NA	NA|301aa|down_3|CP026598.1_165350_166253_+	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|360aa|down_4|CP026598.1_166274_167354_+	PRK03011, PRK03011, butyrate kinase; Provisional	NA|226aa|down_5|CP026598.1_167343_168021_+	NA	NA|72aa|down_6|CP026598.1_168063_168279_+	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|360aa|down_7|CP026598.1_168307_169387_+	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated	NA|251aa|down_8|CP026598.1_169386_170139_+	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_9|CP026598.1_170139_170697_+	pfam01558, POR, Pyruvate ferredoxin/flavodoxin oxidoreductase
GCA_002946135.1_ASM294613v1	CP026598	Clostridioides difficile strain 10-00253 chromosome, complete genome	3	1010933-1011010	3	CRISPRCasFinder	no	cas14j	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	AAAAAATAAGAAAGTTTATAAATA	24	0	0	NA	NA	NA	1	1	TypeV	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|50aa|down_8|CP026598.1_1019707_1019857_-	NA|527aa|up_9|CP026598.1_995572_997153_+	COG0063, COG0063, Predicted sugar kinase [Carbohydrate transport and metabolism]	cas14j|373aa|up_8|CP026598.1_997898_999017_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|149aa|up_7|CP026598.1_999300_999747_+	COG1585, COG1585, Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]	NA|348aa|up_6|CP026598.1_999767_1000811_+	COG0330, HflC, Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]	NA|387aa|up_5|CP026598.1_1001581_1002742_+	PRK05293, glgC, glucose-1-phosphate adenylyltransferase; Provisional	NA|377aa|up_4|CP026598.1_1002743_1003874_+	TIGR02092, Glycogen_biosynthesis_protein_GlgD, glucose-1-phosphate adenylyltransferase, GlgD subunit	NA|481aa|up_3|CP026598.1_1003902_1005345_+	cd03791, GT5_Glycogen_synthase_DULL1-like, Glycogen synthase GlgA and similar proteins	NA|814aa|up_2|CP026598.1_1005337_1007779_+	cd04300, GT35_Glycogen_Phosphorylase, glycogen phosphorylase and similar proteins	NA|622aa|up_1|CP026598.1_1007783_1009649_+	cd11338, AmyAc_CMD, Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins	NA|218aa|up_0|CP026598.1_1009893_1010547_+	COG1802, GntR, Transcriptional regulators [Transcription]	NA|492aa|down_0|CP026598.1_1011184_1012660_+	COG1982, LdcC, Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]	NA|138aa|down_1|CP026598.1_1012746_1013160_+	TIGR03330, SAM_DCase_Bsu, S-adenosylmethionine decarboxylase proenzyme, Bacillus form	NA|284aa|down_2|CP026598.1_1013189_1014041_+	PRK00811, PRK00811, polyamine aminopropyltransferase	NA|293aa|down_3|CP026598.1_1014030_1014909_+	cd11593, Agmatinase-like_2, Agmatinase and related proteins	NA|67aa|down_4|CP026598.1_1015088_1015289_-	COG1278, CspC, Cold shock proteins [Transcription]	NA|497aa|down_5|CP026598.1_1015755_1017246_+	TIGR04105, hypothetical_protein, [FeFe] hydrogenase, group B1/B3	NA|499aa|down_6|CP026598.1_1017503_1019000_+	TIGR04105, hypothetical_protein, [FeFe] hydrogenase, group B1/B3	NA|117aa|down_7|CP026598.1_1019133_1019484_+	cd07731, ComA-like_MBL-fold, Competence protein ComA, ComEC and related proteins; MBL-fold metallo hydrolase domain	NA|50aa|down_8|CP026598.1_1019707_1019857_-	NA	cas14j|373aa|down_9|CP026598.1_1020122_1021241_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]
GCA_002946135.1_ASM294613v1	CP026598	Clostridioides difficile strain 10-00253 chromosome, complete genome	4	1306125-1307082	1,4,1	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTATATTAACTAAGTGGTATGTAAAG,GTTTTATATTAACTAAGTGGTATGTAAAG,GTTTTATATTAACTAAGTGGTATGTAAAG	29,29,29	0	0	NA	NA	I-A:I-A:I-A	14,14,14	14	Orphan	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|75aa|up_2|CP026598.1_1303485_1303710_+,NA|52aa|down_0|CP026598.1_1308298_1308454_+,NA|34aa|down_1|CP026598.1_1308478_1308580_+,NA|84aa|down_2|CP026598.1_1308699_1308951_+,NA|38aa|down_3|CP026598.1_1309260_1309374_+,NA|70aa|down_4|CP026598.1_1309581_1309791_+,NA|128aa|down_5|CP026598.1_1310159_1310543_-,NA|115aa|down_6|CP026598.1_1310669_1311014_+,NA|72aa|down_7|CP026598.1_1311196_1311412_+,NA|40aa|down_8|CP026598.1_1312217_1312337_-,NA|106aa|down_9|CP026598.1_1312397_1312715_-	NA|360aa|up_9|CP026598.1_1293962_1295042_+	pfam02618, YceG, YceG-like family	NA|225aa|up_8|CP026598.1_1295213_1295888_+	COG4122, COG4122, Predicted O-methyltransferase [General function prediction only]	NA|416aa|up_7|CP026598.1_1295874_1297122_+	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|555aa|up_6|CP026598.1_1297193_1298858_+	COG0768, FtsI, Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]	NA|506aa|up_5|CP026598.1_1299261_1300779_-	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_4|CP026598.1_1300903_1301725_-	sd00006, TPR, Tetratricopeptide repeat	NA|476aa|up_3|CP026598.1_1301915_1303343_+	NF033435, S-layer_Clost, S-layer protein SlpA	NA|75aa|up_2|CP026598.1_1303485_1303710_+	NA	NA|224aa|up_1|CP026598.1_1303652_1304324_+	pfam13518, HTH_28, Helix-turn-helix domain	NA|300aa|up_0|CP026598.1_1304317_1305217_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|52aa|down_0|CP026598.1_1308298_1308454_+	NA	NA|34aa|down_1|CP026598.1_1308478_1308580_+	NA	NA|84aa|down_2|CP026598.1_1308699_1308951_+	NA	NA|38aa|down_3|CP026598.1_1309260_1309374_+	NA	NA|70aa|down_4|CP026598.1_1309581_1309791_+	NA	NA|128aa|down_5|CP026598.1_1310159_1310543_-	NA	NA|115aa|down_6|CP026598.1_1310669_1311014_+	NA	NA|72aa|down_7|CP026598.1_1311196_1311412_+	NA	NA|40aa|down_8|CP026598.1_1312217_1312337_-	NA	NA|106aa|down_9|CP026598.1_1312397_1312715_-	NA
GCA_002946135.1_ASM294613v1	CP026598	Clostridioides difficile strain 10-00253 chromosome, complete genome	5	1515472-1516224	2,5,2	PILER-CR,CRISPRCasFinder,CRT	no	DinG	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Type IV-A	GTTTTATATTAACTAAGTGGTATGTAAAT,GTTTTATATTAACTAAGTGGTATGTAAAT,GTTTTATATTAACTAAGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	10,11,10	11	Orphan	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|183aa|up_4|CP026598.1_1510117_1510666_-,NA|80aa|down_4|CP026598.1_1523356_1523596_+,NA|59aa|down_5|CP026598.1_1523783_1523960_-,NA|45aa|down_9|CP026598.1_1526586_1526721_+	NA|260aa|up_9|CP026598.1_1504434_1505214_+	pfam08282, Hydrolase_3, haloacid dehalogenase-like hydrolase	NA|195aa|up_8|CP026598.1_1505317_1505902_-	pfam00882, Zn_dep_PLPC, Zinc dependent phospholipase C	NA|477aa|up_7|CP026598.1_1506101_1507532_-	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|315aa|up_6|CP026598.1_1507847_1508792_+	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter	NA|312aa|up_5|CP026598.1_1509062_1509998_-	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only]	NA|183aa|up_4|CP026598.1_1510117_1510666_-	NA	NA|143aa|up_3|CP026598.1_1510817_1511246_+	pfam04657, DMT_YdcZ, Putative inner membrane exporter, YdcZ	NA|223aa|up_2|CP026598.1_1511312_1511981_+	cd01994, Alpha_ANH_like_IV, This is a subfamily of Adenine nucleotide alpha hydrolases superfamily	NA|452aa|up_1|CP026598.1_1512098_1513454_-	cd13143, MATE_MepA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA	NA|131aa|up_0|CP026598.1_1514548_1514941_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|578aa|down_0|CP026598.1_1516549_1518283_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|282aa|down_1|CP026598.1_1518522_1519368_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|745aa|down_2|CP026598.1_1519398_1521633_-	cd01948, EAL, EAL domain	NA|270aa|down_3|CP026598.1_1522402_1523212_+	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators	NA|80aa|down_4|CP026598.1_1523356_1523596_+	NA	NA|59aa|down_5|CP026598.1_1523783_1523960_-	NA	NA|225aa|down_6|CP026598.1_1524464_1525139_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|185aa|down_7|CP026598.1_1525358_1525913_-	cd01014, nicotinamidase_related, Nicotinamidase_ related amidohydrolases	NA|122aa|down_8|CP026598.1_1525990_1526356_-	COG1733, COG1733, Predicted transcriptional regulators [Transcription]	NA|45aa|down_9|CP026598.1_1526586_1526721_+	NA
GCA_002946135.1_ASM294613v1	CP026598	Clostridioides difficile strain 10-00253 chromosome, complete genome	6	1626843-1627136	3,6,3	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTATATTAACTATATGGAATGTAAAT,GTTTTATATTAACTATATGGAATGTAAAT,GTTTTATATTAACTATATGGAATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	3,4,4	4	Orphan	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|50aa|up_9|CP026598.1_1615667_1615817_+,NA|190aa|up_7|CP026598.1_1616731_1617301_+,NA|61aa|up_4|CP026598.1_1620250_1620433_-,NA|91aa|down_0|CP026598.1_1627303_1627576_-,NA|323aa|down_5|CP026598.1_1632058_1633027_+	NA|50aa|up_9|CP026598.1_1615667_1615817_+	NA	NA|300aa|up_8|CP026598.1_1615827_1616727_+	TIGR02163, Ferredoxin-type_protein_NapH_homolog, ferredoxin-type protein, NapH/MauN family	NA|190aa|up_7|CP026598.1_1616731_1617301_+	NA	NA|216aa|up_6|CP026598.1_1617467_1618115_-	pfam02589, LUD_dom, LUD domain	NA|305aa|up_5|CP026598.1_1618504_1619419_-	pfam11155, DUF2935, Domain of unknown function (DUF2935)	NA|61aa|up_4|CP026598.1_1620250_1620433_-	NA	NA|283aa|up_3|CP026598.1_1620843_1621692_-	PRK00380, panC, pantoate--beta-alanine ligase; Reviewed	NA|276aa|up_2|CP026598.1_1621710_1622538_-	PRK00311, panB, 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed	NA|308aa|up_1|CP026598.1_1622512_1623436_-	pfam10728, DUF2520, Domain of unknown function (DUF2520)	NA|698aa|up_0|CP026598.1_1624088_1626182_+	cd01948, EAL, EAL domain	NA|91aa|down_0|CP026598.1_1627303_1627576_-	NA	NA|273aa|down_1|CP026598.1_1627794_1628613_+	cd04782, HTH_BltR, Helix-Turn-Helix DNA binding domain of the BltR transcription regulator	NA|707aa|down_2|CP026598.1_1628745_1630866_-	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]	NA|76aa|down_3|CP026598.1_1630891_1631119_-	pfam04023, FeoA, FeoA domain	NA|147aa|down_4|CP026598.1_1631445_1631886_-	COG2153, ElaA, Predicted acyltransferase [General function prediction only]	NA|323aa|down_5|CP026598.1_1632058_1633027_+	NA	NA|403aa|down_6|CP026598.1_1633502_1634711_+	PRK13354, PRK13354, tyrosyl-tRNA synthetase; Provisional	NA|294aa|down_7|CP026598.1_1634771_1635653_-	cd10944, CE4_SmPgdA_like, Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins	NA|305aa|down_8|CP026598.1_1636068_1636983_+	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|CP026598.1_1637205_1637751_+	cd01046, Rubrerythrin_like, rubrerythrin-like, diiron-binding domain
GCA_002946135.1_ASM294613v1	CP026598	Clostridioides difficile strain 10-00253 chromosome, complete genome	7	1719521-1719877	4,7,4	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTAGATTAACTATATGGAATGTAAAT,GTTTTAGATTAACTATATGGAATGTAAAT,GTTTTAGATTAACTATATGGAATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	4,5,5	5	Orphan	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|269aa|up_8|CP026598.1_1713319_1714126_+,NA|146aa|up_7|CP026598.1_1714474_1714912_+,NA|59aa|up_6|CP026598.1_1714904_1715081_+,NA|276aa|up_3|CP026598.1_1716937_1717765_+,NA|54aa|up_0|CP026598.1_1718617_1718779_+,NA|63aa|down_0|CP026598.1_1720115_1720304_+,NA|45aa|down_2|CP026598.1_1721341_1721476_+	NA|97aa|up_9|CP026598.1_1712919_1713210_+	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component	NA|269aa|up_8|CP026598.1_1713319_1714126_+	NA	NA|146aa|up_7|CP026598.1_1714474_1714912_+	NA	NA|59aa|up_6|CP026598.1_1714904_1715081_+	NA	NA|437aa|up_5|CP026598.1_1715081_1716392_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_4|CP026598.1_1716408_1716879_+	pfam09393, DUF2001, Phage tail tube protein	NA|276aa|up_3|CP026598.1_1716937_1717765_+	NA	NA|147aa|up_2|CP026598.1_1717836_1718277_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|65aa|up_1|CP026598.1_1718276_1718471_+	TIGR02247, Hypothetical_protein_K09H11	NA|54aa|up_0|CP026598.1_1718617_1718779_+	NA	NA|63aa|down_0|CP026598.1_1720115_1720304_+	NA	NA|289aa|down_1|CP026598.1_1720422_1721289_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|45aa|down_2|CP026598.1_1721341_1721476_+	NA	NA|176aa|down_3|CP026598.1_1722153_1722681_+	pfam11611, DUF4352, Domain of unknown function (DUF4352)	NA|256aa|down_4|CP026598.1_1722818_1723586_+	pfam14471, DUF4428, Domain of unknown function (DUF4428)	NA|791aa|down_5|CP026598.1_1723651_1726024_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|230aa|down_6|CP026598.1_1726040_1726730_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|631aa|down_7|CP026598.1_1726722_1728615_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_8|CP026598.1_1728628_1728889_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_9|CP026598.1_1728893_1729313_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)
GCA_002946135.1_ASM294613v1	CP026598	Clostridioides difficile strain 10-00253 chromosome, complete genome	8	1721742-1722032	8	CRISPRCasFinder	no		csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTATATTAACTATATGGAATGTAAATC	30	0	0	NA	NA	I-A	4	4	Orphan	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|59aa|up_9|CP026598.1_1714904_1715081_+,NA|276aa|up_6|CP026598.1_1716937_1717765_+,NA|54aa|up_3|CP026598.1_1718617_1718779_+,NA|63aa|up_2|CP026598.1_1720115_1720304_+,NA|45aa|up_0|CP026598.1_1721341_1721476_+,NA	NA|59aa|up_9|CP026598.1_1714904_1715081_+	NA	NA|437aa|up_8|CP026598.1_1715081_1716392_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_7|CP026598.1_1716408_1716879_+	pfam09393, DUF2001, Phage tail tube protein	NA|276aa|up_6|CP026598.1_1716937_1717765_+	NA	NA|147aa|up_5|CP026598.1_1717836_1718277_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|65aa|up_4|CP026598.1_1718276_1718471_+	TIGR02247, Hypothetical_protein_K09H11	NA|54aa|up_3|CP026598.1_1718617_1718779_+	NA	NA|63aa|up_2|CP026598.1_1720115_1720304_+	NA	NA|289aa|up_1|CP026598.1_1720422_1721289_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|45aa|up_0|CP026598.1_1721341_1721476_+	NA	NA|176aa|down_0|CP026598.1_1722153_1722681_+	pfam11611, DUF4352, Domain of unknown function (DUF4352)	NA|256aa|down_1|CP026598.1_1722818_1723586_+	pfam14471, DUF4428, Domain of unknown function (DUF4428)	NA|791aa|down_2|CP026598.1_1723651_1726024_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|230aa|down_3|CP026598.1_1726040_1726730_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|631aa|down_4|CP026598.1_1726722_1728615_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_5|CP026598.1_1728628_1728889_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_6|CP026598.1_1728893_1729313_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|350aa|down_7|CP026598.1_1729313_1730363_+	pfam04865, Baseplate_J, Baseplate J-like protein	NA|206aa|down_8|CP026598.1_1730355_1730973_+	pfam10076, DUF2313, Uncharacterized protein conserved in bacteria (DUF2313)	NA|342aa|down_9|CP026598.1_1730984_1732010_+	pfam12571, DUF3751, Phage tail-collar fibre protein
GCA_002946135.1_ASM294613v1	CP026598	Clostridioides difficile strain 10-00253 chromosome, complete genome	9	1859311-1860265	5,9,5	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTATATTAACTATGTGGTATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	12,14,14	14	Orphan	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|96aa|down_0|CP026598.1_1860673_1860961_+,NA|59aa|down_5|CP026598.1_1867348_1867525_-,NA|341aa|down_6|CP026598.1_1868099_1869122_+,NA|258aa|down_8|CP026598.1_1870028_1870802_+	NA|266aa|up_9|CP026598.1_1842837_1843635_-	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|329aa|up_8|CP026598.1_1843944_1844931_-	TIGR00545, Probable_lipoate-protein_ligase_A, lipoyltransferase and lipoate-protein ligase	NA|577aa|up_7|CP026598.1_1845414_1847145_+	COG1757, NhaC, Na+/H+ antiporter [Energy production and conversion]	NA|825aa|up_6|CP026598.1_1848545_1851020_+	PRK00451, PRK00451, aminomethyl-transferring glycine dehydrogenase subunit GcvPA	NA|486aa|up_5|CP026598.1_1851019_1852477_+	PRK04366, PRK04366, aminomethyl-transferring glycine dehydrogenase subunit GcvPB	NA|786aa|up_4|CP026598.1_1852899_1855257_+	cd02609, P-type_ATPase, uncharacterized subfamily of P-type ATPase transporter, similar to uncharacterized Streptococcus pneumoniae exported protein 7, Exp7	NA|106aa|up_3|CP026598.1_1855342_1855660_-	pfam06865, DUF1255, Protein of unknown function (DUF1255)	NA|252aa|up_2|CP026598.1_1855998_1856754_+	pfam12395, DUF3658, Protein of unknown function	NA|424aa|up_1|CP026598.1_1857392_1858664_-	cd01303, GDEase, Guanine deaminase (GDEase)	NA|59aa|up_0|CP026598.1_1858883_1859060_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|96aa|down_0|CP026598.1_1860673_1860961_+	NA	NA|184aa|down_1|CP026598.1_1861498_1862050_-	cd02209, cupin_XRE_C, XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain	NA|321aa|down_2|CP026598.1_1862240_1863203_+	cd01561, CBS_like, CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase	NA|615aa|down_3|CP026598.1_1863497_1865342_+	cd08579, GDPD_memb_like, Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases	NA|195aa|down_4|CP026598.1_1865663_1866248_+	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_5|CP026598.1_1867348_1867525_-	NA	NA|341aa|down_6|CP026598.1_1868099_1869122_+	NA	NA|296aa|down_7|CP026598.1_1869135_1870023_+	cd03264, ABC_drug_resistance_like, ABC-type multidrug transport system, ATPase component	NA|258aa|down_8|CP026598.1_1870028_1870802_+	NA	NA|242aa|down_9|CP026598.1_1870913_1871639_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
GCA_002946135.1_ASM294613v1	CP026598	Clostridioides difficile strain 10-00253 chromosome, complete genome	10	2209571-2210254	6,10,6	CRT,CRISPRCasFinder,PILER-CR	no		csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	TTTACATTCCATATAGTTAATATAAAAC,CTTTACATTCCATATAGTTAATATAAAAC,GTTTTATATTAACTATATGGAATGTAAAG	28,29,29	0	0	NA	NA	I-A:I-A:I-A	10,9,8	10	Orphan	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|43aa|up_4|CP026598.1_2207446_2207575_+,NA|58aa|up_1|CP026598.1_2208845_2209019_+,NA|98aa|up_0|CP026598.1_2209175_2209469_-,NA|80aa|down_7|CP026598.1_2218463_2218703_-,NA|216aa|down_8|CP026598.1_2218873_2219521_-,NA|567aa|down_9|CP026598.1_2219660_2221361_-	NA|345aa|up_9|CP026598.1_2201544_2202579_-	PRK00436, argC, N-acetyl-gamma-glutamyl-phosphate reductase; Validated	NA|255aa|up_8|CP026598.1_2203268_2204033_-	pfam14268, YoaP, YoaP-like	NA|158aa|up_7|CP026598.1_2204335_2204809_+	pfam13673, Acetyltransf_10, Acetyltransferase (GNAT) domain	NA|186aa|up_6|CP026598.1_2205177_2205735_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|233aa|up_5|CP026598.1_2205992_2206691_+	TIGR03502, lipase_Pla1_cef, extracellular lipase, Pla-1/cef family	NA|43aa|up_4|CP026598.1_2207446_2207575_+	NA	NA|156aa|up_3|CP026598.1_2207712_2208180_+	pfam11188, DUF2975, Protein of unknown function (DUF2975)	NA|72aa|up_2|CP026598.1_2208190_2208406_+	COG3655, COG3655, Predicted transcriptional regulator [Transcription]	NA|58aa|up_1|CP026598.1_2208845_2209019_+	NA	NA|98aa|up_0|CP026598.1_2209175_2209469_-	NA	NA|291aa|down_0|CP026598.1_2211084_2211957_-	COG1737, RpiR, Transcriptional regulators [Transcription]	NA|193aa|down_1|CP026598.1_2212350_2212929_-	pfam06962, rRNA_methylase, Putative rRNA methylase	NA|239aa|down_2|CP026598.1_2212986_2213703_-	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|362aa|down_3|CP026598.1_2213893_2214979_+	COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]	NA|220aa|down_4|CP026598.1_2215133_2215793_-	pfam03154, Atrophin-1, Atrophin-1 family	NA|431aa|down_5|CP026598.1_2216009_2217302_-	cd06828, PLPDE_III_DapDC, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase	NA|398aa|down_6|CP026598.1_2217319_2218513_-	PRK06635, PRK06635, aspartate kinase; Reviewed	NA|80aa|down_7|CP026598.1_2218463_2218703_-	NA	NA|216aa|down_8|CP026598.1_2218873_2219521_-	NA	NA|567aa|down_9|CP026598.1_2219660_2221361_-	NA
GCA_002946135.1_ASM294613v1	CP026598	Clostridioides difficile strain 10-00253 chromosome, complete genome	11	2670205-2670362	7	PILER-CR	no	cas3,cas5,cas7,cas6	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	AGGTTTAAGATTAACTAAGTGGATTTCA	28	0	0	NA	NA	NA	2	2	Unclear	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|492aa|down_3|CP026598.1_2674793_2676269_-,NA|39aa|down_9|CP026598.1_2682345_2682462_-	NA|448aa|up_9|CP026598.1_2662661_2664005_-	pfam06898, YqfD, Putative stage IV sporulation protein YqfD	NA|81aa|up_8|CP026598.1_2664017_2664260_-	pfam07873, YabP, YabP family	NA|188aa|up_7|CP026598.1_2664466_2665030_-	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|CP026598.1_2665222_2665720_-	cd15904, TSPO_MBR, Translocator protein (TSPO)/peripheral-type benzodiazepine receptor (MBR) family	NA|148aa|up_5|CP026598.1_2665830_2666274_-	pfam09424, YqeY, Yqey-like protein	NA|60aa|up_4|CP026598.1_2666303_2666483_-	PRK00270, rpsU, 30S ribosomal protein S21; Reviewed	NA|117aa|up_3|CP026598.1_2666645_2666996_-	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|CP026598.1_2667038_2668337_-	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|253aa|up_1|CP026598.1_2668338_2669097_-	PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional	NA|316aa|up_0|CP026598.1_2669115_2670063_-	pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA)	cas3|803aa|down_0|CP026598.1_2670503_2672912_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|269aa|down_1|CP026598.1_2672938_2673745_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|338aa|down_2|CP026598.1_2673760_2674774_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	NA|492aa|down_3|CP026598.1_2674793_2676269_-	NA	cas6|246aa|down_4|CP026598.1_2676273_2677011_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	NA|370aa|down_5|CP026598.1_2677269_2678379_+	PRK11650, ugpC, sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC	NA|256aa|down_6|CP026598.1_2678408_2679176_+	COG2508, COG2508, Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]	NA|458aa|down_7|CP026598.1_2679363_2680737_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|312aa|down_8|CP026598.1_2680772_2681708_-	COG1940, NagC, Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]	NA|39aa|down_9|CP026598.1_2682345_2682462_-	NA
GCA_002946135.1_ASM294613v1	CP026598	Clostridioides difficile strain 10-00253 chromosome, complete genome	14	3253735-3255481	13,7,8	CRISPRCasFinder,CRT,PILER-CR	no	cas2,cas1,cas4,cas3,cas5,cas7,cas8b2,cas6,WYL	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	ATTTACATACCACTTAGTTAATATAAAAC,ATTTACATACCACTTAGTTAATATAAAAC,GTTTTATATTAACTAAGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	26,24,23	26	Unclear	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|67aa|up_7|CP026598.1_3246626_3246827_+,NA|260aa|up_1|CP026598.1_3252010_3252790_+,NA	NA|740aa|up_9|CP026598.1_3240973_3243193_-	cd01948, EAL, EAL domain	NA|885aa|up_8|CP026598.1_3243468_3246123_-	PRK13805, PRK13805, bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional	NA|67aa|up_7|CP026598.1_3246626_3246827_+	NA	NA|197aa|up_6|CP026598.1_3247034_3247625_-	PRK08305, spoVFB, dipicolinate synthase subunit B; Reviewed	NA|292aa|up_5|CP026598.1_3247627_3248503_-	PRK08306, PRK08306, dipicolinate synthase subunit DpsA	NA|464aa|up_4|CP026598.1_3248578_3249970_-	cd17633, AFD_YhfT-like, fatty acid-CoA ligase VraA	NA|379aa|up_3|CP026598.1_3249973_3251110_-	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|CP026598.1_3251141_3251687_-	pfam02632, BioY, BioY family	NA|260aa|up_1|CP026598.1_3252010_3252790_+	NA	NA|143aa|up_0|CP026598.1_3253245_3253674_-	PRK10562, PRK10562, putative acetyltransferase; Provisional	cas2|89aa|down_0|CP026598.1_3255664_3255931_-	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	cas1|327aa|down_1|CP026598.1_3255933_3256914_-	TIGR03641, cas1_HMARI, CRISPR-associated endonuclease Cas1, subtype I-B/HMARI/TNEAP	cas4|173aa|down_2|CP026598.1_3256916_3257435_-	pfam01930, Cas_Cas4, Domain of unknown function DUF83	cas3|774aa|down_3|CP026598.1_3257482_3259804_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|234aa|down_4|CP026598.1_3259814_3260516_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|305aa|down_5|CP026598.1_3260517_3261432_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas8b2|626aa|down_6|CP026598.1_3261433_3263311_-	cd09665, Cas8a1_I-A, CRISPR/Cas system-associated protein Cas8a1	cas6|246aa|down_7|CP026598.1_3263316_3264054_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	WYL|306aa|down_8|CP026598.1_3264131_3265049_-	pfam13280, WYL, WYL domain	NA|639aa|down_9|CP026598.1_3265327_3267244_-	pfam02687, FtsX, FtsX-like permease family
GCA_002946135.1_ASM294613v1	CP026598	Clostridioides difficile strain 10-00253 chromosome, complete genome	15	3500869-3501491	14,8,9	CRISPRCasFinder,CRT,PILER-CR	no	WYL,cas3,cas7,cas6,cas5	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	ATTTATAACTAACTTAGTGTAATTTAAAC,ATTTATAACTAACTTAGTGTAATTTAAAC,ATTTATAACTAACTTAGTGTAATTTAAAC	29,29,29	0	0	NA	NA	NA:NA:NA	9,9,8	9	Unclear	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|70aa|up_9|CP026598.1_3485423_3485633_-,NA|243aa|up_7|CP026598.1_3490076_3490805_-,NA|540aa|up_6|CP026598.1_3490822_3492442_-,NA|76aa|up_4|CP026598.1_3494023_3494251_+,NA|389aa|down_2|CP026598.1_3504830_3505997_-,NA|91aa|down_6|CP026598.1_3509280_3509553_-,NA|250aa|down_8|CP026598.1_3511149_3511899_-,NA|105aa|down_9|CP026598.1_3511914_3512229_-	NA|70aa|up_9|CP026598.1_3485423_3485633_-	NA	NA|1452aa|up_8|CP026598.1_3485734_3490090_-	TIGR02168, Chromosome_partition_protein_Smc, chromosome segregation protein SMC, common bacterial type	NA|243aa|up_7|CP026598.1_3490076_3490805_-	NA	NA|540aa|up_6|CP026598.1_3490822_3492442_-	NA	NA|337aa|up_5|CP026598.1_3492441_3493452_-	pfam09983, DUF2220, Uncharacterized protein conserved in bacteria C-term(DUF2220)	NA|76aa|up_4|CP026598.1_3494023_3494251_+	NA	NA|130aa|up_3|CP026598.1_3494352_3494742_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|62aa|up_2|CP026598.1_3494771_3494957_+	pfam13333, rve_2, Integrase core domain	NA|431aa|up_1|CP026598.1_3495183_3496476_-	pfam03235, DUF262, Protein of unknown function DUF262	NA|405aa|up_0|CP026598.1_3496475_3497690_-	pfam08867, FRG, FRG domain	cas3|662aa|down_0|CP026598.1_3501743_3503729_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas7|357aa|down_1|CP026598.1_3503739_3504810_-	TIGR02585, conserved_protein, CRISPR-associated protein Cas7/Cst2/DevR, subtype I-B/TNEAP	NA|389aa|down_2|CP026598.1_3504830_3505997_-	NA	cas6|255aa|down_3|CP026598.1_3505998_3506763_-	COG1583, COG1583, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	cas5|216aa|down_4|CP026598.1_3506753_3507401_-	TIGR01895, conserved_hypothetical_protein, CRISPR-associated protein Cas5, subtype I-B/TNEAP	NA|376aa|down_5|CP026598.1_3507880_3509008_-	COG3183, COG3183, Predicted restriction endonuclease [Defense mechanisms]	NA|91aa|down_6|CP026598.1_3509280_3509553_-	NA	NA|445aa|down_7|CP026598.1_3509802_3511137_-	TIGR00665, DnaB, replicative DNA helicase	NA|250aa|down_8|CP026598.1_3511149_3511899_-	NA	NA|105aa|down_9|CP026598.1_3511914_3512229_-	NA
