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_002945665.1_ASM294566v1	CP026593	Clostridioides difficile strain 12-00008 chromosome, complete genome	1	150337-150415	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|CP026593.1_164951_165071_+,NA|226aa|down_5|CP026593.1_167251_167929_+	NA|278aa|up_9|CP026593.1_127587_128421_+	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase	NA|289aa|up_8|CP026593.1_128408_129275_+	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|268aa|up_7|CP026593.1_129268_130072_+	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|244aa|up_6|CP026593.1_130103_130835_+	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|144aa|up_5|CP026593.1_130954_131386_+	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|131aa|up_4|CP026593.1_131414_131807_+	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|235aa|up_3|CP026593.1_132313_133018_+	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|395aa|up_2|CP026593.1_145386_146571_-	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|784aa|up_1|CP026593.1_146943_149295_+	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|180aa|up_0|CP026593.1_149316_149856_+	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|280aa|down_0|CP026593.1_162937_163777_+	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|394aa|down_1|CP026593.1_163773_164955_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|40aa|down_2|CP026593.1_164951_165071_+	NA	NA|301aa|down_3|CP026593.1_165258_166161_+	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|360aa|down_4|CP026593.1_166182_167262_+	PRK03011, PRK03011, butyrate kinase; Provisional	NA|226aa|down_5|CP026593.1_167251_167929_+	NA	NA|72aa|down_6|CP026593.1_167971_168187_+	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|360aa|down_7|CP026593.1_168215_169295_+	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated	NA|251aa|down_8|CP026593.1_169294_170047_+	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|CP026593.1_170047_170605_+	pfam01558, POR, Pyruvate ferredoxin/flavodoxin oxidoreductase
GCA_002945665.1_ASM294566v1	CP026593	Clostridioides difficile strain 12-00008 chromosome, complete genome	3	1010541-1010618	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|CP026593.1_1019315_1019465_-	NA|527aa|up_9|CP026593.1_995180_996761_+	COG0063, COG0063, Predicted sugar kinase [Carbohydrate transport and metabolism]	cas14j|373aa|up_8|CP026593.1_997506_998625_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|149aa|up_7|CP026593.1_998908_999355_+	COG1585, COG1585, Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]	NA|348aa|up_6|CP026593.1_999375_1000419_+	COG0330, HflC, Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]	NA|387aa|up_5|CP026593.1_1001189_1002350_+	PRK05293, glgC, glucose-1-phosphate adenylyltransferase; Provisional	NA|377aa|up_4|CP026593.1_1002351_1003482_+	TIGR02092, Glycogen_biosynthesis_protein_GlgD, glucose-1-phosphate adenylyltransferase, GlgD subunit	NA|481aa|up_3|CP026593.1_1003510_1004953_+	cd03791, GT5_Glycogen_synthase_DULL1-like, Glycogen synthase GlgA and similar proteins	NA|814aa|up_2|CP026593.1_1004945_1007387_+	cd04300, GT35_Glycogen_Phosphorylase, glycogen phosphorylase and similar proteins	NA|622aa|up_1|CP026593.1_1007391_1009257_+	cd11338, AmyAc_CMD, Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins	NA|218aa|up_0|CP026593.1_1009501_1010155_+	COG1802, GntR, Transcriptional regulators [Transcription]	NA|492aa|down_0|CP026593.1_1010792_1012268_+	COG1982, LdcC, Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]	NA|138aa|down_1|CP026593.1_1012354_1012768_+	TIGR03330, SAM_DCase_Bsu, S-adenosylmethionine decarboxylase proenzyme, Bacillus form	NA|284aa|down_2|CP026593.1_1012797_1013649_+	PRK00811, PRK00811, polyamine aminopropyltransferase	NA|293aa|down_3|CP026593.1_1013638_1014517_+	cd11593, Agmatinase-like_2, Agmatinase and related proteins	NA|67aa|down_4|CP026593.1_1014696_1014897_-	COG1278, CspC, Cold shock proteins [Transcription]	NA|497aa|down_5|CP026593.1_1015363_1016854_+	TIGR04105, hypothetical_protein, [FeFe] hydrogenase, group B1/B3	NA|499aa|down_6|CP026593.1_1017111_1018608_+	TIGR04105, hypothetical_protein, [FeFe] hydrogenase, group B1/B3	NA|117aa|down_7|CP026593.1_1018741_1019092_+	cd07731, ComA-like_MBL-fold, Competence protein ComA, ComEC and related proteins; MBL-fold metallo hydrolase domain	NA|50aa|down_8|CP026593.1_1019315_1019465_-	NA	cas14j|373aa|down_9|CP026593.1_1019730_1020849_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]
GCA_002945665.1_ASM294566v1	CP026593	Clostridioides difficile strain 12-00008 chromosome, complete genome	4	1305732-1306689	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|CP026593.1_1303092_1303317_+,NA|52aa|down_0|CP026593.1_1307905_1308061_+,NA|34aa|down_1|CP026593.1_1308085_1308187_+,NA|84aa|down_2|CP026593.1_1308306_1308558_+,NA|38aa|down_3|CP026593.1_1308867_1308981_+,NA|70aa|down_4|CP026593.1_1309188_1309398_+,NA|128aa|down_5|CP026593.1_1309766_1310150_-,NA|115aa|down_6|CP026593.1_1310276_1310621_+,NA|72aa|down_7|CP026593.1_1310803_1311019_+,NA|40aa|down_8|CP026593.1_1311824_1311944_-,NA|106aa|down_9|CP026593.1_1312004_1312322_-	NA|360aa|up_9|CP026593.1_1293569_1294649_+	pfam02618, YceG, YceG-like family	NA|225aa|up_8|CP026593.1_1294820_1295495_+	COG4122, COG4122, Predicted O-methyltransferase [General function prediction only]	NA|416aa|up_7|CP026593.1_1295481_1296729_+	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|555aa|up_6|CP026593.1_1296800_1298465_+	COG0768, FtsI, Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]	NA|506aa|up_5|CP026593.1_1298868_1300386_-	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|CP026593.1_1300510_1301332_-	sd00006, TPR, Tetratricopeptide repeat	NA|476aa|up_3|CP026593.1_1301522_1302950_+	NF033435, S-layer_Clost, S-layer protein SlpA	NA|75aa|up_2|CP026593.1_1303092_1303317_+	NA	NA|224aa|up_1|CP026593.1_1303259_1303931_+	pfam13518, HTH_28, Helix-turn-helix domain	NA|300aa|up_0|CP026593.1_1303924_1304824_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|52aa|down_0|CP026593.1_1307905_1308061_+	NA	NA|34aa|down_1|CP026593.1_1308085_1308187_+	NA	NA|84aa|down_2|CP026593.1_1308306_1308558_+	NA	NA|38aa|down_3|CP026593.1_1308867_1308981_+	NA	NA|70aa|down_4|CP026593.1_1309188_1309398_+	NA	NA|128aa|down_5|CP026593.1_1309766_1310150_-	NA	NA|115aa|down_6|CP026593.1_1310276_1310621_+	NA	NA|72aa|down_7|CP026593.1_1310803_1311019_+	NA	NA|40aa|down_8|CP026593.1_1311824_1311944_-	NA	NA|106aa|down_9|CP026593.1_1312004_1312322_-	NA
GCA_002945665.1_ASM294566v1	CP026593	Clostridioides difficile strain 12-00008 chromosome, complete genome	5	1515078-1515830	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|CP026593.1_1509723_1510272_-,NA|80aa|down_4|CP026593.1_1522962_1523202_+,NA|59aa|down_5|CP026593.1_1523389_1523566_-,NA|45aa|down_9|CP026593.1_1526192_1526327_+	NA|260aa|up_9|CP026593.1_1504040_1504820_+	pfam08282, Hydrolase_3, haloacid dehalogenase-like hydrolase	NA|195aa|up_8|CP026593.1_1504923_1505508_-	pfam00882, Zn_dep_PLPC, Zinc dependent phospholipase C	NA|477aa|up_7|CP026593.1_1505707_1507138_-	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|315aa|up_6|CP026593.1_1507453_1508398_+	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter	NA|312aa|up_5|CP026593.1_1508668_1509604_-	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only]	NA|183aa|up_4|CP026593.1_1509723_1510272_-	NA	NA|143aa|up_3|CP026593.1_1510423_1510852_+	pfam04657, DMT_YdcZ, Putative inner membrane exporter, YdcZ	NA|223aa|up_2|CP026593.1_1510918_1511587_+	cd01994, Alpha_ANH_like_IV, This is a subfamily of Adenine nucleotide alpha hydrolases superfamily	NA|452aa|up_1|CP026593.1_1511704_1513060_-	cd13143, MATE_MepA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA	NA|131aa|up_0|CP026593.1_1514154_1514547_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|578aa|down_0|CP026593.1_1516155_1517889_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|282aa|down_1|CP026593.1_1518128_1518974_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|745aa|down_2|CP026593.1_1519004_1521239_-	cd01948, EAL, EAL domain	NA|270aa|down_3|CP026593.1_1522008_1522818_+	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators	NA|80aa|down_4|CP026593.1_1522962_1523202_+	NA	NA|59aa|down_5|CP026593.1_1523389_1523566_-	NA	NA|225aa|down_6|CP026593.1_1524070_1524745_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|185aa|down_7|CP026593.1_1524964_1525519_-	cd01014, nicotinamidase_related, Nicotinamidase_ related amidohydrolases	NA|122aa|down_8|CP026593.1_1525596_1525962_-	COG1733, COG1733, Predicted transcriptional regulators [Transcription]	NA|45aa|down_9|CP026593.1_1526192_1526327_+	NA
GCA_002945665.1_ASM294566v1	CP026593	Clostridioides difficile strain 12-00008 chromosome, complete genome	6	1626449-1626742	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|CP026593.1_1615273_1615423_+,NA|190aa|up_7|CP026593.1_1616337_1616907_+,NA|61aa|up_4|CP026593.1_1619856_1620039_-,NA|91aa|down_0|CP026593.1_1626909_1627182_-,NA|323aa|down_5|CP026593.1_1631664_1632633_+	NA|50aa|up_9|CP026593.1_1615273_1615423_+	NA	NA|300aa|up_8|CP026593.1_1615433_1616333_+	TIGR02163, Ferredoxin-type_protein_NapH_homolog, ferredoxin-type protein, NapH/MauN family	NA|190aa|up_7|CP026593.1_1616337_1616907_+	NA	NA|216aa|up_6|CP026593.1_1617073_1617721_-	pfam02589, LUD_dom, LUD domain	NA|305aa|up_5|CP026593.1_1618110_1619025_-	pfam11155, DUF2935, Domain of unknown function (DUF2935)	NA|61aa|up_4|CP026593.1_1619856_1620039_-	NA	NA|283aa|up_3|CP026593.1_1620449_1621298_-	PRK00380, panC, pantoate--beta-alanine ligase; Reviewed	NA|276aa|up_2|CP026593.1_1621316_1622144_-	PRK00311, panB, 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed	NA|308aa|up_1|CP026593.1_1622118_1623042_-	pfam10728, DUF2520, Domain of unknown function (DUF2520)	NA|698aa|up_0|CP026593.1_1623694_1625788_+	cd01948, EAL, EAL domain	NA|91aa|down_0|CP026593.1_1626909_1627182_-	NA	NA|273aa|down_1|CP026593.1_1627400_1628219_+	cd04782, HTH_BltR, Helix-Turn-Helix DNA binding domain of the BltR transcription regulator	NA|707aa|down_2|CP026593.1_1628351_1630472_-	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]	NA|76aa|down_3|CP026593.1_1630497_1630725_-	pfam04023, FeoA, FeoA domain	NA|147aa|down_4|CP026593.1_1631051_1631492_-	COG2153, ElaA, Predicted acyltransferase [General function prediction only]	NA|323aa|down_5|CP026593.1_1631664_1632633_+	NA	NA|403aa|down_6|CP026593.1_1633108_1634317_+	PRK13354, PRK13354, tyrosyl-tRNA synthetase; Provisional	NA|294aa|down_7|CP026593.1_1634377_1635259_-	cd10944, CE4_SmPgdA_like, Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins	NA|305aa|down_8|CP026593.1_1635674_1636589_+	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|CP026593.1_1636811_1637357_+	cd01046, Rubrerythrin_like, rubrerythrin-like, diiron-binding domain
GCA_002945665.1_ASM294566v1	CP026593	Clostridioides difficile strain 12-00008 chromosome, complete genome	7	1719126-1719482	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|CP026593.1_1712924_1713731_+,NA|146aa|up_7|CP026593.1_1714079_1714517_+,NA|59aa|up_6|CP026593.1_1714509_1714686_+,NA|276aa|up_3|CP026593.1_1716542_1717370_+,NA|54aa|up_0|CP026593.1_1718222_1718384_+,NA|63aa|down_0|CP026593.1_1719720_1719909_+,NA|45aa|down_2|CP026593.1_1720946_1721081_+	NA|97aa|up_9|CP026593.1_1712524_1712815_+	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component	NA|269aa|up_8|CP026593.1_1712924_1713731_+	NA	NA|146aa|up_7|CP026593.1_1714079_1714517_+	NA	NA|59aa|up_6|CP026593.1_1714509_1714686_+	NA	NA|437aa|up_5|CP026593.1_1714686_1715997_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_4|CP026593.1_1716013_1716484_+	pfam09393, DUF2001, Phage tail tube protein	NA|276aa|up_3|CP026593.1_1716542_1717370_+	NA	NA|147aa|up_2|CP026593.1_1717441_1717882_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|65aa|up_1|CP026593.1_1717881_1718076_+	TIGR02247, Hypothetical_protein_K09H11	NA|54aa|up_0|CP026593.1_1718222_1718384_+	NA	NA|63aa|down_0|CP026593.1_1719720_1719909_+	NA	NA|289aa|down_1|CP026593.1_1720027_1720894_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|45aa|down_2|CP026593.1_1720946_1721081_+	NA	NA|176aa|down_3|CP026593.1_1721758_1722286_+	pfam11611, DUF4352, Domain of unknown function (DUF4352)	NA|256aa|down_4|CP026593.1_1722423_1723191_+	pfam14471, DUF4428, Domain of unknown function (DUF4428)	NA|791aa|down_5|CP026593.1_1723256_1725629_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|230aa|down_6|CP026593.1_1725645_1726335_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|631aa|down_7|CP026593.1_1726327_1728220_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_8|CP026593.1_1728233_1728494_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_9|CP026593.1_1728498_1728918_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)
GCA_002945665.1_ASM294566v1	CP026593	Clostridioides difficile strain 12-00008 chromosome, complete genome	8	1721347-1721637	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|CP026593.1_1714509_1714686_+,NA|276aa|up_6|CP026593.1_1716542_1717370_+,NA|54aa|up_3|CP026593.1_1718222_1718384_+,NA|63aa|up_2|CP026593.1_1719720_1719909_+,NA|45aa|up_0|CP026593.1_1720946_1721081_+,NA	NA|59aa|up_9|CP026593.1_1714509_1714686_+	NA	NA|437aa|up_8|CP026593.1_1714686_1715997_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_7|CP026593.1_1716013_1716484_+	pfam09393, DUF2001, Phage tail tube protein	NA|276aa|up_6|CP026593.1_1716542_1717370_+	NA	NA|147aa|up_5|CP026593.1_1717441_1717882_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|65aa|up_4|CP026593.1_1717881_1718076_+	TIGR02247, Hypothetical_protein_K09H11	NA|54aa|up_3|CP026593.1_1718222_1718384_+	NA	NA|63aa|up_2|CP026593.1_1719720_1719909_+	NA	NA|289aa|up_1|CP026593.1_1720027_1720894_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|45aa|up_0|CP026593.1_1720946_1721081_+	NA	NA|176aa|down_0|CP026593.1_1721758_1722286_+	pfam11611, DUF4352, Domain of unknown function (DUF4352)	NA|256aa|down_1|CP026593.1_1722423_1723191_+	pfam14471, DUF4428, Domain of unknown function (DUF4428)	NA|791aa|down_2|CP026593.1_1723256_1725629_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|230aa|down_3|CP026593.1_1725645_1726335_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|631aa|down_4|CP026593.1_1726327_1728220_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_5|CP026593.1_1728233_1728494_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_6|CP026593.1_1728498_1728918_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|350aa|down_7|CP026593.1_1728918_1729968_+	pfam04865, Baseplate_J, Baseplate J-like protein	NA|206aa|down_8|CP026593.1_1729960_1730578_+	pfam10076, DUF2313, Uncharacterized protein conserved in bacteria (DUF2313)	NA|342aa|down_9|CP026593.1_1730589_1731615_+	pfam12571, DUF3751, Phage tail-collar fibre protein
GCA_002945665.1_ASM294566v1	CP026593	Clostridioides difficile strain 12-00008 chromosome, complete genome	9	1858911-1859865	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	14,14,14	14	Orphan	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|96aa|down_0|CP026593.1_1860273_1860561_+,NA|59aa|down_5|CP026593.1_1866948_1867125_-,NA|341aa|down_6|CP026593.1_1867699_1868722_+,NA|258aa|down_8|CP026593.1_1869628_1870402_+	NA|266aa|up_9|CP026593.1_1842437_1843235_-	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|329aa|up_8|CP026593.1_1843544_1844531_-	TIGR00545, Probable_lipoate-protein_ligase_A, lipoyltransferase and lipoate-protein ligase	NA|577aa|up_7|CP026593.1_1845014_1846745_+	COG1757, NhaC, Na+/H+ antiporter [Energy production and conversion]	NA|825aa|up_6|CP026593.1_1848145_1850620_+	PRK00451, PRK00451, aminomethyl-transferring glycine dehydrogenase subunit GcvPA	NA|486aa|up_5|CP026593.1_1850619_1852077_+	PRK04366, PRK04366, aminomethyl-transferring glycine dehydrogenase subunit GcvPB	NA|786aa|up_4|CP026593.1_1852499_1854857_+	cd02609, P-type_ATPase, uncharacterized subfamily of P-type ATPase transporter, similar to uncharacterized Streptococcus pneumoniae exported protein 7, Exp7	NA|106aa|up_3|CP026593.1_1854942_1855260_-	pfam06865, DUF1255, Protein of unknown function (DUF1255)	NA|252aa|up_2|CP026593.1_1855598_1856354_+	pfam12395, DUF3658, Protein of unknown function	NA|424aa|up_1|CP026593.1_1856992_1858264_-	cd01303, GDEase, Guanine deaminase (GDEase)	NA|59aa|up_0|CP026593.1_1858483_1858660_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|96aa|down_0|CP026593.1_1860273_1860561_+	NA	NA|184aa|down_1|CP026593.1_1861098_1861650_-	cd02209, cupin_XRE_C, XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain	NA|321aa|down_2|CP026593.1_1861840_1862803_+	cd01561, CBS_like, CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase	NA|615aa|down_3|CP026593.1_1863097_1864942_+	cd08579, GDPD_memb_like, Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases	NA|195aa|down_4|CP026593.1_1865263_1865848_+	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|CP026593.1_1866948_1867125_-	NA	NA|341aa|down_6|CP026593.1_1867699_1868722_+	NA	NA|296aa|down_7|CP026593.1_1868735_1869623_+	cd03264, ABC_drug_resistance_like, ABC-type multidrug transport system, ATPase component	NA|258aa|down_8|CP026593.1_1869628_1870402_+	NA	NA|242aa|down_9|CP026593.1_1870513_1871239_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
GCA_002945665.1_ASM294566v1	CP026593	Clostridioides difficile strain 12-00008 chromosome, complete genome	10	2209169-2209852	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|CP026593.1_2207044_2207173_+,NA|58aa|up_1|CP026593.1_2208443_2208617_+,NA|98aa|up_0|CP026593.1_2208773_2209067_-,NA|80aa|down_7|CP026593.1_2218061_2218301_-,NA|216aa|down_8|CP026593.1_2218471_2219119_-,NA|567aa|down_9|CP026593.1_2219258_2220959_-	NA|345aa|up_9|CP026593.1_2201142_2202177_-	PRK00436, argC, N-acetyl-gamma-glutamyl-phosphate reductase; Validated	NA|255aa|up_8|CP026593.1_2202866_2203631_-	pfam14268, YoaP, YoaP-like	NA|158aa|up_7|CP026593.1_2203933_2204407_+	pfam13673, Acetyltransf_10, Acetyltransferase (GNAT) domain	NA|186aa|up_6|CP026593.1_2204775_2205333_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|233aa|up_5|CP026593.1_2205590_2206289_+	TIGR03502, lipase_Pla1_cef, extracellular lipase, Pla-1/cef family	NA|43aa|up_4|CP026593.1_2207044_2207173_+	NA	NA|156aa|up_3|CP026593.1_2207310_2207778_+	pfam11188, DUF2975, Protein of unknown function (DUF2975)	NA|72aa|up_2|CP026593.1_2207788_2208004_+	COG3655, COG3655, Predicted transcriptional regulator [Transcription]	NA|58aa|up_1|CP026593.1_2208443_2208617_+	NA	NA|98aa|up_0|CP026593.1_2208773_2209067_-	NA	NA|291aa|down_0|CP026593.1_2210682_2211555_-	COG1737, RpiR, Transcriptional regulators [Transcription]	NA|193aa|down_1|CP026593.1_2211948_2212527_-	pfam06962, rRNA_methylase, Putative rRNA methylase	NA|239aa|down_2|CP026593.1_2212584_2213301_-	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|362aa|down_3|CP026593.1_2213491_2214577_+	COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]	NA|220aa|down_4|CP026593.1_2214731_2215391_-	pfam03154, Atrophin-1, Atrophin-1 family	NA|431aa|down_5|CP026593.1_2215607_2216900_-	cd06828, PLPDE_III_DapDC, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase	NA|398aa|down_6|CP026593.1_2216917_2218111_-	PRK06635, PRK06635, aspartate kinase; Reviewed	NA|80aa|down_7|CP026593.1_2218061_2218301_-	NA	NA|216aa|down_8|CP026593.1_2218471_2219119_-	NA	NA|567aa|down_9|CP026593.1_2219258_2220959_-	NA
GCA_002945665.1_ASM294566v1	CP026593	Clostridioides difficile strain 12-00008 chromosome, complete genome	11	2669803-2669960	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|CP026593.1_2674391_2675867_-,NA|39aa|down_9|CP026593.1_2681943_2682060_-	NA|448aa|up_9|CP026593.1_2662259_2663603_-	pfam06898, YqfD, Putative stage IV sporulation protein YqfD	NA|81aa|up_8|CP026593.1_2663615_2663858_-	pfam07873, YabP, YabP family	NA|188aa|up_7|CP026593.1_2664064_2664628_-	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|CP026593.1_2664820_2665318_-	cd15904, TSPO_MBR, Translocator protein (TSPO)/peripheral-type benzodiazepine receptor (MBR) family	NA|148aa|up_5|CP026593.1_2665428_2665872_-	pfam09424, YqeY, Yqey-like protein	NA|60aa|up_4|CP026593.1_2665901_2666081_-	PRK00270, rpsU, 30S ribosomal protein S21; Reviewed	NA|117aa|up_3|CP026593.1_2666243_2666594_-	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|CP026593.1_2666636_2667935_-	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|253aa|up_1|CP026593.1_2667936_2668695_-	PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional	NA|316aa|up_0|CP026593.1_2668713_2669661_-	pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA)	cas3|803aa|down_0|CP026593.1_2670101_2672510_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|269aa|down_1|CP026593.1_2672536_2673343_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|338aa|down_2|CP026593.1_2673358_2674372_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	NA|492aa|down_3|CP026593.1_2674391_2675867_-	NA	cas6|246aa|down_4|CP026593.1_2675871_2676609_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	NA|370aa|down_5|CP026593.1_2676867_2677977_+	PRK11650, ugpC, sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC	NA|256aa|down_6|CP026593.1_2678006_2678774_+	COG2508, COG2508, Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]	NA|458aa|down_7|CP026593.1_2678961_2680335_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|312aa|down_8|CP026593.1_2680370_2681306_-	COG1940, NagC, Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]	NA|39aa|down_9|CP026593.1_2681943_2682060_-	NA
GCA_002945665.1_ASM294566v1	CP026593	Clostridioides difficile strain 12-00008 chromosome, complete genome	14	3253388-3255134	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	26,26,23	26	Unclear	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|67aa|up_7|CP026593.1_3246279_3246480_+,NA|260aa|up_1|CP026593.1_3251663_3252443_+,NA	NA|740aa|up_9|CP026593.1_3240626_3242846_-	cd01948, EAL, EAL domain	NA|885aa|up_8|CP026593.1_3243121_3245776_-	PRK13805, PRK13805, bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional	NA|67aa|up_7|CP026593.1_3246279_3246480_+	NA	NA|197aa|up_6|CP026593.1_3246687_3247278_-	PRK08305, spoVFB, dipicolinate synthase subunit B; Reviewed	NA|292aa|up_5|CP026593.1_3247280_3248156_-	PRK08306, PRK08306, dipicolinate synthase subunit DpsA	NA|464aa|up_4|CP026593.1_3248231_3249623_-	cd17633, AFD_YhfT-like, fatty acid-CoA ligase VraA	NA|379aa|up_3|CP026593.1_3249626_3250763_-	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|CP026593.1_3250794_3251340_-	pfam02632, BioY, BioY family	NA|260aa|up_1|CP026593.1_3251663_3252443_+	NA	NA|143aa|up_0|CP026593.1_3252898_3253327_-	PRK10562, PRK10562, putative acetyltransferase; Provisional	cas2|89aa|down_0|CP026593.1_3255317_3255584_-	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	cas1|327aa|down_1|CP026593.1_3255586_3256567_-	TIGR03641, cas1_HMARI, CRISPR-associated endonuclease Cas1, subtype I-B/HMARI/TNEAP	cas4|173aa|down_2|CP026593.1_3256569_3257088_-	pfam01930, Cas_Cas4, Domain of unknown function DUF83	cas3|774aa|down_3|CP026593.1_3257135_3259457_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|234aa|down_4|CP026593.1_3259467_3260169_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|305aa|down_5|CP026593.1_3260170_3261085_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas8b2|626aa|down_6|CP026593.1_3261086_3262964_-	cd09665, Cas8a1_I-A, CRISPR/Cas system-associated protein Cas8a1	cas6|246aa|down_7|CP026593.1_3262969_3263707_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	WYL|306aa|down_8|CP026593.1_3263784_3264702_-	pfam13280, WYL, WYL domain	NA|639aa|down_9|CP026593.1_3264980_3266897_-	pfam02687, FtsX, FtsX-like permease family
GCA_002945665.1_ASM294566v1	CP026593	Clostridioides difficile strain 12-00008 chromosome, complete genome	15	3500521-3501143	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|CP026593.1_3485075_3485285_-,NA|243aa|up_7|CP026593.1_3489728_3490457_-,NA|540aa|up_6|CP026593.1_3490474_3492094_-,NA|76aa|up_4|CP026593.1_3493675_3493903_+,NA|389aa|down_2|CP026593.1_3504482_3505649_-,NA|91aa|down_6|CP026593.1_3508932_3509205_-,NA|250aa|down_8|CP026593.1_3510801_3511551_-,NA|105aa|down_9|CP026593.1_3511566_3511881_-	NA|70aa|up_9|CP026593.1_3485075_3485285_-	NA	NA|1452aa|up_8|CP026593.1_3485386_3489742_-	TIGR02168, Chromosome_partition_protein_Smc, chromosome segregation protein SMC, common bacterial type	NA|243aa|up_7|CP026593.1_3489728_3490457_-	NA	NA|540aa|up_6|CP026593.1_3490474_3492094_-	NA	NA|337aa|up_5|CP026593.1_3492093_3493104_-	pfam09983, DUF2220, Uncharacterized protein conserved in bacteria C-term(DUF2220)	NA|76aa|up_4|CP026593.1_3493675_3493903_+	NA	NA|130aa|up_3|CP026593.1_3494004_3494394_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|62aa|up_2|CP026593.1_3494423_3494609_+	pfam13333, rve_2, Integrase core domain	NA|431aa|up_1|CP026593.1_3494835_3496128_-	pfam03235, DUF262, Protein of unknown function DUF262	NA|405aa|up_0|CP026593.1_3496127_3497342_-	pfam08867, FRG, FRG domain	cas3|662aa|down_0|CP026593.1_3501395_3503381_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas7|357aa|down_1|CP026593.1_3503391_3504462_-	TIGR02585, conserved_protein, CRISPR-associated protein Cas7/Cst2/DevR, subtype I-B/TNEAP	NA|389aa|down_2|CP026593.1_3504482_3505649_-	NA	cas6|255aa|down_3|CP026593.1_3505650_3506415_-	COG1583, COG1583, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	cas5|216aa|down_4|CP026593.1_3506405_3507053_-	TIGR01895, conserved_hypothetical_protein, CRISPR-associated protein Cas5, subtype I-B/TNEAP	NA|376aa|down_5|CP026593.1_3507532_3508660_-	COG3183, COG3183, Predicted restriction endonuclease [Defense mechanisms]	NA|91aa|down_6|CP026593.1_3508932_3509205_-	NA	NA|445aa|down_7|CP026593.1_3509454_3510789_-	TIGR00665, DnaB, replicative DNA helicase	NA|250aa|down_8|CP026593.1_3510801_3511551_-	NA	NA|105aa|down_9|CP026593.1_3511566_3511881_-	NA
