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_002946035.1_ASM294603v1	CP026597	Clostridioides difficile strain 10-00078 chromosome, complete genome	1	150326-150404	1	CRISPRCasFinder	no		csa3,cas14j,WYL,cas3,DEDDh,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	TGTTTATAATGTGGATAATATTTAA	25	0	0	NA	NA	NA	1	1	Orphan	csa3,cas14j,WYL,cas3,DEDDh,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|40aa|down_2|CP026597.1_164939_165059_+,NA|226aa|down_5|CP026597.1_167239_167917_+	NA|278aa|up_9|CP026597.1_127577_128411_+	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase	NA|289aa|up_8|CP026597.1_128398_129265_+	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|268aa|up_7|CP026597.1_129258_130062_+	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|244aa|up_6|CP026597.1_130093_130825_+	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|144aa|up_5|CP026597.1_130944_131376_+	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|131aa|up_4|CP026597.1_131404_131797_+	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|235aa|up_3|CP026597.1_132303_133008_+	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|395aa|up_2|CP026597.1_145376_146561_-	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|781aa|up_1|CP026597.1_146941_149284_+	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|180aa|up_0|CP026597.1_149305_149845_+	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|280aa|down_0|CP026597.1_162925_163765_+	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|394aa|down_1|CP026597.1_163761_164943_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|40aa|down_2|CP026597.1_164939_165059_+	NA	NA|301aa|down_3|CP026597.1_165246_166149_+	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|360aa|down_4|CP026597.1_166170_167250_+	PRK03011, PRK03011, butyrate kinase; Provisional	NA|226aa|down_5|CP026597.1_167239_167917_+	NA	NA|72aa|down_6|CP026597.1_167959_168175_+	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|360aa|down_7|CP026597.1_168203_169283_+	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated	NA|251aa|down_8|CP026597.1_169282_170035_+	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|CP026597.1_170035_170593_+	pfam01558, POR, Pyruvate ferredoxin/flavodoxin oxidoreductase
GCA_002946035.1_ASM294603v1	CP026597	Clostridioides difficile strain 10-00078 chromosome, complete genome	3	1010761-1010838	3	CRISPRCasFinder	no	cas14j	csa3,cas14j,WYL,cas3,DEDDh,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	AAAAAATAAGAAAGTTTATAAATA	24	0	0	NA	NA	NA	1	1	TypeV	csa3,cas14j,WYL,cas3,DEDDh,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|50aa|down_8|CP026597.1_1019535_1019685_-	NA|527aa|up_9|CP026597.1_995401_996982_+	COG0063, COG0063, Predicted sugar kinase [Carbohydrate transport and metabolism]	cas14j|373aa|up_8|CP026597.1_997727_998846_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|149aa|up_7|CP026597.1_999129_999576_+	COG1585, COG1585, Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]	NA|348aa|up_6|CP026597.1_999596_1000640_+	COG0330, HflC, Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]	NA|387aa|up_5|CP026597.1_1001410_1002571_+	PRK05293, glgC, glucose-1-phosphate adenylyltransferase; Provisional	NA|377aa|up_4|CP026597.1_1002572_1003703_+	TIGR02092, Glycogen_biosynthesis_protein_GlgD, glucose-1-phosphate adenylyltransferase, GlgD subunit	NA|481aa|up_3|CP026597.1_1003731_1005174_+	cd03791, GT5_Glycogen_synthase_DULL1-like, Glycogen synthase GlgA and similar proteins	NA|814aa|up_2|CP026597.1_1005166_1007608_+	cd04300, GT35_Glycogen_Phosphorylase, glycogen phosphorylase and similar proteins	NA|622aa|up_1|CP026597.1_1007612_1009478_+	cd11338, AmyAc_CMD, Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins	NA|218aa|up_0|CP026597.1_1009721_1010375_+	COG1802, GntR, Transcriptional regulators [Transcription]	NA|492aa|down_0|CP026597.1_1011012_1012488_+	COG1982, LdcC, Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]	NA|138aa|down_1|CP026597.1_1012574_1012988_+	TIGR03330, SAM_DCase_Bsu, S-adenosylmethionine decarboxylase proenzyme, Bacillus form	NA|284aa|down_2|CP026597.1_1013017_1013869_+	PRK00811, PRK00811, polyamine aminopropyltransferase	NA|293aa|down_3|CP026597.1_1013858_1014737_+	cd11593, Agmatinase-like_2, Agmatinase and related proteins	NA|67aa|down_4|CP026597.1_1014916_1015117_-	COG1278, CspC, Cold shock proteins [Transcription]	NA|497aa|down_5|CP026597.1_1015583_1017074_+	TIGR04105, hypothetical_protein, [FeFe] hydrogenase, group B1/B3	NA|499aa|down_6|CP026597.1_1017331_1018828_+	TIGR04105, hypothetical_protein, [FeFe] hydrogenase, group B1/B3	NA|117aa|down_7|CP026597.1_1018961_1019312_+	cd07731, ComA-like_MBL-fold, Competence protein ComA, ComEC and related proteins; MBL-fold metallo hydrolase domain	NA|50aa|down_8|CP026597.1_1019535_1019685_-	NA	cas14j|373aa|down_9|CP026597.1_1019950_1021069_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]
GCA_002946035.1_ASM294603v1	CP026597	Clostridioides difficile strain 10-00078 chromosome, complete genome	4	1305951-1306908	1,4,1	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,WYL,cas3,DEDDh,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,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|75aa|up_3|CP026597.1_1303311_1303536_+,NA|52aa|down_0|CP026597.1_1308124_1308280_+,NA|34aa|down_1|CP026597.1_1308304_1308406_+,NA|84aa|down_2|CP026597.1_1308525_1308777_+,NA|38aa|down_3|CP026597.1_1309086_1309200_+,NA|70aa|down_4|CP026597.1_1309407_1309617_+,NA|128aa|down_5|CP026597.1_1309985_1310369_-,NA|115aa|down_6|CP026597.1_1310495_1310840_+,NA|72aa|down_7|CP026597.1_1311022_1311238_+,NA|40aa|down_8|CP026597.1_1312043_1312163_-,NA|106aa|down_9|CP026597.1_1312223_1312541_-	NA|225aa|up_9|CP026597.1_1295039_1295714_+	COG4122, COG4122, Predicted O-methyltransferase [General function prediction only]	NA|416aa|up_8|CP026597.1_1295700_1296948_+	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|555aa|up_7|CP026597.1_1297019_1298684_+	COG0768, FtsI, Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]	NA|506aa|up_6|CP026597.1_1299087_1300605_-	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_5|CP026597.1_1300729_1301551_-	sd00006, TPR, Tetratricopeptide repeat	NA|476aa|up_4|CP026597.1_1301741_1303169_+	NF033435, S-layer_Clost, S-layer protein SlpA	NA|75aa|up_3|CP026597.1_1303311_1303536_+	NA	NA|224aa|up_2|CP026597.1_1303478_1304150_+	pfam13518, HTH_28, Helix-turn-helix domain	NA|71aa|up_1|CP026597.1_1304339_1304552_+	pfam13276, HTH_21, HTH-like domain	NA|88aa|up_0|CP026597.1_1304780_1305044_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|52aa|down_0|CP026597.1_1308124_1308280_+	NA	NA|34aa|down_1|CP026597.1_1308304_1308406_+	NA	NA|84aa|down_2|CP026597.1_1308525_1308777_+	NA	NA|38aa|down_3|CP026597.1_1309086_1309200_+	NA	NA|70aa|down_4|CP026597.1_1309407_1309617_+	NA	NA|128aa|down_5|CP026597.1_1309985_1310369_-	NA	NA|115aa|down_6|CP026597.1_1310495_1310840_+	NA	NA|72aa|down_7|CP026597.1_1311022_1311238_+	NA	NA|40aa|down_8|CP026597.1_1312043_1312163_-	NA	NA|106aa|down_9|CP026597.1_1312223_1312541_-	NA
GCA_002946035.1_ASM294603v1	CP026597	Clostridioides difficile strain 10-00078 chromosome, complete genome	5	1515298-1516050	2,5,2	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,WYL,cas3,DEDDh,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	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,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|183aa|up_4|CP026597.1_1509943_1510492_-,NA|80aa|down_4|CP026597.1_1523182_1523422_+,NA|59aa|down_5|CP026597.1_1523609_1523786_-,NA|45aa|down_9|CP026597.1_1526412_1526547_+	NA|260aa|up_9|CP026597.1_1504260_1505040_+	pfam08282, Hydrolase_3, haloacid dehalogenase-like hydrolase	NA|195aa|up_8|CP026597.1_1505143_1505728_-	pfam00882, Zn_dep_PLPC, Zinc dependent phospholipase C	NA|477aa|up_7|CP026597.1_1505927_1507358_-	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|315aa|up_6|CP026597.1_1507673_1508618_+	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter	NA|312aa|up_5|CP026597.1_1508888_1509824_-	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only]	NA|183aa|up_4|CP026597.1_1509943_1510492_-	NA	NA|143aa|up_3|CP026597.1_1510643_1511072_+	pfam04657, DMT_YdcZ, Putative inner membrane exporter, YdcZ	NA|223aa|up_2|CP026597.1_1511138_1511807_+	cd01994, Alpha_ANH_like_IV, This is a subfamily of Adenine nucleotide alpha hydrolases superfamily	NA|452aa|up_1|CP026597.1_1511924_1513280_-	cd13143, MATE_MepA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA	NA|131aa|up_0|CP026597.1_1514374_1514767_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|578aa|down_0|CP026597.1_1516375_1518109_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|282aa|down_1|CP026597.1_1518348_1519194_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|745aa|down_2|CP026597.1_1519224_1521459_-	cd01948, EAL, EAL domain	NA|270aa|down_3|CP026597.1_1522228_1523038_+	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators	NA|80aa|down_4|CP026597.1_1523182_1523422_+	NA	NA|59aa|down_5|CP026597.1_1523609_1523786_-	NA	NA|225aa|down_6|CP026597.1_1524290_1524965_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|185aa|down_7|CP026597.1_1525184_1525739_-	cd01014, nicotinamidase_related, Nicotinamidase_ related amidohydrolases	NA|122aa|down_8|CP026597.1_1525816_1526182_-	COG1733, COG1733, Predicted transcriptional regulators [Transcription]	NA|45aa|down_9|CP026597.1_1526412_1526547_+	NA
GCA_002946035.1_ASM294603v1	CP026597	Clostridioides difficile strain 10-00078 chromosome, complete genome	6	1626669-1626962	3,6,3	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,WYL,cas3,DEDDh,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,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|50aa|up_8|CP026597.1_1615492_1615642_+,NA|190aa|up_6|CP026597.1_1616556_1617126_+,NA|61aa|up_3|CP026597.1_1620075_1620258_-,NA|91aa|down_0|CP026597.1_1627129_1627402_-,NA|323aa|down_5|CP026597.1_1631884_1632853_+	NA|195aa|up_9|CP026597.1_1614915_1615500_+	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|50aa|up_8|CP026597.1_1615492_1615642_+	NA	NA|300aa|up_7|CP026597.1_1615652_1616552_+	TIGR02163, Ferredoxin-type_protein_NapH_homolog, ferredoxin-type protein, NapH/MauN family	NA|190aa|up_6|CP026597.1_1616556_1617126_+	NA	NA|216aa|up_5|CP026597.1_1617292_1617940_-	pfam02589, LUD_dom, LUD domain	NA|305aa|up_4|CP026597.1_1618329_1619244_-	pfam11155, DUF2935, Domain of unknown function (DUF2935)	NA|61aa|up_3|CP026597.1_1620075_1620258_-	NA	NA|276aa|up_2|CP026597.1_1621536_1622364_-	PRK00311, panB, 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed	NA|308aa|up_1|CP026597.1_1622338_1623262_-	pfam10728, DUF2520, Domain of unknown function (DUF2520)	NA|698aa|up_0|CP026597.1_1623914_1626008_+	cd01948, EAL, EAL domain	NA|91aa|down_0|CP026597.1_1627129_1627402_-	NA	NA|273aa|down_1|CP026597.1_1627620_1628439_+	cd04782, HTH_BltR, Helix-Turn-Helix DNA binding domain of the BltR transcription regulator	NA|707aa|down_2|CP026597.1_1628571_1630692_-	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]	NA|76aa|down_3|CP026597.1_1630717_1630945_-	pfam04023, FeoA, FeoA domain	NA|147aa|down_4|CP026597.1_1631271_1631712_-	COG2153, ElaA, Predicted acyltransferase [General function prediction only]	NA|323aa|down_5|CP026597.1_1631884_1632853_+	NA	NA|403aa|down_6|CP026597.1_1633328_1634537_+	PRK13354, PRK13354, tyrosyl-tRNA synthetase; Provisional	NA|294aa|down_7|CP026597.1_1634597_1635479_-	cd10944, CE4_SmPgdA_like, Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins	NA|305aa|down_8|CP026597.1_1635894_1636809_+	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|CP026597.1_1637031_1637577_+	cd01046, Rubrerythrin_like, rubrerythrin-like, diiron-binding domain
GCA_002946035.1_ASM294603v1	CP026597	Clostridioides difficile strain 10-00078 chromosome, complete genome	7	1719344-1719700	4,7,4	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,WYL,cas3,DEDDh,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,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|116aa|up_9|CP026597.1_1712396_1712744_+,NA|269aa|up_7|CP026597.1_1713143_1713950_+,NA|146aa|up_6|CP026597.1_1714298_1714736_+,NA|59aa|up_5|CP026597.1_1714728_1714905_+,NA|276aa|up_3|CP026597.1_1716760_1717588_+,NA|54aa|up_0|CP026597.1_1718440_1718602_+,NA|63aa|down_0|CP026597.1_1719938_1720127_+,NA|45aa|down_2|CP026597.1_1721164_1721299_+	NA|116aa|up_9|CP026597.1_1712396_1712744_+	NA	NA|97aa|up_8|CP026597.1_1712743_1713034_+	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component	NA|269aa|up_7|CP026597.1_1713143_1713950_+	NA	NA|146aa|up_6|CP026597.1_1714298_1714736_+	NA	NA|59aa|up_5|CP026597.1_1714728_1714905_+	NA	NA|437aa|up_4|CP026597.1_1714905_1716216_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|276aa|up_3|CP026597.1_1716760_1717588_+	NA	NA|147aa|up_2|CP026597.1_1717659_1718100_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|65aa|up_1|CP026597.1_1718099_1718294_+	TIGR02247, Hypothetical_protein_K09H11	NA|54aa|up_0|CP026597.1_1718440_1718602_+	NA	NA|63aa|down_0|CP026597.1_1719938_1720127_+	NA	NA|289aa|down_1|CP026597.1_1720245_1721112_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|45aa|down_2|CP026597.1_1721164_1721299_+	NA	NA|176aa|down_3|CP026597.1_1721976_1722504_+	pfam11611, DUF4352, Domain of unknown function (DUF4352)	NA|256aa|down_4|CP026597.1_1722641_1723409_+	pfam14471, DUF4428, Domain of unknown function (DUF4428)	NA|791aa|down_5|CP026597.1_1723474_1725847_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|230aa|down_6|CP026597.1_1725863_1726553_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|631aa|down_7|CP026597.1_1726545_1728438_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_8|CP026597.1_1728451_1728712_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_9|CP026597.1_1728716_1729136_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)
GCA_002946035.1_ASM294603v1	CP026597	Clostridioides difficile strain 10-00078 chromosome, complete genome	8	1721565-1721855	8	CRISPRCasFinder	no		csa3,cas14j,WYL,cas3,DEDDh,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,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|146aa|up_9|CP026597.1_1714298_1714736_+,NA|59aa|up_8|CP026597.1_1714728_1714905_+,NA|276aa|up_6|CP026597.1_1716760_1717588_+,NA|54aa|up_3|CP026597.1_1718440_1718602_+,NA|63aa|up_2|CP026597.1_1719938_1720127_+,NA|45aa|up_0|CP026597.1_1721164_1721299_+,NA	NA|146aa|up_9|CP026597.1_1714298_1714736_+	NA	NA|59aa|up_8|CP026597.1_1714728_1714905_+	NA	NA|437aa|up_7|CP026597.1_1714905_1716216_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|276aa|up_6|CP026597.1_1716760_1717588_+	NA	NA|147aa|up_5|CP026597.1_1717659_1718100_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|65aa|up_4|CP026597.1_1718099_1718294_+	TIGR02247, Hypothetical_protein_K09H11	NA|54aa|up_3|CP026597.1_1718440_1718602_+	NA	NA|63aa|up_2|CP026597.1_1719938_1720127_+	NA	NA|289aa|up_1|CP026597.1_1720245_1721112_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|45aa|up_0|CP026597.1_1721164_1721299_+	NA	NA|176aa|down_0|CP026597.1_1721976_1722504_+	pfam11611, DUF4352, Domain of unknown function (DUF4352)	NA|256aa|down_1|CP026597.1_1722641_1723409_+	pfam14471, DUF4428, Domain of unknown function (DUF4428)	NA|791aa|down_2|CP026597.1_1723474_1725847_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|230aa|down_3|CP026597.1_1725863_1726553_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|631aa|down_4|CP026597.1_1726545_1728438_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_5|CP026597.1_1728451_1728712_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_6|CP026597.1_1728716_1729136_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|350aa|down_7|CP026597.1_1729136_1730186_+	pfam04865, Baseplate_J, Baseplate J-like protein	NA|206aa|down_8|CP026597.1_1730178_1730796_+	pfam10076, DUF2313, Uncharacterized protein conserved in bacteria (DUF2313)	NA|342aa|down_9|CP026597.1_1730807_1731833_+	pfam12571, DUF3751, Phage tail-collar fibre protein
GCA_002946035.1_ASM294603v1	CP026597	Clostridioides difficile strain 10-00078 chromosome, complete genome	9	1859127-1860081	5,9,5	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,WYL,cas3,DEDDh,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,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|96aa|down_0|CP026597.1_1860489_1860777_+,NA|59aa|down_5|CP026597.1_1867164_1867341_-,NA|341aa|down_6|CP026597.1_1867915_1868938_+,NA|258aa|down_8|CP026597.1_1869844_1870618_+	NA|266aa|up_9|CP026597.1_1842653_1843451_-	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|329aa|up_8|CP026597.1_1843760_1844747_-	TIGR00545, Probable_lipoate-protein_ligase_A, lipoyltransferase and lipoate-protein ligase	NA|577aa|up_7|CP026597.1_1845230_1846961_+	COG1757, NhaC, Na+/H+ antiporter [Energy production and conversion]	NA|825aa|up_6|CP026597.1_1848361_1850836_+	PRK00451, PRK00451, aminomethyl-transferring glycine dehydrogenase subunit GcvPA	NA|486aa|up_5|CP026597.1_1850835_1852293_+	PRK04366, PRK04366, aminomethyl-transferring glycine dehydrogenase subunit GcvPB	NA|786aa|up_4|CP026597.1_1852715_1855073_+	cd02609, P-type_ATPase, uncharacterized subfamily of P-type ATPase transporter, similar to uncharacterized Streptococcus pneumoniae exported protein 7, Exp7	NA|106aa|up_3|CP026597.1_1855158_1855476_-	pfam06865, DUF1255, Protein of unknown function (DUF1255)	NA|252aa|up_2|CP026597.1_1855814_1856570_+	pfam12395, DUF3658, Protein of unknown function	NA|424aa|up_1|CP026597.1_1857208_1858480_-	cd01303, GDEase, Guanine deaminase (GDEase)	NA|59aa|up_0|CP026597.1_1858699_1858876_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|96aa|down_0|CP026597.1_1860489_1860777_+	NA	NA|184aa|down_1|CP026597.1_1861314_1861866_-	cd02209, cupin_XRE_C, XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain	NA|321aa|down_2|CP026597.1_1862056_1863019_+	cd01561, CBS_like, CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase	NA|615aa|down_3|CP026597.1_1863313_1865158_+	cd08579, GDPD_memb_like, Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases	NA|195aa|down_4|CP026597.1_1865479_1866064_+	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|CP026597.1_1867164_1867341_-	NA	NA|341aa|down_6|CP026597.1_1867915_1868938_+	NA	NA|296aa|down_7|CP026597.1_1868951_1869839_+	cd03264, ABC_drug_resistance_like, ABC-type multidrug transport system, ATPase component	NA|258aa|down_8|CP026597.1_1869844_1870618_+	NA	NA|242aa|down_9|CP026597.1_1870729_1871455_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
GCA_002946035.1_ASM294603v1	CP026597	Clostridioides difficile strain 10-00078 chromosome, complete genome	10	2209376-2210059	6,10,6	CRT,CRISPRCasFinder,PILER-CR	no		csa3,cas14j,WYL,cas3,DEDDh,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,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|43aa|up_3|CP026597.1_2207250_2207379_+,NA|58aa|up_0|CP026597.1_2208649_2208823_+,NA|80aa|down_7|CP026597.1_2218268_2218508_-,NA|216aa|down_8|CP026597.1_2218678_2219326_-,NA|567aa|down_9|CP026597.1_2219465_2221166_-	NA|406aa|up_9|CP026597.1_2200089_2201307_-	cd02152, OAT, Ornithine acetyltransferase (OAT) family; also referred to as ArgJ	NA|345aa|up_8|CP026597.1_2201348_2202383_-	PRK00436, argC, N-acetyl-gamma-glutamyl-phosphate reductase; Validated	NA|255aa|up_7|CP026597.1_2203072_2203837_-	pfam14268, YoaP, YoaP-like	NA|158aa|up_6|CP026597.1_2204139_2204613_+	pfam13673, Acetyltransf_10, Acetyltransferase (GNAT) domain	NA|186aa|up_5|CP026597.1_2204981_2205539_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|233aa|up_4|CP026597.1_2205796_2206495_+	TIGR03502, lipase_Pla1_cef, extracellular lipase, Pla-1/cef family	NA|43aa|up_3|CP026597.1_2207250_2207379_+	NA	NA|156aa|up_2|CP026597.1_2207516_2207984_+	pfam11188, DUF2975, Protein of unknown function (DUF2975)	NA|72aa|up_1|CP026597.1_2207994_2208210_+	COG3655, COG3655, Predicted transcriptional regulator [Transcription]	NA|58aa|up_0|CP026597.1_2208649_2208823_+	NA	NA|291aa|down_0|CP026597.1_2210889_2211762_-	COG1737, RpiR, Transcriptional regulators [Transcription]	NA|193aa|down_1|CP026597.1_2212155_2212734_-	pfam06962, rRNA_methylase, Putative rRNA methylase	NA|239aa|down_2|CP026597.1_2212791_2213508_-	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|362aa|down_3|CP026597.1_2213698_2214784_+	COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]	NA|220aa|down_4|CP026597.1_2214938_2215598_-	pfam03154, Atrophin-1, Atrophin-1 family	NA|431aa|down_5|CP026597.1_2215814_2217107_-	cd06828, PLPDE_III_DapDC, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase	NA|398aa|down_6|CP026597.1_2217124_2218318_-	PRK06635, PRK06635, aspartate kinase; Reviewed	NA|80aa|down_7|CP026597.1_2218268_2218508_-	NA	NA|216aa|down_8|CP026597.1_2218678_2219326_-	NA	NA|567aa|down_9|CP026597.1_2219465_2221166_-	NA
GCA_002946035.1_ASM294603v1	CP026597	Clostridioides difficile strain 10-00078 chromosome, complete genome	11	2669996-2670153	7	PILER-CR	no	cas3,cas5,cas7,cas6	csa3,cas14j,WYL,cas3,DEDDh,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	AGGTTTAAGATTAACTAAGTGGATTTCA	28	0	0	NA	NA	NA	2	2	Unclear	csa3,cas14j,WYL,cas3,DEDDh,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|39aa|down_8|CP026597.1_2682137_2682254_-	NA|448aa|up_9|CP026597.1_2662452_2663796_-	pfam06898, YqfD, Putative stage IV sporulation protein YqfD	NA|81aa|up_8|CP026597.1_2663808_2664051_-	pfam07873, YabP, YabP family	NA|188aa|up_7|CP026597.1_2664257_2664821_-	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|CP026597.1_2665013_2665511_-	cd15904, TSPO_MBR, Translocator protein (TSPO)/peripheral-type benzodiazepine receptor (MBR) family	NA|148aa|up_5|CP026597.1_2665621_2666065_-	pfam09424, YqeY, Yqey-like protein	NA|60aa|up_4|CP026597.1_2666094_2666274_-	PRK00270, rpsU, 30S ribosomal protein S21; Reviewed	NA|117aa|up_3|CP026597.1_2666436_2666787_-	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|CP026597.1_2666829_2668128_-	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|253aa|up_1|CP026597.1_2668129_2668888_-	PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional	NA|316aa|up_0|CP026597.1_2668906_2669854_-	pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA)	cas3|803aa|down_0|CP026597.1_2670294_2672703_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|269aa|down_1|CP026597.1_2672729_2673536_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|338aa|down_2|CP026597.1_2673551_2674565_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas6|246aa|down_3|CP026597.1_2676065_2676803_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	NA|370aa|down_4|CP026597.1_2677061_2678171_+	PRK11650, ugpC, sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC	NA|256aa|down_5|CP026597.1_2678200_2678968_+	COG2508, COG2508, Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]	NA|458aa|down_6|CP026597.1_2679155_2680529_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|312aa|down_7|CP026597.1_2680564_2681500_-	COG1940, NagC, Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]	NA|39aa|down_8|CP026597.1_2682137_2682254_-	NA	NA|385aa|down_9|CP026597.1_2682465_2683620_-	PRK10767, PRK10767, chaperone protein DnaJ; Provisional
GCA_002946035.1_ASM294603v1	CP026597	Clostridioides difficile strain 10-00078 chromosome, complete genome	14	3253514-3255260	13,7,8	CRISPRCasFinder,CRT,PILER-CR	no	cas2,cas1,cas4,cas3,cas5,cas7,cas8b2,cas6,WYL	csa3,cas14j,WYL,cas3,DEDDh,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,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|67aa|up_7|CP026597.1_3246405_3246606_+,NA|260aa|up_1|CP026597.1_3251789_3252569_+,NA	NA|740aa|up_9|CP026597.1_3240752_3242972_-	cd01948, EAL, EAL domain	NA|885aa|up_8|CP026597.1_3243247_3245902_-	PRK13805, PRK13805, bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional	NA|67aa|up_7|CP026597.1_3246405_3246606_+	NA	NA|197aa|up_6|CP026597.1_3246813_3247404_-	PRK08305, spoVFB, dipicolinate synthase subunit B; Reviewed	NA|292aa|up_5|CP026597.1_3247406_3248282_-	PRK08306, PRK08306, dipicolinate synthase subunit DpsA	NA|464aa|up_4|CP026597.1_3248357_3249749_-	cd17633, AFD_YhfT-like, fatty acid-CoA ligase VraA	NA|379aa|up_3|CP026597.1_3249752_3250889_-	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|CP026597.1_3250920_3251466_-	pfam02632, BioY, BioY family	NA|260aa|up_1|CP026597.1_3251789_3252569_+	NA	NA|143aa|up_0|CP026597.1_3253024_3253453_-	PRK10562, PRK10562, putative acetyltransferase; Provisional	cas2|89aa|down_0|CP026597.1_3255443_3255710_-	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	cas1|327aa|down_1|CP026597.1_3255712_3256693_-	TIGR03641, cas1_HMARI, CRISPR-associated endonuclease Cas1, subtype I-B/HMARI/TNEAP	cas4|173aa|down_2|CP026597.1_3256695_3257214_-	pfam01930, Cas_Cas4, Domain of unknown function DUF83	cas3|774aa|down_3|CP026597.1_3257261_3259583_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|234aa|down_4|CP026597.1_3259593_3260295_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|305aa|down_5|CP026597.1_3260296_3261211_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas8b2|626aa|down_6|CP026597.1_3261212_3263090_-	cd09665, Cas8a1_I-A, CRISPR/Cas system-associated protein Cas8a1	cas6|246aa|down_7|CP026597.1_3263095_3263833_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	WYL|306aa|down_8|CP026597.1_3263910_3264828_-	pfam13280, WYL, WYL domain	NA|639aa|down_9|CP026597.1_3265106_3267023_-	pfam02687, FtsX, FtsX-like permease family
GCA_002946035.1_ASM294603v1	CP026597	Clostridioides difficile strain 10-00078 chromosome, complete genome	15	3500647-3501269	14,8,9	CRISPRCasFinder,CRT,PILER-CR	no	WYL,cas3,cas7,cas6,cas5	csa3,cas14j,WYL,cas3,DEDDh,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,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|70aa|up_8|CP026597.1_3485203_3485413_-,NA|243aa|up_7|CP026597.1_3489854_3490583_-,NA|540aa|up_6|CP026597.1_3490600_3492220_-,NA|76aa|up_4|CP026597.1_3493801_3494029_+,NA|389aa|down_2|CP026597.1_3504608_3505775_-,NA|91aa|down_6|CP026597.1_3509058_3509331_-,NA|250aa|down_8|CP026597.1_3510927_3511677_-,NA|105aa|down_9|CP026597.1_3511692_3512007_-	NA|47aa|up_9|CP026597.1_3484667_3484808_-	COG1476, COG1476, Predicted transcriptional regulators [Transcription]	NA|70aa|up_8|CP026597.1_3485203_3485413_-	NA	NA|243aa|up_7|CP026597.1_3489854_3490583_-	NA	NA|540aa|up_6|CP026597.1_3490600_3492220_-	NA	NA|337aa|up_5|CP026597.1_3492219_3493230_-	pfam09983, DUF2220, Uncharacterized protein conserved in bacteria C-term(DUF2220)	NA|76aa|up_4|CP026597.1_3493801_3494029_+	NA	NA|130aa|up_3|CP026597.1_3494130_3494520_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|62aa|up_2|CP026597.1_3494549_3494735_+	pfam13333, rve_2, Integrase core domain	NA|431aa|up_1|CP026597.1_3494961_3496254_-	pfam03235, DUF262, Protein of unknown function DUF262	NA|405aa|up_0|CP026597.1_3496253_3497468_-	pfam08867, FRG, FRG domain	cas3|662aa|down_0|CP026597.1_3501521_3503507_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas7|357aa|down_1|CP026597.1_3503517_3504588_-	TIGR02585, conserved_protein, CRISPR-associated protein Cas7/Cst2/DevR, subtype I-B/TNEAP	NA|389aa|down_2|CP026597.1_3504608_3505775_-	NA	cas6|255aa|down_3|CP026597.1_3505776_3506541_-	COG1583, COG1583, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	cas5|216aa|down_4|CP026597.1_3506531_3507179_-	TIGR01895, conserved_hypothetical_protein, CRISPR-associated protein Cas5, subtype I-B/TNEAP	NA|376aa|down_5|CP026597.1_3507658_3508786_-	COG3183, COG3183, Predicted restriction endonuclease [Defense mechanisms]	NA|91aa|down_6|CP026597.1_3509058_3509331_-	NA	NA|445aa|down_7|CP026597.1_3509580_3510915_-	TIGR00665, DnaB, replicative DNA helicase	NA|250aa|down_8|CP026597.1_3510927_3511677_-	NA	NA|105aa|down_9|CP026597.1_3511692_3512007_-	NA
