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_003313545.1_ASM331354v1	CP011846	Clostridioides difficile strain DSM 27638 chromosome, complete genome	1	150328-150406	1	CRISPRCasFinder	no		csa3,cas14j,c2c9_V-U4,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,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|226aa|down_4|CP011846.1_167242_167920_+	NA|278aa|up_9|CP011846.1_127578_128412_+	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase	NA|289aa|up_8|CP011846.1_128399_129266_+	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|268aa|up_7|CP011846.1_129259_130063_+	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|244aa|up_6|CP011846.1_130094_130826_+	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|144aa|up_5|CP011846.1_130945_131377_+	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|131aa|up_4|CP011846.1_131405_131798_+	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|251aa|up_3|CP011846.1_132256_133009_+	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|395aa|up_2|CP011846.1_145377_146562_-	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|784aa|up_1|CP011846.1_146934_149286_+	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|180aa|up_0|CP011846.1_149307_149847_+	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|280aa|down_0|CP011846.1_162928_163768_+	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|394aa|down_1|CP011846.1_163764_164946_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|301aa|down_2|CP011846.1_165249_166152_+	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|360aa|down_3|CP011846.1_166173_167253_+	PRK03011, PRK03011, butyrate kinase; Provisional	NA|226aa|down_4|CP011846.1_167242_167920_+	NA	NA|72aa|down_5|CP011846.1_167962_168178_+	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|360aa|down_6|CP011846.1_168206_169286_+	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated	NA|251aa|down_7|CP011846.1_169285_170038_+	cd03375, TPP_OGFOR, Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor	NA|186aa|down_8|CP011846.1_170038_170596_+	pfam01558, POR, Pyruvate ferredoxin/flavodoxin oxidoreductase	NA|449aa|down_9|CP011846.1_170765_172112_+	PRK14316, glmM, phosphoglucosamine mutase; Provisional
GCA_003313545.1_ASM331354v1	CP011846	Clostridioides difficile strain DSM 27638 chromosome, complete genome	3	1007220-1007297	3	CRISPRCasFinder	no	cas14j	csa3,cas14j,c2c9_V-U4,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,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA	NA|527aa|up_9|CP011846.1_991859_993440_+	COG0063, COG0063, Predicted sugar kinase [Carbohydrate transport and metabolism]	cas14j|370aa|up_8|CP011846.1_994194_995304_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|149aa|up_7|CP011846.1_995587_996034_+	COG1585, COG1585, Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]	NA|348aa|up_6|CP011846.1_996054_997098_+	COG0330, HflC, Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]	NA|387aa|up_5|CP011846.1_997868_999029_+	PRK05293, glgC, glucose-1-phosphate adenylyltransferase; Provisional	NA|377aa|up_4|CP011846.1_999030_1000161_+	TIGR02092, Glycogen_biosynthesis_protein_GlgD, glucose-1-phosphate adenylyltransferase, GlgD subunit	NA|481aa|up_3|CP011846.1_1000189_1001632_+	cd03791, GT5_Glycogen_synthase_DULL1-like, Glycogen synthase GlgA and similar proteins	NA|807aa|up_2|CP011846.1_1001645_1004066_+	cd04300, GT35_Glycogen_Phosphorylase, glycogen phosphorylase and similar proteins	NA|622aa|up_1|CP011846.1_1004070_1005936_+	cd11338, AmyAc_CMD, Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins	NA|218aa|up_0|CP011846.1_1006180_1006834_+	COG1802, GntR, Transcriptional regulators [Transcription]	NA|492aa|down_0|CP011846.1_1007471_1008947_+	COG1982, LdcC, Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]	NA|138aa|down_1|CP011846.1_1009033_1009447_+	TIGR03330, SAM_DCase_Bsu, S-adenosylmethionine decarboxylase proenzyme, Bacillus form	NA|284aa|down_2|CP011846.1_1009476_1010328_+	PRK00811, PRK00811, polyamine aminopropyltransferase	NA|293aa|down_3|CP011846.1_1010317_1011196_+	cd11593, Agmatinase-like_2, Agmatinase and related proteins	NA|67aa|down_4|CP011846.1_1011375_1011576_-	COG1278, CspC, Cold shock proteins [Transcription]	NA|497aa|down_5|CP011846.1_1012042_1013533_+	TIGR04105, hypothetical_protein, [FeFe] hydrogenase, group B1/B3	NA|499aa|down_6|CP011846.1_1013790_1015287_+	TIGR04105, hypothetical_protein, [FeFe] hydrogenase, group B1/B3	NA|117aa|down_7|CP011846.1_1015420_1015771_+	cd07731, ComA-like_MBL-fold, Competence protein ComA, ComEC and related proteins; MBL-fold metallo hydrolase domain	cas14j|370aa|down_8|CP011846.1_1016418_1017528_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|177aa|down_9|CP011846.1_1017688_1018219_+	COG2333, ComEC, Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]
GCA_003313545.1_ASM331354v1	CP011846	Clostridioides difficile strain DSM 27638 chromosome, complete genome	4	1302411-1303368	1,4,1	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,c2c9_V-U4,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,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|52aa|down_0|CP011846.1_1304584_1304740_+,NA|84aa|down_1|CP011846.1_1304985_1305237_+,NA|38aa|down_2|CP011846.1_1305546_1305660_+,NA|70aa|down_3|CP011846.1_1305867_1306077_+,NA|128aa|down_4|CP011846.1_1306445_1306829_-,NA|115aa|down_5|CP011846.1_1306955_1307300_+,NA|106aa|down_6|CP011846.1_1308683_1309001_-,NA|190aa|down_7|CP011846.1_1309292_1309862_-	NA|360aa|up_9|CP011846.1_1290248_1291328_+	pfam02618, YceG, YceG-like family	NA|225aa|up_8|CP011846.1_1291499_1292174_+	COG4122, COG4122, Predicted O-methyltransferase [General function prediction only]	NA|416aa|up_7|CP011846.1_1292160_1293408_+	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|555aa|up_6|CP011846.1_1293479_1295144_+	COG0768, FtsI, Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]	NA|95aa|up_5|CP011846.1_1295240_1295525_-	PRK05803, PRK05803, RNA polymerase sporulation sigma factor SigK	NA|506aa|up_4|CP011846.1_1295547_1297065_-	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_3|CP011846.1_1297189_1298011_-	sd00006, TPR, Tetratricopeptide repeat	NA|476aa|up_2|CP011846.1_1298201_1299629_+	NF033435, S-layer_Clost, S-layer protein SlpA	NA|224aa|up_1|CP011846.1_1299938_1300610_+	pfam13518, HTH_28, Helix-turn-helix domain	NA|300aa|up_0|CP011846.1_1300603_1301503_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|52aa|down_0|CP011846.1_1304584_1304740_+	NA	NA|84aa|down_1|CP011846.1_1304985_1305237_+	NA	NA|38aa|down_2|CP011846.1_1305546_1305660_+	NA	NA|70aa|down_3|CP011846.1_1305867_1306077_+	NA	NA|128aa|down_4|CP011846.1_1306445_1306829_-	NA	NA|115aa|down_5|CP011846.1_1306955_1307300_+	NA	NA|106aa|down_6|CP011846.1_1308683_1309001_-	NA	NA|190aa|down_7|CP011846.1_1309292_1309862_-	NA	NA|61aa|down_8|CP011846.1_1310305_1310488_+	pfam03965, Penicillinase_R, Penicillinase repressor	NA|170aa|down_9|CP011846.1_1311015_1311525_+	pfam04892, VanZ, VanZ like family
GCA_003313545.1_ASM331354v1	CP011846	Clostridioides difficile strain DSM 27638 chromosome, complete genome	5	1511756-1512508	2,5,2	PILER-CR,CRISPRCasFinder,CRT	no	DinG	csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Type IV-A	GTTTTATATTAACTAAGTGGTATGTAAA,GTTTTATATTAACTAAGTGGTATGTAAAT,GTTTTATATTAACTAAGTGGTATGTAAAT	28,29,29	0	0	NA	NA	I-A:I-A:I-A	10,11,10	11	Orphan	csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|183aa|up_5|CP011846.1_1506401_1506950_-,NA|80aa|down_4|CP011846.1_1519640_1519880_+,NA|59aa|down_5|CP011846.1_1520067_1520244_-,NA|45aa|down_9|CP011846.1_1522870_1523005_+	NA|195aa|up_9|CP011846.1_1501601_1502186_-	pfam00882, Zn_dep_PLPC, Zinc dependent phospholipase C	NA|477aa|up_8|CP011846.1_1502385_1503816_-	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|315aa|up_7|CP011846.1_1504131_1505076_+	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter	NA|312aa|up_6|CP011846.1_1505346_1506282_-	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only]	NA|183aa|up_5|CP011846.1_1506401_1506950_-	NA	NA|143aa|up_4|CP011846.1_1507101_1507530_+	pfam04657, DMT_YdcZ, Putative inner membrane exporter, YdcZ	NA|217aa|up_3|CP011846.1_1507614_1508265_+	cd01994, Alpha_ANH_like_IV, This is a subfamily of Adenine nucleotide alpha hydrolases superfamily	NA|452aa|up_2|CP011846.1_1508382_1509738_-	cd13143, MATE_MepA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA	NA|120aa|up_1|CP011846.1_1510479_1510839_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|119aa|up_0|CP011846.1_1510868_1511225_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|578aa|down_0|CP011846.1_1512833_1514567_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|282aa|down_1|CP011846.1_1514806_1515652_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|745aa|down_2|CP011846.1_1515682_1517917_-	cd01948, EAL, EAL domain	NA|270aa|down_3|CP011846.1_1518686_1519496_+	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators	NA|80aa|down_4|CP011846.1_1519640_1519880_+	NA	NA|59aa|down_5|CP011846.1_1520067_1520244_-	NA	NA|225aa|down_6|CP011846.1_1520748_1521423_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|185aa|down_7|CP011846.1_1521642_1522197_-	cd01014, nicotinamidase_related, Nicotinamidase_ related amidohydrolases	NA|122aa|down_8|CP011846.1_1522274_1522640_-	COG1733, COG1733, Predicted transcriptional regulators [Transcription]	NA|45aa|down_9|CP011846.1_1522870_1523005_+	NA
GCA_003313545.1_ASM331354v1	CP011846	Clostridioides difficile strain DSM 27638 chromosome, complete genome	6	1623127-1623420	3,6,3	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,c2c9_V-U4,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,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|190aa|up_7|CP011846.1_1613015_1613585_+,NA|61aa|up_4|CP011846.1_1616534_1616717_-,NA|95aa|down_0|CP011846.1_1623587_1623872_-,NA|323aa|down_5|CP011846.1_1628342_1629311_+	NA|195aa|up_9|CP011846.1_1611374_1611959_+	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|300aa|up_8|CP011846.1_1612111_1613011_+	TIGR02163, Ferredoxin-type_protein_NapH_homolog, ferredoxin-type protein, NapH/MauN family	NA|190aa|up_7|CP011846.1_1613015_1613585_+	NA	NA|216aa|up_6|CP011846.1_1613751_1614399_-	pfam02589, LUD_dom, LUD domain	NA|305aa|up_5|CP011846.1_1614788_1615703_-	pfam11155, DUF2935, Domain of unknown function (DUF2935)	NA|61aa|up_4|CP011846.1_1616534_1616717_-	NA	NA|283aa|up_3|CP011846.1_1617127_1617976_-	PRK00380, panC, pantoate--beta-alanine ligase; Reviewed	NA|276aa|up_2|CP011846.1_1617994_1618822_-	PRK00311, panB, 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed	NA|299aa|up_1|CP011846.1_1618796_1619693_-	pfam10728, DUF2520, Domain of unknown function (DUF2520)	NA|698aa|up_0|CP011846.1_1620372_1622466_+	cd01948, EAL, EAL domain	NA|95aa|down_0|CP011846.1_1623587_1623872_-	NA	NA|273aa|down_1|CP011846.1_1624078_1624897_+	cd04782, HTH_BltR, Helix-Turn-Helix DNA binding domain of the BltR transcription regulator	NA|707aa|down_2|CP011846.1_1625029_1627150_-	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]	NA|76aa|down_3|CP011846.1_1627175_1627403_-	pfam04023, FeoA, FeoA domain	NA|147aa|down_4|CP011846.1_1627729_1628170_-	COG2153, ElaA, Predicted acyltransferase [General function prediction only]	NA|323aa|down_5|CP011846.1_1628342_1629311_+	NA	NA|403aa|down_6|CP011846.1_1629786_1630995_+	PRK13354, PRK13354, tyrosyl-tRNA synthetase; Provisional	NA|294aa|down_7|CP011846.1_1631055_1631937_-	cd10944, CE4_SmPgdA_like, Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins	NA|305aa|down_8|CP011846.1_1632352_1633267_+	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|CP011846.1_1633489_1634035_+	cd01046, Rubrerythrin_like, rubrerythrin-like, diiron-binding domain
GCA_003313545.1_ASM331354v1	CP011846	Clostridioides difficile strain DSM 27638 chromosome, complete genome	7	1715804-1716160	4,7,4	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,c2c9_V-U4,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,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|116aa|up_9|CP011846.1_1708855_1709203_+,NA|269aa|up_7|CP011846.1_1709602_1710409_+,NA|146aa|up_6|CP011846.1_1710757_1711195_+,NA|59aa|up_5|CP011846.1_1711187_1711364_+,NA|276aa|up_2|CP011846.1_1713220_1714048_+,NA|35aa|up_0|CP011846.1_1715408_1715513_+,NA|45aa|down_1|CP011846.1_1717624_1717759_+	NA|116aa|up_9|CP011846.1_1708855_1709203_+	NA	NA|97aa|up_8|CP011846.1_1709202_1709493_+	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component	NA|269aa|up_7|CP011846.1_1709602_1710409_+	NA	NA|146aa|up_6|CP011846.1_1710757_1711195_+	NA	NA|59aa|up_5|CP011846.1_1711187_1711364_+	NA	NA|437aa|up_4|CP011846.1_1711364_1712675_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_3|CP011846.1_1712691_1713162_+	pfam09393, DUF2001, Phage tail tube protein	NA|276aa|up_2|CP011846.1_1713220_1714048_+	NA	NA|147aa|up_1|CP011846.1_1714119_1714560_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|35aa|up_0|CP011846.1_1715408_1715513_+	NA	NA|289aa|down_0|CP011846.1_1716705_1717572_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|45aa|down_1|CP011846.1_1717624_1717759_+	NA	NA|176aa|down_2|CP011846.1_1718436_1718964_+	pfam11611, DUF4352, Domain of unknown function (DUF4352)	NA|256aa|down_3|CP011846.1_1719101_1719869_+	pfam14471, DUF4428, Domain of unknown function (DUF4428)	NA|791aa|down_4|CP011846.1_1719934_1722307_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|230aa|down_5|CP011846.1_1722323_1723013_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|631aa|down_6|CP011846.1_1723005_1724898_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_7|CP011846.1_1724911_1725172_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_8|CP011846.1_1725176_1725596_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|350aa|down_9|CP011846.1_1725596_1726646_+	pfam04865, Baseplate_J, Baseplate J-like protein
GCA_003313545.1_ASM331354v1	CP011846	Clostridioides difficile strain DSM 27638 chromosome, complete genome	8	1718025-1718315	8	CRISPRCasFinder	no		csa3,cas14j,c2c9_V-U4,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,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|269aa|up_9|CP011846.1_1709602_1710409_+,NA|146aa|up_8|CP011846.1_1710757_1711195_+,NA|59aa|up_7|CP011846.1_1711187_1711364_+,NA|276aa|up_4|CP011846.1_1713220_1714048_+,NA|35aa|up_2|CP011846.1_1715408_1715513_+,NA|45aa|up_0|CP011846.1_1717624_1717759_+,NA	NA|269aa|up_9|CP011846.1_1709602_1710409_+	NA	NA|146aa|up_8|CP011846.1_1710757_1711195_+	NA	NA|59aa|up_7|CP011846.1_1711187_1711364_+	NA	NA|437aa|up_6|CP011846.1_1711364_1712675_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_5|CP011846.1_1712691_1713162_+	pfam09393, DUF2001, Phage tail tube protein	NA|276aa|up_4|CP011846.1_1713220_1714048_+	NA	NA|147aa|up_3|CP011846.1_1714119_1714560_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|35aa|up_2|CP011846.1_1715408_1715513_+	NA	NA|289aa|up_1|CP011846.1_1716705_1717572_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|45aa|up_0|CP011846.1_1717624_1717759_+	NA	NA|176aa|down_0|CP011846.1_1718436_1718964_+	pfam11611, DUF4352, Domain of unknown function (DUF4352)	NA|256aa|down_1|CP011846.1_1719101_1719869_+	pfam14471, DUF4428, Domain of unknown function (DUF4428)	NA|791aa|down_2|CP011846.1_1719934_1722307_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|230aa|down_3|CP011846.1_1722323_1723013_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|631aa|down_4|CP011846.1_1723005_1724898_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_5|CP011846.1_1724911_1725172_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_6|CP011846.1_1725176_1725596_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|350aa|down_7|CP011846.1_1725596_1726646_+	pfam04865, Baseplate_J, Baseplate J-like protein	NA|206aa|down_8|CP011846.1_1726638_1727256_+	pfam10076, DUF2313, Uncharacterized protein conserved in bacteria (DUF2313)	NA|342aa|down_9|CP011846.1_1727267_1728293_+	pfam12571, DUF3751, Phage tail-collar fibre protein
GCA_003313545.1_ASM331354v1	CP011846	Clostridioides difficile strain DSM 27638 chromosome, complete genome	9	1855589-1856543	5,9,5	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,c2c9_V-U4,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,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|96aa|down_0|CP011846.1_1856951_1857239_+,NA|31aa|down_1|CP011846.1_1857263_1857356_+,NA|59aa|down_6|CP011846.1_1863626_1863803_-,NA|341aa|down_7|CP011846.1_1864377_1865400_+,NA|258aa|down_9|CP011846.1_1866306_1867080_+	NA|200aa|up_9|CP011846.1_1838413_1839013_-	COG4110, COG4110, Uncharacterized protein involved in stress response [General function prediction only]	NA|266aa|up_8|CP011846.1_1839115_1839913_-	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|329aa|up_7|CP011846.1_1840222_1841209_-	TIGR00545, Probable_lipoate-protein_ligase_A, lipoyltransferase and lipoate-protein ligase	NA|577aa|up_6|CP011846.1_1841692_1843423_+	COG1757, NhaC, Na+/H+ antiporter [Energy production and conversion]	NA|825aa|up_5|CP011846.1_1844823_1847298_+	PRK00451, PRK00451, aminomethyl-transferring glycine dehydrogenase subunit GcvPA	NA|486aa|up_4|CP011846.1_1847297_1848755_+	PRK04366, PRK04366, aminomethyl-transferring glycine dehydrogenase subunit GcvPB	NA|786aa|up_3|CP011846.1_1849177_1851535_+	cd02609, P-type_ATPase, uncharacterized subfamily of P-type ATPase transporter, similar to uncharacterized Streptococcus pneumoniae exported protein 7, Exp7	NA|106aa|up_2|CP011846.1_1851620_1851938_-	pfam06865, DUF1255, Protein of unknown function (DUF1255)	NA|252aa|up_1|CP011846.1_1852276_1853032_+	pfam12395, DUF3658, Protein of unknown function	NA|424aa|up_0|CP011846.1_1853670_1854942_-	cd01303, GDEase, Guanine deaminase (GDEase)	NA|96aa|down_0|CP011846.1_1856951_1857239_+	NA	NA|31aa|down_1|CP011846.1_1857263_1857356_+	NA	NA|184aa|down_2|CP011846.1_1857776_1858328_-	cd02209, cupin_XRE_C, XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain	NA|321aa|down_3|CP011846.1_1858518_1859481_+	cd01561, CBS_like, CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase	NA|615aa|down_4|CP011846.1_1859775_1861620_+	cd08579, GDPD_memb_like, Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases	NA|195aa|down_5|CP011846.1_1861941_1862526_+	cd03357, LbH_MAT_GAT, Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates	NA|59aa|down_6|CP011846.1_1863626_1863803_-	NA	NA|341aa|down_7|CP011846.1_1864377_1865400_+	NA	NA|296aa|down_8|CP011846.1_1865413_1866301_+	cd03264, ABC_drug_resistance_like, ABC-type multidrug transport system, ATPase component	NA|258aa|down_9|CP011846.1_1866306_1867080_+	NA
GCA_003313545.1_ASM331354v1	CP011846	Clostridioides difficile strain DSM 27638 chromosome, complete genome	10	2205849-2206531	6,10,6	CRT,CRISPRCasFinder,PILER-CR	no		csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	TTTACATTCCATATAGTTAATNATAAAAC,CTTTACATTCCATATAGTTAATATAAAAC,GTTTTATATTAACTATATGGAATGTAAAG	29,29,29	0	0	NA	NA	NA:I-A:I-A	10,9,8	10	Orphan	csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|95aa|up_0|CP011846.1_2205452_2205737_-,NA|206aa|down_7|CP011846.1_2215150_2215768_-,NA|567aa|down_8|CP011846.1_2215937_2217638_-,NA|188aa|down_9|CP011846.1_2218034_2218598_-	NA|287aa|up_9|CP011846.1_2195687_2196548_-	cd04250, AAK_NAGK-C, AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the non-acetylated, cyclic route of ornithine biosynthesis	NA|406aa|up_8|CP011846.1_2196562_2197780_-	cd02152, OAT, Ornithine acetyltransferase (OAT) family; also referred to as ArgJ	NA|345aa|up_7|CP011846.1_2197821_2198856_-	PRK00436, argC, N-acetyl-gamma-glutamyl-phosphate reductase; Validated	NA|255aa|up_6|CP011846.1_2199545_2200310_-	pfam14268, YoaP, YoaP-like	NA|158aa|up_5|CP011846.1_2200612_2201086_+	pfam13673, Acetyltransf_10, Acetyltransferase (GNAT) domain	NA|186aa|up_4|CP011846.1_2201454_2202012_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|233aa|up_3|CP011846.1_2202269_2202968_+	TIGR03502, lipase_Pla1_cef, extracellular lipase, Pla-1/cef family	NA|156aa|up_2|CP011846.1_2203989_2204457_+	pfam11188, DUF2975, Protein of unknown function (DUF2975)	NA|72aa|up_1|CP011846.1_2204467_2204683_+	COG3655, COG3655, Predicted transcriptional regulator [Transcription]	NA|95aa|up_0|CP011846.1_2205452_2205737_-	NA	NA|291aa|down_0|CP011846.1_2207361_2208234_-	COG1737, RpiR, Transcriptional regulators [Transcription]	NA|193aa|down_1|CP011846.1_2208627_2209206_-	pfam06962, rRNA_methylase, Putative rRNA methylase	NA|239aa|down_2|CP011846.1_2209263_2209980_-	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|362aa|down_3|CP011846.1_2210170_2211256_+	COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]	NA|220aa|down_4|CP011846.1_2211410_2212070_-	pfam03154, Atrophin-1, Atrophin-1 family	NA|431aa|down_5|CP011846.1_2212286_2213579_-	cd06828, PLPDE_III_DapDC, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase	NA|398aa|down_6|CP011846.1_2213596_2214790_-	PRK06635, PRK06635, aspartate kinase; Reviewed	NA|206aa|down_7|CP011846.1_2215150_2215768_-	NA	NA|567aa|down_8|CP011846.1_2215937_2217638_-	NA	NA|188aa|down_9|CP011846.1_2218034_2218598_-	NA
GCA_003313545.1_ASM331354v1	CP011846	Clostridioides difficile strain DSM 27638 chromosome, complete genome	11	2666482-2666639	7	PILER-CR	no	cas3,cas5,cas7,cas6	csa3,cas14j,c2c9_V-U4,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,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|492aa|down_3|CP011846.1_2671070_2672546_-	NA|448aa|up_9|CP011846.1_2658938_2660282_-	pfam06898, YqfD, Putative stage IV sporulation protein YqfD	NA|79aa|up_8|CP011846.1_2660294_2660531_-	pfam07873, YabP, YabP family	NA|188aa|up_7|CP011846.1_2660743_2661307_-	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|CP011846.1_2661499_2661997_-	cd15904, TSPO_MBR, Translocator protein (TSPO)/peripheral-type benzodiazepine receptor (MBR) family	NA|148aa|up_5|CP011846.1_2662107_2662551_-	pfam09424, YqeY, Yqey-like protein	NA|60aa|up_4|CP011846.1_2662580_2662760_-	PRK00270, rpsU, 30S ribosomal protein S21; Reviewed	NA|117aa|up_3|CP011846.1_2662922_2663273_-	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|CP011846.1_2663315_2664614_-	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|253aa|up_1|CP011846.1_2664615_2665374_-	PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional	NA|316aa|up_0|CP011846.1_2665392_2666340_-	pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA)	cas3|803aa|down_0|CP011846.1_2666780_2669189_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|269aa|down_1|CP011846.1_2669215_2670022_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|338aa|down_2|CP011846.1_2670037_2671051_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	NA|492aa|down_3|CP011846.1_2671070_2672546_-	NA	cas6|246aa|down_4|CP011846.1_2672550_2673288_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	NA|370aa|down_5|CP011846.1_2673546_2674656_+	PRK11650, ugpC, sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC	NA|256aa|down_6|CP011846.1_2674685_2675453_+	COG2508, COG2508, Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]	NA|458aa|down_7|CP011846.1_2675640_2677014_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|312aa|down_8|CP011846.1_2677049_2677985_-	COG1940, NagC, Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]	NA|385aa|down_9|CP011846.1_2678950_2680105_-	PRK10767, PRK10767, chaperone protein DnaJ; Provisional
GCA_003313545.1_ASM331354v1	CP011846	Clostridioides difficile strain DSM 27638 chromosome, complete genome	14	3250067-3251813	13,7,8	CRISPRCasFinder,CRT,PILER-CR	no	cas2,cas1,cas4,cas3,cas5,cas7,cas8b2,cas6,WYL	csa3,cas14j,c2c9_V-U4,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,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|67aa|up_7|CP011846.1_3242958_3243159_+,NA|260aa|up_1|CP011846.1_3248342_3249122_+,NA	NA|740aa|up_9|CP011846.1_3237305_3239525_-	cd01948, EAL, EAL domain	NA|885aa|up_8|CP011846.1_3239800_3242455_-	PRK13805, PRK13805, bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional	NA|67aa|up_7|CP011846.1_3242958_3243159_+	NA	NA|197aa|up_6|CP011846.1_3243366_3243957_-	PRK08305, spoVFB, dipicolinate synthase subunit B; Reviewed	NA|292aa|up_5|CP011846.1_3243959_3244835_-	PRK08306, PRK08306, dipicolinate synthase subunit DpsA	NA|464aa|up_4|CP011846.1_3244910_3246302_-	cd17633, AFD_YhfT-like, fatty acid-CoA ligase VraA	NA|379aa|up_3|CP011846.1_3246305_3247442_-	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|CP011846.1_3247473_3248019_-	pfam02632, BioY, BioY family	NA|260aa|up_1|CP011846.1_3248342_3249122_+	NA	NA|143aa|up_0|CP011846.1_3249577_3250006_-	PRK10562, PRK10562, putative acetyltransferase; Provisional	cas2|89aa|down_0|CP011846.1_3251996_3252263_-	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	cas1|327aa|down_1|CP011846.1_3252265_3253246_-	TIGR03641, cas1_HMARI, CRISPR-associated endonuclease Cas1, subtype I-B/HMARI/TNEAP	cas4|190aa|down_2|CP011846.1_3253248_3253818_-	pfam01930, Cas_Cas4, Domain of unknown function DUF83	cas3|774aa|down_3|CP011846.1_3253814_3256136_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|234aa|down_4|CP011846.1_3256146_3256848_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|305aa|down_5|CP011846.1_3256849_3257764_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas8b2|626aa|down_6|CP011846.1_3257765_3259643_-	cd09665, Cas8a1_I-A, CRISPR/Cas system-associated protein Cas8a1	cas6|246aa|down_7|CP011846.1_3259648_3260386_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	WYL|296aa|down_8|CP011846.1_3260463_3261351_-	pfam13280, WYL, WYL domain	NA|639aa|down_9|CP011846.1_3261659_3263576_-	pfam02687, FtsX, FtsX-like permease family
GCA_003313545.1_ASM331354v1	CP011846	Clostridioides difficile strain DSM 27638 chromosome, complete genome	15	3497201-3497823	14,8,9	CRISPRCasFinder,CRT,PILER-CR	no	WYL,cas3,cas7,cas6,cas5	csa3,cas14j,c2c9_V-U4,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,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|243aa|up_9|CP011846.1_3486408_3487137_-,NA|540aa|up_8|CP011846.1_3487154_3488774_-,NA|110aa|up_2|CP011846.1_3494959_3495289_-,NA|389aa|down_2|CP011846.1_3501162_3502329_-,NA|91aa|down_6|CP011846.1_3505612_3505885_-,NA|248aa|down_8|CP011846.1_3507481_3508225_-,NA|105aa|down_9|CP011846.1_3508246_3508561_-	NA|243aa|up_9|CP011846.1_3486408_3487137_-	NA	NA|540aa|up_8|CP011846.1_3487154_3488774_-	NA	NA|337aa|up_7|CP011846.1_3488773_3489784_-	pfam09983, DUF2220, Uncharacterized protein conserved in bacteria C-term(DUF2220)	NA|67aa|up_6|CP011846.1_3490382_3490583_+	COG2963, COG2963, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|130aa|up_5|CP011846.1_3490684_3491074_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|431aa|up_4|CP011846.1_3491515_3492808_-	pfam03235, DUF262, Protein of unknown function DUF262	NA|401aa|up_3|CP011846.1_3492807_3494010_-	pfam08867, FRG, FRG domain	NA|110aa|up_2|CP011846.1_3494959_3495289_-	NA	NA|112aa|up_1|CP011846.1_3495352_3495688_-	pfam13751, DDE_Tnp_1_6, Transposase DDE domain	NA|149aa|up_0|CP011846.1_3495934_3496381_-	COG3666, COG3666, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	cas3|662aa|down_0|CP011846.1_3498075_3500061_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas7|357aa|down_1|CP011846.1_3500071_3501142_-	TIGR02585, conserved_protein, CRISPR-associated protein Cas7/Cst2/DevR, subtype I-B/TNEAP	NA|389aa|down_2|CP011846.1_3501162_3502329_-	NA	cas6|255aa|down_3|CP011846.1_3502330_3503095_-	COG1583, COG1583, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	cas5|216aa|down_4|CP011846.1_3503085_3503733_-	TIGR01895, conserved_hypothetical_protein, CRISPR-associated protein Cas5, subtype I-B/TNEAP	NA|376aa|down_5|CP011846.1_3504212_3505340_-	COG3183, COG3183, Predicted restriction endonuclease [Defense mechanisms]	NA|91aa|down_6|CP011846.1_3505612_3505885_-	NA	NA|412aa|down_7|CP011846.1_3506134_3507370_-	TIGR00665, DnaB, replicative DNA helicase	NA|248aa|down_8|CP011846.1_3507481_3508225_-	NA	NA|105aa|down_9|CP011846.1_3508246_3508561_-	NA
