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_003482125.1_ASM348212v1	CP012323	Clostridioides difficile strain DSM 28669 chromosome, complete genome	1	577919-578043	1	CRISPRCasFinder	no	WYL	csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	Unclear	TGATGGTTGATAAGAATAGTAAGAAAAAAATAGATAATTAAAG	43	0	0	NA	NA	NA	1	1	Orphan	csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	NA|204aa|up_4|CP012323.1_572620_573232_+,NA|219aa|down_0|CP012323.1_578254_578911_+	NA|147aa|up_9|CP012323.1_568590_569031_+	cd00732, CheW, CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea	NA|268aa|up_8|CP012323.1_569066_569870_+	COG1352, CheR, Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]	NA|199aa|up_7|CP012323.1_569909_570506_+	cd16432, CheB_Rec, Chemotaxis response regulator protein-glutamate methylesterase, CheB, with N-terminal REC domain	NA|288aa|up_6|CP012323.1_570610_571474_+	pfam13739, DUF4163, Domain of unknown function (DUF4163)	NA|330aa|up_5|CP012323.1_571540_572530_+	PRK08618, PRK08618, ornithine cyclodeaminase family protein	NA|204aa|up_4|CP012323.1_572620_573232_+	NA	NA|260aa|up_3|CP012323.1_573679_574459_+	pfam06161, DUF975, Protein of unknown function (DUF975)	NA|120aa|up_2|CP012323.1_574663_575023_+	pfam03965, Penicillinase_R, Penicillinase repressor	NA|461aa|up_1|CP012323.1_575033_576416_+	cd07341, M56_BlaR1_MecR1_like, Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase	NA|137aa|up_0|CP012323.1_576631_577042_+	pfam02181, FH2, Formin Homology 2 Domain	NA|219aa|down_0|CP012323.1_578254_578911_+	NA	NA|424aa|down_1|CP012323.1_579381_580653_-	pfam01471, PG_binding_1, Putative peptidoglycan binding domain	NA|239aa|down_2|CP012323.1_580897_581614_+	pfam13367, PrsW-protease, Protease prsW family	NA|437aa|down_3|CP012323.1_581692_583003_+	PRK11933, yebU, rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed	NA|179aa|down_4|CP012323.1_583102_583639_+	TIGR02227, Inactive_signal_peptidase_IA	NA|179aa|down_5|CP012323.1_583804_584341_+	TIGR02227, Inactive_signal_peptidase_IA	NA|252aa|down_6|CP012323.1_584350_585106_+	pfam01261, AP_endonuc_2, Xylose isomerase-like TIM barrel	NA|556aa|down_7|CP012323.1_585179_586847_+	cd02028, UMPK_like, Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2	NA|310aa|down_8|CP012323.1_587762_588692_+	TIGR03814, Glutaminase_1, glutaminase A	NA|188aa|down_9|CP012323.1_588789_589353_+	pfam12840, HTH_20, Helix-turn-helix domain
GCA_003482125.1_ASM348212v1	CP012323	Clostridioides difficile strain DSM 28669 chromosome, complete genome	2	1300610-1301165	1,2,1	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	Orphan	GTTTTATATTAACTAAGTGGTATGTAAAG,GTTTTATATTAACTAAGTGGTATGTAAAG,GTTTTATATTAACTAAGTGGTATGTAAAG	29,29,29	0	0	NA	NA	I-A:I-A:I-A	8,8,8	8	Orphan	csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	NA,NA|84aa|down_1|CP012323.1_1302777_1303029_+,NA|38aa|down_2|CP012323.1_1303345_1303459_+,NA|127aa|down_3|CP012323.1_1303682_1304063_+,NA|128aa|down_4|CP012323.1_1304246_1304630_-,NA|106aa|down_5|CP012323.1_1306474_1306792_-,NA|65aa|down_8|CP012323.1_1309147_1309342_-	NA|271aa|up_9|CP012323.1_1287703_1288516_+	cd09009, PNP-EcPNPII_like, purine nucleoside phosphorylases similar to human PNP and Escherichia coli PNP-II (XapA)	NA|442aa|up_8|CP012323.1_1288719_1290045_+	TIGR02644, Thymidine_phosphorylase, pyrimidine-nucleoside phosphorylase	NA|360aa|up_7|CP012323.1_1290257_1291337_+	pfam02618, YceG, YceG-like family	NA|225aa|up_6|CP012323.1_1291508_1292183_+	COG4122, COG4122, Predicted O-methyltransferase [General function prediction only]	NA|416aa|up_5|CP012323.1_1292169_1293417_+	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|555aa|up_4|CP012323.1_1293488_1295153_+	COG0768, FtsI, Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]	NA|95aa|up_3|CP012323.1_1295249_1295534_-	PRK05803, PRK05803, RNA polymerase sporulation sigma factor SigK	NA|506aa|up_2|CP012323.1_1295556_1297074_-	cd00338, Ser_Recombinase, Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain	NA|274aa|up_1|CP012323.1_1297198_1298020_-	sd00006, TPR, Tetratricopeptide repeat	NA|476aa|up_0|CP012323.1_1298211_1299639_+	NF033435, S-layer_Clost, S-layer protein SlpA	NA|47aa|down_0|CP012323.1_1301534_1301675_-	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins	NA|84aa|down_1|CP012323.1_1302777_1303029_+	NA	NA|38aa|down_2|CP012323.1_1303345_1303459_+	NA	NA|127aa|down_3|CP012323.1_1303682_1304063_+	NA	NA|128aa|down_4|CP012323.1_1304246_1304630_-	NA	NA|106aa|down_5|CP012323.1_1306474_1306792_-	NA	NA|130aa|down_6|CP012323.1_1307823_1308213_+	pfam03965, Penicillinase_R, Penicillinase repressor	NA|170aa|down_7|CP012323.1_1308536_1309046_+	pfam04892, VanZ, VanZ like family	NA|65aa|down_8|CP012323.1_1309147_1309342_-	NA	NA|131aa|down_9|CP012323.1_1309858_1310251_-	PRK05803, PRK05803, RNA polymerase sporulation sigma factor SigK
GCA_003482125.1_ASM348212v1	CP012323	Clostridioides difficile strain DSM 28669 chromosome, complete genome	3	1510889-1511378	2,3,2	PILER-CR,CRISPRCasFinder,CRT	no	DinG	csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	Type IV-A	GTTTTATATTAACTAAGTGGTATGTAAAT,GTTTTATATTAACTAAGTGGTATGTAAAT,GTTTTATATTAACTAAGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	6,7,7	7	Orphan	csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	NA|183aa|up_5|CP012323.1_1505650_1506199_-,NA|80aa|down_4|CP012323.1_1518528_1518768_+,NA|59aa|down_5|CP012323.1_1518954_1519131_-,NA|45aa|down_9|CP012323.1_1521744_1521879_+	NA|195aa|up_9|CP012323.1_1500839_1501424_-	pfam00882, Zn_dep_PLPC, Zinc dependent phospholipase C	NA|481aa|up_8|CP012323.1_1501623_1503066_-	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|315aa|up_7|CP012323.1_1503381_1504326_+	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter	NA|329aa|up_6|CP012323.1_1504596_1505583_-	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only]	NA|183aa|up_5|CP012323.1_1505650_1506199_-	NA	NA|143aa|up_4|CP012323.1_1506350_1506779_+	pfam04657, DMT_YdcZ, Putative inner membrane exporter, YdcZ	NA|217aa|up_3|CP012323.1_1506863_1507514_+	cd01994, Alpha_ANH_like_IV, This is a subfamily of Adenine nucleotide alpha hydrolases superfamily	NA|452aa|up_2|CP012323.1_1507631_1508987_-	cd13143, MATE_MepA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA	NA|182aa|up_1|CP012323.1_1509527_1510073_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|70aa|up_0|CP012323.1_1510073_1510283_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|578aa|down_0|CP012323.1_1511703_1513437_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|282aa|down_1|CP012323.1_1513673_1514519_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|745aa|down_2|CP012323.1_1514549_1516784_-	cd01948, EAL, EAL domain	NA|270aa|down_3|CP012323.1_1517566_1518376_+	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators	NA|80aa|down_4|CP012323.1_1518528_1518768_+	NA	NA|59aa|down_5|CP012323.1_1518954_1519131_-	NA	NA|225aa|down_6|CP012323.1_1519622_1520297_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|179aa|down_7|CP012323.1_1520516_1521053_-	cd01014, nicotinamidase_related, Nicotinamidase_ related amidohydrolases	NA|122aa|down_8|CP012323.1_1521148_1521514_-	COG1733, COG1733, Predicted transcriptional regulators [Transcription]	NA|45aa|down_9|CP012323.1_1521744_1521879_+	NA
GCA_003482125.1_ASM348212v1	CP012323	Clostridioides difficile strain DSM 28669 chromosome, complete genome	4	1620567-1621320	4,3	CRISPRCasFinder,CRT	no		csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	Orphan	GTTTTATATTAACTATATGGAATGTAAAT,GTTTTATATTAACTATATGGAATGTAAAT	29,29	0	0	NA	NA	I-A:I-A	11,11	11	Orphan	csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	NA|190aa|up_7|CP012323.1_1610720_1611290_+,NA|61aa|up_4|CP012323.1_1613974_1614157_-,NA|323aa|down_4|CP012323.1_1626232_1627201_+	NA|195aa|up_9|CP012323.1_1609079_1609664_+	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|300aa|up_8|CP012323.1_1609816_1610716_+	TIGR02163, Ferredoxin-type_protein_NapH_homolog, ferredoxin-type protein, NapH/MauN family	NA|190aa|up_7|CP012323.1_1610720_1611290_+	NA	NA|216aa|up_6|CP012323.1_1611456_1612104_-	pfam02589, LUD_dom, LUD domain	NA|305aa|up_5|CP012323.1_1612494_1613409_-	pfam11155, DUF2935, Domain of unknown function (DUF2935)	NA|61aa|up_4|CP012323.1_1613974_1614157_-	NA	NA|283aa|up_3|CP012323.1_1614567_1615416_-	PRK00380, panC, pantoate--beta-alanine ligase; Reviewed	NA|276aa|up_2|CP012323.1_1615434_1616262_-	PRK00311, panB, 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed	NA|299aa|up_1|CP012323.1_1616236_1617133_-	pfam10728, DUF2520, Domain of unknown function (DUF2520)	NA|698aa|up_0|CP012323.1_1617812_1619906_+	cd01948, EAL, EAL domain	NA|273aa|down_0|CP012323.1_1621968_1622787_+	cd04782, HTH_BltR, Helix-Turn-Helix DNA binding domain of the BltR transcription regulator	NA|707aa|down_1|CP012323.1_1622919_1625040_-	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]	NA|76aa|down_2|CP012323.1_1625065_1625293_-	pfam04023, FeoA, FeoA domain	NA|147aa|down_3|CP012323.1_1625619_1626060_-	COG2153, ElaA, Predicted acyltransferase [General function prediction only]	NA|323aa|down_4|CP012323.1_1626232_1627201_+	NA	NA|403aa|down_5|CP012323.1_1627677_1628886_+	PRK13354, PRK13354, tyrosyl-tRNA synthetase; Provisional	NA|294aa|down_6|CP012323.1_1628967_1629849_-	cd10944, CE4_SmPgdA_like, Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins	NA|305aa|down_7|CP012323.1_1630264_1631179_+	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_8|CP012323.1_1631401_1631947_+	cd01046, Rubrerythrin_like, rubrerythrin-like, diiron-binding domain	NA|383aa|down_9|CP012323.1_1632037_1633186_+	COG2006, COG2006, Uncharacterized conserved protein [Function unknown]
GCA_003482125.1_ASM348212v1	CP012323	Clostridioides difficile strain DSM 28669 chromosome, complete genome	5	1710472-1710834	3,5,4	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	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	NA|134aa|up_8|CP012323.1_1705157_1705559_+,NA|116aa|up_7|CP012323.1_1705552_1705900_+,NA|146aa|up_5|CP012323.1_1706317_1706755_+,NA|62aa|up_4|CP012323.1_1706738_1706924_+,NA|35aa|up_0|CP012323.1_1710076_1710181_+,NA|30aa|down_0|CP012323.1_1711662_1711752_+,NA|101aa|down_1|CP012323.1_1711758_1712061_+,NA|53aa|down_4|CP012323.1_1713410_1713569_+	NA|78aa|up_9|CP012323.1_1704914_1705148_+	TIGR03752, conj_TIGR03752, integrating conjugative element protein, PFL_4705 family	NA|134aa|up_8|CP012323.1_1705157_1705559_+	NA	NA|116aa|up_7|CP012323.1_1705552_1705900_+	NA	NA|142aa|up_6|CP012323.1_1705899_1706325_+	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component	NA|146aa|up_5|CP012323.1_1706317_1706755_+	NA	NA|62aa|up_4|CP012323.1_1706738_1706924_+	NA	NA|437aa|up_3|CP012323.1_1706924_1708235_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_2|CP012323.1_1708251_1708722_+	pfam09393, DUF2001, Phage tail tube protein	NA|147aa|up_1|CP012323.1_1708793_1709234_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|35aa|up_0|CP012323.1_1710076_1710181_+	NA	NA|30aa|down_0|CP012323.1_1711662_1711752_+	NA	NA|101aa|down_1|CP012323.1_1711758_1712061_+	NA	NA|57aa|down_2|CP012323.1_1712217_1712388_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|281aa|down_3|CP012323.1_1712515_1713358_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|53aa|down_4|CP012323.1_1713410_1713569_+	NA	NA|261aa|down_5|CP012323.1_1714126_1714909_+	pfam09851, SHOCT, Short C-terminal domain	NA|784aa|down_6|CP012323.1_1714972_1717324_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|232aa|down_7|CP012323.1_1717339_1718035_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|631aa|down_8|CP012323.1_1718027_1719920_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_9|CP012323.1_1719933_1720194_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)
GCA_003482125.1_ASM348212v1	CP012323	Clostridioides difficile strain DSM 28669 chromosome, complete genome	6	1711436-1712058	4,6,5	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	Orphan	GTTTTAGATTAACTAAGTGGAATGTAAAT,GTTTTAGATTAACTATATGGAATGTAAAT,GTTTTAGATTAACTAAGTGGAATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	7,9,9	9	Orphan	csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	NA|134aa|up_8|CP012323.1_1705157_1705559_+,NA|116aa|up_7|CP012323.1_1705552_1705900_+,NA|146aa|up_5|CP012323.1_1706317_1706755_+,NA|62aa|up_4|CP012323.1_1706738_1706924_+,NA|35aa|up_0|CP012323.1_1710076_1710181_+,NA|53aa|down_2|CP012323.1_1713410_1713569_+	NA|78aa|up_9|CP012323.1_1704914_1705148_+	TIGR03752, conj_TIGR03752, integrating conjugative element protein, PFL_4705 family	NA|134aa|up_8|CP012323.1_1705157_1705559_+	NA	NA|116aa|up_7|CP012323.1_1705552_1705900_+	NA	NA|142aa|up_6|CP012323.1_1705899_1706325_+	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component	NA|146aa|up_5|CP012323.1_1706317_1706755_+	NA	NA|62aa|up_4|CP012323.1_1706738_1706924_+	NA	NA|437aa|up_3|CP012323.1_1706924_1708235_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_2|CP012323.1_1708251_1708722_+	pfam09393, DUF2001, Phage tail tube protein	NA|147aa|up_1|CP012323.1_1708793_1709234_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|35aa|up_0|CP012323.1_1710076_1710181_+	NA	NA|57aa|down_0|CP012323.1_1712217_1712388_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|281aa|down_1|CP012323.1_1712515_1713358_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|53aa|down_2|CP012323.1_1713410_1713569_+	NA	NA|261aa|down_3|CP012323.1_1714126_1714909_+	pfam09851, SHOCT, Short C-terminal domain	NA|784aa|down_4|CP012323.1_1714972_1717324_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|232aa|down_5|CP012323.1_1717339_1718035_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|631aa|down_6|CP012323.1_1718027_1719920_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_7|CP012323.1_1719933_1720194_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_8|CP012323.1_1720198_1720618_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|350aa|down_9|CP012323.1_1720618_1721668_+	pfam04865, Baseplate_J, Baseplate J-like protein
GCA_003482125.1_ASM348212v1	CP012323	Clostridioides difficile strain DSM 28669 chromosome, complete genome	7	1713646-1714002	6,5,7	CRT,PILER-CR,CRISPRCasFinder	no		csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	Orphan	GTTTTATATTAACTATGTGGTATGTAAA,TTTATATTAACTATGTGGTATGTAAA,TTATATTAACTATGTGGTATGTAAAG	28,26,26	0	0	NA	NA	I-A:I-A:I-A	5,4,5	5	Orphan	csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	NA|62aa|up_9|CP012323.1_1706738_1706924_+,NA|35aa|up_5|CP012323.1_1710076_1710181_+,NA|30aa|up_4|CP012323.1_1711662_1711752_+,NA|101aa|up_3|CP012323.1_1711758_1712061_+,NA|53aa|up_0|CP012323.1_1713410_1713569_+,NA	NA|62aa|up_9|CP012323.1_1706738_1706924_+	NA	NA|437aa|up_8|CP012323.1_1706924_1708235_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_7|CP012323.1_1708251_1708722_+	pfam09393, DUF2001, Phage tail tube protein	NA|147aa|up_6|CP012323.1_1708793_1709234_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|35aa|up_5|CP012323.1_1710076_1710181_+	NA	NA|30aa|up_4|CP012323.1_1711662_1711752_+	NA	NA|101aa|up_3|CP012323.1_1711758_1712061_+	NA	NA|57aa|up_2|CP012323.1_1712217_1712388_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|281aa|up_1|CP012323.1_1712515_1713358_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|53aa|up_0|CP012323.1_1713410_1713569_+	NA	NA|261aa|down_0|CP012323.1_1714126_1714909_+	pfam09851, SHOCT, Short C-terminal domain	NA|784aa|down_1|CP012323.1_1714972_1717324_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|232aa|down_2|CP012323.1_1717339_1718035_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|631aa|down_3|CP012323.1_1718027_1719920_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_4|CP012323.1_1719933_1720194_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_5|CP012323.1_1720198_1720618_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|350aa|down_6|CP012323.1_1720618_1721668_+	pfam04865, Baseplate_J, Baseplate J-like protein	NA|206aa|down_7|CP012323.1_1721660_1722278_+	pfam10076, DUF2313, Uncharacterized protein conserved in bacteria (DUF2313)	NA|370aa|down_8|CP012323.1_1722289_1723399_+	pfam12571, DUF3751, Phage tail-collar fibre protein	NA|382aa|down_9|CP012323.1_1723415_1724561_+	sd00038, Kelch, Kelch repeat
GCA_003482125.1_ASM348212v1	CP012323	Clostridioides difficile strain DSM 28669 chromosome, complete genome	8	1844119-1844677	6,8,7	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	Orphan	GTTTTATATTAACTATGTGGTATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	8,8,8	8	Orphan	csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	NA,NA|96aa|down_0|CP012323.1_1845083_1845371_+,NA|33aa|down_1|CP012323.1_1845395_1845494_+,NA|59aa|down_6|CP012323.1_1851757_1851934_-,NA|341aa|down_7|CP012323.1_1852501_1853524_+,NA|258aa|down_9|CP012323.1_1854430_1855204_+	NA|200aa|up_9|CP012323.1_1827359_1827959_-	COG4110, COG4110, Uncharacterized protein involved in stress response [General function prediction only]	NA|266aa|up_8|CP012323.1_1828061_1828859_-	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|329aa|up_7|CP012323.1_1829168_1830155_-	TIGR00545, Probable_lipoate-protein_ligase_A, lipoyltransferase and lipoate-protein ligase	NA|577aa|up_6|CP012323.1_1830637_1832368_+	COG1757, NhaC, Na+/H+ antiporter [Energy production and conversion]	NA|172aa|up_5|CP012323.1_1832892_1833408_+	pfam13787, HXXEE, Protein of unknown function with HXXEE motif	NA|825aa|up_4|CP012323.1_1834197_1836672_+	PRK00451, PRK00451, aminomethyl-transferring glycine dehydrogenase subunit GcvPA	NA|486aa|up_3|CP012323.1_1836671_1838129_+	PRK04366, PRK04366, aminomethyl-transferring glycine dehydrogenase subunit GcvPB	NA|786aa|up_2|CP012323.1_1838551_1840909_+	cd02609, P-type_ATPase, uncharacterized subfamily of P-type ATPase transporter, similar to uncharacterized Streptococcus pneumoniae exported protein 7, Exp7	NA|106aa|up_1|CP012323.1_1840994_1841312_-	pfam06865, DUF1255, Protein of unknown function (DUF1255)	NA|424aa|up_0|CP012323.1_1842202_1843474_-	cd01303, GDEase, Guanine deaminase (GDEase)	NA|96aa|down_0|CP012323.1_1845083_1845371_+	NA	NA|33aa|down_1|CP012323.1_1845395_1845494_+	NA	NA|184aa|down_2|CP012323.1_1845909_1846461_-	cd02209, cupin_XRE_C, XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain	NA|321aa|down_3|CP012323.1_1846651_1847614_+	cd01561, CBS_like, CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase	NA|615aa|down_4|CP012323.1_1847905_1849750_+	cd08579, GDPD_memb_like, Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases	NA|195aa|down_5|CP012323.1_1850070_1850655_+	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|CP012323.1_1851757_1851934_-	NA	NA|341aa|down_7|CP012323.1_1852501_1853524_+	NA	NA|296aa|down_8|CP012323.1_1853537_1854425_+	cd03264, ABC_drug_resistance_like, ABC-type multidrug transport system, ATPase component	NA|258aa|down_9|CP012323.1_1854430_1855204_+	NA
GCA_003482125.1_ASM348212v1	CP012323	Clostridioides difficile strain DSM 28669 chromosome, complete genome	9	2674469-2674629	9,7	CRISPRCasFinder,PILER-CR	no	cas3,cas5,cas7,cas6,c2c9_V-U4	csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	Unclear	TGAAATCCACTTAGTTAATCTTAAAC,TAGGTTTAAGATTAACTAAGTGGATTTCA	26,29	0	0	NA	NA	NA:NA	2,2	2	Unclear	csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	NA,NA|489aa|down_3|CP012323.1_2679049_2680516_-	NA|448aa|up_9|CP012323.1_2666925_2668269_-	pfam06898, YqfD, Putative stage IV sporulation protein YqfD	NA|79aa|up_8|CP012323.1_2668281_2668518_-	pfam07873, YabP, YabP family	NA|188aa|up_7|CP012323.1_2668732_2669296_-	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|CP012323.1_2669488_2669986_-	cd15904, TSPO_MBR, Translocator protein (TSPO)/peripheral-type benzodiazepine receptor (MBR) family	NA|148aa|up_5|CP012323.1_2670096_2670540_-	pfam09424, YqeY, Yqey-like protein	NA|60aa|up_4|CP012323.1_2670569_2670749_-	PRK00270, rpsU, 30S ribosomal protein S21; Reviewed	NA|117aa|up_3|CP012323.1_2670911_2671262_-	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|CP012323.1_2671304_2672603_-	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|253aa|up_1|CP012323.1_2672604_2673363_-	PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional	NA|316aa|up_0|CP012323.1_2673381_2674329_-	pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA)	cas3|803aa|down_0|CP012323.1_2674769_2677178_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|266aa|down_1|CP012323.1_2677204_2678002_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|338aa|down_2|CP012323.1_2678017_2679031_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	NA|489aa|down_3|CP012323.1_2679049_2680516_-	NA	cas6|246aa|down_4|CP012323.1_2680520_2681258_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	NA|153aa|down_5|CP012323.1_2681571_2682030_+	COG2452, COG2452, Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]	c2c9_V-U4|388aa|down_6|CP012323.1_2682066_2683230_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|370aa|down_7|CP012323.1_2683382_2684492_+	PRK11650, ugpC, sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC	NA|256aa|down_8|CP012323.1_2684521_2685289_+	COG2508, COG2508, Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]	NA|458aa|down_9|CP012323.1_2685476_2686850_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily
GCA_003482125.1_ASM348212v1	CP012323	Clostridioides difficile strain DSM 28669 chromosome, complete genome	10	2764303-2764727	10,8,8	CRISPRCasFinder,CRT,PILER-CR	no		csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	Orphan	ATTTACATTCCATATAGTTAATATAAAAC,ATTTACATTCCATATAGTTAATATAAAAC,GTTTTATATTAACTATATGGAATGTAAAT	29,29,29	1	1	2764662-2764698	CP012323.1_92036-92000	I-A:I-A:I-A	6,6,5	6	Orphan	csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	NA|59aa|up_6|CP012323.1_2759694_2759871_+,NA|53aa|down_0|CP012323.1_2765012_2765171_-	NA|543aa|up_9|CP012323.1_2755998_2757627_+	TIGR03801, For_A_Pyridoxal-5-_Phosphate, aspartate 4-decarboxylase	NA|332aa|up_8|CP012323.1_2757747_2758743_+	cd08964, L-asparaginase_II, Type II (periplasmic) bacterial L-asparaginase	NA|128aa|up_7|CP012323.1_2758927_2759311_-	pfam03965, Penicillinase_R, Penicillinase repressor	NA|59aa|up_6|CP012323.1_2759694_2759871_+	NA	NA|67aa|up_5|CP012323.1_2760096_2760297_+	COG1278, CspC, Cold shock proteins [Transcription]	NA|441aa|up_4|CP012323.1_2760742_2762065_+	cd16935, HATPase_AgrC-ComD-like, Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Staphylococcus aureus AgrC and Streptococcus pneumoniae ComD which are involved in quorum sensing	NA|194aa|up_3|CP012323.1_2762107_2762689_+	pfam04647, AgrB, Accessory gene regulator B	NA|54aa|up_2|CP012323.1_2762706_2762868_+	TIGR04223, quorum_AgrD, cyclic lactone autoinducer peptide	NA|266aa|up_1|CP012323.1_2762889_2763687_-	cd02696, MurNAc-LAA, N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3	NA|87aa|up_0|CP012323.1_2763683_2763944_-	pfam16079, Phage_holin_5_2, Phage holin family Hol44, in holin superfamily V	NA|53aa|down_0|CP012323.1_2765012_2765171_-	NA	NA|457aa|down_1|CP012323.1_2765528_2766899_-	NF033435, S-layer_Clost, S-layer protein SlpA	NA|141aa|down_2|CP012323.1_2767297_2767720_+	pfam14659, Phage_int_SAM_3, Phage integrase, N-terminal SAM-like domain	NA|223aa|down_3|CP012323.1_2768704_2769373_-	pfam04892, VanZ, VanZ like family	NA|807aa|down_4|CP012323.1_2770261_2772682_-	PRK00390, leuS, leucyl-tRNA synthetase; Validated	NA|117aa|down_5|CP012323.1_2773035_2773386_-	pfam02410, RsfS, Ribosomal silencing factor during starvation	NA|191aa|down_6|CP012323.1_2773502_2774075_-	COG1713, COG1713, Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]	NA|230aa|down_7|CP012323.1_2774075_2774765_-	PRK00071, nadD, nicotinate-nucleotide adenylyltransferase	NA|213aa|down_8|CP012323.1_2775040_2775679_+	PRK00117, recX, recombination regulator RecX; Reviewed	NA|668aa|down_9|CP012323.1_2775831_2777835_+	PLN02447, PLN02447, 1,4-alpha-glucan-branching enzyme
GCA_003482125.1_ASM348212v1	CP012323	Clostridioides difficile strain DSM 28669 chromosome, complete genome	17	3663744-3663853	16	CRISPRCasFinder	no		csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	Orphan	AAAAAAGACCTAGAAATTAATCTGAGTCTTT	31	0	0	NA	NA	NA	1	1	Orphan	csa3,cas14j,c2c9_V-U4,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6	NA|116aa|up_9|CP012323.1_3656222_3656570_-,NA|134aa|up_8|CP012323.1_3656563_3656965_-,NA|300aa|up_6|CP012323.1_3657207_3658107_-,NA|67aa|up_4|CP012323.1_3658747_3658948_-,NA|91aa|down_4|CP012323.1_3666799_3667072_-,NA|58aa|down_5|CP012323.1_3667170_3667344_-,NA|61aa|down_6|CP012323.1_3667441_3667624_-,NA|124aa|down_7|CP012323.1_3667626_3667998_-,NA|58aa|down_8|CP012323.1_3667990_3668164_-	NA|116aa|up_9|CP012323.1_3656222_3656570_-	NA	NA|134aa|up_8|CP012323.1_3656563_3656965_-	NA	NA|78aa|up_7|CP012323.1_3656974_3657208_-	TIGR03752, conj_TIGR03752, integrating conjugative element protein, PFL_4705 family	NA|300aa|up_6|CP012323.1_3657207_3658107_-	NA	NA|188aa|up_5|CP012323.1_3658118_3658682_-	pfam06810, Phage_GP20, Phage minor structural protein GP20	NA|67aa|up_4|CP012323.1_3658747_3658948_-	NA	NA|466aa|up_3|CP012323.1_3658962_3660360_-	pfam15542, Ntox50, Bacterial toxin 50	NA|480aa|up_2|CP012323.1_3660349_3661789_-	pfam05133, Phage_prot_Gp6, Phage portal protein, SPP1 Gp6-like	NA|418aa|up_1|CP012323.1_3661794_3663048_-	COG1783, XtmB, Phage terminase large subunit [General function prediction only]	NA|228aa|up_0|CP012323.1_3663025_3663709_-	COG5484, COG5484, Uncharacterized conserved protein [Function unknown]	NA|167aa|down_0|CP012323.1_3664453_3664954_-	TIGR01636, Transcriptional_activator_rinA, phage transcriptional activator, RinA family	NA|283aa|down_1|CP012323.1_3665053_3665902_-	pfam10552, ORF6C, ORF6C domain	NA|136aa|down_2|CP012323.1_3666002_3666410_-	pfam05866, RusA, Endodeoxyribonuclease RusA	NA|77aa|down_3|CP012323.1_3666546_3666777_-	pfam12961, DUF3850, Domain of Unknown Function with PDB structure (DUF3850)	NA|91aa|down_4|CP012323.1_3666799_3667072_-	NA	NA|58aa|down_5|CP012323.1_3667170_3667344_-	NA	NA|61aa|down_6|CP012323.1_3667441_3667624_-	NA	NA|124aa|down_7|CP012323.1_3667626_3667998_-	NA	NA|58aa|down_8|CP012323.1_3667990_3668164_-	NA	NA|332aa|down_9|CP012323.1_3668485_3669481_-	pfam04245, NA37, 37-kD nucleoid-associated bacterial protein
