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_002945415.1_ASM294541v1	CP026592	Clostridioides difficile strain CD-10-00484 chromosome, complete genome	1	150452-150530	1	CRISPRCasFinder	no		csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	TGTTTATAATGTGGATAATATTTAA	25	0	0	NA	NA	NA	1	1	Orphan	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|40aa|down_2|CP026592.1_165066_165186_+,NA|226aa|down_5|CP026592.1_167366_168044_+	NA|278aa|up_9|CP026592.1_127702_128536_+	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase	NA|289aa|up_8|CP026592.1_128523_129390_+	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|268aa|up_7|CP026592.1_129383_130187_+	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|244aa|up_6|CP026592.1_130218_130950_+	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|144aa|up_5|CP026592.1_131069_131501_+	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|131aa|up_4|CP026592.1_131529_131922_+	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|235aa|up_3|CP026592.1_132428_133133_+	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|395aa|up_2|CP026592.1_145501_146686_-	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|784aa|up_1|CP026592.1_147058_149410_+	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|180aa|up_0|CP026592.1_149431_149971_+	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|280aa|down_0|CP026592.1_163052_163892_+	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|394aa|down_1|CP026592.1_163888_165070_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|40aa|down_2|CP026592.1_165066_165186_+	NA	NA|301aa|down_3|CP026592.1_165373_166276_+	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|360aa|down_4|CP026592.1_166297_167377_+	PRK03011, PRK03011, butyrate kinase; Provisional	NA|226aa|down_5|CP026592.1_167366_168044_+	NA	NA|72aa|down_6|CP026592.1_168086_168302_+	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|360aa|down_7|CP026592.1_168330_169410_+	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated	NA|251aa|down_8|CP026592.1_169409_170162_+	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|CP026592.1_170162_170720_+	pfam01558, POR, Pyruvate ferredoxin/flavodoxin oxidoreductase
GCA_002945415.1_ASM294541v1	CP026592	Clostridioides difficile strain CD-10-00484 chromosome, complete genome	3	1010349-1010426	3	CRISPRCasFinder	no	cas14j	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	AAAAAATAAGAAAGTTTATAAATA	24	0	0	NA	NA	NA	1	1	TypeV	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|50aa|down_8|CP026592.1_1019123_1019273_-	NA|527aa|up_9|CP026592.1_994988_996569_+	COG0063, COG0063, Predicted sugar kinase [Carbohydrate transport and metabolism]	cas14j|373aa|up_8|CP026592.1_997314_998433_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|149aa|up_7|CP026592.1_998716_999163_+	COG1585, COG1585, Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]	NA|348aa|up_6|CP026592.1_999183_1000227_+	COG0330, HflC, Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]	NA|387aa|up_5|CP026592.1_1000997_1002158_+	PRK05293, glgC, glucose-1-phosphate adenylyltransferase; Provisional	NA|377aa|up_4|CP026592.1_1002159_1003290_+	TIGR02092, Glycogen_biosynthesis_protein_GlgD, glucose-1-phosphate adenylyltransferase, GlgD subunit	NA|481aa|up_3|CP026592.1_1003318_1004761_+	cd03791, GT5_Glycogen_synthase_DULL1-like, Glycogen synthase GlgA and similar proteins	NA|814aa|up_2|CP026592.1_1004753_1007195_+	cd04300, GT35_Glycogen_Phosphorylase, glycogen phosphorylase and similar proteins	NA|622aa|up_1|CP026592.1_1007199_1009065_+	cd11338, AmyAc_CMD, Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins	NA|218aa|up_0|CP026592.1_1009309_1009963_+	COG1802, GntR, Transcriptional regulators [Transcription]	NA|492aa|down_0|CP026592.1_1010600_1012076_+	COG1982, LdcC, Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]	NA|138aa|down_1|CP026592.1_1012162_1012576_+	TIGR03330, SAM_DCase_Bsu, S-adenosylmethionine decarboxylase proenzyme, Bacillus form	NA|284aa|down_2|CP026592.1_1012605_1013457_+	PRK00811, PRK00811, polyamine aminopropyltransferase	NA|293aa|down_3|CP026592.1_1013446_1014325_+	cd11593, Agmatinase-like_2, Agmatinase and related proteins	NA|67aa|down_4|CP026592.1_1014504_1014705_-	COG1278, CspC, Cold shock proteins [Transcription]	NA|497aa|down_5|CP026592.1_1015171_1016662_+	TIGR04105, hypothetical_protein, [FeFe] hydrogenase, group B1/B3	NA|499aa|down_6|CP026592.1_1016919_1018416_+	TIGR04105, hypothetical_protein, [FeFe] hydrogenase, group B1/B3	NA|117aa|down_7|CP026592.1_1018549_1018900_+	cd07731, ComA-like_MBL-fold, Competence protein ComA, ComEC and related proteins; MBL-fold metallo hydrolase domain	NA|50aa|down_8|CP026592.1_1019123_1019273_-	NA	cas14j|373aa|down_9|CP026592.1_1019538_1020657_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]
GCA_002945415.1_ASM294541v1	CP026592	Clostridioides difficile strain CD-10-00484 chromosome, complete genome	4	1305541-1306494	1,4,1	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTATATTAACTAAGTGGTATGTAAAG,GTTTTATATTAACTAAGTGGTATGTAAAG,GTTTTATATTAACTAAGTGGTATGTAAAG	29,29,29	0	0	NA	NA	I-A:I-A:I-A	14,14,14	14	Orphan	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|75aa|up_2|CP026592.1_1302901_1303126_+,NA|52aa|down_0|CP026592.1_1307710_1307866_+,NA|34aa|down_1|CP026592.1_1307890_1307992_+,NA|84aa|down_2|CP026592.1_1308111_1308363_+,NA|38aa|down_3|CP026592.1_1308672_1308786_+,NA|70aa|down_4|CP026592.1_1308993_1309203_+,NA|128aa|down_5|CP026592.1_1309571_1309955_-,NA|115aa|down_6|CP026592.1_1310081_1310426_+,NA|72aa|down_7|CP026592.1_1310608_1310824_+,NA|40aa|down_8|CP026592.1_1311629_1311749_-,NA|106aa|down_9|CP026592.1_1311809_1312127_-	NA|360aa|up_9|CP026592.1_1293378_1294458_+	pfam02618, YceG, YceG-like family	NA|225aa|up_8|CP026592.1_1294629_1295304_+	COG4122, COG4122, Predicted O-methyltransferase [General function prediction only]	NA|416aa|up_7|CP026592.1_1295290_1296538_+	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|555aa|up_6|CP026592.1_1296609_1298274_+	COG0768, FtsI, Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]	NA|506aa|up_5|CP026592.1_1298677_1300195_-	cd00338, Ser_Recombinase, Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain	NA|274aa|up_4|CP026592.1_1300319_1301141_-	sd00006, TPR, Tetratricopeptide repeat	NA|476aa|up_3|CP026592.1_1301331_1302759_+	NF033435, S-layer_Clost, S-layer protein SlpA	NA|75aa|up_2|CP026592.1_1302901_1303126_+	NA	NA|224aa|up_1|CP026592.1_1303068_1303740_+	pfam13518, HTH_28, Helix-turn-helix domain	NA|300aa|up_0|CP026592.1_1303733_1304633_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|52aa|down_0|CP026592.1_1307710_1307866_+	NA	NA|34aa|down_1|CP026592.1_1307890_1307992_+	NA	NA|84aa|down_2|CP026592.1_1308111_1308363_+	NA	NA|38aa|down_3|CP026592.1_1308672_1308786_+	NA	NA|70aa|down_4|CP026592.1_1308993_1309203_+	NA	NA|128aa|down_5|CP026592.1_1309571_1309955_-	NA	NA|115aa|down_6|CP026592.1_1310081_1310426_+	NA	NA|72aa|down_7|CP026592.1_1310608_1310824_+	NA	NA|40aa|down_8|CP026592.1_1311629_1311749_-	NA	NA|106aa|down_9|CP026592.1_1311809_1312127_-	NA
GCA_002945415.1_ASM294541v1	CP026592	Clostridioides difficile strain CD-10-00484 chromosome, complete genome	5	1514883-1515635	2,5,2	PILER-CR,CRISPRCasFinder,CRT	no	DinG	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Type IV-A	GTTTTATATTAACTAAGTGGTATGTAAAT,GTTTTATATTAACTAAGTGGTATGTAAAT,GTTTTATATTAACTAAGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	10,11,10	11	Orphan	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|183aa|up_4|CP026592.1_1509528_1510077_-,NA|80aa|down_4|CP026592.1_1522767_1523007_+,NA|59aa|down_5|CP026592.1_1523194_1523371_-,NA|45aa|down_9|CP026592.1_1525997_1526132_+	NA|260aa|up_9|CP026592.1_1503845_1504625_+	pfam08282, Hydrolase_3, haloacid dehalogenase-like hydrolase	NA|195aa|up_8|CP026592.1_1504728_1505313_-	pfam00882, Zn_dep_PLPC, Zinc dependent phospholipase C	NA|477aa|up_7|CP026592.1_1505512_1506943_-	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|315aa|up_6|CP026592.1_1507258_1508203_+	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter	NA|312aa|up_5|CP026592.1_1508473_1509409_-	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only]	NA|183aa|up_4|CP026592.1_1509528_1510077_-	NA	NA|143aa|up_3|CP026592.1_1510228_1510657_+	pfam04657, DMT_YdcZ, Putative inner membrane exporter, YdcZ	NA|223aa|up_2|CP026592.1_1510723_1511392_+	cd01994, Alpha_ANH_like_IV, This is a subfamily of Adenine nucleotide alpha hydrolases superfamily	NA|452aa|up_1|CP026592.1_1511509_1512865_-	cd13143, MATE_MepA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA	NA|131aa|up_0|CP026592.1_1513959_1514352_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|578aa|down_0|CP026592.1_1515960_1517694_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|282aa|down_1|CP026592.1_1517933_1518779_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|745aa|down_2|CP026592.1_1518809_1521044_-	cd01948, EAL, EAL domain	NA|270aa|down_3|CP026592.1_1521813_1522623_+	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators	NA|80aa|down_4|CP026592.1_1522767_1523007_+	NA	NA|59aa|down_5|CP026592.1_1523194_1523371_-	NA	NA|225aa|down_6|CP026592.1_1523875_1524550_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|185aa|down_7|CP026592.1_1524769_1525324_-	cd01014, nicotinamidase_related, Nicotinamidase_ related amidohydrolases	NA|122aa|down_8|CP026592.1_1525401_1525767_-	COG1733, COG1733, Predicted transcriptional regulators [Transcription]	NA|45aa|down_9|CP026592.1_1525997_1526132_+	NA
GCA_002945415.1_ASM294541v1	CP026592	Clostridioides difficile strain CD-10-00484 chromosome, complete genome	6	1626255-1626548	3,6,3	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTATATTAACTATATGGAATGTAAAT,GTTTTATATTAACTATATGGAATGTAAAT,GTTTTATATTAACTATATGGAATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	3,4,4	4	Orphan	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|50aa|up_9|CP026592.1_1615079_1615229_+,NA|190aa|up_7|CP026592.1_1616143_1616713_+,NA|61aa|up_4|CP026592.1_1619662_1619845_-,NA|91aa|down_0|CP026592.1_1626715_1626988_-,NA|323aa|down_5|CP026592.1_1631470_1632439_+	NA|50aa|up_9|CP026592.1_1615079_1615229_+	NA	NA|300aa|up_8|CP026592.1_1615239_1616139_+	TIGR02163, Ferredoxin-type_protein_NapH_homolog, ferredoxin-type protein, NapH/MauN family	NA|190aa|up_7|CP026592.1_1616143_1616713_+	NA	NA|216aa|up_6|CP026592.1_1616879_1617527_-	pfam02589, LUD_dom, LUD domain	NA|305aa|up_5|CP026592.1_1617916_1618831_-	pfam11155, DUF2935, Domain of unknown function (DUF2935)	NA|61aa|up_4|CP026592.1_1619662_1619845_-	NA	NA|283aa|up_3|CP026592.1_1620255_1621104_-	PRK00380, panC, pantoate--beta-alanine ligase; Reviewed	NA|276aa|up_2|CP026592.1_1621122_1621950_-	PRK00311, panB, 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed	NA|308aa|up_1|CP026592.1_1621924_1622848_-	pfam10728, DUF2520, Domain of unknown function (DUF2520)	NA|698aa|up_0|CP026592.1_1623500_1625594_+	cd01948, EAL, EAL domain	NA|91aa|down_0|CP026592.1_1626715_1626988_-	NA	NA|273aa|down_1|CP026592.1_1627206_1628025_+	cd04782, HTH_BltR, Helix-Turn-Helix DNA binding domain of the BltR transcription regulator	NA|707aa|down_2|CP026592.1_1628157_1630278_-	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]	NA|76aa|down_3|CP026592.1_1630303_1630531_-	pfam04023, FeoA, FeoA domain	NA|147aa|down_4|CP026592.1_1630857_1631298_-	COG2153, ElaA, Predicted acyltransferase [General function prediction only]	NA|323aa|down_5|CP026592.1_1631470_1632439_+	NA	NA|403aa|down_6|CP026592.1_1632914_1634123_+	PRK13354, PRK13354, tyrosyl-tRNA synthetase; Provisional	NA|294aa|down_7|CP026592.1_1634183_1635065_-	cd10944, CE4_SmPgdA_like, Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins	NA|305aa|down_8|CP026592.1_1635480_1636395_+	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|CP026592.1_1636617_1637163_+	cd01046, Rubrerythrin_like, rubrerythrin-like, diiron-binding domain
GCA_002945415.1_ASM294541v1	CP026592	Clostridioides difficile strain CD-10-00484 chromosome, complete genome	7	1718931-1719287	4,7,4	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTAGATTAACTATATGGAATGTAAAT,GTTTTAGATTAACTATATGGAATGTAAAT,GTTTTAGATTAACTATATGGAATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	4,5,5	5	Orphan	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|269aa|up_8|CP026592.1_1712729_1713536_+,NA|146aa|up_7|CP026592.1_1713884_1714322_+,NA|59aa|up_6|CP026592.1_1714314_1714491_+,NA|276aa|up_3|CP026592.1_1716347_1717175_+,NA|54aa|up_0|CP026592.1_1718027_1718189_+,NA|63aa|down_0|CP026592.1_1719525_1719714_+,NA|45aa|down_2|CP026592.1_1720751_1720886_+	NA|97aa|up_9|CP026592.1_1712329_1712620_+	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component	NA|269aa|up_8|CP026592.1_1712729_1713536_+	NA	NA|146aa|up_7|CP026592.1_1713884_1714322_+	NA	NA|59aa|up_6|CP026592.1_1714314_1714491_+	NA	NA|437aa|up_5|CP026592.1_1714491_1715802_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_4|CP026592.1_1715818_1716289_+	pfam09393, DUF2001, Phage tail tube protein	NA|276aa|up_3|CP026592.1_1716347_1717175_+	NA	NA|147aa|up_2|CP026592.1_1717246_1717687_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|65aa|up_1|CP026592.1_1717686_1717881_+	TIGR02247, Hypothetical_protein_K09H11	NA|54aa|up_0|CP026592.1_1718027_1718189_+	NA	NA|63aa|down_0|CP026592.1_1719525_1719714_+	NA	NA|289aa|down_1|CP026592.1_1719832_1720699_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|45aa|down_2|CP026592.1_1720751_1720886_+	NA	NA|176aa|down_3|CP026592.1_1721563_1722091_+	pfam11611, DUF4352, Domain of unknown function (DUF4352)	NA|256aa|down_4|CP026592.1_1722228_1722996_+	pfam14471, DUF4428, Domain of unknown function (DUF4428)	NA|791aa|down_5|CP026592.1_1723061_1725434_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|230aa|down_6|CP026592.1_1725450_1726140_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|631aa|down_7|CP026592.1_1726132_1728025_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_8|CP026592.1_1728038_1728299_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_9|CP026592.1_1728303_1728723_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)
GCA_002945415.1_ASM294541v1	CP026592	Clostridioides difficile strain CD-10-00484 chromosome, complete genome	8	1721152-1721442	8	CRISPRCasFinder	no		csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTATATTAACTATATGGAATGTAAATC	30	0	0	NA	NA	I-A	4	4	Orphan	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|59aa|up_9|CP026592.1_1714314_1714491_+,NA|276aa|up_6|CP026592.1_1716347_1717175_+,NA|54aa|up_3|CP026592.1_1718027_1718189_+,NA|63aa|up_2|CP026592.1_1719525_1719714_+,NA|45aa|up_0|CP026592.1_1720751_1720886_+,NA	NA|59aa|up_9|CP026592.1_1714314_1714491_+	NA	NA|437aa|up_8|CP026592.1_1714491_1715802_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_7|CP026592.1_1715818_1716289_+	pfam09393, DUF2001, Phage tail tube protein	NA|276aa|up_6|CP026592.1_1716347_1717175_+	NA	NA|147aa|up_5|CP026592.1_1717246_1717687_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|65aa|up_4|CP026592.1_1717686_1717881_+	TIGR02247, Hypothetical_protein_K09H11	NA|54aa|up_3|CP026592.1_1718027_1718189_+	NA	NA|63aa|up_2|CP026592.1_1719525_1719714_+	NA	NA|289aa|up_1|CP026592.1_1719832_1720699_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|45aa|up_0|CP026592.1_1720751_1720886_+	NA	NA|176aa|down_0|CP026592.1_1721563_1722091_+	pfam11611, DUF4352, Domain of unknown function (DUF4352)	NA|256aa|down_1|CP026592.1_1722228_1722996_+	pfam14471, DUF4428, Domain of unknown function (DUF4428)	NA|791aa|down_2|CP026592.1_1723061_1725434_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|230aa|down_3|CP026592.1_1725450_1726140_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|631aa|down_4|CP026592.1_1726132_1728025_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_5|CP026592.1_1728038_1728299_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_6|CP026592.1_1728303_1728723_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|350aa|down_7|CP026592.1_1728723_1729773_+	pfam04865, Baseplate_J, Baseplate J-like protein	NA|206aa|down_8|CP026592.1_1729765_1730383_+	pfam10076, DUF2313, Uncharacterized protein conserved in bacteria (DUF2313)	NA|342aa|down_9|CP026592.1_1730394_1731420_+	pfam12571, DUF3751, Phage tail-collar fibre protein
GCA_002945415.1_ASM294541v1	CP026592	Clostridioides difficile strain CD-10-00484 chromosome, complete genome	9	1858719-1859934	5,9,5	PILER-CR,CRISPRCasFinder,CRT	no		csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTATATTAACTATGTGGTATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	16,18,18	18	Orphan	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|96aa|down_0|CP026592.1_1860342_1860630_+,NA|59aa|down_5|CP026592.1_1867017_1867194_-,NA|341aa|down_6|CP026592.1_1867768_1868791_+,NA|258aa|down_8|CP026592.1_1869697_1870471_+	NA|266aa|up_9|CP026592.1_1842246_1843044_-	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|329aa|up_8|CP026592.1_1843353_1844340_-	TIGR00545, Probable_lipoate-protein_ligase_A, lipoyltransferase and lipoate-protein ligase	NA|577aa|up_7|CP026592.1_1844823_1846554_+	COG1757, NhaC, Na+/H+ antiporter [Energy production and conversion]	NA|825aa|up_6|CP026592.1_1847954_1850429_+	PRK00451, PRK00451, aminomethyl-transferring glycine dehydrogenase subunit GcvPA	NA|486aa|up_5|CP026592.1_1850428_1851886_+	PRK04366, PRK04366, aminomethyl-transferring glycine dehydrogenase subunit GcvPB	NA|786aa|up_4|CP026592.1_1852308_1854666_+	cd02609, P-type_ATPase, uncharacterized subfamily of P-type ATPase transporter, similar to uncharacterized Streptococcus pneumoniae exported protein 7, Exp7	NA|106aa|up_3|CP026592.1_1854751_1855069_-	pfam06865, DUF1255, Protein of unknown function (DUF1255)	NA|252aa|up_2|CP026592.1_1855406_1856162_+	pfam12395, DUF3658, Protein of unknown function	NA|424aa|up_1|CP026592.1_1856800_1858072_-	cd01303, GDEase, Guanine deaminase (GDEase)	NA|59aa|up_0|CP026592.1_1858291_1858468_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|96aa|down_0|CP026592.1_1860342_1860630_+	NA	NA|184aa|down_1|CP026592.1_1861167_1861719_-	cd02209, cupin_XRE_C, XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain	NA|321aa|down_2|CP026592.1_1861909_1862872_+	cd01561, CBS_like, CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase	NA|615aa|down_3|CP026592.1_1863166_1865011_+	cd08579, GDPD_memb_like, Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases	NA|195aa|down_4|CP026592.1_1865332_1865917_+	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|CP026592.1_1867017_1867194_-	NA	NA|341aa|down_6|CP026592.1_1867768_1868791_+	NA	NA|296aa|down_7|CP026592.1_1868804_1869692_+	cd03264, ABC_drug_resistance_like, ABC-type multidrug transport system, ATPase component	NA|258aa|down_8|CP026592.1_1869697_1870471_+	NA	NA|242aa|down_9|CP026592.1_1870582_1871308_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
GCA_002945415.1_ASM294541v1	CP026592	Clostridioides difficile strain CD-10-00484 chromosome, complete genome	10	2209237-2209919	6,10,6	CRT,CRISPRCasFinder,PILER-CR	no		csa3,cas14j,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,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|43aa|up_4|CP026592.1_2207111_2207240_+,NA|58aa|up_1|CP026592.1_2208510_2208684_+,NA|98aa|up_0|CP026592.1_2208840_2209134_-,NA|80aa|down_7|CP026592.1_2218128_2218368_-,NA|216aa|down_8|CP026592.1_2218538_2219186_-,NA|567aa|down_9|CP026592.1_2219325_2221026_-	NA|345aa|up_9|CP026592.1_2201209_2202244_-	PRK00436, argC, N-acetyl-gamma-glutamyl-phosphate reductase; Validated	NA|255aa|up_8|CP026592.1_2202933_2203698_-	pfam14268, YoaP, YoaP-like	NA|158aa|up_7|CP026592.1_2204000_2204474_+	pfam13673, Acetyltransf_10, Acetyltransferase (GNAT) domain	NA|186aa|up_6|CP026592.1_2204842_2205400_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|233aa|up_5|CP026592.1_2205657_2206356_+	TIGR03502, lipase_Pla1_cef, extracellular lipase, Pla-1/cef family	NA|43aa|up_4|CP026592.1_2207111_2207240_+	NA	NA|156aa|up_3|CP026592.1_2207377_2207845_+	pfam11188, DUF2975, Protein of unknown function (DUF2975)	NA|72aa|up_2|CP026592.1_2207855_2208071_+	COG3655, COG3655, Predicted transcriptional regulator [Transcription]	NA|58aa|up_1|CP026592.1_2208510_2208684_+	NA	NA|98aa|up_0|CP026592.1_2208840_2209134_-	NA	NA|291aa|down_0|CP026592.1_2210749_2211622_-	COG1737, RpiR, Transcriptional regulators [Transcription]	NA|193aa|down_1|CP026592.1_2212015_2212594_-	pfam06962, rRNA_methylase, Putative rRNA methylase	NA|239aa|down_2|CP026592.1_2212651_2213368_-	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|362aa|down_3|CP026592.1_2213558_2214644_+	COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]	NA|220aa|down_4|CP026592.1_2214798_2215458_-	pfam03154, Atrophin-1, Atrophin-1 family	NA|431aa|down_5|CP026592.1_2215674_2216967_-	cd06828, PLPDE_III_DapDC, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase	NA|398aa|down_6|CP026592.1_2216984_2218178_-	PRK06635, PRK06635, aspartate kinase; Reviewed	NA|80aa|down_7|CP026592.1_2218128_2218368_-	NA	NA|216aa|down_8|CP026592.1_2218538_2219186_-	NA	NA|567aa|down_9|CP026592.1_2219325_2221026_-	NA
GCA_002945415.1_ASM294541v1	CP026592	Clostridioides difficile strain CD-10-00484 chromosome, complete genome	11	2669868-2670025	7	PILER-CR	no	cas3,cas5,cas7,cas6	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	AGGTTTAAGATTAACTAAGTGGATTTCA	28	0	0	NA	NA	NA	2	2	Unclear	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|492aa|down_3|CP026592.1_2674456_2675932_-,NA|39aa|down_9|CP026592.1_2682008_2682125_-	NA|448aa|up_9|CP026592.1_2662324_2663668_-	pfam06898, YqfD, Putative stage IV sporulation protein YqfD	NA|81aa|up_8|CP026592.1_2663680_2663923_-	pfam07873, YabP, YabP family	NA|188aa|up_7|CP026592.1_2664129_2664693_-	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|CP026592.1_2664885_2665383_-	cd15904, TSPO_MBR, Translocator protein (TSPO)/peripheral-type benzodiazepine receptor (MBR) family	NA|148aa|up_5|CP026592.1_2665493_2665937_-	pfam09424, YqeY, Yqey-like protein	NA|60aa|up_4|CP026592.1_2665966_2666146_-	PRK00270, rpsU, 30S ribosomal protein S21; Reviewed	NA|117aa|up_3|CP026592.1_2666308_2666659_-	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|CP026592.1_2666701_2668000_-	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|253aa|up_1|CP026592.1_2668001_2668760_-	PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional	NA|316aa|up_0|CP026592.1_2668778_2669726_-	pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA)	cas3|803aa|down_0|CP026592.1_2670166_2672575_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|269aa|down_1|CP026592.1_2672601_2673408_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|338aa|down_2|CP026592.1_2673423_2674437_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	NA|492aa|down_3|CP026592.1_2674456_2675932_-	NA	cas6|246aa|down_4|CP026592.1_2675936_2676674_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	NA|370aa|down_5|CP026592.1_2676932_2678042_+	PRK11650, ugpC, sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC	NA|256aa|down_6|CP026592.1_2678071_2678839_+	COG2508, COG2508, Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]	NA|458aa|down_7|CP026592.1_2679026_2680400_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|312aa|down_8|CP026592.1_2680435_2681371_-	COG1940, NagC, Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]	NA|39aa|down_9|CP026592.1_2682008_2682125_-	NA
GCA_002945415.1_ASM294541v1	CP026592	Clostridioides difficile strain CD-10-00484 chromosome, complete genome	14	3253422-3255035	13,7,8	CRISPRCasFinder,CRT,PILER-CR	no	cas2,cas1,cas4,cas3,cas5,cas7,cas8b2,cas6,WYL	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	ATTTACATACCACTTAGTTAATATAAAAC,ATTTACATACCACTTAGTTAATATAAAAC,GTTTTATATTAACTAAGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	24,24,21	24	Unclear	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|67aa|up_7|CP026592.1_3246313_3246514_+,NA|260aa|up_1|CP026592.1_3251697_3252477_+,NA	NA|740aa|up_9|CP026592.1_3240660_3242880_-	cd01948, EAL, EAL domain	NA|885aa|up_8|CP026592.1_3243155_3245810_-	PRK13805, PRK13805, bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional	NA|67aa|up_7|CP026592.1_3246313_3246514_+	NA	NA|197aa|up_6|CP026592.1_3246721_3247312_-	PRK08305, spoVFB, dipicolinate synthase subunit B; Reviewed	NA|292aa|up_5|CP026592.1_3247314_3248190_-	PRK08306, PRK08306, dipicolinate synthase subunit DpsA	NA|464aa|up_4|CP026592.1_3248265_3249657_-	cd17633, AFD_YhfT-like, fatty acid-CoA ligase VraA	NA|379aa|up_3|CP026592.1_3249660_3250797_-	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|CP026592.1_3250828_3251374_-	pfam02632, BioY, BioY family	NA|260aa|up_1|CP026592.1_3251697_3252477_+	NA	NA|143aa|up_0|CP026592.1_3252932_3253361_-	PRK10562, PRK10562, putative acetyltransferase; Provisional	cas2|89aa|down_0|CP026592.1_3255218_3255485_-	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	cas1|327aa|down_1|CP026592.1_3255487_3256468_-	TIGR03641, cas1_HMARI, CRISPR-associated endonuclease Cas1, subtype I-B/HMARI/TNEAP	cas4|173aa|down_2|CP026592.1_3256470_3256989_-	pfam01930, Cas_Cas4, Domain of unknown function DUF83	cas3|774aa|down_3|CP026592.1_3257036_3259358_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|234aa|down_4|CP026592.1_3259368_3260070_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|305aa|down_5|CP026592.1_3260071_3260986_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas8b2|626aa|down_6|CP026592.1_3260987_3262865_-	cd09665, Cas8a1_I-A, CRISPR/Cas system-associated protein Cas8a1	cas6|246aa|down_7|CP026592.1_3262870_3263608_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	WYL|306aa|down_8|CP026592.1_3263685_3264603_-	pfam13280, WYL, WYL domain	NA|639aa|down_9|CP026592.1_3264881_3266798_-	pfam02687, FtsX, FtsX-like permease family
GCA_002945415.1_ASM294541v1	CP026592	Clostridioides difficile strain CD-10-00484 chromosome, complete genome	15	3500372-3500994	14,8,9	CRISPRCasFinder,CRT,PILER-CR	no	WYL,cas3,cas7,cas6,cas5	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	ATTTATAACTAACTTAGTGTAATTTAAAC,ATTTATAACTAACTTAGTGTAATTTAAAC,ATTTATAACTAACTTAGTGTAATTTAAAC	29,29,29	0	0	NA	NA	NA:NA:NA	9,9,8	9	Unclear	csa3,cas14j,WYL,cas3,DEDDh,DinG,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|70aa|up_9|CP026592.1_3484926_3485136_-,NA|243aa|up_7|CP026592.1_3489579_3490308_-,NA|540aa|up_6|CP026592.1_3490325_3491945_-,NA|76aa|up_4|CP026592.1_3493526_3493754_+,NA|389aa|down_2|CP026592.1_3504333_3505500_-,NA|91aa|down_6|CP026592.1_3508783_3509056_-,NA|250aa|down_8|CP026592.1_3510652_3511402_-,NA|105aa|down_9|CP026592.1_3511417_3511732_-	NA|70aa|up_9|CP026592.1_3484926_3485136_-	NA	NA|1452aa|up_8|CP026592.1_3485237_3489593_-	TIGR02168, Chromosome_partition_protein_Smc, chromosome segregation protein SMC, common bacterial type	NA|243aa|up_7|CP026592.1_3489579_3490308_-	NA	NA|540aa|up_6|CP026592.1_3490325_3491945_-	NA	NA|337aa|up_5|CP026592.1_3491944_3492955_-	pfam09983, DUF2220, Uncharacterized protein conserved in bacteria C-term(DUF2220)	NA|76aa|up_4|CP026592.1_3493526_3493754_+	NA	NA|130aa|up_3|CP026592.1_3493855_3494245_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|62aa|up_2|CP026592.1_3494274_3494460_+	pfam13333, rve_2, Integrase core domain	NA|431aa|up_1|CP026592.1_3494686_3495979_-	pfam03235, DUF262, Protein of unknown function DUF262	NA|405aa|up_0|CP026592.1_3495978_3497193_-	pfam08867, FRG, FRG domain	cas3|662aa|down_0|CP026592.1_3501246_3503232_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas7|357aa|down_1|CP026592.1_3503242_3504313_-	TIGR02585, conserved_protein, CRISPR-associated protein Cas7/Cst2/DevR, subtype I-B/TNEAP	NA|389aa|down_2|CP026592.1_3504333_3505500_-	NA	cas6|255aa|down_3|CP026592.1_3505501_3506266_-	COG1583, COG1583, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	cas5|216aa|down_4|CP026592.1_3506256_3506904_-	TIGR01895, conserved_hypothetical_protein, CRISPR-associated protein Cas5, subtype I-B/TNEAP	NA|376aa|down_5|CP026592.1_3507383_3508511_-	COG3183, COG3183, Predicted restriction endonuclease [Defense mechanisms]	NA|91aa|down_6|CP026592.1_3508783_3509056_-	NA	NA|445aa|down_7|CP026592.1_3509305_3510640_-	TIGR00665, DnaB, replicative DNA helicase	NA|250aa|down_8|CP026592.1_3510652_3511402_-	NA	NA|105aa|down_9|CP026592.1_3511417_3511732_-	NA
