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_003313565.1_ASM331356v1	CP011847	Clostridioides difficile strain DSM 27639 chromosome, complete genome	1	146627-146705	1	CRISPRCasFinder	no		cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Orphan	TGTTTATAATGTGGATAATATTTAA	25	0	0	NA	NA	NA	1	1	Orphan	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA,NA|226aa|down_4|CP011847.1_163459_164137_+	NA|278aa|up_9|CP011847.1_123654_124488_+	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase	NA|289aa|up_8|CP011847.1_124475_125342_+	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|268aa|up_7|CP011847.1_125335_126139_+	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|244aa|up_6|CP011847.1_126170_126902_+	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|144aa|up_5|CP011847.1_127021_127453_+	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|131aa|up_4|CP011847.1_127481_127874_+	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|251aa|up_3|CP011847.1_128331_129084_+	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|395aa|up_2|CP011847.1_141676_142861_-	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|784aa|up_1|CP011847.1_143233_145585_+	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|180aa|up_0|CP011847.1_145606_146146_+	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|280aa|down_0|CP011847.1_159145_159985_+	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|394aa|down_1|CP011847.1_159981_161163_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|301aa|down_2|CP011847.1_161466_162369_+	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|360aa|down_3|CP011847.1_162390_163470_+	PRK03011, PRK03011, butyrate kinase; Provisional	NA|226aa|down_4|CP011847.1_163459_164137_+	NA	NA|72aa|down_5|CP011847.1_164179_164395_+	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|360aa|down_6|CP011847.1_164423_165503_+	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated	NA|251aa|down_7|CP011847.1_165502_166255_+	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|CP011847.1_166255_166813_+	pfam01558, POR, Pyruvate ferredoxin/flavodoxin oxidoreductase	NA|449aa|down_9|CP011847.1_166982_168329_+	PRK14316, glmM, phosphoglucosamine mutase; Provisional
GCA_003313565.1_ASM331356v1	CP011847	Clostridioides difficile strain DSM 27639 chromosome, complete genome	2	148639-148728	2	CRISPRCasFinder	no		cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Orphan	TGTGCGTTAGCACTTTAAGCAACAGAAT	28	1	5	148667-148700|148667-148700|148667-148700|148667-148700|148667-148700	CP011847.1_17851-17884|CP011847.1_131110-131143|CP011847.1_138057-138090|CP011847.1_12396-12429|CP011847.1_1100082-1100115	NA	1	1	Orphan	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA,NA|226aa|down_4|CP011847.1_163459_164137_+	NA|278aa|up_9|CP011847.1_123654_124488_+	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase	NA|289aa|up_8|CP011847.1_124475_125342_+	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|268aa|up_7|CP011847.1_125335_126139_+	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|244aa|up_6|CP011847.1_126170_126902_+	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|144aa|up_5|CP011847.1_127021_127453_+	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|131aa|up_4|CP011847.1_127481_127874_+	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|251aa|up_3|CP011847.1_128331_129084_+	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|395aa|up_2|CP011847.1_141676_142861_-	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|784aa|up_1|CP011847.1_143233_145585_+	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|180aa|up_0|CP011847.1_145606_146146_+	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|280aa|down_0|CP011847.1_159145_159985_+	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|394aa|down_1|CP011847.1_159981_161163_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|301aa|down_2|CP011847.1_161466_162369_+	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|360aa|down_3|CP011847.1_162390_163470_+	PRK03011, PRK03011, butyrate kinase; Provisional	NA|226aa|down_4|CP011847.1_163459_164137_+	NA	NA|72aa|down_5|CP011847.1_164179_164395_+	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|360aa|down_6|CP011847.1_164423_165503_+	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated	NA|251aa|down_7|CP011847.1_165502_166255_+	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|CP011847.1_166255_166813_+	pfam01558, POR, Pyruvate ferredoxin/flavodoxin oxidoreductase	NA|449aa|down_9|CP011847.1_166982_168329_+	PRK14316, glmM, phosphoglucosamine mutase; Provisional
GCA_003313565.1_ASM331356v1	CP011847	Clostridioides difficile strain DSM 27639 chromosome, complete genome	3	1100117-1100205	3	CRISPRCasFinder	no		cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Orphan	GTGCGTTAGCACTTTAAGTAACGGAAT	27	1	3	1100144-1100178|1100144-1100178|1100144-1100178	CP011847.1_131172-131206|CP011847.1_138119-138153|CP011847.1_17913-17947	NA	1	1	Orphan	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA,NA|638aa|down_2|CP011847.1_1108587_1110501_+	NA|279aa|up_9|CP011847.1_1086055_1086892_+	COG1176, PotB, ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]	NA|243aa|up_8|CP011847.1_1086942_1087671_+	COG1177, PotC, ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]	NA|351aa|up_7|CP011847.1_1087670_1088723_+	cd13590, PBP2_PotD_PotF_like, The periplasmic-binding component of ABC transporters involved in uptake of polyamines; possess the type 2 periplasmic binding fold	NA|283aa|up_6|CP011847.1_1088952_1089801_+	COG2199, COG2199, c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal    transduction mechanisms]	NA|555aa|up_5|CP011847.1_1089790_1091455_+	cd10923, CE4_COG5298, Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria	NA|419aa|up_4|CP011847.1_1091503_1092760_+	cd06423, CESA_like, CESA_like is  the cellulose synthase superfamily	NA|694aa|up_3|CP011847.1_1092782_1094864_+	pfam03170, BcsB, Bacterial cellulose synthase subunit	NA|358aa|up_2|CP011847.1_1094912_1095986_+	cd19608, GH113_mannanase-like, Glycoside hydrolase family 113 beta-1,4-mannanase and similar proteins	NA|375aa|up_1|CP011847.1_1096039_1097164_+	COG0381, WecB, UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]	NA|325aa|up_0|CP011847.1_1097241_1098216_+	COG1705, FlgJ, Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]	NA|673aa|down_0|CP011847.1_1103810_1105829_+	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|671aa|down_1|CP011847.1_1106333_1108346_+	pfam01520, Amidase_3, N-acetylmuramoyl-L-alanine amidase	NA|638aa|down_2|CP011847.1_1108587_1110501_+	NA	NA|740aa|down_3|CP011847.1_1110493_1112713_+	COG0210, UvrD, Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]	NA|277aa|down_4|CP011847.1_1112821_1113652_+	pfam12705, PDDEXK_1, PD-(D/E)XK nuclease superfamily	NA|1156aa|down_5|CP011847.1_1113641_1117109_+	TIGR02773, ATP-dependent_helicase/deoxyribonuclease_subunit_B, helicase-exonuclease AddAB, AddB subunit	NA|1276aa|down_6|CP011847.1_1117108_1120936_+	TIGR02785, ATP-dependent_helicase/nuclease_subunit_A, helicase-exonuclease AddAB, AddA subunit, Firmicutes type	NA|404aa|down_7|CP011847.1_1120981_1122193_+	TIGR00619, Nuclease_SbcCD_subunit_D, exonuclease SbcD	NA|1176aa|down_8|CP011847.1_1122179_1125707_+	TIGR00618, Nuclease_SbcCD_subunit_C, exonuclease SbcC	NA|418aa|down_9|CP011847.1_1125837_1127091_+	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]
GCA_003313565.1_ASM331356v1	CP011847	Clostridioides difficile strain DSM 27639 chromosome, complete genome	4	1323996-1325139	1,4,1	PILER-CR,CRISPRCasFinder,CRT	no		cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Orphan	GTTTTATATTAACTAAGTGGTATGTAAAG,GTTTTATATTAACTAAGTGGTATGTAAAG,GTTTTATATTAACTAAGTGGTATGTAAAG	29,29,29	0	0	NA	NA	I-A:I-A:I-A	17,17,17	17	Orphan	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA,NA|52aa|down_0|CP011847.1_1326322_1326478_+,NA|84aa|down_1|CP011847.1_1326723_1326975_+,NA|38aa|down_2|CP011847.1_1327295_1327409_+,NA|128aa|down_3|CP011847.1_1328195_1328579_-,NA|115aa|down_4|CP011847.1_1328705_1329050_+,NA|106aa|down_5|CP011847.1_1330433_1330751_-,NA|65aa|down_8|CP011847.1_1333136_1333331_-	NA|271aa|up_9|CP011847.1_1311105_1311918_+	cd09009, PNP-EcPNPII_like, purine nucleoside phosphorylases similar to human PNP and Escherichia coli PNP-II (XapA)	NA|442aa|up_8|CP011847.1_1312121_1313447_+	TIGR02644, Thymidine_phosphorylase, pyrimidine-nucleoside phosphorylase	NA|360aa|up_7|CP011847.1_1313659_1314739_+	pfam02618, YceG, YceG-like family	NA|225aa|up_6|CP011847.1_1314910_1315585_+	COG4122, COG4122, Predicted O-methyltransferase [General function prediction only]	NA|416aa|up_5|CP011847.1_1315571_1316819_+	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|555aa|up_4|CP011847.1_1316890_1318555_+	COG0768, FtsI, Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]	NA|95aa|up_3|CP011847.1_1318651_1318936_-	PRK05803, PRK05803, RNA polymerase sporulation sigma factor SigK	NA|506aa|up_2|CP011847.1_1318958_1320476_-	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|CP011847.1_1320600_1321422_-	sd00006, TPR, Tetratricopeptide repeat	NA|476aa|up_0|CP011847.1_1321612_1323040_+	NF033435, S-layer_Clost, S-layer protein SlpA	NA|52aa|down_0|CP011847.1_1326322_1326478_+	NA	NA|84aa|down_1|CP011847.1_1326723_1326975_+	NA	NA|38aa|down_2|CP011847.1_1327295_1327409_+	NA	NA|128aa|down_3|CP011847.1_1328195_1328579_-	NA	NA|115aa|down_4|CP011847.1_1328705_1329050_+	NA	NA|106aa|down_5|CP011847.1_1330433_1330751_-	NA	NA|130aa|down_6|CP011847.1_1331811_1332201_+	pfam03965, Penicillinase_R, Penicillinase repressor	NA|170aa|down_7|CP011847.1_1332525_1333035_+	pfam04892, VanZ, VanZ like family	NA|65aa|down_8|CP011847.1_1333136_1333331_-	NA	NA|131aa|down_9|CP011847.1_1333846_1334239_-	PRK05803, PRK05803, RNA polymerase sporulation sigma factor SigK
GCA_003313565.1_ASM331356v1	CP011847	Clostridioides difficile strain DSM 27639 chromosome, complete genome	5	1534734-1535558	2,5,2	PILER-CR,CRISPRCasFinder,CRT	no	DinG	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Type IV-A	GTTTTATATTAACTAAGTGGTATGTAAAT,GTTTTATATTAACTAAGTGGTATGTAAAT,GTTTTATATTAACTAAGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	11,12,12	12	Orphan	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA|183aa|up_4|CP011847.1_1529841_1530390_-,NA|51aa|up_0|CP011847.1_1534301_1534454_+,NA|80aa|down_4|CP011847.1_1542704_1542944_+,NA|59aa|down_5|CP011847.1_1543130_1543307_-,NA|45aa|down_8|CP011847.1_1545932_1546067_+	NA|260aa|up_9|CP011847.1_1524167_1524947_+	pfam08282, Hydrolase_3, haloacid dehalogenase-like hydrolase	NA|195aa|up_8|CP011847.1_1525040_1525625_-	pfam00882, Zn_dep_PLPC, Zinc dependent phospholipase C	NA|477aa|up_7|CP011847.1_1525824_1527255_-	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|315aa|up_6|CP011847.1_1527572_1528517_+	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter	NA|329aa|up_5|CP011847.1_1528787_1529774_-	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only]	NA|183aa|up_4|CP011847.1_1529841_1530390_-	NA	NA|143aa|up_3|CP011847.1_1530541_1530970_+	pfam04657, DMT_YdcZ, Putative inner membrane exporter, YdcZ	NA|217aa|up_2|CP011847.1_1531054_1531705_+	cd01994, Alpha_ANH_like_IV, This is a subfamily of Adenine nucleotide alpha hydrolases superfamily	NA|452aa|up_1|CP011847.1_1531822_1533178_-	cd13143, MATE_MepA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA	NA|51aa|up_0|CP011847.1_1534301_1534454_+	NA	NA|578aa|down_0|CP011847.1_1535883_1537617_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|282aa|down_1|CP011847.1_1537856_1538702_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|745aa|down_2|CP011847.1_1538732_1540967_-	cd01948, EAL, EAL domain	NA|270aa|down_3|CP011847.1_1541750_1542560_+	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators	NA|80aa|down_4|CP011847.1_1542704_1542944_+	NA	NA|59aa|down_5|CP011847.1_1543130_1543307_-	NA	NA|225aa|down_6|CP011847.1_1543811_1544486_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|122aa|down_7|CP011847.1_1545336_1545702_-	COG1733, COG1733, Predicted transcriptional regulators [Transcription]	NA|45aa|down_8|CP011847.1_1545932_1546067_+	NA	NA|262aa|down_9|CP011847.1_1546166_1546952_+	COG3393, COG3393, Predicted acetyltransferase [General function prediction only]
GCA_003313565.1_ASM331356v1	CP011847	Clostridioides difficile strain DSM 27639 chromosome, complete genome	6	1661980-1662535	3,6,3	PILER-CR,CRISPRCasFinder,CRT	no	cas14j	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Unclear	GTTTTATATTAACTATATGGAATGTAAAT,GTTTTATATTAACTATATGGAATGTAAAT,GTTTTATATTAACTATATGGAATGTAAAT	29,29,29	1	1	1662075-1662110	CP011847.1_3338607-3338572	I-A:I-A:I-A	8,8,8	8	TypeV	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA|190aa|up_7|CP011847.1_1651851_1652421_+,NA|61aa|up_4|CP011847.1_1655370_1655553_-,NA|91aa|down_0|CP011847.1_1662702_1662975_-,NA|323aa|down_5|CP011847.1_1667457_1668426_+	NA|195aa|up_9|CP011847.1_1650210_1650795_+	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|300aa|up_8|CP011847.1_1650947_1651847_+	TIGR02163, Ferredoxin-type_protein_NapH_homolog, ferredoxin-type protein, NapH/MauN family	NA|190aa|up_7|CP011847.1_1651851_1652421_+	NA	NA|216aa|up_6|CP011847.1_1652587_1653235_-	pfam02589, LUD_dom, LUD domain	NA|305aa|up_5|CP011847.1_1653624_1654539_-	pfam11155, DUF2935, Domain of unknown function (DUF2935)	NA|61aa|up_4|CP011847.1_1655370_1655553_-	NA	NA|283aa|up_3|CP011847.1_1655982_1656831_-	PRK00380, panC, pantoate--beta-alanine ligase; Reviewed	NA|276aa|up_2|CP011847.1_1656849_1657677_-	PRK00311, panB, 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed	NA|299aa|up_1|CP011847.1_1657651_1658548_-	pfam10728, DUF2520, Domain of unknown function (DUF2520)	NA|698aa|up_0|CP011847.1_1659227_1661321_+	cd01948, EAL, EAL domain	NA|91aa|down_0|CP011847.1_1662702_1662975_-	NA	NA|273aa|down_1|CP011847.1_1663193_1664012_+	cd04782, HTH_BltR, Helix-Turn-Helix DNA binding domain of the BltR transcription regulator	NA|707aa|down_2|CP011847.1_1664144_1666265_-	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]	NA|76aa|down_3|CP011847.1_1666290_1666518_-	pfam04023, FeoA, FeoA domain	NA|147aa|down_4|CP011847.1_1666844_1667285_-	COG2153, ElaA, Predicted acyltransferase [General function prediction only]	NA|323aa|down_5|CP011847.1_1667457_1668426_+	NA	NA|403aa|down_6|CP011847.1_1668902_1670111_+	PRK13354, PRK13354, tyrosyl-tRNA synthetase; Provisional	NA|294aa|down_7|CP011847.1_1670171_1671053_-	cd10944, CE4_SmPgdA_like, Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins	NA|305aa|down_8|CP011847.1_1671468_1672383_+	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|CP011847.1_1672605_1673151_+	cd01046, Rubrerythrin_like, rubrerythrin-like, diiron-binding domain
GCA_003313565.1_ASM331356v1	CP011847	Clostridioides difficile strain DSM 27639 chromosome, complete genome	7	1841161-1842309	4,7,4	PILER-CR,CRISPRCasFinder,CRT	no	cas14j	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Unclear	GTTTTATATTAACTATGTGGTATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	17,17,17	17	TypeV	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA,NA|96aa|down_0|CP011847.1_1842717_1843005_+,NA|33aa|down_1|CP011847.1_1843029_1843128_+,NA|59aa|down_6|CP011847.1_1849324_1849501_-,NA|341aa|down_7|CP011847.1_1850075_1851098_+,NA|258aa|down_9|CP011847.1_1852004_1852778_+	NA|329aa|up_9|CP011847.1_1823374_1824361_-	TIGR00545, Probable_lipoate-protein_ligase_A, lipoyltransferase and lipoate-protein ligase	NA|577aa|up_8|CP011847.1_1824844_1826575_+	COG1757, NhaC, Na+/H+ antiporter [Energy production and conversion]	NA|172aa|up_7|CP011847.1_1827099_1827615_+	pfam13787, HXXEE, Protein of unknown function with HXXEE motif	NA|825aa|up_6|CP011847.1_1828420_1830895_+	PRK00451, PRK00451, aminomethyl-transferring glycine dehydrogenase subunit GcvPA	NA|486aa|up_5|CP011847.1_1830894_1832352_+	PRK04366, PRK04366, aminomethyl-transferring glycine dehydrogenase subunit GcvPB	NA|786aa|up_4|CP011847.1_1832774_1835132_+	cd02609, P-type_ATPase, uncharacterized subfamily of P-type ATPase transporter, similar to uncharacterized Streptococcus pneumoniae exported protein 7, Exp7	NA|106aa|up_3|CP011847.1_1835217_1835535_-	pfam06865, DUF1255, Protein of unknown function (DUF1255)	cas14j|370aa|up_2|CP011847.1_1836562_1837672_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|252aa|up_1|CP011847.1_1837847_1838603_+	pfam12395, DUF3658, Protein of unknown function	NA|424aa|up_0|CP011847.1_1839242_1840514_-	cd01303, GDEase, Guanine deaminase (GDEase)	NA|96aa|down_0|CP011847.1_1842717_1843005_+	NA	NA|33aa|down_1|CP011847.1_1843029_1843128_+	NA	NA|184aa|down_2|CP011847.1_1843543_1844095_-	cd02209, cupin_XRE_C, XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain	NA|321aa|down_3|CP011847.1_1844285_1845248_+	cd01561, CBS_like, CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase	NA|615aa|down_4|CP011847.1_1845542_1847387_+	cd08579, GDPD_memb_like, Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases	NA|177aa|down_5|CP011847.1_1847691_1848222_+	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|CP011847.1_1849324_1849501_-	NA	NA|341aa|down_7|CP011847.1_1850075_1851098_+	NA	NA|296aa|down_8|CP011847.1_1851111_1851999_+	cd03264, ABC_drug_resistance_like, ABC-type multidrug transport system, ATPase component	NA|258aa|down_9|CP011847.1_1852004_1852778_+	NA
GCA_003313565.1_ASM331356v1	CP011847	Clostridioides difficile strain DSM 27639 chromosome, complete genome	8	2158843-2159010	5	PILER-CR	no	csa3	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Type I-A	AGTTTTATATCAACTATGTGGTATGTAAAGTTTTTA	36	0	0	NA	NA	I-A	2	2	Orphan	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA|133aa|up_4|CP011847.1_2155352_2155751_-,NA|59aa|up_1|CP011847.1_2157882_2158059_+,NA|55aa|down_1|CP011847.1_2160557_2160722_-,NA|45aa|down_5|CP011847.1_2163376_2163511_-	NA|204aa|up_9|CP011847.1_2148349_2148961_+	cd03426, CoAse, Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes	NA|113aa|up_8|CP011847.1_2149258_2149597_+	pfam12650, DUF3784, Domain of unknown function (DUF3784)	NA|479aa|up_7|CP011847.1_2150003_2151440_-	PRK14328, PRK14328, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	NA|479aa|up_6|CP011847.1_2151687_2153124_-	NF033435, S-layer_Clost, S-layer protein SlpA	NA|184aa|up_5|CP011847.1_2153951_2154503_-	pfam17099, TrpP, Tryptophan transporter TrpP	NA|133aa|up_4|CP011847.1_2155352_2155751_-	NA	NA|162aa|up_3|CP011847.1_2156106_2156592_-	pfam08239, SH3_3, Bacterial SH3 domain	NA|61aa|up_2|CP011847.1_2157322_2157505_-	pfam03965, Penicillinase_R, Penicillinase repressor	NA|59aa|up_1|CP011847.1_2157882_2158059_+	NA	NA|67aa|up_0|CP011847.1_2158284_2158485_+	COG1278, CspC, Cold shock proteins [Transcription]	NA|282aa|down_0|CP011847.1_2159488_2160334_+	pfam13026, DUF3887, Protein of unknown function (DUF3887)	NA|55aa|down_1|CP011847.1_2160557_2160722_-	NA	NA|111aa|down_2|CP011847.1_2161262_2161595_-	pfam02627, CMD, Carboxymuconolactone decarboxylase family	NA|214aa|down_3|CP011847.1_2161838_2162480_-	COG5658, COG5658, Predicted integral membrane protein [Function unknown]	csa3|99aa|down_4|CP011847.1_2162460_2162757_-	cd00090, HTH_ARSR, Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors	NA|45aa|down_5|CP011847.1_2163376_2163511_-	NA	NA|251aa|down_6|CP011847.1_2163721_2164474_-	PRK10621, PRK10621, hypothetical protein; Provisional	NA|552aa|down_7|CP011847.1_2164532_2166188_-	COG4753, COG4753, Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]	NA|360aa|down_8|CP011847.1_2167460_2168540_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|219aa|down_9|CP011847.1_2168623_2169280_-	COG1309, AcrR, Transcriptional regulator [Transcription]
GCA_003313565.1_ASM331356v1	CP011847	Clostridioides difficile strain DSM 27639 chromosome, complete genome	9	2540857-2541808	8,5,6	CRISPRCasFinder,CRT,PILER-CR	no	c2c9_V-U4	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Type V-U4	ATTTACATTCCATATAGTTAATCTAAAAC,ATTTACATTCCATATAGTTAATCTAAAAC,GTTTTAGATTAACTATATGGAATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	14,14,13	14	TypeV-U4	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA|138aa|up_7|CP011847.1_2537111_2537525_+,NA|99aa|up_6|CP011847.1_2537543_2537840_+,NA|106aa|up_5|CP011847.1_2538122_2538440_+,NA|155aa|up_4|CP011847.1_2538575_2539040_+,NA|54aa|up_3|CP011847.1_2539367_2539529_-,NA|132aa|up_2|CP011847.1_2539580_2539976_-,NA|51aa|up_0|CP011847.1_2540513_2540666_-,NA|51aa|down_1|CP011847.1_2543191_2543344_-,NA|111aa|down_2|CP011847.1_2543617_2543950_-,NA|85aa|down_3|CP011847.1_2543976_2544231_-	NA|125aa|up_9|CP011847.1_2536301_2536676_-	pfam03965, Penicillinase_R, Penicillinase repressor	NA|78aa|up_8|CP011847.1_2536894_2537128_+	COG1476, COG1476, Predicted transcriptional regulators [Transcription]	NA|138aa|up_7|CP011847.1_2537111_2537525_+	NA	NA|99aa|up_6|CP011847.1_2537543_2537840_+	NA	NA|106aa|up_5|CP011847.1_2538122_2538440_+	NA	NA|155aa|up_4|CP011847.1_2538575_2539040_+	NA	NA|54aa|up_3|CP011847.1_2539367_2539529_-	NA	NA|132aa|up_2|CP011847.1_2539580_2539976_-	NA	NA|122aa|up_1|CP011847.1_2540028_2540394_-	smart01040, Bro-N, BRO family, N-terminal domain	NA|51aa|up_0|CP011847.1_2540513_2540666_-	NA	NA|308aa|down_0|CP011847.1_2542074_2542998_-	pfam09851, SHOCT, Short C-terminal domain	NA|51aa|down_1|CP011847.1_2543191_2543344_-	NA	NA|111aa|down_2|CP011847.1_2543617_2543950_-	NA	NA|85aa|down_3|CP011847.1_2543976_2544231_-	NA	c2c9_V-U4|98aa|down_4|CP011847.1_2544666_2544960_-	pfam07282, OrfB_Zn_ribbon, Putative transposase DNA-binding domain	NA|64aa|down_5|CP011847.1_2545658_2545850_-	pfam03965, Penicillinase_R, Penicillinase repressor	NA|126aa|down_6|CP011847.1_2545954_2546332_-	pfam03965, Penicillinase_R, Penicillinase repressor	NA|165aa|down_7|CP011847.1_2547135_2547630_+	TIGR01710, Type_II_secretion_system_protein_G, type II secretion system protein G	NA|78aa|down_8|CP011847.1_2548621_2548855_-	COG2963, COG2963, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|117aa|down_9|CP011847.1_2549016_2549367_+	pfam12676, DUF3796, Protein of unknown function (DUF3796)
GCA_003313565.1_ASM331356v1	CP011847	Clostridioides difficile strain DSM 27639 chromosome, complete genome	10	2703490-2703647	7	PILER-CR	no	cas3,cas5,cas7,cas6	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Unclear	AGGTTTAAGATTAACTAAGTGG---------ATTTCA	37	0	0	NA	NA	NA	2	2	Unclear	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA,NA|492aa|down_3|CP011847.1_2708072_2709548_-,NA|59aa|down_5|CP011847.1_2710390_2710567_-	NA|448aa|up_9|CP011847.1_2695946_2697290_-	pfam06898, YqfD, Putative stage IV sporulation protein YqfD	NA|79aa|up_8|CP011847.1_2697302_2697539_-	pfam07873, YabP, YabP family	NA|188aa|up_7|CP011847.1_2697751_2698315_-	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|CP011847.1_2698507_2699005_-	cd15904, TSPO_MBR, Translocator protein (TSPO)/peripheral-type benzodiazepine receptor (MBR) family	NA|148aa|up_5|CP011847.1_2699115_2699559_-	pfam09424, YqeY, Yqey-like protein	NA|60aa|up_4|CP011847.1_2699588_2699768_-	PRK00270, rpsU, 30S ribosomal protein S21; Reviewed	NA|117aa|up_3|CP011847.1_2699930_2700281_-	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|CP011847.1_2700323_2701622_-	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|253aa|up_1|CP011847.1_2701623_2702382_-	PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional	NA|316aa|up_0|CP011847.1_2702400_2703348_-	pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA)	cas3|803aa|down_0|CP011847.1_2703788_2706197_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|266aa|down_1|CP011847.1_2706223_2707021_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|339aa|down_2|CP011847.1_2707036_2708053_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	NA|492aa|down_3|CP011847.1_2708072_2709548_-	NA	cas6|246aa|down_4|CP011847.1_2709552_2710290_-	TIGR01877, CRISPR-associated_endoribonuclease_Cas6_1, CRISPR-associated endoribonuclease Cas6	NA|59aa|down_5|CP011847.1_2710390_2710567_-	NA	NA|370aa|down_6|CP011847.1_2711025_2712135_+	PRK11650, ugpC, sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC	NA|256aa|down_7|CP011847.1_2712164_2712932_+	pfam13556, HTH_30, PucR C-terminal helix-turn-helix domain	NA|458aa|down_8|CP011847.1_2713119_2714493_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|312aa|down_9|CP011847.1_2714528_2715464_-	COG1940, NagC, Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]
GCA_003313565.1_ASM331356v1	CP011847	Clostridioides difficile strain DSM 27639 chromosome, complete genome	11	2785418-2785975	8,9,6	PILER-CR,CRISPRCasFinder,CRT	no		cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Orphan	GTTTTATATTAACTATATGGAATGTAAAT,ATTTACATTCCATATAGTTAATATAAAAC,ATTTACATTCCATATAGTTAATATAAAAC	29,29,29	0	0	NA	NA	I-A:I-A:I-A	8,8,8	8	Orphan	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA|33aa|up_0|CP011847.1_2784854_2784953_-,NA|53aa|down_0|CP011847.1_2786260_2786419_-	NA|260aa|up_9|CP011847.1_2773742_2774522_-	COG2169, Ada, Adenosine deaminase [Nucleotide transport and metabolism]	NA|451aa|up_8|CP011847.1_2774631_2775984_-	cd05298, GH4_GlvA_pagL_like, Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases	NA|517aa|up_7|CP011847.1_2776080_2777631_-	TIGR02005, PTS-IIBC-alpha, PTS system, alpha-glucoside-specific IIBC component	NA|272aa|up_6|CP011847.1_2777683_2778499_-	PRK09772, PRK09772, transcriptional antiterminator BglG; Provisional	NA|161aa|up_5|CP011847.1_2778519_2779002_-	pfam00358, PTS_EIIA_1, phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 1	NA|127aa|up_4|CP011847.1_2779285_2779666_-	TIGR00004, RutC_family_protein, reactive intermediate/imine deaminase	NA|406aa|up_3|CP011847.1_2779760_2780978_-	PRK08198, PRK08198, threonine dehydratase; Provisional	NA|543aa|up_2|CP011847.1_2781636_2783265_+	TIGR03801, For_A_Pyridoxal-5-_Phosphate, aspartate 4-decarboxylase	NA|332aa|up_1|CP011847.1_2783385_2784381_+	cd08964, L-asparaginase_II, Type II (periplasmic) bacterial L-asparaginase	NA|33aa|up_0|CP011847.1_2784854_2784953_-	NA	NA|53aa|down_0|CP011847.1_2786260_2786419_-	NA	NA|457aa|down_1|CP011847.1_2786777_2788148_-	NF033435, S-layer_Clost, S-layer protein SlpA	NA|130aa|down_2|CP011847.1_2788891_2789281_+	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|223aa|down_3|CP011847.1_2789788_2790457_-	pfam04892, VanZ, VanZ like family	NA|807aa|down_4|CP011847.1_2791311_2793732_-	PRK00390, leuS, leucyl-tRNA synthetase; Validated	NA|117aa|down_5|CP011847.1_2794085_2794436_-	pfam02410, RsfS, Ribosomal silencing factor during starvation	NA|191aa|down_6|CP011847.1_2794552_2795125_-	COG1713, COG1713, Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]	NA|230aa|down_7|CP011847.1_2795125_2795815_-	PRK00071, nadD, nicotinate-nucleotide adenylyltransferase	NA|213aa|down_8|CP011847.1_2796090_2796729_+	PRK00117, recX, recombination regulator RecX; Reviewed	NA|668aa|down_9|CP011847.1_2796881_2798885_+	PLN02447, PLN02447, 1,4-alpha-glucan-branching enzyme
GCA_003313565.1_ASM331356v1	CP011847	Clostridioides difficile strain DSM 27639 chromosome, complete genome	17	3311359-3312108	15,7	CRISPRCasFinder,CRT	no		cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Orphan	CTTTACATACCACTTAGTTAATATAAAA,CTTTACATACCACNTAGTTAATATAAAA	28,28	0	0	NA	NA	I-A:I-A	11,11	11	Orphan	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA,NA|59aa|down_0|CP011847.1_3312186_3312363_-,NA|59aa|down_3|CP011847.1_3314314_3314491_-,NA|54aa|down_5|CP011847.1_3317253_3317415_-,NA|119aa|down_7|CP011847.1_3318180_3318537_-	NA|550aa|up_9|CP011847.1_3300588_3302238_-	pfam12810, Gly_rich, Glycine rich protein	NA|268aa|up_8|CP011847.1_3302255_3303059_-	pfam12571, DUF3751, Phage tail-collar fibre protein	NA|206aa|up_7|CP011847.1_3303070_3303688_-	pfam10076, DUF2313, Uncharacterized protein conserved in bacteria (DUF2313)	NA|349aa|up_6|CP011847.1_3303680_3304727_-	pfam04865, Baseplate_J, Baseplate J-like protein	NA|140aa|up_5|CP011847.1_3304727_3305147_-	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|87aa|up_4|CP011847.1_3305151_3305412_-	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|631aa|up_3|CP011847.1_3305425_3307318_-	pfam00877, NLPC_P60, NlpC/P60 family	NA|234aa|up_2|CP011847.1_3307310_3308012_-	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|786aa|up_1|CP011847.1_3308027_3310385_-	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|261aa|up_0|CP011847.1_3310451_3311234_-	pfam09851, SHOCT, Short C-terminal domain	NA|59aa|down_0|CP011847.1_3312186_3312363_-	NA	NA|268aa|down_1|CP011847.1_3312419_3313223_-	COG3617, COG3617, Prophage antirepressor [Transcription]	NA|57aa|down_2|CP011847.1_3313351_3313522_-	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|59aa|down_3|CP011847.1_3314314_3314491_-	NA	NA|289aa|down_4|CP011847.1_3314545_3315412_-	smart01040, Bro-N, BRO family, N-terminal domain	NA|54aa|down_5|CP011847.1_3317253_3317415_-	NA	NA|147aa|down_6|CP011847.1_3317735_3318176_-	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|119aa|down_7|CP011847.1_3318180_3318537_-	NA	NA|157aa|down_8|CP011847.1_3318491_3318962_-	pfam09393, DUF2001, Phage tail tube protein	NA|437aa|down_9|CP011847.1_3318986_3320297_-	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain
GCA_003313565.1_ASM331356v1	CP011847	Clostridioides difficile strain DSM 27639 chromosome, complete genome	18	3313681-3314236	16,8,9,10	CRISPRCasFinder,CRT,PILER-CR,PILER-CR	no		cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Orphan	ATTTACATTCCATATAGTTAATATAAAAC,ATTTACATNCCANATAGTTAATNTAAAAC,GTTTTAGATTAACTATATGGAATGTAAAT,TTTTATATTAACTATGTGGTATGTAAA	29,29,29,27	0	0	NA	NA	I-A:NA:I-A:I-A	8,8,6,6	8	Orphan	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA|59aa|up_2|CP011847.1_3312186_3312363_-,NA|59aa|down_0|CP011847.1_3314314_3314491_-,NA|54aa|down_2|CP011847.1_3317253_3317415_-,NA|119aa|down_4|CP011847.1_3318180_3318537_-,NA|62aa|down_7|CP011847.1_3320297_3320483_-,NA|146aa|down_8|CP011847.1_3320466_3320904_-	NA|349aa|up_9|CP011847.1_3303680_3304727_-	pfam04865, Baseplate_J, Baseplate J-like protein	NA|140aa|up_8|CP011847.1_3304727_3305147_-	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|87aa|up_7|CP011847.1_3305151_3305412_-	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|631aa|up_6|CP011847.1_3305425_3307318_-	pfam00877, NLPC_P60, NlpC/P60 family	NA|234aa|up_5|CP011847.1_3307310_3308012_-	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|786aa|up_4|CP011847.1_3308027_3310385_-	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|261aa|up_3|CP011847.1_3310451_3311234_-	pfam09851, SHOCT, Short C-terminal domain	NA|59aa|up_2|CP011847.1_3312186_3312363_-	NA	NA|268aa|up_1|CP011847.1_3312419_3313223_-	COG3617, COG3617, Prophage antirepressor [Transcription]	NA|57aa|up_0|CP011847.1_3313351_3313522_-	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|59aa|down_0|CP011847.1_3314314_3314491_-	NA	NA|289aa|down_1|CP011847.1_3314545_3315412_-	smart01040, Bro-N, BRO family, N-terminal domain	NA|54aa|down_2|CP011847.1_3317253_3317415_-	NA	NA|147aa|down_3|CP011847.1_3317735_3318176_-	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|119aa|down_4|CP011847.1_3318180_3318537_-	NA	NA|157aa|down_5|CP011847.1_3318491_3318962_-	pfam09393, DUF2001, Phage tail tube protein	NA|437aa|down_6|CP011847.1_3318986_3320297_-	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|62aa|down_7|CP011847.1_3320297_3320483_-	NA	NA|146aa|down_8|CP011847.1_3320466_3320904_-	NA	NA|142aa|down_9|CP011847.1_3320896_3321322_-	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component
GCA_003313565.1_ASM331356v1	CP011847	Clostridioides difficile strain DSM 27639 chromosome, complete genome	19	3315873-3316960	17,9,11,12	CRISPRCasFinder,CRT,PILER-CR,PILER-CR	no		cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Orphan	ATTTACATACCACATAGTTAATATAAAAC,ATTTACATACCACATAGTTAATATAAAAC,GTTTTAGATTAACTATATGGAATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT	29,29,29,29	0	0	NA	NA	I-A:I-A:I-A:I-A	16,16,13,13	16	Orphan	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA|59aa|up_4|CP011847.1_3312186_3312363_-,NA|59aa|up_1|CP011847.1_3314314_3314491_-,NA|54aa|down_0|CP011847.1_3317253_3317415_-,NA|119aa|down_2|CP011847.1_3318180_3318537_-,NA|62aa|down_5|CP011847.1_3320297_3320483_-,NA|146aa|down_6|CP011847.1_3320466_3320904_-,NA|116aa|down_8|CP011847.1_3321321_3321669_-	NA|87aa|up_9|CP011847.1_3305151_3305412_-	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|631aa|up_8|CP011847.1_3305425_3307318_-	pfam00877, NLPC_P60, NlpC/P60 family	NA|234aa|up_7|CP011847.1_3307310_3308012_-	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|786aa|up_6|CP011847.1_3308027_3310385_-	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|261aa|up_5|CP011847.1_3310451_3311234_-	pfam09851, SHOCT, Short C-terminal domain	NA|59aa|up_4|CP011847.1_3312186_3312363_-	NA	NA|268aa|up_3|CP011847.1_3312419_3313223_-	COG3617, COG3617, Prophage antirepressor [Transcription]	NA|57aa|up_2|CP011847.1_3313351_3313522_-	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|59aa|up_1|CP011847.1_3314314_3314491_-	NA	NA|289aa|up_0|CP011847.1_3314545_3315412_-	smart01040, Bro-N, BRO family, N-terminal domain	NA|54aa|down_0|CP011847.1_3317253_3317415_-	NA	NA|147aa|down_1|CP011847.1_3317735_3318176_-	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|119aa|down_2|CP011847.1_3318180_3318537_-	NA	NA|157aa|down_3|CP011847.1_3318491_3318962_-	pfam09393, DUF2001, Phage tail tube protein	NA|437aa|down_4|CP011847.1_3318986_3320297_-	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|62aa|down_5|CP011847.1_3320297_3320483_-	NA	NA|146aa|down_6|CP011847.1_3320466_3320904_-	NA	NA|142aa|down_7|CP011847.1_3320896_3321322_-	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component	NA|116aa|down_8|CP011847.1_3321321_3321669_-	NA	NA|115aa|down_9|CP011847.1_3321668_3322013_-	cd08055, gp15, Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins
GCA_003313565.1_ASM331356v1	CP011847	Clostridioides difficile strain DSM 27639 chromosome, complete genome	20	3375810-3377348	18,10,13	CRISPRCasFinder,CRT,PILER-CR	no	cas2,cas1,cas4,cas3,cas5,cas7,cas8b2,cas6,WYL	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Unclear	ATTTACATACCACTTAGTTAATATAAAAC,ATTTACATACCACTTAGTTAATATAAAAC,GTTTTATATTAACTAAGTGGTATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	23,21,20	23	Unclear	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA|67aa|up_7|CP011847.1_3368703_3368904_+,NA|260aa|up_1|CP011847.1_3374086_3374866_+,NA	NA|740aa|up_9|CP011847.1_3363050_3365270_-	cd01948, EAL, EAL domain	NA|885aa|up_8|CP011847.1_3365545_3368200_-	PRK13805, PRK13805, bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional	NA|67aa|up_7|CP011847.1_3368703_3368904_+	NA	NA|197aa|up_6|CP011847.1_3369110_3369701_-	PRK08305, spoVFB, dipicolinate synthase subunit B; Reviewed	NA|292aa|up_5|CP011847.1_3369703_3370579_-	PRK08306, PRK08306, dipicolinate synthase subunit DpsA	NA|464aa|up_4|CP011847.1_3370654_3372046_-	cd17633, AFD_YhfT-like, fatty acid-CoA ligase VraA	NA|379aa|up_3|CP011847.1_3372049_3373186_-	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|CP011847.1_3373217_3373763_-	pfam02632, BioY, BioY family	NA|260aa|up_1|CP011847.1_3374086_3374866_+	NA	NA|143aa|up_0|CP011847.1_3375320_3375749_-	PRK10562, PRK10562, putative acetyltransferase; Provisional	cas2|89aa|down_0|CP011847.1_3377531_3377798_-	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	cas1|327aa|down_1|CP011847.1_3377800_3378781_-	TIGR03641, cas1_HMARI, CRISPR-associated endonuclease Cas1, subtype I-B/HMARI/TNEAP	cas4|190aa|down_2|CP011847.1_3378783_3379353_-	pfam01930, Cas_Cas4, Domain of unknown function DUF83	cas3|774aa|down_3|CP011847.1_3379349_3381671_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|234aa|down_4|CP011847.1_3381681_3382383_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|305aa|down_5|CP011847.1_3382384_3383299_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas8b2|626aa|down_6|CP011847.1_3383300_3385178_-	cd09665, Cas8a1_I-A, CRISPR/Cas system-associated protein Cas8a1	cas6|246aa|down_7|CP011847.1_3385183_3385921_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	WYL|296aa|down_8|CP011847.1_3385998_3386886_-	pfam13280, WYL, WYL domain	NA|639aa|down_9|CP011847.1_3387195_3389112_-	pfam02687, FtsX, FtsX-like permease family
GCA_003313565.1_ASM331356v1	CP011847	Clostridioides difficile strain DSM 27639 chromosome, complete genome	21	4123972-4124057	19	CRISPRCasFinder	no		cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	Orphan	AAAGTGCTAAAGCACGTCGCCAAC	24	1	1	4123996-4124033	CP011847.1_12421-12384	NA	1	1	Orphan	cas14k,csa3,WYL,cas3,cas14j,DEDDh,DinG,c2c9_V-U4,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2,PD-DExK	NA,NA|65aa|down_0|CP011847.1_4125930_4126125_-	NA|109aa|up_9|CP011847.1_4109768_4110095_-	pfam06125, DUF961, Bacterial protein of unknown function (DUF961)	NA|1015aa|up_8|CP011847.1_4110333_4113378_-	pfam18202, TQ, T-Q ester bond containing domain	NA|235aa|up_7|CP011847.1_4113780_4114485_-	TIGR02692, putative_tRNA_nucleotidyltransferase, tRNA adenylyltransferase	NA|278aa|up_6|CP011847.1_4114507_4115341_-	cd11648, RsmI, Ribosomal RNA small subunit methyltransferase I (RsmI), also known as rRNA (cytidine-2'-O-)-methyltransferase	NA|249aa|up_5|CP011847.1_4115341_4116088_-	COG4123, COG4123, Predicted O-methyltransferase [General function prediction only]	NA|298aa|up_4|CP011847.1_4116165_4117059_-	COG1774, COG1774, Uncharacterized homolog of PSP1 [Function unknown]	NA|312aa|up_3|CP011847.1_4117055_4117991_-	PRK05564, PRK05564, DNA polymerase III subunit delta'; Validated	NA|230aa|up_2|CP011847.1_4117993_4118683_-	COG0125, Tmk, Thymidylate kinase [Nucleotide transport and metabolism]	NA|470aa|up_1|CP011847.1_4118813_4120223_-	COG1982, LdcC, Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]	NA|64aa|up_0|CP011847.1_4120377_4120569_-	pfam04070, DUF378, Domain of unknown function (DUF378)	NA|65aa|down_0|CP011847.1_4125930_4126125_-	NA	NA|510aa|down_1|CP011847.1_4126433_4127963_-	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed	NA|160aa|down_2|CP011847.1_4127977_4128457_-	PRK00226, greA, transcription elongation factor GreA; Reviewed	NA|323aa|down_3|CP011847.1_4128565_4129534_-	TIGR00737, Probable_tRNA-dihydrouridine_synthase, putative TIM-barrel protein, nifR3 family	NA|257aa|down_4|CP011847.1_4129670_4130441_-	PRK13318, PRK13318, type III pantothenate kinase	NA|197aa|down_5|CP011847.1_4130459_4131050_-	COG4684, COG4684, Predicted membrane protein [Function unknown]	NA|323aa|down_6|CP011847.1_4131233_4132202_-	cd02252, nylC_like, nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC	NA|326aa|down_7|CP011847.1_4132194_4133172_-	PRK11886, PRK11886, bifunctional biotin--[acetyl-CoA-carboxylase] ligase/biotin operon repressor BirA	NA|657aa|down_8|CP011847.1_4133486_4135457_-	TIGR01241, ATP-dependent_zinc_metalloprotease_FtsH, ATP-dependent metalloprotease FtsH	NA|463aa|down_9|CP011847.1_4135490_4136879_-	TIGR02432, tRNAIle-lysidine_synthase, tRNA(Ile)-lysidine synthetase, N-terminal domain
