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_003456975.1_ASM345697v1	CP020378	Clostridioides difficile strain DSM 102859 chromosome, complete genome	1	31917-32002	1	CRISPRCasFinder	no		cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTGGCGCCGTGCTTTAGCACTTT	24	1	1	31941-31978	CP020378.1_4099227-4099190	NA	1	1	Orphan	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|74aa|up_1|CP020378.1_28332_28554_+,NA|138aa|down_0|CP020378.1_39225_39639_+,NA|32aa|down_1|CP020378.1_39648_39744_+	NA|258aa|up_9|CP020378.1_9856_10630_+	TIGR02980, SigBFG, RNA polymerase sigma-70 factor, sigma-B/F/G subfamily	NA|170aa|up_8|CP020378.1_21153_21663_+	COG1827, COG1827, Predicted small molecule binding protein (contains 3H domain) [General function prediction only]	NA|294aa|up_7|CP020378.1_21674_22556_+	PRK10334, PRK10334, small-conductance mechanosensitive channel MscS	NA|424aa|up_6|CP020378.1_23014_24286_+	PRK05431, PRK05431, seryl-tRNA synthetase; Provisional	NA|152aa|up_5|CP020378.1_24606_25062_+	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|546aa|up_4|CP020378.1_25532_27170_+	PRK05563, PRK05563, DNA polymerase III subunits gamma and tau; Validated	NA|117aa|up_3|CP020378.1_27228_27579_+	PRK00153, PRK00153, YbaB/EbfC family nucleoid-associated protein	NA|200aa|up_2|CP020378.1_27591_28191_+	PRK00076, recR, recombination protein RecR; Reviewed	NA|74aa|up_1|CP020378.1_28332_28554_+	NA	NA|402aa|up_0|CP020378.1_28624_29830_-	cd17507, GT28_Beta-DGS-like, beta-diglucosyldiacylglycerol synthase and similar proteins	NA|138aa|down_0|CP020378.1_39225_39639_+	NA	NA|32aa|down_1|CP020378.1_39648_39744_+	NA	NA|1144aa|down_2|CP020378.1_39947_43379_+	PRK12999, PRK12999, pyruvate carboxylase; Reviewed	NA|643aa|down_3|CP020378.1_43620_45549_+	PRK12740, PRK12740, elongation factor G-like protein EF-G2	NA|158aa|down_4|CP020378.1_45996_46470_+	COG4463, CtsR, Transcriptional repressor of class III stress genes [Transcription]	NA|165aa|down_5|CP020378.1_46476_46971_+	COG3880, COG3880, Modulator of heat shock repressor CtsR, McsA [Signal transduction    mechanisms]	NA|342aa|down_6|CP020378.1_46986_48012_+	PRK01059, PRK01059, ATP:guanido phosphotransferase; Provisional	NA|816aa|down_7|CP020378.1_47998_50446_+	COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]	NA|458aa|down_8|CP020378.1_50625_51999_+	PRK11823, PRK11823, DNA repair protein RadA; Provisional	NA|357aa|down_9|CP020378.1_52001_53072_+	PRK13482, PRK13482, DNA integrity scanning protein DisA; Provisional
GCA_003456975.1_ASM345697v1	CP020378	Clostridioides difficile strain DSM 102859 chromosome, complete genome	2	128788-128877	2	CRISPRCasFinder	no		cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	TGTGCGTTAGCACTTTAAGCAACAGAAT	28	1	4	128816-128849|128816-128849|128816-128849|128816-128849	CP020378.1_146256-146289|CP020378.1_1175022-1175055|CP020378.1_3963266-3963233|CP020378.1_4099215-4099182	NA	1	1	Orphan	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|226aa|down_7|CP020378.1_161106_161784_+	NA|208aa|up_9|CP020378.1_119229_119853_+	PRK05327, rpsD, 30S ribosomal protein S4; Validated	NA|316aa|up_8|CP020378.1_119930_120878_+	PRK05182, PRK05182, DNA-directed RNA polymerase subunit alpha; Provisional	NA|114aa|up_7|CP020378.1_120898_121240_+	PRK05591, rplQ, 50S ribosomal protein L17; Validated	NA|278aa|up_6|CP020378.1_121359_122193_+	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase	NA|289aa|up_5|CP020378.1_122180_123047_+	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|268aa|up_4|CP020378.1_123040_123844_+	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|244aa|up_3|CP020378.1_123875_124607_+	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|144aa|up_2|CP020378.1_124726_125158_+	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|131aa|up_1|CP020378.1_125186_125579_+	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|235aa|up_0|CP020378.1_126085_126790_+	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|395aa|down_0|CP020378.1_139266_140451_-	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|784aa|down_1|CP020378.1_140823_143175_+	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|180aa|down_2|CP020378.1_143196_143736_+	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|280aa|down_3|CP020378.1_156792_157632_+	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|394aa|down_4|CP020378.1_157628_158810_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|301aa|down_5|CP020378.1_159113_160016_+	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|360aa|down_6|CP020378.1_160037_161117_+	PRK03011, PRK03011, butyrate kinase; Provisional	NA|226aa|down_7|CP020378.1_161106_161784_+	NA	NA|72aa|down_8|CP020378.1_161826_162042_+	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|360aa|down_9|CP020378.1_162070_163150_+	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated
GCA_003456975.1_ASM345697v1	CP020378	Clostridioides difficile strain DSM 102859 chromosome, complete genome	3	135678-135767	3	CRISPRCasFinder	no		cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	TGTGCGTTAGCACTTTAAGCAACAGAAT	28	1	4	135706-135739|135706-135739|135706-135739|135706-135739	CP020378.1_146256-146289|CP020378.1_1175022-1175055|CP020378.1_3963266-3963233|CP020378.1_4099215-4099182	NA	1	1	Orphan	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|226aa|down_7|CP020378.1_161106_161784_+	NA|208aa|up_9|CP020378.1_119229_119853_+	PRK05327, rpsD, 30S ribosomal protein S4; Validated	NA|316aa|up_8|CP020378.1_119930_120878_+	PRK05182, PRK05182, DNA-directed RNA polymerase subunit alpha; Provisional	NA|114aa|up_7|CP020378.1_120898_121240_+	PRK05591, rplQ, 50S ribosomal protein L17; Validated	NA|278aa|up_6|CP020378.1_121359_122193_+	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase	NA|289aa|up_5|CP020378.1_122180_123047_+	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|268aa|up_4|CP020378.1_123040_123844_+	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|244aa|up_3|CP020378.1_123875_124607_+	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|144aa|up_2|CP020378.1_124726_125158_+	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|131aa|up_1|CP020378.1_125186_125579_+	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|235aa|up_0|CP020378.1_126085_126790_+	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|395aa|down_0|CP020378.1_139266_140451_-	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|784aa|down_1|CP020378.1_140823_143175_+	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|180aa|down_2|CP020378.1_143196_143736_+	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|280aa|down_3|CP020378.1_156792_157632_+	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|394aa|down_4|CP020378.1_157628_158810_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|301aa|down_5|CP020378.1_159113_160016_+	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|360aa|down_6|CP020378.1_160037_161117_+	PRK03011, PRK03011, butyrate kinase; Provisional	NA|226aa|down_7|CP020378.1_161106_161784_+	NA	NA|72aa|down_8|CP020378.1_161826_162042_+	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|360aa|down_9|CP020378.1_162070_163150_+	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated
GCA_003456975.1_ASM345697v1	CP020378	Clostridioides difficile strain DSM 102859 chromosome, complete genome	4	144217-144295	4	CRISPRCasFinder	no		cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	TGTTTATAATGTGGATAATATTTAA	25	0	0	NA	NA	NA	1	1	Orphan	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|226aa|down_4|CP020378.1_161106_161784_+	NA|278aa|up_9|CP020378.1_121359_122193_+	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase	NA|289aa|up_8|CP020378.1_122180_123047_+	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|268aa|up_7|CP020378.1_123040_123844_+	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|244aa|up_6|CP020378.1_123875_124607_+	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|144aa|up_5|CP020378.1_124726_125158_+	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|131aa|up_4|CP020378.1_125186_125579_+	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|235aa|up_3|CP020378.1_126085_126790_+	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|395aa|up_2|CP020378.1_139266_140451_-	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|784aa|up_1|CP020378.1_140823_143175_+	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|180aa|up_0|CP020378.1_143196_143736_+	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|280aa|down_0|CP020378.1_156792_157632_+	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|394aa|down_1|CP020378.1_157628_158810_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|301aa|down_2|CP020378.1_159113_160016_+	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|360aa|down_3|CP020378.1_160037_161117_+	PRK03011, PRK03011, butyrate kinase; Provisional	NA|226aa|down_4|CP020378.1_161106_161784_+	NA	NA|72aa|down_5|CP020378.1_161826_162042_+	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|360aa|down_6|CP020378.1_162070_163150_+	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated	NA|251aa|down_7|CP020378.1_163149_163902_+	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|CP020378.1_163902_164460_+	pfam01558, POR, Pyruvate ferredoxin/flavodoxin oxidoreductase	NA|449aa|down_9|CP020378.1_164629_165976_+	PRK14316, glmM, phosphoglucosamine mutase; Provisional
GCA_003456975.1_ASM345697v1	CP020378	Clostridioides difficile strain DSM 102859 chromosome, complete genome	5	151683-151772	5	CRISPRCasFinder	no		cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	TGTGCGTTAGCACTTTAAGCAACAGAAT	28	1	4	151711-151744|151711-151744|151711-151744|151711-151744	CP020378.1_146256-146289|CP020378.1_1175022-1175055|CP020378.1_3963266-3963233|CP020378.1_4099215-4099182	NA	1	1	Orphan	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|226aa|down_4|CP020378.1_161106_161784_+	NA|278aa|up_9|CP020378.1_121359_122193_+	TIGR04520, ECF_ATPase_1, energy-coupling factor transporter ATPase	NA|289aa|up_8|CP020378.1_122180_123047_+	PRK13637, cbiO, energy-coupling factor transporter ATPase	NA|268aa|up_7|CP020378.1_123040_123844_+	COG0619, CbiQ, ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]	NA|244aa|up_6|CP020378.1_123875_124607_+	PRK00021, truA, tRNA pseudouridine(38-40) synthase TruA	NA|144aa|up_5|CP020378.1_124726_125158_+	PRK09216, rplM, 50S ribosomal protein L13; Reviewed	NA|131aa|up_4|CP020378.1_125186_125579_+	PRK00132, rpsI, 30S ribosomal protein S9; Reviewed	NA|235aa|up_3|CP020378.1_126085_126790_+	TIGR02883, spore_cwlD, N-acetylmuramoyl-L-alanine amidase CwlD	NA|395aa|up_2|CP020378.1_139266_140451_-	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|784aa|up_1|CP020378.1_140823_143175_+	PRK07111, PRK07111, anaerobic ribonucleoside triphosphate reductase; Provisional	NA|180aa|up_0|CP020378.1_143196_143736_+	TIGR02491, Anaerobic_ribonucleoside-triphosphate_reductase, anaerobic ribonucleoside-triphosphate reductase activating protein	NA|280aa|down_0|CP020378.1_156792_157632_+	COG1624, COG1624, Uncharacterized conserved protein [Function unknown]	NA|394aa|down_1|CP020378.1_157628_158810_+	COG4856, COG4856, Uncharacterized protein conserved in bacteria [Function unknown]	NA|301aa|down_2|CP020378.1_159113_160016_+	PRK05805, PRK05805, phosphate butyryltransferase; Validated	NA|360aa|down_3|CP020378.1_160037_161117_+	PRK03011, PRK03011, butyrate kinase; Provisional	NA|226aa|down_4|CP020378.1_161106_161784_+	NA	NA|72aa|down_5|CP020378.1_161826_162042_+	COG2221, DsrA, Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]	NA|360aa|down_6|CP020378.1_162070_163150_+	PRK07119, PRK07119, 2-ketoisovalerate ferredoxin reductase; Validated	NA|251aa|down_7|CP020378.1_163149_163902_+	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|CP020378.1_163902_164460_+	pfam01558, POR, Pyruvate ferredoxin/flavodoxin oxidoreductase	NA|449aa|down_9|CP020378.1_164629_165976_+	PRK14316, glmM, phosphoglucosamine mutase; Provisional
GCA_003456975.1_ASM345697v1	CP020378	Clostridioides difficile strain DSM 102859 chromosome, complete genome	6	868592-868770	6	CRISPRCasFinder	no	cas14j	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	AAAAAATAATTAAATTAATTATATATT	27	0	0	NA	NA	NA	2	2	TypeV	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|65aa|up_4|CP020378.1_862100_862295_+,NA	NA|649aa|up_9|CP020378.1_853268_855215_+	cd07410, MPP_CpdB_N, Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain	NA|635aa|up_8|CP020378.1_855617_857522_+	cd07410, MPP_CpdB_N, Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain	NA|274aa|up_7|CP020378.1_858849_859671_-	cd07736, PhnP-like_MBL-fold, phosphodiesterase Escherichia coli PhnP and related proteins; MBL-fold metallo hydrolase domain	NA|273aa|up_6|CP020378.1_860536_861355_-	cd01107, HTH_BmrR, Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator	NA|194aa|up_5|CP020378.1_861522_862104_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|65aa|up_4|CP020378.1_862100_862295_+	NA	NA|581aa|up_3|CP020378.1_863021_864764_-	cd09606, M3B_PepF, Peptidase family M3B, oligopeptidase F (PepF)	NA|459aa|up_2|CP020378.1_865192_866569_+	TIGR00933, Trk_system_potassium_uptake_protein_trkH	NA|224aa|up_1|CP020378.1_866856_867528_+	COG0569, TrkA, K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]	NA|266aa|up_0|CP020378.1_867716_868514_+	COG0566, SpoU, rRNA methylases [Translation, ribosomal structure and biogenesis]	NA|340aa|down_0|CP020378.1_869057_870077_+	PRK00488, pheS, phenylalanyl-tRNA synthetase subunit alpha; Validated	NA|798aa|down_1|CP020378.1_870093_872487_+	PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta; Reviewed	NA|197aa|down_2|CP020378.1_872511_873102_+	pfam05164, ZapA, Cell division protein ZapA	cas14j|370aa|down_3|CP020378.1_874021_875131_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|228aa|down_4|CP020378.1_875283_875967_+	pfam06912, DUF1275, Protein of unknown function (DUF1275)	NA|861aa|down_5|CP020378.1_876262_878845_+	COG0826, COG0826, Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]	NA|193aa|down_6|CP020378.1_878948_879527_+	COG2316, COG2316, Predicted hydrolase (HD superfamily) [General function prediction only]	NA|159aa|down_7|CP020378.1_879560_880037_+	cd03427, MTH1, MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily	NA|274aa|down_8|CP020378.1_880490_881312_+	cd02143, nitroreductase_FeS-like, nitroreductases with an N-terminal iron-sulfur cluster-binding domain	NA|645aa|down_9|CP020378.1_881549_883484_+	cd01007, PBP2_BvgS_HisK_like, The type 2 periplasmic ligand-binding protein domain of the sensor-kinase BvgS and histidine kinase receptors, and related proteins
GCA_003456975.1_ASM345697v1	CP020378	Clostridioides difficile strain DSM 102859 chromosome, complete genome	7	1426711-1427666	1,7,1,2	PILER-CR,CRISPRCasFinder,CRT,PILER-CR	no		cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTAGATTAACTATATGGAATGTAAAT,GTTTTAGATTAACTATATGGAATGTAAAT,GTTTTAGATTAACTATATGGAATGTAAAT,AGGTTTTATATTAACTAAGTGGTATGTAAA	29,29,29,30	0	0	NA	NA	I-A:I-A:I-A:I-A	13,14,14,13	14	Orphan	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|134aa|up_9|CP020378.1_1421824_1422226_+,NA|121aa|up_8|CP020378.1_1422219_1422582_+,NA|146aa|up_6|CP020378.1_1422999_1423437_+,NA|62aa|up_5|CP020378.1_1423420_1423606_+,NA|40aa|up_1|CP020378.1_1425988_1426108_+,NA|54aa|up_0|CP020378.1_1426254_1426416_+,NA|61aa|down_0|CP020378.1_1427879_1428062_+,NA|56aa|down_2|CP020378.1_1429049_1429217_+	NA|134aa|up_9|CP020378.1_1421824_1422226_+	NA	NA|121aa|up_8|CP020378.1_1422219_1422582_+	NA	NA|142aa|up_7|CP020378.1_1422581_1423007_+	pfam04883, HK97-gp10_like, Bacteriophage HK97-gp10, putative tail-component	NA|146aa|up_6|CP020378.1_1422999_1423437_+	NA	NA|62aa|up_5|CP020378.1_1423420_1423606_+	NA	NA|437aa|up_4|CP020378.1_1423606_1424917_+	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|157aa|up_3|CP020378.1_1424933_1425404_+	pfam09393, DUF2001, Phage tail tube protein	NA|147aa|up_2|CP020378.1_1425473_1425914_+	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|40aa|up_1|CP020378.1_1425988_1426108_+	NA	NA|54aa|up_0|CP020378.1_1426254_1426416_+	NA	NA|61aa|down_0|CP020378.1_1427879_1428062_+	NA	NA|271aa|down_1|CP020378.1_1428182_1428995_+	COG3617, COG3617, Prophage antirepressor [Transcription]	NA|56aa|down_2|CP020378.1_1429049_1429217_+	NA	NA|258aa|down_3|CP020378.1_1429338_1430112_+	pfam14471, DUF4428, Domain of unknown function (DUF4428)	NA|763aa|down_4|CP020378.1_1430169_1432458_+	TIGR02675, Mu-like_prophage_FluMu_protein_gp42, tape measure domain	NA|234aa|down_5|CP020378.1_1432473_1433175_+	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|631aa|down_6|CP020378.1_1433167_1435060_+	pfam00877, NLPC_P60, NlpC/P60 family	NA|87aa|down_7|CP020378.1_1435073_1435334_+	pfam10844, DUF2577, Protein of unknown function (DUF2577)	NA|140aa|down_8|CP020378.1_1435338_1435758_+	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|350aa|down_9|CP020378.1_1435757_1436807_+	pfam04865, Baseplate_J, Baseplate J-like protein
GCA_003456975.1_ASM345697v1	CP020378	Clostridioides difficile strain DSM 102859 chromosome, complete genome	9	1648741-1648900	9	CRISPRCasFinder	no	DinG	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Type IV-A	GTTTTATATTAACTATGTGGTATGTAAA	28	0	0	NA	NA	I-A	2	2	Orphan	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|183aa|up_5|CP020378.1_1643402_1643951_-,NA|80aa|down_3|CP020378.1_1656035_1656275_+,NA|59aa|down_4|CP020378.1_1656461_1656638_-,NA|32aa|down_6|CP020378.1_1658319_1658415_-	NA|195aa|up_9|CP020378.1_1638589_1639174_-	pfam00882, Zn_dep_PLPC, Zinc dependent phospholipase C	NA|481aa|up_8|CP020378.1_1639373_1640816_-	COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]	NA|315aa|up_7|CP020378.1_1641132_1642077_+	TIGR00950, Uncharacterized_inner_membrane_transporter_YicL, Carboxylate/Amino Acid/Amine Transporter	NA|312aa|up_6|CP020378.1_1642347_1643283_-	COG1242, COG1242, Predicted Fe-S oxidoreductase [General function prediction only]	NA|183aa|up_5|CP020378.1_1643402_1643951_-	NA	NA|143aa|up_4|CP020378.1_1644102_1644531_+	pfam04657, DMT_YdcZ, Putative inner membrane exporter, YdcZ	NA|217aa|up_3|CP020378.1_1644615_1645266_+	cd01994, Alpha_ANH_like_IV, This is a subfamily of Adenine nucleotide alpha hydrolases superfamily	NA|452aa|up_2|CP020378.1_1645383_1646739_-	cd13143, MATE_MepA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA	NA|136aa|up_1|CP020378.1_1647281_1647689_-	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|151aa|up_0|CP020378.1_1647761_1648214_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|578aa|down_0|CP020378.1_1649226_1650960_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|282aa|down_1|CP020378.1_1651199_1652045_-	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain	NA|270aa|down_2|CP020378.1_1655084_1655894_+	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators	NA|80aa|down_3|CP020378.1_1656035_1656275_+	NA	NA|59aa|down_4|CP020378.1_1656461_1656638_-	NA	NA|136aa|down_5|CP020378.1_1657857_1658265_-	cd01014, nicotinamidase_related, Nicotinamidase_ related amidohydrolases	NA|32aa|down_6|CP020378.1_1658319_1658415_-	NA	NA|45aa|down_7|CP020378.1_1658645_1658780_+	TIGR00232, Transketolase_2, transketolase, bacterial and yeast	NA|262aa|down_8|CP020378.1_1658879_1659665_+	COG3393, COG3393, Predicted acetyltransferase [General function prediction only]	NA|275aa|down_9|CP020378.1_1659761_1660586_-	cd10948, CE4_BsPdaA_like, Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs
GCA_003456975.1_ASM345697v1	CP020378	Clostridioides difficile strain DSM 102859 chromosome, complete genome	10	1760025-1760382	3,10,2	PILER-CR,CRISPRCasFinder,CRT	no		cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTATATTAACTATATGGAATGTAAA,GTTTTATATTAACTATATGGAATGTAAAT,GTTTTATATTAACTATATGGAATGTAAA	28,29,28	0	0	NA	NA	I-A:I-A:I-A	4,5,5	5	Orphan	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|184aa|up_7|CP020378.1_1749931_1750483_+,NA|61aa|up_4|CP020378.1_1753434_1753617_-,NA|54aa|down_0|CP020378.1_1760672_1760834_-,NA|323aa|down_5|CP020378.1_1765303_1766272_+	NA|195aa|up_9|CP020378.1_1748273_1748858_+	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|300aa|up_8|CP020378.1_1749010_1749910_+	TIGR02163, Ferredoxin-type_protein_NapH_homolog, ferredoxin-type protein, NapH/MauN family	NA|184aa|up_7|CP020378.1_1749931_1750483_+	NA	NA|216aa|up_6|CP020378.1_1750649_1751297_-	pfam02589, LUD_dom, LUD domain	NA|305aa|up_5|CP020378.1_1751687_1752602_-	pfam11155, DUF2935, Domain of unknown function (DUF2935)	NA|61aa|up_4|CP020378.1_1753434_1753617_-	NA	NA|283aa|up_3|CP020378.1_1754027_1754876_-	PRK00380, panC, pantoate--beta-alanine ligase; Reviewed	NA|276aa|up_2|CP020378.1_1754894_1755722_-	PRK00311, panB, 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed	NA|299aa|up_1|CP020378.1_1755696_1756593_-	pfam10728, DUF2520, Domain of unknown function (DUF2520)	NA|698aa|up_0|CP020378.1_1757270_1759364_+	cd01948, EAL, EAL domain	NA|54aa|down_0|CP020378.1_1760672_1760834_-	NA	NA|273aa|down_1|CP020378.1_1761040_1761859_+	cd04782, HTH_BltR, Helix-Turn-Helix DNA binding domain of the BltR transcription regulator	NA|707aa|down_2|CP020378.1_1761991_1764112_-	COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]	NA|76aa|down_3|CP020378.1_1764137_1764365_-	pfam04023, FeoA, FeoA domain	NA|147aa|down_4|CP020378.1_1764690_1765131_-	COG2153, ElaA, Predicted acyltransferase [General function prediction only]	NA|323aa|down_5|CP020378.1_1765303_1766272_+	NA	NA|403aa|down_6|CP020378.1_1766757_1767966_+	PRK13354, PRK13354, tyrosyl-tRNA synthetase; Provisional	NA|294aa|down_7|CP020378.1_1768026_1768908_-	cd10944, CE4_SmPgdA_like, Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins	NA|305aa|down_8|CP020378.1_1769323_1770238_+	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|CP020378.1_1770460_1771006_+	cd01046, Rubrerythrin_like, rubrerythrin-like, diiron-binding domain
GCA_003456975.1_ASM345697v1	CP020378	Clostridioides difficile strain DSM 102859 chromosome, complete genome	11	1935990-1937201	4,11,3	PILER-CR,CRISPRCasFinder,CRT	no		cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTATATTAACTATGTGGTATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT,GTTTTATATTAACTATGTGGTATGTAAAT	29,29,29	1	1	1937005-1937041	CP020378.1_1239517-1239481	I-A:I-A:I-A	18,18,18	18	Orphan	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|63aa|down_0|CP020378.1_1937772_1937961_+,NA|59aa|down_4|CP020378.1_1944460_1944637_-,NA|338aa|down_5|CP020378.1_1945211_1946225_+,NA|258aa|down_7|CP020378.1_1947131_1947905_+	NA|266aa|up_9|CP020378.1_1919124_1919922_-	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|329aa|up_8|CP020378.1_1920231_1921218_-	TIGR00545, Probable_lipoate-protein_ligase_A, lipoyltransferase and lipoate-protein ligase	NA|577aa|up_7|CP020378.1_1921701_1923432_+	COG1757, NhaC, Na+/H+ antiporter [Energy production and conversion]	NA|172aa|up_6|CP020378.1_1923968_1924484_+	pfam13787, HXXEE, Protein of unknown function with HXXEE motif	NA|825aa|up_5|CP020378.1_1925272_1927747_+	PRK00451, PRK00451, aminomethyl-transferring glycine dehydrogenase subunit GcvPA	NA|486aa|up_4|CP020378.1_1927746_1929204_+	PRK04366, PRK04366, aminomethyl-transferring glycine dehydrogenase subunit GcvPB	NA|786aa|up_3|CP020378.1_1929626_1931984_+	cd02609, P-type_ATPase, uncharacterized subfamily of P-type ATPase transporter, similar to uncharacterized Streptococcus pneumoniae exported protein 7, Exp7	NA|106aa|up_2|CP020378.1_1932069_1932387_-	pfam06865, DUF1255, Protein of unknown function (DUF1255)	NA|239aa|up_1|CP020378.1_1932716_1933433_+	pfam08874, DUF1835, Domain of unknown function (DUF1835)	NA|424aa|up_0|CP020378.1_1934114_1935386_-	cd01303, GDEase, Guanine deaminase (GDEase)	NA|63aa|down_0|CP020378.1_1937772_1937961_+	NA	NA|184aa|down_1|CP020378.1_1938597_1939149_-	cd02209, cupin_XRE_C, XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain	NA|615aa|down_2|CP020378.1_1940598_1942443_+	cd08579, GDPD_memb_like, Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases	NA|198aa|down_3|CP020378.1_1942763_1943357_+	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_4|CP020378.1_1944460_1944637_-	NA	NA|338aa|down_5|CP020378.1_1945211_1946225_+	NA	NA|296aa|down_6|CP020378.1_1946238_1947126_+	cd03264, ABC_drug_resistance_like, ABC-type multidrug transport system, ATPase component	NA|258aa|down_7|CP020378.1_1947131_1947905_+	NA	NA|242aa|down_8|CP020378.1_1948016_1948742_+	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|207aa|down_9|CP020378.1_1949598_1950219_-	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]
GCA_003456975.1_ASM345697v1	CP020378	Clostridioides difficile strain DSM 102859 chromosome, complete genome	12	2804647-2804804	12	CRISPRCasFinder	no	cas14j,cas3,cas5,cas7,cas6	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	TGAAATCCACTTAGTTAATCTTAAAC	26	0	0	NA	NA	NA	2	2	TypeV	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|492aa|down_3|CP020378.1_2809230_2810706_-	NA|188aa|up_9|CP020378.1_2797032_2797596_-	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_8|CP020378.1_2797788_2798286_-	cd15904, TSPO_MBR, Translocator protein (TSPO)/peripheral-type benzodiazepine receptor (MBR) family	NA|148aa|up_7|CP020378.1_2798396_2798840_-	pfam09424, YqeY, Yqey-like protein	NA|60aa|up_6|CP020378.1_2798869_2799049_-	PRK00270, rpsU, 30S ribosomal protein S21; Reviewed	NA|117aa|up_5|CP020378.1_2799211_2799562_-	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_4|CP020378.1_2799604_2800903_-	COG0621, MiaB, 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]	NA|91aa|up_3|CP020378.1_2800904_2801177_-	PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional	cas14j|370aa|up_2|CP020378.1_2801419_2802529_-	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|121aa|up_1|CP020378.1_2803178_2803541_-	PRK11713, PRK11713, 16S ribosomal RNA methyltransferase RsmE; Provisional	NA|316aa|up_0|CP020378.1_2803559_2804507_-	pfam06325, PrmA, Ribosomal protein L11 methyltransferase (PrmA)	cas3|803aa|down_0|CP020378.1_2804947_2807356_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|266aa|down_1|CP020378.1_2807382_2808180_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|339aa|down_2|CP020378.1_2808195_2809212_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	NA|492aa|down_3|CP020378.1_2809230_2810706_-	NA	cas6|246aa|down_4|CP020378.1_2810710_2811448_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	NA|370aa|down_5|CP020378.1_2811705_2812815_+	PRK11650, ugpC, sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC	NA|256aa|down_6|CP020378.1_2812844_2813612_+	pfam13556, HTH_30, PucR C-terminal helix-turn-helix domain	NA|458aa|down_7|CP020378.1_2813799_2815173_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|312aa|down_8|CP020378.1_2815208_2816144_-	COG1940, NagC, Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]	NA|385aa|down_9|CP020378.1_2817106_2818261_-	PRK10767, PRK10767, chaperone protein DnaJ; Provisional
GCA_003456975.1_ASM345697v1	CP020378	Clostridioides difficile strain DSM 102859 chromosome, complete genome	13	2885378-2885605	5,13,4	PILER-CR,CRISPRCasFinder,CRT	no		cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	GTTTTATATTAACTAAGTGGTATGTAAAT,ATTTACATACCACTTAGTTAATATAAAACA,ATTTACATACCACTTAGTTAATATAAAAC	29,30,29	0	0	NA	NA	I-A:I-A:I-A	3,3,3	3	Orphan	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA,NA|53aa|down_0|CP020378.1_2885897_2886056_-	NA|240aa|up_9|CP020378.1_2873665_2874385_-	pfam01841, Transglut_core, Transglutaminase-like superfamily	NA|238aa|up_8|CP020378.1_2874431_2875145_-	COG2169, Ada, Adenosine deaminase [Nucleotide transport and metabolism]	NA|451aa|up_7|CP020378.1_2875320_2876673_-	cd05298, GH4_GlvA_pagL_like, Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases	NA|517aa|up_6|CP020378.1_2876719_2878270_-	TIGR02005, PTS-IIBC-alpha, PTS system, alpha-glucoside-specific IIBC component	NA|272aa|up_5|CP020378.1_2878322_2879138_-	PRK09772, PRK09772, transcriptional antiterminator BglG; Provisional	NA|161aa|up_4|CP020378.1_2879158_2879641_-	pfam00358, PTS_EIIA_1, phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 1	NA|127aa|up_3|CP020378.1_2879924_2880305_-	TIGR00004, RutC_family_protein, reactive intermediate/imine deaminase	NA|406aa|up_2|CP020378.1_2880399_2881617_-	PRK08198, PRK08198, threonine dehydratase; Provisional	NA|543aa|up_1|CP020378.1_2882275_2883904_+	TIGR03801, For_A_Pyridoxal-5-_Phosphate, aspartate 4-decarboxylase	NA|332aa|up_0|CP020378.1_2884024_2885020_+	cd08964, L-asparaginase_II, Type II (periplasmic) bacterial L-asparaginase	NA|53aa|down_0|CP020378.1_2885897_2886056_-	NA	NA|807aa|down_1|CP020378.1_2886477_2888898_-	PRK00390, leuS, leucyl-tRNA synthetase; Validated	NA|117aa|down_2|CP020378.1_2889251_2889602_-	pfam02410, RsfS, Ribosomal silencing factor during starvation	NA|191aa|down_3|CP020378.1_2889718_2890291_-	COG1713, COG1713, Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]	NA|230aa|down_4|CP020378.1_2890291_2890981_-	PRK00071, nadD, nicotinate-nucleotide adenylyltransferase	NA|213aa|down_5|CP020378.1_2891256_2891895_+	PRK00117, recX, recombination regulator RecX; Reviewed	NA|668aa|down_6|CP020378.1_2892047_2894051_+	PLN02447, PLN02447, 1,4-alpha-glucan-branching enzyme	NA|104aa|down_7|CP020378.1_2894177_2894489_-	pfam03992, ABM, Antibiotic biosynthesis monooxygenase	NA|273aa|down_8|CP020378.1_2894566_2895385_-	pfam12833, HTH_18, Helix-turn-helix domain	NA|175aa|down_9|CP020378.1_2895484_2896009_-	pfam07155, ECF-ribofla_trS, ECF-type riboflavin transporter, S component
GCA_003456975.1_ASM345697v1	CP020378	Clostridioides difficile strain DSM 102859 chromosome, complete genome	14	3098442-3099388	14,5,6	CRISPRCasFinder,CRT,PILER-CR	no		cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	ATTTACATTCCATATAGTTAATCTAAAAC,ATTTACATTCCATATAGTTAATCTAAAAC,GTTTTAGATTAACTATATGGAATGTAAAT	29,29,29	0	0	NA	NA	I-A:I-A:I-A	14,14,12	14	Orphan	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|98aa|up_9|CP020378.1_3090442_3090736_-,NA|206aa|up_7|CP020378.1_3092449_3093067_-,NA|122aa|up_2|CP020378.1_3095803_3096169_-,NA|321aa|up_1|CP020378.1_3096161_3097124_-,NA|68aa|down_6|CP020378.1_3107846_3108050_-,NA|275aa|down_7|CP020378.1_3108062_3108887_-,NA|137aa|down_8|CP020378.1_3108888_3109299_-,NA|128aa|down_9|CP020378.1_3109311_3109695_-	NA|98aa|up_9|CP020378.1_3090442_3090736_-	NA	NA|561aa|up_8|CP020378.1_3090752_3092435_-	pfam12810, Gly_rich, Glycine rich protein	NA|206aa|up_7|CP020378.1_3092449_3093067_-	NA	NA|127aa|up_6|CP020378.1_3093078_3093459_-	pfam12571, DUF3751, Phage tail-collar fibre protein	NA|257aa|up_5|CP020378.1_3093459_3094230_-	pfam10076, DUF2313, Uncharacterized protein conserved in bacteria (DUF2313)	NA|379aa|up_4|CP020378.1_3094226_3095363_-	pfam04865, Baseplate_J, Baseplate J-like protein	NA|154aa|up_3|CP020378.1_3095367_3095829_-	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|122aa|up_2|CP020378.1_3095803_3096169_-	NA	NA|321aa|up_1|CP020378.1_3096161_3097124_-	NA	NA|224aa|up_0|CP020378.1_3097120_3097792_-	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|307aa|down_0|CP020378.1_3099643_3100564_-	pfam09851, SHOCT, Short C-terminal domain	NA|1089aa|down_1|CP020378.1_3100644_3103911_-	TIGR01760, COG5283:_Phage-related_tail_protein, phage tail tape measure protein, TP901 family, core region	NA|366aa|down_2|CP020378.1_3104158_3105256_-	TIGR01760, COG5283:_Phage-related_tail_protein, phage tail tape measure protein, TP901 family, core region	NA|158aa|down_3|CP020378.1_3105436_3105910_-	pfam08890, Phage_TAC_5, Phage XkdN-like tail assembly chaperone protein, TAC	NA|141aa|down_4|CP020378.1_3105986_3106409_-	pfam09393, DUF2001, Phage tail tube protein	NA|474aa|down_5|CP020378.1_3106423_3107845_-	pfam04984, Phage_sheath_1, Phage tail sheath protein subtilisin-like domain	NA|68aa|down_6|CP020378.1_3107846_3108050_-	NA	NA|275aa|down_7|CP020378.1_3108062_3108887_-	NA	NA|137aa|down_8|CP020378.1_3108888_3109299_-	NA	NA|128aa|down_9|CP020378.1_3109311_3109695_-	NA
GCA_003456975.1_ASM345697v1	CP020378	Clostridioides difficile strain DSM 102859 chromosome, complete genome	19	3453908-3456960	19,6,7,8	CRISPRCasFinder,CRT,PILER-CR,PILER-CR	no	cas2,cas1,cas4,cas3,cas5,cas7,cas8b2,cas6,WYL	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Unclear	ATTTACATACCACTTAGTTAATATAAAAC,ATTTACATACCACTTAGTTAATATAAAAC,GTTTTATATTAACTAAGTGGTATGTAAA,GTTTTATATTAACTAAGTGGTATGTAAAT	29,29,28,29	1	1	3456174-3456210	CP020378.1_1278668-1278704	I-A:I-A:I-A:I-A	46,46,41,41	46	Unclear	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|67aa|up_7|CP020378.1_3446788_3446989_+,NA|260aa|up_1|CP020378.1_3452174_3452954_+,NA	NA|221aa|up_9|CP020378.1_3440223_3440886_-	COG3382, COG3382, Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]	NA|885aa|up_8|CP020378.1_3443631_3446286_-	PRK13805, PRK13805, bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional	NA|67aa|up_7|CP020378.1_3446788_3446989_+	NA	NA|197aa|up_6|CP020378.1_3447195_3447786_-	PRK08305, spoVFB, dipicolinate synthase subunit B; Reviewed	NA|293aa|up_5|CP020378.1_3447788_3448667_-	PRK08306, PRK08306, dipicolinate synthase subunit DpsA	NA|464aa|up_4|CP020378.1_3448742_3450134_-	cd17633, AFD_YhfT-like, fatty acid-CoA ligase VraA	NA|379aa|up_3|CP020378.1_3450137_3451274_-	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|CP020378.1_3451305_3451851_-	pfam02632, BioY, BioY family	NA|260aa|up_1|CP020378.1_3452174_3452954_+	NA	NA|143aa|up_0|CP020378.1_3453418_3453847_-	PRK10562, PRK10562, putative acetyltransferase; Provisional	cas2|89aa|down_0|CP020378.1_3457143_3457410_-	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2	cas1|327aa|down_1|CP020378.1_3457412_3458393_-	TIGR03641, cas1_HMARI, CRISPR-associated endonuclease Cas1, subtype I-B/HMARI/TNEAP	cas4|190aa|down_2|CP020378.1_3458395_3458965_-	pfam01930, Cas_Cas4, Domain of unknown function DUF83	cas3|774aa|down_3|CP020378.1_3458961_3461283_-	TIGR01587, CRISPR-associated_endonuclease/helicase_Cas3, CRISPR-associated helicase Cas3	cas5|234aa|down_4|CP020378.1_3461293_3461995_-	cd09658, Cas5_I-B, CRISPR/Cas system-associated RAMP superfamily protein Cas5	cas7|305aa|down_5|CP020378.1_3461996_3462911_-	cd09687, Cas7_I-C, CRISPR/Cas system-associated RAMP superfamily protein Cas7	cas8b2|617aa|down_6|CP020378.1_3462912_3464763_-	pfam09706, Cas_CXXC_CXXC, CRISPR-associated protein (Cas_CXXC_CXXC)	cas6|246aa|down_7|CP020378.1_3464768_3465506_-	cd09652, Cas6-I-III, CRISPR/Cas system-associated RAMP superfamily protein Cas6	WYL|318aa|down_8|CP020378.1_3465583_3466537_-	pfam13280, WYL, WYL domain	NA|639aa|down_9|CP020378.1_3466779_3468696_-	pfam02687, FtsX, FtsX-like permease family
GCA_003456975.1_ASM345697v1	CP020378	Clostridioides difficile strain DSM 102859 chromosome, complete genome	20	3737432-3737527	20	CRISPRCasFinder	no		cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	TAAATTAATTTTCTATACTTCCTAAATTA	29	0	0	NA	NA	NA	1	1	Orphan	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|41aa|up_6|CP020378.1_3732383_3732506_-,NA|77aa|up_2|CP020378.1_3735514_3735745_-,NA|83aa|up_0|CP020378.1_3737012_3737261_+,NA	NA|338aa|up_9|CP020378.1_3729497_3730511_-	pfam12698, ABC2_membrane_3, ABC-2 family transporter protein	NA|343aa|up_8|CP020378.1_3730513_3731542_-	pfam12698, ABC2_membrane_3, ABC-2 family transporter protein	NA|282aa|up_7|CP020378.1_3731541_3732387_-	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]	NA|41aa|up_6|CP020378.1_3732383_3732506_-	NA	NA|377aa|up_5|CP020378.1_3732818_3733949_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|224aa|up_4|CP020378.1_3733945_3734617_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|217aa|up_3|CP020378.1_3734807_3735458_-	TIGR03592, yidC_oxa1_cterm, membrane protein insertase, YidC/Oxa1 family, C-terminal domain	NA|77aa|up_2|CP020378.1_3735514_3735745_-	NA	NA|198aa|up_1|CP020378.1_3736301_3736895_+	cd02136, PnbA_NfnB-like, nitroreductase similar to Mycobacterium smegmatis NfnB	NA|83aa|up_0|CP020378.1_3737012_3737261_+	NA	NA|468aa|down_0|CP020378.1_3737575_3738979_-	cd13143, MATE_MepA_like, Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA	NA|154aa|down_1|CP020378.1_3738962_3739424_-	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|172aa|down_2|CP020378.1_3739770_3740286_+	COG1695, COG1695, Predicted transcriptional regulators [Transcription]	NA|168aa|down_3|CP020378.1_3740334_3740838_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|217aa|down_4|CP020378.1_3740834_3741485_+	pfam02525, Flavodoxin_2, Flavodoxin-like fold	NA|260aa|down_5|CP020378.1_3741619_3742399_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|84aa|down_6|CP020378.1_3742515_3742767_-	pfam12636, DUF3781, Protein of unknown function (DUF3781)	NA|290aa|down_7|CP020378.1_3742960_3743830_-	COG2207, AraC, AraC-type DNA-binding domain-containing proteins [Transcription]	NA|254aa|down_8|CP020378.1_3744167_3744929_-	COG1125, OpuBA, ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]	NA|512aa|down_9|CP020378.1_3744944_3746480_-	cd13612, PBP2_ProWX, Substrate-binding protein ProWX of ABC-type osmoregulated transporter and its related proteins; the type 2 periplasmic-binding protein fold
GCA_003456975.1_ASM345697v1	CP020378	Clostridioides difficile strain DSM 102859 chromosome, complete genome	21	3824186-3824831	21,7,9	CRISPRCasFinder,CRT,PILER-CR	no		cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	Orphan	AATTTACATTCCATATAGTTAATATAAAAC,TTTACATTCCANATAGTTAATATAAAA,ATTTTATATTAACTAAGTGGTATGTAAA	30,27,28	1	1	3824281-3824315	CP020378.1_3101992-3101958	I-A:I-A:I-A	9,9,2	9	Orphan	cas14j,csa3,WYL,c2c9_V-U4,cas3,c2c10_CAS-V-U3,DEDDh,DinG,RT,cas14k,cas5,cas7,cas6,cas2,cas1,cas4,cas8b2	NA|122aa|up_6|CP020378.1_3819982_3820348_-,NA|321aa|up_5|CP020378.1_3820340_3821303_-,NA|53aa|up_3|CP020378.1_3822310_3822469_-,NA|68aa|up_2|CP020378.1_3822643_3822847_-,NA|59aa|up_0|CP020378.1_3823850_3824027_-,NA|53aa|down_0|CP020378.1_3825116_3825275_-	NA|257aa|up_9|CP020378.1_3817641_3818412_-	pfam10076, DUF2313, Uncharacterized protein conserved in bacteria (DUF2313)	NA|378aa|up_8|CP020378.1_3818408_3819542_-	pfam04865, Baseplate_J, Baseplate J-like protein	NA|154aa|up_7|CP020378.1_3819546_3820008_-	pfam10934, DUF2634, Protein of unknown function (DUF2634)	NA|122aa|up_6|CP020378.1_3819982_3820348_-	NA	NA|321aa|up_5|CP020378.1_3820340_3821303_-	NA	NA|224aa|up_4|CP020378.1_3821299_3821971_-	PRK11198, PRK11198, LysM domain/BON superfamily protein; Provisional	NA|53aa|up_3|CP020378.1_3822310_3822469_-	NA	NA|68aa|up_2|CP020378.1_3822643_3822847_-	NA	NA|273aa|up_1|CP020378.1_3822906_3823725_-	COG3617, COG3617, Prophage antirepressor [Transcription]	NA|59aa|up_0|CP020378.1_3823850_3824027_-	NA	NA|53aa|down_0|CP020378.1_3825116_3825275_-	NA	NA|134aa|down_1|CP020378.1_3825493_3825895_+	pfam15919, HicB_lk_antitox, HicB_like antitoxin of bacterial toxin-antitoxin system	NA|364aa|down_2|CP020378.1_3825963_3827055_+	cd01189, INT_ICEBs1_C_like, C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons	NA|227aa|down_3|CP020378.1_3827233_3827914_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|672aa|down_4|CP020378.1_3827963_3829979_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|226aa|down_5|CP020378.1_3830050_3830728_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|281aa|down_6|CP020378.1_3831622_3832465_-	cd13653, PBP2_phosphate_like_1, Substrate binding domain of putative ABC-type phosphate transporter, a member of the type 2 periplasmic binding fold superfamily	NA|595aa|down_7|CP020378.1_3832716_3834501_-	cd09608, M3B_PepF, Peptidase family M3B, oligopeptidase F (PepF)	NA|222aa|down_8|CP020378.1_3834566_3835232_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|68aa|down_9|CP020378.1_3835382_3835586_-	pfam09388, SpoOE-like, Spo0E like sporulation regulatory protein
