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
GCF_001650235.3_ASM165023v3	NZ_CP026328	Acidithiobacillus caldus strain MTH-04 chromosome, complete genome	1	1189022-1190311	1,1,1,2,2	PILER-CR,CRISPRCasFinder,CRT,PILER-CR,CRISPRCasFinder	no	cas6e	csa3,DEDDh,cas6e,PrimPol,cas3,DinG,Cas9_archaeal	Unclear	GAGTCGTCCCCGCGTGTGCGGGGGAAAACCC,GTCGTCCCCGCGTGCGCGGGGGAAAACC,GTCGTCCCCGCGNNGNGCGGGGGAAAACC,CCTGTCGTCCCCGCGTGTGCGGGGGAAAACCCATCA,GTCGTCCCCGCGTGCGCGGGGGAAAACC	31,28,29,36,28	0	0	NA	NA	I-C,I-E,II-B:I-C,I-E,II-B:NA:I-C,I-E,II-B:I-C,I-E,II-B	4,19,21,4,19	21	Unclear	csa3,DEDDh,cas6e,PrimPol,cas3,DinG,Cas9_archaeal,cas14j,RT	NA|72aa|up_9|NZ_CP026328.2_1179351_1179567_+,NA|79aa|up_7|NZ_CP026328.2_1180463_1180700_+,NA|276aa|up_5|NZ_CP026328.2_1181190_1182018_+,NA|228aa|up_2|NZ_CP026328.2_1187000_1187684_+,NA|261aa|up_1|NZ_CP026328.2_1187683_1188466_+,NA|156aa|down_1|NZ_CP026328.2_1192450_1192918_-,NA|67aa|down_4|NZ_CP026328.2_1196257_1196458_+	NA|72aa|up_9|NZ_CP026328.2_1179351_1179567_+	NA	NA|287aa|up_8|NZ_CP026328.2_1179582_1180443_+	PRK11657, dsbG, disulfide isomerase/thiol-disulfide oxidase; Provisional	NA|79aa|up_7|NZ_CP026328.2_1180463_1180700_+	NA	NA|75aa|up_6|NZ_CP026328.2_1180730_1180955_+	pfam14373, Imm_superinfect, Superinfection immunity protein	NA|276aa|up_5|NZ_CP026328.2_1181190_1182018_+	NA	NA|262aa|up_4|NZ_CP026328.2_1182821_1183607_-	COG1484, DnaC, DNA replication protein [DNA replication, recombination, and repair]	NA|508aa|up_3|NZ_CP026328.2_1183615_1185139_-	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|228aa|up_2|NZ_CP026328.2_1187000_1187684_+	NA	NA|261aa|up_1|NZ_CP026328.2_1187683_1188466_+	NA	cas6e|130aa|up_0|NZ_CP026328.2_1188528_1188918_+	cd09727, Cas6_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas6e	NA|325aa|down_0|NZ_CP026328.2_1190354_1191329_+	TIGR03115, cas7_csf2, CRISPR type IV/AFERR-associated protein Csf2	NA|156aa|down_1|NZ_CP026328.2_1192450_1192918_-	NA	NA|503aa|down_2|NZ_CP026328.2_1193124_1194633_+	pfam00580, UvrD-helicase, UvrD/REP helicase N-terminal domain	NA|194aa|down_3|NZ_CP026328.2_1194909_1195491_+	cd16892, LT_VirB1-like, VirB1-like subfamily	NA|67aa|down_4|NZ_CP026328.2_1196257_1196458_+	NA	NA|860aa|down_5|NZ_CP026328.2_1196555_1199135_-	PRK13880, PRK13880, conjugal transfer coupling protein TraG; Provisional	NA|76aa|down_6|NZ_CP026328.2_1199419_1199647_+	pfam08346, AntA, AntA/AntB antirepressor	NA|406aa|down_7|NZ_CP026328.2_1199609_1200827_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|135aa|down_8|NZ_CP026328.2_1200965_1201370_+	pfam13455, MUG113, Meiotically up-regulated gene 113	NA|431aa|down_9|NZ_CP026328.2_1202275_1203568_-	cd16393, SPO0J_N, Thermus thermophilus stage 0 sporulation protein J-like N-terminal domain, ParB family member
GCF_001650235.3_ASM165023v3	NZ_CP026328	Acidithiobacillus caldus strain MTH-04 chromosome, complete genome	2	1191370-1192432	3,3,2,4	PILER-CR,CRISPRCasFinder,CRT,CRISPRCasFinder	no	cas6e	csa3,DEDDh,cas6e,PrimPol,cas3,DinG,Cas9_archaeal	Unclear	GTCGTCCCCGCGTGCGCGGGGGAAAACC,GTCGTCCCCGCGTGCGCGGGGGAAAACC,GTCGTCCCCGCGTGCGCGGGGGAAAACCN,GTCGTCCCCGCGTGCGCGGGGGAAAACC	28,28,29,28	0	0	NA	NA	I-C,I-E,II-B:I-C,I-E,II-B:I-C,I-E,II-B:I-C,I-E,II-B	8,15,17,15	17	Unclear	csa3,DEDDh,cas6e,PrimPol,cas3,DinG,Cas9_archaeal,cas14j,RT	NA|79aa|up_8|NZ_CP026328.2_1180463_1180700_+,NA|276aa|up_6|NZ_CP026328.2_1181190_1182018_+,NA|228aa|up_3|NZ_CP026328.2_1187000_1187684_+,NA|261aa|up_2|NZ_CP026328.2_1187683_1188466_+,NA|156aa|down_0|NZ_CP026328.2_1192450_1192918_-,NA|67aa|down_3|NZ_CP026328.2_1196257_1196458_+	NA|287aa|up_9|NZ_CP026328.2_1179582_1180443_+	PRK11657, dsbG, disulfide isomerase/thiol-disulfide oxidase; Provisional	NA|79aa|up_8|NZ_CP026328.2_1180463_1180700_+	NA	NA|75aa|up_7|NZ_CP026328.2_1180730_1180955_+	pfam14373, Imm_superinfect, Superinfection immunity protein	NA|276aa|up_6|NZ_CP026328.2_1181190_1182018_+	NA	NA|262aa|up_5|NZ_CP026328.2_1182821_1183607_-	COG1484, DnaC, DNA replication protein [DNA replication, recombination, and repair]	NA|508aa|up_4|NZ_CP026328.2_1183615_1185139_-	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|228aa|up_3|NZ_CP026328.2_1187000_1187684_+	NA	NA|261aa|up_2|NZ_CP026328.2_1187683_1188466_+	NA	cas6e|130aa|up_1|NZ_CP026328.2_1188528_1188918_+	cd09727, Cas6_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas6e	NA|325aa|up_0|NZ_CP026328.2_1190354_1191329_+	TIGR03115, cas7_csf2, CRISPR type IV/AFERR-associated protein Csf2	NA|156aa|down_0|NZ_CP026328.2_1192450_1192918_-	NA	NA|503aa|down_1|NZ_CP026328.2_1193124_1194633_+	pfam00580, UvrD-helicase, UvrD/REP helicase N-terminal domain	NA|194aa|down_2|NZ_CP026328.2_1194909_1195491_+	cd16892, LT_VirB1-like, VirB1-like subfamily	NA|67aa|down_3|NZ_CP026328.2_1196257_1196458_+	NA	NA|860aa|down_4|NZ_CP026328.2_1196555_1199135_-	PRK13880, PRK13880, conjugal transfer coupling protein TraG; Provisional	NA|76aa|down_5|NZ_CP026328.2_1199419_1199647_+	pfam08346, AntA, AntA/AntB antirepressor	NA|406aa|down_6|NZ_CP026328.2_1199609_1200827_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|135aa|down_7|NZ_CP026328.2_1200965_1201370_+	pfam13455, MUG113, Meiotically up-regulated gene 113	NA|431aa|down_8|NZ_CP026328.2_1202275_1203568_-	cd16393, SPO0J_N, Thermus thermophilus stage 0 sporulation protein J-like N-terminal domain, ParB family member	NA|365aa|down_9|NZ_CP026328.2_1203564_1204659_-	COG1192, Soj, ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]
GCF_001650235.3_ASM165023v3	NZ_CP026328	Acidithiobacillus caldus strain MTH-04 chromosome, complete genome	3	1226527-1226628	5	CRISPRCasFinder	no		csa3,DEDDh,cas6e,PrimPol,cas3,DinG,Cas9_archaeal	Orphan	CGGCGGGCTGCGCCCCGCAGGGG	23	0	0	NA	NA	NA	1	1	Orphan	csa3,DEDDh,cas6e,PrimPol,cas3,DinG,Cas9_archaeal,cas14j,RT	NA|112aa|up_9|NZ_CP026328.2_1217899_1218235_-,NA|62aa|up_8|NZ_CP026328.2_1218424_1218610_-,NA|164aa|up_6|NZ_CP026328.2_1220022_1220514_-,NA|87aa|up_5|NZ_CP026328.2_1220535_1220796_-,NA|338aa|up_2|NZ_CP026328.2_1224095_1225109_-,NA|151aa|up_1|NZ_CP026328.2_1225305_1225758_-,NA|115aa|up_0|NZ_CP026328.2_1225895_1226240_-,NA|278aa|down_0|NZ_CP026328.2_1226688_1227522_-,NA|131aa|down_5|NZ_CP026328.2_1232772_1233165_-,NA|102aa|down_6|NZ_CP026328.2_1233639_1233945_-,NA|571aa|down_8|NZ_CP026328.2_1238229_1239942_+	NA|112aa|up_9|NZ_CP026328.2_1217899_1218235_-	NA	NA|62aa|up_8|NZ_CP026328.2_1218424_1218610_-	NA	NA|405aa|up_7|NZ_CP026328.2_1218760_1219975_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|164aa|up_6|NZ_CP026328.2_1220022_1220514_-	NA	NA|87aa|up_5|NZ_CP026328.2_1220535_1220796_-	NA	NA|653aa|up_4|NZ_CP026328.2_1220875_1222834_-	TIGR02783, probable_conjugal_transfer_protein_TrbL, P-type conjugative transfer protein TrbL	NA|260aa|up_3|NZ_CP026328.2_1222843_1223623_-	TIGR02780, TrbJ_protein, P-type conjugative transfer protein TrbJ	NA|338aa|up_2|NZ_CP026328.2_1224095_1225109_-	NA	NA|151aa|up_1|NZ_CP026328.2_1225305_1225758_-	NA	NA|115aa|up_0|NZ_CP026328.2_1225895_1226240_-	NA	NA|278aa|down_0|NZ_CP026328.2_1226688_1227522_-	NA	NA|134aa|down_1|NZ_CP026328.2_1227957_1228359_-	pfam15919, HicB_lk_antitox, HicB_like antitoxin of bacterial toxin-antitoxin system	NA|65aa|down_2|NZ_CP026328.2_1228355_1228550_-	pfam07927, HicA_toxin, HicA toxin of bacterial toxin-antitoxin,	NA|1168aa|down_3|NZ_CP026328.2_1228876_1232380_-	PRK13873, PRK13873, conjugal transfer ATPase TrbE; Provisional	NA|124aa|down_4|NZ_CP026328.2_1232382_1232754_-	PRK13823, PRK13823, conjugal transfer protein TrbD; Provisional	NA|131aa|down_5|NZ_CP026328.2_1232772_1233165_-	NA	NA|102aa|down_6|NZ_CP026328.2_1233639_1233945_-	NA	NA|405aa|down_7|NZ_CP026328.2_1234241_1235456_+	pfam01610, DDE_Tnp_ISL3, Transposase	NA|571aa|down_8|NZ_CP026328.2_1238229_1239942_+	NA	NA|521aa|down_9|NZ_CP026328.2_1239950_1241513_-	pfam04917, Shufflon_N, Bacterial shufflon protein, N-terminal constant region
GCF_001650235.3_ASM165023v3	NZ_CP026328	Acidithiobacillus caldus strain MTH-04 chromosome, complete genome	4	1269637-1269734	6	CRISPRCasFinder	no		csa3,DEDDh,cas6e,PrimPol,cas3,DinG,Cas9_archaeal	Orphan	CTGGCTAGAGTCTGGCTAGAGTTT	24	0	0	NA	NA	NA	1	1	Orphan	csa3,DEDDh,cas6e,PrimPol,cas3,DinG,Cas9_archaeal,cas14j,RT	NA|175aa|up_9|NZ_CP026328.2_1261718_1262243_-,NA|173aa|up_8|NZ_CP026328.2_1262275_1262794_-,NA|60aa|down_1|NZ_CP026328.2_1271966_1272146_-,NA|151aa|down_3|NZ_CP026328.2_1275753_1276206_-,NA|75aa|down_5|NZ_CP026328.2_1276762_1276987_-,NA|80aa|down_7|NZ_CP026328.2_1277596_1277836_-	NA|175aa|up_9|NZ_CP026328.2_1261718_1262243_-	NA	NA|173aa|up_8|NZ_CP026328.2_1262275_1262794_-	NA	NA|139aa|up_7|NZ_CP026328.2_1263162_1263579_-	pfam10577, UPF0560, Uncharacterized protein family UPF0560	NA|405aa|up_6|NZ_CP026328.2_1263696_1264911_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|104aa|up_5|NZ_CP026328.2_1265037_1265349_-	PRK05286, PRK05286, quinone-dependent dihydroorotate dehydrogenase	NA|178aa|up_4|NZ_CP026328.2_1265463_1265997_-	cd10030, UDG-F4_TTUDGA_SPO1dp_like, Uracil DNA glycosylase family 4, includes Thermotoga maritima TTUDGA, Bacillus phage SPO1 DNA polymerase, and similar proteins	NA|169aa|up_3|NZ_CP026328.2_1266462_1266969_-	PRK06863, PRK06863, single-stranded DNA-binding protein; Provisional	NA|115aa|up_2|NZ_CP026328.2_1267014_1267359_-	TIGR02419, kDa_protein_in_gpA_5'region, phage/conjugal plasmid C-4 type zinc finger protein, TraR family	NA|256aa|up_1|NZ_CP026328.2_1267581_1268349_-	cd07404, MPP_MS158, Microscilla MS158 and related proteins, metallophosphatase domain	NA|314aa|up_0|NZ_CP026328.2_1268350_1269292_-	cd09128, PLDc_unchar1_2, Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins	NA|405aa|down_0|NZ_CP026328.2_1270505_1271720_+	pfam01610, DDE_Tnp_ISL3, Transposase	NA|60aa|down_1|NZ_CP026328.2_1271966_1272146_-	NA	NA|1053aa|down_2|NZ_CP026328.2_1272598_1275757_-	COG0610, COG0610, Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]	NA|151aa|down_3|NZ_CP026328.2_1275753_1276206_-	NA	NA|182aa|down_4|NZ_CP026328.2_1276202_1276748_-	TIGR03830, transcriptional_regulator_XRE_family, putative zinc finger/helix-turn-helix protein, YgiT family	NA|75aa|down_5|NZ_CP026328.2_1276762_1276987_-	NA	NA|88aa|down_6|NZ_CP026328.2_1277274_1277538_-	pfam02604, PhdYeFM_antitox, Antitoxin Phd_YefM, type II toxin-antitoxin system	NA|80aa|down_7|NZ_CP026328.2_1277596_1277836_-	NA	NA|262aa|down_8|NZ_CP026328.2_1277832_1278618_-	COG1484, DnaC, DNA replication protein [DNA replication, recombination, and repair]	NA|508aa|down_9|NZ_CP026328.2_1278626_1280150_-	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair]
GCF_001650235.3_ASM165023v3	NZ_CP026328	Acidithiobacillus caldus strain MTH-04 chromosome, complete genome	5	1920309-1920465	7	CRISPRCasFinder	no	cas3	csa3,DEDDh,cas6e,PrimPol,cas3,DinG,Cas9_archaeal	Unclear	GAACTAGAGCCAGAACTAGAGCCAG	25	0	0	NA	NA	NA	2	2	Unclear	csa3,DEDDh,cas6e,PrimPol,cas3,DinG,Cas9_archaeal,cas14j,RT	NA|63aa|up_3|NZ_CP026328.2_1915482_1915671_+,NA|135aa|down_3|NZ_CP026328.2_1923053_1923458_-,NA|242aa|down_6|NZ_CP026328.2_1925592_1926318_+	NA|508aa|up_9|NZ_CP026328.2_1906214_1907738_+	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|262aa|up_8|NZ_CP026328.2_1907746_1908532_+	COG1484, DnaC, DNA replication protein [DNA replication, recombination, and repair]	NA|461aa|up_7|NZ_CP026328.2_1908891_1910274_-	TIGR01845, Outer_membrane_protein_OprM, efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family	NA|522aa|up_6|NZ_CP026328.2_1910312_1911878_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|405aa|up_5|NZ_CP026328.2_1912311_1913526_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|227aa|up_4|NZ_CP026328.2_1913489_1914170_+	cd05466, PBP2_LTTR_substrate, The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily	NA|63aa|up_3|NZ_CP026328.2_1915482_1915671_+	NA	NA|168aa|up_2|NZ_CP026328.2_1915754_1916258_-	cd01741, GATase1_1, Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain	NA|405aa|up_1|NZ_CP026328.2_1916372_1917587_+	pfam01610, DDE_Tnp_ISL3, Transposase	NA|405aa|up_0|NZ_CP026328.2_1918315_1919530_+	pfam01610, DDE_Tnp_ISL3, Transposase	NA|257aa|down_0|NZ_CP026328.2_1920665_1921436_-	cd16279, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo	NA|272aa|down_1|NZ_CP026328.2_1921432_1922248_-	COG0084, TatD, Mg-dependent DNase [DNA replication, recombination, and repair]	NA|251aa|down_2|NZ_CP026328.2_1922249_1923002_-	PRK11181, PRK11181, 23S rRNA (guanosine(2251)-2'-O)-methyltransferase RlmB	NA|135aa|down_3|NZ_CP026328.2_1923053_1923458_-	NA	NA|344aa|down_4|NZ_CP026328.2_1923508_1924540_-	COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]	NA|299aa|down_5|NZ_CP026328.2_1924566_1925463_-	COG0613, COG0613, Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]	NA|242aa|down_6|NZ_CP026328.2_1925592_1926318_+	NA	NA|373aa|down_7|NZ_CP026328.2_1926330_1927449_+	COG0628, yhhT, Predicted permease, member of the PurR regulon [General function prediction only]	NA|455aa|down_8|NZ_CP026328.2_1927430_1928795_+	PLN02576, PLN02576, protoporphyrinogen oxidase	NA|277aa|down_9|NZ_CP026328.2_1928834_1929665_-	cd16913, YkuD_like, L,D-transpeptidases/carboxypeptidases similar to Bacillus YkuD
