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_000224435.1_ASM22443v1	NC_017524	Mycobacterium tuberculosis CTRI-2, complete sequence	1	333399-334197	1	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGGNGCCGCCGGNN	18	0	0	NA	NA	NA	15	15	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA	NA|86aa|up_9|NC_017524.1_322518_322776_-	COG2161, StbD, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|398aa|up_8|NC_017524.1_323092_324286_-	COG3285, COG3285, Predicted eukaryotic-type DNA primase [DNA replication, recombination, and repair]	NA|561aa|up_7|NC_017524.1_324321_326004_+	PRK07788, PRK07788, acyl-CoA synthetase; Validated	NA|732aa|up_6|NC_017524.1_326020_328216_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_5|NC_017524.1_328329_329463_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_4|NC_017524.1_329459_330080_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_3|NC_017524.1_330176_330758_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_2|NC_017524.1_330687_331413_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_1|NC_017524.1_331502_332423_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_0|NC_017524.1_332462_332891_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|900aa|down_0|NC_017524.1_336189_338889_-	pfam00934, PE, PE family	NA|838aa|down_1|NC_017524.1_339138_341652_-	pfam00934, PE, PE family	NA|537aa|down_2|NC_017524.1_341942_343553_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_3|NC_017524.1_343576_344485_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|614aa|down_4|NC_017524.1_344762_346604_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_5|NC_017524.1_346600_348217_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_6|NC_017524.1_348213_352206_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_7|NC_017524.1_352202_352511_+	pfam00934, PE, PE family	NA|514aa|down_8|NC_017524.1_352513_354055_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_9|NC_017524.1_354103_354397_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target
GCF_000224435.1_ASM22443v1	NC_017524	Mycobacterium tuberculosis CTRI-2, complete sequence	2	368796-369494	1	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	TTCGCGAAGCCGATGTTGTAGCTGCCGGTGTTG	33	2	2	369084-369125|369159-369191	NC_017524.1_377130-377171|NC_017524.1_375945-375977	NA	10	10	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|101aa|up_4|NC_017524.1_365808_366111_+,NA|161aa|down_1|NC_017524.1_378919_379402_-,NA|410aa|down_5|NC_017524.1_381518_382748_+	NA|262aa|up_9|NC_017524.1_360749_361535_+	PRK14103, PRK14103, trans-aconitate 2-methyltransferase; Provisional	NA|268aa|up_8|NC_017524.1_361523_362327_-	COG4424, COG4424, Uncharacterized protein conserved in bacteria [Function unknown]	NA|466aa|up_7|NC_017524.1_362336_363734_-	cd16027, SGSH, N-sulfoglucosamine sulfohydrolase (SGSH; sulfamidase)	NA|510aa|up_6|NC_017524.1_363912_365442_+	pfam00934, PE, PE family	NA|76aa|up_5|NC_017524.1_365584_365812_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|101aa|up_4|NC_017524.1_365808_366111_+	NA	NA|74aa|up_3|NC_017524.1_366158_366380_+	PHA01748, PHA01748, hypothetical protein	NA|142aa|up_2|NC_017524.1_366376_366802_+	cd18755, PIN_MtVapC3_VapC21-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC3, VapC21 and related proteins	NA|211aa|up_1|NC_017524.1_366937_367570_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|303aa|up_0|NC_017524.1_367566_368475_+	cd09810, LPOR_like_SDR_c_like, light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs	NA|224aa|down_0|NC_017524.1_378260_378932_+	TIGR02476, BluB, 5,6-dimethylbenzimidazole synthase	NA|161aa|down_1|NC_017524.1_378919_379402_-	NA	NA|239aa|down_2|NC_017524.1_379459_380176_+	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|219aa|down_3|NC_017524.1_380277_380934_+	COG3786, COG3786, Uncharacterized protein conserved in bacteria [Function unknown]	NA|164aa|down_4|NC_017524.1_381003_381495_-	pfam13577, SnoaL_4, SnoaL-like domain	NA|410aa|down_5|NC_017524.1_381518_382748_+	NA	NA|621aa|down_6|NC_017524.1_382902_384765_+	COG0443, DnaK, Molecular chaperone [Posttranslational modification, protein turnover, chaperones]	NA|129aa|down_7|NC_017524.1_384836_385223_+	COG0326, HtpG, Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]	NA|212aa|down_8|NC_017524.1_385225_385861_-	pfam11259, DUF3060, Protein of unknown function (DUF3060)	NA|295aa|down_9|NC_017524.1_385948_386833_+	COG2273, SKN1, Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]
GCF_000224435.1_ASM22443v1	NC_017524	Mycobacterium tuberculosis CTRI-2, complete sequence	3	630946-631083	2	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGACCACGCCGGTG	18	2	3	630964-630981|630964-630981|631048-631065	NC_017524.1_22466-22483|NC_017524.1_1412430-1412447|NC_017524.1_973656-973673	NA	3	3	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|54aa|up_7|NC_017524.1_621700_621862_-,NA|478aa|up_0|NC_017524.1_627961_629395_-,NA|450aa|down_2|NC_017524.1_632718_634068_-,NA|93aa|down_5|NC_017524.1_635598_635877_-	NA|325aa|up_9|NC_017524.1_619470_620445_+	TIGR03144, cytochrome_c_biogenesis_protein_chloroplast, cytochrome c-type biogenesis protein CcsB	NA|406aa|up_8|NC_017524.1_620486_621704_+	COG0455, flhG, Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]	NA|54aa|up_7|NC_017524.1_621700_621862_-	NA	NA|106aa|up_6|NC_017524.1_621908_622226_+	pfam14012, DUF4229, Protein of unknown function (DUF4229)	NA|623aa|up_5|NC_017524.1_622372_624241_+	pfam00934, PE, PE family	NA|336aa|up_4|NC_017524.1_624136_625144_-	TIGR00747, 3-oxoacyl-_synthase_3, 3-oxoacyl-(acyl-carrier-protein) synthase III	NA|293aa|up_3|NC_017524.1_625225_626104_-	TIGR00751, 14-dihydroxy-2-naphthoate_octaprenyltransferase, 1,4-dihydroxy-2-naphthoate octaprenyltransferase	NA|265aa|up_2|NC_017524.1_626120_626915_+	PRK07823, PRK07823, S-methyl-5'-thioadenosine phosphorylase	NA|347aa|up_1|NC_017524.1_626911_627952_+	cd05256, UDP_AE_SDR_e, UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs	NA|478aa|up_0|NC_017524.1_627961_629395_-	NA	NA|219aa|down_0|NC_017524.1_631382_632039_+	cd04179, DPM_DPG-synthase_like, DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily	NA|221aa|down_1|NC_017524.1_632035_632698_+	COG3222, COG3222, Uncharacterized protein conserved in bacteria [Function unknown]	NA|450aa|down_2|NC_017524.1_632718_634068_-	NA	NA|381aa|down_3|NC_017524.1_634079_635222_-	PRK07824, PRK07824, o-succinylbenzoate--CoA ligase	NA|101aa|down_4|NC_017524.1_635236_635539_-	pfam11829, DUF3349, Protein of unknown function (DUF3349)	NA|93aa|down_5|NC_017524.1_635598_635877_-	NA	NA|418aa|down_6|NC_017524.1_635873_637127_-	COG0306, PitA, Phosphate/sulphate permeases [Inorganic ion transport and metabolism]	NA|129aa|down_7|NC_017524.1_637246_637633_-	cd07264, VOC_like, uncharacterized subfamily of vicinal oxygen chelate (VOC) family	NA|295aa|down_8|NC_017524.1_637695_638580_-	PRK05866, PRK05866, SDR family oxidoreductase	NA|301aa|down_9|NC_017524.1_638675_639578_-	PRK08321, PRK08321, 1,4-dihydroxy-2-naphthoyl-CoA synthase
GCF_000224435.1_ASM22443v1	NC_017524	Mycobacterium tuberculosis CTRI-2, complete sequence	4	691680-691756	2	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	TGAGGTGCGGCGTGAGCGCGGGT	23	0	0	NA	NA	NA	1	1	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA	NA|72aa|up_9|NC_017524.1_677364_677580_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|136aa|up_8|NC_017524.1_677576_677984_+	cd18696, PIN_MtVapC26-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC26 and related proteins	NA|229aa|up_7|NC_017524.1_678043_678730_-	pfam10738, Lpp-LpqN, Probable lipoprotein LpqN	NA|878aa|up_6|NC_017524.1_678883_681517_+	COG3537, COG3537, Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]	NA|796aa|up_5|NC_017524.1_681539_683927_-	pfam03706, LPG_synthase_TM, Lysylphosphatidylglycerol synthase TM region	NA|241aa|up_4|NC_017524.1_684064_684787_+	COG2186, FadR, Transcriptional regulators [Transcription]	NA|266aa|up_3|NC_017524.1_684783_685581_+	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|296aa|up_2|NC_017524.1_685582_686470_+	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|405aa|up_1|NC_017524.1_686475_687690_+	pfam11887, Mce4_CUP1, Cholesterol uptake porter CUP1 of Mce4, putative	NA|482aa|up_0|NC_017524.1_688713_690159_+	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|517aa|down_0|NC_017524.1_692891_694442_+	COG1463, Ttg2C, ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|131aa|down_1|NC_017524.1_694493_694886_-	cd18768, PIN_MtVapC4-C5-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins	NA|86aa|down_2|NC_017524.1_694882_695140_-	COG4118, Phd, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|412aa|down_3|NC_017524.1_695322_696558_-	COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General function prediction only]	NA|138aa|down_4|NC_017524.1_696808_697222_-	cd18681, PIN_MtVapC27-VapC40_like, VapC-like PIN domain of Mycobacterium tuberculosis VapC27, and VapC40, and related proteins	NA|79aa|down_5|NC_017524.1_697218_697455_-	COG2002, AbrB, Regulators of stationary/sporulation gene expression [Transcription]	NA|169aa|down_6|NC_017524.1_697558_698065_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|177aa|down_7|NC_017524.1_698178_698709_-	PRK10755, PRK10755, two-component system sensor histidine kinase PmrB	NA|254aa|down_8|NC_017524.1_698692_699454_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|104aa|down_9|NC_017524.1_699510_699822_+	pfam03413, PepSY, Peptidase propeptide and YPEB domain
GCF_000224435.1_ASM22443v1	NC_017524	Mycobacterium tuberculosis CTRI-2, complete sequence	5	925745-926248	3	CRT	no	csa3	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type I-A	CGGGGCCGGNGGGGCCGG	18	0	0	NA	NA	NA	10	10	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA|184aa|down_2|NC_017524.1_930573_931125_-	NA|685aa|up_9|NC_017524.1_913381_915436_-	TIGR00350, Transcriptional_regulator_LytR, cell envelope-related function transcriptional attenuator common domain	NA|390aa|up_8|NC_017524.1_915601_916771_-	TIGR00737, Probable_tRNA-dihydrouridine_synthase, putative TIM-barrel protein, nifR3 family	NA|339aa|up_7|NC_017524.1_916858_917875_-	cd01050, Acyl_ACP_Desat, Acyl ACP desaturase, ferritin-like diiron-binding domain	NA|214aa|up_6|NC_017524.1_918036_918678_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|352aa|up_5|NC_017524.1_918758_919814_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	csa3|131aa|up_4|NC_017524.1_919865_920258_-	smart00418, HTH_ARSR, helix_turn_helix, Arsenical Resistance Operon Repressor	NA|141aa|up_3|NC_017524.1_920315_920738_-	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|302aa|up_2|NC_017524.1_921094_922000_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|272aa|up_1|NC_017524.1_922018_922834_-	TIGR04255, hypothetical_protein, TIGR04255 family protein	NA|138aa|up_0|NC_017524.1_924075_924489_+	pfam00934, PE, PE family	NA|883aa|down_0|NC_017524.1_926832_929481_-	pfam00934, PE, PE family	NA|215aa|down_1|NC_017524.1_929948_930593_+	pfam14032, PknH_C, PknH-like extracellular domain	NA|184aa|down_2|NC_017524.1_930573_931125_-	NA	NA|421aa|down_3|NC_017524.1_931242_932504_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|218aa|down_4|NC_017524.1_932632_933286_-	COG4849, COG4849, Predicted nucleotidyltransferase [General function prediction    only]	NA|343aa|down_5|NC_017524.1_933356_934385_-	COG4861, COG4861, Uncharacterized protein conserved in bacteria [Function unknown]	NA|257aa|down_6|NC_017524.1_935073_935844_+	pfam01427, Peptidase_M15, D-ala-D-ala dipeptidase	NA|271aa|down_7|NC_017524.1_935930_936743_+	pfam13847, Methyltransf_31, Methyltransferase domain	NA|287aa|down_8|NC_017524.1_936810_937671_-	TIGR01250, Proline_iminopeptidase, proline-specific peptidase, Bacillus coagulans-type subfamily	NA|431aa|down_9|NC_017524.1_938465_939758_+	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily
GCF_000224435.1_ASM22443v1	NC_017524	Mycobacterium tuberculosis CTRI-2, complete sequence	6	964988-965239	1	PILER-CR	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CGGGTGGTGCCAGGTCGGCGGGCGCGGGTGGCGCCAGTTCGGCGGGCGCGGGTGGCGCCAGGT	63	1	1	965161-965216	NC_017524.1_965289-965344	NA	2	2	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|67aa|up_3|NC_017524.1_963086_963287_+,NA	NA|151aa|up_9|NC_017524.1_953631_954084_+	cd07819, SRPBCC_2, Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins	NA|398aa|up_8|NC_017524.1_954080_955274_-	PRK07777, PRK07777, putative succinyldiaminopimelate transaminase DapC	NA|404aa|up_7|NC_017524.1_955430_956642_+	PRK08242, PRK08242, acetyl-CoA C-acetyltransferase	NA|721aa|up_6|NC_017524.1_956646_958809_+	PRK11730, fadB, fatty acid oxidation complex subunit alpha FadB	NA|550aa|up_5|NC_017524.1_958876_960526_-	COG1061, SSL2, DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]	NA|757aa|up_4|NC_017524.1_960748_963019_-	pfam13625, Helicase_C_3, Helicase conserved C-terminal domain	NA|67aa|up_3|NC_017524.1_963086_963287_+	NA	NA|168aa|up_2|NC_017524.1_963296_963800_+	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|161aa|up_1|NC_017524.1_963796_964279_+	cd00886, MogA_MoaB, MogA_MoaB family	NA|142aa|up_0|NC_017524.1_964275_964701_+	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|93aa|down_0|NC_017524.1_966389_966668_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|361aa|down_1|NC_017524.1_966671_967754_-	PRK00164, moaA, GTP 3',8-cyclase MoaA	NA|130aa|down_2|NC_017524.1_967750_968140_-	PRK11770, PRK11770, YccF domain-containing protein	NA|136aa|down_3|NC_017524.1_968304_968712_+	COG1278, CspC, Cold shock proteins [Transcription]	NA|610aa|down_4|NC_017524.1_968830_970660_-	pfam00934, PE, PE family	NA|651aa|down_5|NC_017524.1_970920_972873_+	cd01161, VLCAD, Very long chain acyl-CoA dehydrogenase	NA|387aa|down_6|NC_017524.1_972961_974122_-	COG4398, COG4398, Uncharacterized protein conserved in bacteria [Function unknown]	NA|163aa|down_7|NC_017524.1_974221_974710_-	pfam10969, DUF2771, Protein of unknown function (DUF2771)	NA|549aa|down_8|NC_017524.1_974706_976353_-	cd06173, MFS_MefA_like, Macrolide efflux protein A and similar proteins of the Major Facilitator Superfamily of transporters	NA|263aa|down_9|NC_017524.1_976490_977279_+	pfam11228, DUF3027, Protein of unknown function (DUF3027)
GCF_000224435.1_ASM22443v1	NC_017524	Mycobacterium tuberculosis CTRI-2, complete sequence	7	1191744-1191852	3	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GACAGCCAGCCGGCTGACCCGCCGT	25	0	0	NA	NA	NA	1	1	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA	NA|544aa|up_9|NC_017524.1_1181111_1182743_+	cd12119, ttLC_FACS_AlkK_like, Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles	NA|355aa|up_8|NC_017524.1_1182818_1183883_+	COG3804, COG3804, Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]	NA|158aa|up_7|NC_017524.1_1183935_1184409_+	cd07821, PYR_PYL_RCAR_like, Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins	NA|288aa|up_6|NC_017524.1_1184442_1185306_+	cd01908, YafJ, Glutamine amidotransferases class-II (Gn-AT)_YafJ-type	NA|286aa|up_5|NC_017524.1_1185310_1186168_+	COG1752, RssA, Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]	NA|361aa|up_4|NC_017524.1_1186168_1187251_-	cd07228, Pat_NTE_like_bacteria, Bacterial patatin-like phospholipase domain containing protein 6	NA|140aa|up_3|NC_017524.1_1187331_1187751_-	pfam17301, LpqV, Putative lipoprotein LpqV	NA|189aa|up_2|NC_017524.1_1187862_1188429_+	cd10548, cupin_CDO, cysteine dioxygenase, cupin domain	NA|132aa|up_1|NC_017524.1_1188425_1188821_+	cd01447, Polysulfide_ST, Polysulfide-sulfurtransferase - Rhodanese Homology Domain	NA|668aa|up_0|NC_017524.1_1188848_1190852_-	pfam00934, PE, PE family	NA|588aa|down_0|NC_017524.1_1192937_1194701_-	COG4425, COG4425, Predicted membrane protein [Function unknown]	NA|258aa|down_1|NC_017524.1_1194697_1195471_-	PRK05862, PRK05862, enoyl-CoA hydratase; Provisional	NA|346aa|down_2|NC_017524.1_1195482_1196520_-	PRK05617, PRK05617, 3-hydroxyisobutyryl-CoA hydrolase; Provisional	NA|279aa|down_3|NC_017524.1_1196706_1197543_+	COG4760, COG4760, Predicted membrane protein [Function unknown]	NA|284aa|down_4|NC_017524.1_1197658_1198510_+	pfam18741, MTES_1575, REase_MTES_1575	NA|406aa|down_5|NC_017524.1_1198583_1199801_-	PRK07851, PRK07851, acetyl-CoA C-acetyltransferase	NA|315aa|down_6|NC_017524.1_1199853_1200798_-	cd01836, FeeA_FeeB_like, SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases	NA|298aa|down_7|NC_017524.1_1201194_1202088_+	COG0657, Aes, Esterase/lipase [Lipid metabolism]	NA|465aa|down_8|NC_017524.1_1202144_1203539_+	TIGR01137, Cystathionine_beta-synthase, cystathionine beta-synthase	NA|241aa|down_9|NC_017524.1_1203740_1204463_+	pfam06271, RDD, RDD family
GCF_000224435.1_ASM22443v1	NC_017524	Mycobacterium tuberculosis CTRI-2, complete sequence	8	1571126-1572198	4	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGTTGCCGCCGGCACCGCCGTCGCCGAT	32	1	1	1571326-1571347	NC_017524.1_1212491-1212470	NA	15	15	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|106aa|up_7|NC_017524.1_1562889_1563207_+,NA	NA|103aa|up_9|NC_017524.1_1560404_1560713_+	pfam00934, PE, PE family	NA|540aa|up_8|NC_017524.1_1560709_1562329_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|106aa|up_7|NC_017524.1_1562889_1563207_+	NA	NA|209aa|up_6|NC_017524.1_1563341_1563968_+	PRK00300, gmk, guanylate kinase; Provisional	NA|111aa|up_5|NC_017524.1_1564033_1564366_+	TIGR00690, DNA-directed_RNA_polymerase_subunit_omega, DNA-directed RNA polymerase, omega subunit	NA|419aa|up_4|NC_017524.1_1564381_1565638_+	PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated	NA|404aa|up_3|NC_017524.1_1565765_1566977_+	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|493aa|up_2|NC_017524.1_1567049_1568528_-	COG2072, TrkA, Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]	NA|462aa|up_1|NC_017524.1_1568524_1569910_-	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|345aa|up_0|NC_017524.1_1569987_1571022_+	smart00342, HTH_ARAC, helix_turn_helix, arabinose operon control protein	NA|134aa|down_0|NC_017524.1_1573052_1573454_-	cd18741, PIN_VapC4-5_FitB-like, uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily	NA|86aa|down_1|NC_017524.1_1573450_1573708_-	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|320aa|down_2|NC_017524.1_1573790_1574750_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|321aa|down_3|NC_017524.1_1574774_1575737_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|246aa|down_4|NC_017524.1_1575735_1576473_+	COG3714, COG3714, Predicted membrane protein [Function unknown]	NA|656aa|down_5|NC_017524.1_1576553_1578521_+	PRK14873, PRK14873, primosomal protein N'	NA|275aa|down_6|NC_017524.1_1578538_1579363_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|161aa|down_7|NC_017524.1_1579531_1580014_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|275aa|down_8|NC_017524.1_1580085_1580910_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|313aa|down_9|NC_017524.1_1581106_1582045_+	PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed
GCF_000224435.1_ASM22443v1	NC_017524	Mycobacterium tuberculosis CTRI-2, complete sequence	9	1635754-1635980	2	PILER-CR	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CGGCGGCGCCGTTGGCGCCGTTGCCGCCGGCGCCGCCGTTGCCGCCG	47	0	0	NA	NA	NA	2	2	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|38aa|up_8|NC_017524.1_1622028_1622142_-,NA|137aa|up_7|NC_017524.1_1622191_1622602_-,NA|288aa|down_2|NC_017524.1_1639817_1640681_+	NA|155aa|up_9|NC_017524.1_1621111_1621576_-	cd07820, SRPBCC_3, Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins	NA|38aa|up_8|NC_017524.1_1622028_1622142_-	NA	NA|137aa|up_7|NC_017524.1_1622191_1622602_-	NA	NA|248aa|up_6|NC_017524.1_1622618_1623362_-	pfam01182, Glucosamine_iso, Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase	NA|304aa|up_5|NC_017524.1_1623358_1624270_-	TIGR00534, Putative_OxPP_cycle_protein_OpcA, glucose-6-phosphate dehydrogenase assembly protein OpcA	NA|515aa|up_4|NC_017524.1_1624322_1625867_-	PRK05722, PRK05722, glucose-6-phosphate 1-dehydrogenase; Validated	NA|374aa|up_3|NC_017524.1_1625863_1626985_-	PRK03343, PRK03343, transaldolase; Validated	NA|701aa|up_2|NC_017524.1_1627001_1629104_-	COG0021, TktA, Transketolase [Carbohydrate transport and metabolism]	NA|1408aa|up_1|NC_017524.1_1629542_1633766_-	pfam00934, PE, PE family	NA|309aa|up_0|NC_017524.1_1634167_1635094_+	PRK04375, PRK04375, protoheme IX farnesyltransferase; Provisional	NA|422aa|down_0|NC_017524.1_1637518_1638784_+	COG2508, COG2508, Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]	NA|329aa|down_1|NC_017524.1_1638811_1639798_-	cd05286, QOR2, Quinone oxidoreductase (QOR)	NA|288aa|down_2|NC_017524.1_1639817_1640681_+	NA	NA|311aa|down_3|NC_017524.1_1640630_1641563_-	COG1612, CtaA, Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]	NA|262aa|down_4|NC_017524.1_1641674_1642460_-	TIGR00025, Mtu_efflux, ABC transporter efflux protein, DrrB family	NA|314aa|down_5|NC_017524.1_1642456_1643398_-	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]	NA|592aa|down_6|NC_017524.1_1643500_1645276_-	TIGR03459, crt_membr, carotene biosynthesis associated membrane protein	NA|269aa|down_7|NC_017524.1_1645323_1646130_+	COG2345, COG2345, Predicted transcriptional regulator [Transcription]	NA|847aa|down_8|NC_017524.1_1646126_1648667_+	TIGR01980, UPF0051_protein_slr0074, FeS assembly protein SufB	NA|398aa|down_9|NC_017524.1_1648663_1649857_+	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]
GCF_000224435.1_ASM22443v1	NC_017524	Mycobacterium tuberculosis CTRI-2, complete sequence	10	2081998-2082252	4	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCCNCCGTCGCCGCCNNTGCC	21	2	3	2082079-2082096|2082079-2082096|2082169-2082186	NC_017524.1_403426-403409|NC_017524.1_607018-607001|NC_017524.1_3446672-3446655	NA	5	5	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|88aa|up_0|NC_017524.1_2081357_2081621_-,NA	NA|165aa|up_9|NC_017524.1_2067707_2068202_+	pfam02577, DNase-RNase, Bifunctional nuclease	NA|211aa|up_8|NC_017524.1_2068594_2069227_+	cd01105, HTH_GlnR-like, Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators	NA|942aa|up_7|NC_017524.1_2069585_2072411_+	PRK05367, PRK05367, aminomethyl-transferring glycine dehydrogenase	NA|287aa|up_6|NC_017524.1_2072637_2073498_-	PRK03204, PRK03204, haloalkane dehalogenase; Provisional	NA|289aa|up_5|NC_017524.1_2073538_2074405_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|629aa|up_4|NC_017524.1_2074409_2076296_-	TIGR00976, Hypothetical_protein_Rv1835c/MT1883/Mb1866c	NA|678aa|up_3|NC_017524.1_2076311_2078345_-	cd01456, vWA_ywmD_type, VWA ywmD type:Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF)	NA|742aa|up_2|NC_017524.1_2078464_2080690_-	PRK02999, PRK02999, malate synthase G; Provisional	NA|132aa|up_1|NC_017524.1_2080965_2081361_-	COG1848, COG1848, Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]	NA|88aa|up_0|NC_017524.1_2081357_2081621_-	NA	NA|346aa|down_0|NC_017524.1_2083389_2084427_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|456aa|down_1|NC_017524.1_2084426_2085794_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|480aa|down_2|NC_017524.1_2085967_2087407_-	PRK07807, PRK07807, GuaB1 family IMP dehydrogenase-related protein	NA|484aa|down_3|NC_017524.1_2087439_2088891_-	PRK09287, PRK09287, NADP-dependent phosphogluconate dehydrogenase	NA|317aa|down_4|NC_017524.1_2088920_2089871_-	cd07326, M56_BlaR1_MecR1_like, Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase	NA|139aa|down_5|NC_017524.1_2089885_2090302_-	COG3682, COG3682, Predicted transcriptional regulator [Transcription]	NA|141aa|down_6|NC_017524.1_2090579_2091002_+	COG2050, PaaI, HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis,    transport, and catabolism]	NA|101aa|down_7|NC_017524.1_2091050_2091353_+	pfam00547, Urease_gamma, Urease, gamma subunit	NA|105aa|down_8|NC_017524.1_2091349_2091664_+	PRK13202, ureB, urease subunit beta; Reviewed	NA|578aa|down_9|NC_017524.1_2091663_2093397_+	PRK13206, ureC, urease subunit alpha; Reviewed
GCF_000224435.1_ASM22443v1	NC_017524	Mycobacterium tuberculosis CTRI-2, complete sequence	11	2162377-2162596	5	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GTGCCAGCCGGAATCGTGATCGGCGGAACCGTCACCGACGGAATACTCA	49	0	0	NA	NA	NA	1	1	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|136aa|up_3|NC_017524.1_2153696_2154104_-,NA|127aa|down_5|NC_017524.1_2170112_2170493_-	NA|741aa|up_9|NC_017524.1_2147664_2149887_-	PRK15061, PRK15061, catalase/peroxidase	NA|148aa|up_8|NC_017524.1_2149924_2150368_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|198aa|up_7|NC_017524.1_2150481_2151075_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_6|NC_017524.1_2151157_2151763_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_5|NC_017524.1_2151862_2152867_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_4|NC_017524.1_2152966_2153719_+	cd16282, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain	NA|136aa|up_3|NC_017524.1_2153696_2154104_-	NA	NA|368aa|up_2|NC_017524.1_2154238_2155342_+	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|399aa|up_1|NC_017524.1_2155341_2156538_+	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|1389aa|up_0|NC_017524.1_2156707_2160874_-	pfam00823, PPE, PPE family	NA|155aa|down_0|NC_017524.1_2164623_2165088_-	cd07821, PYR_PYL_RCAR_like, Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins	NA|288aa|down_1|NC_017524.1_2165185_2166049_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_2|NC_017524.1_2166086_2167358_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_3|NC_017524.1_2167629_2168745_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_4|NC_017524.1_2168735_2170076_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_5|NC_017524.1_2170112_2170493_-	NA	NA|621aa|down_6|NC_017524.1_2170649_2172512_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_7|NC_017524.1_2172519_2172999_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_8|NC_017524.1_2173235_2174009_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]	NA|256aa|down_9|NC_017524.1_2174012_2174780_-	PRK05867, PRK05867, SDR family oxidoreductase
GCF_000224435.1_ASM22443v1	NC_017524	Mycobacterium tuberculosis CTRI-2, complete sequence	12	3114245-3115599	3,6,5	PILER-CR,CRISPRCasFinder,CRT	no	cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type III-B,Type III-C,Type III-A,Type III-D	GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC	36,36,36	0	0	NA	NA	II-B,III-A:II-B,III-A:II-B,III-A	17,17,18	18	TypeIII-B,TypeIII-C,TypeIII-A,TypeIII-D	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_8|NC_017524.1_3106165_3106420_-,NA|135aa|up_7|NC_017524.1_3106567_3106972_+,NA|64aa|up_6|NC_017524.1_3106968_3107160_+,NA|86aa|up_4|NC_017524.1_3110105_3110363_+,NA|104aa|up_3|NC_017524.1_3110467_3110779_+,NA|203aa|up_2|NC_017524.1_3111198_3111807_+,NA	NA|92aa|up_9|NC_017524.1_3105714_3105990_+	COG4453, COG4453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|85aa|up_8|NC_017524.1_3106165_3106420_-	NA	NA|135aa|up_7|NC_017524.1_3106567_3106972_+	NA	NA|64aa|up_6|NC_017524.1_3106968_3107160_+	NA	NA|421aa|up_5|NC_017524.1_3108632_3109894_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|86aa|up_4|NC_017524.1_3110105_3110363_+	NA	NA|104aa|up_3|NC_017524.1_3110467_3110779_+	NA	NA|203aa|up_2|NC_017524.1_3111198_3111807_+	NA	NA|470aa|up_1|NC_017524.1_3111877_3113287_+	pfam00665, rve, Integrase core domain	NA|271aa|up_0|NC_017524.1_3113283_3114096_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|down_0|NC_017524.1_3115625_3116887_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|421aa|down_1|NC_017524.1_3117457_3118719_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_2|NC_017524.1_3119937_3120279_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_3|NC_017524.1_3120279_3121296_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm6|416aa|down_4|NC_017524.1_3121308_3122556_-	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	csm5gr7|376aa|down_5|NC_017524.1_3122552_3123680_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_6|NC_017524.1_3123676_3124585_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_7|NC_017524.1_3124565_3125276_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_8|NC_017524.1_3125285_3125660_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_9|NC_017524.1_3125656_3128095_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10
GCF_000224435.1_ASM22443v1	NC_017524	Mycobacterium tuberculosis CTRI-2, complete sequence	13	3116964-3117366	7,6,4	CRISPRCasFinder,CRT,PILER-CR	no	cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type III-B,Type III-C,Type III-A,Type III-D	GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGACC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGA	37,36,35	0	0	NA	NA	II-B,III-A:II-B,III-A:II-B,III-A	5,5,3	5	TypeIII-B,TypeIII-C,TypeIII-A,TypeIII-D	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_9|NC_017524.1_3106165_3106420_-,NA|135aa|up_8|NC_017524.1_3106567_3106972_+,NA|64aa|up_7|NC_017524.1_3106968_3107160_+,NA|86aa|up_5|NC_017524.1_3110105_3110363_+,NA|104aa|up_4|NC_017524.1_3110467_3110779_+,NA|203aa|up_3|NC_017524.1_3111198_3111807_+,NA	NA|85aa|up_9|NC_017524.1_3106165_3106420_-	NA	NA|135aa|up_8|NC_017524.1_3106567_3106972_+	NA	NA|64aa|up_7|NC_017524.1_3106968_3107160_+	NA	NA|421aa|up_6|NC_017524.1_3108632_3109894_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|86aa|up_5|NC_017524.1_3110105_3110363_+	NA	NA|104aa|up_4|NC_017524.1_3110467_3110779_+	NA	NA|203aa|up_3|NC_017524.1_3111198_3111807_+	NA	NA|470aa|up_2|NC_017524.1_3111877_3113287_+	pfam00665, rve, Integrase core domain	NA|271aa|up_1|NC_017524.1_3113283_3114096_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|up_0|NC_017524.1_3115625_3116887_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|421aa|down_0|NC_017524.1_3117457_3118719_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_1|NC_017524.1_3119937_3120279_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_2|NC_017524.1_3120279_3121296_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm6|416aa|down_3|NC_017524.1_3121308_3122556_-	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	csm5gr7|376aa|down_4|NC_017524.1_3122552_3123680_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_5|NC_017524.1_3123676_3124585_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_6|NC_017524.1_3124565_3125276_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_7|NC_017524.1_3125285_3125660_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_8|NC_017524.1_3125656_3128095_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|263aa|down_9|NC_017524.1_3128091_3128880_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]
GCF_000224435.1_ASM22443v1	NC_017524	Mycobacterium tuberculosis CTRI-2, complete sequence	14	3118749-3119889	7,5,8	CRT,PILER-CR,CRISPRCasFinder	no	cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type III-B,Type III-C,Type III-A,Type III-D	GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC	36,36,36	0	0	NA	NA	II-B,III-A:II-B,III-A:II-B,III-A	15,14,14	15	TypeIII-B,TypeIII-C,TypeIII-A,TypeIII-D	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|135aa|up_9|NC_017524.1_3106567_3106972_+,NA|64aa|up_8|NC_017524.1_3106968_3107160_+,NA|86aa|up_6|NC_017524.1_3110105_3110363_+,NA|104aa|up_5|NC_017524.1_3110467_3110779_+,NA|203aa|up_4|NC_017524.1_3111198_3111807_+,NA	NA|135aa|up_9|NC_017524.1_3106567_3106972_+	NA	NA|64aa|up_8|NC_017524.1_3106968_3107160_+	NA	NA|421aa|up_7|NC_017524.1_3108632_3109894_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|86aa|up_6|NC_017524.1_3110105_3110363_+	NA	NA|104aa|up_5|NC_017524.1_3110467_3110779_+	NA	NA|203aa|up_4|NC_017524.1_3111198_3111807_+	NA	NA|470aa|up_3|NC_017524.1_3111877_3113287_+	pfam00665, rve, Integrase core domain	NA|271aa|up_2|NC_017524.1_3113283_3114096_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|up_1|NC_017524.1_3115625_3116887_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|421aa|up_0|NC_017524.1_3117457_3118719_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_0|NC_017524.1_3119937_3120279_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_1|NC_017524.1_3120279_3121296_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm6|416aa|down_2|NC_017524.1_3121308_3122556_-	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	csm5gr7|376aa|down_3|NC_017524.1_3122552_3123680_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_4|NC_017524.1_3123676_3124585_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_5|NC_017524.1_3124565_3125276_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_6|NC_017524.1_3125285_3125660_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_7|NC_017524.1_3125656_3128095_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|263aa|down_8|NC_017524.1_3128091_3128880_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	NA|182aa|down_9|NC_017524.1_3129213_3129759_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_000224435.1_ASM22443v1	NC_017524	Mycobacterium tuberculosis CTRI-2, complete sequence	15	3739021-3739868	8	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGNNNCCNCCGTNNCCGCC	23	0	0	NA	NA	NA	11	11	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA|96aa|down_4|NC_017524.1_3753741_3754029_-	NA|147aa|up_9|NC_017524.1_3719718_3720159_+	cd04770, HTH_HMRTR, Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators	NA|290aa|up_8|NC_017524.1_3720192_3721062_-	TIGR00766, Uncharacterized_protein_Dda3937_02003, inner membrane protein YhjD	NA|337aa|up_7|NC_017524.1_3721082_3722093_-	PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed	NA|215aa|up_6|NC_017524.1_3722365_3723010_+	PRK14875, PRK14875, acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional	NA|410aa|up_5|NC_017524.1_3723076_3724306_-	PRK08299, PRK08299, NADP-dependent isocitrate dehydrogenase	NA|450aa|up_4|NC_017524.1_3724588_3725938_+	PRK07812, PRK07812, O-acetylhomoserine aminocarboxypropyltransferase; Validated	NA|380aa|up_3|NC_017524.1_3725949_3727089_+	PRK00175, metX, homoserine O-acetyltransferase; Provisional	NA|244aa|up_2|NC_017524.1_3727085_3727817_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|2538aa|up_1|NC_017524.1_3727825_3735439_-	pfam00823, PPE, PPE family	NA|339aa|up_0|NC_017524.1_3735487_3736504_-	pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex non-fungal	NA|86aa|down_0|NC_017524.1_3741611_3741869_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|3158aa|down_1|NC_017524.1_3742124_3751598_-	pfam00823, PPE, PPE family	NA|149aa|down_2|NC_017524.1_3752223_3752670_+	pfam01548, DEDD_Tnp_IS110, Transposase	NA|247aa|down_3|NC_017524.1_3752706_3753447_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|96aa|down_4|NC_017524.1_3753741_3754029_-	NA	NA|3717aa|down_5|NC_017524.1_3754365_3765516_-	pfam00823, PPE, PPE family	NA|130aa|down_6|NC_017524.1_3767524_3767914_+	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|98aa|down_7|NC_017524.1_3767927_3768221_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|282aa|down_8|NC_017524.1_3768217_3769063_-	PRK14193, PRK14193, bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional	NA|92aa|down_9|NC_017524.1_3769186_3769462_+	COG2161, StbD, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]
GCF_000224435.1_ASM22443v1	NC_017524	Mycobacterium tuberculosis CTRI-2, complete sequence	16	4097610-4097698	9	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCTCGGCGACGATGCGGGCCGGATGACGGCC	31	0	0	NA	NA	NA	1	1	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|257aa|up_6|NC_017524.1_4088196_4088967_-,NA|233aa|up_0|NC_017524.1_4096714_4097413_-,NA|126aa|down_6|NC_017524.1_4102933_4103311_+	NA|388aa|up_9|NC_017524.1_4083867_4085031_-	TIGR03819, heli_sec_ATPase, helicase/secretion neighborhood ATPase	NA|351aa|up_8|NC_017524.1_4085027_4086080_-	TIGR03815, CpaE_hom_Actino, helicase/secretion neighborhood CpaE-like protein	NA|288aa|up_7|NC_017524.1_4086578_4087442_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|257aa|up_6|NC_017524.1_4088196_4088967_-	NA	NA|549aa|up_5|NC_017524.1_4088963_4090610_-	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]	NA|288aa|up_4|NC_017524.1_4090606_4091470_-	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|309aa|up_3|NC_017524.1_4091462_4092389_-	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|542aa|up_2|NC_017524.1_4092390_4094016_-	cd00995, PBP2_NikA_DppA_OppA_like, The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold	NA|652aa|up_1|NC_017524.1_4094723_4096679_+	PRK00174, PRK00174, acetyl-CoA synthetase; Provisional	NA|233aa|up_0|NC_017524.1_4096714_4097413_-	NA	NA|173aa|down_0|NC_017524.1_4097758_4098277_+	pfam07332, Phage_holin_3_6, Putative Actinobacterial Holin-X, holin superfamily III	NA|328aa|down_1|NC_017524.1_4098277_4099261_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|398aa|down_2|NC_017524.1_4099253_4100447_-	pfam13365, Trypsin_2, Trypsin-like peptidase domain	NA|274aa|down_3|NC_017524.1_4100452_4101274_-	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|216aa|down_4|NC_017524.1_4101405_4102053_-	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|246aa|down_5|NC_017524.1_4102088_4102826_-	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]	NA|126aa|down_6|NC_017524.1_4102933_4103311_+	NA	NA|225aa|down_7|NC_017524.1_4103409_4104084_+	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|265aa|down_8|NC_017524.1_4104189_4104984_-	cd16278, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain	NA|152aa|down_9|NC_017524.1_4104990_4105446_-	cd02199, YjgF_YER057c_UK114_like_1, This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function
