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_002116815.1_ASM211681v1	NZ_CP017596	Mycobacterium tuberculosis strain Beijing/391 chromosome, complete genome	1	364767-365465	1	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	TTCGCGAAGCCGATGTTGTAGCTGCCGGTGTTG	33	2	2	365055-365096|365130-365162	NZ_CP017596.1_373071-373112|NZ_CP017596.1_371886-371918	NA	10	10	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|101aa|up_4|NZ_CP017596.1_361779_362082_+,NA|161aa|down_1|NZ_CP017596.1_374860_375343_-,NA|410aa|down_5|NZ_CP017596.1_377459_378689_+	NA|332aa|up_9|NZ_CP017596.1_354195_355191_+	TIGR03923, T7SS_EccE, type VII secretion protein EccE	NA|401aa|up_8|NZ_CP017596.1_355177_356380_-	pfam00561, Abhydrolase_1, alpha/beta hydrolase fold	NA|262aa|up_7|NZ_CP017596.1_356486_357272_+	PRK14103, PRK14103, trans-aconitate 2-methyltransferase; Provisional	NA|268aa|up_6|NZ_CP017596.1_357260_358064_-	COG4424, COG4424, Uncharacterized protein conserved in bacteria [Function unknown]	NA|76aa|up_5|NZ_CP017596.1_361555_361783_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|101aa|up_4|NZ_CP017596.1_361779_362082_+	NA	NA|74aa|up_3|NZ_CP017596.1_362129_362351_+	PHA01748, PHA01748, hypothetical protein	NA|142aa|up_2|NZ_CP017596.1_362347_362773_+	cd18755, PIN_MtVapC3_VapC21-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC3, VapC21 and related proteins	NA|211aa|up_1|NZ_CP017596.1_362908_363541_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|303aa|up_0|NZ_CP017596.1_363537_364446_+	cd09810, LPOR_like_SDR_c_like, light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs	NA|224aa|down_0|NZ_CP017596.1_374201_374873_+	TIGR02476, BluB, 5,6-dimethylbenzimidazole synthase	NA|161aa|down_1|NZ_CP017596.1_374860_375343_-	NA	NA|239aa|down_2|NZ_CP017596.1_375400_376117_+	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|219aa|down_3|NZ_CP017596.1_376218_376875_+	COG3786, COG3786, Uncharacterized protein conserved in bacteria [Function unknown]	NA|164aa|down_4|NZ_CP017596.1_376944_377436_-	pfam13577, SnoaL_4, SnoaL-like domain	NA|410aa|down_5|NZ_CP017596.1_377459_378689_+	NA	NA|621aa|down_6|NZ_CP017596.1_378843_380706_+	COG0443, DnaK, Molecular chaperone [Posttranslational modification, protein turnover, chaperones]	NA|129aa|down_7|NZ_CP017596.1_380777_381164_+	COG0326, HtpG, Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]	NA|221aa|down_8|NZ_CP017596.1_381166_381829_-	pfam11259, DUF3060, Protein of unknown function (DUF3060)	NA|295aa|down_9|NZ_CP017596.1_381889_382774_+	COG2273, SKN1, Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]
GCF_002116815.1_ASM211681v1	NZ_CP017596	Mycobacterium tuberculosis strain Beijing/391 chromosome, complete genome	2	690196-690272	2	CRISPRCasFinder	no	c2c9_V-U4	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Type V-U4	TGAGGTGCGGCGTGAGCGCGGGT	23	0	0	NA	NA	NA	1	1	TypeV-U4	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA,NA	NA|136aa|up_9|NZ_CP017596.1_676091_676499_+	cd18696, PIN_MtVapC26-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC26 and related proteins	NA|229aa|up_8|NZ_CP017596.1_676558_677245_-	pfam10738, Lpp-LpqN, Probable lipoprotein LpqN	NA|878aa|up_7|NZ_CP017596.1_677398_680032_+	COG3537, COG3537, Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]	NA|796aa|up_6|NZ_CP017596.1_680054_682442_-	pfam03706, LPG_synthase_TM, Lysylphosphatidylglycerol synthase TM region	NA|241aa|up_5|NZ_CP017596.1_682579_683302_+	COG2186, FadR, Transcriptional regulators [Transcription]	NA|266aa|up_4|NZ_CP017596.1_683298_684096_+	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|296aa|up_3|NZ_CP017596.1_684097_684985_+	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|405aa|up_2|NZ_CP017596.1_684990_686205_+	pfam11887, Mce4_CUP1, Cholesterol uptake porter CUP1 of Mce4, putative	NA|344aa|up_1|NZ_CP017596.1_686201_687233_+	COG1463, Ttg2C, ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|482aa|up_0|NZ_CP017596.1_687229_688675_+	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|517aa|down_0|NZ_CP017596.1_691407_692958_+	COG1463, Ttg2C, ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|131aa|down_1|NZ_CP017596.1_693009_693402_-	cd18768, PIN_MtVapC4-C5-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins	NA|86aa|down_2|NZ_CP017596.1_693398_693656_-	COG4118, Phd, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|412aa|down_3|NZ_CP017596.1_693838_695074_-	COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General function prediction only]	NA|138aa|down_4|NZ_CP017596.1_695324_695738_-	cd18681, PIN_MtVapC27-VapC40_like, VapC-like PIN domain of Mycobacterium tuberculosis VapC27, and VapC40, and related proteins	NA|79aa|down_5|NZ_CP017596.1_695734_695971_-	COG2002, AbrB, Regulators of stationary/sporulation gene expression [Transcription]	NA|169aa|down_6|NZ_CP017596.1_696074_696581_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|157aa|down_7|NZ_CP017596.1_696694_697165_-	PRK10755, PRK10755, two-component system sensor histidine kinase PmrB	NA|254aa|down_8|NZ_CP017596.1_697208_697970_-	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|NZ_CP017596.1_698026_698338_+	pfam03413, PepSY, Peptidase propeptide and YPEB domain
GCF_002116815.1_ASM211681v1	NZ_CP017596	Mycobacterium tuberculosis strain Beijing/391 chromosome, complete genome	3	839057-839178	1	PILER-CR	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCCAACGGCGGGGCCGGCGGGGCCGGCGGC	30	0	0	NA	NA	NA	2	2	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|71aa|up_8|NZ_CP017596.1_828411_828624_+,NA|176aa|up_5|NZ_CP017596.1_830488_831016_+,NA|186aa|up_3|NZ_CP017596.1_832598_833156_-,NA|46aa|down_2|NZ_CP017596.1_840307_840445_-,NA|53aa|down_3|NZ_CP017596.1_840430_840589_+,NA|82aa|down_4|NZ_CP017596.1_840603_840849_+	NA|166aa|up_9|NZ_CP017596.1_827917_828415_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|71aa|up_8|NZ_CP017596.1_828411_828624_+	NA	NA|183aa|up_7|NZ_CP017596.1_828772_829321_+	TIGR03086, TIGR03086, TIGR03086 family protein	NA|283aa|up_6|NZ_CP017596.1_829525_830374_+	pfam10774, DUF4226, Domain of unknown function (DUF4226)	NA|176aa|up_5|NZ_CP017596.1_830488_831016_+	NA	NA|176aa|up_4|NZ_CP017596.1_831693_832221_+	pfam00934, PE, PE family	NA|186aa|up_3|NZ_CP017596.1_832598_833156_-	NA	NA|169aa|up_2|NZ_CP017596.1_833152_833659_-	pfam12728, HTH_17, Helix-turn-helix domain	NA|49aa|up_1|NZ_CP017596.1_833771_833918_-	TIGR01692, 3-hydroxyisobutyrate_dehydrogenase_mitochondrial, 3-hydroxyisobutyrate dehydrogenase	NA|176aa|up_0|NZ_CP017596.1_833866_834394_+	TIGR03817, DECH_helic, helicase/secretion neighborhood putative DEAH-box helicase	NA|86aa|down_0|NZ_CP017596.1_839517_839775_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|143aa|down_1|NZ_CP017596.1_839798_840227_+	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|46aa|down_2|NZ_CP017596.1_840307_840445_-	NA	NA|53aa|down_3|NZ_CP017596.1_840430_840589_+	NA	NA|82aa|down_4|NZ_CP017596.1_840603_840849_+	NA	NA|295aa|down_5|NZ_CP017596.1_840917_841802_-	TIGR01692, 3-hydroxyisobutyrate_dehydrogenase_mitochondrial, 3-hydroxyisobutyrate dehydrogenase	NA|391aa|down_6|NZ_CP017596.1_841812_842985_-	cd01162, IBD, Isobutyryl-CoA dehydrogenase	NA|511aa|down_7|NZ_CP017596.1_842991_844524_-	cd07085, ALDH_F6_MMSDH, Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2	NA|585aa|down_8|NZ_CP017596.1_844729_846484_+	pfam00934, PE, PE family	NA|646aa|down_9|NZ_CP017596.1_846673_848611_-	pfam00823, PPE, PPE family
GCF_002116815.1_ASM211681v1	NZ_CP017596	Mycobacterium tuberculosis strain Beijing/391 chromosome, complete genome	4	1572817-1573886	3	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGTTGCCGCCGGCACCGCCGTCGCCGAT	32	1	1	1573016-1573037	NZ_CP017596.1_1209866-1209845	NA	15	15	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|106aa|up_7|NZ_CP017596.1_1564581_1564899_+,NA	NA|103aa|up_9|NZ_CP017596.1_1562096_1562405_+	pfam00934, PE, PE family	NA|540aa|up_8|NZ_CP017596.1_1562401_1564021_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|106aa|up_7|NZ_CP017596.1_1564581_1564899_+	NA	NA|209aa|up_6|NZ_CP017596.1_1565033_1565660_+	PRK00300, gmk, guanylate kinase; Provisional	NA|111aa|up_5|NZ_CP017596.1_1565725_1566058_+	TIGR00690, DNA-directed_RNA_polymerase_subunit_omega, DNA-directed RNA polymerase, omega subunit	NA|419aa|up_4|NZ_CP017596.1_1566073_1567330_+	PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated	NA|404aa|up_3|NZ_CP017596.1_1567457_1568669_+	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|493aa|up_2|NZ_CP017596.1_1568741_1570220_-	COG2072, TrkA, Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]	NA|462aa|up_1|NZ_CP017596.1_1570216_1571602_-	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|345aa|up_0|NZ_CP017596.1_1571679_1572714_+	smart00342, HTH_ARAC, helix_turn_helix, arabinose operon control protein	NA|134aa|down_0|NZ_CP017596.1_1574739_1575141_-	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|NZ_CP017596.1_1575137_1575395_-	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|320aa|down_2|NZ_CP017596.1_1575477_1576437_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|201aa|down_3|NZ_CP017596.1_1577559_1578162_+	COG3714, COG3714, Predicted membrane protein [Function unknown]	NA|656aa|down_4|NZ_CP017596.1_1578242_1580210_+	PRK14873, PRK14873, primosomal protein N'	NA|275aa|down_5|NZ_CP017596.1_1580227_1581052_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|161aa|down_6|NZ_CP017596.1_1581220_1581703_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|275aa|down_7|NZ_CP017596.1_1581774_1582599_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|313aa|down_8|NZ_CP017596.1_1582795_1583734_+	PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed	NA|458aa|down_9|NZ_CP017596.1_1583730_1585104_+	PRK14902, PRK14902, 16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB
GCF_002116815.1_ASM211681v1	NZ_CP017596	Mycobacterium tuberculosis strain Beijing/391 chromosome, complete genome	5	2071182-2071436	1	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCCNCCGTCGCCGCCNNTGCC	21	2	3	2071263-2071280|2071263-2071280|2071353-2071370	NZ_CP017596.1_399369-399352|NZ_CP017596.1_605538-605521|NZ_CP017596.1_3440692-3440675	NA	5	5	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|88aa|up_0|NZ_CP017596.1_2070541_2070805_-,NA	NA|165aa|up_9|NZ_CP017596.1_2056891_2057386_+	pfam02577, DNase-RNase, Bifunctional nuclease	NA|226aa|up_8|NZ_CP017596.1_2057733_2058411_+	cd01105, HTH_GlnR-like, Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators	NA|942aa|up_7|NZ_CP017596.1_2058769_2061595_+	PRK05367, PRK05367, aminomethyl-transferring glycine dehydrogenase	NA|287aa|up_6|NZ_CP017596.1_2061821_2062682_-	PRK03204, PRK03204, haloalkane dehalogenase; Provisional	NA|289aa|up_5|NZ_CP017596.1_2062722_2063589_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|629aa|up_4|NZ_CP017596.1_2063593_2065480_-	TIGR00976, Hypothetical_protein_Rv1835c/MT1883/Mb1866c	NA|678aa|up_3|NZ_CP017596.1_2065495_2067529_-	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|NZ_CP017596.1_2067648_2069874_-	PRK02999, PRK02999, malate synthase G; Provisional	NA|132aa|up_1|NZ_CP017596.1_2070149_2070545_-	COG1848, COG1848, Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]	NA|88aa|up_0|NZ_CP017596.1_2070541_2070805_-	NA	NA|346aa|down_0|NZ_CP017596.1_2072573_2073611_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|456aa|down_1|NZ_CP017596.1_2073610_2074978_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|479aa|down_2|NZ_CP017596.1_2075151_2076588_-	PRK07807, PRK07807, GuaB1 family IMP dehydrogenase-related protein	NA|484aa|down_3|NZ_CP017596.1_2076623_2078075_-	PRK09287, PRK09287, NADP-dependent phosphogluconate dehydrogenase	NA|317aa|down_4|NZ_CP017596.1_2078104_2079055_-	cd07326, M56_BlaR1_MecR1_like, Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase	NA|141aa|down_5|NZ_CP017596.1_2079765_2080188_+	cd03443, PaaI_thioesterase, PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria	NA|101aa|down_6|NZ_CP017596.1_2080236_2080539_+	pfam00547, Urease_gamma, Urease, gamma subunit	NA|105aa|down_7|NZ_CP017596.1_2080535_2080850_+	PRK13202, ureB, urease subunit beta; Reviewed	NA|578aa|down_8|NZ_CP017596.1_2080849_2082583_+	PRK13206, ureC, urease subunit alpha; Reviewed	NA|212aa|down_9|NZ_CP017596.1_2082582_2083218_+	COG0830, UreF, Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]
GCF_002116815.1_ASM211681v1	NZ_CP017596	Mycobacterium tuberculosis strain Beijing/391 chromosome, complete genome	6	2154456-2154675	4	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	GTGCCAGCCGGAATCGTGATCGGCGGAACCGTCACCGACGGAATACTCA	49	0	0	NA	NA	NA	1	1	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|136aa|up_2|NZ_CP017596.1_2142863_2143271_-,NA|127aa|down_5|NZ_CP017596.1_2162191_2162572_-	NA|155aa|up_9|NZ_CP017596.1_2136192_2136657_-	pfam14081, DUF4262, Domain of unknown function (DUF4262)	NA|741aa|up_8|NZ_CP017596.1_2136831_2139054_-	PRK15061, PRK15061, catalase/peroxidase	NA|148aa|up_7|NZ_CP017596.1_2139091_2139535_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|198aa|up_6|NZ_CP017596.1_2139648_2140242_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_5|NZ_CP017596.1_2140324_2140930_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_4|NZ_CP017596.1_2141029_2142034_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_3|NZ_CP017596.1_2142133_2142886_+	cd16282, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain	NA|136aa|up_2|NZ_CP017596.1_2142863_2143271_-	NA	NA|767aa|up_1|NZ_CP017596.1_2143405_2145706_+	PLN02892, PLN02892, isocitrate lyase	NA|421aa|up_0|NZ_CP017596.1_2150032_2151294_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|155aa|down_0|NZ_CP017596.1_2156702_2157167_-	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|NZ_CP017596.1_2157264_2158128_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_2|NZ_CP017596.1_2158165_2159437_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_3|NZ_CP017596.1_2159708_2160824_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_4|NZ_CP017596.1_2160814_2162155_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_5|NZ_CP017596.1_2162191_2162572_-	NA	NA|621aa|down_6|NZ_CP017596.1_2162728_2164591_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_7|NZ_CP017596.1_2164598_2165078_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_8|NZ_CP017596.1_2165314_2166088_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]	NA|256aa|down_9|NZ_CP017596.1_2166091_2166859_-	PRK05867, PRK05867, SDR family oxidoreductase
GCF_002116815.1_ASM211681v1	NZ_CP017596	Mycobacterium tuberculosis strain Beijing/391 chromosome, complete genome	7	3112516-3113663	2,5,2	PILER-CR,CRISPRCasFinder,CRT	no	c2c9_V-U4,csm3gr7,csm2gr11,cas10,cas6	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Type III-B,Type III-D,Type III-A,Type III-C	GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC	36,36,36	0	0	NA	NA	II-B,III-A:II-B,III-A:II-B,III-A	13,14,15	15	TypeIII-B,TypeIII-D,TypeIII-A,TypeIII-C	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_8|NZ_CP017596.1_3105795_3106050_-,NA|135aa|up_7|NZ_CP017596.1_3106197_3106602_+,NA|64aa|up_6|NZ_CP017596.1_3106598_3106790_+,NA|86aa|up_4|NZ_CP017596.1_3108376_3108634_+,NA|104aa|up_3|NZ_CP017596.1_3108738_3109050_+,NA|203aa|up_2|NZ_CP017596.1_3109469_3110078_+,NA	NA|92aa|up_9|NZ_CP017596.1_3105344_3105620_+	COG4453, COG4453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|85aa|up_8|NZ_CP017596.1_3105795_3106050_-	NA	NA|135aa|up_7|NZ_CP017596.1_3106197_3106602_+	NA	NA|64aa|up_6|NZ_CP017596.1_3106598_3106790_+	NA	NA|385aa|up_5|NZ_CP017596.1_3106988_3108143_+	pfam00665, rve, Integrase core domain	NA|86aa|up_4|NZ_CP017596.1_3108376_3108634_+	NA	NA|104aa|up_3|NZ_CP017596.1_3108738_3109050_+	NA	NA|203aa|up_2|NZ_CP017596.1_3109469_3110078_+	NA	NA|470aa|up_1|NZ_CP017596.1_3110148_3111558_+	pfam00665, rve, Integrase core domain	NA|271aa|up_0|NZ_CP017596.1_3111554_3112367_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|down_0|NZ_CP017596.1_3113694_3114956_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	csm3gr7|237aa|down_1|NZ_CP017596.1_3115319_3116030_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_2|NZ_CP017596.1_3116039_3116414_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_3|NZ_CP017596.1_3116410_3118849_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_4|NZ_CP017596.1_3118845_3119568_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	NA|182aa|down_5|NZ_CP017596.1_3119967_3120513_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]	NA|295aa|down_6|NZ_CP017596.1_3120784_3121669_-	COG2253, COG2253, Uncharacterized conserved protein [Function unknown]	NA|296aa|down_7|NZ_CP017596.1_3121671_3122559_-	pfam09407, AbiEi_1, AbiEi antitoxin C-terminal domain	NA|182aa|down_8|NZ_CP017596.1_3122863_3123409_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]	NA|90aa|down_9|NZ_CP017596.1_3123405_3123675_-	COG5552, COG5552, Uncharacterized conserved protein [Function unknown]
GCF_002116815.1_ASM211681v1	NZ_CP017596	Mycobacterium tuberculosis strain Beijing/391 chromosome, complete genome	8	3656718-3656836	6	CRISPRCasFinder	no	cas3	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Unclear	GCCCCTGTGAGTCGAGTGAGCGGAACGAAC	30	1	1	3656748-3656806	NZ_CP017596.1_3656811-3656869	NA	1	1	Unclear	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA,NA|138aa|down_6|NZ_CP017596.1_3662469_3662883_-,NA|126aa|down_7|NZ_CP017596.1_3662917_3663295_-	NA|499aa|up_9|NZ_CP017596.1_3640901_3642398_+	COG1316, LytR, Transcriptional regulator [Transcription]	NA|230aa|up_8|NZ_CP017596.1_3642436_3643126_+	TIGR03089, conserved_hypothetical_protein, TIGR03089 family protein	NA|94aa|up_7|NZ_CP017596.1_3643250_3643532_+	pfam07371, DUF1490, Protein of unknown function (DUF1490)	NA|395aa|up_6|NZ_CP017596.1_3646466_3647651_+	pfam02515, CoA_transf_3, CoA-transferase family III	NA|765aa|up_5|NZ_CP017596.1_3647655_3649950_+	COG0659, SUL1, Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]	NA|390aa|up_4|NZ_CP017596.1_3649938_3651108_-	cd01158, SCAD_SBCAD, Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases	NA|175aa|up_3|NZ_CP017596.1_3651132_3651657_-	PLN02948, PLN02948, phosphoribosylaminoimidazole carboxylase	NA|430aa|up_2|NZ_CP017596.1_3651653_3652943_-	TIGR01161, N5-carboxyaminoimidazole_ribonucleotide_synthase, phosphoribosylaminoimidazole carboxylase, PurK protein	NA|173aa|up_1|NZ_CP017596.1_3653669_3654188_-	pfam03703, bPH_2, Bacterial PH domain	NA|267aa|up_0|NZ_CP017596.1_3654230_3655031_-	COG0340, BirA, Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]	NA|223aa|down_0|NZ_CP017596.1_3657102_3657771_+	PRK00148, PRK00148, Maf-like protein; Reviewed	NA|298aa|down_1|NZ_CP017596.1_3657811_3658705_+	COG2897, SseA, Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]	NA|144aa|down_2|NZ_CP017596.1_3658701_3659133_+	COG2166, sufE, Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]	NA|601aa|down_3|NZ_CP017596.1_3659240_3661043_+	COG4770, COG4770, Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]	NA|262aa|down_4|NZ_CP017596.1_3661052_3661838_-	PRK07122, PRK07122, RNA polymerase sigma factor SigF; Reviewed	NA|146aa|down_5|NZ_CP017596.1_3661834_3662272_-	COG2172, RsbW, Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]	NA|138aa|down_6|NZ_CP017596.1_3662469_3662883_-	NA	NA|126aa|down_7|NZ_CP017596.1_3662917_3663295_-	NA	NA|450aa|down_8|NZ_CP017596.1_3663328_3664678_-	PRK08297, PRK08297, L-lysine aminotransferase; Provisional	NA|151aa|down_9|NZ_CP017596.1_3664728_3665181_-	smart00344, HTH_ASNC, helix_turn_helix ASNC type
GCF_002116815.1_ASM211681v1	NZ_CP017596	Mycobacterium tuberculosis strain Beijing/391 chromosome, complete genome	9	3740919-3741495	3	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCCGCCGTTGCCNCCGNNGCCGCCG	25	0	0	NA	NA	NA	7	7	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA,NA|96aa|down_4|NZ_CP017596.1_3755725_3756013_-,NA|87aa|down_8|NZ_CP017596.1_3769134_3769395_-	NA|503aa|up_9|NZ_CP017596.1_3713833_3715342_+	pfam00083, Sugar_tr, Sugar (and other) transporter	NA|384aa|up_8|NZ_CP017596.1_3715338_3716490_+	COG1820, NagA, N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]	NA|282aa|up_7|NZ_CP017596.1_3716680_3717526_-	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|147aa|up_6|NZ_CP017596.1_3718000_3718441_+	cd04770, HTH_HMRTR, Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators	NA|290aa|up_5|NZ_CP017596.1_3718474_3719344_-	TIGR00766, Uncharacterized_protein_Dda3937_02003, inner membrane protein YhjD	NA|337aa|up_4|NZ_CP017596.1_3719364_3720375_-	PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed	NA|211aa|up_3|NZ_CP017596.1_3720659_3721292_+	PRK14875, PRK14875, acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional	NA|410aa|up_2|NZ_CP017596.1_3721358_3722588_-	PRK08299, PRK08299, NADP-dependent isocitrate dehydrogenase	NA|450aa|up_1|NZ_CP017596.1_3722870_3724220_+	PRK07812, PRK07812, O-acetylhomoserine aminocarboxypropyltransferase; Validated	NA|244aa|up_0|NZ_CP017596.1_3725369_3726101_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|86aa|down_0|NZ_CP017596.1_3743593_3743851_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|98aa|down_1|NZ_CP017596.1_3753288_3753582_-	pfam00823, PPE, PPE family	NA|149aa|down_2|NZ_CP017596.1_3754207_3754654_+	pfam01548, DEDD_Tnp_IS110, Transposase	NA|273aa|down_3|NZ_CP017596.1_3754690_3755509_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|96aa|down_4|NZ_CP017596.1_3755725_3756013_-	NA	NA|265aa|down_5|NZ_CP017596.1_3767744_3768539_-	pfam08031, BBE, Berberine and berberine like	NA|124aa|down_6|NZ_CP017596.1_3768620_3768992_-	COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production and conversion]	NA|137aa|down_7|NZ_CP017596.1_3768889_3769300_-	pfam01565, FAD_binding_4, FAD binding domain	NA|87aa|down_8|NZ_CP017596.1_3769134_3769395_-	NA	NA|130aa|down_9|NZ_CP017596.1_3769509_3769899_+	pfam05305, DUF732, Protein of unknown function (DUF732)
GCF_002116815.1_ASM211681v1	NZ_CP017596	Mycobacterium tuberculosis strain Beijing/391 chromosome, complete genome	10	3850019-3850108	7	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCAGGCGTTGGGCTGGCTGCCGAT	24	0	0	NA	NA	NA	1	1	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|77aa|up_8|NZ_CP017596.1_3842055_3842286_+,NA|121aa|up_7|NZ_CP017596.1_3842389_3842752_-,NA|73aa|up_2|NZ_CP017596.1_3848084_3848303_-,NA|121aa|down_0|NZ_CP017596.1_3851093_3851456_-,NA|52aa|down_2|NZ_CP017596.1_3853297_3853453_-,NA|52aa|down_3|NZ_CP017596.1_3853477_3853633_-,NA|238aa|down_6|NZ_CP017596.1_3857668_3858382_-	NA|409aa|up_9|NZ_CP017596.1_3840869_3842096_-	PRK00053, alr, alanine racemase; Reviewed	NA|77aa|up_8|NZ_CP017596.1_3842055_3842286_+	NA	NA|121aa|up_7|NZ_CP017596.1_3842389_3842752_-	NA	NA|177aa|up_6|NZ_CP017596.1_3843710_3844241_+	pfam00823, PPE, PPE family	NA|252aa|up_5|NZ_CP017596.1_3844558_3845314_-	COG1484, DnaC, DNA replication protein [DNA replication, recombination, and repair]	NA|337aa|up_4|NZ_CP017596.1_3845397_3846408_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|553aa|up_3|NZ_CP017596.1_3846433_3848092_-	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|73aa|up_2|NZ_CP017596.1_3848084_3848303_-	NA	NA|100aa|up_1|NZ_CP017596.1_3848797_3849097_+	pfam00934, PE, PE family	NA|181aa|up_0|NZ_CP017596.1_3849182_3849725_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|121aa|down_0|NZ_CP017596.1_3851093_3851456_-	NA	NA|179aa|down_1|NZ_CP017596.1_3851618_3852155_+	pfam00823, PPE, PPE family	NA|52aa|down_2|NZ_CP017596.1_3853297_3853453_-	NA	NA|52aa|down_3|NZ_CP017596.1_3853477_3853633_-	NA	NA|461aa|down_4|NZ_CP017596.1_3854825_3856208_-	TIGR01788, Glutamate_decarboxylase_alpha_GAD-alpha	NA|474aa|down_5|NZ_CP017596.1_3856245_3857667_-	pfam01256, Carb_kinase, Carbohydrate kinase	NA|238aa|down_6|NZ_CP017596.1_3857668_3858382_-	NA	NA|285aa|down_7|NZ_CP017596.1_3858392_3859247_-	pfam14494, DUF4436, Domain of unknown function (DUF4436)	NA|625aa|down_8|NZ_CP017596.1_3859468_3861343_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|159aa|down_9|NZ_CP017596.1_3861364_3861841_+	pfam10708, DUF2510, Protein of unknown function (DUF2510)
GCF_002116815.1_ASM211681v1	NZ_CP017596	Mycobacterium tuberculosis strain Beijing/391 chromosome, complete genome	11	4105690-4105778	8	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCTCGGCGACGATGCGGGCCGGATGACGGCC	31	0	0	NA	NA	NA	1	1	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|257aa|up_7|NZ_CP017596.1_4096277_4097048_-,NA|119aa|up_3|NZ_CP017596.1_4102181_4102538_+,NA|52aa|up_2|NZ_CP017596.1_4102637_4102793_+,NA|233aa|up_0|NZ_CP017596.1_4104794_4105493_-,NA|126aa|down_6|NZ_CP017596.1_4111013_4111391_+	NA|351aa|up_9|NZ_CP017596.1_4093108_4094161_-	TIGR03815, CpaE_hom_Actino, helicase/secretion neighborhood CpaE-like protein	NA|288aa|up_8|NZ_CP017596.1_4094659_4095523_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|257aa|up_7|NZ_CP017596.1_4096277_4097048_-	NA	NA|288aa|up_6|NZ_CP017596.1_4098686_4099550_-	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|309aa|up_5|NZ_CP017596.1_4099542_4100469_-	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|542aa|up_4|NZ_CP017596.1_4100470_4102096_-	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|119aa|up_3|NZ_CP017596.1_4102181_4102538_+	NA	NA|52aa|up_2|NZ_CP017596.1_4102637_4102793_+	NA	NA|652aa|up_1|NZ_CP017596.1_4102803_4104759_+	PRK00174, PRK00174, acetyl-CoA synthetase; Provisional	NA|233aa|up_0|NZ_CP017596.1_4104794_4105493_-	NA	NA|173aa|down_0|NZ_CP017596.1_4105838_4106357_+	pfam07332, Phage_holin_3_6, Putative Actinobacterial Holin-X, holin superfamily III	NA|328aa|down_1|NZ_CP017596.1_4106357_4107341_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|398aa|down_2|NZ_CP017596.1_4107333_4108527_-	pfam13365, Trypsin_2, Trypsin-like peptidase domain	NA|274aa|down_3|NZ_CP017596.1_4108532_4109354_-	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|228aa|down_4|NZ_CP017596.1_4109485_4110169_-	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|246aa|down_5|NZ_CP017596.1_4110168_4110906_-	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]	NA|126aa|down_6|NZ_CP017596.1_4111013_4111391_+	NA	NA|225aa|down_7|NZ_CP017596.1_4111489_4112164_+	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|265aa|down_8|NZ_CP017596.1_4112269_4113064_-	cd16278, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain	NA|152aa|down_9|NZ_CP017596.1_4113070_4113526_-	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
