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_002447595.1_ASM244759v1	NZ_CP023609	Mycobacterium tuberculosis strain LN55 chromosome, complete genome	1	338068-338290	1	PILER-CR	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	ATCCGCCGCTACCGCCGGTGCCGCCGGCGCCGAACAGCCCGCC	43	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|61aa|up_1|NZ_CP023609.1_333137_333320_-,NA	NA|398aa|up_9|NZ_CP023609.1_323316_324510_-	COG3285, COG3285, Predicted eukaryotic-type DNA primase [DNA replication, recombination, and repair]	NA|732aa|up_8|NZ_CP023609.1_326243_328439_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_7|NZ_CP023609.1_328552_329686_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_6|NZ_CP023609.1_329682_330303_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_5|NZ_CP023609.1_330399_330981_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_4|NZ_CP023609.1_330910_331636_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_3|NZ_CP023609.1_331725_332646_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_2|NZ_CP023609.1_332685_333114_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|61aa|up_1|NZ_CP023609.1_333137_333320_-	NA	NA|615aa|up_0|NZ_CP023609.1_333414_335259_-	PRK13875, PRK13875, conjugal transfer protein TrbL; Provisional	NA|537aa|down_0|NZ_CP023609.1_339327_340938_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_1|NZ_CP023609.1_340961_341870_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|632aa|down_2|NZ_CP023609.1_342093_343989_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_3|NZ_CP023609.1_343985_345602_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_4|NZ_CP023609.1_345598_349591_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_5|NZ_CP023609.1_349587_349896_+	pfam00934, PE, PE family	NA|514aa|down_6|NZ_CP023609.1_349898_351440_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_7|NZ_CP023609.1_351488_351782_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|down_8|NZ_CP023609.1_351811_352102_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]	NA|296aa|down_9|NZ_CP023609.1_352112_353000_+	pfam14011, ESX-1_EspG, EspG family
GCF_002447595.1_ASM244759v1	NZ_CP023609	Mycobacterium tuberculosis strain LN55 chromosome, complete genome	2	366427-367125	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	366715-366756|366790-366822	NZ_CP023609.1_374731-374772|NZ_CP023609.1_373546-373578	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|NZ_CP023609.1_363439_363742_+,NA|161aa|down_1|NZ_CP023609.1_376520_377003_-,NA|410aa|down_5|NZ_CP023609.1_379119_380349_+	NA|262aa|up_9|NZ_CP023609.1_358134_358920_+	PRK14103, PRK14103, trans-aconitate 2-methyltransferase; Provisional	NA|268aa|up_8|NZ_CP023609.1_358908_359712_-	COG4424, COG4424, Uncharacterized protein conserved in bacteria [Function unknown]	NA|466aa|up_7|NZ_CP023609.1_359721_361119_-	cd16027, SGSH, N-sulfoglucosamine sulfohydrolase (SGSH; sulfamidase)	NA|592aa|up_6|NZ_CP023609.1_361297_363073_+	pfam00934, PE, PE family	NA|76aa|up_5|NZ_CP023609.1_363215_363443_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|101aa|up_4|NZ_CP023609.1_363439_363742_+	NA	NA|74aa|up_3|NZ_CP023609.1_363789_364011_+	PHA01748, PHA01748, hypothetical protein	NA|142aa|up_2|NZ_CP023609.1_364007_364433_+	cd18755, PIN_MtVapC3_VapC21-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC3, VapC21 and related proteins	NA|211aa|up_1|NZ_CP023609.1_364568_365201_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|303aa|up_0|NZ_CP023609.1_365197_366106_+	cd09810, LPOR_like_SDR_c_like, light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs	NA|224aa|down_0|NZ_CP023609.1_375861_376533_+	TIGR02476, BluB, 5,6-dimethylbenzimidazole synthase	NA|161aa|down_1|NZ_CP023609.1_376520_377003_-	NA	NA|239aa|down_2|NZ_CP023609.1_377060_377777_+	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|219aa|down_3|NZ_CP023609.1_377878_378535_+	COG3786, COG3786, Uncharacterized protein conserved in bacteria [Function unknown]	NA|164aa|down_4|NZ_CP023609.1_378604_379096_-	pfam13577, SnoaL_4, SnoaL-like domain	NA|410aa|down_5|NZ_CP023609.1_379119_380349_+	NA	NA|621aa|down_6|NZ_CP023609.1_380503_382366_+	COG0443, DnaK, Molecular chaperone [Posttranslational modification, protein turnover, chaperones]	NA|129aa|down_7|NZ_CP023609.1_382437_382824_+	COG0326, HtpG, Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]	NA|221aa|down_8|NZ_CP023609.1_382826_383489_-	pfam11259, DUF3060, Protein of unknown function (DUF3060)	NA|295aa|down_9|NZ_CP023609.1_383549_384434_+	COG2273, SKN1, Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]
GCF_002447595.1_ASM244759v1	NZ_CP023609	Mycobacterium tuberculosis strain LN55 chromosome, complete genome	3	691929-692005	2	CRISPRCasFinder	no	c2c9_V-U4	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type V-U4	TGAGGTGCGGCGTGAGCGCGGGT	23	0	0	NA	NA	NA	1	1	TypeV-U4	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA	NA|136aa|up_9|NZ_CP023609.1_677824_678232_+	cd18696, PIN_MtVapC26-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC26 and related proteins	NA|229aa|up_8|NZ_CP023609.1_678291_678978_-	pfam10738, Lpp-LpqN, Probable lipoprotein LpqN	NA|878aa|up_7|NZ_CP023609.1_679131_681765_+	COG3537, COG3537, Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]	NA|796aa|up_6|NZ_CP023609.1_681787_684175_-	pfam03706, LPG_synthase_TM, Lysylphosphatidylglycerol synthase TM region	NA|241aa|up_5|NZ_CP023609.1_684312_685035_+	COG2186, FadR, Transcriptional regulators [Transcription]	NA|266aa|up_4|NZ_CP023609.1_685031_685829_+	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_CP023609.1_685830_686718_+	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_CP023609.1_686723_687938_+	pfam11887, Mce4_CUP1, Cholesterol uptake porter CUP1 of Mce4, putative	NA|344aa|up_1|NZ_CP023609.1_687934_688966_+	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_CP023609.1_688962_690408_+	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|517aa|down_0|NZ_CP023609.1_693140_694691_+	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_CP023609.1_694742_695135_-	cd18768, PIN_MtVapC4-C5-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins	NA|86aa|down_2|NZ_CP023609.1_695131_695389_-	COG4118, Phd, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|412aa|down_3|NZ_CP023609.1_695571_696807_-	COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General function prediction only]	NA|138aa|down_4|NZ_CP023609.1_697057_697471_-	cd18681, PIN_MtVapC27-VapC40_like, VapC-like PIN domain of Mycobacterium tuberculosis VapC27, and VapC40, and related proteins	NA|79aa|down_5|NZ_CP023609.1_697467_697704_-	COG2002, AbrB, Regulators of stationary/sporulation gene expression [Transcription]	NA|169aa|down_6|NZ_CP023609.1_697807_698314_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|157aa|down_7|NZ_CP023609.1_698427_698898_-	PRK10755, PRK10755, two-component system sensor histidine kinase PmrB	NA|254aa|down_8|NZ_CP023609.1_698941_699703_-	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_CP023609.1_699759_700071_+	pfam03413, PepSY, Peptidase propeptide and YPEB domain
GCF_002447595.1_ASM244759v1	NZ_CP023609	Mycobacterium tuberculosis strain LN55 chromosome, complete genome	4	926496-927443	1	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	CGGGGCCGGCGGNNCCGGCGG	21	1	3	927279-927314|927279-927314|927279-927314	NZ_CP023609.1_675031-674996|NZ_CP023609.1_1213636-1213671|NZ_CP023609.1_2423618-2423583	NA	19	19	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|NZ_CP023609.1_931453_932005_-,NA|81aa|down_8|NZ_CP023609.1_937468_937711_+	NA|685aa|up_9|NZ_CP023609.1_914135_916190_-	TIGR00350, Transcriptional_regulator_LytR, cell envelope-related function transcriptional attenuator common domain	NA|389aa|up_8|NZ_CP023609.1_916355_917522_-	TIGR00737, Probable_tRNA-dihydrouridine_synthase, putative TIM-barrel protein, nifR3 family	NA|339aa|up_7|NZ_CP023609.1_917609_918626_-	cd01050, Acyl_ACP_Desat, Acyl ACP desaturase, ferritin-like diiron-binding domain	NA|214aa|up_6|NZ_CP023609.1_918787_919429_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|352aa|up_5|NZ_CP023609.1_919509_920565_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	csa3|131aa|up_4|NZ_CP023609.1_920616_921009_-	smart00418, HTH_ARSR, helix_turn_helix, Arsenical Resistance Operon Repressor	NA|141aa|up_3|NZ_CP023609.1_921066_921489_-	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|97aa|up_2|NZ_CP023609.1_921450_921741_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|302aa|up_1|NZ_CP023609.1_921845_922751_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|272aa|up_0|NZ_CP023609.1_922769_923585_-	TIGR04255, hypothetical_protein, TIGR04255 family protein	NA|883aa|down_0|NZ_CP023609.1_927712_930361_-	pfam00934, PE, PE family	NA|215aa|down_1|NZ_CP023609.1_930828_931473_+	pfam14032, PknH_C, PknH-like extracellular domain	NA|184aa|down_2|NZ_CP023609.1_931453_932005_-	NA	NA|241aa|down_3|NZ_CP023609.1_932085_932808_-	COG4849, COG4849, Predicted nucleotidyltransferase [General function prediction    only]	NA|343aa|down_4|NZ_CP023609.1_932878_933907_-	COG4861, COG4861, Uncharacterized protein conserved in bacteria [Function unknown]	NA|257aa|down_5|NZ_CP023609.1_934595_935366_+	pfam01427, Peptidase_M15, D-ala-D-ala dipeptidase	NA|271aa|down_6|NZ_CP023609.1_935452_936265_+	pfam13847, Methyltransf_31, Methyltransferase domain	NA|287aa|down_7|NZ_CP023609.1_936332_937193_-	TIGR01250, Proline_iminopeptidase, proline-specific peptidase, Bacillus coagulans-type subfamily	NA|81aa|down_8|NZ_CP023609.1_937468_937711_+	NA	NA|431aa|down_9|NZ_CP023609.1_937987_939280_+	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily
GCF_002447595.1_ASM244759v1	NZ_CP023609	Mycobacterium tuberculosis strain LN55 chromosome, complete genome	5	1191203-1191311	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|NZ_CP023609.1_1180570_1182202_+	cd12119, ttLC_FACS_AlkK_like, Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles	NA|355aa|up_8|NZ_CP023609.1_1182277_1183342_+	COG3804, COG3804, Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]	NA|158aa|up_7|NZ_CP023609.1_1183394_1183868_+	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|NZ_CP023609.1_1183901_1184765_+	cd01908, YafJ, Glutamine amidotransferases class-II (Gn-AT)_YafJ-type	NA|286aa|up_5|NZ_CP023609.1_1184769_1185627_+	COG1752, RssA, Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]	NA|361aa|up_4|NZ_CP023609.1_1185627_1186710_-	cd07228, Pat_NTE_like_bacteria, Bacterial patatin-like phospholipase domain containing protein 6	NA|140aa|up_3|NZ_CP023609.1_1186790_1187210_-	pfam17301, LpqV, Putative lipoprotein LpqV	NA|189aa|up_2|NZ_CP023609.1_1187321_1187888_+	cd10548, cupin_CDO, cysteine dioxygenase, cupin domain	NA|132aa|up_1|NZ_CP023609.1_1187884_1188280_+	cd01447, Polysulfide_ST, Polysulfide-sulfurtransferase - Rhodanese Homology Domain	NA|668aa|up_0|NZ_CP023609.1_1188307_1190311_-	pfam00934, PE, PE family	NA|588aa|down_0|NZ_CP023609.1_1192396_1194160_-	COG4425, COG4425, Predicted membrane protein [Function unknown]	NA|258aa|down_1|NZ_CP023609.1_1194156_1194930_-	PRK05862, PRK05862, enoyl-CoA hydratase; Provisional	NA|346aa|down_2|NZ_CP023609.1_1194941_1195979_-	PRK05617, PRK05617, 3-hydroxyisobutyryl-CoA hydrolase; Provisional	NA|279aa|down_3|NZ_CP023609.1_1196165_1197002_+	COG4760, COG4760, Predicted membrane protein [Function unknown]	NA|284aa|down_4|NZ_CP023609.1_1197117_1197969_+	pfam18741, MTES_1575, REase_MTES_1575	NA|406aa|down_5|NZ_CP023609.1_1198042_1199260_-	PRK07851, PRK07851, acetyl-CoA C-acetyltransferase	NA|315aa|down_6|NZ_CP023609.1_1199312_1200257_-	cd01836, FeeA_FeeB_like, SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases	NA|356aa|down_7|NZ_CP023609.1_1200479_1201547_+	COG0657, Aes, Esterase/lipase [Lipid metabolism]	NA|465aa|down_8|NZ_CP023609.1_1201603_1202998_+	TIGR01137, Cystathionine_beta-synthase, cystathionine beta-synthase	NA|241aa|down_9|NZ_CP023609.1_1203199_1203922_+	pfam06271, RDD, RDD family
GCF_002447595.1_ASM244759v1	NZ_CP023609	Mycobacterium tuberculosis strain LN55 chromosome, complete genome	6	1488988-1489107	2	PILER-CR	no	DinG	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type IV-A	AACCCGCCGGTGCCGCCGGCACCGCCGGCG	30	1	1	1489018-1489036	NZ_CP023609.1_399548-399566	NA	2	2	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|99aa|up_3|NZ_CP023609.1_1484878_1485175_+,NA	NA|166aa|up_9|NZ_CP023609.1_1477030_1477528_-	PRK00901, PRK00901, methylated-DNA--protein-cysteine methyltransferase; Provisional	NA|497aa|up_8|NZ_CP023609.1_1477524_1479015_-	COG0122, AlkA, 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]	NA|542aa|up_7|NZ_CP023609.1_1479095_1480721_-	cd07302, CHD, cyclase homology domain	NA|536aa|up_6|NZ_CP023609.1_1480790_1482398_-	cd07302, CHD, cyclase homology domain	NA|568aa|up_5|NZ_CP023609.1_1482410_1484114_-	COG2114, CyaA, Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]	NA|224aa|up_4|NZ_CP023609.1_1484184_1484856_+	PRK03298, PRK03298, endonuclease NucS	NA|99aa|up_3|NZ_CP023609.1_1484878_1485175_+	NA	NA|153aa|up_2|NZ_CP023609.1_1485209_1485668_-	cd07249, MMCE, Methylmalonyl-CoA epimerase (MMCE)	NA|394aa|up_1|NZ_CP023609.1_1485746_1486928_+	PRK05790, PRK05790, putative acyltransferase; Provisional	NA|305aa|up_0|NZ_CP023609.1_1487057_1487972_+	COG3118, COG3118, Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]	NA|732aa|down_0|NZ_CP023609.1_1489977_1492173_-	PRK05402, PRK05402, 1,4-alpha-glucan branching protein GlgB	NA|702aa|down_1|NZ_CP023609.1_1492180_1494286_-	cd11344, AmyAc_GlgE_like, Alpha amylase catalytic domain found in GlgE-like proteins	NA|864aa|down_2|NZ_CP023609.1_1494424_1497016_+	cd04299, GT35_Glycogen_Phosphorylase-like, proteins similar to glycogen phosphorylase	DinG|665aa|down_3|NZ_CP023609.1_1497055_1499050_-	COG1199, DinG, Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]	NA|449aa|down_4|NZ_CP023609.1_1499073_1500420_-	PRK09243, PRK09243, nicotinate phosphoribosyltransferase; Validated	NA|102aa|down_5|NZ_CP023609.1_1500521_1500827_+	PRK00033, clpS, ATP-dependent Clp protease adaptor protein ClpS; Reviewed	NA|219aa|down_6|NZ_CP023609.1_1500786_1501443_+	pfam09438, DUF2017, Domain of unknown function (DUF2017)	NA|345aa|down_7|NZ_CP023609.1_1501459_1502494_+	COG3191, DmpA, L-aminopeptidase/D-esterase [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]	NA|147aa|down_8|NZ_CP023609.1_1502501_1502942_+	cd08070, MPN_like, Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding)	NA|94aa|down_9|NZ_CP023609.1_1502963_1503245_+	cd17074, Ubl_CysO_like, ubiquitin-like (Ubl) domain found in Mycobacterium tuberculosis CysO and similar proteins
GCF_002447595.1_ASM244759v1	NZ_CP023609	Mycobacterium tuberculosis strain LN55 chromosome, complete genome	7	1572046-1573118	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	1572246-1572267	NZ_CP023609.1_1211950-1211929	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|NZ_CP023609.1_1563809_1564127_+,NA	NA|103aa|up_9|NZ_CP023609.1_1561324_1561633_+	pfam00934, PE, PE family	NA|540aa|up_8|NZ_CP023609.1_1561629_1563249_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|106aa|up_7|NZ_CP023609.1_1563809_1564127_+	NA	NA|209aa|up_6|NZ_CP023609.1_1564261_1564888_+	PRK00300, gmk, guanylate kinase; Provisional	NA|111aa|up_5|NZ_CP023609.1_1564953_1565286_+	TIGR00690, DNA-directed_RNA_polymerase_subunit_omega, DNA-directed RNA polymerase, omega subunit	NA|419aa|up_4|NZ_CP023609.1_1565301_1566558_+	PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated	NA|404aa|up_3|NZ_CP023609.1_1566685_1567897_+	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|493aa|up_2|NZ_CP023609.1_1567969_1569448_-	COG2072, TrkA, Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]	NA|462aa|up_1|NZ_CP023609.1_1569444_1570830_-	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|345aa|up_0|NZ_CP023609.1_1570907_1571942_+	smart00342, HTH_ARAC, helix_turn_helix, arabinose operon control protein	NA|134aa|down_0|NZ_CP023609.1_1573972_1574374_-	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_CP023609.1_1574370_1574628_-	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|320aa|down_2|NZ_CP023609.1_1574710_1575670_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|321aa|down_3|NZ_CP023609.1_1575694_1576657_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|201aa|down_4|NZ_CP023609.1_1576790_1577393_+	COG3714, COG3714, Predicted membrane protein [Function unknown]	NA|656aa|down_5|NZ_CP023609.1_1577473_1579441_+	PRK14873, PRK14873, primosomal protein N'	NA|275aa|down_6|NZ_CP023609.1_1579458_1580283_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|161aa|down_7|NZ_CP023609.1_1580451_1580934_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|275aa|down_8|NZ_CP023609.1_1581005_1581830_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|313aa|down_9|NZ_CP023609.1_1582026_1582965_+	PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed
GCF_002447595.1_ASM244759v1	NZ_CP023609	Mycobacterium tuberculosis strain LN55 chromosome, complete genome	8	1636464-1636690	3	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|NZ_CP023609.1_1622966_1623080_-,NA|137aa|up_7|NZ_CP023609.1_1623129_1623540_-,NA|288aa|down_2|NZ_CP023609.1_1640507_1641371_+	NA|162aa|up_9|NZ_CP023609.1_1622049_1622535_-	cd07820, SRPBCC_3, Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins	NA|38aa|up_8|NZ_CP023609.1_1622966_1623080_-	NA	NA|137aa|up_7|NZ_CP023609.1_1623129_1623540_-	NA	NA|248aa|up_6|NZ_CP023609.1_1623556_1624300_-	pfam01182, Glucosamine_iso, Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase	NA|305aa|up_5|NZ_CP023609.1_1624296_1625211_-	TIGR00534, Putative_OxPP_cycle_protein_OpcA, glucose-6-phosphate dehydrogenase assembly protein OpcA	NA|515aa|up_4|NZ_CP023609.1_1625263_1626808_-	PRK05722, PRK05722, glucose-6-phosphate 1-dehydrogenase; Validated	NA|374aa|up_3|NZ_CP023609.1_1626804_1627926_-	PRK03343, PRK03343, transaldolase; Validated	NA|701aa|up_2|NZ_CP023609.1_1627942_1630045_-	COG0021, TktA, Transketolase [Carbohydrate transport and metabolism]	NA|1330aa|up_1|NZ_CP023609.1_1630483_1634473_-	pfam00934, PE, PE family	NA|309aa|up_0|NZ_CP023609.1_1634874_1635801_+	PRK04375, PRK04375, protoheme IX farnesyltransferase; Provisional	NA|422aa|down_0|NZ_CP023609.1_1638208_1639474_+	COG2508, COG2508, Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]	NA|329aa|down_1|NZ_CP023609.1_1639501_1640488_-	cd05286, QOR2, Quinone oxidoreductase (QOR)	NA|288aa|down_2|NZ_CP023609.1_1640507_1641371_+	NA	NA|311aa|down_3|NZ_CP023609.1_1641320_1642253_-	COG1612, CtaA, Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]	NA|262aa|down_4|NZ_CP023609.1_1642364_1643150_-	TIGR00025, Mtu_efflux, ABC transporter efflux protein, DrrB family	NA|314aa|down_5|NZ_CP023609.1_1643146_1644088_-	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]	NA|592aa|down_6|NZ_CP023609.1_1644190_1645966_-	TIGR03459, crt_membr, carotene biosynthesis associated membrane protein	NA|269aa|down_7|NZ_CP023609.1_1646013_1646820_+	COG2345, COG2345, Predicted transcriptional regulator [Transcription]	NA|847aa|down_8|NZ_CP023609.1_1646816_1649357_+	TIGR01980, UPF0051_protein_slr0074, FeS assembly protein SufB	NA|398aa|down_9|NZ_CP023609.1_1649353_1650547_+	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]
GCF_002447595.1_ASM244759v1	NZ_CP023609	Mycobacterium tuberculosis strain LN55 chromosome, complete genome	9	2088112-2088366	2	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	2088193-2088210|2088193-2088210|2088283-2088300	NZ_CP023609.1_401027-401010|NZ_CP023609.1_607356-607339|NZ_CP023609.1_3449962-3449945	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|NZ_CP023609.1_2087471_2087735_-,NA	NA|165aa|up_9|NZ_CP023609.1_2073765_2074260_+	pfam02577, DNase-RNase, Bifunctional nuclease	NA|226aa|up_8|NZ_CP023609.1_2074663_2075341_+	cd01105, HTH_GlnR-like, Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators	NA|942aa|up_7|NZ_CP023609.1_2075699_2078525_+	PRK05367, PRK05367, aminomethyl-transferring glycine dehydrogenase	NA|287aa|up_6|NZ_CP023609.1_2078751_2079612_-	PRK03204, PRK03204, haloalkane dehalogenase; Provisional	NA|289aa|up_5|NZ_CP023609.1_2079652_2080519_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|629aa|up_4|NZ_CP023609.1_2080523_2082410_-	TIGR00976, Hypothetical_protein_Rv1835c/MT1883/Mb1866c	NA|678aa|up_3|NZ_CP023609.1_2082425_2084459_-	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_CP023609.1_2084578_2086804_-	PRK02999, PRK02999, malate synthase G; Provisional	NA|132aa|up_1|NZ_CP023609.1_2087079_2087475_-	COG1848, COG1848, Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]	NA|88aa|up_0|NZ_CP023609.1_2087471_2087735_-	NA	NA|346aa|down_0|NZ_CP023609.1_2089503_2090541_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|456aa|down_1|NZ_CP023609.1_2090540_2091908_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|479aa|down_2|NZ_CP023609.1_2092081_2093518_-	PRK07807, PRK07807, GuaB1 family IMP dehydrogenase-related protein	NA|484aa|down_3|NZ_CP023609.1_2093553_2095005_-	PRK09287, PRK09287, NADP-dependent phosphogluconate dehydrogenase	NA|317aa|down_4|NZ_CP023609.1_2095034_2095985_-	cd07326, M56_BlaR1_MecR1_like, Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase	NA|139aa|down_5|NZ_CP023609.1_2095999_2096416_-	COG3682, COG3682, Predicted transcriptional regulator [Transcription]	NA|141aa|down_6|NZ_CP023609.1_2096693_2097116_+	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_7|NZ_CP023609.1_2097164_2097467_+	pfam00547, Urease_gamma, Urease, gamma subunit	NA|105aa|down_8|NZ_CP023609.1_2097463_2097778_+	PRK13202, ureB, urease subunit beta; Reviewed	NA|578aa|down_9|NZ_CP023609.1_2097777_2099511_+	PRK13206, ureC, urease subunit alpha; Reviewed
GCF_002447595.1_ASM244759v1	NZ_CP023609	Mycobacterium tuberculosis strain LN55 chromosome, complete genome	10	2163191-2163295	5	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CAACCCAAACGGATTAATCGCGAAACCAGGGATCGT	36	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|157aa|up_9|NZ_CP023609.1_2152252_2152723_-,NA|136aa|up_1|NZ_CP023609.1_2159734_2160142_-,NA|127aa|down_6|NZ_CP023609.1_2176364_2176745_-	NA|157aa|up_9|NZ_CP023609.1_2152252_2152723_-	NA	NA|155aa|up_8|NZ_CP023609.1_2153062_2153527_-	pfam14081, DUF4262, Domain of unknown function (DUF4262)	NA|741aa|up_7|NZ_CP023609.1_2153702_2155925_-	PRK15061, PRK15061, catalase/peroxidase	NA|148aa|up_6|NZ_CP023609.1_2155962_2156406_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|198aa|up_5|NZ_CP023609.1_2156519_2157113_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_4|NZ_CP023609.1_2157195_2157801_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_3|NZ_CP023609.1_2157900_2158905_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_2|NZ_CP023609.1_2159004_2159757_+	cd16282, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain	NA|136aa|up_1|NZ_CP023609.1_2159734_2160142_-	NA	NA|767aa|up_0|NZ_CP023609.1_2160276_2162577_+	PLN02892, PLN02892, isocitrate lyase	NA|988aa|down_0|NZ_CP023609.1_2167463_2170427_-	pfam00823, PPE, PPE family	NA|155aa|down_1|NZ_CP023609.1_2170875_2171340_-	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_2|NZ_CP023609.1_2171437_2172301_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_3|NZ_CP023609.1_2172338_2173610_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_4|NZ_CP023609.1_2173881_2174997_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_5|NZ_CP023609.1_2174987_2176328_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_6|NZ_CP023609.1_2176364_2176745_-	NA	NA|621aa|down_7|NZ_CP023609.1_2176901_2178764_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_8|NZ_CP023609.1_2178771_2179251_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_9|NZ_CP023609.1_2179487_2180261_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]
GCF_002447595.1_ASM244759v1	NZ_CP023609	Mycobacterium tuberculosis strain LN55 chromosome, complete genome	11	2168629-2168848	6	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_2|NZ_CP023609.1_2159734_2160142_-,NA|127aa|down_5|NZ_CP023609.1_2176364_2176745_-	NA|155aa|up_9|NZ_CP023609.1_2153062_2153527_-	pfam14081, DUF4262, Domain of unknown function (DUF4262)	NA|741aa|up_8|NZ_CP023609.1_2153702_2155925_-	PRK15061, PRK15061, catalase/peroxidase	NA|148aa|up_7|NZ_CP023609.1_2155962_2156406_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|198aa|up_6|NZ_CP023609.1_2156519_2157113_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_5|NZ_CP023609.1_2157195_2157801_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_4|NZ_CP023609.1_2157900_2158905_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_3|NZ_CP023609.1_2159004_2159757_+	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_CP023609.1_2159734_2160142_-	NA	NA|767aa|up_1|NZ_CP023609.1_2160276_2162577_+	PLN02892, PLN02892, isocitrate lyase	NA|1460aa|up_0|NZ_CP023609.1_2162746_2167126_-	pfam00823, PPE, PPE family	NA|155aa|down_0|NZ_CP023609.1_2170875_2171340_-	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_CP023609.1_2171437_2172301_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_2|NZ_CP023609.1_2172338_2173610_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_3|NZ_CP023609.1_2173881_2174997_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_4|NZ_CP023609.1_2174987_2176328_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_5|NZ_CP023609.1_2176364_2176745_-	NA	NA|621aa|down_6|NZ_CP023609.1_2176901_2178764_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_7|NZ_CP023609.1_2178771_2179251_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_8|NZ_CP023609.1_2179487_2180261_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]	NA|256aa|down_9|NZ_CP023609.1_2180264_2181032_-	PRK05867, PRK05867, SDR family oxidoreductase
GCF_002447595.1_ASM244759v1	NZ_CP023609	Mycobacterium tuberculosis strain LN55 chromosome, complete genome	12	3118936-3120290	4,7,3	PILER-CR,CRISPRCasFinder,CRT	no	c2c9_V-U4,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-A,Type III-B,Type III-D,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	17,17,18	18	TypeIII-A,TypeIII-B,TypeIII-D,TypeIII-C	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_8|NZ_CP023609.1_3112215_3112470_-,NA|135aa|up_7|NZ_CP023609.1_3112617_3113022_+,NA|64aa|up_6|NZ_CP023609.1_3113018_3113210_+,NA|86aa|up_4|NZ_CP023609.1_3114796_3115054_+,NA|104aa|up_3|NZ_CP023609.1_3115158_3115470_+,NA|203aa|up_2|NZ_CP023609.1_3115889_3116498_+,NA	NA|92aa|up_9|NZ_CP023609.1_3111764_3112040_+	COG4453, COG4453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|85aa|up_8|NZ_CP023609.1_3112215_3112470_-	NA	NA|135aa|up_7|NZ_CP023609.1_3112617_3113022_+	NA	NA|64aa|up_6|NZ_CP023609.1_3113018_3113210_+	NA	NA|385aa|up_5|NZ_CP023609.1_3113408_3114563_+	pfam00665, rve, Integrase core domain	NA|86aa|up_4|NZ_CP023609.1_3114796_3115054_+	NA	NA|104aa|up_3|NZ_CP023609.1_3115158_3115470_+	NA	NA|203aa|up_2|NZ_CP023609.1_3115889_3116498_+	NA	NA|470aa|up_1|NZ_CP023609.1_3116568_3117978_+	pfam00665, rve, Integrase core domain	NA|271aa|up_0|NZ_CP023609.1_3117974_3118787_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|down_0|NZ_CP023609.1_3120316_3121578_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_1|NZ_CP023609.1_3123375_3123717_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_2|NZ_CP023609.1_3123717_3124734_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm6|383aa|down_3|NZ_CP023609.1_3124746_3125895_-	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	csm5gr7|376aa|down_4|NZ_CP023609.1_3125990_3127118_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_5|NZ_CP023609.1_3127114_3128023_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_6|NZ_CP023609.1_3128003_3128714_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_7|NZ_CP023609.1_3128723_3129098_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_8|NZ_CP023609.1_3129094_3131533_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_9|NZ_CP023609.1_3131529_3132252_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]
GCF_002447595.1_ASM244759v1	NZ_CP023609	Mycobacterium tuberculosis strain LN55 chromosome, complete genome	13	3121613-3123327	8,4,5	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-A,Type III-B,Type III-D,Type III-C	GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGA	36,36,35	0	0	NA	NA	II-B,III-A:II-B,III-A:II-B,III-A	23,23,22	23	TypeIII-A,TypeIII-B,TypeIII-D,TypeIII-C	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_9|NZ_CP023609.1_3112215_3112470_-,NA|135aa|up_8|NZ_CP023609.1_3112617_3113022_+,NA|64aa|up_7|NZ_CP023609.1_3113018_3113210_+,NA|86aa|up_5|NZ_CP023609.1_3114796_3115054_+,NA|104aa|up_4|NZ_CP023609.1_3115158_3115470_+,NA|203aa|up_3|NZ_CP023609.1_3115889_3116498_+,NA	NA|85aa|up_9|NZ_CP023609.1_3112215_3112470_-	NA	NA|135aa|up_8|NZ_CP023609.1_3112617_3113022_+	NA	NA|64aa|up_7|NZ_CP023609.1_3113018_3113210_+	NA	NA|385aa|up_6|NZ_CP023609.1_3113408_3114563_+	pfam00665, rve, Integrase core domain	NA|86aa|up_5|NZ_CP023609.1_3114796_3115054_+	NA	NA|104aa|up_4|NZ_CP023609.1_3115158_3115470_+	NA	NA|203aa|up_3|NZ_CP023609.1_3115889_3116498_+	NA	NA|470aa|up_2|NZ_CP023609.1_3116568_3117978_+	pfam00665, rve, Integrase core domain	NA|271aa|up_1|NZ_CP023609.1_3117974_3118787_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|up_0|NZ_CP023609.1_3120316_3121578_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_0|NZ_CP023609.1_3123375_3123717_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_1|NZ_CP023609.1_3123717_3124734_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm6|383aa|down_2|NZ_CP023609.1_3124746_3125895_-	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	csm5gr7|376aa|down_3|NZ_CP023609.1_3125990_3127118_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_4|NZ_CP023609.1_3127114_3128023_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_5|NZ_CP023609.1_3128003_3128714_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_6|NZ_CP023609.1_3128723_3129098_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_7|NZ_CP023609.1_3129094_3131533_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_8|NZ_CP023609.1_3131529_3132252_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	NA|182aa|down_9|NZ_CP023609.1_3132651_3133197_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_002447595.1_ASM244759v1	NZ_CP023609	Mycobacterium tuberculosis strain LN55 chromosome, complete genome	14	3740394-3741163	5	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGTNNCCNCCGTTGCCGCC	23	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|96aa|down_4|NZ_CP023609.1_3755036_3755324_-,NA|87aa|down_8|NZ_CP023609.1_3768443_3768704_-	NA|282aa|up_9|NZ_CP023609.1_3719682_3720528_-	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|147aa|up_8|NZ_CP023609.1_3721002_3721443_+	cd04770, HTH_HMRTR, Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators	NA|290aa|up_7|NZ_CP023609.1_3721476_3722346_-	TIGR00766, Uncharacterized_protein_Dda3937_02003, inner membrane protein YhjD	NA|337aa|up_6|NZ_CP023609.1_3722366_3723377_-	PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed	NA|211aa|up_5|NZ_CP023609.1_3723661_3724294_+	PRK14875, PRK14875, acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional	NA|410aa|up_4|NZ_CP023609.1_3724360_3725590_-	PRK08299, PRK08299, NADP-dependent isocitrate dehydrogenase	NA|450aa|up_3|NZ_CP023609.1_3725872_3727222_+	PRK07812, PRK07812, O-acetylhomoserine aminocarboxypropyltransferase; Validated	NA|380aa|up_2|NZ_CP023609.1_3727233_3728373_+	PRK00175, metX, homoserine O-acetyltransferase; Provisional	NA|244aa|up_1|NZ_CP023609.1_3728369_3729101_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|2524aa|up_0|NZ_CP023609.1_3729109_3736681_-	pfam00823, PPE, PPE family	NA|86aa|down_0|NZ_CP023609.1_3742906_3743164_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|3158aa|down_1|NZ_CP023609.1_3743419_3752893_-	pfam00823, PPE, PPE family	NA|149aa|down_2|NZ_CP023609.1_3753518_3753965_+	pfam01548, DEDD_Tnp_IS110, Transposase	NA|247aa|down_3|NZ_CP023609.1_3754001_3754742_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|96aa|down_4|NZ_CP023609.1_3755036_3755324_-	NA	NA|265aa|down_5|NZ_CP023609.1_3767053_3767848_-	pfam08031, BBE, Berberine and berberine like	NA|124aa|down_6|NZ_CP023609.1_3767929_3768301_-	COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production and conversion]	NA|73aa|down_7|NZ_CP023609.1_3768198_3768417_-	pfam01565, FAD_binding_4, FAD binding domain	NA|87aa|down_8|NZ_CP023609.1_3768443_3768704_-	NA	NA|130aa|down_9|NZ_CP023609.1_3768818_3769208_+	pfam05305, DUF732, Protein of unknown function (DUF732)
GCF_002447595.1_ASM244759v1	NZ_CP023609	Mycobacterium tuberculosis strain LN55 chromosome, complete genome	15	4110337-4110425	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_8|NZ_CP023609.1_4100923_4101694_-,NA|119aa|up_3|NZ_CP023609.1_4106828_4107185_+,NA|52aa|up_2|NZ_CP023609.1_4107284_4107440_+,NA|233aa|up_0|NZ_CP023609.1_4109441_4110140_-,NA|126aa|down_6|NZ_CP023609.1_4115660_4116038_+	NA|288aa|up_9|NZ_CP023609.1_4099305_4100169_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|257aa|up_8|NZ_CP023609.1_4100923_4101694_-	NA	NA|549aa|up_7|NZ_CP023609.1_4101690_4103337_-	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]	NA|288aa|up_6|NZ_CP023609.1_4103333_4104197_-	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_CP023609.1_4104189_4105116_-	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_CP023609.1_4105117_4106743_-	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_CP023609.1_4106828_4107185_+	NA	NA|52aa|up_2|NZ_CP023609.1_4107284_4107440_+	NA	NA|652aa|up_1|NZ_CP023609.1_4107450_4109406_+	PRK00174, PRK00174, acetyl-CoA synthetase; Provisional	NA|233aa|up_0|NZ_CP023609.1_4109441_4110140_-	NA	NA|173aa|down_0|NZ_CP023609.1_4110485_4111004_+	pfam07332, Phage_holin_3_6, Putative Actinobacterial Holin-X, holin superfamily III	NA|328aa|down_1|NZ_CP023609.1_4111004_4111988_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|398aa|down_2|NZ_CP023609.1_4111980_4113174_-	pfam13365, Trypsin_2, Trypsin-like peptidase domain	NA|274aa|down_3|NZ_CP023609.1_4113179_4114001_-	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_CP023609.1_4114132_4114816_-	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|246aa|down_5|NZ_CP023609.1_4114815_4115553_-	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]	NA|126aa|down_6|NZ_CP023609.1_4115660_4116038_+	NA	NA|225aa|down_7|NZ_CP023609.1_4116136_4116811_+	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|265aa|down_8|NZ_CP023609.1_4116916_4117711_-	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_CP023609.1_4117717_4118173_-	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
