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_002447675.1_ASM244767v1	NZ_CP023613	Mycobacterium tuberculosis strain LN3584 chromosome, complete genome	1	338092-338314	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_CP023613.1_333165_333348_-,NA	NA|561aa|up_9|NZ_CP023613.1_324572_326255_+	PRK07788, PRK07788, acyl-CoA synthetase; Validated	NA|732aa|up_8|NZ_CP023613.1_326271_328467_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_7|NZ_CP023613.1_328580_329714_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_6|NZ_CP023613.1_329710_330331_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_5|NZ_CP023613.1_330427_331009_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_4|NZ_CP023613.1_330938_331664_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_3|NZ_CP023613.1_331753_332674_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_2|NZ_CP023613.1_332713_333142_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|61aa|up_1|NZ_CP023613.1_333165_333348_-	NA	NA|615aa|up_0|NZ_CP023613.1_333442_335287_-	PRK13875, PRK13875, conjugal transfer protein TrbL; Provisional	NA|537aa|down_0|NZ_CP023613.1_339351_340962_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_1|NZ_CP023613.1_340985_341894_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|632aa|down_2|NZ_CP023613.1_342117_344013_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_3|NZ_CP023613.1_344009_345626_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_4|NZ_CP023613.1_345622_349615_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_5|NZ_CP023613.1_349611_349920_+	pfam00934, PE, PE family	NA|514aa|down_6|NZ_CP023613.1_349922_351464_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_7|NZ_CP023613.1_351512_351806_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|down_8|NZ_CP023613.1_351835_352126_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]	NA|296aa|down_9|NZ_CP023613.1_352136_353024_+	pfam14011, ESX-1_EspG, EspG family
GCF_002447675.1_ASM244767v1	NZ_CP023613	Mycobacterium tuberculosis strain LN3584 chromosome, complete genome	2	366451-367149	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	366739-366780|366814-366846	NZ_CP023613.1_374770-374811|NZ_CP023613.1_373585-373617	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_CP023613.1_363463_363766_+,NA|161aa|down_1|NZ_CP023613.1_376559_377042_-,NA|410aa|down_5|NZ_CP023613.1_379158_380388_+	NA|262aa|up_9|NZ_CP023613.1_358158_358944_+	PRK14103, PRK14103, trans-aconitate 2-methyltransferase; Provisional	NA|268aa|up_8|NZ_CP023613.1_358932_359736_-	COG4424, COG4424, Uncharacterized protein conserved in bacteria [Function unknown]	NA|466aa|up_7|NZ_CP023613.1_359745_361143_-	cd16027, SGSH, N-sulfoglucosamine sulfohydrolase (SGSH; sulfamidase)	NA|592aa|up_6|NZ_CP023613.1_361321_363097_+	pfam00934, PE, PE family	NA|76aa|up_5|NZ_CP023613.1_363239_363467_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|101aa|up_4|NZ_CP023613.1_363463_363766_+	NA	NA|74aa|up_3|NZ_CP023613.1_363813_364035_+	PHA01748, PHA01748, hypothetical protein	NA|142aa|up_2|NZ_CP023613.1_364031_364457_+	cd18755, PIN_MtVapC3_VapC21-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC3, VapC21 and related proteins	NA|211aa|up_1|NZ_CP023613.1_364592_365225_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|303aa|up_0|NZ_CP023613.1_365221_366130_+	cd09810, LPOR_like_SDR_c_like, light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs	NA|224aa|down_0|NZ_CP023613.1_375900_376572_+	TIGR02476, BluB, 5,6-dimethylbenzimidazole synthase	NA|161aa|down_1|NZ_CP023613.1_376559_377042_-	NA	NA|239aa|down_2|NZ_CP023613.1_377099_377816_+	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|219aa|down_3|NZ_CP023613.1_377917_378574_+	COG3786, COG3786, Uncharacterized protein conserved in bacteria [Function unknown]	NA|164aa|down_4|NZ_CP023613.1_378643_379135_-	pfam13577, SnoaL_4, SnoaL-like domain	NA|410aa|down_5|NZ_CP023613.1_379158_380388_+	NA	NA|621aa|down_6|NZ_CP023613.1_380542_382405_+	COG0443, DnaK, Molecular chaperone [Posttranslational modification, protein turnover, chaperones]	NA|129aa|down_7|NZ_CP023613.1_382476_382863_+	COG0326, HtpG, Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]	NA|221aa|down_8|NZ_CP023613.1_382865_383528_-	pfam11259, DUF3060, Protein of unknown function (DUF3060)	NA|295aa|down_9|NZ_CP023613.1_383588_384473_+	COG2273, SKN1, Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]
GCF_002447675.1_ASM244767v1	NZ_CP023613	Mycobacterium tuberculosis strain LN3584 chromosome, complete genome	3	691981-692057	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|72aa|up_9|NZ_CP023613.1_677665_677881_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|136aa|up_8|NZ_CP023613.1_677877_678285_+	cd18696, PIN_MtVapC26-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC26 and related proteins	NA|229aa|up_7|NZ_CP023613.1_678344_679031_-	pfam10738, Lpp-LpqN, Probable lipoprotein LpqN	NA|878aa|up_6|NZ_CP023613.1_679184_681818_+	COG3537, COG3537, Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]	NA|796aa|up_5|NZ_CP023613.1_681840_684228_-	pfam03706, LPG_synthase_TM, Lysylphosphatidylglycerol synthase TM region	NA|241aa|up_4|NZ_CP023613.1_684365_685088_+	COG2186, FadR, Transcriptional regulators [Transcription]	NA|266aa|up_3|NZ_CP023613.1_685084_685882_+	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|296aa|up_2|NZ_CP023613.1_685883_686771_+	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|405aa|up_1|NZ_CP023613.1_686776_687991_+	pfam11887, Mce4_CUP1, Cholesterol uptake porter CUP1 of Mce4, putative	NA|482aa|up_0|NZ_CP023613.1_689014_690460_+	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|517aa|down_0|NZ_CP023613.1_693192_694743_+	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_CP023613.1_694794_695187_-	cd18768, PIN_MtVapC4-C5-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins	NA|86aa|down_2|NZ_CP023613.1_695183_695441_-	COG4118, Phd, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|412aa|down_3|NZ_CP023613.1_695623_696859_-	COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General function prediction only]	NA|138aa|down_4|NZ_CP023613.1_697109_697523_-	cd18681, PIN_MtVapC27-VapC40_like, VapC-like PIN domain of Mycobacterium tuberculosis VapC27, and VapC40, and related proteins	NA|79aa|down_5|NZ_CP023613.1_697519_697756_-	COG2002, AbrB, Regulators of stationary/sporulation gene expression [Transcription]	NA|169aa|down_6|NZ_CP023613.1_697859_698366_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|157aa|down_7|NZ_CP023613.1_698479_698950_-	PRK10755, PRK10755, two-component system sensor histidine kinase PmrB	NA|254aa|down_8|NZ_CP023613.1_698993_699755_-	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_CP023613.1_699811_700123_+	pfam03413, PepSY, Peptidase propeptide and YPEB domain
GCF_002447675.1_ASM244767v1	NZ_CP023613	Mycobacterium tuberculosis strain LN3584 chromosome, complete genome	4	926574-927491	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	NGGNGCCGGNGGNNCCGGCGG	21	1	3	927327-927362|927327-927362|927327-927362	NZ_CP023613.1_675084-675049|NZ_CP023613.1_1213669-1213704|NZ_CP023613.1_2423675-2423640	NA	18	18	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_CP023613.1_931492_932044_-,NA|81aa|down_8|NZ_CP023613.1_937507_937750_+	NA|390aa|up_9|NZ_CP023613.1_916430_917600_-	TIGR00737, Probable_tRNA-dihydrouridine_synthase, putative TIM-barrel protein, nifR3 family	NA|339aa|up_8|NZ_CP023613.1_917687_918704_-	cd01050, Acyl_ACP_Desat, Acyl ACP desaturase, ferritin-like diiron-binding domain	NA|214aa|up_7|NZ_CP023613.1_918865_919507_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|352aa|up_6|NZ_CP023613.1_919587_920643_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	csa3|131aa|up_5|NZ_CP023613.1_920694_921087_-	smart00418, HTH_ARSR, helix_turn_helix, Arsenical Resistance Operon Repressor	NA|141aa|up_4|NZ_CP023613.1_921144_921567_-	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|97aa|up_3|NZ_CP023613.1_921528_921819_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|302aa|up_2|NZ_CP023613.1_921923_922829_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|272aa|up_1|NZ_CP023613.1_922847_923663_-	TIGR04255, hypothetical_protein, TIGR04255 family protein	NA|138aa|up_0|NZ_CP023613.1_924904_925318_+	pfam00934, PE, PE family	NA|880aa|down_0|NZ_CP023613.1_927760_930400_-	pfam00934, PE, PE family	NA|215aa|down_1|NZ_CP023613.1_930867_931512_+	pfam14032, PknH_C, PknH-like extracellular domain	NA|184aa|down_2|NZ_CP023613.1_931492_932044_-	NA	NA|218aa|down_3|NZ_CP023613.1_932193_932847_-	COG4849, COG4849, Predicted nucleotidyltransferase [General function prediction    only]	NA|343aa|down_4|NZ_CP023613.1_932917_933946_-	COG4861, COG4861, Uncharacterized protein conserved in bacteria [Function unknown]	NA|257aa|down_5|NZ_CP023613.1_934634_935405_+	pfam01427, Peptidase_M15, D-ala-D-ala dipeptidase	NA|271aa|down_6|NZ_CP023613.1_935491_936304_+	pfam13847, Methyltransf_31, Methyltransferase domain	NA|287aa|down_7|NZ_CP023613.1_936371_937232_-	TIGR01250, Proline_iminopeptidase, proline-specific peptidase, Bacillus coagulans-type subfamily	NA|81aa|down_8|NZ_CP023613.1_937507_937750_+	NA	NA|431aa|down_9|NZ_CP023613.1_938026_939319_+	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily
GCF_002447675.1_ASM244767v1	NZ_CP023613	Mycobacterium tuberculosis strain LN3584 chromosome, complete genome	5	1191245-1191353	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_CP023613.1_1180612_1182244_+	cd12119, ttLC_FACS_AlkK_like, Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles	NA|355aa|up_8|NZ_CP023613.1_1182319_1183384_+	COG3804, COG3804, Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]	NA|158aa|up_7|NZ_CP023613.1_1183436_1183910_+	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_CP023613.1_1183943_1184807_+	cd01908, YafJ, Glutamine amidotransferases class-II (Gn-AT)_YafJ-type	NA|286aa|up_5|NZ_CP023613.1_1184811_1185669_+	COG1752, RssA, Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]	NA|361aa|up_4|NZ_CP023613.1_1185669_1186752_-	cd07228, Pat_NTE_like_bacteria, Bacterial patatin-like phospholipase domain containing protein 6	NA|140aa|up_3|NZ_CP023613.1_1186832_1187252_-	pfam17301, LpqV, Putative lipoprotein LpqV	NA|189aa|up_2|NZ_CP023613.1_1187363_1187930_+	cd10548, cupin_CDO, cysteine dioxygenase, cupin domain	NA|132aa|up_1|NZ_CP023613.1_1187926_1188322_+	cd01447, Polysulfide_ST, Polysulfide-sulfurtransferase - Rhodanese Homology Domain	NA|668aa|up_0|NZ_CP023613.1_1188349_1190353_-	pfam00934, PE, PE family	NA|588aa|down_0|NZ_CP023613.1_1192438_1194202_-	COG4425, COG4425, Predicted membrane protein [Function unknown]	NA|258aa|down_1|NZ_CP023613.1_1194198_1194972_-	PRK05862, PRK05862, enoyl-CoA hydratase; Provisional	NA|346aa|down_2|NZ_CP023613.1_1194983_1196021_-	PRK05617, PRK05617, 3-hydroxyisobutyryl-CoA hydrolase; Provisional	NA|279aa|down_3|NZ_CP023613.1_1196207_1197044_+	COG4760, COG4760, Predicted membrane protein [Function unknown]	NA|284aa|down_4|NZ_CP023613.1_1197159_1198011_+	pfam18741, MTES_1575, REase_MTES_1575	NA|406aa|down_5|NZ_CP023613.1_1198084_1199302_-	PRK07851, PRK07851, acetyl-CoA C-acetyltransferase	NA|315aa|down_6|NZ_CP023613.1_1199354_1200299_-	cd01836, FeeA_FeeB_like, SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases	NA|356aa|down_7|NZ_CP023613.1_1200521_1201589_+	COG0657, Aes, Esterase/lipase [Lipid metabolism]	NA|465aa|down_8|NZ_CP023613.1_1201645_1203040_+	TIGR01137, Cystathionine_beta-synthase, cystathionine beta-synthase	NA|241aa|down_9|NZ_CP023613.1_1203241_1203964_+	pfam06271, RDD, RDD family
GCF_002447675.1_ASM244767v1	NZ_CP023613	Mycobacterium tuberculosis strain LN3584 chromosome, complete genome	6	1211879-1212726	4	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GGCGGTGTCGGCGGTGCCGGCGG	23	2	69	1212436-1212457|1212436-1212457|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571|1212553-1212571	NZ_CP023613.1_837387-837408|NZ_CP023613.1_1217564-1217585|NZ_CP023613.1_1572747-1572729|NZ_CP023613.1_674748-674730|NZ_CP023613.1_1213396-1213414|NZ_CP023613.1_1217537-1217555|NZ_CP023613.1_1217609-1217627|NZ_CP023613.1_1630619-1630601|NZ_CP023613.1_1990704-1990686|NZ_CP023613.1_2061427-2061409|NZ_CP023613.1_2061874-2061856|NZ_CP023613.1_2061973-2061955|NZ_CP023613.1_2801989-2801971|NZ_CP023613.1_2805516-2805498|NZ_CP023613.1_1633445-1633427|NZ_CP023613.1_150188-150206|NZ_CP023613.1_333788-333770|NZ_CP023613.1_335207-335189|NZ_CP023613.1_335660-335642|NZ_CP023613.1_335711-335693|NZ_CP023613.1_335720-335702|NZ_CP023613.1_337991-337973|NZ_CP023613.1_338387-338369|NZ_CP023613.1_338416-338434|NZ_CP023613.1_338510-338492|NZ_CP023613.1_363041-363023|NZ_CP023613.1_443405-443387|NZ_CP023613.1_546749-546731|NZ_CP023613.1_623939-623957|NZ_CP023613.1_624161-624179|NZ_CP023613.1_673914-673896|NZ_CP023613.1_840170-840188|NZ_CP023613.1_1090903-1090921|NZ_CP023613.1_1091551-1091569|NZ_CP023613.1_1212925-1212943|NZ_CP023613.1_1213315-1213333|NZ_CP023613.1_1217957-1217975|NZ_CP023613.1_1489130-1489112|NZ_CP023613.1_1618583-1618565|NZ_CP023613.1_1619036-1619018|NZ_CP023613.1_1635958-1635940|NZ_CP023613.1_1635967-1635949|NZ_CP023613.1_1864237-1864219|NZ_CP023613.1_1864765-1864747|NZ_CP023613.1_2001340-2001358|NZ_CP023613.1_2088697-2088679|NZ_CP023613.1_2303397-2303379|NZ_CP023613.1_2356851-2356833|NZ_CP023613.1_2419501-2419519|NZ_CP023613.1_2423588-2423570|NZ_CP023613.1_2569082-2569064|NZ_CP023613.1_2693379-2693397|NZ_CP023613.1_2795303-2795285|NZ_CP023613.1_2795885-2795867|NZ_CP023613.1_3054475-3054493|NZ_CP023613.1_3054574-3054592|NZ_CP023613.1_3705329-3705347|NZ_CP023613.1_3737306-3737288|NZ_CP023613.1_3737930-3737912|NZ_CP023613.1_3738173-3738155|NZ_CP023613.1_3738306-3738288|NZ_CP023613.1_3802160-3802178|NZ_CP023613.1_3802343-3802361|NZ_CP023613.1_3802511-3802529|NZ_CP023613.1_3930332-3930350|NZ_CP023613.1_3932062-3932080|NZ_CP023613.1_3940551-3940569|NZ_CP023613.1_4031526-4031508|NZ_CP023613.1_4094051-4094069	NA	15	15	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|89aa|up_3|NZ_CP023613.1_1207311_1207578_+,NA|61aa|down_3|NZ_CP023613.1_1215144_1215327_+,NA|35aa|down_4|NZ_CP023613.1_1215436_1215541_+	NA|465aa|up_9|NZ_CP023613.1_1201645_1203040_+	TIGR01137, Cystathionine_beta-synthase, cystathionine beta-synthase	NA|241aa|up_8|NZ_CP023613.1_1203241_1203964_+	pfam06271, RDD, RDD family	NA|389aa|up_7|NZ_CP023613.1_1203995_1205162_+	PRK07811, PRK07811, cystathionine gamma-synthase; Provisional	NA|165aa|up_6|NZ_CP023613.1_1205232_1205727_-	PRK00226, greA, transcription elongation factor GreA; Reviewed	NA|145aa|up_5|NZ_CP023613.1_1205912_1206347_-	pfam14155, DUF4307, Domain of unknown function (DUF4307)	NA|289aa|up_4|NZ_CP023613.1_1206448_1207315_+	TIGR03446, mycothiol_Mca, mycothiol conjugate amidase Mca	NA|89aa|up_3|NZ_CP023613.1_1207311_1207578_+	NA	NA|674aa|up_2|NZ_CP023613.1_1207564_1209586_+	COG1331, COG1331, Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]	NA|243aa|up_1|NZ_CP023613.1_1209684_1210413_-	TIGR01065, Hypothetical_UPF0073_protein_yqfA	NA|263aa|up_0|NZ_CP023613.1_1210523_1211312_+	PRK14828, PRK14828, undecaprenyl pyrophosphate synthase; Provisional	NA|107aa|down_0|NZ_CP023613.1_1213959_1214280_+	COG0020, UppS, Undecaprenyl pyrophosphate synthase [Lipid metabolism]	NA|145aa|down_1|NZ_CP023613.1_1214432_1214867_+	pfam00934, PE, PE family	NA|56aa|down_2|NZ_CP023613.1_1214965_1215133_+	smart00637, CBD_II, CBD_II domain	NA|61aa|down_3|NZ_CP023613.1_1215144_1215327_+	NA	NA|35aa|down_4|NZ_CP023613.1_1215436_1215541_+	NA	NA|152aa|down_5|NZ_CP023613.1_1215518_1215974_+	pfam01670, Glyco_hydro_12, Glycosyl hydrolase family 12	NA|854aa|down_6|NZ_CP023613.1_1216388_1218950_+	pfam00934, PE, PE family	NA|313aa|down_7|NZ_CP023613.1_1219167_1220106_-	PRK05439, PRK05439, pantothenate kinase; Provisional	NA|427aa|down_8|NZ_CP023613.1_1220493_1221774_+	PRK00011, glyA, serine hydroxymethyltransferase; Reviewed	NA|276aa|down_9|NZ_CP023613.1_1221878_1222706_+	cd01050, Acyl_ACP_Desat, Acyl ACP desaturase, ferritin-like diiron-binding domain
GCF_002447675.1_ASM244767v1	NZ_CP023613	Mycobacterium tuberculosis strain LN3584 chromosome, complete genome	7	2088169-2088423	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	2088250-2088267|2088250-2088267|2088340-2088357	NZ_CP023613.1_401066-401049|NZ_CP023613.1_607394-607377|NZ_CP023613.1_3450082-3450065	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_CP023613.1_2087528_2087792_-,NA	NA|165aa|up_9|NZ_CP023613.1_2073822_2074317_+	pfam02577, DNase-RNase, Bifunctional nuclease	NA|226aa|up_8|NZ_CP023613.1_2074720_2075398_+	cd01105, HTH_GlnR-like, Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators	NA|942aa|up_7|NZ_CP023613.1_2075756_2078582_+	PRK05367, PRK05367, aminomethyl-transferring glycine dehydrogenase	NA|287aa|up_6|NZ_CP023613.1_2078808_2079669_-	PRK03204, PRK03204, haloalkane dehalogenase; Provisional	NA|289aa|up_5|NZ_CP023613.1_2079709_2080576_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|629aa|up_4|NZ_CP023613.1_2080580_2082467_-	TIGR00976, Hypothetical_protein_Rv1835c/MT1883/Mb1866c	NA|678aa|up_3|NZ_CP023613.1_2082482_2084516_-	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_CP023613.1_2084635_2086861_-	PRK02999, PRK02999, malate synthase G; Provisional	NA|132aa|up_1|NZ_CP023613.1_2087136_2087532_-	COG1848, COG1848, Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]	NA|88aa|up_0|NZ_CP023613.1_2087528_2087792_-	NA	NA|346aa|down_0|NZ_CP023613.1_2089560_2090598_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|456aa|down_1|NZ_CP023613.1_2090597_2091965_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|479aa|down_2|NZ_CP023613.1_2092138_2093575_-	PRK07807, PRK07807, GuaB1 family IMP dehydrogenase-related protein	NA|484aa|down_3|NZ_CP023613.1_2093610_2095062_-	PRK09287, PRK09287, NADP-dependent phosphogluconate dehydrogenase	NA|317aa|down_4|NZ_CP023613.1_2095091_2096042_-	cd07326, M56_BlaR1_MecR1_like, Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase	NA|139aa|down_5|NZ_CP023613.1_2096056_2096473_-	COG3682, COG3682, Predicted transcriptional regulator [Transcription]	NA|141aa|down_6|NZ_CP023613.1_2096750_2097173_+	COG2050, PaaI, HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis,    transport, and catabolism]	NA|101aa|down_7|NZ_CP023613.1_2097221_2097524_+	pfam00547, Urease_gamma, Urease, gamma subunit	NA|105aa|down_8|NZ_CP023613.1_2097520_2097835_+	PRK13202, ureB, urease subunit beta; Reviewed	NA|578aa|down_9|NZ_CP023613.1_2097834_2099568_+	PRK13206, ureC, urease subunit alpha; Reviewed
GCF_002447675.1_ASM244767v1	NZ_CP023613	Mycobacterium tuberculosis strain LN3584 chromosome, complete genome	8	2163261-2163365	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|136aa|up_2|NZ_CP023613.1_2159805_2160213_-,NA|127aa|down_6|NZ_CP023613.1_2176434_2176815_-	NA|216aa|up_9|NZ_CP023613.1_2153119_2153767_-	pfam14081, DUF4262, Domain of unknown function (DUF4262)	NA|741aa|up_8|NZ_CP023613.1_2153773_2155996_-	PRK15061, PRK15061, catalase/peroxidase	NA|148aa|up_7|NZ_CP023613.1_2156033_2156477_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|198aa|up_6|NZ_CP023613.1_2156590_2157184_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_5|NZ_CP023613.1_2157266_2157872_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_4|NZ_CP023613.1_2157971_2158976_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_3|NZ_CP023613.1_2159075_2159828_+	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_CP023613.1_2159805_2160213_-	NA	NA|368aa|up_1|NZ_CP023613.1_2160347_2161451_+	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|399aa|up_0|NZ_CP023613.1_2161450_2162647_+	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|988aa|down_0|NZ_CP023613.1_2167533_2170497_-	pfam00823, PPE, PPE family	NA|155aa|down_1|NZ_CP023613.1_2170945_2171410_-	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_CP023613.1_2171507_2172371_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_3|NZ_CP023613.1_2172408_2173680_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_4|NZ_CP023613.1_2173951_2175067_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_5|NZ_CP023613.1_2175057_2176398_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_6|NZ_CP023613.1_2176434_2176815_-	NA	NA|621aa|down_7|NZ_CP023613.1_2176971_2178834_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_8|NZ_CP023613.1_2178841_2179321_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_9|NZ_CP023613.1_2179557_2180331_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]
GCF_002447675.1_ASM244767v1	NZ_CP023613	Mycobacterium tuberculosis strain LN3584 chromosome, complete genome	9	2168699-2168918	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_3|NZ_CP023613.1_2159805_2160213_-,NA|127aa|down_5|NZ_CP023613.1_2176434_2176815_-	NA|741aa|up_9|NZ_CP023613.1_2153773_2155996_-	PRK15061, PRK15061, catalase/peroxidase	NA|148aa|up_8|NZ_CP023613.1_2156033_2156477_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|198aa|up_7|NZ_CP023613.1_2156590_2157184_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_6|NZ_CP023613.1_2157266_2157872_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_5|NZ_CP023613.1_2157971_2158976_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_4|NZ_CP023613.1_2159075_2159828_+	cd16282, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain	NA|136aa|up_3|NZ_CP023613.1_2159805_2160213_-	NA	NA|368aa|up_2|NZ_CP023613.1_2160347_2161451_+	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|399aa|up_1|NZ_CP023613.1_2161450_2162647_+	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|1460aa|up_0|NZ_CP023613.1_2162816_2167196_-	pfam00823, PPE, PPE family	NA|155aa|down_0|NZ_CP023613.1_2170945_2171410_-	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_CP023613.1_2171507_2172371_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_2|NZ_CP023613.1_2172408_2173680_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_3|NZ_CP023613.1_2173951_2175067_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_4|NZ_CP023613.1_2175057_2176398_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_5|NZ_CP023613.1_2176434_2176815_-	NA	NA|621aa|down_6|NZ_CP023613.1_2176971_2178834_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_7|NZ_CP023613.1_2178841_2179321_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_8|NZ_CP023613.1_2179557_2180331_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]	NA|256aa|down_9|NZ_CP023613.1_2180334_2181102_-	PRK05867, PRK05867, SDR family oxidoreductase
GCF_002447675.1_ASM244767v1	NZ_CP023613	Mycobacterium tuberculosis strain LN3584 chromosome, complete genome	10	3119066-3120420	2,7,3	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-C,Type III-A,Type III-D,Type III-B	GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC	36,36,36	0	0	NA	NA	II-B,III-A:II-B,III-A:II-B,III-A	15,17,18	18	TypeIII-C,TypeIII-A,TypeIII-D,TypeIII-B	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_8|NZ_CP023613.1_3112345_3112600_-,NA|135aa|up_7|NZ_CP023613.1_3112747_3113152_+,NA|64aa|up_6|NZ_CP023613.1_3113148_3113340_+,NA|86aa|up_4|NZ_CP023613.1_3114926_3115184_+,NA|104aa|up_3|NZ_CP023613.1_3115288_3115600_+,NA|203aa|up_2|NZ_CP023613.1_3116019_3116628_+,NA	NA|92aa|up_9|NZ_CP023613.1_3111894_3112170_+	COG4453, COG4453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|85aa|up_8|NZ_CP023613.1_3112345_3112600_-	NA	NA|135aa|up_7|NZ_CP023613.1_3112747_3113152_+	NA	NA|64aa|up_6|NZ_CP023613.1_3113148_3113340_+	NA	NA|385aa|up_5|NZ_CP023613.1_3113538_3114693_+	pfam00665, rve, Integrase core domain	NA|86aa|up_4|NZ_CP023613.1_3114926_3115184_+	NA	NA|104aa|up_3|NZ_CP023613.1_3115288_3115600_+	NA	NA|203aa|up_2|NZ_CP023613.1_3116019_3116628_+	NA	NA|470aa|up_1|NZ_CP023613.1_3116698_3118108_+	pfam00665, rve, Integrase core domain	NA|271aa|up_0|NZ_CP023613.1_3118104_3118917_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|down_0|NZ_CP023613.1_3120446_3121708_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_1|NZ_CP023613.1_3123505_3123847_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_2|NZ_CP023613.1_3123847_3124864_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm6|383aa|down_3|NZ_CP023613.1_3124876_3126025_-	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	csm5gr7|376aa|down_4|NZ_CP023613.1_3126120_3127248_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_5|NZ_CP023613.1_3127244_3128153_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_6|NZ_CP023613.1_3128133_3128844_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_7|NZ_CP023613.1_3128853_3129228_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_8|NZ_CP023613.1_3129224_3131663_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_9|NZ_CP023613.1_3131659_3132382_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]
GCF_002447675.1_ASM244767v1	NZ_CP023613	Mycobacterium tuberculosis strain LN3584 chromosome, complete genome	11	3121743-3123457	8,4,3,4	CRISPRCasFinder,CRT,PILER-CR,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-C,Type III-A,Type III-D,Type III-B	GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC	36,36,36,36	0	0	NA	NA	II-B,III-A:II-B,III-A:II-B,III-A:II-B,III-A	23,23,20,20	23	TypeIII-C,TypeIII-A,TypeIII-D,TypeIII-B	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_9|NZ_CP023613.1_3112345_3112600_-,NA|135aa|up_8|NZ_CP023613.1_3112747_3113152_+,NA|64aa|up_7|NZ_CP023613.1_3113148_3113340_+,NA|86aa|up_5|NZ_CP023613.1_3114926_3115184_+,NA|104aa|up_4|NZ_CP023613.1_3115288_3115600_+,NA|203aa|up_3|NZ_CP023613.1_3116019_3116628_+,NA	NA|85aa|up_9|NZ_CP023613.1_3112345_3112600_-	NA	NA|135aa|up_8|NZ_CP023613.1_3112747_3113152_+	NA	NA|64aa|up_7|NZ_CP023613.1_3113148_3113340_+	NA	NA|385aa|up_6|NZ_CP023613.1_3113538_3114693_+	pfam00665, rve, Integrase core domain	NA|86aa|up_5|NZ_CP023613.1_3114926_3115184_+	NA	NA|104aa|up_4|NZ_CP023613.1_3115288_3115600_+	NA	NA|203aa|up_3|NZ_CP023613.1_3116019_3116628_+	NA	NA|470aa|up_2|NZ_CP023613.1_3116698_3118108_+	pfam00665, rve, Integrase core domain	NA|271aa|up_1|NZ_CP023613.1_3118104_3118917_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|up_0|NZ_CP023613.1_3120446_3121708_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_0|NZ_CP023613.1_3123505_3123847_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_1|NZ_CP023613.1_3123847_3124864_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm6|383aa|down_2|NZ_CP023613.1_3124876_3126025_-	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	csm5gr7|376aa|down_3|NZ_CP023613.1_3126120_3127248_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_4|NZ_CP023613.1_3127244_3128153_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_5|NZ_CP023613.1_3128133_3128844_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_6|NZ_CP023613.1_3128853_3129228_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_7|NZ_CP023613.1_3129224_3131663_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_8|NZ_CP023613.1_3131659_3132382_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	NA|182aa|down_9|NZ_CP023613.1_3132781_3133327_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_002447675.1_ASM244767v1	NZ_CP023613	Mycobacterium tuberculosis strain LN3584 chromosome, complete genome	12	3740500-3741041	5	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGTTNCCNCCGTTGCCGCC	23	0	0	NA	NA	NA	7	7	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_CP023613.1_3755133_3755421_-,NA|87aa|down_9|NZ_CP023613.1_3768541_3768802_-	NA|282aa|up_9|NZ_CP023613.1_3719751_3720597_-	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|147aa|up_8|NZ_CP023613.1_3721071_3721512_+	cd04770, HTH_HMRTR, Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators	NA|290aa|up_7|NZ_CP023613.1_3721545_3722415_-	TIGR00766, Uncharacterized_protein_Dda3937_02003, inner membrane protein YhjD	NA|337aa|up_6|NZ_CP023613.1_3722435_3723446_-	PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed	NA|211aa|up_5|NZ_CP023613.1_3723730_3724363_+	PRK14875, PRK14875, acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional	NA|410aa|up_4|NZ_CP023613.1_3724429_3725659_-	PRK08299, PRK08299, NADP-dependent isocitrate dehydrogenase	NA|450aa|up_3|NZ_CP023613.1_3725941_3727291_+	PRK07812, PRK07812, O-acetylhomoserine aminocarboxypropyltransferase; Validated	NA|380aa|up_2|NZ_CP023613.1_3727302_3728442_+	PRK00175, metX, homoserine O-acetyltransferase; Provisional	NA|244aa|up_1|NZ_CP023613.1_3728438_3729170_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|2524aa|up_0|NZ_CP023613.1_3729178_3736750_-	pfam00823, PPE, PPE family	NA|86aa|down_0|NZ_CP023613.1_3743003_3743261_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|3158aa|down_1|NZ_CP023613.1_3743516_3752990_-	pfam00823, PPE, PPE family	NA|149aa|down_2|NZ_CP023613.1_3753615_3754062_+	pfam01548, DEDD_Tnp_IS110, Transposase	NA|247aa|down_3|NZ_CP023613.1_3754098_3754839_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|96aa|down_4|NZ_CP023613.1_3755133_3755421_-	NA	NA|3717aa|down_5|NZ_CP023613.1_3755757_3766908_-	pfam00823, PPE, PPE family	NA|265aa|down_6|NZ_CP023613.1_3767151_3767946_-	pfam08031, BBE, Berberine and berberine like	NA|124aa|down_7|NZ_CP023613.1_3768027_3768399_-	COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production and conversion]	NA|73aa|down_8|NZ_CP023613.1_3768296_3768515_-	pfam01565, FAD_binding_4, FAD binding domain	NA|87aa|down_9|NZ_CP023613.1_3768541_3768802_-	NA
GCF_002447675.1_ASM244767v1	NZ_CP023613	Mycobacterium tuberculosis strain LN3584 chromosome, complete genome	13	3932137-3932370	5	PILER-CR	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGGCGCCGCCCGCGCCGCCGGCGCCGCCTTGGCCGCCGGTCCCGCCG	48	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,NA|280aa|down_6|NZ_CP023613.1_3953225_3954065_+	NA|351aa|up_9|NZ_CP023613.1_3916749_3917802_-	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|401aa|up_8|NZ_CP023613.1_3917801_3919004_-	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|281aa|up_7|NZ_CP023613.1_3919023_3919866_-	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|255aa|up_6|NZ_CP023613.1_3919900_3920665_-	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|318aa|up_5|NZ_CP023613.1_3920890_3921844_-	PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional	NA|64aa|up_4|NZ_CP023613.1_3921868_3922060_-	COG1141, Fer, Ferredoxin [Energy production and conversion]	NA|401aa|up_3|NZ_CP023613.1_3922274_3923477_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|374aa|up_2|NZ_CP023613.1_3923501_3924623_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|503aa|up_1|NZ_CP023613.1_3924693_3926202_+	PRK07867, PRK07867, acyl-CoA synthetase; Validated	NA|1385aa|up_0|NZ_CP023613.1_3926372_3930527_+	pfam00934, PE, PE family	NA|516aa|down_0|NZ_CP023613.1_3936671_3938219_-	PRK07586, PRK07586, acetolactate synthase large subunit	NA|279aa|down_1|NZ_CP023613.1_3938215_3939052_-	COG2159, COG2159, Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]	NA|219aa|down_2|NZ_CP023613.1_3944886_3945543_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|1490aa|down_3|NZ_CP023613.1_3945588_3950058_+	pfam00934, PE, PE family	NA|549aa|down_4|NZ_CP023613.1_3950618_3952265_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|264aa|down_5|NZ_CP023613.1_3952338_3953130_+	PRK07799, PRK07799, crotonase/enoyl-CoA hydratase family protein	NA|280aa|down_6|NZ_CP023613.1_3953225_3954065_+	NA	NA|399aa|down_7|NZ_CP023613.1_3954119_3955316_-	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|237aa|down_8|NZ_CP023613.1_3955344_3956055_+	pfam06314, ADC, Acetoacetate decarboxylase (ADC)	NA|348aa|down_9|NZ_CP023613.1_3956119_3957163_-	TIGR03559, F420_Rv3520c, probable F420-dependent oxidoreductase, Rv3520c family
GCF_002447675.1_ASM244767v1	NZ_CP023613	Mycobacterium tuberculosis strain LN3584 chromosome, complete genome	14	3948159-3949910	6	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CANCGGCGGCACCGGCGGCNNCGGCGGNNNCGGCGG	36	2	9	3948750-3948785|3948750-3948785|3948750-3948785|3948750-3948785|3948750-3948785|3949641-3949667|3949641-3949667|3949641-3949667|3949641-3949667	NZ_CP023613.1_3946866-3946901|NZ_CP023613.1_3947208-3947243|NZ_CP023613.1_3947799-3947834|NZ_CP023613.1_3948150-3948185|NZ_CP023613.1_3932617-3932652|NZ_CP023613.1_361981-362007|NZ_CP023613.1_3941052-3941078|NZ_CP023613.1_3941388-3941414|NZ_CP023613.1_3941734-3941760	NA	21	21	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA|280aa|down_2|NZ_CP023613.1_3953225_3954065_+	NA|318aa|up_9|NZ_CP023613.1_3920890_3921844_-	PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional	NA|64aa|up_8|NZ_CP023613.1_3921868_3922060_-	COG1141, Fer, Ferredoxin [Energy production and conversion]	NA|401aa|up_7|NZ_CP023613.1_3922274_3923477_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|374aa|up_6|NZ_CP023613.1_3923501_3924623_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|503aa|up_5|NZ_CP023613.1_3924693_3926202_+	PRK07867, PRK07867, acyl-CoA synthetase; Validated	NA|1385aa|up_4|NZ_CP023613.1_3926372_3930527_+	pfam00934, PE, PE family	NA|1896aa|up_3|NZ_CP023613.1_3930817_3936505_+	pfam00934, PE, PE family	NA|516aa|up_2|NZ_CP023613.1_3936671_3938219_-	PRK07586, PRK07586, acetolactate synthase large subunit	NA|279aa|up_1|NZ_CP023613.1_3938215_3939052_-	COG2159, COG2159, Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]	NA|219aa|up_0|NZ_CP023613.1_3944886_3945543_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|549aa|down_0|NZ_CP023613.1_3950618_3952265_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|264aa|down_1|NZ_CP023613.1_3952338_3953130_+	PRK07799, PRK07799, crotonase/enoyl-CoA hydratase family protein	NA|280aa|down_2|NZ_CP023613.1_3953225_3954065_+	NA	NA|399aa|down_3|NZ_CP023613.1_3954119_3955316_-	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|237aa|down_4|NZ_CP023613.1_3955344_3956055_+	pfam06314, ADC, Acetoacetate decarboxylase (ADC)	NA|348aa|down_5|NZ_CP023613.1_3956119_3957163_-	TIGR03559, F420_Rv3520c, probable F420-dependent oxidoreductase, Rv3520c family	NA|304aa|down_6|NZ_CP023613.1_3957315_3958227_+	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]	NA|355aa|down_7|NZ_CP023613.1_3958242_3959307_+	PRK07937, PRK07937, lipid-transfer protein; Provisional	NA|395aa|down_8|NZ_CP023613.1_3959323_3960508_+	PRK08313, PRK08313, thiolase domain-containing protein	NA|344aa|down_9|NZ_CP023613.1_3960549_3961581_+	cd14952, NHL_PKND_like, NHL repeat domain of the protein kinase PknD
GCF_002447675.1_ASM244767v1	NZ_CP023613	Mycobacterium tuberculosis strain LN3584 chromosome, complete genome	15	4110468-4110556	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_CP023613.1_4101054_4101825_-,NA|119aa|up_3|NZ_CP023613.1_4106959_4107316_+,NA|52aa|up_2|NZ_CP023613.1_4107415_4107571_+,NA|233aa|up_0|NZ_CP023613.1_4109572_4110271_-,NA|126aa|down_6|NZ_CP023613.1_4115791_4116169_+	NA|288aa|up_9|NZ_CP023613.1_4099436_4100300_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|257aa|up_8|NZ_CP023613.1_4101054_4101825_-	NA	NA|549aa|up_7|NZ_CP023613.1_4101821_4103468_-	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]	NA|288aa|up_6|NZ_CP023613.1_4103464_4104328_-	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_CP023613.1_4104320_4105247_-	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_CP023613.1_4105248_4106874_-	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_CP023613.1_4106959_4107316_+	NA	NA|52aa|up_2|NZ_CP023613.1_4107415_4107571_+	NA	NA|652aa|up_1|NZ_CP023613.1_4107581_4109537_+	PRK00174, PRK00174, acetyl-CoA synthetase; Provisional	NA|233aa|up_0|NZ_CP023613.1_4109572_4110271_-	NA	NA|173aa|down_0|NZ_CP023613.1_4110616_4111135_+	pfam07332, Phage_holin_3_6, Putative Actinobacterial Holin-X, holin superfamily III	NA|328aa|down_1|NZ_CP023613.1_4111135_4112119_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|398aa|down_2|NZ_CP023613.1_4112111_4113305_-	pfam13365, Trypsin_2, Trypsin-like peptidase domain	NA|274aa|down_3|NZ_CP023613.1_4113310_4114132_-	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_CP023613.1_4114263_4114947_-	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|246aa|down_5|NZ_CP023613.1_4114946_4115684_-	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]	NA|126aa|down_6|NZ_CP023613.1_4115791_4116169_+	NA	NA|225aa|down_7|NZ_CP023613.1_4116267_4116942_+	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|265aa|down_8|NZ_CP023613.1_4117047_4117842_-	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_CP023613.1_4117848_4118304_-	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
