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_001544705.1_ASM154470v1	NZ_CP010330	Mycobacterium tuberculosis strain F28 chromosome, complete genome	1	333588-334720	1,1,1,2	CRISPRCasFinder,CRT,PILER-CR,CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GTCCCGTTGGCGCCGTTGCCGAACAGC,CCGCCGGNGCCGCCGGNN,CCCGCCGGCCCCGCCG,GTCCCGTTGGCGCCGTTGCCGAACAGC	27,18,16,27	0	0	NA	NA	NA:NA:NA:NA	3,15,4,3	15	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA|159aa|down_0|NZ_CP010330.1_336556_337033_-	NA|86aa|up_9|NZ_CP010330.1_322761_323019_-	COG2161, StbD, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|398aa|up_8|NZ_CP010330.1_323335_324529_-	COG3285, COG3285, Predicted eukaryotic-type DNA primase [DNA replication, recombination, and repair]	NA|561aa|up_7|NZ_CP010330.1_324564_326247_+	PRK07788, PRK07788, acyl-CoA synthetase; Validated	NA|732aa|up_6|NZ_CP010330.1_326263_328459_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_5|NZ_CP010330.1_328572_329706_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_4|NZ_CP010330.1_329702_330323_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_3|NZ_CP010330.1_330419_331001_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_2|NZ_CP010330.1_330930_331656_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_1|NZ_CP010330.1_331745_332666_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_0|NZ_CP010330.1_332705_333134_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|159aa|down_0|NZ_CP010330.1_336556_337033_-	NA	NA|537aa|down_1|NZ_CP010330.1_339328_340939_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_2|NZ_CP010330.1_340962_341871_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|614aa|down_3|NZ_CP010330.1_342148_343990_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_4|NZ_CP010330.1_343986_345603_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_5|NZ_CP010330.1_345599_349592_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_6|NZ_CP010330.1_349588_349897_+	pfam00934, PE, PE family	NA|514aa|down_7|NZ_CP010330.1_349899_351441_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_8|NZ_CP010330.1_351489_351783_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|down_9|NZ_CP010330.1_351812_352103_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_001544705.1_ASM154470v1	NZ_CP010330	Mycobacterium tuberculosis strain F28 chromosome, complete genome	2	334885-334995	3	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GTCCCGTTGGCGCCGTTGCCGAACAGC	27	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|159aa|down_0|NZ_CP010330.1_336556_337033_-	NA|86aa|up_9|NZ_CP010330.1_322761_323019_-	COG2161, StbD, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|398aa|up_8|NZ_CP010330.1_323335_324529_-	COG3285, COG3285, Predicted eukaryotic-type DNA primase [DNA replication, recombination, and repair]	NA|561aa|up_7|NZ_CP010330.1_324564_326247_+	PRK07788, PRK07788, acyl-CoA synthetase; Validated	NA|732aa|up_6|NZ_CP010330.1_326263_328459_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_5|NZ_CP010330.1_328572_329706_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_4|NZ_CP010330.1_329702_330323_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_3|NZ_CP010330.1_330419_331001_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_2|NZ_CP010330.1_330930_331656_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_1|NZ_CP010330.1_331745_332666_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_0|NZ_CP010330.1_332705_333134_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|159aa|down_0|NZ_CP010330.1_336556_337033_-	NA	NA|537aa|down_1|NZ_CP010330.1_339328_340939_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_2|NZ_CP010330.1_340962_341871_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|614aa|down_3|NZ_CP010330.1_342148_343990_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_4|NZ_CP010330.1_343986_345603_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_5|NZ_CP010330.1_345599_349592_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_6|NZ_CP010330.1_349588_349897_+	pfam00934, PE, PE family	NA|514aa|down_7|NZ_CP010330.1_349899_351441_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_8|NZ_CP010330.1_351489_351783_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|down_9|NZ_CP010330.1_351812_352103_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_001544705.1_ASM154470v1	NZ_CP010330	Mycobacterium tuberculosis strain F28 chromosome, complete genome	3	335383-335954	2	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGGCNCCGCCGNNGCCG	21	1	1	335901-335933	NZ_CP010330.1_338632-338664	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|159aa|down_0|NZ_CP010330.1_336556_337033_-	NA|86aa|up_9|NZ_CP010330.1_322761_323019_-	COG2161, StbD, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|398aa|up_8|NZ_CP010330.1_323335_324529_-	COG3285, COG3285, Predicted eukaryotic-type DNA primase [DNA replication, recombination, and repair]	NA|561aa|up_7|NZ_CP010330.1_324564_326247_+	PRK07788, PRK07788, acyl-CoA synthetase; Validated	NA|732aa|up_6|NZ_CP010330.1_326263_328459_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_5|NZ_CP010330.1_328572_329706_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_4|NZ_CP010330.1_329702_330323_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_3|NZ_CP010330.1_330419_331001_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_2|NZ_CP010330.1_330930_331656_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_1|NZ_CP010330.1_331745_332666_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_0|NZ_CP010330.1_332705_333134_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|159aa|down_0|NZ_CP010330.1_336556_337033_-	NA	NA|537aa|down_1|NZ_CP010330.1_339328_340939_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_2|NZ_CP010330.1_340962_341871_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|614aa|down_3|NZ_CP010330.1_342148_343990_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_4|NZ_CP010330.1_343986_345603_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_5|NZ_CP010330.1_345599_349592_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_6|NZ_CP010330.1_349588_349897_+	pfam00934, PE, PE family	NA|514aa|down_7|NZ_CP010330.1_349899_351441_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_8|NZ_CP010330.1_351489_351783_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|down_9|NZ_CP010330.1_351812_352103_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_001544705.1_ASM154470v1	NZ_CP010330	Mycobacterium tuberculosis strain F28 chromosome, complete genome	4	366428-367126	4	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	366716-366757|366791-366823	NZ_CP010330.1_374748-374789|NZ_CP010330.1_373563-373595	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_CP010330.1_363440_363743_+,NA|161aa|down_1|NZ_CP010330.1_376537_377020_-,NA|410aa|down_5|NZ_CP010330.1_379136_380366_+	NA|262aa|up_9|NZ_CP010330.1_358135_358921_+	PRK14103, PRK14103, trans-aconitate 2-methyltransferase; Provisional	NA|268aa|up_8|NZ_CP010330.1_358909_359713_-	COG4424, COG4424, Uncharacterized protein conserved in bacteria [Function unknown]	NA|466aa|up_7|NZ_CP010330.1_359722_361120_-	cd16027, SGSH, N-sulfoglucosamine sulfohydrolase (SGSH; sulfamidase)	NA|592aa|up_6|NZ_CP010330.1_361298_363074_+	pfam00934, PE, PE family	NA|76aa|up_5|NZ_CP010330.1_363216_363444_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|101aa|up_4|NZ_CP010330.1_363440_363743_+	NA	NA|74aa|up_3|NZ_CP010330.1_363790_364012_+	PHA01748, PHA01748, hypothetical protein	NA|142aa|up_2|NZ_CP010330.1_364008_364434_+	cd18755, PIN_MtVapC3_VapC21-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC3, VapC21 and related proteins	NA|211aa|up_1|NZ_CP010330.1_364569_365202_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|303aa|up_0|NZ_CP010330.1_365198_366107_+	cd09810, LPOR_like_SDR_c_like, light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs	NA|224aa|down_0|NZ_CP010330.1_375878_376550_+	TIGR02476, BluB, 5,6-dimethylbenzimidazole synthase	NA|161aa|down_1|NZ_CP010330.1_376537_377020_-	NA	NA|239aa|down_2|NZ_CP010330.1_377077_377794_+	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|219aa|down_3|NZ_CP010330.1_377895_378552_+	COG3786, COG3786, Uncharacterized protein conserved in bacteria [Function unknown]	NA|164aa|down_4|NZ_CP010330.1_378621_379113_-	pfam13577, SnoaL_4, SnoaL-like domain	NA|410aa|down_5|NZ_CP010330.1_379136_380366_+	NA	NA|621aa|down_6|NZ_CP010330.1_380520_382383_+	COG0443, DnaK, Molecular chaperone [Posttranslational modification, protein turnover, chaperones]	NA|129aa|down_7|NZ_CP010330.1_382454_382841_+	COG0326, HtpG, Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]	NA|212aa|down_8|NZ_CP010330.1_382843_383479_-	pfam11259, DUF3060, Protein of unknown function (DUF3060)	NA|295aa|down_9|NZ_CP010330.1_383566_384451_+	COG2273, SKN1, Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]
GCF_001544705.1_ASM154470v1	NZ_CP010330	Mycobacterium tuberculosis strain F28 chromosome, complete genome	5	691984-692060	5	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	TGAGGTGCGGCGTGAGCGCGGGT	23	0	0	NA	NA	NA	1	1	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|164aa|up_8|NZ_CP010330.1_677089_677581_-,NA	NA|253aa|up_9|NZ_CP010330.1_676202_676961_+	pfam01927, Mut7-C, Mut7-C RNAse domain	NA|164aa|up_8|NZ_CP010330.1_677089_677581_-	NA	NA|72aa|up_7|NZ_CP010330.1_677674_677890_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|136aa|up_6|NZ_CP010330.1_677886_678294_+	cd18696, PIN_MtVapC26-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC26 and related proteins	NA|229aa|up_5|NZ_CP010330.1_678353_679040_-	pfam10738, Lpp-LpqN, Probable lipoprotein LpqN	NA|241aa|up_4|NZ_CP010330.1_684368_685091_+	COG2186, FadR, Transcriptional regulators [Transcription]	NA|266aa|up_3|NZ_CP010330.1_685087_685885_+	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_CP010330.1_685886_686774_+	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_CP010330.1_686779_687994_+	pfam11887, Mce4_CUP1, Cholesterol uptake porter CUP1 of Mce4, putative	NA|482aa|up_0|NZ_CP010330.1_689017_690463_+	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|517aa|down_0|NZ_CP010330.1_693195_694746_+	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_CP010330.1_694797_695190_-	cd18768, PIN_MtVapC4-C5-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins	NA|86aa|down_2|NZ_CP010330.1_695186_695444_-	COG4118, Phd, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|412aa|down_3|NZ_CP010330.1_695626_696862_-	COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General function prediction only]	NA|138aa|down_4|NZ_CP010330.1_697112_697526_-	cd18681, PIN_MtVapC27-VapC40_like, VapC-like PIN domain of Mycobacterium tuberculosis VapC27, and VapC40, and related proteins	NA|79aa|down_5|NZ_CP010330.1_697522_697759_-	COG2002, AbrB, Regulators of stationary/sporulation gene expression [Transcription]	NA|169aa|down_6|NZ_CP010330.1_697862_698369_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|177aa|down_7|NZ_CP010330.1_698482_699013_-	PRK10755, PRK10755, two-component system sensor histidine kinase PmrB	NA|254aa|down_8|NZ_CP010330.1_698996_699758_-	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_CP010330.1_699814_700126_+	pfam03413, PepSY, Peptidase propeptide and YPEB domain
GCF_001544705.1_ASM154470v1	NZ_CP010330	Mycobacterium tuberculosis strain F28 chromosome, complete genome	6	1192607-1192715	6	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_CP010330.1_1181974_1183606_+	cd12119, ttLC_FACS_AlkK_like, Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles	NA|355aa|up_8|NZ_CP010330.1_1183681_1184746_+	COG3804, COG3804, Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]	NA|158aa|up_7|NZ_CP010330.1_1184798_1185272_+	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_CP010330.1_1185305_1186169_+	cd01908, YafJ, Glutamine amidotransferases class-II (Gn-AT)_YafJ-type	NA|286aa|up_5|NZ_CP010330.1_1186173_1187031_+	COG1752, RssA, Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]	NA|361aa|up_4|NZ_CP010330.1_1187031_1188114_-	cd07228, Pat_NTE_like_bacteria, Bacterial patatin-like phospholipase domain containing protein 6	NA|140aa|up_3|NZ_CP010330.1_1188194_1188614_-	pfam17301, LpqV, Putative lipoprotein LpqV	NA|189aa|up_2|NZ_CP010330.1_1188725_1189292_+	cd10548, cupin_CDO, cysteine dioxygenase, cupin domain	NA|132aa|up_1|NZ_CP010330.1_1189288_1189684_+	cd01447, Polysulfide_ST, Polysulfide-sulfurtransferase - Rhodanese Homology Domain	NA|668aa|up_0|NZ_CP010330.1_1189711_1191715_-	pfam00934, PE, PE family	NA|588aa|down_0|NZ_CP010330.1_1193800_1195564_-	COG4425, COG4425, Predicted membrane protein [Function unknown]	NA|258aa|down_1|NZ_CP010330.1_1195560_1196334_-	PRK05862, PRK05862, enoyl-CoA hydratase; Provisional	NA|346aa|down_2|NZ_CP010330.1_1196345_1197383_-	PRK05617, PRK05617, 3-hydroxyisobutyryl-CoA hydrolase; Provisional	NA|279aa|down_3|NZ_CP010330.1_1197569_1198406_+	COG4760, COG4760, Predicted membrane protein [Function unknown]	NA|284aa|down_4|NZ_CP010330.1_1198521_1199373_+	pfam18741, MTES_1575, REase_MTES_1575	NA|406aa|down_5|NZ_CP010330.1_1199446_1200664_-	PRK07851, PRK07851, acetyl-CoA C-acetyltransferase	NA|315aa|down_6|NZ_CP010330.1_1200716_1201661_-	cd01836, FeeA_FeeB_like, SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases	NA|298aa|down_7|NZ_CP010330.1_1202057_1202951_+	COG0657, Aes, Esterase/lipase [Lipid metabolism]	NA|465aa|down_8|NZ_CP010330.1_1203007_1204402_+	TIGR01137, Cystathionine_beta-synthase, cystathionine beta-synthase	NA|241aa|down_9|NZ_CP010330.1_1204603_1205326_+	pfam06271, RDD, RDD family
GCF_001544705.1_ASM154470v1	NZ_CP010330	Mycobacterium tuberculosis strain F28 chromosome, complete genome	7	1573470-1574542	7	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	1573670-1573691	NZ_CP010330.1_1213354-1213333	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_CP010330.1_1565233_1565551_+,NA	NA|103aa|up_9|NZ_CP010330.1_1562748_1563057_+	pfam00934, PE, PE family	NA|540aa|up_8|NZ_CP010330.1_1563053_1564673_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|106aa|up_7|NZ_CP010330.1_1565233_1565551_+	NA	NA|209aa|up_6|NZ_CP010330.1_1565685_1566312_+	PRK00300, gmk, guanylate kinase; Provisional	NA|111aa|up_5|NZ_CP010330.1_1566377_1566710_+	TIGR00690, DNA-directed_RNA_polymerase_subunit_omega, DNA-directed RNA polymerase, omega subunit	NA|419aa|up_4|NZ_CP010330.1_1566725_1567982_+	PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated	NA|404aa|up_3|NZ_CP010330.1_1568109_1569321_+	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|493aa|up_2|NZ_CP010330.1_1569393_1570872_-	COG2072, TrkA, Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]	NA|462aa|up_1|NZ_CP010330.1_1570868_1572254_-	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|345aa|up_0|NZ_CP010330.1_1572331_1573366_+	smart00342, HTH_ARAC, helix_turn_helix, arabinose operon control protein	NA|134aa|down_0|NZ_CP010330.1_1575396_1575798_-	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_CP010330.1_1575794_1576052_-	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|320aa|down_2|NZ_CP010330.1_1576134_1577094_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|321aa|down_3|NZ_CP010330.1_1577118_1578081_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|246aa|down_4|NZ_CP010330.1_1578079_1578817_+	COG3714, COG3714, Predicted membrane protein [Function unknown]	NA|656aa|down_5|NZ_CP010330.1_1578897_1580865_+	PRK14873, PRK14873, primosomal protein N'	NA|275aa|down_6|NZ_CP010330.1_1580882_1581707_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|161aa|down_7|NZ_CP010330.1_1581875_1582358_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|275aa|down_8|NZ_CP010330.1_1582429_1583254_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|313aa|down_9|NZ_CP010330.1_1583450_1584389_+	PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed
GCF_001544705.1_ASM154470v1	NZ_CP010330	Mycobacterium tuberculosis strain F28 chromosome, complete genome	8	1638390-1638578	3	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCCGCCGGCCCCGCCGGC	18	4	5	1638408-1638425|1638444-1638470|1638489-1638506|1638489-1638506|1638525-1638560	NZ_CP010330.1_1634806-1634823|NZ_CP010330.1_1634842-1634868|NZ_CP010330.1_2811029-2811046|NZ_CP010330.1_3776450-3776467|NZ_CP010330.1_1634923-1634958	NA	4	4	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|38aa|up_7|NZ_CP010330.1_1624408_1624522_-,NA|137aa|up_6|NZ_CP010330.1_1624571_1624982_-,NA|288aa|down_2|NZ_CP010330.1_1642165_1643029_+	NA|767aa|up_9|NZ_CP010330.1_1621075_1623376_+	TIGR00509, Trimethylamine-N-oxide_reductase_1, molybdopterin guanine dinucleotide-containing S/N-oxide reductases	NA|155aa|up_8|NZ_CP010330.1_1623491_1623956_-	cd07820, SRPBCC_3, Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins	NA|38aa|up_7|NZ_CP010330.1_1624408_1624522_-	NA	NA|137aa|up_6|NZ_CP010330.1_1624571_1624982_-	NA	NA|248aa|up_5|NZ_CP010330.1_1624998_1625742_-	pfam01182, Glucosamine_iso, Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase	NA|304aa|up_4|NZ_CP010330.1_1625738_1626650_-	TIGR00534, Putative_OxPP_cycle_protein_OpcA, glucose-6-phosphate dehydrogenase assembly protein OpcA	NA|515aa|up_3|NZ_CP010330.1_1626702_1628247_-	PRK05722, PRK05722, glucose-6-phosphate 1-dehydrogenase; Validated	NA|374aa|up_2|NZ_CP010330.1_1628243_1629365_-	PRK03343, PRK03343, transaldolase; Validated	NA|701aa|up_1|NZ_CP010330.1_1629381_1631484_-	COG0021, TktA, Transketolase [Carbohydrate transport and metabolism]	NA|309aa|up_0|NZ_CP010330.1_1636517_1637444_+	PRK04375, PRK04375, protoheme IX farnesyltransferase; Provisional	NA|422aa|down_0|NZ_CP010330.1_1639866_1641132_+	COG2508, COG2508, Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]	NA|329aa|down_1|NZ_CP010330.1_1641159_1642146_-	cd05286, QOR2, Quinone oxidoreductase (QOR)	NA|288aa|down_2|NZ_CP010330.1_1642165_1643029_+	NA	NA|311aa|down_3|NZ_CP010330.1_1642978_1643911_-	COG1612, CtaA, Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]	NA|262aa|down_4|NZ_CP010330.1_1644022_1644808_-	TIGR00025, Mtu_efflux, ABC transporter efflux protein, DrrB family	NA|314aa|down_5|NZ_CP010330.1_1644804_1645746_-	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]	NA|592aa|down_6|NZ_CP010330.1_1645848_1647624_-	TIGR03459, crt_membr, carotene biosynthesis associated membrane protein	NA|269aa|down_7|NZ_CP010330.1_1647671_1648478_+	COG2345, COG2345, Predicted transcriptional regulator [Transcription]	NA|847aa|down_8|NZ_CP010330.1_1648474_1651015_+	TIGR01980, UPF0051_protein_slr0074, FeS assembly protein SufB	NA|398aa|down_9|NZ_CP010330.1_1651011_1652205_+	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]
GCF_001544705.1_ASM154470v1	NZ_CP010330	Mycobacterium tuberculosis strain F28 chromosome, complete genome	9	2095248-2095502	4	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCCNCCGTCGCCGCCNNTGCC	21	2	3	2095329-2095346|2095329-2095346|2095419-2095436	NZ_CP010330.1_401044-401027|NZ_CP010330.1_607403-607386|NZ_CP010330.1_3459386-3459369	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_CP010330.1_2094607_2094871_-,NA	NA|165aa|up_9|NZ_CP010330.1_2080901_2081396_+	pfam02577, DNase-RNase, Bifunctional nuclease	NA|211aa|up_8|NZ_CP010330.1_2081844_2082477_+	cd01105, HTH_GlnR-like, Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators	NA|942aa|up_7|NZ_CP010330.1_2082835_2085661_+	PRK05367, PRK05367, aminomethyl-transferring glycine dehydrogenase	NA|287aa|up_6|NZ_CP010330.1_2085887_2086748_-	PRK03204, PRK03204, haloalkane dehalogenase; Provisional	NA|289aa|up_5|NZ_CP010330.1_2086788_2087655_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|629aa|up_4|NZ_CP010330.1_2087659_2089546_-	TIGR00976, Hypothetical_protein_Rv1835c/MT1883/Mb1866c	NA|678aa|up_3|NZ_CP010330.1_2089561_2091595_-	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_CP010330.1_2091714_2093940_-	PRK02999, PRK02999, malate synthase G; Provisional	NA|132aa|up_1|NZ_CP010330.1_2094215_2094611_-	COG1848, COG1848, Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]	NA|88aa|up_0|NZ_CP010330.1_2094607_2094871_-	NA	NA|346aa|down_0|NZ_CP010330.1_2096639_2097677_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|456aa|down_1|NZ_CP010330.1_2097676_2099044_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|480aa|down_2|NZ_CP010330.1_2099217_2100657_-	PRK07807, PRK07807, GuaB1 family IMP dehydrogenase-related protein	NA|486aa|down_3|NZ_CP010330.1_2100689_2102147_-	PRK09287, PRK09287, NADP-dependent phosphogluconate dehydrogenase	NA|317aa|down_4|NZ_CP010330.1_2102176_2103127_-	cd07326, M56_BlaR1_MecR1_like, Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase	NA|139aa|down_5|NZ_CP010330.1_2103141_2103558_-	COG3682, COG3682, Predicted transcriptional regulator [Transcription]	NA|141aa|down_6|NZ_CP010330.1_2103835_2104258_+	COG2050, PaaI, HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis,    transport, and catabolism]	NA|101aa|down_7|NZ_CP010330.1_2104306_2104609_+	pfam00547, Urease_gamma, Urease, gamma subunit	NA|105aa|down_8|NZ_CP010330.1_2104605_2104920_+	PRK13202, ureB, urease subunit beta; Reviewed	NA|578aa|down_9|NZ_CP010330.1_2104919_2106653_+	PRK13206, ureC, urease subunit alpha; Reviewed
GCF_001544705.1_ASM154470v1	NZ_CP010330	Mycobacterium tuberculosis strain F28 chromosome, complete genome	10	2175772-2175991	8	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_CP010330.1_2166878_2167286_-,NA|127aa|down_5|NZ_CP010330.1_2183507_2183888_-	NA|741aa|up_9|NZ_CP010330.1_2160846_2163069_-	PRK15061, PRK15061, catalase/peroxidase	NA|148aa|up_8|NZ_CP010330.1_2163106_2163550_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|198aa|up_7|NZ_CP010330.1_2163663_2164257_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_6|NZ_CP010330.1_2164339_2164945_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_5|NZ_CP010330.1_2165044_2166049_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_4|NZ_CP010330.1_2166148_2166901_+	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_CP010330.1_2166878_2167286_-	NA	NA|368aa|up_2|NZ_CP010330.1_2167420_2168524_+	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|399aa|up_1|NZ_CP010330.1_2168523_2169720_+	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|1460aa|up_0|NZ_CP010330.1_2169889_2174269_-	pfam00823, PPE, PPE family	NA|155aa|down_0|NZ_CP010330.1_2178018_2178483_-	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_CP010330.1_2178580_2179444_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_2|NZ_CP010330.1_2179481_2180753_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_3|NZ_CP010330.1_2181024_2182140_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_4|NZ_CP010330.1_2182130_2183471_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_5|NZ_CP010330.1_2183507_2183888_-	NA	NA|621aa|down_6|NZ_CP010330.1_2184044_2185907_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_7|NZ_CP010330.1_2185914_2186394_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_8|NZ_CP010330.1_2186630_2187404_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]	NA|256aa|down_9|NZ_CP010330.1_2187407_2188175_-	PRK05867, PRK05867, SDR family oxidoreductase
GCF_001544705.1_ASM154470v1	NZ_CP010330	Mycobacterium tuberculosis strain F28 chromosome, complete genome	11	3128196-3129550	2,9,5	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-B,Type III-C,Type III-D,Type III-A	GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC	36,36,36	0	0	NA	NA	II-B,III-A:II-B,III-A:II-B,III-A	17,17,18	18	TypeIII-B,TypeIII-C,TypeIII-D,TypeIII-A	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_7|NZ_CP010330.1_3121475_3121730_-,NA|135aa|up_6|NZ_CP010330.1_3121877_3122282_+,NA|64aa|up_5|NZ_CP010330.1_3122278_3122470_+,NA|86aa|up_4|NZ_CP010330.1_3124056_3124314_+,NA|104aa|up_3|NZ_CP010330.1_3124418_3124730_+,NA|203aa|up_2|NZ_CP010330.1_3125149_3125758_+,NA	NA|348aa|up_9|NZ_CP010330.1_3119790_3120834_-	COG5586, COG5586, Uncharacterized conserved protein [Function unknown]	NA|92aa|up_8|NZ_CP010330.1_3121024_3121300_+	COG4453, COG4453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|85aa|up_7|NZ_CP010330.1_3121475_3121730_-	NA	NA|135aa|up_6|NZ_CP010330.1_3121877_3122282_+	NA	NA|64aa|up_5|NZ_CP010330.1_3122278_3122470_+	NA	NA|86aa|up_4|NZ_CP010330.1_3124056_3124314_+	NA	NA|104aa|up_3|NZ_CP010330.1_3124418_3124730_+	NA	NA|203aa|up_2|NZ_CP010330.1_3125149_3125758_+	NA	NA|470aa|up_1|NZ_CP010330.1_3125828_3127238_+	pfam00665, rve, Integrase core domain	NA|271aa|up_0|NZ_CP010330.1_3127234_3128047_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|down_0|NZ_CP010330.1_3129576_3130838_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_1|NZ_CP010330.1_3132635_3132977_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_2|NZ_CP010330.1_3132977_3133994_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm6|416aa|down_3|NZ_CP010330.1_3134006_3135254_-	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	csm5gr7|376aa|down_4|NZ_CP010330.1_3135250_3136378_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_5|NZ_CP010330.1_3136374_3137283_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_6|NZ_CP010330.1_3137263_3137974_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_7|NZ_CP010330.1_3137983_3138358_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|810aa|down_8|NZ_CP010330.1_3138354_3140784_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|263aa|down_9|NZ_CP010330.1_3140780_3141569_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]
GCF_001544705.1_ASM154470v1	NZ_CP010330	Mycobacterium tuberculosis strain F28 chromosome, complete genome	12	3130873-3132587	10,6,3,4	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-B,Type III-C,Type III-D,Type III-A	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-B,TypeIII-C,TypeIII-D,TypeIII-A	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_8|NZ_CP010330.1_3121475_3121730_-,NA|135aa|up_7|NZ_CP010330.1_3121877_3122282_+,NA|64aa|up_6|NZ_CP010330.1_3122278_3122470_+,NA|86aa|up_5|NZ_CP010330.1_3124056_3124314_+,NA|104aa|up_4|NZ_CP010330.1_3124418_3124730_+,NA|203aa|up_3|NZ_CP010330.1_3125149_3125758_+,NA	NA|92aa|up_9|NZ_CP010330.1_3121024_3121300_+	COG4453, COG4453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|85aa|up_8|NZ_CP010330.1_3121475_3121730_-	NA	NA|135aa|up_7|NZ_CP010330.1_3121877_3122282_+	NA	NA|64aa|up_6|NZ_CP010330.1_3122278_3122470_+	NA	NA|86aa|up_5|NZ_CP010330.1_3124056_3124314_+	NA	NA|104aa|up_4|NZ_CP010330.1_3124418_3124730_+	NA	NA|203aa|up_3|NZ_CP010330.1_3125149_3125758_+	NA	NA|470aa|up_2|NZ_CP010330.1_3125828_3127238_+	pfam00665, rve, Integrase core domain	NA|271aa|up_1|NZ_CP010330.1_3127234_3128047_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|up_0|NZ_CP010330.1_3129576_3130838_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_0|NZ_CP010330.1_3132635_3132977_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_1|NZ_CP010330.1_3132977_3133994_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm6|416aa|down_2|NZ_CP010330.1_3134006_3135254_-	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	csm5gr7|376aa|down_3|NZ_CP010330.1_3135250_3136378_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_4|NZ_CP010330.1_3136374_3137283_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_5|NZ_CP010330.1_3137263_3137974_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_6|NZ_CP010330.1_3137983_3138358_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|810aa|down_7|NZ_CP010330.1_3138354_3140784_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|263aa|down_8|NZ_CP010330.1_3140780_3141569_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	NA|182aa|down_9|NZ_CP010330.1_3141902_3142448_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_001544705.1_ASM154470v1	NZ_CP010330	Mycobacterium tuberculosis strain F28 chromosome, complete genome	13	3750398-3750939	7	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_CP010330.1_3765039_3765327_-	NA|147aa|up_9|NZ_CP010330.1_3729241_3729682_+	cd04770, HTH_HMRTR, Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators	NA|290aa|up_8|NZ_CP010330.1_3729715_3730585_-	TIGR00766, Uncharacterized_protein_Dda3937_02003, inner membrane protein YhjD	NA|337aa|up_7|NZ_CP010330.1_3730605_3731616_-	PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed	NA|215aa|up_6|NZ_CP010330.1_3731888_3732533_+	PRK14875, PRK14875, acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional	NA|410aa|up_5|NZ_CP010330.1_3732599_3733829_-	PRK08299, PRK08299, NADP-dependent isocitrate dehydrogenase	NA|450aa|up_4|NZ_CP010330.1_3734111_3735461_+	PRK07812, PRK07812, O-acetylhomoserine aminocarboxypropyltransferase; Validated	NA|380aa|up_3|NZ_CP010330.1_3735472_3736612_+	PRK00175, metX, homoserine O-acetyltransferase; Provisional	NA|244aa|up_2|NZ_CP010330.1_3736608_3737340_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|3100aa|up_1|NZ_CP010330.1_3737348_3746648_-	pfam00823, PPE, PPE family	NA|339aa|up_0|NZ_CP010330.1_3746696_3747713_-	pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex non-fungal	NA|86aa|down_0|NZ_CP010330.1_3752909_3753167_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|3158aa|down_1|NZ_CP010330.1_3753422_3762896_-	pfam00823, PPE, PPE family	NA|149aa|down_2|NZ_CP010330.1_3763521_3763968_+	pfam01548, DEDD_Tnp_IS110, Transposase	NA|247aa|down_3|NZ_CP010330.1_3764004_3764745_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|96aa|down_4|NZ_CP010330.1_3765039_3765327_-	NA	NA|3717aa|down_5|NZ_CP010330.1_3765663_3776814_-	pfam00823, PPE, PPE family	NA|130aa|down_6|NZ_CP010330.1_3778822_3779212_+	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|98aa|down_7|NZ_CP010330.1_3779225_3779519_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|282aa|down_8|NZ_CP010330.1_3779515_3780361_-	PRK14193, PRK14193, bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional	NA|92aa|down_9|NZ_CP010330.1_3780484_3780760_+	COG2161, StbD, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]
GCF_001544705.1_ASM154470v1	NZ_CP010330	Mycobacterium tuberculosis strain F28 chromosome, complete genome	14	3772195-3772321	5	PILER-CR	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GTTGCCGATGCCGGTGTTGAAA	22	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|96aa|up_0|NZ_CP010330.1_3765039_3765327_-,NA	NA|450aa|up_9|NZ_CP010330.1_3734111_3735461_+	PRK07812, PRK07812, O-acetylhomoserine aminocarboxypropyltransferase; Validated	NA|380aa|up_8|NZ_CP010330.1_3735472_3736612_+	PRK00175, metX, homoserine O-acetyltransferase; Provisional	NA|244aa|up_7|NZ_CP010330.1_3736608_3737340_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|3100aa|up_6|NZ_CP010330.1_3737348_3746648_-	pfam00823, PPE, PPE family	NA|339aa|up_5|NZ_CP010330.1_3746696_3747713_-	pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex non-fungal	NA|86aa|up_4|NZ_CP010330.1_3752909_3753167_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|3158aa|up_3|NZ_CP010330.1_3753422_3762896_-	pfam00823, PPE, PPE family	NA|149aa|up_2|NZ_CP010330.1_3763521_3763968_+	pfam01548, DEDD_Tnp_IS110, Transposase	NA|247aa|up_1|NZ_CP010330.1_3764004_3764745_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|96aa|up_0|NZ_CP010330.1_3765039_3765327_-	NA	NA|130aa|down_0|NZ_CP010330.1_3778822_3779212_+	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|98aa|down_1|NZ_CP010330.1_3779225_3779519_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|282aa|down_2|NZ_CP010330.1_3779515_3780361_-	PRK14193, PRK14193, bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional	NA|92aa|down_3|NZ_CP010330.1_3780484_3780760_+	COG2161, StbD, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|86aa|down_4|NZ_CP010330.1_3780756_3781014_+	pfam06769, YoeB_toxin, YoeB-like toxin of bacterial type II toxin-antitoxin system	NA|397aa|down_5|NZ_CP010330.1_3781055_3782246_+	cd02803, OYE_like_FMN_family, Old yellow enzyme (OYE)-like FMN binding domain	NA|123aa|down_6|NZ_CP010330.1_3782362_3782731_+	pfam00498, FHA, FHA domain	NA|184aa|down_7|NZ_CP010330.1_3782727_3783279_-	COG1357, COG1357, Pentapeptide repeats containing protein [Function unknown]	NA|194aa|down_8|NZ_CP010330.1_3783285_3783867_-	COG2229, COG2229, Predicted GTPase [General function prediction only]	NA|123aa|down_9|NZ_CP010330.1_3783847_3784216_-	pfam05331, DUF742, Protein of unknown function (DUF742)
GCF_001544705.1_ASM154470v1	NZ_CP010330	Mycobacterium tuberculosis strain F28 chromosome, complete genome	15	3958406-3960498	8	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CNNCGGCGGCNCCGGCGGCNNCGGCGGNNNCGGCGGC	37	4	12	3958443-3958537|3958443-3958537|3958575-3958648|3958575-3958648|3959340-3959374|3959340-3959374|3959340-3959374|3959340-3959374|3959340-3959374|3960229-3960254|3960229-3960254|3960229-3960254	NZ_CP010330.1_3957742-3957836|NZ_CP010330.1_3958093-3958187|NZ_CP010330.1_3957523-3957596|NZ_CP010330.1_3957874-3957947|NZ_CP010330.1_3957338-3957372|NZ_CP010330.1_3957679-3957713|NZ_CP010330.1_3958030-3958064|NZ_CP010330.1_3958380-3958414|NZ_CP010330.1_3942499-3942533|NZ_CP010330.1_3951529-3951554|NZ_CP010330.1_3951865-3951890|NZ_CP010330.1_3952210-3952235	NA	24	24	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_CP010330.1_3963812_3964652_+	NA|281aa|up_9|NZ_CP010330.1_3928917_3929760_-	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|255aa|up_8|NZ_CP010330.1_3929794_3930559_-	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|318aa|up_7|NZ_CP010330.1_3930784_3931738_-	PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional	NA|64aa|up_6|NZ_CP010330.1_3931762_3931954_-	COG1141, Fer, Ferredoxin [Energy production and conversion]	NA|401aa|up_5|NZ_CP010330.1_3932168_3933371_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|374aa|up_4|NZ_CP010330.1_3933395_3934517_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|503aa|up_3|NZ_CP010330.1_3934587_3936096_+	PRK07867, PRK07867, acyl-CoA synthetase; Validated	NA|516aa|up_2|NZ_CP010330.1_3947148_3948696_-	PRK07586, PRK07586, acetolactate synthase large subunit	NA|279aa|up_1|NZ_CP010330.1_3948692_3949529_-	COG2159, COG2159, Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]	NA|442aa|up_0|NZ_CP010330.1_3951918_3953244_-	PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated	NA|549aa|down_0|NZ_CP010330.1_3961205_3962852_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|264aa|down_1|NZ_CP010330.1_3962925_3963717_+	PRK07799, PRK07799, crotonase/enoyl-CoA hydratase family protein	NA|280aa|down_2|NZ_CP010330.1_3963812_3964652_+	NA	NA|399aa|down_3|NZ_CP010330.1_3964706_3965903_-	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|237aa|down_4|NZ_CP010330.1_3965931_3966642_+	pfam06314, ADC, Acetoacetate decarboxylase (ADC)	NA|344aa|down_5|NZ_CP010330.1_3966706_3967738_-	TIGR03559, F420_Rv3520c, probable F420-dependent oxidoreductase, Rv3520c family	NA|335aa|down_6|NZ_CP010330.1_3967809_3968814_+	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]	NA|355aa|down_7|NZ_CP010330.1_3968829_3969894_+	PRK07937, PRK07937, lipid-transfer protein; Provisional	NA|395aa|down_8|NZ_CP010330.1_3969910_3971095_+	PRK08313, PRK08313, thiolase domain-containing protein	NA|344aa|down_9|NZ_CP010330.1_3971136_3972168_+	cd14952, NHL_PKND_like, NHL repeat domain of the protein kinase PknD
GCF_001544705.1_ASM154470v1	NZ_CP010330	Mycobacterium tuberculosis strain F28 chromosome, complete genome	16	4121055-4121143	11	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCTCGGCGACGATGCGGGCCGGATGACGGCC	31	0	0	NA	NA	NA	1	1	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|257aa|up_6|NZ_CP010330.1_4111641_4112412_-,NA|233aa|up_0|NZ_CP010330.1_4120159_4120858_-,NA|126aa|down_6|NZ_CP010330.1_4126378_4126756_+	NA|388aa|up_9|NZ_CP010330.1_4107312_4108476_-	TIGR03819, heli_sec_ATPase, helicase/secretion neighborhood ATPase	NA|351aa|up_8|NZ_CP010330.1_4108472_4109525_-	TIGR03815, CpaE_hom_Actino, helicase/secretion neighborhood CpaE-like protein	NA|288aa|up_7|NZ_CP010330.1_4110023_4110887_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|257aa|up_6|NZ_CP010330.1_4111641_4112412_-	NA	NA|549aa|up_5|NZ_CP010330.1_4112408_4114055_-	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]	NA|288aa|up_4|NZ_CP010330.1_4114051_4114915_-	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|309aa|up_3|NZ_CP010330.1_4114907_4115834_-	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|542aa|up_2|NZ_CP010330.1_4115835_4117461_-	cd00995, PBP2_NikA_DppA_OppA_like, The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold	NA|652aa|up_1|NZ_CP010330.1_4118168_4120124_+	PRK00174, PRK00174, acetyl-CoA synthetase; Provisional	NA|233aa|up_0|NZ_CP010330.1_4120159_4120858_-	NA	NA|173aa|down_0|NZ_CP010330.1_4121203_4121722_+	pfam07332, Phage_holin_3_6, Putative Actinobacterial Holin-X, holin superfamily III	NA|328aa|down_1|NZ_CP010330.1_4121722_4122706_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|398aa|down_2|NZ_CP010330.1_4122698_4123892_-	pfam13365, Trypsin_2, Trypsin-like peptidase domain	NA|274aa|down_3|NZ_CP010330.1_4123897_4124719_-	cd03426, CoAse, Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes	NA|216aa|down_4|NZ_CP010330.1_4124850_4125498_-	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|246aa|down_5|NZ_CP010330.1_4125533_4126271_-	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]	NA|126aa|down_6|NZ_CP010330.1_4126378_4126756_+	NA	NA|225aa|down_7|NZ_CP010330.1_4126854_4127529_+	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|265aa|down_8|NZ_CP010330.1_4127634_4128429_-	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_CP010330.1_4128435_4128891_-	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
