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_000154605.2_ASM15460v2	NC_018078	Mycobacterium tuberculosis KZN 605, complete sequence	1	334757-334868	1	PILER-CR	no		RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	Orphan	CCGCCGTTGCCGCCGTTGCCGATCA	25	1	6	334827-334843|334827-334843|334827-334843|334827-334843|334827-334843|334827-334843	NC_018078.1_841854-841838|NC_018078.1_1610098-1610082|NC_018078.1_1991814-1991798|NC_018078.1_3198399-3198415|NC_018078.1_3222134-3222118|NC_018078.1_4023193-4023209	NA	2	2	Orphan	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	NA|61aa|up_0|NC_018078.1_333098_333281_-,NA	NA|398aa|up_9|NC_018078.1_323276_324470_-	COG3285, COG3285, Predicted eukaryotic-type DNA primase [DNA replication, recombination, and repair]	NA|561aa|up_8|NC_018078.1_324505_326188_+	PRK07788, PRK07788, acyl-CoA synthetase; Validated	NA|732aa|up_7|NC_018078.1_326204_328400_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_6|NC_018078.1_328513_329647_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_5|NC_018078.1_329643_330264_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_4|NC_018078.1_330360_330942_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_3|NC_018078.1_330871_331597_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_2|NC_018078.1_331686_332607_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_1|NC_018078.1_332646_333075_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|61aa|up_0|NC_018078.1_333098_333281_-	NA	NA|913aa|down_0|NC_018078.1_336437_339176_-	pfam00934, PE, PE family	NA|838aa|down_1|NC_018078.1_339425_341939_-	pfam00934, PE, PE family	NA|537aa|down_2|NC_018078.1_342229_343840_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_3|NC_018078.1_343863_344772_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|632aa|down_4|NC_018078.1_344995_346891_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_5|NC_018078.1_346887_348504_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_6|NC_018078.1_348500_352493_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_7|NC_018078.1_352489_352798_+	pfam00934, PE, PE family	NA|514aa|down_8|NC_018078.1_352800_354342_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_9|NC_018078.1_354390_354684_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target
GCF_000154605.2_ASM15460v2	NC_018078	Mycobacterium tuberculosis KZN 605, complete sequence	2	340970-341192	2	PILER-CR	no		RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	Orphan	ATCCGCCGCTACCGCCGGTGCCGCCGGCGCCGAACAGCCCGCC	43	0	0	NA	NA	NA	2	2	Orphan	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	NA|61aa|up_2|NC_018078.1_333098_333281_-,NA	NA|732aa|up_9|NC_018078.1_326204_328400_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_8|NC_018078.1_328513_329647_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_7|NC_018078.1_329643_330264_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_6|NC_018078.1_330360_330942_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_5|NC_018078.1_330871_331597_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_4|NC_018078.1_331686_332607_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_3|NC_018078.1_332646_333075_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|61aa|up_2|NC_018078.1_333098_333281_-	NA	NA|933aa|up_1|NC_018078.1_333375_336174_-	pfam00934, PE, PE family	NA|913aa|up_0|NC_018078.1_336437_339176_-	pfam00934, PE, PE family	NA|537aa|down_0|NC_018078.1_342229_343840_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_1|NC_018078.1_343863_344772_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|632aa|down_2|NC_018078.1_344995_346891_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_3|NC_018078.1_346887_348504_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_4|NC_018078.1_348500_352493_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_5|NC_018078.1_352489_352798_+	pfam00934, PE, PE family	NA|514aa|down_6|NC_018078.1_352800_354342_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_7|NC_018078.1_354390_354684_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|down_8|NC_018078.1_354713_355004_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]	NA|296aa|down_9|NC_018078.1_355014_355902_+	pfam14011, ESX-1_EspG, EspG family
GCF_000154605.2_ASM15460v2	NC_018078	Mycobacterium tuberculosis KZN 605, complete sequence	3	369320-370018	1	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	Orphan	TTCGCGAAGCCGATGTTGTAGCTGCCGGTGTTG	33	2	2	369608-369649|369683-369715	NC_018078.1_377669-377710|NC_018078.1_376484-376516	NA	10	10	Orphan	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	NA|101aa|up_4|NC_018078.1_366332_366635_+,NA|161aa|down_1|NC_018078.1_379458_379941_-,NA|410aa|down_5|NC_018078.1_382057_383287_+	NA|262aa|up_9|NC_018078.1_361036_361822_+	PRK14103, PRK14103, trans-aconitate 2-methyltransferase; Provisional	NA|268aa|up_8|NC_018078.1_361810_362614_-	COG4424, COG4424, Uncharacterized protein conserved in bacteria [Function unknown]	NA|466aa|up_7|NC_018078.1_362623_364021_-	cd16027, SGSH, N-sulfoglucosamine sulfohydrolase (SGSH; sulfamidase)	NA|589aa|up_6|NC_018078.1_364199_365966_+	pfam00934, PE, PE family	NA|76aa|up_5|NC_018078.1_366108_366336_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|101aa|up_4|NC_018078.1_366332_366635_+	NA	NA|74aa|up_3|NC_018078.1_366682_366904_+	PHA01748, PHA01748, hypothetical protein	NA|142aa|up_2|NC_018078.1_366900_367326_+	cd18755, PIN_MtVapC3_VapC21-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC3, VapC21 and related proteins	NA|211aa|up_1|NC_018078.1_367461_368094_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|303aa|up_0|NC_018078.1_368090_368999_+	cd09810, LPOR_like_SDR_c_like, light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs	NA|224aa|down_0|NC_018078.1_378799_379471_+	TIGR02476, BluB, 5,6-dimethylbenzimidazole synthase	NA|161aa|down_1|NC_018078.1_379458_379941_-	NA	NA|239aa|down_2|NC_018078.1_379998_380715_+	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|219aa|down_3|NC_018078.1_380816_381473_+	COG3786, COG3786, Uncharacterized protein conserved in bacteria [Function unknown]	NA|164aa|down_4|NC_018078.1_381542_382034_-	pfam13577, SnoaL_4, SnoaL-like domain	NA|410aa|down_5|NC_018078.1_382057_383287_+	NA	NA|621aa|down_6|NC_018078.1_383441_385304_+	COG0443, DnaK, Molecular chaperone [Posttranslational modification, protein turnover, chaperones]	NA|129aa|down_7|NC_018078.1_385375_385762_+	COG0326, HtpG, Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]	NA|221aa|down_8|NC_018078.1_385764_386427_-	pfam11259, DUF3060, Protein of unknown function (DUF3060)	NA|295aa|down_9|NC_018078.1_386487_387372_+	COG2273, SKN1, Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]
GCF_000154605.2_ASM15460v2	NC_018078	Mycobacterium tuberculosis KZN 605, complete sequence	4	692336-692412	2	CRISPRCasFinder	no	c2c9_V-U4	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	Type V-U4	TGAGGTGCGGCGTGAGCGCGGGT	23	0	0	NA	NA	NA	1	1	TypeV-U4	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	NA,NA	NA|72aa|up_9|NC_018078.1_678020_678236_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|136aa|up_8|NC_018078.1_678232_678640_+	cd18696, PIN_MtVapC26-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC26 and related proteins	NA|229aa|up_7|NC_018078.1_678699_679386_-	pfam10738, Lpp-LpqN, Probable lipoprotein LpqN	NA|878aa|up_6|NC_018078.1_679539_682173_+	COG3537, COG3537, Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]	NA|796aa|up_5|NC_018078.1_682195_684583_-	pfam03706, LPG_synthase_TM, Lysylphosphatidylglycerol synthase TM region	NA|241aa|up_4|NC_018078.1_684720_685443_+	COG2186, FadR, Transcriptional regulators [Transcription]	NA|266aa|up_3|NC_018078.1_685439_686237_+	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|296aa|up_2|NC_018078.1_686238_687126_+	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|405aa|up_1|NC_018078.1_687131_688346_+	pfam11887, Mce4_CUP1, Cholesterol uptake porter CUP1 of Mce4, putative	NA|482aa|up_0|NC_018078.1_689369_690815_+	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|517aa|down_0|NC_018078.1_693547_695098_+	COG1463, Ttg2C, ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|131aa|down_1|NC_018078.1_695149_695542_-	cd18768, PIN_MtVapC4-C5-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins	NA|86aa|down_2|NC_018078.1_695538_695796_-	COG4118, Phd, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|412aa|down_3|NC_018078.1_695978_697214_-	COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General function prediction only]	NA|138aa|down_4|NC_018078.1_697464_697878_-	cd18681, PIN_MtVapC27-VapC40_like, VapC-like PIN domain of Mycobacterium tuberculosis VapC27, and VapC40, and related proteins	NA|79aa|down_5|NC_018078.1_697874_698111_-	COG2002, AbrB, Regulators of stationary/sporulation gene expression [Transcription]	NA|169aa|down_6|NC_018078.1_698214_698721_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|157aa|down_7|NC_018078.1_698834_699305_-	PRK10755, PRK10755, two-component system sensor histidine kinase PmrB	NA|254aa|down_8|NC_018078.1_699348_700110_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|104aa|down_9|NC_018078.1_700166_700478_+	pfam03413, PepSY, Peptidase propeptide and YPEB domain
GCF_000154605.2_ASM15460v2	NC_018078	Mycobacterium tuberculosis KZN 605, complete sequence	5	841689-841811	3	PILER-CR	no		RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	Orphan	GCCGCCGGCCCCGCCGGCCCCGCCGGTGCCG--------GCG	42	0	0	NA	NA	NA	2	2	Orphan	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	NA|71aa|up_8|NC_018078.1_830705_830918_+,NA|176aa|up_5|NC_018078.1_832780_833308_+,NA|186aa|up_3|NC_018078.1_834890_835448_-,NA|46aa|down_2|NC_018078.1_842940_843078_-,NA|82aa|down_3|NC_018078.1_843236_843482_+,NA|242aa|down_9|NC_018078.1_851944_852670_-	NA|166aa|up_9|NC_018078.1_830211_830709_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|71aa|up_8|NC_018078.1_830705_830918_+	NA	NA|183aa|up_7|NC_018078.1_831066_831615_+	TIGR03086, TIGR03086, TIGR03086 family protein	NA|269aa|up_6|NC_018078.1_831859_832666_+	pfam10774, DUF4226, Domain of unknown function (DUF4226)	NA|176aa|up_5|NC_018078.1_832780_833308_+	NA	NA|176aa|up_4|NC_018078.1_833985_834513_+	pfam00934, PE, PE family	NA|186aa|up_3|NC_018078.1_834890_835448_-	NA	NA|169aa|up_2|NC_018078.1_835444_835951_-	pfam12728, HTH_17, Helix-turn-helix domain	NA|49aa|up_1|NC_018078.1_836063_836210_-	TIGR01692, 3-hydroxyisobutyrate_dehydrogenase_mitochondrial, 3-hydroxyisobutyrate dehydrogenase	NA|176aa|up_0|NC_018078.1_836158_836686_+	TIGR03817, DECH_helic, helicase/secretion neighborhood putative DEAH-box helicase	NA|86aa|down_0|NC_018078.1_842150_842408_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|143aa|down_1|NC_018078.1_842431_842860_+	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|46aa|down_2|NC_018078.1_842940_843078_-	NA	NA|82aa|down_3|NC_018078.1_843236_843482_+	NA	NA|295aa|down_4|NC_018078.1_843550_844435_-	TIGR01692, 3-hydroxyisobutyrate_dehydrogenase_mitochondrial, 3-hydroxyisobutyrate dehydrogenase	NA|391aa|down_5|NC_018078.1_844445_845618_-	cd01162, IBD, Isobutyryl-CoA dehydrogenase	NA|511aa|down_6|NC_018078.1_845624_847157_-	cd07085, ALDH_F6_MMSDH, Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2	NA|585aa|down_7|NC_018078.1_847362_849117_+	pfam00934, PE, PE family	NA|646aa|down_8|NC_018078.1_849306_851244_-	pfam00823, PPE, PPE family	NA|242aa|down_9|NC_018078.1_851944_852670_-	NA
GCF_000154605.2_ASM15460v2	NC_018078	Mycobacterium tuberculosis KZN 605, complete sequence	6	926467-927414	1	CRT	no	csa3	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	Type I-A	CGGGGCCGGCGGNNCCGGCGG	21	1	3	927250-927285|927250-927285|927250-927285	NC_018078.1_675439-675404|NC_018078.1_1991501-1991536|NC_018078.1_3198118-3198083	NA	19	19	Orphan	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	NA,NA|184aa|down_2|NC_018078.1_931424_931976_-,NA|147aa|down_8|NC_018078.1_936279_936720_-	NA|685aa|up_9|NC_018078.1_914103_916158_-	TIGR00350, Transcriptional_regulator_LytR, cell envelope-related function transcriptional attenuator common domain	NA|390aa|up_8|NC_018078.1_916323_917493_-	TIGR00737, Probable_tRNA-dihydrouridine_synthase, putative TIM-barrel protein, nifR3 family	NA|339aa|up_7|NC_018078.1_917580_918597_-	cd01050, Acyl_ACP_Desat, Acyl ACP desaturase, ferritin-like diiron-binding domain	NA|214aa|up_6|NC_018078.1_918758_919400_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|352aa|up_5|NC_018078.1_919480_920536_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	csa3|131aa|up_4|NC_018078.1_920587_920980_-	smart00418, HTH_ARSR, helix_turn_helix, Arsenical Resistance Operon Repressor	NA|141aa|up_3|NC_018078.1_921037_921460_-	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|97aa|up_2|NC_018078.1_921421_921712_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|302aa|up_1|NC_018078.1_921816_922722_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|272aa|up_0|NC_018078.1_922740_923556_-	TIGR04255, hypothetical_protein, TIGR04255 family protein	NA|883aa|down_0|NC_018078.1_927683_930332_-	pfam00934, PE, PE family	NA|215aa|down_1|NC_018078.1_930799_931444_+	pfam14032, PknH_C, PknH-like extracellular domain	NA|184aa|down_2|NC_018078.1_931424_931976_-	NA	NA|421aa|down_3|NC_018078.1_932093_933355_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|84aa|down_4|NC_018078.1_933828_934080_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|171aa|down_5|NC_018078.1_934096_934609_-	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|132aa|down_6|NC_018078.1_934605_935001_-	COG2154, COG2154, Pterin-4a-carbinolamine dehydratase [Coenzyme metabolism]	NA|360aa|down_7|NC_018078.1_935051_936131_-	COG2896, MoaA, Molybdenum cofactor biosynthesis enzyme [Coenzyme metabolism]	NA|147aa|down_8|NC_018078.1_936279_936720_-	NA	NA|528aa|down_9|NC_018078.1_936818_938402_+	COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production and conversion]
GCF_000154605.2_ASM15460v2	NC_018078	Mycobacterium tuberculosis KZN 605, complete sequence	7	1290372-1291939	4,3,2	PILER-CR,CRISPRCasFinder,CRT	no	cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	Type III-C,Type III-B,Type III-A,Type III-D	GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC,GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC,GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC	36,36,36	0	0	NA	NA	II-B,III-A:II-B,III-A:II-B,III-A	21,21,21	21	TypeIII-C,TypeIII-B,TypeIII-A,TypeIII-D	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	NA,NA|203aa|down_3|NC_018078.1_1297021_1297630_-,NA|104aa|down_4|NC_018078.1_1298049_1298361_-,NA|86aa|down_5|NC_018078.1_1298465_1298723_-,NA|64aa|down_7|NC_018078.1_1300309_1300501_-,NA|135aa|down_8|NC_018078.1_1300497_1300902_-,NA|85aa|down_9|NC_018078.1_1301049_1301304_+	NA|182aa|up_9|NC_018078.1_1280501_1281047_+	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]	cas6|241aa|up_8|NC_018078.1_1281446_1282169_+	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	cas10|813aa|up_7|NC_018078.1_1282165_1284604_+	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	csm2gr11|125aa|up_6|NC_018078.1_1284600_1284975_+	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	csm3gr7|237aa|up_5|NC_018078.1_1284984_1285695_+	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm4gr5|303aa|up_4|NC_018078.1_1285675_1286584_+	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm5gr7|376aa|up_3|NC_018078.1_1286580_1287708_+	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm6|383aa|up_2|NC_018078.1_1287803_1288952_+	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	cas1|339aa|up_1|NC_018078.1_1288964_1289981_+	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	cas2|114aa|up_0|NC_018078.1_1289981_1290323_+	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	NA|421aa|down_0|NC_018078.1_1292015_1293277_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|271aa|down_1|NC_018078.1_1294732_1295545_-	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|470aa|down_2|NC_018078.1_1295541_1296951_-	pfam00665, rve, Integrase core domain	NA|203aa|down_3|NC_018078.1_1297021_1297630_-	NA	NA|104aa|down_4|NC_018078.1_1298049_1298361_-	NA	NA|86aa|down_5|NC_018078.1_1298465_1298723_-	NA	NA|385aa|down_6|NC_018078.1_1298956_1300111_-	pfam00665, rve, Integrase core domain	NA|64aa|down_7|NC_018078.1_1300309_1300501_-	NA	NA|135aa|down_8|NC_018078.1_1300497_1300902_-	NA	NA|85aa|down_9|NC_018078.1_1301049_1301304_+	NA
GCF_000154605.2_ASM15460v2	NC_018078	Mycobacterium tuberculosis KZN 605, complete sequence	8	1293304-1294584	3,5,4	CRT,PILER-CR,CRISPRCasFinder	no	cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,c2c9_V-U4	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	Type III-C,Type III-B,Type III-A,Type III-D	GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC,GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC,GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC	36,36,36	0	0	NA	NA	II-B,III-A:II-B,III-A:II-B,III-A	17,16,16	17	TypeIII-C,TypeIII-B,TypeIII-A,TypeIII-D	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	NA,NA|203aa|down_2|NC_018078.1_1297021_1297630_-,NA|104aa|down_3|NC_018078.1_1298049_1298361_-,NA|86aa|down_4|NC_018078.1_1298465_1298723_-,NA|64aa|down_6|NC_018078.1_1300309_1300501_-,NA|135aa|down_7|NC_018078.1_1300497_1300902_-,NA|85aa|down_8|NC_018078.1_1301049_1301304_+	cas6|241aa|up_9|NC_018078.1_1281446_1282169_+	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	cas10|813aa|up_8|NC_018078.1_1282165_1284604_+	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	csm2gr11|125aa|up_7|NC_018078.1_1284600_1284975_+	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	csm3gr7|237aa|up_6|NC_018078.1_1284984_1285695_+	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm4gr5|303aa|up_5|NC_018078.1_1285675_1286584_+	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm5gr7|376aa|up_4|NC_018078.1_1286580_1287708_+	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm6|383aa|up_3|NC_018078.1_1287803_1288952_+	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	cas1|339aa|up_2|NC_018078.1_1288964_1289981_+	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	cas2|114aa|up_1|NC_018078.1_1289981_1290323_+	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	NA|421aa|up_0|NC_018078.1_1292015_1293277_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|271aa|down_0|NC_018078.1_1294732_1295545_-	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|470aa|down_1|NC_018078.1_1295541_1296951_-	pfam00665, rve, Integrase core domain	NA|203aa|down_2|NC_018078.1_1297021_1297630_-	NA	NA|104aa|down_3|NC_018078.1_1298049_1298361_-	NA	NA|86aa|down_4|NC_018078.1_1298465_1298723_-	NA	NA|385aa|down_5|NC_018078.1_1298956_1300111_-	pfam00665, rve, Integrase core domain	NA|64aa|down_6|NC_018078.1_1300309_1300501_-	NA	NA|135aa|down_7|NC_018078.1_1300497_1300902_-	NA	NA|85aa|down_8|NC_018078.1_1301049_1301304_+	NA	NA|92aa|down_9|NC_018078.1_1301479_1301755_-	COG4453, COG4453, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_000154605.2_ASM15460v2	NC_018078	Mycobacterium tuberculosis KZN 605, complete sequence	9	2253921-2254062	5	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	Orphan	TGAGTATTCCGTCGGTGACGGTTCCGCCGATCACGATTCCGGCTGGCAC	49	0	0	NA	NA	NA	1	1	Orphan	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	NA|127aa|up_5|NC_018078.1_2246023_2246404_+,NA|136aa|down_3|NC_018078.1_2262412_2262820_+	NA|256aa|up_9|NC_018078.1_2241736_2242504_+	PRK05867, PRK05867, SDR family oxidoreductase	NA|258aa|up_8|NC_018078.1_2242507_2243281_-	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]	NA|160aa|up_7|NC_018078.1_2243517_2243997_+	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|621aa|up_6|NC_018078.1_2244004_2245867_-	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|127aa|up_5|NC_018078.1_2246023_2246404_+	NA	NA|447aa|up_4|NC_018078.1_2246440_2247781_-	pfam00144, Beta-lactamase, Beta-lactamase	NA|372aa|up_3|NC_018078.1_2247771_2248887_-	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|424aa|up_2|NC_018078.1_2249158_2250430_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|288aa|up_1|NC_018078.1_2250467_2251331_-	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|155aa|up_0|NC_018078.1_2251428_2251893_+	cd07821, PYR_PYL_RCAR_like, Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins	NA|1389aa|down_0|NC_018078.1_2255642_2259809_+	pfam00823, PPE, PPE family	NA|399aa|down_1|NC_018078.1_2259978_2261175_-	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|368aa|down_2|NC_018078.1_2261174_2262278_-	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|136aa|down_3|NC_018078.1_2262412_2262820_+	NA	NA|251aa|down_4|NC_018078.1_2262797_2263550_-	cd16282, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain	NA|335aa|down_5|NC_018078.1_2263649_2264654_+	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|202aa|down_6|NC_018078.1_2264753_2265359_+	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|198aa|down_7|NC_018078.1_2265441_2266035_+	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|148aa|down_8|NC_018078.1_2266148_2266592_+	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|741aa|down_9|NC_018078.1_2266629_2268852_+	PRK15061, PRK15061, catalase/peroxidase
GCF_000154605.2_ASM15460v2	NC_018078	Mycobacterium tuberculosis KZN 605, complete sequence	10	2360497-2361537	4	CRT	no		RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	Orphan	NNCGGCGGNGCCGGCGGN	18	2	6	2360638-2360658|2360638-2360658|2360638-2360658|2360638-2360658|2360737-2360757|2360737-2360757	NC_018078.1_2059080-2059100|NC_018078.1_2922552-2922572|NC_018078.1_2922711-2922731|NC_018078.1_3250219-3250239|NC_018078.1_3320734-3320714|NC_018078.1_3797668-3797688	NA	17	17	Orphan	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	NA,NA|222aa|down_2|NC_018078.1_2364557_2365223_-	NA|248aa|up_9|NC_018078.1_2348926_2349670_-	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators	NA|163aa|up_8|NC_018078.1_2349666_2350155_-	COG1716, COG1716, FOG: FHA domain [Signal transduction mechanisms]	NA|135aa|up_7|NC_018078.1_2350394_2350799_-	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|293aa|up_6|NC_018078.1_2350836_2351715_-	COG3879, COG3879, Uncharacterized protein conserved in bacteria [Function unknown]	NA|111aa|up_5|NC_018078.1_2351731_2352064_-	COG3856, Sbp, Uncharacterized conserved protein (small basic protein) [Function unknown]	NA|308aa|up_4|NC_018078.1_2352125_2353049_-	COG3879, COG3879, Uncharacterized protein conserved in bacteria [Function unknown]	NA|210aa|up_3|NC_018078.1_2353041_2353671_-	COG0558, PgsA, Phosphatidylglycerophosphate synthase [Lipid metabolism]	NA|779aa|up_2|NC_018078.1_2353867_2356204_-	PRK12326, PRK12326, preprotein translocase subunit SecA; Reviewed	NA|548aa|up_1|NC_018078.1_2356308_2357952_-	PRK05858, PRK05858, acetolactate synthase	NA|640aa|up_0|NC_018078.1_2358022_2359942_+	COG4178, COG4178, ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]	NA|488aa|down_0|NC_018078.1_2361692_2363156_-	PRK07121, PRK07121, FAD-binding protein	NA|235aa|down_1|NC_018078.1_2363790_2364495_-	pfam13305, WHG, WHG domain	NA|222aa|down_2|NC_018078.1_2364557_2365223_-	NA	NA|301aa|down_3|NC_018078.1_2365327_2366230_-	COG3000, ERG3, Sterol desaturase [Lipid metabolism]	NA|144aa|down_4|NC_018078.1_2366638_2367070_+	pfam13827, DUF4189, Domain of unknown function (DUF4189)	NA|401aa|down_5|NC_018078.1_2367391_2368594_+	COG1252, Ndh, NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]	NA|235aa|down_6|NC_018078.1_2368603_2369308_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|119aa|down_7|NC_018078.1_2369461_2369818_-	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|469aa|down_8|NC_018078.1_2370062_2371469_-	pfam00823, PPE, PPE family	NA|410aa|down_9|NC_018078.1_2371600_2372830_-	pfam00823, PPE, PPE family
GCF_000154605.2_ASM15460v2	NC_018078	Mycobacterium tuberculosis KZN 605, complete sequence	11	3737581-3738428	5	CRT	no		RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	Orphan	CCGCCGNNNCCNCCGTNNCCGCC	23	0	0	NA	NA	NA	11	11	Orphan	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	NA,NA|96aa|down_4|NC_018078.1_3752301_3752589_-,NA|88aa|down_9|NC_018078.1_3765709_3765973_-	NA|282aa|up_9|NC_018078.1_3716958_3717804_-	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|147aa|up_8|NC_018078.1_3718278_3718719_+	cd04770, HTH_HMRTR, Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators	NA|290aa|up_7|NC_018078.1_3718752_3719622_-	TIGR00766, Uncharacterized_protein_Dda3937_02003, inner membrane protein YhjD	NA|337aa|up_6|NC_018078.1_3719642_3720653_-	PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed	NA|211aa|up_5|NC_018078.1_3720937_3721570_+	PRK14875, PRK14875, acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional	NA|410aa|up_4|NC_018078.1_3721636_3722866_-	PRK08299, PRK08299, NADP-dependent isocitrate dehydrogenase	NA|450aa|up_3|NC_018078.1_3723148_3724498_+	PRK07812, PRK07812, O-acetylhomoserine aminocarboxypropyltransferase; Validated	NA|380aa|up_2|NC_018078.1_3724509_3725649_+	PRK00175, metX, homoserine O-acetyltransferase; Provisional	NA|244aa|up_1|NC_018078.1_3725645_3726377_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|2538aa|up_0|NC_018078.1_3726385_3733999_-	pfam00823, PPE, PPE family	NA|86aa|down_0|NC_018078.1_3740171_3740429_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|3158aa|down_1|NC_018078.1_3740684_3750158_-	pfam00823, PPE, PPE family	NA|149aa|down_2|NC_018078.1_3750783_3751230_+	pfam01548, DEDD_Tnp_IS110, Transposase	NA|247aa|down_3|NC_018078.1_3751266_3752007_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|96aa|down_4|NC_018078.1_3752301_3752589_-	NA	NA|3717aa|down_5|NC_018078.1_3752925_3764076_-	pfam00823, PPE, PPE family	NA|265aa|down_6|NC_018078.1_3764319_3765114_-	pfam08031, BBE, Berberine and berberine like	NA|124aa|down_7|NC_018078.1_3765195_3765567_-	COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production and conversion]	NA|73aa|down_8|NC_018078.1_3765464_3765683_-	pfam01565, FAD_binding_4, FAD binding domain	NA|88aa|down_9|NC_018078.1_3765709_3765973_-	NA
GCF_000154605.2_ASM15460v2	NC_018078	Mycobacterium tuberculosis KZN 605, complete sequence	12	3984764-3984923	6	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	Orphan	AACTCCGGCAGCGGCAATATCGGC	24	1	14	3984788-3984808|3984788-3984808|3984788-3984808|3984788-3984808|3984788-3984808|3984788-3984808|3984788-3984808|3984788-3984808|3984788-3984808|3984788-3984808|3984788-3984808|3984788-3984808|3984788-3984808|3984788-3984808	NC_018078.1_334770-334750|NC_018078.1_339848-339828|NC_018078.1_528493-528473|NC_018078.1_673743-673723|NC_018078.1_837943-837963|NC_018078.1_840687-840707|NC_018078.1_927881-927861|NC_018078.1_1490936-1490916|NC_018078.1_2776457-2776477|NC_018078.1_3220359-3220379|NC_018078.1_3735605-3735585|NC_018078.1_3798001-3798021|NC_018078.1_3932243-3932263|NC_018078.1_3932288-3932308	NA	3	3	Orphan	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	NA,NA|89aa|down_8|NC_018078.1_3994395_3994662_-,NA|57aa|down_9|NC_018078.1_3994692_3994863_-	NA|305aa|up_9|NC_018078.1_3973613_3974528_-	PRK07791, PRK07791, short chain dehydrogenase; Provisional	NA|260aa|up_8|NC_018078.1_3974550_3975330_-	PRK07856, PRK07856, SDR family oxidoreductase	NA|248aa|up_7|NC_018078.1_3975384_3976128_+	PRK07938, PRK07938, enoyl-CoA hydratase family protein	NA|293aa|up_6|NC_018078.1_3976127_3977006_+	COG1788, AtoD, Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]	NA|251aa|up_5|NC_018078.1_3977002_3977755_+	COG2057, AtoA, Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]	NA|356aa|up_4|NC_018078.1_3977852_3978920_+	pfam03060, NMO, Nitronate monooxygenase	NA|686aa|up_3|NC_018078.1_3978916_3980974_+	TIGR02160, 12-phenylacetyl-CoA_epoxidase_subunit_E, phenylacetate-CoA oxygenase/reductase, PaaK subunit	NA|290aa|up_2|NC_018078.1_3981061_3981931_-	pfam18741, MTES_1575, REase_MTES_1575	NA|387aa|up_1|NC_018078.1_3982035_3983196_-	PRK07801, PRK07801, acetyl-CoA C-acetyltransferase	NA|201aa|up_0|NC_018078.1_3983260_3983863_-	pfam00440, TetR_N, Bacterial regulatory proteins, tetR family	NA|263aa|down_0|NC_018078.1_3985875_3986664_-	PRK07831, PRK07831, SDR family oxidoreductase	NA|386aa|down_1|NC_018078.1_3986660_3987818_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|508aa|down_2|NC_018078.1_3987865_3989389_+	PRK07656, PRK07656, long-chain-fatty-acid--CoA ligase; Validated	NA|378aa|down_3|NC_018078.1_3989389_3990523_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|320aa|down_4|NC_018078.1_3990519_3991479_+	cd00567, ACAD, Acyl-CoA dehydrogenase	NA|319aa|down_5|NC_018078.1_3991475_3992432_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|389aa|down_6|NC_018078.1_3992428_3993595_+	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|284aa|down_7|NC_018078.1_3993559_3994411_-	COG2162, NhoA, Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]	NA|89aa|down_8|NC_018078.1_3994395_3994662_-	NA	NA|57aa|down_9|NC_018078.1_3994692_3994863_-	NA
GCF_000154605.2_ASM15460v2	NC_018078	Mycobacterium tuberculosis KZN 605, complete sequence	13	3984992-3985369	7	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	Orphan	AACTCCGGCAGCGGCAATATCGGC	24	3	65	3985016-3985036|3985016-3985036|3985016-3985036|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985061-3985081|3985106-3985126|3985106-3985126|3985106-3985126|3985106-3985126	NC_018078.1_429992-429972|NC_018078.1_430022-430002|NC_018078.1_434306-434286|NC_018078.1_1490936-1490916|NC_018078.1_3220359-3220379|NC_018078.1_132425-132445|NC_018078.1_336539-336519|NC_018078.1_339524-339504|NC_018078.1_528493-528473|NC_018078.1_673473-673453|NC_018078.1_673482-673462|NC_018078.1_673533-673513|NC_018078.1_673542-673522|NC_018078.1_673653-673633|NC_018078.1_674376-674356|NC_018078.1_837943-837963|NC_018078.1_838951-838971|NC_018078.1_840597-840617|NC_018078.1_841932-841952|NC_018078.1_927881-927861|NC_018078.1_1453658-1453678|NC_018078.1_1490834-1490814|NC_018078.1_1611814-1611834|NC_018078.1_2333694-2333714|NC_018078.1_2334165-2334185|NC_018078.1_2432462-2432482|NC_018078.1_2776457-2776477|NC_018078.1_2780299-2780319|NC_018078.1_2795026-2795046|NC_018078.1_3026754-3026774|NC_018078.1_3223124-3223144|NC_018078.1_3223178-3223198|NC_018078.1_3319726-3319706|NC_018078.1_3443079-3443099|NC_018078.1_3735106-3735086|NC_018078.1_3735713-3735693|NC_018078.1_3735731-3735711|NC_018078.1_3735782-3735762|NC_018078.1_3735833-3735813|NC_018078.1_3735977-3735957|NC_018078.1_3736907-3736887|NC_018078.1_3737084-3737064|NC_018078.1_3737474-3737454|NC_018078.1_3776889-3776909|NC_018078.1_3916762-3916782|NC_018078.1_3916858-3916878|NC_018078.1_3917854-3917874|NC_018078.1_3917863-3917883|NC_018078.1_3917872-3917892|NC_018078.1_3917881-3917901|NC_018078.1_3917890-3917910|NC_018078.1_3918661-3918681|NC_018078.1_3918856-3918876|NC_018078.1_3924759-3924779|NC_018078.1_3929609-3929629|NC_018078.1_3930308-3930328|NC_018078.1_3930950-3930970|NC_018078.1_3932171-3932191|NC_018078.1_3932288-3932308|NC_018078.1_3932735-3932755|NC_018078.1_3936163-3936183|NC_018078.1_3149121-3149141|NC_018078.1_429992-429972|NC_018078.1_430022-430002|NC_018078.1_434306-434286	NA	6	6	Orphan	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	NA,NA|89aa|down_8|NC_018078.1_3994395_3994662_-,NA|57aa|down_9|NC_018078.1_3994692_3994863_-	NA|305aa|up_9|NC_018078.1_3973613_3974528_-	PRK07791, PRK07791, short chain dehydrogenase; Provisional	NA|260aa|up_8|NC_018078.1_3974550_3975330_-	PRK07856, PRK07856, SDR family oxidoreductase	NA|248aa|up_7|NC_018078.1_3975384_3976128_+	PRK07938, PRK07938, enoyl-CoA hydratase family protein	NA|293aa|up_6|NC_018078.1_3976127_3977006_+	COG1788, AtoD, Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]	NA|251aa|up_5|NC_018078.1_3977002_3977755_+	COG2057, AtoA, Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]	NA|356aa|up_4|NC_018078.1_3977852_3978920_+	pfam03060, NMO, Nitronate monooxygenase	NA|686aa|up_3|NC_018078.1_3978916_3980974_+	TIGR02160, 12-phenylacetyl-CoA_epoxidase_subunit_E, phenylacetate-CoA oxygenase/reductase, PaaK subunit	NA|290aa|up_2|NC_018078.1_3981061_3981931_-	pfam18741, MTES_1575, REase_MTES_1575	NA|387aa|up_1|NC_018078.1_3982035_3983196_-	PRK07801, PRK07801, acetyl-CoA C-acetyltransferase	NA|201aa|up_0|NC_018078.1_3983260_3983863_-	pfam00440, TetR_N, Bacterial regulatory proteins, tetR family	NA|263aa|down_0|NC_018078.1_3985875_3986664_-	PRK07831, PRK07831, SDR family oxidoreductase	NA|386aa|down_1|NC_018078.1_3986660_3987818_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|508aa|down_2|NC_018078.1_3987865_3989389_+	PRK07656, PRK07656, long-chain-fatty-acid--CoA ligase; Validated	NA|378aa|down_3|NC_018078.1_3989389_3990523_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|320aa|down_4|NC_018078.1_3990519_3991479_+	cd00567, ACAD, Acyl-CoA dehydrogenase	NA|319aa|down_5|NC_018078.1_3991475_3992432_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|389aa|down_6|NC_018078.1_3992428_3993595_+	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|284aa|down_7|NC_018078.1_3993559_3994411_-	COG2162, NhoA, Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]	NA|89aa|down_8|NC_018078.1_3994395_3994662_-	NA	NA|57aa|down_9|NC_018078.1_3994692_3994863_-	NA
GCF_000154605.2_ASM15460v2	NC_018078	Mycobacterium tuberculosis KZN 605, complete sequence	14	4098263-4098351	8	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	Orphan	GCTCGGCGACGATGCGGGCCGGATGACGGCC	31	0	0	NA	NA	NA	1	1	Orphan	RT,csa3,c2c9_V-U4,cas6,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas1,cas2,DEDDh,cas4,WYL,DinG,cas3	NA|257aa|up_6|NC_018078.1_4088849_4089620_-,NA|233aa|up_0|NC_018078.1_4097367_4098066_-,NA|126aa|down_6|NC_018078.1_4103586_4103964_+	NA|388aa|up_9|NC_018078.1_4084520_4085684_-	TIGR03819, heli_sec_ATPase, helicase/secretion neighborhood ATPase	NA|351aa|up_8|NC_018078.1_4085680_4086733_-	TIGR03815, CpaE_hom_Actino, helicase/secretion neighborhood CpaE-like protein	NA|288aa|up_7|NC_018078.1_4087231_4088095_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|257aa|up_6|NC_018078.1_4088849_4089620_-	NA	NA|549aa|up_5|NC_018078.1_4089616_4091263_-	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]	NA|288aa|up_4|NC_018078.1_4091259_4092123_-	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|309aa|up_3|NC_018078.1_4092115_4093042_-	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|542aa|up_2|NC_018078.1_4093043_4094669_-	cd00995, PBP2_NikA_DppA_OppA_like, The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold	NA|652aa|up_1|NC_018078.1_4095376_4097332_+	PRK00174, PRK00174, acetyl-CoA synthetase; Provisional	NA|233aa|up_0|NC_018078.1_4097367_4098066_-	NA	NA|173aa|down_0|NC_018078.1_4098411_4098930_+	pfam07332, Phage_holin_3_6, Putative Actinobacterial Holin-X, holin superfamily III	NA|328aa|down_1|NC_018078.1_4098930_4099914_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|398aa|down_2|NC_018078.1_4099906_4101100_-	pfam13365, Trypsin_2, Trypsin-like peptidase domain	NA|274aa|down_3|NC_018078.1_4101105_4101927_-	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|NC_018078.1_4102058_4102742_-	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|246aa|down_5|NC_018078.1_4102741_4103479_-	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]	NA|126aa|down_6|NC_018078.1_4103586_4103964_+	NA	NA|225aa|down_7|NC_018078.1_4104062_4104737_+	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|265aa|down_8|NC_018078.1_4104842_4105637_-	cd16278, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain	NA|152aa|down_9|NC_018078.1_4105643_4106099_-	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
