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_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	1	47953-48751	1	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Orphan	CCGCCGGNGCCGCCGGNN	18	0	0	NA	NA	NA	15	15	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA,NA	NA|398aa|up_9|NZ_CP003494.1_37594_38788_-	COG3285, COG3285, Predicted eukaryotic-type DNA primase [DNA replication, recombination, and repair]	NA|561aa|up_8|NZ_CP003494.1_38823_40506_+	PRK07788, PRK07788, acyl-CoA synthetase; Validated	NA|732aa|up_7|NZ_CP003494.1_40522_42718_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_6|NZ_CP003494.1_42831_43965_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_5|NZ_CP003494.1_43961_44582_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_4|NZ_CP003494.1_44678_45260_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_3|NZ_CP003494.1_45189_45915_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_2|NZ_CP003494.1_46004_46925_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_1|NZ_CP003494.1_47016_47445_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|86aa|up_0|NZ_CP003494.1_47468_47726_-	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|900aa|down_0|NZ_CP003494.1_50825_53525_-	pfam00934, PE, PE family	NA|303aa|down_1|NZ_CP003494.1_58465_59374_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|632aa|down_2|NZ_CP003494.1_59598_61494_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_3|NZ_CP003494.1_61490_63107_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_4|NZ_CP003494.1_63103_67096_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_5|NZ_CP003494.1_67092_67401_+	pfam00934, PE, PE family	NA|349aa|down_6|NZ_CP003494.1_67403_68450_+	pfam00823, PPE, PPE family	NA|98aa|down_7|NZ_CP003494.1_68993_69287_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|down_8|NZ_CP003494.1_69316_69607_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]	NA|296aa|down_9|NZ_CP003494.1_69617_70505_+	pfam14011, ESX-1_EspG, EspG family
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	2	55311-55533	1	PILER-CR	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Orphan	ATCCGCCGCTACCGCCGGTGCCGCCGGCGCCGAACAGCCCGCC	43	0	0	NA	NA	NA	2	2	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA,NA	NA|561aa|up_9|NZ_CP003494.1_38823_40506_+	PRK07788, PRK07788, acyl-CoA synthetase; Validated	NA|732aa|up_8|NZ_CP003494.1_40522_42718_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_7|NZ_CP003494.1_42831_43965_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_6|NZ_CP003494.1_43961_44582_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_5|NZ_CP003494.1_44678_45260_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_4|NZ_CP003494.1_45189_45915_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_3|NZ_CP003494.1_46004_46925_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_2|NZ_CP003494.1_47016_47445_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|86aa|up_1|NZ_CP003494.1_47468_47726_-	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|900aa|up_0|NZ_CP003494.1_50825_53525_-	pfam00934, PE, PE family	NA|303aa|down_0|NZ_CP003494.1_58465_59374_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|632aa|down_1|NZ_CP003494.1_59598_61494_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_2|NZ_CP003494.1_61490_63107_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_3|NZ_CP003494.1_63103_67096_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_4|NZ_CP003494.1_67092_67401_+	pfam00934, PE, PE family	NA|349aa|down_5|NZ_CP003494.1_67403_68450_+	pfam00823, PPE, PPE family	NA|98aa|down_6|NZ_CP003494.1_68993_69287_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|down_7|NZ_CP003494.1_69316_69607_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]	NA|296aa|down_8|NZ_CP003494.1_69617_70505_+	pfam14011, ESX-1_EspG, EspG family	NA|473aa|down_9|NZ_CP003494.1_70551_71970_+	TIGR03920, T7SS_EccD, type VII secretion integral membrane protein EccD
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	3	79148-79571	1	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Orphan	TTCGGCAACGGCGGCAACGGCGGG	24	2	2	79307-79327|79445-79465	NZ_CP003494.1_3401558-3401538|NZ_CP003494.1_4181666-4181686	NA	7	7	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA,NA|101aa|down_1|NZ_CP003494.1_80988_81291_+,NA|161aa|down_7|NZ_CP003494.1_94039_94522_-	NA|98aa|up_9|NZ_CP003494.1_68993_69287_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|up_8|NZ_CP003494.1_69316_69607_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]	NA|296aa|up_7|NZ_CP003494.1_69617_70505_+	pfam14011, ESX-1_EspG, EspG family	NA|473aa|up_6|NZ_CP003494.1_70551_71970_+	TIGR03920, T7SS_EccD, type VII secretion integral membrane protein EccD	NA|462aa|up_5|NZ_CP003494.1_71966_73352_+	TIGR03921, T7SS_mycosin, type VII secretion-associated serine protease mycosin	NA|332aa|up_4|NZ_CP003494.1_73348_74344_+	TIGR03923, T7SS_EccE, type VII secretion protein EccE	NA|401aa|up_3|NZ_CP003494.1_74330_75533_-	pfam00561, Abhydrolase_1, alpha/beta hydrolase fold	NA|262aa|up_2|NZ_CP003494.1_75639_76425_+	PRK14103, PRK14103, trans-aconitate 2-methyltransferase; Provisional	NA|268aa|up_1|NZ_CP003494.1_76413_77217_-	COG4424, COG4424, Uncharacterized protein conserved in bacteria [Function unknown]	NA|466aa|up_0|NZ_CP003494.1_77226_78624_-	cd16027, SGSH, N-sulfoglucosamine sulfohydrolase (SGSH; sulfamidase)	NA|76aa|down_0|NZ_CP003494.1_80764_80992_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|101aa|down_1|NZ_CP003494.1_80988_81291_+	NA	NA|74aa|down_2|NZ_CP003494.1_81338_81560_+	PHA01748, PHA01748, hypothetical protein	NA|142aa|down_3|NZ_CP003494.1_81556_81982_+	cd18755, PIN_MtVapC3_VapC21-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC3, VapC21 and related proteins	NA|211aa|down_4|NZ_CP003494.1_82118_82751_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|303aa|down_5|NZ_CP003494.1_82747_83656_+	cd09810, LPOR_like_SDR_c_like, light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs	NA|224aa|down_6|NZ_CP003494.1_93380_94052_+	TIGR02476, BluB, 5,6-dimethylbenzimidazole synthase	NA|161aa|down_7|NZ_CP003494.1_94039_94522_-	NA	NA|239aa|down_8|NZ_CP003494.1_94579_95296_+	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|219aa|down_9|NZ_CP003494.1_95397_96054_+	COG3786, COG3786, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	4	80005-80127	2	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Orphan	TTCGGCAACGGCGGCAACGGCGGG	24	1	1	80083-80103	NZ_CP003494.1_1689831-1689811	NA	2	2	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA,NA|101aa|down_1|NZ_CP003494.1_80988_81291_+,NA|161aa|down_7|NZ_CP003494.1_94039_94522_-	NA|98aa|up_9|NZ_CP003494.1_68993_69287_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|up_8|NZ_CP003494.1_69316_69607_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]	NA|296aa|up_7|NZ_CP003494.1_69617_70505_+	pfam14011, ESX-1_EspG, EspG family	NA|473aa|up_6|NZ_CP003494.1_70551_71970_+	TIGR03920, T7SS_EccD, type VII secretion integral membrane protein EccD	NA|462aa|up_5|NZ_CP003494.1_71966_73352_+	TIGR03921, T7SS_mycosin, type VII secretion-associated serine protease mycosin	NA|332aa|up_4|NZ_CP003494.1_73348_74344_+	TIGR03923, T7SS_EccE, type VII secretion protein EccE	NA|401aa|up_3|NZ_CP003494.1_74330_75533_-	pfam00561, Abhydrolase_1, alpha/beta hydrolase fold	NA|262aa|up_2|NZ_CP003494.1_75639_76425_+	PRK14103, PRK14103, trans-aconitate 2-methyltransferase; Provisional	NA|268aa|up_1|NZ_CP003494.1_76413_77217_-	COG4424, COG4424, Uncharacterized protein conserved in bacteria [Function unknown]	NA|466aa|up_0|NZ_CP003494.1_77226_78624_-	cd16027, SGSH, N-sulfoglucosamine sulfohydrolase (SGSH; sulfamidase)	NA|76aa|down_0|NZ_CP003494.1_80764_80992_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|101aa|down_1|NZ_CP003494.1_80988_81291_+	NA	NA|74aa|down_2|NZ_CP003494.1_81338_81560_+	PHA01748, PHA01748, hypothetical protein	NA|142aa|down_3|NZ_CP003494.1_81556_81982_+	cd18755, PIN_MtVapC3_VapC21-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC3, VapC21 and related proteins	NA|211aa|down_4|NZ_CP003494.1_82118_82751_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|303aa|down_5|NZ_CP003494.1_82747_83656_+	cd09810, LPOR_like_SDR_c_like, light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs	NA|224aa|down_6|NZ_CP003494.1_93380_94052_+	TIGR02476, BluB, 5,6-dimethylbenzimidazole synthase	NA|161aa|down_7|NZ_CP003494.1_94039_94522_-	NA	NA|239aa|down_8|NZ_CP003494.1_94579_95296_+	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|219aa|down_9|NZ_CP003494.1_95397_96054_+	COG3786, COG3786, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	5	409983-410059	3	CRISPRCasFinder	no	c2c9_V-U4	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Type V-U4	TGAGGTGCGGCGTGAGCGCGGGT	23	0	0	NA	NA	NA	1	1	TypeV-U4	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA,NA	NA|136aa|up_9|NZ_CP003494.1_395876_396284_+	cd18696, PIN_MtVapC26-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC26 and related proteins	NA|229aa|up_8|NZ_CP003494.1_396343_397030_-	pfam10738, Lpp-LpqN, Probable lipoprotein LpqN	NA|878aa|up_7|NZ_CP003494.1_397183_399817_+	COG3537, COG3537, Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]	NA|796aa|up_6|NZ_CP003494.1_399839_402227_-	pfam03706, LPG_synthase_TM, Lysylphosphatidylglycerol synthase TM region	NA|241aa|up_5|NZ_CP003494.1_402364_403087_+	COG2186, FadR, Transcriptional regulators [Transcription]	NA|266aa|up_4|NZ_CP003494.1_403083_403881_+	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|296aa|up_3|NZ_CP003494.1_403882_404770_+	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|405aa|up_2|NZ_CP003494.1_404775_405990_+	pfam11887, Mce4_CUP1, Cholesterol uptake porter CUP1 of Mce4, putative	NA|344aa|up_1|NZ_CP003494.1_405986_407018_+	COG1463, Ttg2C, ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|482aa|up_0|NZ_CP003494.1_407014_408460_+	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|517aa|down_0|NZ_CP003494.1_411194_412745_+	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_CP003494.1_412796_413189_-	cd18768, PIN_MtVapC4-C5-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins	NA|86aa|down_2|NZ_CP003494.1_413185_413443_-	COG4118, Phd, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|412aa|down_3|NZ_CP003494.1_413625_414861_-	COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General function prediction only]	NA|138aa|down_4|NZ_CP003494.1_415111_415525_-	cd18681, PIN_MtVapC27-VapC40_like, VapC-like PIN domain of Mycobacterium tuberculosis VapC27, and VapC40, and related proteins	NA|79aa|down_5|NZ_CP003494.1_415521_415758_-	COG2002, AbrB, Regulators of stationary/sporulation gene expression [Transcription]	NA|169aa|down_6|NZ_CP003494.1_415861_416368_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|157aa|down_7|NZ_CP003494.1_416481_416952_-	PRK10755, PRK10755, two-component system sensor histidine kinase PmrB	NA|254aa|down_8|NZ_CP003494.1_416995_417757_-	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_CP003494.1_417813_418125_+	pfam03413, PepSY, Peptidase propeptide and YPEB domain
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	6	644474-645385	2	CRT	no	csa3	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Type I-A	CGGGGCCGGCGGGGCCGGCGG	21	1	24	645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367|645341-645367	NZ_CP003494.1_552211-552237|NZ_CP003494.1_47925-47899|NZ_CP003494.1_50940-50914|NZ_CP003494.1_53886-53860|NZ_CP003494.1_558480-558506|NZ_CP003494.1_559758-559784|NZ_CP003494.1_644206-644232|NZ_CP003494.1_2113284-2113258|NZ_CP003494.1_49162-49136|NZ_CP003494.1_51891-51865|NZ_CP003494.1_52230-52204|NZ_CP003494.1_55006-54980|NZ_CP003494.1_392666-392640|NZ_CP003494.1_555586-555612|NZ_CP003494.1_556684-556710|NZ_CP003494.1_644107-644133|NZ_CP003494.1_931937-931963|NZ_CP003494.1_1368930-1368904|NZ_CP003494.1_1558148-1558122|NZ_CP003494.1_1761972-1761946|NZ_CP003494.1_3464151-3464177|NZ_CP003494.1_3464348-3464374|NZ_CP003494.1_3594909-3594935|NZ_CP003494.1_3595065-3595091	NA	19	19	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA,NA|184aa|down_1|NZ_CP003494.1_649503_650055_-,NA|81aa|down_7|NZ_CP003494.1_655530_655773_+	NA|685aa|up_9|NZ_CP003494.1_632109_634164_-	TIGR00350, Transcriptional_regulator_LytR, cell envelope-related function transcriptional attenuator common domain	NA|390aa|up_8|NZ_CP003494.1_634329_635499_-	TIGR00737, Probable_tRNA-dihydrouridine_synthase, putative TIM-barrel protein, nifR3 family	NA|339aa|up_7|NZ_CP003494.1_635586_636603_-	cd01050, Acyl_ACP_Desat, Acyl ACP desaturase, ferritin-like diiron-binding domain	NA|214aa|up_6|NZ_CP003494.1_636764_637406_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|352aa|up_5|NZ_CP003494.1_637486_638542_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	csa3|131aa|up_4|NZ_CP003494.1_638593_638986_-	smart00418, HTH_ARSR, helix_turn_helix, Arsenical Resistance Operon Repressor	NA|141aa|up_3|NZ_CP003494.1_639043_639466_-	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|97aa|up_2|NZ_CP003494.1_639427_639718_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|302aa|up_1|NZ_CP003494.1_639822_640728_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|272aa|up_0|NZ_CP003494.1_640746_641562_-	TIGR04255, hypothetical_protein, TIGR04255 family protein	NA|215aa|down_0|NZ_CP003494.1_648878_649523_+	pfam14032, PknH_C, PknH-like extracellular domain	NA|184aa|down_1|NZ_CP003494.1_649503_650055_-	NA	NA|241aa|down_2|NZ_CP003494.1_650135_650858_-	COG4849, COG4849, Predicted nucleotidyltransferase [General function prediction    only]	NA|343aa|down_3|NZ_CP003494.1_650928_651957_-	COG4861, COG4861, Uncharacterized protein conserved in bacteria [Function unknown]	NA|261aa|down_4|NZ_CP003494.1_652645_653428_+	pfam01427, Peptidase_M15, D-ala-D-ala dipeptidase	NA|271aa|down_5|NZ_CP003494.1_653514_654327_+	pfam13847, Methyltransf_31, Methyltransferase domain	NA|287aa|down_6|NZ_CP003494.1_654394_655255_-	TIGR01250, Proline_iminopeptidase, proline-specific peptidase, Bacillus coagulans-type subfamily	NA|81aa|down_7|NZ_CP003494.1_655530_655773_+	NA	NA|431aa|down_8|NZ_CP003494.1_656049_657342_+	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily	NA|335aa|down_9|NZ_CP003494.1_657325_658330_+	COG1071, AcoA, Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	7	837734-837840	4	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Orphan	AGCGCCGGCAGCGCCGCAGCCAGCG	25	0	0	NA	NA	NA	1	1	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA|359aa|up_8|NZ_CP003494.1_829346_830423_+,NA|84aa|up_7|NZ_CP003494.1_830823_831075_+,NA|70aa|up_6|NZ_CP003494.1_831135_831345_-,NA	NA|204aa|up_9|NZ_CP003494.1_828574_829186_+	COG1670, RimL, Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]	NA|359aa|up_8|NZ_CP003494.1_829346_830423_+	NA	NA|84aa|up_7|NZ_CP003494.1_830823_831075_+	NA	NA|70aa|up_6|NZ_CP003494.1_831135_831345_-	NA	NA|152aa|up_5|NZ_CP003494.1_831348_831804_-	PRK08317, PRK08317, hypothetical protein; Provisional	NA|334aa|up_4|NZ_CP003494.1_831710_832712_+	cd00038, CAP_ED, effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO sensor	NA|253aa|up_3|NZ_CP003494.1_832729_833488_+	pfam18702, DUF5642, Domain of unknown function (DUF5642)	NA|206aa|up_2|NZ_CP003494.1_833493_834111_-	COG3145, AlkB, Alkylated DNA repair protein [DNA replication, recombination, and repair]	NA|403aa|up_1|NZ_CP003494.1_834147_835356_+	PRK01388, PRK01388, arginine deiminase; Provisional	NA|504aa|up_0|NZ_CP003494.1_835390_836902_-	COG1928, PMT1, Dolichyl-phosphate-mannose--protein O-mannosyl transferase [Posttranslational modification, protein turnover, chaperones]	NA|477aa|down_0|NZ_CP003494.1_838947_840378_-	PRK05877, PRK05877, aminodeoxychorismate synthase component I; Provisional	NA|568aa|down_1|NZ_CP003494.1_840439_842143_+	pfam16116, DUF4832, Domain of unknown function (DUF4832)	NA|520aa|down_2|NZ_CP003494.1_842169_843729_-	PRK11893, PRK11893, methionyl-tRNA synthetase; Reviewed	NA|265aa|down_3|NZ_CP003494.1_843814_844609_+	TIGR00010, Uncharacterized_deoxyribonuclease_MG009, hydrolase, TatD family	NA|363aa|down_4|NZ_CP003494.1_844816_845905_+	COG3583, COG3583, Uncharacterized protein conserved in bacteria [Function unknown]	NA|318aa|down_5|NZ_CP003494.1_845877_846831_+	PRK00274, ksgA, 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase RsmA	NA|307aa|down_6|NZ_CP003494.1_846916_847837_+	PRK03188, PRK03188, 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional	NA|545aa|down_7|NZ_CP003494.1_848351_849986_+	PRK07768, PRK07768, long-chain-fatty-acid--CoA ligase; Validated	NA|192aa|down_8|NZ_CP003494.1_850059_850635_-	COG0193, Pth, Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]	NA|216aa|down_9|NZ_CP003494.1_850647_851295_-	TIGR00731, 50S_ribosomal_protein_L25, ribosomal protein bL25, Ctc-form
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	8	905245-905320	5	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Orphan	TTGCCGCCGTTGCGCCGTTGCCG	23	1	1	905268-905297	NZ_CP003494.1_907616-907645	NA	1	1	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA,NA	NA|394aa|up_9|NZ_CP003494.1_896122_897304_+	COG3391, COG3391, Uncharacterized conserved protein [Function unknown]	NA|544aa|up_8|NZ_CP003494.1_897410_899042_+	cd12119, ttLC_FACS_AlkK_like, Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles	NA|355aa|up_7|NZ_CP003494.1_899117_900182_+	COG3804, COG3804, Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]	NA|158aa|up_6|NZ_CP003494.1_900234_900708_+	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_5|NZ_CP003494.1_900741_901605_+	cd01908, YafJ, Glutamine amidotransferases class-II (Gn-AT)_YafJ-type	NA|286aa|up_4|NZ_CP003494.1_901609_902467_+	COG1752, RssA, Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]	NA|361aa|up_3|NZ_CP003494.1_902467_903550_-	cd07228, Pat_NTE_like_bacteria, Bacterial patatin-like phospholipase domain containing protein 6	NA|140aa|up_2|NZ_CP003494.1_903630_904050_-	pfam17301, LpqV, Putative lipoprotein LpqV	NA|189aa|up_1|NZ_CP003494.1_904161_904728_+	cd10548, cupin_CDO, cysteine dioxygenase, cupin domain	NA|132aa|up_0|NZ_CP003494.1_904724_905120_+	cd01447, Polysulfide_ST, Polysulfide-sulfurtransferase - Rhodanese Homology Domain	NA|588aa|down_0|NZ_CP003494.1_910049_911813_-	COG4425, COG4425, Predicted membrane protein [Function unknown]	NA|258aa|down_1|NZ_CP003494.1_911809_912583_-	PRK05862, PRK05862, enoyl-CoA hydratase; Provisional	NA|346aa|down_2|NZ_CP003494.1_912594_913632_-	PRK05617, PRK05617, 3-hydroxyisobutyryl-CoA hydrolase; Provisional	NA|279aa|down_3|NZ_CP003494.1_913818_914655_+	COG4760, COG4760, Predicted membrane protein [Function unknown]	NA|284aa|down_4|NZ_CP003494.1_914770_915622_+	pfam18741, MTES_1575, REase_MTES_1575	NA|406aa|down_5|NZ_CP003494.1_915695_916913_-	PRK07851, PRK07851, acetyl-CoA C-acetyltransferase	NA|315aa|down_6|NZ_CP003494.1_916965_917910_-	cd01836, FeeA_FeeB_like, SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases	NA|356aa|down_7|NZ_CP003494.1_918132_919200_+	COG0657, Aes, Esterase/lipase [Lipid metabolism]	NA|465aa|down_8|NZ_CP003494.1_919256_920651_+	TIGR01137, Cystathionine_beta-synthase, cystathionine beta-synthase	NA|241aa|down_9|NZ_CP003494.1_920852_921575_+	pfam06271, RDD, RDD family
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	9	929490-930347	6	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Orphan	GGCGGTGTCGGCGGTGCCGGCGG	23	5	85	929873-929894|929873-929894|930056-930077|930056-930077|930056-930077|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930173-930191|930215-930233|930257-930278	NZ_CP003494.1_2635285-2635264|NZ_CP003494.1_2635351-2635330|NZ_CP003494.1_556048-556069|NZ_CP003494.1_930742-930763|NZ_CP003494.1_936868-936889|NZ_CP003494.1_930694-930712|NZ_CP003494.1_51327-51309|NZ_CP003494.1_392330-392312|NZ_CP003494.1_558312-558330|NZ_CP003494.1_936841-936859|NZ_CP003494.1_936914-936932|NZ_CP003494.1_1342622-1342604|NZ_CP003494.1_1345683-1345665|NZ_CP003494.1_1349460-1349442|NZ_CP003494.1_1349552-1349534|NZ_CP003494.1_1350212-1350194|NZ_CP003494.1_1689748-1689730|NZ_CP003494.1_1762146-1762128|NZ_CP003494.1_1762692-1762674|NZ_CP003494.1_2476574-2476556|NZ_CP003494.1_2480095-2480077|NZ_CP003494.1_3587036-3587054|NZ_CP003494.1_49318-49300|NZ_CP003494.1_52434-52416|NZ_CP003494.1_52887-52869|NZ_CP003494.1_52938-52920|NZ_CP003494.1_52947-52929|NZ_CP003494.1_55219-55201|NZ_CP003494.1_55606-55588|NZ_CP003494.1_55635-55653|NZ_CP003494.1_55729-55711|NZ_CP003494.1_80566-80548|NZ_CP003494.1_160616-160598|NZ_CP003494.1_263972-263954|NZ_CP003494.1_340988-341006|NZ_CP003494.1_341210-341228|NZ_CP003494.1_391496-391478|NZ_CP003494.1_559260-559278|NZ_CP003494.1_809047-809065|NZ_CP003494.1_809695-809713|NZ_CP003494.1_930712-930730|NZ_CP003494.1_931066-931084|NZ_CP003494.1_931574-931592|NZ_CP003494.1_931826-931844|NZ_CP003494.1_931844-931862|NZ_CP003494.1_937263-937281|NZ_CP003494.1_1202777-1202759|NZ_CP003494.1_1330577-1330559|NZ_CP003494.1_1331030-1331012|NZ_CP003494.1_1349322-1349304|NZ_CP003494.1_1349331-1349313|NZ_CP003494.1_1557829-1557811|NZ_CP003494.1_1558253-1558235|NZ_CP003494.1_1689022-1689004|NZ_CP003494.1_1702025-1702043|NZ_CP003494.1_1987737-1987719|NZ_CP003494.1_1994435-1994417|NZ_CP003494.1_2047215-2047197|NZ_CP003494.1_2108754-2108772|NZ_CP003494.1_2113197-2113179|NZ_CP003494.1_2255745-2255727|NZ_CP003494.1_2368005-2368023|NZ_CP003494.1_2468491-2468473|NZ_CP003494.1_2469000-2468982|NZ_CP003494.1_2469582-2469564|NZ_CP003494.1_2718747-2718765|NZ_CP003494.1_2718846-2718864|NZ_CP003494.1_3367921-3367939|NZ_CP003494.1_3399285-3399267|NZ_CP003494.1_3399909-3399891|NZ_CP003494.1_3400152-3400134|NZ_CP003494.1_3400284-3400266|NZ_CP003494.1_3402189-3402171|NZ_CP003494.1_3462732-3462750|NZ_CP003494.1_3462915-3462933|NZ_CP003494.1_3584463-3584481|NZ_CP003494.1_3586203-3586221|NZ_CP003494.1_3586861-3586879|NZ_CP003494.1_3595287-3595305|NZ_CP003494.1_3685078-3685060|NZ_CP003494.1_3741697-3741715|NZ_CP003494.1_3741787-3741805|NZ_CP003494.1_4199529-4199547|NZ_CP003494.1_930736-930754|NZ_CP003494.1_930778-930799	NA	16	16	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA|89aa|up_2|NZ_CP003494.1_924922_925189_+,NA|61aa|down_5|NZ_CP003494.1_934447_934630_+	NA|356aa|up_9|NZ_CP003494.1_918132_919200_+	COG0657, Aes, Esterase/lipase [Lipid metabolism]	NA|465aa|up_8|NZ_CP003494.1_919256_920651_+	TIGR01137, Cystathionine_beta-synthase, cystathionine beta-synthase	NA|241aa|up_7|NZ_CP003494.1_920852_921575_+	pfam06271, RDD, RDD family	NA|389aa|up_6|NZ_CP003494.1_921606_922773_+	PRK07811, PRK07811, cystathionine gamma-synthase; Provisional	NA|165aa|up_5|NZ_CP003494.1_922843_923338_-	PRK00226, greA, transcription elongation factor GreA; Reviewed	NA|145aa|up_4|NZ_CP003494.1_923523_923958_-	pfam14155, DUF4307, Domain of unknown function (DUF4307)	NA|289aa|up_3|NZ_CP003494.1_924059_924926_+	TIGR03446, mycothiol_Mca, mycothiol conjugate amidase Mca	NA|89aa|up_2|NZ_CP003494.1_924922_925189_+	NA	NA|243aa|up_1|NZ_CP003494.1_927295_928024_-	TIGR01065, Hypothetical_UPF0073_protein_yqfA	NA|263aa|up_0|NZ_CP003494.1_928134_928923_+	PRK14828, PRK14828, undecaprenyl pyrophosphate synthase; Provisional	NA|231aa|down_0|NZ_CP003494.1_931358_932051_+	pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex non-fungal	NA|107aa|down_1|NZ_CP003494.1_932227_932548_+	COG0020, UppS, Undecaprenyl pyrophosphate synthase [Lipid metabolism]	NA|107aa|down_2|NZ_CP003494.1_933262_933583_+	COG0020, UppS, Undecaprenyl pyrophosphate synthase [Lipid metabolism]	NA|145aa|down_3|NZ_CP003494.1_933735_934170_+	pfam00934, PE, PE family	NA|55aa|down_4|NZ_CP003494.1_934271_934436_+	smart00637, CBD_II, CBD_II domain	NA|61aa|down_5|NZ_CP003494.1_934447_934630_+	NA	NA|152aa|down_6|NZ_CP003494.1_934821_935277_+	pfam01670, Glyco_hydro_12, Glycosyl hydrolase family 12	NA|313aa|down_7|NZ_CP003494.1_938683_939622_-	PRK05439, PRK05439, pantothenate kinase; Provisional	NA|427aa|down_8|NZ_CP003494.1_940009_941290_+	PRK00011, glyA, serine hydroxymethyltransferase; Reviewed	NA|276aa|down_9|NZ_CP003494.1_941394_942222_+	cd01050, Acyl_ACP_Desat, Acyl ACP desaturase, ferritin-like diiron-binding domain
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	10	1557676-1557823	7	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Orphan	GGCACCGCCGTTGCCGTACAGCAGCCGGCGTTGCCGCCGGCCCCGC	46	0	0	NA	NA	NA	1	1	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA|269aa|up_3|NZ_CP003494.1_1551132_1551939_+,NA	NA|65aa|up_9|NZ_CP003494.1_1546329_1546524_+	PRK00172, rpmI, 50S ribosomal protein L35; Reviewed	NA|130aa|up_8|NZ_CP003494.1_1546585_1546975_+	PRK05185, rplT, 50S ribosomal protein L20; Provisional	NA|261aa|up_7|NZ_CP003494.1_1547007_1547790_+	COG0566, SpoU, rRNA methylases [Translation, ribosomal structure and biogenesis]	NA|352aa|up_6|NZ_CP003494.1_1547800_1548856_-	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|311aa|up_5|NZ_CP003494.1_1549165_1550098_+	pfam00934, PE, PE family	NA|317aa|up_4|NZ_CP003494.1_1550175_1551126_+	cd07302, CHD, cyclase homology domain	NA|269aa|up_3|NZ_CP003494.1_1551132_1551939_+	NA	NA|342aa|up_2|NZ_CP003494.1_1552134_1553160_+	PRK00488, pheS, phenylalanyl-tRNA synthetase subunit alpha; Validated	NA|832aa|up_1|NZ_CP003494.1_1553159_1555655_+	PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta; Reviewed	NA|612aa|up_0|NZ_CP003494.1_1555748_1557584_-	PRK13875, PRK13875, conjugal transfer protein TrbL; Provisional	NA|353aa|down_0|NZ_CP003494.1_1559280_1560339_+	PRK00436, argC, N-acetyl-gamma-glutamyl-phosphate reductase; Validated	NA|405aa|down_1|NZ_CP003494.1_1560335_1561550_+	PRK05388, argJ, bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ	NA|295aa|down_2|NZ_CP003494.1_1561546_1562431_+	PRK00942, PRK00942, acetylglutamate kinase; Provisional	NA|401aa|down_3|NZ_CP003494.1_1562427_1563630_+	PRK03244, argD, acetylornithine transaminase	NA|308aa|down_4|NZ_CP003494.1_1563626_1564550_+	PRK00779, PRK00779, ornithine carbamoyltransferase; Provisional	NA|171aa|down_5|NZ_CP003494.1_1564546_1565059_+	PRK03341, PRK03341, arginine repressor; Provisional	NA|399aa|down_6|NZ_CP003494.1_1565067_1566264_+	PRK00509, PRK00509, argininosuccinate synthase; Provisional	NA|471aa|down_7|NZ_CP003494.1_1566343_1567756_+	PRK00855, PRK00855, argininosuccinate lyase; Provisional	NA|354aa|down_8|NZ_CP003494.1_1567864_1568926_+	COG3424, BcsA, Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]	NA|1602aa|down_9|NZ_CP003494.1_1575412_1580218_+	COG3321, COG3321, Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	11	1788649-1788864	8	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Orphan	GTTGCCGCCGTCGCCGCCGTGGCC	24	2	13	1788732-1788752|1788732-1788752|1788819-1788839|1788819-1788839|1788819-1788839|1788819-1788839|1788819-1788839|1788819-1788839|1788819-1788839|1788819-1788839|1788819-1788839|1788819-1788839|1788819-1788839	NZ_CP003494.1_907624-907644|NZ_CP003494.1_931943-931923|NZ_CP003494.1_1103060-1103080|NZ_CP003494.1_687593-687613|NZ_CP003494.1_687805-687825|NZ_CP003494.1_906680-906700|NZ_CP003494.1_909205-909225|NZ_CP003494.1_1202186-1202206|NZ_CP003494.1_2471032-2471052|NZ_CP003494.1_2471220-2471240|NZ_CP003494.1_2619270-2619290|NZ_CP003494.1_3403911-3403931|NZ_CP003494.1_3690970-3690990	NA	4	4	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA|88aa|up_0|NZ_CP003494.1_1788248_1788512_-,NA	NA|165aa|up_9|NZ_CP003494.1_1774542_1775037_+	pfam02577, DNase-RNase, Bifunctional nuclease	NA|226aa|up_8|NZ_CP003494.1_1775440_1776118_+	cd01105, HTH_GlnR-like, Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators	NA|942aa|up_7|NZ_CP003494.1_1776476_1779302_+	PRK05367, PRK05367, aminomethyl-transferring glycine dehydrogenase	NA|287aa|up_6|NZ_CP003494.1_1779528_1780389_-	PRK03204, PRK03204, haloalkane dehalogenase; Provisional	NA|289aa|up_5|NZ_CP003494.1_1780429_1781296_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|629aa|up_4|NZ_CP003494.1_1781300_1783187_-	TIGR00976, Hypothetical_protein_Rv1835c/MT1883/Mb1866c	NA|678aa|up_3|NZ_CP003494.1_1783202_1785236_-	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_CP003494.1_1785355_1787581_-	PRK02999, PRK02999, malate synthase G; Provisional	NA|132aa|up_1|NZ_CP003494.1_1787856_1788252_-	COG1848, COG1848, Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]	NA|88aa|up_0|NZ_CP003494.1_1788248_1788512_-	NA	NA|350aa|down_0|NZ_CP003494.1_1790288_1791338_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|456aa|down_1|NZ_CP003494.1_1791337_1792705_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|479aa|down_2|NZ_CP003494.1_1792878_1794315_-	PRK07807, PRK07807, GuaB1 family IMP dehydrogenase-related protein	NA|317aa|down_3|NZ_CP003494.1_1795830_1796781_-	cd07326, M56_BlaR1_MecR1_like, Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase	NA|139aa|down_4|NZ_CP003494.1_1796795_1797212_-	COG3682, COG3682, Predicted transcriptional regulator [Transcription]	NA|141aa|down_5|NZ_CP003494.1_1797489_1797912_+	cd03443, PaaI_thioesterase, PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria	NA|101aa|down_6|NZ_CP003494.1_1797960_1798263_+	pfam00547, Urease_gamma, Urease, gamma subunit	NA|105aa|down_7|NZ_CP003494.1_1798259_1798574_+	PRK13202, ureB, urease subunit beta; Reviewed	NA|578aa|down_8|NZ_CP003494.1_1798573_1800307_+	PRK13206, ureC, urease subunit alpha; Reviewed	NA|212aa|down_9|NZ_CP003494.1_1800306_1800942_+	COG0830, UreF, Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	12	1789009-1789532	9,3	CRISPRCasFinder,CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Orphan	GTTGCCGCCGTCGCCGCCGTGGCC,GCCGCCGTCGCCGCCGTTGCC	24,21	3	44	1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789114-1789128|1789033-1789050|1789033-1789050|1789123-1789140	NZ_CP003494.1_47910-47924|NZ_CP003494.1_48952-48966|NZ_CP003494.1_50209-50223|NZ_CP003494.1_50925-50939|NZ_CP003494.1_51939-51953|NZ_CP003494.1_53871-53885|NZ_CP003494.1_54796-54810|NZ_CP003494.1_55927-55941|NZ_CP003494.1_340060-340046|NZ_CP003494.1_393101-393115|NZ_CP003494.1_552226-552212|NZ_CP003494.1_555601-555587|NZ_CP003494.1_555799-555785|NZ_CP003494.1_557556-557542|NZ_CP003494.1_558495-558481|NZ_CP003494.1_558774-558760|NZ_CP003494.1_559773-559759|NZ_CP003494.1_565672-565658|NZ_CP003494.1_643165-643151|NZ_CP003494.1_644122-644108|NZ_CP003494.1_644221-644207|NZ_CP003494.1_644420-644406|NZ_CP003494.1_687719-687733|NZ_CP003494.1_687931-687945|NZ_CP003494.1_906806-906820|NZ_CP003494.1_909331-909345|NZ_CP003494.1_931952-931938|NZ_CP003494.1_936197-936183|NZ_CP003494.1_1203208-1203222|NZ_CP003494.1_1331225-1331239|NZ_CP003494.1_1369582-1369596|NZ_CP003494.1_1558442-1558456|NZ_CP003494.1_1558725-1558739|NZ_CP003494.1_1690087-1690101|NZ_CP003494.1_1701545-1701531|NZ_CP003494.1_1745946-1745960|NZ_CP003494.1_2047959-2047973|NZ_CP003494.1_2113269-2113283|NZ_CP003494.1_2113824-2113838|NZ_CP003494.1_2618850-2618864|NZ_CP003494.1_4199854-4199840|NZ_CP003494.1_118547-118530|NZ_CP003494.1_324297-324280|NZ_CP003494.1_3114489-3114472	NA:NA	11,4	11	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA|88aa|up_0|NZ_CP003494.1_1788248_1788512_-,NA	NA|165aa|up_9|NZ_CP003494.1_1774542_1775037_+	pfam02577, DNase-RNase, Bifunctional nuclease	NA|226aa|up_8|NZ_CP003494.1_1775440_1776118_+	cd01105, HTH_GlnR-like, Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators	NA|942aa|up_7|NZ_CP003494.1_1776476_1779302_+	PRK05367, PRK05367, aminomethyl-transferring glycine dehydrogenase	NA|287aa|up_6|NZ_CP003494.1_1779528_1780389_-	PRK03204, PRK03204, haloalkane dehalogenase; Provisional	NA|289aa|up_5|NZ_CP003494.1_1780429_1781296_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|629aa|up_4|NZ_CP003494.1_1781300_1783187_-	TIGR00976, Hypothetical_protein_Rv1835c/MT1883/Mb1866c	NA|678aa|up_3|NZ_CP003494.1_1783202_1785236_-	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_CP003494.1_1785355_1787581_-	PRK02999, PRK02999, malate synthase G; Provisional	NA|132aa|up_1|NZ_CP003494.1_1787856_1788252_-	COG1848, COG1848, Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]	NA|88aa|up_0|NZ_CP003494.1_1788248_1788512_-	NA	NA|350aa|down_0|NZ_CP003494.1_1790288_1791338_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|456aa|down_1|NZ_CP003494.1_1791337_1792705_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|479aa|down_2|NZ_CP003494.1_1792878_1794315_-	PRK07807, PRK07807, GuaB1 family IMP dehydrogenase-related protein	NA|317aa|down_3|NZ_CP003494.1_1795830_1796781_-	cd07326, M56_BlaR1_MecR1_like, Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase	NA|139aa|down_4|NZ_CP003494.1_1796795_1797212_-	COG3682, COG3682, Predicted transcriptional regulator [Transcription]	NA|141aa|down_5|NZ_CP003494.1_1797489_1797912_+	cd03443, PaaI_thioesterase, PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria	NA|101aa|down_6|NZ_CP003494.1_1797960_1798263_+	pfam00547, Urease_gamma, Urease, gamma subunit	NA|105aa|down_7|NZ_CP003494.1_1798259_1798574_+	PRK13202, ureB, urease subunit beta; Reviewed	NA|578aa|down_8|NZ_CP003494.1_1798573_1800307_+	PRK13206, ureC, urease subunit alpha; Reviewed	NA|212aa|down_9|NZ_CP003494.1_1800306_1800942_+	COG0830, UreF, Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	13	1870575-1870700	10	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Orphan	TGCCAGCCGGAATCGTGATCGGCGGAACCGTCACCGACGGAATACTCA	48	0	0	NA	NA	NA	1	1	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA|157aa|up_9|NZ_CP003494.1_1853108_1853579_-,NA|136aa|up_1|NZ_CP003494.1_1860604_1861012_-,NA|127aa|down_5|NZ_CP003494.1_1878309_1878690_-	NA|157aa|up_9|NZ_CP003494.1_1853108_1853579_-	NA	NA|216aa|up_8|NZ_CP003494.1_1853918_1854566_-	pfam14081, DUF4262, Domain of unknown function (DUF4262)	NA|741aa|up_7|NZ_CP003494.1_1854572_1856795_-	PRK15061, PRK15061, catalase/peroxidase	NA|148aa|up_6|NZ_CP003494.1_1856832_1857276_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|198aa|up_5|NZ_CP003494.1_1857389_1857983_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_4|NZ_CP003494.1_1858065_1858671_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_3|NZ_CP003494.1_1858770_1859775_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_2|NZ_CP003494.1_1859874_1860627_+	cd16282, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain	NA|136aa|up_1|NZ_CP003494.1_1860604_1861012_-	NA	NA|767aa|up_0|NZ_CP003494.1_1861146_1863447_+	PLN02892, PLN02892, isocitrate lyase	NA|155aa|down_0|NZ_CP003494.1_1872820_1873285_-	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_CP003494.1_1873382_1874246_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_2|NZ_CP003494.1_1874283_1875555_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_3|NZ_CP003494.1_1875826_1876942_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_4|NZ_CP003494.1_1876932_1878273_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_5|NZ_CP003494.1_1878309_1878690_-	NA	NA|621aa|down_6|NZ_CP003494.1_1878846_1880709_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_7|NZ_CP003494.1_1880716_1881196_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_8|NZ_CP003494.1_1881432_1882206_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]	NA|256aa|down_9|NZ_CP003494.1_1882209_1882977_-	PRK05867, PRK05867, SDR family oxidoreductase
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	14	2596772-2597520	4	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Orphan	GGNGGNGNCGGCGGCGNCGG	20	0	0	NA	NA	NA	14	14	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA,NA	NA|424aa|up_9|NZ_CP003494.1_2579578_2580850_-	PRK00037, hisS, histidyl-tRNA synthetase; Reviewed	NA|225aa|up_8|NZ_CP003494.1_2580846_2581521_-	cd06262, metallo-hydrolase-like_MBL-fold, mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain	NA|309aa|up_7|NZ_CP003494.1_2581571_2582498_+	COG0652, PpiB, Peptidyl-prolyl cis-trans isomerase (rotamase) - cyclophilin family [Posttranslational modification, protein turnover, chaperones]	NA|791aa|up_6|NZ_CP003494.1_2582583_2584956_-	TIGR00691, PppGpp_synthetase	NA|224aa|up_5|NZ_CP003494.1_2584986_2585658_-	PRK02304, PRK02304, adenine phosphoribosyltransferase; Provisional	NA|558aa|up_4|NZ_CP003494.1_2585761_2587435_-	cd08501, PBP2_Lpqw, The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold	NA|574aa|up_3|NZ_CP003494.1_2588776_2590498_-	COG0342, SecD, Preprotein translocase subunit SecD [Intracellular trafficking and secretion]	NA|116aa|up_2|NZ_CP003494.1_2590607_2590955_-	PRK05886, yajC, preprotein translocase subunit YajC; Validated	NA|450aa|up_1|NZ_CP003494.1_2591121_2592471_+	PRK06058, PRK06058, 4-aminobutyrate--2-oxoglutarate transaminase	NA|1169aa|up_0|NZ_CP003494.1_2592632_2596139_+	cd17632, AFD_CAR-like, adenylation domain of carboxylic acid reductase (CAR)	NA|345aa|down_0|NZ_CP003494.1_2597966_2599001_-	PRK00080, ruvB, Holliday junction branch migration DNA helicase RuvB	NA|197aa|down_1|NZ_CP003494.1_2598997_2599588_-	PRK00116, ruvA, Holliday junction branch migration protein RuvA	NA|189aa|down_2|NZ_CP003494.1_2599584_2600151_-	PRK00039, ruvC, Holliday junction resolvase; Reviewed	NA|82aa|down_3|NZ_CP003494.1_2600259_2600505_+	TIGR01439, Uncharacterized_protein_Mb2626, looped-hinge helix DNA binding domain, AbrB family	NA|135aa|down_4|NZ_CP003494.1_2600501_2600906_+	cd18681, PIN_MtVapC27-VapC40_like, VapC-like PIN domain of Mycobacterium tuberculosis VapC27, and VapC40, and related proteins	NA|207aa|down_5|NZ_CP003494.1_2601122_2601743_+	pfam13785, DUF4178, Domain of unknown function (DUF4178)	NA|165aa|down_6|NZ_CP003494.1_2601753_2602248_+	pfam10936, DUF2617, Protein of unknown function DUF2617	NA|144aa|down_7|NZ_CP003494.1_2602244_2602676_+	pfam14042, DUF4247, Domain of unknown function (DUF4247)	NA|524aa|down_8|NZ_CP003494.1_2603145_2604717_+	COG4262, COG4262, Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]	NA|96aa|down_9|NZ_CP003494.1_2604827_2605115_+	COG4691, StbC, Plasmid stability protein [General function prediction only]
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	15	2782980-2783308	2,11,5	PILER-CR,CRISPRCasFinder,CRT	no	c2c9_V-U4,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Type III-D,Type III-C,Type III-B,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	3,4,4	4	TypeIII-D,TypeIII-C,TypeIII-B,TypeIII-A	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA|85aa|up_8|NZ_CP003494.1_2776259_2776514_-,NA|135aa|up_7|NZ_CP003494.1_2776661_2777066_+,NA|64aa|up_6|NZ_CP003494.1_2777062_2777254_+,NA|86aa|up_4|NZ_CP003494.1_2778840_2779098_+,NA|104aa|up_3|NZ_CP003494.1_2779202_2779514_+,NA|203aa|up_2|NZ_CP003494.1_2779933_2780542_+,NA	NA|92aa|up_9|NZ_CP003494.1_2775808_2776084_+	COG4453, COG4453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|85aa|up_8|NZ_CP003494.1_2776259_2776514_-	NA	NA|135aa|up_7|NZ_CP003494.1_2776661_2777066_+	NA	NA|64aa|up_6|NZ_CP003494.1_2777062_2777254_+	NA	NA|385aa|up_5|NZ_CP003494.1_2777452_2778607_+	pfam00665, rve, Integrase core domain	NA|86aa|up_4|NZ_CP003494.1_2778840_2779098_+	NA	NA|104aa|up_3|NZ_CP003494.1_2779202_2779514_+	NA	NA|203aa|up_2|NZ_CP003494.1_2779933_2780542_+	NA	NA|470aa|up_1|NZ_CP003494.1_2780612_2782022_+	pfam00665, rve, Integrase core domain	NA|271aa|up_0|NZ_CP003494.1_2782018_2782831_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|down_0|NZ_CP003494.1_2784635_2785897_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_1|NZ_CP003494.1_2788222_2788564_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_2|NZ_CP003494.1_2788564_2789581_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm5gr7|376aa|down_3|NZ_CP003494.1_2790837_2791965_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_4|NZ_CP003494.1_2791961_2792870_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_5|NZ_CP003494.1_2792850_2793561_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_6|NZ_CP003494.1_2793570_2793945_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_7|NZ_CP003494.1_2793941_2796380_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_8|NZ_CP003494.1_2796376_2797099_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	NA|182aa|down_9|NZ_CP003494.1_2797498_2798044_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	16	2783471-2784609	12,6,3	CRISPRCasFinder,CRT,PILER-CR	no	c2c9_V-U4,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Type III-D,Type III-C,Type III-B,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	14,15,12	15	TypeIII-D,TypeIII-C,TypeIII-B,TypeIII-A	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA|85aa|up_8|NZ_CP003494.1_2776259_2776514_-,NA|135aa|up_7|NZ_CP003494.1_2776661_2777066_+,NA|64aa|up_6|NZ_CP003494.1_2777062_2777254_+,NA|86aa|up_4|NZ_CP003494.1_2778840_2779098_+,NA|104aa|up_3|NZ_CP003494.1_2779202_2779514_+,NA|203aa|up_2|NZ_CP003494.1_2779933_2780542_+,NA	NA|92aa|up_9|NZ_CP003494.1_2775808_2776084_+	COG4453, COG4453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|85aa|up_8|NZ_CP003494.1_2776259_2776514_-	NA	NA|135aa|up_7|NZ_CP003494.1_2776661_2777066_+	NA	NA|64aa|up_6|NZ_CP003494.1_2777062_2777254_+	NA	NA|385aa|up_5|NZ_CP003494.1_2777452_2778607_+	pfam00665, rve, Integrase core domain	NA|86aa|up_4|NZ_CP003494.1_2778840_2779098_+	NA	NA|104aa|up_3|NZ_CP003494.1_2779202_2779514_+	NA	NA|203aa|up_2|NZ_CP003494.1_2779933_2780542_+	NA	NA|470aa|up_1|NZ_CP003494.1_2780612_2782022_+	pfam00665, rve, Integrase core domain	NA|271aa|up_0|NZ_CP003494.1_2782018_2782831_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|down_0|NZ_CP003494.1_2784635_2785897_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_1|NZ_CP003494.1_2788222_2788564_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_2|NZ_CP003494.1_2788564_2789581_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm5gr7|376aa|down_3|NZ_CP003494.1_2790837_2791965_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_4|NZ_CP003494.1_2791961_2792870_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_5|NZ_CP003494.1_2792850_2793561_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_6|NZ_CP003494.1_2793570_2793945_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_7|NZ_CP003494.1_2793941_2796380_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_8|NZ_CP003494.1_2796376_2797099_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	NA|182aa|down_9|NZ_CP003494.1_2797498_2798044_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	17	2785932-2788174	13,7,4	CRISPRCasFinder,CRT,PILER-CR	no	cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Type III-D,Type III-C,Type III-B,Type III-A	GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGA	36,36,35	0	0	NA	NA	II-B,III-A:II-B,III-A:II-B,III-A	30,30,29	30	TypeIII-D,TypeIII-C,TypeIII-B,TypeIII-A	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA|85aa|up_9|NZ_CP003494.1_2776259_2776514_-,NA|135aa|up_8|NZ_CP003494.1_2776661_2777066_+,NA|64aa|up_7|NZ_CP003494.1_2777062_2777254_+,NA|86aa|up_5|NZ_CP003494.1_2778840_2779098_+,NA|104aa|up_4|NZ_CP003494.1_2779202_2779514_+,NA|203aa|up_3|NZ_CP003494.1_2779933_2780542_+,NA	NA|85aa|up_9|NZ_CP003494.1_2776259_2776514_-	NA	NA|135aa|up_8|NZ_CP003494.1_2776661_2777066_+	NA	NA|64aa|up_7|NZ_CP003494.1_2777062_2777254_+	NA	NA|385aa|up_6|NZ_CP003494.1_2777452_2778607_+	pfam00665, rve, Integrase core domain	NA|86aa|up_5|NZ_CP003494.1_2778840_2779098_+	NA	NA|104aa|up_4|NZ_CP003494.1_2779202_2779514_+	NA	NA|203aa|up_3|NZ_CP003494.1_2779933_2780542_+	NA	NA|470aa|up_2|NZ_CP003494.1_2780612_2782022_+	pfam00665, rve, Integrase core domain	NA|271aa|up_1|NZ_CP003494.1_2782018_2782831_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|up_0|NZ_CP003494.1_2784635_2785897_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_0|NZ_CP003494.1_2788222_2788564_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_1|NZ_CP003494.1_2788564_2789581_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm5gr7|376aa|down_2|NZ_CP003494.1_2790837_2791965_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_3|NZ_CP003494.1_2791961_2792870_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_4|NZ_CP003494.1_2792850_2793561_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_5|NZ_CP003494.1_2793570_2793945_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_6|NZ_CP003494.1_2793941_2796380_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_7|NZ_CP003494.1_2796376_2797099_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	NA|182aa|down_8|NZ_CP003494.1_2797498_2798044_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]	NA|295aa|down_9|NZ_CP003494.1_2798315_2799200_-	COG2253, COG2253, Uncharacterized conserved protein [Function unknown]
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	18	3602750-3603494	8	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Orphan	GCNNCGGCGGNNCCGGCGGNNNCGGCGG	28	3	11	3602778-3602839|3602778-3602839|3602778-3602839|3602868-3602914|3602868-3602914|3602868-3602914|3602943-3602968|3602943-3602968|3602943-3602968|3602943-3602968|3602943-3602968	NZ_CP003494.1_3601782-3601843|NZ_CP003494.1_3602133-3602194|NZ_CP003494.1_3602418-3602479|NZ_CP003494.1_3601521-3601567|NZ_CP003494.1_3601872-3601918|NZ_CP003494.1_3602508-3602554|NZ_CP003494.1_3586964-3586989|NZ_CP003494.1_3601596-3601621|NZ_CP003494.1_3601947-3601972|NZ_CP003494.1_3602232-3602257|NZ_CP003494.1_3602592-3602617	NA	10	10	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA|1023aa|up_1|NZ_CP003494.1_3596511_3599580_+,NA|280aa|down_1|NZ_CP003494.1_3606810_3607650_+	NA|318aa|up_9|NZ_CP003494.1_3575054_3576008_-	PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional	NA|64aa|up_8|NZ_CP003494.1_3576032_3576224_-	COG1141, Fer, Ferredoxin [Energy production and conversion]	NA|401aa|up_7|NZ_CP003494.1_3576438_3577641_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|374aa|up_6|NZ_CP003494.1_3577665_3578787_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|503aa|up_5|NZ_CP003494.1_3578857_3580366_+	PRK07867, PRK07867, acyl-CoA synthetase; Validated	NA|1374aa|up_4|NZ_CP003494.1_3580536_3584658_+	pfam00934, PE, PE family	NA|516aa|up_3|NZ_CP003494.1_3591408_3592956_-	PRK07586, PRK07586, acetolactate synthase large subunit	NA|279aa|up_2|NZ_CP003494.1_3592952_3593789_-	COG2159, COG2159, Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]	NA|1023aa|up_1|NZ_CP003494.1_3596511_3599580_+	NA	NA|175aa|up_0|NZ_CP003494.1_3599708_3600233_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|264aa|down_0|NZ_CP003494.1_3605923_3606715_+	PRK07799, PRK07799, crotonase/enoyl-CoA hydratase family protein	NA|280aa|down_1|NZ_CP003494.1_3606810_3607650_+	NA	NA|237aa|down_2|NZ_CP003494.1_3608928_3609639_+	pfam06314, ADC, Acetoacetate decarboxylase (ADC)	NA|348aa|down_3|NZ_CP003494.1_3609703_3610747_-	TIGR03559, F420_Rv3520c, probable F420-dependent oxidoreductase, Rv3520c family	NA|304aa|down_4|NZ_CP003494.1_3610899_3611811_+	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]	NA|355aa|down_5|NZ_CP003494.1_3611826_3612891_+	PRK07937, PRK07937, lipid-transfer protein; Provisional	NA|395aa|down_6|NZ_CP003494.1_3612907_3614092_+	PRK08313, PRK08313, thiolase domain-containing protein	NA|344aa|down_7|NZ_CP003494.1_3614133_3615165_+	cd14952, NHL_PKND_like, NHL repeat domain of the protein kinase PknD	NA|175aa|down_8|NZ_CP003494.1_3615178_3615703_-	COG0663, PaaY, Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]	NA|387aa|down_9|NZ_CP003494.1_3615817_3616978_+	cd03531, Rieske_RO_Alpha_KSH, The alignment model represents the N-terminal rieske iron-sulfur domain of KshA, the oxygenase component of 3-ketosteroid 9-alpha-hydroxylase (KSH)
GCF_000194075.2_ASM19407v3	NZ_CP003494	Mycobacterium tuberculosis variant bovis BCG str. ATCC 35743 strain Tice chromosome, complete genome	19	3758234-3758322	14	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	Orphan	GCTCGGCGACGATGCGGGCCGGATGACGGCC	31	0	0	NA	NA	NA	1	1	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6,RT	NA|257aa|up_6|NZ_CP003494.1_3748820_3749591_-,NA|233aa|up_0|NZ_CP003494.1_3757338_3758037_-,NA|126aa|down_6|NZ_CP003494.1_3763557_3763935_+	NA|388aa|up_9|NZ_CP003494.1_3744490_3745654_-	TIGR03819, heli_sec_ATPase, helicase/secretion neighborhood ATPase	NA|351aa|up_8|NZ_CP003494.1_3745650_3746703_-	TIGR03815, CpaE_hom_Actino, helicase/secretion neighborhood CpaE-like protein	NA|288aa|up_7|NZ_CP003494.1_3747202_3748066_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|257aa|up_6|NZ_CP003494.1_3748820_3749591_-	NA	NA|549aa|up_5|NZ_CP003494.1_3749587_3751234_-	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]	NA|288aa|up_4|NZ_CP003494.1_3751230_3752094_-	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_CP003494.1_3752086_3753013_-	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_CP003494.1_3753014_3754640_-	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_CP003494.1_3755347_3757303_+	PRK00174, PRK00174, acetyl-CoA synthetase; Provisional	NA|233aa|up_0|NZ_CP003494.1_3757338_3758037_-	NA	NA|173aa|down_0|NZ_CP003494.1_3758382_3758901_+	pfam07332, Phage_holin_3_6, Putative Actinobacterial Holin-X, holin superfamily III	NA|328aa|down_1|NZ_CP003494.1_3758901_3759885_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|398aa|down_2|NZ_CP003494.1_3759877_3761071_-	pfam13365, Trypsin_2, Trypsin-like peptidase domain	NA|274aa|down_3|NZ_CP003494.1_3761076_3761898_-	cd03426, CoAse, Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes	NA|228aa|down_4|NZ_CP003494.1_3762029_3762713_-	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|246aa|down_5|NZ_CP003494.1_3762712_3763450_-	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]	NA|126aa|down_6|NZ_CP003494.1_3763557_3763935_+	NA	NA|225aa|down_7|NZ_CP003494.1_3764033_3764708_+	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|265aa|down_8|NZ_CP003494.1_3764813_3765608_-	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_CP003494.1_3765614_3766070_-	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
