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_001483905.1_ASM148390v1	NZ_CP013741	Mycobacterium tuberculosis variant bovis strain BCG-1 (Russia) chromosome, complete genome	1	332005-332802	1	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGGNGCCGCCGGNN	18	0	0	NA	NA	NA	15	15	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA	NA|398aa|up_9|NZ_CP013741.1_321698_322892_-	COG3285, COG3285, Predicted eukaryotic-type DNA primase [DNA replication, recombination, and repair]	NA|561aa|up_8|NZ_CP013741.1_322927_324610_+	PRK07788, PRK07788, acyl-CoA synthetase; Validated	NA|732aa|up_7|NZ_CP013741.1_324626_326822_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_6|NZ_CP013741.1_326935_328069_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_5|NZ_CP013741.1_328065_328686_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_4|NZ_CP013741.1_328782_329364_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_3|NZ_CP013741.1_329293_330019_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_2|NZ_CP013741.1_330108_331029_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_1|NZ_CP013741.1_331068_331497_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|86aa|up_0|NZ_CP013741.1_331520_331778_-	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|900aa|down_0|NZ_CP013741.1_334876_337576_-	pfam00934, PE, PE family	NA|835aa|down_1|NZ_CP013741.1_337825_340330_-	pfam00934, PE, PE family	NA|537aa|down_2|NZ_CP013741.1_340620_342231_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_3|NZ_CP013741.1_342254_343163_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|632aa|down_4|NZ_CP013741.1_343386_345282_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_5|NZ_CP013741.1_345278_346895_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_6|NZ_CP013741.1_346891_350884_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_7|NZ_CP013741.1_350880_351189_+	pfam00934, PE, PE family	NA|514aa|down_8|NZ_CP013741.1_351191_352733_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_9|NZ_CP013741.1_352781_353075_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target
GCF_001483905.1_ASM148390v1	NZ_CP013741	Mycobacterium tuberculosis variant bovis strain BCG-1 (Russia) chromosome, complete genome	2	339361-339583	1	PILER-CR	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	ATCCGCCGCTACCGCCGGTGCCGCCGGCGCCGAACAGCCCGCC	43	0	0	NA	NA	NA	2	2	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA	NA|732aa|up_9|NZ_CP013741.1_324626_326822_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_8|NZ_CP013741.1_326935_328069_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_7|NZ_CP013741.1_328065_328686_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_6|NZ_CP013741.1_328782_329364_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_5|NZ_CP013741.1_329293_330019_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_4|NZ_CP013741.1_330108_331029_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_3|NZ_CP013741.1_331068_331497_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|86aa|up_2|NZ_CP013741.1_331520_331778_-	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|917aa|up_1|NZ_CP013741.1_331862_334613_-	pfam00934, PE, PE family	NA|900aa|up_0|NZ_CP013741.1_334876_337576_-	pfam00934, PE, PE family	NA|537aa|down_0|NZ_CP013741.1_340620_342231_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_1|NZ_CP013741.1_342254_343163_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|632aa|down_2|NZ_CP013741.1_343386_345282_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_3|NZ_CP013741.1_345278_346895_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_4|NZ_CP013741.1_346891_350884_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_5|NZ_CP013741.1_350880_351189_+	pfam00934, PE, PE family	NA|514aa|down_6|NZ_CP013741.1_351191_352733_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_7|NZ_CP013741.1_352781_353075_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|down_8|NZ_CP013741.1_353104_353395_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]	NA|296aa|down_9|NZ_CP013741.1_353405_354293_+	pfam14011, ESX-1_EspG, EspG family
GCF_001483905.1_ASM148390v1	NZ_CP013741	Mycobacterium tuberculosis variant bovis strain BCG-1 (Russia) chromosome, complete genome	3	693190-693266	1	CRISPRCasFinder	no	c2c9_V-U4	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type V-U4	TGAGGTGCGGCGTGAGCGCGGGT	23	0	0	NA	NA	NA	1	1	TypeV-U4	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA	NA|136aa|up_9|NZ_CP013741.1_679083_679491_+	cd18696, PIN_MtVapC26-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC26 and related proteins	NA|229aa|up_8|NZ_CP013741.1_679550_680237_-	pfam10738, Lpp-LpqN, Probable lipoprotein LpqN	NA|878aa|up_7|NZ_CP013741.1_680390_683024_+	COG3537, COG3537, Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]	NA|796aa|up_6|NZ_CP013741.1_683046_685434_-	pfam03706, LPG_synthase_TM, Lysylphosphatidylglycerol synthase TM region	NA|241aa|up_5|NZ_CP013741.1_685571_686294_+	COG2186, FadR, Transcriptional regulators [Transcription]	NA|266aa|up_4|NZ_CP013741.1_686290_687088_+	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_CP013741.1_687089_687977_+	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_CP013741.1_687982_689197_+	pfam11887, Mce4_CUP1, Cholesterol uptake porter CUP1 of Mce4, putative	NA|344aa|up_1|NZ_CP013741.1_689193_690225_+	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_CP013741.1_690221_691667_+	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|517aa|down_0|NZ_CP013741.1_694401_695952_+	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_CP013741.1_696003_696396_-	cd18768, PIN_MtVapC4-C5-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins	NA|86aa|down_2|NZ_CP013741.1_696392_696650_-	COG4118, Phd, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|412aa|down_3|NZ_CP013741.1_696832_698068_-	COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General function prediction only]	NA|138aa|down_4|NZ_CP013741.1_698318_698732_-	cd18681, PIN_MtVapC27-VapC40_like, VapC-like PIN domain of Mycobacterium tuberculosis VapC27, and VapC40, and related proteins	NA|79aa|down_5|NZ_CP013741.1_698728_698965_-	COG2002, AbrB, Regulators of stationary/sporulation gene expression [Transcription]	NA|169aa|down_6|NZ_CP013741.1_699068_699575_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|157aa|down_7|NZ_CP013741.1_699688_700159_-	PRK10755, PRK10755, two-component system sensor histidine kinase PmrB	NA|254aa|down_8|NZ_CP013741.1_700202_700964_-	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_CP013741.1_701020_701332_+	pfam03413, PepSY, Peptidase propeptide and YPEB domain
GCF_001483905.1_ASM148390v1	NZ_CP013741	Mycobacterium tuberculosis variant bovis strain BCG-1 (Russia) chromosome, complete genome	4	928681-929592	2	CRT	no	csa3	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type I-A	CGGGGCCGGCGGGGCCGGCGG	21	1	23	929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574|929548-929574	NZ_CP013741.1_835248-835274|NZ_CP013741.1_331977-331951|NZ_CP013741.1_334991-334965|NZ_CP013741.1_337937-337911|NZ_CP013741.1_841500-841526|NZ_CP013741.1_842779-842805|NZ_CP013741.1_928414-928440|NZ_CP013741.1_2396769-2396743|NZ_CP013741.1_333213-333187|NZ_CP013741.1_335942-335916|NZ_CP013741.1_336281-336255|NZ_CP013741.1_339056-339030|NZ_CP013741.1_676290-676264|NZ_CP013741.1_838620-838646|NZ_CP013741.1_839718-839744|NZ_CP013741.1_928315-928341|NZ_CP013741.1_1216813-1216839|NZ_CP013741.1_1653982-1653956|NZ_CP013741.1_1843194-1843168|NZ_CP013741.1_2044674-2044648|NZ_CP013741.1_3788283-3788309|NZ_CP013741.1_3918615-3918641|NZ_CP013741.1_3918771-3918797	NA	19	19	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA|184aa|down_2|NZ_CP013741.1_933710_934262_-,NA|81aa|down_8|NZ_CP013741.1_939737_939980_+	NA|685aa|up_9|NZ_CP013741.1_916316_918371_-	TIGR00350, Transcriptional_regulator_LytR, cell envelope-related function transcriptional attenuator common domain	NA|390aa|up_8|NZ_CP013741.1_918536_919706_-	TIGR00737, Probable_tRNA-dihydrouridine_synthase, putative TIM-barrel protein, nifR3 family	NA|339aa|up_7|NZ_CP013741.1_919793_920810_-	cd01050, Acyl_ACP_Desat, Acyl ACP desaturase, ferritin-like diiron-binding domain	NA|214aa|up_6|NZ_CP013741.1_920971_921613_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|352aa|up_5|NZ_CP013741.1_921693_922749_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	csa3|131aa|up_4|NZ_CP013741.1_922800_923193_-	smart00418, HTH_ARSR, helix_turn_helix, Arsenical Resistance Operon Repressor	NA|141aa|up_3|NZ_CP013741.1_923250_923673_-	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|97aa|up_2|NZ_CP013741.1_923634_923925_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|302aa|up_1|NZ_CP013741.1_924029_924935_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|272aa|up_0|NZ_CP013741.1_924953_925769_-	TIGR04255, hypothetical_protein, TIGR04255 family protein	NA|883aa|down_0|NZ_CP013741.1_929969_932618_-	pfam00934, PE, PE family	NA|215aa|down_1|NZ_CP013741.1_933085_933730_+	pfam14032, PknH_C, PknH-like extracellular domain	NA|184aa|down_2|NZ_CP013741.1_933710_934262_-	NA	NA|241aa|down_3|NZ_CP013741.1_934342_935065_-	COG4849, COG4849, Predicted nucleotidyltransferase [General function prediction    only]	NA|343aa|down_4|NZ_CP013741.1_935135_936164_-	COG4861, COG4861, Uncharacterized protein conserved in bacteria [Function unknown]	NA|261aa|down_5|NZ_CP013741.1_936852_937635_+	pfam01427, Peptidase_M15, D-ala-D-ala dipeptidase	NA|271aa|down_6|NZ_CP013741.1_937721_938534_+	pfam13847, Methyltransf_31, Methyltransferase domain	NA|287aa|down_7|NZ_CP013741.1_938601_939462_-	TIGR01250, Proline_iminopeptidase, proline-specific peptidase, Bacillus coagulans-type subfamily	NA|81aa|down_8|NZ_CP013741.1_939737_939980_+	NA	NA|431aa|down_9|NZ_CP013741.1_940256_941549_+	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily
GCF_001483905.1_ASM148390v1	NZ_CP013741	Mycobacterium tuberculosis variant bovis strain BCG-1 (Russia) chromosome, complete genome	5	930529-930658	2	PILER-CR	no	csa3	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type I-A	CCGCCGGCTCCGCCGGTGGCGCCGC	25	0	0	NA	NA	NA	2	2	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA|184aa|down_1|NZ_CP013741.1_933710_934262_-,NA|81aa|down_7|NZ_CP013741.1_939737_939980_+	NA|390aa|up_9|NZ_CP013741.1_918536_919706_-	TIGR00737, Probable_tRNA-dihydrouridine_synthase, putative TIM-barrel protein, nifR3 family	NA|339aa|up_8|NZ_CP013741.1_919793_920810_-	cd01050, Acyl_ACP_Desat, Acyl ACP desaturase, ferritin-like diiron-binding domain	NA|214aa|up_7|NZ_CP013741.1_920971_921613_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|352aa|up_6|NZ_CP013741.1_921693_922749_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	csa3|131aa|up_5|NZ_CP013741.1_922800_923193_-	smart00418, HTH_ARSR, helix_turn_helix, Arsenical Resistance Operon Repressor	NA|141aa|up_4|NZ_CP013741.1_923250_923673_-	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|97aa|up_3|NZ_CP013741.1_923634_923925_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|302aa|up_2|NZ_CP013741.1_924029_924935_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|272aa|up_1|NZ_CP013741.1_924953_925769_-	TIGR04255, hypothetical_protein, TIGR04255 family protein	NA|911aa|up_0|NZ_CP013741.1_927010_929743_+	pfam00934, PE, PE family	NA|215aa|down_0|NZ_CP013741.1_933085_933730_+	pfam14032, PknH_C, PknH-like extracellular domain	NA|184aa|down_1|NZ_CP013741.1_933710_934262_-	NA	NA|241aa|down_2|NZ_CP013741.1_934342_935065_-	COG4849, COG4849, Predicted nucleotidyltransferase [General function prediction    only]	NA|343aa|down_3|NZ_CP013741.1_935135_936164_-	COG4861, COG4861, Uncharacterized protein conserved in bacteria [Function unknown]	NA|261aa|down_4|NZ_CP013741.1_936852_937635_+	pfam01427, Peptidase_M15, D-ala-D-ala dipeptidase	NA|271aa|down_5|NZ_CP013741.1_937721_938534_+	pfam13847, Methyltransf_31, Methyltransferase domain	NA|287aa|down_6|NZ_CP013741.1_938601_939462_-	TIGR01250, Proline_iminopeptidase, proline-specific peptidase, Bacillus coagulans-type subfamily	NA|81aa|down_7|NZ_CP013741.1_939737_939980_+	NA	NA|431aa|down_8|NZ_CP013741.1_940256_941549_+	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_CP013741.1_941532_942537_+	COG1071, AcoA, Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]
GCF_001483905.1_ASM148390v1	NZ_CP013741	Mycobacterium tuberculosis variant bovis strain BCG-1 (Russia) chromosome, complete genome	6	1214888-1215744	2	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GGCGGTGTCGGCGGTGCCGGCGG	23	4	80	1215271-1215292|1215271-1215292|1215316-1215331|1215454-1215475|1215454-1215475|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589|1215571-1215589	NZ_CP013741.1_2918075-2918054|NZ_CP013741.1_2918141-2918120|NZ_CP013741.1_2071864-2071849|NZ_CP013741.1_839082-839103|NZ_CP013741.1_1220708-1220729|NZ_CP013741.1_335378-335360|NZ_CP013741.1_675954-675936|NZ_CP013741.1_841331-841349|NZ_CP013741.1_1220681-1220699|NZ_CP013741.1_1220753-1220771|NZ_CP013741.1_1628703-1628685|NZ_CP013741.1_1631529-1631511|NZ_CP013741.1_1634387-1634369|NZ_CP013741.1_1635149-1635131|NZ_CP013741.1_1974501-1974483|NZ_CP013741.1_2044848-2044830|NZ_CP013741.1_2045394-2045376|NZ_CP013741.1_2758983-2758965|NZ_CP013741.1_2762503-2762485|NZ_CP013741.1_3910877-3910895|NZ_CP013741.1_150230-150248|NZ_CP013741.1_333369-333351|NZ_CP013741.1_336485-336467|NZ_CP013741.1_336938-336920|NZ_CP013741.1_336989-336971|NZ_CP013741.1_336998-336980|NZ_CP013741.1_339269-339251|NZ_CP013741.1_339656-339638|NZ_CP013741.1_339685-339703|NZ_CP013741.1_339779-339761|NZ_CP013741.1_364355-364337|NZ_CP013741.1_444569-444551|NZ_CP013741.1_547913-547895|NZ_CP013741.1_625145-625163|NZ_CP013741.1_625367-625385|NZ_CP013741.1_675120-675102|NZ_CP013741.1_842281-842299|NZ_CP013741.1_1093097-1093115|NZ_CP013741.1_1093745-1093763|NZ_CP013741.1_1097815-1097797|NZ_CP013741.1_1215943-1215961|NZ_CP013741.1_1216450-1216468|NZ_CP013741.1_1216702-1216720|NZ_CP013741.1_1216720-1216738|NZ_CP013741.1_1221101-1221119|NZ_CP013741.1_1488910-1488892|NZ_CP013741.1_1616655-1616637|NZ_CP013741.1_1617108-1617090|NZ_CP013741.1_1634252-1634234|NZ_CP013741.1_1634261-1634243|NZ_CP013741.1_1634474-1634456|NZ_CP013741.1_1634525-1634507|NZ_CP013741.1_1842771-1842753|NZ_CP013741.1_1843299-1843281|NZ_CP013741.1_1973775-1973757|NZ_CP013741.1_1984736-1984754|NZ_CP013741.1_2072062-2072044|NZ_CP013741.1_2280240-2280222|NZ_CP013741.1_2331490-2331472|NZ_CP013741.1_2392699-2392717|NZ_CP013741.1_2396682-2396664|NZ_CP013741.1_2539364-2539346|NZ_CP013741.1_2651641-2651659|NZ_CP013741.1_2752299-2752281|NZ_CP013741.1_2752881-2752863|NZ_CP013741.1_3001351-3001369|NZ_CP013741.1_3001450-3001468|NZ_CP013741.1_3692385-3692403|NZ_CP013741.1_3723535-3723517|NZ_CP013741.1_3724159-3724141|NZ_CP013741.1_3724402-3724384|NZ_CP013741.1_3724534-3724516|NZ_CP013741.1_3726439-3726421|NZ_CP013741.1_3786864-3786882|NZ_CP013741.1_3787047-3787065|NZ_CP013741.1_3908310-3908328|NZ_CP013741.1_3910049-3910067|NZ_CP013741.1_3910703-3910721|NZ_CP013741.1_3918993-3919011|NZ_CP013741.1_4008465-4008447	NA	16	16	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|89aa|up_3|NZ_CP013741.1_1210320_1210587_+,NA|61aa|down_3|NZ_CP013741.1_1218288_1218471_+	NA|465aa|up_9|NZ_CP013741.1_1204654_1206049_+	TIGR01137, Cystathionine_beta-synthase, cystathionine beta-synthase	NA|241aa|up_8|NZ_CP013741.1_1206250_1206973_+	pfam06271, RDD, RDD family	NA|389aa|up_7|NZ_CP013741.1_1207004_1208171_+	PRK07811, PRK07811, cystathionine gamma-synthase; Provisional	NA|165aa|up_6|NZ_CP013741.1_1208241_1208736_-	PRK00226, greA, transcription elongation factor GreA; Reviewed	NA|145aa|up_5|NZ_CP013741.1_1208921_1209356_-	pfam14155, DUF4307, Domain of unknown function (DUF4307)	NA|289aa|up_4|NZ_CP013741.1_1209457_1210324_+	TIGR03446, mycothiol_Mca, mycothiol conjugate amidase Mca	NA|89aa|up_3|NZ_CP013741.1_1210320_1210587_+	NA	NA|674aa|up_2|NZ_CP013741.1_1210573_1212595_+	COG1331, COG1331, Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]	NA|243aa|up_1|NZ_CP013741.1_1212693_1213422_-	TIGR01065, Hypothetical_UPF0073_protein_yqfA	NA|263aa|up_0|NZ_CP013741.1_1213532_1214321_+	PRK14828, PRK14828, undecaprenyl pyrophosphate synthase; Provisional	NA|107aa|down_0|NZ_CP013741.1_1217103_1217424_+	COG0020, UppS, Undecaprenyl pyrophosphate synthase [Lipid metabolism]	NA|145aa|down_1|NZ_CP013741.1_1217576_1218011_+	pfam00934, PE, PE family	NA|55aa|down_2|NZ_CP013741.1_1218112_1218277_+	smart00637, CBD_II, CBD_II domain	NA|61aa|down_3|NZ_CP013741.1_1218288_1218471_+	NA	NA|152aa|down_4|NZ_CP013741.1_1218662_1219118_+	pfam01670, Glyco_hydro_12, Glycosyl hydrolase family 12	NA|851aa|down_5|NZ_CP013741.1_1219532_1222085_+	pfam00934, PE, PE family	NA|313aa|down_6|NZ_CP013741.1_1222302_1223241_-	PRK05439, PRK05439, pantothenate kinase; Provisional	NA|427aa|down_7|NZ_CP013741.1_1223628_1224909_+	PRK00011, glyA, serine hydroxymethyltransferase; Reviewed	NA|276aa|down_8|NZ_CP013741.1_1225013_1225841_+	cd01050, Acyl_ACP_Desat, Acyl ACP desaturase, ferritin-like diiron-binding domain	NA|434aa|down_9|NZ_CP013741.1_1226051_1227353_+	COG1875, COG1875, NYN ribonuclease and ATPase of PhoH family domains [General    function prediction only]
GCF_001483905.1_ASM148390v1	NZ_CP013741	Mycobacterium tuberculosis variant bovis strain BCG-1 (Russia) chromosome, complete genome	7	2071534-2071788	3	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCCNCCGTCGCCGCCNNTGCC	21	2	3	2071615-2071632|2071615-2071632|2071705-2071722	NZ_CP013741.1_402335-402318|NZ_CP013741.1_608507-608490|NZ_CP013741.1_3397756-3397739	NA	5	5	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|88aa|up_0|NZ_CP013741.1_2070893_2071157_-,NA	NA|165aa|up_9|NZ_CP013741.1_2057243_2057738_+	pfam02577, DNase-RNase, Bifunctional nuclease	NA|226aa|up_8|NZ_CP013741.1_2058085_2058763_+	cd01105, HTH_GlnR-like, Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators	NA|942aa|up_7|NZ_CP013741.1_2059121_2061947_+	PRK05367, PRK05367, aminomethyl-transferring glycine dehydrogenase	NA|287aa|up_6|NZ_CP013741.1_2062173_2063034_-	PRK03204, PRK03204, haloalkane dehalogenase; Provisional	NA|289aa|up_5|NZ_CP013741.1_2063074_2063941_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|629aa|up_4|NZ_CP013741.1_2063945_2065832_-	TIGR00976, Hypothetical_protein_Rv1835c/MT1883/Mb1866c	NA|678aa|up_3|NZ_CP013741.1_2065847_2067881_-	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_CP013741.1_2068000_2070226_-	PRK02999, PRK02999, malate synthase G; Provisional	NA|132aa|up_1|NZ_CP013741.1_2070501_2070897_-	COG1848, COG1848, Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]	NA|88aa|up_0|NZ_CP013741.1_2070893_2071157_-	NA	NA|350aa|down_0|NZ_CP013741.1_2072924_2073974_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|456aa|down_1|NZ_CP013741.1_2073973_2075341_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|479aa|down_2|NZ_CP013741.1_2075514_2076951_-	PRK07807, PRK07807, GuaB1 family IMP dehydrogenase-related protein	NA|317aa|down_3|NZ_CP013741.1_2078466_2079417_-	cd07326, M56_BlaR1_MecR1_like, Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase	NA|139aa|down_4|NZ_CP013741.1_2079431_2079848_-	COG3682, COG3682, Predicted transcriptional regulator [Transcription]	NA|141aa|down_5|NZ_CP013741.1_2080125_2080548_+	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_CP013741.1_2080596_2080899_+	pfam00547, Urease_gamma, Urease, gamma subunit	NA|105aa|down_7|NZ_CP013741.1_2080895_2081210_+	PRK13202, ureB, urease subunit beta; Reviewed	NA|578aa|down_8|NZ_CP013741.1_2081209_2082943_+	PRK13206, ureC, urease subunit alpha; Reviewed	NA|212aa|down_9|NZ_CP013741.1_2082942_2083578_+	COG0830, UreF, Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]
GCF_001483905.1_ASM148390v1	NZ_CP013741	Mycobacterium tuberculosis variant bovis strain BCG-1 (Russia) chromosome, complete genome	8	2153265-2153390	3	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	TGCCAGCCGGAATCGTGATCGGCGGAACCGTCACCGACGGAATACTCA	48	0	0	NA	NA	NA	1	1	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|136aa|up_2|NZ_CP013741.1_2143240_2143648_-,NA|127aa|down_5|NZ_CP013741.1_2160999_2161380_-	NA|216aa|up_9|NZ_CP013741.1_2136554_2137202_-	pfam14081, DUF4262, Domain of unknown function (DUF4262)	NA|741aa|up_8|NZ_CP013741.1_2137208_2139431_-	PRK15061, PRK15061, catalase/peroxidase	NA|148aa|up_7|NZ_CP013741.1_2139468_2139912_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|198aa|up_6|NZ_CP013741.1_2140025_2140619_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_5|NZ_CP013741.1_2140701_2141307_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_4|NZ_CP013741.1_2141406_2142411_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_3|NZ_CP013741.1_2142510_2143263_+	cd16282, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain	NA|136aa|up_2|NZ_CP013741.1_2143240_2143648_-	NA	NA|767aa|up_1|NZ_CP013741.1_2143782_2146083_+	PLN02892, PLN02892, isocitrate lyase	NA|1836aa|up_0|NZ_CP013741.1_2146252_2151760_-	pfam00823, PPE, PPE family	NA|155aa|down_0|NZ_CP013741.1_2155510_2155975_-	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_CP013741.1_2156072_2156936_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_2|NZ_CP013741.1_2156973_2158245_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_3|NZ_CP013741.1_2158516_2159632_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_4|NZ_CP013741.1_2159622_2160963_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_5|NZ_CP013741.1_2160999_2161380_-	NA	NA|621aa|down_6|NZ_CP013741.1_2161536_2163399_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_7|NZ_CP013741.1_2163406_2163886_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_8|NZ_CP013741.1_2164122_2164896_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]	NA|256aa|down_9|NZ_CP013741.1_2164899_2165667_-	PRK05867, PRK05867, SDR family oxidoreductase
GCF_001483905.1_ASM148390v1	NZ_CP013741	Mycobacterium tuberculosis variant bovis strain BCG-1 (Russia) chromosome, complete genome	9	3065706-3066990	3,4,4	PILER-CR,CRISPRCasFinder,CRT	no	c2c9_V-U4,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type III-A,Type III-B,Type III-C,Type III-D	GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC	36,36,36	1	1	3066482-3066516	NZ_CP013741.1_3066991-3067025	II-B,III-A:II-B,III-A:II-B,III-A	17,17,17	17	TypeIII-A,TypeIII-B,TypeIII-C,TypeIII-D	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_8|NZ_CP013741.1_3058985_3059240_-,NA|135aa|up_7|NZ_CP013741.1_3059387_3059792_+,NA|64aa|up_6|NZ_CP013741.1_3059788_3059980_+,NA|86aa|up_4|NZ_CP013741.1_3061566_3061824_+,NA|104aa|up_3|NZ_CP013741.1_3061928_3062240_+,NA|203aa|up_2|NZ_CP013741.1_3062659_3063268_+,NA	NA|92aa|up_9|NZ_CP013741.1_3058534_3058810_+	COG4453, COG4453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|85aa|up_8|NZ_CP013741.1_3058985_3059240_-	NA	NA|135aa|up_7|NZ_CP013741.1_3059387_3059792_+	NA	NA|64aa|up_6|NZ_CP013741.1_3059788_3059980_+	NA	NA|385aa|up_5|NZ_CP013741.1_3060178_3061333_+	pfam00665, rve, Integrase core domain	NA|86aa|up_4|NZ_CP013741.1_3061566_3061824_+	NA	NA|104aa|up_3|NZ_CP013741.1_3061928_3062240_+	NA	NA|203aa|up_2|NZ_CP013741.1_3062659_3063268_+	NA	NA|470aa|up_1|NZ_CP013741.1_3063338_3064748_+	pfam00665, rve, Integrase core domain	NA|271aa|up_0|NZ_CP013741.1_3064744_3065557_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|down_0|NZ_CP013741.1_3067087_3068349_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_1|NZ_CP013741.1_3070602_3070944_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_2|NZ_CP013741.1_3070944_3071961_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm5gr7|376aa|down_3|NZ_CP013741.1_3073217_3074345_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_4|NZ_CP013741.1_3074341_3075250_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_5|NZ_CP013741.1_3075230_3075941_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_6|NZ_CP013741.1_3075950_3076325_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_7|NZ_CP013741.1_3076321_3078760_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_8|NZ_CP013741.1_3078756_3079479_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	NA|182aa|down_9|NZ_CP013741.1_3079878_3080424_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_001483905.1_ASM148390v1	NZ_CP013741	Mycobacterium tuberculosis variant bovis strain BCG-1 (Russia) chromosome, complete genome	10	3068384-3070554	5,5,4	CRISPRCasFinder,CRT,PILER-CR	no	cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type III-A,Type III-B,Type III-C,Type III-D	GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC	36,36,36	0	0	NA	NA	II-B,III-A:II-B,III-A:II-B,III-A	29,29,28	29	TypeIII-A,TypeIII-B,TypeIII-C,TypeIII-D	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_9|NZ_CP013741.1_3058985_3059240_-,NA|135aa|up_8|NZ_CP013741.1_3059387_3059792_+,NA|64aa|up_7|NZ_CP013741.1_3059788_3059980_+,NA|86aa|up_5|NZ_CP013741.1_3061566_3061824_+,NA|104aa|up_4|NZ_CP013741.1_3061928_3062240_+,NA|203aa|up_3|NZ_CP013741.1_3062659_3063268_+,NA	NA|85aa|up_9|NZ_CP013741.1_3058985_3059240_-	NA	NA|135aa|up_8|NZ_CP013741.1_3059387_3059792_+	NA	NA|64aa|up_7|NZ_CP013741.1_3059788_3059980_+	NA	NA|385aa|up_6|NZ_CP013741.1_3060178_3061333_+	pfam00665, rve, Integrase core domain	NA|86aa|up_5|NZ_CP013741.1_3061566_3061824_+	NA	NA|104aa|up_4|NZ_CP013741.1_3061928_3062240_+	NA	NA|203aa|up_3|NZ_CP013741.1_3062659_3063268_+	NA	NA|470aa|up_2|NZ_CP013741.1_3063338_3064748_+	pfam00665, rve, Integrase core domain	NA|271aa|up_1|NZ_CP013741.1_3064744_3065557_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|up_0|NZ_CP013741.1_3067087_3068349_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_0|NZ_CP013741.1_3070602_3070944_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_1|NZ_CP013741.1_3070944_3071961_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm5gr7|376aa|down_2|NZ_CP013741.1_3073217_3074345_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_3|NZ_CP013741.1_3074341_3075250_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_4|NZ_CP013741.1_3075230_3075941_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_5|NZ_CP013741.1_3075950_3076325_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_6|NZ_CP013741.1_3076321_3078760_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_7|NZ_CP013741.1_3078756_3079479_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	NA|182aa|down_8|NZ_CP013741.1_3079878_3080424_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]	NA|295aa|down_9|NZ_CP013741.1_3080695_3081580_-	COG2253, COG2253, Uncharacterized conserved protein [Function unknown]
GCF_001483905.1_ASM148390v1	NZ_CP013741	Mycobacterium tuberculosis variant bovis strain BCG-1 (Russia) chromosome, complete genome	11	3926107-3926851	6	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCNNCGGCGGNNCCGGCGGNNNCGGCGG	28	3	11	3926135-3926196|3926135-3926196|3926135-3926196|3926225-3926271|3926225-3926271|3926225-3926271|3926300-3926325|3926300-3926325|3926300-3926325|3926300-3926325|3926300-3926325	NZ_CP013741.1_3925139-3925200|NZ_CP013741.1_3925490-3925551|NZ_CP013741.1_3925775-3925836|NZ_CP013741.1_3924878-3924924|NZ_CP013741.1_3925229-3925275|NZ_CP013741.1_3925865-3925911|NZ_CP013741.1_3910805-3910830|NZ_CP013741.1_3924953-3924978|NZ_CP013741.1_3925304-3925329|NZ_CP013741.1_3925589-3925614|NZ_CP013741.1_3925949-3925974	NA	10	10	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA|280aa|down_2|NZ_CP013741.1_3930166_3931006_+	NA|401aa|up_9|NZ_CP013741.1_3900288_3901491_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|374aa|up_8|NZ_CP013741.1_3901515_3902637_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|503aa|up_7|NZ_CP013741.1_3902707_3904216_+	PRK07867, PRK07867, acyl-CoA synthetase; Validated	NA|1373aa|up_6|NZ_CP013741.1_3904386_3908505_+	pfam00934, PE, PE family	NA|516aa|up_5|NZ_CP013741.1_3915113_3916661_-	PRK07586, PRK07586, acetolactate synthase large subunit	NA|279aa|up_4|NZ_CP013741.1_3916657_3917494_-	COG2159, COG2159, Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]	NA|126aa|up_3|NZ_CP013741.1_3920002_3920380_+	PRK12270, kgd, multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit	NA|672aa|up_2|NZ_CP013741.1_3920413_3922429_+	PRK07764, PRK07764, DNA polymerase III subunits gamma and tau; Validated	NA|172aa|up_1|NZ_CP013741.1_3922425_3922941_+	PHA03169, PHA03169, hypothetical protein; Provisional	NA|219aa|up_0|NZ_CP013741.1_3923069_3923726_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|549aa|down_0|NZ_CP013741.1_3927559_3929206_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|264aa|down_1|NZ_CP013741.1_3929279_3930071_+	PRK07799, PRK07799, crotonase/enoyl-CoA hydratase family protein	NA|280aa|down_2|NZ_CP013741.1_3930166_3931006_+	NA	NA|237aa|down_3|NZ_CP013741.1_3932284_3932995_+	pfam06314, ADC, Acetoacetate decarboxylase (ADC)	NA|348aa|down_4|NZ_CP013741.1_3933059_3934103_-	TIGR03559, F420_Rv3520c, probable F420-dependent oxidoreductase, Rv3520c family	NA|304aa|down_5|NZ_CP013741.1_3934255_3935167_+	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]	NA|355aa|down_6|NZ_CP013741.1_3935182_3936247_+	PRK07937, PRK07937, lipid-transfer protein; Provisional	NA|395aa|down_7|NZ_CP013741.1_3936263_3937448_+	PRK08313, PRK08313, thiolase domain-containing protein	NA|344aa|down_8|NZ_CP013741.1_3937489_3938521_+	cd14952, NHL_PKND_like, NHL repeat domain of the protein kinase PknD	NA|175aa|down_9|NZ_CP013741.1_3938534_3939059_-	COG0663, PaaY, Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]
GCF_001483905.1_ASM148390v1	NZ_CP013741	Mycobacterium tuberculosis variant bovis strain BCG-1 (Russia) chromosome, complete genome	12	4064970-4065295	6	CRISPRCasFinder	no	cas3	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Unclear	CGCCGGGCTGTTCGGCGACGGCGGC	25	1	37	4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016|4064995-4065016	NZ_CP013741.1_971887-971866|NZ_CP013741.1_1842872-1842851|NZ_CP013741.1_2397139-2397118|NZ_CP013741.1_3723534-3723513|NZ_CP013741.1_3924153-3924174|NZ_CP013741.1_335191-335170|NZ_CP013741.1_335377-335356|NZ_CP013741.1_336484-336463|NZ_CP013741.1_336988-336967|NZ_CP013741.1_339082-339061|NZ_CP013741.1_673670-673649|NZ_CP013741.1_675119-675098|NZ_CP013741.1_841179-841200|NZ_CP013741.1_930467-930446|NZ_CP013741.1_971407-971386|NZ_CP013741.1_1093098-1093119|NZ_CP013741.1_1192057-1192036|NZ_CP013741.1_1194582-1194561|NZ_CP013741.1_1488258-1488237|NZ_CP013741.1_1488909-1488888|NZ_CP013741.1_1635148-1635127|NZ_CP013741.1_1973921-1973900|NZ_CP013741.1_1975151-1975130|NZ_CP013741.1_1985526-1985547|NZ_CP013741.1_2045201-2045180|NZ_CP013741.1_2761478-2761457|NZ_CP013741.1_3109762-3109783|NZ_CP013741.1_3726438-3726417|NZ_CP013741.1_3764963-3764984|NZ_CP013741.1_3912464-3912485|NZ_CP013741.1_3912788-3912809|NZ_CP013741.1_3913385-3913406|NZ_CP013741.1_3914009-3914030|NZ_CP013741.1_3919060-3919081|NZ_CP013741.1_3921154-3921175|NZ_CP013741.1_4008365-4008344|NZ_CP013741.1_4008464-4008443	NA	5	5	Unclear	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|64aa|up_9|NZ_CP013741.1_4052022_4052214_+,NA|193aa|up_5|NZ_CP013741.1_4058472_4059051_-,NA|100aa|down_1|NZ_CP013741.1_4065954_4066254_-,NA|257aa|down_8|NZ_CP013741.1_4072219_4072990_-	NA|64aa|up_9|NZ_CP013741.1_4052022_4052214_+	NA	NA|402aa|up_8|NZ_CP013741.1_4052378_4053584_-	PRK07940, PRK07940, DNA polymerase III subunit delta'; Validated	NA|550aa|up_7|NZ_CP013741.1_4053669_4055319_+	cd07302, CHD, cyclase homology domain	NA|935aa|up_6|NZ_CP013741.1_4055315_4058120_-	PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated	NA|193aa|up_5|NZ_CP013741.1_4058472_4059051_-	NA	NA|68aa|up_4|NZ_CP013741.1_4059190_4059394_-	COG1278, CspC, Cold shock proteins [Transcription]	cas3|772aa|up_3|NZ_CP013741.1_4059643_4061959_+	TIGR03817, DECH_helic, helicase/secretion neighborhood putative DEAH-box helicase	NA|95aa|up_2|NZ_CP013741.1_4062095_4062380_+	pfam00934, PE, PE family	NA|346aa|up_1|NZ_CP013741.1_4062703_4063741_+	pfam18621, DUF5628, Family of unknown function (DUF5628)	NA|105aa|up_0|NZ_CP013741.1_4064494_4064809_+	pfam00934, PE, PE family	NA|126aa|down_0|NZ_CP013741.1_4065614_4065992_-	TIGR03816, tadE_like_DECH, helicase/secretion neighborhood TadE-like protein	NA|100aa|down_1|NZ_CP013741.1_4065954_4066254_-	NA	NA|69aa|down_2|NZ_CP013741.1_4066277_4066484_-	pfam14029, DUF4244, Protein of unknown function (DUF4244)	NA|192aa|down_3|NZ_CP013741.1_4066493_4067069_-	COG2064, TadC, Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]	NA|267aa|down_4|NZ_CP013741.1_4067092_4067893_-	COG4965, TadB, Flp pilus assembly protein TadB [Intracellular trafficking and secretion]	NA|388aa|down_5|NZ_CP013741.1_4067889_4069053_-	TIGR03819, heli_sec_ATPase, helicase/secretion neighborhood ATPase	NA|351aa|down_6|NZ_CP013741.1_4069049_4070102_-	TIGR03815, CpaE_hom_Actino, helicase/secretion neighborhood CpaE-like protein	NA|288aa|down_7|NZ_CP013741.1_4070601_4071465_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|257aa|down_8|NZ_CP013741.1_4072219_4072990_-	NA	NA|549aa|down_9|NZ_CP013741.1_4072986_4074633_-	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]
GCF_001483905.1_ASM148390v1	NZ_CP013741	Mycobacterium tuberculosis variant bovis strain BCG-1 (Russia) chromosome, complete genome	13	4065372-4065450	7	CRISPRCasFinder	no	cas3	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Unclear	CGCCGGGCTGTTCGGCGACGGCGGC	25	0	0	NA	NA	NA	1	1	Unclear	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|64aa|up_9|NZ_CP013741.1_4052022_4052214_+,NA|193aa|up_5|NZ_CP013741.1_4058472_4059051_-,NA|100aa|down_1|NZ_CP013741.1_4065954_4066254_-,NA|257aa|down_8|NZ_CP013741.1_4072219_4072990_-	NA|64aa|up_9|NZ_CP013741.1_4052022_4052214_+	NA	NA|402aa|up_8|NZ_CP013741.1_4052378_4053584_-	PRK07940, PRK07940, DNA polymerase III subunit delta'; Validated	NA|550aa|up_7|NZ_CP013741.1_4053669_4055319_+	cd07302, CHD, cyclase homology domain	NA|935aa|up_6|NZ_CP013741.1_4055315_4058120_-	PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated	NA|193aa|up_5|NZ_CP013741.1_4058472_4059051_-	NA	NA|68aa|up_4|NZ_CP013741.1_4059190_4059394_-	COG1278, CspC, Cold shock proteins [Transcription]	cas3|772aa|up_3|NZ_CP013741.1_4059643_4061959_+	TIGR03817, DECH_helic, helicase/secretion neighborhood putative DEAH-box helicase	NA|95aa|up_2|NZ_CP013741.1_4062095_4062380_+	pfam00934, PE, PE family	NA|346aa|up_1|NZ_CP013741.1_4062703_4063741_+	pfam18621, DUF5628, Family of unknown function (DUF5628)	NA|105aa|up_0|NZ_CP013741.1_4064494_4064809_+	pfam00934, PE, PE family	NA|126aa|down_0|NZ_CP013741.1_4065614_4065992_-	TIGR03816, tadE_like_DECH, helicase/secretion neighborhood TadE-like protein	NA|100aa|down_1|NZ_CP013741.1_4065954_4066254_-	NA	NA|69aa|down_2|NZ_CP013741.1_4066277_4066484_-	pfam14029, DUF4244, Protein of unknown function (DUF4244)	NA|192aa|down_3|NZ_CP013741.1_4066493_4067069_-	COG2064, TadC, Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]	NA|267aa|down_4|NZ_CP013741.1_4067092_4067893_-	COG4965, TadB, Flp pilus assembly protein TadB [Intracellular trafficking and secretion]	NA|388aa|down_5|NZ_CP013741.1_4067889_4069053_-	TIGR03819, heli_sec_ATPase, helicase/secretion neighborhood ATPase	NA|351aa|down_6|NZ_CP013741.1_4069049_4070102_-	TIGR03815, CpaE_hom_Actino, helicase/secretion neighborhood CpaE-like protein	NA|288aa|down_7|NZ_CP013741.1_4070601_4071465_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|257aa|down_8|NZ_CP013741.1_4072219_4072990_-	NA	NA|549aa|down_9|NZ_CP013741.1_4072986_4074633_-	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]
GCF_001483905.1_ASM148390v1	NZ_CP013741	Mycobacterium tuberculosis variant bovis strain BCG-1 (Russia) chromosome, complete genome	14	4081633-4081721	8	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCTCGGCGACGATGCGGGCCGGATGACGGCC	31	0	0	NA	NA	NA	1	1	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|257aa|up_6|NZ_CP013741.1_4072219_4072990_-,NA|233aa|up_0|NZ_CP013741.1_4080737_4081436_-,NA|126aa|down_6|NZ_CP013741.1_4086956_4087334_+	NA|388aa|up_9|NZ_CP013741.1_4067889_4069053_-	TIGR03819, heli_sec_ATPase, helicase/secretion neighborhood ATPase	NA|351aa|up_8|NZ_CP013741.1_4069049_4070102_-	TIGR03815, CpaE_hom_Actino, helicase/secretion neighborhood CpaE-like protein	NA|288aa|up_7|NZ_CP013741.1_4070601_4071465_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|257aa|up_6|NZ_CP013741.1_4072219_4072990_-	NA	NA|549aa|up_5|NZ_CP013741.1_4072986_4074633_-	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]	NA|288aa|up_4|NZ_CP013741.1_4074629_4075493_-	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_CP013741.1_4075485_4076412_-	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_CP013741.1_4076413_4078039_-	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_CP013741.1_4078746_4080702_+	PRK00174, PRK00174, acetyl-CoA synthetase; Provisional	NA|233aa|up_0|NZ_CP013741.1_4080737_4081436_-	NA	NA|173aa|down_0|NZ_CP013741.1_4081781_4082300_+	pfam07332, Phage_holin_3_6, Putative Actinobacterial Holin-X, holin superfamily III	NA|328aa|down_1|NZ_CP013741.1_4082300_4083284_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|398aa|down_2|NZ_CP013741.1_4083276_4084470_-	pfam13365, Trypsin_2, Trypsin-like peptidase domain	NA|274aa|down_3|NZ_CP013741.1_4084475_4085297_-	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_CP013741.1_4085428_4086112_-	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|246aa|down_5|NZ_CP013741.1_4086111_4086849_-	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]	NA|126aa|down_6|NZ_CP013741.1_4086956_4087334_+	NA	NA|225aa|down_7|NZ_CP013741.1_4087432_4088107_+	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|265aa|down_8|NZ_CP013741.1_4088212_4089007_-	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_CP013741.1_4089013_4089469_-	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
