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_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	1	338084-338306	1	PILER-CR	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	ATCCGCCGCTACCGCCGGTGCCGCCGGCGCCGAACAGCCCGCC	43	0	0	NA	NA	NA	2	2	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|61aa|up_1|NZ_CP025602.1_333158_333341_-,NA	NA|561aa|up_9|NZ_CP025602.1_324565_326248_+	PRK07788, PRK07788, acyl-CoA synthetase; Validated	NA|732aa|up_8|NZ_CP025602.1_326264_328460_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_7|NZ_CP025602.1_328573_329707_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_6|NZ_CP025602.1_329703_330324_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_5|NZ_CP025602.1_330420_331002_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_4|NZ_CP025602.1_330931_331657_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_3|NZ_CP025602.1_331746_332667_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_2|NZ_CP025602.1_332706_333135_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|61aa|up_1|NZ_CP025602.1_333158_333341_-	NA	NA|615aa|up_0|NZ_CP025602.1_333435_335280_-	PRK13875, PRK13875, conjugal transfer protein TrbL; Provisional	NA|537aa|down_0|NZ_CP025602.1_339343_340954_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_1|NZ_CP025602.1_340977_341886_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|632aa|down_2|NZ_CP025602.1_342109_344005_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_3|NZ_CP025602.1_344001_345618_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_4|NZ_CP025602.1_345614_349607_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_5|NZ_CP025602.1_349603_349912_+	pfam00934, PE, PE family	NA|514aa|down_6|NZ_CP025602.1_349914_351456_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_7|NZ_CP025602.1_351504_351798_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|down_8|NZ_CP025602.1_351827_352118_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]	NA|296aa|down_9|NZ_CP025602.1_352128_353016_+	pfam14011, ESX-1_EspG, EspG family
GCF_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	2	338389-338623	2	PILER-CR	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGGCGCCGCCGGCGGCGCCGGCGGGGCCGGCGGCAACGGCGG	43	0	0	NA	NA	NA	2	2	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|61aa|up_1|NZ_CP025602.1_333158_333341_-,NA	NA|561aa|up_9|NZ_CP025602.1_324565_326248_+	PRK07788, PRK07788, acyl-CoA synthetase; Validated	NA|732aa|up_8|NZ_CP025602.1_326264_328460_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_7|NZ_CP025602.1_328573_329707_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_6|NZ_CP025602.1_329703_330324_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_5|NZ_CP025602.1_330420_331002_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_4|NZ_CP025602.1_330931_331657_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_3|NZ_CP025602.1_331746_332667_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_2|NZ_CP025602.1_332706_333135_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|61aa|up_1|NZ_CP025602.1_333158_333341_-	NA	NA|615aa|up_0|NZ_CP025602.1_333435_335280_-	PRK13875, PRK13875, conjugal transfer protein TrbL; Provisional	NA|537aa|down_0|NZ_CP025602.1_339343_340954_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_1|NZ_CP025602.1_340977_341886_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|632aa|down_2|NZ_CP025602.1_342109_344005_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_3|NZ_CP025602.1_344001_345618_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_4|NZ_CP025602.1_345614_349607_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_5|NZ_CP025602.1_349603_349912_+	pfam00934, PE, PE family	NA|514aa|down_6|NZ_CP025602.1_349914_351456_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_7|NZ_CP025602.1_351504_351798_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|down_8|NZ_CP025602.1_351827_352118_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]	NA|296aa|down_9|NZ_CP025602.1_352128_353016_+	pfam14011, ESX-1_EspG, EspG family
GCF_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	3	366443-367141	1	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	TTCGCGAAGCCGATGTTGTAGCTGCCGGTGTTG	33	2	2	366731-366772|366806-366838	NZ_CP025602.1_374762-374803|NZ_CP025602.1_373577-373609	NA	10	10	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|101aa|up_4|NZ_CP025602.1_363455_363758_+,NA|161aa|down_1|NZ_CP025602.1_376551_377034_-,NA|410aa|down_5|NZ_CP025602.1_379150_380380_+	NA|262aa|up_9|NZ_CP025602.1_358150_358936_+	PRK14103, PRK14103, trans-aconitate 2-methyltransferase; Provisional	NA|268aa|up_8|NZ_CP025602.1_358924_359728_-	COG4424, COG4424, Uncharacterized protein conserved in bacteria [Function unknown]	NA|466aa|up_7|NZ_CP025602.1_359737_361135_-	cd16027, SGSH, N-sulfoglucosamine sulfohydrolase (SGSH; sulfamidase)	NA|592aa|up_6|NZ_CP025602.1_361313_363089_+	pfam00934, PE, PE family	NA|76aa|up_5|NZ_CP025602.1_363231_363459_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|101aa|up_4|NZ_CP025602.1_363455_363758_+	NA	NA|74aa|up_3|NZ_CP025602.1_363805_364027_+	PHA01748, PHA01748, hypothetical protein	NA|142aa|up_2|NZ_CP025602.1_364023_364449_+	cd18755, PIN_MtVapC3_VapC21-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC3, VapC21 and related proteins	NA|211aa|up_1|NZ_CP025602.1_364584_365217_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|303aa|up_0|NZ_CP025602.1_365213_366122_+	cd09810, LPOR_like_SDR_c_like, light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs	NA|224aa|down_0|NZ_CP025602.1_375892_376564_+	TIGR02476, BluB, 5,6-dimethylbenzimidazole synthase	NA|161aa|down_1|NZ_CP025602.1_376551_377034_-	NA	NA|239aa|down_2|NZ_CP025602.1_377091_377808_+	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|219aa|down_3|NZ_CP025602.1_377909_378566_+	COG3786, COG3786, Uncharacterized protein conserved in bacteria [Function unknown]	NA|164aa|down_4|NZ_CP025602.1_378635_379127_-	pfam13577, SnoaL_4, SnoaL-like domain	NA|410aa|down_5|NZ_CP025602.1_379150_380380_+	NA	NA|621aa|down_6|NZ_CP025602.1_380534_382397_+	COG0443, DnaK, Molecular chaperone [Posttranslational modification, protein turnover, chaperones]	NA|129aa|down_7|NZ_CP025602.1_382468_382855_+	COG0326, HtpG, Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]	NA|221aa|down_8|NZ_CP025602.1_382857_383520_-	pfam11259, DUF3060, Protein of unknown function (DUF3060)	NA|295aa|down_9|NZ_CP025602.1_383580_384465_+	COG2273, SKN1, Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]
GCF_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	4	691982-692058	2	CRISPRCasFinder	no	c2c9_V-U4	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type V-U4	TGAGGTGCGGCGTGAGCGCGGGT	23	0	0	NA	NA	NA	1	1	TypeV-U4	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA	NA|72aa|up_9|NZ_CP025602.1_677666_677882_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|136aa|up_8|NZ_CP025602.1_677878_678286_+	cd18696, PIN_MtVapC26-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC26 and related proteins	NA|229aa|up_7|NZ_CP025602.1_678345_679032_-	pfam10738, Lpp-LpqN, Probable lipoprotein LpqN	NA|878aa|up_6|NZ_CP025602.1_679185_681819_+	COG3537, COG3537, Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]	NA|796aa|up_5|NZ_CP025602.1_681841_684229_-	pfam03706, LPG_synthase_TM, Lysylphosphatidylglycerol synthase TM region	NA|241aa|up_4|NZ_CP025602.1_684366_685089_+	COG2186, FadR, Transcriptional regulators [Transcription]	NA|266aa|up_3|NZ_CP025602.1_685085_685883_+	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|296aa|up_2|NZ_CP025602.1_685884_686772_+	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|405aa|up_1|NZ_CP025602.1_686777_687992_+	pfam11887, Mce4_CUP1, Cholesterol uptake porter CUP1 of Mce4, putative	NA|482aa|up_0|NZ_CP025602.1_689015_690461_+	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|517aa|down_0|NZ_CP025602.1_693193_694744_+	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_CP025602.1_694795_695188_-	cd18768, PIN_MtVapC4-C5-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins	NA|86aa|down_2|NZ_CP025602.1_695184_695442_-	COG4118, Phd, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|412aa|down_3|NZ_CP025602.1_695624_696860_-	COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General function prediction only]	NA|138aa|down_4|NZ_CP025602.1_697110_697524_-	cd18681, PIN_MtVapC27-VapC40_like, VapC-like PIN domain of Mycobacterium tuberculosis VapC27, and VapC40, and related proteins	NA|79aa|down_5|NZ_CP025602.1_697520_697757_-	COG2002, AbrB, Regulators of stationary/sporulation gene expression [Transcription]	NA|169aa|down_6|NZ_CP025602.1_697860_698367_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|157aa|down_7|NZ_CP025602.1_698480_698951_-	PRK10755, PRK10755, two-component system sensor histidine kinase PmrB	NA|254aa|down_8|NZ_CP025602.1_698994_699756_-	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_CP025602.1_699812_700124_+	pfam03413, PepSY, Peptidase propeptide and YPEB domain
GCF_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	5	840439-840561	3	PILER-CR	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCCGCCGGCCCCGCCGGCCCCGCCGGTGCCG--------GCG	42	0	0	NA	NA	NA	2	2	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|71aa|up_9|NZ_CP025602.1_829654_829867_+,NA|176aa|up_6|NZ_CP025602.1_831729_832257_+,NA|186aa|up_4|NZ_CP025602.1_833839_834397_-,NA|46aa|down_2|NZ_CP025602.1_841690_841828_-,NA|53aa|down_3|NZ_CP025602.1_841813_841972_+,NA|82aa|down_4|NZ_CP025602.1_841986_842232_+	NA|71aa|up_9|NZ_CP025602.1_829654_829867_+	NA	NA|183aa|up_8|NZ_CP025602.1_830015_830564_+	TIGR03086, TIGR03086, TIGR03086 family protein	NA|269aa|up_7|NZ_CP025602.1_830808_831615_+	pfam10774, DUF4226, Domain of unknown function (DUF4226)	NA|176aa|up_6|NZ_CP025602.1_831729_832257_+	NA	NA|176aa|up_5|NZ_CP025602.1_832934_833462_+	pfam00934, PE, PE family	NA|186aa|up_4|NZ_CP025602.1_833839_834397_-	NA	NA|169aa|up_3|NZ_CP025602.1_834393_834900_-	pfam12728, HTH_17, Helix-turn-helix domain	NA|49aa|up_2|NZ_CP025602.1_835012_835159_-	TIGR01692, 3-hydroxyisobutyrate_dehydrogenase_mitochondrial, 3-hydroxyisobutyrate dehydrogenase	NA|176aa|up_1|NZ_CP025602.1_835107_835635_+	TIGR03817, DECH_helic, helicase/secretion neighborhood putative DEAH-box helicase	NA|784aa|up_0|NZ_CP025602.1_835654_838006_+	pfam00934, PE, PE family	NA|86aa|down_0|NZ_CP025602.1_840900_841158_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|143aa|down_1|NZ_CP025602.1_841181_841610_+	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|46aa|down_2|NZ_CP025602.1_841690_841828_-	NA	NA|53aa|down_3|NZ_CP025602.1_841813_841972_+	NA	NA|82aa|down_4|NZ_CP025602.1_841986_842232_+	NA	NA|295aa|down_5|NZ_CP025602.1_842300_843185_-	TIGR01692, 3-hydroxyisobutyrate_dehydrogenase_mitochondrial, 3-hydroxyisobutyrate dehydrogenase	NA|391aa|down_6|NZ_CP025602.1_843195_844368_-	cd01162, IBD, Isobutyryl-CoA dehydrogenase	NA|511aa|down_7|NZ_CP025602.1_844374_845907_-	cd07085, ALDH_F6_MMSDH, Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2	NA|585aa|down_8|NZ_CP025602.1_846112_847867_+	pfam00934, PE, PE family	NA|646aa|down_9|NZ_CP025602.1_848056_849994_-	pfam00823, PPE, PPE family
GCF_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	6	926574-927521	1	CRT	no	csa3	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type I-A	CGGGGCCGGCGGNNCCGGCGG	21	1	3	927357-927392|927357-927392|927357-927392	NZ_CP025602.1_675085-675050|NZ_CP025602.1_1213696-1213731|NZ_CP025602.1_2423703-2423668	NA	19	19	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA|184aa|down_2|NZ_CP025602.1_931522_932074_-,NA|81aa|down_8|NZ_CP025602.1_937537_937780_+	NA|685aa|up_9|NZ_CP025602.1_914210_916265_-	TIGR00350, Transcriptional_regulator_LytR, cell envelope-related function transcriptional attenuator common domain	NA|390aa|up_8|NZ_CP025602.1_916430_917600_-	TIGR00737, Probable_tRNA-dihydrouridine_synthase, putative TIM-barrel protein, nifR3 family	NA|339aa|up_7|NZ_CP025602.1_917687_918704_-	cd01050, Acyl_ACP_Desat, Acyl ACP desaturase, ferritin-like diiron-binding domain	NA|214aa|up_6|NZ_CP025602.1_918865_919507_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|352aa|up_5|NZ_CP025602.1_919587_920643_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	csa3|131aa|up_4|NZ_CP025602.1_920694_921087_-	smart00418, HTH_ARSR, helix_turn_helix, Arsenical Resistance Operon Repressor	NA|141aa|up_3|NZ_CP025602.1_921144_921567_-	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|97aa|up_2|NZ_CP025602.1_921528_921819_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|302aa|up_1|NZ_CP025602.1_921923_922829_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|272aa|up_0|NZ_CP025602.1_922847_923663_-	TIGR04255, hypothetical_protein, TIGR04255 family protein	NA|880aa|down_0|NZ_CP025602.1_927790_930430_-	pfam00934, PE, PE family	NA|215aa|down_1|NZ_CP025602.1_930897_931542_+	pfam14032, PknH_C, PknH-like extracellular domain	NA|184aa|down_2|NZ_CP025602.1_931522_932074_-	NA	NA|218aa|down_3|NZ_CP025602.1_932223_932877_-	COG4849, COG4849, Predicted nucleotidyltransferase [General function prediction    only]	NA|343aa|down_4|NZ_CP025602.1_932947_933976_-	COG4861, COG4861, Uncharacterized protein conserved in bacteria [Function unknown]	NA|257aa|down_5|NZ_CP025602.1_934664_935435_+	pfam01427, Peptidase_M15, D-ala-D-ala dipeptidase	NA|271aa|down_6|NZ_CP025602.1_935521_936334_+	pfam13847, Methyltransf_31, Methyltransferase domain	NA|287aa|down_7|NZ_CP025602.1_936401_937262_-	TIGR01250, Proline_iminopeptidase, proline-specific peptidase, Bacillus coagulans-type subfamily	NA|81aa|down_8|NZ_CP025602.1_937537_937780_+	NA	NA|431aa|down_9|NZ_CP025602.1_938056_939349_+	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily
GCF_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	7	964526-964777	4	PILER-CR	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CGGGTGGTGCCAGGTCGGCGGGCGCGGGTGGCGCCAGTTCGGCGGGCGCGGGTGGCGCCAGGT	63	1	1	964699-964754	NZ_CP025602.1_964827-964882	NA	2	2	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|67aa|up_3|NZ_CP025602.1_962624_962825_+,NA	NA|158aa|up_9|NZ_CP025602.1_953201_953675_+	cd07819, SRPBCC_2, Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins	NA|398aa|up_8|NZ_CP025602.1_953671_954865_-	PRK07777, PRK07777, putative succinyldiaminopimelate transaminase DapC	NA|404aa|up_7|NZ_CP025602.1_955021_956233_+	PRK08242, PRK08242, acetyl-CoA C-acetyltransferase	NA|721aa|up_6|NZ_CP025602.1_956237_958400_+	PRK11154, fadJ, fatty acid oxidation complex subunit alpha FadJ	NA|543aa|up_5|NZ_CP025602.1_958467_960096_-	COG1061, SSL2, DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]	NA|757aa|up_4|NZ_CP025602.1_960286_962557_-	pfam13625, Helicase_C_3, Helicase conserved C-terminal domain	NA|67aa|up_3|NZ_CP025602.1_962624_962825_+	NA	NA|168aa|up_2|NZ_CP025602.1_962834_963338_+	PRK09364, moaC, cyclic pyranopterin monophosphate synthase MoaC	NA|161aa|up_1|NZ_CP025602.1_963334_963817_+	cd00886, MogA_MoaB, MogA_MoaB family	NA|142aa|up_0|NZ_CP025602.1_963813_964239_+	COG0314, MoaE, Molybdopterin converting factor, large subunit [Coenzyme metabolism]	NA|93aa|down_0|NZ_CP025602.1_965927_966206_-	cd00754, Ubl_MoaD, ubiquitin-like (Ubl) domain found in molybdenum cofactor biosynthesis protein D (MoaD) and similar proteins	NA|361aa|down_1|NZ_CP025602.1_966209_967292_-	PRK00164, moaA, GTP 3',8-cyclase MoaA	NA|130aa|down_2|NZ_CP025602.1_967288_967678_-	PRK11770, PRK11770, YccF domain-containing protein	NA|136aa|down_3|NZ_CP025602.1_967842_968250_+	COG1278, CspC, Cold shock proteins [Transcription]	NA|610aa|down_4|NZ_CP025602.1_968377_970207_-	pfam00934, PE, PE family	NA|651aa|down_5|NZ_CP025602.1_970467_972420_+	cd01161, VLCAD, Very long chain acyl-CoA dehydrogenase	NA|387aa|down_6|NZ_CP025602.1_972508_973669_-	COG4398, COG4398, Uncharacterized protein conserved in bacteria [Function unknown]	NA|163aa|down_7|NZ_CP025602.1_973768_974257_-	pfam10969, DUF2771, Protein of unknown function (DUF2771)	NA|549aa|down_8|NZ_CP025602.1_974253_975900_-	cd06173, MFS_MefA_like, Macrolide efflux protein A and similar proteins of the Major Facilitator Superfamily of transporters	NA|263aa|down_9|NZ_CP025602.1_976037_976826_+	pfam11228, DUF3027, Protein of unknown function (DUF3027)
GCF_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	8	1191281-1191389	3	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GACAGCCAGCCGGCTGACCCGCCGT	25	0	0	NA	NA	NA	1	1	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA	NA|394aa|up_9|NZ_CP025602.1_1179359_1180541_+	COG3391, COG3391, Uncharacterized conserved protein [Function unknown]	NA|544aa|up_8|NZ_CP025602.1_1180647_1182279_+	cd12119, ttLC_FACS_AlkK_like, Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles	NA|355aa|up_7|NZ_CP025602.1_1182354_1183419_+	COG3804, COG3804, Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]	NA|158aa|up_6|NZ_CP025602.1_1183471_1183945_+	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_CP025602.1_1183978_1184842_+	cd01908, YafJ, Glutamine amidotransferases class-II (Gn-AT)_YafJ-type	NA|286aa|up_4|NZ_CP025602.1_1184846_1185704_+	COG1752, RssA, Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]	NA|361aa|up_3|NZ_CP025602.1_1185704_1186787_-	cd07228, Pat_NTE_like_bacteria, Bacterial patatin-like phospholipase domain containing protein 6	NA|140aa|up_2|NZ_CP025602.1_1186867_1187287_-	pfam17301, LpqV, Putative lipoprotein LpqV	NA|189aa|up_1|NZ_CP025602.1_1187398_1187965_+	cd10548, cupin_CDO, cysteine dioxygenase, cupin domain	NA|132aa|up_0|NZ_CP025602.1_1187961_1188357_+	cd01447, Polysulfide_ST, Polysulfide-sulfurtransferase - Rhodanese Homology Domain	NA|588aa|down_0|NZ_CP025602.1_1192474_1194238_-	COG4425, COG4425, Predicted membrane protein [Function unknown]	NA|258aa|down_1|NZ_CP025602.1_1194234_1195008_-	PRK05862, PRK05862, enoyl-CoA hydratase; Provisional	NA|346aa|down_2|NZ_CP025602.1_1195019_1196057_-	PRK05617, PRK05617, 3-hydroxyisobutyryl-CoA hydrolase; Provisional	NA|279aa|down_3|NZ_CP025602.1_1196243_1197080_+	COG4760, COG4760, Predicted membrane protein [Function unknown]	NA|284aa|down_4|NZ_CP025602.1_1197195_1198047_+	pfam18741, MTES_1575, REase_MTES_1575	NA|406aa|down_5|NZ_CP025602.1_1198120_1199338_-	PRK07851, PRK07851, acetyl-CoA C-acetyltransferase	NA|315aa|down_6|NZ_CP025602.1_1199390_1200335_-	cd01836, FeeA_FeeB_like, SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases	NA|356aa|down_7|NZ_CP025602.1_1200557_1201625_+	COG0657, Aes, Esterase/lipase [Lipid metabolism]	NA|465aa|down_8|NZ_CP025602.1_1201681_1203076_+	TIGR01137, Cystathionine_beta-synthase, cystathionine beta-synthase	NA|241aa|down_9|NZ_CP025602.1_1203277_1204000_+	pfam06271, RDD, RDD family
GCF_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	9	1636559-1636785	5	PILER-CR	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CGGCGGCAACGGCGGCGCCGGCGGCAACGGCGCCAACGGCGCCGCCG	47	0	0	NA	NA	NA	2	2	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|38aa|up_8|NZ_CP025602.1_1623067_1623181_-,NA|137aa|up_7|NZ_CP025602.1_1623230_1623641_-,NA|288aa|down_2|NZ_CP025602.1_1640623_1641487_+	NA|162aa|up_9|NZ_CP025602.1_1622150_1622636_-	cd07820, SRPBCC_3, Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins	NA|38aa|up_8|NZ_CP025602.1_1623067_1623181_-	NA	NA|137aa|up_7|NZ_CP025602.1_1623230_1623641_-	NA	NA|248aa|up_6|NZ_CP025602.1_1623657_1624401_-	pfam01182, Glucosamine_iso, Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase	NA|304aa|up_5|NZ_CP025602.1_1624397_1625309_-	TIGR00534, Putative_OxPP_cycle_protein_OpcA, glucose-6-phosphate dehydrogenase assembly protein OpcA	NA|515aa|up_4|NZ_CP025602.1_1625361_1626906_-	PRK05722, PRK05722, glucose-6-phosphate 1-dehydrogenase; Validated	NA|374aa|up_3|NZ_CP025602.1_1626902_1628024_-	PRK03343, PRK03343, transaldolase; Validated	NA|701aa|up_2|NZ_CP025602.1_1628040_1630143_-	COG0021, TktA, Transketolase [Carbohydrate transport and metabolism]	NA|1330aa|up_1|NZ_CP025602.1_1630581_1634571_-	pfam00934, PE, PE family	NA|309aa|up_0|NZ_CP025602.1_1634972_1635899_+	PRK04375, PRK04375, protoheme IX farnesyltransferase; Provisional	NA|422aa|down_0|NZ_CP025602.1_1638324_1639590_+	COG2508, COG2508, Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]	NA|329aa|down_1|NZ_CP025602.1_1639617_1640604_-	cd05286, QOR2, Quinone oxidoreductase (QOR)	NA|288aa|down_2|NZ_CP025602.1_1640623_1641487_+	NA	NA|311aa|down_3|NZ_CP025602.1_1641436_1642369_-	COG1612, CtaA, Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]	NA|262aa|down_4|NZ_CP025602.1_1642480_1643266_-	TIGR00025, Mtu_efflux, ABC transporter efflux protein, DrrB family	NA|314aa|down_5|NZ_CP025602.1_1643262_1644204_-	COG1131, CcmA, ABC-type multidrug transport system, ATPase component [Defense mechanisms]	NA|592aa|down_6|NZ_CP025602.1_1644306_1646082_-	TIGR03459, crt_membr, carotene biosynthesis associated membrane protein	NA|269aa|down_7|NZ_CP025602.1_1646129_1646936_+	COG2345, COG2345, Predicted transcriptional regulator [Transcription]	NA|847aa|down_8|NZ_CP025602.1_1646932_1649473_+	TIGR01980, UPF0051_protein_slr0074, FeS assembly protein SufB	NA|398aa|down_9|NZ_CP025602.1_1649469_1650663_+	COG0719, SufB, Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]
GCF_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	10	2088184-2088438	2	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCCNCCGTCGCCGCCNNTGCC	21	2	3	2088265-2088282|2088265-2088282|2088355-2088372	NZ_CP025602.1_401058-401041|NZ_CP025602.1_607395-607378|NZ_CP025602.1_3450180-3450163	NA	5	5	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|88aa|up_0|NZ_CP025602.1_2087543_2087807_-,NA	NA|165aa|up_9|NZ_CP025602.1_2073837_2074332_+	pfam02577, DNase-RNase, Bifunctional nuclease	NA|226aa|up_8|NZ_CP025602.1_2074735_2075413_+	cd01105, HTH_GlnR-like, Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators	NA|942aa|up_7|NZ_CP025602.1_2075771_2078597_+	PRK05367, PRK05367, aminomethyl-transferring glycine dehydrogenase	NA|287aa|up_6|NZ_CP025602.1_2078823_2079684_-	PRK03204, PRK03204, haloalkane dehalogenase; Provisional	NA|289aa|up_5|NZ_CP025602.1_2079724_2080591_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|629aa|up_4|NZ_CP025602.1_2080595_2082482_-	TIGR00976, Hypothetical_protein_Rv1835c/MT1883/Mb1866c	NA|678aa|up_3|NZ_CP025602.1_2082497_2084531_-	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_CP025602.1_2084650_2086876_-	PRK02999, PRK02999, malate synthase G; Provisional	NA|132aa|up_1|NZ_CP025602.1_2087151_2087547_-	COG1848, COG1848, Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]	NA|88aa|up_0|NZ_CP025602.1_2087543_2087807_-	NA	NA|346aa|down_0|NZ_CP025602.1_2089575_2090613_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|456aa|down_1|NZ_CP025602.1_2090612_2091980_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|479aa|down_2|NZ_CP025602.1_2092153_2093590_-	PRK07807, PRK07807, GuaB1 family IMP dehydrogenase-related protein	NA|484aa|down_3|NZ_CP025602.1_2093625_2095077_-	PRK09287, PRK09287, NADP-dependent phosphogluconate dehydrogenase	NA|317aa|down_4|NZ_CP025602.1_2095106_2096057_-	cd07326, M56_BlaR1_MecR1_like, Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase	NA|139aa|down_5|NZ_CP025602.1_2096071_2096488_-	COG3682, COG3682, Predicted transcriptional regulator [Transcription]	NA|141aa|down_6|NZ_CP025602.1_2096765_2097188_+	COG2050, PaaI, HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis,    transport, and catabolism]	NA|101aa|down_7|NZ_CP025602.1_2097236_2097539_+	pfam00547, Urease_gamma, Urease, gamma subunit	NA|105aa|down_8|NZ_CP025602.1_2097535_2097850_+	PRK13202, ureB, urease subunit beta; Reviewed	NA|578aa|down_9|NZ_CP025602.1_2097849_2099583_+	PRK13206, ureC, urease subunit alpha; Reviewed
GCF_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	11	2163291-2163398	4	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CAACCCAAACGGATTAATCGCGAAACCAGGGATCGTGAC	39	0	0	NA	NA	NA	1	1	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|136aa|up_2|NZ_CP025602.1_2159835_2160243_-,NA|127aa|down_6|NZ_CP025602.1_2176464_2176845_-	NA|216aa|up_9|NZ_CP025602.1_2153149_2153797_-	pfam14081, DUF4262, Domain of unknown function (DUF4262)	NA|741aa|up_8|NZ_CP025602.1_2153803_2156026_-	PRK15061, PRK15061, catalase/peroxidase	NA|148aa|up_7|NZ_CP025602.1_2156063_2156507_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|198aa|up_6|NZ_CP025602.1_2156620_2157214_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_5|NZ_CP025602.1_2157296_2157902_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_4|NZ_CP025602.1_2158001_2159006_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_3|NZ_CP025602.1_2159105_2159858_+	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_CP025602.1_2159835_2160243_-	NA	NA|368aa|up_1|NZ_CP025602.1_2160377_2161481_+	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|399aa|up_0|NZ_CP025602.1_2161480_2162677_+	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|988aa|down_0|NZ_CP025602.1_2167563_2170527_-	pfam00823, PPE, PPE family	NA|155aa|down_1|NZ_CP025602.1_2170975_2171440_-	cd07821, PYR_PYL_RCAR_like, Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins	NA|288aa|down_2|NZ_CP025602.1_2171537_2172401_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_3|NZ_CP025602.1_2172438_2173710_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_4|NZ_CP025602.1_2173981_2175097_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_5|NZ_CP025602.1_2175087_2176428_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_6|NZ_CP025602.1_2176464_2176845_-	NA	NA|621aa|down_7|NZ_CP025602.1_2177001_2178864_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_8|NZ_CP025602.1_2178871_2179351_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_9|NZ_CP025602.1_2179587_2180361_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]
GCF_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	12	2168729-2168948	5	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GTGCCAGCCGGAATCGTGATCGGCGGAACCGTCACCGACGGAATACTCA	49	0	0	NA	NA	NA	1	1	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|136aa|up_3|NZ_CP025602.1_2159835_2160243_-,NA|127aa|down_5|NZ_CP025602.1_2176464_2176845_-	NA|741aa|up_9|NZ_CP025602.1_2153803_2156026_-	PRK15061, PRK15061, catalase/peroxidase	NA|148aa|up_8|NZ_CP025602.1_2156063_2156507_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|198aa|up_7|NZ_CP025602.1_2156620_2157214_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_6|NZ_CP025602.1_2157296_2157902_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_5|NZ_CP025602.1_2158001_2159006_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_4|NZ_CP025602.1_2159105_2159858_+	cd16282, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain	NA|136aa|up_3|NZ_CP025602.1_2159835_2160243_-	NA	NA|368aa|up_2|NZ_CP025602.1_2160377_2161481_+	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|399aa|up_1|NZ_CP025602.1_2161480_2162677_+	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|1460aa|up_0|NZ_CP025602.1_2162846_2167226_-	pfam00823, PPE, PPE family	NA|155aa|down_0|NZ_CP025602.1_2170975_2171440_-	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_CP025602.1_2171537_2172401_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_2|NZ_CP025602.1_2172438_2173710_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_3|NZ_CP025602.1_2173981_2175097_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_4|NZ_CP025602.1_2175087_2176428_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_5|NZ_CP025602.1_2176464_2176845_-	NA	NA|621aa|down_6|NZ_CP025602.1_2177001_2178864_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_7|NZ_CP025602.1_2178871_2179351_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_8|NZ_CP025602.1_2179587_2180361_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]	NA|256aa|down_9|NZ_CP025602.1_2180364_2181132_-	PRK05867, PRK05867, SDR family oxidoreductase
GCF_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	13	3119147-3120501	6,6,3	PILER-CR,CRISPRCasFinder,CRT	no	c2c9_V-U4,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type III-D,Type III-A,Type III-B,Type III-C	GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC	36,36,36	0	0	NA	NA	II-B,III-A:II-B,III-A:II-B,III-A	17,17,18	18	TypeIII-D,TypeIII-A,TypeIII-B,TypeIII-C	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_8|NZ_CP025602.1_3112426_3112681_-,NA|135aa|up_7|NZ_CP025602.1_3112828_3113233_+,NA|64aa|up_6|NZ_CP025602.1_3113229_3113421_+,NA|86aa|up_4|NZ_CP025602.1_3115007_3115265_+,NA|104aa|up_3|NZ_CP025602.1_3115369_3115681_+,NA|203aa|up_2|NZ_CP025602.1_3116100_3116709_+,NA	NA|92aa|up_9|NZ_CP025602.1_3111975_3112251_+	COG4453, COG4453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|85aa|up_8|NZ_CP025602.1_3112426_3112681_-	NA	NA|135aa|up_7|NZ_CP025602.1_3112828_3113233_+	NA	NA|64aa|up_6|NZ_CP025602.1_3113229_3113421_+	NA	NA|385aa|up_5|NZ_CP025602.1_3113619_3114774_+	pfam00665, rve, Integrase core domain	NA|86aa|up_4|NZ_CP025602.1_3115007_3115265_+	NA	NA|104aa|up_3|NZ_CP025602.1_3115369_3115681_+	NA	NA|203aa|up_2|NZ_CP025602.1_3116100_3116709_+	NA	NA|470aa|up_1|NZ_CP025602.1_3116779_3118189_+	pfam00665, rve, Integrase core domain	NA|271aa|up_0|NZ_CP025602.1_3118185_3118998_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|down_0|NZ_CP025602.1_3120527_3121789_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_1|NZ_CP025602.1_3123591_3123933_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_2|NZ_CP025602.1_3123933_3124950_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm6|383aa|down_3|NZ_CP025602.1_3124962_3126111_-	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	csm5gr7|376aa|down_4|NZ_CP025602.1_3126206_3127334_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_5|NZ_CP025602.1_3127330_3128239_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_6|NZ_CP025602.1_3128219_3128930_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_7|NZ_CP025602.1_3128939_3129314_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_8|NZ_CP025602.1_3129310_3131749_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_9|NZ_CP025602.1_3131745_3132468_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]
GCF_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	14	3121824-3123543	7,4,7	CRISPRCasFinder,CRT,PILER-CR	no	cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type III-D,Type III-A,Type III-B,Type III-C	GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC	36,36,36	0	0	NA	NA	II-B,III-A:II-B,III-A:II-B,III-A	23,23,22	23	TypeIII-D,TypeIII-A,TypeIII-B,TypeIII-C	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_9|NZ_CP025602.1_3112426_3112681_-,NA|135aa|up_8|NZ_CP025602.1_3112828_3113233_+,NA|64aa|up_7|NZ_CP025602.1_3113229_3113421_+,NA|86aa|up_5|NZ_CP025602.1_3115007_3115265_+,NA|104aa|up_4|NZ_CP025602.1_3115369_3115681_+,NA|203aa|up_3|NZ_CP025602.1_3116100_3116709_+,NA	NA|85aa|up_9|NZ_CP025602.1_3112426_3112681_-	NA	NA|135aa|up_8|NZ_CP025602.1_3112828_3113233_+	NA	NA|64aa|up_7|NZ_CP025602.1_3113229_3113421_+	NA	NA|385aa|up_6|NZ_CP025602.1_3113619_3114774_+	pfam00665, rve, Integrase core domain	NA|86aa|up_5|NZ_CP025602.1_3115007_3115265_+	NA	NA|104aa|up_4|NZ_CP025602.1_3115369_3115681_+	NA	NA|203aa|up_3|NZ_CP025602.1_3116100_3116709_+	NA	NA|470aa|up_2|NZ_CP025602.1_3116779_3118189_+	pfam00665, rve, Integrase core domain	NA|271aa|up_1|NZ_CP025602.1_3118185_3118998_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|up_0|NZ_CP025602.1_3120527_3121789_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_0|NZ_CP025602.1_3123591_3123933_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_1|NZ_CP025602.1_3123933_3124950_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm6|383aa|down_2|NZ_CP025602.1_3124962_3126111_-	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	csm5gr7|376aa|down_3|NZ_CP025602.1_3126206_3127334_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_4|NZ_CP025602.1_3127330_3128239_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_5|NZ_CP025602.1_3128219_3128930_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_6|NZ_CP025602.1_3128939_3129314_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_7|NZ_CP025602.1_3129310_3131749_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_8|NZ_CP025602.1_3131745_3132468_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	NA|182aa|down_9|NZ_CP025602.1_3132867_3133413_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	15	3740663-3741204	5	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGTTNCCNCCGTTGCCGCC	23	0	0	NA	NA	NA	7	7	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA|96aa|down_4|NZ_CP025602.1_3755296_3755584_-,NA|87aa|down_9|NZ_CP025602.1_3768704_3768965_-	NA|282aa|up_9|NZ_CP025602.1_3719914_3720760_-	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|147aa|up_8|NZ_CP025602.1_3721234_3721675_+	cd04770, HTH_HMRTR, Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators	NA|290aa|up_7|NZ_CP025602.1_3721708_3722578_-	TIGR00766, Uncharacterized_protein_Dda3937_02003, inner membrane protein YhjD	NA|337aa|up_6|NZ_CP025602.1_3722598_3723609_-	PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed	NA|211aa|up_5|NZ_CP025602.1_3723893_3724526_+	PRK14875, PRK14875, acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional	NA|410aa|up_4|NZ_CP025602.1_3724592_3725822_-	PRK08299, PRK08299, NADP-dependent isocitrate dehydrogenase	NA|450aa|up_3|NZ_CP025602.1_3726104_3727454_+	PRK07812, PRK07812, O-acetylhomoserine aminocarboxypropyltransferase; Validated	NA|380aa|up_2|NZ_CP025602.1_3727465_3728605_+	PRK00175, metX, homoserine O-acetyltransferase; Provisional	NA|244aa|up_1|NZ_CP025602.1_3728601_3729333_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|2524aa|up_0|NZ_CP025602.1_3729341_3736913_-	pfam00823, PPE, PPE family	NA|86aa|down_0|NZ_CP025602.1_3743166_3743424_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|3158aa|down_1|NZ_CP025602.1_3743679_3753153_-	pfam00823, PPE, PPE family	NA|149aa|down_2|NZ_CP025602.1_3753778_3754225_+	pfam01548, DEDD_Tnp_IS110, Transposase	NA|247aa|down_3|NZ_CP025602.1_3754261_3755002_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|96aa|down_4|NZ_CP025602.1_3755296_3755584_-	NA	NA|3717aa|down_5|NZ_CP025602.1_3755920_3767071_-	pfam00823, PPE, PPE family	NA|265aa|down_6|NZ_CP025602.1_3767314_3768109_-	pfam08031, BBE, Berberine and berberine like	NA|124aa|down_7|NZ_CP025602.1_3768190_3768562_-	COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production and conversion]	NA|73aa|down_8|NZ_CP025602.1_3768459_3768678_-	pfam01565, FAD_binding_4, FAD binding domain	NA|87aa|down_9|NZ_CP025602.1_3768704_3768965_-	NA
GCF_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	16	3948296-3950047	6	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CANCGGCGGCACCGGCGGCNNCGGCGGNNNCGGCGG	36	2	9	3948887-3948922|3948887-3948922|3948887-3948922|3948887-3948922|3948887-3948922|3949778-3949804|3949778-3949804|3949778-3949804|3949778-3949804	NZ_CP025602.1_3946986-3947021|NZ_CP025602.1_3947345-3947380|NZ_CP025602.1_3947936-3947971|NZ_CP025602.1_3948287-3948322|NZ_CP025602.1_3932777-3932812|NZ_CP025602.1_361973-361999|NZ_CP025602.1_3941173-3941199|NZ_CP025602.1_3941509-3941535|NZ_CP025602.1_3941854-3941880	NA	21	21	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA|280aa|down_2|NZ_CP025602.1_3953362_3954202_+	NA|64aa|up_9|NZ_CP025602.1_3922037_3922229_-	COG1141, Fer, Ferredoxin [Energy production and conversion]	NA|401aa|up_8|NZ_CP025602.1_3922443_3923646_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|374aa|up_7|NZ_CP025602.1_3923670_3924792_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|503aa|up_6|NZ_CP025602.1_3924862_3926371_+	PRK07867, PRK07867, acyl-CoA synthetase; Validated	NA|1382aa|up_5|NZ_CP025602.1_3926541_3930687_+	pfam00934, PE, PE family	NA|1883aa|up_4|NZ_CP025602.1_3930977_3936626_+	pfam00934, PE, PE family	NA|516aa|up_3|NZ_CP025602.1_3936792_3938340_-	PRK07586, PRK07586, acetolactate synthase large subunit	NA|279aa|up_2|NZ_CP025602.1_3938336_3939173_-	COG2159, COG2159, Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]	NA|1782aa|up_1|NZ_CP025602.1_3939532_3944878_+	pfam00934, PE, PE family	NA|219aa|up_0|NZ_CP025602.1_3945006_3945663_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|549aa|down_0|NZ_CP025602.1_3950755_3952402_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|264aa|down_1|NZ_CP025602.1_3952475_3953267_+	PRK07799, PRK07799, crotonase/enoyl-CoA hydratase family protein	NA|280aa|down_2|NZ_CP025602.1_3953362_3954202_+	NA	NA|399aa|down_3|NZ_CP025602.1_3954256_3955453_-	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|237aa|down_4|NZ_CP025602.1_3955481_3956192_+	pfam06314, ADC, Acetoacetate decarboxylase (ADC)	NA|348aa|down_5|NZ_CP025602.1_3956256_3957300_-	TIGR03559, F420_Rv3520c, probable F420-dependent oxidoreductase, Rv3520c family	NA|304aa|down_6|NZ_CP025602.1_3957452_3958364_+	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]	NA|355aa|down_7|NZ_CP025602.1_3958379_3959444_+	PRK07937, PRK07937, lipid-transfer protein; Provisional	NA|395aa|down_8|NZ_CP025602.1_3959460_3960645_+	PRK08313, PRK08313, thiolase domain-containing protein	NA|344aa|down_9|NZ_CP025602.1_3960686_3961718_+	cd14952, NHL_PKND_like, NHL repeat domain of the protein kinase PknD
GCF_002887255.1_ASM288725v1	NZ_CP025602	Mycobacterium tuberculosis strain GG-109-10 chromosome, complete genome	17	4110605-4110693	8	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCTCGGCGACGATGCGGGCCGGATGACGGCC	31	0	0	NA	NA	NA	1	1	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|257aa|up_8|NZ_CP025602.1_4101191_4101962_-,NA|119aa|up_3|NZ_CP025602.1_4107096_4107453_+,NA|52aa|up_2|NZ_CP025602.1_4107552_4107708_+,NA|233aa|up_0|NZ_CP025602.1_4109709_4110408_-,NA|126aa|down_6|NZ_CP025602.1_4115928_4116306_+	NA|288aa|up_9|NZ_CP025602.1_4099573_4100437_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|257aa|up_8|NZ_CP025602.1_4101191_4101962_-	NA	NA|549aa|up_7|NZ_CP025602.1_4101958_4103605_-	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]	NA|288aa|up_6|NZ_CP025602.1_4103601_4104465_-	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|309aa|up_5|NZ_CP025602.1_4104457_4105384_-	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|542aa|up_4|NZ_CP025602.1_4105385_4107011_-	cd00995, PBP2_NikA_DppA_OppA_like, The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold	NA|119aa|up_3|NZ_CP025602.1_4107096_4107453_+	NA	NA|52aa|up_2|NZ_CP025602.1_4107552_4107708_+	NA	NA|652aa|up_1|NZ_CP025602.1_4107718_4109674_+	PRK00174, PRK00174, acetyl-CoA synthetase; Provisional	NA|233aa|up_0|NZ_CP025602.1_4109709_4110408_-	NA	NA|173aa|down_0|NZ_CP025602.1_4110753_4111272_+	pfam07332, Phage_holin_3_6, Putative Actinobacterial Holin-X, holin superfamily III	NA|328aa|down_1|NZ_CP025602.1_4111272_4112256_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|398aa|down_2|NZ_CP025602.1_4112248_4113442_-	pfam13365, Trypsin_2, Trypsin-like peptidase domain	NA|274aa|down_3|NZ_CP025602.1_4113447_4114269_-	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_CP025602.1_4114400_4115084_-	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|246aa|down_5|NZ_CP025602.1_4115083_4115821_-	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]	NA|126aa|down_6|NZ_CP025602.1_4115928_4116306_+	NA	NA|225aa|down_7|NZ_CP025602.1_4116404_4117079_+	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|265aa|down_8|NZ_CP025602.1_4117184_4117979_-	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_CP025602.1_4117985_4118441_-	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
