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_002447275.1_ASM244727v1	NZ_CP023593	Mycobacterium tuberculosis strain SLM040 chromosome, complete genome	1	333615-334647	1,1	CRT,PILER-CR	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGGNGCCGCCGGNN,CCCGCCGGCCCCGCCG	18,16	0	0	NA	NA	NA:NA	15,4	15	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|61aa|up_0|NZ_CP023593.1_333130_333313_-,NA	NA|398aa|up_9|NZ_CP023593.1_323308_324502_-	COG3285, COG3285, Predicted eukaryotic-type DNA primase [DNA replication, recombination, and repair]	NA|561aa|up_8|NZ_CP023593.1_324537_326220_+	PRK07788, PRK07788, acyl-CoA synthetase; Validated	NA|732aa|up_7|NZ_CP023593.1_326236_328432_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_6|NZ_CP023593.1_328545_329679_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_5|NZ_CP023593.1_329675_330296_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_4|NZ_CP023593.1_330392_330974_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_3|NZ_CP023593.1_330903_331629_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_2|NZ_CP023593.1_331718_332639_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_1|NZ_CP023593.1_332678_333107_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|61aa|up_0|NZ_CP023593.1_333130_333313_-	NA	NA|835aa|down_0|NZ_CP023593.1_336521_339026_-	pfam00934, PE, PE family	NA|537aa|down_1|NZ_CP023593.1_339316_340927_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_2|NZ_CP023593.1_340950_341859_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|632aa|down_3|NZ_CP023593.1_342082_343978_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_4|NZ_CP023593.1_343974_345591_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_5|NZ_CP023593.1_345587_349580_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_6|NZ_CP023593.1_349576_349885_+	pfam00934, PE, PE family	NA|514aa|down_7|NZ_CP023593.1_349887_351429_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_8|NZ_CP023593.1_351477_351771_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|down_9|NZ_CP023593.1_351800_352091_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_002447275.1_ASM244727v1	NZ_CP023593	Mycobacterium tuberculosis strain SLM040 chromosome, complete genome	2	337675-338613	2,2	CRT,PILER-CR	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	NNNNNNCCGCCGGCGCCGCCG,ATCCGCCGCTACCGCCGGTGCCGCCGGCGCCGAACAGCCCGCC	21,43	2	7	338533-338559|338578-338595|338578-338595|338578-338595|338578-338595|338578-338595|338578-338595	NZ_CP023593.1_335761-335787|NZ_CP023593.1_335824-335841|NZ_CP023593.1_673088-673105|NZ_CP023593.1_1216957-1216940|NZ_CP023593.1_2423625-2423642|NZ_CP023593.1_3738358-3738375|NZ_CP023593.1_3739705-3739722	NA:NA	15,2	15	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_CP023593.1_333130_333313_-,NA	NA|561aa|up_9|NZ_CP023593.1_324537_326220_+	PRK07788, PRK07788, acyl-CoA synthetase; Validated	NA|732aa|up_8|NZ_CP023593.1_326236_328432_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_7|NZ_CP023593.1_328545_329679_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_6|NZ_CP023593.1_329675_330296_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_5|NZ_CP023593.1_330392_330974_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_4|NZ_CP023593.1_330903_331629_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_3|NZ_CP023593.1_331718_332639_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_2|NZ_CP023593.1_332678_333107_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|61aa|up_1|NZ_CP023593.1_333130_333313_-	NA	NA|955aa|up_0|NZ_CP023593.1_333407_336272_-	pfam00934, PE, PE family	NA|537aa|down_0|NZ_CP023593.1_339316_340927_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_1|NZ_CP023593.1_340950_341859_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|632aa|down_2|NZ_CP023593.1_342082_343978_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_3|NZ_CP023593.1_343974_345591_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_4|NZ_CP023593.1_345587_349580_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_5|NZ_CP023593.1_349576_349885_+	pfam00934, PE, PE family	NA|514aa|down_6|NZ_CP023593.1_349887_351429_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_7|NZ_CP023593.1_351477_351771_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|down_8|NZ_CP023593.1_351800_352091_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]	NA|296aa|down_9|NZ_CP023593.1_352101_352989_+	pfam14011, ESX-1_EspG, EspG family
GCF_002447275.1_ASM244727v1	NZ_CP023593	Mycobacterium tuberculosis strain SLM040 chromosome, complete genome	3	366416-367114	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	366704-366745|366779-366811	NZ_CP023593.1_374735-374776|NZ_CP023593.1_373550-373582	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_CP023593.1_363428_363731_+,NA|161aa|down_1|NZ_CP023593.1_376524_377007_-,NA|410aa|down_5|NZ_CP023593.1_379123_380353_+	NA|262aa|up_9|NZ_CP023593.1_358123_358909_+	PRK14103, PRK14103, trans-aconitate 2-methyltransferase; Provisional	NA|268aa|up_8|NZ_CP023593.1_358897_359701_-	COG4424, COG4424, Uncharacterized protein conserved in bacteria [Function unknown]	NA|466aa|up_7|NZ_CP023593.1_359710_361108_-	cd16027, SGSH, N-sulfoglucosamine sulfohydrolase (SGSH; sulfamidase)	NA|592aa|up_6|NZ_CP023593.1_361286_363062_+	pfam00934, PE, PE family	NA|76aa|up_5|NZ_CP023593.1_363204_363432_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|101aa|up_4|NZ_CP023593.1_363428_363731_+	NA	NA|74aa|up_3|NZ_CP023593.1_363778_364000_+	PHA01748, PHA01748, hypothetical protein	NA|142aa|up_2|NZ_CP023593.1_363996_364422_+	cd18755, PIN_MtVapC3_VapC21-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC3, VapC21 and related proteins	NA|211aa|up_1|NZ_CP023593.1_364557_365190_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|303aa|up_0|NZ_CP023593.1_365186_366095_+	cd09810, LPOR_like_SDR_c_like, light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs	NA|224aa|down_0|NZ_CP023593.1_375865_376537_+	TIGR02476, BluB, 5,6-dimethylbenzimidazole synthase	NA|161aa|down_1|NZ_CP023593.1_376524_377007_-	NA	NA|239aa|down_2|NZ_CP023593.1_377064_377781_+	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|219aa|down_3|NZ_CP023593.1_377882_378539_+	COG3786, COG3786, Uncharacterized protein conserved in bacteria [Function unknown]	NA|164aa|down_4|NZ_CP023593.1_378608_379100_-	pfam13577, SnoaL_4, SnoaL-like domain	NA|410aa|down_5|NZ_CP023593.1_379123_380353_+	NA	NA|621aa|down_6|NZ_CP023593.1_380507_382370_+	COG0443, DnaK, Molecular chaperone [Posttranslational modification, protein turnover, chaperones]	NA|129aa|down_7|NZ_CP023593.1_382441_382828_+	COG0326, HtpG, Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]	NA|221aa|down_8|NZ_CP023593.1_382830_383493_-	pfam11259, DUF3060, Protein of unknown function (DUF3060)	NA|295aa|down_9|NZ_CP023593.1_383553_384438_+	COG2273, SKN1, Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]
GCF_002447275.1_ASM244727v1	NZ_CP023593	Mycobacterium tuberculosis strain SLM040 chromosome, complete genome	4	691955-692031	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|136aa|up_9|NZ_CP023593.1_677850_678258_+	cd18696, PIN_MtVapC26-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC26 and related proteins	NA|229aa|up_8|NZ_CP023593.1_678317_679004_-	pfam10738, Lpp-LpqN, Probable lipoprotein LpqN	NA|878aa|up_7|NZ_CP023593.1_679157_681791_+	COG3537, COG3537, Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]	NA|796aa|up_6|NZ_CP023593.1_681813_684201_-	pfam03706, LPG_synthase_TM, Lysylphosphatidylglycerol synthase TM region	NA|241aa|up_5|NZ_CP023593.1_684338_685061_+	COG2186, FadR, Transcriptional regulators [Transcription]	NA|266aa|up_4|NZ_CP023593.1_685057_685855_+	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_CP023593.1_685856_686744_+	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_CP023593.1_686749_687964_+	pfam11887, Mce4_CUP1, Cholesterol uptake porter CUP1 of Mce4, putative	NA|482aa|up_1|NZ_CP023593.1_688987_690433_+	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|479aa|up_0|NZ_CP023593.1_690429_691866_+	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|517aa|down_0|NZ_CP023593.1_693166_694717_+	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_CP023593.1_694768_695161_-	cd18768, PIN_MtVapC4-C5-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins	NA|86aa|down_2|NZ_CP023593.1_695157_695415_-	COG4118, Phd, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|412aa|down_3|NZ_CP023593.1_695597_696833_-	COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General function prediction only]	NA|138aa|down_4|NZ_CP023593.1_697083_697497_-	cd18681, PIN_MtVapC27-VapC40_like, VapC-like PIN domain of Mycobacterium tuberculosis VapC27, and VapC40, and related proteins	NA|79aa|down_5|NZ_CP023593.1_697493_697730_-	COG2002, AbrB, Regulators of stationary/sporulation gene expression [Transcription]	NA|169aa|down_6|NZ_CP023593.1_697833_698340_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|157aa|down_7|NZ_CP023593.1_698453_698924_-	PRK10755, PRK10755, two-component system sensor histidine kinase PmrB	NA|254aa|down_8|NZ_CP023593.1_698967_699729_-	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_CP023593.1_699785_700097_+	pfam03413, PepSY, Peptidase propeptide and YPEB domain
GCF_002447275.1_ASM244727v1	NZ_CP023593	Mycobacterium tuberculosis strain SLM040 chromosome, complete genome	5	926551-927498	3	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	927334-927369|927334-927369|927334-927369	NZ_CP023593.1_675052-675017|NZ_CP023593.1_1213690-1213725|NZ_CP023593.1_2423732-2423697	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_CP023593.1_931499_932051_-,NA|81aa|down_8|NZ_CP023593.1_937514_937757_+	NA|685aa|up_9|NZ_CP023593.1_914187_916242_-	TIGR00350, Transcriptional_regulator_LytR, cell envelope-related function transcriptional attenuator common domain	NA|390aa|up_8|NZ_CP023593.1_916407_917577_-	TIGR00737, Probable_tRNA-dihydrouridine_synthase, putative TIM-barrel protein, nifR3 family	NA|339aa|up_7|NZ_CP023593.1_917664_918681_-	cd01050, Acyl_ACP_Desat, Acyl ACP desaturase, ferritin-like diiron-binding domain	NA|214aa|up_6|NZ_CP023593.1_918842_919484_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|352aa|up_5|NZ_CP023593.1_919564_920620_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	csa3|131aa|up_4|NZ_CP023593.1_920671_921064_-	smart00418, HTH_ARSR, helix_turn_helix, Arsenical Resistance Operon Repressor	NA|141aa|up_3|NZ_CP023593.1_921121_921544_-	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|97aa|up_2|NZ_CP023593.1_921505_921796_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|302aa|up_1|NZ_CP023593.1_921900_922806_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|272aa|up_0|NZ_CP023593.1_922824_923640_-	TIGR04255, hypothetical_protein, TIGR04255 family protein	NA|880aa|down_0|NZ_CP023593.1_927767_930407_-	pfam00934, PE, PE family	NA|215aa|down_1|NZ_CP023593.1_930874_931519_+	pfam14032, PknH_C, PknH-like extracellular domain	NA|184aa|down_2|NZ_CP023593.1_931499_932051_-	NA	NA|218aa|down_3|NZ_CP023593.1_932200_932854_-	COG4849, COG4849, Predicted nucleotidyltransferase [General function prediction    only]	NA|343aa|down_4|NZ_CP023593.1_932924_933953_-	COG4861, COG4861, Uncharacterized protein conserved in bacteria [Function unknown]	NA|257aa|down_5|NZ_CP023593.1_934641_935412_+	pfam01427, Peptidase_M15, D-ala-D-ala dipeptidase	NA|271aa|down_6|NZ_CP023593.1_935498_936311_+	pfam13847, Methyltransf_31, Methyltransferase domain	NA|287aa|down_7|NZ_CP023593.1_936378_937239_-	TIGR01250, Proline_iminopeptidase, proline-specific peptidase, Bacillus coagulans-type subfamily	NA|81aa|down_8|NZ_CP023593.1_937514_937757_+	NA	NA|431aa|down_9|NZ_CP023593.1_938033_939326_+	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily
GCF_002447275.1_ASM244727v1	NZ_CP023593	Mycobacterium tuberculosis strain SLM040 chromosome, complete genome	6	1211891-1212747	3	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GGCGGTGTCGGCGGTGCCGGCGG	23	4	69	1212274-1212295|1212319-1212334|1212457-1212478|1212457-1212478|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592|1212574-1212592	NZ_CP023593.1_2960492-2960471|NZ_CP023593.1_2088584-2088569|NZ_CP023593.1_837364-837385|NZ_CP023593.1_1217585-1217606|NZ_CP023593.1_674716-674698|NZ_CP023593.1_1213417-1213435|NZ_CP023593.1_1217558-1217576|NZ_CP023593.1_1217630-1217648|NZ_CP023593.1_1630647-1630629|NZ_CP023593.1_1633473-1633455|NZ_CP023593.1_1990784-1990766|NZ_CP023593.1_2061512-2061494|NZ_CP023593.1_2061959-2061941|NZ_CP023593.1_2062058-2062040|NZ_CP023593.1_2802041-2802023|NZ_CP023593.1_2805569-2805551|NZ_CP023593.1_1636868-1636850|NZ_CP023593.1_150165-150183|NZ_CP023593.1_335172-335154|NZ_CP023593.1_335616-335598|NZ_CP023593.1_335667-335649|NZ_CP023593.1_335676-335658|NZ_CP023593.1_363006-362988|NZ_CP023593.1_443373-443355|NZ_CP023593.1_546717-546699|NZ_CP023593.1_623907-623925|NZ_CP023593.1_624129-624147|NZ_CP023593.1_673882-673864|NZ_CP023593.1_840147-840165|NZ_CP023593.1_1090913-1090931|NZ_CP023593.1_1091561-1091579|NZ_CP023593.1_1095620-1095602|NZ_CP023593.1_1212946-1212964|NZ_CP023593.1_1213336-1213354|NZ_CP023593.1_1217978-1217996|NZ_CP023593.1_1489155-1489137|NZ_CP023593.1_1618611-1618593|NZ_CP023593.1_1619064-1619046|NZ_CP023593.1_1635986-1635968|NZ_CP023593.1_1635995-1635977|NZ_CP023593.1_1864275-1864257|NZ_CP023593.1_1864803-1864785|NZ_CP023593.1_1990058-1990040|NZ_CP023593.1_2001420-2001438|NZ_CP023593.1_2088782-2088764|NZ_CP023593.1_2303458-2303440|NZ_CP023593.1_2356905-2356887|NZ_CP023593.1_2419558-2419576|NZ_CP023593.1_2423645-2423627|NZ_CP023593.1_2569137-2569119|NZ_CP023593.1_2693434-2693452|NZ_CP023593.1_2795356-2795338|NZ_CP023593.1_2795938-2795920|NZ_CP023593.1_3054529-3054547|NZ_CP023593.1_3054628-3054646|NZ_CP023593.1_3705448-3705466|NZ_CP023593.1_3737426-3737408|NZ_CP023593.1_3738050-3738032|NZ_CP023593.1_3738245-3738227|NZ_CP023593.1_3738378-3738360|NZ_CP023593.1_3802241-3802259|NZ_CP023593.1_3802424-3802442|NZ_CP023593.1_3802592-3802610|NZ_CP023593.1_3930404-3930422|NZ_CP023593.1_3932143-3932161|NZ_CP023593.1_3940650-3940668|NZ_CP023593.1_3948626-3948644|NZ_CP023593.1_4031609-4031591|NZ_CP023593.1_4094135-4094153	NA	16	16	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|89aa|up_3|NZ_CP023593.1_1207323_1207590_+,NA|61aa|down_3|NZ_CP023593.1_1215165_1215348_+,NA|35aa|down_4|NZ_CP023593.1_1215457_1215562_+	NA|465aa|up_9|NZ_CP023593.1_1201657_1203052_+	TIGR01137, Cystathionine_beta-synthase, cystathionine beta-synthase	NA|241aa|up_8|NZ_CP023593.1_1203253_1203976_+	pfam06271, RDD, RDD family	NA|389aa|up_7|NZ_CP023593.1_1204007_1205174_+	PRK07811, PRK07811, cystathionine gamma-synthase; Provisional	NA|165aa|up_6|NZ_CP023593.1_1205244_1205739_-	PRK00226, greA, transcription elongation factor GreA; Reviewed	NA|145aa|up_5|NZ_CP023593.1_1205924_1206359_-	pfam14155, DUF4307, Domain of unknown function (DUF4307)	NA|289aa|up_4|NZ_CP023593.1_1206460_1207327_+	TIGR03446, mycothiol_Mca, mycothiol conjugate amidase Mca	NA|89aa|up_3|NZ_CP023593.1_1207323_1207590_+	NA	NA|674aa|up_2|NZ_CP023593.1_1207576_1209598_+	COG1331, COG1331, Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]	NA|243aa|up_1|NZ_CP023593.1_1209696_1210425_-	TIGR01065, Hypothetical_UPF0073_protein_yqfA	NA|263aa|up_0|NZ_CP023593.1_1210535_1211324_+	PRK14828, PRK14828, undecaprenyl pyrophosphate synthase; Provisional	NA|107aa|down_0|NZ_CP023593.1_1213980_1214301_+	COG0020, UppS, Undecaprenyl pyrophosphate synthase [Lipid metabolism]	NA|145aa|down_1|NZ_CP023593.1_1214453_1214888_+	pfam00934, PE, PE family	NA|55aa|down_2|NZ_CP023593.1_1214989_1215154_+	smart00637, CBD_II, CBD_II domain	NA|61aa|down_3|NZ_CP023593.1_1215165_1215348_+	NA	NA|35aa|down_4|NZ_CP023593.1_1215457_1215562_+	NA	NA|152aa|down_5|NZ_CP023593.1_1215539_1215995_+	pfam01670, Glyco_hydro_12, Glycosyl hydrolase family 12	NA|854aa|down_6|NZ_CP023593.1_1216409_1218971_+	pfam00934, PE, PE family	NA|313aa|down_7|NZ_CP023593.1_1219188_1220127_-	PRK05439, PRK05439, pantothenate kinase; Provisional	NA|427aa|down_8|NZ_CP023593.1_1220514_1221795_+	PRK00011, glyA, serine hydroxymethyltransferase; Reviewed	NA|276aa|down_9|NZ_CP023593.1_1221899_1222727_+	cd01050, Acyl_ACP_Desat, Acyl ACP desaturase, ferritin-like diiron-binding domain
GCF_002447275.1_ASM244727v1	NZ_CP023593	Mycobacterium tuberculosis strain SLM040 chromosome, complete genome	7	1572130-1573202	4	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGTTGCCGCCGGCACCGCCGTCGCCGAT	32	0	0	NA	NA	NA	15	15	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|106aa|up_7|NZ_CP023593.1_1563893_1564211_+,NA	NA|103aa|up_9|NZ_CP023593.1_1561408_1561717_+	pfam00934, PE, PE family	NA|540aa|up_8|NZ_CP023593.1_1561713_1563333_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|106aa|up_7|NZ_CP023593.1_1563893_1564211_+	NA	NA|209aa|up_6|NZ_CP023593.1_1564345_1564972_+	PRK00300, gmk, guanylate kinase; Provisional	NA|111aa|up_5|NZ_CP023593.1_1565037_1565370_+	TIGR00690, DNA-directed_RNA_polymerase_subunit_omega, DNA-directed RNA polymerase, omega subunit	NA|419aa|up_4|NZ_CP023593.1_1565385_1566642_+	PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated	NA|404aa|up_3|NZ_CP023593.1_1566769_1567981_+	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|493aa|up_2|NZ_CP023593.1_1568053_1569532_-	COG2072, TrkA, Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]	NA|462aa|up_1|NZ_CP023593.1_1569528_1570914_-	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|345aa|up_0|NZ_CP023593.1_1570991_1572026_+	smart00342, HTH_ARAC, helix_turn_helix, arabinose operon control protein	NA|134aa|down_0|NZ_CP023593.1_1574055_1574457_-	cd18741, PIN_VapC4-5_FitB-like, uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily	NA|86aa|down_1|NZ_CP023593.1_1574453_1574711_-	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|320aa|down_2|NZ_CP023593.1_1574793_1575753_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|321aa|down_3|NZ_CP023593.1_1575777_1576740_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|201aa|down_4|NZ_CP023593.1_1576873_1577476_+	COG3714, COG3714, Predicted membrane protein [Function unknown]	NA|656aa|down_5|NZ_CP023593.1_1577556_1579524_+	PRK14873, PRK14873, primosomal protein N'	NA|275aa|down_6|NZ_CP023593.1_1579541_1580366_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|161aa|down_7|NZ_CP023593.1_1580534_1581017_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|275aa|down_8|NZ_CP023593.1_1581088_1581913_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|313aa|down_9|NZ_CP023593.1_1582109_1583048_+	PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed
GCF_002447275.1_ASM244727v1	NZ_CP023593	Mycobacterium tuberculosis strain SLM040 chromosome, complete genome	8	2088254-2088508	4	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCCNCCGTCGCCGCCNNTGCC	21	2	3	2088335-2088352|2088335-2088352|2088425-2088442	NZ_CP023593.1_401031-401014|NZ_CP023593.1_607362-607345|NZ_CP023593.1_3450143-3450126	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_CP023593.1_2087613_2087877_-,NA	NA|165aa|up_9|NZ_CP023593.1_2073907_2074402_+	pfam02577, DNase-RNase, Bifunctional nuclease	NA|226aa|up_8|NZ_CP023593.1_2074805_2075483_+	cd01105, HTH_GlnR-like, Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators	NA|942aa|up_7|NZ_CP023593.1_2075841_2078667_+	PRK05367, PRK05367, aminomethyl-transferring glycine dehydrogenase	NA|287aa|up_6|NZ_CP023593.1_2078893_2079754_-	PRK03204, PRK03204, haloalkane dehalogenase; Provisional	NA|289aa|up_5|NZ_CP023593.1_2079794_2080661_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|629aa|up_4|NZ_CP023593.1_2080665_2082552_-	TIGR00976, Hypothetical_protein_Rv1835c/MT1883/Mb1866c	NA|678aa|up_3|NZ_CP023593.1_2082567_2084601_-	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_CP023593.1_2084720_2086946_-	PRK02999, PRK02999, malate synthase G; Provisional	NA|132aa|up_1|NZ_CP023593.1_2087221_2087617_-	COG1848, COG1848, Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]	NA|88aa|up_0|NZ_CP023593.1_2087613_2087877_-	NA	NA|346aa|down_0|NZ_CP023593.1_2089645_2090683_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|456aa|down_1|NZ_CP023593.1_2090682_2092050_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|479aa|down_2|NZ_CP023593.1_2092223_2093660_-	PRK07807, PRK07807, GuaB1 family IMP dehydrogenase-related protein	NA|484aa|down_3|NZ_CP023593.1_2093695_2095147_-	PRK09287, PRK09287, NADP-dependent phosphogluconate dehydrogenase	NA|317aa|down_4|NZ_CP023593.1_2095176_2096127_-	cd07326, M56_BlaR1_MecR1_like, Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase	NA|139aa|down_5|NZ_CP023593.1_2096141_2096558_-	COG3682, COG3682, Predicted transcriptional regulator [Transcription]	NA|141aa|down_6|NZ_CP023593.1_2096835_2097258_+	COG2050, PaaI, HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis,    transport, and catabolism]	NA|101aa|down_7|NZ_CP023593.1_2097306_2097609_+	pfam00547, Urease_gamma, Urease, gamma subunit	NA|105aa|down_8|NZ_CP023593.1_2097605_2097920_+	PRK13202, ureB, urease subunit beta; Reviewed	NA|578aa|down_9|NZ_CP023593.1_2097919_2099653_+	PRK13206, ureC, urease subunit alpha; Reviewed
GCF_002447275.1_ASM244727v1	NZ_CP023593	Mycobacterium tuberculosis strain SLM040 chromosome, complete genome	9	2163347-2163451	5	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CAACCCAAACGGATTAATCGCGAAACCAGGGATCGT	36	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|157aa|up_9|NZ_CP023593.1_2152394_2152865_-,NA|136aa|up_1|NZ_CP023593.1_2159890_2160298_-,NA|127aa|down_6|NZ_CP023593.1_2176517_2176898_-	NA|157aa|up_9|NZ_CP023593.1_2152394_2152865_-	NA	NA|216aa|up_8|NZ_CP023593.1_2153204_2153852_-	pfam14081, DUF4262, Domain of unknown function (DUF4262)	NA|741aa|up_7|NZ_CP023593.1_2153858_2156081_-	PRK15061, PRK15061, catalase/peroxidase	NA|148aa|up_6|NZ_CP023593.1_2156118_2156562_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|198aa|up_5|NZ_CP023593.1_2156675_2157269_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_4|NZ_CP023593.1_2157351_2157957_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_3|NZ_CP023593.1_2158056_2159061_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_2|NZ_CP023593.1_2159160_2159913_+	cd16282, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain	NA|136aa|up_1|NZ_CP023593.1_2159890_2160298_-	NA	NA|767aa|up_0|NZ_CP023593.1_2160432_2162733_+	PLN02892, PLN02892, isocitrate lyase	NA|988aa|down_0|NZ_CP023593.1_2167616_2170580_-	pfam00823, PPE, PPE family	NA|155aa|down_1|NZ_CP023593.1_2171028_2171493_-	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_CP023593.1_2171590_2172454_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_3|NZ_CP023593.1_2172491_2173763_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_4|NZ_CP023593.1_2174034_2175150_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_5|NZ_CP023593.1_2175140_2176481_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_6|NZ_CP023593.1_2176517_2176898_-	NA	NA|621aa|down_7|NZ_CP023593.1_2177054_2178917_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_8|NZ_CP023593.1_2178924_2179404_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_9|NZ_CP023593.1_2179640_2180414_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]
GCF_002447275.1_ASM244727v1	NZ_CP023593	Mycobacterium tuberculosis strain SLM040 chromosome, complete genome	10	2168782-2169001	6	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_2|NZ_CP023593.1_2159890_2160298_-,NA|127aa|down_5|NZ_CP023593.1_2176517_2176898_-	NA|216aa|up_9|NZ_CP023593.1_2153204_2153852_-	pfam14081, DUF4262, Domain of unknown function (DUF4262)	NA|741aa|up_8|NZ_CP023593.1_2153858_2156081_-	PRK15061, PRK15061, catalase/peroxidase	NA|148aa|up_7|NZ_CP023593.1_2156118_2156562_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|198aa|up_6|NZ_CP023593.1_2156675_2157269_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_5|NZ_CP023593.1_2157351_2157957_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_4|NZ_CP023593.1_2158056_2159061_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_3|NZ_CP023593.1_2159160_2159913_+	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_CP023593.1_2159890_2160298_-	NA	NA|767aa|up_1|NZ_CP023593.1_2160432_2162733_+	PLN02892, PLN02892, isocitrate lyase	NA|1459aa|up_0|NZ_CP023593.1_2162902_2167279_-	pfam00823, PPE, PPE family	NA|155aa|down_0|NZ_CP023593.1_2171028_2171493_-	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_CP023593.1_2171590_2172454_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_2|NZ_CP023593.1_2172491_2173763_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_3|NZ_CP023593.1_2174034_2175150_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_4|NZ_CP023593.1_2175140_2176481_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_5|NZ_CP023593.1_2176517_2176898_-	NA	NA|621aa|down_6|NZ_CP023593.1_2177054_2178917_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_7|NZ_CP023593.1_2178924_2179404_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_8|NZ_CP023593.1_2179640_2180414_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]	NA|215aa|down_9|NZ_CP023593.1_2181207_2181852_-	TIGR03085, TIGR03085, TIGR03085 family protein
GCF_002447275.1_ASM244727v1	NZ_CP023593	Mycobacterium tuberculosis strain SLM040 chromosome, complete genome	11	3119120-3120474	3,7,5	PILER-CR,CRISPRCasFinder,CRT	no	c2c9_V-U4,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type III-D,Type III-B,Type III-A,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-B,TypeIII-A,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_CP023593.1_3112399_3112654_-,NA|135aa|up_7|NZ_CP023593.1_3112801_3113206_+,NA|64aa|up_6|NZ_CP023593.1_3113202_3113394_+,NA|86aa|up_4|NZ_CP023593.1_3114980_3115238_+,NA|104aa|up_3|NZ_CP023593.1_3115342_3115654_+,NA|203aa|up_2|NZ_CP023593.1_3116073_3116682_+,NA	NA|92aa|up_9|NZ_CP023593.1_3111948_3112224_+	COG4453, COG4453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|85aa|up_8|NZ_CP023593.1_3112399_3112654_-	NA	NA|135aa|up_7|NZ_CP023593.1_3112801_3113206_+	NA	NA|64aa|up_6|NZ_CP023593.1_3113202_3113394_+	NA	NA|385aa|up_5|NZ_CP023593.1_3113592_3114747_+	pfam00665, rve, Integrase core domain	NA|86aa|up_4|NZ_CP023593.1_3114980_3115238_+	NA	NA|104aa|up_3|NZ_CP023593.1_3115342_3115654_+	NA	NA|203aa|up_2|NZ_CP023593.1_3116073_3116682_+	NA	NA|470aa|up_1|NZ_CP023593.1_3116752_3118162_+	pfam00665, rve, Integrase core domain	NA|271aa|up_0|NZ_CP023593.1_3118158_3118971_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|down_0|NZ_CP023593.1_3120500_3121762_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_1|NZ_CP023593.1_3123559_3123901_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_2|NZ_CP023593.1_3123901_3124918_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm6|383aa|down_3|NZ_CP023593.1_3124930_3126079_-	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	csm5gr7|376aa|down_4|NZ_CP023593.1_3126174_3127302_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_5|NZ_CP023593.1_3127298_3128207_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_6|NZ_CP023593.1_3128187_3128898_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_7|NZ_CP023593.1_3128907_3129282_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_8|NZ_CP023593.1_3129278_3131717_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_9|NZ_CP023593.1_3131713_3132436_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]
GCF_002447275.1_ASM244727v1	NZ_CP023593	Mycobacterium tuberculosis strain SLM040 chromosome, complete genome	12	3121797-3123511	8,6,4	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-B,Type III-A,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-B,TypeIII-A,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_CP023593.1_3112399_3112654_-,NA|135aa|up_8|NZ_CP023593.1_3112801_3113206_+,NA|64aa|up_7|NZ_CP023593.1_3113202_3113394_+,NA|86aa|up_5|NZ_CP023593.1_3114980_3115238_+,NA|104aa|up_4|NZ_CP023593.1_3115342_3115654_+,NA|203aa|up_3|NZ_CP023593.1_3116073_3116682_+,NA	NA|85aa|up_9|NZ_CP023593.1_3112399_3112654_-	NA	NA|135aa|up_8|NZ_CP023593.1_3112801_3113206_+	NA	NA|64aa|up_7|NZ_CP023593.1_3113202_3113394_+	NA	NA|385aa|up_6|NZ_CP023593.1_3113592_3114747_+	pfam00665, rve, Integrase core domain	NA|86aa|up_5|NZ_CP023593.1_3114980_3115238_+	NA	NA|104aa|up_4|NZ_CP023593.1_3115342_3115654_+	NA	NA|203aa|up_3|NZ_CP023593.1_3116073_3116682_+	NA	NA|470aa|up_2|NZ_CP023593.1_3116752_3118162_+	pfam00665, rve, Integrase core domain	NA|271aa|up_1|NZ_CP023593.1_3118158_3118971_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|up_0|NZ_CP023593.1_3120500_3121762_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_0|NZ_CP023593.1_3123559_3123901_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_1|NZ_CP023593.1_3123901_3124918_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm6|383aa|down_2|NZ_CP023593.1_3124930_3126079_-	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	csm5gr7|376aa|down_3|NZ_CP023593.1_3126174_3127302_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_4|NZ_CP023593.1_3127298_3128207_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_5|NZ_CP023593.1_3128187_3128898_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_6|NZ_CP023593.1_3128907_3129282_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_7|NZ_CP023593.1_3129278_3131717_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_8|NZ_CP023593.1_3131713_3132436_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	NA|182aa|down_9|NZ_CP023593.1_3132835_3133381_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_002447275.1_ASM244727v1	NZ_CP023593	Mycobacterium tuberculosis strain SLM040 chromosome, complete genome	13	3740572-3741113	7	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGTTNCCNCCGTTGCCGCC	23	0	0	NA	NA	NA	7	7	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA|96aa|down_4|NZ_CP023593.1_3755214_3755502_-,NA|87aa|down_9|NZ_CP023593.1_3768622_3768883_-	NA|282aa|up_9|NZ_CP023593.1_3719871_3720717_-	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|147aa|up_8|NZ_CP023593.1_3721191_3721632_+	cd04770, HTH_HMRTR, Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators	NA|290aa|up_7|NZ_CP023593.1_3721665_3722535_-	TIGR00766, Uncharacterized_protein_Dda3937_02003, inner membrane protein YhjD	NA|337aa|up_6|NZ_CP023593.1_3722555_3723566_-	PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed	NA|211aa|up_5|NZ_CP023593.1_3723850_3724483_+	PRK14875, PRK14875, acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional	NA|410aa|up_4|NZ_CP023593.1_3724549_3725779_-	PRK08299, PRK08299, NADP-dependent isocitrate dehydrogenase	NA|450aa|up_3|NZ_CP023593.1_3726061_3727411_+	PRK07812, PRK07812, O-acetylhomoserine aminocarboxypropyltransferase; Validated	NA|380aa|up_2|NZ_CP023593.1_3727422_3728562_+	PRK00175, metX, homoserine O-acetyltransferase; Provisional	NA|244aa|up_1|NZ_CP023593.1_3728558_3729290_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|2524aa|up_0|NZ_CP023593.1_3729298_3736870_-	pfam00823, PPE, PPE family	NA|86aa|down_0|NZ_CP023593.1_3743084_3743342_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|3158aa|down_1|NZ_CP023593.1_3743597_3753071_-	pfam00823, PPE, PPE family	NA|149aa|down_2|NZ_CP023593.1_3753696_3754143_+	pfam01548, DEDD_Tnp_IS110, Transposase	NA|247aa|down_3|NZ_CP023593.1_3754179_3754920_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|96aa|down_4|NZ_CP023593.1_3755214_3755502_-	NA	NA|3717aa|down_5|NZ_CP023593.1_3755838_3766989_-	pfam00823, PPE, PPE family	NA|265aa|down_6|NZ_CP023593.1_3767232_3768027_-	pfam08031, BBE, Berberine and berberine like	NA|124aa|down_7|NZ_CP023593.1_3768108_3768480_-	COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production and conversion]	NA|73aa|down_8|NZ_CP023593.1_3768377_3768596_-	pfam01565, FAD_binding_4, FAD binding domain	NA|87aa|down_9|NZ_CP023593.1_3768622_3768883_-	NA
GCF_002447275.1_ASM244727v1	NZ_CP023593	Mycobacterium tuberculosis strain SLM040 chromosome, complete genome	14	3762370-3762496	5	PILER-CR	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GTTGCCGATGCCGGTGTTGAAA	22	0	0	NA	NA	NA	2	2	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|96aa|up_0|NZ_CP023593.1_3755214_3755502_-,NA|87aa|down_3|NZ_CP023593.1_3768622_3768883_-	NA|410aa|up_9|NZ_CP023593.1_3724549_3725779_-	PRK08299, PRK08299, NADP-dependent isocitrate dehydrogenase	NA|450aa|up_8|NZ_CP023593.1_3726061_3727411_+	PRK07812, PRK07812, O-acetylhomoserine aminocarboxypropyltransferase; Validated	NA|380aa|up_7|NZ_CP023593.1_3727422_3728562_+	PRK00175, metX, homoserine O-acetyltransferase; Provisional	NA|244aa|up_6|NZ_CP023593.1_3728558_3729290_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|2524aa|up_5|NZ_CP023593.1_3729298_3736870_-	pfam00823, PPE, PPE family	NA|86aa|up_4|NZ_CP023593.1_3743084_3743342_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|3158aa|up_3|NZ_CP023593.1_3743597_3753071_-	pfam00823, PPE, PPE family	NA|149aa|up_2|NZ_CP023593.1_3753696_3754143_+	pfam01548, DEDD_Tnp_IS110, Transposase	NA|247aa|up_1|NZ_CP023593.1_3754179_3754920_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|96aa|up_0|NZ_CP023593.1_3755214_3755502_-	NA	NA|265aa|down_0|NZ_CP023593.1_3767232_3768027_-	pfam08031, BBE, Berberine and berberine like	NA|124aa|down_1|NZ_CP023593.1_3768108_3768480_-	COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production and conversion]	NA|73aa|down_2|NZ_CP023593.1_3768377_3768596_-	pfam01565, FAD_binding_4, FAD binding domain	NA|87aa|down_3|NZ_CP023593.1_3768622_3768883_-	NA	NA|130aa|down_4|NZ_CP023593.1_3768997_3769387_+	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|98aa|down_5|NZ_CP023593.1_3769400_3769694_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|282aa|down_6|NZ_CP023593.1_3769690_3770536_-	PRK14193, PRK14193, bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional	NA|92aa|down_7|NZ_CP023593.1_3770659_3770935_+	COG2161, StbD, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|86aa|down_8|NZ_CP023593.1_3770931_3771189_+	pfam06769, YoeB_toxin, YoeB-like toxin of bacterial type II toxin-antitoxin system	NA|397aa|down_9|NZ_CP023593.1_3771230_3772421_+	cd02803, OYE_like_FMN_family, Old yellow enzyme (OYE)-like FMN binding domain
GCF_002447275.1_ASM244727v1	NZ_CP023593	Mycobacterium tuberculosis strain SLM040 chromosome, complete genome	15	4110552-4110640	9	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_CP023593.1_4101138_4101909_-,NA|119aa|up_3|NZ_CP023593.1_4107043_4107400_+,NA|52aa|up_2|NZ_CP023593.1_4107499_4107655_+,NA|233aa|up_0|NZ_CP023593.1_4109656_4110355_-,NA	NA|288aa|up_9|NZ_CP023593.1_4099520_4100384_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|257aa|up_8|NZ_CP023593.1_4101138_4101909_-	NA	NA|549aa|up_7|NZ_CP023593.1_4101905_4103552_-	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]	NA|288aa|up_6|NZ_CP023593.1_4103548_4104412_-	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_CP023593.1_4104404_4105331_-	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_CP023593.1_4105332_4106958_-	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_CP023593.1_4107043_4107400_+	NA	NA|52aa|up_2|NZ_CP023593.1_4107499_4107655_+	NA	NA|652aa|up_1|NZ_CP023593.1_4107665_4109621_+	PRK00174, PRK00174, acetyl-CoA synthetase; Provisional	NA|233aa|up_0|NZ_CP023593.1_4109656_4110355_-	NA	NA|173aa|down_0|NZ_CP023593.1_4110700_4111219_+	pfam07332, Phage_holin_3_6, Putative Actinobacterial Holin-X, holin superfamily III	NA|328aa|down_1|NZ_CP023593.1_4111219_4112203_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|398aa|down_2|NZ_CP023593.1_4112195_4113389_-	pfam13365, Trypsin_2, Trypsin-like peptidase domain	NA|274aa|down_3|NZ_CP023593.1_4113394_4114216_-	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_CP023593.1_4114347_4115031_-	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|246aa|down_5|NZ_CP023593.1_4115030_4115768_-	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]	NA|225aa|down_6|NZ_CP023593.1_4116351_4117026_+	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|265aa|down_7|NZ_CP023593.1_4117129_4117924_-	cd16278, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain	NA|152aa|down_8|NZ_CP023593.1_4117930_4118386_-	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	NA|54aa|down_9|NZ_CP023593.1_4118401_4118563_-	pfam13783, DUF4177, Domain of unknown function (DUF4177)
