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_001708265.1_ASM170826v1	NZ_CP016888	Mycobacterium tuberculosis strain SCAID 252.0 chromosome, complete genome	1	331810-332709	1	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGGNGCCGCCGGNN	18	1	1	331921-331941	NZ_CP016888.1_1189935-1189955	NA	18	18	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|61aa|up_0|NZ_CP016888.1_331427_331610_-,NA	NA|398aa|up_9|NZ_CP016888.1_321605_322799_-	COG3285, COG3285, Predicted eukaryotic-type DNA primase [DNA replication, recombination, and repair]	NA|561aa|up_8|NZ_CP016888.1_322834_324517_+	PRK07788, PRK07788, acyl-CoA synthetase; Validated	NA|732aa|up_7|NZ_CP016888.1_324533_326729_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_6|NZ_CP016888.1_326842_327976_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_5|NZ_CP016888.1_327972_328593_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_4|NZ_CP016888.1_328689_329271_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_3|NZ_CP016888.1_329200_329926_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_2|NZ_CP016888.1_330015_330936_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_1|NZ_CP016888.1_330975_331404_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|61aa|up_0|NZ_CP016888.1_331427_331610_-	NA	NA|886aa|down_0|NZ_CP016888.1_334774_337432_-	pfam00934, PE, PE family	NA|537aa|down_1|NZ_CP016888.1_337722_339333_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_2|NZ_CP016888.1_339356_340265_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|632aa|down_3|NZ_CP016888.1_340488_342384_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_4|NZ_CP016888.1_342380_343997_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_5|NZ_CP016888.1_343993_347986_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_6|NZ_CP016888.1_347982_348291_+	pfam00934, PE, PE family	NA|514aa|down_7|NZ_CP016888.1_348293_349835_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_8|NZ_CP016888.1_349883_350177_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|down_9|NZ_CP016888.1_350206_350497_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_001708265.1_ASM170826v1	NZ_CP016888	Mycobacterium tuberculosis strain SCAID 252.0 chromosome, complete genome	2	336096-337064	2	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGGCNCCGCCGNNGCCG	21	1	4	336936-336959|336936-336959|336936-336959|336936-336959	NZ_CP016888.1_148607-148584|NZ_CP016888.1_1216093-1216070|NZ_CP016888.1_2426522-2426545|NZ_CP016888.1_2692900-2692877	NA	11	11	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|61aa|up_1|NZ_CP016888.1_331427_331610_-,NA	NA|561aa|up_9|NZ_CP016888.1_322834_324517_+	PRK07788, PRK07788, acyl-CoA synthetase; Validated	NA|732aa|up_8|NZ_CP016888.1_324533_326729_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|378aa|up_7|NZ_CP016888.1_326842_327976_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_6|NZ_CP016888.1_327972_328593_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_5|NZ_CP016888.1_328689_329271_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_4|NZ_CP016888.1_329200_329926_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_3|NZ_CP016888.1_330015_330936_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_2|NZ_CP016888.1_330975_331404_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|61aa|up_1|NZ_CP016888.1_331427_331610_-	NA	NA|914aa|up_0|NZ_CP016888.1_331769_334511_-	pfam00934, PE, PE family	NA|537aa|down_0|NZ_CP016888.1_337722_339333_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_1|NZ_CP016888.1_339356_340265_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|632aa|down_2|NZ_CP016888.1_340488_342384_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_3|NZ_CP016888.1_342380_343997_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_4|NZ_CP016888.1_343993_347986_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_5|NZ_CP016888.1_347982_348291_+	pfam00934, PE, PE family	NA|514aa|down_6|NZ_CP016888.1_348293_349835_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_7|NZ_CP016888.1_349883_350177_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|down_8|NZ_CP016888.1_350206_350497_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]	NA|296aa|down_9|NZ_CP016888.1_350507_351395_+	pfam14011, ESX-1_EspG, EspG family
GCF_001708265.1_ASM170826v1	NZ_CP016888	Mycobacterium tuberculosis strain SCAID 252.0 chromosome, complete genome	3	364822-365520	1	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	TTCGCGAAGCCGATGTTGTAGCTGCCGGTGTTG	33	2	2	365110-365151|365185-365217	NZ_CP016888.1_373126-373167|NZ_CP016888.1_371941-371973	NA	10	10	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|101aa|up_4|NZ_CP016888.1_361834_362137_+,NA|161aa|down_1|NZ_CP016888.1_374915_375398_-,NA|410aa|down_5|NZ_CP016888.1_377514_378744_+	NA|262aa|up_9|NZ_CP016888.1_356529_357315_+	PRK14103, PRK14103, trans-aconitate 2-methyltransferase; Provisional	NA|268aa|up_8|NZ_CP016888.1_357303_358107_-	COG4424, COG4424, Uncharacterized protein conserved in bacteria [Function unknown]	NA|466aa|up_7|NZ_CP016888.1_358116_359514_-	cd16027, SGSH, N-sulfoglucosamine sulfohydrolase (SGSH; sulfamidase)	NA|592aa|up_6|NZ_CP016888.1_359692_361468_+	pfam00934, PE, PE family	NA|76aa|up_5|NZ_CP016888.1_361610_361838_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|101aa|up_4|NZ_CP016888.1_361834_362137_+	NA	NA|74aa|up_3|NZ_CP016888.1_362184_362406_+	PHA01748, PHA01748, hypothetical protein	NA|142aa|up_2|NZ_CP016888.1_362402_362828_+	cd18755, PIN_MtVapC3_VapC21-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC3, VapC21 and related proteins	NA|211aa|up_1|NZ_CP016888.1_362963_363596_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|303aa|up_0|NZ_CP016888.1_363592_364501_+	cd09810, LPOR_like_SDR_c_like, light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs	NA|224aa|down_0|NZ_CP016888.1_374256_374928_+	TIGR02476, BluB, 5,6-dimethylbenzimidazole synthase	NA|161aa|down_1|NZ_CP016888.1_374915_375398_-	NA	NA|239aa|down_2|NZ_CP016888.1_375455_376172_+	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|219aa|down_3|NZ_CP016888.1_376273_376930_+	COG3786, COG3786, Uncharacterized protein conserved in bacteria [Function unknown]	NA|164aa|down_4|NZ_CP016888.1_376999_377491_-	pfam13577, SnoaL_4, SnoaL-like domain	NA|410aa|down_5|NZ_CP016888.1_377514_378744_+	NA	NA|621aa|down_6|NZ_CP016888.1_378898_380761_+	COG0443, DnaK, Molecular chaperone [Posttranslational modification, protein turnover, chaperones]	NA|129aa|down_7|NZ_CP016888.1_380832_381219_+	COG0326, HtpG, Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]	NA|221aa|down_8|NZ_CP016888.1_381221_381884_-	pfam11259, DUF3060, Protein of unknown function (DUF3060)	NA|295aa|down_9|NZ_CP016888.1_381944_382829_+	COG2273, SKN1, Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]
GCF_001708265.1_ASM170826v1	NZ_CP016888	Mycobacterium tuberculosis strain SCAID 252.0 chromosome, complete genome	4	629676-629813	3	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGACCACGCCGGTG	18	2	3	629694-629711|629694-629711|629778-629795	NZ_CP016888.1_23824-23841|NZ_CP016888.1_1412485-1412502|NZ_CP016888.1_972209-972226	NA	3	3	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|54aa|up_7|NZ_CP016888.1_620430_620592_-,NA|478aa|up_0|NZ_CP016888.1_626691_628125_-,NA|450aa|down_2|NZ_CP016888.1_631448_632798_-,NA|93aa|down_5|NZ_CP016888.1_634328_634607_-	NA|325aa|up_9|NZ_CP016888.1_618200_619175_+	TIGR03144, cytochrome_c_biogenesis_protein_chloroplast, cytochrome c-type biogenesis protein CcsB	NA|406aa|up_8|NZ_CP016888.1_619216_620434_+	COG0455, flhG, Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]	NA|54aa|up_7|NZ_CP016888.1_620430_620592_-	NA	NA|106aa|up_6|NZ_CP016888.1_620638_620956_+	pfam14012, DUF4229, Protein of unknown function (DUF4229)	NA|623aa|up_5|NZ_CP016888.1_621102_622971_+	pfam00934, PE, PE family	NA|336aa|up_4|NZ_CP016888.1_622866_623874_-	TIGR00747, 3-oxoacyl-_synthase_3, 3-oxoacyl-(acyl-carrier-protein) synthase III	NA|293aa|up_3|NZ_CP016888.1_623955_624834_-	TIGR00751, 14-dihydroxy-2-naphthoate_octaprenyltransferase, 1,4-dihydroxy-2-naphthoate octaprenyltransferase	NA|265aa|up_2|NZ_CP016888.1_624850_625645_+	PRK07823, PRK07823, S-methyl-5'-thioadenosine phosphorylase	NA|347aa|up_1|NZ_CP016888.1_625641_626682_+	cd05256, UDP_AE_SDR_e, UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs	NA|478aa|up_0|NZ_CP016888.1_626691_628125_-	NA	NA|211aa|down_0|NZ_CP016888.1_630136_630769_+	cd04179, DPM_DPG-synthase_like, DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily	NA|221aa|down_1|NZ_CP016888.1_630765_631428_+	COG3222, COG3222, Uncharacterized protein conserved in bacteria [Function unknown]	NA|450aa|down_2|NZ_CP016888.1_631448_632798_-	NA	NA|381aa|down_3|NZ_CP016888.1_632809_633952_-	PRK07824, PRK07824, o-succinylbenzoate--CoA ligase	NA|101aa|down_4|NZ_CP016888.1_633966_634269_-	pfam11829, DUF3349, Protein of unknown function (DUF3349)	NA|93aa|down_5|NZ_CP016888.1_634328_634607_-	NA	NA|418aa|down_6|NZ_CP016888.1_634603_635857_-	COG0306, PitA, Phosphate/sulphate permeases [Inorganic ion transport and metabolism]	NA|129aa|down_7|NZ_CP016888.1_635976_636363_-	cd07264, VOC_like, uncharacterized subfamily of vicinal oxygen chelate (VOC) family	NA|295aa|down_8|NZ_CP016888.1_636425_637310_-	PRK05866, PRK05866, SDR family oxidoreductase	NA|301aa|down_9|NZ_CP016888.1_637405_638308_-	PRK08321, PRK08321, 1,4-dihydroxy-2-naphthoyl-CoA synthase
GCF_001708265.1_ASM170826v1	NZ_CP016888	Mycobacterium tuberculosis strain SCAID 252.0 chromosome, complete genome	5	690414-690490	2	CRISPRCasFinder	no	c2c9_V-U4	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Type V-U4	TGAGGTGCGGCGTGAGCGCGGGT	23	0	0	NA	NA	NA	1	1	TypeV-U4	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA,NA	NA|136aa|up_9|NZ_CP016888.1_676309_676717_+	cd18696, PIN_MtVapC26-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC26 and related proteins	NA|229aa|up_8|NZ_CP016888.1_676776_677463_-	pfam10738, Lpp-LpqN, Probable lipoprotein LpqN	NA|878aa|up_7|NZ_CP016888.1_677616_680250_+	COG3537, COG3537, Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]	NA|796aa|up_6|NZ_CP016888.1_680272_682660_-	pfam03706, LPG_synthase_TM, Lysylphosphatidylglycerol synthase TM region	NA|241aa|up_5|NZ_CP016888.1_682797_683520_+	COG2186, FadR, Transcriptional regulators [Transcription]	NA|266aa|up_4|NZ_CP016888.1_683516_684314_+	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_CP016888.1_684315_685203_+	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_CP016888.1_685208_686423_+	pfam11887, Mce4_CUP1, Cholesterol uptake porter CUP1 of Mce4, putative	NA|344aa|up_1|NZ_CP016888.1_686419_687451_+	COG1463, Ttg2C, ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|482aa|up_0|NZ_CP016888.1_687447_688893_+	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|517aa|down_0|NZ_CP016888.1_691625_693176_+	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_CP016888.1_693227_693620_-	cd18768, PIN_MtVapC4-C5-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins	NA|86aa|down_2|NZ_CP016888.1_693616_693874_-	COG4118, Phd, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|412aa|down_3|NZ_CP016888.1_694056_695292_-	COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General function prediction only]	NA|138aa|down_4|NZ_CP016888.1_695542_695956_-	cd18681, PIN_MtVapC27-VapC40_like, VapC-like PIN domain of Mycobacterium tuberculosis VapC27, and VapC40, and related proteins	NA|79aa|down_5|NZ_CP016888.1_695952_696189_-	COG2002, AbrB, Regulators of stationary/sporulation gene expression [Transcription]	NA|169aa|down_6|NZ_CP016888.1_696292_696799_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|157aa|down_7|NZ_CP016888.1_696912_697383_-	PRK10755, PRK10755, two-component system sensor histidine kinase PmrB	NA|254aa|down_8|NZ_CP016888.1_697426_698188_-	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_CP016888.1_698244_698556_+	pfam03413, PepSY, Peptidase propeptide and YPEB domain
GCF_001708265.1_ASM170826v1	NZ_CP016888	Mycobacterium tuberculosis strain SCAID 252.0 chromosome, complete genome	6	1452264-1452449	4	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCGATCGCAAGCGCGGCGGAGCCGGGT	27	0	0	NA	NA	NA	3	3	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|211aa|up_7|NZ_CP016888.1_1443192_1443825_+,NA|105aa|up_5|NZ_CP016888.1_1445539_1445854_+,NA	NA|162aa|up_9|NZ_CP016888.1_1441230_1441716_+	TIGR00738, Putative_HTH-type_transcriptional_regulator, Rrf2 family protein	NA|457aa|up_8|NZ_CP016888.1_1441773_1443144_+	COG0627, COG0627, Predicted esterase [General function prediction only]	NA|211aa|up_7|NZ_CP016888.1_1443192_1443825_+	NA	NA|522aa|up_6|NZ_CP016888.1_1443963_1445529_-	COG4325, COG4325, Predicted membrane protein [Function unknown]	NA|105aa|up_5|NZ_CP016888.1_1445539_1445854_+	NA	NA|112aa|up_4|NZ_CP016888.1_1445980_1446316_-	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|551aa|up_3|NZ_CP016888.1_1446860_1448513_+	PRK01611, argS, arginyl-tRNA synthetase; Reviewed	NA|448aa|up_2|NZ_CP016888.1_1448509_1449853_+	TIGR01048, Diaminopimelate_decarboxylase, diaminopimelate decarboxylase	NA|442aa|up_1|NZ_CP016888.1_1449856_1451182_+	PRK06349, PRK06349, homoserine dehydrogenase; Provisional	NA|361aa|up_0|NZ_CP016888.1_1451178_1452261_+	PRK07409, PRK07409, threonine synthase; Validated	NA|317aa|down_0|NZ_CP016888.1_1452466_1453417_+	COG0083, ThrB, Homoserine kinase [Amino acid transport and metabolism]	NA|603aa|down_1|NZ_CP016888.1_1453673_1455482_+	PRK12678, PRK12678, transcription termination factor Rho; Provisional	NA|81aa|down_2|NZ_CP016888.1_1455632_1455875_+	PRK00019, rpmE, 50S ribosomal protein L31; Reviewed	NA|358aa|down_3|NZ_CP016888.1_1455964_1457038_+	PRK00591, prfA, peptide chain release factor 1; Validated	NA|326aa|down_4|NZ_CP016888.1_1457034_1458012_+	PRK09328, PRK09328, N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional	NA|218aa|down_5|NZ_CP016888.1_1458027_1458681_+	COG0009, SUA5, Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]	NA|405aa|down_6|NZ_CP016888.1_1458764_1459979_+	cd06853, GT_WecA_like, This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins	NA|162aa|down_7|NZ_CP016888.1_1460235_1460721_+	pfam03899, ATP-synt_I, ATP synthase I chain	NA|251aa|down_8|NZ_CP016888.1_1460713_1461466_+	COG0356, AtpB, F0F1-type ATP synthase, subunit a [Energy production and conversion]	NA|82aa|down_9|NZ_CP016888.1_1461514_1461760_+	PRK05880, PRK05880, F0F1 ATP synthase subunit C; Validated
GCF_001708265.1_ASM170826v1	NZ_CP016888	Mycobacterium tuberculosis strain SCAID 252.0 chromosome, complete genome	7	1575691-1576763	3	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGTTGCCGCCGGCACCGCCGTCGCCGAT	32	1	1	1575891-1575912	NZ_CP016888.1_1211138-1211117	NA	15	15	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|106aa|up_7|NZ_CP016888.1_1567454_1567772_+,NA	NA|103aa|up_9|NZ_CP016888.1_1564969_1565278_+	pfam00934, PE, PE family	NA|540aa|up_8|NZ_CP016888.1_1565274_1566894_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|106aa|up_7|NZ_CP016888.1_1567454_1567772_+	NA	NA|209aa|up_6|NZ_CP016888.1_1567906_1568533_+	PRK00300, gmk, guanylate kinase; Provisional	NA|111aa|up_5|NZ_CP016888.1_1568598_1568931_+	TIGR00690, DNA-directed_RNA_polymerase_subunit_omega, DNA-directed RNA polymerase, omega subunit	NA|419aa|up_4|NZ_CP016888.1_1568946_1570203_+	PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated	NA|404aa|up_3|NZ_CP016888.1_1570330_1571542_+	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|493aa|up_2|NZ_CP016888.1_1571614_1573093_-	COG2072, TrkA, Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]	NA|462aa|up_1|NZ_CP016888.1_1573089_1574475_-	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|345aa|up_0|NZ_CP016888.1_1574552_1575587_+	smart00342, HTH_ARAC, helix_turn_helix, arabinose operon control protein	NA|134aa|down_0|NZ_CP016888.1_1577617_1578019_-	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_CP016888.1_1578015_1578273_-	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|320aa|down_2|NZ_CP016888.1_1578355_1579315_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|321aa|down_3|NZ_CP016888.1_1579339_1580302_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|201aa|down_4|NZ_CP016888.1_1580435_1581038_+	COG3714, COG3714, Predicted membrane protein [Function unknown]	NA|656aa|down_5|NZ_CP016888.1_1581118_1583086_+	PRK14873, PRK14873, primosomal protein N'	NA|275aa|down_6|NZ_CP016888.1_1583103_1583928_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|161aa|down_7|NZ_CP016888.1_1584096_1584579_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|275aa|down_8|NZ_CP016888.1_1584650_1585475_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|313aa|down_9|NZ_CP016888.1_1585671_1586610_+	PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed
GCF_001708265.1_ASM170826v1	NZ_CP016888	Mycobacterium tuberculosis strain SCAID 252.0 chromosome, complete genome	8	2077534-2077788	5	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCCNCCGTCGCCGCCNNTGCC	21	2	3	2077615-2077632|2077615-2077632|2077705-2077722	NZ_CP016888.1_399422-399405|NZ_CP016888.1_605748-605731|NZ_CP016888.1_3443966-3443949	NA	5	5	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|88aa|up_0|NZ_CP016888.1_2076893_2077157_-,NA	NA|165aa|up_9|NZ_CP016888.1_2063184_2063679_+	pfam02577, DNase-RNase, Bifunctional nuclease	NA|226aa|up_8|NZ_CP016888.1_2064085_2064763_+	cd01105, HTH_GlnR-like, Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators	NA|942aa|up_7|NZ_CP016888.1_2065121_2067947_+	PRK05367, PRK05367, aminomethyl-transferring glycine dehydrogenase	NA|287aa|up_6|NZ_CP016888.1_2068173_2069034_-	PRK03204, PRK03204, haloalkane dehalogenase; Provisional	NA|289aa|up_5|NZ_CP016888.1_2069074_2069941_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|629aa|up_4|NZ_CP016888.1_2069945_2071832_-	TIGR00976, Hypothetical_protein_Rv1835c/MT1883/Mb1866c	NA|678aa|up_3|NZ_CP016888.1_2071847_2073881_-	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_CP016888.1_2074000_2076226_-	PRK02999, PRK02999, malate synthase G; Provisional	NA|132aa|up_1|NZ_CP016888.1_2076501_2076897_-	COG1848, COG1848, Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]	NA|88aa|up_0|NZ_CP016888.1_2076893_2077157_-	NA	NA|346aa|down_0|NZ_CP016888.1_2078925_2079963_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|456aa|down_1|NZ_CP016888.1_2079962_2081330_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|479aa|down_2|NZ_CP016888.1_2081503_2082940_-	PRK07807, PRK07807, GuaB1 family IMP dehydrogenase-related protein	NA|484aa|down_3|NZ_CP016888.1_2082975_2084427_-	PRK09287, PRK09287, NADP-dependent phosphogluconate dehydrogenase	NA|317aa|down_4|NZ_CP016888.1_2084456_2085407_-	cd07326, M56_BlaR1_MecR1_like, Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase	NA|139aa|down_5|NZ_CP016888.1_2085421_2085838_-	COG3682, COG3682, Predicted transcriptional regulator [Transcription]	NA|141aa|down_6|NZ_CP016888.1_2086115_2086538_+	cd03443, PaaI_thioesterase, PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria	NA|101aa|down_7|NZ_CP016888.1_2086586_2086889_+	pfam00547, Urease_gamma, Urease, gamma subunit	NA|105aa|down_8|NZ_CP016888.1_2086885_2087200_+	PRK13202, ureB, urease subunit beta; Reviewed	NA|578aa|down_9|NZ_CP016888.1_2087199_2088933_+	PRK13206, ureC, urease subunit alpha; Reviewed
GCF_001708265.1_ASM170826v1	NZ_CP016888	Mycobacterium tuberculosis strain SCAID 252.0 chromosome, complete genome	9	2160553-2160772	4	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	GTGCCAGCCGGAATCGTGATCGGCGGAACCGTCACCGACGGAATACTCA	49	0	0	NA	NA	NA	1	1	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|136aa|up_2|NZ_CP016888.1_2149231_2149639_-,NA|127aa|down_5|NZ_CP016888.1_2168288_2168669_-	NA|155aa|up_9|NZ_CP016888.1_2142559_2143024_-	pfam14081, DUF4262, Domain of unknown function (DUF4262)	NA|741aa|up_8|NZ_CP016888.1_2143199_2145422_-	PRK15061, PRK15061, catalase/peroxidase	NA|148aa|up_7|NZ_CP016888.1_2145459_2145903_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|198aa|up_6|NZ_CP016888.1_2146016_2146610_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_5|NZ_CP016888.1_2146692_2147298_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_4|NZ_CP016888.1_2147397_2148402_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_3|NZ_CP016888.1_2148501_2149254_+	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_CP016888.1_2149231_2149639_-	NA	NA|767aa|up_1|NZ_CP016888.1_2149773_2152074_+	PLN02892, PLN02892, isocitrate lyase	NA|421aa|up_0|NZ_CP016888.1_2156128_2157390_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|155aa|down_0|NZ_CP016888.1_2162799_2163264_-	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_CP016888.1_2163361_2164225_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_2|NZ_CP016888.1_2164262_2165534_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_3|NZ_CP016888.1_2165805_2166921_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_4|NZ_CP016888.1_2166911_2168252_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_5|NZ_CP016888.1_2168288_2168669_-	NA	NA|621aa|down_6|NZ_CP016888.1_2168825_2170688_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_7|NZ_CP016888.1_2170695_2171175_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_8|NZ_CP016888.1_2171411_2172185_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]	NA|256aa|down_9|NZ_CP016888.1_2172188_2172956_-	PRK05867, PRK05867, SDR family oxidoreductase
GCF_001708265.1_ASM170826v1	NZ_CP016888	Mycobacterium tuberculosis strain SCAID 252.0 chromosome, complete genome	10	3117451-3118598	1,5,6	PILER-CR,CRISPRCasFinder,CRT	no	c2c9_V-U4,csm3gr7,csm2gr11,cas10,cas6	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Type III-A,Type III-B,Type III-C,Type III-D	GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGA,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,NNNNNNNNGTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC	35,36,44	1	1	3118522-3118562	NZ_CP016888.1_1985301-1985261	II-B,III-A:II-B,III-A:II-B,III-A	14,14,15	15	TypeIII-A,TypeIII-B,TypeIII-C,TypeIII-D	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_8|NZ_CP016888.1_3110730_3110985_-,NA|135aa|up_7|NZ_CP016888.1_3111132_3111537_+,NA|64aa|up_6|NZ_CP016888.1_3111533_3111725_+,NA|86aa|up_4|NZ_CP016888.1_3113311_3113569_+,NA|104aa|up_3|NZ_CP016888.1_3113673_3113985_+,NA|203aa|up_2|NZ_CP016888.1_3114404_3115013_+,NA	NA|92aa|up_9|NZ_CP016888.1_3110279_3110555_+	COG4453, COG4453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|85aa|up_8|NZ_CP016888.1_3110730_3110985_-	NA	NA|135aa|up_7|NZ_CP016888.1_3111132_3111537_+	NA	NA|64aa|up_6|NZ_CP016888.1_3111533_3111725_+	NA	NA|385aa|up_5|NZ_CP016888.1_3111923_3113078_+	pfam00665, rve, Integrase core domain	NA|86aa|up_4|NZ_CP016888.1_3113311_3113569_+	NA	NA|104aa|up_3|NZ_CP016888.1_3113673_3113985_+	NA	NA|203aa|up_2|NZ_CP016888.1_3114404_3115013_+	NA	NA|470aa|up_1|NZ_CP016888.1_3115083_3116493_+	pfam00665, rve, Integrase core domain	NA|271aa|up_0|NZ_CP016888.1_3116489_3117302_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|down_0|NZ_CP016888.1_3118629_3119891_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	csm3gr7|237aa|down_1|NZ_CP016888.1_3120254_3120965_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_2|NZ_CP016888.1_3120974_3121349_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_3|NZ_CP016888.1_3121345_3123784_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|315aa|down_4|NZ_CP016888.1_3123780_3124725_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	NA|182aa|down_5|NZ_CP016888.1_3124902_3125448_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]	NA|295aa|down_6|NZ_CP016888.1_3125719_3126604_-	COG2253, COG2253, Uncharacterized conserved protein [Function unknown]	NA|296aa|down_7|NZ_CP016888.1_3126606_3127494_-	pfam09407, AbiEi_1, AbiEi antitoxin C-terminal domain	NA|182aa|down_8|NZ_CP016888.1_3127798_3128344_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]	NA|90aa|down_9|NZ_CP016888.1_3128340_3128610_-	COG5552, COG5552, Uncharacterized conserved protein [Function unknown]
GCF_001708265.1_ASM170826v1	NZ_CP016888	Mycobacterium tuberculosis strain SCAID 252.0 chromosome, complete genome	11	3662705-3662823	6	CRISPRCasFinder	no	cas3	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Unclear	GCCCCTGTGAGTCGAGTGAGCGGAACGAAC	30	1	1	3662735-3662793	NZ_CP016888.1_3662798-3662856	NA	1	1	Unclear	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA,NA|138aa|down_6|NZ_CP016888.1_3668456_3668870_-,NA|126aa|down_7|NZ_CP016888.1_3668904_3669282_-	NA|719aa|up_9|NZ_CP016888.1_3649531_3651688_+	COG2217, ZntA, Cation transport ATPase [Inorganic ion transport and metabolism]	NA|223aa|up_8|NZ_CP016888.1_3651684_3652353_-	COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]	NA|395aa|up_7|NZ_CP016888.1_3652453_3653638_+	pfam02515, CoA_transf_3, CoA-transferase family III	NA|765aa|up_6|NZ_CP016888.1_3653642_3655937_+	COG0659, SUL1, Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]	NA|390aa|up_5|NZ_CP016888.1_3655925_3657095_-	cd01158, SCAD_SBCAD, Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases	NA|175aa|up_4|NZ_CP016888.1_3657119_3657644_-	PLN02948, PLN02948, phosphoribosylaminoimidazole carboxylase	NA|430aa|up_3|NZ_CP016888.1_3657640_3658930_-	TIGR01161, N5-carboxyaminoimidazole_ribonucleotide_synthase, phosphoribosylaminoimidazole carboxylase, PurK protein	NA|273aa|up_2|NZ_CP016888.1_3658883_3659702_+	COG2246, COG2246, Predicted membrane protein [Function unknown]	NA|173aa|up_1|NZ_CP016888.1_3659656_3660175_-	pfam03703, bPH_2, Bacterial PH domain	NA|267aa|up_0|NZ_CP016888.1_3660217_3661018_-	COG0340, BirA, Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]	NA|223aa|down_0|NZ_CP016888.1_3663089_3663758_+	PRK00148, PRK00148, Maf-like protein; Reviewed	NA|298aa|down_1|NZ_CP016888.1_3663798_3664692_+	COG2897, SseA, Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]	NA|144aa|down_2|NZ_CP016888.1_3664688_3665120_+	COG2166, sufE, Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]	NA|601aa|down_3|NZ_CP016888.1_3665227_3667030_+	COG4770, COG4770, Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]	NA|262aa|down_4|NZ_CP016888.1_3667039_3667825_-	PRK07122, PRK07122, RNA polymerase sigma factor SigF; Reviewed	NA|146aa|down_5|NZ_CP016888.1_3667821_3668259_-	COG2172, RsbW, Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]	NA|138aa|down_6|NZ_CP016888.1_3668456_3668870_-	NA	NA|126aa|down_7|NZ_CP016888.1_3668904_3669282_-	NA	NA|450aa|down_8|NZ_CP016888.1_3669315_3670665_-	PRK08297, PRK08297, L-lysine aminotransferase; Provisional	NA|151aa|down_9|NZ_CP016888.1_3670715_3671168_-	smart00344, HTH_ASNC, helix_turn_helix ASNC type
GCF_001708265.1_ASM170826v1	NZ_CP016888	Mycobacterium tuberculosis strain SCAID 252.0 chromosome, complete genome	12	3746870-3747446	7	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCCGCCGTTGCCNCCGNNGCCGCCG	25	0	0	NA	NA	NA	7	7	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA,NA|96aa|down_4|NZ_CP016888.1_3761678_3761966_-,NA|87aa|down_8|NZ_CP016888.1_3775085_3775346_-	NA|384aa|up_9|NZ_CP016888.1_3721323_3722475_+	COG1820, NagA, N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]	NA|282aa|up_8|NZ_CP016888.1_3722665_3723511_-	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|147aa|up_7|NZ_CP016888.1_3723985_3724426_+	cd04770, HTH_HMRTR, Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators	NA|290aa|up_6|NZ_CP016888.1_3724459_3725329_-	TIGR00766, Uncharacterized_protein_Dda3937_02003, inner membrane protein YhjD	NA|337aa|up_5|NZ_CP016888.1_3725349_3726360_-	PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed	NA|211aa|up_4|NZ_CP016888.1_3726644_3727277_+	PRK14875, PRK14875, acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional	NA|410aa|up_3|NZ_CP016888.1_3727343_3728573_-	PRK08299, PRK08299, NADP-dependent isocitrate dehydrogenase	NA|450aa|up_2|NZ_CP016888.1_3728855_3730205_+	PRK07812, PRK07812, O-acetylhomoserine aminocarboxypropyltransferase; Validated	NA|380aa|up_1|NZ_CP016888.1_3730216_3731356_+	PRK00175, metX, homoserine O-acetyltransferase; Provisional	NA|244aa|up_0|NZ_CP016888.1_3731352_3732084_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|86aa|down_0|NZ_CP016888.1_3749548_3749806_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|3158aa|down_1|NZ_CP016888.1_3750061_3759535_-	pfam00823, PPE, PPE family	NA|149aa|down_2|NZ_CP016888.1_3760160_3760607_+	pfam01548, DEDD_Tnp_IS110, Transposase	NA|273aa|down_3|NZ_CP016888.1_3760643_3761462_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|96aa|down_4|NZ_CP016888.1_3761678_3761966_-	NA	NA|265aa|down_5|NZ_CP016888.1_3773695_3774490_-	pfam08031, BBE, Berberine and berberine like	NA|124aa|down_6|NZ_CP016888.1_3774571_3774943_-	COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production and conversion]	NA|137aa|down_7|NZ_CP016888.1_3774840_3775251_-	pfam01565, FAD_binding_4, FAD binding domain	NA|87aa|down_8|NZ_CP016888.1_3775085_3775346_-	NA	NA|130aa|down_9|NZ_CP016888.1_3775460_3775850_+	pfam05305, DUF732, Protein of unknown function (DUF732)
GCF_001708265.1_ASM170826v1	NZ_CP016888	Mycobacterium tuberculosis strain SCAID 252.0 chromosome, complete genome	13	3857734-3857823	7	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCAGGCGTTGGGCTGGCTGCCGAT	24	0	0	NA	NA	NA	1	1	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|77aa|up_8|NZ_CP016888.1_3849759_3849990_+,NA|121aa|up_7|NZ_CP016888.1_3850093_3850456_-,NA|56aa|up_3|NZ_CP016888.1_3854036_3854204_-,NA|73aa|up_1|NZ_CP016888.1_3855788_3856007_-,NA|121aa|down_0|NZ_CP016888.1_3858808_3859171_-,NA|52aa|down_2|NZ_CP016888.1_3861012_3861168_-,NA|52aa|down_3|NZ_CP016888.1_3861192_3861348_-	NA|409aa|up_9|NZ_CP016888.1_3848573_3849800_-	PRK00053, alr, alanine racemase; Reviewed	NA|77aa|up_8|NZ_CP016888.1_3849759_3849990_+	NA	NA|121aa|up_7|NZ_CP016888.1_3850093_3850456_-	NA	NA|177aa|up_6|NZ_CP016888.1_3851414_3851945_+	pfam00823, PPE, PPE family	NA|252aa|up_5|NZ_CP016888.1_3852262_3853018_-	COG1484, DnaC, DNA replication protein [DNA replication, recombination, and repair]	NA|337aa|up_4|NZ_CP016888.1_3853101_3854112_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|56aa|up_3|NZ_CP016888.1_3854036_3854204_-	NA	NA|553aa|up_2|NZ_CP016888.1_3854137_3855796_-	COG4584, COG4584, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|73aa|up_1|NZ_CP016888.1_3855788_3856007_-	NA	NA|181aa|up_0|NZ_CP016888.1_3856897_3857440_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|121aa|down_0|NZ_CP016888.1_3858808_3859171_-	NA	NA|179aa|down_1|NZ_CP016888.1_3859333_3859870_+	pfam00823, PPE, PPE family	NA|52aa|down_2|NZ_CP016888.1_3861012_3861168_-	NA	NA|52aa|down_3|NZ_CP016888.1_3861192_3861348_-	NA	NA|461aa|down_4|NZ_CP016888.1_3862540_3863923_-	TIGR01788, Glutamate_decarboxylase_alpha_GAD-alpha	NA|474aa|down_5|NZ_CP016888.1_3863960_3865382_-	pfam01256, Carb_kinase, Carbohydrate kinase	NA|285aa|down_6|NZ_CP016888.1_3866072_3866927_-	pfam14494, DUF4436, Domain of unknown function (DUF4436)	NA|625aa|down_7|NZ_CP016888.1_3867148_3869023_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|159aa|down_8|NZ_CP016888.1_3869044_3869521_+	pfam10708, DUF2510, Protein of unknown function (DUF2510)	NA|281aa|down_9|NZ_CP016888.1_3869530_3870373_+	pfam12740, Chlorophyllase2, Chlorophyllase enzyme
GCF_001708265.1_ASM170826v1	NZ_CP016888	Mycobacterium tuberculosis strain SCAID 252.0 chromosome, complete genome	14	3975517-3977136	8	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	CNCCGGCGGNACCGGCGGCNNNGGCGGCNCCGGCGG	36	1	8	3976119-3976154|3976119-3976154|3976119-3976154|3976119-3976154|3976119-3976154|3976119-3976154|3976119-3976154|3976119-3976154	NZ_CP016888.1_3973926-3973961|NZ_CP016888.1_3974269-3974304|NZ_CP016888.1_3974619-3974654|NZ_CP016888.1_3974979-3975014|NZ_CP016888.1_3975156-3975191|NZ_CP016888.1_3975508-3975543|NZ_CP016888.1_3960148-3960183|NZ_CP016888.1_3945114-3945149	NA	20	20	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA,NA|280aa|down_2|NZ_CP016888.1_3980604_3981444_+	NA|401aa|up_9|NZ_CP016888.1_3934663_3935866_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|374aa|up_8|NZ_CP016888.1_3935890_3937012_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|503aa|up_7|NZ_CP016888.1_3937082_3938591_+	PRK07867, PRK07867, acyl-CoA synthetase; Validated	NA|1393aa|up_6|NZ_CP016888.1_3938761_3942940_+	pfam00934, PE, PE family	NA|516aa|up_5|NZ_CP016888.1_3948253_3949801_-	PRK07586, PRK07586, acetolactate synthase large subunit	NA|279aa|up_4|NZ_CP016888.1_3949797_3950634_-	COG2159, COG2159, Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]	NA|219aa|up_3|NZ_CP016888.1_3957647_3958304_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|516aa|up_2|NZ_CP016888.1_3964003_3965551_-	PRK07586, PRK07586, acetolactate synthase large subunit	NA|279aa|up_1|NZ_CP016888.1_3965547_3966384_-	COG2159, COG2159, Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]	NA|219aa|up_0|NZ_CP016888.1_3971955_3972612_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|549aa|down_0|NZ_CP016888.1_3977997_3979644_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|264aa|down_1|NZ_CP016888.1_3979717_3980509_+	PRK07799, PRK07799, crotonase/enoyl-CoA hydratase family protein	NA|280aa|down_2|NZ_CP016888.1_3980604_3981444_+	NA	NA|399aa|down_3|NZ_CP016888.1_3981498_3982695_-	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|237aa|down_4|NZ_CP016888.1_3982723_3983434_+	pfam06314, ADC, Acetoacetate decarboxylase (ADC)	NA|348aa|down_5|NZ_CP016888.1_3983498_3984542_-	TIGR03559, F420_Rv3520c, probable F420-dependent oxidoreductase, Rv3520c family	NA|304aa|down_6|NZ_CP016888.1_3984694_3985606_+	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]	NA|355aa|down_7|NZ_CP016888.1_3985621_3986686_+	PRK07937, PRK07937, lipid-transfer protein; Provisional	NA|395aa|down_8|NZ_CP016888.1_3986702_3987887_+	PRK08313, PRK08313, thiolase domain-containing protein	NA|344aa|down_9|NZ_CP016888.1_3987928_3988960_+	cd14952, NHL_PKND_like, NHL repeat domain of the protein kinase PknD
GCF_001708265.1_ASM170826v1	NZ_CP016888	Mycobacterium tuberculosis strain SCAID 252.0 chromosome, complete genome	15	4138204-4138292	8	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCTCGGCGACGATGCGGGCCGGATGACGGCC	31	0	0	NA	NA	NA	1	1	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|257aa|up_8|NZ_CP016888.1_4128790_4129561_-,NA|119aa|up_3|NZ_CP016888.1_4134695_4135052_+,NA|52aa|up_2|NZ_CP016888.1_4135151_4135307_+,NA|233aa|up_0|NZ_CP016888.1_4137308_4138007_-,NA|126aa|down_6|NZ_CP016888.1_4143527_4143905_+	NA|288aa|up_9|NZ_CP016888.1_4127172_4128036_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|257aa|up_8|NZ_CP016888.1_4128790_4129561_-	NA	NA|549aa|up_7|NZ_CP016888.1_4129557_4131204_-	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]	NA|288aa|up_6|NZ_CP016888.1_4131200_4132064_-	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_CP016888.1_4132056_4132983_-	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_CP016888.1_4132984_4134610_-	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_CP016888.1_4134695_4135052_+	NA	NA|52aa|up_2|NZ_CP016888.1_4135151_4135307_+	NA	NA|652aa|up_1|NZ_CP016888.1_4135317_4137273_+	PRK00174, PRK00174, acetyl-CoA synthetase; Provisional	NA|233aa|up_0|NZ_CP016888.1_4137308_4138007_-	NA	NA|173aa|down_0|NZ_CP016888.1_4138352_4138871_+	pfam07332, Phage_holin_3_6, Putative Actinobacterial Holin-X, holin superfamily III	NA|328aa|down_1|NZ_CP016888.1_4138871_4139855_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|398aa|down_2|NZ_CP016888.1_4139847_4141041_-	pfam13365, Trypsin_2, Trypsin-like peptidase domain	NA|274aa|down_3|NZ_CP016888.1_4141046_4141868_-	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_CP016888.1_4141999_4142683_-	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|246aa|down_5|NZ_CP016888.1_4142682_4143420_-	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]	NA|126aa|down_6|NZ_CP016888.1_4143527_4143905_+	NA	NA|225aa|down_7|NZ_CP016888.1_4144003_4144678_+	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|265aa|down_8|NZ_CP016888.1_4144783_4145578_-	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_CP016888.1_4145584_4146040_-	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
