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_002357955.1_ASM235795v1	NZ_AP018035	Mycobacterium tuberculosis strain HN-321	1	367020-367718	1	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	TTCGCGAAGCCGATGTTGTAGCTGCCGGTGTTG	33	2	2	367308-367349|367383-367415	NZ_AP018035.1_375324-375365|NZ_AP018035.1_374139-374171	NA	10	10	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|101aa|up_4|NZ_AP018035.1_364032_364335_+,NA|161aa|down_1|NZ_AP018035.1_377113_377596_-,NA|410aa|down_5|NZ_AP018035.1_379712_380942_+	NA|262aa|up_9|NZ_AP018035.1_358727_359513_+	PRK14103, PRK14103, trans-aconitate 2-methyltransferase; Provisional	NA|268aa|up_8|NZ_AP018035.1_359501_360305_-	COG4424, COG4424, Uncharacterized protein conserved in bacteria [Function unknown]	NA|466aa|up_7|NZ_AP018035.1_360314_361712_-	cd16027, SGSH, N-sulfoglucosamine sulfohydrolase (SGSH; sulfamidase)	NA|592aa|up_6|NZ_AP018035.1_361890_363666_+	pfam00934, PE, PE family	NA|76aa|up_5|NZ_AP018035.1_363808_364036_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|101aa|up_4|NZ_AP018035.1_364032_364335_+	NA	NA|74aa|up_3|NZ_AP018035.1_364382_364604_+	PHA01748, PHA01748, hypothetical protein	NA|142aa|up_2|NZ_AP018035.1_364600_365026_+	cd18755, PIN_MtVapC3_VapC21-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC3, VapC21 and related proteins	NA|211aa|up_1|NZ_AP018035.1_365161_365794_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|303aa|up_0|NZ_AP018035.1_365790_366699_+	cd09810, LPOR_like_SDR_c_like, light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs	NA|224aa|down_0|NZ_AP018035.1_376454_377126_+	TIGR02476, BluB, 5,6-dimethylbenzimidazole synthase	NA|161aa|down_1|NZ_AP018035.1_377113_377596_-	NA	NA|239aa|down_2|NZ_AP018035.1_377653_378370_+	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|219aa|down_3|NZ_AP018035.1_378471_379128_+	COG3786, COG3786, Uncharacterized protein conserved in bacteria [Function unknown]	NA|164aa|down_4|NZ_AP018035.1_379197_379689_-	pfam13577, SnoaL_4, SnoaL-like domain	NA|410aa|down_5|NZ_AP018035.1_379712_380942_+	NA	NA|621aa|down_6|NZ_AP018035.1_381096_382959_+	COG0443, DnaK, Molecular chaperone [Posttranslational modification, protein turnover, chaperones]	NA|129aa|down_7|NZ_AP018035.1_383030_383417_+	COG0326, HtpG, Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]	NA|212aa|down_8|NZ_AP018035.1_383419_384055_-	pfam11259, DUF3060, Protein of unknown function (DUF3060)	NA|295aa|down_9|NZ_AP018035.1_384142_385027_+	COG2273, SKN1, Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]
GCF_002357955.1_ASM235795v1	NZ_AP018035	Mycobacterium tuberculosis strain HN-321	2	631825-631962	1	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGACCACGCCGGTG	18	2	3	631843-631860|631843-631860|631927-631944	NZ_AP018035.1_23824-23841|NZ_AP018035.1_1415890-1415907|NZ_AP018035.1_977058-977075	NA	3	3	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|54aa|up_7|NZ_AP018035.1_622570_622732_-,NA|478aa|up_0|NZ_AP018035.1_628840_630274_-,NA|450aa|down_2|NZ_AP018035.1_633597_634947_-,NA|93aa|down_5|NZ_AP018035.1_636477_636756_-	NA|325aa|up_9|NZ_AP018035.1_620340_621315_+	TIGR03144, cytochrome_c_biogenesis_protein_chloroplast, cytochrome c-type biogenesis protein CcsB	NA|406aa|up_8|NZ_AP018035.1_621356_622574_+	COG0455, flhG, Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]	NA|54aa|up_7|NZ_AP018035.1_622570_622732_-	NA	NA|106aa|up_6|NZ_AP018035.1_622778_623096_+	pfam14012, DUF4229, Protein of unknown function (DUF4229)	NA|626aa|up_5|NZ_AP018035.1_623242_625120_+	pfam00934, PE, PE family	NA|336aa|up_4|NZ_AP018035.1_625015_626023_-	TIGR00747, 3-oxoacyl-_synthase_3, 3-oxoacyl-(acyl-carrier-protein) synthase III	NA|293aa|up_3|NZ_AP018035.1_626104_626983_-	TIGR00751, 14-dihydroxy-2-naphthoate_octaprenyltransferase, 1,4-dihydroxy-2-naphthoate octaprenyltransferase	NA|265aa|up_2|NZ_AP018035.1_626999_627794_+	PRK07823, PRK07823, S-methyl-5'-thioadenosine phosphorylase	NA|347aa|up_1|NZ_AP018035.1_627790_628831_+	cd05256, UDP_AE_SDR_e, UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs	NA|478aa|up_0|NZ_AP018035.1_628840_630274_-	NA	NA|211aa|down_0|NZ_AP018035.1_632285_632918_+	cd04179, DPM_DPG-synthase_like, DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily	NA|221aa|down_1|NZ_AP018035.1_632914_633577_+	COG3222, COG3222, Uncharacterized protein conserved in bacteria [Function unknown]	NA|450aa|down_2|NZ_AP018035.1_633597_634947_-	NA	NA|381aa|down_3|NZ_AP018035.1_634958_636101_-	PRK07824, PRK07824, o-succinylbenzoate--CoA ligase	NA|101aa|down_4|NZ_AP018035.1_636115_636418_-	pfam11829, DUF3349, Protein of unknown function (DUF3349)	NA|93aa|down_5|NZ_AP018035.1_636477_636756_-	NA	NA|418aa|down_6|NZ_AP018035.1_636752_638006_-	COG0306, PitA, Phosphate/sulphate permeases [Inorganic ion transport and metabolism]	NA|129aa|down_7|NZ_AP018035.1_638125_638512_-	cd07264, VOC_like, uncharacterized subfamily of vicinal oxygen chelate (VOC) family	NA|295aa|down_8|NZ_AP018035.1_638574_639459_-	PRK05866, PRK05866, SDR family oxidoreductase	NA|301aa|down_9|NZ_AP018035.1_639554_640457_-	PRK08321, PRK08321, 1,4-dihydroxy-2-naphthoyl-CoA synthase
GCF_002357955.1_ASM235795v1	NZ_AP018035	Mycobacterium tuberculosis strain HN-321	3	692569-692645	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_AP018035.1_678464_678872_+	cd18696, PIN_MtVapC26-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC26 and related proteins	NA|229aa|up_8|NZ_AP018035.1_678931_679618_-	pfam10738, Lpp-LpqN, Probable lipoprotein LpqN	NA|878aa|up_7|NZ_AP018035.1_679771_682405_+	COG3537, COG3537, Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]	NA|796aa|up_6|NZ_AP018035.1_682427_684815_-	pfam03706, LPG_synthase_TM, Lysylphosphatidylglycerol synthase TM region	NA|241aa|up_5|NZ_AP018035.1_684952_685675_+	COG2186, FadR, Transcriptional regulators [Transcription]	NA|266aa|up_4|NZ_AP018035.1_685671_686469_+	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_AP018035.1_686470_687358_+	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_AP018035.1_687363_688578_+	pfam11887, Mce4_CUP1, Cholesterol uptake porter CUP1 of Mce4, putative	NA|344aa|up_1|NZ_AP018035.1_688574_689606_+	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_AP018035.1_689602_691048_+	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|517aa|down_0|NZ_AP018035.1_693780_695331_+	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_AP018035.1_695382_695775_-	cd18768, PIN_MtVapC4-C5-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins	NA|86aa|down_2|NZ_AP018035.1_695771_696029_-	COG4118, Phd, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|412aa|down_3|NZ_AP018035.1_696211_697447_-	COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General function prediction only]	NA|138aa|down_4|NZ_AP018035.1_697697_698111_-	cd18681, PIN_MtVapC27-VapC40_like, VapC-like PIN domain of Mycobacterium tuberculosis VapC27, and VapC40, and related proteins	NA|79aa|down_5|NZ_AP018035.1_698107_698344_-	COG2002, AbrB, Regulators of stationary/sporulation gene expression [Transcription]	NA|169aa|down_6|NZ_AP018035.1_698447_698954_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|157aa|down_7|NZ_AP018035.1_699067_699538_-	PRK10755, PRK10755, two-component system sensor histidine kinase PmrB	NA|254aa|down_8|NZ_AP018035.1_699581_700343_-	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_AP018035.1_700399_700711_+	pfam03413, PepSY, Peptidase propeptide and YPEB domain
GCF_002357955.1_ASM235795v1	NZ_AP018035	Mycobacterium tuberculosis strain HN-321	4	927852-928799	2	CRT	no	csa3	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Type I-A	CGGGGCCGGCGGNNCCGGCGG	21	1	3	928635-928670|928635-928670|928635-928670	NZ_AP018035.1_675671-675636|NZ_AP018035.1_1217733-1217768|NZ_AP018035.1_2428213-2428178	NA	19	19	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA,NA|184aa|down_2|NZ_AP018035.1_932809_933361_-,NA|81aa|down_8|NZ_AP018035.1_941401_941644_+	NA|685aa|up_9|NZ_AP018035.1_915491_917546_-	TIGR00350, Transcriptional_regulator_LytR, cell envelope-related function transcriptional attenuator common domain	NA|389aa|up_8|NZ_AP018035.1_917711_918878_-	TIGR00737, Probable_tRNA-dihydrouridine_synthase, putative TIM-barrel protein, nifR3 family	NA|339aa|up_7|NZ_AP018035.1_918965_919982_-	cd01050, Acyl_ACP_Desat, Acyl ACP desaturase, ferritin-like diiron-binding domain	NA|214aa|up_6|NZ_AP018035.1_920143_920785_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|352aa|up_5|NZ_AP018035.1_920865_921921_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	csa3|131aa|up_4|NZ_AP018035.1_921972_922365_-	smart00418, HTH_ARSR, helix_turn_helix, Arsenical Resistance Operon Repressor	NA|141aa|up_3|NZ_AP018035.1_922422_922845_-	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|97aa|up_2|NZ_AP018035.1_922806_923097_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|302aa|up_1|NZ_AP018035.1_923201_924107_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|272aa|up_0|NZ_AP018035.1_924125_924941_-	TIGR04255, hypothetical_protein, TIGR04255 family protein	NA|883aa|down_0|NZ_AP018035.1_929068_931717_-	pfam00934, PE, PE family	NA|215aa|down_1|NZ_AP018035.1_932184_932829_+	pfam14032, PknH_C, PknH-like extracellular domain	NA|184aa|down_2|NZ_AP018035.1_932809_933361_-	NA	NA|241aa|down_3|NZ_AP018035.1_933441_934164_-	COG4849, COG4849, Predicted nucleotidyltransferase [General function prediction    only]	NA|343aa|down_4|NZ_AP018035.1_934234_935263_-	COG4861, COG4861, Uncharacterized protein conserved in bacteria [Function unknown]	NA|257aa|down_5|NZ_AP018035.1_935951_936722_+	pfam01427, Peptidase_M15, D-ala-D-ala dipeptidase	NA|271aa|down_6|NZ_AP018035.1_936808_937621_+	pfam13847, Methyltransf_31, Methyltransferase domain	NA|421aa|down_7|NZ_AP018035.1_938400_939662_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|81aa|down_8|NZ_AP018035.1_941401_941644_+	NA	NA|431aa|down_9|NZ_AP018035.1_941920_943213_+	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily
GCF_002357955.1_ASM235795v1	NZ_AP018035	Mycobacterium tuberculosis strain HN-321	5	1577589-1578661	3	CRISPRCasFinder	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGTTGCCGCCGGCACCGCCGTCGCCGAT	32	1	1	1577789-1577810	NZ_AP018035.1_1216059-1216038	NA	15	15	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|191aa|up_7|NZ_AP018035.1_1569097_1569670_+,NA	NA|103aa|up_9|NZ_AP018035.1_1566867_1567176_+	pfam00934, PE, PE family	NA|540aa|up_8|NZ_AP018035.1_1567172_1568792_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|191aa|up_7|NZ_AP018035.1_1569097_1569670_+	NA	NA|209aa|up_6|NZ_AP018035.1_1569804_1570431_+	PRK00300, gmk, guanylate kinase; Provisional	NA|111aa|up_5|NZ_AP018035.1_1570496_1570829_+	TIGR00690, DNA-directed_RNA_polymerase_subunit_omega, DNA-directed RNA polymerase, omega subunit	NA|419aa|up_4|NZ_AP018035.1_1570844_1572101_+	PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated	NA|404aa|up_3|NZ_AP018035.1_1572228_1573440_+	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|493aa|up_2|NZ_AP018035.1_1573512_1574991_-	COG2072, TrkA, Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]	NA|462aa|up_1|NZ_AP018035.1_1574987_1576373_-	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|345aa|up_0|NZ_AP018035.1_1576450_1577485_+	smart00342, HTH_ARAC, helix_turn_helix, arabinose operon control protein	NA|134aa|down_0|NZ_AP018035.1_1579515_1579917_-	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_AP018035.1_1579913_1580171_-	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|320aa|down_2|NZ_AP018035.1_1580253_1581213_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|321aa|down_3|NZ_AP018035.1_1581237_1582200_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|201aa|down_4|NZ_AP018035.1_1582333_1582936_+	COG3714, COG3714, Predicted membrane protein [Function unknown]	NA|656aa|down_5|NZ_AP018035.1_1583016_1584984_+	PRK14873, PRK14873, primosomal protein N'	NA|275aa|down_6|NZ_AP018035.1_1585001_1585826_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|161aa|down_7|NZ_AP018035.1_1585994_1586477_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|275aa|down_8|NZ_AP018035.1_1586548_1587373_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|313aa|down_9|NZ_AP018035.1_1587569_1588508_+	PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed
GCF_002357955.1_ASM235795v1	NZ_AP018035	Mycobacterium tuberculosis strain HN-321	6	2049090-2050058	3	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	NCCGCCGGCNCCGCCGGC	18	1	2	2049825-2049845|2049825-2049845	NZ_AP018035.1_1094840-1094820|NZ_AP018035.1_3808194-3808174	NA	15	15	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|222aa|up_2|NZ_AP018035.1_2045349_2046015_+,NA	NA|410aa|up_9|NZ_AP018035.1_2037742_2038972_+	pfam00823, PPE, PPE family	NA|469aa|up_8|NZ_AP018035.1_2039103_2040510_+	pfam00823, PPE, PPE family	NA|119aa|up_7|NZ_AP018035.1_2040754_2041111_+	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|235aa|up_6|NZ_AP018035.1_2041264_2041969_+	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|401aa|up_5|NZ_AP018035.1_2041978_2043181_-	COG1252, Ndh, NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]	NA|144aa|up_4|NZ_AP018035.1_2043502_2043934_-	pfam13827, DUF4189, Domain of unknown function (DUF4189)	NA|301aa|up_3|NZ_AP018035.1_2044342_2045245_+	COG3000, ERG3, Sterol desaturase [Lipid metabolism]	NA|222aa|up_2|NZ_AP018035.1_2045349_2046015_+	NA	NA|235aa|up_1|NZ_AP018035.1_2046077_2046782_+	pfam13305, WHG, WHG domain	NA|488aa|up_0|NZ_AP018035.1_2047416_2048880_+	PRK07121, PRK07121, FAD-binding protein	NA|640aa|down_0|NZ_AP018035.1_2050621_2052541_-	COG4178, COG4178, ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]	NA|548aa|down_1|NZ_AP018035.1_2052611_2054255_+	PRK05858, PRK05858, acetolactate synthase	NA|809aa|down_2|NZ_AP018035.1_2054269_2056696_+	PRK12326, PRK12326, preprotein translocase subunit SecA; Reviewed	NA|210aa|down_3|NZ_AP018035.1_2056892_2057522_+	COG0558, PgsA, Phosphatidylglycerophosphate synthase [Lipid metabolism]	NA|308aa|down_4|NZ_AP018035.1_2057514_2058438_+	COG3879, COG3879, Uncharacterized protein conserved in bacteria [Function unknown]	NA|122aa|down_5|NZ_AP018035.1_2058466_2058832_+	COG3856, Sbp, Uncharacterized conserved protein (small basic protein) [Function unknown]	NA|293aa|down_6|NZ_AP018035.1_2058848_2059727_+	COG3879, COG3879, Uncharacterized protein conserved in bacteria [Function unknown]	NA|135aa|down_7|NZ_AP018035.1_2059764_2060169_+	PRK01202, PRK01202, glycine cleavage system protein GcvH	NA|163aa|down_8|NZ_AP018035.1_2060408_2060897_+	COG1716, COG1716, FOG: FHA domain [Signal transduction mechanisms]	NA|248aa|down_9|NZ_AP018035.1_2060893_2061637_+	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators
GCF_002357955.1_ASM235795v1	NZ_AP018035	Mycobacterium tuberculosis strain HN-321	7	2076102-2076356	4	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	GCCNCCGTCGCCGCCNNTGCC	21	2	3	2076183-2076200|2076183-2076200|2076273-2076290	NZ_AP018035.1_401620-401603|NZ_AP018035.1_607888-607871|NZ_AP018035.1_3447069-3447052	NA	5	5	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|88aa|up_0|NZ_AP018035.1_2075461_2075725_-,NA	NA|165aa|up_9|NZ_AP018035.1_2061755_2062250_+	pfam02577, DNase-RNase, Bifunctional nuclease	NA|226aa|up_8|NZ_AP018035.1_2062653_2063331_+	cd01105, HTH_GlnR-like, Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators	NA|942aa|up_7|NZ_AP018035.1_2063689_2066515_+	PRK05367, PRK05367, aminomethyl-transferring glycine dehydrogenase	NA|287aa|up_6|NZ_AP018035.1_2066741_2067602_-	PRK03204, PRK03204, haloalkane dehalogenase; Provisional	NA|289aa|up_5|NZ_AP018035.1_2067642_2068509_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|629aa|up_4|NZ_AP018035.1_2068513_2070400_-	TIGR00976, Hypothetical_protein_Rv1835c/MT1883/Mb1866c	NA|678aa|up_3|NZ_AP018035.1_2070415_2072449_-	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_AP018035.1_2072568_2074794_-	PRK02999, PRK02999, malate synthase G; Provisional	NA|132aa|up_1|NZ_AP018035.1_2075069_2075465_-	COG1848, COG1848, Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]	NA|88aa|up_0|NZ_AP018035.1_2075461_2075725_-	NA	NA|346aa|down_0|NZ_AP018035.1_2077493_2078531_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|456aa|down_1|NZ_AP018035.1_2078530_2079898_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|480aa|down_2|NZ_AP018035.1_2080071_2081511_-	PRK07807, PRK07807, GuaB1 family IMP dehydrogenase-related protein	NA|484aa|down_3|NZ_AP018035.1_2081543_2082995_-	PRK09287, PRK09287, NADP-dependent phosphogluconate dehydrogenase	NA|317aa|down_4|NZ_AP018035.1_2083024_2083975_-	cd07326, M56_BlaR1_MecR1_like, Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase	NA|139aa|down_5|NZ_AP018035.1_2083989_2084406_-	COG3682, COG3682, Predicted transcriptional regulator [Transcription]	NA|141aa|down_6|NZ_AP018035.1_2084683_2085106_+	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_AP018035.1_2085154_2085457_+	pfam00547, Urease_gamma, Urease, gamma subunit	NA|105aa|down_8|NZ_AP018035.1_2085453_2085768_+	PRK13202, ureB, urease subunit beta; Reviewed	NA|578aa|down_9|NZ_AP018035.1_2085767_2087501_+	PRK13206, ureC, urease subunit alpha; Reviewed
GCF_002357955.1_ASM235795v1	NZ_AP018035	Mycobacterium tuberculosis strain HN-321	8	2160771-2160990	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_4|NZ_AP018035.1_2146813_2147221_-,NA|159aa|up_2|NZ_AP018035.1_2149825_2150302_-,NA|127aa|down_5|NZ_AP018035.1_2168506_2168887_-	NA|148aa|up_9|NZ_AP018035.1_2143041_2143485_-	COG0735, Fur, Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]	NA|198aa|up_8|NZ_AP018035.1_2143598_2144192_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_7|NZ_AP018035.1_2144274_2144880_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_6|NZ_AP018035.1_2144979_2145984_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_5|NZ_AP018035.1_2146083_2146836_+	cd16282, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain	NA|136aa|up_4|NZ_AP018035.1_2146813_2147221_-	NA	NA|767aa|up_3|NZ_AP018035.1_2147355_2149656_+	PLN02892, PLN02892, isocitrate lyase	NA|159aa|up_2|NZ_AP018035.1_2149825_2150302_-	NA	NA|419aa|up_1|NZ_AP018035.1_2150337_2151593_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|421aa|up_0|NZ_AP018035.1_2156347_2157609_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|155aa|down_0|NZ_AP018035.1_2163017_2163482_-	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_AP018035.1_2163579_2164443_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_2|NZ_AP018035.1_2164480_2165752_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_3|NZ_AP018035.1_2166023_2167139_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_4|NZ_AP018035.1_2167129_2168470_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_5|NZ_AP018035.1_2168506_2168887_-	NA	NA|621aa|down_6|NZ_AP018035.1_2169043_2170906_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_7|NZ_AP018035.1_2170913_2171393_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_8|NZ_AP018035.1_2171629_2172403_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]	NA|256aa|down_9|NZ_AP018035.1_2172406_2173174_-	PRK05867, PRK05867, SDR family oxidoreductase
GCF_002357955.1_ASM235795v1	NZ_AP018035	Mycobacterium tuberculosis strain HN-321	9	3119933-3121080	1,5,5	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-D,Type III-A,Type III-C,Type III-B	GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC,GTTTCCGTCCCCTCTCGGGGTTTTGGGTCTGACGAC	36,36,36	0	0	NA	NA	II-B,III-A:II-B,III-A:II-B,III-A	14,14,15	15	TypeIII-D,TypeIII-A,TypeIII-C,TypeIII-B	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_8|NZ_AP018035.1_3113212_3113467_-,NA|135aa|up_7|NZ_AP018035.1_3113614_3114019_+,NA|64aa|up_6|NZ_AP018035.1_3114015_3114207_+,NA|86aa|up_4|NZ_AP018035.1_3115793_3116051_+,NA|104aa|up_3|NZ_AP018035.1_3116155_3116467_+,NA|203aa|up_2|NZ_AP018035.1_3116886_3117495_+,NA	NA|92aa|up_9|NZ_AP018035.1_3112761_3113037_+	COG4453, COG4453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|85aa|up_8|NZ_AP018035.1_3113212_3113467_-	NA	NA|135aa|up_7|NZ_AP018035.1_3113614_3114019_+	NA	NA|64aa|up_6|NZ_AP018035.1_3114015_3114207_+	NA	NA|385aa|up_5|NZ_AP018035.1_3114405_3115560_+	pfam00665, rve, Integrase core domain	NA|86aa|up_4|NZ_AP018035.1_3115793_3116051_+	NA	NA|104aa|up_3|NZ_AP018035.1_3116155_3116467_+	NA	NA|203aa|up_2|NZ_AP018035.1_3116886_3117495_+	NA	NA|470aa|up_1|NZ_AP018035.1_3117565_3118975_+	pfam00665, rve, Integrase core domain	NA|271aa|up_0|NZ_AP018035.1_3118971_3119784_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|down_0|NZ_AP018035.1_3121111_3122373_+	PHA02517, PHA02517, putative transposase OrfB; Reviewed	csm3gr7|237aa|down_1|NZ_AP018035.1_3122736_3123447_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_2|NZ_AP018035.1_3123456_3123831_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|813aa|down_3|NZ_AP018035.1_3123827_3126266_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_4|NZ_AP018035.1_3126262_3126985_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	NA|182aa|down_5|NZ_AP018035.1_3127384_3127930_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]	NA|295aa|down_6|NZ_AP018035.1_3128201_3129086_-	COG2253, COG2253, Uncharacterized conserved protein [Function unknown]	NA|296aa|down_7|NZ_AP018035.1_3129088_3129976_-	pfam09407, AbiEi_1, AbiEi antitoxin C-terminal domain	NA|182aa|down_8|NZ_AP018035.1_3130280_3130826_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]	NA|90aa|down_9|NZ_AP018035.1_3130822_3131092_-	COG5552, COG5552, Uncharacterized conserved protein [Function unknown]
GCF_002357955.1_ASM235795v1	NZ_AP018035	Mycobacterium tuberculosis strain HN-321	10	3661322-3661440	6	CRISPRCasFinder	no	cas3	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Unclear	GCCCCTGTGAGTCGAGTGAGCGGAACGAAC	30	1	1	3661352-3661410	NZ_AP018035.1_3661415-3661473	NA	1	1	Unclear	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA,NA|138aa|down_6|NZ_AP018035.1_3667073_3667487_-,NA|126aa|down_7|NZ_AP018035.1_3667521_3667899_-	NA|719aa|up_9|NZ_AP018035.1_3648148_3650305_+	COG2217, ZntA, Cation transport ATPase [Inorganic ion transport and metabolism]	NA|223aa|up_8|NZ_AP018035.1_3650301_3650970_-	COG0053, MMT1, Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]	NA|395aa|up_7|NZ_AP018035.1_3651070_3652255_+	pfam02515, CoA_transf_3, CoA-transferase family III	NA|765aa|up_6|NZ_AP018035.1_3652259_3654554_+	COG0659, SUL1, Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]	NA|390aa|up_5|NZ_AP018035.1_3654542_3655712_-	cd01158, SCAD_SBCAD, Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases	NA|175aa|up_4|NZ_AP018035.1_3655736_3656261_-	PLN02948, PLN02948, phosphoribosylaminoimidazole carboxylase	NA|430aa|up_3|NZ_AP018035.1_3656257_3657547_-	TIGR01161, N5-carboxyaminoimidazole_ribonucleotide_synthase, phosphoribosylaminoimidazole carboxylase, PurK protein	NA|273aa|up_2|NZ_AP018035.1_3657500_3658319_+	COG2246, COG2246, Predicted membrane protein [Function unknown]	NA|173aa|up_1|NZ_AP018035.1_3658273_3658792_-	pfam03703, bPH_2, Bacterial PH domain	NA|267aa|up_0|NZ_AP018035.1_3658834_3659635_-	COG0340, BirA, Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]	NA|223aa|down_0|NZ_AP018035.1_3661706_3662375_+	PRK00148, PRK00148, Maf-like protein; Reviewed	NA|298aa|down_1|NZ_AP018035.1_3662415_3663309_+	COG2897, SseA, Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]	NA|144aa|down_2|NZ_AP018035.1_3663305_3663737_+	COG2166, sufE, Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]	NA|601aa|down_3|NZ_AP018035.1_3663844_3665647_+	COG4770, COG4770, Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]	NA|262aa|down_4|NZ_AP018035.1_3665656_3666442_-	PRK07122, PRK07122, RNA polymerase sigma factor SigF; Reviewed	NA|146aa|down_5|NZ_AP018035.1_3666438_3666876_-	COG2172, RsbW, Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]	NA|138aa|down_6|NZ_AP018035.1_3667073_3667487_-	NA	NA|126aa|down_7|NZ_AP018035.1_3667521_3667899_-	NA	NA|450aa|down_8|NZ_AP018035.1_3667932_3669282_-	PRK08297, PRK08297, L-lysine aminotransferase; Provisional	NA|151aa|down_9|NZ_AP018035.1_3669332_3669785_-	smart00344, HTH_ASNC, helix_turn_helix ASNC type
GCF_002357955.1_ASM235795v1	NZ_AP018035	Mycobacterium tuberculosis strain HN-321	11	3746640-3747216	6	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_AP018035.1_3761448_3761736_-,NA|87aa|down_8|NZ_AP018035.1_3774855_3775116_-	NA|147aa|up_9|NZ_AP018035.1_3723823_3724264_+	cd04770, HTH_HMRTR, Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators	NA|290aa|up_8|NZ_AP018035.1_3724297_3725167_-	TIGR00766, Uncharacterized_protein_Dda3937_02003, inner membrane protein YhjD	NA|337aa|up_7|NZ_AP018035.1_3725187_3726198_-	PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed	NA|215aa|up_6|NZ_AP018035.1_3726470_3727115_+	PRK14875, PRK14875, acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional	NA|410aa|up_5|NZ_AP018035.1_3727181_3728411_-	PRK08299, PRK08299, NADP-dependent isocitrate dehydrogenase	NA|450aa|up_4|NZ_AP018035.1_3728693_3730043_+	PRK07812, PRK07812, O-acetylhomoserine aminocarboxypropyltransferase; Validated	NA|380aa|up_3|NZ_AP018035.1_3730054_3731194_+	PRK00175, metX, homoserine O-acetyltransferase; Provisional	NA|244aa|up_2|NZ_AP018035.1_3731190_3731922_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|3690aa|up_1|NZ_AP018035.1_3731930_3743000_-	pfam00823, PPE, PPE family	NA|327aa|up_0|NZ_AP018035.1_3743048_3744029_-	pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex non-fungal	NA|86aa|down_0|NZ_AP018035.1_3749318_3749576_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|3158aa|down_1|NZ_AP018035.1_3749831_3759305_-	pfam00823, PPE, PPE family	NA|149aa|down_2|NZ_AP018035.1_3759930_3760377_+	pfam01548, DEDD_Tnp_IS110, Transposase	NA|247aa|down_3|NZ_AP018035.1_3760413_3761154_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|96aa|down_4|NZ_AP018035.1_3761448_3761736_-	NA	NA|265aa|down_5|NZ_AP018035.1_3773465_3774260_-	pfam08031, BBE, Berberine and berberine like	NA|124aa|down_6|NZ_AP018035.1_3774341_3774713_-	COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production and conversion]	NA|73aa|down_7|NZ_AP018035.1_3774610_3774829_-	pfam01565, FAD_binding_4, FAD binding domain	NA|87aa|down_8|NZ_AP018035.1_3774855_3775116_-	NA	NA|130aa|down_9|NZ_AP018035.1_3775230_3775620_+	pfam05305, DUF732, Protein of unknown function (DUF732)
GCF_002357955.1_ASM235795v1	NZ_AP018035	Mycobacterium tuberculosis strain HN-321	12	3768603-3768729	2	PILER-CR	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	GTTGCCGATGCCGGTGTTGAAA	22	0	0	NA	NA	NA	2	2	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA|96aa|up_0|NZ_AP018035.1_3761448_3761736_-,NA|87aa|down_3|NZ_AP018035.1_3774855_3775116_-	NA|450aa|up_9|NZ_AP018035.1_3728693_3730043_+	PRK07812, PRK07812, O-acetylhomoserine aminocarboxypropyltransferase; Validated	NA|380aa|up_8|NZ_AP018035.1_3730054_3731194_+	PRK00175, metX, homoserine O-acetyltransferase; Provisional	NA|244aa|up_7|NZ_AP018035.1_3731190_3731922_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|3690aa|up_6|NZ_AP018035.1_3731930_3743000_-	pfam00823, PPE, PPE family	NA|327aa|up_5|NZ_AP018035.1_3743048_3744029_-	pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex non-fungal	NA|86aa|up_4|NZ_AP018035.1_3749318_3749576_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|3158aa|up_3|NZ_AP018035.1_3749831_3759305_-	pfam00823, PPE, PPE family	NA|149aa|up_2|NZ_AP018035.1_3759930_3760377_+	pfam01548, DEDD_Tnp_IS110, Transposase	NA|247aa|up_1|NZ_AP018035.1_3760413_3761154_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|96aa|up_0|NZ_AP018035.1_3761448_3761736_-	NA	NA|265aa|down_0|NZ_AP018035.1_3773465_3774260_-	pfam08031, BBE, Berberine and berberine like	NA|124aa|down_1|NZ_AP018035.1_3774341_3774713_-	COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production and conversion]	NA|73aa|down_2|NZ_AP018035.1_3774610_3774829_-	pfam01565, FAD_binding_4, FAD binding domain	NA|87aa|down_3|NZ_AP018035.1_3774855_3775116_-	NA	NA|130aa|down_4|NZ_AP018035.1_3775230_3775620_+	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|98aa|down_5|NZ_AP018035.1_3775633_3775927_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|282aa|down_6|NZ_AP018035.1_3775923_3776769_-	PRK14193, PRK14193, bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional	NA|92aa|down_7|NZ_AP018035.1_3776892_3777168_+	COG2161, StbD, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|86aa|down_8|NZ_AP018035.1_3777164_3777422_+	pfam06769, YoeB_toxin, YoeB-like toxin of bacterial type II toxin-antitoxin system	NA|397aa|down_9|NZ_AP018035.1_3777463_3778654_+	cd02803, OYE_like_FMN_family, Old yellow enzyme (OYE)-like FMN binding domain
GCF_002357955.1_ASM235795v1	NZ_AP018035	Mycobacterium tuberculosis strain HN-321	13	3856095-3856184	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_7|NZ_AP018035.1_3848131_3848362_+,NA|121aa|up_6|NZ_AP018035.1_3848465_3848828_-,NA|73aa|up_2|NZ_AP018035.1_3854160_3854379_-,NA|121aa|down_0|NZ_AP018035.1_3857169_3857532_-,NA|52aa|down_2|NZ_AP018035.1_3859373_3859529_-,NA|52aa|down_3|NZ_AP018035.1_3859553_3859709_-,NA|238aa|down_6|NZ_AP018035.1_3863744_3864458_-	NA|169aa|up_9|NZ_AP018035.1_3846442_3846949_-	COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]	NA|409aa|up_8|NZ_AP018035.1_3846945_3848172_-	PRK00053, alr, alanine racemase; Reviewed	NA|77aa|up_7|NZ_AP018035.1_3848131_3848362_+	NA	NA|121aa|up_6|NZ_AP018035.1_3848465_3848828_-	NA	NA|177aa|up_5|NZ_AP018035.1_3849786_3850317_+	pfam00823, PPE, PPE family	NA|252aa|up_4|NZ_AP018035.1_3850634_3851390_-	COG1484, DnaC, DNA replication protein [DNA replication, recombination, and repair]	NA|421aa|up_3|NZ_AP018035.1_3851473_3852735_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	NA|73aa|up_2|NZ_AP018035.1_3854160_3854379_-	NA	NA|100aa|up_1|NZ_AP018035.1_3854873_3855173_+	pfam00934, PE, PE family	NA|181aa|up_0|NZ_AP018035.1_3855258_3855801_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|121aa|down_0|NZ_AP018035.1_3857169_3857532_-	NA	NA|179aa|down_1|NZ_AP018035.1_3857694_3858231_+	pfam00823, PPE, PPE family	NA|52aa|down_2|NZ_AP018035.1_3859373_3859529_-	NA	NA|52aa|down_3|NZ_AP018035.1_3859553_3859709_-	NA	NA|461aa|down_4|NZ_AP018035.1_3860901_3862284_-	TIGR01788, Glutamate_decarboxylase_alpha_GAD-alpha	NA|474aa|down_5|NZ_AP018035.1_3862321_3863743_-	pfam01256, Carb_kinase, Carbohydrate kinase	NA|238aa|down_6|NZ_AP018035.1_3863744_3864458_-	NA	NA|285aa|down_7|NZ_AP018035.1_3864468_3865323_-	pfam14494, DUF4436, Domain of unknown function (DUF4436)	NA|625aa|down_8|NZ_AP018035.1_3865544_3867419_-	PRK00331, PRK00331, isomerizing glutamine--fructose-6-phosphate transaminase	NA|159aa|down_9|NZ_AP018035.1_3867440_3867917_+	pfam10708, DUF2510, Protein of unknown function (DUF2510)
GCF_002357955.1_ASM235795v1	NZ_AP018035	Mycobacterium tuberculosis strain HN-321	14	3941463-3942398	7	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	GGCGGNNNCGGCGGCNCCGGCGGC	24	0	0	NA	NA	NA	12	12	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA,NA|280aa|down_5|NZ_AP018035.1_3962754_3963594_+	NA|351aa|up_9|NZ_AP018035.1_3926173_3927226_-	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|401aa|up_8|NZ_AP018035.1_3927225_3928428_-	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|281aa|up_7|NZ_AP018035.1_3928447_3929290_-	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|255aa|up_6|NZ_AP018035.1_3929324_3930089_-	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|318aa|up_5|NZ_AP018035.1_3930314_3931268_-	PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional	NA|64aa|up_4|NZ_AP018035.1_3931292_3931484_-	COG1141, Fer, Ferredoxin [Energy production and conversion]	NA|401aa|up_3|NZ_AP018035.1_3931698_3932901_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|374aa|up_2|NZ_AP018035.1_3932925_3934047_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|503aa|up_1|NZ_AP018035.1_3934117_3935626_+	PRK07867, PRK07867, acyl-CoA synthetase; Validated	NA|1396aa|up_0|NZ_AP018035.1_3935796_3939984_+	pfam00934, PE, PE family	NA|516aa|down_0|NZ_AP018035.1_3945558_3947106_-	PRK07586, PRK07586, acetolactate synthase large subunit	NA|279aa|down_1|NZ_AP018035.1_3947102_3947939_-	COG2159, COG2159, Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]	NA|219aa|down_2|NZ_AP018035.1_3954827_3955484_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|549aa|down_3|NZ_AP018035.1_3960147_3961794_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|264aa|down_4|NZ_AP018035.1_3961867_3962659_+	PRK07799, PRK07799, crotonase/enoyl-CoA hydratase family protein	NA|280aa|down_5|NZ_AP018035.1_3962754_3963594_+	NA	NA|399aa|down_6|NZ_AP018035.1_3963648_3964845_-	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|237aa|down_7|NZ_AP018035.1_3964873_3965584_+	pfam06314, ADC, Acetoacetate decarboxylase (ADC)	NA|348aa|down_8|NZ_AP018035.1_3965648_3966692_-	TIGR03559, F420_Rv3520c, probable F420-dependent oxidoreductase, Rv3520c family	NA|304aa|down_9|NZ_AP018035.1_3966844_3967756_+	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
GCF_002357955.1_ASM235795v1	NZ_AP018035	Mycobacterium tuberculosis strain HN-321	15	3957709-3958830	8	CRT	no		csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	Orphan	CNNCGGCGGNACCGGCGGCANNGGCGGNNCCGGCGG	36	7	9	3957826-3957873|3957910-3957945|3958222-3958263|3958300-3958335|3958300-3958335|3958300-3958335|3958372-3958407|3958444-3958491|3958528-3958563	NZ_AP018035.1_3959005-3959052|NZ_AP018035.1_3959089-3959124|NZ_AP018035.1_3958831-3958872|NZ_AP018035.1_3956758-3956793|NZ_AP018035.1_3957070-3957105|NZ_AP018035.1_3957421-3957456|NZ_AP018035.1_3958942-3958977|NZ_AP018035.1_3959014-3959061|NZ_AP018035.1_3959098-3959133	NA	14	14	Orphan	csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,csm3gr7,csm2gr11,cas10,cas6	NA,NA|280aa|down_2|NZ_AP018035.1_3962754_3963594_+	NA|318aa|up_9|NZ_AP018035.1_3930314_3931268_-	PRK07792, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional	NA|64aa|up_8|NZ_AP018035.1_3931292_3931484_-	COG1141, Fer, Ferredoxin [Energy production and conversion]	NA|401aa|up_7|NZ_AP018035.1_3931698_3932901_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|374aa|up_6|NZ_AP018035.1_3932925_3934047_+	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|503aa|up_5|NZ_AP018035.1_3934117_3935626_+	PRK07867, PRK07867, acyl-CoA synthetase; Validated	NA|1396aa|up_4|NZ_AP018035.1_3935796_3939984_+	pfam00934, PE, PE family	NA|1706aa|up_3|NZ_AP018035.1_3940274_3945392_+	pfam00934, PE, PE family	NA|516aa|up_2|NZ_AP018035.1_3945558_3947106_-	PRK07586, PRK07586, acetolactate synthase large subunit	NA|279aa|up_1|NZ_AP018035.1_3947102_3947939_-	COG2159, COG2159, Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]	NA|219aa|up_0|NZ_AP018035.1_3954827_3955484_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|549aa|down_0|NZ_AP018035.1_3960147_3961794_-	PRK07798, PRK07798, acyl-CoA synthetase; Validated	NA|264aa|down_1|NZ_AP018035.1_3961867_3962659_+	PRK07799, PRK07799, crotonase/enoyl-CoA hydratase family protein	NA|280aa|down_2|NZ_AP018035.1_3962754_3963594_+	NA	NA|399aa|down_3|NZ_AP018035.1_3963648_3964845_-	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|237aa|down_4|NZ_AP018035.1_3964873_3965584_+	pfam06314, ADC, Acetoacetate decarboxylase (ADC)	NA|348aa|down_5|NZ_AP018035.1_3965648_3966692_-	TIGR03559, F420_Rv3520c, probable F420-dependent oxidoreductase, Rv3520c family	NA|304aa|down_6|NZ_AP018035.1_3966844_3967756_+	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]	NA|355aa|down_7|NZ_AP018035.1_3967771_3968836_+	PRK07937, PRK07937, lipid-transfer protein; Provisional	NA|395aa|down_8|NZ_AP018035.1_3968852_3970037_+	PRK08313, PRK08313, thiolase domain-containing protein	NA|344aa|down_9|NZ_AP018035.1_3970078_3971110_+	cd14952, NHL_PKND_like, NHL repeat domain of the protein kinase PknD
GCF_002357955.1_ASM235795v1	NZ_AP018035	Mycobacterium tuberculosis strain HN-321	16	4120288-4120376	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_6|NZ_AP018035.1_4110874_4111645_-,NA|233aa|up_0|NZ_AP018035.1_4119392_4120091_-,NA|126aa|down_6|NZ_AP018035.1_4125611_4125989_+	NA|388aa|up_9|NZ_AP018035.1_4106545_4107709_-	TIGR03819, heli_sec_ATPase, helicase/secretion neighborhood ATPase	NA|351aa|up_8|NZ_AP018035.1_4107705_4108758_-	TIGR03815, CpaE_hom_Actino, helicase/secretion neighborhood CpaE-like protein	NA|288aa|up_7|NZ_AP018035.1_4109256_4110120_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|257aa|up_6|NZ_AP018035.1_4110874_4111645_-	NA	NA|549aa|up_5|NZ_AP018035.1_4111641_4113288_-	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]	NA|288aa|up_4|NZ_AP018035.1_4113284_4114148_-	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|309aa|up_3|NZ_AP018035.1_4114140_4115067_-	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|542aa|up_2|NZ_AP018035.1_4115068_4116694_-	cd00995, PBP2_NikA_DppA_OppA_like, The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold	NA|652aa|up_1|NZ_AP018035.1_4117401_4119357_+	PRK00174, PRK00174, acetyl-CoA synthetase; Provisional	NA|233aa|up_0|NZ_AP018035.1_4119392_4120091_-	NA	NA|173aa|down_0|NZ_AP018035.1_4120436_4120955_+	pfam07332, Phage_holin_3_6, Putative Actinobacterial Holin-X, holin superfamily III	NA|328aa|down_1|NZ_AP018035.1_4120955_4121939_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|398aa|down_2|NZ_AP018035.1_4121931_4123125_-	pfam13365, Trypsin_2, Trypsin-like peptidase domain	NA|274aa|down_3|NZ_AP018035.1_4123130_4123952_-	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_AP018035.1_4124083_4124767_-	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|246aa|down_5|NZ_AP018035.1_4124766_4125504_-	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]	NA|126aa|down_6|NZ_AP018035.1_4125611_4125989_+	NA	NA|225aa|down_7|NZ_AP018035.1_4126087_4126762_+	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|265aa|down_8|NZ_AP018035.1_4126867_4127662_-	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_AP018035.1_4127668_4128124_-	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
