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_002448015.1_ASM244801v1	NZ_CP023630	Mycobacterium tuberculosis strain MDRMA2441 chromosome, complete genome	1	333648-334446	1	CRT	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	CCGCCGGNGCCGCCGGNN	18	0	0	NA	NA	NA	15	15	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|61aa|up_0|NZ_CP023630.1_333163_333346_-,NA	NA|170aa|up_9|NZ_CP023630.1_322768_323278_-	COG2161, StbD, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|398aa|up_8|NZ_CP023630.1_323342_324536_-	COG3285, COG3285, Predicted eukaryotic-type DNA primase [DNA replication, recombination, and repair]	NA|561aa|up_7|NZ_CP023630.1_324571_326254_+	PRK07788, PRK07788, acyl-CoA synthetase; Validated	NA|378aa|up_6|NZ_CP023630.1_328578_329712_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|207aa|up_5|NZ_CP023630.1_329708_330329_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|194aa|up_4|NZ_CP023630.1_330425_331007_+	pfam00903, Glyoxalase, Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily	NA|242aa|up_3|NZ_CP023630.1_330936_331662_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|307aa|up_2|NZ_CP023630.1_331751_332672_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	NA|143aa|up_1|NZ_CP023630.1_332711_333140_-	cd18678, PIN_MtVapC25_VapC33-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC25, VapC33, and related proteins	NA|61aa|up_0|NZ_CP023630.1_333163_333346_-	NA	NA|838aa|down_0|NZ_CP023630.1_336563_339077_-	pfam00934, PE, PE family	NA|536aa|down_1|NZ_CP023630.1_339367_340975_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|303aa|down_2|NZ_CP023630.1_340998_341907_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|632aa|down_3|NZ_CP023630.1_342130_344026_+	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA	NA|539aa|down_4|NZ_CP023630.1_344022_345639_+	pfam05108, T7SS_ESX1_EccB, Type VII secretion system ESX-1, transport TM domain B	NA|1331aa|down_5|NZ_CP023630.1_345635_349628_+	TIGR03924, T7SS_EccC_a, type VII secretion protein EccCa	NA|103aa|down_6|NZ_CP023630.1_349624_349933_+	pfam00934, PE, PE family	NA|514aa|down_7|NZ_CP023630.1_349935_351477_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|98aa|down_8|NZ_CP023630.1_351525_351819_+	TIGR03930, WXG100_ESAT6, WXG100 family type VII secretion target	NA|97aa|down_9|NZ_CP023630.1_351848_352139_+	COG4842, COG4842, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_002448015.1_ASM244801v1	NZ_CP023630	Mycobacterium tuberculosis strain MDRMA2441 chromosome, complete genome	2	366464-367162	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	366752-366793|366827-366859	NZ_CP023630.1_374783-374824|NZ_CP023630.1_373598-373630	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_CP023630.1_363476_363779_+,NA|161aa|down_1|NZ_CP023630.1_376572_377055_-,NA|410aa|down_5|NZ_CP023630.1_379171_380401_+	NA|262aa|up_9|NZ_CP023630.1_358171_358957_+	PRK14103, PRK14103, trans-aconitate 2-methyltransferase; Provisional	NA|268aa|up_8|NZ_CP023630.1_358945_359749_-	COG4424, COG4424, Uncharacterized protein conserved in bacteria [Function unknown]	NA|466aa|up_7|NZ_CP023630.1_359758_361156_-	cd16027, SGSH, N-sulfoglucosamine sulfohydrolase (SGSH; sulfamidase)	NA|592aa|up_6|NZ_CP023630.1_361334_363110_+	pfam00934, PE, PE family	NA|76aa|up_5|NZ_CP023630.1_363252_363480_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|101aa|up_4|NZ_CP023630.1_363476_363779_+	NA	NA|74aa|up_3|NZ_CP023630.1_363826_364048_+	PHA01748, PHA01748, hypothetical protein	NA|142aa|up_2|NZ_CP023630.1_364044_364470_+	cd18755, PIN_MtVapC3_VapC21-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC3, VapC21 and related proteins	NA|211aa|up_1|NZ_CP023630.1_364605_365238_+	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|303aa|up_0|NZ_CP023630.1_365234_366143_+	cd09810, LPOR_like_SDR_c_like, light-dependent protochlorophyllide reductase (LPOR)-like, classical (c)-like SDRs	NA|224aa|down_0|NZ_CP023630.1_375913_376585_+	TIGR02476, BluB, 5,6-dimethylbenzimidazole synthase	NA|161aa|down_1|NZ_CP023630.1_376572_377055_-	NA	NA|239aa|down_2|NZ_CP023630.1_377112_377829_+	cd03392, PAP2_like_2, PAP2_like_2 proteins	NA|219aa|down_3|NZ_CP023630.1_377930_378587_+	COG3786, COG3786, Uncharacterized protein conserved in bacteria [Function unknown]	NA|164aa|down_4|NZ_CP023630.1_378656_379148_-	pfam13577, SnoaL_4, SnoaL-like domain	NA|410aa|down_5|NZ_CP023630.1_379171_380401_+	NA	NA|621aa|down_6|NZ_CP023630.1_380555_382418_+	COG0443, DnaK, Molecular chaperone [Posttranslational modification, protein turnover, chaperones]	NA|129aa|down_7|NZ_CP023630.1_382489_382876_+	COG0326, HtpG, Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]	NA|221aa|down_8|NZ_CP023630.1_382878_383541_-	pfam11259, DUF3060, Protein of unknown function (DUF3060)	NA|295aa|down_9|NZ_CP023630.1_383601_384486_+	COG2273, SKN1, Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]
GCF_002448015.1_ASM244801v1	NZ_CP023630	Mycobacterium tuberculosis strain MDRMA2441 chromosome, complete genome	3	691969-692045	2	CRISPRCasFinder	no	c2c9_V-U4	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Type V-U4	TGAGGTGCGGCGTGAGCGCGGGT	23	0	0	NA	NA	NA	1	1	TypeV-U4	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA	NA|72aa|up_9|NZ_CP023630.1_677653_677869_+	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|136aa|up_8|NZ_CP023630.1_677865_678273_+	cd18696, PIN_MtVapC26-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC26 and related proteins	NA|229aa|up_7|NZ_CP023630.1_678332_679019_-	pfam10738, Lpp-LpqN, Probable lipoprotein LpqN	NA|878aa|up_6|NZ_CP023630.1_679172_681806_+	COG3537, COG3537, Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]	NA|796aa|up_5|NZ_CP023630.1_681828_684216_-	pfam03706, LPG_synthase_TM, Lysylphosphatidylglycerol synthase TM region	NA|241aa|up_4|NZ_CP023630.1_684353_685076_+	COG2186, FadR, Transcriptional regulators [Transcription]	NA|266aa|up_3|NZ_CP023630.1_685072_685870_+	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|296aa|up_2|NZ_CP023630.1_685871_686759_+	COG0767, Ttg2B, ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]	NA|405aa|up_1|NZ_CP023630.1_686764_687979_+	pfam11887, Mce4_CUP1, Cholesterol uptake porter CUP1 of Mce4, putative	NA|482aa|up_0|NZ_CP023630.1_689002_690448_+	TIGR00996, Mtu_fam_mce, virulence factor Mce family protein	NA|517aa|down_0|NZ_CP023630.1_693180_694731_+	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_CP023630.1_694782_695175_-	cd18768, PIN_MtVapC4-C5-like, VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins	NA|86aa|down_2|NZ_CP023630.1_695171_695429_-	COG4118, Phd, Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]	NA|412aa|down_3|NZ_CP023630.1_695611_696847_-	COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General function prediction only]	NA|138aa|down_4|NZ_CP023630.1_697097_697511_-	cd18681, PIN_MtVapC27-VapC40_like, VapC-like PIN domain of Mycobacterium tuberculosis VapC27, and VapC40, and related proteins	NA|79aa|down_5|NZ_CP023630.1_697507_697744_-	COG2002, AbrB, Regulators of stationary/sporulation gene expression [Transcription]	NA|169aa|down_6|NZ_CP023630.1_697847_698354_-	COG0642, BaeS, Signal transduction histidine kinase [Signal transduction mechanisms]	NA|157aa|down_7|NZ_CP023630.1_698467_698938_-	PRK10755, PRK10755, two-component system sensor histidine kinase PmrB	NA|254aa|down_8|NZ_CP023630.1_698981_699743_-	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_CP023630.1_699799_700111_+	pfam03413, PepSY, Peptidase propeptide and YPEB domain
GCF_002448015.1_ASM244801v1	NZ_CP023630	Mycobacterium tuberculosis strain MDRMA2441 chromosome, complete genome	4	926541-927488	2	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	927324-927359|927324-927359|927324-927359	NZ_CP023630.1_675072-675037|NZ_CP023630.1_1213684-1213719|NZ_CP023630.1_2423734-2423699	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_CP023630.1_931498_932050_-,NA|81aa|down_8|NZ_CP023630.1_937513_937756_+	NA|685aa|up_9|NZ_CP023630.1_914200_916255_-	TIGR00350, Transcriptional_regulator_LytR, cell envelope-related function transcriptional attenuator common domain	NA|390aa|up_8|NZ_CP023630.1_916420_917590_-	TIGR00737, Probable_tRNA-dihydrouridine_synthase, putative TIM-barrel protein, nifR3 family	NA|339aa|up_7|NZ_CP023630.1_917654_918671_-	cd01050, Acyl_ACP_Desat, Acyl ACP desaturase, ferritin-like diiron-binding domain	NA|214aa|up_6|NZ_CP023630.1_918832_919474_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|352aa|up_5|NZ_CP023630.1_919554_920610_+	COG3662, COG3662, Uncharacterized protein conserved in bacteria [Function unknown]	csa3|131aa|up_4|NZ_CP023630.1_920661_921054_-	smart00418, HTH_ARSR, helix_turn_helix, Arsenical Resistance Operon Repressor	NA|141aa|up_3|NZ_CP023630.1_921111_921534_-	COG0590, CumB, Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]	NA|97aa|up_2|NZ_CP023630.1_921495_921786_+	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair]	NA|302aa|up_1|NZ_CP023630.1_921890_922796_+	COG3315, COG3315, O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]	NA|272aa|up_0|NZ_CP023630.1_922814_923630_-	TIGR04255, hypothetical_protein, TIGR04255 family protein	NA|883aa|down_0|NZ_CP023630.1_927757_930406_-	pfam00934, PE, PE family	NA|215aa|down_1|NZ_CP023630.1_930873_931518_+	pfam14032, PknH_C, PknH-like extracellular domain	NA|184aa|down_2|NZ_CP023630.1_931498_932050_-	NA	NA|218aa|down_3|NZ_CP023630.1_932199_932853_-	COG4849, COG4849, Predicted nucleotidyltransferase [General function prediction    only]	NA|343aa|down_4|NZ_CP023630.1_932923_933952_-	COG4861, COG4861, Uncharacterized protein conserved in bacteria [Function unknown]	NA|257aa|down_5|NZ_CP023630.1_934640_935411_+	pfam01427, Peptidase_M15, D-ala-D-ala dipeptidase	NA|271aa|down_6|NZ_CP023630.1_935497_936310_+	pfam13847, Methyltransf_31, Methyltransferase domain	NA|287aa|down_7|NZ_CP023630.1_936377_937238_-	TIGR01250, Proline_iminopeptidase, proline-specific peptidase, Bacillus coagulans-type subfamily	NA|81aa|down_8|NZ_CP023630.1_937513_937756_+	NA	NA|431aa|down_9|NZ_CP023630.1_938032_939325_+	cd17329, MFS_MdtH_MDR_like, Multidrug resistance protein MdtH and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily
GCF_002448015.1_ASM244801v1	NZ_CP023630	Mycobacterium tuberculosis strain MDRMA2441 chromosome, complete genome	5	1191251-1191359	3	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GACAGCCAGCCGGCTGACCCGCCGT	25	0	0	NA	NA	NA	1	1	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA,NA	NA|544aa|up_9|NZ_CP023630.1_1180618_1182250_+	cd12119, ttLC_FACS_AlkK_like, Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles	NA|355aa|up_8|NZ_CP023630.1_1182325_1183390_+	COG3804, COG3804, Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]	NA|158aa|up_7|NZ_CP023630.1_1183442_1183916_+	cd07821, PYR_PYL_RCAR_like, Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins	NA|288aa|up_6|NZ_CP023630.1_1183949_1184813_+	cd01908, YafJ, Glutamine amidotransferases class-II (Gn-AT)_YafJ-type	NA|286aa|up_5|NZ_CP023630.1_1184817_1185675_+	COG1752, RssA, Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]	NA|361aa|up_4|NZ_CP023630.1_1185675_1186758_-	cd07228, Pat_NTE_like_bacteria, Bacterial patatin-like phospholipase domain containing protein 6	NA|140aa|up_3|NZ_CP023630.1_1186838_1187258_-	pfam17301, LpqV, Putative lipoprotein LpqV	NA|189aa|up_2|NZ_CP023630.1_1187369_1187936_+	cd10548, cupin_CDO, cysteine dioxygenase, cupin domain	NA|132aa|up_1|NZ_CP023630.1_1187932_1188328_+	cd01447, Polysulfide_ST, Polysulfide-sulfurtransferase - Rhodanese Homology Domain	NA|668aa|up_0|NZ_CP023630.1_1188355_1190359_-	pfam00934, PE, PE family	NA|588aa|down_0|NZ_CP023630.1_1192444_1194208_-	COG4425, COG4425, Predicted membrane protein [Function unknown]	NA|258aa|down_1|NZ_CP023630.1_1194204_1194978_-	PRK05862, PRK05862, enoyl-CoA hydratase; Provisional	NA|346aa|down_2|NZ_CP023630.1_1194989_1196027_-	PRK05617, PRK05617, 3-hydroxyisobutyryl-CoA hydrolase; Provisional	NA|279aa|down_3|NZ_CP023630.1_1196213_1197050_+	COG4760, COG4760, Predicted membrane protein [Function unknown]	NA|284aa|down_4|NZ_CP023630.1_1197165_1198017_+	pfam18741, MTES_1575, REase_MTES_1575	NA|406aa|down_5|NZ_CP023630.1_1198090_1199308_-	PRK07851, PRK07851, acetyl-CoA C-acetyltransferase	NA|315aa|down_6|NZ_CP023630.1_1199360_1200305_-	cd01836, FeeA_FeeB_like, SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases	NA|356aa|down_7|NZ_CP023630.1_1200527_1201595_+	COG0657, Aes, Esterase/lipase [Lipid metabolism]	NA|465aa|down_8|NZ_CP023630.1_1201651_1203046_+	TIGR01137, Cystathionine_beta-synthase, cystathionine beta-synthase	NA|241aa|down_9|NZ_CP023630.1_1203247_1203970_+	pfam06271, RDD, RDD family
GCF_002448015.1_ASM244801v1	NZ_CP023630	Mycobacterium tuberculosis strain MDRMA2441 chromosome, complete genome	6	1211885-1212741	4	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	73	1212268-1212289|1212313-1212328|1212451-1212472|1212451-1212472|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586|1212568-1212586	NZ_CP023630.1_2960474-2960453|NZ_CP023630.1_2088572-2088557|NZ_CP023630.1_837377-837398|NZ_CP023630.1_1217579-1217600|NZ_CP023630.1_674736-674718|NZ_CP023630.1_1213411-1213429|NZ_CP023630.1_1217552-1217570|NZ_CP023630.1_1217624-1217642|NZ_CP023630.1_1630634-1630616|NZ_CP023630.1_1633460-1633442|NZ_CP023630.1_1990776-1990758|NZ_CP023630.1_2061500-2061482|NZ_CP023630.1_2061947-2061929|NZ_CP023630.1_2062046-2062028|NZ_CP023630.1_2802049-2802031|NZ_CP023630.1_2805577-2805559|NZ_CP023630.1_150187-150205|NZ_CP023630.1_335205-335187|NZ_CP023630.1_335658-335640|NZ_CP023630.1_335709-335691|NZ_CP023630.1_335718-335700|NZ_CP023630.1_338007-337989|NZ_CP023630.1_338136-338118|NZ_CP023630.1_338403-338385|NZ_CP023630.1_338432-338450|NZ_CP023630.1_338526-338508|NZ_CP023630.1_363054-363036|NZ_CP023630.1_443393-443375|NZ_CP023630.1_546737-546719|NZ_CP023630.1_623927-623945|NZ_CP023630.1_624149-624167|NZ_CP023630.1_673902-673884|NZ_CP023630.1_840160-840178|NZ_CP023630.1_1090914-1090932|NZ_CP023630.1_1091562-1091580|NZ_CP023630.1_1095620-1095602|NZ_CP023630.1_1212940-1212958|NZ_CP023630.1_1213330-1213348|NZ_CP023630.1_1217972-1217990|NZ_CP023630.1_1489148-1489130|NZ_CP023630.1_1618598-1618580|NZ_CP023630.1_1619051-1619033|NZ_CP023630.1_1635973-1635955|NZ_CP023630.1_1635982-1635964|NZ_CP023630.1_1864261-1864243|NZ_CP023630.1_1864789-1864771|NZ_CP023630.1_1990050-1990032|NZ_CP023630.1_2001412-2001430|NZ_CP023630.1_2088770-2088752|NZ_CP023630.1_2303454-2303436|NZ_CP023630.1_2356906-2356888|NZ_CP023630.1_2419561-2419579|NZ_CP023630.1_2423647-2423629|NZ_CP023630.1_2569142-2569124|NZ_CP023630.1_2693440-2693458|NZ_CP023630.1_2795364-2795346|NZ_CP023630.1_2795946-2795928|NZ_CP023630.1_3054511-3054529|NZ_CP023630.1_3054610-3054628|NZ_CP023630.1_3705416-3705434|NZ_CP023630.1_3737393-3737375|NZ_CP023630.1_3738017-3737999|NZ_CP023630.1_3738260-3738242|NZ_CP023630.1_3738393-3738375|NZ_CP023630.1_3802254-3802272|NZ_CP023630.1_3802437-3802455|NZ_CP023630.1_3802605-3802623|NZ_CP023630.1_3930425-3930443|NZ_CP023630.1_3932164-3932182|NZ_CP023630.1_3940671-3940689|NZ_CP023630.1_3948675-3948693|NZ_CP023630.1_4031658-4031640|NZ_CP023630.1_4094184-4094202	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_CP023630.1_1207317_1207584_+,NA|61aa|down_3|NZ_CP023630.1_1215159_1215342_+,NA|35aa|down_4|NZ_CP023630.1_1215451_1215556_+	NA|465aa|up_9|NZ_CP023630.1_1201651_1203046_+	TIGR01137, Cystathionine_beta-synthase, cystathionine beta-synthase	NA|241aa|up_8|NZ_CP023630.1_1203247_1203970_+	pfam06271, RDD, RDD family	NA|389aa|up_7|NZ_CP023630.1_1204001_1205168_+	PRK07811, PRK07811, cystathionine gamma-synthase; Provisional	NA|165aa|up_6|NZ_CP023630.1_1205238_1205733_-	PRK00226, greA, transcription elongation factor GreA; Reviewed	NA|145aa|up_5|NZ_CP023630.1_1205918_1206353_-	pfam14155, DUF4307, Domain of unknown function (DUF4307)	NA|289aa|up_4|NZ_CP023630.1_1206454_1207321_+	TIGR03446, mycothiol_Mca, mycothiol conjugate amidase Mca	NA|89aa|up_3|NZ_CP023630.1_1207317_1207584_+	NA	NA|674aa|up_2|NZ_CP023630.1_1207570_1209592_+	COG1331, COG1331, Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]	NA|243aa|up_1|NZ_CP023630.1_1209690_1210419_-	TIGR01065, Hypothetical_UPF0073_protein_yqfA	NA|263aa|up_0|NZ_CP023630.1_1210529_1211318_+	PRK14828, PRK14828, undecaprenyl pyrophosphate synthase; Provisional	NA|107aa|down_0|NZ_CP023630.1_1213974_1214295_+	COG0020, UppS, Undecaprenyl pyrophosphate synthase [Lipid metabolism]	NA|145aa|down_1|NZ_CP023630.1_1214447_1214882_+	pfam00934, PE, PE family	NA|55aa|down_2|NZ_CP023630.1_1214983_1215148_+	smart00637, CBD_II, CBD_II domain	NA|61aa|down_3|NZ_CP023630.1_1215159_1215342_+	NA	NA|35aa|down_4|NZ_CP023630.1_1215451_1215556_+	NA	NA|152aa|down_5|NZ_CP023630.1_1215533_1215989_+	pfam01670, Glyco_hydro_12, Glycosyl hydrolase family 12	NA|854aa|down_6|NZ_CP023630.1_1216403_1218965_+	pfam00934, PE, PE family	NA|313aa|down_7|NZ_CP023630.1_1219182_1220121_-	PRK05439, PRK05439, pantothenate kinase; Provisional	NA|427aa|down_8|NZ_CP023630.1_1220508_1221789_+	PRK00011, glyA, serine hydroxymethyltransferase; Reviewed	NA|276aa|down_9|NZ_CP023630.1_1221893_1222721_+	cd01050, Acyl_ACP_Desat, Acyl ACP desaturase, ferritin-like diiron-binding domain
GCF_002448015.1_ASM244801v1	NZ_CP023630	Mycobacterium tuberculosis strain MDRMA2441 chromosome, complete genome	7	1572121-1573193	5	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_CP023630.1_1563884_1564202_+,NA	NA|103aa|up_9|NZ_CP023630.1_1561399_1561708_+	pfam00934, PE, PE family	NA|540aa|up_8|NZ_CP023630.1_1561704_1563324_+	COG5651, COG5651, PPE-repeat proteins [Cell motility and secretion]	NA|106aa|up_7|NZ_CP023630.1_1563884_1564202_+	NA	NA|209aa|up_6|NZ_CP023630.1_1564336_1564963_+	PRK00300, gmk, guanylate kinase; Provisional	NA|111aa|up_5|NZ_CP023630.1_1565028_1565361_+	TIGR00690, DNA-directed_RNA_polymerase_subunit_omega, DNA-directed RNA polymerase, omega subunit	NA|419aa|up_4|NZ_CP023630.1_1565376_1566633_+	PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated	NA|404aa|up_3|NZ_CP023630.1_1566760_1567972_+	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|493aa|up_2|NZ_CP023630.1_1568044_1569523_-	COG2072, TrkA, Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]	NA|462aa|up_1|NZ_CP023630.1_1569519_1570905_-	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|345aa|up_0|NZ_CP023630.1_1570982_1572017_+	smart00342, HTH_ARAC, helix_turn_helix, arabinose operon control protein	NA|134aa|down_0|NZ_CP023630.1_1574047_1574449_-	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_CP023630.1_1574445_1574703_-	pfam01402, RHH_1, Ribbon-helix-helix protein, copG family	NA|320aa|down_2|NZ_CP023630.1_1574785_1575745_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|321aa|down_3|NZ_CP023630.1_1575769_1576732_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|201aa|down_4|NZ_CP023630.1_1576865_1577468_+	COG3714, COG3714, Predicted membrane protein [Function unknown]	NA|656aa|down_5|NZ_CP023630.1_1577548_1579516_+	PRK14873, PRK14873, primosomal protein N'	NA|275aa|down_6|NZ_CP023630.1_1579533_1580358_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|161aa|down_7|NZ_CP023630.1_1580526_1581009_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|275aa|down_8|NZ_CP023630.1_1581080_1581905_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|313aa|down_9|NZ_CP023630.1_1582101_1583040_+	PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed
GCF_002448015.1_ASM244801v1	NZ_CP023630	Mycobacterium tuberculosis strain MDRMA2441 chromosome, complete genome	8	2088242-2088496	3	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	2088323-2088340|2088323-2088340|2088413-2088430	NZ_CP023630.1_401079-401062|NZ_CP023630.1_607382-607365|NZ_CP023630.1_3450118-3450101	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_CP023630.1_2087601_2087865_-,NA	NA|165aa|up_9|NZ_CP023630.1_2073895_2074390_+	pfam02577, DNase-RNase, Bifunctional nuclease	NA|226aa|up_8|NZ_CP023630.1_2074793_2075471_+	cd01105, HTH_GlnR-like, Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators	NA|942aa|up_7|NZ_CP023630.1_2075829_2078655_+	PRK05367, PRK05367, aminomethyl-transferring glycine dehydrogenase	NA|287aa|up_6|NZ_CP023630.1_2078881_2079742_-	PRK03204, PRK03204, haloalkane dehalogenase; Provisional	NA|289aa|up_5|NZ_CP023630.1_2079782_2080649_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|629aa|up_4|NZ_CP023630.1_2080653_2082540_-	TIGR00976, Hypothetical_protein_Rv1835c/MT1883/Mb1866c	NA|678aa|up_3|NZ_CP023630.1_2082555_2084589_-	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_CP023630.1_2084708_2086934_-	PRK02999, PRK02999, malate synthase G; Provisional	NA|132aa|up_1|NZ_CP023630.1_2087209_2087605_-	COG1848, COG1848, Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]	NA|88aa|up_0|NZ_CP023630.1_2087601_2087865_-	NA	NA|346aa|down_0|NZ_CP023630.1_2089633_2090671_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|456aa|down_1|NZ_CP023630.1_2090670_2092038_-	COG1253, TlyC, Hemolysins and related proteins containing CBS domains [General function prediction only]	NA|479aa|down_2|NZ_CP023630.1_2092211_2093648_-	PRK07807, PRK07807, GuaB1 family IMP dehydrogenase-related protein	NA|486aa|down_3|NZ_CP023630.1_2093683_2095141_-	PRK09287, PRK09287, NADP-dependent phosphogluconate dehydrogenase	NA|317aa|down_4|NZ_CP023630.1_2095170_2096121_-	cd07326, M56_BlaR1_MecR1_like, Peptidase M56-like including those in BlaR1 and MecR1, integral membrane metallopeptidase	NA|139aa|down_5|NZ_CP023630.1_2096135_2096552_-	COG3682, COG3682, Predicted transcriptional regulator [Transcription]	NA|141aa|down_6|NZ_CP023630.1_2096829_2097252_+	COG2050, PaaI, HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis,    transport, and catabolism]	NA|101aa|down_7|NZ_CP023630.1_2097300_2097603_+	pfam00547, Urease_gamma, Urease, gamma subunit	NA|105aa|down_8|NZ_CP023630.1_2097599_2097914_+	PRK13202, ureB, urease subunit beta; Reviewed	NA|578aa|down_9|NZ_CP023630.1_2097913_2099647_+	PRK13206, ureC, urease subunit alpha; Reviewed
GCF_002448015.1_ASM244801v1	NZ_CP023630	Mycobacterium tuberculosis strain MDRMA2441 chromosome, complete genome	9	2163330-2163434	6	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_CP023630.1_2152378_2152849_-,NA|136aa|up_2|NZ_CP023630.1_2159874_2160282_-,NA|127aa|down_6|NZ_CP023630.1_2176503_2176884_-	NA|157aa|up_9|NZ_CP023630.1_2152378_2152849_-	NA	NA|216aa|up_8|NZ_CP023630.1_2153188_2153836_-	pfam14081, DUF4262, Domain of unknown function (DUF4262)	NA|741aa|up_7|NZ_CP023630.1_2153842_2156065_-	PRK15061, PRK15061, catalase/peroxidase	NA|198aa|up_6|NZ_CP023630.1_2156659_2157253_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_5|NZ_CP023630.1_2157335_2157941_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_4|NZ_CP023630.1_2158040_2159045_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_3|NZ_CP023630.1_2159144_2159897_+	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_CP023630.1_2159874_2160282_-	NA	NA|368aa|up_1|NZ_CP023630.1_2160416_2161520_+	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|399aa|up_0|NZ_CP023630.1_2161519_2162716_+	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|988aa|down_0|NZ_CP023630.1_2167602_2170566_-	pfam00823, PPE, PPE family	NA|155aa|down_1|NZ_CP023630.1_2171014_2171479_-	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_CP023630.1_2171576_2172440_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_3|NZ_CP023630.1_2172477_2173749_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_4|NZ_CP023630.1_2174020_2175136_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_5|NZ_CP023630.1_2175126_2176467_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_6|NZ_CP023630.1_2176503_2176884_-	NA	NA|621aa|down_7|NZ_CP023630.1_2177040_2178903_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_8|NZ_CP023630.1_2178910_2179390_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_9|NZ_CP023630.1_2179626_2180400_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]
GCF_002448015.1_ASM244801v1	NZ_CP023630	Mycobacterium tuberculosis strain MDRMA2441 chromosome, complete genome	10	2168768-2168987	7	CRISPRCasFinder	no		RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	Orphan	GTGCCAGCCGGAATCGTGATCGGCGGAACCGTCACCGACGGAATACTCA	49	0	0	NA	NA	NA	1	1	Orphan	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|136aa|up_3|NZ_CP023630.1_2159874_2160282_-,NA|127aa|down_5|NZ_CP023630.1_2176503_2176884_-	NA|216aa|up_9|NZ_CP023630.1_2153188_2153836_-	pfam14081, DUF4262, Domain of unknown function (DUF4262)	NA|741aa|up_8|NZ_CP023630.1_2153842_2156065_-	PRK15061, PRK15061, catalase/peroxidase	NA|198aa|up_7|NZ_CP023630.1_2156659_2157253_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|202aa|up_6|NZ_CP023630.1_2157335_2157941_-	COG1881, COG1881, Phospholipid-binding protein [General function prediction only]	NA|335aa|up_5|NZ_CP023630.1_2158040_2159045_-	cd08275, MDR3, Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family	NA|251aa|up_4|NZ_CP023630.1_2159144_2159897_+	cd16282, metallo-hydrolase-like_MBL-fold, uncharacterized subgroup of the MBL-fold_metallo-hydrolase superfamily; MBL-fold metallo hydrolase domain	NA|136aa|up_3|NZ_CP023630.1_2159874_2160282_-	NA	NA|368aa|up_2|NZ_CP023630.1_2160416_2161520_+	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|399aa|up_1|NZ_CP023630.1_2161519_2162716_+	COG2224, AceA, Isocitrate lyase [Energy production and conversion]	NA|1460aa|up_0|NZ_CP023630.1_2162885_2167265_-	pfam00823, PPE, PPE family	NA|155aa|down_0|NZ_CP023630.1_2171014_2171479_-	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_CP023630.1_2171576_2172440_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|424aa|down_2|NZ_CP023630.1_2172477_2173749_-	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|372aa|down_3|NZ_CP023630.1_2174020_2175136_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|447aa|down_4|NZ_CP023630.1_2175126_2176467_+	pfam00144, Beta-lactamase, Beta-lactamase	NA|127aa|down_5|NZ_CP023630.1_2176503_2176884_-	NA	NA|621aa|down_6|NZ_CP023630.1_2177040_2178903_+	PRK12476, PRK12476, putative fatty-acid--CoA ligase; Provisional	NA|160aa|down_7|NZ_CP023630.1_2178910_2179390_-	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|258aa|down_8|NZ_CP023630.1_2179626_2180400_+	COG3361, COG3361, Uncharacterized conserved protein [Function unknown]	NA|256aa|down_9|NZ_CP023630.1_2180403_2181171_-	PRK05867, PRK05867, SDR family oxidoreductase
GCF_002448015.1_ASM244801v1	NZ_CP023630	Mycobacterium tuberculosis strain MDRMA2441 chromosome, complete genome	11	3119102-3120456	1,8,4	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-C,Type III-B,Type III-A	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-C,TypeIII-B,TypeIII-A	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_8|NZ_CP023630.1_3112381_3112636_-,NA|135aa|up_7|NZ_CP023630.1_3112783_3113188_+,NA|64aa|up_6|NZ_CP023630.1_3113184_3113376_+,NA|86aa|up_4|NZ_CP023630.1_3114962_3115220_+,NA|104aa|up_3|NZ_CP023630.1_3115324_3115636_+,NA|203aa|up_2|NZ_CP023630.1_3116055_3116664_+,NA	NA|92aa|up_9|NZ_CP023630.1_3111930_3112206_+	COG4453, COG4453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|85aa|up_8|NZ_CP023630.1_3112381_3112636_-	NA	NA|135aa|up_7|NZ_CP023630.1_3112783_3113188_+	NA	NA|64aa|up_6|NZ_CP023630.1_3113184_3113376_+	NA	NA|385aa|up_5|NZ_CP023630.1_3113574_3114729_+	pfam00665, rve, Integrase core domain	NA|86aa|up_4|NZ_CP023630.1_3114962_3115220_+	NA	NA|104aa|up_3|NZ_CP023630.1_3115324_3115636_+	NA	NA|203aa|up_2|NZ_CP023630.1_3116055_3116664_+	NA	NA|470aa|up_1|NZ_CP023630.1_3116734_3118144_+	pfam00665, rve, Integrase core domain	NA|271aa|up_0|NZ_CP023630.1_3118140_3118953_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|down_0|NZ_CP023630.1_3120482_3121744_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_1|NZ_CP023630.1_3123541_3123883_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_2|NZ_CP023630.1_3123883_3124900_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm6|383aa|down_3|NZ_CP023630.1_3124912_3126061_-	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	csm5gr7|376aa|down_4|NZ_CP023630.1_3126156_3127284_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_5|NZ_CP023630.1_3127280_3128189_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_6|NZ_CP023630.1_3128169_3128880_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_7|NZ_CP023630.1_3128889_3129264_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|810aa|down_8|NZ_CP023630.1_3129260_3131690_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_9|NZ_CP023630.1_3131686_3132409_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]
GCF_002448015.1_ASM244801v1	NZ_CP023630	Mycobacterium tuberculosis strain MDRMA2441 chromosome, complete genome	12	3121779-3123493	9,5,2	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-C,Type III-B,Type III-A	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-C,TypeIII-B,TypeIII-A	RT,csa3,c2c9_V-U4,cas3,DinG,WYL,cas4,DEDDh,cas2,cas1,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas6	NA|85aa|up_9|NZ_CP023630.1_3112381_3112636_-,NA|135aa|up_8|NZ_CP023630.1_3112783_3113188_+,NA|64aa|up_7|NZ_CP023630.1_3113184_3113376_+,NA|86aa|up_5|NZ_CP023630.1_3114962_3115220_+,NA|104aa|up_4|NZ_CP023630.1_3115324_3115636_+,NA|203aa|up_3|NZ_CP023630.1_3116055_3116664_+,NA	NA|85aa|up_9|NZ_CP023630.1_3112381_3112636_-	NA	NA|135aa|up_8|NZ_CP023630.1_3112783_3113188_+	NA	NA|64aa|up_7|NZ_CP023630.1_3113184_3113376_+	NA	NA|385aa|up_6|NZ_CP023630.1_3113574_3114729_+	pfam00665, rve, Integrase core domain	NA|86aa|up_5|NZ_CP023630.1_3114962_3115220_+	NA	NA|104aa|up_4|NZ_CP023630.1_3115324_3115636_+	NA	NA|203aa|up_3|NZ_CP023630.1_3116055_3116664_+	NA	NA|470aa|up_2|NZ_CP023630.1_3116734_3118144_+	pfam00665, rve, Integrase core domain	NA|271aa|up_1|NZ_CP023630.1_3118140_3118953_+	COG3267, ExeA, Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]	NA|421aa|up_0|NZ_CP023630.1_3120482_3121744_-	PHA02517, PHA02517, putative transposase OrfB; Reviewed	cas2|114aa|down_0|NZ_CP023630.1_3123541_3123883_-	COG1343, COG1343, CRISPR-associated protein Cas2 [Defense mechanisms]	cas1|339aa|down_1|NZ_CP023630.1_3123883_3124900_-	TIGR00287, CRISPR-associated_endonuclease_Cas1, CRISPR-associated endonuclease Cas1	csm6|383aa|down_2|NZ_CP023630.1_3124912_3126061_-	cd09699, Csm6_III-A, CRISPR/Cas system-associated protein Csm6	csm5gr7|376aa|down_3|NZ_CP023630.1_3126156_3127284_-	COG1332, COG1332, CRISPR system related protein, RAMP superfamily [Defense mechanisms]	csm4gr5|303aa|down_4|NZ_CP023630.1_3127280_3128189_-	COG1567, COG1567, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	csm3gr7|237aa|down_5|NZ_CP023630.1_3128169_3128880_-	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3	csm2gr11|125aa|down_6|NZ_CP023630.1_3128889_3129264_-	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2	cas10|810aa|down_7|NZ_CP023630.1_3129260_3131690_-	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10	cas6|241aa|down_8|NZ_CP023630.1_3131686_3132409_-	COG5551, COG5551, CRISPR system related protein, RAMP superfamily [Defense    mechanisms]	NA|182aa|down_9|NZ_CP023630.1_3132808_3133354_-	COG4293, COG4293, Uncharacterized protein conserved in bacteria [Function unknown]
GCF_002448015.1_ASM244801v1	NZ_CP023630	Mycobacterium tuberculosis strain MDRMA2441 chromosome, complete genome	13	3740585-3741126	6	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_CP023630.1_3755227_3755515_-,NA|87aa|down_9|NZ_CP023630.1_3768635_3768896_-	NA|282aa|up_9|NZ_CP023630.1_3719838_3720684_-	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|147aa|up_8|NZ_CP023630.1_3721158_3721599_+	cd04770, HTH_HMRTR, Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators	NA|290aa|up_7|NZ_CP023630.1_3721632_3722502_-	TIGR00766, Uncharacterized_protein_Dda3937_02003, inner membrane protein YhjD	NA|337aa|up_6|NZ_CP023630.1_3722522_3723533_-	PRK00927, PRK00927, tryptophanyl-tRNA synthetase; Reviewed	NA|211aa|up_5|NZ_CP023630.1_3723817_3724450_+	PRK14875, PRK14875, acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional	NA|410aa|up_4|NZ_CP023630.1_3724516_3725746_-	PRK08299, PRK08299, NADP-dependent isocitrate dehydrogenase	NA|450aa|up_3|NZ_CP023630.1_3726028_3727378_+	PRK07812, PRK07812, O-acetylhomoserine aminocarboxypropyltransferase; Validated	NA|380aa|up_2|NZ_CP023630.1_3727389_3728529_+	PRK00175, metX, homoserine O-acetyltransferase; Provisional	NA|244aa|up_1|NZ_CP023630.1_3728525_3729257_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|2524aa|up_0|NZ_CP023630.1_3729265_3736837_-	pfam00823, PPE, PPE family	NA|86aa|down_0|NZ_CP023630.1_3743097_3743355_-	pfam11222, DUF3017, Protein of unknown function (DUF3017)	NA|3158aa|down_1|NZ_CP023630.1_3743610_3753084_-	pfam00823, PPE, PPE family	NA|149aa|down_2|NZ_CP023630.1_3753709_3754156_+	pfam01548, DEDD_Tnp_IS110, Transposase	NA|247aa|down_3|NZ_CP023630.1_3754192_3754933_-	pfam01610, DDE_Tnp_ISL3, Transposase	NA|96aa|down_4|NZ_CP023630.1_3755227_3755515_-	NA	NA|3717aa|down_5|NZ_CP023630.1_3755851_3767002_-	pfam00823, PPE, PPE family	NA|265aa|down_6|NZ_CP023630.1_3767245_3768040_-	pfam08031, BBE, Berberine and berberine like	NA|124aa|down_7|NZ_CP023630.1_3768121_3768493_-	COG0277, GlcD, FAD/FMN-containing dehydrogenases [Energy production and conversion]	NA|73aa|down_8|NZ_CP023630.1_3768390_3768609_-	pfam01565, FAD_binding_4, FAD binding domain	NA|87aa|down_9|NZ_CP023630.1_3768635_3768896_-	NA
GCF_002448015.1_ASM244801v1	NZ_CP023630	Mycobacterium tuberculosis strain MDRMA2441 chromosome, complete genome	14	4110601-4110689	10	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_CP023630.1_4101187_4101958_-,NA|119aa|up_3|NZ_CP023630.1_4107092_4107449_+,NA|52aa|up_2|NZ_CP023630.1_4107548_4107704_+,NA|233aa|up_0|NZ_CP023630.1_4109705_4110404_-,NA|126aa|down_6|NZ_CP023630.1_4115924_4116302_+	NA|288aa|up_9|NZ_CP023630.1_4099569_4100433_+	TIGR01490, Uncharacterized_protein_Rv3661/MT3761, HAD-superfamily subfamily IB hydrolase, TIGR01490	NA|257aa|up_8|NZ_CP023630.1_4101187_4101958_-	NA	NA|549aa|up_7|NZ_CP023630.1_4101954_4103601_-	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]	NA|288aa|up_6|NZ_CP023630.1_4103597_4104461_-	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_CP023630.1_4104453_4105380_-	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_CP023630.1_4105381_4107007_-	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_CP023630.1_4107092_4107449_+	NA	NA|52aa|up_2|NZ_CP023630.1_4107548_4107704_+	NA	NA|652aa|up_1|NZ_CP023630.1_4107714_4109670_+	PRK00174, PRK00174, acetyl-CoA synthetase; Provisional	NA|233aa|up_0|NZ_CP023630.1_4109705_4110404_-	NA	NA|173aa|down_0|NZ_CP023630.1_4110749_4111268_+	pfam07332, Phage_holin_3_6, Putative Actinobacterial Holin-X, holin superfamily III	NA|328aa|down_1|NZ_CP023630.1_4111268_4112252_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|398aa|down_2|NZ_CP023630.1_4112244_4113438_-	pfam13365, Trypsin_2, Trypsin-like peptidase domain	NA|274aa|down_3|NZ_CP023630.1_4113443_4114265_-	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_CP023630.1_4114396_4115080_-	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|246aa|down_5|NZ_CP023630.1_4115079_4115817_-	COG0177, Nth, Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]	NA|126aa|down_6|NZ_CP023630.1_4115924_4116302_+	NA	NA|225aa|down_7|NZ_CP023630.1_4116400_4117075_+	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]	NA|265aa|down_8|NZ_CP023630.1_4117180_4117975_-	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_CP023630.1_4117981_4118437_-	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
