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_002208705.2_ASM220870v2	NZ_CP022095	Mycobacterium avium subsp. paratuberculosis strain FDAARGOS_305 chromosome, complete genome	1	1156633-1156740	1	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,cas4,WYL	Orphan	CGGCCAAGAAGGCACCGGCCAAGA	24	1	2	1156657-1156674|1156657-1156674	NZ_CP022095.2_534318-534335|NZ_CP022095.2_3618361-3618344	NA	2	2	Orphan	csa3,cas3,DEDDh,DinG,cas4,WYL	NA,NA	NA|244aa|up_9|NZ_CP022095.2_1148442_1149174_+	TIGR03964, uncharacterized_protein_putative_amidase, mycofactocin system creatininase family protein	NA|473aa|up_8|NZ_CP022095.2_1149170_1150589_+	TIGR03965, glycosyltransferase_Rv0696_family, mycofactocin system glycosyltransferase	NA|480aa|up_7|NZ_CP022095.2_1150598_1152038_+	TIGR03970, Rv0697, dehydrogenase, Rv0697 family	NA|198aa|up_6|NZ_CP022095.2_1152191_1152785_+	pfam00440, TetR_N, Bacterial regulatory proteins, tetR family	NA|102aa|up_5|NZ_CP022095.2_1153136_1153442_+	PRK00596, rpsJ, 30S ribosomal protein S10; Reviewed	NA|218aa|up_4|NZ_CP022095.2_1153456_1154110_+	PRK00001, rplC, 50S ribosomal protein L3; Validated	NA|218aa|up_3|NZ_CP022095.2_1154109_1154763_+	PRK05319, rplD, 50S ribosomal protein L4; Provisional	NA|101aa|up_2|NZ_CP022095.2_1154762_1155065_+	PRK05738, rplW, 50S ribosomal protein L23; Reviewed	NA|281aa|up_1|NZ_CP022095.2_1155087_1155930_+	PRK09374, rplB, 50S ribosomal protein L2; Validated	NA|94aa|up_0|NZ_CP022095.2_1155957_1156239_+	PRK00357, rpsS, 30S ribosomal protein S19; Reviewed	NA|281aa|down_0|NZ_CP022095.2_1156777_1157620_+	PRK00310, rpsC, 30S ribosomal protein S3; Reviewed	NA|139aa|down_1|NZ_CP022095.2_1157623_1158040_+	PRK09203, rplP, 50S ribosomal protein L16; Reviewed	NA|78aa|down_2|NZ_CP022095.2_1158039_1158273_+	PRK00306, PRK00306, 50S ribosomal protein L29; Reviewed	NA|117aa|down_3|NZ_CP022095.2_1158272_1158623_+	PRK05610, rpsQ, 30S ribosomal protein S17; Reviewed	NA|790aa|down_4|NZ_CP022095.2_1158713_1161083_+	cd16025, PAS_like, Bacterial Arylsulfatase of Pseudomonas aeruginosa and related proteins	NA|376aa|down_5|NZ_CP022095.2_1161094_1162222_-	TIGR00975, precursor_PBP-3_PstS-3_Antigen_Ag88	NA|314aa|down_6|NZ_CP022095.2_1162489_1163431_+	pfam14494, DUF4436, Domain of unknown function (DUF4436)	NA|297aa|down_7|NZ_CP022095.2_1163459_1164350_+	pfam03781, FGE-sulfatase, Sulfatase-modifying factor enzyme 1	NA|296aa|down_8|NZ_CP022095.2_1164533_1165421_+	pfam14494, DUF4436, Domain of unknown function (DUF4436)	NA|501aa|down_9|NZ_CP022095.2_1165508_1167011_+	pfam02720, DUF222, Domain of unknown function (DUF222)
GCF_002208705.2_ASM220870v2	NZ_CP022095	Mycobacterium avium subsp. paratuberculosis strain FDAARGOS_305 chromosome, complete genome	2	1751284-1751374	2	CRISPRCasFinder	no	DinG	csa3,cas3,DEDDh,DinG,cas4,WYL	Type IV-A	CCGCCGCGCTGCGGCGGGCATCGTCGCCGGGCT	33	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,cas4,WYL	NA,NA|153aa|down_3|NZ_CP022095.2_1755521_1755980_+,NA|96aa|down_4|NZ_CP022095.2_1756185_1756473_+	NA|336aa|up_9|NZ_CP022095.2_1740163_1741171_+	PRK13685, PRK13685, hypothetical protein; Provisional	NA|328aa|up_8|NZ_CP022095.2_1741189_1742173_-	PRK13685, PRK13685, hypothetical protein; Provisional	NA|438aa|up_7|NZ_CP022095.2_1742205_1743519_-	PLN03142, PLN03142, Probable chromatin-remodeling complex ATPase chain; Provisional	NA|291aa|up_6|NZ_CP022095.2_1743544_1744417_-	pfam04185, Phosphoesterase, Phosphoesterase family	NA|258aa|up_5|NZ_CP022095.2_1744539_1745313_+	PRK00129, upp, uracil phosphoribosyltransferase; Reviewed	NA|272aa|up_4|NZ_CP022095.2_1746749_1747565_-	PRK08202, PRK08202, purine nucleoside phosphorylase; Provisional	NA|206aa|up_3|NZ_CP022095.2_1747702_1748320_+	pfam01083, Cutinase, Cutinase	NA|401aa|up_2|NZ_CP022095.2_1748365_1749568_+	cd05672, M20_ACY1L2-like, M20 Peptidase aminoacylase 1-like protein 2-like, amidohydrolase subfamily	NA|393aa|up_1|NZ_CP022095.2_1749564_1750743_+	cd08014, M20_Acy1-like, M20 Peptidase aminoacylase 1 subfamily	NA|156aa|up_0|NZ_CP022095.2_1750765_1751233_-	pfam13772, AIG2_2, AIG2-like family	NA|472aa|down_0|NZ_CP022095.2_1751386_1752802_+	PRK07845, PRK07845, flavoprotein disulfide reductase; Reviewed	NA|585aa|down_1|NZ_CP022095.2_1752858_1754613_+	COG0578, GlpA, Glycerol-3-phosphate dehydrogenase [Energy production and conversion]	NA|291aa|down_2|NZ_CP022095.2_1754609_1755482_+	cd02558, PSRA_1, Pseudouridine synthase, a subgroup of the RluA family	NA|153aa|down_3|NZ_CP022095.2_1755521_1755980_+	NA	NA|96aa|down_4|NZ_CP022095.2_1756185_1756473_+	NA	NA|379aa|down_5|NZ_CP022095.2_1756704_1757841_+	pfam00823, PPE, PPE family	NA|379aa|down_6|NZ_CP022095.2_1757950_1759087_+	pfam00823, PPE, PPE family	NA|118aa|down_7|NZ_CP022095.2_1759460_1759814_-	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|306aa|down_8|NZ_CP022095.2_1760005_1760923_+	COG3509, LpqC, Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]	NA|251aa|down_9|NZ_CP022095.2_1760919_1761672_-	COG0266, Nei, Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]
GCF_002208705.2_ASM220870v2	NZ_CP022095	Mycobacterium avium subsp. paratuberculosis strain FDAARGOS_305 chromosome, complete genome	3	2277626-2277706	3	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,cas4,WYL	Orphan	GCCGCCGAAGGCGGGTAGCTGGA	23	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,cas4,WYL	NA|59aa|up_7|NZ_CP022095.2_2270624_2270801_-,NA|80aa|up_3|NZ_CP022095.2_2273604_2273844_-,NA	NA|138aa|up_9|NZ_CP022095.2_2269221_2269635_+	pfam06150, ChaB, ChaB	NA|280aa|up_8|NZ_CP022095.2_2269725_2270565_-	cd05355, SDR_c1, classical (c) SDR, subgroup 1	NA|59aa|up_7|NZ_CP022095.2_2270624_2270801_-	NA	NA|191aa|up_6|NZ_CP022095.2_2271110_2271683_+	pfam09167, DUF1942, Domain of unknown function (DUF1942)	NA|323aa|up_5|NZ_CP022095.2_2271748_2272717_+	cd07987, LPLAT_MGAT-like, Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like	NA|232aa|up_4|NZ_CP022095.2_2272740_2273436_-	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]	NA|80aa|up_3|NZ_CP022095.2_2273604_2273844_-	NA	NA|266aa|up_2|NZ_CP022095.2_2274175_2274973_+	cd04254, AAK_UMPK-PyrH-Ec, UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and via gene repression of carbamoyl phosphate synthetase (the first enzyme of the pyrimidine biosynthesis pathway)	NA|186aa|up_1|NZ_CP022095.2_2274988_2275546_+	PRK00083, frr, ribosome recycling factor; Reviewed	NA|312aa|up_0|NZ_CP022095.2_2275578_2276514_+	pfam01148, CTP_transf_1, Cytidylyltransferase family	NA|168aa|down_0|NZ_CP022095.2_2277773_2278277_+	cd03011, TlpA_like_ScsD_MtbDsbE, TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif	NA|85aa|down_1|NZ_CP022095.2_2279136_2279391_-	pfam10939, DUF2631, Protein of unknown function (DUF2631)	NA|408aa|down_2|NZ_CP022095.2_2279512_2280736_+	PRK05447, PRK05447, 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional	NA|408aa|down_3|NZ_CP022095.2_2280755_2281979_+	pfam02163, Peptidase_M50, Peptidase family M50	NA|389aa|down_4|NZ_CP022095.2_2282011_2283178_+	PRK00366, ispG, flavodoxin-dependent (E)-4-hydroxy-3-methylbut-2-enyl-diphosphate synthase	NA|285aa|down_5|NZ_CP022095.2_2283226_2284081_+	COG3393, COG3393, Predicted acetyltransferase [General function prediction only]	NA|606aa|down_6|NZ_CP022095.2_2284209_2286027_+	COG0768, FtsI, Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]	NA|196aa|down_7|NZ_CP022095.2_2286072_2286660_+	pfam08044, DUF1707, Domain of unknown function (DUF1707)	NA|286aa|down_8|NZ_CP022095.2_2286691_2287549_+	PRK12896, PRK12896, methionine aminopeptidase; Reviewed	NA|498aa|down_9|NZ_CP022095.2_2287553_2289047_+	PRK00784, PRK00784, cobyric acid synthase
GCF_002208705.2_ASM220870v2	NZ_CP022095	Mycobacterium avium subsp. paratuberculosis strain FDAARGOS_305 chromosome, complete genome	4	2431088-2431168	4	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,cas4,WYL	Orphan	CGCTAATGGCGGTGACCCGCTGCGCC	26	1	1	2431114-2431142	NZ_CP022095.2_1696181-1696153	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,cas4,WYL	NA,NA|176aa|down_5|NZ_CP022095.2_2436458_2436986_-	NA|642aa|up_9|NZ_CP022095.2_2420821_2422747_+	PRK05444, PRK05444, 1-deoxy-D-xylulose-5-phosphate synthase; Provisional	NA|429aa|up_8|NZ_CP022095.2_2422791_2424078_-	COG0349, Rnd, Ribonuclease D [Translation, ribosomal structure and biogenesis]	NA|206aa|up_7|NZ_CP022095.2_2424079_2424697_-	pfam11452, DUF3000, Protein of unknown function (DUF3000)	NA|274aa|up_6|NZ_CP022095.2_2424824_2425646_-	PRK07327, PRK07327, enoyl-CoA hydratase/isomerase family protein	NA|358aa|up_5|NZ_CP022095.2_2425693_2426767_+	PRK00115, hemE, uroporphyrinogen decarboxylase; Validated	NA|452aa|up_4|NZ_CP022095.2_2426763_2428119_+	PRK11883, PRK11883, protoporphyrinogen oxidase; Reviewed	NA|232aa|up_3|NZ_CP022095.2_2428124_2428820_+	COG3253, ywfI, Predicted heme peroxidase involved in anaerobic stress response [General function prediction only]	NA|251aa|up_2|NZ_CP022095.2_2428816_2429569_+	pfam13649, Methyltransf_25, Methyltransferase domain	NA|283aa|up_1|NZ_CP022095.2_2429635_2430484_-	pfam18741, MTES_1575, REase_MTES_1575	NA|135aa|up_0|NZ_CP022095.2_2430617_2431022_-	pfam01641, SelR, SelR domain	NA|429aa|down_0|NZ_CP022095.2_2431189_2432476_-	pfam09594, GT87, Glycosyltransferase family 87	NA|520aa|down_1|NZ_CP022095.2_2432504_2434064_-	pfam08386, Abhydrolase_4, TAP-like protein	NA|255aa|down_2|NZ_CP022095.2_2434078_2434843_-	PRK14059, PRK14059, pyrimidine reductase family protein	NA|374aa|down_3|NZ_CP022095.2_2434841_2435963_+	pfam03969, AFG1_ATPase, AFG1-like ATPase	NA|177aa|down_4|NZ_CP022095.2_2435940_2436471_-	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|176aa|down_5|NZ_CP022095.2_2436458_2436986_-	NA	NA|251aa|down_6|NZ_CP022095.2_2437025_2437778_-	COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]	NA|123aa|down_7|NZ_CP022095.2_2437874_2438243_+	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|115aa|down_8|NZ_CP022095.2_2438442_2438787_+	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|310aa|down_9|NZ_CP022095.2_2438815_2439745_+	pfam09678, Caa3_CtaG, Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG)
GCF_002208705.2_ASM220870v2	NZ_CP022095	Mycobacterium avium subsp. paratuberculosis strain FDAARGOS_305 chromosome, complete genome	5	2460277-2460367	5	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,cas4,WYL	Orphan	GACTGCGTCCGACTGCGTCCCACC	24	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,cas4,WYL	NA|174aa|up_7|NZ_CP022095.2_2453483_2454005_-,NA|100aa|up_5|NZ_CP022095.2_2454581_2454881_-,NA|155aa|up_4|NZ_CP022095.2_2455340_2455805_-,NA|113aa|up_3|NZ_CP022095.2_2455968_2456307_-,NA|184aa|up_2|NZ_CP022095.2_2457796_2458348_+,NA|97aa|down_0|NZ_CP022095.2_2460778_2461069_+,NA|75aa|down_1|NZ_CP022095.2_2461411_2461636_+,NA|80aa|down_3|NZ_CP022095.2_2462558_2462798_+,NA|145aa|down_4|NZ_CP022095.2_2462790_2463225_+,NA|77aa|down_5|NZ_CP022095.2_2463293_2463524_+,NA|61aa|down_6|NZ_CP022095.2_2463753_2463936_+,NA|173aa|down_8|NZ_CP022095.2_2464589_2465108_-,NA|84aa|down_9|NZ_CP022095.2_2465104_2465356_-	NA|405aa|up_9|NZ_CP022095.2_2450968_2452183_+	pfam04909, Amidohydro_2, Amidohydrolase	NA|426aa|up_8|NZ_CP022095.2_2452198_2453476_+	pfam04909, Amidohydro_2, Amidohydrolase	NA|174aa|up_7|NZ_CP022095.2_2453483_2454005_-	NA	NA|103aa|up_6|NZ_CP022095.2_2454081_2454390_-	COG5178, PRP8, U5 snRNP spliceosome subunit [RNA processing and modification]	NA|100aa|up_5|NZ_CP022095.2_2454581_2454881_-	NA	NA|155aa|up_4|NZ_CP022095.2_2455340_2455805_-	NA	NA|113aa|up_3|NZ_CP022095.2_2455968_2456307_-	NA	NA|184aa|up_2|NZ_CP022095.2_2457796_2458348_+	NA	NA|71aa|up_1|NZ_CP022095.2_2458442_2458655_+	TIGR01764, Probable_excisionase, DNA binding domain, excisionase family	NA|159aa|up_0|NZ_CP022095.2_2458651_2459128_+	pfam10888, DUF2742, Protein of unknown function (DUF2742)	NA|97aa|down_0|NZ_CP022095.2_2460778_2461069_+	NA	NA|75aa|down_1|NZ_CP022095.2_2461411_2461636_+	NA	NA|147aa|down_2|NZ_CP022095.2_2461635_2462076_+	pfam12728, HTH_17, Helix-turn-helix domain	NA|80aa|down_3|NZ_CP022095.2_2462558_2462798_+	NA	NA|145aa|down_4|NZ_CP022095.2_2462790_2463225_+	NA	NA|77aa|down_5|NZ_CP022095.2_2463293_2463524_+	NA	NA|61aa|down_6|NZ_CP022095.2_2463753_2463936_+	NA	NA|103aa|down_7|NZ_CP022095.2_2463914_2464223_-	smart01040, Bro-N, BRO family, N-terminal domain	NA|173aa|down_8|NZ_CP022095.2_2464589_2465108_-	NA	NA|84aa|down_9|NZ_CP022095.2_2465104_2465356_-	NA
GCF_002208705.2_ASM220870v2	NZ_CP022095	Mycobacterium avium subsp. paratuberculosis strain FDAARGOS_305 chromosome, complete genome	6	2635521-2635598	6	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,cas4,WYL	Orphan	TGGCCGCCGGCGCGGCGGCCGCCA	24	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,cas4,WYL	NA|82aa|up_7|NZ_CP022095.2_2626544_2626790_-,NA|111aa|up_1|NZ_CP022095.2_2632226_2632559_+,NA	NA|373aa|up_9|NZ_CP022095.2_2616329_2617448_+	PRK07865, PRK07865, N-succinyldiaminopimelate aminotransferase; Reviewed	NA|795aa|up_8|NZ_CP022095.2_2617529_2619914_+	COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism]	NA|82aa|up_7|NZ_CP022095.2_2626544_2626790_-	NA	NA|68aa|up_6|NZ_CP022095.2_2626956_2627160_+	pfam09957, VapB_antitoxin, Bacterial antitoxin of type II TA system, VapB	NA|351aa|up_5|NZ_CP022095.2_2627156_2628209_-	pfam00823, PPE, PPE family	NA|396aa|up_4|NZ_CP022095.2_2628283_2629471_-	pfam00823, PPE, PPE family	NA|231aa|up_3|NZ_CP022095.2_2630281_2630974_+	PRK03846, PRK03846, adenylylsulfate kinase; Provisional	NA|420aa|up_2|NZ_CP022095.2_2630970_2632230_+	PRK04149, sat, sulfate adenylyltransferase; Reviewed	NA|111aa|up_1|NZ_CP022095.2_2632226_2632559_+	NA	NA|580aa|up_0|NZ_CP022095.2_2632569_2634309_-	PRK05850, PRK05850, acyl-CoA synthetase; Validated	NA|531aa|down_0|NZ_CP022095.2_2636438_2638031_-	COG2508, COG2508, Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]	NA|547aa|down_1|NZ_CP022095.2_2638115_2639756_+	TIGR01236, D1pyr5carbox1, delta-1-pyrroline-5-carboxylate dehydrogenase, group 1	NA|321aa|down_2|NZ_CP022095.2_2639755_2640718_+	COG0506, PutA, Proline dehydrogenase [Amino acid transport and metabolism]	NA|201aa|down_3|NZ_CP022095.2_2640810_2641413_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|390aa|down_4|NZ_CP022095.2_2641433_2642603_-	PRK07855, PRK07855, lipid-transfer protein; Provisional	NA|154aa|down_5|NZ_CP022095.2_2642599_2643061_-	cd03455, SAV4209, SAV4209 is a Streptomyces avermitilis protein with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit	NA|374aa|down_6|NZ_CP022095.2_2643057_2644179_-	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|135aa|down_7|NZ_CP022095.2_2644186_2644591_-	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]	NA|182aa|down_8|NZ_CP022095.2_2644590_2645136_-	pfam13452, MaoC_dehydrat_N, N-terminal half of MaoC dehydratase	NA|395aa|down_9|NZ_CP022095.2_2645155_2646340_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26
GCF_002208705.2_ASM220870v2	NZ_CP022095	Mycobacterium avium subsp. paratuberculosis strain FDAARGOS_305 chromosome, complete genome	7	3399871-3399972	7	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,cas4,WYL	Orphan	GCGTGACGCTCGACGGGCGCGGCGGAATGACGCTCG	36	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,cas4,WYL	NA|114aa|up_1|NZ_CP022095.2_3398819_3399161_-,NA|226aa|down_8|NZ_CP022095.2_3410173_3410851_-	NA|479aa|up_9|NZ_CP022095.2_3389447_3390884_-	TIGR00653, Glutamine_synthetase, glutamine synthetase, type I	NA|141aa|up_8|NZ_CP022095.2_3391128_3391551_+	pfam06271, RDD, RDD family	NA|251aa|up_7|NZ_CP022095.2_3391609_3392362_-	pfam13829, DUF4191, Domain of unknown function (DUF4191)	NA|308aa|up_6|NZ_CP022095.2_3392390_3393314_-	PRK05481, PRK05481, lipoyl synthase; Provisional	NA|234aa|up_5|NZ_CP022095.2_3393310_3394012_-	PRK14345, PRK14345, lipoyl(octanoyl) transferase LipB	NA|308aa|up_4|NZ_CP022095.2_3394061_3394985_-	COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]	NA|591aa|up_3|NZ_CP022095.2_3395001_3396774_-	TIGR02927, putative_dihydrolipoamide_acyltransferase, 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase	NA|593aa|up_2|NZ_CP022095.2_3396997_3398776_+	PRK05855, PRK05855, SDR family oxidoreductase	NA|114aa|up_1|NZ_CP022095.2_3398819_3399161_-	NA	NA|150aa|up_0|NZ_CP022095.2_3399309_3399759_+	cd07812, SRPBCC, START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily	NA|516aa|down_0|NZ_CP022095.2_3400000_3401548_-	PRK00913, PRK00913, multifunctional aminopeptidase A; Provisional	NA|351aa|down_1|NZ_CP022095.2_3401821_3402874_+	pfam01548, DEDD_Tnp_IS110, Transposase	NA|368aa|down_2|NZ_CP022095.2_3402888_3403992_+	PRK00389, gcvT, glycine cleavage system aminomethyltransferase GcvT	NA|372aa|down_3|NZ_CP022095.2_3404046_3405162_+	PRK13357, PRK13357, branched-chain amino acid aminotransferase; Provisional	NA|252aa|down_4|NZ_CP022095.2_3405369_3406125_-	PRK00235, cobS, cobalamin synthase; Reviewed	NA|179aa|down_5|NZ_CP022095.2_3407169_3407706_-	cd00544, CobU, Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)	NA|359aa|down_6|NZ_CP022095.2_3408616_3409693_+	COG1929, COG1929, Glycerate kinase [Carbohydrate transport and metabolism]	NA|119aa|down_7|NZ_CP022095.2_3409790_3410147_+	COG0316, sufA, Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]	NA|226aa|down_8|NZ_CP022095.2_3410173_3410851_-	NA	NA|325aa|down_9|NZ_CP022095.2_3411030_3412005_+	cd01942, ribokinase_group_A, Ribokinase-like subgroup A
GCF_002208705.2_ASM220870v2	NZ_CP022095	Mycobacterium avium subsp. paratuberculosis strain FDAARGOS_305 chromosome, complete genome	8	3618403-3618509	8	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,cas4,WYL	Orphan	CGTTCGAGTGCCGCTTCGGCGTACGGCGCGCCGCGTTCGGC	41	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,cas4,WYL	NA|203aa|up_8|NZ_CP022095.2_3609498_3610107_+,NA|222aa|up_5|NZ_CP022095.2_3612158_3612824_-,NA	NA|407aa|up_9|NZ_CP022095.2_3608057_3609278_-	pfam01548, DEDD_Tnp_IS110, Transposase	NA|203aa|up_8|NZ_CP022095.2_3609498_3610107_+	NA	NA|210aa|up_7|NZ_CP022095.2_3610114_3610744_-	pfam00440, TetR_N, Bacterial regulatory proteins, tetR family	NA|408aa|up_6|NZ_CP022095.2_3610837_3612061_+	COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]	NA|222aa|up_5|NZ_CP022095.2_3612158_3612824_-	NA	NA|506aa|up_4|NZ_CP022095.2_3612918_3614436_+	COG2272, PnbA, Carboxylesterase type B [Lipid metabolism]	NA|666aa|up_3|NZ_CP022095.2_3614454_3616452_+	pfam02958, EcKinase, Ecdysteroid kinase	NA|165aa|up_2|NZ_CP022095.2_3616448_3616943_+	COG3265, GntK, Gluconate kinase [Carbohydrate transport and metabolism]	NA|130aa|up_1|NZ_CP022095.2_3617023_3617413_+	pfam11903, ParD_like, ParD-like antitoxin of type II bacterial toxin-antitoxin system	NA|193aa|up_0|NZ_CP022095.2_3617443_3618022_+	COG4185, COG4185, Uncharacterized protein conserved in bacteria [Function unknown]	NA|187aa|down_0|NZ_CP022095.2_3619204_3619765_+	cd01011, nicotinamidase, Nicotinamidase/pyrazinamidase (PZase)	NA|267aa|down_1|NZ_CP022095.2_3619764_3620565_+	pfam02136, NTF2, Nuclear transport factor 2 (NTF2) domain	NA|117aa|down_2|NZ_CP022095.2_3620578_3620929_-	pfam13564, DoxX_2, DoxX-like family	NA|407aa|down_3|NZ_CP022095.2_3621248_3622469_+	pfam01548, DEDD_Tnp_IS110, Transposase	NA|312aa|down_4|NZ_CP022095.2_3622549_3623485_+	PRK09636, PRK09636, RNA polymerase sigma factor SigJ; Provisional	NA|443aa|down_5|NZ_CP022095.2_3623550_3624879_+	cd13585, PBP2_TMBP_like, The periplasmic-binding component of ABC transport systems specific for trehalose/maltose and similar oligosaccharides; possess type 2 periplasmic binding fold	NA|315aa|down_6|NZ_CP022095.2_3624875_3625820_+	COG1175, UgpA, ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]	NA|281aa|down_7|NZ_CP022095.2_3625806_3626649_+	COG0395, UgpE, ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]	NA|357aa|down_8|NZ_CP022095.2_3626651_3627722_+	PRK11650, ugpC, sn-glycerol-3-phosphate ABC transporter ATP-binding protein UgpC	NA|323aa|down_9|NZ_CP022095.2_3627729_3628698_+	cd07207, Pat_ExoU_VipD_like, ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2
GCF_002208705.2_ASM220870v2	NZ_CP022095	Mycobacterium avium subsp. paratuberculosis strain FDAARGOS_305 chromosome, complete genome	9	3693651-3693749	9	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,cas4,WYL	Orphan	CGGTTGCGGCCCGACCCCCAGCGG	24	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,cas4,WYL	NA,NA	NA|268aa|up_9|NZ_CP022095.2_3685195_3685999_-	COG1804, CaiB, Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]	NA|196aa|up_8|NZ_CP022095.2_3686112_3686700_+	pfam00440, TetR_N, Bacterial regulatory proteins, tetR family	NA|295aa|up_7|NZ_CP022095.2_3686720_3687605_-	TIGR02427, b-ketoadipate_enol-lactone_hydrolase, 3-oxoadipate enol-lactonase	NA|607aa|up_6|NZ_CP022095.2_3687749_3689570_+	COG1022, FAA1, Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]	NA|218aa|up_5|NZ_CP022095.2_3689593_3690247_-	TIGR03401, Uncharacterized_protein_YFL061W/YNL335W, HD domain protein, cyanamide hydratase family	NA|237aa|up_4|NZ_CP022095.2_3690292_3691003_-	PRK07577, PRK07577, SDR family oxidoreductase	NA|146aa|up_3|NZ_CP022095.2_3691184_3691622_-	pfam00553, CBM_2, Cellulose binding domain	NA|281aa|up_2|NZ_CP022095.2_3691845_3692688_+	pfam12833, HTH_18, Helix-turn-helix domain	NA|134aa|up_1|NZ_CP022095.2_3692641_3693043_+	cd08355, TioX_like, Micromonospora sp	NA|104aa|up_0|NZ_CP022095.2_3693193_3693505_+	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|152aa|down_0|NZ_CP022095.2_3693891_3694347_+	pfam05988, DUF899, Bacterial protein of unknown function (DUF899)	NA|492aa|down_1|NZ_CP022095.2_3694543_3696019_+	PRK06524, PRK06524, biotin carboxylase-like protein; Validated	NA|392aa|down_2|NZ_CP022095.2_3696015_3697191_+	COG1680, AmpC, Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]	NA|410aa|down_3|NZ_CP022095.2_3697187_3698417_-	PRK01565, PRK01565, thiamine biosynthesis protein ThiI; Provisional	NA|148aa|down_4|NZ_CP022095.2_3698581_3699025_+	pfam00011, HSP20, Hsp20/alpha crystallin family	NA|127aa|down_5|NZ_CP022095.2_3699085_3699466_-	cd04766, HTH_HspR, Helix-Turn-Helix DNA binding domain of the HspR transcription regulator	NA|143aa|down_6|NZ_CP022095.2_3699571_3700000_+	pfam00011, HSP20, Hsp20/alpha crystallin family	NA|107aa|down_7|NZ_CP022095.2_3700312_3700633_+	pfam00226, DnaJ, DnaJ domain	NA|506aa|down_8|NZ_CP022095.2_3700686_3702204_-	pfam00668, Condensation, Condensation domain	NA|186aa|down_9|NZ_CP022095.2_3702742_3703300_+	COG0545, FkpA, FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]
GCF_002208705.2_ASM220870v2	NZ_CP022095	Mycobacterium avium subsp. paratuberculosis strain FDAARGOS_305 chromosome, complete genome	10	4366487-4366567	10	CRISPRCasFinder	no		csa3,cas3,DEDDh,DinG,cas4,WYL	Orphan	CCGCCCTACCCCGCTTCGCGGCG	23	0	0	NA	NA	NA	1	1	Orphan	csa3,cas3,DEDDh,DinG,cas4,WYL	NA,NA	NA|489aa|up_9|NZ_CP022095.2_4357407_4358874_+	pfam00823, PPE, PPE family	NA|113aa|up_8|NZ_CP022095.2_4358977_4359316_+	TIGR04529, hypothetical_protein, hemophore-related protein, Rv0203/Rv1174c family	NA|155aa|up_7|NZ_CP022095.2_4359349_4359814_-	pfam10756, bPH_6, Bacterial PH domain	NA|161aa|up_6|NZ_CP022095.2_4359810_4360293_-	PRK00061, ribH, 6,7-dimethyl-8-ribityllumazine synthase; Provisional	NA|426aa|up_5|NZ_CP022095.2_4360342_4361620_-	PRK09311, PRK09311, bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	NA|200aa|up_4|NZ_CP022095.2_4361741_4362341_-	PRK09289, PRK09289, riboflavin synthase	NA|236aa|up_3|NZ_CP022095.2_4362459_4363167_+	pfam07161, LppX_LprAFG, LppX_LprAFG lipoprotein	NA|519aa|up_2|NZ_CP022095.2_4363163_4364720_+	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|342aa|up_1|NZ_CP022095.2_4364716_4365742_-	TIGR00326, eubact_ribD, riboflavin biosynthesis protein RibD	NA|236aa|up_0|NZ_CP022095.2_4365738_4366446_-	PRK05581, PRK05581, ribulose-phosphate 3-epimerase; Validated	NA|316aa|down_0|NZ_CP022095.2_4367940_4368888_-	PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed	NA|275aa|down_1|NZ_CP022095.2_4369045_4369870_+	COG2226, UbiE, Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]	NA|162aa|down_2|NZ_CP022095.2_4369875_4370361_-	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|264aa|down_3|NZ_CP022095.2_4372539_4373331_-	COG3714, COG3714, Predicted membrane protein [Function unknown]	NA|321aa|down_4|NZ_CP022095.2_4373329_4374292_+	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|497aa|down_5|NZ_CP022095.2_4374337_4375828_+	COG2072, TrkA, Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]	NA|404aa|down_6|NZ_CP022095.2_4375977_4377189_-	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|421aa|down_7|NZ_CP022095.2_4377285_4378548_-	PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated	NA|109aa|down_8|NZ_CP022095.2_4378569_4378896_-	TIGR00690, DNA-directed_RNA_polymerase_subunit_omega, DNA-directed RNA polymerase, omega subunit	NA|224aa|down_9|NZ_CP022095.2_4378972_4379644_-	PRK00300, gmk, guanylate kinase; Provisional
