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
GCA_003713045.1_ASM371304v1	CP033427	Mycobacterium avium subsp. paratuberculosis strain MAPK_CN9/15 chromosome, complete genome	2	561767-561837	2	CRISPRCasFinder	no		DinG,DEDDh,cas3,csa3,WYL,cas4	Orphan	GGTGGGACGCAGTCGGACGCAGTC	24	0	0	NA	NA	NA	1	1	Orphan	DinG,DEDDh,cas3,csa3,WYL,cas4	NA|61aa|up_8|CP033427.1_558195_558378_-,NA|77aa|up_7|CP033427.1_558607_558838_-,NA|145aa|up_6|CP033427.1_558906_559341_-,NA|80aa|up_5|CP033427.1_559333_559573_-,NA|93aa|up_4|CP033427.1_559708_559987_+,NA|75aa|up_2|CP033427.1_560495_560720_-,NA|97aa|up_1|CP033427.1_561062_561353_-,NA|105aa|up_0|CP033427.1_561349_561664_-,NA|297aa|down_0|CP033427.1_561845_562736_-,NA|184aa|down_3|CP033427.1_563785_564337_-,NA|100aa|down_4|CP033427.1_567252_567552_+,NA|174aa|down_6|CP033427.1_568128_568650_+	NA|103aa|up_9|CP033427.1_557908_558217_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|61aa|up_8|CP033427.1_558195_558378_-	NA	NA|77aa|up_7|CP033427.1_558607_558838_-	NA	NA|145aa|up_6|CP033427.1_558906_559341_-	NA	NA|80aa|up_5|CP033427.1_559333_559573_-	NA	NA|93aa|up_4|CP033427.1_559708_559987_+	NA	NA|147aa|up_3|CP033427.1_560055_560496_-	pfam12728, HTH_17, Helix-turn-helix domain	NA|75aa|up_2|CP033427.1_560495_560720_-	NA	NA|97aa|up_1|CP033427.1_561062_561353_-	NA	NA|105aa|up_0|CP033427.1_561349_561664_-	NA	NA|297aa|down_0|CP033427.1_561845_562736_-	NA	NA|159aa|down_1|CP033427.1_563005_563482_-	pfam10888, DUF2742, Protein of unknown function (DUF2742)	NA|71aa|down_2|CP033427.1_563478_563691_-	TIGR01764, Probable_excisionase, DNA binding domain, excisionase family	NA|184aa|down_3|CP033427.1_563785_564337_-	NA	NA|100aa|down_4|CP033427.1_567252_567552_+	NA	NA|103aa|down_5|CP033427.1_567743_568052_+	COG5178, PRP8, U5 snRNP spliceosome subunit [RNA processing and modification]	NA|174aa|down_6|CP033427.1_568128_568650_+	NA	NA|423aa|down_7|CP033427.1_568657_569926_-	pfam04909, Amidohydro_2, Amidohydrolase	NA|405aa|down_8|CP033427.1_569950_571165_-	pfam04909, Amidohydro_2, Amidohydrolase	NA|268aa|down_9|CP033427.1_571168_571972_-	pfam06314, ADC, Acetoacetate decarboxylase (ADC)
GCA_003713045.1_ASM371304v1	CP033427	Mycobacterium avium subsp. paratuberculosis strain MAPK_CN9/15 chromosome, complete genome	3	590966-591046	3	CRISPRCasFinder	no		DinG,DEDDh,cas3,csa3,WYL,cas4	Orphan	GGCGCAGCGGGTCACCGCCATTAGCG	26	1	1	590992-591020	CP033427.1_1325925-1325897	NA	1	1	Orphan	DinG,DEDDh,cas3,csa3,WYL,cas4	NA|176aa|up_5|CP033427.1_585147_585675_+,NA	NA|310aa|up_9|CP033427.1_582388_583318_-	pfam09678, Caa3_CtaG, Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG)	NA|115aa|up_8|CP033427.1_583346_583691_-	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|123aa|up_7|CP033427.1_583890_584259_-	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|251aa|up_6|CP033427.1_584355_585108_+	COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]	NA|176aa|up_5|CP033427.1_585147_585675_+	NA	NA|177aa|up_4|CP033427.1_585662_586193_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|374aa|up_3|CP033427.1_586170_587292_-	pfam03969, AFG1_ATPase, AFG1-like ATPase	NA|255aa|up_2|CP033427.1_587290_588055_+	PRK14059, PRK14059, pyrimidine reductase family protein	NA|520aa|up_1|CP033427.1_588069_589629_+	pfam08386, Abhydrolase_4, TAP-like protein	NA|429aa|up_0|CP033427.1_589657_590944_+	pfam09594, GT87, Glycosyltransferase family 87	NA|135aa|down_0|CP033427.1_591111_591516_+	pfam01641, SelR, SelR domain	NA|283aa|down_1|CP033427.1_591649_592498_+	pfam18741, MTES_1575, REase_MTES_1575	NA|251aa|down_2|CP033427.1_592564_593317_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|232aa|down_3|CP033427.1_593313_594009_-	COG3253, ywfI, Predicted heme peroxidase involved in anaerobic stress response [General function prediction only]	NA|452aa|down_4|CP033427.1_594014_595370_-	PRK11883, PRK11883, protoporphyrinogen oxidase; Reviewed	NA|358aa|down_5|CP033427.1_595366_596440_-	PRK00115, hemE, uroporphyrinogen decarboxylase; Validated	NA|274aa|down_6|CP033427.1_596487_597309_+	PRK07327, PRK07327, enoyl-CoA hydratase/isomerase family protein	NA|206aa|down_7|CP033427.1_597436_598054_+	pfam11452, DUF3000, Protein of unknown function (DUF3000)	NA|429aa|down_8|CP033427.1_598055_599342_+	COG0349, Rnd, Ribonuclease D [Translation, ribosomal structure and biogenesis]	NA|642aa|down_9|CP033427.1_599386_601312_-	PRK05444, PRK05444, 1-deoxy-D-xylulose-5-phosphate synthase; Provisional
GCA_003713045.1_ASM371304v1	CP033427	Mycobacterium avium subsp. paratuberculosis strain MAPK_CN9/15 chromosome, complete genome	4	1270704-1270794	4	CRISPRCasFinder	no	DinG	DinG,DEDDh,cas3,csa3,WYL,cas4	Type IV-A	AGCCCGGCGACGATGCCCGCCGCAGCGCGGCGG	33	0	0	NA	NA	NA	1	1	Orphan	DinG,DEDDh,cas3,csa3,WYL,cas4	NA|71aa|up_7|CP033427.1_1262702_1262915_+,NA|96aa|up_4|CP033427.1_1265604_1265892_-,NA|153aa|up_3|CP033427.1_1266097_1266556_-,NA	NA|306aa|up_9|CP033427.1_1261154_1262072_-	COG3509, LpqC, Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]	NA|118aa|up_8|CP033427.1_1262263_1262617_+	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|71aa|up_7|CP033427.1_1262702_1262915_+	NA	NA|379aa|up_6|CP033427.1_1262990_1264127_-	pfam00823, PPE, PPE family	NA|379aa|up_5|CP033427.1_1264236_1265373_-	pfam00823, PPE, PPE family	NA|96aa|up_4|CP033427.1_1265604_1265892_-	NA	NA|153aa|up_3|CP033427.1_1266097_1266556_-	NA	NA|291aa|up_2|CP033427.1_1266595_1267468_-	cd02558, PSRA_1, Pseudouridine synthase, a subgroup of the RluA family	NA|585aa|up_1|CP033427.1_1267464_1269219_-	COG0578, GlpA, Glycerol-3-phosphate dehydrogenase [Energy production and conversion]	NA|472aa|up_0|CP033427.1_1269275_1270691_-	PRK07845, PRK07845, flavoprotein disulfide reductase; Reviewed	NA|156aa|down_0|CP033427.1_1270844_1271312_+	pfam13772, AIG2_2, AIG2-like family	NA|393aa|down_1|CP033427.1_1271334_1272513_-	cd08014, M20_Acy1-like, M20 Peptidase aminoacylase 1 subfamily	NA|401aa|down_2|CP033427.1_1272509_1273712_-	cd05672, M20_ACY1L2-like, M20 Peptidase aminoacylase 1-like protein 2-like, amidohydrolase subfamily	NA|219aa|down_3|CP033427.1_1273757_1274414_-	pfam01083, Cutinase, Cutinase	NA|272aa|down_4|CP033427.1_1274512_1275328_+	PRK08202, PRK08202, purine nucleoside phosphorylase; Provisional	NA|527aa|down_5|CP033427.1_1275332_1276913_+	cd05799, PGM2, This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1)	NA|258aa|down_6|CP033427.1_1276764_1277538_-	PRK00129, upp, uracil phosphoribosyltransferase; Reviewed	NA|277aa|down_7|CP033427.1_1277702_1278533_+	pfam04185, Phosphoesterase, Phosphoesterase family	NA|438aa|down_8|CP033427.1_1278558_1279872_+	PLN03142, PLN03142, Probable chromatin-remodeling complex ATPase chain; Provisional	NA|328aa|down_9|CP033427.1_1279904_1280888_+	PRK13685, PRK13685, hypothetical protein; Provisional
GCA_003713045.1_ASM371304v1	CP033427	Mycobacterium avium subsp. paratuberculosis strain MAPK_CN9/15 chromosome, complete genome	5	3487950-3488030	5	CRISPRCasFinder	no		DinG,DEDDh,cas3,csa3,WYL,cas4	Orphan	CGCCGCGAAGCGGGGTAGGGCGG	23	0	0	NA	NA	NA	1	1	Orphan	DinG,DEDDh,cas3,csa3,WYL,cas4	NA,NA	NA|109aa|up_9|CP033427.1_3475619_3475946_+	TIGR00690, DNA-directed_RNA_polymerase_subunit_omega, DNA-directed RNA polymerase, omega subunit	NA|421aa|up_8|CP033427.1_3475967_3477230_+	PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated	NA|404aa|up_7|CP033427.1_3477326_3478538_+	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|497aa|up_6|CP033427.1_3478687_3480178_-	COG2072, TrkA, Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]	NA|321aa|up_5|CP033427.1_3480223_3481186_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|264aa|up_4|CP033427.1_3481184_3481976_+	COG3714, COG3714, Predicted membrane protein [Function unknown]	NA|656aa|up_3|CP033427.1_3482060_3484028_+	PRK14873, PRK14873, primosomal protein N'	NA|162aa|up_2|CP033427.1_3484155_3484641_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|275aa|up_1|CP033427.1_3484646_3485471_-	COG2226, UbiE, Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]	NA|316aa|up_0|CP033427.1_3485628_3486576_+	PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed	NA|236aa|down_0|CP033427.1_3488070_3488778_+	PRK05581, PRK05581, ribulose-phosphate 3-epimerase; Validated	NA|342aa|down_1|CP033427.1_3488774_3489800_+	TIGR00326, eubact_ribD, riboflavin biosynthesis protein RibD	NA|519aa|down_2|CP033427.1_3489796_3491353_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|236aa|down_3|CP033427.1_3491349_3492057_-	pfam07161, LppX_LprAFG, LppX_LprAFG lipoprotein	NA|200aa|down_4|CP033427.1_3492175_3492775_+	PRK09289, PRK09289, riboflavin synthase	NA|426aa|down_5|CP033427.1_3492896_3494174_+	PRK09311, PRK09311, bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	NA|161aa|down_6|CP033427.1_3494223_3494706_+	PRK00061, ribH, 6,7-dimethyl-8-ribityllumazine synthase; Provisional	NA|155aa|down_7|CP033427.1_3494702_3495167_+	pfam10756, bPH_6, Bacterial PH domain	NA|113aa|down_8|CP033427.1_3495200_3495539_-	TIGR04529, hypothetical_protein, hemophore-related protein, Rv0203/Rv1174c family	NA|489aa|down_9|CP033427.1_3495642_3497109_-	pfam00823, PPE, PPE family
