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_003816035.1_ASM381603v1	CP033909	Mycobacterium avium subsp. paratuberculosis strain MAPK_JJ1/13 chromosome, complete genome	1	1129938-1130018	1	CRISPRCasFinder	no		DEDDh,cas3,csa3,WYL,cas4,DinG	Orphan	CGCCGCGAAGCGGGGTAGGGCGG	23	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,csa3,WYL,cas4,DinG	NA,NA	NA|109aa|up_9|CP033909.1_1117607_1117934_+	TIGR00690, DNA-directed_RNA_polymerase_subunit_omega, DNA-directed RNA polymerase, omega subunit	NA|421aa|up_8|CP033909.1_1117955_1119218_+	PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated	NA|404aa|up_7|CP033909.1_1119314_1120526_+	PRK05250, PRK05250, S-adenosylmethionine synthetase; Validated	NA|497aa|up_6|CP033909.1_1120675_1122166_-	COG2072, TrkA, Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]	NA|321aa|up_5|CP033909.1_1122211_1123174_-	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold	NA|264aa|up_4|CP033909.1_1123172_1123964_+	COG3714, COG3714, Predicted membrane protein [Function unknown]	NA|656aa|up_3|CP033909.1_1124048_1126016_+	PRK14873, PRK14873, primosomal protein N'	NA|162aa|up_2|CP033909.1_1126143_1126629_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|275aa|up_1|CP033909.1_1126634_1127459_-	COG2226, UbiE, Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]	NA|316aa|up_0|CP033909.1_1127616_1128564_+	PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed	NA|236aa|down_0|CP033909.1_1130058_1130766_+	PRK05581, PRK05581, ribulose-phosphate 3-epimerase; Validated	NA|342aa|down_1|CP033909.1_1130762_1131788_+	TIGR00326, eubact_ribD, riboflavin biosynthesis protein RibD	NA|519aa|down_2|CP033909.1_1131784_1133341_-	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily	NA|236aa|down_3|CP033909.1_1133337_1134045_-	pfam07161, LppX_LprAFG, LppX_LprAFG lipoprotein	NA|200aa|down_4|CP033909.1_1134163_1134763_+	PRK09289, PRK09289, riboflavin synthase	NA|426aa|down_5|CP033909.1_1134884_1136162_+	PRK09311, PRK09311, bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	NA|161aa|down_6|CP033909.1_1136211_1136694_+	PRK00061, ribH, 6,7-dimethyl-8-ribityllumazine synthase; Provisional	NA|155aa|down_7|CP033909.1_1136690_1137155_+	pfam10756, bPH_6, Bacterial PH domain	NA|113aa|down_8|CP033909.1_1137188_1137527_-	TIGR04529, hypothetical_protein, hemophore-related protein, Rv0203/Rv1174c family	NA|489aa|down_9|CP033909.1_1137630_1139097_-	pfam00823, PPE, PPE family
GCA_003816035.1_ASM381603v1	CP033909	Mycobacterium avium subsp. paratuberculosis strain MAPK_JJ1/13 chromosome, complete genome	4	3042669-3042739	4	CRISPRCasFinder	no		DEDDh,cas3,csa3,WYL,cas4,DinG	Orphan	GGTGGGACGCAGTCGGACGCAGTC	24	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,csa3,WYL,cas4,DinG	NA|61aa|up_8|CP033909.1_3039099_3039282_-,NA|77aa|up_7|CP033909.1_3039511_3039742_-,NA|145aa|up_6|CP033909.1_3039810_3040245_-,NA|80aa|up_5|CP033909.1_3040237_3040477_-,NA|93aa|up_4|CP033909.1_3040612_3040891_+,NA|75aa|up_2|CP033909.1_3041399_3041624_-,NA|97aa|up_1|CP033909.1_3041966_3042257_-,NA|105aa|up_0|CP033909.1_3042253_3042568_-,NA|297aa|down_0|CP033909.1_3042747_3043638_-,NA|184aa|down_3|CP033909.1_3044687_3045239_-,NA|100aa|down_4|CP033909.1_3048154_3048454_+,NA|174aa|down_6|CP033909.1_3049030_3049552_+	NA|103aa|up_9|CP033909.1_3038812_3039121_+	smart01040, Bro-N, BRO family, N-terminal domain	NA|61aa|up_8|CP033909.1_3039099_3039282_-	NA	NA|77aa|up_7|CP033909.1_3039511_3039742_-	NA	NA|145aa|up_6|CP033909.1_3039810_3040245_-	NA	NA|80aa|up_5|CP033909.1_3040237_3040477_-	NA	NA|93aa|up_4|CP033909.1_3040612_3040891_+	NA	NA|147aa|up_3|CP033909.1_3040959_3041400_-	pfam12728, HTH_17, Helix-turn-helix domain	NA|75aa|up_2|CP033909.1_3041399_3041624_-	NA	NA|97aa|up_1|CP033909.1_3041966_3042257_-	NA	NA|105aa|up_0|CP033909.1_3042253_3042568_-	NA	NA|297aa|down_0|CP033909.1_3042747_3043638_-	NA	NA|159aa|down_1|CP033909.1_3043907_3044384_-	pfam10888, DUF2742, Protein of unknown function (DUF2742)	NA|71aa|down_2|CP033909.1_3044380_3044593_-	TIGR01764, Probable_excisionase, DNA binding domain, excisionase family	NA|184aa|down_3|CP033909.1_3044687_3045239_-	NA	NA|100aa|down_4|CP033909.1_3048154_3048454_+	NA	NA|103aa|down_5|CP033909.1_3048645_3048954_+	COG5178, PRP8, U5 snRNP spliceosome subunit [RNA processing and modification]	NA|174aa|down_6|CP033909.1_3049030_3049552_+	NA	NA|423aa|down_7|CP033909.1_3049559_3050828_-	pfam04909, Amidohydro_2, Amidohydrolase	NA|405aa|down_8|CP033909.1_3050852_3052067_-	pfam04909, Amidohydro_2, Amidohydrolase	NA|268aa|down_9|CP033909.1_3052070_3052874_-	pfam06314, ADC, Acetoacetate decarboxylase (ADC)
GCA_003816035.1_ASM381603v1	CP033909	Mycobacterium avium subsp. paratuberculosis strain MAPK_JJ1/13 chromosome, complete genome	5	3071870-3071950	5	CRISPRCasFinder	no		DEDDh,cas3,csa3,WYL,cas4,DinG	Orphan	GGCGCAGCGGGTCACCGCCATTAGCG	26	1	1	3071896-3071924	CP033909.1_3806838-3806810	NA	1	1	Orphan	DEDDh,cas3,csa3,WYL,cas4,DinG	NA|176aa|up_5|CP033909.1_3066051_3066579_+,NA	NA|310aa|up_9|CP033909.1_3063292_3064222_-	pfam09678, Caa3_CtaG, Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG)	NA|115aa|up_8|CP033909.1_3064250_3064595_-	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|123aa|up_7|CP033909.1_3064794_3065163_-	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|251aa|up_6|CP033909.1_3065259_3066012_+	COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]	NA|176aa|up_5|CP033909.1_3066051_3066579_+	NA	NA|177aa|up_4|CP033909.1_3066566_3067097_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|374aa|up_3|CP033909.1_3067074_3068196_-	pfam03969, AFG1_ATPase, AFG1-like ATPase	NA|255aa|up_2|CP033909.1_3068194_3068959_+	PRK14059, PRK14059, pyrimidine reductase family protein	NA|520aa|up_1|CP033909.1_3068973_3070533_+	pfam08386, Abhydrolase_4, TAP-like protein	NA|429aa|up_0|CP033909.1_3070561_3071848_+	pfam09594, GT87, Glycosyltransferase family 87	NA|135aa|down_0|CP033909.1_3072015_3072420_+	pfam01641, SelR, SelR domain	NA|283aa|down_1|CP033909.1_3072553_3073402_+	pfam18741, MTES_1575, REase_MTES_1575	NA|251aa|down_2|CP033909.1_3073468_3074221_-	pfam13649, Methyltransf_25, Methyltransferase domain	NA|232aa|down_3|CP033909.1_3074217_3074913_-	COG3253, ywfI, Predicted heme peroxidase involved in anaerobic stress response [General function prediction only]	NA|452aa|down_4|CP033909.1_3074918_3076274_-	PRK11883, PRK11883, protoporphyrinogen oxidase; Reviewed	NA|358aa|down_5|CP033909.1_3076270_3077344_-	PRK00115, hemE, uroporphyrinogen decarboxylase; Validated	NA|274aa|down_6|CP033909.1_3077391_3078213_+	PRK07327, PRK07327, enoyl-CoA hydratase/isomerase family protein	NA|206aa|down_7|CP033909.1_3078340_3078958_+	pfam11452, DUF3000, Protein of unknown function (DUF3000)	NA|429aa|down_8|CP033909.1_3078959_3080246_+	COG0349, Rnd, Ribonuclease D [Translation, ribosomal structure and biogenesis]	NA|642aa|down_9|CP033909.1_3080290_3082216_-	PRK05444, PRK05444, 1-deoxy-D-xylulose-5-phosphate synthase; Provisional
GCA_003816035.1_ASM381603v1	CP033909	Mycobacterium avium subsp. paratuberculosis strain MAPK_JJ1/13 chromosome, complete genome	6	3751621-3751711	6	CRISPRCasFinder	no		DEDDh,cas3,csa3,WYL,cas4,DinG	Orphan	AGCCCGGCGACGATGCCCGCCGCAGCGCGGCGG	33	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,csa3,WYL,cas4,DinG	NA|71aa|up_7|CP033909.1_3743619_3743832_+,NA|96aa|up_4|CP033909.1_3746521_3746809_-,NA|153aa|up_3|CP033909.1_3747014_3747473_-,NA	NA|306aa|up_9|CP033909.1_3742071_3742989_-	COG3509, LpqC, Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]	NA|118aa|up_8|CP033909.1_3743180_3743534_+	pfam05305, DUF732, Protein of unknown function (DUF732)	NA|71aa|up_7|CP033909.1_3743619_3743832_+	NA	NA|379aa|up_6|CP033909.1_3743907_3745044_-	pfam00823, PPE, PPE family	NA|379aa|up_5|CP033909.1_3745153_3746290_-	pfam00823, PPE, PPE family	NA|96aa|up_4|CP033909.1_3746521_3746809_-	NA	NA|153aa|up_3|CP033909.1_3747014_3747473_-	NA	NA|291aa|up_2|CP033909.1_3747512_3748385_-	cd02558, PSRA_1, Pseudouridine synthase, a subgroup of the RluA family	NA|585aa|up_1|CP033909.1_3748381_3750136_-	COG0578, GlpA, Glycerol-3-phosphate dehydrogenase [Energy production and conversion]	NA|472aa|up_0|CP033909.1_3750192_3751608_-	PRK07845, PRK07845, flavoprotein disulfide reductase; Reviewed	NA|156aa|down_0|CP033909.1_3751761_3752229_+	pfam13772, AIG2_2, AIG2-like family	NA|393aa|down_1|CP033909.1_3752251_3753430_-	cd08014, M20_Acy1-like, M20 Peptidase aminoacylase 1 subfamily	NA|401aa|down_2|CP033909.1_3753426_3754629_-	cd05672, M20_ACY1L2-like, M20 Peptidase aminoacylase 1-like protein 2-like, amidohydrolase subfamily	NA|219aa|down_3|CP033909.1_3754674_3755331_-	pfam01083, Cutinase, Cutinase	NA|272aa|down_4|CP033909.1_3755429_3756245_+	PRK08202, PRK08202, purine nucleoside phosphorylase; Provisional	NA|527aa|down_5|CP033909.1_3756249_3757830_+	cd05799, PGM2, This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1)	NA|258aa|down_6|CP033909.1_3757681_3758455_-	PRK00129, upp, uracil phosphoribosyltransferase; Reviewed	NA|277aa|down_7|CP033909.1_3758619_3759450_+	pfam04185, Phosphoesterase, Phosphoesterase family	NA|438aa|down_8|CP033909.1_3759475_3760789_+	PLN03142, PLN03142, Probable chromatin-remodeling complex ATPase chain; Provisional	NA|328aa|down_9|CP033909.1_3760821_3761805_+	PRK13685, PRK13685, hypothetical protein; Provisional
