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_004009475.1_ASM400947v1	CP025383	Bordetella pertussis strain J184 chromosome, complete genome	1	250590-250674	1	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG	Orphan	GGTGCCTGTCCCCGCGGGGACAG	23	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA,NA	NA|137aa|up_9|CP025383.1_238115_238526_+	TIGR02425, putative_gamma-carboxymuconolactone_decarboxylase, 4-carboxymuconolactone decarboxylase	NA|248aa|up_8|CP025383.1_239547_240291_-	COG1802, GntR, Transcriptional regulators [Transcription]	NA|348aa|up_7|CP025383.1_240334_241378_-	cd13602, PBP2_TRAP_BpDctp6_7, Substrate-binding domain of a pyroglutamic acid binding DctP subfamily of the tripartite ATP-independent periplasmic transporters; contains the type 2 periplasmic binding protein fold	NA|701aa|up_6|CP025383.1_241548_243651_+	TIGR00786, TRAP_transporter_permease_protein_SiaT, TRAP transporter, DctM subunit	NA|319aa|up_5|CP025383.1_245061_246018_+	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|164aa|up_4|CP025383.1_246036_246528_-	PRK14092, PRK14092, 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase	NA|452aa|up_3|CP025383.1_246524_247880_-	TIGR01942, pcnB, poly(A) polymerase	NA|233aa|up_2|CP025383.1_247880_248579_-	cd02612, HAD_PGPPase, phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C	NA|234aa|up_1|CP025383.1_248575_249277_-	PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated	NA|350aa|up_0|CP025383.1_249529_250579_+	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|314aa|down_0|CP025383.1_250684_251626_-	PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed	NA|630aa|down_1|CP025383.1_251622_253512_-	PRK00095, mutL, DNA mismatch repair endonuclease MutL	NA|213aa|down_2|CP025383.1_253598_254237_+	PRK10847, PRK10847, DedA family protein	NA|415aa|down_3|CP025383.1_254379_255624_-	PRK10319, PRK10319, N-acetylmuramoyl-L-alanine amidase AmiA	NA|179aa|down_4|CP025383.1_255695_256232_-	COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]	NA|464aa|down_5|CP025383.1_256383_257775_+	PRK00485, fumC, fumarate hydratase; Reviewed	NA|327aa|down_6|CP025383.1_257791_258772_-	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|328aa|down_7|CP025383.1_258907_259891_+	cd13577, PBP2_BugE_Glu, Glutamate transporter of Bug (Bordetella uptake gene) protein family; contains the type 2 periplasmic binding fold	NA|300aa|down_8|CP025383.1_259955_260855_-	cd08415, PBP2_LysR_opines_like, The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold	NA|585aa|down_9|CP025383.1_260961_262716_+	COG0405, Ggt, Gamma-glutamyltransferase [Amino acid transport and metabolism]
GCA_004009475.1_ASM400947v1	CP025383	Bordetella pertussis strain J184 chromosome, complete genome	2	432032-432125	2	CRISPRCasFinder	no	DEDDh	DEDDh,csa3,cas3,DinG	Unclear	GTGCCTGTCCCCGCCGGGACAGGCAC	26	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA,NA	NA|353aa|up_9|CP025383.1_419371_420430_-	cd04187, DPM1_like_bac, Bacterial DPM1_like enzymes are related to eukaryotic DPM1	NA|165aa|up_8|CP025383.1_420559_421054_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|326aa|up_7|CP025383.1_421146_422124_+	pfam00665, rve, Integrase core domain	NA|402aa|up_6|CP025383.1_422319_423525_+	TIGR00210, Sodium/glutamate_symport_carrier_protein, sodium--glutamate symport carrier (gltS)	NA|504aa|up_5|CP025383.1_423521_425033_+	cd13520, PBP2_TAXI_TRAP, Substrate binding domain of TAXI proteins of the tripartite ATP-independent periplasmic transporters; the type 2 periplasmic binding protein fold	NA|438aa|up_4|CP025383.1_425048_426362_-	COG2031, AtoE, Short chain fatty acids transporter [Lipid metabolism]	NA|60aa|up_3|CP025383.1_426552_426732_-	pfam04391, DUF533, Protein of unknown function (DUF533)	DEDDh|245aa|up_2|CP025383.1_427141_427876_-	PRK05711, PRK05711, DNA polymerase III subunit epsilon; Provisional	NA|317aa|up_1|CP025383.1_430320_431271_+	pfam00665, rve, Integrase core domain	NA|133aa|up_0|CP025383.1_431402_431801_-	PRK00007, PRK00007, elongation factor G; Reviewed	NA|157aa|down_0|CP025383.1_432211_432682_-	pfam00582, Usp, Universal stress protein family	NA|115aa|down_1|CP025383.1_432770_433115_-	COG3453, COG3453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|467aa|down_2|CP025383.1_433214_434615_-	COG1167, ARO8, Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]	NA|173aa|down_3|CP025383.1_436403_436922_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|252aa|down_4|CP025383.1_437032_437788_+	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|411aa|down_5|CP025383.1_437983_439216_+	pfam02515, CoA_transf_3, CoA-transferase family III	NA|262aa|down_6|CP025383.1_439208_439994_+	PRK09245, PRK09245, crotonase/enoyl-CoA hydratase family protein	NA|324aa|down_7|CP025383.1_440060_441032_+	cd07012, PBP2_Bug_TTT, Bug (Bordetella uptake gene) protein family of periplasmic solute-binding receptors; contains the type 2 periplasmic binding fold	NA|326aa|down_8|CP025383.1_441042_442020_-	cd08414, PBP2_LTTR_aromatics_like, The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold	NA|391aa|down_9|CP025383.1_442145_443318_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26
GCA_004009475.1_ASM400947v1	CP025383	Bordetella pertussis strain J184 chromosome, complete genome	3	996354-996448	3	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG	Orphan	TAAAAGGGCACCCGCAAGGGTGTCCTTTT	29	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA|127aa|up_2|CP025383.1_994340_994721_+,NA	NA|310aa|up_9|CP025383.1_981865_982795_+	COG2025, FixB, Electron transfer flavoprotein, alpha subunit [Energy production and conversion]	NA|609aa|up_8|CP025383.1_983038_984865_+	cd01153, ACAD_fadE5, Putative acyl-CoA dehydrogenases similar to fadE5	NA|214aa|up_7|CP025383.1_984947_985589_+	cd03016, PRX_1cys, Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine	NA|345aa|up_6|CP025383.1_985778_986813_+	COG1613, Sbp, ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]	NA|355aa|up_5|CP025383.1_988649_989714_+	cd03296, ABC_CysA_sulfate_importer, ATP-binding cassette domain of the sulfate transporter	NA|303aa|up_4|CP025383.1_990511_991420_+	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|425aa|up_3|CP025383.1_992912_994187_+	TIGR04470, hypothetical_protein_ALIPUT_00462, radical SAM mobile pair protein B	NA|127aa|up_2|CP025383.1_994340_994721_+	NA	NA|291aa|up_1|CP025383.1_994728_995601_-	TIGR03340, phn_DUF6, phosphonate utilization associated putative membrane protein	NA|127aa|up_0|CP025383.1_995906_996287_+	PRK05338, rplS, 50S ribosomal protein L19; Provisional	NA|242aa|down_0|CP025383.1_996497_997223_+	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|317aa|down_1|CP025383.1_997318_998269_-	pfam00665, rve, Integrase core domain	NA|350aa|down_2|CP025383.1_998373_999423_+	cd19094, AKR_Tas-like, Escherichia coli Tas protein and similar proteins	NA|339aa|down_3|CP025383.1_999560_1000577_-	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family	NA|191aa|down_4|CP025383.1_1002085_1002658_-	COG3161, UbiC, 4-hydroxybenzoate synthetase (chorismate lyase) [Coenzyme metabolism]	NA|244aa|down_5|CP025383.1_1002717_1003449_+	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|306aa|down_6|CP025383.1_1003500_1004418_-	cd08422, PBP2_CrgA_like, The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain	NA|1060aa|down_7|CP025383.1_1005225_1008405_+	TIGR00915, Probable_aminoglycoside_efflux_pump, The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family	NA|461aa|down_8|CP025383.1_1008401_1009784_+	TIGR01845, Outer_membrane_protein_OprM, efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family	NA|84aa|down_9|CP025383.1_1009853_1010105_-	COG2261, COG2261, Predicted membrane protein [Function unknown]
GCA_004009475.1_ASM400947v1	CP025383	Bordetella pertussis strain J184 chromosome, complete genome	4	3429341-3429450	4	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG	Orphan	TTGACTGCCAAGACGGTATCTGTCCCC	27	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA|123aa|up_8|CP025383.1_3415640_3416009_-,NA	NA|317aa|up_9|CP025383.1_3414703_3415654_-	pfam00665, rve, Integrase core domain	NA|123aa|up_8|CP025383.1_3415640_3416009_-	NA	NA|993aa|up_7|CP025383.1_3416007_3418986_+	pfam17936, Big_6, Bacterial Ig domain	NA|293aa|up_6|CP025383.1_3419912_3420791_+	pfam00487, FA_desaturase, Fatty acid desaturase	NA|317aa|up_5|CP025383.1_3422739_3423690_+	pfam00665, rve, Integrase core domain	NA|156aa|up_4|CP025383.1_3423686_3424154_-	PRK00203, rnhA, ribonuclease H; Reviewed	NA|257aa|up_3|CP025383.1_3424196_3424967_-	pfam08241, Methyltransf_11, Methyltransferase domain	NA|267aa|up_2|CP025383.1_3424987_3425788_+	TIGR03413, GSH_gloB, hydroxyacylglutathione hydrolase	NA|470aa|up_1|CP025383.1_3425798_3427208_+	PRK10783, mltD, membrane-bound lytic murein transglycosylase D; Provisional	NA|262aa|up_0|CP025383.1_3427302_3428088_+	PRK06997, PRK06997, enoyl-[acyl-carrier-protein] reductase FabI	NA|131aa|down_0|CP025383.1_3429451_3429844_-	COG1765, COG1765, Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]	NA|227aa|down_1|CP025383.1_3429981_3430662_+	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|333aa|down_2|CP025383.1_3430666_3431665_-	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|317aa|down_3|CP025383.1_3431733_3432684_-	pfam00665, rve, Integrase core domain	NA|234aa|down_4|CP025383.1_3434188_3434890_+	PRK09468, ompR, osmolarity response regulator; Provisional	NA|475aa|down_5|CP025383.1_3434889_3436314_+	PRK09467, envZ, osmolarity sensor protein; Provisional	NA|447aa|down_6|CP025383.1_3437383_3438724_-	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|588aa|down_7|CP025383.1_3438839_3440603_+	PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional	NA|293aa|down_8|CP025383.1_3440714_3441593_+	PRK00030, minC, septum site-determining protein MinC	NA|272aa|down_9|CP025383.1_3441705_3442521_+	COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]
