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_004006155.1_ASM400615v1	CP018036	Bordetella pertussis strain I094 chromosome, complete genome	1	251626-251710	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|252aa|up_9|CP018036.1_239811_240567_+	PRK15461, PRK15461, sulfolactaldehyde 3-reductase	NA|248aa|up_8|CP018036.1_240583_241327_-	COG1802, GntR, Transcriptional regulators [Transcription]	NA|348aa|up_7|CP018036.1_241370_242414_-	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|420aa|up_6|CP018036.1_243427_244687_+	TIGR00786, TRAP_transporter_permease_protein_SiaT, TRAP transporter, DctM subunit	NA|319aa|up_5|CP018036.1_246097_247054_+	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|164aa|up_4|CP018036.1_247072_247564_-	PRK14092, PRK14092, 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase	NA|452aa|up_3|CP018036.1_247560_248916_-	TIGR01942, pcnB, poly(A) polymerase	NA|233aa|up_2|CP018036.1_248916_249615_-	cd02612, HAD_PGPPase, phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C	NA|234aa|up_1|CP018036.1_249611_250313_-	PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated	NA|350aa|up_0|CP018036.1_250565_251615_+	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|314aa|down_0|CP018036.1_251720_252662_-	PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed	NA|630aa|down_1|CP018036.1_252658_254548_-	PRK00095, mutL, DNA mismatch repair endonuclease MutL	NA|207aa|down_2|CP018036.1_254652_255273_+	PRK10847, PRK10847, DedA family protein	NA|462aa|down_3|CP018036.1_255415_256801_-	PRK10319, PRK10319, N-acetylmuramoyl-L-alanine amidase AmiA	NA|179aa|down_4|CP018036.1_256731_257268_-	COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]	NA|464aa|down_5|CP018036.1_257419_258811_+	PRK00485, fumC, fumarate hydratase; Reviewed	NA|327aa|down_6|CP018036.1_258827_259808_-	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|328aa|down_7|CP018036.1_259943_260927_+	cd13577, PBP2_BugE_Glu, Glutamate transporter of Bug (Bordetella uptake gene) protein family; contains the type 2 periplasmic binding fold	NA|300aa|down_8|CP018036.1_260991_261891_-	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|CP018036.1_261997_263752_+	COG0405, Ggt, Gamma-glutamyltransferase [Amino acid transport and metabolism]
GCA_004006155.1_ASM400615v1	CP018036	Bordetella pertussis strain I094 chromosome, complete genome	2	433062-433155	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|CP018036.1_420402_421461_-	cd04187, DPM1_like_bac, Bacterial DPM1_like enzymes are related to eukaryotic DPM1	NA|165aa|up_8|CP018036.1_421590_422085_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|326aa|up_7|CP018036.1_422177_423155_+	pfam00665, rve, Integrase core domain	NA|402aa|up_6|CP018036.1_423350_424556_+	TIGR00210, Sodium/glutamate_symport_carrier_protein, sodium--glutamate symport carrier (gltS)	NA|504aa|up_5|CP018036.1_424552_426064_+	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|CP018036.1_426079_427393_-	COG2031, AtoE, Short chain fatty acids transporter [Lipid metabolism]	NA|60aa|up_3|CP018036.1_427583_427763_-	pfam04391, DUF533, Protein of unknown function (DUF533)	DEDDh|245aa|up_2|CP018036.1_428172_428907_-	PRK05711, PRK05711, DNA polymerase III subunit epsilon; Provisional	NA|290aa|up_1|CP018036.1_431431_432301_+	pfam00665, rve, Integrase core domain	NA|133aa|up_0|CP018036.1_432432_432831_-	PRK00007, PRK00007, elongation factor G; Reviewed	NA|157aa|down_0|CP018036.1_433241_433712_-	pfam00582, Usp, Universal stress protein family	NA|115aa|down_1|CP018036.1_433800_434145_-	COG3453, COG3453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|467aa|down_2|CP018036.1_434244_435645_-	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|CP018036.1_437433_437952_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|252aa|down_4|CP018036.1_438062_438818_+	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|411aa|down_5|CP018036.1_439013_440246_+	pfam02515, CoA_transf_3, CoA-transferase family III	NA|262aa|down_6|CP018036.1_440238_441024_+	PRK09245, PRK09245, crotonase/enoyl-CoA hydratase family protein	NA|324aa|down_7|CP018036.1_441090_442062_+	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|CP018036.1_442072_443050_-	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|CP018036.1_443175_444348_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26
GCA_004006155.1_ASM400615v1	CP018036	Bordetella pertussis strain I094 chromosome, complete genome	3	997366-997460	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|CP018036.1_995352_995733_+,NA	NA|345aa|up_9|CP018036.1_986789_987824_+	COG1613, Sbp, ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]	NA|70aa|up_8|CP018036.1_987839_988049_+	TIGR02139, permease_CysT, sulfate ABC transporter, permease protein CysT	NA|225aa|up_7|CP018036.1_988070_988745_+	TIGR02139, permease_CysT, sulfate ABC transporter, permease protein CysT	NA|261aa|up_6|CP018036.1_988859_989642_+	COG4208, CysW, ABC-type sulfate transport system, permease component [Inorganic ion transport and metabolism]	NA|355aa|up_5|CP018036.1_989666_990731_+	cd03296, ABC_CysA_sulfate_importer, ATP-binding cassette domain of the sulfate transporter	NA|303aa|up_4|CP018036.1_991528_992437_+	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|425aa|up_3|CP018036.1_993924_995199_+	TIGR04470, hypothetical_protein_ALIPUT_00462, radical SAM mobile pair protein B	NA|127aa|up_2|CP018036.1_995352_995733_+	NA	NA|291aa|up_1|CP018036.1_995740_996613_-	TIGR03340, phn_DUF6, phosphonate utilization associated putative membrane protein	NA|127aa|up_0|CP018036.1_996918_997299_+	PRK05338, rplS, 50S ribosomal protein L19; Provisional	NA|229aa|down_0|CP018036.1_997548_998235_+	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|290aa|down_1|CP018036.1_998330_999200_-	pfam00665, rve, Integrase core domain	NA|350aa|down_2|CP018036.1_999385_1000435_+	cd19094, AKR_Tas-like, Escherichia coli Tas protein and similar proteins	NA|339aa|down_3|CP018036.1_1000572_1001589_-	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family	NA|191aa|down_4|CP018036.1_1003097_1003670_-	COG3161, UbiC, 4-hydroxybenzoate synthetase (chorismate lyase) [Coenzyme metabolism]	NA|244aa|down_5|CP018036.1_1003729_1004461_+	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|306aa|down_6|CP018036.1_1004512_1005430_-	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|CP018036.1_1006237_1009417_+	TIGR00915, Probable_aminoglycoside_efflux_pump, The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family	NA|84aa|down_8|CP018036.1_1010861_1011113_-	COG2261, COG2261, Predicted membrane protein [Function unknown]	NA|205aa|down_9|CP018036.1_1011258_1011873_-	cd02968, SCO, SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold
GCA_004006155.1_ASM400615v1	CP018036	Bordetella pertussis strain I094 chromosome, complete genome	4	3436507-3436616	4	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG	Orphan	TTGACTGCCAAGACGGTATCTGTCCCC	27	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA,NA	NA|111aa|up_9|CP018036.1_3426944_3427277_+	PRK06816, PRK06816, StlD/DarB family beta-ketosynthase	NA|213aa|up_8|CP018036.1_3427255_3427894_+	PRK06816, PRK06816, StlD/DarB family beta-ketosynthase	NA|290aa|up_7|CP018036.1_3427873_3428743_-	pfam00665, rve, Integrase core domain	NA|107aa|up_6|CP018036.1_3429486_3429807_+	PRK02106, PRK02106, choline dehydrogenase; Validated	NA|317aa|up_5|CP018036.1_3429905_3430856_+	pfam00665, rve, Integrase core domain	NA|156aa|up_4|CP018036.1_3430852_3431320_-	PRK00203, rnhA, ribonuclease H; Reviewed	NA|257aa|up_3|CP018036.1_3431362_3432133_-	pfam08241, Methyltransf_11, Methyltransferase domain	NA|267aa|up_2|CP018036.1_3432153_3432954_+	TIGR03413, GSH_gloB, hydroxyacylglutathione hydrolase	NA|470aa|up_1|CP018036.1_3432964_3434374_+	PRK10783, mltD, membrane-bound lytic murein transglycosylase D; Provisional	NA|262aa|up_0|CP018036.1_3434468_3435254_+	PRK06997, PRK06997, enoyl-[acyl-carrier-protein] reductase FabI	NA|131aa|down_0|CP018036.1_3436617_3437010_-	COG1765, COG1765, Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]	NA|227aa|down_1|CP018036.1_3437147_3437828_+	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|324aa|down_2|CP018036.1_3437832_3438804_-	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|290aa|down_3|CP018036.1_3438899_3439769_-	pfam00665, rve, Integrase core domain	NA|234aa|down_4|CP018036.1_3441354_3442056_+	PRK09468, ompR, osmolarity response regulator; Provisional	NA|475aa|down_5|CP018036.1_3442055_3443480_+	PRK09467, envZ, osmolarity sensor protein; Provisional	NA|352aa|down_6|CP018036.1_3443496_3444552_-	pfam02322, Cyt_bd_oxida_II, Cytochrome bd terminal oxidase subunit II	NA|447aa|down_7|CP018036.1_3444548_3445889_-	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|588aa|down_8|CP018036.1_3446004_3447768_+	PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional	NA|293aa|down_9|CP018036.1_3447879_3448758_+	PRK00030, minC, septum site-determining protein MinC
