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_001686445.1_ASM168644v1	NZ_CP015762	Bordetella pertussis strain VA-150, complete genome	1	250589-250673	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|NZ_CP015762.1_238114_238525_+	TIGR02425, putative_gamma-carboxymuconolactone_decarboxylase, 4-carboxymuconolactone decarboxylase	NA|248aa|up_8|NZ_CP015762.1_239546_240290_-	COG1802, GntR, Transcriptional regulators [Transcription]	NA|348aa|up_7|NZ_CP015762.1_240333_241377_-	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|NZ_CP015762.1_241547_243650_+	TIGR00786, TRAP_transporter_permease_protein_SiaT, TRAP transporter, DctM subunit	NA|319aa|up_5|NZ_CP015762.1_245060_246017_+	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|164aa|up_4|NZ_CP015762.1_246035_246527_-	PRK14092, PRK14092, 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase	NA|452aa|up_3|NZ_CP015762.1_246523_247879_-	TIGR01942, pcnB, poly(A) polymerase	NA|233aa|up_2|NZ_CP015762.1_247879_248578_-	cd02612, HAD_PGPPase, phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C	NA|234aa|up_1|NZ_CP015762.1_248574_249276_-	PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated	NA|350aa|up_0|NZ_CP015762.1_249528_250578_+	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|314aa|down_0|NZ_CP015762.1_250683_251625_-	PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed	NA|630aa|down_1|NZ_CP015762.1_251621_253511_-	PRK00095, mutL, DNA mismatch repair endonuclease MutL	NA|213aa|down_2|NZ_CP015762.1_253597_254236_+	PRK10847, PRK10847, DedA family protein	NA|462aa|down_3|NZ_CP015762.1_254378_255764_-	PRK10319, PRK10319, N-acetylmuramoyl-L-alanine amidase AmiA	NA|179aa|down_4|NZ_CP015762.1_255694_256231_-	COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]	NA|464aa|down_5|NZ_CP015762.1_256382_257774_+	PRK00485, fumC, fumarate hydratase; Reviewed	NA|327aa|down_6|NZ_CP015762.1_257790_258771_-	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|328aa|down_7|NZ_CP015762.1_258906_259890_+	cd13577, PBP2_BugE_Glu, Glutamate transporter of Bug (Bordetella uptake gene) protein family; contains the type 2 periplasmic binding fold	NA|300aa|down_8|NZ_CP015762.1_259954_260854_-	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|NZ_CP015762.1_260960_262715_+	COG0405, Ggt, Gamma-glutamyltransferase [Amino acid transport and metabolism]
GCF_001686445.1_ASM168644v1	NZ_CP015762	Bordetella pertussis strain VA-150, complete genome	2	432030-432123	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|NZ_CP015762.1_419369_420428_-	cd04187, DPM1_like_bac, Bacterial DPM1_like enzymes are related to eukaryotic DPM1	NA|165aa|up_8|NZ_CP015762.1_420557_421052_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|326aa|up_7|NZ_CP015762.1_421144_422122_+	pfam00665, rve, Integrase core domain	NA|402aa|up_6|NZ_CP015762.1_422317_423523_+	TIGR00210, Sodium/glutamate_symport_carrier_protein, sodium--glutamate symport carrier (gltS)	NA|504aa|up_5|NZ_CP015762.1_423519_425031_+	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|NZ_CP015762.1_425046_426360_-	COG2031, AtoE, Short chain fatty acids transporter [Lipid metabolism]	NA|60aa|up_3|NZ_CP015762.1_426550_426730_-	pfam04391, DUF533, Protein of unknown function (DUF533)	DEDDh|245aa|up_2|NZ_CP015762.1_427139_427874_-	PRK05711, PRK05711, DNA polymerase III subunit epsilon; Provisional	NA|317aa|up_1|NZ_CP015762.1_430318_431269_+	pfam00665, rve, Integrase core domain	NA|133aa|up_0|NZ_CP015762.1_431400_431799_-	PRK00007, PRK00007, elongation factor G; Reviewed	NA|157aa|down_0|NZ_CP015762.1_432209_432680_-	pfam00582, Usp, Universal stress protein family	NA|115aa|down_1|NZ_CP015762.1_432768_433113_-	COG3453, COG3453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|467aa|down_2|NZ_CP015762.1_433212_434613_-	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|NZ_CP015762.1_436401_436920_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|252aa|down_4|NZ_CP015762.1_437030_437786_+	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|411aa|down_5|NZ_CP015762.1_437981_439214_+	pfam02515, CoA_transf_3, CoA-transferase family III	NA|262aa|down_6|NZ_CP015762.1_439206_439992_+	PRK09245, PRK09245, crotonase/enoyl-CoA hydratase family protein	NA|324aa|down_7|NZ_CP015762.1_440058_441030_+	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|NZ_CP015762.1_441040_442018_-	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|NZ_CP015762.1_442143_443316_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26
GCF_001686445.1_ASM168644v1	NZ_CP015762	Bordetella pertussis strain VA-150, complete genome	3	996345-996439	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|NZ_CP015762.1_994331_994712_+,NA	NA|310aa|up_9|NZ_CP015762.1_981856_982786_+	COG2025, FixB, Electron transfer flavoprotein, alpha subunit [Energy production and conversion]	NA|609aa|up_8|NZ_CP015762.1_983029_984856_+	cd01153, ACAD_fadE5, Putative acyl-CoA dehydrogenases similar to fadE5	NA|214aa|up_7|NZ_CP015762.1_984938_985580_+	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|NZ_CP015762.1_985769_986804_+	COG1613, Sbp, ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]	NA|355aa|up_5|NZ_CP015762.1_988640_989705_+	cd03296, ABC_CysA_sulfate_importer, ATP-binding cassette domain of the sulfate transporter	NA|303aa|up_4|NZ_CP015762.1_990502_991411_+	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|425aa|up_3|NZ_CP015762.1_992903_994178_+	TIGR04470, hypothetical_protein_ALIPUT_00462, radical SAM mobile pair protein B	NA|127aa|up_2|NZ_CP015762.1_994331_994712_+	NA	NA|291aa|up_1|NZ_CP015762.1_994719_995592_-	TIGR03340, phn_DUF6, phosphonate utilization associated putative membrane protein	NA|127aa|up_0|NZ_CP015762.1_995897_996278_+	PRK05338, rplS, 50S ribosomal protein L19; Provisional	NA|242aa|down_0|NZ_CP015762.1_996488_997214_+	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|NZ_CP015762.1_997309_998260_-	pfam00665, rve, Integrase core domain	NA|350aa|down_2|NZ_CP015762.1_998364_999414_+	cd19094, AKR_Tas-like, Escherichia coli Tas protein and similar proteins	NA|339aa|down_3|NZ_CP015762.1_999551_1000568_-	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family	NA|191aa|down_4|NZ_CP015762.1_1002076_1002649_-	COG3161, UbiC, 4-hydroxybenzoate synthetase (chorismate lyase) [Coenzyme metabolism]	NA|244aa|down_5|NZ_CP015762.1_1002708_1003440_+	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|306aa|down_6|NZ_CP015762.1_1003491_1004409_-	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|NZ_CP015762.1_1005216_1008396_+	TIGR00915, Probable_aminoglycoside_efflux_pump, The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family	NA|461aa|down_8|NZ_CP015762.1_1008392_1009775_+	TIGR01845, Outer_membrane_protein_OprM, efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family	NA|84aa|down_9|NZ_CP015762.1_1009844_1010096_-	COG2261, COG2261, Predicted membrane protein [Function unknown]
GCF_001686445.1_ASM168644v1	NZ_CP015762	Bordetella pertussis strain VA-150, complete genome	4	1145754-1145886	4	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG	Orphan	AAAAAACCCCCTTGGGGGGCAGCAAGCCCGCACAGCGGGCGCAGCGTGGGG	51	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA|101aa|up_9|NZ_CP015762.1_1132738_1133041_-,NA	NA|101aa|up_9|NZ_CP015762.1_1132738_1133041_-	NA	NA|507aa|up_8|NZ_CP015762.1_1133083_1134604_-	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed	NA|252aa|up_7|NZ_CP015762.1_1134610_1135366_-	PRK07023, PRK07023, SDR family oxidoreductase	NA|368aa|up_6|NZ_CP015762.1_1135395_1136500_-	PRK00578, prfB, peptide chain release factor 2; Validated	NA|567aa|up_5|NZ_CP015762.1_1136602_1138303_-	PRK11070, PRK11070, single-stranded-DNA-specific exonuclease RecJ	NA|326aa|up_4|NZ_CP015762.1_1138284_1139262_-	COG4255, COG4255, Uncharacterized protein conserved in bacteria [Function unknown]	NA|427aa|up_3|NZ_CP015762.1_1139271_1140552_+	TIGR02212, releasing_system_transmembrane_protein_lolC	NA|232aa|up_2|NZ_CP015762.1_1140544_1141240_+	cd03255, ABC_MJ0796_LolCDE_FtsE, ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein	NA|276aa|up_1|NZ_CP015762.1_1141273_1142101_+	cd01310, TatD_DNAse, TatD like proteins;  E	NA|1077aa|up_0|NZ_CP015762.1_1142382_1145613_+	pfam03797, Autotransporter, Autotransporter beta-domain	NA|1309aa|down_0|NZ_CP015762.1_1146347_1150274_+	pfam11924, IAT_beta, Inverse autotransporter, beta-domain	NA|599aa|down_1|NZ_CP015762.1_1152173_1153970_+	COG2333, ComEC, Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]	NA|323aa|down_2|NZ_CP015762.1_1153969_1154938_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|282aa|down_3|NZ_CP015762.1_1155007_1155853_+	COG0613, COG0613, Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]	NA|185aa|down_4|NZ_CP015762.1_1155920_1156475_+	PRK01885, greB, transcription elongation factor GreB; Reviewed	NA|317aa|down_5|NZ_CP015762.1_1156521_1157472_-	pfam00665, rve, Integrase core domain	NA|211aa|down_6|NZ_CP015762.1_1157570_1158203_-	pfam16970, FimA, Type-1 fimbrial protein, A	NA|761aa|down_7|NZ_CP015762.1_1158366_1160649_-	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed	NA|899aa|down_8|NZ_CP015762.1_1160803_1163500_-	PRK13012, PRK13012, 2-oxoacid dehydrogenase subunit E1; Provisional	NA|163aa|down_9|NZ_CP015762.1_1163625_1164114_+	COG1522, Lrp, Transcriptional regulators [Transcription]
GCF_001686445.1_ASM168644v1	NZ_CP015762	Bordetella pertussis strain VA-150, complete genome	5	3438605-3438714	5	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG	Orphan	TTGACTGCCAAGACGGTATCTGTCCCC	27	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA|138aa|up_8|NZ_CP015762.1_3424904_3425318_-,NA	NA|317aa|up_9|NZ_CP015762.1_3423967_3424918_-	pfam00665, rve, Integrase core domain	NA|138aa|up_8|NZ_CP015762.1_3424904_3425318_-	NA	NA|993aa|up_7|NZ_CP015762.1_3425271_3428250_+	pfam17936, Big_6, Bacterial Ig domain	NA|293aa|up_6|NZ_CP015762.1_3429176_3430055_+	pfam00487, FA_desaturase, Fatty acid desaturase	NA|317aa|up_5|NZ_CP015762.1_3432003_3432954_+	pfam00665, rve, Integrase core domain	NA|156aa|up_4|NZ_CP015762.1_3432950_3433418_-	PRK00203, rnhA, ribonuclease H; Reviewed	NA|257aa|up_3|NZ_CP015762.1_3433460_3434231_-	pfam08241, Methyltransf_11, Methyltransferase domain	NA|267aa|up_2|NZ_CP015762.1_3434251_3435052_+	TIGR03413, GSH_gloB, hydroxyacylglutathione hydrolase	NA|470aa|up_1|NZ_CP015762.1_3435062_3436472_+	PRK10783, mltD, membrane-bound lytic murein transglycosylase D; Provisional	NA|262aa|up_0|NZ_CP015762.1_3436566_3437352_+	PRK06997, PRK06997, enoyl-[acyl-carrier-protein] reductase FabI	NA|131aa|down_0|NZ_CP015762.1_3438715_3439108_-	COG1765, COG1765, Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]	NA|227aa|down_1|NZ_CP015762.1_3439245_3439926_+	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|333aa|down_2|NZ_CP015762.1_3439930_3440929_-	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|317aa|down_3|NZ_CP015762.1_3440997_3441948_-	pfam00665, rve, Integrase core domain	NA|234aa|down_4|NZ_CP015762.1_3443452_3444154_+	PRK09468, ompR, osmolarity response regulator; Provisional	NA|447aa|down_5|NZ_CP015762.1_3446646_3447987_-	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|588aa|down_6|NZ_CP015762.1_3448102_3449866_+	PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional	NA|293aa|down_7|NZ_CP015762.1_3449977_3450856_+	PRK00030, minC, septum site-determining protein MinC	NA|272aa|down_8|NZ_CP015762.1_3450968_3451784_+	COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]	NA|84aa|down_9|NZ_CP015762.1_3451787_3452039_+	PRK13989, PRK13989, cell division topological specificity factor MinE; Provisional
