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_001686545.1_ASM168654v1	NZ_CP015767	Bordetella pertussis strain VA-18, complete genome	1	375777-375886	1	CRISPRCasFinder	no		DEDDh,cas3,csa3,DinG	Orphan	GGGGACAGATACCGTCTTGGCCGTCAA	27	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,csa3,DinG	NA,NA|138aa|down_8|NZ_CP015767.1_389172_389586_+	NA|272aa|up_9|NZ_CP015767.1_362705_363521_-	COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]	NA|293aa|up_8|NZ_CP015767.1_363633_364512_-	PRK00030, minC, septum site-determining protein MinC	NA|588aa|up_7|NZ_CP015767.1_364623_366387_-	PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional	NA|447aa|up_6|NZ_CP015767.1_366502_367843_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|475aa|up_5|NZ_CP015767.1_368912_370337_-	PRK09467, envZ, osmolarity sensor protein; Provisional	NA|234aa|up_4|NZ_CP015767.1_370336_371038_-	PRK09468, ompR, osmolarity response regulator; Provisional	NA|317aa|up_3|NZ_CP015767.1_372542_373493_+	pfam00665, rve, Integrase core domain	NA|333aa|up_2|NZ_CP015767.1_373561_374560_+	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|227aa|up_1|NZ_CP015767.1_374564_375245_-	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|131aa|up_0|NZ_CP015767.1_375382_375775_+	COG1765, COG1765, Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]	NA|262aa|down_0|NZ_CP015767.1_377138_377924_-	PRK06997, PRK06997, enoyl-[acyl-carrier-protein] reductase FabI	NA|470aa|down_1|NZ_CP015767.1_378018_379428_-	PRK10783, mltD, membrane-bound lytic murein transglycosylase D; Provisional	NA|267aa|down_2|NZ_CP015767.1_379438_380239_-	TIGR03413, GSH_gloB, hydroxyacylglutathione hydrolase	NA|257aa|down_3|NZ_CP015767.1_380259_381030_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|156aa|down_4|NZ_CP015767.1_381072_381540_+	PRK00203, rnhA, ribonuclease H; Reviewed	NA|317aa|down_5|NZ_CP015767.1_381536_382487_-	pfam00665, rve, Integrase core domain	NA|293aa|down_6|NZ_CP015767.1_384435_385314_-	pfam00487, FA_desaturase, Fatty acid desaturase	NA|993aa|down_7|NZ_CP015767.1_386240_389219_-	pfam17936, Big_6, Bacterial Ig domain	NA|138aa|down_8|NZ_CP015767.1_389172_389586_+	NA	NA|317aa|down_9|NZ_CP015767.1_389572_390523_+	pfam00665, rve, Integrase core domain
GCF_001686545.1_ASM168654v1	NZ_CP015767	Bordetella pertussis strain VA-18, complete genome	2	2659384-2659500	2	CRISPRCasFinder	no		DEDDh,cas3,csa3,DinG	Orphan	TTTTTTGCCTTGGGGCGGCCCGGCGGCAAAAAAA	34	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,csa3,DinG	NA|59aa|up_0|NZ_CP015767.1_2659166_2659343_-,NA|101aa|down_9|NZ_CP015767.1_2672183_2672486_+	NA|899aa|up_9|NZ_CP015767.1_2641720_2644417_+	PRK13012, PRK13012, 2-oxoacid dehydrogenase subunit E1; Provisional	NA|761aa|up_8|NZ_CP015767.1_2644571_2646854_+	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed	NA|211aa|up_7|NZ_CP015767.1_2647020_2647653_+	pfam16970, FimA, Type-1 fimbrial protein, A	NA|317aa|up_6|NZ_CP015767.1_2647751_2648702_+	pfam00665, rve, Integrase core domain	NA|185aa|up_5|NZ_CP015767.1_2648748_2649303_-	PRK01885, greB, transcription elongation factor GreB; Reviewed	NA|282aa|up_4|NZ_CP015767.1_2649370_2650216_-	COG0613, COG0613, Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]	NA|323aa|up_3|NZ_CP015767.1_2650285_2651254_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|599aa|up_2|NZ_CP015767.1_2651253_2653050_-	COG2333, ComEC, Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]	NA|1309aa|up_1|NZ_CP015767.1_2654949_2658876_-	pfam11924, IAT_beta, Inverse autotransporter, beta-domain	NA|59aa|up_0|NZ_CP015767.1_2659166_2659343_-	NA	NA|1077aa|down_0|NZ_CP015767.1_2659611_2662842_-	pfam03797, Autotransporter, Autotransporter beta-domain	NA|276aa|down_1|NZ_CP015767.1_2663123_2663951_-	cd01310, TatD_DNAse, TatD like proteins;  E	NA|232aa|down_2|NZ_CP015767.1_2663984_2664680_-	cd03255, ABC_MJ0796_LolCDE_FtsE, ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein	NA|427aa|down_3|NZ_CP015767.1_2664672_2665953_-	TIGR02212, releasing_system_transmembrane_protein_lolC	NA|326aa|down_4|NZ_CP015767.1_2665962_2666940_+	COG4255, COG4255, Uncharacterized protein conserved in bacteria [Function unknown]	NA|567aa|down_5|NZ_CP015767.1_2666921_2668622_+	PRK11070, PRK11070, single-stranded-DNA-specific exonuclease RecJ	NA|368aa|down_6|NZ_CP015767.1_2668724_2669829_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|252aa|down_7|NZ_CP015767.1_2669858_2670614_+	PRK07023, PRK07023, SDR family oxidoreductase	NA|507aa|down_8|NZ_CP015767.1_2670620_2672141_+	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed	NA|101aa|down_9|NZ_CP015767.1_2672183_2672486_+	NA
GCF_001686545.1_ASM168654v1	NZ_CP015767	Bordetella pertussis strain VA-18, complete genome	3	3373106-3373199	3	CRISPRCasFinder	no		DEDDh,cas3,csa3,DinG	Orphan	GTGCCTGTCCCGGCGGGGACAGGCAC	26	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,csa3,DinG	NA,NA|132aa|down_8|NZ_CP015767.1_3380774_3381170_-	NA|391aa|up_9|NZ_CP015767.1_3361912_3363085_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|326aa|up_8|NZ_CP015767.1_3363210_3364188_+	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|324aa|up_7|NZ_CP015767.1_3364198_3365170_-	cd07012, PBP2_Bug_TTT, Bug (Bordetella uptake gene) protein family of periplasmic solute-binding receptors; contains the type 2 periplasmic binding fold	NA|262aa|up_6|NZ_CP015767.1_3365236_3366022_-	PRK09245, PRK09245, crotonase/enoyl-CoA hydratase family protein	NA|411aa|up_5|NZ_CP015767.1_3366014_3367247_-	pfam02515, CoA_transf_3, CoA-transferase family III	NA|252aa|up_4|NZ_CP015767.1_3367442_3368198_-	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|173aa|up_3|NZ_CP015767.1_3368308_3368827_+	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|467aa|up_2|NZ_CP015767.1_3370615_3372016_+	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|115aa|up_1|NZ_CP015767.1_3372115_3372460_+	COG3453, COG3453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|157aa|up_0|NZ_CP015767.1_3372548_3373019_+	pfam00582, Usp, Universal stress protein family	NA|133aa|down_0|NZ_CP015767.1_3373429_3373828_+	PRK00007, PRK00007, elongation factor G; Reviewed	NA|317aa|down_1|NZ_CP015767.1_3373959_3374910_-	pfam00665, rve, Integrase core domain	NA|316aa|down_2|NZ_CP015767.1_3375008_3375956_-	cd00408, DHDPS-like, Dihydrodipicolinate synthase family	NA|297aa|down_3|NZ_CP015767.1_3376162_3377053_+	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|383aa|down_4|NZ_CP015767.1_3377049_3378198_-	pfam02515, CoA_transf_3, CoA-transferase family III	NA|324aa|down_5|NZ_CP015767.1_3378205_3379177_-	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|387aa|down_6|NZ_CP015767.1_3379214_3380375_-	cd01160, LCAD, Long chain acyl-CoA dehydrogenase	NA|131aa|down_7|NZ_CP015767.1_3380385_3380778_-	cd03441, R_hydratase_like, (R)-hydratase [(R)-specific enoyl-CoA hydratase]	NA|132aa|down_8|NZ_CP015767.1_3380774_3381170_-	NA	NA|134aa|down_9|NZ_CP015767.1_3381166_3381568_-	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
GCF_001686545.1_ASM168654v1	NZ_CP015767	Bordetella pertussis strain VA-18, complete genome	4	4105619-4105703	4	CRISPRCasFinder	no		DEDDh,cas3,csa3,DinG	Orphan	GGTGCCTGTCCCCGCGGGGACAG	23	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,csa3,DinG	NA,NA	NA|137aa|up_9|NZ_CP015767.1_4093144_4093555_+	TIGR02425, putative_gamma-carboxymuconolactone_decarboxylase, 4-carboxymuconolactone decarboxylase	NA|248aa|up_8|NZ_CP015767.1_4094576_4095320_-	COG1802, GntR, Transcriptional regulators [Transcription]	NA|348aa|up_7|NZ_CP015767.1_4095363_4096407_-	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_CP015767.1_4096577_4098680_+	TIGR00786, TRAP_transporter_permease_protein_SiaT, TRAP transporter, DctM subunit	NA|319aa|up_5|NZ_CP015767.1_4100090_4101047_+	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_CP015767.1_4101065_4101557_-	PRK14092, PRK14092, 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase	NA|452aa|up_3|NZ_CP015767.1_4101553_4102909_-	TIGR01942, pcnB, poly(A) polymerase	NA|233aa|up_2|NZ_CP015767.1_4102909_4103608_-	cd02612, HAD_PGPPase, phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C	NA|234aa|up_1|NZ_CP015767.1_4103604_4104306_-	PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated	NA|350aa|up_0|NZ_CP015767.1_4104558_4105608_+	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|314aa|down_0|NZ_CP015767.1_4105713_4106655_-	PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed	NA|630aa|down_1|NZ_CP015767.1_4106651_4108541_-	PRK00095, mutL, DNA mismatch repair endonuclease MutL	NA|213aa|down_2|NZ_CP015767.1_4108627_4109266_+	PRK10847, PRK10847, DedA family protein	NA|462aa|down_3|NZ_CP015767.1_4109408_4110794_-	PRK10319, PRK10319, N-acetylmuramoyl-L-alanine amidase AmiA	NA|179aa|down_4|NZ_CP015767.1_4110724_4111261_-	COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]	NA|464aa|down_5|NZ_CP015767.1_4111412_4112804_+	PRK00485, fumC, fumarate hydratase; Reviewed	NA|327aa|down_6|NZ_CP015767.1_4112820_4113801_-	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|328aa|down_7|NZ_CP015767.1_4113936_4114920_+	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_CP015767.1_4114984_4115884_-	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_CP015767.1_4115990_4117745_+	COG0405, Ggt, Gamma-glutamyltransferase [Amino acid transport and metabolism]
