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_001605275.1_ASM160527v1	NZ_CP010963	Bordetella pertussis strain C393 chromosome, complete genome	1	296780-296864	1	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG	Orphan	CTGTCCCCGCGGGGACAGGCACC	23	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA,NA	NA|585aa|up_9|NZ_CP010963.1_284737_286492_-	COG0405, Ggt, Gamma-glutamyltransferase [Amino acid transport and metabolism]	NA|300aa|up_8|NZ_CP010963.1_286598_287498_+	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|328aa|up_7|NZ_CP010963.1_287562_288546_-	cd13577, PBP2_BugE_Glu, Glutamate transporter of Bug (Bordetella uptake gene) protein family; contains the type 2 periplasmic binding fold	NA|327aa|up_6|NZ_CP010963.1_288681_289662_+	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|464aa|up_5|NZ_CP010963.1_289678_291070_-	PRK00485, fumC, fumarate hydratase; Reviewed	NA|179aa|up_4|NZ_CP010963.1_291221_291758_+	COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]	NA|462aa|up_3|NZ_CP010963.1_291688_293074_+	PRK10319, PRK10319, N-acetylmuramoyl-L-alanine amidase AmiA	NA|213aa|up_2|NZ_CP010963.1_293216_293855_-	PRK10847, PRK10847, DedA family protein	NA|630aa|up_1|NZ_CP010963.1_293941_295831_+	PRK00095, mutL, DNA mismatch repair endonuclease MutL	NA|314aa|up_0|NZ_CP010963.1_295827_296769_+	PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed	NA|350aa|down_0|NZ_CP010963.1_296874_297924_-	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|234aa|down_1|NZ_CP010963.1_298176_298878_+	PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated	NA|233aa|down_2|NZ_CP010963.1_298874_299573_+	cd02612, HAD_PGPPase, phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C	NA|452aa|down_3|NZ_CP010963.1_299573_300929_+	TIGR01942, pcnB, poly(A) polymerase	NA|164aa|down_4|NZ_CP010963.1_300925_301417_+	PRK14092, PRK14092, 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase	NA|319aa|down_5|NZ_CP010963.1_301435_302392_-	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|701aa|down_6|NZ_CP010963.1_303802_305905_-	TIGR00786, TRAP_transporter_permease_protein_SiaT, TRAP transporter, DctM subunit	NA|348aa|down_7|NZ_CP010963.1_306075_307119_+	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|248aa|down_8|NZ_CP010963.1_307162_307906_+	COG1802, GntR, Transcriptional regulators [Transcription]	NA|137aa|down_9|NZ_CP010963.1_308927_309338_-	TIGR02425, putative_gamma-carboxymuconolactone_decarboxylase, 4-carboxymuconolactone decarboxylase
GCF_001605275.1_ASM160527v1	NZ_CP010963	Bordetella pertussis strain C393 chromosome, complete genome	2	434249-434342	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_CP010963.1_421588_422647_-	cd04187, DPM1_like_bac, Bacterial DPM1_like enzymes are related to eukaryotic DPM1	NA|165aa|up_8|NZ_CP010963.1_422776_423271_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|326aa|up_7|NZ_CP010963.1_423363_424341_+	pfam00665, rve, Integrase core domain	NA|402aa|up_6|NZ_CP010963.1_424536_425742_+	TIGR00210, Sodium/glutamate_symport_carrier_protein, sodium--glutamate symport carrier (gltS)	NA|504aa|up_5|NZ_CP010963.1_425738_427250_+	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_CP010963.1_427265_428579_-	COG2031, AtoE, Short chain fatty acids transporter [Lipid metabolism]	NA|60aa|up_3|NZ_CP010963.1_428769_428949_-	pfam04391, DUF533, Protein of unknown function (DUF533)	DEDDh|245aa|up_2|NZ_CP010963.1_429358_430093_-	PRK05711, PRK05711, DNA polymerase III subunit epsilon; Provisional	NA|317aa|up_1|NZ_CP010963.1_432537_433488_+	pfam00665, rve, Integrase core domain	NA|133aa|up_0|NZ_CP010963.1_433619_434018_-	PRK00007, PRK00007, elongation factor G; Reviewed	NA|157aa|down_0|NZ_CP010963.1_434428_434899_-	pfam00582, Usp, Universal stress protein family	NA|115aa|down_1|NZ_CP010963.1_434987_435332_-	COG3453, COG3453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|467aa|down_2|NZ_CP010963.1_435431_436832_-	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_CP010963.1_438620_439139_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|252aa|down_4|NZ_CP010963.1_439249_440005_+	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|411aa|down_5|NZ_CP010963.1_440200_441433_+	pfam02515, CoA_transf_3, CoA-transferase family III	NA|262aa|down_6|NZ_CP010963.1_441425_442211_+	PRK09245, PRK09245, crotonase/enoyl-CoA hydratase family protein	NA|324aa|down_7|NZ_CP010963.1_442277_443249_+	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_CP010963.1_443259_444237_-	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_CP010963.1_444362_445535_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26
GCF_001605275.1_ASM160527v1	NZ_CP010963	Bordetella pertussis strain C393 chromosome, complete genome	3	870560-870669	3	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG	Orphan	GGGGACAGATACCGTCTTGGCCGTCAA	27	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA,NA	NA|293aa|up_9|NZ_CP010963.1_858417_859296_-	PRK00030, minC, septum site-determining protein MinC	NA|588aa|up_8|NZ_CP010963.1_859407_861171_-	PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional	NA|447aa|up_7|NZ_CP010963.1_861286_862627_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|352aa|up_6|NZ_CP010963.1_862623_863679_+	pfam02322, Cyt_bd_oxida_II, Cytochrome bd terminal oxidase subunit II	NA|475aa|up_5|NZ_CP010963.1_863695_865120_-	PRK09467, envZ, osmolarity sensor protein; Provisional	NA|234aa|up_4|NZ_CP010963.1_865119_865821_-	PRK09468, ompR, osmolarity response regulator; Provisional	NA|317aa|up_3|NZ_CP010963.1_867325_868276_+	pfam00665, rve, Integrase core domain	NA|324aa|up_2|NZ_CP010963.1_868371_869343_+	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_CP010963.1_869347_870028_-	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|131aa|up_0|NZ_CP010963.1_870165_870558_+	COG1765, COG1765, Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]	NA|262aa|down_0|NZ_CP010963.1_871921_872707_-	PRK06997, PRK06997, enoyl-[acyl-carrier-protein] reductase FabI	NA|470aa|down_1|NZ_CP010963.1_872801_874211_-	PRK10783, mltD, membrane-bound lytic murein transglycosylase D; Provisional	NA|267aa|down_2|NZ_CP010963.1_874221_875022_-	TIGR03413, GSH_gloB, hydroxyacylglutathione hydrolase	NA|257aa|down_3|NZ_CP010963.1_875042_875813_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|156aa|down_4|NZ_CP010963.1_875855_876323_+	PRK00203, rnhA, ribonuclease H; Reviewed	NA|317aa|down_5|NZ_CP010963.1_876319_877270_-	pfam00665, rve, Integrase core domain	NA|293aa|down_6|NZ_CP010963.1_879218_880097_-	pfam00487, FA_desaturase, Fatty acid desaturase	NA|993aa|down_7|NZ_CP010963.1_881023_884002_-	pfam17936, Big_6, Bacterial Ig domain	NA|317aa|down_8|NZ_CP010963.1_884355_885306_+	pfam00665, rve, Integrase core domain	NA|363aa|down_9|NZ_CP010963.1_885302_886391_-	cd08948, 5beta-POR_like_SDR_a, progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs
GCF_001605275.1_ASM160527v1	NZ_CP010963	Bordetella pertussis strain C393 chromosome, complete genome	4	3158395-3158511	4	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG	Orphan	TTTTTTGCCTTGGGGCGGCCCGGCGGCAAAAAAA	34	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA,NA|101aa|down_9|NZ_CP010963.1_3171194_3171497_+	NA|957aa|up_9|NZ_CP010963.1_3134832_3137703_-	PRK09404, sucA, 2-oxoglutarate dehydrogenase E1 component; Reviewed	NA|163aa|up_8|NZ_CP010963.1_3140113_3140602_-	COG1522, Lrp, Transcriptional regulators [Transcription]	NA|899aa|up_7|NZ_CP010963.1_3140727_3143424_+	PRK13012, PRK13012, 2-oxoacid dehydrogenase subunit E1; Provisional	NA|761aa|up_6|NZ_CP010963.1_3143578_3145861_+	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed	NA|208aa|up_5|NZ_CP010963.1_3146040_3146664_+	pfam16970, FimA, Type-1 fimbrial protein, A	NA|317aa|up_4|NZ_CP010963.1_3146762_3147713_+	pfam00665, rve, Integrase core domain	NA|185aa|up_3|NZ_CP010963.1_3147759_3148314_-	PRK01885, greB, transcription elongation factor GreB; Reviewed	NA|282aa|up_2|NZ_CP010963.1_3148381_3149227_-	COG0613, COG0613, Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]	NA|323aa|up_1|NZ_CP010963.1_3149296_3150265_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|1309aa|up_0|NZ_CP010963.1_3153960_3157887_-	pfam11924, IAT_beta, Inverse autotransporter, beta-domain	NA|1077aa|down_0|NZ_CP010963.1_3158622_3161853_-	pfam03797, Autotransporter, Autotransporter beta-domain	NA|276aa|down_1|NZ_CP010963.1_3162134_3162962_-	cd01310, TatD_DNAse, TatD like proteins;  E	NA|232aa|down_2|NZ_CP010963.1_3162995_3163691_-	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_CP010963.1_3163683_3164964_-	TIGR02212, releasing_system_transmembrane_protein_lolC	NA|326aa|down_4|NZ_CP010963.1_3164973_3165951_+	COG4255, COG4255, Uncharacterized protein conserved in bacteria [Function unknown]	NA|567aa|down_5|NZ_CP010963.1_3165932_3167633_+	PRK11070, PRK11070, single-stranded-DNA-specific exonuclease RecJ	NA|368aa|down_6|NZ_CP010963.1_3167735_3168840_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|252aa|down_7|NZ_CP010963.1_3168869_3169625_+	PRK07023, PRK07023, SDR family oxidoreductase	NA|507aa|down_8|NZ_CP010963.1_3169631_3171152_+	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed	NA|101aa|down_9|NZ_CP010963.1_3171194_3171497_+	NA
