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_004009235.1_ASM400923v1	CP025351	Bordetella pertussis strain H813 chromosome, complete genome	1	644871-644980	1	CRISPRCasFinder	no		DEDDh,cas3,csa3,DinG	Orphan	GGGGACAGATACCGTCTTGGCCGTCAA	27	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,csa3,DinG	NA,NA|123aa|down_8|CP025351.1_658311_658680_+	NA|272aa|up_9|CP025351.1_631799_632615_-	COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]	NA|293aa|up_8|CP025351.1_632727_633606_-	PRK00030, minC, septum site-determining protein MinC	NA|588aa|up_7|CP025351.1_633717_635481_-	PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional	NA|447aa|up_6|CP025351.1_635596_636937_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|475aa|up_5|CP025351.1_638006_639431_-	PRK09467, envZ, osmolarity sensor protein; Provisional	NA|234aa|up_4|CP025351.1_639430_640132_-	PRK09468, ompR, osmolarity response regulator; Provisional	NA|317aa|up_3|CP025351.1_641636_642587_+	pfam00665, rve, Integrase core domain	NA|333aa|up_2|CP025351.1_642655_643654_+	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|227aa|up_1|CP025351.1_643658_644339_-	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|131aa|up_0|CP025351.1_644476_644869_+	COG1765, COG1765, Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]	NA|262aa|down_0|CP025351.1_646232_647018_-	PRK06997, PRK06997, enoyl-[acyl-carrier-protein] reductase FabI	NA|470aa|down_1|CP025351.1_647112_648522_-	PRK10783, mltD, membrane-bound lytic murein transglycosylase D; Provisional	NA|267aa|down_2|CP025351.1_648532_649333_-	TIGR03413, GSH_gloB, hydroxyacylglutathione hydrolase	NA|257aa|down_3|CP025351.1_649353_650124_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|156aa|down_4|CP025351.1_650166_650634_+	PRK00203, rnhA, ribonuclease H; Reviewed	NA|317aa|down_5|CP025351.1_650630_651581_-	pfam00665, rve, Integrase core domain	NA|293aa|down_6|CP025351.1_653529_654408_-	pfam00487, FA_desaturase, Fatty acid desaturase	NA|993aa|down_7|CP025351.1_655334_658313_-	pfam17936, Big_6, Bacterial Ig domain	NA|123aa|down_8|CP025351.1_658311_658680_+	NA	NA|317aa|down_9|CP025351.1_658666_659617_+	pfam00665, rve, Integrase core domain
GCA_004009235.1_ASM400923v1	CP025351	Bordetella pertussis strain H813 chromosome, complete genome	2	2144839-2144966	2	CRISPRCasFinder	no		DEDDh,cas3,csa3,DinG	Orphan	AAAAAGCCCCCTCGGGGGGCAGCAAGCCCGCATAGCGGGCGCAGCG	46	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,csa3,DinG	NA,NA	NA|152aa|up_9|CP025351.1_2133747_2134203_+	cd03450, NodN, NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit	NA|268aa|up_8|CP025351.1_2134216_2135020_+	COG1024, CaiD, Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]	NA|144aa|up_7|CP025351.1_2135016_2135448_+	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]	NA|386aa|up_6|CP025351.1_2135444_2136602_+	PRK06158, PRK06158, thiolase; Provisional	NA|259aa|up_5|CP025351.1_2136623_2137400_+	PRK05653, fabG, 3-oxoacyl-ACP reductase FabG	NA|239aa|up_4|CP025351.1_2139564_2140281_+	TIGR02429, 3-oxoadipate_CoA-transferase_subunit_A, 3-oxoacid CoA-transferase, A subunit	NA|214aa|up_3|CP025351.1_2140273_2140915_+	TIGR02428, 3-oxoadipate_CoA-transferase_subunit_B, 3-oxoacid CoA-transferase, B subunit	NA|244aa|up_2|CP025351.1_2140949_2141681_+	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|71aa|up_1|CP025351.1_2141698_2141911_+	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|317aa|up_0|CP025351.1_2142481_2143432_+	pfam00665, rve, Integrase core domain	NA|243aa|down_0|CP025351.1_2144989_2145718_-	PRK00215, PRK00215, transcriptional repressor LexA	NA|401aa|down_1|CP025351.1_2145768_2146971_-	PRK09257, PRK09257, aromatic amino acid transaminase	NA|679aa|down_2|CP025351.1_2147048_2149085_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|164aa|down_3|CP025351.1_2149337_2149829_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|171aa|down_4|CP025351.1_2150044_2150557_+	TIGR02010, Putative_HTH-type_transcriptional_regulator, iron-sulfur cluster assembly transcription factor IscR	NA|404aa|down_5|CP025351.1_2150574_2151786_+	PRK14012, PRK14012, IscS subfamily cysteine desulfurase	NA|137aa|down_6|CP025351.1_2151823_2152234_+	PRK11325, PRK11325, scaffold protein; Provisional	NA|108aa|down_7|CP025351.1_2152235_2152559_+	TIGR02011, Protein_yfhF	NA|171aa|down_8|CP025351.1_2152561_2153074_+	PRK03578, hscB, Fe-S protein assembly co-chaperone HscB	NA|621aa|down_9|CP025351.1_2153203_2155066_+	PRK05183, hscA, chaperone protein HscA; Provisional
GCA_004009235.1_ASM400923v1	CP025351	Bordetella pertussis strain H813 chromosome, complete genome	3	2929519-2929635	3	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|CP025351.1_2929301_2929478_-,NA|101aa|down_9|CP025351.1_2942318_2942621_+	NA|899aa|up_9|CP025351.1_2911857_2914554_+	PRK13012, PRK13012, 2-oxoacid dehydrogenase subunit E1; Provisional	NA|761aa|up_8|CP025351.1_2914708_2916991_+	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed	NA|211aa|up_7|CP025351.1_2917155_2917788_+	pfam16970, FimA, Type-1 fimbrial protein, A	NA|317aa|up_6|CP025351.1_2917886_2918837_+	pfam00665, rve, Integrase core domain	NA|185aa|up_5|CP025351.1_2918883_2919438_-	PRK01885, greB, transcription elongation factor GreB; Reviewed	NA|282aa|up_4|CP025351.1_2919505_2920351_-	COG0613, COG0613, Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]	NA|323aa|up_3|CP025351.1_2920420_2921389_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|599aa|up_2|CP025351.1_2921388_2923185_-	COG2333, ComEC, Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]	NA|1309aa|up_1|CP025351.1_2925084_2929011_-	pfam11924, IAT_beta, Inverse autotransporter, beta-domain	NA|59aa|up_0|CP025351.1_2929301_2929478_-	NA	NA|1077aa|down_0|CP025351.1_2929746_2932977_-	pfam03797, Autotransporter, Autotransporter beta-domain	NA|276aa|down_1|CP025351.1_2933258_2934086_-	cd01310, TatD_DNAse, TatD like proteins;  E	NA|232aa|down_2|CP025351.1_2934119_2934815_-	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|CP025351.1_2934807_2936088_-	TIGR02212, releasing_system_transmembrane_protein_lolC	NA|326aa|down_4|CP025351.1_2936097_2937075_+	COG4255, COG4255, Uncharacterized protein conserved in bacteria [Function unknown]	NA|567aa|down_5|CP025351.1_2937056_2938757_+	PRK11070, PRK11070, single-stranded-DNA-specific exonuclease RecJ	NA|368aa|down_6|CP025351.1_2938859_2939964_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|252aa|down_7|CP025351.1_2939993_2940749_+	PRK07023, PRK07023, SDR family oxidoreductase	NA|507aa|down_8|CP025351.1_2940755_2942276_+	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed	NA|101aa|down_9|CP025351.1_2942318_2942621_+	NA
GCA_004009235.1_ASM400923v1	CP025351	Bordetella pertussis strain H813 chromosome, complete genome	4	3644397-3644490	4	CRISPRCasFinder	no	DEDDh	DEDDh,cas3,csa3,DinG	Unclear	GTGCCTGTCCCGGCGGGGACAGGCAC	26	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,csa3,DinG	NA,NA	NA|391aa|up_9|CP025351.1_3633203_3634376_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|326aa|up_8|CP025351.1_3634501_3635479_+	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|CP025351.1_3635489_3636461_-	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|CP025351.1_3636527_3637313_-	PRK09245, PRK09245, crotonase/enoyl-CoA hydratase family protein	NA|411aa|up_5|CP025351.1_3637305_3638538_-	pfam02515, CoA_transf_3, CoA-transferase family III	NA|252aa|up_4|CP025351.1_3638733_3639489_-	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|173aa|up_3|CP025351.1_3639599_3640118_+	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|467aa|up_2|CP025351.1_3641906_3643307_+	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|CP025351.1_3643406_3643751_+	COG3453, COG3453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|157aa|up_0|CP025351.1_3643839_3644310_+	pfam00582, Usp, Universal stress protein family	NA|133aa|down_0|CP025351.1_3644720_3645119_+	PRK00007, PRK00007, elongation factor G; Reviewed	NA|317aa|down_1|CP025351.1_3645250_3646201_-	pfam00665, rve, Integrase core domain	DEDDh|245aa|down_2|CP025351.1_3648645_3649380_+	PRK05711, PRK05711, DNA polymerase III subunit epsilon; Provisional	NA|60aa|down_3|CP025351.1_3649789_3649969_+	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|438aa|down_4|CP025351.1_3650159_3651473_+	COG2031, AtoE, Short chain fatty acids transporter [Lipid metabolism]	NA|504aa|down_5|CP025351.1_3651488_3653000_-	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|402aa|down_6|CP025351.1_3652996_3654202_-	TIGR00210, Sodium/glutamate_symport_carrier_protein, sodium--glutamate symport carrier (gltS)	NA|326aa|down_7|CP025351.1_3654397_3655375_-	pfam00665, rve, Integrase core domain	NA|165aa|down_8|CP025351.1_3655467_3655962_-	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|353aa|down_9|CP025351.1_3656091_3657150_+	cd04187, DPM1_like_bac, Bacterial DPM1_like enzymes are related to eukaryotic DPM1
GCA_004009235.1_ASM400923v1	CP025351	Bordetella pertussis strain H813 chromosome, complete genome	5	3825849-3825933	5	CRISPRCasFinder	no		DEDDh,cas3,csa3,DinG	Orphan	CTGTCCCCGCGGGGACAGGCACC	23	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,csa3,DinG	NA,NA	NA|585aa|up_9|CP025351.1_3813806_3815561_-	COG0405, Ggt, Gamma-glutamyltransferase [Amino acid transport and metabolism]	NA|300aa|up_8|CP025351.1_3815667_3816567_+	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|CP025351.1_3816631_3817615_-	cd13577, PBP2_BugE_Glu, Glutamate transporter of Bug (Bordetella uptake gene) protein family; contains the type 2 periplasmic binding fold	NA|327aa|up_6|CP025351.1_3817750_3818731_+	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|464aa|up_5|CP025351.1_3818747_3820139_-	PRK00485, fumC, fumarate hydratase; Reviewed	NA|179aa|up_4|CP025351.1_3820290_3820827_+	COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]	NA|415aa|up_3|CP025351.1_3820898_3822143_+	PRK10319, PRK10319, N-acetylmuramoyl-L-alanine amidase AmiA	NA|213aa|up_2|CP025351.1_3822285_3822924_-	PRK10847, PRK10847, DedA family protein	NA|630aa|up_1|CP025351.1_3823010_3824900_+	PRK00095, mutL, DNA mismatch repair endonuclease MutL	NA|314aa|up_0|CP025351.1_3824896_3825838_+	PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed	NA|350aa|down_0|CP025351.1_3825943_3826993_-	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|234aa|down_1|CP025351.1_3827245_3827947_+	PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated	NA|233aa|down_2|CP025351.1_3827943_3828642_+	cd02612, HAD_PGPPase, phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C	NA|452aa|down_3|CP025351.1_3828642_3829998_+	TIGR01942, pcnB, poly(A) polymerase	NA|164aa|down_4|CP025351.1_3829994_3830486_+	PRK14092, PRK14092, 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase	NA|319aa|down_5|CP025351.1_3830504_3831461_-	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|701aa|down_6|CP025351.1_3832871_3834974_-	TIGR00786, TRAP_transporter_permease_protein_SiaT, TRAP transporter, DctM subunit	NA|348aa|down_7|CP025351.1_3835144_3836188_+	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|CP025351.1_3836231_3836975_+	COG1802, GntR, Transcriptional regulators [Transcription]	NA|137aa|down_9|CP025351.1_3837996_3838407_-	TIGR02425, putative_gamma-carboxymuconolactone_decarboxylase, 4-carboxymuconolactone decarboxylase
