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_001984965.1_ASM198496v1	NZ_CP011169	Bordetella pertussis strain D521 chromosome, complete genome	1	250592-250676	1	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_CP011169.1_238117_238528_+	TIGR02425, putative_gamma-carboxymuconolactone_decarboxylase, 4-carboxymuconolactone decarboxylase	NA|248aa|up_8|NZ_CP011169.1_239549_240293_-	COG1802, GntR, Transcriptional regulators [Transcription]	NA|348aa|up_7|NZ_CP011169.1_240336_241380_-	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_CP011169.1_241550_243653_+	TIGR00786, TRAP_transporter_permease_protein_SiaT, TRAP transporter, DctM subunit	NA|319aa|up_5|NZ_CP011169.1_245063_246020_+	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_CP011169.1_246038_246530_-	PRK14092, PRK14092, 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase	NA|452aa|up_3|NZ_CP011169.1_246526_247882_-	TIGR01942, pcnB, poly(A) polymerase	NA|233aa|up_2|NZ_CP011169.1_247882_248581_-	cd02612, HAD_PGPPase, phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C	NA|234aa|up_1|NZ_CP011169.1_248577_249279_-	PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated	NA|350aa|up_0|NZ_CP011169.1_249531_250581_+	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|314aa|down_0|NZ_CP011169.1_250686_251628_-	PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed	NA|630aa|down_1|NZ_CP011169.1_251624_253514_-	PRK00095, mutL, DNA mismatch repair endonuclease MutL	NA|213aa|down_2|NZ_CP011169.1_253600_254239_+	PRK10847, PRK10847, DedA family protein	NA|462aa|down_3|NZ_CP011169.1_254381_255767_-	PRK10319, PRK10319, N-acetylmuramoyl-L-alanine amidase AmiA	NA|179aa|down_4|NZ_CP011169.1_255697_256234_-	COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]	NA|464aa|down_5|NZ_CP011169.1_256385_257777_+	PRK00485, fumC, fumarate hydratase; Reviewed	NA|327aa|down_6|NZ_CP011169.1_257793_258774_-	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|328aa|down_7|NZ_CP011169.1_258909_259893_+	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_CP011169.1_259957_260857_-	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_CP011169.1_260963_262718_+	COG0405, Ggt, Gamma-glutamyltransferase [Amino acid transport and metabolism]
GCF_001984965.1_ASM198496v1	NZ_CP011169	Bordetella pertussis strain D521 chromosome, complete genome	2	622951-623060	2	CRISPRCasFinder	no		DEDDh,cas3,csa3,DinG	Orphan	GGGGACAGATACCGTCTTGGCCGTCAA	27	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,csa3,DinG	NA,NA	NA|272aa|up_9|NZ_CP011169.1_609879_610695_-	COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]	NA|293aa|up_8|NZ_CP011169.1_610807_611686_-	PRK00030, minC, septum site-determining protein MinC	NA|588aa|up_7|NZ_CP011169.1_611797_613561_-	PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional	NA|447aa|up_6|NZ_CP011169.1_613676_615017_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|475aa|up_5|NZ_CP011169.1_616086_617511_-	PRK09467, envZ, osmolarity sensor protein; Provisional	NA|234aa|up_4|NZ_CP011169.1_617510_618212_-	PRK09468, ompR, osmolarity response regulator; Provisional	NA|317aa|up_3|NZ_CP011169.1_619716_620667_+	pfam00665, rve, Integrase core domain	NA|324aa|up_2|NZ_CP011169.1_620762_621734_+	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_CP011169.1_621738_622419_-	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|131aa|up_0|NZ_CP011169.1_622556_622949_+	COG1765, COG1765, Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]	NA|262aa|down_0|NZ_CP011169.1_624312_625098_-	PRK06997, PRK06997, enoyl-[acyl-carrier-protein] reductase FabI	NA|470aa|down_1|NZ_CP011169.1_625192_626602_-	PRK10783, mltD, membrane-bound lytic murein transglycosylase D; Provisional	NA|267aa|down_2|NZ_CP011169.1_626612_627413_-	TIGR03413, GSH_gloB, hydroxyacylglutathione hydrolase	NA|257aa|down_3|NZ_CP011169.1_627433_628204_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|156aa|down_4|NZ_CP011169.1_628246_628714_+	PRK00203, rnhA, ribonuclease H; Reviewed	NA|317aa|down_5|NZ_CP011169.1_628710_629661_-	pfam00665, rve, Integrase core domain	NA|293aa|down_6|NZ_CP011169.1_631609_632488_-	pfam00487, FA_desaturase, Fatty acid desaturase	NA|993aa|down_7|NZ_CP011169.1_633414_636393_-	pfam17936, Big_6, Bacterial Ig domain	NA|317aa|down_8|NZ_CP011169.1_636746_637697_+	pfam00665, rve, Integrase core domain	NA|363aa|down_9|NZ_CP011169.1_637693_638782_-	cd08948, 5beta-POR_like_SDR_a, progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs
GCF_001984965.1_ASM198496v1	NZ_CP011169	Bordetella pertussis strain D521 chromosome, complete genome	3	2118676-2118803	3	CRISPRCasFinder	no		DEDDh,cas3,csa3,DinG	Orphan	AAAAAGCCCCCTCGGGGGGCAGCAAGCCCGCATAGCGGGCGCAGCG	46	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,csa3,DinG	NA,NA	NA|134aa|up_9|NZ_CP011169.1_2107638_2108040_+	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|NZ_CP011169.1_2108053_2108857_+	COG1024, CaiD, Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]	NA|144aa|up_7|NZ_CP011169.1_2108853_2109285_+	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]	NA|386aa|up_6|NZ_CP011169.1_2109281_2110439_+	PRK06158, PRK06158, thiolase; Provisional	NA|259aa|up_5|NZ_CP011169.1_2110460_2111237_+	PRK05653, fabG, 3-oxoacyl-ACP reductase FabG	NA|223aa|up_4|NZ_CP011169.1_2113449_2114118_+	TIGR02429, 3-oxoadipate_CoA-transferase_subunit_A, 3-oxoacid CoA-transferase, A subunit	NA|214aa|up_3|NZ_CP011169.1_2114110_2114752_+	TIGR02428, 3-oxoadipate_CoA-transferase_subunit_B, 3-oxoacid CoA-transferase, B subunit	NA|244aa|up_2|NZ_CP011169.1_2114786_2115518_+	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|71aa|up_1|NZ_CP011169.1_2115535_2115748_+	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|317aa|up_0|NZ_CP011169.1_2116318_2117269_+	pfam00665, rve, Integrase core domain	NA|217aa|down_0|NZ_CP011169.1_2118826_2119477_-	PRK00215, PRK00215, transcriptional repressor LexA	NA|401aa|down_1|NZ_CP011169.1_2119605_2120808_-	PRK09257, PRK09257, aromatic amino acid transaminase	NA|679aa|down_2|NZ_CP011169.1_2120885_2122922_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|164aa|down_3|NZ_CP011169.1_2123174_2123666_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|171aa|down_4|NZ_CP011169.1_2123881_2124394_+	TIGR02010, Putative_HTH-type_transcriptional_regulator, iron-sulfur cluster assembly transcription factor IscR	NA|404aa|down_5|NZ_CP011169.1_2124411_2125623_+	PRK14012, PRK14012, IscS subfamily cysteine desulfurase	NA|137aa|down_6|NZ_CP011169.1_2125660_2126071_+	PRK11325, PRK11325, scaffold protein; Provisional	NA|108aa|down_7|NZ_CP011169.1_2126072_2126396_+	TIGR02011, Protein_yfhF	NA|171aa|down_8|NZ_CP011169.1_2126398_2126911_+	PRK03578, hscB, Fe-S protein assembly co-chaperone HscB	NA|621aa|down_9|NZ_CP011169.1_2127040_2128903_+	PRK05183, hscA, chaperone protein HscA; Provisional
GCF_001984965.1_ASM198496v1	NZ_CP011169	Bordetella pertussis strain D521 chromosome, complete genome	4	2904403-2904519	4	CRISPRCasFinder	no		DEDDh,cas3,csa3,DinG	Orphan	TTTTTTGCCTTGGGGCGGCCCGGCGGCAAAAAAA	34	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,csa3,DinG	NA,NA|101aa|down_9|NZ_CP011169.1_2917202_2917505_+	NA|163aa|up_9|NZ_CP011169.1_2886129_2886618_-	COG1522, Lrp, Transcriptional regulators [Transcription]	NA|899aa|up_8|NZ_CP011169.1_2886743_2889440_+	PRK13012, PRK13012, 2-oxoacid dehydrogenase subunit E1; Provisional	NA|761aa|up_7|NZ_CP011169.1_2889594_2891877_+	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed	NA|208aa|up_6|NZ_CP011169.1_2892048_2892672_+	pfam16970, FimA, Type-1 fimbrial protein, A	NA|317aa|up_5|NZ_CP011169.1_2892770_2893721_+	pfam00665, rve, Integrase core domain	NA|185aa|up_4|NZ_CP011169.1_2893767_2894322_-	PRK01885, greB, transcription elongation factor GreB; Reviewed	NA|282aa|up_3|NZ_CP011169.1_2894389_2895235_-	COG0613, COG0613, Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]	NA|323aa|up_2|NZ_CP011169.1_2895304_2896273_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|288aa|up_1|NZ_CP011169.1_2896272_2897136_-	COG2333, ComEC, Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]	NA|1309aa|up_0|NZ_CP011169.1_2899968_2903895_-	pfam11924, IAT_beta, Inverse autotransporter, beta-domain	NA|1077aa|down_0|NZ_CP011169.1_2904630_2907861_-	pfam03797, Autotransporter, Autotransporter beta-domain	NA|276aa|down_1|NZ_CP011169.1_2908142_2908970_-	cd01310, TatD_DNAse, TatD like proteins;  E	NA|232aa|down_2|NZ_CP011169.1_2909003_2909699_-	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_CP011169.1_2909691_2910972_-	TIGR02212, releasing_system_transmembrane_protein_lolC	NA|326aa|down_4|NZ_CP011169.1_2910981_2911959_+	COG4255, COG4255, Uncharacterized protein conserved in bacteria [Function unknown]	NA|567aa|down_5|NZ_CP011169.1_2911940_2913641_+	PRK11070, PRK11070, single-stranded-DNA-specific exonuclease RecJ	NA|368aa|down_6|NZ_CP011169.1_2913743_2914848_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|252aa|down_7|NZ_CP011169.1_2914877_2915633_+	PRK07023, PRK07023, SDR family oxidoreductase	NA|507aa|down_8|NZ_CP011169.1_2915639_2917160_+	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed	NA|101aa|down_9|NZ_CP011169.1_2917202_2917505_+	NA
GCF_001984965.1_ASM198496v1	NZ_CP011169	Bordetella pertussis strain D521 chromosome, complete genome	5	3618125-3618218	5	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_CP011169.1_3625793_3626189_-	NA|391aa|up_9|NZ_CP011169.1_3606931_3608104_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|326aa|up_8|NZ_CP011169.1_3608229_3609207_+	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_CP011169.1_3609217_3610189_-	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_CP011169.1_3610255_3611041_-	PRK09245, PRK09245, crotonase/enoyl-CoA hydratase family protein	NA|411aa|up_5|NZ_CP011169.1_3611033_3612266_-	pfam02515, CoA_transf_3, CoA-transferase family III	NA|252aa|up_4|NZ_CP011169.1_3612461_3613217_-	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|173aa|up_3|NZ_CP011169.1_3613327_3613846_+	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|467aa|up_2|NZ_CP011169.1_3615634_3617035_+	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_CP011169.1_3617134_3617479_+	COG3453, COG3453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|157aa|up_0|NZ_CP011169.1_3617567_3618038_+	pfam00582, Usp, Universal stress protein family	NA|133aa|down_0|NZ_CP011169.1_3618448_3618847_+	PRK00007, PRK00007, elongation factor G; Reviewed	NA|317aa|down_1|NZ_CP011169.1_3618978_3619929_-	pfam00665, rve, Integrase core domain	NA|316aa|down_2|NZ_CP011169.1_3620027_3620975_-	cd00408, DHDPS-like, Dihydrodipicolinate synthase family	NA|297aa|down_3|NZ_CP011169.1_3621181_3622072_+	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_CP011169.1_3622068_3623217_-	pfam02515, CoA_transf_3, CoA-transferase family III	NA|324aa|down_5|NZ_CP011169.1_3623224_3624196_-	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_CP011169.1_3624233_3625394_-	cd01160, LCAD, Long chain acyl-CoA dehydrogenase	NA|131aa|down_7|NZ_CP011169.1_3625404_3625797_-	cd03441, R_hydratase_like, (R)-hydratase [(R)-specific enoyl-CoA hydratase]	NA|132aa|down_8|NZ_CP011169.1_3625793_3626189_-	NA	NA|134aa|down_9|NZ_CP011169.1_3626185_3626587_-	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
