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_001986355.1_ASM198635v1	NZ_CP011244	Bordetella pertussis strain J022 chromosome, complete genome	1	644872-644981	1	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_CP011244.1_631800_632616_-	COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]	NA|293aa|up_8|NZ_CP011244.1_632728_633607_-	PRK00030, minC, septum site-determining protein MinC	NA|588aa|up_7|NZ_CP011244.1_633718_635482_-	PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional	NA|447aa|up_6|NZ_CP011244.1_635597_636938_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|475aa|up_5|NZ_CP011244.1_638007_639432_-	PRK09467, envZ, osmolarity sensor protein; Provisional	NA|234aa|up_4|NZ_CP011244.1_639431_640133_-	PRK09468, ompR, osmolarity response regulator; Provisional	NA|317aa|up_3|NZ_CP011244.1_641637_642588_+	pfam00665, rve, Integrase core domain	NA|324aa|up_2|NZ_CP011244.1_642683_643655_+	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_CP011244.1_643659_644340_-	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|131aa|up_0|NZ_CP011244.1_644477_644870_+	COG1765, COG1765, Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]	NA|262aa|down_0|NZ_CP011244.1_646233_647019_-	PRK06997, PRK06997, enoyl-[acyl-carrier-protein] reductase FabI	NA|470aa|down_1|NZ_CP011244.1_647113_648523_-	PRK10783, mltD, membrane-bound lytic murein transglycosylase D; Provisional	NA|267aa|down_2|NZ_CP011244.1_648533_649334_-	TIGR03413, GSH_gloB, hydroxyacylglutathione hydrolase	NA|257aa|down_3|NZ_CP011244.1_649354_650125_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|156aa|down_4|NZ_CP011244.1_650167_650635_+	PRK00203, rnhA, ribonuclease H; Reviewed	NA|317aa|down_5|NZ_CP011244.1_650631_651582_-	pfam00665, rve, Integrase core domain	NA|293aa|down_6|NZ_CP011244.1_653530_654409_-	pfam00487, FA_desaturase, Fatty acid desaturase	NA|993aa|down_7|NZ_CP011244.1_655335_658314_-	pfam17936, Big_6, Bacterial Ig domain	NA|317aa|down_8|NZ_CP011244.1_658667_659618_+	pfam00665, rve, Integrase core domain	NA|363aa|down_9|NZ_CP011244.1_659614_660703_-	cd08948, 5beta-POR_like_SDR_a, progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs
GCF_001986355.1_ASM198635v1	NZ_CP011244	Bordetella pertussis strain J022 chromosome, complete genome	2	2929525-2929641	2	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_CP011244.1_2942324_2942627_+	NA|163aa|up_9|NZ_CP011244.1_2911246_2911735_-	COG1522, Lrp, Transcriptional regulators [Transcription]	NA|899aa|up_8|NZ_CP011244.1_2911860_2914557_+	PRK13012, PRK13012, 2-oxoacid dehydrogenase subunit E1; Provisional	NA|761aa|up_7|NZ_CP011244.1_2914711_2916994_+	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed	NA|211aa|up_6|NZ_CP011244.1_2917161_2917794_+	pfam16970, FimA, Type-1 fimbrial protein, A	NA|317aa|up_5|NZ_CP011244.1_2917892_2918843_+	pfam00665, rve, Integrase core domain	NA|185aa|up_4|NZ_CP011244.1_2918889_2919444_-	PRK01885, greB, transcription elongation factor GreB; Reviewed	NA|282aa|up_3|NZ_CP011244.1_2919511_2920357_-	COG0613, COG0613, Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]	NA|323aa|up_2|NZ_CP011244.1_2920426_2921395_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|599aa|up_1|NZ_CP011244.1_2921394_2923191_-	COG2333, ComEC, Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]	NA|1309aa|up_0|NZ_CP011244.1_2925090_2929017_-	pfam11924, IAT_beta, Inverse autotransporter, beta-domain	NA|1077aa|down_0|NZ_CP011244.1_2929752_2932983_-	pfam03797, Autotransporter, Autotransporter beta-domain	NA|276aa|down_1|NZ_CP011244.1_2933264_2934092_-	cd01310, TatD_DNAse, TatD like proteins;  E	NA|232aa|down_2|NZ_CP011244.1_2934125_2934821_-	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_CP011244.1_2934813_2936094_-	TIGR02212, releasing_system_transmembrane_protein_lolC	NA|326aa|down_4|NZ_CP011244.1_2936103_2937081_+	COG4255, COG4255, Uncharacterized protein conserved in bacteria [Function unknown]	NA|567aa|down_5|NZ_CP011244.1_2937062_2938763_+	PRK11070, PRK11070, single-stranded-DNA-specific exonuclease RecJ	NA|368aa|down_6|NZ_CP011244.1_2938865_2939970_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|252aa|down_7|NZ_CP011244.1_2939999_2940755_+	PRK07023, PRK07023, SDR family oxidoreductase	NA|507aa|down_8|NZ_CP011244.1_2940761_2942282_+	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed	NA|101aa|down_9|NZ_CP011244.1_2942324_2942627_+	NA
GCF_001986355.1_ASM198635v1	NZ_CP011244	Bordetella pertussis strain J022 chromosome, complete genome	3	3644404-3644497	3	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|NZ_CP011244.1_3633210_3634383_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|326aa|up_8|NZ_CP011244.1_3634508_3635486_+	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_CP011244.1_3635496_3636468_-	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_CP011244.1_3636534_3637320_-	PRK09245, PRK09245, crotonase/enoyl-CoA hydratase family protein	NA|411aa|up_5|NZ_CP011244.1_3637312_3638545_-	pfam02515, CoA_transf_3, CoA-transferase family III	NA|252aa|up_4|NZ_CP011244.1_3638740_3639496_-	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|173aa|up_3|NZ_CP011244.1_3639606_3640125_+	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|467aa|up_2|NZ_CP011244.1_3641913_3643314_+	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_CP011244.1_3643413_3643758_+	COG3453, COG3453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|157aa|up_0|NZ_CP011244.1_3643846_3644317_+	pfam00582, Usp, Universal stress protein family	NA|133aa|down_0|NZ_CP011244.1_3644727_3645126_+	PRK00007, PRK00007, elongation factor G; Reviewed	NA|317aa|down_1|NZ_CP011244.1_3645257_3646208_-	pfam00665, rve, Integrase core domain	DEDDh|245aa|down_2|NZ_CP011244.1_3648652_3649387_+	PRK05711, PRK05711, DNA polymerase III subunit epsilon; Provisional	NA|60aa|down_3|NZ_CP011244.1_3649796_3649976_+	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|438aa|down_4|NZ_CP011244.1_3650166_3651480_+	COG2031, AtoE, Short chain fatty acids transporter [Lipid metabolism]	NA|504aa|down_5|NZ_CP011244.1_3651495_3653007_-	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|NZ_CP011244.1_3653003_3654209_-	TIGR00210, Sodium/glutamate_symport_carrier_protein, sodium--glutamate symport carrier (gltS)	NA|326aa|down_7|NZ_CP011244.1_3654404_3655382_-	pfam00665, rve, Integrase core domain	NA|165aa|down_8|NZ_CP011244.1_3655474_3655969_-	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|353aa|down_9|NZ_CP011244.1_3656098_3657157_+	cd04187, DPM1_like_bac, Bacterial DPM1_like enzymes are related to eukaryotic DPM1
GCF_001986355.1_ASM198635v1	NZ_CP011244	Bordetella pertussis strain J022 chromosome, complete genome	4	3825856-3825940	4	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|NZ_CP011244.1_3813813_3815568_-	COG0405, Ggt, Gamma-glutamyltransferase [Amino acid transport and metabolism]	NA|300aa|up_8|NZ_CP011244.1_3815674_3816574_+	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_CP011244.1_3816638_3817622_-	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_CP011244.1_3817757_3818738_+	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|464aa|up_5|NZ_CP011244.1_3818754_3820146_-	PRK00485, fumC, fumarate hydratase; Reviewed	NA|179aa|up_4|NZ_CP011244.1_3820297_3820834_+	COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]	NA|462aa|up_3|NZ_CP011244.1_3820764_3822150_+	PRK10319, PRK10319, N-acetylmuramoyl-L-alanine amidase AmiA	NA|213aa|up_2|NZ_CP011244.1_3822292_3822931_-	PRK10847, PRK10847, DedA family protein	NA|630aa|up_1|NZ_CP011244.1_3823017_3824907_+	PRK00095, mutL, DNA mismatch repair endonuclease MutL	NA|314aa|up_0|NZ_CP011244.1_3824903_3825845_+	PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed	NA|350aa|down_0|NZ_CP011244.1_3825950_3827000_-	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|234aa|down_1|NZ_CP011244.1_3827252_3827954_+	PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated	NA|233aa|down_2|NZ_CP011244.1_3827950_3828649_+	cd02612, HAD_PGPPase, phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C	NA|452aa|down_3|NZ_CP011244.1_3828649_3830005_+	TIGR01942, pcnB, poly(A) polymerase	NA|164aa|down_4|NZ_CP011244.1_3830001_3830493_+	PRK14092, PRK14092, 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase	NA|319aa|down_5|NZ_CP011244.1_3830511_3831468_-	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_CP011244.1_3832878_3834981_-	TIGR00786, TRAP_transporter_permease_protein_SiaT, TRAP transporter, DctM subunit	NA|348aa|down_7|NZ_CP011244.1_3835151_3836195_+	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_CP011244.1_3836238_3836982_+	COG1802, GntR, Transcriptional regulators [Transcription]	NA|137aa|down_9|NZ_CP011244.1_3838003_3838414_-	TIGR02425, putative_gamma-carboxymuconolactone_decarboxylase, 4-carboxymuconolactone decarboxylase
