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_900186845.1_46338_E02	NZ_LT906471	Bordetella pertussis strain NCTC13666 chromosome 1	1	583377-583461	1	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG	Orphan	GGTGCCTGTCCCCGCGGGGACAG	23	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA,NA	NA|137aa|up_9|NZ_LT906471.1_570902_571313_+	TIGR02425, putative_gamma-carboxymuconolactone_decarboxylase, 4-carboxymuconolactone decarboxylase	NA|248aa|up_8|NZ_LT906471.1_572334_573078_-	COG1802, GntR, Transcriptional regulators [Transcription]	NA|348aa|up_7|NZ_LT906471.1_573121_574165_-	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_LT906471.1_574335_576438_+	TIGR00786, TRAP_transporter_permease_protein_SiaT, TRAP transporter, DctM subunit	NA|319aa|up_5|NZ_LT906471.1_577848_578805_+	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_LT906471.1_578823_579315_-	PRK14092, PRK14092, 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase	NA|452aa|up_3|NZ_LT906471.1_579311_580667_-	TIGR01942, pcnB, poly(A) polymerase	NA|233aa|up_2|NZ_LT906471.1_580667_581366_-	cd02612, HAD_PGPPase, phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C	NA|234aa|up_1|NZ_LT906471.1_581362_582064_-	PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated	NA|350aa|up_0|NZ_LT906471.1_582316_583366_+	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|314aa|down_0|NZ_LT906471.1_583471_584413_-	PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed	NA|630aa|down_1|NZ_LT906471.1_584409_586299_-	PRK00095, mutL, DNA mismatch repair endonuclease MutL	NA|213aa|down_2|NZ_LT906471.1_586385_587024_+	PRK10847, PRK10847, DedA family protein	NA|462aa|down_3|NZ_LT906471.1_587166_588552_-	PRK10319, PRK10319, N-acetylmuramoyl-L-alanine amidase AmiA	NA|179aa|down_4|NZ_LT906471.1_588482_589019_-	COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]	NA|464aa|down_5|NZ_LT906471.1_589170_590562_+	PRK00485, fumC, fumarate hydratase; Reviewed	NA|327aa|down_6|NZ_LT906471.1_590578_591559_-	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|328aa|down_7|NZ_LT906471.1_591694_592678_+	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_LT906471.1_592742_593642_-	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_LT906471.1_593748_595503_+	COG0405, Ggt, Gamma-glutamyltransferase [Amino acid transport and metabolism]
GCF_900186845.1_46338_E02	NZ_LT906471	Bordetella pertussis strain NCTC13666 chromosome 1	2	956787-956896	2	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG	Orphan	GGGGACAGATACCGTCTTGGCCGTCAA	27	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA,NA	NA|272aa|up_9|NZ_LT906471.1_943715_944531_-	COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]	NA|293aa|up_8|NZ_LT906471.1_944643_945522_-	PRK00030, minC, septum site-determining protein MinC	NA|588aa|up_7|NZ_LT906471.1_945633_947397_-	PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional	NA|447aa|up_6|NZ_LT906471.1_947512_948853_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|475aa|up_5|NZ_LT906471.1_949922_951347_-	PRK09467, envZ, osmolarity sensor protein; Provisional	NA|234aa|up_4|NZ_LT906471.1_951346_952048_-	PRK09468, ompR, osmolarity response regulator; Provisional	NA|317aa|up_3|NZ_LT906471.1_953552_954503_+	pfam00665, rve, Integrase core domain	NA|324aa|up_2|NZ_LT906471.1_954598_955570_+	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_LT906471.1_955574_956255_-	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|131aa|up_0|NZ_LT906471.1_956392_956785_+	COG1765, COG1765, Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]	NA|262aa|down_0|NZ_LT906471.1_958148_958934_-	PRK06997, PRK06997, enoyl-[acyl-carrier-protein] reductase FabI	NA|470aa|down_1|NZ_LT906471.1_959028_960438_-	PRK10783, mltD, membrane-bound lytic murein transglycosylase D; Provisional	NA|267aa|down_2|NZ_LT906471.1_960448_961249_-	TIGR03413, GSH_gloB, hydroxyacylglutathione hydrolase	NA|257aa|down_3|NZ_LT906471.1_961269_962040_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|156aa|down_4|NZ_LT906471.1_962082_962550_+	PRK00203, rnhA, ribonuclease H; Reviewed	NA|317aa|down_5|NZ_LT906471.1_962546_963497_-	pfam00665, rve, Integrase core domain	NA|293aa|down_6|NZ_LT906471.1_965445_966324_-	pfam00487, FA_desaturase, Fatty acid desaturase	NA|993aa|down_7|NZ_LT906471.1_967250_970229_-	pfam17936, Big_6, Bacterial Ig domain	NA|317aa|down_8|NZ_LT906471.1_970582_971533_+	pfam00665, rve, Integrase core domain	NA|363aa|down_9|NZ_LT906471.1_971529_972618_-	cd08948, 5beta-POR_like_SDR_a, progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs
GCF_900186845.1_46338_E02	NZ_LT906471	Bordetella pertussis strain NCTC13666 chromosome 1	3	2172742-2172869	3	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG	Orphan	AAAAAGCCCCCTCGGGGGGCAGCAAGCCCGCATAGCGGGCGCAGCG	46	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA,NA	NA|134aa|up_9|NZ_LT906471.1_2161704_2162106_+	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_LT906471.1_2162119_2162923_+	COG1024, CaiD, Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]	NA|144aa|up_7|NZ_LT906471.1_2162919_2163351_+	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]	NA|386aa|up_6|NZ_LT906471.1_2163347_2164505_+	PRK06158, PRK06158, thiolase; Provisional	NA|259aa|up_5|NZ_LT906471.1_2164526_2165303_+	PRK05653, fabG, 3-oxoacyl-ACP reductase FabG	NA|223aa|up_4|NZ_LT906471.1_2167515_2168184_+	TIGR02429, 3-oxoadipate_CoA-transferase_subunit_A, 3-oxoacid CoA-transferase, A subunit	NA|214aa|up_3|NZ_LT906471.1_2168176_2168818_+	TIGR02428, 3-oxoadipate_CoA-transferase_subunit_B, 3-oxoacid CoA-transferase, B subunit	NA|244aa|up_2|NZ_LT906471.1_2168852_2169584_+	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_LT906471.1_2169601_2169814_+	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_LT906471.1_2170384_2171335_+	pfam00665, rve, Integrase core domain	NA|217aa|down_0|NZ_LT906471.1_2172892_2173543_-	PRK00215, PRK00215, transcriptional repressor LexA	NA|401aa|down_1|NZ_LT906471.1_2173671_2174874_-	PRK09257, PRK09257, aromatic amino acid transaminase	NA|679aa|down_2|NZ_LT906471.1_2174951_2176988_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|164aa|down_3|NZ_LT906471.1_2177240_2177732_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|171aa|down_4|NZ_LT906471.1_2177947_2178460_+	TIGR02010, Putative_HTH-type_transcriptional_regulator, iron-sulfur cluster assembly transcription factor IscR	NA|404aa|down_5|NZ_LT906471.1_2178477_2179689_+	PRK14012, PRK14012, IscS subfamily cysteine desulfurase	NA|137aa|down_6|NZ_LT906471.1_2179726_2180137_+	PRK11325, PRK11325, scaffold protein; Provisional	NA|108aa|down_7|NZ_LT906471.1_2180138_2180462_+	TIGR02011, Protein_yfhF	NA|171aa|down_8|NZ_LT906471.1_2180464_2180977_+	PRK03578, hscB, Fe-S protein assembly co-chaperone HscB	NA|621aa|down_9|NZ_LT906471.1_2181106_2182969_+	PRK05183, hscA, chaperone protein HscA; Provisional
GCF_900186845.1_46338_E02	NZ_LT906471	Bordetella pertussis strain NCTC13666 chromosome 1	4	3242496-3242612	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_LT906471.1_3255295_3255598_+	NA|957aa|up_9|NZ_LT906471.1_3218939_3221810_-	PRK09404, sucA, 2-oxoglutarate dehydrogenase E1 component; Reviewed	NA|163aa|up_8|NZ_LT906471.1_3224220_3224709_-	COG1522, Lrp, Transcriptional regulators [Transcription]	NA|899aa|up_7|NZ_LT906471.1_3224834_3227531_+	PRK13012, PRK13012, 2-oxoacid dehydrogenase subunit E1; Provisional	NA|761aa|up_6|NZ_LT906471.1_3227685_3229968_+	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed	NA|208aa|up_5|NZ_LT906471.1_3230141_3230765_+	pfam16970, FimA, Type-1 fimbrial protein, A	NA|317aa|up_4|NZ_LT906471.1_3230863_3231814_+	pfam00665, rve, Integrase core domain	NA|185aa|up_3|NZ_LT906471.1_3231860_3232415_-	PRK01885, greB, transcription elongation factor GreB; Reviewed	NA|282aa|up_2|NZ_LT906471.1_3232482_3233328_-	COG0613, COG0613, Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]	NA|323aa|up_1|NZ_LT906471.1_3233397_3234366_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|1309aa|up_0|NZ_LT906471.1_3238061_3241988_-	pfam11924, IAT_beta, Inverse autotransporter, beta-domain	NA|1077aa|down_0|NZ_LT906471.1_3242723_3245954_-	pfam03797, Autotransporter, Autotransporter beta-domain	NA|276aa|down_1|NZ_LT906471.1_3246235_3247063_-	cd01310, TatD_DNAse, TatD like proteins;  E	NA|232aa|down_2|NZ_LT906471.1_3247096_3247792_-	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_LT906471.1_3247784_3249065_-	TIGR02212, releasing_system_transmembrane_protein_lolC	NA|326aa|down_4|NZ_LT906471.1_3249074_3250052_+	COG4255, COG4255, Uncharacterized protein conserved in bacteria [Function unknown]	NA|567aa|down_5|NZ_LT906471.1_3250033_3251734_+	PRK11070, PRK11070, single-stranded-DNA-specific exonuclease RecJ	NA|368aa|down_6|NZ_LT906471.1_3251836_3252941_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|252aa|down_7|NZ_LT906471.1_3252970_3253726_+	PRK07023, PRK07023, SDR family oxidoreductase	NA|507aa|down_8|NZ_LT906471.1_3253732_3255253_+	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed	NA|101aa|down_9|NZ_LT906471.1_3255295_3255598_+	NA
GCF_900186845.1_46338_E02	NZ_LT906471	Bordetella pertussis strain NCTC13666 chromosome 1	5	3959365-3959458	5	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG	Orphan	GTGCCTGTCCCGGCGGGGACAGGCAC	26	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA,NA|132aa|down_8|NZ_LT906471.1_3967033_3967429_-	NA|391aa|up_9|NZ_LT906471.1_3948171_3949344_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|326aa|up_8|NZ_LT906471.1_3949469_3950447_+	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_LT906471.1_3950457_3951429_-	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_LT906471.1_3951495_3952281_-	PRK09245, PRK09245, crotonase/enoyl-CoA hydratase family protein	NA|411aa|up_5|NZ_LT906471.1_3952273_3953506_-	pfam02515, CoA_transf_3, CoA-transferase family III	NA|252aa|up_4|NZ_LT906471.1_3953701_3954457_-	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|173aa|up_3|NZ_LT906471.1_3954567_3955086_+	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|467aa|up_2|NZ_LT906471.1_3956874_3958275_+	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_LT906471.1_3958374_3958719_+	COG3453, COG3453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|157aa|up_0|NZ_LT906471.1_3958807_3959278_+	pfam00582, Usp, Universal stress protein family	NA|133aa|down_0|NZ_LT906471.1_3959688_3960087_+	PRK00007, PRK00007, elongation factor G; Reviewed	NA|317aa|down_1|NZ_LT906471.1_3960218_3961169_-	pfam00665, rve, Integrase core domain	NA|316aa|down_2|NZ_LT906471.1_3961267_3962215_-	cd00408, DHDPS-like, Dihydrodipicolinate synthase family	NA|297aa|down_3|NZ_LT906471.1_3962421_3963312_+	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_LT906471.1_3963308_3964457_-	pfam02515, CoA_transf_3, CoA-transferase family III	NA|324aa|down_5|NZ_LT906471.1_3964464_3965436_-	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_LT906471.1_3965473_3966634_-	cd01160, LCAD, Long chain acyl-CoA dehydrogenase	NA|131aa|down_7|NZ_LT906471.1_3966644_3967037_-	cd03441, R_hydratase_like, (R)-hydratase [(R)-specific enoyl-CoA hydratase]	NA|132aa|down_8|NZ_LT906471.1_3967033_3967429_-	NA	NA|134aa|down_9|NZ_LT906471.1_3967425_3967827_-	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
