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_900187345.1_42650_A02	NZ_LT906484	Bordetella pertussis strain NCTC13667 chromosome 1	1	471355-471471	1	CRISPRCasFinder	no		DinG,cas3,csa3,DEDDh	Orphan	TTTTTTGCCTTGGGGCGGCCCGGCGGCAAAAAAA	34	0	0	NA	NA	NA	1	1	Orphan	DinG,cas3,csa3,DEDDh	NA,NA|101aa|down_9|NZ_LT906484.1_484154_484457_+	NA|957aa|up_9|NZ_LT906484.1_447798_450669_-	PRK09404, sucA, 2-oxoglutarate dehydrogenase E1 component; Reviewed	NA|163aa|up_8|NZ_LT906484.1_453079_453568_-	COG1522, Lrp, Transcriptional regulators [Transcription]	NA|899aa|up_7|NZ_LT906484.1_453693_456390_+	PRK13012, PRK13012, 2-oxoacid dehydrogenase subunit E1; Provisional	NA|761aa|up_6|NZ_LT906484.1_456544_458827_+	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed	NA|208aa|up_5|NZ_LT906484.1_459000_459624_+	pfam16970, FimA, Type-1 fimbrial protein, A	NA|317aa|up_4|NZ_LT906484.1_459722_460673_+	pfam00665, rve, Integrase core domain	NA|185aa|up_3|NZ_LT906484.1_460719_461274_-	PRK01885, greB, transcription elongation factor GreB; Reviewed	NA|282aa|up_2|NZ_LT906484.1_461341_462187_-	COG0613, COG0613, Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]	NA|323aa|up_1|NZ_LT906484.1_462256_463225_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|1309aa|up_0|NZ_LT906484.1_466920_470847_-	pfam11924, IAT_beta, Inverse autotransporter, beta-domain	NA|1077aa|down_0|NZ_LT906484.1_471582_474813_-	pfam03797, Autotransporter, Autotransporter beta-domain	NA|276aa|down_1|NZ_LT906484.1_475094_475922_-	cd01310, TatD_DNAse, TatD like proteins;  E	NA|232aa|down_2|NZ_LT906484.1_475955_476651_-	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_LT906484.1_476643_477924_-	TIGR02212, releasing_system_transmembrane_protein_lolC	NA|326aa|down_4|NZ_LT906484.1_477933_478911_+	COG4255, COG4255, Uncharacterized protein conserved in bacteria [Function unknown]	NA|567aa|down_5|NZ_LT906484.1_478892_480593_+	PRK11070, PRK11070, single-stranded-DNA-specific exonuclease RecJ	NA|368aa|down_6|NZ_LT906484.1_480695_481800_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|252aa|down_7|NZ_LT906484.1_481829_482585_+	PRK07023, PRK07023, SDR family oxidoreductase	NA|507aa|down_8|NZ_LT906484.1_482591_484112_+	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed	NA|101aa|down_9|NZ_LT906484.1_484154_484457_+	NA
GCF_900187345.1_42650_A02	NZ_LT906484	Bordetella pertussis strain NCTC13667 chromosome 1	2	1188223-1188316	2	CRISPRCasFinder	no		DinG,cas3,csa3,DEDDh	Orphan	GTGCCTGTCCCGGCGGGGACAGGCAC	26	0	0	NA	NA	NA	1	1	Orphan	DinG,cas3,csa3,DEDDh	NA,NA|132aa|down_8|NZ_LT906484.1_1195891_1196287_-	NA|391aa|up_9|NZ_LT906484.1_1177029_1178202_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|326aa|up_8|NZ_LT906484.1_1178327_1179305_+	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_LT906484.1_1179315_1180287_-	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_LT906484.1_1180353_1181139_-	PRK09245, PRK09245, crotonase/enoyl-CoA hydratase family protein	NA|411aa|up_5|NZ_LT906484.1_1181131_1182364_-	pfam02515, CoA_transf_3, CoA-transferase family III	NA|252aa|up_4|NZ_LT906484.1_1182559_1183315_-	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|173aa|up_3|NZ_LT906484.1_1183425_1183944_+	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|467aa|up_2|NZ_LT906484.1_1185732_1187133_+	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_LT906484.1_1187232_1187577_+	COG3453, COG3453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|157aa|up_0|NZ_LT906484.1_1187665_1188136_+	pfam00582, Usp, Universal stress protein family	NA|133aa|down_0|NZ_LT906484.1_1188546_1188945_+	PRK00007, PRK00007, elongation factor G; Reviewed	NA|317aa|down_1|NZ_LT906484.1_1189076_1190027_-	pfam00665, rve, Integrase core domain	NA|316aa|down_2|NZ_LT906484.1_1190125_1191073_-	cd00408, DHDPS-like, Dihydrodipicolinate synthase family	NA|297aa|down_3|NZ_LT906484.1_1191279_1192170_+	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_LT906484.1_1192166_1193315_-	pfam02515, CoA_transf_3, CoA-transferase family III	NA|324aa|down_5|NZ_LT906484.1_1193322_1194294_-	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_LT906484.1_1194331_1195492_-	cd01160, LCAD, Long chain acyl-CoA dehydrogenase	NA|131aa|down_7|NZ_LT906484.1_1195502_1195895_-	cd03441, R_hydratase_like, (R)-hydratase [(R)-specific enoyl-CoA hydratase]	NA|132aa|down_8|NZ_LT906484.1_1195891_1196287_-	NA	NA|134aa|down_9|NZ_LT906484.1_1196283_1196685_-	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
GCF_900187345.1_42650_A02	NZ_LT906484	Bordetella pertussis strain NCTC13667 chromosome 1	3	1920736-1920820	3	CRISPRCasFinder	no		DinG,cas3,csa3,DEDDh	Orphan	GGTGCCTGTCCCCGCGGGGACAG	23	0	0	NA	NA	NA	1	1	Orphan	DinG,cas3,csa3,DEDDh	NA,NA	NA|137aa|up_9|NZ_LT906484.1_1908261_1908672_+	TIGR02425, putative_gamma-carboxymuconolactone_decarboxylase, 4-carboxymuconolactone decarboxylase	NA|248aa|up_8|NZ_LT906484.1_1909693_1910437_-	COG1802, GntR, Transcriptional regulators [Transcription]	NA|348aa|up_7|NZ_LT906484.1_1910480_1911524_-	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_LT906484.1_1911694_1913797_+	TIGR00786, TRAP_transporter_permease_protein_SiaT, TRAP transporter, DctM subunit	NA|319aa|up_5|NZ_LT906484.1_1915207_1916164_+	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_LT906484.1_1916182_1916674_-	PRK14092, PRK14092, 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase	NA|452aa|up_3|NZ_LT906484.1_1916670_1918026_-	TIGR01942, pcnB, poly(A) polymerase	NA|233aa|up_2|NZ_LT906484.1_1918026_1918725_-	cd02612, HAD_PGPPase, phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C	NA|234aa|up_1|NZ_LT906484.1_1918721_1919423_-	PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated	NA|350aa|up_0|NZ_LT906484.1_1919675_1920725_+	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|314aa|down_0|NZ_LT906484.1_1920830_1921772_-	PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed	NA|630aa|down_1|NZ_LT906484.1_1921768_1923658_-	PRK00095, mutL, DNA mismatch repair endonuclease MutL	NA|213aa|down_2|NZ_LT906484.1_1923744_1924383_+	PRK10847, PRK10847, DedA family protein	NA|462aa|down_3|NZ_LT906484.1_1924525_1925911_-	PRK10319, PRK10319, N-acetylmuramoyl-L-alanine amidase AmiA	NA|179aa|down_4|NZ_LT906484.1_1925841_1926378_-	COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]	NA|464aa|down_5|NZ_LT906484.1_1926529_1927921_+	PRK00485, fumC, fumarate hydratase; Reviewed	NA|327aa|down_6|NZ_LT906484.1_1927937_1928918_-	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|328aa|down_7|NZ_LT906484.1_1929053_1930037_+	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_LT906484.1_1930101_1931001_-	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_LT906484.1_1931107_1932862_+	COG0405, Ggt, Gamma-glutamyltransferase [Amino acid transport and metabolism]
GCF_900187345.1_42650_A02	NZ_LT906484	Bordetella pertussis strain NCTC13667 chromosome 1	4	2294146-2294255	4	CRISPRCasFinder	no		DinG,cas3,csa3,DEDDh	Orphan	GGGGACAGATACCGTCTTGGCCGTCAA	27	0	0	NA	NA	NA	1	1	Orphan	DinG,cas3,csa3,DEDDh	NA,NA	NA|272aa|up_9|NZ_LT906484.1_2281074_2281890_-	COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]	NA|293aa|up_8|NZ_LT906484.1_2282002_2282881_-	PRK00030, minC, septum site-determining protein MinC	NA|588aa|up_7|NZ_LT906484.1_2282992_2284756_-	PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional	NA|447aa|up_6|NZ_LT906484.1_2284871_2286212_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|475aa|up_5|NZ_LT906484.1_2287281_2288706_-	PRK09467, envZ, osmolarity sensor protein; Provisional	NA|234aa|up_4|NZ_LT906484.1_2288705_2289407_-	PRK09468, ompR, osmolarity response regulator; Provisional	NA|317aa|up_3|NZ_LT906484.1_2290911_2291862_+	pfam00665, rve, Integrase core domain	NA|324aa|up_2|NZ_LT906484.1_2291957_2292929_+	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_LT906484.1_2292933_2293614_-	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|131aa|up_0|NZ_LT906484.1_2293751_2294144_+	COG1765, COG1765, Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]	NA|262aa|down_0|NZ_LT906484.1_2295507_2296293_-	PRK06997, PRK06997, enoyl-[acyl-carrier-protein] reductase FabI	NA|470aa|down_1|NZ_LT906484.1_2296387_2297797_-	PRK10783, mltD, membrane-bound lytic murein transglycosylase D; Provisional	NA|267aa|down_2|NZ_LT906484.1_2297807_2298608_-	TIGR03413, GSH_gloB, hydroxyacylglutathione hydrolase	NA|257aa|down_3|NZ_LT906484.1_2298628_2299399_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|156aa|down_4|NZ_LT906484.1_2299441_2299909_+	PRK00203, rnhA, ribonuclease H; Reviewed	NA|317aa|down_5|NZ_LT906484.1_2299905_2300856_-	pfam00665, rve, Integrase core domain	NA|293aa|down_6|NZ_LT906484.1_2302804_2303683_-	pfam00487, FA_desaturase, Fatty acid desaturase	NA|993aa|down_7|NZ_LT906484.1_2304609_2307588_-	pfam17936, Big_6, Bacterial Ig domain	NA|363aa|down_8|NZ_LT906484.1_2308887_2309976_-	cd08948, 5beta-POR_like_SDR_a, progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs	NA|288aa|down_9|NZ_LT906484.1_2310011_2310875_-	PLN02864, PLN02864, enoyl-CoA hydratase
GCF_900187345.1_42650_A02	NZ_LT906484	Bordetella pertussis strain NCTC13667 chromosome 1	5	3510095-3510222	5	CRISPRCasFinder	no		DinG,cas3,csa3,DEDDh	Orphan	AAAAAGCCCCCTCGGGGGGCAGCAAGCCCGCATAGCGGGCGCAGCG	46	0	0	NA	NA	NA	1	1	Orphan	DinG,cas3,csa3,DEDDh	NA,NA	NA|134aa|up_9|NZ_LT906484.1_3499057_3499459_+	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_LT906484.1_3499472_3500276_+	COG1024, CaiD, Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]	NA|144aa|up_7|NZ_LT906484.1_3500272_3500704_+	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]	NA|386aa|up_6|NZ_LT906484.1_3500700_3501858_+	PRK06158, PRK06158, thiolase; Provisional	NA|259aa|up_5|NZ_LT906484.1_3501879_3502656_+	PRK05653, fabG, 3-oxoacyl-ACP reductase FabG	NA|223aa|up_4|NZ_LT906484.1_3504868_3505537_+	TIGR02429, 3-oxoadipate_CoA-transferase_subunit_A, 3-oxoacid CoA-transferase, A subunit	NA|214aa|up_3|NZ_LT906484.1_3505529_3506171_+	TIGR02428, 3-oxoadipate_CoA-transferase_subunit_B, 3-oxoacid CoA-transferase, B subunit	NA|244aa|up_2|NZ_LT906484.1_3506205_3506937_+	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_LT906484.1_3506954_3507167_+	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_LT906484.1_3507737_3508688_+	pfam00665, rve, Integrase core domain	NA|217aa|down_0|NZ_LT906484.1_3510245_3510896_-	PRK00215, PRK00215, transcriptional repressor LexA	NA|401aa|down_1|NZ_LT906484.1_3511024_3512227_-	PRK09257, PRK09257, aromatic amino acid transaminase	NA|679aa|down_2|NZ_LT906484.1_3512304_3514341_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|164aa|down_3|NZ_LT906484.1_3514593_3515085_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|171aa|down_4|NZ_LT906484.1_3515300_3515813_+	TIGR02010, Putative_HTH-type_transcriptional_regulator, iron-sulfur cluster assembly transcription factor IscR	NA|404aa|down_5|NZ_LT906484.1_3515830_3517042_+	PRK14012, PRK14012, IscS subfamily cysteine desulfurase	NA|137aa|down_6|NZ_LT906484.1_3517079_3517490_+	PRK11325, PRK11325, scaffold protein; Provisional	NA|108aa|down_7|NZ_LT906484.1_3517491_3517815_+	TIGR02011, Protein_yfhF	NA|171aa|down_8|NZ_LT906484.1_3517817_3518330_+	PRK03578, hscB, Fe-S protein assembly co-chaperone HscB	NA|621aa|down_9|NZ_LT906484.1_3518459_3520322_+	PRK05183, hscA, chaperone protein HscA; Provisional
