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_003991095.1_ASM399109v1	CP016339	Bordetella pertussis strain C927 chromosome, complete genome	1	229293-229402	1	CRISPRCasFinder	no		csa3,DEDDh,DinG,cas3	Orphan	TTGACTGCCAAGACGGTATCTGTCCCC	27	0	0	NA	NA	NA	1	1	Orphan	csa3,DEDDh,DinG,cas3	NA,NA|78aa|down_6|CP016339.1_235014_235248_+,NA|213aa|down_8|CP016339.1_236895_237534_+	NA|225aa|up_9|CP016339.1_217601_218276_-	PRK00455, pyrE, orotate phosphoribosyltransferase; Validated	NA|263aa|up_8|CP016339.1_218413_219202_+	cd10281, Nape_like_AP-endo, Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases	NA|448aa|up_7|CP016339.1_219624_220968_+	PRK09414, PRK09414, NADP-specific glutamate dehydrogenase	NA|213aa|up_6|CP016339.1_221004_221643_-	COG2860, COG2860, Predicted membrane protein [Function unknown]	NA|317aa|up_5|CP016339.1_222691_223642_+	pfam00665, rve, Integrase core domain	NA|156aa|up_4|CP016339.1_223638_224106_-	PRK00203, rnhA, ribonuclease H; Reviewed	NA|257aa|up_3|CP016339.1_224148_224919_-	pfam08241, Methyltransf_11, Methyltransferase domain	NA|267aa|up_2|CP016339.1_224939_225740_+	TIGR03413, GSH_gloB, hydroxyacylglutathione hydrolase	NA|470aa|up_1|CP016339.1_225750_227160_+	PRK10783, mltD, membrane-bound lytic murein transglycosylase D; Provisional	NA|262aa|up_0|CP016339.1_227254_228040_+	PRK06997, PRK06997, enoyl-[acyl-carrier-protein] reductase FabI	NA|131aa|down_0|CP016339.1_229403_229796_-	COG1765, COG1765, Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]	NA|227aa|down_1|CP016339.1_229933_230614_+	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|324aa|down_2|CP016339.1_230618_231590_-	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|317aa|down_3|CP016339.1_231685_232636_-	pfam00665, rve, Integrase core domain	NA|302aa|down_4|CP016339.1_232734_233640_-	PRK06106, PRK06106, carboxylating nicotinate-nucleotide diphosphorylase	NA|323aa|down_5|CP016339.1_233741_234710_-	COG4111, COG4111, Uncharacterized conserved protein [General function prediction only]	NA|78aa|down_6|CP016339.1_235014_235248_+	NA	NA|454aa|down_7|CP016339.1_235475_236837_+	cd03479, Rieske_RO_Alpha_PhDO_like, Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3,4-dioxygenase (CBDO), phenoxybenzoate dioxygenase (POB-dioxygenase) and 3-nitrobenzoate oxygenase (MnbA)	NA|213aa|down_8|CP016339.1_236895_237534_+	NA	NA|291aa|down_9|CP016339.1_237530_238403_+	cd06582, TM_PBP1_LivH_like, Transmembrane subunit (TM) of Escherichia coli LivH and related proteins
GCA_003991095.1_ASM399109v1	CP016339	Bordetella pertussis strain C927 chromosome, complete genome	2	1433387-1433481	2	CRISPRCasFinder	no		csa3,DEDDh,DinG,cas3	Orphan	TAAAAGGGCACCCGCAAGGGTGTCCTTTT	29	0	0	NA	NA	NA	1	1	Orphan	csa3,DEDDh,DinG,cas3	NA|127aa|up_2|CP016339.1_1431371_1431752_+,NA	NA|345aa|up_9|CP016339.1_1422814_1423849_+	COG1613, Sbp, ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]	NA|68aa|up_8|CP016339.1_1423864_1424068_+	TIGR02139, permease_CysT, sulfate ABC transporter, permease protein CysT	NA|225aa|up_7|CP016339.1_1424089_1424764_+	TIGR02139, permease_CysT, sulfate ABC transporter, permease protein CysT	NA|261aa|up_6|CP016339.1_1424878_1425661_+	COG4208, CysW, ABC-type sulfate transport system, permease component [Inorganic ion transport and metabolism]	NA|355aa|up_5|CP016339.1_1425685_1426750_+	cd03296, ABC_CysA_sulfate_importer, ATP-binding cassette domain of the sulfate transporter	NA|303aa|up_4|CP016339.1_1427547_1428456_+	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|425aa|up_3|CP016339.1_1429943_1431218_+	TIGR04470, hypothetical_protein_ALIPUT_00462, radical SAM mobile pair protein B	NA|127aa|up_2|CP016339.1_1431371_1431752_+	NA	NA|291aa|up_1|CP016339.1_1431759_1432632_-	TIGR03340, phn_DUF6, phosphonate utilization associated putative membrane protein	NA|127aa|up_0|CP016339.1_1432939_1433320_+	PRK05338, rplS, 50S ribosomal protein L19; Provisional	NA|229aa|down_0|CP016339.1_1433569_1434256_+	cd03426, CoAse, Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes	NA|317aa|down_1|CP016339.1_1434351_1435302_-	pfam00665, rve, Integrase core domain	NA|350aa|down_2|CP016339.1_1435406_1436456_+	cd19094, AKR_Tas-like, Escherichia coli Tas protein and similar proteins	NA|339aa|down_3|CP016339.1_1436552_1437569_-	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family	NA|191aa|down_4|CP016339.1_1439077_1439650_-	COG3161, UbiC, 4-hydroxybenzoate synthetase (chorismate lyase) [Coenzyme metabolism]	NA|244aa|down_5|CP016339.1_1439709_1440441_+	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|306aa|down_6|CP016339.1_1440492_1441410_-	cd08422, PBP2_CrgA_like, The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain	NA|461aa|down_7|CP016339.1_1445394_1446777_+	TIGR01845, Outer_membrane_protein_OprM, efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family	NA|84aa|down_8|CP016339.1_1446846_1447098_-	COG2261, COG2261, Predicted membrane protein [Function unknown]	NA|205aa|down_9|CP016339.1_1447245_1447860_-	cd02968, SCO, SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold
GCA_003991095.1_ASM399109v1	CP016339	Bordetella pertussis strain C927 chromosome, complete genome	3	1817089-1817216	3	CRISPRCasFinder	no		csa3,DEDDh,DinG,cas3	Orphan	AAAAAGCCCCCTCGGGGGGCAGCAAGCCCGCATAGCGGGCGCAGCG	46	0	0	NA	NA	NA	1	1	Orphan	csa3,DEDDh,DinG,cas3	NA|120aa|up_1|CP016339.1_1814629_1814989_-,NA	NA|144aa|up_9|CP016339.1_1806223_1806655_+	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]	NA|386aa|up_8|CP016339.1_1806651_1807809_+	PRK06158, PRK06158, thiolase; Provisional	NA|259aa|up_7|CP016339.1_1807830_1808607_+	PRK05653, fabG, 3-oxoacyl-ACP reductase FabG	NA|223aa|up_6|CP016339.1_1810819_1811488_+	TIGR02429, 3-oxoadipate_CoA-transferase_subunit_A, 3-oxoacid CoA-transferase, A subunit	NA|214aa|up_5|CP016339.1_1811480_1812122_+	TIGR02428, 3-oxoadipate_CoA-transferase_subunit_B, 3-oxoacid CoA-transferase, B subunit	NA|244aa|up_4|CP016339.1_1812156_1812888_+	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|71aa|up_3|CP016339.1_1812905_1813118_+	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|301aa|up_2|CP016339.1_1813730_1814633_+	pfam00665, rve, Integrase core domain	NA|120aa|up_1|CP016339.1_1814629_1814989_-	NA	NA|301aa|up_0|CP016339.1_1815621_1816524_-	pfam00665, rve, Integrase core domain	NA|217aa|down_0|CP016339.1_1817239_1817890_-	PRK00215, PRK00215, transcriptional repressor LexA	NA|401aa|down_1|CP016339.1_1818018_1819221_-	PRK09257, PRK09257, aromatic amino acid transaminase	NA|679aa|down_2|CP016339.1_1819298_1821335_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|164aa|down_3|CP016339.1_1821587_1822079_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|171aa|down_4|CP016339.1_1822294_1822807_+	TIGR02010, Putative_HTH-type_transcriptional_regulator, iron-sulfur cluster assembly transcription factor IscR	NA|404aa|down_5|CP016339.1_1822824_1824036_+	PRK14012, PRK14012, IscS subfamily cysteine desulfurase	NA|137aa|down_6|CP016339.1_1824069_1824480_+	PRK11325, PRK11325, scaffold protein; Provisional	NA|108aa|down_7|CP016339.1_1824481_1824805_+	TIGR02011, Protein_yfhF	NA|171aa|down_8|CP016339.1_1824807_1825320_+	PRK03578, hscB, Fe-S protein assembly co-chaperone HscB	NA|621aa|down_9|CP016339.1_1825449_1827312_+	PRK05183, hscA, chaperone protein HscA; Provisional
GCA_003991095.1_ASM399109v1	CP016339	Bordetella pertussis strain C927 chromosome, complete genome	4	3772757-3772850	4	CRISPRCasFinder	no	DEDDh	csa3,DEDDh,DinG,cas3	Unclear	GTGCCTGTCCCCGCCGGGACAGGCAC	26	0	0	NA	NA	NA	1	1	Orphan	csa3,DEDDh,DinG,cas3	NA,NA	NA|317aa|up_9|CP016339.1_3758482_3759433_-	pfam00665, rve, Integrase core domain	NA|353aa|up_8|CP016339.1_3761145_3762204_-	cd04187, DPM1_like_bac, Bacterial DPM1_like enzymes are related to eukaryotic DPM1	NA|172aa|up_7|CP016339.1_3762333_3762849_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|402aa|up_6|CP016339.1_3763044_3764250_+	TIGR00210, Sodium/glutamate_symport_carrier_protein, sodium--glutamate symport carrier (gltS)	NA|504aa|up_5|CP016339.1_3764246_3765758_+	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|438aa|up_4|CP016339.1_3765773_3767087_-	COG2031, AtoE, Short chain fatty acids transporter [Lipid metabolism]	NA|60aa|up_3|CP016339.1_3767277_3767457_-	pfam04391, DUF533, Protein of unknown function (DUF533)	DEDDh|245aa|up_2|CP016339.1_3767866_3768601_-	PRK05711, PRK05711, DNA polymerase III subunit epsilon; Provisional	NA|301aa|up_1|CP016339.1_3771093_3771996_+	pfam00665, rve, Integrase core domain	NA|133aa|up_0|CP016339.1_3772127_3772526_-	PRK00007, PRK00007, elongation factor G; Reviewed	NA|157aa|down_0|CP016339.1_3772936_3773407_-	pfam00582, Usp, Universal stress protein family	NA|115aa|down_1|CP016339.1_3773495_3773840_-	COG3453, COG3453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|467aa|down_2|CP016339.1_3773939_3775340_-	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|173aa|down_3|CP016339.1_3777128_3777647_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|252aa|down_4|CP016339.1_3777757_3778513_+	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|411aa|down_5|CP016339.1_3778708_3779941_+	pfam02515, CoA_transf_3, CoA-transferase family III	NA|262aa|down_6|CP016339.1_3779933_3780719_+	PRK09245, PRK09245, crotonase/enoyl-CoA hydratase family protein	NA|324aa|down_7|CP016339.1_3780785_3781757_+	cd07012, PBP2_Bug_TTT, Bug (Bordetella uptake gene) protein family of periplasmic solute-binding receptors; contains the type 2 periplasmic binding fold	NA|326aa|down_8|CP016339.1_3781767_3782745_-	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|391aa|down_9|CP016339.1_3782870_3784043_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26
