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_001686525.1_ASM168652v1	NZ_CP015766	Bordetella pertussis strain VA-15, complete genome	1	1374144-1374260	1	CRISPRCasFinder	no		csa3,DEDDh,cas3,DinG	Orphan	TTTTTTGCCTTGGGGCGGCCCGGCGGCAAAAAAA	34	0	0	NA	NA	NA	1	1	Orphan	csa3,DEDDh,cas3,DinG	NA|59aa|up_0|NZ_CP015766.1_1373926_1374103_-,NA|101aa|down_9|NZ_CP015766.1_1386942_1387245_+	NA|899aa|up_9|NZ_CP015766.1_1356482_1359179_+	PRK13012, PRK13012, 2-oxoacid dehydrogenase subunit E1; Provisional	NA|761aa|up_8|NZ_CP015766.1_1359333_1361616_+	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed	NA|211aa|up_7|NZ_CP015766.1_1361780_1362413_+	pfam16970, FimA, Type-1 fimbrial protein, A	NA|317aa|up_6|NZ_CP015766.1_1362511_1363462_+	pfam00665, rve, Integrase core domain	NA|185aa|up_5|NZ_CP015766.1_1363508_1364063_-	PRK01885, greB, transcription elongation factor GreB; Reviewed	NA|282aa|up_4|NZ_CP015766.1_1364130_1364976_-	COG0613, COG0613, Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]	NA|323aa|up_3|NZ_CP015766.1_1365045_1366014_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|599aa|up_2|NZ_CP015766.1_1366013_1367810_-	COG2333, ComEC, Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]	NA|1309aa|up_1|NZ_CP015766.1_1369709_1373636_-	pfam11924, IAT_beta, Inverse autotransporter, beta-domain	NA|59aa|up_0|NZ_CP015766.1_1373926_1374103_-	NA	NA|1077aa|down_0|NZ_CP015766.1_1374371_1377602_-	pfam03797, Autotransporter, Autotransporter beta-domain	NA|276aa|down_1|NZ_CP015766.1_1377882_1378710_-	cd01310, TatD_DNAse, TatD like proteins;  E	NA|232aa|down_2|NZ_CP015766.1_1378743_1379439_-	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_CP015766.1_1379431_1380712_-	TIGR02212, releasing_system_transmembrane_protein_lolC	NA|326aa|down_4|NZ_CP015766.1_1380721_1381699_+	COG4255, COG4255, Uncharacterized protein conserved in bacteria [Function unknown]	NA|567aa|down_5|NZ_CP015766.1_1381680_1383381_+	PRK11070, PRK11070, single-stranded-DNA-specific exonuclease RecJ	NA|368aa|down_6|NZ_CP015766.1_1383483_1384588_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|252aa|down_7|NZ_CP015766.1_1384617_1385373_+	PRK07023, PRK07023, SDR family oxidoreductase	NA|507aa|down_8|NZ_CP015766.1_1385379_1386900_+	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed	NA|101aa|down_9|NZ_CP015766.1_1386942_1387245_+	NA
GCF_001686525.1_ASM168652v1	NZ_CP015766	Bordetella pertussis strain VA-15, complete genome	2	2087857-2087950	2	CRISPRCasFinder	no		csa3,DEDDh,cas3,DinG	Orphan	GTGCCTGTCCCGGCGGGGACAGGCAC	26	0	0	NA	NA	NA	1	1	Orphan	csa3,DEDDh,cas3,DinG	NA,NA|132aa|down_8|NZ_CP015766.1_2095525_2095921_-	NA|391aa|up_9|NZ_CP015766.1_2076663_2077836_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|326aa|up_8|NZ_CP015766.1_2077961_2078939_+	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_CP015766.1_2078949_2079921_-	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_CP015766.1_2079987_2080773_-	PRK09245, PRK09245, crotonase/enoyl-CoA hydratase family protein	NA|411aa|up_5|NZ_CP015766.1_2080765_2081998_-	pfam02515, CoA_transf_3, CoA-transferase family III	NA|252aa|up_4|NZ_CP015766.1_2082193_2082949_-	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|173aa|up_3|NZ_CP015766.1_2083059_2083578_+	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|467aa|up_2|NZ_CP015766.1_2085366_2086767_+	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_CP015766.1_2086866_2087211_+	COG3453, COG3453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|157aa|up_0|NZ_CP015766.1_2087299_2087770_+	pfam00582, Usp, Universal stress protein family	NA|133aa|down_0|NZ_CP015766.1_2088180_2088579_+	PRK00007, PRK00007, elongation factor G; Reviewed	NA|317aa|down_1|NZ_CP015766.1_2088710_2089661_-	pfam00665, rve, Integrase core domain	NA|316aa|down_2|NZ_CP015766.1_2089759_2090707_-	cd00408, DHDPS-like, Dihydrodipicolinate synthase family	NA|297aa|down_3|NZ_CP015766.1_2090913_2091804_+	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_CP015766.1_2091800_2092949_-	pfam02515, CoA_transf_3, CoA-transferase family III	NA|324aa|down_5|NZ_CP015766.1_2092956_2093928_-	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_CP015766.1_2093965_2095126_-	cd01160, LCAD, Long chain acyl-CoA dehydrogenase	NA|131aa|down_7|NZ_CP015766.1_2095136_2095529_-	cd03441, R_hydratase_like, (R)-hydratase [(R)-specific enoyl-CoA hydratase]	NA|132aa|down_8|NZ_CP015766.1_2095525_2095921_-	NA	NA|134aa|down_9|NZ_CP015766.1_2095917_2096319_-	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
GCF_001686525.1_ASM168652v1	NZ_CP015766	Bordetella pertussis strain VA-15, complete genome	3	2821407-2821491	3	CRISPRCasFinder	no		csa3,DEDDh,cas3,DinG	Orphan	GGTGCCTGTCCCCGCGGGGACAG	23	0	0	NA	NA	NA	1	1	Orphan	csa3,DEDDh,cas3,DinG	NA,NA	NA|137aa|up_9|NZ_CP015766.1_2808932_2809343_+	TIGR02425, putative_gamma-carboxymuconolactone_decarboxylase, 4-carboxymuconolactone decarboxylase	NA|248aa|up_8|NZ_CP015766.1_2810364_2811108_-	COG1802, GntR, Transcriptional regulators [Transcription]	NA|348aa|up_7|NZ_CP015766.1_2811151_2812195_-	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_CP015766.1_2812365_2814468_+	TIGR00786, TRAP_transporter_permease_protein_SiaT, TRAP transporter, DctM subunit	NA|319aa|up_5|NZ_CP015766.1_2815878_2816835_+	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_CP015766.1_2816853_2817345_-	PRK14092, PRK14092, 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase	NA|452aa|up_3|NZ_CP015766.1_2817341_2818697_-	TIGR01942, pcnB, poly(A) polymerase	NA|233aa|up_2|NZ_CP015766.1_2818697_2819396_-	cd02612, HAD_PGPPase, phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C	NA|234aa|up_1|NZ_CP015766.1_2819392_2820094_-	PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated	NA|350aa|up_0|NZ_CP015766.1_2820346_2821396_+	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|314aa|down_0|NZ_CP015766.1_2821501_2822443_-	PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed	NA|630aa|down_1|NZ_CP015766.1_2822439_2824329_-	PRK00095, mutL, DNA mismatch repair endonuclease MutL	NA|213aa|down_2|NZ_CP015766.1_2824415_2825054_+	PRK10847, PRK10847, DedA family protein	NA|462aa|down_3|NZ_CP015766.1_2825196_2826582_-	PRK10319, PRK10319, N-acetylmuramoyl-L-alanine amidase AmiA	NA|179aa|down_4|NZ_CP015766.1_2826512_2827049_-	COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]	NA|464aa|down_5|NZ_CP015766.1_2827200_2828592_+	PRK00485, fumC, fumarate hydratase; Reviewed	NA|327aa|down_6|NZ_CP015766.1_2828608_2829589_-	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|328aa|down_7|NZ_CP015766.1_2829724_2830708_+	cd13577, PBP2_BugE_Glu, Glutamate transporter of Bug (Bordetella uptake gene) protein family; contains the type 2 periplasmic binding fold	NA|375aa|down_8|NZ_CP015766.1_2833537_2834662_-	pfam02515, CoA_transf_3, CoA-transferase family III	NA|327aa|down_9|NZ_CP015766.1_2834675_2835656_-	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold
GCF_001686525.1_ASM168652v1	NZ_CP015766	Bordetella pertussis strain VA-15, complete genome	4	3194809-3194918	4	CRISPRCasFinder	no		csa3,DEDDh,cas3,DinG	Orphan	GGGGACAGATACCGTCTTGGCCGTCAA	27	0	0	NA	NA	NA	1	1	Orphan	csa3,DEDDh,cas3,DinG	NA,NA|138aa|down_8|NZ_CP015766.1_3208204_3208618_+	NA|272aa|up_9|NZ_CP015766.1_3181737_3182553_-	COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]	NA|293aa|up_8|NZ_CP015766.1_3182665_3183544_-	PRK00030, minC, septum site-determining protein MinC	NA|588aa|up_7|NZ_CP015766.1_3183655_3185419_-	PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional	NA|447aa|up_6|NZ_CP015766.1_3185534_3186875_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|475aa|up_5|NZ_CP015766.1_3187944_3189369_-	PRK09467, envZ, osmolarity sensor protein; Provisional	NA|234aa|up_4|NZ_CP015766.1_3189368_3190070_-	PRK09468, ompR, osmolarity response regulator; Provisional	NA|317aa|up_3|NZ_CP015766.1_3191574_3192525_+	pfam00665, rve, Integrase core domain	NA|333aa|up_2|NZ_CP015766.1_3192593_3193592_+	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_CP015766.1_3193596_3194277_-	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|131aa|up_0|NZ_CP015766.1_3194414_3194807_+	COG1765, COG1765, Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]	NA|262aa|down_0|NZ_CP015766.1_3196170_3196956_-	PRK06997, PRK06997, enoyl-[acyl-carrier-protein] reductase FabI	NA|470aa|down_1|NZ_CP015766.1_3197050_3198460_-	PRK10783, mltD, membrane-bound lytic murein transglycosylase D; Provisional	NA|267aa|down_2|NZ_CP015766.1_3198470_3199271_-	TIGR03413, GSH_gloB, hydroxyacylglutathione hydrolase	NA|257aa|down_3|NZ_CP015766.1_3199291_3200062_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|156aa|down_4|NZ_CP015766.1_3200104_3200572_+	PRK00203, rnhA, ribonuclease H; Reviewed	NA|317aa|down_5|NZ_CP015766.1_3200568_3201519_-	pfam00665, rve, Integrase core domain	NA|293aa|down_6|NZ_CP015766.1_3203467_3204346_-	pfam00487, FA_desaturase, Fatty acid desaturase	NA|993aa|down_7|NZ_CP015766.1_3205272_3208251_-	pfam17936, Big_6, Bacterial Ig domain	NA|138aa|down_8|NZ_CP015766.1_3208204_3208618_+	NA	NA|317aa|down_9|NZ_CP015766.1_3208604_3209555_+	pfam00665, rve, Integrase core domain
