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_004009435.1_ASM400943v1	CP025376	Bordetella pertussis strain I462 chromosome, complete genome	1	644871-644980	1	CRISPRCasFinder	no		DEDDh,cas3,csa3,DinG	Orphan	GGGGACAGATACCGTCTTGGCCGTCAA	27	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,csa3,DinG	NA,NA|123aa|down_8|CP025376.1_658311_658680_+	NA|272aa|up_9|CP025376.1_631799_632615_-	COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]	NA|293aa|up_8|CP025376.1_632727_633606_-	PRK00030, minC, septum site-determining protein MinC	NA|588aa|up_7|CP025376.1_633717_635481_-	PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional	NA|447aa|up_6|CP025376.1_635596_636937_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|475aa|up_5|CP025376.1_638006_639431_-	PRK09467, envZ, osmolarity sensor protein; Provisional	NA|234aa|up_4|CP025376.1_639430_640132_-	PRK09468, ompR, osmolarity response regulator; Provisional	NA|317aa|up_3|CP025376.1_641636_642587_+	pfam00665, rve, Integrase core domain	NA|333aa|up_2|CP025376.1_642655_643654_+	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|227aa|up_1|CP025376.1_643658_644339_-	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|131aa|up_0|CP025376.1_644476_644869_+	COG1765, COG1765, Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]	NA|262aa|down_0|CP025376.1_646232_647018_-	PRK06997, PRK06997, enoyl-[acyl-carrier-protein] reductase FabI	NA|470aa|down_1|CP025376.1_647112_648522_-	PRK10783, mltD, membrane-bound lytic murein transglycosylase D; Provisional	NA|267aa|down_2|CP025376.1_648532_649333_-	TIGR03413, GSH_gloB, hydroxyacylglutathione hydrolase	NA|257aa|down_3|CP025376.1_649353_650124_+	pfam08241, Methyltransf_11, Methyltransferase domain	NA|156aa|down_4|CP025376.1_650166_650634_+	PRK00203, rnhA, ribonuclease H; Reviewed	NA|317aa|down_5|CP025376.1_650630_651581_-	pfam00665, rve, Integrase core domain	NA|293aa|down_6|CP025376.1_653529_654408_-	pfam00487, FA_desaturase, Fatty acid desaturase	NA|993aa|down_7|CP025376.1_655334_658313_-	pfam17936, Big_6, Bacterial Ig domain	NA|123aa|down_8|CP025376.1_658311_658680_+	NA	NA|317aa|down_9|CP025376.1_658666_659617_+	pfam00665, rve, Integrase core domain
GCA_004009435.1_ASM400943v1	CP025376	Bordetella pertussis strain I462 chromosome, complete genome	2	2930565-2930681	2	CRISPRCasFinder	no		DEDDh,cas3,csa3,DinG	Orphan	TTTTTTGCCTTGGGGCGGCCCGGCGGCAAAAAAA	34	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,csa3,DinG	NA|59aa|up_0|CP025376.1_2930347_2930524_-,NA|101aa|down_9|CP025376.1_2943364_2943667_+	NA|899aa|up_9|CP025376.1_2912903_2915600_+	PRK13012, PRK13012, 2-oxoacid dehydrogenase subunit E1; Provisional	NA|761aa|up_8|CP025376.1_2915754_2918037_+	PRK07232, PRK07232, bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed	NA|211aa|up_7|CP025376.1_2918201_2918834_+	pfam16970, FimA, Type-1 fimbrial protein, A	NA|317aa|up_6|CP025376.1_2918932_2919883_+	pfam00665, rve, Integrase core domain	NA|185aa|up_5|CP025376.1_2919929_2920484_-	PRK01885, greB, transcription elongation factor GreB; Reviewed	NA|282aa|up_4|CP025376.1_2920551_2921397_-	COG0613, COG0613, Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]	NA|323aa|up_3|CP025376.1_2921466_2922435_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|599aa|up_2|CP025376.1_2922434_2924231_-	COG2333, ComEC, Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]	NA|1309aa|up_1|CP025376.1_2926130_2930057_-	pfam11924, IAT_beta, Inverse autotransporter, beta-domain	NA|59aa|up_0|CP025376.1_2930347_2930524_-	NA	NA|1077aa|down_0|CP025376.1_2930792_2934023_-	pfam03797, Autotransporter, Autotransporter beta-domain	NA|276aa|down_1|CP025376.1_2934304_2935132_-	cd01310, TatD_DNAse, TatD like proteins;  E	NA|232aa|down_2|CP025376.1_2935165_2935861_-	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|CP025376.1_2935853_2937134_-	TIGR02212, releasing_system_transmembrane_protein_lolC	NA|326aa|down_4|CP025376.1_2937143_2938121_+	COG4255, COG4255, Uncharacterized protein conserved in bacteria [Function unknown]	NA|567aa|down_5|CP025376.1_2938102_2939803_+	PRK11070, PRK11070, single-stranded-DNA-specific exonuclease RecJ	NA|368aa|down_6|CP025376.1_2939905_2941010_+	PRK00578, prfB, peptide chain release factor 2; Validated	NA|252aa|down_7|CP025376.1_2941039_2941795_+	PRK07023, PRK07023, SDR family oxidoreductase	NA|507aa|down_8|CP025376.1_2941801_2943322_+	PRK00484, lysS, lysyl-tRNA synthetase; Reviewed	NA|101aa|down_9|CP025376.1_2943364_2943667_+	NA
GCA_004009435.1_ASM400943v1	CP025376	Bordetella pertussis strain I462 chromosome, complete genome	3	3645444-3645537	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|CP025376.1_3634250_3635423_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|326aa|up_8|CP025376.1_3635548_3636526_+	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|CP025376.1_3636536_3637508_-	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|CP025376.1_3637574_3638360_-	PRK09245, PRK09245, crotonase/enoyl-CoA hydratase family protein	NA|411aa|up_5|CP025376.1_3638352_3639585_-	pfam02515, CoA_transf_3, CoA-transferase family III	NA|252aa|up_4|CP025376.1_3639780_3640536_-	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|173aa|up_3|CP025376.1_3640646_3641165_+	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|467aa|up_2|CP025376.1_3642953_3644354_+	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|CP025376.1_3644453_3644798_+	COG3453, COG3453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|157aa|up_0|CP025376.1_3644886_3645357_+	pfam00582, Usp, Universal stress protein family	NA|133aa|down_0|CP025376.1_3645767_3646166_+	PRK00007, PRK00007, elongation factor G; Reviewed	NA|317aa|down_1|CP025376.1_3646297_3647248_-	pfam00665, rve, Integrase core domain	DEDDh|245aa|down_2|CP025376.1_3649692_3650427_+	PRK05711, PRK05711, DNA polymerase III subunit epsilon; Provisional	NA|60aa|down_3|CP025376.1_3650836_3651016_+	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|438aa|down_4|CP025376.1_3651206_3652520_+	COG2031, AtoE, Short chain fatty acids transporter [Lipid metabolism]	NA|504aa|down_5|CP025376.1_3652535_3654047_-	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|CP025376.1_3654043_3655249_-	TIGR00210, Sodium/glutamate_symport_carrier_protein, sodium--glutamate symport carrier (gltS)	NA|326aa|down_7|CP025376.1_3655444_3656422_-	pfam00665, rve, Integrase core domain	NA|165aa|down_8|CP025376.1_3656514_3657009_-	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|353aa|down_9|CP025376.1_3657138_3658197_+	cd04187, DPM1_like_bac, Bacterial DPM1_like enzymes are related to eukaryotic DPM1
GCA_004009435.1_ASM400943v1	CP025376	Bordetella pertussis strain I462 chromosome, complete genome	4	3826896-3826980	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|CP025376.1_3814853_3816608_-	COG0405, Ggt, Gamma-glutamyltransferase [Amino acid transport and metabolism]	NA|300aa|up_8|CP025376.1_3816714_3817614_+	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|CP025376.1_3817678_3818662_-	cd13577, PBP2_BugE_Glu, Glutamate transporter of Bug (Bordetella uptake gene) protein family; contains the type 2 periplasmic binding fold	NA|327aa|up_6|CP025376.1_3818797_3819778_+	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|464aa|up_5|CP025376.1_3819794_3821186_-	PRK00485, fumC, fumarate hydratase; Reviewed	NA|179aa|up_4|CP025376.1_3821337_3821874_+	COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]	NA|415aa|up_3|CP025376.1_3821945_3823190_+	PRK10319, PRK10319, N-acetylmuramoyl-L-alanine amidase AmiA	NA|213aa|up_2|CP025376.1_3823332_3823971_-	PRK10847, PRK10847, DedA family protein	NA|630aa|up_1|CP025376.1_3824057_3825947_+	PRK00095, mutL, DNA mismatch repair endonuclease MutL	NA|314aa|up_0|CP025376.1_3825943_3826885_+	PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed	NA|350aa|down_0|CP025376.1_3826990_3828040_-	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|234aa|down_1|CP025376.1_3828292_3828994_+	PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated	NA|233aa|down_2|CP025376.1_3828990_3829689_+	cd02612, HAD_PGPPase, phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C	NA|452aa|down_3|CP025376.1_3829689_3831045_+	TIGR01942, pcnB, poly(A) polymerase	NA|164aa|down_4|CP025376.1_3831041_3831533_+	PRK14092, PRK14092, 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase	NA|319aa|down_5|CP025376.1_3831551_3832508_-	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|701aa|down_6|CP025376.1_3833918_3836021_-	TIGR00786, TRAP_transporter_permease_protein_SiaT, TRAP transporter, DctM subunit	NA|348aa|down_7|CP025376.1_3836191_3837235_+	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|CP025376.1_3837278_3838022_+	COG1802, GntR, Transcriptional regulators [Transcription]	NA|137aa|down_9|CP025376.1_3839043_3839454_-	TIGR02425, putative_gamma-carboxymuconolactone_decarboxylase, 4-carboxymuconolactone decarboxylase
