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_900327855.1_VS377	LS398604	Bordetella pertussis strain VS377 genome assembly, chromosome: I	1	255799-255883	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|238aa|up_9|LS398604.1_244756_245470_-	COG1802, GntR, Transcriptional regulators [Transcription]	NA|348aa|up_8|LS398604.1_245543_246587_-	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_7|LS398604.1_246757_248860_+	TIGR00786, TRAP_transporter_permease_protein_SiaT, TRAP transporter, DctM subunit	NA|277aa|up_6|LS398604.1_249413_250244_+	pfam03972, MmgE_PrpD, MmgE/PrpD family	NA|319aa|up_5|LS398604.1_250270_251227_+	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|164aa|up_4|LS398604.1_251245_251737_-	PRK14092, PRK14092, 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase	NA|452aa|up_3|LS398604.1_251733_253089_-	TIGR01942, pcnB, poly(A) polymerase	NA|233aa|up_2|LS398604.1_253089_253788_-	cd02612, HAD_PGPPase, phosphatidylglycerol-phosphate phosphatase, similar to Escherichia coli K-12 phosphatidylglycerol-phosphate phosphatase C	NA|234aa|up_1|LS398604.1_253784_254486_-	PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated	NA|350aa|up_0|LS398604.1_254738_255788_+	PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase; Provisional	NA|314aa|down_0|LS398604.1_255893_256835_-	PRK00091, miaA, tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed	NA|630aa|down_1|LS398604.1_256831_258721_-	PRK00095, mutL, DNA mismatch repair endonuclease MutL	NA|213aa|down_2|LS398604.1_258807_259446_+	PRK10847, PRK10847, DedA family protein	NA|415aa|down_3|LS398604.1_259588_260833_-	PRK10319, PRK10319, N-acetylmuramoyl-L-alanine amidase AmiA	NA|179aa|down_4|LS398604.1_260904_261441_-	COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]	NA|464aa|down_5|LS398604.1_261592_262984_+	PRK00485, fumC, fumarate hydratase; Reviewed	NA|304aa|down_6|LS398604.1_263000_263912_-	COG0679, COG0679, Predicted permeases [General function prediction only]	NA|328aa|down_7|LS398604.1_264116_265100_+	cd13577, PBP2_BugE_Glu, Glutamate transporter of Bug (Bordetella uptake gene) protein family; contains the type 2 periplasmic binding fold	NA|300aa|down_8|LS398604.1_265164_266064_-	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|LS398604.1_266170_267925_+	COG0405, Ggt, Gamma-glutamyltransferase [Amino acid transport and metabolism]
GCA_900327855.1_VS377	LS398604	Bordetella pertussis strain VS377 genome assembly, chromosome: I	2	438292-438385	2	CRISPRCasFinder	no	DEDDh	DEDDh,csa3,cas3,DinG	Unclear	GTGCCTGTCCCCGCCGGGACAGGCAC	26	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA,NA	NA|156aa|up_9|LS398604.1_426846_427314_+	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|326aa|up_8|LS398604.1_427406_428384_+	pfam00665, rve, Integrase core domain	NA|402aa|up_7|LS398604.1_428579_429785_+	TIGR00210, Sodium/glutamate_symport_carrier_protein, sodium--glutamate symport carrier (gltS)	NA|502aa|up_6|LS398604.1_429787_431293_+	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_5|LS398604.1_431308_432622_-	COG2031, AtoE, Short chain fatty acids transporter [Lipid metabolism]	NA|60aa|up_4|LS398604.1_432812_432992_-	pfam04391, DUF533, Protein of unknown function (DUF533)	DEDDh|245aa|up_3|LS398604.1_433401_434136_-	PRK05711, PRK05711, DNA polymerase III subunit epsilon; Provisional	NA|791aa|up_2|LS398604.1_434144_436517_-	COG0841, AcrB, Cation/multidrug efflux pump [Defense mechanisms]	NA|317aa|up_1|LS398604.1_436580_437531_+	pfam00665, rve, Integrase core domain	NA|133aa|up_0|LS398604.1_437662_438061_-	PRK00007, PRK00007, elongation factor G; Reviewed	NA|157aa|down_0|LS398604.1_438471_438942_-	pfam00582, Usp, Universal stress protein family	NA|115aa|down_1|LS398604.1_439030_439375_-	COG3453, COG3453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|459aa|down_2|LS398604.1_439474_440851_-	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|604aa|down_3|LS398604.1_440855_442667_+	PRK00007, PRK00007, elongation factor G; Reviewed	NA|173aa|down_4|LS398604.1_442663_443182_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|252aa|down_5|LS398604.1_443292_444048_+	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|411aa|down_6|LS398604.1_444243_445476_+	pfam02515, CoA_transf_3, CoA-transferase family III	NA|262aa|down_7|LS398604.1_445468_446254_+	PRK09245, PRK09245, crotonase/enoyl-CoA hydratase family protein	NA|324aa|down_8|LS398604.1_446320_447292_+	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_9|LS398604.1_447302_448280_-	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
GCA_900327855.1_VS377	LS398604	Bordetella pertussis strain VS377 genome assembly, chromosome: I	3	1032911-1033005	3	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG	Orphan	TAAAAGGGCACCCGCAAGGGTGTCCTTTT	29	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA|127aa|up_2|LS398604.1_1030897_1031278_+,NA	NA|345aa|up_9|LS398604.1_1022340_1023375_+	COG1613, Sbp, ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]	NA|224aa|up_8|LS398604.1_1023618_1024290_+	TIGR02139, permease_CysT, sulfate ABC transporter, permease protein CysT	NA|261aa|up_7|LS398604.1_1024404_1025187_+	COG4208, CysW, ABC-type sulfate transport system, permease component [Inorganic ion transport and metabolism]	NA|355aa|up_6|LS398604.1_1025211_1026276_+	cd03296, ABC_CysA_sulfate_importer, ATP-binding cassette domain of the sulfate transporter	NA|570aa|up_5|LS398604.1_1026272_1027982_+	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|259aa|up_4|LS398604.1_1028504_1029281_+	COG2895, CysN, GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]	NA|425aa|up_3|LS398604.1_1029469_1030744_+	TIGR04470, hypothetical_protein_ALIPUT_00462, radical SAM mobile pair protein B	NA|127aa|up_2|LS398604.1_1030897_1031278_+	NA	NA|278aa|up_1|LS398604.1_1031285_1032119_-	TIGR03340, phn_DUF6, phosphonate utilization associated putative membrane protein	NA|127aa|up_0|LS398604.1_1032463_1032844_+	PRK05338, rplS, 50S ribosomal protein L19; Provisional	NA|222aa|down_0|LS398604.1_1033114_1033780_+	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|350aa|down_1|LS398604.1_1033881_1034931_+	cd19094, AKR_Tas-like, Escherichia coli Tas protein and similar proteins	NA|310aa|down_2|LS398604.1_1035068_1035998_-	pfam02371, Transposase_20, Transposase IS116/IS110/IS902 family	NA|428aa|down_3|LS398604.1_1036237_1037521_-	cd17489, MFS_YfcJ_like, Escherichia coli YfcJ, YhhS, and similar transporters of the Major Facilitator Superfamily	NA|191aa|down_4|LS398604.1_1037593_1038166_-	COG3161, UbiC, 4-hydroxybenzoate synthetase (chorismate lyase) [Coenzyme metabolism]	NA|244aa|down_5|LS398604.1_1038225_1038957_+	COG1187, RsuA, 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]	NA|312aa|down_6|LS398604.1_1039008_1039944_-	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|1060aa|down_7|LS398604.1_1040733_1043913_+	TIGR00915, Probable_aminoglycoside_efflux_pump, The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family	NA|541aa|down_8|LS398604.1_1043909_1045532_+	TIGR01845, Outer_membrane_protein_OprM, efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family	NA|205aa|down_9|LS398604.1_1045760_1046375_-	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_900327855.1_VS377	LS398604	Bordetella pertussis strain VS377 genome assembly, chromosome: I	4	1902113-1902240	4	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG	Orphan	AAAAAGCCCCCTCGGGGGGCAGCAAGCCCGCATAGCGGGCGCAGCG	46	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA|191aa|up_5|LS398604.1_1895847_1896420_+,NA	NA|144aa|up_9|LS398604.1_1892290_1892722_+	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]	NA|386aa|up_8|LS398604.1_1892718_1893876_+	PRK06158, PRK06158, thiolase; Provisional	NA|259aa|up_7|LS398604.1_1893897_1894674_+	PRK05653, fabG, 3-oxoacyl-ACP reductase FabG	NA|393aa|up_6|LS398604.1_1894676_1895855_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|191aa|up_5|LS398604.1_1895847_1896420_+	NA	NA|239aa|up_4|LS398604.1_1896838_1897555_+	TIGR02429, 3-oxoadipate_CoA-transferase_subunit_A, 3-oxoacid CoA-transferase, A subunit	NA|214aa|up_3|LS398604.1_1897547_1898189_+	TIGR02428, 3-oxoadipate_CoA-transferase_subunit_B, 3-oxoacid CoA-transferase, B subunit	NA|244aa|up_2|LS398604.1_1898223_1898955_+	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|317aa|up_1|LS398604.1_1899755_1900706_+	pfam00665, rve, Integrase core domain	NA|359aa|up_0|LS398604.1_1900960_1902037_+	TIGR01414, Contains:_AIDA-I_translocator, outer membrane autotransporter barrel domain	NA|217aa|down_0|LS398604.1_1902263_1902914_-	PRK00215, PRK00215, transcriptional repressor LexA	NA|401aa|down_1|LS398604.1_1903042_1904245_-	PRK09257, PRK09257, aromatic amino acid transaminase	NA|679aa|down_2|LS398604.1_1904322_1906359_+	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|164aa|down_3|LS398604.1_1906611_1907103_+	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|171aa|down_4|LS398604.1_1907318_1907831_+	TIGR02010, Putative_HTH-type_transcriptional_regulator, iron-sulfur cluster assembly transcription factor IscR	NA|404aa|down_5|LS398604.1_1907848_1909060_+	PRK14012, PRK14012, IscS subfamily cysteine desulfurase	NA|137aa|down_6|LS398604.1_1909097_1909508_+	PRK11325, PRK11325, scaffold protein; Provisional	NA|108aa|down_7|LS398604.1_1909509_1909833_+	TIGR02011, Protein_yfhF	NA|171aa|down_8|LS398604.1_1909835_1910348_+	PRK03578, hscB, Fe-S protein assembly co-chaperone HscB	NA|621aa|down_9|LS398604.1_1910477_1912340_+	PRK05183, hscA, chaperone protein HscA; Provisional
GCA_900327855.1_VS377	LS398604	Bordetella pertussis strain VS377 genome assembly, chromosome: I	5	3489870-3489979	5	CRISPRCasFinder	no		DEDDh,csa3,cas3,DinG	Orphan	TTGACTGCCAAGACGGTATCTGTCCCC	27	0	0	NA	NA	NA	1	1	Orphan	DEDDh,csa3,cas3,DinG	NA,NA	NA|317aa|up_9|LS398604.1_3475232_3476183_-	pfam00665, rve, Integrase core domain	NA|993aa|up_8|LS398604.1_3476536_3479515_+	pfam17936, Big_6, Bacterial Ig domain	NA|172aa|up_7|LS398604.1_3479681_3480197_+	pfam04116, FA_hydroxylase, Fatty acid hydroxylase superfamily	NA|293aa|up_6|LS398604.1_3480441_3481320_+	pfam00487, FA_desaturase, Fatty acid desaturase	NA|317aa|up_5|LS398604.1_3483268_3484219_+	pfam00665, rve, Integrase core domain	NA|156aa|up_4|LS398604.1_3484215_3484683_-	PRK00203, rnhA, ribonuclease H; Reviewed	NA|257aa|up_3|LS398604.1_3484725_3485496_-	pfam08241, Methyltransf_11, Methyltransferase domain	NA|267aa|up_2|LS398604.1_3485516_3486317_+	TIGR03413, GSH_gloB, hydroxyacylglutathione hydrolase	NA|470aa|up_1|LS398604.1_3486327_3487737_+	PRK10783, mltD, membrane-bound lytic murein transglycosylase D; Provisional	NA|262aa|up_0|LS398604.1_3487831_3488617_+	PRK06997, PRK06997, enoyl-[acyl-carrier-protein] reductase FabI	NA|131aa|down_0|LS398604.1_3489980_3490373_-	COG1765, COG1765, Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]	NA|227aa|down_1|LS398604.1_3490510_3491191_+	pfam04391, DUF533, Protein of unknown function (DUF533)	NA|327aa|down_2|LS398604.1_3491195_3492176_-	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|317aa|down_3|LS398604.1_3492262_3493213_-	pfam00665, rve, Integrase core domain	NA|410aa|down_4|LS398604.1_3493294_3494524_-	COG3188, FimD, P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]	NA|234aa|down_5|LS398604.1_3494717_3495419_+	PRK09468, ompR, osmolarity response regulator; Provisional	NA|475aa|down_6|LS398604.1_3495418_3496843_+	PRK09467, envZ, osmolarity sensor protein; Provisional	NA|352aa|down_7|LS398604.1_3496859_3497915_-	pfam02322, Cyt_bd_oxida_II, Cytochrome bd terminal oxidase subunit II	NA|447aa|down_8|LS398604.1_3497911_3499252_-	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|588aa|down_9|LS398604.1_3499367_3501131_+	PRK05347, PRK05347, glutaminyl-tRNA synthetase; Provisional
