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_900636925.1_45137_F01	LR134326	Bordetella bronchiseptica strain NCTC10543 genome assembly, chromosome: 1	1	496184-496267	1	CRISPRCasFinder	no		DEDDh,cas3,DinG,csa3,WYL	Orphan	CTGTCCCCGCGGGGACAGGCACC	23	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,DinG,csa3,WYL	NA,NA	NA|295aa|up_9|LR134326.1_485474_486359_+	PRK13922, PRK13922, rod shape-determining protein MreC; Provisional	NA|188aa|up_8|LR134326.1_486345_486909_+	TIGR03426, shape_MreD, rod shape-determining protein MreD	NA|651aa|up_7|LR134326.1_486922_488875_+	TIGR03423, pbp2_mrdA, penicillin-binding protein 2	NA|379aa|up_6|LR134326.1_488871_490008_+	TIGR02210, Rod_shape-determining_protein_RodA, rod shape-determining protein RodA	NA|352aa|up_5|LR134326.1_490033_491089_-	pfam02615, Ldh_2, Malate/L-lactate dehydrogenase	NA|498aa|up_4|LR134326.1_491099_492593_-	pfam00939, Na_sulph_symp, Sodium:sulfate symporter transmembrane region	NA|192aa|up_3|LR134326.1_492805_493381_-	PRK09480, slmA, division inhibitor protein; Provisional	NA|249aa|up_2|LR134326.1_493430_494177_-	cd02604, HAD_5NT, haloacid dehalogenase (HAD)-like 5'-nucleotidases similar to Saccharomyces cerevisiae Phm8p and Sdt1p	NA|301aa|up_1|LR134326.1_494176_495079_-	PRK00942, PRK00942, acetylglutamate kinase; Provisional	NA|263aa|up_0|LR134326.1_495340_496129_+	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|164aa|down_0|LR134326.1_496285_496777_-	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|247aa|down_1|LR134326.1_496773_497514_-	PRK11023, PRK11023, divisome-associated lipoprotein YraP	NA|201aa|down_2|LR134326.1_497513_498116_-	PRK13936, PRK13936, phosphoheptose isomerase; Provisional	NA|178aa|down_3|LR134326.1_498115_498649_-	PRK14685, PRK14685, hypothetical protein; Provisional	NA|313aa|down_4|LR134326.1_498715_499654_+	COG0313, COG0313, Predicted methyltransferases [General function prediction only]	NA|191aa|down_5|LR134326.1_499650_500223_+	COG0350, Ada, Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]	NA|317aa|down_6|LR134326.1_500219_501170_-	COG0797, RlpA, Lipoproteins [Cell envelope biogenesis, outer membrane]	NA|291aa|down_7|LR134326.1_501166_502039_-	PRK05416, PRK05416, RNase adapter RapZ	NA|303aa|down_8|LR134326.1_502054_502963_+	COG2863, COG2863, Cytochrome c553 [Energy production and conversion]	NA|429aa|down_9|LR134326.1_502973_504260_+	pfam00034, Cytochrom_C, Cytochrome c
GCA_900636925.1_45137_F01	LR134326	Bordetella bronchiseptica strain NCTC10543 genome assembly, chromosome: 1	2	774593-774686	2	CRISPRCasFinder	no	DEDDh	DEDDh,cas3,DinG,csa3,WYL	Unclear	GTGCCTGTCCCGGCGGGGACAGGCAC	26	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,DinG,csa3,WYL	NA,NA	NA|533aa|up_9|LR134326.1_765983_767582_+	COG1807, ArnT, 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]	NA|132aa|up_8|LR134326.1_767541_767937_-	pfam04138, GtrA, GtrA-like protein	NA|306aa|up_7|LR134326.1_767955_768873_+	cd10807, YdjC_like_3, uncharacterized YdjC-like family proteins from bacteria	NA|152aa|up_6|LR134326.1_768869_769325_+	COG4125, COG4125, Predicted membrane protein [Function unknown]	NA|308aa|up_5|LR134326.1_769330_770254_-	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|220aa|up_4|LR134326.1_770343_771003_-	COG1280, RhtB, Putative threonine efflux protein [Amino acid transport and metabolism]	NA|325aa|up_3|LR134326.1_770999_771974_-	COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]	NA|482aa|up_2|LR134326.1_772057_773503_+	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|LR134326.1_773602_773947_+	COG3453, COG3453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|157aa|up_0|LR134326.1_774035_774506_+	pfam00582, Usp, Universal stress protein family	NA|708aa|down_0|LR134326.1_774916_777040_+	PRK00007, PRK00007, elongation factor G; Reviewed	NA|173aa|down_1|LR134326.1_777036_777555_-	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|252aa|down_2|LR134326.1_777665_778421_+	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|411aa|down_3|LR134326.1_778616_779849_+	pfam02515, CoA_transf_3, CoA-transferase family III	NA|262aa|down_4|LR134326.1_779841_780627_+	PRK09245, PRK09245, crotonase/enoyl-CoA hydratase family protein	NA|324aa|down_5|LR134326.1_780693_781665_+	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_6|LR134326.1_781675_782653_-	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_7|LR134326.1_782778_783951_+	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|343aa|down_8|LR134326.1_783977_785006_+	pfam00441, Acyl-CoA_dh_1, Acyl-CoA dehydrogenase, C-terminal domain	NA|398aa|down_9|LR134326.1_785071_786265_+	PRK06954, PRK06954, acetyl-CoA C-acetyltransferase
GCA_900636925.1_45137_F01	LR134326	Bordetella bronchiseptica strain NCTC10543 genome assembly, chromosome: 1	4	3039607-3039704	4	CRISPRCasFinder	no		DEDDh,cas3,DinG,csa3,WYL	Orphan	GTGCCTGTCCCGGCGGGGACAGGCACCC	28	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,DinG,csa3,WYL	NA|120aa|up_2|LR134326.1_3036757_3037117_-,NA	NA|526aa|up_9|LR134326.1_3027798_3029376_-	TIGR02520, putative_Type_IV_pilus_protein, type IVB pilus formation outer membrane protein, R64 PilN family	NA|254aa|up_8|LR134326.1_3029372_3030134_-	cd06911, VirB9_CagX_TrbG, VirB9/CagX/TrbG, a component of the type IV secretion system	NA|452aa|up_7|LR134326.1_3030311_3031667_-	COG0154, GatA, Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]	NA|545aa|up_6|LR134326.1_3031663_3033298_-	COG1123, COG1123, ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]	NA|277aa|up_5|LR134326.1_3033290_3034121_-	COG1173, DppC, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|315aa|up_4|LR134326.1_3034138_3035083_-	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]	NA|525aa|up_3|LR134326.1_3035135_3036710_-	cd08502, PBP2_NikA_DppA_OppA_like_16, The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold	NA|120aa|up_2|LR134326.1_3036757_3037117_-	NA	NA|459aa|up_1|LR134326.1_3037109_3038486_-	pfam07287, AtuA, Acyclic terpene utilisation family protein AtuA	NA|317aa|up_0|LR134326.1_3038582_3039533_+	cd08440, PBP2_LTTR_like_4, TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold	NA|446aa|down_0|LR134326.1_3039803_3041141_-	PRK10974, PRK10974, sn-glycerol-3-phosphate ABC transporter substrate-binding protein UgpB	NA|419aa|down_1|LR134326.1_3041145_3042402_-	PRK00711, PRK00711, D-amino acid dehydrogenase	NA|349aa|down_2|LR134326.1_3042597_3043644_-	PRK07609, PRK07609, CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated	NA|123aa|down_3|LR134326.1_3043701_3044070_-	PRK05449, PRK05449, aspartate alpha-decarboxylase; Provisional	NA|291aa|down_4|LR134326.1_3044200_3045073_-	COG3217, COG3217, Uncharacterized Fe-S protein [General function prediction only]	NA|301aa|down_5|LR134326.1_3045149_3046052_-	COG2188, PhnF, Transcriptional regulators [Transcription]	NA|352aa|down_6|LR134326.1_3046056_3047112_-	TIGR00557, pdxA, 4-hydroxythreonine-4-phosphate dehydrogenase	NA|406aa|down_7|LR134326.1_3047108_3048326_-	pfam07005, DUF1537, Putative sugar-binding N-terminal domain	NA|341aa|down_8|LR134326.1_3048326_3049349_-	PRK05274, PRK05274, 2-keto-3-deoxygluconate permease; Provisional	NA|309aa|down_9|LR134326.1_3049598_3050525_-	TIGR02408, putative_L-proline_4-hydroxylase, ectoine hydroxylase
GCA_900636925.1_45137_F01	LR134326	Bordetella bronchiseptica strain NCTC10543 genome assembly, chromosome: 1	5	3624584-3624670	5	CRISPRCasFinder	no		DEDDh,cas3,DinG,csa3,WYL	Orphan	CTGTCCCCGCGGGGACAGGCACACT	25	0	0	NA	NA	NA	1	1	Orphan	DEDDh,cas3,DinG,csa3,WYL	NA|106aa|up_5|LR134326.1_3618341_3618659_+,NA	NA|201aa|up_9|LR134326.1_3613169_3613772_+	smart01103, CRS1_YhbY, Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly	NA|159aa|up_8|LR134326.1_3614126_3614603_-	PRK00226, greA, transcription elongation factor GreA; Reviewed	NA|544aa|up_7|LR134326.1_3615232_3616864_+	PRK15041, PRK15041, methyl-accepting chemotaxis protein	NA|438aa|up_6|LR134326.1_3616894_3618208_-	TIGR03616, Putative_pyrimidine_permease_RutG, pyrimidine utilization transport protein G	NA|106aa|up_5|LR134326.1_3618341_3618659_+	NA	NA|441aa|up_4|LR134326.1_3618759_3620082_+	cd13518, PBP2_Fe3_thiamine_like, Substrate binding domain of iron and thiamine transporters-like, a member of the type 2 periplasmic binding fold superfamily	NA|570aa|up_3|LR134326.1_3620158_3621868_+	COG1178, ThiP, ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]	NA|362aa|up_2|LR134326.1_3621864_3622950_+	COG3842, PotA, ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]	NA|300aa|up_1|LR134326.1_3622997_3623897_+	COG0583, LysR, Transcriptional regulator [Transcription]	NA|215aa|up_0|LR134326.1_3623907_3624552_+	pfam00300, His_Phos_1, Histidine phosphatase superfamily (branch 1)	NA|255aa|down_0|LR134326.1_3624732_3625497_-	PRK07024, PRK07024, SDR family oxidoreductase	NA|1081aa|down_1|LR134326.1_3625647_3628890_-	PRK05294, carB, carbamoyl-phosphate synthase large subunit	NA|348aa|down_2|LR134326.1_3628900_3629944_-	PRK12564, PRK12564, carbamoyl-phosphate synthase small subunit	NA|321aa|down_3|LR134326.1_3630281_3631244_+	PRK05269, PRK05269, transaldolase B; Provisional	NA|265aa|down_4|LR134326.1_3631285_3632080_-	COG0600, TauC, ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]	NA|270aa|down_5|LR134326.1_3632083_3632893_-	COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]	NA|347aa|down_6|LR134326.1_3632885_3633926_-	cd13649, PBP2_Cae31940, Substrate binding domain of an uncharacterized protein similar to ABC-type transporter for thiamin biosynthetic pathway intermediates; a member of the type 2 periplasmic binding fold superfamily	NA|417aa|down_7|LR134326.1_3634031_3635282_-	pfam02515, CoA_transf_3, CoA-transferase family III	NA|203aa|down_8|LR134326.1_3635356_3635965_-	PRK00076, recR, recombination protein RecR; Reviewed	NA|109aa|down_9|LR134326.1_3636014_3636341_-	PRK00153, PRK00153, YbaB/EbfC family nucleoid-associated protein
GCA_900636925.1_45137_F01	LR134326	Bordetella bronchiseptica strain NCTC10543 genome assembly, chromosome: 1	6	3743313-3743437	6	CRISPRCasFinder	no		DEDDh,cas3,DinG,csa3,WYL	Orphan	GTGCCTGTCCCCGCAGGGACAGGC	24	1	2	3743337-3743355|3743337-3743355	LR134326.1_1599216-1599198|LR134326.1_3728639-3728657	NA	2	2	Orphan	DEDDh,cas3,DinG,csa3,WYL	NA,NA|292aa|down_4|LR134326.1_3746368_3747244_+,NA|144aa|down_7|LR134326.1_3749577_3750009_+	NA|462aa|up_9|LR134326.1_3729498_3730884_+	pfam03972, MmgE_PrpD, MmgE/PrpD family	NA|332aa|up_8|LR134326.1_3730914_3731910_-	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|459aa|up_7|LR134326.1_3731978_3733355_-	pfam03972, MmgE_PrpD, MmgE/PrpD family	NA|462aa|up_6|LR134326.1_3733351_3734737_-	TIGR01813, Fumarate_reductase_flavoprotein_subunit, flavocytochrome c	NA|340aa|up_5|LR134326.1_3734755_3735775_-	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|334aa|up_4|LR134326.1_3735912_3736914_-	COG0523, COG0523, Putative GTPases (G3E family) [General function prediction only]	NA|240aa|up_3|LR134326.1_3736924_3737644_-	cd01015, CSHase, N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia	NA|458aa|up_2|LR134326.1_3737677_3739051_-	cd01302, Cyclic_amidohydrolases, Cyclic amidohydrolases, including hydantoinase, dihydropyrimidinase, allantoinase, and dihydroorotase, are involved in the metabolism of pyrimidines and purines, sharing the property of hydrolyzing the cyclic amide bond of each substrate to the corresponding N-carbamyl amino acids	NA|885aa|up_1|LR134326.1_3739075_3741730_-	PRK09277, PRK09277, aconitate hydratase AcnA	NA|298aa|up_0|LR134326.1_3741959_3742853_+	cd00377, ICL_PEPM, Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage	NA|197aa|down_0|LR134326.1_3743505_3744096_-	COG1309, AcrR, Transcriptional regulator [Transcription]	NA|102aa|down_1|LR134326.1_3744221_3744527_-	pfam13663, DUF4148, Domain of unknown function (DUF4148)	NA|102aa|down_2|LR134326.1_3744590_3744896_-	pfam13663, DUF4148, Domain of unknown function (DUF4148)	NA|336aa|down_3|LR134326.1_3745364_3746372_+	TIGR00433, biotin_synthase, biotin synthase	NA|292aa|down_4|LR134326.1_3746368_3747244_+	NA	NA|467aa|down_5|LR134326.1_3747357_3748758_-	cd17477, MFS_YcaD_like, YcaD and similar transporters of the Major Facilitator Superfamily	NA|168aa|down_6|LR134326.1_3748835_3749339_-	cd03013, PRX5_like, Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol	NA|144aa|down_7|LR134326.1_3749577_3750009_+	NA	NA|295aa|down_8|LR134326.1_3750018_3750903_-	COG0412, COG0412, Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]	NA|1154aa|down_9|LR134326.1_3750920_3754382_-	pfam05359, DUF748, Domain of Unknown Function (DUF748)
GCA_900636925.1_45137_F01	LR134326	Bordetella bronchiseptica strain NCTC10543 genome assembly, chromosome: 1	7	5172295-5172432	1	PILER-CR	no		DEDDh,cas3,DinG,csa3,WYL	Orphan	ATGTTCCACGTGAAACAAC	19	0	0	NA	NA	NA	2	2	Orphan	DEDDh,cas3,DinG,csa3,WYL	NA,NA	NA|144aa|up_9|LR134326.1_5162536_5162968_-	PRK00140, rplK, 50S ribosomal protein L11; Validated	NA|178aa|up_8|LR134326.1_5163031_5163565_-	PRK05609, nusG, transcription antitermination protein NusG; Validated	NA|94aa|up_7|LR134326.1_5163574_5163856_-	PRK05740, secE, preprotein translocase subunit SecE; Reviewed	NA|397aa|up_6|LR134326.1_5164193_5165384_-	PRK00049, PRK00049, elongation factor Tu; Reviewed	NA|334aa|up_5|LR134326.1_5165979_5166981_-	cd08964, L-asparaginase_II, Type II (periplasmic) bacterial L-asparaginase	NA|306aa|up_4|LR134326.1_5166973_5167891_-	TIGR04285, parB-like_partition_protein, nucleoid occlusion protein	NA|269aa|up_3|LR134326.1_5167934_5168741_-	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family	NA|266aa|up_2|LR134326.1_5168747_5169545_-	pfam13614, AAA_31, AAA domain	NA|231aa|up_1|LR134326.1_5169541_5170234_-	PRK00107, gidB, 16S rRNA (guanine(527)-N(7))-methyltransferase RsmG	NA|640aa|up_0|LR134326.1_5170230_5172150_-	PRK05192, PRK05192, tRNA uridine-5-carboxymethylaminomethyl(34) synthesis enzyme MnmG	NA|389aa|down_0|LR134326.1_5174546_5175713_+	PRK09082, PRK09082, methionine aminotransferase; Validated	NA|508aa|down_1|LR134326.1_5175788_5177312_-	COG3333, COG3333, Uncharacterized protein conserved in bacteria [Function unknown]	NA|146aa|down_2|LR134326.1_5177308_5177746_-	pfam07331, TctB, Tripartite tricarboxylate transporter TctB family	NA|335aa|down_3|LR134326.1_5177850_5178855_-	COG3181, COG3181, Uncharacterized protein conserved in bacteria [Function unknown]	NA|488aa|down_4|LR134326.1_5178975_5180439_-	PRK10337, PRK10337, sensor protein QseC; Provisional	NA|227aa|down_5|LR134326.1_5180425_5181106_-	PRK15479, PRK15479, transcriptional regulator TctD	NA|425aa|down_6|LR134326.1_5181663_5182938_+	cd17355, MFS_YcxA_like, MFS-type transporter YcxA and similar proteins of the Major Facilitator Superfamily of transporters	NA|451aa|down_7|LR134326.1_5182882_5184235_-	PRK05291, trmE, tRNA uridine-5-carboxymethylaminomethyl(34) synthesis GTPase MnmE	NA|529aa|down_8|LR134326.1_5184351_5185938_+	cd08498, PBP2_NikA_DppA_OppA_like_2, The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold	NA|325aa|down_9|LR134326.1_5185957_5186932_+	COG0601, DppB, ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
