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_003186595.1_ASM318659v1	NZ_CP020645	Bordetella bronchiseptica strain I943 chromosome, complete genome	1	91544-91652	1	CRISPRCasFinder	no		csa3,PD-DExK,RT,DEDDh,DinG,cas3	Orphan	ATGGGGACTGGCTCCCGCCAACTTCAG	27	0	0	NA	NA	NA	1	1	Orphan	csa3,PD-DExK,RT,DEDDh,DinG,cas3	NA,NA|47aa|down_0|NZ_CP020645.1_91716_91857_-	NA|314aa|up_9|NZ_CP020645.1_80544_81486_-	cd08417, PBP2_Nitroaromatics_like, The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold	NA|497aa|up_8|NZ_CP020645.1_81765_83256_+	PRK06151, PRK06151, N-ethylammeline chlorohydrolase; Provisional	NA|329aa|up_7|NZ_CP020645.1_83294_84281_+	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|382aa|up_6|NZ_CP020645.1_84433_85579_+	cd03801, GT4_PimA-like, phosphatidyl-myo-inositol mannosyltransferase	NA|273aa|up_5|NZ_CP020645.1_85585_86404_+	pfam10707, YrbL-PhoP_reg, PhoP regulatory network protein YrbL	NA|324aa|up_4|NZ_CP020645.1_86560_87532_+	COG0583, LysR, Transcriptional regulator [Transcription]	NA|334aa|up_3|NZ_CP020645.1_87557_88559_+	cd13563, PBP2_SsuA_like_6, Putative substrate binding domain of sulfonate binding protein-like, a member of the type 2 periplasmic binding protein fold	NA|257aa|up_2|NZ_CP020645.1_88622_89393_+	COG0600, TauC, ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]	NA|264aa|up_1|NZ_CP020645.1_89380_90172_+	cd03293, ABC_NrtD_SsuB_transporters, ATP-binding cassette domain of the nitrate and sulfonate transporters	NA|439aa|up_0|NZ_CP020645.1_90199_91516_+	COG0665, DadA, Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]	NA|47aa|down_0|NZ_CP020645.1_91716_91857_-	NA	NA|215aa|down_1|NZ_CP020645.1_91913_92558_-	pfam00440, TetR_N, Bacterial regulatory proteins, tetR family	NA|726aa|down_2|NZ_CP020645.1_92593_94771_-	PRK02999, PRK02999, malate synthase G; Provisional	NA|255aa|down_3|NZ_CP020645.1_95014_95779_+	PRK09990, PRK09990, DNA-binding transcriptional regulator GlcC; Provisional	NA|376aa|down_4|NZ_CP020645.1_95775_96903_-	COG1748, LYS9, Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]	NA|129aa|down_5|NZ_CP020645.1_97130_97517_-	pfam13663, DUF4148, Domain of unknown function (DUF4148)	NA|309aa|down_6|NZ_CP020645.1_97782_98709_-	PRK12848, ubiA, 4-hydroxybenzoate octaprenyltransferase	NA|400aa|down_7|NZ_CP020645.1_98795_99995_-	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|165aa|down_8|NZ_CP020645.1_100133_100628_+	COG1956, COG1956, GAF domain-containing protein [Signal transduction mechanisms]	NA|300aa|down_9|NZ_CP020645.1_100915_101815_+	cd00950, DHDPS, Dihydrodipicolinate synthase (DHDPS)
GCF_003186595.1_ASM318659v1	NZ_CP020645	Bordetella bronchiseptica strain I943 chromosome, complete genome	2	278291-278390	2	CRISPRCasFinder	no		csa3,PD-DExK,RT,DEDDh,DinG,cas3	Orphan	GACAGGCACCTGCCGAATCCTGG	23	0	0	NA	NA	NA	1	1	Orphan	csa3,PD-DExK,RT,DEDDh,DinG,cas3	NA,NA	NA|460aa|up_9|NZ_CP020645.1_268419_269799_+	PRK09496, trkA, Trk system potassium transporter TrkA	NA|490aa|up_8|NZ_CP020645.1_269847_271317_+	PRK10750, PRK10750, Trk system potassium transporter TrkH	NA|178aa|up_7|NZ_CP020645.1_271396_271930_+	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein	NA|332aa|up_6|NZ_CP020645.1_271937_272933_-	COG1975, XdhC, Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]	NA|217aa|up_5|NZ_CP020645.1_273015_273666_+	cd04182, GT_2_like_f, GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function	NA|321aa|up_4|NZ_CP020645.1_273989_274952_+	COG2159, COG2159, Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]	NA|251aa|up_3|NZ_CP020645.1_274977_275730_+	COG3473, COG3473, Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]	NA|274aa|up_2|NZ_CP020645.1_275747_276569_+	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]	NA|344aa|up_1|NZ_CP020645.1_276596_277628_+	COG2309, AmpS, Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]	NA|206aa|up_0|NZ_CP020645.1_277643_278261_+	cd01015, CSHase, N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia	NA|172aa|down_0|NZ_CP020645.1_278410_278926_-	cd00667, ring_hydroxylating_dioxygenases_beta, Ring hydroxylating dioxygenase beta subunit	NA|430aa|down_1|NZ_CP020645.1_278940_280230_-	cd08880, RHO_alpha_C_ahdA1c-like, C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp	NA|421aa|down_2|NZ_CP020645.1_280265_281528_-	PRK09754, PRK09754, phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional	NA|104aa|down_3|NZ_CP020645.1_281530_281842_-	cd03528, Rieske_RO_ferredoxin, Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO)	NA|368aa|down_4|NZ_CP020645.1_282311_283415_+	cd13682, PBP2_TRAP_alpha-ketoacid, Substrate-binding component of an alpha-keto acid binding Tripartite ATP-independent Periplasmic transporter and related proteins; contains the type 2 periplasmic-binding protein fold	NA|793aa|down_5|NZ_CP020645.1_283444_285823_+	pfam02738, Ald_Xan_dh_C2, Molybdopterin-binding domain of aldehyde dehydrogenase	NA|279aa|down_6|NZ_CP020645.1_285819_286656_+	pfam00941, FAD_binding_5, FAD binding domain in molybdopterin dehydrogenase	NA|396aa|down_7|NZ_CP020645.1_286652_287840_+	COG2080, CoxS, Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]	NA|343aa|down_8|NZ_CP020645.1_287874_288903_+	pfam09084, NMT1, NMT1/THI5 like	NA|263aa|down_9|NZ_CP020645.1_288899_289688_+	COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
GCF_003186595.1_ASM318659v1	NZ_CP020645	Bordetella bronchiseptica strain I943 chromosome, complete genome	3	693193-693313	3	CRISPRCasFinder	no		csa3,PD-DExK,RT,DEDDh,DinG,cas3	Orphan	CGGGACAGGCACCAGCAGGTGCGGGCG	27	0	0	NA	NA	NA	1	1	Orphan	csa3,PD-DExK,RT,DEDDh,DinG,cas3	NA|97aa|up_1|NZ_CP020645.1_691980_692271_+,NA	NA|233aa|up_9|NZ_CP020645.1_683529_684228_-	COG1802, GntR, Transcriptional regulators [Transcription]	NA|510aa|up_8|NZ_CP020645.1_684441_685971_+	cd07130, ALDH_F7_AASADH, NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B	NA|388aa|up_7|NZ_CP020645.1_685987_687151_+	PRK09028, PRK09028, cystathionine beta-lyase; Provisional	NA|117aa|up_6|NZ_CP020645.1_687181_687532_+	cd06150, YjgF_YER057c_UK114_like_2, This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function	NA|320aa|up_5|NZ_CP020645.1_687834_688794_+	cd07012, PBP2_Bug_TTT, Bug (Bordetella uptake gene) protein family of periplasmic solute-binding receptors; contains the type 2 periplasmic binding fold	NA|371aa|up_4|NZ_CP020645.1_688818_689931_+	COG5276, COG5276, Uncharacterized conserved protein [Function unknown]	NA|345aa|up_3|NZ_CP020645.1_689945_690980_+	COG0523, COG0523, Putative GTPases (G3E family) [General function prediction only]	NA|334aa|up_2|NZ_CP020645.1_690976_691978_+	cd00200, WD40, WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment	NA|97aa|up_1|NZ_CP020645.1_691980_692271_+	NA	NA|248aa|up_0|NZ_CP020645.1_692360_693104_+	COG1414, IclR, Transcriptional regulator [Transcription]	NA|297aa|down_0|NZ_CP020645.1_693575_694466_+	cd00408, DHDPS-like, Dihydrodipicolinate synthase family	NA|412aa|down_1|NZ_CP020645.1_694466_695702_+	PRK05764, PRK05764, aspartate aminotransferase; Provisional	NA|277aa|down_2|NZ_CP020645.1_695786_696617_+	cd13713, PBP2_Cystine_like_1, Substrate binding domain of putative ABC transporters involved in cystine import; the type 2 periplasmic binding protein fold	NA|217aa|down_3|NZ_CP020645.1_696613_697264_+	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|261aa|down_4|NZ_CP020645.1_697260_698043_+	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|413aa|down_5|NZ_CP020645.1_698039_699278_+	cd05666, M20_Acy1-like, M20 Peptidase aminoacylase 1 subfamily	NA|266aa|down_6|NZ_CP020645.1_699350_700148_+	TIGR02431, p-hydroxybenzoate_hydroxylase_transcriptional, beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family	NA|421aa|down_7|NZ_CP020645.1_700185_701448_+	PRK13590, PRK13590, putative bifunctional OHCU decarboxylase/allantoate amidohydrolase; Provisional	NA|425aa|down_8|NZ_CP020645.1_701453_702728_-	COG0154, GatA, Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]	NA|309aa|down_9|NZ_CP020645.1_702736_703663_-	cd10977, CE4_PuuE_SpCDA1, Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins
GCF_003186595.1_ASM318659v1	NZ_CP020645	Bordetella bronchiseptica strain I943 chromosome, complete genome	4	1290661-1290735	4	CRISPRCasFinder	no		csa3,PD-DExK,RT,DEDDh,DinG,cas3	Orphan	CGCCGCGCTGCACGGTGCCTGTCCC	25	0	0	NA	NA	NA	1	1	Orphan	csa3,PD-DExK,RT,DEDDh,DinG,cas3	NA|97aa|up_5|NZ_CP020645.1_1285929_1286220_-,NA|111aa|down_4|NZ_CP020645.1_1295096_1295429_+	NA|341aa|up_9|NZ_CP020645.1_1283008_1284031_-	cd13603, PBP2_TRAP_Siap_TeaA_like, Substrate-binding domain of a sialic acid binding Tripartite ATP-independent  Periplasmic transport system (SiaP) and related proteins; the type 2 periplasmic-binding protein fold	NA|207aa|up_8|NZ_CP020645.1_1284065_1284686_-	cd03022, DsbA_HCCA_Iso, DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway	NA|140aa|up_7|NZ_CP020645.1_1284736_1285156_-	TIGR02096, putative_cyclase, conserved hypothetical protein, steroid delta-isomerase-related	NA|176aa|up_6|NZ_CP020645.1_1285364_1285892_-	cd12108, Hr-like, Hemerythrin-like domain	NA|97aa|up_5|NZ_CP020645.1_1285929_1286220_-	NA	NA|212aa|up_4|NZ_CP020645.1_1286216_1286852_-	pfam09859, Oxygenase-NA, Oxygenase, catalyzing oxidative methylation of damaged DNA	NA|359aa|up_3|NZ_CP020645.1_1286848_1287925_-	PRK15435, PRK15435, bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada	NA|220aa|up_2|NZ_CP020645.1_1287983_1288643_-	COG0122, AlkA, 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]	NA|168aa|up_1|NZ_CP020645.1_1288744_1289248_-	cd07246, VOC_like, uncharacterized subfamily of vicinal oxygen chelate (VOC) family	NA|386aa|up_0|NZ_CP020645.1_1289415_1290573_-	cd07385, MPP_YkuE_C, Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain	NA|463aa|down_0|NZ_CP020645.1_1290912_1292301_+	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I	NA|336aa|down_1|NZ_CP020645.1_1292302_1293310_+	COG1294, AppB, Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]	NA|49aa|down_2|NZ_CP020645.1_1293320_1293467_+	pfam10617, DUF2474, Protein of unknown function (DUF2474)	NA|474aa|down_3|NZ_CP020645.1_1293483_1294905_+	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|111aa|down_4|NZ_CP020645.1_1295096_1295429_+	NA	NA|1054aa|down_5|NZ_CP020645.1_1295439_1298601_-	PRK14991, PRK14991, tetrathionate reductase subunit TtrA	NA|345aa|down_6|NZ_CP020645.1_1298627_1299662_-	PRK14992, PRK14992, tetrathionate reductase subunit TtrC	NA|258aa|down_7|NZ_CP020645.1_1299675_1300449_-	PRK14993, PRK14993, tetrathionate reductase subunit TtrB	NA|118aa|down_8|NZ_CP020645.1_1300764_1301118_+	cd00051, EFh, EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands	NA|309aa|down_9|NZ_CP020645.1_1301140_1302067_-	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]
GCF_003186595.1_ASM318659v1	NZ_CP020645	Bordetella bronchiseptica strain I943 chromosome, complete genome	5	1423960-1424070	5	CRISPRCasFinder	no		csa3,PD-DExK,RT,DEDDh,DinG,cas3	Orphan	AGCGGGCGCAGCGTGGGGGCTTTTTTTGC	29	1	3	1423989-1424041|1423989-1424041|1423989-1424041	NZ_CP020645.1_3152925-3152873|NZ_CP020645.1_3383461-3383513|NZ_CP020645.1_3859364-3859312	NA	1	1	Orphan	csa3,PD-DExK,RT,DEDDh,DinG,cas3	NA,NA|239aa|down_2|NZ_CP020645.1_1428991_1429708_+,NA|120aa|down_5|NZ_CP020645.1_1430565_1430925_+,NA|247aa|down_9|NZ_CP020645.1_1434789_1435530_+	NA|341aa|up_9|NZ_CP020645.1_1412280_1413303_-	COG1702, PhoH, Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]	NA|476aa|up_8|NZ_CP020645.1_1413299_1414727_-	PRK14325, PRK14325, (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional	NA|243aa|up_7|NZ_CP020645.1_1414883_1415612_+	cd03389, PAP2_lipid_A_1_phosphatase, PAP2_like proteins, Lipid A 1-phosphatase subfamily	NA|312aa|up_6|NZ_CP020645.1_1415893_1416829_-	PRK13022, secF, protein translocase subunit SecF	NA|627aa|up_5|NZ_CP020645.1_1416878_1418759_-	PRK05812, secD, preprotein translocase subunit SecD; Reviewed	NA|115aa|up_4|NZ_CP020645.1_1418825_1419170_-	PRK05585, yajC, preprotein translocase subunit YajC; Validated	NA|379aa|up_3|NZ_CP020645.1_1419315_1420452_-	PRK00112, tgt, queuine tRNA-ribosyltransferase; Provisional	NA|358aa|up_2|NZ_CP020645.1_1420448_1421522_-	PRK00147, queA, S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional	NA|479aa|up_1|NZ_CP020645.1_1421679_1423116_+	COG2027, DacB, D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]	NA|214aa|up_0|NZ_CP020645.1_1423206_1423848_+	PRK00129, upp, uracil phosphoribosyltransferase; Reviewed	NA|919aa|down_0|NZ_CP020645.1_1424482_1427239_+	TIGR01414, Contains:_AIDA-I_translocator, outer membrane autotransporter barrel domain	NA|474aa|down_1|NZ_CP020645.1_1427305_1428727_-	PRK10637, cysG, siroheme synthase CysG	NA|239aa|down_2|NZ_CP020645.1_1428991_1429708_+	NA	NA|106aa|down_3|NZ_CP020645.1_1429792_1430110_+	pfam05957, DUF883, Bacterial protein of unknown function (DUF883)	NA|138aa|down_4|NZ_CP020645.1_1430150_1430564_+	pfam07332, Phage_holin_3_6, Putative Actinobacterial Holin-X, holin superfamily III	NA|120aa|down_5|NZ_CP020645.1_1430565_1430925_+	NA	NA|515aa|down_6|NZ_CP020645.1_1430967_1432512_-	PRK10922, PRK10922, 4-hydroxy-3-polyprenylbenzoate decarboxylase	NA|277aa|down_7|NZ_CP020645.1_1432595_1433426_+	cd00254, LT-like, lytic transglycosylase(LT)-like domain	NA|385aa|down_8|NZ_CP020645.1_1433460_1434615_-	PRK07337, PRK07337, pyridoxal phosphate-dependent aminotransferase	NA|247aa|down_9|NZ_CP020645.1_1434789_1435530_+	NA
GCF_003186595.1_ASM318659v1	NZ_CP020645	Bordetella bronchiseptica strain I943 chromosome, complete genome	6	1480672-1480770	6	CRISPRCasFinder	no		csa3,PD-DExK,RT,DEDDh,DinG,cas3	Orphan	GCCGGTGCCAGTCCCCCTTGCGGGGACAGGCAC	33	0	0	NA	NA	NA	1	1	Orphan	csa3,PD-DExK,RT,DEDDh,DinG,cas3	NA,NA	NA|397aa|up_9|NZ_CP020645.1_1470634_1471825_+	PRK06019, PRK06019, phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed	NA|351aa|up_8|NZ_CP020645.1_1471829_1472882_+	COG0009, SUA5, Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]	NA|341aa|up_7|NZ_CP020645.1_1473018_1474041_+	cd13692, PBP2_BztA, Substrate bindng domain of ABC glutamate/glutamine/aspartate/asparagine transporter; the type 2 periplasmic binding protein fold	NA|279aa|up_6|NZ_CP020645.1_1474132_1474969_+	COG1414, IclR, Transcriptional regulator [Transcription]	NA|302aa|up_5|NZ_CP020645.1_1475161_1476067_+	cd11592, Agmatinase_PAH, Agmatinase-like family includes proclavaminic acid amidinohydrolase	NA|264aa|up_4|NZ_CP020645.1_1476093_1476885_+	cd13530, PBP2_peptides_like, Peptide-binding protein and related homologs; type 2 periplasmic binding protein fold	NA|231aa|up_3|NZ_CP020645.1_1476907_1477600_+	COG0765, HisM, ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]	NA|251aa|up_2|NZ_CP020645.1_1477621_1478374_+	COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]	NA|520aa|up_1|NZ_CP020645.1_1478502_1480062_+	PRK07586, PRK07586, acetolactate synthase large subunit	NA|182aa|up_0|NZ_CP020645.1_1480093_1480639_+	cd03454, YdeM, YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function	NA|419aa|down_0|NZ_CP020645.1_1480917_1482174_-	cd01151, GCD, Glutaryl-CoA dehydrogenase	NA|565aa|down_1|NZ_CP020645.1_1482190_1483885_-	PRK08199, PRK08199, thiamine pyrophosphate protein; Validated	NA|296aa|down_2|NZ_CP020645.1_1484042_1484930_+	PRK11139, PRK11139, DNA-binding transcriptional activator GcvA; Provisional	NA|311aa|down_3|NZ_CP020645.1_1484967_1485900_+	PRK00283, xerD, tyrosine recombinase	NA|163aa|down_4|NZ_CP020645.1_1485913_1486402_+	cd00002, YbaK_deacylase, This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins	NA|193aa|down_5|NZ_CP020645.1_1486521_1487100_+	cd03169, GATase1_PfpI_1, Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus	NA|134aa|down_6|NZ_CP020645.1_1487172_1487574_+	COG4321, COG4321, Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]	NA|371aa|down_7|NZ_CP020645.1_1487580_1488693_-	PRK11669, pbpG, D-alanyl-D-alanine endopeptidase; Provisional	NA|401aa|down_8|NZ_CP020645.1_1489379_1490582_+	cd17355, MFS_YcxA_like, MFS-type transporter YcxA and similar proteins of the Major Facilitator Superfamily of transporters	NA|887aa|down_9|NZ_CP020645.1_1490785_1493446_+	TIGR03623, TIGR03623, probable DNA repair protein
GCF_003186595.1_ASM318659v1	NZ_CP020645	Bordetella bronchiseptica strain I943 chromosome, complete genome	7	1759436-1759535	7	CRISPRCasFinder	no		csa3,PD-DExK,RT,DEDDh,DinG,cas3	Orphan	GGACAGGCACCTGCGACCGAGCCAC	25	0	0	NA	NA	NA	1	1	Orphan	csa3,PD-DExK,RT,DEDDh,DinG,cas3	NA,NA	NA|529aa|up_9|NZ_CP020645.1_1748596_1750183_+	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|288aa|up_8|NZ_CP020645.1_1750207_1751071_+	PRK00281, PRK00281, undecaprenyl-diphosphate phosphatase	NA|259aa|up_7|NZ_CP020645.1_1751274_1752051_-	PRK05340, PRK05340, UDP-2,3-diacylglucosamine hydrolase; Provisional	NA|170aa|up_6|NZ_CP020645.1_1752043_1752553_-	PRK10791, PRK10791, peptidylprolyl isomerase B	NA|228aa|up_5|NZ_CP020645.1_1752681_1753365_-	sd00006, TPR, Tetratricopeptide repeat	NA|486aa|up_4|NZ_CP020645.1_1753604_1755062_+	PRK00260, cysS, cysteinyl-tRNA synthetase; Validated	NA|215aa|up_3|NZ_CP020645.1_1755081_1755726_+	COG0122, AlkA, 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]	NA|322aa|up_2|NZ_CP020645.1_1755762_1756728_+	PRK05724, PRK05724, acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated	NA|345aa|up_1|NZ_CP020645.1_1756788_1757823_+	cd01992, PP-ATPase, N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]	NA|431aa|up_0|NZ_CP020645.1_1757895_1759188_+	PRK06635, PRK06635, aspartate kinase; Reviewed	NA|167aa|down_0|NZ_CP020645.1_1759679_1760180_+	cd06991, cupin_TcmJ-like, TcmJ monooxygenase and related proteins, cupin domain	NA|105aa|down_1|NZ_CP020645.1_1760221_1760536_+	pfam07978, NIPSNAP, NIPSNAP	NA|314aa|down_2|NZ_CP020645.1_1760545_1761487_+	PRK06129, PRK06129, 3-hydroxyacyl-CoA dehydrogenase; Validated	NA|175aa|down_3|NZ_CP020645.1_1761483_1762008_+	pfam04290, DctQ, Tripartite ATP-independent periplasmic transporters, DctQ component	NA|423aa|down_4|NZ_CP020645.1_1762010_1763279_+	COG1593, DctQ, TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]	NA|328aa|down_5|NZ_CP020645.1_1763307_1764291_+	cd13603, PBP2_TRAP_Siap_TeaA_like, Substrate-binding domain of a sialic acid binding Tripartite ATP-independent  Periplasmic transport system (SiaP) and related proteins; the type 2 periplasmic-binding protein fold	NA|270aa|down_6|NZ_CP020645.1_1764287_1765097_+	TIGR03611, RutD, pyrimidine utilization protein D	NA|268aa|down_7|NZ_CP020645.1_1765093_1765897_+	PRK13301, PRK13301, putative L-aspartate dehydrogenase; Provisional	NA|256aa|down_8|NZ_CP020645.1_1765911_1766679_+	PRK06138, PRK06138, SDR family oxidoreductase	NA|213aa|down_9|NZ_CP020645.1_1766766_1767405_+	COG1309, AcrR, Transcriptional regulator [Transcription]
GCF_003186595.1_ASM318659v1	NZ_CP020645	Bordetella bronchiseptica strain I943 chromosome, complete genome	8	2252979-2253064	8	CRISPRCasFinder	no		csa3,PD-DExK,RT,DEDDh,DinG,cas3	Orphan	CTGTCCCCGCCGGGACAGGCACAC	24	0	0	NA	NA	NA	1	1	Orphan	csa3,PD-DExK,RT,DEDDh,DinG,cas3	NA,NA	NA|682aa|up_9|NZ_CP020645.1_2244622_2246668_-	pfam04632, FUSC, Fusaric acid resistance protein family	NA|158aa|up_8|NZ_CP020645.1_2246664_2247138_-	PRK03573, PRK03573, transcriptional regulator SlyA; Provisional	NA|207aa|up_7|NZ_CP020645.1_2247390_2248011_-	cd02209, cupin_XRE_C, XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain	NA|267aa|up_6|NZ_CP020645.1_2248146_2248947_+	PRK07090, PRK07090, class II aldolase/adducin domain protein; Provisional	NA|364aa|up_5|NZ_CP020645.1_2249001_2250093_+	cd13682, PBP2_TRAP_alpha-ketoacid, Substrate-binding component of an alpha-keto acid binding Tripartite ATP-independent Periplasmic transporter and related proteins; contains the type 2 periplasmic-binding protein fold	NA|148aa|up_4|NZ_CP020645.1_2250114_2250558_-	pfam01242, PTPS, 6-pyruvoyl tetrahydropterin synthase	NA|211aa|up_3|NZ_CP020645.1_2250586_2251219_-	TIGR04508, queE_Cx14CxxC, 7-carboxy-7-deazaguanine synthase, Cx14CxxC type	NA|139aa|up_2|NZ_CP020645.1_2251329_2251746_+	PRK09256, PRK09256, aminoacyl-tRNA hydrolase	NA|231aa|up_1|NZ_CP020645.1_2251738_2252431_+	pfam09997, DUF2238, Predicted membrane protein (DUF2238)	NA|125aa|up_0|NZ_CP020645.1_2252537_2252912_+	COG3686, COG3686, Predicted membrane protein [Function unknown]	NA|270aa|down_0|NZ_CP020645.1_2253091_2253901_-	COG1414, IclR, Transcriptional regulator [Transcription]	NA|315aa|down_1|NZ_CP020645.1_2253996_2254941_+	cd00408, DHDPS-like, Dihydrodipicolinate synthase family	NA|324aa|down_2|NZ_CP020645.1_2254979_2255951_+	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|146aa|down_3|NZ_CP020645.1_2256041_2256479_-	pfam13620, CarboxypepD_reg, Carboxypeptidase regulatory-like domain	NA|294aa|down_4|NZ_CP020645.1_2256537_2257419_-	pfam05742, TANGO2, Transport and Golgi organisation 2	NA|230aa|down_5|NZ_CP020645.1_2257500_2258190_+	cd03141, GATase1_Hsp31_like, Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein	NA|535aa|down_6|NZ_CP020645.1_2258204_2259809_-	COG0578, GlpA, Glycerol-3-phosphate dehydrogenase [Energy production and conversion]	NA|270aa|down_7|NZ_CP020645.1_2259848_2260658_-	PRK10906, PRK10906, DeoR/GlpR family transcriptional regulator	NA|361aa|down_8|NZ_CP020645.1_2260762_2261845_+	COG3839, MalK, ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]	NA|363aa|down_9|NZ_CP020645.1_2261844_2262933_+	COG3839, MalK, ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
GCF_003186595.1_ASM318659v1	NZ_CP020645	Bordetella bronchiseptica strain I943 chromosome, complete genome	9	3152769-3152892	9	CRISPRCasFinder	no		csa3,PD-DExK,RT,DEDDh,DinG,cas3	Orphan	GCCCCCACGCTGCGCCCGCTACGCGGGCTTGCTGCCCCCC	40	0	0	NA	NA	NA	1	1	Orphan	csa3,PD-DExK,RT,DEDDh,DinG,cas3	NA,NA	NA|621aa|up_9|NZ_CP020645.1_3142686_3144549_-	PRK05183, hscA, chaperone protein HscA; Provisional	NA|171aa|up_8|NZ_CP020645.1_3144678_3145191_-	PRK03578, hscB, Fe-S protein assembly co-chaperone HscB	NA|108aa|up_7|NZ_CP020645.1_3145193_3145517_-	TIGR02011, Protein_yfhF	NA|137aa|up_6|NZ_CP020645.1_3145518_3145929_-	PRK11325, PRK11325, scaffold protein; Provisional	NA|404aa|up_5|NZ_CP020645.1_3145962_3147174_-	PRK14012, PRK14012, IscS subfamily cysteine desulfurase	NA|171aa|up_4|NZ_CP020645.1_3147191_3147704_-	TIGR02010, Putative_HTH-type_transcriptional_regulator, iron-sulfur cluster assembly transcription factor IscR	NA|164aa|up_3|NZ_CP020645.1_3147919_3148411_-	cd16343, LMWPTP, Low molecular weight protein tyrosine phosphatase	NA|676aa|up_2|NZ_CP020645.1_3148672_3150700_-	PRK05298, PRK05298, excinuclease ABC subunit UvrB	NA|401aa|up_1|NZ_CP020645.1_3150777_3151980_+	PRK09257, PRK09257, aromatic amino acid transaminase	NA|243aa|up_0|NZ_CP020645.1_3152030_3152759_+	PRK00215, PRK00215, transcriptional repressor LexA	NA|558aa|down_0|NZ_CP020645.1_3152979_3154653_-	TIGR01414, Contains:_AIDA-I_translocator, outer membrane autotransporter barrel domain	NA|321aa|down_1|NZ_CP020645.1_3154945_3155908_-	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|214aa|down_2|NZ_CP020645.1_3155942_3156584_-	TIGR02428, 3-oxoadipate_CoA-transferase_subunit_B, 3-oxoacid CoA-transferase, B subunit	NA|239aa|down_3|NZ_CP020645.1_3156576_3157293_-	TIGR02429, 3-oxoadipate_CoA-transferase_subunit_A, 3-oxoacid CoA-transferase, A subunit	NA|332aa|down_4|NZ_CP020645.1_3157289_3158285_-	cd00567, ACAD, Acyl-CoA dehydrogenase	NA|388aa|down_5|NZ_CP020645.1_3158306_3159470_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|264aa|down_6|NZ_CP020645.1_3159466_3160258_-	PRK05653, fabG, 3-oxoacyl-ACP reductase FabG	NA|386aa|down_7|NZ_CP020645.1_3160264_3161422_-	PRK06158, PRK06158, thiolase; Provisional	NA|144aa|down_8|NZ_CP020645.1_3161418_3161850_-	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]	NA|266aa|down_9|NZ_CP020645.1_3161846_3162644_-	COG1024, CaiD, Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]
GCF_003186595.1_ASM318659v1	NZ_CP020645	Bordetella bronchiseptica strain I943 chromosome, complete genome	10	3690465-3690573	10	CRISPRCasFinder	no	DEDDh	csa3,PD-DExK,RT,DEDDh,DinG,cas3	Unclear	CCTGCCGACTTCCGGGGTGCCTGTCCC	27	0	0	NA	NA	NA	1	1	Orphan	csa3,PD-DExK,RT,DEDDh,DinG,cas3	NA,NA	NA|363aa|up_9|NZ_CP020645.1_3682161_3683250_-	TIGR02160, 12-phenylacetyl-CoA_epoxidase_subunit_E, phenylacetate-CoA oxygenase/reductase, PaaK subunit	NA|169aa|up_8|NZ_CP020645.1_3683261_3683768_-	TIGR02159, Putative_12-phenylacetyl-CoA_epoxidase_subunit_D, phenylacetate-CoA oxygenase, PaaJ subunit	NA|255aa|up_7|NZ_CP020645.1_3683764_3684529_-	pfam05138, PaaA_PaaC, Phenylacetic acid catabolic protein	NA|95aa|up_6|NZ_CP020645.1_3684544_3684829_-	PRK13781, paaB, phenylacetate-CoA oxygenase subunit PaaB; Provisional	NA|330aa|up_5|NZ_CP020645.1_3684893_3685883_-	PRK13778, paaA, phenylacetate-CoA oxygenase subunit PaaA; Provisional	NA|310aa|up_4|NZ_CP020645.1_3686054_3686984_+	TIGR02277, Transcriptional_repressor_PaaX, phenylacetic acid degradation operon negative regulatory protein PaaX	NA|229aa|up_3|NZ_CP020645.1_3686955_3687642_-	COG0062, COG0062, Uncharacterized conserved protein [Function unknown]	DEDDh|182aa|up_2|NZ_CP020645.1_3687675_3688221_-	PRK05359, PRK05359, oligoribonuclease; Provisional	NA|422aa|up_1|NZ_CP020645.1_3688265_3689531_+	cd07343, M48A_Zmpste24p_like, Peptidase M48 subfamily A, a type 1 CaaX endopeptidase	NA|301aa|up_0|NZ_CP020645.1_3689527_3690430_+	PRK00098, PRK00098, GTPase RsgA; Reviewed	NA|385aa|down_0|NZ_CP020645.1_3690606_3691761_-	cd19094, AKR_Tas-like, Escherichia coli Tas protein and similar proteins	NA|242aa|down_1|NZ_CP020645.1_3691757_3692483_-	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|127aa|down_2|NZ_CP020645.1_3692891_3693272_-	PRK05338, rplS, 50S ribosomal protein L19; Provisional	NA|291aa|down_3|NZ_CP020645.1_3693579_3694452_+	TIGR03340, phn_DUF6, phosphonate utilization associated putative membrane protein	NA|127aa|down_4|NZ_CP020645.1_3694459_3694840_-	PRK12270, kgd, multifunctional oxoglutarate decarboxylase/oxoglutarate dehydrogenase thiamine pyrophosphate-binding subunit/dihydrolipoyllysine-residue succinyltransferase subunit	NA|425aa|down_5|NZ_CP020645.1_3694993_3696268_-	TIGR04470, hypothetical_protein_ALIPUT_00462, radical SAM mobile pair protein B	NA|433aa|down_6|NZ_CP020645.1_3696456_3697755_-	PRK05506, PRK05506, bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional	NA|303aa|down_7|NZ_CP020645.1_3697807_3698716_-	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD	NA|251aa|down_8|NZ_CP020645.1_3698765_3699518_-	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase	NA|355aa|down_9|NZ_CP020645.1_3699514_3700579_-	cd03296, ABC_CysA_sulfate_importer, ATP-binding cassette domain of the sulfate transporter
GCF_003186595.1_ASM318659v1	NZ_CP020645	Bordetella bronchiseptica strain I943 chromosome, complete genome	11	3929514-3929656	11	CRISPRCasFinder	no		csa3,PD-DExK,RT,DEDDh,DinG,cas3	Orphan	GCTCCGGTGGAAACGGCTCCGGTGGAAAC	29	0	0	NA	NA	NA	2	2	Orphan	csa3,PD-DExK,RT,DEDDh,DinG,cas3	NA,NA	NA|353aa|up_9|NZ_CP020645.1_3918727_3919786_-	PRK05331, PRK05331, phosphate acyltransferase PlsX	NA|61aa|up_8|NZ_CP020645.1_3919842_3920025_-	PRK01110, rpmF, 50S ribosomal protein L32; Validated	NA|198aa|up_7|NZ_CP020645.1_3920076_3920670_-	PRK11193, PRK11193, 23S rRNA accumulation protein YceD	NA|200aa|up_6|NZ_CP020645.1_3920778_3921378_+	PRK02141, PRK02141, Maf-like protein; Reviewed	NA|237aa|up_5|NZ_CP020645.1_3921374_3922085_+	cd11649, RsmI_like, uncharacterized subfamily of the tetrapyrrole methylase family similar to Ribosomal RNA small subunit methyltransferase I (RsmI)	NA|276aa|up_4|NZ_CP020645.1_3922086_3922914_+	COG3023, ampD, N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]	NA|221aa|up_3|NZ_CP020645.1_3922910_3923573_-	PRK05419, PRK05419, protein-methionine-sulfoxide reductase heme-binding subunit MsrQ	NA|320aa|up_2|NZ_CP020645.1_3923580_3924540_-	PRK05363, PRK05363, protein-methionine-sulfoxide reductase catalytic subunit MsrP	NA|224aa|up_1|NZ_CP020645.1_3924696_3925368_-	cd07533, HAD_like, uncharacterized family of the haloacid dehalogenase-like (HAD) hydrolase superfamily, similar to Parvibaculum lavamentivorans  HAD-superfamily hydrolase, subfamily IA, variant 1	NA|322aa|up_0|NZ_CP020645.1_3925370_3926336_-	PRK11025, PRK11025, 23S rRNA pseudouridine(955/2504/2580) synthase RluC	NA|356aa|down_0|NZ_CP020645.1_3930086_3931154_-	cd01902, Ntn_CGH, Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile	NA|179aa|down_1|NZ_CP020645.1_3931580_3932117_-	pfam09411, PagL, Lipid A 3-O-deacylase (PagL)	NA|293aa|down_2|NZ_CP020645.1_3932326_3933205_-	PRK05654, PRK05654, acetyl-CoA carboxylase carboxyltransferase subunit beta	NA|286aa|down_3|NZ_CP020645.1_3933241_3934099_-	PRK13111, trpA, tryptophan synthase subunit alpha; Provisional	NA|400aa|down_4|NZ_CP020645.1_3934102_3935302_-	PRK04346, PRK04346, tryptophan synthase subunit beta; Validated	NA|384aa|down_5|NZ_CP020645.1_3935412_3936564_-	PRK07522, PRK07522, acetylornithine deacetylase; Provisional	NA|738aa|down_6|NZ_CP020645.1_3936640_3938854_-	COG0317, SpoT, Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]	NA|278aa|down_7|NZ_CP020645.1_3938937_3939771_+	pfam06167, Peptidase_M90, Glucose-regulated metallo-peptidase M90	NA|170aa|down_8|NZ_CP020645.1_3939767_3940277_+	COG0655, WrbA, Multimeric flavodoxin WrbA [General function prediction only]	NA|117aa|down_9|NZ_CP020645.1_3940435_3940786_-	cd06150, YjgF_YER057c_UK114_like_2, This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function
GCF_003186595.1_ASM318659v1	NZ_CP020645	Bordetella bronchiseptica strain I943 chromosome, complete genome	12	4123245-4123326	12	CRISPRCasFinder	no		csa3,PD-DExK,RT,DEDDh,DinG,cas3	Orphan	CTGTCCCCGCCGGGACAGGCACC	23	0	0	NA	NA	NA	1	1	Orphan	csa3,PD-DExK,RT,DEDDh,DinG,cas3	NA|125aa|up_1|NZ_CP020645.1_4119684_4120059_-,NA|81aa|down_4|NZ_CP020645.1_4127655_4127898_-	NA|327aa|up_9|NZ_CP020645.1_4113004_4113985_-	cd03789, GT9_LPS_heptosyltransferase, lipopolysaccharide heptosyltransferase and similar proteins	NA|419aa|up_8|NZ_CP020645.1_4114183_4115440_-	PRK07006, PRK07006, isocitrate dehydrogenase; Reviewed	NA|142aa|up_7|NZ_CP020645.1_4115642_4116068_+	pfam08897, DUF1841, Domain of unknown function (DUF1841)	NA|121aa|up_6|NZ_CP020645.1_4116118_4116481_-	COG2863, COG2863, Cytochrome c553 [Energy production and conversion]	NA|118aa|up_5|NZ_CP020645.1_4116493_4116847_-	COG2863, COG2863, Cytochrome c553 [Energy production and conversion]	NA|296aa|up_4|NZ_CP020645.1_4117007_4117895_+	COG0714, COG0714, MoxR-like ATPases [General function prediction only]	NA|391aa|up_3|NZ_CP020645.1_4117916_4119089_+	COG3825, COG3825, Uncharacterized protein conserved in bacteria [Function unknown]	NA|185aa|up_2|NZ_CP020645.1_4119092_4119647_-	COG1247, COG1247, Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]	NA|125aa|up_1|NZ_CP020645.1_4119684_4120059_-	NA	NA|917aa|up_0|NZ_CP020645.1_4120392_4123143_+	COG0612, PqqL, Predicted Zn-dependent peptidases [General function prediction only]	NA|374aa|down_0|NZ_CP020645.1_4123333_4124455_-	PRK10767, PRK10767, chaperone protein DnaJ; Provisional	NA|642aa|down_1|NZ_CP020645.1_4124555_4126481_-	PRK00290, dnaK, molecular chaperone DnaK; Provisional	NA|127aa|down_2|NZ_CP020645.1_4126571_4126952_-	cd02947, TRX_family, TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains	NA|185aa|down_3|NZ_CP020645.1_4126959_4127514_-	PRK14139, PRK14139, heat shock protein GrpE; Provisional	NA|81aa|down_4|NZ_CP020645.1_4127655_4127898_-	NA	NA|363aa|down_5|NZ_CP020645.1_4127979_4129068_-	PRK00035, hemH, ferrochelatase; Reviewed	NA|335aa|down_6|NZ_CP020645.1_4129125_4130130_-	PRK00082, hrcA, heat-inducible transcription repressor; Provisional	NA|300aa|down_7|NZ_CP020645.1_4130244_4131144_+	PRK02155, ppnK, NAD kinase	NA|554aa|down_8|NZ_CP020645.1_4131159_4132821_+	COG0497, RecN, ATPase involved in DNA repair [DNA replication, recombination, and repair]	NA|140aa|down_9|NZ_CP020645.1_4133300_4133720_-	pfam01475, FUR, Ferric uptake regulator family
GCF_003186595.1_ASM318659v1	NZ_CP020645	Bordetella bronchiseptica strain I943 chromosome, complete genome	13	4475169-4475262	13	CRISPRCasFinder	no	DEDDh	csa3,PD-DExK,RT,DEDDh,DinG,cas3	Unclear	GTGCCTGTCCCCGCCGGGACAGGCAC	26	0	0	NA	NA	NA	1	1	Orphan	csa3,PD-DExK,RT,DEDDh,DinG,cas3	NA,NA	NA|398aa|up_9|NZ_CP020645.1_4463620_4464814_-	PRK06954, PRK06954, acetyl-CoA C-acetyltransferase	NA|343aa|up_8|NZ_CP020645.1_4464880_4465909_-	pfam00441, Acyl-CoA_dh_1, Acyl-CoA dehydrogenase, C-terminal domain	NA|387aa|up_7|NZ_CP020645.1_4465935_4467096_-	cd01152, ACAD_fadE6_17_26, Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26	NA|326aa|up_6|NZ_CP020645.1_4467233_4468211_+	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_5|NZ_CP020645.1_4468221_4469193_-	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_4|NZ_CP020645.1_4469259_4470045_-	PRK09245, PRK09245, crotonase/enoyl-CoA hydratase family protein	NA|411aa|up_3|NZ_CP020645.1_4470037_4471270_-	pfam02515, CoA_transf_3, CoA-transferase family III	NA|252aa|up_2|NZ_CP020645.1_4471466_4472222_-	COG0861, TerC, Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]	NA|173aa|up_1|NZ_CP020645.1_4472332_4472851_+	COG1285, SapB, Uncharacterized membrane protein [Function unknown]	NA|708aa|up_0|NZ_CP020645.1_4472847_4474971_-	PRK00007, PRK00007, elongation factor G; Reviewed	NA|157aa|down_0|NZ_CP020645.1_4475334_4475805_-	pfam00582, Usp, Universal stress protein family	NA|115aa|down_1|NZ_CP020645.1_4475893_4476238_-	COG3453, COG3453, Uncharacterized protein conserved in bacteria [Function unknown]	NA|467aa|down_2|NZ_CP020645.1_4476337_4477738_-	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|305aa|down_3|NZ_CP020645.1_4477926_4478841_+	COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]	NA|220aa|down_4|NZ_CP020645.1_4478837_4479497_+	COG1280, RhtB, Putative threonine efflux protein [Amino acid transport and metabolism]	NA|308aa|down_5|NZ_CP020645.1_4479586_4480510_+	pfam12146, Hydrolase_4, Serine aminopeptidase, S33	NA|152aa|down_6|NZ_CP020645.1_4480515_4480971_-	COG4125, COG4125, Predicted membrane protein [Function unknown]	NA|368aa|down_7|NZ_CP020645.1_4480967_4482071_-	cd10807, YdjC_like_3, uncharacterized YdjC-like family proteins from bacteria	NA|90aa|down_8|NZ_CP020645.1_4482029_4482299_+	pfam04138, GtrA, GtrA-like protein	NA|540aa|down_9|NZ_CP020645.1_4482258_4483878_-	COG1807, ArnT, 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]
GCF_003186595.1_ASM318659v1	NZ_CP020645	Bordetella bronchiseptica strain I943 chromosome, complete genome	14	4749320-4749489	14	CRISPRCasFinder	no		csa3,PD-DExK,RT,DEDDh,DinG,cas3	Orphan	GGGTGCCTGTCCCCGCGGGGACAG	24	0	0	NA	NA	NA	3	3	Orphan	csa3,PD-DExK,RT,DEDDh,DinG,cas3	NA,NA	NA|429aa|up_9|NZ_CP020645.1_4741327_4742614_-	pfam00034, Cytochrom_C, Cytochrome c	NA|251aa|up_8|NZ_CP020645.1_4742624_4743377_-	COG2863, COG2863, Cytochrome c553 [Energy production and conversion]	NA|291aa|up_7|NZ_CP020645.1_4743548_4744421_+	PRK05416, PRK05416, RNase adapter RapZ	NA|317aa|up_6|NZ_CP020645.1_4744417_4745368_+	COG0797, RlpA, Lipoproteins [Cell envelope biogenesis, outer membrane]	NA|191aa|up_5|NZ_CP020645.1_4745364_4745937_-	COG0350, Ada, Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]	NA|313aa|up_4|NZ_CP020645.1_4745933_4746872_-	COG0313, COG0313, Predicted methyltransferases [General function prediction only]	NA|178aa|up_3|NZ_CP020645.1_4746938_4747472_+	PRK14685, PRK14685, hypothetical protein; Provisional	NA|201aa|up_2|NZ_CP020645.1_4747471_4748074_+	PRK13936, PRK13936, phosphoheptose isomerase; Provisional	NA|248aa|up_1|NZ_CP020645.1_4748070_4748814_+	PRK11023, PRK11023, divisome-associated lipoprotein YraP	NA|164aa|up_0|NZ_CP020645.1_4748810_4749302_+	cd02966, TlpA_like_family, TlpA-like family; composed of  TlpA, ResA, DsbE and similar proteins	NA|263aa|down_0|NZ_CP020645.1_4749503_4750292_-	COG1464, NlpA, ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]	NA|301aa|down_1|NZ_CP020645.1_4750553_4751456_+	PRK00942, PRK00942, acetylglutamate kinase; Provisional	NA|249aa|down_2|NZ_CP020645.1_4751455_4752202_+	cd02604, HAD_5NT, haloacid dehalogenase (HAD)-like 5'-nucleotidases similar to Saccharomyces cerevisiae Phm8p and Sdt1p	NA|192aa|down_3|NZ_CP020645.1_4752251_4752827_+	PRK09480, slmA, division inhibitor protein; Provisional	NA|498aa|down_4|NZ_CP020645.1_4753039_4754533_+	pfam00939, Na_sulph_symp, Sodium:sulfate symporter transmembrane region	NA|352aa|down_5|NZ_CP020645.1_4754543_4755599_+	pfam02615, Ldh_2, Malate/L-lactate dehydrogenase	NA|379aa|down_6|NZ_CP020645.1_4755624_4756761_-	TIGR02210, Rod_shape-determining_protein_RodA, rod shape-determining protein RodA	NA|651aa|down_7|NZ_CP020645.1_4756757_4758710_-	TIGR03423, pbp2_mrdA, penicillin-binding protein 2	NA|188aa|down_8|NZ_CP020645.1_4758723_4759287_-	TIGR03426, shape_MreD, rod shape-determining protein MreD	NA|295aa|down_9|NZ_CP020645.1_4759273_4760158_-	PRK13922, PRK13922, rod shape-determining protein MreC; Provisional
GCF_003186595.1_ASM318659v1	NZ_CP020645	Bordetella bronchiseptica strain I943 chromosome, complete genome	15	4814590-4814676	15	CRISPRCasFinder	no		csa3,PD-DExK,RT,DEDDh,DinG,cas3	Orphan	CTGTCCCCGCCGGGACAGGCACACT	25	1	4	4814615-4814651|4814615-4814651|4814615-4814651|4814615-4814651	NZ_CP020645.1_693175-693139|NZ_CP020645.1_1566012-1566048|NZ_CP020645.1_2548693-2548657|NZ_CP020645.1_1496928-1496892	NA	1	1	Orphan	csa3,PD-DExK,RT,DEDDh,DinG,cas3	NA,NA|79aa|down_8|NZ_CP020645.1_4823342_4823579_+	NA|382aa|up_9|NZ_CP020645.1_4803471_4804617_+	cd19988, PBP1_ABC_HAAT-like, type 1 periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems predicted to be involved in uptake of amino acids or peptides	NA|443aa|up_8|NZ_CP020645.1_4804691_4806020_+	COG0154, GatA, Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]	NA|197aa|up_7|NZ_CP020645.1_4806053_4806644_-	COG5553, COG5553, Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]	NA|265aa|up_6|NZ_CP020645.1_4806933_4807728_+	COG1414, IclR, Transcriptional regulator [Transcription]	NA|387aa|up_5|NZ_CP020645.1_4807744_4808905_+	pfam02515, CoA_transf_3, CoA-transferase family III	NA|245aa|up_4|NZ_CP020645.1_4808901_4809636_+	cd06558, crotonase-like, Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily	NA|312aa|up_3|NZ_CP020645.1_4809642_4810578_-	pfam05275, CopB, Copper resistance protein B precursor (CopB)	NA|592aa|up_2|NZ_CP020645.1_4810624_4812400_-	TIGR01480, unnamed_protein_product, copper-resistance protein, CopA family	NA|168aa|up_1|NZ_CP020645.1_4812442_4812946_-	cd04211, Cupredoxin_like_2, Uncharacterized Cupredoxin-like subfamily	NA|327aa|up_0|NZ_CP020645.1_4813460_4814441_+	COG3245, CycB, Cytochrome c5 [Energy production and conversion]	NA|505aa|down_0|NZ_CP020645.1_4814729_4816244_-	PRK08268, PRK08268, 3-hydroxy-acyl-CoA dehydrogenase; Validated	NA|410aa|down_1|NZ_CP020645.1_4816327_4817557_-	COG1804, CaiB, Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]	NA|383aa|down_2|NZ_CP020645.1_4817669_4818818_-	cd01158, SCAD_SBCAD, Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases	NA|221aa|down_3|NZ_CP020645.1_4818862_4819525_-	pfam17932, TetR_C_24, Tetracyclin repressor-like, C-terminal domain	NA|331aa|down_4|NZ_CP020645.1_4819638_4820631_+	COG2070, COG2070, Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]	NA|246aa|down_5|NZ_CP020645.1_4820627_4821365_+	PRK06688, PRK06688, enoyl-CoA hydratase; Provisional	NA|274aa|down_6|NZ_CP020645.1_4821444_4822266_-	PRK07327, PRK07327, enoyl-CoA hydratase/isomerase family protein	NA|287aa|down_7|NZ_CP020645.1_4822354_4823215_+	cd01171, YXKO-related, B	NA|79aa|down_8|NZ_CP020645.1_4823342_4823579_+	NA	NA|543aa|down_9|NZ_CP020645.1_4823875_4825504_+	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
GCF_003186595.1_ASM318659v1	NZ_CP020645	Bordetella bronchiseptica strain I943 chromosome, complete genome	16	4938791-4938903	16	CRISPRCasFinder	no		csa3,PD-DExK,RT,DEDDh,DinG,cas3	Orphan	GTGCCTGTCCCCGCGGGGACAGGCACACCGCCGTGACGGCCA	42	0	0	NA	NA	NA	1	1	Orphan	csa3,PD-DExK,RT,DEDDh,DinG,cas3	NA,NA|132aa|down_8|NZ_CP020645.1_4947504_4947900_+	NA|608aa|up_9|NZ_CP020645.1_4926318_4928142_-	cd03219, ABC_Mj1267_LivG_branched, ATP-binding cassette component of branched chain amino acids transport system	NA|295aa|up_8|NZ_CP020645.1_4928138_4929023_-	cd06582, TM_PBP1_LivH_like, Transmembrane subunit (TM) of Escherichia coli LivH and related proteins	NA|403aa|up_7|NZ_CP020645.1_4929092_4930301_-	cd06335, PBP1_ABC_ligand_binding-like, type 1 periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems predicted to be involved in transport of amino acids, peptides, or inorganic ions	NA|466aa|up_6|NZ_CP020645.1_4930375_4931773_-	pfam03972, MmgE_PrpD, MmgE/PrpD family	NA|498aa|up_5|NZ_CP020645.1_4931793_4933287_-	PRK06145, PRK06145, acyl-CoA synthetase; Validated	NA|392aa|up_4|NZ_CP020645.1_4933366_4934542_-	COG1960, CaiA, Acyl-CoA dehydrogenases [Lipid metabolism]	NA|422aa|up_3|NZ_CP020645.1_4934547_4935813_-	PRK11856, PRK11856, branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed	NA|262aa|up_2|NZ_CP020645.1_4935816_4936602_-	COG1024, CaiD, Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]	NA|325aa|up_1|NZ_CP020645.1_4936616_4937591_-	COG0022, AcoB, Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]	NA|324aa|up_0|NZ_CP020645.1_4937592_4938564_-	cd02000, TPP_E1_PDC_ADC_BCADC, Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain alpha-keto acid dehydrogenase/2-oxoisovalerate dehydrogenase complex (BCADC)	NA|262aa|down_0|NZ_CP020645.1_4938993_4939779_-	COG1414, IclR, Transcriptional regulator [Transcription]	NA|259aa|down_1|NZ_CP020645.1_4939855_4940632_-	cd06558, crotonase-like, Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily	NA|711aa|down_2|NZ_CP020645.1_4940628_4942761_-	TIGR02717, Uncharacterized_protein_MJ0590, acetyl coenzyme A synthetase (ADP forming), alpha domain	NA|331aa|down_3|NZ_CP020645.1_4942762_4943755_-	cd13578, PBP2_Bug27, Aromatic solutes transporter of Bug (Bordetella uptake gene) protein family;  contains the type 2 periplasmic binding fold	NA|383aa|down_4|NZ_CP020645.1_4944002_4945151_+	cd01158, SCAD_SBCAD, Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases	NA|269aa|down_5|NZ_CP020645.1_4945147_4945954_+	COG1024, CaiD, Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]	NA|385aa|down_6|NZ_CP020645.1_4945950_4947105_+	cd00829, SCP-x_thiolase, Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2  has multiple roles in intracellular lipid circulation and metabolism	NA|134aa|down_7|NZ_CP020645.1_4947106_4947508_+	COG1545, COG1545, Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]	NA|132aa|down_8|NZ_CP020645.1_4947504_4947900_+	NA	NA|131aa|down_9|NZ_CP020645.1_4947896_4948289_+	cd03441, R_hydratase_like, (R)-hydratase [(R)-specific enoyl-CoA hydratase]
