The following contents displays predicted prophage regions
first line of each prophage describes the prophage information and the following lines describe the proteins and homology proteins in uniprot database
bacteria_id bac_def genome_size prophage_start  prophage_end    key_proteins    best_hit_species    CDS_number  attl_region attr_region
>prophage 1
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	27282	122072	4103789	transposase,tRNA,protease	Planktothrix_phage(25.0%)	94	NA	NA
AUK91816.1|27282_28185_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK91817.1|28314_28614_-	hypothetical protein	NA	NA	NA	NA	NA
AUK91818.1|28674_29109_-	hypothetical protein	NA	NA	NA	NA	NA
AUK91819.1|29141_30359_-	thiolase	NA	NA	NA	NA	NA
AUK91820.1|30364_30862_-	dehydratase	NA	NA	NA	NA	NA
AUK91821.1|31069_32005_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK95151.1|32214_33006_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUK91822.1|33048_34470_+	2-methylcitrate dehydratase	NA	NA	NA	NA	NA
AUK91823.1|35571_36762_-	MFS transporter	NA	NA	NA	NA	NA
AUK91824.1|37011_37923_+|tRNA	glycine--tRNA ligase subunit alpha	tRNA	NA	NA	NA	NA
AUK91825.1|37924_40063_+|tRNA	glycine--tRNA ligase subunit beta	tRNA	NA	NA	NA	NA
AUK91826.1|40059_40599_+	D-glycero-beta-D-manno-heptose-1,7-bisphosphate 7-phosphatase	NA	NA	NA	NA	NA
AUK91827.1|40602_41331_+	1-acyl-sn-glycerol-3-phosphate acyltransferase	NA	NA	NA	NA	NA
AUK91828.1|41317_42211_+	hypothetical protein	NA	NA	NA	NA	NA
AUK91829.1|42281_42677_+	lactoylglutathione lyase	NA	NA	NA	NA	NA
AUK91830.1|42686_43217_+	peptide deformylase	NA	E3SLL2	Synechococcus_phage	35.4	3.7e-12
AUK91831.1|43345_43525_-	hypothetical protein	NA	NA	NA	NA	NA
AUK91832.1|43662_44613_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK95152.1|45223_45748_+	hypothetical protein	NA	NA	NA	NA	NA
AUK91833.1|45719_45956_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA	NA
AUK91834.1|46083_46977_+	hypothetical protein	NA	NA	NA	NA	NA
AUK91835.1|48146_49394_+	homoserine O-acetyltransferase	NA	NA	NA	NA	NA
AUK91836.1|49390_50005_+	methionine biosynthesis protein MetW	NA	NA	NA	NA	NA
AUK91837.1|50188_51091_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK91838.1|51133_52390_+	muropeptide transporter AmpG	NA	NA	NA	NA	NA
AUK91839.1|53621_54356_-	glutamate racemase	NA	NA	NA	NA	NA
AUK91840.1|54361_54952_-	arginine transporter ATP-binding subunit	NA	G9BWD6	Planktothrix_phage	33.6	3.2e-20
AUK91841.1|54976_55666_-	amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUK91842.1|55662_56424_-	glutamate ABC transporter permease	NA	NA	NA	NA	NA
AUK91843.1|56503_57403_-	amino acid ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK91844.1|57496_58447_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK91845.1|59247_60474_-	serine kinase HipA	NA	NA	NA	NA	NA
AUK91846.1|60473_60893_-	transcriptional regulator	NA	NA	NA	NA	NA
AUK95153.1|61076_62018_-	hypothetical protein	NA	NA	NA	NA	NA
AUK91847.1|62441_63416_-	hypothetical protein	NA	NA	NA	NA	NA
AUK91848.1|63472_64054_-|protease	protease	protease	NA	NA	NA	NA
AUK91849.1|64066_64369_-	ferredoxin	NA	NA	NA	NA	NA
AUK91850.1|64487_65546_-	oxidoreductase	NA	NA	NA	NA	NA
AUK91851.1|65580_66852_-	hypothetical protein	NA	NA	NA	NA	NA
AUK91852.1|66882_67137_-	hypothetical protein	NA	NA	NA	NA	NA
AUK91853.1|67481_68663_-	hypothetical protein	NA	NA	NA	NA	NA
AUK91854.1|69132_70035_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK91855.1|70128_70443_+|transposase	transposase	transposase	NA	NA	NA	NA
AUK91856.1|71635_73543_+	molecular chaperone HtpG	NA	A0A1B1ISV4	uncultured_Mediterranean_phage	37.2	1.1e-117
AUK91857.1|73704_74325_-	glutathione S-transferase	NA	NA	NA	NA	NA
AUK91858.1|74356_74938_-	N-acetylmuramoyl-L-alanine amidase	NA	A0A1W6DX33	Sphingobium_phage	54.3	1.7e-05
AUK91859.1|75026_75278_-	hypothetical protein	NA	NA	NA	NA	NA
AUK91860.1|75279_76122_-	hypothetical protein	NA	NA	NA	NA	NA
AUK91861.1|76227_77637_+	signal recognition particle protein	NA	NA	NA	NA	NA
AUK91862.1|77633_78584_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK95154.1|78658_79603_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK91863.1|79599_81474_-	polysaccharide biosynthesis protein	NA	A0A2P1ELS8	Moumouvirus	26.9	2.0e-23
AUK91864.1|82821_83526_-	lipopolysaccharide biosynthesis protein	NA	NA	NA	NA	NA
AUK91865.1|83522_84629_-	glycosyl transferase	NA	NA	NA	NA	NA
AUK91866.1|84890_85484_-	sugar transferase	NA	NA	NA	NA	NA
AUK91867.1|85480_86668_-	UDP-4-amino-4, 6-dideoxy-N-acetyl-beta-L-altrosamine transaminase	NA	NA	NA	NA	NA
AUK91868.1|86730_87990_-	glycosyltransferase WbuB	NA	NA	NA	NA	NA
AUK91869.1|88013_89102_-	UDP-N-acetylglucosamine 2-epimerase	NA	A0A0N9R0B2	Chrysochromulina_ericina_virus	36.3	4.8e-46
AUK91870.1|89109_90210_-	aminotransferase DegT	NA	A0A2K9L0G1	Tupanvirus	29.7	3.3e-31
AUK91871.1|90213_90789_-	N-acetyltransferase	NA	NA	NA	NA	NA
AUK91872.1|90792_91845_-	oxidoreductase	NA	NA	NA	NA	NA
AUK91873.1|91975_92983_+	lipopolysaccharide heptosyltransferase I	NA	NA	NA	NA	NA
AUK91874.1|92984_94271_+	3-deoxy-D-manno-octulosonic acid transferase	NA	NA	NA	NA	NA
AUK91875.1|94287_94443_-	hypothetical protein	NA	NA	NA	NA	NA
AUK91876.1|94467_95271_-	pantothenate kinase	NA	NA	NA	NA	NA
AUK91877.1|95267_96134_-	biotin--[acetyl-CoA-carboxylase] ligase	NA	NA	NA	NA	NA
AUK91878.1|96208_97339_+	ABC transporter permease	NA	NA	NA	NA	NA
AUK91879.1|97338_98178_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	32.4	9.1e-21
AUK91880.1|98331_98799_-	hypothetical protein	NA	NA	NA	NA	NA
AUK91881.1|98888_99110_+	hypothetical protein	NA	NA	NA	NA	NA
AUK91882.1|99110_99713_+	hypothetical protein	NA	NA	NA	NA	NA
AUK91883.1|99742_100396_+	alpha/beta hydrolase	NA	NA	NA	NA	NA
AUK95155.1|100606_101785_+	peptidase	NA	B6DZZ7	Stx2-converting_phage	40.5	5.8e-66
AUK91884.1|101865_102732_+	D-amino acid aminotransferase	NA	NA	NA	NA	NA
AUK91885.1|102807_103083_+	DUF493 domain-containing protein	NA	NA	NA	NA	NA
AUK91886.1|103090_103753_+	octanoyltransferase	NA	NA	NA	NA	NA
AUK91887.1|103814_104816_+	lipoyl synthase	NA	NA	NA	NA	NA
AUK91888.1|104830_105379_-	dTDP-4-dehydrorhamnose 3,5-epimerase	NA	A0A291LA62	Escherichia_phage	53.4	3.7e-47
AUK91889.1|105436_106333_-	dTDP-4-dehydrorhamnose reductase	NA	NA	NA	NA	NA
AUK91890.1|106329_107391_-	dTDP-glucose 4,6-dehydratase	NA	A0A1D7XFE8	Escherichia_phage	44.8	1.6e-78
AUK91891.1|107426_108329_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK91892.1|109276_110470_+	cystathionine beta-lyase	NA	NA	NA	NA	NA
AUK91893.1|110551_111181_-	thiol:disulfide interchange protein	NA	NA	NA	NA	NA
AUK91894.1|111242_111926_-	cell division protein	NA	NA	NA	NA	NA
AUK91895.1|111935_113618_-|tRNA	arginine--tRNA ligase	tRNA	NA	NA	NA	NA
AUK95156.1|113905_114253_+	hypothetical protein	NA	NA	NA	NA	NA
AUK91896.1|114343_114661_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95157.1|114943_115960_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUK91897.1|116035_116836_-	ABC transporter permease	NA	NA	NA	NA	NA
AUK91898.1|116832_117708_-	ABC transporter permease	NA	NA	NA	NA	NA
AUK91899.1|117718_119011_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK91900.1|119053_120094_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	33.7	6.0e-22
AUK91901.1|120199_121021_-	phosphodiesterase	NA	NA	NA	NA	NA
AUK91902.1|121121_122072_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 2
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	232711	307007	4103789	transposase	uncultured_Mediterranean_phage(15.38%)	58	NA	NA
AUK92010.1|232711_233614_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92011.1|233610_234801_-	voltage-gated potassium channel TrkA	NA	NA	NA	NA	NA
AUK92012.1|234922_235687_-	phytanoyl-CoA dioxygenase	NA	NA	NA	NA	NA
AUK92013.1|235773_236877_-	AI-2E family transporter	NA	NA	NA	NA	NA
AUK95166.1|237068_238085_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUK92014.1|238366_238855_+	ADP-heptose synthase	NA	A0A1B1IUK5	uncultured_Mediterranean_phage	34.1	1.6e-17
AUK92015.1|238875_239835_-	hypothetical protein	NA	NA	NA	NA	NA
AUK92016.1|239835_240171_-	hypothetical protein	NA	NA	NA	NA	NA
AUK92017.1|240198_240879_-	protein-L-isoaspartate O-methyltransferase	NA	A0A1B1IU40	uncultured_Mediterranean_phage	34.8	3.5e-15
AUK92018.1|240940_241792_-	bifunctional hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase	NA	NA	NA	NA	NA
AUK92019.1|241788_242586_-	thiazole synthase	NA	NA	NA	NA	NA
AUK92020.1|242689_243583_-	cobalamin-binding protein	NA	NA	NA	NA	NA
AUK92021.1|243594_245484_-	hypothetical protein	NA	A0A0P0I887	Acinetobacter_phage	30.8	7.6e-07
AUK92022.1|245820_249594_+	methionine synthase	NA	A0A140XBC7	Dickeya_phage	50.8	8.6e-10
AUK92023.1|249590_250493_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92024.1|250849_251542_-	3,4-dihydroxy-2-butanone-4-phosphate synthase	NA	A0A2H4PQS2	Staphylococcus_phage	41.6	6.3e-36
AUK92025.1|251915_252416_-	SET domain-containing protein-lysine N-methyltransferase	NA	NA	NA	NA	NA
AUK92026.1|252522_253443_+	bestrophin	NA	NA	NA	NA	NA
AUK92027.1|253459_253936_-	AsnC family transcriptional regulator	NA	NA	NA	NA	NA
AUK95167.1|254038_255880_+	acetolactate synthase, large subunit, biosynthetic type	NA	E4WLQ6	Ostreococcus_tauri_virus	30.4	2.2e-59
AUK92028.1|255935_256694_-	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
AUK92029.1|256721_258155_-	aldehyde dehydrogenase	NA	NA	NA	NA	NA
AUK92030.1|258228_259008_-	gluconate 5-dehydrogenase	NA	NA	NA	NA	NA
AUK92031.1|259020_259854_-	ABC transporter permease	NA	NA	NA	NA	NA
AUK92032.1|259862_260633_-	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	33.9	8.1e-24
AUK92033.1|260632_261697_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK92034.1|261848_264476_-	DNA topoisomerase III	NA	A0A0G2YA05	Acanthamoeba_polyphaga_mimivirus	25.4	6.1e-23
AUK92035.1|264539_267161_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92036.1|268088_268547_-	hypothetical protein	NA	NA	NA	NA	NA
AUK92037.1|268825_271069_-	TonB-dependent receptor	NA	NA	NA	NA	NA
AUK92038.1|271265_273290_-	C4-dicarboxylate ABC transporter permease	NA	NA	NA	NA	NA
AUK92039.1|273413_274376_-	immunogenic protein	NA	NA	NA	NA	NA
AUK92040.1|274587_275727_+	alanine racemase	NA	NA	NA	NA	NA
AUK92041.1|275749_276715_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK92042.1|276910_278101_+	acetylornithine transaminase	NA	A0A1V0SKB7	Klosneuvirus	26.7	4.4e-21
AUK92043.1|278114_278360_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92044.1|278388_280410_-	3-methylcrotonyl-CoA carboxylase	NA	NA	NA	NA	NA
AUK95168.1|280456_282064_-	methylcrotonoyl-CoA carboxylase	NA	A0A1B2ITV7	Pike_perch_iridovirus	57.3	5.4e-22
AUK92045.1|282164_283334_-	acetyl-CoA acetyltransferase	NA	NA	NA	NA	NA
AUK92046.1|286215_287166_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92047.1|287189_288248_-	Zn-dependent hydrolase	NA	NA	NA	NA	NA
AUK92048.1|288322_288697_+	MerR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92049.1|288910_289255_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92050.1|289251_290202_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92051.1|291758_292604_-	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUK92052.1|292691_293855_-	alpha-hydroxy-acid oxidizing enzyme	NA	NA	NA	NA	NA
AUK95169.1|293985_294189_-	hypothetical protein	NA	NA	NA	NA	NA
AUK95170.1|294273_295245_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK92053.1|295283_296711_-	amidase	NA	NA	NA	NA	NA
AUK92054.1|296830_297622_+	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92055.1|297740_300194_-	DNA gyrase subunit B	NA	G3M9Z3	Bacillus_virus	34.8	2.3e-112
AUK92056.1|300288_301398_-	DNA polymerase III subunit beta	NA	B4UTW9	Rhizobium_phage	32.6	1.2e-41
AUK92057.1|301400_302810_-	chromosomal replication initiation protein DnaA	NA	NA	NA	NA	NA
AUK92058.1|303215_303350_+	50S ribosomal protein L34	NA	NA	NA	NA	NA
AUK92059.1|303445_303817_+	ribonuclease P protein component	NA	NA	NA	NA	NA
AUK92060.1|303813_304086_+	membrane protein insertion efficiency factor YidD	NA	A0A2H4PQM5	Staphylococcus_phage	52.2	7.0e-15
AUK92061.1|304134_305826_+	membrane protein insertase YidC	NA	NA	NA	NA	NA
AUK92062.1|306056_307007_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 5
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	595151	659614	4103789	transposase,tRNA	Pandoravirus(16.67%)	51	NA	NA
AUK92306.1|595151_596141_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92307.1|596380_596629_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92308.1|596665_597799_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92309.1|597897_598848_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92310.1|600070_600973_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92311.1|600974_601829_-	formyltetrahydrofolate deformylase	NA	NA	NA	NA	NA
AUK92312.1|601875_602985_-	FAD-dependent oxidoreductase	NA	NA	NA	NA	NA
AUK92313.1|602995_603514_-	flavin reductase	NA	NA	NA	NA	NA
AUK92314.1|603543_604176_-	pyridoxamine 5'-phosphate oxidase	NA	NA	NA	NA	NA
AUK92315.1|604247_604907_-	gamma-glutamylcyclotransferase	NA	NA	NA	NA	NA
AUK92316.1|604903_606043_-	MFS transporter	NA	NA	NA	NA	NA
AUK92317.1|606392_607265_+|tRNA	tRNA threonylcarbamoyladenosine dehydratase	tRNA	NA	NA	NA	NA
AUK92318.1|607420_608158_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92319.1|608160_609792_-	acyl-CoA synthetase	NA	NA	NA	NA	NA
AUK95190.1|609887_610877_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK92320.1|610873_611584_+	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUK95191.1|611679_612696_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUK92321.1|612967_613594_-	aminotransferase	NA	NA	NA	NA	NA
AUK92322.1|613649_614777_-	aminodeoxychorismate synthase, component I	NA	S4VT78	Pandoravirus	37.8	3.8e-38
AUK92323.1|614782_620500_-	excinuclease ABC subunit A	NA	A0A1B1IVR3	uncultured_Mediterranean_phage	39.5	1.0e-195
AUK92324.1|620828_620999_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92325.1|621067_622012_-	LysR family transcriptional regulator	NA	A0A2P0ZL89	Lactobacillus_phage	23.2	8.4e-07
AUK92326.1|622200_623136_+	glycosyl transferase	NA	NA	NA	NA	NA
AUK92327.1|623253_624825_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK92328.1|624904_626113_+	ABC transporter permease	NA	NA	NA	NA	NA
AUK95192.1|626661_627528_+	EamA family transporter	NA	NA	NA	NA	NA
AUK92329.1|629888_630110_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95193.1|630440_631457_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUK92330.1|631541_631793_-	cell division topological specificity factor MinE	NA	NA	NA	NA	NA
AUK92331.1|631796_632612_-	septum site-determining protein MinD	NA	NA	NA	NA	NA
AUK92332.1|632724_633603_-	septum site-determining protein MinC	NA	NA	NA	NA	NA
AUK92333.1|633714_635478_-|tRNA	glutamine--tRNA ligase	tRNA	A0A222YZ70	Escherichia_phage	50.0	5.0e-162
AUK92334.1|635593_636934_+	cytochrome ubiquinol oxidase subunit I	NA	NA	NA	NA	NA
AUK92335.1|638003_639428_-	ATPase	NA	NA	NA	NA	NA
AUK92336.1|639427_640129_-	two-component system response regulator OmpR	NA	W8CYM9	Bacillus_phage	36.6	5.6e-32
AUK92337.1|641681_642584_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK95194.1|642679_643651_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK92338.1|643655_644336_-	hypothetical protein	NA	NA	NA	NA	NA
AUK92339.1|644473_644866_+	osmotically inducible protein OsmC	NA	NA	NA	NA	NA
AUK95195.1|644973_645990_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUK92340.1|646229_647015_-	enoyl-[acyl-carrier-protein] reductase	NA	NA	NA	NA	NA
AUK92341.1|647109_648519_-	lytic transglycosylase	NA	NA	NA	NA	NA
AUK92342.1|648529_649330_-	hydroxyacylglutathione hydrolase	NA	NA	NA	NA	NA
AUK92343.1|649350_650121_+	SAM-dependent methyltransferase	NA	NA	NA	NA	NA
AUK92344.1|650163_650631_+	ribonuclease HI	NA	J9Q745	Salmonella_phage	50.7	5.6e-36
AUK92345.1|650627_651578_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92346.1|651659_653180_-	hypothetical protein	NA	NA	NA	NA	NA
AUK92347.1|653158_653491_-	hypothetical protein	NA	NA	NA	NA	NA
AUK92348.1|653526_654405_-	fatty acid desaturase	NA	NA	NA	NA	NA
AUK92349.1|655331_658310_-	hypothetical protein	NA	NA	NA	NA	NA
AUK92350.1|658711_659614_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 6
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	694423	771732	4103789	transposase,tRNA,integrase,protease	Bacillus_phage(20.0%)	59	741560:741578	761448:761466
AUK92382.1|694423_695326_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92383.1|695472_696948_-	microcystin degradation protein MlrC	NA	NA	NA	NA	NA
AUK92384.1|698535_699423_-	peptide ABC transporter permease	NA	NA	NA	NA	NA
AUK92385.1|699425_700367_-	peptide ABC transporter	NA	NA	NA	NA	NA
AUK92386.1|700412_701978_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK92387.1|702265_703480_-	methylmalonate-semialdehyde dehydrogenase (acylating)	NA	NA	NA	NA	NA
AUK92388.1|703755_705081_-	aspartate aminotransferase family protein	NA	NA	NA	NA	NA
AUK92389.1|705263_706721_+	GntR family transcriptional regulator	NA	A0A1X9I5H2	Streptococcus_phage	21.1	7.6e-15
AUK92390.1|706684_707182_-	dihydrofolate reductase	NA	A0A140HLG8	Bacillus_phage	38.9	3.0e-24
AUK92391.1|707212_708184_-	thymidylate synthase	NA	J7KKN7	Erwinia_phage	33.3	4.8e-50
AUK95196.1|708236_708668_-	peroxiredoxin	NA	NA	NA	NA	NA
AUK92392.1|708797_709466_+	demethoxyubiquinone hydroxylase family protein	NA	NA	NA	NA	NA
AUK92393.1|710194_711298_+	glycosyl transferase	NA	NA	NA	NA	NA
AUK92394.1|711403_712678_+	Vi polysaccharide biosynthesis protein VipA/TviB	NA	NA	NA	NA	NA
AUK92395.1|712689_713715_+	LPS biosynthesis protein WbpP	NA	A0A2K9L4U8	Tupanvirus	44.2	4.7e-72
AUK92396.1|713716_715087_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92397.1|715087_716224_+	glycosyl transferase	NA	NA	NA	NA	NA
AUK92398.1|716270_718196_+	asparagine synthase (glutamine-hydrolyzing)	NA	A0A2K9R7N5	Dishui_lake_phycodnavirus	29.0	1.0e-27
AUK92399.1|718192_719314_+	glycosyl transferase	NA	NA	NA	NA	NA
AUK92400.1|719310_720465_+	glycosyl transferase	NA	NA	NA	NA	NA
AUK92401.1|720461_721592_+	glycosyltransferase family 1 protein	NA	NA	NA	NA	NA
AUK92402.1|721599_723165_-	glucose-6-phosphate isomerase	NA	NA	NA	NA	NA
AUK92403.1|723171_724554_-	phosphomannomutase/phosphoglucomutase	NA	A0A127AWJ1	Bacillus_phage	31.6	6.2e-51
AUK92404.1|724832_725444_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92405.1|725535_726951_+	hydroxyacid dehydrogenase	NA	NA	NA	NA	NA
AUK92406.1|726968_727679_+	two-component system response regulator	NA	NA	NA	NA	NA
AUK92407.1|727675_728998_+	two-component sensor histidine kinase	NA	NA	NA	NA	NA
AUK95197.1|729143_731039_+	sulfatase	NA	NA	NA	NA	NA
AUK92408.1|731164_732478_-	fumarylacetoacetase	NA	NA	NA	NA	NA
AUK92409.1|732586_733885_-	homogentisate 1,2-dioxygenase	NA	NA	NA	NA	NA
AUK92410.1|734067_734976_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92411.1|734985_735195_-	hypothetical protein	NA	NA	NA	NA	NA
AUK92412.1|735206_736886_-	FAD-dependent oxidoreductase	NA	NA	NA	NA	NA
AUK92413.1|736987_737941_-	MBL fold metallo-hydrolase	NA	NA	NA	NA	NA
AUK92414.1|738031_738859_-	DNA-formamidopyrimidine glycosylase	NA	NA	NA	NA	NA
AUK92415.1|738857_740744_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92416.1|740740_741340_+	lipoprotein localization factor LolB	NA	NA	NA	NA	NA
AUK92417.1|741388_742288_+	4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase	NA	NA	NA	NA	NA
741560:741578	attL	CTGCCTGGCGTGGCCGAGT	NA	NA	NA	NA
AUK92418.1|742496_743447_+	ribose-phosphate pyrophosphokinase	NA	A0A2K9L8D8	Tupanvirus	35.5	7.3e-43
AUK92419.1|743569_744184_+	50S ribosomal protein L25/general stress protein Ctc	NA	NA	NA	NA	NA
AUK92420.1|744312_744909_+|tRNA	aminoacyl-tRNA hydrolase	tRNA	NA	NA	NA	NA
AUK92421.1|744905_745688_+|protease	CAAX protease	protease	NA	NA	NA	NA
AUK92422.1|745760_746852_+	redox-regulated ATPase YchF	NA	NA	NA	NA	NA
AUK92423.1|747131_748259_+|integrase	integrase	integrase	A0A1B0VMI6	Pseudomonas_phage	33.6	1.4e-48
AUK92424.1|748600_749647_+	cell filamentation protein Fic	NA	NA	NA	NA	NA
AUK95198.1|750157_752914_+	restriction endonuclease	NA	NA	NA	NA	NA
AUK92425.1|752915_755867_+	site-specific DNA-methyltransferase	NA	G8I4P9	Mycobacterium_phage	25.1	2.9e-21
AUK92426.1|755882_757094_+	chromosome segregation protein SMC	NA	NA	NA	NA	NA
AUK92427.1|757325_758228_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92428.1|758742_759000_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92429.1|759228_759474_-	hypothetical protein	NA	NA	NA	NA	NA
AUK92430.1|759543_760455_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92431.1|760536_760821_+	hypothetical protein	NA	A0A1V0SIN4	Klosneuvirus	34.1	6.8e-05
AUK92432.1|760899_761370_-	hypothetical protein	NA	NA	NA	NA	NA
AUK92433.1|761604_762555_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
761448:761466	attR	ACTCGGCCACGCCAGGCAG	NA	NA	NA	NA
AUK92434.1|762973_765538_-	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA	NA
AUK92435.1|765582_767436_-	hypothetical protein	NA	NA	NA	NA	NA
AUK92436.1|767768_769340_+	transcriptional regulator	NA	NA	NA	NA	NA
AUK92437.1|770781_771732_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 8
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	1027068	1090164	4103789	transposase,tRNA	Bacillus_virus(25.0%)	57	NA	NA
AUK92640.1|1027068_1028019_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92641.1|1028121_1028784_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92642.1|1028886_1029297_-	hypothetical protein	NA	NA	NA	NA	NA
AUK92643.1|1029401_1030403_+	amidase	NA	NA	NA	NA	NA
AUK92644.1|1030405_1031602_+	formyl-CoA transferase	NA	NA	NA	NA	NA
AUK92645.1|1031622_1032426_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUK92646.1|1032506_1032803_+	histidine kinase	NA	NA	NA	NA	NA
AUK92647.1|1032833_1033397_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95215.1|1033437_1034295_+	ABC transporter permease	NA	NA	NA	NA	NA
AUK92648.1|1034302_1035052_+	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	33.5	6.2e-29
AUK92649.1|1035073_1035946_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92650.1|1035974_1036754_+	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUK92651.1|1036787_1037585_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92652.1|1040239_1040632_+	RidA family protein	NA	NA	NA	NA	NA
AUK92653.1|1040625_1041486_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUK92654.1|1041489_1042452_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUK92655.1|1043219_1043918_+	branched-chain amino acid ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	28.7	3.8e-12
AUK92656.1|1044778_1045729_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92657.1|1045792_1046068_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92658.1|1046078_1046948_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92659.1|1047018_1047714_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92660.1|1047703_1048213_+|tRNA	tRNA-specific adenosine deaminase	tRNA	NA	NA	NA	NA
AUK92661.1|1048209_1049430_+	MFS transporter	NA	NA	NA	NA	NA
AUK92662.1|1049377_1050280_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92663.1|1052491_1053865_+	amidase	NA	NA	NA	NA	NA
AUK92664.1|1053903_1054605_-	riboflavin synthase subunit alpha	NA	NA	NA	NA	NA
AUK92665.1|1054903_1055893_+	MFS transporter	NA	NA	NA	NA	NA
AUK92666.1|1055993_1056455_+	transcriptional regulator	NA	NA	NA	NA	NA
AUK92667.1|1056470_1057019_-	cysteine dioxygenase	NA	NA	NA	NA	NA
AUK92668.1|1057160_1058636_-	acid--CoA ligase	NA	Q75ZG1	Hepacivirus	25.6	3.0e-35
AUK92669.1|1058741_1059833_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92670.1|1059836_1060619_-	ABC transporter permease	NA	NA	NA	NA	NA
AUK92671.1|1060628_1061417_-	ABC transporter	NA	G3M9Y6	Bacillus_virus	40.0	1.1e-33
AUK92672.1|1062542_1062977_-	thioesterase	NA	NA	NA	NA	NA
AUK92673.1|1062973_1063984_-	zinc-binding dehydrogenase	NA	NA	NA	NA	NA
AUK92674.1|1064027_1064954_-	hypothetical protein	NA	NA	NA	NA	NA
AUK92675.1|1065240_1065609_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92676.1|1066819_1069246_+	copper-translocating P-type ATPase	NA	A0A218MNH6	uncultured_virus	33.8	1.2e-86
AUK92677.1|1069294_1069987_+	hydrolase	NA	A0A1D6Y7U0	Golden_Marseillevirus	29.9	4.7e-07
AUK92678.1|1070059_1071259_+	aromatic amino acid aminotransferase	NA	NA	NA	NA	NA
AUK92679.1|1071276_1072182_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92680.1|1072297_1073227_+	acetylxylan esterase	NA	NA	NA	NA	NA
AUK95216.1|1073252_1074599_+	MFS transporter	NA	NA	NA	NA	NA
AUK92681.1|1074611_1075376_+	short-chain dehydrogenase	NA	A0A0M4JSW6	Mollivirus	26.5	3.1e-12
AUK92682.1|1075389_1076172_+	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUK92683.1|1076364_1077315_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92684.1|1077376_1078486_-	porin	NA	NA	NA	NA	NA
AUK92685.1|1078998_1079835_-	3-methyl-2-oxobutanoate hydroxymethyltransferase	NA	A0A0P0BXC9	Ostreococcus_lucimarinus_virus	33.3	1.6e-33
AUK92686.1|1079961_1080870_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92687.1|1080866_1081817_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92688.1|1082202_1082745_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92689.1|1083780_1084731_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92690.1|1084972_1085341_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92691.1|1085386_1086511_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95217.1|1087645_1088386_-	oxidoreductase	NA	NA	NA	NA	NA
AUK92692.1|1088489_1089110_+	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92693.1|1089261_1090164_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 9
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	1107158	1155894	4103789	transposase	Planktothrix_phage(20.0%)	42	NA	NA
AUK92709.1|1107158_1108109_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92710.1|1108165_1109314_-	alcohol dehydrogenase	NA	NA	NA	NA	NA
AUK92711.1|1109394_1110297_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92712.1|1110876_1111674_-	metal ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK92713.1|1111721_1112375_-	DL-methionine transporter permease subunit	NA	NA	NA	NA	NA
AUK92714.1|1112331_1113420_-	phosphate ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	36.4	8.7e-32
AUK92715.1|1113584_1115810_-	glycosyl hydrolase	NA	NA	NA	NA	NA
AUK92716.1|1118087_1118984_+	inositol monophosphatase	NA	NA	NA	NA	NA
AUK92717.1|1119152_1120055_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92718.1|1120051_1121743_-	long-chain fatty acid--CoA ligase	NA	A0A2H4PQU7	Staphylococcus_phage	28.1	9.4e-33
AUK92719.1|1121804_1123001_+	amidohydrolase	NA	NA	NA	NA	NA
AUK92720.1|1123014_1123893_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92721.1|1123999_1125046_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92722.1|1125109_1125520_+	acyl-CoA thioesterase	NA	NA	NA	NA	NA
AUK92723.1|1125530_1127003_+	magnesium transporter	NA	NA	NA	NA	NA
AUK92724.1|1127198_1128062_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92725.1|1128145_1129297_-	Rieske (2Fe-2S) protein	NA	NA	NA	NA	NA
AUK92726.1|1129444_1130455_-	hypothetical protein	NA	A0A0F6TJ51	Escherichia_coli_O157_typing_phage	24.6	3.6e-16
AUK92727.1|1130625_1131591_-	MFS transporter	NA	NA	NA	NA	NA
AUK95220.1|1131765_1132596_+	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92728.1|1132682_1132949_+	exodeoxyribonuclease VII small subunit	NA	NA	NA	NA	NA
AUK92729.1|1132953_1133865_+	geranyl transferase	NA	NA	NA	NA	NA
AUK92730.1|1133914_1135777_+	1-deoxy-D-xylulose-5-phosphate synthase	NA	NA	NA	NA	NA
AUK92731.1|1135933_1136731_+	GTP cyclohydrolase	NA	NA	NA	NA	NA
AUK92732.1|1136950_1137331_+	30S ribosomal protein S6	NA	NA	NA	NA	NA
AUK92733.1|1137378_1137702_+	primosomal replication protein N	NA	NA	NA	NA	NA
AUK92734.1|1137794_1138067_+	30S ribosomal protein S18	NA	NA	NA	NA	NA
AUK92735.1|1138082_1138538_+	50S ribosomal protein L9	NA	NA	NA	NA	NA
AUK92736.1|1138654_1139491_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92737.1|1139487_1140861_+	replicative DNA helicase	NA	C7BGG1	Burkholderia_phage	58.2	4.0e-135
AUK92738.1|1140881_1141850_-	bile acid:sodium symporter	NA	NA	NA	NA	NA
AUK92739.1|1141929_1142907_-	4-hydroxythreonine-4-phosphate dehydrogenase PdxA	NA	NA	NA	NA	NA
AUK92740.1|1143011_1144691_-	phosphate starvation-inducible protein PhoH	NA	A0A2I7SAD7	Vibrio_phage	36.7	7.3e-70
AUK92741.1|1144770_1145235_-	peroxiredoxin	NA	NA	NA	NA	NA
AUK92742.1|1145237_1145690_-	hypothetical protein	NA	NA	NA	NA	NA
AUK92743.1|1145906_1147094_+	alanine transaminase	NA	NA	NA	NA	NA
AUK92744.1|1147090_1148395_+	homoserine dehydrogenase	NA	NA	NA	NA	NA
AUK92745.1|1148391_1149798_+	threonine synthase	NA	NA	NA	NA	NA
AUK92746.1|1150011_1150233_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92747.1|1150440_1151391_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92748.1|1151447_1152560_+	malate dehydrogenase	NA	NA	NA	NA	NA
AUK92749.1|1154943_1155894_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 10
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	1165540	1221410	4103789	transposase,protease	uncultured_Mediterranean_phage(25.0%)	40	NA	NA
AUK92761.1|1165540_1166491_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92762.1|1166658_1168050_+	exodeoxyribonuclease VII large subunit	NA	A0A1V0SD82	Indivirus	32.0	1.4e-29
AUK92763.1|1168122_1168701_+	superoxide dismutase	NA	NA	NA	NA	NA
AUK92764.1|1168817_1170215_+	chloride channel protein EriC	NA	NA	NA	NA	NA
AUK92765.1|1170330_1171536_+	3-oxoadipyl-CoA thiolase	NA	NA	NA	NA	NA
AUK92766.1|1171635_1172127_-	hypothetical protein	NA	A0A1B1IUW8	uncultured_Mediterranean_phage	42.2	4.8e-14
AUK92767.1|1172248_1172494_-	cold-shock protein	NA	A0A2H4N7Y6	Lake_Baikal_phage	76.6	1.3e-20
AUK92768.1|1172721_1173036_+|protease	ATP-dependent Clp protease adapter ClpS	protease	A0A1B1IT64	uncultured_Mediterranean_phage	43.8	1.2e-10
AUK95222.1|1173749_1178315_+	alpha-2-macroglobulin	NA	NA	NA	NA	NA
AUK95221.1|1178311_1180480_+	penicillin-binding protein 1C	NA	NA	NA	NA	NA
AUK92769.1|1180535_1182851_+|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	protease	A0A223W0B1	Agrobacterium_phage	41.9	4.1e-164
AUK92770.1|1182855_1184175_+	paraquat-inducible membrane protein A	NA	NA	NA	NA	NA
AUK92771.1|1184193_1185867_+	paraquat-inducible protein B	NA	NA	NA	NA	NA
AUK92772.1|1185871_1186540_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92773.1|1186696_1190518_+	trifunctional transcriptional regulator/proline dehydrogenase/L-glutamate gamma-semialdehyde dehydrogenase	NA	NA	NA	NA	NA
AUK92774.1|1190848_1191799_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92775.1|1191820_1192966_+	branched chain amino acid ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK92776.1|1193114_1194044_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUK92777.1|1194040_1195129_+	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
AUK92778.1|1195125_1195929_+	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	23.5	7.9e-14
AUK92779.1|1195925_1196657_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	31.0	1.4e-12
AUK92780.1|1196714_1198004_-	MFS transporter	NA	NA	NA	NA	NA
AUK92781.1|1198100_1198703_+	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92782.1|1198965_1199670_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92783.1|1199647_1201927_+	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA	NA
AUK92784.1|1203255_1203594_-	transcriptional regulator	NA	NA	NA	NA	NA
AUK92785.1|1204301_1204568_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92786.1|1206322_1207225_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92787.1|1207221_1208553_-	arabinose ABC transporter permease	NA	NA	NA	NA	NA
AUK92788.1|1209813_1211814_+	cytochrome o ubiquinol oxidase subunit I	NA	NA	NA	NA	NA
AUK92789.1|1211806_1212448_+	cytochrome o ubiquinol oxidase subunit III	NA	NA	NA	NA	NA
AUK92790.1|1212444_1212852_+	cytochrome o ubiquinol oxidase subunit IV	NA	NA	NA	NA	NA
AUK92791.1|1212848_1213649_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92792.1|1213723_1214428_+	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
AUK92793.1|1214459_1215254_+	N-formylglutamate deformylase	NA	NA	NA	NA	NA
AUK92794.1|1215250_1216201_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92795.1|1216299_1217202_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92796.1|1217348_1217783_-	Cd(II)/Pb(II)-responsive transcriptional regulator	NA	NA	NA	NA	NA
AUK92797.1|1217865_1220202_+	copper-translocating P-type ATPase	NA	E4ZFI9	Streptococcus_phage	42.8	3.2e-124
AUK95223.1|1220393_1221410_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
>prophage 11
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	1343665	1380431	4103789	transposase	Salmonella_phage(50.0%)	35	NA	NA
AUK92889.1|1343665_1344616_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92890.1|1344595_1345177_-	hypothetical protein	NA	NA	NA	NA	NA
AUK92891.1|1345237_1346965_-	sodium-independent anion transporter	NA	NA	NA	NA	NA
AUK92892.1|1347076_1348435_+	MBL fold metallo-hydrolase	NA	NA	NA	NA	NA
AUK92893.1|1348727_1349678_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92894.1|1349718_1350789_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92895.1|1350811_1351690_-	hypothetical protein	NA	NA	NA	NA	NA
AUK92896.1|1351861_1352833_+	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUK92897.1|1352995_1353838_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92898.1|1353999_1354680_+	anti-sigma factor	NA	NA	NA	NA	NA
AUK92899.1|1354673_1355843_+	amine oxidase	NA	NA	NA	NA	NA
AUK92900.1|1355839_1356871_+	alcohol dehydrogenase	NA	A0A2K9L339	Tupanvirus	27.8	1.8e-26
AUK92901.1|1356938_1358156_+	MFS transporter	NA	NA	NA	NA	NA
AUK92902.1|1358190_1359723_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK92903.1|1359803_1360427_+	transcriptional regulator	NA	NA	NA	NA	NA
AUK92904.1|1360457_1361069_+	RhtB family transporter	NA	NA	NA	NA	NA
AUK92905.1|1361104_1361575_+	histidine kinase	NA	NA	NA	NA	NA
AUK92906.1|1362006_1363011_+	peptidase M20	NA	NA	NA	NA	NA
AUK92907.1|1363047_1364562_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK92908.1|1364565_1365525_+	ABC transporter	NA	NA	NA	NA	NA
AUK92909.1|1365553_1366357_+	peptide ABC transporter permease	NA	NA	NA	NA	NA
AUK92910.1|1366358_1367993_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	31.1	2.9e-15
AUK92911.1|1368076_1369138_+	LacI family transcriptional regulator	NA	NA	NA	NA	NA
AUK92912.1|1369609_1370134_+	DNA-binding protein	NA	J9Q7G7	Salmonella_phage	32.9	6.5e-09
AUK92913.1|1370597_1371500_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92914.1|1371496_1372531_-	hydrolase	NA	NA	NA	NA	NA
AUK92915.1|1372639_1373278_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92916.1|1373572_1373800_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUK92917.1|1373922_1374636_+	SAM-dependent methyltransferase	NA	NA	NA	NA	NA
AUK92918.1|1374880_1375831_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92919.1|1375970_1376216_+	hypothetical protein	NA	NA	NA	NA	NA
AUK92920.1|1376330_1377779_-	2-aminoadipate aminotransferase	NA	NA	NA	NA	NA
AUK92921.1|1377889_1378840_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK92922.1|1378836_1379286_-	deoxyuridine 5'-triphosphate nucleotidohydrolase	NA	S4TNT3	Salmonella_phage	67.2	3.7e-45
AUK92923.1|1379528_1380431_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 12
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	1469069	1519558	4103789	transposase,tRNA	Salmonella_phage(22.22%)	45	NA	NA
AUK93002.1|1469069_1470020_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93003.1|1470186_1470540_+	cytochrome C	NA	NA	NA	NA	NA
AUK93004.1|1470552_1470915_+	cytochrome	NA	NA	NA	NA	NA
AUK93005.1|1470956_1471382_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93006.1|1471584_1472841_+	NADP-dependent isocitrate dehydrogenase	NA	Q77Z09	Phage_21	64.8	1.2e-11
AUK93007.1|1473039_1474020_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93008.1|1474169_1475411_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93009.1|1475509_1476460_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93010.1|1476468_1477164_-	two-component system response regulator KdpE	NA	NA	NA	NA	NA
AUK93011.1|1477205_1479920_-	two-component sensor histidine kinase	NA	NA	NA	NA	NA
AUK93012.1|1479985_1480585_-	potassium-transporting ATPase subunit C	NA	NA	NA	NA	NA
AUK93013.1|1480595_1482761_-	potassium-transporting ATPase subunit B	NA	M1HBF8	Paramecium_bursaria_Chlorella_virus	27.1	1.2e-24
AUK93014.1|1482784_1484569_-	potassium-transporting ATPase subunit KdpA	NA	NA	NA	NA	NA
AUK93015.1|1484568_1484658_-	potassium-transporting ATPase subunit F	NA	NA	NA	NA	NA
AUK93016.1|1485352_1485625_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93017.1|1485624_1487691_+	cation acetate symporter	NA	NA	NA	NA	NA
AUK93018.1|1487687_1488590_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93019.1|1488736_1489639_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93020.1|1489802_1490135_-	QacE family quaternary ammonium compound efflux SMR transporter	NA	NA	NA	NA	NA
AUK93021.1|1490131_1490818_-	DNA mismatch repair protein MutS	NA	NA	NA	NA	NA
AUK93022.1|1490804_1491764_-	thioredoxin-disulfide reductase	NA	A0A2I2L5E1	Orpheovirus	40.2	3.1e-57
AUK93023.1|1491796_1494166_+	cell division protein FtsK	NA	S5VNE3	Mycobacterium_phage	48.0	7.6e-81
AUK93024.1|1494165_1494798_+	outer membrane lipoprotein carrier protein LolA	NA	NA	NA	NA	NA
AUK93025.1|1494899_1496240_+	recombination factor protein RarA	NA	G3MBE0	Bacillus_virus	38.9	1.6e-75
AUK93026.1|1496286_1497642_+|tRNA	serine--tRNA ligase	tRNA	A0A1B1IVT2	uncultured_Mediterranean_phage	47.5	1.6e-83
AUK93027.1|1497932_1498169_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93028.1|1498356_1498674_-	virulence factor	NA	NA	NA	NA	NA
AUK93029.1|1498946_1499462_-	hypothetical protein	NA	T1SAR8	Salmonella_phage	44.6	5.1e-06
AUK93030.1|1499555_1499717_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93031.1|1499732_1500488_-	GGDEF domain-containing protein	NA	NA	NA	NA	NA
AUK93032.1|1500826_1501033_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93033.1|1501040_1501700_-	antibiotic resistance protein	NA	NA	NA	NA	NA
AUK93034.1|1501994_1504199_-	porin	NA	NA	NA	NA	NA
AUK93035.1|1504309_1505533_-	multidrug transporter	NA	S4TR35	Salmonella_phage	29.4	9.8e-24
AUK93036.1|1505655_1506630_-	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUK93037.1|1506697_1507891_-	Rieske (2Fe-2S) protein	NA	NA	NA	NA	NA
AUK93038.1|1507905_1508706_-	siderophore ferric iron reductase	NA	NA	NA	NA	NA
AUK93039.1|1508702_1510559_-	IucA/IucC family protein	NA	NA	NA	NA	NA
AUK93040.1|1510555_1511161_-	siderophore biosynthesis protein	NA	NA	NA	NA	NA
AUK93041.1|1511179_1512565_-	alcaligin biosynthesis protein	NA	NA	NA	NA	NA
AUK93042.1|1513290_1514517_+	transporter	NA	NA	NA	NA	NA
AUK93043.1|1514605_1515388_+	3-hydroxybutyrate dehydrogenase	NA	NA	NA	NA	NA
AUK93044.1|1516579_1517482_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93045.1|1517513_1518611_+	GGDEF domain-containing protein	NA	A0A127AWB9	Bacillus_phage	37.3	3.5e-20
AUK93046.1|1518607_1519558_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 14
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	1619319	1690425	4103789	transposase	Ectocarpus_siliculosus_virus(11.11%)	55	NA	NA
AUK93137.1|1619319_1620270_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93138.1|1620291_1621512_+	YggW family oxidoreductase	NA	NA	NA	NA	NA
AUK93139.1|1621697_1623110_+	type I glutamate--ammonia ligase	NA	NA	NA	NA	NA
AUK93140.1|1623173_1624241_+	PAS domain-containing sensor histidine kinase	NA	Q8QKV7	Ectocarpus_siliculosus_virus	23.5	1.1e-05
AUK93141.1|1624240_1625728_+	nitrogen regulation protein NR(I)	NA	NA	NA	NA	NA
AUK95246.1|1625737_1626682_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93142.1|1626841_1627540_+	quercetin 2,3-dioxygenase	NA	NA	NA	NA	NA
AUK93143.1|1627617_1628523_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93144.1|1628542_1629445_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93145.1|1629591_1630386_-	ABC transporter	NA	G9BWD6	Planktothrix_phage	29.4	8.3e-16
AUK93146.1|1630390_1632061_-	iron ABC transporter permease	NA	NA	NA	NA	NA
AUK93147.1|1632184_1633234_-	iron ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK93148.1|1633555_1634332_+	ferredoxin--NADP(+) reductase	NA	NA	NA	NA	NA
AUK93149.1|1634396_1635299_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93150.1|1636592_1637396_+	2,5-didehydrogluconate reductase B	NA	A0A2H4PQR8	Staphylococcus_phage	32.4	2.0e-33
AUK93151.1|1640089_1640476_+	reactive intermediate/imine deaminase	NA	NA	NA	NA	NA
AUK93152.1|1640491_1642582_+	ATP-dependent DNA helicase RecG	NA	NA	NA	NA	NA
AUK93153.1|1642633_1643587_+	LysR family transcriptional regulator	NA	A0A2P0ZL89	Lactobacillus_phage	26.5	7.2e-14
AUK95247.1|1643601_1644489_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93154.1|1644626_1646153_+	methylmalonate-semialdehyde dehydrogenase (acylating)	NA	NA	NA	NA	NA
AUK95248.1|1646251_1646752_+	DNA starvation/stationary phase protection protein	NA	W5S6G8	Pithovirus	35.5	6.4e-14
AUK93155.1|1647075_1649031_-	capsular biosynthesis protein	NA	NA	NA	NA	NA
AUK93156.1|1649198_1651283_-	hypothetical protein	NA	NA	NA	NA	NA
AUK95249.1|1651309_1651735_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93157.1|1652950_1653721_+	polyhydroxyalkanoate biosynthesis repressor PhaR	NA	NA	NA	NA	NA
AUK93158.1|1653720_1654461_+	sugar ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
AUK93159.1|1654502_1655672_+	capsule biosynthesis protein	NA	NA	NA	NA	NA
AUK93160.1|1655703_1657788_+	Vi polysaccharide biosynthesis protein TviE	NA	NA	NA	NA	NA
AUK93161.1|1657784_1658675_+	capsular biosynthesis protein	NA	NA	NA	NA	NA
AUK93162.1|1658671_1659769_+	capsule biosynthesis protein CapA	NA	NA	NA	NA	NA
AUK93163.1|1659791_1661081_+	Vi polysaccharide biosynthesis protein VipA/TviB	NA	NA	NA	NA	NA
AUK93164.1|1661092_1662118_+	LPS biosynthesis protein WbpP	NA	A0A2K9L4U8	Tupanvirus	44.2	4.7e-72
AUK93165.1|1662114_1664172_+	beta-3-deoxy-D-manno-oct-2-ulosonic acid transferase	NA	NA	NA	NA	NA
AUK93166.1|1664185_1665361_+	capsule biosynthesis protein CapA	NA	NA	NA	NA	NA
AUK93167.1|1665442_1666393_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93168.1|1666451_1667225_+	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUK93169.1|1667217_1668774_+	capsular biosynthesis protein	NA	NA	NA	NA	NA
AUK93170.1|1668770_1669721_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93171.1|1671047_1671650_-	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93172.1|1671889_1672591_-	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
AUK93173.1|1672584_1673367_-	high-affinity branched-chain amino acid ABC transporter ATP-binding protein LivG	NA	A0A2R8FG22	Brazilian_cedratvirus	25.8	2.0e-09
AUK93174.1|1673551_1674502_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93175.1|1674600_1675338_-	hypothetical protein	NA	A0A0S4KZH7	Pseudomonas_phage	46.6	4.1e-41
AUK93176.1|1675527_1676286_-	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUK93177.1|1676332_1677334_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK93178.1|1677499_1678468_-	phenol degradation protein meta	NA	NA	NA	NA	NA
AUK93179.1|1680007_1680976_+	AAA family ATPase	NA	NA	NA	NA	NA
AUK93180.1|1680984_1681926_+	MoxR protein	NA	NA	NA	NA	NA
AUK95250.1|1682399_1683410_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95252.1|1683400_1684915_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93181.1|1684911_1686258_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95251.1|1686260_1687295_+	haloacid dehalogenase	NA	NA	NA	NA	NA
AUK93182.1|1687344_1688970_+	arylsulfatase	NA	A0A2P0VMN7	Tetraselmis_virus	52.2	2.0e-149
AUK93183.1|1689063_1689543_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93184.1|1689522_1690425_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 15
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	1711264	1752066	4103789	transposase,tRNA	uncultured_Caudovirales_phage(20.0%)	37	NA	NA
AUK93200.1|1711264_1712215_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93201.1|1712323_1712512_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95256.1|1712508_1713231_-	arsenical resistance protein ArsH	NA	A0A2H4J5V6	uncultured_Caudovirales_phage	68.2	1.3e-87
AUK93202.1|1713669_1714857_-	hypothetical protein	NA	NA	NA	NA	NA
AUK95257.1|1714860_1715211_-	transcriptional regulator	NA	NA	NA	NA	NA
AUK93203.1|1715444_1716857_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93204.1|1716960_1717932_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK93205.1|1717945_1718659_+	3-oxoacyl-[acyl-carrier-protein] reductase	NA	NA	NA	NA	NA
AUK93206.1|1718663_1719581_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93207.1|1719687_1719984_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93208.1|1720130_1721033_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93209.1|1722191_1725125_+	monovalent cation/H+ antiporter subunit A	NA	NA	NA	NA	NA
AUK93210.1|1725124_1725469_+	Na+/H+ antiporter subunit C	NA	NA	NA	NA	NA
AUK93211.1|1725465_1727094_+	monovalent cation/H+ antiporter subunit D	NA	NA	NA	NA	NA
AUK93212.1|1727093_1727570_+	Na+/H+ antiporter subunit E	NA	NA	NA	NA	NA
AUK93213.1|1727569_1727851_+	K+/H+ antiporter subunit F	NA	NA	NA	NA	NA
AUK93214.1|1727847_1728174_+	cation:proton antiporter	NA	NA	NA	NA	NA
AUK93215.1|1728329_1729280_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93216.1|1729323_1729866_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93217.1|1729963_1730812_+	hydrolase	NA	NA	NA	NA	NA
AUK95258.1|1730861_1731311_+|tRNA	tRNA-specific adenosine deaminase	tRNA	S4VYT2	Pandoravirus	38.2	2.0e-06
AUK93218.1|1731307_1732309_+	LD-carboxypeptidase	NA	NA	NA	NA	NA
AUK93219.1|1732321_1733116_-	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUK93220.1|1733164_1735066_-	C4-dicarboxylate ABC transporter	NA	NA	NA	NA	NA
AUK93221.1|1735062_1735686_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93222.1|1735812_1736937_-	C4-dicarboxylate ABC transporter	NA	NA	NA	NA	NA
AUK93223.1|1737317_1738922_+	ABC-F family ATPase	NA	A0A1V0SKJ1	Klosneuvirus	28.9	1.2e-53
AUK93224.1|1739077_1739854_+	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	34.2	1.2e-30
AUK93225.1|1739938_1740937_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK93226.1|1740933_1741707_+	ABC transporter permease	NA	NA	NA	NA	NA
AUK93227.1|1742739_1743642_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93228.1|1743740_1744691_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93229.1|1744714_1745179_-|tRNA	glutamyl-tRNA amidotransferase	tRNA	A0A0K2FLI9	Brevibacillus_phage	32.4	3.9e-05
AUK93230.1|1745325_1746534_+	nitric oxide dioxygenase	NA	NA	NA	NA	NA
AUK93231.1|1746577_1747015_+	BadM/Rrf2 family transcriptional regulator	NA	NA	NA	NA	NA
AUK93232.1|1747133_1748423_+	D-amino acid dehydrogenase small subunit	NA	NA	NA	NA	NA
AUK93233.1|1751163_1752066_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 16
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	1954845	2024497	4103789	transposase,tRNA	Staphylococcus_phage(16.67%)	58	NA	NA
AUK93374.1|1954845_1957503_-|tRNA	leucine--tRNA ligase	tRNA	A0A2H4PQS0	Staphylococcus_phage	39.0	3.3e-173
AUK95274.1|1957580_1958738_-	MFS transporter	NA	NA	NA	NA	NA
AUK93375.1|1958779_1959292_-	MarR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93376.1|1959414_1959852_-	DNA-binding protein	NA	NA	NA	NA	NA
AUK93377.1|1960176_1961079_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93378.1|1961225_1962128_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93379.1|1962381_1964187_+	sulfate transporter	NA	A0A2H4J153	uncultured_Caudovirales_phage	27.5	2.2e-19
AUK93380.1|1964300_1964468_-	50S ribosomal protein L33	NA	NA	NA	NA	NA
AUK93381.1|1964531_1964768_-	50S ribosomal protein L28	NA	NA	NA	NA	NA
AUK95275.1|1965136_1966288_-	Bcr/CflA family drug resistance efflux transporter	NA	NA	NA	NA	NA
AUK93382.1|1967899_1968802_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93383.1|1969253_1970255_+	glycine/betaine ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK93384.1|1970427_1971285_+	ABC transporter permease	NA	NA	NA	NA	NA
AUK93385.1|1971281_1972544_+	glycine/betaine ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	36.6	6.8e-28
AUK93386.1|1972644_1973019_+	4-oxalocrotonate tautomerase	NA	NA	NA	NA	NA
AUK93387.1|1973091_1974279_+	acetyl-CoA acetyltransferase	NA	NA	NA	NA	NA
AUK93388.1|1974363_1975134_+	spermidine synthase	NA	NA	NA	NA	NA
AUK93389.1|1975247_1976012_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93390.1|1975962_1977264_+	malonyl-CoA decarboxylase	NA	NA	NA	NA	NA
AUK93391.1|1977260_1978067_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUK93392.1|1979811_1980783_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK93393.1|1980939_1981452_+	superoxide dismutase	NA	Q9MC02	Salmonella_phage	52.3	1.8e-43
AUK93394.1|1981610_1982585_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK93395.1|1983585_1984380_+	ABC transporter ATP-binding protein	NA	A0A1V0SE00	Indivirus	25.7	5.1e-05
AUK95276.1|1984405_1985212_-	molybdenum-dependent transcriptional regulator	NA	NA	NA	NA	NA
AUK93396.1|1985322_1985913_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93397.1|1985923_1987102_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93398.1|1987204_1987579_+	DNA-binding protein	NA	NA	NA	NA	NA
AUK93399.1|1987831_1989163_+	efflux transporter periplasmic adaptor subunit	NA	NA	NA	NA	NA
AUK93400.1|1989229_1992460_+	multidrug efflux RND transporter permease subunit	NA	NA	NA	NA	NA
AUK93401.1|1993950_1994697_+	pyridoxine 5'-phosphate synthase	NA	NA	NA	NA	NA
AUK93402.1|1994781_1995243_+	holo-ACP synthase	NA	NA	NA	NA	NA
AUK93403.1|1995280_1996339_+	beta-N-acetylhexosaminidase	NA	NA	NA	NA	NA
AUK93404.1|1996301_1998131_+	excinuclease ABC subunit C	NA	NA	NA	NA	NA
AUK93405.1|1998170_1998743_+	CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase	NA	NA	NA	NA	NA
AUK93406.1|1998912_1999881_+	MFS transporter	NA	NA	NA	NA	NA
AUK93407.1|1999890_2000232_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93408.1|2000167_2000989_-	NADPH-dependent 7-cyano-7-deazaguanine reductase QueF	NA	A0A2I7SAX1	Vibrio_phage	37.6	4.1e-42
AUK93409.1|2001307_2002630_+	isocitrate lyase	NA	NA	NA	NA	NA
AUK93410.1|2002989_2003625_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93411.1|2003584_2004487_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93412.1|2005405_2006278_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUK93413.1|2006355_2007495_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK93414.1|2007853_2009110_+	ring-hydroxylating oxygenase subunit alpha	NA	NA	NA	NA	NA
AUK93415.1|2009115_2009643_+	ring-hydroxylating dioxygenase subunit beta	NA	NA	NA	NA	NA
AUK93416.1|2009647_2010466_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUK93417.1|2010465_2011188_+	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
AUK93418.1|2011209_2011524_+	2Fe-2S ferredoxin	NA	NA	NA	NA	NA
AUK93419.1|2011541_2012690_+	carnitine dehydratase	NA	NA	NA	NA	NA
AUK93420.1|2012720_2013596_-	esterase	NA	NA	NA	NA	NA
AUK93421.1|2013592_2014912_-	acyl--CoA ligase	NA	NA	NA	NA	NA
AUK93422.1|2014984_2016181_-	acetyl-CoA acetyltransferase	NA	NA	NA	NA	NA
AUK93423.1|2016191_2017562_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93424.1|2017919_2019746_-	DUF3604 domain-containing protein	NA	NA	NA	NA	NA
AUK93425.1|2020273_2021173_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93426.1|2021310_2022276_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK93427.1|2022374_2023325_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93428.1|2023546_2024497_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 17
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	2035993	2078420	4103789	transposase	Erysipelothrix_phage(20.0%)	41	NA	NA
AUK93441.1|2035993_2036944_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93442.1|2036930_2037935_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93443.1|2038081_2038378_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93444.1|2038552_2039905_+	glutathione-disulfide reductase	NA	A0A2K5B2C5	Erysipelothrix_phage	27.6	2.9e-45
AUK95278.1|2040047_2041064_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUK95279.1|2043043_2044057_-	pyridoxamine 5'-phosphate oxidase	NA	NA	NA	NA	NA
AUK93445.1|2044143_2045049_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93446.1|2045205_2045550_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93447.1|2045707_2046166_+	(2Fe-2S)-binding protein	NA	NA	NA	NA	NA
AUK93448.1|2046179_2048396_+	aldehyde oxidase	NA	NA	NA	NA	NA
AUK93449.1|2048392_2049454_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93450.1|2049482_2050457_+	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUK93451.1|2050408_2051227_-	hypothetical protein	NA	A0A1B1INV8	uncultured_Mediterranean_phage	28.8	2.3e-16
AUK93452.1|2051239_2051848_-	peptidase S16	NA	NA	NA	NA	NA
AUK93453.1|2052022_2052418_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93454.1|2052436_2053876_+	MFS transporter	NA	A0A0M3UL24	Mycobacterium_phage	37.4	7.4e-55
AUK93455.1|2053904_2054252_+	aldehyde-activating protein	NA	NA	NA	NA	NA
AUK93456.1|2054270_2055173_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK95280.1|2055295_2055775_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUK93457.1|2055873_2056824_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93458.1|2056907_2058725_+	ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	27.4	2.3e-37
AUK95281.1|2058852_2059446_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93459.1|2059458_2060388_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93460.1|2060557_2061022_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93461.1|2061269_2061950_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93462.1|2061998_2063690_+	sodium-independent anion transporter	NA	A0A2H4J153	uncultured_Caudovirales_phage	27.3	5.0e-42
AUK93463.1|2063705_2064257_-	ATPase	NA	NA	NA	NA	NA
AUK93464.1|2064253_2064625_-	transcriptional regulator	NA	NA	NA	NA	NA
AUK93465.1|2064737_2065574_+	alpha/beta hydrolase	NA	NA	NA	NA	NA
AUK93466.1|2065584_2066064_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93467.1|2066206_2066386_+	DUF3008 domain-containing protein	NA	NA	NA	NA	NA
AUK93468.1|2066515_2067490_-	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUK93469.1|2067620_2067977_+	RNA signal recognition particle	NA	NA	NA	NA	NA
AUK95282.1|2067966_2068842_-	PhzF family phenazine biosynthesis protein	NA	NA	NA	NA	NA
AUK93470.1|2068940_2069825_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93471.1|2069846_2071142_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93472.1|2072090_2072741_+	NAD(P)H dehydrogenase	NA	NA	NA	NA	NA
AUK95283.1|2072828_2074349_-	aldehyde dehydrogenase	NA	NA	NA	NA	NA
AUK93473.1|2074606_2076472_+	sigma-54-dependent Fis family transcriptional regulator	NA	NA	NA	NA	NA
AUK93474.1|2076555_2077419_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93475.1|2077517_2078420_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 18
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	2096641	2168103	4103789	transposase,tRNA	Klosneuvirus(22.22%)	60	NA	NA
AUK93493.1|2096641_2097544_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93494.1|2097690_2098593_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93495.1|2098552_2098966_-	transcriptional regulator	NA	A0A222YXG1	Escherichia_phage	59.0	3.8e-36
AUK93496.1|2099250_2099550_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93497.1|2099959_2102242_-	RNA polymerase sigma factor RpoD	NA	A0A2I7SAT0	Vibrio_phage	30.1	3.2e-36
AUK93498.1|2102927_2104958_-	DNA primase	NA	A0A0K1LMQ9	Caulobacter_phage	41.9	1.0e-65
AUK93499.1|2104977_2105190_-	30S ribosomal protein S21	NA	NA	NA	NA	NA
AUK93500.1|2105467_2106007_-	nicotinate phosphoribosyltransferase	NA	NA	NA	NA	NA
AUK93501.1|2106120_2107416_-	adenylosuccinate synthase	NA	A0A160ER07	Powai_lake_megavirus	33.5	3.0e-63
AUK93502.1|2107492_2108650_-	ATP phosphoribosyltransferase regulatory subunit	NA	NA	NA	NA	NA
AUK93503.1|2108833_2109733_-	HflC protein	NA	NA	NA	NA	NA
AUK93504.1|2109751_2111056_-	HflK protein	NA	NA	NA	NA	NA
AUK93505.1|2111021_2112128_-	GTPase HflX	NA	NA	NA	NA	NA
AUK93506.1|2112215_2112452_-	RNA chaperone Hfq	NA	NA	NA	NA	NA
AUK93507.1|2112590_2113661_-	histidinol-phosphate transaminase	NA	A0A1X6WGT4	Pacmanvirus	25.7	2.5e-15
AUK93508.1|2113664_2115020_-	ribosome biogenesis GTPase Der	NA	NA	NA	NA	NA
AUK95287.1|2115046_2116204_-	outer membrane protein assembly factor BamB	NA	NA	NA	NA	NA
AUK93509.1|2116209_2116848_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93510.1|2116849_2118145_-|tRNA	histidine--tRNA ligase	tRNA	NA	NA	NA	NA
AUK93511.1|2118194_2119481_-	4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase	NA	NA	NA	NA	NA
AUK93512.1|2119496_2120003_-	transcriptional regulator	NA	NA	NA	NA	NA
AUK93513.1|2119999_2121148_-	23S rRNA (adenine(2503)-C(2))-methyltransferase	NA	NA	NA	NA	NA
AUK93514.1|2121175_2121601_-	nucleoside-diphosphate kinase	NA	D2E8E1	Anguillid_herpesvirus	43.2	2.1e-21
AUK93515.1|2121923_2124806_+|tRNA	valine--tRNA ligase	tRNA	A0A1V0SK04	Klosneuvirus	37.1	3.7e-138
AUK93516.1|2124898_2125654_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93517.1|2126419_2127769_+	two-component sensor histidine kinase	NA	NA	NA	NA	NA
AUK93518.1|2127915_2128818_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93519.1|2128916_2129867_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93520.1|2129940_2130414_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93521.1|2130439_2131648_+	class V aminotransferase	NA	NA	NA	NA	NA
AUK93522.1|2131644_2132418_-|tRNA	tRNA (guanosine(37)-N1)-methyltransferase TrmD	tRNA	NA	NA	NA	NA
AUK93523.1|2132417_2133041_-	ribosome maturation factor RimM	NA	NA	NA	NA	NA
AUK93524.1|2133206_2133467_-	30S ribosomal protein S16	NA	NA	NA	NA	NA
AUK93525.1|2133770_2134352_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93526.1|2134418_2134673_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93527.1|2134659_2137284_-|tRNA	alanine--tRNA ligase	tRNA	A0A1V0SK38	Klosneuvirus	39.4	1.7e-81
AUK93528.1|2137355_2138174_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93529.1|2138170_2138776_-	prepilin-type N-terminal cleavage/methylation domain-containing protein	NA	NA	NA	NA	NA
AUK93530.1|2138813_2139947_-	general secretion pathway protein	NA	NA	NA	NA	NA
AUK95288.1|2141662_2142037_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93531.1|2142134_2143409_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93532.1|2143412_2144990_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93533.1|2145896_2147252_-	amidase	NA	NA	NA	NA	NA
AUK93534.1|2147248_2148883_-	microcin ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	32.7	8.2e-18
AUK95289.1|2148875_2149796_-	peptide ABC transporter permease	NA	NA	NA	NA	NA
AUK93535.1|2149723_2150668_-	peptide ABC transporter	NA	NA	NA	NA	NA
AUK93536.1|2150720_2152295_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK93537.1|2152342_2152708_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93538.1|2154165_2155122_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93539.1|2155271_2156609_-	glycerol-3-phosphate ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK93540.1|2156613_2157870_-	amino acid dehydrogenase	NA	NA	NA	NA	NA
AUK93541.1|2158065_2159112_-	CDP-6-deoxy-delta-3,4-glucoseen reductase	NA	NA	NA	NA	NA
AUK93542.1|2159169_2159538_-	aspartate 1-decarboxylase	NA	NA	NA	NA	NA
AUK93543.1|2159668_2160541_-	MOSC domain-containing protein	NA	NA	NA	NA	NA
AUK93544.1|2160617_2161520_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93545.1|2161524_2162580_-	4-hydroxythreonine-4-phosphate dehydrogenase PdxA	NA	NA	NA	NA	NA
AUK93546.1|2162576_2163794_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93547.1|2165067_2165970_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93548.1|2166218_2167028_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUK93549.1|2167200_2168103_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 19
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	2181296	2246069	4103789	transposase,protease,tRNA	Lake_Baikal_phage(20.0%)	54	NA	NA
AUK93565.1|2181296_2182247_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93566.1|2182817_2183030_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93567.1|2183047_2183779_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93568.1|2183813_2184455_-	succinyl-CoA--3-ketoacid-CoA transferase	NA	NA	NA	NA	NA
AUK93569.1|2184447_2185116_-	3-oxoadipate CoA-transferase	NA	NA	NA	NA	NA
AUK93570.1|2187328_2188105_-	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
AUK93571.1|2188126_2189284_-	thiolase	NA	NA	NA	NA	NA
AUK93572.1|2189280_2189712_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93573.1|2189708_2190506_-	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUK93574.1|2190525_2190981_-	oxidoreductase	NA	NA	NA	NA	NA
AUK93575.1|2190993_2191965_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK93576.1|2192030_2193254_-	CoA transferase	NA	NA	NA	NA	NA
AUK93577.1|2193481_2194432_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93578.1|2194555_2197009_-	endopeptidase La	NA	A0A0R6PGP8	Moraxella_phage	52.0	1.5e-220
AUK93579.1|2197197_2198502_-|protease	ATP-dependent protease ATP-binding subunit ClpX	protease	G3M9Z9	Bacillus_virus	53.8	3.2e-129
AUK93580.1|2198606_2199260_-	ATP-dependent Clp endopeptidase, proteolytic subunit ClpP	NA	A0A223W000	Agrobacterium_phage	57.5	6.8e-56
AUK93581.1|2199262_2200573_-	trigger factor	NA	NA	NA	NA	NA
AUK93582.1|2200769_2201330_+	TIGR00645 family protein	NA	K4K6D8	Caulobacter_phage	33.7	1.0e-23
AUK93583.1|2201441_2201642_-	cold-shock protein	NA	A0A2H4N7Y6	Lake_Baikal_phage	64.4	7.4e-14
AUK93584.1|2201987_2202554_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93585.1|2202637_2202841_-	cold-shock protein	NA	A0A2H4N7Y6	Lake_Baikal_phage	62.1	1.6e-16
AUK93586.1|2203147_2203468_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93587.1|2203509_2203791_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93588.1|2203865_2205122_-	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA	NA
AUK93589.1|2205504_2205834_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93590.1|2207404_2208226_+	2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase	NA	NA	NA	NA	NA
AUK93591.1|2208225_2209365_+	succinyl-diaminopimelate desuccinylase	NA	NA	NA	NA	NA
AUK93592.1|2209371_2210268_+	ribosomal protein L3 N(5)-glutamine methyltransferase	NA	NA	NA	NA	NA
AUK93593.1|2210282_2212190_+	ABC transporter	NA	A0A2K9L0W2	Tupanvirus	31.8	1.1e-66
AUK93594.1|2212549_2215162_+	TonB-dependent receptor	NA	NA	NA	NA	NA
AUK93595.1|2215214_2217515_-	DNA helicase II	NA	A7KV33	Bacillus_phage	35.9	9.9e-110
AUK93596.1|2217511_2218720_-	acyl-CoA desaturase	NA	NA	NA	NA	NA
AUK93597.1|2218981_2219356_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93598.1|2219352_2220303_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK95290.1|2220401_2221799_-	rRNA methyltransferase	NA	NA	NA	NA	NA
AUK93599.1|2222455_2223421_+	riboflavin biosynthesis protein RibF	NA	NA	NA	NA	NA
AUK93600.1|2223410_2226272_+|tRNA	isoleucine--tRNA ligase	tRNA	A0A1V0SJ93	Klosneuvirus	25.5	1.0e-71
AUK93601.1|2226274_2226781_+	signal peptidase II	NA	NA	NA	NA	NA
AUK93602.1|2226885_2228094_+	phosphopantothenate synthase	NA	Q9HH70	Methanothermobacter_phage	30.0	3.8e-36
AUK93603.1|2228095_2229034_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93604.1|2229195_2229669_+	AsnC family transcriptional regulator	NA	NA	NA	NA	NA
AUK93605.1|2229665_2230616_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93606.1|2230726_2231167_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93607.1|2231295_2232525_-	lytic transglycosylase	NA	NA	NA	NA	NA
AUK93608.1|2232563_2233385_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93609.1|2233438_2234590_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUK93610.1|2234681_2235152_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93611.1|2237720_2240270_+	cyanophycin synthetase	NA	NA	NA	NA	NA
AUK93612.1|2240340_2242914_+	cyanophycin synthetase	NA	NA	NA	NA	NA
AUK93613.1|2243179_2243380_+	general stress protein CsbD	NA	NA	NA	NA	NA
AUK93614.1|2243411_2243573_+	DUF1328 domain-containing protein	NA	NA	NA	NA	NA
AUK93615.1|2243630_2243969_+	phospholipid-binding protein	NA	NA	NA	NA	NA
AUK93616.1|2244117_2245020_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93617.1|2245166_2246069_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 20
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	2316841	2380371	4103789	transposase,protease	uncultured_Caudovirales_phage(11.11%)	50	NA	NA
AUK93680.1|2316841_2317744_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93681.1|2318045_2318522_-	transcription elongation factor GreA	NA	NA	NA	NA	NA
AUK93682.1|2319145_2320783_+	methyl-accepting chemotaxis protein	NA	A0A2H4J162	uncultured_Caudovirales_phage	30.2	8.8e-12
AUK93683.1|2320813_2322127_-	pyrimidine utilization transport protein G	NA	Q9KX94	Enterobacteria_phage	67.1	2.1e-149
AUK95300.1|2322287_2322578_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93684.1|2322678_2324001_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK93685.1|2323997_2324900_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93686.1|2325046_2325949_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93687.1|2326078_2326462_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93688.1|2326526_2327549_-	putative 2-aminoethylphosphonate ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK93689.1|2327577_2328408_-	phosphonoacetaldehyde hydrolase	NA	NA	NA	NA	NA
AUK95301.1|2328424_2330122_-	phosphonate ABC transporter permease	NA	NA	NA	NA	NA
AUK93690.1|2330186_2331263_-	sulfate ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	35.8	1.2e-28
AUK93691.1|2331422_2332286_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93692.1|2332316_2332886_+	phosphohydrolase	NA	NA	NA	NA	NA
AUK93693.1|2332902_2333754_-	sulfurtransferase	NA	NA	NA	NA	NA
AUK93694.1|2334811_2335693_+|protease	zinc metalloprotease HtpX	protease	NA	NA	NA	NA
AUK93695.1|2335767_2336757_-	quinone oxidoreductase	NA	NA	NA	NA	NA
AUK93696.1|2336819_2337770_-	EamA family transporter	NA	NA	NA	NA	NA
AUK93697.1|2337832_2338690_+	EamA family transporter	NA	NA	NA	NA	NA
AUK93698.1|2338749_2339238_+	MarR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93699.1|2340810_2342001_+	HlyD family secretion protein	NA	NA	NA	NA	NA
AUK93700.1|2341997_2343584_+	MFS transporter	NA	NA	NA	NA	NA
AUK93701.1|2343602_2344670_-	tartrate dehydrogenase	NA	NA	NA	NA	NA
AUK95302.1|2344774_2346304_-	DNA-binding protein	NA	A0A1X9I5H2	Streptococcus_phage	25.4	3.0e-14
AUK93702.1|2346738_2348313_+	peptide ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK93703.1|2348420_2349437_+	ABC transporter permease	NA	NA	NA	NA	NA
AUK93704.1|2349433_2350273_+	ABC transporter permease	NA	NA	NA	NA	NA
AUK93705.1|2350283_2351915_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	30.6	2.7e-21
AUK93706.1|2351911_2352814_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93707.1|2353004_2354279_+	4-aminobutyrate transaminase	NA	A0A1V0SKB7	Klosneuvirus	27.9	1.6e-24
AUK93708.1|2354308_2354599_+	cupin	NA	NA	NA	NA	NA
AUK95303.1|2354671_2355685_+	acetylpolyamine amidohydrolase	NA	A0A2K9L4C2	Tupanvirus	35.2	1.7e-42
AUK93709.1|2355704_2356967_+	Zn-dependent hydrolase	NA	NA	NA	NA	NA
AUK93710.1|2356969_2357893_+	EamA family transporter	NA	NA	NA	NA	NA
AUK93711.1|2357889_2359383_+	aldehyde dehydrogenase PuuC	NA	NA	NA	NA	NA
AUK93712.1|2359393_2360326_-	glyoxylate/hydroxypyruvate reductase A	NA	NA	NA	NA	NA
AUK93713.1|2360543_2361833_+	aspartate aminotransferase family protein	NA	A0A1C9EHH3	Mycobacterium_phage	22.5	1.8e-07
AUK95304.1|2361867_2363211_-	sodium:alanine symporter family protein	NA	NA	NA	NA	NA
AUK93714.1|2363283_2364804_-	ATP-binding protein	NA	A0A248XCZ8	Klebsiella_phage	44.9	1.7e-78
AUK93715.1|2364958_2365690_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93716.1|2365787_2367098_+	phosphoribosylamine--glycine ligase	NA	NA	NA	NA	NA
AUK93717.1|2367113_2368025_+	coproporphyrinogen III oxidase	NA	NA	NA	NA	NA
AUK95305.1|2368021_2368609_+	nicotinate (nicotinamide) nucleotide adenylyltransferase	NA	NA	NA	NA	NA
AUK93718.1|2368670_2369057_+	ribosome silencing factor	NA	NA	NA	NA	NA
AUK93719.1|2369068_2369539_+	23S rRNA (pseudouridine(1915)-N(3))-methyltransferase RlmH	NA	NA	NA	NA	NA
AUK93720.1|2369550_2370174_+	septum formation protein Maf	NA	NA	NA	NA	NA
AUK93721.1|2370194_2372942_-	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA	NA
AUK93722.1|2379218_2379434_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93723.1|2379420_2380371_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 21
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	2625881	2692333	4103789	transposase	uncultured_Caudovirales_phage(40.0%)	58	NA	NA
AUK93928.1|2625881_2626784_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93929.1|2626799_2627012_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93930.1|2627153_2627726_+	flagellar basal body protein FliL	NA	NA	NA	NA	NA
AUK93931.1|2627728_2628739_+	flagellar motor switch protein FliM	NA	NA	NA	NA	NA
AUK93932.1|2628731_2629232_+	flagellar motor switch protein FliN	NA	NA	NA	NA	NA
AUK93933.1|2629242_2629584_+	flagellar biosynthetic protein FliO	NA	NA	NA	NA	NA
AUK95321.1|2629652_2630387_+	flagellar biosynthetic protein FliP	NA	NA	NA	NA	NA
AUK93934.1|2630403_2630673_+	EscS/YscS/HrcS family type III secretion system export apparatus protein	NA	NA	NA	NA	NA
AUK93935.1|2630695_2631484_+	flagellar biosynthetic protein FliR	NA	NA	NA	NA	NA
AUK95322.1|2631530_2632547_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUK93936.1|2632763_2634206_-	chemotaxis protein	NA	A0A1B0V854	Salmonella_phage	41.8	1.0e-35
AUK93937.1|2634384_2636004_-	methyl-accepting chemotaxis protein	NA	A0A2H4J162	uncultured_Caudovirales_phage	45.3	1.5e-08
AUK93938.1|2636124_2637945_-	methyl-accepting chemotaxis protein	NA	A0A2H4J162	uncultured_Caudovirales_phage	52.6	6.4e-11
AUK93939.1|2638023_2639556_-	flagellar hook-associated protein 3	NA	NA	NA	NA	NA
AUK93940.1|2639589_2641236_-	flagellar hook-associated protein FlgK	NA	NA	NA	NA	NA
AUK93941.1|2641305_2642328_-	flagellar rod assembly protein/muramidase FlgJ	NA	A0A088F6W1	Sulfitobacter_phage	31.4	1.9e-12
AUK93942.1|2642345_2643479_-	flagellar biosynthesis protein FlgI	NA	NA	NA	NA	NA
AUK93943.1|2643481_2644171_-	flagellar basal body L-ring protein	NA	NA	NA	NA	NA
AUK93944.1|2644170_2644956_-	flagellar basal-body rod protein FlgG	NA	NA	NA	NA	NA
AUK93945.1|2644999_2645764_-	flagellar biosynthesis protein FlgF	NA	NA	NA	NA	NA
AUK93946.1|2645802_2647224_-	flagellar hook protein FlgE	NA	NA	NA	NA	NA
AUK93947.1|2647289_2647994_-	flagellar basal body rod modification protein	NA	NA	NA	NA	NA
AUK93948.1|2648041_2648461_-	flagellar basal body rod protein FlgC	NA	NA	NA	NA	NA
AUK93949.1|2648473_2648881_-	flagellar basal body rod protein FlgB	NA	NA	NA	NA	NA
AUK95323.1|2649064_2649775_+	flagella basal body P-ring formation protein FlgA	NA	NA	NA	NA	NA
AUK93950.1|2649901_2650192_+	flagellar biosynthesis anti-sigma factor FlgM	NA	NA	NA	NA	NA
AUK93951.1|2650209_2650692_+	flagellar protein FlgN	NA	NA	NA	NA	NA
AUK93952.1|2655197_2656352_-	flagellar biosynthesis protein FlhB	NA	NA	NA	NA	NA
AUK95324.1|2656657_2657674_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUK93953.1|2657920_2658709_+	amino acid ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK93954.1|2658775_2659456_+	cysteine ABC transporter permease	NA	NA	NA	NA	NA
AUK93955.1|2659452_2660223_+	ATP-binding protein	NA	G9BWD6	Planktothrix_phage	39.1	9.8e-30
AUK93956.1|2660321_2661272_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93957.1|2661327_2662245_-	2-dehydropantoate 2-reductase	NA	NA	NA	NA	NA
AUK93958.1|2662255_2663434_-	mandelate racemase	NA	NA	NA	NA	NA
AUK93959.1|2663453_2664449_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93960.1|2666037_2666646_+	3-isopropylmalate dehydratase small subunit	NA	NA	NA	NA	NA
AUK93961.1|2666633_2667674_+	LacI family transcriptional regulator	NA	NA	NA	NA	NA
AUK93962.1|2667691_2668654_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93963.1|2668650_2669844_-	CoA transferase	NA	NA	NA	NA	NA
AUK93964.1|2669840_2670638_-	citryl-CoA lyase	NA	NA	NA	NA	NA
AUK93965.1|2670663_2671650_-	hypothetical protein	NA	NA	NA	NA	NA
AUK93966.1|2671668_2673708_-	acetyl-CoA synthetase	NA	NA	NA	NA	NA
AUK95325.1|2673909_2674590_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93967.1|2674603_2675515_-	CoA ester lyase	NA	NA	NA	NA	NA
AUK93968.1|2675511_2676090_-	NADPH-dependent FMN reductase	NA	NA	NA	NA	NA
AUK93969.1|2676228_2677134_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93970.1|2677141_2680561_+	nuclease	NA	NA	NA	NA	NA
AUK93971.1|2680548_2683149_-	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA	NA
AUK93972.1|2684104_2684737_-	PadR family transcriptional regulator	NA	NA	NA	NA	NA
AUK93973.1|2685130_2685889_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93974.1|2685885_2687088_+	cardiolipin synthase B	NA	NA	NA	NA	NA
AUK93975.1|2687084_2687285_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93976.1|2687275_2688226_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK93977.1|2689133_2690279_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93978.1|2690265_2691021_+	alpha/beta hydrolase	NA	NA	NA	NA	NA
AUK93979.1|2691137_2691317_+	hypothetical protein	NA	NA	NA	NA	NA
AUK93980.1|2691382_2692333_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 22
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	2914182	2992622	4103789	transposase,tRNA	Planktothrix_phage(18.18%)	60	NA	NA
AUK94156.1|2914182_2915085_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94157.1|2915131_2915686_-	transcription elongation factor GreB	NA	NA	NA	NA	NA
AUK94158.1|2915753_2916599_-	phosphatase	NA	NA	NA	NA	NA
AUK94159.1|2916668_2917637_-	alpha/beta hydrolase	NA	NA	NA	NA	NA
AUK94160.1|2921332_2925226_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94161.1|2925549_2925726_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94162.1|2925994_2929225_-	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA	NA
AUK94163.1|2929506_2930334_-	DNAase	NA	NA	NA	NA	NA
AUK94164.1|2930367_2931063_-	lipoprotein releasing system, ATP-binding protein	NA	G9BWD6	Planktothrix_phage	38.6	7.0e-35
AUK95346.1|2931055_2932288_-	ABC transporter permease	NA	NA	NA	NA	NA
AUK94165.1|2932381_2933323_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95347.1|2933304_2935005_+	single-stranded-DNA-specific exonuclease RecJ	NA	A7KV88	Bacillus_phage	28.3	1.3e-50
AUK94166.1|2935279_2936212_+	peptide chain release factor 2	NA	NA	NA	NA	NA
AUK94167.1|2936241_2936997_+	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUK94168.1|2937003_2938524_+|tRNA	lysine--tRNA ligase	tRNA	A0A1V0SAC0	Catovirus	36.0	1.2e-82
AUK94169.1|2938566_2938869_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94170.1|2938865_2939498_-	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94171.1|2939576_2941442_-	long-chain fatty acid--CoA ligase	NA	A0A1V0SBX8	Catovirus	23.3	9.3e-50
AUK94172.1|2941438_2942254_-	ABC transporter ATP-binding protein	NA	W6JKT0	Anomala_cuprea_entomopoxvirus	23.7	7.5e-12
AUK94173.1|2942261_2943377_-	amino acid ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK94174.1|2943787_2944030_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94175.1|2944281_2945160_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUK94176.1|2945159_2945984_-	ABC transporter ATP-binding protein	NA	A0A2R8FG22	Brazilian_cedratvirus	22.7	1.0e-08
AUK94177.1|2946151_2947054_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94178.1|2947314_2950164_+	diguanylate phosphodiesterase	NA	NA	NA	NA	NA
AUK94179.1|2950145_2950874_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94180.1|2951014_2952478_-	hypothetical protein	NA	A0A075BSJ0	Microcystis_phage	32.5	1.7e-43
AUK94181.1|2952474_2952846_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94182.1|2952863_2954177_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94183.1|2954213_2954672_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94184.1|2954784_2955735_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94185.1|2955731_2956709_-|tRNA	tRNA dihydrouridine(20/20a) synthase DusA	tRNA	NA	NA	NA	NA
AUK94186.1|2956884_2957871_+	homoserine kinase	NA	NA	NA	NA	NA
AUK94187.1|2957914_2958715_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94188.1|2959517_2960420_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94189.1|2960619_2961222_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94190.1|2961240_2961873_+	rRNA methyltransferase	NA	NA	NA	NA	NA
AUK94191.1|2962110_2963997_+	cell division protein FtsH	NA	M4QMW8	Micromonas_pusilla_virus	41.5	1.4e-109
AUK94192.1|2964015_2964858_+	dihydropteroate synthase	NA	A0A0B5J4J5	Pandoravirus	32.5	3.2e-26
AUK94193.1|2964854_2966213_+	phosphoglucosamine mutase	NA	NA	NA	NA	NA
AUK94194.1|2966433_2967228_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUK94195.1|2967458_2968952_-	exopolyphosphatase	NA	NA	NA	NA	NA
AUK94196.1|2969187_2971269_+	RNA degradosome polyphosphate kinase	NA	NA	NA	NA	NA
AUK94197.1|2971463_2972504_+	phosphate ABC transporter substrate-binding protein PstS	NA	M4QHS4	Cyanophage	40.2	2.1e-51
AUK94198.1|2972638_2973655_+	phosphate ABC transporter permease subunit PstC	NA	NA	NA	NA	NA
AUK94199.1|2973697_2974534_+	phosphate ABC transporter, permease protein PstA	NA	NA	NA	NA	NA
AUK95348.1|2974578_2975355_+	phosphate ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	28.7	4.3e-17
AUK94200.1|2975722_2976673_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94201.1|2976699_2977164_-	barstar family protein 2	NA	NA	NA	NA	NA
AUK94202.1|2978370_2980659_-	NADP-dependent malic enzyme	NA	NA	NA	NA	NA
AUK94203.1|2980775_2981648_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94204.1|2981690_2982845_+	aminotransferase	NA	NA	NA	NA	NA
AUK94205.1|2982879_2983710_-	lytic transglycosylase	NA	NA	NA	NA	NA
AUK94206.1|2983793_2985338_+	3-octaprenyl-4-hydroxybenzoate decarboxylase	NA	NA	NA	NA	NA
AUK94207.1|2985380_2985740_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94208.1|2985741_2986155_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94209.1|2986195_2986513_-	hypothetical protein	NA	NA	NA	NA	NA
AUK95349.1|2986597_2987311_-	hypothetical protein	NA	NA	NA	NA	NA
AUK95350.1|2987577_2988999_+	uroporphyrinogen-III C-methyltransferase	NA	NA	NA	NA	NA
AUK94210.1|2991671_2992622_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 23
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	3002832	3075455	4103789	transposase,tRNA	Pseudomonas_phage(16.67%)	59	NA	NA
AUK95353.1|3002832_3003849_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUK94218.1|3004786_3006214_+|tRNA	tRNA (N6-isopentenyl adenosine(37)-C2)-methylthiotransferase MiaB	tRNA	NA	NA	NA	NA
AUK94219.1|3006210_3007233_+	phosphate starvation-inducible protein PhoH	NA	A0A0S0MVD6	Pseudomonas_phage	45.4	8.7e-50
AUK94220.1|3007222_3007696_+	rRNA maturation RNase YbeY	NA	NA	NA	NA	NA
AUK94221.1|3007836_3008724_+	magnesium/cobalt efflux protein	NA	NA	NA	NA	NA
AUK94222.1|3008720_3010364_+	apolipoprotein N-acyltransferase	NA	NA	NA	NA	NA
AUK95354.1|3010360_3011368_-	aldo/keto reductase	NA	NA	NA	NA	NA
AUK95355.1|3012198_3013215_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUK94223.1|3013314_3013947_-	protein phosphatase CheZ	NA	NA	NA	NA	NA
AUK94224.1|3013955_3014345_-	two-component system response regulator	NA	Q56AR1	Bacillus_thuringiensis_phage	33.3	5.7e-10
AUK94225.1|3014397_3015450_-	chemotaxis response regulator protein-glutamate methylesterase	NA	NA	NA	NA	NA
AUK94226.1|3016313_3017078_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94227.1|3017151_3017652_-	chemotaxis protein CheW	NA	NA	NA	NA	NA
AUK94228.1|3017666_3019724_-	chemotaxis protein CheA	NA	NA	NA	NA	NA
AUK94229.1|3019750_3020044_-	two-component system response regulator	NA	NA	NA	NA	NA
AUK94230.1|3020145_3021093_-	flagellar motor protein MotB	NA	NA	NA	NA	NA
AUK94231.1|3021105_3021981_-	flagellar motor stator protein MotA	NA	NA	NA	NA	NA
AUK94232.1|3022101_3022662_-	transcriptional regulator FlhC	NA	NA	NA	NA	NA
AUK94233.1|3022696_3023020_-	flagellar transcriptional activator FlhD	NA	NA	NA	NA	NA
AUK94234.1|3023455_3024193_+	RNA polymerase sigma factor FliA	NA	NA	NA	NA	NA
AUK94235.1|3024491_3025394_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94236.1|3025685_3025949_+	translation initiation factor IF-1	NA	NA	NA	NA	NA
AUK94237.1|3026022_3026304_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95356.1|3026320_3027163_-	peptidase	NA	A0A292GJG6	Xanthomonas_phage	36.1	2.6e-15
AUK94238.1|3027177_3027513_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94239.1|3027566_3028217_-	molybdopterin adenylyltransferase	NA	NA	NA	NA	NA
AUK94240.1|3029897_3030842_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94241.1|3030887_3031205_-	MerR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94242.1|3031207_3032146_-	cytochrome C biogenesis protein	NA	A0A0P0YMJ9	Yellowstone_lake_phycodnavirus	24.1	5.6e-11
AUK94243.1|3032323_3032809_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUK94244.1|3032827_3033376_+	damage-inducible protein DinB	NA	NA	NA	NA	NA
AUK94245.1|3034889_3035531_+	glutathione S-transferase	NA	NA	NA	NA	NA
AUK95357.1|3035685_3038034_+	3-hydroxyalkanoate synthetase	NA	NA	NA	NA	NA
AUK94246.1|3038030_3038969_+	phosphate acetyltransferase	NA	NA	NA	NA	NA
AUK94247.1|3038994_3040185_+	acetate kinase	NA	NA	NA	NA	NA
AUK94248.1|3040181_3040955_+	enoyl-[acyl-carrier-protein] reductase	NA	NA	NA	NA	NA
AUK94249.1|3040984_3042178_-	phosphoglycerate kinase	NA	NA	NA	NA	NA
AUK94250.1|3042295_3043306_-	type I glyceraldehyde-3-phosphate dehydrogenase	NA	NA	NA	NA	NA
AUK94251.1|3043323_3045360_-	transketolase	NA	NA	NA	NA	NA
AUK94252.1|3045554_3046295_+	16S rRNA (uracil(1498)-N(3))-methyltransferase	NA	NA	NA	NA	NA
AUK94253.1|3046441_3047344_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94254.1|3048434_3049610_+	flagellin	NA	NA	NA	NA	NA
AUK94255.1|3049831_3051622_-	dihydrolipoyl dehydrogenase	NA	A0A2K5B2C5	Erysipelothrix_phage	25.2	2.4e-39
AUK94256.1|3051634_3053296_-	dihydrolipoyllysine-residue acetyltransferase	NA	NA	NA	NA	NA
AUK94257.1|3053308_3056014_-	pyruvate dehydrogenase (acetyl-transferring), homodimeric type	NA	NA	NA	NA	NA
AUK94258.1|3056306_3058061_+	PAS domain-containing sensor histidine kinase	NA	NA	NA	NA	NA
AUK94259.1|3058057_3058684_+	DNA-binding response regulator	NA	NA	NA	NA	NA
AUK94260.1|3058680_3059532_+	bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase	NA	A0A249XZQ2	Enterococcus_phage	39.8	2.1e-33
AUK94261.1|3059661_3061722_+	oligopeptidase A	NA	NA	NA	NA	NA
AUK94262.1|3061908_3062523_+	SCO family protein	NA	NA	NA	NA	NA
AUK94263.1|3062668_3062920_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94264.1|3062989_3064372_-	multidrug transporter	NA	NA	NA	NA	NA
AUK94265.1|3064368_3067548_-	multidrug efflux RND transporter permease	NA	NA	NA	NA	NA
AUK95358.1|3068355_3069273_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94266.1|3069324_3070056_-	pseudouridylate synthase	NA	NA	NA	NA	NA
AUK94267.1|3070115_3070688_+	chorismate--pyruvate lyase	NA	NA	NA	NA	NA
AUK95359.1|3072196_3073213_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUK94268.1|3073350_3074400_-	aldo/keto reductase	NA	NA	NA	NA	NA
AUK94269.1|3074552_3075455_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 24
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	3094855	3159795	4103789	transposase	Bacillus_phage(18.18%)	58	NA	NA
AUK94287.1|3094855_3095806_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK95361.1|3095904_3096234_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94288.1|3096523_3097513_-	ADP-glyceromanno-heptose 6-epimerase	NA	E3SJ87	Synechococcus_phage	34.4	2.2e-26
AUK94289.1|3097509_3098451_-	hypothetical protein	NA	A0A2H4N7X4	Lake_Baikal_phage	28.1	1.5e-16
AUK94290.1|3098447_3099668_-	lipopolysaccharide assembly protein LapB	NA	NA	NA	NA	NA
AUK94291.1|3099710_3100025_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94292.1|3100216_3100576_-	integration host factor subunit beta	NA	NA	NA	NA	NA
AUK94293.1|3100577_3102293_-	30S ribosomal protein S1	NA	NA	NA	NA	NA
AUK94294.1|3102480_3103152_-	cytidylate kinase	NA	NA	NA	NA	NA
AUK94295.1|3103166_3104495_-	3-phosphoshikimate 1-carboxyvinyltransferase	NA	NA	NA	NA	NA
AUK94296.1|3104491_3105391_-	prephenate dehydrogenase	NA	NA	NA	NA	NA
AUK94297.1|3105477_3106563_-	chorismate mutase	NA	NA	NA	NA	NA
AUK95362.1|3106555_3107686_-	phosphoserine transaminase	NA	M1Q1P2	Streptococcus_phage	44.0	4.9e-78
AUK94298.1|3107688_3110370_-	DNA gyrase subunit A	NA	G3M9Z5	Bacillus_virus	33.5	3.2e-104
AUK94299.1|3110740_3111322_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94300.1|3111447_3112173_+	bifunctional 3-demethylubiquinol 3-O-methyltransferase/2-polyprenyl-6-hydroxyphenol methylase	NA	NA	NA	NA	NA
AUK94301.1|3112169_3112847_+	phosphoglycolate phosphatase	NA	NA	NA	NA	NA
AUK94302.1|3113062_3114244_+	MFS transporter	NA	NA	NA	NA	NA
AUK94303.1|3115016_3115199_+	addiction module toxin, HicA family	NA	A0A1L2JY37	Aeribacillus_phage	56.1	3.7e-12
AUK94304.1|3115228_3116179_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK95363.1|3116308_3116701_+	hypothetical protein	NA	A0A0R6PJ17	Moraxella_phage	45.0	4.8e-25
AUK94305.1|3116977_3117868_-	LysR family transcriptional regulator	NA	Q6JIH3	Burkholderia_virus	27.6	4.3e-05
AUK94306.1|3118013_3118988_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94307.1|3118984_3119887_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94308.1|3120033_3121119_-	DNA polymerase IV	NA	NA	NA	NA	NA
AUK94309.1|3121216_3121627_+	phenylacetic acid degradation protein	NA	NA	NA	NA	NA
AUK94310.1|3122242_3124156_+	S9 family peptidase	NA	NA	NA	NA	NA
AUK94311.1|3124291_3126904_+	penicillin-binding protein	NA	NA	NA	NA	NA
AUK94312.1|3126905_3127640_-	serine/threonine protein phosphatase	NA	A0A2H4J0P0	uncultured_Caudovirales_phage	49.2	1.9e-62
AUK94313.1|3127803_3128985_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94314.1|3128981_3129194_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94315.1|3129190_3130171_-	alcohol dehydrogenase	NA	NA	NA	NA	NA
AUK95364.1|3130216_3131044_-	oxidoreductase	NA	A0A2H4PQR8	Staphylococcus_phage	47.4	1.7e-67
AUK95365.1|3131193_3133008_+	metal ABC transporter permease	NA	W8CYL7	Bacillus_phage	27.9	5.7e-44
AUK94316.1|3133062_3133446_+	Rieske (2Fe-2S) protein	NA	NA	NA	NA	NA
AUK94317.1|3133442_3134345_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94318.1|3134505_3134757_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94319.1|3134950_3135166_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94320.1|3135262_3136381_-	N-acylglucosamine 2-epimerase	NA	NA	NA	NA	NA
AUK94321.1|3136500_3136713_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94322.1|3136872_3137082_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94323.1|3137146_3138097_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94324.1|3139273_3140644_-	acetyl-CoA carboxylase biotin carboxylase subunit	NA	NA	NA	NA	NA
AUK94325.1|3140676_3141468_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94326.1|3141480_3142536_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94327.1|3142561_3143437_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94328.1|3143542_3143791_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94329.1|3143825_3145280_-	carboxylase	NA	NA	NA	NA	NA
AUK94330.1|3145276_3145798_-	acetyl-CoA carboxylase, biotin carboxyl carrier protein	NA	NA	NA	NA	NA
AUK94331.1|3145826_3147179_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94332.1|3147402_3150291_-	metal-dependent phosphohydrolase	NA	NA	NA	NA	NA
AUK94333.1|3152435_3153737_+	phospholipase	NA	NA	NA	NA	NA
AUK94334.1|3153751_3154468_-	flagellar brake protein	NA	NA	NA	NA	NA
AUK94335.1|3154749_3155430_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94336.1|3155441_3155609_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94337.1|3155957_3156617_-	thiopurine S-methyltransferase	NA	NA	NA	NA	NA
AUK94338.1|3157015_3158848_+	multidrug ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	26.4	1.3e-27
AUK94339.1|3158844_3159795_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 25
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	3169407	3218623	4103789	transposase,holin	Acidithiobacillus_phage(33.33%)	42	NA	NA
AUK94348.1|3169407_3170358_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94349.1|3170498_3171716_+	threonine ammonia-lyase	NA	NA	NA	NA	NA
AUK94350.1|3171709_3172321_-	PIN domain-containing protein	NA	K4HZX4	Acidithiobacillus_phage	32.5	3.3e-12
AUK94351.1|3172954_3173932_+	NAD(P)H-quinone oxidoreductase	NA	NA	NA	NA	NA
AUK94352.1|3174075_3174822_+	triose-phosphate isomerase	NA	NA	NA	NA	NA
AUK94353.1|3174843_3175290_+	preprotein translocase subunit SecG	NA	NA	NA	NA	NA
AUK94354.1|3176077_3178309_+|holin	high-affinity choline transporter BetT	holin	NA	NA	NA	NA
AUK94355.1|3178331_3179132_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94356.1|3179413_3180646_+	methylaspartate ammonia-lyase	NA	NA	NA	NA	NA
AUK94357.1|3180756_3181746_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94358.1|3181776_3183165_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94359.1|3183212_3183587_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94360.1|3183577_3184705_+	argininosuccinate lyase	NA	NA	NA	NA	NA
AUK94361.1|3184763_3185747_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK95367.1|3185943_3186960_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUK94362.1|3187156_3187981_-	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
AUK94363.1|3188058_3188949_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94364.1|3189152_3190304_+	cystathionine beta-lyase	NA	NA	NA	NA	NA
AUK94365.1|3190337_3191339_+	peptidase M14	NA	NA	NA	NA	NA
AUK94366.1|3191467_3192439_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94367.1|3192463_3194548_+	rhodanese-like domain-containing protein	NA	NA	NA	NA	NA
AUK94368.1|3194614_3195607_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94369.1|3195715_3197050_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94370.1|3197075_3199088_-	hydantoin utilization protein B	NA	NA	NA	NA	NA
AUK95368.1|3199084_3201133_-	hydantoinase	NA	NA	NA	NA	NA
AUK94371.1|3201236_3201884_+	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUK95369.1|3202066_3202519_+	azurin	NA	NA	NA	NA	NA
AUK94372.1|3202562_3203234_-	MarR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94373.1|3203248_3204742_-	RND transporter	NA	NA	NA	NA	NA
AUK94374.1|3204738_3207852_-	multidrug efflux protein	NA	S5VTK5	Leptospira_phage	21.5	4.5e-57
AUK94375.1|3207864_3208971_-	efflux transporter periplasmic adaptor subunit	NA	NA	NA	NA	NA
AUK94376.1|3209094_3209763_-	transcriptional regulator	NA	NA	NA	NA	NA
AUK94377.1|3209983_3210934_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94378.1|3211016_3212975_+|holin	choline transporter	holin	A0A2I7QNT1	Vibrio_phage	30.3	8.0e-28
AUK94379.1|3213002_3213704_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94380.1|3213850_3214666_+	diacylglycerol kinase	NA	NA	NA	NA	NA
AUK94381.1|3214662_3215478_+	DNA repair exonuclease	NA	NA	NA	NA	NA
AUK94382.1|3215542_3216298_+	acid phosphatase	NA	NA	NA	NA	NA
AUK94383.1|3216281_3216716_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94384.1|3216712_3217147_-	thioesterase	NA	NA	NA	NA	NA
AUK95370.1|3217148_3217748_-	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94385.1|3217720_3218623_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 26
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	3251466	3324580	4103789	transposase	Klosneuvirus(16.67%)	59	NA	NA
AUK94411.1|3251466_3252369_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94412.1|3252365_3253385_-	fructose-bisphosphatase	NA	A0A1V0SKX4	Klosneuvirus	35.7	1.5e-49
AUK94413.1|3253394_3256103_-	aminopeptidase N	NA	A0A0P0IY26	Acinetobacter_phage	24.0	2.8e-15
AUK94414.1|3256250_3256907_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94415.1|3257005_3257956_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK95373.1|3258103_3258997_+	mechanosensitive ion channel protein	NA	NA	NA	NA	NA
AUK94416.1|3259196_3260891_+	acetolactate synthase	NA	NA	NA	NA	NA
AUK94417.1|3260925_3261852_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95374.1|3261920_3263018_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94418.1|3263036_3263900_+	ABC transporter	NA	G3M9Y6	Bacillus_virus	38.9	9.6e-34
AUK94419.1|3263911_3264694_+	ABC transporter permease	NA	NA	NA	NA	NA
AUK94420.1|3264690_3265809_+	deacylase	NA	NA	NA	NA	NA
AUK94421.1|3265805_3267338_+	acetyl-CoA synthetase	NA	NA	NA	NA	NA
AUK94422.1|3267378_3268386_+	zinc-binding dehydrogenase	NA	NA	NA	NA	NA
AUK95375.1|3268617_3269253_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94423.1|3269268_3270291_-	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA	NA
AUK94424.1|3270607_3271342_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94425.1|3271426_3273172_+	acetolactate synthase catalytic subunit	NA	NA	NA	NA	NA
AUK94426.1|3273168_3273921_+	3-ketoacyl-ACP reductase	NA	NA	NA	NA	NA
AUK94427.1|3273965_3274922_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK94428.1|3275010_3275577_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94429.1|3275584_3276445_-	D-amino acid aminotransferase	NA	NA	NA	NA	NA
AUK94430.1|3276474_3277203_-	arginine transporter ATP-binding subunit	NA	G9BWD6	Planktothrix_phage	42.4	3.4e-32
AUK94431.1|3277234_3277918_-	amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUK94432.1|3278115_3278349_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94433.1|3278755_3279670_-	amino acid ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK94434.1|3279734_3280643_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94435.1|3280733_3282158_-	CyaE	NA	NA	NA	NA	NA
AUK94436.1|3282159_3283482_-	hemolysin D	NA	NA	NA	NA	NA
AUK94437.1|3283478_3285617_-	peptidase C39	NA	W8CYL7	Bacillus_phage	29.2	2.7e-45
AUK94438.1|3285694_3290917_-	hemolysin	NA	NA	NA	NA	NA
AUK95376.1|3291001_3291181_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94439.1|3291293_3291851_+	cyclolysin-activating lysine-acyltransferase CyaC	NA	NA	NA	NA	NA
AUK94440.1|3291866_3293348_-	succinate-semialdehyde dehydrogenase (NADP(+))	NA	NA	NA	NA	NA
AUK94441.1|3295518_3296856_-	amino acid deaminase	NA	NA	NA	NA	NA
AUK94442.1|3296890_3298888_-	hydantoin utilization protein B	NA	NA	NA	NA	NA
AUK94443.1|3298905_3300954_-	hydantoinase	NA	NA	NA	NA	NA
AUK94444.1|3301084_3301951_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94445.1|3302219_3303185_-	octaprenyl diphosphate synthase	NA	NA	NA	NA	NA
AUK94446.1|3303299_3304448_-	fumarylacetoacetate hydrolase	NA	NA	NA	NA	NA
AUK94447.1|3304872_3305184_+	50S ribosomal protein L21	NA	NA	NA	NA	NA
AUK94448.1|3305217_3305478_+	50S ribosomal protein L27	NA	NA	NA	NA	NA
AUK94449.1|3305627_3306761_+	GTPase ObgE	NA	NA	NA	NA	NA
AUK94450.1|3306831_3307968_+	glutamate 5-kinase	NA	A0A1X9I5D0	Streptococcus_phage	44.8	5.8e-63
AUK94451.1|3308133_3308928_-	transcriptional regulator	NA	NA	NA	NA	NA
AUK94452.1|3309011_3309434_+	transcriptional regulator	NA	NA	NA	NA	NA
AUK94453.1|3309549_3310500_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK95377.1|3310682_3311030_+	transcriptional regulator	NA	NA	NA	NA	NA
AUK94454.1|3311102_3313298_+	DNA methylase	NA	NA	NA	NA	NA
AUK94455.1|3313567_3314470_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94456.1|3314582_3315008_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94457.1|3315085_3316057_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94458.1|3316176_3318621_+	ligand-gated channel	NA	NA	NA	NA	NA
AUK94459.1|3318636_3319227_-	polyisoprenoid-binding protein	NA	NA	NA	NA	NA
AUK94460.1|3319273_3319429_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94461.1|3319470_3320373_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94462.1|3320578_3321844_-	saccharopine dehydrogenase	NA	NA	NA	NA	NA
AUK94463.1|3321877_3322975_-	carboxynorspermidine decarboxylase	NA	NA	NA	NA	NA
AUK94464.1|3323629_3324580_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 27
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	3335867	3435979	4103789	transposase,terminase,tRNA,tail	uncultured_Caudovirales_phage(14.29%)	107	NA	NA
AUK94475.1|3335867_3336818_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94476.1|3337549_3337927_+	4a-hydroxytetrahydrobiopterin dehydratase	NA	NA	NA	NA	NA
AUK94477.1|3337911_3338613_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94478.1|3338756_3339449_-	mannose-1-phosphate guanylyltransferase	NA	NA	NA	NA	NA
AUK95378.1|3339448_3340489_-	aminoglycoside phosphotransferase	NA	NA	NA	NA	NA
AUK94479.1|3340667_3343034_+	LPS biosynthesis protein	NA	NA	NA	NA	NA
AUK94480.1|3343030_3344590_+	molecular chaperone SurA	NA	NA	NA	NA	NA
AUK94481.1|3344614_3345412_+	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))- dimethyltransferase	NA	NA	NA	NA	NA
AUK94482.1|3345443_3346589_-	glycerate kinase	NA	W6LM47	Streptococcus_phage	42.2	1.7e-41
AUK94483.1|3346693_3348136_+	pyruvate kinase	NA	NA	NA	NA	NA
AUK94484.1|3348138_3349368_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94485.1|3351505_3352456_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94486.1|3353585_3354143_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94487.1|3354118_3354469_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94488.1|3354637_3355432_-	iron ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	30.6	2.4e-15
AUK94489.1|3355428_3356478_-	iron-siderophore ABC transporter permease	NA	NA	NA	NA	NA
AUK94490.1|3356477_3357167_-	tol-pal system protein YbgF	NA	NA	NA	NA	NA
AUK94491.1|3357253_3357751_-	peptidoglycan-associated lipoprotein	NA	NA	NA	NA	NA
AUK94492.1|3357782_3359099_-	Tol-Pal system beta propeller repeat protein TolB	NA	NA	NA	NA	NA
AUK94493.1|3359115_3360090_-	protein TolA	NA	NA	NA	NA	NA
AUK94494.1|3360126_3360585_-	protein TolR	NA	NA	NA	NA	NA
AUK94495.1|3360584_3361265_-	protein TolQ	NA	NA	NA	NA	NA
AUK94496.1|3361267_3361696_-	tol-pal system-associated acyl-CoA thioesterase	NA	NA	NA	NA	NA
AUK94497.1|3361748_3363479_-|tRNA	proline--tRNA ligase	tRNA	A0A2K9L3R9	Tupanvirus	29.4	4.6e-11
AUK94498.1|3363544_3364117_+	RNA pyrophosphohydrolase	NA	NA	NA	NA	NA
AUK94499.1|3364097_3364784_+	DNA-binding response regulator	NA	NA	NA	NA	NA
AUK94500.1|3364843_3365212_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94501.1|3365139_3365811_+	hypothetical protein	NA	Q5QF62	Pseudomonas_virus	39.9	4.7e-36
AUK94502.1|3366139_3366361_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94503.1|3366360_3366642_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94504.1|3366638_3367154_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94505.1|3367153_3367705_-	lysozyme	NA	NA	NA	NA	NA
AUK94506.1|3367683_3367926_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94507.1|3367930_3368743_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94508.1|3368742_3369006_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94509.1|3369224_3369641_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94510.1|3369645_3373602_-	hypothetical protein	NA	A0A0B5A1N2	Achromobacter_phage	40.8	3.9e-215
AUK94511.1|3373594_3373984_-	hypothetical protein	NA	A0A0G3EYJ9	Achromobacter_phage	50.0	3.0e-35
AUK94512.1|3373980_3374514_-	hypothetical protein	NA	A5A3Q9	Burkholderia_phage	46.9	1.1e-40
AUK94513.1|3374581_3374941_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94514.1|3374950_3377563_-|tail	phage tail tape measure protein	tail	A0A2H4J107	uncultured_Caudovirales_phage	38.6	4.9e-105
AUK94515.1|3377588_3377879_-	hypothetical protein	NA	A0A2H4JBP7	uncultured_Caudovirales_phage	45.2	3.7e-14
AUK94516.1|3377896_3378226_-	hypothetical protein	NA	A0A2H4J121	uncultured_Caudovirales_phage	44.0	2.9e-15
AUK94517.1|3378235_3378754_-|tail	phage tail protein	tail	A0A1S5R1H0	Pseudomonas_phage	38.3	5.4e-24
AUK94518.1|3379008_3379509_-	HNH endonuclease	NA	A0A1I9SEX5	Klebsiella_phage	45.1	4.4e-31
AUK94519.1|3379516_3379939_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94520.1|3379935_3380334_-	hypothetical protein	NA	I6PCW1	Cronobacter_phage	38.0	4.2e-16
AUK94521.1|3380330_3380726_-	hypothetical protein	NA	A0A2D2W284	Stenotrophomonas_phage	35.0	7.8e-07
AUK94522.1|3380725_3380926_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94523.1|3380927_3381410_-	hypothetical protein	NA	A0A2H4JE38	uncultured_Caudovirales_phage	37.1	1.8e-13
AUK94524.1|3381472_3381724_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94525.1|3382398_3383349_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94526.1|3383777_3384380_-	hypothetical protein	NA	R9TF81	Synechococcus_phage	43.6	7.9e-27
AUK94527.1|3384502_3384745_-	hypothetical protein	NA	A0A0H5AUE5	Pseudomonas_phage	53.2	5.6e-16
AUK94528.1|3384750_3385863_-	hypothetical protein	NA	A0A0H5BBX3	Pseudomonas_phage	49.7	2.1e-102
AUK94529.1|3385834_3387253_-	hypothetical protein	NA	R9TF43	Synechococcus_phage	42.1	2.2e-99
AUK94530.1|3387255_3388533_-|terminase	terminase	terminase	A0A1B1P9C9	Acinetobacter_phage	64.7	2.4e-150
AUK94531.1|3388519_3389005_-|terminase	terminase	terminase	C7U0W1	Enterobacteria_phage	61.5	7.3e-39
AUK94532.1|3389644_3390547_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94533.1|3390612_3390834_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94534.1|3390848_3391547_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94535.1|3391539_3391860_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95379.1|3392339_3392951_+	LexA family transcriptional repressor	NA	NA	NA	NA	NA
AUK94536.1|3393022_3393229_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94537.1|3393480_3394383_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94538.1|3394529_3395603_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94539.1|3395770_3396565_+	metal ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK94540.1|3396604_3397129_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94541.1|3397121_3398864_-	sulfite reductase	NA	NA	NA	NA	NA
AUK94542.1|3399073_3399832_-	ABC transporter ATP-binding protein	NA	W6JKT0	Anomala_cuprea_entomopoxvirus	24.4	4.4e-14
AUK94543.1|3399834_3400542_-	ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	25.4	8.2e-07
AUK94544.1|3400558_3401440_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUK94545.1|3401450_3402209_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUK95380.1|3402177_3402933_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94546.1|3403002_3404421_+	amidase	NA	NA	NA	NA	NA
AUK94547.1|3404442_3405093_-	carbonate dehydratase	NA	NA	NA	NA	NA
AUK94548.1|3405226_3405562_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94549.1|3406676_3408497_+	ATP-dependent DNA helicase RecQ	NA	L7RCS0	Acanthamoeba_polyphaga_moumouvirus	35.3	3.1e-74
AUK94550.1|3408501_3409575_-	Holliday junction DNA helicase RuvB	NA	A0A127AWE7	Bacillus_phage	25.7	2.3e-08
AUK94551.1|3409697_3410666_+	serine dehydratase	NA	NA	NA	NA	NA
AUK94552.1|3410739_3411651_+	NAD-dependent dehydratase	NA	NA	NA	NA	NA
AUK94553.1|3411669_3412242_-	Holliday junction DNA helicase RuvA	NA	NA	NA	NA	NA
AUK94554.1|3412322_3412871_-	crossover junction endodeoxyribonuclease RuvC	NA	NA	NA	NA	NA
AUK94555.1|3412870_3414460_-	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase	NA	Q58MG4	Prochlorococcus_phage	47.2	8.7e-65
AUK94556.1|3414529_3414769_-	Fis family transcriptional regulator	NA	NA	NA	NA	NA
AUK94557.1|3414809_3415835_-|tRNA	tRNA dihydrouridine synthase DusB	tRNA	NA	NA	NA	NA
AUK94558.1|3415900_3417073_-	monooxygenase	NA	NA	NA	NA	NA
AUK94559.1|3417178_3417631_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94560.1|3417640_3418981_-	Xaa-Pro aminopeptidase	NA	NA	NA	NA	NA
AUK94561.1|3419297_3420335_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94562.1|3420716_3421076_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95381.1|3421159_3422101_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94563.1|3422223_3423126_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94564.1|3423419_3424514_+	porin	NA	NA	NA	NA	NA
AUK95382.1|3424604_3425477_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94565.1|3425498_3426338_-	UTP--glucose-1-phosphate uridylyltransferase	NA	A0A127AW70	Bacillus_phage	48.9	1.1e-66
AUK94566.1|3426413_3427931_+	peptidase	NA	NA	NA	NA	NA
AUK94567.1|3428027_3429128_-	alpha/beta hydrolase	NA	NA	NA	NA	NA
AUK94568.1|3429144_3429567_-	DUF4440 domain-containing protein	NA	NA	NA	NA	NA
AUK94569.1|3429589_3429802_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94570.1|3429848_3430769_-	branched chain amino acid aminotransferase	NA	NA	NA	NA	NA
AUK94571.1|3430951_3431701_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94572.1|3431703_3432033_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94573.1|3432239_3433673_+	ATP-dependent RNA helicase	NA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	34.4	1.5e-52
AUK94574.1|3433684_3434068_-	thiol reductase thioredoxin	NA	NA	NA	NA	NA
AUK94575.1|3434129_3434930_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94576.1|3435028_3435979_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 28
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	3596646	3651620	4103789	transposase	Lake_Baikal_phage(20.0%)	46	NA	NA
AUK94715.1|3596646_3597597_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94716.1|3597713_3598781_+	choloylglycine hydrolase	NA	NA	NA	NA	NA
AUK94717.1|3598856_3601985_-	ribonuclease E/G	NA	NA	NA	NA	NA
AUK94718.1|3602552_3603458_+	RNA pseudouridine synthase	NA	NA	NA	NA	NA
AUK94719.1|3603460_3604132_+	HAD family hydrolase	NA	NA	NA	NA	NA
AUK94720.1|3604288_3605248_+	mononuclear molybdenum enzyme YedY	NA	NA	NA	NA	NA
AUK94721.1|3605255_3605918_+	sulfoxide reductase heme-binding subunit YedZ	NA	NA	NA	NA	NA
AUK94722.1|3605914_3606865_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94723.1|3606986_3608240_+	carnitine dehydratase	NA	NA	NA	NA	NA
AUK94724.1|3608217_3609180_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94725.1|3609311_3609806_+	dehydratase	NA	NA	NA	NA	NA
AUK94726.1|3609805_3611038_+	mesaconyl-CoA isomerase	NA	NA	NA	NA	NA
AUK95391.1|3611172_3611397_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94727.1|3611466_3611697_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94728.1|3611783_3612065_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94729.1|3612051_3613038_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94730.1|3613181_3613586_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94731.1|3613727_3617114_+	molybdopterin oxidoreductase	NA	NA	NA	NA	NA
AUK94732.1|3617144_3618608_+	Short chain fatty acid transporter	NA	NA	NA	NA	NA
AUK95392.1|3618628_3620245_+	1-pyrroline-5-carboxylate dehydrogenase	NA	NA	NA	NA	NA
AUK94733.1|3620330_3620990_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94734.1|3621019_3621460_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94735.1|3621970_3622174_+	cold-shock protein	NA	A0A2H4N7Y6	Lake_Baikal_phage	58.2	5.8e-14
AUK94736.1|3622349_3623255_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94737.1|3623401_3624304_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94738.1|3624402_3625353_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94739.1|3627134_3628328_-	acetyl-CoA acetyltransferase	NA	NA	NA	NA	NA
AUK94740.1|3628393_3629422_-	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUK94741.1|3629448_3630621_-	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUK94742.1|3630746_3631724_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94743.1|3631734_3632706_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK94744.1|3632772_3633558_-	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUK94745.1|3633550_3634783_-	CoA transferase	NA	NA	NA	NA	NA
AUK94746.1|3634978_3635734_-	hypothetical protein	NA	A0A0R6PEZ3	Moraxella_phage	40.8	2.9e-42
AUK94747.1|3635844_3636363_+	methyltransferase	NA	G3MA03	Bacillus_virus	38.9	2.1e-12
AUK95393.1|3638151_3639552_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94748.1|3639651_3639996_+	TIGR01244 family protein	NA	NA	NA	NA	NA
AUK94749.1|3640084_3640555_+	universal stress protein	NA	NA	NA	NA	NA
AUK94750.1|3640965_3641364_+	elongation factor G	NA	E4ZFJ7	Streptococcus_phage	44.3	9.0e-19
AUK94751.1|3641495_3642398_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94752.1|3644890_3645625_+	DNA polymerase III subunit epsilon	NA	A0A1X9SH08	Bradyrhizobium_phage	43.8	1.4e-41
AUK94753.1|3646034_3646214_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95394.1|3646404_3647718_+	short-chain fatty acid transporter	NA	NA	NA	NA	NA
AUK94754.1|3647733_3649245_-	TRAP ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK94755.1|3649241_3650447_-	sodium/glutamate symporter	NA	NA	NA	NA	NA
AUK94756.1|3650642_3651620_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 29
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	3659479	3718899	4103789	transposase,tRNA	Streptococcus_phage(50.0%)	57	NA	NA
AUK94765.1|3659479_3660382_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94766.1|3660457_3661438_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94767.1|3661898_3662498_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94768.1|3662566_3663559_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94769.1|3663608_3665198_+	sulfurtransferase	NA	NA	NA	NA	NA
AUK94770.1|3665238_3666135_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94771.1|3666131_3667838_+	thiamine pyrophosphate-binding protein	NA	NA	NA	NA	NA
AUK94772.1|3668005_3669184_+	carnitine dehydratase	NA	NA	NA	NA	NA
AUK94773.1|3669180_3669951_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUK94774.1|3670627_3671611_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94775.1|3671709_3672612_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK95395.1|3672758_3673712_-	thioredoxin-disulfide reductase	NA	A0A2I2L5E1	Orpheovirus	42.5	5.6e-59
AUK94776.1|3674016_3674826_+	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94777.1|3674959_3676279_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94778.1|3676167_3676560_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94779.1|3676556_3677201_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94780.1|3677197_3678418_+	acyl-CoA transferase	NA	NA	NA	NA	NA
AUK94781.1|3678440_3679436_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94782.1|3679508_3680714_-	CoA transferase	NA	NA	NA	NA	NA
AUK94783.1|3680710_3680959_-	NrdH-redoxin	NA	NA	NA	NA	NA
AUK94784.1|3680955_3681867_-	reductase	NA	NA	NA	NA	NA
AUK94785.1|3682057_3682960_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94786.1|3682956_3683529_-	cysteine methyltransferase	NA	M1PFU9	Streptococcus_phage	42.5	3.2e-25
AUK94787.1|3683525_3684464_-	16S rRNA (cytidine(1402)-2'-O)-methyltransferase	NA	NA	NA	NA	NA
AUK94788.1|3684765_3685065_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95396.1|3685073_3685667_+	phosphoheptose isomerase	NA	A0A067XQR2	Caulobacter_phage	34.8	5.6e-17
AUK94789.1|3685663_3686407_+	phospholipid-binding protein	NA	NA	NA	NA	NA
AUK94790.1|3686403_3686895_+	thioredoxin	NA	NA	NA	NA	NA
AUK94791.1|3687035_3687824_-	methionine ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK94792.1|3688085_3688988_+	acetylglutamate kinase	NA	NA	NA	NA	NA
AUK94793.1|3688987_3689734_+	pyrimidine 5'-nucleotidase	NA	NA	NA	NA	NA
AUK94794.1|3689783_3690359_+	nucleoid occlusion factor SlmA	NA	NA	NA	NA	NA
AUK94795.1|3690571_3692065_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94796.1|3692075_3693131_+	lactate dehydrogenase	NA	NA	NA	NA	NA
AUK94797.1|3693156_3694293_-	rod shape-determining protein RodA	NA	NA	NA	NA	NA
AUK94798.1|3694289_3696242_-	penicillin-binding protein 2	NA	NA	NA	NA	NA
AUK94799.1|3696255_3696819_-	rod shape-determining protein MreD	NA	NA	NA	NA	NA
AUK94800.1|3696805_3697690_-	rod shape-determining protein MreC	NA	NA	NA	NA	NA
AUK94801.1|3697778_3698822_-	rod shape-determining protein	NA	NA	NA	NA	NA
AUK94802.1|3699052_3699361_+|tRNA	asparaginyl/glutamyl-tRNA amidotransferase subunit C	tRNA	NA	NA	NA	NA
AUK94803.1|3699363_3700902_+|tRNA	aspartyl/glutamyl-tRNA amidotransferase subunit A	tRNA	NA	NA	NA	NA
AUK94804.1|3700904_3702359_+|tRNA	aspartyl/glutamyl-tRNA amidotransferase subunit B	tRNA	NA	NA	NA	NA
AUK94805.1|3702472_3703147_-	orotate phosphoribosyltransferase	NA	NA	NA	NA	NA
AUK94806.1|3703284_3704073_+	exodeoxyribonuclease III	NA	M1PSC0	Streptococcus_phage	25.7	1.2e-19
AUK94807.1|3704495_3705839_+	glutamate dehydrogenase	NA	NA	NA	NA	NA
AUK94808.1|3705875_3706514_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94809.1|3707610_3708513_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94810.1|3708472_3709483_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94811.1|3709689_3710430_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK94812.1|3710644_3711655_-	CDP-6-deoxy-delta-3,4-glucoseen reductase	NA	NA	NA	NA	NA
AUK94813.1|3711673_3712153_-	CDP-alcohol phosphatidyltransferase	NA	NA	NA	NA	NA
AUK94814.1|3712177_3713638_-	aldehyde dehydrogenase family protein	NA	NA	NA	NA	NA
AUK94815.1|3713682_3714414_-	aldehyde dehydrogenase	NA	NA	NA	NA	NA
AUK94816.1|3714533_3716042_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94817.1|3716272_3717016_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94818.1|3717114_3717837_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94819.1|3717996_3718899_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 30
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	3742482	3796676	4103789	transposase,protease	Paramecium_bursaria_Chlorella_virus(14.29%)	52	NA	NA
AUK94846.1|3742482_3743385_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94847.1|3743555_3744284_+	monofunctional biosynthetic peptidoglycan transglycosylase	NA	NA	NA	NA	NA
AUK94848.1|3744380_3745559_+	LPS export ABC transporter permease LptG	NA	NA	NA	NA	NA
AUK94849.1|3745555_3746389_+	bis(5'-nucleosyl)-tetraphosphatase (symmetrical)	NA	NA	NA	NA	NA
AUK94850.1|3746425_3747166_-	1-acyl-sn-glycerol-3-phosphate acyltransferase	NA	NA	NA	NA	NA
AUK94851.1|3747285_3748461_-	dihydroorotase	NA	NA	NA	NA	NA
AUK94852.1|3748457_3749411_-	aspartate carbamoyltransferase	NA	A7RB08	Paramecium_bursaria_Chlorella_virus	35.8	2.5e-30
AUK94853.1|3749424_3749826_-	Holliday junction DNA helicase RuvA	NA	NA	NA	NA	NA
AUK95399.1|3749818_3750424_-	hypothetical protein	NA	NA	NA	NA	NA
AUK95400.1|3750511_3750676_-	rubredoxin	NA	NA	NA	NA	NA
AUK94854.1|3751636_3752290_+	thiamine-phosphate diphosphorylase	NA	NA	NA	NA	NA
AUK94855.1|3752306_3753590_+	glutamate-1-semialdehyde-2,1-aminomutase	NA	NA	NA	NA	NA
AUK94856.1|3753829_3755455_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94857.1|3755548_3755950_-	enamine deaminase RidA	NA	NA	NA	NA	NA
AUK94858.1|3755974_3756409_-	4-hydroxybenzoyl-CoA thioesterase	NA	NA	NA	NA	NA
AUK94859.1|3756410_3758060_-	2-aminobenzoate-CoA ligase	NA	A0A2H4PQU7	Staphylococcus_phage	31.2	2.6e-56
AUK94860.1|3758100_3759270_-	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUK94861.1|3759272_3760136_-	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUK94862.1|3763499_3764204_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	32.2	1.1e-16
AUK94863.1|3764197_3764992_-	ABC transporter ATP-binding protein	NA	A0A2R8FG22	Brazilian_cedratvirus	23.5	2.6e-09
AUK94864.1|3764988_3765954_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUK94865.1|3765957_3766878_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUK94866.1|3766974_3768138_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK94867.1|3768360_3769251_+	esterase	NA	NA	NA	NA	NA
AUK94868.1|3769254_3769758_+	MarR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94869.1|3769800_3770799_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94870.1|3770795_3771746_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94871.1|3771861_3772122_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94872.1|3772361_3773264_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94873.1|3773323_3773884_+	5'-3'-deoxyribonucleotidase	NA	A0A1E1EUN3	Acanthamoeba_castellanii_mimivirus	30.8	3.2e-14
AUK94874.1|3775386_3776268_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94875.1|3776381_3777584_+	MFS transporter	NA	NA	NA	NA	NA
AUK94876.1|3777712_3779572_-	dihydroxy-acid dehydratase	NA	NA	NA	NA	NA
AUK94877.1|3779649_3780459_-	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUK94878.1|3780529_3781531_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94879.1|3781562_3782423_-	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUK94880.1|3782622_3783627_+	acetylesterase	NA	A0A2L2DMU8	Acanthamoeba_polyphaga_mimivirus	31.5	7.5e-30
AUK94881.1|3783623_3785210_+	peptide ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK94882.1|3785218_3786145_+	glyoxylate/hydroxypyruvate reductase A	NA	NA	NA	NA	NA
AUK94883.1|3786167_3786794_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94884.1|3786892_3787843_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK95401.1|3787839_3788976_-	2-alkenal reductase	NA	W5SAB9	Pithovirus	31.2	1.2e-07
AUK94885.1|3789029_3789806_+	Nif3-like dinuclear metal center hexameric protein	NA	NA	NA	NA	NA
AUK94886.1|3789830_3790289_-	large-conductance mechanosensitive channel protein	NA	NA	NA	NA	NA
AUK95402.1|3790428_3791070_+	ubiquinol-cytochrome c reductase iron-sulfur subunit	NA	NA	NA	NA	NA
AUK94887.1|3791134_3792517_+	cytochrome b	NA	NA	NA	NA	NA
AUK95403.1|3792542_3793391_+	cytochrome c1	NA	NA	NA	NA	NA
AUK94888.1|3793549_3794161_+	glutathione S-transferase	NA	NA	NA	NA	NA
AUK94889.1|3794170_3794620_+|protease	ClpXP protease specificity-enhancing factor	protease	NA	NA	NA	NA
AUK94890.1|3795138_3795279_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94891.1|3795286_3795448_-	DUF4224 domain-containing protein	NA	NA	NA	NA	NA
AUK94892.1|3795773_3796676_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 31
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	3817582	3879362	4103789	transposase,tRNA	uncultured_Caudovirales_phage(22.22%)	53	NA	NA
AUK94909.1|3817582_3818119_+|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex ATPase subunit type 1 TsaE	tRNA	NA	NA	NA	NA
AUK94910.1|3818049_3819435_+	N-acetylmuramoyl-L-alanine amidase	NA	A0A2H4JCM7	uncultured_Caudovirales_phage	30.3	4.5e-17
AUK95404.1|3819577_3820198_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94911.1|3820302_3822192_+	DNA mismatch repair protein MutL	NA	A0A1B2LRQ5	Wolbachia_phage	32.8	3.3e-79
AUK94912.1|3822188_3823130_+|tRNA	tRNA (adenosine(37)-N6)-dimethylallyltransferase MiaA	tRNA	NA	NA	NA	NA
AUK94913.1|3823235_3824285_-	phosphoribosylformylglycinamidine cyclo-ligase	NA	Q58MH8	Prochlorococcus_phage	43.6	5.6e-68
AUK94914.1|3824537_3825239_+	DnaA regulatory inactivator Hda	NA	NA	NA	NA	NA
AUK94915.1|3825235_3825934_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94916.1|3825934_3827290_+	poly(A) polymerase	NA	A0A1B1IVF3	uncultured_Mediterranean_phage	36.8	3.4e-25
AUK94917.1|3827286_3827778_+	2-amino-4-hydroxy-6- hydroxymethyldihydropteridine diphosphokinase	NA	NA	NA	NA	NA
AUK94918.1|3827796_3828753_-	hypothetical protein	NA	NA	NA	NA	NA
AUK95405.1|3830163_3831423_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94919.1|3832436_3833480_+	C4-dicarboxylate ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK94920.1|3833523_3834267_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94921.1|3834283_3835039_-	gamma-hydroxybutyrate dehydrogenase	NA	D2K0C8	Staphylococcus_phage	55.0	4.6e-32
AUK94922.1|3835288_3835699_-	4-carboxymuconolactone decarboxylase	NA	NA	NA	NA	NA
AUK94923.1|3836648_3837446_+	beta-D-hydroxybutyrate dehydrogenase	NA	NA	NA	NA	NA
AUK94924.1|3837544_3838495_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94925.1|3838491_3839442_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94926.1|3839528_3840431_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94927.1|3840593_3841595_-	restriction endonuclease	NA	NA	NA	NA	NA
AUK94928.1|3841685_3842252_-	preprotein translocase subunit SecD	NA	NA	NA	NA	NA
AUK94929.1|3842570_3844484_+	phosphomethylpyrimidine synthase ThiC	NA	NA	NA	NA	NA
AUK94930.1|3844525_3845956_-	aldehyde dehydrogenase family protein	NA	NA	NA	NA	NA
AUK94931.1|3846068_3847481_-	hydroxyacid dehydrogenase	NA	NA	NA	NA	NA
AUK94932.1|3847497_3848193_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94933.1|3848411_3849362_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94934.1|3849386_3850286_-	virginiamycin B lyase	NA	NA	NA	NA	NA
AUK94935.1|3850440_3850989_+	GNAT family N-acetyltransferase	NA	A0A2H4J136	uncultured_Caudovirales_phage	41.7	1.2e-21
AUK94936.1|3851027_3851747_-	7-cyano-7-deazaguanine synthase QueC	NA	A0A0A0RPC6	Escherichia_phage	43.9	8.0e-50
AUK94937.1|3851917_3854761_+	phosphoenolpyruvate carboxylase	NA	NA	NA	NA	NA
AUK94938.1|3855354_3858150_+	peptidase S8	NA	NA	NA	NA	NA
AUK94939.1|3858607_3859540_+	3-hydroxybutyryl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUK94940.1|3859651_3861001_+	short-chain fatty acid transporter	NA	NA	NA	NA	NA
AUK94941.1|3861032_3861758_+	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUK95406.1|3861808_3862591_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94942.1|3862789_3863476_+	3-oxoadipate CoA-transferase	NA	NA	NA	NA	NA
AUK94943.1|3863475_3864120_+	3-oxoadipate CoA-transferase	NA	NA	NA	NA	NA
AUK94944.1|3864176_3864452_+	muconolactone delta-isomerase	NA	NA	NA	NA	NA
AUK94945.1|3864477_3864774_+	hypothetical protein	NA	NA	NA	NA	NA
AUK94946.1|3864819_3865599_+	3-oxoadipate enol-lactonase	NA	NA	NA	NA	NA
AUK95407.1|3865604_3866645_+	cyclase	NA	NA	NA	NA	NA
AUK94947.1|3866749_3867073_-	PsiF repeat family protein	NA	NA	NA	NA	NA
AUK94948.1|3867229_3868132_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK94949.1|3868793_3869762_-	hypothetical protein	NA	NA	NA	NA	NA
AUK94950.1|3869790_3871002_-	formyl-CoA transferase	NA	NA	NA	NA	NA
AUK94951.1|3871071_3871812_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK94952.1|3871956_3874821_-	glycine dehydrogenase (aminomethyl-transferring)	NA	E3SN07	Prochlorococcus_phage	51.4	1.2e-261
AUK94953.1|3874880_3875255_-	glycine cleavage system protein H	NA	NA	NA	NA	NA
AUK94954.1|3875336_3876437_-	glycine cleavage system protein T	NA	NA	NA	NA	NA
AUK94955.1|3876831_3877725_-	ZIP family metal transporter	NA	NA	NA	NA	NA
AUK94956.1|3877721_3878357_-	superoxide dismutase	NA	Q56AR7	Bacillus_thuringiensis_phage	73.8	2.8e-83
AUK94957.1|3878459_3879362_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 32
CP018037	Bordetella pertussis strain J094 chromosome, complete genome	4103789	4025960	4079344	4103789	transposase	Planktothrix_phage(40.0%)	45	NA	NA
AUK95089.1|4025960_4026911_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK95090.1|4027080_4028307_+	bifunctional ornithine acetyltransferase/N-acetylglutamate synthase	NA	NA	NA	NA	NA
AUK95091.1|4028506_4029373_+	AAA family ATPase	NA	NA	NA	NA	NA
AUK95092.1|4029365_4030328_+	NUDIX hydrolase	NA	A0A221LFJ1	Barns_Ness_breadcrumb_sponge_sobemo-like_virus	53.4	1.9e-06
AUK95093.1|4030428_4031379_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK95094.1|4031525_4032428_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK95095.1|4032574_4033477_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK95096.1|4033473_4034967_-	RND transporter	NA	NA	NA	NA	NA
AUK95097.1|4034963_4038071_-	multidrug transporter subunit MdtC	NA	NA	NA	NA	NA
AUK95098.1|4038067_4041136_-	multidrug transporter subunit MdtC	NA	NA	NA	NA	NA
AUK95099.1|4041132_4042383_-	efflux transporter periplasmic adaptor subunit	NA	NA	NA	NA	NA
AUK95416.1|4042563_4043316_-	cell division protein ZapD	NA	NA	NA	NA	NA
AUK95417.1|4043357_4044002_-	dephospho-CoA kinase	NA	NA	NA	NA	NA
AUK95100.1|4044010_4044850_-	prepilin peptidase	NA	NA	NA	NA	NA
AUK95101.1|4045090_4045834_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95102.1|4045916_4046264_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA	NA
AUK95103.1|4046361_4047204_-	pantoate--beta-alanine ligase	NA	NA	NA	NA	NA
AUK95104.1|4047248_4048136_-	segregation/condensation protein A	NA	NA	NA	NA	NA
AUK95105.1|4048162_4048351_-	DUF3460 domain-containing protein	NA	NA	NA	NA	NA
AUK95106.1|4048448_4049906_+	MFS transporter	NA	NA	NA	NA	NA
AUK95107.1|4049892_4051419_+	glycerol kinase	NA	NA	NA	NA	NA
AUK95108.1|4051437_4051905_-	hypothetical protein	NA	NA	NA	NA	NA
AUK95109.1|4051904_4052927_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK95110.1|4053047_4053788_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	39.7	4.4e-35
AUK95111.1|4053842_4054943_-	amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUK95112.1|4054944_4056135_-	amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUK95113.1|4056254_4057271_-	amino acid ABC transporter substrate-binding protein	NA	A0A1B1IT51	uncultured_Mediterranean_phage	42.1	1.0e-71
AUK95114.1|4057589_4058261_+	cell division ATP-binding protein FtsE	NA	G9BWD6	Planktothrix_phage	38.2	9.5e-29
AUK95115.1|4058257_4059166_+	permease	NA	NA	NA	NA	NA
AUK95116.1|4059377_4060025_+	chemotaxis protein CheD	NA	NA	NA	NA	NA
AUK95117.1|4063885_4064953_+	A/G-specific adenine glycosylase	NA	NA	NA	NA	NA
AUK95118.1|4064963_4065773_-	transcriptional regulator	NA	NA	NA	NA	NA
AUK95119.1|4065862_4066636_+	SAM-dependent methyltransferase	NA	NA	NA	NA	NA
AUK95120.1|4066866_4067769_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK95121.1|4067780_4068680_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95122.1|4068669_4069824_+	acyl-CoA transferase	NA	NA	NA	NA	NA
AUK95123.1|4069863_4071276_+	hypothetical protein	NA	NA	NA	NA	NA
AUK95124.1|4071298_4072267_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK95125.1|4072268_4073093_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUK95126.1|4073089_4073851_+	nitrobenzoate reductase	NA	M1I6Q5	Acanthocystis_turfacea_Chlorella_virus	31.0	2.0e-19
AUK95127.1|4073931_4074618_-	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUK95128.1|4074815_4075799_+	hydroxymethylglutaryl-CoA lyase	NA	NA	NA	NA	NA
AUK95129.1|4075795_4076575_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUK95418.1|4076662_4077895_+	CoA transferase	NA	NA	NA	NA	NA
AUK95130.1|4078441_4079344_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
