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
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	27282	122070	4103205	transposase,tRNA,protease	Planktothrix_phage(25.0%)	94	NA	NA
AUL06190.1|27282_28185_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06191.1|28314_28614_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06192.1|28674_29109_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06193.1|29141_30359_-	thiolase	NA	NA	NA	NA	NA
AUL06194.1|30364_30862_-	dehydratase	NA	NA	NA	NA	NA
AUL06195.1|31069_32005_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL09515.1|32214_33006_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL06196.1|33048_34470_+	2-methylcitrate dehydratase	NA	NA	NA	NA	NA
AUL06197.1|35571_36762_-	MFS transporter	NA	NA	NA	NA	NA
AUL06198.1|37011_37923_+|tRNA	glycine--tRNA ligase subunit alpha	tRNA	NA	NA	NA	NA
AUL06199.1|37924_40063_+|tRNA	glycine--tRNA ligase subunit beta	tRNA	NA	NA	NA	NA
AUL06200.1|40059_40599_+	D-glycero-beta-D-manno-heptose-1,7-bisphosphate 7-phosphatase	NA	NA	NA	NA	NA
AUL06201.1|40602_41331_+	1-acyl-sn-glycerol-3-phosphate acyltransferase	NA	NA	NA	NA	NA
AUL06202.1|41317_42211_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06203.1|42281_42677_+	lactoylglutathione lyase	NA	NA	NA	NA	NA
AUL06204.1|42686_43217_+	peptide deformylase	NA	E3SLL2	Synechococcus_phage	35.4	3.7e-12
AUL06205.1|43345_43525_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06206.1|43898_44612_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09516.1|45222_45747_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06207.1|45718_45955_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA	NA
AUL06208.1|46082_46976_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06209.1|48145_49393_+	homoserine O-acetyltransferase	NA	NA	NA	NA	NA
AUL06210.1|49389_50004_+	methionine biosynthesis protein MetW	NA	NA	NA	NA	NA
AUL06211.1|50139_51090_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06212.1|51132_52389_+	muropeptide transporter AmpG	NA	NA	NA	NA	NA
AUL06213.1|53620_54355_-	glutamate racemase	NA	NA	NA	NA	NA
AUL06214.1|54360_54951_-	arginine transporter ATP-binding subunit	NA	G9BWD6	Planktothrix_phage	33.6	3.2e-20
AUL06215.1|54975_55665_-	amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUL06216.1|55661_56423_-	glutamate ABC transporter permease	NA	NA	NA	NA	NA
AUL06217.1|56502_57402_-	amino acid ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL06218.1|57495_58446_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06219.1|59246_60473_-	serine kinase HipA	NA	NA	NA	NA	NA
AUL06220.1|60472_60892_-	transcriptional regulator	NA	NA	NA	NA	NA
AUL09517.1|61075_62017_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06221.1|62440_63415_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06222.1|63471_64053_-|protease	protease	protease	NA	NA	NA	NA
AUL06223.1|64065_64368_-	ferredoxin	NA	NA	NA	NA	NA
AUL06224.1|64486_65545_-	oxidoreductase	NA	NA	NA	NA	NA
AUL06225.1|65579_66851_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06226.1|66881_67136_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06227.1|67480_68662_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06228.1|69131_70034_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06229.1|70127_70442_+|transposase	transposase	transposase	NA	NA	NA	NA
AUL06230.1|71634_73542_+	molecular chaperone HtpG	NA	A0A1B1ISV4	uncultured_Mediterranean_phage	37.2	1.1e-117
AUL06231.1|73703_74324_-	glutathione S-transferase	NA	NA	NA	NA	NA
AUL06232.1|74355_74937_-	N-acetylmuramoyl-L-alanine amidase	NA	A0A1W6DX33	Sphingobium_phage	54.3	1.7e-05
AUL06233.1|75025_75277_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06234.1|75278_76121_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06235.1|76226_77636_+	signal recognition particle protein	NA	NA	NA	NA	NA
AUL06236.1|77632_78583_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09518.1|78657_79602_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06237.1|79598_81473_-	polysaccharide biosynthesis protein	NA	A0A2P1ELS8	Moumouvirus	26.9	2.0e-23
AUL06238.1|82820_83525_-	lipopolysaccharide biosynthesis protein	NA	NA	NA	NA	NA
AUL06239.1|83521_84628_-	glycosyl transferase	NA	NA	NA	NA	NA
AUL06240.1|84889_85483_-	sugar transferase	NA	NA	NA	NA	NA
AUL06241.1|85479_86667_-	UDP-4-amino-4, 6-dideoxy-N-acetyl-beta-L-altrosamine transaminase	NA	NA	NA	NA	NA
AUL06242.1|86729_87989_-	glycosyltransferase WbuB	NA	NA	NA	NA	NA
AUL06243.1|88012_89101_-	UDP-N-acetylglucosamine 2-epimerase	NA	A0A0N9R0B2	Chrysochromulina_ericina_virus	36.3	4.8e-46
AUL06244.1|89108_90209_-	aminotransferase DegT	NA	A0A2K9L0G1	Tupanvirus	29.7	3.3e-31
AUL06245.1|90212_90788_-	N-acetyltransferase	NA	NA	NA	NA	NA
AUL06246.1|90791_91844_-	oxidoreductase	NA	NA	NA	NA	NA
AUL06247.1|91974_92982_+	lipopolysaccharide heptosyltransferase I	NA	NA	NA	NA	NA
AUL06248.1|92983_94270_+	3-deoxy-D-manno-octulosonic acid transferase	NA	NA	NA	NA	NA
AUL06249.1|94286_94442_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06250.1|94466_95270_-	pantothenate kinase	NA	NA	NA	NA	NA
AUL06251.1|95266_96133_-	biotin--[acetyl-CoA-carboxylase] ligase	NA	NA	NA	NA	NA
AUL06252.1|96207_97338_+	ABC transporter permease	NA	NA	NA	NA	NA
AUL06253.1|97337_98177_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	32.4	9.1e-21
AUL06254.1|98330_98798_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06255.1|98887_99109_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06256.1|99109_99712_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06257.1|99741_100395_+	alpha/beta hydrolase	NA	NA	NA	NA	NA
AUL09519.1|100605_101784_+	peptidase	NA	B6DZZ7	Stx2-converting_phage	40.5	5.8e-66
AUL06258.1|101864_102731_+	D-amino acid aminotransferase	NA	NA	NA	NA	NA
AUL06259.1|102806_103082_+	DUF493 domain-containing protein	NA	NA	NA	NA	NA
AUL06260.1|103089_103752_+	octanoyltransferase	NA	NA	NA	NA	NA
AUL06261.1|103813_104815_+	lipoyl synthase	NA	NA	NA	NA	NA
AUL06262.1|104829_105378_-	dTDP-4-dehydrorhamnose 3,5-epimerase	NA	A0A291LA62	Escherichia_phage	53.4	3.7e-47
AUL06263.1|105435_106332_-	dTDP-4-dehydrorhamnose reductase	NA	NA	NA	NA	NA
AUL06264.1|106328_107390_-	dTDP-glucose 4,6-dehydratase	NA	A0A1D7XFE8	Escherichia_phage	44.8	1.6e-78
AUL06265.1|107425_108328_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06266.1|109274_110468_+	cystathionine beta-lyase	NA	NA	NA	NA	NA
AUL06267.1|110549_111179_-	thiol:disulfide interchange protein	NA	NA	NA	NA	NA
AUL06268.1|111240_111924_-	cell division protein	NA	NA	NA	NA	NA
AUL06269.1|111933_113616_-|tRNA	arginine--tRNA ligase	tRNA	NA	NA	NA	NA
AUL09520.1|113903_114251_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06270.1|114341_114659_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09521.1|114941_115958_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUL06271.1|116033_116834_-	ABC transporter permease	NA	NA	NA	NA	NA
AUL06272.1|116830_117706_-	ABC transporter permease	NA	NA	NA	NA	NA
AUL06273.1|117716_119009_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL06274.1|119051_120092_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	33.7	6.0e-22
AUL06275.1|120197_121019_-	phosphodiesterase	NA	NA	NA	NA	NA
AUL06276.1|121119_122070_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 2
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	164889	301496	4103205	transposase,tRNA,protease	Klosneuvirus(10.53%)	117	NA	NA
AUL06312.1|164889_165840_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06313.1|167283_168186_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06314.1|168163_168793_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06315.1|169075_170506_+	RNA helicase	NA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	29.8	5.8e-44
AUL06316.1|170539_171169_+	threonine transporter RhtB	NA	NA	NA	NA	NA
AUL06317.1|171217_172825_+	peptide chain release factor 3	NA	A0A2K9L6L3	Tupanvirus	37.8	9.3e-14
AUL06318.1|172861_173533_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09524.1|173614_174091_-	bacterioferritin	NA	NA	NA	NA	NA
AUL06319.1|176362_176890_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06320.1|176981_177797_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06321.1|177857_178592_+	sulfurtransferase	NA	NA	NA	NA	NA
AUL06322.1|178629_180708_-|tRNA	methionine--tRNA ligase	tRNA	A0A1V0SHR2	Klosneuvirus	23.6	1.5e-27
AUL06323.1|180957_181230_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06324.1|181331_182417_+	ATP-binding protein	NA	NA	NA	NA	NA
AUL06325.1|182420_184325_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06326.1|184321_187996_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06327.1|188056_188620_+	dCTP deaminase	NA	S5VM63	Pseudomonas_phage	75.3	2.6e-72
AUL06328.1|188627_189050_-	glyoxalase	NA	NA	NA	NA	NA
AUL06329.1|189077_189497_-	glyoxalase	NA	NA	NA	NA	NA
AUL06330.1|189525_189873_-	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUL09525.1|190146_190596_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06331.1|190750_193021_+	lysine decarboxylase	NA	NA	NA	NA	NA
AUL06332.1|193096_194302_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06333.1|194448_195351_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06334.1|195453_196089_+	superoxide dismutase	NA	Q56AR7	Bacillus_thuringiensis_phage	73.8	2.8e-83
AUL06335.1|196085_196979_+	ZIP family metal transporter	NA	NA	NA	NA	NA
AUL06336.1|197373_198474_+	glycine cleavage system protein T	NA	NA	NA	NA	NA
AUL06337.1|198555_198930_+	glycine cleavage system protein H	NA	NA	NA	NA	NA
AUL06338.1|198989_201854_+	glycine dehydrogenase (aminomethyl-transferring)	NA	E3SN07	Prochlorococcus_phage	51.4	1.2e-261
AUL06339.1|201998_202739_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUL06340.1|202808_204020_+	formyl-CoA transferase	NA	NA	NA	NA	NA
AUL06341.1|204048_205017_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06342.1|205678_206581_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06343.1|206737_207061_+	PsiF repeat family protein	NA	NA	NA	NA	NA
AUL09526.1|207165_208206_-	cyclase	NA	NA	NA	NA	NA
AUL06344.1|208211_208991_-	3-oxoadipate enol-lactonase	NA	NA	NA	NA	NA
AUL06345.1|209036_209333_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06346.1|209358_209634_-	muconolactone delta-isomerase	NA	NA	NA	NA	NA
AUL06347.1|209690_210335_-	3-oxoadipate CoA-transferase	NA	NA	NA	NA	NA
AUL06348.1|210334_211021_-	3-oxoadipate CoA-transferase	NA	NA	NA	NA	NA
AUL09527.1|211219_212002_+	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUL06349.1|212052_212778_-	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUL06350.1|212809_214159_-	short-chain fatty acid transporter	NA	NA	NA	NA	NA
AUL06351.1|214270_215203_-	3-hydroxybutyryl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUL06352.1|215660_218456_-	peptidase S8	NA	NA	NA	NA	NA
AUL06353.1|219049_221893_-	phosphoenolpyruvate carboxylase	NA	NA	NA	NA	NA
AUL06354.1|222063_222783_+	7-cyano-7-deazaguanine synthase QueC	NA	A0A0A0RPC6	Escherichia_phage	43.9	8.0e-50
AUL06355.1|222821_223370_-	GNAT family N-acetyltransferase	NA	A0A2H4J136	uncultured_Caudovirales_phage	41.7	1.2e-21
AUL06356.1|223524_224424_+	virginiamycin B lyase	NA	NA	NA	NA	NA
AUL06357.1|224448_225399_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06358.1|225616_226312_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUL06359.1|226328_227741_+	hydroxyacid dehydrogenase	NA	NA	NA	NA	NA
AUL06360.1|227853_229284_+	aldehyde dehydrogenase family protein	NA	NA	NA	NA	NA
AUL06361.1|229325_231239_-	phosphomethylpyrimidine synthase ThiC	NA	NA	NA	NA	NA
AUL06362.1|231557_232124_+	preprotein translocase subunit SecD	NA	NA	NA	NA	NA
AUL06363.1|232214_233216_+	restriction endonuclease	NA	NA	NA	NA	NA
AUL06364.1|233330_234281_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06365.1|234367_235318_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06366.1|235314_236265_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06367.1|236363_237161_-	beta-D-hydroxybutyrate dehydrogenase	NA	NA	NA	NA	NA
AUL06368.1|238110_238521_+	4-carboxymuconolactone decarboxylase	NA	NA	NA	NA	NA
AUL06369.1|238770_239526_+	gamma-hydroxybutyrate dehydrogenase	NA	D2K0C8	Staphylococcus_phage	55.0	4.6e-32
AUL06370.1|239542_240286_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUL06371.1|240329_241373_-	C4-dicarboxylate ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL09528.1|242386_243646_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06372.1|245056_246013_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06373.1|246031_246523_-	2-amino-4-hydroxy-6- hydroxymethyldihydropteridine diphosphokinase	NA	NA	NA	NA	NA
AUL06374.1|246519_247875_-	poly(A) polymerase	NA	A0A1B1IVF3	uncultured_Mediterranean_phage	36.8	3.4e-25
AUL06375.1|247875_248574_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06376.1|248570_249272_-	DnaA regulatory inactivator Hda	NA	NA	NA	NA	NA
AUL06377.1|249524_250574_+	phosphoribosylformylglycinamidine cyclo-ligase	NA	Q58MH8	Prochlorococcus_phage	43.6	5.6e-68
AUL06378.1|250679_251621_-|tRNA	tRNA (adenosine(37)-N6)-dimethylallyltransferase MiaA	tRNA	NA	NA	NA	NA
AUL06379.1|251617_253507_-	DNA mismatch repair protein MutL	NA	A0A1B2LRQ5	Wolbachia_phage	32.8	3.3e-79
AUL09529.1|253611_254232_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06380.1|254374_255760_-	N-acetylmuramoyl-L-alanine amidase	NA	A0A2H4JCM7	uncultured_Caudovirales_phage	30.3	4.5e-17
AUL06381.1|255690_256227_-|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex ATPase subunit type 1 TsaE	tRNA	NA	NA	NA	NA
AUL06382.1|256378_257770_+	fumarate hydratase, class II	NA	NA	NA	NA	NA
AUL06383.1|257786_258767_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06384.1|258902_259886_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL06385.1|259950_260850_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL06386.1|260956_262711_+	gamma-glutamyltransferase	NA	NA	NA	NA	NA
AUL06387.1|262718_263843_-	carnitine dehydratase	NA	NA	NA	NA	NA
AUL06388.1|263856_264837_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL06389.1|265615_266518_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06390.1|266532_266904_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06391.1|267077_267623_+	ArsR family transcriptional regulator	NA	NA	NA	NA	NA
AUL06392.1|267748_269326_+	cytochrome d terminal oxidase subunit 1	NA	NA	NA	NA	NA
AUL06393.1|269341_270496_+	cytochrome d ubiquinol oxidase subunit II	NA	NA	NA	NA	NA
AUL06394.1|270509_270635_+	cyd operon protein YbgT	NA	NA	NA	NA	NA
AUL06395.1|270631_272383_+	thiol reductant ABC exporter subunit CydD	NA	W8CYL7	Bacillus_phage	23.8	3.4e-09
AUL06396.1|272379_274059_+	thiol reductant ABC exporter subunit CydC	NA	W8CYL7	Bacillus_phage	27.6	3.6e-16
AUL06397.1|274121_274670_+	adenine phosphoribosyltransferase	NA	A0A1V0SKE5	Klosneuvirus	43.1	1.3e-28
AUL06398.1|275812_276091_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06399.1|277134_278085_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06400.1|278361_278523_+	DUF4224 domain-containing protein	NA	NA	NA	NA	NA
AUL06401.1|278530_278671_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06402.1|279189_279639_-|protease	ClpXP protease specificity-enhancing factor	protease	NA	NA	NA	NA
AUL06403.1|279648_280260_-	glutathione S-transferase	NA	NA	NA	NA	NA
AUL06404.1|280418_281267_-	cytochrome c1	NA	NA	NA	NA	NA
AUL06405.1|281292_282675_-	cytochrome b	NA	NA	NA	NA	NA
AUL06406.1|282739_283381_-	ubiquinol-cytochrome c reductase iron-sulfur subunit	NA	NA	NA	NA	NA
AUL06407.1|283520_283979_+	large-conductance mechanosensitive channel protein	NA	NA	NA	NA	NA
AUL06408.1|284003_284780_-	Nif3-like dinuclear metal center hexameric protein	NA	NA	NA	NA	NA
AUL09530.1|284833_285970_+	2-alkenal reductase	NA	W5SAB9	Pithovirus	31.2	1.2e-07
AUL06409.1|285966_286917_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06410.1|287015_287642_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06411.1|287664_288591_-	glyoxylate/hydroxypyruvate reductase A	NA	NA	NA	NA	NA
AUL06412.1|288599_290186_-	peptide ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL06413.1|290182_291187_-	acetylesterase	NA	A0A2L2DMU8	Acanthamoeba_polyphaga_mimivirus	31.5	7.5e-30
AUL06414.1|291386_292247_+	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUL06415.1|292278_293280_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06416.1|293350_294160_+	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUL06417.1|294237_296097_+	dihydroxy-acid dehydratase	NA	NA	NA	NA	NA
AUL06418.1|296225_297428_-	MFS transporter	NA	NA	NA	NA	NA
AUL06419.1|297541_298423_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL06420.1|299925_300486_-	5'-3'-deoxyribonucleotidase	NA	A0A1E1EUN3	Acanthamoeba_castellanii_mimivirus	30.8	3.2e-14
AUL06421.1|300545_301496_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 3
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	390850	448359	4103205	transposase	Orpheovirus(14.29%)	50	NA	NA
AUL06508.1|390850_391801_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06509.1|391943_392855_+	reductase	NA	NA	NA	NA	NA
AUL06510.1|392851_393100_+	NrdH-redoxin	NA	NA	NA	NA	NA
AUL06511.1|393096_394302_+	CoA transferase	NA	NA	NA	NA	NA
AUL06512.1|394374_395370_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06513.1|395392_396613_-	acyl-CoA transferase	NA	NA	NA	NA	NA
AUL06514.1|396609_397254_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06515.1|397250_397643_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06516.1|397531_398884_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06517.1|398984_399794_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUL09536.1|400098_401052_+	thioredoxin-disulfide reductase	NA	A0A2I2L5E1	Orpheovirus	42.5	5.6e-59
AUL06518.1|401150_402134_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06519.1|402810_403581_-	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL06520.1|403577_404756_-	carnitine dehydratase	NA	NA	NA	NA	NA
AUL06521.1|404923_406630_-	thiamine pyrophosphate-binding protein	NA	NA	NA	NA	NA
AUL06522.1|406626_407523_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL06523.1|407563_409153_-	sulfurtransferase	NA	NA	NA	NA	NA
AUL06524.1|409202_410195_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06525.1|410263_410863_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06526.1|411323_412304_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06527.1|412379_413282_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06528.1|413418_414333_+	EamA family transporter	NA	NA	NA	NA	NA
AUL06529.1|414329_414989_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06530.1|415078_416002_+	alpha/beta hydrolase	NA	A0A1C9C5K3	Heterosigma_akashiwo_virus	27.2	4.8e-07
AUL06531.1|416007_416463_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06532.1|416459_417563_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06533.1|417750_419370_-	dolichyl-phosphate-mannose--protein mannosyltransferase	NA	NA	NA	NA	NA
AUL06534.1|419366_420425_-	glycosyltransferase	NA	I1TED8	Salmonella_phage	40.5	2.8e-59
AUL06535.1|420554_421049_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUL06536.1|421141_422119_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06537.1|422314_423520_+	sodium/glutamate symporter	NA	NA	NA	NA	NA
AUL06538.1|423516_425028_+	TRAP ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL09537.1|425043_426357_-	short-chain fatty acid transporter	NA	NA	NA	NA	NA
AUL06539.1|426547_426727_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06540.1|427136_427871_-	DNA polymerase III subunit epsilon	NA	A0A1X9SH08	Bradyrhizobium_phage	43.8	1.4e-41
AUL06541.1|430363_431266_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06542.1|431397_431796_-	elongation factor G	NA	E4ZFJ7	Streptococcus_phage	44.3	9.0e-19
AUL06543.1|432206_432677_-	universal stress protein	NA	NA	NA	NA	NA
AUL06544.1|432765_433110_-	TIGR01244 family protein	NA	NA	NA	NA	NA
AUL06545.1|433209_434610_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUL06546.1|436398_436917_-	methyltransferase	NA	G3MA03	Bacillus_virus	38.9	2.1e-12
AUL06547.1|437027_437783_+	hypothetical protein	NA	A0A0R6PEZ3	Moraxella_phage	40.8	2.9e-42
AUL06548.1|437978_439211_+	CoA transferase	NA	NA	NA	NA	NA
AUL06549.1|439203_439989_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL06550.1|440055_441027_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL06551.1|441037_442015_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL06552.1|442140_443313_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUL06553.1|443339_444368_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUL06554.1|444433_445627_+	acetyl-CoA acetyltransferase	NA	NA	NA	NA	NA
AUL06555.1|447408_448359_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 4
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	636782	703116	4103205	transposase,tail,terminase,tRNA	uncultured_Caudovirales_phage(16.67%)	71	NA	NA
AUL06719.1|636782_637733_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06720.1|637831_638632_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06721.1|638693_639077_+	thiol reductase thioredoxin	NA	NA	NA	NA	NA
AUL06722.1|639088_640522_-	ATP-dependent RNA helicase	NA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	34.4	1.5e-52
AUL06723.1|640728_641058_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06724.1|641060_641810_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06725.1|641992_642913_+	branched chain amino acid aminotransferase	NA	NA	NA	NA	NA
AUL06726.1|642959_643172_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06727.1|643194_643617_+	DUF4440 domain-containing protein	NA	NA	NA	NA	NA
AUL06728.1|643633_644734_+	alpha/beta hydrolase	NA	NA	NA	NA	NA
AUL06729.1|644830_646348_-	peptidase	NA	NA	NA	NA	NA
AUL06730.1|646423_647263_+	UTP--glucose-1-phosphate uridylyltransferase	NA	A0A127AW70	Bacillus_phage	48.9	1.1e-66
AUL09546.1|647284_648157_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06731.1|648247_649342_-	porin	NA	NA	NA	NA	NA
AUL06732.1|649635_650538_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09547.1|650660_651602_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06733.1|651685_652045_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06734.1|652426_653464_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06735.1|653780_655121_+	Xaa-Pro aminopeptidase	NA	NA	NA	NA	NA
AUL06736.1|655130_655583_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06737.1|655688_656861_+	monooxygenase	NA	NA	NA	NA	NA
AUL06738.1|656926_657952_+|tRNA	tRNA dihydrouridine synthase DusB	tRNA	NA	NA	NA	NA
AUL06739.1|657992_658232_+	Fis family transcriptional regulator	NA	NA	NA	NA	NA
AUL06740.1|658301_659891_+	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase	NA	Q58MG4	Prochlorococcus_phage	47.2	8.7e-65
AUL06741.1|659890_660439_+	crossover junction endodeoxyribonuclease RuvC	NA	NA	NA	NA	NA
AUL06742.1|660519_661092_+	Holliday junction DNA helicase RuvA	NA	NA	NA	NA	NA
AUL06743.1|661110_662022_-	NAD-dependent dehydratase	NA	NA	NA	NA	NA
AUL06744.1|662095_663064_-	serine dehydratase	NA	NA	NA	NA	NA
AUL06745.1|663186_664260_+	Holliday junction DNA helicase RuvB	NA	A0A127AWE7	Bacillus_phage	25.7	2.3e-08
AUL06746.1|664264_666085_-	ATP-dependent DNA helicase RecQ	NA	L7RCS0	Acanthamoeba_polyphaga_moumouvirus	35.3	3.1e-74
AUL06747.1|667199_667535_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06748.1|667668_668319_+	carbonate dehydratase	NA	NA	NA	NA	NA
AUL06749.1|668340_669759_-	amidase	NA	NA	NA	NA	NA
AUL06750.1|669828_670584_-	hypothetical protein	NA	NA	NA	NA	NA
AUL09548.1|670552_671311_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUL06751.1|671321_672203_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUL06752.1|672219_672927_+	ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	25.4	8.2e-07
AUL06753.1|672929_673688_+	ABC transporter ATP-binding protein	NA	W6JKT0	Anomala_cuprea_entomopoxvirus	24.4	4.4e-14
AUL06754.1|673897_675640_+	sulfite reductase	NA	NA	NA	NA	NA
AUL06755.1|675632_676157_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06756.1|676196_676991_-	metal ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL06757.1|677158_678232_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06758.1|678330_679281_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06759.1|679532_679739_-	hypothetical protein	NA	NA	NA	NA	NA
AUL09549.1|679810_680422_-	LexA family transcriptional repressor	NA	NA	NA	NA	NA
AUL06760.1|680901_681222_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06761.1|681214_681913_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06762.1|681927_682149_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06763.1|682166_683117_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06764.1|683756_684242_+|terminase	terminase	terminase	C7U0W1	Enterobacteria_phage	61.5	7.3e-39
AUL06765.1|684228_685506_+|terminase	terminase	terminase	A0A1B1P9C9	Acinetobacter_phage	64.7	2.4e-150
AUL06766.1|685508_686927_+	hypothetical protein	NA	R9TF43	Synechococcus_phage	42.1	2.2e-99
AUL06767.1|686898_688011_+	hypothetical protein	NA	A0A0H5BBX3	Pseudomonas_phage	49.7	2.1e-102
AUL06768.1|688016_688259_+	hypothetical protein	NA	A0A0H5AUE5	Pseudomonas_phage	53.2	5.6e-16
AUL06769.1|688381_688984_+	hypothetical protein	NA	R9TF81	Synechococcus_phage	43.6	7.9e-27
AUL06770.1|689412_690363_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06771.1|691037_691289_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06772.1|691351_691834_+	hypothetical protein	NA	A0A2H4JE38	uncultured_Caudovirales_phage	37.1	1.8e-13
AUL06773.1|691835_692036_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06774.1|692035_692431_+	hypothetical protein	NA	A0A2D2W284	Stenotrophomonas_phage	35.0	7.8e-07
AUL06775.1|692427_692826_+	hypothetical protein	NA	I6PCW1	Cronobacter_phage	38.0	4.2e-16
AUL06776.1|692822_693245_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06777.1|693252_693753_+	HNH endonuclease	NA	A0A1I9SEX5	Klebsiella_phage	45.1	4.4e-31
AUL06778.1|694007_694526_+|tail	phage tail protein	tail	A0A1S5R1H0	Pseudomonas_phage	38.3	5.4e-24
AUL06779.1|694535_694865_+	hypothetical protein	NA	A0A2H4J121	uncultured_Caudovirales_phage	44.0	2.9e-15
AUL06780.1|694882_695173_+	hypothetical protein	NA	A0A2H4JBP7	uncultured_Caudovirales_phage	45.2	3.7e-14
AUL06781.1|695198_697811_+|tail	phage tail tape measure protein	tail	A0A2H4J107	uncultured_Caudovirales_phage	38.6	4.9e-105
AUL06782.1|697820_698180_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06783.1|698247_698781_+	hypothetical protein	NA	A5A3Q9	Burkholderia_phage	46.9	1.1e-40
AUL06784.1|698777_699167_+	hypothetical protein	NA	A0A0G3EYJ9	Achromobacter_phage	50.0	3.0e-35
AUL06785.1|699159_703116_+	hypothetical protein	NA	A0A0B5A1N2	Achromobacter_phage	40.8	3.9e-215
>prophage 5
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	859783	913914	4103205	transposase,holin	Vibrio_phage(25.0%)	44	NA	NA
AUL06915.1|859783_861742_-|holin	choline transporter	holin	A0A2I7QNT1	Vibrio_phage	30.3	8.0e-28
AUL06916.1|861824_862775_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06917.1|862995_863664_+	transcriptional regulator	NA	NA	NA	NA	NA
AUL06918.1|863787_864894_+	efflux transporter periplasmic adaptor subunit	NA	NA	NA	NA	NA
AUL06919.1|864906_868020_+	multidrug efflux protein	NA	S5VTK5	Leptospira_phage	21.5	4.5e-57
AUL06920.1|868016_869510_+	RND transporter	NA	NA	NA	NA	NA
AUL06921.1|869524_870196_+	MarR family transcriptional regulator	NA	NA	NA	NA	NA
AUL09559.1|870239_870692_-	azurin	NA	NA	NA	NA	NA
AUL06922.1|870874_871522_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUL09560.1|871625_873674_+	hydantoinase	NA	NA	NA	NA	NA
AUL06923.1|873670_875683_+	hydantoin utilization protein B	NA	NA	NA	NA	NA
AUL06924.1|875708_877043_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06925.1|877151_878144_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06926.1|878210_880295_-	rhodanese-like domain-containing protein	NA	NA	NA	NA	NA
AUL06927.1|880319_881291_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06928.1|881419_882421_-	peptidase M14	NA	NA	NA	NA	NA
AUL06929.1|882454_883606_-	cystathionine beta-lyase	NA	NA	NA	NA	NA
AUL06930.1|883809_884700_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL06931.1|884777_885602_+	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
AUL09561.1|885798_886815_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUL06932.1|887011_887995_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL06933.1|888053_889181_-	argininosuccinate lyase	NA	NA	NA	NA	NA
AUL06934.1|889171_889546_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06935.1|889593_890982_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06936.1|891012_892002_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06937.1|892112_893345_-	methylaspartate ammonia-lyase	NA	NA	NA	NA	NA
AUL06938.1|893626_894427_+	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUL06939.1|894449_896681_-|holin	high-affinity choline transporter BetT	holin	NA	NA	NA	NA
AUL06940.1|897468_897915_-	preprotein translocase subunit SecG	NA	NA	NA	NA	NA
AUL06941.1|897936_898683_-	triose-phosphate isomerase	NA	NA	NA	NA	NA
AUL06942.1|898826_899804_-	NAD(P)H-quinone oxidoreductase	NA	NA	NA	NA	NA
AUL06943.1|900437_901049_+	PIN domain-containing protein	NA	K4HZX4	Acidithiobacillus_phage	32.5	3.3e-12
AUL06944.1|901042_902260_-	threonine ammonia-lyase	NA	NA	NA	NA	NA
AUL06945.1|902400_903351_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06946.1|903347_904067_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06947.1|904187_906347_-	polyribonucleotide nucleotidyltransferase	NA	NA	NA	NA	NA
AUL06948.1|906437_906707_-	30S ribosomal protein S15	NA	NA	NA	NA	NA
AUL09562.1|907000_907528_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06949.1|907546_908326_-	CDP-diacylglycerol--serine O-phosphatidyltransferase	NA	NA	NA	NA	NA
AUL06950.1|908493_909510_-	ketol-acid reductoisomerase	NA	NA	NA	NA	NA
AUL06951.1|909582_910074_-	acetolactate synthase small subunit	NA	NA	NA	NA	NA
AUL06952.1|910084_911800_-	acetolactate synthase, large subunit, biosynthetic type	NA	A0A0P0CDR3	Ostreococcus_lucimarinus_virus	30.3	3.1e-60
AUL06953.1|912270_912882_+	hypothetical protein	NA	NA	NA	NA	NA
AUL06954.1|912963_913914_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 6
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	938411	1000565	4103205	transposase	Bacillus_virus(15.38%)	57	NA	NA
AUL06975.1|938411_939314_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06976.1|939310_939694_-	Rieske (2Fe-2S) protein	NA	NA	NA	NA	NA
AUL06977.1|939748_941563_-	metal ABC transporter permease	NA	W8CYL7	Bacillus_phage	27.9	5.7e-44
AUL09564.1|941712_942540_+	oxidoreductase	NA	A0A2H4PQR8	Staphylococcus_phage	47.4	1.7e-67
AUL06978.1|942585_943566_+	alcohol dehydrogenase	NA	NA	NA	NA	NA
AUL06979.1|943562_943775_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06980.1|943771_944953_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06981.1|945116_945851_+	serine/threonine protein phosphatase	NA	A0A2H4J0P0	uncultured_Caudovirales_phage	49.2	1.9e-62
AUL06982.1|945852_948465_-	penicillin-binding protein	NA	NA	NA	NA	NA
AUL06983.1|948600_950514_-	S9 family peptidase	NA	NA	NA	NA	NA
AUL06984.1|951129_951540_-	phenylacetic acid degradation protein	NA	NA	NA	NA	NA
AUL06985.1|951637_952723_+	DNA polymerase IV	NA	NA	NA	NA	NA
AUL06986.1|952821_953772_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06987.1|953768_954743_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06988.1|954888_955779_+	LysR family transcriptional regulator	NA	Q6JIH3	Burkholderia_virus	27.6	4.3e-05
AUL09565.1|956055_956448_-	hypothetical protein	NA	A0A0R6PJ17	Moraxella_phage	45.0	4.8e-25
AUL06989.1|956577_957528_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL06990.1|957557_957740_-	addiction module toxin, HicA family	NA	A0A1L2JY37	Aeribacillus_phage	56.1	3.7e-12
AUL06991.1|958512_959694_-	MFS transporter	NA	NA	NA	NA	NA
AUL06992.1|959909_960587_-	phosphoglycolate phosphatase	NA	NA	NA	NA	NA
AUL06993.1|960583_961309_-	bifunctional 3-demethylubiquinol 3-O-methyltransferase/2-polyprenyl-6-hydroxyphenol methylase	NA	NA	NA	NA	NA
AUL06994.1|961434_962016_-	hypothetical protein	NA	NA	NA	NA	NA
AUL06995.1|962386_965068_+	DNA gyrase subunit A	NA	G3M9Z5	Bacillus_virus	33.5	3.2e-104
AUL09566.1|965070_966201_+	phosphoserine transaminase	NA	M1Q1P2	Streptococcus_phage	44.0	4.9e-78
AUL06996.1|966193_967279_+	chorismate mutase	NA	NA	NA	NA	NA
AUL06997.1|967365_968265_+	prephenate dehydrogenase	NA	NA	NA	NA	NA
AUL06998.1|968261_969590_+	3-phosphoshikimate 1-carboxyvinyltransferase	NA	NA	NA	NA	NA
AUL06999.1|969604_970276_+	cytidylate kinase	NA	NA	NA	NA	NA
AUL07000.1|970463_972179_+	30S ribosomal protein S1	NA	NA	NA	NA	NA
AUL07001.1|972180_972540_+	integration host factor subunit beta	NA	NA	NA	NA	NA
AUL07002.1|972731_973046_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07003.1|973088_974309_+	lipopolysaccharide assembly protein LapB	NA	NA	NA	NA	NA
AUL07004.1|974305_975247_+	hypothetical protein	NA	A0A2H4N7X4	Lake_Baikal_phage	28.1	1.5e-16
AUL07005.1|975243_976233_+	ADP-glyceromanno-heptose 6-epimerase	NA	E3SJ87	Synechococcus_phage	34.4	2.2e-26
AUL09567.1|976522_976852_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07006.1|976950_977901_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07007.1|977981_978893_+	cysteine synthase B	NA	A0A1X9I5K7	Streptococcus_phage	38.8	8.0e-47
AUL07008.1|978953_980099_-	lytic murein transglycosylase B	NA	NA	NA	NA	NA
AUL07009.1|980118_981033_+	deacetylase	NA	A0A2K9KZC4	Tupanvirus	34.7	9.8e-45
AUL07010.1|981104_981854_+	electron transporter RnfB	NA	NA	NA	NA	NA
AUL07011.1|981853_982783_+	electron transfer flavoprotein subunit alpha	NA	NA	NA	NA	NA
AUL07012.1|983026_984853_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUL07013.1|984935_985577_+	peroxidase	NA	NA	NA	NA	NA
AUL07014.1|985766_986801_+	sulfate transporter subunit	NA	NA	NA	NA	NA
AUL07015.1|986816_987020_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07016.1|987041_987716_+	sulfate ABC transporter permease subunit CysT	NA	NA	NA	NA	NA
AUL07017.1|987830_988613_+	sulfate ABC transporter permease subunit CysW	NA	NA	NA	NA	NA
AUL07018.1|988637_989702_+	sulfate ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	30.3	3.8e-24
AUL09568.1|990499_991408_+	sulfate adenylyltransferase small subunit	NA	NA	NA	NA	NA
AUL07019.1|992900_994175_+	radical SAM protein	NA	NA	NA	NA	NA
AUL07020.1|994328_994709_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07021.1|994716_995589_-	multidrug DMT transporter permease	NA	NA	NA	NA	NA
AUL07022.1|995894_996275_+	50S ribosomal protein L19	NA	NA	NA	NA	NA
AUL07023.1|996524_997211_+	coenzyme A pyrophosphatase	NA	NA	NA	NA	NA
AUL07024.1|997306_998257_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07025.1|998361_999411_+	aldo/keto reductase	NA	NA	NA	NA	NA
AUL09569.1|999548_1000565_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
>prophage 7
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	1046271	1116821	4103205	transposase,tRNA	uncultured_Mediterranean_phage(30.0%)	58	NA	NA
AUL07057.1|1046271_1047222_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07058.1|1047520_1048258_-	RNA polymerase sigma factor FliA	NA	NA	NA	NA	NA
AUL07059.1|1048693_1049017_+	flagellar transcriptional activator FlhD	NA	NA	NA	NA	NA
AUL07060.1|1049051_1049612_+	transcriptional regulator FlhC	NA	NA	NA	NA	NA
AUL07061.1|1049731_1050607_+	flagellar motor stator protein MotA	NA	NA	NA	NA	NA
AUL07062.1|1050619_1051567_+	flagellar motor protein MotB	NA	NA	NA	NA	NA
AUL07063.1|1051668_1051962_+	two-component system response regulator	NA	NA	NA	NA	NA
AUL07064.1|1051988_1054046_+	chemotaxis protein CheA	NA	NA	NA	NA	NA
AUL07065.1|1054060_1054561_+	chemotaxis protein CheW	NA	NA	NA	NA	NA
AUL07066.1|1054634_1056341_+	chemotaxis protein	NA	A0A2H4J162	uncultured_Caudovirales_phage	41.7	1.4e-12
AUL07067.1|1057204_1058257_+	chemotaxis response regulator protein-glutamate methylesterase	NA	NA	NA	NA	NA
AUL07068.1|1058309_1058699_+	two-component system response regulator	NA	Q56AR1	Bacillus_thuringiensis_phage	33.3	5.7e-10
AUL07069.1|1058707_1059340_+	protein phosphatase CheZ	NA	NA	NA	NA	NA
AUL09574.1|1059439_1060456_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUL09575.1|1061286_1062294_+	aldo/keto reductase	NA	NA	NA	NA	NA
AUL07070.1|1062290_1063934_-	apolipoprotein N-acyltransferase	NA	NA	NA	NA	NA
AUL07071.1|1063930_1064818_-	magnesium/cobalt efflux protein	NA	NA	NA	NA	NA
AUL07072.1|1064958_1065432_-	rRNA maturation RNase YbeY	NA	NA	NA	NA	NA
AUL07073.1|1065421_1066444_-	phosphate starvation-inducible protein PhoH	NA	A0A0S0MVD6	Pseudomonas_phage	45.4	8.7e-50
AUL07074.1|1066440_1067868_-|tRNA	tRNA (N6-isopentenyl adenosine(37)-C2)-methylthiotransferase MiaB	tRNA	NA	NA	NA	NA
AUL09576.1|1068805_1069822_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUL07075.1|1070154_1071090_-	protein-export membrane protein SecF	NA	A0A1B1IVP7	uncultured_Mediterranean_phage	35.5	3.0e-41
AUL07076.1|1071139_1073020_-	protein-export membrane protein SecD	NA	NA	NA	NA	NA
AUL07077.1|1073086_1073431_-	preprotein translocase subunit YajC	NA	A0A1B1IVR5	uncultured_Mediterranean_phage	40.4	1.0e-10
AUL07078.1|1073575_1074712_-|tRNA	tRNA guanosine(34) transglycosylase Tgt	tRNA	A0A1B1IVQ4	uncultured_Mediterranean_phage	44.4	1.9e-85
AUL07079.1|1074708_1075782_-|tRNA	tRNA preQ1(34) S-adenosylmethionine ribosyltransferase-isomerase QueA	tRNA	NA	NA	NA	NA
AUL07080.1|1075939_1077376_+	D-alanyl-D-alanine carboxypeptidase/D-alanyl-D-alanine-endopeptidase	NA	NA	NA	NA	NA
AUL09577.1|1077466_1078108_+	uracil phosphoribosyltransferase	NA	NA	NA	NA	NA
AUL09578.1|1078443_1079460_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUL09579.1|1082606_1084028_-	uroporphyrinogen-III C-methyltransferase	NA	NA	NA	NA	NA
AUL09580.1|1084294_1085008_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07081.1|1085092_1085410_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07082.1|1085450_1085864_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07083.1|1085865_1086225_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07084.1|1086267_1087812_-	3-octaprenyl-4-hydroxybenzoate decarboxylase	NA	NA	NA	NA	NA
AUL07085.1|1087895_1088726_+	lytic transglycosylase	NA	NA	NA	NA	NA
AUL07086.1|1088760_1089915_-	aminotransferase	NA	NA	NA	NA	NA
AUL07087.1|1089957_1090830_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07088.1|1090946_1093235_+	NADP-dependent malic enzyme	NA	NA	NA	NA	NA
AUL07089.1|1094441_1094906_+	barstar family protein 2	NA	NA	NA	NA	NA
AUL07090.1|1094932_1095883_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09581.1|1096250_1097027_-	phosphate ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	28.7	4.3e-17
AUL07091.1|1097071_1097908_-	phosphate ABC transporter, permease protein PstA	NA	NA	NA	NA	NA
AUL07092.1|1097950_1098967_-	phosphate ABC transporter permease subunit PstC	NA	NA	NA	NA	NA
AUL07093.1|1099101_1100142_-	phosphate ABC transporter substrate-binding protein PstS	NA	M4QHS4	Cyanophage	40.2	2.1e-51
AUL07094.1|1100336_1102418_-	RNA degradosome polyphosphate kinase	NA	NA	NA	NA	NA
AUL07095.1|1102653_1104147_+	exopolyphosphatase	NA	NA	NA	NA	NA
AUL07096.1|1104377_1105172_-	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUL07097.1|1105392_1106751_-	phosphoglucosamine mutase	NA	NA	NA	NA	NA
AUL07098.1|1106747_1107590_-	dihydropteroate synthase	NA	A0A0B5J4J5	Pandoravirus	32.5	3.2e-26
AUL07099.1|1107608_1109495_-	cell division protein FtsH	NA	M4QMW8	Micromonas_pusilla_virus	41.5	1.4e-109
AUL07100.1|1109732_1110365_-	rRNA methyltransferase	NA	NA	NA	NA	NA
AUL07101.1|1110383_1110986_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07102.1|1111431_1111833_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07103.1|1112890_1113691_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07104.1|1113734_1114721_-	homoserine kinase	NA	NA	NA	NA	NA
AUL07105.1|1114896_1115874_+|tRNA	tRNA dihydrouridine(20/20a) synthase DusA	tRNA	NA	NA	NA	NA
AUL07106.1|1115870_1116821_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 8
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	1445864	1501303	4103205	transposase,protease	Mollivirus(16.67%)	56	NA	NA
AUL07358.1|1445864_1446815_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07359.1|1448016_1448463_-	flagellar export protein FliJ	NA	NA	NA	NA	NA
AUL07360.1|1448455_1449931_-	flagellar protein export ATPase FliI	NA	NA	NA	NA	NA
AUL07361.1|1449927_1450683_-	flagellar assembly protein FliH	NA	NA	NA	NA	NA
AUL07362.1|1450675_1451686_-	flagellar motor switch protein FliG	NA	NA	NA	NA	NA
AUL07363.1|1451675_1453352_-	flagellar M-ring protein FliF	NA	NA	NA	NA	NA
AUL07364.1|1453664_1453997_+	flagellar hook-basal body complex protein FliE	NA	NA	NA	NA	NA
AUL07365.1|1454010_1454406_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07366.1|1454415_1454742_-	flagellar biosynthesis protein FlhB	NA	NA	NA	NA	NA
AUL07367.1|1454738_1455065_-	flagellar hook-length control protein FliK	NA	NA	NA	NA	NA
AUL07368.1|1454991_1455405_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07369.1|1456009_1456360_-	flagellar protein FliT	NA	NA	NA	NA	NA
AUL07370.1|1456407_1456836_-	flagellar export chaperone FliS	NA	NA	NA	NA	NA
AUL07371.1|1456843_1458217_-	flagellar hook protein FliD	NA	NA	NA	NA	NA
AUL09610.1|1458357_1458735_-	flagellar protein	NA	NA	NA	NA	NA
AUL07372.1|1458997_1460305_+	bifunctional folylpolyglutamate synthase/dihydrofolate synthase	NA	NA	NA	NA	NA
AUL07373.1|1460365_1461196_+	sporulation protein	NA	NA	NA	NA	NA
AUL07374.1|1461192_1461681_+	colicin V synthesis protein	NA	NA	NA	NA	NA
AUL07375.1|1461722_1463243_+	amidophosphoribosyltransferase	NA	A0A0M3SGR2	Mollivirus	43.7	4.8e-97
AUL09611.1|1463286_1463763_-	disulfide bond formation protein B	NA	NA	NA	NA	NA
AUL07376.1|1464566_1467164_-	[protein-PII] uridylyltransferase	NA	NA	NA	NA	NA
AUL07377.1|1467193_1468015_-	type I methionyl aminopeptidase	NA	NA	NA	NA	NA
AUL07378.1|1468741_1469491_+	30S ribosomal protein S2	NA	NA	NA	NA	NA
AUL07379.1|1469674_1470553_+	translation elongation factor Ts	NA	NA	NA	NA	NA
AUL07380.1|1470650_1471367_+	UMP kinase	NA	NA	NA	NA	NA
AUL07381.1|1471381_1471942_+	ribosome recycling factor	NA	NA	NA	NA	NA
AUL07382.1|1472108_1472873_+	di-trans,poly-cis-decaprenylcistransferase	NA	R9W0U9	Flavobacterium_phage	36.1	1.7e-18
AUL07383.1|1472892_1473750_+	phosphatidate cytidylyltransferase	NA	NA	NA	NA	NA
AUL07384.1|1473746_1474946_+	1-deoxy-D-xylulose-5-phosphate reductoisomerase	NA	NA	NA	NA	NA
AUL07385.1|1474985_1476320_+|protease	RIP metalloprotease RseP	protease	NA	NA	NA	NA
AUL07386.1|1476372_1478709_+	outer membrane protein assembly factor BamA	NA	NA	NA	NA	NA
AUL09612.1|1478834_1479398_+	outer membrane protein chaperone	NA	NA	NA	NA	NA
AUL07387.1|1479406_1480498_+	UDP-3-O-(3-hydroxymyristoyl)glucosamine N-acyltransferase	NA	NA	NA	NA	NA
AUL07388.1|1480569_1481025_+	3-hydroxyacyl-[acyl-carrier-protein] dehydratase FabZ	NA	NA	NA	NA	NA
AUL07389.1|1481025_1481820_+	acyl-[acyl-carrier-protein]--UDP-N- acetylglucosamine O-acyltransferase	NA	NA	NA	NA	NA
AUL07390.1|1481816_1482998_+	lipid-A-disaccharide synthase	NA	NA	NA	NA	NA
AUL07391.1|1482984_1483590_+	ribonuclease HII	NA	G9E3X7	Emiliania_huxleyi_virus	40.2	8.8e-26
AUL07392.1|1483586_1484360_+	RNA methyltransferase	NA	NA	NA	NA	NA
AUL07393.1|1484371_1485199_-	phosphoenolpyruvate synthase regulatory protein	NA	NA	NA	NA	NA
AUL07394.1|1485360_1487724_+	phosphoenolpyruvate synthase	NA	A0A1V0SGR7	Hokovirus	35.9	2.2e-165
AUL07395.1|1487791_1488511_-	GMP synthase	NA	NA	NA	NA	NA
AUL07396.1|1488634_1489060_+	NfeD-like family protein 1	NA	NA	NA	NA	NA
AUL07397.1|1489094_1489997_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07398.1|1490162_1491089_+	paraslipin	NA	NA	NA	NA	NA
AUL07399.1|1491154_1492312_+	GGDEF domain-containing protein	NA	A0A127AWB9	Bacillus_phage	36.2	2.3e-14
AUL07400.1|1492292_1492760_-	SsrA-binding protein	NA	W5RAM5	Staphylococcus_phage	45.1	6.2e-27
AUL07401.1|1492955_1493858_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07402.1|1493874_1494309_+	ubiquinone-binding protein	NA	NA	NA	NA	NA
AUL07403.1|1494298_1494649_+	RnfH family protein	NA	NA	NA	NA	NA
AUL07404.1|1494845_1496000_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUL07405.1|1495996_1497169_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL07406.1|1497216_1498110_+	3-hydroxyisobutyrate dehydrogenase	NA	NA	NA	NA	NA
AUL07407.1|1498155_1498593_+	thioesterase	NA	NA	NA	NA	NA
AUL07408.1|1498652_1499342_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07409.1|1499351_1500254_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07410.1|1500400_1501303_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 9
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	1540674	1598756	4103205	transposase,tRNA,protease	Planktothrix_phage(15.38%)	60	NA	NA
AUL07442.1|1540674_1541487_+|tRNA	tRNA pseudouridine(38-40) synthase TruA	tRNA	NA	NA	NA	NA
AUL07443.1|1541631_1542726_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL07444.1|1542937_1543567_+	C4-dicarboxylate ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL07445.1|1543569_1545237_+	C4-dicarboxylate ABC transporter	NA	NA	NA	NA	NA
AUL07446.1|1545251_1545908_+	N-(5'-phosphoribosyl)anthranilate isomerase	NA	NA	NA	NA	NA
AUL07447.1|1546435_1547338_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07448.1|1547364_1548138_+	peroxide stress protein YaaA	NA	NA	NA	NA	NA
AUL07449.1|1548149_1549391_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07450.1|1551220_1552123_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07451.1|1552154_1553252_+	GGDEF domain-containing protein	NA	A0A127AWB9	Bacillus_phage	37.3	3.5e-20
AUL07452.1|1553248_1554199_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07453.1|1554216_1554624_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07454.1|1554620_1555013_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07455.1|1555018_1555795_-	DNA-binding response regulator	NA	NA	NA	NA	NA
AUL07456.1|1556182_1558132_+|tRNA	threonine--tRNA ligase	tRNA	A0A2K9L297	Tupanvirus	36.0	4.1e-125
AUL07457.1|1558152_1558698_+	translation initiation factor IF-3	NA	A0A2L0UZ54	Agrobacterium_phage	29.9	9.1e-14
AUL07458.1|1558834_1559791_+	glutathione synthase	NA	NA	NA	NA	NA
AUL07459.1|1559801_1560200_+	PTS mannose transporter subunit IIA	NA	NA	NA	NA	NA
AUL07460.1|1560315_1560585_+	phosphocarrier protein HPr	NA	NA	NA	NA	NA
AUL07461.1|1560706_1562401_+	phosphoenolpyruvate--protein phosphotransferase	NA	NA	NA	NA	NA
AUL07462.1|1562565_1562790_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07463.1|1563388_1564339_+	ornithine cyclodeaminase	NA	NA	NA	NA	NA
AUL07464.1|1564380_1565541_+	branched-chain amino acid ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL07465.1|1565701_1566622_+	ectoine/hydroxyectoine ABC transporter substrate-binding protein EhuB	NA	NA	NA	NA	NA
AUL07466.1|1566634_1567276_+	ectoine/hydroxyectoine ABC transporter permease subunit EhuC	NA	NA	NA	NA	NA
AUL07467.1|1567272_1567944_+	ectoine/hydroxyectoine ABC transporter permease subunit EhuD	NA	NA	NA	NA	NA
AUL07468.1|1567940_1568711_+	ectoine/hydroxyectoine ABC transporter ATP-binding protein EhuA	NA	G9BWD6	Planktothrix_phage	39.5	8.3e-29
AUL07469.1|1568809_1569760_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07470.1|1569976_1570381_-	aldehyde-activating protein	NA	NA	NA	NA	NA
AUL07471.1|1570454_1571645_-	formate dehydrogenase	NA	NA	NA	NA	NA
AUL07472.1|1571678_1572005_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07473.1|1572027_1572543_-	transporter	NA	NA	NA	NA	NA
AUL07474.1|1572601_1573828_-	formamidase	NA	A0A1V0S8X7	Catovirus	58.8	5.2e-134
AUL07475.1|1574005_1575136_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA	NA
AUL07476.1|1575370_1575952_+	MOSC domain-containing protein	NA	NA	NA	NA	NA
AUL07477.1|1576088_1577153_+	fructose-1,6-bisphosphate aldolase	NA	NA	NA	NA	NA
AUL07478.1|1577237_1577684_-	aldehyde-activating protein	NA	NA	NA	NA	NA
AUL07479.1|1577908_1578790_+	phosphoribosylaminoimidazolesuccinocarboxamide synthase	NA	A0A0M4JBD3	Mollivirus	36.1	1.8e-51
AUL07480.1|1578844_1579096_+	mRNA interferase MqsR	NA	NA	NA	NA	NA
AUL07481.1|1579098_1579500_+	antitoxin	NA	NA	NA	NA	NA
AUL07482.1|1579763_1580243_+	disulfide bond formation protein DsbB	NA	NA	NA	NA	NA
AUL07483.1|1580392_1580908_+	5-(carboxyamino)imidazole ribonucleotide mutase	NA	A0A2P0VNU7	Tetraselmis_virus	42.6	7.0e-16
AUL07484.1|1580910_1582101_+	5-(carboxyamino)imidazole ribonucleotide synthase	NA	NA	NA	NA	NA
AUL07485.1|1582120_1583158_+	threonylcarbamoyl-AMP synthase	NA	S4VW33	Pandoravirus	37.8	3.6e-35
AUL07486.1|1583294_1584317_+	amino acid ABC transporter substrate-binding protein	NA	A0A1B1IT51	uncultured_Mediterranean_phage	40.7	1.6e-67
AUL07487.1|1584408_1585245_+	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUL07488.1|1585437_1586343_+	agmatinase	NA	NA	NA	NA	NA
AUL07489.1|1586369_1587161_+	amino acid ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL07490.1|1587183_1587876_+	amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUL07491.1|1587897_1588650_+	glutamine ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	39.7	2.8e-29
AUL07492.1|1588778_1590338_+	acetolactate synthase large subunit	NA	NA	NA	NA	NA
AUL09615.1|1590471_1590915_+	acyl dehydratase	NA	NA	NA	NA	NA
AUL07493.1|1591052_1592246_-	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUL07494.1|1592325_1594020_-	thiamine pyrophosphate-binding protein	NA	E5ERI2	Ostreococcus_lucimarinus_virus	24.5	3.8e-26
AUL07495.1|1594177_1595065_+	LysR family transcriptional regulator	NA	Q6JIH3	Burkholderia_virus	28.7	3.4e-18
AUL07496.1|1595102_1596035_+	site-specific tyrosine recombinase XerD	NA	A0A0K2CP59	Brevibacillus_phage	29.5	2.3e-25
AUL09616.1|1596048_1596537_+|tRNA	aminoacyl-tRNA deacylase	tRNA	NA	NA	NA	NA
AUL07497.1|1596654_1597233_+|protease	protease	protease	NA	NA	NA	NA
AUL07498.1|1597338_1597707_+	aryl-sulfate sulfotransferase	NA	NA	NA	NA	NA
AUL07499.1|1597805_1598756_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 10
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	1653960	1725065	4103205	transposase	Ectocarpus_siliculosus_virus(11.11%)	55	NA	NA
AUL07541.1|1653960_1654911_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07542.1|1654932_1656153_+	YggW family oxidoreductase	NA	NA	NA	NA	NA
AUL07543.1|1656338_1657751_+	type I glutamate--ammonia ligase	NA	NA	NA	NA	NA
AUL07544.1|1657814_1658882_+	PAS domain-containing sensor histidine kinase	NA	Q8QKV7	Ectocarpus_siliculosus_virus	23.5	1.1e-05
AUL07545.1|1658881_1660369_+	nitrogen regulation protein NR(I)	NA	NA	NA	NA	NA
AUL09622.1|1660378_1661323_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL07546.1|1661482_1662181_+	quercetin 2,3-dioxygenase	NA	NA	NA	NA	NA
AUL07547.1|1662258_1663164_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07548.1|1663183_1664086_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07549.1|1664232_1665027_-	ABC transporter	NA	G9BWD6	Planktothrix_phage	29.4	8.3e-16
AUL07550.1|1665031_1666702_-	iron ABC transporter permease	NA	NA	NA	NA	NA
AUL07551.1|1666825_1667875_-	iron ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL07552.1|1668196_1668973_+	ferredoxin--NADP(+) reductase	NA	NA	NA	NA	NA
AUL07553.1|1669037_1669940_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL07554.1|1671233_1672037_+	2,5-didehydrogluconate reductase B	NA	A0A2H4PQR8	Staphylococcus_phage	32.4	2.0e-33
AUL07555.1|1674730_1675117_+	reactive intermediate/imine deaminase	NA	NA	NA	NA	NA
AUL07556.1|1675132_1677223_+	ATP-dependent DNA helicase RecG	NA	NA	NA	NA	NA
AUL07557.1|1677274_1678228_+	LysR family transcriptional regulator	NA	A0A2P0ZL89	Lactobacillus_phage	26.5	7.2e-14
AUL09623.1|1678242_1679130_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL07558.1|1679267_1680794_+	methylmalonate-semialdehyde dehydrogenase (acylating)	NA	NA	NA	NA	NA
AUL09624.1|1680892_1681393_+	DNA starvation/stationary phase protection protein	NA	W5S6G8	Pithovirus	35.5	6.4e-14
AUL07559.1|1681716_1683672_-	capsular biosynthesis protein	NA	NA	NA	NA	NA
AUL07560.1|1683839_1685924_-	hypothetical protein	NA	NA	NA	NA	NA
AUL09625.1|1685950_1686376_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07561.1|1687591_1688362_+	polyhydroxyalkanoate biosynthesis repressor PhaR	NA	NA	NA	NA	NA
AUL07562.1|1688361_1689102_+	sugar ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
AUL07563.1|1689143_1690313_+	capsule biosynthesis protein	NA	NA	NA	NA	NA
AUL07564.1|1690344_1692429_+	Vi polysaccharide biosynthesis protein TviE	NA	NA	NA	NA	NA
AUL07565.1|1692425_1693316_+	capsular biosynthesis protein	NA	NA	NA	NA	NA
AUL07566.1|1693312_1694410_+	capsule biosynthesis protein CapA	NA	NA	NA	NA	NA
AUL07567.1|1694432_1695722_+	Vi polysaccharide biosynthesis protein VipA/TviB	NA	NA	NA	NA	NA
AUL07568.1|1695733_1696759_+	LPS biosynthesis protein WbpP	NA	A0A2K9L4U8	Tupanvirus	44.2	4.7e-72
AUL07569.1|1696755_1698813_+	beta-3-deoxy-D-manno-oct-2-ulosonic acid transferase	NA	NA	NA	NA	NA
AUL07570.1|1698826_1700002_+	capsule biosynthesis protein CapA	NA	NA	NA	NA	NA
AUL07571.1|1700083_1701034_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07572.1|1701092_1701866_+	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUL07573.1|1701858_1703415_+	capsular biosynthesis protein	NA	NA	NA	NA	NA
AUL07574.1|1703411_1704362_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07575.1|1705687_1706290_-	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUL07576.1|1706529_1707231_-	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
AUL07577.1|1707224_1708007_-	high-affinity branched-chain amino acid ABC transporter ATP-binding protein LivG	NA	A0A2R8FG22	Brazilian_cedratvirus	25.8	2.0e-09
AUL07578.1|1708191_1709142_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07579.1|1709240_1709978_-	hypothetical protein	NA	A0A0S4KZH7	Pseudomonas_phage	46.6	4.1e-41
AUL07580.1|1710167_1710926_-	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUL07581.1|1710972_1711974_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL07582.1|1712139_1713108_-	phenol degradation protein meta	NA	NA	NA	NA	NA
AUL07583.1|1714647_1715616_+	AAA family ATPase	NA	NA	NA	NA	NA
AUL07584.1|1715624_1716566_+	MoxR protein	NA	NA	NA	NA	NA
AUL09626.1|1717039_1718050_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09628.1|1718040_1719555_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07585.1|1719551_1720898_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09627.1|1720900_1721935_+	haloacid dehalogenase	NA	NA	NA	NA	NA
AUL07586.1|1721984_1723610_+	arylsulfatase	NA	A0A2P0VMN7	Tetraselmis_virus	52.2	2.0e-149
AUL07587.1|1723703_1724183_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07588.1|1724162_1725065_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 11
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	2037172	2088759	4103205	transposase	Erysipelothrix_phage(33.33%)	48	NA	NA
AUL07816.1|2037172_2038075_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07817.1|2038993_2039866_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUL07818.1|2039943_2041083_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL07819.1|2041441_2042698_+	ring-hydroxylating oxygenase subunit alpha	NA	NA	NA	NA	NA
AUL07820.1|2042703_2043231_+	ring-hydroxylating dioxygenase subunit beta	NA	NA	NA	NA	NA
AUL07821.1|2043235_2044054_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL07822.1|2044053_2044776_+	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
AUL07823.1|2044797_2045112_+	2Fe-2S ferredoxin	NA	NA	NA	NA	NA
AUL07824.1|2045129_2046278_+	carnitine dehydratase	NA	NA	NA	NA	NA
AUL07825.1|2046308_2047184_-	esterase	NA	NA	NA	NA	NA
AUL07826.1|2047180_2048500_-	acyl--CoA ligase	NA	NA	NA	NA	NA
AUL07827.1|2048572_2049769_-	acetyl-CoA acetyltransferase	NA	NA	NA	NA	NA
AUL07828.1|2049779_2051150_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07829.1|2051507_2053334_-	DUF3604 domain-containing protein	NA	NA	NA	NA	NA
AUL07830.1|2053861_2054761_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL07831.1|2054898_2055864_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL07832.1|2055962_2056913_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07833.1|2058079_2058382_-	SelT/selW/selH domain protein	NA	NA	NA	NA	NA
AUL07834.1|2058541_2058946_+	preprotein translocase subunit TatC	NA	NA	NA	NA	NA
AUL07835.1|2058938_2060165_+	NnrS family protein	NA	NA	NA	NA	NA
AUL07836.1|2060161_2060608_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07837.1|2060677_2061460_+	exodeoxyribonuclease III	NA	NA	NA	NA	NA
AUL07838.1|2061501_2063007_+	microcystin degradation protein MlrC	NA	NA	NA	NA	NA
AUL09651.1|2063292_2064087_-	oxidoreductase	NA	NA	NA	NA	NA
AUL07839.1|2064083_2064659_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07840.1|2064737_2065532_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07841.1|2065563_2066385_-	alpha/beta hydrolase	NA	NA	NA	NA	NA
AUL07842.1|2066403_2067258_-	polysaccharide deacetylase	NA	NA	NA	NA	NA
AUL07843.1|2067261_2068233_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07844.1|2068307_2068946_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07845.1|2069579_2070530_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07846.1|2070516_2071521_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07847.1|2071667_2071964_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07848.1|2072138_2073491_+	glutathione-disulfide reductase	NA	A0A2K5B2C5	Erysipelothrix_phage	27.6	2.9e-45
AUL09652.1|2073633_2074650_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUL09653.1|2076629_2077643_-	pyridoxamine 5'-phosphate oxidase	NA	NA	NA	NA	NA
AUL07849.1|2077729_2078635_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL07850.1|2078791_2079136_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07851.1|2079293_2079752_+	(2Fe-2S)-binding protein	NA	NA	NA	NA	NA
AUL07852.1|2079765_2081982_+	aldehyde oxidase	NA	NA	NA	NA	NA
AUL07853.1|2081978_2083040_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07854.1|2083068_2084043_+	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUL07855.1|2083994_2084813_-	hypothetical protein	NA	A0A1B1INV8	uncultured_Mediterranean_phage	28.8	2.3e-16
AUL07856.1|2084825_2085434_-	peptidase S16	NA	NA	NA	NA	NA
AUL07857.1|2085608_2086004_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07858.1|2086022_2087462_+	MFS transporter	NA	A0A0M3UL24	Mycobacterium_phage	37.4	7.4e-55
AUL07859.1|2087490_2087838_+	aldehyde-activating protein	NA	NA	NA	NA	NA
AUL07860.1|2087856_2088759_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 12
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	2110141	2162404	4103205	transposase,tRNA	Klosneuvirus(22.22%)	49	NA	NA
AUL07878.1|2110141_2111005_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07879.1|2111103_2112006_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07880.1|2112290_2112941_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07881.1|2113026_2113386_-	CidA/LrgA family protein	NA	NA	NA	NA	NA
AUL07882.1|2113373_2114810_-	dethiobiotin synthase	NA	NA	NA	NA	NA
AUL07883.1|2114806_2115460_-	alpha/beta hydrolase	NA	NA	NA	NA	NA
AUL07884.1|2115456_2116650_-	8-amino-7-oxononanoate synthase	NA	NA	NA	NA	NA
AUL07885.1|2116753_2118028_+	adenosylmethionine--8-amino-7-oxononanoate transaminase	NA	A0A1V0SKB7	Klosneuvirus	28.9	9.6e-14
AUL07886.1|2118024_2118927_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07887.1|2119141_2120116_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09658.1|2120112_2120256_+	cytochrome oxidase maturation protein, cbb3-type	NA	NA	NA	NA	NA
AUL07888.1|2121877_2122540_+	cytochrome-c oxidase, cbb3-type subunit II	NA	NA	NA	NA	NA
AUL07889.1|2122542_2122719_+	cytochrome oxidase	NA	NA	NA	NA	NA
AUL07890.1|2122715_2123654_+	cytochrome-c oxidase, cbb3-type subunit III	NA	NA	NA	NA	NA
AUL07891.1|2123745_2125236_+	cytochrome c oxidase accessory protein CcoG	NA	NA	NA	NA	NA
AUL07892.1|2125321_2125474_+	lipoprotein	NA	NA	NA	NA	NA
AUL07893.1|2125487_2125727_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07894.1|2125822_2126566_+	permease	NA	NA	NA	NA	NA
AUL09659.1|2126598_2127099_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUL07895.1|2127197_2128121_+	multidrug ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	33.6	1.6e-23
AUL07896.1|2128117_2128879_+	sugar ABC transporter permease	NA	NA	NA	NA	NA
AUL09660.1|2128894_2129977_-	AI-2E family transporter	NA	NA	NA	NA	NA
AUL07897.1|2130179_2131130_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07898.1|2131089_2131503_-	transcriptional regulator	NA	A0A222YXG1	Escherichia_phage	59.0	3.8e-36
AUL07899.1|2131787_2132087_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07900.1|2132496_2134779_-	RNA polymerase sigma factor RpoD	NA	A0A2I7SAT0	Vibrio_phage	30.1	3.2e-36
AUL07901.1|2135464_2137495_-	DNA primase	NA	A0A0K1LMQ9	Caulobacter_phage	41.9	1.0e-65
AUL07902.1|2137514_2137727_-	30S ribosomal protein S21	NA	NA	NA	NA	NA
AUL07903.1|2138004_2138544_-	nicotinate phosphoribosyltransferase	NA	NA	NA	NA	NA
AUL07904.1|2138657_2139953_-	adenylosuccinate synthase	NA	A0A160ER07	Powai_lake_megavirus	33.5	3.0e-63
AUL07905.1|2140029_2141187_-	ATP phosphoribosyltransferase regulatory subunit	NA	NA	NA	NA	NA
AUL07906.1|2141370_2142270_-	HflC protein	NA	NA	NA	NA	NA
AUL07907.1|2142288_2143593_-	HflK protein	NA	NA	NA	NA	NA
AUL07908.1|2143558_2144665_-	GTPase HflX	NA	NA	NA	NA	NA
AUL07909.1|2144752_2144989_-	RNA chaperone Hfq	NA	NA	NA	NA	NA
AUL07910.1|2145127_2146198_-	histidinol-phosphate transaminase	NA	A0A1X6WGT4	Pacmanvirus	25.7	2.5e-15
AUL07911.1|2146201_2147557_-	ribosome biogenesis GTPase Der	NA	NA	NA	NA	NA
AUL09661.1|2147583_2148741_-	outer membrane protein assembly factor BamB	NA	NA	NA	NA	NA
AUL07912.1|2148746_2149385_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07913.1|2149386_2150682_-|tRNA	histidine--tRNA ligase	tRNA	NA	NA	NA	NA
AUL07914.1|2150731_2152018_-	4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase	NA	NA	NA	NA	NA
AUL07915.1|2152033_2152540_-	transcriptional regulator	NA	NA	NA	NA	NA
AUL07916.1|2152536_2153685_-	23S rRNA (adenine(2503)-C(2))-methyltransferase	NA	NA	NA	NA	NA
AUL07917.1|2153712_2154138_-	nucleoside-diphosphate kinase	NA	D2E8E1	Anguillid_herpesvirus	43.2	2.1e-21
AUL07918.1|2154460_2157343_+|tRNA	valine--tRNA ligase	tRNA	A0A1V0SK04	Klosneuvirus	37.1	3.7e-138
AUL07919.1|2157435_2158191_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07920.1|2158956_2160306_+	two-component sensor histidine kinase	NA	NA	NA	NA	NA
AUL07921.1|2160452_2161355_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07922.1|2161453_2162404_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 13
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	2197604	2263153	4103205	transposase,tRNA,protease	Lake_Baikal_phage(21.43%)	60	NA	NA
AUL07950.1|2197604_2198507_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07951.1|2198755_2199565_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL07952.1|2199689_2200640_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07953.1|2200636_2201530_-	methylglyoxal synthase	NA	NA	NA	NA	NA
AUL07954.1|2201654_2201849_-	Fe-S assembly protein IscX	NA	NA	NA	NA	NA
AUL07955.1|2201848_2202190_-	ferredoxin, 2Fe-2S type, ISC system	NA	NA	NA	NA	NA
AUL07956.1|2202199_2204062_-	Fe-S protein assembly chaperone HscA	NA	A0A0N9QXN8	Chrysochromulina_ericina_virus	42.4	3.0e-101
AUL07957.1|2204191_2204704_-	Fe-S protein assembly co-chaperone HscB	NA	NA	NA	NA	NA
AUL07958.1|2204706_2205030_-	iron-sulfur cluster assembly protein IscA	NA	A0A2H4N7N5	Lake_Baikal_phage	52.8	6.8e-25
AUL07959.1|2205031_2205442_-	Fe-S cluster assembly scaffold IscU	NA	A0A218MKD1	uncultured_virus	79.0	7.5e-53
AUL07960.1|2205479_2206691_-	IscS subfamily cysteine desulfurase	NA	NA	NA	NA	NA
AUL07961.1|2206708_2207221_-	Fe-S cluster assembly transcriptional regulator IscR	NA	NA	NA	NA	NA
AUL07962.1|2207436_2207928_-	protein tyrosine phosphatase	NA	NA	NA	NA	NA
AUL07963.1|2208180_2210217_-	excinuclease ABC subunit B	NA	NA	NA	NA	NA
AUL07964.1|2210294_2211497_+	aromatic amino acid aminotransferase	NA	NA	NA	NA	NA
AUL07965.1|2211625_2212276_+	repressor LexA	NA	A0A2H4JG58	uncultured_Caudovirales_phage	50.7	3.3e-10
AUL07966.1|2212502_2213432_-	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA	NA
AUL07967.1|2213477_2213837_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07968.1|2213833_2214784_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL07969.1|2215354_2215567_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07970.1|2215584_2216316_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07971.1|2216350_2216992_-	succinyl-CoA--3-ketoacid-CoA transferase	NA	NA	NA	NA	NA
AUL07972.1|2216984_2217653_-	3-oxoadipate CoA-transferase	NA	NA	NA	NA	NA
AUL07973.1|2219865_2220642_-	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
AUL07974.1|2220663_2221821_-	thiolase	NA	NA	NA	NA	NA
AUL07975.1|2221817_2222249_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07976.1|2222245_2223043_-	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL07977.1|2223062_2223518_-	oxidoreductase	NA	NA	NA	NA	NA
AUL07978.1|2223530_2224502_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL07979.1|2224567_2225791_-	CoA transferase	NA	NA	NA	NA	NA
AUL07980.1|2226018_2226969_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL07981.1|2227092_2229546_-	endopeptidase La	NA	A0A0R6PGP8	Moraxella_phage	52.0	1.5e-220
AUL07982.1|2229734_2231039_-|protease	ATP-dependent protease ATP-binding subunit ClpX	protease	G3M9Z9	Bacillus_virus	53.8	3.2e-129
AUL07983.1|2231143_2231797_-	ATP-dependent Clp endopeptidase, proteolytic subunit ClpP	NA	A0A223W000	Agrobacterium_phage	57.5	6.8e-56
AUL07984.1|2231799_2233110_-	trigger factor	NA	NA	NA	NA	NA
AUL07985.1|2233306_2233867_+	TIGR00645 family protein	NA	K4K6D8	Caulobacter_phage	33.7	1.0e-23
AUL07986.1|2233978_2234179_-	cold-shock protein	NA	A0A2H4N7Y6	Lake_Baikal_phage	64.4	7.4e-14
AUL07987.1|2234524_2235091_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07988.1|2235174_2235378_-	cold-shock protein	NA	A0A2H4N7Y6	Lake_Baikal_phage	62.1	1.6e-16
AUL07989.1|2235684_2236005_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07990.1|2236046_2236328_-	hypothetical protein	NA	NA	NA	NA	NA
AUL07991.1|2236402_2237659_-	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA	NA
AUL07992.1|2238041_2238371_+	hypothetical protein	NA	NA	NA	NA	NA
AUL07993.1|2239941_2240763_+	2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase	NA	NA	NA	NA	NA
AUL07994.1|2240762_2241902_+	succinyl-diaminopimelate desuccinylase	NA	NA	NA	NA	NA
AUL07995.1|2241908_2242805_+	ribosomal protein L3 N(5)-glutamine methyltransferase	NA	NA	NA	NA	NA
AUL07996.1|2242819_2244727_+	ABC transporter	NA	A0A2K9L0W2	Tupanvirus	31.8	1.1e-66
AUL07997.1|2245086_2247699_+	TonB-dependent receptor	NA	NA	NA	NA	NA
AUL07998.1|2247751_2250052_-	DNA helicase II	NA	A7KV33	Bacillus_phage	35.9	9.9e-110
AUL07999.1|2250048_2251257_-	acyl-CoA desaturase	NA	NA	NA	NA	NA
AUL08000.1|2251518_2251893_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08001.1|2251889_2252840_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09664.1|2252938_2254336_-	rRNA methyltransferase	NA	NA	NA	NA	NA
AUL08002.1|2254992_2255958_+	riboflavin biosynthesis protein RibF	NA	NA	NA	NA	NA
AUL08003.1|2255947_2258809_+|tRNA	isoleucine--tRNA ligase	tRNA	A0A1V0SJ93	Klosneuvirus	25.5	1.0e-71
AUL08004.1|2258811_2259318_+	signal peptidase II	NA	NA	NA	NA	NA
AUL08005.1|2259422_2260631_+	phosphopantothenate synthase	NA	Q9HH70	Methanothermobacter_phage	30.0	3.8e-36
AUL08006.1|2260632_2261571_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08007.1|2261732_2262206_+	AsnC family transcriptional regulator	NA	NA	NA	NA	NA
AUL08008.1|2262202_2263153_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 14
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	2684890	2725509	4103205	transposase,tRNA	Salmonella_phage(33.33%)	42	NA	NA
AUL08352.1|2684890_2685793_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08353.1|2685951_2686134_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08354.1|2686233_2686827_-	twin-arginine translocation pathway signal	NA	NA	NA	NA	NA
AUL08355.1|2687013_2688105_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08356.1|2688604_2689015_-	transcriptional regulator	NA	NA	NA	NA	NA
AUL08357.1|2689073_2689403_-	integration host factor subunit alpha	NA	A0A0H3UZA0	Geobacillus_virus	42.2	2.7e-13
AUL08358.1|2689420_2691838_-|tRNA	phenylalanine--tRNA ligase subunit beta	tRNA	NA	NA	NA	NA
AUL08359.1|2691850_2692873_-|tRNA	phenylalanine--tRNA ligase subunit alpha	tRNA	A0A2H4UW22	Bodo_saltans_virus	38.6	1.0e-26
AUL08360.1|2692947_2693307_-	50S ribosomal protein L20	NA	NA	NA	NA	NA
AUL08361.1|2693322_2693520_-	50S ribosomal protein L35	NA	NA	NA	NA	NA
AUL08362.1|2693855_2694758_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08363.1|2695000_2695450_+	deoxyuridine 5'-triphosphate nucleotidohydrolase	NA	S4TNT3	Salmonella_phage	67.2	3.7e-45
AUL08364.1|2695446_2696397_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08365.1|2696507_2697956_+	2-aminoadipate aminotransferase	NA	NA	NA	NA	NA
AUL08366.1|2698070_2698316_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08367.1|2698455_2699406_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08368.1|2699650_2700364_-	SAM-dependent methyltransferase	NA	NA	NA	NA	NA
AUL08369.1|2700486_2700714_-	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUL08370.1|2701008_2701647_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08371.1|2701755_2702790_+	hydrolase	NA	NA	NA	NA	NA
AUL08372.1|2702786_2703689_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08373.1|2704151_2704676_-	DNA-binding protein	NA	J9Q7G7	Salmonella_phage	32.9	6.5e-09
AUL08374.1|2705147_2706209_-	LacI family transcriptional regulator	NA	NA	NA	NA	NA
AUL08375.1|2706292_2707927_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	31.1	2.9e-15
AUL08376.1|2707928_2708732_-	peptide ABC transporter permease	NA	NA	NA	NA	NA
AUL08377.1|2708760_2709720_-	ABC transporter	NA	NA	NA	NA	NA
AUL08378.1|2709723_2711238_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL08379.1|2711274_2712279_-	peptidase M20	NA	NA	NA	NA	NA
AUL08380.1|2712286_2712535_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08381.1|2712709_2713180_-	histidine kinase	NA	NA	NA	NA	NA
AUL08382.1|2713215_2713827_-	RhtB family transporter	NA	NA	NA	NA	NA
AUL08383.1|2713857_2714481_-	transcriptional regulator	NA	NA	NA	NA	NA
AUL08384.1|2714561_2716094_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUL08385.1|2716128_2717346_-	MFS transporter	NA	NA	NA	NA	NA
AUL08386.1|2717413_2718445_-	alcohol dehydrogenase	NA	A0A2K9L339	Tupanvirus	27.8	1.8e-26
AUL08387.1|2718441_2719611_-	amine oxidase	NA	NA	NA	NA	NA
AUL08388.1|2719604_2720285_-	anti-sigma factor	NA	NA	NA	NA	NA
AUL08389.1|2720446_2721289_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL08390.1|2721451_2722423_-	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUL08391.1|2722594_2723473_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08392.1|2723495_2724566_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08393.1|2724606_2725509_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 15
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	2787129	2923792	4103205	transposase,protease	Agrobacterium_phage(14.29%)	102	NA	NA
AUL08441.1|2787129_2788080_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08442.1|2788076_2795738_-	adhesin	NA	A0A0R6PJK4	Moraxella_phage	30.9	7.3e-24
AUL08443.1|2795978_2800025_-	phosphoribosylformylglycinamidine synthase	NA	A9YX36	Burkholderia_phage	67.4	6.3e-160
AUL08444.1|2800382_2800919_+	TRAP transporter small permease protein	NA	NA	NA	NA	NA
AUL08445.1|2800915_2802214_+	C4-dicarboxylate ABC transporter	NA	NA	NA	NA	NA
AUL08446.1|2802293_2803322_+	C4-dicarboxylate ABC transporter	NA	NA	NA	NA	NA
AUL08447.1|2804528_2805479_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08448.1|2805795_2806401_+	fimbrial protein	NA	NA	NA	NA	NA
AUL08449.1|2806454_2807768_-	phenylacetate--CoA ligase	NA	NA	NA	NA	NA
AUL08450.1|2807842_2808313_-	phenylacetic acid degradation protein PaaD	NA	NA	NA	NA	NA
AUL08451.1|2808312_2809101_-	2-(1,2-epoxy-1,2-dihydrophenyl)acetyl-CoA isomerase	NA	NA	NA	NA	NA
AUL08452.1|2809111_2810764_-	phenylacetic acid degradation protein PaaN	NA	NA	NA	NA	NA
AUL08453.1|2810851_2811754_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09705.1|2812963_2813470_-	phenylacetate-CoA oxygenase subunit PaaJ	NA	NA	NA	NA	NA
AUL08454.1|2813466_2814231_-	phenylacetate-CoA oxygenase subunit PaaI	NA	NA	NA	NA	NA
AUL08455.1|2814246_2814531_-	1,2-phenylacetyl-CoA epoxidase subunit B	NA	NA	NA	NA	NA
AUL08456.1|2814595_2815585_-	1,2-phenylacetyl-CoA epoxidase subunit A	NA	NA	NA	NA	NA
AUL08457.1|2815756_2816686_+	phenylacetic acid degradation operon negative regulatory protein PaaX	NA	NA	NA	NA	NA
AUL08458.1|2816657_2817344_-	NAD(P)H-hydrate epimerase	NA	NA	NA	NA	NA
AUL08459.1|2817377_2817923_-	oligoribonuclease	NA	Q8B5Y0	Diachasmimorpha_longicaudata_entomopoxvirus	37.7	2.1e-26
AUL08460.1|2817967_2819233_+	peptidase M48	NA	NA	NA	NA	NA
AUL08461.1|2819229_2820132_+	ribosome small subunit-dependent GTPase A	NA	NA	NA	NA	NA
AUL08462.1|2821313_2822258_-	peptide ABC transporter	NA	NA	NA	NA	NA
AUL08463.1|2822352_2823870_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL08464.1|2823911_2825540_-	gamma-glutamyltransferase	NA	NA	NA	NA	NA
AUL08465.1|2825647_2826529_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL08466.1|2826789_2827017_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08467.1|2829641_2830016_+	endonuclease	NA	F4YXR7	Roseobacter_phage	54.4	2.1e-25
AUL08468.1|2830040_2830379_-	transcriptional regulator	NA	NA	NA	NA	NA
AUL08469.1|2830422_2832057_-	NAD+ synthase	NA	A0A2L0UZF5	Agrobacterium_phage	36.6	8.3e-87
AUL08470.1|2832095_2833442_-	mechanosensitive ion channel protein MscS	NA	NA	NA	NA	NA
AUL09706.1|2833549_2834971_+	argininosuccinate lyase	NA	NA	NA	NA	NA
AUL08471.1|2835040_2835625_-	nitroreductase	NA	NA	NA	NA	NA
AUL08472.1|2835727_2836678_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08473.1|2836812_2837919_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL08474.1|2837929_2839027_+	cyclic pyranopterin phosphate synthase	NA	NA	NA	NA	NA
AUL08475.1|2839171_2840377_-	molybdopterin molybdenumtransferase MoeA	NA	NA	NA	NA	NA
AUL08476.1|2840383_2840905_-	molybdenum cofactor biosynthesis protein B	NA	NA	NA	NA	NA
AUL09707.1|2840901_2841384_-	molybdenum cofactor biosynthesis protein MoaE	NA	NA	NA	NA	NA
AUL08477.1|2841389_2841641_-	molybdopterin synthase sulfur carrier subunit	NA	NA	NA	NA	NA
AUL08478.1|2841621_2842107_-	molybdenum cofactor biosynthesis protein C	NA	NA	NA	NA	NA
AUL08479.1|2842242_2845704_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08480.1|2845721_2846606_+	carboxymethylenebutenolidase	NA	NA	NA	NA	NA
AUL08481.1|2846615_2847047_-	hypothetical protein	NA	NA	NA	NA	NA
AUL09708.1|2847293_2847797_+	peroxiredoxin	NA	M1I839	Pelagibacter_phage	44.1	1.8e-24
AUL08482.1|2847874_2849275_+	MFS transporter	NA	NA	NA	NA	NA
AUL08483.1|2849349_2850225_-	hypothetical protein	NA	NA	NA	NA	NA
AUL09709.1|2850221_2851229_-	biotin synthase BioB	NA	NA	NA	NA	NA
AUL08484.1|2851696_2852002_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08485.1|2852092_2852683_+	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUL09710.1|2852873_2853890_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUL08486.1|2854081_2856418_-	copper-translocating P-type ATPase	NA	E4ZFI9	Streptococcus_phage	42.8	3.2e-124
AUL08487.1|2856500_2856935_+	Cd(II)/Pb(II)-responsive transcriptional regulator	NA	NA	NA	NA	NA
AUL08488.1|2857081_2857984_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08489.1|2858082_2859033_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08490.1|2859029_2859824_-	N-formylglutamate deformylase	NA	NA	NA	NA	NA
AUL08491.1|2859855_2860560_-	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
AUL08492.1|2860634_2861435_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08493.1|2861431_2861839_-	cytochrome o ubiquinol oxidase subunit IV	NA	NA	NA	NA	NA
AUL08494.1|2861835_2862477_-	cytochrome o ubiquinol oxidase subunit III	NA	NA	NA	NA	NA
AUL09711.1|2862469_2864470_-	cytochrome o ubiquinol oxidase subunit I	NA	NA	NA	NA	NA
AUL08495.1|2865730_2867062_+	arabinose ABC transporter permease	NA	NA	NA	NA	NA
AUL08496.1|2867058_2867961_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08497.1|2869714_2869981_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08498.1|2870688_2871027_+	transcriptional regulator	NA	NA	NA	NA	NA
AUL09712.1|2872355_2874635_-	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA	NA
AUL08499.1|2875578_2876181_-	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUL08500.1|2876277_2877567_+	MFS transporter	NA	NA	NA	NA	NA
AUL08501.1|2877624_2878356_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	31.0	1.4e-12
AUL08502.1|2878352_2879156_-	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	23.5	7.9e-14
AUL08503.1|2879152_2880241_-	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
AUL08504.1|2880237_2881167_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUL08505.1|2881315_2882461_-	branched chain amino acid ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL08506.1|2883762_2887584_-	trifunctional transcriptional regulator/proline dehydrogenase/L-glutamate gamma-semialdehyde dehydrogenase	NA	NA	NA	NA	NA
AUL08507.1|2887740_2888409_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08508.1|2888413_2890087_-	paraquat-inducible protein B	NA	NA	NA	NA	NA
AUL08509.1|2890105_2891425_-	paraquat-inducible membrane protein A	NA	NA	NA	NA	NA
AUL08510.1|2891429_2893745_-|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	protease	A0A223W0B1	Agrobacterium_phage	41.9	4.1e-164
AUL09713.1|2893800_2895969_-	penicillin-binding protein 1C	NA	NA	NA	NA	NA
AUL09714.1|2895965_2900531_-	alpha-2-macroglobulin	NA	NA	NA	NA	NA
AUL08511.1|2901244_2901559_-|protease	ATP-dependent Clp protease adapter ClpS	protease	A0A1B1IT64	uncultured_Mediterranean_phage	43.8	1.2e-10
AUL08512.1|2901786_2902032_+	cold-shock protein	NA	A0A2H4N7Y6	Lake_Baikal_phage	76.6	1.3e-20
AUL08513.1|2902153_2902645_+	hypothetical protein	NA	A0A1B1IUW8	uncultured_Mediterranean_phage	42.2	4.8e-14
AUL08514.1|2902744_2903950_-	3-oxoadipyl-CoA thiolase	NA	NA	NA	NA	NA
AUL08515.1|2904065_2905463_-	chloride channel protein EriC	NA	NA	NA	NA	NA
AUL08516.1|2905579_2906158_-	superoxide dismutase	NA	NA	NA	NA	NA
AUL08517.1|2906230_2907622_-	exodeoxyribonuclease VII large subunit	NA	A0A1V0SD82	Indivirus	32.0	1.4e-29
AUL08518.1|2907789_2908740_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08519.1|2909020_2909641_+	flagellar motor protein MotA	NA	NA	NA	NA	NA
AUL08520.1|2909637_2910051_+	biopolymer transporter ExbD	NA	NA	NA	NA	NA
AUL08521.1|2910047_2911091_+	tetraacyldisaccharide 4'-kinase	NA	NA	NA	NA	NA
AUL08522.1|2911146_2911335_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08523.1|2911344_2912109_+	3-deoxy-manno-octulosonate cytidylyltransferase	NA	NA	NA	NA	NA
AUL08524.1|2912199_2912856_+	adenylate kinase	NA	NA	NA	NA	NA
AUL08525.1|2912947_2913706_+	3-hydroxyacyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUL08526.1|2913731_2915333_+	murein biosynthesis integral membrane protein MurJ	NA	NA	NA	NA	NA
AUL08527.1|2915533_2916538_+	iron dicitrate transport regulator FecR	NA	NA	NA	NA	NA
AUL08528.1|2916638_2916902_+	30S ribosomal protein S20	NA	NA	NA	NA	NA
AUL08529.1|2917019_2917796_-	2-dehydro-3-deoxyglucarate aldolase	NA	NA	NA	NA	NA
AUL08530.1|2918386_2919337_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08531.1|2921720_2922833_-	malate dehydrogenase	NA	NA	NA	NA	NA
AUL08532.1|2922889_2923792_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 16
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	2946219	2997869	4103205	transposase	Staphylococcus_phage(25.0%)	45	NA	NA
AUL08555.1|2946219_2947083_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08556.1|2947278_2948751_-	magnesium transporter	NA	NA	NA	NA	NA
AUL08557.1|2948761_2949172_-	acyl-CoA thioesterase	NA	NA	NA	NA	NA
AUL08558.1|2949235_2950282_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08559.1|2950388_2951267_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL08560.1|2951280_2952477_-	amidohydrolase	NA	NA	NA	NA	NA
AUL08561.1|2952538_2954230_+	long-chain fatty acid--CoA ligase	NA	A0A2H4PQU7	Staphylococcus_phage	28.1	9.4e-33
AUL08562.1|2954226_2955129_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08563.1|2955297_2956194_-	inositol monophosphatase	NA	NA	NA	NA	NA
AUL08564.1|2958471_2960697_+	glycosyl hydrolase	NA	NA	NA	NA	NA
AUL08565.1|2960861_2961950_+	phosphate ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	36.4	8.7e-32
AUL08566.1|2961906_2962560_+	DL-methionine transporter permease subunit	NA	NA	NA	NA	NA
AUL08567.1|2962607_2963405_+	metal ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL08568.1|2963984_2964887_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08569.1|2964967_2966116_+	alcohol dehydrogenase	NA	NA	NA	NA	NA
AUL08570.1|2966172_2967123_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08571.1|2967221_2967527_-	antibiotic biosynthesis monooxygenase	NA	NA	NA	NA	NA
AUL08572.1|2967555_2967990_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08573.1|2967991_2969236_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08574.1|2969232_2969943_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUL09716.1|2969957_2970869_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08575.1|2971231_2971636_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08576.1|2971632_2972091_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08577.1|2972097_2973006_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09717.1|2973002_2973869_+	ABC transporter permease	NA	NA	NA	NA	NA
AUL08578.1|2973855_2974683_+	sugar ABC transporter permease	NA	NA	NA	NA	NA
AUL08579.1|2974693_2975821_+	phosphate ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	32.3	1.2e-23
AUL08580.1|2978178_2979441_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL08581.1|2979447_2980200_+	DNA-binding protein	NA	NA	NA	NA	NA
AUL08582.1|2980251_2980437_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08583.1|2980712_2981177_+	redox-sensitive transcriptional activator SoxR	NA	NA	NA	NA	NA
AUL08584.1|2981256_2981868_+	3-methyladenine DNA glycosylase	NA	NA	NA	NA	NA
AUL08585.1|2982012_2984121_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08586.1|2984117_2985020_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08587.1|2985171_2985792_-	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUL09718.1|2985895_2986636_+	oxidoreductase	NA	NA	NA	NA	NA
AUL08588.1|2987770_2988895_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08589.1|2988940_2989309_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08590.1|2989550_2990453_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08591.1|2991536_2992079_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08592.1|2992512_2993415_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08593.1|2993411_2994320_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL08594.1|2994446_2995283_+	3-methyl-2-oxobutanoate hydroxymethyltransferase	NA	A0A0P0BXC9	Ostreococcus_lucimarinus_virus	33.3	1.6e-33
AUL08595.1|2995795_2996905_+	porin	NA	NA	NA	NA	NA
AUL08596.1|2996966_2997869_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 17
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	3231426	3279043	4103205	transposase,tRNA	Erwinia_phage(10.0%)	46	NA	NA
AUL08780.1|3231426_3232377_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08781.1|3232821_3233133_-	cell division protein ZapA	NA	NA	NA	NA	NA
AUL08782.1|3233132_3233663_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08783.1|3233825_3234776_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08784.1|3235065_3235530_+	tricarboxylate transporter	NA	NA	NA	NA	NA
AUL08785.1|3235544_3237050_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08786.1|3237306_3238911_+	gamma-glutamyltransferase	NA	NA	NA	NA	NA
AUL08787.1|3238966_3239872_+	oxidoreductase	NA	NA	NA	NA	NA
AUL08788.1|3240312_3241215_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08789.1|3241361_3242264_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08790.1|3242393_3242975_-	ATP:cob(I)alamin adenosyltransferase	NA	NA	NA	NA	NA
AUL09732.1|3243399_3243705_+	RND transporter	NA	NA	NA	NA	NA
AUL08791.1|3243718_3245053_-	HslU--HslV peptidase ATPase subunit	NA	A0A191ZC11	Erwinia_phage	29.6	3.5e-43
AUL08792.1|3245074_3245614_-	HslU--HslV peptidase proteolytic subunit	NA	NA	NA	NA	NA
AUL08793.1|3245761_3246226_-	RNA polymerase-binding protein DksA	NA	NA	NA	NA	NA
AUL08794.1|3246368_3247484_-	cobalamin biosynthesis protein CobW	NA	NA	NA	NA	NA
AUL08795.1|3247760_3248264_-	transcriptional repressor	NA	NA	NA	NA	NA
AUL08796.1|3248401_3248602_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08797.1|3248592_3249315_+	ABC transporter	NA	A0A2R8FG22	Brazilian_cedratvirus	30.0	1.1e-11
AUL08798.1|3249311_3250208_+	zinc ABC transporter permease	NA	NA	NA	NA	NA
AUL08799.1|3250204_3251140_+	metal ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL08800.1|3251100_3251769_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08801.1|3251759_3252728_+	nickel transporter	NA	NA	NA	NA	NA
AUL08802.1|3252776_3254918_+	TonB-dependent receptor	NA	NA	NA	NA	NA
AUL08803.1|3254930_3255911_-	tyrosine recombinase XerC	NA	A0A166YH27	Gordonia_phage	30.5	3.3e-14
AUL08804.1|3255925_3256618_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08805.1|3256644_3257556_-	diaminopimelate epimerase	NA	NA	NA	NA	NA
AUL08806.1|3257598_3258489_-	acyltransferase	NA	NA	NA	NA	NA
AUL08807.1|3258485_3259340_-	lipid A biosynthesis lauroyl acyltransferase	NA	NA	NA	NA	NA
AUL08808.1|3259623_3260787_+	methionine adenosyltransferase	NA	A0A2H4PQS6	Staphylococcus_phage	60.8	5.0e-126
AUL08809.1|3260897_3261149_+	DUF1289 domain-containing protein	NA	NA	NA	NA	NA
AUL08810.1|3261228_3262269_+	alpha-mannosyltransferase	NA	NA	NA	NA	NA
AUL08811.1|3262548_3263967_+	adenosylhomocysteinase	NA	S4VPF6	Pandoravirus	29.4	8.7e-40
AUL08812.1|3264037_3264373_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08813.1|3264372_3265215_+	methylenetetrahydrofolate reductase [NAD(P)H]	NA	NA	NA	NA	NA
AUL08814.1|3265361_3266264_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08815.1|3266328_3267300_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL08816.1|3267363_3268383_-	acetylpolyamine amidohydrolase	NA	A0A2K9L473	Tupanvirus	31.7	3.4e-22
AUL08817.1|3268384_3269725_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL09733.1|3270035_3270716_-	5-formyltetrahydrofolate cyclo-ligase	NA	NA	NA	NA	NA
AUL09734.1|3270791_3272855_+	lytic transglycosylase	NA	A0A0S2SXL7	Bacillus_phage	36.6	5.3e-14
AUL08818.1|3272851_3273946_+|tRNA	CCA tRNA nucleotidyltransferase	tRNA	A0A0F6YPT7	Sinorhizobium_phage	50.5	2.4e-50
AUL08819.1|3273960_3275151_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08820.1|3275239_3276928_-	RNA helicase	NA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	32.9	1.6e-48
AUL08821.1|3277202_3277955_-	uracil-DNA glycosylase	NA	A0A1Y0B680	Bovine_alphaherpesvirus	47.5	2.5e-46
AUL08822.1|3278092_3279043_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 18
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	3288970	3328920	4103205	transposase,integrase,tRNA,protease	Klosneuvirus(33.33%)	28	3311767:3311785	3331655:3331673
AUL08832.1|3288970_3289921_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08833.1|3290448_3291222_-	molybdate ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL08834.1|3291354_3292365_-	LacI family transcriptional regulator	NA	NA	NA	NA	NA
AUL08835.1|3292516_3294172_-	gamma-glutamyltransferase	NA	NA	NA	NA	NA
AUL08836.1|3294226_3294568_-	cupin	NA	NA	NA	NA	NA
AUL08837.1|3294581_3296021_-	amine oxidase	NA	NA	NA	NA	NA
AUL08838.1|3296153_3296969_-	MerR family transcriptional regulator	NA	NA	NA	NA	NA
AUL08839.1|3297210_3298113_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08840.1|3299506_3300448_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08841.1|3300674_3301415_+	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUL08842.1|3301500_3302403_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08843.1|3303892_3305464_-	transcriptional regulator	NA	NA	NA	NA	NA
AUL08844.1|3305796_3307650_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08845.1|3307694_3310259_+	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA	NA
AUL08846.1|3310725_3311628_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
3311767:3311785	attL	CTGCCTGGCGTGGCCGAGT	NA	NA	NA	NA
AUL08847.1|3312411_3312696_-	hypothetical protein	NA	A0A1V0SIN4	Klosneuvirus	34.1	6.8e-05
AUL08848.1|3312777_3313689_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08849.1|3313758_3314004_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08850.1|3314232_3314490_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08851.1|3315004_3315907_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08852.1|3316138_3317350_-	chromosome segregation protein SMC	NA	NA	NA	NA	NA
AUL08853.1|3317365_3320317_-	site-specific DNA-methyltransferase	NA	G8I4P9	Mycobacterium_phage	25.1	2.9e-21
AUL09737.1|3320318_3323075_-	restriction endonuclease	NA	NA	NA	NA	NA
AUL08854.1|3323585_3324632_-	cell filamentation protein Fic	NA	NA	NA	NA	NA
AUL08855.1|3324973_3326101_-|integrase	integrase	integrase	A0A1B0VMI6	Pseudomonas_phage	33.6	1.4e-48
AUL08856.1|3326380_3327472_-	redox-regulated ATPase YchF	NA	NA	NA	NA	NA
AUL08857.1|3327544_3328327_-|protease	CAAX protease	protease	NA	NA	NA	NA
AUL08858.1|3328323_3328920_-|tRNA	aminoacyl-tRNA hydrolase	tRNA	NA	NA	NA	NA
3331655:3331673	attR	ACTCGGCCACGCCAGGCAG	NA	NA	NA	NA
>prophage 19
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	3397719	3442790	4103205	transposase,tRNA	Staphylococcus_phage(20.0%)	40	NA	NA
AUL08911.1|3397719_3398622_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08912.1|3399436_3400531_-	CoA transferase	NA	NA	NA	NA	NA
AUL08913.1|3400523_3401858_-	CoA ligase	NA	NA	NA	NA	NA
AUL08914.1|3401811_3402495_-	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUL08915.1|3402520_3403684_-	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUL08916.1|3403680_3404682_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUL08917.1|3404681_3405554_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUL08918.1|3405550_3406300_-	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	27.8	1.9e-09
AUL08919.1|3406296_3407088_-	ABC transporter ATP-binding protein	NA	A0A1M7XV31	Cedratvirus	29.4	1.7e-08
AUL08920.1|3407084_3408224_-	ABC transporter	NA	NA	NA	NA	NA
AUL08921.1|3408499_3409285_+	3-hydroxyacyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUL08922.1|3409318_3410101_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL08923.1|3410104_3410494_+	DNA-binding protein	NA	NA	NA	NA	NA
AUL08924.1|3411633_3412497_+	3-alpha,7-alpha, 12-alpha-trihydroxy-5-beta-cholest-24-enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL08925.1|3412532_3413621_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08926.1|3413617_3414520_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08927.1|3414921_3417900_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08928.1|3418826_3419705_+	fatty acid desaturase	NA	NA	NA	NA	NA
AUL08929.1|3419740_3420073_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08930.1|3420051_3421572_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08931.1|3421653_3422604_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08932.1|3422600_3423068_-	ribonuclease HI	NA	J9Q745	Salmonella_phage	50.7	5.6e-36
AUL08933.1|3423110_3423881_-	SAM-dependent methyltransferase	NA	NA	NA	NA	NA
AUL08934.1|3423901_3424702_+	hydroxyacylglutathione hydrolase	NA	NA	NA	NA	NA
AUL08935.1|3424712_3426122_+	lytic transglycosylase	NA	NA	NA	NA	NA
AUL08936.1|3426216_3427002_+	enoyl-[acyl-carrier-protein] reductase	NA	NA	NA	NA	NA
AUL09741.1|3427241_3428258_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUL08937.1|3428365_3428758_-	osmotically inducible protein OsmC	NA	NA	NA	NA	NA
AUL08938.1|3428895_3429576_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08939.1|3429580_3430552_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL08940.1|3430647_3431550_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08941.1|3433102_3433804_+	two-component system response regulator OmpR	NA	W8CYM9	Bacillus_phage	36.6	5.6e-32
AUL08942.1|3433803_3435228_+	ATPase	NA	NA	NA	NA	NA
AUL08943.1|3435244_3436300_-	cytochrome oxidase	NA	NA	NA	NA	NA
AUL08944.1|3436296_3437637_-	cytochrome ubiquinol oxidase subunit I	NA	NA	NA	NA	NA
AUL08945.1|3437752_3439516_+|tRNA	glutamine--tRNA ligase	tRNA	A0A222YZ70	Escherichia_phage	50.0	5.0e-162
AUL08946.1|3439627_3440506_+	septum site-determining protein MinC	NA	NA	NA	NA	NA
AUL08947.1|3440618_3441434_+	septum site-determining protein MinD	NA	NA	NA	NA	NA
AUL08948.1|3441437_3441689_+	cell division topological specificity factor MinE	NA	NA	NA	NA	NA
AUL09742.1|3441773_3442790_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
>prophage 20
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	3460534	3512941	4103205	transposase,tRNA	Acinetobacter_phage(37.5%)	50	NA	NA
AUL09744.1|3460534_3461551_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUL08958.1|3461646_3462357_-	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUL09745.1|3462353_3463343_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL08959.1|3463438_3465070_+	acyl-CoA synthetase	NA	NA	NA	NA	NA
AUL08960.1|3465072_3465810_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUL08961.1|3465965_3466838_-|tRNA	tRNA threonylcarbamoyladenosine dehydratase	tRNA	NA	NA	NA	NA
AUL08962.1|3467187_3468327_+	MFS transporter	NA	NA	NA	NA	NA
AUL08963.1|3468323_3468983_+	gamma-glutamylcyclotransferase	NA	NA	NA	NA	NA
AUL08964.1|3469054_3469687_+	pyridoxamine 5'-phosphate oxidase	NA	NA	NA	NA	NA
AUL08965.1|3469716_3470235_+	flavin reductase	NA	NA	NA	NA	NA
AUL08966.1|3470245_3471355_+	FAD-dependent oxidoreductase	NA	NA	NA	NA	NA
AUL08967.1|3471401_3472256_+	formyltetrahydrofolate deformylase	NA	NA	NA	NA	NA
AUL08968.1|3472257_3473160_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL08969.1|3474382_3475333_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08970.1|3475431_3476565_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08971.1|3476601_3476850_-	hypothetical protein	NA	NA	NA	NA	NA
AUL08972.1|3477089_3478079_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08973.1|3478254_3479043_-	indole-3-glycerol-phosphate synthase	NA	A0A0P0IR83	Acinetobacter_phage	53.0	5.1e-66
AUL08974.1|3479039_3480071_-	anthranilate phosphoribosyltransferase	NA	A0A0N7IRD9	Acinetobacter_phage	42.7	7.4e-73
AUL08975.1|3480089_3480653_-	anthranilate/aminodeoxychorismate synthase component II	NA	A0A0P0IKJ1	Acinetobacter_phage	62.1	1.1e-65
AUL08976.1|3480708_3482229_-	anthranilate synthase component I	NA	S4VT78	Pandoravirus	32.1	9.0e-43
AUL08977.1|3482492_3483197_-	phosphoglycolate phosphatase	NA	NA	NA	NA	NA
AUL08978.1|3483204_3483933_-	ribulose-phosphate 3-epimerase	NA	NA	NA	NA	NA
AUL08979.1|3484047_3484422_+	Co2+/Mg2+ efflux protein ApaG	NA	NA	NA	NA	NA
AUL08980.1|3484464_3485754_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08981.1|3485750_3486920_+	ubiquinone biosynthesis protein UbiH	NA	NA	NA	NA	NA
AUL08982.1|3486946_3487756_+	disulfide bond formation protein DsbC	NA	NA	NA	NA	NA
AUL08983.1|3487815_3488751_+	hydroxyacid dehydrogenase	NA	A0A1J0F959	Only_Syngen_Nebraska_virus	27.7	6.4e-15
AUL08984.1|3488763_3489714_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08985.1|3489812_3490775_-|tRNA	tRNA 2-thiocytidine(32) synthetase TtcA	tRNA	A0A0U2S5Z2	Escherichia_phage	64.5	4.6e-93
AUL08986.1|3490806_3491166_-	dihydroneopterin aldolase	NA	NA	NA	NA	NA
AUL08987.1|3491290_3492193_+	oxidoreductase	NA	G3MA85	Bacillus_virus	24.0	1.9e-08
AUL09746.1|3492194_3493961_-	peptidase M61	NA	NA	NA	NA	NA
AUL08988.1|3494001_3494778_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL08989.1|3496101_3497004_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL08990.1|3497218_3497632_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09747.1|3497903_3498224_+	ABC transporter permease	NA	NA	NA	NA	NA
AUL08991.1|3498296_3499178_+	F0F1 ATP synthase subunit A	NA	NA	NA	NA	NA
AUL08992.1|3499294_3499537_+	F0F1 ATP synthase subunit C	NA	NA	NA	NA	NA
AUL08993.1|3499674_3500145_+	F0F1 ATP synthase subunit B	NA	NA	NA	NA	NA
AUL08994.1|3500157_3500697_+	F0F1 ATP synthase subunit delta	NA	NA	NA	NA	NA
AUL08995.1|3500731_3502273_+	F0F1 ATP synthase subunit alpha	NA	NA	NA	NA	NA
AUL08996.1|3502371_3503277_+	F0F1 ATP synthase subunit gamma	NA	NA	NA	NA	NA
AUL08997.1|3503319_3504720_+	F0F1 ATP synthase subunit beta	NA	NA	NA	NA	NA
AUL08998.1|3504729_3505152_+	F0F1 ATP synthase subunit epsilon	NA	NA	NA	NA	NA
AUL09748.1|3505334_3506219_+	hypothetical protein	NA	NA	NA	NA	NA
AUL08999.1|3506294_3507371_+	uroporphyrinogen decarboxylase	NA	NA	NA	NA	NA
AUL09000.1|3507677_3509780_+	primosomal protein N'	NA	NA	NA	NA	NA
AUL09001.1|3509822_3511892_+	ATP-dependent DNA helicase Rep	NA	A7KV33	Bacillus_phage	37.3	2.6e-101
AUL09002.1|3511990_3512941_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 21
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	3530107	3581138	4103205	transposase,holin,tRNA	Catovirus(10.0%)	48	NA	NA
AUL09014.1|3530107_3531010_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09015.1|3531350_3532301_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09016.1|3532447_3533350_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09017.1|3533646_3534144_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09018.1|3534186_3535962_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09019.1|3535969_3536836_+	copper resistance protein	NA	NA	NA	NA	NA
AUL09020.1|3536842_3537568_-	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL09021.1|3537737_3537968_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09022.1|3538005_3538227_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09023.1|3538746_3539517_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUL09024.1|3539830_3540421_+	cysteine dioxygenase	NA	NA	NA	NA	NA
AUL09025.1|3540454_3541783_-	amidase	NA	NA	NA	NA	NA
AUL09026.1|3541857_3543003_-	transporter	NA	NA	NA	NA	NA
AUL09027.1|3543114_3544113_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09028.1|3544075_3544510_+	carbon monoxide dehydrogenase	NA	NA	NA	NA	NA
AUL09029.1|3546026_3546911_+	EamA family transporter	NA	NA	NA	NA	NA
AUL09030.1|3546907_3548113_-	cardiolipin synthase B	NA	NA	NA	NA	NA
AUL09031.1|3548109_3548970_-	endonuclease	NA	NA	NA	NA	NA
AUL09032.1|3549082_3550873_-|tRNA	aspartate--tRNA ligase	tRNA	A0A1V0SAC0	Catovirus	25.5	6.5e-08
AUL09750.1|3550913_3551558_-	hypothetical protein	NA	A0A2I7S9X1	Vibrio_phage	28.4	8.5e-11
AUL09033.1|3551579_3551888_-	FmdB family transcriptional regulator	NA	NA	NA	NA	NA
AUL09751.1|3552053_3553340_-	hypothetical protein	NA	NA	NA	NA	NA
AUL09034.1|3553466_3554726_-|holin	choline dehydrogenase	holin	A0A2I2L3D3	Orpheovirus	27.6	6.1e-13
AUL09035.1|3554773_3555724_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09036.1|3557675_3558890_-	phosphoribosylglycinamide formyltransferase 2	NA	NA	NA	NA	NA
AUL09037.1|3558995_3559985_+	D-arabinose 5-phosphate isomerase	NA	A0A2P0VNK5	Tetraselmis_virus	37.7	4.3e-38
AUL09038.1|3559981_3560590_+	phenylphosphate carboxylase subunit delta	NA	E3T535	Cafeteria_roenbergensis_virus	26.1	5.2e-10
AUL09039.1|3560602_3561232_+	LPS export ABC transporter periplasmic protein LptC	NA	NA	NA	NA	NA
AUL09040.1|3561228_3561849_+	lipopolysaccharide transport periplasmic protein LptA	NA	NA	NA	NA	NA
AUL09041.1|3561880_3562672_+	LPS export ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	27.4	9.5e-20
AUL09042.1|3563025_3563247_+	ribosomal subunit interface protein	NA	NA	NA	NA	NA
AUL09043.1|3563523_3563979_+	PTS sugar transporter subunit IIA	NA	NA	NA	NA	NA
AUL09044.1|3563997_3564924_+	HPr kinase/phosphorylase	NA	NA	NA	NA	NA
AUL09045.1|3564977_3566264_-	alcohol dehydrogenase	NA	NA	NA	NA	NA
AUL09046.1|3567194_3568067_+	RNase adaptor protein RapZ	NA	A0A1P8D5W0	Corynebacterium_phage	34.5	2.4e-08
AUL09047.1|3568063_3569014_+	hypothetical protein	NA	F5B3X9	Synechococcus_phage	47.2	6.9e-17
AUL09048.1|3569160_3570063_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09049.1|3570167_3570398_-	hypothetical protein	NA	NA	NA	NA	NA
AUL09752.1|3570524_3570914_-	hypothetical protein	NA	NA	NA	NA	NA
AUL09050.1|3570930_3573312_-	dehydrogenase	NA	NA	NA	NA	NA
AUL09051.1|3573304_3573814_-	4-hydroxybenzoyl-CoA reductase subunit gamma	NA	A0A0P0IVM8	Acinetobacter_phage	37.3	8.8e-19
AUL09052.1|3574696_3575692_-	4,5-dihydroxyphthalate decarboxylase	NA	NA	NA	NA	NA
AUL09053.1|3575710_3576703_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL09054.1|3576943_3577504_-	3-octaprenyl-4-hydroxybenzoate carboxy-lyase	NA	NA	NA	NA	NA
AUL09055.1|3577508_3577835_-	monothiol glutaredoxin, Grx4 family	NA	NA	NA	NA	NA
AUL09056.1|3577871_3578684_-	protein-(glutamine-N5) methyltransferase, release factor-specific	NA	NA	NA	NA	NA
AUL09057.1|3578694_3579777_-	peptide chain release factor 1	NA	A0A0S4KWG0	Pseudomonas_phage	40.7	3.3e-07
AUL09058.1|3579863_3581138_-|tRNA	glutamyl-tRNA reductase	tRNA	NA	NA	NA	NA
>prophage 22
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	3702234	3745405	4103205	transposase,integrase,tRNA	Streptococcus_phage(11.11%)	41	3740244:3740262	3746028:3746046
AUL09157.1|3702234_3703137_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09158.1|3703284_3704187_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09159.1|3704183_3704819_-	lysine transporter LysE	NA	NA	NA	NA	NA
AUL09160.1|3704948_3705848_+	transcriptional regulator ArgP	NA	NA	NA	NA	NA
AUL09161.1|3705943_3706435_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09162.1|3706481_3707447_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL09163.1|3708580_3709822_+	2-aminoadipate aminotransferase	NA	A0A1X9I5H2	Streptococcus_phage	24.9	1.9e-14
AUL09164.1|3709935_3710952_+	amino acid ABC transporter substrate-binding protein	NA	A0A1B1IT51	uncultured_Mediterranean_phage	43.8	3.5e-75
AUL09165.1|3710986_3711463_-	hypothetical protein	NA	NA	NA	NA	NA
AUL09166.1|3711605_3712514_-	hydroxymethylglutaryl-CoA lyase	NA	NA	NA	NA	NA
AUL09167.1|3712627_3713740_-	DNA protecting protein DprA	NA	S6BFL3	Thermus_phage	35.0	1.9e-21
AUL09760.1|3713840_3714326_-	AsnC family transcriptional regulator	NA	NA	NA	NA	NA
AUL09168.1|3714462_3715713_+	kynureninase	NA	NA	NA	NA	NA
AUL09169.1|3715814_3716327_+	peptide deformylase	NA	E3SLL2	Synechococcus_phage	43.3	8.5e-22
AUL09170.1|3716425_3717376_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09171.1|3717441_3718380_+|tRNA	methionyl-tRNA formyltransferase	tRNA	E3SNR5	Prochlorococcus_phage	35.7	1.4e-09
AUL09172.1|3718402_3719029_-	flavin-nucleotide-binding protein	NA	NA	NA	NA	NA
AUL09173.1|3719025_3719682_-	HAD family hydrolase	NA	NA	NA	NA	NA
AUL09174.1|3719678_3720281_-	hypothetical protein	NA	NA	NA	NA	NA
AUL09175.1|3720287_3720875_-	Rossman fold protein, TIGR00730 family	NA	A0A2I2L3F0	Orpheovirus	23.3	1.1e-07
AUL09176.1|3721055_3721625_+	bacterioferritin	NA	NA	NA	NA	NA
AUL09177.1|3721695_3723015_-	ribosomal protein S12 methylthiotransferase	NA	NA	NA	NA	NA
AUL09178.1|3723121_3723313_-	4-oxalocrotonate tautomerase	NA	NA	NA	NA	NA
AUL09179.1|3723564_3724854_+	glycine/D-amino acid oxidase	NA	NA	NA	NA	NA
AUL09180.1|3725008_3726004_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09181.1|3726088_3726763_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUL09182.1|3726759_3727662_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09183.1|3727871_3729113_+	ornithine--oxo-acid transaminase	NA	A0A1V0SKB7	Klosneuvirus	25.2	4.0e-25
AUL09184.1|3729109_3730054_+	arginase	NA	A0A0N9R043	Chrysochromulina_ericina_virus	33.3	9.5e-27
AUL09185.1|3730220_3731123_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09186.1|3731082_3732012_-	hypothetical protein	NA	NA	NA	NA	NA
AUL09187.1|3732065_3732401_-	alkylhydroperoxidase	NA	NA	NA	NA	NA
AUL09188.1|3732445_3733210_-	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL09189.1|3733233_3733974_-	transcriptional regulator	NA	NA	NA	NA	NA
AUL09190.1|3733981_3735535_-	long-chain fatty acid--CoA ligase	NA	A0A2K9L3I8	Tupanvirus	22.6	1.5e-13
AUL09191.1|3735569_3736547_-	hypothetical protein	NA	NA	NA	NA	NA
AUL09192.1|3736819_3737401_-	ureidoglycolate hydrolase	NA	NA	NA	NA	NA
AUL09193.1|3737452_3744586_-	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA	NA
3740244:3740262	attL	GCGACCCGCAGCGTGCCGG	NA	NA	NA	NA
AUL09194.1|3744801_3744933_-	entericidin	NA	NA	NA	NA	NA
AUL09761.1|3744964_3745090_-	hypothetical protein	NA	NA	NA	NA	NA
AUL09195.1|3745198_3745405_-|integrase	integrase	integrase	NA	NA	NA	NA
3746028:3746046	attR	GCGACCCGCAGCGTGCCGG	NA	NA	NA	NA
>prophage 23
CP018041	Bordetella pertussis strain J306 chromosome, complete genome	4103205	3751340	3787015	4103205	transposase,integrase	Burkholderia_phage(11.11%)	37	3747879:3747896	3792519:3792536
3747879:3747896	attL	CAGCGTGCTGGCCACCGT	NA	NA	NA	NA
AUL09202.1|3751340_3752243_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09203.1|3752253_3752895_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09204.1|3753061_3753304_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09205.1|3753450_3754353_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09206.1|3754388_3754856_+	hypothetical protein	NA	Q3HQX1	Burkholderia_phage	71.3	2.1e-43
AUL09207.1|3755089_3755467_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09208.1|3755463_3755646_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09209.1|3755649_3756636_+	DNA recombinase	NA	H9C0R8	Aeromonas_phage	57.3	2.0e-67
AUL09210.1|3756632_3757280_+	exonuclease	NA	A0A0U2BXF3	Paracoccus_phage	41.4	2.0e-31
AUL09211.1|3757337_3757865_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09212.1|3757901_3759086_+	hypothetical protein	NA	A0A291L9X3	Bordetella_phage	37.8	1.5e-24
AUL09213.1|3759096_3759438_+	hypothetical protein	NA	A0A0H5ARN8	Pseudomonas_phage	45.3	1.0e-10
AUL09214.1|3759430_3759550_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09215.1|3759550_3759751_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09216.1|3759747_3760737_-|integrase	integrase	integrase	A0A1B1P9F9	Acinetobacter_phage	44.4	4.4e-75
AUL09217.1|3762223_3764194_-	hypothetical protein	NA	NA	NA	NA	NA
AUL09218.1|3764435_3764834_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09219.1|3764842_3765766_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL09220.1|3766271_3767174_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09221.1|3767404_3769096_-	membrane protein insertase YidC	NA	NA	NA	NA	NA
AUL09222.1|3769144_3769417_-	membrane protein insertion efficiency factor YidD	NA	A0A2H4PQM5	Staphylococcus_phage	52.2	7.0e-15
AUL09223.1|3769413_3769785_-	ribonuclease P protein component	NA	NA	NA	NA	NA
AUL09224.1|3769880_3770015_-	50S ribosomal protein L34	NA	NA	NA	NA	NA
AUL09225.1|3770420_3771830_+	chromosomal replication initiation protein DnaA	NA	NA	NA	NA	NA
AUL09226.1|3771832_3772942_+	DNA polymerase III subunit beta	NA	B4UTW9	Rhizobium_phage	32.6	1.2e-41
AUL09227.1|3773036_3775490_+	DNA gyrase subunit B	NA	G3M9Z3	Bacillus_virus	34.8	2.3e-112
AUL09228.1|3775608_3776400_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUL09229.1|3776519_3777947_+	amidase	NA	NA	NA	NA	NA
AUL09762.1|3777985_3778957_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL09230.1|3779041_3779245_+	hypothetical protein	NA	NA	NA	NA	NA
AUL09231.1|3779375_3780539_+	alpha-hydroxy-acid oxidizing enzyme	NA	NA	NA	NA	NA
AUL09232.1|3780626_3781472_+	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUL09233.1|3783076_3783979_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL09234.1|3783975_3784320_-	hypothetical protein	NA	NA	NA	NA	NA
AUL09235.1|3784533_3784908_-	MerR family transcriptional regulator	NA	NA	NA	NA	NA
AUL09236.1|3784982_3786041_+	Zn-dependent hydrolase	NA	NA	NA	NA	NA
AUL09237.1|3786064_3787015_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
3792519:3792536	attR	CAGCGTGCTGGCCACCGT	NA	NA	NA	NA
