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
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	0	64055	4109951	transposase,tRNA,protease	Natrialba_phage(12.5%)	57	NA	NA
AUK99005.1|0_1920_+|tRNA	tRNA uridine-5-carboxymethylaminomethyl(34) synthesis enzyme MnmG	tRNA	NA	NA	NA	NA
AUK99006.1|1916_2609_+	16S rRNA (guanine(527)-N(7))-methyltransferase RsmG	NA	NA	NA	NA	NA
AUK99007.1|2605_3403_+	chromosome partitioning protein	NA	Q8JL10	Natrialba_phage	34.9	5.6e-20
AUK99008.1|3409_4171_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUK99009.1|4214_5132_+	chromosome partitioning protein ParB	NA	I3NLC2	Bifidobacterium_phage	38.1	1.9e-16
AUK99010.1|5124_5910_+	L-asparaginase	NA	NA	NA	NA	NA
AUK99011.1|5943_6126_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99012.1|6721_7912_+	translation elongation factor Tu	NA	A0A1V0SLW6	Klosneuvirus	29.2	3.1e-14
AUK99013.1|8150_8531_+	preprotein translocase subunit SecE	NA	NA	NA	NA	NA
AUK99014.1|8540_9074_+	transcription termination/antitermination protein NusG	NA	G3MAW2	Bacillus_virus	30.5	1.4e-11
AUK99015.1|9137_9569_+	50S ribosomal protein L11	NA	NA	NA	NA	NA
AUK99016.1|9571_10270_+	50S ribosomal protein L1	NA	NA	NA	NA	NA
AUK99017.1|10512_11037_+	50S ribosomal protein L10	NA	NA	NA	NA	NA
AUK99018.1|11118_11502_+	50S ribosomal protein L7/L12	NA	NA	NA	NA	NA
AUK99019.1|11661_15774_+	DNA-directed RNA polymerase subunit beta	NA	A0A0N9R0J7	Chrysochromulina_ericina_virus	28.8	2.4e-21
AUK99020.1|15773_20018_+	DNA-directed RNA polymerase subunit beta'	NA	A0A2I7QNZ7	Vibrio_phage	24.7	3.5e-68
AUL02357.1|20126_20531_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99021.1|20771_21947_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99022.1|24352_25459_-	peptidoglycan-binding protein	NA	NA	NA	NA	NA
AUL02358.1|26575_27286_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99023.1|27282_28185_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99024.1|28314_28614_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99025.1|28674_29109_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99026.1|29141_30359_-	thiolase	NA	NA	NA	NA	NA
AUK99027.1|30364_30862_-	dehydratase	NA	NA	NA	NA	NA
AUK99028.1|31069_32005_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL02359.1|32214_33006_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUK99029.1|33048_34470_+	2-methylcitrate dehydratase	NA	NA	NA	NA	NA
AUK99030.1|34673_35576_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99031.1|35572_36763_-	MFS transporter	NA	NA	NA	NA	NA
AUK99032.1|37012_37924_+|tRNA	glycine--tRNA ligase subunit alpha	tRNA	NA	NA	NA	NA
AUK99033.1|37925_40064_+|tRNA	glycine--tRNA ligase subunit beta	tRNA	NA	NA	NA	NA
AUK99034.1|40060_40600_+	D-glycero-beta-D-manno-heptose-1,7-bisphosphate 7-phosphatase	NA	NA	NA	NA	NA
AUK99035.1|40603_41332_+	1-acyl-sn-glycerol-3-phosphate acyltransferase	NA	NA	NA	NA	NA
AUK99036.1|41318_42212_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99037.1|42282_42678_+	lactoylglutathione lyase	NA	NA	NA	NA	NA
AUK99038.1|42687_43218_+	peptide deformylase	NA	E3SLL2	Synechococcus_phage	35.4	3.7e-12
AUK99039.1|43346_43526_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99040.1|43663_44614_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL02360.1|45224_45749_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99041.1|45720_45957_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA	NA
AUK99042.1|46084_46978_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99043.1|48147_49395_+	homoserine O-acetyltransferase	NA	NA	NA	NA	NA
AUK99044.1|49391_50006_+	methionine biosynthesis protein MetW	NA	NA	NA	NA	NA
AUK99045.1|50189_51092_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99046.1|51134_52391_+	muropeptide transporter AmpG	NA	NA	NA	NA	NA
AUK99047.1|53622_54357_-	glutamate racemase	NA	NA	NA	NA	NA
AUK99048.1|54362_54953_-	arginine transporter ATP-binding subunit	NA	G9BWD6	Planktothrix_phage	33.6	3.2e-20
AUK99049.1|54977_55667_-	amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUK99050.1|55663_56425_-	glutamate ABC transporter permease	NA	NA	NA	NA	NA
AUK99051.1|56504_57404_-	amino acid ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK99052.1|57497_58448_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99053.1|59248_60475_-	serine kinase HipA	NA	NA	NA	NA	NA
AUK99054.1|60474_60894_-	transcriptional regulator	NA	NA	NA	NA	NA
AUL02361.1|61077_62019_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99055.1|62442_63417_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99056.1|63473_64055_-|protease	protease	protease	NA	NA	NA	NA
>prophage 2
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	69085	122072	4109951	transposase,tRNA	Planktothrix_phage(20.0%)	53	NA	NA
AUK99062.1|69085_70036_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99063.1|70129_70444_+|transposase	transposase	transposase	NA	NA	NA	NA
AUK99064.1|71636_73544_+	molecular chaperone HtpG	NA	A0A1B1ISV4	uncultured_Mediterranean_phage	37.2	1.1e-117
AUK99065.1|73705_74326_-	glutathione S-transferase	NA	NA	NA	NA	NA
AUK99066.1|74357_74939_-	N-acetylmuramoyl-L-alanine amidase	NA	A0A1W6DX33	Sphingobium_phage	54.3	1.7e-05
AUK99067.1|75027_75279_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99068.1|75280_76123_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99069.1|76228_77638_+	signal recognition particle protein	NA	NA	NA	NA	NA
AUK99070.1|77634_78348_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL02362.1|78658_79603_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99071.1|79599_81474_-	polysaccharide biosynthesis protein	NA	A0A2P1ELS8	Moumouvirus	26.9	2.0e-23
AUK99072.1|82821_83526_-	lipopolysaccharide biosynthesis protein	NA	NA	NA	NA	NA
AUK99073.1|83522_84629_-	glycosyl transferase	NA	NA	NA	NA	NA
AUK99074.1|84890_85484_-	sugar transferase	NA	NA	NA	NA	NA
AUK99075.1|85480_86668_-	UDP-4-amino-4, 6-dideoxy-N-acetyl-beta-L-altrosamine transaminase	NA	NA	NA	NA	NA
AUK99076.1|86730_87990_-	glycosyltransferase WbuB	NA	NA	NA	NA	NA
AUK99077.1|88013_89102_-	UDP-N-acetylglucosamine 2-epimerase	NA	A0A0N9R0B2	Chrysochromulina_ericina_virus	36.3	4.8e-46
AUK99078.1|89109_90210_-	aminotransferase DegT	NA	A0A2K9L0G1	Tupanvirus	29.7	3.3e-31
AUK99079.1|90213_90789_-	N-acetyltransferase	NA	NA	NA	NA	NA
AUK99080.1|90792_91845_-	oxidoreductase	NA	NA	NA	NA	NA
AUK99081.1|91975_92983_+	lipopolysaccharide heptosyltransferase I	NA	NA	NA	NA	NA
AUK99082.1|92984_94271_+	3-deoxy-D-manno-octulosonic acid transferase	NA	NA	NA	NA	NA
AUK99083.1|94287_94443_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99084.1|94467_95271_-	pantothenate kinase	NA	NA	NA	NA	NA
AUK99085.1|95267_96134_-	biotin--[acetyl-CoA-carboxylase] ligase	NA	NA	NA	NA	NA
AUK99086.1|96208_97339_+	ABC transporter permease	NA	NA	NA	NA	NA
AUK99087.1|97338_98178_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	32.4	9.1e-21
AUK99088.1|98331_98799_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99089.1|98888_99110_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99090.1|99110_99713_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99091.1|99742_100396_+	alpha/beta hydrolase	NA	NA	NA	NA	NA
AUL02363.1|100606_101785_+	peptidase	NA	B6DZZ7	Stx2-converting_phage	40.5	5.8e-66
AUK99092.1|101865_102732_+	D-amino acid aminotransferase	NA	NA	NA	NA	NA
AUK99093.1|102807_103083_+	DUF493 domain-containing protein	NA	NA	NA	NA	NA
AUK99094.1|103090_103753_+	octanoyltransferase	NA	NA	NA	NA	NA
AUK99095.1|103814_104816_+	lipoyl synthase	NA	NA	NA	NA	NA
AUK99096.1|104830_105379_-	dTDP-4-dehydrorhamnose 3,5-epimerase	NA	A0A291LA62	Escherichia_phage	53.4	3.7e-47
AUK99097.1|105436_106333_-	dTDP-4-dehydrorhamnose reductase	NA	NA	NA	NA	NA
AUK99098.1|106329_107391_-	dTDP-glucose 4,6-dehydratase	NA	A0A1D7XFE8	Escherichia_phage	44.8	1.6e-78
AUK99099.1|107426_108329_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99100.1|109276_110470_+	cystathionine beta-lyase	NA	NA	NA	NA	NA
AUK99101.1|110551_111181_-	thiol:disulfide interchange protein	NA	NA	NA	NA	NA
AUK99102.1|111242_111926_-	cell division protein	NA	NA	NA	NA	NA
AUK99103.1|111935_113618_-|tRNA	arginine--tRNA ligase	tRNA	NA	NA	NA	NA
AUL02364.1|113905_114253_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99104.1|114343_114661_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99105.1|114943_115960_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUK99106.1|116035_116836_-	ABC transporter permease	NA	NA	NA	NA	NA
AUK99107.1|116832_117708_-	ABC transporter permease	NA	NA	NA	NA	NA
AUK99108.1|117718_119011_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK99109.1|119053_120094_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	33.7	6.0e-22
AUK99110.1|120199_121021_-	phosphodiesterase	NA	NA	NA	NA	NA
AUK99111.1|121121_122072_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 3
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	164889	236264	4109951	transposase,tRNA	Diachasmimorpha_longicaudata_entomopoxvirus(12.5%)	58	NA	NA
AUK99146.1|164889_165840_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99147.1|167283_168186_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99148.1|168163_168793_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99149.1|169075_170506_+	RNA helicase	NA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	29.8	5.8e-44
AUK99150.1|170539_171169_+	threonine transporter RhtB	NA	NA	NA	NA	NA
AUK99151.1|171217_172825_+	peptide chain release factor 3	NA	A0A2K9L6L3	Tupanvirus	37.8	9.3e-14
AUK99152.1|172861_173533_+	hypothetical protein	NA	NA	NA	NA	NA
AUL02368.1|173614_174091_-	bacterioferritin	NA	NA	NA	NA	NA
AUK99153.1|174345_175248_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99154.1|176363_176891_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99155.1|176982_177798_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99156.1|177858_178593_+	sulfurtransferase	NA	NA	NA	NA	NA
AUK99157.1|178630_180709_-|tRNA	methionine--tRNA ligase	tRNA	A0A1V0SHR2	Klosneuvirus	23.6	1.5e-27
AUK99158.1|180958_181231_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99159.1|181332_182418_+	ATP-binding protein	NA	NA	NA	NA	NA
AUK99160.1|182421_184326_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99161.1|184322_187997_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99162.1|188057_188621_+	dCTP deaminase	NA	S5VM63	Pseudomonas_phage	75.3	2.6e-72
AUK99163.1|188628_189051_-	glyoxalase	NA	NA	NA	NA	NA
AUK99164.1|189078_189498_-	glyoxalase	NA	NA	NA	NA	NA
AUK99165.1|189526_189874_-	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUL02369.1|190147_190597_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99166.1|190751_193022_+	lysine decarboxylase	NA	NA	NA	NA	NA
AUK99167.1|193097_194303_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99168.1|195452_196088_+	superoxide dismutase	NA	Q56AR7	Bacillus_thuringiensis_phage	73.8	2.8e-83
AUK99169.1|196084_196978_+	ZIP family metal transporter	NA	NA	NA	NA	NA
AUK99170.1|197372_198473_+	glycine cleavage system protein T	NA	NA	NA	NA	NA
AUK99171.1|198554_198929_+	glycine cleavage system protein H	NA	NA	NA	NA	NA
AUK99172.1|198988_201853_+	glycine dehydrogenase (aminomethyl-transferring)	NA	E3SN07	Prochlorococcus_phage	51.4	1.2e-261
AUK99173.1|201997_202738_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK99174.1|202807_204019_+	formyl-CoA transferase	NA	NA	NA	NA	NA
AUK99175.1|204047_205016_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99176.1|206735_207059_+	PsiF repeat family protein	NA	NA	NA	NA	NA
AUL02370.1|207163_208204_-	cyclase	NA	NA	NA	NA	NA
AUK99177.1|208209_208989_-	3-oxoadipate enol-lactonase	NA	NA	NA	NA	NA
AUK99178.1|209034_209331_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99179.1|209356_209632_-	muconolactone delta-isomerase	NA	NA	NA	NA	NA
AUK99180.1|209688_210333_-	3-oxoadipate CoA-transferase	NA	NA	NA	NA	NA
AUK99181.1|210332_211019_-	3-oxoadipate CoA-transferase	NA	NA	NA	NA	NA
AUL02371.1|211217_212000_+	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUK99182.1|212050_212776_-	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUK99183.1|212807_214157_-	short-chain fatty acid transporter	NA	NA	NA	NA	NA
AUK99184.1|214268_215201_-	3-hydroxybutyryl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUK99185.1|215658_218454_-	peptidase S8	NA	NA	NA	NA	NA
AUK99186.1|219047_221891_-	phosphoenolpyruvate carboxylase	NA	NA	NA	NA	NA
AUK99187.1|222061_222781_+	7-cyano-7-deazaguanine synthase QueC	NA	A0A0A0RPC6	Escherichia_phage	43.9	8.0e-50
AUK99188.1|222819_223368_-	GNAT family N-acetyltransferase	NA	A0A2H4J136	uncultured_Caudovirales_phage	41.7	1.2e-21
AUK99189.1|223522_224422_+	virginiamycin B lyase	NA	NA	NA	NA	NA
AUK99190.1|224446_225397_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99191.1|225615_226311_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK99192.1|226327_227740_+	hydroxyacid dehydrogenase	NA	NA	NA	NA	NA
AUK99193.1|227852_229283_+	aldehyde dehydrogenase family protein	NA	NA	NA	NA	NA
AUK99194.1|229324_231238_-	phosphomethylpyrimidine synthase ThiC	NA	NA	NA	NA	NA
AUK99195.1|231556_232123_+	preprotein translocase subunit SecD	NA	NA	NA	NA	NA
AUK99196.1|232213_233215_+	restriction endonuclease	NA	NA	NA	NA	NA
AUK99197.1|233329_234280_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99198.1|234366_235317_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99199.1|235313_236264_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 4
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	250678	303012	4109951	transposase,tRNA,protease	Bacillus_phage(25.0%)	48	NA	NA
AUK99211.1|250678_251620_-|tRNA	tRNA (adenosine(37)-N6)-dimethylallyltransferase MiaA	tRNA	NA	NA	NA	NA
AUK99212.1|251616_253506_-	DNA mismatch repair protein MutL	NA	A0A1B2LRQ5	Wolbachia_phage	32.8	3.3e-79
AUL02373.1|253610_254231_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99213.1|254373_255759_-	N-acetylmuramoyl-L-alanine amidase	NA	A0A2H4JCM7	uncultured_Caudovirales_phage	30.3	4.5e-17
AUK99214.1|255689_256226_-|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex ATPase subunit type 1 TsaE	tRNA	NA	NA	NA	NA
AUK99215.1|256377_257769_+	fumarate hydratase, class II	NA	NA	NA	NA	NA
AUK99216.1|257785_258766_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99217.1|258901_259885_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK99218.1|259949_260849_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK99219.1|260955_262710_+	gamma-glutamyltransferase	NA	NA	NA	NA	NA
AUK99220.1|262717_263842_-	carnitine dehydratase	NA	NA	NA	NA	NA
AUK99221.1|263855_264836_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK99222.1|265566_266517_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99223.1|266531_266903_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99224.1|267076_267622_+	ArsR family transcriptional regulator	NA	NA	NA	NA	NA
AUK99225.1|267747_269325_+	cytochrome d terminal oxidase subunit 1	NA	NA	NA	NA	NA
AUK99226.1|269340_270495_+	cytochrome d ubiquinol oxidase subunit II	NA	NA	NA	NA	NA
AUK99227.1|270508_270634_+	cyd operon protein YbgT	NA	NA	NA	NA	NA
AUK99228.1|270630_272382_+	thiol reductant ABC exporter subunit CydD	NA	W8CYL7	Bacillus_phage	23.8	3.4e-09
AUK99229.1|272378_274058_+	thiol reductant ABC exporter subunit CydC	NA	W8CYL7	Bacillus_phage	27.6	3.6e-16
AUK99230.1|274120_274669_+	adenine phosphoribosyltransferase	NA	A0A1V0SKE5	Klosneuvirus	43.1	1.3e-28
AUK99231.1|275811_276090_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99232.1|277133_278084_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99233.1|278360_278522_+	DUF4224 domain-containing protein	NA	NA	NA	NA	NA
AUK99234.1|278529_278670_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99235.1|279188_279638_-|protease	ClpXP protease specificity-enhancing factor	protease	NA	NA	NA	NA
AUK99236.1|279647_280259_-	glutathione S-transferase	NA	NA	NA	NA	NA
AUK99237.1|280417_281266_-	cytochrome c1	NA	NA	NA	NA	NA
AUK99238.1|281291_282674_-	cytochrome b	NA	NA	NA	NA	NA
AUK99239.1|282738_283380_-	ubiquinol-cytochrome c reductase iron-sulfur subunit	NA	NA	NA	NA	NA
AUK99240.1|283519_283978_+	large-conductance mechanosensitive channel protein	NA	NA	NA	NA	NA
AUK99241.1|284002_284779_-	Nif3-like dinuclear metal center hexameric protein	NA	NA	NA	NA	NA
AUL02374.1|284832_285969_+	2-alkenal reductase	NA	W5SAB9	Pithovirus	31.2	1.2e-07
AUK99242.1|285965_286916_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99243.1|287013_287640_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99244.1|287662_288589_-	glyoxylate/hydroxypyruvate reductase A	NA	NA	NA	NA	NA
AUK99245.1|288597_290184_-	peptide ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK99246.1|290180_291185_-	acetylesterase	NA	A0A2L2DMU8	Acanthamoeba_polyphaga_mimivirus	31.5	7.5e-30
AUK99247.1|291384_292245_+	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUK99248.1|292276_293278_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99249.1|293348_294158_+	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUK99250.1|294235_296095_+	dihydroxy-acid dehydratase	NA	NA	NA	NA	NA
AUK99251.1|296223_297426_-	MFS transporter	NA	NA	NA	NA	NA
AUK99252.1|297539_298421_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK99253.1|299923_300484_-	5'-3'-deoxyribonucleotidase	NA	A0A1E1EUN3	Acanthamoeba_castellanii_mimivirus	30.8	3.2e-14
AUK99254.1|300543_301494_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99255.1|301685_301946_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99256.1|302109_303012_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 5
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	390847	448356	4109951	transposase	Orpheovirus(14.29%)	50	NA	NA
AUK99341.1|390847_391798_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99342.1|391940_392852_+	reductase	NA	NA	NA	NA	NA
AUK99343.1|392848_393097_+	NrdH-redoxin	NA	NA	NA	NA	NA
AUK99344.1|393093_394299_+	CoA transferase	NA	NA	NA	NA	NA
AUK99345.1|394371_395367_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99346.1|395389_396610_-	acyl-CoA transferase	NA	NA	NA	NA	NA
AUK99347.1|396606_397251_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99348.1|397247_397640_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99349.1|397528_398881_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99350.1|398981_399791_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUL02380.1|400095_401049_+	thioredoxin-disulfide reductase	NA	A0A2I2L5E1	Orpheovirus	42.5	5.6e-59
AUK99351.1|401147_402131_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99352.1|402807_403578_-	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUK99353.1|403574_404753_-	carnitine dehydratase	NA	NA	NA	NA	NA
AUK99354.1|404920_406627_-	thiamine pyrophosphate-binding protein	NA	NA	NA	NA	NA
AUK99355.1|406623_407520_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK99356.1|407560_409150_-	sulfurtransferase	NA	NA	NA	NA	NA
AUK99357.1|409199_410192_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99358.1|410260_410860_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99359.1|411320_412301_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99360.1|412376_413279_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99361.1|413415_414330_+	EamA family transporter	NA	NA	NA	NA	NA
AUK99362.1|414326_414986_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99363.1|415075_415999_+	alpha/beta hydrolase	NA	A0A1C9C5K3	Heterosigma_akashiwo_virus	27.2	4.8e-07
AUK99364.1|416004_416460_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99365.1|416456_417560_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99366.1|417747_419367_-	dolichyl-phosphate-mannose--protein mannosyltransferase	NA	NA	NA	NA	NA
AUK99367.1|419363_420422_-	glycosyltransferase	NA	I1TED8	Salmonella_phage	40.5	2.8e-59
AUK99368.1|420551_421046_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUK99369.1|421138_422116_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99370.1|422311_423517_+	sodium/glutamate symporter	NA	NA	NA	NA	NA
AUK99371.1|423513_425025_+	TRAP ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL02381.1|425040_426354_-	short-chain fatty acid transporter	NA	NA	NA	NA	NA
AUK99372.1|426544_426724_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99373.1|427133_427868_-	DNA polymerase III subunit epsilon	NA	A0A1X9SH08	Bradyrhizobium_phage	43.8	1.4e-41
AUK99374.1|430360_431263_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99375.1|431394_431793_-	elongation factor G	NA	E4ZFJ7	Streptococcus_phage	44.3	9.0e-19
AUK99376.1|432203_432674_-	universal stress protein	NA	NA	NA	NA	NA
AUK99377.1|432762_433107_-	TIGR01244 family protein	NA	NA	NA	NA	NA
AUK99378.1|433206_434607_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUK99379.1|436395_436914_-	methyltransferase	NA	G3MA03	Bacillus_virus	38.9	2.1e-12
AUK99380.1|437024_437780_+	hypothetical protein	NA	A0A0R6PEZ3	Moraxella_phage	40.8	2.9e-42
AUK99381.1|437975_439208_+	CoA transferase	NA	NA	NA	NA	NA
AUK99382.1|439200_439986_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUK99383.1|440052_441024_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK99384.1|441034_442012_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK99385.1|442137_443310_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUK99386.1|443336_444365_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUK99387.1|444430_445624_+	acetyl-CoA acetyltransferase	NA	NA	NA	NA	NA
AUK99388.1|447405_448356_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 6
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	636780	736892	4109951	transposase,tRNA,terminase,tail	uncultured_Caudovirales_phage(13.79%)	107	NA	NA
AUK99552.1|636780_637731_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99553.1|637829_638630_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99554.1|638691_639075_+	thiol reductase thioredoxin	NA	NA	NA	NA	NA
AUK99555.1|639086_640520_-	ATP-dependent RNA helicase	NA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	34.4	1.5e-52
AUK99556.1|640726_641056_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99557.1|641058_641808_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99558.1|641990_642911_+	branched chain amino acid aminotransferase	NA	NA	NA	NA	NA
AUK99559.1|642957_643170_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99560.1|643192_643615_+	DUF4440 domain-containing protein	NA	NA	NA	NA	NA
AUK99561.1|643631_644732_+	alpha/beta hydrolase	NA	NA	NA	NA	NA
AUK99562.1|644828_646346_-	peptidase	NA	NA	NA	NA	NA
AUK99563.1|646421_647261_+	UTP--glucose-1-phosphate uridylyltransferase	NA	A0A127AW70	Bacillus_phage	48.9	1.1e-66
AUL02390.1|647282_648155_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99564.1|648245_649340_-	porin	NA	NA	NA	NA	NA
AUK99565.1|649633_650536_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL02391.1|650658_651600_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99566.1|651683_652043_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99567.1|652424_653462_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99568.1|653778_655119_+	Xaa-Pro aminopeptidase	NA	NA	NA	NA	NA
AUK99569.1|655128_655581_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99570.1|655686_656859_+	monooxygenase	NA	NA	NA	NA	NA
AUK99571.1|656924_657950_+|tRNA	tRNA dihydrouridine synthase DusB	tRNA	NA	NA	NA	NA
AUK99572.1|657990_658230_+	Fis family transcriptional regulator	NA	NA	NA	NA	NA
AUK99573.1|658299_659889_+	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase	NA	Q58MG4	Prochlorococcus_phage	47.2	8.7e-65
AUK99574.1|659888_660437_+	crossover junction endodeoxyribonuclease RuvC	NA	NA	NA	NA	NA
AUK99575.1|660517_661090_+	Holliday junction DNA helicase RuvA	NA	NA	NA	NA	NA
AUK99576.1|661108_662020_-	NAD-dependent dehydratase	NA	NA	NA	NA	NA
AUK99577.1|662093_663062_-	serine dehydratase	NA	NA	NA	NA	NA
AUK99578.1|663184_664258_+	Holliday junction DNA helicase RuvB	NA	A0A127AWE7	Bacillus_phage	25.7	2.3e-08
AUK99579.1|664262_666083_-	ATP-dependent DNA helicase RecQ	NA	L7RCS0	Acanthamoeba_polyphaga_moumouvirus	35.3	3.1e-74
AUK99580.1|667197_667533_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99581.1|667666_668317_+	carbonate dehydratase	NA	NA	NA	NA	NA
AUK99582.1|668338_669757_-	amidase	NA	NA	NA	NA	NA
AUK99583.1|669826_670582_-	hypothetical protein	NA	NA	NA	NA	NA
AUL02392.1|670550_671309_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUK99584.1|671319_672201_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUK99585.1|672217_672925_+	ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	25.4	8.2e-07
AUK99586.1|672927_673686_+	ABC transporter ATP-binding protein	NA	W6JKT0	Anomala_cuprea_entomopoxvirus	24.4	4.4e-14
AUK99587.1|673895_675638_+	sulfite reductase	NA	NA	NA	NA	NA
AUK99588.1|675630_676155_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99589.1|676194_676989_-	metal ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK99590.1|677156_678230_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99591.1|678328_679279_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99592.1|679530_679737_-	hypothetical protein	NA	NA	NA	NA	NA
AUL02393.1|679808_680420_-	LexA family transcriptional repressor	NA	NA	NA	NA	NA
AUK99593.1|680899_681220_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99594.1|681212_681911_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99595.1|681925_682147_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99596.1|682164_683115_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99597.1|683754_684240_+|terminase	terminase	terminase	C7U0W1	Enterobacteria_phage	61.5	7.3e-39
AUK99598.1|684226_685504_+|terminase	terminase	terminase	A0A1B1P9C9	Acinetobacter_phage	64.7	2.4e-150
AUK99599.1|685506_686925_+	hypothetical protein	NA	R9TF43	Synechococcus_phage	42.1	2.2e-99
AUK99600.1|686896_688009_+	hypothetical protein	NA	A0A0H5BBX3	Pseudomonas_phage	49.7	2.1e-102
AUK99601.1|688014_688257_+	hypothetical protein	NA	A0A0H5AUE5	Pseudomonas_phage	53.2	5.6e-16
AUK99602.1|688379_688982_+	hypothetical protein	NA	R9TF81	Synechococcus_phage	43.6	7.9e-27
AUK99603.1|689410_690361_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99604.1|691035_691287_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99605.1|691349_691832_+	hypothetical protein	NA	A0A2H4JE38	uncultured_Caudovirales_phage	37.1	1.8e-13
AUK99606.1|691833_692034_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99607.1|692033_692429_+	hypothetical protein	NA	A0A2D2W284	Stenotrophomonas_phage	35.0	7.8e-07
AUK99608.1|692425_692824_+	hypothetical protein	NA	I6PCW1	Cronobacter_phage	38.0	4.2e-16
AUK99609.1|692820_693243_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99610.1|693250_693751_+	HNH endonuclease	NA	A0A1I9SEX5	Klebsiella_phage	45.1	4.4e-31
AUK99611.1|694005_694524_+|tail	phage tail protein	tail	A0A1S5R1H0	Pseudomonas_phage	38.3	5.4e-24
AUK99612.1|694533_694863_+	hypothetical protein	NA	A0A2H4J121	uncultured_Caudovirales_phage	44.0	2.9e-15
AUK99613.1|694880_695171_+	hypothetical protein	NA	A0A2H4JBP7	uncultured_Caudovirales_phage	45.2	3.7e-14
AUK99614.1|695196_697809_+|tail	phage tail tape measure protein	tail	A0A2H4J107	uncultured_Caudovirales_phage	38.6	4.9e-105
AUK99615.1|697818_698178_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99616.1|698245_698779_+	hypothetical protein	NA	A5A3Q9	Burkholderia_phage	46.9	1.1e-40
AUK99617.1|698775_699165_+	hypothetical protein	NA	A0A0G3EYJ9	Achromobacter_phage	50.0	3.0e-35
AUK99618.1|699157_703114_+	hypothetical protein	NA	A0A0B5A1N2	Achromobacter_phage	40.8	3.9e-215
AUK99619.1|703118_703535_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99620.1|703753_704017_+	hypothetical protein	NA	A0A1B0V3F2	Roseobacter_phage	41.8	7.2e-09
AUK99621.1|704016_704829_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99622.1|704833_705076_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99623.1|705054_705606_+	lysozyme	NA	NA	NA	NA	NA
AUK99624.1|705605_706121_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99625.1|706117_706399_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99626.1|706398_706620_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99627.1|706948_707620_-	hypothetical protein	NA	Q5QF62	Pseudomonas_virus	39.9	4.7e-36
AUK99628.1|707547_707916_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99629.1|707975_708662_-	DNA-binding response regulator	NA	NA	NA	NA	NA
AUK99630.1|708642_709215_-	RNA pyrophosphohydrolase	NA	NA	NA	NA	NA
AUK99631.1|709280_711011_+|tRNA	proline--tRNA ligase	tRNA	A0A2K9L3R9	Tupanvirus	29.4	4.6e-11
AUK99632.1|711063_711492_+	tol-pal system-associated acyl-CoA thioesterase	NA	NA	NA	NA	NA
AUK99633.1|711494_712175_+	protein TolQ	NA	NA	NA	NA	NA
AUK99634.1|712174_712633_+	protein TolR	NA	NA	NA	NA	NA
AUK99635.1|712669_713644_+	protein TolA	NA	NA	NA	NA	NA
AUK99636.1|713660_714977_+	Tol-Pal system beta propeller repeat protein TolB	NA	NA	NA	NA	NA
AUK99637.1|715008_715506_+	peptidoglycan-associated lipoprotein	NA	NA	NA	NA	NA
AUK99638.1|715592_716282_+	tol-pal system protein YbgF	NA	NA	NA	NA	NA
AUK99639.1|716281_717331_+	iron-siderophore ABC transporter permease	NA	NA	NA	NA	NA
AUK99640.1|717327_718122_+	iron ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	30.6	2.4e-15
AUK99641.1|718290_718641_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99642.1|718616_719174_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99643.1|720303_721254_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99644.1|723391_724621_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99645.1|724623_726066_-	pyruvate kinase	NA	NA	NA	NA	NA
AUK99646.1|726170_727316_+	glycerate kinase	NA	W6LM47	Streptococcus_phage	42.2	1.7e-41
AUK99647.1|727347_728145_-	16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))- dimethyltransferase	NA	NA	NA	NA	NA
AUK99648.1|728169_729729_-	molecular chaperone SurA	NA	NA	NA	NA	NA
AUK99649.1|729725_732092_-	LPS biosynthesis protein	NA	NA	NA	NA	NA
AUL02394.1|732270_733311_+	aminoglycoside phosphotransferase	NA	NA	NA	NA	NA
AUK99650.1|733310_734003_+	mannose-1-phosphate guanylyltransferase	NA	NA	NA	NA	NA
AUK99651.1|734146_734848_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99652.1|734832_735210_-	4a-hydroxytetrahydrobiopterin dehydratase	NA	NA	NA	NA	NA
AUK99653.1|735941_736892_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 7
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	859780	913911	4109951	holin,transposase	Vibrio_phage(25.0%)	44	NA	NA
AUK99747.1|859780_861739_-|holin	choline transporter	holin	A0A2I7QNT1	Vibrio_phage	30.3	8.0e-28
AUK99748.1|861821_862772_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99749.1|862992_863661_+	transcriptional regulator	NA	NA	NA	NA	NA
AUK99750.1|863784_864891_+	efflux transporter periplasmic adaptor subunit	NA	NA	NA	NA	NA
AUK99751.1|864903_868017_+	multidrug efflux protein	NA	S5VTK5	Leptospira_phage	21.5	4.5e-57
AUK99752.1|868013_869507_+	RND transporter	NA	NA	NA	NA	NA
AUK99753.1|869521_870193_+	MarR family transcriptional regulator	NA	NA	NA	NA	NA
AUL02403.1|870236_870689_-	azurin	NA	NA	NA	NA	NA
AUK99754.1|870871_871519_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUL02404.1|871622_873671_+	hydantoinase	NA	NA	NA	NA	NA
AUK99755.1|873667_875680_+	hydantoin utilization protein B	NA	NA	NA	NA	NA
AUK99756.1|875705_877040_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99757.1|877148_878141_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99758.1|878207_880292_-	rhodanese-like domain-containing protein	NA	NA	NA	NA	NA
AUK99759.1|880316_881288_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99760.1|881416_882418_-	peptidase M14	NA	NA	NA	NA	NA
AUK99761.1|882451_883603_-	cystathionine beta-lyase	NA	NA	NA	NA	NA
AUK99762.1|883806_884697_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK99763.1|884774_885599_+	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
AUK99764.1|885795_886812_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUK99765.1|887008_887992_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUK99766.1|888050_889178_-	argininosuccinate lyase	NA	NA	NA	NA	NA
AUK99767.1|889168_889543_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99768.1|889590_890979_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99769.1|891009_891999_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99770.1|892109_893342_-	methylaspartate ammonia-lyase	NA	NA	NA	NA	NA
AUK99771.1|893623_894424_+	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUK99772.1|894446_896678_-|holin	high-affinity choline transporter BetT	holin	NA	NA	NA	NA
AUK99773.1|897465_897912_-	preprotein translocase subunit SecG	NA	NA	NA	NA	NA
AUK99774.1|897933_898680_-	triose-phosphate isomerase	NA	NA	NA	NA	NA
AUK99775.1|898823_899801_-	NAD(P)H-quinone oxidoreductase	NA	NA	NA	NA	NA
AUK99776.1|900434_901046_+	PIN domain-containing protein	NA	K4HZX4	Acidithiobacillus_phage	32.5	3.3e-12
AUK99777.1|901039_902257_-	threonine ammonia-lyase	NA	NA	NA	NA	NA
AUK99778.1|902397_903348_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99779.1|903344_904064_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99780.1|904184_906344_-	polyribonucleotide nucleotidyltransferase	NA	NA	NA	NA	NA
AUK99781.1|906434_906704_-	30S ribosomal protein S15	NA	NA	NA	NA	NA
AUL02405.1|906997_907525_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99782.1|907543_908323_-	CDP-diacylglycerol--serine O-phosphatidyltransferase	NA	NA	NA	NA	NA
AUK99783.1|908490_909507_-	ketol-acid reductoisomerase	NA	NA	NA	NA	NA
AUK99784.1|909579_910071_-	acetolactate synthase small subunit	NA	NA	NA	NA	NA
AUK99785.1|910081_911797_-	acetolactate synthase, large subunit, biosynthetic type	NA	A0A0P0CDR3	Ostreococcus_lucimarinus_virus	30.3	3.1e-60
AUK99786.1|912267_912879_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99787.1|912960_913911_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 8
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	938410	1000559	4109951	transposase	Bacillus_virus(15.38%)	57	NA	NA
AUK99808.1|938410_939313_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99809.1|939309_939693_-	Rieske (2Fe-2S) protein	NA	NA	NA	NA	NA
AUK99810.1|939747_941562_-	metal ABC transporter permease	NA	W8CYL7	Bacillus_phage	27.9	5.7e-44
AUL02407.1|941711_942539_+	oxidoreductase	NA	A0A2H4PQR8	Staphylococcus_phage	47.4	1.7e-67
AUK99811.1|942584_943565_+	alcohol dehydrogenase	NA	NA	NA	NA	NA
AUK99812.1|943561_943774_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99813.1|943770_944952_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99814.1|945115_945850_+	serine/threonine protein phosphatase	NA	A0A2H4J0P0	uncultured_Caudovirales_phage	49.2	1.9e-62
AUK99815.1|945851_948464_-	penicillin-binding protein	NA	NA	NA	NA	NA
AUK99816.1|948599_950513_-	S9 family peptidase	NA	NA	NA	NA	NA
AUK99817.1|951128_951539_-	phenylacetic acid degradation protein	NA	NA	NA	NA	NA
AUK99818.1|951636_952722_+	DNA polymerase IV	NA	NA	NA	NA	NA
AUK99819.1|952820_953771_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99820.1|953767_954742_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99821.1|954887_955778_+	LysR family transcriptional regulator	NA	Q6JIH3	Burkholderia_virus	27.6	4.3e-05
AUL02408.1|956054_956447_-	hypothetical protein	NA	A0A0R6PJ17	Moraxella_phage	45.0	4.8e-25
AUK99822.1|956576_957527_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99823.1|957556_957739_-	addiction module toxin, HicA family	NA	A0A1L2JY37	Aeribacillus_phage	56.1	3.7e-12
AUK99824.1|958511_959693_-	MFS transporter	NA	NA	NA	NA	NA
AUK99825.1|959908_960586_-	phosphoglycolate phosphatase	NA	NA	NA	NA	NA
AUK99826.1|960582_961308_-	bifunctional 3-demethylubiquinol 3-O-methyltransferase/2-polyprenyl-6-hydroxyphenol methylase	NA	NA	NA	NA	NA
AUK99827.1|961433_962015_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99828.1|962385_965067_+	DNA gyrase subunit A	NA	G3M9Z5	Bacillus_virus	33.5	3.2e-104
AUL02409.1|965069_966200_+	phosphoserine transaminase	NA	M1Q1P2	Streptococcus_phage	44.0	4.9e-78
AUK99829.1|966192_967278_+	chorismate mutase	NA	NA	NA	NA	NA
AUK99830.1|967364_968264_+	prephenate dehydrogenase	NA	NA	NA	NA	NA
AUK99831.1|968260_969589_+	3-phosphoshikimate 1-carboxyvinyltransferase	NA	NA	NA	NA	NA
AUK99832.1|969603_970275_+	cytidylate kinase	NA	NA	NA	NA	NA
AUK99833.1|970462_972178_+	30S ribosomal protein S1	NA	NA	NA	NA	NA
AUK99834.1|972179_972539_+	integration host factor subunit beta	NA	NA	NA	NA	NA
AUK99835.1|972730_973045_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99836.1|973087_974308_+	lipopolysaccharide assembly protein LapB	NA	NA	NA	NA	NA
AUK99837.1|974304_975246_+	hypothetical protein	NA	A0A2H4N7X4	Lake_Baikal_phage	28.1	1.5e-16
AUK99838.1|975242_976232_+	ADP-glyceromanno-heptose 6-epimerase	NA	E3SJ87	Synechococcus_phage	34.4	2.2e-26
AUL02410.1|976521_976851_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99839.1|976949_977900_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99840.1|977980_978892_+	cysteine synthase B	NA	A0A1X9I5K7	Streptococcus_phage	38.8	8.0e-47
AUK99841.1|978952_980098_-	lytic murein transglycosylase B	NA	NA	NA	NA	NA
AUK99842.1|980117_981032_+	deacetylase	NA	A0A2K9KZC4	Tupanvirus	34.7	9.8e-45
AUK99843.1|981103_981853_+	electron transporter RnfB	NA	NA	NA	NA	NA
AUK99844.1|981852_982782_+	electron transfer flavoprotein subunit alpha	NA	NA	NA	NA	NA
AUK99845.1|983025_984852_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUK99846.1|984934_985576_+	peroxidase	NA	NA	NA	NA	NA
AUK99847.1|985765_986800_+	sulfate transporter subunit	NA	NA	NA	NA	NA
AUK99848.1|986815_987019_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99849.1|987040_987715_+	sulfate ABC transporter permease subunit CysT	NA	NA	NA	NA	NA
AUK99850.1|987829_988612_+	sulfate ABC transporter permease subunit CysW	NA	NA	NA	NA	NA
AUK99851.1|988636_989701_+	sulfate ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	30.3	3.8e-24
AUL02411.1|990498_991407_+	sulfate adenylyltransferase small subunit	NA	NA	NA	NA	NA
AUK99852.1|992894_994169_+	radical SAM protein	NA	NA	NA	NA	NA
AUK99853.1|994322_994703_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99854.1|994710_995583_-	multidrug DMT transporter permease	NA	NA	NA	NA	NA
AUK99855.1|995888_996269_+	50S ribosomal protein L19	NA	NA	NA	NA	NA
AUK99856.1|996518_997205_+	coenzyme A pyrophosphatase	NA	NA	NA	NA	NA
AUK99857.1|997300_998251_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99858.1|998355_999405_+	aldo/keto reductase	NA	NA	NA	NA	NA
AUK99859.1|999542_1000559_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
>prophage 9
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	1046265	1117627	4109951	transposase,tRNA	uncultured_Mediterranean_phage(30.0%)	58	NA	NA
AUK99891.1|1046265_1047216_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99892.1|1047514_1048252_-	RNA polymerase sigma factor FliA	NA	NA	NA	NA	NA
AUK99893.1|1048687_1049011_+	flagellar transcriptional activator FlhD	NA	NA	NA	NA	NA
AUK99894.1|1049045_1049606_+	transcriptional regulator FlhC	NA	NA	NA	NA	NA
AUK99895.1|1049726_1050602_+	flagellar motor stator protein MotA	NA	NA	NA	NA	NA
AUK99896.1|1050614_1051562_+	flagellar motor protein MotB	NA	NA	NA	NA	NA
AUK99897.1|1051663_1051957_+	two-component system response regulator	NA	NA	NA	NA	NA
AUK99898.1|1051983_1054041_+	chemotaxis protein CheA	NA	NA	NA	NA	NA
AUK99899.1|1054055_1054556_+	chemotaxis protein CheW	NA	NA	NA	NA	NA
AUK99900.1|1054629_1056336_+	chemotaxis protein	NA	A0A2H4J162	uncultured_Caudovirales_phage	41.7	1.4e-12
AUK99901.1|1057199_1058252_+	chemotaxis response regulator protein-glutamate methylesterase	NA	NA	NA	NA	NA
AUK99902.1|1058304_1058694_+	two-component system response regulator	NA	Q56AR1	Bacillus_thuringiensis_phage	33.3	5.7e-10
AUK99903.1|1058702_1059335_+	protein phosphatase CheZ	NA	NA	NA	NA	NA
AUK99904.1|1059434_1060451_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUL02416.1|1061281_1062289_+	aldo/keto reductase	NA	NA	NA	NA	NA
AUK99905.1|1062285_1063929_-	apolipoprotein N-acyltransferase	NA	NA	NA	NA	NA
AUK99906.1|1063925_1064813_-	magnesium/cobalt efflux protein	NA	NA	NA	NA	NA
AUK99907.1|1064953_1065427_-	rRNA maturation RNase YbeY	NA	NA	NA	NA	NA
AUK99908.1|1065416_1066439_-	phosphate starvation-inducible protein PhoH	NA	A0A0S0MVD6	Pseudomonas_phage	45.4	8.7e-50
AUK99909.1|1066435_1067863_-|tRNA	tRNA (N6-isopentenyl adenosine(37)-C2)-methylthiotransferase MiaB	tRNA	NA	NA	NA	NA
AUK99910.1|1068800_1069817_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUK99911.1|1070149_1071085_-	protein-export membrane protein SecF	NA	A0A1B1IVP7	uncultured_Mediterranean_phage	35.5	3.0e-41
AUK99912.1|1071134_1073015_-	protein-export membrane protein SecD	NA	NA	NA	NA	NA
AUK99913.1|1073081_1073426_-	preprotein translocase subunit YajC	NA	A0A1B1IVR5	uncultured_Mediterranean_phage	40.4	1.0e-10
AUK99914.1|1073570_1074707_-|tRNA	tRNA guanosine(34) transglycosylase Tgt	tRNA	A0A1B1IVQ4	uncultured_Mediterranean_phage	44.4	1.9e-85
AUK99915.1|1074703_1075777_-|tRNA	tRNA preQ1(34) S-adenosylmethionine ribosyltransferase-isomerase QueA	tRNA	NA	NA	NA	NA
AUK99916.1|1075934_1077371_+	D-alanyl-D-alanine carboxypeptidase/D-alanyl-D-alanine-endopeptidase	NA	NA	NA	NA	NA
AUL02417.1|1077461_1078103_+	uracil phosphoribosyltransferase	NA	NA	NA	NA	NA
AUL02418.1|1081496_1082447_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL02419.1|1083649_1085071_-	uroporphyrinogen-III C-methyltransferase	NA	NA	NA	NA	NA
AUL02420.1|1085337_1086051_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99917.1|1086135_1086453_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99918.1|1086493_1086907_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99919.1|1086908_1087268_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99920.1|1087310_1088855_-	3-octaprenyl-4-hydroxybenzoate decarboxylase	NA	NA	NA	NA	NA
AUK99921.1|1088938_1089769_+	lytic transglycosylase	NA	NA	NA	NA	NA
AUK99922.1|1089803_1090958_-	aminotransferase	NA	NA	NA	NA	NA
AUK99923.1|1091000_1091873_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99924.1|1091989_1094278_+	NADP-dependent malic enzyme	NA	NA	NA	NA	NA
AUK99925.1|1095484_1095949_+	barstar family protein 2	NA	NA	NA	NA	NA
AUK99926.1|1095975_1096926_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL02421.1|1097293_1098070_-	phosphate ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	28.7	4.3e-17
AUK99927.1|1098114_1098951_-	phosphate ABC transporter, permease protein PstA	NA	NA	NA	NA	NA
AUK99928.1|1098993_1100010_-	phosphate ABC transporter permease subunit PstC	NA	NA	NA	NA	NA
AUK99929.1|1100144_1101185_-	phosphate ABC transporter substrate-binding protein PstS	NA	M4QHS4	Cyanophage	40.2	2.1e-51
AUK99930.1|1101379_1103461_-	RNA degradosome polyphosphate kinase	NA	NA	NA	NA	NA
AUK99931.1|1103696_1105190_+	exopolyphosphatase	NA	NA	NA	NA	NA
AUK99932.1|1105420_1106215_-	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUK99933.1|1106435_1107794_-	phosphoglucosamine mutase	NA	NA	NA	NA	NA
AUK99934.1|1107790_1108633_-	dihydropteroate synthase	NA	A0A0B5J4J5	Pandoravirus	32.5	3.2e-26
AUK99935.1|1108651_1110538_-	cell division protein FtsH	NA	M4QMW8	Micromonas_pusilla_virus	41.5	1.4e-109
AUK99936.1|1110775_1111408_-	rRNA methyltransferase	NA	NA	NA	NA	NA
AUK99937.1|1111426_1112029_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99938.1|1112474_1112894_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99939.1|1113933_1114734_-	hypothetical protein	NA	NA	NA	NA	NA
AUK99940.1|1114777_1115764_-	homoserine kinase	NA	NA	NA	NA	NA
AUK99941.1|1115939_1116917_+|tRNA	tRNA dihydrouridine(20/20a) synthase DusA	tRNA	NA	NA	NA	NA
AUK99942.1|1116913_1117627_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 10
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	1157562	1236182	4109951	transposase,tRNA	Erysipelothrix_phage(20.0%)	58	NA	NA
AUK99970.1|1157562_1158465_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99971.1|1158611_1159235_-	fimbrial protein	NA	NA	NA	NA	NA
AUK99972.1|1159408_1161691_-	NADP-dependent malic enzyme	NA	NA	NA	NA	NA
AUK99973.1|1161845_1164542_-	pyruvate dehydrogenase (acetyl-transferring), homodimeric type	NA	NA	NA	NA	NA
AUK99974.1|1164667_1165156_+	ArsR family transcriptional regulator	NA	NA	NA	NA	NA
AUK99975.1|1165191_1167054_+	oligopeptide transporter, OPT family	NA	NA	NA	NA	NA
AUK99976.1|1167032_1167242_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99977.1|1167566_1170437_+	2-oxoglutarate dehydrogenase E1 component	NA	NA	NA	NA	NA
AUK99978.1|1170482_1171697_+	dihydrolipoamide succinyltransferase	NA	NA	NA	NA	NA
AUK99979.1|1171926_1173354_+	dihydrolipoyl dehydrogenase	NA	A0A2K5B2C5	Erysipelothrix_phage	28.1	2.1e-41
AUK99980.1|1173451_1174543_+	cell division protein ZapE	NA	NA	NA	NA	NA
AUK99981.1|1174555_1175314_-	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
AUK99982.1|1175401_1176304_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUK99983.1|1176300_1177251_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUK99984.1|1177380_1178364_-	LacI family transcriptional regulator	NA	NA	NA	NA	NA
AUK99985.1|1178418_1179141_-	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUK99986.1|1179655_1180354_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99987.1|1180617_1181973_+|tRNA	tryptophan--tRNA ligase	tRNA	NA	NA	NA	NA
AUK99988.1|1182053_1184429_-	RNA-binding transcriptional accessory protein	NA	NA	NA	NA	NA
AUK99989.1|1184593_1186669_+	helicase	NA	A0A127AW80	Bacillus_phage	30.0	2.4e-75
AUL02424.1|1186730_1187525_-	outer membrane protein assembly factor BamD	NA	NA	NA	NA	NA
AUK99990.1|1187632_1188595_+	RNA pseudouridine synthase	NA	NA	NA	NA	NA
AUK99991.1|1188582_1189338_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99992.1|1189445_1191083_+	class I poly(R)-hydroxyalkanoic acid synthase	NA	NA	NA	NA	NA
AUK99993.1|1191150_1191888_+	beta-ketoacyl-ACP reductase	NA	NA	NA	NA	NA
AUK99994.1|1191990_1192566_+	polyhydroxyalkanoate synthesis repressor PhaR	NA	NA	NA	NA	NA
AUK99995.1|1192738_1193275_+	hypothetical protein	NA	NA	NA	NA	NA
AUL02425.1|1193307_1193622_+	periplasmic lipoprotein involved in iron transport	NA	NA	NA	NA	NA
AUK99996.1|1193637_1194483_+	FTR1 family iron permease	NA	NA	NA	NA	NA
AUK99997.1|1194521_1195901_+	hypothetical protein	NA	NA	NA	NA	NA
AUK99998.1|1195978_1196860_+	phenazine biosynthesis protein PhzC/PhzF	NA	NA	NA	NA	NA
AUK99999.1|1197005_1197908_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00001.1|1197904_1198315_-	lactoylglutathione lyase	NA	NA	NA	NA	NA
AUL00002.1|1198422_1199277_-	2-pyrone-4,6-dicarboxylate hydrolase	NA	NA	NA	NA	NA
AUL00003.1|1199269_1200232_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00004.1|1200277_1201402_-	racemase	NA	Q6A202	Oenococcus_phage	28.3	1.5e-31
AUL00005.1|1201507_1202386_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL00006.1|1202510_1203290_+	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUL00007.1|1203443_1204865_+	MFS transporter	NA	NA	NA	NA	NA
AUL00008.1|1205299_1206997_+	sodium:proline symporter	NA	NA	NA	NA	NA
AUL00009.1|1207025_1207148_+	hypothetical protein	NA	NA	NA	NA	NA
AUL02426.1|1207223_1208165_-	LD-carboxypeptidase	NA	NA	NA	NA	NA
AUL00010.1|1208491_1209238_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00011.1|1209245_1210172_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL00012.1|1210293_1211211_+	oxidoreductase	NA	NA	NA	NA	NA
AUL00013.1|1211250_1212204_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL00014.1|1212228_1212807_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00015.1|1214480_1215089_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00016.1|1215166_1215520_-	hypothetical protein	NA	NA	NA	NA	NA
AUL02427.1|1215603_1216536_-	succinylglutamate desuccinylase	NA	NA	NA	NA	NA
AUL00017.1|1216843_1217746_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00018.1|1217832_1218783_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00019.1|1219989_1221018_-	C4-dicarboxylate ABC transporter	NA	NA	NA	NA	NA
AUL00020.1|1221097_1222396_-	C4-dicarboxylate ABC transporter	NA	NA	NA	NA	NA
AUL00021.1|1222392_1222929_-	TRAP transporter small permease protein	NA	NA	NA	NA	NA
AUL00022.1|1223286_1227333_+	phosphoribosylformylglycinamidine synthase	NA	A9YX36	Burkholderia_phage	67.4	6.3e-160
AUL00023.1|1227573_1235235_+	adhesin	NA	A0A0R6PJK4	Moraxella_phage	30.9	7.3e-24
AUL00024.1|1235231_1236182_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 11
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	1270705	1328911	4109951	transposase	Klosneuvirus(16.67%)	53	NA	NA
AUL00053.1|1270705_1271608_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00054.1|1271793_1272063_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00055.1|1272301_1272940_+	transcriptional regulator	NA	NA	NA	NA	NA
AUL00056.1|1273189_1273726_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00057.1|1273744_1275358_+	autotransporter	NA	NA	NA	NA	NA
AUL00058.1|1275354_1275966_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00059.1|1276188_1277649_+	IMP dehydrogenase	NA	A0A1V0SHK8	Klosneuvirus	41.3	1.6e-97
AUL00060.1|1277745_1279338_+	glutamine-hydrolyzing GMP synthase	NA	A0A1V0SH76	Hokovirus	33.3	1.0e-17
AUL00061.1|1279691_1279949_+	transcriptional regulator	NA	NA	NA	NA	NA
AUL00062.1|1279950_1281291_+	toxin HipA	NA	NA	NA	NA	NA
AUL00063.1|1281386_1282076_-	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUL00064.1|1282088_1283519_+	MFS transporter	NA	NA	NA	NA	NA
AUL00065.1|1285243_1286065_+	transcriptional regulator	NA	NA	NA	NA	NA
AUL00066.1|1286075_1287647_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00067.1|1287675_1288653_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL00068.1|1288679_1289483_+	nitrate ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	38.2	2.7e-30
AUL00069.1|1289479_1290274_+	ABC transporter permease	NA	NA	NA	NA	NA
AUL00070.1|1290281_1291517_+	hypothetical protein	NA	NA	NA	NA	NA
AUL02432.1|1291509_1291944_+	aconitase subunit 2	NA	NA	NA	NA	NA
AUL00071.1|1292693_1293644_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00072.1|1293623_1294205_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00073.1|1294265_1295993_-	sodium-independent anion transporter	NA	NA	NA	NA	NA
AUL00074.1|1296104_1297463_+	MBL fold metallo-hydrolase	NA	NA	NA	NA	NA
AUL00075.1|1297991_1298705_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00076.1|1298745_1299816_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00077.1|1299838_1300717_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00078.1|1300888_1301860_+	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUL00079.1|1302022_1302865_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL00080.1|1303026_1303707_+	anti-sigma factor	NA	NA	NA	NA	NA
AUL00081.1|1303700_1304870_+	amine oxidase	NA	NA	NA	NA	NA
AUL00082.1|1304866_1305898_+	alcohol dehydrogenase	NA	A0A2K9L339	Tupanvirus	27.8	1.8e-26
AUL00083.1|1305965_1307183_+	MFS transporter	NA	NA	NA	NA	NA
AUL00084.1|1307217_1308750_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUL00085.1|1308830_1309454_+	transcriptional regulator	NA	NA	NA	NA	NA
AUL00086.1|1309484_1310096_+	RhtB family transporter	NA	NA	NA	NA	NA
AUL00087.1|1310131_1310602_+	histidine kinase	NA	NA	NA	NA	NA
AUL00088.1|1310776_1311025_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00089.1|1311032_1312037_+	peptidase M20	NA	NA	NA	NA	NA
AUL00090.1|1312073_1313588_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL00091.1|1313591_1314551_+	ABC transporter	NA	NA	NA	NA	NA
AUL00092.1|1314579_1315383_+	peptide ABC transporter permease	NA	NA	NA	NA	NA
AUL00093.1|1315384_1317019_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	31.1	2.9e-15
AUL00094.1|1317102_1318164_+	LacI family transcriptional regulator	NA	NA	NA	NA	NA
AUL00095.1|1318635_1319160_+	DNA-binding protein	NA	J9Q7G7	Salmonella_phage	32.9	6.5e-09
AUL00096.1|1319623_1320526_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00097.1|1320522_1321557_-	hydrolase	NA	NA	NA	NA	NA
AUL00098.1|1321665_1322304_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00099.1|1322598_1322826_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUL00100.1|1322948_1323662_+	SAM-dependent methyltransferase	NA	NA	NA	NA	NA
AUL00101.1|1323906_1324857_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00102.1|1324996_1325242_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00103.1|1325356_1326805_-	2-aminoadipate aminotransferase	NA	NA	NA	NA	NA
AUL00104.1|1328008_1328911_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 12
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	1417552	1469705	4109951	transposase,tRNA	Salmonella_phage(25.0%)	46	NA	NA
AUL00184.1|1417552_1418503_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00185.1|1418669_1419023_+	cytochrome C	NA	NA	NA	NA	NA
AUL00186.1|1419035_1419398_+	cytochrome	NA	NA	NA	NA	NA
AUL00187.1|1419439_1419865_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00188.1|1420067_1421324_+	NADP-dependent isocitrate dehydrogenase	NA	Q77Z09	Phage_21	64.8	1.2e-11
AUL00189.1|1421522_1422503_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00190.1|1422652_1423894_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00191.1|1423992_1424943_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00192.1|1424951_1425647_-	two-component system response regulator KdpE	NA	NA	NA	NA	NA
AUL00193.1|1425688_1428403_-	two-component sensor histidine kinase	NA	NA	NA	NA	NA
AUL00194.1|1428468_1429068_-	potassium-transporting ATPase subunit C	NA	NA	NA	NA	NA
AUL00195.1|1429078_1431244_-	potassium-transporting ATPase subunit B	NA	M1HBF8	Paramecium_bursaria_Chlorella_virus	27.1	1.2e-24
AUL00196.1|1431267_1433052_-	potassium-transporting ATPase subunit KdpA	NA	NA	NA	NA	NA
AUL00197.1|1433051_1433141_-	potassium-transporting ATPase subunit F	NA	NA	NA	NA	NA
AUL00198.1|1433835_1434108_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00199.1|1434107_1436174_+	cation acetate symporter	NA	NA	NA	NA	NA
AUL00200.1|1436170_1437073_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00201.1|1437219_1438170_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00202.1|1438285_1438618_-	QacE family quaternary ammonium compound efflux SMR transporter	NA	NA	NA	NA	NA
AUL00203.1|1438614_1439301_-	DNA mismatch repair protein MutS	NA	NA	NA	NA	NA
AUL00204.1|1439287_1440247_-	thioredoxin-disulfide reductase	NA	A0A2I2L5E1	Orpheovirus	40.2	3.1e-57
AUL00205.1|1440279_1442649_+	cell division protein FtsK	NA	S5VNE3	Mycobacterium_phage	48.0	7.6e-81
AUL00206.1|1442648_1443281_+	outer membrane lipoprotein carrier protein LolA	NA	NA	NA	NA	NA
AUL00207.1|1443382_1444723_+	recombination factor protein RarA	NA	G3MBE0	Bacillus_virus	38.9	1.6e-75
AUL00208.1|1444769_1446125_+|tRNA	serine--tRNA ligase	tRNA	A0A1B1IVT2	uncultured_Mediterranean_phage	47.5	1.6e-83
AUL00209.1|1446415_1446652_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00210.1|1446839_1447157_-	virulence factor	NA	NA	NA	NA	NA
AUL00211.1|1447429_1447945_-	hypothetical protein	NA	T1SAR8	Salmonella_phage	44.6	5.1e-06
AUL00212.1|1448038_1448200_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00213.1|1448215_1448971_-	GGDEF domain-containing protein	NA	NA	NA	NA	NA
AUL00214.1|1449309_1449516_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00215.1|1449523_1450183_-	antibiotic resistance protein	NA	NA	NA	NA	NA
AUL00216.1|1450477_1452682_-	porin	NA	NA	NA	NA	NA
AUL00217.1|1452792_1454016_-	multidrug transporter	NA	S4TR35	Salmonella_phage	29.4	9.8e-24
AUL00218.1|1454138_1455113_-	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUL00219.1|1455180_1456374_-	Rieske (2Fe-2S) protein	NA	NA	NA	NA	NA
AUL00220.1|1456388_1457189_-	siderophore ferric iron reductase	NA	NA	NA	NA	NA
AUL00221.1|1457185_1459042_-	IucA/IucC family protein	NA	NA	NA	NA	NA
AUL00222.1|1459038_1459644_-	siderophore biosynthesis protein	NA	NA	NA	NA	NA
AUL00223.1|1459662_1461048_-	alcaligin biosynthesis protein	NA	NA	NA	NA	NA
AUL00224.1|1461773_1463000_+	transporter	NA	NA	NA	NA	NA
AUL00225.1|1463088_1463871_+	3-hydroxybutyrate dehydrogenase	NA	NA	NA	NA	NA
AUL00226.1|1464017_1464920_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00227.1|1464946_1465720_+	peroxide stress protein YaaA	NA	NA	NA	NA	NA
AUL00228.1|1465731_1466973_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00229.1|1468802_1469705_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 14
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	1571540	1642646	4109951	transposase	Ectocarpus_siliculosus_virus(11.11%)	55	NA	NA
AUL00322.1|1571540_1572491_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00323.1|1572512_1573733_+	YggW family oxidoreductase	NA	NA	NA	NA	NA
AUL00324.1|1573918_1575331_+	type I glutamate--ammonia ligase	NA	NA	NA	NA	NA
AUL00325.1|1575394_1576462_+	PAS domain-containing sensor histidine kinase	NA	Q8QKV7	Ectocarpus_siliculosus_virus	23.5	1.1e-05
AUL00326.1|1576461_1577949_+	nitrogen regulation protein NR(I)	NA	NA	NA	NA	NA
AUL02445.1|1577958_1578903_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL00327.1|1579062_1579761_+	quercetin 2,3-dioxygenase	NA	NA	NA	NA	NA
AUL00328.1|1579838_1580744_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00329.1|1580763_1581666_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00330.1|1581812_1582607_-	ABC transporter	NA	G9BWD6	Planktothrix_phage	29.4	8.3e-16
AUL00331.1|1582611_1584282_-	iron ABC transporter permease	NA	NA	NA	NA	NA
AUL00332.1|1584405_1585455_-	iron ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL00333.1|1585776_1586553_+	ferredoxin--NADP(+) reductase	NA	NA	NA	NA	NA
AUL00334.1|1586617_1587520_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL00335.1|1588813_1589617_+	2,5-didehydrogluconate reductase B	NA	A0A2H4PQR8	Staphylococcus_phage	32.4	2.0e-33
AUL00336.1|1592310_1592697_+	reactive intermediate/imine deaminase	NA	NA	NA	NA	NA
AUL00337.1|1592712_1594803_+	ATP-dependent DNA helicase RecG	NA	NA	NA	NA	NA
AUL00338.1|1594854_1595808_+	LysR family transcriptional regulator	NA	A0A2P0ZL89	Lactobacillus_phage	26.5	7.2e-14
AUL02446.1|1595822_1596710_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL00339.1|1596847_1598374_+	methylmalonate-semialdehyde dehydrogenase (acylating)	NA	NA	NA	NA	NA
AUL02447.1|1598472_1598973_+	DNA starvation/stationary phase protection protein	NA	W5S6G8	Pithovirus	35.5	6.4e-14
AUL00340.1|1599296_1601252_-	capsular biosynthesis protein	NA	NA	NA	NA	NA
AUL00341.1|1601419_1603504_-	hypothetical protein	NA	NA	NA	NA	NA
AUL02448.1|1603530_1603956_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00342.1|1605171_1605942_+	polyhydroxyalkanoate biosynthesis repressor PhaR	NA	NA	NA	NA	NA
AUL00343.1|1605941_1606682_+	sugar ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
AUL00344.1|1606723_1607893_+	capsule biosynthesis protein	NA	NA	NA	NA	NA
AUL00345.1|1607924_1610009_+	Vi polysaccharide biosynthesis protein TviE	NA	NA	NA	NA	NA
AUL00346.1|1610005_1610896_+	capsular biosynthesis protein	NA	NA	NA	NA	NA
AUL00347.1|1610892_1611990_+	capsule biosynthesis protein CapA	NA	NA	NA	NA	NA
AUL00348.1|1612012_1613302_+	Vi polysaccharide biosynthesis protein VipA/TviB	NA	NA	NA	NA	NA
AUL00349.1|1613313_1614339_+	LPS biosynthesis protein WbpP	NA	A0A2K9L4U8	Tupanvirus	44.2	4.7e-72
AUL00350.1|1614335_1616393_+	beta-3-deoxy-D-manno-oct-2-ulosonic acid transferase	NA	NA	NA	NA	NA
AUL00351.1|1616406_1617582_+	capsule biosynthesis protein CapA	NA	NA	NA	NA	NA
AUL00352.1|1617663_1618614_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00353.1|1618672_1619446_+	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUL00354.1|1619438_1620995_+	capsular biosynthesis protein	NA	NA	NA	NA	NA
AUL00355.1|1620991_1621942_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00356.1|1623268_1623871_-	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUL00357.1|1624110_1624812_-	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
AUL00358.1|1624805_1625588_-	high-affinity branched-chain amino acid ABC transporter ATP-binding protein LivG	NA	A0A2R8FG22	Brazilian_cedratvirus	25.8	2.0e-09
AUL00359.1|1625772_1626723_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00360.1|1626821_1627559_-	hypothetical protein	NA	A0A0S4KZH7	Pseudomonas_phage	46.6	4.1e-41
AUL00361.1|1627748_1628507_-	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUL00362.1|1628553_1629555_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL00363.1|1629720_1630689_-	phenol degradation protein meta	NA	NA	NA	NA	NA
AUL00364.1|1632228_1633197_+	AAA family ATPase	NA	NA	NA	NA	NA
AUL00365.1|1633205_1634147_+	MoxR protein	NA	NA	NA	NA	NA
AUL02449.1|1634620_1635631_+	hypothetical protein	NA	NA	NA	NA	NA
AUL02451.1|1635621_1637136_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00366.1|1637132_1638479_+	hypothetical protein	NA	NA	NA	NA	NA
AUL02450.1|1638481_1639516_+	haloacid dehalogenase	NA	NA	NA	NA	NA
AUL00367.1|1639565_1641191_+	arylsulfatase	NA	A0A2P0VMN7	Tetraselmis_virus	52.2	2.0e-149
AUL00368.1|1641284_1641764_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00369.1|1641743_1642646_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 15
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	1663485	1724833	4109951	transposase,tRNA	uncultured_Caudovirales_phage(12.5%)	54	NA	NA
AUL00386.1|1663485_1664436_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00387.1|1664544_1664733_+	hypothetical protein	NA	NA	NA	NA	NA
AUL02454.1|1664729_1665452_-	arsenical resistance protein ArsH	NA	A0A2H4J5V6	uncultured_Caudovirales_phage	68.2	1.3e-87
AUL00388.1|1665890_1667078_-	hypothetical protein	NA	NA	NA	NA	NA
AUL02455.1|1667081_1667432_-	transcriptional regulator	NA	NA	NA	NA	NA
AUL00389.1|1667665_1669078_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00390.1|1669181_1670153_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL00391.1|1670166_1670880_+	3-oxoacyl-[acyl-carrier-protein] reductase	NA	NA	NA	NA	NA
AUL00392.1|1670884_1671802_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL00393.1|1671908_1672205_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00394.1|1672351_1673254_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00395.1|1674412_1677346_+	monovalent cation/H+ antiporter subunit A	NA	NA	NA	NA	NA
AUL00396.1|1677345_1677690_+	Na+/H+ antiporter subunit C	NA	NA	NA	NA	NA
AUL00397.1|1677686_1679315_+	monovalent cation/H+ antiporter subunit D	NA	NA	NA	NA	NA
AUL00398.1|1679314_1679791_+	Na+/H+ antiporter subunit E	NA	NA	NA	NA	NA
AUL00399.1|1679790_1680072_+	K+/H+ antiporter subunit F	NA	NA	NA	NA	NA
AUL00400.1|1680068_1680395_+	cation:proton antiporter	NA	NA	NA	NA	NA
AUL00401.1|1680550_1681501_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00402.1|1681544_1682087_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00403.1|1682184_1683033_+	hydrolase	NA	NA	NA	NA	NA
AUL02456.1|1683082_1683532_+|tRNA	tRNA-specific adenosine deaminase	tRNA	S4VYT2	Pandoravirus	38.2	2.0e-06
AUL00404.1|1683528_1684530_+	LD-carboxypeptidase	NA	NA	NA	NA	NA
AUL00405.1|1684542_1685337_-	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL00406.1|1685385_1687287_-	C4-dicarboxylate ABC transporter	NA	NA	NA	NA	NA
AUL00407.1|1687283_1687907_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00408.1|1688033_1689158_-	C4-dicarboxylate ABC transporter	NA	NA	NA	NA	NA
AUL00409.1|1689538_1691143_+	ABC-F family ATPase	NA	A0A1V0SKJ1	Klosneuvirus	28.9	1.2e-53
AUL00410.1|1691298_1692075_+	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	34.2	1.2e-30
AUL00411.1|1692159_1693158_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL00412.1|1693154_1693928_+	ABC transporter permease	NA	NA	NA	NA	NA
AUL00413.1|1694912_1695863_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00414.1|1695886_1696351_-|tRNA	glutamyl-tRNA amidotransferase	tRNA	A0A0K2FLI9	Brevibacillus_phage	32.4	3.9e-05
AUL00415.1|1696497_1697706_+	nitric oxide dioxygenase	NA	NA	NA	NA	NA
AUL00416.1|1697749_1698187_+	BadM/Rrf2 family transcriptional regulator	NA	NA	NA	NA	NA
AUL00417.1|1698305_1699595_+	D-amino acid dehydrogenase small subunit	NA	NA	NA	NA	NA
AUL00418.1|1702335_1703238_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00419.1|1703384_1704401_-	folate-binding protein YgfZ	NA	NA	NA	NA	NA
AUL00420.1|1704579_1705614_+	aminodeoxychorismate lyase	NA	NA	NA	NA	NA
AUL00421.1|1705610_1706237_+	dTMP kinase	NA	A0A1L2BX49	Bacteriophage	35.1	1.6e-22
AUL00422.1|1706233_1707286_+	DNA polymerase III subunit delta'	NA	NA	NA	NA	NA
AUL00423.1|1707335_1708106_+	DNAase	NA	NA	NA	NA	NA
AUL00424.1|1708156_1708993_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00425.1|1709188_1709929_+	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUL00426.1|1710003_1710747_+	glutamine ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL00427.1|1711408_1712182_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	37.7	3.1e-31
AUL02457.1|1713319_1714609_+	glutamate dehydrogenase	NA	NA	NA	NA	NA
AUL00428.1|1716219_1717467_-	Zn-dependent hydrolase	NA	NA	NA	NA	NA
AUL00429.1|1717476_1719186_-	thiamine pyrophosphate-binding protein	NA	A0A0P0YLY7	Yellowstone_lake_phycodnavirus	27.3	5.9e-35
AUL00430.1|1719182_1720121_-	CoA ester lyase	NA	NA	NA	NA	NA
AUL00431.1|1720117_1721401_-	C4-dicarboxylate ABC transporter permease	NA	NA	NA	NA	NA
AUL00432.1|1721404_1721887_-	TRAP transporter small permease protein	NA	NA	NA	NA	NA
AUL00433.1|1721887_1722874_-	C4-dicarboxylate ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL00434.1|1723046_1723766_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUL00435.1|1723882_1724833_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 16
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	1831020	1902530	4109951	transposase,tRNA	Klosneuvirus(22.22%)	60	NA	NA
AUL00514.1|1831020_1831971_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00515.1|1832095_1832905_-	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL00516.1|1833153_1834056_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00517.1|1835329_1836547_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00518.1|1836543_1837599_+	4-hydroxythreonine-4-phosphate dehydrogenase PdxA	NA	NA	NA	NA	NA
AUL00519.1|1837603_1838506_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUL00520.1|1838582_1839455_+	MOSC domain-containing protein	NA	NA	NA	NA	NA
AUL00521.1|1839585_1839954_+	aspartate 1-decarboxylase	NA	NA	NA	NA	NA
AUL00522.1|1840011_1841058_+	CDP-6-deoxy-delta-3,4-glucoseen reductase	NA	NA	NA	NA	NA
AUL00523.1|1841253_1842510_+	amino acid dehydrogenase	NA	NA	NA	NA	NA
AUL00524.1|1842514_1843852_+	glycerol-3-phosphate ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL00525.1|1844001_1844958_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL00526.1|1846415_1846781_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00527.1|1846828_1848403_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL00528.1|1848455_1849400_+	peptide ABC transporter	NA	NA	NA	NA	NA
AUL02464.1|1849327_1850248_+	peptide ABC transporter permease	NA	NA	NA	NA	NA
AUL00529.1|1850240_1851875_+	microcin ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	32.7	8.2e-18
AUL00530.1|1851871_1853227_+	amidase	NA	NA	NA	NA	NA
AUL00531.1|1854133_1855711_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00532.1|1855714_1856989_+	hypothetical protein	NA	NA	NA	NA	NA
AUL02465.1|1857086_1857461_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00533.1|1859176_1860310_+	general secretion pathway protein	NA	NA	NA	NA	NA
AUL00534.1|1860347_1860953_+	prepilin-type N-terminal cleavage/methylation domain-containing protein	NA	NA	NA	NA	NA
AUL00535.1|1860949_1861768_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00536.1|1861839_1864464_+|tRNA	alanine--tRNA ligase	tRNA	A0A1V0SK38	Klosneuvirus	39.4	1.7e-81
AUL00537.1|1864450_1864705_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00538.1|1864771_1865353_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00539.1|1865656_1865917_+	30S ribosomal protein S16	NA	NA	NA	NA	NA
AUL00540.1|1866082_1866706_+	ribosome maturation factor RimM	NA	NA	NA	NA	NA
AUL00541.1|1866705_1867479_+|tRNA	tRNA (guanosine(37)-N1)-methyltransferase TrmD	tRNA	NA	NA	NA	NA
AUL00542.1|1867475_1868684_-	class V aminotransferase	NA	NA	NA	NA	NA
AUL00543.1|1868709_1869183_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00544.1|1869256_1870207_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00545.1|1870305_1871208_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00546.1|1871354_1872704_-	two-component sensor histidine kinase	NA	NA	NA	NA	NA
AUL00547.1|1873469_1874225_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00548.1|1874317_1877200_-|tRNA	valine--tRNA ligase	tRNA	A0A1V0SK04	Klosneuvirus	37.1	3.7e-138
AUL00549.1|1877522_1877948_+	nucleoside-diphosphate kinase	NA	D2E8E1	Anguillid_herpesvirus	43.2	2.1e-21
AUL00550.1|1877975_1879124_+	23S rRNA (adenine(2503)-C(2))-methyltransferase	NA	NA	NA	NA	NA
AUL00551.1|1879120_1879627_+	transcriptional regulator	NA	NA	NA	NA	NA
AUL00552.1|1879642_1880929_+	4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase	NA	NA	NA	NA	NA
AUL02466.1|1880978_1882274_+|tRNA	histidine--tRNA ligase	tRNA	NA	NA	NA	NA
AUL00553.1|1882275_1882914_+	hypothetical protein	NA	NA	NA	NA	NA
AUL02467.1|1882919_1884077_+	outer membrane protein assembly factor BamB	NA	NA	NA	NA	NA
AUL00554.1|1884103_1885459_+	ribosome biogenesis GTPase Der	NA	NA	NA	NA	NA
AUL00555.1|1885462_1886533_+	histidinol-phosphate transaminase	NA	A0A1X6WGT4	Pacmanvirus	25.7	2.5e-15
AUL00556.1|1886671_1886908_+	RNA chaperone Hfq	NA	NA	NA	NA	NA
AUL00557.1|1886995_1888102_+	GTPase HflX	NA	NA	NA	NA	NA
AUL00558.1|1888067_1889372_+	HflK protein	NA	NA	NA	NA	NA
AUL00559.1|1889390_1890290_+	HflC protein	NA	NA	NA	NA	NA
AUL00560.1|1890473_1891631_+	ATP phosphoribosyltransferase regulatory subunit	NA	NA	NA	NA	NA
AUL00561.1|1891707_1893003_+	adenylosuccinate synthase	NA	A0A160ER07	Powai_lake_megavirus	33.5	3.0e-63
AUL00562.1|1893116_1893656_+	nicotinate phosphoribosyltransferase	NA	NA	NA	NA	NA
AUL00563.1|1893933_1894146_+	30S ribosomal protein S21	NA	NA	NA	NA	NA
AUL00564.1|1894165_1896196_+	DNA primase	NA	A0A0K1LMQ9	Caulobacter_phage	41.9	1.0e-65
AUL00565.1|1896881_1899164_+	RNA polymerase sigma factor RpoD	NA	A0A2I7SAT0	Vibrio_phage	30.1	3.2e-36
AUL00566.1|1899573_1899873_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00567.1|1900157_1900571_+	transcriptional regulator	NA	A0A222YXG1	Escherichia_phage	59.0	3.8e-36
AUL00568.1|1900530_1901481_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00569.1|1901579_1902530_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 17
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	1913782	1963129	4109951	transposase	Klosneuvirus(16.67%)	47	NA	NA
AUL00580.1|1913782_1914685_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00581.1|1914681_1915956_-	adenosylmethionine--8-amino-7-oxononanoate transaminase	NA	A0A1V0SKB7	Klosneuvirus	28.9	9.6e-14
AUL00582.1|1916059_1917253_+	8-amino-7-oxononanoate synthase	NA	NA	NA	NA	NA
AUL00583.1|1917249_1917903_+	alpha/beta hydrolase	NA	NA	NA	NA	NA
AUL00584.1|1917899_1919336_+	dethiobiotin synthase	NA	NA	NA	NA	NA
AUL00585.1|1919323_1919683_+	CidA/LrgA family protein	NA	NA	NA	NA	NA
AUL00586.1|1919768_1920419_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00587.1|1920703_1921606_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00588.1|1922650_1924516_-	sigma-54-dependent Fis family transcriptional regulator	NA	NA	NA	NA	NA
AUL02471.1|1924773_1926294_+	aldehyde dehydrogenase	NA	NA	NA	NA	NA
AUL00589.1|1926381_1927032_-	NAD(P)H dehydrogenase	NA	NA	NA	NA	NA
AUL00590.1|1927980_1929276_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00591.1|1929297_1930182_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL02472.1|1930280_1931156_+	PhzF family phenazine biosynthesis protein	NA	NA	NA	NA	NA
AUL00592.1|1931145_1931502_-	RNA signal recognition particle	NA	NA	NA	NA	NA
AUL00593.1|1931632_1932607_+	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUL00594.1|1932736_1932916_-	DUF3008 domain-containing protein	NA	NA	NA	NA	NA
AUL00595.1|1933058_1933538_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00596.1|1933548_1934385_-	alpha/beta hydrolase	NA	NA	NA	NA	NA
AUL00597.1|1934497_1934869_+	transcriptional regulator	NA	NA	NA	NA	NA
AUL00598.1|1934865_1935417_+	ATPase	NA	NA	NA	NA	NA
AUL00599.1|1935432_1937124_-	sodium-independent anion transporter	NA	A0A2H4J153	uncultured_Caudovirales_phage	27.3	5.0e-42
AUL00600.1|1937172_1937853_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUL00601.1|1938100_1938565_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00602.1|1938734_1939664_+	hypothetical protein	NA	NA	NA	NA	NA
AUL02473.1|1939676_1940270_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00603.1|1940397_1942215_-	ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	27.4	2.3e-37
AUL00604.1|1942298_1943249_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL02474.1|1943347_1943827_-	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUL00605.1|1943949_1944852_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00606.1|1944870_1945218_-	aldehyde-activating protein	NA	NA	NA	NA	NA
AUL00607.1|1945246_1946686_-	MFS transporter	NA	A0A0M3UL24	Mycobacterium_phage	37.4	7.4e-55
AUL00608.1|1946704_1947100_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00609.1|1947274_1947883_+	peptidase S16	NA	NA	NA	NA	NA
AUL00610.1|1947895_1948714_+	hypothetical protein	NA	A0A1B1INV8	uncultured_Mediterranean_phage	28.8	2.3e-16
AUL00611.1|1948665_1949640_-	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUL00612.1|1949668_1950730_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00613.1|1950726_1952943_-	aldehyde oxidase	NA	NA	NA	NA	NA
AUL00614.1|1952956_1953415_-	(2Fe-2S)-binding protein	NA	NA	NA	NA	NA
AUL00615.1|1953572_1953917_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00616.1|1954073_1954979_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL02475.1|1955065_1956079_+	pyridoxamine 5'-phosphate oxidase	NA	NA	NA	NA	NA
AUL00617.1|1958058_1959075_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUL00618.1|1959217_1960570_-	glutathione-disulfide reductase	NA	A0A2K5B2C5	Erysipelothrix_phage	27.6	2.9e-45
AUL00619.1|1960744_1961041_+	hypothetical protein	NA	NA	NA	NA	NA
AUL00620.1|1961187_1962192_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00621.1|1962226_1963129_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 18
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	2170524	2220176	4109951	transposase,tRNA	uncultured_Mediterranean_phage(16.67%)	43	NA	NA
AUL00780.1|2170524_2171475_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL02488.1|2171573_2172971_-	rRNA methyltransferase	NA	NA	NA	NA	NA
AUL00781.1|2173627_2174593_+	riboflavin biosynthesis protein RibF	NA	NA	NA	NA	NA
AUL00782.1|2174582_2177444_+|tRNA	isoleucine--tRNA ligase	tRNA	A0A1V0SJ93	Klosneuvirus	25.5	1.0e-71
AUL00783.1|2177446_2177953_+	signal peptidase II	NA	NA	NA	NA	NA
AUL00784.1|2178057_2179266_+	phosphopantothenate synthase	NA	Q9HH70	Methanothermobacter_phage	30.0	3.8e-36
AUL00785.1|2179267_2180206_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00786.1|2180367_2180841_+	AsnC family transcriptional regulator	NA	NA	NA	NA	NA
AUL00787.1|2180837_2181788_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00788.1|2181898_2182339_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00789.1|2182467_2183697_-	lytic transglycosylase	NA	NA	NA	NA	NA
AUL00790.1|2183735_2184557_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00791.1|2184610_2185762_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUL00792.1|2185853_2186324_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00793.1|2188892_2191442_+	cyanophycin synthetase	NA	NA	NA	NA	NA
AUL00794.1|2191512_2194086_+	cyanophycin synthetase	NA	NA	NA	NA	NA
AUL00795.1|2194351_2194552_+	general stress protein CsbD	NA	NA	NA	NA	NA
AUL00796.1|2194583_2194745_+	DUF1328 domain-containing protein	NA	NA	NA	NA	NA
AUL00797.1|2194802_2195141_+	phospholipid-binding protein	NA	NA	NA	NA	NA
AUL00798.1|2195289_2196192_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00799.1|2197013_2197682_+	arylesterase	NA	NA	NA	NA	NA
AUL02489.1|2197663_2199619_-	peptidylprolyl isomerase	NA	NA	NA	NA	NA
AUL00800.1|2199861_2200611_+	glycerophosphodiester phosphodiesterase	NA	A0A2H4PGQ5	Escherichia_phage	27.8	1.5e-14
AUL00801.1|2200623_2201487_+	23S rRNA (adenine(2030)-N(6))-methyltransferase RlmJ	NA	NA	NA	NA	NA
AUL00802.1|2201490_2202906_-	dihydrolipoyl dehydrogenase	NA	NA	NA	NA	NA
AUL00803.1|2203039_2203768_-	glutathione peroxidase	NA	A0A1D8KSL1	Synechococcus_phage	56.8	9.6e-43
AUL00804.1|2203906_2204107_-	heavy metal transporter	NA	NA	NA	NA	NA
AUL00805.1|2204282_2204681_+	Cu(I)-responsive transcriptional regulator	NA	NA	NA	NA	NA
AUL00806.1|2204704_2206105_-	23S rRNA (uracil(1939)-C(5))-methyltransferase	NA	A0A2K5B251	Erysipelothrix_phage	26.5	7.3e-31
AUL00807.1|2206223_2206976_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00808.1|2207264_2207864_-	hypothetical protein	NA	NA	NA	NA	NA
AUL00809.1|2207968_2208748_-	3'-5' exonuclease	NA	NA	NA	NA	NA
AUL00810.1|2208744_2209629_-	peptidase	NA	A0A292GJG6	Xanthomonas_phage	49.5	4.6e-15
AUL00811.1|2209646_2210426_-	protein-L-isoaspartate O-methyltransferase	NA	A0A1B1IU40	uncultured_Mediterranean_phage	46.9	4.8e-32
AUL00812.1|2210410_2211169_-	5'/3'-nucleotidase SurE	NA	A0A1B1ITZ2	uncultured_Mediterranean_phage	51.2	1.4e-68
AUL02490.1|2211306_2211942_+	glycerol-3-phosphate acyltransferase	NA	NA	NA	NA	NA
AUL00813.1|2212209_2213226_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUL00814.1|2213323_2214364_-|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex transferase subunit TsaD	tRNA	A0A0R6PI74	Moraxella_phage	51.3	6.1e-91
AUL00815.1|2214498_2215791_+	guanine permease	NA	A0A0R6PHV4	Moraxella_phage	36.0	1.7e-66
AUL00816.1|2217150_2217534_+	thiol reductase thioredoxin	NA	V9SJ74	Achromobacter_phage	25.8	8.1e-09
AUL00817.1|2217551_2218139_-	thymidylate synthase	NA	A0A1X9I5T8	Streptococcus_phage	35.8	4.7e-16
AUL00818.1|2218176_2219079_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL00819.1|2219225_2220176_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 19
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	2839355	2905185	4109951	transposase,protease	Pelagibacter_phage(16.67%)	48	NA	NA
AUL01320.1|2839355_2840306_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01321.1|2840440_2841547_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL01322.1|2841557_2842655_+	cyclic pyranopterin phosphate synthase	NA	NA	NA	NA	NA
AUL01323.1|2842799_2844005_-	molybdopterin molybdenumtransferase MoeA	NA	NA	NA	NA	NA
AUL01324.1|2844011_2844533_-	molybdenum cofactor biosynthesis protein B	NA	NA	NA	NA	NA
AUL02539.1|2844529_2845012_-	molybdenum cofactor biosynthesis protein MoaE	NA	NA	NA	NA	NA
AUL01325.1|2845017_2845269_-	molybdopterin synthase sulfur carrier subunit	NA	NA	NA	NA	NA
AUL01326.1|2845249_2845735_-	molybdenum cofactor biosynthesis protein C	NA	NA	NA	NA	NA
AUL01327.1|2845870_2849332_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01328.1|2849349_2850234_+	carboxymethylenebutenolidase	NA	NA	NA	NA	NA
AUL01329.1|2850243_2850675_-	hypothetical protein	NA	NA	NA	NA	NA
AUL02540.1|2850921_2851425_+	peroxiredoxin	NA	M1I839	Pelagibacter_phage	44.1	1.8e-24
AUL01330.1|2851502_2852903_+	MFS transporter	NA	NA	NA	NA	NA
AUL01331.1|2852977_2853853_-	hypothetical protein	NA	NA	NA	NA	NA
AUL02541.1|2853849_2854857_-	biotin synthase BioB	NA	NA	NA	NA	NA
AUL01332.1|2855324_2855630_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01333.1|2855720_2856311_+	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUL01334.1|2856501_2857518_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUL01335.1|2857709_2860046_-	copper-translocating P-type ATPase	NA	E4ZFI9	Streptococcus_phage	42.8	3.2e-124
AUL01336.1|2860128_2860563_+	Cd(II)/Pb(II)-responsive transcriptional regulator	NA	NA	NA	NA	NA
AUL01337.1|2860897_2861611_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01338.1|2862654_2863449_-	N-formylglutamate deformylase	NA	NA	NA	NA	NA
AUL01339.1|2863480_2864185_-	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
AUL01340.1|2864259_2865060_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01341.1|2865056_2865464_-	cytochrome o ubiquinol oxidase subunit IV	NA	NA	NA	NA	NA
AUL01342.1|2865460_2866102_-	cytochrome o ubiquinol oxidase subunit III	NA	NA	NA	NA	NA
AUL02542.1|2866094_2868095_-	cytochrome o ubiquinol oxidase subunit I	NA	NA	NA	NA	NA
AUL01343.1|2869355_2870687_+	arabinose ABC transporter permease	NA	NA	NA	NA	NA
AUL01344.1|2870683_2871586_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01345.1|2873339_2873606_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01346.1|2874313_2874652_+	transcriptional regulator	NA	NA	NA	NA	NA
AUL01347.1|2875980_2878260_-	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA	NA
AUL01348.1|2878237_2878942_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01349.1|2879204_2879807_-	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUL01350.1|2879903_2881193_+	MFS transporter	NA	NA	NA	NA	NA
AUL01351.1|2881250_2881982_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	31.0	1.4e-12
AUL01352.1|2881978_2882782_-	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	23.5	7.9e-14
AUL01353.1|2882778_2883867_-	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
AUL01354.1|2883863_2884793_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUL01355.1|2884941_2886087_-	branched chain amino acid ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL01356.1|2887388_2891210_-	trifunctional transcriptional regulator/proline dehydrogenase/L-glutamate gamma-semialdehyde dehydrogenase	NA	NA	NA	NA	NA
AUL01357.1|2891366_2892035_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01358.1|2892039_2893713_-	paraquat-inducible protein B	NA	NA	NA	NA	NA
AUL01359.1|2893731_2895051_-	paraquat-inducible membrane protein A	NA	NA	NA	NA	NA
AUL01360.1|2895055_2897371_-|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	protease	A0A223W0B1	Agrobacterium_phage	41.9	4.1e-164
AUL02543.1|2897426_2899595_-	penicillin-binding protein 1C	NA	NA	NA	NA	NA
AUL02544.1|2899591_2904157_-	alpha-2-macroglobulin	NA	NA	NA	NA	NA
AUL01361.1|2904870_2905185_-|protease	ATP-dependent Clp protease adapter ClpS	protease	A0A1B1IT64	uncultured_Mediterranean_phage	43.8	1.2e-10
>prophage 20
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	2911415	2970748	4109951	transposase	Vibrio_phage(20.0%)	54	NA	NA
AUL01368.1|2911415_2912366_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01369.1|2912646_2913267_+	flagellar motor protein MotA	NA	NA	NA	NA	NA
AUL01370.1|2913263_2913677_+	biopolymer transporter ExbD	NA	NA	NA	NA	NA
AUL01371.1|2913673_2914717_+	tetraacyldisaccharide 4'-kinase	NA	NA	NA	NA	NA
AUL01372.1|2914772_2914961_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01373.1|2914970_2915735_+	3-deoxy-manno-octulosonate cytidylyltransferase	NA	NA	NA	NA	NA
AUL01374.1|2915825_2916482_+	adenylate kinase	NA	NA	NA	NA	NA
AUL01375.1|2916573_2917332_+	3-hydroxyacyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUL01376.1|2917357_2918959_+	murein biosynthesis integral membrane protein MurJ	NA	NA	NA	NA	NA
AUL01377.1|2919159_2920164_+	iron dicitrate transport regulator FecR	NA	NA	NA	NA	NA
AUL01378.1|2920264_2920528_+	30S ribosomal protein S20	NA	NA	NA	NA	NA
AUL01379.1|2920645_2921422_-	2-dehydro-3-deoxyglucarate aldolase	NA	NA	NA	NA	NA
AUL01380.1|2922012_2922963_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01381.1|2925346_2926459_-	malate dehydrogenase	NA	NA	NA	NA	NA
AUL01382.1|2926515_2927466_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01383.1|2927673_2927895_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01384.1|2928108_2929515_-	threonine synthase	NA	NA	NA	NA	NA
AUL01385.1|2929511_2930816_-	homoserine dehydrogenase	NA	NA	NA	NA	NA
AUL01386.1|2930812_2932000_-	alanine transaminase	NA	NA	NA	NA	NA
AUL01387.1|2932216_2932669_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01388.1|2932671_2933136_+	peroxiredoxin	NA	NA	NA	NA	NA
AUL01389.1|2933215_2934895_+	phosphate starvation-inducible protein PhoH	NA	A0A2I7SAD7	Vibrio_phage	36.7	7.3e-70
AUL01390.1|2934999_2935977_+	4-hydroxythreonine-4-phosphate dehydrogenase PdxA	NA	NA	NA	NA	NA
AUL01391.1|2936056_2937025_+	bile acid:sodium symporter	NA	NA	NA	NA	NA
AUL01392.1|2937045_2938419_-	replicative DNA helicase	NA	C7BGG1	Burkholderia_phage	58.2	4.0e-135
AUL01393.1|2938415_2939252_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01394.1|2939368_2939824_-	50S ribosomal protein L9	NA	NA	NA	NA	NA
AUL01395.1|2939839_2940112_-	30S ribosomal protein S18	NA	NA	NA	NA	NA
AUL01396.1|2940204_2940528_-	primosomal replication protein N	NA	NA	NA	NA	NA
AUL01397.1|2940575_2940956_-	30S ribosomal protein S6	NA	NA	NA	NA	NA
AUL01398.1|2941175_2941973_-	GTP cyclohydrolase	NA	NA	NA	NA	NA
AUL01399.1|2942129_2943992_-	1-deoxy-D-xylulose-5-phosphate synthase	NA	NA	NA	NA	NA
AUL01400.1|2944041_2944953_-	geranyl transferase	NA	NA	NA	NA	NA
AUL01401.1|2944957_2945224_-	exodeoxyribonuclease VII small subunit	NA	NA	NA	NA	NA
AUL02545.1|2945310_2946141_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUL01402.1|2946315_2947281_+	MFS transporter	NA	NA	NA	NA	NA
AUL01403.1|2947451_2948462_+	hypothetical protein	NA	A0A0F6TJ51	Escherichia_coli_O157_typing_phage	24.6	3.6e-16
AUL01404.1|2948609_2949761_+	Rieske (2Fe-2S) protein	NA	NA	NA	NA	NA
AUL01405.1|2949844_2950708_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01406.1|2950903_2952376_-	magnesium transporter	NA	NA	NA	NA	NA
AUL01407.1|2952386_2952797_-	acyl-CoA thioesterase	NA	NA	NA	NA	NA
AUL01408.1|2952860_2953907_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01409.1|2954013_2954892_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL01410.1|2954905_2956102_-	amidohydrolase	NA	NA	NA	NA	NA
AUL01411.1|2956163_2957855_+	long-chain fatty acid--CoA ligase	NA	A0A2H4PQU7	Staphylococcus_phage	28.1	9.4e-33
AUL01412.1|2957851_2958754_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01413.1|2958922_2959819_-	inositol monophosphatase	NA	NA	NA	NA	NA
AUL01414.1|2962096_2964322_+	glycosyl hydrolase	NA	NA	NA	NA	NA
AUL01415.1|2964486_2965575_+	phosphate ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	36.4	8.7e-32
AUL01416.1|2965531_2966185_+	DL-methionine transporter permease subunit	NA	NA	NA	NA	NA
AUL01417.1|2966232_2967030_+	metal ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL01418.1|2967609_2968512_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01419.1|2968592_2969741_+	alcohol dehydrogenase	NA	NA	NA	NA	NA
AUL01420.1|2969797_2970748_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 21
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	2987742	3033129	4109951	transposase,tRNA	Ostreococcus_lucimarinus_virus(16.67%)	41	NA	NA
AUL01436.1|2987742_2988645_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01437.1|2988796_2989417_-	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUL02548.1|2989520_2990261_+	oxidoreductase	NA	NA	NA	NA	NA
AUL01438.1|2991395_2992520_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01439.1|2992565_2992934_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01440.1|2993175_2994078_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01441.1|2995161_2995704_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01442.1|2996089_2997040_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01443.1|2997036_2997945_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL01444.1|2998071_2998908_+	3-methyl-2-oxobutanoate hydroxymethyltransferase	NA	A0A0P0BXC9	Ostreococcus_lucimarinus_virus	33.3	1.6e-33
AUL01445.1|2999420_3000530_+	porin	NA	NA	NA	NA	NA
AUL01446.1|3000591_3001494_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01447.1|3001734_3002517_-	short-chain dehydrogenase	NA	NA	NA	NA	NA
AUL01448.1|3002530_3003295_-	short-chain dehydrogenase	NA	A0A0M4JSW6	Mollivirus	26.5	3.1e-12
AUL02549.1|3003307_3004654_-	MFS transporter	NA	NA	NA	NA	NA
AUL01449.1|3004679_3005609_-	acetylxylan esterase	NA	NA	NA	NA	NA
AUL01450.1|3005724_3006630_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL01451.1|3006647_3007847_-	aromatic amino acid aminotransferase	NA	NA	NA	NA	NA
AUL01452.1|3007919_3008612_-	hydrolase	NA	A0A1D6Y7U0	Golden_Marseillevirus	29.9	4.7e-07
AUL01453.1|3008660_3011087_-	copper-translocating P-type ATPase	NA	A0A218MNH6	uncultured_virus	33.8	1.2e-86
AUL01454.1|3011131_3012082_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01455.1|3012298_3012667_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01456.1|3012953_3013880_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01457.1|3013923_3014934_+	zinc-binding dehydrogenase	NA	NA	NA	NA	NA
AUL01458.1|3014930_3015365_+	thioesterase	NA	NA	NA	NA	NA
AUL01459.1|3016490_3017279_+	ABC transporter	NA	G3M9Y6	Bacillus_virus	40.0	1.1e-33
AUL01460.1|3017288_3018071_+	ABC transporter permease	NA	NA	NA	NA	NA
AUL01461.1|3018074_3019166_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01462.1|3019271_3020747_+	acid--CoA ligase	NA	Q75ZG1	Hepacivirus	25.6	3.0e-35
AUL01463.1|3020888_3021437_+	cysteine dioxygenase	NA	NA	NA	NA	NA
AUL01464.1|3021452_3021914_-	transcriptional regulator	NA	NA	NA	NA	NA
AUL01465.1|3022014_3023004_-	MFS transporter	NA	NA	NA	NA	NA
AUL01466.1|3023302_3024004_+	riboflavin synthase subunit alpha	NA	NA	NA	NA	NA
AUL01467.1|3024042_3025416_-	amidase	NA	NA	NA	NA	NA
AUL01468.1|3027627_3028530_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL01469.1|3028477_3029698_-	MFS transporter	NA	NA	NA	NA	NA
AUL01470.1|3029694_3030204_-|tRNA	tRNA-specific adenosine deaminase	tRNA	NA	NA	NA	NA
AUL01471.1|3030193_3030889_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01472.1|3030959_3031829_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL01473.1|3031839_3032115_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01474.1|3032178_3033129_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 22
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	3187053	3247984	4109951	transposase	Xanthomonas_phage(50.0%)	49	NA	NA
AUL01597.1|3187053_3187956_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01598.1|3188054_3189005_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01599.1|3189013_3189562_+	phospholipid:lipid A palmitoyltransferase	NA	NA	NA	NA	NA
AUL01600.1|3189558_3190167_-	gamma-glutamylcyclotransferase	NA	NA	NA	NA	NA
AUL02558.1|3190349_3190808_-	transcriptional regulator	NA	NA	NA	NA	NA
AUL01601.1|3190826_3192083_-	amino acid dehydrogenase	NA	NA	NA	NA	NA
AUL01602.1|3192138_3192951_-	oxidoreductase	NA	NA	NA	NA	NA
AUL01603.1|3193065_3193620_+	cysteine dioxygenase	NA	NA	NA	NA	NA
AUL01604.1|3193629_3194619_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01605.1|3194798_3195518_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01606.1|3195534_3198270_-	preprotein translocase subunit SecA	NA	NA	NA	NA	NA
AUL02559.1|3198449_3199436_-	peptidase M23	NA	A0A292GJG6	Xanthomonas_phage	51.8	3.4e-27
AUL01607.1|3199564_3199972_+	flagellar hook-length control protein FliK	NA	NA	NA	NA	NA
AUL01608.1|3200083_3201007_-	UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase	NA	NA	NA	NA	NA
AUL01609.1|3201235_3202420_-	cell division protein FtsZ	NA	NA	NA	NA	NA
AUL01610.1|3202608_3203835_-	cell division protein FtsA	NA	NA	NA	NA	NA
AUL01611.1|3203839_3204661_-	cell division protein FtsQ	NA	NA	NA	NA	NA
AUL01612.1|3204673_3205624_-	D-alanine--D-alanine ligase	NA	NA	NA	NA	NA
AUL01613.1|3205620_3207027_-	UDP-N-acetylmuramate--L-alanine ligase	NA	NA	NA	NA	NA
AUL01614.1|3207023_3208097_-	undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase	NA	NA	NA	NA	NA
AUL01615.1|3208093_3209287_-	putative lipid II flippase FtsW	NA	NA	NA	NA	NA
AUL01616.1|3209283_3210816_-	UDP-N-acetylmuramoylalanine--D-glutamate ligase	NA	NA	NA	NA	NA
AUL01617.1|3210812_3211982_-	phospho-N-acetylmuramoyl-pentapeptide- transferase	NA	NA	NA	NA	NA
AUL01618.1|3211971_3214809_-	UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D- alanine ligase	NA	NA	NA	NA	NA
AUL01619.1|3214805_3216536_-	cell division protein	NA	NA	NA	NA	NA
AUL01620.1|3216532_3216811_-	cell division protein FtsL	NA	NA	NA	NA	NA
AUL01621.1|3216810_3217905_-	16S rRNA (cytosine(1402)-N(4))-methyltransferase	NA	NA	NA	NA	NA
AUL02560.1|3217913_3218342_-	cell division/cell wall cluster transcriptional repressor MraZ	NA	NA	NA	NA	NA
AUL01622.1|3219144_3220953_+	ABC transporter ATP-binding protein	NA	A0A1B0RXA0	Streptococcus_phage	28.6	1.6e-43
AUL01623.1|3220992_3222072_-	dihydroorotase	NA	NA	NA	NA	NA
AUL01624.1|3222068_3223262_-	peptidase M20	NA	NA	NA	NA	NA
AUL01625.1|3223411_3223690_+	DNA topoisomerase III	NA	NA	NA	NA	NA
AUL01626.1|3224018_3224384_-	hypothetical protein	NA	NA	NA	NA	NA
AUL02561.1|3231134_3231611_-	AsnC family transcriptional regulator	NA	NA	NA	NA	NA
AUL01627.1|3231763_3232876_+	4-hydroxyphenylpyruvate dioxygenase	NA	NA	NA	NA	NA
AUL01628.1|3232943_3233504_-	peptide-methionine (S)-S-oxide reductase	NA	NA	NA	NA	NA
AUL01629.1|3233527_3233860_-	cytochrome C	NA	NA	NA	NA	NA
AUL01630.1|3233843_3235532_-	dihydroxy-acid dehydratase	NA	NA	NA	NA	NA
AUL01631.1|3235651_3236440_+	prolipoprotein diacylglyceryl transferase	NA	NA	NA	NA	NA
AUL01632.1|3237146_3238097_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01633.1|3238541_3238853_-	cell division protein ZapA	NA	NA	NA	NA	NA
AUL01634.1|3238852_3239383_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01635.1|3239545_3240496_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01636.1|3240785_3241250_+	tricarboxylate transporter	NA	NA	NA	NA	NA
AUL01637.1|3241264_3242770_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01638.1|3243026_3244631_+	gamma-glutamyltransferase	NA	NA	NA	NA	NA
AUL01639.1|3244686_3245592_+	oxidoreductase	NA	NA	NA	NA	NA
AUL01640.1|3246032_3246935_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01641.1|3247081_3247984_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 23
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	3271081	3334044	4109951	transposase,tRNA,protease,integrase	Tupanvirus(11.11%)	45	3263151:3263169	3335905:3335923
3263151:3263169	attL	GGCCAGCGCGCGGGCGCGC	NA	NA	NA	NA
AUL01666.1|3271081_3271984_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01667.1|3272048_3273020_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL01668.1|3273083_3274103_-	acetylpolyamine amidohydrolase	NA	A0A2K9L473	Tupanvirus	31.7	3.4e-22
AUL01669.1|3274104_3275445_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL02563.1|3275755_3276436_-	5-formyltetrahydrofolate cyclo-ligase	NA	NA	NA	NA	NA
AUL02564.1|3276511_3278575_+	lytic transglycosylase	NA	A0A0S2SXL7	Bacillus_phage	36.6	5.3e-14
AUL01670.1|3278571_3279666_+|tRNA	CCA tRNA nucleotidyltransferase	tRNA	A0A0F6YPT7	Sinorhizobium_phage	50.5	2.4e-50
AUL01671.1|3279680_3280871_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01672.1|3280959_3282648_-	RNA helicase	NA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	32.9	1.6e-48
AUL01673.1|3282922_3283675_-	uracil-DNA glycosylase	NA	A0A1Y0B680	Bovine_alphaherpesvirus	47.5	2.5e-46
AUL01674.1|3284049_3284763_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL02565.1|3285075_3286554_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01675.1|3286560_3287670_-	molybdenum ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	34.5	7.5e-23
AUL01676.1|3287681_3288362_-	molybdenum ABC transporter permease subunit	NA	NA	NA	NA	NA
AUL01677.1|3288383_3289139_-	molybdate ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL01678.1|3289274_3290177_-	hydrolase	NA	NA	NA	NA	NA
AUL01679.1|3290246_3290828_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01680.1|3290920_3291043_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01681.1|3291088_3291388_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01682.1|3291539_3292019_-	hypothetical protein	NA	NA	NA	NA	NA
AUL02566.1|3292034_3292400_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01683.1|3294171_3294600_-	AsnC family transcriptional regulator	NA	NA	NA	NA	NA
AUL01684.1|3294690_3295641_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01685.1|3296168_3296942_-	molybdate ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL01686.1|3297074_3298085_-	LacI family transcriptional regulator	NA	NA	NA	NA	NA
AUL01687.1|3298236_3299892_-	gamma-glutamyltransferase	NA	NA	NA	NA	NA
AUL01688.1|3299946_3300288_-	cupin	NA	NA	NA	NA	NA
AUL01689.1|3300301_3301741_-	amine oxidase	NA	NA	NA	NA	NA
AUL01690.1|3301873_3302689_-	MerR family transcriptional regulator	NA	NA	NA	NA	NA
AUL01691.1|3305225_3306167_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01692.1|3306393_3307134_+	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUL01693.1|3307219_3308122_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01694.1|3309611_3311183_-	transcriptional regulator	NA	NA	NA	NA	NA
AUL01695.1|3313412_3315977_+	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA	NA
AUL01696.1|3318129_3318414_-	hypothetical protein	NA	A0A1V0SIN4	Klosneuvirus	34.1	6.8e-05
AUL01697.1|3318495_3319407_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01698.1|3319476_3319722_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01699.1|3319950_3320208_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01700.1|3321855_3323067_-	chromosome segregation protein SMC	NA	NA	NA	NA	NA
AUL01701.1|3323082_3326034_-	site-specific DNA-methyltransferase	NA	G8I4P9	Mycobacterium_phage	25.1	2.9e-21
AUL02567.1|3326035_3328792_-	restriction endonuclease	NA	NA	NA	NA	NA
AUL01702.1|3329302_3330349_-	cell filamentation protein Fic	NA	NA	NA	NA	NA
AUL01703.1|3330690_3331818_-|integrase	integrase	integrase	A0A1B0VMI6	Pseudomonas_phage	33.6	1.4e-48
AUL01704.1|3332097_3333189_-	redox-regulated ATPase YchF	NA	NA	NA	NA	NA
AUL01705.1|3333261_3334044_-|protease	CAAX protease	protease	NA	NA	NA	NA
3335905:3335923	attR	GGCCAGCGCGCGGGCGCGC	NA	NA	NA	NA
>prophage 24
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	3403436	3467267	4109951	transposase,tRNA	Staphylococcus_phage(12.5%)	50	NA	NA
AUL01759.1|3403436_3404339_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01760.1|3405153_3406248_-	CoA transferase	NA	NA	NA	NA	NA
AUL01761.1|3406240_3407575_-	CoA ligase	NA	NA	NA	NA	NA
AUL01762.1|3407528_3408212_-	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUL01763.1|3408237_3409401_-	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUL01764.1|3409397_3410399_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUL01765.1|3410398_3411271_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AUL01766.1|3411267_3412017_-	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	27.8	1.9e-09
AUL01767.1|3412013_3412805_-	ABC transporter ATP-binding protein	NA	A0A1M7XV31	Cedratvirus	29.4	1.7e-08
AUL01768.1|3412801_3413941_-	ABC transporter	NA	NA	NA	NA	NA
AUL01769.1|3414216_3415002_+	3-hydroxyacyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUL01770.1|3415035_3415818_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL01771.1|3415821_3416211_+	DNA-binding protein	NA	NA	NA	NA	NA
AUL01772.1|3417350_3418214_+	3-alpha,7-alpha, 12-alpha-trihydroxy-5-beta-cholest-24-enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL01773.1|3418249_3419338_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01774.1|3420637_3423616_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01775.1|3424542_3425421_+	fatty acid desaturase	NA	NA	NA	NA	NA
AUL01776.1|3425456_3425789_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01777.1|3425767_3427288_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01778.1|3427369_3428320_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01779.1|3428316_3428784_-	ribonuclease HI	NA	J9Q745	Salmonella_phage	50.7	5.6e-36
AUL01780.1|3428826_3429597_-	SAM-dependent methyltransferase	NA	NA	NA	NA	NA
AUL01781.1|3429617_3430418_+	hydroxyacylglutathione hydrolase	NA	NA	NA	NA	NA
AUL01782.1|3430428_3431838_+	lytic transglycosylase	NA	NA	NA	NA	NA
AUL01783.1|3431932_3432718_+	enoyl-[acyl-carrier-protein] reductase	NA	NA	NA	NA	NA
AUL01784.1|3432957_3433974_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUL01785.1|3434081_3434474_-	osmotically inducible protein OsmC	NA	NA	NA	NA	NA
AUL01786.1|3434611_3435292_+	hypothetical protein	NA	NA	NA	NA	NA
AUL02571.1|3435296_3436268_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL01787.1|3436363_3437266_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01788.1|3438818_3439520_+	two-component system response regulator OmpR	NA	W8CYM9	Bacillus_phage	36.6	5.6e-32
AUL01789.1|3439519_3440944_+	ATPase	NA	NA	NA	NA	NA
AUL01790.1|3440960_3442016_-	cytochrome oxidase	NA	NA	NA	NA	NA
AUL01791.1|3442012_3443353_-	cytochrome ubiquinol oxidase subunit I	NA	NA	NA	NA	NA
AUL01792.1|3443468_3445232_+|tRNA	glutamine--tRNA ligase	tRNA	A0A222YZ70	Escherichia_phage	50.0	5.0e-162
AUL01793.1|3445343_3446222_+	septum site-determining protein MinC	NA	NA	NA	NA	NA
AUL01794.1|3446334_3447150_+	septum site-determining protein MinD	NA	NA	NA	NA	NA
AUL01795.1|3447153_3447405_+	cell division topological specificity factor MinE	NA	NA	NA	NA	NA
AUL01796.1|3447489_3448506_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
AUL01797.1|3448836_3449058_-	hypothetical protein	NA	NA	NA	NA	NA
AUL02572.1|3451418_3452285_-	EamA family transporter	NA	NA	NA	NA	NA
AUL01798.1|3452833_3454042_-	ABC transporter permease	NA	NA	NA	NA	NA
AUL01799.1|3454121_3455693_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL01800.1|3455810_3456746_-	glycosyl transferase	NA	NA	NA	NA	NA
AUL01801.1|3456934_3457879_+	LysR family transcriptional regulator	NA	A0A2P0ZL89	Lactobacillus_phage	23.2	8.4e-07
AUL01802.1|3457947_3458118_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01803.1|3458446_3464164_+	excinuclease ABC subunit A	NA	A0A1B1IVR3	uncultured_Mediterranean_phage	39.5	1.0e-195
AUL01804.1|3464169_3465297_+	aminodeoxychorismate synthase, component I	NA	S4VT78	Pandoravirus	37.8	3.8e-38
AUL01805.1|3465352_3465979_+	aminotransferase	NA	NA	NA	NA	NA
AUL01806.1|3466250_3467267_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
>prophage 25
CP018039	Bordetella pertussis strain J294 chromosome, complete genome	4109951	3471681	3590575	4109951	transposase,tRNA	Acinetobacter_phage(23.53%)	106	NA	NA
AUL01810.1|3471681_3472554_-|tRNA	tRNA threonylcarbamoyladenosine dehydratase	tRNA	NA	NA	NA	NA
AUL01811.1|3472903_3474043_+	MFS transporter	NA	NA	NA	NA	NA
AUL01812.1|3474039_3474699_+	gamma-glutamylcyclotransferase	NA	NA	NA	NA	NA
AUL01813.1|3474770_3475403_+	pyridoxamine 5'-phosphate oxidase	NA	NA	NA	NA	NA
AUL01814.1|3475432_3475951_+	flavin reductase	NA	NA	NA	NA	NA
AUL01815.1|3475961_3477071_+	FAD-dependent oxidoreductase	NA	NA	NA	NA	NA
AUL01816.1|3477117_3477972_+	formyltetrahydrofolate deformylase	NA	NA	NA	NA	NA
AUL01817.1|3477973_3478876_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUL01818.1|3480098_3481049_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01819.1|3481145_3482279_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01820.1|3482315_3482564_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01821.1|3482803_3483793_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01822.1|3483968_3484757_-	indole-3-glycerol-phosphate synthase	NA	A0A0P0IR83	Acinetobacter_phage	53.0	5.1e-66
AUL01823.1|3484753_3485785_-	anthranilate phosphoribosyltransferase	NA	A0A0N7IRD9	Acinetobacter_phage	42.7	7.4e-73
AUL01824.1|3485803_3486367_-	anthranilate/aminodeoxychorismate synthase component II	NA	A0A0P0IKJ1	Acinetobacter_phage	62.1	1.1e-65
AUL01825.1|3486422_3487943_-	anthranilate synthase component I	NA	S4VT78	Pandoravirus	32.1	9.0e-43
AUL01826.1|3488206_3488911_-	phosphoglycolate phosphatase	NA	NA	NA	NA	NA
AUL01827.1|3488918_3489647_-	ribulose-phosphate 3-epimerase	NA	NA	NA	NA	NA
AUL01828.1|3489761_3490136_+	Co2+/Mg2+ efflux protein ApaG	NA	NA	NA	NA	NA
AUL01829.1|3490178_3491468_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01830.1|3491464_3492634_+	ubiquinone biosynthesis protein UbiH	NA	NA	NA	NA	NA
AUL01831.1|3492660_3493470_+	disulfide bond formation protein DsbC	NA	NA	NA	NA	NA
AUL01832.1|3493529_3494465_+	hydroxyacid dehydrogenase	NA	A0A1J0F959	Only_Syngen_Nebraska_virus	27.7	6.4e-15
AUL01833.1|3494477_3495428_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01834.1|3495526_3496489_-|tRNA	tRNA 2-thiocytidine(32) synthetase TtcA	tRNA	A0A0U2S5Z2	Escherichia_phage	64.5	4.6e-93
AUL01835.1|3496520_3496880_-	dihydroneopterin aldolase	NA	NA	NA	NA	NA
AUL01836.1|3497004_3497907_+	oxidoreductase	NA	G3MA85	Bacillus_virus	24.0	1.9e-08
AUL02574.1|3497908_3499675_-	peptidase M61	NA	NA	NA	NA	NA
AUL01837.1|3499715_3500492_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL01838.1|3501815_3502718_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01839.1|3502932_3503346_+	hypothetical protein	NA	NA	NA	NA	NA
AUL02575.1|3503617_3503938_+	ABC transporter permease	NA	NA	NA	NA	NA
AUL01840.1|3504010_3504892_+	F0F1 ATP synthase subunit A	NA	NA	NA	NA	NA
AUL01841.1|3505008_3505251_+	F0F1 ATP synthase subunit C	NA	NA	NA	NA	NA
AUL01842.1|3505388_3505859_+	F0F1 ATP synthase subunit B	NA	NA	NA	NA	NA
AUL01843.1|3505871_3506411_+	F0F1 ATP synthase subunit delta	NA	NA	NA	NA	NA
AUL01844.1|3506445_3507987_+	F0F1 ATP synthase subunit alpha	NA	NA	NA	NA	NA
AUL01845.1|3508085_3508991_+	F0F1 ATP synthase subunit gamma	NA	NA	NA	NA	NA
AUL01846.1|3509033_3510434_+	F0F1 ATP synthase subunit beta	NA	NA	NA	NA	NA
AUL01847.1|3510443_3510866_+	F0F1 ATP synthase subunit epsilon	NA	NA	NA	NA	NA
AUL02576.1|3511048_3511933_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01848.1|3512008_3513085_+	uroporphyrinogen decarboxylase	NA	NA	NA	NA	NA
AUL01849.1|3513391_3515494_+	primosomal protein N'	NA	NA	NA	NA	NA
AUL01850.1|3515536_3517606_+	ATP-dependent DNA helicase Rep	NA	A7KV33	Bacillus_phage	37.3	2.6e-101
AUL01851.1|3517704_3518655_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01852.1|3518783_3519917_-	peptidase	NA	NA	NA	NA	NA
AUL01853.1|3519960_3520866_-	alpha/beta hydrolase	NA	NA	NA	NA	NA
AUL01854.1|3522565_3523486_-	peptide ABC transporter permease	NA	NA	NA	NA	NA
AUL01855.1|3523493_3524471_-	ABC transporter permease	NA	NA	NA	NA	NA
AUL01856.1|3524529_3525489_-	succinylglutamate desuccinylase	NA	NA	NA	NA	NA
AUL01857.1|3527538_3527775_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01858.1|3527901_3528765_-	NAD(P)H-hydrate dehydratase	NA	NA	NA	NA	NA
AUL01859.1|3528853_3529675_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL01860.1|3529754_3530492_-	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL01861.1|3530488_3531481_-	2-nitropropane dioxygenase	NA	NA	NA	NA	NA
AUL02577.1|3531633_3532257_+	TetR family transcriptional regulator	NA	NA	NA	NA	NA
AUL01862.1|3532301_3533450_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUL01863.1|3535821_3536724_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01864.1|3537493_3537913_-	hypothetical protein	NA	NA	NA	NA	NA
AUL02578.1|3538122_3539064_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01865.1|3539210_3540113_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01866.1|3540409_3540907_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01867.1|3540949_3542725_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01868.1|3542732_3543599_+	copper resistance protein	NA	NA	NA	NA	NA
AUL01869.1|3543605_3544331_-	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AUL01870.1|3544500_3544731_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01871.1|3544795_3544990_+	hypothetical protein	NA	NA	NA	NA	NA
AUL01872.1|3545509_3546280_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUL01873.1|3546593_3547184_+	cysteine dioxygenase	NA	NA	NA	NA	NA
AUL01874.1|3547217_3548546_-	amidase	NA	NA	NA	NA	NA
AUL01875.1|3548620_3549766_-	transporter	NA	NA	NA	NA	NA
AUL01876.1|3549877_3550876_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01877.1|3550838_3551273_+	carbon monoxide dehydrogenase	NA	NA	NA	NA	NA
AUL01878.1|3552789_3553674_+	EamA family transporter	NA	NA	NA	NA	NA
AUL01879.1|3553670_3554876_-	cardiolipin synthase B	NA	NA	NA	NA	NA
AUL01880.1|3554872_3555733_-	endonuclease	NA	NA	NA	NA	NA
AUL01881.1|3555845_3557636_-|tRNA	aspartate--tRNA ligase	tRNA	A0A1V0SAC0	Catovirus	25.5	6.5e-08
AUL02579.1|3557676_3558321_-	hypothetical protein	NA	A0A2I7S9X1	Vibrio_phage	28.4	8.5e-11
AUL01882.1|3558342_3558651_-	FmdB family transcriptional regulator	NA	NA	NA	NA	NA
AUL02580.1|3558816_3560103_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01883.1|3564438_3565653_-	phosphoribosylglycinamide formyltransferase 2	NA	NA	NA	NA	NA
AUL01884.1|3565758_3566748_+	D-arabinose 5-phosphate isomerase	NA	A0A2P0VNK5	Tetraselmis_virus	37.7	4.3e-38
AUL01885.1|3566744_3567353_+	phenylphosphate carboxylase subunit delta	NA	E3T535	Cafeteria_roenbergensis_virus	26.1	5.2e-10
AUL01886.1|3567365_3567995_+	LPS export ABC transporter periplasmic protein LptC	NA	NA	NA	NA	NA
AUL01887.1|3567991_3568612_+	lipopolysaccharide transport periplasmic protein LptA	NA	NA	NA	NA	NA
AUL01888.1|3568643_3569435_+	LPS export ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	27.4	9.5e-20
AUL01889.1|3569788_3570010_+	ribosomal subunit interface protein	NA	NA	NA	NA	NA
AUL01890.1|3570286_3570742_+	PTS sugar transporter subunit IIA	NA	NA	NA	NA	NA
AUL01891.1|3570760_3571687_+	HPr kinase/phosphorylase	NA	NA	NA	NA	NA
AUL01892.1|3571740_3573027_-	alcohol dehydrogenase	NA	NA	NA	NA	NA
AUL01893.1|3573957_3574830_+	RNase adaptor protein RapZ	NA	A0A1P8D5W0	Corynebacterium_phage	34.5	2.4e-08
AUL01894.1|3574826_3575777_+	hypothetical protein	NA	F5B3X9	Synechococcus_phage	47.2	6.9e-17
AUL01895.1|3575923_3576826_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01896.1|3576930_3577161_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01897.1|3577287_3577677_-	hypothetical protein	NA	NA	NA	NA	NA
AUL01898.1|3577693_3580075_-	dehydrogenase	NA	NA	NA	NA	NA
AUL01899.1|3580067_3580577_-	4-hydroxybenzoyl-CoA reductase subunit gamma	NA	A0A0P0IVM8	Acinetobacter_phage	37.3	8.8e-19
AUL01900.1|3581459_3582455_-	4,5-dihydroxyphthalate decarboxylase	NA	NA	NA	NA	NA
AUL01901.1|3582473_3583466_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUL01902.1|3583706_3584267_-	3-octaprenyl-4-hydroxybenzoate carboxy-lyase	NA	NA	NA	NA	NA
AUL01903.1|3584271_3584598_-	monothiol glutaredoxin, Grx4 family	NA	NA	NA	NA	NA
AUL01904.1|3584634_3585447_-	protein-(glutamine-N5) methyltransferase, release factor-specific	NA	NA	NA	NA	NA
AUL01905.1|3585457_3586540_-	peptide chain release factor 1	NA	A0A0S4KWG0	Pseudomonas_phage	40.7	3.3e-07
AUL01906.1|3586626_3587901_-|tRNA	glutamyl-tRNA reductase	tRNA	NA	NA	NA	NA
AUL01907.1|3588623_3589574_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUL01908.1|3589672_3590575_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
