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
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	12608	71196	4133344	transposase,tRNA	uncultured_Mediterranean_phage(20.0%)	49	NA	NA
SQG59371.1|12608_13559_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG59372.1|13555_13900_-	isovaleryl-CoA dehydrogenase	NA	NA	NA	NA	NA
SQG59373.1|14113_14488_-	merR family transcriptional regulator	NA	NA	NA	NA	NA
SQG59374.1|14562_15621_+	metallo-beta-lactamase family protein	NA	NA	NA	NA	NA
SQG59375.1|15644_16595_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG59376.1|16658_17531_+	isovaleryl-CoA dehydrogenase	NA	NA	NA	NA	NA
SQG59377.1|17569_18814_+	isocitrate dehydrogenase kinase/phosphatase	NA	NA	NA	NA	NA
SQG59378.1|18847_19429_+	isocitrate dehydrogenase kinase/phosphatase	NA	NA	NA	NA	NA
SQG59379.1|19476_20646_+	acetyl-CoA acetyltransferase	NA	NA	NA	NA	NA
SQG59380.1|20746_22354_+	carboxyltransferase subunit of acetyl-CoA carboxylase	NA	A0A1B2ITV7	Pike_perch_iridovirus	57.3	5.4e-22
SQG59381.1|22400_24422_+	biotin carboxylase	NA	NA	NA	NA	NA
SQG59382.1|24450_24696_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG59383.1|24709_25900_-	succinylornithine transaminase	NA	A0A1V0SKB7	Klosneuvirus	26.7	4.4e-21
SQG59384.1|26095_27061_+	lipoprotein	NA	NA	NA	NA	NA
SQG59385.1|27083_28223_-	low-specificity D-threonine aldolase	NA	NA	NA	NA	NA
SQG59386.1|28434_29397_+	TRAP transporter solute receptor TAXI family protein	NA	NA	NA	NA	NA
SQG59387.1|29520_31545_+	TRAP transporter, 4TM/12TM fusion protein	NA	NA	NA	NA	NA
SQG59388.1|31741_33985_+	heme receptor	NA	NA	NA	NA	NA
SQG59389.1|34263_34722_+	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG59390.1|35138_35663_+|tRNA	aminoacyl-tRNA synthetase	tRNA	NA	NA	NA	NA
SQG59391.1|35649_38271_-	membrane protein	NA	NA	NA	NA	NA
SQG59392.1|38334_40962_+	DNA topoisomerase III	NA	A0A0G2YA05	Acanthamoeba_polyphaga_mimivirus	25.4	6.1e-23
SQG59393.1|41113_42178_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
SQG59394.1|42177_42948_+	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	33.9	8.1e-24
SQG59395.1|42956_43790_+	ABC transporter permease	NA	NA	NA	NA	NA
SQG59396.1|43802_44582_+	gluconate 5-dehydrogenase	NA	NA	NA	NA	NA
SQG59397.1|44655_46089_+	aldehyde dehydrogenase	NA	NA	NA	NA	NA
SQG59398.1|46116_46875_+	alcohol dehydrogenase	NA	NA	NA	NA	NA
SQG59399.1|46930_48772_-	acetolactate synthase large subunit	NA	E4WLQ6	Ostreococcus_tauri_virus	30.4	2.2e-59
SQG59400.1|48874_49351_+	AsnC family transcriptional regulator	NA	NA	NA	NA	NA
SQG59401.1|49367_50288_-	membrane protein	NA	NA	NA	NA	NA
SQG59402.1|50394_50895_+	Predicted restriction endonuclease	NA	NA	NA	NA	NA
SQG59403.1|51268_51961_+	3,4-dihydroxy-2-butanone 4-phosphate synthase	NA	A0A2H4PQS2	Staphylococcus_phage	41.6	6.3e-36
SQG59404.1|52269_53220_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG59405.1|53216_56990_-	B12-dependent methionine synthase	NA	A0A140XBC7	Dickeya_phage	50.8	8.6e-10
SQG59406.1|57326_59216_+	outer membrane protein	NA	A0A0P0I887	Acinetobacter_phage	30.8	7.6e-07
SQG59407.1|59227_60121_+	periplasmic binding protein	NA	NA	NA	NA	NA
SQG59408.1|60224_61022_+	thiazole biosynthesis protein	NA	NA	NA	NA	NA
SQG59409.1|61018_61870_+	phosphomethylpyrimidine kinase	NA	NA	NA	NA	NA
SQG59410.1|61931_62612_+	protein-L-isoaspartate O-methyltransferase	NA	A0A1B1IU40	uncultured_Mediterranean_phage	34.8	3.5e-15
SQG59411.1|62615_62975_+	outer membrane protein	NA	NA	NA	NA	NA
SQG59412.1|62999_63935_+	outer membrane protein	NA	NA	NA	NA	NA
SQG59413.1|63955_64444_-	cytidylyltransferase	NA	A0A1B1IUK5	uncultured_Mediterranean_phage	34.1	1.6e-17
SQG59414.1|64812_65742_+|transposase	transposase for IS1663	transposase	NA	NA	NA	NA
SQG59415.1|65933_67037_+	membrane protein	NA	NA	NA	NA	NA
SQG59416.1|67123_67888_+	L-proline 4-hydroxylase	NA	NA	NA	NA	NA
SQG59417.1|68009_69200_+	potassium channel protein	NA	NA	NA	NA	NA
SQG59418.1|69196_70147_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG59419.1|70245_71196_-|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 2
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	232934	264561	4133344	transposase,tRNA	Moraxella_phage(50.0%)	33	NA	NA
SQG59589.1|232934_233390_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG59590.1|233608_234589_+	putattive exported protein	NA	NA	NA	NA	NA
SQG59591.1|234855_235665_+	pertussis toxin subunit 1	NA	NA	NA	NA	NA
SQG59592.1|235704_236385_+	pertussis toxin subunit 2	NA	NA	NA	NA	NA
SQG59593.1|236378_236837_+	pertussis toxin subunit 4	NA	NA	NA	NA	NA
SQG59594.1|236848_237211_+	pertussis toxin subunit 5	NA	NA	NA	NA	NA
SQG59595.1|237293_237977_+	toxin subunit 3	NA	NA	NA	NA	NA
SQG59596.1|238032_238341_+	pertussis toxin transport protein	NA	NA	NA	NA	NA
SQG59597.1|238359_238674_+	pertussis toxin transport protein	NA	NA	NA	NA	NA
SQG59598.1|238670_241145_+	secretion system protein	NA	NA	NA	NA	NA
SQG59599.1|241152_242544_+	TrbL/VirB6 plasmid conjugal transfer protein	NA	NA	NA	NA	NA
SQG59600.1|242540_242726_+	secretion system protein	NA	NA	NA	NA	NA
SQG59601.1|242704_243406_+	secretion system protein	NA	NA	NA	NA	NA
SQG59602.1|243402_244224_+	secretion system protein	NA	NA	NA	NA	NA
SQG59603.1|244204_245329_+	secretion system protein	NA	NA	NA	NA	NA
SQG59604.1|245321_246341_+	secretion system protein	NA	NA	NA	NA	NA
SQG59605.1|246546_247572_-	regulatory protein	NA	NA	NA	NA	NA
SQG59606.1|247579_248473_+	AraC family regulatory protein	NA	NA	NA	NA	NA
SQG59607.1|248555_248930_+	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG59608.1|248907_250317_+	membrane protein	NA	NA	NA	NA	NA
SQG59609.1|250309_251692_+|tRNA	tRNA modification GTPase TrmE	tRNA	A0A0R6PHS5	Moraxella_phage	38.9	9.9e-57
SQG59610.1|252026_253631_+	extracellular solute-binding protein	NA	NA	NA	NA	NA
SQG59611.1|253753_254680_+	transport system permease	NA	NA	NA	NA	NA
SQG59612.1|254690_255617_+	transport system permease	NA	NA	NA	NA	NA
SQG59613.1|255624_256011_+	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
SQG59614.1|256007_256958_-|transposase	IS1002 transposase	transposase	NA	NA	NA	NA
SQG59615.1|257044_257995_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG59616.1|258164_259391_+	exodeoxyribonuclease V subunit gamma, fragment	NA	NA	NA	NA	NA
SQG59617.1|259590_260457_+	Predicted ATPase (AAA+ superfamily)	NA	NA	NA	NA	NA
SQG59618.1|260449_261412_+	thiamine-phosphate pyrophosphorylase	NA	A0A221LFJ1	Barns_Ness_breadcrumb_sponge_sobemo-like_virus	53.4	1.9e-06
SQG59619.1|261512_262463_+|transposase	IS1002 transposase	transposase	NA	NA	NA	NA
SQG59620.1|262561_263512_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG59621.1|263610_264561_+|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 3
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	362155	394370	4133344	transposase,tRNA	Synechococcus_phage(50.0%)	37	NA	NA
SQG59705.1|362155_363106_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG59706.1|363187_363487_-	acyl-CoA transferase	NA	NA	NA	NA	NA
SQG59707.1|363547_363976_-	Predicted nucleic-acid-binding protein containing a Zn-ribbon	NA	NA	NA	NA	NA
SQG59708.1|364014_365226_-	putative thiolase	NA	NA	NA	NA	NA
SQG59709.1|365237_365735_-	MaoC family protein	NA	NA	NA	NA	NA
SQG59710.1|365942_366878_-	putative transcriptional regulator	NA	NA	NA	NA	NA
SQG59711.1|367051_367879_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
SQG59712.1|367921_369343_+	catabolic enzyme	NA	NA	NA	NA	NA
SQG59713.1|369498_370449_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG59714.1|370547_371498_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG59715.1|371494_372685_-	transporter	NA	NA	NA	NA	NA
SQG59716.1|372871_373846_+|tRNA	glycyl-tRNA synthetase subunit alpha	tRNA	NA	NA	NA	NA
SQG59717.1|373847_375986_+|tRNA	glycyl-tRNA synthetase subunit beta	tRNA	NA	NA	NA	NA
SQG59718.1|375982_376522_+	haloacid dehalogenase-like hydrolase	NA	NA	NA	NA	NA
SQG59719.1|376525_377254_+	acyltransferase	NA	NA	NA	NA	NA
SQG59720.1|377240_378134_+	Protein of uncharacterised function DUF45	NA	NA	NA	NA	NA
SQG59721.1|378204_378600_+	lactoylglutathione lyase	NA	NA	NA	NA	NA
SQG59722.1|378609_379140_+	peptide deformylase	NA	E3SLL2	Synechococcus_phage	35.4	3.7e-12
SQG59723.1|379268_379568_-	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
SQG59724.1|379585_380536_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG59725.1|380526_380817_-	lipase	NA	NA	NA	NA	NA
SQG59726.1|381146_381671_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG59727.1|381642_381879_-	transcriptional regulator	NA	NA	NA	NA	NA
SQG59728.1|382006_382900_+	auxin efflux carrier	NA	NA	NA	NA	NA
SQG59729.1|382903_383353_-	malate/L-lactate dehydrogenase	NA	NA	NA	NA	NA
SQG59730.1|384069_385317_+	homoserine O-acetyltransferase	NA	NA	NA	NA	NA
SQG59731.1|385313_385928_+	methionine biosynthesis protein MetW	NA	NA	NA	NA	NA
SQG59732.1|386063_387014_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG59733.1|387101_388313_+	integral membrane signal transducer protein	NA	NA	NA	NA	NA
SQG59734.1|388424_389150_+	outer membrane porin protein	NA	NA	NA	NA	NA
SQG59735.1|389172_389487_+	outer membrane porin protein	NA	NA	NA	NA	NA
SQG59736.1|389544_390279_-	aspartate/glutamate racemase	NA	NA	NA	NA	NA
SQG59737.1|390284_390875_-	glutamate/aspartate transport ATP-binding protein	NA	G9BWD6	Planktothrix_phage	33.6	3.2e-20
SQG59738.1|390899_391589_-	glutamate/aspartate transport system permease	NA	NA	NA	NA	NA
SQG59739.1|391585_392347_-	glutamate/aspartate transport system permease	NA	NA	NA	NA	NA
SQG59740.1|392426_393326_-	amino acid ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
SQG59741.1|393419_394370_-|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 4
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	399395	451883	4133344	transposase,protease,tRNA	Escherichia_phage(22.22%)	54	NA	NA
SQG59747.1|399395_399977_-|protease	intracellular protease, PfpI family	protease	NA	NA	NA	NA
SQG59748.1|400410_401469_-	oxidoreductase	NA	NA	NA	NA	NA
SQG59749.1|401503_402775_-	integral membrane protein	NA	NA	NA	NA	NA
SQG59750.1|403404_404586_-	substrate-binding protein	NA	NA	NA	NA	NA
SQG59751.1|405007_405958_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG59752.1|406063_406366_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG59753.1|407558_409466_+	heat shock protein	NA	A0A1B1ISV4	uncultured_Mediterranean_phage	37.2	1.1e-117
SQG59754.1|409627_410248_-	glutathione S-transferase	NA	NA	NA	NA	NA
SQG59755.1|410279_410861_-	N-acetylmuramoyl-L-alanine amidase	NA	A0A1W6DX33	Sphingobium_phage	54.3	1.7e-05
SQG59756.1|410949_411201_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG59757.1|411202_412045_-	cytochrome assembly protein	NA	NA	NA	NA	NA
SQG59758.1|412150_413560_+	signal recognition particle protein	NA	NA	NA	NA	NA
SQG59759.1|413556_414507_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG59760.1|414635_415526_+|transposase	IS1002 transposase	transposase	NA	NA	NA	NA
SQG59761.1|415522_417397_-	lipopolysaccharide biosynthesis protein	NA	A0A2P1ELS8	Moumouvirus	26.9	2.0e-23
SQG59762.1|417445_418120_-	membrane protein	NA	NA	NA	NA	NA
SQG59763.1|418086_418758_-	membrane protein	NA	NA	NA	NA	NA
SQG59764.1|418744_419449_-	lipopolysaccharide biosynthesis protein	NA	NA	NA	NA	NA
SQG59765.1|419445_420504_-	glycosyl transferase family protein	NA	NA	NA	NA	NA
SQG59766.1|420813_421407_-	sugar transferase	NA	NA	NA	NA	NA
SQG59767.1|421403_422591_-	lipopolysaccharide biosynthesis protein	NA	NA	NA	NA	NA
SQG59768.1|422653_423913_-	glycosyl transferase family protein	NA	NA	NA	NA	NA
SQG59769.1|423936_425025_-	UDP-N-acetylglucosamine 2-epimerase	NA	A0A0N9R0B2	Chrysochromulina_ericina_virus	36.3	4.8e-46
SQG59770.1|425032_426133_-	lipopolysaccharide biosynthesis protein	NA	A0A2K9L0G1	Tupanvirus	29.7	3.3e-31
SQG59771.1|426136_426712_-	acetyltransferase	NA	NA	NA	NA	NA
SQG59772.1|426715_427768_-	oxidoreductase	NA	NA	NA	NA	NA
SQG59773.1|427898_428906_+	heptosyltransferase	NA	NA	NA	NA	NA
SQG59774.1|428907_430194_+	3-deoxy-D-manno-octulosonic-acid transferase	NA	NA	NA	NA	NA
SQG59775.1|430210_430366_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG59776.1|430390_431194_-	Bvg accessory factor	NA	NA	NA	NA	NA
SQG59777.1|431190_432033_-	biotin protein ligase	NA	NA	NA	NA	NA
SQG59778.1|432131_433262_+	integral membrane protein	NA	NA	NA	NA	NA
SQG59779.1|433261_434101_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	32.4	9.1e-21
SQG59780.1|434254_434479_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG59781.1|434811_435033_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG59782.1|435039_435636_+	ABC-type uncharacterized transport system, auxiliary component	NA	NA	NA	NA	NA
SQG59783.1|435665_436319_+	Predicted hydrolase of the alpha/beta-hydrolase fold	NA	NA	NA	NA	NA
SQG59784.1|436529_437708_+	penicillin-binding protein	NA	B6DZZ7	Stx2-converting_phage	40.5	5.8e-66
SQG59785.1|437788_438655_+	class IV aminotransferase	NA	NA	NA	NA	NA
SQG59786.1|438730_439006_+	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG59787.1|439013_439676_+	lipoate-protein ligase B	NA	NA	NA	NA	NA
SQG59788.1|439737_440739_+	lipoic acid synthetase	NA	NA	NA	NA	NA
SQG59789.1|440753_441302_-	dTDP-4-dehydrorhamnose 3,5-epimerase	NA	A0A291LA62	Escherichia_phage	53.4	3.7e-47
SQG59790.1|441359_442256_-	dTDP-4-dehydrorhamnose reductase	NA	NA	NA	NA	NA
SQG59791.1|442252_443314_-	dTDP-glucose 4,6-dehydratase	NA	A0A1D7XFE8	Escherichia_phage	44.8	1.6e-78
SQG59792.1|443349_444300_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG59793.1|444398_444938_-	amino acid efflux protein	NA	NA	NA	NA	NA
SQG59794.1|445199_446393_+	cystathionine beta-lyase	NA	NA	NA	NA	NA
SQG59795.1|446474_447104_-	thiol:disulfide interchange protein DsbA	NA	NA	NA	NA	NA
SQG59796.1|447165_447849_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG59797.1|447858_449541_-|tRNA	arginyl-tRNA synthetase	tRNA	NA	NA	NA	NA
SQG59798.1|449828_450176_+	Domain of uncharacterised function (DUF1840)	NA	NA	NA	NA	NA
SQG59799.1|450266_450584_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG59800.1|450953_451883_+|transposase	transposase for IS1663	transposase	NA	NA	NA	NA
>prophage 5
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	500816	561339	4133344	transposase,tRNA,protease	Planktothrix_phage(11.11%)	54	NA	NA
SQG59849.1|500816_501767_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG59850.1|501953_503204_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	33.7	5.1e-20
SQG59851.1|503210_504113_-	membrane protein	NA	NA	NA	NA	NA
SQG59852.1|504090_504720_-	LemA protein	NA	NA	NA	NA	NA
SQG59853.1|505002_506433_+	ATP-dependent RNA helicase	NA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	29.8	5.8e-44
SQG59854.1|506466_507096_+	amino acid efflux protein	NA	NA	NA	NA	NA
SQG59855.1|507144_508752_+	peptide chain release factor 3	NA	A0A2K9L6L3	Tupanvirus	37.8	9.3e-14
SQG59856.1|508788_509460_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG59857.1|509541_510018_-	bacterioferritin	NA	NA	NA	NA	NA
SQG59858.1|510224_511175_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG59859.1|511171_511645_-	two-component response regulator	NA	NA	NA	NA	NA
SQG59860.1|512290_512818_+	lipoprotein	NA	NA	NA	NA	NA
SQG59861.1|512909_513725_+	lipoprotein	NA	NA	NA	NA	NA
SQG59862.1|513785_514520_+	rhodanese superfamily protein	NA	NA	NA	NA	NA
SQG59863.1|514557_516636_-|tRNA	methionyl-tRNA synthetase	tRNA	A0A1V0SHR2	Klosneuvirus	23.6	1.5e-27
SQG59864.1|516885_517158_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG59865.1|517259_518345_+	iron sulfur binding protein	NA	NA	NA	NA	NA
SQG59866.1|518348_520253_+	surface antigen	NA	NA	NA	NA	NA
SQG59867.1|520249_523936_+	Family of uncharacterised function (DUF490)	NA	NA	NA	NA	NA
SQG59868.1|523996_524560_+	deoxycytidine triphosphate deaminase	NA	S5VM63	Pseudomonas_phage	75.3	2.6e-72
SQG59869.1|524567_524990_-	PhnB protein	NA	NA	NA	NA	NA
SQG59870.1|525017_525437_-	lyase	NA	NA	NA	NA	NA
SQG59871.1|525465_525813_-	acetyltransferase	NA	NA	NA	NA	NA
SQG59872.1|526086_526536_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG59873.1|526690_528961_+	orn/arg/lys decarboxylase	NA	NA	NA	NA	NA
SQG59874.1|529036_530242_+	tricarballylate dehydrogenase	NA	NA	NA	NA	NA
SQG59875.1|530340_531291_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG59876.1|531393_532029_+	superoxide dismutase	NA	Q56AR7	Bacillus_thuringiensis_phage	73.8	2.8e-83
SQG59877.1|532025_532919_+	metal transporter	NA	NA	NA	NA	NA
SQG59878.1|533313_534414_+	glycine cleavage system T protein	NA	NA	NA	NA	NA
SQG59879.1|534495_534870_+	glycine cleavage system H protein	NA	NA	NA	NA	NA
SQG59880.1|534929_537794_+	glycine cleavage system P protein	NA	E3SN07	Prochlorococcus_phage	51.4	1.2e-261
SQG59881.1|537938_538679_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
SQG59882.1|538748_539960_+	acyl-CoA transferase	NA	NA	NA	NA	NA
SQG59883.1|539991_540957_+	putattive exported protein	NA	NA	NA	NA	NA
SQG59884.1|540974_541472_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
SQG59885.1|541570_542521_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG59886.1|542677_543001_+	phosphate starvation-inducible protein	NA	NA	NA	NA	NA
SQG59887.1|543105_544146_-	Putative cyclase	NA	NA	NA	NA	NA
SQG59888.1|544151_544931_-	3-oxoadipate enol-lactone hydrolase	NA	NA	NA	NA	NA
SQG59889.1|544976_545273_-	YciI-like protein	NA	NA	NA	NA	NA
SQG59890.1|545298_545574_-	methylmuconolactone isomerase	NA	NA	NA	NA	NA
SQG59891.1|545630_546275_-	3-oxoadipate CoA-transferase subunit B	NA	NA	NA	NA	NA
SQG59892.1|546274_546961_-	3-oxoadipate CoA-transferase subunit A	NA	NA	NA	NA	NA
SQG59893.1|547159_547942_+	transcriptional regulator	NA	NA	NA	NA	NA
SQG59894.1|547992_548718_-	short-chain dehydrogenase	NA	NA	NA	NA	NA
SQG59895.1|548749_550099_-	short-chain fatty acids transporter	NA	NA	NA	NA	NA
SQG59896.1|550210_551143_-	3-hydroxybutyryl-CoA dehydrogenase	NA	NA	NA	NA	NA
SQG59897.1|551600_554396_-|protease	autotransporter subtilisin-like protease	protease	NA	NA	NA	NA
SQG59898.1|554989_557833_-	phosphoenolpyruvate carboxylase	NA	NA	NA	NA	NA
SQG59899.1|558003_558723_+	exsB protein	NA	A0A0A0RPC6	Escherichia_phage	43.9	8.0e-50
SQG59900.1|558761_559310_-	acetyltransferase	NA	A0A2H4J136	uncultured_Caudovirales_phage	41.7	1.2e-21
SQG59901.1|559464_560364_+	hydrolase	NA	NA	NA	NA	NA
SQG59902.1|560388_561339_-|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 6
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	569271	621912	4133344	transposase,tRNA,protease	Bacillus_phage(22.22%)	54	NA	NA
SQG59909.1|569271_570222_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG59910.1|570308_571259_+|transposase	IS1002 transposase	transposase	NA	NA	NA	NA
SQG59911.1|571255_572206_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG59912.1|572304_573102_-	beta-D-hydroxybutyrate dehydrogenase	NA	NA	NA	NA	NA
SQG59913.1|573207_573924_-	Metallo-beta-lactamase superfamily	NA	NA	NA	NA	NA
SQG59914.1|574051_574462_+	4-carboxymuconolactone decarboxylase	NA	NA	NA	NA	NA
SQG59915.1|574516_574627_+	oxidoreductase	NA	NA	NA	NA	NA
SQG59916.1|574711_575467_+	oxidoreductase	NA	D2K0C8	Staphylococcus_phage	55.0	4.6e-32
SQG59917.1|575483_576197_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
SQG59918.1|576270_577314_-	solute-binding periplasmic protein	NA	NA	NA	NA	NA
SQG59919.1|577484_579587_+	TRAP-type C4-dicarboxylate transport system protein	NA	NA	NA	NA	NA
SQG59920.1|580140_580971_+	catabolic enzyme	NA	NA	NA	NA	NA
SQG59921.1|580997_581954_+	lipoprotein	NA	NA	NA	NA	NA
SQG59922.1|581972_582464_-	2-amino-4-hydroxy-6- hydroxymethyldihydropteridinepyrophosphokinase	NA	NA	NA	NA	NA
SQG59923.1|582460_583816_-	poly(A) polymerase	NA	A0A1B1IVF3	uncultured_Mediterranean_phage	36.8	3.4e-25
SQG59924.1|583816_584515_-	Phosphoserine phosphatase	NA	NA	NA	NA	NA
SQG59925.1|584511_585213_-	DnaA regulatory inactivator Hda	NA	NA	NA	NA	NA
SQG59926.1|585465_586515_+	phosphoribosylaminoimidazole synthetase	NA	Q58MH8	Prochlorococcus_phage	43.6	5.6e-68
SQG59927.1|586620_587562_-|tRNA	tRNA delta(2)-isopentenylpyrophosphate transferase	tRNA	NA	NA	NA	NA
SQG59928.1|587558_589448_-	DNA mismatch repair protein	NA	A0A1B2LRQ5	Wolbachia_phage	32.8	3.3e-79
SQG59929.1|589534_590173_+	membrane protein	NA	NA	NA	NA	NA
SQG59930.1|590315_591560_-	N-acetylmuramoyl-L-alanine amidase	NA	A0A2H4JCM7	uncultured_Caudovirales_phage	30.3	4.1e-17
SQG59931.1|591631_592168_-	ADP-binding protein	NA	NA	NA	NA	NA
SQG59932.1|592319_593711_+	fumarate hydratase class II	NA	NA	NA	NA	NA
SQG59933.1|593727_594639_-	transporter	NA	NA	NA	NA	NA
SQG59934.1|594843_595827_+	putattive exported protein	NA	NA	NA	NA	NA
SQG59935.1|595891_596791_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG59936.1|596897_598652_+	gamma-glutamyltranspeptidase	NA	NA	NA	NA	NA
SQG59937.1|598659_599784_-	acyl-CoA transferase	NA	NA	NA	NA	NA
SQG59938.1|599797_600778_-	putattive exported protein	NA	NA	NA	NA	NA
SQG59939.1|600813_601491_-	oxidoreductase	NA	NA	NA	NA	NA
SQG59940.1|601508_602459_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG59941.1|602473_602845_+	tonb-dependent siderophore receptor	NA	NA	NA	NA	NA
SQG59942.1|602934_603564_+	transcriptional regulator	NA	NA	NA	NA	NA
SQG59943.1|603689_605267_+	cytochrome D ubiquinol oxidase subunit I	NA	NA	NA	NA	NA
SQG59944.1|605282_606437_+	cytochrome D ubiquinol oxidase subunit II	NA	NA	NA	NA	NA
SQG59945.1|606450_606576_+	Predicted outer membrane lipoprotein	NA	NA	NA	NA	NA
SQG59946.1|606572_608324_+	ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	23.8	3.4e-09
SQG59947.1|608320_610000_+	ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	27.6	3.6e-16
SQG59948.1|610062_610611_+	adenine phosphoribosyltransferase	NA	A0A1V0SKE5	Klosneuvirus	43.1	1.3e-28
SQG59949.1|610623_610749_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG59950.1|610721_611510_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG59951.1|611753_612032_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG59952.1|612241_613096_+	outer membrane porin	NA	NA	NA	NA	NA
SQG59953.1|613075_614026_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG59954.1|614303_614465_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG59955.1|615131_615581_-	stringent starvation protein B	NA	NA	NA	NA	NA
SQG59956.1|615590_616202_-	stringent starvation protein	NA	NA	NA	NA	NA
SQG59957.1|616360_617209_-	cytochrome C1	NA	NA	NA	NA	NA
SQG59958.1|617234_618617_-	cytochrome B	NA	NA	NA	NA	NA
SQG59959.1|618681_619377_-	ubiquinol-cytochrome C reductase iron-sulfur subunit	NA	NA	NA	NA	NA
SQG59960.1|619462_619921_+	large conductance mechanosensitive channel protein	NA	NA	NA	NA	NA
SQG59961.1|619945_620722_-	metal-binding protein	NA	NA	NA	NA	NA
SQG59962.1|620742_621912_+|protease	protease	protease	W5SAB9	Pithovirus	31.2	1.2e-07
>prophage 7
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	726792	784301	4133344	transposase	Orpheovirus(11.11%)	55	NA	NA
SQG60071.1|726792_727743_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60072.1|727912_728797_+	reductase	NA	NA	NA	NA	NA
SQG60073.1|728793_729042_+	glutaredoxin	NA	NA	NA	NA	NA
SQG60074.1|729038_730244_+	dehydratase/racemase	NA	NA	NA	NA	NA
SQG60075.1|730316_731312_-	lipoprotein	NA	NA	NA	NA	NA
SQG60076.1|731334_732555_-	dehydratase/racemase	NA	NA	NA	NA	NA
SQG60077.1|732551_733196_-	Predicted metal-dependent enzyme of the double-stranded beta helix superfamily	NA	NA	NA	NA	NA
SQG60078.1|733192_733513_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60079.1|733473_734826_-	sulfurtransferase	NA	NA	NA	NA	NA
SQG60080.1|734926_735736_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
SQG60081.1|736040_736994_+	thioredoxin reductase	NA	A0A2I2L5E1	Orpheovirus	42.5	5.6e-59
SQG60082.1|737092_738076_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60083.1|738002_738704_-	lipoprotein	NA	NA	NA	NA	NA
SQG60084.1|738752_739523_-	enoyl-CoA hydratase/isomerase family protein	NA	NA	NA	NA	NA
SQG60085.1|739519_740698_-	CAIB/BAIF family protein	NA	NA	NA	NA	NA
SQG60086.1|740865_742572_-	thiamine pyrophosphate enzyme	NA	NA	NA	NA	NA
SQG60087.1|742568_743465_-	LysR family regulatory protein	NA	NA	NA	NA	NA
SQG60088.1|743505_745107_-	sulfurtransferase	NA	NA	NA	NA	NA
SQG60089.1|745144_746131_-	putattive exported protein	NA	NA	NA	NA	NA
SQG60090.1|746205_746805_-	Predicted metal-dependent enzyme of the double-stranded beta helix superfamily	NA	NA	NA	NA	NA
SQG60091.1|747265_748246_-	lipoprotein	NA	NA	NA	NA	NA
SQG60092.1|748321_749272_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60093.1|749438_750275_+	DMT superfamily permease	NA	NA	NA	NA	NA
SQG60094.1|750271_750931_+	amino acid efflux protein	NA	NA	NA	NA	NA
SQG60095.1|751020_751944_+	lipoprotein	NA	A0A1C9C5K3	Heterosigma_akashiwo_virus	27.2	4.8e-07
SQG60096.1|751949_752405_-	Predicted membrane protein	NA	NA	NA	NA	NA
SQG60097.1|752401_753319_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG60098.1|753337_753733_+	bactoprenol-linked glucose translocase	NA	NA	NA	NA	NA
SQG60099.1|753692_755312_-	4-amino-4-deoxy-l-arabinose lipid A transferase	NA	NA	NA	NA	NA
SQG60100.1|755308_756361_-	glycosyl transferase family protein	NA	I1TED8	Salmonella_phage	40.5	2.8e-59
SQG60101.1|756523_756991_+	acetyltransferase	NA	NA	NA	NA	NA
SQG60102.1|757083_758061_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60103.1|758256_759462_+	sodium/glutamate symport carrier protein	NA	NA	NA	NA	NA
SQG60104.1|759464_760970_+	cell surface protein	NA	NA	NA	NA	NA
SQG60105.1|760985_762299_-	short-chain fatty acids transporter	NA	NA	NA	NA	NA
SQG60106.1|762489_762669_-	membrane protein	NA	NA	NA	NA	NA
SQG60107.1|763078_763813_-	DNA polymerase III subunit epsilon	NA	A0A1X9SH08	Bradyrhizobium_phage	43.8	1.4e-41
SQG60108.1|763821_766194_-	membrane protein	NA	NA	NA	NA	NA
SQG60109.1|766257_767208_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60110.1|767339_767738_-	elongation factor G	NA	E4ZFJ7	Streptococcus_phage	44.3	9.0e-19
SQG60111.1|768148_768619_-	universal stress protein	NA	NA	NA	NA	NA
SQG60112.1|768707_769052_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG60113.1|769151_770528_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
SQG60114.1|770532_772344_+	elongation factor G	NA	A0A2K9L2P9	Tupanvirus	24.9	1.7e-24
SQG60115.1|772340_772859_-	Mg(2+) transporter	NA	G3MA03	Bacillus_virus	38.9	2.1e-12
SQG60116.1|772969_773725_+	membrane protein	NA	A0A0R6PEZ3	Moraxella_phage	40.8	2.9e-42
SQG60117.1|773920_775153_+	dehydratase/racemase	NA	NA	NA	NA	NA
SQG60118.1|775145_775931_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
SQG60119.1|775997_776969_+	lipoprotein	NA	NA	NA	NA	NA
SQG60120.1|776979_777957_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG60121.1|778082_779255_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
SQG60122.1|779281_780310_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
SQG60123.1|780375_781569_+	thiolase	NA	NA	NA	NA	NA
SQG60124.1|781617_782823_-	fatty acid CoA ligase	NA	A0A2H4PQM9	Staphylococcus_phage	25.6	1.4e-22
SQG60125.1|783350_784301_-|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 8
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	955687	1057200	4133344	terminase,head,transposase,tRNA,tail	Pseudomonas_phage(14.29%)	110	NA	NA
SQG60286.1|955687_956638_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60287.1|956733_956892_+	amino acid efflux protein	NA	NA	NA	NA	NA
SQG60288.1|957375_957720_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60289.1|957777_958380_+	Protein of uncharacterised function (DUF2946)	NA	NA	NA	NA	NA
SQG60290.1|958397_958799_-	membrane protein	NA	NA	NA	NA	NA
SQG60291.1|958914_959826_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG60292.1|959822_960404_+	NUDIX hydrolase	NA	NA	NA	NA	NA
SQG60293.1|960330_961131_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60294.1|961198_961933_+|tRNA	arginyl-tRNA-protein transferase	tRNA	NA	NA	NA	NA
SQG60295.1|961973_963023_+	dihydroorotate dehydrogenase	NA	NA	NA	NA	NA
SQG60296.1|963170_963749_-	granule-associated protein (phasin)	NA	NA	NA	NA	NA
SQG60297.1|964135_965113_+	putattive exported protein	NA	NA	NA	NA	NA
SQG60298.1|965206_969562_-	dermonecrotic toxin	NA	NA	NA	NA	NA
SQG60299.1|969801_970650_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
SQG60300.1|970808_971621_-	CinA-like protein	NA	NA	NA	NA	NA
SQG60301.1|971676_972627_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60302.1|972725_973526_-	inner membrane protein	NA	NA	NA	NA	NA
SQG60303.1|973587_973971_+	thioredoxin-like protein	NA	NA	NA	NA	NA
SQG60304.1|973982_975416_-	ATP-dependent RNA helicase	NA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	34.4	1.5e-52
SQG60305.1|975622_975952_-	inner membrane protein	NA	NA	NA	NA	NA
SQG60306.1|975954_976704_-	inner membrane protein	NA	NA	NA	NA	NA
SQG60307.1|976886_977807_+	branched-chain amino acid aminotransferase	NA	NA	NA	NA	NA
SQG60308.1|977853_978066_+	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG60309.1|978088_978511_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60310.1|978527_979628_+	putative hydrolase	NA	NA	NA	NA	NA
SQG60311.1|979724_981242_-	exported peptidase	NA	NA	NA	NA	NA
SQG60312.1|981317_982157_+	UTP--glucose-1-phosphate uridylyltransferase	NA	A0A127AW70	Bacillus_phage	48.9	1.1e-66
SQG60313.1|982178_983051_-	inner membrane protein	NA	NA	NA	NA	NA
SQG60314.1|983141_984236_-	outer membrane porin protein OmpQ	NA	NA	NA	NA	NA
SQG60315.1|984529_985480_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60316.1|985608_986496_+|transposase	IS1002 transposase	transposase	NA	NA	NA	NA
SQG60317.1|986579_986939_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60318.1|987320_988358_-	inner membrane protein	NA	NA	NA	NA	NA
SQG60319.1|988674_990015_+	Xaa-Pro aminopeptidase	NA	NA	NA	NA	NA
SQG60320.1|990024_990477_-	inner membrane protein	NA	NA	NA	NA	NA
SQG60321.1|990573_991755_+	monooxygenase	NA	NA	NA	NA	NA
SQG60322.1|991820_992846_+|tRNA	tRNA-dihydrouridine synthase B	tRNA	NA	NA	NA	NA
SQG60323.1|992886_993126_+	DNA-binding protein	NA	NA	NA	NA	NA
SQG60324.1|993195_994785_+	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase	NA	Q58MG4	Prochlorococcus_phage	47.2	8.7e-65
SQG60325.1|994784_995333_+	crossover junction endodeoxyribonuclease	NA	NA	NA	NA	NA
SQG60326.1|995413_995986_+	holliday junction DNA helicase	NA	NA	NA	NA	NA
SQG60327.1|996004_996916_-	NADH dehydrogenase	NA	NA	NA	NA	NA
SQG60328.1|996989_997958_-	serine/threonine dehydratase	NA	NA	NA	NA	NA
SQG60329.1|998080_999154_+	holliday junction DNA helicase	NA	A0A127AWE7	Bacillus_phage	25.7	2.3e-08
SQG60330.1|999158_1000979_-	ATP-dependent DNA helicase	NA	L7RCS0	Acanthamoeba_polyphaga_moumouvirus	35.3	3.1e-74
SQG60331.1|1001055_1002006_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60332.1|1002563_1003214_+	carbonic anhydrase	NA	NA	NA	NA	NA
SQG60333.1|1003235_1004654_-	amidase	NA	NA	NA	NA	NA
SQG60334.1|1004723_1005464_-	putative branched-chain amino acid binding protein	NA	NA	NA	NA	NA
SQG60335.1|1005477_1006206_+	putative branched-chain amino acid transport permease	NA	NA	NA	NA	NA
SQG60336.1|1006216_1007098_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
SQG60337.1|1007114_1007822_+	branched-chain amino acid ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	25.4	8.2e-07
SQG60338.1|1007824_1008583_+	branched-chain amino acid ABC transporter ATP-binding protein	NA	W6JKT0	Anomala_cuprea_entomopoxvirus	24.4	4.4e-14
SQG60339.1|1008792_1010535_+	sulfite reductase	NA	NA	NA	NA	NA
SQG60340.1|1010527_1011052_+	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG60341.1|1011091_1011886_-	D-methionine ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
SQG60342.1|1012053_1013127_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60343.1|1013225_1014176_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60344.1|1014427_1014634_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60345.1|1014705_1015800_-	phage repressor protein	NA	NA	NA	NA	NA
SQG60346.1|1016109_1016808_-	phage-related membrane protein	NA	NA	NA	NA	NA
SQG60347.1|1016822_1016942_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60348.1|1017061_1018012_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60349.1|1018687_1019137_+	DNA binding protein	NA	C7U0W1	Enterobacteria_phage	61.5	5.2e-39
SQG60350.1|1019123_1020401_+|terminase	phage terminase	terminase	A0A1B1P9C9	Acinetobacter_phage	64.7	2.4e-150
SQG60351.1|1020403_1021822_+	Uncharacterised protein	NA	R9TF43	Synechococcus_phage	42.1	2.2e-99
SQG60352.1|1021793_1022906_+|head	phage head morphogenesis protein, SPP1 gp7 family	head	A0A0H5BBX3	Pseudomonas_phage	49.7	2.1e-102
SQG60353.1|1022911_1023154_+	Uncharacterised protein	NA	A0A0H5AUE5	Pseudomonas_phage	53.2	5.6e-16
SQG60354.1|1023276_1023879_+	Uncharacterised protein	NA	R9TF81	Synechococcus_phage	43.6	7.9e-27
SQG60355.1|1023905_1024328_+	Uncharacterised protein	NA	A0A0S2SYD2	Pseudomonas_phage	72.8	1.0e-52
SQG60356.1|1024307_1024424_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60357.1|1024448_1025258_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60358.1|1025356_1026307_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60359.1|1026408_1026972_+	Uncharacterised protein	NA	R9TJ64	Synechococcus_phage	70.4	2.0e-64
SQG60360.1|1026981_1027233_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60361.1|1027295_1027778_+	Uncharacterised protein	NA	A0A2H4JE38	uncultured_Caudovirales_phage	37.1	1.8e-13
SQG60362.1|1027779_1027980_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60363.1|1027979_1028375_+	Uncharacterised protein	NA	A0A2D2W284	Stenotrophomonas_phage	35.0	7.8e-07
SQG60364.1|1028371_1028770_+	Uncharacterised protein	NA	I6PCW1	Cronobacter_phage	38.0	4.2e-16
SQG60365.1|1028766_1029189_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60366.1|1029232_1029379_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60367.1|1030128_1030470_+|tail	major tail protein	tail	A0A1S5R1H0	Pseudomonas_phage	35.2	1.2e-08
SQG60368.1|1030479_1030809_+	phage protein	NA	A0A2H4J121	uncultured_Caudovirales_phage	44.0	2.9e-15
SQG60369.1|1030838_1031117_+	phage protein	NA	A0A2H4JBP7	uncultured_Caudovirales_phage	45.2	3.5e-14
SQG60370.1|1031142_1033755_+|tail	putative phage tail protein	tail	A0A2H4J107	uncultured_Caudovirales_phage	38.6	4.9e-105
SQG60371.1|1034191_1034725_+	Domain of uncharacterised function (DUF1833)	NA	A5A3Q9	Burkholderia_phage	46.9	1.1e-40
SQG60372.1|1034721_1035111_+	NlpC/P60 family	NA	A0A0G3EYJ9	Achromobacter_phage	50.0	3.0e-35
SQG60373.1|1035103_1039060_+	Domain of uncharacterised function (DUF1983)	NA	A0A0B5A1N2	Achromobacter_phage	40.8	3.9e-215
SQG60374.1|1039103_1039481_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60375.1|1039545_1039659_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60376.1|1039962_1040775_+	phage protein	NA	NA	NA	NA	NA
SQG60377.1|1041000_1041552_+	phage lysozyme	NA	NA	NA	NA	NA
SQG60378.1|1042063_1042345_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60379.1|1042894_1043566_-	Uncharacterised ACR, COG2135	NA	Q5QF62	Pseudomonas_virus	39.9	4.7e-36
SQG60380.1|1043921_1044608_-	two component response regulator	NA	NA	NA	NA	NA
SQG60381.1|1044588_1045161_-	dinucleoside polyphosphate hydrolase	NA	NA	NA	NA	NA
SQG60382.1|1045226_1046957_+|tRNA	prolyl-tRNA synthetase	tRNA	A0A2K9L3R9	Tupanvirus	29.4	4.6e-11
SQG60383.1|1047009_1047438_+	thioesterase	NA	NA	NA	NA	NA
SQG60384.1|1047440_1048121_+	TolQ-like translocation protein	NA	NA	NA	NA	NA
SQG60385.1|1048120_1048579_+	TolR-like translocation protein	NA	NA	NA	NA	NA
SQG60386.1|1048615_1049590_+	proline-rich inner membrane protein	NA	NA	NA	NA	NA
SQG60387.1|1049606_1050923_+	TolB-like translocation protein	NA	NA	NA	NA	NA
SQG60388.1|1050954_1051452_+	peptidoglycan-associated lipoprotein	NA	NA	NA	NA	NA
SQG60389.1|1051538_1052228_+	periplasmic protein	NA	NA	NA	NA	NA
SQG60390.1|1052227_1053277_+	ABC transporter inner membrane permease	NA	NA	NA	NA	NA
SQG60391.1|1053273_1054068_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	30.6	2.4e-15
SQG60392.1|1054236_1054587_+	lipoprotein	NA	NA	NA	NA	NA
SQG60393.1|1054562_1055120_+	lipoprotein	NA	NA	NA	NA	NA
SQG60394.1|1055647_1056157_+	gamma-glutamyltranspeptidase	NA	NA	NA	NA	NA
SQG60395.1|1056249_1057200_+|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 9
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	1071887	1115303	4133344	transposase	Planktothrix_phage(50.0%)	37	NA	NA
SQG60408.1|1071887_1072838_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60409.1|1072997_1073870_-	carboxyvinyl-carboxyphosphonate phosphorylmutase	NA	NA	NA	NA	NA
SQG60410.1|1074210_1074429_+	Protein of uncharacterised function (DUF1059)	NA	NA	NA	NA	NA
SQG60411.1|1074468_1075848_-	aminotransferase	NA	NA	NA	NA	NA
SQG60412.1|1075889_1077287_-	amidase	NA	NA	NA	NA	NA
SQG60413.1|1077326_1078979_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	30.8	6.0e-16
SQG60414.1|1078982_1079867_-	ABC transporter permease	NA	NA	NA	NA	NA
SQG60415.1|1079866_1080808_-	ABC transporter permease	NA	NA	NA	NA	NA
SQG60416.1|1080886_1082506_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
SQG60417.1|1082672_1083488_+	transcriptional regulator	NA	NA	NA	NA	NA
SQG60418.1|1083555_1084125_-	transcriptional regulator	NA	NA	NA	NA	NA
SQG60419.1|1084125_1085076_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60420.1|1085395_1085590_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60421.1|1085730_1086828_+	carboxynorspermidine decarboxylase	NA	NA	NA	NA	NA
SQG60422.1|1086861_1088127_+	shikimate 5-dehydrogenase	NA	NA	NA	NA	NA
SQG60423.1|1088284_1089235_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60424.1|1089478_1090069_+	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG60425.1|1090084_1092490_-	ferric siderophore receptor	NA	NA	NA	NA	NA
SQG60426.1|1092648_1093620_-	inner membrane sensor for iron transport	NA	NA	NA	NA	NA
SQG60427.1|1093751_1094276_+	ECF family sigma factor	NA	NA	NA	NA	NA
SQG60428.1|1094235_1095186_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60429.1|1095407_1097603_-	DNA methylase	NA	NA	NA	NA	NA
SQG60430.1|1097675_1098104_-	transcriptional regulator	NA	NA	NA	NA	NA
SQG60431.1|1098205_1099156_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60432.1|1099271_1099715_-	transcriptional regulator	NA	NA	NA	NA	NA
SQG60433.1|1099777_1100572_+	transcriptional regulator	NA	NA	NA	NA	NA
SQG60434.1|1100737_1101874_-	glutamate 5-kinase	NA	A0A1X9I5D0	Streptococcus_phage	44.8	5.8e-63
SQG60435.1|1101944_1103078_-	GTP-binding protein	NA	NA	NA	NA	NA
SQG60436.1|1103227_1103488_-	50S ribosomal protein L27	NA	NA	NA	NA	NA
SQG60437.1|1103521_1103833_-	50S ribosomal protein L21	NA	NA	NA	NA	NA
SQG60438.1|1104257_1105406_+	Fumarylacetoacetate (FAA) hydrolase family protein	NA	NA	NA	NA	NA
SQG60439.1|1105520_1106486_+	octaprenyl-diphosphate synthase	NA	NA	NA	NA	NA
SQG60440.1|1106754_1107621_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG60441.1|1107751_1109800_+	hydantoin utilization protein A	NA	NA	NA	NA	NA
SQG60442.1|1109817_1111815_+	hydantoin utilization protein B	NA	NA	NA	NA	NA
SQG60443.1|1111849_1113187_+	amino acid deaminase	NA	NA	NA	NA	NA
SQG60444.1|1113449_1115303_+|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 10
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	1150749	1200820	4133344	transposase,holin	Acinetobacter_phage(25.0%)	44	NA	NA
SQG60472.1|1150749_1151700_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60473.1|1151798_1152749_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60474.1|1152847_1153798_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60475.1|1153896_1154553_-	lipoprotein	NA	NA	NA	NA	NA
SQG60476.1|1154700_1157409_+	aminopeptidase N	NA	A0A0P0IY26	Acinetobacter_phage	24.0	2.8e-15
SQG60477.1|1157418_1158438_+	fructose-1,6-bisphosphatase	NA	A0A1V0SKX4	Klosneuvirus	35.7	1.5e-49
SQG60478.1|1158434_1159385_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60479.1|1159483_1159972_-	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase	NA	NA	NA	NA	NA
SQG60480.1|1159968_1160652_-	4-diphosphocytidyl-2C-methyl-D-erythritol synthase	NA	NA	NA	NA	NA
SQG60481.1|1160681_1164137_+	transcription-repair coupling factor	NA	NA	NA	NA	NA
SQG60482.1|1164172_1165033_+	phosphoserine phosphatase	NA	NA	NA	NA	NA
SQG60483.1|1165161_1166079_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG60484.1|1166216_1167197_+	putattive exported protein	NA	NA	NA	NA	NA
SQG60485.1|1167256_1169047_+	acetolactate synthase large subunit	NA	A0A0P0YLY7	Yellowstone_lake_phycodnavirus	26.1	2.0e-25
SQG60486.1|1169043_1169973_+	short-chain dehydrogenase	NA	NA	NA	NA	NA
SQG60487.1|1169829_1170348_-	GNAT family acetyltransferase	NA	NA	NA	NA	NA
SQG60488.1|1170460_1172731_-	TonB-dependent receptor for iron transport	NA	NA	NA	NA	NA
SQG60489.1|1172942_1175174_-	TonB-dependent receptor for iron transport	NA	NA	NA	NA	NA
SQG60490.1|1175474_1175804_-	membrane protein	NA	NA	NA	NA	NA
SQG60491.1|1175820_1177302_-	NADH-ubiquinone oxidoreductase subunit N	NA	NA	NA	NA	NA
SQG60492.1|1177315_1178818_-	NADH dehydrogenase subunit M	NA	NA	NA	NA	NA
SQG60493.1|1178814_1180827_-	NADH-ubiquinone oxidoreductase subunit L	NA	NA	NA	NA	NA
SQG60494.1|1180844_1181153_-	NADH dehydrogenase subunit K	NA	NA	NA	NA	NA
SQG60495.1|1181149_1181797_-	NADH-ubiquinone oxidoreductase subunit J	NA	NA	NA	NA	NA
SQG60496.1|1181814_1182303_-	NADH dehydrogenase subunit I	NA	NA	NA	NA	NA
SQG60497.1|1182324_1183398_-	NADH dehydrogenase subunit H	NA	NA	NA	NA	NA
SQG60498.1|1183397_1185725_-	NADH-ubiquinone oxidoreductase, 75 kDa subunit	NA	NA	NA	NA	NA
SQG60499.1|1185740_1187108_-	NADH dehydrogenase I subunit F	NA	NA	NA	NA	NA
SQG60500.1|1187104_1187599_-	NADH dehydrogenase subunit E	NA	NA	NA	NA	NA
SQG60501.1|1187644_1188901_-	NADH dehydrogenase subunit D	NA	NA	NA	NA	NA
SQG60502.1|1188903_1189521_-	respiratory-chain NADH dehydrogenase, 30 kDa subunit	NA	NA	NA	NA	NA
SQG60503.1|1189601_1190078_-	NADH dehydrogenase subunit B	NA	NA	NA	NA	NA
SQG60504.1|1190114_1190474_-	NADH dehydrogenase I subunit A	NA	NA	NA	NA	NA
SQG60505.1|1190662_1191820_-	outer membrane porin protein	NA	NA	NA	NA	NA
SQG60506.1|1192132_1193083_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60507.1|1193100_1193655_+	TetR family transcriptional regulator	NA	NA	NA	NA	NA
SQG60508.1|1193656_1194091_+	thioesterase	NA	NA	NA	NA	NA
SQG60509.1|1194087_1194522_+	NAD binding domain of 6-phosphogluconate dehydrogenase	NA	NA	NA	NA	NA
SQG60510.1|1194505_1195309_-	membrane-associated phosphatase	NA	NA	NA	NA	NA
SQG60511.1|1195325_1196141_-	DNA repair exonuclease	NA	NA	NA	NA	NA
SQG60512.1|1196137_1196953_-	Putative lipid kinase BmrU	NA	NA	NA	NA	NA
SQG60513.1|1197099_1197801_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG60514.1|1197828_1199787_-|holin	high-affinity choline transport protein	holin	A0A2I7QNT1	Vibrio_phage	30.3	8.0e-28
SQG60515.1|1199869_1200820_-|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 11
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	1223843	1277369	4133344	transposase,holin	Acidithiobacillus_phage(33.33%)	52	NA	NA
SQG60533.1|1223843_1224773_-|transposase	transposase for IS1663	transposase	NA	NA	NA	NA
SQG60534.1|1225056_1226040_-	putattive exported protein	NA	NA	NA	NA	NA
SQG60535.1|1226098_1227226_-	argininosuccinate lyase	NA	NA	NA	NA	NA
SQG60536.1|1227216_1227591_-	argininosuccinate lyase	NA	NA	NA	NA	NA
SQG60537.1|1227638_1229027_-	catabolic enzyme	NA	NA	NA	NA	NA
SQG60538.1|1229057_1230047_-	putattive exported protein	NA	NA	NA	NA	NA
SQG60539.1|1230157_1231390_-	methylaspartate ammonia-lyase	NA	NA	NA	NA	NA
SQG60540.1|1231671_1232472_+	transcriptional regulator	NA	NA	NA	NA	NA
SQG60541.1|1232494_1234726_-|holin	high-affinity choline transport protein	holin	NA	NA	NA	NA
SQG60542.1|1235513_1235960_-	protein-export membrane protein	NA	NA	NA	NA	NA
SQG60543.1|1235981_1236728_-	triosephosphate isomerase	NA	NA	NA	NA	NA
SQG60544.1|1236871_1237849_-	zinc-binding dehydrogenase	NA	NA	NA	NA	NA
SQG60545.1|1238548_1239094_+	Uncharacterised protein	NA	K4HZX4	Acidithiobacillus_phage	30.5	3.0e-09
SQG60546.1|1239087_1240305_-	threonine dehydratase catabolic	NA	NA	NA	NA	NA
SQG60547.1|1240445_1241396_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60548.1|1241392_1242112_-	lipoprotein	NA	NA	NA	NA	NA
SQG60549.1|1242232_1244392_-	polyribonucleotide nucleotidyltransferase	NA	NA	NA	NA	NA
SQG60550.1|1244482_1244752_-	30S ribosomal protein S15	NA	NA	NA	NA	NA
SQG60551.1|1245045_1245573_+	lipoprotein	NA	NA	NA	NA	NA
SQG60552.1|1245591_1246371_-	CDP-diacylglycerol--serine O-phosphatidyltransferase protein	NA	NA	NA	NA	NA
SQG60553.1|1246538_1247555_-	ketol-acid reductoisomerase	NA	NA	NA	NA	NA
SQG60554.1|1247627_1248119_-	acetolactate synthase 3 regulatory subunit	NA	NA	NA	NA	NA
SQG60555.1|1248129_1249845_-	acetolactate synthase isozyme III large subunit	NA	A0A0P0CDR3	Ostreococcus_lucimarinus_virus	30.3	3.1e-60
SQG60556.1|1250315_1250927_+	membrane protein	NA	NA	NA	NA	NA
SQG60557.1|1251008_1251959_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60558.1|1251955_1253788_-	ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	26.4	1.3e-27
SQG60559.1|1254186_1254846_+	thiopurine S-methyltransferase	NA	NA	NA	NA	NA
SQG60560.1|1254939_1255086_+	vir-repressed protein	NA	NA	NA	NA	NA
SQG60561.1|1255194_1255362_+	lipoprotein	NA	NA	NA	NA	NA
SQG60562.1|1255373_1256054_-	lipoprotein	NA	NA	NA	NA	NA
SQG60563.1|1256335_1257052_+	Cyclic di-GMP binding protein YcgR	NA	NA	NA	NA	NA
SQG60564.1|1257066_1258368_-	phospholipase	NA	NA	NA	NA	NA
SQG60565.1|1258502_1259321_-	aldehyde dehydrogenase	NA	NA	NA	NA	NA
SQG60566.1|1259446_1259995_-	aldehyde dehydrogenase	NA	NA	NA	NA	NA
SQG60567.1|1260536_1262915_+	H3	NA	NA	NA	NA	NA
SQG60568.1|1262911_1263409_+	metal-dependent phosphohydrolase	NA	NA	NA	NA	NA
SQG60569.1|1263632_1264985_+	catabolic enzyme	NA	NA	NA	NA	NA
SQG60570.1|1265013_1265535_+	biotin carboxyl carrier protein	NA	NA	NA	NA	NA
SQG60571.1|1265531_1266986_+	carboxylase	NA	NA	NA	NA	NA
SQG60572.1|1267020_1267269_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60573.1|1267374_1268250_+	Predicted metal-dependent hydrolase of the TIM-barrel fold	NA	NA	NA	NA	NA
SQG60574.1|1268275_1269331_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60575.1|1269343_1270135_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
SQG60576.1|1270167_1271538_+	biotin carboxylase	NA	NA	NA	NA	NA
SQG60577.1|1271553_1272633_+	acyl-CoA carboxylase	NA	NA	NA	NA	NA
SQG60578.1|1272714_1273665_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60579.1|1273729_1273939_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60580.1|1274098_1274311_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60581.1|1274430_1275549_+	putative mannose-6-phosphate isomerase	NA	NA	NA	NA	NA
SQG60582.1|1275645_1275861_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60583.1|1276054_1276306_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60584.1|1276418_1277369_+|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 12
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	1294632	1363371	4133344	transposase	Bacillus_virus(22.22%)	60	NA	NA
SQG60600.1|1294632_1295583_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60601.1|1296567_1297749_-	sugar efflux transporter	NA	NA	NA	NA	NA
SQG60602.1|1297964_1298642_-	phosphoglycolate phosphatase	NA	NA	NA	NA	NA
SQG60603.1|1298638_1299412_-	3-demethylubiquinone-9 3-methyltransferase	NA	NA	NA	NA	NA
SQG60604.1|1299489_1300071_-	outer membrane protein A	NA	NA	NA	NA	NA
SQG60605.1|1300441_1303123_+	DNA gyrase subunit A	NA	G3M9Z5	Bacillus_virus	33.5	3.2e-104
SQG60606.1|1303125_1304256_+	phosphoserine aminotransferase	NA	M1Q1P2	Streptococcus_phage	44.0	4.9e-78
SQG60607.1|1304248_1305334_+	bifunctional chorismate mutase/prephenate dehydratase	NA	NA	NA	NA	NA
SQG60608.1|1305420_1306320_+	prephenate dehydrogenase	NA	NA	NA	NA	NA
SQG60609.1|1306316_1307645_+	3-phosphoshikimate 1-carboxyvinyltransferase	NA	NA	NA	NA	NA
SQG60610.1|1307659_1308331_+	cytidylate kinase	NA	NA	NA	NA	NA
SQG60611.1|1308518_1310234_+	30S ribosomal protein S1	NA	NA	NA	NA	NA
SQG60612.1|1310235_1310595_+	Integration host factor subunit beta	NA	NA	NA	NA	NA
SQG60613.1|1310786_1311101_+	membrane protein	NA	NA	NA	NA	NA
SQG60614.1|1311143_1312364_+	tetratricopeptide repeat protein	NA	NA	NA	NA	NA
SQG60615.1|1312360_1313302_+	ADP-heptose synthase	NA	A0A2H4N7X4	Lake_Baikal_phage	28.1	1.5e-16
SQG60616.1|1313298_1314288_+	ADP-L-glycero-D-manno-heptose-6-epimerase	NA	E3SJ87	Synechococcus_phage	34.4	2.2e-26
SQG60617.1|1314418_1314907_+	ComE operon protein 1	NA	NA	NA	NA	NA
SQG60618.1|1315005_1315956_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60619.1|1316036_1316948_+	cysteine synthase B	NA	A0A1X9I5K7	Streptococcus_phage	38.8	8.0e-47
SQG60620.1|1317008_1318154_-	membrane-bound lytic murein transglycosylase B	NA	NA	NA	NA	NA
SQG60621.1|1318173_1319088_+	histone deacetylase family protein	NA	A0A2K9KZC4	Tupanvirus	34.7	9.8e-45
SQG60622.1|1319159_1319909_+	electron transfer flavoprotein subunit beta	NA	NA	NA	NA	NA
SQG60623.1|1319908_1320838_+	electron transfer flavoprotein subunit alpha	NA	NA	NA	NA	NA
SQG60624.1|1321081_1322908_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
SQG60625.1|1322990_1323632_+	antioxidant protein	NA	NA	NA	NA	NA
SQG60626.1|1323821_1324856_+	sulfate-binding protein	NA	NA	NA	NA	NA
SQG60627.1|1324871_1325075_+	sulfate transport system permease	NA	NA	NA	NA	NA
SQG60628.1|1325099_1325771_+	sulfate transport system permease	NA	NA	NA	NA	NA
SQG60629.1|1325885_1326668_+	sulfate transport system permease	NA	NA	NA	NA	NA
SQG60630.1|1326692_1327757_+	sulfate transport ATP-binding protein	NA	G3M9Y6	Bacillus_virus	30.3	3.8e-24
SQG60631.1|1327753_1329463_+	sulfate adenylyltransferase subunit 2	NA	NA	NA	NA	NA
SQG60632.1|1329985_1330762_+	sulfate adenylyltransferase subunit 1	NA	NA	NA	NA	NA
SQG60633.1|1330950_1332225_+	radical SAM protein	NA	NA	NA	NA	NA
SQG60634.1|1332378_1332759_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60635.1|1332766_1333600_-	DMT superfamily permease	NA	NA	NA	NA	NA
SQG60636.1|1333944_1334325_+	50S ribosomal protein L19	NA	NA	NA	NA	NA
SQG60637.1|1334595_1335261_+	hydrolase	NA	NA	NA	NA	NA
SQG60638.1|1335356_1336307_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60639.1|1336411_1337461_+	oxidoreductase	NA	NA	NA	NA	NA
SQG60640.1|1337598_1338528_-|transposase	transposase for IS1663	transposase	NA	NA	NA	NA
SQG60641.1|1338767_1340051_-	Major Facilitator Superfamily	NA	NA	NA	NA	NA
SQG60642.1|1340123_1340696_-	chorismate--pyruvate lyase	NA	NA	NA	NA	NA
SQG60643.1|1340755_1341487_+	RNA pseudouridylate synthase	NA	NA	NA	NA	NA
SQG60644.1|1341538_1342474_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG60645.1|1342706_1343306_+	acriflavine resistance protein a	NA	NA	NA	NA	NA
SQG60646.1|1343263_1346443_+	acriflavine resistance protein B	NA	NA	NA	NA	NA
SQG60647.1|1346439_1347822_+	outer membrane lipoprotein	NA	NA	NA	NA	NA
SQG60648.1|1347891_1348143_-	membrane protein	NA	NA	NA	NA	NA
SQG60649.1|1348288_1348939_-	SCO1/SenC/PrrC family protein	NA	NA	NA	NA	NA
SQG60650.1|1349089_1351204_-	oligopeptidase A	NA	NA	NA	NA	NA
SQG60651.1|1351279_1352131_-	bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase	NA	A0A249XZQ2	Enterococcus_phage	39.8	2.1e-33
SQG60652.1|1352127_1352754_-	two-component response regulator	NA	NA	NA	NA	NA
SQG60653.1|1352750_1354505_-	two-component sensor kinase	NA	NA	NA	NA	NA
SQG60654.1|1354797_1357503_+	pyruvate dehydrogenase subunit E1	NA	NA	NA	NA	NA
SQG60655.1|1357515_1359177_+	dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex	NA	NA	NA	NA	NA
SQG60656.1|1359189_1360980_+	dihydrolipoamide dehydrogenase	NA	A0A2K5B2C5	Erysipelothrix_phage	25.2	2.4e-39
SQG60657.1|1361201_1362377_-	flagellin	NA	NA	NA	NA	NA
SQG60658.1|1362419_1362731_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60659.1|1362672_1363371_-|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 13
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	1374978	1417512	4133344	transposase,tRNA,protease	uncultured_Mediterranean_phage(37.5%)	47	NA	NA
SQG60669.1|1374978_1376112_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60670.1|1376204_1376357_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60671.1|1376388_1376937_-	DinB family	NA	NA	NA	NA	NA
SQG60672.1|1376955_1377441_-	acetyltransferase	NA	NA	NA	NA	NA
SQG60673.1|1377618_1378557_+	curved DNA-binding protein	NA	A0A0P0YMJ9	Yellowstone_lake_phycodnavirus	24.1	5.6e-11
SQG60674.1|1378559_1378877_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60675.1|1378922_1379867_+	membrane protein	NA	NA	NA	NA	NA
SQG60676.1|1379887_1380178_-	phosphate transporter	NA	NA	NA	NA	NA
SQG60677.1|1380184_1381363_-	phosphate transporter	NA	NA	NA	NA	NA
SQG60678.1|1381547_1382198_+	molybdenum cofactor biosynthesis protein MogA	NA	NA	NA	NA	NA
SQG60679.1|1382251_1382587_+	lipoprotein	NA	NA	NA	NA	NA
SQG60680.1|1382583_1383444_+	peptidase	NA	A0A292GJG6	Xanthomonas_phage	36.1	2.6e-15
SQG60681.1|1383460_1383742_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60682.1|1383815_1384079_-	translation initiation factor IF-1	NA	NA	NA	NA	NA
SQG60683.1|1384322_1385273_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60684.1|1385571_1386309_-	RNA polymerase sigma factor for flagellar operon	NA	NA	NA	NA	NA
SQG60685.1|1386744_1387068_+	flagellar transcriptional activator FlbB	NA	NA	NA	NA	NA
SQG60686.1|1387102_1387663_+	flagellar transcriptional activator FlhC	NA	NA	NA	NA	NA
SQG60687.1|1387783_1388659_+	flagellar motor protein MotA	NA	NA	NA	NA	NA
SQG60688.1|1388671_1389619_+	chemotaxis protein MotB	NA	NA	NA	NA	NA
SQG60689.1|1389720_1390014_+	chemotaxis protein CheY	NA	NA	NA	NA	NA
SQG60690.1|1390040_1392098_+	chemotaxis protein CheA	NA	NA	NA	NA	NA
SQG60691.1|1392112_1392613_+	chemotaxis protein CheW	NA	NA	NA	NA	NA
SQG60692.1|1392686_1394393_+	methyl-accepting chemotaxis protein I	NA	A0A2H4J162	uncultured_Caudovirales_phage	41.7	1.4e-12
SQG60693.1|1394401_1394965_+	chemotaxis protein methyltransferase	NA	NA	NA	NA	NA
SQG60694.1|1394903_1395260_+	chemotaxis protein methyltransferase	NA	NA	NA	NA	NA
SQG60695.1|1395256_1396309_+	protein-glutamate methylesterase	NA	NA	NA	NA	NA
SQG60696.1|1396361_1396751_+	chemotaxis response regulator	NA	Q56AR1	Bacillus_thuringiensis_phage	33.3	5.7e-10
SQG60697.1|1396759_1397392_+	chemotaxis protein CheZ	NA	NA	NA	NA	NA
SQG60698.1|1397491_1398421_-|transposase	transposase for IS1663	transposase	NA	NA	NA	NA
SQG60699.1|1399296_1400346_+	aldo/keto reductase	NA	NA	NA	NA	NA
SQG60700.1|1400342_1401986_-	apolipoprotein N-acyltransferase	NA	NA	NA	NA	NA
SQG60701.1|1401982_1402870_-	magnesium and cobalt efflux protein	NA	NA	NA	NA	NA
SQG60702.1|1403010_1403484_-|protease	metalloprotease	protease	NA	NA	NA	NA
SQG60703.1|1403473_1404496_-	phoH-like protein	NA	A0A0S0MVD6	Pseudomonas_phage	45.4	8.7e-50
SQG60704.1|1404492_1405920_-|tRNA	(dimethylallyl)adenosine tRNA methylthiotransferase	tRNA	NA	NA	NA	NA
SQG60705.1|1406076_1406490_+	membrane-associated phospholipid phosphatase	NA	NA	NA	NA	NA
SQG60706.1|1406479_1406803_+	membrane-associated phospholipid phosphatase	NA	NA	NA	NA	NA
SQG60707.1|1406857_1407787_-|transposase	transposase for IS1663	transposase	NA	NA	NA	NA
SQG60708.1|1408206_1409142_-	protein-export membrane protein	NA	A0A1B1IVP7	uncultured_Mediterranean_phage	35.5	3.0e-41
SQG60709.1|1409191_1411072_-	protein-export membrane protein	NA	NA	NA	NA	NA
SQG60710.1|1411138_1411483_-	secreted protein	NA	A0A1B1IVR5	uncultured_Mediterranean_phage	40.4	1.0e-10
SQG60711.1|1411627_1412764_-|tRNA	queuine tRNA-ribosyltransferase	tRNA	A0A1B1IVQ4	uncultured_Mediterranean_phage	44.4	1.9e-85
SQG60712.1|1412760_1413804_-|tRNA	S-adenosylmethionine--tRNA ribosyltransferase-isomerase	tRNA	NA	NA	NA	NA
SQG60713.1|1413991_1415428_+	D-alanyl-D-alanine carboxypeptidase	NA	NA	NA	NA	NA
SQG60714.1|1415518_1416160_+	uracil phosphoribosyltransferase	NA	NA	NA	NA	NA
SQG60715.1|1416582_1417512_+|transposase	transposase for IS1663	transposase	NA	NA	NA	NA
>prophage 14
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	1432969	1556847	4133344	transposase,tRNA,protease	Planktothrix_phage(13.33%)	107	NA	NA
SQG60729.1|1432969_1433920_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60730.1|1434287_1435064_-	phosphate transport ATP-binding protein	NA	G9BWD6	Planktothrix_phage	28.7	4.3e-17
SQG60731.1|1435108_1435966_-	phosphate ABC transporter permease	NA	NA	NA	NA	NA
SQG60732.1|1435987_1437004_-	phosphate ABC transporter permease	NA	NA	NA	NA	NA
SQG60733.1|1437138_1438179_-	phosphate-binding periplasmic protein	NA	M4QHS4	Cyanophage	40.2	2.1e-51
SQG60734.1|1438373_1440455_-	polyphosphate kinase	NA	NA	NA	NA	NA
SQG60735.1|1440690_1442184_+	exopolyphosphatase	NA	NA	NA	NA	NA
SQG60736.1|1442302_1442413_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60737.1|1442414_1443209_-	N-acyl amino acid synthase, PEP-CTERM/exosortase system-associated	NA	NA	NA	NA	NA
SQG60738.1|1443429_1444788_-	phosphoglucomutase/phosphomannomutase	NA	NA	NA	NA	NA
SQG60739.1|1444784_1445627_-	dihydropteroate synthase	NA	A0A0B5J4J5	Pandoravirus	32.5	3.2e-26
SQG60740.1|1445645_1447532_-	cell division protein	NA	M4QMW8	Micromonas_pusilla_virus	41.5	1.4e-109
SQG60741.1|1447769_1448402_-	ribosomal RNA large subunit methyltransferase j	NA	NA	NA	NA	NA
SQG60742.1|1448420_1449023_+	RNA-binding protein YhbY	NA	NA	NA	NA	NA
SQG60743.1|1449174_1450125_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60744.1|1450295_1450706_+	pilus assembly protein	NA	NA	NA	NA	NA
SQG60745.1|1450927_1451728_-	membrane protein	NA	NA	NA	NA	NA
SQG60746.1|1451771_1452758_-	homoserine kinase	NA	NA	NA	NA	NA
SQG60747.1|1452933_1453911_+|tRNA	tRNA-dihydrouridine synthase A	tRNA	NA	NA	NA	NA
SQG60748.1|1453907_1454858_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60749.1|1454956_1455907_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60750.1|1456019_1456478_-	putative manganese-dependent inorganic pyrophosphatase	NA	NA	NA	NA	NA
SQG60751.1|1456514_1457828_-	ribonuclease	NA	NA	NA	NA	NA
SQG60752.1|1457845_1458217_+	Predicted membrane protein	NA	NA	NA	NA	NA
SQG60753.1|1458213_1459677_+	Uncharacterized conserved protein	NA	A0A075BSJ0	Microcystis_phage	32.5	1.7e-43
SQG60754.1|1459817_1460546_+	two-component response regulator	NA	NA	NA	NA	NA
SQG60755.1|1460527_1463377_-	two-component histidine kinase	NA	NA	NA	NA	NA
SQG60756.1|1463589_1464540_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60757.1|1464707_1465532_+	high-affinity branched-chain amino acid transporter ATP-binding protein	NA	A0A2R8FG22	Brazilian_cedratvirus	22.7	1.0e-08
SQG60758.1|1465531_1466410_+	high-affinity branched-chain amino acid transport system permease	NA	NA	NA	NA	NA
SQG60759.1|1466661_1466823_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60760.1|1467099_1467258_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60761.1|1467314_1468430_+	amino acids binding protein	NA	NA	NA	NA	NA
SQG60762.1|1468437_1469253_+	high-affinity branched-chain amino acid transporter ATP-binding protein	NA	W6JKT0	Anomala_cuprea_entomopoxvirus	23.7	7.5e-12
SQG60763.1|1469249_1471115_+	long-chain fatty-acid--CoA ligase	NA	A0A1V0SBX8	Catovirus	23.3	9.3e-50
SQG60764.1|1471193_1471826_+	TetR family transcriptional regulator	NA	NA	NA	NA	NA
SQG60765.1|1471822_1472125_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60766.1|1472167_1473688_-|tRNA	lysyl-tRNA synthetase	tRNA	A0A1V0SAC0	Catovirus	36.0	1.2e-82
SQG60767.1|1473694_1474450_-	short chain dehydrogenase	NA	NA	NA	NA	NA
SQG60768.1|1474479_1475361_-	peptide chain release factor 2	NA	NA	NA	NA	NA
SQG60769.1|1475686_1477423_-	single-stranded-DNA-specific exonuclease	NA	A7KV88	Bacillus_phage	28.3	1.3e-50
SQG60770.1|1477368_1478310_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG60771.1|1478355_1479636_+	lipoprotein releasing system transmembrane protein	NA	NA	NA	NA	NA
SQG60772.1|1479628_1480324_+	lipoprotein releasing system ATP-binding protein	NA	G9BWD6	Planktothrix_phage	38.6	7.0e-35
SQG60773.1|1480357_1481185_+	deoxyribonuclease	NA	NA	NA	NA	NA
SQG60774.1|1481466_1484697_+|protease	serine protease	protease	NA	NA	NA	NA
SQG60775.1|1485432_1489359_+	putative outer membrane ligand binding protein	NA	NA	NA	NA	NA
SQG60776.1|1489552_1491166_+	competence protein	NA	NA	NA	NA	NA
SQG60777.1|1491258_1493055_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60778.1|1493096_1494023_+	hydrolase	NA	NA	NA	NA	NA
SQG60779.1|1494092_1494938_+	phosphoesterase	NA	NA	NA	NA	NA
SQG60780.1|1495005_1495560_+	transcription elongation factor GreB	NA	NA	NA	NA	NA
SQG60781.1|1495606_1496557_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60782.1|1496655_1497279_-	serotype 2 fimbrial subunit	NA	NA	NA	NA	NA
SQG60783.1|1497457_1499740_-	NADP-dependent malic enzyme	NA	NA	NA	NA	NA
SQG60784.1|1499894_1502591_-	2-oxoacid dehydrogenase subunit E1	NA	NA	NA	NA	NA
SQG60785.1|1502716_1503205_+	transcription regulator AsnC	NA	NA	NA	NA	NA
SQG60786.1|1503240_1505103_+	oligopeptide transporter	NA	NA	NA	NA	NA
SQG60787.1|1505081_1505291_+	oligopeptide transporter	NA	NA	NA	NA	NA
SQG60788.1|1505615_1508486_+	2-oxoglutarate dehydrogenase E1 component	NA	NA	NA	NA	NA
SQG60789.1|1508531_1509746_+	2-oxoglutarate dehydrogenase complex, E2 component	NA	NA	NA	NA	NA
SQG60790.1|1509975_1511403_+	2-oxoglutarate dehydrogenase complex, E3 component	NA	A0A2K5B2C5	Erysipelothrix_phage	28.1	2.1e-41
SQG60791.1|1511500_1512592_+	ATPase	NA	NA	NA	NA	NA
SQG60792.1|1512604_1513363_-	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
SQG60793.1|1513450_1514353_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG60794.1|1514349_1515300_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60795.1|1515429_1516413_-	putattive exported protein	NA	NA	NA	NA	NA
SQG60796.1|1516467_1517190_-	short-chain dehydrogenase	NA	NA	NA	NA	NA
SQG60797.1|1517186_1517594_-	alpha-ketoglutarate-dependent taurine dioxygenase	NA	NA	NA	NA	NA
SQG60798.1|1517657_1518524_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60799.1|1518668_1520024_+|tRNA	tryptophanyl-tRNA synthetase	tRNA	NA	NA	NA	NA
SQG60800.1|1520104_1522480_-	transcription accessory protein	NA	NA	NA	NA	NA
SQG60801.1|1522644_1524720_+	ATP-dependent helicase	NA	A0A127AW80	Bacillus_phage	30.0	2.4e-75
SQG60802.1|1524781_1525630_-	competence lipoprotein	NA	NA	NA	NA	NA
SQG60803.1|1525683_1526646_+	ribosomal large subunit pseudouridine synthase D	NA	NA	NA	NA	NA
SQG60804.1|1526633_1527389_+	Laccase domain protein yfiH	NA	NA	NA	NA	NA
SQG60805.1|1527496_1529134_+	poly-beta-hydroxybutyrate polymerase	NA	NA	NA	NA	NA
SQG60806.1|1529201_1529939_+	3-ketoacyl-(acyl-carrier-protein) reductase	NA	NA	NA	NA	NA
SQG60807.1|1530041_1530617_+	regulator of poly-beta-hydroxybutyrate (PHB) biosynthesis	NA	NA	NA	NA	NA
SQG60808.1|1530789_1531326_+	Pathogen-specific membrane antigen	NA	NA	NA	NA	NA
SQG60809.1|1531358_1531673_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60810.1|1531688_1532534_+	permease	NA	NA	NA	NA	NA
SQG60811.1|1532572_1533952_+	regulatory protein	NA	NA	NA	NA	NA
SQG60812.1|1534029_1534911_+	hypotheticals protein	NA	NA	NA	NA	NA
SQG60813.1|1535009_1535960_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60814.1|1536058_1537009_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60815.1|1537005_1537416_-	dioxygenase	NA	NA	NA	NA	NA
SQG60816.1|1537523_1538378_-	2-pyrone-4,6-dicarboxylic acid hydrolase	NA	NA	NA	NA	NA
SQG60817.1|1538370_1539333_-	lipoprotein	NA	NA	NA	NA	NA
SQG60818.1|1539378_1540503_-	racemase	NA	Q6A202	Oenococcus_phage	28.3	1.5e-31
SQG60819.1|1540608_1541487_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG60820.1|1541611_1542391_+	short-chain dehydrogenase	NA	NA	NA	NA	NA
SQG60821.1|1542544_1543966_+	efflux protein	NA	NA	NA	NA	NA
SQG60822.1|1544400_1546098_+	sodium/solute symporter	NA	NA	NA	NA	NA
SQG60823.1|1546126_1546249_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60824.1|1546324_1547437_-	muramoyltetrapeptide carboxypeptidase	NA	NA	NA	NA	NA
SQG60825.1|1547592_1548339_+	adolase	NA	NA	NA	NA	NA
SQG60826.1|1548346_1549252_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG60827.1|1549394_1550312_+	oxidoreductase	NA	NA	NA	NA	NA
SQG60828.1|1550351_1551305_+	lipoprotein	NA	NA	NA	NA	NA
SQG60829.1|1551329_1551908_+	Protein of uncharacterised function (DUF1185)	NA	NA	NA	NA	NA
SQG60830.1|1551922_1552339_-	membrane protein	NA	NA	NA	NA	NA
SQG60831.1|1552373_1553507_-	membrane protein	NA	A0A0R6PEZ3	Moraxella_phage	41.2	1.4e-35
SQG60832.1|1553758_1554190_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60833.1|1554267_1554621_-	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG60834.1|1554704_1555694_-	succinylglutamate desuccinylase	NA	NA	NA	NA	NA
SQG60835.1|1555896_1556847_+|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 15
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	1664604	1724452	4133344	transposase,protease	Vibrio_phage(20.0%)	59	NA	NA
SQG60936.1|1664604_1665555_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60937.1|1665908_1666490_-	membrane protein	NA	A0A2I7SAW6	Vibrio_phage	37.3	9.4e-17
SQG60938.1|1666486_1667320_-	pyrroline-5-carboxylate reductase	NA	NA	NA	NA	NA
SQG60939.1|1667530_1668844_+	glycerol-3-phosphate-binding periplasmic protein precursor	NA	NA	NA	NA	NA
SQG60940.1|1669020_1669902_+	sn-glycerol-3-phosphate ABC transporter permease	NA	NA	NA	NA	NA
SQG60941.1|1669921_1670773_+	sn-glycerol-3-phosphate ABC transporter permease	NA	NA	NA	NA	NA
SQG60942.1|1670825_1671914_+	sn-glycerol-3-phosphate transport ATP-binding protein	NA	G9BWD6	Planktothrix_phage	31.2	2.2e-19
SQG60943.1|1672024_1673152_-	leu/ile/val-binding protein	NA	NA	NA	NA	NA
SQG60944.1|1673272_1673998_+	Predicted esterase of the alpha/beta hydrolase fold	NA	NA	NA	NA	NA
SQG60945.1|1674096_1675047_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60946.1|1675026_1675311_-	membrane protein	NA	NA	NA	NA	NA
SQG60947.1|1675268_1675646_-	membrane protein	NA	NA	NA	NA	NA
SQG60948.1|1675793_1676291_+	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG60949.1|1676287_1676815_+	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG60950.1|1676948_1677764_+	D-methionine ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
SQG60951.1|1677776_1678958_-	L-lactate dehydrogenase	NA	NA	NA	NA	NA
SQG60952.1|1679005_1679899_-	phosphatidylserine decarboxylase proenzyme	NA	NA	NA	NA	NA
SQG60953.1|1680025_1680496_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60954.1|1680621_1681449_-	lipoprotein	NA	NA	NA	NA	NA
SQG60955.1|1681477_1682254_-	lipoate-protein ligase A	NA	NA	NA	NA	NA
SQG60956.1|1682250_1682526_-	lipoate-protein ligase A	NA	NA	NA	NA	NA
SQG60957.1|1682540_1683005_-	acetyltransferase	NA	NA	NA	NA	NA
SQG60958.1|1683016_1683718_-	glutathione transferase	NA	NA	NA	NA	NA
SQG60959.1|1683827_1684328_-	glutathione peroxidase	NA	Q6VZR0	Canarypox_virus	38.4	4.7e-25
SQG60960.1|1684410_1687041_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG60961.1|1687216_1687552_+	Uncharacterized enzyme of heme biosynthesis	NA	NA	NA	NA	NA
SQG60962.1|1687739_1689188_+	carnitine dehydratase	NA	NA	NA	NA	NA
SQG60963.1|1689245_1689590_+	putative arsenate reductase	NA	A0A2H4J8T1	uncultured_Caudovirales_phage	58.4	3.0e-31
SQG60964.1|1689696_1690236_-	bacterioferritin comigratory protein	NA	NA	NA	NA	NA
SQG60965.1|1690328_1691279_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG60966.1|1691377_1691785_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60967.1|1692017_1692449_-	membrane protein	NA	NA	NA	NA	NA
SQG60968.1|1692630_1693035_-	membrane protein	NA	NA	NA	NA	NA
SQG60969.1|1693125_1693851_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60970.1|1693936_1694275_+|protease	metalloprotease	protease	NA	NA	NA	NA
SQG60971.1|1694271_1694595_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60972.1|1694597_1695485_-	oxidoreductase	NA	NA	NA	NA	NA
SQG60973.1|1695517_1695943_-	universal stress family protein	NA	NA	NA	NA	NA
SQG60974.1|1696014_1696368_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60975.1|1696607_1697114_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60976.1|1697152_1698484_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
SQG60977.1|1698543_1699359_+	Predicted enzyme with a TIM-barrel fold	NA	NA	NA	NA	NA
SQG60978.1|1699355_1700210_+	pyridoxine kinase	NA	NA	NA	NA	NA
SQG60979.1|1700310_1702230_+	two-component sensor histidine kinase	NA	NA	NA	NA	NA
SQG60980.1|1702196_1703282_+	two-component sensor histidine kinase	NA	B5LWN8	Feldmannia_species_virus	26.7	6.9e-05
SQG60981.1|1705812_1706754_-	4-alpha-glucanotransferase	NA	NA	NA	NA	NA
SQG60982.1|1706738_1707122_-	4-alpha-glucanotransferase	NA	NA	NA	NA	NA
SQG60983.1|1707182_1708937_-	alpha amylase	NA	NA	NA	NA	NA
SQG60984.1|1708933_1711054_-	glycosyl hydrolase	NA	NA	NA	NA	NA
SQG60985.1|1711058_1713254_-	1,4-alpha-glucan-branching protein	NA	NA	NA	NA	NA
SQG60986.1|1713250_1716592_-	alpha-glucosidase	NA	NA	NA	NA	NA
SQG60987.1|1716603_1718136_-	alpha-amylase	NA	NA	NA	NA	NA
SQG60988.1|1718129_1719272_-	alpha-amylase	NA	NA	NA	NA	NA
SQG60989.1|1719394_1720345_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG60990.1|1720410_1720590_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG60991.1|1720706_1721462_-	Esterase/lipase	NA	NA	NA	NA	NA
SQG60992.1|1721448_1722594_-	Protein of uncharacterised function (DUF3182)	NA	NA	NA	NA	NA
SQG60993.1|1722647_1723484_-	Inner membrane protein YbhQ / putative membrane protein	NA	NA	NA	NA	NA
SQG60994.1|1723501_1724452_+|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 16
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	1814065	1852655	4133344	transposase,protease	Emiliania_huxleyi_virus(14.29%)	37	NA	NA
SQG61081.1|1814065_1815400_+|protease	membrane-associated protease	protease	NA	NA	NA	NA
SQG61082.1|1815452_1817789_+	surface antigen	NA	NA	NA	NA	NA
SQG61083.1|1817914_1818478_+	outer membrane protein	NA	NA	NA	NA	NA
SQG61084.1|1818486_1819578_+	UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase	NA	NA	NA	NA	NA
SQG61085.1|1819649_1820105_+	(3R)-hydroxymyristoyl-ACP dehydratase	NA	NA	NA	NA	NA
SQG61086.1|1820105_1820900_+	acyl-[acyl-carrier-protein]--UDP-N- acetylglucosamine O-acyltransferase	NA	NA	NA	NA	NA
SQG61087.1|1820896_1822078_+	lipid-A-disaccharide synthase	NA	NA	NA	NA	NA
SQG61088.1|1822064_1822670_+	ribonuclease HII	NA	G9E3X7	Emiliania_huxleyi_virus	40.2	8.8e-26
SQG61089.1|1822666_1823440_+	RNA methyltransferase	NA	NA	NA	NA	NA
SQG61090.1|1823451_1824279_-	Putative phosphotransferase ydiA	NA	NA	NA	NA	NA
SQG61091.1|1824440_1826804_+	phosphoenolpyruvate synthase	NA	A0A1V0SGR7	Hokovirus	35.9	2.2e-165
SQG61092.1|1826871_1827591_-	class-I glutamine amidotransferase)	NA	NA	NA	NA	NA
SQG61093.1|1827714_1828140_+	membrane protein	NA	NA	NA	NA	NA
SQG61094.1|1828174_1829125_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61095.1|1829242_1830169_+	membrane protein	NA	NA	NA	NA	NA
SQG61096.1|1830234_1831392_+	membrane protein	NA	A0A127AWB9	Bacillus_phage	36.2	2.3e-14
SQG61097.1|1831372_1831840_-	ssrA-binding protein	NA	W5RAM5	Staphylococcus_phage	45.1	6.2e-27
SQG61098.1|1831987_1832938_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG61099.1|1832954_1833389_+	cyclase	NA	NA	NA	NA	NA
SQG61100.1|1833378_1833729_+	Uncharacterised protein family (UPF0125)	NA	NA	NA	NA	NA
SQG61101.1|1833925_1835080_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
SQG61102.1|1835076_1836249_+	enoly-CoA hydratase	NA	NA	NA	NA	NA
SQG61103.1|1836296_1837190_+	3-hydroxyisobutyrate dehydrogenase	NA	NA	NA	NA	NA
SQG61104.1|1837235_1837673_+	Putative esterase HI_1161	NA	NA	NA	NA	NA
SQG61105.1|1837732_1838422_+	membrane protein	NA	NA	NA	NA	NA
SQG61106.1|1838431_1839382_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61107.1|1839480_1840443_-	transaldolase B	NA	H6WFR1	Cyanophage	29.2	7.5e-11
SQG61108.1|1840669_1841824_+	carbamoyl-phosphate synthase small subunit	NA	R4TGJ8	Halovirus	35.4	3.3e-53
SQG61109.1|1841834_1845077_+	carbamoyl-phosphate synthase large subunit	NA	NA	NA	NA	NA
SQG61110.1|1845226_1845934_+	short chain dehydrogenase	NA	NA	NA	NA	NA
SQG61111.1|1846098_1846743_-	phosphoglycerate mutase	NA	NA	NA	NA	NA
SQG61112.1|1846753_1847653_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG61113.1|1847700_1848786_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	37.7	6.4e-27
SQG61114.1|1848782_1850477_-	permease of ABC transporter	NA	NA	NA	NA	NA
SQG61115.1|1850510_1850669_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG61116.1|1850655_1851606_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG61117.1|1851704_1852655_+|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 17
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	2425335	2462728	4133344	transposase	Erysipelothrix_phage(100.0%)	37	NA	NA
SQG61649.1|2425335_2426286_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61650.1|2426367_2427153_-	ABC transporter permease	NA	NA	NA	NA	NA
SQG61651.1|2427156_2428029_-	ABC transporter permease	NA	NA	NA	NA	NA
SQG61652.1|2428106_2429246_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
SQG61653.1|2429604_2430861_+	dioxygenase hydroxylase component	NA	NA	NA	NA	NA
SQG61654.1|2430866_2431394_+	dioxygenase component	NA	NA	NA	NA	NA
SQG61655.1|2431404_2432217_+	enoyl-CoA hydratase/isomerase-like protein	NA	NA	NA	NA	NA
SQG61656.1|2432216_2432939_+	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
SQG61657.1|2432960_2433275_+	ferredoxin	NA	NA	NA	NA	NA
SQG61658.1|2433292_2434441_+	fatty-acyl-CoA racemase	NA	NA	NA	NA	NA
SQG61659.1|2434471_2435347_-	esterase	NA	NA	NA	NA	NA
SQG61660.1|2435343_2436663_-	acyl-CoA ligase	NA	NA	NA	NA	NA
SQG61661.1|2436735_2437932_-	thiolase	NA	NA	NA	NA	NA
SQG61662.1|2437942_2439313_-	Predicted nucleic-acid-binding protein containing a Zn-ribbon	NA	NA	NA	NA	NA
SQG61663.1|2439670_2441494_-	Protein of uncharacterised function (DUF3604)	NA	NA	NA	NA	NA
SQG61664.1|2442117_2442924_+	lysR-family transcriptional regulator	NA	NA	NA	NA	NA
SQG61665.1|2443061_2444027_+	lipoprotein	NA	NA	NA	NA	NA
SQG61666.1|2444125_2445076_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG61667.1|2445297_2446248_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG61668.1|2446244_2446547_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG61669.1|2446706_2447111_+	Group 3 truncated hemoglobin ctb	NA	NA	NA	NA	NA
SQG61670.1|2447103_2448330_+	NnrS protein	NA	NA	NA	NA	NA
SQG61671.1|2448326_2448773_+	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG61672.1|2448842_2449625_+	exodeoxyribonuclease III	NA	NA	NA	NA	NA
SQG61673.1|2449666_2451172_+	peptidase	NA	NA	NA	NA	NA
SQG61674.1|2451457_2452291_-	oxidoreductase	NA	NA	NA	NA	NA
SQG61675.1|2452248_2452824_-	amidase	NA	NA	NA	NA	NA
SQG61676.1|2452902_2453697_-	amidase	NA	NA	NA	NA	NA
SQG61677.1|2453728_2454550_-	putative hydrolase	NA	NA	NA	NA	NA
SQG61678.1|2454568_2455423_-	polysaccharide deacetylase	NA	NA	NA	NA	NA
SQG61679.1|2455426_2456398_-	lipoprotein	NA	NA	NA	NA	NA
SQG61680.1|2456436_2457420_+	transcriptional regulator	NA	NA	NA	NA	NA
SQG61681.1|2457744_2458695_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61682.1|2458681_2459734_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61683.1|2459832_2460129_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG61684.1|2460303_2461656_+	glutathione reductase	NA	A0A2K5B2C5	Erysipelothrix_phage	27.6	2.9e-45
SQG61685.1|2461798_2462728_-|transposase	transposase for IS1663	transposase	NA	NA	NA	NA
>prophage 18
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	2472990	2507140	4133344	transposase,protease	Mycobacterium_phage(25.0%)	37	NA	NA
SQG61695.1|2472990_2473599_-|protease	Uncharacterized protein, similar to the N-terminal domain of Lon protease	protease	NA	NA	NA	NA
SQG61696.1|2473773_2474169_+	PhnB protein	NA	NA	NA	NA	NA
SQG61697.1|2474187_2475627_+	transmembrane efflux protein	NA	A0A0M3UL24	Mycobacterium_phage	37.4	7.4e-55
SQG61698.1|2475655_2476003_+	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG61699.1|2476021_2476972_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61700.1|2477070_2477478_-	acetyltransferase	NA	NA	NA	NA	NA
SQG61701.1|2477624_2478575_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG61702.1|2478658_2480476_+	ABC transporter permease/ATP-binding protein	NA	W8CYL7	Bacillus_phage	27.4	2.3e-37
SQG61703.1|2480603_2481197_+	lipoprotein	NA	NA	NA	NA	NA
SQG61704.1|2481209_2482139_-	metal transporter	NA	NA	NA	NA	NA
SQG61705.1|2482350_2482773_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG61706.1|2483020_2483701_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
SQG61707.1|2483749_2485441_+	sulfate transporter	NA	A0A2H4J153	uncultured_Caudovirales_phage	27.3	5.0e-42
SQG61708.1|2485456_2486008_-	Activator of Hsp90 ATPase homolog 1-like protein	NA	NA	NA	NA	NA
SQG61709.1|2486004_2486376_-	arsR family transcriptional regulator	NA	NA	NA	NA	NA
SQG61710.1|2486488_2487325_+	hydrolase-like protein	NA	NA	NA	NA	NA
SQG61711.1|2487335_2487815_-	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG61712.1|2487957_2488137_+	Protein of unknwon function (DUF3008)	NA	NA	NA	NA	NA
SQG61713.1|2488266_2489229_-	AraC family transcriptional regulator	NA	NA	NA	NA	NA
SQG61714.1|2489371_2489728_+	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG61715.1|2489717_2490593_-	oxidoreductase	NA	NA	NA	NA	NA
SQG61716.1|2490691_2491576_+	lysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG61717.1|2491597_2492893_-	Predicted membrane protein	NA	NA	NA	NA	NA
SQG61718.1|2492889_2493246_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG61719.1|2493251_2493710_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG61720.1|2493841_2494492_+	Putative NAD(P)H-dependent FMN-containing oxidoreductase ywqN	NA	NA	NA	NA	NA
SQG61721.1|2494579_2496100_-	aldehyde dehydrogenase	NA	NA	NA	NA	NA
SQG61722.1|2496357_2498223_+	sigma-54-dependent transcriptional regulator	NA	NA	NA	NA	NA
SQG61723.1|2498306_2499170_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61724.1|2499268_2500219_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61725.1|2500455_2501106_-	Inner membrane protein yohK	NA	NA	NA	NA	NA
SQG61726.1|2501191_2501551_-	integral membrane protein	NA	NA	NA	NA	NA
SQG61727.1|2501538_2502975_-	biotin synthesis protein	NA	NA	NA	NA	NA
SQG61728.1|2502971_2503625_-	biotin biosynthesis protein	NA	NA	NA	NA	NA
SQG61729.1|2503621_2504815_-	8-amino-7-oxononanoate synthase	NA	NA	NA	NA	NA
SQG61730.1|2504918_2506193_+	adenosylmethionine-8-amino-7-oxononanoate aminotransferase	NA	A0A1V0SKB7	Klosneuvirus	28.9	9.6e-14
SQG61731.1|2506189_2507140_-|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 19
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	2586818	2621011	4133344	transposase,protease	Chrysochromulina_ericina_virus(14.29%)	36	NA	NA
SQG61812.1|2586818_2587769_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61813.1|2587969_2588779_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
SQG61814.1|2588903_2589854_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG61815.1|2589850_2590744_-	methylglyoxal synthase	NA	NA	NA	NA	NA
SQG61816.1|2590868_2591063_-	FeS assembly protein IscX	NA	NA	NA	NA	NA
SQG61817.1|2591062_2591404_-	ferredoxin, 2Fe-2S	NA	NA	NA	NA	NA
SQG61818.1|2591413_2593276_-	chaperone protein	NA	A0A0N9QXN8	Chrysochromulina_ericina_virus	42.4	3.0e-101
SQG61819.1|2593405_2593918_-	chaperone protein	NA	NA	NA	NA	NA
SQG61820.1|2593920_2594244_-	iron-sulfur cluster assembly protein	NA	A0A2H4N7N5	Lake_Baikal_phage	52.8	6.8e-25
SQG61821.1|2594245_2594656_-	scaffold protein	NA	A0A218MKD1	uncultured_virus	79.0	7.5e-53
SQG61822.1|2594693_2595905_-	cysteine desulfurase	NA	NA	NA	NA	NA
SQG61823.1|2595922_2596435_-	DNA-binding protein	NA	NA	NA	NA	NA
SQG61824.1|2596650_2597142_-	low molecular weight protein-tyrosine-phosphatase	NA	NA	NA	NA	NA
SQG61825.1|2597394_2599431_-	excinuclease ABC subunit B	NA	NA	NA	NA	NA
SQG61826.1|2599508_2600711_+	aromatic-amino-acid aminotransferase	NA	NA	NA	NA	NA
SQG61827.1|2600839_2601490_+	LexA repressor	NA	A0A2H4JG58	uncultured_Caudovirales_phage	50.7	3.3e-10
SQG61828.1|2601716_2602793_-	autotransporter	NA	NA	NA	NA	NA
SQG61829.1|2603047_2603998_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61830.1|2604568_2604781_-	lipoprotein	NA	NA	NA	NA	NA
SQG61831.1|2604798_2605530_-	lipoprotein	NA	NA	NA	NA	NA
SQG61832.1|2605564_2606206_-	3-oxoadipate CoA-transferase subunit B	NA	NA	NA	NA	NA
SQG61833.1|2606198_2606915_-	3-oxoadipate CoA-transferase subunit A	NA	NA	NA	NA	NA
SQG61834.1|2606911_2607325_-	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
SQG61835.1|2607333_2607906_-	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
SQG61836.1|2607898_2609077_-	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
SQG61837.1|2609079_2609856_-	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
SQG61838.1|2609877_2611035_-	thiolase	NA	NA	NA	NA	NA
SQG61839.1|2611031_2611463_-	Predicted nucleic-acid-binding protein containing a Zn-ribbon	NA	NA	NA	NA	NA
SQG61840.1|2611459_2612257_-	enoyl-CoA hydratase/isomerase	NA	NA	NA	NA	NA
SQG61841.1|2612276_2612678_-	acyl dehydratase	NA	NA	NA	NA	NA
SQG61842.1|2612744_2613716_-	putattive exported protein	NA	NA	NA	NA	NA
SQG61843.1|2613781_2615005_-	acyl-CoA transferase	NA	NA	NA	NA	NA
SQG61844.1|2615232_2616183_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG61845.1|2616306_2618760_-|protease	ATP-dependent protease La	protease	A0A0R6PGP8	Moraxella_phage	52.0	1.5e-220
SQG61846.1|2618948_2620253_-|protease	ATP-dependent Clp protease ATP-binding subunit	protease	G3M9Z9	Bacillus_virus	53.8	3.2e-129
SQG61847.1|2620357_2621011_-|protease	ATP-dependent Clp protease proteolytic subunit	protease	A0A223W000	Agrobacterium_phage	57.5	6.8e-56
>prophage 20
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	2641103	2687042	4133344	transposase,tRNA,protease	Synechococcus_phage(18.18%)	42	NA	NA
SQG61865.1|2641103_2642054_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61866.1|2642152_2643103_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61867.1|2643201_2644152_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61868.1|2644250_2646245_-	methyltransferase	NA	M4QRX9	Synechococcus_phage	33.3	4.4e-21
SQG61869.1|2646304_2647270_+	riboflavin biosynthesis protein	NA	NA	NA	NA	NA
SQG61870.1|2647259_2650121_+|tRNA	isoleucyl-tRNA synthetase	tRNA	A0A1V0SJ93	Klosneuvirus	25.5	1.0e-71
SQG61871.1|2650123_2650630_+	lipoprotein signal peptidase	NA	NA	NA	NA	NA
SQG61872.1|2650734_2651943_+	DNA/pantothenate metabolism flavoprotein	NA	Q9HH70	Methanothermobacter_phage	30.0	3.8e-36
SQG61873.1|2651944_2652883_-	permease	NA	NA	NA	NA	NA
SQG61874.1|2653044_2653518_+	AsnC family transcriptional regulator	NA	NA	NA	NA	NA
SQG61875.1|2653514_2654465_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61876.1|2654575_2655016_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG61877.1|2655144_2656374_-	peptidoglycan-binding protein	NA	NA	NA	NA	NA
SQG61878.1|2656412_2657303_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG61879.1|2657308_2658439_+	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG61880.1|2658530_2659019_-	Domain of uncharacterised function (DUF1854)	NA	NA	NA	NA	NA
SQG61881.1|2659015_2660788_-	ABC transporter	NA	W8CYL7	Bacillus_phage	32.4	5.7e-57
SQG61882.1|2661089_2661305_-	ABC transporter	NA	NA	NA	NA	NA
SQG61883.1|2661569_2664119_+	cyanophycin synthetase	NA	NA	NA	NA	NA
SQG61884.1|2664189_2666763_+	cyanphycin synthetase	NA	NA	NA	NA	NA
SQG61885.1|2667028_2667229_+	CsbD-like	NA	NA	NA	NA	NA
SQG61886.1|2667260_2667422_+	Small integral membrane protein	NA	NA	NA	NA	NA
SQG61887.1|2667479_2667818_+	Osmotically-inducible protein Y precursor	NA	NA	NA	NA	NA
SQG61888.1|2667966_2668917_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61889.1|2669015_2669699_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	36.6	1.3e-22
SQG61890.1|2669811_2670360_+	acyl-CoA thioesterase	NA	NA	NA	NA	NA
SQG61891.1|2670341_2672297_-	peptidyl-prolyl cis-trans isomerase D	NA	NA	NA	NA	NA
SQG61892.1|2673301_2674165_+	Protein involved in catabolism of external DNA	NA	NA	NA	NA	NA
SQG61893.1|2674168_2675584_-	pyridine nucleotide-disulfide oxidoreductase	NA	NA	NA	NA	NA
SQG61894.1|2675717_2676446_-	glutaredoxin	NA	A0A1D8KSL1	Synechococcus_phage	56.8	9.6e-43
SQG61895.1|2676584_2676785_-	heavy metal transport protein	NA	NA	NA	NA	NA
SQG61896.1|2676960_2677359_+	merR family transcriptional regulator	NA	NA	NA	NA	NA
SQG61897.1|2677382_2678783_-	23S rRNA 5-methyluridine methyltransferase	NA	A0A2K5B251	Erysipelothrix_phage	26.5	7.3e-31
SQG61898.1|2678901_2679654_-	Bacterial protein of uncharacterised function (Gcw_chp)	NA	NA	NA	NA	NA
SQG61899.1|2679942_2680542_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG61900.1|2680646_2681426_-	Predicted 3'-5' exonuclease related to the exonuclease domain of PolB	NA	NA	NA	NA	NA
SQG61901.1|2681422_2682307_-	peptidase	NA	A0A292GJG6	Xanthomonas_phage	49.5	4.6e-15
SQG61902.1|2682324_2683104_-	protein-L-isoaspartate O-methyltransferase	NA	A0A1B1IU40	uncultured_Mediterranean_phage	46.9	4.8e-32
SQG61903.1|2683088_2683847_-	stationary-phase survival protein	NA	A0A1B1ITZ2	uncultured_Mediterranean_phage	51.2	1.4e-68
SQG61904.1|2683984_2684620_+	glycerol-3-phosphate acyltransferase PlsY	NA	NA	NA	NA	NA
SQG61905.1|2684974_2685904_+|transposase	transposase for IS1663	transposase	NA	NA	NA	NA
SQG61906.1|2686001_2687042_-|protease	glycoprotease	protease	A0A0R6PI74	Moraxella_phage	51.3	6.1e-91
>prophage 21
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	2705216	2765726	4133344	transposase	uncultured_Caudovirales_phage(40.0%)	60	NA	NA
SQG61924.1|2705216_2706167_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61925.1|2706322_2706649_-	pH adaptation potassium efflux protein	NA	NA	NA	NA	NA
SQG61926.1|2706645_2706927_-	pH adaptation potassium efflux system protein F	NA	NA	NA	NA	NA
SQG61927.1|2706926_2707403_-	pH adaptation potassium efflux protein	NA	NA	NA	NA	NA
SQG61928.1|2707402_2709031_-	pH adaptation potassium efflux protein	NA	NA	NA	NA	NA
SQG61929.1|2709027_2709372_-	pH adaptation potassium efflux protein	NA	NA	NA	NA	NA
SQG61930.1|2709371_2712305_-	pH adaptation potassium efflux protein	NA	NA	NA	NA	NA
SQG61931.1|2712726_2713473_+	putattive exported protein	NA	NA	NA	NA	NA
SQG61932.1|2713463_2714414_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG61933.1|2714512_2714809_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG61934.1|2714930_2715833_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG61935.1|2715837_2716551_-	short-chain dehydrogenase	NA	NA	NA	NA	NA
SQG61936.1|2716564_2717536_-	putattive exported protein	NA	NA	NA	NA	NA
SQG61937.1|2717639_2719052_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG61938.1|2719285_2719636_+	transcriptional regulator	NA	NA	NA	NA	NA
SQG61939.1|2719639_2720827_+	Arabinose efflux permease	NA	NA	NA	NA	NA
SQG61940.1|2721000_2721273_+	arsenate reductase	NA	A0A2H4J8T1	uncultured_Caudovirales_phage	71.1	1.9e-28
SQG61941.1|2721250_2721988_+	NADPH-dependent FMN reductase	NA	A0A2H4J5V6	uncultured_Caudovirales_phage	68.2	1.3e-87
SQG61942.1|2721984_2722173_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG61943.1|2722281_2723232_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG61944.1|2723228_2723657_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG61945.1|2723850_2725044_-	sulfatase	NA	NA	NA	NA	NA
SQG61946.1|2725058_2726021_-	lipoprotein	NA	NA	NA	NA	NA
SQG61947.1|2726136_2727090_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG61948.1|2727099_2728092_-	putattive exported protein	NA	NA	NA	NA	NA
SQG61949.1|2728143_2728899_-	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
SQG61950.1|2728963_2729653_-	short chain dehydrogenase	NA	NA	NA	NA	NA
SQG61951.1|2729874_2730825_+	putative hydrolase	NA	NA	NA	NA	NA
SQG61952.1|2730855_2732052_+	lactate dehydrogenase	NA	NA	NA	NA	NA
SQG61953.1|2732048_2732822_+	short-chain dehydrogenase	NA	NA	NA	NA	NA
SQG61954.1|2732889_2733861_+	putattive exported protein	NA	NA	NA	NA	NA
SQG61955.1|2733946_2734891_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG61956.1|2734868_2735738_-	alpha-ketoglutarate-dependent 2,4-dichlorophenoxyacetate dioxygenase	NA	NA	NA	NA	NA
SQG61957.1|2735981_2736605_+	glutathione S-transferase	NA	NA	NA	NA	NA
SQG61958.1|2736746_2736917_+	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG61959.1|2736919_2737219_+	DNA-binding protein	NA	NA	NA	NA	NA
SQG61960.1|2737232_2740307_-	autotransporter	NA	NA	NA	NA	NA
SQG61961.1|2740436_2741111_+	response regulatory protein	NA	NA	NA	NA	NA
SQG61962.1|2741103_2742918_+	two-component sensor histidine kinase	NA	NA	NA	NA	NA
SQG61963.1|2742971_2743919_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG61964.1|2744023_2744974_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG61965.1|2744953_2745448_-	Predicted spermidine synthase with an N-terminal membrane domain	NA	NA	NA	NA	NA
SQG61966.1|2745526_2747152_-	arylsulfatase protein	NA	A0A2P0VMN7	Tetraselmis_virus	52.2	2.0e-149
SQG61967.1|2747201_2748236_-	nonspecific acid phosphatase	NA	NA	NA	NA	NA
SQG61968.1|2748238_2749585_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG61969.1|2749581_2751096_-	Predicted O-linked N-acetylglucosamine transferase, SPINDLY family	NA	NA	NA	NA	NA
SQG61970.1|2751086_2752574_-	VWFA-related Acidobacterial domain	NA	NA	NA	NA	NA
SQG61971.1|2752570_2753512_-	Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain)	NA	NA	NA	NA	NA
SQG61972.1|2753520_2754489_-	regulatory protein	NA	NA	NA	NA	NA
SQG61973.1|2754544_2754997_-	Serine/threonine-protein kinase pkn1	NA	NA	NA	NA	NA
SQG61974.1|2756028_2756997_+	Protein involved in meta-pathway of phenol degradation	NA	NA	NA	NA	NA
SQG61975.1|2757174_2758164_+	putattive exported protein	NA	NA	NA	NA	NA
SQG61976.1|2758210_2758969_+	short-chain dehydrogenase	NA	NA	NA	NA	NA
SQG61977.1|2759158_2759896_+	membrane protein	NA	A0A0S4KZH7	Pseudomonas_phage	46.6	4.1e-41
SQG61978.1|2759994_2760945_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG61979.1|2761129_2761912_+	high-affinity branched-chain amino acid transporter ATP-binding protein	NA	A0A2R8FG22	Brazilian_cedratvirus	25.8	2.0e-09
SQG61980.1|2761905_2762607_+	high-affinity branched-chain amino acid transporter ATP-binding protein	NA	NA	NA	NA	NA
SQG61981.1|2762846_2763449_+	TetR family transcriptional regulator	NA	NA	NA	NA	NA
SQG61982.1|2763424_2764312_-	putative oxidoreductase	NA	NA	NA	NA	NA
SQG61983.1|2764775_2765726_+|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 22
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	2805003	2857068	4133344	transposase,protease	Ectocarpus_siliculosus_virus(11.11%)	50	NA	NA
SQG62018.1|2805003_2805954_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG62019.1|2805973_2806879_-	pirin-like protein	NA	NA	NA	NA	NA
SQG62020.1|2806956_2807655_-	pirin-like protein	NA	NA	NA	NA	NA
SQG62021.1|2807814_2808759_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62022.1|2808768_2810256_-	nitrogen regulation protein NR(I)	NA	NA	NA	NA	NA
SQG62023.1|2810255_2811323_-	nitrogen regulation protein NR(II)	NA	Q8QKV7	Ectocarpus_siliculosus_virus	23.5	1.1e-05
SQG62024.1|2811386_2812799_-	glutamine synthetase	NA	NA	NA	NA	NA
SQG62025.1|2812984_2814205_-	porphyrin oxidoreductase	NA	NA	NA	NA	NA
SQG62026.1|2814226_2815177_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62027.1|2815275_2815917_-	deoxyribonucleotide triphosphate pyrophosphatase	NA	NA	NA	NA	NA
SQG62028.1|2816043_2817846_+	signaling protein	NA	NA	NA	NA	NA
SQG62029.1|2817723_2819415_-	methyl-accepting chemotaxis protein	NA	A0A2H4J162	uncultured_Caudovirales_phage	27.1	1.0e-10
SQG62030.1|2819497_2820403_-	transcriptional regulator	NA	NA	NA	NA	NA
SQG62031.1|2820584_2821961_+	catabolic enzyme	NA	NA	NA	NA	NA
SQG62032.1|2822127_2822868_-	ribonuclease PH	NA	NA	NA	NA	NA
SQG62033.1|2823004_2823931_+	YicC-like family, N-terminal region	NA	NA	NA	NA	NA
SQG62034.1|2824203_2824359_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62035.1|2824371_2824500_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62036.1|2824496_2824781_+	DNA-binding protein	NA	NA	NA	NA	NA
SQG62037.1|2824839_2826330_-	nucleosidase	NA	NA	NA	NA	NA
SQG62038.1|2826574_2827174_+	lipoprotein	NA	A0A0A8WF62	Clostridium_phage	41.6	1.4e-20
SQG62039.1|2827178_2827949_-	oxidoreductase	NA	NA	NA	NA	NA
SQG62040.1|2828186_2828900_+	cytochrome C	NA	NA	NA	NA	NA
SQG62041.1|2828896_2829814_+	cytochrome C	NA	NA	NA	NA	NA
SQG62042.1|2829949_2830582_+	guanylate kinase	NA	A0A218KC48	Bacillus_phage	33.9	2.4e-13
SQG62043.1|2830623_2830827_+	DNA-directed RNA polymerase subunit omega	NA	NA	NA	NA	NA
SQG62044.1|2830851_2833131_+	guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase	NA	A0A1B1IUF0	uncultured_Mediterranean_phage	32.1	5.9e-06
SQG62045.1|2833143_2833872_-	glutamine transport ATP-binding protein	NA	G9BWD6	Planktothrix_phage	39.3	3.3e-35
SQG62046.1|2833868_2834468_-	glutamine transport system permease	NA	NA	NA	NA	NA
SQG62047.1|2834596_2835349_-	glutamine-binding periplasmic protein	NA	NA	NA	NA	NA
SQG62048.1|2835530_2836481_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62049.1|2836889_2837288_+	membrane-associated peptidase	NA	NA	NA	NA	NA
SQG62050.1|2837373_2838279_+	dihydrodipicolinate synthase	NA	NA	NA	NA	NA
SQG62051.1|2838296_2839418_+	lipoprotein	NA	NA	NA	NA	NA
SQG62052.1|2839506_2840151_-	serotype 3 fimbrial subunit	NA	NA	NA	NA	NA
SQG62053.1|2840778_2841966_-	Cupin superfamily protein	NA	NA	NA	NA	NA
SQG62054.1|2841962_2844560_-	DNA mismatch repair protein MutS	NA	A0A1V0SDQ0	Indivirus	22.6	1.5e-21
SQG62055.1|2844814_2845030_+	Protein of uncharacterised function (DUF1458)	NA	NA	NA	NA	NA
SQG62056.1|2845485_2846040_-	chromate reductase	NA	A0A2P0ZL82	Lactobacillus_phage	32.0	1.7e-15
SQG62057.1|2846310_2846868_+	membrane protein	NA	NA	NA	NA	NA
SQG62058.1|2846979_2848284_+	Uncharacterized iron-regulated protein	NA	NA	NA	NA	NA
SQG62059.1|2848379_2849792_+	Predicted thiol oxidoreductase	NA	NA	NA	NA	NA
SQG62060.1|2849897_2850899_+	Predicted periplasmic lipoprotein	NA	NA	NA	NA	NA
SQG62061.1|2850879_2852001_+	Protein of uncharacterised function (DUF1513)	NA	NA	NA	NA	NA
SQG62062.1|2852099_2853050_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG62063.1|2853046_2853673_-	translation factor	NA	NA	NA	NA	NA
SQG62064.1|2853732_2854584_+|protease	Predicted metalloprotease	protease	A0A1I9SA48	Rhodococcus_phage	35.3	7.0e-37
SQG62065.1|2854750_2855287_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62066.1|2855283_2856048_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62067.1|2856117_2857068_-|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 23
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	2870380	2917964	4133344	transposase,integrase,tRNA,protease	Planktothrix_phage(15.38%)	53	2856117:2856176	2915830:2916883
2856117:2856176	attL	GCTAGGTGTGAACTGTCAATAGGTTGTATTCGTCCAGGTTGAGTCTGGAGATGGGTACAG	NA	NA	NA	NA
SQG62076.1|2870380_2871331_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62077.1|2871429_2871798_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62078.1|2871903_2872482_-|protease	intracellular protease, PfpI family	protease	NA	NA	NA	NA
SQG62079.1|2872599_2873127_-	regulatory protein	NA	NA	NA	NA	NA
SQG62080.1|2873101_2874034_-|integrase	integrase/recombinase	integrase	A0A0K2CP59	Brevibacillus_phage	29.5	2.3e-25
SQG62081.1|2874071_2874959_-	LysR familyt ranscriptional regulator	NA	Q6JIH3	Burkholderia_virus	28.7	3.4e-18
SQG62082.1|2875116_2876811_+	thiamine pyrophosphate protein	NA	E5ERI2	Ostreococcus_lucimarinus_virus	24.5	3.8e-26
SQG62083.1|2876890_2878084_+	glutaryl-CoA dehydrogenase	NA	NA	NA	NA	NA
SQG62084.1|2878221_2878665_-	dehydratase	NA	NA	NA	NA	NA
SQG62085.1|2878798_2880358_-	thiamine-pyrophosphate-requiring enzyme	NA	NA	NA	NA	NA
SQG62086.1|2880486_2881167_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	38.9	2.8e-28
SQG62087.1|2881260_2881953_-	binding-protein-dependent transport system inner membrane protein	NA	NA	NA	NA	NA
SQG62088.1|2881975_2882767_-	amino acid-binding periplasmic protein	NA	NA	NA	NA	NA
SQG62089.1|2882793_2883699_-	arginase	NA	NA	NA	NA	NA
SQG62090.1|2883891_2884728_-	transcriptional regulator	NA	NA	NA	NA	NA
SQG62091.1|2884819_2885842_-	extracellular substrate-binding protein	NA	A0A1B1IT51	uncultured_Mediterranean_phage	40.7	1.6e-67
SQG62092.1|2885978_2887016_-	translation factor	NA	S4VW33	Pandoravirus	37.8	3.6e-35
SQG62093.1|2887035_2888226_-	phosphoribosylaminoimidazole carboxylase ATPase subunit	NA	NA	NA	NA	NA
SQG62094.1|2888228_2888744_-	phosphoribosylaminoimidazole carboxylase catalytic subunit	NA	A0A2P0VNU7	Tetraselmis_virus	42.6	7.0e-16
SQG62095.1|2888893_2889373_-	disulfide bond formation protein B	NA	NA	NA	NA	NA
SQG62096.1|2889380_2889545_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62097.1|2889636_2890038_-	DNA-binding protein	NA	NA	NA	NA	NA
SQG62098.1|2890040_2890214_-	mRNA interferase MqsR	NA	NA	NA	NA	NA
SQG62099.1|2890346_2891228_-	phosphoribosylaminoimidazole-succinocarboxamide synthase	NA	A0A0M4JBD3	Mollivirus	36.1	1.8e-51
SQG62100.1|2891452_2891899_+	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG62101.1|2891983_2893048_-	fructose-1,6-bisphosphate aldolase	NA	NA	NA	NA	NA
SQG62102.1|2893184_2893766_-	molybdenum cofactor biosynthesis protein MoaC /MOSC-domain-containing protein	NA	NA	NA	NA	NA
SQG62103.1|2894000_2895131_+	LuxR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62104.1|2895308_2896535_+	formamidase	NA	A0A1V0S8X7	Catovirus	58.8	5.2e-134
SQG62105.1|2896593_2897109_+	transporter protein	NA	NA	NA	NA	NA
SQG62106.1|2897131_2897458_+	putative regulatory protein, FmdB family	NA	NA	NA	NA	NA
SQG62107.1|2897491_2898682_+	formate dehydrogenase	NA	NA	NA	NA	NA
SQG62108.1|2898755_2899160_+	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG62109.1|2899376_2900327_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62110.1|2900425_2901196_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	39.5	8.3e-29
SQG62111.1|2901192_2901864_-	binding-protein-dependent transport system inner membrane protein	NA	NA	NA	NA	NA
SQG62112.1|2901860_2902502_-	binding-protein-dependent transport system inner membrane protein	NA	NA	NA	NA	NA
SQG62113.1|2902514_2903435_-	extracellular substrate-binding protein	NA	NA	NA	NA	NA
SQG62114.1|2903595_2904756_-	ABC transporter substrate binding protein	NA	NA	NA	NA	NA
SQG62115.1|2904797_2905748_-	ornithine cyclodeaminase	NA	NA	NA	NA	NA
SQG62116.1|2906412_2906613_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62117.1|2906735_2908430_-	phosphoenolpyruvate-protein phosphotransferase	NA	NA	NA	NA	NA
SQG62118.1|2908551_2908821_-	phosphocarrier protein HPr	NA	NA	NA	NA	NA
SQG62119.1|2908936_2909335_-	PTS system IIa component	NA	NA	NA	NA	NA
SQG62120.1|2909345_2910302_-	glutathione synthetase	NA	NA	NA	NA	NA
SQG62121.1|2910438_2910933_-	translation initiation factor IF-3	NA	A0A2L0UZ54	Agrobacterium_phage	30.5	4.1e-13
SQG62122.1|2911004_2912954_-|tRNA	threonyl-tRNA synthetase	tRNA	A0A2K9L297	Tupanvirus	36.0	4.1e-125
SQG62123.1|2913341_2914118_+	two-component response regulator	NA	NA	NA	NA	NA
SQG62124.1|2914123_2914516_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62125.1|2914512_2914920_-	oxygen-independent coproporphyrinogen III oxidase	NA	NA	NA	NA	NA
SQG62126.1|2914937_2915888_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG62127.1|2915884_2916523_-	signaling protein	NA	A0A127AWB9	Bacillus_phage	37.3	2.0e-20
SQG62128.1|2917013_2917964_-|transposase	transposase	transposase	NA	NA	NA	NA
2915830:2916883	attR	CTGTACCCATCTCCAGACTCAACCTGGACGAATACAACCTATTGACAGTTCACACCTAGCCGGGATAGCACAGGCGGTTCGCGGGGTTGCCCGCATGGCTTTGCTCAGCAGATGGAGCAATCCGGACACGATTGCGCCCGTCGGCCTTGGCCTTGTACAAGGCCAGGTCCGCGCTTCTGAATGCCCTGTCGATACCGGCTACGGACGTCTTCACCAGCACGGCGCCAATGCTCGCCGTGATCGACACGGTTCCGGCCGAGTGGGTAACGACACAATCGCCCAGGGCAACTCGAAATCGCTCGAGCAGCCGTTGCATGCCCCCTTCATCGACATCCTGCATCAATACGCAGAACTCCTCGCCGCCAAAGCGTGCTACGCAGTCGCTCTCCCGGAAAAACTCATTCATCATCTTTCCGACAAAGGCGAGAACGACATCTCCCACGTCATGTCCGTAGGTATCGTTGATCTGCTTGAAGTGGTCGATATCGACTACGGCGAACCCCAATCCCGTACCAACTTCGGCACGACGCCGCTCGCCTTCCAGGCGCCTGGTCTGGAAGCTCTCGGTAAACGCCCGTCGATTCATGATCTGGGTCAGAGGATCCGTGCGGGATAGATGCGTCAGCCTTTCCACCTGCCTGTGGACGCGGATCAATGTCGCAATCCACATCGCCAGGGCTTCGATCTTGCGCATGTCCGCCAACGTGAACCCATTCCGATCCCGGCGTCCAACGTTGATCGTTCCATAACAATCGCGGCCGCTGCGCAATGGGGCATCGAGGCATGAGCCAAGGCCCCGGGAGGCGAGAATAAGACAATCTAGATCCGTGGACGCGGCAAGGTCGTCACAAATTTCGGCCTGTCCCCTGCTGAACACTCGCCCCACCATCGTCCCATGGATGGGAACTGGCGCGTCCACGTCAATAACACGGTTGCCTTCCAGGGCTACTACACGAAGGTGGGAATCATTGACCGGAAATGTAATAGACGCACGATCCGCGACGAACATCTCCATGAACCACGTCGCTACGACCTTCAGAATCTCGTCGATCGA	NA	NA	NA	NA
>prophage 24
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	3047799	3088468	4133344	transposase,tRNA	Salmonella_phage(33.33%)	42	NA	NA
SQG62254.1|3047799_3048750_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62255.1|3048860_3049043_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62256.1|3049142_3049736_-	lipoprotein	NA	NA	NA	NA	NA
SQG62257.1|3049922_3051014_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62258.1|3051513_3051924_-	merR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62259.1|3051982_3052312_-	integration host factor subunit alpha	NA	A0A0H3UZA0	Geobacillus_virus	42.2	2.7e-13
SQG62260.1|3052329_3054747_-|tRNA	phenylalanyl-tRNA synthetase subunit beta	tRNA	NA	NA	NA	NA
SQG62261.1|3054759_3055782_-|tRNA	phenylalanyl-tRNA synthetase subunit alpha	tRNA	A0A2H4UW22	Bodo_saltans_virus	38.6	1.0e-26
SQG62262.1|3055856_3056216_-	50S ribosomal protein L20	NA	NA	NA	NA	NA
SQG62263.1|3056231_3056429_-	50S ribosomal protein L35	NA	NA	NA	NA	NA
SQG62264.1|3056764_3057715_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62265.1|3057909_3058359_+	deoxyuridine 5'-triphosphate nucleotidohydrolase	NA	S4TNT3	Salmonella_phage	67.2	3.7e-45
SQG62266.1|3058355_3059306_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62267.1|3059416_3060865_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62268.1|3060979_3061225_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62269.1|3061364_3062315_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG62270.1|3062559_3063273_-	biotin biosynthesis protein BioC	NA	NA	NA	NA	NA
SQG62271.1|3063395_3063623_-	acetyltransferase	NA	NA	NA	NA	NA
SQG62272.1|3063917_3064556_-	DedA family integral membrane protein	NA	NA	NA	NA	NA
SQG62273.1|3064664_3065699_+	integral membrane protein	NA	NA	NA	NA	NA
SQG62274.1|3065695_3066646_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62275.1|3066663_3067053_+	regulatory protein	NA	NA	NA	NA	NA
SQG62276.1|3067061_3067586_-	DNA-binding protein	NA	J9Q7G7	Salmonella_phage	32.9	6.5e-09
SQG62277.1|3067589_3067859_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62278.1|3068057_3069119_-	LacI family transcriptional regulator	NA	NA	NA	NA	NA
SQG62279.1|3069202_3070837_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	31.1	2.9e-15
SQG62280.1|3070838_3071693_-	ABC transporter protein inner membrane protein	NA	NA	NA	NA	NA
SQG62281.1|3071670_3072630_-	ABC transporter protein inner membrane protein	NA	NA	NA	NA	NA
SQG62282.1|3072633_3074145_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
SQG62283.1|3074184_3075240_-	peptidase	NA	NA	NA	NA	NA
SQG62284.1|3075620_3076091_-	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG62285.1|3076126_3076738_-	membrane transport protein	NA	NA	NA	NA	NA
SQG62286.1|3076768_3077392_-	negative transcriptional regulator	NA	NA	NA	NA	NA
SQG62287.1|3077472_3079005_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62288.1|3079039_3080257_-	multidrug efflux system protein MdtL	NA	NA	NA	NA	NA
SQG62289.1|3080324_3081356_-	alcohol dehydrogenase	NA	A0A2K9L339	Tupanvirus	27.8	1.8e-26
SQG62290.1|3081352_3082522_-	Putrescine oxidase	NA	NA	NA	NA	NA
SQG62291.1|3082515_3083196_-	anti-sigma factor, putative, ChrR family	NA	NA	NA	NA	NA
SQG62292.1|3083357_3084200_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62293.1|3084362_3085334_-	AraC family transcriptional regulator	NA	NA	NA	NA	NA
SQG62294.1|3086406_3087477_-	Predicted membrane protein	NA	NA	NA	NA	NA
SQG62295.1|3087517_3088468_-|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 25
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	3114615	3182146	4133344	transposase,tRNA,protease	Bacillus_virus(14.29%)	59	NA	NA
SQG62318.1|3114615_3115566_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62319.1|3115629_3115911_+	putattive exported protein	NA	NA	NA	NA	NA
SQG62320.1|3115981_3118618_-	GTP-binding protein	NA	NA	NA	NA	NA
SQG62321.1|3118614_3119739_-	exonuclease	NA	NA	NA	NA	NA
SQG62322.1|3119735_3121118_-	D-amino acid dehydrogenase small subunit	NA	NA	NA	NA	NA
SQG62323.1|3121253_3121721_+	leucine-responsive regulatory protein	NA	NA	NA	NA	NA
SQG62324.1|3121842_3122511_+	membrane protein	NA	NA	NA	NA	NA
SQG62325.1|3122640_3123786_+	lipoprotein	NA	NA	NA	NA	NA
SQG62326.1|3123787_3125518_-	sugar ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
SQG62327.1|3125635_3125944_-	integral membrane protein	NA	NA	NA	NA	NA
SQG62328.1|3125956_3126769_-	ABC transporter inner membrane protein	NA	NA	NA	NA	NA
SQG62329.1|3126761_3127184_-	ABC transporter inner membrane protein	NA	NA	NA	NA	NA
SQG62330.1|3127649_3129815_-	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	28.1	1.9e-14
SQG62331.1|3129940_3130729_+	glycerol-3-phosphate regulon repressor protein	NA	A0A077SK06	Escherichia_phage	30.4	2.0e-22
SQG62332.1|3130768_3132373_+	glycerol-3-phosphate dehydrogenase	NA	NA	NA	NA	NA
SQG62333.1|3132453_3133194_+	IclR family regulatory protein	NA	NA	NA	NA	NA
SQG62334.1|3133201_3133696_-	oxidoreductase	NA	NA	NA	NA	NA
SQG62335.1|3134068_3135046_-	putattive exported protein	NA	NA	NA	NA	NA
SQG62336.1|3135084_3136467_-	reductase flavoprotein subunit	NA	A0A2P0ZL82	Lactobacillus_phage	28.4	7.9e-30
SQG62337.1|3136499_3137360_-	Predicted metal-dependent hydrolase of the TIM-barrel fold	NA	NA	NA	NA	NA
SQG62338.1|3137609_3137882_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62339.1|3138441_3139245_+	Ser/Thr-rich protein T10	NA	NA	NA	NA	NA
SQG62340.1|3139303_3139741_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62341.1|3139831_3140803_-	lipoprotein	NA	NA	NA	NA	NA
SQG62342.1|3140841_3141786_-	dihydrodipicolinate synthase	NA	NA	NA	NA	NA
SQG62343.1|3142004_3142691_+	IclR-family regulatory protein	NA	NA	NA	NA	NA
SQG62344.1|3142767_3143142_-	MAPEG family	NA	NA	NA	NA	NA
SQG62345.1|3143248_3143941_-	integral membrane protein	NA	NA	NA	NA	NA
SQG62346.1|3143933_3144350_-|tRNA	peptidyl-tRNA hydrolase domain-containing protein	tRNA	NA	NA	NA	NA
SQG62347.1|3144460_3145093_+	7-carboxy-7-deazaguanine synthase	NA	NA	NA	NA	NA
SQG62348.1|3145121_3145565_+	6-pyruvoyl tetrahydrobiopterin synthase	NA	NA	NA	NA	NA
SQG62349.1|3145586_3146678_-	periplasmic solute-binding protein	NA	NA	NA	NA	NA
SQG62350.1|3146732_3147533_-	aldolase	NA	NA	NA	NA	NA
SQG62351.1|3147707_3148289_+	transcriptional regulator	NA	NA	NA	NA	NA
SQG62352.1|3148428_3148902_+	marR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62353.1|3148898_3149960_+	multidrug efflux protein	NA	NA	NA	NA	NA
SQG62354.1|3150041_3150992_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG62355.1|3150988_3158650_-	adhesin	NA	A0A0R6PJK4	Moraxella_phage	30.9	7.3e-24
SQG62356.1|3158890_3162937_-	phosphoribosylformylglycinamidine synthase	NA	A9YX36	Burkholderia_phage	67.4	6.3e-160
SQG62357.1|3163294_3163831_+	integral membrane protein	NA	NA	NA	NA	NA
SQG62358.1|3163827_3165126_+	membrane permease	NA	NA	NA	NA	NA
SQG62359.1|3165205_3166234_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
SQG62360.1|3166494_3167445_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG62361.1|3167441_3168392_-|transposase	IS1002 transposase	transposase	NA	NA	NA	NA
SQG62362.1|3168708_3169314_+	fimbrial protein	NA	NA	NA	NA	NA
SQG62363.1|3169367_3170681_-	phenylacetate-coenzyme A ligase	NA	NA	NA	NA	NA
SQG62364.1|3170755_3171226_-	phenylacetic acid degradation protein	NA	NA	NA	NA	NA
SQG62365.1|3171225_3172014_-	enoyl-CoA hydratase	NA	NA	NA	NA	NA
SQG62366.1|3172024_3173677_-	oxidoreductase	NA	NA	NA	NA	NA
SQG62367.1|3173764_3174715_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62368.1|3174701_3175865_-	phenylacetic acid degradation NADH oxidoreductase	NA	V5UTY8	Synechococcus_phage	46.7	5.9e-10
SQG62369.1|3175876_3176383_-	phenylacetic acid degradation protein	NA	NA	NA	NA	NA
SQG62370.1|3176379_3177144_-	phenylacetic acid degradation protein	NA	NA	NA	NA	NA
SQG62371.1|3177159_3177444_-	phenylacetate-CoA oxygenase subunit PaaB	NA	NA	NA	NA	NA
SQG62372.1|3177508_3178498_-	phenylacetate-CoA oxygenase subunit PaaA	NA	NA	NA	NA	NA
SQG62373.1|3178669_3179599_+	phenylacetic acid degradation operon negative regulatory protein	NA	NA	NA	NA	NA
SQG62374.1|3179570_3180257_-	Nicotinamide nucleotide repair protein	NA	NA	NA	NA	NA
SQG62375.1|3180290_3180836_-	oligoribonuclease	NA	Q8B5Y0	Diachasmimorpha_longicaudata_entomopoxvirus	37.7	2.1e-26
SQG62376.1|3180880_3182146_+|protease	integral membrane zinc-metalloprotease	protease	NA	NA	NA	NA
>prophage 26
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	3198640	3246348	4133344	transposase	Pelagibacter_phage(25.0%)	48	NA	NA
SQG62393.1|3198640_3199591_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62394.1|3199725_3200832_+	molybdenum-binding protein	NA	NA	NA	NA	NA
SQG62395.1|3200842_3201940_+	molybdenum cofactor biosynthesis protein	NA	NA	NA	NA	NA
SQG62396.1|3202084_3203290_-	molybdopterin cofactor biosynthesis protein	NA	NA	NA	NA	NA
SQG62397.1|3203296_3203818_-	molybdenum cofactor biosynthesis protein	NA	NA	NA	NA	NA
SQG62398.1|3203814_3204297_-	molybdopterin converting factor	NA	NA	NA	NA	NA
SQG62399.1|3204302_3204554_-	molybdopterin converting factor	NA	NA	NA	NA	NA
SQG62400.1|3204534_3205020_-	molybdenum cofactor biosynthesis protein	NA	NA	NA	NA	NA
SQG62401.1|3205155_3208617_+	Uncharacterized protein involved in outer membrane biogenesis	NA	NA	NA	NA	NA
SQG62402.1|3208634_3209519_+	hydrolase	NA	NA	NA	NA	NA
SQG62403.1|3209528_3209960_-	lipoprotein	NA	NA	NA	NA	NA
SQG62404.1|3210206_3210710_+	AhpC/TSA-family protein	NA	M1I839	Pelagibacter_phage	44.1	1.8e-24
SQG62405.1|3210721_3212188_+	membrane transport protein	NA	NA	NA	NA	NA
SQG62406.1|3212262_3213138_-	membrane protein	NA	NA	NA	NA	NA
SQG62407.1|3213134_3214142_-	biotin synthase	NA	NA	NA	NA	NA
SQG62408.1|3214609_3214915_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62409.1|3215005_3215596_+	TetR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62410.1|3215786_3216716_-|transposase	transposase for IS1663	transposase	NA	NA	NA	NA
SQG62411.1|3216994_3219331_-	membrane transport ATPase	NA	E4ZFI9	Streptococcus_phage	42.8	3.2e-124
SQG62412.1|3219413_3219848_+	merR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62413.1|3219946_3220897_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG62414.1|3220995_3221946_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG62415.1|3221942_3222737_-	N-formylglutamate amidohydrolase	NA	NA	NA	NA	NA
SQG62416.1|3222768_3223473_-	oxidoreductase	NA	NA	NA	NA	NA
SQG62417.1|3223547_3224348_-	exported SurF1 family protein	NA	NA	NA	NA	NA
SQG62418.1|3224344_3224752_-	cytochrome ubiquinol oxidase subunit IV	NA	NA	NA	NA	NA
SQG62419.1|3224748_3225390_-	cytochrome ubiquinol oxidase subunit III	NA	NA	NA	NA	NA
SQG62420.1|3225382_3227404_-	cytochrome ubiquinol oxidase subunit I	NA	NA	NA	NA	NA
SQG62421.1|3227440_3227932_-	ubiquinol oxidase subunit II	NA	NA	NA	NA	NA
SQG62422.1|3227933_3228374_-	ubiquinol oxidase subunit II	NA	NA	NA	NA	NA
SQG62423.1|3228643_3229975_+	membrane transport protein	NA	NA	NA	NA	NA
SQG62424.1|3229971_3230922_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62425.1|3231020_3231479_-	chelatase	NA	NA	NA	NA	NA
SQG62426.1|3231475_3232522_-	chelatase	NA	NA	NA	NA	NA
SQG62427.1|3232628_3232895_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG62428.1|3233602_3233941_+	nitrogen regulatory protein P-II	NA	NA	NA	NA	NA
SQG62429.1|3233966_3234692_+	ammonium transporter	NA	NA	NA	NA	NA
SQG62430.1|3234688_3235207_+	ammonium transporter	NA	NA	NA	NA	NA
SQG62431.1|3235269_3237390_-	autotransporter	NA	NA	NA	NA	NA
SQG62432.1|3237526_3238255_-	autotransporter	NA	NA	NA	NA	NA
SQG62433.1|3238493_3239096_-	TetR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62434.1|3239192_3240482_+	membrane transport protein	NA	NA	NA	NA	NA
SQG62435.1|3240539_3241271_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	31.0	1.4e-12
SQG62436.1|3241267_3242071_-	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	23.5	7.9e-14
SQG62437.1|3242067_3243156_-	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
SQG62438.1|3243152_3244082_-	ABC transporter inner membrane protein	NA	NA	NA	NA	NA
SQG62439.1|3244230_3245376_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
SQG62440.1|3245397_3246348_-|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 27
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	3254345	3309999	4133344	transposase,protease	uncultured_Mediterranean_phage(33.33%)	51	NA	NA
SQG62445.1|3254345_3256661_-|protease	ATP-dependent clp protease ATP-binding	protease	A0A223W0B1	Agrobacterium_phage	41.9	4.1e-164
SQG62446.1|3256716_3258885_-	penicillin-binding protein	NA	NA	NA	NA	NA
SQG62447.1|3258881_3264062_-	peptidase inhibitor	NA	NA	NA	NA	NA
SQG62448.1|3264160_3264475_-|protease	ATP-dependent Clp protease adaptor protein ClpS	protease	A0A1B1IT64	uncultured_Mediterranean_phage	43.8	1.2e-10
SQG62449.1|3265069_3265561_+	exported protein	NA	A0A1B1IUW8	uncultured_Mediterranean_phage	42.2	4.8e-14
SQG62450.1|3265660_3266866_-	beta-ketoadipyl CoA thiolase	NA	NA	NA	NA	NA
SQG62451.1|3266981_3268379_-	chloride-channel protein	NA	NA	NA	NA	NA
SQG62452.1|3268495_3269074_-	superoxide dismutase	NA	NA	NA	NA	NA
SQG62453.1|3270705_3271656_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62454.1|3271936_3272557_+	biopolymer transport protein	NA	NA	NA	NA	NA
SQG62455.1|3272553_3272967_+	biopolymer transport protein	NA	NA	NA	NA	NA
SQG62456.1|3272963_3274007_+	tetraacyldisaccharide 4'-kinase	NA	NA	NA	NA	NA
SQG62457.1|3274062_3274251_+	Trm112p-like protein	NA	NA	NA	NA	NA
SQG62458.1|3274260_3275025_+	3-deoxy-manno-octulosonate cytidylyltransferase	NA	NA	NA	NA	NA
SQG62459.1|3275115_3275772_+	adenylate kinase	NA	NA	NA	NA	NA
SQG62460.1|3275863_3276622_+	short-chain dehydrogenase	NA	NA	NA	NA	NA
SQG62461.1|3276647_3278249_+	integral membrane protein	NA	NA	NA	NA	NA
SQG62462.1|3278449_3279454_+	transmembrane sensor protein	NA	NA	NA	NA	NA
SQG62463.1|3279554_3279818_+	30S ribosomal protein S20	NA	NA	NA	NA	NA
SQG62464.1|3279935_3280703_-	aldolase	NA	NA	NA	NA	NA
SQG62465.1|3280762_3281197_-	lipoprotein	NA	NA	NA	NA	NA
SQG62466.1|3281302_3282253_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG62467.1|3282249_3282801_-	lipoprotein	NA	NA	NA	NA	NA
SQG62468.1|3282846_3283629_-	dihydroxy-acid dehydratase	NA	NA	NA	NA	NA
SQG62469.1|3283628_3284588_-	dihydroxy-acid dehydratase	NA	NA	NA	NA	NA
SQG62470.1|3284636_3285749_-	malate dehydrogenase	NA	NA	NA	NA	NA
SQG62471.1|3285805_3286756_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62472.1|3286964_3287186_-	lipoprotein	NA	NA	NA	NA	NA
SQG62473.1|3287399_3288806_-	threonine synthase	NA	NA	NA	NA	NA
SQG62474.1|3288802_3290107_-	homoserine dehydrogenase	NA	NA	NA	NA	NA
SQG62475.1|3290103_3291291_-	aminotransferase	NA	NA	NA	NA	NA
SQG62476.1|3291507_3291960_+	Protein of uncharacterised function (DUF498/DUF598)	NA	NA	NA	NA	NA
SQG62477.1|3291962_3292427_+	antioxidant protein	NA	NA	NA	NA	NA
SQG62478.1|3292506_3294186_+	PhoH-like protein	NA	A0A2I7SAD7	Vibrio_phage	36.7	7.3e-70
SQG62479.1|3294290_3295268_+	4-hydroxythreonine-4-phosphate dehydrogenase	NA	NA	NA	NA	NA
SQG62480.1|3295347_3296316_+	membrane protein	NA	NA	NA	NA	NA
SQG62481.1|3296336_3297710_-	replicative DNA helicase	NA	C7BGG1	Burkholderia_phage	58.2	4.0e-135
SQG62482.1|3297706_3298543_-	serine/threonine protein kinase	NA	NA	NA	NA	NA
SQG62483.1|3298659_3299115_-	50s ribosomal protein l9	NA	NA	NA	NA	NA
SQG62484.1|3299130_3299403_-	30S ribosomal protein S18	NA	NA	NA	NA	NA
SQG62485.1|3299495_3299744_-	primosomal replication protein n	NA	NA	NA	NA	NA
SQG62486.1|3299866_3300247_-	30s ribosomal protein s6	NA	NA	NA	NA	NA
SQG62487.1|3300466_3301264_-	GTP cyclohydrolase	NA	NA	NA	NA	NA
SQG62488.1|3301420_3303283_-	1-deoxy-D-xylulose-5-phosphate synthase	NA	NA	NA	NA	NA
SQG62489.1|3303332_3304244_-	geranyltranstransferase	NA	NA	NA	NA	NA
SQG62490.1|3304248_3304515_-	exodeoxyribonuclease VII small subunit	NA	NA	NA	NA	NA
SQG62491.1|3304601_3305432_-	transcriptional regulator	NA	NA	NA	NA	NA
SQG62492.1|3305606_3306572_+	putattive exported protein	NA	NA	NA	NA	NA
SQG62493.1|3306742_3307753_+	integral membrane protein	NA	A0A0F6TJ51	Escherichia_coli_O157_typing_phage	24.6	3.6e-16
SQG62494.1|3307900_3309052_+	iron-sulfur protein	NA	NA	NA	NA	NA
SQG62495.1|3309135_3309999_-|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 28
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	3317142	3371373	4133344	transposase,tRNA,integrase	Planktothrix_phage(16.67%)	52	3326756:3326815	3355284:3356330
SQG62502.1|3317142_3318093_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62503.1|3318213_3319110_-	inositol monophosphatase-family protein	NA	NA	NA	NA	NA
SQG62504.1|3319267_3320455_+|tRNA	tRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC	tRNA	NA	NA	NA	NA
SQG62505.1|3320400_3321093_+|tRNA	tRNA 5-methylaminomethyl-2-thiouridine biosynthesis bifunctional protein MnmC	tRNA	NA	NA	NA	NA
SQG62506.1|3321387_3323613_+	glycosyl hydrolase	NA	NA	NA	NA	NA
SQG62507.1|3323777_3324866_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	36.4	8.7e-32
SQG62508.1|3324822_3325476_+	ABC transporter inner membrane protein	NA	NA	NA	NA	NA
SQG62509.1|3325523_3326321_+	D-methionine ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
3326756:3326815	attL	TGTGAAGATTCAATAGGTTGTATGCATGGTTCATCCGAACCGGATTTGAGAAACTGGAAA	NA	NA	NA	NA
SQG62510.1|3326852_3327803_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG62511.1|3327883_3329032_+	alcohol dehydrogenase	NA	NA	NA	NA	NA
SQG62512.1|3329088_3330039_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62513.1|3330137_3330443_-	Putative monooxygenase ycnE	NA	NA	NA	NA	NA
SQG62514.1|3330471_3330906_-	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG62515.1|3330907_3332152_-	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG62516.1|3332148_3332799_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62517.1|3332873_3333857_-	putattive exported protein	NA	NA	NA	NA	NA
SQG62518.1|3334204_3334552_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62519.1|3334548_3335007_+	catabolic enzyme	NA	NA	NA	NA	NA
SQG62520.1|3335022_3335922_+	catabolic enzyme	NA	NA	NA	NA	NA
SQG62521.1|3335918_3336785_+	ABC transporter inner membrane protein	NA	NA	NA	NA	NA
SQG62522.1|3336771_3337599_+	ABC transporter inner membrane protein	NA	NA	NA	NA	NA
SQG62523.1|3337609_3338737_+	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	32.3	1.2e-23
SQG62524.1|3338729_3339722_+	Alkyl hydroperoxide reductase, large subunit	NA	NA	NA	NA	NA
SQG62525.1|3339814_3341053_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG62526.1|3341097_3342357_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
SQG62527.1|3342363_3343116_+	DNA-binding protein	NA	NA	NA	NA	NA
SQG62528.1|3343167_3343353_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62529.1|3343511_3344093_+	merR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62530.1|3344172_3344784_+	hydrolase	NA	NA	NA	NA	NA
SQG62531.1|3344928_3347037_+	putative assembly protein	NA	NA	NA	NA	NA
SQG62532.1|3347033_3347984_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62533.1|3348087_3348651_-	TetR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62534.1|3348811_3349552_+	short-chain dehydrogenase	NA	NA	NA	NA	NA
SQG62535.1|3349869_3350493_+|integrase	integrase core domain-containing protein	integrase	NA	NA	NA	NA
SQG62536.1|3350953_3351733_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62537.1|3351563_3352454_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62538.1|3352466_3353417_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62539.1|3353403_3354444_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62540.1|3354452_3355064_-	secreted protein	NA	NA	NA	NA	NA
SQG62541.1|3355380_3356331_+|transposase	transposase	transposase	NA	NA	NA	NA
3355284:3356330	attR	TGTGAAGATTCAATAGGTTGTATGCATGGTTCATCCGAACCGGATTTGAGAAACTGGAAATCGCCACCCCCCCAGTTCACTCAAGGAGCCCGGCCGGATGAACACCCATAAGCATGCCCGATTGACCTTCCTACGTCGACTCGAAATGGTCCAGCAATTGATCGTCCATCAAGTTTGTGTGCCTGAAGCGGCCCGCGCCTATGGGGTCACCGCGCCGACTGTGCGCAAATGGCTGGGCCGCTTCCTGGCTCAGGGCCAGGCGGGCTTGGCCGATGCGTCCTCGCGCCCGACGGTCTCGCCCCGAGCGATTGCGCCGGCCAAGGCGCTGGCTATCGTGGAGCTGCGCCGCAAGCGGCTGACCCAAGCGCGCATCGCCCAGGCGCTGGGCGTGTCAGCCAGCACCGTCAGCCGCGTCCTGGCCCGCGCCGGTCTGTCGCACCTGGCCGACCTGGAGCCGGCCGAGCCGGTGGTGCGCTACGAGCATCAGGCCCCCGGCGATCTGCTGCACATCGACATCAAGAAGCTGGGACGTATCCAGCGCCCTGGCCACCGGGTCACGGGCAACCGACGCGATACCGTTGAGGGGGCCGGCTGGGACTTCGTCTTCGTGGCCATCGATGACCACGCCCGCGTGGCCTTCACCGACATCCACCCCGACGAGCGCTTCCCCAGCGCCGTCCAGTTCCTCAAGGACGCAGTGGCCTACTACCAGCGCCTGGGCGTGACCATCCAGCGCTTGCTCACCGACAATGGCTCGGCCTTTCGCAGCCGCGCCTTCGCCGCGCTGTGCCATGAGCTGGGCATCAAGCACCGCTTTACCCGACCTTACCGCCCACAGACCAATGGCAAGGCCGAACGCTTCATCCAGTCGGCCTTGCGTGAGTGGGCTTACGCTCACACCTACCAGAACTCCCAACACCGAGCCGATGCCATGAAATCCTGGCTACACCACTACAACTGGCATCGACCCCACCAAGGCATCGGGCGCGCTGTACCCATCTCCAGACTCAACCTGGACGAATACAACCTATTGACAGTTCACAGCTA	NA	NA	NA	NA
SQG62542.1|3356327_3357236_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62543.1|3357362_3358199_+	3-methyl-2-oxobutanoate hydroxymethyltransferase	NA	A0A0P0BXC9	Ostreococcus_lucimarinus_virus	33.3	1.6e-33
SQG62544.1|3358711_3359821_+	outer membrane porin protein	NA	NA	NA	NA	NA
SQG62545.1|3359882_3360833_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62546.1|3361025_3361808_-	short chain dehydrogenase	NA	NA	NA	NA	NA
SQG62547.1|3361821_3362571_-	short chain dehydrogenase	NA	A0A0M4JSW6	Mollivirus	26.4	1.2e-11
SQG62548.1|3362598_3363945_-	membrane transport protein	NA	NA	NA	NA	NA
SQG62549.1|3365015_3365921_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62550.1|3365938_3367138_-	aromatic-amino-acid aminotransferase	NA	NA	NA	NA	NA
SQG62551.1|3367210_3367903_-	metal dependent phosphohydrolase	NA	A0A1D6Y7U0	Golden_Marseillevirus	29.9	4.7e-07
SQG62552.1|3367951_3370378_-	cation-transporting ATPase	NA	A0A218MNH6	uncultured_virus	33.8	1.2e-86
SQG62553.1|3370422_3371373_-|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 29
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	3448546	3501821	4133344	transposase,protease,tRNA,integrase	Clostridium_phage(16.67%)	56	3454341:3454370	3474330:3474359
SQG62624.1|3448546_3450007_-|protease	protease, modulator of DNA gyrase	protease	NA	NA	NA	NA
SQG62625.1|3450017_3450791_-	hydrolase	NA	NA	NA	NA	NA
SQG62626.1|3450972_3451344_+	DNA-binding protein (histone)	NA	NA	NA	NA	NA
SQG62627.1|3451442_3452393_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62628.1|3452491_3453295_-	transmembrane regulator	NA	NA	NA	NA	NA
SQG62629.1|3453291_3453819_-	RNA polymerase sigma factor	NA	NA	NA	NA	NA
SQG62630.1|3453869_3454238_-	Secreted repeat of uncharacterised function	NA	NA	NA	NA	NA
3454341:3454370	attL	GGGTGCCTGTCCCCGCCGGGACAGGCACCC	NA	NA	NA	NA
SQG62631.1|3454438_3454921_-	nucleotide-binding protein	NA	NA	NA	NA	NA
SQG62632.1|3455051_3455504_+|integrase	phage-related integrase	integrase	NA	NA	NA	NA
SQG62633.1|3455511_3455925_-	Predicted lactoylglutathione lyase	NA	NA	NA	NA	NA
SQG62634.1|3456046_3456790_-	putative lipoprotein	NA	I3PV79	Clostridium_phage	30.0	3.0e-07
SQG62635.1|3456818_3458165_+	chromate transport protein	NA	NA	NA	NA	NA
SQG62636.1|3459648_3461847_-	TonB-dependent receptor	NA	NA	NA	NA	NA
SQG62637.1|3462009_3462387_-	lipoprotein	NA	NA	NA	NA	NA
SQG62638.1|3462748_3463045_+	Predicted integral membrane protein	NA	NA	NA	NA	NA
SQG62639.1|3463056_3463926_+	Protein of uncharacterised function (DUF692)	NA	NA	NA	NA	NA
SQG62640.1|3463940_3464696_+	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG62641.1|3464699_3465197_+	integral membrane protein	NA	NA	NA	NA	NA
SQG62642.1|3465228_3466047_-	transporter	NA	NA	NA	NA	NA
SQG62643.1|3466031_3466652_-	transporter	NA	A0A0M3UL24	Mycobacterium_phage	42.0	1.1e-31
SQG62644.1|3466790_3467138_+	regulatory protein	NA	NA	NA	NA	NA
SQG62645.1|3467258_3467606_-	cytochrome 0 ubiquinol oxidase	NA	NA	NA	NA	NA
SQG62646.1|3467605_3468121_-	cytochrome O ubiquinol oxidase	NA	NA	NA	NA	NA
SQG62647.1|3468220_3470200_-	ubiquinol oxidase subunit I	NA	NA	NA	NA	NA
SQG62648.1|3470203_3471118_-	ubiquinol oxidase polypeptide II	NA	NA	NA	NA	NA
SQG62649.1|3471326_3471881_-	two component system response regulator	NA	NA	NA	NA	NA
SQG62650.1|3471877_3473089_-	two component system sensor kinase	NA	NA	NA	NA	NA
SQG62651.1|3473283_3474192_-	Methyltransferase domain	NA	NA	NA	NA	NA
SQG62652.1|3474429_3475296_-	pirin-like protein	NA	NA	NA	NA	NA
3474330:3474359	attR	GGGTGCCTGTCCCCGCCGGGACAGGCACCC	NA	NA	NA	NA
SQG62653.1|3475464_3475938_-	Various environmental stresses-induced protein	NA	NA	NA	NA	NA
SQG62654.1|3476054_3476861_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62655.1|3476998_3478273_+	integral membrane protein	NA	NA	NA	NA	NA
SQG62656.1|3478269_3479391_-	putative racemase	NA	NA	NA	NA	NA
SQG62657.1|3479517_3480429_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62658.1|3480452_3481442_-	putattive exported protein	NA	NA	NA	NA	NA
SQG62659.1|3481466_3481934_-	acyl dehydratase	NA	NA	NA	NA	NA
SQG62660.1|3481947_3482409_-	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
SQG62661.1|3482620_3483328_+	ArsR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62662.1|3483447_3484398_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG62663.1|3484543_3485635_-	riboflavin biosynthesis protein ribd [includes: diaminohydroxyphosphoribosylaminopyrimidine deaminase	NA	A0A1V0SE20	Indivirus	34.0	3.1e-37
SQG62664.1|3485873_3486437_+	isochorismatase family hydrolase	NA	NA	NA	NA	NA
SQG62665.1|3487008_3487419_+	AraC family transcriptional regulator	NA	NA	NA	NA	NA
SQG62666.1|3487431_3487914_-	transcriptional regulator NrdR	NA	NA	NA	NA	NA
SQG62667.1|3488071_3489319_-	serine hydroxymethyltransferase	NA	A0A219YCZ0	Aeromonas_phage	52.7	1.1e-99
SQG62668.1|3489538_3490195_-	putative kinase inhibitor protein	NA	NA	NA	NA	NA
SQG62669.1|3490230_3491460_-|tRNA	tyrosyl-tRNA synthetase	tRNA	NA	NA	NA	NA
SQG62670.1|3491727_3492678_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG62671.1|3492769_3494185_+	peptidase	NA	A8ATH6	Listeria_phage	46.9	1.9e-18
SQG62672.1|3494190_3495327_+	anhydro-N-acetylmuramic acid kinase	NA	NA	NA	NA	NA
SQG62673.1|3495396_3495768_-	iron-sulfur cluster insertion protein ErpA	NA	A0A2H4N7M3	Lake_Baikal_phage	56.9	4.7e-30
SQG62674.1|3495855_3496602_-	integral membrane protein	NA	NA	NA	NA	NA
SQG62675.1|3496638_3497703_-	N-acetyl-gamma-glutamyl-phosphate reductase	NA	NA	NA	NA	NA
SQG62676.1|3497891_3498284_-	30S ribosomal protein S9	NA	NA	NA	NA	NA
SQG62677.1|3498293_3498722_-	50s ribosomal protein L13	NA	NA	NA	NA	NA
SQG62678.1|3499017_3500115_-	solute binding protein	NA	NA	NA	NA	NA
SQG62679.1|3500456_3501821_-|protease	protease	protease	NA	NA	NA	NA
>prophage 31
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	3741830	3795571	4133344	transposase	Staphylococcus_phage(25.0%)	56	NA	NA
SQG62891.1|3741830_3742781_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG62892.1|3742760_3742892_-	aldehyde dehydrogenase	NA	NA	NA	NA	NA
SQG62893.1|3743185_3743830_-	urease accessory protein	NA	NA	NA	NA	NA
SQG62894.1|3743854_3744436_-	urease accessory protein	NA	NA	NA	NA	NA
SQG62895.1|3744539_3745157_-	urease accessory protein	NA	NA	NA	NA	NA
SQG62896.1|3745159_3746875_-	urease subunit alpha	NA	NA	NA	NA	NA
SQG62897.1|3746871_3747180_-	urease subunit beta	NA	NA	NA	NA	NA
SQG62898.1|3747196_3747814_-	urease accessory protein	NA	NA	NA	NA	NA
SQG62899.1|3747858_3748161_-	urease subunit gamma	NA	NA	NA	NA	NA
SQG62900.1|3748261_3749116_-	urease accessory protein	NA	NA	NA	NA	NA
SQG62901.1|3749697_3749970_+	heavy metal dependent transcription regulator (partial)	NA	NA	NA	NA	NA
SQG62902.1|3750200_3750326_+	[2Fe-2S] ferredoxin	NA	NA	NA	NA	NA
SQG62903.1|3750387_3750795_-	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG62904.1|3751164_3751959_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62905.1|3752059_3753295_+	methylaspartate ammonia-lyase	NA	NA	NA	NA	NA
SQG62906.1|3753363_3754380_+	lipoprotein	NA	NA	NA	NA	NA
SQG62907.1|3754391_3755768_+	catabolic enzyme	NA	NA	NA	NA	NA
SQG62908.1|3755764_3756961_+	transporter	NA	NA	NA	NA	NA
SQG62909.1|3756957_3758496_-	SpoVR family protein	NA	NA	NA	NA	NA
SQG62910.1|3758492_3759752_-	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG62911.1|3759764_3760808_-	protein kinase	NA	NA	NA	NA	NA
SQG62912.1|3760859_3761690_-	protein kinase	NA	NA	NA	NA	NA
SQG62913.1|3761692_3762643_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62914.1|3762724_3763363_-	short-chain dehydrogenase	NA	NA	NA	NA	NA
SQG62915.1|3763409_3764504_-	acyl-CoA transferase	NA	NA	NA	NA	NA
SQG62916.1|3764496_3765831_-	coenzyme A ligase	NA	NA	NA	NA	NA
SQG62917.1|3765784_3766468_-	TetR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62918.1|3766493_3767657_-	acyl-CoA dehyrdogenase	NA	NA	NA	NA	NA
SQG62919.1|3767653_3768655_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
SQG62920.1|3768654_3769527_-	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
SQG62921.1|3769523_3770273_-	branched-chain amino acid ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	27.8	1.9e-09
SQG62922.1|3770269_3771061_-	ABC transporter ATP-binding protein	NA	A0A1M7XV31	Cedratvirus	29.4	1.7e-08
SQG62923.1|3771057_3772197_-	branched-chain amino acid ABC transporter binding protein	NA	NA	NA	NA	NA
SQG62924.1|3772583_3773258_+	short chain dehydrogenase	NA	NA	NA	NA	NA
SQG62925.1|3773291_3774074_+	enoyl CoA dehydratase/isomerase	NA	NA	NA	NA	NA
SQG62926.1|3774077_3774467_+	Predicted nucleic-acid-binding protein containing a Zn-ribbon	NA	NA	NA	NA	NA
SQG62927.1|3774463_3776470_+	thiolase	NA	NA	NA	NA	NA
SQG62928.1|3776505_3777594_+	NAD dependent epimerase/dehydratase family	NA	NA	NA	NA	NA
SQG62929.1|3777590_3778541_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62930.1|3778894_3781873_+	adhesin	NA	NA	NA	NA	NA
SQG62931.1|3782039_3782555_+	desaturase	NA	NA	NA	NA	NA
SQG62932.1|3782567_3782816_+	desaturase	NA	NA	NA	NA	NA
SQG62933.1|3782799_3783678_+	fatty acid desaturase	NA	NA	NA	NA	NA
SQG62934.1|3783713_3784046_+	3-oxoacyl-ACP synthase	NA	NA	NA	NA	NA
SQG62935.1|3785207_3785528_+	dehydrogenase	NA	A0A1V0S9J5	Catovirus	45.3	2.4e-14
SQG62936.1|3785626_3786577_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG62937.1|3786573_3787041_-	ribonuclease HI	NA	J9Q745	Salmonella_phage	50.7	5.6e-36
SQG62938.1|3787083_3787854_-	Methyltransferase domain	NA	NA	NA	NA	NA
SQG62939.1|3787874_3788675_+	hydroxyacylglutathione hydrolase	NA	NA	NA	NA	NA
SQG62940.1|3788685_3790095_+	membrane-bound lytic murein transglycosylase D	NA	NA	NA	NA	NA
SQG62941.1|3790189_3790975_+	enoyl-(acyl carrier protein) reductase	NA	NA	NA	NA	NA
SQG62942.1|3791301_3792231_+|transposase	transposase for IS1663	transposase	NA	NA	NA	NA
SQG62943.1|3792338_3792731_-	OsmC-like protein	NA	NA	NA	NA	NA
SQG62944.1|3792868_3793549_+	Inner membrane protein yebE	NA	NA	NA	NA	NA
SQG62945.1|3793553_3794534_-	putattive exported protein	NA	NA	NA	NA	NA
SQG62946.1|3794620_3795571_-|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 32
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	3801725	3861025	4133344	transposase,tRNA	Acinetobacter_phage(25.0%)	56	NA	NA
SQG62952.1|3801725_3803489_+|tRNA	glutaminyl-tRNA synthetase	tRNA	A0A222YZ70	Escherichia_phage	50.0	5.0e-162
SQG62953.1|3803600_3804479_+	cell division inhibitor	NA	NA	NA	NA	NA
SQG62954.1|3804591_3805407_+	septum site-determining protein	NA	NA	NA	NA	NA
SQG62955.1|3805410_3805662_+	cell division topological specificity factor MinE	NA	NA	NA	NA	NA
SQG62956.1|3805746_3806676_-|transposase	transposase for IS1663	transposase	NA	NA	NA	NA
SQG62957.1|3807093_3807315_-	osmotically inducible lipoprotein B	NA	NA	NA	NA	NA
SQG62958.1|3807457_3807940_-	isochorismatase	NA	NA	NA	NA	NA
SQG62959.1|3807960_3809061_-	putative ABC transporter ATP-binding protein	NA	A0A2K9L3Z8	Tupanvirus	28.7	3.9e-32
SQG62960.1|3809675_3810593_-	membrane protein	NA	NA	NA	NA	NA
SQG62961.1|3810705_3811221_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62962.1|3811090_3812299_-	binding-protein-dependent permease	NA	NA	NA	NA	NA
SQG62963.1|3812378_3813950_-	binding-protein-dependent transport protein	NA	NA	NA	NA	NA
SQG62964.1|3814067_3815003_-	glycosyl transferase family protein	NA	NA	NA	NA	NA
SQG62965.1|3815191_3816136_+	LysR family transcriptional regulator	NA	A0A2P0ZL89	Lactobacillus_phage	23.2	8.4e-07
SQG62966.1|3816204_3816375_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62967.1|3816703_3822421_+	excinuclease ABC subunit	NA	A0A1B1IVR3	uncultured_Mediterranean_phage	39.5	1.0e-195
SQG62968.1|3822426_3823554_+	chorismate-binding enzyme	NA	S4VT78	Pandoravirus	37.8	3.8e-38
SQG62969.1|3823609_3824236_+	Probable branched-chain-amino-acid aminotransferase	NA	NA	NA	NA	NA
SQG62970.1|3824594_3825524_+|transposase	transposase for IS1663	transposase	NA	NA	NA	NA
SQG62971.1|3825619_3826330_-	oxidoreductase	NA	NA	NA	NA	NA
SQG62972.1|3826326_3827316_-	putattive exported protein	NA	NA	NA	NA	NA
SQG62973.1|3827447_3829043_+	acyl-CoA synthetase	NA	NA	NA	NA	NA
SQG62974.1|3829045_3829783_+	transcriptional regulator	NA	NA	NA	NA	NA
SQG62975.1|3829938_3830811_-	adenylyltransferase	NA	NA	NA	NA	NA
SQG62976.1|3831079_3832300_+	inner membrane efflux protein	NA	NA	NA	NA	NA
SQG62977.1|3832296_3832956_+	multidrug efflux-associated protein	NA	NA	NA	NA	NA
SQG62978.1|3833027_3833660_+	pyridoxamine 5'-phosphate oxidase	NA	NA	NA	NA	NA
SQG62979.1|3833689_3834208_+	monooxygenase component	NA	NA	NA	NA	NA
SQG62980.1|3834218_3835328_+	oxidase	NA	NA	NA	NA	NA
SQG62981.1|3835374_3836229_+	formyltetrahydrofolate deformylase	NA	NA	NA	NA	NA
SQG62982.1|3836230_3837133_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG62983.1|3837242_3838376_+	oxidoreductase	NA	NA	NA	NA	NA
SQG62984.1|3838355_3839306_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG62985.1|3839404_3840538_-	lipoprotein	NA	NA	NA	NA	NA
SQG62986.1|3840574_3840823_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62987.1|3841062_3842052_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG62988.1|3842048_3842207_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG62989.1|3842227_3843016_-	indole-3-glycerol phosphate synthase	NA	A0A0P0IR83	Acinetobacter_phage	53.0	5.1e-66
SQG62990.1|3843012_3844044_-	anthranilate phosphoribosyltransferase	NA	A0A0N7IRD9	Acinetobacter_phage	42.7	7.4e-73
SQG62991.1|3844062_3844626_-	anthranilate synthase component II	NA	A0A0P0IKJ1	Acinetobacter_phage	62.1	1.1e-65
SQG62992.1|3844681_3846202_-	anthranilate synthase component I	NA	S4VT78	Pandoravirus	32.1	9.0e-43
SQG62993.1|3846465_3847170_-	phosphoglycolate phosphatase	NA	NA	NA	NA	NA
SQG62994.1|3847177_3847906_-	ribulose-phosphate 3-epimerase	NA	NA	NA	NA	NA
SQG62995.1|3848020_3848395_+	ApaG protein	NA	NA	NA	NA	NA
SQG62996.1|3848437_3849727_+	membrane-bound transglycosylase	NA	NA	NA	NA	NA
SQG62997.1|3849723_3850893_+	monooxygenase	NA	NA	NA	NA	NA
SQG62998.1|3850919_3851729_+	thiol:disulfide interchange protein (periplasmic)	NA	NA	NA	NA	NA
SQG62999.1|3851788_3852724_+	2-hydroxyacid dehydrogenase	NA	A0A1J0F959	Only_Syngen_Nebraska_virus	27.7	6.4e-15
SQG63000.1|3852736_3853687_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG63001.1|3853785_3854748_-|tRNA	C32 tRNA thiolase	tRNA	A0A0U2S5Z2	Escherichia_phage	64.5	4.6e-93
SQG63002.1|3854779_3855139_-	dihydroneopterin aldolase	NA	NA	NA	NA	NA
SQG63003.1|3855263_3856166_+	oxidoreductase	NA	G3MA85	Bacillus_virus	24.0	1.9e-08
SQG63004.1|3856167_3857934_-	signaling protein	NA	NA	NA	NA	NA
SQG63005.1|3857974_3858751_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
SQG63006.1|3859047_3860115_+	lipoprotein	NA	NA	NA	NA	NA
SQG63007.1|3860074_3861025_-|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 33
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	3875963	3919697	4133344	transposase,tRNA	Planktothrix_phage(25.0%)	44	NA	NA
SQG63022.1|3875963_3876914_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG63023.1|3877042_3878176_-	peptidase	NA	NA	NA	NA	NA
SQG63024.1|3878219_3879125_-	poly(aspartic acid) Hydrolase	NA	NA	NA	NA	NA
SQG63025.1|3879127_3880828_-	oligopeptide transport ATP-binding protein	NA	G9BWD6	Planktothrix_phage	32.7	1.0e-15
SQG63026.1|3880824_3881745_-	binding-protein-dependent transport permease	NA	NA	NA	NA	NA
SQG63027.1|3881752_3882730_-	binding-protein-dependent transport permease	NA	NA	NA	NA	NA
SQG63028.1|3882788_3883748_-	succinylglutamate desuccinylase	NA	NA	NA	NA	NA
SQG63029.1|3883871_3884792_-	binding-protein-dependent transport protein	NA	NA	NA	NA	NA
SQG63030.1|3884936_3885500_-	binding-protein-dependent transport protein	NA	NA	NA	NA	NA
SQG63031.1|3885797_3886034_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG63032.1|3886160_3887024_-	Nicotinamide nucleotide repair protein	NA	NA	NA	NA	NA
SQG63033.1|3887112_3887934_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
SQG63034.1|3888013_3888751_-	enoyl-CoA hydratase/isomerase	NA	NA	NA	NA	NA
SQG63035.1|3888747_3889719_-	2-nitropropane dioxygenase	NA	NA	NA	NA	NA
SQG63036.1|3889892_3890516_+	TetR family transcriptional regulator	NA	NA	NA	NA	NA
SQG63037.1|3890560_3891709_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
SQG63038.1|3891692_3892448_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG63039.1|3892554_3893046_+	acyl-CoA transferase	NA	NA	NA	NA	NA
SQG63040.1|3893129_3893951_+	3-hydroxyacyl-CoA dehydrogenase	NA	NA	NA	NA	NA
SQG63041.1|3894032_3894983_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG63042.1|3895323_3896274_+|transposase	IS1002 transposase	transposase	NA	NA	NA	NA
SQG63043.1|3896372_3897323_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG63044.1|3897619_3898117_+	putative blue copper protein	NA	NA	NA	NA	NA
SQG63045.1|3898159_3899935_+	copper resitance protein	NA	NA	NA	NA	NA
SQG63046.1|3899942_3900809_+	copper resistance protein	NA	NA	NA	NA	NA
SQG63047.1|3900815_3901541_-	enoyl-CoA hydratase/isomerase	NA	NA	NA	NA	NA
SQG63048.1|3902115_3902883_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG63049.1|3902719_3903490_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
SQG63050.1|3903803_3904394_+	Predicted metal-dependent enzyme of the double-stranded beta helix superfamily	NA	NA	NA	NA	NA
SQG63051.1|3904427_3905756_-	amidase	NA	NA	NA	NA	NA
SQG63052.1|3905830_3906976_-	binding-protein-dependent transport protein	NA	NA	NA	NA	NA
SQG63053.1|3907087_3908086_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG63054.1|3908051_3908483_+	carbon monoxide dehydrogenase subunit G	NA	NA	NA	NA	NA
SQG63055.1|3908617_3909526_+	transport transmembrane protein	NA	NA	NA	NA	NA
SQG63056.1|3909534_3909984_+	transporter	NA	NA	NA	NA	NA
SQG63057.1|3909999_3910884_+	membrane protein	NA	NA	NA	NA	NA
SQG63058.1|3910880_3912086_-	phospholipase	NA	NA	NA	NA	NA
SQG63059.1|3912082_3912943_-	endonuclease/exonuclease/phosphatase family protein	NA	NA	NA	NA	NA
SQG63060.1|3913055_3914846_-|tRNA	aspartyl-tRNA synthetase	tRNA	A0A1V0SAC0	Catovirus	25.5	6.5e-08
SQG63061.1|3914886_3915537_-	membrane protein	NA	A0A2I7S9X1	Vibrio_phage	28.4	8.6e-11
SQG63062.1|3915552_3915861_-	putative regulatory protein, FmdB family	NA	NA	NA	NA	NA
SQG63063.1|3916026_3917313_-	membrane protein	NA	NA	NA	NA	NA
SQG63064.1|3917439_3918699_-	dehydrogenase	NA	A0A2I2L3D3	Orpheovirus	27.6	6.1e-13
SQG63065.1|3918746_3919697_-|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 34
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	4065110	4112577	4133344	transposase,tRNA,protease	Streptococcus_phage(10.0%)	46	NA	NA
SQG63202.1|4065110_4066061_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG63203.1|4066160_4067111_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG63204.1|4067107_4067743_-	transporter	NA	NA	NA	NA	NA
SQG63205.1|4067872_4068772_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
SQG63206.1|4068867_4069359_+	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQG63207.1|4069405_4070371_-	lipoprotein	NA	NA	NA	NA	NA
SQG63208.1|4070528_4070897_-	Predicted enzyme with a TIM-barrel fold	NA	NA	NA	NA	NA
SQG63209.1|4071504_4072746_+	aminotransferase	NA	A0A1X9I5H2	Streptococcus_phage	24.9	1.9e-14
SQG63210.1|4072859_4073876_+	amino acid-binding periplasmic protein	NA	A0A1B1IT51	uncultured_Mediterranean_phage	43.8	3.5e-75
SQG63211.1|4073910_4074387_-	membrane protein	NA	NA	NA	NA	NA
SQG63212.1|4074529_4075438_-	hydroxymethylglutaryl-CoA lyase	NA	NA	NA	NA	NA
SQG63213.1|4075551_4076664_-	Smf protein	NA	S6BFL3	Thermus_phage	35.0	1.9e-21
SQG63214.1|4076764_4077250_-	leucine-responsive regulatory protein	NA	NA	NA	NA	NA
SQG63215.1|4077386_4078637_+	kynureninase	NA	NA	NA	NA	NA
SQG63216.1|4078738_4079251_+	polypeptide deformylase	NA	E3SLL2	Synechococcus_phage	43.3	8.5e-22
SQG63217.1|4079349_4080300_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG63218.1|4080365_4081304_+|tRNA	methionyl-tRNA formyltransferase	tRNA	E3SNR5	Prochlorococcus_phage	35.7	1.4e-09
SQG63219.1|4081326_4081953_-	pyridoxamine 5'-phosphate oxidase	NA	NA	NA	NA	NA
SQG63220.1|4081949_4082606_-	haloacid dehalogenase-like hydrolase	NA	NA	NA	NA	NA
SQG63221.1|4082602_4083205_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG63222.1|4083211_4083799_-	lysine decarboxylase	NA	A0A2I2L3F0	Orpheovirus	23.3	1.1e-07
SQG63223.1|4084006_4084549_+	bacterioferritin	NA	NA	NA	NA	NA
SQG63224.1|4084619_4085939_-	ribosomal protein S12 methylthiotransferase	NA	NA	NA	NA	NA
SQG63225.1|4086045_4086321_-	4-oxalocrotonate tautomerase	NA	NA	NA	NA	NA
SQG63226.1|4086557_4087778_+	FAD dependent oxidoreductase	NA	NA	NA	NA	NA
SQG63227.1|4087932_4088928_+	putattive exported protein	NA	NA	NA	NA	NA
SQG63228.1|4089012_4089687_+	transcriptional regulator	NA	NA	NA	NA	NA
SQG63229.1|4089683_4090634_-|transposase	transposase	transposase	NA	NA	NA	NA
SQG63230.1|4090795_4092037_+	ornithine aminotransferase	NA	A0A1V0SKB7	Klosneuvirus	25.2	4.0e-25
SQG63231.1|4092033_4092978_+	arginase	NA	A0A0N9R043	Chrysochromulina_ericina_virus	33.3	9.5e-27
SQG63232.1|4093096_4094047_+|transposase	transposase	transposase	NA	NA	NA	NA
SQG63233.1|4094006_4094936_-	lipoprotein	NA	NA	NA	NA	NA
SQG63234.1|4094989_4095325_-	carboxymuconolactone decarboxylase	NA	NA	NA	NA	NA
SQG63235.1|4095369_4096134_-	enoyl-CoA hydratase/isomerase	NA	NA	NA	NA	NA
SQG63236.1|4096157_4096898_-	transcriptional regulator	NA	NA	NA	NA	NA
SQG63237.1|4096905_4098480_-	substrate-CoA ligase	NA	A0A2K9L3I8	Tupanvirus	22.6	2.0e-13
SQG63238.1|4098493_4099471_-	lipoprotein	NA	NA	NA	NA	NA
SQG63239.1|4099743_4100325_-	ureidoglycolate hydrolase	NA	NA	NA	NA	NA
SQG63240.1|4100376_4107279_-	autotransporter	NA	NA	NA	NA	NA
SQG63241.1|4107725_4107857_-	entericidin A anti-toxin	NA	NA	NA	NA	NA
SQG63242.1|4107888_4107978_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQG63243.1|4108122_4109241_-	transcriptional regulator	NA	NA	NA	NA	NA
SQG63244.1|4109333_4109993_+	haloacid dehalogenase	NA	NA	NA	NA	NA
SQG63245.1|4110020_4111166_+	metal-activated pyridoxal enzyme	NA	NA	NA	NA	NA
SQG63246.1|4111306_4111642_+	Uncharacterized conserved protein	NA	NA	NA	NA	NA
SQG63247.1|4111716_4112577_-|protease	Modulator of FtsH protease HflC	protease	A0A2C9D0H9	Yersinia_phage	53.6	1.7e-51
>prophage 35
LS483398	Bordetella pertussis strain NCTC10910 genome assembly, chromosome: 1	4133344	4117312	4123661	4133344	integrase	Burkholderia_phage(16.67%)	12	4121233:4121247	4126107:4126121
SQG63255.1|4117312_4117780_+	Uncharacterised protein	NA	Q3HQX1	Burkholderia_phage	71.3	2.1e-43
SQG63256.1|4117820_4117946_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG63257.1|4118013_4118391_+	phage-related putative membrane protein	NA	NA	NA	NA	NA
SQG63258.1|4118387_4118570_+	phage-related membrane protein	NA	NA	NA	NA	NA
SQG63259.1|4118573_4119560_+	DNA recombination protein	NA	H9C0R8	Aeromonas_phage	57.3	2.0e-67
SQG63260.1|4119556_4120204_+	exonuclease	NA	A0A0U2BXF3	Paracoccus_phage	41.4	2.0e-31
SQG63261.1|4120261_4120789_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQG63262.1|4120825_4122010_+	Uncharacterised protein	NA	A0A291L9X3	Bordetella_phage	37.8	1.5e-24
4121233:4121247	attL	CCAGCACGGCTTCGC	NA	NA	NA	NA
SQG63263.1|4121999_4122362_+	Uncharacterised protein	NA	A0A0H5ARN8	Pseudomonas_phage	47.9	1.8e-13
SQG63264.1|4122354_4122474_+	phage-related membrane protein	NA	NA	NA	NA	NA
SQG63265.1|4122474_4122675_+	Predicted transcriptional regulator	NA	NA	NA	NA	NA
SQG63266.1|4122671_4123661_-|integrase	integrase	integrase	A0A1B1P9F9	Acinetobacter_phage	44.4	4.4e-75
4126107:4126121	attR	CCAGCACGGCTTCGC	NA	NA	NA	NA
