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
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	1124536	1190401	4100859	transposase,tRNA	Pandoravirus(20.0%)	54	NA	NA
AMG24079.2|1124536_1125043_-|tRNA	tRNA adenosine(34) deaminase TadA	tRNA	S4VYT2	Pandoravirus	38.4	3.4e-07
AMG21909.1|1125035_1125884_-	hydrolase	NA	NA	NA	NA	NA
AMG21910.1|1125981_1126524_-	hypothetical protein	NA	NA	NA	NA	NA
AMG21911.1|1126567_1127518_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG21912.1|1127673_1128000_-	cation:proton antiporter	NA	NA	NA	NA	NA
AMG21913.2|1127996_1128281_-	K+/H+ antiporter subunit F	NA	NA	NA	NA	NA
AMG21914.2|1128277_1128757_-	Na+/H+ antiporter subunit E	NA	NA	NA	NA	NA
AMG21915.1|1128753_1130382_-	monovalent cation/H+ antiporter subunit D	NA	NA	NA	NA	NA
AMG21916.1|1130378_1130723_-	Na+/H+ antiporter subunit C	NA	NA	NA	NA	NA
AMG21917.1|1130722_1133656_-	monovalent cation/H+ antiporter subunit A	NA	NA	NA	NA	NA
AMG21919.1|1135862_1136159_-	hypothetical protein	NA	NA	NA	NA	NA
AMG21920.1|1136265_1137183_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AMG21921.1|1137187_1137901_-	NAD-dependent oxidoreductase	NA	NA	NA	NA	NA
AMG21922.1|1137914_1138886_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG21924.2|1140605_1140986_+	ArsR family transcriptional regulator	NA	NA	NA	NA	NA
AUV47976.1|1140989_1142177_+	MFS transporter	NA	NA	NA	NA	NA
AMG21925.1|1142615_1143338_+	arsenical resistance protein ArsH	NA	A0A2H4J5V6	uncultured_Caudovirales_phage	68.2	1.3e-87
AMG21927.1|1143631_1144582_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG21928.1|1144578_1145007_-	hypothetical protein	NA	NA	NA	NA	NA
AMG24080.1|1146408_1147371_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG21929.1|1147486_1148440_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AMG21930.1|1148449_1149442_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG21931.1|1149493_1150249_-	SDR family NAD(P)-dependent oxidoreductase	NA	NA	NA	NA	NA
AMG21932.1|1150313_1151003_-	short-chain dehydrogenase	NA	NA	NA	NA	NA
AMG21933.1|1151224_1152175_+	hydrolase	NA	NA	NA	NA	NA
AMG21934.1|1152205_1153402_+	alpha-hydroxy-acid oxidizing protein	NA	NA	NA	NA	NA
AMG21935.2|1153398_1154172_+	SDR family NAD(P)-dependent oxidoreductase	NA	NA	NA	NA	NA
AMG21936.2|1154239_1155211_+	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG21937.2|1155296_1156241_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AMG21938.1|1156218_1157088_-	TauD/TfdA family dioxygenase	NA	NA	NA	NA	NA
AMG24081.1|1157331_1157955_+	glutathione S-transferase	NA	NA	NA	NA	NA
AMG21939.1|1158269_1158569_+	transcriptional regulator	NA	NA	NA	NA	NA
AMG21940.1|1161784_1162459_+	DNA-binding response regulator	NA	NA	NA	NA	NA
AMG21941.1|1162451_1164266_+	histidine kinase	NA	NA	NA	NA	NA
AMG21942.1|1164319_1165267_-	hypothetical protein	NA	NA	NA	NA	NA
AMG21943.1|1165371_1166322_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG21945.1|1166874_1168500_-	arylsulfatase	NA	A0A2P0VMN7	Tetraselmis_virus	52.2	2.0e-149
AMG24083.1|1168549_1169584_-	haloacid dehalogenase-like hydrolase	NA	NA	NA	NA	NA
AMG21946.1|1169586_1170933_-	hypothetical protein	NA	NA	NA	NA	NA
AMG24084.1|1170929_1172444_-	VWA domain-containing protein	NA	NA	NA	NA	NA
AMG24082.1|1172434_1173445_-	hypothetical protein	NA	NA	NA	NA	NA
AMG21947.1|1174867_1175836_-	AAA family ATPase	NA	NA	NA	NA	NA
AMG21948.1|1177375_1178344_+	transporter	NA	NA	NA	NA	NA
AMG21949.1|1178521_1179511_+	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG21950.1|1179557_1180316_+	SDR family NAD(P)-dependent oxidoreductase	NA	NA	NA	NA	NA
AMG21951.1|1180505_1181243_+	hypothetical protein	NA	A0A0S4KZH7	Pseudomonas_phage	46.6	4.1e-41
AMG21952.1|1181341_1182292_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG21953.1|1182476_1183259_+	ABC transporter ATP-binding protein	NA	A0A2R8FG22	Brazilian_cedratvirus	25.8	2.0e-09
AMG21954.1|1183252_1183954_+	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
AMG21955.1|1184193_1184796_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA	NA
AMG21956.1|1186122_1187073_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG21957.1|1187069_1188626_-	LTA synthase family protein	NA	NA	NA	NA	NA
AMG21958.1|1188618_1189392_-	oxidoreductase	NA	NA	NA	NA	NA
AMG21959.1|1189450_1190401_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 2
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	1235570	1293822	4100859	transposase,protease	uncultured_Caudovirales_phage(12.5%)	48	NA	NA
AMG21984.1|1235570_1236521_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG24090.2|1236619_1237270_-	non-canonical purine NTP pyrophosphatase, RdgB/HAM1 family	NA	NA	NA	NA	NA
AMG21985.1|1237387_1239190_+	GGDEF domain-containing protein	NA	NA	NA	NA	NA
AUV47981.1|1239067_1240807_-	HAMP domain-containing protein	NA	A0A2H4J162	uncultured_Caudovirales_phage	27.1	1.0e-10
AMG21987.1|1240841_1241747_-	transcriptional regulator	NA	NA	NA	NA	NA
AMG21988.1|1241928_1243305_+	MmgE/PrpD family protein	NA	NA	NA	NA	NA
AMG21989.1|1243471_1244212_-	ribonuclease PH	NA	NA	NA	NA	NA
AUV47982.1|1244348_1245275_+	YicC family protein	NA	NA	NA	NA	NA
AMG21990.1|1245547_1245703_+	hypothetical protein	NA	NA	NA	NA	NA
AMG21991.1|1245715_1245844_+	hypothetical protein	NA	NA	NA	NA	NA
AMG21992.1|1245840_1246125_+	transcriptional regulator	NA	NA	NA	NA	NA
AMG21993.1|1246183_1247674_-	AMP nucleosidase	NA	NA	NA	NA	NA
AMG21994.1|1247918_1248518_+	NlpC/P60 family protein	NA	A0A0A8WF62	Clostridium_phage	41.6	1.4e-20
AMG21995.1|1248522_1249293_-	SDR family NAD(P)-dependent oxidoreductase	NA	NA	NA	NA	NA
AMG21996.1|1250239_1251157_+	cytochrome C	NA	NA	NA	NA	NA
AMG21997.2|1251277_1251925_+	guanylate kinase	NA	A0A218KC48	Bacillus_phage	33.9	3.1e-13
AMG21998.1|1251966_1252170_+	DNA-directed RNA polymerase subunit omega	NA	NA	NA	NA	NA
AMG21999.1|1252194_1254474_+	bifunctional (p)ppGpp synthetase/guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase	NA	A0A1B1IUF0	uncultured_Mediterranean_phage	32.1	5.9e-06
AMG22000.1|1254486_1255215_-	glutamine ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	39.3	3.3e-35
AMG22001.1|1255211_1255871_-	glutamine ABC transporter permease GlnP	NA	NA	NA	NA	NA
AMG22002.1|1255939_1256692_-	glutamine ABC transporter substrate-binding protein GlnH	NA	NA	NA	NA	NA
AMG22003.1|1256873_1257824_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22004.1|1258716_1259622_+	4-hydroxy-tetrahydrodipicolinate synthase	NA	NA	NA	NA	NA
AUV47983.1|1259633_1260761_+	lipoprotein	NA	NA	NA	NA	NA
AUV47984.1|1260849_1261464_-	serotype 3 fimbrial subunit	NA	NA	NA	NA	NA
AMG22005.1|1262121_1263309_-	cupin	NA	NA	NA	NA	NA
AMG24091.1|1263305_1265903_-	DNA mismatch repair protein MutS	NA	A0A1V0SDQ0	Indivirus	22.6	1.5e-21
AMG22006.1|1266157_1266373_+	dodecin domain-containing protein	NA	NA	NA	NA	NA
AMG22007.1|1266828_1267383_-	NAD(P)H-dependent oxidoreductase	NA	A0A2P0ZL82	Lactobacillus_phage	32.0	1.7e-15
AMG22008.2|1267650_1268211_+	antibiotic biosynthesis monooxygenase	NA	NA	NA	NA	NA
AMG22009.1|1268322_1269627_+	peptidase	NA	NA	NA	NA	NA
AMG22010.1|1269623_1271135_+	thiol oxidoreductase	NA	NA	NA	NA	NA
AMG22011.2|1272221_1273343_+	DUF1513 domain-containing protein	NA	NA	NA	NA	NA
AUV47985.1|1273266_1273455_+	hypothetical protein	NA	NA	NA	NA	NA
AMG22012.1|1273441_1274392_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22013.1|1274388_1275015_-	threonylcarbamoyl-AMP synthase	NA	NA	NA	NA	NA
AMG22014.2|1275080_1275926_+	hypothetical protein	NA	A0A1I9SA48	Rhodococcus_phage	35.3	7.0e-37
AMG24092.2|1276029_1276629_+	hypothetical protein	NA	NA	NA	NA	NA
AMG22015.1|1276625_1277390_+	DUF1828 domain-containing protein	NA	NA	NA	NA	NA
AMG22016.1|1277459_1278410_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22017.1|1278508_1279117_-	recombination protein RecR	NA	NA	NA	NA	NA
AUV47986.1|1279167_1279494_-	YbaB/EbfC family nucleoid-associated protein	NA	NA	NA	NA	NA
AMG22018.1|1285848_1288509_-	hypothetical protein	NA	NA	NA	NA	NA
AMG22019.1|1288712_1289915_-	MFS transporter	NA	NA	NA	NA	NA
AMG22020.1|1290601_1291714_+	D-alanyl-D-alanine endopeptidase	NA	NA	NA	NA	NA
AMG22021.1|1291720_1292671_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22022.2|1292769_1293171_-	aryl-sulfate sulfotransferase	NA	NA	NA	NA	NA
AMG24093.1|1293243_1293822_-|protease	protease	protease	NA	NA	NA	NA
>prophage 3
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	1469130	1509795	4100859	transposase,tRNA	Salmonella_phage(33.33%)	43	NA	NA
AUV48006.1|1469130_1470081_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22161.1|1470191_1470374_+	hypothetical protein	NA	NA	NA	NA	NA
AMG24104.2|1470473_1471070_-	lipoprotein	NA	NA	NA	NA	NA
AMG22162.1|1471253_1472345_+	hypothetical protein	NA	NA	NA	NA	NA
AMG22163.1|1472844_1473255_-	MerR family transcriptional regulator	NA	NA	NA	NA	NA
AMG22164.2|1473313_1473655_-	integration host factor subunit alpha	NA	A0A0H3UZA0	Geobacillus_virus	42.2	2.8e-13
AUV48007.1|1473660_1476078_-|tRNA	phenylalanine--tRNA ligase subunit beta	tRNA	NA	NA	NA	NA
AMG22165.1|1476090_1477113_-|tRNA	phenylalanine--tRNA ligase subunit alpha	tRNA	A0A2H4UW22	Bodo_saltans_virus	38.6	1.0e-26
AMG22166.1|1477187_1477547_-	50S ribosomal protein L20	NA	NA	NA	NA	NA
AMG22167.1|1477562_1477760_-	50S ribosomal protein L35	NA	NA	NA	NA	NA
AMG22168.2|1478095_1479046_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUV48008.1|1479032_1479221_-	hypothetical protein	NA	NA	NA	NA	NA
AMG22169.1|1479240_1479690_+	dUTP diphosphatase	NA	S4TNT3	Salmonella_phage	67.2	3.7e-45
AMG22170.1|1479686_1480637_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22171.1|1480747_1482196_+	PLP-dependent aminotransferase family protein	NA	NA	NA	NA	NA
AMG22172.2|1482310_1482592_-	hypothetical protein	NA	NA	NA	NA	NA
AMG22173.1|1482695_1483646_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AUV48009.1|1483890_1484604_-	class I SAM-dependent methyltransferase	NA	NA	NA	NA	NA
AMG24105.1|1484726_1484954_-	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AUV48010.1|1485248_1485887_-	DedA family protein	NA	NA	NA	NA	NA
AMG22174.2|1485959_1487030_+	metal-dependent hydrolase	NA	NA	NA	NA	NA
AMG22175.2|1487026_1487977_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22176.1|1488392_1488917_-	DNA-binding protein	NA	J9Q7G7	Salmonella_phage	32.9	6.5e-09
AMG22177.1|1488920_1489190_-	hypothetical protein	NA	NA	NA	NA	NA
AUV48011.1|1489388_1490450_-	LacI family transcriptional regulator	NA	NA	NA	NA	NA
AMG22178.1|1490533_1492168_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	31.1	2.9e-15
AMG24106.1|1492169_1492973_-	ABC transporter permease	NA	NA	NA	NA	NA
AMG22179.1|1493001_1493961_-	ABC transporter permease	NA	NA	NA	NA	NA
AMG22180.1|1493964_1495479_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AMG22181.1|1495515_1496520_-	peptidase M20	NA	NA	NA	NA	NA
AMG22182.1|1496527_1496776_-	hypothetical protein	NA	NA	NA	NA	NA
AMG22183.1|1496950_1497421_-	DUF1801 domain-containing protein	NA	NA	NA	NA	NA
AMG22184.1|1497456_1498068_-	LysE family translocator	NA	NA	NA	NA	NA
AMG22185.1|1498098_1498722_-	FMN-binding negative transcriptional regulator	NA	NA	NA	NA	NA
AUV48012.1|1500366_1501608_-	MFS transporter	NA	NA	NA	NA	NA
AMG24107.1|1501651_1502683_-	alcohol dehydrogenase	NA	A0A2K9L339	Tupanvirus	27.8	1.8e-26
AUV48013.1|1502679_1503849_-	amine oxidase	NA	NA	NA	NA	NA
AMG22186.1|1503842_1504523_-	anti-sigma factor	NA	NA	NA	NA	NA
AMG22187.1|1504684_1505527_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AMG22188.1|1505689_1506661_-	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AMG22189.1|1506832_1507711_+	MBL fold metallo-hydrolase	NA	NA	NA	NA	NA
AUV48014.1|1507733_1508804_-	FUSC family protein	NA	NA	NA	NA	NA
AMG22190.2|1508844_1509795_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 4
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	1571364	1652238	4100859	transposase	Burkholderia_phage(16.67%)	60	NA	NA
AMG22239.1|1571364_1572315_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22240.1|1580210_1584257_-	phosphoribosylformylglycinamidine synthase	NA	A9YX36	Burkholderia_phage	67.4	6.3e-160
AUV48019.1|1584569_1585151_+	TRAP transporter small permease	NA	NA	NA	NA	NA
AMG22241.1|1585147_1586446_+	TRAP transporter large permease	NA	NA	NA	NA	NA
AMG22242.1|1586525_1587554_+	C4-dicarboxylate ABC transporter	NA	NA	NA	NA	NA
AUV48020.1|1587477_1587828_+	hypothetical protein	NA	NA	NA	NA	NA
AMG22243.1|1588759_1589710_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AMG22244.1|1590026_1590632_+	fimbrial protein FimX	NA	NA	NA	NA	NA
AMG22245.1|1590685_1591999_-	phenylacetate--CoA ligase	NA	NA	NA	NA	NA
AMG22246.1|1592073_1592544_-	phenylacetic acid degradation protein PaaD	NA	NA	NA	NA	NA
AMG22247.1|1592543_1593332_-	2-(1,2-epoxy-1,2-dihydrophenyl)acetyl-CoA isomerase	NA	NA	NA	NA	NA
AUV48021.1|1593342_1594995_-	phenylacetic acid degradation protein PaaN	NA	NA	NA	NA	NA
AMG24112.1|1597193_1597700_-	phenylacetate-CoA oxygenase subunit PaaJ	NA	NA	NA	NA	NA
AUV48022.1|1597696_1598461_-	phenylacetate-CoA oxygenase subunit PaaI	NA	NA	NA	NA	NA
AMG22249.1|1598476_1598761_-	1,2-phenylacetyl-CoA epoxidase subunit B	NA	NA	NA	NA	NA
AMG22250.1|1598825_1599815_-	1,2-phenylacetyl-CoA epoxidase subunit A	NA	NA	NA	NA	NA
AMG22251.1|1599986_1600916_+	phenylacetic acid degradation operon negative regulatory protein PaaX	NA	NA	NA	NA	NA
AMG22252.1|1600887_1601574_-	NAD(P)H-hydrate epimerase	NA	NA	NA	NA	NA
AMG22253.1|1601607_1602153_-	oligoribonuclease	NA	Q8B5Y0	Diachasmimorpha_longicaudata_entomopoxvirus	37.7	2.1e-26
AMG22254.1|1602197_1603463_+	M48 family peptidase	NA	NA	NA	NA	NA
AMG22255.1|1603459_1604362_+	ribosome biogenesis GTPase	NA	NA	NA	NA	NA
AMG22256.1|1605543_1606488_-	ABC transporter permease	NA	NA	NA	NA	NA
AMG22257.1|1606582_1608100_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AUV48023.1|1608141_1609770_-	gamma-glutamyltransferase	NA	NA	NA	NA	NA
AMG22258.1|1609877_1610759_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AMG22260.1|1613871_1614246_+	endonuclease	NA	F4YXR7	Roseobacter_phage	54.4	2.1e-25
AMG22261.1|1614270_1614609_-	P-II family nitrogen regulator	NA	NA	NA	NA	NA
AUV48024.1|1614652_1616287_-	NAD+ synthase	NA	A0A2L0UZF5	Agrobacterium_phage	36.6	8.3e-87
AMG22262.1|1616325_1617672_-	mechanosensitive ion channel protein MscS	NA	NA	NA	NA	NA
AMG24113.1|1617779_1619201_+	argininosuccinate lyase	NA	NA	NA	NA	NA
AMG22263.1|1619270_1619855_-	nitroreductase	NA	NA	NA	NA	NA
AMG22264.1|1619957_1620908_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22265.1|1621042_1622149_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AMG22266.1|1622159_1623257_+	GTP 3',8-cyclase MoaA	NA	NA	NA	NA	NA
AMG22267.1|1623401_1624607_-	molybdopterin molybdenumtransferase MoeA	NA	NA	NA	NA	NA
AMG22268.1|1624613_1625135_-	molybdenum cofactor biosynthesis protein B	NA	NA	NA	NA	NA
AMG24115.2|1625131_1625623_-	molybdenum cofactor biosynthesis protein MoaE	NA	NA	NA	NA	NA
AMG22269.1|1625619_1625871_-	MoaD/ThiS family protein	NA	NA	NA	NA	NA
AMG24114.1|1625851_1626337_-	cyclic pyranopterin monophosphate synthase MoaC	NA	NA	NA	NA	NA
AMG22270.1|1626472_1629934_+	hypothetical protein	NA	NA	NA	NA	NA
AMG22271.2|1629930_1630836_+	dienelactone hydrolase family protein	NA	NA	NA	NA	NA
AMG22272.1|1630845_1631277_-	lipoprotein	NA	NA	NA	NA	NA
AMG24116.1|1631523_1632027_+	peroxiredoxin	NA	M1I839	Pelagibacter_phage	44.1	1.8e-24
AMG22273.2|1632038_1633505_+	MFS transporter	NA	NA	NA	NA	NA
AMG22274.1|1633579_1634455_-	hypothetical protein	NA	NA	NA	NA	NA
AMG24117.1|1634451_1635459_-	biotin synthase	NA	NA	NA	NA	NA
AMG22275.1|1635926_1636232_+	DUF4148 domain-containing protein	NA	NA	NA	NA	NA
AMG22276.1|1636322_1636913_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA	NA
AMG24118.1|1637103_1638120_-|transposase	IS110-like element IS1663 family transposase	transposase	NA	NA	NA	NA
AMG22277.1|1638311_1640648_-	copper-translocating P-type ATPase	NA	E4ZFI9	Streptococcus_phage	42.8	3.2e-124
AMG22278.1|1640730_1641165_+	Cd(II)/Pb(II)-responsive transcriptional regulator	NA	NA	NA	NA	NA
AMG22280.2|1642311_1643262_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22281.1|1643258_1644053_-	N-formylglutamate deformylase	NA	NA	NA	NA	NA
AMG22282.1|1644084_1644789_-	oxidoreductase	NA	NA	NA	NA	NA
AMG22283.1|1644863_1645664_-	SURF1 family protein	NA	NA	NA	NA	NA
AMG22284.1|1645660_1646068_-	cytochrome o ubiquinol oxidase subunit IV	NA	NA	NA	NA	NA
AMG22285.1|1646064_1646706_-	cytochrome o ubiquinol oxidase subunit III	NA	NA	NA	NA	NA
AMG24119.2|1646698_1648720_-	cytochrome o ubiquinol oxidase subunit I	NA	NA	NA	NA	NA
AUV48025.1|1649959_1651291_+	MFS transporter	NA	NA	NA	NA	NA
AMG22286.1|1651287_1652238_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 5
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	1666713	1708066	4100859	transposase,protease	uncultured_Mediterranean_phage(50.0%)	26	NA	NA
AMG22295.2|1666713_1667664_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AUV48026.1|1667994_1671816_-	trifunctional transcriptional regulator/proline dehydrogenase/L-glutamate gamma-semialdehyde dehydrogenase	NA	NA	NA	NA	NA
AMG22296.1|1671972_1672641_-	lipoprotein	NA	NA	NA	NA	NA
AUV48027.1|1672645_1674319_-	paraquat-inducible protein B	NA	NA	NA	NA	NA
AUV48028.1|1674337_1675657_-	paraquat-inducible membrane protein A	NA	NA	NA	NA	NA
AMG22297.2|1675661_1678013_-|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	protease	A0A223W0B1	Agrobacterium_phage	41.9	4.2e-164
AMG24121.2|1680196_1685386_-	alpha-2-macroglobulin family protein	NA	NA	NA	NA	NA
AMG22298.1|1685475_1685790_-|protease	ATP-dependent Clp protease adaptor ClpS	protease	A0A1B1IT64	uncultured_Mediterranean_phage	43.8	1.2e-10
AMG22299.1|1686017_1686263_+	cold-shock protein	NA	A0A2H4N7Y6	Lake_Baikal_phage	76.6	1.3e-20
AMG22300.2|1686357_1686876_+	hypothetical protein	NA	A0A1B1IUW8	uncultured_Mediterranean_phage	42.2	5.1e-14
AMG22301.1|1686975_1688181_-	3-oxoadipyl-CoA thiolase	NA	NA	NA	NA	NA
AUV48029.1|1688296_1689694_-	chloride channel protein EriC	NA	NA	NA	NA	NA
AMG22302.1|1689810_1690389_-	superoxide dismutase [Fe]	NA	NA	NA	NA	NA
AMG22303.1|1692019_1692970_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22304.1|1693250_1693871_+	MotA/TolQ/ExbB proton channel family protein	NA	NA	NA	NA	NA
AMG22305.1|1693867_1694281_+	biopolymer transporter ExbD	NA	NA	NA	NA	NA
AMG22306.1|1695373_1695562_+	hypothetical protein	NA	NA	NA	NA	NA
AMG22307.1|1695571_1696336_+	3-deoxy-manno-octulosonate cytidylyltransferase	NA	NA	NA	NA	NA
AMG22308.1|1696426_1697083_+	adenylate kinase	NA	NA	NA	NA	NA
AMG22309.1|1697174_1697933_+	3-hydroxyacyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AMG22310.1|1699759_1700764_+	DUF4880 domain-containing protein	NA	NA	NA	NA	NA
AMG22311.1|1700864_1701128_+	30S ribosomal protein S20	NA	NA	NA	NA	NA
AMG22312.1|1701245_1702022_-	2-dehydro-3-deoxyglucarate aldolase	NA	NA	NA	NA	NA
AMG22313.1|1702612_1703563_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22314.1|1705946_1707059_-	malate dehydrogenase	NA	NA	NA	NA	NA
AMG22315.2|1707115_1708066_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 6
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	2015634	2050470	4100859	transposase,holin	Erwinia_phage(25.0%)	35	NA	NA
AMG22527.1|2015634_2016585_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22528.1|2017029_2017341_-	cell division protein ZapA	NA	NA	NA	NA	NA
AMG22529.1|2017340_2017871_-	hypothetical protein	NA	NA	NA	NA	NA
AMG22530.1|2018033_2018984_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22531.1|2019273_2019738_+	tripartite tricarboxylate transporter TctB family protein	NA	NA	NA	NA	NA
AUV48062.1|2019752_2021258_+	tripartite tricarboxylate transporter permease	NA	NA	NA	NA	NA
AMG22532.2|2021511_2023119_+	gamma-glutamyltransferase family protein	NA	NA	NA	NA	NA
AMG22533.1|2023174_2024080_+	NAD(P)-dependent oxidoreductase	NA	NA	NA	NA	NA
AMG22534.2|2024520_2025471_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22535.2|2025569_2026520_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22536.1|2026601_2027183_-	ATP:cob(I)alamin adenosyltransferase	NA	NA	NA	NA	NA
AMG24134.1|2027607_2027913_+	RND transporter	NA	NA	NA	NA	NA
AMG22537.1|2027926_2029261_-	HslU--HslV peptidase ATPase subunit	NA	A0A191ZC11	Erwinia_phage	29.6	3.5e-43
AUV48063.1|2029282_2029822_-	HslU--HslV peptidase proteolytic subunit	NA	NA	NA	NA	NA
AMG22538.1|2029969_2030434_-	RNA polymerase-binding protein DksA	NA	NA	NA	NA	NA
AMG22539.1|2030576_2031692_-	GTP-binding protein	NA	NA	NA	NA	NA
AMG22540.1|2031968_2032472_-	transcriptional repressor	NA	NA	NA	NA	NA
AMG22541.1|2032609_2032810_+	hypothetical protein	NA	NA	NA	NA	NA
AMG22542.1|2032800_2033523_+	metal ABC transporter ATP-binding protein	NA	A0A2R8FG22	Brazilian_cedratvirus	30.0	1.1e-11
AUV48064.1|2033519_2034416_+	metal ABC transporter permease	NA	NA	NA	NA	NA
AMG22543.1|2034412_2035348_+	metal ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AMG22544.2|2035353_2035977_+	DUF1007 domain-containing protein	NA	NA	NA	NA	NA
AMG22545.2|2035967_2036936_+	nickel transporter	NA	NA	NA	NA	NA
AMG22546.1|2036984_2039126_+	TonB-dependent receptor	NA	NA	NA	NA	NA
AMG22547.1|2040131_2040824_-	DUF484 domain-containing protein	NA	NA	NA	NA	NA
AMG22548.1|2040850_2041762_-	diaminopimelate epimerase	NA	NA	NA	NA	NA
AMG22549.1|2041804_2042695_-	acyltransferase	NA	NA	NA	NA	NA
AMG22550.1|2042691_2043546_-	lipid A biosynthesis lauroyl acyltransferase	NA	NA	NA	NA	NA
AMG22551.2|2043694_2044993_+	methionine adenosyltransferase	NA	A0A2H4PQS6	Staphylococcus_phage	60.9	1.6e-125
AMG24135.1|2045103_2045355_+	DUF1289 domain-containing protein	NA	NA	NA	NA	NA
AMG22552.1|2045434_2046475_+	glycosyltransferase family 1 protein	NA	NA	NA	NA	NA
AMG22553.1|2046754_2048173_+	adenosylhomocysteinase	NA	S4VPF6	Pandoravirus	29.4	8.7e-40
AMG22554.1|2048243_2048579_+|holin	phage holin family protein	holin	NA	NA	NA	NA
AUV48065.1|2048578_2049421_+	methylenetetrahydrofolate reductase [NAD(P)H]	NA	NA	NA	NA	NA
AMG22555.2|2049519_2050470_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 7
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	2197814	2281241	4100859	transposase,tRNA	Acinetobacter_phage(25.0%)	60	NA	NA
AMG22644.2|2197814_2198765_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUV48090.1|2198751_2199120_-	hypothetical protein	NA	NA	NA	NA	NA
AMG22645.1|2199118_2202097_+	hypothetical protein	NA	NA	NA	NA	NA
AUV48091.1|2203023_2203902_+	fatty acid desaturase	NA	NA	NA	NA	NA
AMG22648.1|2205850_2206801_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22649.1|2206797_2207265_-	ribonuclease HI	NA	J9Q745	Salmonella_phage	50.7	5.6e-36
AMG22650.1|2207307_2208078_-	class I SAM-dependent methyltransferase	NA	NA	NA	NA	NA
AMG22651.1|2208098_2208899_+	hydroxyacylglutathione hydrolase	NA	NA	NA	NA	NA
AUV48092.1|2208909_2210319_+	lytic transglycosylase	NA	NA	NA	NA	NA
AMG22652.1|2210413_2211199_+	enoyl-[acyl-carrier-protein] reductase FabI	NA	NA	NA	NA	NA
AMG22653.1|2212561_2212954_-	OsmC family peroxiredoxin	NA	NA	NA	NA	NA
AMG22654.1|2213091_2213772_+	DUF533 domain-containing protein	NA	NA	NA	NA	NA
AMG24141.2|2213776_2214775_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG22656.1|2217296_2217998_+	DNA-binding response regulator	NA	W8CYM9	Bacillus_phage	36.6	5.6e-32
AMG22658.1|2220490_2221831_-	cytochrome ubiquinol oxidase subunit I	NA	NA	NA	NA	NA
AMG22659.1|2221946_2223710_+|tRNA	glutamine--tRNA ligase	tRNA	A0A222YZ70	Escherichia_phage	50.0	5.0e-162
AMG22660.1|2223821_2224700_+	septum site-determining protein MinC	NA	NA	NA	NA	NA
AMG22661.1|2224812_2225628_+	septum site-determining protein MinD	NA	NA	NA	NA	NA
AMG22662.1|2225631_2225883_+	cell division topological specificity factor	NA	NA	NA	NA	NA
AMG24142.1|2225967_2226984_-|transposase	IS110 family transposase IS1663	transposase	NA	NA	NA	NA
AMG22663.1|2227314_2227536_-	hypothetical protein	NA	NA	NA	NA	NA
AMG24143.2|2229896_2230814_-	EamA/RhaT family transporter	NA	NA	NA	NA	NA
AMG22664.1|2231311_2232520_-	ABC transporter permease	NA	NA	NA	NA	NA
AMG22665.1|2232599_2234171_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AMG22666.1|2234288_2235224_-	glycosyltransferase family 2 protein	NA	NA	NA	NA	NA
AMG22667.1|2235412_2236357_+	LysR family transcriptional regulator	NA	A0A2P0ZL89	Lactobacillus_phage	23.2	8.4e-07
AMG22668.2|2236425_2236641_-	hypothetical protein	NA	NA	NA	NA	NA
AUV48093.1|2236924_2242642_+	excinuclease ABC subunit A	NA	A0A1B1IVR3	uncultured_Mediterranean_phage	39.5	1.0e-195
AUV48094.1|2243829_2244456_+	aminotransferase	NA	NA	NA	NA	NA
AMG24144.1|2244727_2245744_+|transposase	IS110-like element IS1663 family transposase	transposase	NA	NA	NA	NA
AMG22669.1|2245839_2246550_-	oxidoreductase	NA	NA	NA	NA	NA
AMG22670.1|2246546_2247536_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG22671.2|2247667_2249263_+	acyl-CoA synthetase	NA	NA	NA	NA	NA
AMG22672.1|2249265_2250003_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AUV48095.1|2250158_2251031_-|tRNA	tRNA threonylcarbamoyladenosine dehydratase	tRNA	NA	NA	NA	NA
AMG22673.2|2251299_2252520_+	MFS transporter	NA	NA	NA	NA	NA
AMG22674.1|2252516_2253176_+	gamma-glutamylcyclotransferase	NA	NA	NA	NA	NA
AMG22675.1|2253247_2253880_+	pyridoxine/pyridoxamine 5'-phosphate oxidase	NA	NA	NA	NA	NA
AMG24145.2|2253909_2254428_+	flavin reductase	NA	NA	NA	NA	NA
AMG22676.1|2254438_2255548_+	NAD(P)/FAD-dependent oxidoreductase	NA	NA	NA	NA	NA
AMG22677.1|2255594_2256449_+	formyltetrahydrofolate deformylase	NA	NA	NA	NA	NA
AMG22678.1|2256450_2257353_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AMG22681.1|2262443_2263232_-	indole-3-glycerol-phosphate synthase	NA	A0A0P0IR83	Acinetobacter_phage	53.0	5.1e-66
AMG22682.1|2263228_2264260_-	anthranilate phosphoribosyltransferase	NA	A0A0N7IRD9	Acinetobacter_phage	42.7	7.4e-73
AUV48096.1|2264278_2264842_-	type 1 glutamine amidotransferase	NA	A0A0P0IKJ1	Acinetobacter_phage	62.1	1.1e-65
AUV48097.1|2264897_2266418_-	anthranilate synthase component I	NA	S4VT78	Pandoravirus	32.1	9.0e-43
AMG22683.1|2266681_2267386_-	phosphoglycolate phosphatase	NA	NA	NA	NA	NA
AUV48098.1|2267393_2268131_-	ribulose-phosphate 3-epimerase	NA	NA	NA	NA	NA
AMG22684.2|2268236_2268611_+	Co2+/Mg2+ efflux protein ApaG	NA	NA	NA	NA	NA
AMG22685.1|2268653_2269943_+	hypothetical protein	NA	NA	NA	NA	NA
AMG22686.1|2269939_2271109_+	ubiquinone biosynthesis protein UbiH	NA	NA	NA	NA	NA
AMG22687.2|2271105_2271945_+	thiol:disulfide interchange protein DsbC	NA	NA	NA	NA	NA
AMG22688.1|2272004_2272940_+	hydroxyacid dehydrogenase	NA	A0A1J0F959	Only_Syngen_Nebraska_virus	27.7	6.4e-15
AMG22689.1|2272952_2273903_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22690.1|2274001_2274964_-|tRNA	tRNA 2-thiocytidine(32) synthetase TtcA	tRNA	A0A0U2S5Z2	Escherichia_phage	64.5	4.6e-93
AMG22691.1|2274995_2275355_-	dihydroneopterin aldolase	NA	NA	NA	NA	NA
AMG22692.1|2275479_2276382_+	NAD(P)/FAD-dependent oxidoreductase	NA	G3MA85	Bacillus_virus	24.0	1.9e-08
AMG24146.2|2276383_2278156_-	PDZ domain-containing protein	NA	NA	NA	NA	NA
AMG22693.1|2278190_2278967_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AMG22694.2|2280290_2281241_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 8
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	2296178	2340959	4100859	transposase,tRNA	Planktothrix_phage(33.33%)	34	NA	NA
AMG22707.1|2296178_2297129_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22708.1|2297257_2298391_-	peptidase	NA	NA	NA	NA	NA
AMG22709.1|2298434_2299340_-	alpha/beta hydrolase	NA	NA	NA	NA	NA
AUV48100.1|2299342_2301043_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	32.7	1.0e-15
AMG22710.1|2301039_2301960_-	ABC transporter permease	NA	NA	NA	NA	NA
AMG22711.1|2301967_2302945_-	ABC transporter permease	NA	NA	NA	NA	NA
AMG22712.1|2306011_2306248_-	hypothetical protein	NA	NA	NA	NA	NA
AMG22713.1|2306374_2307238_-	NAD(P)H-hydrate dehydratase	NA	NA	NA	NA	NA
AMG22714.1|2307326_2308148_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AMG22715.1|2308227_2308965_-	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AMG22716.1|2308961_2309954_-	nitronate monooxygenase	NA	NA	NA	NA	NA
AMG22717.2|2310067_2310730_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA	NA
AMG22718.1|2310774_2311923_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AMG22719.2|2314246_2315197_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AMG22720.2|2315570_2316521_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AMG24147.1|2316595_2317537_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AMG22721.2|2317635_2318586_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AUV48101.1|2319421_2321197_+	copper resistance system multicopper oxidase	NA	NA	NA	NA	NA
AMG22722.2|2321243_2322071_+	copper resistance protein B	NA	NA	NA	NA	NA
AMG24148.2|2322077_2322812_-	enoyl-CoA hydratase/isomerase family protein	NA	NA	NA	NA	NA
AMG22725.2|2323981_2324776_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AUV48102.1|2325065_2325656_+	cysteine dioxygenase	NA	NA	NA	NA	NA
AMG22726.1|2325689_2327018_-	amidase	NA	NA	NA	NA	NA
AMG22727.1|2327092_2328238_-	transporter	NA	NA	NA	NA	NA
AMG22728.1|2328349_2329348_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22729.1|2329310_2329745_+	carbon monoxide dehydrogenase	NA	NA	NA	NA	NA
AMG22730.1|2331261_2332146_+	EamA/RhaT family transporter	NA	NA	NA	NA	NA
AMG22731.1|2332142_2333348_-	cardiolipin synthase ClsB	NA	NA	NA	NA	NA
AMG22732.1|2333344_2334205_-	endonuclease	NA	NA	NA	NA	NA
AMG22733.1|2334317_2336108_-|tRNA	aspartate--tRNA ligase	tRNA	A0A1V0SAC0	Catovirus	25.5	6.5e-08
AMG24149.2|2336148_2336814_-	DUF502 domain-containing protein	NA	A0A2I7S9X1	Vibrio_phage	28.4	6.7e-11
AMG22734.1|2336814_2337123_-	FmdB family transcriptional regulator	NA	NA	NA	NA	NA
AMG24150.1|2337288_2338575_-	hypothetical protein	NA	NA	NA	NA	NA
AMG22737.1|2340008_2340959_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 9
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	2487410	2619274	4100859	transposase,tRNA,integrase	uncultured_Mediterranean_phage(10.71%)	114	2533101:2533118	2575631:2575648
AMG22831.2|2487410_2488361_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22832.2|2488460_2489411_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22833.1|2489407_2490043_-	transporter	NA	NA	NA	NA	NA
AMG22834.1|2490172_2491072_+	LysR family transcriptional regulator ArgP	NA	NA	NA	NA	NA
AMG22835.1|2491167_2491659_+	copper chaperone PCu(A)C	NA	NA	NA	NA	NA
AMG22836.1|2491705_2492671_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG22837.1|2493804_2495046_+	PLP-dependent aminotransferase family protein	NA	A0A1X9I5H2	Streptococcus_phage	24.9	1.9e-14
AMG22838.1|2495159_2496176_+	amino acid ABC transporter substrate-binding protein	NA	A0A1B1IT51	uncultured_Mediterranean_phage	43.8	3.5e-75
AMG22839.1|2496210_2496687_-	hypothetical protein	NA	NA	NA	NA	NA
AMG22840.1|2496829_2497738_-	hydroxymethylglutaryl-CoA lyase	NA	NA	NA	NA	NA
AMG24159.2|2499063_2499597_-	Lrp/AsnC family transcriptional regulator	NA	NA	NA	NA	NA
AUV48127.1|2499685_2500936_+	kynureninase	NA	NA	NA	NA	NA
AMG22841.1|2501037_2501550_+	peptide deformylase	NA	E3SLL2	Synechococcus_phage	43.3	8.5e-22
AUV48128.1|2501455_2501662_+	hypothetical protein	NA	NA	NA	NA	NA
AUV48129.1|2501648_2502599_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22842.1|2502664_2503603_+|tRNA	methionyl-tRNA formyltransferase	tRNA	E3SNR5	Prochlorococcus_phage	35.7	1.4e-09
AMG22843.1|2503625_2504252_-	pyridoxamine 5'-phosphate oxidase family protein	NA	NA	NA	NA	NA
AMG22844.1|2504248_2504905_-	HAD family hydrolase	NA	NA	NA	NA	NA
AMG22845.1|2504901_2505504_-	hypothetical protein	NA	NA	NA	NA	NA
AMG22846.2|2505510_2506137_-	TIGR00730 family Rossman fold protein	NA	A0A2I2L3F0	Orpheovirus	23.3	1.5e-07
AMG22847.1|2506278_2506848_+	bacterioferritin	NA	NA	NA	NA	NA
AMG22848.1|2506918_2508238_-	30S ribosomal protein S12 methylthiotransferase RimO	NA	NA	NA	NA	NA
AMG24160.1|2508344_2508536_-	4-oxalocrotonate tautomerase	NA	NA	NA	NA	NA
AMG22849.1|2508787_2510077_+	FAD-binding oxidoreductase	NA	NA	NA	NA	NA
AMG22850.1|2510231_2511227_+	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG22851.1|2511311_2511986_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AMG22852.2|2511982_2512933_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AUV48130.1|2512919_2513102_-	hypothetical protein	NA	NA	NA	NA	NA
AMG22853.1|2513094_2514336_+	ornithine--oxo-acid transaminase	NA	A0A1V0SKB7	Klosneuvirus	25.2	4.0e-25
AMG22854.1|2514332_2515277_+	arginase	NA	A0A0N9R043	Chrysochromulina_ericina_virus	33.3	9.5e-27
AMG22855.2|2515395_2516346_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22856.1|2516305_2517235_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG22857.1|2517288_2517624_-	carboxymuconolactone decarboxylase family protein	NA	NA	NA	NA	NA
AMG22858.1|2517668_2518433_-	enoyl-CoA hydratase/isomerase family protein	NA	NA	NA	NA	NA
AMG22859.1|2518456_2519197_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AMG24161.2|2519204_2520779_-	long-chain fatty acid--CoA ligase	NA	A0A2K9L3I8	Tupanvirus	22.6	2.0e-13
AMG22860.1|2520792_2521770_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG22861.2|2522042_2522642_-	ureidoglycolate hydrolase	NA	NA	NA	NA	NA
AMG22862.1|2530023_2530155_-	entericidin	NA	NA	NA	NA	NA
AMG24162.2|2530186_2530348_-	hypothetical protein	NA	NA	NA	NA	NA
AMG22863.1|2530420_2530627_-	DUF3596 domain-containing protein	NA	NA	NA	NA	NA
AMG22864.1|2531631_2532291_+	haloacid dehalogenase	NA	NA	NA	NA	NA
AMG22865.1|2532318_2533464_+	DSD1 family PLP-dependent enzyme	NA	NA	NA	NA	NA
2533101:2533118	attL	CAGCGTGCTGGCCACCGT	NA	NA	NA	NA
AMG22866.1|2533604_2533940_+	hypothetical protein	NA	NA	NA	NA	NA
AMG22867.1|2534014_2534875_-	Band 7 protein	NA	A0A2C9D0H9	Yersinia_phage	53.6	1.7e-51
AMG22868.1|2535138_2535840_-	glutathione S-transferase	NA	NA	NA	NA	NA
AMG22869.1|2536009_2536405_+	RidA family protein	NA	NA	NA	NA	NA
AMG22870.2|2536514_2537465_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AMG22871.1|2537500_2537968_+	hypothetical protein	NA	Q3HQX1	Burkholderia_phage	71.3	2.1e-43
AMG22872.1|2538201_2538579_+	hypothetical protein	NA	NA	NA	NA	NA
AMG22873.1|2538575_2538758_+	hypothetical protein	NA	NA	NA	NA	NA
AMG22874.1|2538761_2539748_+	DNA recombinase	NA	H9C0R8	Aeromonas_phage	57.3	2.0e-67
AMG22875.1|2539744_2540392_+	exonuclease	NA	A0A0U2BXF3	Paracoccus_phage	41.4	2.0e-31
AMG22876.1|2540449_2540977_+	hypothetical protein	NA	NA	NA	NA	NA
AUV48131.1|2541010_2542198_+	hypothetical protein	NA	A0A291L9X3	Bordetella_phage	37.8	1.5e-24
AMG22877.2|2542187_2542550_+	hypothetical protein	NA	A0A0H5ARN8	Pseudomonas_phage	47.9	1.8e-13
AMG22878.1|2542542_2542662_+	hypothetical protein	NA	NA	NA	NA	NA
AMG22879.1|2542662_2542863_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA	NA
AMG22880.1|2542859_2543849_-|integrase	site-specific integrase	integrase	A0A1B1P9F9	Acinetobacter_phage	44.4	4.4e-75
AMG22881.1|2545335_2547306_-	DUF3120 domain-containing protein	NA	NA	NA	NA	NA
AMG22882.1|2547547_2547946_+	hypothetical protein	NA	NA	NA	NA	NA
AMG22883.1|2547954_2548878_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AMG22884.2|2549335_2550286_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22885.1|2550516_2552208_-	membrane protein insertase YidC	NA	NA	NA	NA	NA
AMG22886.1|2552256_2552529_-	membrane protein insertion efficiency factor YidD	NA	A0A2H4PQM5	Staphylococcus_phage	52.2	7.0e-15
AMG22887.1|2552525_2552897_-	ribonuclease P protein component	NA	NA	NA	NA	NA
AMG22888.1|2552992_2553127_-	50S ribosomal protein L34	NA	NA	NA	NA	NA
AMG24164.1|2553532_2554942_+	chromosomal replication initiator protein DnaA	NA	NA	NA	NA	NA
AMG24163.2|2554938_2556054_+	DNA polymerase III subunit beta	NA	B4UTW9	Rhizobium_phage	32.6	1.6e-41
AMG22889.1|2556148_2558602_+	DNA topoisomerase (ATP-hydrolyzing) subunit B	NA	G3M9Z3	Bacillus_virus	34.8	2.3e-112
AMG22890.1|2558720_2559512_-	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AMG22891.1|2559631_2561059_+	amidase	NA	NA	NA	NA	NA
AMG24165.1|2561097_2562069_+	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG22893.1|2562487_2563651_+	alpha-hydroxy-acid oxidizing protein	NA	NA	NA	NA	NA
AMG22894.1|2563738_2564584_+	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AMG22895.2|2566140_2567091_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22897.1|2567645_2568020_-	MerR family transcriptional regulator	NA	NA	NA	NA	NA
AMG22898.1|2568094_2569153_+	Zn-dependent hydrolase	NA	NA	NA	NA	NA
AMG22899.2|2569176_2570127_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG22900.1|2573008_2574178_+	acetyl-CoA C-acyltransferase	NA	NA	NA	NA	NA
AMG24166.1|2574278_2575886_+	methylcrotonoyl-CoA carboxylase	NA	A0A1B2ITV7	Pike_perch_iridovirus	57.3	5.4e-22
2575631:2575648	attR	CAGCGTGCTGGCCACCGT	NA	NA	NA	NA
AMG22901.1|2575932_2577954_+	acetyl/propionyl/methylcrotonyl-CoA carboxylase subunit alpha	NA	NA	NA	NA	NA
AMG22902.1|2577982_2578228_-	DUF1653 domain-containing protein	NA	NA	NA	NA	NA
AMG22903.1|2578241_2579432_-	aspartate aminotransferase family protein	NA	A0A1V0SKB7	Klosneuvirus	26.7	4.4e-21
AMG22904.1|2579627_2580593_+	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AUV48132.1|2580615_2581755_-	DSD1 family PLP-dependent enzyme	NA	NA	NA	NA	NA
AMG22905.1|2581966_2582929_+	immunogenic protein	NA	NA	NA	NA	NA
AUV48133.1|2583052_2585077_+	C4-dicarboxylate ABC transporter permease	NA	NA	NA	NA	NA
AUV48134.1|2585273_2587517_+	TonB-dependent hemoglobin/transferrin/lactoferrin family receptor	NA	NA	NA	NA	NA
AMG22906.1|2587795_2588254_+	hypothetical protein	NA	NA	NA	NA	NA
AUV48135.1|2589181_2591803_-	hypothetical protein	NA	NA	NA	NA	NA
AUV48136.1|2591866_2594494_+	DNA topoisomerase III	NA	A0A0G2YA05	Acanthamoeba_polyphaga_mimivirus	25.4	6.1e-23
AMG22907.1|2594645_2595710_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AMG22908.2|2595706_2596480_+	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	33.9	8.1e-24
AMG22909.1|2596488_2597322_+	ABC transporter permease	NA	NA	NA	NA	NA
AMG22910.1|2597334_2598114_+	gluconate 5-dehydrogenase	NA	NA	NA	NA	NA
AMG22911.2|2598148_2599621_+	aldehyde dehydrogenase family protein	NA	NA	NA	NA	NA
AMG22912.1|2599648_2600407_+	SDR family NAD(P)-dependent oxidoreductase	NA	NA	NA	NA	NA
AMG24167.2|2600462_2602313_-	acetolactate synthase, large subunit, biosynthetic type	NA	E4WLQ6	Ostreococcus_tauri_virus	30.4	2.2e-59
AMG22913.1|2602406_2602883_+	Lrp/AsnC family transcriptional regulator	NA	NA	NA	NA	NA
AMG22914.1|2602899_2603820_-	bestrophin	NA	NA	NA	NA	NA
AMG22915.1|2603926_2604427_+	SET domain-containing protein	NA	NA	NA	NA	NA
AMG22916.1|2604800_2605493_+	3,4-dihydroxy-2-butanone-4-phosphate synthase	NA	A0A2H4PQS2	Staphylococcus_phage	41.6	6.3e-36
AMG22917.2|2605801_2606752_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AUV48137.1|2606748_2610522_-	methionine synthase	NA	A0A140XBC7	Dickeya_phage	50.8	8.6e-10
AMG22918.1|2610858_2612748_+	TonB-dependent receptor	NA	A0A0P0I887	Acinetobacter_phage	30.8	7.6e-07
AMG24168.1|2612759_2613653_+	cobalamin-binding protein	NA	NA	NA	NA	NA
AMG22919.2|2613678_2614554_+	thiazole synthase	NA	NA	NA	NA	NA
AMG22920.1|2614550_2615402_+	bifunctional hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase	NA	NA	NA	NA	NA
AMG22921.1|2615463_2616144_+	protein-L-isoaspartate O-methyltransferase	NA	A0A1B1IU40	uncultured_Mediterranean_phage	34.8	3.5e-15
AMG22922.2|2616147_2616507_+	hypothetical protein	NA	NA	NA	NA	NA
AMG22923.1|2616507_2617467_+	hypothetical protein	NA	NA	NA	NA	NA
AMG22924.1|2617487_2617976_-	D-beta-D-heptose 1-phosphate adenylyltransferase	NA	A0A1B1IUK5	uncultured_Mediterranean_phage	34.1	1.6e-17
AMG24169.1|2618257_2619274_+|transposase	IS110-like element IS1663 family transposase	transposase	NA	NA	NA	NA
>prophage 10
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	2886302	2956740	4100859	transposase,tRNA,protease	Natrialba_phage(12.5%)	59	NA	NA
AMG23136.1|2886302_2888222_+|tRNA	tRNA uridine-5-carboxymethylaminomethyl(34) synthesis enzyme MnmG	tRNA	NA	NA	NA	NA
AMG23137.1|2888218_2888911_+	ribosomal RNA small subunit methyltransferase G	NA	NA	NA	NA	NA
AMG23138.1|2888907_2889705_+	chromosome partitioning protein	NA	Q8JL10	Natrialba_phage	34.9	5.6e-20
AMG23139.1|2889711_2890473_+	N-acetyltransferase	NA	NA	NA	NA	NA
AMG23140.1|2890516_2891434_+	chromosome partitioning protein ParB	NA	I3NLC2	Bifidobacterium_phage	38.1	1.9e-16
AMG23143.1|2893023_2894214_+	elongation factor Tu	NA	A0A1V0SLW6	Klosneuvirus	29.2	3.1e-14
AMG23144.1|2894452_2894833_+	preprotein translocase subunit SecE	NA	NA	NA	NA	NA
AMG23145.1|2894842_2895376_+	transcription termination/antitermination protein NusG	NA	G3MAW2	Bacillus_virus	30.5	1.4e-11
AMG23146.1|2895439_2895871_+	50S ribosomal protein L11	NA	NA	NA	NA	NA
AMG23147.1|2895873_2896572_+	50S ribosomal protein L1	NA	NA	NA	NA	NA
AMG23148.1|2896814_2897339_+	50S ribosomal protein L10	NA	NA	NA	NA	NA
AMG23149.1|2897420_2897804_+	50S ribosomal protein L7/L12	NA	NA	NA	NA	NA
AMG24183.1|2897963_2902076_+	DNA-directed RNA polymerase subunit beta	NA	A0A0N9R0J7	Chrysochromulina_ericina_virus	28.8	2.4e-21
AMG23150.1|2902075_2906320_+	DNA-directed RNA polymerase subunit beta'	NA	A0A2I7QNZ7	Vibrio_phage	24.7	3.5e-68
AUV48292.1|2906428_2906833_-	lipoprotein	NA	NA	NA	NA	NA
AMG23151.1|2907073_2908249_+	hypothetical protein	NA	NA	NA	NA	NA
AUV48169.1|2910654_2911761_-	peptidoglycan-binding protein	NA	NA	NA	NA	NA
AMG23152.2|2912772_2913588_+	DNA-binding response regulator	NA	NA	NA	NA	NA
AMG23154.2|2914615_2914951_-	CoA transferase	NA	NA	NA	NA	NA
AMG23155.1|2914975_2915410_-	hypothetical protein	NA	NA	NA	NA	NA
AMG24184.2|2915442_2916669_-	thiolase family protein	NA	NA	NA	NA	NA
AMG23156.1|2916665_2917163_-	dehydratase	NA	NA	NA	NA	NA
AMG23157.2|2917370_2918279_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AMG24185.2|2918464_2919307_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AMG23158.1|2919349_2920771_+	MmgE/PrpD family protein	NA	NA	NA	NA	NA
AMG23160.1|2921871_2923062_-	MFS transporter	NA	NA	NA	NA	NA
AMG23161.2|2923248_2924223_+|tRNA	glycine--tRNA ligase subunit alpha	tRNA	NA	NA	NA	NA
AMG23162.1|2924224_2926363_+|tRNA	glycine--tRNA ligase subunit beta	tRNA	NA	NA	NA	NA
AMG23163.1|2926359_2926899_+	D-glycero-beta-D-manno-heptose 1,7-bisphosphate 7-phosphatase	NA	NA	NA	NA	NA
AMG23164.1|2926902_2927631_+	1-acyl-sn-glycerol-3-phosphate acyltransferase	NA	NA	NA	NA	NA
AMG23165.1|2927617_2928511_+	M48 family peptidase	NA	NA	NA	NA	NA
AUV48170.1|2928581_2928977_+	lactoylglutathione lyase	NA	NA	NA	NA	NA
AMG23166.1|2928986_2929517_+	peptide deformylase	NA	E3SLL2	Synechococcus_phage	35.4	3.7e-12
AUV48171.1|2929645_2929945_-	DUF1974 domain-containing protein	NA	NA	NA	NA	NA
AMG23168.1|2929962_2930913_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG24186.2|2931411_2932047_+	hypothetical protein	NA	NA	NA	NA	NA
AMG23169.1|2932018_2932255_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA	NA
AMG23170.1|2932382_2933276_+	hypothetical protein	NA	NA	NA	NA	NA
AMG23171.1|2934443_2935691_+	homoserine O-acetyltransferase	NA	NA	NA	NA	NA
AMG23172.1|2935687_2936302_+	methionine biosynthesis protein MetW	NA	NA	NA	NA	NA
AMG23173.2|2936437_2937388_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AUV48172.1|2937430_2938687_+	MFS transporter	NA	NA	NA	NA	NA
AMG23174.1|2939918_2940653_-	aspartate/glutamate racemase family protein	NA	NA	NA	NA	NA
AUV48173.1|2940658_2941249_-	amino acid ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	33.6	3.2e-20
AMG23175.1|2941273_2941963_-	amino acid ABC transporter permease	NA	NA	NA	NA	NA
AMG23176.1|2941959_2942721_-	amino acid ABC transporter permease	NA	NA	NA	NA	NA
AMG23177.1|2942800_2943700_-	amino acid ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AMG23178.1|2943793_2944744_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23179.1|2945544_2946771_-	type II toxin-antitoxin system HipA family toxin	NA	NA	NA	NA	NA
AMG23180.2|2946770_2947190_-	transcriptional regulator	NA	NA	NA	NA	NA
AMG24187.1|2947373_2948315_-	hypothetical protein	NA	NA	NA	NA	NA
AMG23181.2|2948738_2949575_-	hypothetical protein	NA	NA	NA	NA	NA
AUV48174.1|2949769_2950351_-|protease	protease	protease	NA	NA	NA	NA
AMG24188.2|2950363_2950681_-	ferredoxin	NA	NA	NA	NA	NA
AUV48175.1|2950784_2951843_-	oxidoreductase	NA	NA	NA	NA	NA
AUV48176.1|2951877_2953149_-	TRAP transporter large permease	NA	NA	NA	NA	NA
AMG23183.1|2953778_2954960_-	hypothetical protein	NA	NA	NA	NA	NA
AMG23184.2|2955381_2956332_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AMG23185.1|2956425_2956740_+|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 11
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	3052230	3123594	4100859	transposase,tRNA	Diachasmimorpha_longicaudata_entomopoxvirus(11.11%)	56	NA	NA
AMG23257.2|3052230_3053181_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23258.1|3055502_3056132_-	LemA family protein	NA	NA	NA	NA	NA
AUV48180.1|3056414_3057842_+	RNA helicase	NA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	29.8	5.8e-44
AMG23259.1|3057875_3058505_+	threonine transporter RhtB	NA	NA	NA	NA	NA
AUV48181.1|3058553_3060161_+	peptide chain release factor 3	NA	A0A2K9L6L3	Tupanvirus	37.8	9.3e-14
AMG23260.2|3060185_3060869_+	hypothetical protein	NA	NA	NA	NA	NA
AMG24196.1|3060950_3061427_-	bacterioferritin	NA	NA	NA	NA	NA
AMG23262.1|3063698_3064226_+	lipoprotein	NA	NA	NA	NA	NA
AMG23263.1|3064317_3065133_+	lipoprotein	NA	NA	NA	NA	NA
AMG23264.1|3065193_3065928_+	sulfurtransferase	NA	NA	NA	NA	NA
AMG23265.1|3065965_3068044_-|tRNA	methionine--tRNA ligase	tRNA	A0A1V0SHR2	Klosneuvirus	23.6	1.5e-27
AMG23266.1|3068292_3068565_-	hypothetical protein	NA	NA	NA	NA	NA
AUV48182.1|3068663_3069752_+	iron-sulfur cluster carrier protein ApbC	NA	NA	NA	NA	NA
AUV48183.1|3069755_3071660_+	outer membrane protein assembly factor	NA	NA	NA	NA	NA
AMG23267.1|3075389_3075953_+	dCTP deaminase	NA	S5VM63	Pseudomonas_phage	75.3	2.6e-72
AMG23268.1|3075960_3076383_-	glyoxalase	NA	NA	NA	NA	NA
AMG23269.1|3076410_3076830_-	glyoxalase/bleomycin resistance/dioxygenase family protein	NA	NA	NA	NA	NA
AMG23270.2|3076858_3077305_-	N-acetyltransferase	NA	Q9AZG4	Lactococcus_phage	29.4	1.2e-08
AMG24197.2|3077431_3077929_+	hypothetical protein	NA	NA	NA	NA	NA
AUV48184.1|3078083_3080354_+	lysine decarboxylase	NA	NA	NA	NA	NA
AMG23271.2|3080402_3081635_+	NAD(P)/FAD-dependent oxidoreductase	NA	NA	NA	NA	NA
AUV48185.1|3081733_3082684_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23272.2|3082729_3083422_+	superoxide dismutase	NA	Q56AR7	Bacillus_thuringiensis_phage	73.8	2.4e-83
AMG23273.1|3083418_3084312_+	ZIP family metal transporter	NA	NA	NA	NA	NA
AMG23274.1|3084706_3085807_+	aminomethyltransferase	NA	NA	NA	NA	NA
AMG23275.1|3085888_3086263_+	glycine cleavage system protein H	NA	NA	NA	NA	NA
AUV48186.1|3086322_3089187_+	glycine dehydrogenase	NA	E3SN07	Prochlorococcus_phage	51.4	1.2e-261
AMG23276.1|3089331_3090072_-	FadR family transcriptional regulator	NA	NA	NA	NA	NA
AMG23277.1|3090141_3091353_+	CoA transferase	NA	NA	NA	NA	NA
AMG23278.1|3091381_3092350_+	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG23280.1|3094069_3094393_+	PsiF repeat family protein	NA	NA	NA	NA	NA
AMG24198.2|3094497_3095547_-	cyclase	NA	NA	NA	NA	NA
AMG23281.2|3095543_3096368_-	3-oxoadipate enol-lactonase	NA	NA	NA	NA	NA
AMG23282.1|3096368_3096665_-	YciI family protein	NA	NA	NA	NA	NA
AMG23283.1|3096690_3096966_-	muconolactone delta-isomerase	NA	NA	NA	NA	NA
AMG23284.1|3097022_3097667_-	CoA transferase subunit B	NA	NA	NA	NA	NA
AMG23285.1|3097666_3098353_-	3-oxoadipate CoA-transferase	NA	NA	NA	NA	NA
AMG24199.2|3098482_3099334_+	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AMG23286.1|3099384_3100110_-	short-chain dehydrogenase	NA	NA	NA	NA	NA
AMG23287.1|3100141_3101491_-	short-chain fatty acid transporter	NA	NA	NA	NA	NA
AMG23288.1|3101602_3102535_-	3-hydroxybutyryl-CoA dehydrogenase	NA	NA	NA	NA	NA
AUV48187.1|3105786_3106110_-	hypothetical protein	NA	NA	NA	NA	NA
AMG23290.2|3106379_3109322_-	phosphoenolpyruvate carboxylase	NA	NA	NA	NA	NA
AMG23291.1|3109393_3110113_+	7-cyano-7-deazaguanine synthase QueC	NA	A0A0A0RPC6	Escherichia_phage	43.9	8.0e-50
AMG23292.1|3110151_3110700_-	N-acetyltransferase	NA	A0A2H4J136	uncultured_Caudovirales_phage	41.7	1.2e-21
AMG23293.1|3110854_3111754_+	virginiamycin B lyase	NA	NA	NA	NA	NA
AMG23294.1|3111778_3112729_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AUV48188.1|3112715_3112895_-	hypothetical protein	NA	NA	NA	NA	NA
AMG23295.1|3112947_3113643_+	FadR family transcriptional regulator	NA	NA	NA	NA	NA
AMG23296.1|3113659_3115072_+	FAD-binding oxidoreductase	NA	NA	NA	NA	NA
AMG23297.1|3115184_3116615_+	aldehyde dehydrogenase family protein	NA	NA	NA	NA	NA
AUV48189.1|3116656_3118570_-	phosphomethylpyrimidine synthase	NA	NA	NA	NA	NA
AMG23298.1|3119543_3120545_+	HindIII family type II restriction endonuclease	NA	NA	NA	NA	NA
AMG23299.2|3120659_3121610_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23300.1|3121696_3122647_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AMG23301.1|3122643_3123594_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 12
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	3152893	3218648	4100859	transposase,protease	Bacillus_phage(12.5%)	57	NA	NA
AMG23320.2|3152893_3153844_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23322.1|3154403_3154949_+	GbsR/MarR family transcriptional regulator	NA	NA	NA	NA	NA
AMG23323.2|3155032_3156652_+	cytochrome d ubiquinol oxidase subunit I	NA	NA	NA	NA	NA
AMG23324.1|3156667_3157822_+	cytochrome d ubiquinol oxidase subunit II	NA	NA	NA	NA	NA
AMG23325.1|3157835_3157961_+	cytochrome bd-I oxidase subunit CydX	NA	NA	NA	NA	NA
AMG23326.1|3157957_3159709_+	thiol reductant ABC exporter subunit CydD	NA	W8CYL7	Bacillus_phage	23.8	3.4e-09
AMG23327.2|3161418_3161994_+	adenine phosphoribosyltransferase	NA	A0A1V0SKE5	Klosneuvirus	43.1	1.4e-28
AMG23328.1|3163136_3163415_+	DUF4148 domain-containing protein	NA	NA	NA	NA	NA
AUV48192.1|3165394_3165610_-	hypothetical protein	NA	NA	NA	NA	NA
AMG23329.1|3165685_3165847_+	DUF4224 domain-containing protein	NA	NA	NA	NA	NA
AMG23330.1|3165854_3165995_+	hypothetical protein	NA	NA	NA	NA	NA
AUV48193.1|3166513_3166963_-|protease	ClpXP protease specificity-enhancing factor	protease	NA	NA	NA	NA
AMG23331.1|3166972_3167584_-	glutathione S-transferase	NA	NA	NA	NA	NA
AMG24201.2|3167742_3168597_-	cytochrome c1	NA	NA	NA	NA	NA
AUV48194.1|3168616_3169999_-	cytochrome b	NA	NA	NA	NA	NA
AMG23332.1|3170063_3170705_-	ubiquinol-cytochrome c reductase iron-sulfur subunit	NA	NA	NA	NA	NA
AMG23333.1|3170844_3171303_+	large conductance mechanosensitive channel protein MscL	NA	NA	NA	NA	NA
AMG23334.1|3171327_3172104_-	Nif3-like dinuclear metal center hexameric protein	NA	NA	NA	NA	NA
AMG23335.2|3173289_3174240_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23336.1|3174338_3174965_-	FMN-binding negative transcriptional regulator	NA	NA	NA	NA	NA
AMG23337.1|3174987_3175914_-	glyoxylate/hydroxypyruvate reductase A	NA	NA	NA	NA	NA
AMG23338.1|3175922_3177509_-	peptide ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AMG23339.1|3177505_3178510_-	alpha/beta hydrolase	NA	A0A2L2DMU8	Acanthamoeba_polyphaga_mimivirus	31.5	7.5e-30
AUV48195.1|3178709_3179570_+	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AUV48196.1|3179601_3180603_-	2-isopropylmalate synthase	NA	NA	NA	NA	NA
AMG23340.1|3181559_3183419_+	dihydroxy-acid dehydratase	NA	NA	NA	NA	NA
AMG23341.1|3183547_3184750_-	MFS transporter	NA	NA	NA	NA	NA
AMG23342.1|3184863_3185745_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AMG23343.1|3187247_3187808_-	5'-3'-deoxyribonucleotidase	NA	A0A1E1EUN3	Acanthamoeba_castellanii_mimivirus	30.8	3.2e-14
AMG23344.2|3187867_3188818_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23345.1|3189009_3189270_-	hypothetical protein	NA	NA	NA	NA	NA
AMG23346.1|3189385_3190336_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23347.1|3191372_3191876_-	MarR family transcriptional regulator	NA	NA	NA	NA	NA
AMG23348.1|3191879_3192770_-	alpha/beta hydrolase	NA	NA	NA	NA	NA
AMG23349.1|3192992_3194156_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AMG23350.1|3194252_3195173_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AMG23351.1|3195176_3196142_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AMG23352.1|3196138_3196933_+	ABC transporter ATP-binding protein	NA	A0A2R8FG22	Brazilian_cedratvirus	23.5	2.6e-09
AMG23353.1|3196926_3197631_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	32.2	1.1e-16
AMG23354.1|3200994_3201858_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AMG23355.1|3201860_3203030_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AMG23356.1|3203070_3204720_+	2-aminobenzoate-CoA ligase	NA	A0A2H4PQU7	Staphylococcus_phage	31.2	2.6e-56
AMG23357.1|3204721_3205156_+	acyl-CoA thioesterase	NA	NA	NA	NA	NA
AMG23358.1|3205180_3205582_+	RidA family protein	NA	NA	NA	NA	NA
AMG23359.1|3205675_3207301_-	DUF342 domain-containing protein	NA	NA	NA	NA	NA
AMG23360.1|3207540_3208824_-	glutamate-1-semialdehyde 2,1-aminomutase	NA	NA	NA	NA	NA
AMG23361.1|3208840_3209494_-	thiamine phosphate synthase	NA	NA	NA	NA	NA
AUV48295.1|3210454_3210619_+	rubredoxin	NA	NA	NA	NA	NA
AMG24202.2|3210634_3211312_+	YqgE/AlgH family protein	NA	NA	NA	NA	NA
AMG23362.1|3211304_3211706_+	Holliday junction resolvase RuvX	NA	NA	NA	NA	NA
AUV48197.1|3211719_3212673_+	aspartate carbamoyltransferase catalytic subunit	NA	A7RB08	Paramecium_bursaria_Chlorella_virus	35.8	2.5e-30
AMG23363.1|3212669_3213845_+	dihydroorotase	NA	NA	NA	NA	NA
AMG23364.1|3213964_3214705_+	1-acyl-sn-glycerol-3-phosphate acyltransferase	NA	NA	NA	NA	NA
AMG23365.1|3214741_3215575_-	bis(5'-nucleosyl)-tetraphosphatase (symmetrical)	NA	NA	NA	NA	NA
AMG23366.2|3215571_3216840_-	LPS export ABC transporter permease LptG	NA	NA	NA	NA	NA
AMG23367.1|3216846_3217575_-	monofunctional biosynthetic peptidoglycan transglycosylase	NA	NA	NA	NA	NA
AMG23368.2|3217697_3218648_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 13
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	3288465	3336723	4100859	transposase	Heterosigma_akashiwo_virus(16.67%)	42	NA	NA
AMG23434.1|3288465_3289449_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AUV48202.1|3289375_3290077_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG23435.2|3290125_3290896_-	enoyl-CoA hydratase/isomerase family protein	NA	NA	NA	NA	NA
AMG23436.2|3290892_3292134_-	CoA transferase	NA	NA	NA	NA	NA
AMG23437.1|3292238_3293945_-	thiamine pyrophosphate-binding protein	NA	NA	NA	NA	NA
AUV48203.1|3293941_3294838_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AUV48204.1|3294878_3296468_-	sulfurtransferase	NA	NA	NA	NA	NA
AMG23438.1|3296517_3297510_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG23439.1|3297578_3298178_-	hypothetical protein	NA	NA	NA	NA	NA
AMG23440.2|3298638_3299616_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG23441.2|3299694_3300645_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23442.1|3300733_3301648_+	EamA/RhaT family transporter	NA	NA	NA	NA	NA
AMG23443.1|3301644_3302304_+	LysE family translocator	NA	NA	NA	NA	NA
AMG23444.1|3302393_3303317_+	alpha/beta hydrolase	NA	A0A1C9C5K3	Heterosigma_akashiwo_virus	27.2	4.8e-07
AMG23445.1|3303322_3303778_-	hypothetical protein	NA	NA	NA	NA	NA
AMG23446.1|3303774_3304878_-	ChbG/HpnK family deacetylase	NA	NA	NA	NA	NA
AUV48297.1|3304797_3305106_+	GtrA family protein	NA	NA	NA	NA	NA
AMG23447.2|3305065_3306685_-	phospholipid carrier-dependent glycosyltransferase	NA	NA	NA	NA	NA
AMG23448.1|3306681_3307740_-	glycosyltransferase	NA	I1TED8	Salmonella_phage	40.5	2.8e-59
AMG23449.1|3307869_3308364_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
AMG23450.1|3308456_3309434_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23451.1|3309629_3310835_+	sodium/glutamate symporter	NA	NA	NA	NA	NA
AMG23452.1|3310831_3312343_+	TRAP transporter substrate-binding protein	NA	NA	NA	NA	NA
AMG24205.1|3312358_3313672_-	short-chain fatty acids transporter	NA	NA	NA	NA	NA
AMG23453.1|3313862_3314042_-	hypothetical protein	NA	NA	NA	NA	NA
AMG23454.1|3314451_3315186_-	DNA polymerase III subunit epsilon	NA	A0A1X9SH08	Bradyrhizobium_phage	43.8	1.4e-41
AMG23455.2|3317630_3318581_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23456.1|3318712_3319111_-	GTP-binding protein	NA	E4ZFJ7	Streptococcus_phage	44.3	9.0e-19
AMG23457.1|3319521_3319992_-	universal stress protein	NA	NA	NA	NA	NA
AMG23458.1|3320080_3320425_-	TIGR01244 family phosphatase	NA	NA	NA	NA	NA
AMG23459.1|3320524_3321925_-	PLP-dependent aminotransferase family protein	NA	NA	NA	NA	NA
AMG23460.1|3323713_3324232_-	MgtC/SapB family protein	NA	G3MA03	Bacillus_virus	38.9	2.1e-12
AUV48205.1|3324342_3325098_+	TerC family protein	NA	A0A0R6PEZ3	Moraxella_phage	40.8	2.9e-42
AMG23461.1|3325293_3326526_+	CoA transferase	NA	NA	NA	NA	NA
AMG23462.1|3326518_3327304_+	enoyl-CoA hydratase	NA	NA	NA	NA	NA
AMG23463.1|3327370_3328342_+	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG23464.1|3328352_3329330_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AMG23465.1|3329455_3330628_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AMG23466.1|3330654_3331683_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AMG23467.1|3331748_3332942_+	acetyl-CoA C-acyltransferase	NA	NA	NA	NA	NA
AMG23468.1|3334723_3335674_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23469.2|3335772_3336723_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 14
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	3536940	3590420	4100859	transposase,tRNA,tail,terminase	uncultured_Caudovirales_phage(17.39%)	57	NA	NA
AMG23630.2|3536940_3537891_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AMG24215.1|3537965_3538907_+|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AMG23631.1|3538990_3539350_-	hypothetical protein	NA	NA	NA	NA	NA
AUV48223.1|3539731_3540769_-	hypothetical protein	NA	NA	NA	NA	NA
AUV48224.1|3541085_3542426_+	peptidase M24 family protein	NA	NA	NA	NA	NA
AUV48225.1|3542435_3542888_-	hypothetical protein	NA	NA	NA	NA	NA
AMG23632.2|3544224_3545256_+|tRNA	tRNA dihydrouridine synthase DusB	tRNA	NA	NA	NA	NA
AMG23633.1|3545296_3545536_+	Fis family transcriptional regulator	NA	NA	NA	NA	NA
AMG23634.1|3545605_3547195_+	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase PurH	NA	Q58MG4	Prochlorococcus_phage	47.2	8.7e-65
AMG23635.1|3547194_3547743_+	crossover junction endodeoxyribonuclease RuvC	NA	NA	NA	NA	NA
AMG23636.1|3547823_3548396_+	Holliday junction branch migration protein RuvA	NA	NA	NA	NA	NA
AMG23637.1|3548414_3549326_-	complex I NDUFA9 subunit family protein	NA	NA	NA	NA	NA
AMG23638.1|3549399_3550368_-	threonine/serine dehydratase	NA	NA	NA	NA	NA
AMG23639.1|3550490_3551564_+	Holliday junction branch migration DNA helicase RuvB	NA	A0A127AWE7	Bacillus_phage	25.7	2.3e-08
AMG23640.1|3551568_3553389_-	DNA helicase RecQ	NA	L7RCS0	Acanthamoeba_polyphaga_moumouvirus	35.3	3.1e-74
AMG23642.1|3554503_3554839_+	ASCH domain-containing protein	NA	NA	NA	NA	NA
AMG23643.1|3554972_3555623_+	carbonic anhydrase	NA	NA	NA	NA	NA
AUV48298.1|3555644_3557063_-	amidase	NA	NA	NA	NA	NA
AMG23644.1|3557132_3557888_-	hypothetical protein	NA	NA	NA	NA	NA
AMG23645.1|3557856_3558615_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AMG23646.1|3558625_3559507_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
AMG23647.1|3559523_3560231_+	ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	25.4	8.2e-07
AMG23648.1|3560233_3560992_+	ABC transporter ATP-binding protein	NA	W6JKT0	Anomala_cuprea_entomopoxvirus	24.4	4.4e-14
AMG23649.1|3561201_3562944_+	nitrite/sulfite reductase	NA	NA	NA	NA	NA
AUV48226.1|3562936_3563461_+	DUF934 domain-containing protein	NA	NA	NA	NA	NA
AMG23650.1|3563500_3564295_-	MetQ/NlpA family ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AMG23651.1|3564462_3565536_+	hypothetical protein	NA	NA	NA	NA	NA
AMG23652.2|3565634_3566585_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23653.2|3566836_3567049_-	hypothetical protein	NA	NA	NA	NA	NA
AMG24216.1|3567114_3567726_-	LexA family transcriptional repressor	NA	NA	NA	NA	NA
AMG23654.1|3568205_3568526_-	hypothetical protein	NA	NA	NA	NA	NA
AMG23655.1|3568518_3569217_-	hypothetical protein	NA	NA	NA	NA	NA
AMG23656.1|3569231_3569453_-	hypothetical protein	NA	NA	NA	NA	NA
AMG23657.2|3569470_3570421_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23658.2|3571096_3571546_+|terminase	terminase	terminase	C7U0W1	Enterobacteria_phage	61.5	5.2e-39
AMG23659.1|3571532_3572810_+|terminase	terminase	terminase	A0A1B1P9C9	Acinetobacter_phage	64.7	2.4e-150
AMG23660.1|3572812_3574231_+	DUF4055 domain-containing protein	NA	R9TF43	Synechococcus_phage	42.1	2.2e-99
AMG23661.2|3574259_3575315_+	hypothetical protein	NA	A0A0H5BBX3	Pseudomonas_phage	50.6	2.6e-97
AMG23662.1|3575320_3575563_+	hypothetical protein	NA	A0A0H5AUE5	Pseudomonas_phage	53.2	5.6e-16
AMG23663.1|3575685_3576288_+	hypothetical protein	NA	R9TF81	Synechococcus_phage	43.6	7.9e-27
AMG23664.1|3576716_3577667_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AUV48227.1|3577684_3578332_+	hypothetical protein	NA	R9TJ64	Synechococcus_phage	71.1	2.7e-65
AUV48228.1|3578341_3578593_+	hypothetical protein	NA	NA	NA	NA	NA
AMG23665.1|3578655_3579138_+	hypothetical protein	NA	A0A2H4JE38	uncultured_Caudovirales_phage	37.1	1.8e-13
AMG23666.1|3579139_3579340_+	hypothetical protein	NA	NA	NA	NA	NA
AMG23667.1|3579339_3579735_+	hypothetical protein	NA	A0A2D2W284	Stenotrophomonas_phage	35.0	7.8e-07
AMG23668.1|3579731_3580130_+	hypothetical protein	NA	I6PCW1	Cronobacter_phage	38.0	4.2e-16
AMG23669.1|3580126_3580549_+	hypothetical protein	NA	NA	NA	NA	NA
AMG23670.1|3580556_3581057_+	HNH endonuclease	NA	A0A1I9SEX5	Klebsiella_phage	45.1	4.4e-31
AMG23671.1|3581311_3581830_+|tail	phage tail protein	tail	A0A1S5R1H0	Pseudomonas_phage	38.3	5.4e-24
AMG23672.1|3581839_3582169_+	hypothetical protein	NA	A0A2H4J121	uncultured_Caudovirales_phage	44.0	2.9e-15
AMG23673.1|3582186_3582477_+	hypothetical protein	NA	A0A2H4JBP7	uncultured_Caudovirales_phage	45.2	3.7e-14
AMG23674.1|3582502_3585115_+|tail	phage tail tape measure protein	tail	A0A2H4J107	uncultured_Caudovirales_phage	38.6	4.9e-105
AMG23675.1|3585124_3585484_+	hypothetical protein	NA	NA	NA	NA	NA
AMG23676.1|3585551_3586085_+	DUF1833 domain-containing protein	NA	A5A3Q9	Burkholderia_phage	46.9	1.1e-40
AMG23677.1|3586081_3586471_+	hypothetical protein	NA	A0A0G3EYJ9	Achromobacter_phage	50.0	3.0e-35
AMG23678.1|3586463_3590420_+	DUF1983 domain-containing protein	NA	A0A0B5A1N2	Achromobacter_phage	40.8	3.9e-215
>prophage 15
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	3741384	3801210	4100859	transposase,holin	Vibrio_phage(25.0%)	49	NA	NA
AUV48248.1|3741384_3742335_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG24225.1|3742307_3742907_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA	NA
AMG23780.1|3742908_3743343_+	PaaI family thioesterase	NA	NA	NA	NA	NA
AMG23781.1|3743339_3743774_+	hypothetical protein	NA	NA	NA	NA	NA
AMG23782.2|3743757_3744561_-	phosphatase PAP2 family protein	NA	NA	NA	NA	NA
AMG23783.1|3744577_3745393_-	DNA repair exonuclease	NA	NA	NA	NA	NA
AMG24226.1|3745389_3746205_-	diacylglycerol kinase	NA	NA	NA	NA	NA
AMG23784.1|3746351_3747053_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AMG23785.1|3747080_3749039_-|holin	choline transporter	holin	A0A2I7QNT1	Vibrio_phage	30.3	8.0e-28
AMG23786.1|3749121_3750072_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23787.1|3750292_3750961_+	transcriptional regulator	NA	NA	NA	NA	NA
AMG23788.1|3751084_3752191_+	MexH family multidrug efflux RND transporter periplasmic adaptor subunit	NA	NA	NA	NA	NA
AMG23789.1|3752203_3755317_+	MexW/MexI family multidrug efflux RND transporter permease subunit	NA	S5VTK5	Leptospira_phage	21.5	4.5e-57
AMG23790.1|3755313_3756807_+	RND transporter	NA	NA	NA	NA	NA
AMG23791.1|3756821_3757493_+	transcriptional regulator	NA	NA	NA	NA	NA
AMG24227.2|3757536_3758031_-	azurin	NA	NA	NA	NA	NA
AMG23792.1|3758171_3758819_-	transcriptional regulator	NA	NA	NA	NA	NA
AMG24228.1|3758922_3760971_+	hydantoinase/oxoprolinase family protein	NA	NA	NA	NA	NA
AMG23793.1|3760967_3762980_+	hydantoin utilization protein B	NA	NA	NA	NA	NA
AMG24229.1|3763005_3764340_+	FAD-binding oxidoreductase	NA	NA	NA	NA	NA
AMG24230.1|3764448_3765441_+	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG23794.1|3765507_3767592_-	rhodanese-like domain-containing protein	NA	NA	NA	NA	NA
AMG23795.1|3767616_3768588_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG23796.2|3768716_3769718_-	peptidase M14	NA	NA	NA	NA	NA
AMG23797.2|3769751_3770993_-	cystathionine beta-lyase	NA	NA	NA	NA	NA
AMG23798.2|3771073_3771997_+	transcriptional regulator LrhA	NA	NA	NA	NA	NA
AMG23799.1|3772074_3772899_+	3-oxoacyl-ACP reductase	NA	NA	NA	NA	NA
AMG24231.1|3773095_3774112_-|transposase	IS110-like element IS1663 family transposase	transposase	NA	NA	NA	NA
AMG23800.1|3774308_3775292_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG23802.1|3776890_3778279_-	MmgE/PrpD family protein	NA	NA	NA	NA	NA
AUV48249.1|3778309_3779299_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG23803.1|3779409_3780642_-	methylaspartate ammonia-lyase	NA	NA	NA	NA	NA
AMG23804.1|3780923_3781724_+	IclR family transcriptional regulator	NA	NA	NA	NA	NA
AMG23805.2|3781746_3783978_-|holin	high-affinity choline transporter BetT	holin	NA	NA	NA	NA
AUV48250.1|3784765_3785212_-	preprotein translocase subunit SecG	NA	NA	NA	NA	NA
AMG23806.1|3785233_3785980_-	triose-phosphate isomerase	NA	NA	NA	NA	NA
AUV48251.1|3786123_3787101_-	NAD(P)H-quinone oxidoreductase	NA	NA	NA	NA	NA
AMG23807.1|3787734_3788346_+	PIN domain-containing protein	NA	K4HZX4	Acidithiobacillus_phage	32.5	3.3e-12
AMG23808.1|3788339_3789557_-	threonine ammonia-lyase	NA	NA	NA	NA	NA
AMG23809.1|3790643_3791363_-	lipoprotein	NA	NA	NA	NA	NA
AUV48252.1|3791483_3793643_-	polyribonucleotide nucleotidyltransferase	NA	NA	NA	NA	NA
AMG23810.1|3793733_3794003_-	30S ribosomal protein S15	NA	NA	NA	NA	NA
AUV48300.1|3794091_3794298_-	hypothetical protein	NA	NA	NA	NA	NA
AMG24232.1|3794296_3794824_+	lipoprotein	NA	NA	NA	NA	NA
AMG23811.1|3794842_3795622_-	CDP-diacylglycerol--serine O-phosphatidyltransferase	NA	NA	NA	NA	NA
AMG23812.1|3795789_3796806_-	ketol-acid reductoisomerase	NA	NA	NA	NA	NA
AMG23813.1|3796878_3797370_-	acetolactate synthase small subunit	NA	NA	NA	NA	NA
AMG23814.1|3797380_3799096_-	acetolactate synthase, large subunit, biosynthetic type	NA	A0A0P0CDR3	Ostreococcus_lucimarinus_virus	30.3	3.1e-60
AMG23816.1|3800259_3801210_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
>prophage 16
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	3821955	3887854	4100859	transposase	Bacillus_virus(15.38%)	60	NA	NA
AMG23828.2|3821955_3822906_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG24234.2|3822958_3823180_+	hypothetical protein	NA	NA	NA	NA	NA
AMG23829.1|3823339_3823552_+	hypothetical protein	NA	NA	NA	NA	NA
AMG23830.1|3823671_3824790_+	mannose-6-phosphate isomerase	NA	NA	NA	NA	NA
AMG23831.1|3824886_3825102_+	hypothetical protein	NA	NA	NA	NA	NA
AMG23832.1|3825295_3825547_+	hypothetical protein	NA	NA	NA	NA	NA
AMG23833.2|3825659_3826610_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23834.1|3826606_3826990_-	ferredoxin	NA	NA	NA	NA	NA
AMG23835.2|3827044_3828862_-	ABC transporter ATP-binding protein/permease	NA	W8CYL7	Bacillus_phage	27.9	5.7e-44
AMG23836.1|3829008_3829836_+	oxidoreductase	NA	A0A2H4PQR8	Staphylococcus_phage	47.4	1.7e-67
AMG23837.1|3829881_3830862_+	aldo/keto reductase	NA	NA	NA	NA	NA
AMG23838.1|3830858_3831071_-	hypothetical protein	NA	NA	NA	NA	NA
AMG23839.1|3831067_3832249_-	PepSY domain-containing protein	NA	NA	NA	NA	NA
AMG23840.1|3832412_3833147_+	serine/threonine protein phosphatase	NA	A0A2H4J0P0	uncultured_Caudovirales_phage	49.2	1.9e-62
AUV48255.1|3833148_3835761_-	penicillin-binding protein	NA	NA	NA	NA	NA
AMG23841.1|3835896_3837810_-	S9 family peptidase	NA	NA	NA	NA	NA
AMG23842.1|3838425_3838836_-	PaaI family thioesterase	NA	NA	NA	NA	NA
AUV48256.1|3838933_3840019_+	DNA polymerase IV	NA	NA	NA	NA	NA
AMG23844.1|3841062_3842037_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
AMG23845.1|3842161_3843073_+	LysR family transcriptional regulator	NA	Q6JIH3	Burkholderia_virus	27.6	4.4e-05
AMG24235.1|3843349_3843742_-	type II toxin-antitoxin system HicB family antitoxin	NA	A0A0R6PJ17	Moraxella_phage	45.0	4.8e-25
AMG23846.1|3843871_3844822_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23847.1|3844851_3845034_-	type II toxin-antitoxin system HicA family toxin	NA	A0A1L2JY37	Aeribacillus_phage	56.1	3.7e-12
AUV48257.1|3845072_3845330_-	hypothetical protein	NA	NA	NA	NA	NA
AUV48258.1|3845806_3846988_-	MFS transporter	NA	NA	NA	NA	NA
AMG23848.1|3847203_3847881_-	phosphoglycolate phosphatase	NA	NA	NA	NA	NA
AMG23849.2|3847877_3848651_-	bifunctional 2-polyprenyl-6-hydroxyphenol methylase/3-demethylubiquinol 3-O-methyltransferase UbiG	NA	NA	NA	NA	NA
AMG23850.1|3848728_3849310_-	OmpA family protein	NA	NA	NA	NA	NA
AMG23851.1|3849680_3852362_+	DNA gyrase subunit A	NA	G3M9Z5	Bacillus_virus	33.5	3.2e-104
AMG24236.2|3852361_3853495_+	phosphoserine aminotransferase	NA	M1Q1P2	Streptococcus_phage	44.0	6.4e-78
AMG23852.1|3853487_3854573_+	prephenate dehydratase	NA	NA	NA	NA	NA
AMG23853.1|3854659_3855559_+	prephenate dehydrogenase/arogenate dehydrogenase family protein	NA	NA	NA	NA	NA
AMG23854.1|3855555_3856884_+	3-phosphoshikimate 1-carboxyvinyltransferase	NA	NA	NA	NA	NA
AMG23855.1|3856898_3857570_+	cytidylate kinase	NA	NA	NA	NA	NA
AMG23856.2|3857742_3859473_+	30S ribosomal protein S1	NA	NA	NA	NA	NA
AMG23857.1|3859474_3859834_+	integration host factor subunit beta	NA	NA	NA	NA	NA
AMG23858.1|3860025_3860340_+	DUF1049 domain-containing protein	NA	NA	NA	NA	NA
AMG23859.1|3860382_3861603_+	lipopolysaccharide assembly protein LapB	NA	NA	NA	NA	NA
AMG23860.1|3861599_3862541_+	D-glycero-beta-D-manno-heptose-7-phosphate kinase	NA	A0A2H4N7X4	Lake_Baikal_phage	28.1	1.5e-16
AMG23861.1|3862537_3863527_+	ADP-L-glycero-D-mannoheptose-6-epimerase	NA	E3SJ87	Synechococcus_phage	34.4	2.2e-26
AUV48259.1|3863561_3864146_+	DUF655 domain-containing protein	NA	NA	NA	NA	NA
AMG23862.1|3864244_3865195_+|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23863.1|3865275_3866187_+	cysteine synthase CysM	NA	A0A1X9I5K7	Streptococcus_phage	38.8	8.0e-47
AMG23864.1|3866247_3867393_-	lytic murein transglycosylase B	NA	NA	NA	NA	NA
AMG23865.1|3867412_3868327_+	deacetylase	NA	A0A2K9KZC4	Tupanvirus	34.7	9.8e-45
AUV48260.1|3868398_3869148_+	electron transfer flavoprotein subunit beta/FixA family protein	NA	NA	NA	NA	NA
AUV48261.1|3869147_3870077_+	electron transfer flavoprotein subunit alpha	NA	NA	NA	NA	NA
AUV48262.1|3870320_3872147_+	acyl-CoA dehydrogenase	NA	NA	NA	NA	NA
AMG23866.1|3872229_3872871_+	peroxiredoxin	NA	NA	NA	NA	NA
AMG23867.1|3873060_3874095_+	sulfate ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AMG23870.1|3875931_3876996_+	sulfate/thiosulfate import ATP-binding protein CysA	NA	G3M9Y6	Bacillus_virus	30.3	3.8e-24
AMG24238.1|3877793_3878702_+	sulfate adenylyltransferase subunit CysD	NA	NA	NA	NA	NA
AMG23871.1|3880189_3881464_+	radical SAM protein	NA	NA	NA	NA	NA
AUV48263.1|3881617_3881998_+	hypothetical protein	NA	NA	NA	NA	NA
AMG23872.1|3882005_3882878_-	multidrug DMT transporter permease	NA	NA	NA	NA	NA
AMG23873.1|3883183_3883564_+	50S ribosomal protein L19	NA	NA	NA	NA	NA
AMG23874.2|3883774_3884500_+	CoA pyrophosphatase	NA	NA	NA	NA	NA
AMG23875.2|3884595_3885546_-|transposase	IS481-like element IS481 family transposase	transposase	NA	NA	NA	NA
AMG23876.1|3885650_3886700_+	NADP(H)-dependent aldo-keto reductase	NA	NA	NA	NA	NA
AMG24239.1|3886837_3887854_-|transposase	IS110 family transposase IS1663	transposase	NA	NA	NA	NA
>prophage 17
CP014153	Bordetella pertussis strain ATCC:BAA-1335D-5, complete genome	4100859	3911655	3973145	4100859	transposase,tRNA,holin	uncultured_Mediterranean_phage(42.86%)	51	NA	NA
AUV48266.1|3911655_3912606_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AUV48267.1|3912704_3913445_-	16S rRNA (uracil(1498)-N(3))-methyltransferase	NA	NA	NA	NA	NA
AUV48268.1|3913639_3915676_+	transketolase	NA	NA	NA	NA	NA
AMG23887.1|3915693_3916704_+	type I glyceraldehyde-3-phosphate dehydrogenase	NA	NA	NA	NA	NA
AMG23888.1|3916821_3918015_+	phosphoglycerate kinase	NA	NA	NA	NA	NA
AMG23889.2|3918044_3918818_-	enoyl-[acyl-carrier-protein] reductase FabI	NA	NA	NA	NA	NA
AMG23890.1|3918814_3920005_-	acetate kinase	NA	NA	NA	NA	NA
AMG23891.1|3920030_3920969_-	phosphate acetyltransferase	NA	NA	NA	NA	NA
AMG23892.2|3920965_3923314_-	DUF3141 domain-containing protein	NA	NA	NA	NA	NA
AMG23893.2|3923468_3924176_-	glutathione S-transferase	NA	NA	NA	NA	NA
AUV48269.1|3924213_3925347_-|transposase	IS481 family transposase	transposase	NA	NA	NA	NA
AMG24240.2|3925623_3926172_-	damage-inducible protein DinB	NA	NA	NA	NA	NA
AMG23894.1|3926190_3926676_-	N-acetyltransferase	NA	NA	NA	NA	NA
AMG23895.1|3927793_3928111_+	MerR family transcriptional regulator	NA	NA	NA	NA	NA
AUV48270.1|3928156_3929101_+	hypothetical protein	NA	NA	NA	NA	NA
AMG23896.1|3930780_3931431_+	molybdopterin adenylyltransferase	NA	NA	NA	NA	NA
AMG23897.1|3931484_3931820_+	hypothetical protein	NA	NA	NA	NA	NA
AMG24242.2|3931816_3932677_+	M23 family peptidase	NA	A0A292GJG6	Xanthomonas_phage	36.1	2.6e-15
AMG23898.1|3932693_3932975_-	hypothetical protein	NA	NA	NA	NA	NA
AMG23899.1|3933048_3933312_-	translation initiation factor IF-1	NA	NA	NA	NA	NA
AMG23900.1|3934803_3935541_-	RNA polymerase sigma factor FliA	NA	NA	NA	NA	NA
AMG23901.1|3935976_3936300_+	flagellar transcriptional activator FlhD	NA	NA	NA	NA	NA
AMG23902.1|3937014_3937890_+	flagellar motor stator protein MotA	NA	NA	NA	NA	NA
AUV48271.1|3937902_3938850_+	motility protein MotB	NA	NA	NA	NA	NA
AMG23903.1|3938951_3939245_+	response regulator	NA	NA	NA	NA	NA
AMG23904.1|3939271_3941329_+	chemotaxis protein CheA	NA	NA	NA	NA	NA
AMG23905.1|3941343_3941844_+	chemotaxis protein CheW	NA	NA	NA	NA	NA
AMG23906.1|3941917_3943624_+	methyl-accepting chemotaxis protein	NA	A0A2H4J162	uncultured_Caudovirales_phage	41.7	1.4e-12
AMG23907.1|3944487_3945540_+	chemotaxis response regulator protein-glutamate methylesterase	NA	NA	NA	NA	NA
AMG23908.1|3945592_3945982_+	chemotaxis protein CheY	NA	Q56AR1	Bacillus_thuringiensis_phage	33.3	5.7e-10
AMG23909.1|3945990_3946623_+	protein phosphatase CheZ	NA	NA	NA	NA	NA
AMG24243.1|3946722_3947739_-|transposase	IS110-like element IS1663 family transposase	transposase	NA	NA	NA	NA
AMG24244.1|3948569_3949577_+	aldo/keto reductase	NA	NA	NA	NA	NA
AMG23910.1|3949573_3951217_-	apolipoprotein N-acyltransferase	NA	NA	NA	NA	NA
AMG23911.2|3951213_3952116_-	CBS domain-containing protein	NA	NA	NA	NA	NA
AMG23912.1|3952241_3952715_-	endoribonuclease YbeY	NA	NA	NA	NA	NA
AMG23913.1|3952704_3953727_-	PhoH family protein	NA	A0A0S0MVD6	Pseudomonas_phage	45.4	8.7e-50
AUV48272.1|3953723_3955151_-|tRNA	tRNA (N6-isopentenyl adenosine(37)-C2)-methylthiotransferase MiaB	tRNA	NA	NA	NA	NA
AMG24245.1|3956088_3957105_-|transposase	IS110-like element IS1663 family transposase	transposase	NA	NA	NA	NA
AMG23914.1|3957437_3958373_-	protein translocase subunit SecF	NA	A0A1B1IVP7	uncultured_Mediterranean_phage	35.5	3.0e-41
AMG23915.1|3958422_3960303_-	protein translocase subunit SecD	NA	NA	NA	NA	NA
AMG23916.1|3960369_3960714_-	preprotein translocase subunit YajC	NA	A0A1B1IVR5	uncultured_Mediterranean_phage	40.4	1.0e-10
AUV48273.1|3960858_3961995_-|tRNA	tRNA guanosine(34) transglycosylase Tgt	tRNA	A0A1B1IVQ4	uncultured_Mediterranean_phage	44.4	1.9e-85
AMG23917.1|3961991_3963065_-|tRNA	S-adenosylmethionine:tRNA ribosyltransferase-isomerase	tRNA	NA	NA	NA	NA
AMG23918.1|3963222_3964659_+	D-alanyl-D-alanine carboxypeptidase/D-alanyl-D-alanine-endopeptidase	NA	NA	NA	NA	NA
AMG24246.1|3964749_3965391_+	uracil phosphoribosyltransferase	NA	NA	NA	NA	NA
AMG24247.1|3965726_3966743_+|transposase	IS110-like element IS1663 family transposase	transposase	NA	NA	NA	NA
AMG23919.1|3967075_3969823_+	pertactin autotransporter	NA	NA	NA	NA	NA
AMG24248.2|3971572_3972289_+	hypothetical protein	NA	NA	NA	NA	NA
AMG23920.1|3972373_3972691_+	DUF883 domain-containing protein	NA	NA	NA	NA	NA
AMG23921.1|3972731_3973145_+|holin	phage holin family protein	holin	NA	NA	NA	NA
