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
NZ_CP039992	Staphylococcus aureus strain Lr3 chromosome, complete genome	2747225	724313	732133	2747225		Hokovirus(16.67%)	10	NA	NA
WP_000244415.1|724313_725369_-	HAMP domain-containing histidine kinase	NA	A0A1V0SGX0	Hokovirus	29.8	3.6e-14
WP_000149344.1|725368_726055_-	response regulator transcription factor	NA	NA	NA	NA	NA
WP_001037807.1|726029_726503_-	DoxX family protein	NA	NA	NA	NA	NA
WP_001093562.1|726844_727285_-	DM13 domain-containing protein	NA	NA	NA	NA	NA
WP_000637687.1|727564_728149_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001062972.1|728247_728961_-	7-carboxy-7-deazaguanine synthase QueE	NA	A0A1U9WRB6	Streptococcus_virus	43.5	6.5e-52
WP_000941336.1|728964_729384_-	6-carboxytetrahydropterin synthase QueD	NA	S4U060	uncultured_phage	28.7	6.3e-07
WP_000446724.1|729385_730054_-	7-cyano-7-deazaguanine synthase QueC	NA	A0A2H4J8Q7	uncultured_Caudovirales_phage	57.5	9.6e-66
WP_000604514.1|730404_730998_+	aminodeoxychorismate/anthranilate synthase component II	NA	A0A0P0IKJ1	Acinetobacter_phage	42.9	4.4e-38
WP_001217802.1|730981_732133_+	anthranilate synthase component I family protein	NA	S4VNU7	Pandoravirus	36.1	1.2e-23
>prophage 2
NZ_CP039992	Staphylococcus aureus strain Lr3 chromosome, complete genome	2747225	744105	758447	2747225		uncultured_Caudovirales_phage(50.0%)	16	NA	NA
WP_000663037.1|744105_745164_+	histidinol-phosphate transaminase	NA	A0A0H3TLT9	Faustovirus	27.3	1.5e-20
WP_000197271.1|745458_746001_+	5'-3'-deoxyribonucleotidase	NA	NA	NA	NA	NA
WP_000429006.1|746625_747543_-	diacylglycerol kinase family lipid kinase	NA	A0A1V0SBJ0	Catovirus	22.0	2.1e-07
WP_031797439.1|747632_747734_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000193751.1|747811_749317_-	peptide MFS transporter	NA	A0A0P0IY73	Acinetobacter_phage	32.2	2.0e-58
WP_001837858.1|749382_749628_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000930014.1|749657_750158_-	NADPH-dependent 7-cyano-7-deazaguanine reductase QueF	NA	E7DN65	Pneumococcus_phage	71.5	5.9e-52
WP_001068497.1|750177_751044_-	DMT family transporter	NA	NA	NA	NA	NA
WP_001790091.1|751428_751695_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000692521.1|751844_752243_+	class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI	NA	A0A2H4J545	uncultured_Caudovirales_phage	72.0	1.2e-52
WP_000855505.1|752205_754311_+	class 1b ribonucleoside-diphosphate reductase subunit alpha	NA	A0A2H4J2N6	uncultured_Caudovirales_phage	91.7	0.0e+00
WP_000562498.1|754428_755400_+	class 1b ribonucleoside-diphosphate reductase subunit beta	NA	A0A2H4J4P3	uncultured_Caudovirales_phage	91.3	4.2e-171
WP_000499195.1|755580_755736_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000876318.1|755774_756746_+	ABC transporter permease	NA	A0A2H4IY97	uncultured_Caudovirales_phage	78.9	4.3e-139
WP_001245577.1|756732_757689_+	iron chelate uptake ABC transporter family permease subunit	NA	A0A2H4J116	uncultured_Caudovirales_phage	57.8	1.2e-05
WP_000616840.1|757685_758447_+	ABC transporter ATP-binding protein	NA	Q9EMR9	Amsacta_moorei_entomopoxvirus	31.6	6.5e-18
>prophage 3
NZ_CP039992	Staphylococcus aureus strain Lr3 chromosome, complete genome	2747225	809210	826711	2747225	terminase,integrase,coat	Staphylococcus_phage(73.68%)	22	811872:811887	825788:825803
WP_001050043.1|809210_811583_+	ribonuclease R	NA	Q0GXV6	Lactococcus_phage	39.0	1.7e-93
WP_001085185.1|811604_812069_+	SsrA-binding protein SmpB	NA	W5RAM5	Staphylococcus_phage	100.0	1.5e-81
811872:811887	attL	CGTGAAATCATTAAAT	NA	NA	NA	NA
WP_000149511.1|812631_813738_-|integrase	site-specific integrase	integrase	H0UST3	Bacillus_phage	44.4	1.1e-77
WP_000358990.1|813727_814531_-	helix-turn-helix transcriptional regulator	NA	A0A2H4JC02	uncultured_Caudovirales_phage	55.9	5.3e-10
WP_001045296.1|814666_814870_+	transcriptional regulator	NA	NA	NA	NA	NA
WP_000163544.1|814905_815124_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA	NA
WP_000784885.1|815135_815282_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001058492.1|815274_815484_+	hypothetical protein	NA	Q4ZE76	Staphylococcus_phage	95.7	7.7e-30
WP_001103939.1|815486_815804_+	DUF1474 family protein	NA	A0A1W6JQH0	Staphylococcus_phage	57.0	3.2e-19
WP_001002717.1|815867_816737_+	hypothetical protein	NA	A0A1W6JQL5	Staphylococcus_phage	95.8	8.7e-160
WP_000390453.1|816753_818211_+	hypothetical protein	NA	A0A1W6JQD6	Staphylococcus_phage	95.9	6.6e-277
WP_001039170.1|818511_818874_+	hypothetical protein	NA	A0A1W6JQD5	Staphylococcus_phage	98.3	3.4e-65
WP_000998185.1|818875_819160_+	hypothetical protein	NA	A0A1W6JQE4	Staphylococcus_phage	98.9	7.7e-49
WP_001019807.1|819156_819798_+	hypothetical protein	NA	Q4ZE67	Staphylococcus_phage	92.0	5.5e-111
WP_001288441.1|820507_820852_+	hypothetical protein	NA	A0A1W6JQF3	Staphylococcus_phage	100.0	1.4e-57
WP_000856046.1|820886_821465_+	hypothetical protein	NA	A0A1W6JQG0	Staphylococcus_phage	95.8	7.8e-80
WP_000777464.1|821693_822221_+|coat	spore coat protein	coat	A0A1W6JQH7	Staphylococcus_phage	98.9	1.1e-88
WP_072326620.1|822352_822565_+	pathogenicity island family protein	NA	Q4ZE86	Staphylococcus_phage	88.6	5.1e-29
WP_001293071.1|822561_823131_+|terminase	terminase small subunit	terminase	Q4ZE85	Staphylococcus_phage	98.4	4.6e-101
WP_000801979.1|823407_824376_+	Abi family protein	NA	A0A0H4U080	Erysipelothrix_phage	27.3	5.9e-24
WP_001035612.1|824572_825127_-	DUF4888 domain-containing protein	NA	A0A1W6JQE5	Staphylococcus_phage	67.2	4.2e-59
WP_001043552.1|825910_826711_+	staphylococcal enterotoxin type C2	NA	A0A097PAT7	Streptococcus_pyogenes_phage	43.4	3.1e-50
825788:825803	attR	CGTGAAATCATTAAAT	NA	NA	NA	NA
>prophage 4
NZ_CP039992	Staphylococcus aureus strain Lr3 chromosome, complete genome	2747225	1017512	1025985	2747225		Synechococcus_phage(33.33%)	9	NA	NA
WP_000861572.1|1017512_1017995_+	5-(carboxyamino)imidazole ribonucleotide mutase	NA	A0A2P0VNU7	Tetraselmis_virus	44.7	6.2e-22
WP_001010413.1|1017981_1019106_+	5-(carboxyamino)imidazole ribonucleotide synthase	NA	NA	NA	NA	NA
WP_000174053.1|1019109_1019814_+	phosphoribosylaminoimidazolesuccinocarboxamide synthase	NA	M4R1E8	Synechococcus_phage	42.1	7.3e-48
WP_000848350.1|1019813_1020077_+	phosphoribosylformylglycinamidine synthase subunit PurS	NA	NA	NA	NA	NA
WP_000666806.1|1020078_1020750_+	phosphoribosylformylglycinamidine synthase I	NA	NA	NA	NA	NA
WP_000032733.1|1020742_1022932_+	phosphoribosylformylglycinamidine synthase subunit PurL	NA	A6N228	Microbacterium_phage	39.8	2.7e-141
WP_000483713.1|1022910_1024395_+	amidophosphoribosyltransferase	NA	A0A0M3SGR2	Mollivirus	31.7	3.2e-45
WP_000030811.1|1024387_1025416_+	phosphoribosylformylglycinamidine cyclo-ligase	NA	Q58MH8	Prochlorococcus_phage	41.7	3.4e-62
WP_000238659.1|1025418_1025985_+	phosphoribosylglycinamide formyltransferase	NA	M4QRX9	Synechococcus_phage	40.7	3.2e-30
>prophage 5
NZ_CP039992	Staphylococcus aureus strain Lr3 chromosome, complete genome	2747225	1584001	1592313	2747225	tRNA	Staphylococcus_phage(16.67%)	7	NA	NA
WP_001213907.1|1584001_1584787_-	metal ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	28.8	4.7e-19
WP_000924214.1|1584912_1585803_-	deoxyribonuclease IV	NA	A0A2H4UU70	Bodo_saltans_virus	33.1	2.0e-26
WP_001062177.1|1585812_1587159_-	DEAD/DEAH box helicase	NA	A0A1V0SIR5	Klosneuvirus	34.0	2.4e-55
WP_000683933.1|1587272_1588373_-	Nif3-like dinuclear metal center hexameric protein	NA	A0A1S5V250	Saudi_moumouvirus	29.6	5.2e-08
WP_000624568.1|1588375_1589053_-|tRNA	tRNA (adenine-N(1))-methyltransferase	tRNA	NA	NA	NA	NA
WP_001283055.1|1589183_1590290_-	RNA polymerase sigma factor RpoD	NA	A0A2I7SAT0	Vibrio_phage	38.1	1.1e-37
WP_001217262.1|1590513_1592313_-	DNA primase	NA	A0A0K1LMQ9	Caulobacter_phage	36.3	1.0e-53
>prophage 6
NZ_CP039992	Staphylococcus aureus strain Lr3 chromosome, complete genome	2747225	1661997	1671040	2747225	tRNA	uncultured_Mediterranean_phage(50.0%)	7	NA	NA
WP_000364542.1|1661997_1662516_-	adenine phosphoribosyltransferase	NA	A0A1V0SKE5	Klosneuvirus	46.5	5.6e-29
WP_000595011.1|1662537_1664811_-	single-stranded-DNA-specific exonuclease RecJ	NA	A7KV88	Bacillus_phage	29.3	8.1e-64
WP_000749794.1|1665013_1667293_-	protein translocase subunit SecDF	NA	A0A1B1IVP7	uncultured_Mediterranean_phage	35.5	4.8e-32
WP_001160682.1|1667567_1667828_-	preprotein translocase subunit YajC	NA	A0A1B1IVR5	uncultured_Mediterranean_phage	35.3	8.2e-05
WP_001112045.1|1667846_1668986_-|tRNA	tRNA guanosine(34) transglycosylase Tgt	tRNA	A0A1B1IVQ4	uncultured_Mediterranean_phage	44.7	5.4e-85
WP_001019178.1|1669008_1670034_-|tRNA	tRNA preQ1(34) S-adenosylmethionine ribosyltransferase-isomerase QueA	tRNA	NA	NA	NA	NA
WP_001005768.1|1670035_1671040_-	Holliday junction branch migration DNA helicase RuvB	NA	B3GAM6	uncultured_virus	29.1	1.7e-05
>prophage 7
NZ_CP039992	Staphylococcus aureus strain Lr3 chromosome, complete genome	2747225	1797989	1810724	2747225	tRNA	Staphylococcus_phage(100.0%)	6	NA	NA
WP_001050540.1|1797989_1804550_-	LPXTG-anchored repetitive surface protein SasC	NA	A0A2H4PQU6	Staphylococcus_phage	97.1	9.2e-302
WP_000836465.1|1804875_1805187_-	rhodanese-like domain-containing protein	NA	A0A2H4PQR9	Staphylococcus_phage	100.0	1.6e-52
WP_001789004.1|1805208_1807632_-|tRNA	leucine--tRNA ligase	tRNA	A0A2H4PQS0	Staphylococcus_phage	99.7	0.0e+00
WP_001025061.1|1807919_1809101_-	MFS transporter	NA	A0A2H4PQR6	Staphylococcus_phage	100.0	5.6e-218
WP_000526544.1|1809210_1810164_+	TIGR01212 family radical SAM protein	NA	A0A2H4PQV5	Staphylococcus_phage	99.3	1.1e-78
WP_000764423.1|1810160_1810724_+	methyltransferase domain-containing protein	NA	A0A2H4PQV0	Staphylococcus_phage	100.0	2.2e-103
>prophage 8
NZ_CP039992	Staphylococcus aureus strain Lr3 chromosome, complete genome	2747225	1813883	1845546	2747225	protease	Staphylococcus_phage(90.32%)	36	NA	NA
WP_001196354.1|1813883_1814885_+	proline dehydrogenase	NA	A0A2H4PQT6	Staphylococcus_phage	99.7	9.0e-185
WP_001008551.1|1815006_1815471_-	6,7-dimethyl-8-ribityllumazine synthase	NA	A0A2H4PQS3	Staphylococcus_phage	99.4	5.8e-70
WP_001159035.1|1815483_1816665_-	3,4-dihydroxy-2-butanone-4-phosphate synthase	NA	A0A2H4PQS2	Staphylococcus_phage	100.0	1.7e-227
WP_000493888.1|1816675_1817308_-	riboflavin synthase	NA	A0A2H4PQS5	Staphylococcus_phage	100.0	3.4e-113
WP_000384179.1|1817314_1818346_-	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	NA	A0A2H4PQS8	Staphylococcus_phage	98.8	3.4e-195
WP_001261670.1|1818838_1820341_-	FAD-dependent oxidoreductase	NA	A0A2H4PQX2	Staphylococcus_phage	100.0	2.3e-30
WP_000221178.1|1820863_1821178_+	winged helix-turn-helix transcriptional regulator	NA	A0A2H4PQT4	Staphylococcus_phage	99.0	5.7e-53
WP_000989125.1|1821177_1822470_+	arsenite efflux transporter membrane subunit ArsB	NA	A0A2H4PQU3	Staphylococcus_phage	98.6	6.1e-226
WP_000163235.1|1822487_1822883_+	arsenate reductase (thioredoxin)	NA	A0A2H4PQT9	Staphylococcus_phage	100.0	6.3e-73
WP_001032833.1|1823439_1824294_-	autolysin	NA	Q4ZCC7	Staphylococcus_virus	38.6	9.8e-39
WP_000384171.1|1824569_1824794_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000671044.1|1824992_1825463_+	RNA polymerase sigma factor	NA	A0A2H4PQT5	Staphylococcus_phage	97.4	3.3e-81
WP_001153742.1|1825575_1826019_+	competence protein ComK	NA	NA	NA	NA	NA
WP_001030469.1|1826005_1826449_-	hypothetical protein	NA	A0A2H4PQT8	Staphylococcus_phage	98.6	2.4e-57
WP_001168910.1|1826744_1827380_+|protease	CPBP family intramembrane metalloprotease SdpA	protease	NA	NA	NA	NA
WP_001096494.1|1827818_1828532_-	transaldolase	NA	M1PR54	Cyanophage	35.3	5.5e-19
WP_000091445.1|1828791_1829094_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001200544.1|1829349_1829715_+	fluoride efflux transporter CrcB	NA	A0A2H4PQR0	Staphylococcus_phage	99.2	1.1e-58
WP_000623471.1|1829711_1830065_+	CrcB family protein	NA	A0A2H4PQQ7	Staphylococcus_phage	99.1	1.0e-21
WP_010956645.1|1830256_1830436_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000453311.1|1830447_1831281_-	aldo/keto reductase	NA	A0A2H4PQR8	Staphylococcus_phage	99.6	2.7e-158
WP_000366163.1|1831492_1832401_-	NERD domain-containing protein	NA	A0A2H4PQQ8	Staphylococcus_phage	100.0	3.4e-138
WP_000933828.1|1832525_1833719_-	methionine adenosyltransferase	NA	A0A2H4PQS6	Staphylococcus_phage	99.5	7.4e-218
WP_000109897.1|1834090_1835683_+	phosphoenolpyruvate carboxykinase (ATP)	NA	A0A2H4PQN1	Staphylococcus_phage	99.8	0.0e+00
WP_002868962.1|1835935_1836682_-	S9 family peptidase	NA	A0A2H4PQM6	Staphylococcus_phage	98.4	7.1e-142
WP_000672014.1|1836686_1837160_-	nucleoside triphosphatase YtkD	NA	A0A2H4PQM4	Staphylococcus_phage	98.1	4.7e-83
WP_000718107.1|1837225_1837483_+	membrane protein insertion efficiency factor YidD	NA	A0A2H4PQM5	Staphylococcus_phage	100.0	7.2e-46
WP_000778508.1|1837479_1838481_-	o-succinylbenzoate synthase	NA	A0A2H4PQM0	Staphylococcus_phage	96.7	3.4e-184
WP_000348353.1|1838485_1839964_-	o-succinylbenzoate--CoA ligase	NA	A0A2H4PQM9	Staphylococcus_phage	97.0	5.3e-282
WP_072460539.1|1840122_1840578_-	DUF4909 domain-containing protein	NA	A0A2H4PQN7	Staphylococcus_phage	99.3	1.0e-79
WP_001829077.1|1840880_1841531_+	hypothetical protein	NA	A0A2H4PQM8	Staphylococcus_phage	98.1	8.8e-56
WP_000070645.1|1841611_1842607_+	DUF4352 domain-containing protein	NA	A0A2H4PQN2	Staphylococcus_phage	97.9	2.6e-67
WP_000669025.1|1842681_1843308_+	hypothetical protein	NA	A0A2H4PQM7	Staphylococcus_phage	91.2	1.1e-71
WP_025174796.1|1843352_1844078_+	enterotoxin	NA	A0EX09	Staphylococcus_phage	33.5	1.1e-25
WP_000764922.1|1844104_1844857_+	hypothetical protein	NA	A0A097PAT7	Streptococcus_pyogenes_phage	47.2	4.4e-51
WP_000864141.1|1844988_1845546_-	ImmA/IrrE family metallo-endopeptidase	NA	A0A2H4PQN8	Staphylococcus_phage	96.8	4.1e-78
>prophage 9
NZ_CP039992	Staphylococcus aureus strain Lr3 chromosome, complete genome	2747225	1992493	1997411	2747225		Staphylococcus_phage(100.0%)	6	NA	NA
WP_000669789.1|1992493_1992673_+	hypothetical protein	NA	A0A1W6JQ29	Staphylococcus_phage	100.0	2.2e-25
WP_001792927.1|1992696_1993005_+	hypothetical protein	NA	M9NTD8	Staphylococcus_phage	77.5	9.3e-24
WP_001791826.1|1992983_1993244_+	hypothetical protein	NA	M9NS66	Staphylococcus_phage	100.0	2.3e-23
WP_000702262.1|1993296_1993647_-	complement inhibitor SCIN-A	NA	A7TWS0	Staphylococcus_phage	100.0	7.5e-54
WP_000595401.1|1995320_1996337_-	bi-component leukocidin LukGH subunit G	NA	A0A2I6PER8	Staphylococcus_phage	29.3	2.3e-26
WP_000791412.1|1996358_1997411_-	bi-component leukocidin LukGH subunit H	NA	A0A1X9IGW5	Staphylococcus_phage	34.3	2.8e-35
