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_CP014402	Staphylococcus aureus strain USA300-SUR11 chromosome, complete genome	2918010	779929	787749	2918010		Hokovirus(16.67%)	10	NA	NA
WP_000244412.1|779929_780985_-	two-component system sensor histidine kinase SaeS	NA	A0A1V0SGX0	Hokovirus	30.0	2.1e-14
WP_000149344.1|780984_781671_-	response regulator transcription factor	NA	NA	NA	NA	NA
WP_001037807.1|781645_782119_-	DoxX family protein	NA	NA	NA	NA	NA
WP_001093553.1|782460_782901_-	DM13 domain-containing protein	NA	NA	NA	NA	NA
WP_000637687.1|783180_783765_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001062972.1|783863_784577_-	7-carboxy-7-deazaguanine synthase QueE	NA	A0A1U9WRB6	Streptococcus_virus	43.5	6.5e-52
WP_000941336.1|784580_785000_-	6-carboxytetrahydropterin synthase QueD	NA	S4U060	uncultured_phage	28.7	6.3e-07
WP_000446724.1|785001_785670_-	7-cyano-7-deazaguanine synthase QueC	NA	A0A2H4J8Q7	uncultured_Caudovirales_phage	57.5	9.6e-66
WP_000604514.1|786020_786614_+	aminodeoxychorismate/anthranilate synthase component II	NA	A0A0P0IKJ1	Acinetobacter_phage	42.9	4.4e-38
WP_001217785.1|786597_787749_+	anthranilate synthase component I family protein	NA	A0A0B5J984	Pandoravirus	35.7	1.6e-23
>prophage 2
NZ_CP014402	Staphylococcus aureus strain USA300-SUR11 chromosome, complete genome	2918010	799721	814452	2918010		uncultured_Caudovirales_phage(50.0%)	14	NA	NA
WP_000663030.1|799721_800780_+	histidinol-phosphate transaminase	NA	A0A1X6WGT4	Pacmanvirus	26.7	7.9e-22
WP_000197273.1|801130_801673_+	5'-3'-deoxyribonucleotidase	NA	NA	NA	NA	NA
WP_000429014.1|802296_803214_-	diacylglycerol kinase family lipid kinase	NA	A0A1V0SBJ0	Catovirus	22.0	3.7e-07
WP_001790641.1|803304_803406_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000193752.1|803483_804989_-	peptide MFS transporter	NA	A0A0P0IY73	Acinetobacter_phage	32.2	2.0e-58
WP_000930014.1|805329_805830_-	NADPH-dependent 7-cyano-7-deazaguanine reductase QueF	NA	E7DN65	Pneumococcus_phage	71.5	5.9e-52
WP_001068497.1|805849_806716_-	DMT family transporter	NA	NA	NA	NA	NA
WP_000692521.1|807516_807915_+	class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI	NA	A0A2H4J545	uncultured_Caudovirales_phage	72.0	1.2e-52
WP_000855505.1|807877_809983_+	class 1b ribonucleoside-diphosphate reductase subunit alpha	NA	A0A2H4J2N6	uncultured_Caudovirales_phage	91.7	0.0e+00
WP_000562498.1|810100_811072_+	class 1b ribonucleoside-diphosphate reductase subunit beta	NA	A0A2H4J4P3	uncultured_Caudovirales_phage	91.3	4.2e-171
WP_000499195.1|811585_811741_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000876318.1|811779_812751_+	ABC transporter permease	NA	A0A2H4IY97	uncultured_Caudovirales_phage	78.9	4.3e-139
WP_001245577.1|812737_813694_+	iron chelate uptake ABC transporter family permease subunit	NA	A0A2H4J116	uncultured_Caudovirales_phage	57.8	1.2e-05
WP_000616842.1|813690_814452_+	ABC transporter ATP-binding protein	NA	Q9EMR9	Amsacta_moorei_entomopoxvirus	31.6	8.5e-18
>prophage 3
NZ_CP014402	Staphylococcus aureus strain USA300-SUR11 chromosome, complete genome	2918010	893104	960092	2918010	holin,terminase,head,plate,portal,integrase,capsid,tail	Staphylococcus_phage(63.86%)	92	900909:900928	956871:956890
WP_000571218.1|893104_894130_+	methionine ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	33.3	3.9e-26
WP_000520233.1|894122_894818_+	ABC transporter permease	NA	NA	NA	NA	NA
WP_000732326.1|894835_895657_+	MetQ/NlpA family ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
WP_000266158.1|895799_897020_-|integrase	site-specific integrase	integrase	Q4ZE80	Staphylococcus_phage	47.5	2.9e-100
WP_000734020.1|897107_897836_-	staphylococcal enterotoxin type K	NA	A0EX09	Staphylococcus_phage	31.8	1.2e-21
WP_001033321.1|897859_898588_-	staphylococcal enterotoxin type Q	NA	A0EX09	Staphylococcus_phage	34.1	1.6e-26
WP_000281658.1|898604_899063_-	ImmA/IrrE family metallo-endopeptidase	NA	A0A2I6PEK4	Staphylococcus_phage	82.1	4.3e-65
WP_001260004.1|899074_899407_-	helix-turn-helix transcriptional regulator	NA	A0A1J0MFC1	Staphylococcus_phage	74.5	1.6e-37
WP_000243849.1|899601_899865_+	helix-turn-helix transcriptional regulator	NA	A0A2H4J9X2	uncultured_Caudovirales_phage	94.8	4.1e-36
WP_000091732.1|899857_900130_+	winged helix-turn-helix domain-containing protein	NA	Q4ZE77	Staphylococcus_phage	88.9	4.8e-40
WP_000784892.1|900141_900315_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001231376.1|900281_900485_+	hypothetical protein	NA	A0A1W6JQF4	Staphylococcus_phage	98.5	2.0e-30
WP_000403840.1|900486_900870_+	hypothetical protein	NA	A0A1W6JQI7	Staphylococcus_phage	96.9	4.4e-63
WP_001103959.1|900870_901119_+	DUF1474 family protein	NA	Q4ZE75	Staphylococcus_phage	58.6	1.4e-22
900909:900928	attL	GATATTGAAAGAAAAGTTTG	NA	NA	NA	NA
WP_000985235.1|901210_903583_+	primase	NA	A0A2H4JCU9	uncultured_Caudovirales_phage	39.3	9.8e-137
WP_001081424.1|904253_904598_+	hypothetical protein	NA	A0A1W6JQD5	Staphylococcus_phage	65.2	9.4e-41
WP_000884055.1|904822_905029_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000657538.1|905015_906074_+|capsid	phage capsid protein	capsid	A0A0K2CZ99	Paenibacillus_phage	26.6	3.6e-14
WP_000253084.1|906257_906749_+	hypothetical protein	NA	A0A2H4JB26	uncultured_Caudovirales_phage	40.5	7.9e-25
WP_000801979.1|907177_908146_+	Abi family protein	NA	A0A0H4U080	Erysipelothrix_phage	27.3	5.9e-24
WP_001035618.1|908380_908935_-	DUF4888 domain-containing protein	NA	A0A1W6JQE5	Staphylococcus_phage	76.1	4.8e-71
WP_000752917.1|909968_910163_+	CsbD family protein	NA	NA	NA	NA	NA
WP_001183858.1|910395_911247_-	DUF368 domain-containing protein	NA	NA	NA	NA	NA
WP_000168845.1|911574_912336_+	Fe-S cluster assembly ATPase SufC	NA	A0A1V0SE00	Indivirus	23.3	4.4e-06
WP_000205572.1|912433_913741_+	Fe-S cluster assembly protein SufD	NA	NA	NA	NA	NA
WP_001006454.1|913846_915097_+	cysteine desulfurase	NA	Q2XUY6	environmental_halophage	44.5	1.4e-110
WP_001010508.1|915086_915551_+	SUF system NifU family Fe-S cluster assembly protein	NA	NA	NA	NA	NA
WP_001074405.1|915701_917099_+	Fe-S cluster assembly protein SufB	NA	NA	NA	NA	NA
WP_050961182.1|917166_918216_-|integrase	site-specific integrase	integrase	A1KWY3	Staphylococcus_virus	99.7	7.7e-203
WP_050961183.1|918277_918793_-	hypothetical protein	NA	I1W624	Staphylococcus_phage	99.4	1.5e-37
WP_000896616.1|918796_919297_-	hypothetical protein	NA	B7T094	Staphylococcus_virus	100.0	1.1e-71
WP_050961185.1|919344_920019_-	LexA family transcriptional regulator	NA	A0A1W6JPS3	Staphylococcus_phage	91.1	6.6e-115
WP_001014907.1|920210_920450_+	helix-turn-helix transcriptional regulator	NA	A0A2H4J3I3	uncultured_Caudovirales_phage	88.5	1.2e-31
WP_050961186.1|920465_920669_+	hypothetical protein	NA	A0A0E3XBM9	Staphylococcus_phage	98.5	6.1e-32
WP_050961187.1|920856_921648_+	phage antirepressor KilAC domain-containing protein	NA	Q8SDX0	Staphylococcus_phage	99.2	7.2e-145
WP_000187184.1|921648_921873_+	hypothetical protein	NA	A0A0F6N4M2	Staphylococcus_phage	100.0	3.2e-34
WP_025920885.1|921912_922362_+	hypothetical protein	NA	A1KWZ2	Staphylococcus_virus	99.3	6.7e-79
WP_000977378.1|922375_922597_+	hypothetical protein	NA	E0Y3P2	Staphylococcus_virus	100.0	1.5e-31
WP_000066013.1|922589_922757_+	DUF1270 domain-containing protein	NA	S4V7J2	Staphylococcus_phage	96.4	4.0e-21
WP_033843163.1|922757_923078_+	hypothetical protein	NA	S4V968	Staphylococcus_phage	99.1	2.4e-54
WP_000291075.1|923171_923432_+	DUF1108 family protein	NA	A0A059T5A3	Staphylococcus_phage	100.0	1.2e-43
WP_000802315.1|923439_923676_+	hypothetical protein	NA	D2JGJ9	Staphylococcus_phage	100.0	2.7e-39
WP_000002513.1|923668_924148_+	siphovirus Gp157 family protein	NA	D2JGK0	Staphylococcus_phage	100.0	5.3e-82
WP_001288247.1|924147_924921_+	AAA family ATPase	NA	A0EWP9	Staphylococcus_virus	100.0	1.6e-141
WP_050961188.1|924951_925506_+	single-stranded DNA-binding protein	NA	A7TWM8	Staphylococcus_phage	99.5	2.2e-100
WP_050961189.1|925518_926184_+	hypothetical protein	NA	Q4ZDY3	Staphylococcus_virus	98.2	7.7e-124
WP_050961190.1|926183_926966_+	AP2 domain-containing protein	NA	A0A2I6PDA5	Staphylococcus_phage	99.2	4.1e-140
WP_050961191.1|926937_927753_+	phage replisome organizer N-terminal domain-containing protein	NA	Q4ZAS2	Staphylococcus_virus	96.7	8.9e-114
WP_050961192.1|927762_928542_+	ATP-binding protein	NA	Q6R838	Staphylococcus_virus	98.8	5.1e-143
WP_000237153.1|928535_928697_+	hypothetical protein	NA	D2JGK6	Staphylococcus_phage	100.0	4.5e-22
WP_001123688.1|928709_928931_+	DUF3269 family protein	NA	Q9G021	Staphylococcus_phage	100.0	1.3e-35
WP_031898212.1|928940_929348_+	RusA family crossover junction endodeoxyribonuclease	NA	D2JGK8	Staphylococcus_phage	97.8	5.5e-72
WP_031898213.1|929347_929533_+	DUF3113 family protein	NA	A0A0H3U473	Staphylococcus_phage	96.7	6.0e-26
WP_050961193.1|929533_930151_+	hypothetical protein	NA	A0A059T7P3	Staphylococcus_phage	99.0	2.8e-83
WP_050961194.1|930151_930400_+	hypothetical protein	NA	S4V683	Staphylococcus_phage	98.8	1.6e-42
WP_000693615.1|930413_930800_+	hypothetical protein	NA	I1W655	Staphylococcus_phage	100.0	4.1e-69
WP_050961195.1|930987_931413_+	hypothetical protein	NA	A0A2I6PE09	Staphylococcus_phage	100.0	4.8e-79
WP_050961196.1|931426_931936_+	hypothetical protein	NA	A0A1X9H0D4	Staphylococcus_phage	88.8	2.5e-82
WP_001065056.1|932255_932504_+	DUF1024 family protein	NA	Q4ZCN8	Staphylococcus_virus	100.0	2.4e-38
WP_000185662.1|932496_933027_+	dUTP diphosphatase	NA	B2ZYX2	Staphylococcus_phage	100.0	1.9e-96
WP_031764620.1|933063_933270_+	DUF1381 domain-containing protein	NA	B7T0C2	Staphylococcus_virus	97.1	9.3e-20
WP_031924097.1|933266_933440_+	transcriptional regulator	NA	Q4ZBK0	Staphylococcus_phage	98.2	1.9e-21
WP_000990005.1|933440_933587_+	hypothetical protein	NA	B2ZYX7	Staphylococcus_phage	100.0	2.2e-15
WP_000058632.1|933601_934021_+	transcriptional regulator	NA	I1W651	Staphylococcus_phage	100.0	8.1e-71
WP_001003271.1|934207_934648_+|terminase	terminase small subunit	terminase	I1W650	Staphylococcus_phage	100.0	4.8e-74
WP_000169945.1|934634_935912_+|terminase	PBSX family phage terminase large subunit	terminase	S4V685	Staphylococcus_phage	100.0	1.3e-249
WP_000921887.1|935922_937458_+|portal	phage portal protein	portal	A1KX25	Staphylococcus_virus	100.0	5.8e-292
WP_001813737.1|937464_938460_+|capsid	minor capsid protein	capsid	E0Y3K7	Staphylococcus_virus	99.4	3.8e-183
WP_031898218.1|938532_938682_+	hypothetical protein	NA	Q4ZDN0	Staphylococcus_virus	64.3	3.7e-10
WP_031925652.1|938790_939411_+	DUF4355 domain-containing protein	NA	B2ZYY4	Staphylococcus_phage	92.2	1.2e-67
WP_000438500.1|939424_940399_+|capsid	phage major capsid protein	capsid	B7T0D2	Staphylococcus_virus	99.7	1.8e-182
WP_001114085.1|940420_940708_+	hypothetical protein	NA	S4V6D9	Staphylococcus_phage	100.0	4.7e-46
WP_000208959.1|940716_941049_+|head,tail	phage head-tail connector protein	head,tail	E0Y3L2	Staphylococcus_virus	100.0	7.1e-54
WP_031880723.1|941045_941348_+	hypothetical protein	NA	E0Y3L3	Staphylococcus_virus	99.0	7.4e-50
WP_001017815.1|941347_941695_+	HK97 gp10 family phage protein	NA	A0A0F6N3F5	Staphylococcus_phage	100.0	4.1e-60
WP_000188640.1|941706_942090_+	hypothetical protein	NA	E0Y3L5	Staphylococcus_virus	98.4	1.0e-67
WP_031898198.1|942108_942690_+|tail	phage major tail protein, TP901-1 family	tail	Q8SDU0	Staphylococcus_phage	97.9	3.5e-104
WP_031898197.1|942751_943117_+|tail	tail assembly protein	tail	A0A0F6N4J9	Staphylococcus_phage	99.2	6.2e-59
WP_001599101.1|943146_943491_+	hypothetical protein	NA	A0A0F6N3F7	Staphylococcus_phage	99.1	7.2e-57
WP_050961197.1|943507_946975_+	hypothetical protein	NA	A0EWM3	Staphylococcus_virus	99.3	1.7e-246
WP_031898192.1|946987_947935_+|tail	phage tail family protein	tail	Q8SDT6	Staphylococcus_phage	99.7	8.0e-183
WP_000156414.1|947943_949845_+|tail	phage tail protein	tail	Q8SDT5	Staphylococcus_phage	97.9	0.0e+00
WP_050961198.1|949859_951770_+	hypothetical protein	NA	B2ZYZ7	Staphylococcus_phage	99.2	0.0e+00
WP_050961199.1|951769_953593_+|plate	phage baseplate upper protein	plate	B1H3M3	Staphylococcus_phage	99.7	0.0e+00
WP_031844790.1|953592_953970_+	DUF2977 domain-containing protein	NA	A0A0F6N3G4	Staphylococcus_phage	99.2	7.6e-60
WP_000782200.1|953973_954147_+	XkdX family protein	NA	A0A0F6N3L7	Staphylococcus_phage	100.0	6.6e-27
WP_000466777.1|954186_954486_+	DUF2951 domain-containing protein	NA	A0A0F6N3M6	Staphylococcus_phage	100.0	9.9e-47
WP_050961200.1|954622_956521_+	glucosaminidase domain-containing protein	NA	A1KX46	Staphylococcus_virus	98.9	0.0e+00
WP_031890881.1|956533_957772_+|plate	BppU family phage baseplate upper protein	plate	A0A0F6N3G7	Staphylococcus_phage	96.6	3.3e-205
956871:956890	attR	CAAACTTTTCTTTCAATATC	NA	NA	NA	NA
WP_031890882.1|957777_958173_+	hypothetical protein	NA	A0A0E3XBL9	Staphylococcus_phage	99.2	6.1e-68
WP_000354119.1|958228_958666_+|holin	phage holin	holin	A0EWV0	Staphylococcus_virus	100.0	1.1e-73
WP_050961201.1|958646_960092_+	SH3 domain-containing protein	NA	Q4ZB16	Staphylococcus_virus	98.3	7.2e-292
>prophage 4
NZ_CP014402	Staphylococcus aureus strain USA300-SUR11 chromosome, complete genome	2918010	1116836	1125309	2918010		Synechococcus_phage(33.33%)	9	NA	NA
WP_000861572.1|1116836_1117319_+	5-(carboxyamino)imidazole ribonucleotide mutase	NA	A0A2P0VNU7	Tetraselmis_virus	44.7	6.2e-22
WP_001010412.1|1117305_1118430_+	5-(carboxyamino)imidazole ribonucleotide synthase	NA	NA	NA	NA	NA
WP_000174053.1|1118433_1119138_+	phosphoribosylaminoimidazolesuccinocarboxamide synthase	NA	M4R1E8	Synechococcus_phage	42.1	7.3e-48
WP_000848350.1|1119137_1119401_+	phosphoribosylformylglycinamidine synthase subunit PurS	NA	NA	NA	NA	NA
WP_000666799.1|1119402_1120074_+	phosphoribosylformylglycinamidine synthase I	NA	NA	NA	NA	NA
WP_000032727.1|1120066_1122256_+	phosphoribosylformylglycinamidine synthase subunit PurL	NA	A6N228	Microbacterium_phage	39.7	1.0e-140
WP_000483713.1|1122234_1123719_+	amidophosphoribosyltransferase	NA	A0A0M3SGR2	Mollivirus	31.7	3.2e-45
WP_000030812.1|1123711_1124740_+	phosphoribosylformylglycinamidine cyclo-ligase	NA	Q58MH8	Prochlorococcus_phage	41.4	1.3e-61
WP_000238664.1|1124742_1125309_+	phosphoribosylglycinamide formyltransferase	NA	M4QRX9	Synechococcus_phage	40.1	6.1e-29
>prophage 5
NZ_CP014402	Staphylococcus aureus strain USA300-SUR11 chromosome, complete genome	2918010	1567076	1652601	2918010	holin,terminase,head,tRNA,plate,protease,portal,integrase,capsid,tail	Staphylococcus_phage(84.0%)	105	1603439:1603459	1652606:1652626
WP_000858789.1|1567076_1568369_-|tRNA	asparagine--tRNA ligase	tRNA	A0A2P1EMB4	Moumouvirus	30.0	1.9e-54
WP_000525078.1|1568690_1571384_-	ATP-dependent helicase DinG	NA	A0A1X9I5C8	Streptococcus_phage	34.4	8.2e-47
WP_000049919.1|1571407_1572379_-	biotin--[acetyl-CoA-carboxylase] ligase	NA	NA	NA	NA	NA
WP_000361544.1|1572365_1573568_-|tRNA	CCA tRNA nucleotidyltransferase	tRNA	H7BUW3	unidentified_phage	42.5	3.2e-35
WP_000690027.1|1573572_1574715_-	N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA	NA	NA	NA	NA	NA
WP_000839926.1|1574955_1575273_-	nucleotide pyrophosphohydrolase	NA	NA	NA	NA	NA
WP_001827022.1|1575609_1576290_-	zinc metallopeptidase	NA	NA	NA	NA	NA
WP_000152734.1|1576361_1576949_-	DUF1405 domain-containing protein	NA	NA	NA	NA	NA
WP_000004947.1|1576938_1577514_-	YpiB family protein	NA	G3MAV7	Bacillus_virus	27.2	2.7e-08
WP_000389524.1|1577527_1578772_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000245895.1|1578778_1580077_-	3-phosphoshikimate 1-carboxyvinyltransferase	NA	NA	NA	NA	NA
WP_000776323.1|1580086_1581151_-	3-dehydroquinate synthase	NA	NA	NA	NA	NA
WP_001269929.1|1581176_1582343_-	chorismate synthase	NA	A0A291AU41	Pandoravirus	32.1	7.6e-34
WP_000789522.1|1582728_1582929_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000442480.1|1583137_1583587_-	nucleoside-diphosphate kinase	NA	D2E8E1	Anguillid_herpesvirus	43.8	2.4e-28
WP_001096471.1|1583678_1584638_-	polyprenyl synthetase family protein	NA	A0A1V0SE37	Indivirus	24.4	1.3e-10
WP_000774684.1|1584639_1585365_-	demethylmenaquinone methyltransferase	NA	NA	NA	NA	NA
WP_000450553.1|1585367_1585940_-	heptaprenyl diphosphate synthase component 1	NA	NA	NA	NA	NA
WP_001043863.1|1586370_1586643_-	HU family DNA-binding protein	NA	A7KV42	Bacillus_phage	73.3	4.2e-28
WP_000161738.1|1586813_1587812_-	NAD(P)H-dependent glycerol-3-phosphate dehydrogenase	NA	NA	NA	NA	NA
WP_000165536.1|1587828_1589139_-	ribosome biogenesis GTPase Der	NA	NA	NA	NA	NA
WP_000133954.1|1589360_1590536_-	30S ribosomal protein S1	NA	NA	NA	NA	NA
WP_001789944.1|1590792_1590984_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001789945.1|1591100_1591217_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000644391.1|1591247_1591907_-	(d)CMP kinase	NA	NA	NA	NA	NA
WP_000681756.1|1591983_1592952_+	asparaginase	NA	NA	NA	NA	NA
WP_001174260.1|1593066_1594053_-	YpdA family putative bacillithiol disulfide reductase	NA	NA	NA	NA	NA
WP_001789943.1|1594213_1594330_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000069282.1|1594454_1595915_-	elastin-binding protein EbpS	NA	NA	NA	NA	NA
WP_000902119.1|1596067_1597447_-	ATP-dependent DNA helicase RecQ	NA	L7RCS0	Acanthamoeba_polyphaga_moumouvirus	33.6	2.9e-56
WP_001163801.1|1597436_1598390_-	helix-turn-helix domain-containing protein	NA	NA	NA	NA	NA
WP_001151997.1|1598497_1598746_+	ferredoxin	NA	A0A127AYY7	Bacillus_phage	48.0	8.3e-15
WP_001186912.1|1598851_1599397_-	ECF transporter S component	NA	NA	NA	NA	NA
WP_001789947.1|1599675_1599795_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000913219.1|1599993_1600908_-	DUF1672 domain-containing protein	NA	NA	NA	NA	NA
WP_001033757.1|1600922_1601129_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000472936.1|1601121_1602060_-	DUF1672 domain-containing protein	NA	NA	NA	NA	NA
WP_000476873.1|1602116_1603034_-	DUF1672 domain-containing protein	NA	NA	NA	NA	NA
WP_000470336.1|1603124_1603310_-	hypothetical protein	NA	A0ZS61	Staphylococcus_virus	100.0	1.7e-25
1603439:1603459	attL	AATCCGCCCTTTTTTTGCCCT	NA	NA	NA	NA
WP_024937002.1|1603558_1604542_-	Panton-Valentine bi-component leukocidin subunit F	NA	A0A2I6PEU3	Staphylococcus_phage	100.0	4.0e-185
WP_000239545.1|1604537_1605476_-	Panton-Valentine bi-component leukocidin subunit S	NA	A0A2I6PER8	Staphylococcus_phage	100.0	3.7e-180
WP_000909220.1|1605865_1607320_-	N-acetylmuramoyl-L-alanine amidase	NA	A0A2I6PET7	Staphylococcus_phage	100.0	5.7e-289
WP_000339146.1|1607330_1607633_-|holin	phage holin	holin	A0A2I6PET6	Staphylococcus_phage	100.0	7.0e-48
WP_000466784.1|1607768_1608068_-	DUF2951 domain-containing protein	NA	A0A2I6PER2	Staphylococcus_phage	100.0	2.0e-31
WP_000868795.1|1608387_1608885_+	trimethoprim-resistant dihydrofolate reductase DfrG	NA	G3MBI7	Bacillus_virus	49.1	4.0e-40
WP_000163792.1|1608956_1610909_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001159903.1|1610915_1611152_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000916020.1|1611398_1611563_-	XkdX family protein	NA	A0A2I6PES4	Staphylococcus_phage	100.0	4.9e-24
WP_001166599.1|1611555_1611945_-	DUF2977 domain-containing protein	NA	A0A2I6PER1	Staphylococcus_phage	100.0	2.2e-62
WP_000067127.1|1611944_1613411_-|plate	phage baseplate upper protein	plate	A0A2I6PES7	Staphylococcus_phage	100.0	1.5e-273
WP_000429558.1|1613410_1615321_-	minor structural protein	NA	A0A2I6PEQ9	Staphylococcus_phage	100.0	0.0e+00
WP_000179858.1|1615336_1615627_-	hypothetical protein	NA	U5U457	Staphylococcus_phage	100.0	2.1e-49
WP_000384474.1|1615626_1617210_-|tail	phage tail protein	tail	A0A2I6PEQ5	Staphylococcus_phage	100.0	9.3e-309
WP_001190533.1|1617218_1618043_-|tail	phage tail family protein	tail	A0A2I6PER3	Staphylococcus_phage	100.0	4.1e-159
WP_001003408.1|1618042_1624243_-|tail	phage tail tape measure protein	tail	A0A1X9IGU9	Staphylococcus_phage	99.7	0.0e+00
WP_000438833.1|1624256_1624415_-	hypothetical protein	NA	A0A2I6PES8	Staphylococcus_phage	100.0	1.2e-19
WP_000589167.1|1624456_1624807_-	hypothetical protein	NA	A0A2I6PEQ2	Staphylococcus_phage	100.0	1.1e-55
WP_000169127.1|1624864_1625320_-	Ig domain-containing protein	NA	A0A2I6PER6	Staphylococcus_phage	100.0	5.7e-78
WP_000807536.1|1625411_1626053_-|tail	tail protein	tail	A0A2I6PEP6	Staphylococcus_phage	100.0	5.9e-121
WP_001023806.1|1626087_1626483_-	DUF3168 domain-containing protein	NA	A0A2I6PEQ4	Staphylococcus_phage	100.0	8.8e-67
WP_000110023.1|1626483_1626885_-	hypothetical protein	NA	A0A2I6PF54	Staphylococcus_phage	100.0	8.1e-68
WP_000395498.1|1626881_1627214_-	hypothetical protein	NA	A0A2I6PES3	Staphylococcus_phage	100.0	4.1e-57
WP_000050973.1|1627225_1627504_-|head,tail	phage gp6-like head-tail connector protein	head,tail	A0A2I6PEQ1	Staphylococcus_phage	100.0	2.1e-46
WP_001142734.1|1627572_1628736_-|capsid	phage major capsid protein	capsid	A0A2I6PEQ3	Staphylococcus_phage	100.0	1.2e-217
WP_000061866.1|1628747_1629521_-|protease	Clp protease ClpP	protease	A0A2I6PEQ7	Staphylococcus_phage	100.0	2.4e-137
WP_001100664.1|1629504_1630743_-|portal	phage portal protein	portal	A0A2I6PER5	Staphylococcus_phage	100.0	6.9e-235
WP_000153540.1|1630747_1632439_-|terminase	terminase large subunit	terminase	A0A1X9IGU0	Staphylococcus_phage	100.0	0.0e+00
WP_000778933.1|1632428_1632734_-|terminase	P27 family phage terminase small subunit	terminase	A0A2I6PEQ6	Staphylococcus_phage	100.0	2.9e-49
WP_000160686.1|1632860_1633175_-	HNH endonuclease	NA	A0A2I6PEN4	Staphylococcus_phage	100.0	5.0e-57
WP_000528512.1|1633331_1633769_-	transcriptional regulator	NA	A0A2I6PEN3	Staphylococcus_phage	100.0	7.9e-77
WP_001801648.1|1633781_1635149_-	DEAD/DEAH box helicase	NA	A0A2I6PE95	Staphylococcus_phage	99.8	3.0e-263
WP_001548892.1|1635129_1635420_-	VRR-NUC domain-containing protein	NA	A0A2I6PE31	Staphylococcus_phage	100.0	6.5e-51
WP_000884870.1|1635749_1638197_-	virulence-associated E family protein	NA	A0A2I6PEP4	Staphylococcus_phage	100.0	0.0e+00
WP_000265252.1|1638484_1638685_-	DUF1514 family protein	NA	A0A2I6PEP5	Staphylococcus_phage	100.0	4.9e-26
WP_000595263.1|1638752_1638905_-	transcriptional activator RinB	NA	A0A2I6PEM5	Staphylococcus_phage	100.0	2.0e-19
WP_000592202.1|1638901_1639288_-	hypothetical protein	NA	A0A1X9IGZ2	Staphylococcus_phage	100.0	3.0e-64
WP_000608275.1|1639280_1639517_-	hypothetical protein	NA	A0A2I6PEM4	Staphylococcus_phage	100.0	2.8e-36
WP_000141180.1|1639509_1639713_-	hypothetical protein	NA	A0A2I6PEQ8	Staphylococcus_phage	100.0	3.4e-30
WP_000195794.1|1639709_1639916_-	DUF1381 domain-containing protein	NA	A0A2I6PEM9	Staphylococcus_phage	100.0	1.6e-19
WP_000185671.1|1639952_1640489_-	dUTP diphosphatase	NA	A0A2I6PEN6	Staphylococcus_phage	100.0	1.6e-95
WP_001065039.1|1640481_1640730_-	DUF1024 family protein	NA	A0A2I6PEP2	Staphylococcus_phage	100.0	1.4e-38
WP_000132194.1|1640744_1640987_-	hypothetical protein	NA	A0A2I6PEV3	Staphylococcus_phage	100.0	1.5e-40
WP_000235324.1|1641001_1641202_-	hypothetical protein	NA	A0A2I6PEM3	Staphylococcus_phage	100.0	2.5e-30
WP_000022728.1|1641204_1641462_-	DUF3310 domain-containing protein	NA	A0A2I6PEN5	Staphylococcus_phage	100.0	2.6e-43
WP_000113974.1|1641461_1641863_-	PVL family protein	NA	A0A2I6PEL5	Staphylococcus_phage	100.0	1.2e-68
WP_001164629.1|1641862_1642048_-	DUF3113 family protein	NA	A0A2I6PEM8	Staphylococcus_phage	100.0	7.0e-27
WP_001801657.1|1642060_1644013_-	DNA polymerase	NA	A0A2I6PEL4	Staphylococcus_phage	100.0	0.0e+00
WP_000645048.1|1644080_1644638_-	DUF2815 family protein	NA	A0A2I6PEP8	Staphylococcus_phage	100.0	1.8e-97
WP_000762552.1|1644663_1645830_-	DUF2800 domain-containing protein	NA	A0A2I6PEL9	Staphylococcus_phage	100.0	1.4e-221
WP_000985979.1|1645826_1646189_-	hypothetical protein	NA	A0A2I6PEM7	Staphylococcus_phage	100.0	3.7e-56
WP_000291481.1|1646202_1646463_-	DUF1108 family protein	NA	A0A2I6PEM2	Staphylococcus_phage	100.0	3.4e-43
WP_000163431.1|1646467_1646770_-	DUF2482 family protein	NA	A0A1X9IGX2	Staphylococcus_phage	100.0	2.4e-48
WP_000829612.1|1646762_1647080_-	hypothetical protein	NA	A0A2I6PEL3	Staphylococcus_phage	100.0	1.1e-35
WP_001124198.1|1647345_1647609_-	helix-turn-helix domain-containing protein	NA	A0A2I6PEL8	Staphylococcus_phage	100.0	2.5e-46
WP_001036299.1|1647633_1647849_-	hypothetical protein	NA	A0A2I6PEK7	Staphylococcus_phage	100.0	1.0e-32
WP_001548903.1|1647895_1648135_+	hypothetical protein	NA	A0A2I6PE22	Staphylococcus_phage	100.0	6.7e-38
WP_001001356.1|1648131_1648308_-	hypothetical protein	NA	A0A2I6PEL1	Staphylococcus_phage	100.0	8.8e-27
WP_001115060.1|1648391_1648583_-	helix-turn-helix transcriptional regulator	NA	A0A2I6PEL6	Staphylococcus_phage	100.0	2.3e-28
WP_000429766.1|1648743_1649073_+	helix-turn-helix transcriptional regulator	NA	A0A2I6PEN2	Staphylococcus_phage	100.0	3.2e-54
WP_000525001.1|1649085_1649547_+	hypothetical protein	NA	A0A2I6PEK4	Staphylococcus_phage	98.7	2.9e-85
WP_000755722.1|1649564_1649999_+	hypothetical protein	NA	A0A2I6PEM0	Staphylococcus_phage	96.5	3.6e-21
WP_000449655.1|1650027_1650423_+	hypothetical protein	NA	A0A2I6PEJ7	Staphylococcus_phage	100.0	3.8e-70
WP_001795334.1|1650512_1650659_+	hypothetical protein	NA	A0A2I6PEK8	Staphylococcus_phage	100.0	1.2e-16
WP_000191466.1|1650655_1651270_-	hypothetical protein	NA	A0A2I6PEZ0	Staphylococcus_phage	100.0	6.7e-106
WP_000264751.1|1651395_1652601_+|integrase	site-specific integrase	integrase	A0A2I6PEN0	Staphylococcus_phage	100.0	7.7e-223
1652606:1652626	attR	AATCCGCCCTTTTTTTGCCCT	NA	NA	NA	NA
>prophage 6
NZ_CP014402	Staphylococcus aureus strain USA300-SUR11 chromosome, complete genome	2918010	1713419	1721731	2918010	tRNA	Staphylococcus_phage(16.67%)	7	NA	NA
WP_001213908.1|1713419_1714205_-	metal ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	28.3	8.0e-19
WP_000924214.1|1714330_1715221_-	deoxyribonuclease IV	NA	A0A2H4UU70	Bodo_saltans_virus	33.1	2.0e-26
WP_001062180.1|1715230_1716577_-	DEAD/DEAH box helicase	NA	A0A1V0SIR5	Klosneuvirus	33.7	5.3e-55
WP_000683931.1|1716690_1717791_-	Nif3-like dinuclear metal center hexameric protein	NA	A0A1S5V250	Saudi_moumouvirus	29.6	5.2e-08
WP_000624584.1|1717793_1718471_-|tRNA	tRNA (adenine-N(1))-methyltransferase	tRNA	NA	NA	NA	NA
WP_001283055.1|1718601_1719708_-	RNA polymerase sigma factor RpoD	NA	A0A2I7SAT0	Vibrio_phage	38.1	1.1e-37
WP_001217261.1|1719931_1721731_-	DNA primase	NA	A0A0K1LMQ9	Caulobacter_phage	36.0	4.6e-54
>prophage 7
NZ_CP014402	Staphylococcus aureus strain USA300-SUR11 chromosome, complete genome	2918010	1790868	1799911	2918010	tRNA	uncultured_Mediterranean_phage(50.0%)	7	NA	NA
WP_000364542.1|1790868_1791387_-	adenine phosphoribosyltransferase	NA	A0A1V0SKE5	Klosneuvirus	46.5	5.6e-29
WP_000594993.1|1791408_1793682_-	single-stranded-DNA-specific exonuclease RecJ	NA	A7KV88	Bacillus_phage	28.8	1.2e-62
WP_000749795.1|1793884_1796164_-	protein translocase subunit SecDF	NA	A0A1B1IVP7	uncultured_Mediterranean_phage	35.8	1.8e-31
WP_001160682.1|1796438_1796699_-	preprotein translocase subunit YajC	NA	A0A1B1IVR5	uncultured_Mediterranean_phage	35.3	8.2e-05
WP_001112045.1|1796717_1797857_-|tRNA	tRNA guanosine(34) transglycosylase Tgt	tRNA	A0A1B1IVQ4	uncultured_Mediterranean_phage	44.7	5.4e-85
WP_001019172.1|1797879_1798905_-|tRNA	tRNA preQ1(34) S-adenosylmethionine ribosyltransferase-isomerase QueA	tRNA	NA	NA	NA	NA
WP_001005767.1|1798906_1799911_-	Holliday junction branch migration DNA helicase RuvB	NA	B3GAM6	uncultured_virus	29.1	1.7e-05
>prophage 8
NZ_CP014402	Staphylococcus aureus strain USA300-SUR11 chromosome, complete genome	2918010	1925371	1995463	2918010	transposase,tRNA,protease	Staphylococcus_phage(94.0%)	64	NA	NA
WP_077442718.1|1925371_1931932_-	LPXTG-anchored repetitive surface protein SasC	NA	A0A2H4PQU6	Staphylococcus_phage	96.4	7.5e-304
WP_000836465.1|1932257_1932569_-	rhodanese-like domain-containing protein	NA	A0A2H4PQR9	Staphylococcus_phage	100.0	1.6e-52
WP_001549041.1|1932590_1935008_-|tRNA	leucine--tRNA ligase	tRNA	A0A2H4PQS0	Staphylococcus_phage	99.2	0.0e+00
WP_001025061.1|1935295_1936477_-	MFS transporter	NA	A0A2H4PQR6	Staphylococcus_phage	100.0	5.6e-218
WP_000526539.1|1936586_1937540_+	TIGR01212 family radical SAM protein	NA	A0A2H4PQV5	Staphylococcus_phage	100.0	2.2e-79
WP_000764419.1|1937536_1938100_+	class I SAM-dependent methyltransferase	NA	A0A2H4PQV0	Staphylococcus_phage	99.5	8.3e-103
WP_000757543.1|1938219_1938621_-	MarR family transcriptional regulator	NA	NA	NA	NA	NA
WP_000266096.1|1940199_1941027_-	alpha/beta hydrolase	NA	NA	NA	NA	NA
WP_001790712.1|1941029_1941149_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001196354.1|1941260_1942262_+	proline dehydrogenase	NA	A0A2H4PQT6	Staphylococcus_phage	99.7	9.0e-185
WP_001008551.1|1942383_1942848_-	6,7-dimethyl-8-ribityllumazine synthase	NA	A0A2H4PQS3	Staphylococcus_phage	99.4	5.8e-70
WP_001159022.1|1942860_1944042_-	3,4-dihydroxy-2-butanone-4-phosphate synthase	NA	A0A2H4PQS2	Staphylococcus_phage	99.7	6.6e-227
WP_000493892.1|1944052_1944685_-	riboflavin synthase	NA	A0A2H4PQS5	Staphylococcus_phage	99.5	1.7e-112
WP_000077344.1|1944691_1945735_-	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	NA	A0A2H4PQS8	Staphylococcus_phage	99.4	6.3e-197
WP_001261677.1|1946215_1947718_-	FAD/NAD(P)-binding protein	NA	A0A2H4PQX2	Staphylococcus_phage	100.0	2.3e-30
WP_000221179.1|1948240_1948555_+	winged helix-turn-helix transcriptional regulator	NA	A0A2H4PQT4	Staphylococcus_phage	100.0	2.0e-53
WP_000989121.1|1948554_1949847_+	arsenite efflux transporter membrane subunit ArsB	NA	A0A2H4PQU3	Staphylococcus_phage	99.5	5.0e-228
WP_000163235.1|1949864_1950260_+	arsenate reductase (thioredoxin)	NA	A0A2H4PQT9	Staphylococcus_phage	100.0	6.3e-73
WP_001032833.1|1950554_1951409_-	glucosaminidase domain-containing protein	NA	Q4ZCC7	Staphylococcus_virus	38.6	9.8e-39
WP_000384171.1|1951684_1951909_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000671052.1|1952107_1952578_+	RNA polymerase sigma factor	NA	A0A2H4PQT5	Staphylococcus_phage	99.4	1.0e-82
WP_001153742.1|1952690_1953134_+	competence protein ComK	NA	NA	NA	NA	NA
WP_001030465.1|1953120_1953564_-	hypothetical protein	NA	A0A2H4PQT8	Staphylococcus_phage	85.0	3.0e-55
WP_001168904.1|1953859_1954495_+|protease	CPBP family intramembrane metalloprotease SdpA	protease	NA	NA	NA	NA
WP_001096459.1|1954934_1955648_-	transaldolase	NA	M1PR54	Cyanophage	35.3	5.5e-19
WP_000091445.1|1955907_1956210_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001200541.1|1956465_1956831_+	fluoride efflux transporter CrcB	NA	A0A2H4PQR0	Staphylococcus_phage	99.2	1.4e-58
WP_000623471.1|1956827_1957181_+	CrcB family protein	NA	A0A2H4PQQ7	Staphylococcus_phage	99.1	1.0e-21
WP_000453320.1|1959263_1960097_-	aldo/keto reductase	NA	A0A2H4PQR8	Staphylococcus_phage	98.6	9.6e-156
WP_000366154.1|1960308_1961217_-	NERD domain-containing protein	NA	A0A2H4PQQ8	Staphylococcus_phage	98.7	3.2e-136
WP_000933822.1|1961341_1962535_-	methionine adenosyltransferase	NA	A0A2H4PQS6	Staphylococcus_phage	99.7	1.9e-218
WP_000109906.1|1962905_1964498_+	phosphoenolpyruvate carboxykinase (ATP)	NA	A0A2H4PQN1	Staphylococcus_phage	100.0	0.0e+00
WP_000639100.1|1964633_1965035_-|transposase	IS200/IS605 family transposase	transposase	A0A1P8BMC0	Lactococcus_phage	36.3	5.7e-13
WP_002868962.1|1965493_1966240_-	S9 family peptidase	NA	A0A2H4PQM6	Staphylococcus_phage	98.4	7.1e-142
WP_000672014.1|1966244_1966718_-	nucleoside triphosphatase YtkD	NA	A0A2H4PQM4	Staphylococcus_phage	98.1	4.7e-83
WP_000718107.1|1966783_1967041_+	membrane protein insertion efficiency factor YidD	NA	A0A2H4PQM5	Staphylococcus_phage	100.0	7.2e-46
WP_000778523.1|1967037_1968039_-	o-succinylbenzoate synthase	NA	A0A2H4PQM0	Staphylococcus_phage	97.6	4.8e-186
WP_000348360.1|1968043_1969522_-	o-succinylbenzoate--CoA ligase	NA	A0A2H4PQM9	Staphylococcus_phage	97.0	2.0e-281
WP_011443643.1|1969680_1970136_-	DUF4909 domain-containing protein	NA	A0A2H4PQN7	Staphylococcus_phage	98.6	3.0e-79
WP_001795535.1|1970438_1971089_+	excalibur calcium-binding domain-containing protein	NA	A0A2H4PQM8	Staphylococcus_phage	88.4	2.7e-44
WP_000070653.1|1971169_1972165_+	DUF4352 domain-containing protein	NA	A0A2H4PQN2	Staphylococcus_phage	96.4	7.1e-73
WP_000627551.1|1972907_1973252_+	DUF3969 family protein	NA	A0A2H4PQN6	Staphylococcus_phage	92.0	6.3e-53
WP_000414205.1|1973349_1973901_+	hypothetical protein	NA	A0A2H4PQN4	Staphylococcus_phage	94.1	1.0e-20
WP_000494956.1|1974118_1974760_-	ImmA/IrrE family metallo-endopeptidase	NA	A0A2H4PQN8	Staphylococcus_phage	93.2	2.6e-76
WP_000809857.1|1974873_1975059_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000375476.1|1975060_1975237_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000070811.1|1975247_1975631_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001549059.1|1976234_1976378_-|transposase	transposase	transposase	A0A2H4PQU1	Staphylococcus_phage	100.0	6.4e-20
WP_001801861.1|1976580_1976676_+	type I toxin-antitoxin system Fst family toxin PepA1	NA	NA	NA	NA	NA
WP_001791893.1|1976798_1976900_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001037045.1|1977247_1977625_-	DUF1433 domain-containing protein	NA	NA	NA	NA	NA
WP_000831218.1|1978145_1982258_-	ATP-binding protein	NA	A0A2H4PQT3	Staphylococcus_phage	100.0	0.0e+00
WP_000072576.1|1983107_1984307_-	restriction endonuclease subunit S	NA	A0A2H4PQP5	Staphylococcus_phage	99.7	5.5e-229
WP_000028659.1|1984299_1985856_-	type I restriction-modification system subunit M	NA	A0A2H4PQP4	Staphylococcus_phage	99.4	2.3e-288
WP_001791797.1|1986019_1986154_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001038688.1|1986218_1986938_-|protease	serine protease SplF	protease	A0A2H4PQP1	Staphylococcus_phage	100.0	1.1e-131
WP_001038867.1|1987058_1987778_-|protease	serine protease SplC	protease	A0A2H4PQP7	Staphylococcus_phage	99.2	1.2e-130
WP_001039447.1|1987835_1988558_-|protease	serine protease SplB	protease	A0A2H4PQN0	Staphylococcus_phage	99.6	2.4e-131
WP_001039435.1|1988682_1989390_-|protease	serine protease SplA	protease	A0A2H4PQN3	Staphylococcus_phage	100.0	2.6e-130
WP_001092763.1|1990353_1990920_+	DUF4888 domain-containing protein	NA	A0A2H4PQH6	Staphylococcus_phage	100.0	3.3e-99
WP_000586140.1|1991393_1992092_-	hypothetical protein	NA	A0A2H4PQH0	Staphylococcus_phage	94.4	3.8e-113
WP_000581552.1|1992088_1992850_-	lantibiotic immunity ABC transporter MutE/EpiE family permease subunit	NA	A0A2H4PQH2	Staphylococcus_phage	100.0	4.4e-131
WP_001096791.1|1992846_1993539_-	lantibiotic protection ABC transporter ATP-binding subunit	NA	A0A2H4PQG7	Staphylococcus_phage	100.0	6.2e-124
WP_000504439.1|1994944_1995463_-	flavoprotein	NA	A0A2H4PQG9	Staphylococcus_phage	100.0	2.0e-95
>prophage 9
NZ_CP014402	Staphylococcus aureus strain USA300-SUR11 chromosome, complete genome	2918010	2088037	2184472	2918010	holin,terminase,head,tRNA,protease,portal,integrase,capsid,tail	Staphylococcus_phage(91.03%)	117	2149463:2149480	2174394:2174411
WP_000027928.1|2088037_2089495_-|tRNA	Asp-tRNA(Asn)/Glu-tRNA(Gln) amidotransferase subunit GatA	tRNA	NA	NA	NA	NA
WP_000170162.1|2089496_2089799_-|tRNA	Asp-tRNA(Asn)/Glu-tRNA(Gln) amidotransferase subunit GatC	tRNA	NA	NA	NA	NA
WP_000957015.1|2090165_2091704_+	sodium/proline symporter PutP	NA	NA	NA	NA	NA
WP_000831698.1|2091792_2092992_-	CamS family sex pheromone protein	NA	NA	NA	NA	NA
WP_000774565.1|2093004_2095008_-	NAD-dependent DNA ligase LigA	NA	A0A0K2QQN8	Ralstonia_phage	36.1	5.8e-114
WP_000992921.1|2095011_2097204_-	DNA helicase PcrA	NA	A7KV33	Bacillus_phage	42.2	1.0e-135
WP_000272069.1|2097200_2097893_-	heptaprenylglyceryl phosphate synthase	NA	NA	NA	NA	NA
WP_001165363.1|2098064_2098367_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000572878.1|2098475_2099771_-	adenylosuccinate lyase	NA	A0A1B3B081	Gordonia_phage	32.9	1.6e-16
WP_000827748.1|2100631_2101798_+|protease	cysteine protease staphopain A	protease	NA	NA	NA	NA
WP_000434933.1|2101828_2102155_+	staphostatin A	NA	NA	NA	NA	NA
WP_000669862.1|2102446_2102620_-	NETI motif-containing protein	NA	NA	NA	NA	NA
WP_000011538.1|2102600_2103203_-	DUF2179 domain-containing protein	NA	NA	NA	NA	NA
WP_000040873.1|2103473_2104295_-	ammonia-dependent NAD(+) synthetase	NA	G3MA24	Bacillus_virus	52.7	1.8e-69
WP_000284431.1|2104287_2105757_-	nicotinate phosphoribosyltransferase	NA	G3MA18	Bacillus_virus	45.1	4.5e-108
WP_000897635.1|2105940_2107017_+	nitric oxide synthase oxygenase	NA	NA	NA	NA	NA
WP_001177817.1|2107036_2107831_+	prephenate dehydratase	NA	NA	NA	NA	NA
WP_001802312.1|2107902_2108010_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000323167.1|2108020_2109583_-	SLC13 family permease	NA	NA	NA	NA	NA
WP_000275730.1|2109787_2110885_-	pectate lyase	NA	U5PWM6	Bacillus_phage	34.6	1.9e-47
WP_000149686.1|2111256_2111817_+	cysteine hydrolase	NA	G3MA16	Bacillus_virus	41.2	2.0e-32
WP_001140871.1|2111869_2112799_+	manganese-dependent inorganic pyrophosphatase	NA	NA	NA	NA	NA
WP_001790680.1|2112993_2113167_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001021214.1|2113218_2114598_+	aldehyde dehydrogenase	NA	NA	NA	NA	NA
WP_000181322.1|2114717_2115746_-	lactonase family protein	NA	NA	NA	NA	NA
WP_000205106.1|2116015_2116417_+	YolD-like family protein	NA	U3PG23	Staphylococcus_phage	42.9	6.0e-23
WP_000267034.1|2116989_2117163_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001188077.1|2117613_2118654_+	linear amide C-N hydrolase	NA	NA	NA	NA	NA
WP_000713072.1|2118710_2119553_-	DUF4097 family beta strand repeat protein	NA	NA	NA	NA	NA
WP_001033971.1|2119549_2120107_-	DUF1700 domain-containing protein	NA	NA	NA	NA	NA
WP_000966288.1|2120166_2120691_-	membrane protein	NA	NA	NA	NA	NA
WP_000182842.1|2120811_2121375_+	thioredoxin family protein	NA	NA	NA	NA	NA
WP_001221651.1|2121440_2122181_-	phenol-soluble modulin export ABC transporter permease subunit PmtD	NA	NA	NA	NA	NA
WP_000763048.1|2122180_2123053_-	phenol-soluble modulin export ABC transporter ATP-binding protein PmtC	NA	A0A2H4PQG7	Staphylococcus_phage	35.2	6.1e-28
WP_000645727.1|2123049_2123730_-	phenol-soluble modulin export ABC transporter permease subunit PmtB	NA	NA	NA	NA	NA
WP_000991302.1|2123730_2124627_-	phenol-soluble modulin export ABC transporter ATP-binding protein PmtA	NA	A0A2H4PQG7	Staphylococcus_phage	30.2	1.1e-16
WP_000691584.1|2124623_2125004_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
WP_000681968.1|2125267_2125444_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000990056.1|2125686_2125785_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001068542.1|2125984_2127271_+	aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme	NA	NA	NA	NA	NA
WP_050961220.1|2127895_2129650_-	extracellular adherence protein Eap/Map	NA	NA	NA	NA	NA
WP_000669789.1|2130607_2130787_+	hypothetical protein	NA	A0A1W6JQ29	Staphylococcus_phage	100.0	2.2e-25
WP_001791826.1|2131097_2131358_+	hypothetical protein	NA	M9NS66	Staphylococcus_phage	100.0	2.3e-23
WP_000702263.1|2131410_2131761_-	complement inhibitor SCIN-A	NA	A0A1P8L6B0	Staphylococcus_phage	100.0	7.5e-54
WP_000727649.1|2132445_2132895_+	chemotaxis-inhibiting protein CHIPS	NA	A0A1P8L6A8	Staphylococcus_phage	100.0	1.1e-78
WP_000919350.1|2133974_2134466_-	staphylokinase	NA	A0A1X9H028	Staphylococcus_phage	100.0	9.5e-87
WP_000861038.1|2134656_2135412_-	CHAP domain-containing protein	NA	D2JLG5	Staphylococcus_phage	100.0	3.4e-152
WP_000611512.1|2135423_2135678_-|holin	phage holin	holin	D2JLG4	Staphylococcus_phage	100.0	4.1e-41
WP_001791821.1|2135729_2135837_+	hypothetical protein	NA	NA	NA	NA	NA
WP_011447039.1|2135889_2136066_-|holin	putative holin-like toxin	holin	D2JLG3	Staphylococcus_phage	98.3	2.2e-22
WP_000539688.1|2136215_2136512_-	DUF2951 domain-containing protein	NA	D2JLG2	Staphylococcus_phage	100.0	2.9e-46
WP_001040261.1|2136569_2136857_-	hypothetical protein	NA	D2JLG1	Staphylococcus_phage	100.0	1.3e-43
WP_001153681.1|2136903_2137056_-	hypothetical protein	NA	D2JLG0	Staphylococcus_phage	100.0	5.2e-20
WP_000582165.1|2137045_2140831_-	hypothetical protein	NA	A0A1X9H0H3	Staphylococcus_phage	98.5	0.0e+00
WP_000567394.1|2140846_2142331_-|tail	phage tail family protein	tail	A0A0H3U501	Staphylococcus_phage	100.0	2.0e-297
WP_077442719.1|2142327_2146857_-|tail	phage tail tape measure protein	tail	A0A1X9H084	Staphylococcus_phage	94.7	0.0e+00
WP_001549167.1|2146913_2147051_-	hypothetical protein	NA	A0A2I6PDX7	Staphylococcus_phage	100.0	3.4e-18
WP_001096354.1|2147101_2147452_-	hypothetical protein	NA	A0A0H3U503	Staphylococcus_phage	100.0	1.3e-58
WP_094969769.1|2147501_2147741_-	Ig-like domain-containing protein	NA	A0A075LYE8	Staphylococcus_phage	94.6	4.0e-30
WP_000260578.1|2147767_2148412_-|tail	phage tail protein	tail	A0A0H3U4E6	Staphylococcus_phage	100.0	6.5e-120
WP_000565500.1|2148415_2148820_-	hypothetical protein	NA	G4KNQ6	Staphylococcus_phage	95.5	1.4e-67
WP_000114229.1|2148816_2149221_-	HK97 gp10 family phage protein	NA	A0A0H3U2V1	Staphylococcus_phage	100.0	8.7e-70
WP_000755150.1|2149217_2149580_-|head,tail	head-tail adaptor protein	head,tail	G4KNQ4	Staphylococcus_phage	100.0	4.4e-65
2149463:2149480	attL	ATAATTTTTCTTCTTTTT	NA	NA	NA	NA
WP_000150936.1|2149563_2149848_-|head,tail	phage head-tail adapter protein	head,tail	A0A2I6PDJ5	Staphylococcus_phage	100.0	2.3e-45
WP_000238236.1|2149837_2150122_-	hypothetical protein	NA	A0A2I6PDJ3	Staphylococcus_phage	100.0	1.8e-45
WP_000154559.1|2150141_2151287_-|capsid	phage major capsid protein	capsid	G4KNQ3	Staphylococcus_phage	100.0	9.6e-215
WP_000642728.1|2151310_2152048_-|protease	Clp protease ClpP	protease	G4KNQ2	Staphylococcus_phage	100.0	1.8e-129
WP_000025274.1|2152031_2153219_-|portal	phage portal protein	portal	A0A2I6PDI1	Staphylococcus_phage	100.0	1.0e-219
WP_000625088.1|2153234_2154896_-|terminase	terminase large subunit	terminase	A0A2I6PDJ8	Staphylococcus_phage	100.0	0.0e+00
WP_000402904.1|2154892_2155237_-	hypothetical protein	NA	G4KNP9	Staphylococcus_phage	100.0	9.4e-57
WP_000988336.1|2155366_2155666_-	HNH endonuclease	NA	A0EWY8	Staphylococcus_phage	100.0	4.6e-52
WP_000590122.1|2155897_2156314_-	hypothetical protein	NA	G4KNP7	Staphylococcus_phage	100.0	1.3e-76
WP_000265043.1|2156341_2156542_-	DUF1514 family protein	NA	A0A2I6PDV9	Staphylococcus_phage	100.0	1.4e-28
WP_000595265.1|2156541_2156691_-	transcriptional activator RinB	NA	A0A1W6JPZ2	Staphylococcus_phage	100.0	4.8e-18
WP_000592207.1|2156687_2157074_-	hypothetical protein	NA	W5R986	Staphylococcus_phage	100.0	3.0e-64
WP_000195803.1|2157070_2157277_-	DUF1381 domain-containing protein	NA	A0A0H3U2R7	Staphylococcus_phage	100.0	1.3e-29
WP_001282074.1|2157273_2157519_-	hypothetical protein	NA	A0A2I6PDW7	Staphylococcus_phage	100.0	5.0e-36
WP_000181819.1|2157555_2158089_-	dUTP pyrophosphatase	NA	A0A0H3U2T1	Staphylococcus_phage	100.0	1.6e-95
WP_000700108.1|2158081_2158324_-	hypothetical protein	NA	A0A2I6PF40	Staphylococcus_phage	100.0	3.7e-36
WP_001065101.1|2158313_2158550_-	DUF1024 family protein	NA	A0A0H3U313	Staphylococcus_phage	100.0	5.3e-35
WP_001549172.1|2158542_2158914_-	hypothetical protein	NA	A0A0H3U4X7	Staphylococcus_phage	97.3	4.7e-54
WP_000131383.1|2158922_2159165_-	hypothetical protein	NA	A0A0H3U4B0	Staphylococcus_phage	100.0	1.1e-40
WP_000101288.1|2159168_2159537_-	hypothetical protein	NA	A0A0H3U2T3	Staphylococcus_phage	100.0	2.0e-49
WP_000401977.1|2159549_2159954_-	RusA family crossover junction endodeoxyribonuclease	NA	A0A0H3U2W2	Staphylococcus_phage	100.0	1.4e-72
WP_000338530.1|2159962_2160181_-	hypothetical protein	NA	A0A2I6PDG4	Staphylococcus_phage	100.0	1.0e-37
WP_000148333.1|2160187_2161081_-	DnaD domain-containing protein	NA	A0A1P8L6F0	Staphylococcus_phage	100.0	3.2e-141
WP_050961221.1|2161110_2161581_-	single-stranded DNA-binding protein	NA	A0A0H3U4B5	Staphylococcus_phage	99.4	2.8e-80
WP_071665632.1|2161581_2162199_-	MBL fold metallo-hydrolase	NA	A0A0H3U2T4	Staphylococcus_phage	100.0	4.1e-87
WP_000138475.1|2162279_2163200_-	recombinase RecT	NA	A0A2I6PDH5	Staphylococcus_phage	100.0	2.3e-166
WP_000700561.1|2163201_2165145_-	AAA family ATPase	NA	A0A2I6PDH3	Staphylococcus_phage	94.7	0.0e+00
WP_001205732.1|2165153_2165417_-	hypothetical protein	NA	A0A2I6PDG2	Staphylococcus_phage	100.0	7.7e-43
WP_000291513.1|2165425_2165686_-	DUF1108 family protein	NA	A0A0H3U2T6	Staphylococcus_phage	100.0	6.8e-44
WP_001549178.1|2165725_2165986_-	DUF2482 family protein	NA	A0A0H3U2W4	Staphylococcus_phage	100.0	9.3e-41
WP_001285960.1|2166080_2166242_-	DUF1270 domain-containing protein	NA	A0A0H3U4Y7	Staphylococcus_phage	100.0	3.8e-21
WP_001120199.1|2166238_2166559_-	DUF771 domain-containing protein	NA	A0A0H3U4C3	Staphylococcus_phage	100.0	1.5e-56
WP_000549548.1|2166617_2166848_+	hypothetical protein	NA	A0A0H3U2T9	Staphylococcus_phage	100.0	9.4e-37
WP_001001356.1|2166844_2167021_-	hypothetical protein	NA	A0A2I6PEL1	Staphylococcus_phage	100.0	8.8e-27
WP_001148642.1|2167036_2167789_-	phage antirepressor KilAC domain-containing protein	NA	A0A0H3U319	Staphylococcus_phage	100.0	5.6e-139
WP_000180411.1|2167839_2168169_+	hypothetical protein	NA	A0A0H3U4Z1	Staphylococcus_phage	100.0	4.6e-53
WP_001025404.1|2168157_2168373_-	DUF2829 domain-containing protein	NA	A0A0H3U4C7	Staphylococcus_phage	100.0	4.8e-35
WP_000854072.1|2168388_2168652_-	helix-turn-helix transcriptional regulator	NA	A0A2I6PF09	Staphylococcus_phage	100.0	7.2e-41
WP_001801500.1|2168648_2168822_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001031454.1|2168784_2169498_+	helix-turn-helix transcriptional regulator	NA	M9NUL0	Staphylococcus_phage	100.0	1.2e-130
WP_000759682.1|2169513_2170446_+	ATP-dependent helicase	NA	A0A2I6PEZ7	Staphylococcus_phage	100.0	5.7e-173
WP_000591749.1|2170451_2170793_+	hypothetical protein	NA	A0A2I6PF04	Staphylococcus_phage	100.0	4.6e-56
WP_000705246.1|2170996_2171179_+	hypothetical protein	NA	A0A0H3U4Z4	Staphylococcus_phage	100.0	4.1e-27
WP_001549185.1|2171256_2171970_+	type II toxin-antitoxin system PemK/MazF family toxin	NA	A0A1X9H026	Staphylococcus_phage	100.0	5.0e-129
WP_000857199.1|2172160_2173198_+|integrase	site-specific integrase	integrase	A0A1X9H022	Staphylococcus_phage	99.7	3.8e-178
WP_000595324.1|2174316_2175333_-	bi-component leukocidin LukGH subunit G	NA	A0A2I6PER8	Staphylococcus_phage	29.0	1.1e-25
2174394:2174411	attR	ATAATTTTTCTTCTTTTT	NA	NA	NA	NA
WP_000791407.1|2175354_2176410_-	bi-component leukocidin LukGH subunit H	NA	A0A1X9IGW5	Staphylococcus_phage	34.3	2.8e-35
WP_000206639.1|2176844_2178068_+	ArgE/DapE family deacylase	NA	NA	NA	NA	NA
WP_000812010.1|2178439_2179285_-	class I SAM-dependent methyltransferase	NA	NA	NA	NA	NA
WP_000825510.1|2179346_2180258_-	iron-hydroxamate ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
WP_001045079.1|2180418_2181726_+	TrkH family potassium uptake protein	NA	NA	NA	NA	NA
WP_000022887.1|2182578_2183022_-	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
WP_001797573.1|2183186_2183564_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001293058.1|2183881_2184472_-|terminase	terminase small subunit	terminase	Q4ZE85	Staphylococcus_phage	95.8	1.1e-97
>prophage 1
NZ_CP014404	Staphylococcus aureus strain USA300-SUR11 plasmid pUSA04-2-SUR11, complete sequence	25980	0	11380	25980	transposase	Streptococcus_phage(50.0%)	12	NA	NA
WP_000627289.1|1237_1768_+	streptothricin N-acetyltransferase Sat4	NA	A0A1B0RXL7	Streptococcus_phage	97.8	1.3e-89
WP_001096887.1|1860_2655_+	aminoglycoside O-phosphotransferase APH(3')-IIIa	NA	E4ZFP6	Streptococcus_phage	100.0	2.3e-154
WP_001105991.1|3306_3981_-|transposase	IS6-like element IS257 family transposase	transposase	A0A0N9SKD3	Staphylococcus_phage	99.6	6.8e-128
WP_001037130.1|4242_4428_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000690637.1|4650_5229_-	recombinase family protein	NA	A0A0A7NPV4	Enterobacteria_phage	51.7	4.9e-42
WP_000182645.1|5492_5873_-	penicillinase repressor BlaI	NA	NA	NA	NA	NA
WP_001096381.1|5862_7620_-	beta-lactam sensor/signal transducer BlaR1	NA	NA	NA	NA	NA
WP_000733287.1|7726_8572_+	penicillin-hydrolyzing class A beta-lactamase BlaZ	NA	A0A1B0VBP7	Salmonella_phage	34.0	5.7e-31
WP_000418035.1|9097_9517_-	MarR family transcriptional regulator	NA	NA	NA	NA	NA
WP_077492910.1|9640_10612_+	oxidoreductase	NA	NA	NA	NA	NA
WP_001791613.1|10783_10876_-	type I toxin-antitoxin system Fst family toxin	NA	NA	NA	NA	NA
WP_000119690.1|11032_11380_-	helix-turn-helix transcriptional regulator	NA	E4ZFI8	Streptococcus_phage	36.8	4.9e-13
>prophage 2
NZ_CP014404	Staphylococcus aureus strain USA300-SUR11 plasmid pUSA04-2-SUR11, complete sequence	25980	15236	15734	25980		Bacillus_virus(100.0%)	1	NA	NA
WP_000868795.1|15236_15734_-	trimethoprim-resistant dihydrofolate reductase DfrG	NA	G3MBI7	Bacillus_virus	49.1	4.0e-40
>prophage 3
NZ_CP014404	Staphylococcus aureus strain USA300-SUR11 plasmid pUSA04-2-SUR11, complete sequence	25980	20964	25297	25980		Marinitoga_camini_virus(33.33%)	5	NA	NA
WP_000797248.1|20964_21150_-	helix-turn-helix transcriptional regulator	NA	A0A142LP09	Marinitoga_camini_virus	37.9	9.9e-05
WP_001049146.1|21154_21493_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000583528.1|21738_22347_-	recombinase family protein	NA	G8I4U3	Mycobacterium_phage	30.2	1.0e-13
WP_000196697.1|22832_23732_-	Mph(C) family macrolide 2'-phosphotransferase	NA	NA	NA	NA	NA
WP_000438874.1|23830_25297_-	ABC-F type ribosomal protection protein Msr(A)	NA	A0A2I4R674	Erysipelothrix_phage	37.7	6.6e-67
