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
LS483314	Staphylococcus aureus strain NCTC3761 genome assembly, chromosome: 1	2774360	720233	728053	2774360		Hokovirus(16.67%)	10	NA	NA
SQE76018.1|720233_721289_-	Sensor histidine protein kinase SaeS (exoprotein expression protein S)	NA	A0A1V0SGX0	Hokovirus	29.8	3.6e-14
SQE76019.1|721288_721975_-	Response regulator SaeR	NA	NA	NA	NA	NA
SQE76020.1|721949_722423_-	DoxX family protein	NA	NA	NA	NA	NA
SQE76021.1|722764_723205_-	lipoprotein	NA	NA	NA	NA	NA
SQE76022.1|723484_724069_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQE76023.1|724167_724881_-	Queuosine Biosynthesis QueE Radical SAM	NA	A0A1U9WRB6	Streptococcus_virus	43.5	6.5e-52
SQE76024.1|724884_725304_-	6-pyruvoyl-tetrahydropterin synthase	NA	S4U060	uncultured_phage	28.7	6.3e-07
SQE76025.1|725305_725974_-	Queuosine Biosynthesis QueC ATPase	NA	A0A2H4J8Q7	uncultured_Caudovirales_phage	57.5	9.6e-66
SQE76026.1|726324_726918_+	Para-aminobenzoate synthase, amidotransferase component PabAb	NA	A0A0P0IKJ1	Acinetobacter_phage	43.5	1.2e-38
SQE76027.1|726901_728053_+	Para-aminobenzoate synthetase component I	NA	S4VNU7	Pandoravirus	36.1	3.5e-23
>prophage 2
LS483314	Staphylococcus aureus strain NCTC3761 genome assembly, chromosome: 1	2774360	740024	754754	2774360		uncultured_Caudovirales_phage(50.0%)	13	NA	NA
SQE76036.1|740024_741083_+	histidinol-phosphate aminotransferase	NA	A0A0H3TLT9	Faustovirus	27.7	3.9e-21
SQE76037.1|740956_741238_-	Protein of uncharacterised function (DUF3125)	NA	NA	NA	NA	NA
SQE76038.1|741377_741920_+	5'-3'-deoxyribonucleotidase, putative	NA	NA	NA	NA	NA
SQE76039.1|742599_743517_-	Transcription regulator (contains diacylglycerol kinase catalytic domain)	NA	A0A1V0SBJ0	Catovirus	22.0	2.1e-07
SQE76040.1|743785_745291_-	Di/tripeptide permease YjdL	NA	A0A0P0IY73	Acinetobacter_phage	32.2	2.0e-58
SQE76041.1|745631_746132_-	NADPH dependent preQ0 reductase	NA	E7DN65	Pneumococcus_phage	71.5	5.9e-52
SQE76042.1|746151_747018_-	Integral membrane domain protein	NA	NA	NA	NA	NA
SQE76043.1|747818_748217_+	Nrdi	NA	A0A2H4J545	uncultured_Caudovirales_phage	72.0	1.2e-52
SQE76044.1|748179_750285_+	ribonucleotide-diphosphate reductase subunit alpha	NA	A0A2H4J2N6	uncultured_Caudovirales_phage	91.6	0.0e+00
SQE76045.1|750402_751374_+	ribonucleoside-diphosphate reductase subunit beta	NA	A0A2H4J4P3	uncultured_Caudovirales_phage	91.3	4.2e-171
SQE76046.1|752039_753053_+	FatD	NA	A0A2H4IY97	uncultured_Caudovirales_phage	78.0	2.2e-138
SQE76047.1|753039_753996_+	Iron compound ABC uptake transporter permease protein	NA	A0A2H4J116	uncultured_Caudovirales_phage	57.8	1.2e-05
SQE76048.1|753992_754754_+	Iron compound ABC uptake transporter ATP-binding protein	NA	Q9EMR9	Amsacta_moorei_entomopoxvirus	31.6	8.5e-18
>prophage 3
LS483314	Staphylococcus aureus strain NCTC3761 genome assembly, chromosome: 1	2774360	805303	821807	2774360	integrase,terminase,transposase	Staphylococcus_phage(64.71%)	23	802187:802202	824011:824026
802187:802202	attL	GGTGTTACTAAAGCAG	NA	NA	NA	NA
SQE76093.1|805303_807676_+	3'-to-5' exoribonuclease RNase R	NA	Q0GXV6	Lactococcus_phage	39.0	5.1e-93
SQE76094.1|807697_808162_+	tmRNA-binding protein SmpB	NA	W5RAM5	Staphylococcus_phage	100.0	1.5e-81
SQE76095.1|808724_809843_-|integrase	integrase	integrase	H0UST3	Bacillus_phage	44.6	2.0e-76
SQE76096.1|809823_810753_-	Xre family transcriptional regulator	NA	Q9AZH9	Lactococcus_phage	35.6	2.2e-12
SQE76097.1|810940_811159_+	putative plasmid copy control protein	NA	NA	NA	NA	NA
SQE76098.1|811171_811309_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQE76099.1|811310_811721_+	pathogenicity island protein	NA	A0A2H4JBF1	uncultured_Caudovirales_phage	85.8	2.4e-59
SQE76100.1|811721_812015_+	hypothetical mobile element-associated protein	NA	A0A1W6JQH0	Staphylococcus_phage	61.8	8.9e-24
SQE76101.1|812102_812972_+	pathogenicity island protein	NA	A0A1W6JQL5	Staphylococcus_phage	96.2	2.7e-161
SQE76102.1|812988_814446_+	pathogenicity island protein	NA	A0A1W6JQD6	Staphylococcus_phage	96.3	1.0e-277
SQE76103.1|814746_815109_+	pathogenicity island protein	NA	A0A1W6JQD5	Staphylococcus_phage	99.2	8.9e-66
SQE76104.1|815110_815395_+	pathogenicity island protein	NA	A0A1W6JQE4	Staphylococcus_phage	92.6	1.0e-45
SQE76105.1|815391_816033_+	mobile element-associated protein, putative	NA	Q4ZE67	Staphylococcus_phage	94.4	5.9e-113
SQE76106.1|816549_816891_+	pathogenicity island protein	NA	Q4ZE66	Staphylococcus_phage	99.1	1.4e-57
SQE76107.1|816902_817481_+|transposase	transposase	transposase	A0A2H4JBG0	uncultured_Caudovirales_phage	38.4	1.4e-28
SQE76108.1|817498_817717_+	hypothetical mobile element-associated protein	NA	NA	NA	NA	NA
SQE76109.1|817767_818295_+	pathogenicity island protein	NA	Q4ZE87	Staphylococcus_phage	94.9	4.3e-85
SQE76110.1|818297_818639_+|transposase	transposase	transposase	A0A1W6JQM3	Staphylococcus_phage	98.2	1.9e-57
SQE76111.1|818635_819205_+|terminase	putative phage terminase	terminase	Q4ZE85	Staphylococcus_phage	96.8	8.7e-100
SQE76112.1|819633_820152_+	pathogenicity island protein	NA	NA	NA	NA	NA
SQE76113.1|820148_820577_+	pathogenicity island protein	NA	NA	NA	NA	NA
SQE76114.1|820563_821343_+	pathogenicity island protein	NA	NA	NA	NA	NA
SQE76115.1|821522_821807_+	phage protein	NA	A0A2H4JAH5	uncultured_Caudovirales_phage	57.6	4.3e-23
824011:824026	attR	CTGCTTTAGTAACACC	NA	NA	NA	NA
>prophage 4
LS483314	Staphylococcus aureus strain NCTC3761 genome assembly, chromosome: 1	2774360	856076	902372	2774360	terminase,head,portal,holin,tail	Staphylococcus_phage(55.22%)	71	NA	NA
SQE76154.1|856076_857318_+	Selenocysteine lyase	NA	Q2XUY6	environmental_halophage	44.8	8.2e-111
SQE76155.1|857307_857772_+	Iron-sulfur cluster assembly scaffold protein IscU	NA	NA	NA	NA	NA
SQE76156.1|857922_859320_+	Scaffold protein sufB	NA	NA	NA	NA	NA
SQE76157.1|859387_860437_-	Integrase	NA	A1KWY3	Staphylococcus_virus	99.7	1.3e-202
SQE76158.1|860549_860729_+	Excisionase	NA	Q4ZBP0	Staphylococcus_phage	100.0	3.7e-25
SQE76159.1|860708_861641_-	phage protein	NA	A0EX19	Staphylococcus_virus	99.7	2.5e-173
SQE76160.1|861676_862288_-	Phage repressor	NA	B5WZL2	Staphylococcus_phage	89.2	5.5e-100
SQE76161.1|862458_862686_+	ORF060	NA	B5WZL3	Staphylococcus_phage	93.3	2.6e-31
SQE76162.1|862746_862908_+	Uncharacterised protein	NA	Q4ZB04	Staphylococcus_virus	100.0	4.3e-20
SQE76163.1|862900_863137_-	Uncharacterised protein	NA	Q4ZBN3	Staphylococcus_phage	96.2	7.4e-37
SQE76164.1|863201_863939_+	prophage, antirepressor, putative	NA	M9NS32	Staphylococcus_phage	98.3	4.7e-130
SQE76165.1|863951_864113_+	phi PV83 orf 10-like protein	NA	A0A2H4J3T9	uncultured_Caudovirales_phage	73.6	6.6e-13
SQE76166.1|864043_864247_-	Uncharacterised protein	NA	A0A2H4JBA9	uncultured_Caudovirales_phage	69.8	1.7e-18
SQE76167.1|864316_864508_+	phage protein	NA	A0A0F6N3I2	Staphylococcus_phage	98.1	5.1e-20
SQE76168.1|864529_864691_+	phage protein	NA	C7F7L3	Staphylococcus_phage	98.1	7.2e-20
SQE76169.1|864680_864830_+	Uncharacterised protein	NA	A0A0H3U318	Staphylococcus_phage	88.2	3.8e-07
SQE76170.1|864783_865044_+	phage protein	NA	Q4ZBM7	Staphylococcus_phage	97.7	4.4e-43
SQE76171.1|865058_865538_+	phage protein	NA	A0A0H4J328	Staphylococcus_phage	100.0	1.1e-82
SQE76172.1|865537_866176_+	putative phage single-strand DNA binding protein	NA	A0A059T7J7	Staphylococcus_phage	98.6	1.1e-114
SQE76173.1|866175_866601_+	Single-stranded DNA-binding protein, phage associated	NA	A0A0E3XC62	Staphylococcus_phage	90.8	3.0e-65
SQE76174.1|866611_867163_+	ORF027	NA	A0A2H4PQR4	Staphylococcus_phage	100.0	1.6e-106
SQE76175.1|867163_867838_+	phage protein	NA	C8CGZ0	Staphylococcus_phage	98.7	2.6e-127
SQE76176.1|867830_868586_+	hypothetical phage-related protein	NA	C8CGZ1	Staphylococcus_phage	99.6	1.1e-142
SQE76177.1|868585_868942_+	phage protein	NA	B7T0A8	Staphylococcus_virus	97.5	2.2e-61
SQE76178.1|868938_870180_+	prophage L54a, replicative DNA helicase	NA	C8CGZ3	Staphylococcus_phage	99.8	3.3e-229
SQE76179.1|870176_870392_+	hypothetical phage-related protein	NA	A9CR72	Staphylococcus_phage	100.0	2.8e-35
SQE76180.1|870394_870616_+	putative phi ETA-like protein	NA	Q9G021	Staphylococcus_phage	100.0	1.3e-35
SQE76181.1|870626_871031_+	putative phi ETA-like protein	NA	G4KNP2	Staphylococcus_phage	100.0	1.6e-68
SQE76182.1|871035_871221_+	PV83 orf 23-like protein	NA	A0A0N9BBI1	Staphylococcus_phage	98.4	5.4e-27
SQE76183.1|871221_871590_+	Phage protein	NA	A0A2H4PQJ6	Staphylococcus_phage	100.0	3.1e-50
SQE76184.1|871593_871836_+	phage family protein	NA	Q4ZDP7	Staphylococcus_virus	96.2	5.6e-40
SQE76185.1|871850_872099_+	Phage protein	NA	Q4ZDW9	Staphylococcus_virus	97.6	1.7e-36
SQE76186.1|872091_872631_+	dUTPase family protein	NA	B2ZYX2	Staphylococcus_phage	70.6	3.7e-60
SQE76187.1|872667_872874_+	phage protein	NA	A0A2I6PEM9	Staphylococcus_phage	95.6	1.6e-16
SQE76188.1|872870_873257_+	phage membrane protein	NA	Q4ZDW6	Staphylococcus_virus	100.0	4.0e-64
SQE76189.1|873253_873427_+	int gene activator RinB	NA	Q4ZAX6	Staphylococcus_virus	93.0	3.5e-20
SQE76190.1|873427_873829_+	putative phi PVL-like protein	NA	A0A2H4PQK5	Staphylococcus_phage	100.0	5.6e-69
SQE76191.1|874183_874678_+|terminase	phage terminase small subunit	terminase	R4IH30	Staphylococcus_phage	100.0	1.1e-74
SQE76192.1|874670_875879_+|terminase	phage terminase large subunit	terminase	R4IG95	Staphylococcus_phage	100.0	6.1e-236
SQE76193.1|875892_877311_+|portal	SPP1 family phage portal protein	portal	Q4ZB45	Staphylococcus_virus	98.7	1.4e-271
SQE76194.1|877267_878230_+|head	phage minor head protein	head	Q4ZB44	Staphylococcus_virus	99.7	4.6e-178
SQE76195.1|878327_878852_+	phage minor structural GP20	NA	Q4ZB42	Staphylococcus_virus	100.0	2.9e-65
SQE76196.1|878863_879823_+	Uncharacterised protein	NA	Q4ZB40	Staphylococcus_virus	100.0	1.9e-179
SQE76197.1|879839_880166_+	Rho termination factor domain-containing protein	NA	Q4ZB39	Staphylococcus_virus	100.0	5.9e-53
SQE76198.1|880165_880480_+	putative phage DNA-packaging protein	NA	Q4ZB38	Staphylococcus_virus	100.0	2.6e-53
SQE76199.1|880472_880808_+|head,tail	putative phage head-tail adaptor protein	head,tail	Q4ZB37	Staphylococcus_virus	100.0	3.9e-60
SQE76200.1|880794_881208_+	HK97 family phage protein	NA	Q4ZB36	Staphylococcus_virus	100.0	1.5e-77
SQE76201.1|881220_881658_+	phage protein	NA	A0A0E3T9M9	Staphylococcus_phage	100.0	2.1e-77
SQE76202.1|881644_882205_+	phage protein	NA	A0A0H4ITY2	Staphylococcus_phage	100.0	5.9e-101
SQE76203.1|882266_882761_+	phage protein	NA	Q4ZB32	Staphylococcus_virus	100.0	2.5e-87
SQE76204.1|882781_883123_+	phage protein	NA	W5R8J4	Staphylococcus_phage	99.1	4.6e-56
SQE76205.1|883125_886269_+	phage tape measure protein	NA	A7YGV9	Staphylococcus_virus	97.1	1.7e-306
SQE76206.1|886283_887219_+|tail	phage tail protein	tail	A7YGW1	Staphylococcus_virus	100.0	3.7e-180
SQE76207.1|887229_889116_+	GDSL-like Lipase/Acylhydrolase family protein	NA	Q4ZAG4	Staphylococcus_virus	99.8	0.0e+00
SQE76208.1|889128_891027_+	phage protein	NA	Q4ZBX7	Staphylococcus_virus	98.4	0.0e+00
SQE76209.1|891026_892850_+	phiETA ORF57-like protein	NA	A7YGW7	Staphylococcus_virus	99.8	0.0e+00
SQE76210.1|892849_893227_+	SLT orf 129-like protein	NA	Q4ZAU9	Staphylococcus_virus	100.0	9.0e-61
SQE76211.1|893227_893410_+	phage protein	NA	Q4ZB22	Staphylococcus_virus	100.0	2.5e-29
SQE76212.1|893450_893750_+	hypothetical phage-related protein	NA	A0A2I6PER2	Staphylococcus_phage	100.0	2.0e-31
SQE76213.1|893886_895761_+	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase	NA	Q4ZBX1	Staphylococcus_virus	100.0	0.0e+00
SQE76214.1|895773_896946_+|tail	phage tail fiber protein	tail	I1W629	Staphylococcus_phage	98.7	2.7e-196
SQE76215.1|896951_897347_+	phi ETA orf 63-like protein	NA	A0EWU9	Staphylococcus_virus	98.5	1.8e-67
SQE76216.1|897403_897658_+|holin	Phage holin	holin	D2JLG4	Staphylococcus_phage	100.0	4.1e-41
SQE76217.1|897669_898425_+	Autolysin	NA	D2JLG5	Staphylococcus_phage	100.0	3.4e-152
SQE76218.1|898615_899107_+	Staphylokinase	NA	A7TWR8	Staphylococcus_phage	100.0	8.0e-86
SQE76219.1|899519_899648_+	Uncharacterised protein	NA	A0A0F6N3H2	Staphylococcus_phage	100.0	1.1e-15
SQE76220.1|899718_899829_+	Uncharacterised protein	NA	W5R8J7	Staphylococcus_phage	100.0	1.7e-12
SQE76221.1|899830_900016_+	Uncharacterised protein	NA	A0A0F6N3H3	Staphylococcus_phage	100.0	2.7e-26
SQE76222.1|900362_901412_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQE76223.1|901368_901692_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQE76224.1|901688_902372_+	Uncharacterised protein	NA	A0A0A7S0U2	Clostridium_phage	28.3	1.1e-13
>prophage 5
LS483314	Staphylococcus aureus strain NCTC3761 genome assembly, chromosome: 1	2774360	1059075	1067548	2774360		Synechococcus_phage(33.33%)	9	NA	NA
SQE76366.1|1059075_1059558_+	AIR carboxylase	NA	A0A2P0VNU7	Tetraselmis_virus	44.7	6.2e-22
SQE76367.1|1059544_1060669_+	Phosphoribosylaminoimidazole carboxylase ATPase subunit	NA	NA	NA	NA	NA
SQE76368.1|1060672_1061377_+	Phosphoribosylaminoimidazole-succinocarboxamide synthase	NA	M4R1E8	Synechococcus_phage	42.1	7.3e-48
SQE76369.1|1061376_1061640_+	Phosphoribosylformylglycinamidine synthase, PurS subunit	NA	NA	NA	NA	NA
SQE76370.1|1061641_1062313_+	Phosphoribosylformylglycinamidine synthase	NA	NA	NA	NA	NA
SQE76371.1|1062305_1064495_+	Phosphoribosylformylglycinamidine synthase, synthetase subunit	NA	A6N228	Microbacterium_phage	39.8	3.5e-141
SQE76372.1|1064473_1065958_+	amidophosphoribosyltransferase	NA	A0A0M3SGR2	Mollivirus	31.7	1.9e-45
SQE76373.1|1065950_1066979_+	Phosphoribosylformylglycinamidine cyclo-ligase	NA	Q58MH8	Prochlorococcus_phage	41.7	3.4e-62
SQE76374.1|1066981_1067548_+	Phosphoribosylglycinamide formyltransferase	NA	M4QRX9	Synechococcus_phage	39.6	2.3e-28
>prophage 6
LS483314	Staphylococcus aureus strain NCTC3761 genome assembly, chromosome: 1	2774360	1325070	1342127	2774360	integrase,terminase,portal,head	Staphylococcus_phage(54.17%)	31	1318794:1318811	1344118:1344135
1318794:1318811	attL	ATTCAATCATTAATATAT	NA	NA	NA	NA
SQE76607.1|1325070_1326198_-|integrase	integrase family protein	integrase	A0A0C5AN64	Paenibacillus_phage	31.4	6.2e-33
SQE76608.1|1326250_1326946_-	host cell surface-exposed lipofamily protein	NA	A0A2H4J5B8	uncultured_Caudovirales_phage	50.3	3.6e-07
SQE76609.1|1326957_1327341_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQE76610.1|1327487_1327880_-	helix-turn-helix family protein	NA	A0A2I6PE55	Staphylococcus_phage	53.6	1.6e-28
SQE76611.1|1328047_1328266_+	regulatory protein	NA	A0A2I6PE94	Staphylococcus_phage	62.5	4.9e-19
SQE76612.1|1328292_1328568_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQE76613.1|1328572_1328707_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQE76614.1|1328737_1328857_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQE76615.1|1328832_1329003_+	Uncharacterised protein	NA	Q4ZDZ8	Staphylococcus_virus	89.3	2.4e-21
SQE76616.1|1328991_1329198_-	Uncharacterised protein	NA	A1BTY8	Staphylococcus_virus	75.0	3.3e-25
SQE76617.1|1329258_1329942_+	prophage, antirepressor, putative	NA	A9CR56	Staphylococcus_phage	85.6	5.2e-107
SQE76618.1|1330040_1330202_+	phage protein	NA	R4IH12	Staphylococcus_phage	69.8	1.1e-12
SQE76619.1|1330288_1330606_+	phage protein	NA	W5RAK4	Staphylococcus_phage	68.1	1.6e-26
SQE76620.1|1330595_1330862_+	phage protein	NA	A0A2I6PDG2	Staphylococcus_phage	53.6	3.0e-18
SQE76621.1|1330866_1331403_+	glycosyl hydrolases 17 family protein	NA	A0A0H3U480	Staphylococcus_phage	82.5	1.7e-76
SQE76622.1|1331403_1332183_+	bacterial dnaA family protein	NA	A0A1W6JPW0	Staphylococcus_phage	88.0	2.3e-127
SQE76623.1|1332209_1332758_+	Single stranded DNA-binding protein,phage-associated	NA	A7TWM8	Staphylococcus_phage	92.9	1.1e-91
SQE76624.1|1332770_1333673_+	dnaD domain protein	NA	A0A1P8L6F0	Staphylococcus_phage	52.0	2.9e-49
SQE76625.1|1333673_1333964_+	PVL orf 51-like protein	NA	A0A223LIA9	Staphylococcus_phage	58.1	7.2e-18
SQE76626.1|1333978_1334143_+	phage protein	NA	A0A0E3T9L7	Staphylococcus_phage	88.9	1.1e-18
SQE76627.1|1334142_1334454_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQE76628.1|1334446_1334977_+	mazG nucleotide pyrophosphohydrolase domain protein	NA	A0A1P8VVP1	Streptococcus_phage	38.2	5.2e-22
SQE76629.1|1335222_1335687_+	Uncharacterised protein	NA	C9E2P0	Enterococcus_phage	43.0	3.2e-20
SQE76630.1|1335687_1335921_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQE76631.1|1335963_1336452_+	sigma-70, region 4 family protein	NA	R9TMH4	Paenibacillus_phage	27.7	9.7e-07
SQE76632.1|1336604_1337033_+	homeo-like domain protein	NA	A1EAE0	Streptococcus_phage	45.1	1.1e-25
SQE76633.1|1337019_1338294_+|terminase	phage terminase, large subunit, PBSX family	terminase	Q4ZE37	Staphylococcus_virus	76.4	1.9e-195
SQE76634.1|1338306_1339755_+|portal	phage portal protein, SPP1 family	portal	Q4ZE36	Staphylococcus_virus	69.4	7.4e-196
SQE76635.1|1339744_1341274_+|head	phage head morphogenesis, SPP1 gp7 family domain protein	head	Q4ZE35	Staphylococcus_virus	61.6	1.9e-109
SQE76636.1|1341286_1341409_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQE76637.1|1341665_1342127_+	Uncharacterised protein	NA	A0A1J0MF61	Staphylococcus_phage	46.0	3.8e-29
1344118:1344135	attR	ATATATTAATGATTGAAT	NA	NA	NA	NA
>prophage 7
LS483314	Staphylococcus aureus strain NCTC3761 genome assembly, chromosome: 1	2774360	1619228	1627558	2774360	tRNA	Staphylococcus_phage(16.67%)	7	NA	NA
SQE76873.1|1619228_1620014_-	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	28.3	8.0e-19
SQE76874.1|1620139_1621030_-	endonuclease IV	NA	A0A2H4UU70	Bodo_saltans_virus	36.0	3.4e-26
SQE76875.1|1621039_1622386_-	ATP-dependent RNA helicase YqfR	NA	A0A1V0SIR5	Klosneuvirus	34.0	2.4e-55
SQE76876.1|1622499_1623600_-	NIF3 protein	NA	A0A1S5V250	Saudi_moumouvirus	29.6	5.2e-08
SQE76877.1|1623602_1624280_-|tRNA	Putative tRNA-m1A22 methylase	tRNA	NA	NA	NA	NA
SQE76878.1|1624410_1625517_-	RNA polymerase sigma factor RpoD	NA	A0A2I7SAT0	Vibrio_phage	38.1	1.1e-37
SQE76879.1|1625740_1627558_-	DNA primase	NA	A0A0K1LMQ9	Caulobacter_phage	36.3	7.9e-54
>prophage 8
LS483314	Staphylococcus aureus strain NCTC3761 genome assembly, chromosome: 1	2774360	1695392	1704435	2774360	tRNA	uncultured_Mediterranean_phage(50.0%)	7	NA	NA
SQE77049.1|1695392_1695911_-	Adenine phosphoribosyltransferase	NA	A0A1V0SKE5	Klosneuvirus	46.5	5.6e-29
SQE77050.1|1695932_1698206_-	Single-stranded-DNA-specific exonuclease recJ	NA	A7KV88	Bacillus_phage	28.8	5.2e-63
SQE77052.1|1698408_1700688_-	Protein-export membrane protein secD / Protein-export membrane protein secF	NA	A0A1B1IVP7	uncultured_Mediterranean_phage	35.8	1.8e-31
SQE77053.1|1700962_1701223_-	Preprotein translocase subunit YajC	NA	A0A1B1IVR5	uncultured_Mediterranean_phage	35.3	8.2e-05
SQE77055.1|1701241_1702381_-|tRNA	queuine tRNA-ribosyltransferase	tRNA	A0A1B1IVQ4	uncultured_Mediterranean_phage	44.7	5.4e-85
SQE77057.1|1702403_1703429_-|tRNA	S-adenosylmethionine--tRNA ribosyltransferase-isomerase	tRNA	NA	NA	NA	NA
SQE77058.1|1703430_1704435_-	Holliday junction DNA helicase RuvB	NA	B3GAM6	uncultured_virus	29.1	1.7e-05
>prophage 9
LS483314	Staphylococcus aureus strain NCTC3761 genome assembly, chromosome: 1	2774360	1829897	1902874	2774360	integrase,protease,tRNA	Staphylococcus_phage(91.67%)	69	1898413:1898430	1907161:1907178
SQE77193.1|1829897_1836458_-	LPXTG-motif cell wall anchor domain-containing protein	NA	A0A2H4PQU6	Staphylococcus_phage	98.9	2.3e-308
SQE77194.1|1836783_1837095_-	Rhodanese-like domain protein	NA	A0A2H4PQR9	Staphylococcus_phage	100.0	1.6e-52
SQE77196.1|1837116_1839534_-|tRNA	Leucyl-tRNA synthetase	tRNA	A0A2H4PQS0	Staphylococcus_phage	99.2	0.0e+00
SQE77198.1|1839821_1841003_-	Multidrug resistance protein	NA	A0A2H4PQR6	Staphylococcus_phage	100.0	5.6e-218
SQE77199.1|1841112_1842066_+	Fe-S oxidoreductase	NA	A0A2H4PQV5	Staphylococcus_phage	100.0	2.2e-79
SQE77201.1|1842062_1842521_+	SAM-dependent methyltransferase, MraW methylase family	NA	A0A2H4PQV0	Staphylococcus_phage	99.2	2.3e-63
SQE77202.1|1842458_1843286_-	Lysophospholipase; Monoglyceride lipase; putative	NA	NA	NA	NA	NA
SQE77203.1|1843519_1844521_+	Proline dehydrogenase (Proline oxidase)	NA	A0A2H4PQT6	Staphylococcus_phage	99.7	9.0e-185
SQE77204.1|1844642_1845107_-	6,7-dimethyl-8-ribityllumazine synthase	NA	A0A2H4PQS3	Staphylococcus_phage	99.4	5.8e-70
SQE77205.1|1845119_1846301_-	3,4-dihydroxy-2-butanone-4-phosphate synthase	NA	A0A2H4PQS2	Staphylococcus_phage	99.7	6.6e-227
SQE77206.1|1846311_1846944_-	Riboflavin synthase alpha chain	NA	A0A2H4PQS5	Staphylococcus_phage	99.5	1.7e-112
SQE77207.1|1846950_1847994_-	5-amino-6-(5-phosphoribosylamino)uracil reductase	NA	A0A2H4PQS8	Staphylococcus_phage	98.8	5.3e-196
SQE77208.1|1848474_1849977_-	pyridine nucleotide-disulfide oxidoreductase family protein	NA	A0A2H4PQX2	Staphylococcus_phage	98.6	1.9e-29
SQE77210.1|1850499_1850814_+	arsenical resistance operon repressor 2	NA	A0A2H4PQT4	Staphylococcus_phage	98.1	9.8e-53
SQE77212.1|1850813_1852106_+	arsenical pump membrane protein	NA	A0A2H4PQU3	Staphylococcus_phage	99.3	9.4e-227
SQE77213.1|1852192_1853047_-	peptidoglycan endo-beta-N-acetylglucosaminidase	NA	Q4ZCC7	Staphylococcus_virus	38.6	9.8e-39
SQE77214.1|1853322_1853547_-	putative staphylococcal protein	NA	NA	NA	NA	NA
SQE77215.1|1853745_1854216_+	RNA polymerase sigma factor sigS	NA	A0A2H4PQT5	Staphylococcus_phage	99.4	1.0e-82
SQE77216.1|1854328_1854772_+	comK family protein	NA	NA	NA	NA	NA
SQE77217.1|1854758_1855202_-	putative staphylococcal protein	NA	A0A2H4PQT8	Staphylococcus_phage	98.6	2.4e-57
SQE77218.1|1855497_1856133_+|protease	CAAX amino terminal protease	protease	NA	NA	NA	NA
SQE77220.1|1856572_1857286_-	Transaldolase	NA	M1PR54	Cyanophage	35.3	5.5e-19
SQE77221.1|1857545_1857848_+	membrane protein	NA	NA	NA	NA	NA
SQE77222.1|1858103_1858469_+	CrcB family protein	NA	A0A2H4PQR0	Staphylococcus_phage	100.0	3.6e-59
SQE77223.1|1858465_1858819_+	CrcB family protein	NA	A0A2H4PQQ7	Staphylococcus_phage	100.0	2.6e-22
SQE77225.1|1859201_1860035_-	aldo/keto reductase family protein	NA	A0A2H4PQR8	Staphylococcus_phage	100.0	5.4e-159
SQE77226.1|1860246_1861155_-	Uncharacterised protein	NA	A0A2H4PQQ8	Staphylococcus_phage	100.0	3.4e-138
SQE77227.1|1861279_1862473_-	S-adenosylmethionine synthase	NA	A0A2H4PQS6	Staphylococcus_phage	99.7	1.9e-218
SQE77228.1|1862844_1864437_+	phosphoenolpyruvate carboxykinase	NA	A0A2H4PQN1	Staphylococcus_phage	100.0	0.0e+00
SQE77230.1|1864814_1865585_-	Dipeptidyl aminopeptidase/acylaminoacyl-peptidase	NA	A0A2H4PQM6	Staphylococcus_phage	98.8	1.1e-142
SQE77231.1|1865565_1866045_-	phosphohydrolase	NA	A0A2H4PQM4	Staphylococcus_phage	98.7	1.5e-84
SQE77232.1|1866104_1866362_+	Putative cytosolic protein	NA	A0A2H4PQM5	Staphylococcus_phage	100.0	7.2e-46
SQE77233.1|1866358_1867360_-	O-succinylbenzoate synthase	NA	A0A2H4PQM0	Staphylococcus_phage	97.9	2.2e-186
SQE77234.1|1867364_1868843_-	O-succinylbenzoic acid--CoA ligase	NA	A0A2H4PQM9	Staphylococcus_phage	97.4	8.1e-283
SQE77235.1|1869001_1869484_-	putative lipoprotein	NA	A0A2H4PQN7	Staphylococcus_phage	97.9	4.6e-78
SQE77236.1|1869795_1870410_+	endonuclease	NA	A0A2H4PQM8	Staphylococcus_phage	87.3	9.5e-36
SQE77237.1|1870490_1871486_+	Telomeric repeat-binding factor 2	NA	A0A2H4PQN2	Staphylococcus_phage	98.8	6.2e-77
SQE77238.1|1871561_1872188_+	lipoprotein	NA	A0A2H4PQM7	Staphylococcus_phage	93.8	5.3e-90
SQE77239.1|1872228_1872570_+	Uncharacterised protein	NA	A0A2H4PQN6	Staphylococcus_phage	95.6	3.0e-55
SQE77240.1|1872670_1873243_+	Uncharacterised protein	NA	A0A2H4PQN4	Staphylococcus_phage	96.6	1.1e-25
SQE77242.1|1873439_1873997_-	Domain of uncharacterised function (DUF955)	NA	A0A2H4PQN8	Staphylococcus_phage	96.2	2.7e-77
SQE77243.1|1874369_1874546_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQE77244.1|1875655_1875910_-	exported protein	NA	NA	NA	NA	NA
SQE77245.1|1875978_1876098_-	putative protein with DUF1433	NA	NA	NA	NA	NA
SQE77247.1|1876097_1876541_-	exported protein	NA	NA	NA	NA	NA
SQE77248.1|1876540_1876984_-	putative protein with DUF1433	NA	NA	NA	NA	NA
SQE77249.1|1877408_1879946_+	hyaluronate lyase	NA	NA	NA	NA	NA
SQE77250.1|1880069_1880447_-	exported protein	NA	NA	NA	NA	NA
SQE77251.1|1880652_1881093_-	putative protein with DUF1433	NA	NA	NA	NA	NA
SQE77252.1|1881137_1882751_+	pathogenicity island protein	NA	NA	NA	NA	NA
SQE77253.1|1882765_1883065_+	ESAT-6 family protein	NA	NA	NA	NA	NA
SQE77255.1|1883191_1884400_-	type I restriction modification DNA specificity domain protein	NA	A0A2H4PQP5	Staphylococcus_phage	31.5	9.3e-35
SQE77256.1|1884392_1885949_-	Type I restriction enzyme EcoprrI M protein	NA	A0A2H4PQP4	Staphylococcus_phage	98.3	2.6e-287
SQE77257.1|1886311_1887031_-|protease	Serine protease splD	protease	A0A2H4PQP1	Staphylococcus_phage	97.9	1.7e-129
SQE77258.1|1887151_1887871_-|protease	Serine protease splC	protease	A0A2H4PQP7	Staphylococcus_phage	98.7	1.3e-129
SQE77259.1|1887928_1888651_-|protease	Serine protease splB	protease	A0A2H4PQN0	Staphylococcus_phage	100.0	6.4e-132
SQE77260.1|1888775_1889483_-|protease	serine protease SplA	protease	A0A2H4PQN3	Staphylococcus_phage	99.6	7.7e-130
SQE77261.1|1890446_1891016_+	beta-lactamase	NA	A0A2H4PQH6	Staphylococcus_phage	62.6	2.6e-51
SQE77262.1|1891489_1891762_-	truncated BsaG protein	NA	A0A2H4PQH0	Staphylococcus_phage	78.8	2.9e-29
SQE77264.1|1891963_1892437_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQE77265.1|1892441_1893233_+	Domain of uncharacterised function DUF1828	NA	NA	NA	NA	NA
SQE77266.1|1893602_1894586_-	Leukotoxin LukD	NA	A0A2H4PQH7	Staphylococcus_phage	99.1	2.3e-185
SQE77267.1|1894587_1895523_-	Leukocidin S subunit lukE	NA	A0A2H4PQI5	Staphylococcus_phage	100.0	1.4e-174
SQE77268.1|1897130_1897727_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQE77269.1|1897893_1899240_+	exported protein	NA	M1NRY5	Streptococcus_phage	50.8	9.6e-65
1898413:1898430	attL	TTATTTAATGCTGAAACT	NA	NA	NA	NA
SQE77270.1|1899826_1900063_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQE77271.1|1900083_1900860_+	Domain of uncharacterised function DUF1828	NA	NA	NA	NA	NA
SQE77272.1|1901257_1901752_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQE77273.1|1902133_1902874_+|integrase	putative integrase	integrase	A0A2H4JB53	uncultured_Caudovirales_phage	89.0	3.0e-124
1907161:1907178	attR	TTATTTAATGCTGAAACT	NA	NA	NA	NA
>prophage 10
LS483314	Staphylococcus aureus strain NCTC3761 genome assembly, chromosome: 1	2774360	1983127	2053273	2774360	transposase,protease,integrase,terminase,tRNA	Staphylococcus_phage(67.74%)	72	1982519:1982543	2056477:2056501
1982519:1982543	attL	ACCCCAACTTGCATTGTCTGTAGAA	NA	NA	NA	NA
SQE77423.1|1983127_1984555_-|tRNA	aspartyl/glutamyl-tRNA amidotransferase subunit B	tRNA	NA	NA	NA	NA
SQE77425.1|1984567_1986025_-|tRNA	aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit A	tRNA	NA	NA	NA	NA
SQE77426.1|1986026_1986329_-|tRNA	Aspartyl-tRNA(Asn) amidotransferase subunit C; Glutamyl-tRNA(Gln) amidotransferase subunit C	tRNA	NA	NA	NA	NA
SQE77428.1|1986695_1988234_+	Sodium/proline symporter	NA	NA	NA	NA	NA
SQE77429.1|1988322_1989522_-	Lipoprotein (pheromone precursor)	NA	NA	NA	NA	NA
SQE77431.1|1989534_1991538_-	DNA ligase	NA	A0A0K2QQN8	Ralstonia_phage	36.1	5.8e-114
SQE77434.1|1991541_1993734_-	ATP-dependent DNA helicase UvrD/PcrA	NA	A7KV33	Bacillus_phage	42.2	1.0e-135
SQE77435.1|1993730_1994423_-	geranylgeranylglyceryl diphosphate synthase	NA	NA	NA	NA	NA
SQE77436.1|1994594_1994897_-	His repressor	NA	NA	NA	NA	NA
SQE77437.1|1995005_1996301_-	adenylosuccinate lyase	NA	A0A1B3B081	Gordonia_phage	32.9	1.6e-16
SQE77438.1|1997160_1998327_+	Staphopain A precursor	NA	NA	NA	NA	NA
SQE77440.1|1998357_1998684_+|protease	putative cysteine protease inhibitor (Staphostatin A)	protease	NA	NA	NA	NA
SQE77442.1|1998975_1999149_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQE77444.1|1999129_1999732_-	Uncharacterized protein conserved in bacteria (DUF2179)	NA	NA	NA	NA	NA
SQE77446.1|2000002_2000824_-	NH(3)-dependent NAD(+) synthetase	NA	G3MA24	Bacillus_virus	52.7	2.3e-69
SQE77447.1|2000816_2002286_-	nicotinate phosphoribosyltransferase	NA	G3MA18	Bacillus_virus	45.1	3.5e-108
SQE77449.1|2002469_2003546_+	nitric-oxide synthase	NA	NA	NA	NA	NA
SQE77451.1|2003565_2004360_+	ACT domain protein	NA	NA	NA	NA	NA
SQE77452.1|2004549_2006112_-	sodium-dependent dicarboxylate transporter sdcS	NA	NA	NA	NA	NA
SQE77453.1|2006316_2007414_-	cell wall surface anchor family protein	NA	U5PWM6	Bacillus_phage	34.9	2.5e-47
SQE77455.1|2007785_2008346_+	Nicotinamidase	NA	G3MA16	Bacillus_virus	41.2	2.0e-32
SQE77457.1|2008398_2009328_+	inorganic pyrophosphatase	NA	NA	NA	NA	NA
SQE77460.1|2009747_2011127_+	Aldehyde dehydrogenase	NA	NA	NA	NA	NA
SQE77461.1|2011246_2012275_-	6-phosphogluconolactonase	NA	NA	NA	NA	NA
SQE77462.1|2012544_2012946_+	yolD-like family protein	NA	U3PG23	Staphylococcus_phage	42.9	6.0e-23
SQE77464.1|2013518_2013692_-	exported protein	NA	NA	NA	NA	NA
SQE77465.1|2014070_2015183_+	choloylglycine hydrolase	NA	NA	NA	NA	NA
SQE77466.1|2015239_2016082_-	exported protein	NA	NA	NA	NA	NA
SQE77467.1|2016078_2016636_-	Predicted membrane protein	NA	NA	NA	NA	NA
SQE77468.1|2016695_2017220_-	membrane protein	NA	NA	NA	NA	NA
SQE77469.1|2017340_2017904_+	Thioredoxin	NA	NA	NA	NA	NA
SQE77470.1|2017969_2018710_-	ABC-2 transporter family protein	NA	NA	NA	NA	NA
SQE77472.1|2018709_2019582_-	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	35.2	6.1e-28
SQE77473.1|2019578_2020259_-	membrane protein	NA	NA	NA	NA	NA
SQE77474.1|2020259_2021156_-	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	30.2	1.1e-16
SQE77475.1|2021152_2021533_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
SQE77476.1|2021791_2021968_-	membrane protein	NA	NA	NA	NA	NA
SQE77478.1|2022508_2023795_+	Aspartate aminotransferase	NA	NA	NA	NA	NA
SQE77479.1|2024073_2024364_-	truncated map-w protein; extracellular adherence protein of broad specificity Eap/Map	NA	NA	NA	NA	NA
SQE77480.1|2024374_2026438_-	MHC class II analog (pseudogene)	NA	NA	NA	NA	NA
SQE77481.1|2026823_2027819_+	phospholipase C	NA	A0A1P8L6H7	Staphylococcus_phage	99.6	2.4e-161
SQE77482.1|2028056_2029073_-	gamma-hemolysin component B	NA	A0A2I6PER8	Staphylococcus_phage	29.3	2.3e-26
SQE77484.1|2029094_2030147_-	Leukocidin S subunit	NA	A0A1X9IGW5	Staphylococcus_phage	34.6	2.5e-36
SQE77485.1|2030581_2031805_+	succinyl-diaminopimelate desuccinylase	NA	NA	NA	NA	NA
SQE77486.1|2032176_2033022_-	tetracenomycin polyketide synthesis O-methyltransferase TcmP	NA	NA	NA	NA	NA
SQE77487.1|2033083_2033995_-	ferric hydroxamate receptor 1	NA	NA	NA	NA	NA
SQE77488.1|2034155_2035463_+	Na+-transporting ATP synthase	NA	NA	NA	NA	NA
SQE77490.1|2036034_2036661_-	Phage protein	NA	C8CH40	Staphylococcus_phage	44.5	7.0e-42
SQE77491.1|2036657_2036837_-	mobile element-associated protein	NA	NA	NA	NA	NA
SQE77492.1|2037845_2038538_-|protease	subtilase family protease, putative	protease	NA	NA	NA	NA
SQE77493.1|2038524_2039130_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQE77494.1|2039143_2039893_-	exported protein	NA	NA	NA	NA	NA
SQE77495.1|2041039_2041402_+	pathogenicity island protein	NA	NA	NA	NA	NA
SQE77496.1|2041486_2042056_-|terminase	putative phage terminase	terminase	Q4ZE85	Staphylococcus_phage	97.4	6.6e-100
SQE77498.1|2042052_2042394_-|transposase	transposase	transposase	Q4ZE86	Staphylococcus_phage	91.2	8.7e-55
SQE77499.1|2042396_2042924_-	pathogenicity island protein	NA	Q4ZE87	Staphylococcus_phage	97.1	3.7e-89
SQE77500.1|2042974_2043193_-	hypothetical mobile element-associated protein	NA	NA	NA	NA	NA
SQE77501.1|2043210_2043789_-|transposase	transposase	transposase	A0A2H4JBG0	uncultured_Caudovirales_phage	39.5	1.6e-29
SQE77502.1|2043800_2044142_-	pathogenicity island protein	NA	Q4ZE66	Staphylococcus_phage	96.5	2.1e-56
SQE77503.1|2044488_2045130_-|transposase	transposase	transposase	Q4ZE67	Staphylococcus_phage	93.0	7.2e-111
SQE77504.1|2045131_2045404_-	pathogenicity island protein	NA	Q4ZE68	Staphylococcus_phage	100.0	3.2e-44
SQE77505.1|2045390_2046194_-	pathogenicity island replication protein	NA	Q4ZE69	Staphylococcus_phage	97.0	6.2e-152
SQE77507.1|2046369_2047986_-	bacteriophage resistance protein	NA	A0A1W6JPF4	Staphylococcus_phage	76.8	6.9e-243
SQE77508.1|2048060_2048360_-	mobile element-associated DUF1474-containing protein, putative	NA	A0A1W6JQH0	Staphylococcus_phage	58.2	6.1e-20
SQE77509.1|2048362_2048572_-	pathogenicity island protein	NA	Q4ZE76	Staphylococcus_phage	94.2	1.7e-29
SQE77510.1|2048564_2048711_-	hypothetical bovine pathogenicity island protein	NA	NA	NA	NA	NA
SQE77511.1|2048707_2049025_-	mobile element-associated transcriptional regulator, putative	NA	A0A1W6JQE0	Staphylococcus_phage	94.3	8.6e-49
SQE77512.1|2049028_2049241_-	pathogenicity island protein	NA	A0A1W6JQE8	Staphylococcus_phage	84.1	3.8e-24
SQE77513.1|2049414_2050047_+	mobile element-associated transcriptional regulator, putative	NA	A0A1W6JQE6	Staphylococcus_phage	82.9	2.2e-96
SQE77515.1|2050055_2051228_+|integrase	mobile element-associated integrase, putative	integrase	A0A1W6JQD3	Staphylococcus_phage	98.2	5.9e-220
SQE77516.1|2051296_2052913_-	heat shock protein 60 family chaperone GroEL	NA	A0A240F779	uncultured_virus	54.7	3.4e-157
SQE77517.1|2052988_2053273_-	Heat shock protein 60 family co-chaperone GroES	NA	A0A221S386	uncultured_virus	46.2	4.7e-14
2056477:2056501	attR	ACCCCAACTTGCATTGTCTGTAGAA	NA	NA	NA	NA
