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
LS483350	Staphylococcus aureus strain NCTC11940 genome assembly, chromosome: 1	2827594	354294	405167	2827594	transposase,integrase	Streptococcus_phage(62.5%)	52	357626:357642	400246:400262
SQF43729.1|354294_354585_-|integrase	integrase-like protein	integrase	Q4ZE80	Staphylococcus_phage	70.5	5.2e-24
SQF43731.1|355201_355813_+	staphylococcal enterotoxin, putative	NA	NA	NA	NA	NA
SQF43735.1|356181_356550_+	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
SQF43737.1|356730_357303_+	lipoprotein	NA	NA	NA	NA	NA
SQF43739.1|357440_357704_-	XRE family transcription regulator, putative	NA	NA	NA	NA	NA
357626:357642	attL	TCTCATTTAATTGCTGT	NA	NA	NA	NA
SQF43741.1|358003_358255_+	transglycosylase associated family protein	NA	NA	NA	NA	NA
SQF43744.1|358680_359262_+	truncated phosphoglycerate mutase family protein	NA	NA	NA	NA	NA
SQF43745.1|359327_359714_-	membrane spanning protein	NA	NA	NA	NA	NA
SQF43747.1|359965_360592_-	lipoprotein	NA	NA	NA	NA	NA
SQF43750.1|360664_360922_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQF43752.1|361036_362560_-	Alkyl hydroperoxide reductase protein F	NA	A0A249XZT7	Enterococcus_phage	33.6	1.9e-40
SQF43753.1|362575_363145_-	Alkyl hydroperoxide reductase protein C	NA	NA	NA	NA	NA
SQF43755.1|363585_364392_+	Chromate reductase	NA	NA	NA	NA	NA
SQF43757.1|364472_365861_-	Sodium:dicarboxylate symporter family protein	NA	NA	NA	NA	NA
SQF43759.1|366837_367794_-	DNA-binding protein	NA	NA	NA	NA	NA
SQF43761.1|367911_368574_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQF43763.1|368716_369124_-	transcriptional regulator	NA	NA	NA	NA	NA
SQF43765.1|369636_370215_+	Xanthine phosphoribosyltransferase	NA	NA	NA	NA	NA
SQF43766.1|370214_371483_+	Xanthine permease	NA	NA	NA	NA	NA
SQF43770.1|371520_372987_+	Inosine-5-monophosphate dehydrogenase	NA	A0A1V0SHK8	Klosneuvirus	40.5	5.2e-96
SQF43772.1|373011_374553_+	GMP synthase (glutamine-hydrolyzing)	NA	A0A1V0SH76	Hokovirus	32.6	1.2e-23
SQF43775.1|374620_375814_-|integrase	integrase-like protein	integrase	A0A0S2MV79	Bacillus_phage	34.2	8.3e-44
SQF43777.1|375840_376041_-	Domain of uncharacterised function (DUF3173)	NA	NA	NA	NA	NA
SQF43778.1|376538_376769_-	Polyribonucleotide nucleotidyltransferase	NA	A0A1S5SEX1	Streptococcus_phage	78.9	1.0e-27
SQF43780.1|376765_377188_-	Sigma-70 Region 4 protein	NA	A0A1S5SEW0	Streptococcus_phage	68.6	7.5e-48
SQF43782.1|377718_378072_+	putative HTH-type transcriptional regulator	NA	A0A1S5SFA6	Streptococcus_phage	89.7	2.2e-53
SQF43784.1|378415_380335_-	tetracycline resistance protein TetM	NA	A0A1S5SF82	Streptococcus_phage	97.2	0.0e+00
SQF43786.1|380711_381641_-	conjugative transposon-like protein	NA	A0A1S5SF22	Streptococcus_phage	56.6	1.1e-83
SQF43788.1|381657_382680_-	NLP/P60 family lipoprotein	NA	A0A1S5SEZ8	Streptococcus_phage	75.5	2.4e-132
SQF43789.1|382676_384704_-	Conjugative transposon membrane protein	NA	A0A1S5SF30	Streptococcus_phage	65.5	2.3e-195
SQF43792.1|384700_387154_-	ATP/GTP-binding protein	NA	A0A1S5SF64	Streptococcus_phage	78.8	0.0e+00
SQF43794.1|387137_387533_-	conjugative transposon-like protein	NA	A0A1S5SEX7	Streptococcus_phage	72.6	5.9e-47
SQF43796.1|387604_388234_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQF43798.1|388262_388991_-	ATP-binding protein	NA	A0A2L1IVB6	Escherichia_phage	39.0	7.8e-37
SQF43800.1|388990_390418_-|transposase	putative transposase	transposase	NA	NA	NA	NA
SQF43802.1|390501_390630_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQF43804.1|390685_391186_-	putative antirestriction protein	NA	A0A1S5SF25	Streptococcus_phage	63.0	1.7e-54
SQF43806.1|391246_392008_-	Protein of uncharacterised function (DUF3644)	NA	NA	NA	NA	NA
SQF43808.1|392067_392289_-	Conjugative transposon protein	NA	A0A1S5SEY0	Streptococcus_phage	93.2	3.1e-29
SQF43809.1|392285_392576_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQF43811.1|392572_393757_-	replication initiation factor	NA	A0A1S5SEX3	Streptococcus_phage	68.1	8.3e-161
SQF43813.1|393938_395342_-	Ftsk domain-containing protein	NA	A0A1S5SFB5	Streptococcus_phage	66.5	1.4e-175
SQF43815.1|395363_396137_-	putative mom-like protein	NA	NA	NA	NA	NA
SQF43817.1|396146_396524_-	Conjugative transposon protein	NA	A0A1S5SF96	Streptococcus_phage	76.4	9.6e-47
SQF43819.1|396544_396859_-	putative conjugative transposon protein	NA	A0A1S5SF38	Streptococcus_phage	77.7	1.2e-42
SQF43821.1|397058_398852_-	putative UvrD/REP helicase	NA	E3T5J8	Cafeteria_roenbergensis_virus	23.8	6.9e-26
SQF43823.1|398848_401038_-	recombinational DNA repair ATPase, RecF_1	NA	NA	NA	NA	NA
400246:400262	attR	TCTCATTTAATTGCTGT	NA	NA	NA	NA
SQF43824.1|401171_402023_-|transposase	transposase for insertion sequence element	transposase	NA	NA	NA	NA
SQF43828.1|401997_402369_-|transposase	transposase for insertion sequence element	transposase	NA	NA	NA	NA
SQF43830.1|402862_403399_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQF43831.1|403791_404496_-	Phage protein	NA	U5U4R0	Staphylococcus_phage	37.6	2.6e-29
SQF43833.1|404894_405167_-|transposase	transposase	transposase	A0A0C5AJ30	Paenibacillus_phage	50.6	1.3e-13
>prophage 2
LS483350	Staphylococcus aureus strain NCTC11940 genome assembly, chromosome: 1	2827594	733354	741174	2827594		Hokovirus(16.67%)	10	NA	NA
SQF44385.1|733354_734410_-	Sensor histidine protein kinase SaeS (exoprotein expression protein S)	NA	A0A1V0SGX0	Hokovirus	30.0	2.1e-14
SQF44387.1|734409_735096_-	Response regulator SaeR	NA	NA	NA	NA	NA
SQF44389.1|735070_735544_-	DoxX family protein	NA	NA	NA	NA	NA
SQF44391.1|735885_736326_-	lipoprotein	NA	NA	NA	NA	NA
SQF44393.1|736605_737190_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQF44394.1|737288_738002_-	Queuosine Biosynthesis QueE Radical SAM	NA	A0A1U9WRB6	Streptococcus_virus	43.5	6.5e-52
SQF44396.1|738005_738425_-	6-pyruvoyl-tetrahydropterin synthase	NA	S4U060	uncultured_phage	28.7	6.3e-07
SQF44399.1|738426_739095_-	Queuosine Biosynthesis QueC ATPase	NA	A0A2H4J8Q7	uncultured_Caudovirales_phage	57.5	9.6e-66
SQF44401.1|739445_740039_+	Para-aminobenzoate synthase, amidotransferase component PabAb	NA	A0A0P0IKJ1	Acinetobacter_phage	42.9	4.4e-38
SQF44403.1|740022_741174_+	Para-aminobenzoate synthetase component I	NA	A0A0B5J984	Pandoravirus	35.7	1.6e-23
>prophage 3
LS483350	Staphylococcus aureus strain NCTC11940 genome assembly, chromosome: 1	2827594	753146	767976	2827594		uncultured_Caudovirales_phage(50.0%)	12	NA	NA
SQF44421.1|753146_754205_+	histidinol-phosphate aminotransferase	NA	A0A1X6WGT4	Pacmanvirus	26.7	7.9e-22
SQF44425.1|754555_755098_+	5'-3'-deoxyribonucleotidase, putative	NA	NA	NA	NA	NA
SQF44427.1|755777_756695_-	Transcription regulator (contains diacylglycerol kinase catalytic domain)	NA	A0A1V0SBJ0	Catovirus	22.0	3.7e-07
SQF44430.1|756964_758470_-	Di/tripeptide permease YjdL	NA	A0A0P0IY73	Acinetobacter_phage	32.2	2.0e-58
SQF44432.1|758810_759311_-	NADPH dependent preQ0 reductase	NA	E7DN65	Pneumococcus_phage	71.5	5.9e-52
SQF44434.1|759330_760197_-	Integral membrane domain protein	NA	NA	NA	NA	NA
SQF44436.1|760997_761396_+	Nrdi	NA	A0A2H4J545	uncultured_Caudovirales_phage	72.0	1.2e-52
SQF44438.1|761358_763464_+	ribonucleotide-diphosphate reductase subunit alpha	NA	A0A2H4J2N6	uncultured_Caudovirales_phage	91.7	0.0e+00
SQF44443.1|763581_764553_+	ribonucleoside-diphosphate reductase subunit beta	NA	A0A2H4J4P3	uncultured_Caudovirales_phage	91.3	4.2e-171
SQF44444.1|765261_766275_+	FatD	NA	A0A2H4IY97	uncultured_Caudovirales_phage	78.0	2.2e-138
SQF44445.1|766261_767218_+	Iron compound ABC uptake transporter permease protein	NA	A0A2H4J116	uncultured_Caudovirales_phage	57.8	1.2e-05
SQF44446.1|767214_767976_+	Iron compound ABC uptake transporter ATP-binding protein	NA	Q9EMR9	Amsacta_moorei_entomopoxvirus	31.6	8.5e-18
>prophage 4
LS483350	Staphylococcus aureus strain NCTC11940 genome assembly, chromosome: 1	2827594	824541	869124	2827594	transposase,terminase,integrase	Staphylococcus_phage(71.43%)	56	856851:856869	871413:871431
SQF44497.1|824541_825714_-|transposase	IS256-like transposase	transposase	A0A0N9STL0	Staphylococcus_phage	100.0	3.5e-135
SQF44498.1|826292_826814_+	membrane protein	NA	NA	NA	NA	NA
SQF44499.1|826952_827483_+	acetyltransferase	NA	NA	NA	NA	NA
SQF44500.1|827745_830565_+	Clumping factor ClfA, fibrinogen-binding protein	NA	NA	NA	NA	NA
SQF44501.1|830785_832312_+	putative von Willebrand factor-binding protein precursor	NA	NA	NA	NA	NA
SQF44502.1|832662_833685_+	Extracellular ECM and plasma binding protein Emp	NA	NA	NA	NA	NA
SQF44504.1|834019_834490_+	von Willebrand binding protein	NA	NA	NA	NA	NA
SQF44506.1|834830_835517_+	Thermonuclease	NA	A0A1P8CWK6	Bacillus_phage	54.2	3.8e-33
SQF44508.1|836355_837528_+|transposase	IS256-like transposase	transposase	A0A0N9STL0	Staphylococcus_phage	100.0	3.5e-135
SQF44510.1|837691_837880_-	membrane protein	NA	NA	NA	NA	NA
SQF44512.1|837908_838169_-	membrane protein	NA	NA	NA	NA	NA
SQF44514.1|838509_838713_+	YozE domain-like protein	NA	NA	NA	NA	NA
SQF44516.1|838709_838946_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQF44517.1|839167_839752_+	phosphoglycerate mutase	NA	A0A1X9IGJ2	Lactococcus_phage	40.4	9.4e-33
SQF44519.1|839824_840442_-	LysE type translocator protein	NA	NA	NA	NA	NA
SQF44521.1|840596_841091_-	lactococcal prophage ps3 protein 05	NA	NA	NA	NA	NA
SQF44523.1|841489_841912_-	Organic hydroperoxide resistance protein	NA	NA	NA	NA	NA
SQF44524.1|842059_842776_+	3-dehydroquinate dehydratase I AroC I	NA	W6LP76	Streptococcus_phage	30.6	3.0e-17
SQF44526.1|842858_843398_+	nitroreductase family protein	NA	NA	NA	NA	NA
SQF44528.1|843547_843868_-	Thioredoxin	NA	A0A1X9I9P5	Staphylococcus_phage	36.4	3.1e-06
SQF44530.1|844011_844368_+	Arsenate reductase	NA	M1PLC0	Streptococcus_phage	46.6	4.7e-19
SQF44532.1|844525_844906_+	Glycine cleavage system H protein	NA	NA	NA	NA	NA
SQF44534.1|844969_845083_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQF44535.1|845084_845705_+	Putative uncharacterized protein truncated-SA	NA	NA	NA	NA	NA
SQF44537.1|845806_846892_+	Transposase A from transposon Tn554	NA	A0A0A8WIF9	Clostridium_phage	28.3	4.5e-12
SQF44539.1|846888_848781_+	Transposase B from transposon Tn554	NA	NA	NA	NA	NA
SQF44541.1|848787_849165_+	Transposase for transposon Tn554	NA	NA	NA	NA	NA
SQF44543.1|849315_850098_+	Spectinomycin 9-O-adenylyltransferase	NA	NA	NA	NA	NA
SQF44545.1|850223_850955_-	rRNA adenine N-6-methyltransferase	NA	E4ZFQ0	Streptococcus_phage	48.8	4.2e-54
SQF44547.1|851463_852126_+	methyltransferase type 12	NA	NA	NA	NA	NA
SQF44549.1|852362_852650_+	Putative cytosolic protein	NA	NA	NA	NA	NA
SQF44551.1|853388_853778_+	DNA primase/ small primase-like protein	NA	NA	NA	NA	NA
SQF44552.1|853770_854067_+	Thioredoxin	NA	NA	NA	NA	NA
SQF44554.1|854316_855342_+	Methionine ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	36.8	1.2e-27
SQF44556.1|855334_856030_+	Methionine ABC transporter permease protein	NA	NA	NA	NA	NA
SQF44557.1|856047_856869_+	Methionine ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
856851:856869	attL	AGTTATTCCTGCTAAATAA	NA	NA	NA	NA
SQF44559.1|857012_858233_-|integrase	prophage L54a integrase	integrase	Q4ZE80	Staphylococcus_phage	47.3	3.5e-98
SQF44561.1|858320_859049_-	enterotoxin	NA	A0EX09	Staphylococcus_phage	32.3	2.4e-22
SQF44563.1|859072_859801_-	staphylococcal enterotoxin Q	NA	A0EX09	Staphylococcus_phage	35.4	7.9e-29
SQF44565.1|859975_860710_-	Helix-turn-helix XRE-family like protein	NA	Q4ZE79	Staphylococcus_phage	98.4	8.5e-132
SQF44567.1|860859_861072_+	pathogenicity island protein	NA	Q4ZE78	Staphylococcus_phage	98.6	3.4e-33
SQF44568.1|861072_861345_+	pathogenicity island DNA-binding protein	NA	Q4ZE77	Staphylococcus_phage	100.0	3.4e-46
SQF44570.1|861356_861503_+	hypothetical bovine pathogenicity island protein	NA	NA	NA	NA	NA
SQF44572.1|861495_861705_+	pathogenicity island protein	NA	Q4ZE76	Staphylococcus_phage	95.7	7.7e-30
SQF44574.1|861707_862001_+	hypothetical mobile element-associated protein	NA	A0A1W6JQH0	Staphylococcus_phage	61.8	1.8e-24
SQF44576.1|862088_862958_+	pathogenicity island protein	NA	A0A1W6JQL5	Staphylococcus_phage	97.2	3.8e-163
SQF44578.1|862974_864432_+	pathogenicity island protein	NA	A0A1W6JQD6	Staphylococcus_phage	96.7	1.4e-279
SQF44579.1|864733_865096_+	pathogenicity island protein	NA	A0A1W6JQD5	Staphylococcus_phage	96.7	2.9e-64
SQF44581.1|865097_865382_+	pathogenicity island protein	NA	A0A1W6JQE4	Staphylococcus_phage	98.9	1.6e-49
SQF44582.1|865378_866020_+	mobile element-associated protein, putative	NA	Q4ZE67	Staphylococcus_phage	94.8	2.7e-113
SQF44583.1|866468_866810_+	pathogenicity island protein	NA	Q4ZE66	Staphylococcus_phage	98.2	1.6e-56
SQF44584.1|866821_867400_+|transposase	transposase	transposase	A0A2H4JBG0	uncultured_Caudovirales_phage	40.0	3.3e-30
SQF44585.1|867417_867636_+	hypothetical mobile element-associated protein	NA	NA	NA	NA	NA
SQF44586.1|867686_868214_+	pathogenicity island protein	NA	Q4ZE87	Staphylococcus_phage	96.0	1.6e-87
SQF44587.1|868216_868558_+|transposase	transposase	transposase	Q4ZE86	Staphylococcus_phage	98.2	8.4e-58
SQF44588.1|868554_869124_+|terminase	putative phage terminase	terminase	A0A1W6JQF0	Staphylococcus_phage	98.4	1.2e-101
871413:871431	attR	AGTTATTCCTGCTAAATAA	NA	NA	NA	NA
>prophage 5
LS483350	Staphylococcus aureus strain NCTC11940 genome assembly, chromosome: 1	2827594	1037083	1045556	2827594		Synechococcus_phage(33.33%)	9	NA	NA
SQF44930.1|1037083_1037566_+	AIR carboxylase	NA	A0A2P0VNU7	Tetraselmis_virus	44.7	6.2e-22
SQF44932.1|1037552_1038677_+	phosphoribosylaminoimidazolesuccinocarboxamide synthase	NA	NA	NA	NA	NA
SQF44933.1|1038680_1039385_+	Phosphoribosylaminoimidazole-succinocarboxamide synthase	NA	M4R1E8	Synechococcus_phage	42.1	7.3e-48
SQF44935.1|1039384_1039648_+	Phosphoribosylformylglycinamidine synthase, PurS subunit	NA	NA	NA	NA	NA
SQF44936.1|1039649_1040321_+	Phosphoribosylformylglycinamidine synthase	NA	NA	NA	NA	NA
SQF44937.1|1040313_1042503_+	Phosphoribosylformylglycinamidine synthase, synthetase subunit	NA	A6N228	Microbacterium_phage	39.7	1.0e-140
SQF44939.1|1042481_1043966_+	amidophosphoribosyltransferase	NA	A0A0M3SGR2	Mollivirus	31.7	3.2e-45
SQF44941.1|1043958_1044987_+	Phosphoribosylformylglycinamidine cyclo-ligase	NA	Q58MH8	Prochlorococcus_phage	41.4	1.3e-61
SQF44942.1|1044989_1045556_+	Phosphoribosylglycinamide formyltransferase	NA	M4QRX9	Synechococcus_phage	40.1	6.1e-29
>prophage 6
LS483350	Staphylococcus aureus strain NCTC11940 genome assembly, chromosome: 1	2827594	1588444	1596756	2827594	tRNA	Staphylococcus_phage(16.67%)	7	NA	NA
SQF45952.1|1588444_1589230_-	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	28.3	8.0e-19
SQF45954.1|1589355_1590246_-	endonuclease IV	NA	A0A2H4UU70	Bodo_saltans_virus	33.1	2.0e-26
SQF45955.1|1590255_1591602_-	ATP-dependent RNA helicase YqfR	NA	A0A1V0SIR5	Klosneuvirus	33.7	5.3e-55
SQF45957.1|1591715_1592816_-	NIF3 protein	NA	A0A1S5V250	Saudi_moumouvirus	29.6	5.2e-08
SQF45959.1|1592818_1593496_-|tRNA	Putative tRNA-m1A22 methylase	tRNA	NA	NA	NA	NA
SQF45961.1|1593626_1594733_-	RNA polymerase sigma factor RpoD	NA	A0A2I7SAT0	Vibrio_phage	38.1	1.1e-37
SQF45963.1|1594956_1596756_-	DNA primase	NA	A0A0K1LMQ9	Caulobacter_phage	36.0	4.6e-54
>prophage 7
LS483350	Staphylococcus aureus strain NCTC11940 genome assembly, chromosome: 1	2827594	1665894	1674937	2827594	tRNA	uncultured_Mediterranean_phage(50.0%)	7	NA	NA
SQF46098.1|1665894_1666413_-	Adenine phosphoribosyltransferase	NA	A0A1V0SKE5	Klosneuvirus	46.5	5.6e-29
SQF46099.1|1666434_1668708_-	Single-stranded-DNA-specific exonuclease recJ	NA	A7KV88	Bacillus_phage	28.8	8.9e-63
SQF46100.1|1668910_1671190_-	Protein-export membrane protein secD / Protein-export membrane protein secF	NA	A0A1B1IVP7	uncultured_Mediterranean_phage	35.8	1.8e-31
SQF46101.1|1671464_1671725_-	Preprotein translocase subunit YajC	NA	A0A1B1IVR5	uncultured_Mediterranean_phage	35.3	8.2e-05
SQF46102.1|1671743_1672883_-|tRNA	queuine tRNA-ribosyltransferase	tRNA	A0A1B1IVQ4	uncultured_Mediterranean_phage	44.7	5.4e-85
SQF46103.1|1672905_1673931_-|tRNA	S-adenosylmethionine--tRNA ribosyltransferase-isomerase	tRNA	NA	NA	NA	NA
SQF46104.1|1673932_1674937_-	Holliday junction DNA helicase RuvB	NA	B3GAM6	uncultured_virus	29.1	1.7e-05
>prophage 8
LS483350	Staphylococcus aureus strain NCTC11940 genome assembly, chromosome: 1	2827594	1785136	1889365	2827594	protease,tRNA,transposase	Staphylococcus_phage(87.14%)	94	NA	NA
SQF46239.1|1785136_1786309_+|transposase	IS256-like transposase	transposase	A0A0N9STL0	Staphylococcus_phage	100.0	3.5e-135
SQF46241.1|1786822_1788181_-	smooth muscle caldesmon	NA	NA	NA	NA	NA
SQF46243.1|1788254_1788746_-	General stress protein-like protein	NA	NA	NA	NA	NA
SQF46245.1|1788819_1790133_-	UDP-N-acetylmuramate--L-alanine ligase	NA	NA	NA	NA	NA
SQF46247.1|1790156_1793981_-	SpoIIIE family cell division protein	NA	A0A218M9A2	Mycobacterium_phage	47.0	2.6e-83
SQF46249.1|1794001_1794598_-|tRNA	tRNA-binding domain-containing protein	tRNA	NA	NA	NA	NA
SQF46251.1|1794626_1795484_-	Putative cytosolic protein	NA	A0A2H4PQY3	Staphylococcus_phage	100.0	6.8e-72
SQF46253.1|1795583_1795895_-	Thioredoxin	NA	NA	NA	NA	NA
SQF46255.1|1795959_1797036_-	Glutamyl aminopeptidase; Deblocking aminopeptidase	NA	NA	NA	NA	NA
SQF46258.1|1797119_1797434_+	peptidase propeptide and YPEB domain-containing protein	NA	NA	NA	NA	NA
SQF46259.1|1797558_1798401_-	metallo-beta-lactamase superfamily protein	NA	NA	NA	NA	NA
SQF46261.1|1798925_1799411_+|transposase	IS605/IS200-like transposase	transposase	A0A1P8BMC0	Lactococcus_phage	35.4	4.9e-19
SQF46263.1|1799612_1800257_-|tRNA	tRNA (guanine46-N7-)-methyltransferase	tRNA	NA	NA	NA	NA
SQF46265.1|1800271_1801063_-	phosphotransferase enzyme family	NA	NA	NA	NA	NA
SQF46267.1|1801612_1802461_-	D-alanine aminotransferase	NA	NA	NA	NA	NA
SQF46268.1|1802464_1803874_-	Xaa-His dipeptidase	NA	NA	NA	NA	NA
SQF46270.1|1804564_1804987_-	putative staphylococcal protein	NA	NA	NA	NA	NA
SQF46272.1|1805003_1805699_-	16S pseudouridine synthase A	NA	NA	NA	NA	NA
SQF46274.1|1805695_1807357_-	spore cortex protein; Membrane protein involved in the export of O-antigen, teichoic acid lipoteichoic acids	NA	NA	NA	NA	NA
SQF46276.1|1807763_1809032_+	NAD(FAD)-utilizing dehydrogenase	NA	A0A2H4PQX1	Staphylococcus_phage	100.0	4.1e-57
SQF46278.1|1809148_1815709_-	LPXTG-motif cell wall anchor domain-containing protein	NA	A0A2H4PQU6	Staphylococcus_phage	97.8	2.2e-303
SQF46280.1|1816034_1816346_-	Rhodanese-like domain protein	NA	A0A2H4PQR9	Staphylococcus_phage	100.0	1.6e-52
SQF46282.1|1816367_1818785_-|tRNA	Leucyl-tRNA synthetase	tRNA	A0A2H4PQS0	Staphylococcus_phage	99.2	0.0e+00
SQF46287.1|1819080_1820253_-	Multidrug resistance protein	NA	A0A2H4PQR6	Staphylococcus_phage	100.0	3.1e-216
SQF46289.1|1820362_1821316_+	Fe-S oxidoreductase	NA	A0A2H4PQV5	Staphylococcus_phage	100.0	2.2e-79
SQF46291.1|1821312_1821876_+	SAM-dependent methyltransferase, MraW methylase family	NA	A0A2H4PQV0	Staphylococcus_phage	99.5	8.3e-103
SQF46293.1|1821995_1822397_-	HTH-type transcriptional regulator rot	NA	NA	NA	NA	NA
SQF46295.1|1822916_1823141_-	Mobile element protein	NA	Q9MBP7	Staphylococcus_prophage	81.8	4.5e-20
SQF46296.1|1823137_1823629_-	Transposase	NA	A0A146ICT8	Staphylococcus_phage	91.6	2.4e-74
SQF46297.1|1823975_1824803_-	Lysophospholipase; Monoglyceride lipase; putative	NA	NA	NA	NA	NA
SQF46299.1|1825035_1826037_+	Proline dehydrogenase (Proline oxidase)	NA	A0A2H4PQT6	Staphylococcus_phage	99.7	9.0e-185
SQF46302.1|1826158_1826623_-	6,7-dimethyl-8-ribityllumazine synthase	NA	A0A2H4PQS3	Staphylococcus_phage	99.4	5.8e-70
SQF46304.1|1826635_1827817_-	3,4-dihydroxy-2-butanone-4-phosphate synthase	NA	A0A2H4PQS2	Staphylococcus_phage	99.2	1.6e-225
SQF46306.1|1827827_1828460_-	Riboflavin synthase alpha chain	NA	A0A2H4PQS5	Staphylococcus_phage	99.5	1.7e-112
SQF46309.1|1828466_1829510_-	5-amino-6-(5-phosphoribosylamino)uracil reductase	NA	A0A2H4PQS8	Staphylococcus_phage	99.4	6.3e-197
SQF46312.1|1829990_1831493_-	pyridine nucleotide-disulfide oxidoreductase family protein	NA	A0A2H4PQX2	Staphylococcus_phage	100.0	2.3e-30
SQF46313.1|1832015_1832330_+	arsenical resistance operon repressor 2	NA	A0A2H4PQT4	Staphylococcus_phage	100.0	2.0e-53
SQF46315.1|1832329_1833622_+	arsenical pump membrane protein	NA	A0A2H4PQU3	Staphylococcus_phage	99.5	5.0e-228
SQF46317.1|1833639_1834035_+	arsenate reductase, putative	NA	A0A2H4PQT9	Staphylococcus_phage	100.0	6.3e-73
SQF46319.1|1834329_1835184_-	peptidoglycan endo-beta-N-acetylglucosaminidase	NA	Q4ZCC7	Staphylococcus_virus	38.6	9.8e-39
SQF46321.1|1835459_1835684_-	putative staphylococcal protein	NA	NA	NA	NA	NA
SQF46323.1|1835882_1836353_+	RNA polymerase sigma factor sigS	NA	A0A2H4PQT5	Staphylococcus_phage	99.4	1.0e-82
SQF46325.1|1836465_1836909_+	comK family protein	NA	NA	NA	NA	NA
SQF46327.1|1836895_1837339_-	putative staphylococcal protein	NA	A0A2H4PQT8	Staphylococcus_phage	85.0	3.0e-55
SQF46329.1|1837634_1838270_+|protease	CAAX amino terminal protease	protease	NA	NA	NA	NA
SQF46331.1|1838709_1839423_-	Transaldolase	NA	M1PR54	Cyanophage	35.3	1.2e-18
SQF46333.1|1839682_1839985_+	membrane protein	NA	NA	NA	NA	NA
SQF46335.1|1840240_1840606_+	CrcB family protein	NA	A0A2H4PQR0	Staphylococcus_phage	100.0	3.6e-59
SQF46337.1|1840602_1840956_+	CrcB family protein	NA	A0A2H4PQQ7	Staphylococcus_phage	99.1	1.0e-21
SQF46339.1|1841510_1842335_+|transposase	transposase	transposase	A0ZS58	Staphylococcus_virus	98.2	1.7e-125
SQF46340.1|1842367_1842976_+|transposase	putative transposase	transposase	A0ZS58	Staphylococcus_virus	96.0	1.3e-109
SQF46342.1|1843038_1843872_-	aldo/keto reductase family protein	NA	A0A2H4PQR8	Staphylococcus_phage	98.6	9.6e-156
SQF46344.1|1844083_1844992_-	Uncharacterised protein	NA	A0A2H4PQQ8	Staphylococcus_phage	98.7	3.2e-136
SQF46345.1|1845116_1846310_-	S-adenosylmethionine synthase	NA	A0A2H4PQS6	Staphylococcus_phage	99.7	1.9e-218
SQF46347.1|1846680_1848273_+	phosphoenolpyruvate carboxykinase	NA	A0A2H4PQN1	Staphylococcus_phage	100.0	0.0e+00
SQF46351.1|1848408_1848894_-|transposase	IS605/IS200-like transposase	transposase	A0A1P8BMC0	Lactococcus_phage	35.4	4.9e-19
SQF46354.1|1849268_1850039_-	Dipeptidyl aminopeptidase/acylaminoacyl-peptidase	NA	A0A2H4PQM6	Staphylococcus_phage	98.4	7.3e-142
SQF46357.1|1850019_1850499_-	phosphohydrolase	NA	A0A2H4PQM4	Staphylococcus_phage	98.7	1.5e-84
SQF46359.1|1850558_1850816_+	Putative cytosolic protein	NA	A0A2H4PQM5	Staphylococcus_phage	100.0	7.2e-46
SQF46361.1|1850812_1851814_-	O-succinylbenzoate synthase	NA	A0A2H4PQM0	Staphylococcus_phage	97.6	4.8e-186
SQF46364.1|1851818_1853297_-	O-succinylbenzoic acid--CoA ligase	NA	A0A2H4PQM9	Staphylococcus_phage	97.0	2.0e-281
SQF46366.1|1853455_1853938_-	putative lipoprotein	NA	A0A2H4PQN7	Staphylococcus_phage	98.6	2.5e-79
SQF46367.1|1854249_1854864_+	endonuclease	NA	A0A2H4PQM8	Staphylococcus_phage	87.3	9.5e-36
SQF46369.1|1854944_1855940_+	Telomeric repeat-binding factor 2	NA	A0A2H4PQN2	Staphylococcus_phage	96.4	7.1e-73
SQF46371.1|1856015_1856642_+	lipoprotein	NA	A0A2H4PQM7	Staphylococcus_phage	82.7	7.1e-79
SQF46373.1|1856682_1857027_+	Uncharacterised protein	NA	A0A2H4PQN6	Staphylococcus_phage	92.0	6.3e-53
SQF46375.1|1857124_1857676_+	Uncharacterised protein	NA	A0A2H4PQN4	Staphylococcus_phage	94.1	1.0e-20
SQF46378.1|1857893_1858535_-	Domain of uncharacterised function (DUF955)	NA	A0A2H4PQN8	Staphylococcus_phage	93.2	2.6e-76
SQF46380.1|1858835_1859012_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQF46382.1|1859022_1859406_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQF46384.1|1860009_1860153_-|transposase	transposase family protein, putative	transposase	A0A2H4PQU1	Staphylococcus_phage	100.0	6.4e-20
SQF46386.1|1861022_1861400_-	exported protein	NA	NA	NA	NA	NA
SQF46387.1|1861920_1866033_-	[Genomic island nu Sa beta2]	NA	A0A2H4PQT3	Staphylococcus_phage	100.0	0.0e+00
SQF46389.1|1866882_1868082_-	type I restriction-modification enzyme, S subunit, EcoA family protein	NA	A0A2H4PQP5	Staphylococcus_phage	99.7	5.5e-229
SQF46392.1|1868074_1869631_-	Type I restriction enzyme EcoprrI M protein	NA	A0A2H4PQP4	Staphylococcus_phage	99.4	2.3e-288
SQF46394.1|1869993_1870713_-|protease	Serine protease splD	protease	A0A2H4PQP1	Staphylococcus_phage	100.0	1.1e-131
SQF46396.1|1870863_1871580_-|protease	serine protease SplE	protease	A0A2H4PQN5	Staphylococcus_phage	100.0	1.1e-131
SQF46398.1|1871737_1872457_-|protease	Serine protease splD	protease	A0A2H4PQP9	Staphylococcus_phage	99.6	4.6e-130
SQF46400.1|1872577_1873297_-|protease	Serine protease splC	protease	A0A2H4PQP7	Staphylococcus_phage	99.2	1.2e-130
SQF46402.1|1873354_1874077_-|protease	Serine protease splB	protease	A0A2H4PQN0	Staphylococcus_phage	99.6	2.4e-131
SQF46404.1|1874201_1874909_-|protease	serine protease SplA	protease	A0A2H4PQN3	Staphylococcus_phage	100.0	2.6e-130
SQF46406.1|1875871_1876438_+	probable beta-lactamase	NA	A0A2H4PQH6	Staphylococcus_phage	100.0	3.3e-99
SQF46408.1|1876911_1877610_-	lantibiotic ABC transporter protein	NA	A0A2H4PQH0	Staphylococcus_phage	94.4	3.8e-113
SQF46410.1|1877606_1878368_-	lantibiotic protection ABC transporter permease subunit, MutE/EpiE family protein	NA	A0A2H4PQH2	Staphylococcus_phage	99.6	3.7e-130
SQF46412.1|1878364_1879057_-	lantibiotic immunity protein F	NA	A0A2H4PQG7	Staphylococcus_phage	100.0	6.2e-124
SQF46414.1|1879079_1880453_-|protease	epidermin leader peptide processing serine protease EpiP	protease	A0A2H4PQH1	Staphylococcus_phage	100.0	2.9e-258
SQF46416.1|1880462_1880981_-	lantibiotic modifying enzyme	NA	A0A2H4PQG9	Staphylococcus_phage	100.0	2.0e-95
SQF46418.1|1880996_1882241_-	lanthionine synthetase C-like family protein	NA	A0A2H4PQH9	Staphylococcus_phage	100.0	5.1e-238
SQF46420.1|1882233_1883976_-	Epidermin biosynthesis protein epiB	NA	A0A2H4PQG8	Staphylococcus_phage	54.1	2.5e-259
SQF46422.1|1884040_1884184_-	lantibiotic gallidermin	NA	A0A2H4PQH4	Staphylococcus_phage	80.9	5.3e-14
SQF46424.1|1885304_1886288_-	Leukotoxin LukD	NA	A0A2H4PQH7	Staphylococcus_phage	99.1	2.3e-185
SQF46426.1|1886289_1887225_-	Leukocidin S subunit lukE	NA	A0A2H4PQI5	Staphylococcus_phage	100.0	1.4e-174
SQF46428.1|1888108_1888564_+	[Genomic island nu Sa beta2]	NA	Q4ZCB9	Staphylococcus_virus	76.8	1.7e-61
SQF46430.1|1888576_1889365_+	Domain of uncharacterised function DUF1828	NA	A0A2H4PQI0	Staphylococcus_phage	95.8	5.3e-140
>prophage 9
LS483350	Staphylococcus aureus strain NCTC11940 genome assembly, chromosome: 1	2827594	1972394	2060690	2827594	terminase,protease,head,tRNA,tail,holin,capsid	Staphylococcus_phage(89.19%)	103	NA	NA
SQF46576.1|1972394_1973852_-|tRNA	aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit A	tRNA	NA	NA	NA	NA
SQF46578.1|1973853_1974156_-|tRNA	Aspartyl-tRNA(Asn) amidotransferase subunit C; Glutamyl-tRNA(Gln) amidotransferase subunit C	tRNA	NA	NA	NA	NA
SQF46580.1|1974522_1976061_+	Sodium/proline symporter	NA	NA	NA	NA	NA
SQF46582.1|1976149_1977349_-	Lipoprotein (pheromone precursor)	NA	NA	NA	NA	NA
SQF46583.1|1977361_1979365_-	DNA ligase	NA	A0A0K2QQN8	Ralstonia_phage	36.1	5.8e-114
SQF46585.1|1979368_1981561_-	ATP-dependent DNA helicase UvrD/PcrA	NA	A7KV33	Bacillus_phage	42.2	1.0e-135
SQF46587.1|1981557_1982250_-	geranylgeranylglyceryl diphosphate synthase	NA	NA	NA	NA	NA
SQF46589.1|1982421_1982724_-	His repressor	NA	NA	NA	NA	NA
SQF46591.1|1982832_1984128_-	adenylosuccinate lyase	NA	A0A1B3B081	Gordonia_phage	32.9	1.6e-16
SQF46593.1|1984988_1986155_+	Staphopain A precursor	NA	NA	NA	NA	NA
SQF46595.1|1986185_1986512_+|protease	putative cysteine protease inhibitor (Staphostatin A)	protease	NA	NA	NA	NA
SQF46597.1|1986803_1986977_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQF46599.1|1986957_1987560_-	Uncharacterized protein conserved in bacteria (DUF2179)	NA	NA	NA	NA	NA
SQF46601.1|1987830_1988652_-	NH(3)-dependent NAD(+) synthetase	NA	G3MA24	Bacillus_virus	52.7	1.8e-69
SQF46604.1|1988644_1990114_-	nicotinate phosphoribosyltransferase	NA	G3MA18	Bacillus_virus	45.1	4.5e-108
SQF46606.1|1990297_1991374_+	nitric-oxide synthase	NA	NA	NA	NA	NA
SQF46608.1|1991393_1992188_+	ACT domain protein	NA	NA	NA	NA	NA
SQF46610.1|1992377_1993940_-	sodium-dependent dicarboxylate transporter sdcS	NA	NA	NA	NA	NA
SQF46612.1|1994144_1995242_-	cell wall surface anchor family protein	NA	U5PWM6	Bacillus_phage	34.6	1.9e-47
SQF46613.1|1995613_1996174_+	Nicotinamidase	NA	G3MA16	Bacillus_virus	41.2	2.0e-32
SQF46615.1|1996226_1997156_+	inorganic pyrophosphatase	NA	NA	NA	NA	NA
SQF46617.1|1997575_1998955_+	Aldehyde dehydrogenase	NA	NA	NA	NA	NA
SQF46619.1|1999074_2000103_-	6-phosphogluconolactonase	NA	NA	NA	NA	NA
SQF46621.1|2000372_2000774_+	yolD-like family protein	NA	U3PG23	Staphylococcus_phage	42.9	6.0e-23
SQF46623.1|2001346_2001520_-	exported protein	NA	NA	NA	NA	NA
SQF46633.1|2001898_2003011_+	choloylglycine hydrolase	NA	NA	NA	NA	NA
SQF46637.1|2003067_2003910_-	exported protein	NA	NA	NA	NA	NA
SQF46639.1|2003906_2004464_-	Predicted membrane protein	NA	NA	NA	NA	NA
SQF46641.1|2004523_2005048_-	membrane protein	NA	NA	NA	NA	NA
SQF46643.1|2005168_2005732_+	Thioredoxin	NA	NA	NA	NA	NA
SQF46645.1|2005797_2006538_-	ABC-2 transporter family protein	NA	NA	NA	NA	NA
SQF46647.1|2006537_2007410_-	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	35.2	6.1e-28
SQF46649.1|2007406_2008087_-	membrane protein	NA	NA	NA	NA	NA
SQF46651.1|2008087_2008984_-	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	30.2	1.1e-16
SQF46653.1|2008980_2009361_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
SQF46656.1|2009624_2009801_-	membrane protein	NA	NA	NA	NA	NA
SQF46664.1|2010341_2011628_+	Aspartate aminotransferase	NA	NA	NA	NA	NA
SQF46676.1|2011951_2012242_-	truncated map-w protein; extracellular adherence protein of broad specificity Eap/Map	NA	NA	NA	NA	NA
SQF46684.1|2012252_2014007_-	MHC class II analog (pseudogene)	NA	NA	NA	NA	NA
SQF46690.1|2014392_2014593_+	beta-hemolysin	NA	A0A1P8L6A7	Staphylococcus_phage	100.0	3.4e-27
SQF46692.1|2015767_2016118_-	Involved in expression of fibrinogen binding protein, phage associated	NA	A7TWS0	Staphylococcus_phage	100.0	7.5e-54
SQF46694.1|2016627_2016924_-	amidase (fragment)	NA	A0A1P8L6B4	Staphylococcus_phage	98.0	9.5e-50
SQF46695.1|2017614_2018106_-	Staphylokinase	NA	A7TWR8	Staphylococcus_phage	100.0	8.0e-86
SQF46697.1|2018296_2019052_-	Autolysin	NA	D2JLG5	Staphylococcus_phage	100.0	3.4e-152
SQF46699.1|2019063_2019318_-|holin	Phage holin	holin	D2JLG4	Staphylococcus_phage	100.0	4.1e-41
SQF46701.1|2019814_2020588_-	enterotoxin P, phage associated	NA	A0A1X9H080	Staphylococcus_phage	100.0	1.1e-145
SQF46702.1|2020960_2021335_-	phage protein	NA	G4KNR3	Staphylococcus_phage	100.0	3.3e-39
SQF46704.1|2021390_2021678_-	phi PVL ORF 22-like protein	NA	A0A1X9H0N7	Staphylococcus_phage	100.0	7.6e-44
SQF46706.1|2021723_2021876_-	phage protein	NA	A0A1W6JPL6	Staphylococcus_phage	100.0	7.6e-19
SQF46708.1|2021868_2025651_-	phage minor structural, N-terminal region domain protein	NA	A0A1X9H096	Staphylococcus_phage	99.7	0.0e+00
SQF46710.1|2025666_2027151_-	bacteriophage protein	NA	A0A2I6PDJ0	Staphylococcus_phage	100.0	1.2e-297
SQF46711.1|2027147_2031677_-|tail	TP901 family phage tail tape measure protein	tail	A0A1X9H084	Staphylococcus_phage	100.0	0.0e+00
SQF46713.1|2031733_2031871_-	phage protein	NA	A0A2I6PDX7	Staphylococcus_phage	100.0	3.4e-18
SQF46715.1|2031921_2032272_-	phage protein	NA	G4KNQ8	Staphylococcus_phage	100.0	7.8e-59
SQF46717.1|2032587_2033232_-|tail	phage major tail protein	tail	W5R9H4	Staphylococcus_phage	100.0	6.5e-120
SQF46718.1|2033232_2033640_-	putative bacteriophage protein	NA	G4KNQ6	Staphylococcus_phage	100.0	7.1e-72
SQF46720.1|2033636_2034041_-	bacteriophage protein	NA	A0A2I6PDJ6	Staphylococcus_phage	100.0	4.3e-69
SQF46721.1|2034037_2034400_-|head,tail	phage head-tail adaptor	head,tail	G4KNQ4	Staphylococcus_phage	100.0	4.4e-65
SQF46724.1|2034383_2034668_-	Gp6 protein	NA	A0A2I6PDJ5	Staphylococcus_phage	100.0	2.3e-45
SQF46726.1|2034657_2034942_-|terminase	phage terminase small subunit	terminase	A0A2I6PDJ3	Staphylococcus_phage	100.0	1.8e-45
SQF46728.1|2034961_2036107_-|capsid	Phage major capsid protein	capsid	A0A1X9H072	Staphylococcus_phage	100.0	5.6e-215
SQF46730.1|2036130_2036868_-	ATP-dependent endopeptidase clp proteolytic subunit	NA	C8CH20	Staphylococcus_phage	100.0	2.3e-129
SQF46731.1|2036851_2038039_-	Portal protein, phage associated	NA	A0A2I6PDI1	Staphylococcus_phage	100.0	1.0e-219
SQF46733.1|2038054_2039716_-|terminase	Phage terminase large subunit	terminase	A0A2I6PDJ8	Staphylococcus_phage	100.0	0.0e+00
SQF46735.1|2039712_2040057_-	phage protein	NA	G4KNP9	Staphylococcus_phage	100.0	9.4e-57
SQF46737.1|2040187_2040487_-	phage-associated homing endonuclease	NA	A0EWY8	Staphylococcus_phage	100.0	4.6e-52
SQF46739.1|2040718_2041135_-	phage transcriptional regulator	NA	A0A1X9H0U8	Staphylococcus_phage	100.0	2.9e-76
SQF46741.1|2041162_2041363_-	phage protein	NA	R9QT57	Staphylococcus_phage	98.5	1.4e-28
SQF46743.1|2041362_2041512_-	transcriptional activator RinB	NA	A0A1W6JPZ2	Staphylococcus_phage	100.0	4.8e-18
SQF46745.1|2041508_2041715_-	phage protein	NA	A0A1X9H0C2	Staphylococcus_phage	100.0	1.3e-21
SQF46746.1|2041751_2042288_-	dUTPase family protein	NA	A0A1X9H0S5	Staphylococcus_phage	100.0	1.4e-96
SQF46748.1|2042280_2042691_-	putative phi PVL-like protein	NA	C8CH13	Staphylococcus_phage	100.0	2.3e-70
SQF46750.1|2042687_2043197_-	Uncharacterised protein	NA	A0A1X9H0D4	Staphylococcus_phage	100.0	3.2e-93
SQF46752.1|2043193_2043643_-	YopX-family protein	NA	A0A2I6PDH2	Staphylococcus_phage	99.3	2.1e-80
SQF46754.1|2043707_2043950_-	phage family protein	NA	A0EWX8	Staphylococcus_phage	100.0	3.9e-41
SQF46756.1|2043953_2044322_-	Phage protein	NA	W5RAK8	Staphylococcus_phage	100.0	8.2e-51
SQF46758.1|2044334_2044739_-	phage protein	NA	A0A0E3XBN4	Staphylococcus_phage	100.0	1.4e-72
SQF46760.1|2044747_2044966_-	phage protein	NA	A0A1P8L6E4	Staphylococcus_phage	100.0	1.4e-37
SQF46762.1|2044972_2045857_-	Phage protein	NA	S4V6D4	Staphylococcus_phage	95.9	3.1e-136
SQF46764.1|2045886_2046357_-	Single-stranded DNA-binding protein, phage associated	NA	A0A0E3T9H6	Staphylococcus_phage	99.4	4.8e-80
SQF46766.1|2046357_2046843_-	Metallo-beta-lactamase superfamily domain protein in prophage	NA	S4SWA4	Staphylococcus_phage	100.0	9.4e-87
SQF46768.1|2047055_2047976_-	recombinase, phage RecT family protein	NA	A0A1V0E5D7	Staphylococcus_phage	100.0	1.0e-166
SQF46770.1|2047977_2049921_-	Uncharacterized conserved protein	NA	A0A2I6PDH3	Staphylococcus_phage	99.1	0.0e+00
SQF46772.1|2049929_2050193_-	phage protein	NA	A0A2I6PDG2	Staphylococcus_phage	100.0	7.7e-43
SQF46774.1|2050201_2050462_-	putative phi PVL-like protein	NA	A0A1W6JQ03	Staphylococcus_phage	100.0	7.6e-43
SQF46776.1|2050554_2050716_-	phage protein	NA	A0A2I6PDF7	Staphylococcus_phage	100.0	1.9e-20
SQF46778.1|2050712_2051033_-	Uncharacterized protein conserved in bacteria	NA	A0A2I6PDH6	Staphylococcus_phage	100.0	1.5e-56
SQF46780.1|2051091_2051724_+	phage protein	NA	A7TW95	Staphylococcus_phage	100.0	1.5e-113
SQF46782.1|2051738_2051879_-	phage protein	NA	A0A2I6PDG0	Staphylococcus_phage	100.0	1.9e-16
SQF46783.1|2051909_2052104_-	Phage protein	NA	A0A1X9H0A2	Staphylococcus_phage	100.0	1.5e-19
SQF46785.1|2052120_2052873_-	antirepressor	NA	A0A1X9H0A0	Staphylococcus_phage	100.0	8.7e-140
SQF46787.1|2052929_2053469_+	putative phi PVL-like protein	NA	A7TW92	Staphylococcus_phage	100.0	1.7e-97
SQF46789.1|2053492_2053753_-	putative phi PVL-like protein	NA	A7TW91	Staphylococcus_phage	100.0	2.7e-40
SQF46791.1|2053765_2054005_-	putative plasmid copy control protein	NA	G4KNM9	Staphylococcus_phage	100.0	2.3e-38
SQF46793.1|2054175_2054883_+	phage transcriptional regulator	NA	G4KNM8	Staphylococcus_phage	100.0	7.7e-130
SQF46794.1|2054894_2055050_+	phage protein	NA	A0A2I6PDR9	Staphylococcus_phage	100.0	6.3e-21
SQF46796.1|2055036_2055222_+	phage protein	NA	A0A2I6PDS4	Staphylococcus_phage	100.0	2.3e-25
SQF46797.1|2055421_2055589_+	Putative cytosolic protein	NA	Q4ZDJ4	Staphylococcus_virus	100.0	1.7e-24
SQF46799.1|2055728_2056268_+	PemK-like growth inhibitor protein	NA	U5U4R0	Staphylococcus_phage	33.1	9.0e-14
SQF46801.1|2056440_2057478_+	DNA integration/recombination/inversion protein	NA	A0A1X9H022	Staphylococcus_phage	100.0	2.6e-179
SQF46803.1|2057534_2058359_+	phospholipase C	NA	A0A1P8L6H7	Staphylococcus_phage	100.0	6.8e-162
SQF46805.1|2058596_2059613_-	gamma-hemolysin component B	NA	A0A2I6PER8	Staphylococcus_phage	29.0	1.1e-25
SQF46807.1|2059634_2060690_-	Leukocidin S subunit	NA	A0A1X9IGW5	Staphylococcus_phage	34.3	2.8e-35
>prophage 10
LS483350	Staphylococcus aureus strain NCTC11940 genome assembly, chromosome: 1	2827594	2199445	2271291	2827594	transposase	Staphylococcus_phage(30.77%)	54	NA	NA
SQF47028.1|2199445_2200618_-|transposase	IS256-like transposase	transposase	A0A0N9STL0	Staphylococcus_phage	100.0	3.5e-135
SQF47029.1|2200714_2200990_-	SAP domain-containing protein	NA	NA	NA	NA	NA
SQF47030.1|2202075_2202933_-	Putative cytosolic protein	NA	NA	NA	NA	NA
SQF47031.1|2203000_2203783_-	ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	29.5	9.7e-09
SQF47032.1|2204014_2205820_-	glucosamine--fructose-6-phosphate aminotransferase	NA	M1H1Z3	Paramecium_bursaria_Chlorella_virus	38.6	2.0e-97
SQF47033.1|2206500_2208039_+	PTS system, mannitol specific IIBC component	NA	NA	NA	NA	NA
SQF47034.1|2208073_2210206_+	PTS system mannitol (Cryptic)-specific transporter subunit IIA	NA	NA	NA	NA	NA
SQF47035.1|2210217_2210652_+	PTS system mannitol-specific transporter subunit IIA	NA	NA	NA	NA	NA
SQF47036.1|2210651_2211758_+	Mannitol-1-phosphate 5-dehydrogenase	NA	NA	NA	NA	NA
SQF47037.1|2212076_2219513_-	FmtB protein	NA	A0A2H4PQU6	Staphylococcus_phage	23.5	3.4e-18
SQF47038.1|2219789_2221145_-	Phosphoglucosamine mutase / FemD, factor involved in methicillin resistance	NA	NA	NA	NA	NA
SQF47039.1|2221171_2222104_-	ybbR-like family protein	NA	NA	NA	NA	NA
SQF47040.1|2222105_2222915_-	ABC transporter, permease protein YbbP clustered with maltose/maltodextrin transporter / Tlr1762 protein	NA	NA	NA	NA	NA
SQF47041.1|2223103_2224012_-	Arginase	NA	A0A1V0SJM8	Klosneuvirus	32.0	3.2e-27
SQF47042.1|2224237_2225440_+|transposase	IS1181 transposase	transposase	NA	NA	NA	NA
SQF47043.1|2231850_2232915_-	Iron-sulfur cluster assembly/repair protein ApbC	NA	NA	NA	NA	NA
SQF47044.1|2233062_2233584_-	Similar to multidrug resistance protein	NA	NA	NA	NA	NA
SQF47045.1|2233568_2234492_-	multidrug resistance transporter	NA	NA	NA	NA	NA
SQF47046.1|2234813_2235281_-	SmrB	NA	NA	NA	NA	NA
SQF47047.1|2235385_2236729_-	Multidrug resistance protein B	NA	NA	NA	NA	NA
SQF47048.1|2236905_2237592_-	hemolysin III-like protein	NA	NA	NA	NA	NA
SQF47049.1|2237607_2238795_-	N-acetylglucosamine-1-phosphate uridyltransferase eukaryotic	NA	NA	NA	NA	NA
SQF47050.1|2238838_2239354_-	membrane-bound metal-dependent hydrolase	NA	NA	NA	NA	NA
SQF47051.1|2239530_2239791_+	Putative cytosolic protein	NA	NA	NA	NA	NA
SQF47052.1|2239922_2241293_-	nucleoside recognition domain-containing protein	NA	NA	NA	NA	NA
SQF47054.1|2241528_2242497_-	Heme ABC type transporter HtsABC, permease protein HtsC	NA	A0A2H4IY97	uncultured_Caudovirales_phage	28.8	1.3e-15
SQF47056.1|2242493_2243525_-	Heme ABC type transporter HtsABC, permease protein HtsB	NA	NA	NA	NA	NA
SQF47058.1|2243536_2244520_-	iron(III) dicitrate-binding protein	NA	NA	NA	NA	NA
SQF47060.1|2244911_2245982_-	alanine racemase	NA	NA	NA	NA	NA
SQF47062.1|2245988_2247746_-	Siderophore biosynthesis protein	NA	NA	NA	NA	NA
SQF47064.1|2247732_2248926_-	Macrolide-efflux protein	NA	NA	NA	NA	NA
SQF47066.1|2249027_2251004_+	Siderophore biosynthesis protein	NA	NA	NA	NA	NA
SQF47068.1|2251459_2252260_+|transposase	transposase	transposase	A0ZS58	Staphylococcus_virus	92.6	2.3e-114
SQF47070.1|2252277_2252577_+|transposase	truncated transposase for IS1272	transposase	A0A146ICT8	Staphylococcus_phage	100.0	1.0e-51
SQF47072.1|2252739_2253084_+|transposase	transposase	transposase	Q9MBP7	Staphylococcus_prophage	94.7	2.5e-54
SQF47074.1|2253119_2253629_-	alkaline shock protein 23	NA	NA	NA	NA	NA
SQF47076.1|2253691_2253931_-	small integral membrane protein-protein	NA	NA	NA	NA	NA
SQF47078.1|2253943_2254480_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQF47080.1|2254654_2256217_-	Glycine betaine transporter OpuD	NA	A0A2I7QNT1	Vibrio_phage	25.0	5.4e-19
SQF47082.1|2256523_2257525_-	Bifunctional protein: zinc-containing alcohol dehydrogenase; quinone oxidoreductase (NADPH:quinone reductase)	NA	NA	NA	NA	NA
SQF47084.1|2257758_2258763_-	Quinone oxidoreductase	NA	NA	NA	NA	NA
SQF47086.1|2259042_2259912_-	alpha/beta hydrolase	NA	NA	NA	NA	NA
SQF47088.1|2260177_2261590_-	6-phospho-beta-galactosidase	NA	A0A0B5JD41	Pandoravirus	28.9	5.0e-48
SQF47090.1|2261607_2263320_-	PTS system, lactose-specific IIBC component	NA	NA	NA	NA	NA
SQF47092.1|2263325_2263637_-	PTS system lactose-specific transporter subunit IIA	NA	NA	NA	NA	NA
SQF47094.1|2263658_2264639_-	Tagatose 1,6-diphosphate aldolase	NA	NA	NA	NA	NA
SQF47095.1|2264642_2265575_-	Tagatose-6-phosphate kinase / 1-phosphofructokinase	NA	NA	NA	NA	NA
SQF47097.1|2265587_2266103_-	Galactose-6-phosphate isomerase, LacB subunit	NA	NA	NA	NA	NA
SQF47099.1|2266118_2266547_-	Galactose-6-phosphate isomerase, LacA subunit	NA	NA	NA	NA	NA
SQF47101.1|2266914_2267670_-	lactose phosphotransferase system repressor	NA	NA	NA	NA	NA
SQF47103.1|2267911_2268652_+	SIR2 family protein	NA	A0A2I2L319	Orpheovirus	29.4	7.3e-14
SQF47105.1|2268942_2269551_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQF47107.1|2269812_2269938_-	Doubtful CDS. No database matches	NA	NA	NA	NA	NA
SQF47109.1|2270118_2271291_+|transposase	IS256-like transposase	transposase	A0A0N9STL0	Staphylococcus_phage	100.0	3.5e-135
>prophage 11
LS483350	Staphylococcus aureus strain NCTC11940 genome assembly, chromosome: 1	2827594	2658490	2708247	2827594	lysis,transposase,holin,integrase	Staphylococcus_phage(22.22%)	49	2657172:2657188	2673298:2673314
2657172:2657188	attL	CATTATCATTTTCAACT	NA	NA	NA	NA
SQF47578.1|2658490_2658859_-|transposase	putative transposase	transposase	Q9MBM9	Staphylococcus_prophage	46.6	9.2e-18
SQF47579.1|2659142_2659958_-	putative ATP-binding protein	NA	NA	NA	NA	NA
SQF47580.1|2659950_2661393_-|integrase	integrase core domain-containing protein	integrase	NA	NA	NA	NA
SQF47581.1|2661364_2661958_-	DNA-invertase hin	NA	A0A0A7NPV4	Enterobacteria_phage	51.1	1.1e-41
SQF47582.1|2662219_2662600_-	penicillinase repressor	NA	NA	NA	NA	NA
SQF47583.1|2662589_2664347_-	regulatory protein BlaR1	NA	NA	NA	NA	NA
SQF47584.1|2664453_2665299_+	beta-lactamase	NA	A0A1B0VBP7	Salmonella_phage	34.0	1.5e-31
SQF47585.1|2665571_2666087_-|transposase	putative transposase	transposase	NA	NA	NA	NA
SQF47586.1|2666195_2666552_-	lipoprotein	NA	NA	NA	NA	NA
SQF47587.1|2666607_2667198_-	transposon-related protein	NA	NA	NA	NA	NA
SQF47588.1|2667204_2668251_-|lysis	putative cell wall lysis protein	lysis	A0A1X9I9L1	Staphylococcus_phage	36.9	8.1e-19
SQF47589.1|2668240_2670088_-	putative mating channel protein	NA	NA	NA	NA	NA
SQF47590.1|2670092_2671451_-	putative coupling protein	NA	A0A1S5SFB5	Streptococcus_phage	29.9	1.5e-41
SQF47591.1|2671504_2674000_-	NTPase	NA	NA	NA	NA	NA
2673298:2673314	attR	CATTATCATTTTCAACT	NA	NA	NA	NA
SQF47592.1|2674034_2674418_-	transposon-related protein	NA	NA	NA	NA	NA
SQF47593.1|2674429_2674690_-	transposon-related protein	NA	NA	NA	NA	NA
SQF47594.1|2674694_2675750_-	transposon-related protein	NA	NA	NA	NA	NA
SQF47595.1|2675810_2676902_-	RstA	NA	NA	NA	NA	NA
SQF47596.1|2677076_2677379_-	transposon-related protein	NA	NA	NA	NA	NA
SQF47597.1|2677392_2677713_-	transposon-related protein	NA	NA	NA	NA	NA
SQF47598.1|2677863_2678148_-	transposon-related protein	NA	NA	NA	NA	NA
SQF47599.1|2678361_2678658_-	Putative EsaC protein analog (Listeria type 3)	NA	NA	NA	NA	NA
SQF47600.1|2678645_2678984_-	Uncharacterised protein	NA	NA	NA	NA	NA
SQF47601.1|2679028_2679307_-	type VII secretion effector	NA	NA	NA	NA	NA
SQF47602.1|2679643_2680510_-	fructosamine kinase family protein	NA	NA	NA	NA	NA
SQF47603.1|2680727_2681792_+	Dihydroorotate dehydrogenase	NA	NA	NA	NA	NA
SQF47604.1|2681946_2682222_+	membrane protein	NA	NA	NA	NA	NA
SQF47605.1|2682407_2683130_-	adenine nucleotide alpha hydrolases superfamily protein	NA	NA	NA	NA	NA
SQF47606.1|2683485_2683935_+	Phnb	NA	NA	NA	NA	NA
SQF47607.1|2684015_2684603_-	TetR family regulatory protein	NA	NA	NA	NA	NA
SQF47608.1|2684745_2686428_+	X-Pro dipeptidyl-peptidase (S15) family protein	NA	NA	NA	NA	NA
SQF47609.1|2686556_2686940_-	aspartate 1-decarboxylase	NA	NA	NA	NA	NA
SQF47610.1|2686941_2687793_-	Pantoate--beta-alanine ligase	NA	NA	NA	NA	NA
SQF47611.1|2687785_2688604_-	3-methyl-2-oxobutanoate hydroxymethyltransferase	NA	NA	NA	NA	NA
SQF47612.1|2688676_2689537_+	2-dehydropantoate 2-reductase	NA	NA	NA	NA	NA
SQF47613.1|2689622_2690327_-	Alpha-acetolactate decarboxylase	NA	NA	NA	NA	NA
SQF47614.1|2690604_2691564_-	L-lactate dehydrogenase	NA	NA	NA	NA	NA
SQF47615.1|2692249_2693698_+	amino acid permease	NA	NA	NA	NA	NA
SQF47616.1|2693777_2695115_-	4-aminobutyrate aminotransferase	NA	A0A1V0SKB7	Klosneuvirus	26.7	6.7e-18
SQF47617.1|2695368_2695785_+	Uncharacterised protein	NA	NA	NA	NA	NA
SQF47618.1|2695907_2696798_+	fructose-bisphosphate aldolase	NA	A0A0K0KVJ8	Prochlorococcus_phage	29.2	1.2e-07
SQF47619.1|2696990_2698487_-	malate:quinone oxidoreductase 2	NA	NA	NA	NA	NA
SQF47620.1|2699173_2700793_-	Acyl-coenzyme A synthetase/AMP-(fatty) acid ligase	NA	A0A2H4PQU7	Staphylococcus_phage	36.8	5.4e-78
SQF47621.1|2700965_2701409_-	antibiotic biosynthesis monooxygenase	NA	NA	NA	NA	NA
SQF47622.1|2701688_2701901_-	Putative cytosolic protein	NA	NA	NA	NA	NA
SQF47623.1|2702178_2703888_-|holin	choline dehydrogenase	holin	A0A1V0SI18	Klosneuvirus	32.3	3.8e-58
SQF47624.1|2704148_2705639_-	Betaine aldehyde dehydrogenase	NA	NA	NA	NA	NA
SQF47625.1|2705891_2706455_+	ArsR family transcriptional regulator	NA	NA	NA	NA	NA
SQF47626.1|2706624_2708247_-|holin	High-affinity choline uptake protein BetT	holin	NA	NA	NA	NA
