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_CP038995	Enterococcus faecium strain ZY11 chromosome, complete genome	2736390	190962	248832	2736390	tRNA,transposase	Streptococcus_phage(25.0%)	50	NA	NA
WP_002287522.1|190962_191367_+|transposase	IS200/IS605-like element ISEfa4 family transposase	transposase	A0A286QN76	Streptococcus_phage	73.8	1.3e-52
WP_002287525.1|191383_192532_+|transposase	IS200/IS605 family element transposase accessory protein TnpB	transposase	A0A288TXV8	Enterococcus_phage	93.4	1.2e-204
WP_002296565.1|193482_194514_+|tRNA	tRNA preQ1(34) S-adenosylmethionine ribosyltransferase-isomerase QueA	tRNA	NA	NA	NA	NA
WP_002289743.1|195132_197772_+	cation-translocating P-type ATPase	NA	A0A1J0FA34	Only_Syngen_Nebraska_virus	31.2	1.6e-84
WP_002296566.1|197939_198638_-	DUF975 family protein	NA	NA	NA	NA	NA
WP_002294183.1|198855_200001_+|tRNA	tRNA guanosine(34) transglycosylase Tgt	tRNA	A0A1B1IVQ4	uncultured_Mediterranean_phage	40.9	2.5e-82
WP_002294182.1|200097_200478_+	preprotein translocase subunit YajC	NA	NA	NA	NA	NA
WP_002296567.1|200782_203380_+	bifunctional acetaldehyde-CoA/alcohol dehydrogenase	NA	NA	NA	NA	NA
WP_002288261.1|203608_204715_+	glycosyl hydrolase	NA	NA	NA	NA	NA
WP_002288258.1|205761_206241_+	TRAP transporter small permease	NA	NA	NA	NA	NA
WP_002294167.1|207342_208146_+	gluconate 5-dehydrogenase	NA	NA	NA	NA	NA
WP_002300048.1|208394_209459_-	type 2 isopentenyl-diphosphate Delta-isomerase	NA	NA	NA	NA	NA
WP_002288233.1|209455_210541_-	phosphomevalonate kinase	NA	NA	NA	NA	NA
WP_002300050.1|210553_211531_-	diphosphomevalonate decarboxylase	NA	NA	NA	NA	NA
WP_002288231.1|211523_212468_-	mevalonate kinase	NA	NA	NA	NA	NA
WP_002317563.1|212788_213442_+	deoxynucleoside kinase	NA	C1KFI3	Lactobacillus_virus	52.3	1.1e-58
WP_002294163.1|213526_214432_+	magnesium transporter CorA family protein	NA	NA	NA	NA	NA
WP_002300053.1|214433_215066_-	pentapeptide repeat-containing protein	NA	NA	NA	NA	NA
WP_002293357.1|215385_215910_+	translation initiation factor IF-3	NA	A0A2L0UZ54	Agrobacterium_phage	33.3	1.4e-14
WP_002289309.1|215981_216182_+	50S ribosomal protein L35	NA	NA	NA	NA	NA
WP_002289310.1|216234_216594_+	50S ribosomal protein L20	NA	NA	NA	NA	NA
WP_077149134.1|216945_218184_+	citrate transporter	NA	NA	NA	NA	NA
WP_002298295.1|218231_220361_+	hydantoinase	NA	NA	NA	NA	NA
WP_077149132.1|220335_221025_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002289316.1|221432_222119_-	GntR family transcriptional regulator	NA	NA	NA	NA	NA
WP_002301667.1|222498_222939_-	acyl-CoA thioesterase	NA	NA	NA	NA	NA
WP_002301666.1|222942_223788_-	NAD(P)H-hydrate dehydratase	NA	NA	NA	NA	NA
WP_002294157.1|223936_225355_+	dipeptidase PepV	NA	NA	NA	NA	NA
WP_002299302.1|225430_226633_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002299301.1|226619_228407_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002299300.1|228419_229373_-	glycosyltransferase	NA	NA	NA	NA	NA
WP_002289862.1|229557_229908_-	peptidase	NA	NA	NA	NA	NA
WP_002294156.1|230107_231187_+	glutamyl aminopeptidase	NA	NA	NA	NA	NA
WP_077149131.1|231329_231650_+	thioredoxin family protein	NA	NA	NA	NA	NA
WP_002292633.1|231671_232136_+	universal stress protein	NA	NA	NA	NA	NA
WP_002294153.1|232342_232948_+	DUF4479 domain-containing protein	NA	NA	NA	NA	NA
WP_002319485.1|232986_234276_-	PDZ domain-containing protein	NA	A0A1B1IT49	uncultured_Mediterranean_phage	30.2	5.7e-22
WP_002287841.1|234704_235184_+	23S rRNA (pseudouridine(1915)-N(3))-methyltransferase RlmH	NA	NA	NA	NA	NA
WP_002287760.1|235309_236263_+|transposase	IS30 family transposase	transposase	NA	NA	NA	NA
WP_010725931.1|236430_238374_+	PRD domain-containing protein	NA	NA	NA	NA	NA
WP_010720675.1|238375_238837_+	PTS sugar transporter subunit IIA	NA	NA	NA	NA	NA
WP_010725932.1|238860_240207_+	PTS galactitol IIC component	NA	NA	NA	NA	NA
WP_010720673.1|240229_240514_+	PTS sugar transporter subunit IIB	NA	NA	NA	NA	NA
WP_010725933.1|240540_241368_+	class II fructose-bisphosphate aldolase	NA	NA	NA	NA	NA
WP_010725934.1|241380_242076_+	triose-phosphate isomerase	NA	NA	NA	NA	NA
WP_010725935.1|242072_242588_+	YjbQ family protein	NA	NA	NA	NA	NA
WP_002287760.1|243990_244944_-|transposase	IS30 family transposase	transposase	NA	NA	NA	NA
WP_002313998.1|245659_246829_+|transposase	IS256 family transposase	transposase	NA	NA	NA	NA
WP_043902408.1|247133_247826_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001015311.1|248151_248832_-|transposase	IS6-like element IS1216 family transposase	transposase	A0A1X9I6C6	Streptococcus_phage	99.6	1.5e-127
>prophage 2
NZ_CP038995	Enterococcus faecium strain ZY11 chromosome, complete genome	2736390	718025	726497	2736390		Streptococcus_phage(66.67%)	9	NA	NA
WP_002294039.1|718025_718670_+	dTMP kinase	NA	M1PSC7	Streptococcus_phage	52.6	4.2e-58
WP_002292340.1|718684_719014_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002288071.1|719027_719966_+	DNA polymerase III subunit delta'	NA	M1NSC1	Streptococcus_phage	34.4	3.3e-35
WP_002288073.1|720001_720826_+	stage 0 sporulation family protein	NA	NA	NA	NA	NA
WP_002288076.1|720818_721166_+	DNA replication initiation control protein YabA	NA	M1PFV3	Streptococcus_phage	41.1	5.1e-18
WP_002288078.1|721234_722107_+	16S rRNA (cytidine(1402)-2'-O)-methyltransferase	NA	M1PLC5	Streptococcus_phage	60.4	3.1e-88
WP_002294035.1|722215_723337_+	DNA polymerase IV	NA	NA	NA	NA	NA
WP_002288081.1|723390_723993_-	anaerobic ribonucleoside-triphosphate reductase activating protein	NA	A0A288TZV3	Enterococcus_phage	58.6	1.7e-53
WP_002288083.1|724307_726497_-	anaerobic ribonucleoside-triphosphate reductase	NA	A0A0C5KKX3	Enterococcus_phage	66.6	1.8e-286
>prophage 3
NZ_CP038995	Enterococcus faecium strain ZY11 chromosome, complete genome	2736390	781029	881194	2736390	capsid,protease,portal,terminase,head,tRNA,transposase,integrase,holin,tail	Enterococcus_phage(25.53%)	106	836673:836688	840024:840039
WP_002296621.1|781029_783828_+|tRNA	isoleucine--tRNA ligase	tRNA	A0A2H4UVG0	Bodo_saltans_virus	26.4	2.1e-74
WP_002286618.1|783876_785403_-	glucose-6-phosphate dehydrogenase	NA	H6WFS4	Cyanophage	35.3	8.9e-75
WP_002286616.1|785417_786065_-	metal-dependent transcriptional regulator	NA	NA	NA	NA	NA
WP_002286678.1|786248_786578_-	DUF4828 domain-containing protein	NA	NA	NA	NA	NA
WP_002286614.1|786754_787483_+	DNA/RNA nuclease SfsA	NA	NA	NA	NA	NA
WP_002286612.1|787498_788512_+	Gfo/Idh/MocA family oxidoreductase	NA	NA	NA	NA	NA
WP_002286608.1|788511_789789_+	DEAD/DEAH box helicase	NA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	28.8	5.8e-35
WP_156243619.1|789851_792554_+	PRD domain-containing protein	NA	NA	NA	NA	NA
WP_002286606.1|792705_793023_+	PTS sugar transporter subunit IIB	NA	NA	NA	NA	NA
WP_002286604.1|793052_793373_+	PTS lactose/cellobiose transporter subunit IIA	NA	NA	NA	NA	NA
WP_002286601.1|793480_794941_+	PTS sugar transporter subunit IIC	NA	NA	NA	NA	NA
WP_002286598.1|795008_795230_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002286596.1|795260_795443_+	DUF3188 domain-containing protein	NA	NA	NA	NA	NA
WP_002286592.1|795442_795856_+	DUF3284 domain-containing protein	NA	NA	NA	NA	NA
WP_002286589.1|795978_797160_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
WP_156243657.1|797690_798830_-|integrase	tyrosine-type recombinase/integrase	integrase	Q9AZR0	Lactococcus_phage	46.8	9.9e-95
WP_045136055.1|798945_799581_-	DUF4352 domain-containing protein	NA	A0A2H4PQN2	Staphylococcus_phage	52.6	5.1e-32
WP_010729101.1|799663_800086_-	ImmA/IrrE family metallo-endopeptidase	NA	NA	NA	NA	NA
WP_074400050.1|800103_800424_-	helix-turn-helix transcriptional regulator	NA	A0A1B0Y3N1	Lactobacillus_phage	35.1	6.5e-12
WP_002290310.1|800724_801501_+	phage antirepressor protein	NA	A0A1Q1PVU2	Staphylococcus_phage	53.8	1.1e-73
WP_002296611.1|801515_801719_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA	NA
WP_045136054.1|801734_802073_+	DUF771 domain-containing protein	NA	NA	NA	NA	NA
WP_002315384.1|802327_802993_-	hypothetical protein	NA	NA	NA	NA	NA
WP_126145187.1|803047_803746_+	phage regulatory protein	NA	D2IYT0	Enterococcus_phage	34.6	1.3e-25
WP_074394502.1|804258_804930_+	DUF1071 domain-containing protein	NA	A0A1B1P7F0	Bacillus_phage	47.8	5.5e-29
WP_002335419.1|804935_805622_+	hypothetical protein	NA	C9E2N1	Enterococcus_phage	69.5	1.1e-88
WP_002369531.1|805628_806480_+	replication protein	NA	A0A1S5SFJ6	Streptococcus_phage	66.4	2.7e-49
WP_002343405.1|806491_806761_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002286695.1|806922_807225_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002296606.1|807221_807383_+	antitoxin	NA	NA	NA	NA	NA
WP_002286694.1|807379_807685_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002286550.1|807684_808041_+	DUF1140 family protein	NA	A0A2H4JAZ4	uncultured_Caudovirales_phage	37.4	3.1e-10
WP_002296604.1|808000_808246_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002286547.1|808242_808662_+	hypothetical protein	NA	D2IZL0	Enterococcus_phage	54.3	4.1e-30
WP_002286545.1|808658_809216_+	DUF1642 domain-containing protein	NA	A0A0C5KKV2	Enterococcus_phage	36.2	2.8e-10
WP_002286693.1|809212_809509_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002286542.1|809585_809999_+	autolysin	NA	C9E2P5	Enterococcus_phage	81.0	1.5e-56
WP_002300143.1|810456_810732_-	hypothetical protein	NA	A0A2H4JEH2	uncultured_Caudovirales_phage	45.7	9.9e-17
WP_002311723.1|811185_811392_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002296600.1|811587_811755_+	thymidylate synthase	NA	NA	NA	NA	NA
WP_002286540.1|811780_812125_+	HNH endonuclease	NA	A0A1B1P757	Bacillus_phage	57.1	3.8e-26
WP_002296599.1|812129_812411_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002286538.1|812513_812828_+|terminase	terminase	terminase	A0A1S7FYW6	Listeria_phage	37.9	3.3e-08
WP_002286533.1|812805_814500_+|terminase	terminase large subunit	terminase	A0A1B1P766	Bacillus_phage	49.6	3.0e-148
WP_002286530.1|814519_815698_+|portal	phage portal protein	portal	A0A1B1P754	Bacillus_phage	40.4	5.4e-80
WP_002286527.1|815660_816347_+|protease	Clp protease ClpP	protease	A0A2I6PDD0	Staphylococcus_phage	39.7	1.0e-30
WP_002286525.1|816346_817507_+|capsid	phage major capsid protein	capsid	A0A1B1P752	Bacillus_phage	50.1	1.8e-99
WP_002286523.1|818387_818699_+	hypothetical protein	NA	A0A1B1P751	Bacillus_phage	42.1	6.3e-12
WP_002286522.1|818688_819042_+|head	phage head closure protein	head	NA	NA	NA	NA
WP_161571194.1|819031_819244_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002287522.1|819329_819734_+|transposase	IS200/IS605-like element ISEfa4 family transposase	transposase	A0A286QN76	Streptococcus_phage	73.8	1.3e-52
WP_002287525.1|819750_820899_+|transposase	IS200/IS605 family element transposase accessory protein TnpB	transposase	A0A288TXV8	Enterococcus_phage	93.4	1.2e-204
WP_002286516.1|821316_821721_+	hypothetical protein	NA	R4IBU7	Listeria_phage	29.5	6.1e-07
WP_002286512.1|821732_822341_+	hypothetical protein	NA	Q8W5Z9	Listeria_phage	41.1	3.0e-34
WP_002286510.1|822360_822723_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002305377.1|822725_822908_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002286502.1|822924_826356_+|tail	phage tail tape measure protein	tail	A0A1D3SNL5	Enterococcus_phage	44.4	3.1e-67
WP_002286500.1|826406_827144_+|tail	phage tail protein	tail	NA	NA	NA	NA
WP_061099921.1|827153_829445_+	hypothetical protein	NA	A0A1D3SNL1	Enterococcus_phage	30.1	4.3e-89
WP_156243569.1|829468_831688_+	hypothetical protein	NA	A0A0M4RT83	Enterococcus_phage	38.7	2.5e-62
WP_002299182.1|831765_832008_+|holin	holin	holin	D2J075	Enterococcus_phage	68.4	9.6e-24
WP_002334690.1|832023_832221_+|holin	holin	holin	A0A0S2MYF6	Enterococcus_phage	82.8	8.6e-23
WP_099124554.1|832231_833251_+	N-acetylmuramoyl-L-alanine amidase	NA	A0A1G5SA77	Enterococcus_phage	66.1	7.1e-60
WP_087046766.1|834190_835352_+|transposase	IS3 family transposase	transposase	A0A2I7SC85	Paenibacillus_phage	54.2	4.1e-80
WP_002286474.1|836275_836683_+	hypothetical protein	NA	NA	NA	NA	NA
836673:836688	attL	AAAAAAATTAAGGAGA	NA	NA	NA	NA
WP_002296902.1|836696_837098_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002286473.1|837099_837471_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002286680.1|837506_837809_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002286470.1|838057_838258_-|integrase	tyrosine-type recombinase/integrase	integrase	Q9AZR0	Lactococcus_phage	75.7	4.6e-08
WP_002286469.1|838562_839795_-	aminopeptidase	NA	NA	NA	NA	NA
WP_002286467.1|840048_840618_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA	NA
840024:840039	attR	AAAAAAATTAAGGAGA	NA	NA	NA	NA
WP_002286465.1|840795_841236_-	flavodoxin	NA	NA	NA	NA	NA
WP_002294533.1|841393_842158_+	type I methionyl aminopeptidase	NA	NA	NA	NA	NA
WP_002286461.1|842189_843113_+	YihY/virulence factor BrkB family protein	NA	NA	NA	NA	NA
WP_002286457.1|843188_844328_+	undecaprenyl/decaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase	NA	NA	NA	NA	NA
WP_002286455.1|844320_845121_+	glycosyltransferase	NA	NA	NA	NA	NA
WP_151669164.1|845120_845948_+	glycosyltransferase	NA	NA	NA	NA	NA
WP_002321540.1|845925_846660_+	glycosyltransferase family 2 protein	NA	NA	NA	NA	NA
WP_002286449.1|846759_847626_+	glucose-1-phosphate thymidylyltransferase RfbA	NA	I7I009	Enterobacteria_phage	62.5	3.7e-102
WP_002286442.1|847639_848212_+	dTDP-4-dehydrorhamnose 3,5-epimerase	NA	A0A291LA62	Escherichia_phage	49.2	8.3e-42
WP_002296544.1|848233_849262_+	dTDP-glucose 4,6-dehydratase	NA	A0A1D7XFE8	Escherichia_phage	43.2	2.2e-69
WP_002294531.1|849359_850211_+	dTDP-4-dehydrorhamnose reductase	NA	A0A291LA50	Escherichia_phage	39.0	1.3e-38
WP_002296543.1|850245_852279_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002296542.1|852322_853603_+	EpaQ family protein	NA	NA	NA	NA	NA
WP_002297185.1|853699_854995_-|transposase	ISL3-like element ISEfa5 family transposase	transposase	A0A2D1GQC1	Lysinibacillus_phage	21.4	3.8e-10
WP_002289081.1|855334_856141_+	ABC transporter permease	NA	NA	NA	NA	NA
WP_002296541.1|856152_857373_+	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	26.4	3.3e-11
WP_002296539.1|857362_858949_+	class I SAM-dependent methyltransferase	NA	NA	NA	NA	NA
WP_002296538.1|858987_861126_+	glycosyltransferase family 2 protein	NA	NA	NA	NA	NA
WP_002297271.1|861193_862153_-|transposase	IS30-like element IS6770 family transposase	transposase	NA	NA	NA	NA
WP_044383074.1|862487_863879_+	sugar transferase	NA	NA	NA	NA	NA
WP_002315330.1|863916_864747_+	glycosyltransferase	NA	NA	NA	NA	NA
WP_044383076.1|864718_865708_+	glycosyltransferase family 2 protein	NA	A0A1V0SAH6	Catovirus	33.6	5.9e-11
WP_065305737.1|865770_866943_-|transposase	IS256 family transposase	transposase	A0A0N9STL0	Staphylococcus_phage	88.8	1.7e-121
WP_002315328.1|867153_868149_+	glycosyltransferase family 2 protein	NA	NA	NA	NA	NA
WP_002335549.1|868152_869295_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002335550.1|869291_870719_+	oligosaccharide flippase family protein	NA	NA	NA	NA	NA
WP_044383080.1|871359_872100_-	ATP-binding protein	NA	A0A059NT77	Lactococcus_phage	49.4	1.1e-59
WP_049143580.1|872089_873328_-|transposase	IS21 family transposase	transposase	A0A059NT83	Lactococcus_phage	52.2	1.8e-110
WP_002315323.1|874417_874828_-	glycerol-3-phosphate cytidylyltransferase	NA	A0A1V0SGE7	Hokovirus	40.7	4.1e-19
WP_002325481.1|874953_876345_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002335553.1|876478_877423_+	NAD-dependent epimerase/dehydratase family protein	NA	A0A1V0SKV4	Klosneuvirus	37.8	7.3e-51
WP_002285758.1|877648_877843_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002287659.1|877832_878186_+	IS66 family insertion sequence element accessory protein TnpB	NA	NA	NA	NA	NA
WP_002301317.1|878287_879835_+|transposase	IS66 family transposase	transposase	NA	NA	NA	NA
WP_000997695.1|880015_881194_-|transposase	IS256-like element ISEf1 family transposase	transposase	NA	NA	NA	NA
>prophage 4
NZ_CP038995	Enterococcus faecium strain ZY11 chromosome, complete genome	2736390	941282	1010740	2736390	tRNA,transposase	Lysinibacillus_phage(15.38%)	53	NA	NA
WP_002287651.1|941282_943223_+|tRNA	threonine--tRNA ligase	tRNA	A0A2K9L6B6	Tupanvirus	35.2	3.3e-114
WP_002287653.1|943446_944295_+	MurR/RpiR family transcriptional regulator	NA	NA	NA	NA	NA
WP_002302928.1|944689_946843_+	penicillin-binding protein 2	NA	NA	NA	NA	NA
WP_002296740.1|947028_947838_-	Cof-type HAD-IIB family hydrolase	NA	NA	NA	NA	NA
WP_002295362.1|948130_949567_+	NCS2 family permease	NA	A0A0R6PHV4	Moraxella_phage	29.0	3.8e-43
WP_002290958.1|949736_950933_+	multidrug efflux MFS transporter	NA	NA	NA	NA	NA
WP_002295359.1|950994_951180_-	YjzD family protein	NA	NA	NA	NA	NA
WP_002303521.1|951410_954725_+	DNA polymerase III subunit alpha	NA	R4TB75	Streptomyces_phage	33.0	1.8e-149
WP_002304759.1|954892_955855_+	6-phosphofructokinase	NA	NA	NA	NA	NA
WP_002295355.1|955928_957713_+	pyruvate kinase	NA	NA	NA	NA	NA
WP_002295354.1|957747_958650_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
WP_002295352.1|958835_959405_+	DUF177 domain-containing protein	NA	NA	NA	NA	NA
WP_002290970.1|959462_959642_+	50S ribosomal protein L32	NA	NA	NA	NA	NA
WP_002297185.1|959811_961107_-|transposase	ISL3-like element ISEfa5 family transposase	transposase	A0A2D1GQC1	Lysinibacillus_phage	21.4	3.8e-10
WP_002295350.1|961333_962755_+	NADP-dependent phosphogluconate dehydrogenase	NA	A0A1D8KPW3	Synechococcus_phage	31.1	4.2e-34
WP_002290973.1|962947_963634_+	response regulator transcription factor	NA	W8CYM9	Bacillus_phage	31.2	4.8e-28
WP_002298265.1|963630_965136_+	HAMP domain-containing histidine kinase	NA	Q8QNA2	Ectocarpus_siliculosus_virus	25.1	3.9e-06
WP_002288809.1|972637_973513_+	PRD domain-containing protein	NA	NA	NA	NA	NA
WP_002297218.1|973657_974953_-|transposase	ISL3-like element ISEfa11 family transposase	transposase	A0A2D1GQC1	Lysinibacillus_phage	20.9	2.1e-08
WP_002288811.1|975138_975903_+	carbohydrate deacetylase	NA	NA	NA	NA	NA
WP_002303569.1|975919_977332_+	PTS transporter subunit EIIC	NA	NA	NA	NA	NA
WP_002303716.1|977348_978674_+	maltose-6'-phosphate glucosidase	NA	NA	NA	NA	NA
WP_002288815.1|978686_979145_+	PTS glucose transporter subunit IIA	NA	NA	NA	NA	NA
WP_002288817.1|979436_980738_+	PTS sugar transporter subunit IIC	NA	NA	NA	NA	NA
WP_002295336.1|980764_981025_+	diacylglycerol kinase	NA	NA	NA	NA	NA
WP_002288819.1|982023_983259_-	glycosyl transferase	NA	NA	NA	NA	NA
WP_002288821.1|983825_984653_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA	NA
WP_002288823.1|984925_985696_-	DeoR/GlpR transcriptional regulator	NA	NA	NA	NA	NA
WP_045136021.1|985913_986981_+	L-ascorbate 6-phosphate lactonase	NA	NA	NA	NA	NA
WP_010728432.1|986998_987460_+	PTS sugar transporter subunit IIA	NA	NA	NA	NA	NA
WP_002324626.1|987479_988964_+	PTS ascorbate transporter subunit IIC	NA	NA	NA	NA	NA
WP_045136020.1|989006_989306_+	PTS sugar transporter subunit IIB	NA	NA	NA	NA	NA
WP_002288832.1|989320_989959_+	3-keto-L-gulonate-6-phosphate decarboxylase UlaD	NA	NA	NA	NA	NA
WP_002289048.1|989963_990824_+	L-ribulose-5-phosphate 3-epimerase	NA	NA	NA	NA	NA
WP_002295327.1|990813_991524_+	L-ribulose-5-phosphate 4-epimerase	NA	NA	NA	NA	NA
WP_002289050.1|991755_992190_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
WP_002289065.1|992286_992586_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002289063.1|992854_993049_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002295324.1|993276_994038_-	formate/nitrite transporter family protein	NA	NA	NA	NA	NA
WP_002307018.1|994357_994603_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002307017.1|994786_995536_-	DeoR/GlpR transcriptional regulator	NA	A0A077SK06	Escherichia_phage	26.7	7.1e-17
WP_044383301.1|995721_996426_+	ribulose-phosphate 3-epimerase	NA	NA	NA	NA	NA
WP_002307014.1|996465_997023_+	SIS domain-containing protein	NA	NA	NA	NA	NA
WP_002330245.1|997030_998170_+	mannitol-1-phosphate 5-dehydrogenase	NA	E5EQS6	Micromonas_sp._RCC1109_virus	22.6	7.3e-05
WP_002307011.1|998181_998613_+	PTS transporter subunit EIIA	NA	NA	NA	NA	NA
WP_010728428.1|998626_1000072_+	PTS mannitol transporter subunit IICB	NA	NA	NA	NA	NA
WP_161571195.1|1000357_1000525_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002301399.1|1000511_1001471_-|transposase	IS30 family transposase	transposase	H7BW61	unidentified_phage	26.8	2.2e-10
WP_156243677.1|1001632_1003048_+	acyltransferase family protein	NA	NA	NA	NA	NA
WP_002307007.1|1003679_1004033_+	hypothetical protein	NA	NA	NA	NA	NA
WP_065305737.1|1004573_1005746_+|transposase	IS256 family transposase	transposase	A0A0N9STL0	Staphylococcus_phage	88.8	1.7e-121
WP_000997695.1|1007417_1008596_-|transposase	IS256-like element ISEf1 family transposase	transposase	NA	NA	NA	NA
WP_002297404.1|1009489_1010740_-|transposase	IS110 family transposase	transposase	M1NSC9	Streptococcus_phage	63.3	4.0e-113
>prophage 5
NZ_CP038995	Enterococcus faecium strain ZY11 chromosome, complete genome	2736390	1077502	1138392	2736390	protease,tRNA,transposase	Streptococcus_phage(11.11%)	57	NA	NA
WP_002298132.1|1077502_1078711_+|tRNA	CCA tRNA nucleotidyltransferase	tRNA	H7BUW3	unidentified_phage	51.7	1.5e-45
WP_002290187.1|1078864_1079320_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002290188.1|1079681_1079957_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002298130.1|1079969_1082042_+	sodium:proton antiporter	NA	NA	NA	NA	NA
WP_002298128.1|1082206_1084093_+	ABC-F family ATP-binding cassette domain-containing protein	NA	A0A2K9L3Z8	Tupanvirus	29.8	2.0e-52
WP_002297404.1|1084228_1085479_-|transposase	IS110 family transposase	transposase	M1NSC9	Streptococcus_phage	63.3	4.0e-113
WP_002298126.1|1085887_1086835_+	thymidylate synthase	NA	A0A0N9SH48	Staphylococcus_phage	64.6	7.1e-123
WP_002298124.1|1086854_1087382_+	dihydrofolate reductase	NA	A0A1D6X864	Bacillus_phage	37.1	8.8e-22
WP_002288393.1|1087445_1088099_-	hemolysin III family protein	NA	NA	NA	NA	NA
WP_044383416.1|1088230_1089073_+	DegV family protein	NA	A0A0N9SI50	Staphylococcus_phage	40.2	6.5e-19
WP_002288395.1|1089230_1090127_+	SGNH/GDSL hydrolase family protein	NA	NA	NA	NA	NA
WP_002288396.1|1090129_1090843_+	YpmS family protein	NA	NA	NA	NA	NA
WP_002288397.1|1090862_1091381_+	peptide-methionine (S)-S-oxide reductase MsrA	NA	NA	NA	NA	NA
WP_002288398.1|1091377_1091605_+	YozE family protein	NA	NA	NA	NA	NA
WP_002294418.1|1091756_1092308_+	signal peptidase I	NA	NA	NA	NA	NA
WP_002288403.1|1092390_1092933_-	folate family ECF transporter S component	NA	NA	NA	NA	NA
WP_002288405.1|1093169_1093568_-	glyoxalase	NA	NA	NA	NA	NA
WP_002296988.1|1093827_1094688_+	ribosome biogenesis GTPase YlqF	NA	NA	NA	NA	NA
WP_002296990.1|1094680_1095448_+	ribonuclease HII	NA	D2TEQ2	Emiliania_huxleyi_virus	39.5	2.7e-27
WP_002303743.1|1095503_1096361_+	DNA-protecting protein DprA	NA	NA	NA	NA	NA
WP_002288411.1|1096482_1098561_+	type I DNA topoisomerase	NA	A0A167R9A0	Powai_lake_megavirus	38.5	1.2e-101
WP_002320953.1|1098529_1099906_+|tRNA	FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO	tRNA	NA	NA	NA	NA
WP_002288415.1|1100103_1101009_+	tyrosine recombinase XerC	NA	A0A0K2CP59	Brevibacillus_phage	29.4	9.4e-32
WP_002288419.1|1101045_1101594_+	HslU--HslV peptidase proteolytic subunit	NA	NA	NA	NA	NA
WP_002288421.1|1101607_1103008_+|protease	ATP-dependent protease ATPase subunit HslU	protease	A0A173GFL6	Erwinia_phage	28.8	1.7e-43
WP_002290223.1|1103025_1103817_+	GTP-sensing pleiotropic transcriptional regulator CodY	NA	NA	NA	NA	NA
WP_002296994.1|1103898_1104774_+	aldose 1-epimerase family protein	NA	NA	NA	NA	NA
WP_002296995.1|1104905_1105544_-	glycerol-3-phosphate 1-O-acyltransferase PlsY	NA	NA	NA	NA	NA
WP_002296996.1|1105670_1106105_+	CoA-binding protein	NA	NA	NA	NA	NA
WP_002303746.1|1106270_1108316_+	DNA topoisomerase IV subunit B	NA	G3M9Z3	Bacillus_virus	41.3	2.4e-115
WP_002320956.1|1108327_1110778_+	DNA topoisomerase IV subunit A	NA	G3M9Z5	Bacillus_virus	31.6	9.2e-98
WP_002289265.1|1111054_1113286_+	formate C-acetyltransferase	NA	A0A2P0VNR5	Tetraselmis_virus	42.5	2.4e-169
WP_002289264.1|1113529_1114291_+	pyruvate formate lyase-activating protein	NA	NA	NA	NA	NA
WP_002289263.1|1114375_1115302_+	manganese-dependent inorganic pyrophosphatase	NA	NA	NA	NA	NA
WP_002289262.1|1115483_1116377_+	DUF1803 domain-containing protein	NA	NA	NA	NA	NA
WP_002296999.1|1116510_1116636_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
WP_002297218.1|1116905_1118201_+|transposase	ISL3-like element ISEfa11 family transposase	transposase	A0A2D1GQC1	Lysinibacillus_phage	20.9	2.1e-08
WP_002289266.1|1118290_1118923_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002289260.1|1119070_1119613_-	DUF2179 domain-containing protein	NA	NA	NA	NA	NA
WP_002297001.1|1119747_1120137_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002289259.1|1120140_1120905_+	alpha/beta fold hydrolase	NA	NA	NA	NA	NA
WP_002289258.1|1121033_1121981_+	LacI family transcriptional regulator	NA	NA	NA	NA	NA
WP_002289257.1|1122110_1122851_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002297002.1|1123141_1123810_-	membrane protein	NA	NA	NA	NA	NA
WP_002289767.1|1123943_1124231_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002289765.1|1124646_1126185_+	ABC transporter permease/substrate-binding protein	NA	NA	NA	NA	NA
WP_002289763.1|1126181_1127147_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	36.9	2.0e-27
WP_002289757.1|1127133_1128456_+	NAD(P)/FAD-dependent oxidoreductase	NA	NA	NA	NA	NA
WP_002297003.1|1128696_1129440_+	ABC transporter permease	NA	NA	NA	NA	NA
WP_002297008.1|1129454_1130447_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
WP_002297010.1|1130458_1131196_+	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
WP_002297012.1|1131185_1131908_+	TatD family hydrolase	NA	NA	NA	NA	NA
WP_002326685.1|1131991_1132615_-	LysM peptidoglycan-binding domain-containing protein	NA	A0A249XZV3	Enterococcus_phage	56.4	3.9e-37
WP_002295437.1|1133908_1134199_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002287522.1|1134490_1134895_+|transposase	IS200/IS605-like element ISEfa4 family transposase	transposase	A0A286QN76	Streptococcus_phage	73.8	1.3e-52
WP_002287525.1|1134911_1136060_+|transposase	IS200/IS605 family element transposase accessory protein TnpB	transposase	A0A288TXV8	Enterococcus_phage	93.4	1.2e-204
WP_000997695.1|1137213_1138392_+|transposase	IS256-like element ISEf1 family transposase	transposase	NA	NA	NA	NA
>prophage 6
NZ_CP038995	Enterococcus faecium strain ZY11 chromosome, complete genome	2736390	1168187	1177248	2736390		Gordonia_phage(16.67%)	9	NA	NA
WP_002288023.1|1168187_1169483_+	adenylosuccinate lyase	NA	A0A1B3B081	Gordonia_phage	33.1	4.5e-19
WP_002297115.1|1169662_1170040_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002288021.1|1170295_1171024_+	phosphoribosylaminoimidazolesuccinocarboxamide synthase	NA	E3SPA9	Prochlorococcus_phage	41.4	4.6e-45
WP_002295474.1|1171023_1171278_+	phosphoribosylformylglycinamidine synthase subunit PurS	NA	NA	NA	NA	NA
WP_002302316.1|1171279_1171951_+	phosphoribosylformylglycinamidine synthase subunit PurQ	NA	NA	NA	NA	NA
WP_002299012.1|1171951_1174174_+	phosphoribosylformylglycinamidine synthase subunit PurL	NA	A6N228	Microbacterium_phage	41.4	1.1e-150
WP_002299010.1|1174158_1175598_+	amidophosphoribosyltransferase	NA	A0A0M3SGR2	Mollivirus	32.9	2.4e-53
WP_002299008.1|1175629_1176673_+	phosphoribosylformylglycinamidine cyclo-ligase	NA	A0A1D7SE90	Cyanophage	43.7	2.7e-62
WP_002302314.1|1176669_1177248_+	phosphoribosylglycinamide formyltransferase	NA	M4QRX9	Synechococcus_phage	39.4	9.0e-28
>prophage 7
NZ_CP038995	Enterococcus faecium strain ZY11 chromosome, complete genome	2736390	1420099	1464613	2736390	transposase	Streptococcus_phage(25.0%)	47	NA	NA
WP_001015311.1|1420099_1420780_+|transposase	IS6-like element IS1216 family transposase	transposase	A0A1X9I6C6	Streptococcus_phage	99.6	1.5e-127
WP_002296275.1|1421228_1422311_-	mannonate dehydratase	NA	NA	NA	NA	NA
WP_002288175.1|1422301_1423948_-	mannitol dehydrogenase family protein	NA	NA	NA	NA	NA
WP_002288176.1|1424131_1424794_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
WP_002288178.1|1424937_1425501_+	peroxiredoxin	NA	NA	NA	NA	NA
WP_002296277.1|1425510_1427040_+	alkyl hydroperoxide reductase subunit F	NA	A0A249XZT7	Enterococcus_phage	33.0	2.3e-38
WP_002288180.1|1427196_1427547_+	DUF2200 domain-containing protein	NA	NA	NA	NA	NA
WP_002288181.1|1427645_1428176_+	membrane protein	NA	NA	NA	NA	NA
WP_002295931.1|1428329_1429481_+	sodium:proton antiporter	NA	NA	NA	NA	NA
WP_086321967.1|1429589_1431629_-	penicillin-binding protein	NA	NA	NA	NA	NA
WP_002287763.1|1432782_1432989_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002287766.1|1433004_1433619_-	flavin reductase family protein	NA	NA	NA	NA	NA
WP_002287767.1|1433765_1434449_-	N-acetylmannosamine-6-phosphate 2-epimerase	NA	NA	NA	NA	NA
WP_002295936.1|1434557_1435016_-	ASCH domain-containing protein	NA	NA	NA	NA	NA
WP_002287770.1|1435099_1436863_-	1-deoxy-D-xylulose-5-phosphate synthase	NA	NA	NA	NA	NA
WP_002295937.1|1437083_1438544_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002295938.1|1438751_1439678_-	glutaminase A	NA	NA	NA	NA	NA
WP_002295940.1|1439700_1441128_-	amino acid permease	NA	NA	NA	NA	NA
WP_002296683.1|1441158_1442373_-	ammonium transporter	NA	NA	NA	NA	NA
WP_002326691.1|1442722_1443802_+|transposase	IS30 family transposase	transposase	A0A2K9V2S9	Faecalibacterium_phage	36.2	9.2e-50
WP_002290686.1|1444102_1444345_-	GlsB/YeaQ/YmgE family stress response membrane protein	NA	NA	NA	NA	NA
WP_002295944.1|1444376_1444934_-	Asp23/Gls24 family envelope stress response protein	NA	NA	NA	NA	NA
WP_002295945.1|1444946_1445135_-	DUF2273 domain-containing protein	NA	NA	NA	NA	NA
WP_002295947.1|1445147_1445714_-	alkaline shock response membrane anchor protein AmaP	NA	NA	NA	NA	NA
WP_002287525.1|1446148_1447297_-|transposase	IS200/IS605 family element transposase accessory protein TnpB	transposase	A0A288TXV8	Enterococcus_phage	93.4	1.2e-204
WP_002287522.1|1447313_1447718_-|transposase	IS200/IS605-like element ISEfa4 family transposase	transposase	A0A286QN76	Streptococcus_phage	73.8	1.3e-52
WP_002295138.1|1448834_1449308_+	DUF2975 domain-containing protein	NA	NA	NA	NA	NA
WP_002295139.1|1449316_1449544_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA	NA
WP_000997695.1|1450138_1451317_+|transposase	IS256-like element ISEf1 family transposase	transposase	NA	NA	NA	NA
WP_002295142.1|1451525_1451897_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002291278.1|1452152_1452395_-	GlsB/YeaQ/YmgE family stress response membrane protein	NA	NA	NA	NA	NA
WP_002296679.1|1452426_1453329_-	Asp23/Gls24 family envelope stress response protein	NA	NA	NA	NA	NA
WP_002291274.1|1453341_1453530_-	DUF2273 domain-containing protein	NA	NA	NA	NA	NA
WP_002296677.1|1453543_1454107_-	alkaline shock response membrane anchor protein AmaP	NA	NA	NA	NA	NA
WP_002296675.1|1454144_1455038_-	SDR family oxidoreductase	NA	A0A2N9QUX2	Trichoplusia_ni_ascovirus	46.0	8.9e-59
WP_002296674.1|1455115_1456054_-	magnesium transporter CorA family protein	NA	NA	NA	NA	NA
WP_002296672.1|1456087_1456438_-	iron-sulfur cluster biosynthesis family protein	NA	NA	NA	NA	NA
WP_002296671.1|1456470_1457373_-	glycosyltransferase family 8 protein	NA	NA	NA	NA	NA
WP_002296670.1|1457365_1458223_-	glycosyltransferase family 8 protein	NA	A0ZYL4	Archaeal_BJ1_virus	27.1	1.3e-19
WP_002296669.1|1458556_1459366_+	Cof-type HAD-IIB family hydrolase	NA	NA	NA	NA	NA
WP_002296667.1|1459405_1459903_+	cysteine hydrolase	NA	NA	NA	NA	NA
WP_002321681.1|1460547_1460871_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002296665.1|1461034_1461289_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002296663.1|1461358_1461604_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA	NA
WP_002296662.1|1461679_1462045_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002303842.1|1462105_1462669_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002297218.1|1463317_1464613_+|transposase	ISL3-like element ISEfa11 family transposase	transposase	A0A2D1GQC1	Lysinibacillus_phage	20.9	2.1e-08
>prophage 8
NZ_CP038995	Enterococcus faecium strain ZY11 chromosome, complete genome	2736390	1475613	1514343	2736390	integrase,protease,tRNA,transposase	Streptococcus_phage(20.0%)	37	1481283:1481300	1514452:1514469
WP_002326691.1|1475613_1476693_-|transposase	IS30 family transposase	transposase	A0A2K9V2S9	Faecalibacterium_phage	36.2	9.2e-50
WP_002296638.1|1477214_1477421_+	DUF3955 domain-containing protein	NA	NA	NA	NA	NA
WP_002296637.1|1477622_1478624_-	alpha/beta hydrolase	NA	M1PGN2	Moumouvirus	31.8	2.5e-09
WP_002296634.1|1480708_1481215_-	cysteine hydrolase	NA	NA	NA	NA	NA
1481283:1481300	attL	ACAACATTTTCTTATTTT	NA	NA	NA	NA
WP_002296633.1|1481374_1481815_+	Spx/MgsR family RNA polymerase-binding regulatory protein	NA	NA	NA	NA	NA
WP_002296632.1|1481840_1482998_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002296631.1|1483000_1483357_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002296629.1|1483654_1484629_-	LPXTG-anchored fibrinogen/nidogen-binding adhesin SgrA	NA	NA	NA	NA	NA
WP_002296628.1|1484824_1485664_-|protease	CPBP family intramembrane metalloprotease	protease	NA	NA	NA	NA
WP_002296627.1|1485848_1486736_+	rotamase	NA	NA	NA	NA	NA
WP_002311093.1|1487329_1488025_-	fructose-6-phosphate aldolase	NA	E3SKN5	Synechococcus_phage	31.5	1.0e-22
WP_002296624.1|1488008_1488407_-	PTS glucitol/sorbitol transporter subunit IIA	NA	NA	NA	NA	NA
WP_002297404.1|1488815_1490066_+|transposase	IS110 family transposase	transposase	M1NSC9	Streptococcus_phage	63.3	4.0e-113
WP_002296760.1|1490207_1491203_-	PTS glucitol/sorbitol transporter subunit IIB	NA	NA	NA	NA	NA
WP_002289423.1|1491220_1491775_-	PTS sorbitol transporter subunit IIC	NA	NA	NA	NA	NA
WP_002289422.1|1491762_1492254_-	DeoR family transcriptional regulator	NA	NA	NA	NA	NA
WP_002330516.1|1492246_1494115_-	HTH domain-containing protein	NA	NA	NA	NA	NA
WP_002289420.1|1494133_1494934_-	SDR family oxidoreductase	NA	Q06VL0	Trichoplusia_ni_ascovirus	26.2	2.6e-09
WP_002289418.1|1495157_1495373_+	DUF378 domain-containing protein	NA	NA	NA	NA	NA
WP_002303864.1|1495511_1495997_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002289415.1|1496452_1496866_+	Hsp20/alpha crystallin family protein	NA	A0A1B2LRT2	Wolbachia_phage	31.5	2.1e-07
WP_002322258.1|1497002_1497263_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002321532.1|1497380_1497671_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000997695.1|1497916_1499095_+|transposase	IS256-like element ISEf1 family transposase	transposase	NA	NA	NA	NA
WP_000222572.1|1499250_1500204_-|transposase	IS30 family transposase	transposase	NA	NA	NA	NA
WP_002288357.1|1500260_1501388_+|integrase	site-specific integrase	integrase	A0A2I7SCV1	Paenibacillus_phage	55.5	1.8e-109
WP_002288355.1|1501481_1503317_-	elongation factor 4	NA	E4ZFJ7	Streptococcus_phage	24.4	3.4e-20
WP_002288353.1|1503463_1504684_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
WP_002288352.1|1504703_1505198_+	nucleoside deoxyribosyltransferase	NA	A0A1W6JK28	Lactococcus_phage	56.5	7.2e-42
WP_002288350.1|1505190_1505862_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002288348.1|1506012_1508622_-	ATP-dependent chaperone ClpB	NA	A0A2I7SAX5	Vibrio_phage	35.0	1.6e-132
WP_002288347.1|1508872_1509919_-	flippase-like domain-containing protein	NA	NA	NA	NA	NA
WP_002288344.1|1509929_1510202_-	DUF1294 domain-containing protein	NA	NA	NA	NA	NA
WP_002288343.1|1510236_1511145_-	YegS/Rv2252/BmrU family lipid kinase	NA	NA	NA	NA	NA
WP_002288340.1|1511276_1512509_-	peptidase T	NA	NA	NA	NA	NA
WP_002288338.1|1512523_1513645_-	Nif3-like dinuclear metal center hexameric protein	NA	NA	NA	NA	NA
WP_002288335.1|1513641_1514343_-|tRNA	tRNA (adenine-N(1))-methyltransferase	tRNA	NA	NA	NA	NA
1514452:1514469	attR	ACAACATTTTCTTATTTT	NA	NA	NA	NA
>prophage 9
NZ_CP038995	Enterococcus faecium strain ZY11 chromosome, complete genome	2736390	1677928	1797335	2736390	protease,tRNA,transposase	Streptococcus_phage(25.71%)	106	NA	NA
WP_002289885.1|1677928_1678627_-|protease	rhomboid family intramembrane serine protease	protease	NA	NA	NA	NA
WP_002289886.1|1678646_1679189_-	5-formyltetrahydrofolate cyclo-ligase	NA	NA	NA	NA	NA
WP_002319727.1|1679320_1680325_-	iron ABC transporter permease	NA	NA	NA	NA	NA
WP_002293904.1|1680321_1681311_-	iron ABC transporter permease	NA	NA	NA	NA	NA
WP_002325771.1|1681307_1682114_-	ABC transporter ATP-binding protein	NA	A0A1V0SJ29	Klosneuvirus	32.1	1.3e-13
WP_002293906.1|1682279_1683236_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
WP_002296121.1|1683312_1683831_-	dihydrofolate reductase	NA	G3MBI7	Bacillus_virus	39.1	7.1e-24
WP_002296119.1|1683918_1684068_-	50S ribosomal protein L33	NA	NA	NA	NA	NA
WP_002288531.1|1684295_1684742_+	DUF2188 domain-containing protein	NA	NA	NA	NA	NA
WP_002293915.1|1684936_1686832_-	asparagine synthase (glutamine-hydrolyzing)	NA	F2Y2L7	Organic_Lake_phycodnavirus	26.2	6.0e-20
WP_002317802.1|1687156_1688131_-	choloylglycine hydrolase family protein	NA	M1H001	Paramecium_bursaria_Chlorella_virus	29.7	6.6e-23
WP_002296332.1|1688698_1689265_-	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA	NA
WP_002326251.1|1689519_1690851_+	DUF1576 domain-containing protein	NA	NA	NA	NA	NA
WP_002296335.1|1690816_1691167_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002317579.1|1691258_1691678_-	cupin domain-containing protein	NA	NA	NA	NA	NA
WP_002326252.1|1691678_1692023_-	carboxymuconolactone decarboxylase family protein	NA	NA	NA	NA	NA
WP_002287776.1|1692372_1692969_+	TVP38/TMEM64 family protein	NA	M1Q152	Streptococcus_phage	41.7	8.7e-34
WP_002297218.1|1693093_1694389_-|transposase	ISL3-like element ISEfa11 family transposase	transposase	A0A2D1GQC1	Lysinibacillus_phage	20.9	2.1e-08
WP_010729307.1|1694614_1696414_+	glycerophosphodiesterase	NA	I6XE30	Staphylococcus_phage	26.5	5.3e-10
WP_002293930.1|1696691_1696904_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002325786.1|1697782_1698169_+	YxeA family protein	NA	NA	NA	NA	NA
WP_002288574.1|1698476_1699823_-	glucose-6-phosphate isomerase	NA	NA	NA	NA	NA
WP_002317577.1|1699934_1701284_-	NADP-specific glutamate dehydrogenase	NA	NA	NA	NA	NA
WP_002288576.1|1701399_1702653_+	NAD(P)/FAD-dependent oxidoreductase	NA	A0A2H4PQX1	Staphylococcus_phage	55.3	7.7e-24
WP_002347404.1|1702723_1703209_-|tRNA	Cys-tRNA(Pro) deacylase	tRNA	NA	NA	NA	NA
WP_002326253.1|1703231_1703990_-	type I 3-dehydroquinate dehydratase	NA	W6LP76	Streptococcus_phage	36.9	6.5e-26
WP_002322842.1|1704005_1705184_-	class I SAM-dependent rRNA methyltransferase	NA	W6LLI2	Streptococcus_phage	48.9	5.1e-102
WP_002326254.1|1705413_1707534_+	LTA synthase family protein	NA	W6LM83	Streptococcus_phage	58.3	6.3e-220
WP_002297185.1|1707696_1708992_-|transposase	ISL3-like element ISEfa5 family transposase	transposase	A0A2D1GQC1	Lysinibacillus_phage	21.4	3.8e-10
WP_002296623.1|1709175_1710471_-|transposase	ISL3 family transposase	transposase	A0A1S5SBP9	Streptococcus_phage	37.5	3.9e-55
WP_002326255.1|1710789_1711515_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002288586.1|1711504_1712014_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002288588.1|1712083_1713532_-	HAMP domain-containing histidine kinase	NA	A0A1V0SGX0	Hokovirus	29.3	1.7e-19
WP_002293942.1|1713531_1714248_-	response regulator transcription factor	NA	W8CYM9	Bacillus_phage	35.7	1.0e-33
WP_002288595.1|1714228_1714579_-	SdpI family protein	NA	NA	NA	NA	NA
WP_002293945.1|1714722_1715496_+	Cof-type HAD-IIB family hydrolase	NA	NA	NA	NA	NA
WP_127820661.1|1716337_1717291_-|transposase	IS30 family transposase	transposase	NA	NA	NA	NA
WP_002323892.1|1717534_1717849_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002321266.1|1718134_1718374_+	hypothetical protein	NA	NA	NA	NA	NA
WP_060806716.1|1718735_1718996_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002289618.1|1719180_1719678_-	GAF domain-containing protein	NA	NA	NA	NA	NA
WP_002289619.1|1719807_1720518_-	acetolactate decarboxylase	NA	NA	NA	NA	NA
WP_086321942.1|1720530_1722195_-	acetolactate synthase AlsS	NA	NA	NA	NA	NA
WP_002300930.1|1722399_1723062_-	DUF624 domain-containing protein	NA	NA	NA	NA	NA
WP_002303949.1|1723071_1723887_-	carbohydrate ABC transporter permease	NA	NA	NA	NA	NA
WP_002288989.1|1724148_1724592_-	LysR family transcriptional regulator substrate-binding protein	NA	NA	NA	NA	NA
WP_002321036.1|1724725_1725064_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
WP_002302962.1|1725051_1725429_-	MerR family transcriptional regulator	NA	NA	NA	NA	NA
WP_002322902.1|1725652_1726846_+	MFS transporter	NA	NA	NA	NA	NA
WP_002288984.1|1727011_1727434_-	HTH domain-containing protein	NA	NA	NA	NA	NA
WP_002303955.1|1728022_1728478_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002303963.1|1732943_1735271_-	LPXTG cell wall anchor domain-containing protein	NA	NA	NA	NA	NA
WP_002296840.1|1735542_1736730_-|transposase	IS256-like element IS16 family transposase	transposase	A0A0K2CZ57	Paenibacillus_phage	46.3	8.2e-92
WP_002288970.1|1737587_1737881_-	DUF2087 domain-containing protein	NA	NA	NA	NA	NA
WP_002286913.1|1738138_1738486_-	50S ribosomal protein L19	NA	NA	NA	NA	NA
WP_002293717.1|1738621_1739383_-|tRNA	tRNA (guanosine(37)-N1)-methyltransferase TrmD	tRNA	NA	NA	NA	NA
WP_002293716.1|1739372_1739894_-	ribosome maturation factor RimM	NA	NA	NA	NA	NA
WP_002297190.1|1740063_1740855_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002290277.1|1740979_1741231_-	KH domain-containing protein	NA	NA	NA	NA	NA
WP_002290274.1|1741242_1741518_-	30S ribosomal protein S16	NA	NA	NA	NA	NA
WP_002293714.1|1741770_1742325_+	NAD(P)H-dependent oxidoreductase	NA	A0A2P0ZL77	Lactobacillus_phage	29.3	2.3e-12
WP_002297192.1|1742403_1742925_-	dihydrofolate reductase	NA	NA	NA	NA	NA
WP_002293710.1|1742928_1743507_-	DNA-3-methyladenine glycosylase I	NA	NA	NA	NA	NA
WP_002293709.1|1743618_1745037_-	signal recognition particle protein	NA	NA	NA	NA	NA
WP_002293708.1|1745057_1745396_-	putative DNA-binding protein	NA	NA	NA	NA	NA
WP_002297194.1|1745355_1745859_-	DUF523 domain-containing protein	NA	NA	NA	NA	NA
WP_002293705.1|1745989_1746694_+	response regulator transcription factor	NA	W8CYM9	Bacillus_phage	36.2	1.4e-38
WP_002303966.1|1746690_1748427_+	two-component sensor histidine kinase	NA	W8CYF6	Bacillus_phage	34.1	1.2e-27
WP_002297196.1|1748529_1751001_-	cation-translocating P-type ATPase	NA	M1HBF8	Paramecium_bursaria_Chlorella_virus	28.8	7.0e-45
WP_002326707.1|1751273_1752548_+|transposase	ISL3 family transposase	transposase	A0A1S5SBP9	Streptococcus_phage	35.9	9.5e-54
WP_002289807.1|1752834_1753725_-	phosphate ABC transporter substrate-binding protein PstS family protein	NA	NA	NA	NA	NA
WP_002300070.1|1753921_1754404_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002289810.1|1754611_1754977_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002326708.1|1755067_1755385_-	SdpI family protein	NA	NA	NA	NA	NA
WP_002301399.1|1756126_1757086_+|transposase	IS30 family transposase	transposase	H7BW61	unidentified_phage	26.8	2.2e-10
WP_002301623.1|1757208_1758183_-	choloylglycine hydrolase family protein	NA	M1HVK5	Paramecium_bursaria_Chlorella_virus	31.8	7.1e-25
WP_002297404.1|1758592_1759843_+|transposase	IS110 family transposase	transposase	M1NSC9	Streptococcus_phage	63.3	4.0e-113
WP_002295273.1|1760128_1760386_+	hypothetical protein	NA	NA	NA	NA	NA
WP_008266934.1|1760617_1761031_-	DUF4231 domain-containing protein	NA	NA	NA	NA	NA
WP_000997695.1|1761287_1762466_+|transposase	IS256-like element ISEf1 family transposase	transposase	NA	NA	NA	NA
WP_002295743.1|1762626_1763536_-|transposase	IS982-like element ISEfm1 family transposase	transposase	NA	NA	NA	NA
WP_114366812.1|1763837_1765000_-|transposase	IS3-like element ISEfa8 family transposase	transposase	A0A2I7SC85	Paenibacillus_phage	54.2	4.1e-80
WP_106914055.1|1765104_1766443_+|transposase	IS3-like element ISEnfa3 family transposase	transposase	A0A1B1P773	Bacillus_phage	52.7	1.3e-77
WP_002301695.1|1766483_1767176_-	hypothetical protein	NA	Q9MCC6	Lactobacillus_phage	43.4	4.0e-30
WP_002294835.1|1767612_1768182_-	prevent-host-death protein	NA	NA	NA	NA	NA
WP_002304701.1|1768255_1768579_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002294839.1|1768732_1769545_-	hypothetical protein	NA	NA	NA	NA	NA
WP_086322021.1|1769898_1770747_+	MoxR family ATPase	NA	NA	NA	NA	NA
WP_002304699.1|1770891_1771833_+	DUF58 domain-containing protein	NA	NA	NA	NA	NA
WP_002299539.1|1775627_1777799_-	copper/silver-translocating P-type ATPase CopB	NA	A0A218MNH6	uncultured_virus	32.3	5.0e-71
WP_002312937.1|1777818_1780005_-	copper-translocating P-type ATPase	NA	A0A218MNH6	uncultured_virus	38.6	5.3e-121
WP_002289040.1|1780004_1780214_-	copper chaperone CopZ	NA	NA	NA	NA	NA
WP_002294855.1|1780226_1780667_-	CopY/TcrY family copper transport repressor	NA	NA	NA	NA	NA
WP_002304690.1|1780740_1781280_-	topology modulation protein	NA	A0A097BYE2	Leuconostoc_phage	34.5	3.8e-20
WP_002288779.1|1781894_1783361_-	amino acid permease	NA	NA	NA	NA	NA
WP_002304688.1|1783671_1785753_-	cadmium-translocating P-type ATPase	NA	E4ZFI9	Streptococcus_phage	35.6	2.4e-115
WP_002288776.1|1786276_1786636_-	YccF domain-containing protein	NA	NA	NA	NA	NA
WP_002326717.1|1786665_1787007_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002304684.1|1787003_1787678_-	SGNH/GDSL hydrolase family protein	NA	NA	NA	NA	NA
WP_002288767.1|1788730_1790029_-|tRNA	asparagine--tRNA ligase	tRNA	A0A2P1EMB4	Moumouvirus	30.3	1.2e-59
WP_002304682.1|1790068_1791259_-	pyridoxal phosphate-dependent aminotransferase	NA	NA	NA	NA	NA
WP_002348809.1|1791279_1791807_-	DUF5590 domain-containg protein	NA	NA	NA	NA	NA
WP_002304681.1|1791853_1794643_-	DEAD/DEAH box helicase family protein	NA	A0A1X9I5C8	Streptococcus_phage	30.9	1.1e-89
WP_002288762.1|1794789_1794990_-	cold-shock protein	NA	Q9AZD3	Lactococcus_phage	74.2	2.5e-22
WP_002323868.1|1795441_1795762_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002297185.1|1796039_1797335_+|transposase	ISL3-like element ISEfa5 family transposase	transposase	A0A2D1GQC1	Lysinibacillus_phage	21.4	3.8e-10
>prophage 10
NZ_CP038995	Enterococcus faecium strain ZY11 chromosome, complete genome	2736390	1980522	2039396	2736390	plate,tRNA,transposase,holin,tail	Enterococcus_phage(23.08%)	58	NA	NA
WP_002303350.1|1980522_1981482_-|transposase	IS30 family transposase	transposase	NA	NA	NA	NA
WP_002295061.1|1981702_1982806_-	L-lactate oxidase	NA	NA	NA	NA	NA
WP_002295059.1|1983027_1983498_-	DUF4809 family protein	NA	NA	NA	NA	NA
WP_000202380.1|1983754_1985074_+|transposase	IS1380-like element IS1678 family transposase	transposase	A0A1X9I6F6	Streptococcus_phage	82.7	4.8e-210
WP_002302982.1|1985514_1987155_+	NAD-dependent malic enzyme	NA	NA	NA	NA	NA
WP_002302984.1|1987308_1988631_+	2-hydroxycarboxylate transporter family protein	NA	NA	NA	NA	NA
WP_002295053.1|1988692_1989124_-	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
WP_002302985.1|1989187_1990024_-	sulfite exporter TauE/SafE family protein	NA	NA	NA	NA	NA
WP_002295049.1|1990213_1990516_-	DUF1292 domain-containing protein	NA	NA	NA	NA	NA
WP_002290886.1|1990541_1990973_-	Holliday junction resolvase RuvX	NA	NA	NA	NA	NA
WP_002290885.1|1990969_1991236_-	IreB family regulatory phosphoprotein	NA	NA	NA	NA	NA
WP_002290883.1|1991489_1992215_-	DNA/RNA non-specific endonuclease	NA	NA	NA	NA	NA
WP_002289867.1|1992767_1993520_+	threonine/serine exporter family protein	NA	NA	NA	NA	NA
WP_002289868.1|1993535_1994015_+	threonine/serine exporter	NA	NA	NA	NA	NA
WP_002296509.1|1994265_1995846_-	ABC transporter	NA	NA	NA	NA	NA
WP_002287741.1|1995838_1996582_-	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	30.9	3.6e-29
WP_002287742.1|1996757_1997534_-	response regulator transcription factor	NA	NA	NA	NA	NA
WP_002287743.1|1997781_1998618_-	TIGR03943 family protein	NA	NA	NA	NA	NA
WP_002287744.1|1998628_1999558_-	permease	NA	NA	NA	NA	NA
WP_002287745.1|1999749_2000103_+	thioredoxin family protein	NA	NA	NA	NA	NA
WP_002287746.1|2000176_2000833_-	redox-sensing transcriptional repressor Rex	NA	NA	NA	NA	NA
WP_002287747.1|2001058_2002993_+	ABC-F family ATP-binding cassette domain-containing protein	NA	A0A2K9L3Z8	Tupanvirus	31.9	1.1e-58
WP_002321414.1|2003078_2004302_-	glucuronyl hydrolase	NA	NA	NA	NA	NA
WP_002321415.1|2004295_2006194_-	DUF2264 domain-containing protein	NA	NA	NA	NA	NA
WP_002287753.1|2006187_2007306_-	glycosyl hydrolase family 88	NA	NA	NA	NA	NA
WP_002302991.1|2007388_2008222_-	carbohydrate ABC transporter permease	NA	NA	NA	NA	NA
WP_002287755.1|2008214_2009132_-	sugar ABC transporter permease	NA	NA	NA	NA	NA
WP_002287757.1|2009358_2010483_-	extracellular solute-binding protein	NA	NA	NA	NA	NA
WP_002296511.1|2010665_2011574_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA	NA
WP_002287759.1|2011714_2013328_+	FAD-dependent oxidoreductase	NA	NA	NA	NA	NA
WP_000222572.1|2013978_2014932_+|transposase	IS30 family transposase	transposase	NA	NA	NA	NA
WP_002289406.1|2014965_2016195_-	GTPase HflX	NA	NA	NA	NA	NA
WP_002289405.1|2016196_2017114_-|tRNA	tRNA (adenosine(37)-N6)-dimethylallyltransferase MiaA	tRNA	NA	NA	NA	NA
WP_002289404.1|2017117_2017855_-	glycerophosphodiester phosphodiesterase	NA	A0A0S2MYI4	Enterococcus_phage	40.0	2.3e-12
WP_002289403.1|2017945_2018473_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002289402.1|2018652_2019246_+	ATP-dependent Clp endopeptidase proteolytic subunit ClpP	NA	A0A223W000	Agrobacterium_phage	55.6	8.9e-55
WP_002289401.1|2019349_2019835_-	gamma carbonic anhydrase family protein	NA	NA	NA	NA	NA
WP_002296291.1|2019987_2020185_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002289400.1|2020279_2022040_-	multidrug efflux ABC transporter subunit EfrB	NA	W8CYL7	Bacillus_phage	28.6	2.5e-52
WP_002296290.1|2022036_2023767_-	multidrug efflux ABC transporter subunit EfrA	NA	W8CYL7	Bacillus_phage	27.6	2.1e-43
WP_002287947.1|2024159_2024372_+	DNA-dependent RNA polymerase auxiliary subunit epsilon family protein	NA	NA	NA	NA	NA
WP_002287948.1|2024373_2026053_+	ribonuclease J	NA	NA	NA	NA	NA
WP_002294067.1|2026306_2026507_-	cold-shock protein	NA	Q9AZD3	Lactococcus_phage	71.2	3.7e-21
WP_002347086.1|2027582_2027981_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002305550.1|2027973_2028426_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002347085.1|2028412_2028820_-	hypothetical protein	NA	NA	NA	NA	NA
WP_025477679.1|2028798_2029101_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002302755.1|2030095_2031304_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002302753.1|2031418_2032429_-	N-acetylmuramoyl-L-alanine amidase	NA	A0A1G5SA77	Enterococcus_phage	66.1	2.8e-61
WP_002349260.1|2032425_2032815_-|holin	phage holin family protein	holin	F0PIJ6	Enterococcus_phage	69.7	9.0e-40
WP_002302750.1|2032914_2033055_-	XkdX family protein	NA	A0A2H4JD72	uncultured_Caudovirales_phage	54.8	1.1e-08
WP_002332774.1|2033047_2033395_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002347378.1|2033408_2033903_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002319918.1|2033902_2034352_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002303306.1|2034355_2034976_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002347082.1|2034975_2035884_-|plate	phage baseplate upper protein	plate	A0A1P8BLW0	Lactococcus_phage	25.2	7.8e-10
WP_002347081.1|2035896_2038659_-	CHAP domain-containing protein	NA	Q9AZX5	Lactococcus_phage	39.1	6.0e-138
WP_002303299.1|2038655_2039396_-|tail	tail protein	tail	NA	NA	NA	NA
>prophage 11
NZ_CP038995	Enterococcus faecium strain ZY11 chromosome, complete genome	2736390	2048039	2072167	2736390	terminase,portal,tRNA	Enterococcus_phage(40.0%)	30	NA	NA
WP_002303292.1|2048039_2049569_-|portal	phage portal protein	portal	A0A0S2MVB2	Bacillus_phage	25.0	1.3e-28
WP_002298064.1|2049580_2050996_-	hypothetical protein	NA	C9E2I7	Enterococcus_phage	79.7	1.0e-218
WP_002303291.1|2050988_2051822_-|terminase	small subunit of terminase	terminase	D2IYW0	Enterococcus_phage	68.8	1.5e-79
WP_002303289.1|2052426_2052687_-	hypothetical protein	NA	A0A0S2MYE7	Enterococcus_phage	51.1	7.9e-16
WP_002303288.1|2053636_2054023_-	hypothetical protein	NA	O34053	Streptococcus_phage	53.5	1.6e-28
WP_002303286.1|2054035_2054449_-	autolysin	NA	C9E2P5	Enterococcus_phage	81.0	5.6e-56
WP_002303285.1|2054525_2054822_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002303283.1|2054818_2055022_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002303282.1|2055028_2055259_-	hypothetical protein	NA	A0A0S2MYD2	Enterococcus_phage	52.1	1.6e-12
WP_002303281.1|2055255_2055639_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002303280.1|2055635_2056178_-	DUF1642 domain-containing protein	NA	Q8W5X2	Listeria_phage	40.7	3.9e-17
WP_002303279.1|2056174_2056645_-	hypothetical protein	NA	A0A0A7RWK2	Clostridium_phage	33.8	9.6e-12
WP_002305847.1|2056646_2056829_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002317474.1|2056821_2057139_-	hypothetical protein	NA	NA	NA	NA	NA
WP_156243603.1|2057135_2057987_-	ATP-binding protein	NA	A0A0P0I3L9	Lactobacillus_phage	29.8	6.6e-27
WP_002303278.1|2058001_2058802_-	hypothetical protein	NA	B4XYS6	Lactobacillus_phage	54.5	8.9e-58
WP_002303277.1|2058844_2059735_-	hypothetical protein	NA	D2IYT9	Enterococcus_phage	84.5	6.2e-137
WP_002303275.1|2059736_2060678_-	endonuclease	NA	D2IZK1	Enterococcus_phage	78.9	2.7e-146
WP_002303273.1|2060910_2061246_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002299325.1|2061512_2061737_+	DUF2188 domain-containing protein	NA	E8ZD70	Streptococcus_phage	81.1	2.2e-27
WP_002299038.1|2062045_2062201_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002304464.1|2062272_2062503_+	DUF2188 domain-containing protein	NA	E8ZD70	Streptococcus_phage	49.3	4.4e-10
WP_002303266.1|2062670_2062937_-	helix-turn-helix transcriptional regulator	NA	A0A1W6JP54	Staphylococcus_phage	52.7	5.4e-12
WP_002303265.1|2063136_2063841_+	LexA family transcriptional regulator	NA	D7RWF2	Brochothrix_phage	42.4	6.2e-39
WP_002303264.1|2063927_2065217_+	DUF4041 domain-containing protein	NA	M1NRY5	Streptococcus_phage	74.0	5.6e-46
WP_002303263.1|2065282_2066635_+	recombinase family protein	NA	D2IZV7	Enterococcus_phage	55.3	1.7e-133
WP_002304462.1|2066529_2067201_-	DNA repair protein RadC	NA	NA	NA	NA	NA
WP_002287951.1|2067255_2067909_-	HAD family phosphatase	NA	NA	NA	NA	NA
WP_002294071.1|2067898_2069212_-	bifunctional folylpolyglutamate synthase/dihydrofolate synthase	NA	NA	NA	NA	NA
WP_002287953.1|2069521_2072167_-|tRNA	valine--tRNA ligase	tRNA	A0A1V0S951	Catovirus	42.9	4.0e-163
>prophage 12
NZ_CP038995	Enterococcus faecium strain ZY11 chromosome, complete genome	2736390	2244451	2270440	2736390	bacteriocin,protease,transposase	Bacillus_phage(30.0%)	25	NA	NA
WP_000202380.1|2244451_2245771_-|transposase	IS1380-like element IS1678 family transposase	transposase	A0A1X9I6F6	Streptococcus_phage	82.7	4.8e-210
WP_002290607.1|2246252_2247878_-	chaperonin GroEL	NA	A0A219YK78	uncultured_virus	56.8	4.9e-156
WP_002288862.1|2247928_2248213_-	co-chaperone GroES	NA	A0A221S4M3	uncultured_virus	40.2	2.0e-12
WP_002288860.1|2248437_2249100_+|protease	CPBP family intramembrane metalloprotease	protease	NA	NA	NA	NA
WP_002303458.1|2249175_2250468_-	PTS sugar transporter subunit IIC	NA	NA	NA	NA	NA
WP_002303461.1|2250637_2251267_+	NAD(P)H-binding protein	NA	NA	NA	NA	NA
WP_002288854.1|2251369_2252179_-	MBL fold metallo-hydrolase	NA	A0A0C5AJ83	Bacteriophage	33.6	3.1e-34
WP_002288853.1|2252233_2253103_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002288852.1|2253103_2254420_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002294131.1|2254416_2256252_-	cell wall metabolism sensor histidine kinase WalK	NA	W8CYF6	Bacillus_phage	37.7	5.2e-37
WP_002288850.1|2256256_2256961_-	response regulator transcription factor	NA	W8CYM9	Bacillus_phage	41.6	5.8e-45
WP_002294132.1|2257150_2258011_-	DegV family protein	NA	A0A1X9I5J4	Streptococcus_phage	24.4	4.6e-12
WP_002322652.1|2257997_2258567_-	DUF1836 domain-containing protein	NA	NA	NA	NA	NA
WP_002294609.1|2259515_2259902_-	DUF4064 domain-containing protein	NA	NA	NA	NA	NA
WP_002294608.1|2259898_2260420_-	RDD family protein	NA	NA	NA	NA	NA
WP_002294607.1|2260421_2261456_-	signal peptide peptidase SppA	NA	A0A1C9LW82	Vibrio_phage	29.2	6.6e-13
WP_002348772.1|2261488_2262904_-	HlyD family secretion protein	NA	NA	NA	NA	NA
WP_002303464.1|2262872_2265026_-	peptide cleavage/export ABC transporter	NA	W8CYL7	Bacillus_phage	27.8	7.0e-41
WP_002303465.1|2265283_2265520_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002294603.1|2265538_2265754_+|bacteriocin	bacteriocin	bacteriocin	NA	NA	NA	NA
WP_002294602.1|2266456_2267209_-	response regulator transcription factor	NA	NA	NA	NA	NA
WP_002348775.1|2267223_2268471_-	GHKL domain-containing protein	NA	NA	NA	NA	NA
WP_002294600.1|2268546_2268693_-|bacteriocin	EntF family bacteriocin induction factor	bacteriocin	NA	NA	NA	NA
WP_065305737.1|2268868_2270041_+|transposase	IS256 family transposase	transposase	A0A0N9STL0	Staphylococcus_phage	88.8	1.7e-121
WP_002305452.1|2270128_2270440_-|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
>prophage 13
NZ_CP038995	Enterococcus faecium strain ZY11 chromosome, complete genome	2736390	2603321	2620217	2736390		Streptococcus_phage(92.86%)	18	NA	NA
WP_002297366.1|2603321_2603636_+	YdcP family protein	NA	A0A1S5SF38	Streptococcus_phage	53.4	1.0e-25
WP_002297365.1|2603648_2604023_+	YdcP family protein	NA	A0A1S5SF96	Streptococcus_phage	66.1	2.4e-34
WP_002297364.1|2604032_2604368_+	hypothetical protein	NA	NA	NA	NA	NA
WP_010729284.1|2604450_2605791_+	DUF87 domain-containing protein	NA	A0A1S5SFB5	Streptococcus_phage	65.2	1.5e-163
WP_002297358.1|2605868_2606543_+	AAA family ATPase	NA	NA	NA	NA	NA
WP_002321810.1|2606775_2607210_+	DNA (cytosine-5-)-methyltransferase	NA	A0A1S5SDW2	Streptococcus_phage	77.1	6.5e-63
WP_002297356.1|2607210_2607918_+	DNA methylase	NA	A0A1S5SEK0	Streptococcus_phage	50.4	5.8e-53
WP_002297354.1|2607907_2608198_+	hypothetical protein	NA	NA	NA	NA	NA
WP_002297353.1|2608456_2609641_+	XRE family transcriptional regulator	NA	A0A1S5SEX3	Streptococcus_phage	61.6	2.9e-142
WP_002297352.1|2609655_2609775_+	DUF3789 domain-containing protein	NA	NA	NA	NA	NA
WP_002286940.1|2610520_2612431_+	group II intron reverse transcriptase/maturase	NA	A0A0U4J920	Pseudomonas_phage	29.8	7.1e-37
WP_033658092.1|2612534_2612759_+	hypothetical protein	NA	A0A1S5SEY0	Streptococcus_phage	83.8	1.2e-23
WP_002297350.1|2612771_2613275_+	antirestriction protein ArdA	NA	A0A1S5SF25	Streptococcus_phage	59.9	9.2e-53
WP_002297349.1|2613334_2613724_+	conjugal transfer protein	NA	A0A1S5SEX7	Streptococcus_phage	68.3	3.9e-43
WP_010729283.1|2613710_2616158_+	ATP-binding protein	NA	A0A1S5SF64	Streptococcus_phage	75.9	0.0e+00
WP_002297347.1|2616162_2618286_+	hypothetical protein	NA	A0A1S5SF30	Streptococcus_phage	59.7	1.2e-181
WP_002297346.1|2618282_2619287_+	peptidase P60	NA	A0A1S5SEZ8	Streptococcus_phage	63.5	5.6e-118
WP_002297345.1|2619305_2620217_+	conjugal transfer protein	NA	A0A1S5SF22	Streptococcus_phage	44.0	2.2e-65
>prophage 14
NZ_CP038995	Enterococcus faecium strain ZY11 chromosome, complete genome	2736390	2638222	2694790	2736390	integrase,transposase	Staphylococcus_phage(25.0%)	51	2652111:2652170	2693567:2694890
WP_002297332.1|2638222_2638417_+|transposase	IS3 family transposase	transposase	NA	NA	NA	NA
WP_077828743.1|2638608_2638764_+|integrase,transposase	DDE-type integrase/transposase/recombinase	integrase,transposase	NA	NA	NA	NA
WP_002297326.1|2640620_2642237_-	cobalamin biosynthesis protein	NA	NA	NA	NA	NA
WP_002317220.1|2642354_2642573_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA	NA
WP_002297325.1|2642767_2643229_+|transposase	IS30 family transposase	transposase	W5R8L2	Staphylococcus_phage	35.0	1.5e-12
WP_002304820.1|2643421_2643661_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002297324.1|2643684_2645208_-	zinc ABC transporter substrate-binding protein AdcA	NA	NA	NA	NA	NA
WP_002322279.1|2645225_2645348_-	putative metal homeostasis protein	NA	NA	NA	NA	NA
WP_002304819.1|2645377_2646361_-	GTP-binding protein	NA	NA	NA	NA	NA
WP_002297320.1|2646384_2646534_-	50S ribosomal protein L33	NA	NA	NA	NA	NA
WP_002297319.1|2646554_2646932_-	hypothetical protein	NA	NA	NA	NA	NA
WP_002297318.1|2646963_2647143_-	50S ribosomal protein L32	NA	NA	NA	NA	NA
WP_002297316.1|2647157_2647427_-	30S ribosomal protein S14	NA	NA	NA	NA	NA
WP_033630201.1|2647949_2649722_-	ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	29.1	3.5e-30
WP_002302406.1|2649675_2651430_-	ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	24.8	1.3e-24
WP_002302405.1|2651539_2652109_-	MptD family putative ECF transporter S component	NA	NA	NA	NA	NA
2652111:2652170	attL	AGTCAAGTCCATAATCCTGTGTAAAATACTATACAATGTTTTACCGGTCTCTCATTGATC	NA	NA	NA	NA
WP_065305737.1|2652161_2653334_-|transposase	IS256 family transposase	transposase	A0A0N9STL0	Staphylococcus_phage	88.8	1.7e-121
WP_002305512.1|2653458_2654883_-	energy-coupling factor ABC transporter ATP-binding protein	NA	A0A1V0SGN0	Hokovirus	26.4	5.9e-20
WP_010729275.1|2654884_2655553_-	cobalt ABC transporter permease	NA	NA	NA	NA	NA
WP_074394433.1|2655682_2656267_-	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA	NA
WP_002297302.1|2656597_2656831_-	iron-dependent repressor	NA	NA	NA	NA	NA
WP_010729812.1|2656845_2657796_-	metal ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
WP_010729271.1|2657792_2658635_-	metal ABC transporter permease	NA	NA	NA	NA	NA
WP_010729270.1|2658636_2659356_-	metal ABC transporter ATP-binding protein	NA	A0A2R8FG22	Brazilian_cedratvirus	32.7	1.6e-18
WP_074394656.1|2660047_2660206_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA	NA
WP_010729268.1|2660277_2661504_+|integrase	site-specific integrase	integrase	NA	NA	NA	NA
WP_002287505.1|2661591_2661984_-	30S ribosomal protein S9	NA	NA	NA	NA	NA
WP_002295975.1|2661999_2662443_-	50S ribosomal protein L13	NA	NA	NA	NA	NA
WP_002297290.1|2662961_2663429_-	DNA starvation/stationary phase protection protein	NA	NA	NA	NA	NA
WP_002288118.1|2663548_2665087_-	gluconokinase	NA	NA	NA	NA	NA
WP_156243595.1|2665166_2665853_+	prepilin peptidase	NA	NA	NA	NA	NA
WP_002288119.1|2666053_2666581_-	peptide-methionine (S)-S-oxide reductase MsrA	NA	NA	NA	NA	NA
WP_002288121.1|2666664_2667342_-	beta-phosphoglucomutase	NA	A0A1D8KNV9	Synechococcus_phage	23.2	1.6e-07
WP_002288122.1|2667338_2668469_-	glycerate kinase	NA	W6LM47	Streptococcus_phage	51.6	1.6e-73
WP_002288124.1|2668468_2670652_-	glycoside hydrolase family 65 protein	NA	NA	NA	NA	NA
WP_002288127.1|2670648_2671674_-	Gfo/Idh/MocA family oxidoreductase	NA	NA	NA	NA	NA
WP_002288129.1|2671718_2672546_-	sugar phosphate isomerase/epimerase	NA	NA	NA	NA	NA
WP_002288131.1|2672542_2673610_-	zinc-binding alcohol dehydrogenase	NA	NA	NA	NA	NA
WP_002288133.1|2673635_2674472_-	carbohydrate ABC transporter permease	NA	NA	NA	NA	NA
WP_002288134.1|2674468_2675338_-	sugar ABC transporter permease	NA	NA	NA	NA	NA
WP_002288135.1|2675407_2676691_-	sugar ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
WP_002303706.1|2676704_2678390_-	sucrose phosphorylase	NA	NA	NA	NA	NA
WP_002288139.1|2678664_2679690_+	LacI family transcriptional regulator	NA	NA	NA	NA	NA
WP_002295965.1|2680284_2683938_-	DNA-directed RNA polymerase subunit beta'	NA	R4TQM7	Phaeocystis_globosa_virus	24.9	8.4e-63
WP_002295964.1|2684016_2687634_-	DNA-directed RNA polymerase subunit beta	NA	A0A1B1ISA9	uncultured_Mediterranean_phage	24.7	1.5e-48
WP_002289394.1|2688361_2689330_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
WP_002289390.1|2689347_2690253_+	ABC transporter permease	NA	NA	NA	NA	NA
WP_002289388.1|2690249_2691056_+	ATP-binding cassette domain-containing protein	NA	W6JKT0	Anomala_cuprea_entomopoxvirus	25.1	1.3e-08
WP_002297289.1|2691212_2692181_+	biotin--[acetyl-CoA-carboxylase] ligase	NA	NA	NA	NA	NA
WP_002289384.1|2692497_2693022_-	DUF664 domain-containing protein	NA	NA	NA	NA	NA
WP_065305737.1|2693617_2694790_-|transposase	IS256 family transposase	transposase	A0A0N9STL0	Staphylococcus_phage	88.8	1.7e-121
2693567:2694890	attR	AGTCAAGTCCATAATCCTGTGTAAAATACTATACAATGTTTTACCGGTCTCTCATTGATCAAACTTAATATATTTTCTTGTAGAACTGAGCCATTCGTCATGAAGGTCCATAAGGACAGCTCCAATTAATCGATTGGCAGACGTTCGGTTGGGAAAAATCCGAATAATCTTTTCTCTTCTGCGGACTTCCTGGTTCAGTCGTTCAAGAAGGTTGGTGCTTTTTAGCCGATTGTGACCATTTCCGATAACCGTGTATTGAAAGGCATCTTCGAAGCCATTATCCAATGTTTCGCAAGCTTTTGTATATTTAGACTGGTCGATATATTCACCGACTAAAGCATTCTTAGCTGTTCGAGCGAGTTCAATATCCGTAAACTTAAAGATCGCTTTTACTGCTTCTCTAAACGGTTTTGAATTCTTTTTTGGAATGGAACTGAAGATGTTTCTTAAAAAATGGACCTGGCATCTCTGCCAACTTGCGTTGGTAAATGACTTACGAATTGCAGACACTAGGCCTTTATGGGCATCAGAAATGATGAGTTCTGTCCCCTGTAGACCGCGTTCTTTTAAGTATTCAAAGAAGATGGACCATGTGTCATCACTTTCTTCATTTTGGATCATGAAGCCAATGATTTCACGATCACCACCTTCTGTTATCCCGATCGCAATATGGCAGCTTTTAGAAAGCACTCGATGGTCCTCACGGACTTTTATGTAGAGAACATCAGTCATCAGATAAGGATAACTCGTACCTGAGAGTGAACGGTTCTGCCATTCGTTGACCATCGGGTCTAACTGCTCAGTCAGGCTAGAAACAAAAGATTTCGATACCGATTTTCCACATAGCTCTTCAACAATCTTTGAAACTTTACGTGTCGAAACGCCTGAAACATACATCTCAAGCATTGAAGCGAGCAGTGCCTTTTCATTTCGCTGATAACGCTCAAACACCGTCGGTGAAAATTCACCATCACGTGTTCTAGGCACTTTTAACTCGAGTGTGCCCACACGAGTCGTAAAGTCTCGCTCATAATAGCCATTTCTTTGACTCTGACGACTTTCTGAACGTTCATAGTCATCGGCTTGAATATATTCTGTTCGTTGATTTTCCATCAATTGGTTGAAAACAGTGGTCAAAATATTTTTAGAAACTTCATCTTTTACCGAATATTCAATAATACTTTGAACCTCTTCGTTGTTCAGTGTAAAATGTACTTGGGTCATGTAACGTCCTCCTGGGTATGTTTTTGTGGTTAAAAACATTGTACCGTAAAAGGGCTGTTACATGGCCTTTTATCTTTTACACAATTATATGGACTTTATC	NA	NA	NA	NA
