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
CP022686	Escherichia coli Nissle 1917 chromosome, complete genome	5055316	386513	480340	5055316	tRNA,portal,integrase,holin,protease,tail	Enterobacteria_phage(25.81%)	105	438861:438876	470464:470479
AXY44746.1|386513_387395_-|protease	protease HtpX	protease	NA	NA	NA	NA
AXY44747.1|387586_389635_-|tail,protease	tail-specific protease	tail,protease	A0A0R6PIZ1	Moraxella_phage	33.5	6.8e-86
AXY44748.1|389654_390353_-	RNA chaperone ProQ	NA	NA	NA	NA	NA
AXY44749.1|390449_390947_-	Free methionine-R-sulfoxide reductase	NA	NA	NA	NA	NA
AXY44750.1|391076_392360_+	paraquat-inducible membrane protein A	NA	NA	NA	NA	NA
AXY44751.1|392328_394962_+	MCE family protein	NA	NA	NA	NA	NA
AXY49007.1|395041_396481_+	ribosomal RNA small subunit methyltransferase F	NA	NA	NA	NA	NA
AXY44752.1|396598_396835_+	hypothetical protein	NA	NA	NA	NA	NA
AXY49008.1|396939_397131_+	DUF1482 domain-containing protein	NA	NA	NA	NA	NA
AXY44753.1|397131_397788_-	protein-serine/threonine phosphatase	NA	A0A2D1GLI5	Escherichia_phage	50.5	1.0e-56
AXY44754.1|398182_398524_-	DUF2511 domain-containing protein	NA	NA	NA	NA	NA
AXY44755.1|398536_399409_-	hypothetical protein	NA	NA	NA	NA	NA
AXY44756.1|399412_399787_-	hypothetical protein	NA	NA	NA	NA	NA
AXY44757.1|399925_400156_+	DNA polymerase III subunit theta	NA	H9C187	Pectobacterium_phage	61.8	1.3e-14
AXY44758.1|400258_400915_+	carbon-nitrogen hydrolase family protein	NA	NA	NA	NA	NA
AXY44759.1|400938_401601_+	DNA polymerase III subunit epsilon	NA	Q6UAU3	Klebsiella_phage	41.6	2.0e-07
AXY44760.1|403866_404526_-	DUF533 domain-containing protein	NA	NA	NA	NA	NA
AXY44761.1|404852_405209_-	hypothetical protein	NA	NA	NA	NA	NA
AXY44762.1|405275_405566_-	damage-inducible protein YebG	NA	NA	NA	NA	NA
AXY44763.1|405699_406878_+	phosphoribosylglycinamide formyltransferase 2	NA	NA	NA	NA	NA
AXY44764.1|406933_407575_-	KHG/KDPG aldolase	NA	NA	NA	NA	NA
AXY44765.1|407611_409423_-	phosphogluconate dehydratase	NA	NA	NA	NA	NA
AXY44766.1|409657_411133_-	glucose-6-phosphate 1-dehydrogenase	NA	H6WFS4	Cyanophage	37.5	4.4e-79
AXY44767.1|411470_412340_+	MurR/RpiR family transcriptional regulator	NA	NA	NA	NA	NA
AXY44768.1|412467_413910_+	pyruvate kinase	NA	NA	NA	NA	NA
AXY44769.1|414041_415013_-	lauroyl-Kdo(2)-lipid IV(A) myristoyltransferase	NA	NA	NA	NA	NA
AXY44770.1|415131_416454_-	murein DD-endopeptidase MepM	NA	A8ATH6	Listeria_phage	40.9	1.2e-14
AXY49009.1|416469_417402_-	zinc ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AXY44771.1|417480_418236_+	Mn2+/Zn2+ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	28.3	1.3e-18
AXY44772.1|418232_419018_+	zinc ABC transporter permease	NA	NA	NA	NA	NA
AXY44773.1|419164_420175_-	Holliday junction branch migration DNA helicase RuvB	NA	A0A127AWE7	Bacillus_phage	25.5	5.6e-09
AXY44774.1|420183_420795_-	Holliday junction branch migration protein RuvA	NA	NA	NA	NA	NA
AXY49010.1|420933_420999_-	hypothetical protein	NA	NA	NA	NA	NA
AXY44775.1|421070_421673_+	hypothetical protein	NA	NA	NA	NA	NA
AXY44776.1|421674_422196_-	crossover junction endodeoxyribonuclease RuvC	NA	G3MA90	Bacillus_virus	35.1	2.0e-10
AXY44777.1|422230_422971_-	YebC/PmpR family DNA-binding transcriptional regulator	NA	NA	NA	NA	NA
AXY44778.1|422999_423452_-	dihydroneopterin triphosphate diphosphatase	NA	NA	NA	NA	NA
AXY44779.1|423444_425217_-|tRNA	aspartate--tRNA ligase	tRNA	NA	NA	NA	NA
AXY44780.1|425526_426093_+	isochorismatase	NA	NA	NA	NA	NA
AXY44781.1|426174_426399_-	hypothetical protein	NA	NA	NA	NA	NA
AXY44782.1|426694_427084_-	DNA polymerase V	NA	Q1MVE7	Enterobacteria_phage	72.1	3.9e-51
AXY44783.1|427162_427405_+	DinI family protein	NA	Q6UAW0	Klebsiella_phage	80.5	2.4e-30
AXY44784.1|427599_427821_+	hypothetical protein	NA	NA	NA	NA	NA
AXY44785.1|427822_428266_+|tail	tail fiber assembly protein	tail	A0A0F7LDZ0	Escherichia_phage	72.1	9.2e-57
AXY44786.1|428237_428831_-|tail	tail assembly chaperone	tail	K7P870	Enterobacteria_phage	63.0	1.7e-58
AXY44787.1|428830_429763_-|tail	phage tail protein	tail	K7PH60	Enterobacterial_phage	91.9	2.0e-157
AXY44788.1|430268_430502_+	hypothetical protein	NA	A0A0D4DAJ4	Escherichia_phage	96.1	1.3e-38
AXY44789.1|430533_434460_-	host specificity protein	NA	K7PMC2	Enterobacterial_phage	96.4	0.0e+00
AXY44790.1|434502_435120_-|tail	tail assembly protein	tail	M9NZA3	Enterobacteria_phage	99.5	1.5e-105
AXY44791.1|435112_435832_-	peptidase P60	NA	K7PJY5	Enterobacterial_phage	99.2	1.8e-142
AXY44792.1|435834_436572_-|tail	phage minor tail protein L	tail	M9NYX1	Enterobacteria_phage	99.6	1.2e-146
AXY44793.1|436628_436967_-|tail	phage tail protein	tail	E4WL34	Enterobacteria_phage	100.0	2.3e-60
AXY44794.1|436963_440101_-|tail	phage tail tape measure protein	tail	E4WL33	Enterobacteria_phage	94.9	0.0e+00
438861:438876	attL	TCGTTGAGCGTCGCGA	NA	NA	NA	NA
AXY44795.1|440084_440399_-|tail	phage tail assembly protein T	tail	E4WL32	Enterobacteria_phage	93.3	8.3e-52
AXY44796.1|440407_440839_-|tail	phage minor tail protein G	tail	M9NZD7	Enterobacteria_phage	90.9	1.1e-65
AXY44797.1|440849_441593_-|tail	phage tail protein	tail	K7PKX6	Enterobacterial_phage	99.2	1.7e-132
AXY44798.1|441602_442004_-|tail	phage tail protein	tail	K7PHM6	Enterobacterial_phage	100.0	4.1e-72
AXY44799.1|442000_442579_-|tail	phage tail protein	tail	K7PMB7	Enterobacterial_phage	98.4	1.7e-95
AXY44800.1|442588_442864_-	DNA breaking-rejoining protein	NA	K7PH55	Enterobacterial_phage	96.2	5.9e-38
AXY44801.1|442856_443183_-	DUF2190 domain-containing protein	NA	K7PJY3	Enterobacterial_phage	98.1	3.9e-52
AXY49011.1|443265_445212_-	peptidase S14	NA	K7PKX4	Enterobacterial_phage	99.1	0.0e+00
AXY44802.1|445225_446725_-|portal	phage portal protein	portal	K7PHM5	Enterobacterial_phage	99.8	3.8e-288
AXY44803.1|446721_446937_-	hypothetical protein	NA	K7PMB5	Enterobacterial_phage	98.6	1.4e-31
AXY44804.1|446933_449036_-	DNA packaging protein	NA	K7PH52	Enterobacterial_phage	98.7	0.0e+00
AXY44805.1|449035_449524_-	DUF1441 domain-containing protein	NA	K7PJY2	Enterobacterial_phage	100.0	3.1e-82
AXY44806.1|449707_450436_-	Fur-regulated protein	NA	M9NZE9	Enterobacteria_phage	98.3	4.1e-118
AXY44807.1|450610_450841_-	Fur-regulated protein	NA	Q38201	Enterobacteria_phage	98.7	1.0e-38
AXY44808.1|450839_451436_+	hypothetical protein	NA	M9NZJ1	Enterobacteria_phage	100.0	9.7e-110
AXY44809.1|451504_451702_-	hypothetical protein	NA	K7PHC3	Enterobacterial_phage	90.8	2.2e-26
AXY44810.1|451915_452482_-	DUF2514 domain-containing protein	NA	A0A291LBG9	Klebsiella_phage	32.5	4.5e-08
AXY49012.1|452415_452958_-	lysozyme	NA	K7PM52	Enterobacteria_phage	97.2	1.3e-100
AXY44811.1|452935_453214_-|holin	holin	holin	K7PGZ9	Enterobacteria_phage	97.8	5.1e-45
AXY44812.1|453359_454412_-	site-specific DNA-methyltransferase	NA	Q8SBE2	Shigella_phage	80.7	7.8e-171
AXY44813.1|454562_454754_-	TrmB family transcriptional regulator	NA	Q8SBE3	Shigella_phage	84.1	3.7e-23
AXY44814.1|454922_455822_-|protease	serine protease	protease	NA	NA	NA	NA
AXY44815.1|455834_456041_-	hypothetical protein	NA	NA	NA	NA	NA
AXY44816.1|456473_457163_-	antitermination protein	NA	NA	NA	NA	NA
AXY44817.1|458177_458861_-	phage regulatory protein/antirepressor Ant	NA	G0ZND1	Cronobacter_phage	60.0	3.0e-62
AXY44818.1|458874_459261_-	RusA family crossover junction endodeoxyribonuclease	NA	A0A192Y8N5	Salmonella_phage	88.4	4.1e-61
AXY44819.1|459257_460577_-	phage N-6-adenine-methyltransferase	NA	Q8HA94	Salmonella_phage	52.3	3.7e-117
AXY44820.1|460573_461455_-	GntR family transcriptional regulator	NA	U5P0A0	Shigella_phage	84.1	6.0e-31
AXY44821.1|461444_461624_-	DUF4222 domain-containing protein	NA	S5M7S5	Escherichia_phage	65.4	7.3e-13
AXY44822.1|461799_462363_-	hypothetical protein	NA	S5FXP0	Shigella_phage	27.1	1.1e-06
AXY44823.1|462394_462652_-	hypothetical protein	NA	H6WRX5	Salmonella_phage	41.1	3.5e-08
AXY44824.1|462721_463441_+	XRE family transcriptional regulator	NA	S5FUZ3	Shigella_phage	34.7	1.8e-25
AXY49013.1|463685_464051_+|protease	Clp protease	protease	A0A1C9IHZ4	Salmonella_phage	51.6	9.7e-12
AXY44825.1|464393_465311_+	recombination-associated protein RdgC	NA	S4TWL4	Salmonella_phage	64.0	1.7e-105
AXY44826.1|465419_465959_+	hypothetical protein	NA	A0A192Y8M4	Salmonella_phage	69.8	2.7e-66
AXY44827.1|466119_466374_+	hypothetical protein	NA	NA	NA	NA	NA
AXY44828.1|466370_466718_+	hypothetical protein	NA	A0A2H4A316	Salmonella_phage	65.5	3.5e-11
AXY44829.1|466719_467028_+	hypothetical protein	NA	NA	NA	NA	NA
AXY44830.1|467041_467509_+	DUF550 domain-containing protein	NA	S4TSR6	Salmonella_phage	84.7	9.5e-44
AXY44831.1|467511_467766_+	DUF4222 domain-containing protein	NA	H6WZF9	Escherichia_phage	54.4	4.1e-17
AXY44832.1|467787_468357_+	3'-5' exoribonuclease	NA	K7PLW7	Enterobacteria_phage	82.4	1.1e-91
AXY44833.1|468397_468634_+	excisionase	NA	Q8W657	Enterobacteria_phage	89.7	4.6e-39
AXY44834.1|468692_470006_+|integrase	integrase	integrase	Q8W658	Enterobacteria_phage	89.9	4.3e-235
AXY44835.1|469984_470758_+	DUF72 domain-containing protein	NA	Q859D1	Escherichia_coli_phage	99.2	6.1e-72
470464:470479	attR	TCGCGACGCTCAACGA	NA	NA	NA	NA
AXY44836.1|470810_471206_+	hypothetical protein	NA	NA	NA	NA	NA
AXY44837.1|471246_471990_+	carboxy-S-adenosyl-L-methionine synthase CmoA	NA	F5B419	Synechococcus_phage	30.0	4.6e-24
AXY44838.1|471986_472958_+|tRNA	tRNA 5-methoxyuridine(34)/uridine 5-oxyacetic acid(34) synthase CmoB	tRNA	NA	NA	NA	NA
AXY44839.1|473122_475552_-	Trimethylamine-N-oxide reductase 2	NA	NA	NA	NA	NA
AXY44840.1|475576_476677_-	cytochrome C	NA	NA	NA	NA	NA
AXY44841.1|477064_477811_-	copper homeostasis protein CutC	NA	NA	NA	NA	NA
AXY44842.1|477824_478391_-	VOC family protein	NA	NA	NA	NA	NA
AXY44843.1|478606_480340_+|tRNA	arginine--tRNA ligase	tRNA	A0A2K9L6Z2	Tupanvirus	33.7	8.8e-87
>prophage 2
CP022686	Escherichia coli Nissle 1917 chromosome, complete genome	5055316	860411	869856	5055316		Enterobacteria_phage(85.71%)	10	NA	NA
AXY45152.1|860411_861548_+	VWA domain-containing protein	NA	Q9EYF7	Enterobacteria_phage	97.7	3.8e-163
AXY45153.1|861544_863548_+	hypothetical protein	NA	Q9EYF6	Enterobacteria_phage	95.1	0.0e+00
AXY45154.1|863672_864134_+	hypothetical protein	NA	Q9EYF5	Enterobacteria_phage	99.3	3.2e-76
AXY45155.1|864174_864645_-	DUF1456 domain-containing protein	NA	Q9EYF4	Enterobacteria_phage	100.0	1.8e-82
AXY45156.1|864691_865411_-	DNA-binding response regulator	NA	NA	NA	NA	NA
AXY45157.1|865407_867093_-	sensor histidine kinase	NA	Q9EYF3	Enterobacteria_phage	99.6	2.5e-304
AXY45158.1|867314_868046_+	HTH-type transcriptional regulator MlrA	NA	Q9EYF2	Enterobacteria_phage	99.0	2.2e-111
AXY45159.1|868105_868213_+	hypothetical protein	NA	NA	NA	NA	NA
AXY45160.1|868193_868925_-	osmoprotectant uptake system permease	NA	NA	NA	NA	NA
AXY45161.1|868929_869856_-	ATP-binding protein	NA	F2Y1V5	Organic_Lake_phycodnavirus	27.3	2.6e-08
>prophage 3
CP022686	Escherichia coli Nissle 1917 chromosome, complete genome	5055316	1117948	1130905	5055316	integrase	Escherichia_phage(83.33%)	6	1123481:1123494	1131950:1131963
AXY45392.1|1117948_1118881_+	hypothetical protein	NA	E7DYY8	Enterobacteria_phage	99.0	4.6e-167
AXY45393.1|1119468_1119999_-	hypothetical protein	NA	A0A2L1IV11	Escherichia_phage	99.4	5.1e-86
AXY45394.1|1120046_1127996_-	autotransporter outer membrane beta-barrel domain-containing protein	NA	A0A2L1IV38	Escherichia_phage	99.3	0.0e+00
1123481:1123494	attL	TATCAAAAATCAGG	NA	NA	NA	NA
AXY45395.1|1128020_1128641_-	LuxR family transcriptional regulator	NA	A0A2L1IV08	Escherichia_phage	99.0	5.9e-118
AXY45396.1|1128958_1129588_-	pilus assembly protein	NA	A0A2L1IV36	Escherichia_phage	99.0	1.6e-118
AXY45397.1|1130335_1130905_+|integrase	integrase	integrase	A0A2L1IV36	Escherichia_phage	52.2	7.0e-49
1131950:1131963	attR	CCTGATTTTTGATA	NA	NA	NA	NA
>prophage 4
CP022686	Escherichia coli Nissle 1917 chromosome, complete genome	5055316	1461816	1468956	5055316		Escherichia_phage(83.33%)	6	NA	NA
AXY45695.1|1461816_1464378_+	DNA mismatch repair protein MutS	NA	E3T5Q7	Cafeteria_roenbergensis_virus	20.8	1.6e-31
AXY45696.1|1464483_1465140_+	serine/threonine protein phosphatase	NA	A0A077SLQ6	Escherichia_phage	45.2	2.8e-49
AXY45697.1|1465190_1465958_-	DeoR/GlpR transcriptional regulator	NA	A0A077SK06	Escherichia_phage	57.4	2.2e-69
AXY45698.1|1466153_1467062_+	oxidoreductase	NA	A0A077SLF7	Escherichia_phage	76.9	5.1e-118
AXY45699.1|1467058_1468321_+	hypothetical protein	NA	A0A077SLJ7	Escherichia_phage	61.4	2.2e-135
AXY45700.1|1468317_1468956_+	class II aldolase	NA	A0A077SK32	Escherichia_phage	75.0	2.8e-83
>prophage 5
CP022686	Escherichia coli Nissle 1917 chromosome, complete genome	5055316	1521375	1591017	5055316	tRNA,plate,transposase,protease	Vibrio_phage(13.33%)	53	NA	NA
AXY45749.1|1521375_1522158_-|tRNA	tRNA pseudouridine(65) synthase TruC	tRNA	NA	NA	NA	NA
AXY45750.1|1522157_1522487_-	hypothetical protein	NA	NA	NA	NA	NA
AXY45751.1|1522952_1524099_+|transposase	IS3 family transposase	transposase	Q716C2	Shigella_phage	96.3	2.4e-173
AXY45752.1|1524361_1524907_-	protein Syd	NA	NA	NA	NA	NA
AXY45753.1|1524974_1525823_+	NADPH-dependent 7-cyano-7-deazaguanine reductase QueF	NA	A0A2I7SAX1	Vibrio_phage	37.5	2.7e-41
AXY45754.1|1525934_1527299_+	LOG family protein YgdH	NA	NA	NA	NA	NA
AXY45755.1|1527855_1529145_+	HAAAP family serine/threonine permease	NA	NA	NA	NA	NA
AXY45756.1|1529202_1530570_+	L-serine ammonia-lyase	NA	NA	NA	NA	NA
AXY45757.1|1530681_1531437_+	flap endonuclease Xni	NA	F8WQ40	Bacillus_phage	33.5	1.1e-09
AXY45758.1|1531541_1532690_-	lactaldehyde reductase	NA	NA	NA	NA	NA
AXY45759.1|1532717_1533365_-	L-fuculose-phosphate aldolase	NA	NA	NA	NA	NA
AXY45760.1|1533911_1535228_+	MFS transporter	NA	NA	NA	NA	NA
AXY45761.1|1535260_1537036_+	L-fucose isomerase	NA	NA	NA	NA	NA
AXY45762.1|1537144_1538563_+	L-fuculokinase	NA	NA	NA	NA	NA
AXY45763.1|1538564_1538987_+	L-fucose mutarotase	NA	NA	NA	NA	NA
AXY45764.1|1539044_1539776_+	transcriptional regulator	NA	NA	NA	NA	NA
AXY45765.1|1539819_1540920_-	23S rRNA (cytidine(2498)-2'-O)-methyltransferase RlmM	NA	NA	NA	NA	NA
AXY45766.1|1540912_1541308_-	hypothetical protein	NA	NA	NA	NA	NA
AXY45767.1|1541326_1542244_-	glycine cleavage system transcriptional activator	NA	NA	NA	NA	NA
AXY45768.1|1542594_1542822_-	YgdI/YgdR family lipoprotein	NA	NA	NA	NA	NA
AXY45769.1|1543013_1544219_+	cysteine desulfurase CsdA	NA	Q2XUY6	environmental_halophage	37.2	4.6e-74
AXY45770.1|1544218_1544662_+	cysteine desulfurase sulfur acceptor subunit CsdE	NA	NA	NA	NA	NA
AXY45771.1|1544712_1545519_-|tRNA	tRNA cyclic N6-threonylcarbamoyladenosine(37) synthase TcdA	tRNA	S4VW33	Pandoravirus	32.8	1.4e-15
AXY45772.1|1545595_1546693_-	murein transglycosylase A	NA	NA	NA	NA	NA
AXY45773.1|1547833_1548334_+	type VI secretion system contractile sheath small subunit	NA	NA	NA	NA	NA
AXY45774.1|1548392_1549931_+	type VI secretion system contractile sheath large subunit	NA	NA	NA	NA	NA
AXY45775.1|1549950_1551288_+|plate	type VI secretion system baseplate subunit TssK	plate	NA	NA	NA	NA
AXY45776.1|1551284_1551950_+	type VI secretion protein ImpK	NA	NA	NA	NA	NA
AXY45777.1|1551962_1553615_+	hypothetical protein	NA	NA	NA	NA	NA
AXY45778.1|1553672_1554164_+	type VI secretion system tube protein Hcp	NA	NA	NA	NA	NA
AXY45779.1|1554355_1556992_+	type VI secretion system ATPase TssH	NA	K4FB40	Cronobacter_phage	30.4	1.4e-96
AXY45780.1|1557003_1559466_+	type VI secretion system tip protein VgrG	NA	A0A2H4JCD4	uncultured_Caudovirales_phage	32.7	2.3e-16
AXY45781.1|1559462_1560305_+	hypothetical protein	NA	NA	NA	NA	NA
AXY45782.1|1560301_1562278_+	hypothetical protein	NA	A0A077K801	Ralstonia_phage	30.7	5.6e-53
AXY45783.1|1562299_1562560_+	PAAR domain-containing protein	NA	NA	NA	NA	NA
AXY45784.1|1562559_1563993_+	hypothetical protein	NA	NA	NA	NA	NA
AXY45785.1|1563999_1567338_+	type VI secretion protein VasK	NA	NA	NA	NA	NA
AXY45786.1|1567330_1568941_+	type VI secretion system protein TssA	NA	NA	NA	NA	NA
AXY45787.1|1568974_1570735_+|plate	type VI secretion system baseplate subunit TssF	plate	NA	NA	NA	NA
AXY45788.1|1570698_1571778_+|plate	type VI secretion system baseplate subunit TssG	plate	NA	NA	NA	NA
AXY45789.1|1571758_1572295_+	type VI secretion system lipoprotein TssJ	NA	NA	NA	NA	NA
AXY45790.1|1572298_1572727_+|plate	type VI secretion system baseplate subunit TssE	plate	NA	NA	NA	NA
AXY45791.1|1572726_1574103_+	type VI secretion system protein VasL	NA	NA	NA	NA	NA
AXY45792.1|1574402_1575350_-	phosphoglycerate dehydrogenase	NA	M1I4S0	Paramecium_bursaria_Chlorella_virus	25.2	2.0e-16
AXY45793.1|1575421_1576018_-	KpsF/GutQ family sugar-phosphate isomerase	NA	A0A2P0VNK5	Tetraselmis_virus	36.2	3.1e-23
AXY45794.1|1576020_1577196_-	beta-cystathionase	NA	NA	NA	NA	NA
AXY45795.1|1577195_1578776_-	PTS glucose transporter subunit IIBC	NA	A0A2I7SAJ6	Vibrio_phage	35.7	2.7e-05
AXY49047.1|1578807_1579632_-	antitermination protein	NA	NA	NA	NA	NA
AXY45796.1|1579889_1581143_-	N-acetylmuramoyl-L-alanine amidase	NA	Q5YA51	Bacillus_phage	28.6	2.2e-15
AXY45797.1|1581374_1582706_+	N-acetylglutamate synthase	NA	NA	NA	NA	NA
AXY45798.1|1582767_1584594_-	exodeoxyribonuclease V subunit alpha	NA	A0A1P8DII4	Virus_Rctr197k	26.7	2.7e-25
AXY45799.1|1584593_1588136_-	exodeoxyribonuclease V subunit beta	NA	G3MA40	Bacillus_virus	21.6	1.5e-08
AXY45800.1|1588128_1591017_-|protease	protease 3	protease	A0A1V0SJA4	Klosneuvirus	25.6	6.9e-68
>prophage 6
CP022686	Escherichia coli Nissle 1917 chromosome, complete genome	5055316	1721387	1785486	5055316	tRNA,transposase,integrase	Shigella_phage(25.0%)	56	1720316:1720331	1759152:1759167
1720316:1720331	attL	AATGGGTTACCGCCGC	NA	NA	NA	NA
AXY45920.1|1721387_1722107_-|tRNA	tRNA (guanosine(46)-N7)-methyltransferase TrmB	tRNA	NA	NA	NA	NA
AXY45921.1|1722176_1722314_+	adenine glycosylase	NA	NA	NA	NA	NA
AXY45922.1|1722267_1723320_+	adenine DNA glycosylase	NA	NA	NA	NA	NA
AXY45923.1|1723347_1723623_+	Fe(2+)-trafficking protein	NA	NA	NA	NA	NA
AXY45924.1|1723687_1724767_+	lytic murein transglycosylase	NA	NA	NA	NA	NA
AXY45925.1|1724968_1726225_+	nucleoside permease	NA	NA	NA	NA	NA
AXY45926.1|1726273_1728409_-	ornithine decarboxylase	NA	NA	NA	NA	NA
AXY45927.1|1728489_1728693_-	hypothetical protein	NA	NA	NA	NA	NA
AXY45928.1|1728807_1729515_+	DUF554 domain-containing protein	NA	NA	NA	NA	NA
AXY45929.1|1729893_1731159_+|integrase	integrase	integrase	Q7M297	Enterobacteria_phage	38.1	2.1e-77
AXY45930.1|1731384_1732458_+	hypothetical protein	NA	NA	NA	NA	NA
AXY45931.1|1732600_1732831_+	hypothetical protein	NA	NA	NA	NA	NA
AXY45932.1|1734150_1734702_-	transcriptional regulator	NA	NA	NA	NA	NA
AXY45933.1|1737193_1737427_+	pilus assembly protein	NA	NA	NA	NA	NA
AXY45934.1|1737492_1737780_+	hypothetical protein	NA	NA	NA	NA	NA
AXY45935.1|1739476_1739653_-	hypothetical protein	NA	NA	NA	NA	NA
AXY45936.1|1740930_1741245_+	hypothetical protein	NA	NA	NA	NA	NA
AXY45937.1|1741241_1741502_+	DUF1471 domain-containing protein	NA	NA	NA	NA	NA
AXY45938.1|1741543_1742104_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA	NA
AXY45939.1|1742113_1742572_+	DUF417 domain-containing protein	NA	NA	NA	NA	NA
AXY45940.1|1743235_1744508_+|transposase	IS3 family transposase	transposase	Q9ZXG3	Shigella_phage	95.3	1.2e-170
AXY45941.1|1744483_1744672_+	hypothetical protein	NA	NA	NA	NA	NA
AXY45942.1|1744621_1745815_-	MFS transporter	NA	NA	NA	NA	NA
AXY45943.1|1745887_1747675_+	aerobactin synthase IucA	NA	NA	NA	NA	NA
AXY45944.1|1747675_1748623_+	N-acetyltransferase	NA	NA	NA	NA	NA
AXY45945.1|1748622_1750365_+	IucA/IucC family siderophore biosynthesis protein	NA	NA	NA	NA	NA
AXY45946.1|1750361_1751639_+	L-lysine N6-monooxygenase	NA	NA	NA	NA	NA
AXY45947.1|1751720_1753922_+	TonB-dependent siderophore receptor	NA	NA	NA	NA	NA
AXY45948.1|1753859_1754105_-	hypothetical protein	NA	NA	NA	NA	NA
AXY45949.1|1754865_1758753_+	autotransporter outer membrane beta-barrel domain-containing protein	NA	Q9LA58	Enterobacterial_phage	39.0	1.2e-227
AXY45950.1|1759024_1759393_+	hypothetical protein	NA	NA	NA	NA	NA
1759152:1759167	attR	AATGGGTTACCGCCGC	NA	NA	NA	NA
AXY45951.1|1759349_1760450_+|transposase	IS30 family transposase	transposase	W5R8L2	Staphylococcus_phage	35.7	3.0e-40
AXY45952.1|1760477_1761625_-|transposase	IS3 family transposase	transposase	Q716C2	Shigella_phage	96.3	2.4e-173
AXY45953.1|1762668_1763124_+	hypothetical protein	NA	NA	NA	NA	NA
AXY45954.1|1766265_1766538_-	neurotensin receptor R8	NA	NA	NA	NA	NA
AXY45955.1|1766534_1766750_-	hypothetical protein	NA	NA	NA	NA	NA
AXY45956.1|1766753_1767137_-	hypothetical protein	NA	NA	NA	NA	NA
AXY45957.1|1767133_1767325_-	hypothetical protein	NA	NA	NA	NA	NA
AXY45958.1|1767412_1767733_-	hypothetical protein	NA	NA	NA	NA	NA
AXY45959.1|1768058_1768283_-	hypothetical protein	NA	NA	NA	NA	NA
AXY45960.1|1768516_1770607_-	TonB-dependent receptor	NA	A0A0P0I887	Acinetobacter_phage	31.5	2.6e-08
AXY45961.1|1770763_1770949_+	hypothetical protein	NA	NA	NA	NA	NA
AXY45962.1|1771106_1772380_-|transposase	IS3 family transposase	transposase	Q9ZXG3	Shigella_phage	94.4	7.5e-168
AXY45963.1|1772486_1773476_-	hypothetical protein	NA	Q08JA2	Stx2-converting_phage	57.7	4.0e-108
AXY45964.1|1773572_1774307_+	transcriptional regulator NanR	NA	NA	NA	NA	NA
AXY45965.1|1774342_1775278_-	alpha/beta hydrolase	NA	NA	NA	NA	NA
AXY45966.1|1775327_1776446_-	N-acetylneuraminic acid mutarotase	NA	NA	NA	NA	NA
AXY45967.1|1776449_1777160_-	N-acetylneuraminic acid channel protein	NA	NA	NA	NA	NA
AXY45968.1|1777205_1778036_-	alpha/beta hydrolase	NA	NA	NA	NA	NA
AXY45969.1|1778039_1779548_-	MFS transporter	NA	Q6JIH2	Burkholderia_virus	22.7	2.3e-06
AXY45970.1|1779560_1780436_-	N-acetylmannosamine kinase	NA	NA	NA	NA	NA
AXY45971.1|1780469_1781387_-	N-acetylneuraminate lyase	NA	NA	NA	NA	NA
AXY49051.1|1781538_1781676_+	hypothetical protein	NA	NA	NA	NA	NA
AXY45972.1|1782047_1782473_+	IS66 family insertion sequence hypothetical protein	NA	Q6H9S5	Enterobacteria_phage	74.2	3.6e-34
AXY45973.1|1782469_1782820_+	IS66 family insertion sequence hypothetical protein	NA	A0A0P0ZBY2	Stx2-converting_phage	62.1	5.4e-36
AXY45974.1|1783947_1785486_+|transposase	IS66 family transposase	transposase	A0A0P0ZBS5	Stx2-converting_phage	93.9	1.2e-281
>prophage 7
CP022686	Escherichia coli Nissle 1917 chromosome, complete genome	5055316	3608554	3649986	5055316	bacteriocin,transposase	Bacillus_phage(12.5%)	42	NA	NA
AXY47652.1|3608554_3609076_+|transposase	IS3 family transposase	transposase	NA	NA	NA	NA
AXY47653.1|3609175_3609898_+|transposase	IS3 family transposase	transposase	A0A1B1P773	Bacillus_phage	53.6	8.5e-68
AXY47654.1|3609970_3610168_-	DNA gyrase inhibitor YacG	NA	NA	NA	NA	NA
AXY47655.1|3610177_3610921_-	cell division protein ZapD	NA	NA	NA	NA	NA
AXY47656.1|3610920_3611541_-	dephospho-CoA kinase	NA	NA	NA	NA	NA
AXY47657.1|3611765_3612809_+	guanosine monophosphate reductase	NA	A0A0N9Q9A5	Chrysochromulina_ericina_virus	56.3	6.3e-104
AXY47658.1|3612843_3614046_-	type IV pilin biogenesis protein	NA	NA	NA	NA	NA
AXY47659.1|3614035_3615421_-	type II secretion system protein GspE	NA	NA	NA	NA	NA
AXY47660.1|3615430_3615871_-	prepilin peptidase-dependent pilin	NA	NA	NA	NA	NA
AXY47661.1|3616074_3616968_-	carboxylating nicotinate-nucleotide diphosphorylase	NA	NA	NA	NA	NA
AXY47662.1|3617055_3617607_+	1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD	NA	A0A1W6DX33	Sphingobium_phage	31.6	1.5e-11
AXY47663.1|3617603_3618458_+	regulatory signaling modulator protein AmpE	NA	NA	NA	NA	NA
AXY47664.1|3618500_3619874_-	aromatic amino acid transporter AroP	NA	NA	NA	NA	NA
AXY47665.1|3620398_3622180_+	type VI secretion system tube protein Hcp	NA	NA	NA	NA	NA
AXY49115.1|3622185_3622476_+|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
AXY47666.1|3622634_3622871_+	HNH endonuclease	NA	NA	NA	NA	NA
AXY47667.1|3622873_3623167_+|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
AXY47668.1|3623322_3623562_+	hypothetical protein	NA	NA	NA	NA	NA
AXY47669.1|3623562_3623853_+|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
AXY47670.1|3624308_3625073_+	pyruvate dehydrogenase complex repressor	NA	NA	NA	NA	NA
AXY47671.1|3625069_3625252_-	hypothetical protein	NA	NA	NA	NA	NA
AXY47672.1|3625233_3627897_+	pyruvate dehydrogenase (acetyl-transferring), homodimeric type	NA	NA	NA	NA	NA
AXY47673.1|3627911_3629804_+	pyruvate dehydrogenase complex dihydrolipoyllysine-residue acetyltransferase	NA	NA	NA	NA	NA
AXY47674.1|3630011_3631436_+	dihydrolipoyl dehydrogenase	NA	A0A2K5B2C5	Erysipelothrix_phage	27.8	4.2e-42
AXY47675.1|3631677_3633459_-	DUF3300 domain-containing protein	NA	NA	NA	NA	NA
AXY47676.1|3633716_3633833_+	aconitate hydratase	NA	NA	NA	NA	NA
AXY47677.1|3633813_3636411_+	aconitate hydratase B	NA	NA	NA	NA	NA
AXY47678.1|3636585_3636948_+	hypothetical protein	NA	NA	NA	NA	NA
AXY47679.1|3636985_3637780_-	S-adenosylmethionine decarboxylase proenzyme	NA	NA	NA	NA	NA
AXY47680.1|3637795_3638662_-	polyamine aminopropyltransferase	NA	NA	NA	NA	NA
AXY47681.1|3638767_3639115_-	hypothetical protein	NA	NA	NA	NA	NA
AXY47682.1|3639280_3640831_+	multicopper oxidase CueO	NA	A0A0C6DWA2	Mamastrovirus	55.4	2.1e-18
AXY47683.1|3640908_3643299_-	membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family	NA	NA	NA	NA	NA
AXY47684.1|3643504_3644041_+	hypoxanthine phosphoribosyltransferase	NA	A0A218MMB5	uncultured_virus	33.1	5.1e-17
AXY47685.1|3644081_3644744_-	carbonate dehydratase	NA	NA	NA	NA	NA
AXY47686.1|3644852_3645779_+	multidrug ABC transporter ATP-binding protein	NA	W6JKT0	Anomala_cuprea_entomopoxvirus	34.0	1.2e-21
AXY47687.1|3645775_3646546_+	inner membrane transport permease YadH	NA	NA	NA	NA	NA
AXY47688.1|3646650_3647091_+	PTS sugar transporter subunit IIA	NA	NA	NA	NA	NA
AXY47689.1|3647154_3648384_+	polysaccharide deacetylase family protein	NA	NA	NA	NA	NA
AXY47690.1|3648387_3648768_-	aspartate 1-decarboxylase	NA	NA	NA	NA	NA
AXY47691.1|3648717_3648921_+	hypothetical protein	NA	NA	NA	NA	NA
AXY47692.1|3649041_3649986_+|transposase	ISNCY family transposase	transposase	Q2A0A7	Sodalis_phage	49.8	6.5e-60
>prophage 8
CP022686	Escherichia coli Nissle 1917 chromosome, complete genome	5055316	4782321	4823062	5055316	tRNA,lysis,portal,integrase,capsid,transposase,tail,terminase,head	Enterobacteria_phage(55.32%)	57	4772840:4772853	4798151:4798164
4772840:4772853	attL	CACCACCACAAATG	NA	NA	NA	NA
AXY48717.1|4782321_4783428_-|tRNA	tRNA 2-thiouridine(34) synthase MnmA	tRNA	NA	NA	NA	NA
AXY48718.1|4783481_4783943_-	NUDIX hydrolase	NA	NA	NA	NA	NA
AXY48719.1|4783952_4784606_-	23S rRNA pseudouridine synthase E	NA	NA	NA	NA	NA
AXY48720.1|4784777_4786028_+	isocitrate dehydrogenase (NADP(+))	NA	Q77Z09	Phage_21	100.0	3.8e-23
AXY48721.1|4786141_4786555_-|integrase	integrase	integrase	Q77Z04	Phage_21	99.3	2.9e-73
AXY48722.1|4786599_4787747_-|transposase	IS3 family transposase	transposase	Q716C2	Shigella_phage	96.3	2.4e-173
AXY48723.1|4787842_4788424_+	superinfection exclusion protein B	NA	K7P6T7	Enterobacteria_phage	92.2	5.2e-92
AXY48724.1|4788440_4788713_-	antitermination protein N	NA	A0A0N7C217	Escherichia_phage	98.9	2.8e-40
AXY48725.1|4788690_4788873_-	hypothetical protein	NA	A0A0N7C057	Escherichia_phage	98.3	1.1e-27
AXY49167.1|4788997_4789243_+	hypothetical protein	NA	Q7Y2L5	Escherichia_phage	63.2	2.2e-15
AXY48726.1|4789149_4789902_-	DUF1828 domain-containing protein	NA	NA	NA	NA	NA
AXY48727.1|4789898_4790456_-	hypothetical protein	NA	NA	NA	NA	NA
AXY48728.1|4790495_4791191_-	phage repressor	NA	A0A0N7BTS4	Escherichia_phage	100.0	8.6e-134
AXY48729.1|4791266_4791482_+	XRE family transcriptional regulator	NA	A0A0N7C2U7	Escherichia_phage	100.0	2.2e-35
AXY48730.1|4791623_4791920_+	hypothetical protein	NA	G9L678	Escherichia_phage	94.9	2.2e-46
AXY48731.1|4791952_4792852_+	Replication protein O	NA	K7P7F0	Enterobacteria_phage	99.0	3.5e-172
AXY48732.1|4792848_4793550_+	Replication protein P	NA	A0A0P0ZD31	Stx2-converting_phage	99.6	2.9e-129
AXY48733.1|4793546_4793837_+	protein ren	NA	O48423	Enterobacteria_phage	97.9	2.8e-46
AXY48734.1|4793892_4794351_+	recombination protein NinB	NA	M1FPM8	Enterobacteria_phage	100.0	1.6e-80
AXY48735.1|4794347_4794875_+	phage N-6-adenine-methyltransferase	NA	A0A1I9LJP9	Stx_converting_phage	99.4	4.7e-100
AXY48736.1|4794871_4795048_+	NinE family protein	NA	A5VW90	Enterobacteria_phage	96.6	3.3e-26
AXY48737.1|4795008_4795392_+	protein ninX	NA	Q76H72	Enterobacteria_phage	96.5	1.7e-62
AXY48738.1|4795384_4795579_+	protein ninF	NA	NA	NA	NA	NA
AXY48739.1|4795598_4795961_+	hypothetical protein	NA	K7PM48	Enterobacteria_phage	96.5	4.3e-60
AXY48740.1|4795957_4796098_+	hypothetical protein	NA	K7PHH3	Enterobacteria_phage	67.4	3.6e-07
AXY48741.1|4796183_4796567_+	antitermination protein	NA	A0A088CD47	Shigella_phage	83.3	1.5e-55
AXY48742.1|4796755_4797838_-	phosphoporin PhoE	NA	Q1MVN1	Enterobacteria_phage	80.1	1.6e-166
AXY48743.1|4798426_4798642_+|lysis	lysis protein S	lysis	A5LH82	Enterobacteria_phage	100.0	9.0e-34
4798151:4798164	attR	CATTTGTGGTGGTG	NA	NA	NA	NA
AXY48744.1|4798641_4799139_+	lysozyme	NA	M1FJA0	Enterobacteria_phage	97.0	5.4e-90
AXY48745.1|4799135_4799597_+|lysis	lysis protein	lysis	A0A0K2FJD0	Enterobacteria_phage	98.0	2.1e-75
AXY48746.1|4799628_4799922_-	lipoprotein bor	NA	K7PL54	Enterobacteria_phage	92.8	7.0e-45
AXY48747.1|4800348_4800729_+	hypothetical protein	NA	H6WZK5	Escherichia_phage	72.2	2.6e-39
AXY48748.1|4800851_4801205_-	hypothetical protein	NA	NA	NA	NA	NA
AXY49168.1|4801092_4801413_-	hypothetical protein	NA	NA	NA	NA	NA
AXY48749.1|4801347_4801599_+	DNA-packaging protein	NA	NA	NA	NA	NA
AXY48750.1|4801680_4802229_+|terminase	phage terminase small subunit	terminase	A0A0U2S671	Escherichia_phage	84.2	1.0e-57
AXY48751.1|4802200_4804129_+|terminase	terminase	terminase	A0A0K2FJ14	Enterobacteria_phage	66.7	2.5e-260
AXY48752.1|4804112_4804319_+|head	phage head-stabilizing protein	head	K7PM10	Enterobacteria_phage	55.4	3.0e-10
AXY48753.1|4804315_4805908_+|portal	phage portal protein	portal	K7P6U7	Enterobacteria_phage	60.9	4.2e-184
AXY48754.1|4805897_4807403_+	scaffolding protein	NA	A0A2I6TC87	Escherichia_phage	53.7	3.6e-100
AXY48755.1|4807439_4807787_+|head	head decoration protein	head	A0A2R9YJN3	Escherichia_phage	58.1	2.0e-22
AXY48756.1|4807844_4808873_+|capsid	minor capsid protein E	capsid	C6ZCY2	Enterobacteria_phage	61.6	5.9e-115
AXY48757.1|4808876_4809299_+	hypothetical protein	NA	NA	NA	NA	NA
AXY48758.1|4809291_4809645_+|tail	phage tail protein	tail	A0A0K2FJB7	Enterobacteria_phage	65.0	3.4e-38
AXY48759.1|4809656_4810235_+|tail	phage tail protein	tail	A0A2R9YJK4	Escherichia_phage	99.0	2.9e-79
AXY48760.1|4810231_4810627_+|tail	phage tail protein	tail	A0A2R9YJI2	Escherichia_phage	97.7	5.5e-69
AXY49169.1|4810634_4811375_+|tail	phage tail protein	tail	A0A0K2FJ05	Enterobacteria_phage	95.9	3.7e-127
AXY48761.1|4811390_4811813_+|tail	phage minor tail protein G	tail	A0A0K2FIQ8	Enterobacteria_phage	91.4	2.7e-66
AXY48762.1|4811794_4812229_+|tail	phage tail assembly protein T	tail	A0A0K2FJB3	Enterobacteria_phage	90.0	9.0e-57
AXY48763.1|4812221_4814783_+|tail	phage tail tape measure protein	tail	A0A0K2FI43	Enterobacteria_phage	94.5	0.0e+00
AXY48764.1|4814779_4815109_+|tail	phage tail protein	tail	A0A2R9YJM0	Escherichia_phage	94.5	5.4e-54
AXY48765.1|4815108_4815807_+|tail	phage minor tail protein L	tail	A0A0K2FJ01	Enterobacteria_phage	97.8	4.0e-131
AXY48766.1|4815812_4816556_+|tail	phage tail protein	tail	K7PLW1	Enterobacteria_phage	97.2	1.1e-147
AXY48767.1|4816453_4817125_+|tail	tail assembly protein	tail	A0A2R9YJH6	Escherichia_phage	100.0	8.1e-105
AXY48768.1|4817185_4820668_+	host specificity protein J	NA	A0A291AWT4	Escherichia_phage	89.5	0.0e+00
AXY48769.1|4820726_4822787_+|tail	phage tail protein	tail	A0A0E3M194	Enterobacteria_phage	53.4	2.0e-125
AXY48770.1|4822783_4823062_+	hypothetical protein	NA	A0A0E3JSQ1	Enterobacteria_phage	56.5	7.6e-25
