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
CP025555	Salmonella enterica subsp. enterica serovar Typhimurium strain PIR00538 chromosome, complete genome	4870262	1216079	1292814	4870262	portal,tail,lysis,integrase,protease,head,terminase,capsid,holin,transposase,tRNA	Salmonella_phage(37.93%)	94	1208160:1208176	1298661:1298677
1208160:1208176	attL	CGCCTTATCCGGCCTAC	NA	NA	NA	NA
AVU97146.1|1216079_1217117_+|tRNA	tRNA/rRNA methyltransferase	tRNA	NA	NA	NA	NA
AVU97147.1|1217232_1217922_-	uracil-DNA glycosylase	NA	A0A172DS90	Canid_alphaherpesvirus	49.5	4.6e-55
AVU97148.1|1218240_1218624_+	autonomous glycyl radical cofactor GrcA	NA	Q7Y524	Enterobacteria_phage	74.0	6.1e-33
AVU97149.1|1218685_1219273_-	cysteine/O-acetylserine efflux protein	NA	NA	NA	NA	NA
AVV00616.1|1219375_1220275_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AVU97150.1|1220292_1221627_-	ATP-dependent RNA helicase SrmB	NA	A0A1B1IS59	uncultured_Mediterranean_phage	29.7	1.6e-43
AVU97151.1|1221757_1222495_+|tRNA	tRNA(1)(Val) (adenine(37)-N(6))-methyltransferase	tRNA	NA	NA	NA	NA
AVU97152.1|1222479_1224102_-	L-aspartate oxidase	NA	NA	NA	NA	NA
AVU97153.1|1224186_1224366_+	hypothetical protein	NA	NA	NA	NA	NA
AVU97154.1|1224526_1225102_+	RNA polymerase sigma factor RpoE	NA	NA	NA	NA	NA
AVU97155.1|1225133_1225784_+	anti-sigma-E factor RseA	NA	NA	NA	NA	NA
AVU97156.1|1225783_1226740_+	sigma-E factor regulatory protein RseB	NA	NA	NA	NA	NA
AVU97157.1|1226736_1227216_+	SoxR reducing system protein RseC	NA	NA	NA	NA	NA
AVU97158.1|1227245_1227362_+	transcriptional regulator	NA	NA	NA	NA	NA
AVU97159.1|1227713_1228943_+|integrase	integrase	integrase	H6WRW7	Salmonella_phage	94.4	2.9e-233
AVU97160.1|1228920_1229205_-	excisionase	NA	H6WRW8	Salmonella_phage	86.2	3.1e-42
AVU97161.1|1229245_1229485_-	DUF4060 domain-containing protein	NA	S4TR31	Salmonella_phage	100.0	2.0e-37
AVU97162.1|1229527_1230685_-	enterohemolysin	NA	S4TTE8	Salmonella_phage	99.5	3.9e-216
AVU97163.1|1230647_1233575_-	exodeoxyribonuclease	NA	S4TNL0	Salmonella_phage	99.3	0.0e+00
AVU97164.1|1233701_1234052_-	DNA breaking-rejoining protein	NA	S4TSN6	Salmonella_phage	97.4	1.1e-60
AVU97165.1|1234073_1234232_-	hypothetical protein	NA	H6WRX3	Salmonella_phage	98.1	9.0e-23
AVU97166.1|1234688_1235351_-	hypothetical protein	NA	NA	NA	NA	NA
AVU97167.1|1235350_1235737_-	hypothetical protein	NA	NA	NA	NA	NA
AVU97168.1|1235729_1236569_-	chromosome partitioning protein ParA	NA	A0A1X9IGI7	Lactococcus_phage	33.3	1.5e-31
AVU97169.1|1236627_1237023_-	transcriptional regulator	NA	K7PM35	Enterobacteria_phage	61.4	1.9e-37
AVU97170.1|1237122_1237365_+	Rha family transcriptional regulator	NA	A0A0M4QX15	Salmonella_phage	64.1	2.1e-23
AVU97171.1|1237324_1237699_+	hypothetical protein	NA	S4TTD7	Salmonella_phage	98.4	1.9e-63
AVU97172.1|1237790_1238675_+	replication protein	NA	K7PGT1	Enterobacteria_phage	47.2	1.3e-46
AVU97173.1|1238671_1239367_+	phage replication protein	NA	G8C7U6	Escherichia_phage	45.4	2.1e-55
AVU97174.1|1239380_1240079_+	DUF550 domain-containing protein	NA	A0A0M4RTV1	Salmonella_phage	85.7	2.1e-63
AVU97175.1|1240186_1240819_+	hypothetical protein	NA	NA	NA	NA	NA
AVU97176.1|1241061_1241295_+	DinI family protein	NA	H6WRY5	Salmonella_phage	100.0	5.6e-37
AVU97177.1|1241411_1241660_+	hypothetical protein	NA	A0A0U2C0C8	Salmonella_phage	100.0	1.6e-42
AVU97178.1|1241694_1242297_+	hypothetical protein	NA	S4TTI0	Salmonella_phage	99.0	2.8e-109
AVU97179.1|1242296_1242503_+	hypothetical protein	NA	S4TNP0	Salmonella_phage	97.1	1.7e-34
AVU97180.1|1242505_1243117_+	recombination protein NinG	NA	A0A0M4RU10	Salmonella_phage	99.0	1.2e-91
AVU97181.1|1243113_1243254_+	hypothetical protein	NA	A0A0M5M7B2	Salmonella_phage	78.9	7.2e-08
AVU97182.1|1243250_1243928_+	antiterminator	NA	I6PDF8	Cronobacter_phage	54.0	7.7e-63
AVU97183.1|1243924_1244110_+	hypothetical protein	NA	NA	NA	NA	NA
AVU97184.1|1244200_1244764_+	hypothetical protein	NA	A0A0P0ZC44	Stx2-converting_phage	92.2	7.6e-56
AVU97185.1|1245270_1245459_+	hypothetical protein	NA	NA	NA	NA	NA
AVU97186.1|1245673_1246360_-|protease	type III secretion system effector protease GogA	protease	Q9MBM2	Phage_Gifsy-1	100.0	9.4e-133
AVV00617.1|1246635_1246965_+|holin	phage holin, lambda family	holin	A0A0M3ULK9	Salmonella_phage	100.0	5.8e-56
AVU97187.1|1246948_1247401_+	lysozyme	NA	A0A0M4R365	Salmonella_phage	97.3	5.1e-79
AVV00618.1|1247418_1247871_+|lysis	lysis protein	lysis	A0A0M4RD57	Salmonella_phage	92.7	2.9e-66
AVU97188.1|1248106_1248508_-	inhibitor of g-type lysozyme	NA	NA	NA	NA	NA
AVU97189.1|1248542_1248737_+	hypothetical protein	NA	NA	NA	NA	NA
AVU97190.1|1248794_1249340_+|terminase	terminase small subunit	terminase	A0A0U2S671	Escherichia_phage	80.6	1.5e-56
AVU97191.1|1249311_1251243_+|terminase	phage terminase large subunit family protein	terminase	A0A0K2FJ14	Enterobacteria_phage	65.7	6.3e-259
AVU97192.1|1251226_1251430_+|tail	phage tail protein	tail	K7PM10	Enterobacteria_phage	73.8	1.9e-17
AVU97193.1|1251426_1253007_+|portal	phage portal protein	portal	K7P6U7	Enterobacteria_phage	62.8	9.6e-189
AVU97194.1|1252996_1254493_+	S49 family peptidase	NA	A0A0K2FI53	Enterobacteria_phage	52.2	8.1e-97
AVU97195.1|1254505_1254853_+|head	head decoration protein	head	A0A2R9YJN3	Escherichia_phage	52.7	9.2e-20
AVU97196.1|1254907_1255936_+|capsid	minor capsid protein E	capsid	C6ZCY2	Enterobacteria_phage	61.1	1.7e-114
AVU97197.1|1255993_1256353_+	DNA packaging protein	NA	NA	NA	NA	NA
AVU97198.1|1256363_1256747_+|tail	phage tail protein	tail	A0A0K2FJB7	Enterobacteria_phage	55.6	9.2e-29
AVU97199.1|1256774_1257353_+|tail	phage tail protein	tail	A5LH33	Enterobacteria_phage	80.2	3.7e-82
AVU97200.1|1257401_1258652_-|transposase	transposase	transposase	Q9G0F2	Phage_Gifsy-1	100.0	7.8e-218
AVU97201.1|1258640_1259042_+|tail	phage tail protein	tail	Q9G0F3	Phage_Gifsy-1	100.0	8.1e-52
AVU97202.1|1259049_1259796_+|tail	phage tail protein	tail	A0A291AWU6	Escherichia_phage	76.9	1.9e-99
AVU97203.1|1259846_1260242_+|tail	phage minor tail protein G	tail	A5LH36	Enterobacteria_phage	56.5	2.3e-30
AVU97204.1|1260238_1260577_+|tail	phage tail assembly protein T	tail	A5LH37	Enterobacteria_phage	62.4	1.3e-31
AVU97205.1|1260548_1263644_+|tail	phage tail tape measure protein	tail	A0A291AWX1	Escherichia_phage	62.3	6.1e-280
AVU97206.1|1263646_1263976_+|tail	phage tail protein	tail	A5LH39	Enterobacteria_phage	70.4	1.3e-42
AVU97207.1|1263985_1264684_+|tail	phage minor tail protein L	tail	A0A1B5FP81	Escherichia_phage	76.3	5.5e-104
AVU97208.1|1264690_1265428_+|tail	phage tail protein	tail	K7PLW1	Enterobacteria_phage	85.0	5.2e-129
AVU97209.1|1265325_1265973_+|tail	tail assembly protein	tail	A5LH42	Enterobacteria_phage	77.7	2.1e-89
AVU97210.1|1266034_1269397_+	host specificity protein J	NA	K7PKJ2	Enterobacteria_phage	79.7	0.0e+00
AVU97211.1|1269435_1269678_+	hypothetical protein	NA	NA	NA	NA	NA
AVU97212.1|1269731_1272104_+|tail	phage tail protein	tail	A0A0K2FIZ6	Escherichia_phage	65.6	1.1e-90
AVU97213.1|1272100_1272925_+|tail	phage tail protein	tail	A0A0M4QWS3	Salmonella_phage	92.0	1.2e-145
AVU97214.1|1272914_1273493_+|tail	tail fiber assembly protein	tail	A0A0M4RTP2	Salmonella_phage	88.9	3.6e-93
AVU97215.1|1273589_1273817_-	phage virulence factor	NA	NA	NA	NA	NA
AVU97216.1|1273923_1274136_+	hypothetical protein	NA	S4TTF2	Salmonella_phage	90.6	3.8e-08
AVV00619.1|1274198_1274264_+	hypothetical protein	NA	NA	NA	NA	NA
AVU97217.1|1274928_1275474_-|transposase	transposase	transposase	NA	NA	NA	NA
AVU97218.1|1275720_1275858_-	hypothetical protein	NA	NA	NA	NA	NA
AVU97219.1|1276336_1277830_-	type III secretion system protein	NA	Q9MBM1	Phage_Gifsy-1	100.0	3.4e-260
AVU97220.1|1278234_1280034_+	elongation factor 4	NA	E4ZFJ7	Streptococcus_phage	24.9	7.2e-23
AVU97221.1|1280050_1281025_+	S26 family signal peptidase	NA	NA	NA	NA	NA
AVU97222.1|1281298_1281979_+	ribonuclease 3	NA	A0A2K9L5P0	Tupanvirus	31.8	7.4e-21
AVU97223.1|1281975_1282881_+	GTPase Era	NA	NA	NA	NA	NA
AVU97224.1|1282892_1283621_+	DNA repair protein RecO	NA	NA	NA	NA	NA
AVU97225.1|1283632_1284364_+	pyridoxine 5'-phosphate synthase	NA	NA	NA	NA	NA
AVU97226.1|1284363_1284744_+	holo-ACP synthase	NA	NA	NA	NA	NA
AVU97227.1|1284855_1285116_-	ferredoxin	NA	A0A1B1IWY9	uncultured_Mediterranean_phage	52.3	1.4e-17
AVU97228.1|1285153_1286080_-	LysR family transcriptional regulator	NA	A0A2P0ZL89	Lactobacillus_phage	24.4	3.0e-09
AVU97229.1|1286195_1287392_+	MFS transporter	NA	NA	NA	NA	NA
AVU97230.1|1287413_1288331_+	2-dehydropantoate 2-reductase	NA	NA	NA	NA	NA
AVU97231.1|1288369_1289218_-	MurR/RpiR family transcriptional regulator	NA	NA	NA	NA	NA
AVU97232.1|1289333_1290227_+	N-acetylmuramic acid 6-phosphate etherase	NA	NA	NA	NA	NA
AVU97233.1|1290237_1291599_+	PTS sugar transporter subunit IIC	NA	NA	NA	NA	NA
AVU97234.1|1291602_1292238_+	phosphatidylglycerophosphatase C	NA	NA	NA	NA	NA
AVU97235.1|1292262_1292814_+|tRNA	tRNA adenosine(34) deaminase TadA	tRNA	NA	NA	NA	NA
1298661:1298677	attR	GTAGGCCGGATAAGGCG	NA	NA	NA	NA
>prophage 2
CP025555	Salmonella enterica subsp. enterica serovar Typhimurium strain PIR00538 chromosome, complete genome	4870262	1663554	1675845	4870262	holin,tail	Salmonella_phage(45.45%)	11	NA	NA
AVU97560.1|1663554_1665921_+	SPI-2 type III secretion system effector E3 ubiquitin transferase SspH2	NA	Q9MBL9	Phage_Gifsy-2	88.7	2.9e-72
AVV00633.1|1666249_1667239_+	DUF968 domain-containing protein	NA	A0A1C9IHZ5	Salmonella_phage	97.3	2.4e-190
AVU97561.1|1667253_1667622_+	antitermination protein Q	NA	A5LH77	Enterobacteria_phage	81.7	7.4e-52
AVU97562.1|1667650_1668982_-	NTPase	NA	R9TRQ8	Vibrio_phage	28.5	2.1e-19
AVU97563.1|1669278_1669608_+|holin	phage holin, lambda family	holin	Q8SBE1	Shigella_phage	94.6	3.9e-36
AVU97564.1|1670200_1671442_+	hypothetical protein	NA	Q8HAB4	Salmonella_phage	95.3	1.0e-52
AVU97565.1|1671444_1671972_+|tail	tail fiber assembly protein	tail	A0A1S6KZZ1	Salmonella_phage	31.3	3.1e-11
AVU97566.1|1672349_1672793_+|tail	tail assembly chaperone	tail	A0A0F7LDZ0	Escherichia_phage	43.9	1.4e-28
AVU97567.1|1672846_1674676_-	acyltransferase	NA	C6ZR20	Salmonella_phage	29.6	3.0e-61
AVU97568.1|1675023_1675314_-	DinI family protein	NA	S4TND2	Salmonella_phage	83.3	4.7e-25
AVU97569.1|1675341_1675845_+	DNA polymerase V	NA	Q1MVE7	Enterobacteria_phage	71.3	9.5e-50
>prophage 3
CP025555	Salmonella enterica subsp. enterica serovar Typhimurium strain PIR00538 chromosome, complete genome	4870262	1747896	1757067	4870262	tRNA	Enterobacteria_phage(66.67%)	10	NA	NA
AVU97639.1|1747896_1748844_+	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	31.2	1.7e-23
AVU97640.1|1748827_1749559_+	ABC transporter permease	NA	NA	NA	NA	NA
AVU97641.1|1749539_1749647_-	hypothetical protein	NA	NA	NA	NA	NA
AVU97642.1|1749706_1750438_-	transcriptional regulator	NA	Q9EYF2	Enterobacteria_phage	87.9	4.5e-101
AVU97643.1|1750660_1752346_+	sensor histidine kinase	NA	Q9EYF3	Enterobacteria_phage	91.1	6.2e-279
AVU97644.1|1752342_1753062_+	DNA-binding response regulator	NA	NA	NA	NA	NA
AVU97645.1|1753108_1753576_+	DUF1456 domain-containing protein	NA	Q9EYF4	Enterobacteria_phage	90.3	3.9e-74
AVU97646.1|1753632_1754163_-	hypothetical protein	NA	NA	NA	NA	NA
AVU97647.1|1754334_1754793_-	lipoprotein	NA	Q9EYF5	Enterobacteria_phage	72.5	8.4e-53
AVU97648.1|1755033_1757067_-|tRNA	methionine--tRNA ligase	tRNA	A0A1V0SDF2	Indivirus	27.6	1.0e-54
>prophage 4
CP025555	Salmonella enterica subsp. enterica serovar Typhimurium strain PIR00538 chromosome, complete genome	4870262	1825375	1835881	4870262		Enterobacteria_phage(37.5%)	10	NA	NA
AVU97703.1|1825375_1826779_+	colanic acid biosynthesis protein WcaM	NA	A0A291LBB9	Klebsiella_phage	27.1	3.1e-21
AVU97704.1|1826956_1827850_+	UTP--glucose-1-phosphate uridylyltransferase	NA	A0A127AW70	Bacillus_phage	42.2	4.8e-44
AVU97705.1|1828226_1829312_+	dTDP-glucose 4,6-dehydratase	NA	I7HTA3	Enterobacteria_phage	53.9	1.2e-102
AVU97706.1|1829311_1830211_+	NAD(P)-dependent oxidoreductase	NA	A0A291LA50	Escherichia_phage	36.3	1.4e-30
AVV00636.1|1830258_1831137_+	glucose-1-phosphate thymidylyltransferase	NA	I7I009	Enterobacteria_phage	65.5	9.3e-109
AVU97707.1|1831137_1831689_+	dTDP-4-dehydrorhamnose 3,5-epimerase	NA	I7HJC4	Enterobacteria_phage	58.0	2.2e-52
AVU97708.1|1831694_1832687_+	protein RfbI	NA	NA	NA	NA	NA
AVU97709.1|1832683_1833457_+	glucose-1-phosphate cytidylyltransferase	NA	NA	NA	NA	NA
AVU97710.1|1833461_1834541_+	CDP-glucose 4,6-dehydratase	NA	A0A222YY99	Synechococcus_phage	24.1	6.6e-16
AVU97711.1|1834567_1835881_+	LPS biosynthesis protein	NA	H8ZJ36	Ostreococcus_tauri_virus	35.1	7.0e-52
>prophage 5
CP025555	Salmonella enterica subsp. enterica serovar Typhimurium strain PIR00538 chromosome, complete genome	4870262	1921875	1972625	4870262	portal,tail,lysis,integrase,head,protease,capsid,holin,plate,terminase	Salmonella_phage(89.06%)	73	1916453:1916467	1932929:1932943
1916453:1916467	attL	AATCAGCGCCTGCTG	NA	NA	NA	NA
AVU97795.1|1921875_1922349_-	peptidase	NA	A0A0F6TJ61	Escherichia_coli_O157_typing_phage	77.6	7.1e-39
AVU97796.1|1922996_1923287_-	DUF4102 domain-containing protein	NA	H2BDA3	Pseudomonas_phage	49.1	3.0e-08
AVU97797.1|1923658_1924456_-	protein MtfA	NA	NA	NA	NA	NA
AVU97798.1|1924747_1925737_-|integrase	integrase	integrase	A0A192Y7M7	Salmonella_phage	100.0	8.6e-196
AVU97799.1|1925738_1925981_-	DUF4224 domain-containing protein	NA	Q8HAA9	Salmonella_phage	100.0	9.5e-40
AVU97800.1|1926005_1926575_-	3'-5' exoribonuclease	NA	A0A192Y6E0	Salmonella_phage	100.0	7.1e-110
AVU97801.1|1926578_1927412_-	hypothetical protein	NA	Q8HAA7	Salmonella_phage	100.0	4.7e-163
AVU97802.1|1927408_1928026_-	hypothetical protein	NA	Q8HAA6	Salmonella_phage	100.0	2.6e-113
AVU97803.1|1928022_1928538_-	DUF262 domain-containing protein	NA	Q8HAA5	Salmonella_phage	100.0	7.4e-98
AVU97804.1|1928534_1928765_-	hypothetical protein	NA	Q8HAA4	Salmonella_phage	100.0	2.0e-34
AVU97805.1|1928835_1929375_-	hypothetical protein	NA	A0A192Y8M4	Salmonella_phage	100.0	2.6e-98
AVU97806.1|1929511_1930339_-	DUF2303 domain-containing protein	NA	Q8HAA2	Salmonella_phage	100.0	7.5e-153
AVU97807.1|1930396_1930768_-	hypothetical protein	NA	Q8HAA1	Salmonella_phage	100.0	1.1e-63
AVU97808.1|1930865_1931051_+	hypothetical protein	NA	NA	NA	NA	NA
AVU97809.1|1931582_1932278_-	helix-turn-helix transcriptional regulator	NA	Q8HAA0	Salmonella_phage	100.0	3.2e-128
AVU97810.1|1932251_1932437_+	amino acid permease	NA	NA	NA	NA	NA
AVU97811.1|1932375_1932600_+	XRE family transcriptional regulator	NA	A0A1C9IHV8	Salmonella_phage	100.0	1.9e-34
AVU97812.1|1932628_1933183_+	hypothetical protein	NA	A0A1C9II13	Salmonella_phage	100.0	6.9e-102
1932929:1932943	attR	AATCAGCGCCTGCTG	NA	NA	NA	NA
AVU97813.1|1933179_1934337_+	peptidase	NA	Q8HA97	Salmonella_phage	100.0	4.2e-218
AVU97814.1|1934333_1934558_+	hypothetical protein	NA	A0A1C9II64	Salmonella_phage	100.0	3.3e-39
AVU97815.1|1934554_1935373_+	helix-turn-helix domain-containing protein	NA	Q8HA96	Salmonella_phage	100.0	2.8e-136
AVU97816.1|1935332_1935857_+	PerC family transcriptional regulator	NA	Q8HA95	Salmonella_phage	100.0	2.4e-96
AVU97817.1|1935856_1936750_+	phage N-6-adenine-methyltransferase	NA	Q8HA94	Salmonella_phage	100.0	7.6e-175
AVU97818.1|1936746_1937136_+	RusA family crossover junction endodeoxyribonuclease	NA	Q8HA93	Salmonella_phage	100.0	3.7e-70
AVU97819.1|1937152_1938013_+	DNA-binding protein	NA	Q8HA92	Salmonella_phage	100.0	2.9e-163
AVV00641.1|1938020_1939010_+	DUF968 domain-containing protein	NA	A0A1C9IHZ5	Salmonella_phage	97.6	9.2e-190
AVU97820.1|1939020_1939644_+	hypothetical protein	NA	Q8HA89	Salmonella_phage	100.0	9.1e-119
AVV00642.1|1939776_1940034_+	hypothetical protein	NA	Q8HA88	Salmonella_phage	100.0	5.2e-44
AVU97821.1|1939963_1940398_-	hypothetical protein	NA	NA	NA	NA	NA
AVU97822.1|1940559_1940904_+|holin	phage holin, lambda family	holin	Q8HA87	Salmonella_phage	100.0	5.3e-44
AVU97823.1|1940906_1941521_+	endolysin	NA	Q8HA86	Salmonella_phage	100.0	9.3e-116
AVU97824.1|1941517_1942003_+|lysis	lysis protein	lysis	Q8HA85	Salmonella_phage	100.0	5.9e-81
AVU97825.1|1942215_1942635_+	hypothetical protein	NA	Q8HA84	Salmonella_phage	100.0	4.8e-71
AVU97826.1|1942854_1943157_+	hypothetical protein	NA	Q8HA83	Salmonella_phage	100.0	3.6e-52
AVU97827.1|1943217_1943568_+	HNH endonuclease	NA	Q8HA82	Salmonella_phage	100.0	2.5e-65
AVU97828.1|1943684_1944188_+|terminase	phage terminase small subunit P27 family	terminase	Q8HAD7	Salmonella_phage	100.0	3.6e-89
AVU97829.1|1944184_1945918_+|terminase	terminase large subunit	terminase	Q8HAD6	Salmonella_phage	100.0	0.0e+00
AVU97830.1|1945929_1946112_+	hypothetical protein	NA	Q8HAD5	Salmonella_phage	100.0	1.0e-25
AVU97831.1|1946111_1947353_+|portal	phage portal protein	portal	Q8HAD4	Salmonella_phage	99.8	2.0e-242
AVU97832.1|1947294_1947981_+|head,protease	HK97 family phage prohead protease	head,protease	Q8HAD3	Salmonella_phage	100.0	6.5e-126
AVU97833.1|1947995_1949201_+|capsid	phage major capsid protein	capsid	Q8HAD2	Salmonella_phage	100.0	1.6e-223
AVU97834.1|1949251_1949452_+	hypothetical protein	NA	Q8HAD1	Salmonella_phage	100.0	1.4e-28
AVU97835.1|1949454_1949778_+|head,tail	phage gp6-like head-tail connector protein	head,tail	A0A192Y8J4	Salmonella_phage	100.0	6.3e-55
AVU97836.1|1949774_1950179_+|head,tail	head-tail adaptor protein	head,tail	Q8HAC9	Salmonella_phage	100.0	1.4e-72
AVU97837.1|1950150_1950663_+	hypothetical protein	NA	Q8HAC8	Salmonella_phage	100.0	4.6e-92
AVU97838.1|1950659_1951220_+	hypothetical protein	NA	Q8HAC7	Salmonella_phage	100.0	3.0e-105
AVU97839.1|1951223_1951388_+	DUF2635 domain-containing protein	NA	Q8HAC6	Salmonella_phage	100.0	1.0e-24
AVU97840.1|1951377_1952874_+|tail	phage tail protein	tail	Q8HAC5	Salmonella_phage	100.0	2.7e-278
AVU97841.1|1952873_1953230_+|tail	phage tail protein	tail	A0A192Y8K0	Salmonella_phage	100.0	2.6e-62
AVU97842.1|1953226_1953553_+|tail	phage tail assembly protein	tail	Q8HAC3	Salmonella_phage	99.1	2.3e-52
AVU97843.1|1953637_1955566_+|tail	phage tail tape measure protein	tail	Q8HAC2	Salmonella_phage	99.8	0.0e+00
AVU97844.1|1955599_1956940_+	DNA circularization protein	NA	A0A192Y5U9	Salmonella_phage	99.6	5.7e-251
AVU97845.1|1956936_1957995_+|plate	baseplate protein	plate	Q8HAC0	Salmonella_phage	100.0	1.3e-202
AVU97846.1|1957994_1958528_+|plate	phage baseplate assembly protein V	plate	Q8HAB9	Salmonella_phage	100.0	1.4e-96
AVU97847.1|1958532_1958946_+	hypothetical protein	NA	Q8HAB8	Salmonella_phage	100.0	1.1e-75
AVU97848.1|1958917_1959463_+|head	head assembly protein	head	Q8HAB7	Salmonella_phage	100.0	9.2e-99
AVU97849.1|1959497_1960019_+|tail	phage tail protein	tail	Q8HAB6	Salmonella_phage	100.0	2.9e-94
AVU97850.1|1960021_1960609_+	DUF2313 domain-containing protein	NA	A0A192Y5V3	Salmonella_phage	100.0	2.9e-114
AVU97851.1|1960595_1962158_+|tail	phage tail protein	tail	Q8HAB4	Salmonella_phage	100.0	2.6e-287
AVU97852.1|1962157_1962727_+|tail	tail fiber assembly protein	tail	Q8HAB3	Salmonella_phage	100.0	7.3e-107
AVU97853.1|1963011_1964019_-	non-LEE encoded effector protein NleB	NA	Q8HAB2	Salmonella_phage	100.0	7.9e-197
AVU97854.1|1964231_1964453_+	DNA-binding protein	NA	Q8HAB1	Salmonella_phage	100.0	1.2e-36
AVU97855.1|1964566_1964782_-	hypothetical protein	NA	NA	NA	NA	NA
AVU97856.1|1964863_1965106_+	hypothetical protein	NA	NA	NA	NA	NA
AVU97857.1|1965083_1965245_+	hypothetical protein	NA	NA	NA	NA	NA
AVU97858.1|1965371_1965791_+	protein UmuD	NA	A0A1W6JNS2	Morganella_phage	60.5	8.5e-36
AVU97859.1|1965793_1967062_+	protein UmuC	NA	I6RSM4	Salmonella_phage	92.2	4.2e-227
AVU97860.1|1967516_1967729_+	cold-shock protein CspJ	NA	A0A1W6JNX5	Morganella_phage	70.0	3.9e-21
AVV00643.1|1967739_1967928_+	cold-shock protein	NA	NA	NA	NA	NA
AVU97861.1|1968188_1969385_-	porin OmpS1	NA	Q1MVN1	Enterobacteria_phage	56.1	1.8e-110
AVU97862.1|1970034_1970334_+	hypothetical protein	NA	NA	NA	NA	NA
AVU97863.1|1970425_1971121_+	phosphohydrolase	NA	A0A1D6Y7U0	Golden_Marseillevirus	27.1	2.8e-07
AVU97864.1|1971194_1972625_+	DNA cytosine methyltransferase	NA	E5E3X6	Burkholderia_phage	57.4	1.0e-104
>prophage 6
CP025555	Salmonella enterica subsp. enterica serovar Typhimurium strain PIR00538 chromosome, complete genome	4870262	2079031	2106895	4870262	integrase,tail,protease	Escherichia_phage(20.0%)	35	2080531:2080545	2099018:2099032
AVV00647.1|2079031_2079886_-|integrase	integrase	integrase	A0A2H4IYC8	uncultured_Caudovirales_phage	50.9	3.6e-73
AVV00649.1|2079945_2080440_-	RecE	NA	A0A0U2I1R6	Escherichia_phage	68.9	8.2e-22
2080531:2080545	attL	CAGACATTTGCCCGC	NA	NA	NA	NA
AVU97978.1|2080629_2080860_+	lytic enzyme	NA	Q8HA86	Salmonella_phage	93.7	6.1e-28
AVU97979.1|2080913_2081447_+	DUF2514 domain-containing protein	NA	A0A291LBG9	Klebsiella_phage	48.3	1.4e-11
AVU97980.1|2081703_2081871_-	lytic enzyme	NA	NA	NA	NA	NA
AVU97981.1|2081935_2082124_-	hypothetical protein	NA	NA	NA	NA	NA
AVU97982.1|2082596_2083478_+|tail	phage tail protein	tail	A0A0M4RTP2	Salmonella_phage	76.0	2.2e-65
AVU97983.1|2083574_2083775_-	phage virulence factor	NA	NA	NA	NA	NA
AVU97984.1|2083965_2084082_-|tail	phage tail protein	tail	NA	NA	NA	NA
AVU97985.1|2084344_2084470_+	arsenic transporter	NA	NA	NA	NA	NA
AVU97986.1|2084598_2084865_+	hypothetical protein	NA	NA	NA	NA	NA
AVU97987.1|2085617_2086232_-	disulfide bond formation protein B	NA	NA	NA	NA	NA
AVU97988.1|2086241_2086400_-	hypothetical protein	NA	NA	NA	NA	NA
AVU97989.1|2086532_2087447_-	protein PagO	NA	NA	NA	NA	NA
AVV00650.1|2088064_2088265_+	hypothetical protein	NA	NA	NA	NA	NA
AVU97990.1|2088555_2088813_+	hypothetical protein	NA	NA	NA	NA	NA
AVU97991.1|2088750_2089119_-|integrase	integrase	integrase	K7PHK0	Enterobacteria_phage	39.8	5.4e-18
AVU97992.1|2090582_2090723_-	hypothetical protein	NA	NA	NA	NA	NA
AVU97993.1|2090888_2091158_-	hypothetical protein	NA	Q6UAV5	Klebsiella_phage	39.0	1.5e-06
AVU97994.1|2091204_2091399_+	hypothetical protein	NA	NA	NA	NA	NA
AVU97995.1|2091527_2091947_+	N-acetyltransferase	NA	NA	NA	NA	NA
AVU97996.1|2092334_2092811_-	hypothetical protein	NA	NA	NA	NA	NA
AVU97997.1|2093140_2093536_-	DUF1398 domain-containing protein	NA	C6ZCX4	Enterobacteria_phage	32.8	9.2e-16
AVU97998.1|2094219_2094942_+	SPI-1 type III secretion system guanine nucleotide exchange factor SopE2	NA	NA	NA	NA	NA
AVU97999.1|2095226_2095391_+	hypothetical protein	NA	NA	NA	NA	NA
AVU98000.1|2095614_2096265_+	serine/threonine-protein phosphatase 1	NA	A0A222YWF0	Escherichia_phage	51.4	1.1e-58
AVU98001.1|2096283_2096475_-	DUF1482 domain-containing protein	NA	NA	NA	NA	NA
AVU98002.1|2096585_2096825_-	DUF1480 domain-containing protein	NA	NA	NA	NA	NA
AVV00651.1|2096939_2098379_-	16S rRNA (cytosine(1407)-C(5))-methyltransferase RsmF	NA	NA	NA	NA	NA
AVU98003.1|2098456_2101096_-	MCE family protein	NA	NA	NA	NA	NA
2099018:2099032	attR	GCGGGCAAATGTCTG	NA	NA	NA	NA
AVU98004.1|2101058_2102342_-	paraquat-inducible protein A	NA	NA	NA	NA	NA
AVU98005.1|2102383_2102968_+	GAF domain-containing protein	NA	NA	NA	NA	NA
AVU98006.1|2103065_2103752_+	RNA chaperone ProQ	NA	NA	NA	NA	NA
AVU98007.1|2103771_2105820_+|tail,protease	tail-specific protease	tail,protease	A0A0R6PIZ1	Moraxella_phage	33.5	8.0e-87
AVU98008.1|2106013_2106895_+|protease	protease HtpX	protease	NA	NA	NA	NA
>prophage 7
CP025555	Salmonella enterica subsp. enterica serovar Typhimurium strain PIR00538 chromosome, complete genome	4870262	2690137	2777895	4870262	portal,tail,lysis,integrase,capsid,terminase,tRNA,transposase,head	Enterobacteria_phage(31.58%)	118	2760199:2760213	2774597:2774611
AVU98570.1|2690137_2690665_+|tRNA	YbaK/prolyl-tRNA synthetase associated domain-containing protein	tRNA	NA	NA	NA	NA
AVU98571.1|2690661_2690769_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98572.1|2690974_2691421_+	DUF441 domain-containing protein	NA	NA	NA	NA	NA
AVU98573.1|2691400_2692195_-	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AVU98574.1|2692295_2693480_+	cyanate MFS transporter	NA	NA	NA	NA	NA
AVU98575.1|2693598_2693946_+	DUF488 domain-containing protein	NA	NA	NA	NA	NA
AVU98576.1|2693931_2694243_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98577.1|2694311_2694563_-	DUF333 domain-containing protein	NA	NA	NA	NA	NA
AVU98578.1|2694758_2694857_+	hypothetical protein	NA	NA	NA	NA	NA
AVU98579.1|2694995_2695244_-	GlsB/YeaQ/YmgE family stress response membrane protein	NA	NA	NA	NA	NA
AVU98580.1|2695251_2695437_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98581.1|2695558_2696200_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98582.1|2696429_2696612_-	DUF1869 domain-containing protein	NA	NA	NA	NA	NA
AVU98583.1|2696614_2696977_-	DUF1971 domain-containing protein	NA	NA	NA	NA	NA
AVV00679.1|2696947_2697133_+	hypothetical protein	NA	NA	NA	NA	NA
AVU98584.1|2697149_2697788_-	leucine efflux protein	NA	NA	NA	NA	NA
AVU98585.1|2697984_2698530_-	chorismate mutase	NA	NA	NA	NA	NA
AVU98586.1|2698612_2698762_+	hypothetical protein	NA	NA	NA	NA	NA
AVU98587.1|2698840_2699089_+	histidine kinase	NA	NA	NA	NA	NA
AVU98588.1|2699343_2700192_-	transcriptional regulator	NA	NA	NA	NA	NA
AVV00680.1|2700260_2700854_-	LuxR family transcriptional regulator	NA	NA	NA	NA	NA
AVU98589.1|2700998_2701787_-	cryptic aminoglycoside nucleotidyltransferase ANT(3'')/ANT(9)	NA	NA	NA	NA	NA
AVU98590.1|2701895_2702546_-	metal-binding protein ZinT	NA	NA	NA	NA	NA
AVU98591.1|2702739_2703066_-	four-helix bundle copper-binding protein	NA	NA	NA	NA	NA
AVU98592.1|2703259_2704393_+	mechanosensitive ion channel family protein	NA	NA	NA	NA	NA
AVU98593.1|2704474_2705065_-	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
AVU98594.1|2705058_2705856_-	ABC transporter ATP-binding protein	NA	A0A2R8FG22	Brazilian_cedratvirus	31.2	2.8e-11
AVU98595.1|2705849_2706662_-	ABC transporter permease	NA	NA	NA	NA	NA
AVU98596.1|2706651_2707626_-	ABC transporter permease	NA	NA	NA	NA	NA
AVU98597.1|2707625_2709260_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
AVU98598.1|2709941_2710256_+	hypothetical protein	NA	NA	NA	NA	NA
AVU98599.1|2710404_2710935_+	cytochrome b	NA	A0A0U2QLA7	Escherichia_phage	70.5	2.8e-36
AVU98600.1|2711017_2712061_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98601.1|2712399_2712870_-	heat-shock protein	NA	NA	NA	NA	NA
AVU98602.1|2713018_2713291_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98603.1|2713490_2713616_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98604.1|2713993_2714338_+	lysozyme inhibitor	NA	NA	NA	NA	NA
AVU98605.1|2715574_2716132_-	virulence membrane protein PagC	NA	Q9LA63	Enterobacterial_phage	33.0	1.0e-15
AVU98606.1|2716943_2717207_+	virulence protein PagD	NA	NA	NA	NA	NA
AVU98607.1|2717338_2717551_+	cold-shock protein CspH	NA	NA	NA	NA	NA
AVU98608.1|2717965_2718487_+	lipoprotein	NA	NA	NA	NA	NA
AVU98609.1|2718677_2718917_+	virulence protein MsgA	NA	K7P6H1	Enterobacteria_phage	88.6	8.5e-33
AVU98610.1|2719405_2720194_+	lipoprotein EnvF	NA	NA	NA	NA	NA
AVU98611.1|2720515_2720719_+	hypothetical protein	NA	NA	NA	NA	NA
AVU98612.1|2720772_2721021_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98613.1|2721175_2722300_-	DUF3626 domain-containing protein	NA	NA	NA	NA	NA
AVU98614.1|2722747_2722912_-	isocitrate dehydrogenase	NA	Q77Z09	Phage_21	92.6	1.1e-20
AVU98615.1|2723213_2723885_+	SOS response-associated peptidase	NA	A0A2H4J5W2	uncultured_Caudovirales_phage	59.9	1.1e-80
AVU98616.1|2724009_2724195_+	hypothetical protein	NA	NA	NA	NA	NA
AVU98617.1|2724204_2726307_-	type III secretion system effector E3 ubiquitin transferase SspH1	NA	Q9MBL9	Phage_Gifsy-2	48.5	1.0e-28
AVU98618.1|2727836_2727962_-	arsenic transporter	NA	NA	NA	NA	NA
AVU98619.1|2728224_2728341_+|tail	phage tail protein	tail	NA	NA	NA	NA
AVU98620.1|2728531_2728732_+	phage virulence factor	NA	NA	NA	NA	NA
AVU98621.1|2728829_2729414_-|tail	tail fiber assembly protein	tail	A0A0M4RTP2	Salmonella_phage	84.8	1.7e-87
AVU98622.1|2729413_2731855_-|tail	phage tail protein	tail	A0A0K2FIZ6	Escherichia_phage	62.0	2.5e-87
AVU98623.1|2731908_2732151_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98624.1|2732189_2735552_-	host specificity protein J	NA	K7PKJ2	Enterobacteria_phage	79.9	0.0e+00
AVU98625.1|2735613_2736261_-|tail	tail assembly protein	tail	A5LH42	Enterobacteria_phage	77.7	2.1e-89
AVU98626.1|2736158_2736896_-|tail	phage tail protein	tail	K7PLW1	Enterobacteria_phage	85.0	5.2e-129
AVU98627.1|2736902_2737601_-|tail	phage minor tail protein L	tail	A0A1B5FP81	Escherichia_phage	76.3	5.5e-104
AVU98628.1|2737610_2737940_-|tail	phage tail protein	tail	A5LH39	Enterobacteria_phage	70.4	1.3e-42
AVU98629.1|2737942_2741038_-|tail	phage tail tape measure protein	tail	A0A291AWX1	Escherichia_phage	62.3	6.1e-280
AVU98630.1|2741009_2741348_-|tail	phage tail assembly protein T	tail	A5LH37	Enterobacteria_phage	62.4	1.3e-31
AVU98631.1|2741344_2741740_-|tail	phage minor tail protein G	tail	A5LH36	Enterobacteria_phage	56.5	2.3e-30
AVU98632.1|2741790_2742537_-|tail	phage tail protein	tail	A0A291AWU6	Escherichia_phage	76.9	1.9e-99
AVU98633.1|2742544_2742946_-|tail	phage tail protein	tail	Q9G0F3	Phage_Gifsy-1	100.0	8.1e-52
AVU98634.1|2742934_2744185_+|transposase	transposase	transposase	Q9G0F2	Phage_Gifsy-1	99.2	1.6e-215
AVU98635.1|2744233_2744812_-|tail	phage tail protein	tail	A5LH33	Enterobacteria_phage	80.7	1.7e-82
AVU98636.1|2744839_2745223_-|tail	phage tail protein	tail	A0A0K2FJB7	Enterobacteria_phage	55.6	9.2e-29
AVU98637.1|2745233_2745599_-	DNA packaging protein	NA	NA	NA	NA	NA
AVU98638.1|2745656_2746685_-|capsid	minor capsid protein E	capsid	C6ZCY2	Enterobacteria_phage	61.1	1.7e-114
AVU98639.1|2746739_2747087_-|head	head decoration protein	head	A0A2R9YJN3	Escherichia_phage	52.7	9.2e-20
AVU98640.1|2747099_2748596_-	S49 family peptidase	NA	A0A0K2FI53	Enterobacteria_phage	52.7	4.3e-98
AVU98641.1|2748585_2750166_-|portal	phage portal protein	portal	K7P6U7	Enterobacteria_phage	62.8	5.6e-189
AVU98642.1|2750162_2750366_-|tail	phage tail protein	tail	K7PM10	Enterobacteria_phage	73.8	1.9e-17
AVU98643.1|2750349_2752281_-|terminase	phage terminase large subunit family protein	terminase	A0A0K2FJ14	Enterobacteria_phage	65.9	1.3e-259
AVU98644.1|2752252_2752798_-|terminase	terminase small subunit	terminase	A0A0U2S671	Escherichia_phage	80.6	1.5e-56
AVU98645.1|2752842_2753049_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98646.1|2753083_2753485_+	inhibitor of g-type lysozyme	NA	NA	NA	NA	NA
AVV00681.1|2753711_2754167_-|lysis	lysis protein	lysis	A0A0M4RD57	Salmonella_phage	78.8	8.0e-56
AVU98647.1|2754484_2755024_-	lysozyme	NA	S5MQK2	Escherichia_phage	74.1	5.7e-77
AVV00682.1|2755001_2755304_-	alpha/beta hydrolase	NA	NA	NA	NA	NA
AVV00683.1|2755553_2756021_+	DUF2441 domain-containing protein	NA	NA	NA	NA	NA
AVU98648.1|2756032_2756251_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98649.1|2756404_2756593_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98650.1|2756727_2756916_+	hypothetical protein	NA	NA	NA	NA	NA
AVU98651.1|2756835_2757396_-	hypothetical protein	NA	A0A2R2Z302	Escherichia_phage	71.1	1.1e-41
AVU98652.1|2757477_2757666_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98653.1|2757662_2758217_-	DUF1133 domain-containing protein	NA	A0A0U2S606	Escherichia_phage	65.3	3.4e-64
AVU98654.1|2758213_2758510_-	hypothetical protein	NA	K7P7Q1	Enterobacteria_phage	79.1	3.9e-35
AVU98655.1|2758491_2758686_-	hypothetical protein	NA	S4TNP0	Salmonella_phage	61.5	1.4e-12
AVU98656.1|2758682_2759282_-	DUF1367 domain-containing protein	NA	A0A0U2RT94	Escherichia_phage	81.0	1.7e-93
AVU98657.1|2759316_2759565_-	hypothetical protein	NA	A0A0U2C0C8	Salmonella_phage	100.0	1.6e-42
AVU98658.1|2759681_2759915_-	DinI family protein	NA	H6WRY5	Salmonella_phage	100.0	5.6e-37
AVU98659.1|2760173_2760365_-	hypothetical protein	NA	G8C7S2	Escherichia_phage	68.9	1.1e-17
2760199:2760213	attL	TCAGCTTTCCATTCA	NA	NA	NA	NA
AVU98660.1|2760476_2760758_-	ASCH domain-containing protein	NA	A0A0F6R7P5	Escherichia_coli_O157_typing_phage	95.7	3.2e-47
AVU98661.1|2760750_2761404_-	DUF550 domain-containing protein	NA	S4TSR6	Salmonella_phage	52.0	6.3e-62
AVU98662.1|2761406_2761877_-	class I SAM-dependent methyltransferase	NA	H9C170	Pectobacterium_phage	80.1	1.1e-68
AVU98663.1|2761878_2762544_-	hypothetical protein	NA	A0A1V0E5L5	Salmonella_phage	44.9	2.8e-25
AVU98664.1|2762558_2763251_-	phage replication protein	NA	G8C7U6	Escherichia_phage	60.2	1.8e-78
AVU98665.1|2763247_2764153_-	Replication protein O	NA	A0A0M5M7Y1	Salmonella_phage	96.3	4.4e-170
AVU98666.1|2764244_2764619_-	hypothetical protein	NA	S4TTD7	Salmonella_phage	97.6	2.8e-62
AVU98667.1|2764584_2764812_-	Rha family transcriptional regulator	NA	K7PKS2	Enterobacteria_phage	95.9	1.5e-34
AVU98668.1|2764825_2765293_+	transcriptional regulator	NA	K7PHG0	Enterobacteria_phage	86.9	3.2e-68
AVU98669.1|2765444_2766530_+	ParA family protein	NA	H2BD62	Pseudomonas_phage	38.0	1.5e-60
AVU98670.1|2766637_2766844_-	hypothetical protein	NA	K7P7I0	Enterobacteria_phage	67.6	7.4e-17
AVU98671.1|2767554_2770266_+	exonuclease VIII	NA	H6WRX1	Salmonella_phage	39.6	1.2e-125
AVU98672.1|2770258_2771089_+	recombination and repair protein RecT	NA	A0A1P8DTF2	Proteus_phage	72.0	1.3e-104
AVU98673.1|2771124_2771445_+	hypothetical protein	NA	A0A222YY67	Escherichia_phage	59.2	1.8e-33
AVU98674.1|2771437_2771770_+	hypothetical protein	NA	S4TNP2	Salmonella_phage	81.8	8.8e-20
AVU98675.1|2771766_2772318_+	Eaa protein	NA	A0A192Y7X3	Salmonella_phage	34.5	2.8e-10
AVU98676.1|2772367_2772604_+	excisionase	NA	NA	NA	NA	NA
AVU98677.1|2772593_2773736_+|integrase	integrase	integrase	O21929	Phage_21	80.3	8.2e-174
AVU98678.1|2773848_2775099_-	NADP-dependent isocitrate dehydrogenase	NA	Q77Z09	Phage_21	90.7	1.1e-19
2774597:2774611	attR	TCAGCTTTCCATTCA	NA	NA	NA	NA
AVU98679.1|2775270_2775936_+	23S rRNA pseudouridine synthase E	NA	NA	NA	NA	NA
AVU98680.1|2775932_2776262_+	DUF1311 domain-containing protein	NA	NA	NA	NA	NA
AVU98681.1|2776273_2776735_+	NUDIX hydrolase	NA	NA	NA	NA	NA
AVU98682.1|2776788_2777895_+|tRNA	tRNA 2-thiouridine(34) synthase MnmA	tRNA	NA	NA	NA	NA
>prophage 8
CP025555	Salmonella enterica subsp. enterica serovar Typhimurium strain PIR00538 chromosome, complete genome	4870262	2923785	3008521	4870262	portal,tail,lysis,protease,tRNA,holin,terminase	Salmonella_phage(45.45%)	95	NA	NA
AVU98832.1|2923785_2924466_+|protease	type III secretion system effector protease PipA	protease	Q9MBM0	Phage_Gifsy-2	70.6	8.3e-81
AVU98833.1|2924811_2925021_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98834.1|2925086_2925746_+	transmembrane protein	NA	A0A2H4JFM9	uncultured_Caudovirales_phage	51.9	2.3e-43
AVU98835.1|2925832_2926162_+	sulfurtransferase TusE	NA	NA	NA	NA	NA
AVU98836.1|2926158_2926440_-	acylphosphatase	NA	NA	NA	NA	NA
AVU98837.1|2926488_2927268_-	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AVU98838.1|2927293_2927842_-	YbhB/YbcL family Raf kinase inhibitor-like protein	NA	NA	NA	NA	NA
AVU98839.1|2928056_2929268_+	ribosomal RNA large subunit methyltransferase I	NA	NA	NA	NA	NA
AVU98840.1|2929325_2929643_+	heat-shock protein HspQ	NA	NA	NA	NA	NA
AVU98841.1|2929687_2930104_-	CoA-binding protein	NA	NA	NA	NA	NA
AVU98842.1|2930274_2930937_+	DUF2057 domain-containing protein	NA	NA	NA	NA	NA
AVU98843.1|2931031_2931490_+	methylglyoxal synthase	NA	NA	NA	NA	NA
AVU98844.1|2931525_2933580_-	DNA helicase IV	NA	A7KV33	Bacillus_phage	27.6	8.5e-20
AVU98845.1|2933703_2934150_+	YccF domain-containing protein	NA	NA	NA	NA	NA
AVU98846.1|2934168_2936322_+	TIGR01666 family membrane protein	NA	NA	NA	NA	NA
AVU98847.1|2936308_2936914_-	DNA transformation protein	NA	NA	NA	NA	NA
AVU98848.1|2937130_2937640_+	cell division inhibitor SulA	NA	NA	NA	NA	NA
AVU98849.1|2937996_2939049_+	outer membrane protein A	NA	NA	NA	NA	NA
AVU98850.1|2939120_2939573_-	macrodomain Ter protein	NA	NA	NA	NA	NA
AVU98851.1|2939758_2941519_+|protease	Lon protease family protein	protease	NA	NA	NA	NA
AVU98852.1|2941587_2942106_+	beta-hydroxydecanoyl-ACP dehydratase	NA	NA	NA	NA	NA
AVU98853.1|2942205_2942373_-	ribosome modulation factor	NA	NA	NA	NA	NA
AVU98854.1|2942628_2943192_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98855.1|2943188_2944829_-	paraquat-inducible protein B	NA	NA	NA	NA	NA
AVU98856.1|2944833_2946087_-	paraquat-inducible protein A	NA	NA	NA	NA	NA
AVU98857.1|2946101_2948009_-	ABC transporter ATP-binding protein	NA	A0A2K9L3Z8	Tupanvirus	29.8	2.4e-53
AVU98858.1|2948021_2950130_-	ribosomal RNA large subunit methyltransferase K/L	NA	NA	NA	NA	NA
AVU98859.1|2950228_2951338_+	MOSC domain-containing protein	NA	NA	NA	NA	NA
AVU98860.1|2951334_2951877_-	cell division protein ZapC	NA	NA	NA	NA	NA
AVU98861.1|2952042_2953053_-	dihydroorotate dehydrogenase (quinone)	NA	NA	NA	NA	NA
AVU98862.1|2953260_2955873_-	aminopeptidase N	NA	A0A0P0IY26	Acinetobacter_phage	22.6	6.3e-20
AVU98863.1|2956299_2956491_+	DNA-damage-inducible protein I	NA	S4TNM0	Salmonella_phage	95.2	6.2e-26
AVU98864.1|2956761_2957448_+	virulence protein	NA	NA	NA	NA	NA
AVU98865.1|2957432_2957732_+	hypothetical protein	NA	NA	NA	NA	NA
AVU98866.1|2957800_2958427_+	SOS response-associated peptidase	NA	A0A2H4J5W2	uncultured_Caudovirales_phage	63.2	1.4e-66
AVU98867.1|2959074_2960043_-	SPI-2 type III secretion system effector SseI	NA	Q9MBL9	Phage_Gifsy-2	100.0	7.1e-195
AVU98868.1|2960518_2961100_-|tail	tail fiber assembly protein	tail	A0A0M4RTP2	Salmonella_phage	89.5	1.7e-95
AVU98869.1|2961099_2963538_-|tail	phage tail protein	tail	A0A0K2FIZ6	Escherichia_phage	63.4	2.9e-91
AVU98870.1|2963591_2963834_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98871.1|2963872_2967223_-	host specificity protein J	NA	A0A0K2FI38	Escherichia_phage	68.6	0.0e+00
AVU98872.1|2967294_2967999_-|tail	tail assembly protein	tail	A5LH42	Enterobacteria_phage	62.6	9.2e-67
AVU98873.1|2967896_2968634_-|tail	phage tail protein	tail	A0A0P0ZE89	Stx2-converting_phage	76.1	1.6e-114
AVU98874.1|2968643_2969339_-|tail	phage minor tail protein L	tail	A0A0K2FJ01	Enterobacteria_phage	66.7	1.3e-89
AVU98875.1|2969428_2969962_+	superoxide dismutase [Cu-Zn] SodC1	NA	Q9MC02	Salmonella_phage	54.0	1.8e-46
AVU98876.1|2970078_2970576_-	Ail/OmpX	NA	A0A1B0VBR9	Salmonella_phage	36.6	1.4e-16
AVU98877.1|2970674_2971007_-|tail	phage tail protein	tail	A5LH39	Enterobacteria_phage	61.5	3.3e-35
AVV00691.1|2971003_2973991_-|tail	phage tail tape measure protein	tail	A0A291AWX1	Escherichia_phage	62.1	8.2e-266
AVU98878.1|2974070_2974400_-|tail	phage tail assembly protein T	tail	A5LH37	Enterobacteria_phage	50.9	5.0e-23
AVU98879.1|2974396_2974795_-|tail	phage minor tail protein G	tail	K7PLV8	Enterobacteria_phage	56.8	8.6e-30
AVU98880.1|2974840_2975590_-|tail	phage tail protein	tail	A0A291AWU6	Escherichia_phage	68.6	3.7e-90
AVU98881.1|2975601_2976003_-|tail	phage tail protein	tail	K7PHM6	Enterobacterial_phage	60.9	1.5e-42
AVU98882.1|2975999_2976566_-|tail	phage tail protein	tail	Q9G063	Phage_Gifsy-2	97.8	9.5e-14
AVU98883.1|2976546_2976846_-	ATP-binding protein	NA	K7PH43	Enterobacteria_phage	45.1	4.5e-15
AVU98884.1|2976838_2977162_-	recombinase RecA	NA	K7PLV6	Enterobacteria_phage	61.3	7.7e-29
AVV00693.1|2977252_2979334_-	peptidase S14	NA	A0A291AWT6	Escherichia_phage	69.5	4.8e-265
AVV00692.1|2979257_2980775_-|portal	phage portal protein	portal	A0A291AWU2	Escherichia_phage	65.1	1.5e-175
AVU98885.1|2980801_2981008_-	primosomal replication protein PriB/PriC domain protein	NA	A0A1W6JT66	Pseudomonas_phage	53.3	2.9e-05
AVU98886.1|2981004_2983143_-|terminase	phage terminase large subunit family protein	terminase	A5LH27	Enterobacteria_phage	72.6	3.4e-290
AVU98887.1|2983099_2983633_-	DNA breaking-rejoining protein	NA	A0A291AWV8	Escherichia_phage	48.1	1.0e-33
AVV00695.1|2983840_2984320_-|lysis	lysis protein	lysis	Q56118	Enterobacteria_phage	77.0	1.4e-55
AVU98888.1|2984337_2984790_-	lysozyme	NA	A0A0M4R365	Salmonella_phage	97.3	2.3e-79
AVV00694.1|2984773_2985103_-|holin	phage holin, lambda family	holin	A0A0M3ULK9	Salmonella_phage	100.0	5.8e-56
AVU98889.1|2985378_2986065_+|protease	type III secretion system effector protease GtgA	protease	Q9MBM0	Phage_Gifsy-2	100.0	2.1e-132
AVU98890.1|2986425_2986875_+	hypothetical protein	NA	NA	NA	NA	NA
AVU98891.1|2987010_2987136_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98892.1|2987309_2987627_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98893.1|2987693_2988491_-	antitermination protein	NA	A0A0M4S661	Salmonella_phage	99.6	2.3e-151
AVU98894.1|2988480_2988627_-	hypothetical protein	NA	A0A0M5M7B2	Salmonella_phage	97.9	4.3e-19
AVU98895.1|2988623_2989235_-	protein NinG	NA	A0A0M4RU10	Salmonella_phage	91.6	6.9e-79
AVU98896.1|2989237_2989444_-	hypothetical protein	NA	S4TNP0	Salmonella_phage	100.0	3.5e-35
AVU98897.1|2989443_2990046_-	hypothetical protein	NA	S4TTI0	Salmonella_phage	98.5	8.3e-109
AVU98898.1|2990128_2990350_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98899.1|2990461_2990695_-	DinI family protein	NA	H6WRY5	Salmonella_phage	98.7	2.1e-36
AVU98900.1|2990986_2991277_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98901.1|2991354_2991666_-	hypothetical protein	NA	A0A220NQV2	Salmonella_phage	97.2	7.2e-32
AVU98902.1|2991662_2992010_-	DNA-binding protein	NA	H6WRX9	Salmonella_phage	89.6	5.4e-52
AVU98903.1|2992020_2992770_-	DNA replication protein DnaC	NA	S4TNF5	Salmonella_phage	99.2	1.1e-137
AVU98904.1|2992772_2993756_-	hypothetical protein	NA	H6WRX7	Salmonella_phage	100.0	1.9e-163
AVU98905.1|2993840_2994215_-	hypothetical protein	NA	S4TTD7	Salmonella_phage	99.2	3.9e-64
AVU98906.1|2994180_2994420_-	helix-turn-helix domain-containing protein	NA	H6WRX5	Salmonella_phage	47.2	8.3e-12
AVU98907.1|2994539_2994950_+	transcriptional regulator	NA	A0A1B5FPF4	Escherichia_phage	42.4	8.1e-07
AVU98908.1|2994999_2995260_+	hypothetical protein	NA	NA	NA	NA	NA
AVU98909.1|2995252_2995411_+	hypothetical protein	NA	H6WRX3	Salmonella_phage	98.1	1.2e-22
AVU98910.1|2995432_2995732_+	DNA breaking-rejoining protein	NA	S4TSN6	Salmonella_phage	84.5	8.1e-49
AVU98911.1|2995858_2998744_+	exodeoxyribonuclease	NA	S4TNL0	Salmonella_phage	97.3	0.0e+00
AVU98912.1|2998706_2999864_+	enterohemolysin	NA	S4TTE8	Salmonella_phage	100.0	1.6e-217
AVU98913.1|2999906_3000146_+	DUF4060 domain-containing protein	NA	S4TR31	Salmonella_phage	100.0	2.0e-37
AVU98914.1|3000186_3000435_+	excisionase	NA	S4TND0	Salmonella_phage	100.0	4.7e-42
AVU98915.1|3000479_3001772_+	DUF3596 domain-containing protein	NA	S4TSP2	Salmonella_phage	99.5	2.9e-252
AVU98916.1|3001966_3003169_+	nicotinate phosphoribosyltransferase	NA	NA	NA	NA	NA
AVU98917.1|3003246_3004683_-	sodium:alanine symporter family protein	NA	NA	NA	NA	NA
AVU98918.1|3004927_3006142_-	PLP-dependent lyase/thiolase	NA	NA	NA	NA	NA
AVU98919.1|3006228_3006462_+	hypothetical protein	NA	NA	NA	NA	NA
AVU98920.1|3006458_3006920_+	Lrp/AsnC family transcriptional regulator	NA	NA	NA	NA	NA
AVU98921.1|3007120_3008521_+|tRNA	asparagine--tRNA ligase	tRNA	A0A167RLM0	Powai_lake_megavirus	35.1	4.5e-81
>prophage 9
CP025555	Salmonella enterica subsp. enterica serovar Typhimurium strain PIR00538 chromosome, complete genome	4870262	3072687	3081419	4870262	protease,transposase	Enterobacteria_phage(14.29%)	9	NA	NA
AVU98970.1|3072687_3073942_+|transposase	IS3-like element ISSen1 family transposase	transposase	Q6H9S3	Enterobacteria_phage	33.9	5.4e-17
AVU98971.1|3074405_3074864_-|transposase	IS200/IS605 family transposase IS200F	transposase	I4AZI8	Saccharomonospora_phage	31.5	1.0e-13
AVU98972.1|3074820_3075003_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98973.1|3075055_3077332_-|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	protease	A0A223W0B1	Agrobacterium_phage	42.3	6.2e-165
AVU98974.1|3077362_3077683_-|protease	ATP-dependent Clp protease adaptor ClpS	protease	A0A1B1IT64	uncultured_Mediterranean_phage	45.7	4.5e-13
AVU98975.1|3078006_3078228_+	cold shock domain protein CspD	NA	A0A2H4N7Y6	Lake_Baikal_phage	64.2	9.3e-18
AVU98976.1|3078182_3078377_-	hypothetical protein	NA	NA	NA	NA	NA
AVU98977.1|3078357_3080304_-	macrolide ABC transporter permease/ATP-binding protein MacB	NA	G9BWD6	Planktothrix_phage	43.1	2.0e-39
AVU98978.1|3080300_3081419_-	macrolide transporter subunit MacA	NA	A0A140XAI1	Dickeya_phage	38.9	1.4e-08
>prophage 10
CP025555	Salmonella enterica subsp. enterica serovar Typhimurium strain PIR00538 chromosome, complete genome	4870262	4450125	4497169	4870262	tail,plate,tRNA	Burkholderia_phage(40.91%)	50	NA	NA
AVV00190.1|4450125_4451124_-|tRNA	tRNA dihydrouridine(20/20a) synthase DusA	tRNA	NA	NA	NA	NA
AVV00191.1|4451211_4452522_-	conjugal transfer protein	NA	NA	NA	NA	NA
AVV00192.1|4452768_4453284_+	transcriptional regulator Zur	NA	NA	NA	NA	NA
AVV00193.1|4453382_4453592_-	CsbD family protein	NA	NA	NA	NA	NA
AVV00759.1|4453613_4453727_-	hypothetical protein	NA	NA	NA	NA	NA
AVV00194.1|4453723_4455049_-	MATE family efflux transporter	NA	NA	NA	NA	NA
AVV00195.1|4455227_4455836_-	LexA repressor	NA	Q9G0C2	Lactococcus_phage	38.0	1.0e-13
AVV00196.1|4455944_4456313_-	diacylglycerol kinase	NA	NA	NA	NA	NA
AVV00197.1|4456483_4458904_+	glycerol-3-phosphate 1-O-acyltransferase PlsB	NA	NA	NA	NA	NA
AVV00198.1|4459002_4459875_-	4-hydroxybenzoate octaprenyltransferase	NA	NA	NA	NA	NA
AVV00199.1|4459888_4460386_-	chorismate--pyruvate lyase	NA	NA	NA	NA	NA
AVV00200.1|4460566_4461484_-	maltose operon protein MalM	NA	NA	NA	NA	NA
AVV00201.1|4461647_4463006_-	maltoporin	NA	NA	NA	NA	NA
AVV00202.1|4463094_4464204_-	maltose/maltodextrin import ATP-binding protein MalK	NA	Q6GZ03	Mycoplasma_phage	47.2	6.2e-17
AVV00203.1|4464565_4465756_+	maltose-binding periplasmic protein	NA	NA	NA	NA	NA
AVV00204.1|4465887_4467432_+	maltose ABC transporter permease MalF	NA	NA	NA	NA	NA
AVV00205.1|4467446_4468337_+	maltose ABC transporter permease	NA	NA	NA	NA	NA
AVV00206.1|4468502_4468913_-	phosphate-starvation-inducible protein PsiE	NA	NA	NA	NA	NA
AVV00207.1|4469055_4471152_-	YjbH domain-containing protein	NA	NA	NA	NA	NA
AVV00208.1|4471151_4471889_-	hypothetical protein	NA	NA	NA	NA	NA
AVV00209.1|4471885_4472524_-	YjbF family lipoprotein	NA	NA	NA	NA	NA
AVV00210.1|4472587_4472830_-	outer membrane protein	NA	NA	NA	NA	NA
AVV00211.1|4473273_4474923_-	glucose-6-phosphate isomerase	NA	NA	NA	NA	NA
AVV00212.1|4475267_4476617_+	lysine-sensitive aspartokinase 3	NA	NA	NA	NA	NA
AVV00213.1|4476749_4477097_-	DNA-binding protein	NA	Q6QIE8	Burkholderia_phage	51.5	4.9e-21
AVV00214.1|4477672_4477960_+	hypothetical protein	NA	Q6QIC8	Burkholderia_phage	49.1	2.3e-16
AVV00215.1|4477962_4478568_+	lytic transglycosylase domain-containing protein	NA	Q5ZQZ1	Pseudomonas_phage	59.4	1.2e-59
AVV00216.1|4478580_4478895_+	hypothetical protein	NA	Q6QIC4	Burkholderia_phage	49.1	6.4e-20
AVV00217.1|4479054_4479510_+	hypothetical protein	NA	NA	NA	NA	NA
AVV00218.1|4479506_4479704_+	hypothetical protein	NA	Q6QIB1	Burkholderia_phage	52.9	8.6e-07
AVV00219.1|4479693_4481121_+|tail	phage tail sheath family protein	tail	A4JWK5	Burkholderia_virus	70.9	1.1e-194
AVV00220.1|4481120_4481645_+|tail	phage major tail tube protein	tail	Q6QIA9	Burkholderia_phage	69.5	2.8e-68
AVV00221.1|4481696_4482014_+|tail	phage tail assembly protein	tail	NA	NA	NA	NA
AVV00222.1|4481973_4482102_+|tail	GpE family phage tail protein	tail	NA	NA	NA	NA
AVV00223.1|4482198_4484553_+|tail	phage tail tape measure protein	tail	A4JWL0	Burkholderia_virus	30.6	6.9e-66
AVV00224.1|4484552_4485506_+	methyl-accepting chemotaxis protein	NA	A4JWL1	Burkholderia_virus	50.8	2.3e-36
AVV00225.1|4485505_4485715_+	hypothetical protein	NA	A4JWL2	Burkholderia_virus	60.3	9.8e-17
AVV00226.1|4485702_4486746_+	phage protein D	NA	Q6QIA2	Burkholderia_phage	45.1	2.5e-76
AVV00227.1|4486755_4487478_+|plate	phage baseplate assembly protein V	plate	A0A067ZIM2	Vibrio_phage	41.0	3.3e-11
AVV00228.1|4487805_4488168_+	GtrA family protein	NA	I1TED9	Salmonella_phage	70.8	1.2e-43
AVV00229.1|4488164_4489094_+	glycosyltransferase	NA	S5FKN0	Shigella_phage	83.8	8.8e-150
AVV00230.1|4489093_4490641_+	hypothetical protein	NA	B9UDL6	Salmonella_phage	29.9	1.9e-48
AVV00231.1|4490804_4491164_+|plate	baseplate protein	plate	Q6QIA0	Burkholderia_phage	64.2	2.8e-35
AVV00232.1|4491154_4492270_+|plate	baseplate protein	plate	Q6QI99	Burkholderia_phage	52.2	1.8e-101
AVV00233.1|4492262_4492895_+|tail	phage tail protein I	tail	Q6QI98	Burkholderia_phage	56.4	6.6e-24
AVV00234.1|4492897_4494643_+|tail	phage tail protein	tail	A0A0M3ULF6	Salmonella_phage	52.2	3.2e-52
AVV00235.1|4494647_4495253_+	DUF4376 domain-containing protein	NA	NA	NA	NA	NA
AVV00236.1|4495249_4495705_+	hypothetical protein	NA	NA	NA	NA	NA
AVV00237.1|4495953_4496244_+	hypothetical protein	NA	NA	NA	NA	NA
AVV00238.1|4496440_4497169_+	hypothetical protein	NA	A0A077SLK3	Escherichia_phage	37.3	5.6e-35
>prophage 1
CP025556	Salmonella enterica subsp. enterica serovar Typhimurium strain PIR00538 plasmid pPIR00538, complete sequence	93832	82082	91378	93832	transposase	Escherichia_phage(28.57%)	12	NA	NA
AVV00881.1|82082_82499_+	hypothetical protein	NA	O64348	Escherichia_phage	42.9	8.2e-07
AVV00863.1|82682_83018_+	hypothetical protein	NA	NA	NA	NA	NA
AVV00864.1|83074_83641_+	DUF2913 domain-containing protein	NA	NA	NA	NA	NA
AVV00865.1|83672_84614_-|transposase	ISNCY family transposase	transposase	Q2A0A7	Sodalis_phage	54.3	2.0e-72
AVV00866.1|85028_86234_+	ParA family protein	NA	A0A077SL49	Escherichia_phage	69.3	1.5e-162
AVV00867.1|86230_87208_+	chromosome partitioning protein ParB	NA	A0A1B0V750	Salmonella_phage	53.2	5.2e-84
AVV00868.1|87289_88564_-	DNA polymerase V subunit UmuC	NA	F1C5A5	Cronobacter_phage	64.5	3.0e-156
AVV00869.1|88563_88986_-	protein SamA	NA	A0A1W6JNS2	Morganella_phage	51.6	1.0e-28
AVV00870.1|89496_89967_+	hypothetical protein	NA	NA	NA	NA	NA
AVV00871.1|89959_90316_+	hypothetical protein	NA	NA	NA	NA	NA
AVV00872.1|90364_90553_+	hypothetical protein	NA	NA	NA	NA	NA
AVV00873.1|90697_91378_+	DNA methylase	NA	A0A2I7RE86	Vibrio_phage	36.4	1.6e-28
