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
CP029861	Salmonella enterica subsp. enterica serovar Typhi strain 343077_260153 chromosome, complete genome	4783691	930408	937720	4783691	integrase,protease	Dickeya_phage(16.67%)	6	931659:931673	942838:942852
AYT90013.1|930408_931527_+	hypothetical protein	NA	A0A140XAI1	Dickeya_phage	39.8	8.1e-09
AYT90014.1|931523_933470_+	macrolide transporter ATP-binding protein/permease	NA	G9BWD6	Planktothrix_phage	43.1	2.0e-39
931659:931673	attL	GGAAAATCAACGCTG	NA	NA	NA	NA
AYT90015.1|933599_933821_-	cold shock-like protein CspD	NA	A0A2H4N7Y6	Lake_Baikal_phage	64.2	9.3e-18
AYT90016.1|934144_934465_+|protease	ATP-dependent Clp protease adaptor protein	protease	A0A1B1IT64	uncultured_Mediterranean_phage	45.7	4.5e-13
AYT90017.1|934495_936772_+|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	protease	A0A223W0B1	Agrobacterium_phage	42.2	1.8e-164
AYT90018.1|937342_937720_-|integrase	integrase	integrase	A0A077KET4	Ralstonia_phage	41.0	1.2e-20
942838:942852	attR	CAGCGTTGATTTTCC	NA	NA	NA	NA
>prophage 2
CP029861	Salmonella enterica subsp. enterica serovar Typhi strain 343077_260153 chromosome, complete genome	4783691	1008633	1085945	4783691	tail,integrase,protease,terminase,transposase	Salmonella_phage(73.33%)	93	990699:990718	1061306:1061325
990699:990718	attL	AACGGCGCCGGGAAATCCAC	NA	NA	NA	NA
AYT90068.1|1008633_1009974_-|integrase	integrase	integrase	S4TSP2	Salmonella_phage	99.8	7.9e-261
AYT90069.1|1009970_1010219_-	excisionase	NA	S4TND0	Salmonella_phage	100.0	4.7e-42
AYT90070.1|1010259_1010505_-	bacteriophage protein	NA	S4TR31	Salmonella_phage	96.2	1.3e-36
AYT90071.1|1010504_1011386_-	DNA methylase	NA	A0A0M4R347	Salmonella_phage	93.0	1.2e-153
AYT90072.1|1011382_1012447_-	bacteriophage protein	NA	T1SBJ4	Salmonella_phage	74.6	6.3e-152
AYT90073.1|1012524_1013205_-	exonuclease	NA	A0A0M3ULE0	Salmonella_phage	98.7	1.9e-130
AYT90074.1|1013201_1013987_-	bacteriophage recombination protein	NA	A0A0M4RD39	Salmonella_phage	99.6	9.7e-150
AYT90075.1|1013992_1014289_-	host-nuclease inhibitor protein	NA	A0A0M5M5Z9	Salmonella_phage	96.9	4.4e-47
AYT90076.1|1014379_1014580_-	prophage Kil protein	NA	G8C7T2	Escherichia_phage	48.4	2.4e-12
AYT90077.1|1014868_1015273_-	DNA-binding protein	NA	H6WRX4	Salmonella_phage	99.3	7.1e-72
AYT90078.1|1015604_1015979_+	DNA-binding protein	NA	S4TTD7	Salmonella_phage	99.2	3.9e-64
AYT90079.1|1016063_1017047_+	bacteriophage protein	NA	H6WRX7	Salmonella_phage	99.7	2.1e-162
AYT90080.1|1017049_1017799_+	DNA replication protein	NA	S4TNF5	Salmonella_phage	99.6	3.6e-138
AYT90081.1|1017809_1018157_+	DNA-binding protein	NA	H6WRX9	Salmonella_phage	90.4	4.8e-53
AYT90082.1|1018153_1018678_+	bacteriophage protein	NA	A0A220NQV2	Salmonella_phage	99.4	1.8e-91
AYT90083.1|1018677_1019151_+	methyltransferase	NA	H9C170	Pectobacterium_phage	80.1	1.6e-67
AYT90084.1|1019154_1019727_+	bacteriophage protein	NA	S4TSR6	Salmonella_phage	68.0	1.3e-66
AYT90085.1|1019820_1020087_+	bacteriophage protein	NA	S4TNF2	Salmonella_phage	100.0	1.5e-46
AYT90086.1|1020168_1020330_+	bacteriophage protein	NA	NA	NA	NA	NA
AYT90087.1|1020762_1021260_+	bacteriophage protein	NA	NA	NA	NA	NA
AYT90088.1|1021444_1021684_+	damage-inducible protein	NA	H6WRY5	Salmonella_phage	100.0	3.9e-38
AYT90089.1|1021673_1021979_+	bacteriophage protein	NA	H6WRY6	Salmonella_phage	100.0	9.8e-42
AYT90090.1|1022018_1022621_+	bacteriophage protein	NA	S4TTI0	Salmonella_phage	99.5	7.5e-110
AYT90091.1|1022829_1023441_+	bacteriophage lambda protein NinG	NA	A0A0M4RU10	Salmonella_phage	99.5	2.5e-92
AYT90092.1|1023573_1024371_+	prophage antitermination protein	NA	A0A0M4S661	Salmonella_phage	99.2	3.4e-150
AYT90093.1|1024769_1024895_+	bacteriophage protein	NA	NA	NA	NA	NA
AYT90094.1|1025030_1025480_-	lipoprotein	NA	NA	NA	NA	NA
AYT90095.1|1025696_1026086_+	prophage membrane protein	NA	K7PHB9	Enterobacterial_phage	70.2	3.1e-40
AYT90096.1|1026072_1026354_+	prophage membrane protein	NA	K7PKN9	Enterobacterial_phage	80.6	2.6e-36
AYT90097.1|1026353_1026968_+	bacteriophage protein	NA	Q8HA86	Salmonella_phage	93.1	3.2e-108
AYT90098.1|1027186_1027441_+	hypothetical protein	NA	NA	NA	NA	NA
AYT90099.1|1027545_1027923_+	hypothetical protein	NA	Q6UAR9	Klebsiella_phage	68.5	4.9e-43
AYT90100.1|1027986_1028247_+	hypothetical protein	NA	NA	NA	NA	NA
AYT90101.1|1028336_1029089_+|terminase	prophage terminase small subunit	terminase	A0A0M3ULJ9	Salmonella_phage	56.5	3.4e-11
AYT90102.1|1029054_1030458_+	bacteriophage protein	NA	A0A077KAW0	Edwardsiella_phage	70.1	6.5e-189
AYT90103.1|1030457_1031927_+	hypothetical protein	NA	A0A0M4S6U1	Salmonella_phage	99.2	1.7e-280
AYT90104.1|1032018_1032549_+	hypothetical protein	NA	A0A0M4REK0	Salmonella_phage	87.4	8.7e-86
AYT90105.1|1032563_1033796_+	hypothetical protein	NA	A0A0M4R5A6	Salmonella_phage	99.0	1.4e-227
AYT90106.1|1033800_1034298_+	bacteriophage protein	NA	A0A0M4QWZ6	Salmonella_phage	99.4	8.7e-88
AYT90107.1|1034309_1035251_+	bacteriophage protein	NA	A0A0M3ULD3	Salmonella_phage	100.0	3.1e-179
AYT90108.1|1035292_1035661_+	bacteriophage protein	NA	A0A0M4RTX5	Salmonella_phage	100.0	8.7e-61
AYT90109.1|1035626_1036034_+	bacteriophage protein	NA	A0A0M5M3S2	Salmonella_phage	97.8	7.1e-72
AYT90110.1|1036030_1036585_+	bacteriophage protein	NA	A0A0M4S631	Salmonella_phage	100.0	4.8e-95
AYT90111.1|1036571_1036961_+	bacteriophage protein	NA	A0A0M3ULK0	Salmonella_phage	98.4	6.0e-68
AYT90112.1|1036935_1037499_+	bacteriophage protein	NA	A0A0M4R331	Salmonella_phage	75.3	8.9e-81
AYT90113.1|1037502_1038648_+	bacteriophage protein	NA	A0A2H4J8G4	uncultured_Caudovirales_phage	74.5	2.2e-163
AYT90114.1|1038659_1039100_+	bacteriophage protein	NA	A0A2H4J619	uncultured_Caudovirales_phage	74.7	3.5e-56
AYT90115.1|1039103_1039556_+	bacteriophage protein	NA	A0A0M4S6U8	Salmonella_phage	76.6	1.9e-57
AYT90116.1|1039733_1041686_+	bacteriophage protein	NA	A0A0M4REK7	Salmonella_phage	56.0	1.8e-181
AYT90117.1|1041685_1042336_+	bacteriophage protein	NA	A0A0M3ULD5	Salmonella_phage	60.6	3.0e-56
AYT90118.1|1042339_1042642_+	bacteriophage protein	NA	A0A2H4J495	uncultured_Caudovirales_phage	57.0	2.0e-26
AYT90119.1|1042644_1043676_+	bacteriophage protein	NA	A0A2H4J1B2	uncultured_Caudovirales_phage	51.4	1.2e-96
AYT90120.1|1043672_1044008_+	hypothetical protein	NA	A0A2H4J1A5	uncultured_Caudovirales_phage	52.2	1.1e-20
AYT90121.1|1044202_1044934_+	bacteriophage protein	NA	NA	NA	NA	NA
AYT90122.1|1044933_1045362_+	bacteriophage protein	NA	NA	NA	NA	NA
AYT90123.1|1045420_1046176_+	bacteriophage protein	NA	A0A0M5M1K7	Salmonella_phage	85.3	4.1e-105
AYT90124.1|1046263_1046401_+	bacteriophage protein	NA	A0A0M4S639	Salmonella_phage	100.0	2.0e-18
AYT90125.1|1046416_1046770_+	bacteriophage protein	NA	A0A0M4R339	Salmonella_phage	98.3	3.2e-60
AYT90126.1|1046770_1047970_+	bacteriophage protein	NA	A0A0M4RD32	Salmonella_phage	97.5	8.5e-214
AYT90127.1|1047966_1048647_+	bacteriophage protein	NA	A0A0M5M1K4	Salmonella_phage	98.7	6.9e-128
AYT90128.1|1048646_1050158_+|tail	bacteriophage tail protein	tail	S4TP62	Salmonella_phage	59.4	1.5e-111
AYT90129.1|1050172_1050691_+|tail	tail fiber protein	tail	A0A1B0VCD0	Salmonella_phage	62.8	1.7e-46
AYT90130.1|1051612_1052314_-	hypothetical protein	NA	NA	NA	NA	NA
AYT90131.1|1052626_1052905_-	hypothetical protein	NA	S4TNM0	Salmonella_phage	92.3	2.4e-26
AYT90132.1|1053330_1055943_+	aminopeptidase N	NA	A0A0P0IY26	Acinetobacter_phage	22.6	1.1e-19
AYT90133.1|1056150_1057161_+	dihydroorotate dehydrogenase	NA	NA	NA	NA	NA
AYT90134.1|1057323_1057869_+	hypothetical protein	NA	NA	NA	NA	NA
AYT90135.1|1057865_1058975_-	MOSC domain-containing protein	NA	NA	NA	NA	NA
AYT90136.1|1059073_1061182_+	23S rRNA m(2)G2445 methyltransferase	NA	W6LLI2	Streptococcus_phage	29.6	5.1e-20
AYT90137.1|1061194_1063102_+	ABC transporter ATP-binding protein	NA	A0A2K9L3Z8	Tupanvirus	29.8	2.4e-53
1061306:1061325	attR	AACGGCGCCGGGAAATCCAC	NA	NA	NA	NA
AYT90138.1|1063116_1064370_+	inner membrane protein	NA	NA	NA	NA	NA
AYT90139.1|1064374_1066015_+	paraquat-inducible protein B	NA	NA	NA	NA	NA
AYT90140.1|1066011_1066575_+	lipoprotein	NA	NA	NA	NA	NA
AYT90141.1|1066828_1066996_+	ribosome modulation factor	NA	NA	NA	NA	NA
AYT90142.1|1067095_1067614_-	D-3-hydroxydecanoyl-(acyl carrier-protein) dehydratase	NA	NA	NA	NA	NA
AYT90143.1|1067682_1069443_-|protease	ATP-dependent protease	protease	NA	NA	NA	NA
AYT90144.1|1069628_1070081_+	Ter macrodomain organizer matS-binding protein	NA	NA	NA	NA	NA
AYT90145.1|1070152_1071205_-	outer membrane protein A	NA	NA	NA	NA	NA
AYT90146.1|1071559_1072069_-	cell division inhibitor	NA	NA	NA	NA	NA
AYT90147.1|1072285_1072891_+	competence-specific transcriptional regulator TfoX	NA	NA	NA	NA	NA
AYT90148.1|1072877_1075031_-	inner membrane protein	NA	NA	NA	NA	NA
AYT90149.1|1075049_1075496_-	hypothetical protein	NA	NA	NA	NA	NA
AYT90150.1|1075619_1077674_+	helicase IV	NA	A7KV33	Bacillus_phage	27.6	6.5e-20
AYT90151.1|1077709_1078168_-	methylglyoxal synthase	NA	NA	NA	NA	NA
AYT90152.1|1078262_1078925_-	hypothetical protein	NA	NA	NA	NA	NA
AYT90153.1|1079095_1079512_+	hypothetical protein	NA	NA	NA	NA	NA
AYT90154.1|1079556_1079874_-	heat shock protein HspQ	NA	NA	NA	NA	NA
AYT90155.1|1079931_1081143_-	23S rRNA m(5)C1962 methyltransferase	NA	NA	NA	NA	NA
AYT90156.1|1082274_1082733_+|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
AYT90157.1|1083469_1083751_+	acylphosphatase	NA	NA	NA	NA	NA
AYT90158.1|1083747_1084077_-	sulfite reductase	NA	NA	NA	NA	NA
AYT90159.1|1084163_1084823_-	hypothetical protein	NA	A0A2H4JFM9	uncultured_Caudovirales_phage	52.4	2.7e-44
AYT90160.1|1085486_1085945_+|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
>prophage 3
CP029861	Salmonella enterica subsp. enterica serovar Typhi strain 343077_260153 chromosome, complete genome	4783691	1528752	1602350	4783691	tail,protease,tRNA,plate,transposase,head	Burkholderia_virus(44.12%)	72	NA	NA
AYT90560.1|1528752_1529211_-|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
AYT90561.1|1529713_1529995_+	stress response protein	NA	NA	NA	NA	NA
AYT90562.1|1530263_1531085_+|protease	serine protease	protease	NA	NA	NA	NA
AYT90563.1|1531119_1531449_-	multidrug efflux system protein MdtI	NA	NA	NA	NA	NA
AYT90564.1|1531435_1531798_-	multidrug efflux system protein MdtJ	NA	NA	NA	NA	NA
AYT90565.1|1531909_1532080_-	hypothetical protein	NA	NA	NA	NA	NA
AYT90566.1|1532214_1533249_+	hypothetical protein	NA	NA	NA	NA	NA
AYT90567.1|1533423_1534812_-	pyridine nucleotide transhydrogenase subunit beta	NA	NA	NA	NA	NA
AYT90568.1|1534822_1536352_-	pyridine nucleotide transhydrogenase subunit alpha	NA	NA	NA	NA	NA
AYT90569.1|1536878_1537823_+	hypothetical protein	NA	NA	NA	NA	NA
AYT90570.1|1538004_1538394_-	bacteriophage transcriptional regulator	NA	Q6QIE8	Burkholderia_phage	54.2	4.5e-31
AYT90571.1|1538365_1538818_-	hypothetical protein	NA	A4JWM5	Burkholderia_virus	46.6	1.2e-24
AYT90572.1|1539012_1539243_-	hypothetical protein	NA	NA	NA	NA	NA
AYT90573.1|1539239_1539923_-	hypothetical protein	NA	A0A2P9JZH4	Alteromonadaceae_phage	37.3	2.6e-34
AYT90574.1|1540507_1540810_-	hypothetical protein	NA	NA	NA	NA	NA
AYT90575.1|1541380_1541911_-	bacteriophage host-nuclease inhibitor protein	NA	L7P7T1	Pseudomonas_phage	66.1	3.4e-58
AYT90576.1|1542210_1543377_-	ExeA protein	NA	A4JWN1	Burkholderia_virus	59.7	3.3e-122
AYT90577.1|1543387_1545157_-	hypothetical protein	NA	Q6QIE0	Burkholderia_phage	68.5	2.8e-229
AYT90578.1|1546601_1546952_+	hypothetical protein	NA	A4JWP3	Burkholderia_virus	53.0	4.5e-22
AYT90579.1|1547666_1548317_+	lipoprotein	NA	Q5ZQY9	Pseudomonas_phage	32.9	8.1e-09
AYT90580.1|1548639_1548951_+	hypothetical protein	NA	A0A0S4L0A3	Pseudomonas_phage	62.6	9.4e-32
AYT90581.1|1548950_1549496_+	hypothetical protein	NA	A4JWJ3	Burkholderia_virus	67.6	9.3e-59
AYT90582.1|1549492_1551088_+	hypothetical protein	NA	A4JWJ4	Burkholderia_virus	62.6	9.3e-184
AYT90583.1|1551087_1552584_+	hypothetical protein	NA	A4JWJ5	Burkholderia_virus	59.6	8.0e-169
AYT90584.1|1552564_1553386_+|head	phage head morphogenesis protein	head	A4JWJ6	Burkholderia_virus	61.2	5.3e-98
AYT90585.1|1553388_1553847_+	bacteriophage protein	NA	Q6QIB8	Burkholderia_phage	44.8	1.5e-30
AYT90586.1|1554061_1555177_+	hypothetical protein	NA	A4JWJ9	Burkholderia_virus	51.1	7.9e-97
AYT90587.1|1555191_1556145_+	hypothetical protein	NA	A4JWK0	Burkholderia_virus	44.5	5.2e-65
AYT90588.1|1556154_1556493_+	hypothetical protein	NA	NA	NA	NA	NA
AYT90589.1|1556494_1556941_+	hypothetical protein	NA	A4JWK2	Burkholderia_virus	52.3	2.2e-34
AYT90590.1|1556940_1557405_+	hypothetical protein	NA	Q6QIB2	Burkholderia_phage	51.7	9.1e-39
AYT90591.1|1557645_1559073_+|tail	bacteriophage tail sheath protein	tail	A4JWK5	Burkholderia_virus	77.4	3.7e-216
AYT90592.1|1559072_1559594_+|tail	tail core protein	tail	A4JWK6	Burkholderia_virus	68.2	8.0e-68
AYT90593.1|1559596_1559878_+	hypothetical protein	NA	NA	NA	NA	NA
AYT90594.1|1559975_1560311_+	hypothetical protein	NA	NA	NA	NA	NA
AYT90595.1|1560486_1562952_+	bacteriophage protein	NA	A4JWL0	Burkholderia_virus	42.6	2.2e-168
AYT90596.1|1562951_1563836_+	hypothetical protein	NA	A4JWL1	Burkholderia_virus	47.0	7.5e-50
AYT90597.1|1563832_1564048_+|tail	bacteriophage tail fiber protein	tail	Q6QIA3	Burkholderia_phage	60.0	2.4e-18
AYT90598.1|1564035_1565190_+	bacteriophage regulatory protein	NA	Q6QIA2	Burkholderia_phage	47.1	4.7e-84
AYT90599.1|1565186_1565714_+|plate	bacteriophage baseplate protein	plate	Q6QIA1	Burkholderia_phage	46.5	1.5e-21
AYT90600.1|1565770_1566118_+|plate	bacteriophage baseplate protein	plate	Q6QIA0	Burkholderia_phage	60.6	8.6e-34
AYT90601.1|1566108_1567212_+|plate	bacteriophage baseplate assembly protein	plate	Q6QI99	Burkholderia_phage	54.3	5.4e-106
AYT90602.1|1567204_1567783_+|tail	bacteriophage tail fiber protein	tail	A4JWL7	Burkholderia_virus	65.8	6.4e-66
AYT90603.1|1567785_1568811_+|tail	bacteriophage tail fiber protein	tail	M1TAS6	Escherichia_phage	53.3	1.6e-64
AYT90604.1|1569324_1569942_+|tail	bacteriophage tail fiber assembly protein	tail	Q9MCR5	Enterobacteria_phage	59.9	5.8e-65
AYT90605.1|1571452_1572025_+	DNA-invertase	NA	A0A0A7NPV4	Enterobacteria_phage	84.7	8.8e-84
AYT90606.1|1572305_1573688_+	amino acid permease	NA	NA	NA	NA	NA
AYT90607.1|1573749_1574085_-	hypothetical protein	NA	NA	NA	NA	NA
AYT90608.1|1574211_1574943_+	two-component response regulator	NA	NA	NA	NA	NA
AYT90609.1|1575423_1576575_+	outer membrane protein	NA	Q1MVN1	Enterobacteria_phage	59.1	3.2e-117
AYT90610.1|1576727_1578434_+	metal-dependent hydrolase	NA	NA	NA	NA	NA
AYT90611.1|1578541_1579846_+	two component sensor kinase	NA	W8CYF6	Bacillus_phage	22.7	5.7e-14
AYT90612.1|1579921_1580851_+	DNA sequence-specific contrahelicase	NA	NA	NA	NA	NA
AYT90613.1|1580847_1582251_-	fumarate hydratase class II	NA	NA	NA	NA	NA
AYT90614.1|1582418_1584065_-	Fumarate hydratase class I	NA	NA	NA	NA	NA
AYT90615.1|1584264_1585440_+	mannose-6-phosphate isomerase	NA	NA	NA	NA	NA
AYT90616.1|1585542_1587051_+	hypothetical protein	NA	NA	NA	NA	NA
AYT90617.1|1587756_1588758_+	adenosine deaminase	NA	NA	NA	NA	NA
AYT90618.1|1588831_1589947_-	oxidoreductase	NA	NA	NA	NA	NA
AYT90619.1|1590049_1590205_+	hypothetical protein	NA	NA	NA	NA	NA
AYT90620.1|1590503_1590719_+	oriC-binding nucleoid-associated protein	NA	NA	NA	NA	NA
AYT90621.1|1590807_1591248_+	hypothetical protein	NA	NA	NA	NA	NA
AYT90622.1|1591324_1591906_+	Na(+)-translocating NADH-quinone reductase subunit E	NA	NA	NA	NA	NA
AYT90623.1|1591905_1592484_+	ferredoxin-like protein	NA	NA	NA	NA	NA
AYT90624.1|1592476_1594498_+	NADH reducing dehydrogenase	NA	NA	NA	NA	NA
AYT90625.1|1594498_1595557_+	electron transport complex protein RnfD	NA	NA	NA	NA	NA
AYT90626.1|1595560_1596181_+	electron transport complex protein RnfG	NA	NA	NA	NA	NA
AYT90627.1|1596183_1596876_+	electron transport complex protein RsxE	NA	NA	NA	NA	NA
AYT90628.1|1596875_1597511_+	endonuclease III	NA	NA	NA	NA	NA
AYT90629.1|1598111_1599617_+	proton/oligopeptide symporter	NA	NA	NA	NA	NA
AYT90630.1|1599721_1600327_+	glutathione S-transferase	NA	NA	NA	NA	NA
AYT90631.1|1601075_1602350_-|tRNA	tyrosyl-tRNA synthetase	tRNA	K4F5T3	Cronobacter_phage	42.1	1.6e-85
>prophage 4
CP029861	Salmonella enterica subsp. enterica serovar Typhi strain 343077_260153 chromosome, complete genome	4783691	1783387	1787799	4783691		Escherichia_phage(50.0%)	6	NA	NA
AYT90815.1|1783387_1783627_+	virulence protein	NA	K7P6H1	Enterobacteria_phage	87.3	5.5e-32
AYT90816.1|1784499_1785309_+	toxin-like protein	NA	A5LH53	Enterobacteria_phage	50.0	2.1e-62
AYT90817.1|1785381_1785759_+	hypothetical protein	NA	I1TQ41	Pseudomonas_phage	38.4	2.2e-14
AYT90818.1|1785906_1786449_-	hypothetical protein	NA	A0A0U2S643	Escherichia_phage	67.0	6.2e-71
AYT90819.1|1786640_1787369_-	pertussis toxin subunit ArtA	NA	A0A0U2KD26	Escherichia_phage	53.3	4.9e-63
AYT90820.1|1787385_1787799_-	pertussis-like toxin subunit	NA	A0A0U2KD34	Escherichia_phage	38.6	1.4e-19
>prophage 5
CP029861	Salmonella enterica subsp. enterica serovar Typhi strain 343077_260153 chromosome, complete genome	4783691	1991652	1998886	4783691		Morganella_phage(33.33%)	7	NA	NA
AYT91010.1|1991652_1993083_-	DNA-cytosine methyltransferase	NA	E5E3X6	Burkholderia_phage	57.4	1.0e-104
AYT91011.1|1993156_1993852_-	hypothetical protein	NA	S4W232	Pandoravirus	27.5	2.1e-07
AYT91012.1|1993931_1994243_-	hypothetical protein	NA	NA	NA	NA	NA
AYT91013.1|1994893_1996078_+	outer membrane protein S1	NA	Q1MVN1	Enterobacteria_phage	56.4	1.4e-107
AYT91014.1|1996537_1996750_-	cold shock protein	NA	A0A1W6JNX5	Morganella_phage	70.0	1.5e-20
AYT91015.1|1997195_1998464_-	DNA polymerase V subunit UmuC	NA	I6RSM4	Salmonella_phage	91.2	3.3e-224
AYT91016.1|1998466_1998886_-	DNA polymerase V subunit UmuD	NA	A0A1W6JNS2	Morganella_phage	60.5	8.5e-36
>prophage 6
CP029861	Salmonella enterica subsp. enterica serovar Typhi strain 343077_260153 chromosome, complete genome	4783691	2105187	2115694	4783691		Enterobacteria_phage(37.5%)	10	NA	NA
AYT91113.1|2105187_2106501_-	dehydratase RfbH	NA	H8ZJ36	Ostreococcus_tauri_virus	35.1	7.0e-52
AYT91114.1|2106527_2107607_-	CDP-glucose 4,6-dehydratase	NA	A0A222YY99	Synechococcus_phage	24.1	1.3e-16
AYT91115.1|2107611_2108385_-	glucose-1-phosphate cytidylyltransferase	NA	NA	NA	NA	NA
AYT91116.1|2108400_2109375_-	reductase RfbI	NA	NA	NA	NA	NA
AYT91117.1|2109380_2109932_-	dTDP-4-dehydrorhamnose 3,5-epimerase	NA	I7HJC4	Enterobacteria_phage	58.6	7.7e-53
AYT91118.1|2109932_2110811_-	TDP-glucose pyrophosphorylase	NA	I7I009	Enterobacteria_phage	64.8	2.3e-107
AYT91119.1|2110858_2111758_-	dTDP-4-dehydrorhamnose reductase	NA	A0A291LA50	Escherichia_phage	36.3	7.9e-31
AYT91120.1|2111757_2112843_-	dTDP-glucose 4,6-dehydratase	NA	I7HTA3	Enterobacteria_phage	53.9	1.6e-102
AYT91121.1|2113219_2114113_-	UTP-glucose-1-phosphate uridylyltransferase	NA	A0A127AW70	Bacillus_phage	42.2	4.8e-44
AYT91122.1|2114290_2115694_-	colanic acid biosynthesis protein WcaM	NA	A0A291LBB9	Klebsiella_phage	26.5	1.1e-21
>prophage 7
CP029861	Salmonella enterica subsp. enterica serovar Typhi strain 343077_260153 chromosome, complete genome	4783691	2192923	2202094	4783691	tRNA	Enterobacteria_phage(66.67%)	10	NA	NA
AYT91182.1|2192923_2194957_+|tRNA	methionyl-tRNA synthetase	tRNA	A0A1V0SDF2	Indivirus	26.9	6.1e-55
AYT91183.1|2195197_2195656_+	lipoprotein	NA	Q9EYF5	Enterobacteria_phage	72.5	8.4e-53
AYT91184.1|2195827_2196358_+	lipoprotein	NA	NA	NA	NA	NA
AYT91185.1|2196414_2196882_-	hypothetical protein	NA	Q9EYF4	Enterobacteria_phage	90.3	3.9e-74
AYT91186.1|2196928_2197648_-	two-component system response regulator	NA	NA	NA	NA	NA
AYT91187.1|2197644_2199330_-	two-component system sensor kinase	NA	Q9EYF3	Enterobacteria_phage	91.1	1.1e-278
AYT91188.1|2199552_2200284_+	transcriptional regulator	NA	Q9EYF2	Enterobacteria_phage	87.9	4.5e-101
AYT91189.1|2200343_2200451_+	hypothetical protein	NA	NA	NA	NA	NA
AYT91190.1|2200431_2201163_-	ABC transporter permease	NA	NA	NA	NA	NA
AYT91191.1|2201146_2202094_-	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	31.2	1.7e-23
>prophage 8
CP029861	Salmonella enterica subsp. enterica serovar Typhi strain 343077_260153 chromosome, complete genome	4783691	2737539	2750931	4783691	tail	Salmonella_phage(70.0%)	11	NA	NA
AYT91620.1|2737539_2737758_-	hypothetical protein	NA	Q53ZE7	Salmonella_virus	71.9	1.9e-18
AYT91621.1|2737848_2738949_-	hypothetical protein	NA	A0A1S6KZZ5	Salmonella_phage	88.3	1.0e-176
AYT91622.1|2738945_2739431_-|tail	bacteriophage tail protein	tail	E5G6Q2	Salmonella_phage	80.0	2.4e-66
AYT91623.1|2739427_2742505_-|tail	bacteriophage tail protein	tail	E5G6Q1	Salmonella_phage	63.0	0.0e+00
AYT91624.1|2742497_2742617_-	hypothetical protein	NA	E5G6Q0	Salmonella_phage	87.2	2.8e-13
AYT91625.1|2742631_2742934_-|tail	phage tail protein	tail	A0A1S6KZZ9	Salmonella_phage	89.0	7.0e-40
AYT91626.1|2742988_2743504_-|tail	major tail tube protein	tail	A0A1S6L002	Salmonella_phage	95.9	5.6e-90
AYT91627.1|2743513_2744686_-|tail	bacteriophage major tail sheath protein	tail	A0A1S6KZY7	Salmonella_phage	90.3	3.5e-204
AYT91628.1|2744828_2745401_-	DNA-invertase	NA	A0A0F7LA37	Escherichia_phage	86.3	1.4e-86
AYT91629.1|2746078_2747194_+	glycosyltransferase	NA	NA	NA	NA	NA
AYT91630.1|2747274_2750931_+	ABC transporter ATP-binding protein/permease	NA	W8CYL7	Bacillus_phage	28.6	1.0e-44
>prophage 9
CP029861	Salmonella enterica subsp. enterica serovar Typhi strain 343077_260153 chromosome, complete genome	4783691	3068093	3111796	4783691	tRNA,transposase,protease,bacteriocin	Bacillus_virus(33.33%)	44	NA	NA
AYT91918.1|3068093_3068552_-|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
AYT91919.1|3068741_3069821_-	fructose 1,6-bisphosphate aldolase	NA	NA	NA	NA	NA
AYT91920.1|3069922_3071086_-	phosphoglycerate kinase	NA	NA	NA	NA	NA
AYT91921.1|3071107_3072154_-	D-erythrose 4-phosphate dehydrogenase	NA	NA	NA	NA	NA
AYT91922.1|3072527_3072953_+	hypothetical protein	NA	NA	NA	NA	NA
AYT91923.1|3072978_3073557_+	hypothetical protein	NA	NA	NA	NA	NA
AYT91924.1|3073590_3074265_+	hypothetical protein	NA	NA	NA	NA	NA
AYT91925.1|3074246_3074930_+	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
AYT91926.1|3074923_3075580_+	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	28.6	1.6e-09
AYT91927.1|3075684_3076143_-|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
AYT91928.1|3076331_3078323_-	transketolase	NA	NA	NA	NA	NA
AYT91929.1|3078598_3079357_+|protease	metalloprotease	protease	NA	NA	NA	NA
AYT91930.1|3079457_3080378_-	agmatine ureohydrolase	NA	NA	NA	NA	NA
AYT91931.1|3080605_3082582_-	biosynthetic arginine decarboxylase	NA	NA	NA	NA	NA
AYT91932.1|3082590_3082722_-	hypothetical protein	NA	NA	NA	NA	NA
AYT91933.1|3083016_3083316_-	membrane protein	NA	NA	NA	NA	NA
AYT91934.1|3083371_3084526_+	S-adenosylmethionine synthetase	NA	A0A2H4PQS6	Staphylococcus_phage	63.9	1.5e-130
AYT91935.1|3085018_3086413_+	galactose-proton symport	NA	NA	NA	NA	NA
AYT91936.1|3086491_3086989_+	hypothetical protein	NA	NA	NA	NA	NA
AYT91937.1|3087084_3087792_+	endonuclease I	NA	NA	NA	NA	NA
AYT91938.1|3087868_3088600_+	16S rRNA (uracil(1498)-N(3))-methyltransferase	NA	NA	NA	NA	NA
AYT91939.1|3088619_3089567_+	glutathione synthetase	NA	NA	NA	NA	NA
AYT91940.1|3089782_3090346_+	hypothetical protein	NA	NA	NA	NA	NA
AYT91941.1|3090345_3090762_+	Holliday junction resolvase	NA	NA	NA	NA	NA
AYT91942.1|3090808_3091495_-	global regulatory protein	NA	NA	NA	NA	NA
AYT91943.1|3091624_3092605_-	type II secretion system ATP-binding protein	NA	NA	NA	NA	NA
AYT91944.1|3092622_3093327_+	hypothetical protein	NA	NA	NA	NA	NA
AYT91945.1|3093345_3093912_+	hypothetical protein	NA	NA	NA	NA	NA
AYT91946.1|3093908_3094199_+	hypothetical protein	NA	NA	NA	NA	NA
AYT91947.1|3094206_3094800_+	dITP/XTP pyrophosphatase	NA	NA	NA	NA	NA
AYT91948.1|3094792_3095929_+	oxygen-independent coproporphyrinogen III oxidase	NA	NA	NA	NA	NA
AYT91949.1|3096019_3097027_-	hypothetical protein	NA	NA	NA	NA	NA
AYT91950.1|3097159_3098206_-	L-asparaginase	NA	NA	NA	NA	NA
AYT91951.1|3098524_3098983_+|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
AYT91952.1|3099105_3099825_-	hypothetical protein	NA	NA	NA	NA	NA
AYT91953.1|3099874_3100201_-	hypothetical protein	NA	NA	NA	NA	NA
AYT91954.1|3100200_3100920_-|tRNA	tRNA m(7)G46 methyltransferase	tRNA	NA	NA	NA	NA
AYT91955.1|3101074_3102127_+	A/G-specific adenine glycosylase	NA	NA	NA	NA	NA
AYT91956.1|3102154_3102430_+	oxidative damage protection protein	NA	NA	NA	NA	NA
AYT91957.1|3102542_3103628_+	membrane-bound lytic murein transglycosylase C	NA	A0A0H3V0Q1	Geobacillus_virus	39.0	5.8e-12
AYT91958.1|3103844_3105101_+	nucleoside permease	NA	NA	NA	NA	NA
AYT91959.1|3107711_3108419_+	hypothetical protein	NA	NA	NA	NA	NA
AYT91960.1|3111008_3111275_+|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
AYT91961.1|3111517_3111796_+|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
>prophage 10
CP029861	Salmonella enterica subsp. enterica serovar Typhi strain 343077_260153 chromosome, complete genome	4783691	3489164	3527222	4783691	portal,tail,integrase,terminase,plate,transposase,capsid	Salmonella_phage(82.05%)	46	3484128:3484142	3496294:3496308
3484128:3484142	attL	CGAATTTCTTTTTCA	NA	NA	NA	NA
AYT92289.1|3489164_3490811_-	acetolactate synthase large subunit	NA	A0A0P0CDR3	Ostreococcus_lucimarinus_virus	31.5	9.0e-65
AYT92290.1|3490950_3491049_-	ilvGMEDA operon attenuator peptide	NA	NA	NA	NA	NA
AYT92291.1|3491304_3491634_+	hypothetical protein	NA	NA	NA	NA	NA
AYT92292.1|3491674_3492727_-|integrase	bacteriophage integrase	integrase	A0A218M4I3	Erwinia_phage	57.3	3.6e-107
AYT92293.1|3493122_3493692_-	repressor protein	NA	A0A1S6KZZ7	Salmonella_phage	43.4	2.5e-38
AYT92294.1|3493817_3494039_+	hypothetical protein	NA	NA	NA	NA	NA
AYT92295.1|3494071_3494581_+	regulatory protein cII	NA	E5G6L3	Salmonella_phage	98.8	5.8e-87
AYT92296.1|3494755_3494980_+	hypothetical protein	NA	NA	NA	NA	NA
AYT92297.1|3495002_3495344_+	hypothetical protein	NA	E5G6L5	Salmonella_phage	98.2	1.7e-55
AYT92298.1|3495411_3495645_+	hypothetical protein	NA	E5G6L6	Salmonella_phage	94.8	2.0e-31
AYT92299.1|3495644_3495872_+	hypothetical protein	NA	E5G6L7	Salmonella_phage	100.0	2.7e-36
AYT92300.1|3495868_3496726_+	DNA adenine methylase	NA	E5G6L8	Salmonella_phage	97.2	3.5e-161
3496294:3496308	attR	TGAAAAAGAAATTCG	NA	NA	NA	NA
AYT92301.1|3496722_3499137_+	endonuclease	NA	E5G6L9	Salmonella_phage	97.5	0.0e+00
AYT92302.1|3499290_3499479_+	hypothetical protein	NA	E5G6M0	Salmonella_phage	95.2	7.9e-26
AYT92303.1|3501446_3502361_+	hypothetical protein	NA	NA	NA	NA	NA
AYT92304.1|3502357_3503098_+	hypothetical protein	NA	NA	NA	NA	NA
AYT92305.1|3503132_3504170_-|capsid,portal	capsid portal protein	capsid,portal	A0A1S6KZW5	Salmonella_phage	89.5	1.3e-173
AYT92306.1|3504169_3505936_-|terminase	terminase subunit	terminase	A0A1S6KZW3	Salmonella_phage	99.5	0.0e+00
AYT92307.1|3506078_3506912_+|capsid	capsid scaffolding protein	capsid	A0A1S6KZW9	Salmonella_phage	90.6	1.5e-121
AYT92308.1|3506928_3507987_+|capsid	major capsid protein	capsid	E5G6M6	Salmonella_phage	93.1	1.4e-180
AYT92309.1|3507990_3508641_+|terminase	terminase endonuclease subunit	terminase	E5G6M7	Salmonella_phage	96.3	8.7e-112
AYT92310.1|3508673_3509201_+|capsid	capsid completion protein	capsid	A0A1S6KZW8	Salmonella_phage	89.0	2.1e-76
AYT92311.1|3509200_3509404_+|tail	phage tail protein	tail	E5G6M9	Salmonella_phage	92.5	1.4e-31
AYT92312.1|3509407_3509623_+	hypothetical protein	NA	E5G6N0	Salmonella_phage	80.3	1.8e-26
AYT92313.1|3509642_3510116_+	lysozyme	NA	E5G6N1	Salmonella_phage	91.0	3.7e-80
AYT92314.1|3510117_3510495_+	hypothetical protein	NA	A0A1S6KZZ2	Salmonella_phage	40.0	2.3e-16
AYT92315.1|3510491_3510920_+	regulatory protein	NA	E5G6N2	Salmonella_phage	77.3	2.2e-47
AYT92316.1|3511015_3511447_+|tail	phage tail protein	tail	E5G6N3	Salmonella_phage	95.1	1.5e-72
AYT92317.1|3511439_3511886_+|tail	phage tail protein	tail	A0A1S6L001	Salmonella_phage	85.6	6.6e-63
AYT92318.1|3511954_3512533_+|plate	phage baseplate assembly protein	plate	A0A1S6KZX7	Salmonella_phage	86.5	5.5e-94
AYT92319.1|3512529_3512889_+|plate	phage baseplate assembly protein	plate	A0A1S6KZZ4	Salmonella_phage	84.9	6.1e-51
AYT92320.1|3512875_3513784_+|plate	phage baseplate assembly protein	plate	A0A1S6KZY6	Salmonella_phage	89.7	1.3e-142
AYT92321.1|3513776_3514382_+|tail	phage tail protein	tail	A0A1S6L000	Salmonella_phage	92.0	2.0e-110
AYT92322.1|3514378_3515893_+|tail	variable tail fiber protein	tail	M1TAS6	Escherichia_phage	73.2	6.8e-200
AYT92323.1|3515892_3516486_+|tail	tail fiber assembly protein	tail	M1SV83	Escherichia_phage	64.3	9.2e-60
AYT92324.1|3516457_3516898_-|tail	tail fiber assembly protein	tail	A0A0F7LDZ0	Escherichia_phage	68.0	3.1e-52
AYT92325.1|3517320_3517893_+	DNA-invertase	NA	A0A0F7LA37	Escherichia_phage	86.3	1.4e-86
AYT92326.1|3518035_3519208_+|tail	bacteriophage major tail sheath protein	tail	A0A1S6KZY7	Salmonella_phage	90.3	3.5e-204
AYT92327.1|3519217_3519733_+|tail	major tail tube protein	tail	A0A1S6L002	Salmonella_phage	95.9	5.6e-90
AYT92328.1|3519787_3520090_+|tail	phage tail protein	tail	A0A1S6KZZ9	Salmonella_phage	89.0	7.0e-40
AYT92329.1|3520104_3520224_+	bacteriophage protein	NA	E5G6Q0	Salmonella_phage	87.2	2.8e-13
AYT92330.1|3520216_3523294_+|tail	bacteriophage tail protein	tail	E5G6Q1	Salmonella_phage	63.0	0.0e+00
AYT92331.1|3523290_3523776_+|tail	bacteriophage tail protein	tail	E5G6Q2	Salmonella_phage	80.0	2.4e-66
AYT92332.1|3523772_3524873_+	hypothetical protein	NA	A0A1S6KZZ5	Salmonella_phage	88.3	1.0e-176
AYT92333.1|3524963_3525182_+	hypothetical protein	NA	Q53ZE7	Salmonella_virus	69.0	7.5e-20
AYT92334.1|3526763_3527222_+|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
>prophage 11
CP029861	Salmonella enterica subsp. enterica serovar Typhi strain 343077_260153 chromosome, complete genome	4783691	4443350	4517607	4783691	tail,portal,integrase,terminase,plate,capsid	Salmonella_phage(82.98%)	76	4504851:4504867	4517766:4517782
AYT93105.1|4443350_4445300_+	hypothetical protein	NA	A0A2K9V411	Faecalibacterium_phage	38.3	5.9e-31
AYT93106.1|4445371_4446280_+	hypothetical protein	NA	NA	NA	NA	NA
AYT93107.1|4446353_4447253_+	hypothetical protein	NA	NA	NA	NA	NA
AYT93108.1|4447294_4447654_+	hypothetical protein	NA	NA	NA	NA	NA
AYT93109.1|4447753_4448023_-	hypothetical protein	NA	NA	NA	NA	NA
AYT93110.1|4448154_4449429_-	UV protection protein	NA	F1C5A5	Cronobacter_phage	62.0	7.5e-152
AYT93111.1|4449648_4450026_+	hypothetical protein	NA	NA	NA	NA	NA
AYT93112.1|4450112_4450331_-	hypothetical protein	NA	E5G6Q4	Salmonella_phage	75.0	4.9e-27
AYT93113.1|4450398_4451499_-	hypothetical protein	NA	E5G6Q3	Salmonella_phage	92.1	7.9e-190
AYT93114.1|4451495_4451981_-|tail	phage tail protein	tail	E5G6Q2	Salmonella_phage	93.2	9.4e-71
AYT93115.1|4451980_4454761_-	hypothetical protein	NA	A0A2H4JGB2	uncultured_Caudovirales_phage	41.1	3.5e-125
AYT93116.1|4454753_4454873_-	hypothetical protein	NA	E5G6Q0	Salmonella_phage	94.9	1.2e-14
AYT93117.1|4454887_4455190_-|tail	phage tail protein	tail	E5G6P9	Salmonella_phage	93.9	3.3e-42
AYT93118.1|4455244_4455760_-|tail	major tail tube protein	tail	E5G6P8	Salmonella_phage	99.4	2.7e-92
AYT93119.1|4455769_4456942_-|tail	major tail sheath protein	tail	A0A1S6KZY7	Salmonella_phage	99.5	9.8e-223
AYT93120.1|4457476_4458199_+	invasion-associated secreted protein	NA	NA	NA	NA	NA
AYT93121.1|4458396_4458804_-|tail	phage tail fiber protein	tail	A0A1B0V844	Salmonella_phage	84.2	4.1e-59
AYT93122.1|4458810_4460430_-|tail	phage tail fiber protein	tail	E5G6P0	Salmonella_phage	90.9	2.7e-154
AYT93123.1|4460426_4461032_-|tail	phage tail protein	tail	A0A1S6L000	Salmonella_phage	92.0	2.0e-110
AYT93124.1|4461024_4461933_-|plate	phage baseplate assembly protein	plate	E5G6N8	Salmonella_phage	95.4	7.0e-152
AYT93125.1|4461919_4462279_-|plate	phage baseplate assembly protein	plate	A0A1S6KZZ4	Salmonella_phage	96.6	6.8e-58
AYT93126.1|4462275_4462854_-|plate	phage baseplate assembly protein	plate	E5G6N6	Salmonella_phage	99.5	3.9e-108
AYT93127.1|4462922_4463369_-|tail	phage tail completion protein	tail	A0A1S6L001	Salmonella_phage	90.4	2.2e-66
AYT93128.1|4463361_4463793_-|tail	phage tail protein	tail	A0A1S6KZY0	Salmonella_phage	98.6	2.5e-75
AYT93129.1|4463888_4464314_-	regulatory protein	NA	A0A1S6KZX8	Salmonella_phage	97.9	2.5e-67
AYT93130.1|4464313_4464691_-	hypothetical protein	NA	A0A1S6KZZ2	Salmonella_phage	99.2	1.5e-60
AYT93131.1|4464695_4465166_-	lysozyme	NA	A0A1S6KZY9	Salmonella_phage	97.4	1.0e-85
AYT93132.1|4465185_4465401_-	hypothetical protein	NA	E5G6N0	Salmonella_phage	98.6	3.8e-32
AYT93133.1|4465404_4465608_-|tail	phage tail protein	tail	E5G6M9	Salmonella_phage	100.0	3.8e-34
AYT93134.1|4465607_4466072_-|capsid	capsid completion protein	capsid	A0A1S6KZW8	Salmonella_phage	98.1	2.4e-84
AYT93135.1|4466165_4466816_-|terminase	phage terminase	terminase	E5G6M7	Salmonella_phage	99.5	2.4e-114
AYT93136.1|4466819_4467884_-|capsid	major capsid protein	capsid	A0A1S6KZZ3	Salmonella_phage	98.3	1.3e-194
AYT93137.1|4467900_4468734_-|capsid	capsid scaffolding protein	capsid	E5G6M5	Salmonella_phage	87.4	6.1e-126
AYT93138.1|4468876_4470643_+|terminase	terminase subunit	terminase	A0A1S6KZW3	Salmonella_phage	96.4	0.0e+00
AYT93139.1|4470639_4471686_+|capsid,portal	capsid portal protein	capsid,portal	A0A1S6KZW5	Salmonella_phage	86.6	2.1e-176
AYT93140.1|4471734_4472430_-	hypothetical protein	NA	NA	NA	NA	NA
AYT93141.1|4472449_4473514_-	hypothetical protein	NA	NA	NA	NA	NA
AYT93142.1|4473510_4474575_-	hypothetical protein	NA	NA	NA	NA	NA
AYT93143.1|4475499_4475829_-	hypothetical protein	NA	A0A1S6L028	Salmonella_phage	90.8	6.2e-50
AYT93144.1|4475825_4477895_-	bacteriophage replication protein A	NA	A0A1S6L028	Salmonella_phage	95.9	0.0e+00
AYT93145.1|4477885_4478746_-	DNA adenine methylase	NA	E5G6L8	Salmonella_phage	81.8	3.4e-132
AYT93146.1|4478742_4479327_-	exonuclease	NA	A0A1S6L012	Salmonella_phage	73.7	1.1e-76
AYT93147.1|4479323_4479551_-	hypothetical protein	NA	A0A1S6L007	Salmonella_phage	94.7	1.0e-35
AYT93148.1|4479550_4479784_-	hypothetical protein	NA	A0A1S6L021	Salmonella_phage	84.4	9.8e-26
AYT93149.1|4479851_4480193_-	hypothetical protein	NA	A0A1S6L019	Salmonella_phage	99.1	4.6e-56
AYT93150.1|4480156_4480357_-	hypothetical protein	NA	A0A1S6L005	Salmonella_phage	97.0	4.6e-32
AYT93151.1|4480364_4480874_-	phage regulatory protein	NA	A0A1S6L008	Salmonella_phage	94.1	1.3e-83
AYT93152.1|4480906_4481149_-	phage regulatory protein	NA	A0A1S6KZZ6	Salmonella_phage	98.8	2.3e-38
AYT93153.1|4481265_4481898_+	phage repressor protein cI	NA	A0A1S6KZZ7	Salmonella_phage	58.6	1.4e-66
AYT93154.1|4481901_4482927_+|integrase	phage integrase	integrase	A0A1S6L016	Salmonella_phage	98.2	2.7e-200
AYT93155.1|4483033_4483387_-	protein samA'	NA	I6S1S3	Salmonella_phage	59.3	6.7e-10
AYT93156.1|4484003_4484291_+	hypothetical protein	NA	NA	NA	NA	NA
AYT93157.1|4484301_4485192_+	methyltransferase	NA	NA	NA	NA	NA
AYT93158.1|4485191_4485938_+	hypothetical protein	NA	NA	NA	NA	NA
AYT93159.1|4486239_4488210_-	Vi polysaccharide exporter protein	NA	NA	NA	NA	NA
AYT93160.1|4488229_4489534_-	Vi polysaccharide exporter inner-membrane protein	NA	NA	NA	NA	NA
AYT93161.1|4489556_4490252_-	Vi polysaccharide exporter ATP-binding protein	NA	NA	NA	NA	NA
AYT93162.1|4490277_4491072_-	Vi polysaccharide exporter inner-membrane protein	NA	NA	NA	NA	NA
AYT93163.1|4491081_4492149_-	Vi polysaccharide exporter protein	NA	NA	NA	NA	NA
AYT93164.1|4492193_4493930_-	Vi polysaccharide biosynthesis protein TviE	NA	NA	NA	NA	NA
AYT93165.1|4493929_4496425_-	Vi polysaccharide biosynthesis protein	NA	NA	NA	NA	NA
AYT93166.1|4496448_4497495_-	Vi polysaccharide biosynthesis epimerase	NA	A0A2K9L0I7	Tupanvirus	45.0	1.4e-74
AYT93167.1|4497497_4498775_-	Vi polysaccharide biosynthesis UDP-glucose/GDP-mannose dehydrogenase	NA	M1HYW7	Paramecium_bursaria_Chlorella_virus	26.7	1.3e-21
AYT93168.1|4499019_4499559_-	Vi polysaccharide biosynthesis protein	NA	NA	NA	NA	NA
AYT93169.1|4500412_4501924_+	DNA helicase	NA	A0A126DN25	Acinetobacter_phage	29.0	2.0e-42
AYT93170.1|4501907_4503497_+	hypothetical protein	NA	NA	NA	NA	NA
AYT93171.1|4503660_4504674_+|integrase	phage integrase	integrase	NA	NA	NA	NA
4504851:4504867	attL	GTGGTGCCCGGACTCGG	NA	NA	NA	NA
AYT93172.1|4505100_4505394_+	hypothetical protein	NA	NA	NA	NA	NA
AYT93173.1|4505390_4505879_+	hypothetical protein	NA	NA	NA	NA	NA
AYT93174.1|4506058_4506511_-	hypothetical protein	NA	NA	NA	NA	NA
AYT93175.1|4511733_4512195_+	hypothetical protein	NA	NA	NA	NA	NA
AYT93176.1|4512191_4512413_+	transcriptional regulator	NA	A0A2I7S995	Vibrio_phage	58.3	4.6e-17
AYT93177.1|4513269_4514052_+	hypothetical protein	NA	NA	NA	NA	NA
AYT93178.1|4514678_4514903_-	hypothetical protein	NA	NA	NA	NA	NA
AYT93179.1|4515032_4516037_-	SH3 domain-containing protein	NA	NA	NA	NA	NA
AYT93180.1|4516347_4517607_-|integrase	bacteriophage integrase	integrase	B7SYF8	Stenotrophomonas_phage	41.7	3.2e-78
4517766:4517782	attR	GTGGTGCCCGGACTCGG	NA	NA	NA	NA
>prophage 12
CP029861	Salmonella enterica subsp. enterica serovar Typhi strain 343077_260153 chromosome, complete genome	4783691	4659859	4670118	4783691	capsid	Enterobacteria_phage(77.78%)	13	NA	NA
AYT93317.1|4659859_4660936_-	protein kinase	NA	A0A2H4UU60	Bodo_saltans_virus	28.2	7.8e-17
AYT93318.1|4660932_4662006_-	protein kinase	NA	G9BWE0	Planktothrix_phage	44.7	6.5e-56
AYT93319.1|4661980_4663144_-	hypothetical protein	NA	NA	NA	NA	NA
AYT93320.1|4663419_4663986_-	phage polarity suppression protein	NA	Q7M2A1	Enterobacteria_phage	64.9	1.8e-60
AYT93321.1|4664001_4664241_-	hypothetical protein	NA	Q7M294	Enterobacteria_phage	60.5	3.7e-20
AYT93322.1|4664244_4665105_-|capsid	phage capsid protein	capsid	NA	NA	NA	NA
AYT93323.1|4665527_4665851_+	phage DNA binding protein	NA	Q7M299	Enterobacteria_phage	70.0	3.6e-26
AYT93324.1|4665834_4666335_+	hypothetical protein	NA	Q7M2A7	Enterobacteria_phage	70.4	9.8e-31
AYT93325.1|4666331_4666559_+	hypothetical protein	NA	NA	NA	NA	NA
AYT93326.1|4666555_4666876_+	P4 phage protein	NA	NA	NA	NA	NA
AYT93327.1|4666890_4667565_+	bacteriophage P4 DNA primase	NA	Q7M2A8	Enterobacteria_phage	75.1	1.4e-85
AYT93328.1|4667561_4669223_+	hypothetical protein	NA	Q7M2A8	Enterobacteria_phage	90.2	1.9e-296
AYT93329.1|4669959_4670118_+	recombinase	NA	Q7M297	Enterobacteria_phage	57.4	3.9e-10
>prophage 1
CP029860	Salmonella enterica subsp. enterica serovar Typhi strain 343077_260153 plasmid pK91, complete sequence	91891	2968	79064	91891	protease,transposase	Escherichia_phage(28.12%)	76	NA	NA
AYT89130.1|2968_4045_+|transposase	transposase of ISEc21	transposase	NA	NA	NA	NA
AYT89131.1|4447_6538_-|protease	Lon protease	protease	NA	NA	NA	NA
AYT89132.1|6554_9212_-	hypothetical protein	NA	NA	NA	NA	NA
AYT89133.1|9211_12841_-	Type I restriction-modification system methyltransferase subunit	NA	NA	NA	NA	NA
AYT89134.1|12856_14620_-	hypothetical protein	NA	NA	NA	NA	NA
AYT89135.1|14636_18314_-	hypothetical protein	NA	NA	NA	NA	NA
AYT89136.1|18332_18917_-	hypothetical protein	NA	NA	NA	NA	NA
AYT89137.1|18913_19513_-	hypothetical protein	NA	NA	NA	NA	NA
AYT89138.1|19522_20410_-	hypothetical protein	NA	NA	NA	NA	NA
AYT89139.1|20517_20928_-	hypothetical protein	NA	NA	NA	NA	NA
AYT89140.1|21269_21947_-|transposase	transposase	transposase	S5WIU1	Leptospira_phage	43.2	2.2e-41
AYT89141.1|23049_23445_+|transposase	transposase	transposase	Q76S41	Shigella_phage	75.4	1.4e-43
AYT89142.1|23447_24284_+|transposase	transposase InsF for insertion sequence IS3A/B/C/D/E/fA	transposase	Q9ZXG3	Shigella_phage	62.7	4.3e-95
AYT89143.1|24280_24625_-	hypothetical protein	NA	NA	NA	NA	NA
AYT89144.1|25137_26856_-	histidine kinase	NA	A0A1V0SGX0	Hokovirus	27.8	2.1e-27
AYT89145.1|26852_27341_-	hypothetical protein	NA	NA	NA	NA	NA
AYT89146.1|27333_28317_-	hypothetical protein	NA	NA	NA	NA	NA
AYT89147.1|28320_29235_-	response regulator receiver protein	NA	NA	NA	NA	NA
AYT89148.1|29548_29857_+	hypothetical protein	NA	NA	NA	NA	NA
AYT89149.1|29849_30065_+	hypothetical protein	NA	NA	NA	NA	NA
AYT89150.1|30067_30730_+	type IV secretory pathway VirB1 component	NA	NA	NA	NA	NA
AYT89151.1|30740_31040_+	conjugal transfer protein TrbC	NA	NA	NA	NA	NA
AYT89152.1|31049_33800_+	ATPase	NA	NA	NA	NA	NA
AYT89153.1|33818_34535_+	TriD protein	NA	NA	NA	NA	NA
AYT89154.1|34546_34831_+	hypothetical protein	NA	NA	NA	NA	NA
AYT89155.1|34848_35856_+	TriE protein	NA	NA	NA	NA	NA
AYT89156.1|36065_36752_+	TriG protein	NA	NA	NA	NA	NA
AYT89157.1|36744_37638_+	P-type conjugative transfer protein VirB9	NA	NA	NA	NA	NA
AYT89158.1|37634_38831_+	TriI protein	NA	NA	NA	NA	NA
AYT89159.1|38834_39884_+	P-type DNA transfer ATPase VirB11	NA	NA	NA	NA	NA
AYT89160.1|39870_40272_+	hypothetical protein	NA	NA	NA	NA	NA
AYT89161.1|40362_40680_+	killer protein	NA	NA	NA	NA	NA
AYT89162.1|40706_41042_+	hypothetical protein	NA	NA	NA	NA	NA
AYT89163.1|41017_41326_+	hypothetical protein	NA	NA	NA	NA	NA
AYT89164.1|41322_43524_+	DNA topoisomerase III	NA	NA	NA	NA	NA
AYT89165.1|43520_43913_+	DNA binding protein	NA	NA	NA	NA	NA
AYT89166.1|44621_46529_+	type IV conjugative transfer system protein TraD	NA	NA	NA	NA	NA
AYT89167.1|46543_47290_+	mobilization protein	NA	NA	NA	NA	NA
AYT89168.1|47282_47810_+	Endonuclease	NA	A0A1B2LRT6	Wolbachia_phage	39.5	2.8e-20
AYT89169.1|47841_48273_-	hypothetical protein	NA	NA	NA	NA	NA
AYT89170.1|48752_49718_-	DNA primase TraC	NA	A0A1V0EEV1	Caulobacter_phage	42.7	1.3e-58
AYT89171.1|50169_50595_+	Error-prone repair protein UmuD	NA	A0A1W6JNS2	Morganella_phage	50.4	2.9e-31
AYT89172.1|50594_51866_+	protein UmuC	NA	F1C5A5	Cronobacter_phage	63.7	5.6e-155
AYT89173.1|51926_52196_+	Orf44	NA	NA	NA	NA	NA
AYT89174.1|52249_52555_+	hypothetical protein	NA	NA	NA	NA	NA
AYT89175.1|53244_54219_-	plasmid partitioning protein	NA	I3WF22	Macacine_betaherpesvirus	89.7	1.7e-156
AYT89176.1|54215_55391_-	plasmid partition protein SopA	NA	A0A2I6B2X3	Macacine_betaherpesvirus	97.4	2.8e-225
AYT89177.1|56110_57133_+	hypothetical protein	NA	J9Q7H0	Salmonella_phage	53.9	6.8e-87
AYT89178.1|57298_57760_-	hypothetical protein	NA	A0A1B0V7H9	Salmonella_phage	57.1	5.9e-38
AYT89179.1|57890_59090_-|transposase	IS1294 transposase	transposase	NA	NA	NA	NA
AYT89180.1|59302_60016_-|transposase	transposase	transposase	Q1MVF0	Enterobacteria_phage	86.5	2.6e-109
AYT89181.1|60213_60504_+	hypothetical protein	NA	A0A077SK55	Escherichia_phage	87.3	1.8e-32
AYT89182.1|60573_60840_+	hypothetical protein	NA	NA	NA	NA	NA
AYT89183.1|60842_61091_+	DNA polymerase III subunit theta	NA	Q71T70	Escherichia_phage	85.4	2.8e-31
AYT89184.1|61199_61595_+	DNA polymerase V subunit	NA	Q1MVE7	Enterobacteria_phage	76.2	2.1e-52
AYT89185.1|61667_61889_+	antitoxin of P1 addiction system	NA	A0A222YXU1	Escherichia_phage	100.0	6.7e-32
AYT89186.1|61888_62269_+	death on curing protein	NA	Q71T66	Escherichia_phage	90.3	1.8e-56
AYT89187.1|62352_63153_-	hypothetical protein	NA	A0A222YXM9	Escherichia_phage	71.1	9.4e-92
AYT89188.1|63166_63661_-	deoxyuridine 5'-triphosphate nucleotidohydrolase	NA	A0A222YYP1	Escherichia_phage	88.4	1.5e-79
AYT89189.1|63653_64145_-	hypothetical protein	NA	NA	NA	NA	NA
AYT89190.1|64141_64396_-	hypothetical protein	NA	Q5QBE7	Escherichia_phage	75.0	2.1e-29
AYT89191.1|64558_65587_-	site-specific tyrosine recombinase XerC	NA	Q5XLQ5	Enterobacteria_phage	42.1	1.1e-60
AYT89192.1|65984_67022_+	hypothetical protein	NA	NA	NA	NA	NA
AYT89193.1|67049_67877_-	replication initiator protein	NA	Q71T61	Escherichia_phage	50.4	8.0e-62
AYT89194.1|67849_68572_+|transposase	IS6 family transposase	transposase	A0A077SL39	Escherichia_phage	100.0	3.2e-139
AYT89195.1|68678_69269_+	hypothetical protein	NA	NA	NA	NA	NA
AYT89196.1|69405_69978_+	resolvase-like protein	NA	M9Q1K0	Clostridium_phage	39.4	3.4e-19
AYT89197.1|70011_71406_+	hypothetical protein	NA	NA	NA	NA	NA
AYT89198.1|71429_71867_+	resolvase protein	NA	A0A219YB42	Aeromonas_phage	43.8	5.2e-20
AYT89199.1|72185_72842_-	quinolone resistance protein	NA	NA	NA	NA	NA
AYT89200.1|73209_73401_+|transposase	IS2 transposase	transposase	Q76S41	Shigella_phage	72.2	3.2e-14
AYT89201.1|73410_73605_+|transposase	transposase	transposase	Q76S41	Shigella_phage	82.8	2.7e-21
AYT89202.1|73733_74270_+	IS2 resolvase	NA	Q9ZXG3	Shigella_phage	69.7	1.2e-69
AYT89203.1|74294_77300_-|transposase	transposase	transposase	Q1MVP5	Enterobacteria_phage	100.0	0.0e+00
AYT89204.1|77463_78021_+	TnpR	NA	Q1MVP4	Enterobacteria_phage	100.0	7.0e-94
AYT89205.1|78203_79064_+	beta-lactamase	NA	Q1MVP3	Enterobacteria_phage	100.0	4.6e-161
