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
CP029964	Salmonella enterica subsp. enterica serovar Typhi strain 343078_223175 chromosome, complete genome	4782707	930308	937620	4782707	protease,integrase	Dickeya_phage(16.67%)	6	931559:931573	942738:942752
AYU32834.1|930308_931427_+	hypothetical protein	NA	A0A140XAI1	Dickeya_phage	39.8	8.1e-09
AYU32835.1|931423_933370_+	macrolide transporter ATP-binding protein/permease	NA	G9BWD6	Planktothrix_phage	43.1	2.0e-39
931559:931573	attL	GGAAAATCAACGCTG	NA	NA	NA	NA
AYU32836.1|933499_933721_-	cold shock-like protein CspD	NA	A0A2H4N7Y6	Lake_Baikal_phage	64.2	9.3e-18
AYU32837.1|934044_934365_+|protease	ATP-dependent Clp protease adaptor protein	protease	A0A1B1IT64	uncultured_Mediterranean_phage	45.7	4.5e-13
AYU32838.1|934395_936672_+|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	protease	A0A223W0B1	Agrobacterium_phage	42.2	1.8e-164
AYU32839.1|937242_937620_-|integrase	integrase	integrase	A0A077KET4	Ralstonia_phage	41.0	1.2e-20
942738:942752	attR	CAGCGTTGATTTTCC	NA	NA	NA	NA
>prophage 2
CP029964	Salmonella enterica subsp. enterica serovar Typhi strain 343078_223175 chromosome, complete genome	4782707	1008758	1086070	4782707	transposase,integrase,protease,tail,terminase	Salmonella_phage(73.33%)	93	990824:990843	1061431:1061450
990824:990843	attL	AACGGCGCCGGGAAATCCAC	NA	NA	NA	NA
AYU32889.1|1008758_1010099_-|integrase	integrase	integrase	S4TSP2	Salmonella_phage	99.8	7.9e-261
AYU32890.1|1010095_1010344_-	excisionase	NA	S4TND0	Salmonella_phage	100.0	4.7e-42
AYU32891.1|1010384_1010630_-	bacteriophage protein	NA	S4TR31	Salmonella_phage	96.2	1.3e-36
AYU32892.1|1010629_1011511_-	DNA methylase	NA	A0A0M4R347	Salmonella_phage	93.0	1.2e-153
AYU32893.1|1011507_1012572_-	bacteriophage protein	NA	T1SBJ4	Salmonella_phage	74.6	6.3e-152
AYU32894.1|1012649_1013330_-	exonuclease	NA	A0A0M3ULE0	Salmonella_phage	98.7	1.9e-130
AYU32895.1|1013326_1014112_-	bacteriophage recombination protein	NA	A0A0M4RD39	Salmonella_phage	99.6	9.7e-150
AYU32896.1|1014117_1014414_-	host-nuclease inhibitor protein	NA	A0A0M5M5Z9	Salmonella_phage	96.9	4.4e-47
AYU32897.1|1014504_1014705_-	prophage Kil protein	NA	G8C7T2	Escherichia_phage	48.4	2.4e-12
AYU32898.1|1014993_1015398_-	DNA-binding protein	NA	H6WRX4	Salmonella_phage	99.3	7.1e-72
AYU32899.1|1015729_1016104_+	DNA-binding protein	NA	S4TTD7	Salmonella_phage	99.2	3.9e-64
AYU32900.1|1016188_1017172_+	bacteriophage protein	NA	H6WRX7	Salmonella_phage	99.7	2.1e-162
AYU32901.1|1017174_1017924_+	DNA replication protein	NA	S4TNF5	Salmonella_phage	99.6	3.6e-138
AYU32902.1|1017934_1018282_+	DNA-binding protein	NA	H6WRX9	Salmonella_phage	90.4	4.8e-53
AYU32903.1|1018278_1018803_+	bacteriophage protein	NA	A0A220NQV2	Salmonella_phage	99.4	1.8e-91
AYU32904.1|1018802_1019276_+	methyltransferase	NA	H9C170	Pectobacterium_phage	80.1	1.6e-67
AYU32905.1|1019279_1019852_+	bacteriophage protein	NA	S4TSR6	Salmonella_phage	68.0	1.3e-66
AYU32906.1|1019945_1020212_+	bacteriophage protein	NA	S4TNF2	Salmonella_phage	100.0	1.5e-46
AYU32907.1|1020293_1020455_+	bacteriophage protein	NA	NA	NA	NA	NA
AYU32908.1|1020887_1021385_+	bacteriophage protein	NA	NA	NA	NA	NA
AYU32909.1|1021569_1021809_+	damage-inducible protein	NA	H6WRY5	Salmonella_phage	100.0	3.9e-38
AYU32910.1|1021798_1022104_+	bacteriophage protein	NA	H6WRY6	Salmonella_phage	100.0	9.8e-42
AYU32911.1|1022143_1022746_+	bacteriophage protein	NA	S4TTI0	Salmonella_phage	99.5	7.5e-110
AYU32912.1|1022954_1023566_+	bacteriophage lambda protein NinG	NA	A0A0M4RU10	Salmonella_phage	99.5	2.5e-92
AYU32913.1|1023698_1024496_+	prophage antitermination protein	NA	A0A0M4S661	Salmonella_phage	99.2	3.4e-150
AYU32914.1|1024894_1025020_+	bacteriophage protein	NA	NA	NA	NA	NA
AYU32915.1|1025155_1025605_-	lipoprotein	NA	NA	NA	NA	NA
AYU32916.1|1025821_1026211_+	prophage membrane protein	NA	K7PHB9	Enterobacterial_phage	70.2	3.1e-40
AYU32917.1|1026197_1026479_+	prophage membrane protein	NA	K7PKN9	Enterobacterial_phage	80.6	2.6e-36
AYU32918.1|1026478_1027093_+	bacteriophage protein	NA	Q8HA86	Salmonella_phage	93.1	3.2e-108
AYU32919.1|1027311_1027566_+	hypothetical protein	NA	NA	NA	NA	NA
AYU32920.1|1027670_1028048_+	hypothetical protein	NA	Q6UAR9	Klebsiella_phage	68.5	4.9e-43
AYU32921.1|1028111_1028372_+	hypothetical protein	NA	NA	NA	NA	NA
AYU32922.1|1028461_1029214_+|terminase	prophage terminase small subunit	terminase	A0A0M3ULJ9	Salmonella_phage	56.5	3.4e-11
AYU32923.1|1029179_1030583_+	bacteriophage protein	NA	A0A077KAW0	Edwardsiella_phage	70.1	6.5e-189
AYU32924.1|1030582_1032052_+	hypothetical protein	NA	A0A0M4S6U1	Salmonella_phage	99.2	1.7e-280
AYU32925.1|1032143_1032674_+	hypothetical protein	NA	A0A0M4REK0	Salmonella_phage	87.4	8.7e-86
AYU32926.1|1032688_1033921_+	hypothetical protein	NA	A0A0M4R5A6	Salmonella_phage	99.0	1.4e-227
AYU32927.1|1033925_1034423_+	bacteriophage protein	NA	A0A0M4QWZ6	Salmonella_phage	99.4	8.7e-88
AYU32928.1|1034434_1035376_+	bacteriophage protein	NA	A0A0M3ULD3	Salmonella_phage	100.0	3.1e-179
AYU32929.1|1035417_1035786_+	bacteriophage protein	NA	A0A0M4RTX5	Salmonella_phage	100.0	8.7e-61
AYU32930.1|1035751_1036159_+	bacteriophage protein	NA	A0A0M5M3S2	Salmonella_phage	97.8	7.1e-72
AYU32931.1|1036155_1036710_+	bacteriophage protein	NA	A0A0M4S631	Salmonella_phage	100.0	4.8e-95
AYU32932.1|1036696_1037086_+	bacteriophage protein	NA	A0A0M3ULK0	Salmonella_phage	98.4	6.0e-68
AYU32933.1|1037060_1037624_+	bacteriophage protein	NA	A0A0M4R331	Salmonella_phage	75.3	8.9e-81
AYU32934.1|1037627_1038773_+	bacteriophage protein	NA	A0A2H4J8G4	uncultured_Caudovirales_phage	74.5	2.2e-163
AYU32935.1|1038784_1039225_+	bacteriophage protein	NA	A0A2H4J619	uncultured_Caudovirales_phage	74.7	3.5e-56
AYU32936.1|1039228_1039681_+	bacteriophage protein	NA	A0A0M4S6U8	Salmonella_phage	76.6	1.9e-57
AYU32937.1|1039858_1041811_+	bacteriophage protein	NA	A0A0M4REK7	Salmonella_phage	56.0	1.8e-181
AYU32938.1|1041810_1042461_+	bacteriophage protein	NA	A0A0M3ULD5	Salmonella_phage	60.6	3.0e-56
AYU32939.1|1042464_1042767_+	bacteriophage protein	NA	A0A2H4J495	uncultured_Caudovirales_phage	57.0	2.0e-26
AYU32940.1|1042769_1043801_+	bacteriophage protein	NA	A0A2H4J1B2	uncultured_Caudovirales_phage	51.4	1.2e-96
AYU32941.1|1043797_1044133_+	hypothetical protein	NA	A0A2H4J1A5	uncultured_Caudovirales_phage	52.2	1.1e-20
AYU32942.1|1044327_1045059_+	bacteriophage protein	NA	NA	NA	NA	NA
AYU32943.1|1045058_1045487_+	bacteriophage protein	NA	NA	NA	NA	NA
AYU32944.1|1045545_1046301_+	bacteriophage protein	NA	A0A0M5M1K7	Salmonella_phage	85.3	4.1e-105
AYU32945.1|1046388_1046526_+	bacteriophage protein	NA	A0A0M4S639	Salmonella_phage	100.0	2.0e-18
AYU32946.1|1046541_1046895_+	bacteriophage protein	NA	A0A0M4R339	Salmonella_phage	98.3	3.2e-60
AYU32947.1|1046895_1048095_+	bacteriophage protein	NA	A0A0M4RD32	Salmonella_phage	97.5	8.5e-214
AYU32948.1|1048091_1048772_+	bacteriophage protein	NA	A0A0M5M1K4	Salmonella_phage	98.7	6.9e-128
AYU32949.1|1048771_1050283_+|tail	bacteriophage tail protein	tail	S4TP62	Salmonella_phage	59.4	1.5e-111
AYU32950.1|1050297_1050816_+|tail	tail fiber protein	tail	A0A1B0VCD0	Salmonella_phage	62.8	1.7e-46
AYU32951.1|1051737_1052439_-	hypothetical protein	NA	NA	NA	NA	NA
AYU32952.1|1052751_1053030_-	hypothetical protein	NA	S4TNM0	Salmonella_phage	92.3	2.4e-26
AYU32953.1|1053455_1056068_+	aminopeptidase N	NA	A0A0P0IY26	Acinetobacter_phage	22.6	1.1e-19
AYU32954.1|1056275_1057286_+	dihydroorotate dehydrogenase	NA	NA	NA	NA	NA
AYU32955.1|1057448_1057994_+	hypothetical protein	NA	NA	NA	NA	NA
AYU32956.1|1057990_1059100_-	MOSC domain-containing protein	NA	NA	NA	NA	NA
AYU32957.1|1059198_1061307_+	23S rRNA m(2)G2445 methyltransferase	NA	W6LLI2	Streptococcus_phage	29.6	5.1e-20
AYU32958.1|1061319_1063227_+	ABC transporter ATP-binding protein	NA	A0A2K9L3Z8	Tupanvirus	29.8	2.4e-53
1061431:1061450	attR	AACGGCGCCGGGAAATCCAC	NA	NA	NA	NA
AYU32959.1|1063241_1064495_+	inner membrane protein	NA	NA	NA	NA	NA
AYU32960.1|1064499_1066140_+	paraquat-inducible protein B	NA	NA	NA	NA	NA
AYU32961.1|1066136_1066700_+	lipoprotein	NA	NA	NA	NA	NA
AYU32962.1|1066953_1067121_+	ribosome modulation factor	NA	NA	NA	NA	NA
AYU32963.1|1067220_1067739_-	D-3-hydroxydecanoyl-(acyl carrier-protein) dehydratase	NA	NA	NA	NA	NA
AYU32964.1|1067807_1069568_-|protease	ATP-dependent protease	protease	NA	NA	NA	NA
AYU32965.1|1069753_1070206_+	Ter macrodomain organizer matS-binding protein	NA	NA	NA	NA	NA
AYU32966.1|1070277_1071330_-	outer membrane protein A	NA	NA	NA	NA	NA
AYU32967.1|1071684_1072194_-	cell division inhibitor	NA	NA	NA	NA	NA
AYU32968.1|1072410_1073016_+	competence-specific transcriptional regulator TfoX	NA	NA	NA	NA	NA
AYU32969.1|1073002_1075156_-	inner membrane protein	NA	NA	NA	NA	NA
AYU32970.1|1075174_1075621_-	hypothetical protein	NA	NA	NA	NA	NA
AYU32971.1|1075744_1077799_+	helicase IV	NA	A7KV33	Bacillus_phage	27.6	6.5e-20
AYU32972.1|1077834_1078293_-	methylglyoxal synthase	NA	NA	NA	NA	NA
AYU32973.1|1078387_1079050_-	hypothetical protein	NA	NA	NA	NA	NA
AYU32974.1|1079220_1079637_+	hypothetical protein	NA	NA	NA	NA	NA
AYU32975.1|1079681_1079999_-	heat shock protein HspQ	NA	NA	NA	NA	NA
AYU32976.1|1080056_1081268_-	23S rRNA m(5)C1962 methyltransferase	NA	NA	NA	NA	NA
AYU32977.1|1082399_1082858_+|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
AYU32978.1|1083594_1083876_+	acylphosphatase	NA	NA	NA	NA	NA
AYU32979.1|1083872_1084202_-	sulfite reductase	NA	NA	NA	NA	NA
AYU32980.1|1084288_1084948_-	hypothetical protein	NA	A0A2H4JFM9	uncultured_Caudovirales_phage	52.4	2.7e-44
AYU32981.1|1085611_1086070_+|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
>prophage 3
CP029964	Salmonella enterica subsp. enterica serovar Typhi strain 343078_223175 chromosome, complete genome	4782707	1528888	1602458	4782707	transposase,head,protease,plate,tail,tRNA	Burkholderia_virus(42.11%)	81	NA	NA
AYU33381.1|1528888_1529347_-|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
AYU33382.1|1529849_1530131_+	stress response protein	NA	NA	NA	NA	NA
AYU33383.1|1530399_1531221_+|protease	serine protease	protease	NA	NA	NA	NA
AYU33384.1|1531255_1531585_-	multidrug efflux system protein MdtI	NA	NA	NA	NA	NA
AYU33385.1|1531571_1531934_-	multidrug efflux system protein MdtJ	NA	NA	NA	NA	NA
AYU33386.1|1532045_1532216_-	hypothetical protein	NA	NA	NA	NA	NA
AYU33387.1|1532350_1533385_+	hypothetical protein	NA	NA	NA	NA	NA
AYU33388.1|1533559_1534948_-	pyridine nucleotide transhydrogenase subunit beta	NA	NA	NA	NA	NA
AYU33389.1|1534958_1536488_-	pyridine nucleotide transhydrogenase subunit alpha	NA	NA	NA	NA	NA
AYU33390.1|1537014_1537959_+	hypothetical protein	NA	NA	NA	NA	NA
AYU33391.1|1538140_1538530_-	bacteriophage transcriptional regulator	NA	Q6QIE8	Burkholderia_phage	54.2	4.5e-31
AYU33392.1|1538501_1538954_-	hypothetical protein	NA	A4JWM5	Burkholderia_virus	46.6	1.2e-24
AYU33393.1|1539148_1539379_-	hypothetical protein	NA	NA	NA	NA	NA
AYU33394.1|1539375_1540059_-	hypothetical protein	NA	A0A2P9JZH4	Alteromonadaceae_phage	37.3	2.6e-34
AYU33395.1|1540055_1540271_-	hypothetical protein	NA	NA	NA	NA	NA
AYU33396.1|1540263_1540647_-	hypothetical protein	NA	K7PJQ4	Enterobacteria_phage	58.9	2.3e-27
AYU33397.1|1540643_1540946_-	hypothetical protein	NA	NA	NA	NA	NA
AYU33398.1|1540955_1541228_-	hypothetical protein	NA	NA	NA	NA	NA
AYU33399.1|1541516_1542047_-	bacteriophage host-nuclease inhibitor protein	NA	L7P7T1	Pseudomonas_phage	66.1	3.4e-58
AYU33400.1|1542074_1542344_-	hypothetical protein	NA	NA	NA	NA	NA
AYU33401.1|1542346_1543513_-	ExeA protein	NA	A4JWN1	Burkholderia_virus	59.7	3.3e-122
AYU33402.1|1543523_1545293_-	hypothetical protein	NA	Q6QIE0	Burkholderia_phage	68.5	2.8e-229
AYU33403.1|1545470_1545902_-	hypothetical protein	NA	A4JWN3	Burkholderia_virus	57.3	4.5e-32
AYU33404.1|1545897_1546494_+	hypothetical protein	NA	NA	NA	NA	NA
AYU33405.1|1546737_1547088_+	hypothetical protein	NA	A4JWP3	Burkholderia_virus	53.0	4.5e-22
AYU33406.1|1547802_1548453_+	lipoprotein	NA	Q5ZQY9	Pseudomonas_phage	32.9	8.1e-09
AYU33407.1|1548449_1548776_+	hypothetical protein	NA	Q6QIC4	Burkholderia_phage	49.5	9.6e-19
AYU33408.1|1548775_1549087_+	hypothetical protein	NA	A0A0S4L0A3	Pseudomonas_phage	62.6	9.4e-32
AYU33409.1|1549086_1549632_+	hypothetical protein	NA	A4JWJ3	Burkholderia_virus	67.6	9.3e-59
AYU33410.1|1549628_1551224_+	hypothetical protein	NA	A4JWJ4	Burkholderia_virus	62.6	9.3e-184
AYU33411.1|1551223_1552720_+	hypothetical protein	NA	A4JWJ5	Burkholderia_virus	59.6	8.0e-169
AYU33412.1|1552700_1553522_+|head	phage head morphogenesis protein	head	A4JWJ6	Burkholderia_virus	61.2	5.3e-98
AYU33413.1|1553524_1553983_+	bacteriophage protein	NA	Q6QIB8	Burkholderia_phage	44.8	1.5e-30
AYU33414.1|1554197_1555313_+	hypothetical protein	NA	A4JWJ9	Burkholderia_virus	51.1	7.9e-97
AYU33415.1|1555327_1556281_+	hypothetical protein	NA	A4JWK0	Burkholderia_virus	44.5	5.2e-65
AYU33416.1|1556290_1556629_+	hypothetical protein	NA	NA	NA	NA	NA
AYU33417.1|1556630_1557077_+	hypothetical protein	NA	A4JWK2	Burkholderia_virus	52.3	2.2e-34
AYU33418.1|1557076_1557541_+	hypothetical protein	NA	Q6QIB2	Burkholderia_phage	51.7	9.1e-39
AYU33419.1|1557537_1557792_+	hypothetical protein	NA	NA	NA	NA	NA
AYU33420.1|1557781_1559209_+|tail	bacteriophage tail sheath protein	tail	A4JWK5	Burkholderia_virus	77.4	3.7e-216
AYU33421.1|1559208_1559730_+|tail	tail core protein	tail	A4JWK6	Burkholderia_virus	68.2	8.0e-68
AYU33422.1|1559732_1560014_+	hypothetical protein	NA	NA	NA	NA	NA
AYU33423.1|1560111_1560447_+	hypothetical protein	NA	NA	NA	NA	NA
AYU33424.1|1560622_1563088_+	bacteriophage protein	NA	A4JWL0	Burkholderia_virus	42.6	2.2e-168
AYU33425.1|1563087_1563972_+	hypothetical protein	NA	A4JWL1	Burkholderia_virus	47.0	7.5e-50
AYU33426.1|1563968_1564184_+|tail	bacteriophage tail fiber protein	tail	Q6QIA3	Burkholderia_phage	60.0	2.4e-18
AYU33427.1|1564171_1565326_+	bacteriophage regulatory protein	NA	Q6QIA2	Burkholderia_phage	47.1	4.7e-84
AYU33428.1|1565322_1565850_+|plate	bacteriophage baseplate protein	plate	Q6QIA1	Burkholderia_phage	46.5	1.5e-21
AYU33429.1|1565906_1566254_+|plate	bacteriophage baseplate protein	plate	Q6QIA0	Burkholderia_phage	60.6	8.6e-34
AYU33430.1|1566244_1567348_+|plate	bacteriophage baseplate assembly protein	plate	Q6QI99	Burkholderia_phage	54.3	5.4e-106
AYU33431.1|1567340_1567919_+|tail	bacteriophage tail fiber protein	tail	A4JWL7	Burkholderia_virus	65.8	6.4e-66
AYU33432.1|1567921_1568947_+|tail	bacteriophage tail fiber protein	tail	M1TAS6	Escherichia_phage	53.3	1.6e-64
AYU33433.1|1569460_1570078_+|tail	bacteriophage tail fiber assembly protein	tail	Q9MCR5	Enterobacteria_phage	59.9	5.8e-65
AYU33434.1|1570571_1570964_-	hypothetical protein	NA	Q9MCR6	Enterobacteria_phage	51.1	6.8e-19
AYU33435.1|1571560_1572133_+	DNA-invertase	NA	A0A0A7NPV4	Enterobacteria_phage	84.7	8.8e-84
AYU33436.1|1572413_1573796_+	amino acid permease	NA	NA	NA	NA	NA
AYU33437.1|1573857_1574193_-	hypothetical protein	NA	NA	NA	NA	NA
AYU33438.1|1574319_1575051_+	two-component response regulator	NA	NA	NA	NA	NA
AYU33439.1|1575531_1576683_+	outer membrane protein	NA	Q1MVN1	Enterobacteria_phage	59.1	3.2e-117
AYU33440.1|1576835_1578542_+	metal-dependent hydrolase	NA	NA	NA	NA	NA
AYU33441.1|1578649_1579954_+	two component sensor kinase	NA	W8CYF6	Bacillus_phage	22.7	5.7e-14
AYU33442.1|1580029_1580959_+	DNA sequence-specific contrahelicase	NA	NA	NA	NA	NA
AYU33443.1|1580955_1582359_-	fumarate hydratase class II	NA	NA	NA	NA	NA
AYU33444.1|1582526_1584173_-	Fumarate hydratase class I	NA	NA	NA	NA	NA
AYU33445.1|1584372_1585548_+	mannose-6-phosphate isomerase	NA	NA	NA	NA	NA
AYU33446.1|1585650_1587159_+	hypothetical protein	NA	NA	NA	NA	NA
AYU33447.1|1587864_1588866_+	adenosine deaminase	NA	NA	NA	NA	NA
AYU33448.1|1588939_1590055_-	oxidoreductase	NA	NA	NA	NA	NA
AYU33449.1|1590157_1590313_+	hypothetical protein	NA	NA	NA	NA	NA
AYU33450.1|1590611_1590827_+	oriC-binding nucleoid-associated protein	NA	NA	NA	NA	NA
AYU33451.1|1590915_1591356_+	hypothetical protein	NA	NA	NA	NA	NA
AYU33452.1|1591432_1592014_+	Na(+)-translocating NADH-quinone reductase subunit E	NA	NA	NA	NA	NA
AYU33453.1|1592013_1592592_+	ferredoxin-like protein	NA	NA	NA	NA	NA
AYU33454.1|1592584_1594606_+	NADH reducing dehydrogenase	NA	NA	NA	NA	NA
AYU33455.1|1594606_1595665_+	electron transport complex protein RnfD	NA	NA	NA	NA	NA
AYU33456.1|1595668_1596289_+	electron transport complex protein RnfG	NA	NA	NA	NA	NA
AYU33457.1|1596291_1596984_+	electron transport complex protein RsxE	NA	NA	NA	NA	NA
AYU33458.1|1596983_1597619_+	endonuclease III	NA	NA	NA	NA	NA
AYU33459.1|1598219_1599725_+	proton/oligopeptide symporter	NA	NA	NA	NA	NA
AYU33460.1|1599829_1600435_+	glutathione S-transferase	NA	NA	NA	NA	NA
AYU33461.1|1601183_1602458_-|tRNA	tyrosyl-tRNA synthetase	tRNA	K4F5T3	Cronobacter_phage	42.1	1.6e-85
>prophage 4
CP029964	Salmonella enterica subsp. enterica serovar Typhi strain 343078_223175 chromosome, complete genome	4782707	1783495	1787907	4782707		Escherichia_phage(50.0%)	6	NA	NA
AYU33645.1|1783495_1783735_+	virulence protein	NA	K7P6H1	Enterobacteria_phage	87.3	5.5e-32
AYU33646.1|1784607_1785417_+	toxin-like protein	NA	A5LH53	Enterobacteria_phage	50.0	2.1e-62
AYU33647.1|1785489_1785867_+	hypothetical protein	NA	I1TQ41	Pseudomonas_phage	38.4	2.2e-14
AYU33648.1|1786014_1786557_-	hypothetical protein	NA	A0A0U2S643	Escherichia_phage	67.0	6.2e-71
AYU33649.1|1786748_1787477_-	pertussis toxin subunit ArtA	NA	A0A0U2KD26	Escherichia_phage	53.3	4.9e-63
AYU33650.1|1787493_1787907_-	pertussis-like toxin subunit	NA	A0A0U2KD34	Escherichia_phage	38.6	1.4e-19
>prophage 5
CP029964	Salmonella enterica subsp. enterica serovar Typhi strain 343078_223175 chromosome, complete genome	4782707	1991760	1998994	4782707		Morganella_phage(33.33%)	7	NA	NA
AYU33840.1|1991760_1993191_-	DNA-cytosine methyltransferase	NA	E5E3X6	Burkholderia_phage	57.4	1.0e-104
AYU33841.1|1993264_1993960_-	hypothetical protein	NA	S4W232	Pandoravirus	27.5	2.1e-07
AYU33842.1|1994039_1994351_-	hypothetical protein	NA	NA	NA	NA	NA
AYU33843.1|1995001_1996186_+	outer membrane protein S1	NA	Q1MVN1	Enterobacteria_phage	56.4	1.4e-107
AYU33844.1|1996645_1996858_-	cold shock protein	NA	A0A1W6JNX5	Morganella_phage	70.0	1.5e-20
AYU33845.1|1997303_1998572_-	DNA polymerase V subunit UmuC	NA	I6RSM4	Salmonella_phage	91.2	3.3e-224
AYU33846.1|1998574_1998994_-	DNA polymerase V subunit UmuD	NA	A0A1W6JNS2	Morganella_phage	60.5	8.5e-36
>prophage 6
CP029964	Salmonella enterica subsp. enterica serovar Typhi strain 343078_223175 chromosome, complete genome	4782707	2105295	2115802	4782707		Enterobacteria_phage(37.5%)	10	NA	NA
AYU33943.1|2105295_2106609_-	dehydratase RfbH	NA	H8ZJ36	Ostreococcus_tauri_virus	35.1	7.0e-52
AYU33944.1|2106635_2107715_-	CDP-glucose 4,6-dehydratase	NA	A0A222YY99	Synechococcus_phage	24.1	1.3e-16
AYU33945.1|2107719_2108493_-	glucose-1-phosphate cytidylyltransferase	NA	NA	NA	NA	NA
AYU33946.1|2108508_2109483_-	reductase RfbI	NA	NA	NA	NA	NA
AYU33947.1|2109488_2110040_-	dTDP-4-dehydrorhamnose 3,5-epimerase	NA	I7HJC4	Enterobacteria_phage	58.6	7.7e-53
AYU33948.1|2110040_2110919_-	TDP-glucose pyrophosphorylase	NA	I7I009	Enterobacteria_phage	64.8	2.3e-107
AYU33949.1|2110966_2111866_-	dTDP-4-dehydrorhamnose reductase	NA	A0A291LA50	Escherichia_phage	36.3	7.9e-31
AYU33950.1|2111865_2112951_-	dTDP-glucose 4,6-dehydratase	NA	I7HTA3	Enterobacteria_phage	53.9	1.6e-102
AYU33951.1|2113327_2114221_-	UTP-glucose-1-phosphate uridylyltransferase	NA	A0A127AW70	Bacillus_phage	42.2	4.8e-44
AYU33952.1|2114398_2115802_-	colanic acid biosynthesis protein WcaM	NA	A0A291LBB9	Klebsiella_phage	26.5	1.1e-21
>prophage 7
CP029964	Salmonella enterica subsp. enterica serovar Typhi strain 343078_223175 chromosome, complete genome	4782707	2193031	2202202	4782707	tRNA	Enterobacteria_phage(66.67%)	10	NA	NA
AYU34012.1|2193031_2195065_+|tRNA	methionyl-tRNA synthetase	tRNA	A0A1V0SDF2	Indivirus	26.9	6.1e-55
AYU34013.1|2195305_2195764_+	lipoprotein	NA	Q9EYF5	Enterobacteria_phage	72.5	8.4e-53
AYU34014.1|2195935_2196466_+	lipoprotein	NA	NA	NA	NA	NA
AYU34015.1|2196522_2196990_-	hypothetical protein	NA	Q9EYF4	Enterobacteria_phage	90.3	3.9e-74
AYU34016.1|2197036_2197756_-	two-component system response regulator	NA	NA	NA	NA	NA
AYU34017.1|2197752_2199438_-	two-component system sensor kinase	NA	Q9EYF3	Enterobacteria_phage	91.1	1.1e-278
AYU34018.1|2199660_2200392_+	transcriptional regulator	NA	Q9EYF2	Enterobacteria_phage	87.9	4.5e-101
AYU34019.1|2200451_2200559_+	hypothetical protein	NA	NA	NA	NA	NA
AYU34020.1|2200539_2201271_-	ABC transporter permease	NA	NA	NA	NA	NA
AYU34021.1|2201254_2202202_-	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	31.2	1.7e-23
>prophage 8
CP029964	Salmonella enterica subsp. enterica serovar Typhi strain 343078_223175 chromosome, complete genome	4782707	2737522	2750914	4782707	tail	Salmonella_phage(70.0%)	11	NA	NA
AYU34451.1|2737522_2737741_-	hypothetical protein	NA	Q53ZE7	Salmonella_virus	71.9	1.9e-18
AYU34452.1|2737831_2738932_-	hypothetical protein	NA	A0A1S6KZZ5	Salmonella_phage	88.3	1.0e-176
AYU34453.1|2738928_2739414_-|tail	bacteriophage tail protein	tail	E5G6Q2	Salmonella_phage	80.0	2.4e-66
AYU34454.1|2739410_2742488_-|tail	bacteriophage tail protein	tail	E5G6Q1	Salmonella_phage	63.0	0.0e+00
AYU34455.1|2742480_2742600_-	bacteriophage protein	NA	E5G6Q0	Salmonella_phage	87.2	2.8e-13
AYU34456.1|2742614_2742917_-|tail	phage tail protein	tail	A0A1S6KZZ9	Salmonella_phage	89.0	7.0e-40
AYU34457.1|2742971_2743487_-|tail	major tail tube protein	tail	A0A1S6L002	Salmonella_phage	95.9	5.6e-90
AYU34458.1|2743496_2744669_-|tail	major tail sheath protein	tail	A0A1S6KZY7	Salmonella_phage	90.3	3.5e-204
AYU34459.1|2744811_2745384_-	DNA-invertase	NA	A0A0F7LA37	Escherichia_phage	86.3	1.4e-86
AYU34460.1|2746061_2747177_+	glycosyltransferase	NA	NA	NA	NA	NA
AYU34461.1|2747257_2750914_+	ABC transporter ATP-binding protein/permease	NA	W8CYL7	Bacillus_phage	28.6	1.0e-44
>prophage 9
CP029964	Salmonella enterica subsp. enterica serovar Typhi strain 343078_223175 chromosome, complete genome	4782707	3067675	3111378	4782707	transposase,protease,bacteriocin,tRNA	Bacillus_virus(33.33%)	44	NA	NA
AYU34749.1|3067675_3068134_-|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
AYU34750.1|3068323_3069403_-	fructose 1,6-bisphosphate aldolase	NA	NA	NA	NA	NA
AYU34751.1|3069504_3070668_-	phosphoglycerate kinase	NA	NA	NA	NA	NA
AYU34752.1|3070689_3071736_-	D-erythrose 4-phosphate dehydrogenase	NA	NA	NA	NA	NA
AYU34753.1|3072109_3072535_+	hypothetical protein	NA	NA	NA	NA	NA
AYU34754.1|3072560_3073139_+	hypothetical protein	NA	NA	NA	NA	NA
AYU34755.1|3073172_3073847_+	hypothetical protein	NA	NA	NA	NA	NA
AYU34756.1|3073828_3074512_+	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
AYU34757.1|3074505_3075162_+	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	28.6	1.6e-09
AYU34758.1|3075266_3075725_-|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
AYU34759.1|3075913_3077905_-	transketolase	NA	NA	NA	NA	NA
AYU34760.1|3078180_3078939_+|protease	metalloprotease	protease	NA	NA	NA	NA
AYU34761.1|3079039_3079960_-	agmatine ureohydrolase	NA	NA	NA	NA	NA
AYU34762.1|3080187_3082164_-	biosynthetic arginine decarboxylase	NA	NA	NA	NA	NA
AYU34763.1|3082172_3082304_-	hypothetical protein	NA	NA	NA	NA	NA
AYU34764.1|3082598_3082898_-	membrane protein	NA	NA	NA	NA	NA
AYU34765.1|3082953_3084108_+	S-adenosylmethionine synthetase	NA	A0A2H4PQS6	Staphylococcus_phage	63.9	1.5e-130
AYU34766.1|3084600_3085995_+	galactose-proton symport	NA	NA	NA	NA	NA
AYU34767.1|3086073_3086571_+	hypothetical protein	NA	NA	NA	NA	NA
AYU34768.1|3086666_3087374_+	endonuclease I	NA	NA	NA	NA	NA
AYU34769.1|3087450_3088182_+	16S rRNA (uracil(1498)-N(3))-methyltransferase	NA	NA	NA	NA	NA
AYU34770.1|3088201_3089149_+	glutathione synthetase	NA	NA	NA	NA	NA
AYU34771.1|3089364_3089928_+	hypothetical protein	NA	NA	NA	NA	NA
AYU34772.1|3089927_3090344_+	Holliday junction resolvase	NA	NA	NA	NA	NA
AYU34773.1|3090390_3091077_-	global regulatory protein	NA	NA	NA	NA	NA
AYU34774.1|3091206_3092187_-	type II secretion system ATP-binding protein	NA	NA	NA	NA	NA
AYU34775.1|3092204_3092909_+	hypothetical protein	NA	NA	NA	NA	NA
AYU34776.1|3092927_3093494_+	hypothetical protein	NA	NA	NA	NA	NA
AYU34777.1|3093490_3093781_+	hypothetical protein	NA	NA	NA	NA	NA
AYU34778.1|3093788_3094382_+	dITP/XTP pyrophosphatase	NA	NA	NA	NA	NA
AYU34779.1|3094374_3095511_+	oxygen-independent coproporphyrinogen III oxidase	NA	NA	NA	NA	NA
AYU34780.1|3095601_3096609_-	hypothetical protein	NA	NA	NA	NA	NA
AYU34781.1|3096741_3097788_-	L-asparaginase	NA	NA	NA	NA	NA
AYU34782.1|3098106_3098565_+|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
AYU34783.1|3098687_3099407_-	hypothetical protein	NA	NA	NA	NA	NA
AYU34784.1|3099456_3099783_-	hypothetical protein	NA	NA	NA	NA	NA
AYU34785.1|3099782_3100502_-|tRNA	tRNA m(7)G46 methyltransferase	tRNA	NA	NA	NA	NA
AYU34786.1|3100656_3101709_+	A/G-specific adenine glycosylase	NA	NA	NA	NA	NA
AYU34787.1|3101736_3102012_+	oxidative damage protection protein	NA	NA	NA	NA	NA
AYU34788.1|3102124_3103210_+	membrane-bound lytic murein transglycosylase C	NA	A0A0H3V0Q1	Geobacillus_virus	39.0	5.8e-12
AYU34789.1|3103426_3104683_+	nucleoside permease	NA	NA	NA	NA	NA
AYU34790.1|3107293_3108001_+	hypothetical protein	NA	NA	NA	NA	NA
AYU34791.1|3110590_3110857_+|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
AYU34792.1|3111099_3111378_+|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
>prophage 10
CP029964	Salmonella enterica subsp. enterica serovar Typhi strain 343078_223175 chromosome, complete genome	4782707	3488697	3526755	4782707	transposase,portal,integrase,plate,tail,capsid,terminase	Salmonella_phage(82.05%)	46	3483661:3483675	3495827:3495841
3483661:3483675	attL	CGAATTTCTTTTTCA	NA	NA	NA	NA
AYU35120.1|3488697_3490344_-	acetolactate synthase large subunit	NA	A0A0P0CDR3	Ostreococcus_lucimarinus_virus	31.5	9.0e-65
AYU35121.1|3490483_3490582_-	ilvGMEDA operon attenuator peptide	NA	NA	NA	NA	NA
AYU35122.1|3490837_3491167_+	hypothetical protein	NA	NA	NA	NA	NA
AYU35123.1|3491207_3492260_-|integrase	bacteriophage integrase	integrase	A0A218M4I3	Erwinia_phage	57.3	3.6e-107
AYU35124.1|3492655_3493225_-	repressor protein	NA	A0A1S6KZZ7	Salmonella_phage	43.4	2.5e-38
AYU35125.1|3493350_3493572_+	hypothetical protein	NA	NA	NA	NA	NA
AYU35126.1|3493604_3494114_+	regulatory protein cII	NA	E5G6L3	Salmonella_phage	98.8	5.8e-87
AYU35127.1|3494288_3494513_+	hypothetical protein	NA	NA	NA	NA	NA
AYU35128.1|3494535_3494877_+	hypothetical protein	NA	E5G6L5	Salmonella_phage	98.2	1.7e-55
AYU35129.1|3494944_3495178_+	hypothetical protein	NA	E5G6L6	Salmonella_phage	94.8	2.0e-31
AYU35130.1|3495177_3495405_+	hypothetical protein	NA	E5G6L7	Salmonella_phage	100.0	2.7e-36
AYU35131.1|3495401_3496259_+	DNA adenine methylase	NA	E5G6L8	Salmonella_phage	97.2	3.5e-161
3495827:3495841	attR	TGAAAAAGAAATTCG	NA	NA	NA	NA
AYU35132.1|3496255_3498670_+	endonuclease	NA	E5G6L9	Salmonella_phage	97.5	0.0e+00
AYU35133.1|3498823_3499012_+	hypothetical protein	NA	E5G6M0	Salmonella_phage	95.2	7.9e-26
AYU35134.1|3500979_3501894_+	hypothetical protein	NA	NA	NA	NA	NA
AYU35135.1|3501890_3502631_+	hypothetical protein	NA	NA	NA	NA	NA
AYU35136.1|3502665_3503703_-|capsid,portal	capsid portal protein	capsid,portal	A0A1S6KZW5	Salmonella_phage	89.5	1.3e-173
AYU35137.1|3503702_3505469_-|terminase	terminase subunit	terminase	A0A1S6KZW3	Salmonella_phage	99.5	0.0e+00
AYU35138.1|3505611_3506445_+|capsid	capsid scaffolding protein	capsid	A0A1S6KZW9	Salmonella_phage	90.6	1.5e-121
AYU35139.1|3506461_3507520_+|capsid	major capsid protein	capsid	E5G6M6	Salmonella_phage	93.1	1.4e-180
AYU35140.1|3507523_3508174_+|terminase	terminase endonuclease subunit	terminase	E5G6M7	Salmonella_phage	96.3	8.7e-112
AYU35141.1|3508206_3508734_+|capsid	capsid completion protein	capsid	A0A1S6KZW8	Salmonella_phage	89.0	2.1e-76
AYU35142.1|3508733_3508937_+|tail	phage tail protein	tail	E5G6M9	Salmonella_phage	92.5	1.4e-31
AYU35143.1|3508940_3509156_+	hypothetical protein	NA	E5G6N0	Salmonella_phage	80.3	1.8e-26
AYU35144.1|3509175_3509649_+	lysozyme	NA	E5G6N1	Salmonella_phage	91.0	3.7e-80
AYU35145.1|3509650_3510028_+	hypothetical protein	NA	A0A1S6KZZ2	Salmonella_phage	40.0	2.3e-16
AYU35146.1|3510024_3510453_+	regulatory protein	NA	E5G6N2	Salmonella_phage	77.3	2.2e-47
AYU35147.1|3510548_3510980_+|tail	phage tail protein	tail	E5G6N3	Salmonella_phage	95.1	1.5e-72
AYU35148.1|3510972_3511419_+|tail	phage tail completion protein	tail	A0A1S6L001	Salmonella_phage	85.6	6.6e-63
AYU35149.1|3511487_3512066_+|plate	phage baseplate assembly protein	plate	A0A1S6KZX7	Salmonella_phage	86.5	5.5e-94
AYU35150.1|3512062_3512422_+|plate	phage baseplate assembly protein	plate	A0A1S6KZZ4	Salmonella_phage	84.9	6.1e-51
AYU35151.1|3512408_3513317_+|plate	phage baseplate assembly protein	plate	A0A1S6KZY6	Salmonella_phage	89.7	1.3e-142
AYU35152.1|3513309_3513915_+|tail	phage tail protein	tail	A0A1S6L000	Salmonella_phage	92.0	2.0e-110
AYU35153.1|3513911_3515426_+|tail	variable tail fiber protein	tail	M1TAS6	Escherichia_phage	73.2	6.8e-200
AYU35154.1|3515425_3516019_+|tail	tail fiber assembly protein	tail	M1SV83	Escherichia_phage	64.3	9.2e-60
AYU35155.1|3515990_3516431_-|tail	tail fiber assembly protein	tail	A0A0F7LDZ0	Escherichia_phage	68.0	3.1e-52
AYU35156.1|3516853_3517426_+	DNA-invertase	NA	A0A0F7LA37	Escherichia_phage	86.3	1.4e-86
AYU35157.1|3517568_3518741_+|tail	major tail sheath protein	tail	A0A1S6KZY7	Salmonella_phage	90.3	3.5e-204
AYU35158.1|3518750_3519266_+|tail	major tail tube protein	tail	A0A1S6L002	Salmonella_phage	95.9	5.6e-90
AYU35159.1|3519320_3519623_+|tail	phage tail protein	tail	A0A1S6KZZ9	Salmonella_phage	89.0	7.0e-40
AYU35160.1|3519637_3519757_+	hypothetical protein	NA	E5G6Q0	Salmonella_phage	87.2	2.8e-13
AYU35161.1|3519749_3522827_+|tail	bacteriophage tail protein	tail	E5G6Q1	Salmonella_phage	63.0	0.0e+00
AYU35162.1|3522823_3523309_+|tail	bacteriophage tail protein	tail	E5G6Q2	Salmonella_phage	80.0	2.4e-66
AYU35163.1|3523305_3524406_+	hypothetical protein	NA	A0A1S6KZZ5	Salmonella_phage	88.3	1.0e-176
AYU35164.1|3524496_3524715_+	hypothetical protein	NA	Q53ZE7	Salmonella_virus	69.0	7.5e-20
AYU35165.1|3526296_3526755_+|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
>prophage 11
CP029964	Salmonella enterica subsp. enterica serovar Typhi strain 343078_223175 chromosome, complete genome	4782707	4442459	4516623	4782707	portal,integrase,plate,tail,capsid,terminase	Salmonella_phage(82.98%)	76	4503960:4503976	4516782:4516798
AYU35937.1|4442459_4444409_+	hypothetical protein	NA	A0A2K9V411	Faecalibacterium_phage	38.3	5.9e-31
AYU35938.1|4444480_4445389_+	hypothetical protein	NA	NA	NA	NA	NA
AYU35939.1|4445462_4446362_+	hypothetical protein	NA	NA	NA	NA	NA
AYU35940.1|4446403_4446763_+	hypothetical protein	NA	NA	NA	NA	NA
AYU35941.1|4446862_4447132_-	hypothetical protein	NA	NA	NA	NA	NA
AYU35942.1|4447263_4448538_-	UV protection protein	NA	F1C5A5	Cronobacter_phage	62.0	7.5e-152
AYU35943.1|4448757_4449135_+	hypothetical protein	NA	NA	NA	NA	NA
AYU35944.1|4449221_4449440_-	hypothetical protein	NA	E5G6Q4	Salmonella_phage	75.0	4.9e-27
AYU35945.1|4449507_4450608_-	hypothetical protein	NA	E5G6Q3	Salmonella_phage	92.1	7.9e-190
AYU35946.1|4450604_4451090_-|tail	phage tail protein	tail	E5G6Q2	Salmonella_phage	93.2	9.4e-71
AYU35947.1|4451089_4453870_-	hypothetical protein	NA	A0A2H4JGB2	uncultured_Caudovirales_phage	41.1	3.5e-125
AYU35948.1|4453862_4453982_-	hypothetical protein	NA	E5G6Q0	Salmonella_phage	94.9	1.2e-14
AYU35949.1|4453996_4454299_-|tail	phage tail protein	tail	E5G6P9	Salmonella_phage	93.9	3.3e-42
AYU35950.1|4454353_4454869_-|tail	major tail tube protein	tail	E5G6P8	Salmonella_phage	99.4	2.7e-92
AYU35951.1|4454878_4456051_-|tail	major tail sheath protein	tail	A0A1S6KZY7	Salmonella_phage	99.5	9.8e-223
AYU35952.1|4456585_4457308_+	invasion-associated secreted protein	NA	NA	NA	NA	NA
AYU35953.1|4457505_4457913_-|tail	phage tail fiber protein	tail	A0A1B0V844	Salmonella_phage	84.2	4.1e-59
AYU35954.1|4457919_4459539_-|tail	phage tail fiber protein	tail	E5G6P0	Salmonella_phage	90.9	2.7e-154
AYU35955.1|4459535_4460141_-|tail	phage tail protein	tail	A0A1S6L000	Salmonella_phage	92.0	2.0e-110
AYU35956.1|4460133_4461042_-|plate	phage baseplate assembly protein	plate	E5G6N8	Salmonella_phage	97.0	5.2e-155
AYU35957.1|4461028_4461388_-|plate	phage baseplate assembly protein	plate	A0A1S6KZZ4	Salmonella_phage	96.6	6.8e-58
AYU35958.1|4461384_4461963_-|plate	phage baseplate assembly protein	plate	E5G6N6	Salmonella_phage	99.5	3.9e-108
AYU35959.1|4462031_4462478_-|tail	phage tail completion protein	tail	A0A1S6L001	Salmonella_phage	90.4	2.2e-66
AYU35960.1|4462470_4462902_-|tail	phage tail protein	tail	A0A1S6KZY0	Salmonella_phage	98.6	2.5e-75
AYU35961.1|4462997_4463423_-	regulatory protein	NA	A0A1S6KZX8	Salmonella_phage	97.9	2.5e-67
AYU35962.1|4463422_4463800_-	hypothetical protein	NA	A0A1S6KZZ2	Salmonella_phage	99.2	1.5e-60
AYU35963.1|4463804_4464275_-	lysozyme	NA	A0A1S6KZY9	Salmonella_phage	97.4	1.0e-85
AYU35964.1|4464294_4464510_-	hypothetical protein	NA	E5G6N0	Salmonella_phage	98.6	3.8e-32
AYU35965.1|4464513_4464717_-|tail	phage tail protein	tail	E5G6M9	Salmonella_phage	100.0	3.8e-34
AYU35966.1|4464716_4465181_-|capsid	capsid completion protein	capsid	A0A1S6KZW8	Salmonella_phage	98.1	2.4e-84
AYU35967.1|4465274_4465925_-|terminase	phage terminase	terminase	E5G6M7	Salmonella_phage	99.5	2.4e-114
AYU35968.1|4465928_4466993_-|capsid	major capsid protein	capsid	A0A1S6KZZ3	Salmonella_phage	98.3	1.3e-194
AYU35969.1|4467009_4467843_-|capsid	capsid scaffolding protein	capsid	E5G6M5	Salmonella_phage	87.4	6.1e-126
AYU35970.1|4467985_4469752_+|terminase	terminase subunit	terminase	A0A1S6KZW3	Salmonella_phage	96.4	0.0e+00
AYU35971.1|4469748_4470795_+|capsid,portal	capsid portal protein	capsid,portal	A0A1S6KZW5	Salmonella_phage	86.6	2.1e-176
AYU35972.1|4470843_4471539_-	hypothetical protein	NA	NA	NA	NA	NA
AYU35973.1|4471558_4472623_-	hypothetical protein	NA	NA	NA	NA	NA
AYU35974.1|4472619_4473684_-	hypothetical protein	NA	NA	NA	NA	NA
AYU35975.1|4474608_4474938_-	hypothetical protein	NA	A0A1S6L028	Salmonella_phage	90.8	6.2e-50
AYU35976.1|4474934_4477004_-	bacteriophage replication protein A	NA	A0A1S6L028	Salmonella_phage	95.9	0.0e+00
AYU35977.1|4476994_4477855_-	DNA adenine methylase	NA	E5G6L8	Salmonella_phage	81.8	3.4e-132
AYU35978.1|4477851_4478436_-	exonuclease	NA	A0A1S6L012	Salmonella_phage	73.7	1.1e-76
AYU35979.1|4478432_4478660_-	hypothetical protein	NA	A0A1S6L007	Salmonella_phage	94.7	1.0e-35
AYU35980.1|4478659_4478893_-	hypothetical protein	NA	A0A1S6L021	Salmonella_phage	84.4	9.8e-26
AYU35981.1|4478960_4479302_-	hypothetical protein	NA	A0A1S6L019	Salmonella_phage	99.1	4.6e-56
AYU35982.1|4479265_4479466_-	hypothetical protein	NA	A0A1S6L005	Salmonella_phage	97.0	4.6e-32
AYU35983.1|4479473_4479983_-	phage regulatory protein	NA	A0A1S6L008	Salmonella_phage	94.1	1.3e-83
AYU35984.1|4480015_4480258_-	phage regulatory protein	NA	A0A1S6KZZ6	Salmonella_phage	98.8	2.3e-38
AYU35985.1|4480374_4481007_+	phage repressor protein cI	NA	A0A1S6KZZ7	Salmonella_phage	58.6	1.4e-66
AYU35986.1|4481010_4482036_+|integrase	phage integrase	integrase	A0A1S6L016	Salmonella_phage	98.2	2.7e-200
AYU35987.1|4482142_4482496_-	protein samA'	NA	I6S1S3	Salmonella_phage	59.3	6.7e-10
AYU35988.1|4483112_4483400_+	hypothetical protein	NA	NA	NA	NA	NA
AYU35989.1|4483410_4484301_+	methyltransferase	NA	NA	NA	NA	NA
AYU35990.1|4484300_4485047_+	hypothetical protein	NA	NA	NA	NA	NA
AYU35991.1|4485348_4487319_-	Vi polysaccharide exporter protein	NA	NA	NA	NA	NA
AYU35992.1|4487338_4488643_-	Vi polysaccharide exporter inner-membrane protein	NA	NA	NA	NA	NA
AYU35993.1|4488665_4489361_-	Vi polysaccharide exporter ATP-binding protein	NA	NA	NA	NA	NA
AYU35994.1|4489386_4490181_-	Vi polysaccharide exporter inner-membrane protein	NA	NA	NA	NA	NA
AYU35995.1|4490190_4491258_-	Vi polysaccharide exporter protein	NA	NA	NA	NA	NA
AYU35996.1|4491302_4493039_-	Vi polysaccharide biosynthesis protein TviE	NA	NA	NA	NA	NA
AYU35997.1|4493038_4495534_-	Vi polysaccharide biosynthesis protein	NA	NA	NA	NA	NA
AYU35998.1|4495557_4496604_-	Vi polysaccharide biosynthesis epimerase	NA	A0A2K9L0I7	Tupanvirus	45.0	1.4e-74
AYU35999.1|4496606_4497884_-	Vi polysaccharide biosynthesis UDP-glucose/GDP-mannose dehydrogenase	NA	M1HYW7	Paramecium_bursaria_Chlorella_virus	26.7	1.3e-21
AYU36000.1|4498128_4498668_-	Vi polysaccharide biosynthesis protein	NA	NA	NA	NA	NA
AYU36001.1|4499521_4501033_+	DNA helicase	NA	A0A126DN25	Acinetobacter_phage	29.0	2.0e-42
AYU36002.1|4501016_4502606_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36003.1|4502769_4503783_+|integrase	phage integrase	integrase	NA	NA	NA	NA
4503960:4503976	attL	GTGGTGCCCGGACTCGG	NA	NA	NA	NA
AYU36004.1|4504209_4504503_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36005.1|4504499_4504988_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36006.1|4505167_4505620_-	hypothetical protein	NA	NA	NA	NA	NA
AYU36007.1|4510842_4511304_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36008.1|4511300_4511522_+	transcriptional regulator	NA	A0A2I7S995	Vibrio_phage	58.3	4.6e-17
AYU36009.1|4512378_4513161_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36010.1|4513787_4514012_-	hypothetical protein	NA	NA	NA	NA	NA
AYU36011.1|4514141_4515053_-	SH3 domain-containing protein	NA	NA	NA	NA	NA
AYU36012.1|4515363_4516623_-|integrase	bacteriophage integrase	integrase	B7SYF8	Stenotrophomonas_phage	41.7	3.2e-78
4516782:4516798	attR	GTGGTGCCCGGACTCGG	NA	NA	NA	NA
>prophage 12
CP029964	Salmonella enterica subsp. enterica serovar Typhi strain 343078_223175 chromosome, complete genome	4782707	4658875	4669134	4782707	capsid	Enterobacteria_phage(77.78%)	13	NA	NA
AYU36149.1|4658875_4659952_-	protein kinase	NA	A0A2H4UU60	Bodo_saltans_virus	28.2	7.8e-17
AYU36150.1|4659948_4661022_-	protein kinase	NA	G9BWE0	Planktothrix_phage	44.7	6.5e-56
AYU36151.1|4660996_4662160_-	hypothetical protein	NA	NA	NA	NA	NA
AYU36152.1|4662435_4663002_-	phage polarity suppression protein	NA	Q7M2A1	Enterobacteria_phage	64.9	1.8e-60
AYU36153.1|4663017_4663257_-	hypothetical protein	NA	Q7M294	Enterobacteria_phage	60.5	3.7e-20
AYU36154.1|4663260_4664121_-|capsid	phage capsid protein	capsid	NA	NA	NA	NA
AYU36155.1|4664543_4664867_+	phage DNA binding protein	NA	Q7M299	Enterobacteria_phage	70.0	3.6e-26
AYU36156.1|4664850_4665351_+	hypothetical protein	NA	Q7M2A7	Enterobacteria_phage	70.4	9.8e-31
AYU36157.1|4665347_4665575_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36158.1|4665571_4665892_+	P4 phage protein	NA	NA	NA	NA	NA
AYU36159.1|4665906_4666581_+	bacteriophage P4 DNA primase	NA	Q7M2A8	Enterobacteria_phage	75.1	1.4e-85
AYU36160.1|4666577_4668239_+	hypothetical protein	NA	Q7M2A8	Enterobacteria_phage	90.2	1.9e-296
AYU36161.1|4668975_4669134_+	recombinase	NA	Q7M297	Enterobacteria_phage	57.4	3.9e-10
>prophage 1
CP029965	Salmonella enterica subsp. enterica serovar Typhi strain 343078_223175 plasmid pK91, complete sequence	91848	2968	79021	91848	protease,transposase	Escherichia_phage(28.12%)	76	NA	NA
AYU36253.1|2968_4045_+|transposase	transposase of ISEc21	transposase	NA	NA	NA	NA
AYU36254.1|4447_6538_-|protease	Lon protease	protease	NA	NA	NA	NA
AYU36255.1|6554_9212_-	hypothetical protein	NA	NA	NA	NA	NA
AYU36256.1|9211_12841_-	Type I restriction-modification system methyltransferase subunit	NA	NA	NA	NA	NA
AYU36257.1|12856_14620_-	hypothetical protein	NA	NA	NA	NA	NA
AYU36258.1|14636_18314_-	hypothetical protein	NA	NA	NA	NA	NA
AYU36259.1|18332_18917_-	hypothetical protein	NA	NA	NA	NA	NA
AYU36260.1|18913_19513_-	hypothetical protein	NA	NA	NA	NA	NA
AYU36261.1|19522_20410_-	hypothetical protein	NA	NA	NA	NA	NA
AYU36262.1|20517_20928_-	hypothetical protein	NA	NA	NA	NA	NA
AYU36263.1|21269_21947_-|transposase	transposase	transposase	S5WIU1	Leptospira_phage	43.2	2.2e-41
AYU36264.1|23049_23445_+|transposase	transposase	transposase	Q76S41	Shigella_phage	75.4	1.4e-43
AYU36265.1|23447_24284_+|transposase	transposase InsF for insertion sequence IS3A/B/C/D/E/fA	transposase	Q9ZXG3	Shigella_phage	62.7	4.3e-95
AYU36266.1|24280_24625_-	hypothetical protein	NA	NA	NA	NA	NA
AYU36267.1|25137_26856_-	histidine kinase	NA	A0A1V0SGX0	Hokovirus	27.8	2.1e-27
AYU36268.1|26852_27341_-	hypothetical protein	NA	NA	NA	NA	NA
AYU36269.1|27333_28317_-	hypothetical protein	NA	NA	NA	NA	NA
AYU36270.1|28320_29235_-	response regulator receiver protein	NA	NA	NA	NA	NA
AYU36271.1|29548_29857_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36272.1|29849_30065_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36273.1|30067_30730_+	type IV secretory pathway VirB1 component	NA	NA	NA	NA	NA
AYU36274.1|30740_31040_+	conjugal transfer protein TrbC	NA	NA	NA	NA	NA
AYU36275.1|31049_33800_+	ATPase	NA	NA	NA	NA	NA
AYU36276.1|33818_34535_+	TriD protein	NA	NA	NA	NA	NA
AYU36277.1|34546_34831_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36278.1|34848_35856_+	TriE protein	NA	NA	NA	NA	NA
AYU36279.1|36065_36752_+	TriG protein	NA	NA	NA	NA	NA
AYU36280.1|36744_37638_+	P-type conjugative transfer protein VirB9	NA	NA	NA	NA	NA
AYU36281.1|37634_38831_+	TriI protein	NA	NA	NA	NA	NA
AYU36282.1|38834_39884_+	P-type DNA transfer ATPase VirB11	NA	NA	NA	NA	NA
AYU36283.1|39870_40272_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36284.1|40362_40680_+	killer protein	NA	NA	NA	NA	NA
AYU36285.1|40706_41042_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36286.1|41017_41326_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36287.1|41322_43524_+	DNA topoisomerase III	NA	NA	NA	NA	NA
AYU36288.1|43520_43913_+	DNA binding protein	NA	NA	NA	NA	NA
AYU36289.1|44621_46529_+	type IV conjugative transfer system protein TraD	NA	NA	NA	NA	NA
AYU36290.1|46543_47290_+	mobilization protein	NA	NA	NA	NA	NA
AYU36291.1|47282_47810_+	Endonuclease	NA	A0A1B2LRT6	Wolbachia_phage	39.5	2.8e-20
AYU36292.1|47841_48273_-	hypothetical protein	NA	NA	NA	NA	NA
AYU36293.1|48752_49718_-	DNA primase TraC	NA	A0A1V0EEV1	Caulobacter_phage	42.7	1.3e-58
AYU36294.1|50169_50595_+	Error-prone repair protein UmuD	NA	A0A1W6JNS2	Morganella_phage	50.4	2.9e-31
AYU36295.1|50594_51866_+	protein UmuC	NA	F1C5A5	Cronobacter_phage	63.7	5.6e-155
AYU36296.1|51926_52196_+	Orf44	NA	NA	NA	NA	NA
AYU36297.1|52249_52555_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36298.1|53201_54176_-	plasmid partitioning protein	NA	I3WF22	Macacine_betaherpesvirus	89.7	1.7e-156
AYU36299.1|54172_55348_-	plasmid partition protein SopA	NA	A0A2I6B2X3	Macacine_betaherpesvirus	97.4	2.8e-225
AYU36300.1|56067_57090_+	hypothetical protein	NA	J9Q7H0	Salmonella_phage	53.9	6.8e-87
AYU36301.1|57255_57717_-	hypothetical protein	NA	A0A1B0V7H9	Salmonella_phage	57.1	5.9e-38
AYU36302.1|57847_59047_-|transposase	IS1294 transposase	transposase	NA	NA	NA	NA
AYU36303.1|59259_59973_-|transposase	transposase	transposase	Q1MVF0	Enterobacteria_phage	86.5	2.6e-109
AYU36304.1|60170_60461_+	hypothetical protein	NA	A0A077SK55	Escherichia_phage	87.3	1.8e-32
AYU36305.1|60530_60797_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36306.1|60799_61048_+	DNA polymerase III subunit theta	NA	Q71T70	Escherichia_phage	85.4	2.8e-31
AYU36307.1|61156_61552_+	DNA polymerase V subunit	NA	Q1MVE7	Enterobacteria_phage	76.2	2.1e-52
AYU36308.1|61624_61846_+	antitoxin of P1 addiction system	NA	A0A222YXU1	Escherichia_phage	100.0	6.7e-32
AYU36309.1|61845_62226_+	death on curing protein	NA	Q71T66	Escherichia_phage	90.3	1.8e-56
AYU36310.1|62309_63110_-	hypothetical protein	NA	A0A222YXM9	Escherichia_phage	71.1	9.4e-92
AYU36311.1|63123_63618_-	deoxyuridine 5'-triphosphate nucleotidohydrolase	NA	A0A222YYP1	Escherichia_phage	88.4	1.5e-79
AYU36312.1|63610_64102_-	hypothetical protein	NA	NA	NA	NA	NA
AYU36313.1|64098_64353_-	hypothetical protein	NA	Q5QBE7	Escherichia_phage	75.0	2.1e-29
AYU36314.1|64515_65544_-	site-specific tyrosine recombinase XerC	NA	Q5XLQ5	Enterobacteria_phage	42.1	1.1e-60
AYU36315.1|65941_66979_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36316.1|67006_67834_-	replication initiator protein	NA	Q71T61	Escherichia_phage	50.4	8.0e-62
AYU36317.1|67806_68529_+|transposase	IS6 family transposase	transposase	A0A077SL39	Escherichia_phage	100.0	3.2e-139
AYU36318.1|68635_69226_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36319.1|69362_69935_+	resolvase-like protein	NA	M9Q1K0	Clostridium_phage	39.4	3.4e-19
AYU36320.1|69968_71363_+	hypothetical protein	NA	NA	NA	NA	NA
AYU36321.1|71386_71824_+	resolvase protein	NA	A0A219YB42	Aeromonas_phage	43.8	5.2e-20
AYU36322.1|72142_72799_-	quinolone resistance protein	NA	NA	NA	NA	NA
AYU36323.1|73166_73358_+|transposase	IS2 transposase	transposase	Q76S41	Shigella_phage	72.2	3.2e-14
AYU36324.1|73367_73562_+|transposase	transposase	transposase	Q76S41	Shigella_phage	82.8	2.7e-21
AYU36325.1|73690_74227_+	IS2 resolvase	NA	Q9ZXG3	Shigella_phage	69.7	1.2e-69
AYU36326.1|74251_77257_-|transposase	transposase	transposase	Q1MVP5	Enterobacteria_phage	100.0	0.0e+00
AYU36327.1|77420_77978_+	TnpR	NA	Q1MVP4	Enterobacteria_phage	100.0	7.0e-94
AYU36328.1|78160_79021_+	beta-lactamase	NA	Q1MVP3	Enterobacteria_phage	100.0	4.6e-161
