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
CP029872	Salmonella enterica subsp. enterica serovar Typhi strain 343077_214135 chromosome, complete genome	4783204	930499	937811	4783204	protease,integrase	Dickeya_phage(16.67%)	6	931750:931764	942929:942943
AYT63864.1|930499_931618_+	hypothetical protein	NA	A0A140XAI1	Dickeya_phage	39.8	8.1e-09
AYT63865.1|931614_933561_+	macrolide transporter ATP-binding protein/permease	NA	G9BWD6	Planktothrix_phage	43.1	2.0e-39
931750:931764	attL	GGAAAATCAACGCTG	NA	NA	NA	NA
AYT63866.1|933690_933912_-	cold shock-like protein CspD	NA	A0A2H4N7Y6	Lake_Baikal_phage	64.2	9.3e-18
AYT63867.1|934235_934556_+|protease	ATP-dependent Clp protease adaptor protein	protease	A0A1B1IT64	uncultured_Mediterranean_phage	45.7	4.5e-13
AYT63868.1|934586_936863_+|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	protease	A0A223W0B1	Agrobacterium_phage	42.2	1.8e-164
AYT63869.1|937433_937811_-|integrase	integrase	integrase	A0A077KET4	Ralstonia_phage	41.0	1.2e-20
942929:942943	attR	CAGCGTTGATTTTCC	NA	NA	NA	NA
>prophage 2
CP029872	Salmonella enterica subsp. enterica serovar Typhi strain 343077_214135 chromosome, complete genome	4783204	1008724	1086036	4783204	protease,integrase,transposase,tail,terminase	Salmonella_phage(73.33%)	93	990790:990809	1061397:1061416
990790:990809	attL	AACGGCGCCGGGAAATCCAC	NA	NA	NA	NA
AYT63919.1|1008724_1010065_-|integrase	integrase	integrase	S4TSP2	Salmonella_phage	99.8	7.9e-261
AYT63920.1|1010061_1010310_-	excisionase	NA	S4TND0	Salmonella_phage	100.0	4.7e-42
AYT63921.1|1010350_1010596_-	bacteriophage protein	NA	S4TR31	Salmonella_phage	96.2	1.3e-36
AYT63922.1|1010595_1011477_-	DNA methylase	NA	A0A0M4R347	Salmonella_phage	93.0	1.2e-153
AYT63923.1|1011473_1012538_-	bacteriophage protein	NA	T1SBJ4	Salmonella_phage	74.6	6.3e-152
AYT63924.1|1012615_1013296_-	exonuclease	NA	A0A0M3ULE0	Salmonella_phage	98.7	1.9e-130
AYT63925.1|1013292_1014078_-	bacteriophage recombination protein	NA	A0A0M4RD39	Salmonella_phage	99.6	9.7e-150
AYT63926.1|1014083_1014380_-	host-nuclease inhibitor protein	NA	A0A0M5M5Z9	Salmonella_phage	96.9	4.4e-47
AYT63927.1|1014470_1014671_-	prophage Kil protein	NA	G8C7T2	Escherichia_phage	48.4	2.4e-12
AYT63928.1|1014959_1015364_-	DNA-binding protein	NA	H6WRX4	Salmonella_phage	99.3	7.1e-72
AYT63929.1|1015695_1016070_+	DNA-binding protein	NA	S4TTD7	Salmonella_phage	99.2	3.9e-64
AYT63930.1|1016154_1017138_+	bacteriophage protein	NA	H6WRX7	Salmonella_phage	99.7	2.1e-162
AYT63931.1|1017140_1017890_+	DNA replication protein	NA	S4TNF5	Salmonella_phage	99.6	3.6e-138
AYT63932.1|1017900_1018248_+	DNA-binding protein	NA	H6WRX9	Salmonella_phage	90.4	4.8e-53
AYT63933.1|1018244_1018769_+	bacteriophage protein	NA	A0A220NQV2	Salmonella_phage	99.4	1.8e-91
AYT63934.1|1018768_1019242_+	methyltransferase	NA	H9C170	Pectobacterium_phage	80.1	1.6e-67
AYT63935.1|1019245_1019818_+	bacteriophage protein	NA	S4TSR6	Salmonella_phage	68.0	1.3e-66
AYT63936.1|1019911_1020178_+	bacteriophage protein	NA	S4TNF2	Salmonella_phage	100.0	1.5e-46
AYT63937.1|1020259_1020421_+	bacteriophage protein	NA	NA	NA	NA	NA
AYT63938.1|1020853_1021351_+	bacteriophage protein	NA	NA	NA	NA	NA
AYT63939.1|1021535_1021775_+	damage-inducible protein	NA	H6WRY5	Salmonella_phage	100.0	3.9e-38
AYT63940.1|1021764_1022070_+	bacteriophage protein	NA	H6WRY6	Salmonella_phage	100.0	9.8e-42
AYT63941.1|1022109_1022712_+	bacteriophage protein	NA	S4TTI0	Salmonella_phage	99.5	7.5e-110
AYT63942.1|1022920_1023532_+	bacteriophage lambda protein NinG	NA	A0A0M4RU10	Salmonella_phage	99.5	2.5e-92
AYT63943.1|1023664_1024462_+	prophage antitermination protein	NA	A0A0M4S661	Salmonella_phage	99.2	3.4e-150
AYT63944.1|1024860_1024986_+	bacteriophage protein	NA	NA	NA	NA	NA
AYT63945.1|1025121_1025571_-	lipoprotein	NA	NA	NA	NA	NA
AYT63946.1|1025787_1026177_+	prophage membrane protein	NA	K7PHB9	Enterobacterial_phage	70.2	3.1e-40
AYT63947.1|1026163_1026445_+	prophage membrane protein	NA	K7PKN9	Enterobacterial_phage	80.6	2.6e-36
AYT63948.1|1026444_1027059_+	bacteriophage protein	NA	Q8HA86	Salmonella_phage	93.1	3.2e-108
AYT63949.1|1027277_1027532_+	hypothetical protein	NA	NA	NA	NA	NA
AYT63950.1|1027636_1028014_+	hypothetical protein	NA	Q6UAR9	Klebsiella_phage	68.5	4.9e-43
AYT63951.1|1028077_1028338_+	hypothetical protein	NA	NA	NA	NA	NA
AYT63952.1|1028427_1029180_+|terminase	prophage terminase small subunit	terminase	A0A0M3ULJ9	Salmonella_phage	56.5	3.4e-11
AYT63953.1|1029145_1030549_+	bacteriophage protein	NA	A0A077KAW0	Edwardsiella_phage	70.1	6.5e-189
AYT63954.1|1030548_1032018_+	hypothetical protein	NA	A0A0M4S6U1	Salmonella_phage	99.2	1.7e-280
AYT63955.1|1032109_1032640_+	hypothetical protein	NA	A0A0M4REK0	Salmonella_phage	87.4	8.7e-86
AYT63956.1|1032654_1033887_+	hypothetical protein	NA	A0A0M4R5A6	Salmonella_phage	99.0	1.4e-227
AYT63957.1|1033891_1034389_+	bacteriophage protein	NA	A0A0M4QWZ6	Salmonella_phage	99.4	8.7e-88
AYT63958.1|1034400_1035342_+	bacteriophage protein	NA	A0A0M3ULD3	Salmonella_phage	100.0	3.1e-179
AYT63959.1|1035383_1035752_+	bacteriophage protein	NA	A0A0M4RTX5	Salmonella_phage	100.0	8.7e-61
AYT63960.1|1035717_1036125_+	bacteriophage protein	NA	A0A0M5M3S2	Salmonella_phage	97.8	7.1e-72
AYT63961.1|1036121_1036676_+	bacteriophage protein	NA	A0A0M4S631	Salmonella_phage	100.0	4.8e-95
AYT63962.1|1036662_1037052_+	bacteriophage protein	NA	A0A0M3ULK0	Salmonella_phage	98.4	6.0e-68
AYT63963.1|1037026_1037590_+	bacteriophage protein	NA	A0A0M4R331	Salmonella_phage	75.3	8.9e-81
AYT63964.1|1037593_1038739_+	bacteriophage protein	NA	A0A2H4J8G4	uncultured_Caudovirales_phage	74.5	2.2e-163
AYT63965.1|1038750_1039191_+	bacteriophage protein	NA	A0A2H4J619	uncultured_Caudovirales_phage	74.7	3.5e-56
AYT63966.1|1039194_1039647_+	bacteriophage protein	NA	A0A0M4S6U8	Salmonella_phage	76.6	1.9e-57
AYT63967.1|1039824_1041777_+	bacteriophage protein	NA	A0A0M4REK7	Salmonella_phage	56.0	1.8e-181
AYT63968.1|1041776_1042427_+	bacteriophage protein	NA	A0A0M3ULD5	Salmonella_phage	60.6	3.0e-56
AYT63969.1|1042430_1042733_+	bacteriophage protein	NA	A0A2H4J495	uncultured_Caudovirales_phage	57.0	2.0e-26
AYT63970.1|1042735_1043767_+	bacteriophage protein	NA	A0A2H4J1B2	uncultured_Caudovirales_phage	51.4	1.2e-96
AYT63971.1|1043763_1044099_+	hypothetical protein	NA	A0A2H4J1A5	uncultured_Caudovirales_phage	52.2	1.1e-20
AYT63972.1|1044293_1045025_+	bacteriophage protein	NA	NA	NA	NA	NA
AYT63973.1|1045024_1045453_+	bacteriophage protein	NA	NA	NA	NA	NA
AYT63974.1|1045511_1046267_+	bacteriophage protein	NA	A0A0M5M1K7	Salmonella_phage	85.3	4.1e-105
AYT63975.1|1046354_1046492_+	bacteriophage protein	NA	A0A0M4S639	Salmonella_phage	100.0	2.0e-18
AYT63976.1|1046507_1046861_+	bacteriophage protein	NA	A0A0M4R339	Salmonella_phage	98.3	3.2e-60
AYT63977.1|1046861_1048061_+	bacteriophage protein	NA	A0A0M4RD32	Salmonella_phage	97.5	8.5e-214
AYT63978.1|1048057_1048738_+	bacteriophage protein	NA	A0A0M5M1K4	Salmonella_phage	98.7	6.9e-128
AYT63979.1|1048737_1050249_+|tail	bacteriophage tail protein	tail	S4TP62	Salmonella_phage	59.4	1.5e-111
AYT63980.1|1050263_1050782_+|tail	tail fiber protein	tail	A0A1B0VCD0	Salmonella_phage	62.8	1.7e-46
AYT63981.1|1051703_1052405_-	hypothetical protein	NA	NA	NA	NA	NA
AYT63982.1|1052717_1052996_-	hypothetical protein	NA	S4TNM0	Salmonella_phage	92.3	2.4e-26
AYT63983.1|1053421_1056034_+	aminopeptidase N	NA	A0A0P0IY26	Acinetobacter_phage	22.6	1.1e-19
AYT63984.1|1056241_1057252_+	dihydroorotate dehydrogenase	NA	NA	NA	NA	NA
AYT63985.1|1057414_1057960_+	hypothetical protein	NA	NA	NA	NA	NA
AYT63986.1|1057956_1059066_-	MOSC domain-containing protein	NA	NA	NA	NA	NA
AYT63987.1|1059164_1061273_+	23S rRNA m(2)G2445 methyltransferase	NA	W6LLI2	Streptococcus_phage	29.6	5.1e-20
AYT63988.1|1061285_1063193_+	ABC transporter ATP-binding protein	NA	A0A2K9L3Z8	Tupanvirus	29.8	2.4e-53
1061397:1061416	attR	AACGGCGCCGGGAAATCCAC	NA	NA	NA	NA
AYT63989.1|1063207_1064461_+	inner membrane protein	NA	NA	NA	NA	NA
AYT63990.1|1064465_1066106_+	paraquat-inducible protein B	NA	NA	NA	NA	NA
AYT63991.1|1066102_1066666_+	lipoprotein	NA	NA	NA	NA	NA
AYT63992.1|1066919_1067087_+	ribosome modulation factor	NA	NA	NA	NA	NA
AYT63993.1|1067186_1067705_-	D-3-hydroxydecanoyl-(acyl carrier-protein) dehydratase	NA	NA	NA	NA	NA
AYT63994.1|1067773_1069534_-|protease	ATP-dependent protease	protease	NA	NA	NA	NA
AYT63995.1|1069719_1070172_+	Ter macrodomain organizer matS-binding protein	NA	NA	NA	NA	NA
AYT63996.1|1070243_1071296_-	outer membrane protein A	NA	NA	NA	NA	NA
AYT63997.1|1071650_1072160_-	cell division inhibitor	NA	NA	NA	NA	NA
AYT63998.1|1072376_1072982_+	competence-specific transcriptional regulator TfoX	NA	NA	NA	NA	NA
AYT63999.1|1072968_1075122_-	inner membrane protein	NA	NA	NA	NA	NA
AYT64000.1|1075140_1075587_-	hypothetical protein	NA	NA	NA	NA	NA
AYT64001.1|1075710_1077765_+	helicase IV	NA	A7KV33	Bacillus_phage	27.6	6.5e-20
AYT64002.1|1077800_1078259_-	methylglyoxal synthase	NA	NA	NA	NA	NA
AYT64003.1|1078353_1079016_-	hypothetical protein	NA	NA	NA	NA	NA
AYT64004.1|1079186_1079603_+	hypothetical protein	NA	NA	NA	NA	NA
AYT64005.1|1079647_1079965_-	heat shock protein HspQ	NA	NA	NA	NA	NA
AYT64006.1|1080022_1081234_-	23S rRNA m(5)C1962 methyltransferase	NA	NA	NA	NA	NA
AYT64007.1|1082365_1082824_+|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
AYT64008.1|1083560_1083842_+	acylphosphatase	NA	NA	NA	NA	NA
AYT64009.1|1083838_1084168_-	sulfite reductase	NA	NA	NA	NA	NA
AYT64010.1|1084254_1084914_-	hypothetical protein	NA	A0A2H4JFM9	uncultured_Caudovirales_phage	52.4	2.7e-44
AYT64011.1|1085577_1086036_+|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
>prophage 3
CP029872	Salmonella enterica subsp. enterica serovar Typhi strain 343077_214135 chromosome, complete genome	4783204	1528854	1602452	4783204	tRNA,protease,plate,transposase,head,tail	Burkholderia_virus(44.12%)	72	NA	NA
AYT64411.1|1528854_1529313_-|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
AYT64412.1|1529815_1530097_+	stress response protein	NA	NA	NA	NA	NA
AYT64413.1|1530365_1531187_+|protease	serine protease	protease	NA	NA	NA	NA
AYT64414.1|1531221_1531551_-	multidrug efflux system protein MdtI	NA	NA	NA	NA	NA
AYT64415.1|1531537_1531900_-	multidrug efflux system protein MdtJ	NA	NA	NA	NA	NA
AYT64416.1|1532011_1532182_-	hypothetical protein	NA	NA	NA	NA	NA
AYT64417.1|1532316_1533351_+	hypothetical protein	NA	NA	NA	NA	NA
AYT64418.1|1533525_1534914_-	pyridine nucleotide transhydrogenase subunit beta	NA	NA	NA	NA	NA
AYT64419.1|1534924_1536454_-	pyridine nucleotide transhydrogenase subunit alpha	NA	NA	NA	NA	NA
AYT64420.1|1536980_1537925_+	hypothetical protein	NA	NA	NA	NA	NA
AYT64421.1|1538106_1538496_-	bacteriophage transcriptional regulator	NA	Q6QIE8	Burkholderia_phage	54.2	4.5e-31
AYT64422.1|1538467_1538920_-	hypothetical protein	NA	A4JWM5	Burkholderia_virus	46.6	1.2e-24
AYT64423.1|1539114_1539345_-	hypothetical protein	NA	NA	NA	NA	NA
AYT64424.1|1539341_1540025_-	hypothetical protein	NA	A0A2P9JZH4	Alteromonadaceae_phage	37.3	2.6e-34
AYT64425.1|1540609_1540912_-	hypothetical protein	NA	NA	NA	NA	NA
AYT64426.1|1541482_1542013_-	bacteriophage host-nuclease inhibitor protein	NA	L7P7T1	Pseudomonas_phage	66.1	3.4e-58
AYT64427.1|1542312_1543479_-	ExeA protein	NA	A4JWN1	Burkholderia_virus	59.7	3.3e-122
AYT64428.1|1543489_1545259_-	hypothetical protein	NA	Q6QIE0	Burkholderia_phage	68.5	2.8e-229
AYT64429.1|1546703_1547054_+	hypothetical protein	NA	A4JWP3	Burkholderia_virus	53.0	4.5e-22
AYT64430.1|1547768_1548419_+	lipoprotein	NA	Q5ZQY9	Pseudomonas_phage	32.9	8.1e-09
AYT64431.1|1548741_1549053_+	hypothetical protein	NA	A0A0S4L0A3	Pseudomonas_phage	62.6	9.4e-32
AYT64432.1|1549052_1549598_+	hypothetical protein	NA	A4JWJ3	Burkholderia_virus	67.6	9.3e-59
AYT64433.1|1549594_1551190_+	hypothetical protein	NA	A4JWJ4	Burkholderia_virus	62.6	9.3e-184
AYT64434.1|1551189_1552686_+	hypothetical protein	NA	A4JWJ5	Burkholderia_virus	59.6	8.0e-169
AYT64435.1|1552666_1553488_+|head	phage head morphogenesis protein	head	A4JWJ6	Burkholderia_virus	61.2	5.3e-98
AYT64436.1|1553490_1553949_+	bacteriophage protein	NA	Q6QIB8	Burkholderia_phage	44.8	1.5e-30
AYT64437.1|1554163_1555279_+	hypothetical protein	NA	A4JWJ9	Burkholderia_virus	51.1	7.9e-97
AYT64438.1|1555293_1556247_+	hypothetical protein	NA	A4JWK0	Burkholderia_virus	44.5	5.2e-65
AYT64439.1|1556256_1556595_+	hypothetical protein	NA	NA	NA	NA	NA
AYT64440.1|1556596_1557043_+	hypothetical protein	NA	A4JWK2	Burkholderia_virus	52.3	2.2e-34
AYT64441.1|1557042_1557507_+	hypothetical protein	NA	Q6QIB2	Burkholderia_phage	51.7	9.1e-39
AYT64442.1|1557747_1559175_+|tail	bacteriophage tail sheath protein	tail	A4JWK5	Burkholderia_virus	77.4	3.7e-216
AYT64443.1|1559174_1559696_+|tail	tail core protein	tail	A4JWK6	Burkholderia_virus	68.2	8.0e-68
AYT64444.1|1559698_1559980_+	hypothetical protein	NA	NA	NA	NA	NA
AYT64445.1|1560077_1560413_+	hypothetical protein	NA	NA	NA	NA	NA
AYT64446.1|1560588_1563054_+	bacteriophage protein	NA	A4JWL0	Burkholderia_virus	42.6	2.2e-168
AYT64447.1|1563053_1563938_+	hypothetical protein	NA	A4JWL1	Burkholderia_virus	47.0	7.5e-50
AYT64448.1|1563934_1564150_+|tail	bacteriophage tail fiber protein	tail	Q6QIA3	Burkholderia_phage	60.0	2.4e-18
AYT64449.1|1564137_1565292_+	bacteriophage regulatory protein	NA	Q6QIA2	Burkholderia_phage	47.1	4.7e-84
AYT64450.1|1565288_1565816_+|plate	bacteriophage baseplate protein	plate	Q6QIA1	Burkholderia_phage	46.5	1.5e-21
AYT64451.1|1565872_1566220_+|plate	bacteriophage baseplate protein	plate	Q6QIA0	Burkholderia_phage	60.6	8.6e-34
AYT64452.1|1566210_1567314_+|plate	bacteriophage baseplate assembly protein	plate	Q6QI99	Burkholderia_phage	54.3	5.4e-106
AYT64453.1|1567306_1567885_+|tail	bacteriophage tail fiber protein	tail	A4JWL7	Burkholderia_virus	65.8	6.4e-66
AYT64454.1|1567887_1568913_+|tail	bacteriophage tail fiber protein	tail	M1TAS6	Escherichia_phage	53.3	1.6e-64
AYT64455.1|1569426_1570044_+|tail	bacteriophage tail fiber assembly protein	tail	Q9MCR5	Enterobacteria_phage	59.9	5.8e-65
AYT64456.1|1571554_1572127_+	DNA-invertase	NA	A0A0A7NPV4	Enterobacteria_phage	84.7	8.8e-84
AYT64457.1|1572407_1573790_+	amino acid permease	NA	NA	NA	NA	NA
AYT64458.1|1573851_1574187_-	hypothetical protein	NA	NA	NA	NA	NA
AYT64459.1|1574313_1575045_+	two-component response regulator	NA	NA	NA	NA	NA
AYT64460.1|1575525_1576677_+	outer membrane protein	NA	Q1MVN1	Enterobacteria_phage	59.1	3.2e-117
AYT64461.1|1576829_1578536_+	metal-dependent hydrolase	NA	NA	NA	NA	NA
AYT64462.1|1578643_1579948_+	two component sensor kinase	NA	W8CYF6	Bacillus_phage	22.7	5.7e-14
AYT64463.1|1580023_1580953_+	DNA sequence-specific contrahelicase	NA	NA	NA	NA	NA
AYT64464.1|1580949_1582353_-	fumarate hydratase class II	NA	NA	NA	NA	NA
AYT64465.1|1582520_1584167_-	Fumarate hydratase class I	NA	NA	NA	NA	NA
AYT64466.1|1584366_1585542_+	mannose-6-phosphate isomerase	NA	NA	NA	NA	NA
AYT64467.1|1585644_1587153_+	hypothetical protein	NA	NA	NA	NA	NA
AYT64468.1|1587858_1588860_+	adenosine deaminase	NA	NA	NA	NA	NA
AYT64469.1|1588933_1590049_-	oxidoreductase	NA	NA	NA	NA	NA
AYT64470.1|1590151_1590307_+	hypothetical protein	NA	NA	NA	NA	NA
AYT64471.1|1590605_1590821_+	oriC-binding nucleoid-associated protein	NA	NA	NA	NA	NA
AYT64472.1|1590909_1591350_+	hypothetical protein	NA	NA	NA	NA	NA
AYT64473.1|1591426_1592008_+	Na(+)-translocating NADH-quinone reductase subunit E	NA	NA	NA	NA	NA
AYT64474.1|1592007_1592586_+	ferredoxin-like protein	NA	NA	NA	NA	NA
AYT64475.1|1592578_1594600_+	NADH reducing dehydrogenase	NA	NA	NA	NA	NA
AYT64476.1|1594600_1595659_+	electron transport complex protein RnfD	NA	NA	NA	NA	NA
AYT64477.1|1595662_1596283_+	electron transport complex protein RnfG	NA	NA	NA	NA	NA
AYT64478.1|1596285_1596978_+	electron transport complex protein RsxE	NA	NA	NA	NA	NA
AYT64479.1|1596977_1597613_+	endonuclease III	NA	NA	NA	NA	NA
AYT64480.1|1598213_1599719_+	proton/oligopeptide symporter	NA	NA	NA	NA	NA
AYT64481.1|1599823_1600429_+	glutathione S-transferase	NA	NA	NA	NA	NA
AYT64482.1|1601177_1602452_-|tRNA	tyrosyl-tRNA synthetase	tRNA	K4F5T3	Cronobacter_phage	42.1	1.6e-85
>prophage 4
CP029872	Salmonella enterica subsp. enterica serovar Typhi strain 343077_214135 chromosome, complete genome	4783204	1783489	1787901	4783204		Escherichia_phage(50.0%)	6	NA	NA
AYT64666.1|1783489_1783729_+	virulence protein	NA	K7P6H1	Enterobacteria_phage	87.3	5.5e-32
AYT64667.1|1784601_1785411_+	toxin-like protein	NA	A5LH53	Enterobacteria_phage	50.0	2.1e-62
AYT64668.1|1785483_1785861_+	hypothetical protein	NA	I1TQ41	Pseudomonas_phage	38.4	2.2e-14
AYT64669.1|1786008_1786551_-	hypothetical protein	NA	A0A0U2S643	Escherichia_phage	67.0	6.2e-71
AYT64670.1|1786742_1787471_-	pertussis toxin subunit ArtA	NA	A0A0U2KD26	Escherichia_phage	53.3	4.9e-63
AYT64671.1|1787487_1787901_-	pertussis-like toxin subunit	NA	A0A0U2KD34	Escherichia_phage	38.6	1.4e-19
>prophage 5
CP029872	Salmonella enterica subsp. enterica serovar Typhi strain 343077_214135 chromosome, complete genome	4783204	1991754	1998988	4783204		Morganella_phage(33.33%)	7	NA	NA
AYT64861.1|1991754_1993185_-	DNA-cytosine methyltransferase	NA	E5E3X6	Burkholderia_phage	57.4	1.0e-104
AYT64862.1|1993258_1993954_-	hypothetical protein	NA	S4W232	Pandoravirus	27.5	2.1e-07
AYT64863.1|1994033_1994345_-	hypothetical protein	NA	NA	NA	NA	NA
AYT64864.1|1994995_1996180_+	outer membrane protein S1	NA	Q1MVN1	Enterobacteria_phage	56.4	1.4e-107
AYT64865.1|1996639_1996852_-	cold shock protein	NA	A0A1W6JNX5	Morganella_phage	70.0	1.5e-20
AYT64866.1|1997297_1998566_-	DNA polymerase V subunit UmuC	NA	I6RSM4	Salmonella_phage	91.2	3.3e-224
AYT64867.1|1998568_1998988_-	DNA polymerase V subunit UmuD	NA	A0A1W6JNS2	Morganella_phage	60.5	8.5e-36
>prophage 6
CP029872	Salmonella enterica subsp. enterica serovar Typhi strain 343077_214135 chromosome, complete genome	4783204	2105289	2115796	4783204		Enterobacteria_phage(37.5%)	10	NA	NA
AYT64964.1|2105289_2106603_-	dehydratase RfbH	NA	H8ZJ36	Ostreococcus_tauri_virus	35.1	7.0e-52
AYT64965.1|2106629_2107709_-	CDP-glucose 4,6-dehydratase	NA	A0A222YY99	Synechococcus_phage	24.1	1.3e-16
AYT64966.1|2107713_2108487_-	glucose-1-phosphate cytidylyltransferase	NA	NA	NA	NA	NA
AYT64967.1|2108502_2109477_-	reductase RfbI	NA	NA	NA	NA	NA
AYT64968.1|2109482_2110034_-	dTDP-4-dehydrorhamnose 3,5-epimerase	NA	I7HJC4	Enterobacteria_phage	58.6	7.7e-53
AYT64969.1|2110034_2110913_-	TDP-glucose pyrophosphorylase	NA	I7I009	Enterobacteria_phage	64.8	2.3e-107
AYT64970.1|2110960_2111860_-	dTDP-4-dehydrorhamnose reductase	NA	A0A291LA50	Escherichia_phage	36.3	7.9e-31
AYT64971.1|2111859_2112945_-	dTDP-glucose 4,6-dehydratase	NA	I7HTA3	Enterobacteria_phage	53.9	1.6e-102
AYT64972.1|2113321_2114215_-	UTP-glucose-1-phosphate uridylyltransferase	NA	A0A127AW70	Bacillus_phage	42.2	4.8e-44
AYT64973.1|2114392_2115796_-	colanic acid biosynthesis protein WcaM	NA	A0A291LBB9	Klebsiella_phage	26.5	1.1e-21
>prophage 7
CP029872	Salmonella enterica subsp. enterica serovar Typhi strain 343077_214135 chromosome, complete genome	4783204	2193025	2202196	4783204	tRNA	Enterobacteria_phage(66.67%)	10	NA	NA
AYT65033.1|2193025_2195059_+|tRNA	methionyl-tRNA synthetase	tRNA	A0A1V0SDF2	Indivirus	26.9	6.1e-55
AYT65034.1|2195299_2195758_+	lipoprotein	NA	Q9EYF5	Enterobacteria_phage	72.5	8.4e-53
AYT65035.1|2195929_2196460_+	lipoprotein	NA	NA	NA	NA	NA
AYT65036.1|2196516_2196984_-	hypothetical protein	NA	Q9EYF4	Enterobacteria_phage	90.3	3.9e-74
AYT65037.1|2197030_2197750_-	two-component system response regulator	NA	NA	NA	NA	NA
AYT65038.1|2197746_2199432_-	two-component system sensor kinase	NA	Q9EYF3	Enterobacteria_phage	91.1	1.1e-278
AYT65039.1|2199654_2200386_+	transcriptional regulator	NA	Q9EYF2	Enterobacteria_phage	87.9	4.5e-101
AYT65040.1|2200445_2200553_+	hypothetical protein	NA	NA	NA	NA	NA
AYT65041.1|2200533_2201265_-	ABC transporter permease	NA	NA	NA	NA	NA
AYT65042.1|2201248_2202196_-	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	31.2	1.7e-23
>prophage 8
CP029872	Salmonella enterica subsp. enterica serovar Typhi strain 343077_214135 chromosome, complete genome	4783204	2737649	2751041	4783204	tail	Salmonella_phage(70.0%)	11	NA	NA
AYT65471.1|2737649_2737868_-	hypothetical protein	NA	Q53ZE7	Salmonella_virus	71.9	1.9e-18
AYT65472.1|2737958_2739059_-	hypothetical protein	NA	A0A1S6KZZ5	Salmonella_phage	88.3	1.0e-176
AYT65473.1|2739055_2739541_-|tail	bacteriophage tail protein	tail	E5G6Q2	Salmonella_phage	80.0	2.4e-66
AYT65474.1|2739537_2742615_-|tail	bacteriophage tail protein	tail	E5G6Q1	Salmonella_phage	63.0	0.0e+00
AYT65475.1|2742607_2742727_-	hypothetical protein	NA	E5G6Q0	Salmonella_phage	87.2	2.8e-13
AYT65476.1|2742741_2743044_-|tail	phage tail protein	tail	A0A1S6KZZ9	Salmonella_phage	89.0	7.0e-40
AYT65477.1|2743098_2743614_-|tail	major tail tube protein	tail	A0A1S6L002	Salmonella_phage	95.9	5.6e-90
AYT65478.1|2743623_2744796_-|tail	bacteriophage major tail sheath protein	tail	A0A1S6KZY7	Salmonella_phage	90.3	3.5e-204
AYT65479.1|2744938_2745511_-	DNA-invertase	NA	A0A0F7LA37	Escherichia_phage	86.3	1.4e-86
AYT65480.1|2746188_2747304_+	glycosyltransferase	NA	NA	NA	NA	NA
AYT65481.1|2747384_2751041_+	ABC transporter ATP-binding protein/permease	NA	W8CYL7	Bacillus_phage	28.6	1.0e-44
>prophage 9
CP029872	Salmonella enterica subsp. enterica serovar Typhi strain 343077_214135 chromosome, complete genome	4783204	3068135	3111838	4783204	protease,tRNA,bacteriocin,transposase	Bacillus_virus(33.33%)	44	NA	NA
AYT65769.1|3068135_3068594_-|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
AYT65770.1|3068783_3069863_-	fructose 1,6-bisphosphate aldolase	NA	NA	NA	NA	NA
AYT65771.1|3069964_3071128_-	phosphoglycerate kinase	NA	NA	NA	NA	NA
AYT65772.1|3071149_3072196_-	D-erythrose 4-phosphate dehydrogenase	NA	NA	NA	NA	NA
AYT65773.1|3072569_3072995_+	hypothetical protein	NA	NA	NA	NA	NA
AYT65774.1|3073020_3073599_+	hypothetical protein	NA	NA	NA	NA	NA
AYT65775.1|3073632_3074307_+	hypothetical protein	NA	NA	NA	NA	NA
AYT65776.1|3074288_3074972_+	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
AYT65777.1|3074965_3075622_+	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	28.6	1.6e-09
AYT65778.1|3075726_3076185_-|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
AYT65779.1|3076373_3078365_-	transketolase	NA	NA	NA	NA	NA
AYT65780.1|3078640_3079399_+|protease	metalloprotease	protease	NA	NA	NA	NA
AYT65781.1|3079499_3080420_-	agmatine ureohydrolase	NA	NA	NA	NA	NA
AYT65782.1|3080647_3082624_-	biosynthetic arginine decarboxylase	NA	NA	NA	NA	NA
AYT65783.1|3082632_3082764_-	hypothetical protein	NA	NA	NA	NA	NA
AYT65784.1|3083058_3083358_-	membrane protein	NA	NA	NA	NA	NA
AYT65785.1|3083413_3084568_+	S-adenosylmethionine synthetase	NA	A0A2H4PQS6	Staphylococcus_phage	63.9	1.5e-130
AYT65786.1|3085060_3086455_+	galactose-proton symport	NA	NA	NA	NA	NA
AYT65787.1|3086533_3087031_+	hypothetical protein	NA	NA	NA	NA	NA
AYT65788.1|3087126_3087834_+	endonuclease I	NA	NA	NA	NA	NA
AYT65789.1|3087910_3088642_+	16S rRNA (uracil(1498)-N(3))-methyltransferase	NA	NA	NA	NA	NA
AYT65790.1|3088661_3089609_+	glutathione synthetase	NA	NA	NA	NA	NA
AYT65791.1|3089824_3090388_+	hypothetical protein	NA	NA	NA	NA	NA
AYT65792.1|3090387_3090804_+	Holliday junction resolvase	NA	NA	NA	NA	NA
AYT65793.1|3090850_3091537_-	global regulatory protein	NA	NA	NA	NA	NA
AYT65794.1|3091666_3092647_-	type II secretion system ATP-binding protein	NA	NA	NA	NA	NA
AYT65795.1|3092664_3093369_+	hypothetical protein	NA	NA	NA	NA	NA
AYT65796.1|3093387_3093954_+	hypothetical protein	NA	NA	NA	NA	NA
AYT65797.1|3093950_3094241_+	hypothetical protein	NA	NA	NA	NA	NA
AYT65798.1|3094248_3094842_+	dITP/XTP pyrophosphatase	NA	NA	NA	NA	NA
AYT65799.1|3094834_3095971_+	oxygen-independent coproporphyrinogen III oxidase	NA	NA	NA	NA	NA
AYT65800.1|3096061_3097069_-	hypothetical protein	NA	NA	NA	NA	NA
AYT65801.1|3097201_3098248_-	L-asparaginase	NA	NA	NA	NA	NA
AYT65802.1|3098566_3099025_+|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
AYT65803.1|3099147_3099867_-	hypothetical protein	NA	NA	NA	NA	NA
AYT65804.1|3099916_3100243_-	hypothetical protein	NA	NA	NA	NA	NA
AYT65805.1|3100242_3100962_-|tRNA	tRNA m(7)G46 methyltransferase	tRNA	NA	NA	NA	NA
AYT65806.1|3101116_3102169_+	A/G-specific adenine glycosylase	NA	NA	NA	NA	NA
AYT65807.1|3102196_3102472_+	oxidative damage protection protein	NA	NA	NA	NA	NA
AYT65808.1|3102584_3103670_+	membrane-bound lytic murein transglycosylase C	NA	A0A0H3V0Q1	Geobacillus_virus	39.0	5.8e-12
AYT65809.1|3103886_3105143_+	nucleoside permease	NA	NA	NA	NA	NA
AYT65810.1|3107753_3108461_+	hypothetical protein	NA	NA	NA	NA	NA
AYT65811.1|3111050_3111317_+|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
AYT65812.1|3111559_3111838_+|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
>prophage 10
CP029872	Salmonella enterica subsp. enterica serovar Typhi strain 343077_214135 chromosome, complete genome	4783204	3488936	3526994	4783204	portal,capsid,plate,integrase,transposase,tail,terminase	Salmonella_phage(82.05%)	46	3483900:3483914	3496066:3496080
3483900:3483914	attL	CGAATTTCTTTTTCA	NA	NA	NA	NA
AYT66140.1|3488936_3490583_-	acetolactate synthase large subunit	NA	A0A0P0CDR3	Ostreococcus_lucimarinus_virus	31.5	9.0e-65
AYT66141.1|3490722_3490821_-	ilvGMEDA operon attenuator peptide	NA	NA	NA	NA	NA
AYT66142.1|3491076_3491406_+	hypothetical protein	NA	NA	NA	NA	NA
AYT66143.1|3491446_3492499_-|integrase	bacteriophage integrase	integrase	A0A218M4I3	Erwinia_phage	57.3	3.6e-107
AYT66144.1|3492894_3493464_-	repressor protein	NA	A0A1S6KZZ7	Salmonella_phage	43.4	2.5e-38
AYT66145.1|3493589_3493811_+	hypothetical protein	NA	NA	NA	NA	NA
AYT66146.1|3493843_3494353_+	regulatory protein cII	NA	E5G6L3	Salmonella_phage	98.8	5.8e-87
AYT66147.1|3494527_3494752_+	hypothetical protein	NA	NA	NA	NA	NA
AYT66148.1|3494774_3495116_+	hypothetical protein	NA	E5G6L5	Salmonella_phage	98.2	1.7e-55
AYT66149.1|3495183_3495417_+	hypothetical protein	NA	E5G6L6	Salmonella_phage	94.8	2.0e-31
AYT66150.1|3495416_3495644_+	hypothetical protein	NA	E5G6L7	Salmonella_phage	100.0	2.7e-36
AYT66151.1|3495640_3496498_+	DNA adenine methylase	NA	E5G6L8	Salmonella_phage	97.2	3.5e-161
3496066:3496080	attR	TGAAAAAGAAATTCG	NA	NA	NA	NA
AYT66152.1|3496494_3498909_+	endonuclease	NA	E5G6L9	Salmonella_phage	97.5	0.0e+00
AYT66153.1|3499062_3499251_+	hypothetical protein	NA	E5G6M0	Salmonella_phage	95.2	7.9e-26
AYT66154.1|3501218_3502133_+	hypothetical protein	NA	NA	NA	NA	NA
AYT66155.1|3502129_3502870_+	hypothetical protein	NA	NA	NA	NA	NA
AYT66156.1|3502904_3503942_-|capsid,portal	capsid portal protein	capsid,portal	A0A1S6KZW5	Salmonella_phage	89.5	1.3e-173
AYT66157.1|3503941_3505708_-|terminase	terminase subunit	terminase	A0A1S6KZW3	Salmonella_phage	99.5	0.0e+00
AYT66158.1|3505850_3506684_+|capsid	capsid scaffolding protein	capsid	A0A1S6KZW9	Salmonella_phage	90.6	1.5e-121
AYT66159.1|3506700_3507759_+|capsid	major capsid protein	capsid	E5G6M6	Salmonella_phage	93.1	1.4e-180
AYT66160.1|3507762_3508413_+|terminase	terminase endonuclease subunit	terminase	E5G6M7	Salmonella_phage	96.3	8.7e-112
AYT66161.1|3508445_3508973_+|capsid	capsid completion protein	capsid	A0A1S6KZW8	Salmonella_phage	89.0	2.1e-76
AYT66162.1|3508972_3509176_+|tail	phage tail protein	tail	E5G6M9	Salmonella_phage	92.5	1.4e-31
AYT66163.1|3509179_3509395_+	hypothetical protein	NA	E5G6N0	Salmonella_phage	80.3	1.8e-26
AYT66164.1|3509414_3509888_+	lysozyme	NA	E5G6N1	Salmonella_phage	91.0	3.7e-80
AYT66165.1|3509889_3510267_+	hypothetical protein	NA	A0A1S6KZZ2	Salmonella_phage	40.0	2.3e-16
AYT66166.1|3510263_3510692_+	regulatory protein	NA	E5G6N2	Salmonella_phage	77.3	2.2e-47
AYT66167.1|3510787_3511219_+|tail	phage tail protein	tail	E5G6N3	Salmonella_phage	95.1	1.5e-72
AYT66168.1|3511211_3511658_+|tail	phage tail completion protein	tail	A0A1S6L001	Salmonella_phage	85.6	6.6e-63
AYT66169.1|3511726_3512305_+|plate	phage baseplate assembly protein	plate	A0A1S6KZX7	Salmonella_phage	86.5	5.5e-94
AYT66170.1|3512301_3512661_+|plate	phage baseplate assembly protein	plate	A0A1S6KZZ4	Salmonella_phage	84.9	6.1e-51
AYT66171.1|3512647_3513556_+|plate	phage baseplate assembly protein	plate	A0A1S6KZY6	Salmonella_phage	89.7	1.3e-142
AYT66172.1|3513548_3514154_+|tail	phage tail protein	tail	A0A1S6L000	Salmonella_phage	92.0	2.0e-110
AYT66173.1|3514150_3515665_+|tail	variable tail fiber protein	tail	M1TAS6	Escherichia_phage	73.2	6.8e-200
AYT66174.1|3515664_3516258_+|tail	tail fiber assembly protein	tail	M1SV83	Escherichia_phage	64.3	9.2e-60
AYT66175.1|3516229_3516670_-|tail	tail fiber assembly protein	tail	A0A0F7LDZ0	Escherichia_phage	68.0	3.1e-52
AYT66176.1|3517092_3517665_+	DNA-invertase	NA	A0A0F7LA37	Escherichia_phage	86.3	1.4e-86
AYT66177.1|3517807_3518980_+|tail	major tail sheath protein	tail	A0A1S6KZY7	Salmonella_phage	90.3	3.5e-204
AYT66178.1|3518989_3519505_+|tail	major tail tube protein	tail	A0A1S6L002	Salmonella_phage	95.9	5.6e-90
AYT66179.1|3519559_3519862_+|tail	phage tail protein	tail	A0A1S6KZZ9	Salmonella_phage	89.0	7.0e-40
AYT66180.1|3519876_3519996_+	hypothetical protein	NA	E5G6Q0	Salmonella_phage	87.2	2.8e-13
AYT66181.1|3519988_3523066_+|tail	bacteriophage tail protein	tail	E5G6Q1	Salmonella_phage	63.0	0.0e+00
AYT66182.1|3523062_3523548_+|tail	bacteriophage tail protein	tail	E5G6Q2	Salmonella_phage	80.0	2.4e-66
AYT66183.1|3523544_3524645_+	hypothetical protein	NA	A0A1S6KZZ5	Salmonella_phage	88.3	1.0e-176
AYT66184.1|3524735_3524954_+	hypothetical protein	NA	Q53ZE7	Salmonella_virus	69.0	7.5e-20
AYT66185.1|3526535_3526994_+|transposase	insertion sequence element IS200 transposase	transposase	NA	NA	NA	NA
>prophage 11
CP029872	Salmonella enterica subsp. enterica serovar Typhi strain 343077_214135 chromosome, complete genome	4783204	4442962	4517126	4783204	portal,capsid,plate,integrase,tail,terminase	Salmonella_phage(82.98%)	76	4504463:4504479	4517285:4517301
AYT66956.1|4442962_4444912_+	hypothetical protein	NA	A0A2K9V411	Faecalibacterium_phage	38.3	5.9e-31
AYT66957.1|4444983_4445892_+	hypothetical protein	NA	NA	NA	NA	NA
AYT66958.1|4445965_4446865_+	hypothetical protein	NA	NA	NA	NA	NA
AYT66959.1|4446906_4447266_+	hypothetical protein	NA	NA	NA	NA	NA
AYT66960.1|4447365_4447635_-	hypothetical protein	NA	NA	NA	NA	NA
AYT66961.1|4447766_4449041_-	UV protection protein	NA	F1C5A5	Cronobacter_phage	62.0	7.5e-152
AYT66962.1|4449260_4449638_+	hypothetical protein	NA	NA	NA	NA	NA
AYT66963.1|4449724_4449943_-	hypothetical protein	NA	E5G6Q4	Salmonella_phage	75.0	4.9e-27
AYT66964.1|4450010_4451111_-	hypothetical protein	NA	E5G6Q3	Salmonella_phage	92.1	7.9e-190
AYT66965.1|4451107_4451593_-|tail	phage tail protein	tail	E5G6Q2	Salmonella_phage	93.2	9.4e-71
AYT66966.1|4451592_4454373_-	hypothetical protein	NA	A0A2H4JGB2	uncultured_Caudovirales_phage	41.1	3.5e-125
AYT66967.1|4454365_4454485_-	bacteriophage protein	NA	E5G6Q0	Salmonella_phage	94.9	1.2e-14
AYT66968.1|4454499_4454802_-|tail	phage tail protein	tail	E5G6P9	Salmonella_phage	93.9	3.3e-42
AYT66969.1|4454856_4455372_-|tail	major tail tube protein	tail	E5G6P8	Salmonella_phage	99.4	2.7e-92
AYT66970.1|4455381_4456554_-|tail	major tail sheath protein	tail	A0A1S6KZY7	Salmonella_phage	99.5	9.8e-223
AYT66971.1|4457088_4457811_+	invasion-associated secreted protein	NA	NA	NA	NA	NA
AYT66972.1|4458008_4458416_-|tail	phage tail fiber protein	tail	A0A1B0V844	Salmonella_phage	84.2	4.1e-59
AYT66973.1|4458422_4460042_-|tail	phage tail fiber protein	tail	E5G6P0	Salmonella_phage	90.9	2.7e-154
AYT66974.1|4460038_4460644_-|tail	phage tail protein	tail	A0A1S6L000	Salmonella_phage	92.0	2.0e-110
AYT66975.1|4460636_4461545_-|plate	phage baseplate assembly protein	plate	E5G6N8	Salmonella_phage	97.0	5.2e-155
AYT66976.1|4461531_4461891_-|plate	phage baseplate assembly protein	plate	A0A1S6KZZ4	Salmonella_phage	96.6	6.8e-58
AYT66977.1|4461887_4462466_-|plate	phage baseplate assembly protein	plate	E5G6N6	Salmonella_phage	99.5	3.9e-108
AYT66978.1|4462534_4462981_-|tail	phage tail protein	tail	A0A1S6L001	Salmonella_phage	90.4	2.2e-66
AYT66979.1|4462973_4463405_-|tail	phage tail protein	tail	A0A1S6KZY0	Salmonella_phage	98.6	2.5e-75
AYT66980.1|4463500_4463926_-	regulatory protein	NA	A0A1S6KZX8	Salmonella_phage	97.9	2.5e-67
AYT66981.1|4463925_4464303_-	hypothetical protein	NA	A0A1S6KZZ2	Salmonella_phage	99.2	1.5e-60
AYT66982.1|4464307_4464778_-	lysozyme	NA	A0A1S6KZY9	Salmonella_phage	97.4	1.0e-85
AYT66983.1|4464797_4465013_-	hypothetical protein	NA	E5G6N0	Salmonella_phage	98.6	3.8e-32
AYT66984.1|4465016_4465220_-|tail	phage tail protein	tail	E5G6M9	Salmonella_phage	100.0	3.8e-34
AYT66985.1|4465219_4465684_-|capsid	capsid completion protein	capsid	A0A1S6KZW8	Salmonella_phage	98.1	2.4e-84
AYT66986.1|4465777_4466428_-|terminase	phage terminase	terminase	E5G6M7	Salmonella_phage	99.5	2.4e-114
AYT66987.1|4466431_4467496_-|capsid	major capsid protein	capsid	A0A1S6KZZ3	Salmonella_phage	98.3	1.3e-194
AYT66988.1|4467512_4468346_-|capsid	capsid scaffolding protein	capsid	E5G6M5	Salmonella_phage	87.4	6.1e-126
AYT66989.1|4468488_4470255_+|terminase	terminase subunit	terminase	A0A1S6KZW3	Salmonella_phage	96.4	0.0e+00
AYT66990.1|4470251_4471298_+|capsid,portal	capsid portal protein	capsid,portal	A0A1S6KZW5	Salmonella_phage	86.6	2.1e-176
AYT66991.1|4471346_4472042_-	hypothetical protein	NA	NA	NA	NA	NA
AYT66992.1|4472061_4473126_-	hypothetical protein	NA	NA	NA	NA	NA
AYT66993.1|4473122_4474187_-	hypothetical protein	NA	NA	NA	NA	NA
AYT66994.1|4475111_4475441_-	hypothetical protein	NA	A0A1S6L028	Salmonella_phage	90.8	6.2e-50
AYT66995.1|4475437_4477507_-	bacteriophage replication protein A	NA	A0A1S6L028	Salmonella_phage	95.9	0.0e+00
AYT66996.1|4477497_4478358_-	DNA adenine methylase	NA	E5G6L8	Salmonella_phage	81.8	3.4e-132
AYT66997.1|4478354_4478939_-	exonuclease	NA	A0A1S6L012	Salmonella_phage	73.7	1.1e-76
AYT66998.1|4478935_4479163_-	hypothetical protein	NA	A0A1S6L007	Salmonella_phage	94.7	1.0e-35
AYT66999.1|4479162_4479396_-	hypothetical protein	NA	A0A1S6L021	Salmonella_phage	84.4	9.8e-26
AYT67000.1|4479463_4479805_-	hypothetical protein	NA	A0A1S6L019	Salmonella_phage	99.1	4.6e-56
AYT67001.1|4479768_4479969_-	hypothetical protein	NA	A0A1S6L005	Salmonella_phage	97.0	4.6e-32
AYT67002.1|4479976_4480486_-	phage regulatory protein	NA	A0A1S6L008	Salmonella_phage	94.1	1.3e-83
AYT67003.1|4480518_4480761_-	phage regulatory protein	NA	A0A1S6KZZ6	Salmonella_phage	98.8	2.3e-38
AYT67004.1|4480877_4481510_+	phage repressor protein cI	NA	A0A1S6KZZ7	Salmonella_phage	58.6	1.4e-66
AYT67005.1|4481513_4482539_+|integrase	phage integrase	integrase	A0A1S6L016	Salmonella_phage	98.2	2.7e-200
AYT67006.1|4482645_4482999_-	protein samA'	NA	I6S1S3	Salmonella_phage	59.3	6.7e-10
AYT67007.1|4483615_4483903_+	hypothetical protein	NA	NA	NA	NA	NA
AYT67008.1|4483913_4484804_+	methyltransferase	NA	NA	NA	NA	NA
AYT67009.1|4484803_4485550_+	hypothetical protein	NA	NA	NA	NA	NA
AYT67010.1|4485851_4487822_-	Vi polysaccharide exporter protein	NA	NA	NA	NA	NA
AYT67011.1|4487841_4489146_-	Vi polysaccharide exporter inner-membrane protein	NA	NA	NA	NA	NA
AYT67012.1|4489168_4489864_-	Vi polysaccharide exporter ATP-binding protein	NA	NA	NA	NA	NA
AYT67013.1|4489889_4490684_-	Vi polysaccharide exporter inner-membrane protein	NA	NA	NA	NA	NA
AYT67014.1|4490693_4491761_-	Vi polysaccharide exporter protein	NA	NA	NA	NA	NA
AYT67015.1|4491805_4493542_-	Vi polysaccharide biosynthesis protein TviE	NA	NA	NA	NA	NA
AYT67016.1|4493541_4496037_-	Vi polysaccharide biosynthesis protein	NA	NA	NA	NA	NA
AYT67017.1|4496060_4497107_-	Vi polysaccharide biosynthesis epimerase	NA	A0A2K9L0I7	Tupanvirus	45.0	1.4e-74
AYT67018.1|4497109_4498387_-	Vi polysaccharide biosynthesis UDP-glucose/GDP-mannose dehydrogenase	NA	M1HYW7	Paramecium_bursaria_Chlorella_virus	26.7	1.3e-21
AYT67019.1|4498631_4499171_-	Vi polysaccharide biosynthesis protein	NA	NA	NA	NA	NA
AYT67020.1|4500024_4501536_+	DNA helicase	NA	A0A126DN25	Acinetobacter_phage	29.0	2.0e-42
AYT67021.1|4501519_4503109_+	hypothetical protein	NA	NA	NA	NA	NA
AYT67022.1|4503272_4504286_+|integrase	phage integrase	integrase	NA	NA	NA	NA
4504463:4504479	attL	GTGGTGCCCGGACTCGG	NA	NA	NA	NA
AYT67023.1|4504712_4505006_+	hypothetical protein	NA	NA	NA	NA	NA
AYT67024.1|4505002_4505491_+	hypothetical protein	NA	NA	NA	NA	NA
AYT67025.1|4505670_4506123_-	hypothetical protein	NA	NA	NA	NA	NA
AYT67026.1|4511345_4511807_+	hypothetical protein	NA	NA	NA	NA	NA
AYT67027.1|4511803_4512025_+	transcriptional regulator	NA	A0A2I7S995	Vibrio_phage	58.3	4.6e-17
AYT67028.1|4512881_4513664_+	hypothetical protein	NA	NA	NA	NA	NA
AYT67029.1|4514290_4514515_-	hypothetical protein	NA	NA	NA	NA	NA
AYT67030.1|4514644_4515556_-	hypothetical protein	NA	NA	NA	NA	NA
AYT67031.1|4515866_4517126_-|integrase	bacteriophage integrase	integrase	B7SYF8	Stenotrophomonas_phage	41.7	3.2e-78
4517285:4517301	attR	GTGGTGCCCGGACTCGG	NA	NA	NA	NA
>prophage 12
CP029872	Salmonella enterica subsp. enterica serovar Typhi strain 343077_214135 chromosome, complete genome	4783204	4659378	4669637	4783204	capsid	Enterobacteria_phage(77.78%)	13	NA	NA
AYT67168.1|4659378_4660455_-	protein kinase	NA	A0A2H4UU60	Bodo_saltans_virus	28.2	7.8e-17
AYT67169.1|4660451_4661525_-	protein kinase	NA	G9BWE0	Planktothrix_phage	44.7	6.5e-56
AYT67170.1|4661499_4662663_-	hypothetical protein	NA	NA	NA	NA	NA
AYT67171.1|4662938_4663505_-	phage polarity suppression protein	NA	Q7M2A1	Enterobacteria_phage	64.9	1.8e-60
AYT67172.1|4663520_4663760_-	hypothetical protein	NA	Q7M294	Enterobacteria_phage	60.5	3.7e-20
AYT67173.1|4663763_4664624_-|capsid	phage capsid protein	capsid	NA	NA	NA	NA
AYT67174.1|4665046_4665370_+	phage DNA binding protein	NA	Q7M299	Enterobacteria_phage	70.0	3.6e-26
AYT67175.1|4665353_4665854_+	hypothetical protein	NA	Q7M2A7	Enterobacteria_phage	70.4	9.8e-31
AYT67176.1|4665850_4666078_+	hypothetical protein	NA	NA	NA	NA	NA
AYT67177.1|4666074_4666395_+	P4 phage protein	NA	NA	NA	NA	NA
AYT67178.1|4666409_4667084_+	bacteriophage P4 DNA primase	NA	Q7M2A8	Enterobacteria_phage	75.1	1.4e-85
AYT67179.1|4667080_4668742_+	hypothetical protein	NA	Q7M2A8	Enterobacteria_phage	90.2	1.9e-296
AYT67180.1|4669478_4669637_+	recombinase	NA	Q7M297	Enterobacteria_phage	57.4	3.9e-10
>prophage 1
CP029871	Salmonella enterica subsp. enterica serovar Typhi strain 343077_214135 plasmid pK91, complete sequence	91848	2968	79021	91848	transposase,protease	Escherichia_phage(28.12%)	76	NA	NA
AYT62981.1|2968_4045_+|transposase	transposase of ISEc21	transposase	NA	NA	NA	NA
AYT62982.1|4447_6538_-|protease	Lon protease	protease	NA	NA	NA	NA
AYT62983.1|6554_9212_-	hypothetical protein	NA	NA	NA	NA	NA
AYT62984.1|9211_12841_-	Type I restriction-modification system methyltransferase subunit	NA	NA	NA	NA	NA
AYT62985.1|12856_14620_-	hypothetical protein	NA	NA	NA	NA	NA
AYT62986.1|14636_18314_-	hypothetical protein	NA	NA	NA	NA	NA
AYT62987.1|18332_18917_-	hypothetical protein	NA	NA	NA	NA	NA
AYT62988.1|18913_19513_-	hypothetical protein	NA	NA	NA	NA	NA
AYT62989.1|19522_20410_-	hypothetical protein	NA	NA	NA	NA	NA
AYT62990.1|20517_20928_-	hypothetical protein	NA	NA	NA	NA	NA
AYT62991.1|21269_21947_-|transposase	transposase	transposase	S5WIU1	Leptospira_phage	43.2	2.2e-41
AYT62992.1|23049_23445_+|transposase	transposase	transposase	Q76S41	Shigella_phage	75.4	1.4e-43
AYT62993.1|23447_24284_+|transposase	transposase InsF for insertion sequence IS3A/B/C/D/E/fA	transposase	Q9ZXG3	Shigella_phage	62.7	4.3e-95
AYT62994.1|24280_24625_-	hypothetical protein	NA	NA	NA	NA	NA
AYT62995.1|25137_26856_-	histidine kinase	NA	A0A1V0SGX0	Hokovirus	27.8	2.1e-27
AYT62996.1|26852_27341_-	hypothetical protein	NA	NA	NA	NA	NA
AYT62997.1|27333_28317_-	hypothetical protein	NA	NA	NA	NA	NA
AYT62998.1|28320_29235_-	response regulator receiver protein	NA	NA	NA	NA	NA
AYT62999.1|29548_29857_+	hypothetical protein	NA	NA	NA	NA	NA
AYT63000.1|29849_30065_+	hypothetical protein	NA	NA	NA	NA	NA
AYT63001.1|30067_30730_+	type IV secretory pathway VirB1 component	NA	NA	NA	NA	NA
AYT63002.1|30740_31040_+	conjugal transfer protein TrbC	NA	NA	NA	NA	NA
AYT63003.1|31049_33800_+	ATPase	NA	NA	NA	NA	NA
AYT63004.1|33818_34535_+	TriD protein	NA	NA	NA	NA	NA
AYT63005.1|34546_34831_+	hypothetical protein	NA	NA	NA	NA	NA
AYT63006.1|34848_35856_+	TriE protein	NA	NA	NA	NA	NA
AYT63007.1|36065_36752_+	TriG protein	NA	NA	NA	NA	NA
AYT63008.1|36744_37638_+	P-type conjugative transfer protein VirB9	NA	NA	NA	NA	NA
AYT63009.1|37634_38831_+	TriI protein	NA	NA	NA	NA	NA
AYT63010.1|38834_39884_+	P-type DNA transfer ATPase VirB11	NA	NA	NA	NA	NA
AYT63011.1|39870_40272_+	hypothetical protein	NA	NA	NA	NA	NA
AYT63012.1|40362_40680_+	killer protein	NA	NA	NA	NA	NA
AYT63013.1|40706_41042_+	hypothetical protein	NA	NA	NA	NA	NA
AYT63014.1|41017_41326_+	hypothetical protein	NA	NA	NA	NA	NA
AYT63015.1|41322_43524_+	DNA topoisomerase III	NA	NA	NA	NA	NA
AYT63016.1|43520_43913_+	DNA binding protein	NA	NA	NA	NA	NA
AYT63017.1|44621_46529_+	type IV conjugative transfer system protein TraD	NA	NA	NA	NA	NA
AYT63018.1|46543_47290_+	mobilization protein	NA	NA	NA	NA	NA
AYT63019.1|47282_47810_+	Endonuclease	NA	A0A1B2LRT6	Wolbachia_phage	39.5	2.8e-20
AYT63020.1|47841_48273_-	hypothetical protein	NA	NA	NA	NA	NA
AYT63021.1|48752_49718_-	DNA primase TraC	NA	A0A1V0EEV1	Caulobacter_phage	42.7	1.3e-58
AYT63022.1|50169_50595_+	Error-prone repair protein UmuD	NA	A0A1W6JNS2	Morganella_phage	50.4	2.9e-31
AYT63023.1|50594_51866_+	protein UmuC	NA	F1C5A5	Cronobacter_phage	63.7	5.6e-155
AYT63024.1|51926_52196_+	Orf44	NA	NA	NA	NA	NA
AYT63025.1|52249_52555_+	hypothetical protein	NA	NA	NA	NA	NA
AYT63026.1|53201_54176_-	plasmid partitioning protein	NA	I3WF22	Macacine_betaherpesvirus	89.7	1.7e-156
AYT63027.1|54172_55348_-	plasmid partition protein SopA	NA	A0A2I6B2X3	Macacine_betaherpesvirus	97.4	2.8e-225
AYT63028.1|56067_57090_+	hypothetical protein	NA	J9Q7H0	Salmonella_phage	53.9	6.8e-87
AYT63029.1|57255_57717_-	hypothetical protein	NA	A0A1B0V7H9	Salmonella_phage	57.1	5.9e-38
AYT63030.1|57847_59047_-|transposase	IS1294 transposase	transposase	NA	NA	NA	NA
AYT63031.1|59259_59973_-|transposase	transposase	transposase	Q1MVF0	Enterobacteria_phage	86.5	2.6e-109
AYT63032.1|60170_60461_+	hypothetical protein	NA	A0A077SK55	Escherichia_phage	87.3	1.8e-32
AYT63033.1|60530_60797_+	hypothetical protein	NA	NA	NA	NA	NA
AYT63034.1|60799_61048_+	DNA polymerase III subunit theta	NA	Q71T70	Escherichia_phage	85.4	2.8e-31
AYT63035.1|61156_61552_+	DNA polymerase V subunit	NA	Q1MVE7	Enterobacteria_phage	76.2	2.1e-52
AYT63036.1|61624_61846_+	antitoxin of P1 addiction system	NA	A0A222YXU1	Escherichia_phage	100.0	6.7e-32
AYT63037.1|61845_62226_+	death on curing protein	NA	Q71T66	Escherichia_phage	90.3	1.8e-56
AYT63038.1|62309_63110_-	hypothetical protein	NA	A0A222YXM9	Escherichia_phage	71.1	9.4e-92
AYT63039.1|63123_63618_-	deoxyuridine 5'-triphosphate nucleotidohydrolase	NA	A0A222YYP1	Escherichia_phage	88.4	1.5e-79
AYT63040.1|63610_64102_-	hypothetical protein	NA	NA	NA	NA	NA
AYT63041.1|64098_64353_-	hypothetical protein	NA	Q5QBE7	Escherichia_phage	75.0	2.1e-29
AYT63042.1|64515_65544_-	site-specific tyrosine recombinase XerC	NA	Q5XLQ5	Enterobacteria_phage	42.1	1.1e-60
AYT63043.1|65941_66979_+	hypothetical protein	NA	NA	NA	NA	NA
AYT63044.1|67006_67834_-	replication initiator protein	NA	Q71T61	Escherichia_phage	50.4	8.0e-62
AYT63045.1|67806_68529_+|transposase	IS6 family transposase	transposase	A0A077SL39	Escherichia_phage	100.0	3.2e-139
AYT63046.1|68635_69226_+	hypothetical protein	NA	NA	NA	NA	NA
AYT63047.1|69362_69935_+	resolvase-like protein	NA	M9Q1K0	Clostridium_phage	39.4	3.4e-19
AYT63048.1|69968_71363_+	hypothetical protein	NA	NA	NA	NA	NA
AYT63049.1|71386_71824_+	resolvase protein	NA	A0A219YB42	Aeromonas_phage	43.8	5.2e-20
AYT63050.1|72142_72799_-	quinolone resistance protein	NA	NA	NA	NA	NA
AYT63051.1|73166_73358_+|transposase	IS2 transposase	transposase	Q76S41	Shigella_phage	72.2	3.2e-14
AYT63052.1|73367_73562_+|transposase	transposase	transposase	Q76S41	Shigella_phage	82.8	2.7e-21
AYT63053.1|73690_74227_+	IS2 resolvase	NA	Q9ZXG3	Shigella_phage	69.7	1.2e-69
AYT63054.1|74251_77257_-|transposase	transposase	transposase	Q1MVP5	Enterobacteria_phage	100.0	0.0e+00
AYT63055.1|77420_77978_+	TnpR	NA	Q1MVP4	Enterobacteria_phage	100.0	7.0e-94
AYT63056.1|78160_79021_+	beta-lactamase	NA	Q1MVP3	Enterobacteria_phage	100.0	4.6e-161
