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
NZ_LT905063	Salmonella enterica subsp. enterica serovar Typhi isolate lupe_GEN0059-sc-1979081 chromosome 1	4795199	739087	775199	4795199	protease,bacteriocin,transposase,tRNA,integrase	Acinetobacter_phage(33.33%)	39	728720:728734	762477:762491
728720:728734	attL	CCATGCCAGCATCAA	NA	NA	NA	NA
WP_000421096.1|739087_739366_-|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
WP_000768134.1|739608_739875_-|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
WP_001141622.1|739871_740189_-	PAAR domain-containing protein	NA	NA	NA	NA	NA
WP_014341481.1|741309_741654_-|integrase	integrase	integrase	NA	NA	NA	NA
WP_001681938.1|741838_742123_-	DUF4102 domain-containing protein	NA	A0A0P0IRB7	Acinetobacter_phage	35.2	3.2e-10
WP_000234466.1|742464_743172_-	DUF554 domain-containing protein	NA	NA	NA	NA	NA
WP_001049802.1|745782_747039_-	nucleoside permease	NA	NA	NA	NA	NA
WP_000976287.1|747255_748341_-	membrane-bound lytic murein transglycosylase MltC	NA	A0A0H3V0Q1	Geobacillus_virus	39.0	5.8e-12
WP_000091706.1|748453_748729_-	oxidative damage protection protein	NA	NA	NA	NA	NA
WP_001148958.1|748756_749809_-	A/G-specific adenine glycosylase	NA	NA	NA	NA	NA
WP_000786887.1|749963_750683_+|tRNA	tRNA (guanosine(46)-N7)-methyltransferase TrmB	tRNA	NA	NA	NA	NA
WP_001107559.1|750682_751009_+	YggL family protein	NA	NA	NA	NA	NA
WP_000984827.1|751058_751778_+	DUF2884 domain-containing protein	NA	NA	NA	NA	NA
WP_000502119.1|751900_752359_-|transposase	IS200/IS605-like element IS200F family transposase	transposase	NA	NA	NA	NA
WP_000394189.1|752677_753724_+	L-asparaginase 2	NA	NA	NA	NA	NA
WP_000252198.1|753856_754864_+	DUF1202 domain-containing protein	NA	NA	NA	NA	NA
WP_001096530.1|754954_756091_-	radical SAM family heme chaperone HemW	NA	NA	NA	NA	NA
WP_001174773.1|756083_756677_-	XTP/dITP diphosphatase	NA	NA	NA	NA	NA
WP_001277205.1|756684_756975_-	YggU family protein	NA	NA	NA	NA	NA
WP_001094848.1|756971_757538_-	YggT family protein	NA	NA	NA	NA	NA
WP_000997790.1|757556_758261_-	YggS family pyridoxal phosphate-dependent enzyme	NA	NA	NA	NA	NA
WP_001055657.1|758278_759259_+	type IV pilus twitching motility protein PilT	NA	NA	NA	NA	NA
WP_000098333.1|759388_760075_+	global regulatory protein	NA	NA	NA	NA	NA
WP_001285491.1|760121_760538_-	Holliday junction resolvase RuvX	NA	NA	NA	NA	NA
WP_001053167.1|760537_761101_-	YqgE/AlgH family protein	NA	NA	NA	NA	NA
WP_000593242.1|761316_762264_-	glutathione synthase	NA	NA	NA	NA	NA
WP_001800534.1|762283_763015_-	16S rRNA (uracil(1498)-N(3))-methyltransferase	NA	NA	NA	NA	NA
762477:762491	attR	TTGATGCTGGCATGG	NA	NA	NA	NA
WP_000286121.1|763091_763799_-	deoxyribonuclease I	NA	NA	NA	NA	NA
WP_000856775.1|763894_764392_-|protease	SprT family zinc-dependent metalloprotease	protease	NA	NA	NA	NA
WP_001113171.1|764470_765865_-	galactose/proton symporter	NA	NA	NA	NA	NA
WP_001062140.1|766357_767512_-	methionine adenosyltransferase	NA	A0A2H4PQS6	Staphylococcus_phage	63.9	1.5e-130
WP_001803086.1|767567_767867_+	hypothetical protein	NA	NA	NA	NA	NA
WP_077905074.1|767863_768028_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000729109.1|768161_768293_+	acid stress response protein YqgB	NA	NA	NA	NA	NA
WP_001278580.1|768301_770278_+	biosynthetic arginine decarboxylase	NA	NA	NA	NA	NA
WP_000105550.1|770505_771426_+	agmatinase	NA	NA	NA	NA	NA
WP_000701830.1|771526_772285_-	M48 family metallopeptidase	NA	NA	NA	NA	NA
WP_000098658.1|772560_774552_+	transketolase	NA	NA	NA	NA	NA
WP_000502119.1|774740_775199_+|transposase	IS200/IS605-like element IS200F family transposase	transposase	NA	NA	NA	NA
>prophage 2
NZ_LT905063	Salmonella enterica subsp. enterica serovar Typhi isolate lupe_GEN0059-sc-1979081 chromosome 1	4795199	1047612	1125335	4795199	tail,tRNA,integrase	Salmonella_phage(26.92%)	68	1120813:1120828	1132170:1132185
WP_000047238.1|1047612_1050243_+|tRNA	alanine--tRNA ligase	tRNA	A0A1V0SK38	Klosneuvirus	38.3	3.5e-79
WP_000906486.1|1050477_1050663_+	carbon storage regulator CsrA	NA	A0A2I7RT00	Vibrio_phage	66.7	4.9e-12
WP_000271296.1|1052061_1052628_+	fructose-1-phosphate/6-phosphogluconate phosphatase	NA	M1I5S4	Acanthocystis_turfacea_Chlorella_virus	27.6	7.2e-14
WP_001279499.1|1052624_1053050_+	DedA family protein	NA	NA	NA	NA	NA
WP_000611827.1|1053126_1054683_+	glutamate--cysteine ligase	NA	NA	NA	NA	NA
WP_001130194.1|1054832_1055348_+	S-ribosylhomocysteine lyase	NA	NA	NA	NA	NA
WP_000645128.1|1055693_1057064_+	carbohydrate porin	NA	NA	NA	NA	NA
WP_001187289.1|1057112_1058651_-	multidrug efflux MFS transporter permease subunit EmrB	NA	NA	NA	NA	NA
WP_001275597.1|1058667_1059840_-	multidrug efflux MFS transporter periplasmic adaptor subunit EmrA	NA	NA	NA	NA	NA
WP_000378431.1|1059966_1060497_-	transcriptional repressor MprA	NA	NA	NA	NA	NA
WP_000165770.1|1060993_1062178_-	MFS transporter	NA	NA	NA	NA	NA
WP_001216613.1|1062342_1063338_-	glycine betaine/L-proline ABC transporter substrate-binding protein ProX	NA	NA	NA	NA	NA
WP_000775015.1|1063407_1064472_-	glycine betaine/L-proline ABC transporter permease ProW	NA	NA	NA	NA	NA
WP_000777898.1|1066020_1066980_-	class 1b ribonucleoside-diphosphate reductase subunit beta	NA	A0A0M4S3B4	Mycobacterium_phage	71.8	4.0e-129
WP_000201426.1|1066990_1069135_-	class 1b ribonucleoside-diphosphate reductase subunit alpha	NA	V9VI16	Lactococcus_phage	49.0	3.5e-194
WP_001275403.1|1069107_1069518_-	class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI	NA	A0A142F1R4	Bacillus_phage	41.8	4.3e-16
WP_000028873.1|1069514_1069760_-	glutaredoxin-like protein NrdH	NA	NA	NA	NA	NA
WP_000209805.1|1070031_1070463_-	carboxymuconolactone decarboxylase family protein	NA	NA	NA	NA	NA
WP_001519557.1|1071969_1072296_-	DUF883 domain-containing protein	NA	NA	NA	NA	NA
WP_000281304.1|1072457_1072808_+	YgaC family protein	NA	NA	NA	NA	NA
WP_000492647.1|1072842_1073292_-	L-alanine exporter AlaE	NA	NA	NA	NA	NA
WP_001051100.1|1073990_1074392_+	DNA-binding protein StpA	NA	NA	NA	NA	NA
WP_000022010.1|1074740_1075268_-	DUF2892 domain-containing protein	NA	NA	NA	NA	NA
WP_000137417.1|1075277_1075577_-	winged helix-turn-helix transcriptional regulator	NA	NA	NA	NA	NA
WP_000508175.1|1075759_1075918_+	YqaE/Pmp3 family membrane protein	NA	NA	NA	NA	NA
WP_000126152.1|1076488_1077166_-	DNA-binding transcriptional regulator CsiR	NA	NA	NA	NA	NA
WP_001095643.1|1078737_1080021_-	4-aminobutyrate--2-oxoglutarate transaminase	NA	A0A1V0SKB7	Klosneuvirus	31.4	1.2e-32
WP_001176534.1|1080035_1081484_-	NADP-dependent succinate-semialdehyde dehydrogenase	NA	NA	NA	NA	NA
WP_000271916.1|1081505_1082774_-	L-2-hydroxyglutarate oxidase	NA	NA	NA	NA	NA
WP_000993092.1|1082799_1083777_-	carbon starvation induced protein CsiD	NA	NA	NA	NA	NA
WP_000382024.1|1084079_1085594_-	tripartite tricarboxylate transporter permease	NA	NA	NA	NA	NA
WP_001574835.1|1085604_1086039_-	tripartite tricarboxylate transporter TctB family protein	NA	NA	NA	NA	NA
WP_000744418.1|1086050_1086860_-	tripartite tricarboxylate transporter substrate binding protein	NA	NA	NA	NA	NA
WP_001237936.1|1087014_1087689_+	transcriptional regulator TctD	NA	NA	NA	NA	NA
WP_000872343.1|1087675_1089091_+	sensor histidine kinase	NA	NA	NA	NA	NA
WP_000947097.1|1089331_1090237_+	HoxN/HupN/NixA family nickel/cobalt transporter	NA	NA	NA	NA	NA
WP_000701509.1|1090958_1091855_-	antimicrobial resistance protein Mig-14	NA	NA	NA	NA	NA
WP_000178741.1|1092148_1093078_-	VirK family antimicrobial peptide resistance protein	NA	NA	NA	NA	NA
WP_001801692.1|1093594_1094647_+	SPI-2 type III secretion system effector PipB2	NA	NA	NA	NA	NA
WP_077905756.1|1094821_1095154_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001682025.1|1095667_1097848_+	TonB-dependent siderophore receptor	NA	NA	NA	NA	NA
WP_000274373.1|1097907_1098825_-	alpha/beta hydrolase	NA	NA	NA	NA	NA
WP_001239947.1|1098856_1100101_-	esterase family protein	NA	NA	NA	NA	NA
WP_001111827.1|1100210_1103867_-	ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	28.6	1.0e-44
WP_001221113.1|1103947_1105063_-	salmochelin biosynthesis C-glycosyltransferase IroB	NA	NA	NA	NA	NA
WP_000905046.1|1105746_1106313_+	recombinase family protein	NA	A0A0F7LA37	Escherichia_phage	86.3	1.1e-86
WP_000046142.1|1106455_1107628_+|tail	phage tail sheath protein	tail	A0A1S6KZY7	Salmonella_phage	90.3	3.5e-204
WP_001207656.1|1107637_1108153_+|tail	phage major tail tube protein	tail	A0A1S6L002	Salmonella_phage	95.9	5.6e-90
WP_001280897.1|1108207_1108510_+|tail	phage tail assembly protein	tail	A0A1S6KZZ9	Salmonella_phage	89.0	7.0e-40
WP_000763311.1|1108524_1108644_+|tail	GpE family phage tail protein	tail	E5G6Q0	Salmonella_phage	87.2	2.8e-13
WP_001282793.1|1108636_1111714_+|tail	phage tail tape measure protein	tail	E5G6Q1	Salmonella_phage	63.0	0.0e+00
WP_000980381.1|1111710_1112196_+|tail	phage tail protein	tail	E5G6Q2	Salmonella_phage	80.0	2.4e-66
WP_001011760.1|1112192_1113293_+	phage late control D family protein	NA	A0A1S6KZZ5	Salmonella_phage	88.3	1.0e-176
WP_000972389.1|1113383_1113602_+	ogr/Delta-like zinc finger family protein	NA	Q53ZE7	Salmonella_virus	71.9	1.9e-18
WP_000380485.1|1113863_1114037_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000151542.1|1114005_1114779_+	reverse transcriptase	NA	NA	NA	NA	NA
WP_000783673.1|1115402_1117736_-	toprim domain-containing protein	NA	Q7M2A8	Enterobacteria_phage	99.0	0.0e+00
WP_000856729.1|1117750_1118071_-	DUF5375 domain-containing protein	NA	NA	NA	NA	NA
WP_000459302.1|1118206_1118662_-	hypothetical protein	NA	Q7M298	Enterobacteria_phage	99.1	1.6e-64
WP_001244665.1|1118654_1118942_-	hypothetical protein	NA	Q7M2A0	Enterobacteria_phage	97.9	8.6e-48
WP_000980224.1|1118934_1119525_-	host cell division inhibitor Icd-like protein	NA	Q7M2A7	Enterobacteria_phage	90.3	5.3e-60
WP_001149156.1|1119521_1119788_-	AlpA family transcriptional regulator	NA	Q7M299	Enterobacteria_phage	98.9	6.3e-45
WP_001283036.1|1120339_1121074_+	hypothetical protein	NA	Q7M2A2	Enterobacteria_phage	99.2	1.2e-130
1120813:1120828	attL	CGCCAACACCACCGGC	NA	NA	NA	NA
WP_021038238.1|1121070_1121571_+	ogr/Delta-like zinc finger family protein	NA	NA	NA	NA	NA
WP_000446132.1|1121644_1122217_+	Polarity suppression protein	NA	Q7M2A1	Enterobacteria_phage	97.3	2.2e-95
WP_000868779.1|1122536_1123358_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001269066.1|1123354_1124101_+	hypothetical protein	NA	S5W9H2	Leptospira_phage	42.6	3.0e-07
WP_000124721.1|1124135_1125335_-|integrase	tyrosine-type recombinase/integrase	integrase	A0A1B5FPC6	Escherichia_phage	50.6	4.8e-108
1132170:1132185	attR	GCCGGTGGTGTTGGCG	NA	NA	NA	NA
>prophage 3
NZ_LT905063	Salmonella enterica subsp. enterica serovar Typhi isolate lupe_GEN0059-sc-1979081 chromosome 1	4795199	1419384	1425414	4795199		Salmonella_virus(50.0%)	6	NA	NA
WP_106417237.1|1419384_1419531_+	hypothetical protein	NA	A0A1R3Y5S2	Salmonella_virus	73.9	1.1e-14
WP_106417236.1|1419546_1419690_+	hypothetical protein	NA	A0A1R3Y5S2	Salmonella_virus	87.8	9.0e-14
WP_000400611.1|1420679_1422602_-	acyltransferase	NA	A0A1R3Y5Q6	Salmonella_virus	77.2	5.6e-300
WP_000703599.1|1422618_1422873_-	glycosyltransferase	NA	A8CG95	Salmonella_phage	79.5	3.1e-25
WP_001682026.1|1422841_1423231_-	GtrA family protein	NA	A0A192Y6N5	Salmonella_phage	91.5	6.9e-56
WP_000377769.1|1424472_1425414_-	formate/nitrite transporter family protein	NA	E7DYY8	Enterobacteria_phage	88.2	2.4e-147
>prophage 4
NZ_LT905063	Salmonella enterica subsp. enterica serovar Typhi isolate lupe_GEN0059-sc-1979081 chromosome 1	4795199	1744981	1755488	4795199		Enterobacteria_phage(37.5%)	10	NA	NA
WP_001111852.1|1744981_1746385_+	colanic acid biosynthesis protein WcaM	NA	A0A291LBB9	Klebsiella_phage	26.5	1.1e-21
WP_000981469.1|1746562_1747456_+	GalU regulator GalF	NA	A0A127AW70	Bacillus_phage	42.2	4.8e-44
WP_000697846.1|1747832_1748918_+	dTDP-glucose 4,6-dehydratase	NA	I7HTA3	Enterobacteria_phage	53.9	1.6e-102
WP_001023656.1|1748917_1749817_+	dTDP-4-dehydrorhamnose reductase	NA	A0A291LA50	Escherichia_phage	36.3	7.9e-31
WP_000857536.1|1749864_1750743_+	glucose-1-phosphate thymidylyltransferase RfbA	NA	I7I009	Enterobacteria_phage	64.8	2.3e-107
WP_000973711.1|1750743_1751295_+	dTDP-4-dehydrorhamnose 3,5-epimerase	NA	I7HJC4	Enterobacteria_phage	58.6	7.7e-53
WP_000018220.1|1751300_1752275_+	CDP-6-deoxy-delta-3,4-glucoseen reductase	NA	NA	NA	NA	NA
WP_000648783.1|1752290_1753064_+	glucose-1-phosphate cytidylyltransferase	NA	NA	NA	NA	NA
WP_000565909.1|1753068_1754148_+	CDP-glucose 4,6-dehydratase	NA	A0A222YY99	Synechococcus_phage	24.1	1.3e-16
WP_000126347.1|1754174_1755488_+	lipopolysaccharide biosynthesis protein RfbH	NA	H8ZJ36	Ostreococcus_tauri_virus	35.1	7.0e-52
>prophage 5
NZ_LT905063	Salmonella enterica subsp. enterica serovar Typhi isolate lupe_GEN0059-sc-1979081 chromosome 1	4795199	2072706	2077118	4795199		Escherichia_phage(50.0%)	6	NA	NA
WP_000281950.1|2072706_2073120_+	subtilase cytotoxin subunit B	NA	A0A0U2KD34	Escherichia_phage	38.6	1.4e-19
WP_001766395.1|2073136_2073865_+	pertussis-like toxin subunit ArtA	NA	A0A0U2KD26	Escherichia_phage	53.3	4.9e-63
WP_000158843.1|2074056_2074599_+	glycoside hydrolase family 108 protein	NA	A0A0U2S643	Escherichia_phage	67.0	6.2e-71
WP_001277616.1|2074746_2075124_-	DUF1353 domain-containing protein	NA	I1TQ41	Pseudomonas_phage	38.4	2.2e-14
WP_001529135.1|2075196_2076006_-	cytolethal distending toxin S-CDT	NA	A5LH53	Enterobacteria_phage	50.0	2.1e-62
WP_000497459.1|2076878_2077118_-	virulence protein MsgA	NA	K7P6H1	Enterobacteria_phage	87.3	5.5e-32
>prophage 6
NZ_LT905063	Salmonella enterica subsp. enterica serovar Typhi isolate lupe_GEN0059-sc-1979081 chromosome 1	4795199	2258153	2322436	4795199	plate,tail,transposase,tRNA,capsid,integrase	Burkholderia_virus(44.44%)	72	2297582:2297598	2330595:2330611
WP_000168626.1|2258153_2259428_+|tRNA	tyrosine--tRNA ligase	tRNA	K4F5T3	Cronobacter_phage	42.1	1.6e-85
WP_000765713.1|2260176_2260782_-	glutathione transferase GstA	NA	NA	NA	NA	NA
WP_000100913.1|2260886_2262392_-	dipeptide/tripeptide permease DtpA	NA	NA	NA	NA	NA
WP_001030324.1|2262992_2263628_-	endonuclease III	NA	NA	NA	NA	NA
WP_001289628.1|2263627_2264320_-	electron transport complex subunit E	NA	NA	NA	NA	NA
WP_000920820.1|2264322_2264943_-	electron transport complex subunit RsxG	NA	NA	NA	NA	NA
WP_000231887.1|2264946_2266005_-	electron transport complex subunit RsxD	NA	NA	NA	NA	NA
WP_050188547.1|2266005_2268027_-	electron transport complex subunit RsxC	NA	NA	NA	NA	NA
WP_001092600.1|2268019_2268598_-	electron transport complex subunit RsxB	NA	NA	NA	NA	NA
WP_000133179.1|2268597_2269179_-	electron transport complex subunit RsxA	NA	NA	NA	NA	NA
WP_000214061.1|2269255_2269696_-	DUF2569 domain-containing protein	NA	NA	NA	NA	NA
WP_000217946.1|2269784_2270000_-	transcription modulator YdgT	NA	NA	NA	NA	NA
WP_031608772.1|2270298_2270424_-	division septum protein Blr	NA	NA	NA	NA	NA
WP_000998242.1|2270631_2271672_+	oxidoreductase	NA	NA	NA	NA	NA
WP_000565566.1|2271745_2272747_-	adenosine deaminase	NA	NA	NA	NA	NA
WP_000753325.1|2273452_2274961_-	YdgA family protein	NA	NA	NA	NA	NA
WP_001170615.1|2275063_2276239_-	mannose-6-phosphate isomerase	NA	NA	NA	NA	NA
WP_050188548.1|2276438_2278085_+	class I fumarate hydratase	NA	NA	NA	NA	NA
WP_000259129.1|2278252_2279656_+	class II fumarate hydratase	NA	NA	NA	NA	NA
WP_000092483.1|2279652_2280582_-	DNA replication terminus site-binding protein	NA	NA	NA	NA	NA
WP_001681605.1|2280657_2281959_-	two-component system sensor histidine kinase RstB	NA	W8CYF6	Bacillus_phage	22.7	5.7e-14
WP_000928668.1|2282069_2283776_-	amidohydrolase	NA	NA	NA	NA	NA
WP_000824321.1|2283928_2285080_-	porin OmpS2	NA	Q1MVN1	Enterobacteria_phage	59.1	3.2e-117
WP_001080045.1|2285560_2286292_-	two-component system response regulator RstA	NA	NA	NA	NA	NA
WP_000524877.1|2286418_2286754_+	GlpM family protein	NA	NA	NA	NA	NA
WP_000412353.1|2286815_2288198_-	amino acid permease	NA	NA	NA	NA	NA
WP_001165548.1|2288478_2289051_-	recombinase family protein	NA	A0A0A7NPV4	Enterobacteria_phage	84.7	8.8e-84
WP_000852584.1|2292657_2293236_-|tail	phage tail protein I	tail	A4JWL7	Burkholderia_virus	65.8	6.4e-66
WP_001219103.1|2293228_2294332_-|plate	baseplate J/gp47 family protein	plate	Q6QI99	Burkholderia_phage	54.3	5.4e-106
WP_000859114.1|2294322_2294670_-	GPW/gp25 family protein	NA	Q6QIA0	Burkholderia_phage	60.6	8.6e-34
WP_000148263.1|2294726_2295254_-|plate	phage baseplate assembly protein V	plate	Q6QIA1	Burkholderia_phage	46.5	1.5e-21
WP_000808000.1|2295250_2296405_-	phage late control D family protein	NA	Q6QIA2	Burkholderia_phage	47.1	4.7e-84
WP_000478221.1|2296392_2296605_-|tail	tail protein X	tail	Q6QIA3	Burkholderia_phage	60.0	2.4e-18
WP_000458383.1|2296604_2297489_-|tail	phage tail protein	tail	A4JWL1	Burkholderia_virus	47.0	7.5e-50
WP_000135574.1|2297488_2299954_-|tail	phage tail tape measure protein	tail	A4JWL0	Burkholderia_virus	42.6	2.2e-168
2297582:2297598	attL	GGCAGGCGCTGCGGTTT	NA	NA	NA	NA
WP_001148841.1|2300047_2300185_-|tail	GpE family phage tail protein	tail	NA	NA	NA	NA
WP_000084228.1|2300129_2300465_-|tail	phage tail assembly protein	tail	NA	NA	NA	NA
WP_000110118.1|2300562_2300844_-	hypothetical protein	NA	NA	NA	NA	NA
WP_162828734.1|2300846_2301371_-|tail	phage major tail tube protein	tail	A4JWK6	Burkholderia_virus	67.2	4.7e-68
WP_000729859.1|2301367_2302795_-|tail	phage tail sheath subtilisin-like domain-containing protein	tail	A4JWK5	Burkholderia_virus	77.4	3.7e-216
WP_000666498.1|2302784_2303036_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001101804.1|2303035_2303500_-	hypothetical protein	NA	Q6QIB2	Burkholderia_phage	51.7	9.1e-39
WP_000271668.1|2303499_2303946_-	DUF1320 domain-containing protein	NA	A4JWK2	Burkholderia_virus	52.3	2.2e-34
WP_000537457.1|2303947_2304286_-	DUF2190 family protein	NA	NA	NA	NA	NA
WP_001286905.1|2304295_2305249_-	hypothetical protein	NA	A4JWK0	Burkholderia_virus	44.5	5.2e-65
WP_001273072.1|2305263_2306379_-	hypothetical protein	NA	A4JWJ9	Burkholderia_virus	51.1	7.9e-97
WP_000135517.1|2306593_2307052_-	phage virion morphogenesis protein	NA	Q6QIB8	Burkholderia_phage	44.8	1.5e-30
WP_000117561.1|2307054_2307876_-|capsid	minor capsid protein	capsid	A4JWJ6	Burkholderia_virus	61.2	5.3e-98
WP_000090679.1|2307856_2309353_-	DUF935 domain-containing protein	NA	A4JWJ5	Burkholderia_virus	59.6	8.0e-169
WP_172842302.1|2309352_2310894_-	hypothetical protein	NA	A4JWJ4	Burkholderia_virus	63.0	2.6e-183
WP_000124060.1|2310944_2311490_-	DUF3486 family protein	NA	A4JWJ3	Burkholderia_virus	67.6	9.3e-59
WP_000227700.1|2311489_2311801_-	hypothetical protein	NA	A0A0S4L0A3	Pseudomonas_phage	62.6	9.4e-32
WP_000175097.1|2311800_2312127_-	membrane protein	NA	Q6QIC4	Burkholderia_phage	49.5	9.6e-19
WP_000264664.1|2312123_2312774_-	lipoprotein	NA	Q5ZQY9	Pseudomonas_phage	32.9	8.1e-09
WP_001104436.1|2312757_2313486_-	transglycosylase SLT domain-containing protein	NA	Q5ZQZ1	Pseudomonas_phage	57.4	2.7e-61
WP_000793143.1|2313488_2313839_-	membrane protein	NA	A4JWP3	Burkholderia_virus	53.0	4.5e-22
WP_100208317.1|2314082_2314679_-	nucleoid-associated protein	NA	NA	NA	NA	NA
WP_144079282.1|2314722_2315106_+	hypothetical protein	NA	A4JWN3	Burkholderia_virus	58.9	1.7e-27
WP_000567456.1|2315115_2315280_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000990529.1|2315283_2317053_+|integrase,transposase	DDE-type integrase/transposase/recombinase	integrase,transposase	Q6QIE0	Burkholderia_phage	68.5	2.8e-229
WP_000960673.1|2317063_2318230_+	AAA family ATPase	NA	A4JWN1	Burkholderia_virus	59.7	3.3e-122
WP_000843446.1|2318232_2318502_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001140134.1|2318529_2319060_+	host-nuclease inhibitor Gam family protein	NA	L7P7T1	Pseudomonas_phage	66.1	3.4e-58
WP_000632575.1|2319348_2319621_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000197790.1|2319630_2319933_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001315283.1|2319929_2320313_+	hypothetical protein	NA	K7PJQ4	Enterobacteria_phage	58.9	2.3e-27
WP_153781233.1|2320320_2320521_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000131941.1|2320517_2321201_+	DUF2786 domain-containing protein	NA	A0A2P9JZH4	Alteromonadaceae_phage	37.3	2.6e-34
WP_000631816.1|2321197_2321428_+	hypothetical protein	NA	NA	NA	NA	NA
WP_010989166.1|2321417_2321633_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001315282.1|2321625_2322075_+	regulatory protein GemA	NA	A4JWM5	Burkholderia_virus	46.6	9.4e-25
WP_001281695.1|2322046_2322436_+	DNA-binding protein	NA	Q6QIE8	Burkholderia_phage	54.2	4.5e-31
2330595:2330611	attR	GGCAGGCGCTGCGGTTT	NA	NA	NA	NA
>prophage 7
NZ_LT905063	Salmonella enterica subsp. enterica serovar Typhi isolate lupe_GEN0059-sc-1979081 chromosome 1	4795199	2774606	2852806	4795199	protease,head,holin,plate,tail,transposase,terminase	Salmonella_phage(70.0%)	90	NA	NA
WP_000938184.1|2774606_2775287_+|protease	type III secretion system effector protease PipA	protease	Q9MBM0	Phage_Gifsy-2	70.1	4.1e-80
WP_000502118.1|2775494_2775953_-|transposase	IS200/IS605-like element IS200F family transposase	transposase	NA	NA	NA	NA
WP_000374046.1|2776616_2777276_+|protease	FtsH protease modulator YccA	protease	A0A2H4JFM9	uncultured_Caudovirales_phage	52.4	2.7e-44
WP_000904446.1|2777362_2777692_+	sulfurtransferase TusE	NA	NA	NA	NA	NA
WP_000072884.1|2777688_2777970_-	acylphosphatase	NA	NA	NA	NA	NA
WP_000140485.1|2780296_2781508_+	23S rRNA (cytosine(1962)-C(5))-methyltransferase RlmI	NA	NA	NA	NA	NA
WP_000561983.1|2781565_2781883_+	heat shock protein HspQ	NA	NA	NA	NA	NA
WP_001537782.1|2781927_2782341_-	CoA-binding protein	NA	NA	NA	NA	NA
WP_000847719.1|2782514_2783177_+	DUF2057 family protein	NA	NA	NA	NA	NA
WP_000424187.1|2783271_2783730_+	methylglyoxal synthase	NA	NA	NA	NA	NA
WP_000420526.1|2783765_2785820_-	DNA helicase IV	NA	A7KV33	Bacillus_phage	27.6	6.5e-20
WP_001261222.1|2785943_2786390_+	YccF domain-containing protein	NA	NA	NA	NA	NA
WP_000950867.1|2786408_2788562_+	TIGR01666 family membrane protein	NA	NA	NA	NA	NA
WP_001202371.1|2788548_2789154_-	TfoX/Sxy family DNA transformation protein	NA	NA	NA	NA	NA
WP_000288732.1|2789370_2789880_+	cell division inhibitor SulA	NA	NA	NA	NA	NA
WP_010989142.1|2790234_2791287_+	porin OmpA	NA	NA	NA	NA	NA
WP_000877174.1|2791358_2791811_-	macrodomain Ter protein MatP	NA	NA	NA	NA	NA
WP_000156455.1|2791996_2793757_+|protease	Lon protease family protein	protease	NA	NA	NA	NA
WP_000227928.1|2793825_2794344_+	bifunctional 3-hydroxydecanoyl-ACP dehydratase/trans-2-decenoyl-ACP isomerase	NA	NA	NA	NA	NA
WP_001764860.1|2794443_2794611_-	ribosome modulation factor	NA	NA	NA	NA	NA
WP_000759136.1|2794864_2795428_-	membrane integrity-associated transporter subunit PqiC	NA	NA	NA	NA	NA
WP_000433416.1|2795424_2797065_-	intermembrane transport protein PqiB	NA	NA	NA	NA	NA
WP_000333152.1|2797069_2798323_-	membrane integrity-associated transporter subunit PqiA	NA	NA	NA	NA	NA
WP_000053045.1|2798337_2800245_-	ABC transporter ATP-binding protein	NA	A0A2K9L3Z8	Tupanvirus	29.8	2.4e-53
WP_001086472.1|2800257_2802366_-	bifunctional 23S rRNA (guanine(2069)-N(7))-methyltransferase RlmK/23S rRNA (guanine(2445)-N(2))-methyltransferase RlmL	NA	W6LLI2	Streptococcus_phage	29.6	5.1e-20
WP_000224084.1|2802464_2803574_+	MOSC domain-containing protein	NA	NA	NA	NA	NA
WP_001220671.1|2803570_2804113_-	cell division protein ZapC	NA	NA	NA	NA	NA
WP_000291724.1|2804278_2805289_-	quinone-dependent dihydroorotate dehydrogenase	NA	NA	NA	NA	NA
WP_000193884.1|2805496_2808109_-	aminopeptidase N	NA	A0A0P0IY26	Acinetobacter_phage	22.6	1.1e-19
WP_000480169.1|2809125_2809827_+	DUF1076 domain-containing protein	NA	NA	NA	NA	NA
WP_000421106.1|2810748_2811267_-|tail	tail fiber assembly protein	tail	A0A1B0VCD0	Salmonella_phage	62.8	1.7e-46
WP_001681975.1|2811281_2812793_-	hypothetical protein	NA	S4TP62	Salmonella_phage	59.4	1.5e-111
WP_000049938.1|2812792_2813473_-	DUF2612 domain-containing protein	NA	A0A0M5M1K4	Salmonella_phage	98.7	6.9e-128
WP_001197092.1|2813469_2814669_-|plate	baseplate J/gp47 family protein	plate	A0A0M4RD32	Salmonella_phage	97.5	8.5e-214
WP_001270647.1|2814669_2815023_-	hypothetical protein	NA	A0A0M4R339	Salmonella_phage	98.3	3.2e-60
WP_001685627.1|2815263_2816019_-	hypothetical protein	NA	A0A0M5M1K7	Salmonella_phage	85.3	4.1e-105
WP_001144794.1|2816077_2816506_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000050472.1|2816505_2817237_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000826019.1|2817431_2817767_-	hypothetical protein	NA	A0A2H4J1A5	uncultured_Caudovirales_phage	52.2	1.1e-20
WP_000042301.1|2817763_2818795_-	hypothetical protein	NA	A0A2H4J1B2	uncultured_Caudovirales_phage	51.4	1.2e-96
WP_050188542.1|2818797_2819100_-	hypothetical protein	NA	A0A2H4J495	uncultured_Caudovirales_phage	57.0	2.0e-26
WP_000346974.1|2819103_2819754_-	hypothetical protein	NA	A0A0M3ULD5	Salmonella_phage	60.6	3.0e-56
WP_000990867.1|2819753_2821706_-	hypothetical protein	NA	A0A0M4REK7	Salmonella_phage	56.0	1.8e-181
WP_000389047.1|2821883_2822336_-	hypothetical protein	NA	A0A0M4S6U8	Salmonella_phage	76.6	1.9e-57
WP_000257259.1|2822339_2822780_-	DUF3277 family protein	NA	A0A2H4J619	uncultured_Caudovirales_phage	74.7	3.5e-56
WP_001135544.1|2822791_2823937_-	DUF3383 domain-containing protein	NA	A0A2H4J8G4	uncultured_Caudovirales_phage	74.5	2.2e-163
WP_000389379.1|2823940_2824504_-	hypothetical protein	NA	A0A0M4R331	Salmonella_phage	75.3	8.9e-81
WP_001142488.1|2824478_2824868_-	hypothetical protein	NA	A0A0M3ULK0	Salmonella_phage	98.4	6.0e-68
WP_000008737.1|2824854_2825409_-	hypothetical protein	NA	A0A0M4S631	Salmonella_phage	100.0	4.8e-95
WP_001125675.1|2825405_2825813_-	DUF4054 domain-containing protein	NA	A0A0M5M3S2	Salmonella_phage	97.8	7.1e-72
WP_001040702.1|2825778_2826147_-	hypothetical protein	NA	A0A0M4RTX5	Salmonella_phage	100.0	8.7e-61
WP_000627464.1|2826188_2827130_-	DUF2184 domain-containing protein	NA	A0A0M3ULD3	Salmonella_phage	100.0	3.1e-179
WP_000128060.1|2827141_2827639_-	hypothetical protein	NA	A0A0M4QWZ6	Salmonella_phage	99.4	8.7e-88
WP_000873182.1|2827643_2828876_-	DUF2213 domain-containing protein	NA	A0A0M4R5A6	Salmonella_phage	99.0	1.4e-227
WP_138010671.1|2828890_2829628_-|head	phage head morphogenesis protein	head	A0A0M4REK0	Salmonella_phage	88.1	7.8e-101
WP_000113511.1|2829512_2830982_-	DUF1073 domain-containing protein	NA	A0A0M4S6U1	Salmonella_phage	99.2	1.7e-280
WP_000204794.1|2830981_2832385_-|terminase	PBSX family phage terminase large subunit	terminase	A0A077KAW0	Edwardsiella_phage	70.1	6.5e-189
WP_001118118.1|2832350_2833103_-	hypothetical protein	NA	A0A0M3ULJ9	Salmonella_phage	56.5	3.4e-11
WP_001070544.1|2833192_2833420_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000495544.1|2833516_2833894_-	hypothetical protein	NA	Q6UAR9	Klebsiella_phage	68.5	4.9e-43
WP_001050879.1|2833936_2834476_-	DUF2514 domain-containing protein	NA	A0A291LBG9	Klebsiella_phage	38.4	2.5e-08
WP_001075998.1|2834472_2835087_-	glycoside hydrolase family 19 protein	NA	Q8HA86	Salmonella_phage	93.1	3.2e-108
WP_000226307.1|2835086_2835368_-|holin	phage holin family protein	holin	K7PKN9	Enterobacterial_phage	80.6	2.6e-36
WP_001294876.1|2835354_2835744_-|holin	phage holin family protein	holin	K7PHB9	Enterobacterial_phage	70.2	3.1e-40
WP_001534733.1|2836544_2836670_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001047634.1|2837068_2837866_-	antitermination protein	NA	A0A0M4S661	Salmonella_phage	99.2	3.4e-150
WP_001617856.1|2837855_2838002_-	YlcG family protein	NA	A0A0M5M7B2	Salmonella_phage	97.9	4.3e-19
WP_001096560.1|2837998_2838610_-	recombination protein NinG	NA	A0A0M4RU10	Salmonella_phage	99.5	2.5e-92
WP_000929790.1|2838818_2839421_-	DUF1367 family protein	NA	S4TTI0	Salmonella_phage	99.5	7.5e-110
WP_001217670.1|2839755_2839995_-	DinI family protein	NA	H6WRY5	Salmonella_phage	100.0	3.9e-38
WP_000963896.1|2840179_2840677_-	type II toxin-antitoxin system death-on-curing family toxin	NA	NA	NA	NA	NA
WP_000509711.1|2840687_2840867_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000208074.1|2841712_2842285_-	DUF550 domain-containing protein	NA	S4TSR6	Salmonella_phage	68.0	1.3e-66
WP_000445792.1|2842288_2842762_-	class I SAM-dependent methyltransferase	NA	H9C170	Pectobacterium_phage	80.1	1.6e-67
WP_000065105.1|2842761_2843286_-	ead/Ea22-like family protein	NA	A0A220NQV2	Salmonella_phage	99.4	1.8e-91
WP_000113623.1|2843282_2843630_-	DUF977 family protein	NA	H6WRX9	Salmonella_phage	90.4	4.8e-53
WP_000800010.1|2843640_2844390_-	ATP-binding protein	NA	S4TNF5	Salmonella_phage	99.6	3.6e-138
WP_001681803.1|2844392_2845376_-	replication protein	NA	H6WRX7	Salmonella_phage	99.7	2.1e-162
WP_001574095.1|2845460_2845835_-	hypothetical protein	NA	S4TTD7	Salmonella_phage	99.2	3.9e-64
WP_000869365.1|2845800_2846037_-	helix-turn-helix domain-containing protein	NA	H6WRX5	Salmonella_phage	98.7	1.1e-37
WP_001009036.1|2846166_2846571_+	transcriptional regulator	NA	H6WRX4	Salmonella_phage	99.3	7.1e-72
WP_000186242.1|2846859_2847060_+	cell division protein FtsZ	NA	G8C7T2	Escherichia_phage	48.4	2.4e-12
WP_000995349.1|2847150_2847447_+	host-nuclease inhibitor protein Gam	NA	A0A0M5M5Z9	Salmonella_phage	96.9	4.4e-47
WP_001764962.1|2847452_2848238_+	phage recombination protein Bet	NA	A0A0M4RD39	Salmonella_phage	99.6	9.7e-150
WP_000187053.1|2848234_2848915_+	YqaJ viral recombinase family protein	NA	A0A0M3ULE0	Salmonella_phage	98.7	1.9e-130
WP_000034527.1|2848992_2850057_+	DGQHR domain-containing protein	NA	T1SBJ4	Salmonella_phage	74.6	6.3e-152
WP_010989138.1|2850053_2850935_+	Dam family site-specific DNA-(adenine-N6)-methyltransferase	NA	A0A0M4R347	Salmonella_phage	93.0	1.2e-153
WP_001754984.1|2850940_2851180_+	DUF4060 family protein	NA	S4TR31	Salmonella_phage	96.2	9.7e-37
WP_000065276.1|2851220_2851469_+	excisionase family protein	NA	S4TND0	Salmonella_phage	100.0	4.7e-42
WP_001262313.1|2851513_2852806_+	DUF3596 domain-containing protein	NA	S4TSP2	Salmonella_phage	99.8	5.0e-252
>prophage 8
NZ_LT905063	Salmonella enterica subsp. enterica serovar Typhi isolate lupe_GEN0059-sc-1979081 chromosome 1	4795199	2923929	2931241	4795199	protease,integrase	Ralstonia_phage(16.67%)	7	2918799:2918813	2929977:2929991
2918799:2918813	attL	GGAAAATCAACGCTG	NA	NA	NA	NA
WP_001539594.1|2923929_2924307_+|integrase	integrase	integrase	A0A077KET4	Ralstonia_phage	41.0	1.2e-20
WP_001117984.1|2924468_2924666_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000934058.1|2924877_2927154_-|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	protease	A0A223W0B1	Agrobacterium_phage	42.2	1.8e-164
WP_000520789.1|2927184_2927505_-|protease	ATP-dependent Clp protease adapter ClpS	protease	A0A1B1IT64	uncultured_Mediterranean_phage	45.7	4.5e-13
WP_000447499.1|2927828_2928050_+	cold shock-like protein CspD	NA	A0A2H4N7Y6	Lake_Baikal_phage	64.2	9.3e-18
WP_000125880.1|2928179_2930126_-	macrolide ABC transporter ATP-binding protein/permease MacB	NA	G9BWD6	Planktothrix_phage	43.1	2.0e-39
2929977:2929991	attR	CAGCGTTGATTTTCC	NA	NA	NA	NA
WP_001201759.1|2930122_2931241_-	macrolide transporter subunit MacA	NA	A0A140XAI1	Dickeya_phage	39.8	8.1e-09
>prophage 9
NZ_LT905063	Salmonella enterica subsp. enterica serovar Typhi isolate lupe_GEN0059-sc-1979081 chromosome 1	4795199	3543827	3590466	4795199	plate,transposase,tRNA	Vibrio_phage(16.67%)	40	NA	NA
WP_000118732.1|3543827_3545171_-|plate	type VI secretion system baseplate subunit TssK	plate	NA	NA	NA	NA
WP_001007105.1|3545174_3545711_-	type VI secretion system lipoprotein TssJ	NA	NA	NA	NA	NA
WP_000312802.1|3545777_3546263_-	type VI secretion system tube protein Hcp	NA	NA	NA	NA	NA
WP_001171575.1|3546499_3546925_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001147174.1|3546896_3547298_-	BPSL0067 family protein	NA	NA	NA	NA	NA
WP_000996818.1|3548882_3549425_-	type VI secretion system contractile sheath small subunit	NA	NA	NA	NA	NA
WP_000175184.1|3549488_3549779_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000449770.1|3549864_3552528_-	type VI secretion system ATPase TssH	NA	A0A2I7SAX5	Vibrio_phage	34.8	9.8e-77
WP_000806676.1|3552895_3553798_+	type VI secretion system-associated protein TagK	NA	NA	NA	NA	NA
WP_000750542.1|3553784_3554609_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000108006.1|3554605_3555100_+|plate	type VI secretion system baseplate subunit TssE	plate	NA	NA	NA	NA
WP_000371495.1|3555115_3556999_+|plate	type VI secretion system baseplate subunit TssF	plate	NA	NA	NA	NA
WP_000145233.1|3556995_3557991_+|plate	type VI secretion system baseplate subunit TssG	plate	NA	NA	NA	NA
WP_001670675.1|3559585_3560317_-	DNA polymerase III subunit epsilon	NA	A0A1X9SH08	Bradyrhizobium_phage	39.9	6.4e-39
WP_000917872.1|3560380_3560848_+	ribonuclease HI	NA	J9Q745	Salmonella_phage	58.9	4.7e-51
WP_000801233.1|3560844_3561567_-	class I SAM-dependent methyltransferase	NA	NA	NA	NA	NA
WP_001052766.1|3561601_3562357_+	hydroxyacylglutathione hydrolase	NA	NA	NA	NA	NA
WP_000644706.1|3562428_3563796_+	murein transglycosylase D	NA	A0A0A7NU10	Lactobacillus_phage	33.0	1.4e-10
WP_000207227.1|3563851_3564622_-	class I SAM-dependent methyltransferase	NA	NA	NA	NA	NA
WP_001230964.1|3564699_3565500_-	endonuclease/exonuclease/phosphatase family protein	NA	NA	NA	NA	NA
WP_001127546.1|3565631_3566807_-	MFS transporter	NA	NA	NA	NA	NA
WP_000648539.1|3566911_3567826_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
WP_000154870.1|3567846_3568650_-	2,5-didehydrogluconate reductase DkgB	NA	A0A1V0SDE7	Indivirus	35.4	2.7e-38
WP_001140158.1|3574433_3575000_-	D-glycero-beta-D-manno-heptose 1,7-bisphosphate 7-phosphatase	NA	NA	NA	NA	NA
WP_000594016.1|3575189_3576221_+	methionine ABC transporter ATP-binding protein MetN	NA	G9BWD6	Planktothrix_phage	40.2	1.2e-35
WP_001287483.1|3576213_3576867_+	methionine ABC transporter permease MetI	NA	NA	NA	NA	NA
WP_000874217.1|3576905_3577721_+	methionine ABC transporter substrate-binding lipoprotein MetQ	NA	NA	NA	NA	NA
WP_001202315.1|3577839_3578244_+	Rcs stress response system protein RcsF	NA	NA	NA	NA	NA
WP_000093978.1|3578240_3578948_+|tRNA	tRNA (N6-threonylcarbamoyladenosine(37)-N6)-methyltransferase TrmO	tRNA	NA	NA	NA	NA
WP_001260683.1|3579058_3580777_+|tRNA	proline--tRNA ligase	tRNA	NA	NA	NA	NA
WP_000502118.1|3580995_3581454_+|transposase	IS200/IS605-like element IS200F family transposase	transposase	NA	NA	NA	NA
WP_000252574.1|3581561_3582263_-	envelope stress response activation lipoprotein NlpE	NA	NA	NA	NA	NA
WP_000560526.1|3582294_3582717_-|tRNA	aminoacyl-tRNA hydrolase	tRNA	NA	NA	NA	NA
WP_001185319.1|3582713_3583259_-	YaeQ family protein	NA	NA	NA	NA	NA
WP_001518678.1|3583456_3583657_+	YaeP family protein	NA	NA	NA	NA	NA
WP_000062330.1|3583643_3583904_+	Rho-binding antiterminator	NA	NA	NA	NA	NA
WP_000210062.1|3583987_3585280_-|tRNA	tRNA lysidine(34) synthetase TilS	tRNA	NA	NA	NA	NA
WP_000901086.1|3585342_3585732_-	VOC family protein	NA	NA	NA	NA	NA
WP_001021059.1|3585787_3587929_-	lysine decarboxylase LdcC	NA	NA	NA	NA	NA
WP_000502118.1|3590007_3590466_-|transposase	IS200/IS605-like element IS200F family transposase	transposase	NA	NA	NA	NA
>prophage 10
NZ_LT905063	Salmonella enterica subsp. enterica serovar Typhi isolate lupe_GEN0059-sc-1979081 chromosome 1	4795199	3980967	3988638	4795199	integrase	Enterobacteria_phage(33.33%)	7	3975445:3975458	3986847:3986860
3975445:3975458	attL	CGAAGGCCGGACTC	NA	NA	NA	NA
WP_000468230.1|3980967_3981207_+	ogr/Delta-like zinc finger family protein	NA	Q7M294	Enterobacteria_phage	60.5	3.7e-20
WP_000214423.1|3981222_3981789_+	Polarity suppression protein	NA	Q7M2A1	Enterobacteria_phage	64.9	1.8e-60
WP_000493740.1|3982064_3983228_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000700163.1|3983217_3984276_+	serine/threonine protein kinase	NA	G9BWE0	Planktothrix_phage	44.7	4.9e-56
WP_000573583.1|3984272_3985349_+	serine/threonine protein kinase	NA	A0A2H4UU60	Bodo_saltans_virus	28.2	7.8e-17
WP_000772672.1|3985411_3986677_-|integrase	integrase arm-type DNA-binding domain-containing protein	integrase	B7SYF8	Stenotrophomonas_phage	41.0	1.6e-74
WP_000152561.1|3987147_3988638_+	alcohol dehydrogenase catalytic domain-containing protein	NA	A0A0G2Y405	Acanthamoeba_polyphaga_mimivirus	36.1	4.0e-11
3986847:3986860	attR	CGAAGGCCGGACTC	NA	NA	NA	NA
>prophage 11
NZ_LT905063	Salmonella enterica subsp. enterica serovar Typhi isolate lupe_GEN0059-sc-1979081 chromosome 1	4795199	4127598	4206537	4795199	head,lysis,plate,tail,terminase,portal,capsid,integrase	Salmonella_phage(83.33%)	88	4134751:4134766	4207631:4207646
WP_000954536.1|4127598_4128858_+|integrase	integrase arm-type DNA-binding domain-containing protein	integrase	B7SYF8	Stenotrophomonas_phage	41.7	3.2e-78
WP_000975154.1|4129168_4130452_+	SH3 domain-containing protein	NA	NA	NA	NA	NA
WP_000511749.1|4131432_4132215_-|integrase	integrase domain-containing protein	integrase	NA	NA	NA	NA
WP_162009227.1|4132484_4132679_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000193665.1|4133071_4133293_-	helix-turn-helix domain-containing protein	NA	A0A2I7S995	Vibrio_phage	58.3	4.6e-17
WP_000246267.1|4133289_4133751_-	hypothetical protein	NA	NA	NA	NA	NA
WP_010989301.1|4134297_4135971_+	hypothetical protein	NA	NA	NA	NA	NA
4134751:4134766	attL	GAAGAAGACTTCTTTG	NA	NA	NA	NA
WP_010989300.1|4136051_4138337_+	hypothetical protein	NA	NA	NA	NA	NA
WP_024131240.1|4138640_4138892_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000434168.1|4138973_4139426_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000622308.1|4139605_4140094_-	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
WP_001143724.1|4140090_4140384_-	DUF1778 domain-containing protein	NA	NA	NA	NA	NA
WP_000449622.1|4140810_4141824_-|integrase	site-specific integrase	integrase	NA	NA	NA	NA
WP_000488995.1|4141987_4143577_-	TraI domain-containing protein	NA	NA	NA	NA	NA
WP_001120833.1|4143560_4145072_-	ATP-dependent helicase	NA	A0A126DN25	Acinetobacter_phage	29.0	2.0e-42
WP_001210944.1|4145925_4146465_+	Vi polysaccharide biosynthesis regulator TviA	NA	NA	NA	NA	NA
WP_000466893.1|4146709_4147987_+	Vi polysaccharide biosynthesis UDP-N-acetylglucosamine C-6 dehydrogenase TviB	NA	M1HYW7	Paramecium_bursaria_Chlorella_virus	26.7	1.3e-21
WP_000127915.1|4147989_4149036_+	Vi polysaccharide biosynthesis UDP-N-acetylglucosaminuronic acid C-4 epimerase TviC	NA	A0A2K9L0I7	Tupanvirus	45.0	1.4e-74
WP_072074953.1|4149059_4151555_+	Vi polysaccharide biosynthesis protein TviD	NA	NA	NA	NA	NA
WP_000632616.1|4151554_4153291_+	Vi polysaccharide biosynthesis glycosyltransferase TviE	NA	NA	NA	NA	NA
WP_000720235.1|4153335_4154403_+	Vi polysaccharide ABC transporter protein VexA	NA	NA	NA	NA	NA
WP_001023498.1|4154412_4155207_+	Vi polysaccharide ABC transporter inner membrane protein VexB	NA	NA	NA	NA	NA
WP_000467404.1|4155232_4155928_+	Vi polysaccharide ABC transporter ATP-binding protein VexC	NA	NA	NA	NA	NA
WP_000431675.1|4155950_4157255_+	Vi polysaccharide ABC transporter inner membrane protein VexD	NA	NA	NA	NA	NA
WP_000052242.1|4157274_4159245_+	Vi polysaccharide transport protein VexE	NA	NA	NA	NA	NA
WP_000354257.1|4159546_4160293_-	class I SAM-dependent methyltransferase	NA	NA	NA	NA	NA
WP_001681808.1|4160292_4161183_-	methyltransferase domain-containing protein	NA	NA	NA	NA	NA
WP_001681810.1|4161193_4161451_-	YjhX family toxin	NA	NA	NA	NA	NA
WP_000027757.1|4162557_4163583_-|integrase	site-specific integrase	integrase	A0A1S6L016	Salmonella_phage	98.2	2.7e-200
WP_000052560.1|4163586_4164219_-	helix-turn-helix domain-containing protein	NA	A0A1S6KZZ7	Salmonella_phage	58.6	1.4e-66
WP_000102106.1|4164335_4164578_+	Rha family transcriptional regulator	NA	A0A1S6KZZ6	Salmonella_phage	98.8	2.3e-38
WP_000460852.1|4164610_4165120_+	phage regulatory CII family protein	NA	A0A1S6L008	Salmonella_phage	94.1	1.3e-83
WP_000956167.1|4165127_4165328_+	DUF2724 domain-containing protein	NA	A0A1S6L005	Salmonella_phage	97.0	4.6e-32
WP_000963479.1|4165291_4165633_+	DUF5347 domain-containing protein	NA	A0A1S6L019	Salmonella_phage	99.1	4.6e-56
WP_001244240.1|4165700_4165934_+	DUF2732 domain-containing protein	NA	A0A1S6L021	Salmonella_phage	84.4	9.8e-26
WP_000785510.1|4165933_4166161_+	TraR/DksA family transcriptional regulator	NA	A0A1S6L007	Salmonella_phage	94.7	1.0e-35
WP_001090717.1|4166157_4166742_+	3'-5' exonuclease	NA	A0A1S6L012	Salmonella_phage	73.7	1.1e-76
WP_000104130.1|4166738_4167599_+	DNA adenine methylase	NA	E5G6L8	Salmonella_phage	81.8	3.4e-132
WP_000301193.1|4167589_4169998_+	replication endonuclease	NA	A0A1S6L028	Salmonella_phage	95.1	0.0e+00
WP_001154438.1|4170165_4170354_+	hypothetical protein	NA	A0A1S6L006	Salmonella_phage	96.8	7.9e-26
WP_001217561.1|4170365_4170599_+	DinI family protein	NA	A0A1S6L014	Salmonella_phage	92.2	2.2e-33
WP_000835188.1|4170694_4170913_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000829584.1|4170922_4171987_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000789323.1|4171983_4173048_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000080839.1|4173067_4173763_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001681813.1|4173811_4174855_-|portal	phage portal protein	portal	A0A1S6KZW5	Salmonella_phage	86.6	2.1e-176
WP_001098453.1|4174854_4176621_-|terminase	terminase ATPase subunit family protein	terminase	A0A1S6KZW3	Salmonella_phage	96.4	0.0e+00
WP_000216272.1|4176763_4177597_+|capsid	GPO family capsid scaffolding protein	capsid	E5G6M5	Salmonella_phage	87.4	6.1e-126
WP_000730751.1|4177613_4178678_+|capsid	phage major capsid protein, P2 family	capsid	A0A1S6KZZ3	Salmonella_phage	98.3	1.3e-194
WP_000059175.1|4178681_4179332_+|terminase	terminase endonuclease subunit	terminase	E5G6M7	Salmonella_phage	99.5	2.4e-114
WP_000673540.1|4179425_4179890_+|head	head completion/stabilization protein	head	A0A1S6KZW8	Salmonella_phage	98.1	2.4e-84
WP_000868184.1|4179889_4180093_+|tail	tail protein X	tail	E5G6M9	Salmonella_phage	100.0	3.8e-34
WP_000171566.1|4180096_4180312_+	hypothetical protein	NA	E5G6N0	Salmonella_phage	98.6	3.8e-32
WP_001097942.1|4180292_4180802_+	lysozyme	NA	A0A1S6KZY9	Salmonella_phage	97.0	1.3e-91
WP_000731034.1|4180806_4181184_+	hypothetical protein	NA	A0A1S6KZZ2	Salmonella_phage	99.2	1.5e-60
WP_024131238.1|4181180_4181609_+|lysis	LysB family phage lysis regulatory protein	lysis	A0A1S6KZX8	Salmonella_phage	97.9	3.3e-67
WP_001039966.1|4181704_4182136_+|tail	phage tail protein	tail	A0A1S6KZY0	Salmonella_phage	98.6	2.5e-75
WP_000343944.1|4182128_4182575_+	phage virion morphogenesis protein	NA	A0A1S6L001	Salmonella_phage	90.4	2.2e-66
WP_000993749.1|4182643_4183222_+|plate	phage baseplate assembly protein V	plate	E5G6N6	Salmonella_phage	99.5	3.9e-108
WP_000177408.1|4183218_4183578_+	GPW/gp25 family protein	NA	A0A1S6KZZ4	Salmonella_phage	96.6	6.8e-58
WP_000268327.1|4183564_4184473_+|plate	baseplate assembly protein	plate	E5G6N8	Salmonella_phage	97.0	5.2e-155
WP_001086816.1|4184465_4185071_+|tail	phage tail protein I	tail	A0A1S6L000	Salmonella_phage	92.0	2.0e-110
WP_000104806.1|4185067_4186687_+|tail	phage tail protein	tail	E5G6P0	Salmonella_phage	90.9	2.7e-154
WP_000006337.1|4186693_4187101_+|tail	tail fiber assembly protein	tail	A0A1B0V844	Salmonella_phage	84.2	4.1e-59
WP_000161708.1|4187298_4188021_-	SPI-1 type III secretion system guanine nucleotide exchange factor SopE	NA	NA	NA	NA	NA
WP_000388790.1|4188234_4188453_+	Hin recombinase	NA	A0A1S6L009	Salmonella_phage	90.3	1.4e-29
WP_000046101.1|4188555_4189728_+|tail	phage tail sheath protein	tail	A0A1S6KZY7	Salmonella_phage	99.5	9.8e-223
WP_001207653.1|4189737_4190253_+|tail	phage major tail tube protein	tail	E5G6P8	Salmonella_phage	99.4	2.7e-92
WP_001280965.1|4190307_4190610_+|tail	phage tail assembly protein	tail	E5G6P9	Salmonella_phage	93.9	3.3e-42
WP_000763315.1|4190624_4190744_+|tail	GpE family phage tail protein	tail	E5G6Q0	Salmonella_phage	94.9	1.2e-14
WP_161976233.1|4190970_4193517_+|tail	phage tail tape measure protein	tail	A0A2H4JGB2	uncultured_Caudovirales_phage	42.7	1.2e-113
WP_000980405.1|4193516_4194002_+|tail	phage tail protein	tail	E5G6Q2	Salmonella_phage	93.2	9.4e-71
WP_001011750.1|4193998_4195099_+	phage late control D family protein	NA	E5G6Q3	Salmonella_phage	92.1	7.9e-190
WP_001775272.1|4195166_4195385_+	ogr/Delta-like zinc finger family protein	NA	E5G6Q4	Salmonella_phage	75.0	4.9e-27
WP_001039750.1|4195471_4195849_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000457555.1|4196068_4197343_+	Y-family DNA polymerase	NA	F1C5A5	Cronobacter_phage	62.0	7.5e-152
WP_001222413.1|4197474_4197744_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000911568.1|4197843_4198170_-	DUF3085 domain-containing protein	NA	NA	NA	NA	NA
WP_000022217.1|4198244_4199144_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000881183.1|4199217_4200126_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001097965.1|4200197_4202147_-	DUF1738 domain-containing protein	NA	A0A2K9V411	Faecalibacterium_phage	38.3	5.9e-31
WP_000115421.1|4202235_4202694_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000968700.1|4202771_4203068_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000979718.1|4203064_4203517_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000018145.1|4203534_4203744_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001103837.1|4204114_4204495_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001020123.1|4204590_4204893_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000907593.1|4205616_4206537_-|integrase	integrase domain-containing protein	integrase	NA	NA	NA	NA
4207631:4207646	attR	GAAGAAGACTTCTTTG	NA	NA	NA	NA
>prophage 12
NZ_LT905063	Salmonella enterica subsp. enterica serovar Typhi isolate lupe_GEN0059-sc-1979081 chromosome 1	4795199	4503208	4541265	4795199	head,lysis,plate,tail,transposase,terminase,portal,capsid,integrase	Salmonella_phage(76.74%)	48	4498172:4498186	4510337:4510351
4498172:4498186	attL	CGAATTTCTTTTTCA	NA	NA	NA	NA
WP_001012560.1|4503208_4504855_-	acetolactate synthase 2 catalytic subunit	NA	A0A0P0CDR3	Ostreococcus_lucimarinus_virus	31.5	9.0e-65
WP_001311244.1|4504994_4505093_-	ilv operon leader peptide	NA	NA	NA	NA	NA
WP_000290950.1|4505718_4506771_-|integrase	tyrosine-type recombinase/integrase	integrase	A0A218M4I3	Erwinia_phage	57.3	3.6e-107
WP_000900883.1|4506959_4507151_-	hypothetical protein	NA	A0A0R6PIH8	Moraxella_phage	65.9	6.8e-09
WP_001047327.1|4507166_4507736_-	phage repressor protein CI	NA	A0A1S6KZZ7	Salmonella_phage	43.4	2.5e-38
WP_000460893.1|4508114_4508624_+	phage regulatory CII family protein	NA	E5G6L3	Salmonella_phage	98.8	5.8e-87
WP_000956176.1|4508631_4508928_+	DUF2724 domain-containing protein	NA	E5G6L4	Salmonella_phage	90.4	4.9e-22
WP_000996717.1|4509045_4509387_+	DUF5347 domain-containing protein	NA	E5G6L5	Salmonella_phage	98.2	1.7e-55
WP_001244218.1|4509454_4509688_+	DUF2732 domain-containing protein	NA	E5G6L6	Salmonella_phage	94.8	2.0e-31
WP_000752613.1|4509687_4509915_+	TraR/DksA family transcriptional regulator	NA	E5G6L7	Salmonella_phage	100.0	2.7e-36
WP_000104152.1|4509911_4510769_+	DNA adenine methylase	NA	E5G6L8	Salmonella_phage	97.2	3.5e-161
4510337:4510351	attR	TGAAAAAGAAATTCG	NA	NA	NA	NA
WP_000017503.1|4510765_4513180_+	replication endonuclease	NA	E5G6L9	Salmonella_phage	97.5	0.0e+00
WP_001580533.1|4513333_4513522_+	hypothetical protein	NA	E5G6M0	Salmonella_phage	95.2	7.9e-26
WP_000822803.1|4513589_4513889_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001251692.1|4513997_4514876_-	hypothetical protein	NA	A0A2H4J8D6	uncultured_Caudovirales_phage	49.4	6.1e-52
WP_001146827.1|4515489_4516404_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000185757.1|4516400_4517141_+	restriction endonuclease	NA	NA	NA	NA	NA
WP_000518064.1|4517175_4518213_-|portal	phage portal protein	portal	A0A1S6KZW5	Salmonella_phage	89.5	1.3e-173
WP_001098422.1|4518212_4519979_-|terminase	terminase ATPase subunit family protein	terminase	A0A1S6KZW3	Salmonella_phage	99.5	0.0e+00
WP_000216244.1|4520121_4520955_+|capsid	GPO family capsid scaffolding protein	capsid	A0A1S6KZW9	Salmonella_phage	90.6	1.5e-121
WP_000742518.1|4520971_4522030_+|capsid	phage major capsid protein, P2 family	capsid	E5G6M6	Salmonella_phage	93.1	1.4e-180
WP_000059191.1|4522033_4522684_+|terminase	terminase endonuclease subunit	terminase	E5G6M7	Salmonella_phage	96.3	8.7e-112
WP_000673504.1|4522779_4523244_+|head	head completion/stabilization protein	head	A0A1S6KZW8	Salmonella_phage	89.0	1.4e-76
WP_000868175.1|4523243_4523447_+|tail	tail protein X	tail	E5G6M9	Salmonella_phage	92.5	1.4e-31
WP_000171568.1|4523450_4523666_+	hypothetical protein	NA	E5G6N0	Salmonella_phage	80.3	1.8e-26
WP_001069905.1|4523646_4524159_+	lysozyme	NA	E5G6N1	Salmonella_phage	92.3	3.1e-88
WP_000727853.1|4524160_4524538_+	hypothetical protein	NA	A0A1S6KZZ2	Salmonella_phage	40.0	2.3e-16
WP_001080928.1|4524534_4524963_+|lysis	LysB family phage lysis regulatory protein	lysis	E5G6N2	Salmonella_phage	77.3	2.2e-47
WP_001039939.1|4525058_4525490_+|tail	phage tail protein	tail	E5G6N3	Salmonella_phage	95.1	1.5e-72
WP_000829146.1|4525482_4525929_+	phage virion morphogenesis protein	NA	A0A1S6L001	Salmonella_phage	85.6	6.6e-63
WP_000993754.1|4525997_4526576_+|plate	phage baseplate assembly protein V	plate	A0A1S6KZX7	Salmonella_phage	86.5	5.5e-94
WP_000177595.1|4526572_4526932_+	GPW/gp25 family protein	NA	A0A1S6KZZ4	Salmonella_phage	84.9	6.1e-51
WP_000268271.1|4526918_4527827_+|plate	baseplate assembly protein	plate	A0A1S6KZY6	Salmonella_phage	89.7	1.3e-142
WP_001086816.1|4527819_4528425_+|tail	phage tail protein I	tail	A0A1S6L000	Salmonella_phage	92.0	2.0e-110
WP_048667453.1|4528421_4529828_+|tail	phage tail protein	tail	M1TAS6	Escherichia_phage	75.3	5.2e-154
WP_001174915.1|4529830_4530271_+|tail	tail fiber assembly protein	tail	A0A0F7LDZ0	Escherichia_phage	68.0	3.1e-52
WP_000805568.1|4530242_4530836_-|tail	tail fiber assembly protein	tail	M1SV83	Escherichia_phage	64.3	9.2e-60
WP_031625033.1|4530835_4531339_-|tail	tail fiber protein	tail	Q9MCR6	Enterobacteria_phage	71.3	2.1e-57
WP_000905046.1|4531369_4531936_+	recombinase family protein	NA	A0A0F7LA37	Escherichia_phage	86.3	1.1e-86
WP_000046142.1|4532078_4533251_+|tail	phage tail sheath protein	tail	A0A1S6KZY7	Salmonella_phage	90.3	3.5e-204
WP_001207656.1|4533260_4533776_+|tail	phage major tail tube protein	tail	A0A1S6L002	Salmonella_phage	95.9	5.6e-90
WP_001280897.1|4533830_4534133_+|tail	phage tail assembly protein	tail	A0A1S6KZZ9	Salmonella_phage	89.0	7.0e-40
WP_000763311.1|4534147_4534267_+|tail	GpE family phage tail protein	tail	E5G6Q0	Salmonella_phage	87.2	2.8e-13
WP_001282793.1|4534259_4537337_+|tail	phage tail tape measure protein	tail	E5G6Q1	Salmonella_phage	63.0	0.0e+00
WP_000980381.1|4537333_4537819_+|tail	phage tail protein	tail	E5G6Q2	Salmonella_phage	80.0	2.4e-66
WP_001011760.1|4537815_4538916_+	phage late control D family protein	NA	A0A1S6KZZ5	Salmonella_phage	88.3	1.0e-176
WP_000972391.1|4539006_4539225_+	ogr/Delta-like zinc finger family protein	NA	Q53ZE7	Salmonella_virus	69.0	7.5e-20
WP_000502114.1|4540806_4541265_+|transposase	IS200/IS605 family transposase	transposase	NA	NA	NA	NA
