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
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	294	33429	2120740	transposase,bacteriocin	Bacillus_phage(18.18%)	31	NA	NA
VFI38327.1|294_624_+|transposase	IS630-Spn1, transposase Orf1	transposase	NA	NA	NA	NA
VFI38334.1|802_1141_+|transposase	putative IS630-Spn1 transposase	transposase	NA	NA	NA	NA
VFI38341.1|2224_2461_+	recombination regulator RecX	NA	NA	NA	NA	NA
VFI38348.1|2649_3978_+	adenylosuccinate synthetase	NA	L7Y4J5	Megavirus	37.1	2.8e-72
VFI38355.1|4178_4646_+	cytidine/deoxycytidylate deaminase	NA	NA	NA	NA	NA
VFI38363.1|4831_5275_+	deoxyuridine 5'-triphosphate nucleotidohydrolase	NA	Q2WG49	Clostridium_botulinum_D_phage	47.3	2.1e-29
VFI38370.1|5234_5792_+	phosphoglycerate mutase family protein	NA	NA	NA	NA	NA
VFI38374.1|5904_7167_+	DNA repair protein	NA	NA	NA	NA	NA
VFI38381.1|7239_7737_+	carbonic anhydrase	NA	NA	NA	NA	NA
VFI38388.1|7757_8102_+	repair protein	NA	NA	NA	NA	NA
VFI38397.1|8098_8635_+|transposase	IS861 transposase Orf1	transposase	NA	NA	NA	NA
VFI38406.1|8610_9450_+|transposase	transposase	transposase	A0A1B1P773	Bacillus_phage	50.9	2.8e-62
VFI38414.1|9455_10016_+	repair protein	NA	NA	NA	NA	NA
VFI38421.1|10160_11129_+	ribose-phosphate pyrophosphokinase	NA	A0A1V0SHF7	Hokovirus	34.7	4.0e-44
VFI38431.1|11246_11600_+|transposase	nuclease family transposase	transposase	NA	NA	NA	NA
VFI38438.1|12745_15415_+	DNA polymerase I - 3'-5' exonuclease and polymerase domains	NA	A0A218MKQ4	uncultured_virus	30.3	3.5e-58
VFI38446.1|15499_15937_+	CoA-binding protein	NA	NA	NA	NA	NA
VFI38454.1|16166_17177_-	membrane protein	NA	NA	NA	NA	NA
VFI38462.1|17325_18495_+	aspartate aminotransferase	NA	NA	NA	NA	NA
VFI38470.1|18491_19262_+	DNA repair protein RecO	NA	NA	NA	NA	NA
VFI38477.1|19258_20251_+	fatty acid/phospholipid synthesis protein	NA	NA	NA	NA	NA
VFI38484.1|20256_20490_+	acyl carrier protein	NA	NA	NA	NA	NA
VFI38491.1|21028_21259_+|bacteriocin	bacteriocin BlpO	bacteriocin	NA	NA	NA	NA
VFI38498.1|21261_21387_+|bacteriocin	bacteriocin BlpO	bacteriocin	NA	NA	NA	NA
VFI38505.1|21973_24127_+	competence factor transporting ATP-binding protein/permease ComA	NA	W8CYL7	Bacillus_phage	28.0	3.6e-45
VFI38512.1|24139_25489_+	competence factor transport protein ComB	NA	NA	NA	NA	NA
VFI38519.1|25658_26366_+	phosphoribosylaminoimidazole-succinocarboxamide synthetase	NA	A0A1D8KNF0	Synechococcus_phage	39.2	1.3e-41
VFI38526.1|26567_30293_+	phosphoribosylformylglycinamidine synthase II (FGAM synthetase)	NA	A6N228	Microbacterium_phage	25.8	2.1e-37
VFI38533.1|30385_31828_+	amidophosphoribosyltransferase	NA	A0A0M3SGR2	Mollivirus	35.1	5.7e-55
VFI38540.1|31864_32887_+	phosphoribosylaminoimidazole synthetase	NA	A0A1D7SE90	Cyanophage	43.9	1.2e-64
VFI38547.1|32883_33429_+	phosphoribosylglycinamide formyltransferase	NA	M4QRX9	Synechococcus_phage	35.0	5.7e-24
>prophage 2
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	85089	112798	2120740	transposase,bacteriocin,tRNA	Streptococcus_phage(66.67%)	32	NA	NA
VFI38910.1|85089_85377_+|bacteriocin	bacteriocin, putative	bacteriocin	NA	NA	NA	NA
VFI38917.1|85428_87537_+|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
VFI38924.1|87533_88175_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	34.8	4.3e-23
VFI38932.1|88381_89188_+	amino acid ABC transporter periplasmic amino acid-binding protein	NA	NA	NA	NA	NA
VFI38935.1|89204_89624_+	argininosuccinate synthase, truncation	NA	NA	NA	NA	NA
VFI38943.1|89912_90776_-	helix-turn-helix domain protein	NA	NA	NA	NA	NA
VFI38950.1|91241_91580_+	transporter truncation	NA	NA	NA	NA	NA
VFI38957.1|91557_91929_+	Membrane protein	NA	NA	NA	NA	NA
VFI38964.1|91936_92149_+	Membrane protein	NA	NA	NA	NA	NA
VFI38971.1|92522_92648_+	Membrane protein	NA	NA	NA	NA	NA
VFI38978.1|92628_92874_+|bacteriocin	putative bacteriocin	bacteriocin	NA	NA	NA	NA
VFI38985.1|93030_94089_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI38991.1|94403_95381_+	Leader peptidase	NA	NA	NA	NA	NA
VFI38998.1|95738_96113_+	Membrane protein	NA	NA	NA	NA	NA
VFI39006.1|96320_97223_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI39013.1|97278_97611_+	Membrane protein	NA	NA	NA	NA	NA
VFI39020.1|97607_98336_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI39028.1|98813_99020_+|bacteriocin	putative bacteriocin	bacteriocin	NA	NA	NA	NA
VFI39035.1|99860_101690_+	pspA	NA	NA	NA	NA	NA
VFI39042.1|102094_103216_+|tRNA	tRNA-specific 2-thiouridylase MnmA	tRNA	NA	NA	NA	NA
VFI39049.1|103356_103812_+	mutT/nudix family protein	NA	NA	NA	NA	NA
VFI39056.1|103821_105735_+|tRNA	tRNA uridine 5-carboxymethylaminomethyl modification protein GidA	tRNA	NA	NA	NA	NA
VFI39063.1|106086_107766_-	metallo-beta-lactamase superfamily protein 1	NA	NA	NA	NA	NA
VFI39070.1|107767_108001_-	transcriptional regulator	NA	NA	NA	NA	NA
VFI39077.1|108280_108388_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI39083.1|108817_108970_-|bacteriocin	bacteriocin-type signal sequence domain-containing protein	bacteriocin	NA	NA	NA	NA
VFI39090.1|108971_109157_-	excreted peptide	NA	NA	NA	NA	NA
VFI39097.1|109334_110018_+	molecular chaperone	NA	NA	NA	NA	NA
VFI39108.1|110014_110452_+	acetyltransferase	NA	NA	NA	NA	NA
VFI39116.1|110441_111452_+	O-sialoglycoprotein endopeptidase	NA	NA	NA	NA	NA
VFI39123.1|111491_111878_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	73.2	2.9e-46
VFI39130.1|112084_112798_-|transposase	IS1193, transposase, ISL3 family	transposase	A0A1S5SBP9	Streptococcus_phage	62.0	3.4e-77
>prophage 3
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	147830	155391	2120740		Streptococcus_phage(75.0%)	11	NA	NA
VFI39364.1|147830_149780_+	DNA mismatch repair protein hexB	NA	A0A1B2LRQ5	Wolbachia_phage	32.6	2.2e-70
VFI39371.1|149795_150389_+	holiday junction DNA helicase RuvA	NA	NA	NA	NA	NA
VFI39378.1|150398_150590_+	DNA-3-methyladenine glycosylase I	NA	NA	NA	NA	NA
VFI39386.1|150586_150775_+	DNA polymerase IV	NA	Q6DMX4	Streptococcus_phage	90.7	1.5e-13
VFI39393.1|150771_151017_+	Orf5	NA	A0A1B0RXA7	Streptococcus_phage	98.8	2.6e-37
VFI39401.1|151013_151349_+	ImpB/MucB/SamB family protein	NA	NA	NA	NA	NA
VFI39410.1|151361_151730_+	YolD-like protein	NA	A0A1B0RXA8	Streptococcus_phage	97.5	1.1e-58
VFI39418.1|151716_152016_+	Uncharacterised protein	NA	A0A1B0RX98	Streptococcus_phage	96.0	1.8e-48
VFI39426.1|152133_153597_-	Ribose import ATP-binding protein rbsA	NA	A0A1B0RXA0	Streptococcus_phage	97.3	3.7e-251
VFI39435.1|153617_154835_-	macrolide-efflux protein	NA	A0A2K5B2B5	Erysipelothrix_phage	90.6	5.1e-198
VFI39443.1|155220_155391_-	CbxX/CfqX family protein	NA	A0A1X9I6E4	Streptococcus_phage	98.2	3.7e-22
>prophage 4
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	247826	359462	2120740	transposase,protease,holin,integrase,tRNA	Streptococcus_phage(33.33%)	105	248606:248639	361721:361754
VFI40273.1|247826_248534_+|protease	metal-dependent CAAX amino terminal membrane protease	protease	NA	NA	NA	NA
248606:248639	attL	TGACGCGGTTTGAAGAGATTTTCGAAGAGTATAA	NA	NA	NA	NA
VFI40281.1|248762_249713_+	dihydropteroate synthase	NA	NA	NA	NA	NA
VFI40290.1|249714_251037_+	dihydrofolate synthetase	NA	NA	NA	NA	NA
VFI40298.1|251017_251572_+	GTP cyclohydrolase	NA	E7DN69	Pneumococcus_phage	44.9	4.4e-40
VFI40306.1|251614_252427_+	bifunctional folate synthesis protein	NA	NA	NA	NA	NA
VFI40314.1|252471_252789_-	Staphylococcal protein of uncharacterised function (DUF960)	NA	NA	NA	NA	NA
VFI40322.1|253145_253592_+	50S ribosomal protein L13	NA	NA	NA	NA	NA
VFI40330.1|253611_254004_+	SSU ribosomal protein S9p (S16e)	NA	NA	NA	NA	NA
VFI40334.1|254265_254688_-|integrase	phage integrase family integrase/recombinase	integrase	NA	NA	NA	NA
VFI40338.1|254834_255011_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI40347.1|255010_255136_+	filamentation induced by cAMP protein fic	NA	NA	NA	NA	NA
VFI40355.1|255412_257626_+	glycosyl hydrolase, family 31	NA	NA	NA	NA	NA
VFI40363.1|257847_258324_-	gluthatione peroxidase	NA	NA	NA	NA	NA
VFI40371.1|258546_261750_+	hyaluronidase	NA	NA	NA	NA	NA
VFI40381.1|262303_262519_+|transposase	truncated IS200 family transposase	transposase	A0A1P8BMC0	Lactococcus_phage	39.5	3.8e-08
VFI40389.1|262893_263523_-	keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase	NA	NA	NA	NA	NA
VFI40393.1|263532_264534_-	carbohydrate kinase, PfkB family	NA	NA	NA	NA	NA
VFI40403.1|264564_265206_-	galactose-6-phosphate isomerase subunit LacB	NA	NA	NA	NA	NA
VFI40411.1|265224_266040_-	gluconate 5-dehydrogenase	NA	NA	NA	NA	NA
VFI40420.1|266311_266746_+	PTS system sugar-specific transporter subunit EII	NA	NA	NA	NA	NA
VFI40428.1|266757_267948_+	glucuronyl hydrolase	NA	NA	NA	NA	NA
VFI40437.1|267958_268450_+	N-acetylgalactosamine-specific phosphotransferase EIIB	NA	NA	NA	NA	NA
VFI40439.1|268464_269244_+	PTS system, N-acetylgalactosamine-specific IIC component	NA	NA	NA	NA	NA
VFI40447.1|269230_270049_+	PTS system transporter subunit IID	NA	NA	NA	NA	NA
VFI40460.1|270048_270342_+	preprotein translocase subunit YajC	NA	NA	NA	NA	NA
VFI40467.1|270363_272265_+	oligohyaluronate lyase	NA	NA	NA	NA	NA
VFI40474.1|272324_273326_+	sugar binding transcriptional regulator RegR	NA	NA	NA	NA	NA
VFI40483.1|273435_273771_-	membrane protein	NA	NA	NA	NA	NA
VFI40492.1|273781_274024_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI40500.1|274176_274581_-	membrane protein	NA	NA	NA	NA	NA
VFI40504.1|274596_274791_-	transcriptional regulator	NA	I3VYZ1	Thermoanaerobacterium_phage	42.6	9.4e-06
VFI40512.1|274957_275908_+	S-adenosyl-methyltransferase mraW	NA	NA	NA	NA	NA
VFI40520.1|275919_276237_+	cell division protein FtsL	NA	NA	NA	NA	NA
VFI40528.1|276240_278493_+	penicillin-binding protein 2X	NA	NA	NA	NA	NA
VFI40536.1|278494_279475_+	UDP-phosphate-UDP-MurNAc-pentapeptide phospho-MurNAc-pentapeptide transferase	NA	NA	NA	NA	NA
VFI40546.1|280083_282189_+	Group II intron maturase	NA	H6X3M6	Enterobacteria_phage	37.2	1.1e-115
VFI40554.1|282625_282976_+	group II intron maturase	NA	NA	NA	NA	NA
VFI40562.1|283042_283525_-	S-ribosylhomocysteinase	NA	NA	NA	NA	NA
VFI40571.1|283619_285104_-|protease	ATP-dependent Zn protease	protease	NA	NA	NA	NA
VFI40579.1|285256_286864_+	glucan 1,6-alpha-glucosidase	NA	NA	NA	NA	NA
VFI40587.1|287929_289375_+	capsular polysaccharide biosynthesis protein Cps14A	NA	A0A1X9I5X1	Streptococcus_phage	59.9	4.0e-133
VFI40590.1|289376_290108_+	tyrosine-protein phosphatase CpsB	NA	NA	NA	NA	NA
VFI40598.1|290116_290809_+	capsular polysaccharide biosynthesis protein Cps14C	NA	A0A1X9I5E1	Streptococcus_phage	55.5	1.5e-61
VFI40606.1|290818_291502_+	capsular polysaccharide biosynthesis protein Cps14D	NA	A0A1X9I5D6	Streptococcus_phage	59.9	2.4e-72
VFI40614.1|291517_292885_+	glucosyl-1-phosphate transferase	NA	NA	NA	NA	NA
VFI40622.1|292888_293338_+	putative glycosyl transferase enhancer	NA	NA	NA	NA	NA
VFI40630.1|293337_293841_+	ss-1,4-galactosyltransferase	NA	NA	NA	NA	NA
VFI40638.1|293830_295003_+	polysaccharide polymerase	NA	NA	NA	NA	NA
VFI40646.1|294999_296019_+	ss-1,3-N-acetylglucosaminyltransferase	NA	NA	NA	NA	NA
VFI40655.1|296033_296990_+	ss-1,4-galactosyltransferase	NA	A0A1V0SAH6	Catovirus	39.3	1.6e-13
VFI40663.1|297077_297926_+	capsular polysaccharide synthesis protein	NA	A0A0E3FM02	Synechococcus_phage	30.7	7.8e-12
VFI40671.1|297918_299382_+	transporter	NA	NA	NA	NA	NA
VFI40679.1|299365_299698_+	Glycero-transferase	NA	NA	NA	NA	NA
VFI40687.1|299694_300012_+	Glycero-transferase	NA	NA	NA	NA	NA
VFI40695.1|300124_303598_+	putative surface anchored protein	NA	NA	NA	NA	NA
VFI40704.1|303752_304280_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	96.6	7.5e-90
VFI40713.1|304276_304564_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	68.2	1.6e-22
VFI40721.1|304560_305079_-|transposase	IS1167 transposase	transposase	A0A1S5SBP9	Streptococcus_phage	87.3	2.3e-75
VFI40728.1|305317_307300_+	oligopeptide ABC transporter oligopeptide-binding protein AliA	NA	NA	NA	NA	NA
VFI40737.1|307600_312904_+	endo-alpha-N-acetylgalactosaminidase	NA	NA	NA	NA	NA
VFI40744.1|313070_315230_-	penicillin-binding protein 1A	NA	NA	NA	NA	NA
VFI40754.1|315226_315823_-	recombination protein U	NA	A0A1L2JY30	Aeribacillus_phage	33.9	1.5e-17
VFI40762.1|315889_316417_+	UPF0398 protein SSU05	NA	NA	NA	NA	NA
VFI40766.1|316486_316816_+	cell division initiation protein	NA	NA	NA	NA	NA
VFI40776.1|317301_318459_+	N-6 adenine-specific DNA methylase	NA	NA	NA	NA	NA
VFI40785.1|318471_319866_+	Holliday junction-specific endonuclease	NA	NA	NA	NA	NA
VFI40787.1|319941_321366_+|holin	choline binding protein J	holin	M4QQM4	Ostreococcus_lucimarinus_virus	29.4	7.9e-41
VFI40796.1|321377_322067_+|holin	choline binding protein J	holin	NA	NA	NA	NA
VFI40804.1|322134_323391_-|transposase	IS1167, transposase	transposase	A0A1S5SBP9	Streptococcus_phage	94.0	5.4e-227
VFI40812.1|323586_324552_+|holin	choline-binding protein F	holin	NA	NA	NA	NA
VFI40820.1|324570_325569_+|holin	choline binding protein J	holin	NA	NA	NA	NA
VFI40828.1|325686_326919_-	major facilitator superfamily permease	NA	NA	NA	NA	NA
VFI40840.1|326929_327550_-	lanthionine synthetase C-like protein	NA	NA	NA	NA	NA
VFI40848.1|328449_328728_+|holin	choline binding protein C	holin	NA	NA	NA	NA
VFI40856.1|328902_329781_+	mevalonate kinase	NA	NA	NA	NA	NA
VFI40865.1|329762_330716_+	diphosphomevalonate decarboxylase	NA	NA	NA	NA	NA
VFI40868.1|330702_331710_+	phosphomevalonate kinase	NA	NA	NA	NA	NA
VFI40877.1|331693_332704_+	isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2	NA	NA	NA	NA	NA
VFI40885.1|332780_333479_+	transporter	NA	NA	NA	NA	NA
VFI40893.1|333475_334471_+	histidine kinase	NA	NA	NA	NA	NA
VFI40903.1|334484_335117_+	response regulator	NA	NA	NA	NA	NA
VFI40911.1|335117_335360_+	putative DNA alkylation repair enzyme	NA	NA	NA	NA	NA
VFI40919.1|336036_336276_+	V8-like Glu-specific endopeptidase	NA	NA	NA	NA	NA
VFI40927.1|336272_337178_+|holin	choline binding protein G	holin	NA	NA	NA	NA
VFI40935.1|337196_337622_+|holin	choline-binding protein F, point mutation	holin	NA	NA	NA	NA
VFI40943.1|337739_338219_+|holin	choline-binding protein F, point mutation	holin	NA	NA	NA	NA
VFI40951.1|338346_338532_-|transposase	IS3-Spn1 transposase	transposase	A0A2I6AZV9	Macacine_betaherpesvirus	50.0	2.7e-10
VFI40959.1|338479_338710_-|transposase	IS3-Spn1 transposase	transposase	A0A2I6AZV9	Macacine_betaherpesvirus	57.4	1.4e-08
VFI40967.1|338771_339044_-|transposase	IS3-Spn1 transposase	transposase	A0A1B1P773	Bacillus_phage	48.1	5.0e-13
VFI40975.1|339269_339539_-|transposase	degenerate transposase (Orf1)	transposase	NA	NA	NA	NA
VFI40983.1|339690_341460_+	PTS system mannitol-specific transporter subunit EIIBC	NA	NA	NA	NA	NA
VFI40991.1|341483_343439_+	putative transcriptional regulator MtlR	NA	NA	NA	NA	NA
VFI40999.1|343440_343878_+	mannitol-specific phosphotransferase EIIA	NA	NA	NA	NA	NA
VFI41007.1|343939_345076_+	mannitol-1-phosphate 5-dehydrogenase	NA	NA	NA	NA	NA
VFI41016.1|345919_347203_+	FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor)	NA	NA	NA	NA	NA
VFI41024.1|347250_349617_-	recombinase D	NA	A0A0K2FLP8	Brevibacillus_phage	27.3	3.7e-59
VFI41032.1|349850_350465_-	signal peptidase I	NA	NA	NA	NA	NA
VFI41040.1|350476_351349_-	ribonuclease HIII	NA	NA	NA	NA	NA
VFI41049.1|351435_351738_+|tRNA	seryl-tRNA synthetase	tRNA	NA	NA	NA	NA
VFI41052.1|351734_352283_+	CvpA family protein	NA	NA	NA	NA	NA
VFI41060.1|352386_354723_+	mismatch repair ATPase (MutS family)	NA	Q94M10	Lactobacillus_phage	55.1	1.3e-21
VFI41068.1|355065_356388_+	Na+/alanine symporter	NA	NA	NA	NA	NA
VFI41076.1|356605_357154_+	macrophage infectivity potentiator protein	NA	NA	NA	NA	NA
VFI41078.1|357263_358163_+	exfoliative toxin	NA	NA	NA	NA	NA
VFI41081.1|358187_359462_-|tRNA	seryl-tRNA synthetase	tRNA	A0A1B1IVT2	uncultured_Mediterranean_phage	48.5	9.7e-91
361721:361754	attR	TGACGCGGTTTGAAGAGATTTTCGAAGAGTATAA	NA	NA	NA	NA
>prophage 5
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	375087	433122	2120740	transposase,integrase,tRNA	Planktothrix_phage(18.18%)	54	430100:430159	433785:433890
VFI41256.1|375087_376530_-|tRNA	glutamyl tRNA-Gln amidotransferase chain B	tRNA	NA	NA	NA	NA
VFI41264.1|376529_377996_-|tRNA	glutamyl-tRNA(Gln) amidotransferase, A subunit	tRNA	NA	NA	NA	NA
VFI41272.1|377995_378298_-|tRNA	aspartyl/glutamyl-tRNA amidotransferase subunit C	tRNA	NA	NA	NA	NA
VFI41280.1|378510_380055_+	regulator of gtfB	NA	A0A1B0RXH7	Streptococcus_phage	28.5	8.3e-36
VFI41284.1|380309_380507_+	glycosyl transferase, family 8	NA	NA	NA	NA	NA
VFI41292.1|381081_381567_-|transposase	IS1202 transposase	transposase	NA	NA	NA	NA
VFI41295.1|381771_381960_+	LSU ribosomal protein L28p	NA	NA	NA	NA	NA
VFI41302.1|382116_382482_+	alkaline shock protein	NA	NA	NA	NA	NA
VFI41307.1|382484_384152_+	kinase	NA	NA	NA	NA	NA
VFI41315.1|384352_386053_+	acetolactate synthase large subunit	NA	A0A0P0YLY7	Yellowstone_lake_phycodnavirus	32.2	1.2e-67
VFI41319.1|386045_386522_+	acetolactate synthase 3 regulatory subunit	NA	NA	NA	NA	NA
VFI41329.1|386587_387610_+	ketol-acid reductoisomerase	NA	NA	NA	NA	NA
VFI41337.1|387716_387953_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI41350.1|388190_388547_+	ketol-acid reductoisomerase	NA	NA	NA	NA	NA
VFI41356.1|388596_389847_+	threonine dehydratase	NA	NA	NA	NA	NA
VFI41364.1|390730_390946_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI41372.1|391054_391795_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	37.9	2.0e-27
VFI41380.1|391794_393360_-	ABC transporter-amino acid transport; amino acid-binding protein/permease protein	NA	NA	NA	NA	NA
VFI41388.1|393497_395387_+	Predicted membrane protein (DUF2207)	NA	NA	NA	NA	NA
VFI41397.1|395765_396236_-|transposase	degenerate transposase	transposase	A0A1B1P7S0	Bacillus_phage	39.5	5.1e-05
VFI41405.1|396433_396556_-|transposase	degenerate transposase	transposase	NA	NA	NA	NA
VFI41414.1|396811_397657_+	undecaprenol kinase	NA	NA	NA	NA	NA
VFI41422.1|398040_399102_-	DNA polymerase IV	NA	NA	NA	NA	NA
VFI41428.1|399449_401774_+	pyruvate formate-lyase	NA	A0A2P0VNR5	Tetraselmis_virus	32.9	7.9e-115
VFI41436.1|402141_402360_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI41440.1|402686_402971_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI41448.1|403582_403753_-|transposase	ISSpo8 transposase	transposase	NA	NA	NA	NA
VFI41456.1|404313_404772_+	PTS system lactose-specific transporter subunit IIBC	NA	NA	NA	NA	NA
VFI41464.1|404897_406337_-	potassium uptake protein	NA	NA	NA	NA	NA
VFI41472.1|406340_407690_-	potassium uptake protein	NA	NA	NA	NA	NA
VFI41481.1|407877_408726_+	Molybdate/tungstate binding protein	NA	NA	NA	NA	NA
VFI41489.1|408740_409289_+	protein YdcD	NA	NA	NA	NA	NA
VFI41497.1|409295_409553_+	N-ethylammeline chlorohydrolase	NA	NA	NA	NA	NA
VFI41507.1|409654_411337_+	cobalt ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	34.9	2.6e-19
VFI41516.1|411321_412152_+	ABC transporter permease	NA	NA	NA	NA	NA
VFI41523.1|412344_412848_+	RNA methyltransferase	NA	NA	NA	NA	NA
VFI41531.1|413300_413864_+	riboflavin transporter	NA	NA	NA	NA	NA
VFI41540.1|413853_414504_+	phosphatase	NA	NA	NA	NA	NA
VFI41549.1|414531_414921_+	putative histone acetyltransferase	NA	NA	NA	NA	NA
VFI41557.1|414925_415375_+	sortase-like acyltransferase	NA	NA	NA	NA	NA
VFI41565.1|415502_416090_+	DNA-dependent RNA Polymerase, delta subunit (RNAP delta factor)	NA	NA	NA	NA	NA
VFI41573.1|416479_418087_+	CTP synthetase	NA	A0A1J0FA14	Only_Syngen_Nebraska_virus	47.0	8.9e-142
VFI41581.1|418645_420277_-	sodium-dependent phosphate transporter	NA	NA	NA	NA	NA
VFI41589.1|420565_425506_+	endo-beta-N-acetylglucosaminidase	NA	NA	NA	NA	NA
VFI41597.1|425595_426792_+	phosphoglycerate kinase	NA	NA	NA	NA	NA
VFI41605.1|426927_427455_+	membrane protein	NA	NA	NA	NA	NA
VFI41613.1|427531_427888_+	transcriptional repressor of the glutamine synthetase gene	NA	NA	NA	NA	NA
VFI41621.1|427924_429271_+	glutamate-ammonia ligase	NA	NA	NA	NA	NA
VFI41629.1|429444_429594_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI41637.1|430060_430765_+	type I restriction enzyme	NA	A0A1V0SLK8	Klosneuvirus	30.1	4.5e-13
430100:430159	attL	GAAAAAATACGAGCAGAAAAACAAAAACTCTTTGAAGAAGGCAAGATTAAAAAGAAAGAT	NA	NA	NA	NA
VFI41646.1|430712_431255_-	type I restriction modification DNA specificity domain-containing protein	NA	NA	NA	NA	NA
VFI41656.1|431325_431817_-|integrase	integrase/recombinase, phage integrase family	integrase	A0A0H4TI16	Erysipelothrix_phage	31.1	2.8e-14
VFI41664.1|431813_432314_-	putative type I restriction-modification system S protein	NA	E3T4D5	Cafeteria_roenbergensis_virus	35.9	8.1e-09
VFI41672.1|432324_433122_-|integrase	integrase/recombinase, phage integrase family	integrase	A0A0H4TI16	Erysipelothrix_phage	28.7	1.3e-21
433785:433890	attR	ATCTTTCTTTTTAATCTTGCCTTCTTCAAAGAGTTTTTGTTTTTCTGCTCGTATTTTTTCAAGTAAAACTTCGACTGATTCATCATTTGGGTCTTGTTCAACTAAT	NA	NA	NA	NA
>prophage 6
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	453108	484085	2120740	transposase,bacteriocin,tRNA,protease	Bacillus_phage(40.0%)	40	NA	NA
VFI41831.1|453108_453264_-|bacteriocin	peptide pheromone BlpC (bacteriocin-like peptide)	bacteriocin	NA	NA	NA	NA
VFI41839.1|453320_454682_-	BlpC ABC transporter	NA	NA	NA	NA	NA
VFI41848.1|454692_456846_-	competence factor transporting ATP-binding protein/permease ComA	NA	W8CYL7	Bacillus_phage	27.6	8.2e-42
VFI41856.1|457126_457357_+|bacteriocin	bacteriocin-like peptide N BlpN	bacteriocin	NA	NA	NA	NA
VFI41865.1|457775_457940_+	putative immunity protein	NA	NA	NA	NA	NA
VFI41873.1|457936_458341_+	immunity protein BlpL	NA	NA	NA	NA	NA
VFI41881.1|458538_458727_+	mobile genetic element	NA	NA	NA	NA	NA
VFI41886.1|458954_459344_+|transposase	transposase	transposase	NA	NA	NA	NA
VFI41894.1|459545_459800_+	BlpM	NA	NA	NA	NA	NA
VFI41898.1|459815_460019_+	blpN protein	NA	NA	NA	NA	NA
VFI41906.1|460274_460412_+|bacteriocin	bacteriocin BlpO	bacteriocin	NA	NA	NA	NA
VFI41914.1|461420_461804_+	putative immunity protein BlpX	NA	NA	NA	NA	NA
VFI41924.1|461855_462545_+|protease	metal-dependent CAAX amino terminal membrane protease	protease	NA	NA	NA	NA
VFI41932.1|462586_462820_+	immunity protein BlpZ	NA	NA	NA	NA	NA
VFI41941.1|462970_463582_+|protease	CAAX amino terminal protease family protein	protease	NA	NA	NA	NA
VFI41950.1|463742_464537_+	aminoglycoside phosphotransferase	NA	NA	NA	NA	NA
VFI41958.1|464533_465169_+|tRNA	tRNA (guanine-N(7)-)-methyltransferase	tRNA	NA	NA	NA	NA
VFI41966.1|465247_465775_+	SP14.3 protein	NA	NA	NA	NA	NA
VFI41974.1|465830_466955_+	transcription elongation factor NusA	NA	NA	NA	NA	NA
VFI41982.1|466976_467270_+	cytosolic protein YlxR	NA	NA	NA	NA	NA
VFI41990.1|467262_467562_+	L7A family ribosomal protein	NA	NA	NA	NA	NA
VFI41998.1|467578_470371_+	translation initiation factor IF-2	NA	A0A2H4UTS4	Bodo_saltans_virus	22.9	3.3e-19
VFI42003.1|470621_470972_+	ribosome-binding factor A	NA	NA	NA	NA	NA
VFI42011.1|471250_472030_+	ABC transporter ATPase	NA	NA	NA	NA	NA
VFI42019.1|472031_472214_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI42029.1|472210_472351_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI42037.1|472664_472898_+	Domain of uncharacterised function (DUF1858)	NA	NA	NA	NA	NA
VFI42045.1|472897_474232_+	hemerythrin HHE cation binding domain subfamily	NA	NA	NA	NA	NA
VFI42053.1|474241_474496_+	aldose 1-epimerase	NA	NA	NA	NA	NA
VFI42061.1|474591_474987_+	Helicase	NA	NA	NA	NA	NA
VFI42065.1|475398_475794_+	conserved protein/domain typically associated with flavoprotein oxygenase, Dim6/ntab family	NA	NA	NA	NA	NA
VFI42073.1|475833_476394_+	acetyltransferase, gnat family	NA	NA	NA	NA	NA
VFI42082.1|476393_476972_+	shikimate kinase	NA	NA	NA	NA	NA
VFI42090.1|476964_479616_+|tRNA	valyl-tRNA synthetase	tRNA	A0A1V0S951	Catovirus	40.9	3.5e-151
VFI42098.1|479696_479861_+	type II DNA modification methyltransferase, truncation	NA	NA	NA	NA	NA
VFI42106.1|479911_481516_+	Uncharacterized conserved protein	NA	NA	NA	NA	NA
VFI42114.1|481895_482699_+	Fic protein family	NA	NA	NA	NA	NA
VFI42122.1|482814_483303_-|transposase	IS3-Spn1 transposase, truncation	transposase	A0A2I6AZV9	Macacine_betaherpesvirus	50.9	9.6e-39
VFI42131.1|483278_483647_-|transposase	degenerate transposase (Orf2)	transposase	A0A1B1P773	Bacillus_phage	53.6	8.9e-13
VFI42140.1|483872_484085_-|transposase	transposase orfA, ISSmu1	transposase	NA	NA	NA	NA
>prophage 7
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	548755	598980	2120740	bacteriocin,transposase,protease,holin,tRNA	Staphylococcus_prophage(25.0%)	41	NA	NA
VFI42621.1|548755_555187_+|protease	serine protease	protease	NA	NA	NA	NA
VFI42630.1|555813_556290_+	PTS system transporter subunit IIA	NA	NA	NA	NA	NA
VFI42638.1|556327_556633_+	PTS system IIB component (galactitol/fructose specific)	NA	NA	NA	NA	NA
VFI42646.1|556680_558156_+	PTS system galactitol-specific family transporter subunit IIC	NA	NA	NA	NA	NA
VFI42654.1|558422_558767_+	beta-galactosidase	NA	NA	NA	NA	NA
VFI42662.1|558857_565124_+	beta-galactosidase	NA	NA	NA	NA	NA
VFI42670.1|565371_565995_-|transposase	transposase	transposase	Q9MBP7	Staphylococcus_prophage	40.0	2.3e-05
VFI42672.1|565982_566228_-|transposase	transposase	transposase	Q9MBP7	Staphylococcus_prophage	44.9	7.7e-13
VFI42680.1|566439_566799_-	integral membrane protein	NA	NA	NA	NA	NA
VFI42683.1|566890_567400_+	radical SAM family protein	NA	NA	NA	NA	NA
VFI42691.1|567400_567805_+	putative Fe-S oxidoreductase	NA	A0A2H4PQV5	Staphylococcus_phage	51.1	5.9e-34
VFI42699.1|567830_568388_+	SAM-dependent methyltransferase	NA	A0A2H4PQV0	Staphylococcus_phage	40.9	2.4e-33
VFI42707.1|568380_568530_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI42715.1|568504_569929_+	sodium hydrogen exchange transporter	NA	NA	NA	NA	NA
VFI42723.1|570107_570968_+	ribonuclease BN	NA	NA	NA	NA	NA
VFI42731.1|571178_571889_+	cytochrome c-type biogenesis protein	NA	NA	NA	NA	NA
VFI42739.1|571908_572475_+	thioredoxin	NA	NA	NA	NA	NA
VFI42748.1|572485_573598_+	peptide methionine sulfoxide reductase	NA	NA	NA	NA	NA
VFI42754.1|573955_574693_+	DNA-binding response regulator	NA	NA	NA	NA	NA
VFI42762.1|574689_576381_+	histidine kinase	NA	Q9EYF3	Enterobacteria_phage	32.7	9.4e-25
VFI42770.1|576496_577060_+	UPF0340 protein SSU05	NA	NA	NA	NA	NA
VFI42779.1|577081_583024_+|protease	zinc metalloprotease ZmpB	protease	NA	NA	NA	NA
VFI42787.1|583084_584806_+	chorismate binding enzyme para-aminobenzoate synthetase	NA	A0A0B5J984	Pandoravirus	29.9	1.2e-38
VFI42795.1|584806_585424_+	putative alpha/beta superfamily hydrolase	NA	NA	NA	NA	NA
VFI42805.1|585473_586472_+|holin	choline binding protein	holin	NA	NA	NA	NA
VFI42815.1|586598_587558_+	glucokinase	NA	NA	NA	NA	NA
VFI42823.1|587654_588494_+	thymidylate synthase	NA	U5J9N5	Bacillus_phage	54.6	3.6e-86
VFI42832.1|588541_588712_-	putative uncharacterized protein ORF 3	NA	NA	NA	NA	NA
VFI42840.1|588832_589717_+|tRNA	tRNA delta(2)-isopentenylpyrophosphate transferase	tRNA	NA	NA	NA	NA
VFI42850.1|589709_590948_+	GTP-binding protein HflX	NA	NA	NA	NA	NA
VFI42859.1|590940_591564_+	cystathionine beta-lyase	NA	NA	NA	NA	NA
VFI42863.1|591578_592508_+	hydrolase	NA	NA	NA	NA	NA
VFI42871.1|592528_593284_+	dehydrogenase	NA	NA	NA	NA	NA
VFI42879.1|593337_594306_-	transcriptional regulator	NA	A0A2H4J8I9	uncultured_Caudovirales_phage	28.9	1.5e-06
VFI42887.1|594309_594579_+	hypothetical cytosolic protein	NA	NA	NA	NA	NA
VFI42896.1|594578_594959_+	rhodanese family protein	NA	NA	NA	NA	NA
VFI42905.1|595077_595275_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI42913.1|595314_596040_-	ribosomal small subunit pseudouridine synthase A	NA	NA	NA	NA	NA
VFI42921.1|596201_598043_+	GTP-binding protein TypA	NA	NA	NA	NA	NA
VFI42933.1|598062_598317_+	membrane protein	NA	NA	NA	NA	NA
VFI42941.1|598632_598980_+|bacteriocin	lactococcin 972 family bacteriocin	bacteriocin	NA	NA	NA	NA
>prophage 8
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	684240	788019	2120740	transposase,integrase,tRNA,protease	Streptococcus_phage(15.62%)	108	778098:778120	780503:780525
VFI43711.1|684240_686238_+|tRNA	methionyl-tRNA synthetase	tRNA	A0A1V0SEZ7	Hokovirus	31.2	1.8e-83
VFI43722.1|686523_686844_+	PadR family transcriptional regulator	NA	NA	NA	NA	NA
VFI43730.1|686847_687663_+	membrane protein	NA	NA	NA	NA	NA
VFI43738.1|687737_688664_+	aldo/keto reductase family oxidoreductase	NA	NA	NA	NA	NA
VFI43747.1|688759_688996_+|tRNA	methionine--tRNA ligase	tRNA	NA	NA	NA	NA
VFI43755.1|688988_689687_+	short chain dehydrogenase	NA	A0A0K0KVL6	Prochlorococcus_phage	30.9	6.2e-07
VFI43764.1|689697_690198_+	NTP pyrophosphohydrolase including oxidative damage repair enzymes	NA	NA	NA	NA	NA
VFI43768.1|690175_691045_+	PEP-utilizing enzyme family protein	NA	NA	NA	NA	NA
VFI43776.1|691019_691460_+	acetyltransferase	NA	NA	NA	NA	NA
VFI43786.1|691582_694129_+	aminopeptidase N	NA	A0A0P0IY26	Acinetobacter_phage	27.1	1.3e-73
VFI43794.1|694237_694912_+	DNA-binding response regulator CiaR	NA	W8CYM9	Bacillus_phage	33.6	3.1e-27
VFI43802.1|694901_696236_+	histidine kinase	NA	Q8QNA2	Ectocarpus_siliculosus_virus	34.0	1.2e-06
VFI43808.1|696269_696557_-	membrane protein	NA	NA	NA	NA	NA
VFI43817.1|696696_697626_+	U32 family peptidase	NA	NA	NA	NA	NA
VFI43827.1|697825_700276_+	ATP-dependent helicase DinG	NA	A0A1X9I5C8	Streptococcus_phage	47.7	2.6e-201
VFI43835.1|700312_701536_+	RodA	NA	NA	NA	NA	NA
VFI43844.1|701546_702101_+	4-methyl-5(b-hydroxyethyl)-thiazole monophosphate biosynthesis protein	NA	A0A0N7KVR4	Yellowstone_lake_phycodnavirus	27.2	6.4e-07
VFI43852.1|702176_702749_+	phosphatase	NA	NA	NA	NA	NA
VFI43860.1|702763_704710_+	DNA gyrase subunit B	NA	G3M9Z3	Bacillus_virus	45.6	3.2e-146
VFI43868.1|704791_706519_+	septation ring formation regulator EzrA	NA	NA	NA	NA	NA
VFI43876.1|707825_708125_-	Domain of uncharacterised function (DUF1827)	NA	NA	NA	NA	NA
VFI43884.1|708289_708754_-	mutT/nudix family protein	NA	NA	NA	NA	NA
VFI43892.1|708821_709220_+|transposase	IS630-Spn1, transposase Orf1	transposase	NA	NA	NA	NA
VFI43899.1|709328_709667_+|transposase	IS630-Spn1, transposase Orf2	transposase	NA	NA	NA	NA
VFI43907.1|709873_712132_-|protease	ATP-dependent Clp protease, ATP-binding subunit	protease	K4FB40	Cronobacter_phage	40.4	4.6e-128
VFI43915.1|712360_712591_-	Protein of uncharacterised function (DUF1797)	NA	NA	NA	NA	NA
VFI43924.1|712780_713464_+	amino acid ABC transporter permease	NA	NA	NA	NA	NA
VFI43934.1|713463_714198_+	amino acid ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	43.1	1.3e-36
VFI43942.1|714351_715209_+	FolD bifunctional protein; includes: methylenetetrahydrofolate dehydrogenase, methenyltetrahydrofolate cyclohydrolase	NA	A0A249XZQ2	Enterococcus_phage	41.5	6.8e-40
VFI43950.1|715346_716168_+	ABC-type phosphate transport system, ATPase component	NA	NA	NA	NA	NA
VFI43959.1|716182_717055_+	carbohydrate kinase	NA	NA	NA	NA	NA
VFI43967.1|717336_718020_+	ribose-5-phosphate isomerase A	NA	NA	NA	NA	NA
VFI43975.1|718033_719245_+	phosphopentomutase	NA	NA	NA	NA	NA
VFI43984.1|719246_719420_+	phosphopentomutase	NA	NA	NA	NA	NA
VFI43992.1|719534_719804_+	phosphopentomutase	NA	NA	NA	NA	NA
VFI44000.1|719803_720613_+	purine nucleoside phosphorylase	NA	NA	NA	NA	NA
VFI44008.1|721076_721484_+	topology modulation protein	NA	NA	NA	NA	NA
VFI44017.1|721493_722069_+	thiol-activated cytolysin	NA	NA	NA	NA	NA
VFI44025.1|722093_722606_+	pneumolysin	NA	NA	NA	NA	NA
VFI44030.1|723263_723974_+	purine nucleoside phosphorylase	NA	NA	NA	NA	NA
VFI44038.1|723996_724521_-	topology modulation protein	NA	A0A097BYE2	Leuconostoc_phage	40.6	1.2e-26
VFI44046.1|724573_724810_-	putative 30S ribosomal protein S20	NA	NA	NA	NA	NA
VFI44054.1|724877_725798_-	pantothenate kinase	NA	NA	NA	NA	NA
VFI44063.1|725987_726392_+	membrane protein (pseudogene)	NA	NA	NA	NA	NA
VFI44071.1|726607_727189_+	16S RNA G1207 methylase RsmC	NA	NA	NA	NA	NA
VFI44079.1|727185_728463_+	thymidine phosphorylase	NA	A0A0H3UZD4	Geobacillus_virus	52.0	2.8e-114
VFI44088.1|728480_729143_+	deoxyribose-phosphate aldolase	NA	NA	NA	NA	NA
VFI44094.1|729129_729519_+	cytidine deaminase	NA	NA	NA	NA	NA
VFI44102.1|729608_730661_+	lipoprotein	NA	NA	NA	NA	NA
VFI44110.1|730804_732340_+	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	32.5	1.4e-19
VFI44118.1|732332_733391_+	sugar ABC transporter permease	NA	NA	NA	NA	NA
VFI44130.1|733393_734350_+	ABC transporter, membrane-spanning permease	NA	NA	NA	NA	NA
VFI44138.1|734434_734647_+|transposase	transposase orfA, ISSmu1	transposase	NA	NA	NA	NA
VFI44146.1|734782_734950_+|transposase	IS3-Spn1 transposase	transposase	NA	NA	NA	NA
VFI44154.1|734949_735222_+|transposase	IS3-Spn1 transposase	transposase	A0A1B1P773	Bacillus_phage	50.6	4.5e-14
VFI44163.1|735283_735772_+|transposase	IS3-Spn1 transposase, truncation	transposase	A0A2I6AZV9	Macacine_betaherpesvirus	51.6	2.5e-39
VFI44168.1|735814_736456_-	putative glycerol-3-phosphate acyltransferase PlsY	NA	NA	NA	NA	NA
VFI44176.1|736591_738535_+	topoisomerase IV subunit B	NA	G3M9Z3	Bacillus_virus	43.0	7.0e-125
VFI44181.1|738534_738642_+	N-6 DNA methylase	NA	NA	NA	NA	NA
VFI44189.1|738990_741426_+	topoisomerase IV subunit A, ParC	NA	G3M9Z5	Bacillus_virus	31.3	1.9e-95
VFI44197.1|741557_742580_+	branched-chain amino acid aminotransferase	NA	NA	NA	NA	NA
VFI44205.1|742635_743340_+	extracellular oligopeptide-binding protein	NA	NA	NA	NA	NA
VFI44217.1|743404_744094_+	permease	NA	NA	NA	NA	NA
VFI44225.1|744090_745014_+	permease	NA	NA	NA	NA	NA
VFI44233.1|745028_745673_+	pyroglutamyl-peptidase I	NA	NA	NA	NA	NA
VFI44242.1|745840_746071_+	branched-chain amino acid aminotransferase	NA	NA	NA	NA	NA
VFI44250.1|746443_747646_+	30S ribosomal protein S1	NA	NA	NA	NA	NA
VFI44259.1|747731_748259_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	96.0	1.3e-89
VFI44268.1|748255_748543_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	71.8	1.1e-23
VFI44276.1|748539_749058_-|transposase	IS1167 transposase	transposase	A0A1S5SBP9	Streptococcus_phage	88.5	3.2e-77
VFI44284.1|749249_749747_+	GAF domain-containing protein	NA	NA	NA	NA	NA
VFI44292.1|749746_751402_+	DNA polymerase III subunits gamma and tau	NA	A0A1U9WR94	Streptococcus_virus	41.9	1.1e-46
VFI44300.1|751429_751624_+	membrane protein	NA	NA	NA	NA	NA
VFI44308.1|751773_752544_+	FeS assembly ATPase SufC	NA	A0A2R8FG22	Brazilian_cedratvirus	28.5	2.5e-09
VFI44316.1|752571_753834_+	FeS assembly protein SufD	NA	NA	NA	NA	NA
VFI44324.1|753844_755071_+	class-V aminotransferase	NA	Q2XUY6	environmental_halophage	44.8	1.5e-104
VFI44333.1|755057_755498_+	nifU family protein	NA	A0A2P1CJL8	Mycobacterium_phage	39.0	1.6e-13
VFI44341.1|755551_756964_+	Iron-sulfur cluster assembly protein SufB	NA	NA	NA	NA	NA
VFI44349.1|757194_758436_-	D-alanyl-D-alanine carboxypeptidase, penicillin-binding protein 3	NA	B6DZZ7	Stx2-converting_phage	25.5	1.1e-17
VFI44357.1|758538_759648_+	putative permease	NA	NA	NA	NA	NA
VFI44366.1|760772_761549_-	Domain of uncharacterised function DUF1828	NA	NA	NA	NA	NA
VFI44371.1|761575_762046_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI44379.1|762100_762565_-	phage super infection exclusion	NA	A0A060AN66	Enterococcus_phage	41.0	3.5e-06
VFI44387.1|763169_763910_+	transcriptional repressor of fructose operon	NA	NA	NA	NA	NA
VFI44395.1|763906_764818_+	fructose-1-phosphate kinase	NA	NA	NA	NA	NA
VFI44403.1|764814_766767_+	PTS system, fructose specific IIBC component	NA	NA	NA	NA	NA
VFI44413.1|766852_769156_+	DNA translocase, cell division protein	NA	S5VNE3	Mycobacterium_phage	49.9	1.0e-85
VFI44421.1|769200_769635_-	TBC1 domain family member 8B	NA	NA	NA	NA	NA
VFI44430.1|769773_770916_+	class-V aminotransferase	NA	NA	NA	NA	NA
VFI44438.1|770924_772139_+	thiamine biosynthesis ATP pyrophosphatase	NA	NA	NA	NA	NA
VFI44446.1|772273_773098_+	Esterase	NA	NA	NA	NA	NA
VFI44457.1|773119_773455_+	esterase superfamily protein	NA	NA	NA	NA	NA
VFI44465.1|773451_773859_+	esterase	NA	NA	NA	NA	NA
VFI44473.1|773871_775038_+	carbamoylphosphate synthase large subunit	NA	NA	NA	NA	NA
VFI44481.1|775545_777039_+	type I restriction modification enzyme methylase subunit	NA	A0A2H4UVB0	Bodo_saltans_virus	31.8	3.0e-27
VFI44491.1|777051_777594_+	type I restriction-modification system subunit S	NA	NA	NA	NA	NA
VFI44500.1|777590_778709_+	type I restriction-modification system subunit S	NA	NA	NA	NA	NA
778098:778120	attL	AAATCCCGATTTAACGAGATGTT	NA	NA	NA	NA
VFI44508.1|778768_779005_+	toxin-antitoxin system, antitoxin component,AbrB family	NA	NA	NA	NA	NA
VFI44516.1|779001_779415_+	prophage maintenance system killer protein	NA	NA	NA	NA	NA
VFI44524.1|779532_780498_+|integrase	integrase/recombinase, phage integrase family protein	integrase	A0A2H4JAA2	uncultured_Caudovirales_phage	29.6	1.8e-33
VFI44532.1|780520_781006_+	type I restriction-modification system subunit S	NA	NA	NA	NA	NA
780503:780525	attR	AAATCCCGATTTAACGAGATGTT	NA	NA	NA	NA
VFI44541.1|781132_784483_+	type I restriction-modification system R subunit	NA	A0A2H4P9W3	Gordonia_phage	24.8	1.4e-11
VFI44550.1|784882_786229_-|transposase	IS1380-Spn1 transposase	transposase	A0A1X9I6F6	Streptococcus_phage	39.8	2.2e-77
VFI44558.1|786362_786485_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI44567.1|786462_786663_+	chlorohydrolase	NA	NA	NA	NA	NA
VFI44575.1|786864_787140_-|transposase	degenerate transposase	transposase	NA	NA	NA	NA
VFI44584.1|787195_787339_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI44593.1|787431_788019_+|protease	Tn5253 CAAX amino terminal protease family	protease	NA	NA	NA	NA
>prophage 9
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	806127	903068	2120740	transposase,protease,holin,integrase,tRNA	Streptococcus_phage(40.0%)	104	850383:850398	901196:901211
VFI44731.1|806127_806655_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	95.4	8.3e-89
VFI44738.1|806651_806939_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	69.4	9.6e-23
VFI44745.1|806935_807454_-|transposase	IS1167 transposase	transposase	A0A1S5SBP9	Streptococcus_phage	89.2	7.2e-77
VFI44752.1|808133_808604_-	arginine repressor	NA	NA	NA	NA	NA
VFI44760.1|808620_810894_-	x-prolyl-dipeptidyl aminopeptidase	NA	NA	NA	NA	NA
VFI44767.1|811240_814342_+	DNA-polymerase III alpha-chain	NA	A0A291AWR1	Streptomyces_phage	32.8	8.9e-114
VFI44774.1|814424_815432_+	6-phosphofructokinase	NA	NA	NA	NA	NA
VFI44781.1|815490_816996_+	pyruvate kinase	NA	NA	NA	NA	NA
VFI44788.1|818813_819686_+	lipoprotein, putative	NA	NA	NA	NA	NA
VFI44799.1|819792_820176_-|transposase	transposase-like protein, IS1381 ISSpn7	transposase	NA	NA	NA	NA
VFI44806.1|820318_820630_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI44814.1|820633_821350_+	alpha/beta hydrolase related protein	NA	NA	NA	NA	NA
VFI44821.1|821479_822295_-	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
VFI44828.1|822291_823197_-	membrnae protein	NA	NA	NA	NA	NA
VFI44835.1|823197_823329_-	putative type II restriction endonuclease DpnI	NA	NA	NA	NA	NA
VFI44842.1|823586_824906_+	capsular polysaccharide biosynthesis protein	NA	NA	NA	NA	NA
VFI44850.1|825007_827137_+	S1 RNA-binding domain-containing protein	NA	NA	NA	NA	NA
VFI44858.1|827123_827573_+	SprT family protein	NA	NA	NA	NA	NA
VFI44865.1|827630_827903_+	PspC domain-containing protein	NA	NA	NA	NA	NA
VFI44872.1|828256_828448_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI44879.1|828750_828861_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI44887.1|828875_829634_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	36.3	7.7e-27
VFI44895.1|829635_831624_+	ABC transporter, membrane-spanning protein	NA	NA	NA	NA	NA
VFI44903.1|831665_832256_-	integral membrane protein	NA	NA	NA	NA	NA
VFI44910.1|832335_833211_-|transposase	IS1239 transposase	transposase	H7BWC8	unidentified_phage	31.3	4.0e-27
VFI44917.1|833917_835393_+	ornithine decarboxylase family protein	NA	NA	NA	NA	NA
VFI44925.1|835358_836075_-	pilin gene inverting-like protein	NA	NA	NA	NA	NA
VFI44932.1|836329_837190_+	spermidine synthase	NA	NA	NA	NA	NA
VFI44939.1|837186_838446_+	dehydrogenase family protein, saccharopine dehydrogenase	NA	NA	NA	NA	NA
VFI44946.1|838445_839573_+	LysA-like decarboxylase, diaminopimelate decarboxylase putative	NA	NA	NA	NA	NA
VFI44954.1|839569_840655_+	agmatine deiminase	NA	M1HES8	Acanthocystis_turfacea_Chlorella_virus	47.2	5.9e-89
VFI44961.1|840664_841540_+	carbon-nitrogen hydrolase family protein	NA	M1H5W0	Paramecium_bursaria_Chlorella_virus	50.0	1.1e-77
VFI44968.1|841720_842530_-	Cof family protein	NA	NA	NA	NA	NA
VFI44976.1|842801_843023_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI44983.1|843076_843748_+|protease	caax amino protease family protein	protease	NA	NA	NA	NA
VFI44991.1|843989_844898_+	LysR family transcriptional regulator	NA	A0A2P0ZL89	Lactobacillus_phage	27.7	3.1e-06
VFI44998.1|844894_845356_+	lipoprotein signal peptidase, signal peptidase type II	NA	NA	NA	NA	NA
VFI45006.1|845345_846233_+	23S rluA family pseudouridine synthase	NA	NA	NA	NA	NA
VFI45017.1|846235_848119_+|holin	choline binding protein E CbpE	holin	Q332B9	Clostridium_botulinum_C_phage	22.9	1.2e-09
VFI45024.1|848219_849329_+	gamma-glutamyl kinase	NA	A0A1X9I5D0	Streptococcus_phage	58.4	8.4e-115
VFI45032.1|849338_850601_+	gamma-glutamyl phosphate reductase	NA	A0A1X9I5D4	Streptococcus_phage	64.5	2.5e-139
850383:850398	attL	ACGGAAAATGCTGAAG	NA	NA	NA	NA
VFI45039.1|850604_851402_+	pyrroline-5-carboxylate reductase	NA	A0A1X9I6T5	Streptococcus_phage	50.9	1.2e-59
VFI45042.1|851621_852260_+	thymidylate kinase	NA	M1PSC7	Streptococcus_phage	67.6	6.4e-75
VFI45049.1|852256_853147_+	DNA polymerase III, delta' subunit	NA	M1NSC1	Streptococcus_phage	51.7	4.9e-73
VFI45057.1|853186_853504_+	DNA replication intiation control protein YabA	NA	M1PFV3	Streptococcus_phage	60.0	2.9e-28
VFI45064.1|853506_854376_+	tetrapyrrole methylase	NA	M1PLC5	Streptococcus_phage	76.1	2.7e-116
VFI45072.1|854602_855121_+	DUF1706 domain-containing protein	NA	NA	NA	NA	NA
VFI45079.1|855229_855367_+	phage protein, point mutation	NA	NA	NA	NA	NA
VFI45087.1|855373_855808_+	phage protein	NA	A0A2P0VK56	Streptococcus_phage	40.0	4.6e-08
VFI45094.1|855865_856255_-	fusion of IS1381 orf A and B	NA	NA	NA	NA	NA
VFI45096.1|856271_856673_-|transposase	transposase-like protein, IS1381 ISSpn7	transposase	NA	NA	NA	NA
VFI45103.1|857079_858450_+|tRNA	tRNA (uracil-5-)-methyltransferase Gid	tRNA	NA	NA	NA	NA
VFI45110.1|858533_859271_+	uridylate kinase	NA	NA	NA	NA	NA
VFI45113.1|859279_859837_+	ribosome-recycling factor	NA	NA	NA	NA	NA
VFI45120.1|859896_860751_+	s1 RNA binding domain protein	NA	NA	NA	NA	NA
VFI45127.1|860759_860975_+	serine-type D-Ala-D-Ala carboxypeptidase	NA	NA	NA	NA	NA
VFI45135.1|861060_862029_+	PhoH family protein	NA	W8D063	Erwinia_phage	47.9	5.9e-48
VFI45143.1|862097_862499_+|transposase	transposase	transposase	NA	NA	NA	NA
VFI45147.1|862510_862888_+|transposase	transposase (IS4 family)	transposase	NA	NA	NA	NA
VFI45154.1|863070_863571_+	acetyltransferase	NA	NA	NA	NA	NA
VFI45163.1|863573_863801_+	TfoX N- domain family protein	NA	NA	NA	NA	NA
VFI45167.1|864204_864480_-	alanine dehydrogenase	NA	NA	NA	NA	NA
VFI45173.1|864476_865304_-	alanine dehydrogenase	NA	NA	NA	NA	NA
VFI45180.1|865480_866050_+	acetyltransferase	NA	NA	NA	NA	NA
VFI45189.1|866117_866768_+	competence protein	NA	NA	NA	NA	NA
VFI45196.1|866751_868992_+	competence protein CelB	NA	M1PSD2	Streptococcus_phage	52.2	7.5e-46
VFI45203.1|869391_869979_+	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	28.6	6.1e-16
VFI45210.1|869982_871167_+	ABC-type transport system involved in multi-copper enzyme maturation, permease component	NA	NA	NA	NA	NA
VFI45217.1|871420_872008_+	translation initiation factor IF-3	NA	A0A2L0UZ54	Agrobacterium_phage	32.1	2.7e-11
VFI45224.1|872040_872241_+	LSU ribosomal protein L35p	NA	NA	NA	NA	NA
VFI45230.1|872292_872652_+	LSU ribosomal protein L20p	NA	NA	NA	NA	NA
VFI45237.1|872709_873090_+	lactoylglutathione lyase	NA	NA	NA	NA	NA
VFI45244.1|873339_874140_+	dihydroorotate dehydrogenase electron transfer subunit	NA	NA	NA	NA	NA
VFI45250.1|874150_875089_+	dihydroorotate dehydrogenase 1B	NA	NA	NA	NA	NA
VFI45256.1|875187_877296_+	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase	NA	A0A143FPM9	Bacillus_phage	42.6	9.0e-25
VFI45262.1|877356_879012_-	fibronectin/fibrinogen binding protein	NA	A0A1J0F9J4	Only_Syngen_Nebraska_virus	36.5	4.7e-05
VFI45268.1|879116_879614_+|protease	putative metalloprotease	protease	NA	NA	NA	NA
VFI45274.1|879594_879990_+	diacylglycerol kinase	NA	NA	NA	NA	NA
VFI45280.1|880006_880906_+	GTP-binding protein Era	NA	NA	NA	NA	NA
VFI45286.1|880954_881779_+	formamidopyrimidine-DNA glycosylase	NA	G3MA33	Bacillus_virus	34.5	2.1e-30
VFI45288.1|881778_882384_+	dephospho-CoA kinase	NA	NA	NA	NA	NA
VFI45294.1|882370_883570_+	multidrug resistance protein MdtG	NA	NA	NA	NA	NA
VFI45300.1|883758_883992_+	membrane protein involved in protein export SecG	NA	NA	NA	NA	NA
VFI45306.1|884093_886448_+	ribonuclease R	NA	Q0GXV6	Lactococcus_phage	40.6	1.4e-90
VFI45311.1|886410_886878_+	SsrA-binding protein	NA	W5RAM5	Staphylococcus_phage	59.4	2.1e-43
VFI45317.1|886893_887754_+	tellurite resistance protein TehB	NA	NA	NA	NA	NA
VFI45323.1|887826_888780_+	competence protein	NA	NA	NA	NA	NA
VFI45330.1|888798_890601_+	oligoendopeptidase F	NA	NA	NA	NA	NA
VFI45336.1|890602_891316_+	O-methyltransferase	NA	NA	NA	NA	NA
VFI45342.1|891382_892324_+	peptidyl-prolyl isomerase	NA	NA	NA	NA	NA
VFI45348.1|892442_892784_-|integrase	integrase core subunit	integrase	A0A0C5AEA5	Paenibacillus_phage	42.6	2.2e-13
VFI45354.1|892783_892975_-|transposase	degenerate transposase (orf1)	transposase	NA	NA	NA	NA
VFI45360.1|893544_894165_-	phosphoglycerate mutase	NA	NA	NA	NA	NA
VFI45366.1|894164_894647_-	regulatory protein	NA	NA	NA	NA	NA
VFI45373.1|894646_895489_-	integral membrane protein	NA	NA	NA	NA	NA
VFI45379.1|895583_896384_-	lysozyme	NA	NA	NA	NA	NA
VFI45385.1|896527_897907_+	bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase	NA	A0A2K9L277	Tupanvirus	35.5	1.3e-32
VFI45391.1|897916_898462_+	MutT/NUDIX hydrolase family protein	NA	NA	NA	NA	NA
VFI45397.1|898473_898788_+	membrane protein	NA	NA	NA	NA	NA
VFI45403.1|898804_899497_+	5'-methylthioadenosine nucleosidase/S-adenosylhomocysteine nucleosidase	NA	NA	NA	NA	NA
VFI45409.1|899573_900065_+	DNA-binding protein	NA	NA	NA	NA	NA
VFI45415.1|900162_900753_+	DNA polymerase III subunit epsilon	NA	NA	NA	NA	NA
VFI45417.1|900761_902525_+	glycerophosphoryl diester phosphodiesterase family protein	NA	A0A0S2MYI4	Enterococcus_phage	22.2	3.0e-05
901196:901211	attR	ACGGAAAATGCTGAAG	NA	NA	NA	NA
VFI45424.1|902720_903068_+|transposase	IS630-Spn1, transposase Orf1	transposase	NA	NA	NA	NA
>prophage 10
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	962062	994201	2120740	transposase,tRNA	Streptococcus_phage(30.0%)	34	NA	NA
VFI45793.1|962062_962731_+|transposase	degenerate transposase	transposase	NA	NA	NA	NA
VFI45799.1|962832_963018_+|transposase	degenerate transposase	transposase	NA	NA	NA	NA
VFI45805.1|963120_963486_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI45811.1|964538_964889_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI45814.1|964947_965622_+	chloramphenicol acetyltransferase	NA	NA	NA	NA	NA
VFI45820.1|965689_967327_+|tRNA	methionyl-tRNA synthetase	tRNA	A0A167RM67	Powai_lake_megavirus	32.0	2.5e-75
VFI45824.1|967427_968195_+	Protein tyrosine phosphatase	NA	NA	NA	NA	NA
VFI45831.1|969217_969559_+	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
VFI45837.1|969619_970204_+	ABC transporter	NA	A0A2R8FG22	Brazilian_cedratvirus	33.0	2.2e-05
VFI45844.1|970205_970766_+	daunorubicin resistance transmembrane protein	NA	NA	NA	NA	NA
VFI45851.1|971024_971810_+	ABC transporter permease	NA	NA	NA	NA	NA
VFI45857.1|972442_972763_-|transposase	degenerate transposase	transposase	A0A1X9I5Z0	Streptococcus_phage	74.4	8.2e-23
VFI45863.1|973246_973462_-|transposase	degenerate transposase	transposase	A0A1X9I5Z0	Streptococcus_phage	82.2	5.2e-13
VFI45869.1|973885_974089_+	Cro/CI family transcriptional regulator	NA	A0A139ZPI6	Marinitoga_camini_virus	39.3	6.4e-05
VFI45874.1|974335_974485_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI45879.1|974538_976332_+|tRNA	methionyl-tRNA synthetase	tRNA	A0A2I4R675	Erysipelothrix_phage	51.8	4.0e-151
VFI45885.1|976454_977024_+	peptidase	NA	NA	NA	NA	NA
VFI45892.1|977293_977542_+	phosphotransferase	NA	NA	NA	NA	NA
VFI45898.1|977646_977841_+|transposase	transposase-like protein, IS1381 ISSpn7	transposase	NA	NA	NA	NA
VFI45904.1|978103_979333_+	cell division protein FtsW	NA	NA	NA	NA	NA
VFI45910.1|979352_982049_+	phosphoenolpyruvate carboxylase	NA	NA	NA	NA	NA
VFI45916.1|982461_983466_+	ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
VFI45922.1|983534_984401_+	ABC transporter, membrane-spanning permease	NA	NA	NA	NA	NA
VFI45931.1|984397_985156_+	ABC transporter ATP-binding protein	NA	W6JKT0	Anomala_cuprea_entomopoxvirus	27.7	1.7e-13
VFI45937.1|985245_987006_+	DNA primase	NA	A0A1S5RH72	Helicobacter_phage	28.7	2.9e-45
VFI45943.1|987008_988118_+	RNA polymerase sigma factor RpoD	NA	F4YCU2	Synechococcus_phage	38.5	2.0e-36
VFI45950.1|988131_988461_+	metal-sulfur cluster biosynthesis protein	NA	NA	NA	NA	NA
VFI45956.1|988575_989619_+	glycosyl transferase CpoA	NA	NA	NA	NA	NA
VFI45962.1|989634_990960_+	glycosyltransferase, group 1 family protein	NA	NA	NA	NA	NA
VFI45968.1|990990_991167_+	putative stress-responsive transcriptional regulator	NA	NA	NA	NA	NA
VFI45975.1|991225_991360_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI45980.1|991423_992734_+	GTP-binding protein	NA	NA	NA	NA	NA
VFI45986.1|992743_992902_+	putative extracellular protein	NA	NA	NA	NA	NA
VFI45992.1|992953_994201_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	88.2	1.2e-210
>prophage 11
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	999473	1040662	2120740	transposase,protease	Bacillus_phage(28.57%)	33	NA	NA
VFI46022.1|999473_999794_+|transposase	transposase	transposase	NA	NA	NA	NA
VFI46028.1|999836_1000145_+|transposase	degenerate transposase	transposase	NA	NA	NA	NA
VFI46034.1|1000095_1000560_+|transposase	transposase	transposase	NA	NA	NA	NA
VFI46040.1|1000750_1003042_+	ATP-dependent DNA helicase PcrA	NA	A7KV33	Bacillus_phage	41.1	9.5e-129
VFI46046.1|1003084_1003765_+	DNA repair protein RadC	NA	NA	NA	NA	NA
VFI46052.1|1003761_1004451_-	glutamine amidotransferase, class I	NA	NA	NA	NA	NA
VFI46058.1|1004468_1005110_-	DNA-binding protein	NA	NA	NA	NA	NA
VFI46065.1|1005192_1005408_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI46071.1|1005415_1005763_-	cytosolic protein	NA	NA	NA	NA	NA
VFI46077.1|1005767_1006883_-	aminotransferase class-V	NA	H7BUW1	unidentified_phage	36.8	1.0e-27
VFI46083.1|1006892_1007852_-	ribose-phosphate pyrophosphokinase	NA	A0A2K9L2G2	Tupanvirus	32.8	9.3e-38
VFI46089.1|1007964_1008534_-	adenylate cyclase	NA	NA	NA	NA	NA
VFI46095.1|1008661_1009333_+	GTP pyrophosphokinase	NA	NA	NA	NA	NA
VFI46101.1|1009316_1010135_+	putative sugar kinase	NA	NA	NA	NA	NA
VFI46107.1|1010131_1011028_+	23S_rRNA pseudouridine synthase	NA	NA	NA	NA	NA
VFI46113.1|1011071_1012046_+	phosphotransacetylase	NA	NA	NA	NA	NA
VFI46119.1|1012386_1012686_-	hypothetical cytosolic protein	NA	NA	NA	NA	NA
VFI46125.1|1013099_1013786_+	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
VFI46131.1|1013973_1014288_+	50S ribosomal protein L21	NA	NA	NA	NA	NA
VFI46137.1|1014303_1014648_+	ribosomal protein	NA	NA	NA	NA	NA
VFI46143.1|1014664_1014958_+	LSU ribosomal protein L27p	NA	NA	NA	NA	NA
VFI46149.1|1015911_1016829_+	bifunctional riboflavin kinase/FMN adenylyltransferase	NA	NA	NA	NA	NA
VFI46155.1|1016921_1017770_-	YpjC	NA	M1Q1P6	Streptococcus_phage	46.5	1.4e-64
VFI46161.1|1017911_1018751_+	DegV family protein	NA	NA	NA	NA	NA
VFI46167.1|1018857_1019133_+	DNA-binding protein HU 1	NA	A7KV42	Bacillus_phage	66.3	9.2e-23
VFI46173.1|1019351_1019654_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	94.9	2.2e-49
VFI46179.1|1019768_1020005_-|transposase	IS630-Spn1, transposase Orf2	transposase	NA	NA	NA	NA
VFI46185.1|1020182_1020533_-|transposase	IS630-Spn1, transposase Orf1	transposase	NA	NA	NA	NA
VFI46192.1|1021058_1024334_+	exonuclease RexB	NA	NA	NA	NA	NA
VFI46198.1|1024330_1027981_+	ATP-dependent exoDNAse subunit beta	NA	G3MA40	Bacillus_virus	24.8	5.7e-19
VFI46204.1|1028150_1029329_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI46210.1|1029537_1035213_+|protease	immunoglobulin A1 protease	protease	NA	NA	NA	NA
VFI46213.1|1035256_1040662_+|protease	zinc metalloprotease ZmpD	protease	NA	NA	NA	NA
>prophage 12
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	1067849	1118037	2120740	transposase,bacteriocin,tRNA,protease	Streptococcus_phage(16.67%)	54	NA	NA
VFI46368.1|1067849_1068137_-|transposase	degenerate transposase	transposase	A0A1S5SBP9	Streptococcus_phage	67.1	1.1e-21
VFI46374.1|1068133_1068652_-|transposase	IS1167 transposase	transposase	A0A1S5SBP9	Streptococcus_phage	91.7	5.9e-79
VFI46376.1|1068961_1069723_+	lactose phosphotransferase system repressor	NA	NA	NA	NA	NA
VFI46380.1|1070303_1071710_-	6-phospho-beta-galactosidase	NA	NA	NA	NA	NA
VFI46386.1|1071924_1073619_-	PTS system lactose-specific transporter subunit IIBC	NA	NA	NA	NA	NA
VFI46394.1|1073620_1073938_-	PTS system lactose-specific transporter subunit IIA	NA	NA	NA	NA	NA
VFI46400.1|1073973_1074810_-	transcription antiterminator LacT	NA	NA	NA	NA	NA
VFI46406.1|1075043_1076024_-	tagatose 1,6-diphosphate aldolase	NA	NA	NA	NA	NA
VFI46413.1|1076025_1076955_-	tagatose-6-phosphate kinase	NA	NA	NA	NA	NA
VFI46419.1|1076965_1077481_-	galactose-6-phosphate isomerase subunit LacB	NA	NA	NA	NA	NA
VFI46425.1|1077511_1077937_-	galactose-6-phosphate isomerase subunit LacA	NA	NA	NA	NA	NA
VFI46431.1|1078093_1078570_-	galactose mutarotase-like enzyme	NA	NA	NA	NA	NA
VFI46437.1|1078606_1078996_-|transposase	transposase	transposase	NA	NA	NA	NA
VFI46443.1|1079141_1079426_-|transposase	IS1381, transposase OrfA	transposase	NA	NA	NA	NA
VFI46449.1|1079433_1079736_-	PTS system galactose-specific transporter subunit IIB	NA	NA	NA	NA	NA
VFI46455.1|1079773_1080250_-	PTS system transporter subunit IIA	NA	NA	NA	NA	NA
VFI46461.1|1080707_1082531_-	GTP-binding protein LepA	NA	A0A2K9L2P9	Tupanvirus	41.0	2.9e-19
VFI46467.1|1082609_1083338_-	serine/threonine protein phosphatase	NA	A0A1V0EC57	Caulobacter_phage	33.0	1.4e-14
VFI46478.1|1083339_1085007_-	DNA repair protein RecN	NA	NA	NA	NA	NA
VFI46484.1|1085013_1085445_-	transcriptional repressor protein	NA	NA	NA	NA	NA
VFI46490.1|1085437_1086253_-	rRNA methylase	NA	NA	NA	NA	NA
VFI46496.1|1086245_1087121_-	farnesyl diphosphate synthase	NA	NA	NA	NA	NA
VFI46502.1|1087117_1087330_-	exodeoxyribonuclease VII, small subunit	NA	NA	NA	NA	NA
VFI46510.1|1087307_1088648_-	exodeoxyribonuclease VII large subunit	NA	A0A1B3AYB4	Gordonia_phage	33.6	3.9e-34
VFI46516.1|1088775_1089414_-	uridine kinase	NA	A0A1V0SAA3	Catovirus	39.9	8.4e-35
VFI46522.1|1089521_1089824_-|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
VFI46528.1|1089820_1089916_-|bacteriocin	bacteriocin	bacteriocin	NA	NA	NA	NA
VFI46534.1|1090069_1090948_-|tRNA	tRNA pseudouridine synthase B	tRNA	NA	NA	NA	NA
VFI46537.1|1091048_1094234_-	membrane protein	NA	NA	NA	NA	NA
VFI46544.1|1094245_1095520_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
VFI46550.1|1095690_1096731_-	O-acetylhomoserine sulfhydrylase	NA	NA	NA	NA	NA
VFI46556.1|1096752_1096875_-	O-acetylhomoserine sulfhydrylase	NA	NA	NA	NA	NA
VFI46564.1|1097022_1097820_-	formate/nitrate transporter	NA	NA	NA	NA	NA
VFI46570.1|1098063_1098807_-	sortase SrtA	NA	NA	NA	NA	NA
VFI46575.1|1098806_1101275_-	DNA gyrase subunit A	NA	G3M9Z5	Bacillus_virus	35.5	3.5e-105
VFI46581.1|1101468_1102455_+	L-lactate dehydrogenase 1	NA	NA	NA	NA	NA
VFI46588.1|1102782_1103367_-	ion transporter	NA	A0A1B0Y2S3	Lactobacillus_phage	46.9	1.6e-16
VFI46598.1|1103413_1103677_-	cytotoxic translational repressor of toxin-antitoxin stability system	NA	NA	NA	NA	NA
VFI46603.1|1103669_1103912_-	toxin-antitoxin system, antitoxin component, ribbon-helix-helix fold protein	NA	NA	NA	NA	NA
VFI46609.1|1104002_1104812_-	metallo-beta-lactamase superfamily protein	NA	A0A0C5AFC1	Paenibacillus_phage	39.0	1.8e-34
VFI46615.1|1104813_1106163_-	histidine kinase	NA	W8CYF6	Bacillus_phage	34.3	8.8e-34
VFI46621.1|1106155_1106860_-	DNA-binding response regulator	NA	W8CYM9	Bacillus_phage	39.8	2.8e-39
VFI46627.1|1106914_1108090_-	A/G-specific adenine glycosylase	NA	NA	NA	NA	NA
VFI46633.1|1108418_1110089_-	formate-tetrahydrofolate ligase	NA	NA	NA	NA	NA
VFI46639.1|1110318_1111008_+	phosphopantothenate--cysteine ligase	NA	NA	NA	NA	NA
VFI46645.1|1111019_1111571_+	flavoprotein involved in panthothenate metabolism	NA	A0A068EHP1	Penguinpox_virus	37.6	3.1e-25
VFI46651.1|1111554_1112118_+	membrane protein	NA	NA	NA	NA	NA
VFI46657.1|1112399_1112927_+	membrane protein	NA	NA	NA	NA	NA
VFI46663.1|1112938_1113454_+	transcriptional regulator	NA	NA	NA	NA	NA
VFI46669.1|1113450_1113918_-	MutT/nudix family protein	NA	NA	NA	NA	NA
VFI46675.1|1113991_1114480_-	acetyltransferase, gnat family	NA	NA	NA	NA	NA
VFI46681.1|1114445_1115009_-	acetyltransferase	NA	NA	NA	NA	NA
VFI46688.1|1115018_1117007_-	excinuclease ABC subunit B	NA	NA	NA	NA	NA
VFI46694.1|1117083_1118037_-|protease	caax amino protease family protein	protease	NA	NA	NA	NA
>prophage 13
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	1144272	1179561	2120740	transposase,holin	Indivirus(20.0%)	32	NA	NA
VFI46832.1|1144272_1145226_+|transposase	IS1239 transposase	transposase	H7BWC8	unidentified_phage	35.2	1.6e-34
VFI46838.1|1145899_1146748_-	DNA processing protein DprA	NA	S6BFL3	Thermus_phage	39.5	4.2e-34
VFI46844.1|1146843_1147533_-|holin	CTP:phosphocholine cytidylyltransferase	holin	A0A127AW70	Bacillus_phage	45.0	3.4e-05
VFI46850.1|1147544_1148423_-	drug/metabolite transporter (DMT) superfamily permease	NA	NA	NA	NA	NA
VFI46856.1|1148412_1149282_-|holin	choline kinase	holin	NA	NA	NA	NA
VFI46862.1|1149298_1150321_-	zinc-containing alcohol dehydrogenase	NA	NA	NA	NA	NA
VFI46868.1|1150325_1151033_-	cytidylyltransferase	NA	NA	NA	NA	NA
VFI46874.1|1151368_1152856_+	teichoic acid subunit flippase	NA	NA	NA	NA	NA
VFI46882.1|1152865_1153669_+|holin	phosphorylcholine transferase LicD1	holin	A0A1V0SD50	Indivirus	27.1	5.3e-10
VFI46887.1|1153670_1154480_+	licD2 protein	NA	A0A1V0SD50	Indivirus	30.3	9.1e-10
VFI46893.1|1154754_1157931_-	carbamoyl-phosphate synthase, large subunit	NA	NA	NA	NA	NA
VFI46899.1|1158243_1159323_-	carbamoyl-phosphate synthase, small subunit	NA	R4TGJ8	Halovirus	35.9	6.3e-59
VFI46905.1|1159372_1160296_-	aspartate carbamoyltransferase	NA	M1HGA5	Paramecium_bursaria_Chlorella_virus	31.7	8.7e-25
VFI46911.1|1160314_1160836_-	transcriptional attenuation of the pyrimidine operon/uracil phosphoribosyltransferase (bifunctional protein)	NA	NA	NA	NA	NA
VFI46919.1|1161046_1161676_-	endonuclease III (DNA repair), DNA-(apurinic or apyrimidinic site) lyase	NA	NA	NA	NA	NA
VFI46925.1|1161675_1162218_-	putative metal-binding, possibly nucleic acid-binding protein	NA	NA	NA	NA	NA
VFI46931.1|1162387_1162705_+	BlpT protein, fusion	NA	NA	NA	NA	NA
VFI46937.1|1162943_1164503_+	ABC transporter ATP-binding protein	NA	A0A1B0RXA0	Streptococcus_phage	27.5	9.3e-11
VFI46943.1|1164651_1165551_-	heat shock protein HtpX	NA	NA	NA	NA	NA
VFI46949.1|1165552_1166113_-	Cytoplasmic membrane protein LemA	NA	NA	NA	NA	NA
VFI46955.1|1166206_1166920_+	16S rRNA methyltransferase GidB	NA	NA	NA	NA	NA
VFI46961.1|1167271_1168555_+	uracil permease	NA	Q9KX94	Enterobacteria_phage	35.3	4.0e-60
VFI46967.1|1168749_1170321_-	signal recognition particle protein	NA	NA	NA	NA	NA
VFI46973.1|1170332_1170665_-	transcriptional regulator	NA	NA	NA	NA	NA
VFI46979.1|1170755_1171133_-	hypothetical cytosolic protein	NA	NA	NA	NA	NA
VFI46985.1|1171204_1172509_+	dGTP triphosphohydrolase	NA	E3T4P8	Cafeteria_roenbergensis_virus	30.2	1.7e-26
VFI46991.1|1172521_1173328_+	hydrolase	NA	NA	NA	NA	NA
VFI46997.1|1173538_1175314_-	Lmo0466 protein	NA	NA	NA	NA	NA
VFI47003.1|1175799_1176981_-|holin	choline binding protein PcpA	holin	NA	NA	NA	NA
VFI47010.1|1176993_1178214_-	surface protein A	NA	NA	NA	NA	NA
VFI47013.1|1178307_1179162_+	rgg protein	NA	NA	NA	NA	NA
VFI47019.1|1179393_1179561_-|transposase	IS861, transposase OrfA	transposase	NA	NA	NA	NA
>prophage 14
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	1274369	1321806	2120740	transposase,tRNA	Streptococcus_phage(31.25%)	51	NA	NA
VFI47578.1|1274369_1274612_-|transposase	transposase	transposase	NA	NA	NA	NA
VFI47585.1|1275211_1275679_-|transposase	transposase	transposase	NA	NA	NA	NA
VFI47590.1|1276059_1276296_-|transposase	transposase	transposase	NA	NA	NA	NA
VFI47595.1|1276276_1276462_-	IS66 family Orf1	NA	NA	NA	NA	NA
VFI47600.1|1276765_1278328_-	GMP synthase	NA	A0A1V0SH76	Hokovirus	32.8	1.4e-19
VFI47605.1|1278469_1279168_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
VFI47610.1|1279210_1280107_-	membrane protein	NA	NA	NA	NA	NA
VFI47615.1|1280115_1281051_-	beta-lactamase	NA	NA	NA	NA	NA
VFI47620.1|1281047_1281773_-	cppA protein	NA	NA	NA	NA	NA
VFI47625.1|1281856_1282492_-	lysophospholipase l1-like esterase	NA	A0A2K9L661	Tupanvirus	28.2	7.4e-07
VFI47630.1|1282493_1283321_-	hydrolase	NA	NA	NA	NA	NA
VFI47635.1|1283342_1283678_-	poly-gamma-glutamate biosynthesis protein	NA	NA	NA	NA	NA
VFI47639.1|1283678_1284191_-	enzyme of poly-gamma-glutamate biosynthesis	NA	A0A0N9SJ77	Staphylococcus_phage	30.8	7.0e-16
VFI47644.1|1284919_1285531_+	peptide deformylase	NA	E3SLL2	Synechococcus_phage	42.4	4.9e-16
VFI47649.1|1285575_1286304_+	TrmH family RNA methyltransferase group 3	NA	NA	NA	NA	NA
VFI47654.1|1286342_1287254_-	thioredoxin reductase	NA	G3MA85	Bacillus_virus	51.1	3.8e-89
VFI47659.1|1287319_1287544_-	membrane associated protein	NA	NA	NA	NA	NA
VFI47664.1|1287621_1288365_-	aspartate/glutamate ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	40.5	4.7e-29
VFI47669.1|1288364_1289165_-	aspartate/glutamate ABC transporter permease	NA	NA	NA	NA	NA
VFI47672.1|1289322_1289679_-	ArsC family protein	NA	M1PLC0	Streptococcus_phage	57.3	1.2e-33
VFI47677.1|1289691_1290204_-	O6-methylguanine-DNA methyltransferase	NA	M1PFU9	Streptococcus_phage	55.6	1.3e-46
VFI47682.1|1290203_1290698_-	acetyltransferase, GNAT family protein	NA	M1PSC3	Streptococcus_phage	52.8	2.9e-43
VFI47687.1|1290832_1291279_+	BS_ykrK family protein	NA	NA	NA	NA	NA
VFI47692.1|1291275_1291923_+	hlyIII superfamily protein	NA	NA	NA	NA	NA
VFI47697.1|1292274_1293591_-	ABC transporter	NA	NA	NA	NA	NA
VFI47702.1|1293608_1294340_-	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
VFI47707.1|1294896_1295481_-	glutamine amidotransferase subunit PdxT	NA	NA	NA	NA	NA
VFI47711.1|1295481_1296357_-	pyridoxal biosynthesis lyase PdxS	NA	NA	NA	NA	NA
VFI47716.1|1296508_1297888_-	NADH oxidase	NA	NA	NA	NA	NA
VFI47721.1|1298181_1299105_+	thiamine biosynthesis lipoprotein	NA	NA	NA	NA	NA
VFI47726.1|1299164_1299770_+	NADPH-dependent FMN reductase domain-containing protein	NA	A0A2P0ZL77	Lactobacillus_phage	53.7	2.2e-53
VFI47731.1|1299788_1301033_+	flavin reductase	NA	A0A2P0ZL82	Lactobacillus_phage	52.7	3.8e-55
VFI47736.1|1301255_1301513_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
VFI47741.1|1301554_1303591_-|tRNA	glycyl-tRNA synthetase beta subunit	tRNA	NA	NA	NA	NA
VFI47746.1|1303850_1304768_-|tRNA	glycyl-tRNA synthetase alpha subunit	tRNA	NA	NA	NA	NA
VFI47751.1|1304961_1305288_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI47755.1|1305391_1305724_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI47759.1|1305996_1306839_-	2,5-diketo-D-gluconic acid reductase A	NA	A0A2H4PQR8	Staphylococcus_phage	40.2	1.3e-51
VFI47763.1|1306952_1308395_-	peptidoglycan N-acetylglucosamine deacetylase A	NA	NA	NA	NA	NA
VFI47767.1|1308578_1308809_-	ribose-phosphate pyrophosphokinase	NA	NA	NA	NA	NA
VFI47771.1|1309189_1310167_+	Gfo/Idh/MocA family oxidoreductase	NA	NA	NA	NA	NA
VFI47775.1|1310163_1311246_+	ATP-dependent RNA helicase	NA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	29.6	1.3e-32
VFI47779.1|1311309_1311819_-|transposase	transposase family protein	transposase	NA	NA	NA	NA
VFI47783.1|1312933_1314130_-	elongation factor Tu	NA	A0A076FFS6	Aureococcus_anophage	29.6	7.3e-32
VFI47787.1|1315050_1315920_-	glycerol facilitator-aquaporin	NA	NA	NA	NA	NA
VFI47791.1|1316142_1316664_-	putative sortase-sorted surface anchored protein (pseudogene)	NA	NA	NA	NA	NA
VFI47795.1|1316621_1317728_-	putative sortase-sorted surface anchored protein (pseudogene)	NA	NA	NA	NA	NA
VFI47799.1|1317838_1318093_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI47803.1|1318432_1318732_-|transposase	degenerate transposase	transposase	NA	NA	NA	NA
VFI47807.1|1319510_1321229_+	phosphoglucomutase	NA	A0A1X9I671	Streptococcus_phage	83.0	5.8e-272
VFI47811.1|1321278_1321806_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	95.4	1.4e-88
>prophage 15
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	1339753	1359428	2120740	transposase,bacteriocin	Streptococcus_phage(81.82%)	26	NA	NA
VFI47870.1|1339753_1340572_+	glycerate kinase	NA	W6LM47	Streptococcus_phage	49.4	2.4e-42
VFI47874.1|1340552_1340870_+	glycerate kinase-family protein	NA	W6LM47	Streptococcus_phage	51.0	6.9e-22
VFI47877.1|1340866_1341313_-	Uncharacterized conserved protein	NA	NA	NA	NA	NA
VFI47881.1|1341476_1342781_+	Enolase	NA	W6LP63	Streptococcus_phage	94.2	8.1e-234
VFI47885.1|1342955_1343483_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	96.0	8.3e-89
VFI47889.1|1343479_1343767_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	71.8	8.7e-24
VFI47895.1|1343763_1344135_-|transposase	degenerate transposase	transposase	A0A1S5SBP9	Streptococcus_phage	94.4	3.4e-52
VFI47899.1|1344218_1344500_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	94.5	1.4e-42
VFI47903.1|1344496_1344784_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	71.8	8.7e-24
VFI47907.1|1344780_1345299_-|transposase	degenerate transposase	transposase	A0A1S5SBP9	Streptococcus_phage	96.2	3.3e-82
VFI47911.1|1345525_1345873_+|bacteriocin	thioredoxin, bacteriocin transport accessory protein	bacteriocin	NA	NA	NA	NA
VFI47914.1|1346152_1346989_-	glutamine ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
VFI47918.1|1347001_1347631_-	amino acid ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	37.3	1.2e-28
VFI47922.1|1347640_1348282_-	amino acid ABC transporter permease	NA	NA	NA	NA	NA
VFI47927.1|1348427_1349657_-	TPR domain protein	NA	NA	NA	NA	NA
VFI47931.1|1349646_1350813_-	transport protein	NA	NA	NA	NA	NA
VFI47935.1|1350956_1351970_+	3-carboxymuconate cyclase	NA	NA	NA	NA	NA
VFI47939.1|1352014_1352434_-	proton-translocating ATPase, F1 sector, epsilon-subunit	NA	NA	NA	NA	NA
VFI47943.1|1352444_1353851_-	F0F1 ATP synthase subunit beta	NA	NA	NA	NA	NA
VFI47948.1|1353936_1354815_-	proton-translocating ATPase, F1 sector, gamma-subunit	NA	NA	NA	NA	NA
VFI47952.1|1354830_1356336_-	ATP synthase subunit alpha	NA	NA	NA	NA	NA
VFI47957.1|1356350_1356887_-	proton-translocating ATPase, F1 sector, delta-subunit	NA	NA	NA	NA	NA
VFI47961.1|1356886_1357381_-	proton-translocating ATPase, F0 sector, subunit b	NA	NA	NA	NA	NA
VFI47965.1|1357394_1358111_-	ATP synthase F0 subunit A	NA	NA	NA	NA	NA
VFI47969.1|1358145_1358346_-	F0F1 ATP synthase subunit C	NA	NA	NA	NA	NA
VFI47973.1|1358420_1359428_-|transposase	IS1239 transposase	transposase	H7BVY4	unidentified_phage	35.7	5.4e-36
>prophage 16
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	1407446	1470590	2120740	transposase,tRNA,protease	Streptococcus_phage(28.57%)	65	NA	NA
VFI48175.1|1407446_1408412_+	thioredoxin reductase	NA	Q9JRK7	Streptococcus_phage	100.0	2.8e-66
VFI48179.1|1408445_1409357_-	putative sporulation transcription regulator whiA	NA	Q7AWZ3	Streptococcus_phage	99.3	9.8e-154
VFI48184.1|1409353_1410331_-	transporter	NA	A1IMD5	Streptococcus_phage	99.7	4.4e-184
VFI48188.1|1410327_1411218_-	P-loop-containing kinase	NA	A0A0R8VB27	Thermobifida_phage	29.8	3.9e-06
VFI48192.1|1411269_1411650_-	endoribonuclease L-PSP	NA	NA	NA	NA	NA
VFI48196.1|1411660_1412248_-	ribosome biogenesis GTP-binding protein YsxC	NA	NA	NA	NA	NA
VFI48200.1|1412256_1413489_-|protease	ATP-dependent Clp protease, ATP-binding subunit ClpX	protease	G3M9Z9	Bacillus_virus	59.0	4.2e-131
VFI48204.1|1413520_1413691_-	membrane associated protein	NA	NA	NA	NA	NA
VFI48208.1|1413690_1414197_-	dihydrofolate reductase	NA	G3MBI7	Bacillus_virus	40.6	2.1e-25
VFI48212.1|1414324_1414843_-	DPS family peroxide resistance protein	NA	NA	NA	NA	NA
VFI48216.1|1415340_1416813_-	1,4-beta-N-acetylmuramidase	NA	NA	NA	NA	NA
VFI48220.1|1416882_1417641_-	triosephosphate isomerase	NA	NA	NA	NA	NA
VFI48224.1|1417738_1418416_-	DNA replication protein	NA	A0A1X9I617	Streptococcus_phage	41.3	2.2e-09
VFI48227.1|1418424_1419369_-	homoserine O-succinyltransferase	NA	NA	NA	NA	NA
VFI48231.1|1419550_1420063_-	adenine phosphoribosyltransferase	NA	A0A1V0SKE5	Klosneuvirus	47.3	9.1e-32
VFI48235.1|1420149_1420908_-	methyltransferase type 11	NA	NA	NA	NA	NA
VFI48239.1|1421408_1422539_-	sugar ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	33.2	4.7e-20
VFI48244.1|1422988_1423564_-	amidases related to nicotinamidase	NA	G3MA16	Bacillus_virus	35.9	3.3e-22
VFI48248.1|1423563_1424352_-	GTP-sensing transcriptional pleiotropic repressor	NA	NA	NA	NA	NA
VFI48252.1|1424615_1426190_-	ATP-dependent RNA helicase	NA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	36.8	2.4e-59
VFI48256.1|1426388_1427615_-	major facilitator; oxalate:formate antiporter	NA	NA	NA	NA	NA
VFI48260.1|1427807_1429124_+	oxidoreductase, pyridine nucleotide-disulfide class I, Mercury (II) reductase	NA	A0A2K5B2C5	Erysipelothrix_phage	44.1	2.2e-98
VFI48264.1|1429222_1430566_+	UDP-N-acetylmuramyl tripeptide synthetase, Mur ligase	NA	NA	NA	NA	NA
VFI48267.1|1430565_1431348_+	cobyric acid synthase	NA	NA	NA	NA	NA
VFI48271.1|1431473_1432556_+	X-Pro dipeptidase	NA	NA	NA	NA	NA
VFI48275.1|1432876_1433710_-|transposase	IS3-Spn1, transposase	transposase	A0A1B1P773	Bacillus_phage	48.1	2.1e-57
VFI48279.1|1433709_1433877_-|transposase	transposase	transposase	NA	NA	NA	NA
VFI48283.1|1434012_1434282_-|transposase	degenerate transposase (Orf1)	transposase	NA	NA	NA	NA
VFI48287.1|1434452_1434914_-	integral membrane protein	NA	NA	NA	NA	NA
VFI48291.1|1434891_1435665_-	phosphomethylpyrimidine kinase	NA	NA	NA	NA	NA
VFI48295.1|1435654_1436404_-|tRNA	tRNA pseudouridine synthase A	tRNA	NA	NA	NA	NA
VFI48298.1|1436721_1437873_-	major facilitator superfamily transporter-efflux	NA	NA	NA	NA	NA
VFI48302.1|1438112_1438742_-	membrane protein	NA	NA	NA	NA	NA
VFI48305.1|1438744_1439083_-	phnA protein	NA	NA	NA	NA	NA
VFI48308.1|1439213_1439885_-	cytidylate kinase	NA	NA	NA	NA	NA
VFI48311.1|1439893_1440370_-	30S ribosomal protein S15	NA	NA	NA	NA	NA
VFI48314.1|1440415_1440628_+	ferredoxin	NA	NA	NA	NA	NA
VFI48317.1|1440818_1441463_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI48320.1|1441635_1442589_-	glycosil transferase	NA	V5USA4	Oenococcus_phage	48.9	5.6e-75
VFI48323.1|1442572_1443592_-	UDP-glucose 4-epimerase	NA	A0A2K9L5H6	Tupanvirus	48.5	3.6e-88
VFI48326.1|1443892_1444996_-	oxidoreductase, DadA family protein	NA	NA	NA	NA	NA
VFI48329.1|1445012_1445810_-	NIF3 (NGG1p interacting factor 3) family protein	NA	NA	NA	NA	NA
VFI48332.1|1445796_1446474_-	Bcl-2 family protein	NA	NA	NA	NA	NA
VFI48335.1|1446831_1446936_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI48338.1|1447022_1448015_+	serine/threonine protein kinase	NA	NA	NA	NA	NA
VFI48341.1|1448088_1449525_+	lanthionine synthetase C-like protein	NA	NA	NA	NA	NA
VFI48344.1|1449526_1450765_+	MFS transporter	NA	NA	NA	NA	NA
VFI48347.1|1450977_1454100_+	snf2 family protein	NA	A0A0P0YMN2	Yellowstone_lake_phycodnavirus	32.2	2.4e-50
VFI48350.1|1454536_1456873_-	P-type ATPase-metal cation transport	NA	M1HRW9	Paramecium_bursaria_Chlorella_virus	26.2	2.1e-35
VFI48354.1|1457005_1457755_+	acyltransferase family protein	NA	NA	NA	NA	NA
VFI48357.1|1458046_1458661_-	Cad superfamily protein	NA	NA	NA	NA	NA
VFI48360.1|1459476_1459746_-	30S ribosomal protein S15	NA	NA	NA	NA	NA
VFI48363.1|1459886_1460516_-	YwnB	NA	NA	NA	NA	NA
VFI48366.1|1460754_1460955_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI48369.1|1461385_1461709_+	30S ribosomal protein S15	NA	NA	NA	NA	NA
VFI48372.1|1461766_1463710_+|tRNA	threonyl-tRNA synthetase	tRNA	A0A2K9L297	Tupanvirus	39.1	5.6e-122
VFI48376.1|1463758_1464733_-	histidine kinase	NA	B5LWN0	Feldmannia_species_virus	26.6	1.4e-09
VFI48379.1|1464725_1465403_-	DNA-binding response regulator	NA	NA	NA	NA	NA
VFI48382.1|1465558_1466632_+	lipase	NA	NA	NA	NA	NA
VFI48385.1|1466795_1467026_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI48388.1|1467094_1467532_-	RRF2 family protein	NA	NA	NA	NA	NA
VFI48391.1|1467607_1468450_-	serine/threonine protein phosphatase family protein	NA	NA	NA	NA	NA
VFI48394.1|1468561_1469212_+	iron-dependent transcriptional regulator	NA	NA	NA	NA	NA
VFI48397.1|1469283_1469811_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	96.0	5.8e-90
VFI48400.1|1469807_1470590_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	83.6	5.0e-114
>prophage 17
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	1687905	1744628	2120740	transposase,integrase,holin	Streptococcus_phage(28.57%)	49	1688007:1688024	1742119:1742136
VFI49090.1|1687905_1689426_-|holin	choline transporter	holin	NA	NA	NA	NA
1688007:1688024	attL	TTTCTGTAATCTTACCAG	NA	NA	NA	NA
VFI49094.1|1689418_1690147_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	41.2	1.2e-32
VFI49098.1|1690161_1690926_-	lipoprotein	NA	NA	NA	NA	NA
VFI49101.1|1690929_1691373_-	transcriptional regulator, MarR family	NA	NA	NA	NA	NA
VFI49104.1|1692054_1692351_-	Enterocin A Immunity	NA	NA	NA	NA	NA
VFI49107.1|1692372_1693437_-	glutamyl aminopeptidase	NA	NA	NA	NA	NA
VFI49110.1|1693837_1694539_+	putative UDP-glucose 4-epimerase	NA	A0A2K9L1R4	Tupanvirus	36.5	4.1e-35
VFI49114.1|1694961_1695921_+	iron-compound ABC transporter permease	NA	A0A2H4IY97	uncultured_Caudovirales_phage	40.8	4.0e-57
VFI49117.1|1695910_1696867_+	ferric iron ABC transporter membrane-spanning permease	NA	NA	NA	NA	NA
VFI49120.1|1696863_1697616_+	ferrichrome transport ATP-binding protein FhuC	NA	W6JKT0	Anomala_cuprea_entomopoxvirus	28.1	5.6e-14
VFI49123.1|1697711_1698677_+	iron-compound ABC transporter iron-compound-binding protein	NA	NA	NA	NA	NA
VFI49127.1|1698901_1699144_-	alpha-hemolysin family protein	NA	A0A2H4PQM5	Staphylococcus_phage	58.0	1.0e-17
VFI49130.1|1699143_1699866_-	ribosomal large subunit pseudouridine synthase B	NA	NA	NA	NA	NA
VFI49134.1|1699852_1700422_-	segregation and condensation protein B	NA	A0A1B1IVT7	uncultured_Mediterranean_phage	34.9	5.0e-15
VFI49137.1|1700440_1701169_-	segregation and condensation protein A	NA	A0A1B1IVW1	uncultured_Mediterranean_phage	22.3	6.9e-09
VFI49140.1|1701168_1701903_-|integrase	integrase	integrase	NA	NA	NA	NA
VFI49143.1|1701899_1702361_-	CBS domain-containing protein	NA	NA	NA	NA	NA
VFI49146.1|1702357_1702879_-	phosphodiesterase, family	NA	NA	NA	NA	NA
VFI49149.1|1702854_1703826_-	deoxyribonucleotide triphosphate pyrophosphatase/uncharacterised domain fusion protein	NA	C4N227	Ugandan_cassava_brown_streak_virus	29.9	4.9e-10
VFI49153.1|1703822_1704617_-	glutamate racemase, COG0796	NA	NA	NA	NA	NA
VFI49156.1|1704823_1705072_-	family protein	NA	NA	NA	NA	NA
VFI49159.1|1705327_1706953_-	alpha,alpha-phosphotrehalase	NA	NA	NA	NA	NA
VFI49162.1|1707130_1709098_-	trehalose PTS system, IIABC components	NA	NA	NA	NA	NA
VFI49165.1|1709282_1709993_+	trehalose operon repressor	NA	NA	NA	NA	NA
VFI49168.1|1710147_1710666_+|transposase	degenerate transposase	transposase	A0A1S5SBP9	Streptococcus_phage	96.8	6.7e-83
VFI49172.1|1710662_1710950_+|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	69.4	3.7e-22
VFI49175.1|1710946_1711474_+|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	96.6	3.4e-90
VFI49178.1|1711548_1712475_-	oligopeptide ABC transporter ATP-binding protein AmiF	NA	G9BWD6	Planktothrix_phage	34.1	2.0e-21
VFI49181.1|1712485_1713553_-	peptide ABC transporter ATP-binding protein	NA	A0A2R8FFL6	Cedratvirus	24.7	6.6e-08
VFI49184.1|1713561_1714488_-	peptide ABC transporter permease	NA	NA	NA	NA	NA
VFI49187.1|1714487_1715984_-	peptide ABC transporter permease	NA	NA	NA	NA	NA
VFI49190.1|1716050_1718030_-	oligopeptide-binding protein AmiA	NA	NA	NA	NA	NA
VFI49193.1|1718715_1719909_-	O-Antigen Polymerase family	NA	NA	NA	NA	NA
VFI49196.1|1720046_1721489_-	sucrose phosphorylase	NA	NA	NA	NA	NA
VFI49200.1|1721846_1722680_-	sugar ABC transporter permease	NA	NA	NA	NA	NA
VFI49203.1|1722693_1723560_-	sugar ABC transporter permease	NA	NA	NA	NA	NA
VFI49206.1|1723573_1724833_-	sugar ABC transporter binding protein	NA	NA	NA	NA	NA
VFI49209.1|1724867_1727030_-	alpha-galactosidase	NA	NA	NA	NA	NA
VFI49212.1|1727137_1727998_+	Msm operon regulatory protein	NA	NA	NA	NA	NA
VFI49215.1|1727994_1728930_+	bifunctional protein, biotin operon repressor; biotin--[acetyl-CoA-carboxylase] synthetase	NA	NA	NA	NA	NA
VFI49218.1|1731706_1733062_-	RNA methyltransferase	NA	E4ZFI6	Streptococcus_phage	33.5	2.0e-70
VFI49220.1|1733118_1733895_+	aminoglycoside phosphotransferase	NA	NA	NA	NA	NA
VFI49224.1|1733904_1734681_+	regulatory protein RecX	NA	NA	NA	NA	NA
VFI49228.1|1734769_1735303_+	UPF0374 protein SSU05	NA	NA	NA	NA	NA
VFI49231.1|1735659_1735866_-	putative transcriptional regulator	NA	NA	NA	NA	NA
VFI49234.1|1741312_1741795_-	competence-specific global transcription modulator	NA	NA	NA	NA	NA
VFI49237.1|1742029_1742566_-	transcription antitermination protein NusG	NA	NA	NA	NA	NA
1742119:1742136	attR	TTTCTGTAATCTTACCAG	NA	NA	NA	NA
VFI49240.1|1742620_1742797_-	preprotein translocase secE component, COG0690	NA	NA	NA	NA	NA
VFI49244.1|1743122_1744628_+|transposase	IS1202 transposase	transposase	NA	NA	NA	NA
>prophage 18
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	1778315	1832511	2120740	transposase,bacteriocin,protease	Bacillus_virus(10.0%)	55	NA	NA
VFI49349.1|1778315_1780331_+|bacteriocin	bacteriocin-associated integral membrane protein	bacteriocin	NA	NA	NA	NA
VFI49351.1|1780332_1780965_+	antimicrobial peptide ABC transporter ATPase	NA	G3M9Y6	Bacillus_virus	33.3	2.8e-22
VFI49353.1|1781122_1781284_+	competence damage-inducible protein A	NA	NA	NA	NA	NA
VFI49355.1|1781910_1782324_-	nucleoside diphosphate kinase	NA	D2E8E1	Anguillid_herpesvirus	44.5	1.5e-24
VFI49357.1|1782434_1786112_-	DNA-directed RNA polymerase subunit beta'	NA	R4TQM7	Phaeocystis_globosa_virus	25.0	2.4e-65
VFI49359.1|1786144_1789756_-	DNA-directed RNA polymerase subunit beta	NA	A0A2P0VMZ3	Tetraselmis_virus	26.4	1.2e-40
VFI49361.1|1790439_1791771_-	CBS domain membrane protein	NA	NA	NA	NA	NA
VFI49363.1|1792061_1792886_-	DNA-entry nuclease (competence-specific nuclease)	NA	NA	NA	NA	NA
VFI49365.1|1792924_1793119_-	competence associated protein	NA	NA	NA	NA	NA
VFI49367.1|1793105_1794389_-	UDP-N-acetylglucosamine 1-carboxyvinyltransferase	NA	NA	NA	NA	NA
VFI49369.1|1794412_1794610_-	membrane protein	NA	NA	NA	NA	NA
VFI49372.1|1794700_1795738_-|protease	ATP-dependent protease La	protease	NA	NA	NA	NA
VFI49374.1|1795721_1796210_-	phosphopantetheine adenylyltransferase	NA	A0A1B1IVQ3	uncultured_Mediterranean_phage	32.5	3.0e-16
VFI49376.1|1796199_1796739_-	methyltransferase	NA	NA	NA	NA	NA
VFI49378.1|1796803_1797796_-	aspartate-ammonia ligase	NA	A0A1C9C5F0	Heterosigma_akashiwo_virus	40.1	8.2e-53
VFI49380.1|1797908_1798592_-	membrane protein	NA	NA	NA	NA	NA
VFI49382.1|1798647_1799388_-	spoU rRNA methylase family protein	NA	NA	NA	NA	NA
VFI49384.1|1799421_1799700_+	acylphosphate phosphohydrolase	NA	NA	NA	NA	NA
VFI49386.1|1799777_1800704_+	oxaA2	NA	NA	NA	NA	NA
VFI49388.1|1800778_1801573_-	pyruvate formate-lyase-activating enzyme	NA	NA	NA	NA	NA
VFI49390.1|1801698_1802949_-	diaminopimelate decarboxylase	NA	NA	NA	NA	NA
VFI49392.1|1803015_1803843_-	repressor of purine biosynthetic genes	NA	NA	NA	NA	NA
VFI49394.1|1804109_1805051_-	cmp-binding-factor 1	NA	NA	NA	NA	NA
VFI49396.1|1805040_1806297_-	competence-induced protein Ccs50	NA	NA	NA	NA	NA
VFI49398.1|1806298_1806961_-	thiamine pyrophosphokinase	NA	NA	NA	NA	NA
VFI49400.1|1806923_1807580_-	ribulose-phosphate 3-epimerase	NA	NA	NA	NA	NA
VFI49402.1|1807590_1808469_-	ribosome-associated GTPase	NA	NA	NA	NA	NA
VFI49404.1|1808470_1809343_-	dimethyladenosine transferase	NA	NA	NA	NA	NA
VFI49406.1|1809473_1809782_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI49408.1|1809774_1810416_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	36.0	5.5e-26
VFI49410.1|1810417_1812448_-	immunity protein	NA	NA	NA	NA	NA
VFI49412.1|1812524_1812821_-|bacteriocin	bacteriocin, lactococcin 972 family	bacteriocin	NA	NA	NA	NA
VFI49414.1|1813140_1814040_-	transcriptional activator	NA	NA	NA	NA	NA
VFI49416.1|1814111_1814672_-	putative primase homolog	NA	NA	NA	NA	NA
VFI49419.1|1814671_1815445_-	TatD family deoxyribonuclease	NA	NA	NA	NA	NA
VFI49421.1|1815749_1816649_-	putative surface anchored protein (pseudogene)	NA	NA	NA	NA	NA
VFI49423.1|1816932_1817067_-	50S ribosomal protein L34	NA	NA	NA	NA	NA
VFI49426.1|1817211_1818426_-	putative aminotransferase AlaT	NA	NA	NA	NA	NA
VFI49428.1|1818581_1818875_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI49430.1|1819036_1819489_+	universal stress protein	NA	NA	NA	NA	NA
VFI49433.1|1819523_1820912_-	cof family protein	NA	A0A0H3UZF4	Geobacillus_virus	37.9	9.7e-20
VFI49435.1|1820977_1821940_+	L-asparaginase (L-asparagine amidohydrolase)	NA	NA	NA	NA	NA
VFI49437.1|1821968_1822172_-	chlorohydrolase	NA	NA	NA	NA	NA
VFI49439.1|1822235_1823246_-	catabolite control protein A	NA	NA	NA	NA	NA
VFI49441.1|1823669_1824269_-	response regulator	NA	NA	NA	NA	NA
VFI49443.1|1824269_1825367_-	histidine kinase	NA	NA	NA	NA	NA
VFI49445.1|1825366_1826104_-	multidrug ABC transporter permease	NA	NA	NA	NA	NA
VFI49447.1|1826105_1826990_-	ABC transporter ATP-binding protein	NA	A0A2R8FG22	Brazilian_cedratvirus	29.8	1.9e-21
VFI49449.1|1826976_1827171_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI49452.1|1827257_1827359_-	alanine aminotransferase	NA	NA	NA	NA	NA
VFI49454.1|1828010_1829303_+|transposase	IS1167, transposase	transposase	A0A1S5SBP9	Streptococcus_phage	98.6	1.2e-242
VFI49457.1|1829392_1830400_-	glyceraldehyde-3-phosphate dehydrogenase	NA	NA	NA	NA	NA
VFI49459.1|1830619_1831579_-	puttaive FtsX-family transport protein	NA	NA	NA	NA	NA
VFI49461.1|1831664_1832003_-|transposase	IS630-Spn1, transposase Orf2	transposase	NA	NA	NA	NA
VFI49463.1|1832160_1832511_-|transposase	IS630-Spn1, transposase Orf1	transposase	NA	NA	NA	NA
>prophage 19
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	1863138	1906582	2120740	head,tail,holin,terminase,portal	Streptococcus_phage(98.44%)	68	NA	NA
VFI49535.1|1863138_1863396_-	Uncharacterised protein	NA	A0A126GGL1	Streptococcus_phage	100.0	1.4e-41
VFI49537.1|1863666_1864623_-	autolysin	NA	A0A1S5SB73	Streptococcus_phage	99.1	3.7e-143
VFI49539.1|1864626_1864959_-|holin	phage holin, LL-H family	holin	A0A1S5SCF2	Streptococcus_phage	100.0	2.0e-43
VFI49541.1|1864962_1865262_-	Protein of uncharacterised function (DUF2762)	NA	A0A1S5S7P8	Streptococcus_phage	100.0	2.5e-45
VFI49543.1|1865270_1865621_-	phage protein	NA	X2KPI8	Streptococcus_phage	100.0	4.7e-64
VFI49545.1|1865623_1865827_-	phage protein	NA	A0A1S5SCH7	Streptococcus_phage	100.0	3.8e-26
VFI49547.1|1865807_1865924_-	phage protein	NA	A0A1S5SCF0	Streptococcus_phage	100.0	4.0e-12
VFI49549.1|1865920_1872481_-	PblB	NA	A0A1S5SCQ0	Streptococcus_phage	84.5	0.0e+00
VFI49551.1|1872485_1872836_-	prophage protein	NA	A0A1S5SCJ5	Streptococcus_phage	100.0	1.2e-62
VFI49554.1|1872844_1876498_-	TMP repeat family	NA	A0A1S5SC25	Streptococcus_phage	99.1	0.0e+00
VFI49556.1|1876484_1876835_-	Uncharacterised protein	NA	X2KU36	Streptococcus_phage	100.0	2.1e-56
VFI49559.1|1877059_1877254_-	prophage protein	NA	X2KUF7	Streptococcus_phage	100.0	6.7e-28
VFI49561.1|1877258_1877672_-|tail	major tail protein	tail	X2L099	Streptococcus_phage	100.0	2.5e-72
VFI49563.1|1877674_1878043_-	conserved structural protein, putative	NA	X2KSZ9	Streptococcus_phage	100.0	9.0e-66
VFI49565.1|1878039_1878555_-	Lj965 prophage protein	NA	X2KPH9	Streptococcus_phage	100.0	2.7e-92
VFI49567.1|1878529_1878868_-	Uncharacterised protein	NA	A0A1S5SCH1	Streptococcus_phage	100.0	8.6e-47
VFI49569.1|1878848_1879160_-|head,tail	Phage gp6-like head-tail connector protein	head,tail	X2KUF3	Streptococcus_phage	100.0	1.9e-48
VFI49571.1|1879161_1879350_-	Uncharacterised protein	NA	E8ZDV0	Streptococcus_phage	100.0	8.5e-28
VFI49573.1|1879359_1880385_-	Carbohydrate-binding family V/XII	NA	E8ZD37	Streptococcus_phage	100.0	6.6e-191
VFI49576.1|1880407_1880917_-	phage scaffold protein	NA	A0A141E1X5	Streptococcus_phage	98.8	3.1e-72
VFI49578.1|1881062_1881275_-	phage protein	NA	A0A1S5SCQ9	Streptococcus_phage	100.0	2.2e-32
VFI49580.1|1881229_1881394_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI49582.1|1881415_1881703_-	Uncharacterised protein	NA	A0A060QN60	Streptococcus_phage	100.0	3.2e-50
VFI49584.1|1881745_1882159_-	metal dependent phosphohydrolase, HD region	NA	A0A060QNR4	Streptococcus_phage	100.0	1.1e-67
VFI49586.1|1882155_1882365_-	phage protein	NA	A0A141E1P2	Streptococcus_phage	100.0	2.6e-33
VFI49588.1|1882366_1883950_-|head	phage putative head morphogenesis protein, SPP1 gp7 family	head	A0A1S5S801	Streptococcus_phage	100.0	4.2e-301
VFI49590.1|1883912_1885382_-|portal	phage portal protein, SPP1 family	portal	A0A141E1P4	Streptococcus_phage	99.4	1.7e-277
VFI49592.1|1885393_1886608_-|terminase	phage terminase large subunit	terminase	A0A141E229	Streptococcus_phage	100.0	1.6e-236
VFI49594.1|1886597_1887092_-|terminase	putative small subunit of the terminase	terminase	A0A1S5SF14	Streptococcus_phage	100.0	5.4e-82
VFI49596.1|1887552_1887957_-	phage protein	NA	E8ZDG2	Streptococcus_phage	100.0	1.4e-67
VFI49598.1|1888028_1888394_-	Uncharacterised protein	NA	A0A141E232	Streptococcus_phage	100.0	4.2e-63
VFI49600.1|1888390_1888711_-	Uncharacterised protein	NA	E8ZDG4	Streptococcus_phage	100.0	7.6e-53
VFI49602.1|1888707_1889148_-	YopX protein	NA	A0A141E233	Streptococcus_phage	100.0	1.0e-79
VFI49604.1|1889144_1889648_-	phage protein	NA	E8ZDG6	Streptococcus_phage	100.0	2.2e-94
VFI49606.1|1889649_1889967_-	gp24	NA	E8ZDG7	Streptococcus_phage	100.0	6.0e-58
VFI49608.1|1889991_1890174_-	phage protein	NA	A0A141E1B5	Streptococcus_phage	100.0	9.1e-27
VFI49610.1|1890189_1890621_-	holliday junction resolvase	NA	E8ZD55	Streptococcus_phage	100.0	2.1e-77
VFI49612.1|1890617_1890779_-	phage protein	NA	E8ZDG9	Streptococcus_phage	47.7	4.3e-12
VFI49614.1|1890792_1891002_-	Uncharacterised protein	NA	E8ZD57	Streptococcus_phage	100.0	2.5e-36
VFI49616.1|1891003_1891699_-	adenine-specific methyltransferase	NA	E8ZD58	Streptococcus_phage	100.0	8.0e-132
VFI49618.1|1891739_1891988_-	single-strand binding protein family	NA	E8ZDH2	Streptococcus_phage	100.0	7.5e-40
VFI49620.1|1891984_1892083_-	phage protein	NA	A0A141E1Q6	Streptococcus_phage	100.0	2.8e-11
VFI49622.1|1892082_1892418_-	Uncharacterised protein	NA	A0A1S5SFR8	Streptococcus_phage	100.0	1.5e-59
VFI49624.1|1892410_1892734_-	Uncharacterised protein	NA	E8ZDH5	Streptococcus_phage	100.0	6.1e-58
VFI49626.1|1892736_1892898_-	Uncharacterised protein	NA	A0A141E242	Streptococcus_phage	100.0	7.7e-22
VFI49628.1|1892900_1893941_-	phage protein	NA	A0A1S5SFI4	Streptococcus_phage	100.0	1.8e-188
VFI49630.1|1893950_1894715_-	phage protein RecT family	NA	A0A1S5SFP4	Streptococcus_phage	99.6	5.0e-143
VFI49632.1|1894726_1894957_-	Uncharacterised protein	NA	A0A141E1R0	Streptococcus_phage	100.0	1.7e-33
VFI49634.1|1894973_1895090_-	Uncharacterised protein	NA	A0A1S5SFF0	Streptococcus_phage	100.0	4.1e-17
VFI49636.1|1895076_1895220_-	phage protein	NA	A0A1S5SA09	Streptococcus_phage	100.0	5.4e-19
VFI49638.1|1895206_1895467_-	Uncharacterised protein	NA	A0A060QNS3	Streptococcus_phage	100.0	3.3e-38
VFI49640.1|1895459_1895666_-	Uncharacterised protein	NA	E8ZDI1	Streptococcus_phage	100.0	6.4e-29
VFI49642.1|1895665_1895827_-	Uncharacterised protein	NA	E8ZDI2	Streptococcus_phage	100.0	6.3e-24
VFI49644.1|1895887_1896106_-	Uncharacterised protein	NA	A0A1S5S7L4	Streptococcus_phage	67.2	1.0e-16
VFI49646.1|1896044_1896899_-	phage DNA replication protein	NA	A0A060QN71	Streptococcus_phage	100.0	3.6e-158
VFI49648.1|1896908_1897760_-	phage protein	NA	A0A060QNS5	Streptococcus_phage	100.0	2.3e-149
VFI49651.1|1897756_1897975_-	Cro/CI family phage transcriptional regulator	NA	E8ZDI5	Streptococcus_phage	100.0	1.6e-33
VFI49653.1|1898056_1898263_+	Uncharacterised protein	NA	A0A1S5SFE1	Streptococcus_phage	79.4	1.8e-23
VFI49655.1|1898174_1898465_-	Uncharacterised protein	NA	A0A1S5SFE0	Streptococcus_phage	90.6	1.7e-43
VFI49657.1|1899002_1899125_-	Uncharacterised protein	NA	A0A060QNV8	Streptococcus_phage	100.0	2.2e-13
VFI49660.1|1899198_1899474_-	Uncharacterised protein	NA	A0A060QN73	Streptococcus_phage	100.0	5.9e-46
VFI49662.1|1899648_1900455_+	cI repressor	NA	E8ZDI9	Streptococcus_phage	100.0	1.4e-148
VFI49664.1|1900456_1901221_+	phage protein	NA	E8ZDJ0	Streptococcus_phage	100.0	3.7e-138
VFI49666.1|1901499_1902945_+	site-specific recombinase/resolvase	NA	A0A060QNW0	Streptococcus_phage	100.0	2.2e-277
VFI49668.1|1903026_1903899_-	competence protein	NA	NA	NA	NA	NA
VFI49670.1|1903990_1904932_-	competence protein	NA	NA	NA	NA	NA
VFI49672.1|1905007_1905373_-	DNA binding protein	NA	NA	NA	NA	NA
VFI49674.1|1905523_1906582_-	alcohol dehydrogenase	NA	E3SJ82	Synechococcus_phage	26.8	2.7e-14
>prophage 20
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	1935396	1993314	2120740	transposase,tRNA,protease,holin	Bacillus_phage(30.0%)	60	NA	NA
VFI49725.1|1935396_1935786_-|transposase	transposase	transposase	NA	NA	NA	NA
VFI49727.1|1935949_1936426_+	Uncharacterized conserved protein	NA	A0A291ATU0	Pandoravirus	36.6	3.8e-16
VFI49729.1|1936509_1937217_+	response regulator	NA	W8CYM9	Bacillus_phage	39.6	1.4e-38
VFI49732.1|1937217_1938549_+	histidine kinase PnpS	NA	W8CYF6	Bacillus_phage	34.9	1.9e-33
VFI49734.1|1938715_1939591_+	phosphate ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
VFI49736.1|1939708_1940572_+	phosphate ABC transporter permeae PstC	NA	NA	NA	NA	NA
VFI49738.1|1940564_1941380_+	phosphate ABC transporter	NA	NA	NA	NA	NA
VFI49740.1|1941381_1942134_+	phosphate transporter ATP-binding protein	NA	A0A1V0SE00	Indivirus	27.4	1.3e-15
VFI49742.1|1942148_1942799_+	phosphate transport system regulatory protein PhoU	NA	NA	NA	NA	NA
VFI49744.1|1942866_1943292_+|transposase	transposase, IS1380-Spn1 related, truncation	transposase	NA	NA	NA	NA
VFI49746.1|1943465_1943846_-	transcriptional regulator	NA	NA	NA	NA	NA
VFI49748.1|1944057_1945074_+	glycerol-3-phosphate dehydrogenase (NAD(P)+)	NA	NA	NA	NA	NA
VFI49750.1|1945095_1945995_+	UTP-glucose-1-phosphate uridylyltransferase	NA	A0A127AW70	Bacillus_phage	50.7	8.1e-76
VFI49752.1|1946061_1946739_-	peptidase, S54	NA	NA	NA	NA	NA
VFI49754.1|1946722_1947262_-	5-formyltetrahydrofolate cyclo-ligase	NA	NA	NA	NA	NA
VFI49756.1|1947273_1948404_-	GlpG protein (membrane protein of glp regulon)	NA	NA	NA	NA	NA
VFI49758.1|1948471_1949170_-	2,3,4,5-tetrahydropyridine-2-carboxylate N-succinyltransferase	NA	NA	NA	NA	NA
VFI49760.1|1949399_1950311_-	drug/metabolite transporter (DMT) superfamily permease	NA	NA	NA	NA	NA
VFI49762.1|1950375_1952841_-	penicillin-binding protein 1B	NA	NA	NA	NA	NA
VFI49764.1|1952982_1954239_+|tRNA	tyrosine--tRNA ligase	tRNA	A0A2C9CYK4	Yersinia_phage	41.3	2.5e-75
VFI49766.1|1954316_1956380_-	P-type ATPase-metal/cation transporter	NA	E4ZFI9	Streptococcus_phage	26.0	4.5e-53
VFI49768.1|1956381_1956660_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI49770.1|1956811_1957660_+	23S_rRNA m1G745 methyltransferase	NA	NA	NA	NA	NA
VFI49772.1|1958282_1958855_+	membrane protein	NA	NA	NA	NA	NA
VFI49774.1|1959395_1959542_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI49776.1|1959899_1962158_-	maltodextrin phosphorylase	NA	Q8B3H5	Iris_mild_mosaic_virus	37.5	5.7e-09
VFI49778.1|1962183_1963701_-	4-alpha-glucanotransferase (amylomaltase)	NA	NA	NA	NA	NA
VFI49780.1|1964250_1965522_+	maltose/maltodextrin ABC transporter maltose /maltodextrin-binding protein	NA	NA	NA	NA	NA
VFI49782.1|1965632_1966925_+	maltodextrin ABC transporter permease	NA	NA	NA	NA	NA
VFI49784.1|1966926_1967769_+	maltodextrin ABC transporter permease	NA	NA	NA	NA	NA
VFI49786.1|1968021_1968822_+	malA-protein	NA	NA	NA	NA	NA
VFI49788.1|1968831_1969818_+	maltose operon transcriptional repressor	NA	NA	NA	NA	NA
VFI49790.1|1969884_1970163_+	N-ethylammeline chlorohydrolase	NA	NA	NA	NA	NA
VFI49792.1|1970198_1971140_-	YitT family protein	NA	NA	NA	NA	NA
VFI49794.1|1971117_1972881_-|tRNA	aspartyl-tRNA synthetase (aspartate-tRNA ligase)	tRNA	A0A1V0SJ84	Klosneuvirus	26.4	5.0e-13
VFI49796.1|1973031_1973235_-	chlorohydrolase	NA	NA	NA	NA	NA
VFI49798.1|1973276_1973507_-	excreted peptide	NA	NA	NA	NA	NA
VFI49800.1|1973524_1974166_-|protease	caax amino protease family protein	protease	NA	NA	NA	NA
VFI49802.1|1974177_1974912_-	brp/Blh family beta-carotene 15,15'-monooxygenase	NA	NA	NA	NA	NA
VFI49804.1|1974914_1975112_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI49806.1|1975111_1975327_-	transcriptional regulator	NA	NA	NA	NA	NA
VFI49808.1|1975327_1975642_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI49810.1|1975979_1977269_-|tRNA	histidyl-tRNA synthetase	tRNA	NA	NA	NA	NA
VFI49812.1|1977346_1978594_-	major facilitator superfamily permease	NA	NA	NA	NA	NA
VFI49814.1|1978784_1979636_-	transcriptional activator, Rgg/GadR/MutR family protein	NA	NA	NA	NA	NA
VFI49816.1|1979759_1980101_+	domain of uncharacterised function protein	NA	NA	NA	NA	NA
VFI49818.1|1980354_1982058_-	dihydroxy-acid dehydratase	NA	NA	NA	NA	NA
VFI49820.1|1982290_1983223_-	transketolase c-terminal section	NA	NA	NA	NA	NA
VFI49822.1|1983219_1984077_-	transketolase n-terminal section	NA	A0A2K9L6P9	Tupanvirus	31.2	4.2e-29
VFI49824.1|1984080_1985427_-	PTS system, IIC component	NA	NA	NA	NA	NA
VFI49827.1|1985439_1985724_-	PTS system, IIB component	NA	NA	NA	NA	NA
VFI49829.1|1985727_1987758_-	transcriptional regulator, BglG family	NA	NA	NA	NA	NA
VFI49832.1|1987948_1988956_+	integral membrane protein	NA	NA	NA	NA	NA
VFI49834.1|1988958_1989159_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI49836.1|1989310_1989493_+	50S ribosomal protein L32	NA	NA	NA	NA	NA
VFI49838.1|1989508_1989658_+	LSU ribosomal protein L33p @ LSU ribosomal protein L33p, zinc-independent	NA	NA	NA	NA	NA
VFI49840.1|1990137_1992003_-|holin	choline binding protein PcpA	holin	NA	NA	NA	NA
VFI49842.1|1992337_1992520_+|transposase	degenerate transposase	transposase	NA	NA	NA	NA
VFI49844.1|1992464_1992899_+	mobile genetic element	NA	NA	NA	NA	NA
VFI49846.1|1992924_1993314_+|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 21
LR216065	Streptococcus pneumoniae isolate 55896440-41bd-11e5-998e-3c4a9275d6c6 genome assembly, chromosome: 1	2120740	2054814	2092886	2120740	transposase,protease,holin	Streptococcus_phage(50.0%)	37	NA	NA
VFI49941.1|2054814_2057508_-|holin	choline-binding surface protein A	holin	NA	NA	NA	NA
VFI49943.1|2057586_2058114_-	membrane protein	NA	NA	NA	NA	NA
VFI49945.1|2058208_2059540_-	signal transduction histidine kinase	NA	NA	NA	NA	NA
VFI49947.1|2059536_2060190_-	DNA-binding response regulator	NA	NA	NA	NA	NA
VFI49949.1|2060831_2063264_-|protease	ATP-dependent Clp protease, ATP-binding subunit	protease	A0A223W0B1	Agrobacterium_phage	40.6	1.4e-127
VFI49951.1|2063265_2063724_-	CtsR family transcriptional regulator	NA	NA	NA	NA	NA
VFI49953.1|2063842_2064571_-	nitrate/sulfonate/bicarbonate ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	36.2	1.0e-28
VFI49955.1|2064570_2065578_-	ABC transportersubstrate-binding protein, nitrate/sulfonate/bicarbonate transport	NA	NA	NA	NA	NA
VFI49957.1|2065616_2066375_-	ABC transporter permease, nitrate/sulfonate/bicarbonate transport	NA	NA	NA	NA	NA
VFI49959.1|2066337_2066628_-	Uncharacterized conserved protein	NA	NA	NA	NA	NA
VFI49961.1|2066875_2068222_-|holin	choline binding protein D	holin	NA	NA	NA	NA
VFI49963.1|2068310_2068577_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
VFI49965.1|2068578_2069931_-	DNA replication protein DnaC	NA	A0A1P8VVQ6	Streptococcus_phage	61.3	4.9e-149
VFI49967.1|2069974_2070427_-	50S ribosomal protein L9	NA	NA	NA	NA	NA
VFI49969.1|2070423_2072397_-	DHH family protein	NA	NA	NA	NA	NA
VFI49972.1|2072532_2073081_-	ribosome-associated protein	NA	NA	NA	NA	NA
VFI49974.1|2073160_2073823_-	involved in transformation	NA	NA	NA	NA	NA
VFI49976.1|2073819_2075118_-	helicase ComFA	NA	A0A1X9I5S6	Streptococcus_phage	66.4	7.9e-165
VFI49978.1|2075173_2075809_+	Xaa-Pro dipeptidase	NA	A0A1X9I5T8	Streptococcus_phage	71.0	1.7e-75
VFI49980.1|2076057_2076978_+	cysteine synthase	NA	A0A1X9I5K7	Streptococcus_phage	80.7	1.3e-137
VFI49982.1|2077174_2077573_-|transposase	transposase	transposase	NA	NA	NA	NA
VFI49984.1|2078012_2078336_-|transposase	transposase, ISSmi4	transposase	NA	NA	NA	NA
VFI49987.1|2078581_2079622_-	elongation factor Ts	NA	NA	NA	NA	NA
VFI49989.1|2079700_2080480_-	30S ribosomal protein S2	NA	NA	NA	NA	NA
VFI49991.1|2080702_2081881_-	CHAP domain-containing protein	NA	NA	NA	NA	NA
VFI49993.1|2081974_2082469_-	rod shape-determining protein MreD	NA	NA	NA	NA	NA
VFI49995.1|2082468_2083287_-	cell shape determining protein MreC	NA	NA	NA	NA	NA
VFI49997.1|2083345_2084140_-	ABC transporter permease, cobalt transport	NA	NA	NA	NA	NA
VFI49999.1|2084132_2084972_-	cobalt ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	32.6	1.1e-15
VFI50001.1|2084956_2085784_-	ABCtransporter ATP-binding protein cobalt transport	NA	G9BWD6	Planktothrix_phage	32.9	2.8e-22
VFI50003.1|2085780_2086326_-	phosphatidylglycerophosphate synthase	NA	NA	NA	NA	NA
VFI50004.1|2086336_2087158_-	transcriptional regulation protein	NA	NA	NA	NA	NA
VFI50005.1|2087199_2088483_-|protease	zinc-dependent protease	protease	A0A1E1EST3	Acanthamoeba_castellanii_mimivirus	30.0	8.4e-18
VFI50006.1|2088479_2089730_-|protease	zinc-dependent protease	protease	A0A1X9I714	Streptococcus_phage	42.3	2.7e-93
VFI50007.1|2089888_2090257_+	S4 domain-containing protein YaaA	NA	A0A1X9I5V8	Streptococcus_phage	57.3	7.0e-18
VFI50008.1|2090259_2091357_+	recombination protein recF	NA	NA	NA	NA	NA
VFI50009.1|2091407_2092886_-	inosine-5-monophosphate dehydrogenase	NA	A0A1V0SHK8	Klosneuvirus	40.5	2.2e-94
