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
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	780	43624	2202359	transposase,tail,holin,integrase,portal,protease,terminase,head,capsid	Streptococcus_phage(91.67%)	56	967:1026	42402:42473
VFI33351.1|780_987_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	91.2	7.9e-27
967:1026	attL	AGAAGTTTCAGCGACCATCATTTTTGAACAGTGATAGCACTTGAATCGACGCTTTCTAAG	NA	NA	NA	NA
VFI33353.1|1303_1540_+	recombination regulator RecX	NA	NA	NA	NA	NA
VFI33355.1|1728_3057_+	adenylosuccinate synthetase	NA	L7Y4J5	Megavirus	37.1	3.6e-72
VFI33357.1|3298_4447_-|integrase	integrase	integrase	A0A1S5SEH2	Streptococcus_phage	100.0	1.6e-217
VFI33359.1|4632_5556_-	Exonuclease	NA	A0A1S5SEW3	Streptococcus_phage	100.0	3.5e-175
VFI33361.1|5568_5952_-	Phage protein	NA	A0A141DZD2	Streptococcus_phage	100.0	1.5e-66
VFI33363.1|5964_6330_-	putative phage DNA binding protein	NA	A0A1S5SEP7	Streptococcus_phage	100.0	3.2e-63
VFI33365.1|6635_7118_-	Uncharacterised protein	NA	A0A141DZD0	Streptococcus_phage	100.0	1.1e-79
VFI33367.1|7172_7376_+	putative phage DNA binding protein	NA	A0A141DZC9	Streptococcus_phage	100.0	3.7e-29
VFI33369.1|7387_7522_+	Uncharacterised protein	NA	A0A1S5SG35	Streptococcus_phage	95.5	1.1e-16
VFI33371.1|7518_7716_+	gp9	NA	A0A1S5SEL5	Streptococcus_phage	98.5	8.0e-29
VFI33373.1|7725_7878_+	Uncharacterised protein	NA	A0A1S5S8Z4	Streptococcus_phage	100.0	1.3e-18
VFI33375.1|7831_8491_-	Uncharacterised protein	NA	A0A1S5S8Z0	Streptococcus_phage	100.0	1.0e-120
VFI33377.1|8544_9261_+	gp15	NA	A0A141DZC7	Streptococcus_phage	100.0	4.7e-135
VFI33379.1|9273_9531_+	phage protein	NA	A0A1S5SEV6	Streptococcus_phage	100.0	1.2e-43
VFI33381.1|9616_9937_+	Putative phage lipoprotein	NA	A0A1S5SGB9	Streptococcus_phage	100.0	7.4e-48
VFI33383.1|9952_10249_+	gp18	NA	A0A141DZC5	Streptococcus_phage	100.0	8.9e-48
VFI33385.1|10241_11030_+	gp19	NA	A0A141DZC4	Streptococcus_phage	100.0	1.3e-125
VFI33387.1|11017_11176_+	phage protein	NA	A0A1S5SEV3	Streptococcus_phage	100.0	2.8e-24
VFI33389.1|11169_11940_+	DNA replication protein	NA	A0A141DZC3	Streptococcus_phage	100.0	5.2e-140
VFI33391.1|11954_12149_+	Uncharacterised protein	NA	A0A1S5SEM5	Streptococcus_phage	98.4	1.5e-27
VFI33393.1|12247_13330_+	type II DNA modification methyltransferase	NA	A0A141DZC2	Streptococcus_phage	100.0	1.0e-194
VFI33395.1|13491_13845_+	prophage LambdaSa2, Cro/CI family transcriptional regulator	NA	A0A1S5SCQ5	Streptococcus_phage	99.1	1.2e-62
VFI33397.1|13826_14291_+	bacteriophage transcriptional activator	NA	A0A1S5SCN9	Streptococcus_phage	100.0	4.9e-85
VFI33399.1|14399_14942_+|integrase	prophage LambdaSa2, site-specific recombinase phage integrase family protein	integrase	A0A1S5SCL7	Streptococcus_phage	100.0	9.8e-101
VFI33401.1|15482_15689_+	HNH endonuclease family protein	NA	A0A1S5S7M8	Streptococcus_phage	100.0	9.6e-33
VFI33403.1|15831_16311_+	Uncharacterised protein	NA	A0A1S5SCZ6	Streptococcus_phage	100.0	1.7e-80
VFI33405.1|16303_18016_+|terminase	prophage LambdaSa2, terminase large subunit	terminase	A0A1S5SCM6	Streptococcus_phage	100.0	0.0e+00
VFI33407.1|18024_19167_+|portal	phage portal protein, HK97 family	portal	A0A1S5SCP3	Streptococcus_phage	100.0	1.2e-217
VFI33409.1|19213_19756_+|protease	prophage LambdaSa2, protease	protease	A0A1S5SCT6	Streptococcus_phage	100.0	1.2e-98
VFI33411.1|19770_21024_+|capsid	Phage capsid family	capsid	A0A1S5SCZ2	Streptococcus_phage	100.0	4.4e-229
VFI33413.1|21049_21385_+	Uncharacterised protein	NA	A0A1S5SCM7	Streptococcus_phage	100.0	4.1e-57
VFI33415.1|21381_21687_+|head,tail	phage head-tail adaptor	head,tail	A0A141DZB2	Streptococcus_phage	100.0	1.9e-40
VFI33417.1|21686_22034_+	Uncharacterised protein	NA	A0A1S5SCP8	Streptococcus_phage	100.0	3.5e-59
VFI33419.1|22020_22365_+	bacteriophage pi2 protein 37	NA	A0A1S5SCM8	Streptococcus_phage	100.0	1.2e-59
VFI33421.1|22378_23047_+|tail	phi13 family phage major tail protein	tail	A0A1S5SD39	Streptococcus_phage	100.0	7.0e-125
VFI33423.1|23048_23525_+	Uncharacterised protein	NA	A0A1S5SD04	Streptococcus_phage	100.0	7.8e-86
VFI33425.1|23711_26450_+|tail	phage-related minor tail protein	tail	A0A141DZA7	Streptococcus_phage	100.0	0.0e+00
VFI33427.1|26446_27169_+	phage protein	NA	A0A141DZA6	Streptococcus_phage	100.0	3.6e-135
VFI33429.1|27169_33496_+	pblB	NA	A0A141DZA5	Streptococcus_phage	100.0	0.0e+00
VFI33431.1|33589_33793_+	phage protein	NA	X2KU40	Streptococcus_phage	100.0	1.1e-25
VFI33433.1|33795_34146_+	phage protein	NA	A0A1S5SFA0	Streptococcus_phage	100.0	3.6e-64
VFI33435.1|34155_34572_+|holin	putative holin 1	holin	A0A1S5SFD4	Streptococcus_phage	100.0	2.4e-67
VFI33437.1|34575_34911_+|holin	phage holin, LL-H family	holin	A0A126GGL9	Streptococcus_phage	100.0	2.6e-51
VFI33439.1|34910_35867_+	autolysin	NA	A0A141DZA0	Streptococcus_phage	100.0	4.3e-144
VFI33441.1|36004_36184_-	DNA-binding protein	NA	Q3BLW4	Phage_SK137	96.6	2.1e-23
VFI33443.1|36755_37223_+	cytidine/deoxycytidylate deaminase	NA	NA	NA	NA	NA
VFI33445.1|37409_37853_+	deoxyuridine 5'-triphosphate nucleotidohydrolase	NA	Q2WG49	Clostridium_botulinum_D_phage	48.0	1.3e-29
VFI33447.1|37812_38370_+	phosphoglycerate mutase family protein	NA	NA	NA	NA	NA
VFI33449.1|38482_39745_+	DNA repair protein	NA	NA	NA	NA	NA
VFI33451.1|39817_40315_+	carbonic anhydrase	NA	NA	NA	NA	NA
VFI33453.1|40339_41155_+	repair protein	NA	NA	NA	NA	NA
VFI33455.1|41299_42268_+	ribose-phosphate pyrophosphokinase	NA	A0A1V0SHF7	Hokovirus	34.7	4.0e-44
VFI33457.1|42203_42683_-|transposase	transposase-like protein	transposase	A0A1S5SBP9	Streptococcus_phage	88.2	9.7e-44
42402:42473	attR	AGAAGTTTCAGCGACCATCATTTTTGAACAGTGATAGCACTTGAATCGACGCTTTCTAAGGAGAATTCTAGT	NA	NA	NA	NA
VFI33459.1|42809_43043_-	adenylosuccinate lyase	NA	NA	NA	NA	NA
VFI33461.1|43366_43624_-|transposase	nuclease family transposase	transposase	NA	NA	NA	NA
>prophage 2
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	53224	64680	2202359		Synechococcus_phage(33.33%)	7	NA	NA
VFI33485.1|53224_55378_+	competence factor transporting ATP-binding protein/permease ComA	NA	W8CYL7	Bacillus_phage	28.5	8.0e-45
VFI33487.1|55390_56740_+	competence factor transport protein ComB	NA	NA	NA	NA	NA
VFI33489.1|56909_57617_+	phosphoribosylaminoimidazole-succinocarboxamide synthetase	NA	A0A1D8KNF0	Synechococcus_phage	39.2	1.8e-41
VFI33491.1|57818_61544_+	phosphoribosylformylglycinamidine synthase II (FGAM synthetase)	NA	A6N228	Microbacterium_phage	25.6	2.8e-37
VFI33493.1|61636_63079_+	amidophosphoribosyltransferase	NA	A0A0M3SGR2	Mollivirus	35.4	4.4e-55
VFI33495.1|63115_64138_+	phosphoribosylaminoimidazole synthetase	NA	A0A1D7SE90	Cyanophage	43.9	1.2e-64
VFI33497.1|64134_64680_+	phosphoribosylglycinamide formyltransferase	NA	M4QRX9	Synechococcus_phage	35.0	9.7e-24
>prophage 3
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	115760	150135	2202359	bacteriocin,protease,tRNA	Planktothrix_phage(33.33%)	35	NA	NA
VFI33592.1|115760_116048_+|bacteriocin	bacteriocin, putative	bacteriocin	NA	NA	NA	NA
VFI33594.1|116099_118208_+|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
VFI33596.1|118204_118846_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	34.8	4.3e-23
VFI33598.1|119052_119859_+	amino acid ABC transporter periplasmic amino acid-binding protein	NA	NA	NA	NA	NA
VFI33600.1|119875_121072_+	argininosuccinate synthase	NA	NA	NA	NA	NA
VFI33602.1|121095_121920_+	argininosuccinate lyase	NA	NA	NA	NA	NA
VFI33604.1|122208_123072_-	helix-turn-helix domain protein	NA	NA	NA	NA	NA
VFI33606.1|123537_125757_+	Bacteriocin ABC transoporter	NA	W8CYL7	Bacillus_phage	25.5	1.8e-39
VFI33608.1|125749_126217_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI33610.1|126213_127566_+	Secreted protein	NA	NA	NA	NA	NA
VFI33612.1|127711_128092_+	Membrane protein	NA	NA	NA	NA	NA
VFI33614.1|129340_129505_+	Membrane protein	NA	NA	NA	NA	NA
VFI33616.1|129672_130044_+	Membrane protein	NA	NA	NA	NA	NA
VFI33618.1|130636_130762_+	Membrane protein	NA	NA	NA	NA	NA
VFI33620.1|130742_130988_+|bacteriocin	putative bacteriocin	bacteriocin	NA	NA	NA	NA
VFI33622.1|131144_132203_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI33624.1|132516_133494_+	Leader peptidase	NA	NA	NA	NA	NA
VFI33626.1|133870_134245_+	Membrane protein	NA	NA	NA	NA	NA
VFI33628.1|134452_135355_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI33630.1|135410_135764_+	Membrane protein	NA	NA	NA	NA	NA
VFI33632.1|135760_136489_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI33634.1|136967_137174_+|bacteriocin	putative bacteriocin	bacteriocin	NA	NA	NA	NA
VFI33636.1|137624_138128_+	Lmo2277 protein	NA	M1Q0Z8	Streptococcus_phage	51.5	2.3e-43
VFI33638.1|138412_140533_+	surface protein A	NA	NA	NA	NA	NA
VFI33640.1|140933_142055_+|tRNA	tRNA-specific 2-thiouridylase MnmA	tRNA	NA	NA	NA	NA
VFI33642.1|142195_142651_+	mutT/nudix family protein	NA	NA	NA	NA	NA
VFI33644.1|142660_144574_+|tRNA	tRNA uridine 5-carboxymethylaminomethyl modification protein GidA	tRNA	NA	NA	NA	NA
VFI33646.1|144768_146448_-	metallo-beta-lactamase superfamily protein 1	NA	NA	NA	NA	NA
VFI33648.1|146449_146683_-	transcriptional regulator	NA	NA	NA	NA	NA
VFI33650.1|146962_147070_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI33652.1|147500_147653_-|bacteriocin	bacteriocin-type signal sequence domain-containing protein	bacteriocin	NA	NA	NA	NA
VFI33654.1|147654_147840_-	excreted peptide	NA	NA	NA	NA	NA
VFI33656.1|148017_148701_+	molecular chaperone	NA	NA	NA	NA	NA
VFI33658.1|148697_149135_+	acetyltransferase	NA	NA	NA	NA	NA
VFI33660.1|149124_150135_+|protease	glycoprotease family protein	protease	NA	NA	NA	NA
>prophage 4
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	238930	337909	2202359	integrase,protease,transposase,tRNA	Staphylococcus_phage(15.79%)	92	269731:269750	329823:329842
VFI33878.1|238930_241432_+|tRNA	leucyl-tRNA synthetase	tRNA	A0A2H4PQS0	Staphylococcus_phage	67.0	0.0e+00
VFI33880.1|241541_242237_+	acetyltransferase, GNAT family protein	NA	NA	NA	NA	NA
VFI33882.1|242248_242665_+	acetyltransferase	NA	NA	NA	NA	NA
VFI33884.1|243732_244704_+	Holliday junction DNA helicase RuvB	NA	B3GAM6	uncultured_virus	32.5	1.7e-07
VFI33886.1|244684_245257_+	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
VFI33888.1|245487_246246_+	undecaprenyl pyrophosphate synthase	NA	R9W0U9	Flavobacterium_phage	47.5	2.3e-23
VFI33890.1|246254_247058_+	phosphatidate cytidylyltransferase	NA	NA	NA	NA	NA
VFI33892.1|247079_248339_+|protease	metallo protease	protease	NA	NA	NA	NA
VFI33894.1|248351_250205_+|tRNA	prolyl-tRNA synthetase	tRNA	A0A2K9L297	Tupanvirus	26.8	9.7e-07
VFI33896.1|250304_251684_+	glycosyl hydrolase	NA	NA	NA	NA	NA
VFI33898.1|251874_253683_+	glucosamine-fructose-6-phosphate aminotransferase	NA	A7IW18	Paramecium_bursaria_Chlorella_virus	38.2	6.8e-98
VFI33900.1|253953_255003_+	coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase-like protein	NA	NA	NA	NA	NA
VFI33902.1|255102_258966_-	pullulanase	NA	NA	NA	NA	NA
VFI33904.1|259382_259796_+	SSU ribosomal protein S12p (S23e)	NA	NA	NA	NA	NA
VFI33906.1|259815_260286_+	30S ribosomal protein S7	NA	NA	NA	NA	NA
VFI33908.1|260710_262792_+	elongation factor G	NA	E4ZFJ7	Streptococcus_phage	29.0	1.3e-63
VFI33910.1|262895_267287_+	DNA polymerase III, alpha subunit	NA	A0A0K2SUJ2	Clostridium_phage	37.8	1.8e-19
VFI33912.1|267388_267652_+	addiction module antitoxin, RelB/DinJ family	NA	NA	NA	NA	NA
VFI33914.1|267644_267923_+	RelE/StbE family addiction module toxin	NA	NA	NA	NA	NA
VFI33916.1|267943_268096_+	DNA polymerase III PolC	NA	NA	NA	NA	NA
VFI33918.1|268117_269359_+	Aminopeptidase	NA	NA	NA	NA	NA
VFI33920.1|269368_269599_+	integral membrane protein	NA	NA	NA	NA	NA
269731:269750	attL	GATAGAACTGACGAAGTCAG	NA	NA	NA	NA
VFI33922.1|269866_270589_+	ribosomal small subunit pseudouridine synthase A	NA	NA	NA	NA	NA
VFI33924.1|270806_272141_+	aminopeptidase	NA	NA	NA	NA	NA
VFI33926.1|272196_273108_-	PTS system mannose/fructose/sorbose family transporter subunit IID	NA	NA	NA	NA	NA
VFI33928.1|273131_273935_-	PTS system mannose-specific transporter subunit IIC	NA	NA	NA	NA	NA
VFI33930.1|273962_274952_-	PTS system mannose-specific transporter subunit IIAB	NA	NA	NA	NA	NA
VFI33932.1|275184_276204_-	alcohol dehydrogenase	NA	A0A2K9L339	Tupanvirus	25.6	3.5e-27
VFI33934.1|276542_277355_-	Cof family protein	NA	NA	NA	NA	NA
VFI33936.1|277544_278963_+	xanthine/uracil permease family protein	NA	A0A0R6PHV4	Moraxella_phage	31.1	5.8e-44
VFI33938.1|279015_279723_+|protease	caax amino protease family protein	protease	NA	NA	NA	NA
VFI33940.1|279847_280798_+	dihydropteroate synthase	NA	NA	NA	NA	NA
VFI33942.1|280799_282122_+	dihydrofolate synthetase	NA	NA	NA	NA	NA
VFI33944.1|282102_282657_+	GTP cyclohydrolase	NA	E7DN69	Pneumococcus_phage	44.3	9.8e-40
VFI33946.1|282699_283512_+	bifunctional folate synthesis protein	NA	NA	NA	NA	NA
VFI33948.1|283661_283979_-	Staphylococcal protein of uncharacterised function (DUF960)	NA	NA	NA	NA	NA
VFI33950.1|284334_284781_+	50S ribosomal protein L13	NA	NA	NA	NA	NA
VFI33952.1|284799_285192_+	SSU ribosomal protein S9p (S16e)	NA	NA	NA	NA	NA
VFI33954.1|285479_286634_-|integrase	phage integrase family site specific recombinase	integrase	A0A1S5S7K9	Streptococcus_phage	33.5	5.4e-48
VFI33956.1|286685_287204_-	immunity repressor protein	NA	NA	NA	NA	NA
VFI33958.1|287333_287615_+	DNA-binding protein	NA	NA	NA	NA	NA
VFI33960.1|287623_288463_+	gp49 bacteriophage-like protein	NA	Q7Y4K5	Streptococcus_phage	57.1	2.1e-49
VFI33962.1|288455_288815_+	Tn5252, Orf 9 protein	NA	NA	NA	NA	NA
VFI33964.1|288822_289155_+|transposase	transposase	transposase	NA	NA	NA	NA
VFI33966.1|289135_289330_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI33968.1|290361_290601_-|transposase	transposase	transposase	A0A146ICT8	Staphylococcus_phage	45.9	1.0e-09
VFI33970.1|290569_290911_-|transposase	transposase	transposase	Q9MBP7	Staphylococcus_prophage	33.0	3.3e-06
VFI33972.1|290907_291390_-|transposase	transposase IS663-like	transposase	A0A146ICT8	Staphylococcus_phage	29.8	5.2e-05
VFI33974.1|292195_293311_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI33976.1|293393_294836_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI33978.1|295183_296392_-	ATPase	NA	NA	NA	NA	NA
VFI33980.1|296520_296868_+|transposase	IS630-Spn1, transposase Orf1	transposase	NA	NA	NA	NA
VFI33982.1|297046_297328_+|transposase	IS630-Spn1, transposase Orf2	transposase	NA	NA	NA	NA
VFI33984.1|297483_297822_+	antibiotic biosynthesis monooxygenase subfamily protein	NA	NA	NA	NA	NA
VFI33986.1|298011_299448_+	6-phospho-beta-glucosidase	NA	A0A0B5JD41	Pandoravirus	25.7	1.0e-27
VFI33988.1|299499_299739_+	glutathione synthetase	NA	NA	NA	NA	NA
VFI33990.1|299868_300183_+	PTS system cellobiose transporter subunit IIB	NA	NA	NA	NA	NA
VFI33992.1|300306_302280_+	PTS system transporter subunit IIB	NA	NA	NA	NA	NA
VFI33994.1|302289_302604_+	lichenan-specific phosphotransferase EIIA component	NA	NA	NA	NA	NA
VFI33996.1|302634_303141_+	PTS transporter	NA	NA	NA	NA	NA
VFI33998.1|303220_304567_+	PTS system transporter subunit IIC	NA	NA	NA	NA	NA
VFI34000.1|304946_305123_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI34002.1|305122_305248_+	filamentation induced by cAMP protein fic	NA	NA	NA	NA	NA
VFI34004.1|305524_307738_+	glycosyl hydrolase, family 31	NA	NA	NA	NA	NA
VFI34006.1|307959_308436_-	gluthatione peroxidase	NA	NA	NA	NA	NA
VFI34008.1|308658_311862_+	hyaluronidase	NA	NA	NA	NA	NA
VFI34010.1|312415_312631_+|transposase	truncated IS200 family transposase	transposase	A0A1P8BMC0	Lactococcus_phage	36.8	3.2e-07
VFI34012.1|313029_313659_-	keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase	NA	NA	NA	NA	NA
VFI34014.1|313668_314670_-	carbohydrate kinase, PfkB family	NA	NA	NA	NA	NA
VFI34016.1|314700_315342_-	galactose-6-phosphate isomerase subunit LacB	NA	NA	NA	NA	NA
VFI34018.1|315360_316176_-	gluconate 5-dehydrogenase	NA	NA	NA	NA	NA
VFI34020.1|316446_316881_+	PTS system sugar-specific transporter subunit EII	NA	NA	NA	NA	NA
VFI34022.1|316892_318083_+	glucuronyl hydrolase	NA	NA	NA	NA	NA
VFI34024.1|318093_318585_+	N-acetylgalactosamine-specific phosphotransferase EIIB	NA	NA	NA	NA	NA
VFI34026.1|318599_319379_+	PTS system, N-acetylgalactosamine-specific IIC component	NA	NA	NA	NA	NA
VFI34028.1|319365_320184_+	PTS system transporter subunit IID	NA	NA	NA	NA	NA
VFI34030.1|320183_320477_+	preprotein translocase subunit YajC	NA	NA	NA	NA	NA
VFI34032.1|320498_322400_+	oligohyaluronate lyase	NA	NA	NA	NA	NA
VFI34034.1|322459_323461_+	sugar binding transcriptional regulator RegR	NA	NA	NA	NA	NA
VFI34036.1|323570_323906_-	membrane protein	NA	NA	NA	NA	NA
VFI34038.1|323916_324159_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI34040.1|324169_324712_-	membrane protein	NA	NA	NA	NA	NA
VFI34042.1|324727_324922_-	transcriptional regulator	NA	I3VYZ1	Thermoanaerobacterium_phage	42.6	7.2e-06
VFI34044.1|325087_326038_+	S-adenosyl-methyltransferase mraW	NA	NA	NA	NA	NA
VFI34046.1|326049_326367_+	cell division protein FtsL	NA	NA	NA	NA	NA
VFI34048.1|326370_328623_+	penicillin-binding protein 2X	NA	NA	NA	NA	NA
VFI34050.1|328624_329605_+	UDP-phosphate-UDP-MurNAc-pentapeptide phospho-MurNAc-pentapeptide transferase	NA	NA	NA	NA	NA
VFI34052.1|330213_332319_+	Group II intron maturase	NA	H6X3M6	Enterobacteria_phage	37.2	3.8e-116
329823:329842	attR	GATAGAACTGACGAAGTCAG	NA	NA	NA	NA
VFI34054.1|333168_333651_-	S-ribosylhomocysteinase	NA	NA	NA	NA	NA
VFI34056.1|333745_335230_-|protease	ATP-dependent Zn protease	protease	NA	NA	NA	NA
VFI34058.1|335382_336993_+	glucan 1,6-alpha-glucosidase	NA	NA	NA	NA	NA
VFI34059.1|337123_337909_-|transposase	IS1202 transposase	transposase	NA	NA	NA	NA
>prophage 5
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	354042	408058	2202359	transposase,holin,tRNA	Aeribacillus_phage(16.67%)	45	NA	NA
VFI34091.1|354042_354354_+|transposase	transposase	transposase	NA	NA	NA	NA
VFI34093.1|355303_357286_+	oligopeptide ABC transporter oligopeptide-binding protein AliA	NA	NA	NA	NA	NA
VFI34095.1|357586_362890_+	endo-alpha-N-acetylgalactosaminidase	NA	NA	NA	NA	NA
VFI34097.1|363056_365216_-	penicillin-binding protein 1A	NA	NA	NA	NA	NA
VFI34099.1|365212_365809_-	recombination protein U	NA	A0A1L2JY30	Aeribacillus_phage	33.9	8.7e-18
VFI34101.1|365874_366402_+	UPF0398 protein SSU05	NA	NA	NA	NA	NA
VFI34103.1|366471_366801_+	cell division initiation protein	NA	NA	NA	NA	NA
VFI34105.1|367286_368444_+	N-6 adenine-specific DNA methylase	NA	NA	NA	NA	NA
VFI34107.1|368456_369851_+	Holliday junction-specific endonuclease	NA	NA	NA	NA	NA
VFI34109.1|369926_371351_+|holin	choline binding protein J	holin	M4QQM4	Ostreococcus_lucimarinus_virus	29.6	2.1e-41
VFI34111.1|371362_372052_+|holin	choline binding protein J	holin	NA	NA	NA	NA
VFI34113.1|372150_373173_+|holin	choline binding protein C	holin	NA	NA	NA	NA
VFI34115.1|373191_374190_+|holin	choline binding protein J	holin	NA	NA	NA	NA
VFI34117.1|374307_375540_-	major facilitator superfamily permease	NA	NA	NA	NA	NA
VFI34119.1|375582_376458_-	lanthionine synthetase C-like protein	NA	NA	NA	NA	NA
VFI34121.1|377069_377399_+|holin	choline binding protein C	holin	NA	NA	NA	NA
VFI34123.1|377520_378399_+	mevalonate kinase	NA	NA	NA	NA	NA
VFI34125.1|378380_379334_+	diphosphomevalonate decarboxylase	NA	NA	NA	NA	NA
VFI34127.1|379320_380328_+	phosphomevalonate kinase	NA	NA	NA	NA	NA
VFI34129.1|380311_381322_+	isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2	NA	NA	NA	NA	NA
VFI34131.1|381399_382098_+	transporter	NA	NA	NA	NA	NA
VFI34133.1|382094_383090_+	histidine kinase	NA	NA	NA	NA	NA
VFI34135.1|383103_383736_+	response regulator	NA	NA	NA	NA	NA
VFI34137.1|383736_383979_+	putative DNA alkylation repair enzyme	NA	NA	NA	NA	NA
VFI34139.1|384655_384856_+	V8-like Glu-specific endopeptidase	NA	NA	NA	NA	NA
VFI34141.1|384809_385451_+|holin	choline binding protein G	holin	NA	NA	NA	NA
VFI34143.1|385410_385704_+|holin	choline binding protein G	holin	NA	NA	NA	NA
VFI34145.1|385722_386682_+|holin	choline binding protein F	holin	NA	NA	NA	NA
VFI34147.1|386809_387391_-|transposase	IS3-Spn1 transposase, truncation	transposase	A0A2I6AZV9	Macacine_betaherpesvirus	48.7	1.8e-44
VFI34149.1|387868_388138_-|transposase	transposase InsK for insertion sequence	transposase	NA	NA	NA	NA
VFI34151.1|388289_390059_+	PTS system mannitol-specific transporter subunit EIIBC	NA	NA	NA	NA	NA
VFI34153.1|390082_392038_+	putative transcriptional regulator MtlR	NA	NA	NA	NA	NA
VFI34155.1|392039_392477_+	mannitol-specific phosphotransferase EIIA	NA	NA	NA	NA	NA
VFI34157.1|392538_393675_+	mannitol-1-phosphate 5-dehydrogenase	NA	NA	NA	NA	NA
VFI34159.1|394469_395753_+	FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor)	NA	NA	NA	NA	NA
VFI34161.1|395800_398167_-	recombinase D	NA	A0A0K2FLP8	Brevibacillus_phage	27.2	2.0e-57
VFI34163.1|398445_399060_-	signal peptidase I	NA	NA	NA	NA	NA
VFI34165.1|399063_399945_-	ribonuclease HIII	NA	NA	NA	NA	NA
VFI34167.1|400031_400334_+|tRNA	seryl-tRNA synthetase	tRNA	NA	NA	NA	NA
VFI34169.1|400330_400879_+	CvpA family protein	NA	NA	NA	NA	NA
VFI34171.1|400982_403319_+	mismatch repair ATPase (MutS family)	NA	Q94M10	Lactobacillus_phage	50.0	1.8e-21
VFI34173.1|403661_404984_+	Na+/alanine symporter	NA	NA	NA	NA	NA
VFI34175.1|405201_405750_+	macrophage infectivity potentiator protein	NA	NA	NA	NA	NA
VFI34177.1|405859_406759_+	exfoliative toxin	NA	NA	NA	NA	NA
VFI34179.1|406783_408058_-|tRNA	seryl-tRNA synthetase	tRNA	A0A1B1IVT2	uncultured_Mediterranean_phage	48.5	4.3e-91
>prophage 6
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	421446	465622	2202359	transposase,protease,tRNA	Streptococcus_phage(72.73%)	43	NA	NA
VFI34213.1|421446_421725_+|protease	caax amino protease family protein	protease	NA	NA	NA	NA
VFI34215.1|422023_422446_-	transcription antitermination protein NusB	NA	NA	NA	NA	NA
VFI34217.1|422438_422828_-	general stress protein, Gls24 family	NA	NA	NA	NA	NA
VFI34219.1|422849_423410_-	Translation elongation factor P	NA	NA	NA	NA	NA
VFI34221.1|423538_424981_-|tRNA	glutamyl tRNA-Gln amidotransferase chain B	tRNA	NA	NA	NA	NA
VFI34223.1|424980_426447_-|tRNA	glutamyl-tRNA(Gln) amidotransferase, A subunit	tRNA	NA	NA	NA	NA
VFI34225.1|426446_426749_-|tRNA	aspartyl/glutamyl-tRNA amidotransferase subunit C	tRNA	NA	NA	NA	NA
VFI34227.1|426961_428506_+	regulator of gtfB	NA	A0A1B0RXH7	Streptococcus_phage	28.3	8.3e-36
VFI34229.1|429361_429550_+	LSU ribosomal protein L28p	NA	NA	NA	NA	NA
VFI34231.1|429706_430072_+	alkaline shock protein	NA	NA	NA	NA	NA
VFI34233.1|430074_431742_+	kinase	NA	NA	NA	NA	NA
VFI34235.1|431942_433643_+	acetolactate synthase large subunit	NA	A0A0P0YLY7	Yellowstone_lake_phycodnavirus	32.2	1.2e-67
VFI34237.1|433635_434112_+	acetolactate synthase 3 regulatory subunit	NA	NA	NA	NA	NA
VFI34239.1|434177_435200_+	ketol-acid reductoisomerase	NA	NA	NA	NA	NA
VFI34241.1|435306_435543_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI34243.1|435780_436137_+	ketol-acid reductoisomerase	NA	NA	NA	NA	NA
VFI34245.1|436186_437437_+	threonine dehydratase	NA	NA	NA	NA	NA
VFI34247.1|438307_438523_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI34249.1|438631_439372_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	38.4	1.2e-27
VFI34251.1|439371_440937_-	ABC transporter-amino acid transport; amino acid-binding protein/permease protein	NA	NA	NA	NA	NA
VFI34253.1|441074_442964_+	Predicted membrane protein (DUF2207)	NA	NA	NA	NA	NA
VFI34255.1|443342_443813_-|transposase	degenerate transposase	transposase	NA	NA	NA	NA
VFI34257.1|444010_444133_-|transposase	degenerate transposase	transposase	NA	NA	NA	NA
VFI34259.1|444388_445234_+	undecaprenol kinase	NA	NA	NA	NA	NA
VFI34261.1|445424_445925_-|transposase	IS1380-Spn1 transposase	transposase	A0A1X9I6F6	Streptococcus_phage	34.0	2.5e-18
VFI34263.1|446213_447275_-	DNA polymerase IV	NA	NA	NA	NA	NA
VFI34265.1|447623_449948_+	pyruvate formate-lyase	NA	A0A2P0VNR5	Tetraselmis_virus	32.9	7.9e-115
VFI34267.1|450005_450476_-|transposase	IS1167, transposase	transposase	A0A1S5SBP9	Streptococcus_phage	64.3	1.0e-45
VFI34269.1|450589_451519_-|transposase	IS1167, transposase	transposase	A0A1S5SBP9	Streptococcus_phage	53.2	2.4e-75
VFI34271.1|451783_453313_-	transcriptional regulator	NA	NA	NA	NA	NA
VFI34273.1|453827_456488_+	cell wall surface anchor family protein	NA	NA	NA	NA	NA
VFI34275.1|456711_458676_+	cell wall surface anchor family protein	NA	NA	NA	NA	NA
VFI34277.1|458698_459913_+	cell wall surface anchor family protein	NA	NA	NA	NA	NA
VFI34280.1|460251_461154_+	sortase family protein	NA	NA	NA	NA	NA
VFI34283.1|461140_462034_+	sortase	NA	NA	NA	NA	NA
VFI34286.1|462020_462872_+	sortase	NA	NA	NA	NA	NA
VFI34289.1|462944_463472_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	94.3	9.2e-88
VFI34292.1|463468_463756_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	70.6	4.3e-23
VFI34295.1|463752_464010_-|transposase	degenerate transposase	transposase	A0A1S5SBP9	Streptococcus_phage	94.3	3.6e-29
VFI34298.1|464044_464299_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	91.7	5.9e-40
VFI34301.1|464413_464563_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI34304.1|464555_464840_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI34307.1|465451_465622_-|transposase	ISSpo8 transposase	transposase	NA	NA	NA	NA
>prophage 7
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	493263	525219	2202359	transposase,tRNA,integrase,bacteriocin,protease	Bacillus_phage(28.57%)	38	491848:491907	496528:496612
491848:491907	attL	GAAACATTATGGGAAGTTTGCTGATGGAAGTACTCAAGAAATTGATGTTCCTTATGATAT	NA	NA	NA	NA
VFI34381.1|493263_494061_+|integrase	integrase/recombinase, phage integrase family	integrase	A0A0H4TI16	Erysipelothrix_phage	28.7	1.3e-21
VFI34384.1|494131_494677_+	type I restriction enzyme	NA	NA	NA	NA	NA
VFI34387.1|494965_495265_+	putative type I restriction-modification system S protein	NA	NA	NA	NA	NA
VFI34390.1|495212_496778_-	type I restriction-modification system S protein	NA	NA	NA	NA	NA
496528:496612	attR	ATATCATAAGGAACATCAATTTCTTGAGTACTTCCATCAGCAAACTTCCCATAATGTTTCCCATCATCACCACGAAATATCTCAG	NA	NA	NA	NA
VFI34393.1|496777_498241_-	type I restriction-modification system M protein	NA	NA	NA	NA	NA
VFI34396.1|498253_500587_-	type I restriction-modification system, R subunit	NA	Q5YA94	Bacillus_phage	27.6	7.6e-25
VFI34399.1|501194_501704_+	Protein of uncharacterised function (DUF2812)	NA	NA	NA	NA	NA
VFI34402.1|501867_502902_+	heat-inducible transcription repressor	NA	NA	NA	NA	NA
VFI34405.1|502928_503453_+	heat shock protein GrpE	NA	NA	NA	NA	NA
VFI34409.1|503932_505756_+	molecular chaperone DnaK	NA	A0A0N9QXN8	Chrysochromulina_ericina_virus	47.2	1.3e-133
VFI34412.1|505768_506122_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI34415.1|506326_507463_+	dnaJ protein, Heat-shock protein (activation of DnaK)	NA	E3T4P7	Cafeteria_roenbergensis_virus	31.0	1.2e-23
VFI34418.1|508197_508485_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI34421.1|508494_508905_-	protein hit	NA	B5LJ12	Mycobacterium_phage	31.6	3.4e-05
VFI34424.1|508972_509704_+	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	28.6	9.0e-25
VFI34427.1|509700_510750_+	ABC transporter permease	NA	NA	NA	NA	NA
VFI34430.1|510917_511247_-	BlpT protein, fusion	NA	NA	NA	NA	NA
VFI34433.1|511522_511861_+	regulatory protein, single domain response regulator	NA	NA	NA	NA	NA
VFI34436.1|511865_512603_+	response regulator	NA	NA	NA	NA	NA
VFI34439.1|512616_513957_+	histidine kinase	NA	NA	NA	NA	NA
VFI34442.1|514000_514156_-	double glycine cleavage site bacteriolysin superfamily	NA	NA	NA	NA	NA
VFI34445.1|514212_514704_-	BlpC ABC transporter	NA	NA	NA	NA	NA
VFI34448.1|515138_515798_-	BlpC ABC transporter	NA	NA	NA	NA	NA
VFI34451.1|515808_517434_-	competence factor transporting ATP-binding protein/permease ComA	NA	W8CYL7	Bacillus_phage	27.1	4.0e-41
VFI34453.1|517378_517966_-|protease,bacteriocin	bacteriocin transporter C39 protease domain BlpA2	protease,bacteriocin	NA	NA	NA	NA
VFI34456.1|518239_518443_+|bacteriocin	bacteriocin BlpPQ	bacteriocin	NA	NA	NA	NA
VFI34459.1|518760_518964_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI34462.1|519537_519702_+	putative immunity protein	NA	NA	NA	NA	NA
VFI34465.1|519966_520326_+|transposase	IS1381, transposase OrfA	transposase	NA	NA	NA	NA
VFI34468.1|520309_520852_+|transposase	transposase	transposase	NA	NA	NA	NA
VFI34471.1|520923_521178_+	BlpM	NA	NA	NA	NA	NA
VFI34474.1|521193_521397_+	blpN protein	NA	NA	NA	NA	NA
VFI34477.1|521652_521874_+|bacteriocin	putative bacteriocin BlpI	bacteriocin	NA	NA	NA	NA
VFI34480.1|521905_522595_+|protease	metal-dependent CAAX amino terminal membrane protease	protease	NA	NA	NA	NA
VFI34483.1|522636_522870_+	immunity protein BlpZ	NA	NA	NA	NA	NA
VFI34486.1|523020_523632_+|protease	CAAX amino terminal protease family protein	protease	NA	NA	NA	NA
VFI34489.1|523792_524587_+	aminoglycoside phosphotransferase	NA	NA	NA	NA	NA
VFI34492.1|524583_525219_+|tRNA	tRNA (guanine-N(7)-)-methyltransferase	tRNA	NA	NA	NA	NA
>prophage 8
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	553586	682751	2202359	transposase,tRNA,bacteriocin,protease,holin	Staphylococcus_phage(17.39%)	117	NA	NA
VFI34580.1|553586_555992_+|tRNA	phenylalanyl-tRNA synthetase, beta chain	tRNA	NA	NA	NA	NA
VFI34583.1|556302_556725_+|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	96.4	1.1e-70
VFI34586.1|556775_557777_-	endonuclease/exonuclease/phosphatase family	NA	NA	NA	NA	NA
VFI34589.1|557924_558149_+|transposase	transposase-like protein, IS1239	transposase	NA	NA	NA	NA
VFI34592.1|558202_558376_+|transposase	IS1239, transposase, putative	transposase	NA	NA	NA	NA
VFI34595.1|558418_558652_+	toxin-antitoxin system, antitoxin component, Xre family	NA	NA	NA	NA	NA
VFI34598.1|559066_561316_+	5- methyltetrahydropteroyltriglutamate/homocysteine S-methyltransferase	NA	NA	NA	NA	NA
VFI34601.1|561418_562285_+	5,10-methylenetetrahydrofolate reductase	NA	NA	NA	NA	NA
VFI34604.1|563348_565562_+	polyribonucleotide nucleotidyltransferase	NA	NA	NA	NA	NA
VFI34607.1|565577_566195_+	serine O-acetyltransferase	NA	NA	NA	NA	NA
VFI34610.1|566206_567091_+	GNAT family acetyltransferase	NA	NA	NA	NA	NA
VFI34613.1|567172_568516_+|tRNA	cysteinyl-tRNA synthetase	tRNA	M1PG92	Moumouvirus	36.1	5.3e-47
VFI34616.1|568508_568895_+	RIBOc superfamily protein	NA	NA	NA	NA	NA
VFI34619.1|568898_569783_+	leucine-rich protein	NA	NA	NA	NA	NA
VFI34622.1|569919_570405_+	putative glutamine transport system permease protein	NA	NA	NA	NA	NA
VFI34625.1|570526_570778_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI34628.1|571448_572726_+	ABC transporter permease	NA	NA	NA	NA	NA
VFI34631.1|572738_573386_+	ABC transporter, ATP-binding protein Vexp2	NA	G9BWD6	Planktothrix_phage	33.7	2.4e-21
VFI34634.1|573437_574817_+	ABC transporter, transmembrane protein Vexp3	NA	NA	NA	NA	NA
VFI34638.1|575128_575785_+	VncR, response regulator	NA	NA	NA	NA	NA
VFI34642.1|575781_577110_+	VncS histidine kinase TCS10	NA	W8CYF6	Bacillus_phage	26.0	1.4e-12
VFI34645.1|577250_578132_+	fructose-bisphosphate aldolase	NA	NA	NA	NA	NA
VFI34649.1|578452_579643_-	oxidoreductase	NA	NA	NA	NA	NA
VFI34653.1|579937_580597_-	ABC-type amino acid transporter, membrane-spanning permease	NA	NA	NA	NA	NA
VFI34657.1|580984_581539_-	polar amino acid ABC transporter permease	NA	NA	NA	NA	NA
VFI34661.1|581551_582316_-	glutamine-binding protein	NA	NA	NA	NA	NA
VFI34665.1|582354_583113_-	amino acid ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	41.1	1.6e-37
VFI34669.1|583389_585612_+	single-stranded DNA-specific exonuclease	NA	A7KV88	Bacillus_phage	29.9	7.1e-73
VFI34673.1|585786_587448_+	metallo-beta-lactamase superfamily protein	NA	NA	NA	NA	NA
VFI34677.1|587516_588296_+	esterase	NA	NA	NA	NA	NA
VFI34682.1|588407_589628_+	serine/alanine-adding enzyme MurM	NA	NA	NA	NA	NA
VFI34686.1|589632_590865_+	peptidoglycan branched peptide synthesis protein, femAB family	NA	NA	NA	NA	NA
VFI34690.1|590943_591645_+	proteinase	NA	NA	NA	NA	NA
VFI34694.1|591684_593529_+	excinuclease, subunit C	NA	NA	NA	NA	NA
VFI34698.1|593518_594352_+	Ser/Thr protein phosphatase family protein	NA	NA	NA	NA	NA
VFI34702.1|594533_595334_-	amino acid ABC transporter amino acid-binding protein	NA	NA	NA	NA	NA
VFI34706.1|595504_596110_+	nitroreductase	NA	NA	NA	NA	NA
VFI34710.1|596122_597523_+	peptidase M20 superfamily	NA	NA	NA	NA	NA
VFI34714.1|597576_598155_+	uracil DNA glycosylase	NA	NA	NA	NA	NA
VFI34718.1|598314_598467_+	rhodanese-related sulfurtransferase	NA	NA	NA	NA	NA
VFI34721.1|598772_600098_+	branched-chain amino acid transport system II carrier protein	NA	NA	NA	NA	NA
VFI34725.1|600195_601233_+	peptidase, M42 (glutamyl aminopeptidase) family	NA	NA	NA	NA	NA
VFI34729.1|601234_601696_+	HIT family protein	NA	NA	NA	NA	NA
VFI34733.1|601710_602427_+	D-alanyl-D-alanine carboxypeptidase	NA	NA	NA	NA	NA
VFI34737.1|602549_602975_+	50S ribosomal protein L11	NA	NA	NA	NA	NA
VFI34741.1|603182_603872_+	50S ribosomal protein L1	NA	NA	NA	NA	NA
VFI34745.1|604517_604844_-	chlorohydrolase	NA	NA	NA	NA	NA
VFI34749.1|604857_605220_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI34753.1|606264_607257_+	ATP-binding transport protein	NA	A0A2H4PQG7	Staphylococcus_phage	28.9	5.2e-15
VFI34757.1|607258_608077_+	membrane protein	NA	NA	NA	NA	NA
VFI34761.1|608078_608864_+	ABC transporter permeae	NA	NA	NA	NA	NA
VFI34765.1|608899_609181_+	GNAT family acetyltransferase	NA	NA	NA	NA	NA
VFI34769.1|610095_616527_+|protease	serine protease	protease	NA	NA	NA	NA
VFI34773.1|617935_618385_+|transposase	transposase	transposase	NA	NA	NA	NA
VFI34777.1|619073_619550_+	PTS system transporter subunit IIA	NA	NA	NA	NA	NA
VFI34781.1|619587_619893_+	PTS system IIB component (galactitol/fructose specific)	NA	NA	NA	NA	NA
VFI34785.1|619940_621416_+	PTS system galactitol-specific family transporter subunit IIC	NA	NA	NA	NA	NA
VFI34789.1|621675_628377_+	beta-galactosidase	NA	NA	NA	NA	NA
VFI34793.1|628623_628854_-|transposase	transposase	transposase	A0A146ICT8	Staphylococcus_phage	47.1	7.5e-10
VFI34797.1|629019_629247_-|transposase	transposase	transposase	A0ZS58	Staphylococcus_virus	40.0	6.5e-06
VFI34801.1|629234_629480_-|transposase	transposase	transposase	Q9MBP7	Staphylococcus_prophage	42.3	4.2e-11
VFI34805.1|629691_630051_-	integral membrane protein	NA	NA	NA	NA	NA
VFI34809.1|630142_630652_+	radical SAM superfamily protein (pseudogene)	NA	NA	NA	NA	NA
VFI34813.1|630652_631099_+	putative Fe-S oxidoreductase	NA	A0A2H4PQV5	Staphylococcus_phage	50.4	2.9e-34
VFI34817.1|631082_631640_+	SAM-dependent methyltransferase	NA	A0A2H4PQV0	Staphylococcus_phage	40.9	2.4e-33
VFI34821.1|631632_631887_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI34825.1|631898_633953_+	Na+/H+ antiporter	NA	NA	NA	NA	NA
VFI34829.1|634131_634992_+	ribonuclease BN	NA	NA	NA	NA	NA
VFI34833.1|635202_635913_+	cytochrome c-type biogenesis protein	NA	NA	NA	NA	NA
VFI34837.1|635932_636499_+	thioredoxin	NA	NA	NA	NA	NA
VFI34841.1|636509_637622_+	peptide methionine sulfoxide reductase	NA	NA	NA	NA	NA
VFI34845.1|637844_638582_+	DNA-binding response regulator	NA	NA	NA	NA	NA
VFI34849.1|638578_640270_+	histidine kinase	NA	Q9EYF3	Enterobacteria_phage	32.7	9.4e-25
VFI34853.1|640385_640949_+	UPF0340 protein SSU05	NA	NA	NA	NA	NA
VFI34857.1|640970_646658_+|protease	zinc metalloprotease ZmpB	protease	NA	NA	NA	NA
VFI34861.1|646726_648448_+	chorismate binding enzyme para-aminobenzoate synthetase	NA	A0A0B5J984	Pandoravirus	29.7	3.7e-37
VFI34865.1|648448_649066_+	putative alpha/beta superfamily hydrolase	NA	NA	NA	NA	NA
VFI34869.1|649115_650105_+|holin	choline binding protein	holin	NA	NA	NA	NA
VFI34873.1|650240_651200_+	glucokinase	NA	NA	NA	NA	NA
VFI34877.1|651296_652136_+	thymidylate synthase	NA	U5J9N5	Bacillus_phage	55.0	3.6e-86
VFI34880.1|652183_652354_-	putative uncharacterized protein ORF 3	NA	NA	NA	NA	NA
VFI34884.1|652474_653359_+|tRNA	tRNA delta(2)-isopentenylpyrophosphate transferase	tRNA	NA	NA	NA	NA
VFI34888.1|653351_654590_+	GTP-binding protein HflX	NA	NA	NA	NA	NA
VFI34891.1|654582_655206_+	cystathionine beta-lyase	NA	NA	NA	NA	NA
VFI34895.1|655220_656150_+	hydrolase	NA	NA	NA	NA	NA
VFI34900.1|656170_656926_+	dehydrogenase	NA	NA	NA	NA	NA
VFI34904.1|656979_657948_-	transcriptional regulator	NA	A0A2H4J8I9	uncultured_Caudovirales_phage	28.9	1.5e-06
VFI34908.1|657951_658221_+	hypothetical cytosolic protein	NA	NA	NA	NA	NA
VFI34912.1|658220_658601_+	rhodanese family protein	NA	NA	NA	NA	NA
VFI34916.1|658689_658917_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI34920.1|658956_659682_-	ribosomal small subunit pseudouridine synthase A	NA	NA	NA	NA	NA
VFI34924.1|659843_661685_+	GTP-binding protein TypA	NA	NA	NA	NA	NA
VFI34928.1|661704_661959_+	membrane protein	NA	NA	NA	NA	NA
VFI34932.1|662321_662621_+|bacteriocin	bacteriocin, lactococcin 972 family	bacteriocin	NA	NA	NA	NA
VFI34936.1|662691_664713_+|bacteriocin	bacteriocin-associated integral membrane protein	bacteriocin	NA	NA	NA	NA
VFI34940.1|664714_665356_+	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	36.2	1.4e-24
VFI34944.1|665459_666812_+	MurD D-glutamic acid adding enzyme	NA	NA	NA	NA	NA
VFI34948.1|666815_667874_+	UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase	NA	NA	NA	NA	NA
VFI34952.1|667883_669041_+	cell division septal protein	NA	NA	NA	NA	NA
VFI34956.1|669306_670008_+	orotidine-5-phosphate decarboxylase	NA	NA	NA	NA	NA
VFI34960.1|670041_670674_+	orotate phosphoribosyltransferase	NA	R9S7H3	Prochlorococcus_phage	32.1	2.4e-05
VFI34964.1|670853_671258_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI34968.1|671353_672118_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI34972.1|672117_672870_+	lipoprotein	NA	NA	NA	NA	NA
VFI34976.1|672900_673578_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI34980.1|673574_674222_+	ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	27.8	9.5e-18
VFI34984.1|674301_674850_-	putative periplasmic solute-binding transport protein (pseudogene)	NA	NA	NA	NA	NA
VFI34988.1|674924_675167_-	polar amino acid ABC uptake transporter substrate binding protein	NA	NA	NA	NA	NA
VFI34992.1|675178_675685_-	amino acid ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	42.2	6.7e-19
VFI34996.1|675825_675936_-	polar amino acid ABC transporter ATPase	NA	NA	NA	NA	NA
VFI35000.1|676233_676614_-	glutamine ABC transporter membrane-spanning permease	NA	NA	NA	NA	NA
VFI35004.1|676573_677254_-	amino acid ABC transporter permease	NA	NA	NA	NA	NA
VFI35008.1|677469_677616_+	L-lactate dehydrogenase (FMN-dependent)-like alpha-hydroxy acid dehydrogenase	NA	NA	NA	NA	NA
VFI35012.1|677743_679234_+|tRNA	lysyl-tRNA synthetase	tRNA	A0A1V0SAC0	Catovirus	39.4	9.6e-90
VFI35016.1|679272_680529_-|transposase	IS1167, transposase	transposase	A0A1S5SBP9	Streptococcus_phage	97.8	2.4e-235
VFI35020.1|681281_682427_+	L-lactate oxidase	NA	NA	NA	NA	NA
VFI35024.1|682466_682751_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	98.9	3.4e-44
>prophage 9
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	698611	776668	2202359	transposase,integrase,protease,tRNA	Streptococcus_phage(19.23%)	83	739344:739392	772696:772744
VFI35094.1|698611_699121_-|transposase	transposase family protein	transposase	NA	NA	NA	NA
VFI35098.1|699152_699419_-|transposase	degenerate transposase	transposase	NA	NA	NA	NA
VFI35101.1|699415_699658_-|transposase	transposase	transposase	NA	NA	NA	NA
VFI35105.1|699722_700004_+	glycosyl hydrolase	NA	NA	NA	NA	NA
VFI35109.1|700135_701080_+	mannose-6-phosphate isomerase	NA	NA	NA	NA	NA
VFI35113.1|701119_701926_-	sodium-dependent transporter	NA	NA	NA	NA	NA
VFI35117.1|702075_702465_+|transposase	transposase-like protein, IS1381 ISSpn7	transposase	NA	NA	NA	NA
VFI35121.1|702490_702880_+|transposase	transposase	transposase	NA	NA	NA	NA
VFI35125.1|702876_703122_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
VFI35129.1|703136_704309_-	putative flavoprotein	NA	A0A2H4PQX1	Staphylococcus_phage	56.6	1.5e-16
VFI35134.1|704367_705213_-	fatty-acid binding protein	NA	A0A1X9I5J4	Streptococcus_phage	69.1	1.6e-102
VFI35139.1|705337_705895_+	transcriptional regulator	NA	A0A1X9I6A2	Streptococcus_phage	63.6	1.8e-20
VFI35143.1|705913_706381_+	dCMP deaminase	NA	A7KUY9	Bacillus_phage	57.6	8.9e-34
VFI35147.1|706469_707099_+	uracil phosphoribosyltransferase	NA	NA	NA	NA	NA
VFI35151.1|707272_707863_+|protease	ATP-dependent Clp protease proteolytic subunit	protease	A0A223W000	Agrobacterium_phage	55.1	2.3e-55
VFI35155.1|707941_708190_+	UPF0298 protein SSU98	NA	NA	NA	NA	NA
VFI35159.1|708290_709451_+	ABC transporter substrate binding lipoprotein-branched chain amino acid transport	NA	NA	NA	NA	NA
VFI35163.1|709718_710588_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
VFI35167.1|710591_711548_+	branched-chain amino acid ABC transporter permease	NA	NA	NA	NA	NA
VFI35171.1|711547_712312_+	putative branched-chain amino acid transport protein	NA	A0A2H4PQG7	Staphylococcus_phage	26.1	2.1e-16
VFI35175.1|712311_713022_+	branched-chain amino acid transport protein	NA	G9BWD6	Planktothrix_phage	27.7	1.8e-17
VFI35179.1|713329_713986_+	CBS domain containing protein	NA	M1NSC5	Streptococcus_phage	71.3	2.2e-83
VFI35183.1|714211_715189_+	peptide chain release factor 2	NA	NA	NA	NA	NA
VFI35187.1|715206_715899_+	cell division ATP-binding protein FtsE	NA	G9BWD6	Planktothrix_phage	34.3	2.0e-29
VFI35191.1|715891_716818_+	cell division ABC transporter permease FtsX	NA	NA	NA	NA	NA
VFI35195.1|717106_719284_+	PTS glucose-specific enzyme IIABC component	NA	NA	NA	NA	NA
VFI35199.1|719335_720151_+	metal-dependent hydrolase superfamily protein	NA	NA	NA	NA	NA
VFI35203.1|720356_722777_+	LPXTG cell wall surface protein	NA	NA	NA	NA	NA
VFI35207.1|723156_724500_+	ATP-dependent RNA helicase	NA	A0A1V0SIR5	Klosneuvirus	32.4	1.0e-50
VFI35211.1|724715_725906_+	S-adenosylmethionine synthetase	NA	A0A2H4PQS6	Staphylococcus_phage	65.9	1.5e-141
VFI35216.1|726458_727394_+	dihydroorotate dehydrogenase 1A	NA	A0A1V0SH91	Hokovirus	43.9	4.6e-66
VFI35221.1|727427_728465_+	DNA polymerase III, delta subunit	NA	NA	NA	NA	NA
VFI35225.1|728637_729243_+	superoxide dismutase	NA	Q56AR7	Bacillus_thuringiensis_phage	56.7	1.0e-61
VFI35230.1|729398_729929_+	transcriptional regulator	NA	NA	NA	NA	NA
VFI35235.1|729949_731035_+	ribosomal RNA large subunit methyltransferase N	NA	NA	NA	NA	NA
VFI35240.1|731034_731517_+	VanZ family protein	NA	NA	NA	NA	NA
VFI35245.1|731518_733060_+	ABC transporter ATP-binding protein	NA	A0A2K9L3Z8	Tupanvirus	27.9	3.9e-54
VFI35250.1|733115_733919_-	peptidyl-prolyl cis-trans isomerase	NA	A0A1V0SCU1	Indivirus	40.0	6.9e-18
VFI35254.1|734002_734215_-	membrane protein	NA	NA	NA	NA	NA
VFI35259.1|735072_735345_+	30S ribosomal protein S16	NA	NA	NA	NA	NA
VFI35264.1|735364_735604_+	KH domain-containing protein	NA	NA	NA	NA	NA
VFI35269.1|736180_736969_+	alpha/beta fold family hydrolase	NA	NA	NA	NA	NA
VFI35274.1|736999_737518_+	16S_rRNA processing protein RimM	NA	NA	NA	NA	NA
VFI35279.1|737507_738227_+|tRNA	tRNA (guanine-N(1)-)-methyltransferase	tRNA	NA	NA	NA	NA
VFI35284.1|738238_738577_+	ATP cone domain-containing protein	NA	NA	NA	NA	NA
VFI35289.1|738606_738927_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI35295.1|739024_739240_+|tRNA	seryl-tRNA synthetase family protein	tRNA	NA	NA	NA	NA
739344:739392	attL	AGCCTGCGGCTAGCTTCCTAGTTTGCTCTTTGATTTTCATTGAGTATAA	NA	NA	NA	NA
VFI35300.1|739445_739982_-	biotin synthase	NA	NA	NA	NA	NA
VFI35305.1|740178_741525_-	glutathione reductase	NA	NA	NA	NA	NA
VFI35310.1|741810_743010_+	membrane-fusion protein	NA	NA	NA	NA	NA
VFI35315.1|742993_743695_+	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	43.9	4.0e-38
VFI35322.1|743696_744956_+	ABC transporter permeae	NA	NA	NA	NA	NA
VFI35327.1|745079_747077_+|tRNA	methionyl-tRNA synthetase	tRNA	A0A1V0SEZ7	Hokovirus	31.4	1.8e-83
VFI35332.1|747362_747683_+	PadR family transcriptional regulator	NA	NA	NA	NA	NA
VFI35337.1|747686_748502_+	membrane protein	NA	NA	NA	NA	NA
VFI35342.1|748576_749503_+	aldo/keto reductase family oxidoreductase	NA	NA	NA	NA	NA
VFI35347.1|749598_749835_+|tRNA	methionine--tRNA ligase	tRNA	NA	NA	NA	NA
VFI35352.1|749827_750526_+	short chain dehydrogenase	NA	NA	NA	NA	NA
VFI35357.1|750536_751082_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI35362.1|751333_752680_+|transposase	IS1380-Spn1 transposase	transposase	A0A1X9I6F6	Streptococcus_phage	40.0	7.6e-78
VFI35367.1|752857_753055_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI35372.1|753066_753507_+	acetyltransferase	NA	NA	NA	NA	NA
VFI35377.1|753628_756175_+	aminopeptidase N	NA	A0A0P0IY26	Acinetobacter_phage	27.1	1.6e-73
VFI35382.1|756283_756958_+	DNA-binding response regulator CiaR	NA	W8CYM9	Bacillus_phage	33.6	3.1e-27
VFI35385.1|756947_758282_+	histidine kinase	NA	Q8QNA2	Ectocarpus_siliculosus_virus	34.0	1.2e-06
VFI35390.1|758315_758603_-	membrane protein	NA	NA	NA	NA	NA
VFI35396.1|758742_759672_+	U32 family peptidase	NA	NA	NA	NA	NA
VFI35401.1|759871_762322_+	ATP-dependent helicase DinG	NA	A0A1X9I5C8	Streptococcus_phage	46.9	7.3e-196
VFI35406.1|762358_763582_+	RodA	NA	NA	NA	NA	NA
VFI35411.1|763592_764147_+	4-methyl-5(b-hydroxyethyl)-thiazole monophosphate biosynthesis protein	NA	A0A0N7KVR4	Yellowstone_lake_phycodnavirus	27.2	6.4e-07
VFI35416.1|764222_764795_+	phosphatase	NA	NA	NA	NA	NA
VFI35421.1|764809_766756_+	DNA gyrase subunit B	NA	G3M9Z3	Bacillus_virus	45.6	3.2e-146
VFI35426.1|766837_768565_+	septation ring formation regulator EzrA	NA	NA	NA	NA	NA
VFI35431.1|769545_769812_+|transposase	transposase	transposase	NA	NA	NA	NA
VFI35436.1|769953_770259_+|tRNA	glycyl-tRNA synthetase subunit alpha	tRNA	NA	NA	NA	NA
VFI35441.1|770365_770716_-|transposase	transposase, ISSmi4	transposase	NA	NA	NA	NA
VFI35446.1|770870_771170_+|transposase	transposase	transposase	NA	NA	NA	NA
VFI35451.1|771395_772229_+|integrase	integrase core domain-containing protein	integrase	A0A1B1P773	Bacillus_phage	48.9	1.4e-58
VFI35456.1|772337_772637_-	Domain of uncharacterised function (DUF1827)	NA	NA	NA	NA	NA
VFI35461.1|772801_773065_-	NTP pyrophosphohydrolase including oxidative damage repair enzymes	NA	NA	NA	NA	NA
772696:772744	attR	TTATACTCAATGAAAATCAAAGAGCAAACTAGGAAGCTAGCCGCAGGCT	NA	NA	NA	NA
VFI35466.1|773334_773664_+|transposase	IS630-Spn1, transposase Orf1	transposase	NA	NA	NA	NA
VFI35472.1|773842_774208_+|transposase	IS630-Spn1, transposase Orf2	transposase	NA	NA	NA	NA
VFI35477.1|774409_776668_-|protease	ATP-dependent Clp protease, ATP-binding subunit	protease	K4FB40	Cronobacter_phage	40.4	4.6e-128
>prophage 10
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	798139	860147	2202359	transposase,integrase	Streptococcus_phage(27.78%)	56	836851:836893	857187:857229
VFI35602.1|798139_798352_+|transposase	degenerate transposase (Orf1)	transposase	NA	NA	NA	NA
VFI35609.1|798487_798655_+|transposase	transposase	transposase	NA	NA	NA	NA
VFI35614.1|798654_799488_+|integrase	integrase core domain-containing protein	integrase	A0A1B1P773	Bacillus_phage	47.7	7.8e-57
VFI35619.1|799532_800174_-	putative glycerol-3-phosphate acyltransferase PlsY	NA	NA	NA	NA	NA
VFI35624.1|800309_802253_+	topoisomerase IV subunit B	NA	G3M9Z3	Bacillus_virus	43.0	7.0e-125
VFI35629.1|802252_802360_+	N-6 DNA methylase	NA	NA	NA	NA	NA
VFI35634.1|802708_805144_+	topoisomerase IV subunit A, ParC	NA	G3M9Z5	Bacillus_virus	31.3	1.9e-95
VFI35639.1|805275_806298_+	branched-chain amino acid aminotransferase	NA	NA	NA	NA	NA
VFI35644.1|806353_807058_+	extracellular oligopeptide-binding protein	NA	NA	NA	NA	NA
VFI35649.1|807122_807812_+	permease	NA	NA	NA	NA	NA
VFI35654.1|807808_808732_+	permease	NA	NA	NA	NA	NA
VFI35659.1|808746_809391_+	pyroglutamyl-peptidase I	NA	NA	NA	NA	NA
VFI35665.1|809558_809789_+	branched-chain amino acid aminotransferase	NA	NA	NA	NA	NA
VFI35670.1|810161_811364_+	30S ribosomal protein S1	NA	NA	NA	NA	NA
VFI35675.1|811449_811953_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	90.2	8.0e-81
VFI35680.1|812054_812732_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	91.0	1.6e-113
VFI35685.1|812924_813422_+	GAF domain-containing protein	NA	NA	NA	NA	NA
VFI35689.1|813421_815077_+	DNA polymerase III subunits gamma and tau	NA	A0A1U9WR94	Streptococcus_virus	42.2	3.8e-47
VFI35692.1|815104_815299_+	membrane protein	NA	NA	NA	NA	NA
VFI35699.1|815448_816219_+	FeS assembly ATPase SufC	NA	A0A2R8FG22	Brazilian_cedratvirus	28.5	2.5e-09
VFI35704.1|816246_817509_+	FeS assembly protein SufD	NA	NA	NA	NA	NA
VFI35709.1|817519_818746_+	class-V aminotransferase	NA	Q2XUY6	environmental_halophage	44.8	1.5e-104
VFI35714.1|818732_819173_+	nifU family protein	NA	A0A2P1CJL8	Mycobacterium_phage	39.0	1.6e-13
VFI35719.1|819226_820639_+	Iron-sulfur cluster assembly protein SufB	NA	NA	NA	NA	NA
VFI35724.1|820869_822111_-	D-alanyl-D-alanine carboxypeptidase, penicillin-binding protein 3	NA	B6DZZ7	Stx2-converting_phage	25.5	1.1e-17
VFI35729.1|822213_823323_+	putative permease	NA	NA	NA	NA	NA
VFI35734.1|824734_825475_+	transcriptional repressor of fructose operon	NA	NA	NA	NA	NA
VFI35739.1|825471_826383_+	fructose-1-phosphate kinase	NA	NA	NA	NA	NA
VFI35744.1|826379_828332_+	PTS system, fructose specific IIBC component	NA	NA	NA	NA	NA
VFI35749.1|828417_830721_+	DNA translocase, cell division protein	NA	S5VNE3	Mycobacterium_phage	49.9	1.0e-85
VFI35754.1|830765_831194_-	membrane protein	NA	NA	NA	NA	NA
VFI35759.1|831331_832474_+	class-V aminotransferase	NA	NA	NA	NA	NA
VFI35764.1|832482_833697_+	thiamine biosynthesis ATP pyrophosphatase	NA	NA	NA	NA	NA
VFI35769.1|833833_834658_+	Esterase	NA	NA	NA	NA	NA
VFI35774.1|834679_835015_+	esterase superfamily protein	NA	NA	NA	NA	NA
VFI35779.1|835011_835419_+	esterase	NA	NA	NA	NA	NA
VFI35784.1|835431_836598_+	carbamoylphosphate synthase large subunit	NA	NA	NA	NA	NA
836851:836893	attL	ATACTCAATGAAAATCAAAGAGCAAACTAGGAAGCTAGCCGCA	NA	NA	NA	NA
VFI35789.1|837105_838599_+	type I restriction modification enzyme methylase subunit	NA	A0A2H4UVB0	Bodo_saltans_virus	31.8	3.0e-27
VFI35794.1|838611_839154_+	type I restriction-modification system subunit S	NA	NA	NA	NA	NA
VFI35799.1|839150_840212_+	restriction modification system DNA specificity subunit	NA	NA	NA	NA	NA
VFI35804.1|840271_840508_+	toxin-antitoxin system, antitoxin component,AbrB family	NA	NA	NA	NA	NA
VFI35807.1|840504_840918_+	prophage maintenance system killer protein	NA	NA	NA	NA	NA
VFI35812.1|841035_842001_+|integrase	integrase/recombinase, phage integrase family protein	integrase	A0A2H4JAA2	uncultured_Caudovirales_phage	29.6	1.4e-33
VFI35819.1|842023_842605_+	type I restriction-modification system subunit S	NA	NA	NA	NA	NA
VFI35824.1|842634_845985_+	type I restriction-modification system R subunit	NA	A0A2H4P9W3	Gordonia_phage	24.8	3.1e-11
VFI35829.1|846255_846456_+	chlorohydrolase	NA	NA	NA	NA	NA
VFI35834.1|846570_847041_-	arginine repressor	NA	NA	NA	NA	NA
VFI35839.1|847057_849331_-	x-prolyl-dipeptidyl aminopeptidase	NA	NA	NA	NA	NA
VFI35844.1|849677_852779_+	DNA-polymerase III alpha-chain	NA	A0A291AWR1	Streptomyces_phage	32.8	2.3e-114
VFI35849.1|852861_853869_+	6-phosphofructokinase	NA	NA	NA	NA	NA
VFI35854.1|853927_855433_+	pyruvate kinase	NA	NA	NA	NA	NA
VFI35859.1|855660_856188_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	94.9	1.1e-88
VFI35864.1|856184_856472_-|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	75.3	4.6e-25
VFI35869.1|856468_856987_-|transposase	degenerate transposase	transposase	A0A1S5SBP9	Streptococcus_phage	90.4	2.9e-78
VFI35874.1|858784_859657_+	lipoprotein, putative	NA	NA	NA	NA	NA
857187:857229	attR	TGCGGCTAGCTTCCTAGTTTGCTCTTTGATTTTCATTGAGTAT	NA	NA	NA	NA
VFI35879.1|859763_860147_-|transposase	transposase-like protein, IS1381 ISSpn7	transposase	NA	NA	NA	NA
>prophage 11
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	884952	894591	2202359	holin	Streptococcus_phage(88.89%)	10	NA	NA
VFI36014.1|884952_886836_+|holin	choline binding protein E CbpE	holin	Q332B9	Clostridium_botulinum_C_phage	22.5	6.2e-09
VFI36019.1|886936_888046_+	gamma-glutamyl kinase	NA	A0A1X9I5D0	Streptococcus_phage	58.7	3.8e-115
VFI36024.1|888055_889318_+	gamma-glutamyl phosphate reductase	NA	A0A1X9I5D4	Streptococcus_phage	64.8	5.0e-140
VFI36029.1|889321_890119_+	pyrroline-5-carboxylate reductase	NA	A0A1X9I6T5	Streptococcus_phage	50.2	6.1e-59
VFI36034.1|890338_890977_+	thymidylate kinase	NA	M1PSC7	Streptococcus_phage	68.1	9.8e-76
VFI36039.1|890973_891864_+	DNA polymerase III, delta' subunit	NA	M1NSC1	Streptococcus_phage	51.4	1.4e-72
VFI36044.1|891903_892221_+	DNA replication intiation control protein YabA	NA	M1PFV3	Streptococcus_phage	60.0	2.9e-28
VFI36049.1|892223_893093_+	tetrapyrrole methylase	NA	M1PLC5	Streptococcus_phage	75.7	2.3e-115
VFI36054.1|893319_893838_+	DUF1706 domain-containing protein	NA	NA	NA	NA	NA
VFI36059.1|893946_894591_+	phage protein	NA	M1PFC4	Streptococcus_phage	34.6	3.6e-09
>prophage 12
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	961204	1009369	2202359	transposase,tRNA	Streptococcus_phage(18.75%)	55	NA	NA
VFI36413.1|961204_962578_-|tRNA	tRNA modification GTPase TrmE	tRNA	NA	NA	NA	NA
VFI36418.1|962715_962898_-	4-oxalocrotonate tautomerase	NA	NA	NA	NA	NA
VFI36423.1|963021_963612_+	thymidine kinase	NA	A0A0K1Y4R8	Klebsiella_phage	48.4	1.4e-47
VFI36428.1|963608_964688_+	peptide chain release factor 1	NA	NA	NA	NA	NA
VFI36433.1|964687_965527_+	protein-(glutamine-N5) methyltransferase, release factor-specific	NA	NA	NA	NA	NA
VFI36438.1|965510_966113_+	Sua5/YciO/YrdC family protein	NA	NA	NA	NA	NA
VFI36443.1|966114_966546_+	acetyltransferase	NA	NA	NA	NA	NA
VFI36448.1|966607_967864_+	serine hydroxymethyltransferase	NA	A0A240F3L3	Aeromonas_phage	53.1	3.3e-99
VFI36453.1|967871_968846_+	Pseudouridylate synthase, 23S RNA-specific	NA	NA	NA	NA	NA
VFI36458.1|968845_969460_+	pneumococcal vaccine antigen A	NA	A0A1W6JSC2	Bacillus_phage	42.7	5.8e-25
VFI36463.1|969533_970508_+	extracellular protein	NA	NA	NA	NA	NA
VFI36468.1|970581_972213_+	23S rRNA (uracil-5-)-methyltransferase RumA	NA	A0A1X9I6F4	Streptococcus_phage	72.4	2.1e-191
VFI36473.1|972973_973168_+	putative transcriptional regulator	NA	NA	NA	NA	NA
VFI36478.1|973560_974586_+	iron ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
VFI36483.1|974575_975583_+	iron-siderophore binding lipoprotein	NA	A0A2H4IY97	uncultured_Caudovirales_phage	26.4	7.6e-22
VFI36488.1|975582_976590_+	iron ABC transporter membrane-spanning permease	NA	NA	NA	NA	NA
VFI36494.1|976589_977384_+	ferric enterobactin transport ATP-binding protein FepC	NA	W6JKT0	Anomala_cuprea_entomopoxvirus	28.0	6.4e-16
VFI36496.1|977951_978161_+	type II restriction endonuclease	NA	NA	NA	NA	NA
VFI36501.1|979124_979286_+	site-specific DNA recombinase	NA	NA	NA	NA	NA
VFI36506.1|979377_979884_+	site-specific DNA recombinase	NA	A0A2H4J992	uncultured_Caudovirales_phage	33.5	5.3e-16
VFI36509.1|979855_981061_+	site-specific recombinase, resolvase family protein	NA	C7F8K5	Bacillus_phage	28.7	3.8e-20
VFI36514.1|981328_981895_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI36519.1|982218_982407_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI36524.1|982468_983227_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI36528.1|983284_984139_+	hydrolase	NA	NA	NA	NA	NA
VFI36533.1|984250_985135_+	sphingosine kinase	NA	NA	NA	NA	NA
VFI36538.1|985296_986001_+	neopullulanase	NA	NA	NA	NA	NA
VFI36540.1|985976_986432_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI36545.1|986876_987047_+	transcriptional regulator	NA	NA	NA	NA	NA
VFI36551.1|987052_987709_+	signal recognition particle GTPase	NA	NA	NA	NA	NA
VFI36556.1|987736_988027_+	phosphoesterase	NA	NA	NA	NA	NA
VFI36561.1|988020_988893_+	SMC faily protein	NA	A0A1B1IUG5	uncultured_Mediterranean_phage	43.0	1.3e-09
VFI36566.1|989711_990071_+	Tn5252, Orf 10 protein	NA	NA	NA	NA	NA
VFI36571.1|990080_990446_+	Tn5252, Orf 9 protein	NA	NA	NA	NA	NA
VFI36576.1|990432_992283_+	Tn5252, relaxase	NA	NA	NA	NA	NA
VFI36581.1|992547_993216_+|transposase	degenerate transposase	transposase	NA	NA	NA	NA
VFI36586.1|993317_993503_+|transposase	degenerate transposase	transposase	NA	NA	NA	NA
VFI36591.1|993605_993971_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI36596.1|994663_995617_-|transposase	IS1239 transposase	transposase	H7BWC8	unidentified_phage	35.2	1.6e-34
VFI36601.1|996053_996404_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI36606.1|996462_997137_+	chloramphenicol acetyltransferase	NA	NA	NA	NA	NA
VFI36611.1|997204_998842_+|tRNA	methionyl-tRNA synthetase	tRNA	A0A167RM67	Powai_lake_megavirus	32.0	2.5e-75
VFI36616.1|998942_999710_+	Protein tyrosine phosphatase	NA	NA	NA	NA	NA
VFI36621.1|1000732_1001719_+	ABC transporter ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	27.9	8.8e-15
VFI36626.1|1001720_1002539_+	ABC-2 type transport system permease protein	NA	NA	NA	NA	NA
VFI36631.1|1002540_1003326_+	ABC transporter permease	NA	NA	NA	NA	NA
VFI36636.1|1003958_1004279_-|transposase	degenerate transposase	transposase	A0A1X9I5Z0	Streptococcus_phage	74.4	8.2e-23
VFI36641.1|1004762_1004978_-|transposase	degenerate transposase	transposase	A0A1X9I5Z0	Streptococcus_phage	82.2	5.2e-13
VFI36646.1|1005401_1005605_+	Cro/CI family transcriptional regulator	NA	A0A139ZPI6	Marinitoga_camini_virus	39.3	6.4e-05
VFI36651.1|1005851_1006001_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI36656.1|1006054_1007848_+|tRNA	methionyl-tRNA synthetase	tRNA	A0A2I4R675	Erysipelothrix_phage	51.8	4.0e-151
VFI36661.1|1007970_1008228_+	peptidase	NA	NA	NA	NA	NA
VFI36666.1|1008256_1008541_+	cobyric acid synthase CbiP	NA	NA	NA	NA	NA
VFI36671.1|1008822_1009032_+	phosphotransferase	NA	NA	NA	NA	NA
VFI36676.1|1009174_1009369_+|transposase	transposase-like protein, IS1381 ISSpn7	transposase	NA	NA	NA	NA
>prophage 13
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	1024482	1074307	2202359	transposase	Streptococcus_phage(45.45%)	53	NA	NA
VFI36751.1|1024482_1024599_-|transposase	IS1167, transposase	transposase	NA	NA	NA	NA
VFI36756.1|1024595_1025150_-|transposase	IS1167 transposase	transposase	A0A1S5SBP9	Streptococcus_phage	96.4	6.7e-89
VFI36762.1|1026288_1027548_+	UDP-N-acetylglucosamine 1-carboxyvinyltransferase 2	NA	NA	NA	NA	NA
VFI36767.1|1027563_1028115_+	acetyltransferase	NA	NA	NA	NA	NA
VFI36772.1|1028107_1029385_+	DRTGG domain/CBS domain-containing protein	NA	NA	NA	NA	NA
VFI36777.1|1029400_1030261_+	methionyl aminopeptidase	NA	NA	NA	NA	NA
VFI36782.1|1030359_1030632_+|transposase	degenerate transposase (Orf1)	transposase	NA	NA	NA	NA
VFI36787.1|1030639_1031038_+|transposase	transposase-like protein, IS1381 ISSpn7	transposase	NA	NA	NA	NA
VFI36792.1|1031110_1031425_+|transposase	transposase	transposase	NA	NA	NA	NA
VFI36796.1|1031615_1033907_+	ATP-dependent DNA helicase PcrA	NA	A7KV33	Bacillus_phage	41.1	9.5e-129
VFI36801.1|1033949_1034630_+	DNA repair protein RadC	NA	NA	NA	NA	NA
VFI36806.1|1034626_1035316_-	glutamine amidotransferase, class I	NA	NA	NA	NA	NA
VFI36811.1|1035333_1035975_-	DNA-binding protein	NA	NA	NA	NA	NA
VFI36815.1|1036057_1036273_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI36820.1|1036280_1036628_-	cytosolic protein	NA	NA	NA	NA	NA
VFI36825.1|1036632_1037748_-	aminotransferase class-V	NA	H7BUW1	unidentified_phage	36.8	1.0e-27
VFI36830.1|1037757_1038717_-	ribose-phosphate pyrophosphokinase	NA	A0A2K9L2G2	Tupanvirus	32.8	9.3e-38
VFI36835.1|1038829_1039399_-	adenylate cyclase	NA	NA	NA	NA	NA
VFI36840.1|1039526_1040198_+	GTP pyrophosphokinase	NA	NA	NA	NA	NA
VFI36846.1|1040181_1041000_+	putative sugar kinase	NA	NA	NA	NA	NA
VFI36851.1|1040996_1041893_+	23S_rRNA pseudouridine synthase	NA	NA	NA	NA	NA
VFI36856.1|1041936_1042911_+	phosphotransacetylase	NA	NA	NA	NA	NA
VFI36861.1|1043252_1043552_-	hypothetical cytosolic protein	NA	NA	NA	NA	NA
VFI36866.1|1043965_1044652_+	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
VFI36870.1|1044839_1045154_+	50S ribosomal protein L21	NA	NA	NA	NA	NA
VFI36875.1|1045169_1045514_+	ribosomal protein	NA	NA	NA	NA	NA
VFI36880.1|1045530_1045824_+	LSU ribosomal protein L27p	NA	NA	NA	NA	NA
VFI36885.1|1046777_1047695_+	bifunctional riboflavin kinase/FMN adenylyltransferase	NA	NA	NA	NA	NA
VFI36890.1|1047787_1048636_-	YpjC	NA	M1Q1P6	Streptococcus_phage	46.5	1.4e-64
VFI36895.1|1048777_1049617_+	DegV family protein	NA	NA	NA	NA	NA
VFI36900.1|1049723_1049999_+	DNA-binding protein HU 1	NA	A7KV42	Bacillus_phage	66.3	9.2e-23
VFI36905.1|1050424_1052326_+	ABC transporter ATP-binding protein	NA	A0A2K9L3Z8	Tupanvirus	29.5	1.5e-50
VFI36910.1|1052328_1053192_+	transcriptional regulator MutR	NA	NA	NA	NA	NA
VFI36915.1|1053271_1054450_+	macrolide efflux ABC transporter membrane-spanning permease	NA	NA	NA	NA	NA
VFI36920.1|1054542_1056501_+	DNA ligase	NA	A0A1W6DX16	Sphingobium_phage	35.9	6.0e-100
VFI36925.1|1056612_1058892_+	pullulanase	NA	NA	NA	NA	NA
VFI36930.1|1059449_1060874_+	NADP-dependent glyceraldehyde-3-phosphate dehydrogenase	NA	NA	NA	NA	NA
VFI36936.1|1061356_1063285_+	1,4-alpha-glucan branching enzyme	NA	NA	NA	NA	NA
VFI36942.1|1063274_1064417_+	glucose-1-phosphate adenylyltransferase	NA	NA	NA	NA	NA
VFI36948.1|1064406_1065546_+	glycogen biosynthesis protein	NA	NA	NA	NA	NA
VFI36954.1|1065542_1066976_+	glycogen synthase	NA	NA	NA	NA	NA
VFI36960.1|1067034_1067679_+	putative hydrolase (pseudogene)	NA	NA	NA	NA	NA
VFI36966.1|1067687_1068803_+	glycerate kinase	NA	W6LM47	Streptococcus_phage	50.5	1.2e-73
VFI36972.1|1068799_1069246_-	Uncharacterized conserved protein	NA	NA	NA	NA	NA
VFI36978.1|1069409_1070714_+	Enolase	NA	W6LP63	Streptococcus_phage	94.5	4.7e-234
VFI36984.1|1071096_1071495_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI36990.1|1071966_1072197_+	CopG family protein	NA	NA	NA	NA	NA
VFI36996.1|1072189_1072465_+	plasmid addiction system poison protein	NA	A0A1S5SB46	Streptococcus_phage	38.4	2.5e-12
VFI37003.1|1072538_1073117_+	Replication protein RepB	NA	NA	NA	NA	NA
VFI37009.1|1073128_1073284_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI37015.1|1073433_1073688_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI37021.1|1073668_1073965_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI37027.1|1073929_1074307_-|transposase	transposase (IS4 family)	transposase	NA	NA	NA	NA
>prophage 14
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	1147888	1204704	2202359	transposase,tRNA,bacteriocin,protease,holin	Bacillus_phage(20.0%)	55	NA	NA
VFI37454.1|1147888_1148191_-|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
VFI37460.1|1148187_1148283_-|bacteriocin	bacteriocin	bacteriocin	NA	NA	NA	NA
VFI37466.1|1148431_1149310_-|tRNA	tRNA pseudouridine synthase B	tRNA	NA	NA	NA	NA
VFI37472.1|1149319_1150594_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
VFI37474.1|1150764_1151805_-	O-acetylhomoserine sulfhydrylase	NA	NA	NA	NA	NA
VFI37481.1|1151826_1151949_-	O-acetylhomoserine sulfhydrylase	NA	NA	NA	NA	NA
VFI37487.1|1152096_1152894_-	formate/nitrate transporter	NA	NA	NA	NA	NA
VFI37493.1|1153137_1153881_-	sortase SrtA	NA	NA	NA	NA	NA
VFI37499.1|1153880_1156349_-	DNA gyrase subunit A	NA	G3M9Z5	Bacillus_virus	35.5	2.7e-105
VFI37505.1|1156542_1157529_+	L-lactate dehydrogenase 1	NA	NA	NA	NA	NA
VFI37511.1|1157811_1159104_+|transposase	IS1167, transposase	transposase	A0A1S5SBP9	Streptococcus_phage	96.7	4.8e-239
VFI37517.1|1159328_1160105_-	ion transporter	NA	A0A1B0Y2S3	Lactobacillus_phage	42.9	1.0e-18
VFI37525.1|1160151_1160415_-	cytotoxic translational repressor of toxin-antitoxin stability system	NA	NA	NA	NA	NA
VFI37531.1|1160407_1160650_-	toxin-antitoxin system, antitoxin component, ribbon-helix-helix fold protein	NA	NA	NA	NA	NA
VFI37539.1|1160740_1161550_-	metallo-beta-lactamase superfamily protein	NA	A0A0C5AFC1	Paenibacillus_phage	39.0	1.8e-34
VFI37545.1|1161551_1162901_-	histidine kinase	NA	W8CYF6	Bacillus_phage	34.6	1.8e-34
VFI37551.1|1162893_1163598_-	DNA-binding response regulator	NA	W8CYM9	Bacillus_phage	39.8	2.8e-39
VFI37555.1|1163652_1164828_-	A/G-specific adenine glycosylase	NA	NA	NA	NA	NA
VFI37561.1|1165155_1166826_-	formate-tetrahydrofolate ligase	NA	NA	NA	NA	NA
VFI37567.1|1167055_1167745_+	phosphopantothenate--cysteine ligase	NA	NA	NA	NA	NA
VFI37573.1|1167756_1168308_+	flavoprotein involved in panthothenate metabolism	NA	A0A068EHP1	Penguinpox_virus	37.6	3.1e-25
VFI37579.1|1168291_1168855_+	membrane protein	NA	NA	NA	NA	NA
VFI37585.1|1169118_1169646_+	membrane protein	NA	NA	NA	NA	NA
VFI37591.1|1169657_1170173_+	transcriptional regulator	NA	NA	NA	NA	NA
VFI37596.1|1170169_1170637_-	MutT/nudix family protein	NA	NA	NA	NA	NA
VFI37602.1|1170710_1171199_-	acetyltransferase, gnat family	NA	NA	NA	NA	NA
VFI37608.1|1171164_1171728_-	acetyltransferase	NA	NA	NA	NA	NA
VFI37614.1|1171737_1173726_-	excinuclease ABC subunit B	NA	NA	NA	NA	NA
VFI37620.1|1173802_1174756_-|protease	caax amino protease family protein	protease	NA	NA	NA	NA
VFI37626.1|1174928_1177094_+	glutamine ABC transporter permease	NA	NA	NA	NA	NA
VFI37632.1|1177093_1177834_+	phosphate ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	40.1	2.0e-32
VFI37638.1|1177982_1179470_+	glucose-6-phosphate 1-dehydrogenase	NA	H6WFS4	Cyanophage	32.4	6.0e-68
VFI37640.1|1179515_1180793_-	cell division protein FtsY	NA	NA	NA	NA	NA
VFI37646.1|1180796_1181615_-	Cof family protein	NA	NA	NA	NA	NA
VFI37652.1|1181614_1182409_-	Cof family protein	NA	NA	NA	NA	NA
VFI37658.1|1182405_1185945_-	chromosome condensation and segregation SMC protein	NA	NA	NA	NA	NA
VFI37664.1|1185935_1186634_-	ribonuclease III	NA	J2YAN1	Acanthamoeba_polyphaga_lentillevirus	33.3	8.6e-25
VFI37670.1|1186951_1187938_-	GMP reductase	NA	G3MBI2	Bacillus_virus	72.5	1.8e-137
VFI37676.1|1188112_1189456_-	McrBC 5-methylcytosine restriction system component	NA	NA	NA	NA	NA
VFI37682.1|1189415_1191347_-	endonuclease	NA	K4I1H4	Acidithiobacillus_phage	33.7	1.8e-16
VFI37688.1|1191512_1191683_-	translation factor	NA	NA	NA	NA	NA
VFI37694.1|1191663_1191930_-	translation factor	NA	NA	NA	NA	NA
VFI37701.1|1192297_1192657_-	3-isopropylmalate dehydratase small subunit	NA	NA	NA	NA	NA
VFI37707.1|1192660_1192930_-	membrane protein	NA	NA	NA	NA	NA
VFI37713.1|1192926_1193964_-	3-isopropylmalate dehydrogenase	NA	NA	NA	NA	NA
VFI37719.1|1193975_1195070_-	2-isopropylmalate synthase	NA	NA	NA	NA	NA
VFI37725.1|1195088_1195745_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
VFI37731.1|1195788_1196421_-	copper homeostasis protein	NA	NA	NA	NA	NA
VFI37737.1|1196513_1196873_-	3-isopropylmalate dehydrogenase	NA	NA	NA	NA	NA
VFI37743.1|1197093_1199181_-	DNA topoisomerase I	NA	A0A1V0SCS0	Indivirus	37.6	3.9e-105
VFI37749.1|1199347_1200391_-	membrane protein	NA	NA	NA	NA	NA
VFI37755.1|1201319_1202168_-	DNA processing protein DprA	NA	S6BFL3	Thermus_phage	39.5	4.2e-34
VFI37762.1|1202265_1202955_-|holin	CTP:phosphocholine cytidylyltransferase	holin	A0A127AW70	Bacillus_phage	45.0	3.4e-05
VFI37768.1|1202966_1203845_-	drug/metabolite transporter (DMT) superfamily permease	NA	NA	NA	NA	NA
VFI37775.1|1203834_1204704_-|holin	choline kinase	holin	NA	NA	NA	NA
>prophage 15
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	1208307	1242592	2202359	transposase,bacteriocin,holin	Indivirus(20.0%)	41	NA	NA
VFI37796.1|1208307_1209111_+|holin	phosphorylcholine transferase LicD1	holin	A0A1V0SD50	Indivirus	27.1	5.3e-10
VFI37802.1|1209112_1209922_+	licD2 protein	NA	A0A1V0SD50	Indivirus	30.3	2.6e-09
VFI37808.1|1210196_1213373_-	carbamoyl-phosphate synthase, large subunit	NA	NA	NA	NA	NA
VFI37814.1|1213685_1214765_-	carbamoyl-phosphate synthase, small subunit	NA	R4TGJ8	Halovirus	35.9	6.3e-59
VFI37820.1|1214814_1215738_-	aspartate carbamoyltransferase	NA	M1HGA5	Paramecium_bursaria_Chlorella_virus	31.7	5.1e-25
VFI37826.1|1215756_1216278_-	transcriptional attenuation of the pyrimidine operon/uracil phosphoribosyltransferase (bifunctional protein)	NA	NA	NA	NA	NA
VFI37832.1|1216488_1217118_-	endonuclease III (DNA repair), DNA-(apurinic or apyrimidinic site) lyase	NA	NA	NA	NA	NA
VFI37838.1|1217117_1217660_-	putative metal-binding, possibly nucleic acid-binding protein	NA	NA	NA	NA	NA
VFI37844.1|1217829_1217970_+	BlpT protein, fusion	NA	NA	NA	NA	NA
VFI37851.1|1218385_1219945_+	ABC transporter ATP-binding protein	NA	A0A1B0RXA0	Streptococcus_phage	27.5	1.2e-10
VFI37857.1|1220093_1220993_-	heat shock protein HtpX	NA	NA	NA	NA	NA
VFI37863.1|1220994_1221555_-	Cytoplasmic membrane protein LemA	NA	NA	NA	NA	NA
VFI37869.1|1221648_1222362_+	16S rRNA methyltransferase GidB	NA	NA	NA	NA	NA
VFI37875.1|1222713_1223997_+	uracil permease	NA	Q9KX94	Enterobacteria_phage	35.3	4.0e-60
VFI37881.1|1224191_1225763_-	signal recognition particle protein	NA	NA	NA	NA	NA
VFI37887.1|1225774_1226107_-	transcriptional regulator	NA	NA	NA	NA	NA
VFI37893.1|1226197_1226575_-	hypothetical cytosolic protein	NA	NA	NA	NA	NA
VFI37899.1|1226646_1227951_+	dGTP triphosphohydrolase	NA	E3T4P8	Cafeteria_roenbergensis_virus	30.2	1.7e-26
VFI37906.1|1227963_1228770_+	hydrolase	NA	NA	NA	NA	NA
VFI37912.1|1228812_1229811_+	SAP domain-containing protein	NA	NA	NA	NA	NA
VFI37918.1|1230089_1230437_-	50S ribosomal protein L19	NA	NA	NA	NA	NA
VFI37924.1|1230555_1230885_-	CrcB protein	NA	A0A2H4PQR0	Staphylococcus_phage	37.8	6.3e-10
VFI37929.1|1230878_1231253_-	CrcB protein	NA	NA	NA	NA	NA
VFI37935.1|1231249_1231516_-	chorismate mutase/prephenate dehydratase	NA	NA	NA	NA	NA
VFI37941.1|1231631_1232075_-	flavodoxin	NA	NA	NA	NA	NA
VFI37947.1|1232178_1233114_+	DHH subfamily 1 protein	NA	NA	NA	NA	NA
VFI37953.1|1233209_1233452_+	50S ribosomal protein L31	NA	NA	NA	NA	NA
VFI37959.1|1233508_1233997_-	high-affinity Fe2+/Pb2+ permease	NA	NA	NA	NA	NA
VFI37965.1|1234075_1234378_-	peroxidase	NA	NA	NA	NA	NA
VFI37971.1|1234368_1234653_-	peroxidase	NA	NA	NA	NA	NA
VFI37977.1|1234789_1235056_-|transposase	transposase	transposase	NA	NA	NA	NA
VFI37983.1|1235829_1237176_+	glutamate dehydrogenase	NA	NA	NA	NA	NA
VFI37991.1|1237671_1237842_-	ABC transporter ATP-binding protein	NA	NA	NA	NA	NA
VFI37997.1|1237854_1238202_-	multidrug resistance protein 1	NA	G9BWD6	Planktothrix_phage	42.5	1.5e-09
VFI38003.1|1238627_1238933_-|transposase	transposase-like protein, IS1381 ISSpn7	transposase	NA	NA	NA	NA
VFI38009.1|1239047_1239644_+|transposase	transposase	transposase	NA	NA	NA	NA
VFI38015.1|1239914_1240211_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI38021.1|1240223_1240367_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI38027.1|1240368_1240656_-|bacteriocin	Tn5253 bacteriocine putative	bacteriocin	NA	NA	NA	NA
VFI38033.1|1241240_1241744_+|transposase	transposase subfamily protein	transposase	NA	NA	NA	NA
VFI38040.1|1241752_1242592_+|transposase	transposase-like protein, ISSpn1 ISSpn3	transposase	A0A1B1P773	Bacillus_phage	49.6	1.1e-63
>prophage 16
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	1304228	1371199	2202359	transposase,bacteriocin,protease	Streptococcus_phage(75.0%)	58	NA	NA
VFI38456.1|1304228_1304783_-	lantibiotic ABC transporter	NA	A0A2H4PQG7	Staphylococcus_phage	42.0	5.6e-11
VFI38464.1|1304858_1305140_-	lantibiotic transport ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	38.8	2.8e-06
VFI38468.1|1305129_1305891_-	ABC-2 family transporter protein	NA	NA	NA	NA	NA
VFI38474.1|1305871_1306780_-	ABC transporter, ATP-binding protein	NA	A0A2H4PQG7	Staphylococcus_phage	31.1	5.4e-19
VFI38481.1|1307075_1308293_-	Mobile element protein	NA	A0A1S5SEW7	Streptococcus_phage	100.0	3.7e-233
VFI38488.1|1308374_1308578_-	Mobile element protein	NA	A0A1S5SF07	Streptococcus_phage	100.0	4.0e-31
VFI38495.1|1309038_1309269_-	Helix-turn-helix domain	NA	A0A1S5SEX1	Streptococcus_phage	100.0	2.7e-36
VFI38503.1|1309265_1309688_-	RNA polymerase sigma factor	NA	A0A1S5SEW0	Streptococcus_phage	100.0	2.5e-72
VFI38510.1|1310192_1310546_+	anaerobic benzoate catabolism transcriptional regulator	NA	A0A1S5SFA6	Streptococcus_phage	100.0	1.3e-58
VFI38517.1|1310891_1312811_-	tetracycline resistance protein TetM	NA	A0A1S5SF82	Streptococcus_phage	97.0	0.0e+00
VFI38521.1|1313187_1314102_-	putative conjugative transposon protein	NA	A0A1S5SF22	Streptococcus_phage	100.0	1.1e-168
VFI38528.1|1314116_1315118_-	lipoprotein, NLP/P60 family	NA	A0A1S5SEZ8	Streptococcus_phage	100.0	5.0e-191
VFI38535.1|1315114_1317226_-	Tn916 ORF15 signal peptide containing protein	NA	A0A1S5SF30	Streptococcus_phage	100.0	0.0e+00
VFI38542.1|1317294_1319742_-	Type IV secretory pathway, VirB4 components	NA	A0A1S5SF64	Streptococcus_phage	100.0	0.0e+00
VFI38549.1|1319725_1320232_-	TcpE family	NA	A0A1S5SEX7	Streptococcus_phage	100.0	8.6e-91
VFI38553.1|1320206_1320704_-	Antirestriction protein	NA	A0A1S5SF25	Streptococcus_phage	100.0	1.7e-91
VFI38560.1|1320820_1321042_-	FIG086557: Conjugation related protein	NA	A0A1S5SEY0	Streptococcus_phage	100.0	4.3e-31
VFI38568.1|1321221_1322469_+|transposase	transposase	transposase	Q6V7R1	Burkholderia_virus	23.9	3.9e-12
VFI38571.1|1322589_1322721_-	Uncharacterised protein	NA	E4ZFP9	Streptococcus_phage	100.0	7.9e-17
VFI38574.1|1322725_1323463_-	erythromycin ribosome methylase	NA	E4ZFQ0	Streptococcus_phage	99.2	3.1e-134
VFI38581.1|1323719_1325138_-	transcriptional regulator protein	NA	A0A1S5SEX3	Streptococcus_phage	100.0	1.5e-233
VFI38588.1|1325315_1326701_-	DNA translocase FtsK	NA	A0A1S5SFB5	Streptococcus_phage	100.0	1.1e-265
VFI38596.1|1326729_1327113_-	Bacterial protein of uncharacterised function (DUF961)	NA	A0A1S5SF96	Streptococcus_phage	100.0	2.3e-64
VFI38603.1|1327131_1327446_-	Bacterial protein of uncharacterised function (DUF961)	NA	A0A1S5SF38	Streptococcus_phage	100.0	5.2e-54
VFI38610.1|1327868_1328723_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI38619.1|1328749_1329733_-	Phosphotransferase enzyme family	NA	NA	NA	NA	NA
VFI38627.1|1329725_1331078_-	beta-lactamase TEM	NA	NA	NA	NA	NA
VFI38634.1|1331263_1331818_+	TetR family transcriptional regulator	NA	NA	NA	NA	NA
VFI38641.1|1332203_1332551_+	SboK	NA	NA	NA	NA	NA
VFI38648.1|1332594_1332882_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI38655.1|1332895_1333180_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI38663.1|1333254_1339473_-	SNF2 family protein	NA	A0A248SL14	Klebsiella_phage	30.7	3.0e-217
VFI38671.1|1339520_1339931_-	OmpA domain-containing protein	NA	NA	NA	NA	NA
VFI38678.1|1340393_1340558_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI38685.1|1340559_1341168_+	phage protein	NA	NA	NA	NA	NA
VFI38688.1|1341202_1341577_-	CHAP domain containing protein	NA	Q4Z9D9	Staphylococcus_phage	41.4	5.5e-10
VFI38695.1|1341670_1344016_-	CHAP domain containing protein	NA	NA	NA	NA	NA
VFI38702.1|1344027_1346385_-	Type IV secretion system protein	NA	NA	NA	NA	NA
VFI38709.1|1346335_1346695_-	PrgI family protein	NA	NA	NA	NA	NA
VFI38716.1|1346748_1347603_-	membrane protein	NA	NA	NA	NA	NA
VFI38724.1|1347619_1347862_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI38731.1|1347882_1349760_-	TraG/TraD family protein	NA	NA	NA	NA	NA
VFI38738.1|1349759_1350248_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI38746.1|1350237_1350537_-|bacteriocin	Tn5253 bacteriocine putative	bacteriocin	NA	NA	NA	NA
VFI38753.1|1350869_1351457_-|protease	Tn5253 CAAX amino terminal protease family	protease	NA	NA	NA	NA
VFI38760.1|1351459_1351693_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI38768.1|1351705_1352086_-	arsenate reductase-like glutaredoxin family protein	NA	NA	NA	NA	NA
VFI38775.1|1352078_1352528_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI38781.1|1352511_1353870_-	putative DNA methylase	NA	A0A141E1L1	Streptococcus_phage	56.1	2.5e-129
VFI38788.1|1353866_1353968_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI38796.1|1353968_1354748_-	replication initiator protein A	NA	A0A286QNA4	Streptococcus_phage	34.4	1.8e-10
VFI38803.1|1354744_1354918_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI38810.1|1355596_1361488_-|protease	immunoglobulin A1 protease	protease	NA	NA	NA	NA
VFI38817.1|1361696_1362875_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI38824.1|1363006_1366657_-	ATP-dependent exoDNAse subunit beta	NA	G3MA40	Bacillus_virus	24.8	5.7e-19
VFI38831.1|1366653_1369929_-	exonuclease RexB	NA	NA	NA	NA	NA
VFI38838.1|1370351_1370702_+|transposase	IS630-Spn1, transposase Orf1	transposase	NA	NA	NA	NA
VFI38845.1|1370860_1371199_+|transposase	IS630-Spn1, transposase Orf2	transposase	NA	NA	NA	NA
>prophage 17
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	1419891	1468765	2202359	integrase,bacteriocin,transposase,tRNA	Streptococcus_phage(31.25%)	55	1415644:1415666	1469103:1469125
1415644:1415666	attL	CTTGATATTATGCGTTTTATTGT	NA	NA	NA	NA
VFI39217.1|1419891_1421118_-|integrase	site-specific recombinase, phage integrase family	integrase	A0A1S5S7K9	Streptococcus_phage	28.0	2.9e-23
VFI39224.1|1421121_1421316_-	Domain of uncharacterised function (DUF3173)	NA	NA	NA	NA	NA
VFI39231.1|1421323_1422136_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI39238.1|1422239_1423649_-	FtsK/SpoIIIE family	NA	NA	NA	NA	NA
VFI39245.1|1423645_1424083_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI39252.1|1424267_1424954_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI39259.1|1424958_1425174_-	putative transcriptional regulator	NA	NA	NA	NA	NA
VFI39266.1|1425288_1426653_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI39273.1|1426673_1427066_+	Uncharacterised protein	NA	NA	NA	NA	NA
VFI39280.1|1427251_1428814_-	GMP synthase	NA	A0A1V0SH76	Hokovirus	32.8	1.4e-19
VFI39287.1|1428955_1429654_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
VFI39294.1|1429696_1430593_-	membrane protein	NA	NA	NA	NA	NA
VFI39301.1|1430601_1431537_-	beta-lactamase	NA	NA	NA	NA	NA
VFI39308.1|1431533_1432259_-	cppA protein	NA	NA	NA	NA	NA
VFI39312.1|1432342_1432978_-	lysophospholipase l1-like esterase	NA	A0A2K9L661	Tupanvirus	27.7	9.6e-07
VFI39319.1|1432979_1433804_-	hydrolase	NA	NA	NA	NA	NA
VFI39326.1|1433828_1434164_-	poly-gamma-glutamate biosynthesis protein	NA	NA	NA	NA	NA
VFI39333.1|1434164_1434881_-	CapA domain-containing protein	NA	A0A0N9SJ77	Staphylococcus_phage	31.1	2.3e-25
VFI39340.1|1435403_1436015_+	peptide deformylase	NA	E3SLL2	Synechococcus_phage	42.4	4.9e-16
VFI39346.1|1436059_1436788_+	TrmH family RNA methyltransferase group 3	NA	NA	NA	NA	NA
VFI39353.1|1436826_1437738_-	thioredoxin reductase	NA	G3MA85	Bacillus_virus	51.5	1.0e-89
VFI39360.1|1437803_1438028_-	membrane associated protein	NA	NA	NA	NA	NA
VFI39367.1|1438105_1438849_-	aspartate/glutamate ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	41.0	1.6e-29
VFI39374.1|1438848_1439649_-	aspartate/glutamate ABC transporter permease	NA	NA	NA	NA	NA
VFI39381.1|1439806_1440163_-	ArsC family protein	NA	M1PLC0	Streptococcus_phage	56.4	3.3e-33
VFI39384.1|1440156_1440687_-	O6-methylguanine-DNA methyltransferase	NA	M1PFU9	Streptococcus_phage	54.3	7.9e-47
VFI39391.1|1440686_1441181_-	acetyltransferase, GNAT family protein	NA	M1PSC3	Streptococcus_phage	52.1	1.1e-42
VFI39399.1|1441315_1441762_+	BS_ykrK family protein	NA	NA	NA	NA	NA
VFI39408.1|1441758_1442406_+	hlyIII superfamily protein	NA	NA	NA	NA	NA
VFI39416.1|1442426_1443008_-	glutamine amidotransferase subunit PdxT	NA	NA	NA	NA	NA
VFI39419.1|1443008_1443884_-	pyridoxal biosynthesis lyase PdxS	NA	NA	NA	NA	NA
VFI39427.1|1444035_1445415_-	NADH oxidase	NA	NA	NA	NA	NA
VFI39433.1|1445709_1446633_+	thiamine biosynthesis lipoprotein	NA	NA	NA	NA	NA
VFI39441.1|1446692_1447298_+	NADPH-dependent FMN reductase domain-containing protein	NA	A0A2P0ZL77	Lactobacillus_phage	53.7	2.2e-53
VFI39449.1|1447316_1448561_+	flavin reductase	NA	A0A2P0ZL82	Lactobacillus_phage	52.1	6.4e-55
VFI39457.1|1448677_1448935_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
VFI39465.1|1448976_1451013_-|tRNA	glycyl-tRNA synthetase beta subunit	tRNA	NA	NA	NA	NA
VFI39473.1|1451224_1452142_-|tRNA	glycyl-tRNA synthetase alpha subunit	tRNA	NA	NA	NA	NA
VFI39481.1|1452334_1453096_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI39488.1|1453368_1454211_-	2,5-diketo-D-gluconic acid reductase A	NA	A0A2H4PQR8	Staphylococcus_phage	40.6	3.4e-52
VFI39496.1|1454325_1455768_-	peptidoglycan N-acetylglucosamine deacetylase A	NA	NA	NA	NA	NA
VFI39504.1|1455951_1456329_-	ribose-phosphate pyrophosphokinase	NA	NA	NA	NA	NA
VFI39511.1|1456561_1457539_+	Gfo/Idh/MocA family oxidoreductase	NA	NA	NA	NA	NA
VFI39517.1|1457535_1458618_+	ATP-dependent RNA helicase	NA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	31.0	5.2e-37
VFI39524.1|1458681_1458987_-|transposase	transposase family protein	transposase	NA	NA	NA	NA
VFI39528.1|1459129_1459396_-|transposase	degenerate transposase	transposase	NA	NA	NA	NA
VFI39532.1|1459392_1459635_-|transposase	transposase	transposase	NA	NA	NA	NA
VFI39541.1|1460018_1461215_-	elongation factor Tu	NA	A0A076FFS6	Aureococcus_anophage	29.6	7.3e-32
VFI39549.1|1462126_1462996_-	glycerol facilitator-aquaporin	NA	NA	NA	NA	NA
VFI39557.1|1463219_1463741_-	cell wall surface anchor family protein	NA	NA	NA	NA	NA
VFI39565.1|1463698_1464805_-	putative sortase-sorted surface anchored protein (pseudogene)	NA	NA	NA	NA	NA
VFI39568.1|1464915_1465170_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI39576.1|1465509_1466043_-|transposase	degenerate transposase	transposase	NA	NA	NA	NA
VFI39584.1|1466588_1468307_+	phosphoglucomutase	NA	A0A1X9I671	Streptococcus_phage	83.4	1.5e-272
VFI39592.1|1468417_1468765_+|bacteriocin	thioredoxin, bacteriocin transport accessory protein	bacteriocin	NA	NA	NA	NA
1469103:1469125	attR	CTTGATATTATGCGTTTTATTGT	NA	NA	NA	NA
>prophage 18
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	1539294	1546048	2202359	protease	Streptococcus_phage(50.0%)	9	NA	NA
VFI40110.1|1539294_1540263_+	thioredoxin reductase	NA	Q9JRK7	Streptococcus_phage	99.2	1.1e-65
VFI40121.1|1540296_1541208_-	putative sporulation transcription regulator whiA	NA	Q7AWZ3	Streptococcus_phage	99.7	1.5e-154
VFI40129.1|1541204_1542182_-	transporter	NA	A1IMD5	Streptococcus_phage	99.4	4.4e-184
VFI40137.1|1542178_1543069_-	P-loop-containing kinase	NA	A0A0R8VB27	Thermobifida_phage	29.8	1.1e-05
VFI40145.1|1543120_1543501_-	endoribonuclease L-PSP	NA	NA	NA	NA	NA
VFI40148.1|1543511_1544099_-	ribosome biogenesis GTP-binding protein YsxC	NA	NA	NA	NA	NA
VFI40157.1|1544107_1545340_-|protease	ATP-dependent Clp protease, ATP-binding subunit ClpX	protease	G3M9Z9	Bacillus_virus	59.0	4.2e-131
VFI40165.1|1545371_1545542_-	membrane associated protein	NA	NA	NA	NA	NA
VFI40175.1|1545541_1546048_-	dihydrofolate reductase	NA	G3MBI7	Bacillus_virus	43.1	1.8e-27
>prophage 19
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	1788074	1836527	2202359	transposase,integrase,holin	Streptococcus_phage(33.33%)	46	1799718:1799736	1822459:1822477
VFI42108.1|1788074_1789595_-|holin	choline transporter	holin	NA	NA	NA	NA
VFI42116.1|1789587_1790316_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	41.2	9.0e-33
VFI42125.1|1790330_1791095_-	lipoprotein	NA	NA	NA	NA	NA
VFI42133.1|1791098_1791542_-	transcriptional regulator, MarR family	NA	NA	NA	NA	NA
VFI42141.1|1792483_1792780_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI42149.1|1792801_1793866_-	glutamyl aminopeptidase	NA	NA	NA	NA	NA
VFI42160.1|1794266_1794968_+	putative UDP-glucose 4-epimerase	NA	A0A2K9L1R4	Tupanvirus	35.1	1.7e-33
VFI42168.1|1795390_1796350_+	iron-compound ABC transporter permease	NA	A0A2H4IY97	uncultured_Caudovirales_phage	40.8	4.0e-57
VFI42176.1|1796339_1797296_+	ferric iron ABC transporter membrane-spanning permease	NA	NA	NA	NA	NA
VFI42180.1|1797292_1798045_+	ferrichrome transport ATP-binding protein FhuC	NA	W6JKT0	Anomala_cuprea_entomopoxvirus	28.1	5.6e-14
VFI42189.1|1798140_1799106_+	iron-compound ABC transporter iron-compound-binding protein	NA	NA	NA	NA	NA
VFI42197.1|1799264_1799630_-|transposase	degenerate transposase	transposase	A0A1S5SBP9	Streptococcus_phage	100.0	6.2e-51
1799718:1799736	attL	AGATTTTCGAAGAGTATAA	NA	NA	NA	NA
VFI42205.1|1799824_1800067_-	alpha-hemolysin family protein	NA	A0A2H4PQM5	Staphylococcus_phage	59.4	1.3e-17
VFI42213.1|1800066_1800789_-	ribosomal large subunit pseudouridine synthase B	NA	NA	NA	NA	NA
VFI42223.1|1800775_1801345_-	segregation and condensation protein B	NA	A0A1B1IVT7	uncultured_Mediterranean_phage	34.9	5.0e-15
VFI42231.1|1801363_1802092_-	segregation and condensation protein A	NA	A0A1B1IVW1	uncultured_Mediterranean_phage	22.3	5.3e-09
VFI42240.1|1802091_1802826_-|integrase	integrase	integrase	NA	NA	NA	NA
VFI42248.1|1802822_1803284_-	CBS domain-containing protein	NA	NA	NA	NA	NA
VFI42257.1|1803280_1803802_-	phosphodiesterase, family	NA	NA	NA	NA	NA
VFI42267.1|1803777_1804749_-	deoxyribonucleotide triphosphate pyrophosphatase/uncharacterised domain fusion protein	NA	C4N227	Ugandan_cassava_brown_streak_virus	29.9	4.9e-10
VFI42275.1|1804745_1805540_-	glutamate racemase, COG0796	NA	NA	NA	NA	NA
VFI42284.1|1805746_1805995_-	family protein	NA	NA	NA	NA	NA
VFI42292.1|1806250_1807876_-	alpha,alpha-phosphotrehalase	NA	NA	NA	NA	NA
VFI42300.1|1808053_1810021_-	trehalose PTS system, IIABC components	NA	NA	NA	NA	NA
VFI42308.1|1810205_1810916_+	trehalose operon repressor	NA	NA	NA	NA	NA
VFI42316.1|1811070_1811853_+|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	89.2	1.6e-120
VFI42324.1|1811849_1812377_+|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	94.9	4.9e-89
VFI42332.1|1812451_1813378_-	oligopeptide ABC transporter ATP-binding protein AmiF	NA	G9BWD6	Planktothrix_phage	34.1	2.0e-21
VFI42340.1|1813388_1814456_-	peptide ABC transporter ATP-binding protein	NA	A0A2R8FFL6	Cedratvirus	24.7	6.6e-08
VFI42348.1|1814464_1815391_-	peptide ABC transporter permease	NA	NA	NA	NA	NA
VFI42359.1|1815390_1816887_-	peptide ABC transporter permease	NA	NA	NA	NA	NA
VFI42370.1|1816953_1818933_-	oligopeptide-binding protein AmiA	NA	NA	NA	NA	NA
VFI42378.1|1819618_1820812_-	O-Antigen Polymerase family	NA	NA	NA	NA	NA
VFI42386.1|1820949_1822392_-	sucrose phosphorylase	NA	NA	NA	NA	NA
VFI42392.1|1822394_1822604_-	chlorohydrolase	NA	NA	NA	NA	NA
1822459:1822477	attR	TTATACTCTTCGAAAATCT	NA	NA	NA	NA
VFI42400.1|1822610_1823444_-	sugar ABC transporter permease	NA	NA	NA	NA	NA
VFI42408.1|1823457_1824324_-	sugar ABC transporter permease	NA	NA	NA	NA	NA
VFI42416.1|1824337_1825597_-	sugar ABC transporter binding protein	NA	NA	NA	NA	NA
VFI42425.1|1825631_1827794_-	alpha-galactosidase	NA	NA	NA	NA	NA
VFI42433.1|1827901_1828762_+	Msm operon regulatory protein	NA	NA	NA	NA	NA
VFI42441.1|1828758_1829694_+	bifunctional protein, biotin operon repressor; biotin--[acetyl-CoA-carboxylase] synthetase	NA	NA	NA	NA	NA
VFI42449.1|1830756_1832112_-	RNA methyltransferase	NA	E4ZFI6	Streptococcus_phage	33.3	1.3e-69
VFI42457.1|1832168_1832945_+	aminoglycoside phosphotransferase	NA	NA	NA	NA	NA
VFI42465.1|1832954_1833731_+	regulatory protein RecX	NA	NA	NA	NA	NA
VFI42473.1|1833819_1834353_+	UPF0374 protein SSU05	NA	NA	NA	NA	NA
VFI42481.1|1835297_1836527_+|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	89.7	3.0e-214
>prophage 20
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	1860260	1907397	2202359	transposase,bacteriocin,protease	Streptococcus_phage(11.11%)	45	NA	NA
VFI42705.1|1860260_1860650_+|transposase	transposase-like protein, IS1381 ISSpn7	transposase	NA	NA	NA	NA
VFI42710.1|1860600_1861128_+|transposase	transposase	transposase	NA	NA	NA	NA
VFI42718.1|1861694_1862651_-	autolysin	NA	A0A1S5SE15	Streptococcus_phage	95.9	2.7e-154
VFI42726.1|1863026_1864397_-	damage inducible DinF protein	NA	NA	NA	NA	NA
VFI42734.1|1864703_1865870_-	protein RecA	NA	A0A0S2MVG1	Bacillus_phage	61.7	3.5e-119
VFI42742.1|1865924_1867181_-	damage inducible protein CinA	NA	NA	NA	NA	NA
VFI42750.1|1867265_1868282_-	regulator of lytrabc operon	NA	NA	NA	NA	NA
VFI42758.1|1868289_1868808_-	GNAT family acetyltransferase	NA	NA	NA	NA	NA
VFI42766.1|1868797_1869241_-	putative ATPase	NA	NA	NA	NA	NA
VFI42774.1|1869326_1869947_-	lipoprotein, putative	NA	NA	NA	NA	NA
VFI42782.1|1870329_1871193_-	transcriptional regulator	NA	NA	NA	NA	NA
VFI42790.1|1871381_1871552_+	putative secreted protein	NA	NA	NA	NA	NA
VFI42798.1|1871679_1873695_+|bacteriocin	bacteriocin-associated integral membrane protein	bacteriocin	NA	NA	NA	NA
VFI42807.1|1873696_1874329_+	antimicrobial peptide ABC transporter ATPase	NA	G3M9Y6	Bacillus_virus	33.3	2.8e-22
VFI42814.1|1874469_1874631_+	competence damage-inducible protein A	NA	NA	NA	NA	NA
VFI42822.1|1875256_1875670_-	nucleoside diphosphate kinase	NA	D2E8E1	Anguillid_herpesvirus	44.5	1.5e-24
VFI42830.1|1875780_1879458_-	DNA-directed RNA polymerase subunit beta'	NA	R4TQM7	Phaeocystis_globosa_virus	25.0	2.4e-65
VFI42838.1|1879490_1883102_-	DNA-directed RNA polymerase subunit beta	NA	A0A2P0VMZ3	Tetraselmis_virus	26.4	1.2e-40
VFI42847.1|1883785_1885117_-	CBS domain membrane protein	NA	NA	NA	NA	NA
VFI42855.1|1885407_1886232_-	DNA-entry nuclease (competence-specific nuclease)	NA	NA	NA	NA	NA
VFI42862.1|1886270_1886465_-	competence associated protein	NA	NA	NA	NA	NA
VFI42870.1|1886451_1887735_-	UDP-N-acetylglucosamine 1-carboxyvinyltransferase	NA	NA	NA	NA	NA
VFI42878.1|1887758_1887956_-	membrane protein	NA	NA	NA	NA	NA
VFI42884.1|1888046_1889084_-|protease	ATP-dependent protease La	protease	NA	NA	NA	NA
VFI42892.1|1889067_1889556_-	phosphopantetheine adenylyltransferase	NA	A0A1B1IVQ3	uncultured_Mediterranean_phage	32.5	8.7e-16
VFI42893.1|1889545_1890085_-	methyltransferase	NA	NA	NA	NA	NA
VFI42899.1|1890149_1891142_-	aspartate-ammonia ligase	NA	A0A1C9C5F0	Heterosigma_akashiwo_virus	40.1	1.1e-52
VFI42908.1|1891253_1891937_-	membrane protein	NA	NA	NA	NA	NA
VFI42916.1|1891992_1892733_-	spoU rRNA methylase family protein	NA	NA	NA	NA	NA
VFI42924.1|1892766_1893045_+	acylphosphate phosphohydrolase	NA	NA	NA	NA	NA
VFI42934.1|1893122_1894049_+	oxaA2	NA	NA	NA	NA	NA
VFI42942.1|1894123_1894918_-	pyruvate formate-lyase-activating enzyme	NA	NA	NA	NA	NA
VFI42950.1|1895043_1896294_-	diaminopimelate decarboxylase	NA	NA	NA	NA	NA
VFI42955.1|1896360_1897188_-	repressor of purine biosynthetic genes	NA	NA	NA	NA	NA
VFI42964.1|1897454_1898396_-	cmp-binding-factor 1	NA	NA	NA	NA	NA
VFI42972.1|1898385_1899642_-	competence-induced protein Ccs50	NA	NA	NA	NA	NA
VFI42980.1|1899643_1900306_-	thiamine pyrophosphokinase	NA	NA	NA	NA	NA
VFI42987.1|1900268_1900925_-	ribulose-phosphate 3-epimerase	NA	NA	NA	NA	NA
VFI42995.1|1900935_1901814_-	ribosome-associated GTPase	NA	NA	NA	NA	NA
VFI43004.1|1901815_1902688_-	dimethyladenosine transferase	NA	NA	NA	NA	NA
VFI43012.1|1902818_1903127_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI43021.1|1903119_1903761_-	ABC transporter ATP-binding protein	NA	G9BWD6	Planktothrix_phage	36.0	5.5e-26
VFI43029.1|1903762_1905793_-	immunity protein	NA	NA	NA	NA	NA
VFI43036.1|1905869_1906166_-|bacteriocin	bacteriocin, lactococcin 972 family	bacteriocin	NA	NA	NA	NA
VFI43046.1|1906485_1907397_-|transposase	transposase-like protein, IS1515	transposase	NA	NA	NA	NA
>prophage 21
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	2118528	2155865	2202359	transposase,holin,protease	Streptococcus_phage(53.85%)	36	NA	NA
VFI44588.1|2118528_2121285_-|holin	choline-binding surface protein A	holin	NA	NA	NA	NA
VFI44596.1|2121363_2121891_-	membrane protein	NA	NA	NA	NA	NA
VFI44606.1|2121985_2123326_-	signal transduction histidine kinase	NA	NA	NA	NA	NA
VFI44614.1|2123322_2123976_-	DNA-binding response regulator	NA	NA	NA	NA	NA
VFI44623.1|2124617_2127050_-|protease	ATP-dependent Clp protease, ATP-binding subunit	protease	A0A223W0B1	Agrobacterium_phage	40.6	5.0e-128
VFI44631.1|2127051_2127510_-	CtsR family transcriptional regulator	NA	NA	NA	NA	NA
VFI44640.1|2127628_2128357_-	nitrate/sulfonate/bicarbonate ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	36.2	1.0e-28
VFI44648.1|2128356_2129364_-	ABC transportersubstrate-binding protein, nitrate/sulfonate/bicarbonate transport	NA	NA	NA	NA	NA
VFI44656.1|2129401_2130160_-	ABC transporter permease, nitrate/sulfonate/bicarbonate transport	NA	NA	NA	NA	NA
VFI44663.1|2130122_2130413_-	Uncharacterized conserved protein	NA	NA	NA	NA	NA
VFI44670.1|2130668_2132015_-|holin	choline binding protein D	holin	NA	NA	NA	NA
VFI44677.1|2132103_2132370_-	Uncharacterized protein conserved in bacteria	NA	NA	NA	NA	NA
VFI44684.1|2132371_2133724_-	DNA replication protein DnaC	NA	A0A1P8VVQ6	Streptococcus_phage	61.3	6.3e-149
VFI44691.1|2133766_2134219_-	50S ribosomal protein L9	NA	NA	NA	NA	NA
VFI44698.1|2134215_2136189_-	DHH family protein	NA	NA	NA	NA	NA
VFI44705.1|2136324_2136873_-	ribosome-associated protein	NA	NA	NA	NA	NA
VFI44712.1|2136952_2137615_-	involved in transformation	NA	NA	NA	NA	NA
VFI44719.1|2137611_2138910_-	helicase ComFA	NA	A0A1X9I5S6	Streptococcus_phage	66.6	9.3e-166
VFI44726.1|2138965_2139601_+	Xaa-Pro dipeptidase	NA	A0A1X9I5T8	Streptococcus_phage	71.5	4.4e-76
VFI44733.1|2139885_2140812_+	cysteine synthase	NA	A0A1X9I5K7	Streptococcus_phage	81.4	4.8e-140
VFI44740.1|2141031_2141493_+|transposase	transposase	transposase	A0A1S5SBP9	Streptococcus_phage	96.7	2.9e-77
VFI44747.1|2141560_2142601_-	elongation factor Ts	NA	NA	NA	NA	NA
VFI44754.1|2142679_2143459_-	30S ribosomal protein S2	NA	NA	NA	NA	NA
VFI44761.1|2143682_2144861_-	CHAP domain-containing protein	NA	NA	NA	NA	NA
VFI44768.1|2144954_2145449_-	rod shape-determining protein MreD	NA	NA	NA	NA	NA
VFI44776.1|2145448_2146267_-	cell shape determining protein MreC	NA	NA	NA	NA	NA
VFI44783.1|2146325_2147120_-	ABC transporter permease, cobalt transport	NA	NA	NA	NA	NA
VFI44790.1|2147112_2147952_-	cobalt ABC transporter ATP-binding protein	NA	W8CYL7	Bacillus_phage	32.6	1.1e-15
VFI44797.1|2147936_2148764_-	ABCtransporter ATP-binding protein cobalt transport	NA	G9BWD6	Planktothrix_phage	32.9	2.1e-22
VFI44804.1|2148760_2149306_-	phosphatidylglycerophosphate synthase	NA	NA	NA	NA	NA
VFI44812.1|2149316_2150138_-	transcriptional regulation protein	NA	NA	NA	NA	NA
VFI44819.1|2150179_2151463_-|protease	zinc-dependent protease	protease	A0A1E1EST3	Acanthamoeba_castellanii_mimivirus	30.0	8.4e-18
VFI44826.1|2151459_2152710_-|protease	zinc-dependent protease	protease	A0A1X9I714	Streptococcus_phage	42.3	2.7e-93
VFI44833.1|2152868_2153237_+	S4 domain-containing protein YaaA	NA	A0A1X9I5V8	Streptococcus_phage	57.3	7.0e-18
VFI44840.1|2153239_2154337_+	recombination protein recF	NA	NA	NA	NA	NA
VFI44844.1|2154386_2155865_-	inosine-5-monophosphate dehydrogenase	NA	A0A1V0SHK8	Klosneuvirus	40.5	2.2e-94
>prophage 22
LR216060	Streptococcus pneumoniae strain 2245STDY6178787 genome assembly, chromosome: 1	2202359	2182306	2190592	2202359	integrase	Streptococcus_phage(57.14%)	11	2182537:2182551	2197401:2197415
VFI45086.1|2182306_2182912_-	phage protein	NA	A0A192Y918	Salmonella_phage	34.1	6.8e-18
2182537:2182551	attL	ATGATTTGATAGCTT	NA	NA	NA	NA
VFI45093.1|2182933_2183242_-	Uncharacterised protein	NA	NA	NA	NA	NA
VFI45101.1|2183385_2183577_-	transcription regulator	NA	NA	NA	NA	NA
VFI45108.1|2183755_2184496_+	bifunctional S24 family peptidase/transcriptional regulator	NA	A0A1S5SFG5	Streptococcus_phage	62.4	2.2e-79
VFI45116.1|2184514_2185183_+	LIM domain protein	NA	A0A141DZS3	Streptococcus_phage	74.1	8.4e-78
VFI45123.1|2185321_2185990_+	Fic protein family	NA	D7RWK9	Brochothrix_phage	24.6	9.2e-08
VFI45130.1|2186452_2186911_-	Uncharacterised protein	NA	A0A1X9I5V5	Streptococcus_phage	46.0	5.6e-25
VFI45139.1|2187866_2188064_+	membrane protein	NA	NA	NA	NA	NA
VFI45146.1|2188346_2188652_+	replication protein	NA	NA	NA	NA	NA
VFI45153.1|2188756_2189317_+	putative DNA damage inducible protein	NA	A0A1W6JPJ7	Morganella_phage	56.1	4.6e-21
VFI45160.1|2189752_2190592_+|integrase	integrase	integrase	A0A1X9I6A9	Streptococcus_phage	52.0	6.6e-72
2197401:2197415	attR	AAGCTATCAAATCAT	NA	NA	NA	NA
