The following contents displays predicted prophage regions
first line of each prophage describes the prophage information and the following lines describe the proteins and homology proteins in uniprot database
bacteria_id bac_def genome_size prophage_start  prophage_end    key_proteins    best_hit_species    CDS_number  attl_region attr_region
>prophage 1
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	6496	79002	4646629	transposase,protease,integrase,tRNA	Stx2-converting_phage(22.22%)	57	27317:27376	60721:61490
WP_005048978.1|6496_8098_-|transposase	IS66-like element ISSfl3 family transposase	transposase	A0A0P0ZEB3	Stx2-converting_phage	61.2	3.5e-146
WP_005048975.1|8094_8445_-	IS66 family insertion sequence element accessory protein TnpB	NA	A0A0P0ZDM8	Stx2-converting_phage	68.7	3.5e-27
WP_001088287.1|8441_9116_-	IS66 family insertion sequence hypothetical protein	NA	A0A0P0ZCV4	Stx2-converting_phage	30.1	5.8e-10
WP_167389526.1|9275_10503_+|transposase	IS3-like element IS2 family transposase	transposase	Q9ZXG3	Shigella_phage	98.7	6.5e-177
WP_005065417.1|11535_12219_+	YjiH family protein	NA	NA	NA	NA	NA
WP_000211962.1|12215_12677_+	membrane protein	NA	NA	NA	NA	NA
WP_000568430.1|12689_13862_+	beta-aspartyl-peptidase	NA	NA	NA	NA	NA
WP_000340761.1|13926_14838_+	hypochlorite stress DNA-binding transcriptional regulator HypT	NA	NA	NA	NA	NA
WP_000986206.1|14830_15223_-	anti-adapter protein IraD	NA	NA	NA	NA	NA
WP_120795393.1|15219_15303_-	iraD leader peptide	NA	NA	NA	NA	NA
WP_000062539.1|16672_17503_+	DUF2686 family protein	NA	NA	NA	NA	NA
WP_000844157.1|17643_18417_-	Uxu operon transcriptional regulator	NA	NA	NA	NA	NA
WP_000208167.1|18631_20092_-	fructuronate reductase	NA	H8ZJP8	Ostreococcus_tauri_virus	32.2	2.1e-49
WP_000438583.1|20172_21357_-	mannonate dehydratase	NA	NA	NA	NA	NA
WP_000558239.1|21696_23040_+	gluconate permease GntP	NA	NA	NA	NA	NA
WP_000816511.1|23290_24193_-	type 1 fimbria D-mannose specific adhesin FimH	NA	NA	NA	NA	NA
WP_000870598.1|24212_24716_-	type 1 fimbria minor subunit FimG	NA	NA	NA	NA	NA
WP_001244836.1|24728_25259_-	type 1 fimbria minor subunit FimF	NA	NA	NA	NA	NA
27317:27376	attL	GGGTAATGACTCCAACTTACTGATAGTGTTTTATGTTCAGATAATGCCCGATGACCTTGT	NA	NA	NA	NA
WP_000066552.1|28747_29473_-	type 1 fimbria chaperone FimC	NA	NA	NA	NA	NA
WP_000824103.1|29509_30049_-	type 1 fimbrial protein	NA	NA	NA	NA	NA
WP_000695529.1|30113_30662_-	fimbrial protein	NA	NA	NA	NA	NA
WP_000044711.1|31142_31739_-	type 1 fimbria regulatory protein FimE	NA	A0A2L1IV36	Escherichia_phage	53.4	3.9e-50
WP_001295734.1|34272_34989_+	N-acetylneuraminic acid outer membrane channel NanC	NA	NA	NA	NA	NA
WP_005048917.1|35008_36115_+	N-acetylneuraminate epimerase	NA	NA	NA	NA	NA
WP_000991455.1|36179_37160_+	9-O-acetyl-N-acetylneuraminic acid deacetylase	NA	Q08JA2	Stx2-converting_phage	56.2	7.9e-101
WP_050597212.1|38375_39116_+	DeoR family transcriptional regulator	NA	NA	NA	NA	NA
WP_094081500.1|39938_41094_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	6.8e-67
WP_071843962.1|42021_42258_-	DUF2686 family protein	NA	NA	NA	NA	NA
WP_000747032.1|43419_44587_+|transposase	IS3-like element IS911 family transposase	transposase	Q716C2	Shigella_phage	100.0	1.8e-184
WP_001218324.1|44562_45774_-|integrase	integrase arm-type DNA-binding domain-containing protein	integrase	B7SYF8	Stenotrophomonas_phage	42.3	2.0e-77
WP_001299662.1|46252_47272_+	NADPH-dependent aldehyde reductase Ahr	NA	A0A0G2Y405	Acanthamoeba_polyphaga_mimivirus	30.7	8.4e-45
WP_005054063.1|49019_50102_-	LPS export ABC transporter permease LptG	NA	NA	NA	NA	NA
WP_000584114.1|50101_51202_-	LPS export ABC transporter permease LptF	NA	NA	NA	NA	NA
WP_000397161.1|51468_52980_+	leucyl aminopeptidase	NA	Q6GYZ8	Mycoplasma_phage	37.4	8.6e-46
WP_005054057.1|53113_53557_+	DNA polymerase III subunit chi	NA	NA	NA	NA	NA
WP_000416415.1|53556_56412_+|tRNA	valine--tRNA ligase	tRNA	A0A1V0SK04	Klosneuvirus	36.7	1.0e-140
WP_000079652.1|56465_57662_-	DUF898 domain-containing protein	NA	NA	NA	NA	NA
WP_001059407.1|57854_58358_+	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
WP_000002953.1|58403_58820_-	ribonuclease E inhibitor RraB	NA	NA	NA	NA	NA
WP_000012908.1|58981_59995_+	ornithine carbamoyltransferase	NA	NA	NA	NA	NA
WP_000516533.1|60774_61503_-	hypothetical protein	NA	NA	NA	NA	NA
60721:61490	attR	ACAAGGTCATCGGGCATTATCTGAACATAAAACACTATCAGTAAGTTGGAGTCATTACCCTTTATTCAATGCTTTTTCTAATAAATCCGTAATCGTAGAATCAACTGAACCTTTACAACTCACCTGCGAGTTATTTAACTCCTGCGAATTATTTAACTTCTGTGAATTATTTAACTCCTGCGAATCATTTAACTCCTGTATATTATTTAACTTCTGATGATTATTTAATAGACGCGCTATTTTCTTGTTAGCTTCGCGTTGGTAACACGCCAGAACCTTGTTAGTAATCAGGTGTAATGAACTATCATCTTTTCTTTCAAAAGACTTCCCTTCATAACGATTAGTCGAACCATCAGATTGTTTAAATATAATGACTGTATGTCCTTCACGAATCCCTTTAGTAGAAGCTGAGGCAAGTGTAATTTCTATCTTCACCTTAGATAAATCCGCTCGCTCCCCTTCAGGATTATTCATGTAAAACTTCATTTTTTCATTGCCATCAGTATCTTTAGAATAAGATGAGAACTCAATATGAGCCATCATATTTCTACCCGCTTCGTTGGAGCGTTTGCTAAAATCCACATAACCCAGGGTAAATATCTTTGCCAAAAACTCCAAAAATGCTCTAGGAGAAAGAATATTGCTTCTGCTATTCTGCCCCCCGGCAATTCGGGCAAAATCATTCATTCCCACATACCAGGTATCTAAGGCTTCATTTTTTTGTTTAAAATTGTCGGCTAATGTAATGTGTTGAGAATAATTCAAATCTG	NA	NA	NA	NA
WP_000583469.1|61625_62078_-	toxin-antitoxin biofilm protein TabA	NA	NA	NA	NA	NA
WP_000256684.1|62222_62816_-	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA	NA
WP_000500714.1|62886_63600_+	SDR family oxidoreductase	NA	NA	NA	NA	NA
WP_000230280.1|63731_64127_+	RidA family protein	NA	NA	NA	NA	NA
WP_011069607.1|64407_64542_+	pyr operon leader peptide	NA	NA	NA	NA	NA
WP_000013046.1|64545_65481_+	aspartate carbamoyltransferase	NA	M1HWF9	Paramecium_bursaria_Chlorella_virus	40.2	2.9e-52
WP_000148585.1|65493_65955_+	aspartate carbamoyltransferase regulatory subunit	NA	NA	NA	NA	NA
WP_000047539.1|66027_66414_+	2-iminobutanoate/2-iminopropanoate deaminase	NA	NA	NA	NA	NA
WP_000471841.1|66619_69316_-	magnesium-translocating P-type ATPase	NA	M1HLC0	Paramecium_bursaria_Chlorella_virus	27.3	2.0e-45
WP_001387276.1|69456_69510_-	mgtA regulatory leader peptide MgtL	NA	NA	NA	NA	NA
WP_001181311.1|69694_70642_+	HTH-type transcriptional regulator TreR	NA	C6ZCU4	Enterobacteria_phage	21.8	6.0e-13
WP_001299664.1|70760_72182_+	PTS trehalose transporter subunit IIBC	NA	NA	NA	NA	NA
WP_001344094.1|72231_73887_+	alpha,alpha-phosphotrehalase	NA	NA	NA	NA	NA
WP_000187770.1|74279_76418_+	anaerobic ribonucleoside-triphosphate reductase	NA	A0A2I7QNQ7	Vibrio_phage	64.3	7.7e-266
WP_001106222.1|76575_77040_+	anaerobic ribonucleoside-triphosphate reductase-activating protein	NA	H6WXC9	Vibrio_phage	59.7	1.1e-52
WP_001162182.1|77649_79002_-|protease	metalloprotease PmbA	protease	NA	NA	NA	NA
>prophage 2
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	428751	551393	4646629	terminase,plate,protease,tRNA,coat,portal,transposase	Escherichia_phage(20.69%)	101	NA	NA
WP_000742443.1|428751_430176_+|protease	serine endoprotease DegP	protease	A0A1B1IT49	uncultured_Mediterranean_phage	29.2	6.5e-27
WP_000272188.1|431575_431962_-	DUF3461 family protein	NA	NA	NA	NA	NA
WP_001186650.1|432275_433100_-	2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase	NA	NA	NA	NA	NA
WP_001094600.1|433130_435803_-	bifunctional uridylyltransferase/uridylyl-removing protein GlnD	NA	NA	NA	NA	NA
WP_001018194.1|435864_436659_-	type I methionyl aminopeptidase	NA	NA	NA	NA	NA
WP_000246888.1|437026_437752_+	30S ribosomal protein S2	NA	NA	NA	NA	NA
WP_000818114.1|438009_438861_+	elongation factor Ts	NA	NA	NA	NA	NA
WP_000224573.1|439007_439733_+	UMP kinase	NA	NA	NA	NA	NA
WP_000622418.1|440024_440582_+	ribosome recycling factor	NA	NA	NA	NA	NA
WP_000811938.1|440673_441870_+	1-deoxy-D-xylulose-5-phosphate reductoisomerase	NA	NA	NA	NA	NA
WP_001295562.1|442058_442817_+	(2E,6E)-farnesyl-diphosphate-specific ditrans,polycis-undecaprenyl-diphosphate synthase	NA	R9W0U9	Flavobacterium_phage	44.4	7.7e-27
WP_000922446.1|442829_443687_+	phosphatidate cytidylyltransferase	NA	NA	NA	NA	NA
WP_005053372.1|443698_445051_+|protease	sigma E protease regulator RseP	protease	NA	NA	NA	NA
WP_001240896.1|445080_447513_+	outer membrane protein assembly factor BamA	NA	NA	NA	NA	NA
WP_000758956.1|447634_448120_+	molecular chaperone Skp	NA	NA	NA	NA	NA
WP_001139282.1|448123_449149_+	UDP-3-O-(3-hydroxymyristoyl)glucosamine N-acyltransferase	NA	NA	NA	NA	NA
WP_000210739.1|449253_449709_+	3-hydroxyacyl-ACP dehydratase FabZ	NA	NA	NA	NA	NA
WP_000565966.1|449712_450501_+	acyl-ACP--UDP-N-acetylglucosamine O-acyltransferase	NA	NA	NA	NA	NA
WP_000132065.1|450500_451649_+	lipid-A-disaccharide synthase	NA	NA	NA	NA	NA
WP_000569431.1|451645_452242_+	ribonuclease HII	NA	V5LS49	Emiliania_huxleyi_virus	40.0	1.8e-26
WP_001294740.1|452278_455761_+	DNA polymerase III subunit alpha	NA	Q8W6C3	Saccharomonospora_phage	36.9	2.2e-209
WP_000055741.1|455773_456733_+	acetyl-CoA carboxylase carboxyl transferase subunit alpha	NA	NA	NA	NA	NA
WP_000901098.1|459028_459418_+	VOC family protein	NA	NA	NA	NA	NA
WP_000176576.1|459482_460781_+|tRNA	tRNA lysidine(34) synthetase TilS	tRNA	NA	NA	NA	NA
WP_000062312.1|460829_461090_-	Rho-binding antiterminator	NA	NA	NA	NA	NA
WP_000417058.1|461076_461277_-	YaeP family protein	NA	NA	NA	NA	NA
WP_001185290.1|461442_461988_+	YaeQ family protein	NA	NA	NA	NA	NA
WP_000635538.1|461984_462407_+|tRNA	aminoacyl-tRNA hydrolase	tRNA	NA	NA	NA	NA
WP_000239155.1|462420_463131_+	envelope stress response activation lipoprotein NlpE	NA	NA	NA	NA	NA
WP_005053355.1|463285_464110_-	YaeF family permuted papain-like enzyme	NA	NA	NA	NA	NA
WP_134805916.1|464162_465881_-|tRNA	proline--tRNA ligase	tRNA	NA	NA	NA	NA
WP_000094030.1|465991_466699_-|tRNA	tRNA (N6-threonylcarbamoyladenosine(37)-N6)-methyltransferase TrmO	tRNA	NA	NA	NA	NA
WP_001202325.1|466695_467100_-	Rcs stress response system protein RcsF	NA	NA	NA	NA	NA
WP_000874224.1|467217_468033_-	methionine ABC transporter substrate-binding lipoprotein MetQ	NA	NA	NA	NA	NA
WP_001294596.1|468072_468726_-	methionine ABC transporter permease MetI	NA	NA	NA	NA	NA
WP_000593997.1|468718_469750_-	methionine ABC transporter ATP-binding protein MetN	NA	G9BWD6	Planktothrix_phage	40.2	7.2e-36
WP_001140187.1|469937_470513_+	D-glycero-beta-D-manno-heptose 1,7-bisphosphate 7-phosphatase	NA	NA	NA	NA	NA
WP_000997046.1|476271_477075_+	2,5-didehydrogluconate reductase DkgB	NA	A0A1V0SDE7	Indivirus	36.2	9.2e-39
WP_005086990.1|477113_478460_-|transposase	IS4 family transposase	transposase	NA	NA	NA	NA
WP_151101394.1|478509_479424_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
WP_001230983.1|479664_480465_+	endonuclease/exonuclease/phosphatase family protein	NA	NA	NA	NA	NA
WP_000211683.1|480542_481313_+	class I SAM-dependent methyltransferase	NA	NA	NA	NA	NA
WP_000644679.1|481360_482707_-	murein transglycosylase D	NA	A0A2H4J9N7	uncultured_Caudovirales_phage	35.1	3.7e-08
WP_001052754.1|482778_483534_-	hydroxyacylglutathione hydrolase	NA	NA	NA	NA	NA
WP_005060310.1|483567_484290_+	class I SAM-dependent methyltransferase	NA	NA	NA	NA	NA
WP_000917883.1|484286_484754_-	ribonuclease HI	NA	J9Q745	Salmonella_phage	58.7	1.0e-50
WP_001366128.1|484818_485550_+	DNA polymerase III subunit epsilon	NA	A0A1X9SH08	Bradyrhizobium_phage	38.6	7.6e-40
WP_000402248.1|485889_486936_-	ImpA family type VI secretion system protein	NA	NA	NA	NA	NA
WP_000371478.1|487505_489389_-|plate	type VI secretion system baseplate subunit TssF	plate	NA	NA	NA	NA
WP_001276640.1|489404_489899_-|plate	type VI secretion system baseplate subunit TssE	plate	NA	NA	NA	NA
WP_094081497.1|491679_492952_+|transposase	IS3 family transposase	transposase	Q9ZXG3	Shigella_phage	98.7	1.5e-176
WP_000343116.1|493009_493297_-	hypothetical protein	NA	A0A1P8DTP0	Salmonella_phage	60.0	1.8e-29
WP_094081496.1|493374_494542_+|transposase	IS3 family transposase	transposase	Q716C2	Shigella_phage	100.0	1.8e-184
WP_014532150.1|494536_495592_+|terminase	terminase	terminase	I1TEI5	Salmonella_phage	99.7	1.2e-211
WP_000752837.1|495592_497758_+|portal	portal protein	portal	A0A2D1GLJ6	Escherichia_phage	99.2	0.0e+00
WP_000373012.1|497771_498683_+	scaffold protein	NA	A0A2D1GLN7	Escherichia_phage	99.0	2.0e-159
WP_001196950.1|498682_499978_+|coat	coat protein	coat	A0A2D1GLV2	Escherichia_phage	98.4	1.5e-240
WP_005053303.1|500022_500253_+	hypothetical protein	NA	A0A2D1GLK1	Escherichia_phage	69.3	1.2e-23
WP_001054834.1|500230_500731_+	DNA recombination protein RmuC	NA	G8EYJ2	Enterobacteria_phage	99.4	6.5e-91
WP_151101396.1|500730_502149_+	hypothetical protein	NA	Q9AYZ4	Salmonella_phage	98.5	4.7e-272
WP_000785540.1|502148_502997_+	Packaged DNA stabilization protein gp26	NA	Q716G6	Shigella_phage	98.6	2.1e-102
WP_000627639.1|502996_503452_+	DUF2824 family protein	NA	A0A2D1GLX4	Escherichia_phage	99.3	8.8e-87
WP_000964877.1|503454_504147_+	DNA transfer protein	NA	G5DA80	Enterobacteria_phage	99.6	2.1e-111
WP_000246949.1|504156_505488_+	phage DNA ejection protein	NA	A0A2D1GLX5	Escherichia_phage	99.8	3.1e-217
WP_005053293.1|505488_507219_+	lytic transglycosylase domain-containing protein	NA	A0A088CQ71	Enterobacteria_phage	97.9	6.8e-281
WP_005053289.1|508604_508925_-	phosphate starvation-inducible protein PsiF	NA	NA	NA	NA	NA
WP_005053287.1|509043_510459_-	alkaline phosphatase	NA	NA	NA	NA	NA
WP_000792969.1|510559_510820_-	anti-adapter protein IraP	NA	NA	NA	NA	NA
WP_023517632.1|511001_511205_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000413677.1|511282_512377_+	D-alanine--D-alanine ligase	NA	NA	NA	NA	NA
WP_001599861.1|512400_512613_-	DUF2754 domain-containing protein	NA	NA	NA	NA	NA
WP_000763148.1|512872_513181_+	DUF2755 family protein	NA	NA	NA	NA	NA
WP_000092054.1|513239_514334_-	surface-exposed outer membrane lipoprotein YaiW	NA	NA	NA	NA	NA
WP_001342332.1|514346_515567_-	peptide antibiotic transporter SbmA	NA	NA	NA	NA	NA
WP_000830735.1|515918_517076_+	D-alanyl-D-alanine- carboxypeptidase/endopeptidase AmpH	NA	A0A2H4JAN9	uncultured_Caudovirales_phage	22.1	3.9e-06
WP_000953938.1|517076_517580_-	helix-turn-helix domain-containing protein	NA	NA	NA	NA	NA
WP_094106726.1|519300_520457_-|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	8.9e-67
WP_094081542.1|521233_522462_-|transposase	IS3-like element IS2 family transposase	transposase	Q9ZXG3	Shigella_phage	99.0	2.9e-177
WP_001295337.1|524222_525197_+	porphobilinogen synthase	NA	NA	NA	NA	NA
WP_000004031.1|525302_526154_-	taurine dioxygenase	NA	NA	NA	NA	NA
WP_000114607.1|526150_526978_-	taurine ABC transporter permease TauC	NA	NA	NA	NA	NA
WP_000939367.1|526974_527742_-	taurine ABC transporter ATP-binding subunit	NA	G9BWD6	Planktothrix_phage	39.8	4.3e-25
WP_045177322.1|527754_528681_-	taurine ABC transporter substrate-binding protein	NA	NA	NA	NA	NA
WP_077696319.1|528947_529142_-	regulator	NA	NA	NA	NA	NA
WP_000003122.1|530050_530719_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000370403.1|530961_531657_-	lactate utilization protein C	NA	NA	NA	NA	NA
WP_000023933.1|531649_533077_-	iron-sulfur cluster-binding protein	NA	NA	NA	NA	NA
WP_001102097.1|533087_533807_-	(Fe-S)-binding protein	NA	NA	NA	NA	NA
WP_000667623.1|535588_535975_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000011500.1|535999_538213_+	type VI secretion system tip protein VgrG	NA	NA	NA	NA	NA
WP_005053237.1|538702_539110_+	PAAR domain-containing protein	NA	NA	NA	NA	NA
WP_000568701.1|539106_541395_+	RHS repeat protein	NA	NA	NA	NA	NA
WP_128567422.1|542479_542683_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000343515.1|542700_543021_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001139559.1|543428_544199_-	2-oxoglutaramate amidase	NA	NA	NA	NA	NA
WP_000532697.1|544352_544826_+	C-lysozyme inhibitor	NA	NA	NA	NA	NA
WP_000973114.1|544868_547313_-	acyl-CoA dehydrogenase FadE	NA	NA	NA	NA	NA
WP_000284050.1|547552_548131_+	D-sedoheptulose 7-phosphate isomerase	NA	A0A067XQR2	Caulobacter_phage	32.0	1.1e-14
WP_000333379.1|548336_549104_+	class II glutamine amidotransferase	NA	NA	NA	NA	NA
WP_001225676.1|549074_549815_-	murein L,D-transpeptidase	NA	NA	NA	NA	NA
WP_000006251.1|550895_551393_+|transposase	REP-associated tyrosine transposase RayT	transposase	NA	NA	NA	NA
>prophage 3
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	567628	628136	4646629	transposase,tail,integrase,tRNA	Shigella_phage(37.04%)	53	573324:573339	584015:584030
WP_094081493.1|567628_568785_-|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	8.9e-67
WP_000206732.1|569793_570099_-	hypothetical protein	NA	U5P0J0	Shigella_phage	100.0	6.8e-51
WP_000563002.1|570098_570458_-	hypothetical protein	NA	U5P092	Shigella_phage	99.0	1.7e-53
WP_094081493.1|571813_572969_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	8.9e-67
573324:573339	attL	CACAAATACGGCACAA	NA	NA	NA	NA
WP_000915845.1|573633_573996_+	GtrA family protein	NA	U5P0S6	Shigella_phage	99.2	2.3e-58
WP_000703655.1|573992_574922_+	glycosyltransferase family 2 protein	NA	S5FKN0	Shigella_phage	99.7	2.3e-174
WP_000590789.1|574918_576379_+	glucosyltransferase GtrII	NA	O21944	Shigella_phage	99.4	6.6e-269
WP_001111520.1|576768_577959_-|transposase	IS4-like element ISSfl9 family transposase	transposase	S5FM71	Shigella_phage	99.5	3.7e-225
WP_000282635.1|578409_579459_+	acyltransferase family protein	NA	S5FNR8	Shigella_phage	99.4	4.1e-196
WP_001223322.1|580230_580665_-|tail	tail fiber assembly protein	tail	S5FXM8	Shigella_phage	100.0	1.9e-78
WP_000554647.1|580636_581287_-	hypothetical protein	NA	S5FKM2	Shigella_phage	100.0	1.2e-116
WP_094081493.1|581339_582496_-|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	8.9e-67
WP_000051894.1|582681_583845_+|integrase	site-specific integrase	integrase	U5P434	Shigella_phage	99.5	4.5e-228
WP_000551008.1|584193_585366_+	acyltransferase	NA	A0A088CPR9	Enterobacteria_phage	99.5	1.1e-210
584015:584030	attR	CACAAATACGGCACAA	NA	NA	NA	NA
WP_005060548.1|585419_586043_-	hypothetical protein	NA	A0A088CQ58	Enterobacteria_phage	76.3	2.9e-72
WP_094092420.1|586169_587368_-|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	5.4e-67
WP_005053118.1|588711_589827_+	diguanylate cyclase AdrA	NA	A0A127AWB9	Bacillus_phage	34.5	1.5e-18
WP_001295331.1|589843_590653_-	pyrroline-5-carboxylate reductase	NA	NA	NA	NA	NA
WP_000158164.1|590772_591231_+	YaiI/YqxD family protein	NA	NA	NA	NA	NA
WP_000193385.1|591413_591938_+	shikimate kinase AroL	NA	NA	NA	NA	NA
WP_001142439.1|591987_592179_+	protein YaiA	NA	NA	NA	NA	NA
WP_001276420.1|592436_593114_+	AroM family protein	NA	NA	NA	NA	NA
WP_000941942.1|593185_593470_+	pyrimidine/purine nucleoside phosphorylase	NA	NA	NA	NA	NA
WP_000194195.1|593956_594412_+	hypothetical protein	NA	NA	NA	NA	NA
WP_005053105.1|594489_595401_-	recombination-associated protein RdgC	NA	S4TWL4	Salmonella_phage	63.3	4.6e-103
WP_001219335.1|595525_596434_+	fructokinase	NA	NA	NA	NA	NA
WP_005053102.1|596576_597758_-	MFS transporter AraJ	NA	NA	NA	NA	NA
WP_000698943.1|597883_601027_-	exonuclease subunit SbcC	NA	G3MAB6	Bacillus_virus	26.9	5.8e-12
WP_001221306.1|601023_602226_-	exonuclease subunit SbcD	NA	R4JGS2	Bacillus_phage	31.5	2.4e-06
WP_000113938.1|602415_603105_+	phosphate response regulator transcription factor PhoB	NA	W8CYM9	Bacillus_phage	38.5	1.5e-37
WP_000893611.1|603162_604458_+	phosphate regulon sensor histidine kinase PhoR	NA	W8CYF6	Bacillus_phage	30.8	1.7e-26
WP_000149647.1|604864_606184_+	branched-chain amino acid transporter carrier protein BrnQ	NA	NA	NA	NA	NA
WP_000444173.1|606259_607633_+	proline-specific permease ProY	NA	NA	NA	NA	NA
WP_000979361.1|607788_609606_+	maltodextrin glucosidase	NA	NA	NA	NA	NA
WP_001266503.1|610276_611347_+|tRNA	tRNA preQ1(34) S-adenosylmethionine ribosyltransferase-isomerase QueA	tRNA	NA	NA	NA	NA
WP_000667315.1|611401_612529_+|tRNA	tRNA guanosine(34) transglycosylase Tgt	tRNA	A0A1B1IVQ4	uncultured_Mediterranean_phage	46.3	1.6e-89
WP_000007629.1|612551_612884_+	preprotein translocase subunit YajC	NA	A0A1B1IVR5	uncultured_Mediterranean_phage	33.0	2.8e-10
WP_000934822.1|612911_614759_+	protein translocase subunit SecD	NA	NA	NA	NA	NA
WP_000046642.1|614769_615741_+	protein translocase subunit SecF	NA	A0A1B1IVP7	uncultured_Mediterranean_phage	37.9	8.0e-45
WP_000974813.1|615869_616217_+	HNH nuclease family protein	NA	NA	NA	NA	NA
WP_001295328.1|616393_617278_-	nucleoside-specific channel-forming protein Tsx	NA	NA	NA	NA	NA
WP_001382892.1|617575_618115_-	DUF3251 domain-containing protein	NA	NA	NA	NA	NA
WP_000543539.1|618265_618715_+	transcriptional regulator NrdR	NA	NA	NA	NA	NA
WP_001150448.1|618718_619822_+	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	NA	A0A1V0SE20	Indivirus	35.5	9.1e-53
WP_151101399.1|619910_620381_+	6,7-dimethyl-8-ribityllumazine synthase	NA	A0A2H4PQS3	Staphylococcus_phage	47.4	1.7e-29
WP_000801125.1|620400_620820_+	transcription antitermination factor NusB	NA	NA	NA	NA	NA
WP_000742108.1|620897_621875_+	thiamine-phosphate kinase	NA	NA	NA	NA	NA
WP_000154147.1|621852_622371_+	phosphatidylglycerophosphatase A	NA	NA	NA	NA	NA
WP_001199828.1|622481_623399_-	1-deoxyxylulose-5-phosphate synthase YajO	NA	NA	NA	NA	NA
WP_000006825.1|623453_625316_-	1-deoxy-D-xylulose-5-phosphate synthase	NA	NA	NA	NA	NA
WP_000347234.1|625340_626240_-	(2E,6E)-farnesyl diphosphate synthase	NA	NA	NA	NA	NA
WP_001124935.1|626239_626482_-	exodeoxyribonuclease VII small subunit	NA	NA	NA	NA	NA
WP_000668704.1|626687_628136_+|tRNA	tRNA 4-thiouridine(8) synthase ThiI	tRNA	NA	NA	NA	NA
>prophage 4
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	911522	994914	4646629	terminase,capsid,tail,holin,tRNA,head,transposase	Enterobacteria_phage(33.33%)	86	NA	NA
WP_000162739.1|911522_912947_+|tRNA	tRNA (N6-isopentenyl adenosine(37)-C2)-methylthiotransferase MiaB	tRNA	NA	NA	NA	NA
WP_001018040.1|913099_914140_+	PhoH family protein	NA	A0A0S0MVD6	Pseudomonas_phage	46.6	4.1e-47
WP_000084469.1|914136_914604_+	rRNA maturation RNase YbeY	NA	NA	NA	NA	NA
WP_001278605.1|914693_915572_+	CNNM family magnesium/cobalt transport protein CorC	NA	NA	NA	NA	NA
WP_000344846.1|915596_917135_+	apolipoprotein N-acyltransferase	NA	NA	NA	NA	NA
WP_001177084.1|917531_918440_+	glutamate/aspartate ABC transporter substrate-binding protein GltI	NA	NA	NA	NA	NA
WP_000020953.1|918609_919350_+	glutamate/aspartate ABC transporter permease GltJ	NA	NA	NA	NA	NA
WP_000272830.1|919349_920024_+	glutamate/aspartate ABC transporter permease GltK	NA	NA	NA	NA	NA
WP_000631382.1|920023_920749_+	glutamate/aspartate ABC transporter ATP binding protein GltL	NA	G9BWD6	Planktothrix_phage	38.6	1.7e-31
WP_001207526.1|920866_921802_+	pyrimidine-specific ribonucleoside hydrolase RihA	NA	NA	NA	NA	NA
WP_005049464.1|923615_925067_-	co-chaperone DjlC	NA	NA	NA	NA	NA
WP_001030938.1|925063_925771_-	DUF1266 domain-containing protein	NA	NA	NA	NA	NA
WP_001035656.1|925872_926427_+	sel1 repeat family protein	NA	NA	NA	NA	NA
WP_000786582.1|926436_927864_-	J domain-containing protein	NA	NA	NA	NA	NA
WP_000367140.1|927860_928568_-	DUF1266 domain-containing protein	NA	NA	NA	NA	NA
WP_000578172.1|928731_929709_+	SEL1-like repeat protein	NA	NA	NA	NA	NA
WP_001044870.1|929778_930261_-	zinc ribbon-containing protein	NA	NA	NA	NA	NA
WP_001157892.1|930495_933078_+|tRNA	leucine--tRNA ligase	tRNA	A0A2H4PQS0	Staphylococcus_phage	42.3	1.4e-184
WP_001269672.1|933092_933674_+	LPS assembly lipoprotein LptE	NA	NA	NA	NA	NA
WP_000620544.1|933673_934705_+	DNA polymerase III subunit delta	NA	NA	NA	NA	NA
WP_000838889.1|934706_935348_+	nicotinate-nucleotide adenylyltransferase	NA	NA	NA	NA	NA
WP_001241888.1|935371_935983_+	adenosylcobalamin/alpha-ribazole phosphatase	NA	NA	NA	NA	NA
WP_001161664.1|936242_936560_+	ribosome silencing factor	NA	NA	NA	NA	NA
WP_000776104.1|936563_937031_+	23S rRNA (pseudouridine(1915)-N(3))-methyltransferase RlmH	NA	NA	NA	NA	NA
WP_000776197.1|937061_938963_+	peptidoglycan DD-transpeptidase MrdA	NA	NA	NA	NA	NA
WP_000131719.1|938965_940078_+	peptidoglycan glycosyltransferase MrdB	NA	NA	NA	NA	NA
WP_001231405.1|940088_941177_+	endolytic peptidoglycan transglycosylase RlpA	NA	F5B3X9	Synechococcus_phage	53.2	3.6e-09
WP_001092085.1|941315_942527_+	D-alanyl-D-alanine carboxypeptidase DacA	NA	B6DZZ7	Stx2-converting_phage	47.2	7.5e-101
WP_000850550.1|942637_942901_+	YbeD family protein	NA	NA	NA	NA	NA
WP_000284045.1|943001_943643_+	lipoyl(octanoyl) transferase LipB	NA	NA	NA	NA	NA
WP_000378035.1|943901_944855_+	DNA-binding transcriptional regulator	NA	NA	NA	NA	NA
WP_000042632.1|945063_946029_+	lipoyl synthase	NA	NA	NA	NA	NA
WP_000503931.1|946129_946333_-	twin-arginine translocase subunit TatE	NA	NA	NA	NA	NA
WP_005049482.1|946461_947250_-	deaminated glutathione amidase	NA	NA	NA	NA	NA
WP_000939741.1|947342_947726_+	fluoride efflux transporter CrcB	NA	A0A2H4J148	uncultured_Caudovirales_phage	53.6	6.8e-24
WP_000034825.1|947779_947989_-	transcription antiterminator/RNA stability regulator CspE	NA	A0A1W6JNX5	Morganella_phage	78.1	2.7e-22
WP_005049488.1|948163_948724_-	lipid IV(A) palmitoyltransferase PagP	NA	NA	NA	NA	NA
WP_151101410.1|949312_950698_+	anaerobic C4-dicarboxylate transporter DcuC	NA	NA	NA	NA	NA
WP_000833599.1|951417_951927_-	DNA-binding protein	NA	NA	NA	NA	NA
WP_077696331.1|952089_952335_+	helix-turn-helix domain-containing protein	NA	A0A2I7S995	Vibrio_phage	63.2	6.1e-18
WP_094081558.1|954005_955161_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	8.9e-67
WP_011069283.1|955173_955449_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000627468.1|955445_956387_-	DUF2184 domain-containing protein	NA	A0A0M3ULD3	Salmonella_phage	85.6	2.3e-153
WP_005060669.1|956531_956888_-	hypothetical protein	NA	A0A0M4QWZ6	Salmonella_phage	87.4	4.7e-51
WP_000873153.1|956891_958112_-	DUF2213 domain-containing protein	NA	A0A0M4R5A6	Salmonella_phage	85.6	2.5e-192
WP_000184977.1|958115_958859_-|capsid	minor capsid protein	capsid	A0A0M4REK0	Salmonella_phage	84.4	5.3e-89
WP_000113501.1|958749_960216_-	DUF1073 domain-containing protein	NA	A0A0M4S6U1	Salmonella_phage	90.8	1.6e-259
WP_005020049.1|960215_960449_-	hypothetical protein	NA	A0A077KAW0	Edwardsiella_phage	65.8	6.2e-20
WP_005098291.1|960436_960976_-	hypothetical protein	NA	A0A077KAW0	Edwardsiella_phage	61.4	6.6e-49
WP_134796765.1|960960_962189_-|transposase	IS3-like element IS2 family transposase	transposase	Q9ZXG3	Shigella_phage	98.7	2.5e-176
WP_000204761.1|962264_962948_-|terminase	PBSX family phage terminase large subunit	terminase	K4NXU1	Acinetobacter_phage	73.4	7.0e-96
WP_001108106.1|962898_963663_-	hypothetical protein	NA	G8C7P2	Escherichia_phage	55.4	7.0e-12
WP_011069285.1|963857_964370_+	VTT domain-containing protein	NA	NA	NA	NA	NA
WP_128567431.1|964502_964694_-	hypothetical protein	NA	Q76H62	Enterobacteria_phage	98.4	1.3e-28
WP_000747032.1|964776_965944_+|transposase	IS3-like element IS911 family transposase	transposase	Q716C2	Shigella_phage	100.0	1.8e-184
WP_000482655.1|965973_966396_+	DUF1133 family protein	NA	A0A0U2S606	Escherichia_phage	63.4	9.4e-43
WP_094085495.1|967707_968837_-|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	42.3	4.6e-60
WP_001247854.1|969112_970972_+	toprim domain-containing protein	NA	B0FEC9	Escherichia_phage	98.0	0.0e+00
WP_000747032.1|970946_972115_-|transposase	IS3-like element IS911 family transposase	transposase	Q716C2	Shigella_phage	100.0	1.8e-184
WP_000988183.1|972207_973086_+	ATP-binding protein	NA	Q8W641	Enterobacteria_phage	95.6	3.0e-139
WP_000211324.1|973082_974474_+	replicative DNA helicase	NA	Q8W640	Enterobacteria_phage	95.7	3.6e-256
WP_001064799.1|974470_974728_+	hypothetical protein	NA	Q8W639	Enterobacteria_phage	93.8	1.1e-33
WP_000111769.1|974822_975023_+	protein ninH	NA	A0A088CC23	Shigella_phage	74.2	1.1e-20
WP_001204832.1|975015_975396_+	antitermination protein	NA	A0A088CD47	Shigella_phage	87.9	8.2e-62
WP_000839566.1|976198_976414_+|holin	class II holin family protein	holin	M1FN85	Enterobacteria_phage	94.4	2.2e-32
WP_005083349.1|976417_977047_+	hypothetical protein	NA	Q08JA0	Stx2-converting_phage	57.6	4.7e-30
WP_001274722.1|977112_977646_+	lysozyme	NA	K7PLY1	Enterobacteria_phage	98.3	1.6e-100
WP_128567432.1|977862_978057_+	hypothetical protein	NA	H6WRZ6	Salmonella_phage	100.0	2.5e-27
WP_094081532.1|978108_979264_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	8.9e-67
WP_005049594.1|979587_981498_+|terminase	phage terminase large subunit family protein	terminase	K7P6G6	Enterobacteria_phage	63.9	4.9e-248
WP_000259004.1|981498_981702_+|head,tail	head-tail joining protein	head,tail	K7PM10	Enterobacteria_phage	57.4	8.6e-10
WP_001254019.1|983281_984787_+	S49 family peptidase	NA	A0A2I6TC87	Escherichia_phage	53.0	4.3e-98
WP_000256794.1|984823_985171_+|head	head decoration protein	head	A0A2R9YJN3	Escherichia_phage	55.9	8.3e-21
WP_000522647.1|985228_986257_+|capsid	major capsid protein	capsid	C6ZCY2	Enterobacteria_phage	62.8	1.8e-116
WP_000201488.1|986308_986695_+	DNA-packaging protein FI	NA	NA	NA	NA	NA
WP_000348593.1|986706_987084_+|tail	tail attachment protein	tail	A0A2R9YJJ5	Escherichia_phage	57.3	2.5e-31
WP_000677140.1|987070_987655_+|tail	phage tail protein	tail	A5LH33	Enterobacteria_phage	87.6	6.0e-88
WP_001079406.1|987651_988053_+|tail	tail protein	tail	A0A291AWY2	Escherichia_phage	97.7	1.6e-71
WP_000211126.1|988063_988804_+	Ig-like domain-containing protein	NA	A5LH35	Enterobacteria_phage	96.7	1.5e-128
WP_000478927.1|988862_989249_+|tail	phage minor tail protein G	tail	A5LH36	Enterobacteria_phage	92.2	1.4e-61
WP_001161004.1|989257_989587_+|tail	phage tail assembly protein T	tail	A5LH37	Enterobacteria_phage	99.1	1.3e-55
WP_000371983.1|989558_992600_+|tail	phage tail tape measure protein	tail	A0A291AWX1	Escherichia_phage	86.5	0.0e+00
WP_000447264.1|992599_992929_+|tail	phage tail protein	tail	A5LH39	Enterobacteria_phage	97.2	2.4e-57
WP_001152490.1|992928_993627_+|tail	phage minor tail protein L	tail	A0A0K2FJ01	Enterobacteria_phage	89.7	8.4e-121
WP_000194740.1|993631_994375_+|tail	phage tail protein	tail	K7PLW1	Enterobacteria_phage	94.7	6.8e-145
WP_000090877.1|994311_994914_+|tail	tail assembly protein	tail	A5LH42	Enterobacteria_phage	85.6	8.1e-88
>prophage 5
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	1116309	1230730	4646629	integrase,transposase,protease,tRNA	Shigella_phage(11.9%)	83	1116299:1116358	1229491:1230821
1116299:1116358	attL	TGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGC	NA	NA	NA	NA
WP_088895425.1|1116309_1117538_-|transposase	IS3-like element IS2 family transposase	transposase	Q9ZXG3	Shigella_phage	99.3	1.3e-177
WP_001298299.1|1117978_1118674_-	aquaporin Z	NA	NA	NA	NA	NA
WP_000599806.1|1119874_1121533_+	ATP-dependent endonuclease	NA	NA	NA	NA	NA
WP_005067329.1|1121529_1122486_-	VirK/YbjX family protein	NA	NA	NA	NA	NA
WP_000746446.1|1122636_1123752_+	macrolide transporter subunit MacA	NA	NA	NA	NA	NA
WP_000188161.1|1123748_1125695_+	macrolide ABC transporter ATP-binding protein/permease MacB	NA	G9BWD6	Planktothrix_phage	39.6	5.5e-37
WP_000410785.1|1125767_1125992_-	cold shock-like protein CspD	NA	A0A2H4N7Y6	Lake_Baikal_phage	61.2	2.3e-16
WP_000520781.1|1126314_1126635_+|protease	ATP-dependent Clp protease adapter ClpS	protease	A0A1B1IT64	uncultured_Mediterranean_phage	44.4	1.6e-13
WP_000934033.1|1126665_1128942_+|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	protease	A0A223W0B1	Agrobacterium_phage	42.5	4.3e-166
WP_001040187.1|1129685_1129904_-	translation initiation factor IF-1	NA	NA	NA	NA	NA
WP_001241678.1|1130188_1130893_-|tRNA	leucyl/phenylalanyl-tRNA--protein transferase	tRNA	NA	NA	NA	NA
WP_001202220.1|1130934_1132656_-	cysteine/glutathione ABC transporter ATP-binding protein/permease CydC	NA	W8CYL7	Bacillus_phage	25.4	9.9e-22
WP_001043574.1|1132656_1134423_-	cysteine/glutathione ABC transporter permease/ATP-binding protein CydD	NA	W8CYL7	Bacillus_phage	24.0	4.6e-22
WP_000537402.1|1134545_1135511_-	thioredoxin-disulfide reductase	NA	A0A2I2L5E1	Orpheovirus	44.3	3.2e-62
WP_000228473.1|1136054_1136549_+	leucine-responsive transcriptional regulator Lrp	NA	NA	NA	NA	NA
WP_000077083.1|1136683_1140712_+	DNA translocase FtsK	NA	A0A218M9A2	Mycobacterium_phage	48.7	1.2e-86
WP_001295343.1|1140866_1141478_+	outer membrane lipoprotein chaperone LolA	NA	NA	NA	NA	NA
WP_000067746.1|1141488_1142832_+	replication-associated recombination protein RarA	NA	G3MBE0	Bacillus_virus	41.0	4.3e-81
WP_000886683.1|1142922_1144215_+|tRNA	serine--tRNA ligase	tRNA	A0A1B1IVT2	uncultured_Mediterranean_phage	48.2	1.5e-94
WP_000213098.1|1146908_1147526_+	dimethylsulfoxide reductase subunit B	NA	A0A077SL61	Escherichia_phage	60.6	5.0e-77
WP_000534651.1|1147527_1148319_+	dimethyl sulfoxide reductase anchor subunit	NA	NA	NA	NA	NA
WP_000165870.1|1148354_1148981_-	hydrolase	NA	NA	NA	NA	NA
WP_000109301.1|1149295_1150444_+	MFS transporter	NA	NA	NA	NA	NA
WP_005051091.1|1150756_1151431_+	IS66 family insertion sequence hypothetical protein	NA	A0A0P0ZCV4	Stx2-converting_phage	30.1	3.4e-10
WP_005048975.1|1151427_1151778_+	IS66 family insertion sequence element accessory protein TnpB	NA	A0A0P0ZDM8	Stx2-converting_phage	68.7	3.5e-27
WP_005083422.1|1151774_1153376_+|transposase	IS66-like element ISSfl3 family transposase	transposase	A0A0P0ZBS5	Stx2-converting_phage	61.3	5.0e-145
WP_000747032.1|1153915_1155084_-|transposase	IS3-like element IS911 family transposase	transposase	Q716C2	Shigella_phage	100.0	1.8e-184
WP_000882657.1|1155366_1155579_-	type I toxin-antitoxin system Hok family toxin	NA	A0A0P0ZAX5	Stx2-converting_phage	90.0	4.0e-26
WP_029716636.1|1155749_1156415_-	epoxyqueuosine reductase QueH	NA	NA	NA	NA	NA
WP_171768512.1|1156583_1156940_-	hypothetical protein	NA	A0A2R2Z307	Escherichia_phage	97.5	1.1e-57
WP_001118167.1|1156997_1157420_-	DUF977 family protein	NA	A0A2I6TCA7	Escherichia_phage	76.6	5.9e-53
WP_000702036.1|1159042_1159465_-	hypothetical protein	NA	A0A0U2RXZ9	Escherichia_phage	93.6	3.8e-68
WP_000912291.1|1159448_1159676_-	transcriptional regulator	NA	NA	NA	NA	NA
WP_000787424.1|1159752_1160160_+	helix-turn-helix domain-containing protein	NA	I6PD69	Cronobacter_phage	49.6	1.7e-28
WP_001091985.1|1160362_1160518_+	DUF1391 family protein	NA	M4QQ57	Salicola_phage	53.2	5.2e-07
WP_001005968.1|1160519_1160723_+	hypothetical protein	NA	I6PDF6	Cronobacter_phage	82.5	1.0e-10
WP_094081542.1|1160964_1162193_-|transposase	IS3-like element IS2 family transposase	transposase	Q9ZXG3	Shigella_phage	99.0	2.9e-177
WP_000935590.1|1162740_1163589_+	Rha family phage regulatory protein	NA	A0A0P0ZE80	Stx2-converting_phage	57.0	9.7e-55
WP_151101417.1|1164102_1165258_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	5.2e-67
WP_094081550.1|1166271_1167428_-|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	8.9e-67
WP_005061679.1|1167493_1168111_+	DUF4376 domain-containing protein	NA	A0A0U2QQK4	Escherichia_phage	76.5	5.7e-81
WP_001039888.1|1168110_1168290_+	hypothetical protein	NA	NA	NA	NA	NA
WP_005061694.1|1170606_1170738_+	hypothetical protein	NA	A0A0C4UR34	Shigella_phage	86.7	2.6e-07
WP_000815445.1|1170997_1171993_+	6-phosphogluconolactonase	NA	NA	NA	NA	NA
WP_000723652.1|1173170_1174223_+	4-oxalomesaconate tautomerase	NA	NA	NA	NA	NA
WP_001036463.1|1174298_1175732_+	anion permease	NA	NA	NA	NA	NA
WP_000593940.1|1175914_1178095_+	hydratase	NA	NA	NA	NA	NA
WP_001091542.1|1178235_1179519_-	putative acyl-CoA thioester hydrolase	NA	NA	NA	NA	NA
WP_024219169.1|1179653_1180535_-|integrase	tyrosine-type recombinase/integrase	integrase	K7P6P6	Enterobacteria_phage	99.7	7.2e-162
WP_094081550.1|1180635_1181792_-|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	8.9e-67
WP_000111043.1|1182200_1182941_-	pyruvate formate lyase 1-activating protein	NA	A0A2P0VNQ0	Tetraselmis_virus	26.5	8.0e-21
WP_001292813.1|1183132_1185415_-	formate C-acetyltransferase	NA	A0A2P0VNR5	Tetraselmis_virus	41.2	4.9e-162
WP_000642544.1|1185469_1186327_-	formate transporter FocA	NA	NA	NA	NA	NA
WP_005051051.1|1186733_1188494_-	YcaO-like family protein	NA	NA	NA	NA	NA
WP_000057149.1|1189448_1190537_+	3-phosphoserine/phosphohydroxythreonine transaminase	NA	M1Q1P2	Streptococcus_phage	46.8	3.5e-81
WP_000445222.1|1190607_1191891_+	3-phosphoshikimate 1-carboxyvinyltransferase	NA	NA	NA	NA	NA
WP_000483772.1|1192016_1193363_+|transposase	IS4 family transposase	transposase	NA	NA	NA	NA
WP_001295345.1|1193498_1194263_+	metallopeptidase YcaL	NA	NA	NA	NA	NA
WP_000125013.1|1194435_1195119_+	(d)CMP kinase	NA	NA	NA	NA	NA
WP_000140327.1|1195229_1196903_+	30S ribosomal protein S1	NA	NA	NA	NA	NA
WP_000167336.1|1197062_1197347_+	integration host factor subunit beta	NA	A7KV42	Bacillus_phage	40.2	3.2e-10
WP_000551266.1|1199849_1201598_+	lipid A ABC transporter ATP-binding protein/permease MsbA	NA	W8CYL7	Bacillus_phage	29.8	3.3e-57
WP_000570543.1|1201594_1202581_+	tetraacyldisaccharide 4'-kinase	NA	NA	NA	NA	NA
WP_000056529.1|1202617_1203850_+	winged helix-turn-helix domain-containing protein	NA	NA	NA	NA	NA
WP_000350058.1|1203901_1204084_+	protein YcaR	NA	NA	NA	NA	NA
WP_000011599.1|1204080_1204827_+	3-deoxy-manno-octulosonate cytidylyltransferase	NA	NA	NA	NA	NA
WP_000436922.1|1204980_1205874_+	YcbJ family phosphotransferase	NA	NA	NA	NA	NA
WP_000899599.1|1205850_1206630_-	envelope biogenesis factor ElyC	NA	NA	NA	NA	NA
WP_005047510.1|1206765_1207551_+|tRNA	tRNA uridine 5-oxyacetic acid(34) methyltransferase CmoM	tRNA	NA	NA	NA	NA
WP_001288850.1|1207547_1208870_+	chromosome partition protein MukF	NA	NA	NA	NA	NA
WP_001295931.1|1208850_1209555_+	chromosome partition protein MukE	NA	NA	NA	NA	NA
WP_000572706.1|1209554_1214015_+	chromosome partition protein MukB	NA	NA	NA	NA	NA
WP_005083739.1|1214159_1215506_+|transposase	IS4 family transposase	transposase	NA	NA	NA	NA
WP_000925982.1|1215713_1217561_+	L,D-transpeptidase	NA	NA	NA	NA	NA
WP_001295932.1|1217741_1218290_+	YcbK family protein	NA	A0A0K1LKR7	Rhodobacter_phage	33.7	7.0e-06
WP_001109487.1|1218316_1218964_+	hydroxyacylglutathione hydrolase GloC	NA	NA	NA	NA	NA
WP_000462669.1|1219186_1220377_-	aspartate transaminase	NA	NA	NA	NA	NA
WP_000977934.1|1220561_1221650_-	porin OmpF	NA	Q1MVN1	Enterobacteria_phage	54.3	1.8e-98
WP_000117881.1|1222250_1223651_-|tRNA	asparagine--tRNA ligase	tRNA	A0A2K9V902	Bandra_megavirus	36.1	5.3e-82
WP_001297200.1|1223819_1225022_-	nicotinate phosphoribosyltransferase	NA	NA	NA	NA	NA
WP_000193826.1|1225287_1227903_+	aminopeptidase N	NA	A0A0P0IY26	Acinetobacter_phage	22.6	4.1e-19
WP_001090476.1|1228109_1228877_-	aliphatic sulfonates ABC transporter ATP-binding protein	NA	G3M9Y6	Bacillus_virus	36.6	4.1e-28
WP_088895425.1|1229501_1230730_-|transposase	IS3-like element IS2 family transposase	transposase	Q9ZXG3	Shigella_phage	99.3	1.3e-177
1229491:1230821	attR	TGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGATGTAGTCACGCTTTATCGTTTTCACGAAGCTCTCTGCTATTCCGTTACTCTCCGGACTCCGCACCGCCGTGTTCTTCGGTTCAAGTCCCAACATCCGGGCGAACTGGCGTGTTTCATTAGCCCGGTAGCATGAACCATTATCCGTCAGCCACTCCACTGGAGACGACGGAAGATCGTTGCCGAAGCGGCGTTCCACCGCTCCCAGCATGACGTCCTGTACTGTTTCACTGTTGAAGCCGCCGGTAGTCACCGCCCAGTGCAGTGCCTCACGATCACAGCAGTCCAGCGCGAACGTGACACGCAGTCTCTCTCCGTTATCACAGCAGAACTCGAACCCGTCAGAGCACCATCGCTGATTGCTTTCTTTCACGGCTACTCTGCCTGTATGTGCCCGTTTCGATGGCGGTACAGCAGGTTTTCGCTCAAGCAACAGCGCATTCTGGCGCATGATCCGGTAAACACGTTTGGCATTGATCGCAGGCATACCATCAAGTTCTGCCTGTCTGCGAAGCAGCGCCCATACCCGACGATAACCATACGTGGGCAGCTCTCCGATAACATGGTGTATACGGAGAAGCACATCCGTATCATCAGTGTGACGACTGCGGCGGCCATCCATCCAGTCATCGGTTCGTCTGAGAATGACGTGCAACTGCGCACGCGACACCCGGAGACAACGGCTGACTAAGCTTACTCCCCATCCCCGGGCAATAAGGGCGCGTGCGCTATCCACTTTTTTGCCCGTCCATATTCAACGGCTTCTTTGAGGAGTTCATTTTCCATCGTTTTCTTGCCGAGCAGGCGCTGGAGTTCTTTAATCTGCTTCATGGCGGCAGCAAGTTCAGAGGCAGGAACAACCTGTTCTCCGGCGGCCACAGCAGTAAGACTTCCTTCCTGGTATTGCTTACGCCAGAGAAATAACTGGCTGGCTGCTACACCATGTTGCCGGGCAACGAGGGAGACCGTCATCCCCGGTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTAAATAAGTGATACTGGTTGTCTGGAGATTCAGGGGGCCAGTCTA	NA	NA	NA	NA
>prophage 6
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	1268079	1398525	4646629	transposase,protease,holin,integrase	Shigella_phage(16.13%)	111	1297969:1297984	1354842:1355611
WP_000375134.1|1268079_1268739_-|protease	FtsH protease modulator YccA	protease	A0A2H4JFM9	uncultured_Caudovirales_phage	54.9	5.2e-48
WP_001058323.1|1269458_1270577_+	hydrogenase 1 small subunit	NA	NA	NA	NA	NA
WP_000107384.1|1270573_1272367_+	Ni/Fe-hydrogenase large subunit	NA	NA	NA	NA	NA
WP_001186413.1|1272385_1273093_+	Ni/Fe-hydrogenase b-type cytochrome subunit	NA	NA	NA	NA	NA
WP_000003095.1|1273089_1273677_+|protease	hydrogenase 1 maturation protease	protease	NA	NA	NA	NA
WP_000063973.1|1273673_1274072_+	hydrogenase-1 operon protein HyaE	NA	NA	NA	NA	NA
WP_000004909.1|1274068_1274926_+	hydrogenase expression/formation protein	NA	NA	NA	NA	NA
WP_000263563.1|1275059_1276604_+	cytochrome bd-II oxidase subunit 1	NA	NA	NA	NA	NA
WP_000460794.1|1276615_1277752_+	cytochrome d ubiquinol oxidase subunit II	NA	NA	NA	NA	NA
WP_000270305.1|1277763_1277856_+	cytochrome bd-II oxidase subunit CbdX	NA	NA	NA	NA	NA
WP_005047441.1|1277935_1279234_+	bifunctional acid phosphatase/4-phytase	NA	NA	NA	NA	NA
WP_000057872.1|1281534_1281981_-	protein-tyrosine-phosphatase Etp	NA	NA	NA	NA	NA
WP_001295357.1|1281968_1283108_-	polysaccharide export protein	NA	NA	NA	NA	NA
WP_000742319.1|1283153_1285250_-	YjbH domain-containing protein	NA	NA	NA	NA	NA
WP_001038092.1|1285249_1285996_-	capsule biosynthesis GfcC family protein	NA	NA	NA	NA	NA
WP_001247604.1|1285992_1286637_-	YjbF family lipoprotein	NA	NA	NA	NA	NA
WP_005083611.1|1286743_1287049_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000087763.1|1287490_1287703_-	cold shock-like protein CspH	NA	NA	NA	NA	NA
WP_024259211.1|1288764_1288977_+	cold shock protein CspG	NA	A0A1W6JNX5	Morganella_phage	70.0	1.7e-21
WP_071524879.1|1288987_1289176_+	cold-shock protein	NA	NA	NA	NA	NA
WP_011069319.1|1289150_1289381_+	protein YmcE	NA	NA	NA	NA	NA
WP_001019194.1|1289370_1289544_+	addiction module toxin, GnsA/GnsB family	NA	NA	NA	NA	NA
WP_000818447.1|1289592_1290666_-	4Fe-4S binding protein	NA	NA	NA	NA	NA
WP_001264948.1|1293561_1294590_+	TMAO reductase system periplasmic protein TorT	NA	NA	NA	NA	NA
WP_001120136.1|1294562_1295255_-	two-component system response regulator TorR	NA	W8CYM9	Bacillus_phage	28.0	1.0e-17
WP_005047427.1|1295341_1296514_+	pentaheme c-type cytochrome TorC	NA	NA	NA	NA	NA
1297969:1297984	attL	TCCATCGCCATCAGCA	NA	NA	NA	NA
WP_000539781.1|1298264_1299053_+	trimethylamine-N-oxide reductase	NA	A0A077SK27	Escherichia_phage	36.3	4.0e-18
1297969:1297984	attL	TCCATCGCCATCAGCA	NA	NA	NA	NA
WP_000024560.1|1300518_1300824_-	chaperone modulator CbpM	NA	NA	NA	NA	NA
WP_000420619.1|1300823_1301744_-	curved DNA-binding protein	NA	A0A1V0SIM1	Klosneuvirus	43.0	4.2e-11
WP_000535353.1|1302004_1303261_+	YccE family protein	NA	NA	NA	NA	NA
WP_001044290.1|1303553_1304795_+	bifunctional glucose-1-phosphatase/inositol phosphatase	NA	NA	NA	NA	NA
WP_001143120.1|1304832_1305060_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001151437.1|1305080_1305677_-	NAD(P)H:quinone oxidoreductase	NA	NA	NA	NA	NA
WP_001273654.1|1306049_1306157_+	hypothetical protein	NA	Q9KX95	Enterobacteria_phage	100.0	3.4e-10
WP_005047413.1|1306238_1307567_-	pyrimidine utilization transport protein G	NA	Q9KX94	Enterobacteria_phage	98.4	3.4e-232
WP_001028096.1|1307587_1308082_-	pyrimidine utilization flavin reductase protein F	NA	Q9KX93	Enterobacteria_phage	96.9	1.1e-50
WP_001001165.1|1308092_1308683_-	malonic semialdehyde reductase	NA	NA	NA	NA	NA
WP_000777662.1|1308692_1309493_-	pyrimidine utilization protein D	NA	NA	NA	NA	NA
WP_001126782.1|1309500_1309887_-	pyrimidine utilization protein C	NA	NA	NA	NA	NA
WP_005047409.1|1309898_1310591_-	peroxyureidoacrylate/ureidoacrylate amidohydrolase RutB	NA	NA	NA	NA	NA
WP_005047407.1|1310590_1311682_-	pyrimidine utilization protein A	NA	NA	NA	NA	NA
WP_000191701.1|1311969_1312608_+	HTH-type transcriptional regulator RutR	NA	NA	NA	NA	NA
WP_000937574.1|1312901_1314089_-|transposase	IS91 family transposase	transposase	NA	NA	NA	NA
WP_000124119.1|1314088_1314454_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000154398.1|1315274_1316402_+	iron uptake system protein EfeO	NA	NA	NA	NA	NA
WP_001199452.1|1316407_1317673_+	deferrochelatase/peroxidase EfeB	NA	NA	NA	NA	NA
WP_005047400.1|1318279_1319068_+	phosphate starvation-inducible protein PhoH	NA	R4II13	Cronobacter_phage	75.7	8.6e-90
WP_085947598.1|1319177_1320340_-|transposase	IS3-like element IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	40.6	4.0e-51
WP_000611853.1|1320930_1321917_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000279879.1|1322283_1323501_+|integrase	tyrosine-type recombinase/integrase	integrase	A0A1B0VMI6	Pseudomonas_phage	34.4	1.7e-44
WP_005067490.1|1323670_1325200_-	DUF3987 domain-containing protein	NA	NA	NA	NA	NA
WP_000070931.1|1325171_1325459_-	AlpA family transcriptional regulator	NA	NA	NA	NA	NA
WP_005086346.1|1326938_1327889_+	virulence factor VirK	NA	NA	NA	NA	NA
WP_001411475.1|1327953_1328898_+	lauroyl-Kdo(2)-lipid IV(A) myristoyltransferase	NA	NA	NA	NA	NA
WP_000088357.1|1329078_1330218_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	45.1	3.5e-68
WP_001293435.1|1330371_1332369_+|holin	choline BCCT transporter BetT	holin	A0A2I7QNT1	Vibrio_phage	25.9	7.4e-21
WP_000625669.1|1332431_1333709_+	DUF2254 domain-containing protein	NA	NA	NA	NA	NA
WP_085949416.1|1333988_1335151_-|transposase	IS3-like element IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	40.2	2.0e-50
WP_000145481.1|1335217_1335436_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA	NA
WP_049828170.1|1335486_1335876_-	ATP-binding protein	NA	A0A2L1IVB6	Escherichia_phage	99.2	1.9e-61
WP_001189111.1|1337366_1338875_+	group II intron reverse transcriptase/maturase	NA	A0A0U4J920	Pseudomonas_phage	31.8	3.6e-44
1337695:1337710	attR	TGCTGATGGCGATGGA	NA	NA	NA	NA
WP_042196155.1|1340612_1340819_-	helicase	NA	NA	NA	NA	NA
1337695:1337710	attR	TGCTGATGGCGATGGA	NA	NA	NA	NA
WP_000282110.1|1340925_1341489_-	inovirus-type Gp2 protein	NA	NA	NA	NA	NA
WP_106377805.1|1342863_1343628_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000412211.1|1345581_1346241_+	type A-1 chloramphenicol O-acetyltransferase	NA	G3CFL0	Escherichia_phage	100.0	8.4e-131
WP_000656305.1|1346441_1346819_-	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
WP_001138064.1|1346885_1349852_-|transposase	Tn3-like element TnAs3 family transposase	transposase	A0A1B0V7H9	Salmonella_phage	73.6	0.0e+00
WP_000147567.1|1349854_1350415_-	recombinase family protein	NA	A0A1B0V7I5	Salmonella_phage	86.2	4.0e-49
WP_000454193.1|1350540_1350891_-	DUF3330 domain-containing protein	NA	NA	NA	NA	NA
WP_000845048.1|1351093_1352107_-|integrase	class 1 integron integrase IntI1	integrase	A0A1P8DJJ6	Virus_Rctr41k	45.5	1.0e-71
WP_001334766.1|1352316_1353147_+	oxacillin-hydrolyzing class D beta-lactamase OXA-1	NA	NA	NA	NA	NA
WP_001209508.1|1353259_1354051_+	ANT(3'')-Ia family aminoglycoside nucleotidyltransferase AadA1	NA	NA	NA	NA	NA
WP_071843944.1|1354893_1355289_+	ArsR family transcriptional regulator	NA	NA	NA	NA	NA
WP_000088605.1|1355266_1355890_-	tetracycline resistance transcriptional repressor TetR(B)	NA	NA	NA	NA	NA
WP_001089068.1|1355971_1357177_+	tetracycline efflux MFS transporter Tet(B)	NA	A0A2H4UVM2	Bodo_saltans_virus	24.4	3.0e-09
WP_000428546.1|1357289_1357883_-	tetracyline resistance-associated transcriptional repressor TetC	NA	NA	NA	NA	NA
WP_077515298.1|1359139_1359589_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000088744.1|1359708_1359882_+	DUF905 family protein	NA	NA	NA	NA	NA
WP_001234584.1|1359981_1360803_+	DUF945 domain-containing protein	NA	A0A2C9CX26	Yersinia_phage	38.3	7.2e-47
WP_005011597.1|1361144_1361618_+	antirestriction protein	NA	A9J566	Pseudomonas_phage	30.5	1.9e-12
WP_005011624.1|1361633_1362110_+	RadC family protein	NA	NA	NA	NA	NA
WP_001220314.1|1362172_1362394_+	DUF987 domain-containing protein	NA	A0A142F0X9	Klebsiella_phage	44.4	3.2e-10
WP_001280958.1|1362556_1362931_+	type IV toxin-antitoxin system YeeU family antitoxin	NA	NA	NA	NA	NA
WP_000854917.1|1362977_1363352_+	toxin	NA	NA	NA	NA	NA
WP_000976828.1|1363348_1363840_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000839282.1|1363851_1364049_+	DUF957 domain-containing protein	NA	NA	NA	NA	NA
WP_001179707.1|1364765_1365770_+|transposase	IS110-like element ISSfl8 family transposase	transposase	NA	NA	NA	NA
WP_000283673.1|1367797_1368535_+	zinc-binding phosphatase	NA	NA	NA	NA	NA
WP_001001915.1|1368558_1369113_+	molecular chaperone YcdY	NA	NA	NA	NA	NA
WP_001297187.1|1369214_1369706_+	DUF1097 domain-containing protein	NA	NA	NA	NA	NA
WP_001264088.1|1370571_1370988_-	curli production assembly/transport protein CsgF	NA	NA	NA	NA	NA
WP_000833291.1|1371012_1371402_-	curli production assembly/transport protein CsgE	NA	NA	NA	NA	NA
WP_000481500.1|1371406_1372057_-	transcriptional regulator CsgD	NA	NA	NA	NA	NA
WP_005047380.1|1372810_1373266_+	curlin minor subunit CsgB	NA	NA	NA	NA	NA
WP_001144017.1|1374541_1374907_+	curlin major subunit CsgA	NA	NA	NA	NA	NA
WP_024259219.1|1374965_1375184_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000747032.1|1375118_1376287_-|transposase	IS3-like element IS911 family transposase	transposase	Q716C2	Shigella_phage	100.0	1.8e-184
WP_000747032.1|1376759_1377928_-|transposase	IS3-like element IS911 family transposase	transposase	Q716C2	Shigella_phage	100.0	1.8e-184
WP_151101419.1|1377982_1378234_+	fimbrial protein	NA	NA	NA	NA	NA
WP_000857408.1|1378328_1378862_+	O-acetyl-ADP-ribose deacetylase	NA	Q71G61	Red_sea_bream_iridovirus	40.2	7.8e-26
WP_011069326.1|1378803_1380285_+	cardiolipin synthase ClsC	NA	NA	NA	NA	NA
WP_096851583.1|1380292_1381450_-	glucans biosynthesis protein MdoC	NA	NA	NA	NA	NA
WP_011069327.1|1381843_1383379_+	glucans biosynthesis protein MdoG	NA	NA	NA	NA	NA
WP_001295445.1|1383371_1385915_+	glucans biosynthesis glucosyltransferase MdoH	NA	NA	NA	NA	NA
WP_000937574.1|1386330_1387518_-|transposase	IS91 family transposase	transposase	NA	NA	NA	NA
WP_000124119.1|1387517_1387883_-	hypothetical protein	NA	NA	NA	NA	NA
WP_151101421.1|1388856_1390025_-|transposase	IS3 family transposase	transposase	Q716C2	Shigella_phage	99.7	4.0e-184
WP_000818776.1|1392192_1392438_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000747032.1|1392507_1393675_+|transposase	IS3-like element IS911 family transposase	transposase	Q716C2	Shigella_phage	100.0	1.8e-184
WP_088895425.1|1394248_1395476_+|transposase	IS3-like element IS2 family transposase	transposase	Q9ZXG3	Shigella_phage	99.3	1.3e-177
WP_094081550.1|1397369_1398525_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	8.9e-67
>prophage 7
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	1471325	1484427	4646629	terminase,protease,tail,head,portal,integrase	uncultured_Caudovirales_phage(90.0%)	19	1461604:1461618	1480295:1480309
1461604:1461618	attL	ACTGAATAACCGCAT	NA	NA	NA	NA
WP_000085257.1|1471325_1472555_+|integrase	site-specific integrase	integrase	A0A2H4JB45	uncultured_Caudovirales_phage	55.9	6.4e-132
WP_000953271.1|1472929_1473118_+	AlpA family transcriptional regulator	NA	A0A2H4JB58	uncultured_Caudovirales_phage	64.2	5.9e-13
WP_154074686.1|1473167_1473497_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000226783.1|1473930_1474131_+	host cell division inhibitor Icd-like protein	NA	NA	NA	NA	NA
WP_005005155.1|1474120_1474342_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001204964.1|1474556_1474790_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000770157.1|1474795_1475095_+	DUF4222 domain-containing protein	NA	NA	NA	NA	NA
WP_000761802.1|1475091_1476840_+	DNA primase	NA	Q7M2A8	Enterobacteria_phage	39.5	7.3e-89
WP_000557473.1|1477128_1477407_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001294167.1|1477403_1477709_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000126624.1|1477718_1477880_+	PerC family transcriptional regulator	NA	NA	NA	NA	NA
WP_000504054.1|1479380_1479953_+|head,protease	HK97 family phage prohead protease	head,protease	A0A2H4JB68	uncultured_Caudovirales_phage	63.5	1.6e-61
WP_000267599.1|1479954_1481166_+|portal	phage portal protein	portal	A0A2H4JFJ9	uncultured_Caudovirales_phage	78.5	3.1e-187
1480295:1480309	attR	ATGCGGTTATTCAGT	NA	NA	NA	NA
WP_001020662.1|1481162_1481501_+|head	phage head closure protein	head	A0A2H4JHK5	uncultured_Caudovirales_phage	52.7	1.7e-31
WP_000134107.1|1481497_1481794_+|head,tail	phage head-tail connector protein	head,tail	A0A2H4JD08	uncultured_Caudovirales_phage	62.2	2.2e-30
WP_001145905.1|1481793_1482234_+	HNH endonuclease	NA	A0A2H4JAS8	uncultured_Caudovirales_phage	72.6	2.5e-62
WP_000174068.1|1482217_1482400_+	hypothetical protein	NA	NA	NA	NA	NA
WP_029716858.1|1482455_1482782_+|terminase	phage terminase small subunit P27 family	terminase	A0A2H4JHS3	uncultured_Caudovirales_phage	79.6	9.2e-46
WP_000127901.1|1482765_1484427_+|terminase	terminase large subunit	terminase	A0A2H4JB64	uncultured_Caudovirales_phage	81.4	4.4e-277
>prophage 8
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	1680067	1699922	4646629	transposase,integrase	Escherichia_phage(60.0%)	19	1691330:1691389	1710390:1711157
WP_005084161.1|1680067_1681264_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
WP_000981715.1|1681639_1682560_-	alpha/beta hydrolase	NA	NA	NA	NA	NA
WP_000817713.1|1682697_1683180_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
WP_094081493.1|1683176_1684333_-|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	8.9e-67
WP_094081542.1|1684860_1686089_-|transposase	IS3-like element IS2 family transposase	transposase	Q9ZXG3	Shigella_phage	99.0	2.9e-177
WP_000788996.1|1686927_1687674_+	ATP-binding protein	NA	V5UQI5	Shigella_phage	89.2	2.1e-122
WP_001118168.1|1687688_1688111_+	DUF977 family protein	NA	A0A2I6TCA7	Escherichia_phage	75.9	1.1e-51
WP_005048249.1|1688168_1688525_+	hypothetical protein	NA	A0A2R2Z307	Escherichia_phage	97.5	5.1e-58
WP_001229297.1|1688836_1689202_+	HNH endonuclease	NA	A0A2R2Z2X9	Escherichia_phage	98.3	2.1e-67
WP_000208062.1|1689198_1689864_+	hypothetical protein	NA	A0A076G611	Escherichia_phage	44.9	6.1e-36
WP_000610655.1|1689863_1690229_+	DUF551 domain-containing protein	NA	Q08J61	Stx2-converting_phage	53.7	6.1e-30
WP_000018421.1|1690626_1690839_+	type I toxin-antitoxin system Hok family toxin	NA	A0A0U2QV81	Escherichia_phage	92.9	8.1e-27
1691330:1691389	attL	GGTAATGACTCCAACTTACTGATAGTGTTTTATGTTCAGATAATGCCCGATGACCTTGTC	NA	NA	NA	NA
WP_000940329.1|1692175_1692775_+	DUF1367 family protein	NA	A0A0U2RT94	Escherichia_phage	94.5	1.4e-108
WP_000228038.1|1692774_1693065_+	DUF1364 domain-containing protein	NA	A0A0U2KD41	Escherichia_phage	89.6	3.3e-47
WP_005049799.1|1693755_1693941_+	hypothetical protein	NA	A0A291AWU3	Escherichia_phage	63.4	1.5e-05
WP_000088354.1|1694002_1695142_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	8.7e-67
WP_045178261.1|1695188_1695695_+	ORF6N domain-containing protein	NA	A0A0N7C203	Escherichia_phage	73.2	1.9e-42
WP_000615491.1|1696328_1697933_+|integrase	site-specific integrase	integrase	NA	NA	NA	NA
WP_000747032.1|1698754_1699922_+|transposase	IS3-like element IS911 family transposase	transposase	Q716C2	Shigella_phage	100.0	1.8e-184
1710390:1711157	attR	GACAAGGTCATCGGGCATTATCTGAACATAAAACACTATCAGTAAGTTGGAGTCATTACCCACCGGAACTGATTTGATGAACTATCAACGCTCTTAAATTCCCGGCCTTTTTAATGTTACTGTTAGTAATCTCCCAGCCTTTCAATGTTTCCCGACATCGTTTTCCTCGAAACATGAACCAGATGCGAATGTATTTACCTCGAATCTCGACACCTGTTGGTAATTTAGACATATCATGAGTCTTTGATAAACTGATTTATCTTCGGATAGTTGTACCAGATAATCCCTCGCTTACTGTCTGGCTTCCCTAAAGGAGATACTCGTTTGAAGTGGAAGCCTTCCACCCAACAGTTCTGGCGGTATGCTTCAATTTGTCTGGCACCCAGACCAGTGCGAAGCATCAGGCTGAACCGCCCCGGGTTTCCTGGAGAGTGTTTTATCTGTGAACTCAGGCTGCCAGATCATCGTTTCCGATGGAAGCATAATAAGCTTTTTCTGCTTCTGCCGGAGGGATGTGGCCCAGCCTTTCCAGCAATCGTCGATTGTTATACCAGTCCACCCACGTTAGTGTGGCCAGTTCCACTTCTGCACGGTTTTTCCAGCTCTTACGGTGTATTACCTCCGCTTTGTAAAGACCATTGATGCTCTCCGCCATCGCGTTGTCATACGAGTCGCCTGTACTTCCTGTTGATGCCAGTAATCCGGCTTCCTTAAGCCGCTGTGTGTAGGCCAGCGATACATACTGAGAACCTTTATCACTGTGATGGA	NA	NA	NA	NA
>prophage 9
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	1703117	1759471	4646629	tail,protease,tRNA,transposase,integrase	Escherichia_phage(38.89%)	48	1691330:1691389	1710390:1711157
1691330:1691389	attL	GGTAATGACTCCAACTTACTGATAGTGTTTTATGTTCAGATAATGCCCGATGACCTTGTC	NA	NA	NA	NA
WP_005098694.1|1703117_1704386_+|tail	prophage tail fiber N-terminal domain-containing protein	tail	Q8W611	Enterobacteria_phage	43.0	2.2e-74
WP_000930141.1|1704336_1704960_+	DUF4376 domain-containing protein	NA	A0A0U2QQK4	Escherichia_phage	78.6	5.8e-81
WP_000968134.1|1705160_1706018_-	iron/manganese ABC transporter permease subunit SitD	NA	NA	NA	NA	NA
WP_001101728.1|1706014_1706872_-	iron/manganese ABC transporter permease subunit SitC	NA	NA	NA	NA	NA
WP_000983722.1|1706868_1707696_-	iron/manganese ABC transporter ATP-binding protein SitB	NA	G9BWD6	Planktothrix_phage	28.5	3.8e-11
WP_000555620.1|1707695_1708610_-	iron/manganese ABC transporter substrate-binding protein SitA	NA	NA	NA	NA	NA
WP_000443254.1|1709041_1709647_-|integrase	site-specific integrase	integrase	A0A0U2JGI6	Escherichia_phage	98.0	7.3e-113
WP_005049823.1|1710622_1710790_-	excisionase family protein	NA	A0A0U2RY08	Escherichia_phage	100.0	1.3e-27
WP_001173294.1|1712121_1713219_-	AAA family ATPase	NA	I6PCV5	Cronobacter_phage	83.8	1.3e-181
1710390:1711157	attR	GACAAGGTCATCGGGCATTATCTGAACATAAAACACTATCAGTAAGTTGGAGTCATTACCCACCGGAACTGATTTGATGAACTATCAACGCTCTTAAATTCCCGGCCTTTTTAATGTTACTGTTAGTAATCTCCCAGCCTTTCAATGTTTCCCGACATCGTTTTCCTCGAAACATGAACCAGATGCGAATGTATTTACCTCGAATCTCGACACCTGTTGGTAATTTAGACATATCATGAGTCTTTGATAAACTGATTTATCTTCGGATAGTTGTACCAGATAATCCCTCGCTTACTGTCTGGCTTCCCTAAAGGAGATACTCGTTTGAAGTGGAAGCCTTCCACCCAACAGTTCTGGCGGTATGCTTCAATTTGTCTGGCACCCAGACCAGTGCGAAGCATCAGGCTGAACCGCCCCGGGTTTCCTGGAGAGTGTTTTATCTGTGAACTCAGGCTGCCAGATCATCGTTTCCGATGGAAGCATAATAAGCTTTTTCTGCTTCTGCCGGAGGGATGTGGCCCAGCCTTTCCAGCAATCGTCGATTGTTATACCAGTCCACCCACGTTAGTGTGGCCAGTTCCACTTCTGCACGGTTTTTCCAGCTCTTACGGTGTATTACCTCCGCTTTGTAAAGACCATTGATGCTCTCCGCCATCGCGTTGTCATACGAGTCGCCTGTACTTCCTGTTGATGCCAGTAATCCGGCTTCCTTAAGCCGCTGTGTGTAGGCCAGCGATACATACTGAGAACCTTTATCACTGTGATGGA	NA	NA	NA	NA
WP_005135630.1|1713224_1713485_-	host-nuclease inhibitor protein Gam	NA	A0A1I9LJN1	Stx_converting_phage	88.1	2.8e-37
WP_151101426.1|1713583_1714739_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	1.3e-65
WP_005049830.1|1716311_1716587_-	hypothetical protein	NA	A0A0U2QW85	Escherichia_phage	93.4	4.4e-41
WP_000245528.1|1716661_1716838_-	hypothetical protein	NA	A0A0U2SHB5	Escherichia_phage	93.1	9.7e-26
WP_000560210.1|1716831_1717053_-	cell division protein FtsZ	NA	A0A0U2RTC4	Escherichia_phage	95.9	9.0e-37
WP_151101428.1|1717129_1718403_-|transposase	IS3 family transposase	transposase	Q9ZXG3	Shigella_phage	98.3	9.8e-176
WP_000930142.1|1721011_1721635_+	DUF4376 domain-containing protein	NA	A0A0U2QQK4	Escherichia_phage	75.9	2.7e-78
WP_001039888.1|1721634_1721814_+	hypothetical protein	NA	NA	NA	NA	NA
WP_128568580.1|1721814_1723530_-	T3SS effector E3 ubiquitin-protein ligase IpaH3	NA	NA	NA	NA	NA
WP_094081545.1|1725559_1726715_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.4	4.4e-66
WP_005049838.1|1726972_1727164_-	YebW family protein	NA	NA	NA	NA	NA
WP_001295499.1|1727268_1727505_-	DUF1480 family protein	NA	NA	NA	NA	NA
WP_001207280.1|1731730_1733014_-	membrane integrity lipid transport subunit YebS	NA	NA	NA	NA	NA
WP_001043881.1|1733143_1733641_+	L-methionine (R)-S-oxide reductase	NA	NA	NA	NA	NA
WP_000431370.1|1733737_1734436_+	RNA chaperone ProQ	NA	NA	NA	NA	NA
WP_001055799.1|1734455_1736504_+	carboxy terminal-processing peptidase	NA	A0A0R6PIZ1	Moraxella_phage	33.5	1.2e-85
WP_000984517.1|1736695_1737577_+|protease	protease HtpX	protease	NA	NA	NA	NA
WP_001127218.1|1737622_1738996_-	MFS transporter	NA	NA	NA	NA	NA
WP_001262181.1|1739172_1739964_+	DNA-binding transcriptional regulator KdgR	NA	NA	NA	NA	NA
WP_001211010.1|1740106_1740346_-	membrane protein	NA	NA	NA	NA	NA
WP_000714550.1|1740504_1740648_+	PhoP/PhoQ regulator MgrB	NA	NA	NA	NA	NA
WP_001006860.1|1740722_1741010_+	YebO family protein	NA	NA	NA	NA	NA
WP_001295496.1|1741680_1741824_+	YobF family protein	NA	NA	NA	NA	NA
WP_001062678.1|1741836_1742046_+	transcription antiterminator/RNA stability regulator CspE	NA	A0A1W6JNX5	Morganella_phage	78.1	1.6e-22
WP_000010128.1|1742211_1743021_+	23S rRNA (guanine(745)-N(1))-methyltransferase	NA	NA	NA	NA	NA
WP_001668667.1|1743017_1743584_-	manganese efflux pump MntP	NA	NA	NA	NA	NA
WP_000156246.1|1744772_1745249_-	DUF986 domain-containing protein	NA	NA	NA	NA	NA
WP_001331209.1|1745303_1746155_-	PTS mannose transporter subunit IID	NA	NA	NA	NA	NA
WP_000406926.1|1746167_1746968_-	PTS mannose transporter subunit IIC	NA	NA	NA	NA	NA
WP_000150543.1|1747030_1748002_-	PTS mannose transporter subunit IIAB	NA	NA	NA	NA	NA
WP_005049862.1|1750017_1751616_-	cyclic diguanylate phosphodiesterase	NA	NA	NA	NA	NA
WP_000624314.1|1751746_1753111_-	L-serine ammonia-lyase	NA	NA	NA	NA	NA
WP_000456710.1|1753294_1753873_-	CoA pyrophosphatase	NA	NA	NA	NA	NA
WP_000855039.1|1753876_1755238_-	aminodeoxychorismate synthase component 1	NA	S4VT78	Pandoravirus	41.7	6.4e-40
WP_000457325.1|1755311_1755491_+	YoaH family protein	NA	NA	NA	NA	NA
WP_001307845.1|1755610_1755970_-	DUF1889 family protein	NA	NA	NA	NA	NA
WP_001295493.1|1756331_1756676_-	RidA family protein	NA	NA	NA	NA	NA
WP_000128851.1|1756807_1758718_+	ATP-dependent DNA helicase	NA	A0A127AW80	Bacillus_phage	31.7	3.8e-91
WP_001220997.1|1758775_1759471_+|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex dimerization subunit type 1 TsaB	tRNA	NA	NA	NA	NA
>prophage 10
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	1877029	1887545	4646629	holin	Escherichia_phage(27.27%)	13	NA	NA
WP_000372594.1|1877029_1877209_-|holin	class II holin family protein	holin	A0A2R2Z340	Escherichia_phage	91.5	4.1e-24
WP_001323614.1|1877358_1877520_-	hypothetical protein	NA	Q08JA2	Stx2-converting_phage	91.3	5.4e-15
WP_000874243.1|1877516_1877705_-	DUF1737 domain-containing protein	NA	H6WZJ9	Escherichia_phage	95.2	7.2e-27
WP_000871291.1|1877964_1878300_+	anti-adapter protein IraM	NA	Q8HAJ1	Enterobacteria_phage	74.8	5.2e-44
WP_000762882.1|1879609_1880431_-	antitermination protein	NA	K7P7B9	Enterobacteria_phage	58.6	6.1e-78
WP_151101433.1|1880453_1880801_-	RusA family crossover junction endodeoxyribonuclease	NA	V5URS4	Shigella_phage	61.3	8.6e-34
WP_001265249.1|1880813_1881863_-	DUF968 domain-containing protein	NA	U5P0K4	Shigella_phage	54.3	3.2e-108
WP_000980987.1|1882209_1882461_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000813254.1|1882678_1882834_-	type I toxin-antitoxin system toxin HokD	NA	A0A0U2QV81	Escherichia_phage	96.1	1.5e-17
WP_000323025.1|1882905_1883193_-	type II toxin-antitoxin system mRNA interferase RelE	NA	A0A2H4JBF4	uncultured_Caudovirales_phage	66.0	1.4e-29
WP_000534858.1|1883192_1883432_-	type II toxin-antitoxin system antitoxin RelB	NA	A0A2H4JBG1	uncultured_Caudovirales_phage	54.4	1.6e-18
WP_071818640.1|1883456_1883762_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000527804.1|1886084_1887545_+	mannitol dehydrogenase family protein	NA	H8ZJP8	Ostreococcus_tauri_virus	29.6	1.1e-42
>prophage 11
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	2101336	2265557	4646629	integrase,transposase,tail,tRNA	Enterobacteria_phage(28.0%)	126	2182489:2182548	2247556:2247986
WP_000937575.1|2101336_2102524_+|transposase	IS91 family transposase	transposase	NA	NA	NA	NA
WP_005050384.1|2102794_2103460_-	colanic acid/biofilm transcriptional regulator McbR	NA	NA	NA	NA	NA
WP_005050386.1|2103657_2104695_-	NADPH-dependent curcumin/dihydrocurcumin reductase	NA	NA	NA	NA	NA
WP_167550002.1|2104824_2106053_-|transposase	IS3-like element IS2 family transposase	transposase	Q9ZXG3	Shigella_phage	98.7	6.5e-177
WP_000027560.1|2106211_2106730_+	L-methionine sulfoximine/L-methionine sulfone acetyltransferase	NA	NA	NA	NA	NA
WP_001076516.1|2106726_2107176_+	DMT family transporter	NA	NA	NA	NA	NA
WP_000018633.1|2107176_2107410_-	YdcY family protein	NA	NA	NA	NA	NA
WP_032155959.1|2107495_2107669_-	orphan toxin OrtT	NA	NA	NA	NA	NA
WP_001303494.1|2107863_2107959_+	stress response membrane protein YncL	NA	NA	NA	NA	NA
WP_000867989.1|2108360_2109170_-	CatB-related O-acetyltransferase	NA	A0A2R8FE91	Brazilian_cedratvirus	41.0	5.9e-17
WP_001163923.1|2109379_2110804_-	aminobutyraldehyde dehydrogenase	NA	NA	NA	NA	NA
WP_000555458.1|2110825_2111620_-	ABC transporter permease	NA	NA	NA	NA	NA
WP_000937573.1|2112458_2113646_+|transposase	IS91 family transposase	transposase	NA	NA	NA	NA
WP_001260991.1|2115258_2115915_-	DUF3313 domain-containing protein	NA	NA	NA	NA	NA
WP_000586723.1|2116217_2116811_-	tellurite resistance methyltransferase TehB	NA	NA	NA	NA	NA
WP_005047890.1|2116807_2117800_-	dicarboxylate transporter/tellurite-resistance protein TehA	NA	NA	NA	NA	NA
WP_001234071.1|2117923_2118904_+	acetyltransferase	NA	NA	NA	NA	NA
WP_000140890.1|2118898_2119435_-	50S ribosomal protein L7/L12-serine acetyltransferase	NA	NA	NA	NA	NA
WP_001296778.1|2119497_2119722_-	YdcH family protein	NA	NA	NA	NA	NA
WP_000375966.1|2119861_2121517_-	glucan biosynthesis protein OpgD	NA	NA	NA	NA	NA
WP_000013771.1|2121741_2123085_-	VOC family protein	NA	NA	NA	NA	NA
WP_000414573.1|2123301_2124225_+	LysR family transcriptional regulator	NA	NA	NA	NA	NA
WP_001098548.1|2124262_2125903_-	methyl-accepting chemotaxis protein Trg	NA	NA	NA	NA	NA
WP_094081542.1|2127524_2128753_-|transposase	IS3-like element IS2 family transposase	transposase	Q9ZXG3	Shigella_phage	99.0	2.9e-177
WP_094081541.1|2128819_2129976_-|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	8.0e-68
WP_023517637.1|2130350_2130500_+	type I toxin-antitoxin system toxin HokB	NA	NA	NA	NA	NA
WP_000731833.1|2130571_2130745_-	periplasmic protein	NA	A0A0R6PKG1	Moraxella_phage	67.4	4.4e-07
WP_000428998.1|2130989_2131520_-	cytochrome b561	NA	A0A0U2QLA7	Escherichia_phage	44.9	3.1e-19
WP_000115920.1|2132750_2134190_-	aldehyde dehydrogenase	NA	NA	NA	NA	NA
WP_000139508.1|2137589_2141492_-	ATP-dependent RNA helicase HrpA	NA	A0A1V0SIV3	Klosneuvirus	29.5	2.2e-53
WP_000048979.1|2141692_2142298_+	FMN-dependent NADH-azoreductase	NA	NA	NA	NA	NA
WP_094081540.1|2143060_2144216_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.4	3.0e-67
WP_094081518.1|2145089_2146246_-|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.4	2.0e-66
WP_000431884.1|2146302_2147943_-	alpha/beta fold hydrolase	NA	NA	NA	NA	NA
WP_105322328.1|2147958_2148843_-	phosphatidate cytidylyltransferase	NA	NA	NA	NA	NA
WP_000177546.1|2148853_2149459_-	CDP-alcohol phosphatidyltransferase family protein	NA	NA	NA	NA	NA
WP_000762218.1|2152992_2153982_-	D-lactate dehydrogenase	NA	M1I4S0	Paramecium_bursaria_Chlorella_virus	44.0	3.3e-70
WP_000900893.1|2154189_2156829_+	YdbH family protein	NA	NA	NA	NA	NA
WP_000698145.1|2156825_2157011_+	YnbE family lipoprotein	NA	NA	NA	NA	NA
WP_011069403.1|2157015_2157345_+	YdbL family protein	NA	NA	NA	NA	NA
WP_014532269.1|2158626_2158893_-	DUF333 domain-containing protein	NA	NA	NA	NA	NA
WP_000628265.1|2159166_2162691_+	pyruvate:ferredoxin (flavodoxin) oxidoreductase	NA	NA	NA	NA	NA
WP_001295593.1|2164327_2164762_+	universal stress protein UspF	NA	A0A1W6JNV4	Morganella_phage	52.8	1.4e-28
WP_000081423.1|2164937_2165873_+|tRNA	tRNA 2-thiocytidine(32) synthetase TtcA	tRNA	A0A0U2S5Z2	Escherichia_phage	97.3	3.2e-144
WP_000123730.1|2166001_2167369_-	ATP-dependent RNA helicase DbpA	NA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	33.1	6.2e-51
WP_000387377.1|2167846_2168830_-	zinc transporter ZntB	NA	NA	NA	NA	NA
WP_000957853.1|2173124_2173313_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000587200.1|2174684_2175332_-	HlyD family secretion protein	NA	NA	NA	NA	NA
WP_000156575.1|2175428_2176244_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA	NA
WP_000945011.1|2176787_2177303_+	methylated-DNA--[protein]-cysteine S-methyltransferase	NA	M1PFU9	Streptococcus_phage	42.8	1.1e-24
WP_000611911.1|2177497_2178250_+	fumarate/nitrate reduction transcriptional regulator Fnr	NA	NA	NA	NA	NA
WP_001262123.1|2178401_2179352_+	universal stress protein UspE	NA	NA	NA	NA	NA
WP_000124119.1|2180744_2181110_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000937574.1|2181109_2182297_+|transposase	IS91 family transposase	transposase	NA	NA	NA	NA
2182489:2182548	attL	CCCGAACACATGGCAGAGTGTGACCACAGGATAATGCGCTCTGAGTTTCCCGATTATCGA	NA	NA	NA	NA
WP_000559908.1|2182971_2184003_+	low conductance mechanosensitive channel YnaI	NA	NA	NA	NA	NA
WP_000683016.1|2184053_2185667_-	murein tripeptide ABC transporter substrate-binding protein MppA	NA	NA	NA	NA	NA
WP_005127484.1|2189102_2189384_+	excisionase	NA	A0A2H4J5E1	uncultured_Caudovirales_phage	42.4	9.8e-12
WP_001189099.1|2189349_2189742_+|integrase	phage integrase Arm DNA-binding domain-containing protein	integrase	A0A2H4IYC8	uncultured_Caudovirales_phage	54.8	2.0e-31
WP_000976476.1|2190819_2191161_-	YebY family protein	NA	NA	NA	NA	NA
WP_000168747.1|2192049_2192424_-	CopC domain-containing protein YobA	NA	NA	NA	NA	NA
WP_000916763.1|2192562_2192793_+	DNA polymerase III subunit theta	NA	H9C187	Pectobacterium_phage	61.8	1.3e-14
WP_000944268.1|2193574_2194237_+	exodeoxyribonuclease X	NA	Q6UAU3	Klebsiella_phage	41.6	3.5e-07
WP_000936980.1|2194233_2196294_-	oligopeptidase B	NA	NA	NA	NA	NA
WP_000024751.1|2196503_2197163_-	tellurite resistance TerB family protein	NA	NA	NA	NA	NA
WP_005047608.1|2197489_2197846_-	protein YebF	NA	NA	NA	NA	NA
WP_000173487.1|2198336_2199515_+	formate-dependent phosphoribosylglycinamide formyltransferase	NA	NA	NA	NA	NA
WP_000800512.1|2199570_2200212_-	bifunctional 4-hydroxy-2-oxoglutarate aldolase/2-dehydro-3-deoxy-phosphogluconate aldolase	NA	NA	NA	NA	NA
WP_001069479.1|2200248_2202060_-	phosphogluconate dehydratase	NA	NA	NA	NA	NA
WP_000301736.1|2202294_2203770_-	glucose-6-phosphate dehydrogenase	NA	H6WFS4	Cyanophage	37.3	9.9e-79
WP_001056694.1|2204106_2204976_+	DNA-binding transcriptional regulator HexR	NA	NA	NA	NA	NA
WP_000044417.1|2205103_2206546_+	pyruvate kinase	NA	NA	NA	NA	NA
WP_000448385.1|2206676_2207648_-	lauroyl-Kdo(2)-lipid IV(A) myristoyltransferase	NA	NA	NA	NA	NA
WP_001184045.1|2207767_2209090_-	murein DD-endopeptidase MepM	NA	A8ATH6	Listeria_phage	40.9	1.2e-14
WP_001342995.1|2209105_2210038_-	zinc ABC transporter substrate-binding protein ZnuA	NA	NA	NA	NA	NA
WP_000202992.1|2210116_2210872_+	zinc ABC transporter ATP-binding protein ZnuC	NA	G3M9Y6	Bacillus_virus	28.3	3.8e-18
WP_000571470.1|2210868_2211654_+	zinc ABC transporter permease subunit ZnuB	NA	NA	NA	NA	NA
WP_000568525.1|2211800_2212811_-	Holliday junction branch migration DNA helicase RuvB	NA	A0A127AWE7	Bacillus_phage	25.2	2.8e-08
WP_000580324.1|2212819_2213431_-	Holliday junction branch migration protein RuvA	NA	NA	NA	NA	NA
WP_001386853.1|2213569_2213635_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001024930.1|2213704_2214307_+	YebB family permuted papain-like enzyme	NA	NA	NA	NA	NA
WP_000974712.1|2214308_2214830_-	crossover junction endodeoxyribonuclease RuvC	NA	G3MA90	Bacillus_virus	35.1	2.0e-10
WP_000907248.1|2214864_2215605_-	YebC/PmpR family DNA-binding transcriptional regulator	NA	NA	NA	NA	NA
WP_001300367.1|2215633_2216086_-	dihydroneopterin triphosphate diphosphatase	NA	NA	NA	NA	NA
WP_001258670.1|2216203_2217976_-|tRNA	aspartate--tRNA ligase	tRNA	NA	NA	NA	NA
WP_000891627.1|2218285_2218540_+	isochorismatase family protein	NA	NA	NA	NA	NA
WP_005049126.1|2218731_2219928_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
WP_001210039.1|2220656_2220905_+	DinI-like family protein	NA	K7PLW4	Enterobacteria_phage	98.8	4.1e-38
WP_000938097.1|2221504_2223256_+	T3SS effector E3 ubiquitin-protein ligase IpaH2	NA	NA	NA	NA	NA
WP_001230368.1|2225485_2226085_-	Ail/Lom family outer membrane beta-barrel protein	NA	H6WZM8	Escherichia_phage	93.5	6.1e-104
WP_000515521.1|2226152_2229632_-	host specificity protein J	NA	A5LH43	Enterobacteria_phage	87.3	0.0e+00
WP_000090877.1|2229692_2230295_-|tail	tail assembly protein	tail	A5LH42	Enterobacteria_phage	85.6	8.1e-88
WP_000194740.1|2230231_2230975_-|tail	phage tail protein	tail	K7PLW1	Enterobacteria_phage	94.7	6.8e-145
WP_001152490.1|2230979_2231678_-|tail	phage minor tail protein L	tail	A0A0K2FJ01	Enterobacteria_phage	89.7	8.4e-121
WP_000447264.1|2231677_2232007_-|tail	phage tail protein	tail	A5LH39	Enterobacteria_phage	97.2	2.4e-57
WP_000371983.1|2232006_2235048_-|tail	phage tail tape measure protein	tail	A0A291AWX1	Escherichia_phage	86.5	0.0e+00
WP_001161004.1|2235019_2235349_-|tail	phage tail assembly protein T	tail	A5LH37	Enterobacteria_phage	99.1	1.3e-55
WP_000478927.1|2235357_2235744_-|tail	phage minor tail protein G	tail	A5LH36	Enterobacteria_phage	92.2	1.4e-61
WP_000211126.1|2235802_2236543_-	Ig-like domain-containing protein	NA	A5LH35	Enterobacteria_phage	96.7	1.5e-128
WP_001079407.1|2236553_2236955_-|tail	tail protein	tail	A0A291AWY2	Escherichia_phage	94.0	1.1e-69
WP_000677125.1|2236951_2237542_-|tail	phage tail protein	tail	A5LH33	Enterobacteria_phage	77.7	4.8e-77
WP_000753026.1|2237528_2237900_-|tail	tail attachment protein	tail	NA	NA	NA	NA
WP_001074423.1|2237911_2238313_-	DNA-packaging protein FI	NA	A0A2R9YJP4	Escherichia_phage	66.2	3.3e-37
WP_005049126.1|2238575_2239772_+|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
WP_001064885.1|2240956_2241646_-	antiterminator	NA	I6PDF8	Cronobacter_phage	49.4	2.9e-57
WP_001215517.1|2241642_2242002_-	RusA family crossover junction endodeoxyribonuclease	NA	V5URS4	Shigella_phage	66.1	8.3e-40
WP_000248820.1|2242001_2242139_-	hypothetical protein	NA	Q8W639	Enterobacteria_phage	100.0	1.9e-16
WP_000755956.1|2243859_2244687_+	hypothetical protein	NA	Q8W654	Enterobacteria_phage	94.5	2.3e-125
WP_001099210.1|2244730_2245480_+	ORF6N domain-containing protein	NA	A0A1B5FPC0	Escherichia_phage	96.0	1.7e-135
WP_000586688.1|2245476_2246046_+	hypothetical protein	NA	A0A088C4R7	Shewanella_sp._phage	39.4	6.8e-28
WP_000457719.1|2246169_2246412_+	DUF4222 domain-containing protein	NA	Q6H9Z8	Enterobacteria_phage	85.0	6.2e-31
WP_001030133.1|2246415_2246562_+	hypothetical protein	NA	A0A1B5FPC2	Escherichia_phage	95.8	1.4e-22
WP_000528720.1|2246570_2246768_+	excisionase family protein	NA	Q8W657	Enterobacteria_phage	98.2	3.7e-26
WP_000747032.1|2246742_2247911_-|transposase	IS3-like element IS911 family transposase	transposase	Q716C2	Shigella_phage	100.0	1.8e-184
WP_000905997.1|2248140_2248491_+	DUF72 domain-containing protein	NA	NA	NA	NA	NA
2247556:2247986	attR	CCCGAACACATGGCAGAGTGTGACCACAGGATAATGCGCTCTGAGTTTCCCGATTATCGAGAACTGTTCAGGGAGTCTGACATCAAGAGCGCGGTAGCCTTTTTTAATATTTCATTCTCCATTTCAATGCGTTGTAGCTTTTTCCTGAGCTCACGGATTTCAATTTGTTCCGGGGTAATGGGGGAGGCTTTTGGTGTTTTGCCCTGACGCTCATCACGCAGTTGTTTGACCCATCTTGTCATTGTGGAAAGGCCAACATCCATAGCTTTGGCGGCATCTGCCACCGTGTATTTCTGGTCAACAACCAGTTGAGCGGATTCGCGTTTAAACTCTGCGCTAAAATTTCTTTTTTTCATTGGAGCACCTGTGTTGTTCTGAGGTGAGCATATCACCTCTGTTCAGGTGGCCAAATTCAGTGTGCCACTTCACCC	NA	NA	NA	NA
WP_005048647.1|2248543_2248939_+	MAPEG family protein	NA	NA	NA	NA	NA
WP_000019588.1|2248979_2249723_+	carboxy-S-adenosyl-L-methionine synthase CmoA	NA	F5B419	Synechococcus_phage	30.0	4.6e-24
WP_000564755.1|2249719_2250691_+|tRNA	tRNA 5-methoxyuridine(34)/uridine 5-oxyacetic acid(34) synthase CmoB	tRNA	NA	NA	NA	NA
WP_001229400.1|2250855_2253285_-	trimethylamine N-oxide reductase TorZ	NA	NA	NA	NA	NA
WP_001214308.1|2253309_2254410_-	NapC/NirT family cytochrome c	NA	NA	NA	NA	NA
WP_001185741.1|2254797_2255544_-	copper homeostasis protein CutC	NA	NA	NA	NA	NA
WP_005048653.1|2255557_2256124_-	VOC family protein	NA	NA	NA	NA	NA
WP_001025297.1|2256339_2258073_+|tRNA	arginine--tRNA ligase	tRNA	A0A2K9L6Z2	Tupanvirus	33.7	6.8e-87
WP_005063152.1|2258249_2258738_+	lysozyme inhibitor LprI family protein	NA	NA	NA	NA	NA
WP_001259572.1|2260204_2260543_-	flagellar protein FlhE	NA	NA	NA	NA	NA
WP_000455174.1|2263995_2264454_+	HD domain-containing protein	NA	NA	NA	NA	NA
WP_000747032.1|2264388_2265557_-|transposase	IS3-like element IS911 family transposase	transposase	Q716C2	Shigella_phage	100.0	1.8e-184
>prophage 12
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	2335871	2400019	4646629	transposase,tail,holin,integrase	Stx2-converting_phage(23.33%)	50	2327248:2327261	2402879:2402892
2327248:2327261	attL	CTGACTGGTGGTTT	NA	NA	NA	NA
WP_094081536.1|2335871_2337019_-|transposase	IS3 family transposase	transposase	U5P429	Shigella_phage	92.2	1.5e-146
WP_111778310.1|2337857_2339086_-|transposase	IS3 family transposase	transposase	Q9ZXG3	Shigella_phage	96.7	9.8e-173
WP_000218218.1|2340729_2341581_+	protein deglycase HchA	NA	NA	NA	NA	NA
WP_000826714.1|2341688_2343047_-	two-component system sensor histidine kinase HprS	NA	NA	NA	NA	NA
WP_001347103.1|2343046_2343718_-	response regulator transcription factor HprR	NA	W8CYM9	Bacillus_phage	35.2	5.4e-32
WP_000920127.1|2343850_2344264_+	hydroxyisourate hydrolase	NA	NA	NA	NA	NA
WP_001240061.1|2345377_2346013_+	protein-methionine-sulfoxide reductase heme-binding subunit MsrQ	NA	NA	NA	NA	NA
WP_001007781.1|2346270_2346921_+	metal-binding protein ZinT	NA	NA	NA	NA	NA
WP_000937511.1|2347998_2348268_-|tail	tail fiber assembly protein	tail	K7PMH7	Enterobacteria_phage	81.7	1.2e-19
WP_000239881.1|2348324_2348993_+	class I SAM-dependent methyltransferase	NA	NA	NA	NA	NA
WP_014532281.1|2349308_2350952_+	T3SS effector E3 ubiquitin-protein ligase IpaH4/H7	NA	NA	NA	NA	NA
WP_000594909.1|2353356_2353839_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000785377.1|2353906_2355856_-|tail	phage tail tape measure protein	tail	Q8W620	Enterobacteria_phage	98.2	0.0e+00
WP_001251340.1|2355940_2356276_-|tail	phage tail assembly protein	tail	Q8W621	Enterobacteria_phage	97.2	9.8e-51
WP_001062338.1|2356275_2356632_-|tail	phage tail tube protein	tail	Q8W622	Enterobacteria_phage	98.3	5.3e-63
WP_000155743.1|2356631_2358128_-|tail	phage tail sheath subtilisin-like domain-containing protein	tail	Q8W623	Enterobacteria_phage	97.2	3.8e-272
WP_000497744.1|2358124_2358286_-	DUF2635 domain-containing protein	NA	Q8SBH3	Shigella_phage	76.6	9.2e-15
WP_094081529.1|2358679_2359836_-|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	3.4e-66
WP_005049241.1|2361487_2361838_-	IS66 family insertion sequence element accessory protein TnpB	NA	A0A0P0ZDM8	Stx2-converting_phage	67.5	1.8e-26
WP_004967157.1|2361834_2362509_-	IS66 family insertion sequence hypothetical protein	NA	A0A0P0ZCV4	Stx2-converting_phage	30.8	2.0e-10
WP_000839572.1|2362607_2362823_-|holin	class II holin family protein	holin	M1FN85	Enterobacteria_phage	98.6	5.3e-34
WP_005049343.1|2363623_2364307_-	antiterminator	NA	I6PDF8	Cronobacter_phage	49.8	2.0e-58
WP_000140020.1|2364303_2364669_-	RusA family crossover junction endodeoxyribonuclease	NA	V5URS4	Shigella_phage	68.1	7.1e-39
WP_001265248.1|2364669_2365728_-	DUF968 domain-containing protein	NA	A0A291AWV9	Escherichia_phage	48.0	2.6e-89
WP_011069426.1|2365729_2366008_-	hypothetical protein	NA	I6PCV7	Cronobacter_phage	45.0	4.5e-09
WP_000935258.1|2366175_2366388_-	type I toxin-antitoxin system Hok family toxin	NA	A0A0U2QV81	Escherichia_phage	95.7	6.6e-29
WP_005069274.1|2366982_2367399_-	hypothetical protein	NA	A0A076GCN9	Escherichia_phage	72.0	1.5e-24
WP_000533619.1|2367565_2368591_+|integrase	tyrosine-type recombinase/integrase	integrase	A0A192Y7M7	Salmonella_phage	57.9	2.0e-102
WP_001325918.1|2368826_2369624_+	DgsA anti-repressor MtfA	NA	NA	NA	NA	NA
WP_000747032.1|2371330_2372499_-|transposase	IS3-like element IS911 family transposase	transposase	Q716C2	Shigella_phage	100.0	1.8e-184
WP_094081533.1|2372584_2373740_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	8.9e-67
WP_001060217.1|2374092_2375547_+	AMP nucleosidase	NA	NA	NA	NA	NA
WP_000532920.1|2375889_2376606_+	YebC/PmpR family DNA-binding transcriptional regulator	NA	NA	NA	NA	NA
WP_001010988.1|2378982_2379933_-	HTH-type transcriptional regulator Cbl	NA	NA	NA	NA	NA
WP_001011445.1|2380034_2380952_-	nitrogen assimilation transcriptional regulator	NA	NA	NA	NA	NA
WP_000986341.1|2381410_2382346_-	L,D-transpeptidase	NA	NA	NA	NA	NA
WP_001165576.1|2382407_2383487_-	nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase	NA	NA	NA	NA	NA
WP_005049317.1|2383498_2384242_-	adenosylcobinamide-GDP ribazoletransferase	NA	NA	NA	NA	NA
WP_000261572.1|2384238_2384748_-	bifunctional adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase	NA	NA	NA	NA	NA
WP_094081532.1|2384759_2385916_-|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	8.9e-67
WP_001016348.1|2387943_2388126_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000450409.1|2388226_2388556_-	DUF496 family protein	NA	NA	NA	NA	NA
WP_005088730.1|2388727_2389027_-	hypothetical protein	NA	NA	NA	NA	NA
WP_004967157.1|2389096_2389771_+	IS66 family insertion sequence hypothetical protein	NA	A0A0P0ZCV4	Stx2-converting_phage	30.8	2.0e-10
WP_045177795.1|2391423_2393025_+|transposase	IS66-like element ISSfl3 family transposase	transposase	A0A0P0ZBS5	Stx2-converting_phage	61.3	3.2e-147
WP_094081531.1|2394338_2395495_-|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	1.5e-66
WP_171768509.1|2395859_2397088_-|transposase	IS3-like element IS2 family transposase	transposase	Q9ZXG3	Shigella_phage	98.7	5.0e-177
WP_005049241.1|2398079_2398430_-	IS66 family insertion sequence element accessory protein TnpB	NA	A0A0P0ZDM8	Stx2-converting_phage	67.5	1.8e-26
WP_004967157.1|2398426_2399101_-	IS66 family insertion sequence hypothetical protein	NA	A0A0P0ZCV4	Stx2-converting_phage	30.8	2.0e-10
WP_001007949.1|2399179_2400019_-|integrase	integrase family protein	integrase	A0A0P0ZDN8	Stx2-converting_phage	99.6	1.3e-160
2402879:2402892	attR	AAACCACCAGTCAG	NA	NA	NA	NA
>prophage 13
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	2901065	2908534	4646629	transposase	Escherichia_phage(66.67%)	7	NA	NA
WP_094081509.1|2901065_2902221_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	5.2e-67
WP_000017552.1|2903581_2903734_-	hypothetical protein	NA	G9L6F3	Escherichia_phage	96.0	1.7e-18
WP_000076001.1|2903751_2903943_+	DUF2633 family protein	NA	G9L6F2	Escherichia_phage	100.0	7.3e-27
WP_000975306.1|2904253_2904772_+	glycine zipper 2TM domain-containing protein	NA	G9L6F1	Escherichia_phage	99.4	6.5e-62
WP_000755178.1|2904787_2905327_+	DUF5384 family protein	NA	G9L6F0	Escherichia_phage	98.9	1.4e-43
WP_000138258.1|2905421_2906999_-	glutamine-hydrolyzing GMP synthase	NA	NA	NA	NA	NA
WP_001299507.1|2907067_2908534_-	IMP dehydrogenase	NA	A0A1V0SHK8	Klosneuvirus	39.1	2.3e-88
>prophage 14
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	2973433	3042135	4646629	integrase,transposase,tail,tRNA	Enterobacteria_phage(22.22%)	60	2986028:2986044	3050596:3050612
WP_061440257.1|2973433_2974723_-|tail	prophage tail fiber N-terminal domain-containing protein	tail	Q8W611	Enterobacteria_phage	42.6	6.4e-74
WP_000902877.1|2974746_2975292_-|tail	tail fiber assembly protein	tail	Q8W612	Enterobacteria_phage	73.1	2.5e-72
WP_011069472.1|2975294_2975813_-	hypothetical protein	NA	Q7Y4D4	Escherichia_virus	53.0	3.5e-39
WP_167389526.1|2975876_2977104_+|transposase	IS3-like element IS2 family transposase	transposase	Q9ZXG3	Shigella_phage	98.7	6.5e-177
WP_001181756.1|2978002_2978608_-	DUF2612 domain-containing protein	NA	H9C0Y0	Aeromonas_phage	43.8	1.2e-30
WP_094085562.1|2979371_2980527_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	5.2e-67
WP_000054752.1|2981882_2982143_+	4Fe-4S dicluster ferredoxin YfhL	NA	A0A1B1IWY9	uncultured_Mediterranean_phage	53.5	4.9e-18
WP_000128776.1|2982336_2982417_-	type I toxin-antitoxin system toxin ShoB	NA	NA	NA	NA	NA
WP_000986029.1|2982836_2983217_-	holo-ACP synthase	NA	NA	NA	NA	NA
WP_004969731.1|2983216_2983948_-	pyridoxine 5'-phosphate synthase	NA	NA	NA	NA	NA
WP_000399400.1|2983959_2984688_-	DNA repair protein RecO	NA	NA	NA	NA	NA
WP_000020747.1|2984699_2985605_-	GTPase Era	NA	NA	NA	NA	NA
WP_001068343.1|2985601_2986282_-	ribonuclease III	NA	A0A2P0VNZ5	Tetraselmis_virus	39.6	5.6e-21
2986028:2986044	attL	CGCCAGTTCCGCCAGCG	NA	NA	NA	NA
WP_000002542.1|2986553_2987528_-	signal peptidase I	NA	NA	NA	NA	NA
WP_000790168.1|2987543_2989343_-	elongation factor 4	NA	A0A2K9L6L3	Tupanvirus	41.9	4.2e-23
WP_000589070.1|2989540_2990020_-	SoxR-reducing system protein RseC	NA	NA	NA	NA	NA
WP_000812053.1|2990016_2990973_-	sigma-E factor regulatory protein RseB	NA	NA	NA	NA	NA
WP_001168466.1|2990972_2991623_-	anti-sigma-E factor RseA	NA	NA	NA	NA	NA
WP_001295364.1|2991655_2992231_-	RNA polymerase sigma factor RpoE	NA	NA	NA	NA	NA
WP_001303621.1|2992227_2992383_-	rpoE leader peptide RseD	NA	NA	NA	NA	NA
WP_001298974.1|2994245_2994983_-|tRNA	tRNA(1)(Val) (adenine(37)-N(6))-methyltransferase TrmN	tRNA	NA	NA	NA	NA
WP_000219193.1|2995114_2996449_+	ATP-dependent RNA helicase SrmB	NA	E3T5E1	Cafeteria_roenbergensis_virus	30.8	2.9e-45
WP_005051239.1|2996483_2997365_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
WP_000627802.1|2998109_2998493_-	autonomous glycyl radical cofactor GrcA	NA	Q7Y524	Enterobacteria_phage	72.0	1.4e-32
WP_001262715.1|2998797_2999487_+	uracil-DNA glycosylase	NA	A0A172DS90	Canid_alphaherpesvirus	48.8	5.5e-56
WP_000997396.1|2999534_3000572_-|tRNA	tRNA/rRNA methyltransferase	tRNA	NA	NA	NA	NA
WP_001098726.1|3000778_3001198_+	thioredoxin TrxC	NA	A0A0K2FIM3	Achromobacter_phage	38.5	2.8e-15
WP_001343689.1|3001266_3001965_+	DTW domain-containing protein	NA	NA	NA	NA	NA
WP_000082966.1|3001996_3004657_+	protein lysine acetyltransferase	NA	NA	NA	NA	NA
WP_005051257.1|3004770_3006126_+	CDP-diacylglycerol--serine O-phosphatidyltransferase	NA	NA	NA	NA	NA
WP_005085125.1|3006171_3006495_+	YfiM family lipoprotein	NA	NA	NA	NA	NA
WP_000841103.1|3006491_3007790_-	alpha-ketoglutarate permease	NA	Q6JIH2	Burkholderia_virus	32.2	1.3e-45
WP_000483774.1|3013623_3014970_+|transposase	IS4 family transposase	transposase	NA	NA	NA	NA
WP_000197677.1|3015020_3015758_-	outer membrane protein assembly factor BamD	NA	NA	NA	NA	NA
WP_000079112.1|3015892_3016873_+	23S rRNA pseudouridine(1911/1915/1917) synthase RluD	NA	NA	NA	NA	NA
WP_000040142.1|3016869_3017601_+	polyphenol oxidase	NA	NA	NA	NA	NA
WP_005051270.1|3017730_3020304_+	ATP-dependent chaperone ClpB	NA	H6X3M6	Enterobacteria_phage	35.3	2.0e-127
WP_000178456.1|3021999_3022341_+	ribosome-associated translation inhibitor RaiA	NA	NA	NA	NA	NA
WP_010723158.1|3022444_3022492_+	phe operon leader peptide	NA	NA	NA	NA	NA
WP_000200120.1|3022590_3023751_+	bifunctional chorismate mutase/prephenate dehydratase	NA	NA	NA	NA	NA
WP_000225239.1|3023793_3024915_-	bifunctional chorismate mutase/prephenate dehydrogenase	NA	NA	NA	NA	NA
WP_000548559.1|3024925_3025996_-	3-deoxy-7-phosphoheptulonate synthase AroF	NA	A0A0F6R6T6	Escherichia_coli_O157_typing_phage	50.9	2.6e-89
WP_005051282.1|3026205_3026571_+	DUF2799 domain-containing protein	NA	NA	NA	NA	NA
WP_001212397.1|3026720_3027239_+	YfiR family protein	NA	NA	NA	NA	NA
WP_000589824.1|3028469_3028952_+	OmpA family protein	NA	NA	NA	NA	NA
WP_000065253.1|3029028_3029376_-	50S ribosomal protein L19	NA	NA	NA	NA	NA
WP_000264777.1|3029417_3030185_-|tRNA	tRNA (guanosine(37)-N1)-methyltransferase TrmD	tRNA	NA	NA	NA	NA
WP_000043335.1|3030215_3030764_-	ribosome maturation factor RimM	NA	NA	NA	NA	NA
WP_000256450.1|3030782_3031031_-	30S ribosomal protein S16	NA	NA	NA	NA	NA
WP_000460045.1|3031167_3032529_-	signal recognition particle protein	NA	NA	NA	NA	NA
WP_005051300.1|3032695_3033487_+	inner membrane protein YpjD	NA	NA	NA	NA	NA
WP_077696344.1|3033507_3034794_+	HlyC/CorC family transporter	NA	NA	NA	NA	NA
WP_001296310.1|3034848_3035442_-	nucleotide exchange factor GrpE	NA	NA	NA	NA	NA
WP_001059169.1|3035564_3036443_+	NAD(+) kinase	NA	NA	NA	NA	NA
WP_000880917.1|3036528_3038190_+	DNA repair protein RecN	NA	NA	NA	NA	NA
WP_001203437.1|3038338_3038680_+	outer membrane protein assembly factor BamE	NA	NA	NA	NA	NA
WP_000900741.1|3038741_3039032_-	RnfH family protein	NA	NA	NA	NA	NA
WP_000600189.1|3039021_3039498_-	type II toxin-antitoxin system toxin RatA	NA	NA	NA	NA	NA
WP_000162574.1|3039629_3040112_+	SsrA-binding protein SmpB	NA	W5RAM5	Staphylococcus_phage	46.8	4.0e-29
WP_000113817.1|3040893_3042135_+|integrase	integrase	integrase	A0A1B5FPC6	Escherichia_phage	46.3	9.4e-99
3050596:3050612	attR	CGCTGGCGGAACTGGCG	NA	NA	NA	NA
>prophage 15
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	3115779	3123573	4646629	transposase	Pseudomonas_phage(50.0%)	6	NA	NA
WP_005051483.1|3115779_3116547_-	DeoR/GlpR transcriptional regulator	NA	A0A077SK06	Escherichia_phage	56.3	4.8e-69
WP_094085512.1|3117932_3119043_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	45.9	8.0e-65
WP_094081518.1|3119105_3120261_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.4	2.0e-66
WP_001192434.1|3120495_3122592_-|transposase	Mu transposase C-terminal domain-containing protein	transposase	A0A2D1GNK9	Pseudomonas_phage	48.7	1.2e-173
WP_001249841.1|3122593_3122845_-	helix-turn-helix domain-containing protein	NA	A0A2D1GNH1	Pseudomonas_phage	53.0	1.1e-17
WP_001224024.1|3123009_3123573_+	hypothetical protein	NA	A0A2D1GNR8	Pseudomonas_phage	55.8	1.1e-35
>prophage 16
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	3306398	3368183	4646629	integrase,transposase,protease,tRNA	Shigella_phage(33.33%)	42	3313064:3313079	3358195:3358210
WP_005051759.1|3306398_3307157_+|protease	metalloprotease LoiP	protease	NA	NA	NA	NA
WP_000105566.1|3307362_3308283_-	agmatinase	NA	NA	NA	NA	NA
WP_005096955.1|3309662_3311639_-	biosynthetic arginine decarboxylase	NA	NA	NA	NA	NA
WP_005051767.1|3311647_3311779_-	acid stress response protein YqgB	NA	NA	NA	NA	NA
WP_011110620.1|3311914_3312130_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001062128.1|3312433_3313588_+	methionine adenosyltransferase	NA	A0A2H4PQS6	Staphylococcus_phage	63.2	4.0e-128
3313064:3313079	attL	ATTCTGCCCGCTGAAT	NA	NA	NA	NA
WP_001112298.1|3314024_3315419_+	galactose/proton symporter	NA	NA	NA	NA	NA
WP_005051770.1|3315495_3315993_+|protease	SprT family zinc-dependent metalloprotease	protease	NA	NA	NA	NA
WP_000286517.1|3316087_3316795_+	deoxyribonuclease I	NA	NA	NA	NA	NA
WP_001222509.1|3316874_3317606_+	16S rRNA (uracil(1498)-N(3))-methyltransferase	NA	NA	NA	NA	NA
WP_000593267.1|3317618_3318569_+	glutathione synthase	NA	NA	NA	NA	NA
WP_001053178.1|3318677_3319241_+	YqgE/AlgH family protein	NA	NA	NA	NA	NA
WP_000017111.1|3319240_3319657_+	Holliday junction resolvase RuvX	NA	NA	NA	NA	NA
WP_001055626.1|3319832_3320813_-	type IV pilus twitching motility protein PilT	NA	NA	NA	NA	NA
WP_000997800.1|3320830_3321535_+	pyridoxal phosphate homeostasis protein	NA	NA	NA	NA	NA
WP_001094817.1|3321552_3322119_+	osmotic shock tolerance protein YggT	NA	NA	NA	NA	NA
WP_001277222.1|3322115_3322406_+	YggU family protein	NA	NA	NA	NA	NA
WP_001174735.1|3322413_3323007_+	XTP/dITP diphosphatase	NA	NA	NA	NA	NA
WP_000239924.1|3322999_3324136_+	radical SAM family heme chaperone HemW	NA	NA	NA	NA	NA
WP_000577041.1|3325457_3325961_+	TRAP transporter small permease	NA	NA	NA	NA	NA
WP_000378934.1|3326724_3328026_+	TRAP transporter large permease subunit	NA	NA	NA	NA	NA
WP_000745204.1|3328126_3329089_-	DUF1202 family protein	NA	NA	NA	NA	NA
WP_000394115.1|3329205_3330252_-	L-asparaginase 2	NA	NA	NA	NA	NA
WP_000984792.1|3330427_3331147_-	DUF2884 domain-containing protein	NA	NA	NA	NA	NA
WP_001107556.1|3331330_3331657_-	YggL family protein	NA	NA	NA	NA	NA
WP_000786911.1|3331656_3332376_-|tRNA	tRNA (guanosine(46)-N7)-methyltransferase TrmB	tRNA	NA	NA	NA	NA
WP_004972828.1|3332536_3333589_+	A/G-specific adenine glycosylase	NA	NA	NA	NA	NA
WP_000091700.1|3333616_3333892_+	oxidative damage protection protein	NA	NA	NA	NA	NA
WP_005064048.1|3333956_3335036_+	membrane-bound lytic murein transglycosylase MltC	NA	NA	NA	NA	NA
WP_001049791.1|3335237_3336494_+	nucleoside permease NupG	NA	NA	NA	NA	NA
WP_005085661.1|3336542_3338678_-	ornithine decarboxylase	NA	NA	NA	NA	NA
WP_000234511.1|3339075_3339783_+	DUF554 domain-containing protein	NA	NA	NA	NA	NA
WP_001218804.1|3340161_3341424_+|integrase	integrase arm-type DNA-binding domain-containing protein	integrase	Q7M297	Enterobacteria_phage	38.3	9.3e-78
WP_000344102.1|3341876_3345392_+	ATP-binding protein	NA	NA	NA	NA	NA
WP_001034110.1|3347861_3351719_+|protease	serine protease autotransporter toxin SigA	protease	Q9LA58	Enterobacterial_phage	38.3	2.4e-225
WP_000291751.1|3351765_3352347_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001189111.1|3360006_3361515_-	group II intron reverse transcriptase/maturase	NA	A0A0U4J920	Pseudomonas_phage	31.8	3.6e-44
3358195:3358210	attR	ATTCTGCCCGCTGAAT	NA	NA	NA	NA
WP_001013320.1|3363209_3363635_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000271035.1|3363631_3364015_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000747032.1|3364126_3365294_+|transposase	IS3-like element IS911 family transposase	transposase	Q716C2	Shigella_phage	100.0	1.8e-184
WP_001195464.1|3365639_3366239_-	inovirus-type Gp2 protein	NA	NA	NA	NA	NA
WP_094081542.1|3366955_3368183_+|transposase	IS3-like element IS2 family transposase	transposase	Q9ZXG3	Shigella_phage	99.0	2.9e-177
>prophage 17
NZ_CP044158	Shigella flexneri strain AR-0423 chromosome, complete genome	4646629	4187765	4209759	4646629	transposase,integrase	Shigella_phage(40.0%)	16	4195381:4195395	4210689:4210703
WP_094081509.1|4187765_4188921_+|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	5.2e-67
WP_000665246.1|4188962_4189919_-	hypothetical protein	NA	NA	NA	NA	NA
WP_094081542.1|4191097_4192325_+|transposase	IS3-like element IS2 family transposase	transposase	Q9ZXG3	Shigella_phage	99.0	2.9e-177
WP_000827814.1|4193091_4193664_-	long polar fimbria major subunit LpfA-O113	NA	NA	NA	NA	NA
WP_005086215.1|4193955_4195302_-|transposase	IS4 family transposase	transposase	NA	NA	NA	NA
4195381:4195395	attL	GCTGTGGGCGGACAA	NA	NA	NA	NA
WP_001353740.1|4195891_4196131_+	DUF1819 family protein	NA	NA	NA	NA	NA
WP_000777554.1|4197627_4198101_+	trimethoprim-resistant dihydrofolate reductase DfrA1	NA	A0A140HLG8	Bacillus_phage	34.4	1.6e-19
WP_000704156.1|4198195_4198720_+	streptothricin N-acetyltransferase Sat2	NA	E4ZFP7	Streptococcus_phage	38.9	4.2e-16
WP_001206315.1|4198777_4199566_+	ANT(3'')-Ia family aminoglycoside nucleotidyltransferase AadA1	NA	NA	NA	NA	NA
WP_001444089.1|4199641_4200139_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000119696.1|4200199_4200571_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001271300.1|4200980_4201358_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000251878.1|4201588_4203205_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001243518.1|4203205_4204732_-|transposase	transposase	transposase	NA	NA	NA	NA
WP_000747032.1|4205647_4206816_-|transposase	IS3-like element IS911 family transposase	transposase	Q716C2	Shigella_phage	100.0	1.8e-184
WP_000267723.1|4207650_4209759_-|integrase,transposase	DDE-type integrase/transposase/recombinase	integrase,transposase	NA	NA	NA	NA
4210689:4210703	attR	TTGTCCGCCCACAGC	NA	NA	NA	NA
>prophage 1
NZ_CP044160	Shigella flexneri strain AR-0423 plasmid pAR-0423-2, complete sequence	146462	819	104610	146462	protease,transposase	Escherichia_phage(29.41%)	56	NA	NA
WP_094092433.1|819_2015_-|transposase	IS91 family transposase	transposase	NA	NA	NA	NA
WP_000957853.1|2024_2213_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000597731.1|2543_4271_-	T3SS effector E3 ubiquitin-protein ligase IpaH1.4	NA	NA	NA	NA	NA
WP_000957716.1|4661_4928_-	type 3 secretion system effector OspE1	NA	NA	NA	NA	NA
WP_011114782.1|5575_5728_-	hypothetical protein	NA	NA	NA	NA	NA
WP_148936977.1|7817_9045_+|transposase	IS3-like element IS2 family transposase	transposase	Q9ZXG3	Shigella_phage	98.7	1.5e-176
WP_011378983.1|10455_10593_-	hypothetical protein	NA	NA	NA	NA	NA
WP_005061047.1|11554_12502_+|protease	omptin family outer membrane protease IcsP	protease	NA	NA	NA	NA
WP_001046939.1|14048_14915_+	type 3 secretion system effector OspB	NA	A0A0P0ZCT1	Stx2-converting_phage	32.7	9.4e-29
WP_000850662.1|15243_15984_+	PAP2 family phosphatase PhoN2	NA	A0A1B1IUP6	uncultured_Mediterranean_phage	28.4	7.5e-11
WP_000261567.1|18617_18968_-|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	37.0	2.8e-08
WP_005061014.1|20307_22017_-	ShET2/EspL2 family type III secretion system effector toxin	NA	NA	NA	NA	NA
WP_001121867.1|22448_23168_-	type III secretion system effector phosphothreonine lyase	NA	NA	NA	NA	NA
WP_000868563.1|24199_24778_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001082155.1|26129_26417_+	hypothetical protein	NA	NA	NA	NA	NA
WP_011587243.1|26742_28089_-|transposase	IS4 family transposase	transposase	NA	NA	NA	NA
WP_000622998.1|28532_28880_+	IS66 family insertion sequence element accessory protein TnpB	NA	A0A0P0ZDM8	Stx2-converting_phage	74.8	9.8e-46
WP_000026470.1|31769_32447_+	type 3 secretion system effector OspD1	NA	NA	NA	NA	NA
WP_011114726.1|32957_33272_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000901798.1|33553_34120_+	type III secretion effector IpgB2	NA	NA	NA	NA	NA
WP_005064872.1|36690_37884_-|transposase	IS4-like element ISSfl1 family transposase	transposase	S5FM71	Shigella_phage	62.5	2.0e-138
WP_011114728.1|38316_39099_+	AAA family ATPase	NA	A0A2L1IVB6	Escherichia_phage	98.8	8.5e-138
WP_000200287.1|39825_41025_+	AAA family ATPase	NA	Q71TL9	Escherichia_phage	75.1	2.0e-175
WP_000431558.1|41024_42005_+	ParB/RepB/Spo0J family partition protein	NA	Q38420	Escherichia_phage	58.2	5.0e-95
WP_072075197.1|43034_44213_-	group II intron reverse transcriptase/maturase	NA	A0A0U4J920	Pseudomonas_phage	32.4	2.6e-29
WP_000957853.1|46631_46820_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000947175.1|46829_48029_+|transposase	IS91 family transposase	transposase	NA	NA	NA	NA
WP_072075159.1|48954_49377_+	ATP-binding protein	NA	A0A2L1IVB6	Escherichia_phage	98.1	7.7e-53
WP_005116773.1|49318_50107_-	AraC family invasion system transcriptional regulator VirF	NA	NA	NA	NA	NA
WP_000957712.1|51118_51385_+	type 3 secretion system effector OspE2	NA	NA	NA	NA	NA
WP_005085088.1|52532_53729_-|transposase	IS110 family transposase	transposase	NA	NA	NA	NA
WP_000597733.1|54064_55756_+	E3 ubiquitin-protein ligase ipaH3	NA	NA	NA	NA	NA
WP_000405245.1|57649_58132_-	GNAT family N-acetyltransferase	NA	NA	NA	NA	NA
WP_010921625.1|58122_58425_-	DUF1778 domain-containing protein	NA	NA	NA	NA	NA
WP_000019158.1|58696_58969_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000198552.1|58949_60158_+|transposase	IS91 family transposase	transposase	NA	NA	NA	NA
WP_000701108.1|60606_62061_-	type 3 secretion system effector OspC2	NA	NA	NA	NA	NA
WP_001189111.1|64541_66050_+	group II intron reverse transcriptase/maturase	NA	A0A0U4J920	Pseudomonas_phage	31.8	3.6e-44
WP_001034121.1|67881_71976_-|protease	serine protease autotransporter toxin SepA	protease	Q9LA58	Enterobacterial_phage	42.3	7.3e-281
WP_000957853.1|72377_72566_+	hypothetical protein	NA	NA	NA	NA	NA
WP_011114759.1|74511_74916_-	hypothetical protein	NA	NA	NA	NA	NA
WP_171768513.1|75467_76184_-	hypothetical protein	NA	NA	NA	NA	NA
WP_000124083.1|79751_80117_-	hypothetical protein	NA	NA	NA	NA	NA
WP_001195004.1|82504_83707_-|protease	alpha-tubulin-specific protease	protease	NA	NA	NA	NA
WP_000612525.1|89727_91380_+	bifunctional UDP-sugar hydrolase/5'-nucleotidase	NA	NA	NA	NA	NA
WP_000828661.1|93677_94427_+	phosphatase PAP2 family protein	NA	NA	NA	NA	NA
WP_094081568.1|94596_95441_-|transposase	IS5 family transposase	transposase	A0A0N9SHJ4	Paenibacillus_phage	49.1	2.2e-22
WP_005015412.1|95486_95867_-	type II toxin-antitoxin system RelB/DinJ family antitoxin	NA	NA	NA	NA	NA
WP_000445929.1|96049_96445_-	plasmid partitioning/stability family protein	NA	NA	NA	NA	NA
WP_000921952.1|96444_97404_-	plasmid segregation protein ParM	NA	A0A222YXF2	Escherichia_phage	40.9	1.4e-62
WP_015683198.1|97843_98746_+	DUF1281 domain-containing protein	NA	NA	NA	NA	NA
WP_011114770.1|98742_99054_+	hypothetical protein	NA	NA	NA	NA	NA
WP_000086135.1|99117_99801_+	DNA methylase	NA	A0A2I7RE86	Vibrio_phage	36.9	2.3e-30
WP_001104887.1|99801_100023_+	hypothetical protein	NA	NA	NA	NA	NA
WP_001006196.1|100513_101284_+	hypothetical protein	NA	NA	NA	NA	NA
WP_094081569.1|103453_104610_-|transposase	IS3 family transposase	transposase	A0A0P0I4A4	Acinetobacter_phage	44.7	5.2e-67
