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
CP035486	Escherichia coli strain NissleGFP_pZE21 chromosome, complete genome	5055966	163683	226013	5055966	bacteriocin,transposase,tRNA,protease	Erysipelothrix_phage(10.0%)	56	NA	NA
QAY37867.1|163683_163974_+|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
QAY37868.1|164132_164369_+	HNH endonuclease	NA	NA	NA	NA	NA
QAY37869.1|164371_164665_+|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
QAY37870.1|164820_165060_+	hypothetical protein	NA	NA	NA	NA	NA
QAY37871.1|165060_165351_+|bacteriocin	bacteriocin immunity protein	bacteriocin	NA	NA	NA	NA
QAY37872.1|165806_166571_+	pyruvate dehydrogenase complex transcriptional repressor PdhR	NA	NA	NA	NA	NA
QAY37873.1|166731_169395_+	pyruvate dehydrogenase (acetyl-transferring), homodimeric type	NA	NA	NA	NA	NA
QAY37874.1|169409_171302_+	pyruvate dehydrogenase complex dihydrolipoyllysine-residue acetyltransferase	NA	NA	NA	NA	NA
QAY42188.1|171509_172934_+	dihydrolipoyl dehydrogenase	NA	A0A2K5B2C5	Erysipelothrix_phage	27.8	4.2e-42
QAY37875.1|173175_174957_-	DUF3300 domain-containing protein	NA	NA	NA	NA	NA
QAY37876.1|175311_177909_+	bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase	NA	NA	NA	NA	NA
QAY37877.1|178083_178446_+	UPF0231 family protein	NA	NA	NA	NA	NA
QAY37878.1|178483_179278_-	adenosylmethionine decarboxylase	NA	NA	NA	NA	NA
QAY37879.1|179293_180160_-	polyamine aminopropyltransferase	NA	NA	NA	NA	NA
QAY37880.1|180265_180613_-	hypothetical protein	NA	NA	NA	NA	NA
QAY37881.1|180778_182329_+	multicopper oxidase CueO	NA	A0A0C6DWA2	Mamastrovirus	55.4	2.1e-18
QAY37882.1|182406_184797_-	glucose/quinate/shikimate family membrane-bound PQQ-dependent dehydrogenase	NA	NA	NA	NA	NA
QAY37883.1|185002_185539_+	hypoxanthine phosphoribosyltransferase	NA	A0A218MMB5	uncultured_virus	33.1	5.1e-17
QAY37884.1|185579_186242_-	carbonate dehydratase	NA	NA	NA	NA	NA
QAY37885.1|186350_187277_+	ABC transporter ATP-binding protein	NA	W6JKT0	Anomala_cuprea_entomopoxvirus	34.0	1.2e-21
QAY37886.1|187273_188044_+	ABC transporter permease	NA	NA	NA	NA	NA
QAY37887.1|188148_188589_+	PTS sugar transporter subunit IIA	NA	NA	NA	NA	NA
QAY37888.1|188652_189882_+	polysaccharide deacetylase family protein	NA	NA	NA	NA	NA
QAY37889.1|189885_190266_-	aspartate 1-decarboxylase	NA	NA	NA	NA	NA
QAY37890.1|190539_191484_+|transposase	Rpn family recombination-promoting nuclease/putative transposase	transposase	Q2A0A7	Sodalis_phage	49.8	6.5e-60
QAY37891.1|191552_191750_+|transposase	transposase	transposase	NA	NA	NA	NA
QAY37892.1|191831_192683_-	pantoate--beta-alanine ligase	NA	NA	NA	NA	NA
QAY37893.1|192694_193489_-	3-methyl-2-oxobutanoate hydroxymethyltransferase	NA	NA	NA	NA	NA
QAY37894.1|193600_194866_-	fimbrial-like adhesin	NA	NA	NA	NA	NA
QAY37895.1|194915_195512_-	fimbrial protein StaF	NA	NA	NA	NA	NA
QAY37896.1|195538_196147_-	fimbrial-like protein YadL	NA	NA	NA	NA	NA
QAY37897.1|196158_196725_-	fimbrial protein	NA	NA	NA	NA	NA
QAY37898.1|196741_199330_-	outer membrane usher protein	NA	NA	NA	NA	NA
QAY37899.1|199364_200105_-	fimbrial chaperone	NA	NA	NA	NA	NA
QAY37900.1|200213_200804_-	fimbrial protein	NA	NA	NA	NA	NA
QAY37901.1|201167_201647_-	2-amino-4-hydroxy-6- hydroxymethyldihydropteridine diphosphokinase	NA	NA	NA	NA	NA
QAY37902.1|201643_203062_-	polynucleotide adenylyltransferase PcnB	NA	H7BUW3	unidentified_phage	37.9	3.2e-26
QAY37903.1|203100_204027_-|tRNA	tRNA glutamyl-Q(34) synthetase GluQRS	tRNA	NA	NA	NA	NA
QAY37904.1|204063_204519_-	RNA polymerase-binding transcription factor DksA	NA	NA	NA	NA	NA
QAY37905.1|204696_205401_-	DNA/RNA nuclease SfsA	NA	NA	NA	NA	NA
QAY37906.1|205415_205946_-	RNA 2',3'-cyclic phosphodiesterase	NA	NA	NA	NA	NA
QAY37907.1|206019_208449_+	ATP-dependent helicase HrpB	NA	A0A0G2Y9F4	Acanthamoeba_polyphaga_mimivirus	28.6	2.7e-41
QAY37908.1|208542_211077_+	bifunctional glycosyl transferase/transpeptidase	NA	NA	NA	NA	NA
QAY37909.1|211296_213555_+	ferrichrome porin FhuA	NA	NA	NA	NA	NA
QAY37910.1|213605_214403_+	Fe3+-hydroxamate ABC transporter ATP-binding protein FhuC	NA	G9BWD6	Planktothrix_phage	26.9	6.0e-14
QAY37911.1|214402_215293_+	Fe(3+)-hydroxamate ABC transporter substrate-binding protein FhuD	NA	NA	NA	NA	NA
QAY37912.1|215289_217272_+	Fe(3+)-hydroxamate ABC transporter permease FhuB	NA	NA	NA	NA	NA
QAY37913.1|217306_218587_-	glutamate-1-semialdehyde 2,1-aminomutase	NA	NA	NA	NA	NA
QAY37914.1|218811_220233_+	H(+)/Cl(-) exchange transporter ClcA	NA	NA	NA	NA	NA
QAY42189.1|220256_220322_+	hypothetical protein	NA	NA	NA	NA	NA
QAY37915.1|220314_220659_+	iron-sulfur cluster insertion protein ErpA	NA	A0A2H4N7M3	Lake_Baikal_phage	51.4	4.5e-27
QAY37916.1|220705_221329_-	TRIC cation channel family protein	NA	NA	NA	NA	NA
QAY37917.1|221366_222167_-	vitamin B12 ABC transporter substrate-binding protein BtuF	NA	NA	NA	NA	NA
QAY37918.1|222159_222858_-	5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase	NA	NA	NA	NA	NA
QAY37919.1|222941_224459_+	dGTPase	NA	NA	NA	NA	NA
QAY37920.1|224588_226013_+|protease	serine endoprotease DegP	protease	A0A1B1IT49	uncultured_Mediterranean_phage	28.8	2.5e-26
>prophage 2
CP035486	Escherichia coli strain NissleGFP_pZE21 chromosome, complete genome	5055966	1324614	1365355	5055966	lysis,tail,transposase,integrase,terminase,portal,head,capsid,tRNA	Enterobacteria_phage(56.52%)	55	1315133:1315146	1340444:1340457
1315133:1315146	attL	CACCACCACAAATG	NA	NA	NA	NA
QAY38877.1|1324614_1325721_-|tRNA	tRNA 2-thiouridine(34) synthase MnmA	tRNA	NA	NA	NA	NA
QAY38878.1|1325774_1326236_-	NUDIX hydrolase	NA	NA	NA	NA	NA
QAY38879.1|1326245_1326899_-	23S rRNA pseudouridine(2457) synthase RluE	NA	NA	NA	NA	NA
QAY38880.1|1327070_1328321_+	NADP-dependent isocitrate dehydrogenase	NA	Q77Z09	Phage_21	100.0	3.8e-23
QAY38881.1|1328434_1328848_-|integrase	integrase	integrase	Q77Z04	Phage_21	99.3	2.9e-73
QAY38882.1|1328892_1330040_-|transposase	IS3-like element ISEc52 family transposase	transposase	Q716C2	Shigella_phage	96.3	2.4e-173
QAY38883.1|1330135_1330717_+	superinfection exclusion protein B	NA	K7P6T7	Enterobacteria_phage	92.2	5.2e-92
QAY38884.1|1330733_1331006_-	antitermination protein N	NA	A0A0N7C217	Escherichia_phage	98.9	2.8e-40
QAY38885.1|1330983_1331166_-	hypothetical protein	NA	A0A0N7C057	Escherichia_phage	98.3	1.1e-27
QAY38886.1|1331442_1332195_-	DUF1828 domain-containing protein	NA	NA	NA	NA	NA
QAY38887.1|1332191_1332749_-	hypothetical protein	NA	NA	NA	NA	NA
QAY38888.1|1332788_1333484_-	LexA family transcriptional regulator	NA	A0A0N7BTS4	Escherichia_phage	100.0	8.6e-134
QAY38889.1|1333559_1333775_+	XRE family transcriptional regulator	NA	A0A0N7C2U7	Escherichia_phage	100.0	2.2e-35
QAY38890.1|1333916_1334213_+	hypothetical protein	NA	G9L678	Escherichia_phage	94.9	2.2e-46
QAY38891.1|1334245_1335145_+	Replication protein O	NA	K7P7F0	Enterobacteria_phage	99.0	3.5e-172
QAY38892.1|1335141_1335843_+	Replication protein P	NA	A0A0P0ZD31	Stx2-converting_phage	99.6	2.9e-129
QAY38893.1|1335839_1336130_+	protein ren	NA	O48423	Enterobacteria_phage	97.9	2.8e-46
QAY38894.1|1336203_1336644_+	recombination protein NinB	NA	M1FPM8	Enterobacteria_phage	100.0	1.2e-80
QAY38895.1|1336640_1337168_+	phage N-6-adenine-methyltransferase	NA	A0A1I9LJP9	Stx_converting_phage	99.4	4.7e-100
QAY38896.1|1337164_1337341_+	NinE family protein	NA	A5VW90	Enterobacteria_phage	96.6	3.3e-26
QAY38897.1|1337343_1337685_+	DUF2591 domain-containing protein	NA	Q76H72	Enterobacteria_phage	96.5	1.6e-61
QAY38898.1|1337677_1337872_+	protein ninF	NA	NA	NA	NA	NA
QAY38899.1|1337891_1338254_+	crossover junction endodeoxyribonuclease RusA	NA	K7PM48	Enterobacteria_phage	96.5	4.3e-60
QAY38900.1|1338250_1338391_+	YlcG family protein	NA	K7PHH3	Enterobacteria_phage	67.4	3.6e-07
QAY38901.1|1338476_1338860_+	antitermination protein QuuD	NA	A0A088CD47	Shigella_phage	83.3	1.5e-55
QAY38902.1|1339048_1340131_-	porin OmpC	NA	Q1MVN1	Enterobacteria_phage	80.1	1.6e-166
QAY38903.1|1340719_1340935_+|lysis	phage lysis protein EssD	lysis	A5LH82	Enterobacteria_phage	100.0	9.0e-34
1340444:1340457	attR	CATTTGTGGTGGTG	NA	NA	NA	NA
QAY38904.1|1340934_1341432_+	lysozyme	NA	M1FJA0	Enterobacteria_phage	97.0	5.4e-90
QAY38905.1|1341648_1341831_+|lysis	prophage lysis lipoprotein RzoD	lysis	K7PHU6	Enterobacteria_phage	98.3	2.9e-17
QAY38906.1|1341921_1342215_-	increased serum survival lipoprotein Iss	NA	K7PL54	Enterobacteria_phage	92.8	7.0e-45
QAY38907.1|1342695_1343022_+	TonB family protein	NA	H6WZK5	Escherichia_phage	72.2	3.7e-39
QAY38908.1|1343144_1343498_-	hypothetical protein	NA	NA	NA	NA	NA
QAY38909.1|1343385_1343706_-	hypothetical protein	NA	NA	NA	NA	NA
QAY38910.1|1343973_1344522_+|terminase	terminase small subunit	terminase	A0A0U2S671	Escherichia_phage	84.2	1.0e-57
QAY38911.1|1344493_1346422_+|terminase	phage terminase large subunit family protein	terminase	A0A0K2FJ14	Enterobacteria_phage	66.7	2.5e-260
QAY38912.1|1346405_1346612_+|head	phage head-stabilizing protein	head	K7PM10	Enterobacteria_phage	55.4	3.0e-10
QAY38913.1|1346608_1348201_+|portal	phage portal protein	portal	K7P6U7	Enterobacteria_phage	60.9	4.2e-184
QAY38914.1|1348190_1349696_+	S49 family peptidase	NA	A0A2I6TC87	Escherichia_phage	53.7	3.6e-100
QAY38915.1|1349732_1350080_+|head	head decoration protein	head	A0A2R9YJN3	Escherichia_phage	58.1	2.0e-22
QAY38916.1|1350137_1351166_+|capsid	minor capsid protein E	capsid	C6ZCY2	Enterobacteria_phage	61.6	5.9e-115
QAY38917.1|1351217_1351592_+	hypothetical protein	NA	NA	NA	NA	NA
QAY38918.1|1351584_1351938_+|tail	phage tail protein	tail	A0A0K2FJB7	Enterobacteria_phage	65.0	3.4e-38
QAY38919.1|1351949_1352528_+|tail	phage tail protein	tail	A0A2R9YJK4	Escherichia_phage	99.0	2.9e-79
QAY38920.1|1352524_1352920_+|tail	phage tail protein	tail	A0A2R9YJI2	Escherichia_phage	97.7	5.5e-69
QAY38921.1|1352927_1353668_+|tail	phage tail protein	tail	A0A0K2FJ05	Enterobacteria_phage	95.9	3.7e-127
QAY38922.1|1353683_1354106_+|tail	phage minor tail protein G	tail	A0A0K2FIQ8	Enterobacteria_phage	91.4	2.7e-66
QAY38923.1|1354087_1354522_+|tail	phage tail assembly protein T	tail	A0A0K2FJB3	Enterobacteria_phage	90.0	9.0e-57
QAY38924.1|1354514_1357076_+|tail	phage tail tape measure protein	tail	A0A0K2FI43	Enterobacteria_phage	94.5	0.0e+00
QAY38925.1|1357072_1357402_+|tail	phage tail protein	tail	A0A2R9YJM0	Escherichia_phage	94.5	5.4e-54
QAY38926.1|1357401_1358100_+|tail	phage minor tail protein L	tail	A0A0K2FJ01	Enterobacteria_phage	97.8	4.0e-131
QAY38927.1|1358105_1358849_+|tail	phage tail protein	tail	K7PLW1	Enterobacteria_phage	97.2	1.1e-147
QAY38928.1|1358785_1359418_+|tail	tail assembly protein	tail	A0A2R9YJH6	Escherichia_phage	100.0	5.9e-97
QAY38929.1|1359478_1362961_+	host specificity protein J	NA	A0A291AWT4	Escherichia_phage	89.5	0.0e+00
QAY38930.1|1363019_1365080_+|tail	phage tail protein	tail	A0A0E3M194	Enterobacteria_phage	53.4	2.0e-125
QAY38931.1|1365076_1365355_+	hypothetical protein	NA	A0A0E3JSQ1	Enterobacteria_phage	56.5	7.6e-25
>prophage 3
CP035486	Escherichia coli strain NissleGFP_pZE21 chromosome, complete genome	5055966	1984197	2078023	5055966	tail,terminase,protease,holin,portal,tRNA	Enterobacteria_phage(25.4%)	106	NA	NA
QAY39490.1|1984197_1985079_-|protease	protease HtpX	protease	NA	NA	NA	NA
QAY39491.1|1985270_1987319_-	carboxy terminal-processing peptidase	NA	A0A0R6PIZ1	Moraxella_phage	33.5	6.8e-86
QAY39492.1|1987338_1988037_-	RNA chaperone ProQ	NA	NA	NA	NA	NA
QAY39493.1|1988133_1988631_-	GAF domain-containing protein	NA	NA	NA	NA	NA
QAY39494.1|1988760_1990044_+	paraquat-inducible protein A	NA	NA	NA	NA	NA
QAY39495.1|1990012_1992646_+	PqiB family protein	NA	NA	NA	NA	NA
QAY39496.1|1992725_1994165_+	16S rRNA (cytosine(1407)-C(5))-methyltransferase RsmF	NA	NA	NA	NA	NA
QAY39497.1|1994282_1994519_+	DUF1480 family protein	NA	NA	NA	NA	NA
QAY42271.1|1994623_1994815_+	DUF1482 family protein	NA	NA	NA	NA	NA
QAY39498.1|1994815_1995472_-	protein-serine/threonine phosphatase	NA	A0A2D1GLI5	Escherichia_phage	50.5	1.0e-56
QAY39499.1|1995866_1996208_-	DUF2511 domain-containing protein	NA	NA	NA	NA	NA
QAY39500.1|1996220_1997093_-	copper resistance D family protein	NA	NA	NA	NA	NA
QAY39501.1|1997096_1997471_-	CopC domain-containing protein YobA	NA	NA	NA	NA	NA
QAY39502.1|1997609_1997840_+	DNA polymerase III subunit theta	NA	H9C187	Pectobacterium_phage	61.8	1.3e-14
QAY39503.1|1997942_1998599_+	carbon-nitrogen hydrolase family protein	NA	NA	NA	NA	NA
QAY39504.1|1998622_1999285_+	exodeoxyribonuclease X	NA	Q6UAU3	Klebsiella_phage	41.6	2.0e-07
QAY39505.1|2001550_2002210_-	tellurite resistance TerB family protein	NA	NA	NA	NA	NA
QAY39506.1|2002536_2002893_-	protein YebF	NA	NA	NA	NA	NA
QAY39507.1|2002959_2003250_-	DNA damage-inducible protein YebG	NA	NA	NA	NA	NA
QAY39508.1|2003383_2004562_+	formate-dependent phosphoribosylglycinamide formyltransferase	NA	NA	NA	NA	NA
QAY39509.1|2004617_2005259_-	KHG/KDPG aldolase	NA	NA	NA	NA	NA
QAY39510.1|2005295_2007107_-	phosphogluconate dehydratase	NA	NA	NA	NA	NA
QAY39511.1|2007341_2008817_-	glucose-6-phosphate dehydrogenase	NA	H6WFS4	Cyanophage	37.5	4.4e-79
QAY39512.1|2009154_2010024_+	MurR/RpiR family transcriptional regulator	NA	NA	NA	NA	NA
QAY39513.1|2010151_2011594_+	pyruvate kinase	NA	NA	NA	NA	NA
QAY39514.1|2011725_2012697_-	lauroyl-Kdo(2)-lipid IV(A) myristoyltransferase	NA	NA	NA	NA	NA
QAY39515.1|2012815_2014138_-	murein DD-endopeptidase MepM	NA	A8ATH6	Listeria_phage	40.9	1.2e-14
QAY39516.1|2014153_2015086_-	zinc ABC transporter substrate-binding protein ZnuA	NA	NA	NA	NA	NA
QAY39517.1|2015164_2015920_+	zinc ABC transporter ATP-binding protein ZnuC	NA	G3M9Y6	Bacillus_virus	28.3	1.3e-18
QAY39518.1|2015916_2016702_+	zinc ABC transporter permease subunit ZnuB	NA	NA	NA	NA	NA
QAY39519.1|2016848_2017859_-	Holliday junction branch migration DNA helicase RuvB	NA	A0A127AWE7	Bacillus_phage	25.5	5.6e-09
QAY39520.1|2017867_2018479_-	Holliday junction branch migration protein RuvA	NA	NA	NA	NA	NA
QAY42272.1|2018617_2018683_-	hypothetical protein	NA	NA	NA	NA	NA
QAY39521.1|2018754_2019357_+	YebB family permuted papain-like enzyme	NA	NA	NA	NA	NA
QAY39522.1|2019358_2019880_-	crossover junction endodeoxyribonuclease RuvC	NA	G3MA90	Bacillus_virus	35.1	2.0e-10
QAY39523.1|2019914_2020655_-	YebC/PmpR family DNA-binding transcriptional regulator	NA	NA	NA	NA	NA
QAY39524.1|2020683_2021136_-	dihydroneopterin triphosphate diphosphatase	NA	NA	NA	NA	NA
QAY39525.1|2021128_2022901_-|tRNA	aspartate--tRNA ligase	tRNA	NA	NA	NA	NA
QAY39526.1|2023210_2023777_+	hydrolase	NA	NA	NA	NA	NA
QAY42273.1|2023858_2023975_-	preprotein translocase subunit SecY	NA	NA	NA	NA	NA
QAY39527.1|2024378_2024768_-	LexA family transcriptional regulator	NA	Q1MVE7	Enterobacteria_phage	72.1	3.9e-51
QAY39528.1|2024846_2025089_+	DinI family protein	NA	Q6UAW0	Klebsiella_phage	80.5	2.4e-30
QAY39529.1|2025506_2025950_+|tail	tail fiber assembly protein	tail	A0A0F7LDZ0	Escherichia_phage	72.1	9.2e-57
QAY39530.1|2025921_2026515_-|tail	tail assembly chaperone	tail	K7P870	Enterobacteria_phage	63.0	1.7e-58
QAY39531.1|2026514_2027447_-|tail	tail fiber protein	tail	K7PH60	Enterobacterial_phage	91.9	2.0e-157
QAY39532.1|2027952_2028186_+	hypothetical protein	NA	A0A0D4DAJ4	Escherichia_phage	96.1	1.3e-38
QAY39533.1|2028217_2032144_-	DUF1983 domain-containing protein	NA	K7PMC2	Enterobacterial_phage	96.4	0.0e+00
QAY39534.1|2032186_2032804_-|tail	tail assembly protein	tail	M9NZA3	Enterobacteria_phage	99.5	1.5e-105
QAY39535.1|2032796_2033516_-	peptidase P60	NA	K7PJY5	Enterobacterial_phage	99.2	1.8e-142
QAY39536.1|2033518_2034256_-|tail	phage minor tail protein L	tail	M9NYX1	Enterobacteria_phage	99.6	1.2e-146
QAY39537.1|2034312_2034651_-|tail	phage tail protein	tail	E4WL34	Enterobacteria_phage	100.0	2.3e-60
QAY39538.1|2034647_2037785_-|tail	phage tail tape measure protein	tail	E4WL33	Enterobacteria_phage	94.9	0.0e+00
QAY39539.1|2037768_2038083_-|tail	phage tail assembly protein T	tail	E4WL32	Enterobacteria_phage	93.3	8.3e-52
QAY39540.1|2038091_2038523_-|tail	phage minor tail protein G	tail	M9NZD7	Enterobacteria_phage	90.9	1.1e-65
QAY39541.1|2038533_2039277_-|tail	phage tail protein	tail	K7PKX6	Enterobacterial_phage	99.2	1.7e-132
QAY39542.1|2039286_2039688_-|tail	phage tail protein	tail	K7PHM6	Enterobacterial_phage	100.0	4.1e-72
QAY39543.1|2039684_2040263_-|tail	phage tail protein	tail	K7PMB7	Enterobacterial_phage	98.4	1.7e-95
QAY39544.1|2040272_2040548_-	DNA breaking-rejoining protein	NA	K7PH55	Enterobacterial_phage	96.2	5.9e-38
QAY39545.1|2040540_2040867_-	DUF2190 family protein	NA	K7PJY3	Enterobacterial_phage	98.1	3.9e-52
QAY42274.1|2040949_2042896_-|protease	Clp protease ClpP	protease	K7PKX4	Enterobacterial_phage	99.1	0.0e+00
QAY39546.1|2042909_2044409_-|portal	phage portal protein	portal	K7PHM5	Enterobacterial_phage	99.8	3.8e-288
QAY39547.1|2044405_2044621_-	hypothetical protein	NA	K7PMB5	Enterobacterial_phage	98.6	1.4e-31
QAY39548.1|2044617_2046720_-|terminase	phage terminase large subunit family protein	terminase	K7PH52	Enterobacterial_phage	98.7	0.0e+00
QAY39549.1|2046719_2047208_-	DUF1441 family protein	NA	K7PJY2	Enterobacterial_phage	100.0	3.1e-82
QAY39550.1|2047237_2047417_+	hypothetical protein	NA	NA	NA	NA	NA
QAY39551.1|2047391_2048120_-	Fur-regulated protein	NA	M9NZE9	Enterobacteria_phage	98.3	4.1e-118
QAY39552.1|2048294_2048525_-	Fur-regulated protein	NA	Q38201	Enterobacteria_phage	98.7	1.0e-38
QAY39553.1|2048523_2049120_+	hypothetical protein	NA	M9NZJ1	Enterobacteria_phage	100.0	9.7e-110
QAY39554.1|2049188_2049386_-	hypothetical protein	NA	K7PHC3	Enterobacterial_phage	90.8	2.2e-26
QAY39555.1|2049599_2050166_-	DUF2514 domain-containing protein	NA	A0A291LBG9	Klebsiella_phage	32.5	4.5e-08
QAY42275.1|2050099_2050642_-	lysozyme	NA	K7PM52	Enterobacteria_phage	97.2	1.3e-100
QAY39556.1|2050619_2050898_-|holin	holin	holin	K7PGZ9	Enterobacteria_phage	97.8	5.1e-45
QAY39557.1|2051043_2052096_-	site-specific DNA-methyltransferase	NA	Q8SBE2	Shigella_phage	80.7	7.8e-171
QAY39558.1|2052246_2052438_-	TrmB family transcriptional regulator	NA	Q8SBE3	Shigella_phage	84.1	3.7e-23
QAY39559.1|2052606_2053506_-	S49 family peptidase	NA	NA	NA	NA	NA
QAY39560.1|2053518_2053725_-	hypothetical protein	NA	NA	NA	NA	NA
QAY39561.1|2054157_2054847_-	antitermination protein	NA	NA	NA	NA	NA
QAY39562.1|2054868_2055864_-	DUF968 domain-containing protein	NA	A0A291AWV9	Escherichia_phage	69.9	1.0e-143
QAY39563.1|2055860_2056544_-	phage regulatory protein/antirepressor Ant	NA	G0ZND1	Cronobacter_phage	60.0	3.0e-62
QAY39564.1|2056557_2056944_-	RusA family crossover junction endodeoxyribonuclease	NA	A0A192Y8N5	Salmonella_phage	88.4	4.1e-61
QAY42276.1|2056940_2058257_-	phage N-6-adenine-methyltransferase	NA	Q8HA94	Salmonella_phage	52.3	3.6e-117
QAY39565.1|2058256_2059138_-	GntR family transcriptional regulator	NA	U5P0A0	Shigella_phage	84.1	6.0e-31
QAY39566.1|2059127_2059307_-	DUF4222 domain-containing protein	NA	S5M7S5	Escherichia_phage	65.4	7.3e-13
QAY39567.1|2059482_2060046_-	hypothetical protein	NA	S5FXP0	Shigella_phage	27.1	1.1e-06
QAY39568.1|2060077_2060335_-	hypothetical protein	NA	H6WRX5	Salmonella_phage	41.1	3.5e-08
QAY39569.1|2060404_2061124_+	XRE family transcriptional regulator	NA	S5FUZ3	Shigella_phage	34.7	1.8e-25
QAY39570.1|2061368_2061734_+|protease	Clp protease	protease	A0A1C9IHZ4	Salmonella_phage	51.6	9.7e-12
QAY39571.1|2062076_2062994_+	recombination-associated protein RdgC	NA	S4TWL4	Salmonella_phage	64.0	1.7e-105
QAY39572.1|2063102_2063642_+	HD family hydrolase	NA	A0A192Y8M4	Salmonella_phage	69.8	2.7e-66
QAY39573.1|2063802_2064057_+	hypothetical protein	NA	NA	NA	NA	NA
QAY39574.1|2064053_2064401_+	hypothetical protein	NA	A0A2H4A316	Salmonella_phage	65.5	3.5e-11
QAY39575.1|2064402_2064711_+	hypothetical protein	NA	NA	NA	NA	NA
QAY39576.1|2064724_2065192_+	DUF550 domain-containing protein	NA	S4TSR6	Salmonella_phage	84.7	9.5e-44
QAY39577.1|2065194_2065449_+	DUF4222 domain-containing protein	NA	H6WZF9	Escherichia_phage	54.4	4.1e-17
QAY39578.1|2065470_2066040_+	3'-5' exoribonuclease	NA	K7PLW7	Enterobacteria_phage	82.4	1.1e-91
QAY39579.1|2066080_2066317_+	excisionase	NA	Q8W657	Enterobacteria_phage	89.7	4.6e-39
QAY39580.1|2066375_2067689_+	DUF3596 domain-containing protein	NA	Q8W658	Enterobacteria_phage	89.9	4.3e-235
QAY39581.1|2067667_2068441_+	DUF72 domain-containing protein	NA	Q859D1	Escherichia_coli_phage	99.2	6.1e-72
QAY39582.1|2068493_2068889_+	hypothetical protein	NA	NA	NA	NA	NA
QAY39583.1|2068929_2069673_+	carboxy-S-adenosyl-L-methionine synthase CmoA	NA	F5B419	Synechococcus_phage	30.0	4.6e-24
QAY39584.1|2069669_2070641_+|tRNA	tRNA 5-methoxyuridine(34)/uridine 5-oxyacetic acid(34) synthase CmoB	tRNA	NA	NA	NA	NA
QAY39585.1|2070805_2073235_-	Trimethylamine-N-oxide reductase 2	NA	NA	NA	NA	NA
QAY39586.1|2073259_2074360_-	cytochrome C	NA	NA	NA	NA	NA
QAY39587.1|2074747_2075494_-	copper homeostasis protein CutC	NA	NA	NA	NA	NA
QAY39588.1|2075507_2076074_-	VOC family protein	NA	NA	NA	NA	NA
QAY39589.1|2076289_2078023_+|tRNA	arginine--tRNA ligase	tRNA	A0A2K9L6Z2	Tupanvirus	33.7	8.8e-87
>prophage 4
CP035486	Escherichia coli strain NissleGFP_pZE21 chromosome, complete genome	5055966	2458094	2467539	5055966		Enterobacteria_phage(85.71%)	10	NA	NA
QAY39891.1|2458094_2459231_+	VWA domain-containing protein	NA	Q9EYF7	Enterobacteria_phage	97.7	3.8e-163
QAY39892.1|2459227_2461231_+	hypothetical protein	NA	Q9EYF6	Enterobacteria_phage	95.1	0.0e+00
QAY42295.1|2461355_2461817_+	DUF1307 domain-containing protein	NA	Q9EYF5	Enterobacteria_phage	99.3	3.2e-76
QAY39893.1|2461857_2462328_-	DUF1456 family protein	NA	Q9EYF4	Enterobacteria_phage	100.0	1.8e-82
QAY39894.1|2462374_2463094_-	two-component system response regulator BtsR	NA	NA	NA	NA	NA
QAY39895.1|2463090_2464776_-	sensor histidine kinase	NA	Q9EYF3	Enterobacteria_phage	99.6	2.5e-304
QAY39896.1|2464997_2465729_+	HTH-type transcriptional regulator MlrA	NA	Q9EYF2	Enterobacteria_phage	99.0	2.2e-111
QAY39897.1|2465788_2465896_+	protein YohO	NA	NA	NA	NA	NA
QAY39898.1|2465876_2466608_-	ABC transporter permease	NA	NA	NA	NA	NA
QAY39899.1|2466612_2467539_-	ABC transporter ATP-binding protein	NA	F2Y1V5	Organic_Lake_phycodnavirus	27.3	2.6e-08
>prophage 5
CP035486	Escherichia coli strain NissleGFP_pZE21 chromosome, complete genome	5055966	2715633	2728590	5055966	integrase	Escherichia_phage(83.33%)	6	2721166:2721179	2729635:2729648
QAY40119.1|2715633_2716566_+	hypothetical protein	NA	E7DYY8	Enterobacteria_phage	99.0	4.6e-167
QAY40120.1|2717153_2717684_-	OmpH family outer membrane protein	NA	A0A2L1IV11	Escherichia_phage	99.4	5.1e-86
QAY40121.1|2717731_2725681_-	autotransporter outer membrane beta-barrel domain-containing protein	NA	A0A2L1IV38	Escherichia_phage	99.3	0.0e+00
2721166:2721179	attL	TATCAAAAATCAGG	NA	NA	NA	NA
QAY40122.1|2725705_2726326_-	LuxR family transcriptional regulator	NA	A0A2L1IV08	Escherichia_phage	99.0	5.9e-118
QAY40123.1|2726643_2727273_-	pilus assembly protein	NA	A0A2L1IV36	Escherichia_phage	99.0	1.6e-118
QAY40124.1|2728020_2728590_+|integrase	integrase	integrase	A0A2L1IV36	Escherichia_phage	52.2	7.0e-49
2729635:2729648	attR	CCTGATTTTTGATA	NA	NA	NA	NA
>prophage 6
CP035486	Escherichia coli strain NissleGFP_pZE21 chromosome, complete genome	5055966	3059501	3066641	5055966		Escherichia_phage(83.33%)	6	NA	NA
QAY40417.1|3059501_3062063_+	DNA mismatch repair protein MutS	NA	E3T5Q7	Cafeteria_roenbergensis_virus	20.8	1.6e-31
QAY40418.1|3062168_3062825_+	protein-serine/threonine phosphatase	NA	A0A077SLQ6	Escherichia_phage	45.2	2.8e-49
QAY40419.1|3062875_3063643_-	DeoR/GlpR transcriptional regulator	NA	A0A077SK06	Escherichia_phage	57.4	2.2e-69
QAY40420.1|3063838_3064747_+	NAD(P)-dependent oxidoreductase	NA	A0A077SLF7	Escherichia_phage	76.9	5.1e-118
QAY40421.1|3064743_3066006_+	four-carbon acid sugar kinase family protein	NA	A0A077SLJ7	Escherichia_phage	61.4	2.2e-135
QAY40422.1|3066002_3066641_+	aldolase	NA	A0A077SK32	Escherichia_phage	75.0	2.8e-83
>prophage 7
CP035486	Escherichia coli strain NissleGFP_pZE21 chromosome, complete genome	5055966	3298063	3357078	5055966	protease,transposase,tRNA	Escherichia_phage(33.33%)	56	NA	NA
QAY40615.1|3298063_3298822_+|protease	metalloprotease	protease	NA	NA	NA	NA
QAY40616.1|3299025_3299946_-	agmatinase	NA	NA	NA	NA	NA
QAY40617.1|3300081_3300813_-	hypothetical protein	NA	NA	NA	NA	NA
QAY40618.1|3300958_3302935_-	biosynthetic arginine decarboxylase	NA	NA	NA	NA	NA
QAY40619.1|3302943_3303075_-	acid stress response protein YqgB	NA	NA	NA	NA	NA
QAY40620.1|3303210_3303426_+	hypothetical protein	NA	NA	NA	NA	NA
QAY40621.1|3303422_3303674_-	DUF2684 family protein	NA	NA	NA	NA	NA
QAY40622.1|3303729_3304884_+	methionine adenosyltransferase	NA	A0A2H4PQS6	Staphylococcus_phage	63.2	4.0e-128
QAY40623.1|3305319_3306714_+	sugar porter family MFS transporter	NA	NA	NA	NA	NA
QAY40624.1|3306790_3307288_+|protease	SprT family zinc-dependent metalloprotease	protease	NA	NA	NA	NA
QAY40625.1|3307382_3308090_+	deoxyribonuclease I	NA	NA	NA	NA	NA
QAY40626.1|3308169_3308901_+	16S rRNA (uracil(1498)-N(3))-methyltransferase	NA	NA	NA	NA	NA
QAY40627.1|3308913_3309864_+	glutathione synthase	NA	NA	NA	NA	NA
QAY40628.1|3309972_3310536_+	YqgE/AlgH family protein	NA	NA	NA	NA	NA
QAY40629.1|3310535_3310952_+	Holliday junction resolvase RuvX	NA	NA	NA	NA	NA
QAY40630.1|3311125_3312106_-	type IV pilus twitching motility protein PilT	NA	NA	NA	NA	NA
QAY40631.1|3312123_3312828_+	YggS family pyridoxal phosphate-dependent enzyme	NA	NA	NA	NA	NA
QAY40632.1|3312845_3313412_+	YggT family protein	NA	NA	NA	NA	NA
QAY40633.1|3313408_3313699_+	YggU family protein	NA	NA	NA	NA	NA
QAY40634.1|3313706_3314300_+	XTP/dITP diphosphatase	NA	NA	NA	NA	NA
QAY40635.1|3314292_3315429_+	radical SAM family heme chaperone HemW	NA	NA	NA	NA	NA
QAY40636.1|3315497_3316505_-	DUF1202 family protein	NA	NA	NA	NA	NA
QAY40637.1|3316621_3317668_-	L-asparaginase 2	NA	NA	NA	NA	NA
QAY40638.1|3317843_3318563_-	DUF2884 family protein	NA	NA	NA	NA	NA
QAY40639.1|3318746_3319073_-	DUF469 domain-containing protein	NA	NA	NA	NA	NA
QAY40640.1|3319072_3319792_-|tRNA	tRNA (guanosine(46)-N7)-methyltransferase TrmB	tRNA	NA	NA	NA	NA
QAY40641.1|3319952_3321005_+	adenine DNA glycosylase	NA	NA	NA	NA	NA
QAY40642.1|3321032_3321308_+	oxidative damage protection protein	NA	NA	NA	NA	NA
QAY42320.1|3321372_3322452_+	membrane-bound lytic murein transglycosylase MltC	NA	NA	NA	NA	NA
QAY40643.1|3322653_3323910_+	nucleoside permease	NA	NA	NA	NA	NA
QAY40644.1|3323958_3326094_-	ornithine decarboxylase	NA	NA	NA	NA	NA
QAY40645.1|3326492_3327200_+	DUF554 domain-containing protein	NA	NA	NA	NA	NA
QAY40646.1|3327578_3328844_+	DUF4102 domain-containing protein	NA	Q7M297	Enterobacteria_phage	38.1	2.1e-77
QAY40647.1|3329099_3330143_+	tetratricopeptide repeat protein	NA	NA	NA	NA	NA
QAY40648.1|3330285_3330516_+	hypothetical protein	NA	NA	NA	NA	NA
QAY40649.1|3331835_3332387_-	MarR family transcriptional regulator	NA	NA	NA	NA	NA
QAY40650.1|3334878_3335112_+	pilus assembly protein	NA	NA	NA	NA	NA
QAY40651.1|3335177_3335465_+	hypothetical protein	NA	NA	NA	NA	NA
QAY42321.1|3335578_3335794_+	hypothetical protein	NA	A0A0N7C1Y0	Escherichia_phage	83.6	1.1e-26
QAY40652.1|3335762_3336889_-|transposase	IS3 family transposase	transposase	A0A0N7C1X7	Escherichia_phage	96.6	2.5e-146
QAY42322.1|3336979_3337093_-	hypothetical protein	NA	NA	NA	NA	NA
QAY40653.1|3338615_3338930_+	hypothetical protein	NA	NA	NA	NA	NA
QAY40654.1|3338926_3339187_+	DUF1471 domain-containing protein	NA	NA	NA	NA	NA
QAY40655.1|3339228_3339789_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA	NA
QAY40656.1|3339828_3340257_+	DUF417 family protein	NA	NA	NA	NA	NA
QAY40657.1|3340965_3342193_+|transposase	IS3 family transposase	transposase	Q9ZXG3	Shigella_phage	95.3	1.2e-170
QAY40658.1|3342168_3342357_+	hypothetical protein	NA	NA	NA	NA	NA
QAY40659.1|3342306_3343500_-	MFS transporter	NA	NA	NA	NA	NA
QAY40660.1|3343635_3345360_+	IucA/IucC family siderophore biosynthesis protein	NA	NA	NA	NA	NA
QAY40661.1|3345360_3346308_+	N-acetyltransferase	NA	NA	NA	NA	NA
QAY40662.1|3346307_3348050_+	IucA/IucC family siderophore biosynthesis protein	NA	NA	NA	NA	NA
QAY40663.1|3348046_3349324_+	L-lysine N6-monooxygenase	NA	NA	NA	NA	NA
QAY40664.1|3349405_3351607_+	TonB-dependent receptor	NA	NA	NA	NA	NA
QAY40665.1|3351544_3351790_-	hypothetical protein	NA	NA	NA	NA	NA
QAY40666.1|3352550_3356438_+|protease	serine protease autotransporter toxin Sat	protease	Q9LA58	Enterobacterial_phage	39.0	1.2e-227
QAY40667.1|3356709_3357078_+|transposase	transposase	transposase	NA	NA	NA	NA
>prophage 8
CP035486	Escherichia coli strain NissleGFP_pZE21 chromosome, complete genome	5055966	4926180	4932739	5055966	transposase	Rhizobium_phage(16.67%)	7	NA	NA
QAY42058.1|4926180_4927005_+	hypothetical protein	NA	L7TR00	Rhizobium_phage	35.5	3.0e-16
QAY42059.1|4927053_4927626_-	hypothetical protein	NA	Q858R9	Enterobacteria_phage	69.0	2.2e-71
QAY42060.1|4927726_4928077_+|transposase	transposase	transposase	Q716C1	Shigella_phage	97.7	8.9e-39
QAY42061.1|4927996_4929148_-|transposase	IS30-like element IS30 family transposase	transposase	W5R8L2	Staphylococcus_phage	36.0	2.6e-42
QAY42062.1|4930199_4930457_+	hypothetical protein	NA	NA	NA	NA	NA
QAY42063.1|4931014_4931782_-	Fe(3+) dicitrate transport ATP-binding protein FecE	NA	G3M9Y6	Bacillus_virus	24.8	6.4e-13
QAY42064.1|4931782_4932739_-	Fe(3+) dicitrate ABC transporter permease subunit FecD	NA	A0A2H4IY97	uncultured_Caudovirales_phage	26.1	1.1e-17
