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
CP012325	Clostridioides difficile strain DSM 29020 chromosome, complete genome	4139418	208081	293450	4139418	transposase,protease,coat	Geobacillus_virus(11.54%)	73	NA	NA
AXU66622.1|208081_208798_+|protease	glycoprotease	protease	NA	NA	NA	NA
AXU66623.1|208787_209264_+	ribosomal-protein-alanine acetyltransferase	NA	NA	NA	NA	NA
AXU66624.1|209269_210286_+	DNA-binding/iron metalloprotein/AP endonuclease	NA	A0A0R6PI74	Moraxella_phage	43.2	2.0e-70
AXU66625.1|210582_213291_+	4-hydroxyphenylacetate decarboxylase, catalytic subunit	NA	NA	NA	NA	NA
AXU66626.1|213294_213552_+	4-hydroxyphenylacetate decarboxylase, regulatory subunit	NA	NA	NA	NA	NA
AXU66627.1|213544_214495_+	4-hydroxyphenylacetate decarboxylase activating subunit	NA	NA	NA	NA	NA
AXU66628.1|214858_215830_-|protease	membrane-associated caaX amino terminal protease	protease	NA	NA	NA	NA
AXU66629.1|216664_217132_+	glyoxalase	NA	NA	NA	NA	NA
AXU66630.1|218623_219277_+	cyclic nucleotide-binding protein	NA	NA	NA	NA	NA
AXU66631.1|219416_220793_-	drug/sodium antiporter	NA	NA	NA	NA	NA
AXU66632.1|220808_222722_-	ABC transporter ATP-binding protein	NA	A0A2K9L3Z8	Tupanvirus	32.2	7.5e-63
AXU66633.1|222857_223490_+	redox-sensing transcriptional repressor Rex	NA	NA	NA	NA	NA
AXU66634.1|223637_224168_+	formylmethanofuran dehydrogenase subunit E	NA	NA	NA	NA	NA
AXU66635.1|224333_224504_-	ferredoxin	NA	NA	NA	NA	NA
AXU66636.1|224788_225856_+	lipoprotein	NA	NA	NA	NA	NA
AXU66637.1|226025_227927_+	oxidoreductase, acetyl-CoA synthase subunit	NA	NA	NA	NA	NA
AXU66638.1|227907_228393_+	oxidoreductase, electron transfer subunit	NA	NA	NA	NA	NA
AXU66639.1|228367_229594_+	oxidoreductase, NAD/FAD binding subunit	NA	NA	NA	NA	NA
AXU66640.1|229746_230934_-	cyclopropane-fatty-acyl-phospholipid synthase	NA	A0A2I2L5L3	Orpheovirus	33.8	5.5e-48
AXU66641.1|231206_231305_+	ATP-binding protein	NA	NA	NA	NA	NA
AXU66642.1|232049_233159_+|transposase	transposase-like protein B	transposase	A0A0H3UZC2	Geobacillus_virus	52.7	5.3e-109
AXU66643.1|233456_234005_+	ATP-binding protein	NA	NA	NA	NA	NA
AXU66644.1|234132_235398_+	NAD-specific glutamate dehydrogenase	NA	NA	NA	NA	NA
AXU66645.1|235898_237038_+|protease	membrane-associated metalloprotease	protease	NA	NA	NA	NA
AXU66646.1|237496_238519_+	cell wall hydrolase	NA	A0A0A8WF62	Clostridium_phage	55.0	3.3e-33
AXU66647.1|238813_239734_+	aspartate carbamoyltransferase catalytic chain	NA	M1HWF9	Paramecium_bursaria_Chlorella_virus	42.2	2.7e-58
AXU66648.1|239772_240465_+	dihydroorotate dehydrogenase electron transfer subunit	NA	NA	NA	NA	NA
AXU66649.1|240457_241360_+	dihydroorotate dehydrogenase 1B	NA	NA	NA	NA	NA
AXU66650.1|241444_242029_+	orotate phosphoribosyltransferase	NA	Q58MW1	Prochlorococcus_phage	28.1	2.2e-05
AXU66651.1|242245_243172_+	ketopantoate reductase	NA	NA	NA	NA	NA
AXU66652.1|243222_244113_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AXU66653.1|244300_245332_+	membrane protein	NA	NA	NA	NA	NA
AXU66654.1|245625_246501_+	DNA glycosylase	NA	NA	NA	NA	NA
AXU66655.1|246518_248009_+	cardiolipin synthetase	NA	NA	NA	NA	NA
AXU66656.1|248201_248486_+	10 kDa chaperonin	NA	A0A221S4A8	uncultured_virus	42.6	1.4e-13
AXU66657.1|248518_250147_+	60 kDa chaperonin	NA	A0A240F779	uncultured_virus	55.7	2.6e-157
AXU66658.1|250408_251149_+	NCAIR mutase-like protein	NA	A0A288TYA6	Enterococcus_phage	44.8	3.0e-20
AXU66659.1|251232_251967_+	hypothetical protein	NA	NA	NA	NA	NA
AXU66660.1|251996_252416_+	hypothetical protein	NA	NA	NA	NA	NA
AXU66661.1|252797_254333_+	GMP synthase	NA	A0A1V0SH76	Hokovirus	33.2	1.0e-22
AXU66662.1|254678_255089_+	hypothetical protein	NA	NA	NA	NA	NA
AXU66663.1|255552_256125_-	pseudaminic acid biosynthesis N-acetyl transferase	NA	NA	NA	NA	NA
AXU66664.1|256585_256792_+	membrane-associated nucleotidase	NA	NA	NA	NA	NA
AXU66665.1|257536_258646_+|transposase	transposase-like protein B	transposase	A0A0H3UZC2	Geobacillus_virus	53.0	8.1e-110
AXU66666.1|258787_259951_+	membrane-associated nucleotidase	NA	NA	NA	NA	NA
AXU66667.1|260098_260974_-	LysR family transcriptional regulator	NA	NA	NA	NA	NA
AXU66668.1|261093_261657_+	chromate transport protein ChrA	NA	NA	NA	NA	NA
AXU66669.1|261653_262220_+	chromate transporter	NA	NA	NA	NA	NA
AXU66670.1|262348_263182_-	Alpha/beta hydrolase family protein	NA	NA	NA	NA	NA
AXU66671.1|263366_266795_-	DNA repair protein	NA	A0A1B1IVR3	uncultured_Mediterranean_phage	37.6	2.8e-177
AXU66672.1|267443_269672_+	signaling protein	NA	NA	NA	NA	NA
AXU66673.1|269936_271967_+	transcription antiterminator	NA	NA	NA	NA	NA
AXU66674.1|271963_272416_+	PTS system transporter subunit IIA	NA	NA	NA	NA	NA
AXU66675.1|272417_273473_+	fructose-like permease EIIC subunit 2	NA	NA	NA	NA	NA
AXU66676.1|273543_273852_+	PTS system fructose-like transporter subunit EIIB	NA	NA	NA	NA	NA
AXU66677.1|273955_275221_+	sugar-phosphate kinase	NA	NA	NA	NA	NA
AXU66678.1|275308_276022_+	hydrolase	NA	NA	NA	NA	NA
AXU66679.1|276203_276497_-|coat	spore coat protein	coat	NA	NA	NA	NA
AXU66680.1|276502_276718_-	hypothetical protein	NA	NA	NA	NA	NA
AXU66681.1|277267_277780_-	nitroreductase	NA	A0A1V0E011	Clostridioides_phage	87.6	1.7e-83
AXU66682.1|278229_278706_+	phosphoribosylaminoimidazole carboxylase catalytic subunit	NA	A0A2P0VNU7	Tetraselmis_virus	45.8	3.1e-26
AXU66683.1|278711_279410_+	phosphoribosylaminoimidazole-succinocarboxamide synthase	NA	A0A0E3F9V5	Synechococcus_phage	43.9	1.5e-45
AXU66684.1|279421_280789_+	amidophosphoribosyltransferase	NA	A0A0M3SGR2	Mollivirus	31.0	1.2e-49
AXU66685.1|280782_281859_+	phosphoribosylformylglycinamidine cyclo-ligase	NA	A0A0E3F760	Synechococcus_phage	42.8	2.9e-64
AXU66686.1|281852_282446_+	phosphoribosylglycinamide formyltransferase	NA	M4QRX9	Synechococcus_phage	39.9	3.6e-24
AXU66687.1|282438_283971_+	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase	NA	E3SNU8	Prochlorococcus_phage	49.7	2.3e-38
AXU66688.1|283981_285232_+	phosphoribosylamine--glycine ligase	NA	NA	NA	NA	NA
AXU66689.1|285256_289063_+	formylglycinamidine ribonucleotide synthetase	NA	A6N228	Microbacterium_phage	24.1	1.2e-30
AXU66690.1|289266_290139_+	dtdp-4-dehydrorhamnose reductase	NA	H9NCE8	Sphingomonas_phage	29.0	3.3e-13
AXU66691.1|290247_291117_+	glucose-1-phosphate thymidylyltransferase	NA	I7I009	Enterobacteria_phage	61.5	6.2e-97
AXU66692.1|291165_291723_+	dtdp-4-dehydrorhamnose 3,5-epimerase	NA	I7HJC4	Enterobacteria_phage	53.6	7.5e-48
AXU66693.1|291760_292744_+	dtdp-glucose 4,6-dehydratase	NA	A0A291LAD7	Escherichia_phage	47.1	3.8e-79
AXU66694.1|292781_293450_+	transglycosylase	NA	A0A0H3V0Q1	Geobacillus_virus	46.9	4.1e-24
>prophage 2
CP012325	Clostridioides difficile strain DSM 29020 chromosome, complete genome	4139418	490916	496032	4139418	transposase	Clostridioides_phage(85.71%)	7	NA	NA
AXU66865.1|490916_491459_+	sigma-70 family RNA polymerase sigma factor	NA	A0A1V0DZZ1	Clostridioides_phage	95.6	7.3e-88
AXU66866.1|491451_492156_+	hypothetical protein	NA	A0A1V0DZZ4	Clostridioides_phage	76.9	6.5e-89
AXU66867.1|492226_492448_+	hypothetical protein	NA	A0A1V0DZZ2	Clostridioides_phage	46.6	6.5e-11
AXU66868.1|492904_493039_+	hypothetical protein	NA	A0A1V0DZZ0	Clostridioides_phage	73.3	8.4e-06
AXU66869.1|493308_493497_-	hypothetical protein	NA	A0A1V0E014	Clostridioides_phage	95.2	1.5e-21
AXU66870.1|493522_493957_-	regulatory protein	NA	A0A1V0E025	Clostridioides_phage	95.1	1.9e-70
AXU66871.1|495567_496032_+|transposase	transposase-like protein b	transposase	A0A0H3UZC2	Geobacillus_virus	63.8	6.1e-51
>prophage 3
CP012325	Clostridioides difficile strain DSM 29020 chromosome, complete genome	4139418	515654	550589	4139418	integrase	Streptococcus_phage(81.48%)	39	508368:508383	553374:553389
508368:508383	attL	TAATATTAGTATTATT	NA	NA	NA	NA
AXU66888.1|515654_515981_+	conjugative transposon protein	NA	A0A1S5SF38	Streptococcus_phage	51.5	2.0e-24
AXU66889.1|515996_516380_+	conjugative transposon protein	NA	A0A1S5SF96	Streptococcus_phage	55.9	2.3e-32
AXU66890.1|516546_516954_+	DNA-binding protein	NA	A0A0A7AQV8	Bacillus_phage	42.3	2.6e-05
AXU66891.1|516969_517296_+	hypothetical protein	NA	NA	NA	NA	NA
AXU66892.1|517396_518779_+	conjugative transposon FtsK/SpoIIIE-like protein	NA	A0A1S5SFB5	Streptococcus_phage	66.7	2.0e-174
AXU66893.1|518782_519199_+	hypothetical protein	NA	NA	NA	NA	NA
AXU66894.1|519443_520640_+	conjugative transposon replication initiation factor	NA	A0A1S5SEX3	Streptococcus_phage	62.8	4.3e-149
AXU66895.1|520651_520786_+	conjugative transposon protein	NA	NA	NA	NA	NA
AXU66896.1|520786_521008_+	conjugative transposon protein	NA	A0A1S5SEY0	Streptococcus_phage	87.7	9.0e-29
AXU66897.1|521084_521558_+	N-acetyltransferase GCN5	NA	NA	NA	NA	NA
AXU66898.1|521873_522377_+	conjugative tansposon protein	NA	NA	NA	NA	NA
AXU66899.1|522394_522898_+	conjugative transposon protein	NA	A0A1S5SF25	Streptococcus_phage	60.8	7.5e-55
AXU66900.1|523007_523406_+	conjugative transposon protein	NA	A0A1S5SEX7	Streptococcus_phage	73.0	4.1e-48
AXU66901.1|523383_525834_+	conjugative transposon protein	NA	A0A1S5SF64	Streptococcus_phage	76.1	0.0e+00
AXU66902.1|525833_528044_+	conjugative transposon protein	NA	A0A1S5SF30	Streptococcus_phage	59.9	1.6e-186
AXU66903.1|528040_529048_+	cell wall hydrolase	NA	A0A1S5SEZ8	Streptococcus_phage	68.8	3.1e-132
AXU66904.1|529064_529976_+	conjugative transposon protein	NA	A0A1S5SF22	Streptococcus_phage	52.1	4.1e-83
AXU66905.1|530097_531048_+	AraC family transcriptional regulator	NA	NA	NA	NA	NA
AXU66906.1|531171_532989_+	transporter	NA	W8CYL7	Bacillus_phage	25.7	4.8e-35
AXU66907.1|533603_534053_-	hypothetical protein	NA	NA	NA	NA	NA
AXU66908.1|534419_534791_-	hypothetical protein	NA	NA	NA	NA	NA
AXU66909.1|534909_535161_-	resolvase domain-containing protein	NA	NA	NA	NA	NA
AXU66910.1|535822_536482_-	pyrimidine reductase, riboflavin biosynthesis	NA	A0A1B0RXM8	Streptococcus_phage	100.0	3.1e-125
AXU66911.1|536592_536949_-	hypothetical protein	NA	A0A1B0RXM3	Streptococcus_phage	99.2	4.2e-60
AXU66912.1|536972_537545_-	DeoR family transcriptional regulator	NA	A0A1B0RXM1	Streptococcus_phage	99.5	5.5e-102
AXU66913.1|537820_538615_-	Aminoglycoside 3'-phosphotransferase	NA	E4ZFP6	Streptococcus_phage	100.0	2.3e-154
AXU66914.1|538707_539250_-	acetyltransferase	NA	A0A1B0RXL7	Streptococcus_phage	100.0	8.9e-94
AXU66915.1|539246_540155_-	adenylyltransferase	NA	E4ZFP8	Streptococcus_phage	93.4	2.0e-167
AXU66916.1|540187_540922_-	type 11 methyltransferase	NA	A0A1X9I6N4	Streptococcus_phage	100.0	1.5e-141
AXU66917.1|540902_541772_-	DNA polymerase beta domain-containing protein	NA	A0A1X9I6C9	Streptococcus_phage	95.8	4.3e-159
AXU66918.1|542126_543698_-	resolvase	NA	A0A2K5B2B4	Erysipelothrix_phage	61.1	1.1e-173
AXU66919.1|543701_544115_-	recombinase	NA	NA	NA	NA	NA
AXU66920.1|544115_545666_-	resolvase	NA	A0A2K5B2B2	Erysipelothrix_phage	55.4	8.6e-158
AXU66921.1|545715_547449_+	transporter	NA	W8CYL7	Bacillus_phage	29.7	7.1e-44
AXU66922.1|547575_547800_+	hypothetical protein	NA	NA	NA	NA	NA
AXU66923.1|548080_548509_+	conjugative transposon protein	NA	A0A1S5SEW0	Streptococcus_phage	43.1	1.9e-22
AXU66924.1|548501_548741_+	conjugative transposon excisionase	NA	NA	NA	NA	NA
AXU66925.1|549116_549320_+	excisionase	NA	A0A1S5SF07	Streptococcus_phage	82.1	1.9e-25
AXU66926.1|549398_550589_+|integrase	integrase	integrase	A0A1S5SEW7	Streptococcus_phage	67.0	3.1e-155
553374:553389	attR	TAATATTAGTATTATT	NA	NA	NA	NA
>prophage 4
CP012325	Clostridioides difficile strain DSM 29020 chromosome, complete genome	4139418	1414380	1438753	4139418	tail	Clostridium_phage(54.55%)	28	NA	NA
AXU67684.1|1414380_1414581_+	cold shock protein	NA	A0A1W6JNX5	Morganella_phage	66.2	2.7e-16
AXU67685.1|1415001_1415430_+	regulatory protein	NA	NA	NA	NA	NA
AXU67686.1|1415572_1416328_-	peptidyl-prolyl isomerase	NA	NA	NA	NA	NA
AXU67687.1|1416448_1416865_-	hypothetical protein	NA	NA	NA	NA	NA
AXU67688.1|1417028_1417535_-	phage protein	NA	A0A0A8WEK1	Clostridium_phage	67.7	1.1e-56
AXU67689.1|1417616_1417937_-	phage repressor	NA	A0A0A8WE28	Clostridium_phage	55.5	9.7e-24
AXU67690.1|1418105_1418303_+	phage regulatory protein	NA	NA	NA	NA	NA
AXU67691.1|1418406_1418847_+	DNA-binding protein	NA	A0A090EUN5	Clostridium_phage	47.9	1.1e-28
AXU67692.1|1419095_1419539_+	hypothetical protein	NA	A0A1V0DZX9	Clostridioides_phage	36.7	2.0e-19
AXU67693.1|1419543_1420608_+	phage-like element pbsx protein xkdK	NA	A0A1V0DZX4	Clostridioides_phage	53.1	5.8e-97
AXU67694.1|1420621_1421050_+	phage-like element pbsx protein XkdM	NA	A0A1V0DZX1	Clostridioides_phage	51.8	2.8e-34
AXU67695.1|1421163_1421610_+	Phage XkdN-like protein	NA	A0A090EUD0	Clostridium_phage	36.0	8.2e-13
AXU67696.1|1421803_1424257_+	phage protein	NA	A0A1V0DZX3	Clostridioides_phage	58.4	1.4e-16
AXU67697.1|1424256_1424679_+	phage-like element pbsx protein xkdP	NA	A0A090DBR9	Clostridium_phage	71.1	1.7e-52
AXU67698.1|1424960_1426490_+	phage cell wall hydrolase	NA	A0A1V0DZX6	Clostridioides_phage	81.1	1.3e-243
AXU67699.1|1426505_1426832_+	hypothetical protein	NA	J9QE86	Clostridium_phage	92.6	3.9e-52
AXU67700.1|1426831_1427260_+	phage protein	NA	A0A0A8WJ32	Clostridium_phage	81.0	3.7e-63
AXU67701.1|1427252_1428305_+	phage protein	NA	A0A0A8WFP3	Clostridium_phage	70.4	3.5e-139
AXU67702.1|1428301_1429000_+	phage protein	NA	A0A090D815	Clostridium_phage	56.9	9.5e-48
AXU67703.1|1429000_1429987_+|tail	phage tail fiber protein	tail	A0A2H4J039	uncultured_Caudovirales_phage	45.8	7.6e-59
AXU67704.1|1430008_1435186_+	RCC1 domain-containing protein, alpha-tubulin suppressor	NA	A0A0A8WEY5	Clostridium_phage	27.2	2.6e-81
AXU67705.1|1435202_1435556_+	hypothetical protein	NA	A0A0A8WJF2	Clostridium_phage	42.1	5.5e-12
AXU67706.1|1435818_1436079_+	hypothetical protein	NA	E2ELK7	Clostridium_phage	90.6	9.9e-35
AXU67707.1|1436289_1436745_-	hypothetical protein	NA	NA	NA	NA	NA
AXU67708.1|1436972_1437392_-	phage regulatory protein	NA	S5MUV6	Brevibacillus_phage	35.9	1.6e-05
AXU67709.1|1437687_1437897_+	phage regulatory protein	NA	Q5YAA3	Bacillus_phage	47.2	5.9e-06
AXU67710.1|1437928_1438138_+	hypothetical protein	NA	NA	NA	NA	NA
AXU67711.1|1438354_1438753_-	phage regulatory protein	NA	A0A059T669	Listeria_phage	34.5	1.0e-06
>prophage 5
CP012325	Clostridioides difficile strain DSM 29020 chromosome, complete genome	4139418	1517213	1526942	4139418		Pandoravirus(37.5%)	11	NA	NA
AXU67778.1|1517213_1517798_+	para-aminobenzoate synthase glutamine amidotransferase component II	NA	A0A0P0IKJ1	Acinetobacter_phage	53.2	2.5e-57
AXU67779.1|1517799_1519149_+	para-aminobenzoate synthase component I	NA	S4VNU7	Pandoravirus	41.6	7.7e-38
AXU67780.1|1519138_1519882_+	aminodeoxychorismate lyase	NA	NA	NA	NA	NA
AXU67781.1|1519915_1520617_+	hypothetical protein	NA	NA	NA	NA	NA
AXU67782.1|1520642_1521215_+	GTP cyclohydrolase I	NA	E7DN69	Pneumococcus_phage	51.6	2.3e-44
AXU67783.1|1521280_1522072_+	dihydropteroate synthase	NA	A0A0B5J4J5	Pandoravirus	30.0	1.1e-23
AXU67784.1|1522082_1522448_+	dihydroneopterin aldolase	NA	NA	NA	NA	NA
AXU67785.1|1522440_1522947_+	2-amino-4-hydroxy-6- hydroxymethyldihydropteridine pyrophosphokinase	NA	S4VNV0	Pandoravirus	33.9	4.2e-13
AXU67786.1|1522927_1523713_+	chorismate biosynthesis-like protein	NA	E3T537	Cafeteria_roenbergensis_virus	27.9	1.7e-13
AXU67787.1|1523967_1525758_+	DNA primase	NA	A0A0K1LMQ9	Caulobacter_phage	32.6	1.2e-51
AXU67788.1|1525775_1526942_+	RNA polymerase sigma factor (sigma-43)	NA	M4SMP8	Cyanophage	36.8	9.6e-37
>prophage 6
CP012325	Clostridioides difficile strain DSM 29020 chromosome, complete genome	4139418	1830641	1848164	4139418	integrase	Streptococcus_phage(100.0%)	16	1820669:1820684	1854298:1854313
1820669:1820684	attL	TGCTGAAAATATAACT	NA	NA	NA	NA
AXU68060.1|1830641_1831859_-|integrase	integrase	integrase	A0A1S5SEW7	Streptococcus_phage	100.0	3.7e-233
AXU68061.1|1831940_1832144_-	excisionase	NA	A0A1S5SF07	Streptococcus_phage	100.0	4.0e-31
AXU68062.1|1832604_1832835_-	conjugative transposon protein	NA	A0A1S5SEX1	Streptococcus_phage	100.0	2.7e-36
AXU68063.1|1832831_1833254_-	conjugative transposon regulatory protein	NA	A0A1S5SEW0	Streptococcus_phage	100.0	2.5e-72
AXU68064.1|1833758_1834112_+	conjugative transposon regulatory protein	NA	A0A1S5SFA6	Streptococcus_phage	100.0	1.3e-58
AXU68065.1|1834457_1836377_-	conjugative transposon tetracycline resistance protein	NA	A0A1S5SF82	Streptococcus_phage	100.0	0.0e+00
AXU68066.1|1836753_1837686_-	conjugative transposon exported protein	NA	A0A1S5SF22	Streptococcus_phage	100.0	1.1e-171
AXU68067.1|1837682_1838684_-	cell wall hydrolase	NA	A0A1S5SEZ8	Streptococcus_phage	100.0	5.0e-191
AXU68068.1|1838680_1840858_-	conjugative transposon membrane protein	NA	A0A1S5SF30	Streptococcus_phage	100.0	0.0e+00
AXU68069.1|1840860_1843308_-	conjugative transposon ATP/GTP-binding protein	NA	A0A1S5SF64	Streptococcus_phage	100.0	0.0e+00
AXU68070.1|1843772_1844270_-	conjugative transposon protein	NA	A0A1S5SF25	Streptococcus_phage	100.0	1.7e-91
AXU68071.1|1844386_1844608_-	conjugative transposon protein	NA	A0A1S5SEY0	Streptococcus_phage	100.0	4.3e-31
AXU68072.1|1844650_1845856_-	conjugative transposon replication initiation factor	NA	A0A1S5SEX3	Streptococcus_phage	100.0	2.8e-233
AXU68073.1|1846033_1847419_-	conjugative transposon FtsK/SpoIIIE family protein	NA	A0A1S5SFB5	Streptococcus_phage	100.0	1.1e-265
AXU68074.1|1847447_1847831_-	conjugative transposon protein	NA	A0A1S5SF96	Streptococcus_phage	100.0	2.3e-64
AXU68075.1|1847849_1848164_-	conjugative transposon protein	NA	A0A1S5SF38	Streptococcus_phage	100.0	5.2e-54
1854298:1854313	attR	TGCTGAAAATATAACT	NA	NA	NA	NA
>prophage 7
CP012325	Clostridioides difficile strain DSM 29020 chromosome, complete genome	4139418	1963068	1987148	4139418	integrase	Streptococcus_phage(86.96%)	34	1978403:1978417	1987996:1988010
AXU68186.1|1963068_1963395_+	conjugative transposon protein	NA	A0A1S5SF38	Streptococcus_phage	51.5	2.0e-24
AXU68187.1|1963410_1963794_+	conjugative transposon protein	NA	A0A1S5SF96	Streptococcus_phage	57.6	5.2e-32
AXU68188.1|1963961_1964369_+	DNA-binding protein	NA	A0A0A7AQV8	Bacillus_phage	42.3	1.2e-05
AXU68189.1|1964384_1964711_+	hypothetical protein	NA	NA	NA	NA	NA
AXU68190.1|1964811_1966206_+	conjugative transposon FtsK/SpoIIIE-like protein	NA	A0A1S5SFB5	Streptococcus_phage	66.2	1.9e-177
AXU68191.1|1966389_1967586_+	conjugative transposon replication initiation factor	NA	A0A1S5SEX3	Streptococcus_phage	62.5	7.3e-149
AXU68192.1|1967598_1967733_+	conjugative transposon protein	NA	NA	NA	NA	NA
AXU68193.1|1967733_1967955_+	conjugative transposon protein	NA	A0A1S5SEY0	Streptococcus_phage	87.7	9.0e-29
AXU68194.1|1968158_1968935_+	Xre family transcriptional regulator	NA	W6LMS6	Streptococcus_phage	46.6	4.9e-05
AXU68195.1|1969019_1969316_+	hypothetical protein	NA	NA	NA	NA	NA
AXU68196.1|1969255_1969738_+	conjugative tansposon protein	NA	NA	NA	NA	NA
AXU68197.1|1969755_1970259_+	conjugative transposon protein	NA	A0A1S5SF25	Streptococcus_phage	61.4	3.4e-55
AXU68198.1|1970376_1970775_+	conjugative transposon protein	NA	A0A1S5SEX7	Streptococcus_phage	73.0	3.2e-48
AXU68199.1|1970752_1973203_+	conjugative transposon protein	NA	A0A1S5SF64	Streptococcus_phage	76.1	0.0e+00
AXU68200.1|1973202_1975398_+	conjugative transposon protein	NA	A0A1S5SF30	Streptococcus_phage	68.6	4.4e-176
AXU68201.1|1975394_1976402_+	cell wall hydrolase	NA	A0A1S5SEZ8	Streptococcus_phage	69.9	3.0e-135
AXU68202.1|1976417_1977329_+	conjugative transposon protein	NA	A0A1S5SF22	Streptococcus_phage	52.8	1.2e-82
AXU68203.1|1977449_1977827_+	GntR family transcriptional regulator	NA	NA	NA	NA	NA
AXU68204.1|1977827_1978691_+	transporter	NA	A0A2H4PQG7	Staphylococcus_phage	30.2	3.3e-18
1978403:1978417	attL	TGATTTAGAAAAAAT	NA	NA	NA	NA
AXU68205.1|1978687_1979332_+	ABC transporter permease	NA	NA	NA	NA	NA
AXU68206.1|1979344_1979536_+	hypothetical protein	NA	NA	NA	NA	NA
AXU68207.1|1979740_1979929_+	conjugative transposon protein	NA	D0R0F6	Streptococcus_phage	57.9	8.2e-15
AXU68208.1|1980036_1980396_-	transposon-related DNA-binding protein	NA	A0A1S5SFA6	Streptococcus_phage	45.0	2.3e-21
AXU68209.1|1980588_1980798_+	Omega Transcriptional Repressor	NA	A0A1X9I6D5	Streptococcus_phage	100.0	6.3e-32
AXU68210.1|1980814_1981087_+	Antitoxin epsilon	NA	A0A1X9I6E5	Streptococcus_phage	100.0	5.0e-05
AXU68211.1|1981088_1981247_+	UDP-N-acetylglucosamine kinase	NA	NA	NA	NA	NA
AXU68212.1|1981298_1981718_+	plasmid protein	NA	NA	NA	NA	NA
AXU68213.1|1981764_1982502_+	rRNA adenine N-6-methyltransferase	NA	E4ZFQ0	Streptococcus_phage	99.6	1.4e-134
AXU68214.1|1982506_1982638_+	hypothetical protein	NA	E4ZFP9	Streptococcus_phage	90.7	8.2e-14
AXU68215.1|1983034_1983913_+	plasmid replication protein	NA	A0A1X9I765	Streptococcus_phage	97.8	1.2e-148
AXU68216.1|1984360_1984777_+	conjugative transposon protein	NA	A0A1S5SEW0	Streptococcus_phage	38.0	3.8e-20
AXU68217.1|1984783_1985032_+	conjugative transposon excisionase	NA	NA	NA	NA	NA
AXU68218.1|1985426_1985684_+	excisionase	NA	NA	NA	NA	NA
AXU68219.1|1985702_1987148_+|integrase	integrase	integrase	A0A0A8WIF9	Clostridium_phage	23.9	3.5e-12
1987996:1988010	attR	TGATTTAGAAAAAAT	NA	NA	NA	NA
>prophage 8
CP012325	Clostridioides difficile strain DSM 29020 chromosome, complete genome	4139418	2238167	2242904	4139418		Clostridium_phage(100.0%)	10	NA	NA
AXU68436.1|2238167_2238410_-	hypothetical protein	NA	X5JAK5	Clostridium_phage	87.5	2.0e-29
AXU68437.1|2238774_2238993_-	hypothetical protein	NA	NA	NA	NA	NA
AXU68438.1|2239170_2239542_-	hypothetical protein	NA	NA	NA	NA	NA
AXU68439.1|2239984_2240557_-	phage protein	NA	A0A0A8WFN9	Clostridium_phage	65.7	1.4e-57
AXU68440.1|2240678_2240882_+	hypothetical protein	NA	NA	NA	NA	NA
AXU68441.1|2240900_2241275_+	hypothetical protein	NA	NA	NA	NA	NA
AXU68442.1|2241542_2241737_-	hypothetical protein	NA	Q24LC9	Clostridium_phage	93.4	3.0e-28
AXU68443.1|2242027_2242150_-	hypothetical protein	NA	A0A0A8WJ78	Clostridium_phage	74.3	6.3e-08
AXU68444.1|2242273_2242633_-	hypothetical protein	NA	A0A0A8WG34	Clostridium_phage	58.8	9.5e-36
AXU68445.1|2242646_2242904_-	hypothetical protein	NA	A0A0A8WJU8	Clostridium_phage	90.6	6.4e-34
>prophage 9
CP012325	Clostridioides difficile strain DSM 29020 chromosome, complete genome	4139418	3069825	3080875	4139418		Streptococcus_phage(100.0%)	10	NA	NA
AXU69164.1|3069825_3071394_-	cell wall hydrolase	NA	A0A1S5SEZ8	Streptococcus_phage	100.0	2.1e-188
AXU69165.1|3071390_3071831_-	conjugative transposon membrane protein	NA	A0A1S5SF30	Streptococcus_phage	85.0	1.9e-38
AXU69166.1|3071772_3073569_-	conjugative transposon membrane protein	NA	A0A1S5SF30	Streptococcus_phage	100.0	0.0e+00
AXU69167.1|3073571_3076019_-	conjugative transposon ATP/GTP-binding protein	NA	A0A1S5SF64	Streptococcus_phage	100.0	0.0e+00
AXU69168.1|3076483_3076981_-	conjugative transposon protein	NA	A0A1S5SF25	Streptococcus_phage	100.0	1.7e-91
AXU69169.1|3077097_3077319_-	conjugative transposon protein	NA	A0A1S5SEY0	Streptococcus_phage	100.0	4.3e-31
AXU69170.1|3077361_3078567_-	conjugative transposon replication initiation factor	NA	A0A1S5SEX3	Streptococcus_phage	100.0	2.8e-233
AXU69171.1|3078744_3080130_-	conjugative transposon FtsK/SpoIIIE family protein	NA	A0A1S5SFB5	Streptococcus_phage	100.0	1.1e-265
AXU69172.1|3080158_3080542_-	conjugative transposon protein	NA	A0A1S5SF96	Streptococcus_phage	100.0	2.3e-64
AXU69173.1|3080560_3080875_-	conjugative transposon protein	NA	A0A1S5SF38	Streptococcus_phage	100.0	5.2e-54
>prophage 10
CP012325	Clostridioides difficile strain DSM 29020 chromosome, complete genome	4139418	3176135	3185087	4139418		Catovirus(50.0%)	8	NA	NA
AXU69245.1|3176135_3178049_-	capsular polysaccharide biosynthesis protein	NA	A0A1V0SAI8	Catovirus	29.8	1.1e-26
AXU69246.1|3178131_3179223_-	capsular polysaccharide biosynthesis glycosyl transferase	NA	A0A1V0SL50	Klosneuvirus	26.2	1.0e-16
AXU69247.1|3179228_3180596_-	UDP-glucose 6-dehydrogenase	NA	A0A127AXI2	Bacillus_phage	43.4	1.5e-89
AXU69248.1|3180549_3181302_-	teichuronic acid biosynthesis glycosyl transferase	NA	A0A1V0SAH6	Catovirus	40.5	3.5e-16
AXU69249.1|3181349_3182258_-	beta-glycosyltransferase	NA	NA	NA	NA	NA
AXU69250.1|3182279_3183029_-	teichuronic acid biosynthesis glycosyl transferase	NA	A0A1V0SAH6	Catovirus	38.8	1.2e-16
AXU69251.1|3183057_3184233_-	minor teichoic acid biosynthesis protein	NA	NA	NA	NA	NA
AXU69252.1|3184247_3185087_-	glycosyl transferase	NA	A0A2P1ELT8	Moumouvirus	25.9	1.8e-05
>prophage 11
CP012325	Clostridioides difficile strain DSM 29020 chromosome, complete genome	4139418	3748589	3797691	4139418	transposase,integrase,protease	Bacillus_phage(25.0%)	50	3772322:3772339	3804569:3804586
AXU69708.1|3748589_3749669_-|protease	protease	protease	A0A1B1IT49	uncultured_Mediterranean_phage	26.0	5.6e-15
AXU69709.1|3749823_3751173_-	glucose-6-phosphate isomerase	NA	NA	NA	NA	NA
AXU69710.1|3751436_3753065_-	sodium-dependent phosphate transporter	NA	NA	NA	NA	NA
AXU69711.1|3753187_3754792_-	FAD-dependent dehydrogenase	NA	NA	NA	NA	NA
AXU69712.1|3754839_3755157_-	hypothetical protein	NA	NA	NA	NA	NA
AXU69713.1|3755161_3755527_-	hypothetical protein	NA	NA	NA	NA	NA
AXU69714.1|3755607_3756645_-	protein translocase	NA	NA	NA	NA	NA
AXU69715.1|3756897_3757482_-	hypothetical protein	NA	NA	NA	NA	NA
AXU69716.1|3757496_3757940_-	hypothetical protein	NA	NA	NA	NA	NA
AXU69717.1|3757940_3758813_-	fimbrial assembly protein	NA	NA	NA	NA	NA
AXU69718.1|3758866_3759217_-	type IV pilin	NA	NA	NA	NA	NA
AXU69719.1|3759270_3760356_-	type IV pilus-assembly protein	NA	NA	NA	NA	NA
AXU69720.1|3760526_3761876_-	type IV pilus-assembly protein	NA	NA	NA	NA	NA
AXU69721.1|3761898_3762579_-	membrane protein	NA	NA	NA	NA	NA
AXU69722.1|3763181_3764261_-	ATP/GTP-binding protein	NA	NA	NA	NA	NA
AXU69723.1|3764836_3766207_+	transporter	NA	NA	NA	NA	NA
AXU69724.1|3766470_3767082_-	ribosome biogenesis GTP-binding protein YsxC	NA	NA	NA	NA	NA
AXU69725.1|3767071_3769435_-|protease	ATP-dependent protease La	protease	A0A0R6PGP8	Moraxella_phage	44.4	2.4e-175
AXU69726.1|3769614_3770127_+	chromate transport protein	NA	NA	NA	NA	NA
AXU69727.1|3770114_3770642_+	chromate transport protein	NA	NA	NA	NA	NA
AXU69728.1|3770710_3771961_-|protease	ATP-dependent protease ATP-binding subunit ClpX	protease	G3M9Z9	Bacillus_virus	63.1	6.1e-146
AXU69729.1|3771979_3772564_-|protease	ATP-dependent Clp protease proteolytic subunit	protease	A0A223W000	Agrobacterium_phage	58.8	9.3e-57
3772322:3772339	attL	CATAGTATCATATATAGC	NA	NA	NA	NA
AXU69730.1|3772713_3774000_-	trigger factor	NA	NA	NA	NA	NA
AXU69731.1|3774193_3774664_-	phosphoesterase	NA	NA	NA	NA	NA
AXU69732.1|3774663_3776013_-	ribonuclease PH	NA	NA	NA	NA	NA
AXU69733.1|3776171_3778196_-	DNA ligase	NA	A0A0K2QQN8	Ralstonia_phage	37.7	3.4e-114
AXU69734.1|3778382_3779321_-	D-isomer specific 2-hydroxyacid dehydrogenase	NA	NA	NA	NA	NA
AXU69735.1|3779422_3779845_-	hypothetical protein	NA	NA	NA	NA	NA
AXU69736.1|3780032_3780623_+	transporter	NA	NA	NA	NA	NA
AXU69737.1|3780937_3781210_+	hypothetical protein	NA	NA	NA	NA	NA
AXU69738.1|3781265_3781463_+	hypothetical protein	NA	NA	NA	NA	NA
AXU69739.1|3781483_3781669_+	hypothetical protein	NA	NA	NA	NA	NA
AXU69740.1|3782156_3782372_+	XRE family transcriptional regulator	NA	NA	NA	NA	NA
AXU69741.1|3782564_3783248_-	bifunctional HTH-domain containing protein/aminotransferase	NA	NA	NA	NA	NA
AXU69742.1|3783496_3783826_+	hypothetical protein	NA	NA	NA	NA	NA
AXU69743.1|3783884_3784994_+	conjugative transposon replication initiation factor	NA	NA	NA	NA	NA
AXU69744.1|3785013_3785196_+	Helix-turn-helix domain protein	NA	NA	NA	NA	NA
AXU69745.1|3785281_3786556_+|integrase	integrase family protein	integrase	A0A1C8E994	Bacillus_phage	25.3	2.0e-19
AXU69746.1|3786685_3787375_+	transporter	NA	NA	NA	NA	NA
AXU69747.1|3787450_3787966_-	electron transport protein	NA	NA	NA	NA	NA
AXU69748.1|3787965_3789342_-	hydrogenase	NA	NA	NA	NA	NA
AXU69749.1|3789366_3789918_-	electron transport protein	NA	NA	NA	NA	NA
AXU69750.1|3789954_3790170_-	hypothetical protein	NA	NA	NA	NA	NA
AXU69751.1|3790138_3790972_-	formate dehydrogenase accessory protein	NA	NA	NA	NA	NA
AXU69752.1|3791020_3792700_-	formate dehydrogenase H	NA	NA	NA	NA	NA
AXU69753.1|3792748_3793165_-	formate dehydrogenase H	NA	NA	NA	NA	NA
AXU69754.1|3793415_3794474_-	ABC transporter permease	NA	NA	NA	NA	NA
AXU69755.1|3794684_3795344_-	two-component response regulator	NA	W8CYM9	Bacillus_phage	31.3	1.0e-27
AXU69756.1|3795653_3796283_+	hypothetical protein	NA	NA	NA	NA	NA
AXU69757.1|3796581_3797691_-|transposase	transposase-like protein B	transposase	A0A0H3UZC2	Geobacillus_virus	53.2	3.1e-109
3804569:3804586	attR	CATAGTATCATATATAGC	NA	NA	NA	NA
