CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
NC_011147	Salmonella enterica subsp. enterica serovar Paratyphi A str. AKU_12601, complete genome	3 crisprs	cas3,DEDDh,DinG,WYL,csa3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,PD-DExK	0	7	9	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_011147_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011147_1

2511032-2511126

Orphan

Consensus_repeat	Method
TGGACAATCGTTGGACACCCGTTGGACAA	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_011147_1

>merge|NC_011147|1|2511032-2511126|CRISPRCasFinder
TGGACAATCGTTGGACACCCGTTGGACAACATTCGCTGTGAGCCGCGTCATTACTGTTGTTTGCGTTGGACAATCGTTGGACATCCGTTGGACAA

>NC_011147|1|1|2511032-2511126|CRISPRCasFinder
TGGACAATCGTTGGACACCCGTTGGACAA	CATTCGCTGTGAGCCGCGTCATTACTGTTGTTTGCGT
TGGACAATCGTTGGACATCCGTTGGACAA

Protein	Signature genes	Signature genes Name	Protein_function
NC_011147.1\|WP_000786965.1\|2513743_2513953_-\|fumarate-hydratase-FumD	unknown	unknown	gnl\|CDD\|182359
NC_011147.1\|WP_000248682.1\|2508913_2509120_-\|hypothetical-protein	unknown	unknown	unknown
NC_011147.1\|WP_000811302.1\|2507712_2508159_-\|recombination-protein-NinB	unknown	unknown	gnl\|CDD\|368607
NC_011147.1\|WP_001103491.1\|2511694_2511976_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|336083
NC_011147.1\|WP_000344579.1\|2508414_2508735_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|236599
NC_011147.1\|WP_000679702.1\|2507542_2507716_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|340181
NC_011147.1\|WP_011233124.1\|2507055_2507397_-\|DUF2591-family-protein	unknown	unknown	gnl\|CDD\|107039
NC_011147.1\|WP_000049340.1\|2508115_2508412_-\|hypothetical-protein	unknown	unknown	unknown
NC_011147.1\|WP_001125982.1\|2511513_2511660_-\|DUF2740-family-protein	unknown	unknown	gnl\|CDD\|287804
NC_011147.1\|WP_000712403.1\|2512412_2513102_+\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|225484
NC_011147.1\|WP_000680395.1\|2513459_2513705_+\|hypothetical-protein	unknown	unknown	unknown
NC_011147.1\|WP_000950962.1\|2506886_2507063_-\|protein-ninF	unknown	unknown	gnl\|CDD\|283468
NC_011147.1\|WP_000131495.1\|2509195_2510632_-\|AAA-family-ATPase	unknown	unknown	gnl\|CDD\|274672
NC_011147.1\|WP_000216028.1\|2514316_2514619_+\|hypothetical-protein	unknown	unknown	unknown
NC_011147.1\|WP_000975822.1\|2508746_2508902_-\|hypothetical-protein	unknown	unknown	unknown
NC_011147.1\|WP_001066166.1\|2514631_2515219_-\|super-infection-exclusion-protein-B	unknown	unknown	gnl\|CDD\|379492
NC_011147.1\|WP_000213983.1\|2515432_2515627_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|287970
NC_011147.1\|WP_000113770.1\|2507399_2507576_-\|NinE-family-protein	unknown	unknown	gnl\|CDD\|283078
NC_011147.1\|WP_000182204.1\|2512086_2512302_-\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|374243
NC_011147.1\|WP_000542409.1\|2515663_2515957_+\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NC_011147.1\|WP_000786965.1\|2513743_2513953_-\|fumarate-hydratase-FumD	gnl\|CDD\|182359	PRK10292, PRK10292, fumarate hydratase FumD.	4.07195e-30
NC_011147.1\|WP_000679702.1\|2507542_2507716_-\|hypothetical-protein	gnl\|CDD\|340181	pfam17466, NinD, Family of unknown function. This is a family of unknown function found in Enterobacteria phage P22 and Enterobacteria phage lambda.	5.83527e-32
NC_011147.1\|WP_000811302.1\|2507712_2508159_-\|recombination-protein-NinB	gnl\|CDD\|368607	pfam05772, NinB, NinB protein. The ninR region of phage lambda contains two recombination genes, orf (ninB) and rap (ninG), that have roles when the RecF and RecBCD recombination pathways of E. coli, respectively, operate on phage lambda. NinB binds to single-stranded DNA.	8.55108e-51
NC_011147.1\|WP_001103491.1\|2511694_2511976_-\|hypothetical-protein	gnl\|CDD\|336083	pfam05269, Phage_CII, Bacteriophage CII protein. This family consists of several phage CII regulatory proteins. CII plays a key role in the lysis-lysogeny decision in bacteriophage lambda and related phages.	3.32738e-25
NC_011147.1\|WP_000344579.1\|2508414_2508735_-\|hypothetical-protein	gnl\|CDD\|236599	PRK09632, PRK09632, ATP-dependent DNA ligase; Reviewed.	0.00190041
NC_011147.1\|WP_011233124.1\|2507055_2507397_-\|DUF2591-family-protein	gnl\|CDD\|107039	PHA01519, PHA01519, hypothetical protein.	3.40254e-44
NC_011147.1\|WP_001125982.1\|2511513_2511660_-\|DUF2740-family-protein	gnl\|CDD\|287804	pfam10872, DUF2740, Protein of unknown function (DUF2740). This family of proteins with unknown function has a highly conserved sequence.	6.19611e-17
NC_011147.1\|WP_000712403.1\|2512412_2513102_+\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|225484	COG2932, COG2932, Predicted transcriptional regulator [Transcription].	4.14427e-29
NC_011147.1\|WP_000950962.1\|2506886_2507063_-\|protein-ninF	gnl\|CDD\|283468	pfam05810, NinF, NinF protein. This family consists of several bacteriophage NinF proteins as well as related sequences from E. coli.	3.34566e-20
NC_011147.1\|WP_000131495.1\|2509195_2510632_-\|AAA-family-ATPase	gnl\|CDD\|274672	TIGR03600, phage_DnaB, phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model. [Mobile and extrachromosomal element functions, Prophage functions].	0
NC_011147.1\|WP_001066166.1\|2514631_2515219_-\|super-infection-exclusion-protein-B	gnl\|CDD\|379492	pfam14163, SieB, Super-infection exclusion protein B. This family includes superinfection exclusion proteins. These proteins prevent the growth of superinfecting phage which are insensitive to repression. It aborts lytic development of superinfecting phage.	5.52362e-25
NC_011147.1\|WP_000213983.1\|2515432_2515627_+\|hypothetical-protein	gnl\|CDD\|287970	pfam11058, Ral, Antirestriction protein Ral. Ral alleviates restriction and enhances modification by the E.Coli restriction and modification system.	2.82101e-32
NC_011147.1\|WP_000113770.1\|2507399_2507576_-\|NinE-family-protein	gnl\|CDD\|283078	pfam05322, NinE, NINE Protein. This family consists of NINE proteins from several bacteriophages and from E. coli.	8.66111e-25
NC_011147.1\|WP_000182204.1\|2512086_2512302_-\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|374243	pfam15943, YdaS_antitoxin, Putative antitoxin of bacterial toxin-antitoxin system, YdaS/YdaT. YdaS_antitoxin is a family of putative bacterial antitoxins, neutralising the toxin YdaT, family pfam06254.	4.10103e-21

>NC_011147.1|WP_000131495.1|2509195_2510632_-|AAA-family-ATPase
MTDNFYAPPHSIEAEQAVIGGLLLDDDSSERVQKVLAMLKPDSFYSRPHKILFEEITRMHREQKPVDGLTLFDELERKSLTVSVGGFAYIADIAKNTPSAANIVAYAMQVRETAMERYAINRMTEATELLYSRNGMTATQKYEAIQAIFTQLTDHAKTGSRRGLRSFGEVMEDWVGNLEKRFDPSGEQRGMSTGIPSLDRMLSPKGLVKGSLFVIGARPKMGKTTLYSQMAINCAVHEKKPALMFSLEMPGDQILEKLVGQKSGVNPNIFYLPATNDADDGYQGDYDGDFNRAIETANRLSEIDMLYIDDTPGLSLAQIVSESRRIKREKGCVGMILVDYLTLMTAEKADRNDLAYGMITKGLKNLAKELDCVVVLLTQLNRALENRTNKRPLPSDSRDTGQIEQDCDYWVGIHREGAFDDSVPPGETELILRLNRHGNTGTVYCIQANGAIYDTDQQSAEMRRREREEPHSKKKGGF
>NC_011147.1|WP_000248682.1|2508913_2509120_-|hypothetical-protein
MVNWMLAAIKCIGVGWILLTFFIVLRSYISLVNGGKDPFSMLFGAAFTWVLIGIVPVAIAKMAWCFIN
>NC_011147.1|WP_000975822.1|2508746_2508902_-|hypothetical-protein
MMKISEINYSVIFDALKAYYEVEEDDSVWEIFNQADDQIEEIANALKVLGE
>NC_011147.1|WP_000344579.1|2508414_2508735_-|hypothetical-protein
MDESRKQFQSWFADEIVGADVEFPEFEDGEYVAGEIYDEQLYVMLQAMYMAWIASRAAIEIELPAKNDISGDDHPIPDLVDWDDGRNAGIQECAEAIRAAGIKVKE
>NC_011147.1|WP_000049340.1|2508115_2508412_-|hypothetical-protein
MSKVSRGMKISLIFILNPHRIFLASAVWLSDFVYWLADKLDDFARWLENFANARFESWPLIGERMSDELNRYYADKRKEKSRRESEAIIPASQRSNQK
>NC_011147.1|WP_000811302.1|2507712_2508159_-|recombination-protein-NinB
MKQLFLLRNEAIRNNAIDAILSLPIDDKSPHEVHVKEPKRTKAQNDRMWLMLQDVSRQVLWHGQRLSPEDWKDIFTALWLKTKKLEQRSVPGIDGGVVLLGVRTSKMRKASMTELIEIMFWFGSERNVRWSDDSRREYEWSKRTGRVA
>NC_011147.1|WP_000679702.1|2507542_2507716_-|hypothetical-protein
MKHCYRCGESKDDYRFRPNQPYWHQWCIRCERSPVGNFPLPETKEDVWHDSDEVSPT
>NC_011147.1|WP_000113770.1|2507399_2507576_-|NinE-family-protein
MARQRRSITDIICENCKYLPTKRSRNKRKPIPKESDVKTFNYTAHLWDIRWLRERARK
>NC_011147.1|WP_011233124.1|2507055_2507397_-|DUF2591-family-protein
MDYSQLSDFEINRMVGDIIFKGLWACKPETSGNNTNKLYYGNADTTFEPLNHLPDYCNDPSASWPIIEKHRISILDQLTEWCVDAKGVSPIFDTRPLRAAMIVFLMMQDANNA
>NC_011147.1|WP_000950962.1|2506886_2507063_-|protein-ninF
MLSPSQSLQYQKESVERALTCANCGQKLHVLEVHVCEHCCAELMSDPNSSMYEEEDDE
>NC_011147.1|WP_001125982.1|2511513_2511660_-|DUF2740-family-protein
MPKQLSPDQDKLHKNILRDRFLSSFKQPGRFRAELEKVKLMQKEKGHE
>NC_011147.1|WP_001103491.1|2511694_2511976_-|hypothetical-protein
MNVVATKSKKAARIESTLLNKLAMMGQKTFAKAMGVPEYQVSRWKNGFFSQVSMMLAVLEYGIEDEEMAELTRRLAIYLTKEKAPKNGEFFEA
>NC_011147.1|WP_000182204.1|2512086_2512302_-|helix-turn-helix-domain-containing-protein
MTNKAIQKAVAIAGSQQKLASLCGVKQPTVWRWLHGGGIDAKYVAAIVKATGGRIKARELRPDLADLLAAS
>NC_011147.1|WP_000712403.1|2512412_2513102_+|helix-turn-helix-transcriptional-regulator
MKKETLSDRLNKAMELAGMSQGALAKASGVAQPTIWRLTSGNARGSTKIVEIANALGVNSEWLSTGIGPMKKDGTTPINASPSSNTFKIDILDLEVSAGPGVINREFVEILRSVEYSQDDARHMFDGRKAENIRIINVRGDSMSGTIEPGDLLFVDVSIKNFDGDGIYAFLYDDTAHVKRLQKMKDKLLVISDNKSYSAWDPIERDEMNRVFVFGKVIGSMPQTYRKHG
>NC_011147.1|WP_000680395.1|2513459_2513705_+|hypothetical-protein
MKHICKKDHRYDPRFTSLPENQGNTGRHKCPGCAFELAMELKAKGIPMYNDDSILADLPESQAGTVRHKDAFEAYKMAYQA
>NC_011147.1|WP_000786965.1|2513743_2513953_-|fumarate-hydratase-FumD
MKNEELAQLRYQEMCRIVGDVVFAMVAEGHETKRVAIADVIRTEIAKGLDKWDDDQLQCMKLAVKLLEE
>NC_011147.1|WP_000216028.1|2514316_2514619_+|hypothetical-protein
MTVIIYGKSTFAGNAKTRRHERRRKLAMERDTICNIIDSIFGCDAPDASHEVKAKRIDRVTKAISLAGTRQKEVEGGSVLLPDVALYAAGHRKSKQITAR
>NC_011147.1|WP_001066166.1|2514631_2515219_-|super-infection-exclusion-protein-B
MNNSWWQELKHFFLQGMTLKQLIHMLIILILLIVVMPVSVKEWVNLHNPEILPHYWMYYILLFCVSYVLNGVFNSVYHAVTERIEALTAQRRKAREEKVVRDLFDSLTPGERAYLAFAVAANNQLKTEKGSPESISLLEKGLITRLPSVIGYPDIDRFVIPEKYFNECYMRFAGKSDILMNELIAQDEQLKKITT
>NC_011147.1|WP_000213983.1|2515432_2515627_+|hypothetical-protein
MTTTIDTNQWCSRFVKCKGCKLDAECMVKPEEMALVREDGKIVDKWAIRTTEMIARELEKLKAI
>NC_011147.1|WP_000542409.1|2515663_2515957_+|hypothetical-protein
MGYTPGPWKWWTSNSFLRLSSQATGKDGGVIDSYVMKDGHSSLIVSKEDMNLIAAAPELLEALLNIVDMEYDVSEWDAVYAKARAAISKALGEERWK

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Crispr_ID: NC_011147_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011147_2

2885105-2885560

TypeI-E

I-E

Consensus_repeat	Method
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CRISPRCasFinder
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CRT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	PILER-CR

7 spacers

cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas3

The CRISPR arrays of NC_011147_2

>merge|NC_011147|2|2885105-2885560|CRISPRCasFinder,CRT,PILER-CR
GTGTTTATCCCCGCTGGCGCGGGGAACACGAATCATTCTGTCACGAACAATTATATTTTCTCGGTTTATCCCCGCTGGCGCGGGGAACACGACATTTGACACTATGCGCGATGATGCAATCGCGGTTTATCCCCGCTGGCGCGGGGAACACCGTTTACGTTTGCCGACGATTTAACTAAACAGCGGTTTATCCCCGCTGGCGCGGGGAACACAGCGCCGCCCTCGCGTAGAAAGTGTTCGTGTGCGGTTTATCCCCGCTGGCGCGGGGAACACCTCATTACGATGTGACGCAATACCGTGCTGTCCGGTTTATCCCCGCTGGCGCGGGGAACACAGCATTTTCTTTGCTGGCCCCCATTTGGTGTACGGTTTATCCCCGCTGGCGCGGGGAACACACGTAGCCGGTACAACTGACGCAGTAGACGTGCGGTTTATCCCCGCTGGCGCGGGGAACAC

>NC_011147|2|2|2885105-2885560|CRISPRCasFinder
GTGTTTATCCCCGCTGGCGCGGGGAACAC	GAATCATTCTGTCACGAACAATTATATTTTCT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	GACATTTGACACTATGCGCGATGATGCAATCG
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CGTTTACGTTTGCCGACGATTTAACTAAACAG
CGGTTTATCCCCGCTGGCGCGGGGAACAC	AGCGCCGCCCTCGCGTAGAAAGTGTTCGTGTG
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CTCATTACGATGTGACGCAATACCGTGCTGTC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	AGCATTTTCTTTGCTGGCCCCCATTTGGTGTA
CGGTTTATCCCCGCTGGCGCGGGGAACAC	ACGTAGCCGGTACAACTGACGCAGTAGACGTG
CGGTTTATCCCCGCTGGCGCGGGGAACAC

>NC_011147|2|1|2885105-2885560|CRT
GTGTTTATCCCCGCTGGCGCGGGGAACAC	GAATCATTCTGTCACGAACAATTATATTTTCT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	GACATTTGACACTATGCGCGATGATGCAATCG
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CGTTTACGTTTGCCGACGATTTAACTAAACAG
CGGTTTATCCCCGCTGGCGCGGGGAACAC	AGCGCCGCCCTCGCGTAGAAAGTGTTCGTGTG
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CTCATTACGATGTGACGCAATACCGTGCTGTC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	AGCATTTTCTTTGCTGGCCCCCATTTGGTGTA
CGGTTTATCCCCGCTGGCGCGGGGAACAC	ACGTAGCCGGTACAACTGACGCAGTAGACGTG
CGGTTTATCCCCGCTGGCGCGGGGAACAC

>NC_011147|2|1|2885107-2885560|PILER-CR
GTTTATCCCCGCTGGCGCGGGGAACACGA	ATCATTCTGTCACGAACAATTATATTTTCTCG
GTTTATCCCCGCTGGCGCGGGGAACACGA	CATTTGACACTATGCGCGATGATGCAATCGCG
GTTTATCCCCGCTGGCGCGGGGAACACCG	TTTACGTTTGCCGACGATTTAACTAAACAGCG
GTTTATCCCCGCTGGCGCGGGGAACACAG	CGCCGCCCTCGCGTAGAAAGTGTTCGTGTGCG
GTTTATCCCCGCTGGCGCGGGGAACACCT	CATTACGATGTGACGCAATACCGTGCTGTCCG
GTTTATCCCCGCTGGCGCGGGGAACACAG	CATTTTCTTTGCTGGCCCCCATTTGGTGTACG
GTTTATCCCCGCTGGCGCGGGGAACACAC	GTAGCCGGTACAACTGACGCAGTAGACGTGCG
GTTTATCCCCGCTGGCGCGGGGAACAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_011147.1\|WP_001173658.1\|2880843_2881449_-\|adenylyl-sulfate-kinase	unknown	unknown	gnl\|CDD\|179661
NC_011147.1\|WP_000372402.1\|2882884_2883793_-\|sulfate-adenylyltransferase-subunit-CysD	unknown	unknown	gnl\|CDD\|235375
NC_011147.1\|WP_001219244.1\|2878759_2879239_-\|2-C-methyl-D-erythritol-2,4-cyclodiphosphate-synthase	unknown	unknown	gnl\|CDD\|178851
NC_011147.1\|WP_000134246.1\|2877713_2878763_-\|tRNA-pseudouridine(13)-synthase-TruD	unknown	unknown	gnl\|CDD\|234884
NC_011147.1\|WP_001290675.1\|2896819_2898532_-\|assimilatory-sulfite-reductase-(NADPH)-hemoprotein-subunit	unknown	unknown	gnl\|CDD\|237402
NC_011147.1\|WP_000741651.1\|2879238_2879949_-\|2-C-methyl-D-erythritol-4-phosphate-cytidylyltransferase	unknown	unknown	gnl\|CDD\|234670
NC_011147.1\|WP_000253542.1\|2876351_2876978_-\|protein-L-isoaspartate(D-aspartate)-O-methyltransferase	unknown	unknown	gnl\|CDD\|178974
NC_011147.1\|WP_001221546.1\|2876971_2877733_-\|5'/3'-nucleotidase-SurE	unknown	unknown	gnl\|CDD\|234732
NC_011147.1\|WP_000192065.1\|2891889_2894589_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	COG1203_cas3_CAS-I	gnl\|CDD\|182031
NC_011147.1\|WP_000080389.1\|2896009_2896744_-\|phosphoadenosine-phosphosulfate-reductase	unknown	unknown	gnl\|CDD\|234997
NC_011147.1\|WP_000118672.1\|2885967_2886858_-\|type-I-E-CRISPR-associated-endonuclease-Cas1	cas1	cd09719_cas1_CAS-I-E	gnl\|CDD\|274693
NC_011147.1\|WP_000517480.1\|2879967_2880279_-\|cell-division-protein-FtsB	unknown	unknown	gnl\|CDD\|179156
NC_011147.1\|WP_001145531.1\|2894968_2895922_+\|SPI-1-type-III-secretion-system-effector-SopD	unknown	unknown	gnl\|CDD\|185277
NC_011147.1\|WP_000666426.1\|2887561_2888287_-\|type-I-E-CRISPR-associated-protein-Cas5/CasD	cas5	cd09645_cas5_CAS-I-E	gnl\|CDD\|187776
NC_011147.1\|WP_000281412.1\|2886857_2887562_-\|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE	cas6e	cd09664_cas6e_CAS-I-E	gnl\|CDD\|187795
NC_011147.1\|WP_001092272.1\|2881435_2882875_-\|sulfate-adenylyltransferase-subunit-CysN	unknown	unknown	gnl\|CDD\|235349
NC_011147.1\|WP_000935107.1\|2889377_2889980_-\|type-I-E-CRISPR-associated-protein-Cse2/CasB	cse2gr11	cd09670_cse2gr11_CAS-I-E	gnl\|CDD\|274193
NC_011147.1\|WP_000062282.1\|2885644_2885938_-\|type-I-E-CRISPR-associated-endoribonuclease-Cas2	cas2	cd09648_cas2_CAS-I-E	gnl\|CDD\|236930
NC_011147.1\|WP_001670238.1\|2888296_2889355_-\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	cas7	pfam09344_cas7_CAS-I-E	gnl\|CDD\|378153
NC_011147.1\|WP_011233164.1\|2880469_2880793_-\|DUF3561-family-protein	unknown	unknown	gnl\|CDD\|371891

Protein	Function_ID	Function_description	E-value
NC_011147.1\|WP_001173658.1\|2880843_2881449_-\|adenylyl-sulfate-kinase	gnl\|CDD\|179661	PRK03846, PRK03846, adenylylsulfate kinase; Provisional.	1.83357e-145
NC_011147.1\|WP_000372402.1\|2882884_2883793_-\|sulfate-adenylyltransferase-subunit-CysD	gnl\|CDD\|235375	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD.	0
NC_011147.1\|WP_001219244.1\|2878759_2879239_-\|2-C-methyl-D-erythritol-2,4-cyclodiphosphate-synthase	gnl\|CDD\|178851	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed.	1.27909e-104
NC_011147.1\|WP_000134246.1\|2877713_2878763_-\|tRNA-pseudouridine(13)-synthase-TruD	gnl\|CDD\|234884	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed.	0
NC_011147.1\|WP_001290675.1\|2896819_2898532_-\|assimilatory-sulfite-reductase-(NADPH)-hemoprotein-subunit	gnl\|CDD\|237402	PRK13504, PRK13504, NADPH-dependent assimilatory sulfite reductase hemoprotein subunit.	0
NC_011147.1\|WP_000741651.1\|2879238_2879949_-\|2-C-methyl-D-erythritol-4-phosphate-cytidylyltransferase	gnl\|CDD\|234670	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase.	2.14969e-118
NC_011147.1\|WP_000253542.1\|2876351_2876978_-\|protein-L-isoaspartate(D-aspartate)-O-methyltransferase	gnl\|CDD\|178974	PRK00312, pcm, protein-L-isoaspartate(D-aspartate) O-methyltransferase.	4.34083e-128
NC_011147.1\|WP_001221546.1\|2876971_2877733_-\|5'/3'-nucleotidase-SurE	gnl\|CDD\|234732	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional.	2.28081e-145
NC_011147.1\|WP_000192065.1\|2891889_2894589_+\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|182031	PRK09694, PRK09694, CRISPR-associated helicase/endonuclease Cas3.	3.70349e-143
NC_011147.1\|WP_000080389.1\|2896009_2896744_-\|phosphoadenosine-phosphosulfate-reductase	gnl\|CDD\|234997	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase.	4.42567e-137
NC_011147.1\|WP_000118672.1\|2885967_2886858_-\|type-I-E-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274693	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is prokaryotic immunity system for foreign DNA, mostly from phage. CRISPR systems belong to different subtypes, distinguished by both nature of the repeats, the makeup of the cohort of associated Cas proteins, and by molecular phylogeny within the more universal Cas proteins such as this one. This model is of type EXCEPTION and provides more specific information than the EQUIVALOG model TIGR00287. It describes the Cas1 protein particular to the ECOLI subtype of CRISPR/Cas system.	2.51774e-156
NC_011147.1\|WP_000517480.1\|2879967_2880279_-\|cell-division-protein-FtsB	gnl\|CDD\|179156	PRK00888, ftsB, cell division protein FtsB; Reviewed.	1.08865e-64
NC_011147.1\|WP_001145531.1\|2894968_2895922_+\|SPI-1-type-III-secretion-system-effector-SopD	gnl\|CDD\|185277	PRK15379, PRK15379, type III secretion system effector SopD.	0
NC_011147.1\|WP_000666426.1\|2887561_2888287_-\|type-I-E-CRISPR-associated-protein-Cas5/CasD	gnl\|CDD\|187776	cd09645, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas5 is a RAMP superfamily protein; Subunit of the Cascade complex.	2.50859e-48
NC_011147.1\|WP_000281412.1\|2886857_2887562_-\|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE	gnl\|CDD\|187795	cd09664, Cas6_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas6e. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas6e is an endoribonuclease that generates crRNA; This family is specific for CRISPR/Cas system I-E subtype; Homologous to Cas6 (RAMP superfamily protein); Possesses double RRM/ferredoxin fold; also known as Cse3 family.	4.22526e-90
NC_011147.1\|WP_001092272.1\|2881435_2882875_-\|sulfate-adenylyltransferase-subunit-CysN	gnl\|CDD\|235349	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional.	0
NC_011147.1\|WP_000935107.1\|2889377_2889980_-\|type-I-E-CRISPR-associated-protein-Cse2/CasB	gnl\|CDD\|274193	TIGR02548, CRISPR_system_Cascade_subunit_CasB, CRISPR type I-E/ECOLI-associated protein CasB/Cse2. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model family is found in Ecoli subtype CRISPR/Cas regions of many bacteria, most of which are mesophiles, and not in Archaea. It was designated Cse2 originally, and renamed CasB based on its characterization in the CASCADE complex.	5.74874e-39
NC_011147.1\|WP_000062282.1\|2885644_2885938_-\|type-I-E-CRISPR-associated-endoribonuclease-Cas2	gnl\|CDD\|236930	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional.	5.81067e-65
NC_011147.1\|WP_001670238.1\|2888296_2889355_-\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	gnl\|CDD\|378153	pfam09344, Cas_CT1975, CT1975-like protein. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family is represented by CT1975 of Chlorobium tepidum.	3.88788e-121
NC_011147.1\|WP_011233164.1\|2880469_2880793_-\|DUF3561-family-protein	gnl\|CDD\|371891	pfam12084, DUF3561, Protein of unknown function (DUF3561). This family of proteins is functionally uncharacterized. This protein is found in bacteria. Proteins in this family are about 110 amino acids in length.	2.00925e-47

>NC_011147.1|WP_000372402.1|2882884_2883793_-|sulfate-adenylyltransferase-subunit-CysD
MDQKRLTHLRQLETESIHIIREVAAEFANPVMLYSIGKDSSVMLHLARKAFYPGTLPFPLLHVDTGWKFREMYAFRDRTANAYGCELLVHKNPEGVAMGINPFVHGSAKHTDIMKTEGLKQALNKYGFDAAFGGARRDEEKSRAKERIYSFRDRFHRWDPKNQRPELWRNYNGQINKGESIRVFPLSNWTEQDIWQYIWLENIDIVPLYLAAERPVLERDGMLMMVDDDRIDLQPGEVIKKRMVRFRTLGCWPLTGAVESHAQTLPEIIEEMLVSTTSERQGRMIDRDQAGSMELKKRQGYF
>NC_011147.1|WP_001092272.1|2881435_2882875_-|sulfate-adenylyltransferase-subunit-CysN
MNTILAQQIASEGGVEAWMIAQQHKSLLRFLTCGSVDDGKSTLIGRLLHDTLQIYEDQLSSLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHSFISTLLGIKHLVVAINKMDLVDYREETFARIREDYLTFAEQLPGDLDIRFVPLSALEGDNVAAQSANMRWYSGPTLLEVLETVDIQRAVDRQPMRFPVQYVNRPNLDFRGYAGTLASGSVKVGERIKMLPSGVESSVARIVTFDGDKEEACAGEAITLVLNDDIDISRGDLLLAANETLAPARHAAIDVVWMAEQPLAPGQSYDVKLAGKKTRARIEAICYQIDINNLTQRDVESLPLNGIGLVEMTFDEPLALDIYQQNPVTGGLIFIDRLSNVTVGAGMVRELDERGATPPVEYSAFELELNALVRRHFPHWDARDLLGDKHGAA
>NC_011147.1|WP_001173658.1|2880843_2881449_-|adenylyl-sulfate-kinase
MALHDENVVWHSHPVTVAAREQLHGHRGVMLWFTGLSGSGKSTVAGALEEALHQRGVSTYLLDGDNVRHGLCRDLGFSDADRQENIRRVGEVASLMADAGLIVLTAFISPHRAERQLVKERVGHDRFIEIYVNTPLAICEQRDPKGLYKKARAGELRNFTGIDAIYEAPDSPQVHLNGEQLVTNLVSQLLDLLRRRDIIRS
>NC_011147.1|WP_011233164.1|2880469_2880793_-|DUF3561-family-protein
MRNSHNITFTRSDAFMVDDDATSAFPGAVVGFVSWLLALGIPFLLYGPNTLFFFLYTWPFFLTLMPVSVIIGIALHLLVKGKILFSIMFTLLAVGALFGALFIWLLG
>NC_011147.1|WP_000517480.1|2879967_2880279_-|cell-division-protein-FtsB
MGKLTLLLLALLVWLQYSLWFGKNGIHDYSRVNDDVVAQQATNAKLKARNDQLFAEIDDLNGGQEAIEERARNELSMTKPGETFYRLVPDASKRAATAGQTHR
>NC_011147.1|WP_000741651.1|2879238_2879949_-|2-C-methyl-D-erythritol-4-phosphate-cytidylyltransferase
MAATLLDVCAVVPAAGFGRRMQTECPKQYLSIGNKTILEHSVHALLAHPRVTRVVIAISPGDHRFAQLPLANHPQITVVDGGNERADSVLAGLQAVAKAQWVLVHDAARPCLHQDDLARLLAISENSRVGGILASPVRDTMKRGEPGKTAIAHTVERADLWHALTPQFFPRELLHDCLTRALNEGAIITDEASALEYCGFHPALVEGRADNIKVTRPEDLALAEFYLTRTIHQEKA
>NC_011147.1|WP_001219244.1|2878759_2879239_-|2-C-methyl-D-erythritol-2,4-cyclodiphosphate-synthase
MRIGHGFDVHAFGGEGPIIIGGVRIPYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPKMLPHIPQMRVFIAEDLGCHMDDVNVKATTTEKLGFTGRGEGIACEAVALLMKAAK
>NC_011147.1|WP_000134246.1|2877713_2878763_-|tRNA-pseudouridine(13)-synthase-TruD
MTEFDNLTWLHGKPQGSGLLKANPEDFVVVEDLGFTPDGEGEHILLRILKNGCNTRFVADALAKFLKIHAREVSFAGQKDKHAVTEQWLCARVPGKEMPDFSAFQLEGCKVLEYARHKRKLRLGALKGNAFTLVLREISDRRDVETRLQAIRDGGVPNYFGAQRFGIGGSNLQGALRWAQSNAPVRDRNKRSFWLSAARSALFNQIVHQRLKKPDFNQVVDGDALQLAGRGSWFVATSEELPELQRRVDEKELMITASLPGSGEWGTQRAALAFEQDAIAQETVLQSLLLREKVEASRRAMLLYPQQLSWNWWDDVTVELRFWLPAGSFATSVVRELINTMGDYAHIAE
>NC_011147.1|WP_001221546.1|2876971_2877733_-|5'/3'-nucleotidase-SurE
MRILLSNDDGVHAPGIQTLAKALRKFADVQVVAPDRNRSGASNSLTLESSLRTFTFDNGDIAVQMGTPTDCVYLGVNALMRPRPDIVVSGINAGPNLGDDVIYSGTVAAAMEGRHLGFPALAVSLNGYQHYDTAAAVTCALLRGLSREPLRTGRILNVNVPDLPLAQIKGIRVTRCGSRHPADKVIPQEDPRGNTLYWIGPPGDKYDAGLDTDFAAVDEGYVSVTPLHVDLTAHSAHDVVSDWLDSVGVGTQW
>NC_011147.1|WP_000253542.1|2876351_2876978_-|protein-L-isoaspartate(D-aspartate)-O-methyltransferase
MVSGRVQALLEQLRAQGIRDELVLNALAAVPREKFIDEAFEHKAWENIALPIGQGQTISQPYMVARMTELLELTPQSRVLEIGTGSGYQTAILAHLVHHVCSVERIKGLQWQARRRLKQLDLHNVSTRHGDGWQGWQARAPFDAIIVTAAPPEIPTALMAQLDEGGILVLPVGDEQQFLKRVRRRGGEFIIDTVEAVRFVPLVKGELA
>NC_011147.1|WP_000062282.1|2885644_2885938_-|type-I-E-CRISPR-associated-endoribonuclease-Cas2
MSMLVVVTENVPPRLRGRLAVWLLEIRAGVYVGDVSAKIREMIWQQVSVLADEGNVVMAWATNTESGFEFQTFGVNRRIPVDLDGLRLVSFLPVENQ
>NC_011147.1|WP_000118672.1|2885967_2886858_-|type-I-E-CRISPR-associated-endonuclease-Cas1
MSWLPLNPIPLKDRVSMIFLQYGQIDVIDGAFVLIDKTGVRTHIPVGSVACIMLEPGTRVSHAAVRLAATVGTLLVWVGEAGVRVYASGQPGGARSDKLLYQAKLALDEDLRLKVVRKMFELRFGEPAPSRRSVDQLRGIEGSRVRATYALLAKQYGVKWQGRRYDPKDWEKGDVINQCISSATSCLYGVTEAAILAAGYAPAIGFVHTGKLLSFVYDIADIIKFETVVPKAFEIARRNPAEPDRDVRIACRDIFRSGKTLAKLIPLIEDVLAAGEIQPPLPPEDSQPIAIPLPVA
>NC_011147.1|WP_000281412.1|2886857_2887562_-|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE
MYLSRIQLRFNNLRPEMLAKWNSARPYASHQWLWQLFPEQELRQFLFREEAHGGFFMLSAIPPLLQHSLFLIETKPFNPQLTNGLELDFQLRANPVITRNGKRSDVMMNAKHQAKANGVEKERWWELQQQAAQAWLEQQGQQHGFRLIAPEPDDFAMWAGDEYSELQAHCGCVQAYQQHRFVRKDQETPITFSSVDFSGALCITDAALFKQALFSGLGKSKALGCGMLMVKRKR
>NC_011147.1|WP_000666426.1|2887561_2888287_-|type-I-E-CRISPR-associated-protein-Cas5/CasD
MKEYLVFQLYAPLASWGEEASGEIRHSATVPTRSALLGLLAAALGIRRDEEARLNNFNRHYHLAVHALASQDRWLRDYHTVSAPRENKKYRYYTRRDELTLASDEVGTLISQREYRCDGYWHVAISATPDAPYSLSELREALLTPHFPLYLGRKSCPLALPLAARLMTGTLKEVFTHAVEEISAAELSGFTLRKGICYWDDPDEESLVWQQKQHSNNQPVSRQRWQFGGYTRFNGPLQERT
>NC_011147.1|WP_001670238.1|2888296_2889355_-|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC
MTTFIQLHLLTAYAPANLNRDESGRPKTAFMGGVERLRVSSQSLKRAWRVSETFEAAMDGFMGKRTRRIGVDYVYRPMKDAGIEEKIAKSSSELIAKQFGKLKSDKDAKPEKNLEIEQIVHVSNHEISLIKQLVDTLIADKREPNDEEVKLLRKEQRSVDMALFGRMLASSPEFNVEAACQVSHALGVSAVTVESDFFTAVDDLNNKEEDAGSGHMGEQGFASALFYTYVCISRDLLVENLGGNEELAKRTIAALTETALTVSPTGKQNSFASRAYATYALAEVGQKQPRSLAAAFFQPVRDTDQIPAAITRLKQQRASFDSVYGNCADDYRELNVQEGTGSLAELLAFVSQ
>NC_011147.1|WP_000935107.1|2889377_2889980_-|type-I-E-CRISPR-associated-protein-Cse2/CasB
MLNSNTAVLCRILHPDAQKALLDWFATLSERYERKDGKRVNGRAWRAELKRMAPPYGVMICEGHDALRQALLKHMRLQPLDEMALALFVSVAVHIKSHKENISFAAQLGEKLKGSTSCVSGLRFERLQKASDPETFCQLLIQAVKIRGTEGVNVLSLADGIFLWMEEWQRRENHQPEFRNPFERSRIRWANEYLSTSRGK
>NC_011147.1|WP_000192065.1|2891889_2894589_+|CRISPR-associated-helicase/endonuclease-Cas3
MTQIEYLDYLCYWGKTDKSTENITCNYHLLAYHCLDVAACGEYIIKNNTFNSCNILKECNISGTNAENWIIWFLASHDIGKFARGFQKYAEFPDSPLVSPISGVSAFERHDSLGFYLWGKLFEAWSSGSNEIIAGIEPENRARFESALNSWMLISTGHHGIPPDTMKNRSSLAFTDEDIVAATHYLEALSELFPFTLPQEWKTKAGRKCLKQHSWFFAGLVTLADWMGSDESQFPLLSSAMPLKDYWPLACEKAQQAILRMPPLSQHSHYQDHRALFPFIQTLTPLQQRASELDISAPGAQLVVLEDVTGAGKTEAALILTHRLMSANKGHGLYVGLPTMATANAMYQRLASAYHALFTDESRPSLILAHGGREMSDSFRQSIWQPTENIAEDYARDDGNATTECHTWFADSRKKALLAEVGVGTLDQLLMAVMPFRHQSLRLLGMRDKILLLDEVHAYDGYMVKLLEGLLRFHAAQGGSAIILSATLPAALREKLLNAFSDGAEFMSAGGSDNAGYPWLSHLTSSGLLEQPLATRPEVQRTVAVNWIQQRQEALDIIYRVVATGQCICWIRNTVDDALDTYQQLLHEGIVPEQDLLLFHSRFAFIDRIAIENKTLNWFGNNAPVSERRGKVLIATQVVEQSLDLDFDWMITDLAPIDLLIQRAGRLQRHIRDAHGQRKSTLPDERQPPVLHILAPHWQEQAEEGWLGQELKGTGFVYTDHACLWRTQALLRQHGEIRMPDNARALVDGVYEQKIAAPAGLQTISDVAFGKVLSQRSVAAQNLLRYDLGYDREASDFLWDKDREFSTRLGEESVDVYLARKDIDGQLRPLVDEIDFCWEKSRLSVRKSWWQKNSGTFQCPDEETLACFRKRHHRPSGQIVLVSDTGEASYYSKRFGLVG
>NC_011147.1|WP_001145531.1|2894968_2895922_+|SPI-1-type-III-secretion-system-effector-SopD
MPVTLSFGNHQNYTLNESRIAHLLSADKEKAIHMGGWDKVQDHFRAEKKDHALEVLHSIIHGQGRGEPGEMEVNVEDINKIYAFKRLQHLACPAHQDLFTIKMDASQTQFLLMVGDTVISQSNIKDILNISDDAVIESMSREERQLFLQICEVIGAKMTWHPELLQESISTLRKEVTGNAQIKAAVYEMMRPAEAPDHPLVEWQDSLTEDEKSMLTCINAGNFEPTTQFCKIGYQEVQGEVAFSMMHPCISYLLHTYSPFAEFKPTNSGFLKKLNQDYNDYHAKKMFIDVILEKLYLTHERSLHIGKDGCSRNILLT
>NC_011147.1|WP_000080389.1|2896009_2896744_-|phosphoadenosine-phosphosulfate-reductase
MSQLDLNALNELPKVDRVLALAETNAQLETLTAEERVAWALENLPGEYVLSSSFGIQAAVSLHLVNQIRPDIPVILTDTGYLFPEAYQFIDELTDKLKLNLKVYRAGESPAWQEARYGKLWEQGVEGIEKYNEINKVEPMNRALKELNAQTWFAGLRREQSGSRAHLPVLAIQRGVFKVLPIIDWDNRTVYQYLQKHGLKYHPLWDQGYLSVGDTHTTRKWEPGMAEEETRFFGLKRECGLHEG
>NC_011147.1|WP_001290675.1|2896819_2898532_-|assimilatory-sulfite-reductase-(NADPH)-hemoprotein-subunit
MSEKHPGPLVVEGKLSDAERMKRESNFLRGTIAEDLNDGLTGGFHGDNFLLIRFHGMYQQDDRDIRAERAAQKLEPRHAMLLRCRLPGGVITTTQWKAIDKFAADNTIYGSIRLTNRQTFQFHGILKKNVKPVHQMLHSVGLDALATANDMNRNVLCTSNPYESQLHAEAYEWAKKISEHLLPRTRAYAEIWLDQEKVATTDEEPILGQTYLPRKFKTTVVIPPQNDIDLHANDMNLVAIAENGKLVGFNLLVGGGLSIEHGNKKTYARTASEFGYLPLEHTLAVAEAVVTTQRDWGNRTDRKNAKTKYTLERVGVDTFKEEVERRAGIKFEPIRPYEFTGRGDRIGWVKGIDNNWHLTLFIENGRILDYSGRPLKTGLLEIAKIHQGEFRITANQNLIIASVPESQKAKIETLARDHGLMNAVKPQRENSMACVSFPTCPLAMAEAERFLPSFTDKVEAILEKHGIPDEHIVMRVTGCPNGCGRAMLAEIGLVGKAPGRYNLHLGGNRIGTRIPRMYKENITEPDILASLGELIGRWAKEREAGEGFGDFTVRAGIIRPVLDPARDFWE

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Crispr_ID: NC_011147_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_011147_3

2902111-2902322

TypeI-E

I-E

Consensus_repeat	Method
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CRISPRCasFinder
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CRT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	PILER-CR

3 spacers

cas3,cse2gr11,cas7,cas5,cas6e

The CRISPR arrays of NC_011147_3

>merge|NC_011147|3|2902111-2902322|CRISPRCasFinder,CRT,PILER-CR
ACGGCTATCCCCGCTGGCGCGGGGAACACACGGCAACGGATGCGACCGCCAGCGCGATCCCCGGTTTATCCCCGCTGGCGCGGGGAACACTGTTCGAGTTGCGCCGGTGATTTGAAATCTTCCGGTTTATCCCCGCTGGCGCGGGGAACACGATGGCCTGTTTTTCAACGAAAGAGAAGAATTCGGTTTATCCCCGCTGGCGCGGGGAACAC

>NC_011147|3|3|2902111-2902322|CRISPRCasFinder
ACGGCTATCCCCGCTGGCGCGGGGAACAC	ACGGCAACGGATGCGACCGCCAGCGCGATCCC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGTTCGAGTTGCGCCGGTGATTTGAAATCTTC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	GATGGCCTGTTTTTCAACGAAAGAGAAGAATT
CGGTTTATCCCCGCTGGCGCGGGGAACAC

>NC_011147|3|2|2902111-2902322|CRT
ACGGCTATCCCCGCTGGCGCGGGGAACAC	ACGGCAACGGATGCGACCGCCAGCGCGATCCC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGTTCGAGTTGCGCCGGTGATTTGAAATCTTC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	GATGGCCTGTTTTTCAACGAAAGAGAAGAATT
CGGTTTATCCCCGCTGGCGCGGGGAACAC

>NC_011147|3|2|2902172-2902322|PILER-CR
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGTTCGAGTTGCGCCGGTGATTTGAAATCTTC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	GATGGCCTGTTTTTCAACGAAAGAGAAGAATT
CGGTTTATCCCCGCTGGCGCGGGGAACAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_011147.1\|WP_000192065.1\|2891889_2894589_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	COG1203_cas3_CAS-I	gnl\|CDD\|182031
NC_011147.1\|WP_000210861.1\|2904806_2906444_-\|CTP-synthase-(glutamine-hydrolyzing)	unknown	unknown	gnl\|CDD\|235437
NC_011147.1\|WP_000036734.1\|2903425_2904724_-\|phosphopyruvate-hydratase	unknown	unknown	gnl\|CDD\|234617
NC_011147.1\|WP_000981791.1\|2908747_2911447_+\|fimbrial-biogenesis-outer-membrane-usher-protein	unknown	unknown	gnl\|CDD\|185176
NC_011147.1\|WP_000842512.1\|2908080_2908668_+\|fimbrial-protein	unknown	unknown	gnl\|CDD\|185169
NC_011147.1\|WP_000210904.1\|2898531_2900331_-\|NADPH-dependent-assimilatory-sulfite-reductase-flavoprotein-subunit	unknown	unknown	gnl\|CDD\|182862
NC_011147.1\|WP_000832400.1\|2912773_2913244_+\|fimbrial-protein	unknown	unknown	gnl\|CDD\|185179
NC_011147.1\|WP_001199962.1\|2902618_2903290_-\|7-carboxy-7-deazaguanine-synthase-QueE	unknown	unknown	gnl\|CDD\|275126
NC_011147.1\|WP_000080389.1\|2896009_2896744_-\|phosphoadenosine-phosphosulfate-reductase	unknown	unknown	gnl\|CDD\|234997
NC_011147.1\|WP_000281412.1\|2886857_2887562_-\|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE	cas6e	cd09664_cas6e_CAS-I-E	gnl\|CDD\|187795
NC_011147.1\|WP_000108313.1\|2900766_2901129_+\|6-carboxytetrahydropterin-synthase-QueD	unknown	unknown	gnl\|CDD\|238264
NC_011147.1\|WP_000666426.1\|2887561_2888287_-\|type-I-E-CRISPR-associated-protein-Cas5/CasD	cas5	cd09645_cas5_CAS-I-E	gnl\|CDD\|187776
NC_011147.1\|WP_001079653.1\|2913240_2913777_+\|fimbrial-protein	unknown	unknown	gnl\|CDD\|185168
NC_011147.1\|WP_001290675.1\|2896819_2898532_-\|assimilatory-sulfite-reductase-(NADPH)-hemoprotein-subunit	unknown	unknown	gnl\|CDD\|237402
NC_011147.1\|WP_001044464.1\|2911459_2912233_+\|fimbria/pilus-periplasmic-chaperone	unknown	unknown	gnl\|CDD\|185177
NC_011147.1\|WP_000935107.1\|2889377_2889980_-\|type-I-E-CRISPR-associated-protein-Cse2/CasB	cse2gr11	cd09670_cse2gr11_CAS-I-E	gnl\|CDD\|274193
NC_011147.1\|WP_001145531.1\|2894968_2895922_+\|SPI-1-type-III-secretion-system-effector-SopD	unknown	unknown	gnl\|CDD\|185277
NC_011147.1\|WP_001670238.1\|2888296_2889355_-\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	cas7	pfam09344_cas7_CAS-I-E	gnl\|CDD\|378153
NC_011147.1\|WP_000210451.1\|2906671_2907472_-\|nucleoside-triphosphate-pyrophosphohydrolase	unknown	unknown	gnl\|CDD\|236569
NC_011147.1\|WP_000178263.1\|2912252_2912759_+\|fimbrial-protein	unknown	unknown	gnl\|CDD\|185178

Protein	Function_ID	Function_description	E-value
NC_011147.1\|WP_000192065.1\|2891889_2894589_+\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|182031	PRK09694, PRK09694, CRISPR-associated helicase/endonuclease Cas3.	3.70349e-143
NC_011147.1\|WP_000210861.1\|2904806_2906444_-\|CTP-synthase-(glutamine-hydrolyzing)	gnl\|CDD\|235437	PRK05380, pyrG, CTP synthetase; Validated.	0
NC_011147.1\|WP_000036734.1\|2903425_2904724_-\|phosphopyruvate-hydratase	gnl\|CDD\|234617	PRK00077, eno, enolase; Provisional.	0
NC_011147.1\|WP_000981791.1\|2908747_2911447_+\|fimbrial-biogenesis-outer-membrane-usher-protein	gnl\|CDD\|185176	PRK15273, PRK15273, fimbrial biogenesis outer membrane usher protein.	0
NC_011147.1\|WP_000842512.1\|2908080_2908668_+\|fimbrial-protein	gnl\|CDD\|185169	PRK15261, PRK15261, fimbrial protein SteA; Provisional.	5.36845e-100
NC_011147.1\|WP_000210904.1\|2898531_2900331_-\|NADPH-dependent-assimilatory-sulfite-reductase-flavoprotein-subunit	gnl\|CDD\|182862	PRK10953, cysJ, NADPH-dependent assimilatory sulfite reductase flavoprotein subunit.	0
NC_011147.1\|WP_000832400.1\|2912773_2913244_+\|fimbrial-protein	gnl\|CDD\|185179	PRK15276, PRK15276, putative fimbrial subunit SteE; Provisional.	2.82246e-98
NC_011147.1\|WP_001199962.1\|2902618_2903290_-\|7-carboxy-7-deazaguanine-synthase-QueE	gnl\|CDD\|275126	TIGR04322, organic_radical_activating_enzyme, putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE. Members of this radical SAM domain protein family appear to be the E. coli form of the queuosine biosynthesis protein QueE. QueE is involved in making preQ0 (7-cyano-7-deazaquanine), a precursor of both the bacterial/eukaryotic modified tRNA base queuosine and the archaeal modified base archaeosine. Members occur in species that lack known forms of QueE but usually are not found in queuosine biosynthesis operons. Members of this family tend to form bi-directional best hit matches to members of known (TIGR03365) and putative (TIGR03963) QueE families from other lineages.	4.95322e-154
NC_011147.1\|WP_000080389.1\|2896009_2896744_-\|phosphoadenosine-phosphosulfate-reductase	gnl\|CDD\|234997	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase.	4.42567e-137
NC_011147.1\|WP_000281412.1\|2886857_2887562_-\|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE	gnl\|CDD\|187795	cd09664, Cas6_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas6e. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas6e is an endoribonuclease that generates crRNA; This family is specific for CRISPR/Cas system I-E subtype; Homologous to Cas6 (RAMP superfamily protein); Possesses double RRM/ferredoxin fold; also known as Cse3 family.	4.22526e-90
NC_011147.1\|WP_000108313.1\|2900766_2901129_+\|6-carboxytetrahydropterin-synthase-QueD	gnl\|CDD\|238264	cd00470, PTPS, 6-pyruvoyl tetrahydropterin synthase (PTPS). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids, as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after uptake by a carrier-mediated active transport system. Most microbes and plants lack this system and must synthesize folates de novo from guanosine triphosphate. One enzyme from this pathway is PTPS which catalyzes the conversion of dihydroneopterin triphosphate to 6-pyruvoyl tetrahydropterin. The functional enzyme is a hexamer of identical subunits.	2.78454e-58
NC_011147.1\|WP_000666426.1\|2887561_2888287_-\|type-I-E-CRISPR-associated-protein-Cas5/CasD	gnl\|CDD\|187776	cd09645, Cas5_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas5. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas5 is a RAMP superfamily protein; Subunit of the Cascade complex.	2.50859e-48
NC_011147.1\|WP_001079653.1\|2913240_2913777_+\|fimbrial-protein	gnl\|CDD\|185168	PRK15260, PRK15260, fimbrial protein SteF; Provisional.	1.32282e-120
NC_011147.1\|WP_001290675.1\|2896819_2898532_-\|assimilatory-sulfite-reductase-(NADPH)-hemoprotein-subunit	gnl\|CDD\|237402	PRK13504, PRK13504, NADPH-dependent assimilatory sulfite reductase hemoprotein subunit.	0
NC_011147.1\|WP_001044464.1\|2911459_2912233_+\|fimbria/pilus-periplasmic-chaperone	gnl\|CDD\|185177	PRK15274, PRK15274, putative periplasmic fimbrial chaperone protein SteC; Provisional.	0
NC_011147.1\|WP_000935107.1\|2889377_2889980_-\|type-I-E-CRISPR-associated-protein-Cse2/CasB	gnl\|CDD\|274193	TIGR02548, CRISPR_system_Cascade_subunit_CasB, CRISPR type I-E/ECOLI-associated protein CasB/Cse2. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model family is found in Ecoli subtype CRISPR/Cas regions of many bacteria, most of which are mesophiles, and not in Archaea. It was designated Cse2 originally, and renamed CasB based on its characterization in the CASCADE complex.	5.74874e-39
NC_011147.1\|WP_001145531.1\|2894968_2895922_+\|SPI-1-type-III-secretion-system-effector-SopD	gnl\|CDD\|185277	PRK15379, PRK15379, type III secretion system effector SopD.	0
NC_011147.1\|WP_001670238.1\|2888296_2889355_-\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	gnl\|CDD\|378153	pfam09344, Cas_CT1975, CT1975-like protein. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family is represented by CT1975 of Chlorobium tepidum.	3.88788e-121
NC_011147.1\|WP_000210451.1\|2906671_2907472_-\|nucleoside-triphosphate-pyrophosphohydrolase	gnl\|CDD\|236569	PRK09562, mazG, nucleoside triphosphate pyrophosphohydrolase; Reviewed.	3.42454e-158
NC_011147.1\|WP_000178263.1\|2912252_2912759_+\|fimbrial-protein	gnl\|CDD\|185178	PRK15275, PRK15275, putative fimbrial protein SteD; Provisional.	2.32072e-105

>NC_011147.1|WP_000108313.1|2900766_2901129_+|6-carboxytetrahydropterin-synthase-QueD
MSTTLYKDFTFEAAHRLPHVPEGHKCGRLHGHSFMVRLEITGEVDPHTGWIMDFADLKAAFKPTYDRLDHYYLNDIPGLSNPTSEVLAKWIWDQVKPVVPLLSAVMVKETCTAGCVYRGE
>NC_011147.1|WP_000210904.1|2898531_2900331_-|NADPH-dependent-assimilatory-sulfite-reductase-flavoprotein-subunit
MTTPAPLTGLLPLNPEQLARLQAATTDLTPEQLAWVSGYFWGVLNPRSGAVAVTPAPEGKMPGVTLISASQTGNARRVAEALRDDLLAANLNVTLVNAGDYKFKQIASEKLLVIVTSTQGEGEPPEEAVALHKFLFSKKALKLENTAFAVFSLGDTSYEFFCQSGKDFDSKLAELGGERLLDRVDADVEYQAAASEWRARVVDVLKSRAPVAAPSQSVATGAVNDIHTSPYTKDAPLTATLSVNQKITGRNSEKDVRHIEIDLGDSGLRYQPGDALGVWYQNDPALVKELVELLWLKGDEPVTVDGKTLPLAEALEWHFELTVNTANIVENYATLTRSESLLPLVGDKAQLQHYAATTPIVDMVRFSPAQLDAQALIGLLRPLTPRLYSIASAQAEVESEVHITVGVVRYDIEGRARAGGASSFLAGRVEEEGEVRVFIEHNDNFRLPANPQTPVIMIGPGTGIAPFRAFMQQRAADGAEGKNWLFFGNPHFTEDFLYQVEWQRYVKEGVLNRIDLAWSRDQKEKIYVQDKLREQGAELWRWINDGAHIYVCGDARCMAVDVEKALLEVIAEFGAMDIESADEYLSELRVERRYQRDVY
>NC_011147.1|WP_001290675.1|2896819_2898532_-|assimilatory-sulfite-reductase-(NADPH)-hemoprotein-subunit
MSEKHPGPLVVEGKLSDAERMKRESNFLRGTIAEDLNDGLTGGFHGDNFLLIRFHGMYQQDDRDIRAERAAQKLEPRHAMLLRCRLPGGVITTTQWKAIDKFAADNTIYGSIRLTNRQTFQFHGILKKNVKPVHQMLHSVGLDALATANDMNRNVLCTSNPYESQLHAEAYEWAKKISEHLLPRTRAYAEIWLDQEKVATTDEEPILGQTYLPRKFKTTVVIPPQNDIDLHANDMNLVAIAENGKLVGFNLLVGGGLSIEHGNKKTYARTASEFGYLPLEHTLAVAEAVVTTQRDWGNRTDRKNAKTKYTLERVGVDTFKEEVERRAGIKFEPIRPYEFTGRGDRIGWVKGIDNNWHLTLFIENGRILDYSGRPLKTGLLEIAKIHQGEFRITANQNLIIASVPESQKAKIETLARDHGLMNAVKPQRENSMACVSFPTCPLAMAEAERFLPSFTDKVEAILEKHGIPDEHIVMRVTGCPNGCGRAMLAEIGLVGKAPGRYNLHLGGNRIGTRIPRMYKENITEPDILASLGELIGRWAKEREAGEGFGDFTVRAGIIRPVLDPARDFWE
>NC_011147.1|WP_000080389.1|2896009_2896744_-|phosphoadenosine-phosphosulfate-reductase
MSQLDLNALNELPKVDRVLALAETNAQLETLTAEERVAWALENLPGEYVLSSSFGIQAAVSLHLVNQIRPDIPVILTDTGYLFPEAYQFIDELTDKLKLNLKVYRAGESPAWQEARYGKLWEQGVEGIEKYNEINKVEPMNRALKELNAQTWFAGLRREQSGSRAHLPVLAIQRGVFKVLPIIDWDNRTVYQYLQKHGLKYHPLWDQGYLSVGDTHTTRKWEPGMAEEETRFFGLKRECGLHEG
>NC_011147.1|WP_001145531.1|2894968_2895922_+|SPI-1-type-III-secretion-system-effector-SopD
MPVTLSFGNHQNYTLNESRIAHLLSADKEKAIHMGGWDKVQDHFRAEKKDHALEVLHSIIHGQGRGEPGEMEVNVEDINKIYAFKRLQHLACPAHQDLFTIKMDASQTQFLLMVGDTVISQSNIKDILNISDDAVIESMSREERQLFLQICEVIGAKMTWHPELLQESISTLRKEVTGNAQIKAAVYEMMRPAEAPDHPLVEWQDSLTEDEKSMLTCINAGNFEPTTQFCKIGYQEVQGEVAFSMMHPCISYLLHTYSPFAEFKPTNSGFLKKLNQDYNDYHAKKMFIDVILEKLYLTHERSLHIGKDGCSRNILLT
>NC_011147.1|WP_000192065.1|2891889_2894589_+|CRISPR-associated-helicase/endonuclease-Cas3
MTQIEYLDYLCYWGKTDKSTENITCNYHLLAYHCLDVAACGEYIIKNNTFNSCNILKECNISGTNAENWIIWFLASHDIGKFARGFQKYAEFPDSPLVSPISGVSAFERHDSLGFYLWGKLFEAWSSGSNEIIAGIEPENRARFESALNSWMLISTGHHGIPPDTMKNRSSLAFTDEDIVAATHYLEALSELFPFTLPQEWKTKAGRKCLKQHSWFFAGLVTLADWMGSDESQFPLLSSAMPLKDYWPLACEKAQQAILRMPPLSQHSHYQDHRALFPFIQTLTPLQQRASELDISAPGAQLVVLEDVTGAGKTEAALILTHRLMSANKGHGLYVGLPTMATANAMYQRLASAYHALFTDESRPSLILAHGGREMSDSFRQSIWQPTENIAEDYARDDGNATTECHTWFADSRKKALLAEVGVGTLDQLLMAVMPFRHQSLRLLGMRDKILLLDEVHAYDGYMVKLLEGLLRFHAAQGGSAIILSATLPAALREKLLNAFSDGAEFMSAGGSDNAGYPWLSHLTSSGLLEQPLATRPEVQRTVAVNWIQQRQEALDIIYRVVATGQCICWIRNTVDDALDTYQQLLHEGIVPEQDLLLFHSRFAFIDRIAIENKTLNWFGNNAPVSERRGKVLIATQVVEQSLDLDFDWMITDLAPIDLLIQRAGRLQRHIRDAHGQRKSTLPDERQPPVLHILAPHWQEQAEEGWLGQELKGTGFVYTDHACLWRTQALLRQHGEIRMPDNARALVDGVYEQKIAAPAGLQTISDVAFGKVLSQRSVAAQNLLRYDLGYDREASDFLWDKDREFSTRLGEESVDVYLARKDIDGQLRPLVDEIDFCWEKSRLSVRKSWWQKNSGTFQCPDEETLACFRKRHHRPSGQIVLVSDTGEASYYSKRFGLVG
>NC_011147.1|WP_000935107.1|2889377_2889980_-|type-I-E-CRISPR-associated-protein-Cse2/CasB
MLNSNTAVLCRILHPDAQKALLDWFATLSERYERKDGKRVNGRAWRAELKRMAPPYGVMICEGHDALRQALLKHMRLQPLDEMALALFVSVAVHIKSHKENISFAAQLGEKLKGSTSCVSGLRFERLQKASDPETFCQLLIQAVKIRGTEGVNVLSLADGIFLWMEEWQRRENHQPEFRNPFERSRIRWANEYLSTSRGK
>NC_011147.1|WP_001670238.1|2888296_2889355_-|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC
MTTFIQLHLLTAYAPANLNRDESGRPKTAFMGGVERLRVSSQSLKRAWRVSETFEAAMDGFMGKRTRRIGVDYVYRPMKDAGIEEKIAKSSSELIAKQFGKLKSDKDAKPEKNLEIEQIVHVSNHEISLIKQLVDTLIADKREPNDEEVKLLRKEQRSVDMALFGRMLASSPEFNVEAACQVSHALGVSAVTVESDFFTAVDDLNNKEEDAGSGHMGEQGFASALFYTYVCISRDLLVENLGGNEELAKRTIAALTETALTVSPTGKQNSFASRAYATYALAEVGQKQPRSLAAAFFQPVRDTDQIPAAITRLKQQRASFDSVYGNCADDYRELNVQEGTGSLAELLAFVSQ
>NC_011147.1|WP_000666426.1|2887561_2888287_-|type-I-E-CRISPR-associated-protein-Cas5/CasD
MKEYLVFQLYAPLASWGEEASGEIRHSATVPTRSALLGLLAAALGIRRDEEARLNNFNRHYHLAVHALASQDRWLRDYHTVSAPRENKKYRYYTRRDELTLASDEVGTLISQREYRCDGYWHVAISATPDAPYSLSELREALLTPHFPLYLGRKSCPLALPLAARLMTGTLKEVFTHAVEEISAAELSGFTLRKGICYWDDPDEESLVWQQKQHSNNQPVSRQRWQFGGYTRFNGPLQERT
>NC_011147.1|WP_000281412.1|2886857_2887562_-|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE
MYLSRIQLRFNNLRPEMLAKWNSARPYASHQWLWQLFPEQELRQFLFREEAHGGFFMLSAIPPLLQHSLFLIETKPFNPQLTNGLELDFQLRANPVITRNGKRSDVMMNAKHQAKANGVEKERWWELQQQAAQAWLEQQGQQHGFRLIAPEPDDFAMWAGDEYSELQAHCGCVQAYQQHRFVRKDQETPITFSSVDFSGALCITDAALFKQALFSGLGKSKALGCGMLMVKRKR
>NC_011147.1|WP_001199962.1|2902618_2903290_-|7-carboxy-7-deazaguanine-synthase-QueE
MQYPINEMFQTLQGEGYFTGVPAIFIRLQGCPVGCAWCDTKHTWDKLSDREVSLYSILAKIKESDKWGAASSEDLLAVINRQGYTARHVVITGGEPCIHDLMPLTDLLEKSGFSCQIETSGTHEVRCTPNTWVTVSPKVNMRGGYDVLSQALERANEIKHPVGRVRDIEALDELLATLSDDKPRVIALQPISQKEDATRLCIETCIARNWRLSMQTHKYLNIA
>NC_011147.1|WP_000036734.1|2903425_2904724_-|phosphopyruvate-hydratase
MSKIVKVIGREIIDSRGNPTVEAEVHLEGGFVGMAAAPSGASTGSREALELRDGDKSRFLGKGVTKAVGAVNGPIAQAILGKDAKDQAGIDKIMIDLDGTENKSNFGANAILAVSLANAKAAAAAKGMPLYEHIAELNGTPGKYSMPVPMMNIINGGEHADNNVDIQEFMIQPVGAKTVKEAIRMGSEVFHHLAKVLKGKGMNTAVGDEGGYAPNLGSNAEALAVIAEAVKAAGYELGKDITLAMDCAASEFYKDGKYVLAGEGNKAFTSEEFTHFLEELTKQYPIVSIEDGLDESDWDGFAYQTKVLGDKIQLVGDDLFVTNTKILKEGIEKGIANSILIKFNQIGSLTETLAAIKMAKDAGYTAVISHRSGETEDATIADLAVGTAAGQIKTGSMSRSDRVAKYNQLIRIEEALGEKAPYNGRKEIKGQA
>NC_011147.1|WP_000210861.1|2904806_2906444_-|CTP-synthase-(glutamine-hydrolyzing)
MTTNYIFVTGGVVSSLGKGIAAASLAAILEARGLNVTIMKLDPYINVDPGTMSPIQHGEVFVTEDGAETDLDLGHYERFIRTKMSRRNNFTTGRIYSDVLRKERRGDYLGATVQVIPHITNAIKERVLEGGEGHDVVLVEIGGTVGDIESLPFLEAIRQLAVDIGREHALFMHLTLVPYLAAAGEVKTKPTQHSVKELLSIGIQPDILICRSDRAVPANERAKIALFCNVPEKAVISMKDVDSIYKIPGLLKSQGLDDYICKRFSLNCPEANLSEWEQVIYEEANPAGEVTIGMVGKYIELPDAYKSVIEALKHGGLKNRVTVNIKLIDSQDVETRGVEILKDLDAILIPGGFGYRGVEGKIATARYARENNIPYLGICLGMQVALIEFARNVAGMDNANSTEFVPDCKYPVVALITEWRDEDGNVEVRSEKSDLGGTMRLGAQQCQLSDDSLVRQLYGAPTIVERHRHRYEVNNMLLKQIEAAGLRVAGRSGDDQLVEIIEVPNHPWFVACQFHPEFTSTPRDGHPLFAGFVKAANEHQKRQAK
>NC_011147.1|WP_000210451.1|2906671_2907472_-|nucleoside-triphosphate-pyrophosphohydrolase
MTTNHQIDRLLTLMQRLRDPENGCPWDKEQTFASIAPYTLEETYEVLDAIAREDFDDLRGELGDLLFQVVFYAQMAQEEGRFDFNDICAAISDKLERRHPHVFGELSADNSEEALVRWEQIKTEERAQKAQHSALDDIPRSLPALMRAQKIQKRCSNVGFDWTTLGPVVDKVYEEIDEVMFEARQAVVDQAKLEEEMGDLLFATVNMARHLGTKAELALQKANDKFERRFREVERIVAARGLEMTGVDLETMEEVWQEVKRQEIDL
>NC_011147.1|WP_000842512.1|2908080_2908668_+|fimbrial-protein
MKSSHFCKLAVTASLVMGIVSGAQAAGSNTAKVTFLGNIVDSPCSVTLDTEDQTVNMGSSIGNGTLSNGKTTINNARTFHIDLEGCTWATEKNMNVVFTTGSGTTAATGATDNLALMKTDGTGAISNVSLAIGDAGKNNIKLGDTYTQAIADLDGDTILDEKQSLNFTAWLVGAATGTVGTGEFSSAANVTISYL
>NC_011147.1|WP_000981791.1|2908747_2911447_+|fimbrial-biogenesis-outer-membrane-usher-protein
MMNNTWKSVLCPIACGVGMLLSASPYSASGKDIEFNTDFLDVKNRDNVNIAQFSRKGFILPGVYLLQIKINGQTLPQEFPVNWVIPEHDPQGSEVCAEPELVTQLGIKPELAEKLVWITHGERQCLAPDSLKGMDFQADLGHSTLLVNLPQAYMEYSDVDWDPPARWDNGIPGIILDYNINNQLRHDQESGSEEQSISGNGTLGANLGAWRLRADWQASYDHRDDDENTSTLHDQSWSRYYAYRALPTLGAKLTLGESYLQSDVFDSFNYIGASVVSDDQMLPPKLRGYAPEIVGIARSNAKVKVSWQGRVLYETQVPAGPFRIQDLNQSVSGTLHVTVEEQNGQTQEFDVNTASVPFLTRPGMVRYKMALGRPQDWDHHPITGTFASAEASWGVTNGWSLYGGAIGESNYQAVALGSGKDLGVVGAVAVDITHSIAHMPQDDGFDGETLQGNSYRISYSRDFDEIDSRLTFAGYRFSEKNFMSMSDYLDAKTYHHLNAGHEKERYTVTYNQNFREQGMSAYFSYSRSTFWDSPDQSNYNLSLSWYFDLGSIKNLSASLNGYRSEYNGDKDDGVYISLSVPWGNDSISYNGTFNGSQHRNQLGYSGHSQNGDNWQLHVGQDEQGAQADGYYSHQGALTDIDLSADYEEGSYRSLGMSLRGGMTLTTQGGALHRGSLAGSTRLLVDTDGIADVPVSGNGSPTSTNIFGKAVIADVGSYSRSLARIDLNKLPEKAEATKSVVQITLTEGAIGYRHFDVVSGEKMMAVFRLADGDFPPFGAEVKNERQQQLGLVADDGNAWLAGVKAGETLKVFWDGAAQCEASLPPTFTPELLANALLLPCKMLEGQPPTAPQKSSPLPAQPLIQEHTQTDGQPAAPVATTTQTPPIPLADNHAVNRKDME
>NC_011147.1|WP_001044464.1|2911459_2912233_+|fimbria/pilus-periplasmic-chaperone
MNKTNHFNRQALIATVLLAAPLVSHSAIVPDRTRVIFNGNENSITVTLKNGNATLPYLAQAWLEDDKFAKDTRYFTALPPLQRIEPKSDGQVKVQPLPAAAGLPQDRESLFYFNVREIPPKSDKPNTLQLALQTRIKFFYRPVAVARQVDKTHPWQTKLTLTYQGDGVIFDNPTPFYLVISNAGSKENETASGFKNLLIAPREKVTSPIKGASLGSSPVVGYVDDYGGHRLLVFTCSGNTCKVNEEKTRDAEKKANK
>NC_011147.1|WP_000178263.1|2912252_2912759_+|fimbrial-protein
MTMLTRWKILVLLCGGFVTGTEAAGTKTVQLELHLVVTQPPPCTVGGASVEFGDVLTTKVGDVSQTKPVGYSLNCDGRASDYLKLQIQGTTTTISGEQVLQTSVQGLGIRIQQAGNKQLVPVGITDWLNFTLSGSNGPELEAVPVKEPTTQLAGGDFNASATLVVDYQ
>NC_011147.1|WP_000832400.1|2912773_2913244_+|fimbrial-protein
MKRVLILTLLITRFACADNLTFHGKLINPPACTINNGETLEVSFGSVIIDNIDGVNYLTEIPWTLTCDSSFRDDALTFTLSYLGTATPYSAKALTTNVPGLGIELQQNGTVFPPGTSLTINESSLPTLKAVPVKQPGKEPAEGDFEAFATLQVDYQ
>NC_011147.1|WP_001079653.1|2913240_2913777_+|fimbrial-protein
MNRIFQTTGHLIGGVMLWAVCNTLPAATPNVHYSGKLVAGACNLVVDNDTMATVDFHTIGSDNFDASGQTTPVPFTLSLQDCKTALANGVVVTFQGVEDSTLPGLLALESSSIANGFAIGIETADQHPLIINASQGTEFMLAEGNTIINLQAWLQKTSGENIMPREFNASAMVNFEYQ

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_011147_1	1.1\|2511061\|37\|NC_011147\|CRISPRCasFinder	2511061-2511097	37	NC_011802	Salmonella enterica bacteriophage SE1, complete genome	15039-15075	2	0.946
NC_011147_1	1.1\|2511061\|37\|NC_011147\|CRISPRCasFinder	2511061-2511097	37	CP051272	Salmonella phage SW-70, complete genome	35832-35868	2	0.946
NC_011147_1	1.1\|2511061\|37\|NC_011147\|CRISPRCasFinder	2511061-2511097	37	CP051278	Salmonella phage ST-87, complete genome	25848-25884	2	0.946
NC_011147_1	1.1\|2511061\|37\|NC_011147\|CRISPRCasFinder	2511061-2511097	37	CP051288	Salmonella phage ST-29, complete genome	38690-38726	2	0.946
NC_011147_1	1.1\|2511061\|37\|NC_011147\|CRISPRCasFinder	2511061-2511097	37	MW013502	Salmonella virus L cI-40 13-am43, complete genome	31677-31713	2	0.946
NC_011147_1	1.1\|2511061\|37\|NC_011147\|CRISPRCasFinder	2511061-2511097	37	CP051285	Salmonella phage ST-32, complete genome	31784-31820	2	0.946
NC_011147_1	1.1\|2511061\|37\|NC_011147\|CRISPRCasFinder	2511061-2511097	37	NC_004348	Enterobacteria phage ST64T, complete genome	14879-14915	2	0.946
NC_011147_1	1.1\|2511061\|37\|NC_011147\|CRISPRCasFinder	2511061-2511097	37	MW013503	Salmonella virus L cII-101, complete genome	31678-31714	2	0.946
NC_011147_1	1.1\|2511061\|37\|NC_011147\|CRISPRCasFinder	2511061-2511097	37	NC_014900	Salmonella phage ST160, complete genome	15107-15143	2	0.946
NC_011147_1	1.1\|2511061\|37\|NC_011147\|CRISPRCasFinder	2511061-2511097	37	AY052766	Salmonella typhimurium bacteriophage ST64T, complete genome	14879-14915	2	0.946
NC_011147_1	1.1\|2511061\|37\|NC_011147\|CRISPRCasFinder	2511061-2511097	37	MF188997	Salmonella phage vB_SalP_PM43, complete genome	14774-14810	2	0.946
NC_011147_3	3.1\|2902140\|32\|NC_011147\|CRISPRCasFinder,CRT	2902140-2902171	32	NZ_CP024424	Paracoccus yeei strain TT13 plasmid pTT13-2, complete sequence	112052-112083	5	0.844
NC_011147_3	3.1\|2902140\|32\|NC_011147\|CRISPRCasFinder,CRT	2902140-2902171	32	NZ_CP020440	Paracoccus yeei strain FDAARGOS_252 plasmid unnamed2, complete sequence	224971-225002	5	0.844
NC_011147_3	3.1\|2902140\|32\|NC_011147\|CRISPRCasFinder,CRT	2902140-2902171	32	NZ_CP044082	Paracoccus yeei strain FDAARGOS_643 plasmid unnamed4, complete sequence	90792-90823	5	0.844
NC_011147_3	3.1\|2902140\|32\|NC_011147\|CRISPRCasFinder,CRT	2902140-2902171	32	NZ_CP031080	Paracoccus yeei strain CCUG 32053 plasmid pYEE2, complete sequence	271400-271431	6	0.812
NC_011147_3	3.1\|2902140\|32\|NC_011147\|CRISPRCasFinder,CRT	2902140-2902171	32	NC_009621	Sinorhizobium medicae WSM419 plasmid pSMED02, complete sequence	654402-654433	7	0.781
NC_011147_3	3.3\|2902262\|32\|NC_011147\|CRISPRCasFinder,CRT,PILER-CR	2902262-2902293	32	NZ_CP014208	Pantoea ananatis strain R100 plasmid, complete sequence	64395-64426	7	0.781
NC_011147_3	3.1\|2902140\|32\|NC_011147\|CRISPRCasFinder,CRT	2902140-2902171	32	NZ_CP029452	Sinorhizobium fredii CCBAU 25509 plasmid pSF25509b, complete sequence	2052295-2052326	8	0.75
NC_011147_3	3.1\|2902140\|32\|NC_011147\|CRISPRCasFinder,CRT	2902140-2902171	32	NC_008826	Methylibium petroleiphilum PM1 plasmid RPME01, complete sequence	343727-343758	8	0.75
NC_011147_2	2.2\|2885195\|32\|NC_011147\|CRISPRCasFinder,CRT	2885195-2885226	32	NZ_CP048637	Rhizobium oryzihabitans strain M15 plasmid p5, complete sequence	43437-43468	9	0.719
NC_011147_2	2.2\|2885195\|32\|NC_011147\|CRISPRCasFinder,CRT	2885195-2885226	32	NZ_CP048639	Rhizobium oryzihabitans strain M15 plasmid p7, complete sequence	54880-54911	9	0.719
NC_011147_2	2.9\|2885197\|32\|NC_011147\|PILER-CR	2885197-2885228	32	NZ_CP048637	Rhizobium oryzihabitans strain M15 plasmid p5, complete sequence	43437-43468	9	0.719
NC_011147_2	2.9\|2885197\|32\|NC_011147\|PILER-CR	2885197-2885228	32	NZ_CP048639	Rhizobium oryzihabitans strain M15 plasmid p7, complete sequence	54880-54911	9	0.719
NC_011147_3	3.3\|2902262\|32\|NC_011147\|CRISPRCasFinder,CRT,PILER-CR	2902262-2902293	32	NC_017533	Pantoea ananatis AJ13355 plasmid pEA320, complete sequence	108523-108554	9	0.719
NC_011147_3	3.3\|2902262\|32\|NC_011147\|CRISPRCasFinder,CRT,PILER-CR	2902262-2902293	32	NC_016817	Pantoea ananatis LMG 5342 plasmid pPANA10, complete sequence	2104-2135	9	0.719
NC_011147_3	3.3\|2902262\|32\|NC_011147\|CRISPRCasFinder,CRT,PILER-CR	2902262-2902293	32	NZ_CP020944	Pantoea ananatis strain PNA 97-1R plasmid unamed1, complete sequence	2104-2135	9	0.719
NC_011147_3	3.3\|2902262\|32\|NC_011147\|CRISPRCasFinder,CRT,PILER-CR	2902262-2902293	32	NC_017553	Pantoea ananatis PA13 plasmid PAGR_p, complete sequence	2204-2235	9	0.719
NC_011147_3	3.3\|2902262\|32\|NC_011147\|CRISPRCasFinder,CRT,PILER-CR	2902262-2902293	32	NZ_CP035036	Pantoea ananatis strain NN08200 plasmid unnamed2, complete sequence	264500-264531	9	0.719
NC_011147_3	3.3\|2902262\|32\|NC_011147\|CRISPRCasFinder,CRT,PILER-CR	2902262-2902293	32	MH552514	Siphoviridae sp. isolate ctba45, complete genome	4692-4723	9	0.719
NC_011147_2	2.3\|2885256\|32\|NC_011147\|CRISPRCasFinder,CRT	2885256-2885287	32	NZ_CP019739	Lactobacillus brevis strain TMW 1.2108 plasmid pl12108-5, complete sequence	3689-3720	10	0.688
NC_011147_2	2.3\|2885256\|32\|NC_011147\|CRISPRCasFinder,CRT	2885256-2885287	32	NZ_CP030354	Novosphingobium sp. P6W plasmid pP6W1, complete sequence	379454-379485	10	0.688
NC_011147_2	2.10\|2885258\|32\|NC_011147\|PILER-CR	2885258-2885289	32	NZ_CP019739	Lactobacillus brevis strain TMW 1.2108 plasmid pl12108-5, complete sequence	3689-3720	10	0.688
NC_011147_2	2.10\|2885258\|32\|NC_011147\|PILER-CR	2885258-2885289	32	NZ_CP030354	Novosphingobium sp. P6W plasmid pP6W1, complete sequence	379454-379485	10	0.688

1. spacer 1.1|2511061|37|NC_011147|CRISPRCasFinder matches to NC_011802 (Salmonella enterica bacteriophage SE1, complete genome) position: , mismatch: 2, identity: 0.946

cattcgctgtgagccgcgtcattactgttgtttgcgt	CRISPR spacer
cattcgctgtgatccgcgtcattactggtgtttgcgt	Protospacer
************ ************** *********

2. spacer 1.1|2511061|37|NC_011147|CRISPRCasFinder matches to CP051272 (Salmonella phage SW-70, complete genome) position: , mismatch: 2, identity: 0.946

cattcgctgtgagccgcgtcattactgttgtttgcgt	CRISPR spacer
cattcgctgtgatccgcgtcattactggtgtttgcgt	Protospacer
************ ************** *********

3. spacer 1.1|2511061|37|NC_011147|CRISPRCasFinder matches to CP051278 (Salmonella phage ST-87, complete genome) position: , mismatch: 2, identity: 0.946

cattcgctgtgagccgcgtcattactgttgtttgcgt	CRISPR spacer
cattcgctgtgatccgcgtcattactggtgtttgcgt	Protospacer
************ ************** *********

4. spacer 1.1|2511061|37|NC_011147|CRISPRCasFinder matches to CP051288 (Salmonella phage ST-29, complete genome) position: , mismatch: 2, identity: 0.946

cattcgctgtgagccgcgtcattactgttgtttgcgt	CRISPR spacer
cattcgctgtgatccgcgtcattactggtgtttgcgt	Protospacer
************ ************** *********

5. spacer 1.1|2511061|37|NC_011147|CRISPRCasFinder matches to MW013502 (Salmonella virus L cI-40 13-am43, complete genome) position: , mismatch: 2, identity: 0.946

cattcgctgtgagccgcgtcattactgttgtttgcgt	CRISPR spacer
catttgctgtgagccgcgtcattactggtgtttgcgt	Protospacer
****.********************** *********

6. spacer 1.1|2511061|37|NC_011147|CRISPRCasFinder matches to CP051285 (Salmonella phage ST-32, complete genome) position: , mismatch: 2, identity: 0.946

cattcgctgtgagccgcgtcattactgttgtttgcgt	CRISPR spacer
cattcgctgtgatccgcgtcattactggtgtttgcgt	Protospacer
************ ************** *********

7. spacer 1.1|2511061|37|NC_011147|CRISPRCasFinder matches to NC_004348 (Enterobacteria phage ST64T, complete genome) position: , mismatch: 2, identity: 0.946

cattcgctgtgagccgcgtcattactgttgtttgcgt	CRISPR spacer
catttgctgtgagccgcgtcattactggtgtttgcgt	Protospacer
****.********************** *********

8. spacer 1.1|2511061|37|NC_011147|CRISPRCasFinder matches to MW013503 (Salmonella virus L cII-101, complete genome) position: , mismatch: 2, identity: 0.946

cattcgctgtgagccgcgtcattactgttgtttgcgt	CRISPR spacer
catttgctgtgagccgcgtcattactggtgtttgcgt	Protospacer
****.********************** *********

9. spacer 1.1|2511061|37|NC_011147|CRISPRCasFinder matches to NC_014900 (Salmonella phage ST160, complete genome) position: , mismatch: 2, identity: 0.946

cattcgctgtgagccgcgtcattactgttgtttgcgt	CRISPR spacer
cattcgctgtgatccgcgtcattactggtgtttgcgt	Protospacer
************ ************** *********

10. spacer 1.1|2511061|37|NC_011147|CRISPRCasFinder matches to AY052766 (Salmonella typhimurium bacteriophage ST64T, complete genome) position: , mismatch: 2, identity: 0.946

cattcgctgtgagccgcgtcattactgttgtttgcgt	CRISPR spacer
catttgctgtgagccgcgtcattactggtgtttgcgt	Protospacer
****.********************** *********

11. spacer 1.1|2511061|37|NC_011147|CRISPRCasFinder matches to MF188997 (Salmonella phage vB_SalP_PM43, complete genome) position: , mismatch: 2, identity: 0.946

cattcgctgtgagccgcgtcattactgttgtttgcgt	CRISPR spacer
catttgctgtgagccgcgtcattactggtgtttgcgt	Protospacer
****.********************** *********

12. spacer 3.1|2902140|32|NC_011147|CRISPRCasFinder,CRT matches to NZ_CP024424 (Paracoccus yeei strain TT13 plasmid pTT13-2, complete sequence) position: , mismatch: 5, identity: 0.844

-acggcaacggatgcgaccgccagcgcgatccc	CRISPR spacer
tgcggc-acggatgaggccgccagcgcgatctc	Protospacer
 .**** ******* *.**************.*

13. spacer 3.1|2902140|32|NC_011147|CRISPRCasFinder,CRT matches to NZ_CP020440 (Paracoccus yeei strain FDAARGOS_252 plasmid unnamed2, complete sequence) position: , mismatch: 5, identity: 0.844

-acggcaacggatgcgaccgccagcgcgatccc	CRISPR spacer
tgcggc-acggatgaggccgccagcgcgatctc	Protospacer
 .**** ******* *.**************.*

14. spacer 3.1|2902140|32|NC_011147|CRISPRCasFinder,CRT matches to NZ_CP044082 (Paracoccus yeei strain FDAARGOS_643 plasmid unnamed4, complete sequence) position: , mismatch: 5, identity: 0.844

-acggcaacggatgcgaccgccagcgcgatccc	CRISPR spacer
tgcggc-acggatgaggccgccagcgcgatctc	Protospacer
 .**** ******* *.**************.*

15. spacer 3.1|2902140|32|NC_011147|CRISPRCasFinder,CRT matches to NZ_CP031080 (Paracoccus yeei strain CCUG 32053 plasmid pYEE2, complete sequence) position: , mismatch: 6, identity: 0.812

-acggcaacggatgcgaccgccagcgcgatccc	CRISPR spacer
tgcggc-acggatgaggccgccagcgcgatctg	Protospacer
 .**** ******* *.**************.

16. spacer 3.1|2902140|32|NC_011147|CRISPRCasFinder,CRT matches to NC_009621 (Sinorhizobium medicae WSM419 plasmid pSMED02, complete sequence) position: , mismatch: 7, identity: 0.781

-acggcaacggatgcgaccgccagcgcgatccc	CRISPR spacer
cgcgccga-ggaagcgaccgccagcgcgagccg	Protospacer
 .** *.* *** **************** **

17. spacer 3.3|2902262|32|NC_011147|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP014208 (Pantoea ananatis strain R100 plasmid, complete sequence) position: , mismatch: 7, identity: 0.781

gatggcctgtttttcaacgaaagagaagaatt	CRISPR spacer
catatcccgtttttcaacgaaagaaaagggtt	Protospacer
 **. **.****************.***..**

18. spacer 3.1|2902140|32|NC_011147|CRISPRCasFinder,CRT matches to NZ_CP029452 (Sinorhizobium fredii CCBAU 25509 plasmid pSF25509b, complete sequence) position: , mismatch: 8, identity: 0.75

acggcaacggatgcgaccgccagcgcgatccc	CRISPR spacer
cgggccgaggatgcgaccgcgagcgcgagccg	Protospacer
  *** . ************ ******* **

19. spacer 3.1|2902140|32|NC_011147|CRISPRCasFinder,CRT matches to NC_008826 (Methylibium petroleiphilum PM1 plasmid RPME01, complete sequence) position: , mismatch: 8, identity: 0.75

acggcaac-----ggatgcgaccgccagcgcgatccc	CRISPR spacer
-----aacttcctcgaagcgaccgccaccgcgatccc	Protospacer
     ***      ** ********** *********

20. spacer 2.2|2885195|32|NC_011147|CRISPRCasFinder,CRT matches to NZ_CP048637 (Rhizobium oryzihabitans strain M15 plasmid p5, complete sequence) position: , mismatch: 9, identity: 0.719

gacatttgacactatgcgcgatgatgcaatcg	CRISPR spacer
gcgctgatccacgatgcgcgaggatgcaatcg	Protospacer
*   *    *** ******** **********

21. spacer 2.2|2885195|32|NC_011147|CRISPRCasFinder,CRT matches to NZ_CP048639 (Rhizobium oryzihabitans strain M15 plasmid p7, complete sequence) position: , mismatch: 9, identity: 0.719

gacatttgacactatgcgcgatgatgcaatcg	CRISPR spacer
gcgctgatccacgatgcgcgaggatgcaatcg	Protospacer
*   *    *** ******** **********

22. spacer 2.9|2885197|32|NC_011147|PILER-CR matches to NZ_CP048637 (Rhizobium oryzihabitans strain M15 plasmid p5, complete sequence) position: , mismatch: 9, identity: 0.719

gacatttgacactatgcgcgatgatgcaatcg	CRISPR spacer
gcgctgatccacgatgcgcgaggatgcaatcg	Protospacer
*   *    *** ******** **********

23. spacer 2.9|2885197|32|NC_011147|PILER-CR matches to NZ_CP048639 (Rhizobium oryzihabitans strain M15 plasmid p7, complete sequence) position: , mismatch: 9, identity: 0.719

gacatttgacactatgcgcgatgatgcaatcg	CRISPR spacer
gcgctgatccacgatgcgcgaggatgcaatcg	Protospacer
*   *    *** ******** **********

24. spacer 3.3|2902262|32|NC_011147|CRISPRCasFinder,CRT,PILER-CR matches to NC_017533 (Pantoea ananatis AJ13355 plasmid pEA320, complete sequence) position: , mismatch: 9, identity: 0.719

gatggcctgtttttcaacgaaagagaagaatt	CRISPR spacer
catatcccgtttttcaacgaaagaaaagggga	Protospacer
 **. **.****************.***..

25. spacer 3.3|2902262|32|NC_011147|CRISPRCasFinder,CRT,PILER-CR matches to NC_016817 (Pantoea ananatis LMG 5342 plasmid pPANA10, complete sequence) position: , mismatch: 9, identity: 0.719

gatggcctgtttttcaacgaaagagaagaatt	CRISPR spacer
catatcccgtttttcaacgaaagaaaagggga	Protospacer
 **. **.****************.***..

26. spacer 3.3|2902262|32|NC_011147|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP020944 (Pantoea ananatis strain PNA 97-1R plasmid unamed1, complete sequence) position: , mismatch: 9, identity: 0.719

gatggcctgtttttcaacgaaagagaagaatt	CRISPR spacer
catatcccgtttttcaacgaaagaaaagggaa	Protospacer
 **. **.****************.***..

27. spacer 3.3|2902262|32|NC_011147|CRISPRCasFinder,CRT,PILER-CR matches to NC_017553 (Pantoea ananatis PA13 plasmid PAGR_p, complete sequence) position: , mismatch: 9, identity: 0.719

gatggcctgtttttcaacgaaagagaagaatt	CRISPR spacer
catatcccgtttttcaacgaaagaaaagggga	Protospacer
 **. **.****************.***..

28. spacer 3.3|2902262|32|NC_011147|CRISPRCasFinder,CRT,PILER-CR matches to NZ_CP035036 (Pantoea ananatis strain NN08200 plasmid unnamed2, complete sequence) position: , mismatch: 9, identity: 0.719

gatggcctgtttttcaacgaaagagaagaatt	CRISPR spacer
catatcccgtttttcaacgaaagaaaagggga	Protospacer
 **. **.****************.***..

29. spacer 3.3|2902262|32|NC_011147|CRISPRCasFinder,CRT,PILER-CR matches to MH552514 (Siphoviridae sp. isolate ctba45, complete genome) position: , mismatch: 9, identity: 0.719

gatggcctgtttttcaacgaaagagaagaatt	CRISPR spacer
cagaatatctttttcaaaaaaagagaagaatt	Protospacer
 * ... * ******** .*************

30. spacer 2.3|2885256|32|NC_011147|CRISPRCasFinder,CRT matches to NZ_CP019739 (Lactobacillus brevis strain TMW 1.2108 plasmid pl12108-5, complete sequence) position: , mismatch: 10, identity: 0.688

cgtttacgtttgccgacgatttaactaaacag	CRISPR spacer
agggattgtttgccgactatctaactaaacta	Protospacer
 *    .********** **.********* .

31. spacer 2.3|2885256|32|NC_011147|CRISPRCasFinder,CRT matches to NZ_CP030354 (Novosphingobium sp. P6W plasmid pP6W1, complete sequence) position: , mismatch: 10, identity: 0.688

cgtttacgtttgccgacgatttaactaaacag	CRISPR spacer
cgtttacgtttgccgataatttacgcatttgc	Protospacer
****************..*****  .*  ..

32. spacer 2.10|2885258|32|NC_011147|PILER-CR matches to NZ_CP019739 (Lactobacillus brevis strain TMW 1.2108 plasmid pl12108-5, complete sequence) position: , mismatch: 10, identity: 0.688

cgtttacgtttgccgacgatttaactaaacag	CRISPR spacer
agggattgtttgccgactatctaactaaacta	Protospacer
 *    .********** **.********* .

33. spacer 2.10|2885258|32|NC_011147|PILER-CR matches to NZ_CP030354 (Novosphingobium sp. P6W plasmid pP6W1, complete sequence) position: , mismatch: 10, identity: 0.688

cgtttacgtttgccgacgatttaactaaacag	CRISPR spacer
cgtttacgtttgccgataatttacgcatttgc	Protospacer
****************..*****  .*  ..

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

537110 : 543141

Salmonella_virus(50.0%)

The bacterium proteins that are colored denote the protein is present at specific phage-related keywords (such as 'capsid', 'head', 'integrase', 'plate', 'tail', 'fiber', 'coat', 'transposase', 'portal', 'terminase', 'protease' or 'lysin' and 'tRNA')

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_106417237.1\|537110_537257_+	hypothetical protein	A0A1R3Y5S2	Salmonella_virus	1.1e-14	73.9
WP_106417236.1\|537272_537416_+	hypothetical protein	A0A1R3Y5S2	Salmonella_virus	9.0e-14	87.8
WP_000400612.1\|538405_540328_-	acyltransferase	A0A1R3Y5Q6	Salmonella_virus	1.9e-300	77.5
WP_000703599.1\|540344_540599_-	glycosyltransferase	A8CG95	Salmonella_phage	3.1e-25	79.5
WP_001682026.1\|540567_540957_-	GtrA family protein	A0A192Y6N5	Salmonella_phage	6.9e-56	91.5
WP_000377775.1\|542199_543141_-	formate/nitrite transporter family protein	E7DYY8	Enterobacteria_phage	2.7e-146	87.5

DBSCAN-SWA_2

772308 : 781479

Enterobacteria_phage(66.67%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000569167.1\|772308_773256_+	ABC transporter ATP-binding protein	F2Y1V5	Organic_Lake_phycodnavirus	3.7e-10	27.8
WP_000824856.1\|773239_773971_+	ABC transporter permease	NA	NA	NA	NA
WP_001261696.1\|773951_774059_-	protein YohO	NA	NA	NA	NA
WP_001240418.1\|774118_774850_-	HTH-type transcriptional regulator MlrA	Q9EYF2	Enterobacteria_phage	4.5e-101	87.9
WP_000272855.1\|775072_776758_+	sensor histidine kinase	Q9EYF3	Enterobacteria_phage	3.7e-279	88.9
WP_000598637.1\|776754_777474_+	two-component system response regulator BtsR	NA	NA	NA	NA
WP_000950413.1\|777520_777988_+	DUF1456 family protein	Q9EYF4	Enterobacteria_phage	3.9e-74	90.3
WP_001265354.1\|778044_778575_-	YehR family lipoprotein	NA	NA	NA	NA
WP_000703141.1\|778746_779205_-	YehR family lipoprotein	Q9EYF5	Enterobacteria_phage	2.4e-52	71.9
WP_000195335.1\|779445_781479_-\|tRNA	methionine--tRNA ligase	A0A1V0SDF2	Indivirus	1.0e-54	27.6

DBSCAN-SWA_3

860007 : 867663

Enterobacteria_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000697846.1\|860007_861093_+	dTDP-glucose 4,6-dehydratase	I7HTA3	Enterobacteria_phage	1.6e-102	53.9
WP_001023655.1\|861092_861992_+	dTDP-4-dehydrorhamnose reductase	A0A291LA50	Escherichia_phage	4.7e-31	36.3
WP_000857533.1\|862039_862918_+	glucose-1-phosphate thymidylyltransferase RfbA	I7I009	Enterobacteria_phage	6.0e-108	65.2
WP_000973711.1\|862918_863470_+	dTDP-4-dehydrorhamnose 3,5-epimerase	I7HJC4	Enterobacteria_phage	7.7e-53	58.6
WP_000018223.1\|863475_864450_+	CDP-6-deoxy-delta-3,4-glucoseen reductase	NA	NA	NA	NA
WP_000648782.1\|864465_865239_+	glucose-1-phosphate cytidylyltransferase	NA	NA	NA	NA
WP_000565907.1\|865243_866323_+	CDP-glucose 4,6-dehydratase	A0A222YY99	Synechococcus_phage	1.7e-16	24.1
WP_000126347.1\|866349_867663_+	lipopolysaccharide biosynthesis protein RfbH	H8ZJ36	Ostreococcus_tauri_virus	7.0e-52	35.1

DBSCAN-SWA_4

951393 : 958620

Morganella_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000394197.1\|951393_951813_+	translesion error-prone DNA polymerase V autoproteolytic subunit	A0A1W6JNS2	Morganella_phage	8.5e-36	60.5
WP_000457650.1\|951815_953084_+	Y-family DNA polymerase	I6RSM4	Salmonella_phage	1.3e-225	91.7
WP_000208509.1\|953529_953742_+	cold-shock protein	A0A1W6JNX5	Morganella_phage	3.9e-21	70.0
WP_024131163.1\|953752_953941_+	hypothetical protein	NA	NA	NA	NA
WP_001080667.1\|954201_955380_-	porin OmpS1	Q1MVN1	Enterobacteria_phage	2.3e-107	56.7
WP_000377044.1\|956420_957116_+	phosphohydrolase	S4W232	Pandoravirus	2.8e-07	27.5
WP_001157323.1\|957189_958620_+	DNA cytosine methyltransferase	E5E3X6	Burkholderia_phage	1.0e-104	57.4

DBSCAN-SWA_5

1662098 : 1670291

Escherichia_phage(42.86%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000497451.1\|1662098_1662338_+	virulence protein MsgA	K7P6H1	Enterobacteria_phage	8.5e-33	88.6
WP_011233072.1\|1663211_1664021_+	cytolethal distending toxin S-CDT	A5LH53	Enterobacteria_phage	4.2e-63	50.4
WP_001277616.1\|1664093_1664471_+	DUF1353 domain-containing protein	I1TQ41	Pseudomonas_phage	2.2e-14	38.4
WP_000158843.1\|1664618_1665161_-	glycoside hydrolase family 108 protein	A0A0U2S643	Escherichia_phage	6.2e-71	67.0
WP_011233073.1\|1665352_1666081_-	pertussis-like toxin subunit ArtA	A0A0U2KD26	Escherichia_phage	4.1e-62	52.9
WP_011233074.1\|1666097_1666511_-	subtilase cytotoxin subunit B	A0A0U2KD34	Escherichia_phage	1.4e-19	38.6
WP_000915986.1\|1667457_1668582_-	type III secretion system effector SopF	NA	NA	NA	NA
WP_000444503.1\|1669040_1670291_-	NADP-dependent isocitrate dehydrogenase	Q77Z09	Phage_21	1.1e-19	92.6

DBSCAN-SWA_6

1920712 : 1930242

Ralstonia_phage(16.67%)

integrase,protease

attL 1915502:1915516|attR 1928978:1928992

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1915502:1915516	attL	NA	NA	NA	NA
WP_011233091.1\|1920712_1921090_+\|integrase	integrase	A0A077KET4	Ralstonia_phage	2.6e-20	41.0
WP_001117984.1\|1921251_1921449_+	hypothetical protein	NA	NA	NA	NA
WP_000274276.1\|1922849_1923380_+	hypothetical protein	NA	NA	NA	NA
WP_000934064.1\|1923878_1926155_-\|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	A0A223W0B1	Agrobacterium_phage	6.2e-165	42.3
WP_000520789.1\|1926185_1926506_-\|protease	ATP-dependent Clp protease adapter ClpS	A0A1B1IT64	uncultured_Mediterranean_phage	4.5e-13	45.7
WP_000447499.1\|1926829_1927051_+	cold shock-like protein CspD	A0A2H4N7Y6	Lake_Baikal_phage	9.3e-18	64.2
WP_000125879.1\|1927180_1929127_-	macrolide ABC transporter ATP-binding protein/permease MacB	G9BWD6	Planktothrix_phage	2.0e-39	43.1
1928978:1928992	attR	NA	NA	NA	NA
WP_001201759.1\|1929123_1930242_-	macrolide transporter subunit MacA	A0A140XAI1	Dickeya_phage	8.1e-09	39.8

DBSCAN-SWA_7

2482315 : 2527024

Salmonella_phage(51.52%)

holin,coat,terminase,portal,integrase,protease,lysis

attL 2513105:2513118|attR 2524400:2524413

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000915523.1\|2482315_2482678_+	GtrA family protein	I1TED9	Salmonella_phage	3.9e-61	100.0
WP_000703606.1\|2482674_2483607_+	glycosyltransferase family 2 protein	I1TED8	Salmonella_phage	1.2e-175	99.7
WP_000671498.1\|2483596_2485054_+	glucosyltransferase domain-containing protein	E7C9N7	Salmonella_phage	1.4e-239	99.2
WP_000129927.1\|2485112_2487116_-	endorhamnosidase	Q76H47	Enterobacteria_phage	0.0e+00	99.9
WP_000532177.1\|2487251_2487500_+	Arc family DNA-binding protein	Q76H48	Enterobacteria_phage	1.8e-38	100.0
WP_071533035.1\|2487520_2487814_-	hypothetical protein	Q76H12	Enterobacteria_phage	3.2e-50	100.0
WP_000868979.1\|2487952_2489884_-	hypothetical protein	I1TEJ6	Salmonella_phage	0.0e+00	99.1
WP_000190212.1\|2489883_2491254_-	phage DNA ejection protein	A0A1R3Y5Q4	Salmonella_virus	1.6e-248	99.3
WP_000964851.1\|2491263_2491953_-	hypothetical protein	I1TEJ4	Salmonella_phage	2.9e-81	100.0
WP_000627703.1\|2491955_2492411_-	DUF2824 family protein	E7C9U3	Salmonella_phage	1.8e-87	100.0
WP_000774919.1\|2492410_2493049_-	hypothetical protein	A8CGD2	Salmonella_phage	6.3e-91	100.0
WP_001122416.1\|2493052_2494471_-	packaged DNA stabilization protein gp10	A0A220NQZ5	Salmonella_phage	2.4e-276	99.8
WP_001166094.1\|2494430_2494931_-	packaged DNA stabilization protein p27	E7C9U0	Salmonella_phage	1.2e-89	98.8
WP_000538674.1\|2494914_2495475_-	hypothetical protein	E7C9T9	Salmonella_phage	1.3e-103	100.0
WP_001196936.1\|2495515_2496808_-\|coat	coat protein	A0A075B8L2	Enterobacteria_phage	2.5e-243	99.8
WP_000433852.1\|2496807_2497719_-	scaffold protein	A0A192Y6T4	Salmonella_phage	4.9e-161	100.0
WP_000774658.1\|2497732_2499910_-\|portal	portal protein p19	I6R968	Salmonella_phage	0.0e+00	98.6
WP_000417866.1\|2499909_2501409_-\|terminase	terminase	A0A2H4FUR5	Salmonella_phage	4.8e-307	100.0
WP_000729925.1\|2501386_2501875_-	hypothetical protein	O80290	Bacteriophage	2.9e-88	100.0
WP_012532521.1\|2501878_2502283_-	hypothetical protein	A0A192Y6U9	Salmonella_phage	1.5e-66	99.3
WP_000808100.1\|2502285_2502528_-	DUF2560 family protein	A0A192Y6S9	Salmonella_phage	1.0e-33	100.0
WP_001028469.1\|2502851_2503373_-	KilA-N domain-containing protein	H6WRZ8	Salmonella_phage	1.9e-101	100.0
WP_011233123.1\|2503585_2504035_-\|lysis	lysis protein	A0A2D1GLQ7	Escherichia_phage	3.0e-63	87.8
WP_001167374.1\|2504052_2504490_-	lysozyme	Q5G8R3	Enterobacteria_phage	6.3e-74	97.9
WP_000738703.1\|2504473_2504800_-\|holin	phage holin, lambda family	Q5G8R5	Enterobacteria_phage	1.7e-52	100.0
WP_001235452.1\|2505234_2505858_-	antitermination protein	K7PM87	Enterobacteria_phage	8.3e-96	87.0
WP_000994515.1\|2505854_2506043_-	protein ninH	K7PH29	Enterobacteria_phage	1.9e-27	100.0
WP_001046347.1\|2506039_2506402_-	RusA family crossover junction endodeoxyribonuclease	A5VW85	Enterobacteria_phage	7.8e-62	98.3
WP_000002244.1\|2506398_2506689_-	DUF1364 domain-containing protein	A0A192Y6R9	Salmonella_phage	1.0e-51	100.0
WP_001286918.1\|2506681_2506894_-	hypothetical protein	K7PK10	Enterobacteria_phage	4.7e-35	98.6
WP_000950962.1\|2506886_2507063_-	protein ninF	A0A220NRM2	Escherichia_phage	1.9e-26	100.0
WP_011233124.1\|2507055_2507397_-	DUF2591 family protein	Q76H72	Enterobacteria_phage	5.1e-63	99.1
WP_000113770.1\|2507399_2507576_-	NinE family protein	Q76H73	Enterobacteria_phage	1.0e-27	100.0
WP_000679702.1\|2507542_2507716_-	hypothetical protein	C6ZR56	Salmonella_phage	5.2e-32	100.0
WP_000811302.1\|2507712_2508159_-	recombination protein NinB	I6R0N7	Salmonella_phage	7.8e-80	98.6
WP_000049340.1\|2508115_2508412_-	hypothetical protein	E7C9R7	Salmonella_phage	6.8e-48	99.0
WP_000344579.1\|2508414_2508735_-	hypothetical protein	I6R992	Salmonella_phage	1.1e-22	59.4
WP_000975822.1\|2508746_2508902_-	hypothetical protein	A0A2H4FWM4	Salmonella_phage	2.4e-20	100.0
WP_000248682.1\|2508913_2509120_-	hypothetical protein	I6RSI5	Salmonella_phage	1.1e-31	100.0
WP_000131495.1\|2509195_2510632_-	AAA family ATPase	A0A220NQX0	Salmonella_phage	3.0e-274	99.2
WP_000065656.1\|2510621_2511521_-	hypothetical protein	E7C9R4	Salmonella_phage	2.5e-154	98.7
WP_001125982.1\|2511513_2511660_-	DUF2740 family protein	A0A0M4S617	Salmonella_phage	1.9e-19	100.0
WP_001103491.1\|2511694_2511976_-	hypothetical protein	Q76H54	Enterobacteria_phage	1.6e-43	98.9
WP_000182204.1\|2512086_2512302_-	helix-turn-helix domain-containing protein	Q76H55	Enterobacteria_phage	1.3e-32	100.0
WP_000712403.1\|2512412_2513102_+	helix-turn-helix transcriptional regulator	Q76H56	Enterobacteria_phage	1.3e-126	100.0
2513105:2513118	attL	NA	NA	NA	NA
WP_000680395.1\|2513459_2513705_+	hypothetical protein	NA	NA	NA	NA
WP_000786965.1\|2513743_2513953_-	fumarate hydratase FumD	I6R0R9	Salmonella_phage	1.9e-28	92.8
WP_000216028.1\|2514316_2514619_+	hypothetical protein	B8K1E6	Salmonella_phage	8.2e-49	97.0
WP_001066166.1\|2514631_2515219_-	super-infection exclusion protein B	A0A0M4R594	Salmonella_phage	1.4e-84	98.5
WP_000213983.1\|2515432_2515627_+	hypothetical protein	A0A075B8G0	Enterobacteria_phage	2.5e-30	100.0
WP_000542409.1\|2515663_2515957_+	hypothetical protein	B8K1E3	Salmonella_phage	4.1e-45	95.7
WP_001200114.1\|2516271_2516424_+\|protease	protease FtsH-inhibitory lysogeny factor CIII	B8K1E2	Salmonella_phage	9.2e-25	98.0
WP_000156730.1\|2516404_2516593_+	DUF5444 family protein	A0A1R3Y5S5	Salmonella_virus	1.6e-31	100.0
WP_000902088.1\|2516582_2516726_+	hypothetical protein	A0A1R3Y5R4	Salmonella_virus	2.7e-18	97.9
WP_001046982.1\|2516722_2517430_+	hypothetical protein	A0A1R3Y600	Salmonella_virus	1.5e-138	99.6
WP_001111312.1\|2517760_2518054_+	DUF2856 family protein	A0A1R3Y5T7	Salmonella_virus	3.2e-50	100.0
WP_001214769.1\|2518064_2518235_+	DUF2737 family protein	I6S642	Salmonella_phage	5.7e-23	94.6
WP_000665851.1\|2518231_2518891_+	hypothetical protein	A0A1R3Y5S0	Salmonella_virus	2.2e-62	61.6
WP_001017879.1\|2518887_2519388_+	ead/Ea22-like family protein	A0A1R3Y5T1	Salmonella_virus	1.0e-64	62.6
WP_000582227.1\|2519387_2520143_+	hypothetical protein	A0A1R3Y5Q7	Salmonella_virus	5.5e-150	99.2
WP_000208071.1\|2520153_2521239_+	DUF550 domain-containing protein	A0A1R3Y5Q8	Salmonella_virus	2.0e-153	76.7
WP_000002128.1\|2521231_2521516_+	ASCH domain-containing protein	A0A1R3Y5R3	Salmonella_virus	4.1e-50	100.0
WP_157804913.1\|2521584_2521725_+	hypothetical protein	A0A0M4QWX3	Salmonella_phage	7.2e-16	95.7
WP_000051901.1\|2521954_2523118_+\|integrase	site-specific integrase	A0A220NQU7	Salmonella_phage	4.1e-229	99.7
WP_000893229.1\|2523323_2524574_-	glutamate-5-semialdehyde dehydrogenase	A0A1X9I5D4	Streptococcus_phage	1.0e-97	47.5
2524400:2524413	attR	NA	NA	NA	NA
WP_001285277.1\|2524585_2525689_-	glutamate 5-kinase	A0A1X9I5D0	Streptococcus_phage	9.0e-61	39.8
WP_001043666.1\|2525971_2527024_+	phosphoporin PhoE	Q1MVN1	Enterobacteria_phage	1.3e-112	58.5

DBSCAN-SWA_8

2595458 : 2722310

128

Salmonella_phage(51.85%)

capsid,holin,terminase,tail,tRNA,head,portal,plate,integrase,lysis

attL 2657600:2657648|attR 2723410:2723458

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000108009.1\|2595458_2595953_+\|plate	type VI secretion system baseplate subunit TssE	NA	NA	NA	NA
WP_000371505.1\|2595968_2597852_+\|plate	type VI secretion system baseplate subunit TssF	NA	NA	NA	NA
WP_000145239.1\|2597848_2598844_+\|plate	type VI secretion system baseplate subunit TssG	NA	NA	NA	NA
WP_000367632.1\|2598854_2599898_+	ImpA family type VI secretion system protein	NA	NA	NA	NA
WP_001670675.1\|2600428_2601160_-	DNA polymerase III subunit epsilon	A0A1X9SH08	Bradyrhizobium_phage	6.4e-39	39.9
WP_000917872.1\|2601223_2601691_+	ribonuclease HI	J9Q745	Salmonella_phage	4.7e-51	58.9
WP_000801242.1\|2601687_2602410_-	class I SAM-dependent methyltransferase	NA	NA	NA	NA
WP_001052769.1\|2602444_2603200_+	hydroxyacylglutathione hydrolase	NA	NA	NA	NA
WP_000644706.1\|2603271_2604639_+	murein transglycosylase D	A0A0A7NU10	Lactobacillus_phage	1.4e-10	33.0
WP_000207237.1\|2604694_2605465_-	class I SAM-dependent methyltransferase	NA	NA	NA	NA
WP_001230970.1\|2605542_2606343_-	endonuclease/exonuclease/phosphatase family protein	NA	NA	NA	NA
WP_001127560.1\|2606474_2607650_-	MFS transporter	NA	NA	NA	NA
WP_000648518.1\|2607754_2608669_+	LysR family transcriptional regulator	NA	NA	NA	NA
WP_000154860.1\|2608690_2609494_-	2,5-didehydrogluconate reductase DkgB	A0A1V0SDE7	Indivirus	5.1e-37	34.6
WP_001235092.1\|2615496_2618070_-	ATP-dependent chaperone ClpB	H6X3M6	Enterobacteria_phage	2.6e-127	35.5
WP_000992634.1\|2618199_2618931_-	polyphenol oxidase	NA	NA	NA	NA
WP_000079130.1\|2618927_2619908_-	23S rRNA pseudouridine(1911/1915/1917) synthase RluD	NA	NA	NA	NA
WP_000197660.1\|2620039_2620777_+	outer membrane protein assembly factor BamD	NA	NA	NA	NA
WP_000178449.1\|2621048_2621387_+	ribosome-associated translation inhibitor RaiA	NA	NA	NA	NA
WP_010989056.1\|2621490_2621538_+	hypothetical protein	NA	NA	NA	NA
WP_000200087.1\|2621637_2622798_+	bifunctional chorismate mutase/prephenate dehydratase	NA	NA	NA	NA
WP_000210975.1\|2622758_2623667_-	SMP-30/gluconolactonase/LRE family protein	NA	NA	NA	NA
WP_000225183.1\|2623724_2624846_-	bifunctional chorismate mutase/prephenate dehydrogenase	NA	NA	NA	NA
WP_001168062.1\|2624855_2625926_-	3-deoxy-7-phosphoheptulonate synthase AroF	A0A0F6R6T6	Escherichia_coli_O157_typing_phage	2.4e-90	51.8
WP_001212373.1\|2626365_2626884_+	YfiR family protein	NA	NA	NA	NA
WP_001030993.1\|2626876_2628097_+	diguanylate cyclase DgcN	A0A2K8I9Y5	Pseudomonas_phage	1.7e-07	37.0
WP_000065257.1\|2628253_2628601_-	50S ribosomal protein L19	NA	NA	NA	NA
WP_000469802.1\|2628641_2629409_-\|tRNA	tRNA (guanosine(37)-N1)-methyltransferase TrmD	NA	NA	NA	NA
WP_000043266.1\|2629453_2630002_-	ribosome maturation factor RimM	NA	NA	NA	NA
WP_000256453.1\|2630020_2630269_-	30S ribosomal protein S16	NA	NA	NA	NA
WP_000460060.1\|2630520_2631882_-	signal recognition particle protein	NA	NA	NA	NA
WP_001537507.1\|2632047_2632839_+	inner membrane protein YpjD	NA	NA	NA	NA
WP_127908301.1\|2632858_2634145_+	HlyC/CorC family transporter	NA	NA	NA	NA
WP_000271804.1\|2634274_2634880_+	hypothetical protein	NA	NA	NA	NA
WP_001518875.1\|2634920_2635511_-	nucleotide exchange factor GrpE	NA	NA	NA	NA
WP_001059155.1\|2635633_2636512_+	NAD(+) kinase	NA	NA	NA	NA
WP_000880965.1\|2636597_2638259_+	DNA repair protein RecN	NA	NA	NA	NA
WP_001203433.1\|2638407_2638746_+	outer membrane protein assembly factor BamE	NA	NA	NA	NA
WP_001112990.1\|2638911_2639202_-	RnfH family protein	NA	NA	NA	NA
WP_000242604.1\|2639191_2639668_-	type II toxin-antitoxin system RatA family toxin	NA	NA	NA	NA
WP_001518569.1\|2639816_2640299_+	SsrA-binding protein SmpB	W5RAM5	Staphylococcus_phage	5.2e-29	47.4
WP_001237661.1\|2640917_2652392_+	biofilm-associated protein BapA	NA	NA	NA	NA
WP_000533854.1\|2652456_2653866_+	TolC family outer membrane protein	NA	NA	NA	NA
WP_000196156.1\|2653862_2656043_+	type I secretion system permease/ATPase	F2Y302	Organic_Lake_phycodnavirus	1.3e-18	34.0
WP_000342601.1\|2656050_2657214_+	HlyD family type I secretion periplasmic adaptor subunit	NA	NA	NA	NA
2657600:2657648	attL	NA	NA	NA	NA
WP_001039750.1\|2657743_2658121_+	hypothetical protein	NA	NA	NA	NA
WP_001775272.1\|2658207_2658426_-	ogr/Delta-like zinc finger family protein	E5G6Q4	Salmonella_phage	4.9e-27	75.0
WP_001011749.1\|2658493_2659594_-	phage late control D family protein	E5G6Q3	Salmonella_phage	3.0e-189	91.8
WP_000980405.1\|2659590_2660076_-\|tail	phage tail protein	E5G6Q2	Salmonella_phage	9.4e-71	93.2
WP_161976233.1\|2660075_2662622_-\|tail	phage tail tape measure protein	A0A2H4JGB2	uncultured_Caudovirales_phage	1.2e-113	42.7
WP_000763315.1\|2662848_2662968_-\|tail	GpE family phage tail protein	E5G6Q0	Salmonella_phage	1.2e-14	94.9
WP_001280965.1\|2662982_2663285_-\|tail	phage tail assembly protein	E5G6P9	Salmonella_phage	3.3e-42	93.9
WP_001207653.1\|2663339_2663855_-\|tail	phage major tail tube protein	E5G6P8	Salmonella_phage	2.7e-92	99.4
WP_000046101.1\|2663864_2665037_-\|tail	phage tail sheath protein	A0A1S6KZY7	Salmonella_phage	9.8e-223	99.5
WP_000388790.1\|2665139_2665358_-	Hin recombinase	A0A1S6L009	Salmonella_phage	1.4e-29	90.3
WP_000161709.1\|2665571_2666294_+	SPI-1 type III secretion system guanine nucleotide exchange factor SopE	NA	NA	NA	NA
WP_000006337.1\|2666491_2666899_-\|tail	tail fiber assembly protein	A0A1B0V844	Salmonella_phage	4.1e-59	84.2
WP_001274654.1\|2666905_2668525_-\|tail	phage tail protein	E5G6P0	Salmonella_phage	3.2e-155	91.2
WP_001086800.1\|2668521_2669127_-\|tail	phage tail protein I	A0A1S6L000	Salmonella_phage	1.3e-117	99.0
WP_000268328.1\|2669119_2670028_-\|plate	baseplate assembly protein	A0A1S6KZY6	Salmonella_phage	3.5e-159	99.7
WP_000177408.1\|2670014_2670374_-	GPW/gp25 family protein	A0A1S6KZZ4	Salmonella_phage	6.8e-58	96.6
WP_000993747.1\|2670370_2670949_-\|plate	phage baseplate assembly protein V	E5G6N6	Salmonella_phage	1.1e-107	99.0
WP_000343944.1\|2671017_2671464_-	phage virion morphogenesis protein	A0A1S6L001	Salmonella_phage	2.2e-66	90.4
WP_001039961.1\|2671456_2671888_-\|tail	phage tail protein	A0A1S6KZY0	Salmonella_phage	1.1e-75	99.3
WP_024131238.1\|2671983_2672412_-\|lysis	LysB family phage lysis regulatory protein	A0A1S6KZX8	Salmonella_phage	3.3e-67	97.9
WP_000731034.1\|2672408_2672786_-	hypothetical protein	A0A1S6KZZ2	Salmonella_phage	1.5e-60	99.2
WP_001069889.1\|2672790_2673300_-	lysozyme	A0A1S6KZY9	Salmonella_phage	1.2e-92	97.6
WP_000171565.1\|2673280_2673496_-	hypothetical protein	E5G6N0	Salmonella_phage	5.9e-33	100.0
WP_000868184.1\|2673499_2673703_-\|tail	tail protein X	E5G6M9	Salmonella_phage	3.8e-34	100.0
WP_000673540.1\|2673702_2674167_-\|head	head completion/stabilization protein	A0A1S6KZW8	Salmonella_phage	2.4e-84	98.1
WP_000059175.1\|2674260_2674911_-\|terminase	terminase endonuclease subunit	E5G6M7	Salmonella_phage	2.4e-114	99.5
WP_000730751.1\|2674914_2675979_-\|capsid	phage major capsid protein, P2 family	A0A1S6KZZ3	Salmonella_phage	1.3e-194	98.3
WP_000216272.1\|2675995_2676829_-\|capsid	GPO family capsid scaffolding protein	E5G6M5	Salmonella_phage	6.1e-126	87.4
WP_001098454.1\|2676971_2678738_+\|terminase	terminase ATPase subunit family protein	A0A1S6KZW3	Salmonella_phage	0.0e+00	96.3
WP_011233140.1\|2678737_2679781_+\|portal	phage portal protein	A0A1S6KZW5	Salmonella_phage	1.2e-174	86.0
WP_000080839.1\|2679829_2680525_-	hypothetical protein	NA	NA	NA	NA
WP_000789325.1\|2680544_2681609_-	hypothetical protein	NA	NA	NA	NA
WP_000829584.1\|2681605_2682670_-	hypothetical protein	NA	NA	NA	NA
WP_000835188.1\|2682679_2682898_-	hypothetical protein	NA	NA	NA	NA
WP_001217561.1\|2682993_2683227_-	DinI family protein	A0A1S6L014	Salmonella_phage	2.2e-33	92.2
WP_001154438.1\|2683238_2683427_-	hypothetical protein	A0A1S6L006	Salmonella_phage	7.9e-26	96.8
WP_000301196.1\|2683594_2685997_-	replication endonuclease	A0A1S6L028	Salmonella_phage	0.0e+00	95.5
WP_000104130.1\|2685987_2686848_-	DNA adenine methylase	E5G6L8	Salmonella_phage	3.4e-132	81.8
WP_001090717.1\|2686844_2687429_-	3'-5' exonuclease	A0A1S6L012	Salmonella_phage	1.1e-76	73.7
WP_000785510.1\|2687425_2687653_-	TraR/DksA family transcriptional regulator	A0A1S6L007	Salmonella_phage	1.0e-35	94.7
WP_001244240.1\|2687652_2687886_-	DUF2732 domain-containing protein	A0A1S6L021	Salmonella_phage	9.8e-26	84.4
WP_000963479.1\|2687953_2688295_-	DUF5347 domain-containing protein	A0A1S6L019	Salmonella_phage	4.6e-56	99.1
WP_000956167.1\|2688258_2688459_-	DUF2724 domain-containing protein	A0A1S6L005	Salmonella_phage	4.6e-32	97.0
WP_000460852.1\|2688466_2688976_-	phage regulatory CII family protein	A0A1S6L008	Salmonella_phage	1.3e-83	94.1
WP_000102106.1\|2689008_2689251_-	Rha family transcriptional regulator	A0A1S6KZZ6	Salmonella_phage	2.3e-38	98.8
WP_000052560.1\|2689367_2690000_+	helix-turn-helix domain-containing protein	A0A1S6KZZ7	Salmonella_phage	1.4e-66	58.6
WP_000027757.1\|2690003_2691029_+\|integrase	site-specific integrase	A0A1S6L016	Salmonella_phage	2.7e-200	98.2
WP_001177838.1\|2691272_2691521_+	hypothetical protein	NA	NA	NA	NA
WP_000136561.1\|2693145_2694264_-	DUF4935 domain-containing protein	NA	NA	NA	NA
WP_000977532.1\|2694943_2696647_-	hypothetical protein	F1BUJ7	Cronobacter_phage	9.2e-222	80.9
WP_000200793.1\|2696646_2697192_-	hypothetical protein	F1BUJ9	Cronobacter_phage	1.9e-59	72.5
WP_000267952.1\|2697163_2697889_-	hypothetical protein	F1BUK1	Cronobacter_phage	2.3e-68	56.8
WP_000421117.1\|2697878_2698406_-\|tail	tail fiber assembly protein	A0A0U2QV64	Escherichia_phage	3.1e-51	52.6
WP_000084304.1\|2698423_2700451_-\|tail	phage tail protein	F1BUK3	Cronobacter_phage	1.2e-154	47.9
WP_001001826.1\|2700460_2701048_-	hypothetical protein	F1BUK5	Cronobacter_phage	2.4e-89	82.1
WP_000136924.1\|2701040_2702225_-\|plate	baseplate J/gp47 family protein	F1BUK6	Cronobacter_phage	2.8e-177	77.6
WP_001002797.1\|2702221_2702551_-	DUF2590 family protein	F1BUK8	Cronobacter_phage	3.8e-39	72.4
WP_000811085.1\|2702547_2704518_-\|tail	phage tail tape measure protein	F1BUK9	Cronobacter_phage	5.6e-271	70.1
WP_000411339.1\|2704705_2704963_-	hypothetical protein	A5X9I7	Aeromonas_virus	3.6e-21	63.4
WP_000376372.1\|2705109_2705442_-	hypothetical protein	F1BUL2	Cronobacter_phage	2.6e-35	70.0
WP_000175560.1\|2705441_2705783_-	M15 family metallopeptidase	F1BUL3	Cronobacter_phage	2.2e-50	91.1
WP_001154425.1\|2705779_2706073_-\|holin	phage holin family protein	C7BGD7	Burkholderia_phage	1.3e-14	46.2
WP_000166742.1\|2706082_2706538_-	DUF2597 family protein	F1BUL4	Cronobacter_phage	2.1e-56	71.5
WP_000220202.1\|2706534_2707662_-	DUF2586 family protein	F1BUL5	Cronobacter_phage	5.6e-175	83.5
WP_000560074.1\|2707658_2708366_-	hypothetical protein	F1BUL6	Cronobacter_phage	6.3e-100	75.2
WP_000084220.1\|2708362_2708869_-\|tail	phage tail protein	F1BUL7	Cronobacter_phage	5.2e-64	69.8
WP_001680743.1\|2708865_2709318_-\|head	head completion/stabilization protein	F1BUL8	Cronobacter_phage	1.6e-64	82.7
WP_001218536.1\|2709414_2710116_-\|terminase	terminase	F1BUM0	Cronobacter_phage	3.2e-88	67.2
WP_000550496.1\|2710119_2711142_-\|capsid	phage major capsid protein, P2 family	F1BUM2	Cronobacter_phage	1.1e-158	81.2
WP_000018798.1\|2711203_2712004_-\|capsid	GPO family capsid scaffolding protein	F1BUM4	Cronobacter_phage	3.2e-76	54.8
WP_001151947.1\|2712164_2713940_+	hypothetical protein	F1BUM5	Cronobacter_phage	7.0e-289	82.6
WP_000038210.1\|2713936_2714998_+\|portal	phage portal protein	F1BUM7	Cronobacter_phage	6.7e-162	76.8
WP_001552031.1\|2714994_2715318_+	ogr/Delta-like zinc finger family protein	F1BUM8	Cronobacter_phage	8.0e-50	92.3
WP_000960960.1\|2715291_2715510_-	hypothetical protein	E5G6M0	Salmonella_phage	2.8e-06	49.1
WP_001137729.1\|2715622_2717374_-	replication endonuclease	F1BUM9	Cronobacter_phage	2.2e-255	75.0
WP_016504913.1\|2717500_2717644_-	hypothetical protein	NA	NA	NA	NA
WP_011233149.1\|2717684_2718497_-	Dam family site-specific DNA-(adenine-N6)-methyltransferase	F1BUN1	Cronobacter_phage	8.8e-122	84.3
WP_000057334.1\|2718487_2718718_-	DUF2732 family protein	NA	NA	NA	NA
WP_000022786.1\|2718785_2719187_-	hypothetical protein	F1BUN2	Cronobacter_phage	1.4e-48	66.9
WP_000643374.1\|2719601_2719829_-	DUF2724 domain-containing protein	NA	NA	NA	NA
WP_023211710.1\|2719838_2720342_-	phage regulatory CII family protein	F1BUN6	Cronobacter_phage	4.5e-60	72.5
WP_000687097.1\|2720724_2721297_+	phage repressor protein CI	F1BUN8	Cronobacter_phage	1.7e-58	53.8
WP_012532529.1\|2721296_2722310_+\|integrase	tyrosine-type recombinase/integrase	F1BUN9	Cronobacter_phage	2.5e-174	85.1
2723410:2723458	attR	NA	NA	NA	NA

DBSCAN-SWA_9

4455030 : 4465704

Enterobacteria_phage(60.0%)

integrase

attL 4451451:4451467|attR 4460119:4460135

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
4451451:4451467	attL	NA	NA	NA	NA
WP_000152556.1\|4455030_4456050_-	NAD(P)-dependent alcohol dehydrogenase	A0A0G2Y405	Acanthamoeba_polyphaga_mimivirus	7.9e-43	30.4
WP_000772671.1\|4456520_4457780_+\|integrase	integrase arm-type DNA-binding domain-containing protein	B7SYF8	Stenotrophomonas_phage	4.8e-74	41.2
WP_000970946.1\|4457833_4458829_-	site-specific DNA-methyltransferase	S0A236	Cellulophaga_phage	3.5e-19	24.2
WP_010376679.1\|4458884_4459121_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_000667328.1\|4459117_4459681_+	type II restriction endonuclease PvuII	A0A1B0UXL9	Roseobacter_phage	7.2e-30	42.9
WP_000210078.1\|4459900_4460467_-	phage polarity suppression protein	Q7M2A1	Enterobacteria_phage	7.7e-56	62.7
4460119:4460135	attR	NA	NA	NA	NA
WP_000984211.1\|4460483_4460729_-	ogr/Delta-like zinc finger family protein	Q7M294	Enterobacteria_phage	6.3e-31	76.5
WP_000198637.1\|4460725_4461463_-	hypothetical protein	Q7M2A2	Enterobacteria_phage	3.4e-80	64.9
WP_000556591.1\|4462000_4462267_+	AlpA family transcriptional regulator	Q7M299	Enterobacteria_phage	1.7e-29	70.5
WP_000980371.1\|4462263_4462815_+	host cell division inhibitor Icd-like protein	Q7M2A7	Enterobacteria_phage	2.0e-24	60.9
WP_001216601.1\|4462811_4463039_+	hypothetical protein	NA	NA	NA	NA
WP_000743148.1\|4463035_4463356_+	DUF5375 domain-containing protein	NA	NA	NA	NA
WP_000783718.1\|4463370_4465704_+	toprim domain-containing protein	Q7M2A8	Enterobacteria_phage	0.0e+00	84.1

Anti-CRISPR protein detection

Acr ID	Acr position	Acr size	Homology with known anti	Neighbor HTH/AcRanker	Neighbor Aca	In prophage	Protospacer in prophage

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NC_011147

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection