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
NZ_CP009092	Salmonella enterica subsp. enterica serovar Enteritidis strain OLF-SE10-10052 chromosome, complete genome	2 crisprs	WYL,DinG,DEDDh,cas3,csa3,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,PD-DExK	0	13	9	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NZ_CP009092_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP009092_1

2954725-2955302

TypeI-E

I-E

Consensus_repeat	Method
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CRISPRCasFinder
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CRT
GGTTTATCCCCGCTGGCGCGGGGAACAC	PILER-CR

9 spacers

cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,cas3

The CRISPR arrays of NZ_CP009092_1

>merge|NZ_CP009092|1|2954725-2955302|CRISPRCasFinder,CRT,PILER-CR
GTGTTTATCCCCGCTGACGCGGGGAACACTATTTATAAGCGTGTCATCTATGCAACCCAACCGGTTTATCCCCGCTGGCGCGGGGAACACACCTGCCCGACCCAATAAGGAGGCCCTCGTGACGGTTTATCCCCGCTGGCGCGGGGAACACGGCCGCTGGTCAAATTCCCAATCTGAGCAATCCGGTTTATCCCCGCTGGCGCGGGGAACACATAGCCCCGGCAGCGATAGCTAAACCAGTTCCCGGTTTATCCCCGCTGGCGCGGGGAACACGCCTCAAAATCTCTCGGTGAGATGTAAGCGTCCGGTTTATCCCCGCTGGCGCGGGGAACACACCAGTGGTCAGCGGCGGATGAATTTGCCCTGCGGTTTATCCCCGCTGGCGCGGGGAACACGAGAATGCTCATGCGCGTGAGCGCCATATATTCGGTTTATCCCCGCTGGCGCGGGGAACACCATGGCAATTTTACGGCGGACGTGCTCGCTCTCGGTTTATCCCCGCTGGCGCGGGGAACACAGGCGGACCGAAAAACCGTTTTCAGCCAACGTCGGTTTATCCCCGCTGGCGCGGGGAACAC

>NZ_CP009092|1|1|2954725-2955302|CRISPRCasFinder
GTGTTTATCCCCGCTGACGCGGGGAACAC	TATTTATAAGCGTGTCATCTATGCAACCCAAC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	ACCTGCCCGACCCAATAAGGAGGCCCTCGTGA
CGGTTTATCCCCGCTGGCGCGGGGAACAC	GGCCGCTGGTCAAATTCCCAATCTGAGCAATC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	ATAGCCCCGGCAGCGATAGCTAAACCAGTTCC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	GCCTCAAAATCTCTCGGTGAGATGTAAGCGTC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	ACCAGTGGTCAGCGGCGGATGAATTTGCCCTG
CGGTTTATCCCCGCTGGCGCGGGGAACAC	GAGAATGCTCATGCGCGTGAGCGCCATATATT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CATGGCAATTTTACGGCGGACGTGCTCGCTCT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	AGGCGGACCGAAAAACCGTTTTCAGCCAACGT
CGGTTTATCCCCGCTGGCGCGGGGAACAC

>NZ_CP009092|1|1|2954725-2955302|CRT
GTGTTTATCCCCGCTGACGCGGGGAACAC	TATTTATAAGCGTGTCATCTATGCAACCCAAC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	ACCTGCCCGACCCAATAAGGAGGCCCTCGTGA
CGGTTTATCCCCGCTGGCGCGGGGAACAC	GGCCGCTGGTCAAATTCCCAATCTGAGCAATC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	ATAGCCCCGGCAGCGATAGCTAAACCAGTTCC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	GCCTCAAAATCTCTCGGTGAGATGTAAGCGTC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	ACCAGTGGTCAGCGGCGGATGAATTTGCCCTG
CGGTTTATCCCCGCTGGCGCGGGGAACAC	GAGAATGCTCATGCGCGTGAGCGCCATATATT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CATGGCAATTTTACGGCGGACGTGCTCGCTCT
CGGTTTATCCCCGCTGGCGCGGGGAACAC	AGGCGGACCGAAAAACCGTTTTCAGCCAACGT
CGGTTTATCCCCGCTGGCGCGGGGAACAC

>NZ_CP009092|1|1|2954727-2955302|PILER-CR
GTTTATCCCCGCTGACGCGGGGAACACT	ATTTATAAGCGTGTCATCTATGCAACCCAACCG
GTTTATCCCCGCTGGCGCGGGGAACACA	CCTGCCCGACCCAATAAGGAGGCCCTCGTGACG
GTTTATCCCCGCTGGCGCGGGGAACACG	GCCGCTGGTCAAATTCCCAATCTGAGCAATCCG
GTTTATCCCCGCTGGCGCGGGGAACACA	TAGCCCCGGCAGCGATAGCTAAACCAGTTCCCG
GTTTATCCCCGCTGGCGCGGGGAACACG	CCTCAAAATCTCTCGGTGAGATGTAAGCGTCCG
GTTTATCCCCGCTGGCGCGGGGAACACA	CCAGTGGTCAGCGGCGGATGAATTTGCCCTGCG
GTTTATCCCCGCTGGCGCGGGGAACACG	AGAATGCTCATGCGCGTGAGCGCCATATATTCG
GTTTATCCCCGCTGGCGCGGGGAACACC	ATGGCAATTTTACGGCGGACGTGCTCGCTCTCG
GTTTATCCCCGCTGGCGCGGGGAACACA	GGCGGACCGAAAAACCGTTTTCAGCCAACGTCG
GTTTATCCCCGCTGGCGCGGGGAACAC

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP009092.1\|WP_000085107.1\|2957240_2957987_-\|type-I-E-CRISPR-associated-protein-Cas5/CasD	cas5	cd09645_cas5_CAS-I-E	gnl\|CDD\|187776
NZ_CP009092.1\|WP_001219253.1\|2948379_2948859_-\|2-C-methyl-D-erythritol-2,4-cyclodiphosphate-synthase	unknown	unknown	gnl\|CDD\|178851
NZ_CP009092.1\|WP_000741653.1\|2948858_2949569_-\|2-C-methyl-D-erythritol-4-phosphate-cytidylyltransferase	unknown	unknown	gnl\|CDD\|234670
NZ_CP009092.1\|WP_000490481.1\|2953663_2954710_+\|aminopeptidase	unknown	unknown	gnl\|CDD\|182299
NZ_CP009092.1\|WP_001221538.1\|2946591_2947353_-\|5'/3'-nucleotidase-SurE	unknown	unknown	gnl\|CDD\|234732
NZ_CP009092.1\|WP_001092251.1\|2951055_2952495_-\|sulfate-adenylyltransferase-subunit-CysN	unknown	unknown	gnl\|CDD\|235349
NZ_CP009092.1\|WP_000281483.1\|2956608_2957259_-\|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE	cas6e	cd09664_cas6e_CAS-I-E	gnl\|CDD\|273869
NZ_CP009092.1\|WP_001518648.1\|2955398_2955692_-\|type-I-E-CRISPR-associated-endoribonuclease-Cas2	cas2	cd09648_cas2_CAS-I-E	gnl\|CDD\|236930
NZ_CP009092.1\|WP_001118109.1\|2950089_2950446_-\|DUF3561-family-protein	unknown	unknown	gnl\|CDD\|371891
NZ_CP009092.1\|WP_001145541.1\|2964295_2965249_+\|SPI-1-type-III-secretion-system-effector-SopD	unknown	unknown	gnl\|CDD\|185277
NZ_CP009092.1\|WP_000039870.1\|2965336_2966071_-\|phosphoadenosine-phosphosulfate-reductase	unknown	unknown	gnl\|CDD\|234997
NZ_CP009092.1\|WP_000368579.1\|2959620_2961177_-\|type-I-E-CRISPR-associated-protein-Cse1/CasA	cas8e	cd09669_cas8e_CAS-I-E	gnl\|CDD\|274192
NZ_CP009092.1\|WP_000206417.1\|2957997_2959056_-\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	cas7	pfam09344_cas7_CAS-I-E	gnl\|CDD\|273843
NZ_CP009092.1\|WP_000372384.1\|2952504_2953413_-\|sulfate-adenylyltransferase-subunit-CysD	unknown	unknown	gnl\|CDD\|235375
NZ_CP009092.1\|WP_000134246.1\|2947333_2948383_-\|tRNA-pseudouridine(13)-synthase-TruD	unknown	unknown	gnl\|CDD\|234884
NZ_CP009092.1\|WP_001173663.1\|2950463_2951069_-\|adenylyl-sulfate-kinase	unknown	unknown	gnl\|CDD\|179661
NZ_CP009092.1\|WP_000517480.1\|2949587_2949899_-\|cell-division-protein-FtsB	unknown	unknown	gnl\|CDD\|179156
NZ_CP009092.1\|WP_000117945.1\|2959069_2959624_-\|type-I-E-CRISPR-associated-protein-Cse2/CasB	cse2gr11	cd09731_cse2gr11_CAS-I-E	gnl\|CDD\|187862
NZ_CP009092.1\|WP_000144830.1\|2955691_2956612_-\|type-I-E-CRISPR-associated-endonuclease-Cas1	cas1	cd09719_cas1_CAS-I-E	gnl\|CDD\|274693
NZ_CP009092.1\|WP_000029737.1\|2961188_2963852_-\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	COG1203_cas3_CAS-I	gnl\|CDD\|224124

Protein	Function_ID	Function_description	E-value
NZ_CP009092.1\|WP_000085107.1\|2957240_2957987_-\|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.	1.16311e-46
NZ_CP009092.1\|WP_001219253.1\|2948379_2948859_-\|2-C-methyl-D-erythritol-2,4-cyclodiphosphate-synthase	gnl\|CDD\|178851	PRK00084, ispF, 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase; Reviewed.	3.84083e-103
NZ_CP009092.1\|WP_000741653.1\|2948858_2949569_-\|2-C-methyl-D-erythritol-4-phosphate-cytidylyltransferase	gnl\|CDD\|234670	PRK00155, ispD, D-ribitol-5-phosphate cytidylyltransferase.	4.09575e-119
NZ_CP009092.1\|WP_000490481.1\|2953663_2954710_+\|aminopeptidase	gnl\|CDD\|182299	PRK10199, PRK10199, alkaline phosphatase isozyme conversion aminopeptidase; Provisional.	0
NZ_CP009092.1\|WP_001221538.1\|2946591_2947353_-\|5'/3'-nucleotidase-SurE	gnl\|CDD\|234732	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional.	1.7078e-146
NZ_CP009092.1\|WP_001092251.1\|2951055_2952495_-\|sulfate-adenylyltransferase-subunit-CysN	gnl\|CDD\|235349	PRK05124, cysN, sulfate adenylyltransferase subunit 1; Provisional.	0
NZ_CP009092.1\|WP_000281483.1\|2956608_2957259_-\|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE	gnl\|CDD\|273869	TIGR01907, CRISPR_system_Cascade_subunit_CasE, CRISPR-associated protein Cas6/Cse3/CasE, subtype I-E/ECOLI. 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, represented by CT1974 from Chlorobium tepidum, is found in the Ecoli subtype of CRISPR/Cas regions and is designated Cse3 (CRISPR/Cas Subtype Ecoli protein 3). The representative of this family from Thermus thermophilus HB8 (TTHB192) has been crystallized and found to have a structure consisting of two domains with opposing parallel beta-sheets known as a beta-sheet platform. This structure is similar to those found in the Sex-lethal protein and poly(A)-binding protein. This structure is consistent with an RNA-binding function.	7.7595e-75
NZ_CP009092.1\|WP_001518648.1\|2955398_2955692_-\|type-I-E-CRISPR-associated-endoribonuclease-Cas2	gnl\|CDD\|236930	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional.	1.1867e-62
NZ_CP009092.1\|WP_001118109.1\|2950089_2950446_-\|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.	4.85353e-49
NZ_CP009092.1\|WP_001145541.1\|2964295_2965249_+\|SPI-1-type-III-secretion-system-effector-SopD	gnl\|CDD\|185277	PRK15379, PRK15379, type III secretion system effector SopD.	0
NZ_CP009092.1\|WP_000039870.1\|2965336_2966071_-\|phosphoadenosine-phosphosulfate-reductase	gnl\|CDD\|234997	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase.	7.73232e-139
NZ_CP009092.1\|WP_000368579.1\|2959620_2961177_-\|type-I-E-CRISPR-associated-protein-Cse1/CasA	gnl\|CDD\|274192	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1. 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, represented by CT1972 from Chlorobium tepidum, is found in Ecoli subtype CRISPR/Cas regions of many bacteria, most of which are mesophiles, and not in Archaea. It is designated Cse1.	0
NZ_CP009092.1\|WP_000206417.1\|2957997_2959056_-\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	gnl\|CDD\|273843	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI. 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 and is part of the Ecoli subtype of CRISPR/Cas locis. It is designated Cse4, for CRISPR/Cas Subtype Ecoli protein 4.	4.28543e-133
NZ_CP009092.1\|WP_000372384.1\|2952504_2953413_-\|sulfate-adenylyltransferase-subunit-CysD	gnl\|CDD\|235375	PRK05253, PRK05253, sulfate adenylyltransferase subunit CysD.	0
NZ_CP009092.1\|WP_000134246.1\|2947333_2948383_-\|tRNA-pseudouridine(13)-synthase-TruD	gnl\|CDD\|234884	PRK00984, truD, tRNA pseudouridine synthase D; Reviewed.	0
NZ_CP009092.1\|WP_001173663.1\|2950463_2951069_-\|adenylyl-sulfate-kinase	gnl\|CDD\|179661	PRK03846, PRK03846, adenylylsulfate kinase; Provisional.	4.61291e-146
NZ_CP009092.1\|WP_000517480.1\|2949587_2949899_-\|cell-division-protein-FtsB	gnl\|CDD\|179156	PRK00888, ftsB, cell division protein FtsB; Reviewed.	1.08865e-64
NZ_CP009092.1\|WP_000117945.1\|2959069_2959624_-\|type-I-E-CRISPR-associated-protein-Cse2/CasB	gnl\|CDD\|187862	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2. 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; Small alpha-helical protein; also known as Cse2/CasB/YgcK family; specific gene for I-E subtype;.	1.26497e-33
NZ_CP009092.1\|WP_000144830.1\|2955691_2956612_-\|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.	1.63116e-157
NZ_CP009092.1\|WP_000029737.1\|2961188_2963852_-\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|224124	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms].	0

>NZ_CP009092.1|WP_000490481.1|2953663_2954710_+|aminopeptidase
MFSATRRFAVILALGVGFILPAQAASPGPGEIANTQARHIATFFPGRMTGSPAEMLSADYLRQQFTQMGYQSDIRTFNSRFIYTTKDNRKNWHNVTGSTVIAAHEGRVPQQIIIMAHLDTYAPQSDADVDANLGGLTLQGMDDNAAGLGVMLELAARLKDIPTHYGIRFIATSGEEEGKLGAENLLKRMSDAEKKNTLLVINLDNLIVGDKLYFNSGKNTPEAVRTLTRDRALAIARRYGIAANTNPGRNPSYPKGTGCCNDAEVFDKAGISVLSVEATNWNLGKKDGYQQRVKNASFPNGNSWHDVRLDNQQHIDKALPGRIERRSRDVVRIMLPLVKELAKAEKTS
>NZ_CP009092.1|WP_000372384.1|2952504_2953413_-|sulfate-adenylyltransferase-subunit-CysD
MDQKRLTHLRQLEAESIHIIREVAAEFANPVMLYSIGKDSSVMLHLARKAFYPGTLPFPLLHVDTGWKFREMYAFRDRTANAYGCELLVHKNPEGVAMGINPFVHGSAKHTDIMKTEGLKQALNKYGFDAAFGGARRDEEKSRAKERIYSFRDRFHRWDPKNQRPELWRNYNGQINKGESIRVFPLSNWTEQDIWQYIWLENIDIVPLYLAAERPVLERDGMLMMVDDDRIDLQPGEVIKKRMVRFRTLGCWPLTGAVESHAQTLPEIIEEMLVSTTSERQGRMIDRDQAGSMELKKRQGYF
>NZ_CP009092.1|WP_001092251.1|2951055_2952495_-|sulfate-adenylyltransferase-subunit-CysN
MNTILAQQIANEGGVEAWMIAQQHKSLLRFLTCGSVDDGKSTLIGRLLHDTLQIYEDQLSSLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHSFISTLLGIKHLVVAINKMDLVDYCEETFARIREDYLTFAEQLPGDLDIRFVPLSALEGDNVAAQSANMRWYSGPTLLEVLETVDIQRAVDRQPMRFPVQYVNRPNLDFRGYAGTLASGSVKVGERIKVLPSGVESSVARIVTFDGDKEEACAGEAITLVLNDDIDISRGDLLLAANETLAPARHAAIDVVWMAEQPLAPGQSYDVKLAGKKTRARIEAIRYQIDINNLTQRDVESLPLNGIGLVEMTFDEPLALDIYQQNPVTGGLIFIDRLSNVTVGAGMVRELDERGATPPVEYSAFELELNALVRRHFPHWDARDLLGDKHGAA
>NZ_CP009092.1|WP_001173663.1|2950463_2951069_-|adenylyl-sulfate-kinase
MALHDENVVWHSHPVTVAAREQLHGHRGVVLWFTGLSGSGKSTVAGALEEALHQRGVSTYLLDGDNVRHGLCRDLGFSDADRQENIRRVGEVASLMADAGLIVLTAFISPHRAERQLVKERVGHDRFIEIYVNTPLAICEQRDPKGLYKKARAGELRNFTGIDAIYEAPDSPQVHLNGEQLVTNLVSQLLDLLRRRDIIRS
>NZ_CP009092.1|WP_001118109.1|2950089_2950446_-|DUF3561-family-protein
MPGMVKVTGFNMRNSHNITFTRSDAFMVDDDATSAFPGAVVGFVSWLLALGIPFLLYGPNTLFFFLYTWPFFLALMPVSVIIGIALHLLVKGKILFSIMFTLLAVGALFGALFIWLLG
>NZ_CP009092.1|WP_000517480.1|2949587_2949899_-|cell-division-protein-FtsB
MGKLTLLLLALLVWLQYSLWFGKNGIHDYSRVNDDVVAQQATNAKLKARNDQLFAEIDDLNGGQEAIEERARNELSMTKPGETFYRLVPDASKRAATAGQTHR
>NZ_CP009092.1|WP_000741653.1|2948858_2949569_-|2-C-methyl-D-erythritol-4-phosphate-cytidylyltransferase
MAATLLDVCAVVPAAGFGRRMQTECPKQYLSIGNKTILEHSVHALLAHPRVTRVVIAISPGDHRFAQLPLANHPQITVVDGGNERADSVLAGLQAVAKAQWVLVHDAARPCLHQDDLARLLTISENSRVGGILASPVRDTMKRGEPGKNAIAHTVERADLWHALTPQFFPRELLHDCLTRALNEGATITDEASALEYCGFHPALVEGRADNIKVTRPEDLALAEFYLTRTIHQEKA
>NZ_CP009092.1|WP_001219253.1|2948379_2948859_-|2-C-methyl-D-erythritol-2,4-cyclodiphosphate-synthase
MRIGHGFDVHAFGGEGPIIIGGVRISYEKGLLAHSDGDVALHALTDALLGAAALGDIGKLFPDTDPAFKGADSRELLREAWRRIQAKGYTLGNVDVTIIAQAPKMLPHIPQMRVFIAEDLGCHMDDVNVKATTTEKLGFTGRGEGIACEAVALLMKAAK
>NZ_CP009092.1|WP_000134246.1|2947333_2948383_-|tRNA-pseudouridine(13)-synthase-TruD
MTEFDNLTWLHGKPQGSGLLKANPEDFVVVEDLGFTPDGEGEHILLRILKNGCNTRFVADALAKFLKIHAREVSFAGQKDKHAVTEQWLCARVPGKEMPDFSAFQLEGCKVLEYARHKRKLRLGALKGNAFTLVLREISDRRDVETRLQAIRDGGVPNYFGAQRFGIGGSNLQGALRWAQSNAPVRDRNKRSFWLSAARSALFNQIVHQRLKKPDFNQVVDGDALQLAGRGSWFVATSEELPELQRRVDEKELMITASLPGSGEWGTQRAALAFEQDAIAQETVLQSLLLREKVEASRRAMLLYPQQLSWNWWDDVTVELRFWLPAGSFATSVVRELINTMGDYAHIAE
>NZ_CP009092.1|WP_001221538.1|2946591_2947353_-|5'/3'-nucleotidase-SurE
MRILLSNDDGVHAPGIQTLAKALREFADVQVVAPDRNRSGASNSLTLESSLRTFTFDNGDIAVQMGTPTDCVYLGVNALMRPRPDIVVSGINAGPNLGDDVIYSGTVAAAMEGRHLGFPALAVSLNGYQHYDTAAAVTCALLRGLSREPLRTGRILNVNVPDLPLAQVKGIRVTRCGSRHPADKVIPQEDPRGNTLYWIGPPGDKYDAGPDTDFAAVDEGYVSVTPLHVDLTAHSAHDVVSDWLDSVGVGTQW
>NZ_CP009092.1|WP_001518648.1|2955398_2955692_-|type-I-E-CRISPR-associated-endoribonuclease-Cas2
MSMVVVVTENVPPRLRGRLAVWLLEVRAGVYVGDTSKRIREMIWQQITQLGGVGNVVMAWATNTESGFEFQTWGENRRIPVDLDGLRLVSFLPVENQ
>NZ_CP009092.1|WP_000144830.1|2955691_2956612_-|type-I-E-CRISPR-associated-endonuclease-Cas1
MTFVPLNPIPLKDRTSMIFLQYGQIDVLDGAFVLIDKTGIRTHIPVGSVACIMLEPGTRVSHAAVHLASTVGTLLVWVGEAGVRVYSSGQPGGARADKLLYQAKLALDDDLRLKVVRKMYELRFREPPPARRSVEQLRGIEGSRVRATYALLAKQYGVKWHGRNYDPKDWEKGDVVNRCISAATSCLYGISEAAILAAGYAPAIGFIHSGKPLSFVYDIADIIKFESVVPKAFEIAARHPAEPDKEVRLACRDIFRSSKLTGKLIPLIEEVLAAGEIEPPQPAPDMLPPAIPEPESLGDSGHRGHG
>NZ_CP009092.1|WP_000281483.1|2956608_2957259_-|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE
MYLSRITLHTSELSPAQLLHLVERGEYVMHQWLWDLFPGGKERQFLYRREELQGAFRFFVLSQEQPAASTIFDVQTRPFAPMLSAGQTLRFNLRANPTICKNGKRHDLLMEAKRQRKTQGDSQDIWSYQQQAALEWLARQGEQNGFTLREASVDAYRQQQIRREKSRQMIQFSSVDYTGVLVINEPALFLQRLAQGYGKSRAFGCGMMMIKPGDDA
>NZ_CP009092.1|WP_000085107.1|2957240_2957987_-|type-I-E-CRISPR-associated-protein-Cas5/CasD
MSQYLVFQLHGPMASWGVDAPGEVRHSHELPLRSALLGLLAAALGIRRDEEERLNTFNRHYQFLLCASGNPRWARDYHTVQMPKEVRKARYFSRREELQDPELLSALISRRDYYTDAWWMIAVSATPDAPYTLAQLQAALQHPVFPLYLGRKSHPLALPLAPQLLEGNAADVLREAYRWYQDQFNALKLTLPGLQNECWWEGEHDGLTANKILRRRDMPLSRQQWLFGERSVNQGPWLRKEDACISQE
>NZ_CP009092.1|WP_000206417.1|2957997_2959056_-|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC
MTTFIQLHLLTAYPAANLNRDDTGAPKTVVLGGATRLRISSQSLKRAWRTSELFEQALAGHIGIRTGRIAREAAQILVDSGIDAKKAVEYVKNIANCFGKVKEDKKPKDELTNAETEQLVHISPAEFEAVKALARRLAEEKRPATEEEAELLRHDRMAVDIAMFGRMLAKKTDFNVEAACQVAHAFGVSETIIEDDFFTAVDDLRQASAEDAGAGHLGETGFGSALFYTYICIDKDLLVKNLNGNEELANKTLRAFTEAALKVSPTGKQNSFASRAYASWALAEKGTDQPRSLAAAFYEPINGTDQLNVAVKRITALHENMNEVYAQETAFKNFNVMNQQGSMKDVLDFICA
>NZ_CP009092.1|WP_000117945.1|2959069_2959624_-|type-I-E-CRISPR-associated-protein-Cse2/CasB
MSVVTKDDKATLRQWHDELQEKRGLRASLRRSKTVNDACLAEGLHSLLMQTHSLWKNKAPWNVTALAITAALAAHIKFIDEQKSFAAQLGQKKGGDTPVMSKLRFSHLLAVKTPDELLRQLRRAVKLLDGSVNLFSLADDIFCWCQEQNDLLNHHRRQQRPTEFLRIRWALEYYQAGDTDNEQD
>NZ_CP009092.1|WP_000368579.1|2959620_2961177_-|type-I-E-CRISPR-associated-protein-Cse1/CasA
MDNFSLLTTPWLPVRFKDGSTGKLAPVDLADENVVDIAATRADLQGAAWQFLLGLLQCSIAPKRYKNWEDIWFDGLHADVLHKALAPLEHAFQFGAESPSFMQDFEPLSGEKVSIASLLPEIPGAQTTKFNKDHFVKRGVTERFCPHCAALALFSLQLNAPAGGKGYRTGLRGGGPLTTLVELQEYQGERQTPIWRKLWLNVMPQDTADLPLPDQCDATVFPWLAATRTSEQANAVTTPEQVNKLQAYWGMPRRIRLDFATLQSGCCDICGAESDELLGFMTVKNYGVNYDGWRHPLTPYRAPVKDQNAFFSVKPQPGGLIWRDWLGLSQNNQTEANYESPAQVVKVFNARSLTDVKAGIRGFGADFDNMKIRCWYEHHFPLLMTEGLIPDLRKAVQTAARLLSLLRSALKEAWFTNAKDARGDFSFIDIDFWNLTQGRFLNLIHDLENGHKPDERLNKWQRELWLFTRCYFDDHVFTNPYESSDLERIMKARKKYFTSSAEKQSAKAAKAKKQEAAE
>NZ_CP009092.1|WP_000029737.1|2961188_2963852_-|CRISPR-associated-helicase/endonuclease-Cas3
MSIYHYWGKSRRGETDGGDDYHLLCWHSLDVAAVGYWMVINNIYFIDHYLKKLGIQDKEQAAQFFAWILCWHDIGKFAHSFQQLYRHEALNIFNEPTRHYEKIAHTTLGYMLWNSWLSECPELFPPSSLSVRKSKRVMALWMPVTTGHHGRPPEAIQELDHFRQQDKDAARDFLLRIKALFPLITLPEAWDEDEGIDQFQQLSWFISAAVVLADWTGSASRYFPRTAEKMPVDTYWQQALAKAQTAITLFPSAANVSAFTGIETLFPFIQHPTPLQQKALELDINVDGAQLFILEDVTGAGKTEAALILAHRLMAAGKAQGLYFGLPTMATANAMFERMANTWLALYQPDSRPSLILAHSARRLMDRFNQSIWSVTLSGTEEPDEAQPYSQGCAAWFADSNKKALLAEVGVGTLDQAMMAVMPFKHNNLRLLGLSNKILLADEIHACDAWMSRILEGLIERQASNGNATILLSATLSQQQRDKLVAAFSRGVRRSVQAPLLGHDDYPWLTQVTQTELISQRVDTRKEVERCVDIGWLHSEEACLERIGEAVEKGNCIAWIRNSVDDAIRIYRQLQLSKVVATENLLLFHSRFAFHDRQRIESQTLNLFGKQSGAQRAGKVIIATQVIEQSLDIDCDEMISDLAPVDLLIQRAGRLQRHIRDRNGLVKKSGQDERETPVLRILAPEWDDAPRENWLSSAMRNSAYVYPDHGRMWLTQRILREQGTIRMPQSARLLIESVYGEDVNMPVGFAKTEQLQEGKFYCDRAFAGQMLLNFAPGYCAEISDSLPEKMSTRLAEESVTLWLAKIVDSVVTPYASGEHAWEMSVLRVRQSWWNKHKDEFEKLDGEPLRKWCAQQHQDKDFATVIVVTDFAACGYSANEGLIGMMGE
>NZ_CP009092.1|WP_001145541.1|2964295_2965249_+|SPI-1-type-III-secretion-system-effector-SopD
MPVTLSFGNHQNYTLNESRLAHLLSADKEKAIHMGGWDKVQDHFRAEKKDHALEVLHSIIHGQGRGEPGEMEVNVEDINKIYAFKRLQHLACPAHQDLFTIKMDASQTQFLLMVGDTVISQSNIKDILNISDDAVIESMSREERQLFLQICEVIGAKMTWHPELLQESISTLRKEVTGNAQIKAAVYEMMRPAEAPDHPLVEWQDSLTEDEKSMLACINAGNFEPTTQFCKIGYQEVQGEVAFSMMHPCISYLLHTYSPFAEFKPTNSGFLKKLNQDYNDYHAKKMFIDVILEKLYLTHERSLHIGKDGCSRNILLT
>NZ_CP009092.1|WP_000039870.1|2965336_2966071_-|phosphoadenosine-phosphosulfate-reductase
MSKLDLNALNELPKVDRVLALAETNAQLETLTAEERVAWALENLPGEYVLSSSFGIQAAVSLHLVNQIRPDIPVILTDTGYLFPETYQFIDELTDKLKLNLKVYRAGESPAWQEARYGKLWEQGVEGIEKYNEINKVEPMNRALKELKAQTWFAGLRREQSGSRAHLPVLAIQRGVFKVLPIIDWDNRTVYQYLQKHGLKYHPLWDQGYLSVGDTHTTRKWEPGMAEEETRFFGLKRECGLHEG

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Crispr_ID: NZ_CP009092_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP009092_2

2971454-2972154

TypeI-E

I-E

Consensus_repeat	Method
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CRISPRCasFinder
CNGTTTATCCCCGCTGGCGCGGGGAACAC	CRT
GTTTATCCCCGCTGGCGCGGGGAACAC	PILER-CR

11 spacers

cas3,cas8e,cse2gr11,cas7

The CRISPR arrays of NZ_CP009092_2

>merge|NZ_CP009092|2|2971454-2972154|CRISPRCasFinder,CRT,PILER-CR
ACGGCTATCCTTGTTGGCGCGGGGAACACGGCTACACGCAAAAATTCCAGTCGTTGGCGCACGGTTTATCCCCGCTGGCGCGGGGAACACCCGATTAAGATCCGCAGTCTGCATCAGTAACTCGGTTTATCCCCGCTGGCGAGGGGAACACCGATTCTACGGCAACAGGCCAGGCTGCGACCGCGGTTTATCCCCGCTGGCGCGGGGAACACATCAAACATGGAAACCCCTTTAATGAGAGCAACGGTTTATCCCCGCTGGCGCGGGGAACACTCAGGAACGCGCGGCGGAAGAGCTTGGTGTTTGCGGTTTATCCCCGCTGGCGCGGGGAACACGCTGCCTTTCCCGGAGTTCCGGCCCCTAAATTGGGTTTATCCCCGCTGGCGCGGGGAACACTCATGCGCTATAAAAATCAGACTGTCACATGCCGGTTTATCCCCGCTGGCGCGGGGAACACTGATTATTGACGACAACAGCACAGACCGGCAGCAGTTTATCCCCGCTGGCGCGGGGAACACAATAATCGGCAATTTGTCCTGGACAGGCACGGCAGTTTATCCCCGCTGGCGCGGGGAACACAATAATCGGCAATTTGTCCTGGACAGGCACGGCAGTTTATCCCCGCTGGCGCGGGGAACACGAATCTGGAGGCCAACAGCGCGGCGAAATCCTCAGTTTATCCCCGCTGGCGCGGGGAACAC

>NZ_CP009092|2|2|2971454-2972154|CRISPRCasFinder
ACGGCTATCCTTGTTGGCGCGGGGAACAC	GGCTACACGCAAAAATTCCAGTCGTTGGCGCA
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CCGATTAAGATCCGCAGTCTGCATCAGTAACT
CGGTTTATCCCCGCTGGCGAGGGGAACAC	CGATTCTACGGCAACAGGCCAGGCTGCGACCG
CGGTTTATCCCCGCTGGCGCGGGGAACAC	ATCAAACATGGAAACCCCTTTAATGAGAGCAA
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TCAGGAACGCGCGGCGGAAGAGCTTGGTGTTTG
CGGTTTATCCCCGCTGGCGCGGGGAACAC	GCTGCCTTTCCCGGAGTTCCGGCCCCTAAATT
GGGTTTATCCCCGCTGGCGCGGGGAACAC	TCATGCGCTATAAAAATCAGACTGTCACATGC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGATTATTGACGACAACAGCACAGACCGGCAG
CAGTTTATCCCCGCTGGCGCGGGGAACAC	AATAATCGGCAATTTGTCCTGGACAGGCACGG
CAGTTTATCCCCGCTGGCGCGGGGAACAC	AATAATCGGCAATTTGTCCTGGACAGGCACGG
CAGTTTATCCCCGCTGGCGCGGGGAACAC	GAATCTGGAGGCCAACAGCGCGGCGAAATCCT
CAGTTTATCCCCGCTGGCGCGGGGAACAC

>NZ_CP009092|2|2|2971454-2972154|CRT
ACGGCTATCCTTGTTGGCGCGGGGAACAC	GGCTACACGCAAAAATTCCAGTCGTTGGCGCA
CGGTTTATCCCCGCTGGCGCGGGGAACAC	CCGATTAAGATCCGCAGTCTGCATCAGTAACT
CGGTTTATCCCCGCTGGCGAGGGGAACAC	CGATTCTACGGCAACAGGCCAGGCTGCGACCG
CGGTTTATCCCCGCTGGCGCGGGGAACAC	ATCAAACATGGAAACCCCTTTAATGAGAGCAA
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TCAGGAACGCGCGGCGGAAGAGCTTGGTGTTTG
CGGTTTATCCCCGCTGGCGCGGGGAACAC	GCTGCCTTTCCCGGAGTTCCGGCCCCTAAATT
GGGTTTATCCCCGCTGGCGCGGGGAACAC	TCATGCGCTATAAAAATCAGACTGTCACATGC
CGGTTTATCCCCGCTGGCGCGGGGAACAC	TGATTATTGACGACAACAGCACAGACCGGCAG
CAGTTTATCCCCGCTGGCGCGGGGAACAC	AATAATCGGCAATTTGTCCTGGACAGGCACGG
CAGTTTATCCCCGCTGGCGCGGGGAACAC	AATAATCGGCAATTTGTCCTGGACAGGCACGG
CAGTTTATCCCCGCTGGCGCGGGGAACAC	GAATCTGGAGGCCAACAGCGCGGCGAAATCCT
CAGTTTATCCCCGCTGGCGCGGGGAACAC

>NZ_CP009092|2|2|2971517-2972154|PILER-CR
GTTTATCCCCGCTGGCGCGGGGAACAC	CCGATTAAGATCCGCAGTCTGCATCAGTAACTCG
GTTTATCCCCGCTGGCGAGGGGAACAC	CGATTCTACGGCAACAGGCCAGGCTGCGACCGCG
GTTTATCCCCGCTGGCGCGGGGAACAC	ATCAAACATGGAAACCCCTTTAATGAGAGCAACG
GTTTATCCCCGCTGGCGCGGGGAACAC	TCAGGAACGCGCGGCGGAAGAGCTTGGTGTTTGCG
GTTTATCCCCGCTGGCGCGGGGAACAC	GCTGCCTTTCCCGGAGTTCCGGCCCCTAAATTGG
GTTTATCCCCGCTGGCGCGGGGAACAC	TCATGCGCTATAAAAATCAGACTGTCACATGCCG
GTTTATCCCCGCTGGCGCGGGGAACAC	TGATTATTGACGACAACAGCACAGACCGGCAGCA
GTTTATCCCCGCTGGCGCGGGGAACAC	AATAATCGGCAATTTGTCCTGGACAGGCACGGCA
GTTTATCCCCGCTGGCGCGGGGAACAC	AATAATCGGCAATTTGTCCTGGACAGGCACGGCA
GTTTATCCCCGCTGGCGCGGGGAACAC	GAATCTGGAGGCCAACAGCGCGGCGAAATCCTCA
GTTTATCCCCGCTGGCGCGGGGAACAC

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP009092.1\|WP_000210863.1\|2974638_2976276_-\|CTP-synthase-(glutamine-hydrolyzing)	unknown	unknown	gnl\|CDD\|235437
NZ_CP009092.1\|WP_001290670.1\|2966172_2967885_-\|assimilatory-sulfite-reductase-(NADPH)-hemoprotein-subunit	unknown	unknown	gnl\|CDD\|237402
NZ_CP009092.1\|WP_001044459.1\|2981290_2982064_+\|fimbria/pilus-periplasmic-chaperone	unknown	unknown	gnl\|CDD\|185177
NZ_CP009092.1\|WP_000036734.1\|2973257_2974556_-\|phosphopyruvate-hydratase	unknown	unknown	gnl\|CDD\|234617
NZ_CP009092.1\|WP_000108313.1\|2970107_2970470_+\|6-carboxytetrahydropterin-synthase-QueD	unknown	unknown	gnl\|CDD\|238264
NZ_CP009092.1\|WP_000210932.1\|2967884_2969684_-\|NADPH-dependent-assimilatory-sulfite-reductase-flavoprotein-subunit	unknown	unknown	gnl\|CDD\|182862
NZ_CP009092.1\|WP_000039870.1\|2965336_2966071_-\|phosphoadenosine-phosphosulfate-reductase	unknown	unknown	gnl\|CDD\|234997
NZ_CP009092.1\|WP_001079646.1\|2983071_2983608_+\|fimbrial-protein	unknown	unknown	gnl\|CDD\|185168
NZ_CP009092.1\|WP_000210451.1\|2976503_2977304_-\|nucleoside-triphosphate-pyrophosphohydrolase	unknown	unknown	gnl\|CDD\|236569
NZ_CP009092.1\|WP_000842512.1\|2977911_2978499_+\|fimbrial-protein	unknown	unknown	gnl\|CDD\|185169
NZ_CP009092.1\|WP_000206417.1\|2957997_2959056_-\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	cas7	pfam09344_cas7_CAS-I-E	gnl\|CDD\|273843
NZ_CP009092.1\|WP_000981797.1\|2978578_2981278_+\|fimbrial-biogenesis-outer-membrane-usher-protein	unknown	unknown	gnl\|CDD\|185176
NZ_CP009092.1\|WP_001199961.1\|2972450_2973122_-\|7-carboxy-7-deazaguanine-synthase-QueE	unknown	unknown	gnl\|CDD\|275126
NZ_CP009092.1\|WP_000368579.1\|2959620_2961177_-\|type-I-E-CRISPR-associated-protein-Cse1/CasA	cas8e	cd09669_cas8e_CAS-I-E	gnl\|CDD\|274192
NZ_CP009092.1\|WP_001207998.1\|2970557_2971355_-\|MBL-fold-metallo-hydrolase	unknown	unknown	gnl\|CDD\|224158
NZ_CP009092.1\|WP_001145541.1\|2964295_2965249_+\|SPI-1-type-III-secretion-system-effector-SopD	unknown	unknown	gnl\|CDD\|185277
NZ_CP009092.1\|WP_000117945.1\|2959069_2959624_-\|type-I-E-CRISPR-associated-protein-Cse2/CasB	cse2gr11	cd09731_cse2gr11_CAS-I-E	gnl\|CDD\|187862
NZ_CP009092.1\|WP_000178270.1\|2982083_2982590_+\|fimbrial-protein	unknown	unknown	gnl\|CDD\|185178
NZ_CP009092.1\|WP_000832393.1\|2982604_2983075_+\|fimbrial-protein	unknown	unknown	gnl\|CDD\|185179
NZ_CP009092.1\|WP_000029737.1\|2961188_2963852_-\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	COG1203_cas3_CAS-I	gnl\|CDD\|224124

Protein	Function_ID	Function_description	E-value
NZ_CP009092.1\|WP_000210863.1\|2974638_2976276_-\|CTP-synthase-(glutamine-hydrolyzing)	gnl\|CDD\|235437	PRK05380, pyrG, CTP synthetase; Validated.	0
NZ_CP009092.1\|WP_001290670.1\|2966172_2967885_-\|assimilatory-sulfite-reductase-(NADPH)-hemoprotein-subunit	gnl\|CDD\|237402	PRK13504, PRK13504, NADPH-dependent assimilatory sulfite reductase hemoprotein subunit.	0
NZ_CP009092.1\|WP_001044459.1\|2981290_2982064_+\|fimbria/pilus-periplasmic-chaperone	gnl\|CDD\|185177	PRK15274, PRK15274, putative periplasmic fimbrial chaperone protein SteC; Provisional.	0
NZ_CP009092.1\|WP_000036734.1\|2973257_2974556_-\|phosphopyruvate-hydratase	gnl\|CDD\|234617	PRK00077, eno, enolase; Provisional.	0
NZ_CP009092.1\|WP_000108313.1\|2970107_2970470_+\|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
NZ_CP009092.1\|WP_000210932.1\|2967884_2969684_-\|NADPH-dependent-assimilatory-sulfite-reductase-flavoprotein-subunit	gnl\|CDD\|182862	PRK10953, cysJ, NADPH-dependent assimilatory sulfite reductase flavoprotein subunit.	0
NZ_CP009092.1\|WP_000039870.1\|2965336_2966071_-\|phosphoadenosine-phosphosulfate-reductase	gnl\|CDD\|234997	PRK02090, PRK02090, phosphoadenylyl-sulfate reductase.	7.73232e-139
NZ_CP009092.1\|WP_001079646.1\|2983071_2983608_+\|fimbrial-protein	gnl\|CDD\|185168	PRK15260, PRK15260, fimbrial protein SteF; Provisional.	7.785e-121
NZ_CP009092.1\|WP_000210451.1\|2976503_2977304_-\|nucleoside-triphosphate-pyrophosphohydrolase	gnl\|CDD\|236569	PRK09562, mazG, nucleoside triphosphate pyrophosphohydrolase; Reviewed.	3.42454e-158
NZ_CP009092.1\|WP_000842512.1\|2977911_2978499_+\|fimbrial-protein	gnl\|CDD\|185169	PRK15261, PRK15261, fimbrial protein SteA; Provisional.	5.36845e-100
NZ_CP009092.1\|WP_000206417.1\|2957997_2959056_-\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	gnl\|CDD\|273843	TIGR01869, CRISPR_system_Cascade_subunit_CasC, CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI. 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 and is part of the Ecoli subtype of CRISPR/Cas locis. It is designated Cse4, for CRISPR/Cas Subtype Ecoli protein 4.	4.28543e-133
NZ_CP009092.1\|WP_000981797.1\|2978578_2981278_+\|fimbrial-biogenesis-outer-membrane-usher-protein	gnl\|CDD\|185176	PRK15273, PRK15273, fimbrial biogenesis outer membrane usher protein.	0
NZ_CP009092.1\|WP_001199961.1\|2972450_2973122_-\|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.	1.43874e-155
NZ_CP009092.1\|WP_000368579.1\|2959620_2961177_-\|type-I-E-CRISPR-associated-protein-Cse1/CasA	gnl\|CDD\|274192	TIGR02547, CRISPR_system_Cascade_subunit_CasA, CRISPR type I-E/ECOLI-associated protein CasA/Cse1. 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, represented by CT1972 from Chlorobium tepidum, is found in Ecoli subtype CRISPR/Cas regions of many bacteria, most of which are mesophiles, and not in Archaea. It is designated Cse1.	0
NZ_CP009092.1\|WP_001207998.1\|2970557_2971355_-\|MBL-fold-metallo-hydrolase	gnl\|CDD\|224158	COG1237, COG1237, Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only].	1.00381e-102
NZ_CP009092.1\|WP_001145541.1\|2964295_2965249_+\|SPI-1-type-III-secretion-system-effector-SopD	gnl\|CDD\|185277	PRK15379, PRK15379, type III secretion system effector SopD.	0
NZ_CP009092.1\|WP_000117945.1\|2959069_2959624_-\|type-I-E-CRISPR-associated-protein-Cse2/CasB	gnl\|CDD\|187862	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2. 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; Small alpha-helical protein; also known as Cse2/CasB/YgcK family; specific gene for I-E subtype;.	1.26497e-33
NZ_CP009092.1\|WP_000178270.1\|2982083_2982590_+\|fimbrial-protein	gnl\|CDD\|185178	PRK15275, PRK15275, putative fimbrial protein SteD; Provisional.	4.31975e-105
NZ_CP009092.1\|WP_000832393.1\|2982604_2983075_+\|fimbrial-protein	gnl\|CDD\|185179	PRK15276, PRK15276, putative fimbrial subunit SteE; Provisional.	2.10162e-98
NZ_CP009092.1\|WP_000029737.1\|2961188_2963852_-\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|224124	COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms].	0

>NZ_CP009092.1|WP_001207998.1|2970557_2971355_-|MBL-fold-metallo-hydrolase
MALRIRVLLENHKGAGADKSLKARPGLSLLVEDESTSILFDTGPDGSFMQNALAMGIDLSDVSAVVLSHGHYDHCGGVPWLPDNSRIICHPDIARERYAAMTFLGITRKIKKLSCEVDYSRYRMMYTRDPLPIGKNFIWSGEIPVVAPEAYGIFGGHDAEPDSILDEGVLIYQSTKGLVIITGCGHRGIANIVRHCQNITGIKRIYALVGGFHLRCASPFTLWRVRRFLQEQKPEKLCGCHCTGAWGRLWLPEITAPATGDVLRF
>NZ_CP009092.1|WP_000108313.1|2970107_2970470_+|6-carboxytetrahydropterin-synthase-QueD
MSTTLYKDFTFEAAHRLPHVPEGHKCGRLHGHSFMVRLEITGEVDPHTGWIMDFADLKAAFKPTYDRLDHYYLNDIPGLSNPTSEVLAKWIWDQVKPVVPLLSAVMVKETCTAGCVYRGE
>NZ_CP009092.1|WP_000210932.1|2967884_2969684_-|NADPH-dependent-assimilatory-sulfite-reductase-flavoprotein-subunit
MTTPAPLTGLLPLNPEQLARLQAATTDLTPEQLAWVSGYFWGVLNPRSGVVAVTPVPERKMPGVTLISASQTGNARRVAEALRDDLLAANLNVTLVNAGDYKFKQIASEKLLVIVTSTQGEGEPPEEAVALHKFLFSKKAPKLENTAFAVFSLGDTSYEFFCQSGKDFDSKLAELGGERLLDRVDADVEYQAAASEWRARVVDVLKSRAPVAAPSQSVATGAVNDIHTSPYTKDAPLIATLSVNQKITGRNSEKDVRHIEIDLGDSGLRYQPGDALGVWYQNDPALVKELVELLWLKGDEPVTVDGKTLPLAEALEWHFELTVNTANIVENYATLTRSESLLPLVGDKAQLQHYAATTPIVDMVRFSPAQLDAEALIGLLRPLTPRLYSIASAQAEVESEVHVTVGVVRYDIEGRARAGGASSFLADRVEEEGEVRVFIEHNDNFRLPANPQTPVIMIGPGTGIAPFRAFMQQRAADGAEGKNWLFFGNPHFTEDFLYQVEWQRYVKEGVLSRIDLAWSRDQKEKIYVQDKLREQGAELWCWINDGAHIYVCGDARRMAADVEKALLEVIAEFGGMDLESADEYLSELRVERRYQRDVY
>NZ_CP009092.1|WP_001290670.1|2966172_2967885_-|assimilatory-sulfite-reductase-(NADPH)-hemoprotein-subunit
MSEKHPGPLVVEGKLSDAERMKLESNYLRGTIAEDLNDGLTGGFKGDNFLLIRFHGMYQQDDRDIRAERAEQKLEPRHAMLLRCRLPGGVITTTQWQAIDKFAADNTIYGSIRLTNRQTFQFHGILKKNVKPVHQMLHSVGLDALATANDMNRNVLCTSNPYESQLHAEAYEWAKKISEHLLPRTRAYAEIWLDQEKVAITDEEPILGQTYLPRKFKTTVVIPPQNDIDLHANDMNFVAIAENGKLVGFNLLVGGGLSIEHGNKKTYARTASEFGYLPLEHTLAVAEAVVTTQRDWGNRTDRKNAKTKYTLERVGLETFKAEVERRAGIKFEPIRPYEFTGRGDRIGWVKGIDNNWHLTLFIENGRILDYPGRPLKTGLLEIAKIHQGEFRITANQNLIIASVPESQKAKIETLARDHGLMNAVSAQRENSMACVSFPTCPLAMAEAERFLPSFTDKVEAILEKHGIPDEHIVMRVTGCPNGCGRAMLAEIGLVGKAPGRYNLHLGGNRIGTRIPRMYQENITEPDILASLDELIGRWAKEREAGEGFGDFTVRAGIIRPVLDPARDFWE
>NZ_CP009092.1|WP_000039870.1|2965336_2966071_-|phosphoadenosine-phosphosulfate-reductase
MSKLDLNALNELPKVDRVLALAETNAQLETLTAEERVAWALENLPGEYVLSSSFGIQAAVSLHLVNQIRPDIPVILTDTGYLFPETYQFIDELTDKLKLNLKVYRAGESPAWQEARYGKLWEQGVEGIEKYNEINKVEPMNRALKELKAQTWFAGLRREQSGSRAHLPVLAIQRGVFKVLPIIDWDNRTVYQYLQKHGLKYHPLWDQGYLSVGDTHTTRKWEPGMAEEETRFFGLKRECGLHEG
>NZ_CP009092.1|WP_001145541.1|2964295_2965249_+|SPI-1-type-III-secretion-system-effector-SopD
MPVTLSFGNHQNYTLNESRLAHLLSADKEKAIHMGGWDKVQDHFRAEKKDHALEVLHSIIHGQGRGEPGEMEVNVEDINKIYAFKRLQHLACPAHQDLFTIKMDASQTQFLLMVGDTVISQSNIKDILNISDDAVIESMSREERQLFLQICEVIGAKMTWHPELLQESISTLRKEVTGNAQIKAAVYEMMRPAEAPDHPLVEWQDSLTEDEKSMLACINAGNFEPTTQFCKIGYQEVQGEVAFSMMHPCISYLLHTYSPFAEFKPTNSGFLKKLNQDYNDYHAKKMFIDVILEKLYLTHERSLHIGKDGCSRNILLT
>NZ_CP009092.1|WP_000029737.1|2961188_2963852_-|CRISPR-associated-helicase/endonuclease-Cas3
MSIYHYWGKSRRGETDGGDDYHLLCWHSLDVAAVGYWMVINNIYFIDHYLKKLGIQDKEQAAQFFAWILCWHDIGKFAHSFQQLYRHEALNIFNEPTRHYEKIAHTTLGYMLWNSWLSECPELFPPSSLSVRKSKRVMALWMPVTTGHHGRPPEAIQELDHFRQQDKDAARDFLLRIKALFPLITLPEAWDEDEGIDQFQQLSWFISAAVVLADWTGSASRYFPRTAEKMPVDTYWQQALAKAQTAITLFPSAANVSAFTGIETLFPFIQHPTPLQQKALELDINVDGAQLFILEDVTGAGKTEAALILAHRLMAAGKAQGLYFGLPTMATANAMFERMANTWLALYQPDSRPSLILAHSARRLMDRFNQSIWSVTLSGTEEPDEAQPYSQGCAAWFADSNKKALLAEVGVGTLDQAMMAVMPFKHNNLRLLGLSNKILLADEIHACDAWMSRILEGLIERQASNGNATILLSATLSQQQRDKLVAAFSRGVRRSVQAPLLGHDDYPWLTQVTQTELISQRVDTRKEVERCVDIGWLHSEEACLERIGEAVEKGNCIAWIRNSVDDAIRIYRQLQLSKVVATENLLLFHSRFAFHDRQRIESQTLNLFGKQSGAQRAGKVIIATQVIEQSLDIDCDEMISDLAPVDLLIQRAGRLQRHIRDRNGLVKKSGQDERETPVLRILAPEWDDAPRENWLSSAMRNSAYVYPDHGRMWLTQRILREQGTIRMPQSARLLIESVYGEDVNMPVGFAKTEQLQEGKFYCDRAFAGQMLLNFAPGYCAEISDSLPEKMSTRLAEESVTLWLAKIVDSVVTPYASGEHAWEMSVLRVRQSWWNKHKDEFEKLDGEPLRKWCAQQHQDKDFATVIVVTDFAACGYSANEGLIGMMGE
>NZ_CP009092.1|WP_000368579.1|2959620_2961177_-|type-I-E-CRISPR-associated-protein-Cse1/CasA
MDNFSLLTTPWLPVRFKDGSTGKLAPVDLADENVVDIAATRADLQGAAWQFLLGLLQCSIAPKRYKNWEDIWFDGLHADVLHKALAPLEHAFQFGAESPSFMQDFEPLSGEKVSIASLLPEIPGAQTTKFNKDHFVKRGVTERFCPHCAALALFSLQLNAPAGGKGYRTGLRGGGPLTTLVELQEYQGERQTPIWRKLWLNVMPQDTADLPLPDQCDATVFPWLAATRTSEQANAVTTPEQVNKLQAYWGMPRRIRLDFATLQSGCCDICGAESDELLGFMTVKNYGVNYDGWRHPLTPYRAPVKDQNAFFSVKPQPGGLIWRDWLGLSQNNQTEANYESPAQVVKVFNARSLTDVKAGIRGFGADFDNMKIRCWYEHHFPLLMTEGLIPDLRKAVQTAARLLSLLRSALKEAWFTNAKDARGDFSFIDIDFWNLTQGRFLNLIHDLENGHKPDERLNKWQRELWLFTRCYFDDHVFTNPYESSDLERIMKARKKYFTSSAEKQSAKAAKAKKQEAAE
>NZ_CP009092.1|WP_000117945.1|2959069_2959624_-|type-I-E-CRISPR-associated-protein-Cse2/CasB
MSVVTKDDKATLRQWHDELQEKRGLRASLRRSKTVNDACLAEGLHSLLMQTHSLWKNKAPWNVTALAITAALAAHIKFIDEQKSFAAQLGQKKGGDTPVMSKLRFSHLLAVKTPDELLRQLRRAVKLLDGSVNLFSLADDIFCWCQEQNDLLNHHRRQQRPTEFLRIRWALEYYQAGDTDNEQD
>NZ_CP009092.1|WP_000206417.1|2957997_2959056_-|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC
MTTFIQLHLLTAYPAANLNRDDTGAPKTVVLGGATRLRISSQSLKRAWRTSELFEQALAGHIGIRTGRIAREAAQILVDSGIDAKKAVEYVKNIANCFGKVKEDKKPKDELTNAETEQLVHISPAEFEAVKALARRLAEEKRPATEEEAELLRHDRMAVDIAMFGRMLAKKTDFNVEAACQVAHAFGVSETIIEDDFFTAVDDLRQASAEDAGAGHLGETGFGSALFYTYICIDKDLLVKNLNGNEELANKTLRAFTEAALKVSPTGKQNSFASRAYASWALAEKGTDQPRSLAAAFYEPINGTDQLNVAVKRITALHENMNEVYAQETAFKNFNVMNQQGSMKDVLDFICA
>NZ_CP009092.1|WP_001199961.1|2972450_2973122_-|7-carboxy-7-deazaguanine-synthase-QueE
MQYPINEMFQTLQGEGYFTGVPAIFIRLQGCPVGCAWCDTKHTWDKLSDREVSLFSILAKTKESDKWGAASSEDLLAVINRQGYTARHVVITGGEPCIHDLMPLTDLLEKSGFSCQIETSGTHEVRCTPNTWVTVSPKVNMRGGYDVLSQALERANEIKHPVGRVRDIEALDELLATLSDDKPRVIALQPISQKEDATRLCIETCIARNWRLSMQTHKYLNIA
>NZ_CP009092.1|WP_000036734.1|2973257_2974556_-|phosphopyruvate-hydratase
MSKIVKVIGREIIDSRGNPTVEAEVHLEGGFVGMAAAPSGASTGSREALELRDGDKSRFLGKGVTKAVGAVNGPIAQAILGKDAKDQAGIDKIMIDLDGTENKSNFGANAILAVSLANAKAAAAAKGMPLYEHIAELNGTPGKYSMPVPMMNIINGGEHADNNVDIQEFMIQPVGAKTVKEAIRMGSEVFHHLAKVLKGKGMNTAVGDEGGYAPNLGSNAEALAVIAEAVKAAGYELGKDITLAMDCAASEFYKDGKYVLAGEGNKAFTSEEFTHFLEELTKQYPIVSIEDGLDESDWDGFAYQTKVLGDKIQLVGDDLFVTNTKILKEGIEKGIANSILIKFNQIGSLTETLAAIKMAKDAGYTAVISHRSGETEDATIADLAVGTAAGQIKTGSMSRSDRVAKYNQLIRIEEALGEKAPYNGRKEIKGQA
>NZ_CP009092.1|WP_000210863.1|2974638_2976276_-|CTP-synthase-(glutamine-hydrolyzing)
MTTNYIFVTGGVVSSLGKGIAAASLAAILEARGLNVTIMKLDPYINVDPGTMSPIQHGEVFVTEDGAETDLDLGHYERFIRTKMSRRNNFTTGRIYSDVLRKERRGDYLGATVQVIPHITNAIKERVLEGGEGHDVVLVEIGGTVGDIESLPFLEAIRQLAVDIGREHALFMHLTLVPYLAAAGEVKTKPTQHSVKELLSIGIQPDILICRSDRAVPANERAKIALFCNVPEKAVISMKDVDSIYKIPGLLKSQGLDDYICKRFSLNCPEANLSEWEQVIYEEANPAGEVTIGMVGKYIELPDAYKSVIEALKHGGLKNRVTVNIKLIDSQDVETRGVEILKDLDAILIPGGFGYRGVEGKIATARYARENNIPYLGICLGMQVALIEFARNVAGMDNANSTEFVPDCKYPVVALITEWRDEDGNVEVRSEKSDLGGTMRLGAQQCQLSDDSLVRQLYGASTIVERHRHRYEVNNMLLKQIEAAGLRVAGRSGDDQLVEIIEVPNHPWFVACQFHPEFTSTPRDGHPLFAGFVKAANEHQKRQAK
>NZ_CP009092.1|WP_000210451.1|2976503_2977304_-|nucleoside-triphosphate-pyrophosphohydrolase
MTTNHQIDRLLTLMQRLRDPENGCPWDKEQTFASIAPYTLEETYEVLDAIAREDFDDLRGELGDLLFQVVFYAQMAQEEGRFDFNDICAAISDKLERRHPHVFGELSADNSEEALVRWEQIKTEERAQKAQHSALDDIPRSLPALMRAQKIQKRCSNVGFDWTTLGPVVDKVYEEIDEVMFEARQAVVDQAKLEEEMGDLLFATVNMARHLGTKAELALQKANDKFERRFREVERIVAARGLEMTGVDLETMEEVWQEVKRQEIDL
>NZ_CP009092.1|WP_000842512.1|2977911_2978499_+|fimbrial-protein
MKSSHFCKLAVTASLVMGIVSGAQAAGSNTAKVTFLGNIVDSPCSVTLDTEDQTVNMGSSIGNGTLSNGKTTINNARTFHIDLEGCTWATEKNMNVVFTTGSGTTAATGATDNLALMKTDGTGAISNVSLAIGDAGKNNIKLGDTYTQAIADLDGDTILDEKQSLNFTAWLVGAATGTVGTGEFSSAANVTISYL
>NZ_CP009092.1|WP_000981797.1|2978578_2981278_+|fimbrial-biogenesis-outer-membrane-usher-protein
MMNNTWKSVLCPIACGVGMLLSLSPYSASGKDIEFNTDFLDVKNRDNVNIAQFSRKGFILPGVYLLQIKINGQTLPQEFPVNWVIPEHDPQGSEVCAEPELVTQLGIKPELAEKLVWITHGERQCLAPDSLKGMDFQADLGHSTLLVNLPQAYMEYSDVDWDPPARWDNGIPGIILDYNINNQLRHDQESGSEEQSISGNGTLGANLGAWRLRADWQASYDHRDDDENTSTLHDQSWSRYYAYRALPTLGAKLTLGESYLQSDVFDSFNYIGASVVSDDQMLPPKLRGYAPEIVGIARSNAKVKVSWQGRVLYETQVPAGPFRIQDLNQSVSGTLHVTVEEQNGQTQEFDVNTASVPFLTRPGMVRYKMALGRPQDWDHHPITGTFASAEASWGVTNGWSLYGGAIGESNYQAVALGSGKDLGVVGAVAVDITHSIAHMPQDDGFDGETLQGNSYRISYSRDFDEIDSRLTFAGYRFSEKNFMSMSDYLDAKTYHHLNAGHEKERYTVTYNQNFREQGMSAYFSYSRSTFWDSPDQSNYNLSLSWYFDLGSIKNLSASLNGYRSEYNGDKDDGVYISLSVPWGNDSISYNGTFNGSQHRNQLGYSGHSQNGDNWQLHVGQDEQGAQADGYYSHQGALTDIDLSADYEEGSYRSLGMSLRGGMTLTTQGGALHRGSLAGSTRLLVDTDGIADVPVSGNGSPTSTNIFGKAVIADVGSYSRSLARIDLNKLPEKAEATKSVVQITLTEGAIGYRHFDVVSGEKMMAVFRLADGDFPPFGAEVKNERQQQLGLVADDGNAWLAGVKAGETLKVFWDGAAQCEASLPSTFTPELLANALLLPCKMLEGQPPTAPQKSSPLPAQPLIQEHTQTDGQPAAPVATTTQTPPIPLADNHAVNRKDME
>NZ_CP009092.1|WP_001044459.1|2981290_2982064_+|fimbria/pilus-periplasmic-chaperone
MNKTNHFKRQALIASVLLAAPLVSHSAIVPDRTRVIFNGNENSITVTLKNGNATLPYLAQAWLEDDKFAKDTRYFTALPPLQRIEPKSDGQVKVQPLPAAASLPQDRESLFYFNVREIPPKSDKPNTLQLALQTRIKFFYRPVAVARQVDKTHPWQTKLTLTYQGDGVIFDNPTPFYLVISNAGSKENETASGFKNLLIAPREKVTSPIKGASLGSSPVVGYVDDYGGHRLLVFTCSGNTCKVNEEKTRDAEKKANK
>NZ_CP009092.1|WP_000178270.1|2982083_2982590_+|fimbrial-protein
MTMLTRWKMLVLLCGGFVTGTEAAGTKTVQLELHLVVTQPPPCTVGGASVEFGDVLTTKVGDASQTKPVGYSLNCDGRASDYLKLQIQGTTTTISGEQVLQTSVQGLGIRIQQAGNKQLVPVGITDWLNFTLSGSNGPELEAVPVKEPTTQLAGGDFNASATLVVDYQ
>NZ_CP009092.1|WP_000832393.1|2982604_2983075_+|fimbrial-protein
MKRVLILTLLITQFACADNLTFHGKLINPPACTINNGEMLEVSFGSVIIDNIDGVNYLTEIPWTLTCDSSFRDDALTFTLSYLGTATPYSAKALTTSVPELGIELQQNGTVFPPGTSLTINESSLPTLKAVPVKQPGKEPAEGDFEAFATLQVDYQ
>NZ_CP009092.1|WP_001079646.1|2983071_2983608_+|fimbrial-protein
MNRIFQTAGHLIGGVMLWAVCNTLPAATPNVHYSGKLVAGACNLVVDNDTMATVDFHTIGSDNFDASGQTTPVPFTLSLQDCKTALANGVLVTFQGVEDSTLPGLLALEPSSEASGFAIGVETAAQQPVSINATVGTAFVLKEGITTINLQARLQKYAGEEVMPGEFSGSATVSFEYQ

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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
NZ_CP009092_2	2.5\|2971727\|33\|NZ_CP009092\|CRISPRCasFinder,CRT	2971727-2971759	33	NZ_CP032236	Yersinia ruckeri strain NHV_3758 plasmid pYR4, complete sequence	63403-63435	4	0.879
NZ_CP009092_2	2.5\|2971727\|33\|NZ_CP009092\|CRISPRCasFinder,CRT	2971727-2971759	33	NZ_LN681230	Yersinia ruckeri strain CSF007-82 plasmid pYR3, complete sequence	91355-91387	4	0.879
NZ_CP009092_2	2.15\|2971727\|35\|NZ_CP009092\|PILER-CR	2971727-2971761	35	NZ_CP032236	Yersinia ruckeri strain NHV_3758 plasmid pYR4, complete sequence	63403-63437	5	0.857
NZ_CP009092_2	2.15\|2971727\|35\|NZ_CP009092\|PILER-CR	2971727-2971761	35	NZ_LN681230	Yersinia ruckeri strain CSF007-82 plasmid pYR3, complete sequence	91353-91387	5	0.857
NZ_CP009092_2	2.16\|2971789\|34\|NZ_CP009092\|PILER-CR	2971789-2971822	34	NZ_CP044178	Salmonella enterica subsp. enterica serovar Concord strain AR-0407 plasmid pAR-0407-1	18967-19000	5	0.853
NZ_CP009092_2	2.16\|2971789\|34\|NZ_CP009092\|PILER-CR	2971789-2971822	34	CP053324	Salmonella enterica subsp. salamae serovar 40:c:e,n,z15 strain 2013K-0524 plasmid unnamed, complete sequence	25136-25169	5	0.853
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_CP044178	Salmonella enterica subsp. enterica serovar Concord strain AR-0407 plasmid pAR-0407-1	18969-19000	6	0.812
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	CP053324	Salmonella enterica subsp. salamae serovar 40:c:e,n,z15 strain 2013K-0524 plasmid unnamed, complete sequence	25138-25169	6	0.812
NZ_CP009092_2	2.16\|2971789\|34\|NZ_CP009092\|PILER-CR	2971789-2971822	34	NZ_LN890526	Salmonella enterica subsp. enterica serovar Weltevreden strain 2511STDY5712385 plasmid 3, complete sequence	31716-31749	6	0.824
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_LN890526	Salmonella enterica subsp. enterica serovar Weltevreden strain 2511STDY5712385 plasmid 3, complete sequence	31718-31749	7	0.781
NZ_CP009092_2	2.3\|2971605\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971605-2971636	32	MN694003	Marine virus AFVG_250M677, complete genome	17629-17660	8	0.75
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_CP053022	Sphingobium yanoikuyae strain YC-XJ2 plasmid p-A-Sy, complete sequence	329022-329053	8	0.75
NZ_CP009092_2	2.8\|2971911\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971911-2971942	32	MG592432	Vibrio phage 1.050.O._10N.286.48.A6, partial genome	21687-21718	8	0.75
NZ_CP009092_2	2.8\|2971911\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971911-2971942	32	MG592431	Vibrio phage 1.049.O._10N.286.54.B5, partial genome	21426-21457	8	0.75
NZ_CP009092_2	2.13\|2971605\|34\|NZ_CP009092\|PILER-CR	2971605-2971638	34	MN694003	Marine virus AFVG_250M677, complete genome	17627-17660	8	0.765
NZ_CP009092_1	1.1\|2954754\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2954754-2954785	32	NZ_MG266000	Clostridioides difficile strain 7032985 plasmid pCD-ISS1, complete sequence	5501-5532	9	0.719
NZ_CP009092_1	1.3\|2954876\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2954876-2954907	32	MK449011	Streptococcus phage Javan92, complete genome	36157-36188	9	0.719
NZ_CP009092_1	1.3\|2954876\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2954876-2954907	32	MK448835	Streptococcus phage Javan93, complete genome	36157-36188	9	0.719
NZ_CP009092_1	1.3\|2954876\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2954876-2954907	32	MK448836	Streptococcus phage Javan95, complete genome	37400-37431	9	0.719
NZ_CP009092_1	1.3\|2954876\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2954876-2954907	32	MK448825	Streptococcus phage Javan639, complete genome	37400-37431	9	0.719
NZ_CP009092_1	1.7\|2955120\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2955120-2955151	32	KY006853	Erythrobacter phage vB_EliS_R6L, complete genome	41418-41449	9	0.719
NZ_CP009092_2	2.5\|2971727\|33\|NZ_CP009092\|CRISPRCasFinder,CRT	2971727-2971759	33	NZ_CP031947	Ruegeria sp. AD91A plasmid unnamed1, complete sequence	143751-143783	9	0.727
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_CP048340	Escherichia coli strain 142 plasmid p142_C, complete sequence	2410-2441	9	0.719
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_LR130559	Escherichia coli strain MS14385 isolate MS14385 plasmid 5	41882-41913	9	0.719
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_CP020518	Escherichia coli strain 222 plasmid unnamed2, complete sequence	13450-13481	9	0.719
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_CP020497	Escherichia coli strain 103 plasmid unnamed2, complete sequence	37140-37171	9	0.719
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_CP040921	Escherichia coli strain FC853_EC plasmid p853EC2, complete sequence	32060-32091	9	0.719
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	CP053252	Escherichia coli strain SCU-204 plasmid pSCU-204-5, complete sequence	19381-19412	9	0.719
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_CP042622	Escherichia coli strain NCYU-26-73 plasmid pNCYU-26-73-7, complete sequence	2614-2645	9	0.719
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_LT985302	Escherichia coli strain ECOR 39 genome assembly, plasmid: RCS82_pI	11943-11974	9	0.719
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_CP028194	Escherichia coli strain CFSAN018748 plasmid pGMI14-004_3, complete sequence	15383-15414	9	0.719
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_CP024865	Escherichia coli strain AR_0015 plasmid unitig_3_pilon, complete sequence	22646-22677	9	0.719
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	AP019710	Escherichia coli O145:H28 122715 plasmid pO145_122715_2 DNA, complete genome	4361-4392	9	0.719
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_CP024829	Escherichia coli strain CREC-544 plasmid pCREC-544_3, complete sequence	2221-2252	9	0.719
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_CP009861	Escherichia coli strain ECONIH1 plasmid pECO-b75, complete sequence	2868-2899	9	0.719
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	CP025877	Escherichia coli strain 503458 plasmid p503458_49, complete sequence	18343-18374	9	0.719
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_CP023368	Escherichia coli strain 1428 plasmid p48, complete sequence	4914-4945	9	0.719
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_CP032259	Escherichia coli strain AR_0067 plasmid unnamed2, complete sequence	23402-23433	9	0.719
NZ_CP009092_2	2.6\|2971789\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971789-2971820	32	NZ_CP037450	Escherichia coli strain ATCC 25922 plasmid unnamed, complete sequence	15851-15882	9	0.719
NZ_CP009092_2	2.8\|2971911\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971911-2971942	32	NC_047790	Pseudoalteromonas phage C5a, complete genome	34441-34472	9	0.719
NZ_CP009092_2	2.11\|2972094\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2972094-2972125	32	CP006879	Rhizobium gallicum bv. gallicum R602 plasmid pRgalR602b, complete sequence	405613-405644	9	0.719
NZ_CP009092_1	1.16\|2955121\|33\|NZ_CP009092\|PILER-CR	2955121-2955153	33	KY006853	Erythrobacter phage vB_EliS_R6L, complete genome	41417-41449	10	0.697
NZ_CP009092_2	2.4\|2971666\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2971666-2971697	32	NZ_LR134399	Listeria monocytogenes strain NCTC7974 plasmid 2, complete sequence	103231-103262	10	0.688
NZ_CP009092_2	2.11\|2972094\|32\|NZ_CP009092\|CRISPRCasFinder,CRT	2972094-2972125	32	NZ_CP049244	Rhizobium pseudoryzae strain DSM 19479 plasmid unnamed3, complete sequence	699963-699994	10	0.688
NZ_CP009092_2	2.15\|2971727\|35\|NZ_CP009092\|PILER-CR	2971727-2971761	35	NZ_CP031947	Ruegeria sp. AD91A plasmid unnamed1, complete sequence	143751-143785	11	0.686

1. spacer 2.5|2971727|33|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP032236 (Yersinia ruckeri strain NHV_3758 plasmid pYR4, complete sequence) position: , mismatch: 4, identity: 0.879

tcaggaacgcgcggcggaagagcttggtgtttg	CRISPR spacer
tcaggaacgcgcagcggaagagcttggtaaatg	Protospacer
************.***************.  **

2. spacer 2.5|2971727|33|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_LN681230 (Yersinia ruckeri strain CSF007-82 plasmid pYR3, complete sequence) position: , mismatch: 4, identity: 0.879

tcaggaacgcgcggcggaagagcttggtgtttg	CRISPR spacer
tcaggaacgcgcagcggaagagcttggtaaatg	Protospacer
************.***************.  **

3. spacer 2.15|2971727|35|NZ_CP009092|PILER-CR matches to NZ_CP032236 (Yersinia ruckeri strain NHV_3758 plasmid pYR4, complete sequence) position: , mismatch: 5, identity: 0.857

tcaggaacgcgcggcggaagagcttggtgtttgcg	CRISPR spacer
tcaggaacgcgcagcggaagagcttggtaaatgcc	Protospacer
************.***************.  ***

4. spacer 2.15|2971727|35|NZ_CP009092|PILER-CR matches to NZ_LN681230 (Yersinia ruckeri strain CSF007-82 plasmid pYR3, complete sequence) position: , mismatch: 5, identity: 0.857

tcaggaacgcgcggcggaagagcttggtgtttgcg	CRISPR spacer
tcaggaacgcgcagcggaagagcttggtaaatgcc	Protospacer
************.***************.  ***

5. spacer 2.16|2971789|34|NZ_CP009092|PILER-CR matches to NZ_CP044178 (Salmonella enterica subsp. enterica serovar Concord strain AR-0407 plasmid pAR-0407-1) position: , mismatch: 5, identity: 0.853

gctgcctttcccggagttccggcccct----aaattgg	CRISPR spacer
ggtgcctttcccggagttccggccccttctcaaa----	Protospacer
* *************************    ***

6. spacer 2.16|2971789|34|NZ_CP009092|PILER-CR matches to CP053324 (Salmonella enterica subsp. salamae serovar 40:c:e,n,z15 strain 2013K-0524 plasmid unnamed, complete sequence) position: , mismatch: 5, identity: 0.853

gctgcctttcccggagttccggcccct----aaattgg	CRISPR spacer
ggtgcctttcccggagttccggccccttctcaaa----	Protospacer
* *************************    ***

7. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP044178 (Salmonella enterica subsp. enterica serovar Concord strain AR-0407 plasmid pAR-0407-1) position: , mismatch: 6, identity: 0.812

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
ggtgcctttcccggagttccggccccttctca	Protospacer
* *************************   .

8. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to CP053324 (Salmonella enterica subsp. salamae serovar 40:c:e,n,z15 strain 2013K-0524 plasmid unnamed, complete sequence) position: , mismatch: 6, identity: 0.812

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
ggtgcctttcccggagttccggccccttctca	Protospacer
* *************************   .

9. spacer 2.16|2971789|34|NZ_CP009092|PILER-CR matches to NZ_LN890526 (Salmonella enterica subsp. enterica serovar Weltevreden strain 2511STDY5712385 plasmid 3, complete sequence) position: , mismatch: 6, identity: 0.824

gctgcctttcccggagttccggcccct----aaattgg	CRISPR spacer
ggtgccttttccggagttccggccccttctcaaa----	Protospacer
* *******.*****************    ***

10. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_LN890526 (Salmonella enterica subsp. enterica serovar Weltevreden strain 2511STDY5712385 plasmid 3, complete sequence) position: , mismatch: 7, identity: 0.781

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
ggtgccttttccggagttccggccccttctca	Protospacer
* *******.*****************   .

11. spacer 2.3|2971605|32|NZ_CP009092|CRISPRCasFinder,CRT matches to MN694003 (Marine virus AFVG_250M677, complete genome) position: , mismatch: 8, identity: 0.75

cgattctacggcaacaggccaggctgcgaccg	CRISPR spacer
ggcgagcacggcaacagcccaggctgcgatcg	Protospacer
 *    .********** ***********.**

12. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP053022 (Sphingobium yanoikuyae strain YC-XJ2 plasmid p-A-Sy, complete sequence) position: , mismatch: 8, identity: 0.75

gctgcctttcccggagttccggcccctaaatt---	CRISPR spacer
tatgcctttcccggctttccggccc---aactgac	Protospacer
  ************  *********   **.*

13. spacer 2.8|2971911|32|NZ_CP009092|CRISPRCasFinder,CRT matches to MG592432 (Vibrio phage 1.050.O._10N.286.48.A6, partial genome) position: , mismatch: 8, identity: 0.75

tgattattgacgacaacagcacagaccggcag	CRISPR spacer
ttataattgactacaacagcacagagcagatt	Protospacer
* ** ****** ************* *.*

14. spacer 2.8|2971911|32|NZ_CP009092|CRISPRCasFinder,CRT matches to MG592431 (Vibrio phage 1.049.O._10N.286.54.B5, partial genome) position: , mismatch: 8, identity: 0.75

tgattattgacgacaacagcacagaccggcag	CRISPR spacer
ttataattgactacaacagcacagagcagatt	Protospacer
* ** ****** ************* *.*

15. spacer 2.13|2971605|34|NZ_CP009092|PILER-CR matches to MN694003 (Marine virus AFVG_250M677, complete genome) position: , mismatch: 8, identity: 0.765

cgattctacggcaacaggccaggctgcgaccgcg	CRISPR spacer
ggcgagcacggcaacagcccaggctgcgatcgcg	Protospacer
 *    .********** ***********.****

16. spacer 1.1|2954754|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_MG266000 (Clostridioides difficile strain 7032985 plasmid pCD-ISS1, complete sequence) position: , mismatch: 9, identity: 0.719

tatttataagcgtgtcatctatgcaacccaac	CRISPR spacer
aatttataatcatgtcatctatgccataattc	Protospacer
 ******** *.************ *.    *

17. spacer 1.3|2954876|32|NZ_CP009092|CRISPRCasFinder,CRT matches to MK449011 (Streptococcus phage Javan92, complete genome) position: , mismatch: 9, identity: 0.719

ggccgctggtcaaattcccaatctgagcaatc	CRISPR spacer
tacatcttgacaaattcccaatctgagcgact	Protospacer
 .*  ** * ******************.*..

18. spacer 1.3|2954876|32|NZ_CP009092|CRISPRCasFinder,CRT matches to MK448835 (Streptococcus phage Javan93, complete genome) position: , mismatch: 9, identity: 0.719

ggccgctggtcaaattcccaatctgagcaatc	CRISPR spacer
tacatcttgacaaattcccaatctgagcgact	Protospacer
 .*  ** * ******************.*..

19. spacer 1.3|2954876|32|NZ_CP009092|CRISPRCasFinder,CRT matches to MK448836 (Streptococcus phage Javan95, complete genome) position: , mismatch: 9, identity: 0.719

ggccgctggtcaaattcccaatctgagcaatc	CRISPR spacer
tacatcttgacaaattcccaatctgagcgact	Protospacer
 .*  ** * ******************.*..

20. spacer 1.3|2954876|32|NZ_CP009092|CRISPRCasFinder,CRT matches to MK448825 (Streptococcus phage Javan639, complete genome) position: , mismatch: 9, identity: 0.719

ggccgctggtcaaattcccaatctgagcaatc	CRISPR spacer
tacatcttgacaaattcccaatctgagcgact	Protospacer
 .*  ** * ******************.*..

21. spacer 1.7|2955120|32|NZ_CP009092|CRISPRCasFinder,CRT matches to KY006853 (Erythrobacter phage vB_EliS_R6L, complete genome) position: , mismatch: 9, identity: 0.719

gagaatgctcatgcgcgtgagcgccatatatt	CRISPR spacer
cgaaatgatcatgcgcgtcagcgccattgcgt	Protospacer
 ..**** ********** ********    *

22. spacer 2.5|2971727|33|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP031947 (Ruegeria sp. AD91A plasmid unnamed1, complete sequence) position: , mismatch: 9, identity: 0.727

tcaggaacgcgcggcggaagagcttggtgtttg	CRISPR spacer
ctttgcccgtgcggcggaagaccttggtgtttc	Protospacer
..  *  **.*********** **********

23. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP048340 (Escherichia coli strain 142 plasmid p142_C, complete sequence) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

24. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_LR130559 (Escherichia coli strain MS14385 isolate MS14385 plasmid 5) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

25. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP020518 (Escherichia coli strain 222 plasmid unnamed2, complete sequence) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

26. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP020497 (Escherichia coli strain 103 plasmid unnamed2, complete sequence) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

27. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP040921 (Escherichia coli strain FC853_EC plasmid p853EC2, complete sequence) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

28. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to CP053252 (Escherichia coli strain SCU-204 plasmid pSCU-204-5, complete sequence) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

29. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP042622 (Escherichia coli strain NCYU-26-73 plasmid pNCYU-26-73-7, complete sequence) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

30. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_LT985302 (Escherichia coli strain ECOR 39 genome assembly, plasmid: RCS82_pI) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

31. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP028194 (Escherichia coli strain CFSAN018748 plasmid pGMI14-004_3, complete sequence) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

32. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP024865 (Escherichia coli strain AR_0015 plasmid unitig_3_pilon, complete sequence) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

33. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to AP019710 (Escherichia coli O145:H28 122715 plasmid pO145_122715_2 DNA, complete genome) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

34. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP024829 (Escherichia coli strain CREC-544 plasmid pCREC-544_3, complete sequence) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

35. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP009861 (Escherichia coli strain ECONIH1 plasmid pECO-b75, complete sequence) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

36. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to CP025877 (Escherichia coli strain 503458 plasmid p503458_49, complete sequence) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

37. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP023368 (Escherichia coli strain 1428 plasmid p48, complete sequence) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

38. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP032259 (Escherichia coli strain AR_0067 plasmid unnamed2, complete sequence) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

39. spacer 2.6|2971789|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP037450 (Escherichia coli strain ATCC 25922 plasmid unnamed, complete sequence) position: , mismatch: 9, identity: 0.719

gctgcctttcccggagttccggcccctaaatt	CRISPR spacer
gtgccctttaccggagttccggccccttctca	Protospacer
*.  ***** *****************   .

40. spacer 2.8|2971911|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NC_047790 (Pseudoalteromonas phage C5a, complete genome) position: , mismatch: 9, identity: 0.719

tgattattgacgacaacagcacagaccggcag	CRISPR spacer
agcttattgacgaaaacggcacagacaccaaa	Protospacer
 * ********** ***.********    *.

41. spacer 2.11|2972094|32|NZ_CP009092|CRISPRCasFinder,CRT matches to CP006879 (Rhizobium gallicum bv. gallicum R602 plasmid pRgalR602b, complete sequence) position: , mismatch: 9, identity: 0.719

gaatctggaggccaacagcgcggcgaaatcct	CRISPR spacer
gaatctggagggcgacagcgcggtcgaccctg	Protospacer
*********** *.*********. .* .*.

42. spacer 1.16|2955121|33|NZ_CP009092|PILER-CR matches to KY006853 (Erythrobacter phage vB_EliS_R6L, complete genome) position: , mismatch: 10, identity: 0.697

gagaatgctcatgcgcgtgagcgccatatattc	CRISPR spacer
cgaaatgatcatgcgcgtcagcgccattgcgtt	Protospacer
 ..**** ********** ********    *.

43. spacer 2.4|2971666|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_LR134399 (Listeria monocytogenes strain NCTC7974 plasmid 2, complete sequence) position: , mismatch: 10, identity: 0.688

atcaaacatggaaacccctttaatgagagcaa	CRISPR spacer
ctaaaacatggaaaccactgtaatgacgaatc	Protospacer
 * ************* ** ****** ..

44. spacer 2.11|2972094|32|NZ_CP009092|CRISPRCasFinder,CRT matches to NZ_CP049244 (Rhizobium pseudoryzae strain DSM 19479 plasmid unnamed3, complete sequence) position: , mismatch: 10, identity: 0.688

gaatctggaggccaacagcgcggcgaaatcct	CRISPR spacer
gtggtcataggccatcagcgcggcgatatccc	Protospacer
* . ... ****** *********** ****.

45. spacer 2.15|2971727|35|NZ_CP009092|PILER-CR matches to NZ_CP031947 (Ruegeria sp. AD91A plasmid unnamed1, complete sequence) position: , mismatch: 11, identity: 0.686

tcaggaacgcgcggcggaagagcttggtgtttgcg	CRISPR spacer
ctttgcccgtgcggcggaagaccttggtgtttctc	Protospacer
..  *  **.*********** ********** .

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

934768 : 942081

Dickeya_phage(16.67%)

integrase,protease

attL 923506:923520|attR 942299:942313

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
923506:923520	attL	NA	NA	NA	NA
WP_001201751.1\|934768_935887_+	macrolide transporter subunit MacA	A0A140XAI1	Dickeya_phage	1.4e-08	38.9
WP_000125875.1\|935883_937830_+	macrolide ABC transporter ATP-binding protein/permease MacB	G9BWD6	Planktothrix_phage	2.0e-39	43.1
WP_000447499.1\|937959_938181_-	cold shock-like protein CspD	A0A2H4N7Y6	Lake_Baikal_phage	9.3e-18	64.2
WP_000520789.1\|938504_938825_+\|protease	ATP-dependent Clp protease adapter ClpS	A0A1B1IT64	uncultured_Mediterranean_phage	4.5e-13	45.7
WP_000934064.1\|938855_941132_+\|protease	ATP-dependent Clp protease ATP-binding subunit ClpA	A0A223W0B1	Agrobacterium_phage	6.2e-165	42.3
WP_001117984.1\|941344_941542_-	hypothetical protein	NA	NA	NA	NA
WP_001539594.1\|941703_942081_-\|integrase	integrase	A0A077KET4	Ralstonia_phage	1.2e-20	41.0
942299:942313	attR	NA	NA	NA	NA

DBSCAN-SWA_2

992540 : 1054058

Salmonella_phage(23.53%)

tail,tRNA,protease

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001154025.1\|992540_993344_+\|tRNA	tRNA uridine 5-oxyacetic acid(34) methyltransferase CmoM	NA	NA	NA	NA
WP_001288828.1\|993336_994659_+	chromosome partition protein MukF	NA	NA	NA	NA
WP_000060025.1\|994639_995344_+	chromosome partition protein MukE	NA	NA	NA	NA
WP_000572746.1\|995343_999810_+	chromosome partition protein MukB	NA	NA	NA	NA
WP_000925870.1\|1000154_1002005_+	L,D-transpeptidase	NA	NA	NA	NA
WP_000357052.1\|1002264_1002813_+	YcbK family protein	A0A0K1LKR7	Rhodobacter_phage	1.2e-05	33.7
WP_001109471.1\|1002840_1003488_+	MBL fold metallo-hydrolase	NA	NA	NA	NA
WP_000462653.1\|1003549_1004740_-	aspartate transaminase	NA	NA	NA	NA
WP_000977709.1\|1004924_1006016_-	porin OmpF	Q1MVN1	Enterobacteria_phage	1.7e-99	51.7
WP_000117867.1\|1006609_1008010_-\|tRNA	asparagine--tRNA ligase	A0A2K9V902	Bandra_megavirus	4.5e-81	35.8
WP_000762342.1\|1008210_1008672_-	Lrp/AsnC family transcriptional regulator	NA	NA	NA	NA
WP_000544855.1\|1008989_1010204_+	diaminopropionate ammonia-lyase	NA	NA	NA	NA
WP_000893200.1\|1010449_1011886_+	sodium:alanine symporter family protein	NA	NA	NA	NA
WP_000191404.1\|1011963_1013166_-	nicotinate phosphoribosyltransferase	NA	NA	NA	NA
WP_001676370.1\|1013360_1013771_-	enterohemolysin	H6WRX0	Salmonella_phage	5.0e-33	100.0
WP_000274547.1\|1013791_1014421_+	hypothetical protein	A0A0U2RJZ0	Escherichia_phage	1.6e-75	65.9
WP_000729406.1\|1014404_1015031_+	hypothetical protein	A0A0U2RK03	Escherichia_phage	3.3e-92	71.6
WP_000583382.1\|1015027_1016737_+\|tail	tail fiber protein	A0A0U2SAV1	Escherichia_phage	1.5e-91	66.0
WP_000143167.1\|1016736_1017318_+\|tail	tail fiber assembly protein	A0A0M4RTP2	Salmonella_phage	1.7e-95	89.5
WP_072100753.1\|1017321_1017570_-\|tail	phage tail protein	A0A1B0VCD0	Salmonella_phage	2.1e-18	66.2
WP_001674638.1\|1017795_1018764_+	SPI-2 type III secretion system effector SseI	Q9MBL9	Phage_Gifsy-2	3.0e-193	99.4
WP_000334547.1\|1019411_1020038_-	SOS response-associated peptidase	A0A2H4J5W2	uncultured_Caudovirales_phage	1.4e-66	63.2
WP_001525490.1\|1020397_1021084_-	hypothetical protein	NA	NA	NA	NA
WP_000497441.1\|1021354_1021546_-	DinI-like family protein	S4TNM0	Salmonella_phage	6.2e-26	95.2
WP_000193790.1\|1021972_1024585_+	aminopeptidase N	A0A0P0IY26	Acinetobacter_phage	6.3e-20	22.8
WP_000291723.1\|1024792_1025803_+	quinone-dependent dihydroorotate dehydrogenase	NA	NA	NA	NA
WP_001574119.1\|1025968_1026511_+	cell division protein ZapC	NA	NA	NA	NA
WP_000224079.1\|1026507_1027617_-	MOSC domain-containing protein	NA	NA	NA	NA
WP_001086485.1\|1027715_1029824_+	bifunctional 23S rRNA (guanine(2069)-N(7))-methyltransferase RlmK/23S rRNA (guanine(2445)-N(2))-methyltransferase RlmL	NA	NA	NA	NA
WP_000053044.1\|1029836_1031744_+	ABC transporter ATP-binding protein	A0A2K9L3Z8	Tupanvirus	2.4e-53	29.8
WP_000333139.1\|1031758_1033012_+	membrane integrity-associated transporter subunit PqiA	NA	NA	NA	NA
WP_000433414.1\|1033016_1034657_+	intermembrane transport protein PqiB	NA	NA	NA	NA
WP_000759136.1\|1034653_1035217_+	membrane integrity-associated transporter subunit PqiC	NA	NA	NA	NA
WP_001537784.1\|1035472_1035640_+	ribosome modulation factor	NA	NA	NA	NA
WP_000227928.1\|1035739_1036258_-	bifunctional 3-hydroxydecanoyl-ACP dehydratase/trans-2-decenoyl-ACP isomerase	NA	NA	NA	NA
WP_000156448.1\|1036326_1038087_-\|protease	Lon protease family protein	NA	NA	NA	NA
WP_000877172.1\|1038272_1038725_+	macrodomain Ter protein MatP	NA	NA	NA	NA
WP_001674965.1\|1038796_1039849_-	porin OmpA	NA	NA	NA	NA
WP_000288733.1\|1040205_1040715_-	cell division inhibitor SulA	NA	NA	NA	NA
WP_001202375.1\|1040931_1041537_+	TfoX/Sxy family DNA transformation protein	NA	NA	NA	NA
WP_000950876.1\|1041523_1043677_-	TIGR01666 family membrane protein	NA	NA	NA	NA
WP_001261222.1\|1043695_1044142_-	YccF domain-containing protein	NA	NA	NA	NA
WP_000420505.1\|1044265_1046320_+	DNA helicase IV	A7KV33	Bacillus_phage	8.5e-20	27.6
WP_000424187.1\|1046355_1046814_-	methylglyoxal synthase	NA	NA	NA	NA
WP_000847719.1\|1046908_1047571_-	DUF2057 family protein	NA	NA	NA	NA
WP_001676378.1\|1047744_1048158_+	CoA-binding protein	NA	NA	NA	NA
WP_000561983.1\|1048202_1048520_-	heat shock protein HspQ	NA	NA	NA	NA
WP_000140478.1\|1048577_1049789_-	23S rRNA (cytosine(1962)-C(5))-methyltransferase RlmI	NA	NA	NA	NA
WP_000859416.1\|1050003_1050552_+	YbhB/YbcL family Raf kinase inhibitor-like protein	NA	NA	NA	NA
WP_000548080.1\|1050577_1051357_+	AraC family transcriptional regulator	NA	NA	NA	NA
WP_000072884.1\|1051405_1051687_+	acylphosphatase	NA	NA	NA	NA
WP_000904449.1\|1051683_1052013_-	sulfurtransferase TusE	NA	NA	NA	NA
WP_000374046.1\|1052099_1052759_-\|protease	FtsH protease modulator YccA	A0A2H4JFM9	uncultured_Caudovirales_phage	2.7e-44	52.4
WP_000938186.1\|1053377_1054058_-\|protease	type III secretion system effector protease PipA	Q9MBM0	Phage_Gifsy-2	2.2e-81	71.0

DBSCAN-SWA_3

1226439 : 1275688

Salmonella_phage(27.27%)

tail,protease,holin,integrase

attL 1236842:1236859|attR 1248986:1249003

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000087636.1\|1226439_1227519_-\|integrase	tyrosine-type recombinase/integrase	A0A2H4IYC8	uncultured_Caudovirales_phage	3.0e-101	52.5
WP_001575998.1\|1227493_1227772_-	excisionase	A0A2H4J5E1	uncultured_Caudovirales_phage	1.4e-10	37.5
WP_001237395.1\|1228185_1230165_+	MBL fold metallo-hydrolase	A0A2P0VMX1	Tetraselmis_virus	1.9e-162	46.3
WP_000972675.1\|1230796_1231102_+	hypothetical protein	NA	NA	NA	NA
WP_000940753.1\|1231165_1231765_+	DUF1367 family protein	A0A0U2RT94	Escherichia_phage	4.7e-96	82.9
WP_000784710.1\|1231761_1231989_+	DNA breaking-rejoining protein	A0A0M4RU10	Salmonella_phage	2.2e-14	66.7
WP_001097218.1\|1232118_1232808_+	antitermination protein	I6PDF8	Cronobacter_phage	2.1e-60	54.9
WP_001574213.1\|1232904_1233429_+	hypothetical protein	NA	NA	NA	NA
WP_000798708.1\|1233802_1234252_-	hypothetical protein	NA	NA	NA	NA
WP_001574215.1\|1234612_1235299_-	PipA/GogA/GtgA family type III secretion system effector	Q9MBM0	Phage_Gifsy-2	1.8e-131	99.6
WP_001574216.1\|1235574_1235904_+\|holin	phage holin, lambda family	A0A0M3ULK9	Salmonella_phage	5.8e-56	100.0
WP_000984586.1\|1235887_1236340_+	lysozyme	A0A0M4R365	Salmonella_phage	2.3e-79	97.3
1236842:1236859	attL	NA	NA	NA	NA
WP_000877926.1\|1237730_1238264_-	superoxide dismutase [Cu-Zn]	Q9MC02	Salmonella_phage	1.8e-46	54.0
WP_001152416.1\|1238353_1239049_+\|tail	phage minor tail protein L	A0A0K2FJ01	Enterobacteria_phage	1.0e-89	66.7
WP_072100756.1\|1241689_1242553_+	DUF1983 domain-containing protein	K7PKJ2	Enterobacteria_phage	9.0e-48	78.9
WP_000161704.1\|1243103_1243826_-	SPI-1 type III secretion system guanine nucleotide exchange factor SopE	NA	NA	NA	NA
WP_001536069.1\|1244305_1245106_-	hypothetical protein	NA	NA	NA	NA
WP_000622159.1\|1246050_1246320_-\|integrase	tyrosine-type recombinase/integrase	K7PHK0	Enterobacteria_phage	2.7e-11	47.8
WP_077681935.1\|1246963_1247458_-	RecE	A0A0U2I1R6	Escherichia_phage	3.7e-22	70.3
WP_001013467.1\|1247647_1247878_+	hypothetical protein	Q8HA86	Salmonella_phage	6.1e-28	93.7
WP_001050883.1\|1247931_1248465_+	DUF2514 domain-containing protein	A0A291LBG9	Klebsiella_phage	5.4e-11	43.0
WP_000789530.1\|1248721_1248889_-	lytic enzyme	NA	NA	NA	NA
WP_001576014.1\|1248953_1249142_-	hypothetical protein	NA	NA	NA	NA
1248986:1249003	attR	NA	NA	NA	NA
WP_000348541.1\|1249196_1249688_+	DUF1441 family protein	Q9EYD0	Enterobacteria_phage	7.1e-42	56.2
WP_001687735.1\|1251792_1252293_+\|tail	tail fiber assembly protein	A0A0M4RTP2	Salmonella_phage	1.5e-63	77.4
WP_012543349.1\|1252389_1252590_-	phage encoded PagK	NA	NA	NA	NA
WP_000457876.1\|1253159_1253285_+	hypothetical protein	NA	NA	NA	NA
WP_000848072.1\|1254419_1255034_-	disulfide bond formation protein B	NA	NA	NA	NA
WP_000480735.1\|1255043_1255202_-	hypothetical protein	NA	NA	NA	NA
WP_001233445.1\|1255334_1256249_-	DMT family transporter	NA	NA	NA	NA
WP_001576018.1\|1259387_1259528_-	hypothetical protein	NA	NA	NA	NA
WP_001576019.1\|1259693_1259963_-	hypothetical protein	B6SCX2	Bacteriophage	3.1e-07	47.9
WP_001025515.1\|1260335_1260755_+	GNAT family N-acetyltransferase	NA	NA	NA	NA
WP_000030934.1\|1261127_1261604_-	hypothetical protein	NA	NA	NA	NA
WP_000422882.1\|1261933_1262329_-	DUF1398 domain-containing protein	C6ZCX4	Enterobacteria_phage	9.2e-16	32.8
WP_000182071.1\|1263012_1263735_+	SPI-1 type III secretion system guanine nucleotide exchange factor SopE2	NA	NA	NA	NA
WP_001134856.1\|1264019_1264184_+	membrane protein	NA	NA	NA	NA
WP_000986173.1\|1264407_1265058_+	protein-serine/threonine phosphatase	A0A222YWF0	Escherichia_phage	7.2e-58	50.9
WP_000457838.1\|1265076_1265268_-	YebW family protein	NA	NA	NA	NA
WP_024131108.1\|1265378_1265615_-	DUF1480 family protein	NA	NA	NA	NA
WP_001531515.1\|1265732_1267172_-	16S rRNA (cytosine(1407)-C(5))-methyltransferase RsmF	NA	NA	NA	NA
WP_001529852.1\|1267249_1269883_-	PqiB family protein	NA	NA	NA	NA
WP_001207294.1\|1269851_1271135_-	membrane integrity lipid transport subunit YebS	NA	NA	NA	NA
WP_000145727.1\|1271176_1271761_+	GAF domain-containing protein	NA	NA	NA	NA
WP_000431401.1\|1271858_1272545_+	RNA chaperone ProQ	NA	NA	NA	NA
WP_001091237.1\|1272564_1274613_+	carboxy terminal-processing peptidase	A0A0R6PIZ1	Moraxella_phage	8.0e-87	33.5
WP_000984498.1\|1274806_1275688_+\|protease	protease HtpX	NA	NA	NA	NA

DBSCAN-SWA_4

1466986 : 1482930

Escherichia_phage(62.5%)

tRNA,holin

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000123686.1\|1466986_1468360_+	ATP-dependent RNA helicase DbpA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	2.1e-51	32.0
WP_001156217.1\|1468403_1469339_-\|tRNA	tRNA 2-thiocytidine(32) synthetase TtcA	A0A0U2S5Z2	Escherichia_phage	7.2e-144	97.3
WP_001676915.1\|1469655_1470273_-	exodeoxyribonuclease	A0A088CD28	Shigella_phage	2.5e-36	41.9
WP_000800272.1\|1470300_1470618_-	hypothetical protein	NA	NA	NA	NA
WP_000560208.1\|1470702_1470924_-	cell division protein FtsZ	A0A0U2RTC4	Escherichia_phage	7.9e-33	83.6
WP_000004762.1\|1471361_1471883_+	hypothetical protein	NA	NA	NA	NA
WP_085981757.1\|1471990_1472146_-	DUF1391 family protein	M4QQ57	Salicola_phage	2.6e-06	48.9
WP_001227859.1\|1472530_1472998_-	helix-turn-helix domain-containing protein	A0A0U2QW76	Escherichia_phage	1.0e-53	66.9
WP_001676916.1\|1473270_1473600_+	DUF977 family protein	A0A0U2QQN3	Escherichia_phage	6.5e-23	51.7
WP_001033796.1\|1473761_1474316_-	hypothetical protein	NA	NA	NA	NA
WP_000556389.1\|1474312_1475245_-	hypothetical protein	NA	NA	NA	NA
WP_000882662.1\|1475614_1475827_+	type I toxin-antitoxin system Hok family toxin	A0A0U2QV81	Escherichia_phage	2.5e-28	95.7
WP_000940751.1\|1476350_1476950_+	DUF1367 family protein	A0A0U2RT94	Escherichia_phage	5.5e-97	82.9
WP_000774470.1\|1476949_1477240_+	DUF1364 domain-containing protein	A0A0U2KD41	Escherichia_phage	5.1e-40	76.0
WP_000640113.1\|1477236_1477773_+	DUF1133 family protein	A0A0U2S606	Escherichia_phage	1.4e-70	70.9
WP_000900605.1\|1479943_1480339_+	tellurite resistance TerB family protein	Q71TK7	Escherichia_phage	4.7e-44	88.9
WP_001688615.1\|1480260_1480449_+	hypothetical protein	Q8W636	Enterobacteria_phage	9.4e-11	57.4
WP_000445513.1\|1480438_1480720_+\|holin	phage holin family protein	K7PKN9	Enterobacterial_phage	1.3e-16	49.4
WP_000802786.1\|1480716_1481262_+	glycoside hydrolase family 108 protein	A0A0U2S643	Escherichia_phage	2.3e-89	83.4
WP_000159240.1\|1482107_1482446_+	EamA family transporter	NA	NA	NA	NA
WP_001082296.1\|1482495_1482930_-	universal stress protein UspF	A0A1W6JNV4	Morganella_phage	9.4e-30	52.1

DBSCAN-SWA_5

2134951 : 2145458

Enterobacteria_phage(37.5%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000126349.1\|2134951_2136265_-	lipopolysaccharide biosynthesis protein RfbH	H8ZJ36	Ostreococcus_tauri_virus	7.0e-52	35.1
WP_000565913.1\|2136291_2137371_-	CDP-glucose 4,6-dehydratase	A0A222YY99	Synechococcus_phage	1.7e-16	24.5
WP_000648783.1\|2137375_2138149_-	glucose-1-phosphate cytidylyltransferase	NA	NA	NA	NA
WP_000018223.1\|2138164_2139139_-	CDP-6-deoxy-delta-3,4-glucoseen reductase	NA	NA	NA	NA
WP_000973709.1\|2139144_2139696_-	dTDP-4-dehydrorhamnose 3,5-epimerase	I7HJC4	Enterobacteria_phage	1.3e-52	58.0
WP_000857535.1\|2139696_2140575_-	glucose-1-phosphate thymidylyltransferase RfbA	I7I009	Enterobacteria_phage	2.1e-108	65.5
WP_001023658.1\|2140622_2141522_-	dTDP-4-dehydrorhamnose reductase	A0A291LA50	Escherichia_phage	5.1e-30	36.0
WP_000697848.1\|2141521_2142607_-	dTDP-glucose 4,6-dehydratase	I7HTA3	Enterobacteria_phage	1.6e-102	53.9
WP_000981469.1\|2142983_2143877_-	GalU regulator GalF	A0A127AW70	Bacillus_phage	4.8e-44	42.2
WP_001144948.1\|2144054_2145458_-	colanic acid biosynthesis protein WcaM	A0A291LBB9	Klebsiella_phage	4.0e-21	26.5

DBSCAN-SWA_6

2212656 : 2221827

Enterobacteria_phage(66.67%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000195340.1\|2212656_2214690_+\|tRNA	methionine--tRNA ligase	A0A1V0SDF2	Indivirus	6.1e-55	26.9
WP_000703145.1\|2214930_2215389_+	YehR family lipoprotein	Q9EYF5	Enterobacteria_phage	6.4e-53	72.5
WP_001197951.1\|2215560_2216091_+	YehR family lipoprotein	NA	NA	NA	NA
WP_000950414.1\|2216147_2216615_-	DUF1456 family protein	Q9EYF4	Enterobacteria_phage	4.3e-73	89.7
WP_000598637.1\|2216661_2217381_-	two-component system response regulator BtsR	NA	NA	NA	NA
WP_000272845.1\|2217377_2219063_-	sensor histidine kinase	Q9EYF3	Enterobacteria_phage	6.2e-279	91.1
WP_001240421.1\|2219285_2220017_+	HTH-type transcriptional regulator MlrA	Q9EYF2	Enterobacteria_phage	1.7e-100	87.4
WP_001261696.1\|2220076_2220184_+	protein YohO	NA	NA	NA	NA
WP_000824854.1\|2220164_2220896_-	ABC transporter permease	NA	NA	NA	NA
WP_000569168.1\|2220879_2221827_-	ABC transporter ATP-binding protein	F2Y1V5	Organic_Lake_phycodnavirus	2.8e-10	27.8

DBSCAN-SWA_7

2458263 : 2464323

Salmonella_virus(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000377779.1\|2458263_2459205_+	membrane protein	E7DYY8	Enterobacteria_phage	1.6e-146	87.8
WP_001576268.1\|2460447_2460837_+	GtrA family protein	A0A192Y6N5	Salmonella_phage	1.1e-50	85.6
WP_000703599.1\|2460805_2461060_+	glycosyltransferase	A8CG95	Salmonella_phage	3.1e-25	79.5
WP_000400616.1\|2461077_2463000_+	acyltransferase	A0A1R3Y5Q6	Salmonella_virus	5.6e-300	77.3
WP_105789228.1\|2463989_2464133_-	hypothetical protein	A0A1R3Y5S2	Salmonella_virus	1.7e-12	82.9
WP_108630384.1\|2464071_2464323_-	hypothetical protein	A0A1R3Y5S2	Salmonella_virus	7.6e-08	68.6

DBSCAN-SWA_8

2693401 : 2793350

Salmonella_phage(76.36%)

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

attL 2711774:2711788|attR 2792255:2792269

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000083345.1\|2693401_2694139_-\|tRNA	tRNA(1)(Val) (adenine(37)-N(6))-methyltransferase TrmN	NA	NA	NA	NA
WP_000219174.1\|2694268_2695603_+	ATP-dependent RNA helicase SrmB	A0A1B1IS59	uncultured_Mediterranean_phage	1.6e-43	29.7
WP_001675040.1\|2695620_2696520_-	LysR family transcriptional regulator	NA	NA	NA	NA
WP_000188410.1\|2696622_2697210_+	cysteine/O-acetylserine transporter	NA	NA	NA	NA
WP_000627811.1\|2697271_2697655_-	autonomous glycyl radical cofactor GrcA	Q7Y524	Enterobacteria_phage	6.1e-33	74.0
WP_000179978.1\|2697973_2698663_+	uracil-DNA glycosylase	A0A172DS90	Canid_alphaherpesvirus	4.6e-55	49.5
WP_000997368.1\|2698778_2699816_-\|tRNA	tRNA/rRNA methyltransferase	NA	NA	NA	NA
WP_001098733.1\|2700019_2700439_+	thioredoxin TrxC	A0A1J0GW78	Streptomyces_phage	5.9e-13	39.0
WP_000183642.1\|2700511_2701192_+	DTW domain-containing protein	NA	NA	NA	NA
WP_000082648.1\|2701245_2703906_+	protein lysine acetyltransferase	NA	NA	NA	NA
WP_000949286.1\|2704020_2705376_+	CDP-diacylglycerol--serine O-phosphatidyltransferase	NA	NA	NA	NA
WP_001264473.1\|2705420_2705744_+	YfiM family lipoprotein	NA	NA	NA	NA
WP_000807815.1\|2705740_2707042_-	MFS transporter	Q6JIH2	Burkholderia_virus	1.8e-44	30.6
WP_000985655.1\|2707145_2707601_-	DUF4385 domain-containing protein	E3SMI8	Prochlorococcus_phage	3.9e-34	49.3
2711774:2711788	attL	NA	NA	NA	NA
WP_001235093.1\|2713380_2715954_-	ATP-dependent chaperone ClpB	H6X3M6	Enterobacteria_phage	2.0e-127	35.5
WP_000992636.1\|2716083_2716815_-	polyphenol oxidase	NA	NA	NA	NA
WP_000079130.1\|2716811_2717792_-	23S rRNA pseudouridine(1911/1915/1917) synthase RluD	NA	NA	NA	NA
WP_000197660.1\|2717923_2718661_+	outer membrane protein assembly factor BamD	NA	NA	NA	NA
WP_000178449.1\|2718932_2719271_+	ribosome-associated translation inhibitor RaiA	NA	NA	NA	NA
WP_010989056.1\|2719374_2719422_+	hypothetical protein	NA	NA	NA	NA
WP_000200077.1\|2719521_2720682_+	bifunctional chorismate mutase/prephenate dehydratase	NA	NA	NA	NA
WP_000210984.1\|2720642_2721551_-	SMP-30/gluconolactonase/LRE family protein	NA	NA	NA	NA
WP_000225188.1\|2721608_2722730_-	bifunctional chorismate mutase/prephenate dehydrogenase	NA	NA	NA	NA
WP_001168062.1\|2722739_2723810_-	3-deoxy-7-phosphoheptulonate synthase AroF	A0A0F6R6T6	Escherichia_coli_O157_typing_phage	2.4e-90	51.8
WP_001212379.1\|2724249_2724768_+	YfiR family protein	NA	NA	NA	NA
WP_001030985.1\|2724760_2725981_+	diguanylate cyclase DgcN	A0A2K8I9Y5	Pseudomonas_phage	5.8e-08	36.2
WP_000065257.1\|2726137_2726485_-	50S ribosomal protein L19	NA	NA	NA	NA
WP_000469804.1\|2726525_2727293_-\|tRNA	tRNA (guanosine(37)-N1)-methyltransferase TrmD	NA	NA	NA	NA
WP_000043266.1\|2727337_2727886_-	ribosome maturation factor RimM	NA	NA	NA	NA
WP_000256453.1\|2727904_2728153_-	30S ribosomal protein S16	NA	NA	NA	NA
WP_000460052.1\|2728405_2729767_-	signal recognition particle protein	NA	NA	NA	NA
WP_001537507.1\|2729932_2730724_+	inner membrane protein YpjD	NA	NA	NA	NA
WP_127172650.1\|2730743_2732030_+	HlyC/CorC family transporter	NA	NA	NA	NA
WP_001287926.1\|2732150_2732756_+	hypothetical protein	NA	NA	NA	NA
WP_001518875.1\|2732790_2733381_-	nucleotide exchange factor GrpE	NA	NA	NA	NA
WP_001059151.1\|2733504_2734383_+	NAD(+) kinase	NA	NA	NA	NA
WP_000880965.1\|2734468_2736130_+	DNA repair protein RecN	NA	NA	NA	NA
WP_001203445.1\|2736278_2736617_+	outer membrane protein assembly factor BamE	NA	NA	NA	NA
WP_001112990.1\|2736782_2737073_-	RnfH family protein	NA	NA	NA	NA
WP_000242603.1\|2737062_2737539_-	type II toxin-antitoxin system RatA family toxin	NA	NA	NA	NA
WP_001518569.1\|2737688_2738171_+	SsrA-binding protein SmpB	W5RAM5	Staphylococcus_phage	5.2e-29	47.4
WP_001237694.1\|2738785_2750260_+	biofilm-associated protein BapA	NA	NA	NA	NA
WP_000533863.1\|2750324_2751734_+	TolC family outer membrane protein	NA	NA	NA	NA
WP_000196151.1\|2751730_2753911_+	type I secretion system permease/ATPase	F2Y302	Organic_Lake_phycodnavirus	1.3e-18	34.0
WP_012543392.1\|2753918_2755082_+	HlyD family type I secretion periplasmic adaptor subunit	NA	NA	NA	NA
WP_000980500.1\|2755633_2755852_-	hypothetical protein	E5G6Q4	Salmonella_phage	2.1e-38	100.0
WP_001102269.1\|2755920_2757021_-	phage late control D family protein	E5G6Q3	Salmonella_phage	2.6e-201	100.0
WP_000980411.1\|2757017_2757503_-\|tail	phage tail protein	E5G6Q2	Salmonella_phage	6.7e-77	100.0
WP_001282768.1\|2757499_2760307_-\|tail	phage tail tape measure protein	E5G6Q1	Salmonella_phage	0.0e+00	99.9
WP_000763316.1\|2760299_2760419_-\|tail	GpE family phage tail protein	E5G6Q0	Salmonella_phage	1.8e-15	100.0
WP_001280963.1\|2760433_2760736_-\|tail	phage tail assembly protein	E5G6P9	Salmonella_phage	1.5e-45	100.0
WP_001207651.1\|2760790_2761306_-\|tail	phage major tail tube protein	E5G6P8	Salmonella_phage	9.3e-93	100.0
WP_000046108.1\|2761315_2762488_-\|tail	phage tail sheath protein	E5G6P7	Salmonella_phage	8.9e-224	100.0
WP_000974843.1\|2762590_2762815_-	helix-turn-helix domain-containing protein	E5G6P5	Salmonella_phage	1.5e-34	100.0
WP_000143187.1\|2763684_2764260_-\|tail	tail fiber assembly protein	E5G6P1	Salmonella_phage	4.3e-107	100.0
WP_001274649.1\|2764259_2766113_-\|tail	phage tail protein	E5G6P0	Salmonella_phage	0.0e+00	100.0
WP_001086804.1\|2766109_2766715_-\|tail	phage tail protein I	E5G6N9	Salmonella_phage	1.3e-117	100.0
WP_000268332.1\|2766707_2767616_-\|plate	baseplate assembly protein	E5G6N8	Salmonella_phage	5.4e-160	100.0
WP_000189373.1\|2767602_2767962_-\|plate	baseplate assembly protein	E5G6N7	Salmonella_phage	1.1e-60	100.0
WP_001672413.1\|2767958_2768537_-\|plate	phage baseplate assembly protein V	E5G6N6	Salmonella_phage	1.4e-108	100.0
WP_000958562.1\|2768614_2769466_+	hypothetical protein	E5G6N5	Salmonella_phage	2.8e-163	100.0
WP_000343949.1\|2769467_2769914_-	phage virion morphogenesis protein	E5G6N4	Salmonella_phage	2.3e-71	99.3
WP_001039958.1\|2769906_2770338_-\|tail	phage tail protein	E5G6N3	Salmonella_phage	1.7e-76	100.0
WP_000196199.1\|2770433_2770862_-\|lysis	LysB family phage lysis regulatory protein	E5G6N2	Salmonella_phage	2.3e-68	100.0
WP_001069923.1\|2770858_2771374_-	lysozyme	E5G6N1	Salmonella_phage	5.3e-96	100.0
WP_000171565.1\|2771354_2771570_-	hypothetical protein	E5G6N0	Salmonella_phage	5.9e-33	100.0
WP_000868184.1\|2771573_2771777_-\|tail	tail protein X	E5G6M9	Salmonella_phage	3.8e-34	100.0
WP_000673537.1\|2771776_2772241_-\|head	head completion/stabilization protein	E5G6M8	Salmonella_phage	9.9e-86	100.0
WP_000059173.1\|2772334_2772985_-\|terminase	terminase endonuclease subunit	E5G6M7	Salmonella_phage	4.9e-115	100.0
WP_000730759.1\|2772988_2774050_-\|capsid	phage major capsid protein, P2 family	E5G6M6	Salmonella_phage	2.1e-195	100.0
WP_000216276.1\|2774066_2774900_-\|capsid	GPO family capsid scaffolding protein	E5G6M5	Salmonella_phage	3.1e-130	100.0
WP_001098395.1\|2775042_2776809_+\|terminase	terminase ATPase subunit family protein	A0A1S6KZW3	Salmonella_phage	0.0e+00	97.1
WP_001542203.1\|2776808_2777849_+\|portal	phage portal protein	E5G6M3	Salmonella_phage	5.5e-201	100.0
WP_001284991.1\|2777952_2779617_-	AIPR family protein	E5G6M2	Salmonella_phage	0.0e+00	100.0
WP_001673609.1\|2779930_2780608_-	hypothetical protein	NA	NA	NA	NA
WP_001217575.1\|2780721_2780955_-	DinI family protein	E5G6M1	Salmonella_phage	4.7e-36	100.0
WP_001154433.1\|2780965_2781154_-	hypothetical protein	E5G6M0	Salmonella_phage	1.4e-27	100.0
WP_000017508.1\|2781306_2783721_-	replication endonuclease	E5G6L9	Salmonella_phage	0.0e+00	99.9
WP_000104187.1\|2783717_2784575_-	DNA adenine methylase	E5G6L8	Salmonella_phage	6.8e-165	100.0
WP_000752613.1\|2784571_2784799_-	TraR/DksA family transcriptional regulator	E5G6L7	Salmonella_phage	2.7e-36	100.0
WP_001244219.1\|2784798_2785032_-	DUF2732 family protein	E5G6L6	Salmonella_phage	1.7e-33	100.0
WP_000963474.1\|2785099_2785441_-	DUF5347 domain-containing protein	E5G6L5	Salmonella_phage	1.2e-56	100.0
WP_000956190.1\|2785404_2785605_-	DUF2724 domain-containing protein	E5G6L4	Salmonella_phage	2.4e-33	100.0
WP_000460848.1\|2785612_2786122_-	phage regulatory CII family protein	E5G6L3	Salmonella_phage	1.5e-87	100.0
WP_000102105.1\|2786155_2786398_-	Rha family transcriptional regulator	A0A1S6KZZ6	Salmonella_phage	6.8e-38	97.5
WP_000932273.1\|2786519_2787152_+	phage repressor protein CI	A0A1S6KZZ7	Salmonella_phage	6.3e-59	51.4
WP_000218402.1\|2787154_2788171_+\|integrase	site-specific integrase	E5G6L0	Salmonella_phage	5.0e-199	100.0
WP_000360326.1\|2788723_2789386_+	hypothetical protein	E5G6K9	Salmonella_phage	3.4e-124	100.0
WP_001142974.1\|2789647_2790241_+	hypothetical protein	NA	NA	NA	NA
WP_000445376.1\|2790639_2791443_+	DUF3800 domain-containing protein	Q19UP3	Mannheimia_phage	1.2e-62	44.7
WP_089113803.1\|2792238_2793350_-\|transposase	IS3-like element IS1351 family transposase	A0A2I6AZV9	Macacine_betaherpesvirus	7.6e-07	25.6
2792255:2792269	attR	NA	NA	NA	NA

DBSCAN-SWA_9

3254247 : 3295799

Cronobacter_phage(67.57%)

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

attL 3249586:3249601|attR 3293018:3293033

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
3249586:3249601	attL	NA	NA	NA	NA
WP_001264394.1\|3254247_3255261_-\|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex transferase subunit TsaD	A0A0R6PI74	Moraxella_phage	2.8e-109	59.5
WP_001144069.1\|3255488_3255704_+	30S ribosomal protein S21	NA	NA	NA	NA
WP_000918865.1\|3255938_3257684_+	DNA primase	A0A0K1LMQ9	Caulobacter_phage	2.1e-72	38.4
WP_001680745.1\|3257833_3259681_+	RNA polymerase sigma factor RpoD	A0A2I7SAT0	Vibrio_phage	8.4e-35	33.7
WP_000237776.1\|3259804_3260311_-	G/U mismatch-specific DNA glycosylase	NA	NA	NA	NA
WP_000340945.1\|3260634_3260937_-	hypothetical protein	NA	NA	NA	NA
WP_001680744.1\|3262325_3264026_-	hypothetical protein	F1BUJ7	Cronobacter_phage	9.9e-224	81.4
WP_000200789.1\|3264028_3264574_-	hypothetical protein	F1BUJ9	Cronobacter_phage	3.2e-59	72.0
WP_000267957.1\|3264545_3265271_-	hypothetical protein	F1BUK1	Cronobacter_phage	3.7e-63	53.5
WP_000861353.1\|3265260_3265815_-\|tail	tail fiber assembly protein	S4TUB9	Salmonella_phage	2.7e-90	89.0
WP_000084307.1\|3265827_3268062_-\|tail	tail protein	Q8HAB4	Salmonella_phage	7.2e-182	73.7
WP_001001828.1\|3268071_3268659_-	hypothetical protein	F1BUK5	Cronobacter_phage	3.8e-90	82.6
WP_000136921.1\|3268651_3269836_-	hypothetical protein	F1BUK6	Cronobacter_phage	6.7e-179	78.4
WP_001002797.1\|3269832_3270162_-	DUF2590 family protein	F1BUK8	Cronobacter_phage	3.8e-39	72.4
WP_000811094.1\|3270158_3272129_-\|tail	phage tail tape measure protein	F1BUK9	Cronobacter_phage	3.2e-274	70.8
WP_000411339.1\|3272316_3272574_-	hypothetical protein	A5X9I7	Aeromonas_virus	3.6e-21	63.4
WP_000376373.1\|3272720_3273053_-	hypothetical protein	F1BUL2	Cronobacter_phage	1.5e-35	70.9
WP_000175560.1\|3273052_3273394_-	M15 family metallopeptidase	F1BUL3	Cronobacter_phage	2.2e-50	91.1
WP_001154425.1\|3273390_3273684_-\|holin	holin	C7BGD7	Burkholderia_phage	1.3e-14	46.2
WP_000166743.1\|3273693_3274149_-	DUF2597 family protein	F1BUL4	Cronobacter_phage	1.5e-57	72.2
WP_000220203.1\|3274145_3275273_-	DUF2586 domain-containing protein	F1BUL5	Cronobacter_phage	1.9e-175	83.7
WP_000560080.1\|3275269_3275977_-	hypothetical protein	F1BUL6	Cronobacter_phage	1.3e-100	76.1
WP_000084218.1\|3275973_3276480_-\|tail	phage tail protein	F1BUL7	Cronobacter_phage	1.2e-63	69.1
WP_000447487.1\|3276476_3276965_-\|head	head completion/stabilization protein	F1BUL8	Cronobacter_phage	2.3e-64	82.7
WP_001218537.1\|3277025_3277727_-\|terminase	terminase	F1BUM0	Cronobacter_phage	9.4e-88	66.8
WP_000550495.1\|3277730_3278753_-\|capsid	phage major capsid protein, P2 family	F1BUM2	Cronobacter_phage	3.9e-159	81.5
WP_000018800.1\|3278814_3279618_-\|capsid	phage capsid scaffolding protein	F1BUM4	Cronobacter_phage	2.0e-78	56.0
WP_001151939.1\|3279778_3281554_+	hypothetical protein	F1BUM5	Cronobacter_phage	9.8e-291	83.1
WP_000038213.1\|3281550_3282612_+\|portal	phage portal protein	F1BUM7	Cronobacter_phage	6.7e-162	76.8
WP_001552031.1\|3282608_3282932_+	ogr/Delta-like zinc finger family protein	F1BUM8	Cronobacter_phage	8.0e-50	92.3
WP_000353141.1\|3282905_3283112_-	hypothetical protein	NA	NA	NA	NA
WP_000170874.1\|3283231_3285253_-	replication endonuclease	F1BUM9	Cronobacter_phage	7.9e-297	74.5
WP_000279404.1\|3285249_3286110_-	DNA adenine methylase	F1BUN1	Cronobacter_phage	1.1e-130	82.0
WP_000551169.1\|3286100_3286334_-	DUF2732 family protein	NA	NA	NA	NA
WP_000022786.1\|3286401_3286803_-	hypothetical protein	F1BUN2	Cronobacter_phage	1.4e-48	66.9
WP_000996837.1\|3286802_3287228_-	hypothetical protein	F1BUN5	Cronobacter_phage	2.2e-23	49.6
WP_000643375.1\|3287217_3287445_-	DUF2724 domain-containing protein	NA	NA	NA	NA
WP_000460878.1\|3287454_3287958_-	hypothetical protein	F1BUN6	Cronobacter_phage	3.5e-60	72.5
WP_001247711.1\|3287988_3288210_-	hypothetical protein	NA	NA	NA	NA
WP_000514631.1\|3288353_3288935_+	phage repressor protein	A0A218M4J1	Erwinia_phage	1.2e-27	37.2
WP_000568371.1\|3288951_3289518_+	hypothetical protein	Q4ZA70	Staphylococcus_virus	7.5e-19	32.2
WP_001145219.1\|3289521_3290559_+\|integrase	tyrosine-type recombinase/integrase	F1BUS9	Erwinia_phage	1.5e-121	63.9
WP_000627044.1\|3290548_3292330_+	ATP-binding protein	X2KLG0	Campylobacter_phage	6.4e-08	23.2
WP_000213760.1\|3292587_3293355_-	siderophore-interacting protein	NA	NA	NA	NA
3293018:3293033	attR	NA	NA	NA	NA
WP_000983441.1\|3293586_3294234_+	PadR family transcriptional regulator	NA	NA	NA	NA
WP_000478462.1\|3294230_3295799_-	HAMP domain-containing protein	A0A2H4J162	uncultured_Caudovirales_phage	2.2e-12	33.5

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. NZ_CP009092

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

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection