CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
NC_012913	Aggregatibacter aphrophilus NJ8700, complete sequence	1 crisprs	cas3,cas5,cas8c,cas7,cas4,cas1,cas2,DEDDh,DinG	0	3	3	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_012913_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012913_1

342337-342903

TypeI

Consensus_repeat	Method
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	PILER-CR
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	CRISPRCasFinder
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	CRT

8 spacers

cas2,cas1,cas4,cas7,cas8c,cas5,cas3

The CRISPR arrays of NC_012913_1

>merge|NC_012913|1|342337-342903|PILER-CR,CRISPRCasFinder,CRT
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAACATCTGAAATACCTTCAATATTGGTTACTATCCGAGCAGCCGCCTCCGCGCGGCTGTGTGTTGAAACTGGGGTTTACTGACATTGACGCCTGCGTTTGTTGGCAGCCGCCTCCGCGCGGCTGTGTGTTGAAACTGCTTAATCTAGGGGTTCATCATGGTAAAAATCATGCAGCCGCCTCCGCGCGGCTGTGTGTTGAAACATATTGGTAGATGTGTTGAGTCGTGACTTAGTAAAAGCAGCCGCCTCCGCGCGGCTGTGTGTTGAAACTCAAAAGAAGCTGTTCAACATAACAATCACATTATCGCAGCCGCCTCCGCGCGGCTGTGTGTTGAAACCAGCATTTGAATAGCGTTGAGTACCGTATCATACCGCAGCCGCCTCCGCGCGGCTGTGTGTTGAAACTTAAATTTGCGCGATGACGCTTAAATGTAGCTGTAGCAGCCGCCTCCGCGCGGCTGTGTGTTGAAACATCTATGTAATCCTTATTTATTACATAGCCATTGGCAGCCACCTTCGGGAGGCTGTATGTTGAAAC

>NC_012913|1|1|342337-342837|PILER-CR
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	ATCTGAAATACCTTCAATATTGGTTACTATCCGA
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	TGGGGTTTACTGACATTGACGCCTGCGTTTGTTG
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	TGCTTAATCTAGGGGTTCATCATGGTAAAAATCAT
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	ATATTGGTAGATGTGTTGAGTCGTGACTTAGTAAAA
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	TCAAAAGAAGCTGTTCAACATAACAATCACATTATC
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	CAGCATTTGAATAGCGTTGAGTACCGTATCATACC
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	TTAAATTTGCGCGATGACGCTTAAATGTAGCTGTA
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC

>NC_012913|1|1|342337-342903|CRISPRCasFinder
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	ATCTGAAATACCTTCAATATTGGTTACTATCCGA
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	TGGGGTTTACTGACATTGACGCCTGCGTTTGTTG
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	TGCTTAATCTAGGGGTTCATCATGGTAAAAATCAT
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	ATATTGGTAGATGTGTTGAGTCGTGACTTAGTAAAA
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	TCAAAAGAAGCTGTTCAACATAACAATCACATTATC
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	CAGCATTTGAATAGCGTTGAGTACCGTATCATACC
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	TTAAATTTGCGCGATGACGCTTAAATGTAGCTGTA
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	ATCTATGTAATCCTTATTTATTACATAGCCATTG
GCAGCCACCTTCGGGAGGCTGTATGTTGAAAC

>NC_012913|1|1|342337-342903|CRT
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	ATCTGAAATACCTTCAATATTGGTTACTATCCGA
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	TGGGGTTTACTGACATTGACGCCTGCGTTTGTTG
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	TGCTTAATCTAGGGGTTCATCATGGTAAAAATCAT
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	ATATTGGTAGATGTGTTGAGTCGTGACTTAGTAAAA
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	TCAAAAGAAGCTGTTCAACATAACAATCACATTATC
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	CAGCATTTGAATAGCGTTGAGTACCGTATCATACC
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	TTAAATTTGCGCGATGACGCTTAAATGTAGCTGTA
GCAGCCGCCTCCGCGCGGCTGTGTGTTGAAAC	ATCTATGTAATCCTTATTTATTACATAGCCATTG
GCAGCCACCTTCGGGAGGCTGTATGTTGAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_012913.1\|WP_012771276.1\|328641_331575_-\|bifunctional-[glutamate--ammonia-ligase]-adenylyl-L-tyrosine-phosphorylase/[glutamate--ammonia-ligase]-adenylyltransferase	unknown	unknown	gnl\|CDD\|236836
NC_012913.1\|WP_005702628.1\|353922_354654_+\|AzlC-family-ABC-transporter-permease	unknown	unknown	gnl\|CDD\|129446
NC_012913.1\|WP_005702625.1\|349595_350309_+\|UTRA-domain-containing-protein	unknown	unknown	gnl\|CDD\|274116
NC_012913.1\|WP_012771279.1\|336033_336708_+\|type-I-C-CRISPR-associated-protein-Cas5	cas5	cd09752_cas5_CAS-I-C	gnl\|CDD\|187534
NC_012913.1\|WP_012771289.1\|352985_353918_+\|LysR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|176132
NC_012913.1\|WP_032996445.1\|355049_357824_-\|insulinase-family-protein	unknown	unknown	gnl\|CDD\|223685
NC_012913.1\|WP_012771284.1\|340834_341848_+\|type-I-C-CRISPR-associated-endonuclease-Cas1	cas1	cd09721_cas1_CAS-I-C	gnl\|CDD\|188360
NC_012913.1\|WP_005702626.1\|350447_352721_-\|5-methyltetrahydropteroyltriglutamate---homocysteine-S-methyltransferase	unknown	unknown	gnl\|CDD\|235367
NC_012913.1\|WP_012771278.1\|334190_335945_+\|hypothetical-protein	unknown	unknown	unknown
NC_012913.1\|WP_012771287.1\|345622_349396_-\|4-alpha-glucanotransferase	unknown	unknown	gnl\|CDD\|340853
NC_012913.1\|WP_012771288.1\|352807_352987_-\|hypothetical-protein	unknown	unknown	unknown
NC_012913.1\|WP_012771280.1\|336704_338495_+\|type-I-C-CRISPR-associated-protein-Cas8c/Csd1	cas8c	cd09757_cas8c_CAS-I-C	gnl\|CDD\|187887
NC_012913.1\|WP_012771285.1\|343146_344811_-\|PTS-transporter-subunit-EIIC	unknown	unknown	gnl\|CDD\|131058
NC_012913.1\|WP_012771281.1\|338506_339373_+\|type-I-C-CRISPR-associated-protein-Cas7/Csd2	cas7	cd09689_cas7_CAS-I-C	gnl\|CDD\|377458
NC_012913.1\|WP_012771282.1\|339388_340054_+\|CRISPR-associated-protein-Cas4	cas4	cd09637_cas4_CAS-I:CAS-II:CAS-V	gnl\|CDD\|273040
NC_012913.1\|WP_005702629.1\|354650_354983_+\|branched-chain-amino-acid-transporter-permease	unknown	unknown	gnl\|CDD\|224601
NC_012913.1\|WP_012771286.1\|344821_345613_-\|endonuclease/exonuclease/phosphatase-family-protein	unknown	unknown	gnl\|CDD\|197313
NC_012913.1\|WP_109860541.1\|340157_340748_+\|SLATT-domain-containing-protein	unknown	unknown	gnl\|CDD\|375597
NC_012913.1\|WP_005702619.1\|341851_342145_+\|CRISPR-associated-endonuclease-Cas2	cas2	cd09725_cas2_CAS-I:CAS-II:CAS-III:CAS-V	gnl\|CDD\|187856
NC_012913.1\|WP_012771277.1\|331821_334113_+\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	COG1203_cas3_CAS-I	gnl\|CDD\|350688

Protein	Function_ID	Function_description	E-value
NC_012913.1\|WP_012771276.1\|328641_331575_-\|bifunctional-[glutamate--ammonia-ligase]-adenylyl-L-tyrosine-phosphorylase/[glutamate--ammonia-ligase]-adenylyltransferase	gnl\|CDD\|236836	PRK11072, PRK11072, bifunctional [glutamate--ammonia ligase]-adenylyl-L-tyrosine phosphorylase/[glutamate--ammonia-ligase] adenylyltransferase.	0
NC_012913.1\|WP_005702628.1\|353922_354654_+\|AzlC-family-ABC-transporter-permease	gnl\|CDD\|129446	TIGR00346, Uncharacterized_membrane_protein_HI_1738, 4-azaleucine resistance probable transporter AzlC. Overexpression of this gene results in resistance to a leucine analog, 4-azaleucine. The protein has 5 potential transmembrane motifs. It has been inferred, but not experimentally demonstrated, to be part of a branched-chain amino acid transport system. Commonly found in association with azlD. [Transport and binding proteins, Amino acids, peptides and amines].	2.45535e-97
NC_012913.1\|WP_005702625.1\|349595_350309_+\|UTRA-domain-containing-protein	gnl\|CDD\|274116	TIGR02404, Trehalose_operon_transcriptional_repressor, trehalose operon repressor, B. subtilis-type. This family consists of repressors of the GntR family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gram-positive lineages and does not include the TreR from E. coli. [Regulatory functions, DNA interactions].	2.50292e-61
NC_012913.1\|WP_012771279.1\|336033_336708_+\|type-I-C-CRISPR-associated-protein-Cas5	gnl\|CDD\|187534	cd09752, Cas5_I-C, 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; in subtype I-C this protein might be the endoribonuclease that generates crRNAs; also known as DevS family.	2.58333e-116
NC_012913.1\|WP_012771289.1\|352985_353918_+\|LysR-family-transcriptional-regulator	gnl\|CDD\|176132	cd08441, PBP2_MetR, The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold. MetR, a member of the LysR family, is a positive regulator for the metA, metE, metF, and metH genes. The sulfur-containing amino acid methionine is the universal initiator of protein synthesis in all known organisms and its derivative S-adenosylmethionine (SAM) and autoinducer-2 (AI-2) are involved in various cellular processes. SAM plays a central role as methyl donor in methylation reactions, which are essential for the biosynthesis of phospholipids, proteins, DNA and RNA. The interspecies signaling molecule AI-2 is involved in cell-cell communication process (quorum sensing) and gene regulation in bacteria. Although methionine biosynthetic enzymes and metabolic pathways are well conserved in bacteria, the regulation of methionine biosynthesis involves various regulatory mechanisms. In Escherichia coli and Salmonella enterica serovar Typhimurium, MetJ and MetR regulate the expression of methionine biosynthetic genes. The MetJ repressor negatively regulates the E. coli met genes, except for metH. Several of these genes are also under the positive control of MetR with homocysteine as a co-inducer. In Bacillus subtilis, the met genes are controlled by S-box termination-antitermination system. This substrate-binding domain shows significant homology to the type 2 periplasmic binding proteins (PBP2), which are responsible for the uptake of a variety of substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. The PBP2 bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.	3.51249e-107
NC_012913.1\|WP_032996445.1\|355049_357824_-\|insulinase-family-protein	gnl\|CDD\|223685	COG0612, PqqL, Predicted Zn-dependent peptidases [General function prediction only].	6.68701e-61
NC_012913.1\|WP_012771284.1\|340834_341848_+\|type-I-C-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|188360	TIGR03640, cas1_DVULG, CRISPR-associated endonuclease Cas1, subtype I-C/DVULG. 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 DVULG subtype of CRISPR/Cas system.	0
NC_012913.1\|WP_005702626.1\|350447_352721_-\|5-methyltetrahydropteroyltriglutamate---homocysteine-S-methyltransferase	gnl\|CDD\|235367	PRK05222, PRK05222, 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional.	0
NC_012913.1\|WP_012771287.1\|345622_349396_-\|4-alpha-glucanotransferase	gnl\|CDD\|340853	cd04300, GT35_Glycogen_Phosphorylase, glycogen phosphorylase and similar proteins. This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of oligosaccharides into glucose-1-phosphate units. They are important allosteric enzymes in carbohydrate metabolism. The allosteric control mechanisms of yeast and mammalian members of this family are different from that of bacterial members. The members of this family belong to the GT-B structural superfamily of glycoslytransferases, which have characteristic N- and C-terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homology. The large cleft that separates the two domains includes the catalytic center and permits a high degree of flexibility.	0
NC_012913.1\|WP_012771280.1\|336704_338495_+\|type-I-C-CRISPR-associated-protein-Cas8c/Csd1	gnl\|CDD\|187887	cd09757, Cas8c_I-C, CRISPR/Cas system-associated protein Cas8c. 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; Zn-finger domain containing protein, distant homologs of Cas8 proteins; signature gene for I-C subtype; also known as Csd1 family.	0
NC_012913.1\|WP_012771285.1\|343146_344811_-\|PTS-transporter-subunit-EIIC	gnl\|CDD\|131058	TIGR02003, PTS_system_glucose-specific_IIBC_component, PTS system, IIBC component. This model represents a family of fused B and C components of PTS enzyme II. This clade is a member of a larger family which contains enzyme II's specific for a variety of sugars including glucose (TIGR02002) and N-acetylglucosamine (TIGR01998). None of the members of this clade have been experimentally characterized. This clade includes sequences from Streptococcus and Enterococcus which also include a C-terminal A domain as well as Bacillus and Clostridium which do not. In nearly all cases, these species also contain an authentic glucose-specific PTS transporter. [Transport and binding proteins, Carbohydrates, organic alcohols, and acids].	0
NC_012913.1\|WP_012771281.1\|338506_339373_+\|type-I-C-CRISPR-associated-protein-Cas7/Csd2	gnl\|CDD\|377458	pfam05107, Cas_Cas7, CRISPR-associated protein Cas7. CRISPR-associated protein Cas7 is one of the components of the type I-B cascade-like antiviral defense complex. In Haloferax volcanii, Cas5, Cas6 and Cas7 form a small complex that aids the stability of CRISPR-derived RNA.	5.75716e-153
NC_012913.1\|WP_012771282.1\|339388_340054_+\|CRISPR-associated-protein-Cas4	gnl\|CDD\|273040	TIGR00372, conserved_hypothetical_protein, CRISPR-associated protein Cas4. This model represents a family of proteins associated with CRISPR repeats in a wide set of prokaryotic genomes. This scope of this model has been broadened since it was first built to describe an archaeal subset only. The function of the protein is undefined. Distantly related proteins, excluded from this model, include ORFs from Mycobacteriophage D29 and Sulfolobus islandicus filamentous virus and a region of the Schizosaccharomyces pombe DNA replication helicase Dna2p.	2.71721e-42
NC_012913.1\|WP_005702629.1\|354650_354983_+\|branched-chain-amino-acid-transporter-permease	gnl\|CDD\|224601	COG1687, AzlD, Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism].	7.19495e-39
NC_012913.1\|WP_012771286.1\|344821_345613_-\|endonuclease/exonuclease/phosphatase-family-protein	gnl\|CDD\|197313	cd09079, RgfB-like, Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins. This family includes Streptococcus agalactiae RgfB (for regulator of fibrinogen binding) and related proteins. The function of RgfB is unknown. It is part of a putative two component signal transduction system designated rgfBDAC (the rgf locus was identified in a screen for mutants of Streptococcus agalactiae with altered binding to fibrinogen). RgfA,-C,and -D do not belong to this superfamily: rgfA encodes a putative response regulator, and rgfC, a putative histidine kinase. All four genes are co-transcribed, and may be involved in regulating expression of bacterial cell surface components. This family belongs to the large EEP (exonuclease/endonuclease/phosphatase) superfamily that contains functionally diverse enzymes that share a common catalytic mechanism of cleaving phosphodiester bonds.	1.72838e-124
NC_012913.1\|WP_109860541.1\|340157_340748_+\|SLATT-domain-containing-protein	gnl\|CDD\|375597	pfam18160, SLATT_5, SMODS and SLOG-associating 2TM effector domain family 5. The SLATT domain contains two transmembrane helices. SLATT domains are generally predicted to function as pore-forming effectors in a class of conflict systems which are reliant on the production of second messenger nucleotide or nucleotide derivatives. SLATT domains are predicted to initiate cell suicide responses upon their activation. This SLATT family contains an additional C-terminal alpha-helix, and strictly associates with a reverse transcriptase domain, part of a predicted retroelement with diversity-generating potential.	3.61214e-35
NC_012913.1\|WP_005702619.1\|341851_342145_+\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|187856	cd09725, Cas2_I_II_III, CRISPR/Cas system-associated protein Cas2. 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; Cas2 is present in majority of CRISPR/Cas systems along with Cas1; RNAse specific to U-rich regions; Possesses an RRM/ferredoxin fold.	1.82432e-30
NC_012913.1\|WP_012771277.1\|331821_334113_+\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|350688	cd17930, DEXHc_cas3, DEXH/Q-box helicase domain of Cas3. CRISPR-associated (Cas) 3 is a nuclease-helicase responsible for degradation of dsDNA. The two enzymatic units of Cas3, a histidine-aspartate (HD) nuclease and a Superfamily 2 (SF2) helicase, may be expressed from separate genes as Cas3' (SF2 helicase) and Cas3'' (HD nuclease) or may be fused as a single HD-SF2 polypeptide. The nucleolytic activity of most Cas3 enzymes is transition metal ion-dependent. Cas3 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.	4.38178e-55

>NC_012913.1|WP_005702619.1|341851_342145_+|CRISPR-associated-endonuclease-Cas2
MLMLITYDISFDDPNGQARLRRIAKHCLDYGVRAQYSVFECDVTPDQWVMLKNKLLETYDPTCDSLRFYHLGSKWRNKVEHHGAKPAVDVFKDVLVI
>NC_012913.1|WP_012771284.1|340834_341848_+|type-I-C-CRISPR-associated-endonuclease-Cas1
MRKLQNTLYITTQGSYLHKERETLVVEQERKKVAQLPVHSIGHIFCFGNVLVSPFLLGFCGENNVNLAFFTENGRYLGRLQGRQSGNVLLRRAQYRVSEQNPVPIARNIIAAKIQASKRVLQRQIRNYGENAVIQSAVDALNISLRQLKGAAELDVVRGIEGDAAARYFGVFGQLLSEKSGFTFDGRNRRPPRDGVNALLSFVYSILGKDISGALQGVGLDPQVGFLHADRPGRDSLAQDILEEFRAWWADRLVLSLINRGQIKPQDFVTEASGAVSLKAEARKLLFQTLQAKKQEKIVHPFLGEEVEIGLLPYIQAMLLARHLRGDLAEYPPFLMR
>NC_012913.1|WP_109860541.1|340157_340748_+|SLATT-domain-containing-protein
MSIRVTAKCRFNAAERLKRQGKFAFFTTTILSLGLIFIPLMQNSGIKLAFPPNVLNMMSTFLAVAVLVYSVVIGTARYEARADKLTQCGDNLKDLNRELDNQLKSDSVDIQELEKKYSHLISDTENHTKTDYLAATLEMRRDYEITGFPRLYKRLLIIVVELFSYIIPLSMLVLEIVFILDMLGISHILAKYFSNL
>NC_012913.1|WP_012771282.1|339388_340054_+|CRISPR-associated-protein-Cas4
MTALLTESQGENQDTRLIPLSALQHYAFCPRQCALIHNEQAWAENYLTAQGKVLHERVDSGEPETRKGVRFERTVHVSAEKLGISGVLDLVEVDTKTGRLKPVEYKRGKSKLDPMDEIQLCAQGLCLEEMTGQTVSEGALWYMQTRHRIPVVFSDDLRAQTLATIAAVRELLNSGQTPPPDYGKRCKACSLVEICQPELLGKRDRSVGYVAGLFGWIKYKF
>NC_012913.1|WP_012771281.1|338506_339373_+|type-I-C-CRISPR-associated-protein-Cas7/Csd2
MSAIQNRYEFVYFFDVTNGNPNGDPDAGNMPRLDPESSKGLVTDVCLKRKIRNFVEISSENEAGYEIYVKEKSVLNLQNKRAYEALGIESEAKKLPKDEAKARDITAWMCKNFFDIRTFGAVMTTEVNSGQVRGPVQLAFAQSIDPIVPLEVSITRMAVTNEKDLEKERTMGRKYIVPYALYRVHGFISANLAAKTGFSDDDLAKLWQALMLMFEHDRSAARGEMAARKLIVFKHDSELGSQPAHKLFDAVKVERVNGESGTPASGFGDYKISVVSDGLNGVSVEELL
>NC_012913.1|WP_012771280.1|336704_338495_+|type-I-C-CRISPR-associated-protein-Cas8c/Csd1
MILASLARYYRRLAVETDDMGNPKVPPYGFSEEKIGWILVLDTEGRLKTAVPNLTADKKPQPKLMSVPRPEKRTSGIKPNFLWDKTAYALGVEANKNKAEAKEKPFTSSEKTFEAFKQYHLDLLQNSEDEGLQALCRFLQNWLPENFAAENLPAEMLDANIAFSLEKPTALIHKREAAQTLWVGCLKSDEALEGLCLISGDTAPIARLHPAIKGVFGGQSSGGSIISFNKEAFASFGKEQGANAPVSEQSAFAYTTALNYLLRQRNQESNNHCLTIGDASTVFWAEADDNATAQAAEGFFAQVFTPPDDEQESAKVFNVLEQMSKGRPLQEIAPELSPNTRFYILGLAPNAARISVRFWLDTTFGQLAENLAQHWQDLAIEPCAWKTPPSIWRLLLQTAVLGKSENISPVLAGEMTRAVICGTPYPLSLLSQLITRIRADGDVNGLRVAMMKAVLERRFRKGFIEEGVPMSLNNESPNRAYLLGRLFAVLERIQYQALGELNAGIADRYYGSASAVPFSVFPRLLSGAKHHLSRLRKDKAGMAVNLDKDLGEIIAKLPETFPRHLSIDEQGRFAIGYYHQKQSYFAKKETAEIIEN
>NC_012913.1|WP_012771279.1|336033_336708_+|type-I-C-CRISPR-associated-protein-Cas5
MNQIRLHIWGDYACFIRPEMKVERVSYDVITPSAARGILAAVHWKPAIRWVIDRIYVLKPIRFESVRRNELGGKISAGKVSGAMKRKSVADLYTLIEDDRQQRAATVLKDVAYVIEAHAVLTAKAGADETVTKHIEMFKRRAKKGQCFQQPCLGVREFPADFALIDEGEPLPPSALSESEANRDLGWMLHDIDFDHGNTPHFFRAQMKDGVIDVPPFYAEEVKA
>NC_012913.1|WP_012771278.1|334190_335945_+|hypothetical-protein
MTKDWILQIKETRRKFANSTWIPLRSICESEKGDVQNIGYISEFFGCNSLAFPPEHKDLAKTLEWSNIGIILEAHPYAFDSGHYKTIDQYEWNEKEAVGVHLIFDHPQPVIGGRKWIINPDLIVALRLIKEKNSWVRPEEDFVEVIRESFDDEGDHVKIEIKKEFLIDYLAARNLSLRLTYYRQRVENVEEIESSEYAGLGSYQEERDQGRFELLIRSLNDVYGGSWSSFRVWRTDIDEEDDAPVMGQETNENTESESSQGFHDGYRGIRVEGEFWRDEWIEHQGISTRVRYDKEPNLPTFIVETDGTRIPSAELDNEDIGRWLFFRFGIVNELLQHRGFSLEWYTSETGCIHSTSGCHTHFGINNADLITVYAYDVAKLPSWEQHIWAAHNVAPEGKVSAELLASQVRVQPASTHAVEDLLFKVMRMLEVSFKQRLNVDLFSHDINDSELLRQISRFASTDRTSLLRLAKDLVRVFTDRLNVKALRELSNHKDKNKLGSNKLLQDIVAQKIGEDNAYKIFSVIVGVYEMRLGDAHPTSSKIEEAIKLAGIDENQSFLRQGEQLISNFGQTIWYIGSILFRESE
>NC_012913.1|WP_012771277.1|331821_334113_+|CRISPR-associated-helicase/endonuclease-Cas3
MSQSVIRYAHSAQDEFGNLLPYEHWQTLQSHSVNVGEMAAEFARVFGAQEIACQTGQLHDLGKYSDPFNHRLHGGPPVDHATAGAKIAVERWGNAIGKLIAFCIAGHHAGLANGNGEGDNRRTLKQRLALQFGADIPTLDNLWQQEIKLPQNLSAPPLKADAHHPFFSYAFFTRMLYSCLVDADYLDTEAFYLNLENKTVERDGYPNLNALQHNFNQFINDFRRRIAQTPKQTEAEKRNAALNRLRSEILDHAVEQAVQAQGLFTLTVPTGGGKTFTSMAFALEHAKRHDMRRVIYVIPFTSIIEQNAAEFRKAFGELGEQAVLEHHSTFDDGKLQNEATKDKLRLASENWDAPIVVTTAVQFFESLFADRSSRCHKLHNIAGSVIILDEAQMLPLNLLLPIMQAIKELAQNYHCSVVMCTATQPAVQAENGFYRGFENVREIAPKPTALFDKLRRTTVQHIGTQTDADLLAKLGEYPQMLVIVNNRRHARSLYDQAKHLDGTFHLTTLMCAKHRSQKLDEIRGRLKNGDPCRVIATSLIETGVDVDFPLVMRAEAGLDSVAQAAGRCNREGKRPSENSFVWIFAPEEQWKAPPELATQAAVMRLTADSFSDDLLSTQAVAAYFAELYQLKGSELDNKKILKMHNDTGQSLDFPFQTIADKFRMIESHMQPLIIPFDVEAENLISSLHHADHISGLLRKLQPYTVQIPEKALAALYKAGRIEPINEKNFGKQFYTLIGLDLYDDVAGLSWEDVEFLKGESLVF
>NC_012913.1|WP_012771276.1|328641_331575_-|bifunctional-[glutamate--ammonia-ligase]-adenylyl-L-tyrosine-phosphorylase/[glutamate--ammonia-ligase]-adenylyltransferase
MSFVAQFTDKLHSLTEVLIHSFPEKFDSTLFEQIEQQREDPPTNIGKIAVAVAMSDFVAEAWQKQPTFLAKCWEKLPHFEDCGQYAERLDEVLQHVQTEEQLYRELRLFRAREMVKLSVCQSLNFATVEQVFIRLSQLAESLIIGARDWLYARACEEMGTPMDAQGNAQQLYILGMGKLGGFELNFSSDIDLIFTYPSQGETVGARRSVDNTKFFTRLGQRLINALDQYTADGFVYRTDMRLRPFGDSGALALSFNAMEQYYQDQGRDWERYAMIKGRILGAQATDPNVAVLQNLLRPFVYRRYIDFSVIQALREMKQKIEREVRRRNLTDNIKLGAGGIREIEFIVQVFQLIRGGREIALQQHELLNLLPELSRLNLISTEQESDLHHAYLFLRRAENVLQAIKDQQTQQLPDNELDRQRLIFACAEFTQWDAQQESVSVTYPIHDWASFLAVLQEHQRKVRSVFQSLIGDEQEENTSENAWEDFLETDFDEQELLGILQQNGVPETEQDAVLDRLLQFRNELPRYAIGVRGRAVLNRLMPNLLEQVLHTPNSPVLLPRILTIIEKILTRTTYLELLAENPQALTQLIELCAQSKFIAEQVARHPILLDELLDQKSLRNPPHFTEYASELQQYLLRLPQDDEEQFIDGLRQFKHAALLRIAAADILGVLPVMKVSDHLTYLAEAIIGAVVNLAWQQIAVRFGVPEHLAEGEKNFLVVGYGKLGGIELGYKSDLDLVFLYDPAGNSQTVGGKKVIDSNQFYLRLAQKIVSIFSMNTSAGILYDVDMRLRPSGDAGLLGCSFAAFENYQLNEAWTWEKQALVRSRAVFGEQKLRDEFETIRHNVLSAPRDLVQLKQDVCEMREKMYEHLAKHDDAQFNIKTDQGGITDIEFIAQYLVLAHSPQQPALTRWSDNVRIFEIMAEYGVISDADSERLKQCYVDLRNRIHHLNLFGLPSVVDASEFCAERAFVREIWARLLK
>NC_012913.1|WP_012771285.1|343146_344811_-|PTS-transporter-subunit-EIIC
MKKLLSFEFWQKFGKCLMVVIAVMPAAGLMVSIGNSLPLISDAEWLARVGNIIAQIGWGIIGNLHLLFALAIGGSWANERAGGAFAAGLAFILINLITGHFFGVKIEMLTDPNAHVSTILAGDIPVANYFVNILGQPALNMGVFVGIIAGFVGATTFNSYYNFRKLPEVLTFFNGKRFVPFVVIYRSVLVALILAVFWPVVQTGINHFGEWIANSQDSAPILAPFVYGTLERLLLPFGLHHMLTIPMNYTSLGGTYEFLTGMQQGKQVFGQDPLWLAWISDLINLKDAGNMTQYNELLSTVTPARFKVGQMIGSSGILMGITLAMYVNVDPDKKTIYKGIFLSSALAVFLTGVTEPIEYMFMFVALPLYLVYAAIQGCAFAMADIVNLRVHSFGNIEFLTRTPMAIKAGIGMDLINFIWVSGVFAVAAFLIANFMIKKLNLATAGRNGNYDAKGSDEAPTEEKKVANASAQVVQIINLLGGRNNIAEVDACMTRLRITVHNPQLVGDAASWKQAGAMGFIVKGTGIQAIYGPKADVLKSDIQDLLSSGVEIPKM
>NC_012913.1|WP_012771286.1|344821_345613_-|endonuclease/exonuclease/phosphatase-family-protein
MKLLTLNVHAWLEDNQAEKIDIIADTIVEKGYDIVALQEVNQLMSAPAISQALKQDNYGVVLLNKINQRATQKYSLFWSNSHIGYDKYDEGIAFLTRLPVYEVDAFYCSQHQRLDSILSRKILGLTVEYQGQLVDCYSCHINLPNCAGENQLDNIRNIVERSQSRNLKILMGDFNTDAISDPNAYQKIKSLGLLDTFEMAEQKDSGITVEKAIDGWKGHSEEKRLDYIFLNQAKRVLSSQVVFNGKNKPVVSDHFGLEVELTL
>NC_012913.1|WP_012771287.1|345622_349396_-|4-alpha-glucanotransferase
MLTRSSGVLMHITSLPNAFGIGSFGQSAYDFVDFLVETKQTYWQILPLTTTSYGDSPYQSFSAIAGNTHLIDFALLTQMGLLQETDYASVNFGNDPTKVDYERIFYARRPILEIAVKHFLADKKRQAEFKNFEKNNRTWLEDYAEFMAIKEHFGNKALQEWEDKLAVARQPEALAKYRTMLKEQIQYFKVTQYFFFQQWLALKNYANQRGIKIIGDMPIYVAADSVEVWTMPELFQLDKERNPLFVAGVPADQFSATGQLWGNPLYDWAEHKKQGYTWWIHRIEESFKIYDVLRIDHFKGFSDYWQVDGKADIAKYGSWQPGPGYDLFKAVKAQLGDLPIIAEDLGNIDEKAEKLLTDCGYPGMKILQFGFEDVSGESLDSPHYCIPHCIAYTGTHDNDVINGWYADLSPKQQQYINAYTHHATDESVCQAMIRQLFATVSNTVIATMQDILDLPASSRMNLPSTIGGNWEWRMQESDLTKSKKDFLTQITTLYGRANKEKIMIKFSEFVQQTTNKKLEKLSDHAIYVQLLNYVKTLAANKEKNTAKRKVYYISAEFLIGKLLSNNLINLGVYQEIKDELAQAGKSLSHIEDIEPEPSLGNGGLGRLASCFIDSMSTLGLNAEGVGLNYHCGLFKQVFKNNEQHAEPNNWIEKESWLIPTDIRYEVPFKDFTLTSKLDRIDILGYKKDTKNYLNLFDIESINHKLIKKGITFDKTKIKENLTLFLYPDDSDKNGELLRIYQQYFMVSNAAQLLIDEAIERGSNLHDLADYAYVQINDTHPSMVIPELIRLLTEKHRIKFAEAVEIVRNMVGYTNHTILAEALEKWPLAYLEEVVPHLVKIIKKLNKLVHKEYPNPDVQIIDKQKRVHMAHMDIHFSNSVNGVAALHTEILKNSELKAFYEIYPEKFNNKTNGITFRRWLEFSNQELAAYIKQLIGDGYLHDATQLEKLLAFKDDKKVHQKLAEIKFRNKLALKTYLKENKGIELDENSIIDTQIKRFHEYKRQQMNALYVIHKYLEIKAGKLPKRKITVIFGGKAAPAYVIAQDIIHLILCLSELINNDPDVNHYLNVHLVENYNVSVAEKLIPATDISEQISLASKEASGTGNMKFMLNGALTLGTMDGANVEIAELAGAKNIYTFGKDSESIIKLYETAGYVSKDYYKKDKHIKRAVDFILDSTLVKLGNEERLKRLHDELLNKDWFMTLIDFDAYVTAKEQILADYQDQDSWNEKVIHNIAKAGFFSSDRTIAQYNTDIWHCED
>NC_012913.1|WP_005702625.1|349595_350309_+|UTRA-domain-containing-protein
MSKYKAVYNDIKRKITDGILPPKQELPSESELMQEYGFSKDTIRKALSLLEMDGYIQKQQGRTSIVLEHNLSTPQQLSEIKTVGELNRPLTHQVKTTLTSLYIVQGEEELMRIFNVNDQIDFYRIGRVREIDGEAVEYEVSYFDRRIVPFINREIAEHSIYHYLESELGLKISYSQREIVFRYANEEEKSTMDLGEYNMVVNVTSTTYLADGRLFQYGSISYRPDKITFASTAKRHV
>NC_012913.1|WP_005702626.1|350447_352721_-|5-methyltetrahydropteroyltriglutamate---homocysteine-S-methyltransferase
MTTFHLAGFPRVGAKRELKFAQERYWRGEIAEADLLDIAKKLREINWQHQANANADFVAVADFTFYDHILDLQVATGGIPARFGFDSQNLTLDQYFQLARGNKTQFAIEMTKWFDTNYHYLVPEFHKDTQFKANPAHYVQQIREAKALGHKVKPTIVGPLTFLWLGKEKGAAFNRFDLLNKLVPVYVDILNALTAEGVEYIQIDEPALTLDLPAEWIAAYKEVYATFAAQVNAKLFLATYFGSVAEHADLLKALPVAGLHIDLVRAPEQLSAFADYDKILSVGVIEGRNIWRANLNQVLDVVEPLKAKLGERLWIAPSCSLLHTPYDLAVETQLQANKPELYQWLAFTLQKIQELRVIKTALEQGRAAVQADLDASQTAADTRKNSREIHRTCVAERLANLPKNADQRKSPFAKRIKLQNAWLNLPLLPTTNIGSFPQTTEIRHARAAFKKGDLSLADYEAAMKKEIEFVVREQEKLDLDVLVHGEAERNDMVEYFGELLDGFAFTKFGWVQSYGSRCVKPPVIYGDVTRPEPMTVRWSQYAQSLTNKVMKGMLTGPVTILQWSFVRNDIPRSTVCKQIAVALSDEVLDLEKAGIKVIQIDEPAIREGLPLKRADWDAYLQWAGEAFRLSSMGCKDDTQIHTHMCYSEFNDILPAIAALDADVITIETSRSDMELLTAFGDFKYPNDIGPGVYDIHSPRVPTAEEIKHLLRKALQVVPKERLWVNPDCGLKTRGWPETIAALKVMVDVTKKLRAELA
>NC_012913.1|WP_012771288.1|352807_352987_-|hypothetical-protein
MRKIHINKKNNEAVSYTKTDCALMFYRIKVRSKIKMFLRSVLLRQNQNIKIIHTNLENY
>NC_012913.1|WP_012771289.1|352985_353918_+|LysR-family-transcriptional-regulator
MKPIFLELRHLKTLLALKETGSVSLAAKRVYLTQSALSHQIKLLEDQYGLPLFERKTQPLHFTPAGERLIQLANDILPKVIEAERDLARVKQGEAGELRIAVECHTCFDWLMPAMDLFRQHWPLVELDIVSGFHTDAVGLLLSHRADWAIVQEVEETPGIVYKPLFSYEMVGLCAKDHPLAVKDVWQAEDFIDQTLITYPVPDDMLDLLRKVLHPKGVNPTRRTSELTIAIIQLVASKRGVAALPFWAAKPYLDRGYIVARKITEQGLHSNLYAATRELDSQIAFVDDFYETVKAQSFSTLPELSILEEI
>NC_012913.1|WP_005702628.1|353922_354654_+|AzlC-family-ABC-transporter-permease
MSDVKTNSHPIWAAAKAALPYSAPMLAGFLFLGVAYGIYMKALGFSFWYPVLMALLIYGGSVEFIIAGALSLAFAPLNALLITLMVSGRQLFYSISMLEKYGKSLGKKRPYLIATLVDESFSLNYMAKVPSHIDRGWYMFFVSFYLHMYWMIGAGLGNLFGNIIPFDLKGIEFAMTALFLVIFAENWAQEKSHESSLLGLVIAAISLIVFGREYFLLPTLIGIWTVLTFRRPKLSSRLERIEE
>NC_012913.1|WP_005702629.1|354650_354983_+|branched-chain-amino-acid-transporter-permease
MTLTEQIITIGIAVLGVQFTRWLPFWIFPANRPIPEYIRYLGKVLPAAMFGMLVVYCYKNVDVFSGFHGVPEFLSGVIVVALHLWKRNMFLSIAAGTMLYMFLVQRVLVA
>NC_012913.1|WP_032996445.1|355049_357824_-|insulinase-family-protein
MKKLTALFVLLCSFRLVIACQAGIDPDALAFDPNIKHGKLTNGLQYYILNNLDPKDRVYIRLVVNAGSMHEDDDQKGIAHLVEHMAFNGSKKYPENTIINALEKLGMKFARDINAFTDFENTVYTLNLDGNSPQKLSLAFDVINEWMNHLTILPKDLDGERGVVQEEWRRRLSPMLRLGDKKSAIEMAGSRYVLRDPIGDMNIIRHISRDRVADFYHKWYRPDNMSLIVVGDIDTHKITQLISQQLDKPNSHTQRPLDKIDFSIPLIHHWRVASIAEQGTNIPALELSFFEEDKQKETITDYKQDLIQQIVTRLVNLRLQKWEENQNNWLDSANFYRSHLGKQTLQSVFSLQLADTNYLKNITALFAFIAEIKQHGFTADELNSEIARLHNLNEKQQNIRPGSLKIANDLIAIAANHQIMLSAKERYNLNRRFLNEIKVTDLNVTFNQMLALNAKLLLITQPLPEKKLPFDATYIEQRWNQAMRSDQNQWENKKHIVKQPHFEFKDGSLVLEKHWDKGNIDEFRLSNGAKLIYHYSNKTPNQVHFRAVTSGGLRSVPNQDYHLLRTAITLVDDTGTGELTQADVSNLFGQSPLVLATVIDDDKQGFTGVAKPQDLSRLLTLFRLKLQSAPVSNNVLQKYHRETQDYFKQIDAETKFMQSISYLRRPNTATVYTQNQNEQLSFTAAQLSQIYQEKILGKTDFTYFIIGDISRSEVEKLAKQYLATVEIKTQARAYQPGYIHTPKKAFIMRGLSEPRADVEIYLTAENQWHPEQKYALEILGEIVQEKLRLVLREKVSGIYSVNSWFSQDPHTPQIEGKIAFSCAPNRAEELIKLTYQILDEIIENGIDETLLRKKQAEQQQYIKRQFDSLVSVAGMIEDSYWQQGNPQSVYLYQRLEQLADKPHLEALARKVLVKAARFEAILRQ

You can click texts colored in the table to view more detailed information

Click the colored protein region to show detailed information

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_012913_1	1.4\|342568\|36\|NC_012913\|PILER-CR,CRISPRCasFinder,CRT	342568-342603	36	NZ_KX753679	Pasteurella multocida strain RCAD0259 plasmid pRCADGH-2, complete sequence	402-437	0	1.0
NC_012913_1	1.4\|342568\|36\|NC_012913\|PILER-CR,CRISPRCasFinder,CRT	342568-342603	36	NC_002579	Aggregatibacter actinomycetemcomitans plasmid pVT745, complete sequence	7341-7376	0	1.0
NC_012913_1	1.4\|342568\|36\|NC_012913\|PILER-CR,CRISPRCasFinder,CRT	342568-342603	36	GQ866235	Aggregatibacter actinomycetemcomitans strain D11S-1 plasmid S57, complete sequence	8952-8987	0	1.0
NC_012913_1	1.5\|342636\|36\|NC_012913\|PILER-CR,CRISPRCasFinder,CRT	342636-342671	36	NZ_KX753679	Pasteurella multocida strain RCAD0259 plasmid pRCADGH-2, complete sequence	26625-26660	1	0.972
NC_012913_1	1.4\|342568\|36\|NC_012913\|PILER-CR,CRISPRCasFinder,CRT	342568-342603	36	NC_021724	Aggregatibacter actinomycetemcomitans plasmid pS23A, complete sequence	9485-9520	2	0.944
NC_012913_1	1.8\|342838\|34\|NC_012913\|CRISPRCasFinder,CRT	342838-342871	34	CP054910	Pantoea ananatis strain FDAARGOS_680 plasmid unnamed2, complete sequence	17211-17244	7	0.794
NC_012913_1	1.8\|342838\|34\|NC_012913\|CRISPRCasFinder,CRT	342838-342871	34	NZ_CP040366	Bacillus flexus isolate 1-2-1 plasmid punnamed3, complete sequence	5296-5329	7	0.794

1. spacer 1.4|342568|36|NC_012913|PILER-CR,CRISPRCasFinder,CRT matches to NZ_KX753679 (Pasteurella multocida strain RCAD0259 plasmid pRCADGH-2, complete sequence) position: , mismatch: 0, identity: 1.0

atattggtagatgtgttgagtcgtgacttagtaaaa	CRISPR spacer
atattggtagatgtgttgagtcgtgacttagtaaaa	Protospacer
************************************

2. spacer 1.4|342568|36|NC_012913|PILER-CR,CRISPRCasFinder,CRT matches to NC_002579 (Aggregatibacter actinomycetemcomitans plasmid pVT745, complete sequence) position: , mismatch: 0, identity: 1.0

atattggtagatgtgttgagtcgtgacttagtaaaa	CRISPR spacer
atattggtagatgtgttgagtcgtgacttagtaaaa	Protospacer
************************************

3. spacer 1.4|342568|36|NC_012913|PILER-CR,CRISPRCasFinder,CRT matches to GQ866235 (Aggregatibacter actinomycetemcomitans strain D11S-1 plasmid S57, complete sequence) position: , mismatch: 0, identity: 1.0

atattggtagatgtgttgagtcgtgacttagtaaaa	CRISPR spacer
atattggtagatgtgttgagtcgtgacttagtaaaa	Protospacer
************************************

4. spacer 1.5|342636|36|NC_012913|PILER-CR,CRISPRCasFinder,CRT matches to NZ_KX753679 (Pasteurella multocida strain RCAD0259 plasmid pRCADGH-2, complete sequence) position: , mismatch: 1, identity: 0.972

tcaaaagaagctgttcaacataacaatcacattatc	CRISPR spacer
tcaaaagaagctgttcaacataacaatcacatcatc	Protospacer
********************************.***

5. spacer 1.4|342568|36|NC_012913|PILER-CR,CRISPRCasFinder,CRT matches to NC_021724 (Aggregatibacter actinomycetemcomitans plasmid pS23A, complete sequence) position: , mismatch: 2, identity: 0.944

atattggta-gatgtgttgagtcgtgacttagtaaaa	CRISPR spacer
-tatcggtatgatgtgttgagtcgtgacttagtaaaa	Protospacer
 ***.**** ***************************

6. spacer 1.8|342838|34|NC_012913|CRISPRCasFinder,CRT matches to CP054910 (Pantoea ananatis strain FDAARGOS_680 plasmid unnamed2, complete sequence) position: , mismatch: 7, identity: 0.794

atctatgtaatccttatttattacatagccattg-----	CRISPR spacer
atctatgtaatcattatttataacata-----tggagac	Protospacer
************ ******** *****     **

7. spacer 1.8|342838|34|NC_012913|CRISPRCasFinder,CRT matches to NZ_CP040366 (Bacillus flexus isolate 1-2-1 plasmid punnamed3, complete sequence) position: , mismatch: 7, identity: 0.794

atctatgtaatccttatttattacatagccattg	CRISPR spacer
atatataatgtccttttttattacatagcaattg	Protospacer
** ***.  .***** ************* ****

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

467872 : 511613

Mannheimia_phage(25.71%)

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

attL 478617:478636|attR 514477:514496

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

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_005700197.1\|467872_469183_-\|tRNA	tRNA lysidine(34) synthetase TilS	NA	NA	NA	NA
WP_005700198.1\|469227_470085_-	pyridoxal kinase PdxY	NA	NA	NA	NA
WP_005700199.1\|470147_471101_-	acetyl-CoA carboxylase carboxyl transferase subunit alpha	NA	NA	NA	NA
WP_005700200.1\|471668_472631_-	hypothetical protein	K4F6D5	Cronobacter_phage	3.6e-29	43.2
WP_044055203.1\|472825_473011_-	AlpA family phage regulatory protein	NA	NA	NA	NA
WP_044055294.1\|473025_473214_-	hypothetical protein	NA	NA	NA	NA
WP_080987744.1\|473435_473618_-	DUF551 domain-containing protein	NA	NA	NA	NA
WP_012771319.1\|473723_473957_-	hypothetical protein	NA	NA	NA	NA
WP_012771320.1\|473958_474300_-	hypothetical protein	NA	NA	NA	NA
WP_012771321.1\|474357_475152_-	DUF2303 family protein	NA	NA	NA	NA
WP_012771322.1\|475220_475580_-	hypothetical protein	NA	NA	NA	NA
WP_044055205.1\|475659_476073_-	hypothetical protein	NA	NA	NA	NA
WP_012771324.1\|476075_476687_-	YqaJ viral recombinase family protein	A0A0M3LPU0	Mannheimia_phage	3.9e-82	72.3
WP_012771325.1\|476683_477466_-	phage recombination protein Bet	A0A0M3LR26	Mannheimia_phage	6.0e-83	59.5
WP_012771326.1\|477472_478435_-	hypothetical protein	A0A0M3LR66	Mannheimia_phage	1.1e-59	47.3
WP_012771327.1\|478437_478602_-	hypothetical protein	NA	NA	NA	NA
WP_012771328.1\|478579_478861_-	hypothetical protein	Q776W5	Haemophilus_phage	2.9e-08	42.9
478617:478636	attL	NA	NA	NA	NA
WP_044055207.1\|479706_480231_+	hypothetical protein	Q7Y5W8	Haemophilus_phage	3.1e-59	68.8
WP_012771330.1\|480324_480537_-	hypothetical protein	NA	NA	NA	NA
WP_012771331.1\|480914_481334_-	hypothetical protein	NA	NA	NA	NA
WP_012771332.1\|481323_481797_-	type II toxin-antitoxin system HicB family antitoxin	NA	NA	NA	NA
WP_044055208.1\|481808_482063_-	type II toxin-antitoxin system HicA family toxin	K7PH44	Enterobacterial_phage	8.3e-10	42.9
WP_012771333.1\|482216_482912_-	helix-turn-helix transcriptional regulator	Q7Y5W5	Haemophilus_phage	4.3e-77	64.0
WP_012771334.1\|483030_483243_+	helix-turn-helix domain-containing protein	Q76H55	Enterobacteria_phage	5.6e-12	52.2
WP_012771335.1\|483291_483735_+	hypothetical protein	NA	NA	NA	NA
WP_012771336.1\|483786_484494_+	phage regulatory protein/antirepressor Ant	D0UIL6	Aggregatibacter_phage	6.9e-131	99.6
WP_012771337.1\|484490_485216_+	helix-turn-helix domain-containing protein	D0UIL5	Aggregatibacter_phage	1.5e-96	83.6
WP_012771338.1\|485212_485857_+	replication P	D0UIL4	Aggregatibacter_phage	6.9e-37	43.8
WP_012771339.1\|485853_486372_+	DNA N-6-adenine-methyltransferase	D0UIL3	Aggregatibacter_phage	1.7e-78	81.2
WP_012771340.1\|486341_486977_+	DUF1367 family protein	K7PKS6	Enterobacteria_phage	5.4e-18	27.4
WP_044055209.1\|487043_487328_+	DUF1364 domain-containing protein	A0A0M3LQ97	Mannheimia_phage	3.5e-33	75.6
WP_006718646.1\|487324_487687_+	RusA family crossover junction endodeoxyribonuclease	A0A0M3LPZ2	Mannheimia_phage	6.0e-30	49.2
WP_012771342.1\|487679_488186_+	antitermination protein	K7PHU3	Enterobacteria_phage	4.2e-13	32.0
WP_148207219.1\|488343_488565_+	hypothetical protein	NA	NA	NA	NA
WP_044055211.1\|488561_489104_+	lysozyme	I6PBN2	Cronobacter_phage	1.3e-36	50.6
WP_012771345.1\|489055_489226_+	DUF2570 family protein	NA	NA	NA	NA
WP_049756018.1\|489301_489583_+	hypothetical protein	NA	NA	NA	NA
WP_044055212.1\|489624_489936_+	HNH endonuclease	B5WZZ4	Pseudomonas_phage	2.4e-19	51.7
WP_012771347.1\|490043_490508_+	hypothetical protein	Q77WA1	Escherichia_phage	8.3e-16	43.0
WP_012771348.1\|490507_492019_+\|terminase	terminase large subunit	K7PLY2	Enterobacterial_phage	1.3e-190	66.6
WP_012771349.1\|492015_493254_+\|portal	phage portal protein	A0A0R6PDY3	Moraxella_phage	5.2e-150	66.8
WP_012771350.1\|493243_493903_+\|head,protease	HK97 family phage prohead protease	A0A0R6PFZ5	Moraxella_phage	1.4e-72	63.4
WP_012771351.1\|493904_495098_+\|capsid	phage major capsid protein	A0A0R6PKI4	Moraxella_phage	2.4e-139	66.8
WP_044055213.1\|495144_495459_+\|head,tail	phage gp6-like head-tail connector protein	A0A2H4J711	uncultured_Caudovirales_phage	2.4e-14	38.8
WP_044055215.1\|495458_495782_+\|head	phage head closure protein	A0A286S2A2	Klebsiella_phage	2.6e-16	47.2
WP_012771353.1\|495774_496257_+	HK97 gp10 family phage protein	A0A220NRP5	Escherichia_phage	8.9e-13	31.5
WP_012771354.1\|496258_496603_+	DUF3168 domain-containing protein	NA	NA	NA	NA
WP_012771355.1\|496606_497263_+	hypothetical protein	NA	NA	NA	NA
WP_012771356.1\|497324_497732_+	hypothetical protein	NA	NA	NA	NA
WP_044055217.1\|497776_498001_+	DUF4035 domain-containing protein	NA	NA	NA	NA
WP_044055296.1\|498086_498509_+	membrane lipoprotein lipid attachment site-containing protein	NA	NA	NA	NA
WP_012771359.1\|498600_498792_+	hypothetical protein	NA	NA	NA	NA
WP_012771360.1\|498850_502183_+	tape measure protein	A0A2P1CKJ3	Pantoea_phage	1.3e-30	22.6
WP_012771361.1\|502198_502534_+\|tail	phage tail protein	A0A1W6JNT2	Morganella_phage	3.6e-13	36.7
WP_012771362.1\|502533_503268_+\|tail	phage minor tail protein L	A0A0M3LSQ5	Mannheimia_phage	1.5e-72	55.1
WP_012771363.1\|503270_504032_+	C40 family peptidase	S5MQI8	Escherichia_phage	3.5e-56	45.3
WP_012771364.1\|504055_504577_+\|tail	tail assembly protein	NA	NA	NA	NA
WP_049756019.1\|504580_507925_+	host specificity protein J	A0A0M3LR06	Mannheimia_phage	6.0e-257	51.5
WP_049756020.1\|507925_508468_+	hypothetical protein	A0A0M3LQG1	Mannheimia_phage	2.0e-16	70.0
WP_044055218.1\|508467_508842_+	hypothetical protein	NA	NA	NA	NA
WP_012771365.1\|508807_509698_+	hypothetical protein	NA	NA	NA	NA
WP_012771366.1\|509767_510061_+	hypothetical protein	A0A0M3LSV5	Mannheimia_phage	1.0e-35	75.3
WP_044055219.1\|510088_510271_-	hypothetical protein	NA	NA	NA	NA
WP_012771367.1\|510413_511613_-\|integrase	site-specific integrase	G9L697	Escherichia_phage	2.6e-130	57.3
514477:514496	attR	NA	NA	NA	NA

DBSCAN-SWA_2

1786784 : 1856250

Staphylococcus_phage(15.38%)

plate,tRNA,protease,integrase

attL 1778260:1778279|attR 1857387:1857406

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1778260:1778279	attL	NA	NA	NA	NA
WP_005702062.1\|1786784_1787219_-\|tRNA	D-tyrosyl-tRNA(Tyr) deacylase	NA	NA	NA	NA
WP_005702061.1\|1787215_1788052_-	virulence factor BrkB family protein	NA	NA	NA	NA
WP_005702060.1\|1788048_1788522_-	YchJ family protein	NA	NA	NA	NA
WP_005702059.1\|1788524_1789193_-	MOSC domain-containing protein	NA	NA	NA	NA
WP_005702058.1\|1789318_1790818_+	DUF853 domain-containing protein	A0A248XCZ8	Klebsiella_phage	1.1e-82	45.0
WP_005702056.1\|1791061_1791877_+	class I SAM-dependent methyltransferase	NA	NA	NA	NA
WP_005702055.1\|1791952_1793785_-	glutamine--fructose-6-phosphate transaminase (isomerizing)	M1H1Z3	Paramecium_bursaria_Chlorella_virus	3.6e-131	43.6
WP_005702054.1\|1793833_1794610_-	DeoR family transcriptional regulator	NA	NA	NA	NA
WP_005702053.1\|1794748_1795021_-	HU family DNA-binding protein	A4JWM7	Burkholderia_virus	4.2e-20	62.2
WP_005702052.1\|1795186_1795777_-	DUF416 family protein	NA	NA	NA	NA
WP_005702051.1\|1795794_1796859_-	uroporphyrinogen decarboxylase	NA	NA	NA	NA
WP_005702050.1\|1796866_1797649_-	NAD(+) diphosphatase	NA	NA	NA	NA
WP_005702049.1\|1797965_1802234_-	DNA-directed RNA polymerase subunit beta'	A0A2I7QNZ7	Vibrio_phage	5.4e-69	27.0
WP_005702047.1\|1802337_1806366_-	DNA-directed RNA polymerase subunit beta	A0A0N9R0J7	Chrysochromulina_ericina_virus	1.4e-21	26.2
WP_005702046.1\|1806634_1807006_-	50S ribosomal protein L7/L12	NA	NA	NA	NA
WP_005702045.1\|1807057_1807549_-	50S ribosomal protein L10	NA	NA	NA	NA
WP_005702044.1\|1807912_1808602_-	50S ribosomal protein L1	NA	NA	NA	NA
WP_005630840.1\|1808606_1809035_-	50S ribosomal protein L11	NA	NA	NA	NA
WP_005702043.1\|1809204_1809756_-	transcription termination/antitermination protein NusG	NA	NA	NA	NA
WP_005702041.1\|1809757_1810168_-	preprotein translocase subunit SecE	NA	NA	NA	NA
WP_005702040.1\|1811032_1811548_+	Hcp family type VI secretion system effector	NA	NA	NA	NA
WP_005702039.1\|1812310_1812619_-	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_005702038.1\|1812615_1812963_-	type II toxin-antitoxin system RelE/ParE family toxin	NA	NA	NA	NA
WP_005702037.1\|1813025_1813583_-	hypothetical protein	NA	NA	NA	NA
WP_005702035.1\|1813569_1813758_-	hypothetical protein	NA	NA	NA	NA
WP_005702034.1\|1813757_1814003_-	hypothetical protein	NA	NA	NA	NA
WP_049756048.1\|1813995_1814838_-	host cell division inhibitor Icd-like protein	NA	NA	NA	NA
WP_005702032.1\|1815077_1815380_-	hypothetical protein	NA	NA	NA	NA
WP_005702031.1\|1815659_1816157_-	hypothetical protein	NA	NA	NA	NA
WP_005594660.1\|1817287_1817671_-	hypothetical protein	NA	NA	NA	NA
WP_005702029.1\|1817829_1818141_-	hypothetical protein	NA	NA	NA	NA
WP_005702028.1\|1818165_1818618_-	hypothetical protein	NA	NA	NA	NA
WP_012771837.1\|1818631_1818892_-	transcriptional regulator	NA	NA	NA	NA
WP_005594653.1\|1818902_1819112_-	AlpA family phage regulatory protein	NA	NA	NA	NA
WP_012771838.1\|1819305_1819809_-	hypothetical protein	NA	NA	NA	NA
WP_005702023.1\|1819931_1821176_-\|integrase	tyrosine-type recombinase/integrase	A0A1B5FPC6	Escherichia_phage	5.9e-85	40.6
WP_005702022.1\|1822042_1823134_+	YdcF family protein	NA	NA	NA	NA
WP_005702021.1\|1823555_1824680_+	Fic family protein	D7RWK9	Brochothrix_phage	6.2e-25	28.0
WP_005702020.1\|1824747_1826661_+	N-6 DNA methylase	A0A1W6JNK1	Staphylococcus_phage	5.4e-154	46.8
WP_080514048.1\|1827763_1828267_+	restriction endonuclease subunit S	A0A1W6JNN3	Staphylococcus_phage	2.9e-14	34.0
WP_012771842.1\|1828536_1831137_-	DNA mismatch repair protein MutS	E3T5Q7	Cafeteria_roenbergensis_virus	1.8e-30	21.6
WP_012771843.1\|1831161_1832487_-	ATP-dependent RNA helicase SrmB	A0A1B1IS59	uncultured_Mediterranean_phage	8.9e-47	31.1
WP_012771844.1\|1832576_1833281_+\|tRNA	tRNA1(Val) (adenine(37)-N6)-methyltransferase	NA	NA	NA	NA
WP_005702013.1\|1833337_1834027_-	nicotinamide riboside transporter PnuC	U5J9C5	Bacillus_phage	1.8e-35	34.4
WP_012771846.1\|1834224_1837083_+	RNA polymerase-associated protein RapA	A0A1B1IUI1	uncultured_Mediterranean_phage	6.5e-18	37.0
WP_005702011.1\|1837085_1837745_+\|tRNA	bifunctional tRNA pseudouridine(32) synthase/23S rRNA pseudouridine(746) synthase RluA	NA	NA	NA	NA
WP_005702010.1\|1837936_1838434_+	type VI secretion system contractile sheath small subunit	NA	NA	NA	NA
WP_005702008.1\|1838455_1839940_+	type VI secretion system contractile sheath large subunit	NA	NA	NA	NA
WP_005702007.1\|1839949_1840366_+\|plate	type VI secretion system baseplate subunit TssE	NA	NA	NA	NA
WP_005702004.1\|1840366_1842118_+\|plate	type VI secretion system baseplate subunit TssF	NA	NA	NA	NA
WP_005702002.1\|1842081_1843080_+\|plate	type VI secretion system baseplate subunit TssG	NA	NA	NA	NA
WP_005702001.1\|1843081_1843867_+	hypothetical protein	NA	NA	NA	NA
WP_005702000.1\|1843881_1844568_+	type VI secretion system lipoprotein TssJ	NA	NA	NA	NA
WP_005701999.1\|1844571_1845915_+\|plate	type VI secretion system baseplate subunit TssK	NA	NA	NA	NA
WP_012771847.1\|1845911_1846769_+	DotU family type IV/VI secretion system protein	NA	NA	NA	NA
WP_005701996.1\|1846794_1847421_+	type VI secretion protein	NA	NA	NA	NA
WP_005701995.1\|1847422_1848850_+	type VI secretion system domain-containing protein	NA	NA	NA	NA
WP_005701994.1\|1848846_1852530_+	type VI secretion system membrane subunit TssM	NA	NA	NA	NA
WP_005701993.1\|1853019_1856250_+\|protease	autotransporter serine protease	NA	NA	NA	NA
1857387:1857406	attR	NA	NA	NA	NA

DBSCAN-SWA_3

2261685 : 2271720

Escherichia_phage(16.67%)

tRNA,integrase

attL 2259082:2259096|attR 2265561:2265575

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
2259082:2259096	attL	NA	NA	NA	NA
WP_005701717.1\|2261685_2262927_-\|integrase	integrase arm-type DNA-binding domain-containing protein	A0A1B5FPC6	Escherichia_phage	9.8e-72	38.6
WP_012771980.1\|2263325_2265197_-	RNA polymerase sigma factor RpoD	A0A2I7SAT0	Vibrio_phage	1.0e-35	33.5
WP_012771981.1\|2265249_2267046_-	DNA primase	A0A1S5RF71	Helicobacter_phage	2.1e-43	31.6
2265561:2265575	attR	NA	NA	NA	NA
WP_005701713.1\|2267168_2267384_-	30S ribosomal protein S21	NA	NA	NA	NA
WP_005701711.1\|2267608_2268637_+\|tRNA	tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex transferase subunit TsaD	A0A0R6PI74	Moraxella_phage	4.7e-112	58.5
WP_012771983.1\|2268708_2268942_+	hypothetical protein	NA	NA	NA	NA
WP_005701708.1\|2268941_2269520_+	thymidine kinase	A0A076YPF1	Citrobacter_phage	2.4e-52	51.6
WP_005701707.1\|2269704_2271720_-	NAD-dependent DNA ligase LigA	A0A289ZTZ3	Serratia_phage	3.3e-141	49.1

Anti-CRISPR protein detection

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