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_006663	Staphylococcus epidermidis RP62A plasmid pSERP, complete sequence	0 crisprs	NA	0	0	1	0
NC_002976	Staphylococcus epidermidis RP62A, complete sequence	2 crisprs	csa3,cas3,DEDDh,DinG,WYL,cas6,csm6,csm5gr7,csm4gr5,csm3gr7,csm2gr11,cas10,cas2,cas1	0	5	7	0

Results visualization

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CRISPR-Cas detection and classification

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

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

5041 : 14505

Streptococcus_phage(62.5%)

transposase

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_000690637.1\|5041_5620_+	recombinase family protein	A0A0A7NPV4	Enterobacteria_phage	4.9e-42	51.7
WP_001105991.1\|6360_7035_+\|transposase	IS6-like element IS257 family transposase	A0A0N9SKD3	Staphylococcus_phage	6.8e-128	99.6
WP_001096887.1\|7687_8482_-	aminoglycoside O-phosphotransferase APH(3')-IIIa	E4ZFP6	Streptococcus_phage	2.3e-154	100.0
WP_000627290.1\|8574_9117_-	streptothricin N-acetyltransferase Sat4	A0A1B0RXL7	Streptococcus_phage	8.9e-94	100.0
WP_001255866.1\|9113_10022_-	aminoglycoside nucleotidyltransferase ANT(6)-Ia	E4ZFP8	Streptococcus_phage	2.8e-177	100.0
WP_000662263.1\|10054_10789_-	class I SAM-dependent methyltransferase	A0A1X9I6N4	Streptococcus_phage	1.5e-141	100.0
WP_000228166.1\|10769_11639_-	nucleotidyltransferase domain-containing protein	A0A1X9I6C9	Streptococcus_phage	4.3e-159	95.8
WP_000084169.1\|11741_11948_-	single-stranded DNA-binding protein	NA	NA	NA	NA
WP_001070743.1\|12008_12659_-	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_001086633.1\|12668_13799_-	ABC transporter permease	NA	NA	NA	NA
WP_000573642.1\|13800_14505_-	ABC transporter ATP-binding protein	W6JKT0	Anomala_cuprea_entomopoxvirus	1.3e-25	35.0

Anti-CRISPR protein detection

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

2. NC_002976

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CRISPR-Cas detection and classification

Crispr_ID: NC_002976_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_002976_1

1993515-1993597

Orphan

Consensus_repeat	Method
ATCATAGATAGTTTTGCTTCTGTTT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_002976_1

>merge|NC_002976|1|1993515-1993597|CRISPRCasFinder
ATCATAGATAGTTTTGCTTCTGTTTACATTTTTCAAAAATGCATAAGAGCCACTAACAATCATAGATTGTTTTGCTTCTGTTT

>NC_002976|1|1|1993515-1993597|CRISPRCasFinder
ATCATAGATAGTTTTGCTTCTGTTT	ACATTTTTCAAAAATGCATAAGAGCCACTAACA
ATCATAGATTGTTTTGCTTCTGTTT

Protein	Signature genes	Signature genes Name	Protein_function
NC_002976.3\|WP_002438321.1\|2001176_2001854_-\|respiratory-nitrate-reductase-subunit-gamma	unknown	unknown	gnl\|CDD\|376889
NC_002976.3\|WP_001831592.1\|2000704_2001157_-\|GAF-domain-containing-protein	unknown	unknown	gnl\|CDD\|379056
NC_002976.3\|WP_002438338.1\|1993043_1993394_+\|DUF4889-domain-containing-protein	unknown	unknown	gnl\|CDD\|374445
NC_002976.3\|WP_001831482.1\|1995121_1995487_-\|DUF3139-domain-containing-protein	unknown	unknown	gnl\|CDD\|371476
NC_002976.3\|WP_010959271.1\|1999660_2000695_-\|sensor-histidine-kinase	unknown	unknown	gnl\|CDD\|226951
NC_002976.3\|WP_002438357.1\|1981470_1982463_+\|acryloyl-CoA-reductase	unknown	unknown	gnl\|CDD\|176249
NC_002976.3\|WP_002438326.1\|1998975_1999632_-\|response-regulator-transcription-factor	unknown	unknown	gnl\|CDD\|225107
NC_002976.3\|WP_002456060.1\|1993676_1994957_-\|cation:dicarboxylase-symporter-family-transporter	unknown	unknown	gnl\|CDD\|183075
NC_002976.3\|WP_002474432.1\|1982519_1982921_-\|GNAT-family-N-acetyltransferase	unknown	unknown	gnl\|CDD\|379228
NC_002976.3\|WP_002438349.1\|1986077_1987025_+\|magnesium-transporter-CorA-family-protein	unknown	unknown	gnl\|CDD\|213361
NC_002976.3\|WP_002456063.1\|1987114_1988560_-\|PTS-sucrose-transporter-subunit-IIBC	unknown	unknown	gnl\|CDD\|131051
NC_002976.3\|WP_002456062.1\|1992430_1992853_+\|pyridoxamine-5'-phosphate-oxidase-family-protein	unknown	unknown	gnl\|CDD\|226389
NC_002976.3\|WP_107511365.1\|1983619_1983919_-\|transporter	unknown	unknown	gnl\|CDD\|260082
NC_002976.3\|WP_002438342.1\|1990252_1992358_+\|AraC-family-transcriptional-regulator-Rsp	unknown	unknown	gnl\|CDD\|197666
NC_002976.3\|WP_010959272.1\|2001846_2002437_-\|nitrate-reductase-molybdenum-cofactor-assembly-chaperone	unknown	unknown	gnl\|CDD\|225091
NC_002976.3\|WP_002438328.1\|1997555_1998719_-\|NarK/NasA-family-nitrate-transporter	unknown	unknown	gnl\|CDD\|225133
NC_002976.3\|WP_001831504.1\|1982989_1983406_-\|DUF2871-domain-containing-protein	unknown	unknown	gnl\|CDD\|378551
NC_002976.3\|WP_002438333.1\|1995610_1996240_-\|nitroreductase-family-protein	unknown	unknown	gnl\|CDD\|380314
NC_002976.3\|WP_001831516.1\|1988713_1989091_+\|YbgA-family-protein	unknown	unknown	gnl\|CDD\|377982
NC_002976.3\|WP_002438330.1\|1996403_1996850_+\|MarR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|197670

Protein	Function_ID	Function_description	E-value
NC_002976.3\|WP_002438321.1\|2001176_2001854_-\|respiratory-nitrate-reductase-subunit-gamma	gnl\|CDD\|376889	pfam02665, Nitrate_red_gam, Nitrate reductase gamma subunit. This family is the gamma subunit of the nitrate reductase enzyme, the gamma subunit is a b-type cytochrome that receives electrons from the quinone pool. It then transfers these via the iron-sulfur clusters of the beta subunit to the molybdenum cofactor found in the alpha subunit. The nitrate reductase enzyme, EC:1.7.99.4 catalyzes the conversion of nitrite to nitrate via the reduction of an acceptor. The nitrate reductase enzyme is composed of three subunits. Nitrate is the most widely used alternative electron acceptor after oxygen.	7.03174e-110
NC_002976.3\|WP_001831592.1\|2000704_2001157_-\|GAF-domain-containing-protein	gnl\|CDD\|379056	pfam13185, GAF_2, GAF domain.	2.00355e-05
NC_002976.3\|WP_002438338.1\|1993043_1993394_+\|DUF4889-domain-containing-protein	gnl\|CDD\|374445	pfam16230, DUF4889, Domain of unknown function (DUF4889). This family consists of uncharacterized proteins around 110 residues in length and is mainly found in various Staphylococcus aureus species. The function of this family is unknown.	6.96685e-27
NC_002976.3\|WP_001831482.1\|1995121_1995487_-\|DUF3139-domain-containing-protein	gnl\|CDD\|371476	pfam11337, DUF3139, Protein of unknown function (DUF3139). This family of proteins with unknown function appears to be restricted to Firmicutes.	9.91056e-13
NC_002976.3\|WP_010959271.1\|1999660_2000695_-\|sensor-histidine-kinase	gnl\|CDD\|226951	COG4585, COG4585, Signal transduction histidine kinase [Signal transduction mechanisms].	3.50839e-57
NC_002976.3\|WP_002438357.1\|1981470_1982463_+\|acryloyl-CoA-reductase	gnl\|CDD\|176249	cd08289, MDR_yhfp_like, Yhfp putative quinone oxidoreductases. yhfp putative quinone oxidoreductases (QOR). QOR catalyzes the conversion of a quinone + NAD(P)H to a hydroquinone + NAD(P)+. Quinones are cyclic diones derived from aromatic compounds. Membrane bound QOR actin the respiratory chains of bacteria and mitochondria, while soluble QOR acts to protect from toxic quinones (e.g. DT-diaphorase) or as a soluble eye-lens protein in some vertebrates (e.g. zeta-crystalin). QOR reduces quinones through a semi-quinone intermediate via a NAD(P)H-dependent single electron transfer. QOR is a member of the medium chain dehydrogenase/reductase family, but lacks the zinc-binding sites of the prototypical alcohol dehydrogenases of this group. NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes, or ketones. Alcohol dehydrogenase in the liver converts ethanol and NAD+ to acetaldehyde and NADH, while in yeast and some other microorganisms ADH catalyzes the conversion acetaldehyde to ethanol in alcoholic fermentation. ADH is a member of the medium chain alcohol dehydrogenase family (MDR), which has a NAD(P)(H)-binding domain in a Rossmann fold of a beta-alpha form. The NAD(H)-binding region is comprised of 2 structurally similar halves, each of which contacts a mononucleotide. A GxGxxG motif after the first mononucleotide contact half allows the close contact of the coenzyme with the ADH backbone. The N-terminal catalytic domain has a distant homology to GroES. These proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and have 2 tightly bound zinc atoms per subunit, a catalytic zinc at the active site, and a structural zinc in a lobe of the catalytic domain. NAD(H) binding occurs in the cleft between the catalytic and coenzyme-binding domains at the active site, and coenzyme binding induces a conformational closing of this cleft. Coenzyme binding typically precedes and contributes to substrate binding. In human ADH catalysis, the zinc ion helps coordinate the alcohol, followed by deprotonation of a histidine, the ribose of NAD, a serine, then the alcohol, which allows the transfer of a hydride to NAD+, creating NADH and a zinc-bound aldehyde or ketone. In yeast and some bacteria, the active site zinc binds an aldehyde, polarizing it, and leading to the reverse reaction.	0
NC_002976.3\|WP_002438326.1\|1998975_1999632_-\|response-regulator-transcription-factor	gnl\|CDD\|225107	COG2197, CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription].	5.04431e-76
NC_002976.3\|WP_002456060.1\|1993676_1994957_-\|cation:dicarboxylase-symporter-family-transporter	gnl\|CDD\|183075	PRK11283, gltP, glutamate/aspartate:proton symporter; Provisional.	3.75555e-163
NC_002976.3\|WP_002474432.1\|1982519_1982921_-\|GNAT-family-N-acetyltransferase	gnl\|CDD\|379228	pfam13508, Acetyltransf_7, Acetyltransferase (GNAT) domain. This domain catalyzes N-acetyltransferase reactions.	7.22346e-08
NC_002976.3\|WP_002438349.1\|1986077_1987025_+\|magnesium-transporter-CorA-family-protein	gnl\|CDD\|213361	cd12827, EcCorA_ZntB-like_u2, uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family. A uncharacterized subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB (EcCorA-ZntB_like) family of the MIT superfamily of essential membrane proteins involved in transporting divalent cations (uptake or efflux) across membranes.The EcCorA-ZntB-like family includes the Mg2+ transporters Escherichia coli and Salmonella typhimurium CorAs, which can also transport Co2+, and Ni2+. Structures of the intracellular domain of EcCorA-ZntB-like family members, Vibrio parahaemolyticus and Salmonella typhimurium ZntB, form funnel-shaped homopentamers, the tip of the funnel is formed from two C-terminal transmembrane (TM) helices from each monomer, and the large opening of the funnel from the N-terminal cytoplasmic domains. The GMN signature motif of the MIT superfamily occurs just after TM1, mutation within this motif is known to abolish Mg2+ transport through Salmonella typhimurium CorA. Natural variants such as GVN and GIN, such as occur in some ZntB family proteins, may be associated with the transport of different divalent cations, such as zinc and cadmium. The functional diversity of MIT transporters may also be due to minor structural differences regulating gating, substrate selection, and transport.	1.20836e-108
NC_002976.3\|WP_002456063.1\|1987114_1988560_-\|PTS-sucrose-transporter-subunit-IIBC	gnl\|CDD\|131051	TIGR01996, Includes:_Phosphotransferase_enzyme_IIB_component, PTS system, sucrose-specific IIBC component. This model represents the fused enzyme II B and C components of the sucrose-specific PTS sugar transporter system. Sucrose is converted to sucrose-6-phosphate in the process of translocation into the cell. Some of these transporters lack their own IIA domains and instead use the glucose IIA protein (IIAglc or Crr). The exceptions to this rule are Staphylococci, Streptococci, Lactococci, Lactobacilli, etc. which contain their own A domain as a C-terminal fusion. This family is closely related to the trehalose transporting PTS IIBC enzymes and the B and C domains of each are described by subfamily-domain level TIGRFAMs models (TIGR00826 and TIGR00852, respectively).	0
NC_002976.3\|WP_002456062.1\|1992430_1992853_+\|pyridoxamine-5'-phosphate-oxidase-family-protein	gnl\|CDD\|226389	COG3871, COG3871, Uncharacterized stress protein (general stress protein 26) [General function prediction only].	6.16351e-40
NC_002976.3\|WP_107511365.1\|1983619_1983919_-\|transporter	gnl\|CDD\|260082	cd08545, YcnI_like, Reeler-like domain of YcnI and similar proteins. YcnI is a copper-responsive gene of Bacillus subtilis. It is homologous to an uncharacterized protein from Nocardia farcinica, which shares a conserved three-dimensional structure with cohesins and the reeler domain. Some members in this YcnI_like family have C-terminal domains (DUF461) that may bind copper.	3.8519e-12
NC_002976.3\|WP_002438342.1\|1990252_1992358_+\|AraC-family-transcriptional-regulator-Rsp	gnl\|CDD\|197666	smart00342, HTH_ARAC, helix_turn_helix, arabinose operon control protein.	1.26611e-18
NC_002976.3\|WP_010959272.1\|2001846_2002437_-\|nitrate-reductase-molybdenum-cofactor-assembly-chaperone	gnl\|CDD\|225091	COG2180, NarJ, Nitrate reductase delta subunit [Energy production and conversion].	4.33596e-51
NC_002976.3\|WP_002438328.1\|1997555_1998719_-\|NarK/NasA-family-nitrate-transporter	gnl\|CDD\|225133	COG2223, NarK, Nitrate/nitrite transporter [Inorganic ion transport and metabolism].	3.11888e-109
NC_002976.3\|WP_001831504.1\|1982989_1983406_-\|DUF2871-domain-containing-protein	gnl\|CDD\|378551	pfam11070, DUF2871, Protein of unknown function (DUF2871). This family of proteins has no known function.	1.93795e-46
NC_002976.3\|WP_002438333.1\|1995610_1996240_-\|nitroreductase-family-protein	gnl\|CDD\|380314	cd02137, MhqN-like, nitroreductase family protein similar to the NAD(P)H nitroreductase MhqN. A diverse subfamily of the nitroreductase family containing uncharacterized proteins; includes nitroreductases MhqN, YodC, YdgI, DrgA. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles. This process requires NAD(P)H as electron donor in an obligatory two-electron transfer and uses FMN as cofactor. The enzyme is typically a homodimer.	1.05694e-58
NC_002976.3\|WP_001831516.1\|1988713_1989091_+\|YbgA-family-protein	gnl\|CDD\|377982	pfam08349, DUF1722, Protein of unknown function (DUF1722). This domain of unknown function is found in bacteria and archaea and is homologous to the hypothetical protein ybgA from E. coli.	1.02229e-28
NC_002976.3\|WP_002438330.1\|1996403_1996850_+\|MarR-family-transcriptional-regulator	gnl\|CDD\|197670	smart00347, HTH_MARR, helix_turn_helix multiple antibiotic resistance protein.	6.29821e-18

>NC_002976.3|WP_002438338.1|1993043_1993394_+|DUF4889-domain-containing-protein
MKNKKGLGIGLITIMIIVCIVLVIMMFVGGKKESYYGIMKDSTTIDKMINTKNEKIEKNVELPKDANVSVKKEDFVMLFKDEKTGKITKVKKVNHDDVPHGLMSKIHDMGNMKHGM
>NC_002976.3|WP_002456062.1|1992430_1992853_+|pyridoxamine-5'-phosphate-oxidase-family-protein
MNKQQVTKAIEKVLNSSKIGVLSTAHHNKPNSRYMVFYNDDLNLYTKTNINSLKVEEIENNPDAHILLGYNETTNNSFVEIDATIEVVKNQKVIDWLWETQDKTFFNSKEDPELCVLKVIPRSIKLMNDDELDTPATIEL
>NC_002976.3|WP_002438342.1|1990252_1992358_+|AraC-family-transcriptional-regulator-Rsp
MTCFLNIYKEYHSPPERNINRIILMFSLTNDLKITINGETKDLGNHIAIINQSDIYFINSASNLVLLSIPVIYFYSKDNKFFKCYFDRHLLQSSSFVKTIILQAIQHLIKGENQDEQSISKIIQTLLKEAVIRYKKKYIPQIAVNHSVFTEGLTFIHSKVSQSLSLREVAQHCNISESYCSNLFARYLNMNFKDYFTSLKVIDSIKRLLSSEDSINAISEQSGFSSHTNFTNQFKNYLGCSPKQYRTIISKLDSLPSISFSDTDFSQYIDLINQFEFSDHLATETTERDINEFYPQDQTKNSKAFIRFQNFNELFQFVFNEYYNIDFTSLPQAVIFINDITDISTREVNFNLLNRCFEKLFEKNIGLAMRLTSTNEFESIKEIILLFLNSHQDYKMNKKMVKFMLVFETKNMSVNDIHLCHLKIKNKNKAIRYSITVEGLLHQNSSIDRTYDMMKRLNFDYYFIDIENLETKNSLITKRKSYLHSSTHFENYKQFILDSGIPSTKFVYNNLSLKCFKYTNNGTYPLQLSDLVCHLVALMRYGGGVSYQLIEDESPFIALFNRYGSPLPLMHLYKLIEPFLNEPLEIANNFLMSRKDGNYHFLLFNKINDRYLSDSQQRYVFKNTLSTNSLIIIKTLNHEHGAIQNLLPQTKQQFYIERSILDELDKSNQPKTELAIQHDHHLPFQVTLKHDEVKYICFKPS
>NC_002976.3|WP_001831516.1|1988713_1989091_+|YbgA-family-protein
MKERGKIEKLWREEKYRVLFHDQNAYHSIRTLLKSPTTLGEVKEHITHALTITPTKGSVINAFEHMWGYFKKQCTQYEKQHSRELKALYIENQIDYFELLSFLKNLADKYAVEYLQQSTILNITK
>NC_002976.3|WP_002456063.1|1987114_1988560_-|PTS-sucrose-transporter-subunit-IIBC
MSYKKSAEEILKAIGGEENLDAMAHCATRLRLVLNDESKVDEDTLSNMDVVKGTFSTGGQYQIIIGSGTVNKVFNELEKITGKEASTTSEVKDKSSKHMNPFQKFVKMLSDIFVPIIPAIVAGGLLMGLNNIFTAKDLFYDGKSIIDVHSQFSGLADMINIFANAPFTLLPILIGFSAAKRFGGNPYLGAALGMILVHPGLMSAYDFPKALEEGKAIPHWDVFGLHINEVGYQGQVLPMLVATYILATIEKWLRKVIPTVLDNLLTPLLSIFITAFITFLFVGPVTRQLGYWLSDGLTWLYEFGGAIGGLIFGLLYAPIVITGMHHSFIAVETTLIADATKTGGSFIFPIATMSNIAQGGAALAAFFIIKQNKKLKGVASAAGISALLGITEPAMFGVNLKLRYPFIGAVAGSGIGAAYISFFKVKAIALGTAGLPGFISINPTHAGWLHYLIGMLIAFVVSVVVTLVLSRRKTNKTAVES
>NC_002976.3|WP_002438349.1|1986077_1987025_+|magnesium-transporter-CorA-family-protein
MITAYKHALHHPSQIIETEINHSASWINVVEPDREEIEGLMEFYNIPEDFIRDPLDSEESARIEYDEDTGYSLIIIDLPIVNSTNRRVLSFVTIPLGIIIGNGIVMTVCDAENEFLENFAKQEDINLKFHSRFALEILTTIANHYNRNLRLLNKSRIRIERELKNNITNKQLFKLMEVEKSLVYFLAALKGNDTIIKKLFRLPAIKRFEEDEELLEDLVIENNQAIETTELHQRILESITSSYASLLSNDMNNIMKTLTLFTVLLTLPTLVFSFFGMNVPLPIDDHSYVSWIIVVGISLILVAIVSIFLWKKQKL
>NC_002976.3|WP_107511365.1|1983619_1983919_-|transporter
MGPHEFIEFPIVVANPKKEGTFKWNTTQTYDNGDVVKWTGKEDSAHPAPTTTVKKGANPNDTHSDSSQGDSIALWIVAIVAIVISLIALFKQAHPKKFN
>NC_002976.3|WP_001831504.1|1982989_1983406_-|DUF2871-domain-containing-protein
MRRLLYSFLFYMVIGLLSGFYYRELTKAHDFVGDTQLSLVHTHTLILGMFMFLLLLPLEKVFKLSSYYLFNWFFFVYHLGVLITISMMTVKGTFQVIGKKFSPEMFAGFAGIGHTGMLAGLLLLFFLLRQAILTEPKK
>NC_002976.3|WP_002474432.1|1982519_1982921_-|GNAT-family-N-acetyltransferase
MTKIHFEAPSPEDYCNLRANAGMSSKSIEAAIKGLPHACFNVTLYENDMLIGMGRVIGDGGTVFQIVDIAVKDIYQGLGHGMTIMHEIMKYIESVAEEGTYVSLIADYPADQLYEKFGFKSTEPYSKGMYIKY
>NC_002976.3|WP_002438357.1|1981470_1982463_+|acryloyl-CoA-reductase
MVEKFKAFVVDQDDNGIVSNSYKELTKDDLPEGDVLIKVHYSGINYKDALATQDHNKIVKQYPMVPGIDLAGTIEETNAPGFEVGDKVIVTSYDLGVSHYGGFSEYARVKSEWVIELPEDLTLEEAMIYGTAGYTAGLAIEQLEKSGMSIEGKEVLVRGATGGVGTISLLMLNNLGYDVIASTGRDDAEEKLKKLGAKEVIGRLPEDNSKPLEKRTWQAAIDPVGGENLPYIVKRLDNNGSVALIGMTGGNNFETTVFPFILRGASIIGIDSVFTPIKLRKRVWRRLAKDLKPQQLHDIKHVISFDEIPKAIDQVINHNNTGRIVIDFNV
>NC_002976.3|WP_002456060.1|1993676_1994957_-|cation:dicarboxylase-symporter-family-transporter
MALFKKKISLPTQVIIALVLGVIAGLLLYGQDDVANYIKPFGDVFLNLIKMIIIPIVFCSLALSISNLGDSKKVGSYGWKAILYFEIITTIAIGLGLIIGNLFKPGSGLDPDKLPKGDITKYQSSAHSAEQATTYGNHLIDTLVHIVPTNLFESMAKGELLPIIFFAVFFGLGLAAIGEKAEPVKGFLNGTLEAVFWMINKILKLAPIGVFAFICTTVMTFGASALIPLFKLLVVVVFAMVFFVIVVLGIVARMVGISIFSIMKILKSELLLAFSTSSSEAVLPIMMKKMERFGSPKDVTSFVIPIGYSFNLDGSALYQSIAALFVAQMYDIHLSLTEQLVLMATLMIASKGMAGVPGVSIVVLLTTLTSMNITAQGLALIIGIDRLLDMVRTCVNVIGNALSTVVIAKWENVYDKEKGQNYLNSI
>NC_002976.3|WP_001831482.1|1995121_1995487_-|DUF3139-domain-containing-protein
MSKKQVIFRVIIILIISLILAIAFFFGLKAYQGHKNLELIDSYMSDHHLNDKVKKDKTSYSTKKGLYYKEVVFKDEPNVTYVIQPISTSKGIFIEGFDSETKKSIKKAKHSDFDQKYKPSK
>NC_002976.3|WP_002438333.1|1995610_1996240_-|nitroreductase-family-protein
MTRINDFNEVLNSRKSVKVFDENYKIPREEMDEIITKATKAPSSVNMQPWRIAVVESDEMKEKVKESFGFNSRQLTTSSAMLIIFGDLQNYEKAEQIYGDAVEQQLMTEDIKAQLLDWILPYYKNLSREGMKDIVNIDSSLMAMQLMLTAKAHGYDTNPIGGFDKENIADIIGYDSDRYLPVLAIAIGKKAQDAHDSVRLRIDDVREFL
>NC_002976.3|WP_002438330.1|1996403_1996850_+|MarR-family-transcriptional-regulator
MYVENSYLSKQLCFLFYVSSKEIIKKYTDYLKEYGLTYTGYIVLMAIEDDEKLNIKKLGERVFLDSGTLTPLLKKLEKKNYVIRTREEQDERNLQISLTERGKDIQNVLSDISQSVFNEFNITQEETQNLVEDLQNFVTKNFDKTVEK
>NC_002976.3|WP_002438328.1|1997555_1998719_-|NarK/NasA-family-nitrate-transporter
MNMKKGVSQLTLQTLSLVAGFMAWSIISPLMPFISQDVDISPGQISVILAIPVILGSVLRVPFGYLTNIVGAKWVFFWSFIVLLLPIFLLGQAQSPGMLMLSGFFLGIGGAIFSVGVTSVPKYFSKDKVGLANGIYGVGNIGTAVSSFCAPVLAGAIGWQNTVRSYLIILSIFAILMFFLGDKNEPKVKIPLMAQVKDLSKNYKLYYLSLWYFITFGAFVAFGIFLPNFLVDHFSIDKVDAGIRSGIFIALATFLRPVGGVIGDKFNAVQALIIDFVIMIIGALILSLSSHIVLFTIGCLAISICAGIGNGLIFKLAPSYFSKEAGSANGIVSMMGGLGGFFPPLVITFVTSITGSSHLAFFFLAIFGVIALITMIHLNKKEKAIRI
>NC_002976.3|WP_002438326.1|1998975_1999632_-|response-regulator-transcription-factor
MKIVIADDHAVVRTGFSMILNYQEDMEVVATAADGVEAYQKVLEHRPDVLILDLSMPPGESGLIATSKISESFPDTKILILTMFDDEEYLFHVLKSGAKGYILKNSPDEQLILAVRTVYQGETYVDMKLTTSLVNEFVNQSQTDEVSSSSDPFKILSKRELEILPLIAKGYGNKDIAEKLFVSVKTVEAHKTHIMTKLNLKSKPELVEYALKKKLLEF
>NC_002976.3|WP_010959271.1|1999660_2000695_-|sensor-histidine-kinase
MLEQTDLSLEQLLKNYYETTNEKIVFVNRQGKIIAMNDAAKDILTEEDNYNAMTNAICHRCEGYSNEYDVQSCKDCFLETTQLQHSNFQVFMKTKDNEIKPFTAMYQNIDEQRGISAFTLQNVAPQIERQEKMYQQKMLHRSIQAQENERKRISRELHDSVIQDMLNIDVELRLLKYKHRDKVLAETSQRIEGLLSQLIDDIRNMSVELRPSSLDDLGIEAAFKSYFKQFEENYGMHIKYDSNIKGMRFDNEIETVVYRVVQEGVFNALKYAEVNEIEVSTHSDGKQIVAEVVDRGKGFSLDHHPKGSGLGLYGMRERAELVNGHVNIETHINRGTIITLDIPI
>NC_002976.3|WP_001831592.1|2000704_2001157_-|GAF-domain-containing-protein
MEPESLKHNQHLQMNLDKLRAQEGYDFGGIALYDYHHTSSPIKWQYVSGNTNDRYKLIILRKGRGLAGMVMKTGKRMVIADVDTALSPEEKVKFPIILSESLTAVVAVPLWLENSMYGVLLLGQRNHQPLPQSLDQLNIEKQIGIFTEIN
>NC_002976.3|WP_002438321.1|2001176_2001854_-|respiratory-nitrate-reductase-subunit-gamma
MLNQFVWVIYPYLCLAIFVIGHIARYKYDQFSWTAKSSEMIEKKRLKWGSLLFHLGIIPVFFGHVVGLLIPANWLEAIGVNNHIYHIGAVYIGSVFGIITLIGMLLLTLRRLSIKNVRRLSSFSDIFVNIVLLIILIMGCYSTLVTNAIQPEFDYRQTIAIWFRHLFMFSPNADLMLNVPWSFKLHILLGFTVFACWPFTRLVHVWSVPLSYMNRRYIVYRKNKI
>NC_002976.3|WP_010959272.1|2001846_2002437_-|nitrate-reductase-molybdenum-cofactor-assembly-chaperone
MEGSSVINLEQLSLYQDSLGYLGQQMNFPEKMTFHPKIFEETISKSHPGYEDLLAYREVMMNYTLSEIKAIYTDTFDFSKKHPLYMTFNKFDTQKERGQMLAKLKVLYEMFGLKMVDNELSDFLPLMLQFLQVADFKNDSRAQENLQLVIMIIEDGTYEMANTLAENNNPYAYVVSALRKTLKACIVPLKEVENHA

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Crispr_ID: NC_002976_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_002976_2

2517615-2517868

TypeIII

Consensus_repeat	Method
TACTAGTTCTCGTCCCCTTTTCTTCGGGGTGGGTATCGATC	CRT
GTTCTCGTCCCCTTTTCTTCGGGGTGGGTATCGATCC	CRISPRCasFinder
GTTCTCGTCCCCTTTTCTTCGGGGTGGGTATCGATCC	PILER-CR

3 spacers

cas1,cas2,cas10,csm2gr11,csm3gr7,csm4gr5,csm5gr7,csm6,cas6

The CRISPR arrays of NC_002976_2

>merge|NC_002976|2|2517615-2517868|CRT,CRISPRCasFinder,PILER-CR
ATTTACACTCTGCCCCCTTTTCTTCGGGGTGGCTATCGATCAGAGAATCAAGAAAAAATGTTCACGACCGTACTAGTTCTCGTCCCCTTTTCTTCGGGGTGGGTATCGATCATCGATGTAACGTATGCAAATGACAATTATTACTAGTTCTCGTCCCCTTTTCTTCGGGGTGGGTATCGATCCTTTGTACTGATGATTTATATACTTCGGCATACGTGTTCTCGTCCCCTTTTCTTCGGGGTGGGTATCGATCC

>NC_002976|2|1|2517615-2517867|CRT
ATTTACACTCTGCCCCCTTTTCTTCGGGGTGGCTATCGATC	AGAGAATCAAGAAAAAATGTTCACGACCG
TACTAGTTCTCGTCCCCTTTTCTTCGGGGTGGGTATCGATC	ATCGATGTAACGTATGCAAATGACAATTAT
TACTAGTTCTCGTCCCCTTTTCTTCGGGGTGGGTATCGATC	CTTTGTACTGATGATTTATATACTTCGGCA
TACGTGTTCTCGTCCCCTTTTCTTCGGGGTGGGTATCGATC

>NC_002976|2|2|2517620-2517868|CRISPRCasFinder
CACTCTGCCCCCTTTTCTTCGGGGTGGCTATCGATCA	GAGAATCAAGAAAAAATGTTCACGACCGTACTA
GTTCTCGTCCCCTTTTCTTCGGGGTGGGTATCGATCA	TCGATGTAACGTATGCAAATGACAATTATTACTA
GTTCTCGTCCCCTTTTCTTCGGGGTGGGTATCGATCC	TTTGTACTGATGATTTATATACTTCGGCATACGT
GTTCTCGTCCCCTTTTCTTCGGGGTGGGTATCGATCC

>NC_002976|2|1|2517690-2517868|PILER-CR
GTTCTCGTCCCCTTTTCTTCGGGGTGGGTATCGATCA	TCGATGTAACGTATGCAAATGACAATTATTACTA
GTTCTCGTCCCCTTTTCTTCGGGGTGGGTATCGATCC	TTTGTACTGATGATTTATATACTTCGGCATACGT
GTTCTCGTCCCCTTTTCTTCGGGGTGGGTATCGATCC

Protein	Signature genes	Signature genes Name	Protein_function
NC_002976.3\|WP_002489615.1\|2521510_2522638_-\|zinc-dependent-alcohol-dehydrogenase-family-protein	unknown	unknown	gnl\|CDD\|176241
NC_002976.3\|WP_002486045.1\|2514047_2516321_-\|type-III-A-CRISPR-associated-protein-Cas10/Csm1	cas10	cd09680_cas10_CAS-III	gnl\|CDD\|187811
NC_002976.3\|WP_002486040.1\|2516638_2517544_-\|type-II-CRISPR-associated-endonuclease-Cas1	cas1	cd09720_cas1_CAS-II-A:CAS-II-B:CAS-II-C	gnl\|CDD\|274694
NC_002976.3\|WP_002486034.1\|2509761_2511030_-\|type-III-A-CRISPR-associated-protein-Csm6	csm6	cd09699_csm6_CAS-III-A	gnl\|CDD\|131720
NC_002976.3\|WP_002486037.1\|2518525_2518672_-\|SAM-dependent-DNA-methyltransferase	unknown	unknown	gnl\|CDD\|223363
NC_002976.3\|WP_002489613.1\|2520513_2521017_+\|DUF1643-domain-containing-protein	unknown	unknown	gnl\|CDD\|226783
NC_002976.3\|WP_002486039.1\|2507319_2508177_-\|GIY-YIG-nuclease-family-protein	unknown	unknown	gnl\|CDD\|198393
NC_002976.3\|WP_002486018.1\|2512973_2513618_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm3	csm3gr7	cd09684_csm3gr7_CAS-III-A:CAS-III-D	gnl\|CDD\|187815
NC_002976.3\|WP_002469399.1\|2516333_2516639_-\|CRISPR-associated-endonuclease-Cas2	cas2	cd09638_cas2_CAS-I:CAS-II:CAS-III	gnl\|CDD\|273699
NC_002976.3\|WP_002486027.1\|2509030_2509765_-\|CRISPR-associated-endoribonuclease-Cas6	cas6	cd09652_cas6_CAS-I:CAS-III	gnl\|CDD\|273848
NC_002976.3\|WP_002486031.1\|2511029_2512052_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm5	csm5gr7	cd09662_csm5gr7_CAS-III-A	gnl\|CDD\|187793
NC_002976.3\|WP_002486041.1\|2512054_2512963_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm4	csm4gr5	COG1567_csm4gr5_CAS-III-A	gnl\|CDD\|273866
NC_002976.3\|WP_002489618.1\|2523970_2525116_-\|restriction-endonuclease-subunit-S	unknown	unknown	gnl\|CDD\|341163
NC_002976.3\|WP_002489610.1\|2521031_2521253_+\|hypothetical-protein	unknown	unknown	unknown
NC_002976.3\|WP_002486035.1\|2518784_2519564_-\|tandem-type-lipoprotein	unknown	unknown	gnl\|CDD\|367972
NC_002976.3\|WP_002489616.1\|2525108_2526665_-\|type-I-restriction-modification-system-subunit-M	unknown	unknown	gnl\|CDD\|223363
NC_002976.3\|WP_002489609.1\|2526665_2527247_-\|restriction-endonuclease-subunit-S	unknown	unknown	gnl\|CDD\|341135
NC_002976.3\|WP_002486044.1\|2513619_2514045_-\|type-III-A-CRISPR-associated-protein-Csm2	csm2gr11	cd09647_csm2gr11_CAS-III-A	gnl\|CDD\|273844
NC_002976.3\|WP_002489617.1\|2527338_2530131_-\|type-I-restriction-endonuclease-subunit-R	unknown	unknown	gnl\|CDD\|223683
NC_002976.3\|WP_002489607.1\|2523161_2523659_+\|GNAT-family-N-acetyltransferase	unknown	unknown	gnl\|CDD\|237916

Protein	Function_ID	Function_description	E-value
NC_002976.3\|WP_002489615.1\|2521510_2522638_-\|zinc-dependent-alcohol-dehydrogenase-family-protein	gnl\|CDD\|176241	cd08281, liver_ADH_like1, Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase). NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes or ketones. This group contains members identified as zinc dependent alcohol dehydrogenases (ADH), and class III ADG (aka formaldehyde dehydrogenase, FDH). Alcohol dehydrogenase in the liver converts ethanol and NAD+ to acetaldehyde and NADH, while in yeast and some other microorganisms ADH catalyzes the conversion acetaldehyde to ethanol in alcoholic fermentation. NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes or ketones. Alcohol dehydrogenase in the liver converts ethanol and NAD+ to acetaldehyde and NADH, while in yeast and some other microorganisms ADH catalyzes the conversion acetaldehyde to ethanol in alcoholic fermentation. Class III ADH are also know as glutathione-dependent formaldehyde dehydrogenase (FDH), which convert aldehydes to the corresponding carboxylic acid and alcohol. ADH is a member of the medium chain alcohol dehydrogenase family (MDR), which have a NAD(P)(H)-binding domain in a Rossmann fold of a beta-alpha form. The NAD(H)-binding region is comprised of 2 structurally similar halves, each of which contacts a mononucleotide. A GxGxxG motif after the first mononucleotide contact half allows the close contact of the coenzyme with the ADH backbone. The N-terminal catalytic domain has a distant homology to GroES. These proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and have 2 tightly bound zinc atoms per subunit, a catalytic zinc at the active site and a structural zinc in a lobe of the catalytic domain. NAD(H) binding occurs in the cleft between the catalytic and coenzyme-binding domains at the active site, and coenzyme binding induces a conformational closing of this cleft. Coenzyme binding typically precedes and contributes to substrate binding. In human ADH catalysis, the zinc ion helps coordinate the alcohol, followed by deprotonation of a histidine, the ribose of NAD, a serine, then the alcohol, which allows the transfer of a hydride to NAD+, creating NADH and a zinc-bound aldehyde or ketone. In yeast and some bacteria, the active site zinc binds an aldehyde, polarizing it, and leading to the reverse reaction.	0
NC_002976.3\|WP_002486045.1\|2514047_2516321_-\|type-III-A-CRISPR-associated-protein-Cas10/Csm1	gnl\|CDD\|187811	cd09680, Cas10_III, CRISPR/Cas system-associated protein Cas10. 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; Multidomain protein with permuted HD nuclease domain, palm domain and Zn-ribbon; signature gene for type III; also known as Csm1 family.	0
NC_002976.3\|WP_002486040.1\|2516638_2517544_-\|type-II-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274694	TIGR03639, cas1_NMENI, CRISPR-associated endonuclease Cas1, subtype II/NMENI. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is a 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 variant of the NMENI subtype of CRISPR/Cas system.	3.91723e-120
NC_002976.3\|WP_002486034.1\|2509761_2511030_-\|type-III-A-CRISPR-associated-protein-Csm6	gnl\|CDD\|131720	TIGR02672, hypothetical_protein_SERP2456, CRISPR type III-A/MTUBE-associated protein Csm6. Members of this family as found in CRISPR-associated (cas) gene regions in Streptococcus thermophilus CNRZ1066, Staphylococcus epidermidis RP62A, and Mycobacterium tuberculosis (strains CDC1551 and H37Rv), as part of Mtube-type CRISPR/Cas systems. CRISPR is a widespread form of direct repeat found in archaea and bacteria, with distinctive subtypes each of which has a characteristic sporadic distribution.	0
NC_002976.3\|WP_002486037.1\|2518525_2518672_-\|SAM-dependent-DNA-methyltransferase	gnl\|CDD\|223363	COG0286, HsdM, Type I restriction-modification system methyltransferase subunit [Defense mechanisms].	4.00641e-10
NC_002976.3\|WP_002489613.1\|2520513_2521017_+\|DUF1643-domain-containing-protein	gnl\|CDD\|226783	COG4333, COG4333, Uncharacterized protein conserved in bacteria [Function unknown].	9.68731e-78
NC_002976.3\|WP_002486039.1\|2507319_2508177_-\|GIY-YIG-nuclease-family-protein	gnl\|CDD\|198393	cd10446, GIY-YIG_unchar_1, GIY-YIG domain of uncharacterized hypothetical protein found in bacteria. The family includes a group of uncharacterized bacterial hypothetical proteins with a GIY-YIG domain that shows statistically significant similarity to the N-terminal catalytic domains of GIY-YIG family of intron-encoded homing endonuclease I-TevI and catalytic GIY-YIG domain of nucleotide excision repair endonuclease UvrC.	6.65554e-47
NC_002976.3\|WP_002486018.1\|2512973_2513618_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm3	gnl\|CDD\|187815	cd09684, Csm3_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm3. 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; RAMP superfamily protein.	1.00545e-106
NC_002976.3\|WP_002469399.1\|2516333_2516639_-\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|273699	TIGR01573, cas2, CRISPR-associated endonuclease Cas2. This model describes most members of the family of Cas2, one of the first four protein families found to mark prokaryotic genomes that contain multiple CRISPR elements. CRISPR systems protect against invasive nucleic acid sequences, including phage. Cas2 proteins have been characterized as either endoribonuclease (for ssRNA) or endodeoxyribonuclease (for dsDNA), depending on the system to which the Cas2 belongs. CRISPR is an acronym for Clustered Regularly Interspaced Short Palindromic Repeats. The cas genes usually are found near the repeats. A distinct branch of the Cas2 family shows a very low level of sequence identity and is modeled by TIGR01873 instead of by this model (TIGR01573).	9.63007e-26
NC_002976.3\|WP_002486027.1\|2509030_2509765_-\|CRISPR-associated-endoribonuclease-Cas6	gnl\|CDD\|273848	TIGR01877, CRISPR-associated_endoribonuclease_Cas6_1, CRISPR-associated endoribonuclease Cas6. 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 broadly distributed, highly divergent Cas family is now characterized as an endoribonuclease that generates guide RNAs for host defense against phage and other invaders. The family contains a C-terminal motif GXGXXXXXGXG, where the each X between two Gly is hydrophobic and the spacer XXXXX contains (usually) one Arg or Lys. The seed alignment for the current version of this model has gappy columns removed. Members of this protein family are found associated with several different CRISPR/cas system subtypes, and consequently we designate this family Cas6.	1.12627e-17
NC_002976.3\|WP_002486031.1\|2511029_2512052_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm5	gnl\|CDD\|187793	cd09662, Csm5_III-A, CRISPR/Cas system-associated RAMP superfamily protein Csm5. 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; RAMP superfamily protein.	2.51146e-17
NC_002976.3\|WP_002486041.1\|2512054_2512963_-\|type-III-A-CRISPR-associated-RAMP-protein-Csm4	gnl\|CDD\|273866	TIGR01903, Hypothetical_protein., CRISPR type III-A/MTUBE-associated RAMP protein Csm4. 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. Members of this cas gene family are found in the mtube subtype of CRISPR/cas locus and designated Csm4, for CRISPR/cas Subtype Mtube, protein 4.	1.55136e-38
NC_002976.3\|WP_002489618.1\|2523970_2525116_-\|restriction-endonuclease-subunit-S	gnl\|CDD\|341163	cd17274, RMtype1_S_Eco540ANI-TRD1-CR1_like, Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to S.Eco540ANI TRD1-CR1, S.Eco2747AII TRD1-CR1, S.Eco540AI TRD1-CR1, S.Eco2747II TRD1-CR1, and S.Eco540I TRD1-CR1. Escherichia coli ST540AN S subunit (S.Eco540ANI ), Escherichia coli ST540A S subunit (S.Eco540AI), and Escherichia coli ST540 S subunit (S.Eco540I) recognize 5'... GAANNNNNNRTCG ... 3'. Escherichia coli ST2747A S subunit (S.Eco2747AII) and Escherichia coli ST2747 S subunit (S.Eco2747II) recognize 5'... GAANNNNNNNTAAA ... 3'. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. It may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases.	4.67024e-27
NC_002976.3\|WP_002486035.1\|2518784_2519564_-\|tandem-type-lipoprotein	gnl\|CDD\|367972	pfam04507, DUF576, Csa1 family. This family contains several uncharacterized staphylococcal proteins. These proteins have been called conserved staphylococcal antigens (Csa).	1.21414e-128
NC_002976.3\|WP_002489616.1\|2525108_2526665_-\|type-I-restriction-modification-system-subunit-M	gnl\|CDD\|223363	COG0286, HsdM, Type I restriction-modification system methyltransferase subunit [Defense mechanisms].	1.23793e-147
NC_002976.3\|WP_002489609.1\|2526665_2527247_-\|restriction-endonuclease-subunit-S	gnl\|CDD\|341135	cd17246, RMtype1_S_SonII-TRD2-CR2_like, Type I restriction-modification system specificity (S) subunit Target Recognition Domain-ConseRved domain (TRD-CR), similar to Shewanella oneidensis MR-1 S subunit (S.SonII) TRD2-CR2. This model contains Shewanella oneidensis MR-1 S subunit (S.SonII) TRD2-CR2 and similar TRD-CR's. S.SonII recognizes 5'... GTCANNNNNNRTCA ... 3'. The restriction-modification (RM) system S subunit consists of two variable target recognition domains (TRD1 and 2) and two conserved regions (CR1 and CR2) which separate the TRDs. The TRDs each bind to different specific sequences in the DNA. RM systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The host genome is protected from cleavage by methylation of specific nucleotides in the target sites. In type I systems, both restriction and modification activities are present in one enzyme complex composed of one DNA specificity (S) subunit (this family), two modification (M) subunits and two restriction (R) subunits. This model contains both TRD1-CR1 and TRD2-CR2. It may also include TRD-CR-like sequence-recognition domains of various type II restriction enzymes and methyltransferases and type I DNA methyltransferases. S.SonII TRD1-CR1 does not belong to this subfamily.	1.15365e-10
NC_002976.3\|WP_002486044.1\|2513619_2514045_-\|type-III-A-CRISPR-associated-protein-Csm2	gnl\|CDD\|273844	TIGR01870, CRISPR_type_III-associated_protein_Csm2, CRISPR type III-A/MTUBE-associated protein Csm2. These proteins are found adjacent to a characteristic short, palidromic repeat cluster termed CRISPR, a probable mobile DNA element. This model represents the C-terminal domain of a minor family of CRISPR-associated protein from the Mtube subtype of CRISPR/Cas locus. The family is designated Csm2, for CRISPR/Cas Subtype Mtube Protein 2.	3.5042e-21
NC_002976.3\|WP_002489617.1\|2527338_2530131_-\|type-I-restriction-endonuclease-subunit-R	gnl\|CDD\|223683	COG0610, COG0610, Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms].	3.84226e-179
NC_002976.3\|WP_002489607.1\|2523161_2523659_+\|GNAT-family-N-acetyltransferase	gnl\|CDD\|237916	PRK15130, PRK15130, spermidine N1-acetyltransferase; Provisional.	8.24348e-63

>NC_002976.3|WP_002486040.1|2516638_2517544_-|type-II-CRISPR-associated-endonuclease-Cas1
MKDVIYVENHYFVTAKENSIKFRNVIDKSEKFYLFEEIEAIIFDHYKSYFSHKLVIKCIENDIAIIFCDKKHSPVTQLISSYGMVNRLKRIQSQFQLSGRTKDRIWKKIVINKIFNQTRCLENNLHNENVKLMLGFAKEVSSGDKSNKEAHATRIYFKDLFGKQFKRGRYNDVINSGLNYGYSILRSFINKELAIHGFEMSLGIKHQSKENPFNLADDIIEVFRPFVDNIVYEIVFKKNIDTFDINEKKLLLNVLYERCIIDKKVVRLLDSVKIVIQSLIRCYEENTPTYLLLPKMIEVGN
>NC_002976.3|WP_002469399.1|2516333_2516639_-|CRISPR-associated-endonuclease-Cas2
MYLLVSFDLPRDTKLERRIASKYRLRLIELGFSMKQFSLYERYVSNVQKKDKILEILKQEIPDTGSITLYILPDEVNSNQITILGKEVKLAVNKEPKLIFI
>NC_002976.3|WP_002486045.1|2514047_2516321_-|type-III-A-CRISPR-associated-protein-Cas10/Csm1
MNKKNILMYGSLLHDIGKIIYRSGDHTFSRGTHSKLGHQFLSQFSEFKDNEVLDNVAYHHYKELAKANLDNDNTAYITYIADNIASGIDRRDIIEEGDEEYEKQLFNFDKYTPLYSVFNIVNSEKLKQTNGKFKFSNESNIEYPKTENIQYSSGNYTTLMKDMSHDLEHKLSIKEGTFPSLLQWTESLWQYVPSSTNKNQLIDISLYDHSRITCAIASCIFDYLNENNIHNYKDELFSKYENTKSFYQKEAFLLLSMDMSGIQDFIYNISGSKALKSLRSRSFYLELMLEVIVDQLLERLELARANLLYTGGGHAYLLVSNTDKVKKKITQFNNELKKWFMSEFTTDLSLSMAFEKCSGDDLMNTSGNYRTIWRNVSSKLSDIKAHKYSAEDILKLNHFHSYGDRECKECLRSDIDINDDGLCSICEGIINISNDLRDKSFFVLSETGKLKMPFNKFISVIDYEEAEMLVQNNNQVRIYSKNKPYIGIGISTNLWMCDYDYASQNQDMREKGIGSYVDREEGVKRLGVVRADIDNLGATFISGIPEKYNSISRTATLSRQLSLFFKYELNHLLENYQITAIYSGGDDLFLIGAWDDIIEASIYINDKFKEFTLDKLTLSAGVGMFSGKYPVSKMAFETGRLEEAAKTGEKNQISLWLQEKVYNWDEFKKNILEEKLLVLQQGFSQTDEHGKAFIYKMLALLRNNEAINIARLAYLLARSKMNEDFTSKIFNWAQNDKDKNQLITALEYYIYQIREAD
>NC_002976.3|WP_002486044.1|2513619_2514045_-|type-III-A-CRISPR-associated-protein-Csm2
MILAKTKSGKTIDLTFAHEVVKSNVKNVKDRKGKEKQVLFNGLTTSKLRNLMEQVNRLYTIAFNSNEDQLNEEFIDELEYLKIKFYYEAGREKSVDEFLKKTLMFPIIDRVIKKESKKFFLDYCKYFEALVAYAKYYQKED
>NC_002976.3|WP_002486018.1|2512973_2513618_-|type-III-A-CRISPR-associated-RAMP-protein-Csm3
MYSKIKISGTIEVVTGLHIGGGGESSMIGAIDSPVVRDLQTKLPIIPGSSIKGKMRNLLAKHFGLKMKQESHNQDDERVLRLFGSSEKGNIQRARLQISDAFFSEKTKEHFAQNDIAYTETKFENTINRLTAVANPRQIERVTRGSEFDFVFIYNVDEESQVEDDFENIEKAIHLLENDYLGGGGTRGNGRIQFKDTNIETVVGEYDSTNLKIK
>NC_002976.3|WP_002486041.1|2512054_2512963_-|type-III-A-CRISPR-associated-RAMP-protein-Csm4
MATKVFKLSFKTPVHFGKKRLSDGEMTITADTLFSALFIETLQLGKDTDWLLNDLIISDTFPYENELYYLPKPLIKIDSKEEDNHKAFKKLKYVPVHHYNQYLNGELSAEDATDLNDIFNIGYFSLQTKVSLIAQETDSSADSEPYSVGTFTFEPEAGLYFIAKGSEETLDHLNNIMTALQYSGLGGKRNAGYGQFEYEIINNQQLSKLLNQNGKHSILLSTAMAKKEEIESALKEARYILTKRSGFVQSTNYSEMLVKKSDFYSFSSGSVFKNIFNGDIFNVGHNGKHPVYRYAKPLWLEV
>NC_002976.3|WP_002486031.1|2511029_2512052_-|type-III-A-CRISPR-associated-RAMP-protein-Csm5
MTIKNYEVVIKTLGPIHIGSGQVMKKQDYIYDFYNSKVYMINGNKLVKFLKRKNLLYTYQNFLRYPPKNPRENGLKDYLDAQNVKQSEWEAFVSYSEKVNQGKKYGNTRPKPLNDLHLMVRDGQNKVYLPGSSIKGAIKTTLVSKYNNEKNKDIYSKIKVSDSKPIDESNLAIYQKIDINKSEKSMPLYRECIDVNTEIKFKLTIEDEIYSINEIEQSIQDFYKNYYDKWLVGFKETKGGRRFALEGGIPDVLNQNILFLGAGTGFVSKTTHYQLKNRKQAKQDSFEILTKKFRGTYGKMKEIPSNVPVALKGTTNQSRHTSYQQGMCKVSFQELNNEVL
>NC_002976.3|WP_002486034.1|2509761_2511030_-|type-III-A-CRISPR-associated-protein-Csm6
MKILFSPIGNSDPWRNDRDGAMLHIVRHYNLDKVVLYFTRTIWEGNENRKGHKIYEWEKIIQTVSPNTEVEIIIENVDNAQDYDVFKEKFHKYLKIIEDSYEDCEIILNVTSGTPQMESTLCLEYIVYPENKKCVQVSTPTKDSNAGIEYSNPKDKVEEFEIVNEVEKKSEKRCKEINILSFREAMIRSQILGLIDNYDYEGALNLVSNQKSFRNGKLLRKKLLSLTKQIKTHEVFPEINEKYRDDALKKSLFHYLLLNMRYNRLDVAETLIRVKSIAEFILKTYIEIHWPTLIIEKDGKPYLNDEDNLSFVYKYNLLLEKRKQNFDVSRILGLPAFIDILTILEPNSQLLKEVNAVNDINGLRNSIAHNLDTLNLDKNKNYKKIMLSVEAIKNMLHISFPEIEEEDYNYFEEKNKEFKELL
>NC_002976.3|WP_002486027.1|2509030_2509765_-|CRISPR-associated-endoribonuclease-Cas6
MINKITVELDLPESIRFQYLGSVLHGVLMDYLSDDIADQLHHEFAYSPLKQRIYHKNKKIIWEIVCMSDNLFKEVVKLFSSKNSLLLKYYQTNIDIQSFQIEKINVQNMMNQLLQVEDLSRYVRLNIQTPMSFKYQNSYMIFPDVKRFFRSIMIQFDAFFEEYRMYDKETLNFLEKNVNIVDYKLKSTRFNLEKVKIPSFTGEIVFKIKGPLPFLQLTHFLLKFGEFSGSGIKTSLGMGKYSII
>NC_002976.3|WP_002486039.1|2507319_2508177_-|GIY-YIG-nuclease-family-protein
MIELNKFIKVPDLNKTKIKFNMNAGNAEIKAWDLLFKEDETEWEQINAWKTKHPNNNLNHADYLLAFAQYYPYGPEYFIFGGLYKIKKIEPEVFDEVGYELTLMDDYKEYRKRLIVKLKKPIGRDLYNRLYKNIQDTLEPEVYEIAPNTKLGHFPGYQNVTLSHPQMQQIISRNEPSWKQALMNVKGVYVITDLSNGKLYIGSASGNTDGIWQRWSDYANIENLTGGNKLLNEIKLDKGKDYIINNFQYSILEIFDTKTKANTIINRENYWKNVFCTRKHGMNFN
>NC_002976.3|WP_002486037.1|2518525_2518672_-|SAM-dependent-DNA-methyltransferase
MATIGFEEKLWQADDKLRGNMDADEYKNIALGLIFLKYISDCFEEKYE
>NC_002976.3|WP_002486035.1|2518784_2519564_-|tandem-type-lipoprotein
MKHSKKLLLCISFLLITFFISGCGFMNKDDSKETEIKKSFNKTLSMYPIKNLEDLYDKEGYRDEEFDKDDKGTWLLHSEMAIQRKGEDLETRGMVLKINRNTQTSKGDYITNKITYDNKGRPQSNKKKYPVKMENNKIIPIKKIEDSKINREINEFKFFAQYANFKELKDYKNGNISYNPNVPSYSAEYDLENTDYNVKQLRERYDIPTKQAPKLLLKGTGDLKGSSIGTKDVEFTFVKGKQENIYFSDSMNFMPSEDD
>NC_002976.3|WP_002489613.1|2520513_2521017_+|DUF1643-domain-containing-protein
MNTIKSTTHTEAIFSDDEQHRYLLKKTWNEKKPACTVITMYPHLDGVLSLDLTTVLILNQLANSEQYGAVYLVNLFSNIKTPENLKHIKEPYDEHTDIHLMKAISESDTVILAYGAYAKRPVVIERVEQVLEMLKPHKKKVKKLINPATNEIMHPLNPKARQKWTLK
>NC_002976.3|WP_002489610.1|2521031_2521253_+|hypothetical-protein
MNHDTTQSDWRTVTSCLASQNYISILKGLVHHFTAIDDEEILDKIYDDFMNNDSITTVLNNDLQMIINPYLSK
>NC_002976.3|WP_002489615.1|2521510_2522638_-|zinc-dependent-alcohol-dehydrogenase-family-protein
MKTRAAVLYEMGAKKPYKESKPLKIEYLELDNPSEHEVLIKIHAAGLCHSDLSVINGNRPRPLPMALGHEASGEVIKVGKAVTRVSEGDHVVCTFIPSCGKCIPCKEGRPALCENGAISNEKGEMLEGGMRLSNDEGKVYHHLGISGFAEYSVVSENSIVKIDKKIPFERAAAFGCAIITGIGAVVNTAQIRSGSNVAVVGLGGIGLNAIIGAKLAGANEIIALDINEDKFELAKQFGATATFNSSDKDIDEQIKEYIPGGVEYAFETAGVVPAMKVAYQITKRGGTTVTTGLPNPKDNFSFPQVTLAAEERTIKGSYVGSCVPDRDIPRFVNLYNQGRLNIDSLISEVITLDEINEGFDRLSNGEVGRIIMKMH
>NC_002976.3|WP_002489607.1|2523161_2523659_+|GNAT-family-N-acetyltransferase
MKLRALEYSDLLFVHELNNEYSIMSYWFEEPYESLTELQHLFDKHLLDESERRFIVEDENQVVGIVELVEINYIHRNCEIQIIIKPEFSGKGYAKFAFEKAIIYAFNILNMHKIYLYVDADNKKAIHIYESQGFKTEGLLKEQFYTEGKYKDAYFMSLLKSEYIL
>NC_002976.3|WP_002489618.1|2523970_2525116_-|restriction-endonuclease-subunit-S
MTEHTNTPELRFPEFREEWNIEQVSDFLIESKIVGHKGNQAKKLTVKLWGKGIVEKESIFKGSSNTQYYIRKAGQLMYGKLDFLNCAFGLVPTELNNFESTIDSPSFDFIKGDKKFLLERIKMKSFYKKYGDLANGSRKAKRINQNTFLSMPLYAPTINEQKKIGDFFSKLDRQIELEEKKLELLEQQKRGYMQKIFSQQLRFKDEKGNDYPKWIFKKFEEIFKVVPSKKYQIKSSEIEDNASIPVIDQGQNLILGFSNNKEKVFNDFKNVIIYGDHTTVIKRSDKPFIIGGDGVKLLTSKVDSDISYLYNALQYFNVKSEGYKRHFSILKNKDFYISTSIEEQKRIANIFNKLDKYIEKQFAKVELLKQRKQGLLQKMFV
>NC_002976.3|WP_002489616.1|2525108_2526665_-|type-I-restriction-modification-system-subunit-M
MSTTEKQRQQQAELQKKLWSIANDLRGNMDASEFRNYILGLIFYRFLSEKTEEEVAELLKEDNISYAEAWEDEAYREALQQELINLIGFVIEPQDLFSHLIQKIETQTFEIEDLHKAINKIEESTRGEDSEEDFDHLFADMDLNSTRLGNTNAARTKLISKVMVNLATLPFVHSDIEIDMLGDAYEYLIGQFAANAGKKAGEFYTPQQVSKILAKIVTTNKPNLKNVYDPTCGSGSLLLRVGREADVRFYYGQEYNNTTFNLARMNMLLHDVNYTRFKIDNDDTLENPAFRGEKFDAVVANPPYSAKWSADPSFLDDERFSGYGKLAPKSKADFAFIQHMIHYLDDNGTMAVVLPHGVLFRGAAEGTIRKYLIEEKNHLDAVIGLPANLFFGTSIPTSILVFKKCREDSDNVLFIDASQSFEKGKNQNLLTDEDVDKIVETYRNRETIDKFSYVVSLDEIIENDYNLNIPRYVDTFEEEEPIDLDQVQQQLSDIDKEIANVESEINDYLKELGVLKHD
>NC_002976.3|WP_002489609.1|2526665_2527247_-|restriction-endonuclease-subunit-S
MSQISQLFTFHNGSLINRLETVEASQGITLPIYDQRMMEFDDGVFQPSTHQPKNVTLSTTHQAKMVHTGDIVINMMTSECVIVSQQHHESILPYNYTHIEIDTTHIDANYFVYWMNASAQAKSQLNQFKQGGSLVKKLTLNQLKQLKMTLPSLEQQQRIGKLDERRRHLKYLQAKRTYLMDQFLSEYLFKEKI
>NC_002976.3|WP_002489617.1|2527338_2530131_-|type-I-restriction-endonuclease-subunit-R
MVYQSEYALENEVLQQLENLGYERVNIHNVEQLHDNFRTIINERHKEKLNGKPLTDREFERLMTGINGKSVFDSAMQLRDSYVLKRDDDTDLYLNFMNLKQWCQNKFQVTNQISVKDKYKSRYDVTILINGLPLVQIELKRSGVAITEAFNQIERYRRQNYTGLFRYIQLFVVSNKMETRYYANSDREIFKGQMFYWSNEQNERINYLKDFIEDFLESCHISKMISRYMVVNETDKFLMALRPYQVYAVEAILNRALETNNNGYIWHTTGSGKTLTSFKASQLLSQEENIKKVIFLVDRKDLDNQTLAEFNKFQEDSVDFTDNTRKLLKQLADPTLPLIVTTIQKMANAVKSNHSVMESYKQDKVIFIIDECHRTQFGDMHRLIKQHFENAQYFGFTGTPRFEENKSQDGRATADIFDKCLHHYLIKDAIRDHNVLGFSVEYNQTFNSHEDLDEEYISKINTSEIWMADERIEAVCRHLISNYHKKTDNGNYTSMFAVQSIPMAIKYYDTFQRLKNEGVHDLNVATIFTYQANEDAQEDENHVHSREVLDRIMNDYNQTFKTNYNTDNFEGYFSDVSKRMKEVVRDDKIDILIVVNMFLTGFDSKKLNTLYVDKNLKHHDLIQAYSRTNRVEKERKPYGNIVCYRDLKKQTDEAIEIFSQTDNTDTVLSLSYEEYLDNFKDILQDVFQLAPTPLDVDKLEAEDLKKEFVISFRDLSNTLIKLKTFDEFQFTEDELGIAEQTYEDYKGKYLNIYEEVMRGKKVDGEEGVSVLDDIDFQVELMRNDLINVKYIMDLIGQINLSDAKARDEKRHQIHKLLDKADDQQLRLKADLIRSFLDKVVPSLKEDSDINEAYYEFEDKEKTKEIDAFAEQKAFSAMLLNEAVNEYEYSGNIDRKSIGQNISEPFMKRKRKTDQIIQFIEDTVEKYGVVE

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_002976_2	2.2\|2517726\|30\|NC_002976\|CRT	2517726-2517755	30	NC_008723	Staphylococcus phage PH15, complete genome	16869-16898	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NZ_CP026078	Staphylococcus aureus strain FDAARGOS_7 plasmid unnamed	26785-26814	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NZ_KU882682	Staphylococcus lugdunensis strain K93G plasmid pK93G, complete sequence	20644-20673	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NZ_KT780704	Staphylococcus aureus subsp. aureus RN4220 plasmid pRM27, complete sequence	59138-59167	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NZ_KT780705	Staphylococcus aureus subsp. aureus RN4220 plasmid pGO400, complete sequence	29197-29226	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NZ_KT373969	Staphylococcus pseudintermedius strain HR547/11 plasmid pKM01, complete sequence	46509-46538	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NZ_KU882681	Staphylococcus lugdunensis strain Tlug15G-4 plasmid pT15G-1, complete sequence	37223-37252	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030382	Staphylococcus aureus strain ER03761.3 plasmid unnamed1, complete sequence	19781-19810	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030491	Staphylococcus aureus strain ER02837.3 plasmid unnamed1, complete sequence	19781-19810	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030606	Staphylococcus aureus strain ER02693.3 plasmid unnamed1, complete sequence	1824-1853	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030388	Staphylococcus aureus strain ER01062.3 plasmid unnamed2, complete sequence	8234-8263	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NC_007792	Staphylococcus aureus subsp. aureus USA300_FPR3757 plasmid pUSA03, complete sequence	32205-32234	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030522	Staphylococcus aureus strain ER01564.3 plasmid unnamed2, complete sequence	7490-7519	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NC_005054	Staphylococcus aureus plasmid pLW043, complete sequence	52959-52988	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030554	Staphylococcus aureus strain PS00003.3 plasmid unnamed1, complete sequence	19781-19810	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030614	Staphylococcus aureus strain ER01560.3 plasmid unnamed1, complete sequence	27435-27464	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030618	Staphylococcus aureus strain ER04440.3 plasmid unnamed1, complete sequence	19781-19810	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030671	Staphylococcus aureus strain ER00951.3 plasmid unnamed2, complete sequence	39245-39274	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NC_012547	Staphylococcus aureus plasmid pGO1, complete sequence	8174-8203	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NC_005024	Staphylococcus aureus plasmid pSK41, complete sequence	8174-8203	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NC_013320	Staphylococcus aureus plasmid SAP014A, complete sequence	14263-14292	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NC_013342	Staphylococcus aureus plasmid SAP079A, complete sequence	19626-19655	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NC_013343	Staphylococcus aureus plasmid SAP080A, complete sequence	34529-34558	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030556	Staphylococcus aureus strain ER03750.3 plasmid unnamed1, complete sequence	16790-16819	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030639	Staphylococcus aureus strain ER04165.3 plasmid unnamed1, complete sequence	19781-19810	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030677	Staphylococcus aureus strain ER01533.3 plasmid unnamed3, complete sequence	26221-26250	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030600	Staphylococcus aureus strain ER00658.3 plasmid unnamed1, complete sequence	4556-4585	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NZ_AP017321	Staphylococcus aureus strain MI plasmid pMI, complete sequence	25838-25867	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	AP012550	Staphylococcus aureus plasmid pN315G DNA, complete sequence, strain: N315G	8204-8233	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NZ_CP026963	Staphylococcus aureus strain FDAARGOS_6 plasmid unnamed1	11506-11535	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030429	Staphylococcus aureus strain ER03760.3 plasmid unnamed1, complete sequence	19782-19811	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030648	Staphylococcus aureus strain ER03556.3 plasmid unnamed1, complete sequence	19780-19809	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NC_020535	Staphylococcus aureus subsp. aureus ST228 plasmid pI5S5, complete sequence	32356-32385	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030407	Staphylococcus aureus strain PS00002.3 plasmid unnamed1, complete sequence	19779-19808	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030559	Staphylococcus aureus strain ER01457.3 plasmid unnamed1, complete sequence	29523-29552	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030678	Staphylococcus aureus strain ER00573.3 plasmid unnamed1, complete sequence	7916-7945	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NZ_CP040620	Staphylococcus aureus strain J01 plasmid pJ01-01, complete sequence	36680-36709	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NZ_MH587578	Staphylococcus aureus strain WG1647 plasmid pWBG615, complete sequence	38065-38094	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030591	Staphylococcus aureus strain ER02989.3 plasmid unnamed1, complete sequence	31910-31939	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030453	Staphylococcus aureus strain PS00001.3 plasmid unnamed1, complete sequence	19778-19807	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NZ_KU882683	Staphylococcus lugdunensis strain Tlug33G-4 plasmid pT33G-1, complete sequence	5962-5991	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NC_013338	Staphylococcus aureus plasmid SAP068A, complete sequence	6142-6171	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030622	Staphylococcus aureus strain ER01524.3 plasmid unnamed2, complete sequence	23257-23286	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NC_013339	Staphylococcus aureus plasmid SAP069A, complete sequence	26758-26787	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NC_013344	Staphylococcus aureus plasmid SAP082A, complete sequence	22791-22820	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030538	Staphylococcus aureus strain ER02094.3 plasmid unnamed2, complete sequence	41577-41606	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030435	Staphylococcus aureus strain ER00610.3 plasmid unnamed2, complete sequence	6866-6895	0	1.0
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP030526	Staphylococcus aureus strain ER02703.3 plasmid unnamed1, complete sequence	6866-6895	0	1.0
NC_002976_2	2.5\|2517727\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517727-2517760	34	NC_008723	Staphylococcus phage PH15, complete genome	16870-16903	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NZ_CP026078	Staphylococcus aureus strain FDAARGOS_7 plasmid unnamed	26786-26819	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NZ_KU882682	Staphylococcus lugdunensis strain K93G plasmid pK93G, complete sequence	20645-20678	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NZ_KU882683	Staphylococcus lugdunensis strain Tlug33G-4 plasmid pT33G-1, complete sequence	5957-5990	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NZ_KT780704	Staphylococcus aureus subsp. aureus RN4220 plasmid pRM27, complete sequence	59139-59172	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NZ_KT780705	Staphylococcus aureus subsp. aureus RN4220 plasmid pGO400, complete sequence	29198-29231	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NZ_KT373969	Staphylococcus pseudintermedius strain HR547/11 plasmid pKM01, complete sequence	46510-46543	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NZ_KU882681	Staphylococcus lugdunensis strain Tlug15G-4 plasmid pT15G-1, complete sequence	37224-37257	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030382	Staphylococcus aureus strain ER03761.3 plasmid unnamed1, complete sequence	19782-19815	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030491	Staphylococcus aureus strain ER02837.3 plasmid unnamed1, complete sequence	19782-19815	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030606	Staphylococcus aureus strain ER02693.3 plasmid unnamed1, complete sequence	1825-1858	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030388	Staphylococcus aureus strain ER01062.3 plasmid unnamed2, complete sequence	8235-8268	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NC_007792	Staphylococcus aureus subsp. aureus USA300_FPR3757 plasmid pUSA03, complete sequence	32206-32239	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030522	Staphylococcus aureus strain ER01564.3 plasmid unnamed2, complete sequence	7491-7524	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NC_005054	Staphylococcus aureus plasmid pLW043, complete sequence	52960-52993	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030554	Staphylococcus aureus strain PS00003.3 plasmid unnamed1, complete sequence	19782-19815	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030614	Staphylococcus aureus strain ER01560.3 plasmid unnamed1, complete sequence	27436-27469	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NC_013338	Staphylococcus aureus plasmid SAP068A, complete sequence	6137-6170	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030618	Staphylococcus aureus strain ER04440.3 plasmid unnamed1, complete sequence	19782-19815	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030671	Staphylococcus aureus strain ER00951.3 plasmid unnamed2, complete sequence	39246-39279	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NC_012547	Staphylococcus aureus plasmid pGO1, complete sequence	8175-8208	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030622	Staphylococcus aureus strain ER01524.3 plasmid unnamed2, complete sequence	23252-23285	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NC_005024	Staphylococcus aureus plasmid pSK41, complete sequence	8175-8208	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NC_013320	Staphylococcus aureus plasmid SAP014A, complete sequence	14264-14297	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NC_013339	Staphylococcus aureus plasmid SAP069A, complete sequence	26753-26786	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NC_013342	Staphylococcus aureus plasmid SAP079A, complete sequence	19627-19660	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NC_013343	Staphylococcus aureus plasmid SAP080A, complete sequence	34530-34563	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NC_013344	Staphylococcus aureus plasmid SAP082A, complete sequence	22786-22819	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030538	Staphylococcus aureus strain ER02094.3 plasmid unnamed2, complete sequence	41572-41605	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030556	Staphylococcus aureus strain ER03750.3 plasmid unnamed1, complete sequence	16791-16824	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030639	Staphylococcus aureus strain ER04165.3 plasmid unnamed1, complete sequence	19782-19815	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030435	Staphylococcus aureus strain ER00610.3 plasmid unnamed2, complete sequence	6861-6894	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030526	Staphylococcus aureus strain ER02703.3 plasmid unnamed1, complete sequence	6861-6894	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030677	Staphylococcus aureus strain ER01533.3 plasmid unnamed3, complete sequence	26222-26255	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030600	Staphylococcus aureus strain ER00658.3 plasmid unnamed1, complete sequence	4557-4590	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NZ_AP017321	Staphylococcus aureus strain MI plasmid pMI, complete sequence	25839-25872	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NZ_CP026963	Staphylococcus aureus strain FDAARGOS_6 plasmid unnamed1	11507-11540	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030429	Staphylococcus aureus strain ER03760.3 plasmid unnamed1, complete sequence	19783-19816	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030648	Staphylococcus aureus strain ER03556.3 plasmid unnamed1, complete sequence	19781-19814	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NC_020535	Staphylococcus aureus subsp. aureus ST228 plasmid pI5S5, complete sequence	32357-32390	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030407	Staphylococcus aureus strain PS00002.3 plasmid unnamed1, complete sequence	19780-19813	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030559	Staphylococcus aureus strain ER01457.3 plasmid unnamed1, complete sequence	29524-29557	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030678	Staphylococcus aureus strain ER00573.3 plasmid unnamed1, complete sequence	7917-7950	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NZ_CP040620	Staphylococcus aureus strain J01 plasmid pJ01-01, complete sequence	36681-36714	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NZ_MH587578	Staphylococcus aureus strain WG1647 plasmid pWBG615, complete sequence	38066-38099	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030591	Staphylococcus aureus strain ER02989.3 plasmid unnamed1, complete sequence	31911-31944	0	1.0
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP030453	Staphylococcus aureus strain PS00001.3 plasmid unnamed1, complete sequence	19779-19812	0	1.0
NC_002976_2	2.2\|2517726\|30\|NC_002976\|CRT	2517726-2517755	30	KY653120	Staphylococcus phage IME1348_01, complete genome	31822-31851	1	0.967
NC_002976_2	2.2\|2517726\|30\|NC_002976\|CRT	2517726-2517755	30	JN192400	Staphylococcus phage vB_SepiS-phiIPLA5, complete genome	16168-16197	1	0.967
NC_002976_2	2.2\|2517726\|30\|NC_002976\|CRT	2517726-2517755	30	KU598975	Staphylococcus phage CNPx, complete genome	16222-16251	1	0.967
NC_002976_2	2.2\|2517726\|30\|NC_002976\|CRT	2517726-2517755	30	JN192401	Staphylococcus phage vB_SepiS-phiIPLA7, complete genome	15766-15795	1	0.967
NC_002976_2	2.2\|2517726\|30\|NC_002976\|CRT	2517726-2517755	30	DQ831957	Staphylococcus phage CNPH82, complete genome	16222-16251	1	0.967
NC_002976_2	2.5\|2517727\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517727-2517760	34	KY653120	Staphylococcus phage IME1348_01, complete genome	31823-31856	1	0.971
NC_002976_2	2.5\|2517727\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517727-2517760	34	JN192400	Staphylococcus phage vB_SepiS-phiIPLA5, complete genome	16169-16202	1	0.971
NC_002976_2	2.5\|2517727\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517727-2517760	34	KU598975	Staphylococcus phage CNPx, complete genome	16223-16256	1	0.971
NC_002976_2	2.5\|2517727\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517727-2517760	34	JN192401	Staphylococcus phage vB_SepiS-phiIPLA7, complete genome	15767-15800	1	0.971
NC_002976_2	2.5\|2517727\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517727-2517760	34	DQ831957	Staphylococcus phage CNPH82, complete genome	16223-16256	1	0.971
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	AP012550	Staphylococcus aureus plasmid pN315G DNA, complete sequence, strain: N315G	8205-8238	1	0.971
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NZ_KY465818	Staphylococcus aureus subsp. aureus strain CC1 plasmid p140355, complete sequence	23794-23823	2	0.933
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NC_013653	Staphylococcus aureus plasmid pPR9, complete sequence	18505-18534	2	0.933
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NC_010279	Staphylococcus aureus plasmid pV030-8, complete sequence	34107-34136	2	0.933
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	NC_018967	Staphylococcus aureus plasmid p18813-P03, complete sequence	25095-25124	2	0.933
NC_002976_2	2.3\|2517797\|30\|NC_002976\|CRT	2517797-2517826	30	CP013960	Staphylococcus aureus strain V605 plasmid pV605, complete sequence	1328-1357	2	0.933
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NZ_KY465818	Staphylococcus aureus subsp. aureus strain CC1 plasmid p140355, complete sequence	23795-23828	2	0.941
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NC_013653	Staphylococcus aureus plasmid pPR9, complete sequence	18506-18539	2	0.941
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	CP013960	Staphylococcus aureus strain V605 plasmid pV605, complete sequence	1323-1356	2	0.941
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NC_010279	Staphylococcus aureus plasmid pV030-8, complete sequence	34108-34141	2	0.941
NC_002976_2	2.6\|2517798\|34\|NC_002976\|CRISPRCasFinder,PILER-CR	2517798-2517831	34	NC_018967	Staphylococcus aureus plasmid p18813-P03, complete sequence	25096-25129	2	0.941
NC_002976_2	2.1\|2517656\|29\|NC_002976\|CRT	2517656-2517684	29	KU878088	Bacillus phage AR9, complete genome	111273-111301	7	0.759
NC_002976_2	2.1\|2517656\|29\|NC_002976\|CRT	2517656-2517684	29	MF360957	Bacillus virus PBS1, complete genome	21575-21603	7	0.759
NC_002976_2	2.1\|2517656\|29\|NC_002976\|CRT	2517656-2517684	29	NZ_CP009417	Jeotgalibacillus malaysiensis strain malaysiensis plasmid unnamed, complete sequence	563600-563628	7	0.759

1. spacer 2.2|2517726|30|NC_002976|CRT matches to NC_008723 (Staphylococcus phage PH15, complete genome) position: , mismatch: 0, identity: 1.0

atcgatgtaacgtatgcaaatgacaattat	CRISPR spacer
atcgatgtaacgtatgcaaatgacaattat	Protospacer
******************************

2. spacer 2.3|2517797|30|NC_002976|CRT matches to NZ_CP026078 (Staphylococcus aureus strain FDAARGOS_7 plasmid unnamed) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

3. spacer 2.3|2517797|30|NC_002976|CRT matches to NZ_KU882682 (Staphylococcus lugdunensis strain K93G plasmid pK93G, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

4. spacer 2.3|2517797|30|NC_002976|CRT matches to NZ_KT780704 (Staphylococcus aureus subsp. aureus RN4220 plasmid pRM27, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

5. spacer 2.3|2517797|30|NC_002976|CRT matches to NZ_KT780705 (Staphylococcus aureus subsp. aureus RN4220 plasmid pGO400, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

6. spacer 2.3|2517797|30|NC_002976|CRT matches to NZ_KT373969 (Staphylococcus pseudintermedius strain HR547/11 plasmid pKM01, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

7. spacer 2.3|2517797|30|NC_002976|CRT matches to NZ_KU882681 (Staphylococcus lugdunensis strain Tlug15G-4 plasmid pT15G-1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

8. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030382 (Staphylococcus aureus strain ER03761.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

9. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030491 (Staphylococcus aureus strain ER02837.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

10. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030606 (Staphylococcus aureus strain ER02693.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

11. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030388 (Staphylococcus aureus strain ER01062.3 plasmid unnamed2, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

12. spacer 2.3|2517797|30|NC_002976|CRT matches to NC_007792 (Staphylococcus aureus subsp. aureus USA300_FPR3757 plasmid pUSA03, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

13. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030522 (Staphylococcus aureus strain ER01564.3 plasmid unnamed2, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

14. spacer 2.3|2517797|30|NC_002976|CRT matches to NC_005054 (Staphylococcus aureus plasmid pLW043, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

15. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030554 (Staphylococcus aureus strain PS00003.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

16. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030614 (Staphylococcus aureus strain ER01560.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

17. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030618 (Staphylococcus aureus strain ER04440.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

18. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030671 (Staphylococcus aureus strain ER00951.3 plasmid unnamed2, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

19. spacer 2.3|2517797|30|NC_002976|CRT matches to NC_012547 (Staphylococcus aureus plasmid pGO1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

20. spacer 2.3|2517797|30|NC_002976|CRT matches to NC_005024 (Staphylococcus aureus plasmid pSK41, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

21. spacer 2.3|2517797|30|NC_002976|CRT matches to NC_013320 (Staphylococcus aureus plasmid SAP014A, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

22. spacer 2.3|2517797|30|NC_002976|CRT matches to NC_013342 (Staphylococcus aureus plasmid SAP079A, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

23. spacer 2.3|2517797|30|NC_002976|CRT matches to NC_013343 (Staphylococcus aureus plasmid SAP080A, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

24. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030556 (Staphylococcus aureus strain ER03750.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

25. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030639 (Staphylococcus aureus strain ER04165.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

26. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030677 (Staphylococcus aureus strain ER01533.3 plasmid unnamed3, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

27. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030600 (Staphylococcus aureus strain ER00658.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

28. spacer 2.3|2517797|30|NC_002976|CRT matches to NZ_AP017321 (Staphylococcus aureus strain MI plasmid pMI, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

29. spacer 2.3|2517797|30|NC_002976|CRT matches to AP012550 (Staphylococcus aureus plasmid pN315G DNA, complete sequence, strain: N315G) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

30. spacer 2.3|2517797|30|NC_002976|CRT matches to NZ_CP026963 (Staphylococcus aureus strain FDAARGOS_6 plasmid unnamed1) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

31. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030429 (Staphylococcus aureus strain ER03760.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

32. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030648 (Staphylococcus aureus strain ER03556.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

33. spacer 2.3|2517797|30|NC_002976|CRT matches to NC_020535 (Staphylococcus aureus subsp. aureus ST228 plasmid pI5S5, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

34. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030407 (Staphylococcus aureus strain PS00002.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

35. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030559 (Staphylococcus aureus strain ER01457.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

36. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030678 (Staphylococcus aureus strain ER00573.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

37. spacer 2.3|2517797|30|NC_002976|CRT matches to NZ_CP040620 (Staphylococcus aureus strain J01 plasmid pJ01-01, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

38. spacer 2.3|2517797|30|NC_002976|CRT matches to NZ_MH587578 (Staphylococcus aureus strain WG1647 plasmid pWBG615, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

39. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030591 (Staphylococcus aureus strain ER02989.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

40. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030453 (Staphylococcus aureus strain PS00001.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

41. spacer 2.3|2517797|30|NC_002976|CRT matches to NZ_KU882683 (Staphylococcus lugdunensis strain Tlug33G-4 plasmid pT33G-1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

42. spacer 2.3|2517797|30|NC_002976|CRT matches to NC_013338 (Staphylococcus aureus plasmid SAP068A, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

43. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030622 (Staphylococcus aureus strain ER01524.3 plasmid unnamed2, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

44. spacer 2.3|2517797|30|NC_002976|CRT matches to NC_013339 (Staphylococcus aureus plasmid SAP069A, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

45. spacer 2.3|2517797|30|NC_002976|CRT matches to NC_013344 (Staphylococcus aureus plasmid SAP082A, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

46. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030538 (Staphylococcus aureus strain ER02094.3 plasmid unnamed2, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

47. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030435 (Staphylococcus aureus strain ER00610.3 plasmid unnamed2, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

48. spacer 2.3|2517797|30|NC_002976|CRT matches to CP030526 (Staphylococcus aureus strain ER02703.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatacttcggca	Protospacer
******************************

49. spacer 2.5|2517727|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NC_008723 (Staphylococcus phage PH15, complete genome) position: , mismatch: 0, identity: 1.0

tcgatgtaacgtatgcaaatgacaattattacta	CRISPR spacer
tcgatgtaacgtatgcaaatgacaattattacta	Protospacer
**********************************

50. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NZ_CP026078 (Staphylococcus aureus strain FDAARGOS_7 plasmid unnamed) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

51. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NZ_KU882682 (Staphylococcus lugdunensis strain K93G plasmid pK93G, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

52. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NZ_KU882683 (Staphylococcus lugdunensis strain Tlug33G-4 plasmid pT33G-1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

53. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NZ_KT780704 (Staphylococcus aureus subsp. aureus RN4220 plasmid pRM27, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

54. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NZ_KT780705 (Staphylococcus aureus subsp. aureus RN4220 plasmid pGO400, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

55. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NZ_KT373969 (Staphylococcus pseudintermedius strain HR547/11 plasmid pKM01, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

56. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NZ_KU882681 (Staphylococcus lugdunensis strain Tlug15G-4 plasmid pT15G-1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

57. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030382 (Staphylococcus aureus strain ER03761.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

58. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030491 (Staphylococcus aureus strain ER02837.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

59. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030606 (Staphylococcus aureus strain ER02693.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

60. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030388 (Staphylococcus aureus strain ER01062.3 plasmid unnamed2, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

61. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NC_007792 (Staphylococcus aureus subsp. aureus USA300_FPR3757 plasmid pUSA03, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

62. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030522 (Staphylococcus aureus strain ER01564.3 plasmid unnamed2, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

63. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NC_005054 (Staphylococcus aureus plasmid pLW043, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

64. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030554 (Staphylococcus aureus strain PS00003.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

65. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030614 (Staphylococcus aureus strain ER01560.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

66. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NC_013338 (Staphylococcus aureus plasmid SAP068A, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

67. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030618 (Staphylococcus aureus strain ER04440.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

68. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030671 (Staphylococcus aureus strain ER00951.3 plasmid unnamed2, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

69. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NC_012547 (Staphylococcus aureus plasmid pGO1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

70. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030622 (Staphylococcus aureus strain ER01524.3 plasmid unnamed2, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

71. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NC_005024 (Staphylococcus aureus plasmid pSK41, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

72. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NC_013320 (Staphylococcus aureus plasmid SAP014A, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

73. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NC_013339 (Staphylococcus aureus plasmid SAP069A, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

74. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NC_013342 (Staphylococcus aureus plasmid SAP079A, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

75. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NC_013343 (Staphylococcus aureus plasmid SAP080A, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

76. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NC_013344 (Staphylococcus aureus plasmid SAP082A, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

77. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030538 (Staphylococcus aureus strain ER02094.3 plasmid unnamed2, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

78. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030556 (Staphylococcus aureus strain ER03750.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

79. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030639 (Staphylococcus aureus strain ER04165.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

80. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030435 (Staphylococcus aureus strain ER00610.3 plasmid unnamed2, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

81. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030526 (Staphylococcus aureus strain ER02703.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

82. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030677 (Staphylococcus aureus strain ER01533.3 plasmid unnamed3, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

83. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030600 (Staphylococcus aureus strain ER00658.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

84. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NZ_AP017321 (Staphylococcus aureus strain MI plasmid pMI, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

85. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NZ_CP026963 (Staphylococcus aureus strain FDAARGOS_6 plasmid unnamed1) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

86. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030429 (Staphylococcus aureus strain ER03760.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

87. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030648 (Staphylococcus aureus strain ER03556.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

88. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NC_020535 (Staphylococcus aureus subsp. aureus ST228 plasmid pI5S5, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

89. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030407 (Staphylococcus aureus strain PS00002.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

90. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030559 (Staphylococcus aureus strain ER01457.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

91. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030678 (Staphylococcus aureus strain ER00573.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

92. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NZ_CP040620 (Staphylococcus aureus strain J01 plasmid pJ01-01, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

93. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NZ_MH587578 (Staphylococcus aureus strain WG1647 plasmid pWBG615, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

94. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030591 (Staphylococcus aureus strain ER02989.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

95. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP030453 (Staphylococcus aureus strain PS00001.3 plasmid unnamed1, complete sequence) position: , mismatch: 0, identity: 1.0

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacgt	Protospacer
**********************************

96. spacer 2.2|2517726|30|NC_002976|CRT matches to KY653120 (Staphylococcus phage IME1348_01, complete genome) position: , mismatch: 1, identity: 0.967

atcgatgtaacgtatgcaaatgacaattat	CRISPR spacer
atcgatgtaacatatgcaaatgacaattat	Protospacer
***********.******************

97. spacer 2.2|2517726|30|NC_002976|CRT matches to JN192400 (Staphylococcus phage vB_SepiS-phiIPLA5, complete genome) position: , mismatch: 1, identity: 0.967

atcgatgtaacgtatgcaaatgacaattat	CRISPR spacer
atcgatgtaacatatgcaaatgacaattat	Protospacer
***********.******************

98. spacer 2.2|2517726|30|NC_002976|CRT matches to KU598975 (Staphylococcus phage CNPx, complete genome) position: , mismatch: 1, identity: 0.967

atcgatgtaacgtatgcaaatgacaattat	CRISPR spacer
atcgatgtaacatatgcaaatgacaattat	Protospacer
***********.******************

99. spacer 2.2|2517726|30|NC_002976|CRT matches to JN192401 (Staphylococcus phage vB_SepiS-phiIPLA7, complete genome) position: , mismatch: 1, identity: 0.967

atcgatgtaacgtatgcaaatgacaattat	CRISPR spacer
atcgatgtaacatatgcaaatgacaattat	Protospacer
***********.******************

100. spacer 2.2|2517726|30|NC_002976|CRT matches to DQ831957 (Staphylococcus phage CNPH82, complete genome) position: , mismatch: 1, identity: 0.967

atcgatgtaacgtatgcaaatgacaattat	CRISPR spacer
atcgatgtaacatatgcaaatgacaattat	Protospacer
***********.******************

101. spacer 2.5|2517727|34|NC_002976|CRISPRCasFinder,PILER-CR matches to KY653120 (Staphylococcus phage IME1348_01, complete genome) position: , mismatch: 1, identity: 0.971

tcgatgtaacgtatgcaaatgacaattattacta	CRISPR spacer
tcgatgtaacatatgcaaatgacaattattacta	Protospacer
**********.***********************

102. spacer 2.5|2517727|34|NC_002976|CRISPRCasFinder,PILER-CR matches to JN192400 (Staphylococcus phage vB_SepiS-phiIPLA5, complete genome) position: , mismatch: 1, identity: 0.971

tcgatgtaacgtatgcaaatgacaattattacta	CRISPR spacer
tcgatgtaacatatgcaaatgacaattattacta	Protospacer
**********.***********************

103. spacer 2.5|2517727|34|NC_002976|CRISPRCasFinder,PILER-CR matches to KU598975 (Staphylococcus phage CNPx, complete genome) position: , mismatch: 1, identity: 0.971

tcgatgtaacgtatgcaaatgacaattattacta	CRISPR spacer
tcgatgtaacatatgcaaatgacaattattacta	Protospacer
**********.***********************

104. spacer 2.5|2517727|34|NC_002976|CRISPRCasFinder,PILER-CR matches to JN192401 (Staphylococcus phage vB_SepiS-phiIPLA7, complete genome) position: , mismatch: 1, identity: 0.971

tcgatgtaacgtatgcaaatgacaattattacta	CRISPR spacer
tcgatgtaacatatgcaaatgacaattattacta	Protospacer
**********.***********************

105. spacer 2.5|2517727|34|NC_002976|CRISPRCasFinder,PILER-CR matches to DQ831957 (Staphylococcus phage CNPH82, complete genome) position: , mismatch: 1, identity: 0.971

tcgatgtaacgtatgcaaatgacaattattacta	CRISPR spacer
tcgatgtaacatatgcaaatgacaattattacta	Protospacer
**********.***********************

106. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to AP012550 (Staphylococcus aureus plasmid pN315G DNA, complete sequence, strain: N315G) position: , mismatch: 1, identity: 0.971

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatacttcggcatacga	Protospacer
*********************************

107. spacer 2.3|2517797|30|NC_002976|CRT matches to NZ_KY465818 (Staphylococcus aureus subsp. aureus strain CC1 plasmid p140355, complete sequence) position: , mismatch: 2, identity: 0.933

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatatttaggca	Protospacer
**********************.** ****

108. spacer 2.3|2517797|30|NC_002976|CRT matches to NC_013653 (Staphylococcus aureus plasmid pPR9, complete sequence) position: , mismatch: 2, identity: 0.933

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatatttaggca	Protospacer
**********************.** ****

109. spacer 2.3|2517797|30|NC_002976|CRT matches to NC_010279 (Staphylococcus aureus plasmid pV030-8, complete sequence) position: , mismatch: 2, identity: 0.933

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatatttaggca	Protospacer
**********************.** ****

110. spacer 2.3|2517797|30|NC_002976|CRT matches to NC_018967 (Staphylococcus aureus plasmid p18813-P03, complete sequence) position: , mismatch: 2, identity: 0.933

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatatttaggca	Protospacer
**********************.** ****

111. spacer 2.3|2517797|30|NC_002976|CRT matches to CP013960 (Staphylococcus aureus strain V605 plasmid pV605, complete sequence) position: , mismatch: 2, identity: 0.933

ctttgtactgatgatttatatacttcggca	CRISPR spacer
ctttgtactgatgatttatatatttaggca	Protospacer
**********************.** ****

112. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NZ_KY465818 (Staphylococcus aureus subsp. aureus strain CC1 plasmid p140355, complete sequence) position: , mismatch: 2, identity: 0.941

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatatttaggcatacgt	Protospacer
*********************.** *********

113. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NC_013653 (Staphylococcus aureus plasmid pPR9, complete sequence) position: , mismatch: 2, identity: 0.941

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatatttaggcatacgt	Protospacer
*********************.** *********

114. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to CP013960 (Staphylococcus aureus strain V605 plasmid pV605, complete sequence) position: , mismatch: 2, identity: 0.941

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatatttaggcatacgt	Protospacer
*********************.** *********

115. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NC_010279 (Staphylococcus aureus plasmid pV030-8, complete sequence) position: , mismatch: 2, identity: 0.941

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatatttaggcatacgt	Protospacer
*********************.** *********

116. spacer 2.6|2517798|34|NC_002976|CRISPRCasFinder,PILER-CR matches to NC_018967 (Staphylococcus aureus plasmid p18813-P03, complete sequence) position: , mismatch: 2, identity: 0.941

tttgtactgatgatttatatacttcggcatacgt	CRISPR spacer
tttgtactgatgatttatatatttaggcatacgt	Protospacer
*********************.** *********

117. spacer 2.1|2517656|29|NC_002976|CRT matches to KU878088 (Bacillus phage AR9, complete genome) position: , mismatch: 7, identity: 0.759

agagaatcaagaaaaaatgtt---cacgaccg	CRISPR spacer
agagaatcaagaaaaaattttatatgtga---	Protospacer
****************** **   ...**

118. spacer 2.1|2517656|29|NC_002976|CRT matches to MF360957 (Bacillus virus PBS1, complete genome) position: , mismatch: 7, identity: 0.759

agagaatcaagaaaaaatgtt---cacgaccg	CRISPR spacer
agagaatcaagaaaaaattttatatgtga---	Protospacer
****************** **   ...**

119. spacer 2.1|2517656|29|NC_002976|CRT matches to NZ_CP009417 (Jeotgalibacillus malaysiensis strain malaysiensis plasmid unnamed, complete sequence) position: , mismatch: 7, identity: 0.759

agagaatcaagaaaaaatgttcacgaccg	CRISPR spacer
agacaatcaagaaaaaatgttgagacaag	Protospacer
*** ***************** * .   *

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

362235 : 372771

Staphylococcus_phage(22.22%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001830355.1\|362235_363075_+	aldo/keto reductase	A0A2H4PQR8	Staphylococcus_phage	1.2e-60	43.0
WP_001830351.1\|363277_364384_+	glycosyltransferase family 2 protein	A8CG95	Salmonella_phage	6.3e-62	43.2
WP_025987135.1\|364453_365506_-	HAMP domain-containing histidine kinase	A0A1V0SGX0	Hokovirus	2.0e-17	30.6
WP_001830352.1\|365508_366198_-	response regulator transcription factor	W8CYM9	Bacillus_phage	3.4e-34	35.2
WP_001830332.1\|366172_366646_-	DoxX family protein	NA	NA	NA	NA
WP_001830329.1\|366696_367134_-	DM13 domain-containing protein	NA	NA	NA	NA
WP_001830315.1\|367729_367885_-	hypothetical protein	A0A146ICT8	Staphylococcus_phage	9.8e-14	75.5
WP_001830331.1\|368234_368834_-	hypothetical protein	NA	NA	NA	NA
WP_001830330.1\|368936_369650_-	7-carboxy-7-deazaguanine synthase QueE	A0A1U9WRB6	Streptococcus_virus	1.6e-55	44.8
WP_001830341.1\|369650_370070_-	6-carboxytetrahydropterin synthase QueD	NA	NA	NA	NA
WP_001830328.1\|370074_370746_-	7-cyano-7-deazaguanine synthase QueC	A0A2H4J8Q7	uncultured_Caudovirales_phage	4.1e-64	55.7
WP_001830349.1\|371042_371630_+	aminodeoxychorismate/anthranilate synthase component II	A0A0P0IKJ1	Acinetobacter_phage	4.4e-38	42.9
WP_001830323.1\|371619_372771_+	anthranilate synthase component I family protein	A0A0B5J984	Pandoravirus	7.5e-26	39.6

DBSCAN-SWA_2

394194 : 404629

uncultured_Caudovirales_phage(66.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002438897.1\|394194_395700_-	peptide MFS transporter	A0A0P0IY73	Acinetobacter_phage	5.5e-61	34.0
WP_001832596.1\|395983_396484_-	NADPH-dependent 7-cyano-7-deazaguanine reductase QueF	E7DN65	Pneumococcus_phage	1.1e-50	70.1
WP_001829684.1\|396497_397373_-	DMT family transporter	NA	NA	NA	NA
WP_001829589.1\|398128_398527_+	class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI	A0A2H4J545	uncultured_Caudovirales_phage	2.0e-71	100.0
WP_001829582.1\|398489_400595_+	class 1b ribonucleoside-diphosphate reductase subunit alpha	A0A2H4J2N6	uncultured_Caudovirales_phage	0.0e+00	100.0
WP_001829597.1\|400713_401682_+	class 1b ribonucleoside-diphosphate reductase subunit beta	A0A2H4J4P3	uncultured_Caudovirales_phage	3.9e-185	100.0
WP_002456931.1\|401656_401920_+	hypothetical protein	A0A2H4IYB4	uncultured_Caudovirales_phage	5.5e-17	100.0
WP_002438902.1\|401935_402910_+	ABC transporter permease	A0A2H4IY97	uncultured_Caudovirales_phage	5.9e-165	99.7
WP_002438903.1\|402893_403853_+	iron chelate uptake ABC transporter family permease subunit	A0A2H4J116	uncultured_Caudovirales_phage	4.1e-17	100.0
WP_001829596.1\|403849_404629_+	ATP-binding cassette domain-containing protein	W6JKT0	Anomala_cuprea_entomopoxvirus	5.1e-18	33.6

DBSCAN-SWA_3

644204 : 652674

Synechococcus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002486053.1\|644204_644687_+	5-(carboxyamino)imidazole ribonucleotide mutase	A0A2P0VNU7	Tetraselmis_virus	2.6e-20	42.7
WP_002486052.1\|644673_645801_+	5-(carboxyamino)imidazole ribonucleotide synthase	NA	NA	NA	NA
WP_001831723.1\|645801_646506_+	phosphoribosylaminoimidazolesuccinocarboxamide synthase	H8ZMN3	Synechococcus_phage	1.6e-47	42.5
WP_001831728.1\|646505_646766_+	phosphoribosylformylglycinamidine synthase subunit PurS	NA	NA	NA	NA
WP_001831727.1\|646767_647439_+	phosphoribosylformylglycinamidine synthase I	NA	NA	NA	NA
WP_002486056.1\|647431_649621_+	phosphoribosylformylglycinamidine synthase subunit PurL	A6N228	Microbacterium_phage	1.1e-139	40.4
WP_002485328.1\|649599_651084_+	amidophosphoribosyltransferase	A0A0M3SGR2	Mollivirus	7.2e-45	31.9
WP_001831685.1\|651076_652108_+	phosphoribosylformylglycinamidine cyclo-ligase	Q58MH8	Prochlorococcus_phage	2.1e-64	43.4
WP_001831672.1\|652107_652674_+	phosphoribosylglycinamide formyltransferase	M4QRX9	Synechococcus_phage	6.1e-29	40.0

DBSCAN-SWA_4

1242019 : 1299928

Bacillus_virus(12.5%)

transposase,protease,integrase,tRNA

attL 1241586:1241602|attR 1296124:1296140

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1241586:1241602	attL	NA	NA	NA	NA
WP_001830840.1\|1242019_1243159_-\|tRNA	tRNA guanosine(34) transglycosylase Tgt	A0A1B1IVQ4	uncultured_Mediterranean_phage	1.3e-83	44.4
WP_010959189.1\|1243179_1244205_-\|tRNA	tRNA preQ1(34) S-adenosylmethionine ribosyltransferase-isomerase QueA	NA	NA	NA	NA
WP_001830787.1\|1244206_1245211_-	Holliday junction branch migration DNA helicase RuvB	B3GAM6	uncultured_virus	1.7e-05	29.1
WP_001830895.1\|1245224_1245827_-	Holliday junction branch migration protein RuvA	NA	NA	NA	NA
WP_001830784.1\|1245839_1246295_-	ACT domain-containing protein	NA	NA	NA	NA
WP_002486085.1\|1246306_1247599_-	GTPase ObgE	NA	NA	NA	NA
WP_001830822.1\|1247744_1248029_-	50S ribosomal protein L27	NA	NA	NA	NA
WP_001830797.1\|1248040_1248361_-\|protease	ribosomal-processing cysteine protease Prp	NA	NA	NA	NA
WP_001830820.1\|1248365_1248674_-	50S ribosomal protein L21	NA	NA	NA	NA
WP_001830764.1\|1248795_1249317_-	rod shape-determining protein MreD	NA	NA	NA	NA
WP_002486084.1\|1249316_1250156_-	rod shape-determining protein MreC	NA	NA	NA	NA
WP_001830756.1\|1250562_1250703_-	hypothetical protein	NA	NA	NA	NA
WP_001832708.1\|1250786_1251272_-	DUF4930 family protein	NA	NA	NA	NA
WP_001830753.1\|1251436_1251616_+	hypothetical protein	NA	NA	NA	NA
WP_001092058.1\|1252054_1252717_-	methyltransferase domain-containing protein	NA	NA	NA	NA
WP_010959190.1\|1253108_1253168_+	erythromycin resistance leader peptide	NA	NA	NA	NA
WP_001072201.1\|1253250_1253982_+	23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(A)	E4ZFQ0	Streptococcus_phage	1.9e-51	47.5
WP_000067268.1\|1254107_1254890_-	aminoglycoside nucleotidyltransferase ANT(9)-Ia	NA	NA	NA	NA
WP_000361059.1\|1255040_1255418_-\|transposase	transposase	NA	NA	NA	NA
WP_001557544.1\|1255424_1257317_-\|integrase	tyrosine-type recombinase/integrase	NA	NA	NA	NA
WP_000868132.1\|1257313_1258399_-\|integrase	tyrosine-type recombinase/integrase	A0A0A8WIF9	Clostridium_phage	4.5e-12	28.3
WP_002485656.1\|1259068_1259779_-	prepilin peptidase	NA	NA	NA	NA
WP_002440172.1\|1259962_1261228_-	bifunctional folylpolyglutamate synthase/dihydrofolate synthase	NA	NA	NA	NA
WP_001830862.1\|1261238_1263869_-\|tRNA	valine--tRNA ligase	A0A1V0S951	Catovirus	7.5e-154	40.9
WP_001830783.1\|1264211_1264772_+	DNA-3-methyladenine glycosylase I	NA	NA	NA	NA
WP_001830878.1\|1264938_1266006_-	AbrB family transcriptional regulator	NA	NA	NA	NA
WP_002456470.1\|1266295_1267579_-	glutamate-1-semialdehyde 2,1-aminomutase	NA	NA	NA	NA
WP_002440176.1\|1267602_1268577_-	porphobilinogen synthase	NA	NA	NA	NA
WP_001832668.1\|1268566_1269247_-	uroporphyrinogen-III synthase	NA	NA	NA	NA
WP_001830811.1\|1269280_1270207_-	hydroxymethylbilane synthase	NA	NA	NA	NA
WP_002486196.1\|1270260_1271073_-	cytochrome c biogenesis protein CcsA	NA	NA	NA	NA
WP_001830773.1\|1271094_1272441_-\|tRNA	glutamyl-tRNA reductase	NA	NA	NA	NA
WP_001830838.1\|1272610_1273198_-	YihA family ribosome biogenesis GTP-binding protein	NA	NA	NA	NA
WP_001830765.1\|1273309_1274572_-\|protease	ATP-dependent Clp protease ATP-binding subunit ClpX	G3M9Z9	Bacillus_virus	7.7e-141	61.7
WP_001830810.1\|1274858_1276160_-	trigger factor	NA	NA	NA	NA
WP_001830807.1\|1276320_1277244_-	hypothetical protein	NA	NA	NA	NA
WP_001830874.1\|1277260_1277872_-	NUDIX domain-containing protein	A0A060AB76	Staphylococcus_phage	8.1e-19	34.4
WP_001830839.1\|1278289_1278646_-	50S ribosomal protein L20	NA	NA	NA	NA
WP_001830767.1\|1278697_1278898_-	50S ribosomal protein L35	NA	NA	NA	NA
WP_001830789.1\|1278925_1279453_-	translation initiation factor IF-3	A0A2L0UZ54	Agrobacterium_phage	1.4e-11	33.8
WP_001830900.1\|1279660_1281163_-	amino acid permease	NA	NA	NA	NA
WP_002440177.1\|1281591_1283529_-\|tRNA	threonine--tRNA ligase	A0A2K9L6B6	Tupanvirus	2.3e-115	36.7
WP_001830772.1\|1283881_1284802_-	primosomal protein DnaI	S5MU12	Brevibacillus_phage	3.4e-29	31.2
WP_001830762.1\|1284801_1286172_-	DnaD domain protein	NA	NA	NA	NA
WP_001830825.1\|1286172_1286643_-	transcriptional repressor NrdR	NA	NA	NA	NA
WP_107362591.1\|1286992_1287112_+	hypothetical protein	NA	NA	NA	NA
WP_002440179.1\|1287162_1288188_-	type I glyceraldehyde-3-phosphate dehydrogenase	NA	NA	NA	NA
WP_001830774.1\|1289031_1289643_-	dephospho-CoA kinase	NA	NA	NA	NA
WP_001830823.1\|1289658_1290531_-	bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase	G3MA33	Bacillus_virus	1.2e-44	39.3
WP_002440182.1\|1290546_1293177_-	DNA polymerase I	A8E2B3	Enterococcus_phage	1.0e-46	33.4
WP_002486197.1\|1293471_1295169_-	sensor histidine kinase	W8CYF6	Bacillus_phage	1.0e-31	36.7
WP_001830897.1\|1295168_1295879_-	response regulator transcription factor	Q6XM27	Feldmannia_irregularis_virus	1.4e-06	29.5
WP_001830826.1\|1296194_1297463_-	NADP-dependent isocitrate dehydrogenase	Q77Z09	Phage_21	9.2e-09	55.6
1296124:1296140	attR	NA	NA	NA	NA
WP_001830889.1\|1297505_1298627_-	citrate synthase	NA	NA	NA	NA
WP_000195429.1\|1298755_1299928_-\|transposase	IS256-like element IS256 family transposase	A0A0N9STL0	Staphylococcus_phage	3.5e-135	100.0

DBSCAN-SWA_5

1365620 : 1400420

Staphylococcus_phage(89.47%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_010959194.1\|1365620_1376699_-	YSIRK signal domain/LPXTG anchor domain surface protein	A0A2H4PQU6	Staphylococcus_phage	4.6e-27	25.5
WP_001830891.1\|1377103_1377415_-	rhodanese-like domain-containing protein	A0A2H4PQR9	Staphylococcus_phage	4.1e-35	71.8
WP_001830785.1\|1377440_1379858_-\|tRNA	leucine--tRNA ligase	A0A2H4PQS0	Staphylococcus_phage	0.0e+00	87.4
WP_002456450.1\|1380146_1381361_-	MFS transporter	A0A2H4PQR6	Staphylococcus_phage	3.0e-182	83.5
WP_002456449.1\|1381467_1382421_+	TIGR01212 family radical SAM protein	A0A2H4PQV5	Staphylococcus_phage	9.5e-67	84.0
WP_002456448.1\|1382417_1382981_+	class I SAM-dependent methyltransferase	A0A2H4PQV0	Staphylococcus_phage	6.2e-66	65.9
WP_001830809.1\|1383214_1383616_-	MarR family transcriptional regulator	NA	NA	NA	NA
WP_001830886.1\|1384105_1384933_-	alpha/beta hydrolase	NA	NA	NA	NA
WP_002485797.1\|1385176_1386178_+	proline dehydrogenase	A0A2H4PQT6	Staphylococcus_phage	1.2e-131	70.3
WP_002456446.1\|1386435_1386897_-	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	1.2e-59	84.2
WP_002502922.1\|1386909_1388091_-	3,4-dihydroxy-2-butanone-4-phosphate synthase	A0A2H4PQS2	Staphylococcus_phage	3.3e-178	75.8
WP_002494783.1\|1388103_1388736_-	riboflavin synthase	A0A2H4PQS5	Staphylococcus_phage	1.4e-87	77.6
WP_002494782.1\|1388742_1389786_-	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A2H4PQS8	Staphylococcus_phage	8.9e-135	66.8
WP_002484471.1\|1390221_1391706_-	FAD/NAD(P)-binding protein	A0A2H4PQX2	Staphylococcus_phage	2.5e-13	65.6
WP_001830727.1\|1392053_1392905_-	N-acetylglucosaminidase	A0A1J0MFB0	Staphylococcus_phage	1.0e-32	35.6
WP_002456441.1\|1393282_1393498_-	hypothetical protein	NA	NA	NA	NA
WP_002456440.1\|1393705_1394185_+	sigma-70 family RNA polymerase sigma factor	A0A2H4PQT5	Staphylococcus_phage	3.5e-25	42.3
WP_001830734.1\|1394190_1394634_+	competence protein ComK	NA	NA	NA	NA
WP_002456439.1\|1394620_1395064_-	hypothetical protein	A0A2H4PQT8	Staphylococcus_phage	9.0e-20	42.2
WP_001830731.1\|1395203_1395917_-	transaldolase	M1PR54	Cyanophage	4.1e-22	37.4
WP_002446728.1\|1396193_1396502_+	hypothetical protein	NA	NA	NA	NA
WP_001830726.1\|1396538_1396904_+	fluoride efflux transporter CrcB	A0A2H4PQR0	Staphylococcus_phage	4.1e-34	57.0
WP_001830729.1\|1396900_1397254_+	CrcB family protein	A0A2H4PQQ7	Staphylococcus_phage	8.5e-05	32.5
WP_001092058.1\|1398492_1399155_-	methyltransferase domain-containing protein	NA	NA	NA	NA
WP_010959190.1\|1399546_1399606_+	erythromycin resistance leader peptide	NA	NA	NA	NA
WP_001072201.1\|1399688_1400420_+	23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(A)	E4ZFQ0	Streptococcus_phage	1.9e-51	47.5

DBSCAN-SWA_6

1403751 : 1420553

Staphylococcus_phage(66.67%)

integrase

attL 1417406:1417421|attR 1422070:1422085

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000868132.1\|1403751_1404837_-\|integrase	tyrosine-type recombinase/integrase	A0A0A8WIF9	Clostridium_phage	4.5e-12	28.3
WP_002469577.1\|1405852_1406008_-	hypothetical protein	A0A146ICT8	Staphylococcus_phage	5.2e-15	79.6
WP_002456435.1\|1406292_1407129_-	aldo/keto reductase	A0A2H4PQR8	Staphylococcus_phage	6.1e-110	68.6
WP_002456434.1\|1407308_1408217_-	hypothetical protein	A0A2H4PQQ8	Staphylococcus_phage	1.8e-102	80.6
WP_001829830.1\|1408319_1409519_-	methionine adenosyltransferase	A0A2H4PQS6	Staphylococcus_phage	4.1e-192	85.4
WP_002469572.1\|1409888_1411481_+	phosphoenolpyruvate carboxykinase (ATP)	A0A2H4PQN1	Staphylococcus_phage	1.6e-268	83.6
WP_002456431.1\|1411711_1412497_-	S9 family peptidase	A0A2H4PQM6	Staphylococcus_phage	2.0e-99	71.3
WP_002456430.1\|1412483_1412951_-	nucleoside triphosphatase YtkD	A0A2H4PQM4	Staphylococcus_phage	5.5e-44	57.4
WP_002457867.1\|1413021_1413270_+	membrane protein insertion efficiency factor YidD	A0A2H4PQM5	Staphylococcus_phage	6.5e-36	83.1
WP_001829851.1\|1413266_1414268_-	o-succinylbenzoate synthase	A0A2H4PQM0	Staphylococcus_phage	6.9e-92	50.2
WP_002456429.1\|1414257_1415682_-	o-succinylbenzoate--CoA ligase	A0A2H4PQM9	Staphylococcus_phage	6.6e-173	63.9
WP_002456427.1\|1416932_1417598_+	Ltp family lipoprotein	A0A2H4J5B8	uncultured_Caudovirales_phage	7.0e-08	41.8
1417406:1417421	attL	NA	NA	NA	NA
WP_002456426.1\|1417759_1418047_+	hypothetical protein	A0A2H4JGN1	uncultured_Caudovirales_phage	5.5e-18	50.0
WP_002456424.1\|1418573_1419308_+	hypothetical protein	NA	NA	NA	NA
WP_002456423.1\|1419687_1419900_-	hypothetical protein	A0A2H4JCA1	uncultured_Caudovirales_phage	7.3e-20	72.9
WP_002456422.1\|1420058_1420553_+\|integrase	site-specific integrase	B7T092	Staphylococcus_virus	3.8e-67	76.1
1422070:1422085	attR	NA	NA	NA	NA

DBSCAN-SWA_7

1564991 : 1697887

146

Staphylococcus_phage(97.2%)

integrase,transposase,terminase,tail,holin

attL 1639122:1639140|attR 1699668:1699686

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002505947.1\|1564991_1566242_-	ammonium transporter	H8ZJB2	Ostreococcus_tauri_virus	8.7e-36	28.8
WP_001830019.1\|1566661_1566886_-	sulfurtransferase TusA family protein	NA	NA	NA	NA
WP_001260014.1\|1567767_1569306_-	recombinase family protein	A0A0N9RZT8	Staphylococcus_phage	5.3e-277	100.0
WP_002504503.1\|1569295_1569877_-	DNA-binding protein	A0A0N9SK69	Staphylococcus_phage	3.8e-103	100.0
WP_001130902.1\|1570078_1570672_-	RusA family crossover junction endodeoxyribonuclease	A0A0N7GFG7	Staphylococcus_phage	7.9e-112	100.0
WP_002504504.1\|1570655_1571051_-	hypothetical protein	A0A0N9RRM7	Staphylococcus_phage	5.1e-67	100.0
WP_002504505.1\|1571052_1571799_-	NTP pyrophosphohydrolase	A0A0N9SIY2	Staphylococcus_phage	5.6e-139	100.0
WP_002504506.1\|1571811_1572051_-	hypothetical protein	A0A0N9S8B1	Staphylococcus_phage	6.7e-38	100.0
WP_002504507.1\|1572066_1572315_-	thioredoxin family protein	A0A0N9SGY3	Staphylococcus_phage	1.8e-41	100.0
WP_002504508.1\|1572355_1572958_-	AAA family ATPase	A0A0N9RTZ3	Staphylococcus_phage	4.0e-111	100.0
WP_002504509.1\|1572985_1574008_-	class 1b ribonucleoside-diphosphate reductase subunit beta	A0A0N9SK77	Staphylococcus_phage	1.1e-198	100.0
WP_071813268.1\|1574053_1574410_-	ribonucleoside-diphosphate reductase	A0A2H4J2N6	uncultured_Caudovirales_phage	5.9e-38	60.2
WP_002504510.1\|1574600_1575425_-	HNH endonuclease	A0A0N9SHZ0	Staphylococcus_phage	2.7e-158	100.0
WP_002504511.1\|1575578_1578488_-	intein-containing class 1b ribonucleoside-diphosphate reductase subunit alpha	A0A0N7GFG8	Staphylococcus_phage	0.0e+00	100.0
WP_002504512.1\|1578509_1578956_-	hypothetical protein	A0A0N9STF9	Staphylococcus_phage	4.0e-76	100.0
WP_002504513.1\|1578955_1579369_-	class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI	A0A0N9RZU5	Staphylococcus_phage	1.8e-70	99.3
WP_002504514.1\|1579398_1579551_-	hypothetical protein	A0A0N9SK94	Staphylococcus_phage	1.2e-21	100.0
WP_010959216.1\|1579569_1580271_-	hypothetical protein	A0A0N9RRN5	Staphylococcus_phage	1.1e-128	100.0
WP_002504516.1\|1580282_1580792_-	siphovirus Gp157 family protein	A0A0N9SIY9	Staphylococcus_phage	2.1e-84	100.0
WP_002504517.1\|1580917_1581514_-	hypothetical protein	A0A0N9S8C0	Staphylococcus_phage	1.9e-57	92.1
WP_000824898.1\|1581513_1581744_-	hypothetical protein	A0A0N9SGZ7	Staphylococcus_phage	1.8e-32	100.0
WP_000356944.1\|1581757_1581940_-	hypothetical protein	A0A0N7GFG9	Staphylococcus_phage	3.1e-27	100.0
WP_000792728.1\|1581942_1582296_-	hypothetical protein	A0A0N9RU04	Staphylococcus_phage	1.2e-59	100.0
WP_000598581.1\|1582328_1583327_-	DNA cytosine methyltransferase	A0A0N9SK84	Staphylococcus_phage	3.7e-194	100.0
WP_002504519.1\|1583341_1584028_-	methyltransferase domain-containing protein	A0A0N9SHZ9	Staphylococcus_phage	5.9e-127	100.0
WP_002504520.1\|1584017_1584209_-	hypothetical protein	A0A0N9STH2	Staphylococcus_phage	1.0e-33	100.0
WP_002504521.1\|1584201_1584813_-	nucleoside 2-deoxyribosyltransferase	A0A0N9RZV9	Staphylococcus_phage	2.8e-112	100.0
WP_002504522.1\|1584827_1585010_-	hypothetical protein	A0A0N9SKA8	Staphylococcus_phage	1.4e-27	100.0
WP_000865652.1\|1585009_1585261_-	hypothetical protein	A0A0N9RRP5	Staphylococcus_phage	3.8e-39	100.0
WP_002504525.1\|1585571_1585859_-	hypothetical protein	A0A0N9SIZ8	Staphylococcus_phage	4.4e-44	100.0
WP_002504526.1\|1585851_1586118_-	hypothetical protein	A0A0N9S8D1	Staphylococcus_phage	2.9e-42	100.0
WP_000119719.1\|1586129_1586303_-	hypothetical protein	A0A0N9SH07	Staphylococcus_phage	8.9e-24	100.0
WP_002504527.1\|1586416_1586806_-	hypothetical protein	A0A0N9RU12	Staphylococcus_phage	1.1e-50	100.0
WP_010959221.1\|1586893_1588192_-	ATP-dependent DNA ligase	A0A0N9SK95	Staphylococcus_phage	1.3e-244	100.0
WP_002504529.1\|1588201_1588516_-	hypothetical protein	A0A0N9SI08	Staphylococcus_phage	5.4e-51	100.0
WP_002504530.1\|1588653_1589034_-	hypothetical protein	A0A0N9STI1	Staphylococcus_phage	4.2e-50	99.2
WP_010959222.1\|1589145_1591632_-	hypothetical protein	A0A0N7GFH1	Staphylococcus_phage	0.0e+00	99.9
WP_010959223.1\|1592094_1593543_-	PHP domain-containing protein	A0A0N9SKC7	Staphylococcus_phage	1.5e-281	100.0
WP_002504533.1\|1593555_1593930_-	hypothetical protein	A0A0N9RRQ3	Staphylococcus_phage	7.3e-63	100.0
WP_002504534.1\|1594096_1594657_+	hypothetical protein	A0A0N9SJ02	Staphylococcus_phage	4.3e-67	100.0
WP_002504535.1\|1595009_1595414_+	YolD-like family protein	A0A0N9S8D9	Staphylococcus_phage	1.5e-74	100.0
WP_002504537.1\|1595661_1596303_-	hypothetical protein	A0A0N9RU21	Staphylococcus_phage	2.6e-60	100.0
WP_002504538.1\|1596408_1597131_-	hypothetical protein	A0A0N7GFH2	Staphylococcus_phage	2.5e-91	100.0
WP_000686449.1\|1597239_1598040_-	metallophosphoesterase	A0A0N9SKA2	Staphylococcus_phage	4.0e-151	100.0
WP_010959224.1\|1598043_1598538_-	hypothetical protein	A0A0N9SI15	Staphylococcus_phage	6.2e-86	100.0
WP_000755772.1\|1598594_1598864_-	hypothetical protein	A0A0N9STI7	Staphylococcus_phage	6.9e-39	100.0
WP_002504556.1\|1598847_1599039_-	hypothetical protein	A0A0N9RZX7	Staphylococcus_phage	3.9e-20	88.9
WP_002504557.1\|1599341_1599737_-	type II toxin-antitoxin system death-on-curing family toxin	A0A0N9SKD8	Staphylococcus_phage	1.0e-67	100.0
WP_002504558.1\|1599736_1599967_-	addiction module antitoxin	A0A0N9RRQ9	Staphylococcus_phage	1.7e-33	100.0
WP_002504559.1\|1600129_1600648_-	metallophosphoesterase	A0A0N9SJ06	Staphylococcus_phage	2.8e-97	99.4
WP_002504560.1\|1600647_1601298_-	hypothetical protein	A0A0N7GFH3	Staphylococcus_phage	3.1e-117	100.0
WP_002504561.1\|1601297_1601615_-	hypothetical protein	A0A0N9S8E9	Staphylococcus_phage	3.7e-52	100.0
WP_010959229.1\|1601607_1602333_-	metallophosphoesterase	A0A0N9SH20	Staphylococcus_phage	2.4e-139	100.0
WP_002504563.1\|1602332_1602554_-	hypothetical protein	A0A0N9RU28	Staphylococcus_phage	1.3e-35	100.0
WP_002504564.1\|1602573_1602750_-	hypothetical protein	A0A0N9SKB9	Staphylococcus_phage	1.1e-24	100.0
WP_002504565.1\|1602742_1603285_-	hypothetical protein	A0A0N9SI25	Staphylococcus_phage	2.7e-98	100.0
WP_002504566.1\|1603300_1603573_-	hypothetical protein	A0A0N9STJ5	Staphylococcus_phage	2.7e-43	100.0
WP_002504567.1\|1603598_1603754_-	transcriptional activator RinB	A0A0N9RZY5	Staphylococcus_phage	1.7e-18	100.0
WP_002504568.1\|1603750_1604035_-	hypothetical protein	A0A0N7GFH4	Staphylococcus_phage	5.0e-48	100.0
WP_001187008.1\|1604050_1604236_-	hypothetical protein	A0A0N9SKE7	Staphylococcus_phage	1.5e-24	100.0
WP_002504569.1\|1604220_1604400_-	hypothetical protein	A0A0N9RRR6	Staphylococcus_phage	2.1e-23	100.0
WP_002504570.1\|1604415_1604898_-	hypothetical protein	A0A0N9SJ15	Staphylococcus_phage	3.4e-73	100.0
WP_002504571.1\|1604899_1605088_-	Lar family restriction alleviation protein	A0A0N9S8F9	Staphylococcus_phage	8.2e-31	100.0
WP_002504572.1\|1605094_1605298_-	hypothetical protein	A0A0N9SH33	Staphylococcus_phage	5.7e-30	100.0
WP_002504573.1\|1605302_1605569_-	hypothetical protein	A0A0N9RU37	Staphylococcus_phage	1.0e-42	100.0
WP_002504574.1\|1605590_1605866_-	hypothetical protein	A0A0N9SKC5	Staphylococcus_phage	4.5e-46	100.0
WP_002504575.1\|1605888_1606128_-	hypothetical protein	A0A0N7GFH5	Staphylococcus_phage	1.7e-36	100.0
WP_000359469.1\|1606149_1606374_-	hypothetical protein	A0A0N9SI40	Staphylococcus_phage	2.0e-31	100.0
WP_000862563.1\|1606379_1606727_-	thermonuclease family protein	A0A0N9STK3	Staphylococcus_phage	4.4e-62	100.0
WP_002504576.1\|1606723_1607134_-	hypothetical protein	A0A0N9RZZ6	Staphylococcus_phage	7.0e-75	100.0
WP_000312937.1\|1607173_1607437_-	hypothetical protein	A0A0N9SKF2	Staphylococcus_phage	6.9e-44	100.0
WP_002504577.1\|1607439_1607748_-	hypothetical protein	A0A0N9RRS4	Staphylococcus_phage	5.8e-50	100.0
WP_002504579.1\|1608039_1608315_-	hypothetical protein	A0A0N7GFH6	Staphylococcus_phage	5.0e-45	100.0
WP_002504580.1\|1608327_1608525_-	hypothetical protein	A0A0N9SH39	Staphylococcus_phage	4.0e-28	100.0
WP_002504581.1\|1608535_1609582_-	hypothetical protein	A0A0N9RU46	Staphylococcus_phage	4.8e-197	100.0
WP_001106022.1\|1609625_1610300_+\|transposase	IS6-like element IS257 family transposase	A0A0N9SKD3	Staphylococcus_phage	6.2e-129	100.0
WP_000175735.1\|1610763_1611249_-	trimethoprim-resistant dihydrofolate reductase DfrC	A0A0N9S8H6	Staphylococcus_phage	1.1e-90	100.0
WP_000282655.1\|1611290_1612247_-	thymidylate synthase	A0A0N9SH48	Staphylococcus_phage	1.1e-190	100.0
WP_000195429.1\|1612761_1613934_+\|transposase	IS256-like element IS256 family transposase	A0A0N9STL0	Staphylococcus_phage	3.5e-135	100.0
WP_001028144.1\|1614063_1615503_-	aminoglycoside O-phosphotransferase APH(2'')-Ia	A0A1X9I6C2	Streptococcus_phage	3.8e-285	100.0
WP_000393259.1\|1615503_1615896_-	GNAT family N-acetyltransferase	A0A0N7GFH7	Staphylococcus_phage	6.9e-72	100.0
WP_000195429.1\|1615952_1617125_-\|transposase	IS256-like element IS256 family transposase	A0A0N9STL0	Staphylococcus_phage	3.5e-135	100.0
WP_010959234.1\|1617908_1618646_-	ribonuclease Z	A0A0N9RZK9	Staphylococcus_phage	1.1e-134	100.0
WP_010959235.1\|1618838_1620605_-	single-stranded DNA-binding protein	A0A0N9SK20	Staphylococcus_phage	0.0e+00	100.0
WP_002504675.1\|1620607_1621720_-	hypothetical protein	A0A0N9RRG7	Staphylococcus_phage	2.8e-219	100.0
WP_002504676.1\|1621736_1623269_-	helicase DnaB	A0A0N9SIU7	Staphylococcus_phage	5.6e-295	100.0
WP_002504677.1\|1623290_1623809_-	hypothetical protein	A0A0N9S850	Staphylococcus_phage	2.1e-92	100.0
WP_002504678.1\|1623885_1624854_-	ATP-binding protein	A0A0N9SGS5	Staphylococcus_phage	5.3e-182	100.0
WP_000852323.1\|1624977_1625937_-	hypothetical protein	A0A0N7GFF9	Staphylococcus_phage	6.7e-169	100.0
WP_000668931.1\|1625980_1626661_-	hypothetical protein	A0A0N9RTS7	Staphylococcus_phage	2.0e-127	100.0
WP_002504679.1\|1626678_1627167_-	hypothetical protein	A0A0N9SK25	Staphylococcus_phage	8.1e-54	100.0
WP_002504680.1\|1627182_1627431_-	hypothetical protein	A0A0N9SHT9	Staphylococcus_phage	2.0e-40	100.0
WP_002504681.1\|1627590_1628595_-	hypothetical protein	A0A0N9ST56	Staphylococcus_phage	3.1e-185	100.0
WP_002504682.1\|1628606_1629887_-	hypothetical protein	A0A0N9RZM2	Staphylococcus_phage	6.5e-236	100.0
WP_002504683.1\|1630197_1631241_-\|integrase	site-specific integrase	A0A0N9SK33	Staphylococcus_phage	3.8e-194	100.0
WP_002504685.1\|1631924_1632353_-	hypothetical protein	A0A0N9RRH5	Staphylococcus_phage	5.0e-76	100.0
WP_010959238.1\|1632430_1632952_-	hypothetical protein	A0A0N7GFG0	Staphylococcus_phage	4.4e-90	99.4
WP_010959239.1\|1632951_1633404_-	hypothetical protein	A0A0N9SIV3	Staphylococcus_phage	6.7e-79	100.0
WP_010959240.1\|1633519_1634200_-	hypothetical protein	A0A0N9S858	Staphylococcus_phage	4.6e-124	100.0
WP_002504623.1\|1634228_1634492_-	hypothetical protein	A0A0N9SGT4	Staphylococcus_phage	3.4e-43	100.0
WP_002504624.1\|1634584_1634908_-	hypothetical protein	A0A0N9RTT7	Staphylococcus_phage	1.5e-56	100.0
WP_002504625.1\|1634952_1635612_-	antirestriction protein ArdA	A0A0N9SK30	Staphylococcus_phage	9.4e-122	100.0
WP_010959241.1\|1635764_1636154_-	hypothetical protein	A0A0N9SHU5	Staphylococcus_phage	3.9e-67	100.0
WP_010959242.1\|1636290_1636551_-	hypothetical protein	A0A0N9ST70	Staphylococcus_phage	7.1e-41	100.0
WP_002504552.1\|1636625_1636841_-	hypothetical protein	A0A0N7GFG1	Staphylococcus_phage	2.2e-35	100.0
WP_002504554.1\|1637020_1637305_-	hypothetical protein	A0A0N9SK40	Staphylococcus_phage	1.6e-46	100.0
1639122:1639140	attL	NA	NA	NA	NA
WP_002504834.1\|1641199_1642075_-	hypothetical protein	A0A0N9SIV7	Staphylococcus_phage	4.8e-166	100.0
WP_000409961.1\|1642110_1644396_-	AAA family ATPase	A0A0N9S864	Staphylococcus_phage	0.0e+00	100.0
WP_002504833.1\|1644531_1646028_+	hypothetical protein	A0A0N9SGU3	Staphylococcus_phage	2.3e-269	100.0
WP_002504832.1\|1646287_1646617_+	HU family DNA-binding protein	A0A0N9RTU9	Staphylococcus_phage	1.7e-52	100.0
WP_000057341.1\|1646642_1646828_+	YonK family protein	A0A0N7GFG2	Staphylococcus_phage	1.7e-25	100.0
WP_002504831.1\|1646836_1648021_+	hypothetical protein	A0A0N9SK37	Staphylococcus_phage	1.3e-222	100.0
WP_001007716.1\|1649715_1650600_+	hypothetical protein	A0A0N9SHV5	Staphylococcus_phage	4.5e-172	100.0
WP_002504830.1\|1650592_1652392_+\|terminase	terminase	A0A0N9RZP6	Staphylococcus_phage	6.8e-207	100.0
WP_000389594.1\|1652409_1653972_+	hypothetical protein	A0A0N9SK48	Staphylococcus_phage	6.6e-299	100.0
WP_002504829.1\|1653964_1655344_+	hypothetical protein	A0A0N9RRJ7	Staphylococcus_phage	2.0e-246	100.0
WP_002504828.1\|1655371_1655812_+	hypothetical protein	A0A0N9SIW4	Staphylococcus_phage	1.6e-77	100.0
WP_002504827.1\|1655850_1656852_+	hypothetical protein	A0A0N9S885	Staphylococcus_phage	3.3e-110	100.0
WP_000985467.1\|1656926_1657478_+	hypothetical protein	A0A0N9SGV3	Staphylococcus_phage	1.5e-80	100.0
WP_000134539.1\|1657495_1657930_+	hypothetical protein	A0A0N9RTW0	Staphylococcus_phage	3.5e-69	100.0
WP_001086334.1\|1657919_1658237_+	hypothetical protein	A0A0N9SK47	Staphylococcus_phage	2.6e-53	100.0
WP_000384369.1\|1658240_1658906_+	hypothetical protein	A0A0N9SHW2	Staphylococcus_phage	1.3e-123	100.0
WP_001177112.1\|1658895_1659417_+	hypothetical protein	A0A0N9ST98	Staphylococcus_phage	2.0e-95	100.0
WP_000391855.1\|1659422_1660295_+	hypothetical protein	A0A0N9RZR7	Staphylococcus_phage	1.5e-159	100.0
WP_002504825.1\|1660333_1661125_+	hypothetical protein	A0A0N7GFG4	Staphylococcus_phage	5.4e-140	100.0
WP_000700062.1\|1661208_1661766_+	hypothetical protein	A0A0N9SK55	Staphylococcus_phage	2.7e-98	100.0
WP_002504823.1\|1661765_1662239_+	hypothetical protein	A0A0N9RRK6	Staphylococcus_phage	3.5e-86	100.0
WP_010959245.1\|1662254_1663271_+\|integrase	site-specific integrase	A0A0N9SIX3	Staphylococcus_phage	3.6e-197	100.0
WP_010959246.1\|1663367_1671641_+\|tail	phage tail tape measure protein	A0A0N9S894	Staphylococcus_phage	0.0e+00	100.0
WP_010959247.1\|1671662_1673744_+	hypothetical protein	A0A0N9SGW2	Staphylococcus_phage	0.0e+00	99.9
WP_002504819.1\|1673804_1681850_+	hypothetical protein	A0A0N9RTX0	Staphylococcus_phage	0.0e+00	100.0
WP_002504818.1\|1681852_1682227_+	hypothetical protein	A0A0N9SK58	Staphylococcus_phage	5.0e-64	100.0
WP_002504817.1\|1682219_1682387_+	hypothetical protein	A0A0N7GFG5	Staphylococcus_phage	3.1e-21	100.0
WP_002504816.1\|1682428_1685098_+	hypothetical protein	A0A0N9SHX2	Staphylococcus_phage	0.0e+00	99.9
WP_002504815.1\|1685204_1685606_+	hypothetical protein	A0A0N9STA8	Staphylococcus_phage	4.4e-66	100.0
WP_002504814.1\|1685587_1686100_+	hypothetical protein	A0A0N9RZS7	Staphylococcus_phage	8.5e-46	100.0
WP_002504813.1\|1686121_1686451_+\|holin	phage holin	A0A0N9SK62	Staphylococcus_phage	4.2e-54	100.0
WP_002504812.1\|1686502_1688896_+	SGNH/GDSL hydrolase family protein	A0A0N9RRL9	Staphylococcus_phage	0.0e+00	100.0
WP_002504811.1\|1688972_1690475_+	N-acetylmuramoyl-L-alanine amidase	A0A0N9SGX6	Staphylococcus_phage	3.4e-284	100.0
WP_002504810.1\|1690550_1690751_-	hypothetical protein	A0A0N9RTY2	Staphylococcus_phage	1.2e-27	100.0
WP_002504809.1\|1691130_1691307_-	hypothetical protein	A0A0N9SK66	Staphylococcus_phage	1.4e-24	100.0
WP_002504808.1\|1691445_1693092_-	hypothetical protein	A0A0N9SHY1	Staphylococcus_phage	0.0e+00	100.0
WP_002504807.1\|1693234_1693840_-	LPXTG cell wall anchor domain-containing protein	A0A0N9STB7	Staphylococcus_phage	3.8e-77	100.0
WP_002440364.1\|1694542_1694824_-	hypothetical protein	NA	NA	NA	NA
WP_002457061.1\|1694969_1695605_-	redox-sensing transcriptional repressor Rex	NA	NA	NA	NA
WP_010959251.1\|1695952_1697887_+	ABC-F family ATP-binding cassette domain-containing protein	A0A2H4UUX5	Bodo_saltans_virus	2.4e-48	27.2
1699668:1699686	attR	NA	NA	NA	NA

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NC_006663

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. NC_002976

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