CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
NZ_CP022486	Enterococcus faecalis ARO1/DG plasmid pARO1.3, complete sequence	1 crisprs	NA	0	3	2	0
NZ_CP022488	Enterococcus faecalis ARO1/DG chromosome, complete genome	1 crisprs	csa3,cas3,RT,cas14j,DinG,DEDDh	1	3	6	1
NZ_CP022484	Enterococcus faecalis ARO1/DG plasmid pARO1.1, complete sequence	0 crisprs	DinG	0	0	1	0
NZ_CP022485	Enterococcus faecalis ARO1/DG plasmid pARO1.2, complete sequence	0 crisprs	NA	0	0	5	0
NZ_CP022487	Enterococcus faecalis ARO1/DG plasmid pARO1.4, complete sequence	0 crisprs	NA	0	0	0	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NZ_CP022486_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP022486_1

13539-13769

Orphan

Consensus_repeat	Method
ATTTACACATTTACATTTGTGTAA	CRISPRCasFinder

3 spacers

The CRISPR arrays of NZ_CP022486_1

>merge|NZ_CP022486|1|13539-13769|CRISPRCasFinder
ATTTACACATTTACATTTGTGTAAATCTCTATACTTAAATTATACAATAGACAATTTAAATAATCAATGTTTTTTTACACATTTACACATTTTCATTTGTGTAATTAGTAATATAATCAATAATGGTAGTCTTCCGCTATGTGTATTTTTACAAATGTGTAAATGTACACATATTTTTGTTTAACCTGATAATATTCAAAATTAGATATTTACACAAATACATTTTTGCAC

>NZ_CP022486|1|1|13539-13769|CRISPRCasFinder
ATTTACACATTTACATTTGTGTAA	ATCTCTATACTTAAATTATACAATAGACAATTTAAATAATCAATGTTT
TTTTACACATTTACACATTTTCAT	TTGTGTAATTAGTAATATAATCAATAATGGTAGTCTTCCGCT
ATGTGTATTTTTACAAATGTGTAA	ATGTACACATATTTTTGTTTAACCTGATAATATTCAAAATTAGAT
ATTTACACAAATACATTTTTGCAC

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP022486.1\|WP_100908274.1\|16505_17192_+\|IS6-like-element-IS1216-family-transposase	unknown	unknown	gnl\|CDD\|225853
NZ_CP022486.1\|WP_002382056.1\|13898_14906_+\|replication-initiator-protein-A	unknown	unknown	gnl\|CDD\|369151
NZ_CP022486.1\|WP_100908273.1\|8629_8761_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP022486.1\|WP_002403282.1\|11800_12097_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP022486.1\|WP_001835296.1\|10145_10361_+\|peptide-binding-protein	unknown	unknown	gnl\|CDD\|311623
NZ_CP022486.1\|WP_001059542.1\|21069_22038_-\|D-lactate-dehydrogenase-VanH-A	unknown	unknown	gnl\|CDD\|240661
NZ_CP022486.1\|WP_001814874.1\|7679_7763_+\|23S-rRNA-methyltransferase-attenuation-leader-peptide	unknown	unknown	gnl\|CDD\|368836
NZ_CP022486.1\|WP_000635249.1\|7391_7631_+\|peptide-binding-protein	unknown	unknown	gnl\|CDD\|311623
NZ_CP022486.1\|WP_001280781.1\|23384_24080_-\|VanA-type-vancomycin-resistance-DNA-binding-response-regulator-VanR	unknown	unknown	gnl\|CDD\|223816
NZ_CP022486.1\|WP_001226076.1\|24293_24869_-\|recombinase-family-protein	unknown	unknown	gnl\|CDD\|239737
NZ_CP022486.1\|WP_002326827.1\|9157_10054_+\|ParA-family-protein	unknown	unknown	gnl\|CDD\|366743
NZ_CP022486.1\|WP_000402347.1\|19431_20040_-\|D-Ala-D-Ala-dipeptidase-VanX-A	unknown	unknown	gnl\|CDD\|350616
NZ_CP022486.1\|WP_000516404.1\|17454_17940_-\|glycopeptide-resistance-protein-VanZ-A	unknown	unknown	gnl\|CDD\|377417
NZ_CP022486.1\|WP_024418925.1\|7887_8625_+\|23S-rRNA-(adenine(2058)-N(6))-methyltransferase-Erm(B)	unknown	unknown	gnl\|CDD\|366074
NZ_CP022486.1\|WP_001812592.1\|18092_19004_-\|D-Ala-D-Ala-carboxypeptidase-VanY-A	unknown	unknown	gnl\|CDD\|350624
NZ_CP022486.1\|WP_100908275.1\|22252_23407_-\|sensor-histidine-kinase	unknown	unknown	gnl\|CDD\|340400
NZ_CP022486.1\|WP_002382053.1\|12255_12597_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP022486.1\|WP_002326825.1\|10378_10651_+\|antitoxin	unknown	unknown	gnl\|CDD\|370234
NZ_CP022486.1\|WP_002360667.1\|11450_11561_+\|type-I-toxin-antitoxin-system-Fst-family-toxin	unknown	unknown	unknown
NZ_CP022486.1\|WP_001079845.1\|20045_21077_-\|D-alanine--(R)-lactate-ligase-VanA	unknown	unknown	gnl\|CDD\|184750

Protein	Function_ID	Function_description	E-value
NZ_CP022486.1\|WP_000635249.1\|7391_7631_+\|peptide-binding-protein	gnl\|CDD\|311623	pfam07764, Omega_Repress, Omega Transcriptional Repressor. The omega transcriptional repressor regulates expression of involved in copy number control and stable maintenance of plasmids. The omega protein belongs to the structural superfamily of MetJ/Arc repressors featuring a ribbon-helix-helix DNA-binding motif with the beta-ribbon located in and recognising the major groove of operator DNA.	4.17852e-35
NZ_CP022486.1\|WP_100908274.1\|16505_17192_+\|IS6-like-element-IS1216-family-transposase	gnl\|CDD\|225853	COG3316, COG3316, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	5.79424e-92
NZ_CP022486.1\|WP_001835296.1\|10145_10361_+\|peptide-binding-protein	gnl\|CDD\|311623	pfam07764, Omega_Repress, Omega Transcriptional Repressor. The omega transcriptional repressor regulates expression of involved in copy number control and stable maintenance of plasmids. The omega protein belongs to the structural superfamily of MetJ/Arc repressors featuring a ribbon-helix-helix DNA-binding motif with the beta-ribbon located in and recognising the major groove of operator DNA.	3.67778e-37
NZ_CP022486.1\|WP_001059542.1\|21069_22038_-\|D-lactate-dehydrogenase-VanH-A	gnl\|CDD\|240661	cd12185, HGDH_LDH_like, Putative Lactate dehydrogenase and (R)-2-Hydroxyglutarate Dehydrogenase-like proteins, NAD-binding and catalytic domains. This group contains various putative dehydrogenases related to D-lactate dehydrogenase (LDH), (R)-2-hydroxyglutarate dehydrogenase (HGDH), and related enzymes, members of the 2-hydroxyacid dehydrogenases family. LDH catalyzes the interconversion of pyruvate and lactate, and HGDH catalyzes the NAD-dependent reduction of 2-oxoglutarate to (R)-2-hydroxyglutarate. Despite often low sequence identity within this 2-hydroxyacid dehydrogenase family, these proteins typically have a characteristic arrangement of 2 similar subdomains of the alpha/beta Rossmann fold NAD+ binding form. The NAD+ binding domain is inserted within the linear sequence of the mostly N-terminal catalytic domain, which has a similar domain structure to the internal NAD binding domain. Structurally, these domains are connected by extended alpha helices and create a cleft in which NAD is bound, primarily to the C-terminal portion of the 2nd (internal) domain.	9.97506e-164
NZ_CP022486.1\|WP_001814874.1\|7679_7763_+\|23S-rRNA-methyltransferase-attenuation-leader-peptide	gnl\|CDD\|368836	pfam06308, ErmC, 23S rRNA methylase leader peptide (ErmC). This family consists of several very short bacterial 23S rRNA methylase leader peptide (ErmC) sequences. ermC confers resistance to macrolide-lincosamide streptogramin B antibiotics by specifying a ribosomal RNA methylase, which results in decreased ribosomal affinity for these antibiotics. ermC expression is induced by exposure to erythromycin.	0.00200655
NZ_CP022486.1\|WP_000516404.1\|17454_17940_-\|glycopeptide-resistance-protein-VanZ-A	gnl\|CDD\|377417	pfam04892, VanZ, VanZ like family. This family contains several examples of the VanZ protein, but also contains examples of phosphotransbutyrylases.	2.39791e-14
NZ_CP022486.1\|WP_001280781.1\|23384_24080_-\|VanA-type-vancomycin-resistance-DNA-binding-response-regulator-VanR	gnl\|CDD\|223816	COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription].	1.60497e-88
NZ_CP022486.1\|WP_002326827.1\|9157_10054_+\|ParA-family-protein	gnl\|CDD\|366743	pfam01656, CbiA, CobQ/CobB/MinD/ParA nucleotide binding domain. This family consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from S.typhimurium, and CobQ from R. capsulatus. These amidases catalyze amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria. The family also contains dethiobiotin synthetases as well as the plasmid partitioning proteins of the MinD/ParA family.	7.04025e-46
NZ_CP022486.1\|WP_001226076.1\|24293_24869_-\|recombinase-family-protein	gnl\|CDD\|239737	cd03768, SR_ResInv, Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. Resolvases and invertases affect resolution or inversion and comprise a major phylogenic group. Resolvases (e.g. Tn3, gamma-delta, and Tn5044) normally recombine two sites in direct repeat causing deletion of the DNA between the sites. Invertases (e.g. Gin and Hin) recombine sites in inverted repeat to invert the DNA between the sites. Cointegrate resolution with gamma-delta resolvase requires the formation of a synaptosome of three resolvase dimers bound to each of two res sites on the DNA. Also included in this subfamily are some putative integrases including a sequence from bacteriophage phi-FC1.	2.39469e-42
NZ_CP022486.1\|WP_024418925.1\|7887_8625_+\|23S-rRNA-(adenine(2058)-N(6))-methyltransferase-Erm(B)	gnl\|CDD\|366074	pfam00398, RrnaAD, Ribosomal RNA adenine dimethylase.	1.80373e-86
NZ_CP022486.1\|WP_001812592.1\|18092_19004_-\|D-Ala-D-Ala-carboxypeptidase-VanY-A	gnl\|CDD\|350624	cd14852, LD-carboxypeptidase, L,D-carboxypeptidase DacB and LdcB, and related proteins. This L,D-carboxypeptidase family includes LdcB LD-Carboxypeptidase from Streptococcus pneumoniae, Bacillus anthracis, and Bacillus subtilis, and L,D-carboxypeptidase DacB from Streptococcus pneumonia and Lactococcus lactis. These enzymes are active against cell-wall-derived tetrapeptides and synthetic tetrapeptides lacking the sugar moiety but are inactive against tetrapeptides terminating in L-alanine. L,D-carboxypeptidase DacB plays a key role in the remodeling of S. pneumoniae peptidoglycan during cell division. It adopts a zinc-dependent carboxypeptidase fold and acts as an L,D-carboxypeptidase towards the tetrapeptide L-Ala-D-iGln-L-Lys-D-Ala of the peptidoglycan stem. This family also includes vanY D-Ala-D-Ala carboxypeptidase which is vancomycin-inducible and penicillin-resistant. VanY hydrolyzes depsipeptide- and D-alanyl-D-alanine-containing peptidoglycan precursors; it is insensitive to beta-lactams. All these enzymes belong to the MEROPS family M15 subfamily B.	1.58126e-53
NZ_CP022486.1\|WP_100908275.1\|22252_23407_-\|sensor-histidine-kinase	gnl\|CDD\|340400	cd16923, HATPase_VanS-like, Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Enterococcus faecium VanS. This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Enterococcus faecium VanS HK of the VanS-VanR two-component regulatory system (TCS) which activates the transcription of vanH, vanA and vanX vancomycin resistance genes. It also contains Ecoli YedV and PcoS, probable members of YedW-YedV TCS and PcoS-PcoR TCS, repectively. Proteins having this HATPase domain also contain a histidine kinase dimerization and phosphoacceptor domain (HisKA); most also have a HAMP sensor domain.	2.17489e-43
NZ_CP022486.1\|WP_002382056.1\|13898_14906_+\|replication-initiator-protein-A	gnl\|CDD\|369151	pfam06970, RepA_N, Replication initiator protein A (RepA) N-terminus. This of family of predicted proteins represents the N-terminus (approximately 80 residues) of replication initiator protein A (RepA), a DNA replication initiator in plasmids. Most proteins in this family are bacterial, but archaeal and eukaryotic members are also included.	1.67554e-28
NZ_CP022486.1\|WP_000402347.1\|19431_20040_-\|D-Ala-D-Ala-dipeptidase-VanX-A	gnl\|CDD\|350616	cd14817, D-Ala-D-Ala_dipeptidase_VanX, D-Ala-D-Ala dipeptidase VanX. D-Ala-D-Ala dipeptidase (also known as D-alanyl-D-alanine dipeptidase vanX; VanX; EC 3.4.13.22) is a Zn2+-dependent enzyme that mediates resistance to the antibiotic vancomycin in Enterococci and other bacteria (both Gram-positive and Gram-negative). It is part of a gene cluster that affects cell-wall biosynthesis. The operon triggers the termination of peptidoglycan precursors by D-Ala-(R)-lactate instead of D-Ala-D-Ala dipeptides. The enzyme is stereospecific, as L-Ala-L-Ala, D-Ala-L-Ala and L-Ala-D-Ala are not substrates. It belongs in the MEROPS peptidase family M15, subfamily D.	3.97618e-112
NZ_CP022486.1\|WP_002326825.1\|10378_10651_+\|antitoxin	gnl\|CDD\|370234	pfam08998, Epsilon_antitox, Bacterial epsilon antitoxin. The epsilon antitoxin, produced by various prokaryotes, forms part of a postsegregational killing system which is involved in the initiation of programmed cell death of plasmid-free cells. The protein is folded into a three-helix bundle that directly interacts with the zeta toxin, inactivating it.	2.03663e-42
NZ_CP022486.1\|WP_001079845.1\|20045_21077_-\|D-alanine--(R)-lactate-ligase-VanA	gnl\|CDD\|184750	PRK14568, vanB, D-alanine--D-lactate ligase; Provisional.	0

>NZ_CP022486.1|WP_002382053.1|12255_12597_-|hypothetical-protein
MTENRKPSLIGNRNKNLYQETPRPEQPYSGAETIPKDILANERGTIRVPLDQKIEFDALLATSEYHYTYELMAELVYEAVKNKTKEENKKYQETLAMLREKELKKIERKKMKK
>NZ_CP022486.1|WP_002403282.1|11800_12097_+|hypothetical-protein
MPRKTFVYPHPINAYIIKQLGITVEEFCELHAFSQGTVSSWITRNKKIETLPISFIYSLSLSASQTMDQVYSDLLKLQDDYLLHLEHHRRTKKIIDER
>NZ_CP022486.1|WP_002360667.1|11450_11561_+|type-I-toxin-antitoxin-system-Fst-family-toxin
MLFVKDLMSLVIAPIFVGLVLEMISRVLDEEDDNRK
>NZ_CP022486.1|WP_002326825.1|10378_10651_+|antitoxin
MAVTYEKTFEIEIINELSASVYNRVLNYVLNHELDTKNTRLLEVNLLNQLEVAQEVDLFQQPFEELQAIHEYWRSMNQYSKQILTKEKVA
>NZ_CP022486.1|WP_001835296.1|10145_10361_+|peptide-binding-protein
MIVGNLGAQKAKRNDTPISAKKDIMGDKTVRVRADLHHIIKIETAKNGGNVKEVMDQALEEYIRKYLPDKL
>NZ_CP022486.1|WP_002326827.1|9157_10054_+|ParA-family-protein
MIQYYYTKKEWGVVMEKEKLKILEELRRILNNKNEAIIILNNYFKGGVGKSKLSTMFAYLTDKLNLKVLMIDKDLQATLTKDLAKTFEVELPRVNFYEGLKNGNLASSIVHLTDNLDLIPGTFDLMLLPKLTRSWTFENESRLLATLLAPLKSDYDLIIIDTVPTPSVYTNNAIVASDYVMIPLQAEEESTNNIQNYISYLIDLQEQFNPGLDMIGFVPYLVDTDSATIKSNLEELYKQHKEDNLVFQNIIKRSNKVSTWSKNGITEHKGYDKKVLSMYENVFFEMLERIIQLENEKE
>NZ_CP022486.1|WP_100908273.1|8629_8761_+|hypothetical-protein
MSRFFKFGKLHVTKGNVDKLLGILLTASKKLKRSLAPTGNLYR
>NZ_CP022486.1|WP_024418925.1|7887_8625_+|23S-rRNA-(adenine(2058)-N(6))-methyltransferase-Erm(B)
MNKNIKYSQNFLTSEKVLNQIIKQLNLKETDTVYEIGTGKGHLTTKLAKISKQVTSIELDSHLFNLSSEKLKLNTRVTLIHQDILQFQFPNKQRYKIVGNIPYHLSTQIIKKVVFESHASDIYLIVEEGFYKRTLDIHRTLGLLLHTQVSIQQLLKLPAECFHPKPKVNSVLIKLTRHTTDVPDKYWKLYTYFVSKWVNREYRQLFTKNQFHQAMKHAKVNDLSTVTYEQVLSIFNSYLLFNGRK
>NZ_CP022486.1|WP_001814874.1|7679_7763_+|23S-rRNA-methyltransferase-attenuation-leader-peptide
MLVFQMRNVDKTSTVLKQTKNSDYADK
>NZ_CP022486.1|WP_000635249.1|7391_7631_+|peptide-binding-protein
MIVGNLGAQKEKRNDTPISAKKDIMGDKTVRVRADLHHIIKIETAKNGGNVKEVMEIRLRSKLKSVLIVHYLKILYNRN
>NZ_CP022486.1|WP_002382056.1|13898_14906_+|replication-initiator-protein-A
MENFQFYKSKEIYREKYYQMPKVFFTNEVYKSLSNDAKIAYMLLKDRFDNSVKNNWVDSEDNVYFIYTVAELMTLLNCREGKVSKIKKELEAVNLLKQKKGRVKKINGKIETTPNLLYLGKPNVTSEDVFKINEEQNNVNPVIAKIANTEKVNNINENPVIAKIANTEKVNDINENPVIAKIADNLFYTSYLDTLDTLDTKKEALQQQLLLDQFSEVQENTFLNKDSLKFIAAFSNTIQEAHEQVGTIIRAKTKVEKEYNLVLIGEDYQEEIDKCLRRVMHKIKTDSTVKSPKGLFYKSFYNLFVECALEKKSQLNKKSNSNTPGVITHNWVENQ
>NZ_CP022486.1|WP_100908274.1|16505_17192_+|IS6-like-element-IS1216-family-transposase
MTMNHFKGKQFQQDVIIVAVGYYLRYNLSYREVQEILYDRGINVSHTTIYRWVQEYGKLLYQIWKKKNKKSFYSWKMDETYIKIKGKWHYLYRAIDADGLTLDIWLRKKRDTQAAYAFLKRLVKQFDEPKVVVTDKAPSITSAFKRLKEYGFYQGTEHRTIKYLNNLIEQDHRPVKRRNKFYRSLRTASTTIKGMEAIRGLYKKTRKGGTLFGFSVCTEIKVLLGIPA
>NZ_CP022486.1|WP_000516404.1|17454_17940_-|glycopeptide-resistance-protein-VanZ-A
MGKILSRGLLALYLVTLIWLVLFKLQYNILSVFNYHQRSLNLTPFTATGNFREMIDNVIIFIPFGLLLNVNFKEIGFLPKFAFVLVLSLTFEIIQFIFAIGATDITDVITNTVGGFLGLKLYGLSNKHMNQKKLDRVIIFVGILLLVLLLVYRTHLRINYV
>NZ_CP022486.1|WP_001812592.1|18092_19004_-|D-Ala-D-Ala-carboxypeptidase-VanY-A
MKKLFFLLLLLFLIYLGYDYVNEALFSQEKVEFQNYDQNPKEHLENSGTSENTQEKTITEEQVYQGNLLLINSKYPVRQESVKSDIVNLSKHDELINGYGLLDSNIYMSKEIAQKFSEMVNDAVKGGVSHFIINSGYRDFDEQSVLYQEMGAEYALPAGYSEHNSGLSLDVGSSLTKMERAPEGKWIEENAWKYGFILRYPEDKTELTGIQYEPWHIRYVGLPHSAIMKEKNFVLEEYMDYLKEEKTISVSVNGEKYEIFYYPVTKNTTIHVPTNLRYEISGNNIDGVIVTVFPGSTHTNSRR
>NZ_CP022486.1|WP_000402347.1|19431_20040_-|D-Ala-D-Ala-dipeptidase-VanX-A
MEIGFTFLDEIVHGVRWDAKYATWDNFTGKPVDGYEVNRIVGTYELAESLLKAKELAATQGYGLLLWDGYRPKRAVNCFMQWAAQPENNLTKESYYPNIDRTEMISKGYVASKSSHSRGSAIDLTLYRLDTGELVPMGSRFDFMDERSHHAANGISCNEAQNRRRLRSIMENSGFEAYSLEWWHYVLRDEPYPNSYFDFPVK
>NZ_CP022486.1|WP_001079845.1|20045_21077_-|D-alanine--(R)-lactate-ligase-VanA
MNRIKVAILFGGCSEEHDVSVKSAIEIAANINKEKYEPLYIGITKSGVWKMCEKPCAEWENDNCYSAVLSPDKKMHGLLVKKNHEYEINHVDVAFSALHGKSGEDGSIQGLFELSGIPFVGCDIQSSAICMDKSLTYIVAKNAGIATPAFWVINKDDRPVAATFTYPVFVKPARSGSSFGVKKVNSADELDYAIESARQYDSKILIEQAVSGCEVGCAVLGNSAALVVGEVDQIRLQYGIFRIHQEVEPEKGSENAVITVPADLSAEERGRIQETAKKIYKALGCRGLARVDMFLQDNGRIVLNEVNTLPGFTSYSRYPRMMAAAGIALPELIDRLIVLALKG
>NZ_CP022486.1|WP_001059542.1|21069_22038_-|D-lactate-dehydrogenase-VanH-A
MNNIGITVYGCEQDEADAFHALSPRFGVMATIINANVSESNAKSAPFNQCISVGHKSEISASILLALKRAGVKYISTRSIGCNHIDTTAAKRMGITVDNVAYSPDSVADYTMMLILMAVRNVKSIVRSVEKHDFRLDSDRGKVLSDMTVGVVGTGQIGKAVIERLRGFGCKVLAYSRSRSIEVNYVPFDELLQNSDIVTLHVPLNTDTHYIISHEQIQRMKQGAFLINTGRGPLVDTYELVKALENGKLGGAALDVLEGEEEFFYSDCTQKPIDNQFLLKLQRMPNVIITPHTAYYTEQALRDTVEKTIKNCLDFERRQEHE
>NZ_CP022486.1|WP_100908275.1|22252_23407_-|sensor-histidine-kinase
MVIKLKNKKNDFSKLERKLYMYIVAIVVVAIVFVLYIRSMIRGKLGDWILSILENKYDLNHLDAMKLYQYSIRNNIDIFIYVAIVISILILCRVMLSKFAKYFDEINTGIDVLIQNEDKQIELSAEMDVMEQKLNTLKRTLEKREQDAKLAEQRKNDVVMYLAHDIKTPLTSIIGYLSLLDEAPDMPVDQKAKYVHITLDKAYRLEQLIDEFFEITRYNLQTITLTKTHIDLYYMLVQMTDEFYPQLSAHGKQAVIHAPEDLTVSGDPDKLARVFNNILKNAAAYSEDNSIIDITAGLSGDVVSIEFKNTGSIPKDKLAAIFEKFYRLDNARSSDTGGAGLGLAIAKEIIVQHGGQIYAESNDNYTTFRVELPAMPDLVDKRRS
>NZ_CP022486.1|WP_001280781.1|23384_24080_-|VanA-type-vancomycin-resistance-DNA-binding-response-regulator-VanR
MSDKILIVDDEHEIADLVELYLKNENYTVFKYYTAKEALECIDKSEIDLAILDIMLPGTSGLTICQKIRDKHTYPIIMLTGKDTEVDKITGLTIGADDYITKPFRPLELIARVKAQLRRYKKFSGVKEQNENVIVHSGLVINVNTHECYLNEKQLSLTPTEFSILRILCENKGNVVSSELLFHEIWGDEYFSKSNNTITVHIRHLREKMNDTIDNPKYIKTVWGVGYKIEK
>NZ_CP022486.1|WP_001226076.1|24293_24869_-|recombinase-family-protein
MRKIGYIRVSSTNQNPSRQFQQLNEIGMDIIYEEKVSGATKDREQLQKVLDDLQEDDIIYVTDLTRITRSTQDLFELIDNIRDKKASLKSLKDTWLDLSEDNPYSQFLITVMAGVNQLERDLIRMRQREGIELAKKEGKFKGRLKKYHKNHAGMNYAVKLYKEGNMTVNQICEITNVSRASLYRKLSEVNN

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NZ_CP022486_1	1.1\|13563\|48\|NZ_CP022486\|CRISPRCasFinder	13563-13610	48	NZ_CP022486	Enterococcus faecalis ARO1/DG plasmid pARO1.3, complete sequence	13563-13610	0	1.0
NZ_CP022486_1	1.1\|13563\|48\|NZ_CP022486\|CRISPRCasFinder	13563-13610	48	NC_014726	Enterococcus faecalis plasmid pTW9, complete sequence	5433-5480	0	1.0
NZ_CP022486_1	1.1\|13563\|48\|NZ_CP022486\|CRISPRCasFinder	13563-13610	48	MH830363	Enterococcus faecalis plasmid p1, complete sequence	62837-62884	0	1.0
NZ_CP022486_1	1.1\|13563\|48\|NZ_CP022486\|CRISPRCasFinder	13563-13610	48	NZ_CP028721	Enterococcus faecalis strain CVM N48037F plasmid pN48037F-1, complete sequence	25944-25991	0	1.0
NZ_CP022486_1	1.1\|13563\|48\|NZ_CP022486\|CRISPRCasFinder	13563-13610	48	NZ_CP042217	Enterococcus faecalis strain L8 plasmid pL8, complete sequence	84236-84283	0	1.0
NZ_CP022486_1	1.2\|13635\|42\|NZ_CP022486\|CRISPRCasFinder	13635-13676	42	NZ_CP022486	Enterococcus faecalis ARO1/DG plasmid pARO1.3, complete sequence	13635-13676	0	1.0
NZ_CP022486_1	1.2\|13635\|42\|NZ_CP022486\|CRISPRCasFinder	13635-13676	42	NC_014726	Enterococcus faecalis plasmid pTW9, complete sequence	5505-5546	0	1.0
NZ_CP022486_1	1.2\|13635\|42\|NZ_CP022486\|CRISPRCasFinder	13635-13676	42	MH830363	Enterococcus faecalis plasmid p1, complete sequence	62771-62812	0	1.0
NZ_CP022486_1	1.2\|13635\|42\|NZ_CP022486\|CRISPRCasFinder	13635-13676	42	NZ_CP028721	Enterococcus faecalis strain CVM N48037F plasmid pN48037F-1, complete sequence	25879-25920	0	1.0
NZ_CP022486_1	1.2\|13635\|42\|NZ_CP022486\|CRISPRCasFinder	13635-13676	42	NZ_CP042217	Enterococcus faecalis strain L8 plasmid pL8, complete sequence	84170-84211	0	1.0
NZ_CP022486_1	1.3\|13701\|45\|NZ_CP022486\|CRISPRCasFinder	13701-13745	45	MH830363	Enterococcus faecalis plasmid p1, complete sequence	62702-62746	0	1.0
NZ_CP022486_1	1.3\|13701\|45\|NZ_CP022486\|CRISPRCasFinder	13701-13745	45	NZ_CP028721	Enterococcus faecalis strain CVM N48037F plasmid pN48037F-1, complete sequence	25810-25854	0	1.0
NZ_CP022486_1	1.3\|13701\|45\|NZ_CP022486\|CRISPRCasFinder	13701-13745	45	NZ_CP042217	Enterococcus faecalis strain L8 plasmid pL8, complete sequence	84101-84145	0	1.0
NZ_CP022486_1	1.3\|13701\|45\|NZ_CP022486\|CRISPRCasFinder	13701-13745	45	NZ_CP022486	Enterococcus faecalis ARO1/DG plasmid pARO1.3, complete sequence	13701-13745	0	1.0
NZ_CP022486_1	1.3\|13701\|45\|NZ_CP022486\|CRISPRCasFinder	13701-13745	45	NC_014726	Enterococcus faecalis plasmid pTW9, complete sequence	5571-5615	0	1.0
NZ_CP022486_1	1.3\|13701\|45\|NZ_CP022486\|CRISPRCasFinder	13701-13745	45	NZ_KT290268	Enterococcus faecalis strain CK135 plasmid pPD1, complete sequence	5972-6016	1	0.978
NZ_CP022486_1	1.2\|13635\|42\|NZ_CP022486\|CRISPRCasFinder	13635-13676	42	NZ_KT290268	Enterococcus faecalis strain CK135 plasmid pPD1, complete sequence	6041-6082	2	0.952

1. spacer 1.1|13563|48|NZ_CP022486|CRISPRCasFinder matches to NZ_CP022486 (Enterococcus faecalis ARO1/DG plasmid pARO1.3, complete sequence) position: , mismatch: 0, identity: 1.0

atctctatacttaaattatacaatagacaatttaaataatcaatgttt	CRISPR spacer
atctctatacttaaattatacaatagacaatttaaataatcaatgttt	Protospacer
************************************************

2. spacer 1.1|13563|48|NZ_CP022486|CRISPRCasFinder matches to NC_014726 (Enterococcus faecalis plasmid pTW9, complete sequence) position: , mismatch: 0, identity: 1.0

atctctatacttaaattatacaatagacaatttaaataatcaatgttt	CRISPR spacer
atctctatacttaaattatacaatagacaatttaaataatcaatgttt	Protospacer
************************************************

3. spacer 1.1|13563|48|NZ_CP022486|CRISPRCasFinder matches to MH830363 (Enterococcus faecalis plasmid p1, complete sequence) position: , mismatch: 0, identity: 1.0

atctctatacttaaattatacaatagacaatttaaataatcaatgttt	CRISPR spacer
atctctatacttaaattatacaatagacaatttaaataatcaatgttt	Protospacer
************************************************

4. spacer 1.1|13563|48|NZ_CP022486|CRISPRCasFinder matches to NZ_CP028721 (Enterococcus faecalis strain CVM N48037F plasmid pN48037F-1, complete sequence) position: , mismatch: 0, identity: 1.0

atctctatacttaaattatacaatagacaatttaaataatcaatgttt	CRISPR spacer
atctctatacttaaattatacaatagacaatttaaataatcaatgttt	Protospacer
************************************************

5. spacer 1.1|13563|48|NZ_CP022486|CRISPRCasFinder matches to NZ_CP042217 (Enterococcus faecalis strain L8 plasmid pL8, complete sequence) position: , mismatch: 0, identity: 1.0

atctctatacttaaattatacaatagacaatttaaataatcaatgttt	CRISPR spacer
atctctatacttaaattatacaatagacaatttaaataatcaatgttt	Protospacer
************************************************

6. spacer 1.2|13635|42|NZ_CP022486|CRISPRCasFinder matches to NZ_CP022486 (Enterococcus faecalis ARO1/DG plasmid pARO1.3, complete sequence) position: , mismatch: 0, identity: 1.0

ttgtgtaattagtaatataatcaataatggtagtcttccgct	CRISPR spacer
ttgtgtaattagtaatataatcaataatggtagtcttccgct	Protospacer
******************************************

7. spacer 1.2|13635|42|NZ_CP022486|CRISPRCasFinder matches to NC_014726 (Enterococcus faecalis plasmid pTW9, complete sequence) position: , mismatch: 0, identity: 1.0

ttgtgtaattagtaatataatcaataatggtagtcttccgct	CRISPR spacer
ttgtgtaattagtaatataatcaataatggtagtcttccgct	Protospacer
******************************************

8. spacer 1.2|13635|42|NZ_CP022486|CRISPRCasFinder matches to MH830363 (Enterococcus faecalis plasmid p1, complete sequence) position: , mismatch: 0, identity: 1.0

ttgtgtaattagtaatataatcaataatggtagtcttccgct	CRISPR spacer
ttgtgtaattagtaatataatcaataatggtagtcttccgct	Protospacer
******************************************

9. spacer 1.2|13635|42|NZ_CP022486|CRISPRCasFinder matches to NZ_CP028721 (Enterococcus faecalis strain CVM N48037F plasmid pN48037F-1, complete sequence) position: , mismatch: 0, identity: 1.0

ttgtgtaattagtaatataatcaataatggtagtcttccgct	CRISPR spacer
ttgtgtaattagtaatataatcaataatggtagtcttccgct	Protospacer
******************************************

10. spacer 1.2|13635|42|NZ_CP022486|CRISPRCasFinder matches to NZ_CP042217 (Enterococcus faecalis strain L8 plasmid pL8, complete sequence) position: , mismatch: 0, identity: 1.0

ttgtgtaattagtaatataatcaataatggtagtcttccgct	CRISPR spacer
ttgtgtaattagtaatataatcaataatggtagtcttccgct	Protospacer
******************************************

11. spacer 1.3|13701|45|NZ_CP022486|CRISPRCasFinder matches to MH830363 (Enterococcus faecalis plasmid p1, complete sequence) position: , mismatch: 0, identity: 1.0

atgtacacatatttttgtttaacctgataatattcaaaattagat	CRISPR spacer
atgtacacatatttttgtttaacctgataatattcaaaattagat	Protospacer
*********************************************

12. spacer 1.3|13701|45|NZ_CP022486|CRISPRCasFinder matches to NZ_CP028721 (Enterococcus faecalis strain CVM N48037F plasmid pN48037F-1, complete sequence) position: , mismatch: 0, identity: 1.0

atgtacacatatttttgtttaacctgataatattcaaaattagat	CRISPR spacer
atgtacacatatttttgtttaacctgataatattcaaaattagat	Protospacer
*********************************************

13. spacer 1.3|13701|45|NZ_CP022486|CRISPRCasFinder matches to NZ_CP042217 (Enterococcus faecalis strain L8 plasmid pL8, complete sequence) position: , mismatch: 0, identity: 1.0

atgtacacatatttttgtttaacctgataatattcaaaattagat	CRISPR spacer
atgtacacatatttttgtttaacctgataatattcaaaattagat	Protospacer
*********************************************

14. spacer 1.3|13701|45|NZ_CP022486|CRISPRCasFinder matches to NZ_CP022486 (Enterococcus faecalis ARO1/DG plasmid pARO1.3, complete sequence) position: , mismatch: 0, identity: 1.0

atgtacacatatttttgtttaacctgataatattcaaaattagat	CRISPR spacer
atgtacacatatttttgtttaacctgataatattcaaaattagat	Protospacer
*********************************************

15. spacer 1.3|13701|45|NZ_CP022486|CRISPRCasFinder matches to NC_014726 (Enterococcus faecalis plasmid pTW9, complete sequence) position: , mismatch: 0, identity: 1.0

atgtacacatatttttgtttaacctgataatattcaaaattagat	CRISPR spacer
atgtacacatatttttgtttaacctgataatattcaaaattagat	Protospacer
*********************************************

16. spacer 1.3|13701|45|NZ_CP022486|CRISPRCasFinder matches to NZ_KT290268 (Enterococcus faecalis strain CK135 plasmid pPD1, complete sequence) position: , mismatch: 1, identity: 0.978

atgtacacatatttttgtttaacctgataatattcaaaattagat	CRISPR spacer
atgtacacataattttgtttaacctgataatattcaaaattagat	Protospacer
*********** *********************************

17. spacer 1.2|13635|42|NZ_CP022486|CRISPRCasFinder matches to NZ_KT290268 (Enterococcus faecalis strain CK135 plasmid pPD1, complete sequence) position: , mismatch: 2, identity: 0.952

ttgtgtaattagtaatataatcaataatggtagtcttccgct	CRISPR spacer
ttgtgtaattagtaatataatcaataatgaaagtcttccgct	Protospacer
*****************************. ***********

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

4510 : 13548

Streptococcus_phage(77.78%)

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_001062587.1\|4510_5128_+	recombinase family protein	A0A219YA40	Aeromonas_phage	2.9e-16	36.6
WP_000108743.1\|5127_7272_+	type IA DNA topoisomerase	A0A1X9I6W8	Streptococcus_phage	1.3e-268	98.6
WP_000635249.1\|7391_7631_+	peptide-binding protein	A0A1X9I6D5	Streptococcus_phage	6.8e-22	81.5
WP_001814874.1\|7679_7763_+	23S rRNA methyltransferase attenuation leader peptide	NA	NA	NA	NA
WP_024418925.1\|7887_8625_+	23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(B)	E4ZFQ0	Streptococcus_phage	8.2e-135	99.6
WP_100908273.1\|8629_8761_+	hypothetical protein	E4ZFP9	Streptococcus_phage	7.4e-15	95.3
WP_002326827.1\|9157_10054_+	ParA family protein	A0A1X9I765	Streptococcus_phage	1.1e-152	97.9
WP_001835296.1\|10145_10361_+	peptide-binding protein	A0A1X9I6D5	Streptococcus_phage	4.2e-31	97.1
WP_002326825.1\|10378_10651_+	antitoxin	A0A1X9I6E5	Streptococcus_phage	5.4e-07	96.7
WP_002360667.1\|11450_11561_+	type I toxin-antitoxin system Fst family toxin	NA	NA	NA	NA
WP_002403282.1\|11800_12097_+	hypothetical protein	NA	NA	NA	NA
WP_002382053.1\|12255_12597_-	hypothetical protein	NA	NA	NA	NA
WP_002386477.1\|12600_13548_-	AAA family ATPase	F0PIG8	Enterococcus_phage	2.4e-30	34.8

DBSCAN-SWA_2

21069 : 31130

Bacillus_phage(28.57%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001059542.1\|21069_22038_-	D-lactate dehydrogenase VanH-A	M1HUW8	Acanthocystis_turfacea_Chlorella_virus	3.5e-40	33.1
WP_100908275.1\|22252_23407_-	sensor histidine kinase	W8CYF6	Bacillus_phage	1.5e-13	23.3
WP_001280781.1\|23384_24080_-	VanA-type vancomycin resistance DNA-binding response regulator VanR	W8CYM9	Bacillus_phage	4.9e-36	37.7
WP_001226076.1\|24293_24869_-	recombinase family protein	A0A1V0E035	Clostridioides_phage	9.0e-20	34.8
WP_000684987.1\|25014_27981_+\|transposase	Tn3 family transposase	A0A1B0V7H9	Salmonella_phage	1.4e-212	39.9
WP_100908276.1\|28408_29023_-	hypothetical protein	NA	NA	NA	NA
WP_100908277.1\|29035_29953_-	ParA family protein	F0PIG8	Enterococcus_phage	2.4e-30	28.2
WP_100908278.1\|30170_31130_+\|transposase	IS30 family transposase	W5R8L2	Staphylococcus_phage	9.1e-33	36.1

Anti-CRISPR protein detection

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

2. NZ_CP022488

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Crispr_ID: NZ_CP022488_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP022488_1

1673231-1673531

Orphan

NA:II-A,II-B

Consensus_repeat	Method
GTTTTGGTACCATTCCAAACAACATGACTCTAAAACC	CRISPRCasFinder
AAACAACATGACTCTAAAAC	CRT
GTTTTGGTACCATTCCAAACAACATGACTCTAAAACC	PILER-CR

4 spacers

The CRISPR arrays of NZ_CP022488_1

>merge|NZ_CP022488|1|1673231-1673531|CRISPRCasFinder,CRT,PILER-CR
GTGATAGTTTGTTTTTTAACAACATGGCTCTAAAACAGGCAGCTCATCCGCTCTGAAATCTGGCAGGTTTTGGTACCATTCTAAACAACATGACTCTAAAACATCCACCGGTTCCCGCAGTCCCCACTTTATGTTTTGGTACCATTCCAAACAACATGACTCTAAAACCTCACTCGAAAGCTGAATTTTTAACGAAGCGTTTTGGTACCATTCCAAACAACATGACTCTAAAACCGATAACAATCTTGTTATAGAATGGGCTCAGTTTTGGTACCATTCCAAACAACATGACTCTAAAACC

>NZ_CP022488|1|1|1673231-1673531|CRISPRCasFinder
GTGATAGTTTGTTTTTTAACAACATGGCTCTAAAACA	GGCAGCTCATCCGCTCTGAAATCTGGCAG
GTTTTGGTACCATTCTAAACAACATGACTCTAAAACA	TCCACCGGTTCCCGCAGTCCCCACTTTAT
GTTTTGGTACCATTCCAAACAACATGACTCTAAAACC	TCACTCGAAAGCTGAATTTTTAACGAAGC
GTTTTGGTACCATTCCAAACAACATGACTCTAAAACC	GATAACAATCTTGTTATAGAATGGGCTCA
GTTTTGGTACCATTCCAAACAACATGACTCTAAAACC

>NZ_CP022488|1|1|1673247-1673530|CRT
TAACAACATGGCTCTAAAAC	AGGCAGCTCATCCGCTCTGAAATCTGGCAGGTTTTGGTACCATTCT
AAACAACATGACTCTAAAAC	ATCCACCGGTTCCCGCAGTCCCCACTTTATGTTTTGGTACCATTCC
AAACAACATGACTCTAAAAC	CTCACTCGAAAGCTGAATTTTTAACGAAGCGTTTTGGTACCATTCC
AAACAACATGACTCTAAAAC	CGATAACAATCTTGTTATAGAATGGGCTCAGTTTTGGTACCATTCC
AAACAACATGACTCTAAAAC

>NZ_CP022488|1|1|1673297-1673531|PILER-CR
GTTTTGGTACCATTCTAAACAACATGACTCTAAAACA	TCCACCGGTTCCCGCAGTCCCCACTTTAT
GTTTTGGTACCATTCCAAACAACATGACTCTAAAACC	TCACTCGAAAGCTGAATTTTTAACGAAGC
GTTTTGGTACCATTCCAAACAACATGACTCTAAAACC	GATAACAATCTTGTTATAGAATGGGCTCA
GTTTTGGTACCATTCCAAACAACATGACTCTAAAACC

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP022488.1\|WP_002356959.1\|1681313_1681658_-\|DUF1831-domain-containing-protein	unknown	unknown	gnl\|CDD\|370163
NZ_CP022488.1\|WP_002364246.1\|1666894_1668661_-\|thiol-reductant-ABC-exporter-subunit-CydC	unknown	unknown	gnl\|CDD\|227320
NZ_CP022488.1\|WP_100908287.1\|1672983_1673082_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP022488.1\|WP_002362074.1\|1678545_1679784_+\|multidrug-efflux-MFS-transporter	unknown	unknown	gnl\|CDD\|340949
NZ_CP022488.1\|WP_002362073.1\|1678013_1678529_+\|YbhB/YbcL-family-Raf-kinase-inhibitor-like-protein	unknown	unknown	gnl\|CDD\|176643
NZ_CP022488.1\|WP_002356976.1\|1670395_1671409_-\|cytochrome-d-ubiquinol-oxidase-subunit-II	unknown	unknown	gnl\|CDD\|376764
NZ_CP022488.1\|WP_002356966.1\|1676848_1677214_-\|DUF1033-family-protein	unknown	unknown	gnl\|CDD\|336361
NZ_CP022488.1\|WP_002366913.1\|1681725_1682871_-\|cysteine-desulfurase	unknown	unknown	gnl\|CDD\|224029
NZ_CP022488.1\|WP_080001655.1\|1663359_1663491_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP022488.1\|WP_002366911.1\|1679963_1681088_-\|tRNA-2-thiouridine(34)-synthase-MnmA	unknown	unknown	gnl\|CDD\|234664
NZ_CP022488.1\|WP_002366909.1\|1673688_1674552_-\|AraC-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|225117
NZ_CP022488.1\|WP_002364253.1\|1679757_1679907_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP022488.1\|WP_002366903.1\|1663567_1664779_-\|NAD(P)/FAD-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|224172
NZ_CP022488.1\|WP_002366910.1\|1674636_1676718_-\|DNA-topoisomerase-III	unknown	unknown	gnl\|CDD\|236078
NZ_CP022488.1\|WP_002366906.1\|1668657_1670391_-\|thiol-reductant-ABC-exporter-subunit-CydD	unknown	unknown	gnl\|CDD\|274323
NZ_CP022488.1\|WP_002366904.1\|1665834_1666815_+\|polyprenyl-synthetase-family-protein	unknown	unknown	gnl\|CDD\|223220
NZ_CP022488.1\|WP_002356974.1\|1671405_1672824_-\|cytochrome-ubiquinol-oxidase-subunit-I	unknown	unknown	gnl\|CDD\|376587
NZ_CP022488.1\|WP_002366902.1\|1660830_1663254_-\|DNA-translocase-FtsK	unknown	unknown	gnl\|CDD\|224588
NZ_CP022488.1\|WP_002360016.1\|1664807_1665713_-\|prenyltransferase	unknown	unknown	gnl\|CDD\|235695
NZ_CP022488.1\|WP_002356965.1\|1677311_1677881_-\|TetR/AcrR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|379115

Protein	Function_ID	Function_description	E-value
NZ_CP022488.1\|WP_002356959.1\|1681313_1681658_-\|DUF1831-domain-containing-protein	gnl\|CDD\|370163	pfam08866, DUF1831, Putative amino acid metabolism. Solution of the structure of the Lactobacillus plantarum protein from this family has indicated a potential new fold with remote similarities to TBP-like (TATA-binding protein) structures. This similarity, in combination with genomic context analysis, leads us to propose an involvement in amino-acid metabolism. The potentially novel fold is an alpha + beta fold comprising two beta sheets packed against a single helix. The enzyme is present in the cytosol.	1.33245e-53
NZ_CP022488.1\|WP_002364246.1\|1666894_1668661_-\|thiol-reductant-ABC-exporter-subunit-CydC	gnl\|CDD\|227320	COG4987, CydC, ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones].	0
NZ_CP022488.1\|WP_002366910.1\|1674636_1676718_-\|DNA-topoisomerase-III	gnl\|CDD\|236078	PRK07726, PRK07726, DNA topoisomerase 3.	0
NZ_CP022488.1\|WP_002362074.1\|1678545_1679784_+\|multidrug-efflux-MFS-transporter	gnl\|CDD\|340949	cd17391, MFS_MdtG_MDR_like, Multidrug resistance protein MdtG and similar multidrug resistance (MDR) transporters of the Major Facilitator Superfamily. This subfamily is composed of Escherichia coli multidrug resistance protein MdtG, Streptococcus pneumoniae multidrug resistance efflux pump PmrA, and similar multidrug resistance (MDR) transporters from bacteria. MDR transporters are drug/H+ antiporters (DHA) that mediate the efflux of a variety of drugs and toxic compounds, and confer resistance to these compounds. MdtG confers resistance to fosfomycin and deoxycholate. PmrA serves as an efflux pump for various substrates and is associated with fluoroquinolone resistance. MdtG-like MDR transporters belong to the bacterial MdtG-like and eukaryotic solute carrier 18 (SLC18) family of the Major Facilitator Superfamily (MFS) of transporters. MFS proteins are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	9.51661e-174
NZ_CP022488.1\|WP_002362073.1\|1678013_1678529_+\|YbhB/YbcL-family-Raf-kinase-inhibitor-like-protein	gnl\|CDD\|176643	cd00865, PEBP_bact_arch, PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea. PhosphatidylEthanolamine-Binding Proteins (PEBPs) are represented in all three major phylogenetic divisions (eukaryotes, bacteria, archaea). The members in this subgroup are present in bacterial and archaea. Members here include Escherichia coli YBHB and YBCL which are thought to regulate protein phosphorylation as well as Sulfolobus solfataricus SsCEI which inhibits serine proteases alpha-chymotrypsin and elastase. Although their overall structures are similar, the members of the PEBP family have very different substrates and oligomerization states (monomer/dimer/tetramer). In a few of the bacterial members present here the dimerization interface is proposed to form the ligand binding site, unlike in other PEBP members.	1.1162e-31
NZ_CP022488.1\|WP_002366904.1\|1665834_1666815_+\|polyprenyl-synthetase-family-protein	gnl\|CDD\|223220	COG0142, IspA, Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism].	3.59746e-80
NZ_CP022488.1\|WP_002356966.1\|1676848_1677214_-\|DUF1033-family-protein	gnl\|CDD\|336361	pfam06279, DUF1033, Protein of unknown function (DUF1033). This family consists of several hypothetical bacterial proteins. Many of the sequences in this family are annotated as putative DNA binding proteins but the function of this family is unknown.	4.62165e-64
NZ_CP022488.1\|WP_002366913.1\|1681725_1682871_-\|cysteine-desulfurase	gnl\|CDD\|224029	COG1104, NifS, Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism].	3.38321e-179
NZ_CP022488.1\|WP_002366909.1\|1673688_1674552_-\|AraC-family-transcriptional-regulator	gnl\|CDD\|225117	COG2207, AraC, AraC-type DNA-binding domain-containing proteins [Transcription].	3.80478e-26
NZ_CP022488.1\|WP_002366903.1\|1663567_1664779_-\|NAD(P)/FAD-dependent-oxidoreductase	gnl\|CDD\|224172	COG1252, Ndh, NADH dehydrogenase, FAD-containing subunit [Energy production and conversion].	6.43503e-121
NZ_CP022488.1\|WP_002366911.1\|1679963_1681088_-\|tRNA-2-thiouridine(34)-synthase-MnmA	gnl\|CDD\|234664	PRK00143, mnmA, tRNA-specific 2-thiouridylase MnmA; Reviewed.	0
NZ_CP022488.1\|WP_002366906.1\|1668657_1670391_-\|thiol-reductant-ABC-exporter-subunit-CydD	gnl\|CDD\|274323	TIGR02857, transport_ATP-binding_protein, thiol reductant ABC exporter, CydD subunit. The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex. Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD.	0
NZ_CP022488.1\|WP_002356976.1\|1670395_1671409_-\|cytochrome-d-ubiquinol-oxidase-subunit-II	gnl\|CDD\|376764	pfam02322, Cyt_bd_oxida_II, Cytochrome bd terminal oxidase subunit II. This family consists of cytochrome bd type terminal oxidases that catalyze quinol-dependent, Na+-independent oxygen uptake. Members of this family are integral membrane proteins and contain a protohaem IX centre B558. One member of the family, Klebsiella pneumoniae CydB, is implicated in having an important role in micro-aerobic nitrogen fixation in the enteric bacterium Klebsiella pneumoniae. The family forms an integral functional unit with subunit I, family Bac_Ubq_Cox, pfam01654.	9.60464e-103
NZ_CP022488.1\|WP_002356974.1\|1671405_1672824_-\|cytochrome-ubiquinol-oxidase-subunit-I	gnl\|CDD\|376587	pfam01654, Cyt_bd_oxida_I, Cytochrome bd terminal oxidase subunit I. This family are the alternative oxidases found in many bacteria which oxidize ubiquinol and reduce oxygen as part of the electron transport chain. This family is the subunit I of the oxidase E. coli has two copies of the oxidase, bo and bd', both of which are represented here In some nitrogen fixing bacteria, e.g. Klebsiella pneumoniae this oxidase is responsible for removing oxygen in microaerobic conditions, making the oxidase required for nitrogen fixation. This subunit binds a single b-haem, through ligands at His186 and Met393 (using SW:P11026 numbering). In addition His19 is a ligand for the haem b found in subunit II.	0
NZ_CP022488.1\|WP_002366902.1\|1660830_1663254_-\|DNA-translocase-FtsK	gnl\|CDD\|224588	COG1674, FtsK, DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning].	7.22826e-175
NZ_CP022488.1\|WP_002360016.1\|1664807_1665713_-\|prenyltransferase	gnl\|CDD\|235695	PRK06080, PRK06080, 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated.	8.82053e-105
NZ_CP022488.1\|WP_002356965.1\|1677311_1677881_-\|TetR/AcrR-family-transcriptional-regulator	gnl\|CDD\|379115	pfam13305, WHG, WHG domain. This presumed domain is around 80 amino acids in length. It is found to the C-terminus of a DNA-binding helix-turn-helix domain. This domain may be involved in binding to an as yet unknown ligand that allows a transcriptional regulation response to that molecule. The domain is named WHG after three conserved residues near the C-terminus of the domain.	2.91104e-15

>NZ_CP022488.1|WP_100908287.1|1672983_1673082_-|hypothetical-protein
MIEEREEILLAPKKIVRNASVLFGFCLRKLYT
>NZ_CP022488.1|WP_002356974.1|1671405_1672824_-|cytochrome-ubiquinol-oxidase-subunit-I
MFDIVTLARIQFAMTTVFHFFFVPFSIGLALVVAIMETMYVVKKEERYRKMAKFWGNIFLLSFAVGVVTGIIQEFQFGMNWSDYSRFVGDIFGAPLAVEALLAFFLESTFLGLWIFTWDKMNPKVHVTFIWLVVFGSMMSAFWILVANSFMQHPVGYVINNGRAEMVDFVAVISNPKVWYEFSHVIMGAFTLGGMAVAGMAAFQLLKKRDISFHKASMRIGLWVTLFGSIGVLLAGDLQMKALIEGQPMKFAAMEGAYEDSDDPAAWTLIAWADEREHKQVFGIDIPYMLSILSYNKLSGSVDGMDTVNKRLVEKYGDDKNYYPPVNTLFWSFRIMAGFGALMLLVAALGLFFTRKKKPSLYEKKWMLWIVALCTFAPFLANTTGWLVTELGRYPWTVYGLFTIEQSVSPNVSVASLITSNVIYFLLFAGLGSVMVYLVILELRKGPDYEAKKLAKENEPALDPFDKGVFGE
>NZ_CP022488.1|WP_002356976.1|1670395_1671409_-|cytochrome-d-ubiquinol-oxidase-subunit-II
MSTLQLLWFVLIGVLFSGFFFLEGFDFGVGMAVQTLAHNDDEKDQVVATIGPVWDGNEVWLLTAGGAMFASFPYWYASLFSGYYLILFTILFGLIIRGVSFEFRHNMPEGKRRRMWNWTLSIGSFLVPFFFGILFISLVQGMPLDANGNMHAQFTDYFNLFSIVGGVALTLLCYLHGMNYIALKTEGPIRERARNYAEILYGVLYVGLVVFAVLMYFKTDFYEKNFAVTLILTLAIVVLTVIANVGVFKRKEMLAFLASGLTLVVLVALLFSGLFPRVMIGSEGFDLLIKDATSTPYTLKIMTWISLSILPFVLAYTAWSYYIFRKRISQTAVPEGY
>NZ_CP022488.1|WP_002366906.1|1668657_1670391_-|thiol-reductant-ABC-exporter-subunit-CydD
MIDKDILQMPKIKKILVLLAGFSFLQAVFIIGQAFFLSKAIVGLWSGGHLNQQLQSILLFFIFYLGRHVITYFRERMLDTFSYERSKELREQLLTKIFRLGPNVVQKNGTGNMVTMALEGISQTENYLQLILTKMMNMMIIPWIILAFVFTQDIRSGVTLLIVFPIIIIFMIVLGYAAQSKADKQYAAFQMLSNHFIDSLRGIDTLKLFGLSKKYAGSIYHTSERFRKATMSTLKIAILSTFALDFFTTLSVAVVAVFLGLSLLNGTILLFPALVTLILAPEFFLPIRDFSSDYHATLDGKNSFQAIQAVLSLPEAEQTDVLTLDDWHQESQLSVTALNFSYEDATQEAIQSLQFSVDGRKKIGIIGASGSGKSTLINLLSGFLLPTEETSQLAINGQTIPHFLQKDWQKQILYIPQAPYIFQDTLANNIRFYTPEATDEAIQQAIQLVGLDELVKDLPEGIHTLIGESGRMLSGGQAQRVALARAFVDQKRHVLLFDEPTAHLDIETEVEMKERMLPLMNNHLVFFATHRLHWMEEMDYILVMEKGQLVEQGTLAELIEKDGYYVQLMKQMRGGRQ
>NZ_CP022488.1|WP_002364246.1|1666894_1668661_-|thiol-reductant-ABC-exporter-subunit-CydC
MMEKQPTTKDVWKNDQWVRPFLKRYKKTLYFALLLGFLTFFSAGALMFTSGYLISRAASLPENILLIYIPIVLTRAFGIGRPVFRYVERLTSHNWVLKMTSDLRLKLYNVLEKDAIFFKTKYRTGDILGLLSEDINHIQNLYLRTIFPTVIAWILYIFLVIALGFFSWWFALCMLLMLGVVVFLLPLVSVLVNGARQEKHKYAKNELYQTLTDNILGVSDWVFSQRGSEFVARYETDEANVRALDEKMKQFNRGRDFVLQLLFGVIAIAVLAWTSVRFPGNHGGAANWIGAFVLTVFPLIDAFAPLPAAAQETTIYKDSIRRFNELPEGEDDSTEAPVQPNGTSLSIEHLSFAYENQEKKVLNDLSLTIPEKQKLAILGRSGSGKSTLASLIRGDLRPTSGEILLGNIPTEAFGETMTEYIGVMHQAPYLFRTTILNNIRIGREEASEAEVWAVLEKVGLKEMVAQLPEGLQTMVDEAGLRFSGGERHRLALARILLQDTPIVLLDEPTTGLDPITEQQLLETFFEALKDKTVIWITHHLQGVTLMDQVIFIEDGQLEMSGTPEELLATNAHYQKLYRIDRGISSFEE
>NZ_CP022488.1|WP_002366904.1|1665834_1666815_+|polyprenyl-synthetase-family-protein
MNTFWKSFPDVERSLTETCELIEQTLHTRNEDIEEALVTLARSGGKLLRPAFFFLFAQLGDEEKQEKQQLLKIAASLEILHMATLIHDDIIDDSPLRRGAVTIQSQYGKDVAVYTGDLLFTEFFTLIADAMNGSEFMKINAQGMKRLLLGELDQMSHRFDRRMSIPAYLRSVNGKTAELFSLSCLEGAYFGHSSKEVQRLAKRIGRHIGIAFQVYDDILDYTADTETLKKPALEDLSQGVYTLPLLFAYHAAPDVFSPYLDKGRAITLEEAAEVAALVNDYHGVTEAQAFAKKVTNKAITDIQQLPDGTAKETLLSLTELLLHRSF
>NZ_CP022488.1|WP_002360016.1|1664807_1665713_-|prenyltransferase
MNREIFFELVELKAKTASVLPFLLGICFSWYQYGRLHVGYVLIFFIAMFIFNMAVDILDNYNDYHHATEVHDYKEKTNIIGRENLSLPLIRKMIFWMILVSALMGIGLSFIVGWPLLIMGLYCYLIGIFYSSGPKPLSSLPLGEVFSGFTMGFMITLICVYINTFEVFNWSAANLWGIFLVALPNTCYIANLMLANNICDLEEDENNKRYTLVHYLGKASSLKLFVGLNTIAMLAILLAVGLGLTPPTMLLMLLTLPFVRKQTQALLKEQVKSKTFVCAVKILAVGATAQVLFFAIGLWWL
>NZ_CP022488.1|WP_002366903.1|1663567_1664779_-|NAD(P)/FAD-dependent-oxidoreductase
MNKKHVVILGAGYAGLKTLRELQKGAKDVEITLVDRNNYHYEATDLHEVAAGTQPAEKITYNIMDVVDEKMTTFIQGTVKTIDAATQTVALEDGQTINYDYLVVSLGFESESFGIPGVQEHALQMVDVKTALNVYEHIQEQMRQYKATQNEEFLKIVVCGAGFTGIELLGSLVENKQKFAEIAGVSADQIQIYCVEAVTRLLPMFNEKLANYGVQLLKDSAIHLLLGKPIKEIKPGAVVYQDNEAGDLAELSAKTIIWTTGVSGSHVVGDSGFEARRGRVMVQPDLTDANHSNVYIIGDCSAVMDTETNRPYPTTAQIALKMGAHAAKNIQAQLKGEATKPFSFKSQGSVCSVGNTRALGIVGKTDIKGYPASFMKKIIMNKALFETGGTKEMMAKGRFDLYH
>NZ_CP022488.1|WP_080001655.1|1663359_1663491_-|hypothetical-protein
MLFNFWRISAYFRRSWFCSRRLSVFERRAKIQSDFCPTLIFLK
>NZ_CP022488.1|WP_002366902.1|1660830_1663254_-|DNA-translocase-FtsK
MAQKRATNKKKSTTKKKTKKQQQQQERLNYMFLGLIFILFGVFGLFRLGFLGTLLANCLRLVVGNTFPFAAILLILYGLLVMIYGKDFPLKRGRPIFGAVLIYISVLLFFHAFMFRNVSGSQPDILGNTWEFLQSDLKANQVTQNVGGGMIGALLYQGTYFLVAQFGSYLIATLLLLAGIFLMSMWDFQQIVDHFQSIQDRLSHVSAKSQARQEEKEAKRAAKKEAKAAERQAKIEAAAQQKLQERERMEQAAAERLTKTPVETHQPMVEEPAAPTPVQIDSFQQQNQAMPVPPIAATKPQREQEEEASDEAGVLEFEISEEAEDRDYQLPPTDLLDTIQATDQSGEYEKIEKNIGVLEQTFKSFGVDAKVVKASLGPSVTKFEVQPAVGVKVSKIVNLTDDIALALAAKDVRMEAPIPGKSLIGIEVPNSAISTVSFRDIVEAQPSHPDKLLEVPLGRDISGMVQTADLSKMPHLLIAGSTGSGKSVAINGIITGILMQAKPHEVKLMMIDPKMVELNVYNGIPHLLTPVVTNPRKAAQALQKVVQEMEFRYEKFAATGVRNITGYNQLIQQKNAEDGENRPILPFIVVIVDELADLMMVASNEVEDAIIRLAQMARAAGIHMILATQRPSVDVITGIIKANVPSRMAFAVSSGTDSRTIIDTNGAEKLLGRGDMLFLPMGENKPIRIQGAFISDQEVERVVAFVTDQQEAEYQESMMPTDEPTTSGGGEAPQDELFEEAKNLVVEMQTASISLLQRRFRIGYNRAARLVDELEAHGVIGPSEGSKPRKVFLQAESEEAAPETPEQ
>NZ_CP022488.1|WP_002366909.1|1673688_1674552_-|AraC-family-transcriptional-regulator
MLVNLNQAMDYIEEHLTEEVSFDELAKKTGISVYHFKRTFSFIAGMSLAEYIKKRRLAEANLALLAGEKVTDVAFKYGYQSIEGFSRAFRDWSGQAPSEVMKTQIQKTFPKFSFYIDIKGGQSMDVKLIEKPAFQIVGVSQKVSLQYQGENQAIMELAQRITPQQRAEMHTFDDVYPHQVVNASFDFQEGRTTEGGEMTHMIGFATLQENIYEDLEQLSVPAHTWAVFPNEGPFPQILQETWARIFSEWLPSSGYQVVAAPEISFTQYQGPAEAKYSEIWLAVTATK
>NZ_CP022488.1|WP_002366910.1|1674636_1676718_-|DNA-topoisomerase-III
MVAKQLIIAEKPSVAKDLSRVLGANQKNKNYYEGPNVIVTWALGHLLGLKMPEDLNKEWQTWQMETLPMIPKNLGIKPLPKTGHQLKAIKQLANRKDVSEAVIATDAGREGELVARWILEYVRFNKPVKRLWISSQTDKAIKDGFKKIRPAKDYDNLYYSALARAKADWLVGLNVTRALTVKYQDNLSAGRVQTPTLAMVRQQEKTIEQFKPQTYFTISLTVESEKAKMTQKNPYALKERQEAEQLVKELSKQKGLVTDIQEKVKTENAPLPYDLTEIQREANQRFQFSAKKTLSLVQSLYETHKIVSYPRTDSKYLTTDMKGTMKERLQAIADFSPEVKGYLKNGAVVKQQKVFQNAKVTDHHGLIPTEQRPRYEKLSNDEQKIYQMIVQRFLGLFAEPNQTKQTKVTVAFGKETFVFHQNKVVVAGWKTTAEQPLSTVQWQKGMTVAPNFTINKELTSPPKPLTEGTLLGKMEKHSLGTPATRAEIIEKLIKSELMERTNSGLSVSAKGKQLLDLVNPSLVTPELTEKWEKSLEAIASGQQKSQLFLKDIEEDTKKLVREIKQSEKKYQDFSITHKKCPDCGSNLREKNTKDGKIYVCTNQECSYRRRKDPKVSNHRCPQCHKKMVIIEGKNGRSFKCKFCSITEKIPDKKERKQKMTKHEERRLMKKYSQPDEPEESALAQALKAAMNQE
>NZ_CP022488.1|WP_002356966.1|1676848_1677214_-|DUF1033-family-protein
MYQVITMYGDNEPWWFFDDWQEDIVQEKTFDNLTDAETYYVEVWQKLSQNYTYVNTKPNYLTAFWNDGEERWCEECDEDLQQYFGLALLENHHAVTFENKAEFTTISNHFGKTKFCKRKVI
>NZ_CP022488.1|WP_002356965.1|1677311_1677881_-|TetR/AcrR-family-transcriptional-regulator
MAKKRNLTKAKILESARNLAEELGVQQLTFQNLAVDLGIKYPSLYNHFKNIAEVKNALVDLLIQELNDALRRALVGKSGAEAIRIYAETYQQFAFENSAVYELLISVPKTQNQQLIEGIHETNQIILQLLAFYPFNNEERLHKSRELRSLIHGYITLRFLGYFQREEATPEESYRRMIEDFIASLEVAG
>NZ_CP022488.1|WP_002362073.1|1678013_1678529_+|YbhB/YbcL-family-Raf-kinase-inhibitor-like-protein
MHITNRSHLADRYGKRTSAEFLLHERPILSFPISLAAIPKEARYLSWELIDYDTIPLIGFPFIHWLAANVPVTNEIPEDFSRTALKPTIQGKNSLASPLGKQMIPALATETLPELTERYLGLSPRSGVHTYTLYVYATKNPLNLKEGFFANELHQALNDQRLAKAKFEFLY
>NZ_CP022488.1|WP_002362074.1|1678545_1679784_+|multidrug-efflux-MFS-transporter
MYELIKSKIFRPRQPWEKNLLVLWFGTFMAGIGFSLVMPFMPLYINTLGTFTHQQLNFWSGITFSSTFLVTTIVSPWWGRLADRKGRKLMLLRASLGMAIVISLMGAVTSVYQLIGLRLLQGVFSGYISNATALVATGTPKEKSGQVLGTLATGSVTGTLLGPLLGGVTASIFGYRPTFFITGTILLLVFVLSLVFVHEEFVPIEKNQAASGKQILKKLEHPHVILGMFITTLIIQASNNSISPIISLYIQQLLGGHGNVTLISGVIASIPGIATLIAAPRFGRLGDRIGSERILTIGLILAIFVYLPMAFVQNVWQLAMLRFLVGISDACLLPAVQTLITRYSPSDAAGRIFSYNQSFQATGNVIGPMIGSSVSAAFGYRGVFISTSCLVLLNLLWVRRSTAELKKEKNDD
>NZ_CP022488.1|WP_002364253.1|1679757_1679907_-|hypothetical-protein
MLVIKPVNISFSFLFYMPIFFKIRKREKLKIQIVDNFSVYNLVIIFLFF
>NZ_CP022488.1|WP_002366911.1|1679963_1681088_-|tRNA-2-thiouridine(34)-synthase-MnmA
MADNSKTRVVVGMSGGVDSSVTALLLKEQGYDVIGIFMKNWDDTDENGVCTATEDYKDVAKVADQIGIPYYSVNFEKEYWDRVFEYFLAEYRLGRTPNPDVMCNKEIKFKAFLDYAMQLGADYVATGHYAQVETDENGVVHMLRGIDNNKDQTYFLSQLSQAQLAKTMFPLGGMGKSEVRAIAERAGLATAKKKDSTGVCFIGEKNFKEFLSNYLPAKKGNMVTEDGEIKGQHDGLMYYTIGQRQGLGIGGGGKTQEPWFVIGKDLTTNTLYVGQGFHHEKLYATHLEASEVHFTVDTPMPKEFDCTAKFRYRQADIPVHVSLSEDGTKATVTFKEPARAVTPGQAVVFYDGMECLGGGLIDRAYQDEKELQYV
>NZ_CP022488.1|WP_002356959.1|1681313_1681658_-|DUF1831-domain-containing-protein
MAFTTTAAVEGSTVFYKVHPSAKRYTLKDNGFTETKSGNFQLIRSLDPTPQRNEGFKLKITITADLKELKMSITTANGLKPMNIFKNEQHEMSKEKYFFLMDGLISRGVLEKVE
>NZ_CP022488.1|WP_002366913.1|1681725_1682871_-|cysteine-desulfurase
MEPIYLDHAATTPLHPTVIQAMTENMQTTFGNPSSIHQFGRKAHGLLEEVRQTIAESLQAKPHEIIFNSGGTEGDNTAILAVAFSRQKEGKHIITTAIEHPAVLRTMEYLETLGFEVTYLPVNENGQISMDQFKKSLREETILVSMMYGNNEIGNRLPIAEVGAILKNHSAIFHTDAVQAYGSEVILPHELGIDLLSISAHKINGPKGVGFLFKSDAIQLPPLLHGGEQEEKRRAGTENLAGIIGMGTAVSLLTSTEKQARKTAYQSFQTIILKALEEANIDFSINGEPTNRLAHVLNLHLKGIPSDLLLMHLDLRGIAISTGSACTAGTVDPSHVLTAMYGENSSAIKESIRISFGYGNTPEEIATFSEVLVAVIQQLKK

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity
NZ_CP022488_1	1.3\|1673400\|29\|NZ_CP022488\|CRISPRCasFinder,PILER-CR	1673400-1673428	29	NZ_CP022488.1	2261493-2261521	0	1.0

1. spacer 1.3|1673400|29|NZ_CP022488|CRISPRCasFinder,PILER-CR matches to position: 2261493-2261521, mismatch: 0, identity: 1.0

tcactcgaaagctgaatttttaacgaagc	CRISPR spacer
tcactcgaaagctgaatttttaacgaagc	Protospacer
*****************************

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NZ_CP022488_1	1.4\|1673466\|29\|NZ_CP022488\|CRISPRCasFinder,PILER-CR	1673466-1673494	29	MN856013	Myoviridae sp. isolate 131, complete genome	8891-8919	7	0.759
NZ_CP022488_1	1.1\|1673268\|29\|NZ_CP022488\|CRISPRCasFinder	1673268-1673296	29	NZ_CP015957	Legionella pneumophila strain E9_O plasmid unnamed1, complete sequence	5201-5229	8	0.724
NZ_CP022488_1	1.2\|1673334\|29\|NZ_CP022488\|CRISPRCasFinder,PILER-CR	1673334-1673362	29	NZ_CP029174	Methylobacterium sp. DM1 plasmid pLVM1, complete sequence	113407-113435	8	0.724
NZ_CP022488_1	1.2\|1673334\|29\|NZ_CP022488\|CRISPRCasFinder,PILER-CR	1673334-1673362	29	MT024872	Streptomyces phage Muntaha, complete genome	71066-71094	8	0.724
NZ_CP022488_1	1.2\|1673334\|29\|NZ_CP022488\|CRISPRCasFinder,PILER-CR	1673334-1673362	29	MT024865	Streptomyces phage Wakanda, complete genome	70908-70936	8	0.724

1. spacer 1.4|1673466|29|NZ_CP022488|CRISPRCasFinder,PILER-CR matches to MN856013 (Myoviridae sp. isolate 131, complete genome) position: , mismatch: 7, identity: 0.759

gataacaatcttgttatagaatgggctca	CRISPR spacer
atcaacaatctttttatagaatgggtttg	Protospacer
. .********* ************.*..

2. spacer 1.1|1673268|29|NZ_CP022488|CRISPRCasFinder matches to NZ_CP015957 (Legionella pneumophila strain E9_O plasmid unnamed1, complete sequence) position: , mismatch: 8, identity: 0.724

ggcagctcatccgctctgaaatctggcag	CRISPR spacer
tattgctcatctgctctaaaatctggctt	Protospacer
 .. *******.*****.*********

3. spacer 1.2|1673334|29|NZ_CP022488|CRISPRCasFinder,PILER-CR matches to NZ_CP029174 (Methylobacterium sp. DM1 plasmid pLVM1, complete sequence) position: , mismatch: 8, identity: 0.724

tccaccggttcccgcagtccccactttat	CRISPR spacer
cccgccggttcccgcagtcccccggccac	Protospacer
.**.******************   ..*.

4. spacer 1.2|1673334|29|NZ_CP022488|CRISPRCasFinder,PILER-CR matches to MT024872 (Streptomyces phage Muntaha, complete genome) position: , mismatch: 8, identity: 0.724

tccaccggttcccgcagtccccactttat	CRISPR spacer
gggttcgattcccgcagtctccactttag	Protospacer
    .**.***********.********

5. spacer 1.2|1673334|29|NZ_CP022488|CRISPRCasFinder,PILER-CR matches to MT024865 (Streptomyces phage Wakanda, complete genome) position: , mismatch: 8, identity: 0.724

tccaccggttcccgcagtccccactttat	CRISPR spacer
gggttcgattcccgcagtctccactttag	Protospacer
    .**.***********.********

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

672001 : 679923

Planktothrix_phage(16.67%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002355794.1\|672001_673060_+	ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	2.0e-17	30.1
WP_002361357.1\|673059_674016_+	ATP-binding cassette domain-containing protein	A0A1J0FA64	Only_Syngen_Nebraska_virus	4.2e-06	23.9
WP_002366293.1\|674056_675127_+\|transposase	IS200/IS605 family element transposase accessory protein TnpB	A0A288TXV8	Enterococcus_phage	3.4e-89	49.0
WP_002355797.1\|675526_676048_+	translation initiation factor IF-3	A0A2L0UZ54	Agrobacterium_phage	3.0e-14	33.3
WP_002355798.1\|676161_676362_+	50S ribosomal protein L35	NA	NA	NA	NA
WP_002355799.1\|676422_676782_+	50S ribosomal protein L20	NA	NA	NA	NA
WP_002366295.1\|676829_677180_-	hypothetical protein	NA	NA	NA	NA
WP_002366296.1\|677277_677637_+	DUF1304 domain-containing protein	NA	NA	NA	NA
WP_002361364.1\|677764_678199_+	GNAT family N-acetyltransferase	NA	NA	NA	NA
WP_002366297.1\|678216_678732_+	GrpB family protein	A0A2K5B2B6	Erysipelothrix_phage	1.3e-38	48.2
WP_100908280.1\|678747_679923_-	SulP family inorganic anion transporter	A0A2H4J153	uncultured_Caudovirales_phage	6.6e-86	47.7

DBSCAN-SWA_2

726819 : 765346

Enterococcus_phage(65.79%)

protease,terminase,tail,portal,integrase,holin

attL 720445:720461|attR 753806:753822

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
720445:720461	attL	NA	NA	NA	NA
WP_002355867.1\|726819_727164_+\|protease	ribosomal-processing cysteine protease Prp	NA	NA	NA	NA
WP_002355868.1\|727176_727464_+	50S ribosomal protein L27	NA	NA	NA	NA
WP_025186567.1\|727551_728706_-\|integrase	site-specific integrase	Q9AZK8	Lactococcus_phage	2.2e-65	36.1
WP_002366325.1\|728771_729239_-	hypothetical protein	NA	NA	NA	NA
WP_002364671.1\|729280_729736_-	ImmA/IrrE family metallo-endopeptidase	NA	NA	NA	NA
WP_002363332.1\|729771_730197_-	helix-turn-helix transcriptional regulator	Q5YAA4	Bacillus_phage	7.8e-29	49.3
WP_002363333.1\|730431_730632_+	helix-turn-helix transcriptional regulator	A0A1S5SDM7	Streptococcus_phage	5.0e-10	50.0
WP_002363334.1\|730644_730929_+	hypothetical protein	NA	NA	NA	NA
WP_002366327.1\|730943_731666_+	phage regulatory protein	D2IYT0	Enterococcus_phage	7.3e-43	63.3
WP_002364224.1\|731699_731882_-	YegP family protein	NA	NA	NA	NA
WP_002366329.1\|732347_732671_+	hypothetical protein	D2IYT5	Enterococcus_phage	1.1e-48	92.5
WP_002366331.1\|732670_732898_+	hypothetical protein	D2IZX4	Enterococcus_phage	1.5e-34	97.3
WP_010717947.1\|732897_732996_+	hypothetical protein	D2IZX5	Enterococcus_phage	1.0e-08	96.9
WP_002366332.1\|732992_733268_+	hypothetical protein	D2IZX6	Enterococcus_phage	2.7e-38	98.9
WP_002366333.1\|733229_733607_-	hypothetical protein	D2IZX7	Enterococcus_phage	4.3e-63	99.2
WP_002366335.1\|733679_734621_+	endonuclease	D2IZK1	Enterococcus_phage	2.2e-169	95.2
WP_002366336.1\|734623_735514_+	hypothetical protein	D2IYT9	Enterococcus_phage	5.1e-163	99.7
WP_002366337.1\|735527_736487_+	DUF4373 domain-containing protein	D2IZR2	Enterococcus_phage	7.9e-146	89.3
WP_002366338.1\|736490_736790_+	hypothetical protein	D2IZY1	Enterococcus_phage	1.8e-43	90.9
WP_010717078.1\|736807_737233_+	RusA family crossover junction endodeoxyribonuclease	D2IYU2	Enterococcus_phage	4.0e-65	89.4
WP_002366340.1\|737229_737991_+	hypothetical protein	D2IYU3	Enterococcus_phage	3.7e-138	96.8
WP_002366345.1\|738562_738769_+	hypothetical protein	NA	NA	NA	NA
WP_002366346.1\|738772_738967_+	hypothetical protein	NA	NA	NA	NA
WP_002366347.1\|738979_739204_+	hypothetical protein	NA	NA	NA	NA
WP_002366348.1\|739256_739715_+	hypothetical protein	A0A0S2MYC7	Enterococcus_phage	6.9e-39	90.2
WP_002366349.1\|739726_740446_+	DUF1642 domain-containing protein	C9E2N9	Enterococcus_phage	6.8e-49	72.7
WP_025186569.1\|740628_740862_+	hypothetical protein	D2IZL5	Enterococcus_phage	3.7e-25	78.5
WP_002366352.1\|741060_741477_+	autolysin	D2IZ85	Enterococcus_phage	5.4e-67	97.8
WP_002390186.1\|742364_742532_+	hypothetical protein	NA	NA	NA	NA
WP_002366356.1\|742534_743869_+	ParB N-terminal domain-containing protein	D2IZZ5	Enterococcus_phage	8.6e-215	81.8
WP_002363360.1\|743906_744098_+	hypothetical protein	D2IZZ6	Enterococcus_phage	1.5e-24	95.2
WP_010783305.1\|744234_744423_+	hypothetical protein	D2IZZ7	Enterococcus_phage	7.4e-24	90.3
WP_002366359.1\|744442_745183_+	hypothetical protein	NA	NA	NA	NA
WP_002366360.1\|745229_746087_+\|terminase	small subunit of terminase	D2J000	Enterococcus_phage	5.2e-88	72.2
WP_002390185.1\|746064_747357_+\|terminase	PBSX family phage terminase large subunit	V5UQR5	Oenococcus_phage	4.6e-173	69.1
WP_002366362.1\|747356_748841_+\|portal	phage portal protein	A0A097QPZ5	Enterococcus_phage	1.1e-138	99.2
WP_002366363.1\|748833_749760_+	hypothetical protein	A0A097QPZ9	Enterococcus_phage	1.2e-127	94.3
WP_002366364.1\|749864_750518_+	DUF4355 domain-containing protein	NA	NA	NA	NA
WP_002366365.1\|750531_751428_+	hypothetical protein	U3PDP8	Lactobacillus_phage	3.5e-71	50.8
WP_002366366.1\|751498_751831_+	hypothetical protein	A0A1W6JNH7	Staphylococcus_phage	1.8e-09	40.6
WP_002366368.1\|751827_752103_+	hypothetical protein	NA	NA	NA	NA
WP_002363372.1\|752099_752438_+	hypothetical protein	A0A1L2K255	Streptococcus_phage	1.8e-12	38.7
WP_002363373.1\|752434_752827_+	DUF3168 domain-containing protein	NA	NA	NA	NA
WP_002364302.1\|752845_753451_+\|tail	phage major tail protein, TP901-1 family	NA	NA	NA	NA
WP_002366369.1\|753453_753762_+	hypothetical protein	L0P8M2	Lactobacillus_phage	2.7e-07	77.1
WP_002366370.1\|753824_754223_+	hypothetical protein	NA	NA	NA	NA
753806:753822	attR	NA	NA	NA	NA
WP_002366371.1\|754291_754597_+	hypothetical protein	NA	NA	NA	NA
WP_002366373.1\|754583_759038_+\|tail	phage tail tape measure protein	M1PKM6	Streptococcus_phage	8.6e-86	47.9
WP_002366374.1\|759034_759757_+	hypothetical protein	C5IUK4	Streptococcus_phage	3.6e-42	38.8
WP_002366375.1\|759756_761202_+	peptidase M23	A0A1X9IGI5	Lactococcus_phage	9.0e-77	39.2
WP_002366376.1\|761207_761948_+	hypothetical protein	A0A1X9IGH6	Lactococcus_phage	2.1e-29	35.0
WP_002390183.1\|761965_762445_+	hypothetical protein	Q1RNC2	Lactococcus_phage	5.6e-07	31.7
WP_010717882.1\|762458_762854_+	hypothetical protein	NA	NA	NA	NA
WP_002363386.1\|762855_762993_+	XkdX family protein	NA	NA	NA	NA
WP_010710709.1\|763022_763427_+\|holin	phage holin family protein	A0A097BY69	Enterococcus_phage	9.0e-59	83.6
WP_010710708.1\|763410_764244_+	hypothetical protein	A0A097BY70	Enterococcus_phage	4.6e-134	85.2
WP_079999908.1\|764876_765074_+	hypothetical protein	NA	NA	NA	NA
WP_002363390.1\|765094_765346_-	hypothetical protein	A0A097BYB1	Enterococcus_phage	4.6e-21	66.2

DBSCAN-SWA_3

1087981 : 1105752

Enterococcus_phage(46.15%)

holin,tail

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002366550.1\|1087981_1090375_+	translation initiation factor IF-2	A0A2H4UTS4	Bodo_saltans_virus	1.7e-19	24.1
WP_002360497.1\|1090399_1090750_+	30S ribosome-binding factor RbfA	NA	NA	NA	NA
WP_002357857.1\|1091122_1091596_-	toxin	A0A097BY56	Enterococcus_phage	1.1e-60	71.2
WP_002360496.1\|1091642_1092125_-	helix-turn-helix domain-containing protein	R9QTP6	Staphylococcus_phage	2.6e-20	47.7
WP_002366551.1\|1092293_1092476_+	hypothetical protein	NA	NA	NA	NA
WP_002366554.1\|1093295_1094138_+	ATP-binding protein	A0A0P0I3L9	Lactobacillus_phage	1.3e-30	30.7
WP_010706586.1\|1094140_1094233_+	hypothetical protein	NA	NA	NA	NA
WP_002413351.1\|1094225_1094597_+	hypothetical protein	NA	NA	NA	NA
WP_002360491.1\|1094616_1095024_+	RinA family phage transcriptional activator	NA	NA	NA	NA
WP_080001647.1\|1095269_1095662_+	hypothetical protein	NA	NA	NA	NA
WP_002366557.1\|1095674_1096187_+\|tail	phage major tail protein, TP901-1 family	W6LP72	Streptococcus_phage	8.8e-35	49.4
WP_002357848.1\|1096221_1096581_+	hypothetical protein	A0A0F6N4J9	Staphylococcus_phage	7.6e-09	32.2
WP_002366558.1\|1096598_1096967_+	hypothetical protein	A0A1P8BLR3	Lactococcus_phage	4.6e-09	39.7
WP_025186603.1\|1096956_1099890_+	membrane protein	A0A1U9WR55	Streptococcus_virus	6.2e-08	25.0
WP_002365553.1\|1099891_1100818_+\|tail	phage tail family protein	C9E2K5	Enterococcus_phage	9.0e-147	78.6
WP_002366561.1\|1100830_1102288_+	phage minor structural protein	C9E2K6	Enterococcus_phage	3.3e-175	47.4
WP_002366562.1\|1102320_1104090_+	hypothetical protein	A0A097BYA8	Enterococcus_phage	4.0e-143	64.1
WP_002357842.1\|1104113_1104509_+\|holin	phage holin family protein	F0PIJ6	Enterococcus_phage	2.8e-33	48.9
WP_080001648.1\|1104654_1105752_+	N-acetylmuramoyl-L-alanine amidase	A0A139ZVY1	Enterococcus_phage	5.2e-77	44.3

DBSCAN-SWA_4

1518958 : 1527602

Synechococcus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002366811.1\|1518958_1519531_-	phosphoribosylglycinamide formyltransferase	M4QRX9	Synechococcus_phage	4.1e-25	35.1
WP_002366812.1\|1519527_1520559_-	phosphoribosylformylglycinamidine cyclo-ligase	M4QRQ6	Synechococcus_phage	1.4e-55	45.2
WP_025186632.1\|1520560_1522000_-	amidophosphoribosyltransferase	A0A0M3SGR2	Mollivirus	3.6e-49	33.2
WP_002366814.1\|1521975_1524195_-	phosphoribosylformylglycinamidine synthase subunit PurL	A6N228	Microbacterium_phage	7.5e-147	39.8
WP_002357272.1\|1524191_1524866_-	phosphoribosylformylglycinamidine synthase subunit PurQ	NA	NA	NA	NA
WP_002357271.1\|1524866_1525118_-	phosphoribosylformylglycinamidine synthase subunit PurS	NA	NA	NA	NA
WP_002357270.1\|1525131_1525845_-	phosphoribosylaminoimidazolesuccinocarboxamide synthase	A0A0E3ELR0	Synechococcus_phage	4.3e-48	43.0
WP_002366816.1\|1525996_1527121_-	5-(carboxyamino)imidazole ribonucleotide synthase	NA	NA	NA	NA
WP_002366817.1\|1527113_1527602_-	5-(carboxyamino)imidazole ribonucleotide mutase	A0A2P0VNU7	Tetraselmis_virus	8.4e-19	42.0

DBSCAN-SWA_5

2203953 : 2213693

Streptococcus_phage(57.14%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002382497.1\|2203953_2206137_+	anaerobic ribonucleoside-triphosphate reductase	A0A0C5KKX3	Enterococcus_phage	4.0e-286	66.8
WP_002367217.1\|2206169_2206766_+	anaerobic ribonucleoside-triphosphate reductase activating protein	A0A0C5K925	Enterococcus_phage	7.8e-51	55.8
WP_002362328.1\|2206810_2207929_-	DNA polymerase IV	NA	NA	NA	NA
WP_002356377.1\|2208054_2208813_-	iron export ABC transporter permease subunit FetB	NA	NA	NA	NA
WP_002356375.1\|2208796_2209459_-	ATP-binding cassette domain-containing protein	G3M9Y6	Bacillus_virus	6.7e-19	31.1
WP_002356373.1\|2209473_2210346_-	16S rRNA (cytidine(1402)-2'-O)-methyltransferase	M1PLC5	Streptococcus_phage	6.2e-81	57.6
WP_002356372.1\|2210457_2210805_-	DNA replication initiation control protein YabA	M1PFV3	Streptococcus_phage	8.1e-16	36.7
WP_002356371.1\|2210797_2211637_-	stage 0 sporulation family protein	NA	NA	NA	NA
WP_002384059.1\|2211753_2212704_-	DNA polymerase III subunit delta'	M1NSC1	Streptococcus_phage	6.2e-34	33.0
WP_002356367.1\|2212705_2213035_-	hypothetical protein	NA	NA	NA	NA
WP_002356366.1\|2213054_2213693_-	dTMP kinase	M1PSC7	Streptococcus_phage	2.1e-54	53.8

DBSCAN-SWA_6

2234967 : 2283346

Enterococcus_phage(41.46%)

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

attL 2268007:2268022|attR 2287677:2287692

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002367232.1\|2234967_2235678_-\|protease	rhomboid family intramembrane serine protease	NA	NA	NA	NA
WP_002410102.1\|2235688_2236231_-	5-formyltetrahydrofolate cyclo-ligase	NA	NA	NA	NA
WP_002356329.1\|2236318_2237089_-	alpha/beta fold hydrolase	NA	NA	NA	NA
WP_002356327.1\|2237254_2237830_+	DUF805 domain-containing protein	NA	NA	NA	NA
WP_002367237.1\|2237935_2239486_+	membrane protein	NA	NA	NA	NA
WP_002367238.1\|2239506_2240571_+	DUF4950 domain-containing protein	C9E2L5	Enterococcus_phage	5.7e-20	51.5
WP_002367240.1\|2240848_2241913_-	FUSC family protein	NA	NA	NA	NA
WP_073340218.1\|2242168_2242366_-	hypothetical protein	NA	NA	NA	NA
WP_002367242.1\|2242923_2243373_-	hypothetical protein	NA	NA	NA	NA
WP_002367243.1\|2243372_2243654_-	hypothetical protein	NA	NA	NA	NA
WP_002367244.1\|2243650_2244232_-	hypothetical protein	NA	NA	NA	NA
WP_002367245.1\|2244637_2245939_-	LysM peptidoglycan-binding domain-containing protein	D2J077	Enterococcus_phage	6.6e-228	94.0
WP_002367246.1\|2245941_2246148_-\|holin	holin	A0A0S2MYF6	Enterococcus_phage	3.4e-30	98.5
WP_002367247.1\|2246150_2246384_-\|holin	holin	D2J075	Enterococcus_phage	7.0e-24	70.2
WP_002367248.1\|2246418_2246556_-	XkdX family protein	NA	NA	NA	NA
WP_010706840.1\|2246557_2246953_-	hypothetical protein	NA	NA	NA	NA
WP_002367250.1\|2246966_2247458_-	hypothetical protein	NA	NA	NA	NA
WP_002367251.1\|2247457_2247745_-	collagen-like protein	NA	NA	NA	NA
WP_002367252.1\|2247741_2248338_-	hypothetical protein	NA	NA	NA	NA
WP_002367253.1\|2248330_2249212_-\|plate	phage baseplate upper protein	Q9AYV5	Lactococcus_phage	1.8e-11	27.6
WP_002367254.1\|2249230_2252026_-	CHAP domain-containing protein	D7RWE0	Brochothrix_phage	4.2e-62	69.5
WP_025186681.1\|2252022_2252727_-\|tail	phage tail protein	NA	NA	NA	NA
WP_002367256.1\|2252732_2255036_-\|tail	phage tail tape measure protein	A0A0H3U2U8	Staphylococcus_phage	5.5e-84	51.0
WP_002367258.1\|2255227_2255683_-	hypothetical protein	A0A2H4J956	uncultured_Caudovirales_phage	3.4e-14	36.6
WP_029739094.1\|2255682_2256327_-\|tail	tail protein	A0A2H4JGN2	uncultured_Caudovirales_phage	1.5e-28	34.1
WP_010711252.1\|2256323_2256686_-	HK97 gp10 family phage protein	NA	NA	NA	NA
WP_002367262.1\|2256675_2257014_-	hypothetical protein	A0A1B0T6B7	Bacillus_phage	3.2e-25	53.2
WP_002367263.1\|2257003_2257330_-\|head	phage head closure protein	A0A0N7IRA3	Lactobacillus_phage	3.0e-20	52.4
WP_002365101.1\|2257307_2257589_-\|head,tail	phage gp6-like head-tail connector protein	A0A1B1P7M9	Bacillus_phage	7.2e-23	64.3
WP_002367264.1\|2257590_2258952_-\|capsid	phage major capsid protein	A0A1B2APY9	Phage_Wrath	4.4e-126	68.0
WP_002393805.1\|2258964_2259537_-\|head,protease	HK97 family phage prohead protease	A0A2H4J6Z9	uncultured_Caudovirales_phage	6.5e-63	62.4
WP_002388450.1\|2259508_2260735_-\|portal	phage portal protein	A0A2H4J9C7	uncultured_Caudovirales_phage	4.1e-147	66.3
WP_002367265.1\|2260758_2262486_-\|terminase	terminase large subunit	A0A2H4JDG5	uncultured_Caudovirales_phage	4.9e-255	70.9
WP_002365107.1\|2262482_2262935_-	hypothetical protein	A0A2H4JFK0	uncultured_Caudovirales_phage	8.0e-48	68.5
WP_002367266.1\|2263045_2263420_-	HNH endonuclease	A0A1B0T6C5	Bacillus_phage	1.7e-43	67.5
WP_002367268.1\|2263419_2263827_-	hypothetical protein	A0A1B1P7N8	Bacillus_phage	7.5e-13	38.6
WP_002367269.1\|2264355_2264823_-	ArpU family transcriptional regulator	D7RWH7	Brochothrix_phage	2.9e-08	27.8
WP_010710727.1\|2265210_2265411_-	hypothetical protein	D2IZL5	Enterococcus_phage	9.6e-30	89.4
WP_002367272.1\|2265593_2266112_-	DUF1642 domain-containing protein	D2IYV1	Enterococcus_phage	6.0e-39	53.8
WP_002367273.1\|2266130_2266328_-	hypothetical protein	A0A0C5K8R7	Enterococcus_phage	2.8e-13	60.8
WP_025186682.1\|2266324_2266543_-	hypothetical protein	NA	NA	NA	NA
WP_080001664.1\|2266868_2267327_-	hypothetical protein	A0A0S2MYC7	Enterococcus_phage	1.0e-42	95.7
WP_025186493.1\|2267295_2267793_-	class I SAM-dependent methyltransferase	D2IZK8	Enterococcus_phage	3.7e-86	94.8
WP_002367277.1\|2267846_2268053_-	hypothetical protein	A0A1B1V001	Enterococcus_phage	3.3e-25	100.0
2268007:2268022	attL	NA	NA	NA	NA
WP_002365119.1\|2268062_2268455_-	hypothetical protein	A0A0S2MYE6	Enterococcus_phage	3.9e-67	95.4
WP_002365120.1\|2268460_2269069_-	hypothetical protein	NA	NA	NA	NA
WP_002365121.1\|2269088_2269559_-	DUF1064 domain-containing protein	A0A1I9KKZ1	Lactobacillus_phage	1.1e-31	45.9
WP_002365122.1\|2269707_2269977_-	hypothetical protein	NA	NA	NA	NA
WP_002365123.1\|2270115_2270955_-	ATP-binding protein	U5PVD6	Bacillus_phage	2.6e-20	32.1
WP_002367278.1\|2270966_2271746_-	DnaD domain protein	Q6J1V6	Lactobacillus_phage	5.8e-38	56.7
WP_080001697.1\|2271760_2272564_-	hypothetical protein	J7KGZ1	Streptococcus_phage	4.6e-62	51.0
WP_010717378.1\|2272538_2273504_-	recombinase RecT	A0A1X9I5N6	Streptococcus_phage	1.2e-77	62.6
WP_010717379.1\|2273500_2273602_-	hypothetical protein	D2IZX5	Enterococcus_phage	1.7e-06	90.3
WP_002367281.1\|2273604_2273829_-	hypothetical protein	D2IZX4	Enterococcus_phage	3.7e-22	68.5
WP_010717380.1\|2273825_2274125_-	hypothetical protein	NA	NA	NA	NA
WP_002367283.1\|2274191_2274371_-	hypothetical protein	A0A0S2MY96	Enterococcus_phage	5.8e-18	77.2
WP_002367284.1\|2274405_2274675_-	hypothetical protein	NA	NA	NA	NA
WP_002367285.1\|2274690_2274867_-	helix-turn-helix domain-containing protein	D2IZW2	Enterococcus_phage	1.9e-13	62.1
WP_002367286.1\|2274938_2275160_+	hypothetical protein	NA	NA	NA	NA
WP_002367287.1\|2275156_2275348_-	hypothetical protein	NA	NA	NA	NA
WP_002367288.1\|2275646_2275979_+	helix-turn-helix transcriptional regulator	A0A097QQ00	Enterococcus_phage	2.2e-34	67.3
WP_002367289.1\|2275997_2276342_+	ImmA/IrrE family metallo-endopeptidase	D2IZV8	Enterococcus_phage	9.4e-41	71.1
WP_002367290.1\|2276367_2276601_-	hypothetical protein	U5U783	Lactobacillus_phage	6.4e-09	44.1
WP_129194668.1\|2276690_2277374_+	hypothetical protein	NA	NA	NA	NA
WP_002367292.1\|2277550_2278732_+\|integrase	site-specific integrase	Q9AZK8	Lactococcus_phage	1.9e-48	31.8
WP_002356321.1\|2278834_2278984_-	50S ribosomal protein L33	NA	NA	NA	NA
WP_002359399.1\|2279109_2281245_-	penicillin-binding protein 2	NA	NA	NA	NA
WP_002359397.1\|2281408_2283346_-\|tRNA	threonine--tRNA ligase	A0A2K9L297	Tupanvirus	3.1e-112	36.3
2287677:2287692	attR	NA	NA	NA	NA

Anti-CRISPR protein detection

Acr_ID: NZ_CP022488.1|WP_010717379.1|2273500_2273602_-|hypothetical-protein

Click the colored protein region to show detailed information

Acr ID

Acr position

Acr size

Homology with known anti

Neighbor HTH/AcRanker

Neighbor Aca

In prophage

Protospacer in prophage

NZ_CP022488.1|WP_010717379.1|2273500_2273602_-|hypothetical-protein

2273500_2273602_-

33 aa aa

2234967-2283346

yes

CRISPR ID	CRISPR type	Spacer info	Spacer location	Spacer length	Protospacer location	Mismatch
NZ_CP022488_1	Orphan	1.3\|1673400\|29\|NZ_CP022488\|CRISPRCasFinder,PILER-CR	1673400-1673428	29	2261521-2261493	0

1. spacer 1.3|1673400|29|NZ_CP022488|CRISPRCasFinder,PILER-CR matches to NZ_CP022488 position: 2261521-2261493, mismatch: 0

tcactcgaaagctgaatttttaacgaagc	CRISPR spacer
tcactcgaaagctgaatttttaacgaagc	Protospacer
*****************************

3. NZ_CP022484

Click the left colored region to show detailed information

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

5400 : 16799

Streptococcus_phage(100.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001574275.1\|5400_7320_-	tetracycline resistance ribosomal protection protein Tet(M)	A0A1S5SF82	Streptococcus_phage	0.0e+00	95.0
WP_011058339.1\|7335_7422_-	tetracycline resistance determinant leader peptide	NA	NA	NA	NA
WP_001224319.1\|7696_8629_-	conjugal transfer protein	A0A1S5SF22	Streptococcus_phage	1.1e-171	100.0
WP_001574272.1\|8625_9627_-	peptidase P60	A0A1S5SEZ8	Streptococcus_phage	2.5e-190	99.7
WP_001574271.1\|9623_11801_-	YtxH domain-containing protein	A0A1S5SF30	Streptococcus_phage	2.4e-307	85.6
WP_000331160.1\|11803_14251_-	ATP-binding protein	A0A1S5SF64	Streptococcus_phage	0.0e+00	100.0
WP_000506270.1\|14234_14741_-	conjugal transfer protein	A0A1S5SEX7	Streptococcus_phage	8.6e-91	100.0
WP_000342539.1\|14715_15213_-	antirestriction protein ArdA	A0A1S5SF25	Streptococcus_phage	1.7e-91	100.0
WP_001009056.1\|15329_15551_-	hypothetical protein	A0A1S5SEY0	Streptococcus_phage	4.3e-31	100.0
WP_000398284.1\|15593_16799_-	XRE family transcriptional regulator	A0A1S5SEX3	Streptococcus_phage	2.8e-233	100.0

Anti-CRISPR protein detection

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

4. NZ_CP022485

Click the left colored region to show detailed information

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

0 : 5716

Listeria_phage(20.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002367702.1\|354_1134_-	hypothetical protein	A8ATL9	Listeria_phage	1.3e-16	46.2
WP_002367703.1\|1269_1821_-	hypothetical protein	A0A1B0XUG6	Freshwater_phage	2.0e-08	38.8
WP_002360843.1\|1844_2018_-	hypothetical protein	NA	NA	NA	NA
WP_002367704.1\|2020_2206_-	hypothetical protein	NA	NA	NA	NA
WP_002367705.1\|2211_2661_-	hypothetical protein	NA	NA	NA	NA
WP_002367706.1\|2947_3148_+	hypothetical protein	NA	NA	NA	NA
WP_002360849.1\|3250_3481_-	hypothetical protein	NA	NA	NA	NA
WP_002367707.1\|3535_4030_+	hypothetical protein	NA	NA	NA	NA
WP_002367708.1\|4095_4548_+	single-stranded DNA-binding protein	A0A097PAQ3	Streptococcus_pyogenes_phage	4.1e-44	65.3
WP_002367709.1\|4561_4714_+	hypothetical protein	NA	NA	NA	NA
WP_002367711.1\|4725_5304_+	thermonuclease family protein	O64020	Bacillus_phage	9.6e-38	56.6
WP_080001706.1\|5386_5716_+	PcfU	C9E2N6	Enterococcus_phage	1.4e-41	75.5

DBSCAN-SWA_2

11997 : 18277

Escherichia_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_080001707.1\|11997_12594_+	recombinase family protein	A0A1J1J8Z4	Escherichia_phage	2.2e-21	38.1
WP_002367725.1\|13062_13788_+	hypothetical protein	NA	NA	NA	NA
WP_002367726.1\|13814_14045_+	hypothetical protein	NA	NA	NA	NA
WP_002409262.1\|14371_14500_-	hypothetical protein	NA	NA	NA	NA
WP_002367727.1\|14591_14843_+	hypothetical protein	NA	NA	NA	NA
WP_002367729.1\|14958_16275_+	Y-family DNA polymerase	Q6DMX4	Streptococcus_phage	3.0e-95	43.6
WP_002367730.1\|16278_16785_+	hypothetical protein	NA	NA	NA	NA
WP_002367734.1\|17038_17452_-	hypothetical protein	NA	NA	NA	NA
WP_002365892.1\|17455_18277_-	ParA family protein	F0PIG8	Enterococcus_phage	3.8e-40	38.8

DBSCAN-SWA_3

22790 : 26499

Bacillus_phage(50.0%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002367800.1\|22790_25763_-\|transposase	Tn3 family transposase	A0A125RQ78	Bacillus_phage	4.3e-198	36.7
WP_002367801.1\|25893_26499_+	recombinase family protein	A0A219YA40	Aeromonas_phage	2.7e-19	33.7

DBSCAN-SWA_4

40127 : 40562

Lactococcus_phage(100.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002365857.1\|40127_40562_+	hypothetical protein	Q38339	Lactococcus_phage	3.5e-16	37.5

DBSCAN-SWA_5

44670 : 50104

Staphylococcus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_002367681.1\|44670_47286_+	CHAP domain-containing protein	A0A2R3ZXQ4	Staphylococcus_phage	1.8e-14	35.4
WP_002367683.1\|47309_47936_+	hypothetical protein	NA	NA	NA	NA
WP_011109622.1\|47913_48168_+	hypothetical protein	NA	NA	NA	NA
WP_002367686.1\|48151_48760_+	hypothetical protein	NA	NA	NA	NA
WP_002367687.1\|48873_49629_+	Fic family protein	NA	NA	NA	NA
WP_002367688.1\|49645_50104_+	single-stranded DNA-binding protein	A0A290GHL8	Caldibacillus_phage	1.8e-26	46.8

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NZ_CP022486

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. NZ_CP022488

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

Click the colored protein region to show detailed information

3. NZ_CP022484

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

4. NZ_CP022485

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