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_CP010346	Listeria monocytogenes strain IZSAM_Lm_hs2008 chromosome, complete genome	1 crisprs	DinG,cas3,WYL,casR,RT,DEDDh,csa3	0	0	5	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NZ_CP010346_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP010346_1

214654-214808

Unclear

Consensus_repeat	Method
TTTCCACCACCGCCTACGGATGAAGAGTTAAGACTTGCTTTGCCAGAGAC	CRISPRCasFinder

1 spacers

cas3

The CRISPR arrays of NZ_CP010346_1

>merge|NZ_CP010346|1|214654-214808|CRISPRCasFinder
TTTCCACCACCGCCTACGGATGAAGAGTTAAGACTTGCTTTGCCAGAGACACCGATGCTTCTTGGTTTTAATGCTCCTGCTACATCAGAACCGAGCTCATTCGAATTTCCACCACCACCTACGGATGAAGAGTTAAGACTTGCTTTGCCAGAGAC

>NZ_CP010346|1|1|214654-214808|CRISPRCasFinder
TTTCCACCACCGCCTACGGATGAAGAGTTAAGACTTGCTTTGCCAGAGAC	ACCGATGCTTCTTGGTTTTAATGCTCCTGCTACATCAGAACCGAGCTCATTCGAA
TTTCCACCACCACCTACGGATGAAGAGTTAAGACTTGCTTTGCCAGAGAC

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP010346.1\|WP_003740374.1\|205599_206973_+\|bifunctional-UDP-N-acetylglucosamine-diphosphorylase/glucosamine-1-phosphate-N-acetyltransferase-GlmU	unknown	unknown	gnl\|CDD\|184643
NZ_CP010346.1\|WP_003740377.1\|218126_218846_-\|DNA-alkylation-repair-protein	unknown	unknown	gnl\|CDD\|378033
NZ_CP010346.1\|WP_003725738.1\|221517_222078_+\|aminoacyl-tRNA-hydrolase	unknown	unknown	gnl\|CDD\|235457
NZ_CP010346.1\|WP_003722740.1\|220113_220737_+\|50S-ribosomal-protein-L25/general-stress-protein-Ctc	unknown	unknown	gnl\|CDD\|235534
NZ_CP010346.1\|WP_003734712.1\|215816_216686_+\|phosphatidylcholine-phospholipase-C	unknown	unknown	gnl\|CDD\|214813
NZ_CP010346.1\|WP_003722728.1\|207023_207980_+\|ribose-phosphate-diphosphokinase	unknown	unknown	gnl\|CDD\|234929
NZ_CP010346.1\|WP_003725730.1\|212129_213662_+\|zinc-metalloproteinase-Mpl	unknown	unknown	gnl\|CDD\|225768
NZ_CP010346.1\|WP_003722729.1\|208023_208737_-\|listeriolysin-O-transcriptional-regulator-PrfA	unknown	unknown	gnl\|CDD\|223736
NZ_CP010346.1\|WP_003725734.1\|217213_217675_+\|YehR-family-lipoprotein	unknown	unknown	gnl\|CDD\|227145
NZ_CP010346.1\|WP_003725733.1\|216757_217081_+\|DUF5502-family-protein	unknown	unknown	gnl\|CDD\|340321
NZ_CP010346.1\|WP_003725739.1\|222191_225731_+\|transcription-repair-coupling-factor	cas3	cd09639_cas3_CAS-I	gnl\|CDD\|224118
NZ_CP010346.1\|WP_003740376.1\|210205_211795_+\|cholesterol-dependent-cytolysin-listeriolysin-O	unknown	unknown	gnl\|CDD\|366559
NZ_CP010346.1\|WP_003722723.1\|201896_202589_+\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|213222
NZ_CP010346.1\|WP_003725737.1\|220826_221411_+\|GNAT-family-N-acetyltransferase	unknown	unknown	gnl\|CDD\|379228
NZ_CP010346.1\|WP_003726703.1\|209009_209963_-\|phosphatidylinositol-specific-phospholipase-C	unknown	unknown	gnl\|CDD\|176497
NZ_CP010346.1\|WP_003725507.1\|202585_203794_+\|ABC-transporter-permease	unknown	unknown	gnl\|CDD\|182528
NZ_CP010346.1\|WP_003722726.1\|204904_205213_+\|septation-regulator-SpoVG	unknown	unknown	gnl\|CDD\|237321
NZ_CP010346.1\|WP_003722739.1\|218878_219820_-\|L-lactate-dehydrogenase	unknown	unknown	gnl\|CDD\|178836
NZ_CP010346.1\|WP_003725735.1\|217727_218060_-\|putative-heavy-metal-binding-protein	unknown	unknown	gnl\|CDD\|179228
NZ_CP010346.1\|WP_003722725.1\|204477_204786_+\|septation-regulator-SpoVG	unknown	unknown	gnl\|CDD\|237321

Protein	Function_ID	Function_description	E-value
NZ_CP010346.1\|WP_003740374.1\|205599_206973_+\|bifunctional-UDP-N-acetylglucosamine-diphosphorylase/glucosamine-1-phosphate-N-acetyltransferase-GlmU	gnl\|CDD\|184643	PRK14354, glmU, bifunctional UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase GlmU.	0
NZ_CP010346.1\|WP_003740377.1\|218126_218846_-\|DNA-alkylation-repair-protein	gnl\|CDD\|378033	pfam08713, DNA_alkylation, DNA alkylation repair enzyme. Proteins in this family are predicted to be DNA alkylation repair enzymes. The structure of a hypothetical protein in this family shows it to adopt a supercoiled alpha helical structure.	9.75553e-22
NZ_CP010346.1\|WP_003725738.1\|221517_222078_+\|aminoacyl-tRNA-hydrolase	gnl\|CDD\|235457	PRK05426, PRK05426, peptidyl-tRNA hydrolase; Provisional.	1.72721e-108
NZ_CP010346.1\|WP_003722740.1\|220113_220737_+\|50S-ribosomal-protein-L25/general-stress-protein-Ctc	gnl\|CDD\|235534	PRK05618, PRK05618, 50S ribosomal protein L25/general stress protein Ctc; Reviewed.	2.38585e-63
NZ_CP010346.1\|WP_003734712.1\|215816_216686_+\|phosphatidylcholine-phospholipase-C	gnl\|CDD\|214813	smart00770, Zn_dep_PLPC, Zinc dependent phospholipase C (alpha toxin). This domain conveys a zinc dependent phospholipase C activity (EC 3.1.4.3). It is found in a monomeric phospholipase C of Bacillus cereus as well as in the alpha toxin of Clostridium perfringens and Clostridium bifermentans, which is involved in haemolysis and cell rupture. It is also found in a lecithinase of Listeria monocytogenes, which is involved in breaking the 2-membrane vacuoles that surround the bacterium. Structure information: PDB 1ca1.	6.38793e-86
NZ_CP010346.1\|WP_003722728.1\|207023_207980_+\|ribose-phosphate-diphosphokinase	gnl\|CDD\|234929	PRK01259, PRK01259, ribose-phosphate diphosphokinase.	0
NZ_CP010346.1\|WP_003725730.1\|212129_213662_+\|zinc-metalloproteinase-Mpl	gnl\|CDD\|225768	COG3227, LasB, Zinc metalloprotease (elastase) [Amino acid transport and metabolism].	3.62455e-140
NZ_CP010346.1\|WP_003722729.1\|208023_208737_-\|listeriolysin-O-transcriptional-regulator-PrfA	gnl\|CDD\|223736	COG0664, Crp, cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms].	9.59942e-12
NZ_CP010346.1\|WP_003725734.1\|217213_217675_+\|YehR-family-lipoprotein	gnl\|CDD\|227145	COG4808, COG4808, Uncharacterized protein conserved in bacteria [Function unknown].	1.52192e-59
NZ_CP010346.1\|WP_003725733.1\|216757_217081_+\|DUF5502-family-protein	gnl\|CDD\|340321	pfam17606, DUF5502, Family of unknown function (DUF5502). This is a family of unknown function found in Listeria.	2.43993e-44
NZ_CP010346.1\|WP_003725739.1\|222191_225731_+\|transcription-repair-coupling-factor	gnl\|CDD\|224118	COG1197, Mfd, Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription].	0
NZ_CP010346.1\|WP_003740376.1\|210205_211795_+\|cholesterol-dependent-cytolysin-listeriolysin-O	gnl\|CDD\|366559	pfam01289, Thiol_cytolysin, Thiol-activated cytolysin.	3.16652e-179
NZ_CP010346.1\|WP_003722723.1\|201896_202589_+\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|213222	cd03255, ABC_MJ0796_LolCDE_FtsE, ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein. This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of lipoproteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyzes the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.	7.27113e-121
NZ_CP010346.1\|WP_003725737.1\|220826_221411_+\|GNAT-family-N-acetyltransferase	gnl\|CDD\|379228	pfam13508, Acetyltransf_7, Acetyltransferase (GNAT) domain. This domain catalyzes N-acetyltransferase reactions.	1.9401e-09
NZ_CP010346.1\|WP_003726703.1\|209009_209963_-\|phosphatidylinositol-specific-phospholipase-C	gnl\|CDD\|176497	cd00137, PI-PLCc, Catalytic domain of prokaryotic and eukaryotic phosphoinositide-specific phospholipase C. This subfamily corresponds to the catalytic domain present in prokaryotic and eukaryotic phosphoinositide-specific phospholipase C (PI-PLC), which is a ubiquitous enzyme catalyzing the cleavage of the sn3-phosphodiester bond in the membrane phosphoinositides (phosphatidylinositol, PI; Phosphatidylinositol-4-phosphate, PIP; phosphatidylinositol 4,5-bisphosphate, PIP2) to yield inositol phosphates (inositol monosphosphate, InsP; inositol diphosphate, InsP2; inositol trisphosphate, InsP3) and diacylglycerol (DAG). The higher eukaryotic PI-PLCs (EC 3.1.4.11) have a multidomain organization that consists of a PLC catalytic core domain, and various regulatory domains. They play a critical role in most signal transduction pathways, controlling numerous cellular events, such as cell growth, proliferation, excitation and secretion. These PI-PLCs strictly require Ca2+ for their catalytic activity. They display a clear preference towards the hydrolysis of the more highly phosphorylated PI-analogues, PIP2 and PIP, to generate two important second messengers, InsP3 and DAG. InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which then phosphorylates other molecules, leading to altered cellular activity. In contrast, bacterial PI-PLCs contain a single catalytic domain. Although their precise physiological function remains unclear, bacterial PI-PLCs may function as virulence factors in some pathogenic bacteria. They participate in Ca2+-independent PI metabolism. They are characterized as phosphatidylinositol-specific phospholipase C (EC 4.6.1.13) that selectively hydrolyze PI, not PIP or PIP2. The TIM-barrel type catalytic domain in bacterial PI-PLCs is very similar to the one in eukaryotic PI-PLCs, in which the catalytic domain is assembled from two highly conserved X- and Y-regions split by a divergent linker sequence. The catalytic mechanism of both prokaryotic and eukaryotic PI-PLCs is based on general base and acid catalysis utilizing two well conserved histidines, and consists of two steps, a phosphotransfer and a phosphodiesterase reaction. This superfamily also includes a distinctly different type of eukaryotic PLC, glycosylphosphatidylinositol-specific phospholipase C (GPI-PLC), an integral membrane protein characterized in the protozoan parasite Trypanosoma brucei. T. brucei GPI-PLC hydrolyzes the GPI-anchor on the variant specific glycoprotein (VSG), releasing dimyristyl glycerol (DMG), which may facilitate the evasion of the protozoan to the host#s immune system. It does not require Ca2+ for its activity and is more closely related to bacterial PI-PLCs, but not mammalian PI-PLCs.	1.53279e-112
NZ_CP010346.1\|WP_003725507.1\|202585_203794_+\|ABC-transporter-permease	gnl\|CDD\|182528	PRK10535, PRK10535, macrolide ABC transporter ATP-binding protein/permease MacB.	5.06393e-62
NZ_CP010346.1\|WP_003722726.1\|204904_205213_+\|septation-regulator-SpoVG	gnl\|CDD\|237321	PRK13259, PRK13259, septation regulator SpoVG.	5.03804e-54
NZ_CP010346.1\|WP_003722739.1\|218878_219820_-\|L-lactate-dehydrogenase	gnl\|CDD\|178836	PRK00066, ldh, L-lactate dehydrogenase; Reviewed.	0
NZ_CP010346.1\|WP_003725735.1\|217727_218060_-\|putative-heavy-metal-binding-protein	gnl\|CDD\|179228	PRK01119, PRK01119, putative heavy metal-binding protein.	8.98192e-61
NZ_CP010346.1\|WP_003722725.1\|204477_204786_+\|septation-regulator-SpoVG	gnl\|CDD\|237321	PRK13259, PRK13259, septation regulator SpoVG.	2.92652e-53

>NZ_CP010346.1|WP_003725730.1|212129_213662_+|zinc-metalloproteinase-Mpl
MKSKLICIIMVIAFQAHFNMAVKADSVGEERLRNNIQAKRNPADLKALPDSCEAKDFYKNFKILDMTKDKLGVTHYTLALSSDGYLTDNDEIKVHVTPDNKIAFINGDLQQGQLRITNQIKITEKNAIEKAFEAIGQSEAHVKSYIGNPVKEKEIIINSRTKRLVYNIKLIFAEPEVASWIIQVDAETGAILKKQNMLSEVERADTHKDFQALGKGANRLLQRPLHVMKINDLFYLVDRTHKGLIRTFDLNHKTDASFGKVVSNKTNMFTDPEFSSAVDAHFYASEVYDYYKNVHQLESLDGKGGEIDSFVHYGLNCNNAFWDGREILYGDGDKKNFKPFSCAKTIVGHELTHAVIQYSAGLEYEGQSGALNESFADVFGYFIAPNHWLIGEDVCVRGLRDGRIRSIKDPDKYNQAAHMKDYESLPITEEGDWGGVHFNSGIPNKAAYNTITKLGKEKTEQLYFRALKYYLTKKAQFTDAKKALQQAAKDLYGEDASKKVAEAWEAVGVN
>NZ_CP010346.1|WP_003740376.1|210205_211795_+|cholesterol-dependent-cytolysin-listeriolysin-O
MKKIMLVFITLILVSLPIAQQTEAKDASAFHKENLISSMAPPASPPASPKTPIEKKHADEIDKYIQGLDYNKNNVLVYHGDAVTNVPPRKGYKDGNEYIVVEKKKKSINQNNADIQVVNAISSLTYPGALVKANSELVENQPDVLPVKRDSLTLSIDLPGMTNQDNKIVVKNATKSNVNNAVNTLVERWNEKYAQAYPNVSAKIDYDDEMAYSESQLIAKFGTAFKAVNNSLNVNFGAISEGKMQEEVISFKQIYYNVNVNEPTRPSRFFGKAVTKEQLQALGVNAENPPAYISSVAYGRQVYLKLSTNSHSTKVKAAFDAAVSGKSVSGDVELTNIIKNSSFKAVIYGGSAKDEVQIIDGNLGDLRDILKKGATFNRETPGVPIAYTTNFLKDNELAVIKNNSEYIETTSKAYTDGKINIDHSGGYVAQFNISWDEINYDPEGNEIVQHKNWSENNKSKLAHFTSSIYLPGNARNINVYAKECTGLAWEWWRTVIDDRNLPLVKNRNISIWGTTLYPKYSNSVDNPIE
>NZ_CP010346.1|WP_003726703.1|209009_209963_-|phosphatidylinositol-specific-phospholipase-C
MYKNYLQRTLVLVLCFILCFFTFPLGGKAYSLNNWNKPIKNSVTTKQWMSALPDTTSLAALSIPGTHDTMSYNGDMTWTLTKPLAQTQTMSLYQQLEAGIRYIDIRAKDNLKIYHGPIFLNASLSGVLETITQFLKKNPKETIIMRLKDEQNSNDSFDYRIQPLINIYKDYFYTTPRTDTSNKIPTLKDVRGKILLLSENHTKKPLVINSHKFGMQFGASNQVIQDDYNGPSVKTKFKEIVQTAYQASKADNKLFLNHISATSLTFTPRQYAAALNNKVEQFVLNLTSEKVRGLGILIMDFPEKQTIKNIIKNNKFN
>NZ_CP010346.1|WP_003722729.1|208023_208737_-|listeriolysin-O-transcriptional-regulator-PrfA
MNAQAEEFKKYLETNGIKPKQFHKKELIFNQWDPQEYCIFLYDGITKLTSISENGTIMNLQYYKGAFVIMSGFIDTETSVGYYNLEVISEQATAYVIKINELKELLSKNLTHFFYVFQTLQKQVSYSLAKFNDFSINGKLGSICGQLLILTYVYGKETPDGIKITLDNLTMQELGYSSGIAHSSAVSRIISKLKQEKVIVYKNSCFYVQNLDYLKRYAPKLDEWFYLACPATWGKLN
>NZ_CP010346.1|WP_003722728.1|207023_207980_+|ribose-phosphate-diphosphokinase
MSNEYFDPKLKIFSLNSNRELAEEIAKEVGIELGKSSVTHFSDGEIQINIEESIRGCHVYVIQSTSNPVNQNLMELLIMIDALKRASAATINIVMPYYGYARQDRKARSREPITAKLVANLIETAGATRMITLDMHAPQIQGFFDIPIDHLNAVRLLSDYFSERHLGDDLVVVSPDHGGVTRARKMADRLKAPIAIIDKRRPRPNVAEVMNIVGNVEGKVCIIIDDIIDTAGTITLAAKALREAGATKVYACCSHPVLSGPAMKRIEESPIEKLVVTNSIALPEEKWIDKMEQLSVAALLGEAIVRVHENASVSSLFE
>NZ_CP010346.1|WP_003740374.1|205599_206973_+|bifunctional-UDP-N-acetylglucosamine-diphosphorylase/glucosamine-1-phosphate-N-acetyltransferase-GlmU
MSKRYAVVLAAGQGTRMKSKLYKVLHPVCGKPMVEHVVDQISTLNVDKVVTIVGHGAEKVQEHLAGKSEFVKQEEQLGTAHAVLQAKAELAGKDGVTLVVCGDTPLIEASTMEALLKYHHEKRAKATILTTVIEDPTGYGRIIRDDLGIVEKIVEHKDATEKEQRISEINTGTYCFDNKALFEALENVSNDNVQGEYYLPDVIKILKDSDEVVAAYRMESFEESLGVNDRIALAEASRLMQRRINENHMRNGVTLVNPENTYIDIDVKIGQDTVIEPGVMLHGETVIGDDCVVTSGSEIVNSVIGERVHVRTSSIFESKVGDDVQIGPYAHLRPESDIHDHVKIGNYVETKKAVVGEGTKLPHFIYMGDAEIGKNVNVGCGSIAVNYDGKNKAKTIIGDNVFVGCNSNLIAPVKVGDRAFIAAGSTITKDVPDDALGIARAKQDNKLGYAKHLNHGK
>NZ_CP010346.1|WP_003722726.1|204904_205213_+|septation-regulator-SpoVG
MQVTDVRLRRVETDGRMRAIASITLDEEFVVHDIRVIDGNNGLFVAMPSKRGVDGEFRDIAHPINSDTRAKIQEVVLAEYERVGEEEATAVTEEESESVSAE
>NZ_CP010346.1|WP_003722725.1|204477_204786_+|septation-regulator-SpoVG
MEITDVRLRRVETDGRMKAISSITIDGEFVIHDIRVIDGNEGLFVAMPSKRTPDGEFRDIAHPINSGTRAKIQEAVLAAYEVADEPAVNEESSADESIVEEN
>NZ_CP010346.1|WP_003725507.1|202585_203794_+|ABC-transporter-permease
MNVLQSMKMAWKQLKASKLRSFLTMLGIIIGVASVILLVSLGNGVTQEVDDQMGDLGSNLITVVNSSVNPNDKYTYDEVMKYQNIDGVKSVSPELSGQVNATFDYKNSSNKVIGTNDQYKAARSLEMKEGRFLLPIDTEYGQKVAVIGSTVASDLFGFGDPIGETIRLNGMPYKVVGVLKEKGASMMGSSDDQIFIPISSAQRLLKDTNVRTIYVETKSAEDVDFVVNTLESRLAIKFGDEKEQEKNASSAQMGPSYQVINQQEILNAFNTISTTLTTALGAIAAISLVVGGIGIMNIMLVSVSERTREIGIRKALGAKKRAILLQFLIESIVISVCGGIIGIIIGVSGALIFGSVAGISSGITAGTIIFSFVFSLCIGVIFGIAPANKASKLRPIDALRSE
>NZ_CP010346.1|WP_003722723.1|201896_202589_+|ABC-transporter-ATP-binding-protein
MPKPLIDMKNLTKTYTLGGETFKALDDVTFTVEQGEFLSIVGPSGSGKSTLMNMIGCLDVPDEGSYHLDDVDVFKLSDNKLSEIRNKKIGFIFQQFNLLPKLSAFENVELPLIYAGLSVSAREKAAIECLEKVGLLEKRRNLPTQLSGGQQQRVAIARALAGKPQILLADEPTGALDSKTGKEVMGILQELNRAGNTIVMITHDPTIASYGTRSIRIQDGKLFHEEATQA
>NZ_CP010346.1|WP_003734712.1|215816_216686_+|phosphatidylcholine-phospholipase-C
MKFKKVVLGMCLTASVLVFPVTIKASACCDEYLKPPAAPHDIDSKLPHKLSWSADNPTNTDVNTHYWLFKQAEKILAKDVDHMRANLMNELKNFDKQIAQGIYDADHKNPYYDTSTFLSHFYNPDKDNTYLPGFANAKITGAKYFNQSVADYREGKFDTAFYKLGLAIHYYTDISQPMHANNFTAISYPPGYHCAYENYVDTIKHNYQATEDMVVKRFCSNDVKEWLYENAKRAKADYPKIVNAKTKKSYLVGNSEWKKDTVEPTGARLRDSQQTLAGFLEFWSKKTNE
>NZ_CP010346.1|WP_003725733.1|216757_217081_+|DUF5502-family-protein
MYIKGRLIFFFVMFVIALCSVLILLIIKMSVWKEEPFNLSDAKEIECLGSCKIKNTNQKIHFFSIKKNLFEEKGNMAGILNEHERKGADKSIFIVILDDEKGIANEE
>NZ_CP010346.1|WP_003725734.1|217213_217675_+|YehR-family-lipoprotein
MKMLKKGTTVLFVMIMAVMLVACGDKEETKTYSLSQNGVDSKLTYTYKGDKVTKQTAENTMSYASLGVASKEDAEKMLKATSDKFQGIDGLKEKIEYKDDKAIETLEVDYTKISSEDMNKIPGMSSNGDTSKGISMEESAKMLESQGYKEVSK
>NZ_CP010346.1|WP_003725735.1|217727_218060_-|putative-heavy-metal-binding-protein
MIVTTSPNIEGKQIIEYKKIVFGEVITGVNFMKDIGAGLRNFFGGRSQGYEDELINAREEAIREMEQRAKDIGANAVIGVDIDYEVLGADNGMLMVTASGTAVVIEAQDY
>NZ_CP010346.1|WP_003740377.1|218126_218846_-|DNA-alkylation-repair-protein
MLFLLYLIYSRGVTRTITFDQLNTELQALENPNTIKIFRNHGCPDSLDLYGLKIGDLKKIIRREKLTKNHELAVELIESNNSDLIYLGLLAINPDKITTEQIEKWNIIFRETWSQLTFGLASIVSKRDDALLFAKTWIESDYDLTKSMGWQIYSEHINNLPEAEALLQRAKETLQTETNRTRYSMNGFIITCGIYKDDLHEKAMEAAKSVGKVHVNLGNTACKVPDAISYIEKARNRTK
>NZ_CP010346.1|WP_003722739.1|218878_219820_-|L-lactate-dehydrogenase
MKDHQKIILVGDGAVGSSYAFACVNLSIGQEFGIIDIDKDRTIGDAMDLSHAVPFSTPKKIYSANYSDCHDADLVVVTAGTAQKPGETRLDLVNRNIKIMKGIVDEVMASGFDGIFLIASNPVDILTYATWKFSGLPKERVIGSGTSLDTARFRMSIADYLKVDARNVHGYILGEHGDTEFPAWSHTTVGGLPITEWISEDEQGAMDTIFVSVRDAAYEIINKKGATFYGVAAALARITKAILNNENAILPLSVYLDGHYGMNDIYIGAPAVVNRQGVRHIVEMNLNDKEKEQMKNSADTLKKVLDDAMKQID
>NZ_CP010346.1|WP_003722740.1|220113_220737_+|50S-ribosomal-protein-L25/general-stress-protein-Ctc
MATTLEVQKRETTQHSEVTRLRSEGKVPGIIYGYKSENVPVSVDSLELIKAVRDNGRNAVFSVTVDGKKLNVLLHEYQVDPLKDVLVHVDLLAVDMNEEVETDVRVVLVGDAPGVKAGGVLQQIIHDVKVSATPEKLPETIELDISSLEIGDVLTTNDLPENKDYVVQAEEEETVVTVSAPRAEEEPTTTEAPEPEAVHGKDEEPVE
>NZ_CP010346.1|WP_003725737.1|220826_221411_+|GNAT-family-N-acetyltransferase
MLDKSVPHISAIMVNHDATNYPEFHLPEGYSFCFYKDGLEEDWCRLQLETGQVLSMDSIRARFETEFGNEKEKLAKRCVFVEAPNGEIIGTAMLWDGNTFGEMASRIHWVAVLDSHGGKGIAKALLSKILGLNKSSFVYLTTQTGSYQAIYLYQKFGFEKYVGKTPENWKTVNFQEEKEAAWQIIENKIAEHQA
>NZ_CP010346.1|WP_003725738.1|221517_222078_+|aminoacyl-tRNA-hydrolase
MKLIAGLGNPGKKYERTRHNVGFMVVDELSFRHQTPWKKSKFNGMTSEIIVGGEKMILVKPLTFMNASGECIRPLMDYYNIPIEDVVIVYDDLDLPVGKIRLRQKGSAGGHNGMKSIIQHVKTQEFNRIRVGVSRPLKGEVIHYVLGDFPKAEQPDIIAAIQKSADAIEDFAQTPFIEVMNKYNQK
>NZ_CP010346.1|WP_003725739.1|222191_225731_+|transcription-repair-coupling-factor
MKGLQQLIYEQKDIRAVLNALDEKEKAQLVTGLTGSSRALFASVVEGASKRPVVFVTHNLYHAQKLYDDLLSLMDVDRLFLYPADELISSELSISSPELRGQRVEALDFLLSGKPGIVIVPVAGLRKMLPPVSLWKHFNISIVEGEEIDPDVLRQKLVTMGYTMSGMVNTPGEFSVRGGIIDIYPITEEFPIRIELFDTEVDSLRFFDVETQRSTTRVEEFRLLPATEIILDQSYYPDIVKRLEKKMTHTLNELKENEDKQALVENLEEDLEMLRSGVKPDMFFKYIGLAYPDPASLFDYFPKNTAILLDEFGRILETEESLEREEAEWQTETLSRMETVRDVQVSHSFKKLLEANHSPKIYLSLFQKQMASMRVSKTTNIVYKQMQQFHGQMNVLKTELESWHKNNYAVVILAPNLERAEKMQQTLTDYDMESAILKKESDVPKYGMVQFVIGTFQNGFELPLAKVAIISETELFNKKIKKVKKRQKLSNAERIQSYSELKVGDYVVHVNHGIARYVGMETLDINGVHKDYLLLVYQGEDKLFIPVDQLDLVQKYVGAEGKSPRLNKLGGAEWKRVKKKVQASVQDIADDLIKLYAEREAEKGYAFSADDEMQREFEEAFPYQETEDQLRSISEIKKDMERPRPMDRLLVGDVGYGKTEVALRAAFKAIMDGKQVAFLVPTTILAQQHFETMKERFQGFPIEIGLLSRFRTKKQQTETLKGMKNGTVDVVVGTHRLLSKDVEYQDLGLLIVDEEQRFGVTHKEKIKQMRSKIDVLTLTATPIPRTLHMSMLGVRDLSVIETPPANRFPVQTYVAEQNNVLVREAIERELARDGQVYYLYNRVESITQKADEISAMVPDARVATAHGQMGESELESVILSFLEGEFDVLVTTTIIETGVDIPNVNTLFVQDADRMGLSQLYQLRGRVGRWNRIAYAYFMYQKDKILREEAEKRLSAIKEFTELGSGFKIAMRDLSIRGAGNILGAQQHGFIDSVGFDLYSQMLKEAIEAKKPKEEQKQIVPVEIDIQADAYIPEYYITDGRQKIEMYKRFRNIETLSELEDLQSDMIDRFGEYPEEVEYLFTMTELKVHALEVSIESVKQEQNKITMLFSESGTAGIRGDIVMQIIGEFGRMVGVGMEGTQLKITINVQNKPLKEWLYQVKSLAEKLRGAMKERASAEN

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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

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

131108 : 137635

Listeria_phage(33.33%)

tail

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_003728215.1\|131108_131561_-	ImmA/IrrE family metallo-endopeptidase	A0A059T7S0	Listeria_phage	4.0e-31	47.9
WP_003721740.1\|131566_131902_-	helix-turn-helix transcriptional regulator	A0A2H4JAR9	uncultured_Caudovirales_phage	4.0e-20	52.5
WP_003724946.1\|132118_132547_+	hypothetical protein	NA	NA	NA	NA
WP_003724947.1\|132558_132975_+	hypothetical protein	A8ASQ1	Listeria_phage	1.3e-20	38.6
WP_003728212.1\|133254_133644_+	DUF5072 family protein	NA	NA	NA	NA
WP_003721744.1\|133656_134169_+\|tail	phage major tail protein, TP901-1 family	A0A097PBF4	Streptococcus_pyogenes_phage	1.2e-47	62.7
WP_003721745.1\|134216_134519_+	hypothetical protein	NA	NA	NA	NA
WP_003740367.1\|134560_134965_+	hypothetical protein	NA	NA	NA	NA
WP_003724950.1\|134951_136820_+	membrane protein	A0A097PAU2	Streptococcus_pyogenes_phage	2.0e-20	45.8
WP_003724951.1\|136816_137635_+\|tail	phage tail family protein	A0A2H4JAE4	uncultured_Caudovirales_phage	1.7e-40	34.9

DBSCAN-SWA_2

1120645 : 1127571

Bacillus_virus(33.33%)

integrase

attL 1110056:1110069|attR 1128150:1128163

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1110056:1110069	attL	NA	NA	NA	NA
WP_003724632.1\|1120645_1122136_+	nicotinate phosphoribosyltransferase	G3MA18	Bacillus_virus	2.8e-113	49.5
WP_003724633.1\|1122147_1122972_+	ammonia-dependent NAD(+) synthetase	G3MA24	Bacillus_virus	9.7e-68	52.6
WP_003724634.1\|1122984_1123293_+	antibiotic biosynthesis monooxygenase	NA	NA	NA	NA
WP_003724635.1\|1123352_1123757_+	PTS sugar transporter subunit IIB	NA	NA	NA	NA
WP_012681222.1\|1123885_1125442_+	glutamine-hydrolyzing GMP synthase	A0A1V0SH76	Hokovirus	2.3e-17	28.1
WP_003724637.1\|1125640_1126120_-	helix-turn-helix transcriptional regulator	A0A2H4JDE4	uncultured_Caudovirales_phage	7.3e-07	34.3
WP_003724638.1\|1126297_1126495_+	LysR family transcriptional regulator	Q8SBM7	Clostridium_phage	1.5e-06	46.3
WP_003740555.1\|1126497_1127571_+\|integrase	site-specific integrase	A0A0A8WF08	Clostridium_phage	5.5e-87	46.5
1128150:1128163	attR	NA	NA	NA	NA

DBSCAN-SWA_3

1277579 : 1334433

Bacillus_virus(16.67%)

tRNA,protease

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003734523.1\|1277579_1278719_-\|protease	PrsW family intramembrane metalloprotease	NA	NA	NA	NA
WP_003723563.1\|1278798_1279194_-	helix-turn-helix transcriptional regulator	A9D9J6	Lactobacillus_prophage	1.3e-14	57.4
WP_003727524.1\|1279344_1279560_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_003727523.1\|1279683_1280217_+\|protease	matrixin family metalloprotease	NA	NA	NA	NA
WP_003731300.1\|1280232_1280898_+	hypothetical protein	NA	NA	NA	NA
WP_003727521.1\|1281159_1282098_+	hypothetical protein	NA	NA	NA	NA
WP_003723884.1\|1282212_1283496_+	trigger factor	NA	NA	NA	NA
WP_003723886.1\|1283680_1284940_+\|protease	ATP-dependent protease ATP-binding subunit ClpX	G3M9Z9	Bacillus_virus	1.4e-145	63.2
WP_003726393.1\|1285058_1285625_+	type I signal peptidase SipX	NA	NA	NA	NA
WP_003726394.1\|1285659_1286229_+	type I signal peptidase SipY	NA	NA	NA	NA
WP_003727520.1\|1286330_1286873_+	type I signal peptidase SipZ	NA	NA	NA	NA
WP_003726396.1\|1286882_1287746_+	ribosome biogenesis GTPase YlqF	NA	NA	NA	NA
WP_003727519.1\|1287742_1288528_+	ribonuclease HII	G4YAY0	Emiliania_huxleyi_virus	6.7e-26	37.6
WP_003726399.1\|1288661_1289522_+	DNA-protecting protein DprA	NA	NA	NA	NA
WP_003727517.1\|1289794_1291873_+	type I DNA topoisomerase	A0A1V0SB35	Catovirus	5.4e-107	37.5
WP_003726401.1\|1291935_1293240_+\|tRNA	FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO	NA	NA	NA	NA
WP_031645173.1\|1293522_1294425_+	tyrosine recombinase XerC	A0A142K7N4	Mycobacterium_phage	1.8e-14	29.5
WP_003724001.1\|1294445_1294985_+\|protease	ATP-dependent protease subunit HslV	NA	NA	NA	NA
WP_003727514.1\|1294998_1296408_+\|protease	ATP-dependent protease ATPase subunit HslU	W6AS21	Erwinia_phage	7.5e-44	27.8
WP_003726695.1\|1296428_1297208_+	GTP-sensing pleiotropic transcriptional regulator CodY	NA	NA	NA	NA
WP_003726696.1\|1297311_1297731_+	acyl-CoA thioesterase	NA	NA	NA	NA
WP_003724130.1\|1297753_1298065_+	hypothetical protein	NA	NA	NA	NA
WP_003726697.1\|1298067_1298940_+	aldose 1-epimerase family protein	NA	NA	NA	NA
WP_003726698.1\|1298981_1299578_-	glycerol-3-phosphate 1-O-acyltransferase PlsY	NA	NA	NA	NA
WP_003726699.1\|1299735_1300143_+	CoA-binding protein	NA	NA	NA	NA
WP_003727510.1\|1300323_1302291_+	DNA topoisomerase IV subunit B	G3M9Z3	Bacillus_virus	5.1e-123	42.5
WP_003734522.1\|1302287_1304747_+	DNA topoisomerase IV subunit A	G3M9Z5	Bacillus_virus	1.1e-101	31.6
WP_003726814.1\|1304830_1305298_+	S-ribosylhomocysteine lyase	NA	NA	NA	NA
WP_020830742.1\|1305925_1307746_+	class 1 internalin InlK	NA	NA	NA	NA
WP_003734520.1\|1307778_1309665_-	peptidoglycan O-acetyltransferase OatA	B5WZU0	Pseudomonas_phage	2.9e-43	32.2
WP_003726657.1\|1309877_1310576_+	glycerophosphodiester phosphodiesterase	A0A0S2MYI4	Enterococcus_phage	6.4e-12	31.9
WP_003723738.1\|1310808_1312485_+	glycerol-3-phosphate dehydrogenase/oxidase	NA	NA	NA	NA
WP_003726658.1\|1312611_1313529_+\|tRNA	tRNA (adenosine(37)-N6)-dimethylallyltransferase MiaA	NA	NA	NA	NA
WP_003719566.1\|1313650_1313884_+	RNA chaperone Hfq	NA	NA	NA	NA
WP_012681271.1\|1313994_1315218_+	GTPase HflX	NA	NA	NA	NA
WP_003727505.1\|1315210_1316437_+	methionine gamma-lyase family protein	NA	NA	NA	NA
WP_003719570.1\|1316638_1317007_+	MerR family transcriptional regulator	NA	NA	NA	NA
WP_003723435.1\|1317077_1318412_+	type I glutamate--ammonia ligase	A0A1V0SJ53	Klosneuvirus	2.0e-06	26.4
WP_003726564.1\|1318555_1319851_+	arsenic transporter	A0A2H4PQU3	Staphylococcus_phage	2.5e-147	62.6
WP_003726565.1\|1319884_1320409_-	GNAT family N-acetyltransferase	NA	NA	NA	NA
WP_003723438.1\|1320439_1321054_-	transcriptional repressor LexA	A0A1B2APZ1	Phage_Wrath	9.3e-15	62.1
WP_003726566.1\|1321210_1321540_+	cell division suppressor protein YneA	NA	NA	NA	NA
WP_003726567.1\|1321633_1321861_+	DUF896 domain-containing protein	NA	NA	NA	NA
WP_003734516.1\|1322007_1324002_+	transketolase	NA	NA	NA	NA
WP_003726667.1\|1324222_1324462_+	YneF family protein	NA	NA	NA	NA
WP_003726668.1\|1324510_1325242_-	class I SAM-dependent methyltransferase	A0A1X9I6N4	Streptococcus_phage	2.3e-81	58.0
WP_003726669.1\|1325263_1325770_-	ParB-like nuclease domain-containing protein	A0A220GKT8	Streptococcus_phage	1.4e-56	66.7
WP_003726670.1\|1325779_1327084_-	DUF3440 domain-containing protein	A0A220GKF8	Streptococcus_phage	4.7e-133	51.9
WP_077916944.1\|1327073_1328279_-	helicase SNF2	L0P6E9	Lactobacillus_phage	1.7e-89	46.4
WP_003726672.1\|1328256_1328631_-	hypothetical protein	NA	NA	NA	NA
WP_003723449.1\|1328923_1329652_+	UMP kinase	NA	NA	NA	NA
WP_003723450.1\|1329651_1330209_+	ribosome recycling factor	NA	NA	NA	NA
WP_031642179.1\|1330439_1331198_+	isoprenyl transferase	R9W0U9	Flavobacterium_phage	3.3e-22	42.1
WP_003727496.1\|1331211_1332000_+	phosphatidate cytidylyltransferase	NA	NA	NA	NA
WP_039117865.1\|1332014_1333157_+	1-deoxy-D-xylulose-5-phosphate reductoisomerase	NA	NA	NA	NA
WP_003726415.1\|1333170_1334433_+\|protease	RIP metalloprotease RseP	NA	NA	NA	NA

DBSCAN-SWA_4

1825536 : 1833822

Synechococcus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003726209.1\|1825536_1826103_-	phosphoribosylglycinamide formyltransferase	M4QRX9	Synechococcus_phage	8.3e-26	36.4
WP_003726210.1\|1826099_1827149_-	phosphoribosylformylglycinamidine cyclo-ligase	Q58MH8	Prochlorococcus_phage	3.2e-63	44.4
WP_003722245.1\|1827167_1828595_-	amidophosphoribosyltransferase	A0A0M3SGR2	Mollivirus	1.1e-53	34.6
WP_003726211.1\|1828579_1830799_-	phosphoribosylformylglycinamidine synthase subunit PurL	A6N228	Microbacterium_phage	2.5e-158	40.7
WP_003726212.1\|1830791_1831475_-	phosphoribosylformylglycinamidine synthase subunit PurQ	NA	NA	NA	NA
WP_003726213.1\|1831478_1831724_-	phosphoribosylformylglycinamidine synthase subunit PurS	NA	NA	NA	NA
WP_003726214.1\|1831735_1832449_-	phosphoribosylaminoimidazolesuccinocarboxamide synthase	A0A0E3F9V5	Synechococcus_phage	2.0e-40	38.3
WP_003726215.1\|1832529_1833822_-	adenylosuccinate lyase	A0A1B3B081	Gordonia_phage	2.5e-17	33.0

DBSCAN-SWA_5

2505085 : 2512930

Streptococcus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003725407.1\|2505085_2506057_-	DNA-binding protein WhiA	Q7AWZ3	Streptococcus_phage	5.2e-52	39.4
WP_003725408.1\|2506064_2507033_-	YvcK family protein	A1IMD5	Streptococcus_phage	3.9e-68	43.3
WP_003722606.1\|2507034_2507910_-	RNase adapter RapZ	A0A0R8VB27	Thermobifida_phage	1.9e-08	29.7
WP_003725409.1\|2508017_2509748_-	phospho-sugar mutase	A0A1X9I671	Streptococcus_phage	9.5e-174	53.1
WP_003741152.1\|2509789_2510851_-	galactose mutarotase	NA	NA	NA	NA
WP_003725411.1\|2510867_2511851_-	UDP-glucose 4-epimerase GalE	A0A2K9L5H6	Tupanvirus	4.0e-52	38.1
WP_003722610.1\|2511970_2512930_-	thioredoxin-disulfide reductase	G3MA85	Bacillus_virus	2.0e-88	53.7

Anti-CRISPR protein detection

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