CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
NC_015942	Acidithiobacillus ferrivorans SS3, complete sequence	1 crisprs	csa3,PD-DExK,RT,DEDDh,WYL,c2c9_V-U4,cas3,DinG,Cas9_archaeal	0	0	3	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_015942_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_015942_1

2297641-2297739

Orphan

Consensus_repeat	Method
CGTAGTCGGCGTAATGGCGCCACC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_015942_1

>merge|NC_015942|1|2297641-2297739|CRISPRCasFinder
CGTAGTCGGCGTAATGGCGCCACCTTGGGATCGGCGTAATGGCGCCACTTCCGGATCGGCATAAAGGAGCCAGTTCGGAGTCGGCGTAATGGCGCCACC

>NC_015942|1|1|2297641-2297739|CRISPRCasFinder
CGTAGTCGGCGTAATGGCGCCACC	TTGGGATCGGCGTAATGGCGCCACTTCCGGATCGGCATAAAGGAGCCAGTT
CGGAGTCGGCGTAATGGCGCCACC

Protein	Signature genes	Signature genes Name	Protein_function
NC_015942.1\|WP_014029683.1\|2310448_2311774_-\|group-II-intron-reverse-transcriptase/maturase	RT	pfam00078_RT_CAS-I:CAS-III	gnl\|CDD\|275209
NC_015942.1\|WP_014029666.1\|2288032_2290441_+\|nucleotide-binding-protein	unknown	unknown	gnl\|CDD\|350231
NC_015942.1\|WP_041649491.1\|2300767_2302882_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|368570
NC_015942.1\|WP_014029671.1\|2295285_2296152_+\|histidinol-phosphatase	unknown	unknown	gnl\|CDD\|213994
NC_015942.1\|WP_158306941.1\|2300184_2300391_+\|hypothetical-protein	unknown	unknown	unknown
NC_015942.1\|WP_041649486.1\|2296154_2297279_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|379741
NC_015942.1\|WP_014029678.1\|2304666_2305104_+\|hypothetical-protein	unknown	unknown	unknown
NC_015942.1\|WP_148260362.1\|2284115_2288036_+\|AAA-family-ATPase	unknown	unknown	gnl\|CDD\|372468
NC_015942.1\|WP_014029664.1\|2282071_2283907_+\|DUF262-domain-containing-protein	unknown	unknown	gnl\|CDD\|377008
NC_015942.1\|WP_014029681.1\|2307438_2308713_-\|hypothetical-protein	unknown	unknown	unknown
NC_015942.1\|WP_014029679.1\|2305201_2306905_+\|IS1634-family-transposase	unknown	unknown	gnl\|CDD\|227708
NC_015942.1\|WP_014029669.1\|2293454_2294039_+\|radical-SAM-protein	unknown	unknown	gnl\|CDD\|379137
NC_015942.1\|WP_014029674.1\|2299365_2300151_+\|ATP-binding-protein	unknown	unknown	gnl\|CDD\|224401
NC_015942.1\|WP_014029684.1\|2312602_2313124_+\|hypothetical-protein	unknown	unknown	unknown
NC_015942.1\|WP_148260328.1\|2280751_2281980_+\|IS3-family-transposase	unknown	unknown	gnl\|CDD\|222853
NC_015942.1\|WP_041651042.1\|2302910_2304122_+\|ISL3-family-transposase	unknown	unknown	gnl\|CDD\|376574
NC_015942.1\|WP_014029667.1\|2290445_2291591_+\|hypothetical-protein	unknown	unknown	unknown
NC_015942.1\|WP_014029668.1\|2291587_2293450_+\|ATP-dependent-Clp-protease-ATP-binding-subunit	unknown	unknown	gnl\|CDD\|223616
NC_015942.1\|WP_014029682.1\|2308846_2310154_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|376290
NC_015942.1\|WP_014029670.1\|2294260_2295289_+\|radical-SAM-protein	unknown	unknown	gnl\|CDD\|275121

Protein	Function_ID	Function_description	E-value
NC_015942.1\|WP_014029683.1\|2310448_2311774_-\|group-II-intron-reverse-transcriptase/maturase	gnl\|CDD\|275209	TIGR04416, hypothetical_protein, group II intron reverse transcriptase/maturase. Members of this protein family are multifunctional proteins encoded in most examples of bacterial group II introns. These group II introns are mobile selfish genetic elements, often with multiple highly identical copies per genome. Member proteins have an N-terminal reverse transcriptase (RNA-directed DNA polymerase) domain (pfam00078) followed by an RNA-binding maturase domain (pfam08388). Some members of this family may have an additional C-terminal DNA endonuclease domain that this model does not cover. A region of the group II intron ribozyme structure should be detectable nearby on the genome by Rfam model RF00029. [Mobile and extrachromosomal element functions, Other].	3.07779e-135
NC_015942.1\|WP_014029666.1\|2288032_2290441_+\|nucleotide-binding-protein	gnl\|CDD\|350231	cd09883, PIN_VapC_PhoHL-ATPase, VapC-like PIN domain of bacterial Smg6-like proteins with C-terminal PhoH-like ATPase domains. PIN (PilT N terminus) domain of Smg6-like bacterial proteins with C-terminal PhoH-like ATPase domains and other similar homologs are included in this family. Eukaryotic Smg5 and Smg6 nucleases are essential factors in nonsense-mediated mRNA decay (NMD), a post-transcriptional regulatory pathway that recognizes and rapidly degrades mRNAs containing premature translation termination codons. In vivo, the Smg6 PIN domain elicits degradation of bound mRNAs, as well as, metal ion dependent, degradation of single-stranded RNA, in vitro. The PIN domain belongs to a large nuclease superfamily. The structural properties of the PIN domain indicate its putative active center, consisting of invariant acidic amino acid residues (putative metal-binding residues), is geometrically similar in the active center of structure-specific 5' nucleases (also known as Flap endonuclease-1-like), PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons. PIN domains within this subgroup contain four highly conserved acidic residues (putative metal-binding, active site residues). Many of the bacterial homologs in this group have an N-terminal PIN domain and a C-terminal PhoH-like ATPase domain and are predicted to be ATPases which are induced by phosphate starvation.	1.13269e-31
NC_015942.1\|WP_041649491.1\|2300767_2302882_+\|hypothetical-protein	gnl\|CDD\|368570	pfam05704, Caps_synth, Capsular polysaccharide synthesis protein. This family consists of several capsular polysaccharide proteins. Capsular polysaccharide (CPS) is a major virulence factor in Streptococcus pneumoniae.	7.08892e-11
NC_015942.1\|WP_014029671.1\|2295285_2296152_+\|histidinol-phosphatase	gnl\|CDD\|213994	cd12110, PHP_HisPPase_Hisj_like, Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like. Bacillus subtilis YtvP HisJ has strong histidinol phosphate phosphatase (HisPPase) activity. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. HisPPase catalyzes the eighth step of histidine biosynthesis, in which L-histidinol phosphate undergoes dephosphorylation to produce histidinol. The PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination. The PHP domain of HisPPase is structurally homologous to other members of the PHP family that have a distorted (beta/alpha)7 barrel fold with a trinuclear metal site on the C-terminal side of the barrel.	8.17037e-68
NC_015942.1\|WP_041649486.1\|2296154_2297279_+\|hypothetical-protein	gnl\|CDD\|379741	pfam15610, PRTase_3, PRTase ComF-like. This PRTase family is related to the ComF PRTases. These genes are found in the smaller biosynthetic operon associated with the Ter stress-response operon and are predicted to be involved in the biosynthesis of a ribo-nucleoside involved in stress-response.	6.83122e-96
NC_015942.1\|WP_014029682.1\|2308846_2310154_-\|hypothetical-protein	gnl\|CDD\|376290	pfam18871, HEPN_Toprim_N, HEPN/Toprim N-terminal domain 1. Alpha + beta domain. Fused to two distinct HEPN families: MAE_28990 and ERFG_01251 families, TOPRIM and a Mrr-like REase domain.	5.17676e-21
NC_015942.1\|WP_148260362.1\|2284115_2288036_+\|AAA-family-ATPase	gnl\|CDD\|372468	pfam13087, AAA_12, AAA domain. This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.	3.53081e-37
NC_015942.1\|WP_014029664.1\|2282071_2283907_+\|DUF262-domain-containing-protein	gnl\|CDD\|377008	pfam03235, DUF262, Protein of unknown function DUF262.	1.78508e-32
NC_015942.1\|WP_014029679.1\|2305201_2306905_+\|IS1634-family-transposase	gnl\|CDD\|227708	COG5421, COG5421, Transposase [DNA replication, recombination, and repair].	2.39595e-17
NC_015942.1\|WP_014029669.1\|2293454_2294039_+\|radical-SAM-protein	gnl\|CDD\|379137	pfam13353, Fer4_12, 4Fe-4S single cluster domain. This family includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. The structure of the domain is an alpha-antiparallel beta sandwich.	2.44237e-30
NC_015942.1\|WP_014029674.1\|2299365_2300151_+\|ATP-binding-protein	gnl\|CDD\|224401	COG1484, DnaC, DNA replication protein [DNA replication, recombination, and repair].	7.19099e-54
NC_015942.1\|WP_148260328.1\|2280751_2281980_+\|IS3-family-transposase	gnl\|CDD\|222853	PHA02517, PHA02517, putative transposase OrfB; Reviewed.	2.99173e-129
NC_015942.1\|WP_041651042.1\|2302910_2304122_+\|ISL3-family-transposase	gnl\|CDD\|376574	pfam01610, DDE_Tnp_ISL3, Transposase. Transposase proteins are necessary for efficient DNA transposition. Contains transposases for IS204, IS1001, IS1096 and IS1165.	6.15778e-91
NC_015942.1\|WP_014029668.1\|2291587_2293450_+\|ATP-dependent-Clp-protease-ATP-binding-subunit	gnl\|CDD\|223616	COG0542, clpA, ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones].	4.70005e-91
NC_015942.1\|WP_014029670.1\|2294260_2295289_+\|radical-SAM-protein	gnl\|CDD\|275121	TIGR04317, W_rSAM_matur, tungsten cofactor oxidoreducase radical SAM maturase. Members of this family are radical SAM enzymes involved in the maturation of tungsten (W)-containing cofactors in the enzymes aldehyde ferredoxin oxidoreductase, formaldehyde ferredoxin oxidoreductase, and others, and tend to be encoded by an adjacent gene.	5.86144e-05

>NC_015942.1|WP_041649486.1|2296154_2297279_+|hypothetical-protein
MIYPENSPLWFEVLKSPVDVQLAMFRQASAQPRANDVKTGFRAFAAELFARDLISMTEYVSIFGGTALHCLTPAESGLFRDMATGSDATALAGIYSRAKYGGVHDIRYLARQLIDYLCGELDRPDSQWSYLFQNAKVCGDNVVMMTTGWRNVPSTANVLYEFVVEEVNVKLAHMALPTIINVKLPRIAPPCEDYASLSTEERERVNLVQDHVIPAENFYRWSGVHLIFGDDVLVTGSTADKVLYESMRNGAKSFRAIYPVAIDPRVALGDASVEDRLNSVVVEQRLDDTVAELLSARDYQPILRTLRLLFGEGNRESLAAFLPKVPAPTWLRLYKAALGNEFLSQPQCAPSLVLLREYLTNAGLLSTNGRPIHP
>NC_015942.1|WP_014029671.1|2295285_2296152_+|histidinol-phosphatase
MIDSHSHTSYSKHAIGTVDELVRASIAAGVTVLTITDHAPFPVDTDNRLLASELDRYFADIERAREIYQGQITILCGLELDYMPGTDAFNRELLARYPMDFVIGSIHYVEVPDEAMVKVWELPRLAGQVFLDRYFANLEGLLDSGLFDAVGHADTLLRGVPEDIFLRRFEPLLAPLARSGIAFELNTSGLRKSSLDPTTGREVQGFWSYPSRELVAQLISHEVPFTIGSDAHDPSDAGAGIAELLEALTPLGLENISYYERRRRIDVALDSLALPGTPATLTAGLERP
>NC_015942.1|WP_014029670.1|2294260_2295289_+|radical-SAM-protein
MHLQGHLLYIDITQICGIGCAFCMYADKHNAGIKMELSTLARENLARLINASEVKRISISGEGEPLNNAKVFHEILGLSEGGKSFEFITSGFYPHDRMEEFYDTTNRIVLANGDTCNIRLSADSHHIEKVKWRAHGFSLDFLRRRRPSGLSFSFRSIDTDRDFTREYLKSELACWGLEATIEPLSVLEDVLVAGGECFGIDYKNLVHPAPGTAPGYLDMLSYIEAIESKVNKPFTFGSLNKPPQANGLDVTVKPSGDIYLYGIENQRLGNIHFDRLDWKLLIAHVRETPLARALYTQPLTELLARLEATDLLRSVIAKTNNPYWLVKELAGHSGLLEQWEVE
>NC_015942.1|WP_014029669.1|2293454_2294039_+|radical-SAM-protein
MHWLNMASRLPCTEAEGPGRRAALWVQGCNKRCRGCCNPAYLQLAERELISASSVLDWLENAHHVHDLEGVTFLGGEPMLQAQGLAVVAQGAQLLGLSVMVFSGYTKAELEVLQLPGSVQLLQYTDVLVDGPYDANLPEHSRRWAGSTNQQFHYLTARYDDRIEIDGEVERVLEVRLRTDGSIFINGWPEKVLR
>NC_015942.1|WP_014029668.1|2291587_2293450_+|ATP-dependent-Clp-protease-ATP-binding-subunit
MSSALLPWQEDFRRECGIRRGVILHGNTGDLTSDPEAPGQWTALPTALMNLLRQRGYQHVVFWNRVNGVSGVDARTWGELQSSVTPPAAKESTSEGNAYDMGDLPPTPVASPASNGITASADDLLTVAAQWLRQPRAEKPVAFVLDWTQYLFGSVNSLSENERGWLLRLGQATRDAAVVRNAESIGQPQSLLVLLCGGLNVLPPSIYLNNPLFREIAIPLPPRQIRESAVLGLKEVFRLQPPLQQGGRELADFVDGLEGQSIRDIHNLARLSRQETEVSSALSLLNLYRHGRRHSPWEQLDHKKLQTIVETLGQRVKGQGEAIESVRRILVRAFTGLSGLQHSYRQRTPKGVLFFVGPTGVGKTELAKSIAEFLFGDEEACIRFDMSEFNHEHADQRLVGAPPGYVGYEAGGQLTNAVKQKPFSLLLFDEIEKAHPRILDKFLQILEDGRLTDGKGETVLFSDTVIVFTSNIGAAEVSHESQDVRNEFIQKVRQHFVHELKRPELLGRIGEANIIPFNFMRDDSFLIDIARAKLEPLRKGLKDKWGVSDLRLVKEAEILALLVREVDRGTGGRGVPNALTNKLIDPLADFLFTQMAAPDQIRGKAIEVHIADGKLLFDLE
>NC_015942.1|WP_014029667.1|2290445_2291591_+|hypothetical-protein
MSRADEYRYQIQRQRKQELDRQRVRETTRSFLDRYRSVLNEVASQGLDDVIPADFRELSSELRRMEALLEADPFAARDMSRSLGARIHGLPRFAREQRRSRQEAELAAAEAFRKAQQAEVERKLQLRAEFEAAWREGLSGWSTPVALNAAFAELQQLRERLLGNAANNMTSAQISAALREVRQRYEVDAERQLQEMKNRMQREAVTDVLTLQREQLEQEANRDGGERAAKLREALAHAIGLAPAEQAEALNQLVQEQDEAAVDESQRREVVRAVYQSLQQAGFVVDRPEHLVSEGEDQVLIRARRPAGAQADFRVNLSGHLSYKFHQYKGKTCEKDVTPVMATLQDAYGISLSDKRVIWVNPDDQDQDARPYPDATQERSK
>NC_015942.1|WP_014029666.1|2288032_2290441_+|nucleotide-binding-protein
MKLAEISVPLPLYRIDSDVTYHTERKPTVFERMVLRLCDPGLHLPDKQNLSLLGVFRDQLGAGDVRELLEGCVSELSALGALPKRYALDTLEAPLTELELTADGLQFLRSDSLPVRSRTIKVSHHYDPIGDKIKPVKKDGGLQSQSSMSCISAADNSLRPQNPLPQVERAVAQETYDWKNPATVIDRIAPVVQPAGWVERRLEVSCSEDGVLSASAPRDAALQRWLEQAQSELAWEILLADALTSEPNALLPNIDSSILRDARTARPIAATNGGAARARLCIVAQGVAAADATIPTIVLTSEVSAPELVANGKQPTVFTLLVPTPAGVVTGFRSLSLPQVGGASAQAEVAGNLRLYWAGQPRLCGLAVTLNDQAATALWAKLRRELEGTCEHSDDPLIAFMPVAWRDVDALDETVWPWLDARAEQPLDDLMALVEPATQAIGLWRPGRKDWRSAWEGSLAKAIDESLRHTPNQLEPEEVVALLIQVAQMLSADKAVPLQAALLRHAAPIRALESLAKLRSALPSTTEIPEELLSVELRQVWLENALERKELKLYGPHAIQQPVQDIEKAVQHVYRSIGEQALKAAGNNQMDVRTLTPHVLDAVRTWRKAAGSFHGLKVSLPLWDVLNEAVESWSLLAQEKLAPVEIGHRIVVLDTSALMEHPELLQGLSSGDILVVPLRVLSELDGLKSSEDENRAVKARAAIRQLDANSSRIRHETDYAALLPAEWDARQPDHAILSTALFFRLNDVLFVSNDINLRNKAQSLGLNTQDSKSYAPSRLVPAAAAAPGIHSRKQEKRKNQRK
>NC_015942.1|WP_148260362.1|2284115_2288036_+|AAA-family-ATPase
MNRAIADIQRRHQAFKNWCNGHDGAEVLYELLFPNNMPITGYVSNRQRDKQNPRYAQMAIRVNAAGRDWPFPEGCAFIATGSWPTESSPPLFLINGFIETADLPARSFEREVTAFAVHDSLQFTPGQQRIQRVNNLLTPQLLADLPPITQQTEKQLTEWTEFLRWKESLIRHKARGLRYISRGWRDEQLVFSLVGQSAQALQKDRKALGRDDLVVFQVGQSKEPWVFGLPEREERRLPRLGQAGKLSEPAPLPKDKKLPKDDNSPECPWPAPVLAELTVSLTEDDANDLANAEDPDVLRECILNRIPESGFLSISTAGDMSLIKRHQQALRQLQEQGGYAPYLTDYLFEAAQVSVPQRLEPVTQWANDRLNPAQKEAVVKILSAPDLCLVQGPPGTGKTTVIAEAIVQLARRGQRVLLASQAHTAVDNALDRLGHDGSLRVVRLARNESKVTEDGAAFAGQASLQRYYKALAGQTEDRLAVWRRGDKDLRLLQEWHERATFVSHDEKELNARRGQLETDLASALSQTTQALQAYDAACAMLDEEKAKRQRLHSVQALLHGEAETLHGDLRDVEQPARNLAQGLASCEAAGLLVKFSMDDWLAHAGSRGAMLAHMLAAWRRFTTVREAIYADIRRLRETANGPIQDASTRLRIESLRNEVKALEEQMEKDDAFVDAWRATRKELKELEQAGVGLERGRYDGLFRQASKWCASIENATQLADEMDASLSALEKLQPVIDQAIEILKRSVQTQLSQPATETPDDGLVRGARNQERSAQSKLDNWDQQRRQHEQKVKALLQDEAITQGNRLLLEPAANLSQRIETVAQVVKALEQRQDSLQHERQTWGPLLEDWMRDLSRNNAAEGDWQHLGADFLANCNVVAITCSENERTLDDAGQTSFDVAIIDEVSKATPLELLMPLMRARRAVLVGDHRQLPPLFQEGDEARSFMDEVEEDEASNADENSAGNLAEAQTLLTRDNLRRFEKMVTASLFKSHFEMADEAIRARLNVQFRMHPQIMAMVNHFYEGQLECGLLRPDDDPDPKLRRVHGLTLENVDGGSPLLTPNDHALWVDTTYNLHNQIHREDMDGNQPRRTNRLEAELIAETLEQIERQSAAQGYSRSKKRKVGVVSFYANQCREIRAAIRRRRPQGANGRYEFLDVEVNTVIRYQGKEKSIVLVSMVRHDGYDPLRSGNQPRRRSSKANVARFEFINVAFSRAQELLIVFGAKSMYASYEVDLPRMDSAGSVKRAVYKDILDQLERDARLVPARQLMSPDILPQQAQQQRGRFNVPPNRTAAPKRDNYGNRGGRA
>NC_015942.1|WP_014029664.1|2282071_2283907_+|DUF262-domain-containing-protein
MARIENHKYSIEEAFRECFYIVPDYQREYVWTDKEVHQLLEDIGEQIDAGTTREYFIGTVLVSPTDQKNHYEVIDGQQRLTTFFLLLCALKHLFQGEPQRQMISGLISTSYVDSDGEVRTNLKLEPRYESAGEVMAKLVELDADPQSVRAGIQASGIASFGSLENLVNAYSTLYRYLKDNYDDAPKLKKYWGYLANNVVFIQISTDVSSALKIFETINERGVGLNPMDLLKNLLFTQVKQAQFTQLKDEWKKITKPLEKQKEKPLRLLRYFLMANYVIKNERGNSVVREDEIYDWFIAKDNAALCDYAGKPFEFVRKVIRNVEHYLAFANGLGNDGKRSLAMDSLKRLAGGAFSLHFVLLLAAANFPKPLFDHFVAQLESFLFYYIFTKTPTKDLERSFSQWADELRAIAEISDPMKQKAQLNAFVADRFEKNMRGKSQELADALKRFTLYSMQQYRTRYLLARLTQHVEMAFSGLKVPGSLEPFTNLEIEHILPNKPEDDLRGKWATENPGMVYDDYKNRLGNLTLLEKPINIVAGNDFYTAKQVEYGKSGNYLTRSLVALTDVGQNTSISRINAKLEAFPAWNAASIEKRHAMLIALAQDVWKTTAIDV
>NC_015942.1|WP_148260328.1|2280751_2281980_+|IS3-family-transposase
MNKSKQFSSEVRERAVRLVQEHRGEYPSLWAAVESIAPKIGCVPSTLLAWVKRAEIDAGQRPGMSTAEAQRIKELEREVKELQRANEILKLASAFFGPGGARPPFEALRRFTDQYRDRFGVEPICRVLQIAPSGYRRYAAQQRNPTLRSARAQRDAVLLLEIQRIWQAHLQVYGADKVWKQMNREGILVARCTVERLMRHLGIQGVVRGKRIRTTVPDTQVPCPRDRVHRIFRAERPDQLWVSDFTYVSTWQGWLYVAFVIDVFARRIVGWQVSSTMHTDFVLDVLEQALHARQPQRDQSLIHHSDRGSQYVSIRYTERLAEAGIEPSVGSKGDSYDNALAETINGLYKAELIHRRAPWKTKASLELATLEWVHWFNHHRLLEPLGYIPPAEAEAQYYQQLERQAGQAA
>NC_015942.1|WP_014029674.1|2299365_2300151_+|ATP-binding-protein
MQTQELSSNLRALRLSGILDSLEARNRQAVDGQLAYTEFLAMLLQDEVARRDQRKFDTLLRQAHFRNHKTLEDFAFDRLPNLNRSLVHDLATGRYLQEQAPVLIVGPCGTGKSHLAQALGHCAIRQGVDVLFITQGDLVGSLHAARATGGFDRRFRQLAKVTLLIIDDFGLKPMRPPHDEDFHDLIAERYERVSTMLTSNLDFAEWGDVFPANRMLGVATLDRLRHGAYRLILEGDSFRAPRPLPESPKNTIAKGAKNTHS
>NC_015942.1|WP_158306941.1|2300184_2300391_+|hypothetical-protein
MAPLRRPSVAPYCRSVTPGKRGSAMIGLRHFERTFELHIYGPRVTVYDLGEALADQWQLASESSLRHA
>NC_015942.1|WP_041649491.1|2300767_2302882_+|hypothetical-protein
MPVLSEFLIRLLDWSFVFIKRLTKENSNVRHVVFVNWNGKYGDAIASAPIIEFLTSHCGVRVSVITNEPLRALYCSVMQVDSVHVIEKDFGWLDLVKVAFNVKRCDAVVPLFGKLGVKDVLCVFLLNPRVIFSTDSALKMSNKVFIDKSKHNDIYGIYQSIVDMEISGSNVLAEASFCVKKDCFSKSYDFLINPYGSREDKSLSIDKTKSLIRHLATYHRDSSFGVMHSPNSVLSASQLVDDLSLSNVELVKGIANFESVIPIIRKSGLLISVDTSLVHVSKVLNKGVVAIYPETKYFNVWQPTTSRNFEVIQSKGLVDFGDIKDMNQFENEDVDYAINRIKNSNRLENKKVVFLYWHSSKEDMPIGHALNIRNLEIRLSNSDWIVIVTALDKRAPDYIENYICLPSYFHQLTEKAGDPSVQHGNHSDIIRLRLLEKYGGVYLDTSTIFLRHDFEEVSLYKRFIYSKGASLAGYTNVTFTRKNENGRNYFEEAKDGIELGVLYAKKNSNILHIFNCEIDKYWKWKTSDKDYMDYPPFREYGLGKISFLNEYHVHYSIYHLIVTRQPELLGEVVVQSMHRSGKETALTHGPYAISDIFCRGKTSYEPASSKKMLQCFIEGDVDTWDGISTSLDGRIDICQEVEFLVIPGYMRKELEQEFTCLGDYLKKKSLYHEFYGFLDAEAELNYFEKTGSSLLGVDTGVRYS
>NC_015942.1|WP_041651042.1|2302910_2304122_+|ISL3-family-transposase
MDEDKLFTVALGLVPPWLVDHVTFTVEEKRLDLHINFPKGSRLACPECGQECPVHDTVEQKWRHMDFFQHETYLHARAPRVKCPEHGVRKVEVPWARPGSHFTLLFEGLLMTLIKHMPVKTVADLVGEHDTRLWRVVEHYVNEARAAMDMSAVRNVGLDETSNRRGHDYITLFVDLEAQRLLFATPGKDAKTVEAFATDLAAHGGDPKAIEEVSMDLSPAFQKGAAEHLPKAQITFDRFHLTALVNVAVDAVRRAEVHEQPDLKKTRWIWLKNTCNLKPKQQKQLDELKDRNLKTAFAYQLRLTFQQIFTLTDRHQGATLLKGWIELAKESALPPLVKVAYTMQNHWDGILHWFESHLSNGTLEGFNSLLQSAKSRARGYRTHKNFINMAYLVLGKLDLKLPT
>NC_015942.1|WP_014029678.1|2304666_2305104_+|hypothetical-protein
MPNMYIRDYDWANSKVRSIDDATLVDLLKIVQYQAGRMSALEGIGISDNAGAEDALFMYVLDALGVPPEGAEKQFKGDHDRFERVCKFSREWFEELFYQEFLLNNTAHGWSAEEVIKMFKEEASSPEFDSSSAKIVNFVTSPQHS
>NC_015942.1|WP_014029679.1|2305201_2306905_+|IS1634-family-transposase
MHVKITTSGSRRYVQLVESYRDDAGKVKKRTVATLGRLDQVDSQLNAVIQGLIKVSGQVPTPTPTISSPSIAFEAARAFGDVWALTELWKELGFSALRQVFRKTRHTTDVEALIRVMVLNRLCDPESKLGVLRWVETVALPDVTVTTITHQQLLRSMDALMEQQSAVDAVVAGLLRPLIDQDLSVVFYDLTTIRSEGLVTVPQDVRQFGMAKEGLIARQFMLGVVQTAEGLPIYHEVFDGNTAETKTLLPTLGKVLERFPTVRRLVLIADRGLLSLDNLEALQAIRLANGQSLEFILAVPGRRYHEFTDLLDSFQRESCNTATEEVIGERTWNDLRLVIAHDPMTAADQTAKRNARIEALITQGDQWAGKLDDQDDGKKHRGRKLSDSGAKARFYHAVCEAHLSRIIQVDMAAQQFSYDIDKSARTLAEKMDGKLLLVSNVQDLSPAEVVARYKSLADIERGFKVLKSELEIGPVYHRLPDRIRAHAAICFMALILHRVMRSRLRASHTGLTPERALEQLHRIQHHRVRLNGAPPVSGVSSIQECQSEVLHALRVKKPAASQQLTLL
>NC_015942.1|WP_014029681.1|2307438_2308713_-|hypothetical-protein
MNEGNGRDDFSRSTVESIAKRSGYICAYPSCKRMTVSGSNDRDSGLTMTGVAAHITAASEKGPRYDHNMSPKERASEINGIWTCQIHGKFIDDNPSRCSVEELRRWKSQHEKWVFDRVESGLELFSRGVCRLSFSKVYPFVGEFNIPVGRNNVLVGDIELGITFCQILSALSGGENWKKIKYLFDSSTRLGCFPYIELSHQSDNGTTRVKISRQNMATGRRKADNARQRVHVEVNGCPSPDWPRSLFRVLYFGNQLYRTHYTELKDTFIKALRYLANVLGTDEDLIWDSLREELFASSMFGNQFRRTGHRTVDIRVPGRDFFLPHKSLSFTEQQFAFLDIALKLVSCISRKEHWIYIFDTVFFERLDQSNKLSIFKKLTAYESGNVQTLFCLNSKVDADMLTNILTEKWVNAEQFEGLTLHSFL
>NC_015942.1|WP_014029682.1|2308846_2310154_-|hypothetical-protein
MGTYTDFSVAGYPLINSKNAVVPEVMTVFREGDKRVFKRRLGDRNPLVWGDAFADAADENETAIFYVCSTDNVIARLEVMGFTINRVRHDFEKHRQVEVAMYQEWADAKPHPPWFADKATLIASLSFDEYLDGLRHVLAEGLMPKPFDDNEKPELSSVVRYILDENDDYLLGFFCSDIRCLIRSVCEIAPKPSEVIQDITDLVEGGYYAPDEPVCQQAIYLLMLGHLENSNIIVLTEGSTDTQVLRASLKLLYPHLSDYYSFLDFENTRFPGGAGQLASLVKGFAAAGIGNRVIAVFDNDSAARDAMRSLTQLQLPANIAVVSYPDIKLLRSYPTIGPSGNINLDVNGLAAGIELYFGSDVLRSSDGSLAPVQWKGYVPSISSYQGAVLGKSELQAVFHRKLAGAKNNPEEQAHQDWTGIDAILRVIFGAFRDEA
>NC_015942.1|WP_014029683.1|2310448_2311774_-|group-II-intron-reverse-transcriptase/maturase
MSLATPGSIQKLQAALHAKAKEEPDFRFYLLYDKVYRKDVLEHAYARCKANKGAAGVDGERFEDVEAYGVERWIGELAETLRKKMYQPQAVKRVYIPKPGGKMRPLGIPTLRDRVVQTATMMVIEPIFEADLQPEQYAYRAGRNALTAVREVHSLLKTGHKQVVDADLSSYFDTIPHAELMKSVARRIVDRHLLHLIKMWLDAPVEEGDGRGNMQRTTVNRDQGRGTPQGAPISPLLSSLYMRRFILGWKQRGYEERFGSRIVCYADDLVICCRWQAEQAMAAMQDMMGRLKLTVNAEKTRICRVPEAYFDFLGYTFGLYHSEKTGYPYVGMRPSKKSVQRMVAAISAETTSQKGLLDAKTVVERLNRMLEGWANYFYLGPVRKAYRALDEHATRRLRRWLCMKHKVAKSGGTRFPHKYLYQDLGLVRLPERTRNLPWAKV
>NC_015942.1|WP_014029684.1|2312602_2313124_+|hypothetical-protein
MSSRSLTMSDLLAISGYSRDQMRGLLEAMPIYASRNSQVRVAKQYTAQDLLVLRTCSQLESRYGFQRSAAAGFSDALRSVLSGPRPLSTTARLLFTFEPLNVRYVEATEAIEEGLLIPLAPIFHAVDEYLLPGHARLIWGQRELGFGPQRINSATDIQKPAAAGRPDQTRRTP

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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

410055 : 475132

uncultured_Caudovirales_phage(18.18%)

integrase,transposase

attL 453041:453055|attR 479001:479015

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_087455007.1\|410055_411223_+\|transposase	IS3-like element ISAfe17 family transposase	S5WIU1	Leptospira_phage	3.6e-15	30.8
WP_158306914.1\|412168_413035_+	DUF2034 domain-containing protein	NA	NA	NA	NA
WP_014027894.1\|413372_413996_-	hypothetical protein	NA	NA	NA	NA
WP_014027895.1\|414670_415765_-\|integrase	site-specific integrase	W6MYA3	Pseudomonas_phage	2.2e-67	43.9
WP_014027896.1\|415993_417001_-\|integrase	tyrosine-type recombinase/integrase	A0A2H4JDJ8	uncultured_Caudovirales_phage	1.4e-36	35.7
WP_014027897.1\|416993_417224_-	DUF4224 domain-containing protein	NA	NA	NA	NA
WP_014027899.1\|417473_417743_-	hypothetical protein	NA	NA	NA	NA
WP_041648384.1\|417796_419287_-	ParB N-terminal domain-containing protein	NA	NA	NA	NA
WP_014027901.1\|419283_419469_-	hypothetical protein	NA	NA	NA	NA
WP_041648388.1\|419455_419689_-	hypothetical protein	NA	NA	NA	NA
WP_014027902.1\|419675_419903_-	hypothetical protein	NA	NA	NA	NA
WP_148260354.1\|420045_420972_-	hypothetical protein	NA	NA	NA	NA
WP_014027904.1\|421447_421876_-	helix-turn-helix transcriptional regulator	A0A2H4J6J6	uncultured_Caudovirales_phage	8.2e-10	44.8
WP_158306915.1\|422011_422188_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_014027905.1\|422544_422958_-	type II toxin-antitoxin system MqsA family antitoxin	NA	NA	NA	NA
WP_014027906.1\|422959_423262_-	type II toxin-antitoxin system MqsR family toxin	NA	NA	NA	NA
WP_014027907.1\|423393_423825_+	hypothetical protein	NA	NA	NA	NA
WP_014027908.1\|423829_424123_+	DUF1376 domain-containing protein	NA	NA	NA	NA
WP_014027909.1\|424109_424331_+	hypothetical protein	NA	NA	NA	NA
WP_014027910.1\|424333_425332_+	hypothetical protein	NA	NA	NA	NA
WP_014027911.1\|425343_426183_+	ATP-binding protein	A0A1W6JP39	Morganella_phage	5.0e-27	35.6
WP_158306916.1\|426131_426650_+	hypothetical protein	NA	NA	NA	NA
WP_158306917.1\|426659_427121_+	transglycosylase SLT domain-containing protein	NA	NA	NA	NA
WP_014027914.1\|427117_427741_+	DotI/IcmL/TraM family protein	NA	NA	NA	NA
WP_014027915.1\|427753_428854_+	hypothetical protein	NA	NA	NA	NA
WP_014027916.1\|428843_430070_+	DotG/IcmE/VirB10 family protein	NA	NA	NA	NA
WP_014027917.1\|430080_430638_+	sigma-70 family RNA polymerase sigma factor	NA	NA	NA	NA
WP_014027918.1\|430718_431330_+	hypothetical protein	NA	NA	NA	NA
WP_014027919.1\|431345_431855_+	hypothetical protein	NA	NA	NA	NA
WP_014027920.1\|431964_432186_+	DUF433 domain-containing protein	NA	NA	NA	NA
WP_014027921.1\|432185_432518_+	DUF5615 family PIN-like protein	NA	NA	NA	NA
WP_014027922.1\|434145_434547_+	hypothetical protein	NA	NA	NA	NA
WP_014027923.1\|434619_436137_+	ATP-binding protein	E5E3R2	Burkholderia_phage	1.2e-10	24.0
WP_014027924.1\|436376_439085_+	AAA family ATPase	A0A2K5B264	Erysipelothrix_phage	6.6e-206	43.3
WP_014027925.1\|439874_440333_+	hypothetical protein	NA	NA	NA	NA
WP_014027926.1\|440342_443339_+	hypothetical protein	NA	NA	NA	NA
WP_014027927.1\|443413_446083_+	DUF1738 domain-containing protein	A0A1V0EEV1	Caulobacter_phage	2.8e-23	34.5
WP_014027928.1\|446164_446779_+	hypothetical protein	NA	NA	NA	NA
WP_014027929.1\|446775_447321_+	hypothetical protein	NA	NA	NA	NA
WP_148260314.1\|447520_448405_+	hypothetical protein	NA	NA	NA	NA
WP_014027931.1\|448401_450555_+	hypothetical protein	NA	NA	NA	NA
WP_014027932.1\|450752_451751_+	LysR family transcriptional regulator	Q6JIH3	Burkholderia_virus	4.9e-05	25.1
WP_014027933.1\|451906_453601_+	NADH dehydrogenase subunit 5	NA	NA	NA	NA
453041:453055	attL	NA	NA	NA	NA
WP_014027934.1\|453597_456009_+	DUF2309 domain-containing protein	NA	NA	NA	NA
WP_049786877.1\|456118_457159_+	cache domain-containing protein	NA	NA	NA	NA
WP_014027936.1\|457188_458067_+	hypothetical protein	NA	NA	NA	NA
WP_014027937.1\|458212_458758_+	hypothetical protein	NA	NA	NA	NA
WP_014027938.1\|458821_459655_+	hypothetical protein	NA	NA	NA	NA
WP_041648395.1\|460161_460623_+	MarR family transcriptional regulator	NA	NA	NA	NA
WP_035191027.1\|460718_460958_+	CDGSH iron-sulfur domain-containing protein	NA	NA	NA	NA
WP_014027941.1\|460991_461636_+	YceI family protein	NA	NA	NA	NA
WP_014027942.1\|461696_462575_+	hypothetical protein	NA	NA	NA	NA
WP_014027943.1\|462606_463059_+	VOC family protein	NA	NA	NA	NA
WP_014027944.1\|463114_463342_+	hypothetical protein	NA	NA	NA	NA
WP_014027945.1\|463860_466488_+	EAL domain-containing protein	A0A127AWB9	Bacillus_phage	1.2e-13	38.4
WP_014027947.1\|469444_470659_-\|transposase	ISAzo13 family transposase	NA	NA	NA	NA
WP_041650265.1\|470705_471746_+\|transposase	IS110 family transposase	NA	NA	NA	NA
WP_049786827.1\|474874_475132_+\|integrase	tyrosine-type recombinase/integrase	Q19US1	Mannheimia_phage	7.3e-06	51.0
479001:479015	attR	NA	NA	NA	NA

DBSCAN-SWA_2

2015576 : 2025333

Streptococcus_phage(12.5%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_014029410.1\|2015576_2016770_-	glutamate 5-kinase	A0A1X9I5D0	Streptococcus_phage	1.0e-57	39.7
WP_014029411.1\|2017021_2018566_-	glutamine-hydrolyzing GMP synthase	A0A1V0SH76	Hokovirus	9.5e-16	32.6
WP_014029412.1\|2018569_2020030_-	IMP dehydrogenase	A0A1V0SHK8	Klosneuvirus	2.8e-94	41.5
WP_014029413.1\|2020204_2021188_+	glycosyltransferase family 2 protein	F1C5B0	Cronobacter_phage	9.5e-78	47.0
WP_014029414.1\|2021329_2022826_+	polynucleotide adenylyltransferase PcnB	H7BUW3	unidentified_phage	1.5e-26	36.9
WP_014029415.1\|2022845_2024195_+\|tRNA	CCA tRNA nucleotidyltransferase	A0A2H4YF77	Aeromonas_phage	9.8e-17	30.0
WP_014029416.1\|2024152_2024722_+	2-amino-4-hydroxy-6- hydroxymethyldihydropteridine diphosphokinase	S4W084	Pandoravirus	7.8e-16	35.2
WP_014029417.1\|2024718_2025333_+	deoxynucleoside kinase	M1HR32	Paramecium_bursaria_Chlorella_virus	1.8e-05	23.4

DBSCAN-SWA_3

2703773 : 2712596

Staphylococcus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_014030046.1\|2703773_2705456_+	ubiquinone biosynthesis regulatory protein kinase UbiB	A0A2N9QVT9	Dishui_lake_phycodnavirus	7.6e-35	28.4
WP_014030047.1\|2705513_2705867_+	LapA family protein	NA	NA	NA	NA
WP_014030048.1\|2705882_2706455_-	sel1 repeat family protein	NA	NA	NA	NA
WP_014030049.1\|2706618_2706939_-	DUF2934 domain-containing protein	NA	NA	NA	NA
WP_014030050.1\|2707056_2707500_-	transcription antitermination factor NusB	NA	NA	NA	NA
WP_014030051.1\|2707509_2707974_-	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	3.2e-36	52.3
WP_014030052.1\|2707970_2709104_-	3,4-dihydroxy-2-butanone-4-phosphate synthase	A0A2H4PQS2	Staphylococcus_phage	4.6e-52	36.7
WP_014030053.1\|2709100_2709757_-	riboflavin synthase	A0A2I2L4R9	Orpheovirus	3.3e-18	33.7
WP_041651110.1\|2709760_2710834_-	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A2H4PQS8	Staphylococcus_phage	2.3e-40	34.6
WP_014030055.1\|2710853_2711345_-	transcriptional repressor NrdR	NA	NA	NA	NA
WP_014030056.1\|2711351_2712596_-	serine hydroxymethyltransferase	A0A219Y950	Aeromonas_phage	2.5e-99	55.2

Anti-CRISPR protein detection

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