CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Target MGE spacer number	Prophage number
NC_012657	Clostridium botulinum Ba4 str. 657 plasmid pCLJ2, complete sequence	0 crisprs	NA	0	0
NC_012654	Clostridium botulinum Ba4 str. 657 plasmid pCLJ, complete sequence	1 crisprs	cas14k,cas14j,c2c10_CAS-V-U3,RT	1	19
NC_012658	Clostridium botulinum Ba4 str. 657, complete sequence	7 crisprs	DEDDh,csa3,DinG,WYL,cas3,cmr6gr7,cmr5gr11,cmr4gr7,csx1,cmr3gr5,cas10,cmr1gr7,cas6,RT	11	8

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_012654_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012654_1

135020-135114

Orphan

Consensus_repeat	Method
TGTTTCACTTTTATCGTGCACTTTT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_012654_1

>merge|NC_012654|1|135020-135114|CRISPRCasFinder
TGTTTCACTTTTATCGTGCACTTTTTTTATAATATTAGATTGTTGTATTTACTTTATTTGTTCAAAAAGTTGTTTCACTTTTGTCGTGCACTTTT

>NC_012654|1|1|135020-135114|CRISPRCasFinder
TGTTTCACTTTTATCGTGCACTTTT	TTTATAATATTAGATTGTTGTATTTACTTTATTTGTTCAAAAAGT
TGTTTCACTTTTGTCGTGCACTTTT

Protein	Signature genes	Signature genes Name	Protein_function
NC_012654.1\|WP_012720270.1\|136719_137031_-\|hypothetical-protein	unknown	unknown	unknown
NC_012654.1\|WP_003362438.1\|138379_138610_+\|hypothetical-protein	unknown	unknown	unknown
NC_012654.1\|WP_012291542.1\|137033_137243_-\|DNA-directed-RNA-polymerase-subunit-alpha	unknown	unknown	gnl\|CDD\|273934
NC_012654.1\|WP_012720215.1\|141328_141991_-\|DUF1292-domain-containing-protein	unknown	unknown	unknown
NC_012654.1\|WP_003362440.1\|138946_140014_-\|ParM/StbA-family-protein	unknown	unknown	gnl\|CDD\|212669
NC_012654.1\|WP_012720198.1\|119784_123660_-\|botulinum-neurotoxin-type-B	unknown	unknown	gnl\|CDD\|366783
NC_012654.1\|WP_012720272.1\|129600_131481_+\|botulinum-neurotoxin-hemagglutinin-HA70-subunit	unknown	unknown	gnl\|CDD\|308877
NC_012654.1\|WP_012720248.1\|123685_127279_-\|non-toxic-nonhemagglutinin-NTNH	unknown	unknown	gnl\|CDD\|366783
NC_012654.1\|WP_003362436.1\|137263_137512_-\|sporulation-transcriptional-regulator-SpoIIID	unknown	unknown	gnl\|CDD\|378813
NC_012654.1\|WP_003362439.1\|138651_138969_-\|hypothetical-protein	unknown	unknown	unknown
NC_012654.1\|WP_033063338.1\|140513_141092_+\|hypothetical-protein	unknown	unknown	unknown
NC_012654.1\|WP_003404193.1\|127440_127977_-\|botulinum-neurotoxin-transcription-activating-sigma-factor-BotR	unknown	unknown	gnl\|CDD\|132253
NC_012654.1\|WP_003362423.1\|117684_117852_-\|hypothetical-protein	unknown	unknown	unknown
NC_012654.1\|WP_012720176.1\|135192_136230_+\|hypothetical-protein	unknown	unknown	unknown
NC_012654.1\|WP_012720223.1\|133033_134521_+\|hypothetical-protein	unknown	unknown	unknown
NC_012654.1\|WP_003362429.1\|128202_129084_+\|ricin-type-beta-trefoil-lectin-domain-protein	unknown	unknown	gnl\|CDD\|214672
NC_012654.1\|WP_003356711.1\|129146_129587_+\|hemagglutinin	unknown	unknown	gnl\|CDD\|283282
NC_012654.1\|WP_003362437.1\|137622_137961_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|236468
NC_012654.1\|WP_003362431.1\|132304_132562_-\|hypothetical-protein	unknown	unknown	unknown
NC_012654.1\|WP_003362424.1\|117887_118100_-\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NC_012654.1\|WP_003404193.1\|127440_127977_-\|botulinum-neurotoxin-transcription-activating-sigma-factor-BotR	gnl\|CDD\|132253	TIGR03209, P-21_partial, clostridium toxin-associated regulator BotR. Clostridium botulinum neurotoxin production is regulated by a regulatory sigma-70 protein, BotR transcription regulator. Similarly, tetanus toxin production of Clostridium tetani is regulated by TetR which is a very close relative of BotR. Both BotR and TetR are members of the TIGR02937 subfamily of sigma-70 RNA polymerase sigma factors. Functional complementation experiments have been done for botR and tetR in highly transformable strain of Clostridium perfringens host cells to assess functional interchangeability of sigma factors and it has been confirmed that they are interchangeable in vivo.	7.62906e-65
NC_012654.1\|WP_003356711.1\|129146_129587_+\|hemagglutinin	gnl\|CDD\|283282	pfam05588, Botulinum_HA-17, Clostridium botulinum HA-17 domain. This family consists of several Clostridium botulinum hemagglutinin (HA) subcomponents. Clostridium botulinum type D strain 4947 produces two different sizes of progenitor toxins (M and L) as intact forms without proteolytic processing. The M toxin is composed of neurotoxin (NT) and nontoxic-nonhemagglutinin (NTNHA), whereas the L toxin is composed of the M toxin and hemagglutinin (HA) subcomponents (HA-70, HA-17, and HA-33).	3.90489e-76
NC_012654.1\|WP_012291542.1\|137033_137243_-\|DNA-directed-RNA-polymerase-subunit-alpha	gnl\|CDD\|273934	TIGR02027, DNA-directed_RNA_polymerase_subunit_alpha, DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type. This family consists of the bacterial (and chloroplast) DNA-directed RNA polymerase alpha subunit, encoded by the rpoA gene. The RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. The amino terminal domain is involved in dimerizing and assembling the other RNA polymerase subunits into a transcriptionally active enzyme. The carboxy-terminal domain contains determinants for interaction with DNA and with transcriptional activator proteins. [Transcription, DNA-dependent RNA polymerase].	3.91921e-08
NC_012654.1\|WP_003362437.1\|137622_137961_-\|hypothetical-protein	gnl\|CDD\|236468	PRK09330, PRK09330, cell division protein FtsZ; Validated.	0.00101769
NC_012654.1\|WP_003362429.1\|128202_129084_+\|ricin-type-beta-trefoil-lectin-domain-protein	gnl\|CDD\|214672	smart00458, RICIN, Ricin-type beta-trefoil. Carbohydrate-binding domain formed from presumed gene triplication.	8.14601e-13
NC_012654.1\|WP_012720272.1\|129600_131481_+\|botulinum-neurotoxin-hemagglutinin-HA70-subunit	gnl\|CDD\|308877	pfam03505, Clenterotox, Clostridium enterotoxin.	1.01551e-100
NC_012654.1\|WP_012720198.1\|119784_123660_-\|botulinum-neurotoxin-type-B	gnl\|CDD\|366783	pfam01742, Peptidase_M27, Clostridial neurotoxin zinc protease. These toxins are zinc proteases that block neurotransmitter release by proteolytic cleavage of synaptic proteins such as synaptobrevins, syntaxin and SNAP-25.	0
NC_012654.1\|WP_012720248.1\|123685_127279_-\|non-toxic-nonhemagglutinin-NTNH	gnl\|CDD\|366783	pfam01742, Peptidase_M27, Clostridial neurotoxin zinc protease. These toxins are zinc proteases that block neurotransmitter release by proteolytic cleavage of synaptic proteins such as synaptobrevins, syntaxin and SNAP-25.	9.69289e-140
NC_012654.1\|WP_003362440.1\|138946_140014_-\|ParM/StbA-family-protein	gnl\|CDD\|212669	cd10227, ParM_like, Plasmid segregation protein ParM and similar proteins. ParM is a plasmid-encoded bacterial homolog of actin, which polymerizes into filaments similar to F-actin, and plays a vital role in plasmid segregation. ParM filaments segregate plasmids paired at midcell into the individual daughter cells. This subfamily also contains Thermoplasma acidophilum Ta0583, an active ATPase at physiological temperatures, which has a propensity to form filaments.	1.82456e-30
NC_012654.1\|WP_003362436.1\|137263_137512_-\|sporulation-transcriptional-regulator-SpoIIID	gnl\|CDD\|378813	pfam12116, SpoIIID, Stage III sporulation protein D. This stage III sporulation protein is a small DNA-binding family that is essential for gene expression of the mother-cell compartment during sporulation. The domain is found in bacteria and viruses, and is about 40 amino acids in length. It has a conserved RGG sequence motif.	2.01583e-38

>NC_012654.1|WP_012720223.1|133033_134521_+|hypothetical-protein
MDIPDIPEYLIETIFGNIDQRLKQNFYNFYENLFNMNNKEENLKLLIKDIIQKEFMVAELTKISDMDLHKTKHTFIAPDKINKLKRYNLQQIKQTKKRWYNSLFKKKKTNPFNIEIETANNNITLYGPEVFFNLYKVRSIEELKDIRAAQFKDWLDNSIFITDFFYLKSKTNKQINTAFNLDFIYNICTIIYDKWNNNLNFIYMEYPKLLLDHPLVADGSGKIKVQKQTIIQQNQSNKNVKYKYNDYVSKDGITRILVPESNIDTKQSRLIDNKDLNILSNILKYKKADFLTNKTIVFNLIDIINNIYCSKTVRSYEDLRNRIAKMTLLKFNFFRTDNISGIPDAVYGIFSSYEYLDKSQNRVKVYVDSILYDKILKNQVYTIYNDKINQLNDDFAKTLVIYLQQEKLVLYTQGKNTTFLSYDYFSNLVRFRYKKEERNYKIIAQALENMKCNNIIIRDFKKHMNGFIITFLDTNQFEISDLFSNKNTSDILPMI
>NC_012654.1|WP_003362431.1|132304_132562_-|hypothetical-protein
MKIKHPKVNEYYNYLKESFANVNLSEEHRMDIYKRIEIIEALVGLYEQKYEFDDEIIEDLKLKYRPVFPEELKNIQKNLEKTIIK
>NC_012654.1|WP_012720272.1|129600_131481_+|botulinum-neurotoxin-hemagglutinin-HA70-subunit
MNSSIKKIYNDIQEKVINYSDTIDLADGNYVVRRGDGWILSRQNQILGGSVISNGSTGIVGDLRVNDNAIPYYYPTPSFNEEYIKNNIQTVFTNFTEANQIPIGFEFSKTAPSNKNLYMYLQYTYIRYEIIKVLQHEIIERAVLYVPSLGYVKSIEFNPGEKINKDFYFLTNDKCILNEQFLYKKILETTKNIPTNNIFNSKVSSTQRVLPYSNGLYVINKGDGYIRTNDKDLIGTLLIEAGSSGSIIQPRLRNTTRPLFTTSNDTKFSQQYTEERLKDAFNVQLFNTSTSLFKFVEEAPSDKNICIKAYNTYEKYELIDYQNGSIVNKAEYYLPSLGYCEVTNAPSPESEVVKMQVAEDGFIQNGPEEEIVVGVINPSENIQEINTAISDNYTYNIPGIVNNNPFYILFTVNTTGIYKINTQNNLPPLKIYEAIGSGNRNLQAGNLCNNNIKAINYITGFDSPNAKSYLVVLLNKDKNYYIRVPQTSPNIENQIKFKREEGDLRNLMNSSVNIIDNLNSTGAHYYTRQSPDVHDYISYEFTVPGNFNNKDTSNIRLYTSNNQGIGTLFRVIETIDGYKLIGIRQNLHLLNNTNSIRLLNGAIYILKVEVTELNNYNIRLHIDITN
>NC_012654.1|WP_003356711.1|129146_129587_+|hemagglutinin
MSVERTFLPNGNYNIKSIFSGSLYLNPVSKSLTFSNESSANNQKWNVEYMAENRCFKISNVAEPNKYLSYDNFGFISLDSLSNRCYWFPIKIAVNTYIMLSLNKVNELDYAWDIYDTNENILSQPLLLLPNFDIYNSNQMFKLEKI
>NC_012654.1|WP_003362429.1|128202_129084_+|ricin-type-beta-trefoil-lectin-domain-protein
MEHYSVIQNSLNDKIVTISCKADTNLFFYQVAGNVSLFQQTRNYLERWRLIYDSNKAAYKIKSMDIHNTNLVLTWNAPTHNISTQQDSNADNQYWLLLKDIGNNSFIIASYKNPNLVLYADTVARNLKLSTLNNSNYIKFIIEDYIISDLNNFTCKISPILDRNKVVQQVATTNLNVNLYTWDYGRNQKWTIRYNEEKAAYQFFNTILSNGVLTWIFSNGNTVRVSSSNDQNNDAQYWLINPVSDTDETYTITNLRDTTKALDLYNSQTANGTAIQVFNSNGGDNQKWNIRNP
>NC_012654.1|WP_003404193.1|127440_127977_-|botulinum-neurotoxin-transcription-activating-sigma-factor-BotR
MNKLFLQIEMLKNDNEEFQEIFKHFEKTINIFTRKYNIYDNYNDILYHLWYTLKKVDLSNFNTQNDLERYISRTLKRYCLDICNKRKIDKKIIYNSEIADKKLSLIANSYSSYSEFEFNDLISILPDDQKKIIYMKFVEDIKEIDIAKKLNISRQSVYKNKIMALERLEPILKKLINM
>NC_012654.1|WP_012720248.1|123685_127279_-|non-toxic-nonhemagglutinin-NTNH
MNINDNLSINSPVDNKNVVVVRARKTDTVFKAFKVAPNIWVAPERYYGESLSIDEEYKVDGGIYDSNFLSQDSEKDKFLQAIITLLKRINSTNAGEKLLSLISTAIPFPYGYIGGGYYAPNMITFGSAPKSNKKLNSLISSTIPFPYAGYRETNYLSSEDNKSFYASNIVIFGPGANIVENNTVFYKKEDAENGMGTMTEIWFQPFLTYKYDEFYIDPAIELIKCLIKSLYFLYGIKPSDDLVIPYRLRSELENIEYSQLNIVDLLVSGGIDPKFINTDPYWFTDNYFSNAKKVFEDHRNIYETQIEGNNAIGNDIKLRLKQKFRININDIWELNLNYFSKEFSIMMPDRFNNALKHFYRKQYYKIDYPENYSINGFVNGQINVQLSLSDRNQDIINKPEEIINLLNGNNVSLMRSNIYGDGLKSTVDDFYSNYKIPYNRAYEYHFNNSNDSSLDNVNIGVIDNIPEIIDVNPYKENCDKFSPVQKITSTREINTNIPWPINYLQAQNTNNEKFSLSSDFVEVVSSKDKSLVYSFLSNVMFYLDSIKDNSPIDTDKKYYLWLREIFRNYSFDITATQEINTDCGINKVVTWFGKALNILNTSDSFVEEFQNLGPISLINKKENLSMPIIEIYGIPNDMLGLPLNDLNEKLFNIYLKNILYFKKVYFNFLDQWWTEYYSQYFDLICMAKQSILAQEKLIKQIIQNKLQDLFKADISMDKLNLMNLATEKTFIDLSNESQIAINNINDFLNKSAICVFDTNIYPKFISFMEQCINSVNSNVTAFIQKCTNITEDEKLQLIKLNTFMNIDFEFFDIQSIKDLITSETDLIKEEKESDYNLFLFTLQEDNNKVIEDISGKNTLVKYSDSISLVYGVNGDALYLKEPDESVSFSNKAFENGLTNSFSICFWLRNLGEDIITSKLIENKADNCGWEIYFENNGLVFSIVDCNGNEENIYLSDVISKNWYYISISIDRLRNQLLIFINDKLIANQSIEQILNIYSSNTISLVNENNPIYIEGLSILNRSITSEEVVNNYFSYLNNSYIRDISGERLEYNKTYELYNYVFPENSLYEVTENNNIYLSIKDTNNLNIQGAKFKLINIDANKQYVQKWDEGVVCLLGDEEKYVDISSENNRIQLVSSKDTAKRIIFNNDIFRPNCLTFAYNNKYLSLSLRDRNYNWMICNNNDNIPKAAHLWALKGI
>NC_012654.1|WP_012720198.1|119784_123660_-|botulinum-neurotoxin-type-B
MPVTINNFNYNDPIDNNNIIMMEPPFARGMGRYYKAFKITDRIWIIPERYTFGYKPEDFNKSSGIFNRDVCEYYDPDYLNTNDKKNIFLQTMIKLFNRIKSKPLGEKLLEMIINGIPYLGDRRVPLEEFNTNIASVTVNKLISNPGEVERKKGIFANLIIFGPGPVLNENETIDIGIQNHFASREGFGGIMQMKFCPEYVSVFNNVQENKGASIFNRRGYFSDPALILMHELIHVLHGLYGIKVNDLPIVPNEKKFFMQSTDAIQAEELYTFGGQDPSIISPSTDKSIYDKVLQNFRGIVDRLNKVLVCISDPNININIYKNKFKDKYKFVEDSEGKYSIDVESFDKLYKSLMFGFTETNIAENYKIKTRASYFSDSLPPVKIKNLLDNEIYTIEEGFNISDKNMEKEYRGQNKAINKQAYEEISKEHLAVYKIQMCKSVKAPGICIDVDNEDLFFIADKNSFSDDLSKNERIAYNTQNNYIENDFSINELILDTDLISKIELPSENTESLTDFNVYVPVYKKQPAIKKIFTDENTIFQYLYSQTFPLDIRDISLTSSFDDALLFSNKVYSFFSMDYIKTANKVVEAGLFAGWVKQIVDDFVIEANKSSTMDKIADISLIVPYIGLALNVGNETAKGNFENAFEIAGASILLEFIPELLIPVVGAFLLESYIDNKNKIIETINSALTKRDEKWIDMYGLIVAQWLSTVNTQFYTIKEGMYKALNYQAQALEEIIKYKYNIYSEKERSNINIDFNDVNSKLNEGINQAIDNINNFINECSVSYLMKKMIPLAVEKLLDFDNTLRKNLLNYIDENKLYLIGSAEYEKSKVDKYLKTSIPFDLSTYTNNTILIEIFNKYNSDILNNIILNLRYRDNKLIDLSGYGAKVEVYDGVKLNDKNQFKLTSSANSKIRVIQNQNIIFNSMFLDFSVSFWIRIPKYKNDGIQNYIHNEYTIINCMKNNSGWKISIRGNMIIWTLIDINGKIKSVFFEYSIKEDISEYINRWFFVTITNNSDNAKIYINGKLESHIDIRDIREVIANDEIIFKLDGNIDRTQFIWMKYFSIFNTELSQSNIEEIYKIQSYSEYLKDFWGNPLMYNKEYYMFNAGNKNSYIKLKKDSSVGEILTRSKYNQNSKYINYRDLYIGEKFIIRRKSNSQSINDDIVRKEDYIYLDFFNLNQEWRVYMYKYFKKEEEKLFLAPISDSDEFYNTIQIKEYDEQPTYSCQLLFKKDEESTDEIGLIGIHRFYESGIVFKEYKDYFCISKWYLKEVKRKPYNSKLGCNWQFIPKDEGWTE
>NC_012654.1|WP_003362424.1|117887_118100_-|hypothetical-protein
MISIKRKDEIWNAIYAEPCLLDFNTLNTEELSFAIGIIISAGSRNSFKEDHFNKEQLKFLKKVFKELLKL
>NC_012654.1|WP_003362423.1|117684_117852_-|hypothetical-protein
MIKTKLFTGVTVLEAVYDYQDFIKRNQNLEIISVNILKDNFVLLTYKMFKEDIKW
>NC_012654.1|WP_012720176.1|135192_136230_+|hypothetical-protein
MALAIEKLFFNVSKNLIHFITEPIPLYHYKTISFNKCCYCPFYKKMYDKNIHNYCSNYCNNKYKKVIKKYNIYNNINIDKTHIQFSLTQIKQMLIYYYYANSKGFVSLISKKRIAKMIGCCEKTVDINNKLFSDLGLILISGTINNKFSLIIKDYSEHYSKNNAGYLNLATNVFKDLLHINNVNALRIALQGILKHDINTLLDRETYFSINSMKTFLPDYINCRSAIEKIISKLNSNKITMLFNSSEKLIFVISKNLHGKLLKKEMYYKYKNNFLNYITENNIKLNNLSHSINNIVKLSFEYGYDIVQLMLGEIKDIAPTIFNVGGYIRDKIKRYIYMNEPFFAI
>NC_012654.1|WP_012720270.1|136719_137031_-|hypothetical-protein
MEILYYVNNETNVLLVTTEEKDHMHYIKINKKDFLKYKKAGYAIITSAEMDFDLCLKMFSPTFKEKIINIIKKAIQNEYIIAEKRTDNKYTISVIDSNFKLVL
>NC_012654.1|WP_012291542.1|137033_137243_-|DNA-directed-RNA-polymerase-subunit-alpha
MRKNKRDELRELNLSIRAYNSLRNMGINTLEDLSMYSKKQLYQFKGIGIVSLRKIEKGLDKKNMKMEAV
>NC_012654.1|WP_003362436.1|137263_137512_-|sporulation-transcriptional-regulator-SpoIIID
MKDYIKERALDVSNYVINTKSTVRKTAKVFGVAKSTIHRDITERLPKINPEVAKEVQKVLDYNKSERHLRGGLATKIKYKII
>NC_012654.1|WP_003362437.1|137622_137961_-|hypothetical-protein
MEKIFINKLNSNQKILVTEEYIELLEYKTSLSSISDLYYLKQTGFIEKCECSKGIKRNEDLNGGGINSCISIWNLRKGWKSVLKNIMTLNEFNEVVKVIAERIDDNNLFTKK
>NC_012654.1|WP_003362438.1|138379_138610_+|hypothetical-protein
MYENLDIFQFGEYIINIFSEKKYREIDVFFNDMHIKIDKESTANNIVQNYTNEIVDSFQSTSNCNKIYSIFKRKDY
>NC_012654.1|WP_003362439.1|138651_138969_-|hypothetical-protein
MTSKPLNRSVIAFYEDEVLDMTILEILNDITTKRNRSNKIKDILIEYFNEKYPEEFNEIKNRLSENMEQKITPKKPTTNKNNQSSKEDDALINLVENNKDKWGSL
>NC_012654.1|WP_003362440.1|138946_140014_-|ParM/StbA-family-protein
MKNIIAGVDTGFGYGIGMTNDTEVIMKNYINNITEKEALNIANTIKELNNKNTLIKYNGKYFICGDACIERYPDTMQRLNRDRIKDEYHLIELLSIVGQLTKESEFNLYLCVGLPNRSKGDSKKFEDWLKGSAFEFSYLCNFGEVKKKVYIKDVTCLPQAYSPIFTLPRNDMNKTIFSVDIGHSTLDLMLVKNMQTVMASDTLLDGEGCIRIYNNLKQALIRQNEDKKITYYSYSQLQEILENGNYSLYGEEQQIENILNRCLEEYAEYVFFTIENNMYKYMPTVDTFIFSGGLLNNNTFKTILSDKFKQAYKIPLLVQNNRSQYTIAEGLKEYSNIKYADKLEVVKENDIKAAK
>NC_012654.1|WP_033063338.1|140513_141092_+|hypothetical-protein
MAESVPALLLLLITTGTNELLFLVDFSYFESLVLLVFGVVLFLLIISSFLDLEKEFDLKLLFVFDLFEFPFIEELLGVLTELLELGLILSLDFPLFPEEKELDLKLLFVLLVVEELLDLGPIVVLDGFDELLVEKELDLKPLLELDRLELDLKLLELELEELLLLPEEKELEEGLEEKELDLKLLLCDPPLA
>NC_012654.1|WP_012720215.1|141328_141991_-|DUF1292-domain-containing-protein
MNKIIEFTTKEKEKYSKQYTDILFNIDNLKDLLEEDKLKLRKFYPSSKILKEYLDLIDEANLKADGKGLFEYFKDDSKYKEELKKFKQKHIKNFIQIEECLKCSCFNCVKDCKFNSCLGCKEGSCISNCDHDTFNITIFKDRIIKLTNDATGEDINFKILSIIQFLENNKKYILLENVLDSEDKYILYYFTTIHGEEFEQIEDGGEVDKIAEIFYSQKSN

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_012654_1	1.1\|135045\|45\|NC_012654\|CRISPRCasFinder	135045-135089	45	NZ_CP014152	Clostridium botulinum strain BrDura plasmid pRSJ20_1, complete sequence	32418-32462	0	1.0
NC_012654_1	1.1\|135045\|45\|NC_012654\|CRISPRCasFinder	135045-135089	45	NZ_CP006909	Clostridium botulinum CDC_1436 plasmid pCBG, complete sequence	106595-106639	0	1.0
NC_012654_1	1.1\|135045\|45\|NC_012654\|CRISPRCasFinder	135045-135089	45	NZ_CP013684	Clostridium botulinum strain AM282 plasmid pRSJ10_1, complete sequence	247625-247669	0	1.0
NC_012654_1	1.1\|135045\|45\|NC_012654\|CRISPRCasFinder	135045-135089	45	NC_025146	Clostridium botulinum plasmid pCB111 DNA, complete sequence, strain: 111	228347-228391	0	1.0
NC_012654_1	1.1\|135045\|45\|NC_012654\|CRISPRCasFinder	135045-135089	45	NZ_CP031095	Clostridium botulinum strain CFSAN034200 plasmid p1_CDC51232, complete sequence	247094-247138	0	1.0
NC_012654_1	1.1\|135045\|45\|NC_012654\|CRISPRCasFinder	135045-135089	45	NZ_CP013710	Clostridium botulinum strain F634 plasmid pRSJ2_3, complete sequence	2139-2183	0	1.0
NC_012654_1	1.1\|135045\|45\|NC_012654\|CRISPRCasFinder	135045-135089	45	NZ_CP013700	Clostridium botulinum strain AM1195 plasmid pRSJ11_1, complete sequence	193851-193895	0	1.0
NC_012654_1	1.1\|135045\|45\|NC_012654\|CRISPRCasFinder	135045-135089	45	NC_012654	Clostridium botulinum Ba4 str. 657 plasmid pCLJ, complete sequence	135045-135089	0	1.0
NC_012654_1	1.1\|135045\|45\|NC_012654\|CRISPRCasFinder	135045-135089	45	NC_010379	Clostridium botulinum B1 str. Okra plasmid pCLD, complete sequence	57583-57627	1	0.978
NC_012654_1	1.1\|135045\|45\|NC_012654\|CRISPRCasFinder	135045-135089	45	NC_010418	Clostridium botulinum A3 str. Loch Maree plasmid pCLK, complete sequence	178142-178186	1	0.978

1. spacer 1.1|135045|45|NC_012654|CRISPRCasFinder matches to NZ_CP014152 (Clostridium botulinum strain BrDura plasmid pRSJ20_1, complete sequence) position: , mismatch: 0, identity: 1.0

tttataatattagattgttgtatttactttatttgttcaaaaagt	CRISPR spacer
tttataatattagattgttgtatttactttatttgttcaaaaagt	Protospacer
*********************************************

2. spacer 1.1|135045|45|NC_012654|CRISPRCasFinder matches to NZ_CP006909 (Clostridium botulinum CDC_1436 plasmid pCBG, complete sequence) position: , mismatch: 0, identity: 1.0

tttataatattagattgttgtatttactttatttgttcaaaaagt	CRISPR spacer
tttataatattagattgttgtatttactttatttgttcaaaaagt	Protospacer
*********************************************

3. spacer 1.1|135045|45|NC_012654|CRISPRCasFinder matches to NZ_CP013684 (Clostridium botulinum strain AM282 plasmid pRSJ10_1, complete sequence) position: , mismatch: 0, identity: 1.0

tttataatattagattgttgtatttactttatttgttcaaaaagt	CRISPR spacer
tttataatattagattgttgtatttactttatttgttcaaaaagt	Protospacer
*********************************************

4. spacer 1.1|135045|45|NC_012654|CRISPRCasFinder matches to NC_025146 (Clostridium botulinum plasmid pCB111 DNA, complete sequence, strain: 111) position: , mismatch: 0, identity: 1.0

tttataatattagattgttgtatttactttatttgttcaaaaagt	CRISPR spacer
tttataatattagattgttgtatttactttatttgttcaaaaagt	Protospacer
*********************************************

5. spacer 1.1|135045|45|NC_012654|CRISPRCasFinder matches to NZ_CP031095 (Clostridium botulinum strain CFSAN034200 plasmid p1_CDC51232, complete sequence) position: , mismatch: 0, identity: 1.0

tttataatattagattgttgtatttactttatttgttcaaaaagt	CRISPR spacer
tttataatattagattgttgtatttactttatttgttcaaaaagt	Protospacer
*********************************************

6. spacer 1.1|135045|45|NC_012654|CRISPRCasFinder matches to NZ_CP013710 (Clostridium botulinum strain F634 plasmid pRSJ2_3, complete sequence) position: , mismatch: 0, identity: 1.0

tttataatattagattgttgtatttactttatttgttcaaaaagt	CRISPR spacer
tttataatattagattgttgtatttactttatttgttcaaaaagt	Protospacer
*********************************************

7. spacer 1.1|135045|45|NC_012654|CRISPRCasFinder matches to NZ_CP013700 (Clostridium botulinum strain AM1195 plasmid pRSJ11_1, complete sequence) position: , mismatch: 0, identity: 1.0

tttataatattagattgttgtatttactttatttgttcaaaaagt	CRISPR spacer
tttataatattagattgttgtatttactttatttgttcaaaaagt	Protospacer
*********************************************

8. spacer 1.1|135045|45|NC_012654|CRISPRCasFinder matches to NC_012654 (Clostridium botulinum Ba4 str. 657 plasmid pCLJ, complete sequence) position: , mismatch: 0, identity: 1.0

tttataatattagattgttgtatttactttatttgttcaaaaagt	CRISPR spacer
tttataatattagattgttgtatttactttatttgttcaaaaagt	Protospacer
*********************************************

9. spacer 1.1|135045|45|NC_012654|CRISPRCasFinder matches to NC_010379 (Clostridium botulinum B1 str. Okra plasmid pCLD, complete sequence) position: , mismatch: 1, identity: 0.978

tttataatattagattgttgtatttactttatttgttcaaaaagt	CRISPR spacer
tttataatattaggttgttgtatttactttatttgttcaaaaagt	Protospacer
*************.*******************************

10. spacer 1.1|135045|45|NC_012654|CRISPRCasFinder matches to NC_010418 (Clostridium botulinum A3 str. Loch Maree plasmid pCLK, complete sequence) position: , mismatch: 1, identity: 0.978

tttataatattagattgttgtatttactttatttgttcaaaaagt	CRISPR spacer
tttataatattaggttgttgtatttactttatttgttcaaaaagt	Protospacer
*************.*******************************

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

0 : 12527

Clostridium_botulinum_C_phage(50.0%)

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_003362706.1\|98_410_-	hypothetical protein	NA	NA	NA	NA
WP_012720315.1\|827_1448_-	thermonuclease family protein	A0A2P1JU10	Anoxybacillus_phage	2.0e-41	54.7
WP_003362710.1\|1621_1924_-	hypothetical protein	NA	NA	NA	NA
WP_012720356.1\|3106_6997_-	botulinum neurotoxin type A	Q332E0	Clostridium_botulinum_C_phage	2.4e-172	32.3
WP_012720298.1\|7040_10520_-	non-toxic nonhemagglutinin NTNH	Q332E1	Clostridium_botulinum_C_phage	0.0e+00	56.8
WP_003362717.1\|10535_11786_-	neurotoxin-associated TULIP family protein P47	NA	NA	NA	NA
WP_003362716.1\|11990_12527_+	botulinum neurotoxin transcription-activating sigma factor BotR	Q38195	Clostridium_botulinum_phage	3.4e-37	52.0

DBSCAN-SWA_2

19266 : 82086

Staphylococcus_phage(11.76%)

transposase,protease

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_041173304.1\|19266_20217_-	peptidoglycan-binding protein	D0R7H8	Paenibacillus_phage	1.3e-15	35.6
WP_033063379.1\|21756_22158_+	hypothetical protein	NA	NA	NA	NA
WP_012720171.1\|22233_23388_-	methionine adenosyltransferase	A0A2H4PQS6	Staphylococcus_phage	5.6e-130	59.9
WP_003362727.1\|23384_25625_-\|protease	ATP-dependent Clp protease ATP-binding subunit	K4FB40	Cronobacter_phage	5.4e-121	40.2
WP_012720362.1\|25621_27007_-	MATE family efflux transporter	NA	NA	NA	NA
WP_003362730.1\|27040_27934_-	hypothetical protein	NA	NA	NA	NA
WP_003362731.1\|27953_28751_-	hypothetical protein	NA	NA	NA	NA
WP_003362732.1\|28770_29256_-	cytidine deoxyribosyltransferase	NA	NA	NA	NA
WP_012720281.1\|29281_30289_-	thiamine biosynthesis protein ThiH	NA	NA	NA	NA
WP_003362734.1\|30301_30499_-	hypothetical protein	NA	NA	NA	NA
WP_012720339.1\|30559_31339_-	class I SAM-dependent methyltransferase	NA	NA	NA	NA
WP_012720283.1\|31352_32738_-	coproporphyrinogen III oxidase family protein	NA	NA	NA	NA
WP_003362737.1\|32740_34006_-	phenylacetate--CoA ligase family protein	NA	NA	NA	NA
WP_003362738.1\|34047_34794_-	creatininase family protein	NA	NA	NA	NA
WP_003362740.1\|34816_35713_-	dihydroorotate dehydrogenase	NA	NA	NA	NA
WP_012720326.1\|35725_36208_-	hypothetical protein	NA	NA	NA	NA
WP_003362742.1\|36230_37292_-	radical SAM protein	NA	NA	NA	NA
WP_012720159.1\|37391_37532_-	hypothetical protein	NA	NA	NA	NA
WP_003362745.1\|38157_38808_-	response regulator transcription factor	NA	NA	NA	NA
WP_012720307.1\|39305_40031_+	DNA alkylation repair protein	NA	NA	NA	NA
WP_012720269.1\|40258_41503_-\|transposase	transposase	G3MB42	Bacillus_virus	2.9e-55	39.7
WP_012720186.1\|41652_41820_-	hypothetical protein	NA	NA	NA	NA
WP_012720148.1\|41844_42534_-	hypothetical protein	NA	NA	NA	NA
WP_012720199.1\|42687_43308_+	single-stranded DNA-binding protein	G4KNN8	Staphylococcus_phage	9.4e-15	40.5
WP_012720345.1\|43411_44557_+	DNA polymerase III subunit beta	NA	NA	NA	NA
WP_012720214.1\|44813_48431_+	viral A-type inclusion protein	NA	NA	NA	NA
WP_012720289.1\|50522_54197_-	hypothetical protein	NA	NA	NA	NA
WP_012720353.1\|54468_55329_-	hypothetical protein	NA	NA	NA	NA
WP_012720166.1\|55482_56511_-	hypothetical protein	NA	NA	NA	NA
WP_012720350.1\|56598_57402_-	hypothetical protein	NA	NA	NA	NA
WP_012720321.1\|57436_58216_-	hypothetical protein	NA	NA	NA	NA
WP_012720225.1\|58824_59139_+	hypothetical protein	NA	NA	NA	NA
WP_012720273.1\|59089_59524_+\|transposase	IS200/IS605 family transposase	A0A286QN76	Streptococcus_phage	6.3e-50	70.0
WP_012720280.1\|59533_60622_+\|transposase	transposase	Q332I1	Clostridium_botulinum_C_phage	1.0e-157	80.9
WP_012720344.1\|61727_62129_+	hypothetical protein	A0A218KCI4	Bacillus_phage	6.3e-12	41.6
WP_012720238.1\|62125_64528_+	ATP-binding protein	E5DV71	Deep-sea_thermophilic_phage	3.1e-74	29.3
WP_041173305.1\|64709_65309_+	hypothetical protein	NA	NA	NA	NA
WP_012720317.1\|65554_65956_-	hypothetical protein	NA	NA	NA	NA
WP_012720153.1\|66117_66261_-	hypothetical protein	NA	NA	NA	NA
WP_004451773.1\|66382_66550_-	hypothetical protein	NA	NA	NA	NA
WP_004451772.1\|66549_66915_-	hypothetical protein	NA	NA	NA	NA
WP_012291488.1\|66931_67111_-	hypothetical protein	NA	NA	NA	NA
WP_004451771.1\|67135_67306_-	hypothetical protein	NA	NA	NA	NA
WP_012720329.1\|67302_67494_-	hypothetical protein	NA	NA	NA	NA
WP_012720259.1\|67827_68133_-	NADAR family protein	A0A2D2W261	Stenotrophomonas_phage	9.3e-16	52.1
WP_012720190.1\|68142_68415_-	hypothetical protein	NA	NA	NA	NA
WP_012720346.1\|68442_68715_-	hypothetical protein	NA	NA	NA	NA
WP_012720260.1\|68900_71012_-	phosphoadenosine phosphosulfate reductase family protein	A0A109Z8C1	Bacillus_phage	9.6e-35	29.1
WP_012720212.1\|71175_71388_-	PspC domain-containing protein	NA	NA	NA	NA
WP_012720155.1\|71515_73798_-	methyltransferase	A0A2I7RHK4	Vibrio_phage	6.2e-64	31.6
WP_012720311.1\|74067_74331_-	hypothetical protein	NA	NA	NA	NA
WP_012720366.1\|76183_76747_-	SH3 domain-containing protein	NA	NA	NA	NA
WP_003362341.1\|76939_77344_+\|transposase	IS200/IS605 family transposase	A0A286QN76	Streptococcus_phage	3.7e-52	69.2
WP_012720257.1\|77337_78435_+\|transposase	transposase	Q332I1	Clostridium_botulinum_C_phage	6.7e-141	74.4
WP_012720267.1\|78821_79229_-\|transposase	IS200/IS605 family transposase	W0UUZ0	Sulfolobus_monocaudavirus	9.8e-21	42.6
WP_012720316.1\|79197_79350_-	hypothetical protein	NA	NA	NA	NA
WP_012720142.1\|79461_80703_+\|transposase	transposase	G3MB42	Bacillus_virus	5.6e-51	35.3
WP_012720278.1\|81123_82086_-	SPFH/Band 7/PHB domain protein	M1PGF9	Moumouvirus	1.5e-22	34.7

DBSCAN-SWA_3

87063 : 97174

Clostridium_botulinum_C_phage(20.0%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012720211.1\|87063_88152_-\|transposase	transposase	Q332I1	Clostridium_botulinum_C_phage	6.7e-149	77.3
WP_012720147.1\|88220_88466_-	CDP-alcohol phosphatidyltransferase	NA	NA	NA	NA
WP_003362362.1\|88714_88948_-	hypothetical protein	NA	NA	NA	NA
WP_003362363.1\|89723_90458_+	Fic family protein	NA	NA	NA	NA
WP_012720161.1\|90545_90992_-	single-stranded DNA-binding protein	A0A290GHL8	Caldibacillus_phage	7.9e-32	52.3
WP_003362366.1\|91185_92328_-\|transposase	transposase	A0A0P0IJS6	Lactobacillus_phage	7.1e-85	45.3
WP_012720253.1\|92486_93515_-	C40 family peptidase	A0A1V0DZX6	Clostridioides_phage	5.2e-26	50.9
WP_003362368.1\|93595_93781_+	hypothetical protein	NA	NA	NA	NA
WP_012720358.1\|93806_94199_-	LemA family protein	NA	NA	NA	NA
WP_003401881.1\|94220_94361_-	hypothetical protein	NA	NA	NA	NA
WP_012300981.1\|94450_94906_-	prepilin peptidase	NA	NA	NA	NA
WP_003362372.1\|95037_95628_+	HD domain-containing protein	NA	NA	NA	NA
WP_012720181.1\|95755_97174_-	DNA polymerase III subunit gamma/tau	A0A1U9WR94	Streptococcus_virus	4.4e-52	44.4

DBSCAN-SWA_4

100193 : 100751

Bacillus_phage(100.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003362380.1\|100193_100751_-	DUF1273 family protein	A0A1P8CWY2	Bacillus_phage	5.3e-33	45.1

DBSCAN-SWA_5

104298 : 104934

Bacillus_phage(100.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012720304.1\|104298_104934_-	hypothetical protein	A0A288WGA8	Bacillus_phage	3.2e-26	34.3

DBSCAN-SWA_6

108660 : 109254

Bacillus_phage(100.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012720230.1\|108660_109254_-	AAA family ATPase	A0A0E3X9J6	Bacillus_phage	1.1e-15	34.1

DBSCAN-SWA_7

115077 : 131481

Clostridium_botulinum_D_phage(37.5%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012720297.1\|115077_115698_-	DUF5052 family protein	A0A2P0ZKZ7	Lactobacillus_phage	2.4e-42	43.9
WP_003362420.1\|116535_116994_-	hypothetical protein	A0A0E3Y6D6	Fusobacterium_phage	9.5e-65	72.0
WP_003362421.1\|117065_117422_-	hypothetical protein	NA	NA	NA	NA
WP_003362422.1\|117482_117668_-	hypothetical protein	NA	NA	NA	NA
WP_003362423.1\|117684_117852_-	hypothetical protein	NA	NA	NA	NA
WP_003362424.1\|117887_118100_-	hypothetical protein	NA	NA	NA	NA
WP_012720198.1\|119784_123660_-	botulinum neurotoxin type B	Q332E0	Clostridium_botulinum_C_phage	7.1e-185	33.1
WP_012720248.1\|123685_127279_-	non-toxic nonhemagglutinin NTNH	Q332E1	Clostridium_botulinum_C_phage	0.0e+00	69.2
WP_003404193.1\|127440_127977_-	botulinum neurotoxin transcription-activating sigma factor BotR	Q9ZWV5	Clostridium_botulinum_D_phage	5.6e-40	52.8
WP_003362429.1\|128202_129084_+	ricin-type beta-trefoil lectin domain protein	Q38196	Clostridium_botulinum_phage	5.0e-38	36.4
WP_003356711.1\|129146_129587_+	hemagglutinin	Q786Y1	Clostridium_botulinum_D_phage	1.9e-46	63.0
WP_012720272.1\|129600_131481_+	botulinum neurotoxin hemagglutinin HA70 subunit	Q786X9	Clostridium_botulinum_D_phage	6.8e-242	68.5

DBSCAN-SWA_8

137263 : 137512

Clostridium_phage(100.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003362436.1\|137263_137512_-	sporulation transcriptional regulator SpoIIID	M9Q261	Clostridium_phage	3.3e-19	59.0

DBSCAN-SWA_9

146391 : 146778

Lactococcus_phage(100.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012720174.1\|146391_146778_-	hypothetical protein	A0A1W6JL34	Lactococcus_phage	6.9e-08	33.1

DBSCAN-SWA_10

154782 : 168247

Clostridium_phage(16.67%)

protease

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012720365.1\|154782_155808_-	nucleoid-associated protein	J9QE81	Clostridium_phage	1.6e-27	26.3
WP_012720265.1\|155899_156241_-	hypothetical protein	NA	NA	NA	NA
WP_012720241.1\|156369_156759_-	hypothetical protein	NA	NA	NA	NA
WP_012720229.1\|156819_157137_-	hypothetical protein	NA	NA	NA	NA
WP_012720341.1\|157170_157722_-	hypothetical protein	NA	NA	NA	NA
WP_012720308.1\|157718_158444_-	hypothetical protein	A0A2H4J8I2	uncultured_Caudovirales_phage	9.6e-27	36.4
WP_012720231.1\|158501_158885_-	hypothetical protein	NA	NA	NA	NA
WP_012720175.1\|158999_159791_-	hypothetical protein	NA	NA	NA	NA
WP_012720160.1\|159890_160346_-	hypothetical protein	NA	NA	NA	NA
WP_041173308.1\|160670_161984_-	HNH endonuclease	Q331Y3	Clostridium_botulinum_C_phage	1.8e-156	64.3
WP_012720192.1\|162253_163129_-	prohibitin family protein	A0A172JI70	Bacillus_phage	1.7e-33	31.1
WP_012720250.1\|163130_163274_-	hypothetical protein	NA	NA	NA	NA
WP_012720291.1\|163396_163960_-\|protease	spore protease YyaC	G3M9W0	Bacillus_virus	3.2e-22	44.6
WP_012720145.1\|164241_165048_+	ADP-ribosylglycohydrolase family protein	NA	NA	NA	NA
WP_012720348.1\|165300_165807_-	Flp pilus assembly complex ATPase component TadA	NA	NA	NA	NA
WP_012720285.1\|166074_166455_-	hypothetical protein	NA	NA	NA	NA
WP_012720232.1\|166522_168247_-	AAA family ATPase	H8ZJI5	Ostreococcus_tauri_virus	5.5e-89	37.5

DBSCAN-SWA_11

175533 : 182320

unidentified_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012720328.1\|175533_179940_-	hypothetical protein	H7BVN1	unidentified_phage	1.1e-16	45.4
WP_012720268.1\|180183_181512_-	replicative DNA helicase	O80281	Escherichia_phage	1.3e-58	35.8
WP_012720218.1\|181501_182320_-	ATP-binding protein	Q0H276	Geobacillus_phage	1.6e-22	28.7

DBSCAN-SWA_12

192587 : 193640

Bacillus_virus(100.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012720244.1\|192587_193640_-	ParM/StbA family protein	G3MAP7	Bacillus_virus	8.7e-21	23.9

DBSCAN-SWA_13

197720 : 197987

Clostridium_phage(100.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012720271.1\|197720_197987_-	sporulation transcriptional regulator SpoIIID	M9Q261	Clostridium_phage	6.6e-10	41.3

DBSCAN-SWA_14

205303 : 211409

Clostridium_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012720363.1\|205303_207055_-	C40 family peptidase	A0A0A8WF62	Clostridium_phage	1.3e-29	47.5
WP_012720146.1\|207090_208854_-	hypothetical protein	NA	NA	NA	NA
WP_012720224.1\|208926_209328_-	hypothetical protein	NA	NA	NA	NA
WP_012720201.1\|209546_211409_-	ATP-binding protein	G3MBM1	Bacillus_virus	2.0e-15	26.0

DBSCAN-SWA_15

214689 : 223156

uncultured_Caudovirales_phage(25.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012720206.1\|214689_216636_-	PcfJ family protein	A0A2H4J308	uncultured_Caudovirales_phage	6.4e-17	42.5
WP_012720158.1\|216682_217267_-	hypothetical protein	NA	NA	NA	NA
WP_012720313.1\|217402_219331_-	ATPase	A0A0C5AFF4	Paenibacillus_phage	8.0e-12	20.9
WP_012720221.1\|219347_219725_-	hypothetical protein	E7DN80	Pneumococcus_phage	2.2e-11	47.8
WP_012720279.1\|219856_220276_-	DNA topoisomerase III	NA	NA	NA	NA
WP_012720325.1\|220294_220669_-	tetratricopeptide repeat protein	NA	NA	NA	NA
WP_012720245.1\|220813_223156_-	type IA DNA topoisomerase	A0A1X9I6W8	Streptococcus_phage	5.1e-37	29.0

DBSCAN-SWA_16

228740 : 229631

Bacillus_phage(100.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012720263.1\|228740_229631_-	sigma-70 family RNA polymerase sigma factor	A0A0E3D9C3	Bacillus_phage	5.7e-13	32.7

DBSCAN-SWA_17

238045 : 253304

Planktothrix_phage(16.67%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012720227.1\|238045_238729_-	ATP-binding cassette domain-containing protein	G9BWD6	Planktothrix_phage	2.3e-22	31.6
WP_012720342.1\|238747_239092_-	hypothetical protein	NA	NA	NA	NA
WP_012720293.1\|239382_240711_-	hypothetical protein	NA	NA	NA	NA
WP_012720249.1\|240707_243860_-	protein kinase	A0A2R8FF19	Brazilian_cedratvirus	3.8e-11	28.4
WP_012720144.1\|244154_245033_-	hypothetical protein	I3PUW5	Vibrio_phage	4.1e-16	27.6
WP_012720303.1\|245211_247092_-	group II intron reverse transcriptase/maturase	A0A0U4J920	Pseudomonas_phage	9.4e-34	27.1
WP_012720309.1\|247798_251719_-	DEAD/DEAH box helicase family protein	A0A248SL14	Klebsiella_phage	7.1e-209	33.9
WP_114621502.1\|251833_252088_-	hypothetical protein	NA	NA	NA	NA
WP_012720178.1\|252215_253304_-\|transposase	transposase	Q332I1	Clostridium_botulinum_C_phage	8.7e-157	79.8

DBSCAN-SWA_18

260084 : 260465

Streptococcus_phage(100.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012720247.1\|260084_260465_-	type II toxin-antitoxin system death-on-curing family toxin	D0R0D2	Streptococcus_phage	2.3e-24	42.3

DBSCAN-SWA_19

263608 : 263827

Bacillus_phage(100.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003362696.1\|263608_263827_-	hypothetical protein	A0A172JIH8	Bacillus_phage	1.7e-16	71.4

Anti-CRISPR protein detection

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

2. NC_012658

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CRISPR-Cas detection and classification

Crispr_ID: NC_012658_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012658_1

2367157-2367253

TypeIII

III-B

Consensus_repeat	Method
ATTTAAATACATCTTATGTTAATGTTCAA	CRISPRCasFinder

1 spacers

cmr6gr7,cmr5gr11,cmr4gr7,csx1,cmr3gr5,cas10,cmr1gr7

The CRISPR arrays of NC_012658_1

>merge|NC_012658|1|2367157-2367253|CRISPRCasFinder
GCTTAAGTACATCTCATGTTAATGTTCAACCTATTTTACGATTGTTTAATGGAGATATAACAATAGCGTTTAAATACATCTCATGTTAATGTTCAAC

>NC_012658|1|1|2367157-2367253|CRISPRCasFinder
GCTTAAGTACATCTCATGTTAATGTTCAA	CCTATTTTACGATTGTTTAATGGAGATATAACAATAGC
GTTTAAATACATCTCATGTTAATGTTCAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_012658.1\|WP_012720909.1\|2371222_2371516_-\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_003361941.1\|2373261_2373711_-\|type-III-B-CRISPR-module-associated-protein-Cmr5	cmr5gr11	pfam09701_cmr5gr11_CAS-III-B	gnl\|CDD\|378242
NC_012658.1\|WP_003361942.1\|2373727_2374606_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	cmr4gr7	COG1336_cmr4gr7_CAS-III-C	gnl\|CDD\|224255
NC_012658.1\|WP_003361924.1\|2360257_2360746_+\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_003361926.1\|2360783_2361206_-\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_003361940.1\|2372090_2373125_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr6	cmr6gr7	cd09661_cmr6gr7_CAS-III-B	gnl\|CDD\|187792
NC_012658.1\|WP_003361947.1\|2379092_2379998_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	cmr1gr7	COG1367_cmr1gr7_CAS-III-B	gnl\|CDD\|273859
NC_012658.1\|WP_012720949.1\|2377203_2379108_-\|type-III-B-CRISPR-associated-protein-Cas10/Cmr2	cas10	cd09679_cas10_CAS-III	gnl\|CDD\|187810
NC_012658.1\|WP_012720905.1\|2370377_2371175_-\|MerR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|133378
NC_012658.1\|WP_012721146.1\|2366415_2366937_+\|DUF4825-domain-containing-protein	unknown	unknown	gnl\|CDD\|379767
NC_012658.1\|WP_003361945.1\|2376068_2377202_-\|type-III-B-CRISPR-module-associated-protein-Cmr3	cmr3gr5	pfam09700_cmr3gr5_CAS-III-B	gnl\|CDD\|187879
NC_012658.1\|WP_012721052.1\|2362960_2364367_+\|peptide-MFS-transporter	unknown	unknown	gnl\|CDD\|340904
NC_012658.1\|WP_012720660.1\|2368283_2370281_-\|FAD-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|239241
NC_012658.1\|WP_003361923.1\|2359007_2359601_-\|glycerol-3-phosphate-acyltransferase	unknown	unknown	gnl\|CDD\|172889
NC_012658.1\|WP_003361943.1\|2374621_2376076_-\|hypothetical-protein	csx1	mkCas0085_csx1_CAS-III	unknown
NC_012658.1\|WP_003361932.1\|2365217_2366108_-\|AraC-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|225117
NC_012658.1\|WP_003361931.1\|2364470_2365211_-\|class-I-SAM-dependent-methyltransferase	unknown	unknown	gnl\|CDD\|379312
NC_012658.1\|WP_012720962.1\|2361338_2361953_-\|sugar-O-acetyltransferase	unknown	unknown	gnl\|CDD\|100047
NC_012658.1\|WP_033063258.1\|2362276_2362630_+\|aminopeptidase-P-family-N-terminal-domain-containing-protein	unknown	unknown	gnl\|CDD\|379790
NC_012658.1\|WP_003361929.1\|2362713_2362887_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|238518

Protein	Function_ID	Function_description	E-value
NC_012658.1\|WP_003361941.1\|2373261_2373711_-\|type-III-B-CRISPR-module-associated-protein-Cmr5	gnl\|CDD\|378242	pfam09701, Cas_Cmr5, CRISPR-associated protein (Cas_Cmr5). CRISPR is a term for Clustered, Regularly Interspaced Short Palindromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family, represented by TM1791.1 of Thermotoga maritima, is found in both archaeal and bacterial species.	1.51792e-21
NC_012658.1\|WP_003361942.1\|2373727_2374606_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	gnl\|CDD\|224255	COG1336, COG1336, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	2.08006e-62
NC_012658.1\|WP_003361940.1\|2372090_2373125_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr6	gnl\|CDD\|187792	cd09661, Cmr6_III-B, CRISPR/Cas system-associated RAMP superfamily protein Cmr6. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein; This protein is a subunit of Cmr complex.	5.27946e-51
NC_012658.1\|WP_003361947.1\|2379092_2379998_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	gnl\|CDD\|273859	TIGR01894, hypothetical_protein, CRISPR type III-B/RAMP module RAMP protein Cmr1. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model represents the region of stongest conservation, the N-terminal half, of one such family, represented by TM1795 from Thermotoga maritima. This protein is the first of a set of six genes, mostly from the RAMP superfamily, that we designated the CRISPR-associated RAMP module.	8.65634e-11
NC_012658.1\|WP_012720949.1\|2377203_2379108_-\|type-III-B-CRISPR-associated-protein-Cas10/Cmr2	gnl\|CDD\|187810	cd09679, Cas10_III, CRISPR/Cas system-associated protein Cas10. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Multidomain protein with permuted HD nuclease domain, palm domain and Zn-ribbon; MTH326-like has inactivated polymerase catalytic domain; alr1562 and slr7011 - predicted only on the basis of size, presence of HD domain, and location with RAMPs in one operon; signature gene for type III; also known as Crm2 family.	2.25306e-31
NC_012658.1\|WP_012720905.1\|2370377_2371175_-\|MerR-family-transcriptional-regulator	gnl\|CDD\|133378	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators. Helix-turn-helix (HTH) MerR-like transcription regulator, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.	5.73877e-15
NC_012658.1\|WP_012721146.1\|2366415_2366937_+\|DUF4825-domain-containing-protein	gnl\|CDD\|379767	pfam16107, DUF4825, Domain of unknown function (DUF4825). This domain forms the N-terminal, extracellular domain of some homologs of Staph BlaR1 proteases, where it replaces the penicillin-binding domain of BlaR1. It is also found in many uncharacterized proteins in a broad range of bacteria. Its association with BlaR1 homologs suggests it may be involved in substrate-, possibly antibiotic-binding, but this prediction has not been verified experimentally.	2.28795e-25
NC_012658.1\|WP_003361945.1\|2376068_2377202_-\|type-III-B-CRISPR-module-associated-protein-Cmr3	gnl\|CDD\|187879	cd09748, Cmr3_III-B, CRISPR/Cas system-associated RAMP superfamily protein Cmr3. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein; This protein is a subunit of Cmr complex.	8.45426e-42
NC_012658.1\|WP_012721052.1\|2362960_2364367_+\|peptide-MFS-transporter	gnl\|CDD\|340904	cd17346, MFS_DtpA_like, Dipeptide and tripeptide permease A (DtpA)-like subfamily of the Major Facilitator Superfamily of transporters. The DtpA-like subfamily includes four Escherichia coli proteins: dipeptide and tripeptide permeases A (DtpA, TppB or YdgR), B (DtpB or YhiP), C (DtpC or YjdL), and D (DtpD or YbgH). They are proton-dependent permeases that transport di- and tripeptides. DtpA and DtpB display a preference for di- and tripeptides composed of L-amino acids. DtpC shows higher specificity for dipeptides compared to tripeptides, and prefers dipeptides containing a C-terminal lysine residue. The DtpA-like subfamily belongs to the Major Facilitator Superfamily (MFS) of membrane transport proteins, which are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	4.35095e-120
NC_012658.1\|WP_012720660.1\|2368283_2370281_-\|FAD-dependent-oxidoreductase	gnl\|CDD\|239241	cd02931, ER_like_FMN, Enoate reductase (ER)-like FMN-binding domain. Enoate reductase catalyzes the NADH-dependent reduction of carbon-carbon double bonds of several molecules, including nonactivated 2-enoates, alpha,beta-unsaturated aldehydes, cyclic ketones, and methylketones. ERs are similar to 2,4-dienoyl-CoA reductase from E. coli and to the old yellow enzyme from Saccharomyces cerevisiae.	0
NC_012658.1\|WP_003361923.1\|2359007_2359601_-\|glycerol-3-phosphate-acyltransferase	gnl\|CDD\|172889	PRK14413, PRK14413, glycerol-3-phosphate acyltransferase.	9.58967e-96
NC_012658.1\|WP_003361932.1\|2365217_2366108_-\|AraC-family-transcriptional-regulator	gnl\|CDD\|225117	COG2207, AraC, AraC-type DNA-binding domain-containing proteins [Transcription].	9.25706e-29
NC_012658.1\|WP_003361931.1\|2364470_2365211_-\|class-I-SAM-dependent-methyltransferase	gnl\|CDD\|379312	pfam13649, Methyltransf_25, Methyltransferase domain. This family appears to be a methyltransferase domain.	2.04663e-13
NC_012658.1\|WP_012720962.1\|2361338_2361953_-\|sugar-O-acetyltransferase	gnl\|CDD\|100047	cd03357, LbH_MAT_GAT, Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6 position of the nonreducing end glucosyl moiety. GAT specifically acetylates galactopyranosides. Furthermore, MAT shows higher affinity toward artificial substrates containing an alkyl or hydrophobic chain as well as a glucosyl unit. Active MAT and GAT are homotrimers, with each subunit consisting of an N-terminal alpha-helical region and a C-terminal left-handed parallel alpha-helix (LbH) subdomain with 6 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X).	1.14834e-99
NC_012658.1\|WP_033063258.1\|2362276_2362630_+\|aminopeptidase-P-family-N-terminal-domain-containing-protein	gnl\|CDD\|379790	pfam16189, Creatinase_N_2, Creatinase/Prolidase N-terminal domain.	9.44395e-11
NC_012658.1\|WP_003361929.1\|2362713_2362887_+\|hypothetical-protein	gnl\|CDD\|238518	cd01085, APP, X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline, even from a dipeptide or tripeptide.	2.13829e-09

>NC_012658.1|WP_012721146.1|2366415_2366937_+|DUF4825-domain-containing-protein
MKNKFRILVPLVLILSLNLIGCGVNYEKKSKENIKNSSKVETYDLIKYKGSYVGDNSSVGSIIKNLPANEYSAGFSLQTSKKPYEITVNYKANENLGEENYNKFWKDNKVEKLLEKNAAVLLSLIPNAEIIKFNVENIGKESYKYDRKNLDQKYGNLKNLFKDNDSLNKFLNN
>NC_012658.1|WP_003361932.1|2365217_2366108_-|AraC-family-transcriptional-regulator
MNYRKDIENCIDYIEEHIKEPLTLKEITQEIGYSSYHFCRVFSFLKGMPLMEYVRKRKLSLSTIDLLEGKKIIDVALKWGFETPSSFARAFRKEFGCSPSQYIKKMKSYYKSENNLILSKFMNDPYIVKKHGFKVAGYGIKTNVADSKYTKDVASFWSNYNGENLESKLYKILSPLKHGEVGLCIPCSDSGDVTYLLGVIVEDFSKVTSDMITVEVPKAQYAVFTTNPVNTVESKDQREFAKIIKESWKYIFDEWFKNDDYEYDEEKLDFEFYDERCHLRPDTVMDIYVPIKKFER
>NC_012658.1|WP_003361931.1|2364470_2365211_-|class-I-SAM-dependent-methyltransferase
MINYYGSLCTVMYELLHPHAPEDELQFYLQYAKKEMKILEPLCGSGRFLVPFLERGFNITGFDMSEEMLKELYKKAPKAKVFQSSIEEFSPKEKYDYIFITSGSFSLFLDRDIAFNVLEKMREALAPKGKFVFAAETTANIIPDREEYLKNCHVKTKEGYDIIFKSKSFYDKHKKILSTPSLYELYDGDKLLRKEEMDFRIKLYDFGELDKLILKAGFKGSYVFSDFKKSKPVDRNSETFLYECYI
>NC_012658.1|WP_012721052.1|2362960_2364367_+|peptide-MFS-transporter
MSEKKQKHPIGLWLVNISIALQSYAAYAVVSILILFLTADVSKNGLGLSVPKAAAIIGLYQGINYMGSLVGGYITDKWLGIQKSLILGCFLTACGYLALFFAKPNIGSVWLGLIILIVAGAFFKAQISSLVGELYGKNELSKKDAAYSIFYMFINIGAFFGPIIAGLISDKWFAKVAADGEIAAYGYKYIFLMCTLIMIFIGIFIWIVSPKWLGEVGKYPVSKDKKNSTESVSTKSTEKAKAQPLTQLEKNRIKAMIVMFVFVIIFWSAWDQTATSFSLLANKLVNRTIGGFTMPVPWLTSINAIFCVVLSPIIANIWLKLGNSKKGDLSVPTKMGLGMILTGIAFLTLILGISTLGGVLDGSKQMNILFIIVAYFLLTVGELCLSPIGMAMFNKLAPAKYGSLAMGAWYLSFFFSSIISGKLAGFTDTLGYTQIFGLISGIVIVFGVILILLRNGLLKLMSLDELDK
>NC_012658.1|WP_003361929.1|2362713_2362887_+|hypothetical-protein
MNIHEASTGFRWQYRPKEIHRFEEGIVITDEPEIYIAGSHGIRIENELIVCKGENNG
>NC_012658.1|WP_033063258.1|2362276_2362630_+|aminopeptidase-P-family-N-terminal-domain-containing-protein
MYLFINKNKLSDEIKSSLKKNAALFIHPYNKIYKEVKKFTNSDVVLVHTDRMNYALYNNIDKEVITEISSSNKLDAFPAEQGRFIRPSFEPISSFGEHATIVTCILLMENSFMIVTV
>NC_012658.1|WP_012720962.1|2361338_2361953_-|sugar-O-acetyltransferase
MNQKDRMLAGLPYKAWLDGLPEERMANKKKIYEYNHCLPDEHEKIHKLIRDILGKAGADVHIEAPFYCDYGKNIEVGDNFFANYNCIILDVGKVIIGNNVQFAPNVSLYTAGHPIHPDSRNSGYEYGIGITIGDNVWLGGNVVVNPGVHIGNNVVIGSGSVVTKDIPDNVIAIGNPCKVIREITEKDRKYYYKNYEFDVDDYKE
>NC_012658.1|WP_003361926.1|2360783_2361206_-|hypothetical-protein
MSYPTEIRKRVESLPQYKDVIQKKEKKHLTVKIIAVFMFAIILAVVAYFSGAKSFSKAYIHVFTLFSVVNIYDMIVLDIGLFCHSKKTRIPGTEDMDKEYRSPWYWNYNRRCSSIIIWRNGSFHINNIVFKQGTQISDLV
>NC_012658.1|WP_003361924.1|2360257_2360746_+|hypothetical-protein
MISKKILAFIAMTIMMISLLIGCSNNTMDKVYNDNSKIASVYDIFGLDKSDEIIESGIYKGKLKLSGSGTIWAYESSSDFDLKVPYILSVKSGKAKIVLISPDNTVVNLVENTDKATMKETTSLTLPIKKGNNRIKLVGYKKADIDIELHIEKGTFEKISFN
>NC_012658.1|WP_003361923.1|2359007_2359601_-|glycerol-3-phosphate-acyltransferase
MIIIITSVISFLLGSIPTGYFITKKTCGIDIRTKGSGNIGSTNVKRIVGTKISIITQIIDVLKGIIPVVLGIYLSKIVKLPVSTNTYLSTIAIAAILGHDYTPFLKFKGGKGVNTTLGVFIFIAPIPTLTGLAVYFILGLFTSIVSIRSIAIGITIPIMCIITKLPIQIIISTTIAGILMVFRHKDNLVRIMRKEEK
>NC_012658.1|WP_012720660.1|2368283_2370281_-|FAD-dependent-oxidoreductase
MKDKYKVLYDPIKIGKLEIKNRYVLAPMGPGGMCNADGSFNKRGIEFYVERAKGGTGLIMTGVTMVENNIEKCALPSMPCPTINPLNFITTGNEMTERVHAYGAKIFLQLSAGFGRVSIPSIVGKVAVAPSKIPHRFLPGVTCRELTTEEVKEYVKAFGDSAEIAKKAGFDGVEIHAVHEGYLLDQFAISFFNHRTDEYGGSLENRLRFACEVVQEIKKRCGQDFPVSLRYSIKSFIKDWCKGGLPDEEFEEKGRDIPEGIEAAKILVAAGYDALNGDVGSYDSWYWSHPPMYQKKGLYLPYNEILKKVVDVPIITAGRMEDPELSSDAILSGKTDMIALGRPLLADAEIPNKIFEDKYDKVRPCLSCQEGCMGRLQNFATVSCAVNPACGREKEYGLKKAEQIKKVLVVGGGVAGMEAARVAAIRGHKVTLIEKNGYLGGNIVPGGVPDFKDDDRALVKWYEGILKDLGVEIKLNVDASKENIKEFGADEVLLATGSSPRTLTIEGADKVYSAEDVLMERKNVGEKVIIIGGGLVGCETALWLKQQGKEVTIVEMQNDILQVGGPLCHANHDMLVDLIKFNKIDVKTSSYISKKTDEGFVLNTNGEESIINADSAVVAIGYLSEKDLYNQVRFDIPNARLIGDANKVQNIMYAIWSAYEVAKNI
>NC_012658.1|WP_012720905.1|2370377_2371175_-|MerR-family-transcriptional-regulator
MRYSITDLAEILGCTTSAIHYFEKEHLIEVEKGKNGHRYYNVVDVFRLLSYTKYRSMEIPMKTIIAQFGGEENNYKLIEGREAMYQLEALKRAQYYMNLADAIGEHLVSIRRIEELLNKYEFAKSPEVTIMCDDECGWLSKKRSSQRIIHEWVKAMPTVQLGVFDSRMGMSNFGYMVKTKKREELELPLGLHAKEIKSTSCIHTIVMADEDFTQQPQKVFKKASQFVIKKGLEIGEIAWGKILLVEVEKGAKLHPYIELWVSIKI
>NC_012658.1|WP_012720909.1|2371222_2371516_-|hypothetical-protein
MNFFTLNILIGAMAFIINKINNMSQDIDPFEAFNDIEENLEEIDNEKVTNFVNGLINASMSNPSIGYFFMFLVYMTPILNLLLLIKGIVNYFNRAAG
>NC_012658.1|WP_003361940.1|2372090_2373125_-|type-III-B-CRISPR-module-RAMP-protein-Cmr6
MGSKQDECNLIYSLQRNIVRESGSKKERRYLGKIETNNEKIKCIREIQRLKPYYHQSIVKEYIKSIKKYCRELNFLVNEMEGITSYRLVVGLGNPSVTETSMTLHNIYGIPYIPGQALKGITRSYFLQKYFDIEKKEFGIIKINAAEFKAKELYKIIFGDDYYGEANEKGSIIFFDAFPVSDEIIIEKDVMTPHYSNYYGKGWNPTDEFSTNPIPFYTVKNTKFNFLFALIKEEIRMNEEKIIYAEDLKNFVSKLIKEALEEHGVGAKTSVGYGYFNDVKVIEDKKTKKRLSPNDIQLQLNQINKILDKNKKHEAIMNFYANNDVSKLGKEQKSQLAKYMKECL
>NC_012658.1|WP_003361941.1|2373261_2373711_-|type-III-B-CRISPR-module-associated-protein-Cmr5
MYQTINIKDLKRKKASFAFNAIEYIQSSGDKKFKGYIRNIPMYIYTNGLIATIAFILKKMGTEYEREKGTDKQSYYEIGEILRDYFNKDFIEYDDKFKEKSLEDIMKELIKCDSKSYRRITLDILSILEWLVRFSDAMLEGEGESSEPI
>NC_012658.1|WP_003361942.1|2373727_2374606_-|type-III-B-CRISPR-module-RAMP-protein-Cmr4
MFKGVNKILIKAITPVHAGVGRDLGLIDMPIQKEKHTGIPKIEGSTMKGSMRESYRLKKYKEKNNEDIVRKEVDKLFGPEDGHESAGIIGFTDAKLLFYPVITLDGIFAYVTCSYLLNRYFEDKALINNTEFNKKFKDLLEGECEILNNKCENVKNKIILDEYCFQETDKSSKVYEGLDLREFNLNSEKQVVVISDNDFIEIISLCREIVTRNKINPETGVVDKDTGSLFTEEYLPAESILYALVLQNGIQDKENLYDTYIENDLPNYAQIGGNATIGKGIVKITKLTESNN
>NC_012658.1|WP_003361943.1|2374621_2376076_-|hypothetical-protein
MSRKVKFDSIAICSTLNQMVNYVVIKEHKLHSNNVYNIRLADENEKFNHEEWDDNLKEIIVRNYNWEDINYHNYEIKEHRNIIDKLIEKFGSDSSEFGSYPLKEEKILWNITGGQRHFVMAITEYVYNHRPEDVIVYFEGDKEKMYYYAKNKNIQQEDILRNKDYNMTIPIALRLMGFAVSKREFNKVSEYYNFLISNNANEFREKCKLQSISKINDKKPEDLYEQLESELKWYKKFYDIYCNSKTLRKLLINSNKFTTDSTGKTKFDMIKEDIKAYIKEIDNEIKSKTNTNVNVNDVFNGKGFDTLKKSIGNHLNGKVFGYILEHMTLYKVLDVIKSNKRLLENIADIDTSVKIKYETDKSKDKLGLIDEFDILIVTKKGKVVMLECKSGGMSSDNAKSHNYSIYAVAGVYGAPILVCPIKDGDVGKKETFDTKVIVSGKKACKENTDVYEHVRSAKYAADKAKLNIFYIDRIAEDIKKIIKR
>NC_012658.1|WP_003361945.1|2376068_2377202_-|type-III-B-CRISPR-module-associated-protein-Cmr3
MNFDNIMQIKPNDNLFLGSGKNFSKGENTWLGTRMIPYPSVFYGAICSTMLVQNEDRRKKYIYNKDLDSDPRKYLSLGNVYLYNEEDDEVYMSAPLDLYLDEYEECHYAIIKKIKNNINCSEERMSHLFFNEIEGESQRVDDMFIKYRNFYNSYYNTNESIGIIKNSDIVTNSYKVGIERDKNYVAREKHLYRIDLTEFKKEKWSYLVEYNIKDSWWNEEIKNIKDGYLKLGGENKVCRFYTYDKNKKLMIYNNLYNQINDTEYVKMIITSPCIFEGNDYIPKFKNTEVIAASTGKPYDIGGFDMVLNIPKPMSKAVPEGSVYVLKNKDFNNTSLKEIRKIIDDEVLIDKTYKKQGFGMFELVPLDESQFEGEEIYE
>NC_012658.1|WP_012720949.1|2377203_2379108_-|type-III-B-CRISPR-associated-protein-Cas10/Cmr2
MQQRIILFSIGSIQNFIINSRKVSDLFNSSKILSKLISNGMEFIKIRGNGELLLPQLLDKNEGLPNYFIMKYESNKHLGKELEEYIRRNYIDMLMNGSIKTSLEKYKNQIERQLDTSLDIYWVEYDLEESFDLNDSHKYAQVYYEIYKYFEAVKNVKKFNNIWEEGKKCSICGSRNAIVVSSNNKKDPFGIQKIYKYQDFTEDSLFKLIEILKNEDINLSLDEIKKVKKTACNNHLESKDIDIKLKDNEMLCSVCLLKRIYEGEKIPSLAQITLSSWIENEKKSLKCNAYNKYKETIDELNKIDCNFDVYEFMYKENWDKILKNIKIEDLEKKKKELNENFGNLNNINLPKYYCMYRMDIDNLGEWMSGKYKTSNKNLYEYQIDLSQRIYKFFNKLRENYFQENSKSILVYAGGDDLLALIPIDEIFKLEQNVRACFKEEVQVEEYKNITYSKGIFVAHYKTPLGEITRVSKEELEKVKEKFKEKANDFDKEKNATVISIMTEGYSNRNVYFKNNLNGEQTVEFIFEELVNYFNKDGSTYFHEQLQSEFWNLDRNIDKGYQRDILINMFEVEQKRLMKRSILKNSIAEEKIDEVNKKLINFLEVNSSKELKIDFENYFNLFHIIRSLKQNMEVK
>NC_012658.1|WP_003361947.1|2379092_2379998_-|type-III-B-CRISPR-module-RAMP-protein-Cmr1
MVEGNSKIYRLKNITDLCSNNGLNNGLKKPEFRLTEIKSLMRFWWRALNFYTNASTMKKEEENIFGNSDTYKSPIIFKTESNGFKYDDGSHEVRKNNKPINCFKSGKIVEIKLSVYKRKINQKEYINKELYFYDNLLKISLILGGIGKRSRRGCGVFMLEENDKECNLKNQIKSYMENLNVNKYYEFSKENDKYLELVRKDEYRNKKFKYPYIEEIIISKEAVSEEYFYIKIKESIDATRNEKFQYKDYKCEKLACPVYVTCYGDSNELYPIIVKLYNTNQHETYDNYYKKFKEVILCSKE

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Crispr_ID: NC_012658_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012658_2

2367505-2367990

TypeIII

III-B

Consensus_repeat	Method
ATTTAAATACATCTTATGTTAATGTTCAA	CRISPRCasFinder

7 spacers

cmr6gr7,cmr5gr11,cmr4gr7,csx1,cmr3gr5,cas10,cmr1gr7

The CRISPR arrays of NC_012658_2

>merge|NC_012658|2|2367505-2367990|CRISPRCasFinder
GCTTAAATACATCCTATGTTAATATTCAACTAGCATGACAGATATGGTAAAAAGCGAGTATTTAATATTTAAATACATCTCATGTTATTGTTCAACTTGGACTATTACAGATATAAATATAATAATGCAAGATTTAAATACATCTTATGTTAATGTTCAACGCCCATGAAGGGTTATTTGCTCTATGCTCTAATACATTTAAATACATCTTATGTTAATGTTCAATGATATTACGCCATCAAATACAGTGCCGATATCGTATTTAAATACATCTCATGTTAAGCTTCAACAAAAAGGCAGCTAAAGCTTTAAATATAAGTAATGGTAATTTAAATACATCCTATGTTATTGTTCAACCCCATTTTTCACAGAATTCGTCTTACGTGCCAATATTTAAATACATCCTATGTTATTGTTCAACATGGAAATATAAAACAATTAGAGAATGTGAATATTGATTTAAATACATCTCATGTTAATGTTCAA

>NC_012658|2|2|2367505-2367990|CRISPRCasFinder
GCTTAAATACATCCTATGTTAATATTCAA	CTAGCATGACAGATATGGTAAAAAGCGAGTATTTAAT
ATTTAAATACATCTCATGTTATTGTTCAA	CTTGGACTATTACAGATATAAATATAATAATGCAAG
ATTTAAATACATCTTATGTTAATGTTCAA	CGCCCATGAAGGGTTATTTGCTCTATGCTCTAATAC
ATTTAAATACATCTTATGTTAATGTTCAA	TGATATTACGCCATCAAATACAGTGCCGATATCGT
ATTTAAATACATCTCATGTTAAGCTTCAA	CAAAAAGGCAGCTAAAGCTTTAAATATAAGTAATGGTA
ATTTAAATACATCCTATGTTATTGTTCAA	CCCCATTTTTCACAGAATTCGTCTTACGTGCCAAT
ATTTAAATACATCCTATGTTATTGTTCAA	CATGGAAATATAAAACAATTAGAGAATGTGAATATTG
ATTTAAATACATCTCATGTTAATGTTCAA

Protein	Signature genes	Signature genes Name	Protein_function
NC_012658.1\|WP_012720909.1\|2371222_2371516_-\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_003361941.1\|2373261_2373711_-\|type-III-B-CRISPR-module-associated-protein-Cmr5	cmr5gr11	pfam09701_cmr5gr11_CAS-III-B	gnl\|CDD\|378242
NC_012658.1\|WP_003361942.1\|2373727_2374606_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	cmr4gr7	COG1336_cmr4gr7_CAS-III-C	gnl\|CDD\|224255
NC_012658.1\|WP_003361924.1\|2360257_2360746_+\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_003361926.1\|2360783_2361206_-\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_003361940.1\|2372090_2373125_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr6	cmr6gr7	cd09661_cmr6gr7_CAS-III-B	gnl\|CDD\|187792
NC_012658.1\|WP_003361947.1\|2379092_2379998_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	cmr1gr7	COG1367_cmr1gr7_CAS-III-B	gnl\|CDD\|273859
NC_012658.1\|WP_012720949.1\|2377203_2379108_-\|type-III-B-CRISPR-associated-protein-Cas10/Cmr2	cas10	cd09679_cas10_CAS-III	gnl\|CDD\|187810
NC_012658.1\|WP_012720905.1\|2370377_2371175_-\|MerR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|133378
NC_012658.1\|WP_012721146.1\|2366415_2366937_+\|DUF4825-domain-containing-protein	unknown	unknown	gnl\|CDD\|379767
NC_012658.1\|WP_003361945.1\|2376068_2377202_-\|type-III-B-CRISPR-module-associated-protein-Cmr3	cmr3gr5	pfam09700_cmr3gr5_CAS-III-B	gnl\|CDD\|187879
NC_012658.1\|WP_012721052.1\|2362960_2364367_+\|peptide-MFS-transporter	unknown	unknown	gnl\|CDD\|340904
NC_012658.1\|WP_012720660.1\|2368283_2370281_-\|FAD-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|239241
NC_012658.1\|WP_003361923.1\|2359007_2359601_-\|glycerol-3-phosphate-acyltransferase	unknown	unknown	gnl\|CDD\|172889
NC_012658.1\|WP_003361943.1\|2374621_2376076_-\|hypothetical-protein	csx1	mkCas0085_csx1_CAS-III	unknown
NC_012658.1\|WP_003361932.1\|2365217_2366108_-\|AraC-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|225117
NC_012658.1\|WP_003361931.1\|2364470_2365211_-\|class-I-SAM-dependent-methyltransferase	unknown	unknown	gnl\|CDD\|379312
NC_012658.1\|WP_012720962.1\|2361338_2361953_-\|sugar-O-acetyltransferase	unknown	unknown	gnl\|CDD\|100047
NC_012658.1\|WP_033063258.1\|2362276_2362630_+\|aminopeptidase-P-family-N-terminal-domain-containing-protein	unknown	unknown	gnl\|CDD\|379790
NC_012658.1\|WP_003361929.1\|2362713_2362887_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|238518

Protein	Function_ID	Function_description	E-value
NC_012658.1\|WP_003361941.1\|2373261_2373711_-\|type-III-B-CRISPR-module-associated-protein-Cmr5	gnl\|CDD\|378242	pfam09701, Cas_Cmr5, CRISPR-associated protein (Cas_Cmr5). CRISPR is a term for Clustered, Regularly Interspaced Short Palindromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family, represented by TM1791.1 of Thermotoga maritima, is found in both archaeal and bacterial species.	1.51792e-21
NC_012658.1\|WP_003361942.1\|2373727_2374606_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	gnl\|CDD\|224255	COG1336, COG1336, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	2.08006e-62
NC_012658.1\|WP_003361940.1\|2372090_2373125_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr6	gnl\|CDD\|187792	cd09661, Cmr6_III-B, CRISPR/Cas system-associated RAMP superfamily protein Cmr6. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein; This protein is a subunit of Cmr complex.	5.27946e-51
NC_012658.1\|WP_003361947.1\|2379092_2379998_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	gnl\|CDD\|273859	TIGR01894, hypothetical_protein, CRISPR type III-B/RAMP module RAMP protein Cmr1. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model represents the region of stongest conservation, the N-terminal half, of one such family, represented by TM1795 from Thermotoga maritima. This protein is the first of a set of six genes, mostly from the RAMP superfamily, that we designated the CRISPR-associated RAMP module.	8.65634e-11
NC_012658.1\|WP_012720949.1\|2377203_2379108_-\|type-III-B-CRISPR-associated-protein-Cas10/Cmr2	gnl\|CDD\|187810	cd09679, Cas10_III, CRISPR/Cas system-associated protein Cas10. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Multidomain protein with permuted HD nuclease domain, palm domain and Zn-ribbon; MTH326-like has inactivated polymerase catalytic domain; alr1562 and slr7011 - predicted only on the basis of size, presence of HD domain, and location with RAMPs in one operon; signature gene for type III; also known as Crm2 family.	2.25306e-31
NC_012658.1\|WP_012720905.1\|2370377_2371175_-\|MerR-family-transcriptional-regulator	gnl\|CDD\|133378	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators. Helix-turn-helix (HTH) MerR-like transcription regulator, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.	5.73877e-15
NC_012658.1\|WP_012721146.1\|2366415_2366937_+\|DUF4825-domain-containing-protein	gnl\|CDD\|379767	pfam16107, DUF4825, Domain of unknown function (DUF4825). This domain forms the N-terminal, extracellular domain of some homologs of Staph BlaR1 proteases, where it replaces the penicillin-binding domain of BlaR1. It is also found in many uncharacterized proteins in a broad range of bacteria. Its association with BlaR1 homologs suggests it may be involved in substrate-, possibly antibiotic-binding, but this prediction has not been verified experimentally.	2.28795e-25
NC_012658.1\|WP_003361945.1\|2376068_2377202_-\|type-III-B-CRISPR-module-associated-protein-Cmr3	gnl\|CDD\|187879	cd09748, Cmr3_III-B, CRISPR/Cas system-associated RAMP superfamily protein Cmr3. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein; This protein is a subunit of Cmr complex.	8.45426e-42
NC_012658.1\|WP_012721052.1\|2362960_2364367_+\|peptide-MFS-transporter	gnl\|CDD\|340904	cd17346, MFS_DtpA_like, Dipeptide and tripeptide permease A (DtpA)-like subfamily of the Major Facilitator Superfamily of transporters. The DtpA-like subfamily includes four Escherichia coli proteins: dipeptide and tripeptide permeases A (DtpA, TppB or YdgR), B (DtpB or YhiP), C (DtpC or YjdL), and D (DtpD or YbgH). They are proton-dependent permeases that transport di- and tripeptides. DtpA and DtpB display a preference for di- and tripeptides composed of L-amino acids. DtpC shows higher specificity for dipeptides compared to tripeptides, and prefers dipeptides containing a C-terminal lysine residue. The DtpA-like subfamily belongs to the Major Facilitator Superfamily (MFS) of membrane transport proteins, which are thought to function through a single substrate binding site, alternating-access mechanism involving a rocker-switch type of movement.	4.35095e-120
NC_012658.1\|WP_012720660.1\|2368283_2370281_-\|FAD-dependent-oxidoreductase	gnl\|CDD\|239241	cd02931, ER_like_FMN, Enoate reductase (ER)-like FMN-binding domain. Enoate reductase catalyzes the NADH-dependent reduction of carbon-carbon double bonds of several molecules, including nonactivated 2-enoates, alpha,beta-unsaturated aldehydes, cyclic ketones, and methylketones. ERs are similar to 2,4-dienoyl-CoA reductase from E. coli and to the old yellow enzyme from Saccharomyces cerevisiae.	0
NC_012658.1\|WP_003361923.1\|2359007_2359601_-\|glycerol-3-phosphate-acyltransferase	gnl\|CDD\|172889	PRK14413, PRK14413, glycerol-3-phosphate acyltransferase.	9.58967e-96
NC_012658.1\|WP_003361932.1\|2365217_2366108_-\|AraC-family-transcriptional-regulator	gnl\|CDD\|225117	COG2207, AraC, AraC-type DNA-binding domain-containing proteins [Transcription].	9.25706e-29
NC_012658.1\|WP_003361931.1\|2364470_2365211_-\|class-I-SAM-dependent-methyltransferase	gnl\|CDD\|379312	pfam13649, Methyltransf_25, Methyltransferase domain. This family appears to be a methyltransferase domain.	2.04663e-13
NC_012658.1\|WP_012720962.1\|2361338_2361953_-\|sugar-O-acetyltransferase	gnl\|CDD\|100047	cd03357, LbH_MAT_GAT, Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6 position of the nonreducing end glucosyl moiety. GAT specifically acetylates galactopyranosides. Furthermore, MAT shows higher affinity toward artificial substrates containing an alkyl or hydrophobic chain as well as a glucosyl unit. Active MAT and GAT are homotrimers, with each subunit consisting of an N-terminal alpha-helical region and a C-terminal left-handed parallel alpha-helix (LbH) subdomain with 6 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X).	1.14834e-99
NC_012658.1\|WP_033063258.1\|2362276_2362630_+\|aminopeptidase-P-family-N-terminal-domain-containing-protein	gnl\|CDD\|379790	pfam16189, Creatinase_N_2, Creatinase/Prolidase N-terminal domain.	9.44395e-11
NC_012658.1\|WP_003361929.1\|2362713_2362887_+\|hypothetical-protein	gnl\|CDD\|238518	cd01085, APP, X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline, even from a dipeptide or tripeptide.	2.13829e-09

>NC_012658.1|WP_012721146.1|2366415_2366937_+|DUF4825-domain-containing-protein
MKNKFRILVPLVLILSLNLIGCGVNYEKKSKENIKNSSKVETYDLIKYKGSYVGDNSSVGSIIKNLPANEYSAGFSLQTSKKPYEITVNYKANENLGEENYNKFWKDNKVEKLLEKNAAVLLSLIPNAEIIKFNVENIGKESYKYDRKNLDQKYGNLKNLFKDNDSLNKFLNN
>NC_012658.1|WP_003361932.1|2365217_2366108_-|AraC-family-transcriptional-regulator
MNYRKDIENCIDYIEEHIKEPLTLKEITQEIGYSSYHFCRVFSFLKGMPLMEYVRKRKLSLSTIDLLEGKKIIDVALKWGFETPSSFARAFRKEFGCSPSQYIKKMKSYYKSENNLILSKFMNDPYIVKKHGFKVAGYGIKTNVADSKYTKDVASFWSNYNGENLESKLYKILSPLKHGEVGLCIPCSDSGDVTYLLGVIVEDFSKVTSDMITVEVPKAQYAVFTTNPVNTVESKDQREFAKIIKESWKYIFDEWFKNDDYEYDEEKLDFEFYDERCHLRPDTVMDIYVPIKKFER
>NC_012658.1|WP_003361931.1|2364470_2365211_-|class-I-SAM-dependent-methyltransferase
MINYYGSLCTVMYELLHPHAPEDELQFYLQYAKKEMKILEPLCGSGRFLVPFLERGFNITGFDMSEEMLKELYKKAPKAKVFQSSIEEFSPKEKYDYIFITSGSFSLFLDRDIAFNVLEKMREALAPKGKFVFAAETTANIIPDREEYLKNCHVKTKEGYDIIFKSKSFYDKHKKILSTPSLYELYDGDKLLRKEEMDFRIKLYDFGELDKLILKAGFKGSYVFSDFKKSKPVDRNSETFLYECYI
>NC_012658.1|WP_012721052.1|2362960_2364367_+|peptide-MFS-transporter
MSEKKQKHPIGLWLVNISIALQSYAAYAVVSILILFLTADVSKNGLGLSVPKAAAIIGLYQGINYMGSLVGGYITDKWLGIQKSLILGCFLTACGYLALFFAKPNIGSVWLGLIILIVAGAFFKAQISSLVGELYGKNELSKKDAAYSIFYMFINIGAFFGPIIAGLISDKWFAKVAADGEIAAYGYKYIFLMCTLIMIFIGIFIWIVSPKWLGEVGKYPVSKDKKNSTESVSTKSTEKAKAQPLTQLEKNRIKAMIVMFVFVIIFWSAWDQTATSFSLLANKLVNRTIGGFTMPVPWLTSINAIFCVVLSPIIANIWLKLGNSKKGDLSVPTKMGLGMILTGIAFLTLILGISTLGGVLDGSKQMNILFIIVAYFLLTVGELCLSPIGMAMFNKLAPAKYGSLAMGAWYLSFFFSSIISGKLAGFTDTLGYTQIFGLISGIVIVFGVILILLRNGLLKLMSLDELDK
>NC_012658.1|WP_003361929.1|2362713_2362887_+|hypothetical-protein
MNIHEASTGFRWQYRPKEIHRFEEGIVITDEPEIYIAGSHGIRIENELIVCKGENNG
>NC_012658.1|WP_033063258.1|2362276_2362630_+|aminopeptidase-P-family-N-terminal-domain-containing-protein
MYLFINKNKLSDEIKSSLKKNAALFIHPYNKIYKEVKKFTNSDVVLVHTDRMNYALYNNIDKEVITEISSSNKLDAFPAEQGRFIRPSFEPISSFGEHATIVTCILLMENSFMIVTV
>NC_012658.1|WP_012720962.1|2361338_2361953_-|sugar-O-acetyltransferase
MNQKDRMLAGLPYKAWLDGLPEERMANKKKIYEYNHCLPDEHEKIHKLIRDILGKAGADVHIEAPFYCDYGKNIEVGDNFFANYNCIILDVGKVIIGNNVQFAPNVSLYTAGHPIHPDSRNSGYEYGIGITIGDNVWLGGNVVVNPGVHIGNNVVIGSGSVVTKDIPDNVIAIGNPCKVIREITEKDRKYYYKNYEFDVDDYKE
>NC_012658.1|WP_003361926.1|2360783_2361206_-|hypothetical-protein
MSYPTEIRKRVESLPQYKDVIQKKEKKHLTVKIIAVFMFAIILAVVAYFSGAKSFSKAYIHVFTLFSVVNIYDMIVLDIGLFCHSKKTRIPGTEDMDKEYRSPWYWNYNRRCSSIIIWRNGSFHINNIVFKQGTQISDLV
>NC_012658.1|WP_003361924.1|2360257_2360746_+|hypothetical-protein
MISKKILAFIAMTIMMISLLIGCSNNTMDKVYNDNSKIASVYDIFGLDKSDEIIESGIYKGKLKLSGSGTIWAYESSSDFDLKVPYILSVKSGKAKIVLISPDNTVVNLVENTDKATMKETTSLTLPIKKGNNRIKLVGYKKADIDIELHIEKGTFEKISFN
>NC_012658.1|WP_003361923.1|2359007_2359601_-|glycerol-3-phosphate-acyltransferase
MIIIITSVISFLLGSIPTGYFITKKTCGIDIRTKGSGNIGSTNVKRIVGTKISIITQIIDVLKGIIPVVLGIYLSKIVKLPVSTNTYLSTIAIAAILGHDYTPFLKFKGGKGVNTTLGVFIFIAPIPTLTGLAVYFILGLFTSIVSIRSIAIGITIPIMCIITKLPIQIIISTTIAGILMVFRHKDNLVRIMRKEEK
>NC_012658.1|WP_012720660.1|2368283_2370281_-|FAD-dependent-oxidoreductase
MKDKYKVLYDPIKIGKLEIKNRYVLAPMGPGGMCNADGSFNKRGIEFYVERAKGGTGLIMTGVTMVENNIEKCALPSMPCPTINPLNFITTGNEMTERVHAYGAKIFLQLSAGFGRVSIPSIVGKVAVAPSKIPHRFLPGVTCRELTTEEVKEYVKAFGDSAEIAKKAGFDGVEIHAVHEGYLLDQFAISFFNHRTDEYGGSLENRLRFACEVVQEIKKRCGQDFPVSLRYSIKSFIKDWCKGGLPDEEFEEKGRDIPEGIEAAKILVAAGYDALNGDVGSYDSWYWSHPPMYQKKGLYLPYNEILKKVVDVPIITAGRMEDPELSSDAILSGKTDMIALGRPLLADAEIPNKIFEDKYDKVRPCLSCQEGCMGRLQNFATVSCAVNPACGREKEYGLKKAEQIKKVLVVGGGVAGMEAARVAAIRGHKVTLIEKNGYLGGNIVPGGVPDFKDDDRALVKWYEGILKDLGVEIKLNVDASKENIKEFGADEVLLATGSSPRTLTIEGADKVYSAEDVLMERKNVGEKVIIIGGGLVGCETALWLKQQGKEVTIVEMQNDILQVGGPLCHANHDMLVDLIKFNKIDVKTSSYISKKTDEGFVLNTNGEESIINADSAVVAIGYLSEKDLYNQVRFDIPNARLIGDANKVQNIMYAIWSAYEVAKNI
>NC_012658.1|WP_012720905.1|2370377_2371175_-|MerR-family-transcriptional-regulator
MRYSITDLAEILGCTTSAIHYFEKEHLIEVEKGKNGHRYYNVVDVFRLLSYTKYRSMEIPMKTIIAQFGGEENNYKLIEGREAMYQLEALKRAQYYMNLADAIGEHLVSIRRIEELLNKYEFAKSPEVTIMCDDECGWLSKKRSSQRIIHEWVKAMPTVQLGVFDSRMGMSNFGYMVKTKKREELELPLGLHAKEIKSTSCIHTIVMADEDFTQQPQKVFKKASQFVIKKGLEIGEIAWGKILLVEVEKGAKLHPYIELWVSIKI
>NC_012658.1|WP_012720909.1|2371222_2371516_-|hypothetical-protein
MNFFTLNILIGAMAFIINKINNMSQDIDPFEAFNDIEENLEEIDNEKVTNFVNGLINASMSNPSIGYFFMFLVYMTPILNLLLLIKGIVNYFNRAAG
>NC_012658.1|WP_003361940.1|2372090_2373125_-|type-III-B-CRISPR-module-RAMP-protein-Cmr6
MGSKQDECNLIYSLQRNIVRESGSKKERRYLGKIETNNEKIKCIREIQRLKPYYHQSIVKEYIKSIKKYCRELNFLVNEMEGITSYRLVVGLGNPSVTETSMTLHNIYGIPYIPGQALKGITRSYFLQKYFDIEKKEFGIIKINAAEFKAKELYKIIFGDDYYGEANEKGSIIFFDAFPVSDEIIIEKDVMTPHYSNYYGKGWNPTDEFSTNPIPFYTVKNTKFNFLFALIKEEIRMNEEKIIYAEDLKNFVSKLIKEALEEHGVGAKTSVGYGYFNDVKVIEDKKTKKRLSPNDIQLQLNQINKILDKNKKHEAIMNFYANNDVSKLGKEQKSQLAKYMKECL
>NC_012658.1|WP_003361941.1|2373261_2373711_-|type-III-B-CRISPR-module-associated-protein-Cmr5
MYQTINIKDLKRKKASFAFNAIEYIQSSGDKKFKGYIRNIPMYIYTNGLIATIAFILKKMGTEYEREKGTDKQSYYEIGEILRDYFNKDFIEYDDKFKEKSLEDIMKELIKCDSKSYRRITLDILSILEWLVRFSDAMLEGEGESSEPI
>NC_012658.1|WP_003361942.1|2373727_2374606_-|type-III-B-CRISPR-module-RAMP-protein-Cmr4
MFKGVNKILIKAITPVHAGVGRDLGLIDMPIQKEKHTGIPKIEGSTMKGSMRESYRLKKYKEKNNEDIVRKEVDKLFGPEDGHESAGIIGFTDAKLLFYPVITLDGIFAYVTCSYLLNRYFEDKALINNTEFNKKFKDLLEGECEILNNKCENVKNKIILDEYCFQETDKSSKVYEGLDLREFNLNSEKQVVVISDNDFIEIISLCREIVTRNKINPETGVVDKDTGSLFTEEYLPAESILYALVLQNGIQDKENLYDTYIENDLPNYAQIGGNATIGKGIVKITKLTESNN
>NC_012658.1|WP_003361943.1|2374621_2376076_-|hypothetical-protein
MSRKVKFDSIAICSTLNQMVNYVVIKEHKLHSNNVYNIRLADENEKFNHEEWDDNLKEIIVRNYNWEDINYHNYEIKEHRNIIDKLIEKFGSDSSEFGSYPLKEEKILWNITGGQRHFVMAITEYVYNHRPEDVIVYFEGDKEKMYYYAKNKNIQQEDILRNKDYNMTIPIALRLMGFAVSKREFNKVSEYYNFLISNNANEFREKCKLQSISKINDKKPEDLYEQLESELKWYKKFYDIYCNSKTLRKLLINSNKFTTDSTGKTKFDMIKEDIKAYIKEIDNEIKSKTNTNVNVNDVFNGKGFDTLKKSIGNHLNGKVFGYILEHMTLYKVLDVIKSNKRLLENIADIDTSVKIKYETDKSKDKLGLIDEFDILIVTKKGKVVMLECKSGGMSSDNAKSHNYSIYAVAGVYGAPILVCPIKDGDVGKKETFDTKVIVSGKKACKENTDVYEHVRSAKYAADKAKLNIFYIDRIAEDIKKIIKR
>NC_012658.1|WP_003361945.1|2376068_2377202_-|type-III-B-CRISPR-module-associated-protein-Cmr3
MNFDNIMQIKPNDNLFLGSGKNFSKGENTWLGTRMIPYPSVFYGAICSTMLVQNEDRRKKYIYNKDLDSDPRKYLSLGNVYLYNEEDDEVYMSAPLDLYLDEYEECHYAIIKKIKNNINCSEERMSHLFFNEIEGESQRVDDMFIKYRNFYNSYYNTNESIGIIKNSDIVTNSYKVGIERDKNYVAREKHLYRIDLTEFKKEKWSYLVEYNIKDSWWNEEIKNIKDGYLKLGGENKVCRFYTYDKNKKLMIYNNLYNQINDTEYVKMIITSPCIFEGNDYIPKFKNTEVIAASTGKPYDIGGFDMVLNIPKPMSKAVPEGSVYVLKNKDFNNTSLKEIRKIIDDEVLIDKTYKKQGFGMFELVPLDESQFEGEEIYE
>NC_012658.1|WP_012720949.1|2377203_2379108_-|type-III-B-CRISPR-associated-protein-Cas10/Cmr2
MQQRIILFSIGSIQNFIINSRKVSDLFNSSKILSKLISNGMEFIKIRGNGELLLPQLLDKNEGLPNYFIMKYESNKHLGKELEEYIRRNYIDMLMNGSIKTSLEKYKNQIERQLDTSLDIYWVEYDLEESFDLNDSHKYAQVYYEIYKYFEAVKNVKKFNNIWEEGKKCSICGSRNAIVVSSNNKKDPFGIQKIYKYQDFTEDSLFKLIEILKNEDINLSLDEIKKVKKTACNNHLESKDIDIKLKDNEMLCSVCLLKRIYEGEKIPSLAQITLSSWIENEKKSLKCNAYNKYKETIDELNKIDCNFDVYEFMYKENWDKILKNIKIEDLEKKKKELNENFGNLNNINLPKYYCMYRMDIDNLGEWMSGKYKTSNKNLYEYQIDLSQRIYKFFNKLRENYFQENSKSILVYAGGDDLLALIPIDEIFKLEQNVRACFKEEVQVEEYKNITYSKGIFVAHYKTPLGEITRVSKEELEKVKEKFKEKANDFDKEKNATVISIMTEGYSNRNVYFKNNLNGEQTVEFIFEELVNYFNKDGSTYFHEQLQSEFWNLDRNIDKGYQRDILINMFEVEQKRLMKRSILKNSIAEEKIDEVNKKLINFLEVNSSKELKIDFENYFNLFHIIRSLKQNMEVK
>NC_012658.1|WP_003361947.1|2379092_2379998_-|type-III-B-CRISPR-module-RAMP-protein-Cmr1
MVEGNSKIYRLKNITDLCSNNGLNNGLKKPEFRLTEIKSLMRFWWRALNFYTNASTMKKEEENIFGNSDTYKSPIIFKTESNGFKYDDGSHEVRKNNKPINCFKSGKIVEIKLSVYKRKINQKEYINKELYFYDNLLKISLILGGIGKRSRRGCGVFMLEENDKECNLKNQIKSYMENLNVNKYYEFSKENDKYLELVRKDEYRNKKFKYPYIEEIIISKEAVSEEYFYIKIKESIDATRNEKFQYKDYKCEKLACPVYVTCYGDSNELYPIIVKLYNTNQHETYDNYYKKFKEVILCSKE

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Crispr_ID: NC_012658_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012658_3

2380986-2381080

TypeIII

III-B

Consensus_repeat	Method
ATTTAAATACATCTTATGTTAATGTTCAAC	CRISPRCasFinder

1 spacers

cas6,cmr1gr7,cas10,cmr3gr5,csx1,cmr4gr7,cmr5gr11,cmr6gr7

The CRISPR arrays of NC_012658_3

>merge|NC_012658|3|2380986-2381080|CRISPRCasFinder
ATTTAAATACATCTTATGTTAATGTTCAACAAAGAAAAACAACTATTTAAAACAATACAAAATGAATTTAAATACATCTCATGTTAATGTTCAAC

>NC_012658|3|3|2380986-2381080|CRISPRCasFinder
ATTTAAATACATCTTATGTTAATGTTCAAC	AAAGAAAAACAACTATTTAAAACAATACAAAATGA
ATTTAAATACATCTCATGTTAATGTTCAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_012658.1\|WP_012720909.1\|2371222_2371516_-\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_003361941.1\|2373261_2373711_-\|type-III-B-CRISPR-module-associated-protein-Cmr5	cmr5gr11	pfam09701_cmr5gr11_CAS-III-B	gnl\|CDD\|378242
NC_012658.1\|WP_012720921.1\|2390571_2391603_-\|alpha/beta-hydrolase	unknown	unknown	gnl\|CDD\|369561
NC_012658.1\|WP_003361942.1\|2373727_2374606_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	cmr4gr7	COG1336_cmr4gr7_CAS-III-C	gnl\|CDD\|224255
NC_012658.1\|WP_003361949.1\|2381451_2381901_-\|Lrp/AsnC-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224439
NC_012658.1\|WP_012720846.1\|2389423_2389876_+\|staygreen-family-protein	unknown	unknown	gnl\|CDD\|378897
NC_012658.1\|WP_003361940.1\|2372090_2373125_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr6	cmr6gr7	cd09661_cmr6gr7_CAS-III-B	gnl\|CDD\|187792
NC_012658.1\|WP_003361947.1\|2379092_2379998_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	cmr1gr7	COG1367_cmr1gr7_CAS-III-B	gnl\|CDD\|273859
NC_012658.1\|WP_012721288.1\|2387309_2388773_+\|lipase	unknown	unknown	gnl\|CDD\|335313
NC_012658.1\|WP_012720905.1\|2370377_2371175_-\|MerR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|133378
NC_012658.1\|WP_003361945.1\|2376068_2377202_-\|type-III-B-CRISPR-module-associated-protein-Cmr3	cmr3gr5	pfam09700_cmr3gr5_CAS-III-B	gnl\|CDD\|187879
NC_012658.1\|WP_003361952.1\|2384011_2385505_+\|PLP-dependent-aminotransferase-family-protein	unknown	unknown	gnl\|CDD\|224089
NC_012658.1\|WP_079994795.1\|2388806_2389190_+\|MerR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|133398
NC_012658.1\|WP_039774258.1\|2391828_2393220_-\|amidohydrolase	unknown	unknown	gnl\|CDD\|238623
NC_012658.1\|WP_003361943.1\|2374621_2376076_-\|hypothetical-protein	csx1	mkCas0085_csx1_CAS-III	unknown
NC_012658.1\|WP_012720949.1\|2377203_2379108_-\|type-III-B-CRISPR-associated-protein-Cas10/Cmr2	cas10	cd09679_cas10_CAS-III	gnl\|CDD\|187810
NC_012658.1\|WP_012721174.1\|2389957_2390404_-\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|238045
NC_012658.1\|WP_003361950.1\|2382039_2382456_+\|carboxymuconolactone-decarboxylase-family-protein	unknown	unknown	gnl\|CDD\|225039
NC_012658.1\|WP_003361948.1\|2380059_2380749_-\|CRISPR-associated-endoribonuclease-Cas6	cas6	cd09652_cas6_CAS-I:CAS-III	gnl\|CDD\|273848
NC_012658.1\|WP_003361951.1\|2382767_2383688_-\|PhzF-family-phenazine-biosynthesis-protein	unknown	unknown	gnl\|CDD\|223461

Protein	Function_ID	Function_description	E-value
NC_012658.1\|WP_003361941.1\|2373261_2373711_-\|type-III-B-CRISPR-module-associated-protein-Cmr5	gnl\|CDD\|378242	pfam09701, Cas_Cmr5, CRISPR-associated protein (Cas_Cmr5). CRISPR is a term for Clustered, Regularly Interspaced Short Palindromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family, represented by TM1791.1 of Thermotoga maritima, is found in both archaeal and bacterial species.	1.51792e-21
NC_012658.1\|WP_039774258.1\|2391828_2393220_-\|amidohydrolase	gnl\|CDD\|238623	cd01298, ATZ_TRZ_like, TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are catalyzed by atrazine chlorohydrolase (AtzA), hydroxyatrazine ethylaminohydrolase (AtzB), and N-isopropylammelide N-isopropylaminohydrolase (AtzC). All three enzymes belong to the superfamily of metal dependent hydrolases. AtzA and AtzB, beside other related enzymes are represented in this CD.	0
NC_012658.1\|WP_003361942.1\|2373727_2374606_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	gnl\|CDD\|224255	COG1336, COG1336, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	2.08006e-62
NC_012658.1\|WP_003361949.1\|2381451_2381901_-\|Lrp/AsnC-family-transcriptional-regulator	gnl\|CDD\|224439	COG1522, Lrp, Transcriptional regulators [Transcription].	5.40648e-37
NC_012658.1\|WP_012720846.1\|2389423_2389876_+\|staygreen-family-protein	gnl\|CDD\|378897	pfam12638, Staygreen, Staygreen protein. This family of proteins have been implicated in chlorophyll degradation. Intriguingly members of this family are also found in non-photosynthetic bacteria.	2.63863e-82
NC_012658.1\|WP_003361940.1\|2372090_2373125_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr6	gnl\|CDD\|187792	cd09661, Cmr6_III-B, CRISPR/Cas system-associated RAMP superfamily protein Cmr6. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein; This protein is a subunit of Cmr complex.	5.27946e-51
NC_012658.1\|WP_003361947.1\|2379092_2379998_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	gnl\|CDD\|273859	TIGR01894, hypothetical_protein, CRISPR type III-B/RAMP module RAMP protein Cmr1. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model represents the region of stongest conservation, the N-terminal half, of one such family, represented by TM1795 from Thermotoga maritima. This protein is the first of a set of six genes, mostly from the RAMP superfamily, that we designated the CRISPR-associated RAMP module.	8.65634e-11
NC_012658.1\|WP_012720921.1\|2390571_2391603_-\|alpha/beta-hydrolase	gnl\|CDD\|369561	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.	2.64395e-90
NC_012658.1\|WP_012720905.1\|2370377_2371175_-\|MerR-family-transcriptional-regulator	gnl\|CDD\|133378	cd00592, HTH_MerR-like, Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators. Helix-turn-helix (HTH) MerR-like transcription regulator, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.	5.73877e-15
NC_012658.1\|WP_003361945.1\|2376068_2377202_-\|type-III-B-CRISPR-module-associated-protein-Cmr3	gnl\|CDD\|187879	cd09748, Cmr3_III-B, CRISPR/Cas system-associated RAMP superfamily protein Cmr3. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein; This protein is a subunit of Cmr complex.	8.45426e-42
NC_012658.1\|WP_003361952.1\|2384011_2385505_+\|PLP-dependent-aminotransferase-family-protein	gnl\|CDD\|224089	COG1167, ARO8, Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism].	3.39048e-120
NC_012658.1\|WP_079994795.1\|2388806_2389190_+\|MerR-family-transcriptional-regulator	gnl\|CDD\|133398	cd04770, HTH_HMRTR, Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.	2.7281e-33
NC_012658.1\|WP_003361950.1\|2382039_2382456_+\|carboxymuconolactone-decarboxylase-family-protein	gnl\|CDD\|225039	COG2128, COG2128, Uncharacterized conserved protein [Function unknown].	2.24554e-13
NC_012658.1\|WP_012720949.1\|2377203_2379108_-\|type-III-B-CRISPR-associated-protein-Cas10/Cmr2	gnl\|CDD\|187810	cd09679, Cas10_III, CRISPR/Cas system-associated protein Cas10. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Multidomain protein with permuted HD nuclease domain, palm domain and Zn-ribbon; MTH326-like has inactivated polymerase catalytic domain; alr1562 and slr7011 - predicted only on the basis of size, presence of HD domain, and location with RAMPs in one operon; signature gene for type III; also known as Crm2 family.	2.25306e-31
NC_012658.1\|WP_012721174.1\|2389957_2390404_-\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|238045	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.	2.10952e-15
NC_012658.1\|WP_012721288.1\|2387309_2388773_+\|lipase	gnl\|CDD\|335313	pfam03403, PAF-AH_p_II, Platelet-activating factor acetylhydrolase, isoform II. Platelet-activating factor acetylhydrolase (PAF-AH) is a subfamily of phospholipases A2, responsible for inactivation of platelet-activating factor through cleavage of an acetyl group. Three known PAF-AHs are the brain heterotrimeric PAF-AH Ib, whose catalytic beta and gamma subunits are aligned in pfam02266, the extracellular, plasma PAF-AH (pPAF-AH), and the intracellular PAF-AH isoform II (PAF-AH II). This family aligns pPAF-AH and PAF-AH II, whose similarity was previously noted.	1.11516e-17
NC_012658.1\|WP_003361948.1\|2380059_2380749_-\|CRISPR-associated-endoribonuclease-Cas6	gnl\|CDD\|273848	TIGR01877, CRISPR-associated_endoribonuclease_Cas6_1, CRISPR-associated endoribonuclease Cas6. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This broadly distributed, highly divergent Cas family is now characterized as an endoribonuclease that generates guide RNAs for host defense against phage and other invaders. The family contains a C-terminal motif GXGXXXXXGXG, where the each X between two Gly is hydrophobic and the spacer XXXXX contains (usually) one Arg or Lys. The seed alignment for the current version of this model has gappy columns removed. Members of this protein family are found associated with several different CRISPR/cas system subtypes, and consequently we designate this family Cas6.	5.07531e-21
NC_012658.1\|WP_003361951.1\|2382767_2383688_-\|PhzF-family-phenazine-biosynthesis-protein	gnl\|CDD\|223461	COG0384, COG0384, Predicted epimerase, PhzC/PhzF homolog [General function prediction only].	1.08111e-89

>NC_012658.1|WP_003361948.1|2380059_2380749_-|CRISPR-associated-endoribonuclease-Cas6
MELWELIATVMLKKDIYFEDCGYIIGKNINKSMLLDKDLKEVHPKKQYKNYVFNSFYPIERDKFYKKDRLYIFNIRGLSKEFIDKIETCLCNLESNDFNVISTSKKEIKQRYIKELYTQTPLIITVDDKPWLQKDGDLDLFKQRLEDNLEKKYKSFFNEDIDVKDKFINSIEFKNRKPMHYNYKNGIKLLANKVSIQIEDNEEAQKVAFLARAVGLGEKNSAIGAGFCK
>NC_012658.1|WP_003361947.1|2379092_2379998_-|type-III-B-CRISPR-module-RAMP-protein-Cmr1
MVEGNSKIYRLKNITDLCSNNGLNNGLKKPEFRLTEIKSLMRFWWRALNFYTNASTMKKEEENIFGNSDTYKSPIIFKTESNGFKYDDGSHEVRKNNKPINCFKSGKIVEIKLSVYKRKINQKEYINKELYFYDNLLKISLILGGIGKRSRRGCGVFMLEENDKECNLKNQIKSYMENLNVNKYYEFSKENDKYLELVRKDEYRNKKFKYPYIEEIIISKEAVSEEYFYIKIKESIDATRNEKFQYKDYKCEKLACPVYVTCYGDSNELYPIIVKLYNTNQHETYDNYYKKFKEVILCSKE
>NC_012658.1|WP_012720949.1|2377203_2379108_-|type-III-B-CRISPR-associated-protein-Cas10/Cmr2
MQQRIILFSIGSIQNFIINSRKVSDLFNSSKILSKLISNGMEFIKIRGNGELLLPQLLDKNEGLPNYFIMKYESNKHLGKELEEYIRRNYIDMLMNGSIKTSLEKYKNQIERQLDTSLDIYWVEYDLEESFDLNDSHKYAQVYYEIYKYFEAVKNVKKFNNIWEEGKKCSICGSRNAIVVSSNNKKDPFGIQKIYKYQDFTEDSLFKLIEILKNEDINLSLDEIKKVKKTACNNHLESKDIDIKLKDNEMLCSVCLLKRIYEGEKIPSLAQITLSSWIENEKKSLKCNAYNKYKETIDELNKIDCNFDVYEFMYKENWDKILKNIKIEDLEKKKKELNENFGNLNNINLPKYYCMYRMDIDNLGEWMSGKYKTSNKNLYEYQIDLSQRIYKFFNKLRENYFQENSKSILVYAGGDDLLALIPIDEIFKLEQNVRACFKEEVQVEEYKNITYSKGIFVAHYKTPLGEITRVSKEELEKVKEKFKEKANDFDKEKNATVISIMTEGYSNRNVYFKNNLNGEQTVEFIFEELVNYFNKDGSTYFHEQLQSEFWNLDRNIDKGYQRDILINMFEVEQKRLMKRSILKNSIAEEKIDEVNKKLINFLEVNSSKELKIDFENYFNLFHIIRSLKQNMEVK
>NC_012658.1|WP_003361945.1|2376068_2377202_-|type-III-B-CRISPR-module-associated-protein-Cmr3
MNFDNIMQIKPNDNLFLGSGKNFSKGENTWLGTRMIPYPSVFYGAICSTMLVQNEDRRKKYIYNKDLDSDPRKYLSLGNVYLYNEEDDEVYMSAPLDLYLDEYEECHYAIIKKIKNNINCSEERMSHLFFNEIEGESQRVDDMFIKYRNFYNSYYNTNESIGIIKNSDIVTNSYKVGIERDKNYVAREKHLYRIDLTEFKKEKWSYLVEYNIKDSWWNEEIKNIKDGYLKLGGENKVCRFYTYDKNKKLMIYNNLYNQINDTEYVKMIITSPCIFEGNDYIPKFKNTEVIAASTGKPYDIGGFDMVLNIPKPMSKAVPEGSVYVLKNKDFNNTSLKEIRKIIDDEVLIDKTYKKQGFGMFELVPLDESQFEGEEIYE
>NC_012658.1|WP_003361943.1|2374621_2376076_-|hypothetical-protein
MSRKVKFDSIAICSTLNQMVNYVVIKEHKLHSNNVYNIRLADENEKFNHEEWDDNLKEIIVRNYNWEDINYHNYEIKEHRNIIDKLIEKFGSDSSEFGSYPLKEEKILWNITGGQRHFVMAITEYVYNHRPEDVIVYFEGDKEKMYYYAKNKNIQQEDILRNKDYNMTIPIALRLMGFAVSKREFNKVSEYYNFLISNNANEFREKCKLQSISKINDKKPEDLYEQLESELKWYKKFYDIYCNSKTLRKLLINSNKFTTDSTGKTKFDMIKEDIKAYIKEIDNEIKSKTNTNVNVNDVFNGKGFDTLKKSIGNHLNGKVFGYILEHMTLYKVLDVIKSNKRLLENIADIDTSVKIKYETDKSKDKLGLIDEFDILIVTKKGKVVMLECKSGGMSSDNAKSHNYSIYAVAGVYGAPILVCPIKDGDVGKKETFDTKVIVSGKKACKENTDVYEHVRSAKYAADKAKLNIFYIDRIAEDIKKIIKR
>NC_012658.1|WP_003361942.1|2373727_2374606_-|type-III-B-CRISPR-module-RAMP-protein-Cmr4
MFKGVNKILIKAITPVHAGVGRDLGLIDMPIQKEKHTGIPKIEGSTMKGSMRESYRLKKYKEKNNEDIVRKEVDKLFGPEDGHESAGIIGFTDAKLLFYPVITLDGIFAYVTCSYLLNRYFEDKALINNTEFNKKFKDLLEGECEILNNKCENVKNKIILDEYCFQETDKSSKVYEGLDLREFNLNSEKQVVVISDNDFIEIISLCREIVTRNKINPETGVVDKDTGSLFTEEYLPAESILYALVLQNGIQDKENLYDTYIENDLPNYAQIGGNATIGKGIVKITKLTESNN
>NC_012658.1|WP_003361941.1|2373261_2373711_-|type-III-B-CRISPR-module-associated-protein-Cmr5
MYQTINIKDLKRKKASFAFNAIEYIQSSGDKKFKGYIRNIPMYIYTNGLIATIAFILKKMGTEYEREKGTDKQSYYEIGEILRDYFNKDFIEYDDKFKEKSLEDIMKELIKCDSKSYRRITLDILSILEWLVRFSDAMLEGEGESSEPI
>NC_012658.1|WP_003361940.1|2372090_2373125_-|type-III-B-CRISPR-module-RAMP-protein-Cmr6
MGSKQDECNLIYSLQRNIVRESGSKKERRYLGKIETNNEKIKCIREIQRLKPYYHQSIVKEYIKSIKKYCRELNFLVNEMEGITSYRLVVGLGNPSVTETSMTLHNIYGIPYIPGQALKGITRSYFLQKYFDIEKKEFGIIKINAAEFKAKELYKIIFGDDYYGEANEKGSIIFFDAFPVSDEIIIEKDVMTPHYSNYYGKGWNPTDEFSTNPIPFYTVKNTKFNFLFALIKEEIRMNEEKIIYAEDLKNFVSKLIKEALEEHGVGAKTSVGYGYFNDVKVIEDKKTKKRLSPNDIQLQLNQINKILDKNKKHEAIMNFYANNDVSKLGKEQKSQLAKYMKECL
>NC_012658.1|WP_012720909.1|2371222_2371516_-|hypothetical-protein
MNFFTLNILIGAMAFIINKINNMSQDIDPFEAFNDIEENLEEIDNEKVTNFVNGLINASMSNPSIGYFFMFLVYMTPILNLLLLIKGIVNYFNRAAG
>NC_012658.1|WP_012720905.1|2370377_2371175_-|MerR-family-transcriptional-regulator
MRYSITDLAEILGCTTSAIHYFEKEHLIEVEKGKNGHRYYNVVDVFRLLSYTKYRSMEIPMKTIIAQFGGEENNYKLIEGREAMYQLEALKRAQYYMNLADAIGEHLVSIRRIEELLNKYEFAKSPEVTIMCDDECGWLSKKRSSQRIIHEWVKAMPTVQLGVFDSRMGMSNFGYMVKTKKREELELPLGLHAKEIKSTSCIHTIVMADEDFTQQPQKVFKKASQFVIKKGLEIGEIAWGKILLVEVEKGAKLHPYIELWVSIKI
>NC_012658.1|WP_003361949.1|2381451_2381901_-|Lrp/AsnC-family-transcriptional-regulator
MKLDEIDVLILQELQKDSRLSIRELSKRINLSPPSVTERVRRLEDDGVIEGYTIKINKKKLGLSIDCIVKVTMKNGQYEKFKIFIKEYKRSEWCYRIAGDGCFLVKLLVKSLNDIEEFINDISSYAITETIIAFSQVTINNSINKFLGE
>NC_012658.1|WP_003361950.1|2382039_2382456_+|carboxymuconolactone-decarboxylase-family-protein
MARITFSQEGLTPFQQLLGHNKYIMGKWTSLEECFFNSNTFTHELKEEVRRTLAFNNGCQYCMSKGKPSNEITDSKILIATKIADIISKNQLIDNECFNRLKNEFSDNEVSELLALICFITASQKFGALLDLQPSCSI
>NC_012658.1|WP_003361951.1|2382767_2383688_-|PhzF-family-phenazine-biosynthesis-protein
MRKFEYTLVDVFTNQVFGGNQLAVFKDAEKLSSEEMQSIARELNLSETTFVTDIGPNHKKLRIFTPKTELPMAGHPTIGTAFVLADEGAVETREGMNKLIFEEGVGEIAVSIHVEGGGIRSIEMEQPMPVFGQVFGDIRTAAELLSLDIADIDTTSPIQTVSTGVPFLYIPLKSLDVISKIKLRLDTWEKFFSVSEDTKHIFAFTRETLHAGSTIHSRMFAPAMGIAEDPATGGASGPLGAYLVEHGLVAHGYDGKYMIINEQGIEMGRPSFINITVSKTYNNFSEIKIGGTCVKFGAGLIELPTL
>NC_012658.1|WP_003361952.1|2384011_2385505_+|PLP-dependent-aminotransferase-family-protein
MNIKIDKTSLITITQQLVHYFSDRIMSGFIKAGQKLPSIRSLAKELGISPMTIIKAYNNLEQNGLVTTIQGKGTYVNERNSTVKSNNITEKDSFQWQMSVPDYLYRSQFRYNPNLSYSNDYYNLSVASLNHKLLPTKTILKDSLGLIQNDIKLLSQYPPAQGDYEFRNIMSQYLRLKEIATSPENILVTSGSQQGISLIASTFIGPGDIVVMETPTYPGAIDLFKCRGAVILTVPVDSEGMRTDILMNLCDKHSPKLIYTIPNFHNPTGYSMSSKRKAELLDIARYNDILIVEDDPWNEISYKREKIKSIKSMDTDGHVVYIKSLSKILGPSYRLAVIISESSILSRLIAAKANHDLGTSVLIQKTIINFIQSNKITYYIESLNKQLVKRRDKVISLLKSHAPSGMKWAIPEGGINIWVTLPKNFNVEKLLSYSITTKNISFLPGTICYPNEVEFNNLRICFTYLDEEFIEDTIIELCNLIKLLYTTKNITNYRPII
>NC_012658.1|WP_012721288.1|2387309_2388773_+|lipase
MRMLEVILFLVILTTTGGILFVKPNRRLYIVFLLSVVLVMLLHGTINHFRIQMLPSYAVALVLVIVLIHRLIKSDSKHKSQSIPKSLLKKSFVSILVLIFIGTSAYLSFLLPVFTMPKPTGNYGIGTVSAHLTDESRAETLSTSPDDKREIMVNVWYPVDQKDIKGKTVEHYPSELGEAISLVFNIPKQLFTHLSQVPTHVVQGAKISTAESKYPVLLFSPGIRSTRFQSLTTIEELVSHGYIVVGLDHPYTSAKVTFPDGRSIFYKPDTKSMTASELYKHNIGNVGIRVADVSFLLDTLTKWNKKDPNALLQGKLDLERIGMFGHSYGGATTAEALAQDNRLKAGVSLEGGFWGSVSQKGLKQPFMYLMSGGTAASFDPSTIKKDKVFYKEFIPDLQSVINKSTNSTYYLTVDHFIHQSFTDISLMSPLLFAKSIDPVHNIDITRSYVRAFFDQYLKGTHSILLDGPSSKYPEVKFSDIYTKKRLN
>NC_012658.1|WP_079994795.1|2388806_2389190_+|MerR-family-transcriptional-regulator
MNKMTRGELARQTGISTSTIRYYEDSGILPAPKRIANGYRIYTDDYLVKIKFIKDAKSLGYSLKEIKEILQMLSQEMDGENLKGFVKNKICEIEERIKTLHSIQRMLTDLLNTSEEDIQNYLQSFRI
>NC_012658.1|WP_012720846.1|2389423_2389876_+|staygreen-family-protein
MSKLNPEKLSVEFRDVVTNTEPILGRRYTLTHSDITAELFLTIGSAYAYDKINATRDEVLGEWIGKQKNYLFHVYLHVDGNNPIVTGVRNHIFRRELPLALEAIRYGDRKFFSFHPKLDNSPIIVHFISSYPSFNRIEKWGTFSDYFLKK
>NC_012658.1|WP_012721174.1|2389957_2390404_-|helix-turn-helix-transcriptional-regulator
MSLGEKLLYLRKKAGLSQEDVAEKLSVSRQTVSKWETDQMVPELNKAKLLSQLYNVSYDYLISENYISGDVTGIEMIVDEIDWTGAWSKKYPILASYPGIKGINTYSEKISELYDSFKNDFGFNDTDTVLVLKDILYQKYKMEKKKTK
>NC_012658.1|WP_012720921.1|2390571_2391603_-|alpha/beta-hydrolase
MKKVIKVVSVILVILVISGFFIIKNLTETKNGKLNMYVAANLQLYKILNPKSPNSKSIEETRGALNKQSTRWSNKPIPFSNIKNLHIKMNNEKIPVRIYTPEKGSNFPIIIYSHGGFWIGGNVDTIDGVCRKLSQNTKAIVISVNYRLAPENPFPAGLNDVYNVLQWTYKNGKSINGDEKHIAVVGDSAGGNLSAAVSSMSRDKNGPPITCQVLIYPSTNIFKLNSKSWSHFSNSFNVSKEDMEKYISIYAPKKEDRKKPYASPLLSKDLRKLPDTLVVTAEIDPLRDEGEAYANKLKESGVKAEVTRYKGITHGFITMDKITNKADEALNQISLYIQKEFQK
>NC_012658.1|WP_039774258.1|2391828_2393220_-|amidohydrolase
MNQILIKNGYIITMDCSKKIFEKGDILVEDSKIIAIGNVESELIKSNVEIIDVNGKIIMPGLVNTHVHLSQQLARGLADDVDLLTWLRKRIWRYESNMDLEDSYISSLACCTELIRSGVTTFCEAGGQEVDGMGKAVEEAGLRGILCRSTMDCGDGLPLKWQETTEESLQKQVELLERWNGKGDGRIKYWFGLRTIFNTTDKLITKTKELADKYKVGIHMHVAEIEEEVRYAEATRGETTVQHLAKLGVLDKNFLAVHTVWLTEQEIDLFKLHNVKVSHNPGAAMKVVLGFAHIPEMLEKGINVSIGTDGAPSNNRMDMFDEMHLTSLIHKGRRLNPKVVPADEVLEMATMNGAKCALWEDEIGSLEVGKKADLIIINPKSIGSLPMHDPIGNIVYSMHSSDVESSMCNGKWLMKNKVLLTINEEDIIREAQEKATALVKKQVLSYQNVFKIERIIFKLAIIV

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Crispr_ID: NC_012658_4

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012658_4

2385935-2386423

TypeIII

III-B

Consensus_repeat	Method
ATTTAAATACATCTCATGTTAATGTTCAAC	CRT
ATTTAAATACATCTCATGTTAATGTTCAAC	PILER-CR
ATTTAAATACATCTCATGTTAATGTTCAAC	CRISPRCasFinder

7 spacers

cas6,cmr1gr7,cas10,cmr3gr5,csx1,cmr4gr7

The CRISPR arrays of NC_012658_4

>merge|NC_012658|4|2385935-2386423|CRT,PILER-CR,CRISPRCasFinder
TTGCACCTAAAAGGAAATTAAATGTTCAACAGGTATAGGAACTCCCGCTACAAGAGGAGAATAGTATTTAAATACATCTCATGTTAATGTTCAACTATCTTACTGGAAATGTTTTGTTTTATTTCTTCATCATTTAAATACATCTCATGTTAATGTTCAACGGAAGAAACAGAAAAAATATTTAATAAGATTAAAGAATTTAAATACATCTCATGTTAATGTTCAACACTATTCTTCTCTTTTTTTTATTAATCTTTTTACTTATTTAAATACATCTCATGTTAATGTTCAACAAGAAGAAATTATAGGTGCATATGATCCTAACACATTTAAATACATCTCATGTTAATGTTCAACAATAAAGCACTTATAAAATGTGCTTAGAAAGAAGGATTTAAATACATCTCATGTTAATGTTCAACTATTAATAATGCAAATATAATGCAAAATACATTAACATTTAAATACATCTCATGTTAATGTTCAACC

>NC_012658|4|1|2385935-2386422|CRT
TTGCACCTAAAAGGAAATTAAATGTTCAAC	AGGTATAGGAACTCCCGCTACAAGAGGAGAATAGT
ATTTAAATACATCTCATGTTAATGTTCAAC	TATCTTACTGGAAATGTTTTGTTTTATTTCTTCATC
ATTTAAATACATCTCATGTTAATGTTCAAC	GGAAGAAACAGAAAAAATATTTAATAAGATTAAAGA
ATTTAAATACATCTCATGTTAATGTTCAAC	ACTATTCTTCTCTTTTTTTTATTAATCTTTTTACTT
ATTTAAATACATCTCATGTTAATGTTCAAC	AAGAAGAAATTATAGGTGCATATGATCCTAACAC
ATTTAAATACATCTCATGTTAATGTTCAAC	AATAAAGCACTTATAAAATGTGCTTAGAAAGAAGG
ATTTAAATACATCTCATGTTAATGTTCAAC	TATTAATAATGCAAATATAATGCAAAATACATTAAC
ATTTAAATACATCTCATGTTAATGTTCAAC

>NC_012658|4|1|2386000-2386422|PILER-CR
ATTTAAATACATCTCATGTTAATGTTCAAC	TATCTTACTGGAAATGTTTTGTTTTATTTCTTCATC
ATTTAAATACATCTCATGTTAATGTTCAAC	GGAAGAAACAGAAAAAATATTTAATAAGATTAAAGA
ATTTAAATACATCTCATGTTAATGTTCAAC	ACTATTCTTCTCTTTTTTTTATTAATCTTTTTACTT
ATTTAAATACATCTCATGTTAATGTTCAAC	AAGAAGAAATTATAGGTGCATATGATCCTAACAC
ATTTAAATACATCTCATGTTAATGTTCAAC	AATAAAGCACTTATAAAATGTGCTTAGAAAGAAGG
ATTTAAATACATCTCATGTTAATGTTCAAC	TATTAATAATGCAAATATAATGCAAAATACATTAAC
ATTTAAATACATCTCATGTTAATGTTCAAC

>NC_012658|4|4|2386000-2386423|CRISPRCasFinder
ATTTAAATACATCTCATGTTAATGTTCAAC	TATCTTACTGGAAATGTTTTGTTTTATTTCTTCATC
ATTTAAATACATCTCATGTTAATGTTCAAC	GGAAGAAACAGAAAAAATATTTAATAAGATTAAAGA
ATTTAAATACATCTCATGTTAATGTTCAAC	ACTATTCTTCTCTTTTTTTTATTAATCTTTTTACTT
ATTTAAATACATCTCATGTTAATGTTCAAC	AAGAAGAAATTATAGGTGCATATGATCCTAACAC
ATTTAAATACATCTCATGTTAATGTTCAAC	AATAAAGCACTTATAAAATGTGCTTAGAAAGAAGG
ATTTAAATACATCTCATGTTAATGTTCAAC	TATTAATAATGCAAATATAATGCAAAATACATTAAC
ATTTAAATACATCTCATGTTAATGTTCAACC

Protein	Signature genes	Signature genes Name	Protein_function
NC_012658.1\|WP_012721240.1\|2398046_2398820_-\|2-hydroxyglutaryl-CoA-dehydratase	unknown	unknown	gnl\|CDD\|224835
NC_012658.1\|WP_012720929.1\|2393426_2394770_-\|purine-permease	unknown	unknown	gnl\|CDD\|274468
NC_012658.1\|WP_003361942.1\|2373727_2374606_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	cmr4gr7	COG1336_cmr4gr7_CAS-III-C	gnl\|CDD\|224255
NC_012658.1\|WP_003361949.1\|2381451_2381901_-\|Lrp/AsnC-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224439
NC_012658.1\|WP_012720422.1\|2396446_2397766_+\|APC-family-permease	unknown	unknown	gnl\|CDD\|223605
NC_012658.1\|WP_012720846.1\|2389423_2389876_+\|staygreen-family-protein	unknown	unknown	gnl\|CDD\|378897
NC_012658.1\|WP_039774258.1\|2391828_2393220_-\|amidohydrolase	unknown	unknown	gnl\|CDD\|238623
NC_012658.1\|WP_003361947.1\|2379092_2379998_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	cmr1gr7	COG1367_cmr1gr7_CAS-III-B	gnl\|CDD\|273859
NC_012658.1\|WP_012720921.1\|2390571_2391603_-\|alpha/beta-hydrolase	unknown	unknown	gnl\|CDD\|369561
NC_012658.1\|WP_003361945.1\|2376068_2377202_-\|type-III-B-CRISPR-module-associated-protein-Cmr3	cmr3gr5	pfam09700_cmr3gr5_CAS-III-B	gnl\|CDD\|187879
NC_012658.1\|WP_003361952.1\|2384011_2385505_+\|PLP-dependent-aminotransferase-family-protein	unknown	unknown	gnl\|CDD\|224089
NC_012658.1\|WP_079994795.1\|2388806_2389190_+\|MerR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|133398
NC_012658.1\|WP_012720893.1\|2395207_2396107_+\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_003361943.1\|2374621_2376076_-\|hypothetical-protein	csx1	mkCas0085_csx1_CAS-III	unknown
NC_012658.1\|WP_003361950.1\|2382039_2382456_+\|carboxymuconolactone-decarboxylase-family-protein	unknown	unknown	gnl\|CDD\|225039
NC_012658.1\|WP_012720949.1\|2377203_2379108_-\|type-III-B-CRISPR-associated-protein-Cas10/Cmr2	cas10	cd09679_cas10_CAS-III	gnl\|CDD\|187810
NC_012658.1\|WP_012721174.1\|2389957_2390404_-\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|238045
NC_012658.1\|WP_012721288.1\|2387309_2388773_+\|lipase	unknown	unknown	gnl\|CDD\|335313
NC_012658.1\|WP_003361948.1\|2380059_2380749_-\|CRISPR-associated-endoribonuclease-Cas6	cas6	cd09652_cas6_CAS-I:CAS-III	gnl\|CDD\|273848
NC_012658.1\|WP_003361951.1\|2382767_2383688_-\|PhzF-family-phenazine-biosynthesis-protein	unknown	unknown	gnl\|CDD\|223461

Protein	Function_ID	Function_description	E-value
NC_012658.1\|WP_012721240.1\|2398046_2398820_-\|2-hydroxyglutaryl-CoA-dehydratase	gnl\|CDD\|224835	COG1924, COG1924, Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism].	6.56628e-97
NC_012658.1\|WP_012720929.1\|2393426_2394770_-\|purine-permease	gnl\|CDD\|274468	TIGR03173, pbuX, xanthine permease. All the seed members of this model are observed adjacent to genes for either xanthine phosphoribosyltransferase (for the conversion of xanthine to guanine, GenProp0696) or genes for the conversion of xanthine to urate and its concomitant catabolism (GenProp0640, GenProp0688, GenProp0686 and GenProp0687). A number of sequences scoring higher than trusted to this model are found in different genomic contexts, and the possibility exist that these transport related compounds in addition to or instead of xanthine itself. The outgroup to this family are sequences which are characterized as uracil permeases or are adjacent to established uracil phosphoribosyltransferases.	7.8635e-137
NC_012658.1\|WP_003361942.1\|2373727_2374606_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	gnl\|CDD\|224255	COG1336, COG1336, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	2.08006e-62
NC_012658.1\|WP_003361949.1\|2381451_2381901_-\|Lrp/AsnC-family-transcriptional-regulator	gnl\|CDD\|224439	COG1522, Lrp, Transcriptional regulators [Transcription].	5.40648e-37
NC_012658.1\|WP_012720422.1\|2396446_2397766_+\|APC-family-permease	gnl\|CDD\|223605	COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism].	6.55607e-27
NC_012658.1\|WP_012720846.1\|2389423_2389876_+\|staygreen-family-protein	gnl\|CDD\|378897	pfam12638, Staygreen, Staygreen protein. This family of proteins have been implicated in chlorophyll degradation. Intriguingly members of this family are also found in non-photosynthetic bacteria.	2.63863e-82
NC_012658.1\|WP_039774258.1\|2391828_2393220_-\|amidohydrolase	gnl\|CDD\|238623	cd01298, ATZ_TRZ_like, TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are catalyzed by atrazine chlorohydrolase (AtzA), hydroxyatrazine ethylaminohydrolase (AtzB), and N-isopropylammelide N-isopropylaminohydrolase (AtzC). All three enzymes belong to the superfamily of metal dependent hydrolases. AtzA and AtzB, beside other related enzymes are represented in this CD.	0
NC_012658.1\|WP_003361947.1\|2379092_2379998_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	gnl\|CDD\|273859	TIGR01894, hypothetical_protein, CRISPR type III-B/RAMP module RAMP protein Cmr1. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model represents the region of stongest conservation, the N-terminal half, of one such family, represented by TM1795 from Thermotoga maritima. This protein is the first of a set of six genes, mostly from the RAMP superfamily, that we designated the CRISPR-associated RAMP module.	8.65634e-11
NC_012658.1\|WP_012720921.1\|2390571_2391603_-\|alpha/beta-hydrolase	gnl\|CDD\|369561	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.	2.64395e-90
NC_012658.1\|WP_003361945.1\|2376068_2377202_-\|type-III-B-CRISPR-module-associated-protein-Cmr3	gnl\|CDD\|187879	cd09748, Cmr3_III-B, CRISPR/Cas system-associated RAMP superfamily protein Cmr3. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein; This protein is a subunit of Cmr complex.	8.45426e-42
NC_012658.1\|WP_003361952.1\|2384011_2385505_+\|PLP-dependent-aminotransferase-family-protein	gnl\|CDD\|224089	COG1167, ARO8, Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism].	3.39048e-120
NC_012658.1\|WP_079994795.1\|2388806_2389190_+\|MerR-family-transcriptional-regulator	gnl\|CDD\|133398	cd04770, HTH_HMRTR, Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.	2.7281e-33
NC_012658.1\|WP_003361950.1\|2382039_2382456_+\|carboxymuconolactone-decarboxylase-family-protein	gnl\|CDD\|225039	COG2128, COG2128, Uncharacterized conserved protein [Function unknown].	2.24554e-13
NC_012658.1\|WP_012720949.1\|2377203_2379108_-\|type-III-B-CRISPR-associated-protein-Cas10/Cmr2	gnl\|CDD\|187810	cd09679, Cas10_III, CRISPR/Cas system-associated protein Cas10. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Multidomain protein with permuted HD nuclease domain, palm domain and Zn-ribbon; MTH326-like has inactivated polymerase catalytic domain; alr1562 and slr7011 - predicted only on the basis of size, presence of HD domain, and location with RAMPs in one operon; signature gene for type III; also known as Crm2 family.	2.25306e-31
NC_012658.1\|WP_012721174.1\|2389957_2390404_-\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|238045	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.	2.10952e-15
NC_012658.1\|WP_012721288.1\|2387309_2388773_+\|lipase	gnl\|CDD\|335313	pfam03403, PAF-AH_p_II, Platelet-activating factor acetylhydrolase, isoform II. Platelet-activating factor acetylhydrolase (PAF-AH) is a subfamily of phospholipases A2, responsible for inactivation of platelet-activating factor through cleavage of an acetyl group. Three known PAF-AHs are the brain heterotrimeric PAF-AH Ib, whose catalytic beta and gamma subunits are aligned in pfam02266, the extracellular, plasma PAF-AH (pPAF-AH), and the intracellular PAF-AH isoform II (PAF-AH II). This family aligns pPAF-AH and PAF-AH II, whose similarity was previously noted.	1.11516e-17
NC_012658.1\|WP_003361948.1\|2380059_2380749_-\|CRISPR-associated-endoribonuclease-Cas6	gnl\|CDD\|273848	TIGR01877, CRISPR-associated_endoribonuclease_Cas6_1, CRISPR-associated endoribonuclease Cas6. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This broadly distributed, highly divergent Cas family is now characterized as an endoribonuclease that generates guide RNAs for host defense against phage and other invaders. The family contains a C-terminal motif GXGXXXXXGXG, where the each X between two Gly is hydrophobic and the spacer XXXXX contains (usually) one Arg or Lys. The seed alignment for the current version of this model has gappy columns removed. Members of this protein family are found associated with several different CRISPR/cas system subtypes, and consequently we designate this family Cas6.	5.07531e-21
NC_012658.1\|WP_003361951.1\|2382767_2383688_-\|PhzF-family-phenazine-biosynthesis-protein	gnl\|CDD\|223461	COG0384, COG0384, Predicted epimerase, PhzC/PhzF homolog [General function prediction only].	1.08111e-89

>NC_012658.1|WP_003361952.1|2384011_2385505_+|PLP-dependent-aminotransferase-family-protein
MNIKIDKTSLITITQQLVHYFSDRIMSGFIKAGQKLPSIRSLAKELGISPMTIIKAYNNLEQNGLVTTIQGKGTYVNERNSTVKSNNITEKDSFQWQMSVPDYLYRSQFRYNPNLSYSNDYYNLSVASLNHKLLPTKTILKDSLGLIQNDIKLLSQYPPAQGDYEFRNIMSQYLRLKEIATSPENILVTSGSQQGISLIASTFIGPGDIVVMETPTYPGAIDLFKCRGAVILTVPVDSEGMRTDILMNLCDKHSPKLIYTIPNFHNPTGYSMSSKRKAELLDIARYNDILIVEDDPWNEISYKREKIKSIKSMDTDGHVVYIKSLSKILGPSYRLAVIISESSILSRLIAAKANHDLGTSVLIQKTIINFIQSNKITYYIESLNKQLVKRRDKVISLLKSHAPSGMKWAIPEGGINIWVTLPKNFNVEKLLSYSITTKNISFLPGTICYPNEVEFNNLRICFTYLDEEFIEDTIIELCNLIKLLYTTKNITNYRPII
>NC_012658.1|WP_003361951.1|2382767_2383688_-|PhzF-family-phenazine-biosynthesis-protein
MRKFEYTLVDVFTNQVFGGNQLAVFKDAEKLSSEEMQSIARELNLSETTFVTDIGPNHKKLRIFTPKTELPMAGHPTIGTAFVLADEGAVETREGMNKLIFEEGVGEIAVSIHVEGGGIRSIEMEQPMPVFGQVFGDIRTAAELLSLDIADIDTTSPIQTVSTGVPFLYIPLKSLDVISKIKLRLDTWEKFFSVSEDTKHIFAFTRETLHAGSTIHSRMFAPAMGIAEDPATGGASGPLGAYLVEHGLVAHGYDGKYMIINEQGIEMGRPSFINITVSKTYNNFSEIKIGGTCVKFGAGLIELPTL
>NC_012658.1|WP_003361950.1|2382039_2382456_+|carboxymuconolactone-decarboxylase-family-protein
MARITFSQEGLTPFQQLLGHNKYIMGKWTSLEECFFNSNTFTHELKEEVRRTLAFNNGCQYCMSKGKPSNEITDSKILIATKIADIISKNQLIDNECFNRLKNEFSDNEVSELLALICFITASQKFGALLDLQPSCSI
>NC_012658.1|WP_003361949.1|2381451_2381901_-|Lrp/AsnC-family-transcriptional-regulator
MKLDEIDVLILQELQKDSRLSIRELSKRINLSPPSVTERVRRLEDDGVIEGYTIKINKKKLGLSIDCIVKVTMKNGQYEKFKIFIKEYKRSEWCYRIAGDGCFLVKLLVKSLNDIEEFINDISSYAITETIIAFSQVTINNSINKFLGE
>NC_012658.1|WP_003361948.1|2380059_2380749_-|CRISPR-associated-endoribonuclease-Cas6
MELWELIATVMLKKDIYFEDCGYIIGKNINKSMLLDKDLKEVHPKKQYKNYVFNSFYPIERDKFYKKDRLYIFNIRGLSKEFIDKIETCLCNLESNDFNVISTSKKEIKQRYIKELYTQTPLIITVDDKPWLQKDGDLDLFKQRLEDNLEKKYKSFFNEDIDVKDKFINSIEFKNRKPMHYNYKNGIKLLANKVSIQIEDNEEAQKVAFLARAVGLGEKNSAIGAGFCK
>NC_012658.1|WP_003361947.1|2379092_2379998_-|type-III-B-CRISPR-module-RAMP-protein-Cmr1
MVEGNSKIYRLKNITDLCSNNGLNNGLKKPEFRLTEIKSLMRFWWRALNFYTNASTMKKEEENIFGNSDTYKSPIIFKTESNGFKYDDGSHEVRKNNKPINCFKSGKIVEIKLSVYKRKINQKEYINKELYFYDNLLKISLILGGIGKRSRRGCGVFMLEENDKECNLKNQIKSYMENLNVNKYYEFSKENDKYLELVRKDEYRNKKFKYPYIEEIIISKEAVSEEYFYIKIKESIDATRNEKFQYKDYKCEKLACPVYVTCYGDSNELYPIIVKLYNTNQHETYDNYYKKFKEVILCSKE
>NC_012658.1|WP_012720949.1|2377203_2379108_-|type-III-B-CRISPR-associated-protein-Cas10/Cmr2
MQQRIILFSIGSIQNFIINSRKVSDLFNSSKILSKLISNGMEFIKIRGNGELLLPQLLDKNEGLPNYFIMKYESNKHLGKELEEYIRRNYIDMLMNGSIKTSLEKYKNQIERQLDTSLDIYWVEYDLEESFDLNDSHKYAQVYYEIYKYFEAVKNVKKFNNIWEEGKKCSICGSRNAIVVSSNNKKDPFGIQKIYKYQDFTEDSLFKLIEILKNEDINLSLDEIKKVKKTACNNHLESKDIDIKLKDNEMLCSVCLLKRIYEGEKIPSLAQITLSSWIENEKKSLKCNAYNKYKETIDELNKIDCNFDVYEFMYKENWDKILKNIKIEDLEKKKKELNENFGNLNNINLPKYYCMYRMDIDNLGEWMSGKYKTSNKNLYEYQIDLSQRIYKFFNKLRENYFQENSKSILVYAGGDDLLALIPIDEIFKLEQNVRACFKEEVQVEEYKNITYSKGIFVAHYKTPLGEITRVSKEELEKVKEKFKEKANDFDKEKNATVISIMTEGYSNRNVYFKNNLNGEQTVEFIFEELVNYFNKDGSTYFHEQLQSEFWNLDRNIDKGYQRDILINMFEVEQKRLMKRSILKNSIAEEKIDEVNKKLINFLEVNSSKELKIDFENYFNLFHIIRSLKQNMEVK
>NC_012658.1|WP_003361945.1|2376068_2377202_-|type-III-B-CRISPR-module-associated-protein-Cmr3
MNFDNIMQIKPNDNLFLGSGKNFSKGENTWLGTRMIPYPSVFYGAICSTMLVQNEDRRKKYIYNKDLDSDPRKYLSLGNVYLYNEEDDEVYMSAPLDLYLDEYEECHYAIIKKIKNNINCSEERMSHLFFNEIEGESQRVDDMFIKYRNFYNSYYNTNESIGIIKNSDIVTNSYKVGIERDKNYVAREKHLYRIDLTEFKKEKWSYLVEYNIKDSWWNEEIKNIKDGYLKLGGENKVCRFYTYDKNKKLMIYNNLYNQINDTEYVKMIITSPCIFEGNDYIPKFKNTEVIAASTGKPYDIGGFDMVLNIPKPMSKAVPEGSVYVLKNKDFNNTSLKEIRKIIDDEVLIDKTYKKQGFGMFELVPLDESQFEGEEIYE
>NC_012658.1|WP_003361943.1|2374621_2376076_-|hypothetical-protein
MSRKVKFDSIAICSTLNQMVNYVVIKEHKLHSNNVYNIRLADENEKFNHEEWDDNLKEIIVRNYNWEDINYHNYEIKEHRNIIDKLIEKFGSDSSEFGSYPLKEEKILWNITGGQRHFVMAITEYVYNHRPEDVIVYFEGDKEKMYYYAKNKNIQQEDILRNKDYNMTIPIALRLMGFAVSKREFNKVSEYYNFLISNNANEFREKCKLQSISKINDKKPEDLYEQLESELKWYKKFYDIYCNSKTLRKLLINSNKFTTDSTGKTKFDMIKEDIKAYIKEIDNEIKSKTNTNVNVNDVFNGKGFDTLKKSIGNHLNGKVFGYILEHMTLYKVLDVIKSNKRLLENIADIDTSVKIKYETDKSKDKLGLIDEFDILIVTKKGKVVMLECKSGGMSSDNAKSHNYSIYAVAGVYGAPILVCPIKDGDVGKKETFDTKVIVSGKKACKENTDVYEHVRSAKYAADKAKLNIFYIDRIAEDIKKIIKR
>NC_012658.1|WP_003361942.1|2373727_2374606_-|type-III-B-CRISPR-module-RAMP-protein-Cmr4
MFKGVNKILIKAITPVHAGVGRDLGLIDMPIQKEKHTGIPKIEGSTMKGSMRESYRLKKYKEKNNEDIVRKEVDKLFGPEDGHESAGIIGFTDAKLLFYPVITLDGIFAYVTCSYLLNRYFEDKALINNTEFNKKFKDLLEGECEILNNKCENVKNKIILDEYCFQETDKSSKVYEGLDLREFNLNSEKQVVVISDNDFIEIISLCREIVTRNKINPETGVVDKDTGSLFTEEYLPAESILYALVLQNGIQDKENLYDTYIENDLPNYAQIGGNATIGKGIVKITKLTESNN
>NC_012658.1|WP_012721288.1|2387309_2388773_+|lipase
MRMLEVILFLVILTTTGGILFVKPNRRLYIVFLLSVVLVMLLHGTINHFRIQMLPSYAVALVLVIVLIHRLIKSDSKHKSQSIPKSLLKKSFVSILVLIFIGTSAYLSFLLPVFTMPKPTGNYGIGTVSAHLTDESRAETLSTSPDDKREIMVNVWYPVDQKDIKGKTVEHYPSELGEAISLVFNIPKQLFTHLSQVPTHVVQGAKISTAESKYPVLLFSPGIRSTRFQSLTTIEELVSHGYIVVGLDHPYTSAKVTFPDGRSIFYKPDTKSMTASELYKHNIGNVGIRVADVSFLLDTLTKWNKKDPNALLQGKLDLERIGMFGHSYGGATTAEALAQDNRLKAGVSLEGGFWGSVSQKGLKQPFMYLMSGGTAASFDPSTIKKDKVFYKEFIPDLQSVINKSTNSTYYLTVDHFIHQSFTDISLMSPLLFAKSIDPVHNIDITRSYVRAFFDQYLKGTHSILLDGPSSKYPEVKFSDIYTKKRLN
>NC_012658.1|WP_079994795.1|2388806_2389190_+|MerR-family-transcriptional-regulator
MNKMTRGELARQTGISTSTIRYYEDSGILPAPKRIANGYRIYTDDYLVKIKFIKDAKSLGYSLKEIKEILQMLSQEMDGENLKGFVKNKICEIEERIKTLHSIQRMLTDLLNTSEEDIQNYLQSFRI
>NC_012658.1|WP_012720846.1|2389423_2389876_+|staygreen-family-protein
MSKLNPEKLSVEFRDVVTNTEPILGRRYTLTHSDITAELFLTIGSAYAYDKINATRDEVLGEWIGKQKNYLFHVYLHVDGNNPIVTGVRNHIFRRELPLALEAIRYGDRKFFSFHPKLDNSPIIVHFISSYPSFNRIEKWGTFSDYFLKK
>NC_012658.1|WP_012721174.1|2389957_2390404_-|helix-turn-helix-transcriptional-regulator
MSLGEKLLYLRKKAGLSQEDVAEKLSVSRQTVSKWETDQMVPELNKAKLLSQLYNVSYDYLISENYISGDVTGIEMIVDEIDWTGAWSKKYPILASYPGIKGINTYSEKISELYDSFKNDFGFNDTDTVLVLKDILYQKYKMEKKKTK
>NC_012658.1|WP_012720921.1|2390571_2391603_-|alpha/beta-hydrolase
MKKVIKVVSVILVILVISGFFIIKNLTETKNGKLNMYVAANLQLYKILNPKSPNSKSIEETRGALNKQSTRWSNKPIPFSNIKNLHIKMNNEKIPVRIYTPEKGSNFPIIIYSHGGFWIGGNVDTIDGVCRKLSQNTKAIVISVNYRLAPENPFPAGLNDVYNVLQWTYKNGKSINGDEKHIAVVGDSAGGNLSAAVSSMSRDKNGPPITCQVLIYPSTNIFKLNSKSWSHFSNSFNVSKEDMEKYISIYAPKKEDRKKPYASPLLSKDLRKLPDTLVVTAEIDPLRDEGEAYANKLKESGVKAEVTRYKGITHGFITMDKITNKADEALNQISLYIQKEFQK
>NC_012658.1|WP_039774258.1|2391828_2393220_-|amidohydrolase
MNQILIKNGYIITMDCSKKIFEKGDILVEDSKIIAIGNVESELIKSNVEIIDVNGKIIMPGLVNTHVHLSQQLARGLADDVDLLTWLRKRIWRYESNMDLEDSYISSLACCTELIRSGVTTFCEAGGQEVDGMGKAVEEAGLRGILCRSTMDCGDGLPLKWQETTEESLQKQVELLERWNGKGDGRIKYWFGLRTIFNTTDKLITKTKELADKYKVGIHMHVAEIEEEVRYAEATRGETTVQHLAKLGVLDKNFLAVHTVWLTEQEIDLFKLHNVKVSHNPGAAMKVVLGFAHIPEMLEKGINVSIGTDGAPSNNRMDMFDEMHLTSLIHKGRRLNPKVVPADEVLEMATMNGAKCALWEDEIGSLEVGKKADLIIINPKSIGSLPMHDPIGNIVYSMHSSDVESSMCNGKWLMKNKVLLTINEEDIIREAQEKATALVKKQVLSYQNVFKIERIIFKLAIIV
>NC_012658.1|WP_012720929.1|2393426_2394770_-|purine-permease
MKSTKDTNLIVGIDEKISLRYAFFLGLQHVFAMDLYIVPIILAGILSLDAQNTAYFIQMSFIAAGIATLIQTGLCMRLPIMQGPSYIPIGALAAIGSKLGLQAMVGSLIPGSLFLMILGYPLRFLSKIISKFIPHIVGGTVIIIVGISLMPVAMTNIFTAPGNLKINCILALISSALLVSCMMIGRKSNKFGKAVRLTSVMISLIGGTIAASLLGVVDFTPVTKAAWFSFPKLLPFGKPVFDLKAILTMLFIYAVILVETSGTWFAVSAVTGSELTDEGLNRGAVGEGIGCFVGALFGGTPMTGYSTNAGIIAVTGVGSRMAIIAGGIILVALGMLPKLMNVIACIPSAVVSGVFAVVCVIIAMNGFKSIQHEELDERNMLLIGLPILLALGTTVLPKDILNSLPSLANYIFSSGITVGALAAVILNILLPKAPVEVSKSQEYEEAV
>NC_012658.1|WP_012720893.1|2395207_2396107_+|hypothetical-protein
MSNKRNLQSIRSFYLCILIFNIVYSSIFHLNNKGFNIKLFGDLTMRSVVLFTLNSILFLCVVIAVEKKININEEIKTQVSMRIRPLYLVNIFFITYILVCIFLLKNLDVILSSFVMEIIYIGILILTKKIMTLELTDRQLQWQKACGYIDENCEKSSFLWRFKIWYSPHINVPFKNRWKRPSRLLYDLALVYGIIISKGTLFSLLLLILLFPDVLSWLEGLLGLQTSLTGICTGITEHHSKNSHVIYHKVYVTDYKNKREITFLVDGPLFIHENSNITVVHGTFSKRVLYIEGLNLDIR
>NC_012658.1|WP_012720422.1|2396446_2397766_+|APC-family-permease
MLEKKYGLWTTVSMVIGIVIGSGVFFKADNILIASGGNVKTALLAWLVGAISMIFGALVFAECANRFERSNGIVDYAEGMLSEKFAYLIGWFNGIIYYPAIAAVLAWAAGNYTAILFNKDGNFVWVMAAIYMIGIYILNYISPILSGKFQIASTAIKLVPLMLIAILGIFQGLNNGILIENFSKVSTIGDSGSGFAAAVLGAAFAYEGWIIATTINGEIKDAKNTLPKALVFGSLVIVIIYILYFLGIVGMIPTETILKQGDNTVNVAARTVFGNFGASILTIFIIVSCLGTLNGLILGGSRSFYSLAIRGQGIKPEAFSKLDSKTNIPTNSTIANFILICIYLVVWYMNFKGLFPNKMFVDISELPIALIYGIYIIIYIAYMMKMKDLSFIKRFVIPSLALMGALIVVYGGLSKPSVIIDLGISVFVFLSGLLFYNKK
>NC_012658.1|WP_012721240.1|2398046_2398820_-|2-hydroxyglutaryl-CoA-dehydratase
MYTMGLDIGSTTSKGVIIKDGEEIVASVLVPVGTGTSGPLKLIKELKEKSNLTEKDIEKTVVTGYGRIQYKDADKQISELSCHAKGVAFLIPGARTIIDIGGQDAKAMKLNDKGKLINFIMNDKCAAGTGRFLDVMAGVLETDVSKLGEISEKSTKEVSISSTCTVFAESEVISHLSANAKKEDIVAGIHTSVVRRVSTLAMRVGIEDQVVMVGGVARNKGIVKAMEKELGHDIKVPKLAQLTGALGAAIYAFEETK

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Crispr_ID: NC_012658_5

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012658_5

2386675-2386836

TypeIII

III-B

Consensus_repeat	Method
ATTTAAATACATCTCATGTTAATGTTCAAC	CRISPRCasFinder
TCTTAAATACATCCTATGTTAAGGTTCAAC	PILER-CR

2 spacers

cas6,cmr1gr7,cas10,cmr3gr5,csx1,cmr4gr7

The CRISPR arrays of NC_012658_5

>merge|NC_012658|5|2386675-2386836|CRISPRCasFinder,PILER-CR
GCTTAAATACATCCTATGTTAAGGTTCAACAATACTAAATATGCTTCATATTTTTCATTTTTTTATCTTAAATACATCCTATGTTAAGGTTCAACTTGGTGAATGGTATTATATCTACGTTAGGAAAATTAGTCTTAAATACATCCTATGTTAAGGTTCAAC

>NC_012658|5|5|2386675-2386836|CRISPRCasFinder
GCTTAAATACATCCTATGTTAAGGTTCAAC	AATACTAAATATGCTTCATATTTTTCATTTTTTTA
TCTTAAATACATCCTATGTTAAGGTTCAAC	TTGGTGAATGGTATTATATCTACGTTAGGAAAATTAG
TCTTAAATACATCCTATGTTAAGGTTCAAC

>NC_012658|5|2|2386676-2386836|PILER-CR
CTTAAATACATCCTATGTTAAGGTTCAACA	ATACTAAATATGCTTCATATTTTTCATTTTTTTAT
CTTAAATACATCCTATGTTAAGGTTCAACT	TGGTGAATGGTATTATATCTACGTTAGGAAAATTAGT
CTTAAATACATCCTATGTTAAGGTTCAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_012658.1\|WP_012721240.1\|2398046_2398820_-\|2-hydroxyglutaryl-CoA-dehydratase	unknown	unknown	gnl\|CDD\|224835
NC_012658.1\|WP_012720929.1\|2393426_2394770_-\|purine-permease	unknown	unknown	gnl\|CDD\|274468
NC_012658.1\|WP_003361942.1\|2373727_2374606_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	cmr4gr7	COG1336_cmr4gr7_CAS-III-C	gnl\|CDD\|224255
NC_012658.1\|WP_003361949.1\|2381451_2381901_-\|Lrp/AsnC-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224439
NC_012658.1\|WP_012720422.1\|2396446_2397766_+\|APC-family-permease	unknown	unknown	gnl\|CDD\|223605
NC_012658.1\|WP_012720846.1\|2389423_2389876_+\|staygreen-family-protein	unknown	unknown	gnl\|CDD\|378897
NC_012658.1\|WP_039774258.1\|2391828_2393220_-\|amidohydrolase	unknown	unknown	gnl\|CDD\|238623
NC_012658.1\|WP_003361947.1\|2379092_2379998_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	cmr1gr7	COG1367_cmr1gr7_CAS-III-B	gnl\|CDD\|273859
NC_012658.1\|WP_012720921.1\|2390571_2391603_-\|alpha/beta-hydrolase	unknown	unknown	gnl\|CDD\|369561
NC_012658.1\|WP_003361945.1\|2376068_2377202_-\|type-III-B-CRISPR-module-associated-protein-Cmr3	cmr3gr5	pfam09700_cmr3gr5_CAS-III-B	gnl\|CDD\|187879
NC_012658.1\|WP_003361952.1\|2384011_2385505_+\|PLP-dependent-aminotransferase-family-protein	unknown	unknown	gnl\|CDD\|224089
NC_012658.1\|WP_079994795.1\|2388806_2389190_+\|MerR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|133398
NC_012658.1\|WP_012720893.1\|2395207_2396107_+\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_003361943.1\|2374621_2376076_-\|hypothetical-protein	csx1	mkCas0085_csx1_CAS-III	unknown
NC_012658.1\|WP_003361950.1\|2382039_2382456_+\|carboxymuconolactone-decarboxylase-family-protein	unknown	unknown	gnl\|CDD\|225039
NC_012658.1\|WP_012720949.1\|2377203_2379108_-\|type-III-B-CRISPR-associated-protein-Cas10/Cmr2	cas10	cd09679_cas10_CAS-III	gnl\|CDD\|187810
NC_012658.1\|WP_012721174.1\|2389957_2390404_-\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|238045
NC_012658.1\|WP_012721288.1\|2387309_2388773_+\|lipase	unknown	unknown	gnl\|CDD\|335313
NC_012658.1\|WP_003361948.1\|2380059_2380749_-\|CRISPR-associated-endoribonuclease-Cas6	cas6	cd09652_cas6_CAS-I:CAS-III	gnl\|CDD\|273848
NC_012658.1\|WP_003361951.1\|2382767_2383688_-\|PhzF-family-phenazine-biosynthesis-protein	unknown	unknown	gnl\|CDD\|223461

Protein	Function_ID	Function_description	E-value
NC_012658.1\|WP_012721240.1\|2398046_2398820_-\|2-hydroxyglutaryl-CoA-dehydratase	gnl\|CDD\|224835	COG1924, COG1924, Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism].	6.56628e-97
NC_012658.1\|WP_012720929.1\|2393426_2394770_-\|purine-permease	gnl\|CDD\|274468	TIGR03173, pbuX, xanthine permease. All the seed members of this model are observed adjacent to genes for either xanthine phosphoribosyltransferase (for the conversion of xanthine to guanine, GenProp0696) or genes for the conversion of xanthine to urate and its concomitant catabolism (GenProp0640, GenProp0688, GenProp0686 and GenProp0687). A number of sequences scoring higher than trusted to this model are found in different genomic contexts, and the possibility exist that these transport related compounds in addition to or instead of xanthine itself. The outgroup to this family are sequences which are characterized as uracil permeases or are adjacent to established uracil phosphoribosyltransferases.	7.8635e-137
NC_012658.1\|WP_003361942.1\|2373727_2374606_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr4	gnl\|CDD\|224255	COG1336, COG1336, CRISPR system related protein, RAMP superfamily [Defense mechanisms].	2.08006e-62
NC_012658.1\|WP_003361949.1\|2381451_2381901_-\|Lrp/AsnC-family-transcriptional-regulator	gnl\|CDD\|224439	COG1522, Lrp, Transcriptional regulators [Transcription].	5.40648e-37
NC_012658.1\|WP_012720422.1\|2396446_2397766_+\|APC-family-permease	gnl\|CDD\|223605	COG0531, PotE, Amino acid transporters [Amino acid transport and metabolism].	6.55607e-27
NC_012658.1\|WP_012720846.1\|2389423_2389876_+\|staygreen-family-protein	gnl\|CDD\|378897	pfam12638, Staygreen, Staygreen protein. This family of proteins have been implicated in chlorophyll degradation. Intriguingly members of this family are also found in non-photosynthetic bacteria.	2.63863e-82
NC_012658.1\|WP_039774258.1\|2391828_2393220_-\|amidohydrolase	gnl\|CDD\|238623	cd01298, ATZ_TRZ_like, TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are catalyzed by atrazine chlorohydrolase (AtzA), hydroxyatrazine ethylaminohydrolase (AtzB), and N-isopropylammelide N-isopropylaminohydrolase (AtzC). All three enzymes belong to the superfamily of metal dependent hydrolases. AtzA and AtzB, beside other related enzymes are represented in this CD.	0
NC_012658.1\|WP_003361947.1\|2379092_2379998_-\|type-III-B-CRISPR-module-RAMP-protein-Cmr1	gnl\|CDD\|273859	TIGR01894, hypothetical_protein, CRISPR type III-B/RAMP module RAMP protein Cmr1. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model represents the region of stongest conservation, the N-terminal half, of one such family, represented by TM1795 from Thermotoga maritima. This protein is the first of a set of six genes, mostly from the RAMP superfamily, that we designated the CRISPR-associated RAMP module.	8.65634e-11
NC_012658.1\|WP_012720921.1\|2390571_2391603_-\|alpha/beta-hydrolase	gnl\|CDD\|369561	pfam07859, Abhydrolase_3, alpha/beta hydrolase fold. This catalytic domain is found in a very wide range of enzymes.	2.64395e-90
NC_012658.1\|WP_003361945.1\|2376068_2377202_-\|type-III-B-CRISPR-module-associated-protein-Cmr3	gnl\|CDD\|187879	cd09748, Cmr3_III-B, CRISPR/Cas system-associated RAMP superfamily protein Cmr3. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein; This protein is a subunit of Cmr complex.	8.45426e-42
NC_012658.1\|WP_003361952.1\|2384011_2385505_+\|PLP-dependent-aminotransferase-family-protein	gnl\|CDD\|224089	COG1167, ARO8, Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism].	3.39048e-120
NC_012658.1\|WP_079994795.1\|2388806_2389190_+\|MerR-family-transcriptional-regulator	gnl\|CDD\|133398	cd04770, HTH_HMRTR, Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.	2.7281e-33
NC_012658.1\|WP_003361950.1\|2382039_2382456_+\|carboxymuconolactone-decarboxylase-family-protein	gnl\|CDD\|225039	COG2128, COG2128, Uncharacterized conserved protein [Function unknown].	2.24554e-13
NC_012658.1\|WP_012720949.1\|2377203_2379108_-\|type-III-B-CRISPR-associated-protein-Cas10/Cmr2	gnl\|CDD\|187810	cd09679, Cas10_III, CRISPR/Cas system-associated protein Cas10. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Multidomain protein with permuted HD nuclease domain, palm domain and Zn-ribbon; MTH326-like has inactivated polymerase catalytic domain; alr1562 and slr7011 - predicted only on the basis of size, presence of HD domain, and location with RAMPs in one operon; signature gene for type III; also known as Crm2 family.	2.25306e-31
NC_012658.1\|WP_012721174.1\|2389957_2390404_-\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|238045	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.	2.10952e-15
NC_012658.1\|WP_012721288.1\|2387309_2388773_+\|lipase	gnl\|CDD\|335313	pfam03403, PAF-AH_p_II, Platelet-activating factor acetylhydrolase, isoform II. Platelet-activating factor acetylhydrolase (PAF-AH) is a subfamily of phospholipases A2, responsible for inactivation of platelet-activating factor through cleavage of an acetyl group. Three known PAF-AHs are the brain heterotrimeric PAF-AH Ib, whose catalytic beta and gamma subunits are aligned in pfam02266, the extracellular, plasma PAF-AH (pPAF-AH), and the intracellular PAF-AH isoform II (PAF-AH II). This family aligns pPAF-AH and PAF-AH II, whose similarity was previously noted.	1.11516e-17
NC_012658.1\|WP_003361948.1\|2380059_2380749_-\|CRISPR-associated-endoribonuclease-Cas6	gnl\|CDD\|273848	TIGR01877, CRISPR-associated_endoribonuclease_Cas6_1, CRISPR-associated endoribonuclease Cas6. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This broadly distributed, highly divergent Cas family is now characterized as an endoribonuclease that generates guide RNAs for host defense against phage and other invaders. The family contains a C-terminal motif GXGXXXXXGXG, where the each X between two Gly is hydrophobic and the spacer XXXXX contains (usually) one Arg or Lys. The seed alignment for the current version of this model has gappy columns removed. Members of this protein family are found associated with several different CRISPR/cas system subtypes, and consequently we designate this family Cas6.	5.07531e-21
NC_012658.1\|WP_003361951.1\|2382767_2383688_-\|PhzF-family-phenazine-biosynthesis-protein	gnl\|CDD\|223461	COG0384, COG0384, Predicted epimerase, PhzC/PhzF homolog [General function prediction only].	1.08111e-89

>NC_012658.1|WP_003361952.1|2384011_2385505_+|PLP-dependent-aminotransferase-family-protein
MNIKIDKTSLITITQQLVHYFSDRIMSGFIKAGQKLPSIRSLAKELGISPMTIIKAYNNLEQNGLVTTIQGKGTYVNERNSTVKSNNITEKDSFQWQMSVPDYLYRSQFRYNPNLSYSNDYYNLSVASLNHKLLPTKTILKDSLGLIQNDIKLLSQYPPAQGDYEFRNIMSQYLRLKEIATSPENILVTSGSQQGISLIASTFIGPGDIVVMETPTYPGAIDLFKCRGAVILTVPVDSEGMRTDILMNLCDKHSPKLIYTIPNFHNPTGYSMSSKRKAELLDIARYNDILIVEDDPWNEISYKREKIKSIKSMDTDGHVVYIKSLSKILGPSYRLAVIISESSILSRLIAAKANHDLGTSVLIQKTIINFIQSNKITYYIESLNKQLVKRRDKVISLLKSHAPSGMKWAIPEGGINIWVTLPKNFNVEKLLSYSITTKNISFLPGTICYPNEVEFNNLRICFTYLDEEFIEDTIIELCNLIKLLYTTKNITNYRPII
>NC_012658.1|WP_003361951.1|2382767_2383688_-|PhzF-family-phenazine-biosynthesis-protein
MRKFEYTLVDVFTNQVFGGNQLAVFKDAEKLSSEEMQSIARELNLSETTFVTDIGPNHKKLRIFTPKTELPMAGHPTIGTAFVLADEGAVETREGMNKLIFEEGVGEIAVSIHVEGGGIRSIEMEQPMPVFGQVFGDIRTAAELLSLDIADIDTTSPIQTVSTGVPFLYIPLKSLDVISKIKLRLDTWEKFFSVSEDTKHIFAFTRETLHAGSTIHSRMFAPAMGIAEDPATGGASGPLGAYLVEHGLVAHGYDGKYMIINEQGIEMGRPSFINITVSKTYNNFSEIKIGGTCVKFGAGLIELPTL
>NC_012658.1|WP_003361950.1|2382039_2382456_+|carboxymuconolactone-decarboxylase-family-protein
MARITFSQEGLTPFQQLLGHNKYIMGKWTSLEECFFNSNTFTHELKEEVRRTLAFNNGCQYCMSKGKPSNEITDSKILIATKIADIISKNQLIDNECFNRLKNEFSDNEVSELLALICFITASQKFGALLDLQPSCSI
>NC_012658.1|WP_003361949.1|2381451_2381901_-|Lrp/AsnC-family-transcriptional-regulator
MKLDEIDVLILQELQKDSRLSIRELSKRINLSPPSVTERVRRLEDDGVIEGYTIKINKKKLGLSIDCIVKVTMKNGQYEKFKIFIKEYKRSEWCYRIAGDGCFLVKLLVKSLNDIEEFINDISSYAITETIIAFSQVTINNSINKFLGE
>NC_012658.1|WP_003361948.1|2380059_2380749_-|CRISPR-associated-endoribonuclease-Cas6
MELWELIATVMLKKDIYFEDCGYIIGKNINKSMLLDKDLKEVHPKKQYKNYVFNSFYPIERDKFYKKDRLYIFNIRGLSKEFIDKIETCLCNLESNDFNVISTSKKEIKQRYIKELYTQTPLIITVDDKPWLQKDGDLDLFKQRLEDNLEKKYKSFFNEDIDVKDKFINSIEFKNRKPMHYNYKNGIKLLANKVSIQIEDNEEAQKVAFLARAVGLGEKNSAIGAGFCK
>NC_012658.1|WP_003361947.1|2379092_2379998_-|type-III-B-CRISPR-module-RAMP-protein-Cmr1
MVEGNSKIYRLKNITDLCSNNGLNNGLKKPEFRLTEIKSLMRFWWRALNFYTNASTMKKEEENIFGNSDTYKSPIIFKTESNGFKYDDGSHEVRKNNKPINCFKSGKIVEIKLSVYKRKINQKEYINKELYFYDNLLKISLILGGIGKRSRRGCGVFMLEENDKECNLKNQIKSYMENLNVNKYYEFSKENDKYLELVRKDEYRNKKFKYPYIEEIIISKEAVSEEYFYIKIKESIDATRNEKFQYKDYKCEKLACPVYVTCYGDSNELYPIIVKLYNTNQHETYDNYYKKFKEVILCSKE
>NC_012658.1|WP_012720949.1|2377203_2379108_-|type-III-B-CRISPR-associated-protein-Cas10/Cmr2
MQQRIILFSIGSIQNFIINSRKVSDLFNSSKILSKLISNGMEFIKIRGNGELLLPQLLDKNEGLPNYFIMKYESNKHLGKELEEYIRRNYIDMLMNGSIKTSLEKYKNQIERQLDTSLDIYWVEYDLEESFDLNDSHKYAQVYYEIYKYFEAVKNVKKFNNIWEEGKKCSICGSRNAIVVSSNNKKDPFGIQKIYKYQDFTEDSLFKLIEILKNEDINLSLDEIKKVKKTACNNHLESKDIDIKLKDNEMLCSVCLLKRIYEGEKIPSLAQITLSSWIENEKKSLKCNAYNKYKETIDELNKIDCNFDVYEFMYKENWDKILKNIKIEDLEKKKKELNENFGNLNNINLPKYYCMYRMDIDNLGEWMSGKYKTSNKNLYEYQIDLSQRIYKFFNKLRENYFQENSKSILVYAGGDDLLALIPIDEIFKLEQNVRACFKEEVQVEEYKNITYSKGIFVAHYKTPLGEITRVSKEELEKVKEKFKEKANDFDKEKNATVISIMTEGYSNRNVYFKNNLNGEQTVEFIFEELVNYFNKDGSTYFHEQLQSEFWNLDRNIDKGYQRDILINMFEVEQKRLMKRSILKNSIAEEKIDEVNKKLINFLEVNSSKELKIDFENYFNLFHIIRSLKQNMEVK
>NC_012658.1|WP_003361945.1|2376068_2377202_-|type-III-B-CRISPR-module-associated-protein-Cmr3
MNFDNIMQIKPNDNLFLGSGKNFSKGENTWLGTRMIPYPSVFYGAICSTMLVQNEDRRKKYIYNKDLDSDPRKYLSLGNVYLYNEEDDEVYMSAPLDLYLDEYEECHYAIIKKIKNNINCSEERMSHLFFNEIEGESQRVDDMFIKYRNFYNSYYNTNESIGIIKNSDIVTNSYKVGIERDKNYVAREKHLYRIDLTEFKKEKWSYLVEYNIKDSWWNEEIKNIKDGYLKLGGENKVCRFYTYDKNKKLMIYNNLYNQINDTEYVKMIITSPCIFEGNDYIPKFKNTEVIAASTGKPYDIGGFDMVLNIPKPMSKAVPEGSVYVLKNKDFNNTSLKEIRKIIDDEVLIDKTYKKQGFGMFELVPLDESQFEGEEIYE
>NC_012658.1|WP_003361943.1|2374621_2376076_-|hypothetical-protein
MSRKVKFDSIAICSTLNQMVNYVVIKEHKLHSNNVYNIRLADENEKFNHEEWDDNLKEIIVRNYNWEDINYHNYEIKEHRNIIDKLIEKFGSDSSEFGSYPLKEEKILWNITGGQRHFVMAITEYVYNHRPEDVIVYFEGDKEKMYYYAKNKNIQQEDILRNKDYNMTIPIALRLMGFAVSKREFNKVSEYYNFLISNNANEFREKCKLQSISKINDKKPEDLYEQLESELKWYKKFYDIYCNSKTLRKLLINSNKFTTDSTGKTKFDMIKEDIKAYIKEIDNEIKSKTNTNVNVNDVFNGKGFDTLKKSIGNHLNGKVFGYILEHMTLYKVLDVIKSNKRLLENIADIDTSVKIKYETDKSKDKLGLIDEFDILIVTKKGKVVMLECKSGGMSSDNAKSHNYSIYAVAGVYGAPILVCPIKDGDVGKKETFDTKVIVSGKKACKENTDVYEHVRSAKYAADKAKLNIFYIDRIAEDIKKIIKR
>NC_012658.1|WP_003361942.1|2373727_2374606_-|type-III-B-CRISPR-module-RAMP-protein-Cmr4
MFKGVNKILIKAITPVHAGVGRDLGLIDMPIQKEKHTGIPKIEGSTMKGSMRESYRLKKYKEKNNEDIVRKEVDKLFGPEDGHESAGIIGFTDAKLLFYPVITLDGIFAYVTCSYLLNRYFEDKALINNTEFNKKFKDLLEGECEILNNKCENVKNKIILDEYCFQETDKSSKVYEGLDLREFNLNSEKQVVVISDNDFIEIISLCREIVTRNKINPETGVVDKDTGSLFTEEYLPAESILYALVLQNGIQDKENLYDTYIENDLPNYAQIGGNATIGKGIVKITKLTESNN
>NC_012658.1|WP_012721288.1|2387309_2388773_+|lipase
MRMLEVILFLVILTTTGGILFVKPNRRLYIVFLLSVVLVMLLHGTINHFRIQMLPSYAVALVLVIVLIHRLIKSDSKHKSQSIPKSLLKKSFVSILVLIFIGTSAYLSFLLPVFTMPKPTGNYGIGTVSAHLTDESRAETLSTSPDDKREIMVNVWYPVDQKDIKGKTVEHYPSELGEAISLVFNIPKQLFTHLSQVPTHVVQGAKISTAESKYPVLLFSPGIRSTRFQSLTTIEELVSHGYIVVGLDHPYTSAKVTFPDGRSIFYKPDTKSMTASELYKHNIGNVGIRVADVSFLLDTLTKWNKKDPNALLQGKLDLERIGMFGHSYGGATTAEALAQDNRLKAGVSLEGGFWGSVSQKGLKQPFMYLMSGGTAASFDPSTIKKDKVFYKEFIPDLQSVINKSTNSTYYLTVDHFIHQSFTDISLMSPLLFAKSIDPVHNIDITRSYVRAFFDQYLKGTHSILLDGPSSKYPEVKFSDIYTKKRLN
>NC_012658.1|WP_079994795.1|2388806_2389190_+|MerR-family-transcriptional-regulator
MNKMTRGELARQTGISTSTIRYYEDSGILPAPKRIANGYRIYTDDYLVKIKFIKDAKSLGYSLKEIKEILQMLSQEMDGENLKGFVKNKICEIEERIKTLHSIQRMLTDLLNTSEEDIQNYLQSFRI
>NC_012658.1|WP_012720846.1|2389423_2389876_+|staygreen-family-protein
MSKLNPEKLSVEFRDVVTNTEPILGRRYTLTHSDITAELFLTIGSAYAYDKINATRDEVLGEWIGKQKNYLFHVYLHVDGNNPIVTGVRNHIFRRELPLALEAIRYGDRKFFSFHPKLDNSPIIVHFISSYPSFNRIEKWGTFSDYFLKK
>NC_012658.1|WP_012721174.1|2389957_2390404_-|helix-turn-helix-transcriptional-regulator
MSLGEKLLYLRKKAGLSQEDVAEKLSVSRQTVSKWETDQMVPELNKAKLLSQLYNVSYDYLISENYISGDVTGIEMIVDEIDWTGAWSKKYPILASYPGIKGINTYSEKISELYDSFKNDFGFNDTDTVLVLKDILYQKYKMEKKKTK
>NC_012658.1|WP_012720921.1|2390571_2391603_-|alpha/beta-hydrolase
MKKVIKVVSVILVILVISGFFIIKNLTETKNGKLNMYVAANLQLYKILNPKSPNSKSIEETRGALNKQSTRWSNKPIPFSNIKNLHIKMNNEKIPVRIYTPEKGSNFPIIIYSHGGFWIGGNVDTIDGVCRKLSQNTKAIVISVNYRLAPENPFPAGLNDVYNVLQWTYKNGKSINGDEKHIAVVGDSAGGNLSAAVSSMSRDKNGPPITCQVLIYPSTNIFKLNSKSWSHFSNSFNVSKEDMEKYISIYAPKKEDRKKPYASPLLSKDLRKLPDTLVVTAEIDPLRDEGEAYANKLKESGVKAEVTRYKGITHGFITMDKITNKADEALNQISLYIQKEFQK
>NC_012658.1|WP_039774258.1|2391828_2393220_-|amidohydrolase
MNQILIKNGYIITMDCSKKIFEKGDILVEDSKIIAIGNVESELIKSNVEIIDVNGKIIMPGLVNTHVHLSQQLARGLADDVDLLTWLRKRIWRYESNMDLEDSYISSLACCTELIRSGVTTFCEAGGQEVDGMGKAVEEAGLRGILCRSTMDCGDGLPLKWQETTEESLQKQVELLERWNGKGDGRIKYWFGLRTIFNTTDKLITKTKELADKYKVGIHMHVAEIEEEVRYAEATRGETTVQHLAKLGVLDKNFLAVHTVWLTEQEIDLFKLHNVKVSHNPGAAMKVVLGFAHIPEMLEKGINVSIGTDGAPSNNRMDMFDEMHLTSLIHKGRRLNPKVVPADEVLEMATMNGAKCALWEDEIGSLEVGKKADLIIINPKSIGSLPMHDPIGNIVYSMHSSDVESSMCNGKWLMKNKVLLTINEEDIIREAQEKATALVKKQVLSYQNVFKIERIIFKLAIIV
>NC_012658.1|WP_012720929.1|2393426_2394770_-|purine-permease
MKSTKDTNLIVGIDEKISLRYAFFLGLQHVFAMDLYIVPIILAGILSLDAQNTAYFIQMSFIAAGIATLIQTGLCMRLPIMQGPSYIPIGALAAIGSKLGLQAMVGSLIPGSLFLMILGYPLRFLSKIISKFIPHIVGGTVIIIVGISLMPVAMTNIFTAPGNLKINCILALISSALLVSCMMIGRKSNKFGKAVRLTSVMISLIGGTIAASLLGVVDFTPVTKAAWFSFPKLLPFGKPVFDLKAILTMLFIYAVILVETSGTWFAVSAVTGSELTDEGLNRGAVGEGIGCFVGALFGGTPMTGYSTNAGIIAVTGVGSRMAIIAGGIILVALGMLPKLMNVIACIPSAVVSGVFAVVCVIIAMNGFKSIQHEELDERNMLLIGLPILLALGTTVLPKDILNSLPSLANYIFSSGITVGALAAVILNILLPKAPVEVSKSQEYEEAV
>NC_012658.1|WP_012720893.1|2395207_2396107_+|hypothetical-protein
MSNKRNLQSIRSFYLCILIFNIVYSSIFHLNNKGFNIKLFGDLTMRSVVLFTLNSILFLCVVIAVEKKININEEIKTQVSMRIRPLYLVNIFFITYILVCIFLLKNLDVILSSFVMEIIYIGILILTKKIMTLELTDRQLQWQKACGYIDENCEKSSFLWRFKIWYSPHINVPFKNRWKRPSRLLYDLALVYGIIISKGTLFSLLLLILLFPDVLSWLEGLLGLQTSLTGICTGITEHHSKNSHVIYHKVYVTDYKNKREITFLVDGPLFIHENSNITVVHGTFSKRVLYIEGLNLDIR
>NC_012658.1|WP_012720422.1|2396446_2397766_+|APC-family-permease
MLEKKYGLWTTVSMVIGIVIGSGVFFKADNILIASGGNVKTALLAWLVGAISMIFGALVFAECANRFERSNGIVDYAEGMLSEKFAYLIGWFNGIIYYPAIAAVLAWAAGNYTAILFNKDGNFVWVMAAIYMIGIYILNYISPILSGKFQIASTAIKLVPLMLIAILGIFQGLNNGILIENFSKVSTIGDSGSGFAAAVLGAAFAYEGWIIATTINGEIKDAKNTLPKALVFGSLVIVIIYILYFLGIVGMIPTETILKQGDNTVNVAARTVFGNFGASILTIFIIVSCLGTLNGLILGGSRSFYSLAIRGQGIKPEAFSKLDSKTNIPTNSTIANFILICIYLVVWYMNFKGLFPNKMFVDISELPIALIYGIYIIIYIAYMMKMKDLSFIKRFVIPSLALMGALIVVYGGLSKPSVIIDLGISVFVFLSGLLFYNKK
>NC_012658.1|WP_012721240.1|2398046_2398820_-|2-hydroxyglutaryl-CoA-dehydratase
MYTMGLDIGSTTSKGVIIKDGEEIVASVLVPVGTGTSGPLKLIKELKEKSNLTEKDIEKTVVTGYGRIQYKDADKQISELSCHAKGVAFLIPGARTIIDIGGQDAKAMKLNDKGKLINFIMNDKCAAGTGRFLDVMAGVLETDVSKLGEISEKSTKEVSISSTCTVFAESEVISHLSANAKKEDIVAGIHTSVVRRVSTLAMRVGIEDQVVMVGGVARNKGIVKAMEKELGHDIKVPKLAQLTGALGAAIYAFEETK

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Crispr_ID: NC_012658_6

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012658_6

2495738-2495967

Orphan

III-B

Consensus_repeat	Method
ATTTAAATACATCTCATGTTATTGTTCAACAA	CRISPRCasFinder
AAAACAATTTAAATACATCTTATGTTATTGTTCAACAA	PILER-CR

3 spacers

The CRISPR arrays of NC_012658_6

>merge|NC_012658|6|2495738-2495967|CRISPRCasFinder,PILER-CR
TTAATGATACATCCTATGTTATTGTTAAATATTATCTATTATTTGTGGTAAGTGCAAACAAAAATTATTTAAATACATCTCATGTTATTGTTCAACAAGTCTTATATTTGATGCTATATTTAGCACACAACAATTTAAATACATCTTATGTTATTGTTCAACAAATTAAGCAAAAGAGAAAACAGTATTTCTATGTTTTTTTAAATACATCTCATGCCATTGTTCAACTA

>NC_012658|6|6|2495738-2495967|CRISPRCasFinder
TTAATGATACATCCTATGTTATTGTTAAATAT	TATCTATTATTTGTGGTAAGTGCAAACAAAAATT
ATTTAAATACATCTCATGTTATTGTTCAACAA	GTCTTATATTTGATGCTATATTTAGCACACAACA
ATTTAAATACATCTTATGTTATTGTTCAACAA	ATTAAGCAAAAGAGAAAACAGTATTTCTATGTTT
TTTTAAATACATCTCATGCCATTGTTCAACTA

>NC_012658|6|3|2495744-2495902|PILER-CR
ATACATCCTATGTTATTGTTAAATATTATCTATTATTTGTGGTAAG	TGCAAACAAAAATTATTTAAATACATC
TCATGTTATTGTTCAACAAGTCTTATATTTGATGCTATATTTAGCA	CACAACAATTTAAATACATCTTATGTTA
TTGTTCAACAAA

Protein	Signature genes	Signature genes Name	Protein_function
NC_012658.1\|WP_012721290.1\|2501281_2501428_-\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_012720771.1\|2498086_2499244_-\|DNA-protecting-protein-DprA	unknown	unknown	gnl\|CDD\|376794
NC_012658.1\|WP_012720891.1\|2495156_2495387_-\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_114621558.1\|2487484_2489620_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|274760
NC_012658.1\|WP_012720991.1\|2501430_2501766_-\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_012721237.1\|2495997_2496672_-\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_012721415.1\|2487126_2487477_+\|helix-turn-helix-transcriptional-regulator	unknown	unknown	gnl\|CDD\|238045
NC_012658.1\|WP_024931629.1\|2491959_2492472_-\|ImmA/IrrE-family-metallo-endopeptidase	unknown	unknown	gnl\|CDD\|225412
NC_012658.1\|WP_012721114.1\|2491180_2491381_-\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|224393
NC_012658.1\|WP_012720470.1\|2496930_2498094_-\|phosphoribosyltransferase	unknown	unknown	gnl\|CDD\|206754
NC_012658.1\|WP_012720710.1\|2500247_2500442_-\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_114621505.1\|2492908_2494858_-\|cell-wall-binding-repeat-containing-protein	unknown	unknown	gnl\|CDD\|225212
NC_012658.1\|WP_012720520.1\|2490834_2491002_-\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_012721382.1\|2491474_2491957_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|380217
NC_012658.1\|WP_012720628.1\|2500760_2501108_-\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_012720702.1\|2501770_2503642_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|271320
NC_012658.1\|WP_012720698.1\|2489820_2490051_-\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_012721088.1\|2499362_2500208_-\|N-acetylmuramoyl-L-alanine-amidase	unknown	unknown	gnl\|CDD\|119407
NC_012658.1\|WP_012720860.1\|2500458_2500713_-\|hemolysin-XhlA-family-protein	unknown	unknown	gnl\|CDD\|371241
NC_012658.1\|WP_012720811.1\|2490063_2490468_-\|hypothetical-protein	unknown	unknown	unknown

Protein	Function_ID	Function_description	E-value
NC_012658.1\|WP_012721382.1\|2491474_2491957_-\|hypothetical-protein	gnl\|CDD\|380217	NF033218, anchor_AmaP, alkaline shock response membrane anchor protein AmaP. The founding member of this family, AmaP (Asp23 membrane anchoring protein), is related to Asp23 through part of its length, but includes a highly hydrophobic N-terminal region that should make it an integral membrane protein. Asp23 (alkaline shock protein of 23 kDa), described in PMID:7864904, is a cytosolic protein in Staphylococcus aureus, strongly induced by a pH shift from 7 to 10, and also recruited to the membrane. AmaP appears to be the partner protein with an integral membrane segment and the ability to anchor Asp23 to the membrane. This model was built to identify full-length homologs of AmaP, while excluding Asp23. Some but not all members of this family score above the cutoffs of Pfam model version PF03780.11, but full-length homologs of Asp23 score considerably higher. Asp23 family members previously were known as DUF322.	0.00441366
NC_012658.1\|WP_012720771.1\|2498086_2499244_-\|DNA-protecting-protein-DprA	gnl\|CDD\|376794	pfam02481, DNA_processg_A, DNA recombination-mediator protein A. The SMF family, of DNA processing chain A, dprA, are a group of bacterial proteins. In H. pylori, dprA is required for natural chromosomal and plasmid transformation. It has now been shown that DprA is found to bind cooperatively to single-stranded DNA (ssDNA) and to interact with RecA. In the process, DprA-RecA-ssDNA filaments are produced and these filaments catalyze the homology-dependent formation of joint molecules. While the E.coli SSB protein limits access of RecA to ssDNA, DprA alleviates this barrier. It is proposed that DprA is a new member of the recombination-mediator protein family, dedicated to natural bacterial transformation.	6.91588e-77
NC_012658.1\|WP_114621558.1\|2487484_2489620_-\|hypothetical-protein	gnl\|CDD\|274760	TIGR03743, SXT_TraD, conjugative coupling factor TraD, SXT/TOL subfamily. Members of this protein family are the putative conjugative coupling factor, TraD (or TraG), rather distantly related to the well-characterized TraD of the F plasmid. Members are associated with conjugative-transposon-like mobile genetic elements of the class that includes SXT, an antibiotic resistance transfer element in some Vibrio cholerae strains. [Mobile and extrachromosomal element functions, Other].	0.0082727
NC_012658.1\|WP_012720860.1\|2500458_2500713_-\|hemolysin-XhlA-family-protein	gnl\|CDD\|371241	pfam10779, XhlA, Haemolysin XhlA. XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes. This family has had DUF1267, pfam06895, merged into it.	4.65511e-21
NC_012658.1\|WP_012720702.1\|2501770_2503642_-\|hypothetical-protein	gnl\|CDD\|271320	cd05819, NHL, NHL repeat unit of beta-propeller proteins. The NHL(NCL-1, HT2A and LIN-41)-repeat is found in multiple tandem copies, typically as 6 instances. It is about 40 residues long and resembles the WD repeat and other beta-propeller structures. The repeats have a catalytic activity in Peptidyl-glycine alpha-amidating monooxygenase; proteolysis has shown that the Peptidyl-alpha-hydroxyglycine alpha-amidating lyase (PAL) activity is localized to the repeats. Tripartite motif-containing protein 32 interacts with the activation domain of Tat. This interaction is mediated by the NHL repeats.	6.752e-09
NC_012658.1\|WP_012721415.1\|2487126_2487477_+\|helix-turn-helix-transcriptional-regulator	gnl\|CDD\|238045	cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.	2.40732e-06
NC_012658.1\|WP_012721088.1\|2499362_2500208_-\|N-acetylmuramoyl-L-alanine-amidase	gnl\|CDD\|119407	cd02696, MurNAc-LAA, N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino acids in certain cell wall glycopeptides. These proteins are Zn-dependent peptidases with highly conserved residues involved in cation co-ordination. MurNAc-LAA in this family is one of several peptidoglycan hydrolases (PGHs) found in bacterial and bacteriophage or prophage genomes that are involved in the degradation of the peptidoglycan. In Escherichia coli, there are five MurNAc-LAAs present: AmiA, AmiB, AmiC and AmiD that are periplasmic, and AmpD that is cytoplasmic. Three of these (AmiA, AmiB and AmiC) belong to this family, the other two (AmiD and AmpD) do not. E. coli AmiA, AmiB and AmiC play an important role in cleaving the septum to release daughter cells after cell division. In general, bacterial MurNAc-LAAs are members of the bacterial autolytic system and carry a signal peptide in their N-termini that allows their transport across the cytoplasmic membrane. However, the bacteriophage MurNAc-LAAs are endolysins since these phage-encoded enzymes break down bacterial peptidoglycan at the terminal stage of the phage reproduction cycle. As opposed to autolysins, almost all endolysins have no signal peptides and their translocation through the cytoplasmic membrane is thought to proceed with the help of phage-encoded holin proteins. The amidase catalytic module is fused to another functional module (cell wall binding module or CWBM) either at the N- or C-terminus, which is responsible for high affinity binding of the protein to the cell wall.	1.54642e-43
NC_012658.1\|WP_024931629.1\|2491959_2492472_-\|ImmA/IrrE-family-metallo-endopeptidase	gnl\|CDD\|225412	COG2856, COG2856, Predicted Zn peptidase [Amino acid transport and metabolism].	1.01875e-16
NC_012658.1\|WP_012721114.1\|2491180_2491381_-\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|224393	COG1476, COG1476, Predicted transcriptional regulators [Transcription].	8.61304e-11
NC_012658.1\|WP_012720470.1\|2496930_2498094_-\|phosphoribosyltransferase	gnl\|CDD\|206754	cd06223, PRTases_typeI, Phosphoribosyl transferase (PRT)-type I domain. Phosphoribosyl transferase (PRT) domain. The type I PRTases are identified by a conserved PRPP binding motif which features two adjacent acidic residues surrounded by one or more hydrophobic residue. PRTases catalyze the displacement of the alpha-1'-pyrophosphate of 5-phosphoribosyl-alpha1-pyrophosphate (PRPP) by a nitrogen-containing nucleophile. The reaction products are an alpha-1 substituted ribose-5'-phosphate and a free pyrophosphate (PP). PRPP, an activated form of ribose-5-phosphate, is a key metabolite connecting nucleotide synthesis and salvage pathways. The type I PRTase family includes a range of diverse phosphoribosyl transferase enzymes and regulatory proteins of the nucleotide synthesis and salvage pathways, including adenine phosphoribosyltransferase EC:2.4.2.7., hypoxanthine-guanine-xanthine phosphoribosyltransferase, hypoxanthine phosphoribosyltransferase EC:2.4.2.8., ribose-phosphate pyrophosphokinase EC:2.7.6.1., amidophosphoribosyltransferase EC:2.4.2.14., orotate phosphoribosyltransferase EC:2.4.2.10., uracil phosphoribosyltransferase EC:2.4.2.9., and xanthine-guanine phosphoribosyltransferase EC:2.4.2.22.	2.05492e-05
NC_012658.1\|WP_114621505.1\|2492908_2494858_-\|cell-wall-binding-repeat-containing-protein	gnl\|CDD\|225212	COG2333, ComEC, Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only].	4.427e-99

>NC_012658.1|WP_012720891.1|2495156_2495387_-|hypothetical-protein
MKKIVIGLLTALILGVNVSSAYAAESCPRCGATVGRGENHKCCDYLGHDFKPFHDFHGKLVCMACRNCGYTIPYNN
>NC_012658.1|WP_114621505.1|2492908_2494858_-|cell-wall-binding-repeat-containing-protein
MLLKKRINIITLFLALFLLVTNSNVYAKPNSKRLYGNSRYETSAAIVKDGWEKSEFAIIASGEGFADALSAAPLAKKLDAPIILTEGKNLNSNAKQQLQRLQVKNVIIVGGPGSISNNTENQIKNLGISTKRIYGASRYDTSLAVAKEIGLESGVVVTNGTGFADALSMAPIAANKQIPILLTPAEKLPDNTKAFLNSSAYNKSYVLGGSAVVSNNIQSTLKNPKRLFGQGRYDTNAAILNEFKNDVDLNNLFLAAGTNYPDALSASALAAKNNSPIILSDGTSINNNVMNFVKSNSAKFGEIIITGGTSVLNDVVVKSVEEGRNIGPVTVHYINVGQGDSILIQQDGHNMLIDAGTNASENTVVNYLKSKGVTKLDYVIGTHPHEDHIGGLDKVIDNFAVDKVIMPKVTHTTQTFKDVITSIQNKGLKITVPTVGDKYSLGVADFTILAPNNSSYSNLNNYSIVIKLKFGNRAFIFTGDAESLSEGEILAKQLDITGDVLKLGHHGSKTSTTQAFLNKVNPKYAVVSCGKNNSYKHPHQETLNKLKAKNIKVYRTDETGTITATSNGSSLSFNAKQGSYTGGDYVASKPKPKPDPKPDPKPVEQTVYITKTGKKFHRNGCRSLSKSKISISRSNAIKKGYSPCSVCKP
>NC_012658.1|WP_024931629.1|2491959_2492472_-|ImmA/IrrE-family-metallo-endopeptidase
MDKRYICDEVKRIKDIFGIIGTKVDPIDIANELNINVYEVDNLNAGEESVSGAIRKENNKIDIFINGADSNERKRFTIAHELGHYFLGHLDKNDKLVDLHRDYKHNPNIYEKEADEFAGCFLMDSDEVKDRFKKAKLIGLTDESAIALLARIFSVSRAAMYVRIRNLGLI
>NC_012658.1|WP_012721382.1|2491474_2491957_-|hypothetical-protein
MNKENSILVNNDTKEKSIENDSEELFDKLNIEGNDYRRISNTIKKEDNDLKITGDDMLLNAIANSFPQEQKLNENLKKKFSRVLLFLLSILIFSIVGIVLFMGTGKLKYNEWTIRLFITGVFIEIVGIIQIIVTSLFPKEDRKNYFDFLDKCTHHKHEKE
>NC_012658.1|WP_012721114.1|2491180_2491381_-|helix-turn-helix-domain-containing-protein
MVKNKLKEIRMREYLMDQKQFYTMLGISKSTYSQIENNKQQGNIETVLKIAKALSRPVEEIWFLED
>NC_012658.1|WP_012720520.1|2490834_2491002_-|hypothetical-protein
MAERLRVVLEFRKSDVKELKLYGELLKFSNPGAVVKDILKGTLPIKILYEEELKK
>NC_012658.1|WP_012720811.1|2490063_2490468_-|hypothetical-protein
MKICVIYSNTKVEDFKKKQRVKYNSNMELIAKHINTDNRLKKQAVFILGSLFYVQDIVSAAGDLGKIDKAGNTILGIVRKIGYWICIVGCIIDIIKSLMQGDTKSIAKIMMKYALAFAALYIFPWMLDLIKGIF
>NC_012658.1|WP_012720698.1|2489820_2490051_-|hypothetical-protein
MEWVQKFIERGQYNVPQDTFVFKNKLLDVLSTNAYWICMFVGIGGILAYLCGYKKGGKLTKFSVVIYWVVAALCSK
>NC_012658.1|WP_114621558.1|2487484_2489620_-|hypothetical-protein
MIDIQKNNVDFYFIIPERYLGLIREKITETWPKVTMEEVTQVKQFSQQAIKYQLNYSKEDALSLNVDKKTNEPLNSILNVLDIMQEGDRVGIFYNFIPVVQKGWRKEYKDTIDKIKENKLIDREKFNVKYIIKEGIILLVNLTQDLFDTIGEFVGAEKKKEAPTLAEIAVSSLMLEDKKKLSRNTVNKKDAIVLNTQMLILSESKDIKRQENNAVAVLEGYNTVSEDNELIYKKISKKNTFYVTDFKIAGVEENKLSTEECQNLLQLPGRDLLQQHSVIEKINTLETKVPEELRKGTKLIGINEYKGSKQNAYLTIDKDYKNLAVTVVGPTRSGKTSFMGNIASNSIDAGECVIVLDYIENCSLSEDIKKCIPHDKVLEINLYDYTKLQGLGYNEAVADSDNIFIKYESAKKQTSQLITLVNSINVSSSDFTPKMERYLTAASLVAFINNGAIKDVFKILQNHKFRKECIDTISENQSENLEEYVEYLRELDEWSKGTKDNPPQIIGTHSSYITGIIDRVQKLKSNTYMELMLKKDCGENINLLEEMEKNQAIFIKMPENMFSTPEERDIMTTYWLTKIWMCAQARAWKIKDRYSRKTVTVFTDEIAQLKGSEQFIGNKLDQTAKFGVKFILSTMYINQLRIREKLRTANTSYILISGSDKVNYIELKDELNQFGYELEDLMNLKRFHSLNYIKYQNGYWAGITKLPPPIK
>NC_012658.1|WP_012721415.1|2487126_2487477_+|helix-turn-helix-transcriptional-regulator
MDLALKLGLTEKQGRYLIKDYETRGLCPPRELSIKLAKLFNIGTKYFYDEYYEFLDMNYPNIIKDYRIKNNLSKTKFGELIGTTYETITRWENGKNISRQYYKKLNKLIQLTTKEP
>NC_012658.1|WP_012721237.1|2495997_2496672_-|hypothetical-protein
MREPDFTFIKNNIYKVNHFPIGDIDISKLIDGVIIVSNKLCNMFSTSLTVVPIVLKSNIKKIYDIEPYCEKNEIIKDLLSIHSVHVKIQLNSQTEYIALCDLTALASTLSLGDRIGECPEYACKQLEIALSIQFGLLSNKKIGLINRFLSLIKKINIEKENSDYNTKQKLNMILIQVYNKYSSYCAYLNLPYEVLIRGNNEDEFMDNLIKEIMELDSIVQKSSS
>NC_012658.1|WP_012720470.1|2496930_2498094_-|phosphoribosyltransferase
MNKIIIISTEVFLDLDYDKKEKFNEIINKIIEEKNAICIVSKSLSKLDNAKKQIHNTSVYYRTRNEIKNIILKNKDKPHYFIVFGNRDRDFELAVNNKFLYLVPLWTKDNHAKCIKYGVHIKNIDIFYEVIRTINNQNKWYYKLDLDDGTKIYSLISAHTRKGNISSKEKELVQGFEDFLKKGDISYYEILLYHFLAAIANNPEFREVTTWAIMPSSGTDLNENMINFKEKARYCMKGMVPRNISQGLKINNLFLRHTRVVKSHMMSYDERISKGASRHLESIIINDAYLGGKLKGKTVCVFDDYLTNGNSFEAIRNLLKTQKVKKIIFVSLGRFMRPYYYQNYSISGDVFSKGYSFKLKNGRMIDYGEYDDNARREVENLHDIFNL
>NC_012658.1|WP_012720771.1|2498086_2499244_-|DNA-protecting-protein-DprA
MEKTIYIALQLMGINNKVLTDIIKLIPNKELKQIFRGNVVEFQYKYNIDFSRYLKLFNDSTLIENSLNKAKNILKINKELRIRTVLINSRFYPGNLKKMDNAPAILYIKGKNITKLDEKAVACVGTRTPTIFGIKAANSIVGSLAKENFSIISGLALGIDAESHKACLNVGGRTIAILAHGLDMIYPRENIELSKSILNNGGTLISEYPVGTKPDKFRFVDRNRIVSGLSKGTIVFETKEKSGTMHTVDYTLKQQKKVFCPIPLKQELQTSGLIKLLNENKAIGIKTKDNYDVIVHELGYKIKYDTKAIIKNKSENINKLITLDNNILNDIVSTDFDKRASFGIEKELYSKFKNILKENNLTSKEFFYGVIKKVVGDYKKGGKNE
>NC_012658.1|WP_012721088.1|2499362_2500208_-|N-acetylmuramoyl-L-alanine-amidase
MKIGIDCGHTLSGADYGAVGIKAESNLTREVGTKVISKLQTLGHTVIKCYKDTCSSLNDSLSYRTNTANNNNVDLYVSIHFNCYNGNAYGTEVLTYGGKSFTEASRVLNNICALGYTNRGIKDGSGLYVLKHTKAKAMLIECCFCDNAGDMNKFNADNMANAIIKGLVGKTASTTSNSEPSTSKPVQTNKKHPLINQLYAEMSRQGFNTLPTCRQGARGNITKIIQQMLINIGYPVGSFGADGVFGSGTVVAVKSFQRDCNLGADGIVGRETWKVLFRNLK
>NC_012658.1|WP_012720710.1|2500247_2500442_-|hypothetical-protein
MKFLEQFLQIKKIIALLTTIVFCILSTKGSLSSTEFLSVFTLIIGFYFGQSSARQAVKESKEQE
>NC_012658.1|WP_012720860.1|2500458_2500713_-|hemolysin-XhlA-family-protein
MELKVCEEKHKRIEEKINVHDIRLNNHSERIDKIEQNQSRTDAKIENLCDQLKQLVSIMKWYVGLTVGALVSFFFYAIQHNLFK
>NC_012658.1|WP_012720628.1|2500760_2501108_-|hypothetical-protein
MKREIVLNIFWILLLMIGIVIAFTISRKPYETLIFLFSYESLVYMLIKGIENNIYSNKTRKILILEPCDEDELLQYRLNTKLKNLNKQGFTVADVKIIPIKKFTKVFYKAYIIYY
>NC_012658.1|WP_012721290.1|2501281_2501428_-|hypothetical-protein
MNFWKMAFDIGAIGVDLLKQAVKCDSNPFGEITPEEFKTICNEDFVTQ
>NC_012658.1|WP_012720991.1|2501430_2501766_-|hypothetical-protein
MKYLFYEKETNEKARVTLIYNVQPPANMLQAGNYITVENLKQEYGVYCNPITGEIWYEDTDDNLEEQVKLITENLAQEKINNMKKDALAIDLTKEVASLKIEVMNLKKGGN
>NC_012658.1|WP_012720702.1|2501770_2503642_-|hypothetical-protein
MEKSGFFNAMKVGDTWDRVYKAETYAEYFASFIGNGVFPNPSTNLQVIGTDKMQVIVKPGKGWINGYKYENTDDLILPIDVADGVLHRIDKIVLRYDVVEREIRAKIKKGEFASEPKAPQLTRDADMYELGLADIKVNAGSISITQVDITDLRLNKEVCGIVHGTIDQVDTTTIFNQYLEWYKNITGKTEQELQNIKGNLETDFNIWFNGVKNILSGDVAGNLLNLINKNKDSIDSVQDNIDILEKSTASQLADITTDEDRLTENKTITGAINELFTFASNGKIKIATAITGKGVQASGSDSFDTLSNKITSIKVGDCNFGDVFPVSKIELVNKQPQIWNFIGHSSKVNAIAVDKSGYIYSGSDDNTFKEINSNGQQVLSFNPDNTPVKKIAVDKNGYIYIATNKSVIKMDKQGNIFWSYNFPYINSLTVDSAGYVYAASTSAICINPNGEKEWITSSGDTINAIAVTGNGNVYTGKQNQSSSLKKIVGEPKWYNTYYNADYIATDAMEGDYSSIYVASCLNVKEIRDHGDHADTGWTTKISNYPDYAMYFVSTLKLYNNRIYIGTKESVVKLDKQGNILWRFNTDNVRVNAIAVDGNENMYIGSDDNTVKKLIDGVAIISRS

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Crispr_ID: NC_012658_7

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_012658_7

2694233-2694430

Orphan

Consensus_repeat	Method
TGTATCTGTTCCTGGATN	CRT

4 spacers

The CRISPR arrays of NC_012658_7

>merge|NC_012658|7|2694233-2694430|CRT
AGGAGTAGTTCCTGGATCCTTACCTGTGTCTGTTCCTGGATCCTTACCTGTATCTGTTCCTGGATCTGTTCCTGGATCCTTACCTGTATCTGTTCCTGGATCTTTACCTGTATCTGTTCCTGGGTCCTTACCTGTGTCTTTTCCTGGATTCTTACCTGTGTCTTTTCCTGAATCCTTATCTGTATCTGTATCTGGTTT

>NC_012658|7|2|2694233-2694430|CRT
AGGAGTAGTTCCTGGATC	CTTACCTGTGTCTGTTCCTGGATCCTTACC
TGTATCTGTTCCTGGATC	TGTTCCTGGATCCTTACC
TGTATCTGTTCCTGGATC	TTTACCTGTATCTGTTCCTGGGTCCTTACC
TGTGTCTTTTCCTGGATT	CTTACCTGTGTCTTTTCCTGAATCCTTATC
TGTATCTGTATCTGGTTT

Protein	Signature genes	Signature genes Name	Protein_function
NC_012658.1\|WP_003395976.1\|2690824_2691016_+\|50S-ribosomal-protein-L28	unknown	unknown	gnl\|CDD\|234736
NC_012658.1\|WP_004441458.1\|2685609_2686167_-\|16S-rRNA-(guanine(966)-N(2))-methyltransferase-RsmD	unknown	unknown	gnl\|CDD\|367574
NC_012658.1\|WP_004441470.1\|2691064_2691184_-\|stage-V-sporulation-protein-SpoVM	unknown	unknown	unknown
NC_012658.1\|WP_012721446.1\|2701779_2703987_-\|primosomal-protein-N'	unknown	unknown	gnl\|CDD\|235514
NC_012658.1\|WP_012720841.1\|2700350_2701292_-\|methionyl-tRNA-formyltransferase	unknown	unknown	gnl\|CDD\|234567
NC_012658.1\|WP_012720582.1\|2688634_2690260_-\|DAK2-domain-containing-protein	unknown	unknown	gnl\|CDD\|274671
NC_012658.1\|WP_012720536.1\|2704324_2705512_-\|bifunctional-phosphopantothenoylcysteine-decarboxylase/phosphopantothenate--cysteine-ligase-CoaBC	unknown	unknown	gnl\|CDD\|235513
NC_012658.1\|WP_012720773.1\|2697967_2699296_-\|16S-rRNA-(cytosine(967)-C(5))-methyltransferase-RsmB	unknown	unknown	gnl\|CDD\|237857
NC_012658.1\|WP_003402155.1\|2691261_2691417_-\|hypothetical-protein	unknown	unknown	unknown
NC_012658.1\|WP_003388622.1\|2705513_2705732_-\|DNA-directed-RNA-polymerase-subunit-omega	unknown	unknown	gnl\|CDD\|234744
NC_012658.1\|WP_033063178.1\|2699316_2700000_-\|zinc-metallopeptidase	unknown	unknown	gnl\|CDD\|377289
NC_012658.1\|WP_003388624.1\|2705712_2706342_-\|guanylate-kinase	unknown	unknown	gnl\|CDD\|234719
NC_012658.1\|WP_003388610.1\|2696159_2696909_-\|Stp1/IreP-family-PP2C-type-Ser/Thr-phosphatase	unknown	unknown	gnl\|CDD\|223704
NC_012658.1\|WP_004441479.1\|2693138_2694017_-\|ribosome-small-subunit-dependent-GTPase-A	unknown	unknown	gnl\|CDD\|234631
NC_012658.1\|WP_004441495.1\|2701308_2701752_-\|peptide-deformylase	unknown	unknown	gnl\|CDD\|234668
NC_012658.1\|WP_004441476.1\|2692494_2693145_-\|ribulose-phosphate-3-epimerase	unknown	unknown	gnl\|CDD\|235515
NC_012658.1\|WP_004441484.1\|2696927_2697956_-\|23S-rRNA-(adenine(2503)-C(2))-methyltransferase-RlmN	unknown	unknown	gnl\|CDD\|184686
NC_012658.1\|WP_003395974.1\|2690274_2690625_-\|Asp23/Gls24-family-envelope-stress-response-protein	unknown	unknown	gnl\|CDD\|377129
NC_012658.1\|WP_004441462.1\|2686427_2688467_-\|ATP-dependent-DNA-helicase-RecG	unknown	unknown	gnl\|CDD\|236794
NC_012658.1\|WP_004441474.1\|2691848_2692493_-\|thiamine-diphosphokinase	unknown	unknown	gnl\|CDD\|153431

Protein	Function_ID	Function_description	E-value
NC_012658.1\|WP_003395976.1\|2690824_2691016_+\|50S-ribosomal-protein-L28	gnl\|CDD\|234736	PRK00359, rpmB, 50S ribosomal protein L28; Reviewed.	6.42225e-21
NC_012658.1\|WP_004441458.1\|2685609_2686167_-\|16S-rRNA-(guanine(966)-N(2))-methyltransferase-RsmD	gnl\|CDD\|367574	pfam03602, Cons_hypoth95, Conserved hypothetical protein 95.	4.87056e-76
NC_012658.1\|WP_004441495.1\|2701308_2701752_-\|peptide-deformylase	gnl\|CDD\|234668	PRK00150, def, peptide deformylase; Reviewed.	1.80568e-73
NC_012658.1\|WP_012721446.1\|2701779_2703987_-\|primosomal-protein-N'	gnl\|CDD\|235514	PRK05580, PRK05580, primosome assembly protein PriA; Validated.	0
NC_012658.1\|WP_012720841.1\|2700350_2701292_-\|methionyl-tRNA-formyltransferase	gnl\|CDD\|234567	PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed.	0
NC_012658.1\|WP_012720582.1\|2688634_2690260_-\|DAK2-domain-containing-protein	gnl\|CDD\|274671	TIGR03599, YloV, DAK2 domain fusion protein YloV. This model describes a protein family that contains an N-terminal DAK2 domain (pfam02734), so named because of similarity to the dihydroxyacetone kinase family family. The GTP-binding protein CgtA (a member of the obg family) is a bacterial GTPase associated with ribosome biogenesis, and it has a characteristic extension (TIGR03595) in certain lineages. This protein family described here was found, by the method of partial phylognetic profiling, to have a phylogenetic distribution strongly correlated to that of TIGR03595. This correlation implies some form of functional coupling.	0
NC_012658.1\|WP_012720773.1\|2697967_2699296_-\|16S-rRNA-(cytosine(967)-C(5))-methyltransferase-RsmB	gnl\|CDD\|237857	PRK14902, PRK14902, 16S rRNA (cytosine(967)-C(5))-methyltransferase RsmB.	0
NC_012658.1\|WP_012720536.1\|2704324_2705512_-\|bifunctional-phosphopantothenoylcysteine-decarboxylase/phosphopantothenate--cysteine-ligase-CoaBC	gnl\|CDD\|235513	PRK05579, PRK05579, bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated.	0
NC_012658.1\|WP_003388622.1\|2705513_2705732_-\|DNA-directed-RNA-polymerase-subunit-omega	gnl\|CDD\|234744	PRK00392, rpoZ, DNA-directed RNA polymerase subunit omega; Reviewed.	9.27471e-23
NC_012658.1\|WP_033063178.1\|2699316_2700000_-\|zinc-metallopeptidase	gnl\|CDD\|377289	pfam04298, Zn_peptidase_2, Putative neutral zinc metallopeptidase. Zinc metallopeptidase zinc binding regions have been predicted in some family members by a pattern match (Prosite:PS00142), of the characteristic HEXXH motif.	2.77231e-122
NC_012658.1\|WP_003388624.1\|2705712_2706342_-\|guanylate-kinase	gnl\|CDD\|234719	PRK00300, gmk, guanylate kinase; Provisional.	2.54104e-113
NC_012658.1\|WP_003388610.1\|2696159_2696909_-\|Stp1/IreP-family-PP2C-type-Ser/Thr-phosphatase	gnl\|CDD\|223704	COG0631, PTC1, Serine/threonine protein phosphatase [Signal transduction mechanisms].	2.4485e-71
NC_012658.1\|WP_004441479.1\|2693138_2694017_-\|ribosome-small-subunit-dependent-GTPase-A	gnl\|CDD\|234631	PRK00098, PRK00098, GTPase RsgA; Reviewed.	1.21434e-156
NC_012658.1\|WP_004441476.1\|2692494_2693145_-\|ribulose-phosphate-3-epimerase	gnl\|CDD\|235515	PRK05581, PRK05581, ribulose-phosphate 3-epimerase; Validated.	1.57742e-124
NC_012658.1\|WP_004441484.1\|2696927_2697956_-\|23S-rRNA-(adenine(2503)-C(2))-methyltransferase-RlmN	gnl\|CDD\|184686	PRK14454, PRK14454, 23S rRNA (adenine(2503)-C(2))-methyltransferase RlmN.	0
NC_012658.1\|WP_003395974.1\|2690274_2690625_-\|Asp23/Gls24-family-envelope-stress-response-protein	gnl\|CDD\|377129	pfam03780, Asp23, Asp23 family, cell envelope-related function. The alkaline shock protein Asp23 was identified as an alkaline shock protein that was expressed in a sigmaB-dependent manner in Staphylococcus aureus. Following an alkaline shock Asp23 accumulates in the soluble protein fraction of the S. aureus cell. Asp23 is one of the most abundant proteins in the cytosolic protein fraction of stationary S. aureus cells, with a copy-number of >25000 per cell. A second Asp23-family protein, AmaP, which is encoded within the asp23-operon, is required to localize Asp23 to the cell membrane. The overall function for the family is thus a cell envelope-related one in Gram-positive bacteria.	1.93076e-35
NC_012658.1\|WP_004441462.1\|2686427_2688467_-\|ATP-dependent-DNA-helicase-RecG	gnl\|CDD\|236794	PRK10917, PRK10917, ATP-dependent DNA helicase RecG; Provisional.	0
NC_012658.1\|WP_004441474.1\|2691848_2692493_-\|thiamine-diphosphokinase	gnl\|CDD\|153431	cd07995, TPK, Thiamine pyrophosphokinase. Thiamine pyrophosphokinase (TPK, EC:2.7.6.2, also spelled thiamin pyrophosphokinase) catalyzes the transfer of a pyrophosphate group from ATP to vitamin B1 (thiamine) to form the coenzyme thiamine pyrophosphate (TPP). TPP is required for central metabolic functions, and thiamine deficiency is associated with potentially fatal human diseases. The structure of thiamine pyrophosphokinase suggests that the enzyme may operate by a mechanism of pyrophosphoryl transfer similar to those described for pyrophosphokinases functioning in nucleotide biosynthesis.	1.43729e-76

>NC_012658.1|WP_004441479.1|2693138_2694017_-|ribosome-small-subunit-dependent-GTPase-A
MKGTIIKGIGGFYYIKIDNSEEIIECKARGKFRHTELTPMIGDYVEISIDKNNKGAIEKIYERRSELFRPAVANVTQALVVFSFKNPDINIDLLNKFLLLCEYNNLKVIVCFNKMDLVNKEDYKDIISMIEQAGYDIIFLNAKEERNMDIIKKLIKDNVTVFCGPSGVGKSTMLNKIIGKETMITGNISEKLKRGKHTTRHSELIYVDEGLLVDTPGFSSLDINFMEKEDLLYCIPEFRDFIGECKFTGCLHHREPNCAVKKAVEEGHIHKNRYDFYIKTLEEIMNRRKKKW
>NC_012658.1|WP_004441476.1|2692494_2693145_-|ribulose-phosphate-3-epimerase
MVKIAPSILSADFSKLGEDIKNLDKYGADVIHIDVMDGRFVPNISFGIPIIKSIRNLTDKPFDVHLMIEEPSKYIEDFAKAGADIISVHYEADKHIDRTINYIKSLGIKAAVALNPGTSVSCIKDLIPSLDMVLIMSVNPGFGGQKYIQYASEKIKEVKALSEKNNKDLIIEVDGGITKDNIKEIANCGADLLVAGSAVFKNGEIEKNIKVLREAL
>NC_012658.1|WP_004441474.1|2691848_2692493_-|thiamine-diphosphokinase
MKAIVIGGGEAPSKELLKQEMKDSSYIICADSGANCLYKYDIIPDFILGDMDSIDKKALSYFKEKGVCMDKYPKDKDFTDGLVALNKAIELKADTIVLLGCIGNRIDHILGNLGLLEICLKNNIKAYIKDENNEIFLTDKDISLKPRKSKYFSLQAYGPNVEGVTLFNAKFPLENYTLKMGDTLTTSNEFTDKELHVHIKSGTLIVIISKDSDG
>NC_012658.1|WP_003402155.1|2691261_2691417_-|hypothetical-protein
MGRKSNKKLGIIVGSIGLGIVVTIIVPIWGWLLAVGFGLIYIGWWIINRCR
>NC_012658.1|WP_004441470.1|2691064_2691184_-|stage-V-sporulation-protein-SpoVM
MIKHIKELIYVEVCYMKIVAIKLPRFLSNIIKKIKRVKK
>NC_012658.1|WP_003395976.1|2690824_2691016_+|50S-ribosomal-protein-L28
MSRKCEICGKGVVYGVQYSHSHRQSKRSFAPNIKRVKAIVNGTPKRVHVCTRCLRSGKVQRAI
>NC_012658.1|WP_003395974.1|2690274_2690625_-|Asp23/Gls24-family-envelope-stress-response-protein
MIGKLTNEYGHIDYAEDVVANIVGVSTMECYGVVGMASKNATDGLWELIKGESFNKGVKIRAVEGKLNIELYIIVEYGTKISVIANNIIQKIRYNIENYTGLKVSSITVNVQGVRV
>NC_012658.1|WP_012720582.1|2688634_2690260_-|DAK2-domain-containing-protein
MEHMKIKGADFYNMVINGSNKLEEKKEFVNSLNVFPVPDGDTGTNMSMTFRSAVKEIEGLKEESIGGIAKKVAKGALMGARGNSGVILSQIFRGISKGLEDKDEVDAREFANALLEGSKSAYKAVMRPTEGTILTIIRAAGESAVKSEAEDVTSLLKEVCEHSKVVLNKTPDMLPVLKKAKVVDAGGQGLLIILQGMLEVLDKDLEVEIGGENKASDPNTKIEQYEQDIEFGYCTEFFVMAENVDVDKFKGQLESLGDSMIVVAADGLVKVHIHTNDPGDILSKAIKLGPLSKIKIDNMREQHKHIIDMNSEENKVEKEESELKKYGFISVALGEGITEIFKDLGVDEVIEGGQTMNPSTEDIVKAINKINAENIFILPNNKNIIMAATQAAELSEKNIIVIPTKTIPQGITSITMFNPEAESKENENNMKEAIKAVATGSITYAVRDTEMDGKIIKENDILGLIEGKISEVGKDIFEVSKAVLEEMIDEDSELISIFYGKDCDEEKIEEFIEELEEKYEDLDIQCYNGKQPLYYFIMSVE
>NC_012658.1|WP_004441462.1|2686427_2688467_-|ATP-dependent-DNA-helicase-RecG
MNVYSPITTLKGVGPKTKEQLEKCMIFNIMDLLLYFPRDYEFIDNYSKDKLLSKKVIIKVQVENIKRDIRTRTGKILTTIIFNDGEKAIVGSWFNQPYIKNYFKIGEEYVLQGSLKEYRGNLTINNAQILKNKCAEEVEERKIIPKYPLKGDLKNNLLIKLVDSVLTNIDIGENLPIWLIEKYKFLSLDKSIRTIHKPENQKELEESIRRLKFQELLAYCLKIAFLKEYLETATEGISFIVSEEINNLIEVLPFKLTNAQNKVLQEIFKDQEKEKPMNRLLQGDVGSGKTIIALISLFNVIKNGYQGVMLAPTEILAVQHYEEALKLFKDFNLNIELLIGSIKVSSKKEIKEKLKEGKIDLIIGTHALIEDDVEFYNLGMVITDEQHRFGVMQRSKMLNKGKSVDTLVMSATPIPRSLTLSLYGDLDLSIIDELPPGRQKIDTYYVNDSYRKRVYNFALKEINNGRQVYIVCPLVEEKEELDLNSVEKLYNDLKEEYFKEVEIAILHGKMKGKEKDTIMKDFKEGKIKALISTTVIEVGVNVPNATLMVIENAERFGLAQLHQLRGRVGRGKHKSYCILIAKVKNDIIRKRMEIMKSSNDGFLVAEEDLKLRGGGEIFGFKQHGSSNLLLADVIEDIHLLRIANMESKKIIDSNNEEDNKIKEEVKIKIKNNSKFICFN
>NC_012658.1|WP_004441458.1|2685609_2686167_-|16S-rRNA-(guanine(966)-N(2))-methyltransferase-RsmD
MRIISGSARGRKILSPQSSVTRPTLDRIKESIFNIIQNQVYGSRVLDVFAGTGSLGLEAASRGAKFSYLVDKSPETYPLLRENIKNLKFEDLCKSFNMDAYSALEEFASKSIVFDLIFIDPPYAKEMIPPAMESIDKKKLLDKEGLIVTKIDSSEEIYGGTERIKLFDHRKYGNTTVCFYKFKED
>NC_012658.1|WP_003388610.1|2696159_2696909_-|Stp1/IreP-family-PP2C-type-Ser/Thr-phosphatase
MLGILSDIGNVREINEDFVDYYQGDRFKIYIVADGMGGHNAGEVASKLAVEETIDYIRYYEDLKDMKTLLIDAIEYANTKIYNYAKEKEKFKGMGTTITCCILDNNGNMIVANVGDSSCYILAEGGVKKITKDHSYVQQLLDEGTITKEEANTHPNKNVITRALGTNLSVKVDTFNIKLDEVCKVLLSTDGLTNYVDEQEMCDILLRNGKNNEETCKQLVELSKLKGGKDNISVILFEGECEYDRNQIR
>NC_012658.1|WP_004441484.1|2696927_2697956_-|23S-rRNA-(adenine(2503)-C(2))-methyltransferase-RlmN
MENILDFTLEELKEWLISKEEKGFRAKQVFDWIYNKLIFDFNNMKNIPYKTKNLLSDNFYIGVPKVVKKLMSQDKNTYKFLFEYKDGNVIESVVMKYKHGNSICVSTQVGCRMGCKFCASTLDGVIRNLTSGEILSQIMAAQKEIGERISNVVLMGSGEPLDNFKNVTKFLDLVTSDTTLNIGQRHITLSTCGIVPKIKELADKNYNITLAISLHSPEDLLRKEMMPIANKYSIKELMEACDYYINKTNRRITFEYALVKGKNDSIKEAKKLSTVLKGKLCHVNLIPVNEIKENSYEKSTSKNIESFGNILKENGIETTIRREMGADINAACGQLRRSYVSK
>NC_012658.1|WP_012720773.1|2697967_2699296_-|16S-rRNA-(cytosine(967)-C(5))-methyltransferase-RsmB
MDNAREVALDVLKAVLFEGAYSNIVLSKKLNKSNLKDNDKALITEIVYGTLKYKETLDIIIQSYLRNPIKTMDKNIINILRITIYQIRYLDKIPSFAAVNEAVEMSKKISIKYSKLVNGVLRNYIRTYKNKKFYDHRNNLEKFSFMYSYPKWLIKMFISQYGIEIAEKILKGLNERPNITVRVNNLKIDYDEAFEKLGEYGYNIEEGYICPEAIQIIKGKNIEKNPLFIEGNITVQDESAMLVAPSMELDEESIVLDLCSAPGGKTTHISEIMNNKSKVYAYDIHQNKLSLIESNAKRLGIKNIETDVGDAAVFNKKLKEKAHRVLMDVPCSGLGIIRKKPEIKWTKNEREIKNIIDIQRKIMNNGASYLKEGGILLYSTCTLNKEENEENINWFLKKHKNFKIEPLYYGDVDNIIYHKEGFVSILPNDKMDGFFIAKLKKC
>NC_012658.1|WP_033063178.1|2699316_2700000_-|zinc-metallopeptidase
MFYYDSTFLILIPAMLIAAWAQLKVSSSFDRYSRVSTAKGYTGAQVARMLLDSKGLYNVPVELIPGKLSDHYDPSKRVMRLSKDVYYGNSVASIGVAAHETGHAIQHLESYSPLVIRNTIVPIVNISSQASWILFFIGILMGASSLTRIGIILFSAVVLFQLITLPVEFDASKRALVLLENKGILYKEEVNGAKKVLSAAAMTYIAAALTAILQLVRLIVLSNRRND
>NC_012658.1|WP_012720841.1|2700350_2701292_-|methionyl-tRNA-formyltransferase
MKDTTIVFMGTPDFAVPSLKKIIEKFNVKAVFTQPDRPKGRGKKLAMSAVKEVALQNNIEVYQPIKLKNDEICIKKLKEINPDFIIVVAFGQILSKEVLDIPKYGCINLHASLLPKYRGAAPINWAIIKGEKESGNTTMFMDEGLDTGDMLLKNTVKIEDDMTFGELHDILMETGSELLVDTIKGLKEGTIKREKQKSENIIYASMLNKQMGKIDWNKTSKEINLLIRGLNPRPVAYTQYKNETMKIYNSSILKESSNKTPGTILKVSKGGIKVATGDGILSITTVQFPGKKPMKVEEYIKGHTIEEGLVLGE
>NC_012658.1|WP_004441495.1|2701308_2701752_-|peptide-deformylase
MAIRNIRKYGDELLRKKSRKIEKIDDRILTLLEDMVETMYSAEGVGLAAPQVGILKRAVVIDVGEGLIKLINPEIIETEGNQKDVEGCLSVPGEQGEVERPYKVKVKALNEKGEEIVLEGEGLLARAFCHEIDHLDGVLFVDKVIDK
>NC_012658.1|WP_012721446.1|2701779_2703987_-|primosomal-protein-N'
MFKYAGIIVNNSSIKLDKLFTYAIPEELNEKIKIGHRVKVPFGKGNKKIDGFILELYENYEDEDKVYIKSISNICEENPLLDLNRVKLVEQMKERYLCTYLEAIKVLVPPGITKGNKEKKENFIFIYKNLEGKYLKENYEQIYDFVKLNDGVYNKNILNKKFGFSLSSINTLIKHGFLIQENQVVNRYNEKIYRNYEEKILNRDQSLALYRILNSNRKLFLIHGVTGSGKTEIYMHLVKKLIEKDKDSIILVPEISLTPQMVERFKGRFGKVIAIFHSKLSNGERFDEWMRVKRGEVKVAIGARSAVFLPFKNLGAIIIDEEHESSYKSDSNPKYNARDIAELRCMNEGCKVILGSATPSLETYYRSKNKIIDLITIKERIEGASMPEVKIVDMREELMSGNKSIFSRELFEDISTRLEKKEQIILFLNRRGFSTFVSCRECGYVFKCKNCDISLTYHNKDNSLRCHYCGASTRIPKQCPKCNSKYVKYFGAGTEKVEKAIKKCFPKVKTLRMDLDTTRTKDAYENIYNTFKNGEADILIGTQMIAKGLDFENVTLVGVLAADMSLNLPDYRSGERTFQLITQVSGRAGRGKKEGKVLIQSYNPENYSIASAAKSDYEGFYNKEIKIRKDMNYPPFSKILLINLSSKYENKLIKNTHKIGIILKNVLSKYDNLNMLGPCPSPLSKIKEMYRWQIILKGNVTGDIMKEIQKIVYTSLEQVYNDIRVSIDINPNSLL
>NC_012658.1|WP_012720536.1|2704324_2705512_-|bifunctional-phosphopantothenoylcysteine-decarboxylase/phosphopantothenate--cysteine-ligase-CoaBC
MNKKCVVLGVTGGIASYKALDIVSKLKKLNYDVNVIMTKSALQFIHPLPFQSLSGNMVSKDMFEEPKAFEIQHISLAKKADMILVAPATANIIGKVANGIADDMLSTTIMAATCPVVFVPAMNTNMYKNPIVKSNIEKLKGFGYEFINPISGRLACGDVGEGKMADTKDIVEIADSMLYPIKDLKGKNILVTAGPTLAPIDPVRYITNKSSGKMGYSIAKEARDRGAKVTLVSGPTNLKTPLGVDIIKINTNEEMLKAVKDNFEKQHIVIKSAAVADYRPKEYKEHKIKKTGNDLNLELMRDKDILKELGLIKKNQILVGFAAESKDLLDNAKSKLEKKNLDFIVANNILSKETGFASEDNLVTIISRDGHIKNLEKMSKREVAKEIFDTILNKK
>NC_012658.1|WP_003388622.1|2705513_2705732_-|DNA-directed-RNA-polymerase-subunit-omega
MSNSMINPSIVNLLEKVDDRYSLVTITSKRSRQLIDGAKPLVDIDSTKPVTVAINEIHEGKITYKTVKEGIK
>NC_012658.1|WP_003388624.1|2705712_2706342_-|guanylate-kinase
MAKKGLLIVISGPSGAGKGTICKELLKKEDLWVSVSATTRSPRKGEENGVHYFFLNKDEFNERIEKDDFLEYAKVHQNLYGTPKSSVLEKINNGNNVILEIDIQGALKVKETYPEGIFIFILPPSMEELKNRIINRGSETAETLMIRFKAAYKEINYVSKYNYAVVNDTVEDAVNKVRSIILAESCRVDRMKDTILASKEEFIHEQFYD

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_012658_4	4.4\|2386162\|36\|NC_012658\|CRT,PILER-CR,CRISPRCasFinder	2386162-2386197	36	NZ_CP013848	Clostridium botulinum strain Af650 plasmid pRSJ14_1, complete sequence	35434-35469	0	1.0
NC_012658_4	4.7\|2386357\|36\|NC_012658\|CRT,PILER-CR,CRISPRCasFinder	2386357-2386392	36	NZ_CP031100	Clostridium botulinum strain CFSAN034202 plasmid p1_CFSAN034202, complete sequence	46203-46238	0	1.0
NC_012658_4	4.7\|2386357\|36\|NC_012658\|CRT,PILER-CR,CRISPRCasFinder	2386357-2386392	36	NZ_CP014218	Clostridium botulinum strain B515 plasmid pRSJ21_3, complete sequence	44320-44355	0	1.0
NC_012658_4	4.7\|2386357\|36\|NC_012658\|CRT,PILER-CR,CRISPRCasFinder	2386357-2386392	36	NZ_CP014147	Clostridium botulinum strain CDC_67190 plasmid pNPD12_2, complete sequence	48629-48664	0	1.0
NC_012658_4	4.7\|2386357\|36\|NC_012658\|CRT,PILER-CR,CRISPRCasFinder	2386357-2386392	36	NZ_CP014173	Clostridium botulinum strain B609 plasmid pRSJ22_2, complete sequence	6782-6817	0	1.0
NC_012658_4	4.5\|2386228\|34\|NC_012658\|CRT,PILER-CR,CRISPRCasFinder	2386228-2386261	34	NZ_CP013848	Clostridium botulinum strain Af650 plasmid pRSJ14_1, complete sequence	28507-28540	4	0.882
NC_012658_4	4.1\|2385965\|35\|NC_012658\|CRT	2385965-2385999	35	NC_018878	Bacillus thuringiensis Bt407 plasmid BTB_502p, complete sequence	455251-455285	6	0.829
NC_012658_6	6.4\|2495790\|27\|NC_012658\|PILER-CR	2495790-2495816	27	CP013001	Bacillus thuringiensis strain XL6 plasmid, complete sequence	4074-4100	6	0.778
NC_012658_6	6.4\|2495790\|27\|NC_012658\|PILER-CR	2495790-2495816	27	CP013001	Bacillus thuringiensis strain XL6 plasmid, complete sequence	389932-389958	6	0.778
NC_012658_6	6.4\|2495790\|27\|NC_012658\|PILER-CR	2495790-2495816	27	MN693159	Marine virus AFVG_25M303, complete genome	22985-23011	6	0.778
NC_012658_4	4.4\|2386162\|36\|NC_012658\|CRT,PILER-CR,CRISPRCasFinder	2386162-2386197	36	NC_013518	Sebaldella termitidis ATCC 33386 plasmid pSTERM01, complete sequence	9720-9755	7	0.806
NC_012658_4	4.4\|2386162\|36\|NC_012658\|CRT,PILER-CR,CRISPRCasFinder	2386162-2386197	36	MN018232	Synechococcus phage S-B43, complete genome	200689-200724	7	0.806
NC_012658_7	7.4\|2694383\|30\|NC_012658\|CRT	2694383-2694412	30	NZ_CP024313	Rhizobium sp. NXC24 plasmid pRspNXC24b, complete sequence	195455-195484	7	0.767
NC_012658_4	4.3\|2386096\|36\|NC_012658\|CRT,PILER-CR,CRISPRCasFinder	2386096-2386131	36	MH622943	Myoviridae sp. isolate ctbc_4, complete genome	251748-251783	8	0.778
NC_012658_7	7.1\|2694251\|30\|NC_012658\|CRT	2694251-2694280	30	MN694192	Marine virus AFVG_250M638, complete genome	19448-19477	8	0.733
NC_012658_4	4.3\|2386096\|36\|NC_012658\|CRT,PILER-CR,CRISPRCasFinder	2386096-2386131	36	NZ_CP013041	Clostridium perfringens strain JP55 plasmid pJFP55F, complete sequence	14400-14435	10	0.722
NC_012658_5	5.1\|2386705\|35\|NC_012658\|CRISPRCasFinder	2386705-2386739	35	AP014446	Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C43-MedDCM-OCT-S31-C62, * SEQUENCING IN PROGRESS *, 3 ordered pieces	11123-11157	10	0.714
NC_012658_5	5.1\|2386705\|35\|NC_012658\|CRISPRCasFinder	2386705-2386739	35	NC_018855	Enterobacteria phage HX01, complete genome	88045-88079	10	0.714
NC_012658_5	5.1\|2386705\|35\|NC_012658\|CRISPRCasFinder	2386705-2386739	35	KR422352	Escherichia phage APCEc01, complete genome	167720-167754	10	0.714
NC_012658_5	5.3\|2386706\|35\|NC_012658\|PILER-CR	2386706-2386740	35	AP014446	Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C43-MedDCM-OCT-S31-C62, * SEQUENCING IN PROGRESS *, 3 ordered pieces	11123-11157	10	0.714
NC_012658_5	5.3\|2386706\|35\|NC_012658\|PILER-CR	2386706-2386740	35	NC_018855	Enterobacteria phage HX01, complete genome	88045-88079	10	0.714
NC_012658_5	5.3\|2386706\|35\|NC_012658\|PILER-CR	2386706-2386740	35	KR422352	Escherichia phage APCEc01, complete genome	167720-167754	10	0.714
NC_012658_6	6.1\|2495770\|34\|NC_012658\|CRISPRCasFinder	2495770-2495803	34	JN882287	Cronobacter phage vB_CsaM_GAP161, complete genome	11770-11803	10	0.706
NC_012658_5	5.1\|2386705\|35\|NC_012658\|CRISPRCasFinder	2386705-2386739	35	AP013442	Uncultured Mediterranean phage uvMED DNA, complete genome, group G17, isolate: uvMED-CGR-C22-MedDCM-OCT-S36-C18	6041-6075	11	0.686
NC_012658_5	5.3\|2386706\|35\|NC_012658\|PILER-CR	2386706-2386740	35	AP013442	Uncultured Mediterranean phage uvMED DNA, complete genome, group G17, isolate: uvMED-CGR-C22-MedDCM-OCT-S36-C18	6041-6075	11	0.686

1. spacer 4.4|2386162|36|NC_012658|CRT,PILER-CR,CRISPRCasFinder matches to NZ_CP013848 (Clostridium botulinum strain Af650 plasmid pRSJ14_1, complete sequence) position: , mismatch: 0, identity: 1.0

actattcttctcttttttttattaatctttttactt	CRISPR spacer
actattcttctcttttttttattaatctttttactt	Protospacer
************************************

2. spacer 4.7|2386357|36|NC_012658|CRT,PILER-CR,CRISPRCasFinder matches to NZ_CP031100 (Clostridium botulinum strain CFSAN034202 plasmid p1_CFSAN034202, complete sequence) position: , mismatch: 0, identity: 1.0

tattaataatgcaaatataatgcaaaatacattaac	CRISPR spacer
tattaataatgcaaatataatgcaaaatacattaac	Protospacer
************************************

3. spacer 4.7|2386357|36|NC_012658|CRT,PILER-CR,CRISPRCasFinder matches to NZ_CP014218 (Clostridium botulinum strain B515 plasmid pRSJ21_3, complete sequence) position: , mismatch: 0, identity: 1.0

tattaataatgcaaatataatgcaaaatacattaac	CRISPR spacer
tattaataatgcaaatataatgcaaaatacattaac	Protospacer
************************************

4. spacer 4.7|2386357|36|NC_012658|CRT,PILER-CR,CRISPRCasFinder matches to NZ_CP014147 (Clostridium botulinum strain CDC_67190 plasmid pNPD12_2, complete sequence) position: , mismatch: 0, identity: 1.0

tattaataatgcaaatataatgcaaaatacattaac	CRISPR spacer
tattaataatgcaaatataatgcaaaatacattaac	Protospacer
************************************

5. spacer 4.7|2386357|36|NC_012658|CRT,PILER-CR,CRISPRCasFinder matches to NZ_CP014173 (Clostridium botulinum strain B609 plasmid pRSJ22_2, complete sequence) position: , mismatch: 0, identity: 1.0

tattaataatgcaaatataatgcaaaatacattaac	CRISPR spacer
tattaataatgcaaatataatgcaaaatacattaac	Protospacer
************************************

6. spacer 4.5|2386228|34|NC_012658|CRT,PILER-CR,CRISPRCasFinder matches to NZ_CP013848 (Clostridium botulinum strain Af650 plasmid pRSJ14_1, complete sequence) position: , mismatch: 4, identity: 0.882

aagaagaaattataggtgcatatgatcctaacac	CRISPR spacer
agaaagaaattataggtgcatatgaccctaatac	Protospacer
*..**********************.*****.**

7. spacer 4.1|2385965|35|NC_012658|CRT matches to NC_018878 (Bacillus thuringiensis Bt407 plasmid BTB_502p, complete sequence) position: , mismatch: 6, identity: 0.829

aggtataggaactcccgctacaagaggagaatagt-	CRISPR spacer
aggtattggaacgcccgctacaagaggcg-gtattg	Protospacer
****** ***** ************** * .** *

8. spacer 6.4|2495790|27|NC_012658|PILER-CR matches to CP013001 (Bacillus thuringiensis strain XL6 plasmid, complete sequence) position: , mismatch: 6, identity: 0.778

aaatattatctattatttgtggtaagt	CRISPR spacer
aaatattatctattatttgtattcccc	Protospacer
********************. *   .

9. spacer 6.4|2495790|27|NC_012658|PILER-CR matches to CP013001 (Bacillus thuringiensis strain XL6 plasmid, complete sequence) position: , mismatch: 6, identity: 0.778

aaatattatctattatttgtggtaagt	CRISPR spacer
aaatattatctattatttgtattcccc	Protospacer
********************. *   .

10. spacer 6.4|2495790|27|NC_012658|PILER-CR matches to MN693159 (Marine virus AFVG_25M303, complete genome) position: , mismatch: 6, identity: 0.778

aaatattatctattatttgtggtaagt	CRISPR spacer
ctattttatctattatgtgtggtaaac	Protospacer
  ** *********** ********..

11. spacer 4.4|2386162|36|NC_012658|CRT,PILER-CR,CRISPRCasFinder matches to NC_013518 (Sebaldella termitidis ATCC 33386 plasmid pSTERM01, complete sequence) position: , mismatch: 7, identity: 0.806

actattcttctcttttttttattaatctttttactt	CRISPR spacer
aaaccgcttctcttttttttataaatcttttttctt	Protospacer
*   . **************** ********* ***

12. spacer 4.4|2386162|36|NC_012658|CRT,PILER-CR,CRISPRCasFinder matches to MN018232 (Synechococcus phage S-B43, complete genome) position: , mismatch: 7, identity: 0.806

actattcttctcttttttttattaatctttttactt	CRISPR spacer
tttattcttctcatttttttattactctttttgtat	Protospacer
 .********** *********** *******.. *

13. spacer 7.4|2694383|30|NC_012658|CRT matches to NZ_CP024313 (Rhizobium sp. NXC24 plasmid pRspNXC24b, complete sequence) position: , mismatch: 7, identity: 0.767

cttacctgtgtcttttcctgaatccttatc	CRISPR spacer
cttacctgtgtcttttcccgagcgcttgag	Protospacer
******************.**.. ***.

14. spacer 4.3|2386096|36|NC_012658|CRT,PILER-CR,CRISPRCasFinder matches to MH622943 (Myoviridae sp. isolate ctbc_4, complete genome) position: , mismatch: 8, identity: 0.778

ggaagaaacagaaaaaatatttaataagattaaaga	CRISPR spacer
tgataacgaagaaaaaattattaataagattaaaga	Protospacer
 ** .* . *********  ****************

15. spacer 7.1|2694251|30|NC_012658|CRT matches to MN694192 (Marine virus AFVG_250M638, complete genome) position: , mismatch: 8, identity: 0.733

cttacctgtgtctgttcctggatccttacc	CRISPR spacer
accagtagcgtctgttcctgcatccttacc	Protospacer
 ..* . *.*********** *********

16. spacer 4.3|2386096|36|NC_012658|CRT,PILER-CR,CRISPRCasFinder matches to NZ_CP013041 (Clostridium perfringens strain JP55 plasmid pJFP55F, complete sequence) position: , mismatch: 10, identity: 0.722

ggaagaaacagaaaaaatatttaataagattaaaga	CRISPR spacer
atctttaactgaaaaaatatttaataagaataagaa	Protospacer
.     *** ******************* ***..*

17. spacer 5.1|2386705|35|NC_012658|CRISPRCasFinder matches to AP014446 (Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C43-MedDCM-OCT-S31-C62, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces) position: , mismatch: 10, identity: 0.714

aatactaaatatgcttcatatttttcattttttta	CRISPR spacer
caattaaaatatgtttaatatttttcattttatct	Protospacer
 *  . *******.** ************** *.

18. spacer 5.1|2386705|35|NC_012658|CRISPRCasFinder matches to NC_018855 (Enterobacteria phage HX01, complete genome) position: , mismatch: 10, identity: 0.714

aatactaaatatgcttcatatttttcattttttta	CRISPR spacer
cacggtaaagatgcctcatatttttcatttcggaa	Protospacer
 *.. **** ****.***************.   *

19. spacer 5.1|2386705|35|NC_012658|CRISPRCasFinder matches to KR422352 (Escherichia phage APCEc01, complete genome) position: , mismatch: 10, identity: 0.714

aatactaaatatgcttcatatttttcattttttta	CRISPR spacer
cacggtaaagatgcctcatatttttcatttcggaa	Protospacer
 *.. **** ****.***************.   *

20. spacer 5.3|2386706|35|NC_012658|PILER-CR matches to AP014446 (Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C43-MedDCM-OCT-S31-C62, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces) position: , mismatch: 10, identity: 0.714

aatactaaatatgcttcatatttttcattttttta	CRISPR spacer
caattaaaatatgtttaatatttttcattttatct	Protospacer
 *  . *******.** ************** *.

21. spacer 5.3|2386706|35|NC_012658|PILER-CR matches to NC_018855 (Enterobacteria phage HX01, complete genome) position: , mismatch: 10, identity: 0.714

aatactaaatatgcttcatatttttcattttttta	CRISPR spacer
cacggtaaagatgcctcatatttttcatttcggaa	Protospacer
 *.. **** ****.***************.   *

22. spacer 5.3|2386706|35|NC_012658|PILER-CR matches to KR422352 (Escherichia phage APCEc01, complete genome) position: , mismatch: 10, identity: 0.714

aatactaaatatgcttcatatttttcattttttta	CRISPR spacer
cacggtaaagatgcctcatatttttcatttcggaa	Protospacer
 *.. **** ****.***************.   *

23. spacer 6.1|2495770|34|NC_012658|CRISPRCasFinder matches to JN882287 (Cronobacter phage vB_CsaM_GAP161, complete genome) position: , mismatch: 10, identity: 0.706

tatctattatttgtggtaagtgcaaacaaaaatt	CRISPR spacer
cccctgtgatttgtggtaagtgcaaaccggaaga	Protospacer
. .**.* ******************* ..**

24. spacer 5.1|2386705|35|NC_012658|CRISPRCasFinder matches to AP013442 (Uncultured Mediterranean phage uvMED DNA, complete genome, group G17, isolate: uvMED-CGR-C22-MedDCM-OCT-S36-C18) position: , mismatch: 11, identity: 0.686

aatactaaatatgcttcatatttttcattttttta	CRISPR spacer
gctctaccatatggttcatatctttcattttttgt	Protospacer
. * .   ***** *******.***********

25. spacer 5.3|2386706|35|NC_012658|PILER-CR matches to AP013442 (Uncultured Mediterranean phage uvMED DNA, complete genome, group G17, isolate: uvMED-CGR-C22-MedDCM-OCT-S36-C18) position: , mismatch: 11, identity: 0.686

aatactaaatatgcttcatatttttcattttttta	CRISPR spacer
gctctaccatatggttcatatctttcattttttgt	Protospacer
. * .   ***** *******.***********

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

1391509 : 1437653

Clostridium_phage(75.68%)

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

attL 1403733:1403753|attR 1437874:1437894

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_004442306.1\|1391509_1393228_+	ABC transporter ATP-binding protein	W8CYL7	Bacillus_phage	1.4e-63	32.9
WP_004442305.1\|1393519_1394314_+\|protease	CPBP family intramembrane metalloprotease	NA	NA	NA	NA
WP_004442303.1\|1394477_1394834_+	NifB/NifX family molybdenum-iron cluster-binding protein	NA	NA	NA	NA
WP_012720543.1\|1395264_1396158_+	DegV family protein	A0A0N9SI50	Staphylococcus_phage	8.2e-12	29.9
WP_004442299.1\|1396194_1396659_-	pyridoxamine 5'-phosphate oxidase family protein	NA	NA	NA	NA
WP_012720621.1\|1396793_1397861_-\|integrase	site-specific integrase	A0A2R2ZGM9	Clostridioides_phage	2.6e-20	30.2
WP_012720844.1\|1397873_1398335_-	membrane protein	A0A0A7RVV2	Clostridium_phage	4.2e-44	57.5
WP_012721116.1\|1398353_1398764_-	helix-turn-helix transcriptional regulator	A0A0A7RTK4	Clostridium_phage	5.1e-17	72.3
WP_012721118.1\|1398975_1399197_+	helix-turn-helix domain-containing protein	A0A0A7RTI3	Clostridium_phage	3.2e-26	85.5
WP_012721326.1\|1399220_1399511_+	histidine kinase	NA	NA	NA	NA
WP_012720774.1\|1399522_1400290_+	ORF6C domain-containing protein	A0A288WG93	Bacillus_phage	2.0e-59	50.4
WP_012720625.1\|1400303_1400480_+	hypothetical protein	NA	NA	NA	NA
WP_012720950.1\|1400468_1400960_-	DUF2321 domain-containing protein	NA	NA	NA	NA
WP_012721398.1\|1401024_1401285_+	hypothetical protein	NA	NA	NA	NA
WP_012720542.1\|1401286_1401469_+	hypothetical protein	NA	NA	NA	NA
WP_012720834.1\|1401485_1401755_+	hypothetical protein	NA	NA	NA	NA
WP_012720833.1\|1401850_1402690_+	phage replisome organizer N-terminal domain-containing protein	A0A1S5SFJ6	Streptococcus_phage	1.4e-45	61.9
WP_114621520.1\|1402631_1403393_+	ATP-binding protein	M9Q1J4	Clostridium_phage	3.9e-55	48.6
WP_012720481.1\|1403407_1403719_+	hypothetical protein	NA	NA	NA	NA
WP_012720652.1\|1403721_1404342_+	DUF5052 family protein	A0A1S5RCR2	Lactobacillus_phage	1.8e-42	44.0
1403733:1403753	attL	NA	NA	NA	NA
WP_012047618.1\|1404402_1404714_+	hypothetical protein	NA	NA	NA	NA
WP_012047619.1\|1404767_1404932_+	hypothetical protein	NA	NA	NA	NA
WP_012047620.1\|1404948_1405221_+	hypothetical protein	NA	NA	NA	NA
WP_012721112.1\|1405279_1405489_+	hypothetical protein	NA	NA	NA	NA
WP_012720541.1\|1405531_1405681_+	hypothetical protein	NA	NA	NA	NA
WP_003362116.1\|1405787_1406594_+	site-specific DNA-methyltransferase	B4XYT3	Lactobacillus_phage	3.5e-102	70.6
WP_003359708.1\|1406661_1406925_+	hypothetical protein	NA	NA	NA	NA
WP_012721357.1\|1406968_1407118_+	hypothetical protein	NA	NA	NA	NA
WP_012720445.1\|1407152_1407305_+	hypothetical protein	NA	NA	NA	NA
WP_012720879.1\|1407360_1408176_+	hypothetical protein	NA	NA	NA	NA
WP_012720990.1\|1408213_1408408_+	hypothetical protein	NA	NA	NA	NA
WP_012721272.1\|1408421_1408625_+	hypothetical protein	NA	NA	NA	NA
WP_012721014.1\|1408651_1409701_+	nucleoid-associated protein	J9QE81	Clostridium_phage	1.5e-36	28.4
WP_012721209.1\|1409807_1410512_+	hypothetical protein	NA	NA	NA	NA
WP_012720840.1\|1410562_1410706_+	hypothetical protein	A0A0A7RTX2	Clostridium_phage	7.6e-05	48.8
WP_012721155.1\|1410708_1410870_+	hypothetical protein	NA	NA	NA	NA
WP_012721093.1\|1410866_1411256_+	nitroreductase	A0A0A7RTL7	Clostridium_phage	4.9e-46	64.6
WP_012721363.1\|1411478_1411694_+	hypothetical protein	NA	NA	NA	NA
WP_012720408.1\|1411695_1412241_+\|integrase	site-specific integrase	E2ELN7	Clostridium_phage	1.5e-56	60.7
WP_012720777.1\|1412388_1412694_+	HNH endonuclease	Q8W5V3	Listeria_phage	7.8e-23	49.5
WP_193345351.1\|1412918_1413359_+\|terminase	P27 family phage terminase small subunit	A0A1B1P762	Bacillus_phage	3.3e-14	45.3
WP_114621519.1\|1413339_1414977_+\|terminase	terminase large subunit	E2ELI2	Clostridium_phage	6.2e-167	53.8
WP_041173344.1\|1414991_1416152_+\|portal	phage portal protein	E2ELI3	Clostridium_phage	1.9e-133	60.6
WP_012720388.1\|1416126_1416780_+\|head,protease	HK97 family phage prohead protease	E2ELI4	Clostridium_phage	5.5e-82	69.0
WP_012721266.1\|1416783_1417935_+\|capsid	phage major capsid protein	E2ELI5	Clostridium_phage	3.9e-139	65.9
WP_012720429.1\|1417934_1418216_+	hypothetical protein	E2ELI6	Clostridium_phage	6.1e-14	48.8
WP_114621559.1\|1418230_1418569_+\|head	phage head closure protein	A0A0A7RVS7	Clostridium_phage	2.6e-27	62.1
WP_012720883.1\|1418588_1418999_+	XkdN protein	A0A0A7RTP2	Clostridium_phage	6.4e-20	41.4
WP_012721128.1\|1419246_1419504_+	hypothetical protein	NA	NA	NA	NA
WP_012721335.1\|1419549_1419960_+	HK97 gp10 family phage protein	NA	NA	NA	NA
WP_012720508.1\|1419956_1420388_+	hypothetical protein	J9QE32	Clostridium_phage	1.5e-14	36.4
WP_012720715.1\|1420393_1421455_+\|tail	phage tail sheath subtilisin-like domain-containing protein	A0A0A7S0D2	Clostridium_phage	3.0e-85	49.4
WP_012720485.1\|1421457_1421886_+\|tail	phage tail tube protein	A0A0A7RVT1	Clostridium_phage	3.5e-29	47.1
WP_012720843.1\|1421957_1424498_+\|tail	phage tail tape measure protein	A0A0A7RUN0	Clostridium_phage	1.4e-144	58.4
WP_012720645.1\|1424536_1424974_+	hypothetical protein	A0A0A7RTT3	Clostridium_phage	8.0e-45	60.4
WP_012721218.1\|1424970_1425963_+	hypothetical protein	A0A0A7RWY4	Clostridium_phage	2.7e-125	67.2
WP_012720966.1\|1425974_1426211_+	DUF2577 family protein	NA	NA	NA	NA
WP_012720759.1\|1426213_1426651_+	DUF2634 domain-containing protein	A0A0A7RUS1	Clostridium_phage	2.0e-40	56.8
WP_012721344.1\|1426643_1427708_+\|plate	baseplate J/gp47 family protein	A0A0A7RUN3	Clostridium_phage	1.9e-103	53.6
WP_012721104.1\|1427700_1428315_+	YmfQ family protein	A0A0A7RTT8	Clostridium_phage	2.7e-54	53.7
WP_012721106.1\|1429994_1430381_+	hypothetical protein	A0A0A7RTN0	Clostridium_phage	4.8e-09	75.0
WP_012720897.1\|1430373_1430496_+	XkdX family protein	A0A0A7S0E7	Clostridium_phage	1.4e-07	65.0
WP_012721127.1\|1430593_1430848_+	hemolysin XhlA family protein	NA	NA	NA	NA
WP_012720473.1\|1430861_1431056_+	hypothetical protein	NA	NA	NA	NA
WP_012721287.1\|1431095_1431926_+	glycosyl hydrolase	D9ZNF3	Clostridium_phage	9.8e-52	45.5
WP_012720916.1\|1432167_1433217_+	hypothetical protein	NA	NA	NA	NA
WP_012720678.1\|1433588_1433840_+	hypothetical protein	NA	NA	NA	NA
WP_012721426.1\|1434437_1434632_+	hypothetical protein	A0A0A7RTH9	Clostridium_phage	9.1e-17	82.1
WP_012721117.1\|1434616_1434862_+	hypothetical protein	NA	NA	NA	NA
WP_012721322.1\|1435007_1435988_+	hypothetical protein	NA	NA	NA	NA
WP_003402696.1\|1436441_1436657_+	hypothetical protein	NA	NA	NA	NA
WP_004442155.1\|1436694_1437123_+	HIT family protein	NA	NA	NA	NA
WP_004442152.1\|1437278_1437653_-\|holin	phage holin family protein	NA	NA	NA	NA
1437874:1437894	attR	NA	NA	NA	NA

DBSCAN-SWA_2

1809504 : 1853498

Clostridium_phage(74.51%)

tail,portal,terminase,integrase,head,plate

attL 1809429:1809446|attR 1853692:1853709

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1809429:1809446	attL	NA	NA	NA	NA
WP_012720803.1\|1809504_1810578_-\|integrase	site-specific integrase	A0A2R2ZGM9	Clostridioides_phage	4.4e-20	30.1
WP_012720639.1\|1810639_1811086_-	ImmA/IrrE family metallo-endopeptidase	Q0H245	Geobacillus_phage	2.2e-26	42.8
WP_012721406.1\|1811104_1811530_-	helix-turn-helix transcriptional regulator	D2XR39	Bacillus_phage	5.8e-32	58.7
WP_012721206.1\|1811757_1811961_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_012720973.1\|1811977_1812277_+	hypothetical protein	NA	NA	NA	NA
WP_012720713.1\|1812297_1813038_+	phage antirepressor Ant	A0A090D834	Clostridium_phage	3.4e-56	48.6
WP_012720482.1\|1813049_1813403_+	hypothetical protein	NA	NA	NA	NA
WP_012721227.1\|1813395_1813563_+	hypothetical protein	NA	NA	NA	NA
WP_041173325.1\|1813591_1813813_+	hypothetical protein	NA	NA	NA	NA
WP_012047600.1\|1814002_1814314_+	hypothetical protein	NA	NA	NA	NA
WP_012047601.1\|1814313_1814532_+	hypothetical protein	NA	NA	NA	NA
WP_012047603.1\|1814664_1815162_+	host-nuclease inhibitor Gam family protein	A0A0A7S0G6	Clostridium_phage	1.4e-37	51.9
WP_012047604.1\|1815161_1815710_+	ERF family protein	B6SBX8	Clostridium_virus	1.0e-52	63.5
WP_012047605.1\|1815711_1815996_+	hypothetical protein	NA	NA	NA	NA
WP_012721105.1\|1816006_1816900_+	phage replisome organizer N-terminal domain-containing protein	A0A0A7RTL4	Clostridium_phage	3.4e-58	58.6
WP_193345352.1\|1817036_1817600_+	ATP-binding protein	M9Q1J4	Clostridium_phage	2.9e-39	47.6
WP_012720701.1\|1817613_1817808_+	hypothetical protein	A0A0M3ULL3	Bacillus_phage	1.4e-06	56.6
WP_012047609.1\|1817820_1818123_+	hypothetical protein	NA	NA	NA	NA
WP_012047610.1\|1818188_1818908_+	hypothetical protein	A0A2H4J6H9	uncultured_Caudovirales_phage	1.2e-48	43.0
WP_193345349.1\|1818925_1819372_+	phage N-6-adenine-methyltransferase	A0A0A7RUD1	Clostridium_phage	4.0e-68	84.3
WP_012047612.1\|1819438_1819600_+	hypothetical protein	NA	NA	NA	NA
WP_003359708.1\|1819664_1819928_+	hypothetical protein	NA	NA	NA	NA
WP_012047614.1\|1819959_1820277_+	hypothetical protein	NA	NA	NA	NA
WP_012047615.1\|1820306_1820459_+	hypothetical protein	NA	NA	NA	NA
WP_012047616.1\|1820526_1820709_+	hypothetical protein	NA	NA	NA	NA
WP_012047617.1\|1820730_1821009_+	DUF4406 domain-containing protein	A0A088C4A2	Shewanella_sp._phage	3.1e-10	42.0
WP_012047618.1\|1821073_1821385_+	hypothetical protein	NA	NA	NA	NA
WP_012047619.1\|1821438_1821603_+	hypothetical protein	NA	NA	NA	NA
WP_012047620.1\|1821619_1821892_+	hypothetical protein	NA	NA	NA	NA
WP_012047621.1\|1821950_1822160_+	hypothetical protein	NA	NA	NA	NA
WP_162485245.1\|1822264_1822633_+	hypothetical protein	A0A0A7RVR5	Clostridium_phage	2.8e-19	40.3
WP_012721244.1\|1822646_1822811_+	hypothetical protein	NA	NA	NA	NA
WP_012720876.1\|1822807_1823209_+	RusA family crossover junction endodeoxyribonuclease	A0A090D860	Clostridium_phage	1.2e-31	52.3
WP_050760077.1\|1823160_1823589_+	DNA-packaging protein	R4JMS5	Bacillus_phage	2.7e-13	37.1
WP_012720571.1\|1823591_1824023_+	YopX family protein	A0A0A7RWK2	Clostridium_phage	2.5e-14	42.7
WP_012047625.1\|1824025_1824352_+	hypothetical protein	A0A0A7RWJ7	Clostridium_phage	2.5e-19	47.6
WP_012047626.1\|1824362_1824500_+	hypothetical protein	NA	NA	NA	NA
WP_012047627.1\|1824501_1824660_+	hypothetical protein	NA	NA	NA	NA
WP_012721207.1\|1824781_1825192_+	hypothetical protein	NA	NA	NA	NA
WP_012047629.1\|1825295_1825451_+	hypothetical protein	NA	NA	NA	NA
WP_012047630.1\|1825450_1826071_+	hypothetical protein	NA	NA	NA	NA
WP_012047631.1\|1826063_1826579_+	sigma-70 family RNA polymerase sigma factor	A0A0A7RVX8	Clostridium_phage	2.0e-18	48.0
WP_012047632.1\|1826722_1826875_+	hypothetical protein	NA	NA	NA	NA
WP_012047633.1\|1827145_1827286_+	hypothetical protein	NA	NA	NA	NA
WP_012047634.1\|1827454_1827727_+	hypothetical protein	NA	NA	NA	NA
WP_012047635.1\|1827767_1828202_+\|terminase	terminase small subunit	S5MA50	Brevibacillus_phage	2.1e-37	60.6
WP_012047636.1\|1828194_1829454_+\|terminase	PBSX family phage terminase large subunit	B6CXD2	Clostridium_phage	1.0e-100	47.2
WP_012721051.1\|1829467_1830919_+\|portal	phage portal protein	A0A0A7S074	Clostridium_phage	1.9e-236	88.4
WP_012720663.1\|1830908_1831931_+\|head	phage head morphogenesis protein	A0A0A7RVY7	Clostridium_phage	5.7e-150	77.6
WP_012720464.1\|1831951_1832341_+	hypothetical protein	A0A0A7RTF2	Clostridium_phage	2.3e-51	75.6
WP_012721291.1\|1832410_1832797_+	hypothetical protein	A0A2H4J4N9	uncultured_Caudovirales_phage	8.1e-33	61.7
WP_012720964.1\|1832796_1833006_+	hypothetical protein	NA	NA	NA	NA
WP_012721168.1\|1833028_1833274_+	hypothetical protein	M1IRA5	Streptococcus_phage	1.0e-20	60.0
WP_012720807.1\|1833293_1833899_+	phage scaffolding protein	A0A0A7RTM5	Clostridium_phage	2.4e-23	45.8
WP_012704110.1\|1833918_1834884_+	hypothetical protein	A0A0A7RVZ1	Clostridium_phage	2.7e-141	78.2
WP_012721108.1\|1834897_1835242_+\|head,tail	phage head-tail connector protein	A0A0A7RTX9	Clostridium_phage	2.7e-48	85.1
WP_012720721.1\|1835243_1835627_+	hypothetical protein	A0A0A7S083	Clostridium_phage	5.5e-50	80.3
WP_012720496.1\|1835626_1836118_+	HK97 gp10 family phage protein	A0A0A7RTT0	Clostridium_phage	2.1e-62	75.3
WP_012047646.1\|1836104_1836563_+	hypothetical protein	A0A0A7RTI2	Clostridium_phage	2.9e-53	77.7
WP_012720654.1\|1836552_1836723_+	hypothetical protein	A0A0A7RTV4	Clostridium_phage	2.4e-13	71.2
WP_012047647.1\|1836724_1838035_+\|tail	phage tail sheath subtilisin-like domain-containing protein	A0A0A7S087	Clostridium_phage	6.7e-212	84.9
WP_012047648.1\|1838038_1838503_+\|tail	phage tail tube protein	A0A0A7RVP1	Clostridium_phage	6.0e-67	80.5
WP_012047649.1\|1838519_1838933_+	hypothetical protein	A0A0A7RTN3	Clostridium_phage	1.1e-51	74.8
WP_012720799.1\|1839173_1839752_+	hypothetical protein	A0A0A7RTT9	Clostridium_phage	5.1e-55	55.6
WP_012721037.1\|1839839_1842002_+	hypothetical protein	A0A0A7S091	Clostridium_phage	3.5e-149	51.4
WP_012721336.1\|1842001_1842664_+	LysM peptidoglycan-binding domain-containing protein	A0A0A7RVP5	Clostridium_phage	9.8e-95	76.6
WP_012721239.1\|1842675_1843650_+	hypothetical protein	A0A0A7RTZ4	Clostridium_phage	4.3e-155	84.3
WP_012721184.1\|1843652_1843997_+	DUF2577 domain-containing protein	A0A0A7RTJ2	Clostridium_phage	8.0e-40	78.1
WP_012720785.1\|1843999_1844410_+	DUF2634 domain-containing protein	A0A0A7RTH1	Clostridium_phage	2.5e-48	75.6
WP_012720564.1\|1844410_1845505_+\|plate	baseplate J/gp47 family protein	A0A0A7S096	Clostridium_phage	3.8e-160	76.7
WP_012721289.1\|1845485_1846112_+	DUF2313 domain-containing protein	A0A0A7RVP9	Clostridium_phage	2.1e-86	75.6
WP_012047658.1\|1846115_1847810_+\|tail	phage tail protein	A0A0A7RTP0	Clostridium_phage	6.9e-60	64.6
WP_012721179.1\|1847842_1848235_+	hypothetical protein	B6SBV4	Clostridium_virus	1.6e-07	38.7
WP_003360655.1\|1848227_1848350_+	XkdX family protein	A0A0A7S0E7	Clostridium_phage	5.3e-07	62.5
WP_012047659.1\|1848745_1848940_+	hypothetical protein	A0A0A7RU02	Clostridium_phage	6.0e-29	100.0
WP_012721094.1\|1849226_1849982_+	hypothetical protein	NA	NA	NA	NA
WP_012047661.1\|1850004_1850229_+	hemolysin XhlA family protein	A0A0A7RWP8	Clostridium_phage	1.1e-29	87.8
WP_003494435.1\|1850242_1850437_+	hypothetical protein	NA	NA	NA	NA
WP_012721217.1\|1850477_1851230_+	N-acetylmuramoyl-L-alanine amidase	I1TJX3	Clostridium_phage	5.8e-51	57.4
WP_003489890.1\|1852062_1852203_+	hypothetical protein	NA	NA	NA	NA
WP_012720901.1\|1852238_1852394_+	hypothetical protein	NA	NA	NA	NA
WP_012720730.1\|1852380_1852569_+	hypothetical protein	A0A0A7RTH9	Clostridium_phage	1.6e-10	63.2
WP_012721439.1\|1852553_1852799_+	hypothetical protein	NA	NA	NA	NA
WP_012720989.1\|1852946_1853498_+	DUF4352 domain-containing protein	A0A0S2MVG4	Bacillus_phage	3.3e-11	33.1
1853692:1853709	attR	NA	NA	NA	NA

DBSCAN-SWA_3

1868435 : 1923985

Clostridium_phage(60.0%)

tail,coat,protease,capsid,bacteriocin,portal,tRNA,terminase,integrase,head,plate

attL 1861058:1861077|attR 1911915:1911934

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1861058:1861077	attL	NA	NA	NA	NA
WP_003362627.1\|1868435_1868840_-\|tRNA	tRNA (N6-threonylcarbamoyladenosine(37)-N6)-methyltransferase TrmO	NA	NA	NA	NA
WP_003362626.1\|1869443_1869968_+	TraR/DksA C4-type zinc finger protein	NA	NA	NA	NA
WP_012720690.1\|1870104_1871700_+	diguanylate phosphodiesterase	NA	NA	NA	NA
WP_003362623.1\|1871713_1872688_+	ABC transporter permease	NA	NA	NA	NA
WP_003362621.1\|1872691_1873513_+	ABC transporter permease	NA	NA	NA	NA
WP_012047593.1\|1874369_1875419_-\|integrase	site-specific integrase	Q8SBN2	Clostridium_phage	2.1e-128	63.8
WP_012720863.1\|1875405_1875627_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_012047595.1\|1875813_1876173_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_003395988.1\|1876621_1876822_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_003395991.1\|1876822_1877521_+	ORF6C domain-containing protein	A0A0A7RVQ9	Clostridium_phage	1.3e-41	48.7
WP_003395994.1\|1877522_1877690_+	hypothetical protein	Q8SBM7	Clostridium_phage	7.8e-09	51.9
WP_003396000.1\|1878219_1878441_+	hypothetical protein	NA	NA	NA	NA
WP_162485246.1\|1878513_1879371_+	phage replisome organizer N-terminal domain-containing protein	A0A0A7S128	Clostridium_phage	3.7e-54	71.8
WP_050760078.1\|1879312_1880074_+	ATP-binding protein	M9Q1J4	Clostridium_phage	6.7e-55	48.6
WP_012720656.1\|1880085_1880400_+	hypothetical protein	NA	NA	NA	NA
WP_012721385.1\|1880399_1880684_+	nucleotide pyrophosphohydrolase	Q24LD1	Clostridium_phage	6.8e-05	46.2
WP_012047618.1\|1880732_1881044_+	hypothetical protein	NA	NA	NA	NA
WP_012047619.1\|1881097_1881262_+	hypothetical protein	NA	NA	NA	NA
WP_012047620.1\|1881278_1881551_+	hypothetical protein	NA	NA	NA	NA
WP_012721112.1\|1881609_1881819_+	hypothetical protein	NA	NA	NA	NA
WP_012720541.1\|1881861_1882011_+	hypothetical protein	NA	NA	NA	NA
WP_012720402.1\|1882040_1882496_+	hypothetical protein	NA	NA	NA	NA
WP_012720894.1\|1882538_1882700_+	hypothetical protein	NA	NA	NA	NA
WP_012720984.1\|1882710_1882842_+	hypothetical protein	NA	NA	NA	NA
WP_012047615.1\|1882872_1883025_+	hypothetical protein	NA	NA	NA	NA
WP_012047616.1\|1883092_1883275_+	hypothetical protein	NA	NA	NA	NA
WP_012047617.1\|1883296_1883575_+	DUF4406 domain-containing protein	A0A088C4A2	Shewanella_sp._phage	3.1e-10	42.0
WP_012721421.1\|1883617_1883845_+	hypothetical protein	NA	NA	NA	NA
WP_012721257.1\|1883882_1884932_+	nucleoid-associated protein	J9QE81	Clostridium_phage	1.7e-37	28.1
WP_012721022.1\|1885038_1885752_+	hypothetical protein	NA	NA	NA	NA
WP_012720924.1\|1885748_1885934_+	hypothetical protein	NA	NA	NA	NA
WP_012720489.1\|1886082_1886253_+	hypothetical protein	NA	NA	NA	NA
WP_012721325.1\|1886242_1886632_+	hypothetical protein	A0A0A7RTL7	Clostridium_phage	8.4e-46	68.8
WP_012720781.1\|1886891_1887104_+	hypothetical protein	NA	NA	NA	NA
WP_012721182.1\|1887104_1887710_+\|integrase	tyrosine-type recombinase/integrase	A0A1L2BY87	Clostridium_phage	2.9e-85	75.1
WP_012720888.1\|1888007_1888505_+	hypothetical protein	D2J052	Enterococcus_phage	1.4e-08	27.1
WP_041173328.1\|1888559_1888922_+	HNH endonuclease	A0A0A7RUC8	Clostridium_phage	1.9e-12	43.8
WP_012721408.1\|1889082_1889565_+\|terminase	phage terminase small subunit P27 family	A6M947	Geobacillus_virus	2.2e-11	34.8
WP_012721183.1\|1889564_1891346_+\|terminase	terminase large subunit	A6M948	Geobacillus_virus	7.1e-124	41.9
WP_012720672.1\|1891357_1892608_+\|portal	phage portal protein	Q2LIC9	Bacillus_phage	5.6e-75	37.7
WP_012720425.1\|1892600_1893362_+\|protease	Clp protease ClpP	A0A0A7RTN2	Clostridium_phage	4.2e-65	55.3
WP_012720417.1\|1893400_1894576_+\|capsid	phage major capsid protein	Q9ZXF6	Bacillus_phage	7.7e-34	29.2
WP_012704689.1\|1894620_1894878_+\|head,tail	phage gp6-like head-tail connector protein	A6M953	Geobacillus_virus	3.2e-09	42.7
WP_012720800.1\|1894896_1895232_+\|head,tail	head-tail adaptor protein	NA	NA	NA	NA
WP_003398854.1\|1895241_1895451_+	hypothetical protein	NA	NA	NA	NA
WP_003398853.1\|1895453_1895867_+	HK97 gp10 family phage protein	NA	NA	NA	NA
WP_012721084.1\|1895927_1896353_+	hypothetical protein	NA	NA	NA	NA
WP_012721198.1\|1896850_1897939_+	hypothetical protein	A0A0A8WJL8	Clostridium_phage	2.5e-39	31.5
WP_012720613.1\|1897950_1898373_+\|tail	phage tail tube protein	NA	NA	NA	NA
WP_012721085.1\|1898385_1898802_+	hypothetical protein	NA	NA	NA	NA
WP_012720506.1\|1899025_1901347_+\|tail	tail protein	A0A1U9WQS5	Geobacillus_phage	3.4e-33	35.0
WP_012720626.1\|1901390_1901822_+	hypothetical protein	NA	NA	NA	NA
WP_012720855.1\|1901821_1902757_+	hypothetical protein	NA	NA	NA	NA
WP_012720947.1\|1902767_1903085_+	DUF2577 family protein	NA	NA	NA	NA
WP_012720983.1\|1903096_1903534_+	DUF2634 domain-containing protein	NA	NA	NA	NA
WP_162485242.1\|1903545_1904655_+\|plate	baseplate J/gp47 family protein	A0A0A7RUN3	Clostridium_phage	1.0e-40	33.5
WP_012720409.1\|1904666_1905197_+	DUF2313 domain-containing protein	NA	NA	NA	NA
WP_012720735.1\|1905209_1905671_+	hypothetical protein	NA	NA	NA	NA
WP_012721387.1\|1905670_1906825_+	hypothetical protein	NA	NA	NA	NA
WP_012721032.1\|1906829_1907195_+	hypothetical protein	NA	NA	NA	NA
WP_003398722.1\|1907296_1907500_+\|bacteriocin	bacteriocin UviB	NA	NA	NA	NA
WP_012720412.1\|1907501_1907675_+	hypothetical protein	NA	NA	NA	NA
WP_012721261.1\|1907716_1908478_+	N-acetylmuramoyl-L-alanine amidase	I1TJX3	Clostridium_phage	9.0e-52	57.0
WP_012047663.1\|1908662_1908884_+	hypothetical protein	NA	NA	NA	NA
WP_012047664.1\|1909178_1909319_+	hypothetical protein	NA	NA	NA	NA
WP_012720544.1\|1909496_1909685_+	hypothetical protein	A0A0A7RTH9	Clostridium_phage	6.5e-12	68.4
WP_012721304.1\|1909669_1909915_+	hypothetical protein	NA	NA	NA	NA
WP_003362618.1\|1911270_1911858_-	3'-5' exonuclease	NA	NA	NA	NA
WP_011986311.1\|1912152_1913103_+	DUF1002 domain-containing protein	NA	NA	NA	NA
1911915:1911934	attR	NA	NA	NA	NA
WP_012721172.1\|1913373_1914009_+	class I SAM-dependent methyltransferase	NA	NA	NA	NA
WP_012720696.1\|1914157_1914598_-	Hsp20/alpha crystallin family protein	NA	NA	NA	NA
WP_012705239.1\|1914948_1916133_+	MFS transporter	NA	NA	NA	NA
WP_012704618.1\|1916283_1916847_+	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_012705304.1\|1916839_1917022_+	DeoR family transcriptional regulator	NA	NA	NA	NA
WP_012703907.1\|1917047_1917953_+	1-phosphofructokinase	NA	NA	NA	NA
WP_012720993.1\|1918069_1919449_-	peptide MFS transporter	A0A0P0IY73	Acinetobacter_phage	2.8e-51	29.7
WP_003358989.1\|1919872_1920028_+	hypothetical protein	NA	NA	NA	NA
WP_012720393.1\|1920179_1921154_+	hypothetical protein	NA	NA	NA	NA
WP_003363168.1\|1921264_1921798_-	amidase domain-containing protein	NA	NA	NA	NA
WP_003359020.1\|1922060_1922216_+	hypothetical protein	NA	NA	NA	NA
WP_003363167.1\|1922246_1923206_+	bifunctional hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase	NA	NA	NA	NA
WP_003358882.1\|1923349_1923985_-\|coat	SafA/ExsA family spore coat assembly protein	A0A0E3JT82	Bacillus_phage	5.1e-40	45.6

DBSCAN-SWA_4

2205628 : 2261911

Bacillus_phage(15.38%)

integrase,protease,transposase

attL 2221004:2221019|attR 2263052:2263067

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003362954.1\|2205628_2206426_+\|protease	serine protease	A0A0E3T7R5	Bacillus_phage	1.4e-34	61.5
WP_003362953.1\|2206528_2207875_-	PLP-dependent aminotransferase family protein	A0A1X9I5H2	Streptococcus_phage	1.3e-72	41.7
WP_003362952.1\|2208023_2208932_+	EamA family transporter	NA	NA	NA	NA
WP_012720568.1\|2209230_2210382_-	pyridoxal phosphate-dependent aminotransferase	NA	NA	NA	NA
WP_003362949.1\|2210401_2211124_-	amino acid ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	1.8e-33	38.1
WP_003362948.1\|2211110_2211797_-	amino acid ABC transporter permease	NA	NA	NA	NA
WP_024931471.1\|2211866_2212685_-	transporter substrate-binding domain-containing protein	NA	NA	NA	NA
WP_012720859.1\|2212771_2214052_-	nickel-dependent lactate racemase	NA	NA	NA	NA
WP_003363214.1\|2214416_2215556_-	alanine--glyoxylate aminotransferase family protein	NA	NA	NA	NA
WP_012721332.1\|2215918_2216584_-	type A chloramphenicol O-acetyltransferase	A0A1X9I6V6	Streptococcus_phage	2.5e-50	42.9
WP_003363017.1\|2217079_2217292_-	zinc ribbon domain-containing protein	NA	NA	NA	NA
WP_012721349.1\|2217587_2217809_-	hypothetical protein	NA	NA	NA	NA
WP_012720640.1\|2217946_2218096_-	hypothetical protein	NA	NA	NA	NA
WP_003363021.1\|2218209_2218926_-	alpha/beta hydrolase	NA	NA	NA	NA
2221004:2221019	attL	NA	NA	NA	NA
WP_003363025.1\|2221396_2223166_-	ABC transporter ATP-binding protein	A0A1V0SE00	Indivirus	4.6e-22	32.3
WP_003363026.1\|2223647_2223830_-	hypothetical protein	NA	NA	NA	NA
WP_003363027.1\|2224030_2224216_-	hypothetical protein	NA	NA	NA	NA
WP_003363028.1\|2224383_2224629_-	peptide maturation system acyl carrier-related protein	NA	NA	NA	NA
WP_012720972.1\|2224650_2225706_-	TIGR04066 family peptide maturation system protein	NA	NA	NA	NA
WP_003363030.1\|2225727_2227158_-	Cys-rich peptide radical SAM maturase CcpM	NA	NA	NA	NA
WP_003363031.1\|2227875_2228016_+	hypothetical protein	NA	NA	NA	NA
WP_100067713.1\|2228019_2228169_+\|transposase	IS3 family transposase	NA	NA	NA	NA
WP_003363033.1\|2228264_2228408_+	hypothetical protein	NA	NA	NA	NA
WP_099837941.1\|2228420_2228678_+\|transposase	IS3 family transposase	A0A2I6AZV9	Macacine_betaherpesvirus	4.3e-14	48.1
WP_003363035.1\|2228798_2230154_-	peptide MFS transporter	A0A0P0IY73	Acinetobacter_phage	8.9e-18	23.8
WP_003363036.1\|2230492_2231839_-	peptide MFS transporter	A0A0P0IY73	Acinetobacter_phage	6.5e-21	24.0
WP_003363037.1\|2232348_2233437_+	aminopeptidase P family protein	NA	NA	NA	NA
WP_003358404.1\|2233518_2234400_+	proline iminopeptidase-family hydrolase	NA	NA	NA	NA
WP_003359767.1\|2234518_2235394_-\|transposase	IS3 family transposase	A0A1B1P773	Bacillus_phage	5.9e-39	38.2
WP_012720804.1\|2235393_2235699_-\|transposase	transposase	NA	NA	NA	NA
WP_003358226.1\|2235850_2235976_-	MetS family NSS transporter small subunit	NA	NA	NA	NA
WP_003358214.1\|2235992_2237486_-	sodium-dependent transporter	NA	NA	NA	NA
WP_012720745.1\|2237929_2238577_-	hypothetical protein	NA	NA	NA	NA
WP_012721043.1\|2238809_2241287_-	DUF2974 domain-containing protein	NA	NA	NA	NA
WP_012720743.1\|2241701_2242202_-	nitroreductase family protein	NA	NA	NA	NA
WP_003363156.1\|2242306_2244250_-	VWA domain-containing protein	NA	NA	NA	NA
WP_003363155.1\|2244264_2245500_-	hypothetical protein	NA	NA	NA	NA
WP_003363153.1\|2245496_2247608_-	hypothetical protein	NA	NA	NA	NA
WP_012720857.1\|2247729_2249523_-	oleate hydratase	NA	NA	NA	NA
WP_003358306.1\|2249826_2250396_-	TetR/AcrR family transcriptional regulator C-terminal domain-containing protein	NA	NA	NA	NA
WP_075861074.1\|2250557_2251094_-	DUF5131 family protein	NA	NA	NA	NA
WP_033063422.1\|2252392_2253400_+	glycosyltransferase family 2 protein	NA	NA	NA	NA
WP_003363110.1\|2253859_2254921_-	glycosyltransferase family 2 protein	NA	NA	NA	NA
WP_012342119.1\|2254964_2255609_-	acetyltransferase	NA	NA	NA	NA
WP_003363112.1\|2255700_2256840_-	DegT/DnrJ/EryC1/StrS family aminotransferase	A0A2K9L470	Tupanvirus	1.4e-27	27.0
WP_003363113.1\|2256885_2257785_-	glycosyltransferase	NA	NA	NA	NA
WP_003363114.1\|2257986_2259048_+	glucose-1-phosphate thymidylyltransferase	G3MA50	Bacillus_virus	3.2e-31	35.0
WP_003363115.1\|2259089_2260070_+	dTDP-glucose 4,6-dehydratase	I7HTA3	Enterobacteria_phage	1.5e-70	42.9
WP_003363116.1\|2260345_2260639_+	DUF4342 domain-containing protein	NA	NA	NA	NA
WP_003363117.1\|2260889_2261183_+	DUF4342 domain-containing protein	NA	NA	NA	NA
WP_079994793.1\|2261497_2261911_-\|integrase	tyrosine-type recombinase/integrase	E2ELN7	Clostridium_phage	1.2e-13	37.4
2263052:2263067	attR	NA	NA	NA	NA

DBSCAN-SWA_5

2487484 : 2494858

uncultured_Caudovirales_phage(57.14%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_114621558.1\|2487484_2489620_-	hypothetical protein	A0A2H4J056	uncultured_Caudovirales_phage	1.2e-138	40.1
WP_012720698.1\|2489820_2490051_-	hypothetical protein	NA	NA	NA	NA
WP_012720811.1\|2490063_2490468_-	hypothetical protein	A0A2H4J7M8	uncultured_Caudovirales_phage	4.8e-12	34.1
WP_012720520.1\|2490834_2491002_-	hypothetical protein	A0A2H4J4S7	uncultured_Caudovirales_phage	5.2e-13	66.0
WP_012721114.1\|2491180_2491381_-	helix-turn-helix domain-containing protein	A0A2H4J765	uncultured_Caudovirales_phage	1.3e-26	92.3
WP_012721382.1\|2491474_2491957_-	hypothetical protein	Q332A3	Clostridium_botulinum_C_phage	6.8e-29	54.2
WP_024931629.1\|2491959_2492472_-	ImmA/IrrE family metallo-endopeptidase	Q332A2	Clostridium_botulinum_C_phage	5.7e-50	60.8
WP_114621505.1\|2492908_2494858_-	cell wall-binding repeat-containing protein	Q332C0	Clostridium_botulinum_C_phage	9.2e-109	61.6

DBSCAN-SWA_6

2499362 : 2543156

Clostridium_phage(64.71%)

tail,capsid,portal,terminase,integrase

attL 2522613:2522629|attR 2533784:2533800

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_012721088.1\|2499362_2500208_-	N-acetylmuramoyl-L-alanine amidase	I1TJX3	Clostridium_phage	7.2e-50	57.3
WP_012720710.1\|2500247_2500442_-	hypothetical protein	NA	NA	NA	NA
WP_012720860.1\|2500458_2500713_-	hemolysin XhlA family protein	A0A0A7RTX0	Clostridium_phage	4.8e-26	70.9
WP_012720628.1\|2500760_2501108_-	hypothetical protein	NA	NA	NA	NA
WP_012721290.1\|2501281_2501428_-	hypothetical protein	A0A249XXC6	Clostridium_phage	1.0e-12	73.3
WP_012720991.1\|2501430_2501766_-	hypothetical protein	NA	NA	NA	NA
WP_012720702.1\|2501770_2503642_-	hypothetical protein	E2ELJ8	Clostridium_phage	5.4e-66	48.6
WP_012720410.1\|2503641_2504736_-	siphovirus ReqiPepy6 Gp37-like family protein	E2ELJ7	Clostridium_phage	5.6e-87	46.9
WP_012720521.1\|2504739_2505606_-\|tail	phage tail family protein	E2ELJ6	Clostridium_phage	3.9e-83	53.6
WP_114621556.1\|2505619_2511370_-\|tail	phage tail tape measure protein	A0A2H4JDX3	uncultured_Caudovirales_phage	1.3e-41	30.7
WP_012721016.1\|2511570_2512635_-	Ig-like domain-containing protein	NA	NA	NA	NA
WP_012720659.1\|2512697_2512874_-	hypothetical protein	A0A0A8WHP4	Clostridium_phage	2.5e-05	53.7
WP_012721379.1\|2512866_2513283_-	hypothetical protein	NA	NA	NA	NA
WP_012720599.1\|2513339_2513966_-	hypothetical protein	A0A1U9WR69	Streptococcus_virus	6.5e-40	45.7
WP_012720533.1\|2513965_2514304_-	hypothetical protein	A0A0A8WEH0	Clostridium_phage	4.8e-05	27.8
WP_012720459.1\|2514303_2514678_-	hypothetical protein	E7DNB1	Pneumococcus_phage	6.9e-13	32.1
WP_114621555.1\|2514670_2515036_-	hypothetical protein	NA	NA	NA	NA
WP_012721077.1\|2515035_2515344_-	hypothetical protein	A0A0A7S0R4	Clostridium_phage	5.5e-32	64.0
WP_012721236.1\|2515346_2515550_-	hypothetical protein	NA	NA	NA	NA
WP_012720469.1\|2515608_2516661_-\|capsid	major capsid protein	D9ZND6	Clostridium_phage	3.4e-89	51.2
WP_012721175.1\|2516674_2517067_-	hypothetical protein	NA	NA	NA	NA
WP_012720636.1\|2517087_2517702_-	phage scaffolding protein	A0A0A7RW68	Clostridium_phage	8.7e-29	41.2
WP_012721333.1\|2518105_2518273_+	YjzC family protein	A0A0A7RTS6	Clostridium_phage	1.6e-22	89.1
WP_012720472.1\|2518430_2518727_-	hypothetical protein	NA	NA	NA	NA
WP_012720453.1\|2518736_2519702_-	hypothetical protein	A0A2H4J048	uncultured_Caudovirales_phage	5.4e-86	49.7
WP_012720556.1\|2519701_2521210_-\|portal	phage portal protein	D9ZNC8	Clostridium_phage	1.1e-138	51.7
WP_012721327.1\|2521209_2521416_-\|terminase	phage terminase large subunit	A0A0A7S0Q5	Clostridium_phage	3.9e-10	58.0
WP_012721157.1\|2521445_2522102_-	HNH endonuclease	A0A0P0HRI2	Lactobacillus_phage	7.1e-37	46.6
WP_012720584.1\|2522146_2523655_-\|terminase	PBSX family phage terminase large subunit	A0A0A7S0Q5	Clostridium_phage	5.0e-195	80.6
2522613:2522629	attL	NA	NA	NA	NA
WP_012720932.1\|2523647_2524538_-\|terminase	terminase small subunit	A0A0A7RTY1	Clostridium_phage	8.5e-102	65.9
WP_012720858.1\|2524540_2525227_-	HNH endonuclease	A0A0H3UZ74	Geobacillus_virus	2.2e-33	46.6
WP_012705283.1\|2525412_2525652_-	PepSY domain-containing protein	NA	NA	NA	NA
WP_012721337.1\|2525767_2525968_-	hypothetical protein	A0A0A7RTM8	Clostridium_phage	4.5e-11	72.6
WP_012721126.1\|2525930_2526095_-	hypothetical protein	NA	NA	NA	NA
WP_012721135.1\|2526195_2527284_-	Ig domain-containing protein	E5AFW9	Erwinia_phage	1.1e-10	34.5
WP_012720741.1\|2527619_2528057_-	hypothetical protein	NA	NA	NA	NA
WP_012720517.1\|2528067_2528286_-	hypothetical protein	NA	NA	NA	NA
WP_012721225.1\|2528282_2528474_-	hypothetical protein	NA	NA	NA	NA
WP_012721208.1\|2528563_2528890_-	hypothetical protein	NA	NA	NA	NA
WP_012720738.1\|2528904_2529897_-\|integrase	tyrosine-type recombinase/integrase	S5M872	Bacillus_phage	3.2e-09	23.7
WP_075861150.1\|2530148_2530247_+	DUF2892 domain-containing protein	NA	NA	NA	NA
WP_012720390.1\|2530491_2530824_-	hypothetical protein	NA	NA	NA	NA
WP_050760084.1\|2530832_2531603_-	hypothetical protein	NA	NA	NA	NA
WP_012720934.1\|2531643_2531811_-	hypothetical protein	NA	NA	NA	NA
WP_041173333.1\|2531822_2532593_-	hypothetical protein	NA	NA	NA	NA
WP_012720606.1\|2532629_2533259_-	hypothetical protein	A0A0A7RW43	Clostridium_phage	4.8e-83	72.1
WP_012721018.1\|2533246_2533669_-	DUF1064 domain-containing protein	A0A0A7RTV9	Clostridium_phage	9.4e-51	68.6
WP_012721064.1\|2533665_2533827_-	hypothetical protein	NA	NA	NA	NA
2533784:2533800	attR	NA	NA	NA	NA
WP_012720778.1\|2533917_2534268_-	nucleotide pyrophosphohydrolase	S0A3B9	Cellulophaga_phage	5.3e-07	29.5
WP_012720635.1\|2534284_2534404_-	aspartyl-phosphate phosphatase Spo0E family protein	NA	NA	NA	NA
WP_012721262.1\|2534410_2534722_-	hypothetical protein	NA	NA	NA	NA
WP_012720968.1\|2534751_2535747_-	sigma-70 family RNA polymerase sigma factor	A0A0A0RV91	Bacillus_phage	8.3e-05	21.7
WP_012720796.1\|2535759_2535993_-	hypothetical protein	A0A0A7RTQ4	Clostridium_phage	2.6e-10	39.8
WP_114621554.1\|2536012_2536855_-	ATP-binding protein	A0A1B1P7U2	Bacillus_phage	2.5e-26	30.5
WP_162485243.1\|2536793_2537447_-	hypothetical protein	NA	NA	NA	NA
WP_039774475.1\|2537783_2538083_-	hypothetical protein	NA	NA	NA	NA
WP_012720669.1\|2538176_2538353_-	hypothetical protein	NA	NA	NA	NA
WP_012721435.1\|2538368_2538515_-	hypothetical protein	NA	NA	NA	NA
WP_012720539.1\|2538517_2539402_-	recombinase RecT	W8EBF6	Geobacillus_phage	5.8e-42	37.9
WP_012720770.1\|2539414_2540464_-	YqaJ viral recombinase family protein	A0A0A7RWR9	Clostridium_phage	8.1e-27	29.4
WP_012721026.1\|2540719_2540884_-	hypothetical protein	NA	NA	NA	NA
WP_003392444.1\|2540892_2541051_-	hypothetical protein	NA	NA	NA	NA
WP_012720609.1\|2541103_2541256_-	Com family DNA-binding transcriptional regulator	NA	NA	NA	NA
WP_012720892.1\|2541276_2541486_-	hypothetical protein	NA	NA	NA	NA
WP_012720595.1\|2541553_2541889_+	hypothetical protein	NA	NA	NA	NA
WP_012720878.1\|2542064_2542292_-	hypothetical protein	NA	NA	NA	NA
WP_012721069.1\|2542292_2543156_-	phage antirepressor KilAC domain-containing protein	A0A0A7S0G2	Clostridium_phage	2.0e-71	53.6

DBSCAN-SWA_7

3131458 : 3140903

Synechococcus_phage(28.57%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003359898.1\|3131458_3132958_-	bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase	Q58MG4	Prochlorococcus_phage	4.2e-69	47.2
WP_003359899.1\|3133183_3133801_-	phosphoribosylglycinamide formyltransferase	M4QRX9	Synechococcus_phage	6.9e-26	39.3
WP_003359901.1\|3133927_3134923_-	phosphoribosylformylglycinamidine cyclo-ligase	M4QRQ6	Synechococcus_phage	2.0e-67	44.0
WP_003359902.1\|3134983_3136432_-	amidophosphoribosyltransferase	A0A1B1ISH6	uncultured_Mediterranean_phage	4.0e-56	32.1
WP_003359903.1\|3136523_3137228_-	phosphoribosylaminoimidazolesuccinocarboxamide synthase	A0A1D7SLB8	Cyanophage	3.9e-41	43.7
WP_003359904.1\|3137227_3137707_-	5-(carboxyamino)imidazole ribonucleotide mutase	A0A2P0VNU7	Tetraselmis_virus	5.7e-28	49.4
WP_012721417.1\|3138347_3140903_-	selenium-dependent xanthine dehydrogenase	A0A0P0IVM8	Acinetobacter_phage	2.4e-11	33.1

DBSCAN-SWA_8

3289015 : 3311057

Clostridium_phage(85.71%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_003360049.1\|3289015_3290101_-	hypothetical protein	A0A0A7RU66	Clostridium_phage	2.7e-142	70.6
WP_003360051.1\|3290112_3291111_-	hypothetical protein	A0A0A7RW91	Clostridium_phage	1.5e-139	72.3
WP_003360052.1\|3291122_3291377_-	hypothetical protein	A0A0A7S0T0	Clostridium_phage	1.1e-33	81.0
WP_003360053.1\|3291382_3293278_-	hypothetical protein	A0A0A7RU09	Clostridium_phage	4.3e-119	52.6
WP_003360054.1\|3293292_3294531_-	hypothetical protein	A0A0A7RU28	Clostridium_phage	4.4e-197	81.3
WP_003360055.1\|3294553_3295534_-	hypothetical protein	A0A0A7RU61	Clostridium_phage	1.0e-111	61.3
WP_003360056.1\|3295535_3296885_-	caspase family protein	A0A0A7RW86	Clostridium_phage	8.7e-74	73.5
WP_012721103.1\|3296899_3297241_-	hypothetical protein	A0A0A7S0S4	Clostridium_phage	2.7e-16	54.3
WP_003360059.1\|3297253_3298339_-	hypothetical protein	NA	NA	NA	NA
WP_003360060.1\|3298325_3298760_-	hypothetical protein	NA	NA	NA	NA
WP_003360061.1\|3298772_3300314_-	hypothetical protein	A0A0A7RU22	Clostridium_phage	1.5e-05	43.5
WP_003483832.1\|3300495_3300738_-	hypothetical protein	A0A0A7RW80	Clostridium_phage	4.4e-21	67.6
WP_003357967.1\|3300697_3301114_-	hypothetical protein	A0A0A7S0S0	Clostridium_phage	9.0e-46	71.2
WP_003360062.1\|3301128_3302016_-	hypothetical protein	A0A0A7RTZ9	Clostridium_phage	2.4e-120	75.1
WP_012720913.1\|3302020_3302440_-	hypothetical protein	A0A0A7RU17	Clostridium_phage	2.3e-57	71.9
WP_003360064.1\|3302445_3302793_-	hypothetical protein	A0A0A7RU51	Clostridium_phage	7.3e-33	59.6
WP_003360065.1\|3302797_3303163_-	hypothetical protein	A0A0A7RW73	Clostridium_phage	8.5e-32	55.4
WP_003360066.1\|3303162_3303447_-	hypothetical protein	A0A0A7S0R4	Clostridium_phage	1.0e-24	60.2
WP_003358043.1\|3304133_3304655_-	hypothetical protein	A0A0A7RVS1	Clostridium_phage	3.6e-36	50.6
WP_003360068.1\|3304768_3305089_-	hypothetical protein	NA	NA	NA	NA
WP_003360069.1\|3305145_3305946_-	ATP-binding protein	A0A2K9V3L7	Faecalibacterium_phage	9.9e-33	34.8
WP_012721136.1\|3305935_3306841_-	phage replisome organizer N-terminal domain-containing protein	A8ASN4	Listeria_phage	5.5e-40	38.9
WP_003360071.1\|3306934_3307147_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_003360072.1\|3307208_3307418_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_003360073.1\|3307608_3308019_+	helix-turn-helix domain-containing protein	A0A0A7RUJ5	Clostridium_phage	1.0e-09	56.2
WP_003357837.1\|3308320_3308470_+	hypothetical protein	NA	NA	NA	NA
WP_003360074.1\|3309569_3311057_+	MBOAT family protein	A0A125RNP0	Pseudomonas_phage	2.8e-65	37.8

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. NC_012654

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. NC_012658

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection