CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
LS483439	Acholeplasma laidlawii strain NCTC10116 genome assembly, chromosome: 1	1 crisprs	DEDDh,cas3,csa3	0	1	3	1

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: LS483439_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

LS483439_1

458678-458756

Unclear

Consensus_repeat	Method
ATATTGTGCCGATAACGGCATAAT	CRISPRCasFinder

1 spacers

cas3

The CRISPR arrays of LS483439_1

>merge|LS483439|1|458678-458756|CRISPRCasFinder
ATATTGTGCCGATAACGGCATAATGTTGACTTAGCGAATAAACTATGATATACTGATATTGTGCCGATAACGGCATAAT

>LS483439|1|1|458678-458756|CRISPRCasFinder
ATATTGTGCCGATAACGGCATAAT	GTTGACTTAGCGAATAAACTATGATATACTG
ATATTGTGCCGATAACGGCATAAT

Protein	Signature genes	Signature genes Name	Protein_function
LS483439.1\|SQH56666.1\|465202_466012_+\|transcriptional-repressor-DicA	unknown	unknown	gnl\|CDD\|238045
LS483439.1\|SQH56655.1\|449533_451177_+\|DEAD-box-ATP-dependent-RNA-helicase-CshA	cas3	cd09639_cas3_CAS-I	gnl\|CDD\|223587
LS483439.1\|SQH56651.1\|446179_448000_+\|Probable-cadmium-transporting-ATPase	unknown	unknown	gnl\|CDD\|319774
LS483439.1\|SQH56669.1\|466774_467851_+\|Diguanylate-cyclase-YdeH	unknown	unknown	gnl\|CDD\|143635
LS483439.1\|SQH56659.1\|456645_458358_+\|Phosphoenolpyruvate-protein-phosphotransferase	unknown	unknown	gnl\|CDD\|224006
LS483439.1\|SQH56661.1\|459710_460133_+\|Uncharacterised-protein	unknown	unknown	gnl\|CDD\|213039
LS483439.1\|SQH56653.1\|448403_448850_+\|EIIABC-Fru	unknown	unknown	gnl\|CDD\|273298
LS483439.1\|SQH56650.1\|445841_446144_+\|iron-sulfur-cluster-repair-di-iron-protein	unknown	unknown	gnl\|CDD\|274701
LS483439.1\|SQH56657.1\|452757_453396_+\|Uncharacterised-protein	unknown	unknown	gnl\|CDD\|372745
LS483439.1\|SQH56660.1\|458770_459691_+\|Protein-involved-in-cell-division	unknown	unknown	gnl\|CDD\|225718
LS483439.1\|SQH56654.1\|448924_449434_+\|Uncharacterised-protein	unknown	unknown	unknown
LS483439.1\|SQH56667.1\|466154_466643_+\|Predicted-acetyltransferase	unknown	unknown	gnl\|CDD\|366181
LS483439.1\|SQH56664.1\|462829_463243_+\|Uncharacterised-protein	unknown	unknown	unknown
LS483439.1\|SQH56665.1\|463457_465050_+\|H(+)/Cl(-)-exchange-transporter-ClcA	unknown	unknown	gnl\|CDD\|238504
LS483439.1\|SQH56668.1\|466614_466737_+\|Uncharacterised-protein	unknown	unknown	unknown
LS483439.1\|SQH56663.1\|461909_462650_+\|Uncharacterised-protein	unknown	unknown	unknown
LS483439.1\|SQH56656.1\|451387_452761_+\|Uncharacterised-protein	unknown	unknown	unknown
LS483439.1\|SQH56652.1\|448073_448307_+\|Copper-ion-binding-protein	unknown	unknown	gnl\|CDD\|225328
LS483439.1\|SQH56662.1\|460424_461717_+\|23S-rRNA-(uracil-C(5))-methyltransferase-RlmCD	unknown	unknown	gnl\|CDD\|225174
LS483439.1\|SQH56658.1\|453373_456640_+\|recombination-protein-F	unknown	unknown	gnl\|CDD\|379260

Protein	Function_ID	Function_description	E-value
LS483439.1\|SQH56666.1\|465202_466012_+\|transcriptional-repressor-DicA	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.	1.71227e-10
LS483439.1\|SQH56655.1\|449533_451177_+\|DEAD-box-ATP-dependent-RNA-helicase-CshA	gnl\|CDD\|223587	COG0513, SrmB, Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis].	3.14396e-153
LS483439.1\|SQH56651.1\|446179_448000_+\|Probable-cadmium-transporting-ATPase	gnl\|CDD\|319774	cd02079, P-type_ATPase_HM, P-type heavy metal-transporting ATPase. Heavy metal-transporting ATPases (Type IB ATPases) transport heavy metal ions (Cu(+), Cu(2+), Zn(2+), Cd(2+), Co(2+), etc.) across biological membranes. These ATPases include mammalian copper-transporting ATPases, ATP7A and ATP7B, Bacillus subtilis CadA which transports cadmium, zinc and cobalt out of the cell, Bacillus subtilis ZosA/PfeT which transports copper, and perhaps also zinc and ferrous iron, Archaeoglobus fulgidus CopA and CopB, Staphylococcus aureus plasmid pI258 CadA, a cadmium-efflux ATPase, and Escherichia coli ZntA which is selective for Pb(2+), Zn(2+), and Cd(2+). The characteristic N-terminal heavy metal associated (HMA) domain of this group is essential for the binding of metal ions. This family belongs to the P-type ATPases, a large family of integral membrane transporters that are of critical importance in all kingdoms of life. They generate and maintain (electro-) chemical gradients across cellular membranes, by translocating cations, heavy metals and lipids, and are distinguished from other main classes of transport ATPases (F- , V- , and ABC- type) by the formation of a phosphorylated (P-) intermediate state in the catalytic cycle.	0
LS483439.1\|SQH56669.1\|466774_467851_+\|Diguanylate-cyclase-YdeH	gnl\|CDD\|143635	cd01949, GGDEF, Diguanylate-cyclase (DGC) or GGDEF domain. Diguanylate-cyclase (DGC) or GGDEF domain: Originally named after a conserved residue pattern, and initially described as a domain of unknown function 1 (DUF1). This domain is widely present in bacteria, linked to a wide range of non-homologous domains in a variety of cell signaling proteins. The domain shows homology to the adenylyl cyclase catalytic domain. This correlates with the functional information available on two GGDEF-containing proteins, namely diguanylate cyclase and phosphodiesterase A of Acetobacter xylinum, both of which regulate the turnover of cyclic diguanosine monophosphate. Together with the EAL domain, GGDEF might be involved in regulating cell surface adhesion in bacteria.	3.18201e-41
LS483439.1\|SQH56659.1\|456645_458358_+\|Phosphoenolpyruvate-protein-phosphotransferase	gnl\|CDD\|224006	COG1080, PtsA, Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism].	0
LS483439.1\|SQH56661.1\|459710_460133_+\|Uncharacterised-protein	gnl\|CDD\|213039	cd11743, Cthe_2751_like, Uncharacterized protein domain similar to Clostridium thermocellum 2751. Cthe_2751 has been found to form homodimers. Based on structural similarity to other families, a role in processing nucleic acids was suggested, though interactions with DNA could not be demonstrated.	1.52408e-08
LS483439.1\|SQH56650.1\|445841_446144_+\|iron-sulfur-cluster-repair-di-iron-protein	gnl\|CDD\|274701	TIGR03652, FeS_repair_RIC, iron-sulfur cluster repair di-iron protein. Members of this protein family, designated variously as YftE, NorA, DrnN, and NipC, are di-iron proteins involved in the repair of iron-sulfur clusters. Previously assigned names reflect pleiotropic effects of damage from NO or other oxidative stress when this protein is mutated. The suggested name now is RIC, for Repair of Iron Centers. [Biosynthesis of cofactors, prosthetic groups, and carriers, Other].	0.000294783
LS483439.1\|SQH56657.1\|452757_453396_+\|Uncharacterised-protein	gnl\|CDD\|372745	pfam13835, DUF4194, Domain of unknown function (DUF4194).	2.80878e-29
LS483439.1\|SQH56660.1\|458770_459691_+\|Protein-involved-in-cell-division	gnl\|CDD\|225718	COG3177, COG3177, Fic family protein [Function unknown].	4.2419e-36
LS483439.1\|SQH56653.1\|448403_448850_+\|EIIABC-Fru	gnl\|CDD\|273298	TIGR00848, Includes:_Phosphotransferase_enzyme_IIA_component, PTS system, fructose subfamily, IIA component. 4.A.2 The PTS Fructose-Mannitol (Fru) Family Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Fru family is a large and complex family which includes several sequenced fructose and mannitol-specific permeases as well as several putative PTS permeases of unknown specificities. The fructose permeases of this family phosphorylate fructose on the 1-position. Those of family 4.6 phosphorylate fructose on the 6-position. The Fru family PTS systems typically have 3 domains, IIA, IIB and IIC, which may be found as 1 or more proteins. The fructose and mannitol transporters form separate phylogenetic clusters in this family. This model is specific for the IIA domain of the fructose PTS transporters. Also similar to the Enzyme IIA Fru subunits of the PTS, but included in TIGR01419 rather than this model, is enzyme IIA Ntr (nitrogen), also called PtsN, found in E. coli and other organisms, which may play a solely regulatory role. [Transport and binding proteins, Carbohydrates, organic alcohols, and acids, Signal transduction, PTS].	4.31109e-31
LS483439.1\|SQH56665.1\|463457_465050_+\|H(+)/Cl(-)-exchange-transporter-ClcA	gnl\|CDD\|238504	cd01031, EriC, ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked proton utilization. As shown for Escherichia coli EriC, these channels can counterbalance the electric current produced by the outwardly directed virtual proton pump linked to amino acid decarboxylation. The EriC proteins belong to the ClC superfamily of chloride ion channels, which share a unique double-barreled architecture and voltage-dependent gating mechanism. The voltage-dependent gating is conferred by the permeating anion itself, acting as the gating charge. In Escherichia coli EriC, a glutamate residue that protrudes into the pore is thought to participate in gating by binding to a Cl- ion site within the selectivity filter.	4.03542e-70
LS483439.1\|SQH56667.1\|466154_466643_+\|Predicted-acetyltransferase	gnl\|CDD\|366181	pfam00583, Acetyltransf_1, Acetyltransferase (GNAT) family. This family contains proteins with N-acetyltransferase functions such as Elp3-related proteins.	2.20759e-07
LS483439.1\|SQH56652.1\|448073_448307_+\|Copper-ion-binding-protein	gnl\|CDD\|225328	COG2608, CopZ, Copper chaperone [Inorganic ion transport and metabolism].	2.17969e-12
LS483439.1\|SQH56662.1\|460424_461717_+\|23S-rRNA-(uracil-C(5))-methyltransferase-RlmCD	gnl\|CDD\|225174	COG2265, TrmA, SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis].	1.3247e-78
LS483439.1\|SQH56658.1\|453373_456640_+\|recombination-protein-F	gnl\|CDD\|379260	pfam13558, SbcCD_C, Putative exonuclease SbcCD, C subunit. Possible exonuclease SbcCD, C subunit, on AAA proteins.	9.01347e-28

>LS483439.1|SQH56659.1|456645_458358_+|Phosphoenolpyruvate-protein-phosphotransferase
MTKLKGNGVSSGIAIAKVHQFKLNNMFAMNKYATDKAFEIKRLGDALYKADKELENLTKQAEERIGVEHAQIFSAQQMMINDPEMIKNAHVKINDFNLDAAYAFKQTMSEMIDMFELSDNPYIKERISDLEDISNRVLHILSGKTHSLYVFNEDVILVATDLVPSETINLDTTFIKGIVIEKGSKTSHSAILARNLGIPAITGVDVSKIHHDTLAIIDGHTGDILLEPSEDTIKTYQTKQQEALKLQSTYETIKDLKTATIDNHEVHLAANIGVDLDIQEALDANASGIGLLRTENQYLESDDFPTEDELFIFYEKVATSFETNEVTIRTLDIGGDKNLSYLNMRKELNPFLGNRAIRYSLSYPSLFKTQLRAILRANTHQNIKVMFPMISTLKELMDAKKILDETYQALKIEGHEVNYPKIGMMVEVPSAALGIEKFLPHIDFISIGTNDLIQYMFAADRMNERVAYLYQPYNPILLSTIKSMIDKTNKHGIIVSVCGEMAGHKAQSLLLIGLGIKHLSMHANLILENKYLISKTTYKALEEIAEKALLLDHPYEVEALINTYIKGLKY
>LS483439.1|SQH56658.1|453373_456640_+|recombination-protein-F
MKKLTKIKLINWHLFTDQTIKIDGNTLISGENGAGKSTLLDALQYLLVGGKSGAKFNIAATDDAKRTLEGYVRGRIGAENKEFIRSGDVITHVALEFYDEQSDEFGIIGAVLELPKMGNLKERFYLLENLNLHDGIFMDKNTPRDYRSMKAYLKTLSIDFIPFDSQRQYRDALAKYFGIDAKKYSKILPKALAFRPIDLQSFVFEFLLDDEPIDIQSLKNNVTQLKRVEGQIRLDKEKLEKLEKIITLGESLNQNLDQITTNELIDQMAFIEKRETFLNHSENLLDKVNAKYEVLKRQKDDLDRQITSNDETILELETSRQNDDITRTLSNLKEQLHAKGNQYNEQKVIVSDLKATLNRELDLYRDFVNLNPNTHISAFLKYYSGHEENSNILELSSYIEGAQSAASGYLNALSVEKSELEKERNNILNELRIAENRLNALKRNVKTYPRNVQSLMDAINTELSNYYKKDVRVRAFSDLIEVKDEAWRDALEGYLNTRRFDLIIDPLYFNDALEVYDRVKNELSIYGVGLVNTAKIGEYTTCLPNSLAAKVTTDHPYARNYVNMTMGYVVTVDNLSDLKNHQRSITKSAMTYANHTARQINPSQYQVPYIGNSSTQLQVEMDTKLVGELTSDLKRVSNLLEKNQMSLRLLQQSKLGHIVSSNQIRYFDNIKQTRKEYIELEQKVANLSSNPKIAELESQLDEERNKKRQLRLDFEKLADQMADLRSEKTRILEQIEESRDALSNYLKEQKEWNQKYPTLLPIAYNQFNALKVRYQSNYDLISRDLAQSTIQIKSQNARAEADVVNLMRAYIINYHFGAAPDLSELIEFEKEYVLIKDNNLMKYEQEAIDLRKASETGFREEFVGKLRASIESAQIQIAELNQALTGKHFGTDSYELVTKPSENPEFRTYYDIIMDSDAVAKHTLFTENLSKRKEIILMELFNKIASFDPENDKFALQFLDYRYYMSYDIEVTNENGNKSYFSKVSKEKSGGETQVPFYIVIAASFQQLLSKNKRIDAGCMVLFDEAFNNMDESRIDAMMKFYNSLSIQLFIAVPPQRVSNIVNYVTTSLAIVKDNDFAIVEAFKREVI
>LS483439.1|SQH56657.1|452757_453396_+|Uncharacterised-protein
MMNKNQAIKKLSEEFVVLKEAEKTVFSRIVNKLLQVNFITRKKIADANDYRFVLAYKEIFEAYFCLSDFELIIERHEEVLYIKNISNFNHLRLRKAESILLLIIRMLYQSKMNVITLDENVEIYLSEVHDELTKVGYLDNKRMTKETLKPSLQLLKSYNIIDYMDSKLNDDARIKIYPTILYVIRTDSIKELLDHIDDYVKGGNVNEEVDED
>LS483439.1|SQH56656.1|451387_452761_+|Uncharacterised-protein
MHLFDNIPDTLFNVLSSPNKHIYVDCLFIIYDATNSIENAFQGERGYVIDKLVDYFDELKEDFQMGDSEVTTSRQKSVSVINVLKQNGWLGEEELGDYKTSLNLFDYSIKIIDLLKRIQMGEENEYTGEIYTVYSLLSSFDILDGLTIVEQAYQKIEDVLRKLKTLKANIYRFYFDLVKKDRKDDLQKVLEKLLIDYKTNFFDSAYYHLKTTDSLPRYKRSILENISYIYQNEGFMETMAEQALTKRKALQYNDAYNYVEERIRYIKDSIDAIEYLIEGIDNKNELYINAAASKIMFLTNTSEDLEGLMNRLFKIILSDKKVDYSQIFNLFRARNLDENSLQTVRRPRVDAVAEEIDYNQDISDEVKERKMASLLKANLFSKKEINNYVTYLLGDAPRILASHIELESNDDFVKLILIFLFSKSTGMVYDVRLLNYDTRIGHIKFTDFEIFVKGKSL
>LS483439.1|SQH56655.1|449533_451177_+|DEAD-box-ATP-dependent-RNA-helicase-CshA
MAILFNDLPILDTTKVALEKLGFTEATPIQEQAIPKMILGLDLIGQAQTGTGKTFAFGIPMVEKTDTSLRQTQGLILTPTRELTNQVYKEIIKLVKFYPELRVTTIVGGESYEKQFKELDRKPHIIVATPGRIIDHIDRGTVDLSHITTLTLDEADEMLKMGFQDDIERILQTTPETRQTVLFSATMPAFIKKIAKNYQKNPELIKIEAKSLTVDRITQAYFLVKEKEKQSLLERLLDFENPSTAIIFVNTKAGADRITESLQKAGFTADALHGDLKQSQRTYVMNRFRSKQLSILVATDVAARGLDVDDVEIIVNYDLPQQDEIYVHRIGRTGRAGKKGKAFTFVTPLKRRMLDMLAHYTKADIKRLEVPTADDVYKEQLKTFKHKIKTELANEYPNHLEAIKELLVDEGSKDQLLNYLLDSMLPTKKTYETIEIIPEKASRRSQDERGNDKGRKDSRSSRDASPARGSGQYVDFTLNIGKADGLTPPTLFKFMEKEYGIFSKNIGDIRHHKNETVFGLRKDSVRRLNAKKEVNYKGRKVVIKTLN
>LS483439.1|SQH56654.1|448924_449434_+|Uncharacterised-protein
MRVEIWFDFNQESLEVINNLNNAFERFKHSKDVDILFRSLPQKEEHFKYHEIFQYGRKKGLKHSYLCTVFDLFKSKTDLTTGLESRLSPYHVDIKDLQTNLKDHKSLRIVKNQLEHAALQKIDTAPTLTFTHGFRLVGVSSISDIEQTLIKMYEKDSGIKYCIEEDCER
>LS483439.1|SQH56653.1|448403_448850_+|EIIABC-Fru
MNLFEIDHIHLDLEVSSKDELFDFIANALKALGRITESADFKKALEKRESEISTGLGEGLGMPHTLDTSVMFPTMLYIRLKNEIDYQAIDGLPVKEIYAIAMPNSYQKEHLELISKIATIYIDETSKQEIRALDTKESIHSFISKNLK
>LS483439.1|SQH56652.1|448073_448307_+|Copper-ion-binding-protein
MKKTTIQLETLTCPSCLQKINNAVKGLDGVNKDSVNVMFNSSKVKLEFDDSKLDIDKIEQAIKSQGYEVIKSNTKDI
>LS483439.1|SQH56651.1|446179_448000_+|Probable-cadmium-transporting-ATPase
MILSFLLIVSGFIAHYVFDQKLIFDVTFIIASVIGVLPIAISAFQALKVKVISIDLLVTIAVVGAFIIKAYEESAIVTFLFLFGAYLEQRTLNKTRSAIKALTEMAPETALKKMDDGEFLEVGIDDVEVTDILLVKTGAKVPVDGIVLSGSAYINEASITGEAVSVKKVVDSKVFAGTILDNGTIEIIAQKVGEDTTFGKIIELVEEAQDSKSEAEKFIDRFATWYTPFVLVLALIVWVITQDVALAITILVLGCPGALVIGVPVSNVAGIGNGARHGVLLKGSEVIGNFSKVDTIVFDKTGTLTIGHPVLRYEAYYELDKKDIIPYIYSVEKQSDHPLAKAITNHLKDAKTLPIDHTDVIKGGGIVASIHERKVFIGNTVLMKDNGIEIKSDIMDEISRLEHEGHSIVLTAIDEKLVSLMGIRDEVRPNLKKDLKHIKKMGVKNLIVLSGDNQGSVDIVAKELGLTKAIGNMLPEDKANYIKELMNEGHIIAFVGDGVNDSPSIALAHIGIAMGGGTDVAIETSDVVLMNDNINKLPHALGLAKATKHNMIQNILIAIGVVVVLLVSLFWGEWVNMSIGMLVHEASILVVILNAMRLLRFKTKIN
>LS483439.1|SQH56650.1|445841_446144_+|iron-sulfur-cluster-repair-di-iron-protein
MKENSFKLARNTYMDKLKMYVPIVDRVHGKLHPEFHDVRRVFDVLDDKLNQSNLDLKNEFEALKVITNHYKVPHDVCESYEAVYQMLEELNKAYDESAVV
>LS483439.1|SQH56660.1|458770_459691_+|Protein-involved-in-cell-division
MEYKNISYFATKWNIKERRIRVLCTEGRIHGVKKVGKTWLIPEDAQKPIDKRYRQVNDLFFDSIDFSIIDEKKDTIDSHRPFSQNMTRQLRDKLIIEWTYNSNAIEGNTLTLSETKVVLENGITIKGKPLKDHLEIINHKEAIEYIEDLVSKNVKLSEYDIKAVHYLILKEIDSTNAGKYRQENVFISGAKHVPSVYLNVPYEMQKMIEKYQSWKDLHPVVRACYLHGEFVKIHPFIDGNGRTARLLLNFELIQSGYPPVVIKTENRADYYDTLDKAHTTNNYTDFIKIIVDLVNESENLYLYLIG
>LS483439.1|SQH56661.1|459710_460133_+|Uncharacterised-protein
MTGDILKLLSELNWNNKEKQTIAIKVLSSRKDYNFKMLIAPLQNEFYENQGIWWKDIALGCAIVLSNKSDSEIINLLPDLLVWLQDLNWPGAVEVFERLKKIPYLLIKKYLNDTIYKAQIENDDQWIEWLTLLNKSLLTL
>LS483439.1|SQH56662.1|460424_461717_+|23S-rRNA-(uracil-C(5))-methyltransferase-RlmCD
MVEVYLITSIAKIMRLKVKTNDLDYQGQGVTRIDDKVTFIKGMFDDEVGIIEITKSKKNFQQAKLVELIQKNKQRVSENSFDYAPFFGLSLKAECLWQQKITKETIKKITNLDVEVEDTITDGKKLNYRNKITLHVKHIGGSLKIGTYEENSNYLEPIETHHLALPVINDKITVLNKWLKTFKLETNDIKNFTLRTNGKDVMLIIGIKLKFEGTESIIDELKKHFESIYLNIEKRSFENLSDESIHVYGLETLKMTFNHLSFEIGPESFFQVNKDVAILMYDEIKKLTQNHTVIDAYAGMASIGQYIDAKKVYAIESNLDSIIQAKKILKVNQVDHVELIHGQVEEKLEAYIKHADAIVFDPPRSGLTESIIELVKLNQIKTIVYVSCDLKSLARDINGLKDLYDIKKIIPVRMFPSTIHMETITLLSLK
>LS483439.1|SQH56663.1|461909_462650_+|Uncharacterised-protein
MVWLSKRSKDNFYDTLKILKNEKTMHFVYAELRKYIENTFGITVFNITIDKFGFFDRPKKNSFFYQKKYLLAIHVSSYSEREMMQNKVSVELANFPTAYKMVNDKIKQDLIMDKLIELTKLKNFKTKINKTNTYVDYRFGFTTDYAEILLDKIEKGITKEILNEFKEKAHIWRIEKMFSTVTIFYFTELDKIENEKNGITHIIRDRYLSRIKEIDSINLFKEEYIVFDTKENVDKNYGGNLFYYFR
>LS483439.1|SQH56664.1|462829_463243_+|Uncharacterised-protein
MKKKIIVNPAIYPVFIIAIVGTIILIQRLITTETYINTAQEVATYIYMLAMVFSVFYLGRYIIKPVPLSYDNNEIVIKMYFRNDVRLSYKEIVKAEYYNRYMRLIIHTKHKKYKFTFVIKTSELKEILKKKVKDSDF
>LS483439.1|SQH56665.1|463457_465050_+|H(+)/Cl(-)-exchange-transporter-ClcA
MMKEKTSLNHMLVIVLLYSGITGIITGLFLYLFRYLSSLLLELTYSIYLSVQSNLWYLPFFVIGLVVLAYLVSLLIKWEPHAGGGAISRAAGFVRGILLFNWLKTLISTFISAQLVFFAGLPFGIEGPSVIMGTAISGGVDDLGKAHPAHRKYLLTAGASAGFSIATGSIFAGTIFTLEEMHKKFSFMLLSVAMSGAVFASVTMRILDYVFGNHTAFFSLTNEFKNIPFEFIWLAPLLGIGAGLLAAGFNFLIDFFGNMSAYKFKKVPLFVKLTINFLLVGFVGLFVIETIGNGHHSIIEPLFDRQFSFGMIVLLIVLKIITIVVSSSGTTGGLFIPVLVIGALYAGIFNEVSILIGLNSEYTAAIVLIGMSVFFSTSMQAPITTIAFIIEASLHPETIIFMMVAILAGILIAELLHMKPLNEIALKRFMKIQDQNRVWNLYNAKATIQENAFVIGKTVRDILWPANTLIKELIQENQQNATNIAVHGGDRVLTYRDQILFQIQSFDIERTLKELQDLIGIQEVEIELIR
>LS483439.1|SQH56666.1|465202_466012_+|transcriptional-repressor-DicA
MEQLKTIILERRKTLRLTQKELAQKLNVSDKVISKWETGSSLPDITLINPLAELLGITVSELLSAKELSKPVLNEEVNLKIITKFKVLYFIALGLFIVSLLIFPFGNYLVTKNEEAIGMILIVISIIFLISSIITYLVNNVWFRGLYTKYFYRKPYDLVFYKYNLVVIDIVSITLYALTLMVNHLAFLLIIAIIISTIIFLGKHKLAKSTMYIFKNRNQLLFIIALYLISLLIFIISYLYGKSWMTIFFTIPLYISITSYKFYRLDYSN
>LS483439.1|SQH56667.1|466154_466643_+|Predicted-acetyltransferase
MDFNHITIEYISDINSEQLQNIERSDVSESFVDSLDSINAYTNYGLEHHLKGHTYLIKYQNVLAGVLLIGEGISWETDPLELKDVPFYRLMDFIIIQKYRNVGLGSFVIEKVISNMYEEFGVRPIVLGVHKDNIGAEKFYYKHGFVKTNYMDDDDYYFIRWT
>LS483439.1|SQH56668.1|466614_466737_+|Uncharacterised-protein
MIITLFAGLSHKKEKKYKNIYHQVSQMFTVINDNVKFINL
>LS483439.1|SQH56669.1|466774_467851_+|Diguanylate-cyclase-YdeH
MFIKSMIKGLFFNMNPLFERNKHDIIRYNKQLIPIAFIFSLVTILIPMFFSLFRPSMLETLPAYLVIFSVFILLLILFNFKPFHEKPLVFAYTFGIVFFIFVVYLSIDRFQSRPAGTALIFFVVAPIIFVDKPYKINIYLVLMFIIHTILSFQYKTFDIASVDLLNTFISLVAGMLFGRIFLVTRLKNFDIHRALLIERETDFLTGLPNRRSLFEYAQKDTFKAYNYMGLMMFDIDRFKKYNDNYGHLNGDQVLTEFARLLEVFSKTYPVKFYRYGGEEFIGITYNLDKLEIINLANHIKMDTFKLKVPFEQITTSIGVTVTDKTDNIDINDLIEQADKALYSGKNSGRNKVIFYEKK

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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
LS483439_1	1.1\|458702\|31\|LS483439\|CRISPRCasFinder	458702-458732	31	NZ_CP050081	Rhizobium leguminosarum bv. trifolii strain 31B plasmid pRL31b5, complete sequence	709334-709364	6	0.806
LS483439_1	1.1\|458702\|31\|LS483439\|CRISPRCasFinder	458702-458732	31	NZ_CP049731	Rhizobium leguminosarum strain A1 plasmid pRL12, complete sequence	744608-744638	6	0.806

1. spacer 1.1|458702|31|LS483439|CRISPRCasFinder matches to NZ_CP050081 (Rhizobium leguminosarum bv. trifolii strain 31B plasmid pRL31b5, complete sequence) position: , mismatch: 6, identity: 0.806

gttga-cttagcgaataaactatgatatactg	CRISPR spacer
-tcgattttagcgaatgaactatgctatacta	Protospacer
 *.** .*********.******* ******.

2. spacer 1.1|458702|31|LS483439|CRISPRCasFinder matches to NZ_CP049731 (Rhizobium leguminosarum strain A1 plasmid pRL12, complete sequence) position: , mismatch: 6, identity: 0.806

gttga-cttagcgaataaactatgatatactg	CRISPR spacer
-tcgattttagcgaatgaactatgctatacta	Protospacer
 *.** .*********.******* ******.

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

593806 : 647484

Caldibacillus_phage(15.0%)

portal,capsid,terminase,tail,protease,tRNA,head

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
SQH56781.1\|593806_594934_+\|tRNA	tRNA-specific 2-thiouridylase mnmA	NA	NA	NA	NA
SQH56782.1\|594933_597183_+	Exodeoxyribonuclease V alpha chain	A0A0K2FLP8	Brevibacillus_phage	3.7e-61	28.1
SQH56783.1\|597238_597982_-	Predicted esterase	NA	NA	NA	NA
SQH56784.1\|597982_598789_-	P-protein	NA	NA	NA	NA
SQH56785.1\|598928_600122_+	Putative ring-cleaving dioxygenase mhqO	NA	NA	NA	NA
SQH56786.1\|600118_601105_+	Putative ring-cleaving dioxygenase mhqO	NA	NA	NA	NA
SQH56787.1\|601114_601561_+	Uncharacterized HTH-type transcriptional regulator yusO	NA	NA	NA	NA
SQH56788.1\|601557_602151_+	putative hydrolase	NA	NA	NA	NA
SQH56789.1\|602219_602669_+	Uncharacterised protein	NA	NA	NA	NA
SQH56790.1\|602661_603078_+	adenosine nucleotide hydrolase NudE	NA	NA	NA	NA
SQH56791.1\|603074_604217_+	23S rRNA (uracil-C(5))-methyltransferase RlmCD	F5CA72	Streptococcus_phi-m46.1-like_phage	1.1e-53	33.7
SQH56792.1\|604423_604741_+	Uncharacterised protein	NA	NA	NA	NA
SQH56793.1\|605986_607327_+	Uncharacterised protein	NA	NA	NA	NA
SQH56794.1\|607386_609591_+	cytochrome c biogenesis protein CcmA	NA	NA	NA	NA
SQH56795.1\|609742_610417_+	Adenylate and Guanylate cyclase catalytic domain	NA	NA	NA	NA
SQH56796.1\|610401_610929_+	Uncharacterised protein	NA	NA	NA	NA
SQH56797.1\|611037_611490_+	Uncharacterised protein	NA	NA	NA	NA
SQH56798.1\|611764_612187_+	Uncharacterised protein	NA	NA	NA	NA
SQH56799.1\|612231_612609_+	Uncharacterised protein	NA	NA	NA	NA
SQH56800.1\|613212_614931_-	Transposon Tn1000 resolvase	A0A2K5B2B4	Erysipelothrix_phage	9.1e-92	40.7
SQH56801.1\|615320_615920_-	Helix-turn-helix	NA	NA	NA	NA
SQH56802.1\|616156_616468_+	Helix-turn-helix domain	NA	NA	NA	NA
SQH56803.1\|616537_617470_+	Tyrosine recombinase XerC	W8EHC2	Mycobacterium_phage	3.7e-07	27.3
SQH56804.1\|617492_618239_+	Uncharacterized phage-encoded protein	NA	NA	NA	NA
SQH56805.1\|618222_618435_+	DNA binding domain, excisionase family	NA	NA	NA	NA
SQH56806.1\|618576_619500_+	Uncharacterised protein	D2IYU0	Enterococcus_phage	1.1e-14	38.5
SQH56807.1\|619459_619906_+	Uncharacterised protein	NA	NA	NA	NA
SQH56808.1\|620001_621489_+	Type I restriction enzyme EcoKI M protein	A0A2H4PQP4	Staphylococcus_phage	1.4e-43	29.2
SQH56809.1\|621478_622738_+	EcoKI restriction-modification system protein HsdS	NA	NA	NA	NA
SQH56810.1\|622742_625886_+	Type-1 restriction enzyme R protein	A0A220A398	Liberibacter_phage	1.4e-66	27.9
SQH56811.1\|625955_626942_+	Uncharacterised protein	NA	NA	NA	NA
SQH56812.1\|627270_627795_+	Uncharacterised protein	A0A2K9V3J2	Faecalibacterium_phage	4.7e-07	31.1
SQH56813.1\|627742_628942_+	Modification methylase DpnIIB	Q708N6	Streptococcus_phage	1.4e-99	48.8
SQH56814.1\|629033_629360_+	Uncharacterised protein	NA	NA	NA	NA
SQH56815.1\|629337_629772_+	Uncharacterised protein	NA	NA	NA	NA
SQH56816.1\|629764_630151_+	Uncharacterised protein	U5JA61	Bacillus_phage	2.1e-12	35.3
SQH56817.1\|630147_630453_+	Uncharacterised protein	NA	NA	NA	NA
SQH56818.1\|630500_631649_+	S-adenosylmethionine synthase	A0A2H4PQS6	Staphylococcus_phage	6.9e-88	46.5
SQH56819.1\|631964_632996_+	Uncharacterised protein	NA	NA	NA	NA
SQH56820.1\|633005_634691_+	Uncharacterised protein	NA	NA	NA	NA
SQH56821.1\|634807_636373_+	Uncharacterised protein	A0A1S5SA14	Streptococcus_phage	8.7e-41	31.1
SQH56822.1\|636398_637226_+	Protein of uncharacterised function (DUF2971)	NA	NA	NA	NA
SQH56823.1\|637253_637586_+	Uncharacterised protein	A0A290GJQ7	Caldibacillus_phage	3.8e-07	32.4
SQH56824.1\|637582_639220_+\|terminase	Phage terminase-like protein, large subunit	A0A290GJW3	Caldibacillus_phage	2.4e-110	40.6
SQH56825.1\|639237_639762_+	Uncharacterised protein	NA	NA	NA	NA
SQH56826.1\|639777_640992_+\|portal	phage portal protein, HK97 family	A0A290G4I4	Caldibacillus_phage	4.6e-42	31.8
SQH56827.1\|640966_641170_+	Uncharacterised protein	NA	NA	NA	NA
SQH56828.1\|641166_641763_+\|head,protease	phage prohead protease, HK97 family	V5USG3	Enterococcus_phage	1.6e-24	39.6
SQH56829.1\|641767_642895_+\|capsid	Predicted phage phi-C31 gp36 major capsid-like protein	H7BUQ0	unidentified_phage	1.9e-61	46.7
SQH56830.1\|642920_643211_+	Uncharacterised protein	NA	NA	NA	NA
SQH56831.1\|643197_643536_+	Uncharacterised protein	NA	NA	NA	NA
SQH56832.1\|643519_643897_+	phage protein, HK97 gp10 family	NA	NA	NA	NA
SQH56833.1\|643886_644240_+	Uncharacterised protein	NA	NA	NA	NA
SQH56834.1\|644229_644799_+\|tail	phage major tail protein, phi13 family	A6M958	Geobacillus_virus	2.9e-26	38.7
SQH56835.1\|644800_645136_+	Uncharacterised protein	E3W8G2	Leuconostoc_phage	8.1e-05	36.4
SQH56836.1\|645345_647484_+\|tail	Phage-related minor tail protein	G8CLB5	Synechococcus_phage	1.9e-14	29.3

DBSCAN-SWA_2

959183 : 966734

Bacillus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
SQH57140.1\|959183_959411_-	Predicted transcriptional regulator	A0A2K5B261	Erysipelothrix_phage	2.8e-09	44.6
SQH57141.1\|959677_960202_-	Uncharacterized protein conserved in bacteria	A0A2D2W2H2	Stenotrophomonas_phage	6.5e-09	25.8
SQH57142.1\|960314_960728_-	Uncharacterised protein	NA	NA	NA	NA
SQH57143.1\|960755_961040_-	HNH endonuclease	A0A0A8WJ48	Clostridium_phage	9.9e-12	49.3
SQH57144.1\|961698_962085_-	Uncharacterised protein	NA	NA	NA	NA
SQH57145.1\|962334_962745_-	Integrase core domain	A0A1B1P773	Bacillus_phage	1.5e-24	43.4
SQH57146.1\|963041_963359_-	Uncharacterised protein	NA	NA	NA	NA
SQH57147.1\|963759_965571_-	Lipid A export ATP-binding/permease protein MsbA	W8CYL7	Bacillus_phage	2.8e-51	27.7
SQH57148.1\|965567_966734_-	Putative multidrug export ATP-binding/permease protein SAV1866	W8CYL7	Bacillus_phage	1.8e-35	29.8

DBSCAN-SWA_3

1114967 : 1124626

Enterococcus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
SQH57286.1\|1114967_1115819_-	Type-2 restriction enzyme DpnII	A0A2H4JAL2	uncultured_Caudovirales_phage	1.0e-27	33.2
SQH57287.1\|1115815_1116586_-	Modification methylase DpnIIB	A0A249XUJ2	Enterococcus_phage	5.2e-31	36.1
SQH57288.1\|1116578_1117406_-	Modification methylase DpnIIA	A0A1S5PRR3	Streptococcus_phage	5.4e-58	43.6
SQH57289.1\|1117655_1118234_+	Putative transposon Tn552 DNA-invertase bin3	M9Q1K0	Clostridium_phage	1.5e-11	28.5
SQH57290.1\|1118228_1118609_-	CTP pyrophosphohydrolase	NA	NA	NA	NA
SQH57291.1\|1118592_1121553_-	type I restriction enzyme EcoKI subunit R	A0A097BY72	Enterococcus_phage	3.8e-29	29.0
SQH57292.1\|1121588_1122728_-	Uncharacterised protein	NA	NA	NA	NA
SQH57293.1\|1122745_1124626_-	UDP-glucose 4-epimerase	A0A1V0SAI8	Catovirus	5.7e-23	27.1

Anti-CRISPR protein detection

Acr_ID: LS483439.1|SQH56815.1|629337_629772_+|Uncharacterised-protein

Click the colored protein region to show detailed information

Acr ID

Acr position

Acr size

Homology with known anti

Neighbor HTH/AcRanker

Neighbor Aca

In prophage

Protospacer in prophage

LS483439.1|SQH56815.1|629337_629772_+|Uncharacterised-protein

629337_629772_+

144 aa aa

hit_Aca_id	identity	query_coverage	hit_coverage
gnl\|BL_ORD_ID\|45	0.9791666666666666	1	0.993103448275862

593806-647484

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. LS483439

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

Click the colored protein region to show detailed information