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
CP025568	Listeria monocytogenes strain PIR00540 chromosome, complete genome	2 crisprs	WYL,casR,cas3,DEDDh,DinG,csa3	0	1	7	0
CP025569	Listeria monocytogenes strain PIR00540 plasmid pPIR00540, complete sequence	0 crisprs	csa3	0	0	5	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: CP025568_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

CP025568_1

164615-164725

Orphan

Consensus_repeat	Method
TTTTGAAAGTTCTGGGAAGGATTAAATCATCGCT	CRISPRCasFinder

1 spacers

The CRISPR arrays of CP025568_1

>merge|CP025568|1|164615-164725|CRISPRCasFinder
TTTTGAAAGTTCTGGGAAGGATTAAATCATCGCTTTGCTCAGATTTATATTGAAGAACTAAATCAAAATAAAGTACATTTTGAAAGTTCTGGGAAGGATTAAATCATCGCT

>CP025568|1|1|164615-164725|CRISPRCasFinder
TTTTGAAAGTTCTGGGAAGGATTAAATCATCGCT	TTGCTCAGATTTATATTGAAGAACTAAATCAAAATAAAGTACA
TTTTGAAAGTTCTGGGAAGGATTAAATCATCGCT

Protein	Signature genes	Signature genes Name	Protein_function
CP025568.1\|AVU79012.1\|164047_164512_+\|DUF3284-domain-containing-protein	unknown	unknown	gnl\|CDD\|378692
CP025568.1\|AVU79019.1\|169856_170708_-\|MurR/RpiR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|224651
CP025568.1\|AVU79006.1\|158102_159617_+\|gluconate-kinase	unknown	unknown	gnl\|CDD\|212659
CP025568.1\|AVU79005.1\|157048_157987_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|226309
CP025568.1\|AVU79013.1\|164838_166578_+\|DNA-polymerase-III-subunit-gamma/tau	unknown	unknown	gnl\|CDD\|235505
CP025568.1\|AVU79008.1\|161527_161683_-\|hypothetical-protein	unknown	unknown	unknown
CP025568.1\|AVU79021.1\|171191_171788_-\|dihydroxyacetone-kinase-subunit-L	unknown	unknown	gnl\|CDD\|274099
CP025568.1\|AVU79014.1\|166607_166925_+\|YbaB/EbfC-family-nucleoid-associated-protein	unknown	unknown	gnl\|CDD\|234669
CP025568.1\|AVU79003.1\|154178_155918_+\|thiol-reductant-ABC-exporter-subunit-CydC	unknown	unknown	gnl\|CDD\|227320
CP025568.1\|AVU79015.1\|167033_167630_+\|recombination-protein-RecR	unknown	unknown	gnl\|CDD\|234616
CP025568.1\|AVU79009.1\|162124_163489_+\|PTS-sugar-transporter-subunit-IIC	unknown	unknown	gnl\|CDD\|224372
CP025568.1\|AVU79011.1\|163847_164030_+\|DUF3188-domain-containing-protein	unknown	unknown	gnl\|CDD\|371501
CP025568.1\|AVU79010.1\|163623_163845_+\|hypothetical-protein	unknown	unknown	unknown
CP025568.1\|AVU79007.1\|160314_160956_+\|hypothetical-protein	unknown	unknown	unknown
CP025568.1\|AVU79017.1\|167935_168778_-\|aldo/keto-reductase	unknown	unknown	gnl\|CDD\|223729
CP025568.1\|AVU79016.1\|167644_167890_+\|DUF2508-domain-containing-protein	unknown	unknown	gnl\|CDD\|378478
CP025568.1\|AVU79004.1\|156058_157006_+\|cell-surface-protein	unknown	unknown	gnl\|CDD\|273478
CP025568.1\|AVU79020.1\|170813_171188_-\|PTS-dependent-dihydroxyacetone-kinase-phosphotransferase-subunit-DhaM	unknown	unknown	gnl\|CDD\|184702
CP025568.1\|AVU79022.1\|171809_172799_-\|dihydroxyacetone-kinase-subunit-DhaK	unknown	unknown	gnl\|CDD\|237724
CP025568.1\|AVU79018.1\|168898_169738_-\|Cof-type-HAD-IIB-family-hydrolase	unknown	unknown	gnl\|CDD\|319818

Protein	Function_ID	Function_description	E-value
CP025568.1\|AVU79012.1\|164047_164512_+\|DUF3284-domain-containing-protein	gnl\|CDD\|378692	pfam11687, DUF3284, Domain of unknown function (DUF3284). This family of proteins with unknown function appears to be restricted to Firmicutes.	5.35099e-31
CP025568.1\|AVU79019.1\|169856_170708_-\|MurR/RpiR-family-transcriptional-regulator	gnl\|CDD\|224651	COG1737, RpiR, Transcriptional regulators [Transcription].	6.1079e-63
CP025568.1\|AVU79005.1\|157048_157987_+\|hypothetical-protein	gnl\|CDD\|226309	COG3786, COG3786, Uncharacterized protein conserved in bacteria [Function unknown].	3.04876e-98
CP025568.1\|AVU79006.1\|158102_159617_+\|gluconate-kinase	gnl\|CDD\|212659	cd07770, FGGY_GntK, Gluconate kinases; a subfamily of the FGGY family of carbohydrate kinases. This subfamily is composed of a group of gluconate kinases (GntK, also known as gluconokinase; EC 2.7.1.12) encoded by the gntK gene, which catalyzes the ATP-dependent phosphorylation of D-gluconate and produce 6-phospho-D-gluconate and ADP. The presence of Mg2+ might be required for catalytic activity. The prototypical member of this subfamily is GntK from Lactobacillus acidophilus. Unlike Escherichia coli GntK, which belongs to the superfamily of P-loop containing nucleoside triphosphate hydrolases, members in this subfamily are homologous to glycerol kinase, xylulose kinase, and rhamnulokinase from Escherichia coli. They have been classified as members of the FGGY family of carbohydrate kinases, which contain two large domains separated by a deep cleft that forms the active site. This model spans both the N-terminal domain, which adopts a ribonuclease H-like fold, and the structurally related C-terminal domain. Some uncharacterized homologous sequences are also included in this subfamily. The Lactobacillus gnt operon contains a single gntK gene. The gnt operons of some bacteria, such as Corynebacterium glutamicum, have two gntK genes. For example, the C. glutamicum gnt operon has both a gluconate kinase gntV gene (also known as gntK) and a second hypothetical gntK gene (also known as gntK2). Both gluconate kinases encoded by these genes belong to this family, however the protein encoded by C. glutamicum gntV is not included in this model as it is truncated in the C-terminal domain.	0
CP025568.1\|AVU79014.1\|166607_166925_+\|YbaB/EbfC-family-nucleoid-associated-protein	gnl\|CDD\|234669	PRK00153, PRK00153, YbaB/EbfC family nucleoid-associated protein.	3.53269e-41
CP025568.1\|AVU79004.1\|156058_157006_+\|cell-surface-protein	gnl\|CDD\|273478	TIGR01167, Zinc_metalloprotease_ZmpB, LPXTG-motif cell wall anchor domain. This model describes the LPXTG motif-containing region found at the C-terminus of many surface proteins of Streptococcus and Streptomyces species. Cleavage between the Thr and Gly by sortase or a related enzyme leads to covalent anchoring at the new C-terminal Thr to the cell wall. Hits that do not lie at the C-terminus or are not found in Gram-positive bacteria are probably false-positive. A common feature of this proteins containing this domain appears to be a high proportion of charged and zwitterionic residues immediatedly upstream of the LPXTG motif. This model differs from other descriptions of the LPXTG region by including a portion of that upstream charged region. [Cell envelope, Other].	1.13667e-05
CP025568.1\|AVU79022.1\|171809_172799_-\|dihydroxyacetone-kinase-subunit-DhaK	gnl\|CDD\|237724	PRK14481, PRK14481, dihydroxyacetone kinase subunit DhaK; Provisional.	0
CP025568.1\|AVU79016.1\|167644_167890_+\|DUF2508-domain-containing-protein	gnl\|CDD\|378478	pfam10704, DUF2508, Protein of unknown function (DUF2508). This family is conserved in Firmicutes. Several members are annotated as being the protein YaaL. The function is not known.	2.68189e-15
CP025568.1\|AVU79015.1\|167033_167630_+\|recombination-protein-RecR	gnl\|CDD\|234616	PRK00076, recR, recombination protein RecR; Reviewed.	7.77001e-132
CP025568.1\|AVU79009.1\|162124_163489_+\|PTS-sugar-transporter-subunit-IIC	gnl\|CDD\|224372	COG1455, CelB, Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism].	3.47828e-162
CP025568.1\|AVU79011.1\|163847_164030_+\|DUF3188-domain-containing-protein	gnl\|CDD\|371501	pfam11384, DUF3188, Protein of unknown function (DUF3188). This bacterial family of proteins has no known function.	1.21027e-11
CP025568.1\|AVU79017.1\|167935_168778_-\|aldo/keto-reductase	gnl\|CDD\|223729	COG0656, ARA1, Aldo/keto reductases, related to diketogulonate reductase [General function prediction only].	6.97706e-130
CP025568.1\|AVU79020.1\|170813_171188_-\|PTS-dependent-dihydroxyacetone-kinase-phosphotransferase-subunit-DhaM	gnl\|CDD\|184702	PRK14484, PRK14484, phosphotransferase mannnose-specific family component IIA; Provisional.	1.1917e-48
CP025568.1\|AVU79021.1\|171191_171788_-\|dihydroxyacetone-kinase-subunit-L	gnl\|CDD\|274099	TIGR02365, dha_L_ycgS, dihydroxyacetone kinase, phosphoprotein-dependent, L subunit. Two types of dihydroxyacetone kinase (glycerone kinase) are described. In yeast and a few bacteria, e.g. Citrobacter freundii, the enzyme is a single chain that uses ATP as phosphoryl donor and is designated EC 2.7.1.29. By contract, E. coli and many other bacterial species have a multisubunit form (EC 2.7.1.-) with a phosphoprotein donor related to PTS transport proteins. This family represents the subunit homologous to the E. coli YcgS subunit.	3.29756e-82
CP025568.1\|AVU79003.1\|154178_155918_+\|thiol-reductant-ABC-exporter-subunit-CydC	gnl\|CDD\|227320	COG4987, CydC, ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones].	0
CP025568.1\|AVU79013.1\|164838_166578_+\|DNA-polymerase-III-subunit-gamma/tau	gnl\|CDD\|235505	PRK05563, PRK05563, DNA polymerase III subunits gamma and tau; Validated.	0
CP025568.1\|AVU79018.1\|168898_169738_-\|Cof-type-HAD-IIB-family-hydrolase	gnl\|CDD\|319818	cd07516, HAD_Pase, phosphatase, similar to Escherichia coli Cof and Thermotoga maritima TM0651; belongs to the haloacid dehalogenase-like superfamily. Escherichia coli Cof is involved in the hydrolysis of HMP-PP (4-amino-2-methyl-5-hydroxymethylpyrimidine pyrophosphate, an intermediate in thiamin biosynthesis), Cof also has phosphatase activity against the coenzymes pyridoxal phosphate (PLP) and FMN. Thermotoga maritima TM0651 acts as a phosphatase with a phosphorylated carbohydrate molecule as a possible substrate. Escherichia coli YbhA is also a member of this family and catalyzes the dephosphorylation of PLP, YbhA can also hydrolyze erythrose-4-phosphate and fructose-1,6-bis-phosphate. Members of this family belong to the haloacid dehalogenase-like (HAD) hydrolases, a large superfamily of diverse enzymes that catalyze carbon or phosphoryl group transfer reactions on a range of substrates, using an active site aspartate in nucleophilic catalysis. Members of this superfamily include 2-L-haloalkanoic acid dehalogenase, azetidine hydrolase, phosphonoacetaldehyde hydrolase, phosphoserine phosphatase, phosphomannomutase, P-type ATPases and many others. HAD hydrolases are found in all three kingdoms of life, and most genomes are predicted to contain multiple HAD-like proteins. Members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. HAD hydrolases are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.	1.49073e-86

>CP025568.1|AVU79012.1|164047_164512_+|DUF3284-domain-containing-protein
MNVTQKLYISQKECFDTLVSSAIYDVKNATGKTLQVRKLEGYKYQRTMSNGALATTKIVKVQPNELYQFETSSRVNTHTTTYTIKSTSETTCEVTYNELIETEKALNKMNNIIVGFMFGFFRKKRVKNLLKSIELSVINESKQKQEKLAAKSEQ
>CP025568.1|AVU79011.1|163847_164030_+|DUF3188-domain-containing-protein
MKIVNALFLISIGLIIIMFSPSYGKDGMASVPLLVTGLAVVLIGCVFIVLKIRKDKKEKN
>CP025568.1|AVU79010.1|163623_163845_+|hypothetical-protein
MIILNCPMKRDYITELLETYDKDGVTFKKIDEKGMKLTFETNIEDEEKAAKIAKETIKATEIGSVLYFQVSVG
>CP025568.1|AVU79009.1|162124_163489_+|PTS-sugar-transporter-subunit-IIC
MNGLTAFLEKYFVPVAAKIGSQKHLVALRDAFISTMPITMAGSIAVLLNAFFRDFPTDWGWTGFVEAMQPLIGINGYVYNGTLAIVSIIFAFSLGYNLSKAYEVDRLAGGLVSLAAFVMNLTVTVSLDAVKAAIAASNANFDVATLPKEFAGIYGFFSLSQVNGTGLFTAMIFGFISTIIYAKLMRRNIIIKMPDSVPPAVSKAFAAIIPALVALYVVGIIDWAFFKITNMDVITWISKTIQEPLLSLSQGYGAVLLVTFLVQLLWFFGIHGPNVLAPVLESLWGTAQLQNISAAQEGAKLPFEWVRGSFDAYVWMGGSGGTLVLIIALLMFSKRADARTVAKLSLAPGIFNINEPIMFGLPIVLNTIYLIPFLIAPMVMVTIAYFATTLGIVGPVKIAVVWVMPPLLNSFLATGGDWMAPVISLINMVVAFLIWVPFVITANRVGVPEEEMKA
>CP025568.1|AVU79008.1|161527_161683_-|hypothetical-protein
MAVKRDMPEESKNSKVVKKEHFSIVFPDDIKEPATVEEKKKQDAEKKTDDN
>CP025568.1|AVU79007.1|160314_160956_+|hypothetical-protein
MQQLKSKKKWLPALIVAVFVGIIVILAIMFGFFQRQEVFDKYEVAYEIDGKLYEVFPISATDIGVDKKSKDKNLYFRVNSYYNIDYLFRLAYKQYEINEPSTNKYYSGLIDYSVADNAYVTQKDVYITNNESYATYDFFDKNGKKIYTYNPEETSNDDYIVRIKPTILQGYEKSDIGSYDDYLNITALFKDKLGMDVNVRIDEDKEMVIFSIK
>CP025568.1|AVU79006.1|158102_159617_+|gluconate-kinase
MTSKPYIMGVDIGTSSTKAVLFNQRGEVIFRQATHYELITDETGKAEESPTEIFDAVLTSIQAVMKNINTEELAGISFSSAMHSLIMVGSNGELLTECITWADGRSSETLEKVKRDNYLFQLYEATGTPIHPMSPFAKICWLKEEKPTLFKRTEKFVDIKSYILYRLFGVWVMDESLASGTGLYNIMEHDWEFEAMEIVKLTPDFLPKVVPETYQLAGVKKEYAELMGIPENLPFIIGGSDGALANIGIQATGQNDVTITVGTSGAVRKLTDQFQIDSRGRTFCYGAGDGYFIAGGAVNNGGKVVEWGLQQFGSEAEISRRDFASFIAKIEEVPPGAAGLLFQPYLLGERAPFWTNDIRGGFVGLTINHTKAHFIRAILEGVAFNLAEVYEAVSAPDDIIYVTGGISAHDAWCKLLADILNREIRVPHTIEGSSLGAAIIGMRSLGILKDLNLKHTLPIKAVYHPSENVLKYAELRLIFKQVTTQLMSSYSQLNSWQKKFDINS
>CP025568.1|AVU79005.1|157048_157987_+|hypothetical-protein
MKKLLSGLIVVLMVSLLGHSFNAEAASYEKIIYDKAVNLKGVVNQSKRNDGINSKMYKTSSSVKYLGSAKKYDKKTLIITREGKTARAKWYYCKLGNTTIGWIDSRAFTNIGKPTIADAVPALWNSKKAIITTKPKSTTATTYFFQKNSAGNWYEVRHFTSHIGKWGFDPKFSEKSSGTPVGVYRTGIAFGQKGNPGTKLTFRAITNRSYWISNSNDKAYNTWQERNSSSSADEKMKIPQYKYGMEVKYNAKRVKGKGSAVFYHVDSPKYNYTLGCVAQSEANTKEVLKFADKNTLIVLGEESRIKTFYGIN
>CP025568.1|AVU79004.1|156058_157006_+|cell-surface-protein
MKKFHGLILTALVTCLIIPFSLAASAETNENGNNSTPTEEKTTDTTENIITEEKTEPAEPTKDTTVTPPQKSKVQTTIDITDSQEVYSYEQNSKIDLKDFTATLTDYTDTKLTNYRLAANSKLSTAQTGIQEVTLLGDNEDGKTTAVKLNYLVKEKTAQLTITDMNFDLETKIFTGKTKPFASVYMSSPADENFGEGTTTADKDGYFYAEWATTPKQITAYAFDESGNYSEEVTYQVPAKKQNEAVVTAPDKVKKIETKNAVKSATTKPTDVTKVTKDDKTDLPSTGDKGTEWIFVVAGVIVILVAVLLLRKRKK
>CP025568.1|AVU79003.1|154178_155918_+|thiol-reductant-ABC-exporter-subunit-CydC
MRKSSWIIPYIKENRGLFLLVIFLGTLTFASAGALMFTSGHLISKSSLMPESIMAVYISTVGVRAFGIMRSVSRYVERLSSHSLVLRILEKMRVRLYRLLEPQALLLKSRYKTGDILGLLAGDIEHLQNFYLTTMLPAIVSLVLYAGVVIALGAFSIPFAALFVLLIGLLVLVLPWVSLLYARGKNAYLKQGRNSLYQKFTDAVFGISDWKFSGREKTFISNYEKDEADMLRTENKQFHFVNWRDFFSQLVVGFMVIVMVYWSTAESRDGAFSGTLIAAFVLAIMALAEAFVPVSSAISDKSLYQDSLARLDKIEDPALPTFEEETKEIERINTENVVLKAENLTFAYNEKSPEILNGFDFTLQQGEKVAIIGRSGTGKSTFLKLVQGALLPTAGKVTMNDVEVEKLRPQIPELTSMLNQKAHLFSTTVLNNIRLGNQDASDEEVYEAAKKVQLHDFIMSMPDGYHTQMSEMGERFSGGERGRIALARILLQNTPIVILDEPTVGLDPITERDLLATIFETLADKSLIWVTHHLVGAEKMDRVLFLEEGKTLMEGPHAELMAEEPRYKRLYQLDRPIEL
>CP025568.1|AVU79013.1|164838_166578_+|DNA-polymerase-III-subunit-gamma/tau
MAYQALYRVFRPQSFQDVVGQEHVTKTLKNAIVQNKTSHAYLFSGPRGTGKTSAAKIFAKAINCEHGHDGEPCNECEICKGTTDGSIPDVLEIDAASNNGVEEIRDIREKVKYAPTVAKYKVYIIDEVHMLSTGAFNALLKTLEEPPKHVIFILATTEPHKLPLTIISRVQRFDFKRITTQDIIGRLKFILEEEKIPYDEKALMIVARAAEGGMRDALSLLDQVISYGSEEVTVEDALEITGSVAQNLLTKLVSAAFDGDAAEAISTLTALLAEGKDPVRLVEDLLVFFRDVLLYQKAPNLEETMERALIDDDFVALAKRADSLKVYEFVKILNTAQQQMRFSNHPGIYVEVALVQLTQAGQSVAGGGNVPADAASGSDVSDLKRQMEQMHQEIQTLKKQIASGAGAAPADKPTQNRGGSKKAINNGKQFKAPIGKINHVLGEAKKENLQLIRGCWGELLSMLMASQAALLNDAEPVAASQDTFVLKFKHEIHCQMAMDNPNFVETITSSIARLTQVNYTFIGIPEDQWADVRENFLHSHGSDADAEDGANPEAKKPAEDPFVAEAAKLVGEDLLEIKD
>CP025568.1|AVU79014.1|166607_166925_+|YbaB/EbfC-family-nucleoid-associated-protein
MRGMGNMQGMMKQMQKMQKEMAKAQADLEAQEFTGTAGGGMVTVKATGKRVITDVVINEEVVDPEDIEMLQDLVLAATNDVLKQIEDTTSQTMGKFTQGLNIPGM
>CP025568.1|AVU79015.1|167033_167630_+|recombination-protein-RecR
MHYPEPITKLIDSFMKLPGIGPKSAARLAFYVLDMKEDDVLDFAKALVDAKRNLSFCSVCGHITDKDPCYICADTSRDRSVICVVQESKDVIAMEKMRDFHGLYHVLHGTISPMDGIGPEDINIPDLLKRLQDDTIEEVILATNPNVEGEATAMYISRLLKPSGIKVTRIAHGLPVGGDLEYADEVTLSKAMEGRREV
>CP025568.1|AVU79016.1|167644_167890_+|DUF2508-domain-containing-protein
MESRSNKFGRKKNKKIGKLHKSYDAYLMELIEVTQENWHKQKVLMRKSFEYDPNLEYEEKKAEARYFYLFKEARTRQLKNK
>CP025568.1|AVU79017.1|167935_168778_-|aldo/keto-reductase
MTLSFSDTYRLNNGIEMPRHGFGVYKLTDEARMRTALETAVDVGYRLFDTASFYHNEKELGDFFASSGLKRDEFFVTTKMWNTEQGYDETLRAFEKSQKKLQLDQIDLYLVHWPKQDTFFDTWRAVEKLYDEGLVRAIGVSNFEAHHLDRLRTSANVLPVVDQLETHPHFPNHLLHRYLEELHIVHQAWSPLGRGGVLQEQILIDLAEKHGKSPAQIVLRWHLQNNISIIPKSETPSRIRENAAIYDFELSEADMRQVERLNTGERVSHAPDVMYVRSEI
>CP025568.1|AVU79018.1|168898_169738_-|Cof-type-HAD-IIB-family-hydrolase
MTTQAIILDIDGTLLNDDKQISPETKKALITAQENGVKLILASGRPTTGMHVYAEQLEMEKHHGLLVSYNGAKVVDCATNEELFNQALTVEEGKAVLEHMKQFEVKVMIDKEDYMYTNDVYDCYVPYRGEEINIIQYESRGGNFKLCEKDDLAAFLDYRLSKILTAGDPAYMQKNYQAMMAPFKDTLNCVFTADFYFEFTAQGIDKAKALDTVLTPMGIHAENVIAFGDGHNDITMVEYAGTGIAMQNAVPELKAAASSVTLSNNEDGIAHVLNSLIPS
>CP025568.1|AVU79019.1|169856_170708_-|MurR/RpiR-family-transcriptional-regulator
MNILIKIRELTNLTNSEKELANYILANPKKTLQFKPKELATAAFVSAATIYRLINKLGLNGIGELKIEIASSLRETSEEKDLNYDYPILESDTPYQIMTNLHQIYKGTIDETLNNADPEELVKIGEKLIQAKTIDVYAASANLFFAQNFKFQMQEIGVLVNVPEEDYIQSLSAANSDENHIAIVVSYGGRSRTLQRVVKILSENNVDIILITSMQDNPLVEFATHKIYMASAENHYNKVSSFSTRQSLLSIFDTLYSIYFNQNYEKNIQYKTTNYQKMNTELE
>CP025568.1|AVU79020.1|170813_171188_-|PTS-dependent-dihydroxyacetone-kinase-phosphotransferase-subunit-DhaM
MAKPYGVVIISHSKDVAKGVHDIIKEIAPDVSITHAGGTEDGRIGTSFDAVNEAIENNEANKVYTFYDLGSAKMNIETVEEISEKEIILFNAPILEGAYATAAQVQMDEKPEVIAANLKTIEIK
>CP025568.1|AVU79021.1|171191_171788_-|dihydroxyacetone-kinase-subunit-L
MTYDKDWALRWLNDFGERVQENKQLLSDLDQAIGDGDHGINMARGLGELKKAFTEKEPADLKDVFKTAGMTMVSKVGGASGPLYGTAFLNMSKAVDADTIDAVGLTKVIEAGLEGIEKRGKSHAGEKTMIDVWEPVVHALHQEDLTDDVVDAALQKTKDLKATKGRASYLGERSIGHLDPGAYSSALLFHAMLQTEVS
>CP025568.1|AVU79022.1|171809_172799_-|dihydroxyacetone-kinase-subunit-DhaK
MKKILNGTDQVVEQMVEGLVKSHADVVHRVEGTRVIARNDKRPGKVGLVSGGGSGHEPAHAGYVGRGMLSAAVCGDVFTSPTPDQIYEGIKAADQGAGVLLIVKNYTGDVMNFEMAADLADADDIKVEQIVVDDDIAVEDSTFTTGRRGVAGTVLVHKIIGAAAEAGASLDELKALGEKVIASVKTLGVALSPCTVPEVGHPGFELGDDEIELGIGIHGEPGFTREKIMPSASLAKQLYERISNESKLLAGDKVVVLVNGMGATPLMEQYVFANDVHELLKNAGVQVEKTLVGDYMTSLEMAGLSLTILKLEDEKWVDMLKLPVDTIAW

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Crispr_ID: CP025568_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

CP025568_3

576808-577096

Orphan

I-A

Consensus_repeat	Method
GTTTTAGTTACTTATTGTGAAATGTAAAT	PILER-CR
GTTTTAGTTACTTATTGTGAAATGTAAAT	CRISPRCasFinder
GTTTTAGTTACTTATTGTGAAATGTAAAT	CRT

4 spacers

The CRISPR arrays of CP025568_3

>merge|CP025568|3|576808-577096|PILER-CR,CRISPRCasFinder,CRT
GTTTTAGTTACTTATTGTGAAATGTAAATCGATAAAAAAGATATTAGTAATTTATTTGCAATTTAGTTTTAGTTACTTATTGTGAAATGTAAATTGCTCTCTTTTGTGTAAAGCACATCAAGCATGTAGCGTTTTAGTTACTTATTGTGAAATGTAAATGCGATTTTTGTCAAAGGGACAGCGATGGGTTACAAGTTTTAGTTACTTATTGTGAAATGTAAATTTACCACCAAAGTCCCTACACTCAATACCACCAAAGCGTTTTAGTTACTTATTGTGAAATATAAAT

>CP025568|3|1|576808-577096|PILER-CR
GTTTTAGTTACTTATTGTGAAATGTAAAT	CGATAAAAAAGATATTAGTAATTTATTTGCAATTTA
GTTTTAGTTACTTATTGTGAAATGTAAAT	TGCTCTCTTTTGTGTAAAGCACATCAAGCATGTAGC
GTTTTAGTTACTTATTGTGAAATGTAAAT	GCGATTTTTGTCAAAGGGACAGCGATGGGTTACAA
GTTTTAGTTACTTATTGTGAAATGTAAAT	TTACCACCAAAGTCCCTACACTCAATACCACCAAAGC
GTTTTAGTTACTTATTGTGAAATATAAAT

>CP025568|3|2|576808-577096|CRISPRCasFinder
GTTTTAGTTACTTATTGTGAAATGTAAAT	CGATAAAAAAGATATTAGTAATTTATTTGCAATTTA
GTTTTAGTTACTTATTGTGAAATGTAAAT	TGCTCTCTTTTGTGTAAAGCACATCAAGCATGTAGC
GTTTTAGTTACTTATTGTGAAATGTAAAT	GCGATTTTTGTCAAAGGGACAGCGATGGGTTACAA
GTTTTAGTTACTTATTGTGAAATGTAAAT	TTACCACCAAAGTCCCTACACTCAATACCACCAAAGC
GTTTTAGTTACTTATTGTGAAATATAAAT

>CP025568|3|2|576808-577096|CRT
GTTTTAGTTACTTATTGTGAAATGTAAAT	CGATAAAAAAGATATTAGTAATTTATTTGCAATTTA
GTTTTAGTTACTTATTGTGAAATGTAAAT	TGCTCTCTTTTGTGTAAAGCACATCAAGCATGTAGC
GTTTTAGTTACTTATTGTGAAATGTAAAT	GCGATTTTTGTCAAAGGGACAGCGATGGGTTACAA
GTTTTAGTTACTTATTGTGAAATGTAAAT	TTACCACCAAAGTCCCTACACTCAATACCACCAAAGC
GTTTTAGTTACTTATTGTGAAATATAAAT

Protein	Signature genes	Signature genes Name	Protein_function
CP025568.1\|AVU79418.1\|575634_576570_+\|ribose-phosphate-pyrophosphokinase-2	unknown	unknown	gnl\|CDD\|234929
CP025568.1\|AVU79411.1\|570683_571286_+\|phosphosugar-isomerase	unknown	unknown	gnl\|CDD\|223865
CP025568.1\|AVU79420.1\|578041_578722_+\|GMP-synthase	unknown	unknown	gnl\|CDD\|153212
CP025568.1\|AVU79414.1\|572206_572857_+\|ribulose-phosphate-3-epimerase	unknown	unknown	gnl\|CDD\|223114
CP025568.1\|AVU79415.1\|572853_573900_+\|galactitol-1-phosphate-5-dehydrogenase	unknown	unknown	gnl\|CDD\|176198
CP025568.1\|AVU81783.1\|581870_582302_+\|universal-stress-protein	unknown	unknown	gnl\|CDD\|366180
CP025568.1\|AVU79427.1\|585510_586926_+\|lincomycin-resistance-protein-LmrB	unknown	unknown	gnl\|CDD\|129794
CP025568.1\|AVU79426.1\|584995_585364_-\|DUF1304-domain-containing-protein	unknown	unknown	gnl\|CDD\|226282
CP025568.1\|AVU79423.1\|579952_581770_+\|lmo0514-family-class-1-internalin	unknown	unknown	gnl\|CDD\|380190
CP025568.1\|AVU79417.1\|574223_575495_+\|PTS-galactitol-transporter-subunit-IIC	unknown	unknown	gnl\|CDD\|226298
CP025568.1\|AVU79424.1\|582348_583779_-\|capsule-biosynthesis-protein-CapA	unknown	unknown	gnl\|CDD\|225399
CP025568.1\|AVU79425.1\|583899_584715_-\|histidine-phosphatase-family-protein	unknown	unknown	gnl\|CDD\|223483
CP025568.1\|AVU79412.1\|571313_571781_+\|PTS-sugar-transporter-subunit-IIA	unknown	unknown	gnl\|CDD\|238129
CP025568.1\|AVU79409.1\|567183_567852_+\|ribulose-phosphate-3-epimerase	unknown	unknown	gnl\|CDD\|223114
CP025568.1\|AVU79413.1\|571797_572196_+\|hypothetical-protein	unknown	unknown	unknown
CP025568.1\|AVU79416.1\|573915_574209_+\|PTS-galactitol-transporter-subunit-IIB	unknown	unknown	gnl\|CDD\|99908
CP025568.1\|AVU79422.1\|579112_579571_-\|MarR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|378956
CP025568.1\|AVU79410.1\|567858_568509_+\|transaldolase	unknown	unknown	gnl\|CDD\|223254
CP025568.1\|AVU79419.1\|577355_577934_+\|hypothetical-protein	unknown	unknown	unknown
CP025568.1\|AVU79421.1\|578746_579106_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|131113

Protein	Function_ID	Function_description	E-value
CP025568.1\|AVU79418.1\|575634_576570_+\|ribose-phosphate-pyrophosphokinase-2	gnl\|CDD\|234929	PRK01259, PRK01259, ribose-phosphate diphosphokinase.	1.26262e-153
CP025568.1\|AVU79411.1\|570683_571286_+\|phosphosugar-isomerase	gnl\|CDD\|223865	COG0794, GutQ, Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane].	1.15952e-75
CP025568.1\|AVU79410.1\|567858_568509_+\|transaldolase	gnl\|CDD\|223254	COG0176, MipB, Transaldolase [Carbohydrate transport and metabolism].	5.85703e-62
CP025568.1\|AVU79414.1\|572206_572857_+\|ribulose-phosphate-3-epimerase	gnl\|CDD\|223114	COG0036, Rpe, Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism].	4.74405e-108
CP025568.1\|AVU79415.1\|572853_573900_+\|galactitol-1-phosphate-5-dehydrogenase	gnl\|CDD\|176198	cd08236, sugar_DH, NAD(P)-dependent sugar dehydrogenases. This group contains proteins identified as sorbitol dehydrogenases and other sugar dehydrogenases of the medium-chain dehydrogenase/reductase family (MDR), which includes zinc-dependent alcohol dehydrogenase and related proteins. Sorbitol and aldose reductase are NAD(+) binding proteins of the polyol pathway, which interconverts glucose and fructose. Sorbitol dehydrogenase is tetrameric and has a single catalytic zinc per subunit. NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes, or ketones. Related proteins include threonine dehydrogenase, formaldehyde dehydrogenase, and butanediol dehydrogenase. The medium chain alcohol dehydrogenase family (MDR) has a NAD(P)(H)-binding domain in a Rossmann fold of a beta-alpha form. The N-terminal region typically has an all-beta catalytic domain. These proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and have 2 tightly bound zinc atoms per subunit. Horse liver alcohol dehydrogenase is a dimeric enzyme and each subunit has two domains. The NAD binding domain is in a Rossmann fold and the catalytic domain contains a zinc ion to which substrates bind. There is a cleft between the domains that closes upon formation of the ternary complex.	0
CP025568.1\|AVU81783.1\|581870_582302_+\|universal-stress-protein	gnl\|CDD\|366180	pfam00582, Usp, Universal stress protein family. The universal stress protein UspA is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, though UspA lacks ATP-binding activity.	4.03126e-27
CP025568.1\|AVU79427.1\|585510_586926_+\|lincomycin-resistance-protein-LmrB	gnl\|CDD\|129794	TIGR00711, Uncharacterized_MFS-type_transporter_YhcA, drug resistance transporter, EmrB/QacA subfamily. This subfamily of drug efflux proteins, a part of the major faciliator family, is predicted to have 14 potential membrane-spanning regions. Members with known activities include EmrB (multiple drug resistance efflux pump) in E. coli, FarB (antibacterial fatty acid resistance) in Neisseria gonorrhoeae, TcmA (tetracenomycin C resistance) in Streptomyces glaucescens, etc. In most cases, the efflux pump is described as having a second component encoded in the same operon, such as EmrA of E. coli. [Cellular processes, Toxin production and resistance, Transport and binding proteins, Other].	3.18163e-80
CP025568.1\|AVU79426.1\|584995_585364_-\|DUF1304-domain-containing-protein	gnl\|CDD\|226282	COG3759, COG3759, Predicted membrane protein [Function unknown].	2.33548e-41
CP025568.1\|AVU79423.1\|579952_581770_+\|lmo0514-family-class-1-internalin	gnl\|CDD\|380190	NF033186, internalin_K, class 1 internalin InlK. Internalins, as found in the intracellular human pathogen Listeria monocytogenes, are paralogous surface-anchored proteins with an N-terminal signal peptide, leucine-rich repeats, and a C-terminal LPXTG processing and cell surface anchoring site. Members of this family are internalin K (InlK), a virulence factor. See articles PMID:17764999. for a general discussion of internalins, and PMID:21829365, PMID:22082958, and PMID:23958637 for more information about internalin K.	1.81836e-118
CP025568.1\|AVU79417.1\|574223_575495_+\|PTS-galactitol-transporter-subunit-IIC	gnl\|CDD\|226298	COG3775, GatC, Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism].	7.01085e-178
CP025568.1\|AVU79424.1\|582348_583779_-\|capsule-biosynthesis-protein-CapA	gnl\|CDD\|225399	COG2843, PgsA, Putative enzyme of poly-gamma-glutamate biosynthesis (capsule formation) [Cell envelope biogenesis, outer membrane].	2.95496e-100
CP025568.1\|AVU79425.1\|583899_584715_-\|histidine-phosphatase-family-protein	gnl\|CDD\|223483	COG0406, phoE, Broad specificity phosphatase PhoE and related phosphatases [General function prediction only].	5.01016e-50
CP025568.1\|AVU79412.1\|571313_571781_+\|PTS-sugar-transporter-subunit-IIA	gnl\|CDD\|238129	cd00211, PTS_IIA_fru, PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIA PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation.	2.76446e-37
CP025568.1\|AVU79409.1\|567183_567852_+\|ribulose-phosphate-3-epimerase	gnl\|CDD\|223114	COG0036, Rpe, Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism].	9.1314e-90
CP025568.1\|AVU79416.1\|573915_574209_+\|PTS-galactitol-transporter-subunit-IIB	gnl\|CDD\|99908	cd05566, PTS_IIB_galactitol, PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain that are expressed on three distinct polypeptide chains, in contrast to other PTS sugar transporters. The three genes encoding these subunits (gatA, gatB, and gatC) comprise the gatCBA operon. Galactitol PTS permease takes up exogenous galactitol, releasing the phosphate ester into the cytoplasm in preparation for oxidation and further metabolism via a modified glycolytic pathway called the tagatose-6-phosphate glycolytic pathway. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include galactitol, chitobiose/lichenan, ascorbate, lactose, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.	3.06007e-27
CP025568.1\|AVU79422.1\|579112_579571_-\|MarR-family-transcriptional-regulator	gnl\|CDD\|378956	pfam12802, MarR_2, MarR family. The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR. A large number of compounds induce transcription of the mar operon. This is thought to be due to the compound binding to MarR, and the resulting complex stops MarR binding to the DNA. With the MarR repression lost, transcription of the operon proceeds. The structure of MarR is known and shows MarR as a dimer with each subunit containing a winged-helix DNA binding motif.	9.15558e-13
CP025568.1\|AVU79420.1\|578041_578722_+\|GMP-synthase	gnl\|CDD\|153212	cd01741, GATase1_1, Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain. This group contains a subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain. GATase activity catalyses the transfer of ammonia from the amide side chain of glutamine to an acceptor substrate. Glutamine amidotransferases (GATase) includes the triad family of amidotransferases which have a conserved Cys-His-Glu catalytic triad in the glutaminase active site. In this subgroup this triad is conserved. GATase activity can be found in a range of biosynthetic enzymes, including: glutamine amidotransferase, formylglycinamide ribonucleotide, GMP synthetase , anthranilate synthase component II, glutamine-dependent carbamoyl phosphate synthase, cytidine triphosphate synthetase, gamma-glutamyl hydrolase, imidazole glycerol phosphate synthase and, cobyric acid synthase. Glutamine amidotransferase (GATase) domains can occur either as single polypeptides, as in glutamine amidotransferases, or as domains in a much larger multifunctional synthase protein, such as CPSase.	9.06055e-60
CP025568.1\|AVU79421.1\|578746_579106_-\|hypothetical-protein	gnl\|CDD\|131113	TIGR02058, lin0512_fam, conserved hypothetical protein. This family consists of few members, broadly distributed. It occurs so far in several Firmicutes (twice in Oceanobacillus), one Cyanobacterium, one alpha Proteobacterium, and (with a long prefix) in plants. The function is unknown. The alignment includes a perfectly conserved motif GxGxDxHG near the N-terminus. [Hypothetical proteins, Conserved].	5.62162e-67

>CP025568.1|AVU79418.1|575634_576570_+|ribose-phosphate-pyrophosphokinase-2
MAGKMKLFSVTSERPLATKIADYLDIPLCEVELQKFSDGEVKINIEESIRGTNAYVVQSMNSNVNERLMELLIMVDALKRASVHSINIIMPYYGYARQDRKARSREPITAKLMANLIQRAGANRLITVDLHAAQIQGFFNIPIDHLSAIPLIGDYLIENYGEKDVVVVAPDHSGVVRARRIADRLNAPIAILNRKPRPHEDEIMSVIGDVKGKVAIVVDDIIDTGVRATTSADILLEKGAVEVIACATHSVMAGNATERLQNSNIKEVITSDSIDLPEDKQFDKLTTISIGRILGRAIEGVQENRSLHPLF
>CP025568.1|AVU79417.1|574223_575495_+|PTS-galactitol-transporter-subunit-IIC
MDIILDFFKYIIGLGVTVMMPIIITILGVIFRKKISVAFKAGLTVGVGFVGLGVITSLMLTTITPVTKALVENYNFKLTATDIGWGVGSSLAWGTEVVPFVFVAIIATNILMIAFKWTKTMDVDIWNYWQPLFIASALYLTTGSMIIAVLSSIINMAIIFKIADWTQKDVEDVLGLEGISLPQIQTTGWALVGYPMNWLLGKIPGVRKINWSTEKVQSRLGIFGEPMLMGLIIGGGLAAIAQMPLSQVLQTGVTIAASLVLIPRMVSLLMDGLTVISEAAHEFMEKRFPGRELFIGLDSAVGIGHPFVLSLGLLMIPITLILAFILPGNKVLPLADLTALPFYMIFAIVPSKGNLFRGIFTGIVIVIITLYLSGAAAPLMTELAGQIGYNIPKDAVEVTSLAVGTQWYTWIVYYGLHWFGGIL
>CP025568.1|AVU79416.1|573915_574209_+|PTS-galactitol-transporter-subunit-IIB
MKKKRIYVCCGTGIATSTVISKKVRAVLDEKRIPYEISQCTVQEVASKVSTSKPDIIVSSTTVTGDVGDVPVVIGRSFLTGLKKQETIDEILAILQD
>CP025568.1|AVU79415.1|572853_573900_+|galactitol-1-phosphate-5-dehydrogenase
MKALKLYGKRDLRYEEADMPTIEEPDDVILKVKTVGICGSDISRYSKLGPYVPGMVWGHEFSGEVIEVGSEVTDIEIGDRAAGCPALYCGECEYCKKGEFARCRKLTVIGARHPGAYAEYIKLPAENVVKIPNELDYEAAALVEPSAVVVHGFYHTKLQAGDDVVVVGSGNIGLLAIQWAKVFGARRVIAIDVDDKKLALAKEVGADVVINSLKEDPLEVVAAHTDGLNADLVVEAAGSPITSAQVFAYAKKGGGVVFLGIPYADVTIERFYFEKIVRSELTVWGSWNAISAPFPGKEWQTTIHFLANKQINIEPMITHRLSLAEGPEVFERIYERNEFFGKVLFFPE
>CP025568.1|AVU79414.1|572206_572857_+|ribulose-phosphate-3-epimerase
MAKIVPSVFGADIGRINEQLQVLEKNDIDLLHVDMMDGSFVPNIAFGPDQIKMMKKGTKLQFDVHMMVYEPDRYIPRLVEAGAHMITVHQEATTHLHRTIQLIKSYGVRAGVVLNPGTPPSTLEYVLDDIDCILLMTVNPGLGGQKFFQSSLEKIRKTKAYIGNRPIQIEVDGGVNDELAKECTLAGADLIVVGSYLFEGDIEANLEKLAKGVLTE
>CP025568.1|AVU79413.1|571797_572196_+|hypothetical-protein
MGSFFASFVDWLIGSPGRFVVNLIEDNMLIFMVVVMIYATTILYAKWTLAYYLPKKMSQLAEMKTWELDELYAAWQTEKKALPWYILVPSRNEFWVKSARNAPESTKLLHFSQQKLKLSDKEKLQKIIEIQS
>CP025568.1|AVU79412.1|571313_571781_+|PTS-sugar-transporter-subunit-IIA
MDVLEYFKEEMVRFSNEQNKEKLLAEMAEQLCEVGAVKPSYKDAVIKREKVFPTGLLTAHAGVAIPHTDSEHVIRPVVAVRILKKPVSFIEMASDNEAIDVRIVFMMALRSADEQLDMLQTLIQLIQDEEVMTTLLKAQETGDVLSAIEHFSKNN
>CP025568.1|AVU79411.1|570683_571286_+|phosphosugar-isomerase
MDKQAILNNIHQTWQEEANAISRLPEVTSEEALVKTVEKIAECTGKIVVAGCGTSGVAAKKLVHSFNCIERPAVFLTPSDAVHGTLGVLQKEDILILISKGGNTGELLNLIPACKTKGSTLIGVTENPDSVIAKEADIFFPVSVSKEPDPFNMLATASTMAVIASFDAVIVCLMTYMNYTKEQFSVIHPGGAVGNKLLNK
>CP025568.1|AVU79410.1|567858_568509_+|transaldolase
MHLDSANLDDVKKIQASSIFKGITTNPTILVKEKCNRQTAINRILELTDKQVFVQTVGFTYEEILADARMLLTMFGKDKIAIKIPAHEAGTNVIDTLKKEDKTIQILGTAIYSADQAITAALAGADFVAPYVNRMSAANIDPFKEITQMRHFFDKKALKTQIMAASFKHSGQVMQAYESGADTVTIPYEIYSQMTNKVLAVEAIRVFNEDAVLYEK
>CP025568.1|AVU79409.1|567183_567852_+|ribulose-phosphate-3-epimerase
MKMIAASIMCADSLHLADELRALEQANVKMLHCDVMDGVFVENAAMGAYVLQDIKNNTKMLLDIHLATVNPDKFVDLYAAIKPAYMSFHLEASRDVNATINHIRELGIRPSIAISPDTEIEQIYPFLGKVDMVLMMTVNPGFAGQKFQHHVLEKIKKLQKELESHTNKPLIEVDGNIFEETVRLLEPIGADVYVVGTAALFNEKAGSYTEKLAPLREIIQER
>CP025568.1|AVU79419.1|577355_577934_+|hypothetical-protein
MKKILVPILLLATILASCSSPNEKITKDTKISKTITIRADYKVPKDIKELEDDSANIVKVKFLQNKTIGKDGSTISEIEILTSYKGNLEKGSKVDISEPWYLSDGKYVAVENYIALDKEQEYTIFLGEKDKDTYPLSSLGYGKFGGSLKEDQAVLADFNILGEVQKFDFISENTEEVKNYQLIKEQVAGKYK
>CP025568.1|AVU79420.1|578041_578722_+|GMP-synthase
MIIDVLQHVPHEGPGLIANWARENQHQLKIHSLFEENAHVPNDSDFLIVLGGPMGINDTAEFPWLKDERKLIKRLSEQHKPVFGVCLGAQQIAATFGSEITVNKEKEVGWFPVKRTSDKLLFFPKSLNVFHWHQDTFALPTGSTRLFASEGCLNQAFLYGENIIGLQFHFEMEKAGIETILRIDEAFITPGKYVQSVEVMREKDVPEDNKQMLEAILDYLINPKTI
>CP025568.1|AVU79421.1|578746_579106_-|hypothetical-protein
MEQILFIQTGFGVDVHGQNITKAAERAVRNAIFTNSMPGIQGLLPDGDLQNMVVNIKLALPCDADQLDEDTIRAIIPYGTVTIEKMAGGMMTTSGIFLEDKEDKNDLMYIVNASVETGY
>CP025568.1|AVU79422.1|579112_579571_-|MarR-family-transcriptional-regulator
MNNEQNMNQQIALFYFGYKAFTETADLIIAKHSLKRLHHRILFFTARMPGLTINELLTFLEISKQALHQPLAELKERELLTIEQGRRDKRQRCIFLTSAGKELENELGAAQRKQMSEIFTNSADTDGMHFTEVMEGYAKNRPGAAFIKDFKE
>CP025568.1|AVU79423.1|579952_581770_+|lmo0514-family-class-1-internalin
MKKALKLFLATICMFIMIYPSTAAHAEETNIVNIPDANLKTYLNGLLKQASDAPITKTQMNTIQTVTLSGSTYTDLTGLEEAGNLVTLSLNNTNIQTLEPIKNQTSLTYLTVGGDNVKDSLFVDLNGLVNLQSLSINGSEVTHNVFKTFNKLPKLTYLYAQNSMKITDISALASLPALTTLFLQFDGIDDFRPLNDFESFKNGNLKALAAFGQNTGRTNPRITLKSGKLDYNETNQTLYLPFSMMPKPLTSFDGTVAPFSKSTSASNTYLGFNDVALPSSRLSITDDGITVSGVTKEEFDNLDEIEYNARYDFPTGSYPTPPSMTSYTISSGTYDQYFDISHTLDLTADESFDYNQYDTTSEEQFLKDVHAETDDGTAVKSDFDQVVKLDVPGEYTVTLNAENAAGLKATPVTVKVTVHEKPVITSDSQISYKKETTKSVDEFLKEIHGSVTGNAVLTSDFDKVVDLNTPGEYTVTLNAINDRGQKADPVTVVVTVTTSDSGHVDPVPPTPQEETDQTIIPEPQSETTEDSVKEDQAKDGQAKSEEKADKTSLTTKENKVEKSEKTNQPKTKALPQTGDTNKTALPIAGVMLSLAALLIFRKSKS
>CP025568.1|AVU81783.1|581870_582302_+|universal-stress-protein
MEKYHRILVAVDGSEPAKLAFEKGLELALKLDGVLGIASIVDLRAFSPNVSYDGSLEEKAELELKTSVNEYAEKARTAGVKQVETFVAKGNPKILLSTDIPAEFQADLIICGATGMNRVEKLVLGSVSSYIMAHAICDTLIAR
>CP025568.1|AVU79424.1|582348_583779_-|capsule-biosynthesis-protein-CapA
MKKLTYVIITGLVLVFIAGAFWITNSTNQSDQKATQTEPIKKISPANVKTISSEAKKTLNSLASSGADKASISDLKQLIKELKSYPTEKNDSGVYLQNLTACLEAVKSYTTGKADEKTLGKVYPAFLASEQKLSAIEKTNQYDWFYAAAATNQQGLKEKGVVTLTMVGDNSFGTYPETPEHLKFDNVFQKNNGNNTYVYKNCLPWFKSDDYTIINAESAFTNATKAENKMWRIKSDPAHVAFLPASGVDAANLANNHTMDYFQVGYDDTLKAFKENNIPVFNADAPLETTIKGMKTVLLGYDCRMSQQSPAYLERIVKDVKKYKKEDTLVIVNMHWGVEYRETPTDYQTQFGHAILDAGADIIMGSHPHRLESVEKYKDKYIVYSMGDFAFGADPTLLSRMTSMFQLRFTKEDNKIVLKDISIVPTYENSDGSTTENNYQPLPVFGDDAKKIVDELNRISKPIEGGVTEYTYFDPF
>CP025568.1|AVU79425.1|583899_584715_-|histidine-phosphatase-family-protein
MKKNIFKLLMALCAVLLIAGCGNSTSADKKETKETKEDGTVTFYVVRHGKTMLNTTDRVQGWSDAVLTPAGEEVVKSAGKGLKDVDFSAAYSSDSGRAIQTANLILKESDKSADKEVQTDPRFREFNFGSYEGDLNENMWTDIAKSQGKTLEEWQKAGLSPKDFANSVAALDKTRVKEGENWPAEDYATIQARLKEGLTDVAKKESKNGDSNVLLVSHGLSIGALLDTIEPGYKLPAEGIKNASVTKITYKDGKFTIGDVNDLSYVEKGSK
>CP025568.1|AVU79426.1|584995_585364_-|DUF1304-domain-containing-protein
MAILAFILTFIVMIEHIYIMILEMFFANTKLAAKTFGVEKELLANKKVQTLFANQGLYNGFLAAGLVWGLFFAGAGFAETVQIFFLSCVVVAALFGGATSSKGILVKQGLPAVLALVAVLLV
>CP025568.1|AVU79427.1|585510_586926_+|lincomycin-resistance-protein-LmrB
MQQEATGGQKIRPIPIIASFLMAGFIGLFSETALNMALSDLIQVFDISSATVQWLTTGYLLTLGILVPISGLLLQWFTTRGLFFTAVSFSIAGTLIAALSPTFAMLMIGRVVQAVGTALLLPLMFNTILLIFPEHKRGSAMGMIGLVIMFAPAVGPTISGLILENLTWNWIFWISLPFLIIALLFGMKFMQNVSVVTKPKIDILSIILSTLGFGGVVFAFSSAGESGWGSATVLVSIIVGGIALGLFVWRQLTMEKPLMDLKVFKYPMFTLGLILVFISFMMILSTMILLPLYLQNSLALAAFSAGLVLLPGGVLNGLMSPFTGRLFDAYGPRALVIPGFIVAVVALFFLTRIEVGTSALTIIVLHSVLMIGISMVMMPAQTNGLNQLPPKLYPDGTAIMNTLQQVSGAIGTAVAITIMSAGQKAYMETAQGVGPEQMVASLTAGIQNAFVFGLIMACIGLLCSLFIRKAK

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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
CP025568_3	3.3\|576967\|35\|CP025568\|PILER-CR,CRISPRCasFinder,CRT	576967-577001	35	MH341453	Listeria phage PSU-VKH-LP041, complete genome	10139-10173	1	0.971
CP025568_3	3.3\|576967\|35\|CP025568\|PILER-CR,CRISPRCasFinder,CRT	576967-577001	35	NC_009813	Listeria phage B054, complete genome	10139-10173	2	0.943

1. spacer 3.3|576967|35|CP025568|PILER-CR,CRISPRCasFinder,CRT matches to MH341453 (Listeria phage PSU-VKH-LP041, complete genome) position: , mismatch: 1, identity: 0.971

gcgatttttgtcaaagggacagcgatgggttacaa	CRISPR spacer
gcgatttttgtcaaaggaacagcgatgggttacaa	Protospacer
*****************.*****************

2. spacer 3.3|576967|35|CP025568|PILER-CR,CRISPRCasFinder,CRT matches to NC_009813 (Listeria phage B054, complete genome) position: , mismatch: 2, identity: 0.943

gcgatttttgtcaaagggacagcgatgggttacaa	CRISPR spacer
gcgatttttgtcaaaggaacggcgatgggttacaa	Protospacer
*****************.**.**************

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

1156535 : 1163958

Hokovirus(33.33%)

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
AVU79991.1\|1156535_1156919_+	glycerol-3-phosphate cytidylyltransferase	A0A1V0SGE7	Hokovirus	1.4e-16	40.7
AVU79992.1\|1156940_1157924_+	glycosyltransferase family 2 protein	A0A1V0SAH6	Catovirus	4.1e-12	34.6
AVU79993.1\|1157938_1158952_+	glycosyl transferase	A0A1V0SAH6	Catovirus	7.9e-11	32.0
AVU79994.1\|1159160_1160651_+	nicotinate phosphoribosyltransferase	G3MA18	Bacillus_virus	9.5e-114	49.7
AVU79995.1\|1160662_1161487_+	NAD(+) synthetase	G3MA24	Bacillus_virus	7.4e-68	52.6
AVU79996.1\|1161499_1161808_+	antibiotic biosynthesis monooxygenase	NA	NA	NA	NA
AVU79997.1\|1161868_1162273_+	PTS sugar transporter subunit IIB	NA	NA	NA	NA
AVU79998.1\|1162401_1163958_+	GMP synthase (glutamine-hydrolyzing)	A0A1V0SH76	Hokovirus	2.3e-17	28.1

DBSCAN-SWA_2

1252205 : 1354090

112

Listeria_phage(74.19%)

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

attL 1277891:1277907|attR 1319556:1319572

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVU80104.1\|1252205_1253258_+\|tRNA	phenylalanine--tRNA ligase subunit alpha	A0A2K9L3A8	Tupanvirus	1.3e-29	34.9
AVU80105.1\|1253257_1255666_+\|tRNA	phenylalanine--tRNA ligase subunit beta	NA	NA	NA	NA
AVU80106.1\|1255826_1256528_+	ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	3.0e-33	35.8
AVU80107.1\|1256541_1259952_+	ABC transporter permease	NA	NA	NA	NA
AVU80108.1\|1260049_1260502_+	MarR family transcriptional regulator	NA	NA	NA	NA
AVU80109.1\|1260517_1263718_+	MMPL family transporter	NA	NA	NA	NA
AVU80110.1\|1263824_1264499_+	uracil-DNA glycosylase	A0A172DS90	Canid_alphaherpesvirus	7.5e-50	47.7
AVU80111.1\|1264536_1265463_-	ribonuclease HIII	NA	NA	NA	NA
AVU80112.1\|1265616_1265880_+	cell division protein ZapA	NA	NA	NA	NA
AVU80113.1\|1265879_1266422_+	colicin V synthesis protein	NA	NA	NA	NA
AVU80114.1\|1266514_1268227_+	DNA polymerase/3'-5' exonuclease PolX	A0A2H4UV14	Bodo_saltans_virus	5.1e-18	24.8
AVU80115.1\|1268249_1270607_+	endonuclease MutS2	Q94M10	Lactobacillus_phage	1.0e-21	50.4
AVU80116.1\|1270687_1270999_+	thiol reductase thioredoxin	A0A1X9I9P5	Staphylococcus_phage	5.4e-19	39.6
AVU80117.1\|1271074_1272886_+	UvrABC system protein C	NA	NA	NA	NA
AVU80118.1\|1273074_1274289_+	aspartate kinase	NA	NA	NA	NA
AVU80119.1\|1274344_1274839_-	DUF2507 domain-containing protein	NA	NA	NA	NA
AVU80120.1\|1274986_1275787_+	glutamate racemase	NA	NA	NA	NA
AVU80121.1\|1275799_1276546_+	ribonuclease PH	NA	NA	NA	NA
AVU80122.1\|1276549_1277161_+	non-canonical purine NTP pyrophosphatase	NA	NA	NA	NA
AVU80123.1\|1277197_1277722_+	metallophosphoesterase	NA	NA	NA	NA
1277891:1277907	attL	NA	NA	NA	NA
AVU80124.1\|1278007_1279162_-\|integrase	site-specific integrase	A8ATC7	Listeria_phage	2.0e-207	94.8
AVU80125.1\|1279748_1280318_-	DUF4352 domain-containing protein	R4IBV3	Listeria_phage	9.8e-11	92.3
AVU80126.1\|1280368_1280821_-	ImmA/IrrE family metallo-endopeptidase	R4IBK9	Listeria_phage	9.7e-78	89.3
AVU80127.1\|1280841_1281165_-	XRE family transcriptional regulator	R4IDX0	Listeria_phage	4.1e-38	73.8
AVU80128.1\|1281795_1281999_-	hypothetical protein	NA	NA	NA	NA
AVU80129.1\|1282065_1282257_+	XRE family transcriptional regulator	A0A059T5F8	Listeria_phage	5.4e-22	87.1
AVU80130.1\|1282278_1282521_+	hypothetical protein	A8ATD2	Listeria_phage	3.9e-41	93.8
AVU80131.1\|1282523_1282709_+	hypothetical protein	A8ATD3	Listeria_phage	1.4e-27	96.7
AVU80132.1\|1283184_1283412_+	hypothetical protein	NA	NA	NA	NA
AVU80133.1\|1283408_1283864_+	class I SAM-dependent methyltransferase	A8ATY8	Listeria_phage	1.5e-81	90.7
AVU80134.1\|1284047_1284263_+	hypothetical protein	NA	NA	NA	NA
AVU80135.1\|1284341_1284839_+	hypothetical protein	A8ATE4	Listeria_phage	1.5e-31	84.7
AVU80136.1\|1284839_1285469_+	hypothetical protein	A0A191KBJ8	Streptococcus_virus	2.4e-66	57.9
AVU80137.1\|1285487_1285655_+	hypothetical protein	NA	NA	NA	NA
AVU80138.1\|1285758_1285935_+	hypothetical protein	A0A076G7F4	Listeria_phage	5.5e-21	86.2
AVU80139.1\|1285931_1286333_+	hypothetical protein	A8ATD9	Listeria_phage	7.8e-71	95.5
AVU80140.1\|1286329_1286536_+	hypothetical protein	A0A059T6C7	Listeria_phage	1.7e-29	92.6
AVU80141.1\|1286535_1286733_+	hypothetical protein	A0A059T654	Listeria_phage	5.7e-27	91.8
AVU80142.1\|1286729_1287164_+	hypothetical protein	A8ATS7	Listeria_phage	2.5e-38	52.8
AVU80143.1\|1287366_1287750_+	hypothetical protein	A8ATE8	Listeria_phage	2.5e-66	100.0
AVU80144.1\|1287751_1288231_+	hypothetical protein	R4IBM0	Listeria_phage	1.9e-76	97.5
AVU80145.1\|1288243_1288933_+	DNA-binding protein	R4IDY8	Listeria_phage	6.8e-123	91.7
AVU80146.1\|1289011_1290253_+	ATP-dependent helicase	A8ATF1	Listeria_phage	1.5e-213	95.8
AVU80147.1\|1290275_1290758_+	DUF669 domain-containing protein	A8ATF2	Listeria_phage	9.3e-87	98.8
AVU80148.1\|1290780_1293069_+	DNA primase	R4IBW2	Listeria_phage	0.0e+00	94.2
AVU80149.1\|1293402_1293720_+	VRR-NUC domain-containing protein	A8ATF4	Listeria_phage	1.9e-51	97.1
AVU80150.1\|1293721_1293934_+	hypothetical protein	NA	NA	NA	NA
AVU80151.1\|1294523_1295054_+	hypothetical protein	A8ATF5	Listeria_phage	3.4e-74	78.9
AVU80152.1\|1295058_1295244_+	hypothetical protein	NA	NA	NA	NA
AVU80153.1\|1295248_1295674_+	DUF722 domain-containing protein	A8ATF6	Listeria_phage	2.2e-71	97.2
AVU80154.1\|1295767_1296511_+	DUF559 domain-containing protein	NA	NA	NA	NA
AVU80155.1\|1296970_1297297_+	hypothetical protein	A0A059T5G5	Listeria_phage	8.3e-55	98.1
AVU80156.1\|1297296_1297611_+	HNH endonuclease	A8ATF8	Listeria_phage	5.0e-57	98.1
AVU81797.1\|1297660_1298017_+	hypothetical protein	A8AT94	Listeria_phage	7.7e-46	97.0
AVU80157.1\|1298013_1299657_+\|terminase	terminase large subunit	A8AT95	Listeria_phage	0.0e+00	98.7
AVU80158.1\|1299668_1300799_+\|portal	phage portal protein	A8AT96	Listeria_phage	1.7e-203	93.1
AVU80159.1\|1300795_1301602_+\|protease	Clp protease ClpP	A0A059T5F2	Listeria_phage	3.8e-133	93.3
AVU80160.1\|1301628_1302780_+\|capsid	phage major capsid protein	A8AT98	Listeria_phage	2.7e-201	93.2
AVU80161.1\|1302966_1303266_+	hypothetical protein	A8ATA0	Listeria_phage	5.3e-48	100.0
AVU80162.1\|1303249_1303615_+\|head,tail	phage head-tail adapter protein	A8ATA1	Listeria_phage	1.3e-64	100.0
AVU80163.1\|1303611_1304013_+	hypothetical protein	A8ATA2	Listeria_phage	2.1e-68	100.0
AVU80164.1\|1304009_1304393_+	DUF3168 domain-containing protein	A8ATA3	Listeria_phage	3.8e-67	100.0
AVU80165.1\|1304414_1305002_+\|tail	phage tail protein	A8ATA4	Listeria_phage	5.8e-107	99.5
AVU80166.1\|1305072_1305405_+	hypothetical protein	A8ATA5	Listeria_phage	1.8e-52	99.1
AVU80167.1\|1305620_1310432_+\|tail	phage tail tape measure protein	A0A059T5F4	Listeria_phage	0.0e+00	70.3
AVU80168.1\|1310419_1312069_+\|tail	phage tail protein	A0A059T682	Listeria_phage	0.0e+00	99.5
AVU80169.1\|1312081_1314376_+	hypothetical protein	A0A059T7Y6	Listeria_phage	0.0e+00	94.0
AVU80170.1\|1314365_1315460_+	carbohydrate-binding protein CenC	A0A059T7R4	Listeria_phage	2.2e-184	87.9
AVU80171.1\|1315507_1315810_+	hypothetical protein	A0A059T5E6	Listeria_phage	1.7e-38	93.0
AVU80172.1\|1315809_1316067_+\|holin	phage holin	A8ATB7	Listeria_phage	3.2e-25	69.0
AVU80173.1\|1316066_1316909_+	peptidase M15	A0A059T7Y8	Listeria_phage	9.5e-127	81.6
AVU80174.1\|1317012_1318011_+	DUF3644 domain-containing protein	A0A0N9RUA4	Staphylococcus_phage	3.9e-71	44.8
AVU80175.1\|1318225_1318432_-	hypothetical protein	A0A059T7Z0	Listeria_phage	1.3e-16	82.8
AVU80176.1\|1319022_1319256_+	hypothetical protein	R4IDW6	Listeria_phage	2.8e-28	78.9
AVU80177.1\|1319252_1319444_+	hypothetical protein	R4IBI5	Listeria_phage	8.9e-25	88.9
AVU80178.1\|1319937_1321296_+	DUF1254 domain-containing protein	NA	NA	NA	NA
1319556:1319572	attR	NA	NA	NA	NA
AVU80179.1\|1321337_1321931_-	hypothetical protein	NA	NA	NA	NA
AVU80180.1\|1322084_1322492_-	VOC family protein	NA	NA	NA	NA
AVU80181.1\|1322656_1323256_+	histidine phosphatase family protein	A0A1X9IGJ2	Lactococcus_phage	5.8e-30	41.0
AVU80182.1\|1323287_1323548_-	hypothetical protein	NA	NA	NA	NA
AVU80183.1\|1323671_1325084_+	ATP-dependent RNA helicase DbpA	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	8.3e-51	31.8
AVU80184.1\|1325108_1325372_+	DUF3116 domain-containing protein	NA	NA	NA	NA
AVU80185.1\|1325538_1326015_+	8-oxo-dGTP diphosphatase	NA	NA	NA	NA
AVU80186.1\|1326052_1326298_-	hypothetical protein	NA	NA	NA	NA
AVU80187.1\|1326294_1327500_-	MFS transporter	NA	NA	NA	NA
AVU80188.1\|1327496_1327706_-	hypothetical protein	NA	NA	NA	NA
AVU80189.1\|1327704_1328364_+	Crp/Fnr family transcriptional regulator	NA	NA	NA	NA
AVU80190.1\|1328405_1328600_-	hypothetical protein	NA	NA	NA	NA
AVU80191.1\|1328666_1329515_-	YitT family protein	NA	NA	NA	NA
AVU80192.1\|1330133_1330847_+	trehalose operon repressor	NA	NA	NA	NA
AVU80193.1\|1330877_1332524_-	alpha,alpha-phosphotrehalase	NA	NA	NA	NA
AVU80194.1\|1334142_1334595_+	NUDIX domain-containing protein	NA	NA	NA	NA
AVU80195.1\|1334641_1335106_-	hypothetical protein	NA	NA	NA	NA
AVU80196.1\|1335294_1336215_+	alpha/beta hydrolase	NA	NA	NA	NA
AVU80197.1\|1336234_1337482_-	gamma-glutamyl-phosphate reductase	A0A1X9I5D4	Streptococcus_phage	1.2e-106	51.8
AVU80198.1\|1337465_1338296_-	glutamate 5-kinase	A0A1X9I5D0	Streptococcus_phage	4.3e-47	42.4
AVU80199.1\|1338431_1339571_-\|protease	PrsW family intramembrane metalloprotease	NA	NA	NA	NA
AVU80200.1\|1339651_1340047_-	XRE family transcriptional regulator	A9D9J6	Lactobacillus_prophage	1.3e-14	57.4
AVU80201.1\|1340197_1340413_+	XRE family transcriptional regulator	NA	NA	NA	NA
AVU80202.1\|1340531_1341065_+	hypothetical protein	NA	NA	NA	NA
AVU80203.1\|1341082_1341748_+	hypothetical protein	NA	NA	NA	NA
AVU80204.1\|1342009_1342948_+	hypothetical protein	NA	NA	NA	NA
AVU80205.1\|1343062_1344346_+	trigger factor	NA	NA	NA	NA
AVU80206.1\|1344531_1345791_+\|protease	ATP-dependent Clp protease ATP-binding subunit ClpX	G3M9Z9	Bacillus_virus	1.4e-145	63.2
AVU80207.1\|1345909_1346476_+	signal peptidase I	NA	NA	NA	NA
AVU80208.1\|1346510_1347080_+	signal peptidase I	NA	NA	NA	NA
AVU80209.1\|1347181_1347724_+	signal peptidase I	NA	NA	NA	NA
AVU80210.1\|1347733_1348597_+	ribosome biogenesis GTPase YlqF	NA	NA	NA	NA
AVU80211.1\|1348593_1349379_+	ribonuclease HII	G4YAY0	Emiliania_huxleyi_virus	3.0e-26	39.2
AVU80212.1\|1349512_1350373_+	DNA-protecting protein DprA	NA	NA	NA	NA
AVU80213.1\|1350644_1352723_+	type I DNA topoisomerase	A0A1V0SB35	Catovirus	1.4e-107	37.7
AVU80214.1\|1352785_1354090_+\|tRNA	FADH(2)-oxidizing methylenetetrahydrofolate--tRNA-(uracil(54)-C(5))- methyltransferase TrmFO	NA	NA	NA	NA

DBSCAN-SWA_3

1828722 : 1861588

Erysipelothrix_phage(67.74%)

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

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVU80640.1\|1828722_1829637_-	N-acetylmuramoyl-L-alanine amidase	A0A1D8ETE4	Propionibacterium_phage	3.9e-33	44.0
AVU81811.1\|1829626_1830040_-\|holin	holin	A0A2K5B2A2	Erysipelothrix_phage	1.5e-37	57.0
AVU80641.1\|1830088_1830508_-	DUF1617 domain-containing protein	A0A1S5RCP5	Lactobacillus_phage	2.4e-06	26.5
AVU80642.1\|1830668_1834733_-	hypothetical protein	A0A1B1P770	Bacillus_phage	8.7e-85	41.8
AVU80643.1\|1834717_1835410_-\|tail	phage tail protein	A0A1L2BYA2	Clostridium_phage	1.7e-20	29.0
AVU80644.1\|1835425_1837987_-\|tail	phage tail protein	A0A2K5B297	Erysipelothrix_phage	3.9e-83	74.1
AVU80645.1\|1838054_1838699_-	DUF1643 domain-containing protein	NA	NA	NA	NA
AVU80646.1\|1838950_1839334_-	hypothetical protein	A0A2K5B295	Erysipelothrix_phage	5.4e-37	64.2
AVU80647.1\|1839343_1839934_-\|tail	phage tail protein	A0A2K5B294	Erysipelothrix_phage	4.1e-76	72.2
AVU81812.1\|1839935_1840244_-	hypothetical protein	NA	NA	NA	NA
AVU80648.1\|1840270_1840702_-	hypothetical protein	A0A2K5B292	Erysipelothrix_phage	7.6e-40	59.4
AVU80649.1\|1840694_1841033_-\|head,tail	head-tail adaptor protein	A0A2K5B291	Erysipelothrix_phage	1.7e-23	54.7
AVU80650.1\|1841029_1841341_-\|head,tail	phage gp6-like head-tail connector protein	A0A2K5B290	Erysipelothrix_phage	2.2e-36	74.0
AVU80651.1\|1841351_1842569_-\|capsid	phage major capsid protein	A0A2I4R671	Erysipelothrix_phage	1.1e-102	48.0
AVU81813.1\|1842572_1843325_-\|protease	Clp protease ClpP	M1PLE5	Streptococcus_phage	1.9e-62	55.7
AVU80652.1\|1843221_1844583_-\|portal	phage portal protein	A0A2K5B287	Erysipelothrix_phage	2.7e-179	74.0
AVU81814.1\|1844650_1844911_-	hypothetical protein	NA	NA	NA	NA
AVU81815.1\|1845042_1846635_-\|terminase	terminase large subunit	A0A2K5B285	Erysipelothrix_phage	7.2e-269	84.8
AVU80653.1\|1846695_1846920_-	hypothetical protein	A0A2K5B284	Erysipelothrix_phage	2.0e-15	48.6
AVU80654.1\|1846909_1847107_-	DUF5049 domain-containing protein	NA	NA	NA	NA
AVU80655.1\|1847081_1847276_-	hypothetical protein	NA	NA	NA	NA
AVU80656.1\|1847278_1847668_-	DUF4314 domain-containing protein	E4ZFL7	Streptococcus_phage	3.1e-16	71.0
AVU80657.1\|1847756_1849007_-	DNA modification methylase	A0A2I4R670	Erysipelothrix_phage	7.4e-144	62.0
AVU81816.1\|1848996_1849374_-	hypothetical protein	A0A0B5HE03	Vibrio_phage	4.5e-12	38.8
AVU80658.1\|1849598_1850381_-	S-adenosylmethionine synthetase	NA	NA	NA	NA
AVU80659.1\|1850385_1850964_-\|terminase	terminase	A0A2K5B277	Erysipelothrix_phage	1.2e-53	52.8
AVU80660.1\|1851096_1851462_-	HNH endonuclease	A0A2K5B276	Erysipelothrix_phage	1.4e-31	56.9
AVU80661.1\|1851629_1852058_-	DUF1492 domain-containing protein	A0A2K5B275	Erysipelothrix_phage	1.5e-27	45.8
AVU80662.1\|1852054_1853407_-	ATP-dependent helicase	A0A2K5B273	Erysipelothrix_phage	6.8e-159	69.0
AVU80663.1\|1853406_1853691_-	VRR-NUC domain-containing protein	A0A2K5B272	Erysipelothrix_phage	3.5e-25	60.2
AVU80664.1\|1853687_1853897_-	hypothetical protein	NA	NA	NA	NA
AVU80665.1\|1854034_1856278_-	DNA primase	A0A1B0RXC5	Streptococcus_phage	4.8e-210	49.7
AVU80666.1\|1856270_1856615_-	DUF4406 domain-containing protein	A0A2K5B270	Erysipelothrix_phage	4.1e-28	51.4
AVU80667.1\|1856607_1857378_-	phage antirepressor	A0A1Q1PVU2	Staphylococcus_phage	2.7e-64	50.8
AVU80668.1\|1857588_1859526_-	DNA polymerase I	A0A2K5B2B0	Erysipelothrix_phage	7.7e-265	68.6
AVU80669.1\|1859586_1860129_-	DUF2815 domain-containing protein	A0A2K5B2A9	Erysipelothrix_phage	8.9e-78	77.2
AVU80670.1\|1860130_1861273_-	DUF2800 domain-containing protein	M1Q218	Streptococcus_phage	1.5e-122	57.8
AVU80671.1\|1861273_1861588_-	rRNA biogenesis protein rrp5	A0A2K5B2A7	Erysipelothrix_phage	6.6e-09	41.5

DBSCAN-SWA_4

1945771 : 1954057

Synechococcus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVU80746.1\|1945771_1946338_-	phosphoribosylglycinamide formyltransferase	M4QRX9	Synechococcus_phage	7.0e-25	35.9
AVU80747.1\|1946334_1947384_-	phosphoribosylformylglycinamidine cyclo-ligase	Q58MH8	Prochlorococcus_phage	1.0e-61	43.2
AVU80748.1\|1947402_1948830_-	amidophosphoribosyltransferase	A0A1B1ISH6	uncultured_Mediterranean_phage	8.1e-54	31.9
AVU80749.1\|1948814_1951034_-	phosphoribosylformylglycinamidine synthase subunit PurL	A6N228	Microbacterium_phage	2.0e-160	41.2
AVU80750.1\|1951026_1951710_-	phosphoribosylformylglycinamidine synthase subunit PurQ	NA	NA	NA	NA
AVU80751.1\|1951713_1951959_-	phosphoribosylformylglycinamidine synthase subunit PurS	NA	NA	NA	NA
AVU80752.1\|1951970_1952684_-	phosphoribosylaminoimidazolesuccinocarboxamide synthase	A0A0E3F9V5	Synechococcus_phage	2.3e-41	38.3
AVU80753.1\|1952764_1954057_-	adenylosuccinate lyase	A0A1B3B081	Gordonia_phage	7.2e-17	32.6

DBSCAN-SWA_5

2468357 : 2508013

Listeria_phage(96.08%)

terminase,holin,capsid,tail

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVU81240.1\|2468357_2468555_-	hypothetical protein	A8ATC6	Listeria_phage	2.3e-15	66.7
AVU81241.1\|2468551_2468785_-	hypothetical protein	A0A059T6E1	Listeria_phage	2.8e-36	97.4
AVU81242.1\|2469479_2469704_-	hypothetical protein	NA	NA	NA	NA
AVU81243.1\|2469700_2470327_-	hypothetical protein	NA	NA	NA	NA
AVU81244.1\|2470658_2471402_-	peptidase	A8ASL5	Listeria_phage	2.8e-74	65.5
AVU81245.1\|2471401_2471659_-\|holin	phage holin	A8ATB7	Listeria_phage	3.2e-25	70.2
AVU81246.1\|2471658_2471961_-	hypothetical protein	A0A059T5E6	Listeria_phage	5.9e-39	93.1
AVU81247.1\|2472011_2474177_-	hypothetical protein	A8ATW1	Listeria_phage	0.0e+00	87.2
AVU81248.1\|2474189_2475758_-\|tail	phage tail protein	A8ATW0	Listeria_phage	4.9e-302	97.9
AVU81249.1\|2475754_2480554_-\|tail	phage tail tape measure protein	A8ATV9	Listeria_phage	0.0e+00	89.6
AVU81250.1\|2480558_2480870_-	hypothetical protein	A0A0B5D116	Listeria_phage	1.0e-41	95.6
AVU81251.1\|2480866_2481298_-	hypothetical protein	A0A0B5D0B8	Listeria_phage	1.1e-73	98.6
AVU81252.1\|2481353_2482040_-	hypothetical protein	A0A0B5CYK8	Listeria_phage	3.6e-116	99.6
AVU81253.1\|2482044_2482416_-	hypothetical protein	A8ATV5	Listeria_phage	8.5e-64	100.0
AVU81254.1\|2482412_2482730_-	hypothetical protein	A8ATV4	Listeria_phage	1.4e-51	98.1
AVU81255.1\|2482719_2483085_-	hypothetical protein	A0A0B5D114	Listeria_phage	4.2e-63	95.0
AVU81256.1\|2483084_2483438_-	hypothetical protein	A8ATV2	Listeria_phage	1.2e-59	97.4
AVU81257.1\|2483607_2484480_-	hypothetical protein	A0A0B5CTX8	Listeria_phage	4.5e-164	99.7
AVU81258.1\|2484502_2485057_-	hypothetical protein	A8ATU9	Listeria_phage	1.1e-88	99.5
AVU81259.1\|2485152_2486196_-\|capsid	minor capsid protein	A0A0B5D111	Listeria_phage	1.6e-195	97.4
AVU81260.1\|2486200_2487760_-	hypothetical protein	A0A0B5D0A6	Listeria_phage	3.1e-293	97.3
AVU81261.1\|2487774_2489094_-\|terminase	PBSX family phage terminase large subunit	A0A0B5CYJ6	Listeria_phage	5.1e-252	93.8
AVU81262.1\|2489086_2489812_-	helix-turn-helix domain-containing protein	A0A0B5CTX0	Listeria_phage	4.4e-80	68.5
AVU81263.1\|2489855_2490083_-	hypothetical protein	A0A0B5CTV3	Listeria_phage	2.4e-32	94.7
AVU81264.1\|2490358_2490793_-	hypothetical protein	A8ASQ1	Listeria_phage	3.1e-57	76.4
AVU81265.1\|2490857_2491355_-	Holliday junction resolvase RecU	A0A1L2JY30	Aeribacillus_phage	1.8e-32	49.3
AVU81266.1\|2491344_2491527_-	hypothetical protein	A8ASP6	Listeria_phage	3.6e-15	79.3
AVU81267.1\|2491548_2492031_-	single-stranded DNA-binding protein	A8ASP5	Listeria_phage	1.6e-70	83.8
AVU81268.1\|2492031_2492286_-	hypothetical protein	A0A059T5G2	Listeria_phage	3.4e-40	92.8
AVU81269.1\|2492285_2492468_-	hypothetical protein	NA	NA	NA	NA
AVU81270.1\|2492464_2492926_-	hypothetical protein	D9J0I6	Brochothrix_phage	5.5e-12	29.9
AVU81271.1\|2493090_2493300_-	hypothetical protein	A8ATE0	Listeria_phage	1.7e-32	100.0
AVU81272.1\|2493296_2493698_-	hypothetical protein	A8ATD9	Listeria_phage	2.6e-74	100.0
AVU81273.1\|2493918_2494479_-	DUF1642 domain-containing protein	A8ATY9	Listeria_phage	9.4e-107	100.0
AVU81274.1\|2494475_2494940_-	class I SAM-dependent methyltransferase	A0A059T693	Listeria_phage	6.9e-87	96.8
AVU81275.1\|2495004_2495613_-	hypothetical protein	A8ATU1	Listeria_phage	1.4e-55	49.5
AVU81276.1\|2496412_2496628_-	hypothetical protein	NA	NA	NA	NA
AVU81277.1\|2496811_2497267_-	class I SAM-dependent methyltransferase	A0A059T693	Listeria_phage	4.2e-81	90.7
AVU81278.1\|2497263_2498238_-	DnaD domain protein	A8ASN4	Listeria_phage	4.9e-151	85.2
AVU81279.1\|2498254_2498893_-	single-stranded DNA-binding protein	A8ASN3	Listeria_phage	2.9e-80	76.3
AVU81280.1\|2498897_2499374_-	hypothetical protein	A0A059T5F1	Listeria_phage	7.8e-70	92.4
AVU81281.1\|2499370_2499565_-	hypothetical protein	A0A059T6E8	Listeria_phage	1.8e-28	95.3
AVU81282.1\|2499866_2500055_-	hypothetical protein	A8ATY3	Listeria_phage	2.5e-27	95.2
AVU81283.1\|2500162_2500378_-	hypothetical protein	Q9T176	Listeria_phage	6.1e-22	73.2
AVU81284.1\|2500374_2500908_-	hypothetical protein	A0A059T5F0	Listeria_phage	1.1e-75	84.4
AVU81285.1\|2501032_2501812_-	phage antirepressor Ant	A0A059T6E7	Listeria_phage	2.0e-139	96.9
AVU81286.1\|2501875_2502118_+	hypothetical protein	A0A059T7Q3	Listeria_phage	1.5e-37	98.8
AVU81287.1\|2502303_2502585_-	hypothetical protein	Q9T180	Listeria_phage	1.4e-39	96.8
AVU81288.1\|2502581_2502818_-	hypothetical protein	A0A059T5E9	Listeria_phage	3.3e-37	100.0
AVU81289.1\|2502883_2503114_+	hypothetical protein	Q9T185	Listeria_phage	3.3e-34	96.1
AVU81290.1\|2503042_2503309_-	hypothetical protein	A0A059T7Q1	Listeria_phage	2.5e-41	100.0
AVU81291.1\|2503341_2503545_-	transcriptional regulator	NA	NA	NA	NA
AVU81292.1\|2503713_2504190_+	XRE family transcriptional regulator	A8ASM2	Listeria_phage	2.2e-35	54.9
AVU81293.1\|2504345_2504513_+	hypothetical protein	NA	NA	NA	NA
AVU81294.1\|2504568_2504787_+	zinc ribbon domain-containing protein	A0A059T6E3	Listeria_phage	1.9e-26	81.9
AVU81295.1\|2504802_2505525_+	hypothetical protein	A0A059T7P9	Listeria_phage	2.8e-103	98.3
AVU81296.1\|2505547_2506153_+	hypothetical protein	NA	NA	NA	NA
AVU81297.1\|2506165_2506588_+	hypothetical protein	NA	NA	NA	NA
AVU81298.1\|2506654_2508013_+	recombinase family protein	Q8LTD8	Listeria_phage	2.5e-254	98.5

DBSCAN-SWA_6

2652174 : 2660018

Streptococcus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVU81434.1\|2652174_2653146_-	DNA-binding protein WhiA	Q7AWZ3	Streptococcus_phage	5.2e-52	39.4
AVU81435.1\|2653153_2654122_-	gluconeogenesis factor	A1IMD5	Streptococcus_phage	6.7e-68	43.3
AVU81436.1\|2654123_2654999_-	RNase adaptor protein RapZ	A0A0R8VB27	Thermobifida_phage	3.2e-08	29.7
AVU81437.1\|2655106_2656837_-	phospho-sugar mutase	A0A1X9I671	Streptococcus_phage	1.3e-175	54.0
AVU81438.1\|2656878_2657940_-	galactose mutarotase	NA	NA	NA	NA
AVU81439.1\|2657956_2658940_-	UDP-glucose 4-epimerase GalE	A0A2K9L1R4	Tupanvirus	2.6e-51	37.2
AVU81440.1\|2659058_2660018_-	thioredoxin-disulfide reductase	G3MA85	Bacillus_virus	3.4e-88	53.7

DBSCAN-SWA_7

2899958 : 2906483

Streptococcus_pyogenes_phage(33.33%)

tail

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVU81653.1\|2899958_2900777_-\|tail	phage tail family protein	A0A060AFE1	Staphylococcus_phage	7.2e-39	35.0
AVU81654.1\|2900773_2902642_-	hypothetical protein	A0A097PAU2	Streptococcus_pyogenes_phage	3.5e-20	45.8
AVU81655.1\|2902628_2903033_-	phenylalanine racemase	NA	NA	NA	NA
AVU81656.1\|2903074_2903377_-	segregation and condensation protein B	NA	NA	NA	NA
AVU81657.1\|2903424_2903937_-\|tail	phage major tail protein, TP901-1 family	A0A097PBF4	Streptococcus_pyogenes_phage	1.2e-47	62.7
AVU81843.1\|2903949_2904339_-	DUF5072 domain-containing protein	NA	NA	NA	NA
AVU81658.1\|2904616_2905033_-	hypothetical protein	A8ASQ1	Listeria_phage	1.3e-20	39.3
AVU81659.1\|2905044_2905473_-	hypothetical protein	NA	NA	NA	NA
AVU81660.1\|2905689_2906025_+	XRE family transcriptional regulator	A0A2H4JAR9	uncultured_Caudovirales_phage	4.0e-20	52.5
AVU81661.1\|2906030_2906483_+	ImmA/IrrE family metallo-endopeptidase	A0A059T7S0	Listeria_phage	4.0e-31	47.9

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. CP025569

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

0 : 13578

Streptococcus_phage(25.0%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVU81896.1\|428_665_-	XRE family transcriptional regulator	A0A097PBE6	Streptococcus_pyogenes_phage	6.7e-14	53.4
AVU81897.1\|627_906_+	hypothetical protein	NA	NA	NA	NA
AVU81846.1\|1025_1253_-	hypothetical protein	NA	NA	NA	NA
AVU81847.1\|1242_1851_-	recombinase family protein	A0A1W5LU24	Ralstonia_phage	1.0e-21	42.9
AVU81848.1\|2226_2772_-	DUF1541 domain-containing protein	NA	NA	NA	NA
AVU81849.1\|3263_5399_-	cadmium-transporting ATPase	E4ZFI9	Streptococcus_phage	1.6e-247	64.5
AVU81850.1\|5398_5758_-	cadmium resistance transcriptional regulator CadC	E4ZFI8	Streptococcus_phage	3.1e-26	50.0
AVU81851.1\|6037_6592_+	resolvase	A0A0F7LA37	Escherichia_phage	7.0e-38	53.4
AVU81852.1\|6595_9511_+\|transposase	DDE transposase	A0A1B0V7H9	Salmonella_phage	1.9e-174	36.7
AVU81853.1\|10693_12739_-	heavy metal translocating P-type ATPase	A0A218MNH6	uncultured_virus	1.0e-70	31.0
AVU81898.1\|13014_13578_+	transposon DNA-invertase	A0A0A7NPV4	Enterobacteria_phage	2.0e-40	51.1

DBSCAN-SWA_2

17271 : 29704

Streptococcus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVU81856.1\|17271_19176_-	heavy metal translocating P-type ATPase	E4ZFI9	Streptococcus_phage	1.0e-99	35.5
AVU81857.1\|19373_19607_-	copper chaperone	NA	NA	NA	NA
AVU81858.1\|19753_20044_-	prolipoprotein diacylglyceryl transferase	NA	NA	NA	NA
AVU81859.1\|20070_20775_-	Crp/Fnr family transcriptional regulator	NA	NA	NA	NA
AVU81860.1\|20919_21492_-	DNA starvation/stationary phase protection protein	A0A0A7RTZ1	Clostridium_phage	3.9e-23	42.6
AVU81861.1\|22229_22334_-	resolvase	NA	NA	NA	NA
AVU81862.1\|22408_23173_-	iron export ABC transporter permease subunit FetB	NA	NA	NA	NA
AVU81863.1\|23169_23823_-	ABC transporter	G9BWD6	Planktothrix_phage	1.5e-23	36.3
AVU81864.1\|23906_24329_-	cupin domain-containing protein	Q2I8C5	Bacillus_phage	2.4e-38	58.5
AVU81865.1\|25052_25241_-	hypothetical protein	NA	NA	NA	NA
AVU81866.1\|25233_25638_-	topoisomerase	F2Y1B5	Organic_Lake_phycodnavirus	2.5e-08	30.1
AVU81867.1\|26277_26652_+	hypothetical protein	NA	NA	NA	NA
AVU81868.1\|26693_27008_-	hypothetical protein	NA	NA	NA	NA
AVU81899.1\|27820_29704_-	heavy metal translocating P-type ATPase	E4ZFI9	Streptococcus_phage	5.6e-87	35.3

DBSCAN-SWA_3

32916 : 40009

Erysipelothrix_phage(20.0%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVU81873.1\|32916_34281_-	oxidoreductase	A0A2K5B2C5	Erysipelothrix_phage	1.9e-07	23.5
AVU81874.1\|34904_35585_+\|transposase	IS6 family transposase	A0A1X9I6C6	Streptococcus_phage	2.6e-119	90.7
AVU81875.1\|36150_37653_-	hypothetical protein	H2DE57	Erwinia_phage	5.2e-11	46.0
AVU81876.1\|37656_38055_-	hypothetical protein	NA	NA	NA	NA
AVU81877.1\|38228_38564_+	XRE family transcriptional regulator	A0A139ZPK3	Marinitoga_camini_virus	2.8e-05	35.0
AVU81878.1\|38600_39131_-	hypothetical protein	NA	NA	NA	NA
AVU81879.1\|39244_40009_-	Fic family protein	A0A0G3Y4Q5	Ostreid_herpesvirus	2.6e-06	29.4

DBSCAN-SWA_4

44686 : 47358

Lactococcus_phage(66.67%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVU81886.1\|44686_45913_+\|transposase	IS21 family transposase	A0A059NT83	Lactococcus_phage	6.2e-135	60.6
AVU81887.1\|45881_46679_+\|transposase	transposase	A0A059NT77	Lactococcus_phage	3.3e-81	63.2
AVU81888.1\|46755_47358_+	DDE domain-containing protein	U5P429	Shigella_phage	2.0e-33	41.7

DBSCAN-SWA_5

50795 : 53342

Enterococcus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
AVU81891.1\|50795_51770_+	chromosome partitioning protein ParA	F0PIG8	Enterococcus_phage	2.4e-33	35.0
AVU81892.1\|51747_52044_+	replication and copy control-associated protein	NA	NA	NA	NA
AVU81893.1\|52046_53342_-	excinuclease ABC subunit A	O64031	Bacillus_phage	4.6e-88	44.4

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. CP025568

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

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. CP025569

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection