CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
NZ_CP013309	Vibrio cholerae strain E1162 chromosome 1, complete sequence	1 crisprs	DEDDh,csa3,DinG,cas3,RT,csx1	0	1	5	0
NZ_CP013310	Vibrio cholerae strain E1162 chromosome 2	0 crisprs	cas3,Cas9_archaeal,RT,PD-DExK,csa3	0	0	0	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NZ_CP013309_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP013309_1

1444817-1445060

Orphan

Consensus_repeat	Method
AAAATGTGCCTCCTTAGCTCAGTCGGTAGAGCAACGGACTGATAATCCG	PILER-CR

2 spacers

The CRISPR arrays of NZ_CP013309_1

>merge|NZ_CP013309|1|1444817-1445060|PILER-CR
TGTGCCGGCTTAGCTCAGTAGGTAGAGCAACTGACTTGTAATCAGTAGGTCGCCAGTTCGATTCCGGCAGCCGGCACCACTTAAAATTTGCCTCGATAGCTCAGTCGGTAGAGCAGAGGATTGAAAATCCTCGTGTCGGTGGTTCGATTCCGCCTCGAGGCACCACTATTAAAAGTTGTGCCATAGACACAATAAAAATTGTTCCTCCTTAGCTCAGTCGGTAGAGCGACGGACTGTTAATCCG

>NZ_CP013309|1|1|1444817-1445060|PILER-CR
TGTGCCGGCTTAGCTCAGTAGGTAGAGCAACTGACTTGTAATCAGTAGG	TCGCCAGTTCGATTCCGGCAGCCGGCACCACTTAAAA
TTTGCCTCGATAGCTCAGTCGGTAGAGCAGAGGATTGAAAATCCTCGTG	TCGGTGGTTCGATTCCGCCTCGAGGCACCACTATTAAAAGTTGTGCCATAGACACAATAAAAAT
TGTTCCTCCTTAGCTCAGTCGGTAGAGCGACGGACTGTTAATCCG

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP013309.1\|WP_000718491.1\|1437190_1437481_+\|YggU-family-protein	unknown	unknown	gnl\|CDD\|179931
NZ_CP013309.1\|WP_000780524.1\|1451438_1452734_+\|peptidylprolyl-isomerase-SurA	unknown	unknown	gnl\|CDD\|236758
NZ_CP013309.1\|WP_000725019.1\|1438027_1438630_+\|XTP/dITP-diphosphatase	unknown	unknown	gnl\|CDD\|234648
NZ_CP013309.1\|WP_000035032.1\|1455007_1455817_+\|symmetrical-bis(5'-nucleosyl)-tetraphosphatase	unknown	unknown	gnl\|CDD\|234673
NZ_CP013309.1\|WP_000805043.1\|1440019_1440940_-\|glutaminase-B	unknown	unknown	gnl\|CDD\|234880
NZ_CP013309.1\|WP_001087263.1\|1436633_1437191_+\|YggT-family-protein	unknown	unknown	gnl\|CDD\|223833
NZ_CP013309.1\|WP_000769920.1\|1445349_1446975_+\|methyl-accepting-chemotaxis-protein	unknown	unknown	gnl\|CDD\|223910
NZ_CP013309.1\|WP_000957351.1\|1438623_1439799_+\|radical-SAM-family-heme-chaperone-HemW	unknown	unknown	gnl\|CDD\|235550
NZ_CP013309.1\|WP_000383338.1\|1454616_1454997_+\|Co2+/Mg2+-efflux-protein-ApaG	unknown	unknown	gnl\|CDD\|180098
NZ_CP013309.1\|WP_001277601.1\|1449034_1451386_+\|LPS-assembly-protein-LptD	unknown	unknown	gnl\|CDD\|235158
NZ_CP013309.1\|WP_000954087.1\|1456475_1456949_-\|threonine/serine-exporter-family-protein	unknown	unknown	gnl\|CDD\|182143
NZ_CP013309.1\|WP_000124738.1\|1443084_1443357_+\|oxidative-damage-protection-protein	unknown	unknown	gnl\|CDD\|180059
NZ_CP013309.1\|WP_001890075.1\|1442009_1443071_+\|A/G-specific-adenine-glycosylase	unknown	unknown	gnl\|CDD\|182805
NZ_CP013309.1\|WP_001233674.1\|1437526_1437958_+\|DUF4426-domain-containing-protein	unknown	unknown	gnl\|CDD\|379616
NZ_CP013309.1\|WP_000973535.1\|1455965_1456463_-\|type-3-dihydrofolate-reductase	unknown	unknown	gnl\|CDD\|365932
NZ_CP013309.1\|WP_000005584.1\|1441050_1441770_-\|tRNA-(guanosine(46)-N7)-methyltransferase-TrmB	unknown	unknown	gnl\|CDD\|234649
NZ_CP013309.1\|WP_001230176.1\|1443458_1444586_+\|membrane-bound-lytic-murein-transglycosylase-MltC	unknown	unknown	gnl\|CDD\|183271
NZ_CP013309.1\|WP_001243262.1\|1453729_1454545_+\|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA	unknown	unknown	gnl\|CDD\|234708
NZ_CP013309.1\|WP_000095773.1\|1452723_1453716_+\|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA	unknown	unknown	gnl\|CDD\|234696
NZ_CP013309.1\|WP_000546924.1\|1448021_1448876_-\|co-chaperone-DjlA	unknown	unknown	gnl\|CDD\|236512

Protein	Function_ID	Function_description	E-value
NZ_CP013309.1\|WP_000718491.1\|1437190_1437481_+\|YggU-family-protein	gnl\|CDD\|179931	PRK05090, PRK05090, hypothetical protein; Validated.	2.12816e-59
NZ_CP013309.1\|WP_000780524.1\|1451438_1452734_+\|peptidylprolyl-isomerase-SurA	gnl\|CDD\|236758	PRK10770, PRK10770, peptidyl-prolyl cis-trans isomerase SurA; Provisional.	9.94454e-157
NZ_CP013309.1\|WP_000725019.1\|1438027_1438630_+\|XTP/dITP-diphosphatase	gnl\|CDD\|234648	PRK00120, PRK00120, dITP/XTP pyrophosphatase; Reviewed.	4.099e-127
NZ_CP013309.1\|WP_000035032.1\|1455007_1455817_+\|symmetrical-bis(5'-nucleosyl)-tetraphosphatase	gnl\|CDD\|234673	PRK00166, apaH, symmetrical bis(5'-nucleosyl)-tetraphosphatase.	1.41419e-169
NZ_CP013309.1\|WP_000805043.1\|1440019_1440940_-\|glutaminase-B	gnl\|CDD\|234880	PRK00971, PRK00971, glutaminase; Provisional.	0
NZ_CP013309.1\|WP_001087263.1\|1436633_1437191_+\|YggT-family-protein	gnl\|CDD\|223833	COG0762, COG0762, Predicted integral membrane protein [Function unknown].	1.96316e-12
NZ_CP013309.1\|WP_000769920.1\|1445349_1446975_+\|methyl-accepting-chemotaxis-protein	gnl\|CDD\|223910	COG0840, Tar, Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms].	2.35326e-58
NZ_CP013309.1\|WP_000957351.1\|1438623_1439799_+\|radical-SAM-family-heme-chaperone-HemW	gnl\|CDD\|235550	PRK05660, PRK05660, radical SAM family heme chaperone HemW.	0
NZ_CP013309.1\|WP_000383338.1\|1454616_1454997_+\|Co2+/Mg2+-efflux-protein-ApaG	gnl\|CDD\|180098	PRK05461, apaG, CO2+/MG2+ efflux protein ApaG; Reviewed.	1.16069e-74
NZ_CP013309.1\|WP_001277601.1\|1449034_1451386_+\|LPS-assembly-protein-LptD	gnl\|CDD\|235158	PRK03761, PRK03761, LPS assembly outer membrane complex protein LptD; Provisional.	0
NZ_CP013309.1\|WP_000954087.1\|1456475_1456949_-\|threonine/serine-exporter-family-protein	gnl\|CDD\|182143	PRK09917, PRK09917, threonine/serine exporter.	7.45224e-67
NZ_CP013309.1\|WP_000124738.1\|1443084_1443357_+\|oxidative-damage-protection-protein	gnl\|CDD\|180059	PRK05408, PRK05408, oxidative damage protection protein; Provisional.	5.47988e-59
NZ_CP013309.1\|WP_001890075.1\|1442009_1443071_+\|A/G-specific-adenine-glycosylase	gnl\|CDD\|182805	PRK10880, PRK10880, adenine DNA glycosylase.	0
NZ_CP013309.1\|WP_001233674.1\|1437526_1437958_+\|DUF4426-domain-containing-protein	gnl\|CDD\|379616	pfam14467, DUF4426, Domain of unknown function (DUF4426). Members of this entry are found mostly in g-proteobacteria, especially in Vibrio. Strangely enough, there seems to be one eukaryotic homolog in Nematostella vectensis (NEMVEDRAFT_v1g226006), where the PA0388-like domain is fused with a domain homogous to the Methionine biosynthesis protein MetW (see below). In several Pseudomonas species, but also in Vibrio vulnificus and Azotobacter vinelandii PA0388 homologs are genomic neighbors of Nucleoside 5-triphosphatase RdgB (dHAPTP, dITP, XTP-specific) (EC 3.6.1.15) and Methionine biosynthesis protein MetW. On the other hand, in most Vibrio species it appears as a part of a conserved operon involved in possible response to stress.	6.80534e-67
NZ_CP013309.1\|WP_000973535.1\|1455965_1456463_-\|type-3-dihydrofolate-reductase	gnl\|CDD\|365932	pfam00186, DHFR_1, Dihydrofolate reductase.	1.40644e-92
NZ_CP013309.1\|WP_000005584.1\|1441050_1441770_-\|tRNA-(guanosine(46)-N7)-methyltransferase-TrmB	gnl\|CDD\|234649	PRK00121, trmB, tRNA (guanine-N(7)-)-methyltransferase; Reviewed.	6.01203e-111
NZ_CP013309.1\|WP_001230176.1\|1443458_1444586_+\|membrane-bound-lytic-murein-transglycosylase-MltC	gnl\|CDD\|183271	PRK11671, mltC, membrane-bound lytic murein transglycosylase MltC.	9.42926e-157
NZ_CP013309.1\|WP_001243262.1\|1453729_1454545_+\|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA	gnl\|CDD\|234708	PRK00274, ksgA, 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase RsmA.	3.27746e-146
NZ_CP013309.1\|WP_000095773.1\|1452723_1453716_+\|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA	gnl\|CDD\|234696	PRK00232, pdxA, 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed.	0
NZ_CP013309.1\|WP_000546924.1\|1448021_1448876_-\|co-chaperone-DjlA	gnl\|CDD\|236512	PRK09430, djlA, co-chaperone DjlA.	1.60415e-153

>NZ_CP013309.1|WP_001230176.1|1443458_1444586_+|membrane-bound-lytic-murein-transglycosylase-MltC
MRKLVLCITALLLSGCSREFIEKIYDVDYEPTNRFAKNLAELPGQFQKDTAALDALINSFSGNIEKRWGRRELKIAGKNNYVKYIDNYLSRSEVNFTEGRIIVETVSPIDPKAHLRNAIITTLLTPDDPAHVDLFSSKDIELKGQPFLYQQVLDQDGQPIQWSWRANRYADYLIANHLKVKQVDFKKAYYVEIPMVKDQIDIRGYKYASIVRKASRKYDIPEDLIYAIIKTESSFNPYAVSWANAYGLMQVVPKTAGRDVFKLVKNRSGEPSPEYLFNPENNIDTGTAYFYILKNRYLKEVRHPTSLEYSMISAYNGGTGGVLSTFSSDRQRAMRDLNALQPNQVYWALTKKHPNAEARRYLEKVTKFKKEFNAG
>NZ_CP013309.1|WP_000124738.1|1443084_1443357_+|oxidative-damage-protection-protein
MARTVFCTRLQKEADGLDFQLYPGELGKRIFDNICKEAWAQWQTKQTMLINEKKLNMMDPEHRKLLEQEMVNFLFEGKEVHIEGYTPPAK
>NZ_CP013309.1|WP_001890075.1|1442009_1443071_+|A/G-specific-adenine-glycosylase
MTPFAQAILTWYDAYGRKNLPWQQNKNAYRVWLSEIMLQQTQVATVIPYFERFLERFPTVHALAAAPQDEVLHFWTGLGYYARARNLHKAAQMVVSEYGGEFPTDLEQMNALPGVGRSTAAAVLSSVYKKPHAILDGNVKRTLARCFAVEGWPGQKSVENQLWHYAEMHTPKVDVDKYNQAMMDMGAMICTRSKPKCSLCPVESFCLAKQQGNPQEYPGKKPKTDKPVKATWFVMLYHDNAVWLEQRPQSGIWGGLYCFPQSEIANIQTTIDQRAIGDSTITSQKTLIAFRHTFSHYHLDITPILLQLSRKPDIVMEGSKGLWYNLSHPDEIGLAAPVKQLLHTLPFDIDSHI
>NZ_CP013309.1|WP_000005584.1|1441050_1441770_-|tRNA-(guanosine(46)-N7)-methyltransferase-TrmB
MSEVITQEYTEDGKVLRRIRSFVRREGRLTKGQEAAMKECWPTMGIDYQPELLDWQQVFGNDNPVVLEIGFGMGASLVEMAKNAPEKNFLGIEVHSPGVGACLASAREAGVTNLRVMCHDAVEVFAHMIPDNSLHTLQLFFPDPWHKKRHHKRRIVQLEFAEMVRQKLMIGSGVFHMATDWENYAEHMVEVMNQAPGFANLATDGDYVPRPDERPLTKFEQRGHRLGHGVWDIKYQRTA
>NZ_CP013309.1|WP_000805043.1|1440019_1440940_-|glutaminase-B
MKPTADILASIIEEVRPLTSKGIVADYIPALAKVPSDKLGIAVFTNQGEVITAGDAQEGFSIQSISKVLSLTLAMGLYQPDELWSRVGKEPSGQAFNSLIQLEMEQGIPRNPFINAGAIVVCDMLQSRLSAPRQRLLEFVRQLSGEPQIAYDKVVAASEMMHSDRNAAIAYLMRSFGNFHNEVIPVLHNYFHACALKMSCVELAKTFSYLANKGVSVVTGETVITPTQSKQTNALLATCGLYDGAGEFAYRVGMPGKSGVGGGIIAVVPGEMTIAVWSPALDQSGNSLAGTRALELLAQRIGRSIF
>NZ_CP013309.1|WP_000957351.1|1438623_1439799_+|radical-SAM-family-heme-chaperone-HemW
MLTPPSLSLYIHIPWCVQKCPYCDFNSHAQKGEIPEQEYLDALLQDLDRDIERYQLKGDPRLLHSIFIGGGTPSLISAEGIARLLQGVAERIAFKPEIEITMEANPGTIEAQRFAGYRTAGVTRISIGVQSFEPEKLARLGRIHGQQEAVRAAQLAHQIGLNSFNLDLMHGLPDQTPEQALADLDQAIALNPPHLSWYQLTIEPNTLFYSKPPKLPDEDALWDIFELGHQKLSDAGYVQYEISGYSKPGYQCQHNLNYWRFGDYLGIGCGAHGKLSFADGRIVRTTKTKHPRGYLAALNNLAKAYLDSEQLVADQDKPFEFFMNRFRLIEPCPKADFTATTGLTIDVIRPTLDWALSEGYLSEDDQHWQITEKGKLFLNDLLEAFMADEEE
>NZ_CP013309.1|WP_000725019.1|1438027_1438630_+|XTP/dITP-diphosphatase
MKKIVLATGNQGKVREMADLLSDFGFDVVAQSEFNVPEAAETGTTFIENAIIKARHAAQITGLPTIADDSGLEVDYLNGAPGIYSARYAGEHASDGDNLNKLLMAMQDVPDDQRSARFHCVLVLMRHADDPTPIVCHGKWEGKILTAPHGSNGFGYDPIFWVPEENCASAELEPVRKKQLSHRGKALQKLFKAIEEQRTC
>NZ_CP013309.1|WP_001233674.1|1437526_1437958_+|DUF4426-domain-containing-protein
MRKWMMSLLLTLLALPASAEQQKTIKDIEVHYSAFNSTFLTPKVASSYQLTRNGYTAILNISVLDRASLGKPATEAKLTGHAKNLIGNLRELSFKQVKEGNAIYYLAEVPISNEEMLTFDIDVDAGLKGAGKLTFSQKFYTEQ
>NZ_CP013309.1|WP_000718491.1|1437190_1437481_+|YggU-family-protein
MAAAWREGDDLLLRLYIQPKASRDSIVGLHGEELKVAITAPPIDGKANAHLSKYLAKLCKVAKGSVVVEKGELGRHKQVRILQPSQIPAEIAALIE
>NZ_CP013309.1|WP_001087263.1|1436633_1437191_+|YggT-family-protein
MNSLSFLINTLFDLYIMVVILRIWLQAARADFYNPFSQFIVKATQPVVGPLRRVIPSIGSIDLATIVFAYVLCVLKFMALVLIASSGSVSFSADFLFLGLLSLIKAAGGLLFWVLLIRAILSWVSQGRSPIEYVFHQLTEPMLAPIRRIIPVMGGFDLSVLVLFIVLQFANFLMGDVIGPIWYQL
>NZ_CP013309.1|WP_000769920.1|1445349_1446975_+|methyl-accepting-chemotaxis-protein
MKLKTQAYLLSAIILAALLALTATGLWTLRVASNLDNKARVTELFNSAYSILTEVEKLAQEGKMSEPEAKALATRLMRNNLYKDNEYVYVADENMTFVATPLDPQLHDTSFHDFKDGKGNSVGRLIQDVLRHQSGKLVEYTWTQKQADGSIEEKLSIARKTPHWGWVVGTGIGFNEVNARFWSTAQWQLSLCVVIAVAILSLLLVAIRKILLIIGGEPNEVRSAVQAVAQGRIRREFVIKAPKESIYGAVQQMSSSLADLVAKLEQSMVALRSELAGAGTRAKSIAELTDSQQQSTAMIATAMTEMASSANQVADSARDTAFNTDQADQQSQHTQKLIHNTVSNIQGLATQLQTASTAVADLDLDVKNIAKVLDVIGDIAEQTNLLALNAAIEAARAGEQGRGFAVVADEVRNLAGRTQTSTKEIQQMIHNLQEGSRNAIQTIQICGQTSQSSVQESENAASALALIVSALESVSSMSHQIATAAAEQTQVSDDIARRINMIEESGSKLSRVVMESHNSTQTLTKLARELEQWAAHFEVTR
>NZ_CP013309.1|WP_000546924.1|1448021_1448876_-|co-chaperone-DjlA
MHIFGKILGAFFGFLFGGPFGAIFGIFLGHQFDKARRLNQAGFQSGTFGAGPSQAERQEEFFKSAFSVMGHVAKAKGQVTKEEIQLATIMMDRMNLTLEQKRAAQDAFRDGKESDFPLEQVLERVKIATGGRFDLLQFFLELQVSSAFADGDVHPSERQVLHRIARGLGFSSEQLERRLRMQEAAFRFQQGGGFGGSQQQSHSGQQWQQPSSRHQLADAYEVLGVSESASAQEVKRAYRKLMNEHHPDKLMAKGLPPEMMNVAKEKSQQIQHAYELIRKEKGIK
>NZ_CP013309.1|WP_001277601.1|1449034_1451386_+|LPS-assembly-protein-LptD
MSCFSRTFLAASISAALFAPQIQAEASVDDNRAQLPNGEQCLVNQPEPTNPGQQPINVEADKLEAINGQKATYSGNVVVVQGKKRIAADNVTLHQQENVVVAEGNVQFSDGEIKTHSTKATNHLNTDEMTLENTRYQFLCEPGRGEAVYVSKTGKAVYEIEDGSITSCPDGDNAWRMRASSIDVDQNEEIATFYNPRLEVQNVPVFYLPYLTVPIGDTRKTGFLYPTASYGSRNGYSFEVPIYWNLAPQYDLETTFNYMQKRGTQLNSVFRYLTDFGAGQIKSEYLADDQLHTELGDRWAFQYEHNGIFQQAWKFEIDYSKVSDINYFSDLDSGVGNREDGQLIQEGRATYRSDNWDSALLVRDFQLLTKDTTSTNLPYRLMPQLSYNYYAPETMKYLDLDLVSHVSRFETDARGKPSATRVHIEPGLKIPFSNTWGNWTTEARVLGTYYQQDLDKTTDAKLEESVTRVIPEIRSVAGIVLERDTVLLDDYTQTLEPKIQYLYVPEKYQDNIGLYDSTLLQTDYYGLFRSRKYSGVDRIESANQVSYGASTRFFDSNYKERLNIAFGQIFYLDSKLNPSNKNPDSTSDKTSYSAWAVEMDFNFADYLFYHGGIQYDIDSQAVQLGNSTLEYRVASGYIQANYRYVAKDYIRNTVGDSITNIDDITRDGISQAGILAGYQLSRKWSASGQYYYDLTTDEALEWLANLTYTSDCWYVGFTYSNQLKSWNGNFVTDPYATPIYENNFSFNIGIIGFGTSIGAGSSMTGVDSAGNSLGYGRPFFLNN
>NZ_CP013309.1|WP_000780524.1|1451438_1452734_+|peptidylprolyl-isomerase-SurA
MKLWKPTLISVLSALTLFNAHAEPKQLDSVAVIVNSGVILQSDVDSALKTIKANAKQNKQPLPQETVLREQVLEKLIIDTLQQQEADRIGVKIDDNRLNEAIKEIAKNNQQTQEQLIASVAQEGLTYPEFREQVRKEMAASDARNALVRRRINILPAEVDTLAELLAQETDATVQYKISHIQLRVDDGQDKSTAETLANKLVNDLRNGADFAQMAYAYSKGPKALQGGDWGWMRKEEMPTIFADQIKMQNKGSIIGPFRSGVGFHILKIDDVKGLETVAVTEVNARHILIKPTIILSDEGAQKQLNEFVQRIKNGEVTFAELAQQYSQDPGSAAQKGELGYQTPDLYVPEFKHQIETLPVGQISEPFKTVHGWHIVEVLDRREVDRTDSALKNKAYRILFNRKFNEEASAWLQELRASAFVEVLKDEKDEQ
>NZ_CP013309.1|WP_000095773.1|1452723_1453716_+|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA
MSSKRIIVTAGEPAGIGPDLVLALSAQDWPHQLVVCADKALLAQRATQLGIQVKLLDYQRDNPVQAQQAGTLLVEHIPLAEPVVAGQLNPANGHYVLKTLERAAKGCMNGEFDAIVTGPVHKGVINRAGVAFSGHTEFFAEQSKTPLVVMMLATEGLRTALVTTHLPLAEVPQAITCERLEQIVHILHKDLVEKFAIAEPKIYVCGLNPHAGEDGVLGMDEIETITPTLQRLREQYGMQLVGPLPADTIFSEKYLQQADAVLGMYHDQVLPVLKYKGFGRSVNITLGLPFIRTSVDHGTALDLAGTGQADAGSFWTALAYAIELVDKKAQ
>NZ_CP013309.1|WP_001243262.1|1453729_1454545_+|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA
MRNDVHLGHKARKRFGQNFLNDPYIIDGIVSAINPKPGQNLVEIGPGLGAITEPVGREVDKFTVIELDRDLAERLRNHPELASKLTIHEGDAMRFDFKQLVKPNNKLRVFGNLPYNISTPLMFHLFEFHRDIQDMHFMLQKEVVNRLAAGPGTKAYGRLTVMAQYYCKVVPVLEVPPSAFVPPPKVDSAVVRLVPYEDLPHPATSLEWLDRVVREGFNQRRKTVRNCYKGLAEPETLETLGINPGMRPENLTLAQFVALANWLDATHKTHA
>NZ_CP013309.1|WP_000383338.1|1454616_1454997_+|Co2+/Mg2+-efflux-protein-ApaG
MDVSLPCIKIQVQTRYIEEQSNPEYQRFVFAYLITIKNLSSQTVQLMSRRWLITDADGKQTVVEGDGVVGEQPRIKANDEYTYSSGTALDTPVGVMQGQYLMIDEQGESFTVEIEPFRLAVPHVLN
>NZ_CP013309.1|WP_000035032.1|1455007_1455817_+|symmetrical-bis(5'-nucleosyl)-tetraphosphatase
MANYIVGDIQGCFDELQQLLKQAEFNSQLDTLWFAGDLVARGPKSLETLRFVYQLGDAARVVLGNHDLHLLSVALGHHSAKRRDQTQAVLDAPDAAPLLDWLRQQPLLAEHQEFVLCHAGISPQWDLATARQAAQEVESVLRSPEWSTLIEQMYSDQPDAWHPTLQGIDRLRYIVNAFTRMRFCFPDGRLDMQCKLPPKEVTDGSLLPWFQLPQRIALEKTVIFGHWAALEGYVSETVIGLDTGCVWGGTLTMLRWEDKHYFSQAALPA
>NZ_CP013309.1|WP_000973535.1|1455965_1456463_-|type-3-dihydrofolate-reductase
MMISMIAAMADQRIIGKDNQMPWHLPADFAWFKRCTLGKPVVMGRKTYQSIGRPLPGRHNIVISRDASLQIEGVDVVTSIEAALAKAGEVDEVMIIGGGSLYAACLPMAHKLYITEIHAKLDGDTQFPEWGSDWLERSREHYPADEKNAYGMDFVIFERQYPLPT
>NZ_CP013309.1|WP_000954087.1|1456475_1456949_-|threonine/serine-exporter-family-protein
MLSWDLFFGLLNDMFFAAIPAVGFALVFNVPVPALKYCALGGALGHGSRYLMMHFGVPIEWASFFAATLVGMVGVYWSRRFLAHPKVFTVAALIPMVPGVFAFKAMIALVEINHVGFSPELMEALLENFLKAMFIIAGLAVGLAVPGLLFYRRKPII

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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
NZ_CP013309_1	1.1\|1444866\|37\|NZ_CP013309\|PILER-CR	1444866-1444902	37	NC_049942	Escherichia phage JLK-2012, complete sequence	23524-23560	4	0.892
NZ_CP013309_1	1.1\|1444866\|37\|NZ_CP013309\|PILER-CR	1444866-1444902	37	NC_021742	Serratia liquefaciens ATCC 27592 plasmid unnamed, complete sequence	35428-35464	4	0.892

1. spacer 1.1|1444866|37|NZ_CP013309|PILER-CR matches to NC_049942 (Escherichia phage JLK-2012, complete sequence) position: , mismatch: 4, identity: 0.892

taggtcgccagttcgattccggcagccggcaccactt	CRISPR spacer
caggtcgccagttcgattccggtagccggcaccatat	Protospacer
.*********************.***********. *

2. spacer 1.1|1444866|37|NZ_CP013309|PILER-CR matches to NC_021742 (Serratia liquefaciens ATCC 27592 plasmid unnamed, complete sequence) position: , mismatch: 4, identity: 0.892

taggtcgccagttcgattccggcagccggcaccactt	CRISPR spacer
taggtcaccagttcgattccggtagccggcaccaatc	Protospacer
******.***************.*********** *.

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

339964 : 379490

Vibrio_phage(53.57%)

coat

The bacterium proteins that are colored denote the protein is present at specific phage-related keywords (such as 'capsid', 'head', 'integrase', 'plate', 'tail', 'fiber', 'coat', 'transposase', 'portal', 'terminase', 'protease' or 'lysin' and 'tRNA')

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001161489.1\|339964_340132_+	hypothetical protein	E3U9J0	Vibrio_phage	2.3e-13	100.0
WP_000005769.1\|341330_341882_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_001881266.1\|342058_343627_+	replication protein	A7BJY2	Enterobacteria_phage	2.7e-58	32.3
WP_000512956.1\|343646_343916_+	hypothetical protein	NA	NA	NA	NA
WP_001052672.1\|344045_344738_+	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_001161489.1\|344815_344983_+	hypothetical protein	E3U9J0	Vibrio_phage	2.3e-13	100.0
WP_000170634.1\|344975_345560_+	DNA-binding protein	E3U9I9	Vibrio_phage	6.4e-114	100.0
WP_000693566.1\|346049_346388_-	helix-turn-helix transcriptional regulator	U5TNA1	Satellite_phage	7.3e-54	100.0
WP_000743997.1\|346513_347593_+	replication initiation factor domain-containing protein	U5TQR3	Satellite_phage	2.2e-213	100.0
WP_001911548.1\|347594_347954_+	hypothetical protein	A0A0N9HE73	Vibrio_phage	4.4e-65	100.0
WP_000493022.1\|348089_348338_+	colonization factor	A0A0N7F140	Vibrio_phage	8.8e-33	100.0
WP_001268534.1\|348444_349632_+\|coat	minor coat protein pIII	A0A142I701	Vibrio_phage	1.4e-200	100.0
WP_000979342.1\|349628_349922_+	accessory cholera enterotoxin	A0A0F6YNQ7	Vibrio_phage	3.7e-46	100.0
WP_000021616.1\|349918_351118_+	zonula occludens toxin ZOT	A0A142I6Z1	Vibrio_phage	5.3e-240	100.0
WP_001881225.1\|351216_351993_+	cholera enterotoxin catalytic subunit CtxA	A0A142I6Y0	Vibrio_phage	1.3e-151	100.0
WP_000593522.1\|351989_352364_+	cholera enterotoxin binding subunit CtxB	Q77DH7	Vibrio_virus	7.8e-65	100.0
WP_000693566.1\|352965_353304_-	helix-turn-helix transcriptional regulator	U5TNA1	Satellite_phage	7.3e-54	100.0
WP_000743997.1\|353429_354509_+	replication initiation factor domain-containing protein	U5TQR3	Satellite_phage	2.2e-213	100.0
WP_001911551.1\|354510_354861_+	hypothetical protein	U5TMH5	Satellite_phage	1.0e-63	100.0
WP_000053920.1\|354954_355179_+	RstC protein	U5TMI6	Satellite_phage	1.1e-34	100.0
WP_000693566.1\|355690_356029_-	helix-turn-helix transcriptional regulator	U5TNA1	Satellite_phage	7.3e-54	100.0
WP_000743997.1\|356154_357234_+	replication initiation factor domain-containing protein	U5TQR3	Satellite_phage	2.2e-213	100.0
WP_001911548.1\|357235_357595_+	hypothetical protein	A0A0N9HE73	Vibrio_phage	4.4e-65	100.0
WP_000493022.1\|357730_357979_+	colonization factor	A0A0N7F140	Vibrio_phage	8.8e-33	100.0
WP_001268534.1\|358085_359273_+\|coat	minor coat protein pIII	A0A142I701	Vibrio_phage	1.4e-200	100.0
WP_000979342.1\|359269_359563_+	accessory cholera enterotoxin	A0A0F6YNQ7	Vibrio_phage	3.7e-46	100.0
WP_000021616.1\|359559_360759_+	zonula occludens toxin ZOT	A0A142I6Z1	Vibrio_phage	5.3e-240	100.0
WP_001881225.1\|360857_361634_+	cholera enterotoxin catalytic subunit CtxA	A0A142I6Y0	Vibrio_phage	1.3e-151	100.0
WP_000593522.1\|361630_362005_+	cholera enterotoxin binding subunit CtxB	Q77DH7	Vibrio_virus	7.8e-65	100.0
WP_000517826.1\|362462_376100_-	MARTX multifunctional-autoprocessing repeats-in-toxin holotoxin RtxA	B3Y8K3	Vibrio_virus	8.4e-07	100.0
WP_001881196.1\|376123_376585_-	RTX toxin-activating lysine-acyltransferase RtxC	NA	NA	NA	NA
WP_001906284.1\|376610_376958_-	hypothetical protein	NA	NA	NA	NA
WP_149591715.1\|377384_379490_+	RTX toxin T1SS ABC transporter subunit RtxB	W8CYL7	Bacillus_phage	4.9e-39	27.1

DBSCAN-SWA_2

1117864 : 1125057

Anguillid_herpesvirus(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001162850.1\|1117864_1118293_-	nucleoside-diphosphate kinase	D2E8E1	Anguillid_herpesvirus	1.0e-20	38.4
WP_000107237.1\|1118496_1119786_-	aminopeptidase PepB	Q6GYZ8	Mycoplasma_phage	1.7e-34	34.3
WP_000872176.1\|1120005_1120200_-	Fe-S cluster assembly protein IscX	NA	NA	NA	NA
WP_001124187.1\|1120248_1120587_-	ISC system 2Fe-2S type ferredoxin	NA	NA	NA	NA
WP_001196560.1\|1120600_1122451_-	Fe-S protein assembly chaperone HscA	A0A0N9QXN8	Chrysochromulina_ericina_virus	5.3e-106	41.1
WP_001105747.1\|1122474_1122990_-	co-chaperone HscB	NA	NA	NA	NA
WP_000301571.1\|1123038_1123362_-	iron-sulfur cluster assembly protein IscA	A0A2H4N7N5	Lake_Baikal_phage	3.0e-25	50.5
WP_000331703.1\|1123422_1123806_-	Fe-S cluster assembly scaffold IscU	A0A218MKD1	uncultured_virus	5.4e-53	78.2
WP_000775253.1\|1123842_1125057_-	IscS subfamily cysteine desulfurase	A0A0H3TPH2	Faustovirus	1.1e-32	30.5

DBSCAN-SWA_3

1356692 : 1363916

uncultured_Mediterranean_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001279365.1\|1356692_1357580_+	cysteine synthase CysM	A0A1X9I5K7	Streptococcus_phage	4.1e-56	41.1
WP_001894770.1\|1357847_1360436_+	DNA mismatch repair protein MutS	A0A1V0SC35	Catovirus	2.2e-33	23.0
WP_000116737.1\|1360528_1361536_-	RNA polymerase sigma factor RpoS	F4YCU2	Synechococcus_phage	6.0e-35	34.2
WP_000177568.1\|1361609_1362545_-	murein hydrolase activator NlpD	D7RWE0	Brochothrix_phage	7.8e-05	34.7
WP_000002982.1\|1362544_1363171_-	protein-L-isoaspartate(D-aspartate) O-methyltransferase	A0A1B1IU40	uncultured_Mediterranean_phage	2.0e-36	52.1
WP_000698379.1\|1363163_1363916_-	5'/3'-nucleotidase SurE	A0A1B1ITZ2	uncultured_Mediterranean_phage	8.0e-69	53.3

DBSCAN-SWA_4

2474338 : 2480955

Staphylococcus_phage(66.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000210573.1\|2474338_2475472_+	glutamate 5-kinase	A0A1X9I5D0	Streptococcus_phage	1.4e-64	40.4
WP_000366574.1\|2475483_2476734_+	glutamate-5-semialdehyde dehydrogenase	A0A1X9I5D4	Streptococcus_phage	5.0e-100	49.5
WP_000543544.1\|2476833_2477283_+	transcriptional regulator NrdR	NA	NA	NA	NA
WP_001131994.1\|2477308_2478412_+	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A2H4PQS8	Staphylococcus_phage	1.3e-43	33.1
WP_000493874.1\|2478416_2479070_+	riboflavin synthase	A0A2H4PQS5	Staphylococcus_phage	1.2e-31	38.2
WP_001122865.1\|2479110_2480220_+	bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	A0A2H4PQS2	Staphylococcus_phage	6.7e-64	39.8
WP_000864130.1\|2480484_2480955_+	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	6.8e-34	48.7

DBSCAN-SWA_5

2535754 : 2601720

Vibrio_phage(89.13%)

integrase,head,terminase,tail,plate,portal,tRNA,capsid

attL 2569295:2569318|attR 2602405:2602428

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000216841.1\|2535754_2537179_+\|tRNA	glutamate--tRNA ligase	NA	NA	NA	NA
WP_000731531.1\|2537474_2538440_+	OmpA family protein	NA	NA	NA	NA
WP_001895039.1\|2538528_2539035_-	Fe3+-citrate ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_000279435.1\|2539646_2541710_+	TonB-dependent siderophore receptor	NA	NA	NA	NA
WP_000064348.1\|2542013_2542829_+	siderophore-interacting protein	NA	NA	NA	NA
WP_000523394.1\|2543074_2550328_+	non-ribosomal peptide synthetase	A0A2K9KZV5	Tupanvirus	2.9e-30	22.9
WP_000739493.1\|2550457_2551591_-	flagella assembly protein FlgT	NA	NA	NA	NA
WP_000759070.1\|2551751_2552387_+	membrane protein	NA	NA	NA	NA
WP_001881911.1\|2552394_2552832_+	flagellar assembly lipoprotein FlgP	NA	NA	NA	NA
WP_000729367.1\|2552941_2553367_-	flagellar protein FlgN	NA	NA	NA	NA
WP_000907265.1\|2553470_2553794_-	flagellar biosynthesis anti-sigma factor FlgM	NA	NA	NA	NA
WP_001881906.1\|2553924_2554692_-	flagellar basal body P-ring formation protein FlgA	NA	NA	NA	NA
WP_000145786.1\|2554748_2555675_+	chemotaxis protein CheV	Q56AR1	Bacillus_thuringiensis_phage	1.4e-35	31.6
WP_000125387.1\|2555685_2556513_+	protein-glutamate O-methyltransferase	NA	NA	NA	NA
WP_001007981.1\|2556732_2557128_+	flagellar basal body rod protein FlgB	NA	NA	NA	NA
WP_000051920.1\|2557132_2557549_+	flagellar basal body rod protein FlgC	NA	NA	NA	NA
WP_000929365.1\|2557566_2558274_+	flagellar hook assembly protein FlgD	NA	NA	NA	NA
WP_000122825.1\|2558302_2559607_+	flagellar hook protein FlgE	NA	NA	NA	NA
WP_000373284.1\|2559789_2560539_+	flagellar basal-body rod protein FlgF	NA	NA	NA	NA
WP_001182097.1\|2560558_2561347_+	flagellar basal-body rod protein FlgG	NA	NA	NA	NA
WP_001911822.1\|2561370_2562147_+	flagellar basal body L-ring protein FlgH	NA	NA	NA	NA
WP_001225051.1\|2562237_2563323_+	flagellar basal body P-ring protein FlgI	NA	NA	NA	NA
WP_000609516.1\|2563333_2564272_+	flagellar assembly peptidoglycan hydrolase FlgJ	S5M9Y4	Brevibacillus_phage	9.5e-11	31.9
WP_000135483.1\|2564451_2566326_+	flagellar hook-associated protein FlgK	NA	NA	NA	NA
WP_000934642.1\|2566338_2567532_+	flagellar hook-associated protein FlgL	NA	NA	NA	NA
WP_000154827.1\|2567939_2569079_+	flagellin	NA	NA	NA	NA
2569295:2569318	attL	NA	NA	NA	NA
WP_000116333.1\|2569527_2570565_-\|integrase	site-specific integrase	U3PIJ4	Vibrio_phage	1.5e-198	100.0
WP_000985033.1\|2570564_2570978_-	hypothetical protein	U3PDE6	Vibrio_phage	8.9e-70	100.0
WP_000132153.1\|2570977_2571883_-	NAD-dependent DNA ligase	U3PB51	Vibrio_phage	1.3e-161	100.0
WP_001881894.1\|2571908_2572556_-	phage repressor protein CI	A0A166YHA0	Vibrio_phage	1.1e-119	100.0
WP_000959026.1\|2572701_2572914_+	hypothetical protein	U3PFJ1	Vibrio_phage	6.4e-32	100.0
WP_000253093.1\|2573024_2573564_+	phage regulatory CII family protein	U3PIJ8	Vibrio_phage	5.5e-96	100.0
WP_001272765.1\|2573576_2574011_+	hypothetical protein	U3PDF0	Vibrio_phage	2.8e-74	100.0
WP_001031152.1\|2574092_2574626_+	hypothetical protein	U3PB56	Vibrio_phage	3.9e-86	100.0
WP_000997540.1\|2574622_2575033_+	hypothetical protein	U3PCE8	Vibrio_phage	1.8e-75	100.0
WP_001198814.1\|2575282_2575510_+	hypothetical protein	U3PIK2	Vibrio_phage	3.2e-37	100.0
WP_000099608.1\|2575506_2576124_+	DNA methyltransferase	U3PDF3	Vibrio_phage	1.2e-118	100.0
WP_000629095.1\|2576120_2576231_+	hypothetical protein	NA	NA	NA	NA
WP_000613058.1\|2576227_2576812_+	hypothetical protein	U3PB60	Vibrio_phage	3.2e-105	100.0
WP_001909657.1\|2576808_2579394_+	replication endonuclease	A0A166YHE2	Vibrio_phage	0.0e+00	99.9
WP_000756239.1\|2579403_2579940_+	DUF262 domain-containing protein	U3PFK3	Vibrio_phage	4.1e-99	100.0
WP_001140408.1\|2580013_2580352_-	helix-turn-helix transcriptional regulator	U3PIK7	Vibrio_phage	2.8e-53	100.0
WP_001292395.1\|2580589_2580835_+	hypothetical protein	U3PDF9	Vibrio_phage	1.5e-37	100.0
WP_001263191.1\|2580835_2581087_-	ogr/Delta-like zinc finger family protein	U3PB63	Vibrio_phage	1.9e-43	100.0
WP_000729650.1\|2581157_2581373_-	hypothetical protein	U3PCF7	Vibrio_phage	3.1e-34	100.0
WP_001999948.1\|2581356_2582403_-\|portal	phage portal protein	U3PFK6	Vibrio_phage	5.7e-206	100.0
WP_000331803.1\|2582399_2584217_-\|terminase	terminase ATPase subunit family protein	U3PIL1	Vibrio_phage	0.0e+00	100.0
WP_001127095.1\|2584390_2585290_+\|capsid	GPO family capsid scaffolding protein	A0A160DHM4	Vibrio_phage	4.0e-123	100.0
WP_000078361.1\|2585326_2586337_+\|capsid	phage major capsid protein, P2 family	U3PB67	Vibrio_phage	7.0e-193	100.0
WP_000059165.1\|2586352_2587069_+\|terminase	terminase endonuclease subunit	U3PCG2	Vibrio_phage	1.3e-132	100.0
WP_000493401.1\|2587175_2587637_+\|head	head completion/stabilization protein	U3PFL1	Vibrio_phage	1.5e-78	100.0
WP_000122189.1\|2587633_2588122_+\|tail	phage tail protein	U3PIL4	Vibrio_phage	1.6e-89	100.0
WP_000461677.1\|2588108_2588768_+	phage virion morphogenesis protein	U3PDG7	Vibrio_phage	9.1e-117	100.0
WP_000312540.1\|2588769_2589879_+	DUF2586 family protein	U3PB71	Vibrio_phage	1.5e-209	100.0
WP_000063627.1\|2589878_2590337_+	DUF2597 family protein	U3PCG7	Vibrio_phage	1.3e-82	100.0
WP_000382491.1\|2590351_2590561_+	TraR/DksA family transcriptional regulator	U3PFL5	Vibrio_phage	2.0e-33	100.0
WP_001077689.1\|2590557_2590785_+	hypothetical protein	U3PIL8	Vibrio_phage	2.1e-36	100.0
WP_000705022.1\|2590771_2591359_+	lysozyme	U3PDH1	Vibrio_phage	2.5e-110	100.0
WP_000990572.1\|2591333_2591675_+	hypothetical protein	U3PB75	Vibrio_phage	1.1e-52	100.0
WP_001899696.1\|2591724_2591886_+	hypothetical protein	U3PCH1	Vibrio_phage	1.1e-23	98.1
WP_000165786.1\|2591882_2592164_+	hypothetical protein	A9ZT39	Vibrio_virus	5.1e-45	100.0
WP_000343647.1\|2592360_2594178_+\|tail	phage tail tape measure protein	U3PFL8	Vibrio_phage	0.0e+00	100.0
WP_001113003.1\|2594167_2594500_+	DUF2590 family protein	U3PIM1	Vibrio_phage	1.7e-55	100.0
WP_000044509.1\|2594496_2595696_+\|plate	baseplate J/gp47 family protein	U3PDH5	Vibrio_phage	1.0e-222	100.0
WP_000005870.1\|2595692_2596352_+	hypothetical protein	U3PB79	Vibrio_phage	8.2e-126	100.0
WP_000083759.1\|2596348_2598211_+\|tail	phage tail protein	Q8HA58	Vibrio_phage	0.0e+00	100.0
WP_000369864.1\|2598210_2598735_+	hypothetical protein	A9ZT45	Vibrio_virus	4.8e-97	100.0
WP_000267787.1\|2598737_2599631_+	hypothetical protein	U3PIM3	Vibrio_phage	2.8e-161	100.0
WP_000457681.1\|2599618_2600092_+	hypothetical protein	U3PDI0	Vibrio_phage	6.6e-77	100.0
WP_000779002.1\|2600088_2601720_+	hypothetical protein	U3PB83	Vibrio_phage	0.0e+00	100.0
2602405:2602428	attR	NA	NA	NA	NA

Anti-CRISPR protein detection

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