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_CP046739	Vibrio cholerae strain 3566-06 chromosome 2, complete sequence	0 crisprs	cas3,csx1,csa3	0	0	2	0
NZ_CP046740	Vibrio cholerae strain 3566-06 chromosome 1, complete sequence	1 crisprs	cas3,DEDDh,DinG,csx1,csa3	0	1	6	0

Results visualization

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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

768606 : 777955

Escherichia_phage(33.33%)

transposase

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_001217709.1\|768606_769650_+	GMP reductase	A0A0N9Q9A5	Chrysochromulina_ericina_virus	1.8e-98	53.6
WP_001915158.1\|769837_771019_+	DNA cytosine methyltransferase	M1PSQ0	Streptococcus_phage	1.2e-42	31.8
WP_001887132.1\|771103_774100_+	sensor histidine kinase	A0A1B5FPD5	Escherichia_phage	6.0e-75	32.3
WP_001887131.1\|774099_775896_+	hypothetical protein	A0A1B5FPH1	Escherichia_phage	8.2e-27	22.1
WP_001887130.1\|775957_776395_-\|transposase	IS200/IS605 family transposase	A0A1P8BMC0	Lactococcus_phage	3.2e-17	34.1
WP_001887128.1\|776560_777955_-	DEAD/DEAH box helicase	Q5GF26	Diachasmimorpha_longicaudata_entomopoxvirus	1.7e-48	36.4

DBSCAN-SWA_2

963190 : 976048

Vibrio_phage(85.71%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_134983484.1\|963190_964390_-	zonula occludens toxin ZOT	A0A0N9HE81	Vibrio_phage	6.5e-238	99.7
WP_080112448.1\|964386_964680_-	accessory cholera enterotoxin	A0A0F6YNQ7	Vibrio_phage	4.1e-45	99.0
WP_158106819.1\|964676_965957_-	hypothetical protein	A0A142I701	Vibrio_phage	3.6e-218	94.1
WP_000493022.1\|965967_966216_-	colonization factor	A0A0N7F140	Vibrio_phage	8.8e-33	100.0
WP_032473196.1\|966351_966672_-	hypothetical protein	Q2PZB5	Vibrio_virus	1.0e-49	92.5
WP_005521561.1\|966721_968467_-	replication endonuclease	A0A0F6YPA7	Vibrio_phage	0.0e+00	98.1
WP_032469109.1\|968978_969320_+	helix-turn-helix transcriptional regulator	A0A0F6WBJ9	Vibrio_phage	9.6e-54	100.0
WP_134983484.1\|969915_971115_-	zonula occludens toxin ZOT	A0A0N9HE81	Vibrio_phage	6.5e-238	99.7
WP_080112448.1\|971111_971405_-	accessory cholera enterotoxin	A0A0F6YNQ7	Vibrio_phage	4.1e-45	99.0
WP_158106820.1\|971401_972685_-	hypothetical protein	A0A142I701	Vibrio_phage	7.2e-219	98.6
WP_000493022.1\|972695_972944_-	colonization factor	A0A0N7F140	Vibrio_phage	8.8e-33	100.0
WP_032473196.1\|973079_973400_-	hypothetical protein	Q2PZB5	Vibrio_virus	1.0e-49	92.5
WP_005521561.1\|973449_975195_-	replication endonuclease	A0A0F6YPA7	Vibrio_phage	0.0e+00	98.1
WP_032469109.1\|975706_976048_+	helix-turn-helix transcriptional regulator	A0A0F6WBJ9	Vibrio_phage	9.6e-54	100.0

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. NZ_CP046740

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CRISPR-Cas detection and classification

Crispr_ID: NZ_CP046740_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP046740_1

2672916-2673160

Orphan

Consensus_repeat	Method
AAAATGTGCCTCCTTAGCTCAGTCGGTAGAGCAACGGACTGATAATCCGC	PILER-CR

2 spacers

The CRISPR arrays of NZ_CP046740_1

>merge|NZ_CP046740|1|2672916-2673160|PILER-CR
TGTGCCGGCTTAGCTCAGTAGGTAGAGCAACTGACTTGTAATCAGTAGGTCGCCAGTTCGATTCCGGCAGCCGGCACCACTTAAAATTTGCCTCGATAGCTCAGTCGGTAGAGCAGAGGATTGAAAATCCTCGTGTCGGTGGTTCGATTCCGCCTCGAGGCACCACTATTAAAAGTTGTGCCATAGACACAATAAAAATTGTTCCTCCTTAGCTCAGTCGGTAGAGCGACGGACTGTTAATCCGC

>NZ_CP046740|1|1|2672916-2673160|PILER-CR
TGTGCCGGCTTAGCTCAGTAGGTAGAGCAACTGACTTGTAATCAGTAGGT	CGCCAGTTCGATTCCGGCAGCCGGCACCACTTAAAATTT
GCCTCGATAGCTCAGTCGGTAGAGCAGAGGATTGAAAATCCTCGTGTCGG	TGGTTCGATTCCGCCTCGAGGCACCACTATTAAAAGTTGTGCCATAGACACAATAAAAATTGT
TCCTCCTTAGCTCAGTCGGTAGAGCGACGGACTGTTAATCCGC

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP046740.1\|WP_032472717.1\|2684049_2684547_-\|type-3-dihydrofolate-reductase	unknown	unknown	gnl\|CDD\|365932
NZ_CP046740.1\|WP_000741914.1\|2665477_2665768_+\|YggU-family-protein	unknown	unknown	gnl\|CDD\|179931
NZ_CP046740.1\|WP_001888163.1\|2670108_2671170_+\|A/G-specific-adenine-glycosylase	unknown	unknown	gnl\|CDD\|182805
NZ_CP046740.1\|WP_080286693.1\|2677121_2679485_+\|LPS-assembly-protein-LptD	unknown	unknown	gnl\|CDD\|235158
NZ_CP046740.1\|WP_001888158.1\|2666910_2668086_+\|radical-SAM-family-heme-chaperone-HemW	unknown	unknown	gnl\|CDD\|235550
NZ_CP046740.1\|WP_019829625.1\|2673448_2675074_+\|methyl-accepting-chemotaxis-protein	unknown	unknown	gnl\|CDD\|223910
NZ_CP046740.1\|WP_001087261.1\|2664920_2665478_+\|YggT-family-protein	unknown	unknown	gnl\|CDD\|223833
NZ_CP046740.1\|WP_019828843.1\|2668118_2669039_-\|glutaminase-B	unknown	unknown	gnl\|CDD\|234880
NZ_CP046740.1\|WP_000383338.1\|2682715_2683096_+\|Co2+/Mg2+-efflux-protein-ApaG	unknown	unknown	gnl\|CDD\|180098
NZ_CP046740.1\|WP_000780522.1\|2679537_2680833_+\|peptidylprolyl-isomerase-SurA	unknown	unknown	gnl\|CDD\|236758
NZ_CP046740.1\|WP_001892423.1\|2684559_2685045_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|182143
NZ_CP046740.1\|WP_032472721.1\|2666314_2666917_+\|XTP/dITP-diphosphatase	unknown	unknown	gnl\|CDD\|234648
NZ_CP046740.1\|WP_032472718.1\|2683106_2683916_+\|symmetrical-bis(5'-nucleosyl)-tetraphosphatase	unknown	unknown	gnl\|CDD\|234673
NZ_CP046740.1\|WP_001233675.1\|2665813_2666245_+\|DUF4426-domain-containing-protein	unknown	unknown	gnl\|CDD\|379616
NZ_CP046740.1\|WP_000124738.1\|2671183_2671456_+\|oxidative-damage-protection-protein	unknown	unknown	gnl\|CDD\|180059
NZ_CP046740.1\|WP_019828838.1\|2671557_2672685_+\|membrane-bound-lytic-murein-transglycosylase-MltC	unknown	unknown	gnl\|CDD\|183271
NZ_CP046740.1\|WP_000546924.1\|2676120_2676975_-\|co-chaperone-DjlA	unknown	unknown	gnl\|CDD\|236512
NZ_CP046740.1\|WP_000005581.1\|2669149_2669869_-\|tRNA-(guanosine(46)-N7)-methyltransferase-TrmB	unknown	unknown	gnl\|CDD\|234649
NZ_CP046740.1\|WP_032472719.1\|2680822_2681815_+\|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA	unknown	unknown	gnl\|CDD\|234696
NZ_CP046740.1\|WP_001243262.1\|2681828_2682644_+\|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA	unknown	unknown	gnl\|CDD\|234708

Protein	Function_ID	Function_description	E-value
NZ_CP046740.1\|WP_032472717.1\|2684049_2684547_-\|type-3-dihydrofolate-reductase	gnl\|CDD\|365932	pfam00186, DHFR_1, Dihydrofolate reductase.	1.46864e-89
NZ_CP046740.1\|WP_000741914.1\|2665477_2665768_+\|YggU-family-protein	gnl\|CDD\|179931	PRK05090, PRK05090, hypothetical protein; Validated.	1.27614e-60
NZ_CP046740.1\|WP_001888163.1\|2670108_2671170_+\|A/G-specific-adenine-glycosylase	gnl\|CDD\|182805	PRK10880, PRK10880, adenine DNA glycosylase.	0
NZ_CP046740.1\|WP_080286693.1\|2677121_2679485_+\|LPS-assembly-protein-LptD	gnl\|CDD\|235158	PRK03761, PRK03761, LPS assembly outer membrane complex protein LptD; Provisional.	0
NZ_CP046740.1\|WP_001888158.1\|2666910_2668086_+\|radical-SAM-family-heme-chaperone-HemW	gnl\|CDD\|235550	PRK05660, PRK05660, radical SAM family heme chaperone HemW.	0
NZ_CP046740.1\|WP_019829625.1\|2673448_2675074_+\|methyl-accepting-chemotaxis-protein	gnl\|CDD\|223910	COG0840, Tar, Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms].	1.58167e-58
NZ_CP046740.1\|WP_001087261.1\|2664920_2665478_+\|YggT-family-protein	gnl\|CDD\|223833	COG0762, COG0762, Predicted integral membrane protein [Function unknown].	2.77868e-12
NZ_CP046740.1\|WP_019828843.1\|2668118_2669039_-\|glutaminase-B	gnl\|CDD\|234880	PRK00971, PRK00971, glutaminase; Provisional.	0
NZ_CP046740.1\|WP_000383338.1\|2682715_2683096_+\|Co2+/Mg2+-efflux-protein-ApaG	gnl\|CDD\|180098	PRK05461, apaG, CO2+/MG2+ efflux protein ApaG; Reviewed.	1.16069e-74
NZ_CP046740.1\|WP_000780522.1\|2679537_2680833_+\|peptidylprolyl-isomerase-SurA	gnl\|CDD\|236758	PRK10770, PRK10770, peptidyl-prolyl cis-trans isomerase SurA; Provisional.	1.14348e-156
NZ_CP046740.1\|WP_001892423.1\|2684559_2685045_-\|hypothetical-protein	gnl\|CDD\|182143	PRK09917, PRK09917, threonine/serine exporter.	2.57871e-66
NZ_CP046740.1\|WP_032472721.1\|2666314_2666917_+\|XTP/dITP-diphosphatase	gnl\|CDD\|234648	PRK00120, PRK00120, dITP/XTP pyrophosphatase; Reviewed.	2.28065e-126
NZ_CP046740.1\|WP_032472718.1\|2683106_2683916_+\|symmetrical-bis(5'-nucleosyl)-tetraphosphatase	gnl\|CDD\|234673	PRK00166, apaH, symmetrical bis(5'-nucleosyl)-tetraphosphatase.	3.12499e-169
NZ_CP046740.1\|WP_001233675.1\|2665813_2666245_+\|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.	5.78532e-66
NZ_CP046740.1\|WP_000124738.1\|2671183_2671456_+\|oxidative-damage-protection-protein	gnl\|CDD\|180059	PRK05408, PRK05408, oxidative damage protection protein; Provisional.	5.47988e-59
NZ_CP046740.1\|WP_019828838.1\|2671557_2672685_+\|membrane-bound-lytic-murein-transglycosylase-MltC	gnl\|CDD\|183271	PRK11671, mltC, membrane-bound lytic murein transglycosylase MltC.	1.49412e-155
NZ_CP046740.1\|WP_000546924.1\|2676120_2676975_-\|co-chaperone-DjlA	gnl\|CDD\|236512	PRK09430, djlA, co-chaperone DjlA.	1.60415e-153
NZ_CP046740.1\|WP_000005581.1\|2669149_2669869_-\|tRNA-(guanosine(46)-N7)-methyltransferase-TrmB	gnl\|CDD\|234649	PRK00121, trmB, tRNA (guanine-N(7)-)-methyltransferase; Reviewed.	4.57395e-111
NZ_CP046740.1\|WP_032472719.1\|2680822_2681815_+\|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA	gnl\|CDD\|234696	PRK00232, pdxA, 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed.	0
NZ_CP046740.1\|WP_001243262.1\|2681828_2682644_+\|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_CP046740.1|WP_019828838.1|2671557_2672685_+|membrane-bound-lytic-murein-transglycosylase-MltC
MRKLVLCITALLLSGCSREFIEKIYDVDYEPTNRFAKNLAELPGQFQKDTAALDALINSFSGNIEKRWGRSELKIAGKNNYVKYIDNYLSRSEVNFTEGRIIVETVSPIDPKAHLRNAIITTLLTPDDPAHVDLFSSKDIELKGQPFLYQQVLDQDAQPIQWSWRANRYADYLIANHLKVKQVDFKKAYYVEIPMVKDQIDIRGYKYASIVRKASRKYDIPEDLIYAIIKTESSFNPYAVSWANAYGLMQVVPKTAGRDVFKLVKNRSGEPSPEYLFNPENNIDTGTAYFYILKNRYLKEVRHPTSLEYSMISAYNGGTGGVLSTFSSDRQRAMRDLNALQPNQVYWALTKKHPNAEARRYLEKVTKFKKEFNAG
>NZ_CP046740.1|WP_000124738.1|2671183_2671456_+|oxidative-damage-protection-protein
MARTVFCTRLQKEADGLDFQLYPGELGKRIFDNICKEAWAQWQTKQTMLINEKKLNMMDPEHRKLLEQEMVNFLFEGKEVHIEGYTPPAK
>NZ_CP046740.1|WP_001888163.1|2670108_2671170_+|A/G-specific-adenine-glycosylase
MTPFAQAILTWYDAYGRKNLPWQQNKNAYRVWLSEIMLQQTQVATVIPYFERFLERFPTVQALAAAPQDEVLHFWTGLGYYARARNLHKAAQMVVSEYGGEFPTDLEQMNALPGVGRSTAAAVLSSVYKKPHAILDGNVKRTLARCFAVEGWPGQKSVENQLWHYAEMHTPKVDVDKYNQAMMDMGAMICTRSKPKCSLCPVESFCLAKQQGNPQEYPGKKPKTEKPVKATWFVMLYHDNAVWLEQRPQSGIWGGLYCFPQSEIANIQTTIDQRAIGDSTITSQKTLIAFRHTFSHYHLDITPILLQLSRKPDIVMEGSKGLWYNLSQPDEIGLAAPVKQLLHSLPFDIDSHI
>NZ_CP046740.1|WP_000005581.1|2669149_2669869_-|tRNA-(guanosine(46)-N7)-methyltransferase-TrmB
MSEVITQEYTEDGKVLRRIRSFVRREGRLTKGQEAAMKECWPTMGIDYQPELLDWQQVFGNDNPVVLEIGFGMGASLVEMAKNAPEKNFLGIEVHSPGVGACLASAREAGVTNLRVMCHDAVEVFAHMIPDNSLHTLQLFFPDPWHKKRHHKRRIVQLEFAEMVRQKLIIGSGVFHMATDWENYAEHMIEVMNQAPGFANLATDGDYIPRPDERPLTKFEQRGHRLGHGVWDIKYQRTA
>NZ_CP046740.1|WP_019828843.1|2668118_2669039_-|glutaminase-B
MKPTAEILASIIEEVRPLTSKGIVADYIPALAKVPSEKLGIAVFTNQGEVITAGDAQEGFSIQSISKVLSLTLAMGLYQPDELWSRVGKEPSGQAFNSLIQLEMEQGIPRNPFINAGAIVVCDMLQSRLSAPRQRLLEFVRQLSGEPLIAYDKVVAASEMMHSDRNAAIAYLMRSFGNFHNEVIPVLHNYFHACALKMSCVELAKTFSYLANKGVSVVTGETVITPTQSKQTNALLATCGLYDGAGEFAYRVGMPGKSGVGGGIIAVVPGEMTIAVWSPALDQSGNSLAGTRALELLAQRIGRSIF
>NZ_CP046740.1|WP_001888158.1|2666910_2668086_+|radical-SAM-family-heme-chaperone-HemW
MLTPPPLSLYIHIPWCVQKCPYCDFNSHAQKGDIPEQEYLDALLEDLDRDIERYQLKGDPRLLHSIFIGGGTPSLISAEGIARLLQGVAECIAFKPEIEITMEANPGTIEAQRFAGYRTAGVTRISIGVQSFEPEKLARLGRIHGQQEAVRAAQLAHKIGLNSFNLDLMHGLPDQTPEQALADLDQAIALNPPHLSWYQLTIEPNTLFYSKPPKLPDEDALWDIFELGHQKLSDAGYVQYEISGYSKPGYQCQHNLNYWRFGDYLGIGCGAHGKLSFADGRIVRTTKTKHPRGYLAALNNLAKAYLDSEQLVADQDKPFEFFMNRFRLIEPCPKADFTATTGLTIDVIRPTLDWAISEGYLSEDDQHWQITEKGKLFLNDLLEAFMADEEE
>NZ_CP046740.1|WP_032472721.1|2666314_2666917_+|XTP/dITP-diphosphatase
MKKIVLATGNQGKVREMADLLSDFGFDVVAQSEFNVPEAAETGTTFIENAIIKARHAAKITGLPAIADDSGLEVDYLNSAPGIYSARYAGEHASDGDNLNKLLAAMQDVPDDQRSARFHCVLVLMRHADDPTPIVCHGKWEGKILTAPHGSNGFGYDPIFWVPEENCASAELEPVRKKQLSHRGKALQKLFNAIEEQRTC
>NZ_CP046740.1|WP_001233675.1|2665813_2666245_+|DUF4426-domain-containing-protein
MRKWMMSLLLTLLALPASAEQQKTIKDIEVHYSAFNSTFLTPKVASSYQLTRNGYTAILNISVLDRASLGKPATEAKLTGHTKNLIGNLRELNFKQVKEGNAIYYLAEVPISNEEMLTFDIDVDAGLKGAGKLTFSQKFYTEQ
>NZ_CP046740.1|WP_000741914.1|2665477_2665768_+|YggU-family-protein
MAAVWREGDDLLLRLYIQPKASRDSIVGLHGEELKVAITAPPIDGKANAHLSKYLAKLCKVAKGSVVIEKGELGRHKQVRILQPSQIPAEIAALIE
>NZ_CP046740.1|WP_001087261.1|2664920_2665478_+|YggT-family-protein
MNSLSFLINTLFDLYIMVVILRIWLQAARADFYNPFSQFIVKATQPVVGPLRRVIPSIGSIDLATIVFAYVLCVLKFMALVLIASSGSVSFSADFLFLGLLSLIKAAGGLLFWVLLIRAILSWVSQGRSPIEYVFHQLTEPMLAPIRRIIPVMGGFDLSILVLFIVLQFANFLMGDVIGPIWYQL
>NZ_CP046740.1|WP_019829625.1|2673448_2675074_+|methyl-accepting-chemotaxis-protein
MKLKTQAYLLSTIILAALLALTATGLWTLRVASNLDNKARVTELFNSAYSILTEVEKLAQEGKMSEPEAKALATRLMRNNLYKDNEYVYVADENMTFVATPLDPQLHDTSFHDFKDGKGNSVGRLIQDVLRHQSGKLVEYTWTQKQADGLIEEKLSIARKTPHWGWVVGTGIGFNEVNARFWSTAQWQLSLCVVIAVAILSLLLVAIRKILLIIGGEPNEVRSAVQAVAQGRIRREFAIKAPKESIYGAVQQMSSSLADLVTKLEQSMVALRSELAGAGTRAKSIAELTDSQQQSTAMIATAMTEMASSANQVADSARDTAFNTDQADQQSQHTQKLIHNTVSNIQGLATQLQTASTAVADLDLDVKNIAKVLDVIGDIAEQTNLLALNAAIEAARAGEQGRGFAVVADEVRNLAGRTQTSTKEIQQMIHNLQEGSRNAIQTIQICGQTSQSSVQESENAASALALIVSALESVSSMSHQIATAAAEQTQVSDDIARRINMIEESGSKLSRVVMESHNSTKTLTKLARELEQWAAHFEVTR
>NZ_CP046740.1|WP_000546924.1|2676120_2676975_-|co-chaperone-DjlA
MHIFGKILGAFFGFLFGGPFGAIFGIFLGHQFDKARRLNQAGFQSGTFGAGPSQAERQEEFFKSAFSVMGHVAKAKGQVTKEEIQLATIMMDRMNLTLEQKRAAQDAFRDGKESDFPLEQVLERVKIATGGRFDLLQFFLELQVSSAFADGDVHPSERQVLHRIARGLGFSSEQLERRLRMQEAAFRFQQGGGFGGSQQQSHSGQQWQQPSSRHQLADAYEVLGVSESASAQEVKRAYRKLMNEHHPDKLMAKGLPPEMMNVAKEKSQQIQHAYELIRKEKGIK
>NZ_CP046740.1|WP_080286693.1|2677121_2679485_+|LPS-assembly-protein-LptD
MYNPMSCFSRTFLAASISAALFAPQIQAEASVDDNRAQLPNGEQCLVNQPEPTNPGQQPINVEADKLEAINGQKATYSGNVVVVQGKKRIAADNVTLHQQENVVVAEGNVQFSDGEIKTHSTKATNHLNTDEMTLENTRYQFLCEPGRGEAVYVSKTGKAVYEIEDGSITSCPDGDNAWRMRASSIDVDQNEEIATFYNPRLEVQNVPVFYLPYLTVPIGDTRKTGFLYPTASYGSRNGYSFEVPIYWNLAPQYDLETTFNYMQKRGTQLNSVFRYLTDFGAGQIKSEYLADDQLHTELGDRWAFQYEHNGIFQQAWKFEIDYSKVSDINYFSDLDSGVGNREDGQLIQEGRATYRSDSWDSALLVRDFQLLTKDTTSTNLPYRLMPQLSYNYYAPETMKYLDLDLVSHVSRFETDARGKPSATRVHIEPGLKIPFSNTWGNWTTEARVLGTYYQQDLDKTTDAKLEESVTRVIPEIRSVAGIVLERDTVLLDNYTQTLEPKIQYLYVPEKYQDNIGLYDSTLLQTDYYGLFRSRKYSGVDRIESANQVSYGASTRFFDSNYKERLNIAFGQIFYLDSKLNPSNKNPDSTSDKTSYSAWAVEMDFNFADYLFYHGGIQYDIDSQAVQLGNSTLEYRVASGYIQANYRYVAKDYIRNTVGDSITNIDDITRDGISQAGILAGYQLSRKWSASGQYYYDLTTDEALEWLANLTYTSDCWYVGFTYSNQLKSWNGNFVTDPYATPIYENNFSFNIGIIGFGTSIGAGSSMTGVDSAGNSLGYGRPFFLNN
>NZ_CP046740.1|WP_000780522.1|2679537_2680833_+|peptidylprolyl-isomerase-SurA
MKLWKPTLISVLSALTLFNAHAEPKQLDSVAVIVNSGVILQSDVDSALKTIKANAKQNKQPLPQETVLREQVLEKLIIDTLQQQEADRIGVKIDDNRLNEAIKEIAKNNQQTQEQLIASVAQEGLTYPEFREQVRKEMAASDARNALVRRRINILPAEVDTLAELLAQETDATVQYKISHIQLRVDDGQDKSAAETLANKLVNDLRNGADFAQMAYAYSKGPKALQGGDWGWMRKEEMPTIFADQIKMQNKGSIIGPFRSGVGFHILKIDDVKGLETVAVTEVNARHILIKPTIILSDEGAQKQLNEFVQRIKNGEVTFAELAQQYSQDPGSAAQKGELGYQTPDLYVPEFKHQIETLPVGQISEPFKTVHGWHIVEVLDRREVDRTDSALKNKAYRILFNRKFNEEASAWLQELRASAFVEVLKDEKDEQ
>NZ_CP046740.1|WP_032472719.1|2680822_2681815_+|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA
MSSKRIIVTAGEPAGIGPDLVLALSAQDWPHQLVVCADKTLLAERAEQLGIHVKLLDYQHNNPVQPQQAGTLLVEHIPLAEPVVAGQLNPANGHYVLKTLERAAKGCMNGEFDAIVTGPVHKGVINRAGVAFSGHTEFFAEQSKTPLVVMMLATEGLRTALVTTHLPLAEVPQAITCERLEQIVHILHKDLVEKFAIAEPKIYVCGLNPHAGEDGVLGMEEIETITPTLQRLREQYGMQLVGPLPADTIFSEKYLQQADAVLGMYHDQVLPVLKYKGFGRSVNITLGLPFIRTSVDHGTALDLAGTGQADAGSFWTALAYAIELVDKKAQ
>NZ_CP046740.1|WP_001243262.1|2681828_2682644_+|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA
MRNDVHLGHKARKRFGQNFLNDPYIIDGIVSAINPKPGQNLVEIGPGLGAITEPVGREVDKFTVIELDRDLAERLRNHPELASKLTIHEGDAMRFDFKQLVKPNNKLRVFGNLPYNISTPLMFHLFEFHRDIQDMHFMLQKEVVNRLAAGPGTKAYGRLTVMAQYYCKVVPVLEVPPSAFVPPPKVDSAVVRLVPYEDLPHPATSLEWLDRVVREGFNQRRKTVRNCYKGLAEPETLETLGINPGMRPENLTLAQFVALANWLDATHKTHA
>NZ_CP046740.1|WP_000383338.1|2682715_2683096_+|Co2+/Mg2+-efflux-protein-ApaG
MDVSLPCIKIQVQTRYIEEQSNPEYQRFVFAYLITIKNLSSQTVQLMSRRWLITDADGKQTVVEGDGVVGEQPRIKANDEYTYSSGTALDTPVGVMQGQYLMIDEQGESFTVEIEPFRLAVPHVLN
>NZ_CP046740.1|WP_032472718.1|2683106_2683916_+|symmetrical-bis(5'-nucleosyl)-tetraphosphatase
MANYIVGDIQGCFDELQQLLKQAEFNSQLDTLWFAGDLVARGPKSLETLRFAYQLGDAARVVLGNHDLHLLSVALGHHSAKRRDQTQAILDAPDAAPLLDWLRQQPLLAEHQEFVLCHAGISPQWDLTTARQAAQEVESVLRSPEWSTLIEQMYSDQPDAWHPTLQGIDRLRYIVNAFTRMRFCFPDGRLDMQCKLPPQEVTDGSLLPWFQLPQRIALEKTVIFGHWAALEGYVSETVIGLDTGCVWGGNLTMLRWEDKHYFSQAALPA
>NZ_CP046740.1|WP_032472717.1|2684049_2684547_-|type-3-dihydrofolate-reductase
MTISMIAAMADQRIIGKDNQMPWHLPADFAWFKRCTLGKPVVMGRKTYQSIGRPLPGRHNIVISRDASLQIEGVDVVTSIEAALVKAGEVDEVMIIGGGSLYAACLPIAHKLYITEIHAKLEGDTQFPEWGSDWLERFREHYPADEKNAYGMDFVIFERQNSLPI
>NZ_CP046740.1|WP_001892423.1|2684559_2685045_-|hypothetical-protein
MGVVMLSWDLFFGLLNDMFFAAIPAVGFALVFNVPVPALKYCALGGALGHGSRYLMMHFGVPIEWASFFAATLVGMVGVYWSRRFLAHPKVFTVAALIPMVPGVFAFKAMIALVEINHVGFSPELMEALLENFLKAMFIIAGLAVGLAVPGLLFYRRKPII

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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_CP046740_1	1.1\|2672966\|39\|NZ_CP046740\|PILER-CR	2672966-2673004	39	NC_021742	Serratia liquefaciens ATCC 27592 plasmid unnamed, complete sequence	35428-35466	4	0.897
NZ_CP046740_1	1.1\|2672966\|39\|NZ_CP046740\|PILER-CR	2672966-2673004	39	NC_049942	Escherichia phage JLK-2012, complete sequence	23522-23560	5	0.872

1. spacer 1.1|2672966|39|NZ_CP046740|PILER-CR matches to NC_021742 (Serratia liquefaciens ATCC 27592 plasmid unnamed, complete sequence) position: , mismatch: 4, identity: 0.897

agtaggtcgccagttcgattccggcagccggcaccactt	CRISPR spacer
agtaggtcaccagttcgattccggtagccggcaccaatc	Protospacer
********.***************.*********** *.

2. spacer 1.1|2672966|39|NZ_CP046740|PILER-CR matches to NC_049942 (Escherichia phage JLK-2012, complete sequence) position: , mismatch: 5, identity: 0.872

agtaggtcgccagttcgattccggcagccggcaccactt	CRISPR spacer
atcaggtcgccagttcgattccggtagccggcaccatat	Protospacer
* .*********************.***********. *

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

692185 : 698797

Staphylococcus_phage(66.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000210573.1\|692185_693319_+	glutamate 5-kinase	A0A1X9I5D0	Streptococcus_phage	1.4e-64	40.4
WP_001888606.1\|693327_694581_+	glutamate-5-semialdehyde dehydrogenase	A0A1X9I5D4	Streptococcus_phage	5.0e-100	49.5
WP_000543544.1\|694680_695130_+	transcriptional regulator NrdR	NA	NA	NA	NA
WP_001888607.1\|695155_696259_+	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A2H4PQS8	Staphylococcus_phage	3.5e-44	33.3
WP_000493874.1\|696263_696917_+	riboflavin synthase	A0A2H4PQS5	Staphylococcus_phage	1.2e-31	38.2
WP_001122865.1\|696957_698067_+	bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	A0A2H4PQS2	Staphylococcus_phage	6.7e-64	39.8
WP_000864130.1\|698326_698797_+	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	6.8e-34	48.7

DBSCAN-SWA_2

1480603 : 1494685

Vibrio_phage(68.42%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_000593519.1\|1480603_1480978_-	cholera enterotoxin binding subunit CtxB	A0A142I6Y1	Vibrio_phage	5.9e-65	100.0
WP_001888508.1\|1480974_1481751_-	cholera enterotoxin catalytic subunit CtxA	A0A023W6A1	Vibrio_virus	7.8e-152	100.0
WP_050926705.1\|1481850_1483050_-	zonula occludens toxin ZOT	A0A023W604	Vibrio_virus	5.3e-240	100.0
WP_000979342.1\|1483046_1483340_-	accessory cholera enterotoxin	A0A0F6YNQ7	Vibrio_phage	3.7e-46	100.0
WP_080112449.1\|1483336_1484620_-	hypothetical protein	A0A142I701	Vibrio_phage	1.2e-218	98.6
WP_000493022.1\|1484630_1484879_-	colonization factor	A0A0N7F140	Vibrio_phage	8.8e-33	100.0
WP_001888513.1\|1485014_1485395_-	hypothetical protein	A0A0N9HJ67	Vibrio_phage	4.0e-69	100.0
WP_001888498.1\|1485372_1486452_-	hypothetical protein	A0A023W5Z8	Vibrio_virus	8.5e-213	99.7
WP_000492997.1\|1486583_1486919_+	helix-turn-helix transcriptional regulator	A0A0N9HJE7	Vibrio_phage	4.7e-53	100.0
WP_000593519.1\|1487526_1487901_-	cholera enterotoxin binding subunit CtxB	A0A142I6Y1	Vibrio_phage	5.9e-65	100.0
WP_001888508.1\|1487897_1488674_-	cholera enterotoxin catalytic subunit CtxA	A0A023W6A1	Vibrio_virus	7.8e-152	100.0
WP_050926705.1\|1488773_1489973_-	zonula occludens toxin ZOT	A0A023W604	Vibrio_virus	5.3e-240	100.0
WP_000979342.1\|1489969_1490263_-	accessory cholera enterotoxin	A0A0F6YNQ7	Vibrio_phage	3.7e-46	100.0
WP_080112449.1\|1490259_1491543_-	hypothetical protein	A0A142I701	Vibrio_phage	1.2e-218	98.6
WP_000493022.1\|1491553_1491802_-	colonization factor	A0A0N7F140	Vibrio_phage	8.8e-33	100.0
WP_001888513.1\|1491937_1492318_-	hypothetical protein	A0A0N9HJ67	Vibrio_phage	4.0e-69	100.0
WP_001888498.1\|1492295_1493375_-	hypothetical protein	A0A023W5Z8	Vibrio_virus	8.5e-213	99.7
WP_000492997.1\|1493506_1493842_+	helix-turn-helix transcriptional regulator	A0A0N9HJE7	Vibrio_phage	4.7e-53	100.0
WP_000948761.1\|1494373_1494685_-	hypothetical protein	E3U9J1	Vibrio_phage	6.6e-09	100.0

DBSCAN-SWA_3

2345470 : 2352663

Anguillid_herpesvirus(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001162850.1\|2345470_2345899_-	nucleoside-diphosphate kinase	D2E8E1	Anguillid_herpesvirus	1.0e-20	38.4
WP_001959105.1\|2346102_2347392_-	aminopeptidase PepB	Q6GYZ8	Mycoplasma_phage	6.5e-34	34.0
WP_000872174.1\|2347611_2347806_-	Fe-S cluster assembly protein IscX	NA	NA	NA	NA
WP_001124187.1\|2347854_2348193_-	ISC system 2Fe-2S type ferredoxin	NA	NA	NA	NA
WP_019830072.1\|2348206_2350057_-	Fe-S protein assembly chaperone HscA	A0A0N9QXN8	Chrysochromulina_ericina_virus	1.5e-105	41.1
WP_001886932.1\|2350080_2350596_-	co-chaperone HscB	NA	NA	NA	NA
WP_000301571.1\|2350644_2350968_-	iron-sulfur cluster assembly protein IscA	A0A2H4N7N5	Lake_Baikal_phage	3.0e-25	50.5
WP_000331703.1\|2351028_2351412_-	Fe-S cluster assembly scaffold IscU	A0A218MKD1	uncultured_virus	5.4e-53	78.2
WP_001886931.1\|2351448_2352663_-	IscS subfamily cysteine desulfurase	A0A1X7C038	Faustovirus	5.0e-28	41.8

DBSCAN-SWA_4

2449748 : 2505081

Bacillus_phage(20.0%)

transposase,integrase,protease,tRNA

attL 2449483:2449499|attR 2513683:2513699

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
2449483:2449499	attL	NA	NA	NA	NA
WP_158106858.1\|2449748_2451098_-\|integrase	tyrosine-type recombinase/integrase	NA	NA	NA	NA
WP_158106859.1\|2451106_2451682_-	hypothetical protein	NA	NA	NA	NA
WP_158106860.1\|2451674_2453801_-\|integrase	site-specific integrase	NA	NA	NA	NA
WP_158106869.1\|2453797_2456035_-	hypothetical protein	NA	NA	NA	NA
WP_001888371.1\|2456108_2456924_-	prolipoprotein diacylglyceryl transferase	NA	NA	NA	NA
WP_001019422.1\|2456952_2457747_-	sulfite exporter TauE/SafE family protein	NA	NA	NA	NA
WP_000952227.1\|2457756_2460003_-	phosphoenolpyruvate--protein phosphotransferase	A0A1V0SGR7	Hokovirus	9.3e-12	26.1
WP_001883821.1\|2460005_2460587_-	RNA pyrophosphohydrolase	NA	NA	NA	NA
WP_000801222.1\|2461154_2461820_+	DNA mismatch repair endonuclease MutH	NA	NA	NA	NA
WP_001892300.1\|2462012_2463071_+	NADP(H)-dependent aldo-keto reductase	NA	NA	NA	NA
WP_001249919.1\|2463108_2463360_-	hypothetical protein	NA	NA	NA	NA
WP_000107102.1\|2463937_2465272_-	sigma-54-dependent Fis family transcriptional regulator	NA	NA	NA	NA
WP_158106861.1\|2465534_2466857_-\|transposase	IS4 family transposase	NA	NA	NA	NA
WP_000128764.1\|2466983_2468516_-\|tRNA	lysine--tRNA ligase	A0A1V0SAC0	Catovirus	6.0e-87	37.0
WP_010895430.1\|2468546_2469645_-	peptide chain release factor 2	A0A0S4KWG0	Pseudomonas_phage	5.4e-05	39.7
WP_001888378.1\|2469814_2471128_-	branched-chain amino acid transport system II carrier protein	NA	NA	NA	NA
WP_001888379.1\|2471436_2472159_+\|tRNA	tRNA1(Val) (adenine(37)-N6)-methyltransferase	NA	NA	NA	NA
WP_000597952.1\|2472246_2473518_+	ATP-dependent RNA helicase SrmB	A0A1V0SIR5	Klosneuvirus	1.6e-53	34.5
WP_000108381.1\|2473622_2475212_-	peptide chain release factor 3	D0R0F5	Streptococcus_phage	4.4e-32	26.4
WP_001888382.1\|2475420_2477478_+	EAL domain-containing protein	A0A127AWB9	Bacillus_phage	5.3e-14	34.3
WP_001888383.1\|2477466_2477952_-	ribosomal protein S18-alanine N-acetyltransferase	NA	NA	NA	NA
WP_001888385.1\|2477912_2478320_-	DNA polymerase III subunit psi	NA	NA	NA	NA
WP_001883466.1\|2478430_2478982_-	N-acetyltransferase	A0A1P8CWJ6	Bacillus_phage	1.5e-19	32.2
WP_000932672.1\|2478917_2479445_-	SCP2 domain-containing protein	NA	NA	NA	NA
WP_001111411.1\|2479677_2481732_+	bifunctional diguanylate cyclase/phosphodiesterase	NA	NA	NA	NA
WP_000421321.1\|2481839_2482853_+	U32 family peptidase	NA	NA	NA	NA
WP_032473140.1\|2482864_2483743_+	U32 family peptidase	NA	NA	NA	NA
WP_043881311.1\|2483872_2485261_+\|transposase	IS4 family transposase	Q9JMP3	Wolbachia_phage	7.7e-49	27.8
WP_001888387.1\|2485308_2486646_-	sodium-coupled multidrug efflux MATE transporter VcrM	NA	NA	NA	NA
WP_000950589.1\|2486688_2487108_-	MarR family transcriptional regulator	NA	NA	NA	NA
WP_001883460.1\|2487194_2488106_-	lipoprotein NlpI	NA	NA	NA	NA
WP_000462067.1\|2488221_2490348_-	polyribonucleotide nucleotidyltransferase	NA	NA	NA	NA
WP_000055654.1\|2490710_2490980_-	30S ribosomal protein S15	NA	NA	NA	NA
WP_000124046.1\|2491121_2492060_-\|tRNA	tRNA pseudouridine(55) synthase TruB	NA	NA	NA	NA
WP_001123656.1\|2492059_2492458_-	30S ribosome-binding factor RbfA	NA	NA	NA	NA
WP_000192209.1\|2492559_2495256_-	translation initiation factor IF-2	NA	NA	NA	NA
WP_000031601.1\|2495280_2496768_-	transcription termination/antitermination protein NusA	NA	NA	NA	NA
WP_000147148.1\|2496786_2497242_-	ribosome maturation factor RimP	NA	NA	NA	NA
WP_019829496.1\|2497672_2498008_-	preprotein translocase subunit SecG	NA	NA	NA	NA
WP_001281053.1\|2498264_2499605_-	phosphoglucosamine mutase	NA	NA	NA	NA
WP_032473172.1\|2499630_2500467_-	dihydropteroate synthase	A0A0B5J4J5	Pandoravirus	2.2e-19	33.0
WP_001892412.1\|2500533_2502489_-\|protease	ATP-dependent zinc metalloprotease FtsH	A0A0P0BXI2	Ostreococcus_lucimarinus_virus	2.4e-120	44.4
WP_000043220.1\|2502589_2503219_-	23S rRNA (uridine(2552)-2'-O)-methyltransferase RlmE	NA	NA	NA	NA
WP_001054291.1\|2503338_2503635_+	ribosome assembly RNA-binding protein YhbY	NA	NA	NA	NA
WP_001886535.1\|2503758_2505081_+\|transposase	IS4 family transposase	NA	NA	NA	NA
2513683:2513699	attR	NA	NA	NA	NA

DBSCAN-SWA_5

2612302 : 2619566

uncultured_Mediterranean_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001888660.1\|2612302_2613190_+	cysteine synthase CysM	A0A1X9I5K7	Streptococcus_phage	3.2e-56	41.1
WP_001888658.1\|2613457_2616046_+	DNA mismatch repair protein MutS	A0A1V0SC35	Catovirus	2.9e-33	23.0
WP_000116735.1\|2616139_2617147_-	RNA polymerase sigma factor RpoS	F4YCU2	Synechococcus_phage	6.0e-35	34.2
WP_000177561.1\|2617220_2618156_-	murein hydrolase activator NlpD	D7RWE0	Brochothrix_phage	7.8e-05	34.7
WP_000002982.1\|2618155_2618782_-	protein-L-isoaspartate(D-aspartate) O-methyltransferase	A0A1B1IU40	uncultured_Mediterranean_phage	2.0e-36	52.1
WP_001888657.1\|2618774_2619566_-	5'/3'-nucleotidase SurE	A0A1B1ITZ2	uncultured_Mediterranean_phage	5.0e-69	52.0

DBSCAN-SWA_6

2913428 : 2921624

Micromonas_sp._RCC1109_virus(16.67%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_001887557.1\|2913428_2915048_-	aldolase	E5EQ69	Micromonas_sp._RCC1109_virus	1.1e-11	27.5
WP_001887558.1\|2915040_2916861_-	ABC transporter ATP-binding protein	W8CYL7	Bacillus_phage	3.1e-26	24.5
WP_001887559.1\|2916869_2918012_-	DegT/DnrJ/EryC1/StrS family aminotransferase	E5ES42	Bathycoccus_sp._RCC1105_virus	8.5e-38	29.2
WP_050501597.1\|2918008_2919196_-	formyl transferase	A0A220T679	Eptesipox_virus	2.0e-05	41.9
WP_032472847.1\|2919167_2919590_-	WxcM-like domain-containing protein	NA	NA	NA	NA
WP_019827646.1\|2919586_2920468_-	glucose-1-phosphate thymidylyltransferase RfbA	I7I009	Enterobacteria_phage	4.0e-112	68.1
WP_000699461.1\|2920550_2921624_-	dTDP-glucose 4,6-dehydratase	A0A1D7XFE8	Escherichia_phage	7.6e-97	51.2

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NZ_CP046739

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

2. NZ_CP046740

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection