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
NC_022359	Vibrio alginolyticus NBRC 15630 = ATCC 17749 chromosome 2, complete sequence	0 crisprs	cas3,WYL,DEDDh,csa3	0	0	1	0
NC_022349	Vibrio alginolyticus NBRC 15630 = ATCC 17749 chromosome 1, complete sequence	1 crisprs	cas3,DinG,DEDDh,WYL,csa3	2	1	4	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

1326209 : 1334787

Vibrio_phage(100.0%)

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

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_017821895.1\|1326209_1326578_-	hypothetical protein	Q9MCC3	Vibrio_phage	4.5e-57	90.9
WP_021035985.1\|1326777_1327401_+	3'-5' exonuclease	W6ASW5	Vibrio_phage	3.6e-38	48.7
WP_005488200.1\|1327404_1327620_+	hypothetical protein	A0A1W6UGD1	Vibrio_phage	1.8e-34	98.6
WP_080666441.1\|1327543_1328752_+	replication initiation factor domain-containing protein	Q7DKP2	Vibrio_phage	3.0e-243	98.8
WP_017822035.1\|1328755_1329109_+	DUF1293 family protein	A0A1W6UG87	Vibrio_phage	2.2e-61	100.0
WP_017822034.1\|1329120_1329366_+	hypothetical protein	A0A1W6UH23	Vibrio_phage	2.6e-37	98.8
WP_017447548.1\|1329376_1329610_+	membrane protein	A0A1W6UG80	Vibrio_phage	1.7e-30	98.7
WP_017822025.1\|1329743_1331219_+	methyl-accepting chemotaxis protein	A0A1W6UG63	Vibrio_phage	1.0e-208	95.5
WP_017822026.1\|1331220_1331535_+	DUF2523 domain-containing protein	A0A1W6UG81	Vibrio_phage	6.1e-47	100.0
WP_021035986.1\|1331531_1332674_+	hypothetical protein	A0A1W6UG53	Vibrio_phage	6.0e-209	99.7
WP_021035987.1\|1333041_1334382_+	hypothetical protein	R9TRQ8	Vibrio_phage	1.2e-27	30.7
WP_017820153.1\|1334418_1334787_-	phage protein	Q9MCC4	Vibrio_phage	1.9e-60	93.4

Anti-CRISPR protein detection

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

2. NC_022349

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CRISPR-Cas detection and classification

Crispr_ID: NC_022349_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_022349_1

1841129-1841375

Orphan

Consensus_repeat	Method
TAATGCCTCCTTAGCTCAGTAGGTAGAGCAACGGACTGATAATCCG	PILER-CR

2 spacers

The CRISPR arrays of NC_022349_1

>merge|NC_022349|1|1841129-1841375|PILER-CR
TGCCGACTTAGCTCAGTAGGTAGAGCAACTGACTTGTAATCAGTAGGTCACCAGTTCGATTCCGGTAGTCGGCACCATTCTTTTGCCTCGATAGCTCAGTCGGTAGAGCAGAGGATTGAAAATCCTCGTGTCGGTGGTTCGATTCCGCCTCGAGGCACCATATTTGGTGCGTTTGCTTCATAAGCAAGACACAAAAAAGAATAATTCCTCCTTAGCTCAGTTGGTAGAGCGACGGACTGTTAATCCG

>NC_022349|1|1|1841129-1841375|PILER-CR
TGCCGACTTAGCTCAGTAGGTAGAGCAACTGACTTGTAATCAGTAG	GTCACCAGTTCGATTCCGGTAGTCGGCACCATTCTTT
TGCCTCGATAGCTCAGTCGGTAGAGCAGAGGATTGAAAATCCTCGT	GTCGGTGGTTCGATTCCGCCTCGAGGCACCATATTTGGTGCGTTTGCTTCATAAGCAAGACACAAAAAAGAATAA
TTCCTCCTTAGCTCAGTTGGTAGAGCGACGGACTGTTAATCCG

Protein	Signature genes	Signature genes Name	Protein_function
NC_022349.1\|WP_017821979.1\|1844298_1845735_-\|NAD-dependent-succinate-semialdehyde-dehydrogenase	unknown	unknown	gnl\|CDD\|143421
NC_022349.1\|WP_017821842.1\|1859396_1860680_+\|polysaccharide-deacetylase-family-protein	unknown	unknown	gnl\|CDD\|200570
NC_022349.1\|WP_017821839.1\|1855724_1857047_-\|6-phospho-beta-glucosidase	unknown	unknown	gnl\|CDD\|133432
NC_022349.1\|WP_017821980.1\|1841684_1843310_+\|methyl-accepting-chemotaxis-protein	unknown	unknown	gnl\|CDD\|223910
NC_022349.1\|WP_031777269.1\|1857059_1857371_-\|PTS-lactose/cellobiose-transporter-subunit-IIA	unknown	unknown	gnl\|CDD\|224364
NC_022349.1\|WP_005381029.1\|1852463_1853717_-\|HD-GYP-domain-containing-protein	unknown	unknown	gnl\|CDD\|225116
NC_022349.1\|WP_005384506.1\|1837027_1837747_-\|tRNA-(guanosine(46)-N7)-methyltransferase-TrmB	unknown	unknown	gnl\|CDD\|234649
NC_022349.1\|WP_020480920.1\|1858844_1859150_-\|PTS-sugar-transporter-subunit-IIB	unknown	unknown	gnl\|CDD\|99906
NC_022349.1\|WP_017821894.1\|1839396_1840536_+\|membrane-bound-lytic-murein-transglycosylase-MltC	unknown	unknown	gnl\|CDD\|183271
NC_022349.1\|WP_005381009.1\|1833073_1833676_+\|XTP/dITP-diphosphatase	unknown	unknown	gnl\|CDD\|234648
NC_022349.1\|WP_005381010.1\|1832523_1832955_+\|DUF4426-domain-containing-protein	unknown	unknown	gnl\|CDD\|379616
NC_022349.1\|WP_005393980.1\|1832103_1832394_+\|YggU-family-protein	unknown	unknown	gnl\|CDD\|179931
NC_022349.1\|WP_017821893.1\|1837950_1839027_+\|A/G-specific-adenine-glycosylase	unknown	unknown	gnl\|CDD\|182805
NC_022349.1\|WP_017821838.1\|1854950_1855706_-\|chitin-disaccharide-deacetylase	unknown	unknown	gnl\|CDD\|235007
NC_022349.1\|WP_005381007.1\|1834962_1835883_-\|glutaminase-B	unknown	unknown	gnl\|CDD\|234880
NC_022349.1\|WP_005381002.1\|1839046_1839319_+\|oxidative-damage-protection-protein	unknown	unknown	gnl\|CDD\|180059
NC_022349.1\|WP_017821891.1\|1833694_1834873_+\|radical-SAM-family-heme-chaperone-HemW	unknown	unknown	gnl\|CDD\|235550
NC_022349.1\|WP_017821840.1\|1857422_1858757_-\|PTS-sugar-transporter-subunit-IIC	unknown	unknown	gnl\|CDD\|224372
NC_022349.1\|WP_005381031.1\|1853847_1854846_-\|LacI-family-DNA-binding-transcriptional-regulator	unknown	unknown	gnl\|CDD\|380494
NC_022349.1\|WP_017821892.1\|1835981_1837010_-\|DNA-methylase	unknown	unknown	gnl\|CDD\|223971

Protein	Function_ID	Function_description	E-value
NC_022349.1\|WP_017821979.1\|1844298_1845735_-\|NAD-dependent-succinate-semialdehyde-dehydrogenase	gnl\|CDD\|143421	cd07103, ALDH_F5_SSADH_GabD, Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like. Succinate-semialdehyde dehydrogenase, mitochondrial (SSADH, GabD, EC=1.2.1.24) catalyzes the NAD+-dependent oxidation of succinate semialdehyde (SSA) to succinate. This group includes the human aldehyde dehydrogenase family 5 member A1 (ALDH5A1) which is a mitochondrial homotetramer that converts SSA to succinate in the last step of 4-aminobutyric acid (GABA) catabolism. This CD also includes the Arabidopsis SSADH gene product ALDH5F1. Mutations in this gene result in the accumulation of H2O2, suggesting a role in plant defense against the environmental stress of elevated reactive oxygen species.	0
NC_022349.1\|WP_017821842.1\|1859396_1860680_+\|polysaccharide-deacetylase-family-protein	gnl\|CDD\|200570	cd10946, CE4_Mll8295_like, Putative catalytic NodB homology domain of uncharacterized Mll8295 protein encoded from Rhizobium loti and its bacterial homologs. This family is represented by a putative polysaccharide deacetylase Mll8295 encoded from Rhizobium loti. Although its biological function still remains unknown, Mll8295 shows high sequence homology to the catalytic domain of Streptococcus pneumoniae polysaccharide deacetylase PgdA (SpPgdA), which is an extracellular metal-dependent polysaccharide deacetylase with de-N-acetylase activity toward a hexamer of chitooligosaccharide N-acetylglucosamine, but not shorter chitooligosaccharides or a synthetic peptidoglycan tetrasaccharide. Both Mll8295 and SpPgdA belong to the carbohydrate esterase 4 (CE4) superfamily. This family also includes many uncharacterized bacterial polysaccharide deacetylases.	3.64002e-70
NC_022349.1\|WP_017821839.1\|1855724_1857047_-\|6-phospho-beta-glucosidase	gnl\|CDD\|133432	cd05296, GH4_P_beta_glucosidase, Glycoside Hydrolases Family 4; Phospho-beta-glucosidase. Some bacteria simultaneously translocate and phosphorylate disaccharides via the phosphoenolpyruvate-dependent phosphotransferase system (PEP-PTS). After translocation, these phospho-disaccharides may be hydrolyzed by the GH4 glycoside hydrolases such as the phospho-beta-glucosidases. Other organisms (such as archaea and Thermotoga maritima ) lack the PEP-PTS system, but have several enzymes normally associated with the PEP-PTS operon. The 6-phospho-beta-glucosidase from Thermotoga maritima hydrolylzes cellobiose 6-phosphate (6P) into glucose-6P and glucose, in an NAD+ and Mn2+ dependent fashion. The Escherichia coli 6-phospho-beta-glucosidase (also called celF) hydrolyzes a variety of phospho-beta-glucosides including cellobiose-6P, salicin-6P, arbutin-6P, and gentobiose-6P. Phospho-beta-glucosidases are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.	0
NC_022349.1\|WP_017821980.1\|1841684_1843310_+\|methyl-accepting-chemotaxis-protein	gnl\|CDD\|223910	COG0840, Tar, Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms].	1.28709e-61
NC_022349.1\|WP_031777269.1\|1857059_1857371_-\|PTS-lactose/cellobiose-transporter-subunit-IIA	gnl\|CDD\|224364	COG1447, CelC, Phosphotransferase system cellobiose-specific component IIA [Carbohydrate transport and metabolism].	6.82212e-37
NC_022349.1\|WP_005381029.1\|1852463_1853717_-\|HD-GYP-domain-containing-protein	gnl\|CDD\|225116	COG2206, COG2206, c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms].	2.25733e-72
NC_022349.1\|WP_005384506.1\|1837027_1837747_-\|tRNA-(guanosine(46)-N7)-methyltransferase-TrmB	gnl\|CDD\|234649	PRK00121, trmB, tRNA (guanine-N(7)-)-methyltransferase; Reviewed.	1.04237e-109
NC_022349.1\|WP_020480920.1\|1858844_1859150_-\|PTS-sugar-transporter-subunit-IIB	gnl\|CDD\|99906	cd05564, PTS_IIB_chitobiose_lichenan, PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. 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 chitobiose/lichenan, ascorbate, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.	8.28164e-46
NC_022349.1\|WP_017821894.1\|1839396_1840536_+\|membrane-bound-lytic-murein-transglycosylase-MltC	gnl\|CDD\|183271	PRK11671, mltC, membrane-bound lytic murein transglycosylase MltC.	4.07059e-147
NC_022349.1\|WP_005381009.1\|1833073_1833676_+\|XTP/dITP-diphosphatase	gnl\|CDD\|234648	PRK00120, PRK00120, dITP/XTP pyrophosphatase; Reviewed.	3.88474e-123
NC_022349.1\|WP_005381010.1\|1832523_1832955_+\|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.	4.01664e-66
NC_022349.1\|WP_005393980.1\|1832103_1832394_+\|YggU-family-protein	gnl\|CDD\|179931	PRK05090, PRK05090, hypothetical protein; Validated.	3.96324e-59
NC_022349.1\|WP_017821893.1\|1837950_1839027_+\|A/G-specific-adenine-glycosylase	gnl\|CDD\|182805	PRK10880, PRK10880, adenine DNA glycosylase.	0
NC_022349.1\|WP_017821838.1\|1854950_1855706_-\|chitin-disaccharide-deacetylase	gnl\|CDD\|235007	PRK02134, PRK02134, chitin disaccharide deacetylase.	1.54272e-124
NC_022349.1\|WP_005381007.1\|1834962_1835883_-\|glutaminase-B	gnl\|CDD\|234880	PRK00971, PRK00971, glutaminase; Provisional.	0
NC_022349.1\|WP_005381002.1\|1839046_1839319_+\|oxidative-damage-protection-protein	gnl\|CDD\|180059	PRK05408, PRK05408, oxidative damage protection protein; Provisional.	2.80095e-59
NC_022349.1\|WP_017821891.1\|1833694_1834873_+\|radical-SAM-family-heme-chaperone-HemW	gnl\|CDD\|235550	PRK05660, PRK05660, radical SAM family heme chaperone HemW.	0
NC_022349.1\|WP_017821840.1\|1857422_1858757_-\|PTS-sugar-transporter-subunit-IIC	gnl\|CDD\|224372	COG1455, CelB, Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism].	2.29591e-152
NC_022349.1\|WP_005381031.1\|1853847_1854846_-\|LacI-family-DNA-binding-transcriptional-regulator	gnl\|CDD\|380494	cd06270, PBP1_GalS-like, ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type 1 periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar binding of ABC-type transport systems.	2.30744e-113
NC_022349.1\|WP_017821892.1\|1835981_1837010_-\|DNA-methylase	gnl\|CDD\|223971	COG1041, COG1041, Predicted DNA modification methylase [DNA replication, recombination, and repair].	2.02779e-08

>NC_022349.1|WP_017821894.1|1839396_1840536_+|membrane-bound-lytic-murein-transglycosylase-MltC
MKKIVFIAAALLMAGCSREFVEKIYDVNYEPTNRFANNLAELPGQFEKDTAALDALINSFSGNIQKRWGKKEIKYAGKSNYVKYIDNYLSRAEVDFRKGMITIETVSPTEPQKHLKDAIVTTLLTPDDPAHVDLFSSKGITLEGQPFLYKQVVDQDNKPIQWSWRANRFAEYLIANKIKTKNVDFKKAYYVEIPMVEDHFSTRSYQYADIVRRASKKYDIPEDLIYAIIKTESSFNPYAVSWANAYGLMQVVPKTAGRDVFKLVKKRSGQPSPKYLFNPENNIDTGTAYFYILKNRYLREVRHPTSLEYSMISAYNGGTGGVLNTFHRSDRKRAMQDLNSLQPNQVYWALTKKHPNAEARRYLEKVTNFKKEFNSKQTL
>NC_022349.1|WP_005381002.1|1839046_1839319_+|oxidative-damage-protection-protein
MSRTVFCARLKKEGEGLDFQLYPGELGKRIFDNISKEAWAQWQHKQTMLINEKKLNMMDPEHRKLIETEMVNFLFEGKDVHIEGYTPPSE
>NC_022349.1|WP_017821893.1|1837950_1839027_+|A/G-specific-adenine-glycosylase
MTPFASAILEWYDAYGRKDLPWQQNKTAYSVWLSEIMLQQTQVTTVIPYYQRFLERFPTVIDLANAEQDEVLHLWTGLGYYARARNLHKAAQEVASTYNGEFPLDIEKMNALPGIGRSTAAAILSSVYKQPHAILDGNVKRTLSRCFAVEGWPGQKKVENRLWEIAETHTPQTDVDKYNQAMMDMGAMVCTRSKPKCSLCPVADLCVAKQQGNVLDYPGKKPKKDKPIKQTRFVMLHHNTENGHEVWLEQRPQTGIWGGLFCFPQTEHVDAESDIELLLDQRGIQASNIKQKQTLITFRHTFSHYHLDITPILIDLSKQPDVIMEGNKGLWYNLSKPEEVGLAAPVKLLLETLPHELR
>NC_022349.1|WP_005384506.1|1837027_1837747_-|tRNA-(guanosine(46)-N7)-methyltransferase-TrmB
MSEVTTNEYNEDGKLIRKIRSFVRREGRLTKGQESAMNECWPTMGIDFKAELLDWKEVFGNDNPVVLEIGFGMGASLVEMAKNAPEKNFIGIEVHSPGVGACLADAREAGITNLRVMCHDAVEVFEHMIPNGSLSTLQLFFPDPWHKKRHHKRRIVQLGFAEMVREKLIPNEGIFHMATDWENYAEHMIEVMNQAPGFENIAKDGDFVPRPDDRPLTKFEARGHRLGHGVWDIKYKRIA
>NC_022349.1|WP_017821892.1|1835981_1837010_-|DNA-methylase
MYHYAILANPGHNRIYFDSAMTIACSELKAILASQGVDVTEIGSKDVGLPAALVFSCQEALTDEQARRIAASSIYYALFEVREDGLLRPVQAPVFNTFPESMSQILRYTGKTNEQFTRLMVNIGISASNTGSEQLTLMDPMCGKGTTLFEGLIHGLNVVGVEINAKWVQEIQTFIVKFMKNGRFKHKVSKEKRTAGGKKVADGFVVEAAVNKEDYNQGNLQFMKLYSADTRIADQVVKKNSVDVMVSDLPYGVQHGSKNAKDSKLNRSPLELLNEALPAWKVVLKKQGSVVLSFNEFTLKWKDVAALFEEQGWKVLSEEPYIGYLHRVDQSINRNIIVAVKP
>NC_022349.1|WP_005381007.1|1834962_1835883_-|glutaminase-B
MKPTVEILTDILAEVRPLIGQGKVADYIPALAKVPSNKLGIAVYTNEGEVIKAGDADEPFSIQSISKALSLTLAMCLYKQEEIWSRVGKEPSGQAFNSLIQLEMEQGIPRNPFINAGAIVVADLLQTRLSAPRQRLLEFVRQLSGDTHIVYDKVVAASEMMHGDRNAAIAYLMRSFGNFENEVIPVLQNYFHACALKMSCVDLAKTFSYLANKGTSVQTGKPVVSPVQTKQLNALLATCGLYDGAGEFAYRVGMPGKSGVGGGIIAVVPGEMTISVWSPELDPSGNSLAGTKALELLSERIGRSIF
>NC_022349.1|WP_017821891.1|1833694_1834873_+|radical-SAM-family-heme-chaperone-HemW
MLTPPALSLYVHIPWCVQKCPYCDFNSHALKTEIPEEEYISALLEDLDTDIEKYRLNEAPRPLHSIFIGGGTPSLISAEGIERLLKGIEARIPFKPEIEITMEANPGTIETERFVGYRKAGVTRISIGVQSFEQQKLERLGRIHGQDEAVNAAKLAHQIGLNSFNLDLMHGLPDQSIEQALADLDKAIELAPPHLSWYQLTIEPNTMFYYKPPTLPDDDDLWDIFELGHQKLAAAGYVQYEISGYSKPGYQCQHNLNYWRFGDYLGIGCGSHGKLSFTDGRIIRTTKVKHPRGYLAAYQNMVKPYLHTEHVVADEDRPFEFFMNRFRLIEACPKQDYVDTTSLPLSTIQETIDWAIEMGYLNETPTHWQITEKGKLFLNDLLEAFMAEESED
>NC_022349.1|WP_005381009.1|1833073_1833676_+|XTP/dITP-diphosphatase
MKKIVLATGNQGKVREMADLLSDFGFEVLAQSEFNVSEVAETGTTFIENAIIKARHAAQETGLPAIADDSGLEVDFLKGAPGIYSARYAGESASDQENLEKLLAAMEGVPEAERTARFHCVLVLMRHENDPTPIVCHGKWEGRILTEAHGENGFGYDPIFFVPEDNCASAELEPARKKQLSHRGKALKSLFAQLSEQVSQ
>NC_022349.1|WP_005381010.1|1832523_1832955_+|DUF4426-domain-containing-protein
MSKWITALLISLLSLPSFADQFKNMKDIEVHYVAFNSTFLTPKVARSYDIKRNGYLAVVNISVLDRASLGKPALEAKIAGRAKNLIGQTQTLTFREVKEGNAIYYLAELPITHEETFTFDIDVKAGNKGSGKLKFTQKFYVEE
>NC_022349.1|WP_005393980.1|1832103_1832394_+|YggU-family-protein
MSAAVWQDGEDIILKLYIQPKASRDKIVGLHGEELKIAITAPPVDGKANAHLTKFLAKQFKIAKGLVHIEKGELGRHKQIRIESPTQIPTEIKAIL
>NC_022349.1|WP_017821980.1|1841684_1843310_+|methyl-accepting-chemotaxis-protein
MKLKTQAYLLSAIILLALLALTATGLWTLRVASNLDNKARVTELFKSAYSILTEVEKMAIEGKMPEDEAKALATRLLRNNIYKDNEYVYVADENMMFIAAPLDPQLHGTSFHDFRDGSGNSVGQLILDVLGHKTGQIVEYTWSQKQADGSIEEKHSIAEKTPHWGWVVGTGIGFNEVNARFWSTAQWQLVLCLIIAGSILSGLIISIRKMLNLLGGEPNDVRKAVQAVAQGDIQTSFDTVAPRGSIYRAVQDMSQSLATMVTNLEKSMHALRAELFAVEARSNTIADLTVSQQQSTAMIATAMTEMASSANHVANSASDTANNTDEADKQSQHTQKLIHNTVENIQGLASQLNTASKAVADLDQDVNNIVKVLDVIGDIAEQTNLLALNAAIEAARAGEQGRGFAVVADEVRNLAGRTQDSTKEIQYMISNLQEGSRNAIHTMEICAETSESTVTESKNASEALQQIVTALESITTMSQQIATAAAEQTQVSDDIALRINLIEESGGQLNSVVTESQSSTQSLASLANELEGWVNKFSVKH
>NC_022349.1|WP_017821979.1|1844298_1845735_-|NAD-dependent-succinate-semialdehyde-dehydrogenase
MMQQIKNETLKSVFKQWSSEEGIVVINPATEQELIRLKPSTLDELDDLIGQCKTEQVRWAKLSAKERSRRLMGWYQLLLDNAEDIATIITLEQGKPLAESKGEVMYGASFVEWFSEEAKRAYGEVIPAPTTDRRLSAIRQPVGVCAAITPWNFPIAMITRKVAPALAAGCGMLIKPSELTPLTAIAVVELAYQAGIPKELLSVVVSEQAAEFGQVLSTDPRIQKISFTGSTRVGKILMKQASDSVKAVSMELGGNAPFIVFEDADLDAAAEGLVASKFRNAGQTCVCTNRLYVHKNVKQAFVDKVLSKLSKLKLGNGLEKGVTLGPVITMASKHRLEAVIDQAVQEGASIANSPQRRPGRFMEPVLLDSVTQNMSIVQQELFGPVLPIVTFENDDQVLEMTNDTEYGLACYFYTNSLKRIVTFSEGLEYGMVGVNEGIISTEVAPFGGVKESGVGREGAKQGLDEYLETKYICLGGLS
>NC_022349.1|WP_005381029.1|1852463_1853717_-|HD-GYP-domain-containing-protein
MAAIKLTVDRIQPGLHIRLPLKWNDHPFLLNSFKIKDQEQVEMIRHLGVKFVYFNPEQSDAVPLPVDQRQADRVTNEASLDHETQKMWQEKQNRIEKLSAYRRRVIQCEKEFERSLARMRSVMTKIRNRPTAAVDEAKLLIEDIVEKLMCDDNVTLHLMNGKNEFEDIYFHSLNVAVISMMIGRAKGYSAAQLKELSFSALFHDIGKIKIPTAILRKQLPLTEPETNYLKLHTKYGVDLASQIEAFPEVARIVIAQHHELRDGSGYPKGLKGDEINEFAQIIAVANAFDNLCHTPIVSDQKIPYTALSHLYKNCKHLYKEENLNILIKFMGVFPPGTVVQLSNNMVGLVISVNASHLLFPNVLVYDPSVPRTQAPIIDLASKDIKIVNAIHPSKLPDKVKEYLNPRSRISYFFDSDE
>NC_022349.1|WP_005381031.1|1853847_1854846_-|LacI-family-DNA-binding-transcriptional-regulator
MARIKDVAELAGVNRSTVSRIINGEGKFREETRKKVEQAMAQLNYRPSAIARSLATSSSNMVGLLVTYYTGGFFGEMMEQVQTELDIHKKFLITAQGHHSAQGEKEAIQRFNDLRCDGYVLHSRYLSDDDLRELAKQPTPFVLLDRYVEGIEERCVTFNHHHASRIAVEHLLAGGHRKIACIAGPSQRHNSVLRKLGYIDAMKDAGIDIDESWCEEGNYGRQSGYDAMAAILQRHPDVTAVFSCSEEMTVGAMQYLHEHSISVPEQISLTSFDSVDLCESLYPTVSAVHFPISDMARVAVQTLMGLVKDQEVIDKPVFEAKLKIRKADRSLK
>NC_022349.1|WP_017821838.1|1854950_1855706_-|chitin-disaccharide-deacetylase
MKVIFNADDFGLTRGVNNGIVKAHQQGVVHSTTMMVGMDAEQHALELARHNPGLKVGVHLRFTAGVPITKHPNLTNGRAHFINYDELWSKQDFETQVVYDEAKAQVEHFLSLGLELSHLDSHHHAHTHPQILPVIKEVANEYRVPLRGTGLCQESMTIRYIFTDEFYDQKVSLDGLMTHLLSLKADYDLVEVMCHPAEADQALILKSGYALQRELELQVLTSPILKEQLAHHGITVTDYSELVSTNQMVGV
>NC_022349.1|WP_017821839.1|1855724_1857047_-|6-phospho-beta-glucosidase
MSREAIKLAIIGGGSSYTPELVEGVIKRLEYLPVKKIHFVDIESGAEKLEIIKGLAQRMVDKAGAKIEIKAGFDRRAAIKDADFVMTQFRVGGLAARANDERIPIKYNVIGQETTGPGGFAKALRTIPVILDICKDIEELAPNAWMLNFTNPAGLVSEAVSKYTKVKSIGLCNVPVSMEMMIAEMMECEPKELQLEFAGLNHLVWVHKAWLNGEDITQTVLEKVGDGANFSMKNIWEEPWDPAFLKALGAIPCPYHRYFYQTDAMLAEEKQSADEKGTRAEQVMETENALFKLYQDPTLDHKPKELEERGGAYYSDASLNLVDSIYNNRNSIHVVNVLNNGAINGLPDDAVIECSAVIGSWGAKPLAVGELSNNIKGLLHQVKAYEQLTIEAAVEGNYDKALMALTNNPLVPDIGRAKSILDDILAVNAPYLPQFKLTTL
>NC_022349.1|WP_031777269.1|1857059_1857371_-|PTS-lactose/cellobiose-transporter-subunit-IIA
MEQELVVMEIICNAGEARSLSYEALRLSREQDFEAADEKLSQARECINKAHLIQTQLIEEDQGEGKVPMTLVMVHAQDHLMTTILAQEMAVEIVALNKKISNK
>NC_022349.1|WP_017821840.1|1857422_1858757_-|PTS-sugar-transporter-subunit-IIC
MKLYDAIIGAVEKHIAPIAAKVGNQPHVRAMRDGFIVAMPFIIVGSFILIFAFPPFAEDTTFTFGRIWLDFATTHFDTIMMPYNMSMGIMTIFVSLGVAYSLAKAYKMDGITSAVLSLMSFLLIAAPAKDGALSMSHMGGTGIFTAVMCAFFSVELYRFMKKHNITIRMPEQVPPAIARSFEVLLPVLAIFITLYPLSLFVQTQYDMLIPDAVMAIFKPLISASNSLPAIIGALLLCQLLWFAGIHGAAIVVGLLSPIFLTNIGANIEAFVAGEPIPNVFTQPFWDFYIFIGGSGATLALVMLMSFSRSVHLKSIGRMSSVPGFFQINEPVIFGSPVVMNPTLFIPFVFAPVINATIAYFAVHVGFVGMGVATTPWTTPALIGASWGSGWTFAPVLLVIGLLILDLIIYFPFFKMFEKQMLEQELPTTKETKGDTQPSGEGVTA
>NC_022349.1|WP_020480920.1|1858844_1859150_-|PTS-sugar-transporter-subunit-IIB
MKKILLCCSAGMSTSMLVKKMEQAAENKGIECKIDAMSVNAFEDVIKEYDVCLLGPQVRFQLEELRKTAQEHGKNIDAISPQHYGMMKGEEVLEQALELIN
>NC_022349.1|WP_017821842.1|1859396_1860680_+|polysaccharide-deacetylase-family-protein
MKFNKLAIAALVSAALSQHSFAQTDSKGTIYLTFDDGPINASIDVIQVLNQEDIKATFYFNAWHLDGIGDENEDRSLEALKLALDTGHIVANHSYDHMVHNCVDEFGPNSAAECNATGDHQLNSYQDPVYDASMFTENLSVLAKYLPNITSYPNYKATEFARLPYTNGWRVTKDFKADGLCATSDDLKPWEPGYVCDTSNPSNSVKAAIEVQNILANNGYQTHGWDVDWAPENWGIEMPANSLTEAEAFLGYVDSALNTCAPTTINPINSKAQEFPCGTPLHADKVIVLTHEFLFEDGKRGMGATQNLPKLAKFIQLAKQAGYDFDTMDNYTPNWQVGHNYDAGDYVLHLGTVYQAVTNHTAQQDWAPSPTSSLWTNADPATNWTQNVSYKQGDVVTYQGLRYLVDVPHVSQADWTPNTQNTLFTAL

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Self-targeting detection

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_ID	Protospacer_location	Mismatch	Identity
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	NC_022349.1	1840821-1840857	0	1.0
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	NC_022349.1	2175792-2175828	0	1.0
NC_022349_1	1.2\|1841258\|75\|NC_022349\|PILER-CR	1841258-1841332	75	NC_022349.1	1840904-1840978	17	0.773

1. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to position: 1840821-1840857, mismatch: 0, identity: 1.0

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgattccggtagtcggcaccattc	Protospacer
*************************************

2. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to position: 2175792-2175828, mismatch: 0, identity: 1.0

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgattccggtagtcggcaccattc	Protospacer
*************************************

3. spacer 1.2|1841258|75|NC_022349|PILER-CR matches to position: 1840904-1840978, mismatch: 17, identity: 0.773

cgtgtcggtggttcgattccgcctcgaggcaccatatttggtgcgtttgcttcataagca	CRISPR spacer
cgtgtcggtggttcgattccgcctcgaggcaccatatttggtgcacttgcttcataagca	Protospacer
********************************************..**************

MGE targeting detection<

CRISPR_ID	Spacer_Info	Spacer_region	Spacer_length	Hit_phage_ID	Hit_phage_def	Protospacer_location	Mismatch	Identity
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	NZ_CP041417	Escherichia coli strain STEC711 plasmid pSTEC711_1, complete sequence	296499-296535	2	0.946
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	NZ_LN868946	Salmonella enterica subsp. enterica serovar Senftenberg strain NCTC10384 plasmid 4, complete sequence	103821-103857	2	0.946
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	KU052038	Escherichia phage SerU-LTIIb, partial genome	1164-1200	2	0.946
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	KU052038	Escherichia phage SerU-LTIIb, partial genome	3070-3106	2	0.946
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	LN997803	Escherichia coli phage phi467	15126-15162	2	0.946
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	NZ_CP022660	Salmonella enterica subsp. enterica strain RM11060 plasmid pRM11060-2, complete sequence	52078-52114	2	0.946
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	NZ_CP045061	Salmonella enterica subsp. enterica serovar Muenchen strain LG26 plasmid pLG26p2, complete sequence	52084-52120	2	0.946
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	NZ_CP045054	Salmonella enterica subsp. enterica serovar Muenchen strain LG24 plasmid pLG24p2, complete sequence	52089-52125	2	0.946
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	NZ_CP045058	Salmonella enterica subsp. enterica serovar Muenchen strain LG25 plasmid pLG25p2, complete sequence	52088-52124	2	0.946
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	NC_021742	Serratia liquefaciens ATCC 27592 plasmid unnamed, complete sequence	35428-35464	2	0.946
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	MH791411	UNVERIFIED: Escherichia phage Ecwhy_1, complete genome	13645-13681	2	0.946
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	MH494197	Escherichia phage CMSTMSU, complete genome	196772-196808	2	0.946
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	NZ_CP023526	Cedecea neteri strain FDAARGOS_392 plasmid unnamed, complete sequence	1927-1963	3	0.919
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	NZ_CP054057	Scandinavium goeteborgense strain CCUG 66741 plasmid pSg66741_1, complete sequence	85817-85853	3	0.919
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	KY653118	Morganella phage IME1369_01, complete genome	698-734	4	0.892
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	LC494302	Escherichia phage SP27 DNA, complete genome	76611-76647	5	0.865
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	LT603033	Escherichia phage vB_Eco_slurp01 genome assembly, chromosome: I	17117-17153	5	0.865
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	NC_027364	Escherichia phage PBECO 4, complete genome	207832-207868	5	0.865
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	NC_049942	Escherichia phage JLK-2012, complete sequence	23524-23560	5	0.865
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	MK817115	Escherichia phage vB_EcoM_phAPEC6, complete genome	52945-52981	6	0.838
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	MH383160	Escherichia phage UB, complete genome	272124-272160	6	0.838
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	MK327931	Escherichia phage vB_EcoM_G17, complete genome	77929-77965	6	0.838
NC_022349_1	1.1\|1841175\|37\|NC_022349\|PILER-CR	1841175-1841211	37	KM507819	Escherichia phage 121Q, complete genome	77938-77974	7	0.811

1. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to NZ_CP041417 (Escherichia coli strain STEC711 plasmid pSTEC711_1, complete sequence) position: , mismatch: 2, identity: 0.946

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgattccggtagtcggcaccatat	Protospacer
*********************************** .

2. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to NZ_LN868946 (Salmonella enterica subsp. enterica serovar Senftenberg strain NCTC10384 plasmid 4, complete sequence) position: , mismatch: 2, identity: 0.946

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgattccggtagtcggcaccatca	Protospacer
***********************************.

3. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to KU052038 (Escherichia phage SerU-LTIIb, partial genome) position: , mismatch: 2, identity: 0.946

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgattccggtagtcggcaccatat	Protospacer
*********************************** .

4. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to KU052038 (Escherichia phage SerU-LTIIb, partial genome) position: , mismatch: 2, identity: 0.946

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgattccggtagtcggcaccatat	Protospacer
*********************************** .

5. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to LN997803 (Escherichia coli phage phi467) position: , mismatch: 2, identity: 0.946

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgattccggtagtcggcaccatat	Protospacer
*********************************** .

6. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to NZ_CP022660 (Salmonella enterica subsp. enterica strain RM11060 plasmid pRM11060-2, complete sequence) position: , mismatch: 2, identity: 0.946

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgattccggtagtcggcaccactt	Protospacer
**********************************.*.

7. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to NZ_CP045061 (Salmonella enterica subsp. enterica serovar Muenchen strain LG26 plasmid pLG26p2, complete sequence) position: , mismatch: 2, identity: 0.946

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgattccggtagtcggcaccactt	Protospacer
**********************************.*.

8. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to NZ_CP045054 (Salmonella enterica subsp. enterica serovar Muenchen strain LG24 plasmid pLG24p2, complete sequence) position: , mismatch: 2, identity: 0.946

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgattccggtagtcggcaccactt	Protospacer
**********************************.*.

9. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to NZ_CP045058 (Salmonella enterica subsp. enterica serovar Muenchen strain LG25 plasmid pLG25p2, complete sequence) position: , mismatch: 2, identity: 0.946

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgattccggtagtcggcaccactt	Protospacer
**********************************.*.

10. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to NC_021742 (Serratia liquefaciens ATCC 27592 plasmid unnamed, complete sequence) position: , mismatch: 2, identity: 0.946

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgattccggtagccggcaccaatc	Protospacer
*************************.******** **

11. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to MH791411 (UNVERIFIED: Escherichia phage Ecwhy_1, complete genome) position: , mismatch: 2, identity: 0.946

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgattccggtagtcggcacaaatc	Protospacer
******************************** * **

12. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to MH494197 (Escherichia phage CMSTMSU, complete genome) position: , mismatch: 2, identity: 0.946

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgattccggtagtcggcacaaatc	Protospacer
******************************** * **

13. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to NZ_CP023526 (Cedecea neteri strain FDAARGOS_392 plasmid unnamed, complete sequence) position: , mismatch: 3, identity: 0.919

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgattccggtagtcggcaccagaa	Protospacer
**********************************

14. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to NZ_CP054057 (Scandinavium goeteborgense strain CCUG 66741 plasmid pSg66741_1, complete sequence) position: , mismatch: 3, identity: 0.919

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgattccggtagtcggcaccaaat	Protospacer
**********************************  .

15. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to KY653118 (Morganella phage IME1369_01, complete genome) position: , mismatch: 4, identity: 0.892

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
taggtcaccagttcgactccggtagccggcaccatat	Protospacer
****************.********.********* .

16. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to LC494302 (Escherichia phage SP27 DNA, complete genome) position: , mismatch: 5, identity: 0.865

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
aaggtcaccagttcgattccggtagtcggcacaaaat	Protospacer
 ******************************* *  .

17. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to LT603033 (Escherichia phage vB_Eco_slurp01 genome assembly, chromosome: I) position: , mismatch: 5, identity: 0.865

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
aaggtcaccagttcgattccggtagtcggcacaaaat	Protospacer
 ******************************* *  .

18. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to NC_027364 (Escherichia phage PBECO 4, complete genome) position: , mismatch: 5, identity: 0.865

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
aaggtcaccagttcgattccggtagtcggcacaaaat	Protospacer
 ******************************* *  .

19. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to NC_049942 (Escherichia phage JLK-2012, complete sequence) position: , mismatch: 5, identity: 0.865

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
caggtcgccagttcgattccggtagccggcaccatat	Protospacer
.*****.******************.********* .

20. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to MK817115 (Escherichia phage vB_EcoM_phAPEC6, complete genome) position: , mismatch: 6, identity: 0.838

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
aatgtcaccagttcgattccggtagtcggcacaaaat	Protospacer
 * ***************************** *  .

21. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to MH383160 (Escherichia phage UB, complete genome) position: , mismatch: 6, identity: 0.838

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
aatgtcaccagttcgattccggtagtcggcacaaaat	Protospacer
 * ***************************** *  .

22. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to MK327931 (Escherichia phage vB_EcoM_G17, complete genome) position: , mismatch: 6, identity: 0.838

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
aatgtcaccagttcgattccggtagtcggcacaaaat	Protospacer
 * ***************************** *  .

23. spacer 1.1|1841175|37|NC_022349|PILER-CR matches to KM507819 (Escherichia phage 121Q, complete genome) position: , mismatch: 7, identity: 0.811

taggtcaccagttcgattccggtagtcggcaccattc	CRISPR spacer
aatgtcaccagttcaattccggtagtcggcacaaaat	Protospacer
 * ***********.***************** *  .

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

668419 : 679272

Vibrio_phage(91.67%)

coat

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_005377471.1\|668419_670141_+	response regulator	A0A1V0SGX0	Hokovirus	3.9e-42	31.9
WP_017821935.1\|670314_670683_-	hypothetical protein	R9TE55	Vibrio_phage	4.8e-43	71.9
WP_021033876.1\|670809_671433_+	3'-5' exonuclease	W6ASW5	Vibrio_phage	4.2e-39	49.7
WP_005488200.1\|671436_671652_+	hypothetical protein	A0A1W6UGD1	Vibrio_phage	1.8e-34	98.6
WP_080666441.1\|671575_672784_+	replication initiation factor domain-containing protein	Q7DKP2	Vibrio_phage	3.0e-243	98.8
WP_017822035.1\|672787_673141_+	DUF1293 family protein	A0A1W6UG87	Vibrio_phage	2.2e-61	100.0
WP_017822034.1\|673152_673398_+	hypothetical protein	A0A1W6UH23	Vibrio_phage	2.6e-37	98.8
WP_015975175.1\|673408_673642_+\|coat	major coat protein	O88142	Vibrio_phage	1.0e-30	100.0
WP_017822025.1\|673775_675251_+	methyl-accepting chemotaxis protein	A0A1W6UG63	Vibrio_phage	1.0e-208	95.5
WP_017822026.1\|675252_675567_+	DUF2523 domain-containing protein	A0A1W6UG81	Vibrio_phage	6.1e-47	100.0
WP_021033879.1\|675563_676706_+	hypothetical protein	A0A1W6UG53	Vibrio_phage	6.4e-203	97.4
WP_017821799.1\|677027_677282_-	hypothetical protein	NA	NA	NA	NA
WP_021707808.1\|677577_678315_+	hypothetical protein	NA	NA	NA	NA
WP_021707809.1\|678470_678869_+	hypothetical protein	NA	NA	NA	NA
WP_017821803.1\|678906_679272_-	phage protein	Q9MCC4	Vibrio_phage	2.6e-49	77.7

DBSCAN-SWA_2

1241619 : 1315505

Vibrio_phage(83.33%)

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

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_017633856.1\|1241619_1242579_+\|tRNA	tRNA dihydrouridine(16) synthase DusC	NA	NA	NA	NA
WP_005387278.1\|1242630_1244091_-	GGDEF domain-containing protein	NA	NA	NA	NA
WP_017821377.1\|1244265_1246092_-	maltodextrin glucosidase	NA	NA	NA	NA
WP_005387275.1\|1246233_1247028_-	ABC transporter ATP-binding protein	NA	NA	NA	NA
WP_005380812.1\|1247024_1247960_-	ABC transporter permease	NA	NA	NA	NA
WP_017633858.1\|1248134_1249100_-	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_005380809.1\|1249430_1249883_-	DUF412 domain-containing protein	NA	NA	NA	NA
WP_005380807.1\|1250229_1251426_+	acetate kinase	NA	NA	NA	NA
WP_005380805.1\|1251562_1253707_+	phosphate acetyltransferase	NA	NA	NA	NA
WP_005380804.1\|1254051_1254474_+	hypothetical protein	NA	NA	NA	NA
WP_017821376.1\|1254588_1255536_-	glutathione S-transferase family protein	NA	NA	NA	NA
WP_005380794.1\|1255703_1256699_-	murein tripeptide/oligopeptide ABC transporter ATP binding protein OppF	G3M9Y6	Bacillus_virus	1.5e-17	32.8
WP_005380792.1\|1256695_1257667_-	ABC transporter ATP-binding protein	G9BWD6	Planktothrix_phage	6.6e-15	31.2
WP_017633861.1\|1257694_1258597_-	oligopeptide ABC transporter permease OppC	NA	NA	NA	NA
WP_005380786.1\|1258612_1259533_-	oligopeptide ABC transporter permease OppB	NA	NA	NA	NA
WP_017633862.1\|1259661_1261338_-	peptide ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_017821374.1\|1261869_1262325_-	molybdopterin synthase catalytic subunit MoaE	NA	NA	NA	NA
WP_005380780.1\|1262326_1262584_-	molybdopterin synthase sulfur carrier subunit	NA	NA	NA	NA
WP_005380779.1\|1262580_1263060_-	cyclic pyranopterin monophosphate synthase MoaC	NA	NA	NA	NA
WP_005388935.1\|1263086_1263599_-	molybdenum cofactor biosynthesis protein B	NA	NA	NA	NA
WP_005380776.1\|1263700_1264690_-	GTP 3',8-cyclase MoaA	NA	NA	NA	NA
WP_017821373.1\|1264988_1265885_+	YvcK family protein	A1IMD5	Streptococcus_phage	1.8e-27	30.6
WP_005380770.1\|1266022_1266367_-	Hpt domain-containing protein	NA	NA	NA	NA
WP_017821372.1\|1266363_1267770_-	sigma-54-dependent Fis family transcriptional regulator	Q6XM27	Feldmannia_irregularis_virus	4.3e-07	27.7
WP_017636056.1\|1268060_1270091_-	excinuclease ABC subunit UvrB	NA	NA	NA	NA
WP_017821371.1\|1271077_1273375_+	formate C-acetyltransferase	A0A2P0VNR5	Tetraselmis_virus	2.0e-158	40.3
WP_005380762.1\|1273680_1274259_+	electron transport complex subunit RsxA	NA	NA	NA	NA
WP_005380760.1\|1274262_1274859_+	electron transport complex subunit RsxB	NA	NA	NA	NA
WP_017821193.1\|1277391_1278438_+	electron transport complex subunit RsxD	NA	NA	NA	NA
WP_005380747.1\|1278445_1279078_+	electron transport complex subunit RsxG	NA	NA	NA	NA
WP_005380745.1\|1279077_1279770_+	electron transport complex subunit E	NA	NA	NA	NA
WP_005380743.1\|1279834_1280476_+	endonuclease III	NA	NA	NA	NA
WP_005380739.1\|1280508_1280925_+	lactoylglutathione lyase	NA	NA	NA	NA
WP_005384886.1\|1281075_1281510_+	DUF2753 domain-containing protein	NA	NA	NA	NA
WP_021033989.1\|1281657_1282512_-	OmpA family protein	NA	NA	NA	NA
WP_005384888.1\|1282853_1283498_+	ribonuclease T	L0N6K9	Acaryochloris_phage	2.2e-06	24.7
WP_017821192.1\|1283526_1284852_+	Na+/H+ antiporter family protein	NA	NA	NA	NA
WP_017821191.1\|1284930_1285560_-	DsbA family protein	NA	NA	NA	NA
WP_017821190.1\|1286340_1286874_-	hypothetical protein	NA	NA	NA	NA
WP_017821189.1\|1287108_1288749_-	hypothetical protein	A0A160DHT6	Vibrio_phage	6.0e-210	66.2
WP_017821188.1\|1288745_1289219_-	hypothetical protein	U3PDI0	Vibrio_phage	4.3e-36	53.5
WP_017821187.1\|1289212_1290103_-	hypothetical protein	R9TRQ4	Vibrio_phage	1.5e-90	57.8
WP_017821186.1\|1290099_1290501_-	hypothetical protein	NA	NA	NA	NA
WP_017635434.1\|1292289_1292886_-	hypothetical protein	R9TQ05	Vibrio_phage	3.4e-70	67.6
WP_017821184.1\|1292878_1294084_-\|plate	baseplate J/gp47 family protein	R9TRT3	Vibrio_phage	1.2e-159	69.2
WP_017821183.1\|1294080_1294422_-	DUF2590 family protein	R9TMS7	Vibrio_phage	1.0e-34	70.0
WP_017821182.1\|1294411_1296391_-\|tail	phage tail tape measure protein	R9TRA2	Vibrio_phage	9.4e-210	59.7
WP_017821180.1\|1296606_1296888_-	hypothetical protein	A0A160DHS7	Vibrio_phage	2.4e-26	66.3
WP_031777235.1\|1296880_1297123_-	hypothetical protein	U3PCH1	Vibrio_phage	6.2e-23	69.4
WP_017821178.1\|1297091_1297433_-	hypothetical protein	R9TNR2	Vibrio_phage	7.6e-35	69.0
WP_017821177.1\|1297407_1297998_-	lysozyme	A0A2I7RNI5	Vibrio_phage	5.5e-65	59.7
WP_017635442.1\|1297984_1298194_-	hypothetical protein	A0A2I7RNJ2	Vibrio_phage	4.4e-17	58.8
WP_017821176.1\|1298198_1298405_-	TraR/DksA C4-type zinc finger protein	A0A2I7RNJ6	Vibrio_phage	1.4e-12	51.5
WP_017821175.1\|1298425_1298878_-	DUF2597 family protein	U3PCG7	Vibrio_phage	4.4e-54	67.1
WP_017821174.1\|1298881_1300012_-	DUF2586 family protein	U3PB71	Vibrio_phage	7.7e-124	61.9
WP_017635446.1\|1300014_1300674_-	phage virion morphogenesis protein	U3PDG7	Vibrio_phage	2.0e-79	71.1
WP_017635447.1\|1300666_1301155_-\|tail	phage tail protein	R9TRS7	Vibrio_phage	9.5e-47	55.1
WP_017821173.1\|1301151_1301616_-\|head	head completion/stabilization protein	U3PFL1	Vibrio_phage	2.5e-52	68.8
WP_017821172.1\|1301724_1302441_-\|terminase	terminase	A0A2I7RNJ0	Vibrio_phage	8.1e-87	68.7
WP_017821171.1\|1302433_1303456_-\|capsid	phage major capsid protein, P2 family	R9TPZ5	Vibrio_phage	3.4e-110	62.2
WP_017821170.1\|1303455_1304322_-\|capsid	GPO family capsid scaffolding protein	A0A2I7RNH1	Vibrio_phage	5.6e-82	73.5
WP_017821169.1\|1304487_1306275_+\|terminase	terminase	A0A2I7RNI3	Vibrio_phage	6.2e-269	79.3
WP_017821168.1\|1306271_1307303_+\|portal	phage portal protein	A0A2I7RNI9	Vibrio_phage	3.0e-151	76.0
WP_017821167.1\|1307368_1307620_+	ogr/Delta-like zinc finger family protein	R9TNQ2	Vibrio_phage	7.1e-38	89.2
WP_102949784.1\|1307614_1307848_-	hypothetical protein	U3PDF9	Vibrio_phage	9.9e-18	63.9
WP_021707714.1\|1308216_1308681_+	hypothetical protein	NA	NA	NA	NA
WP_017821164.1\|1308755_1309193_+	hypothetical protein	NA	NA	NA	NA
WP_017821163.1\|1309303_1309879_-	hypothetical protein	NA	NA	NA	NA
WP_017635458.1\|1309878_1310610_-	AHH domain-containing protein	NA	NA	NA	NA
WP_017821162.1\|1310794_1312882_-	hypothetical protein	A0A2I7RNF8	Vibrio_phage	7.2e-168	46.3
WP_017821161.1\|1312936_1313164_-	hypothetical protein	U3PIK2	Vibrio_phage	2.4e-24	69.3
WP_017821160.1\|1313145_1313448_-	hypothetical protein	NA	NA	NA	NA
WP_017821159.1\|1313510_1313846_-	hypothetical protein	NA	NA	NA	NA
WP_017821158.1\|1313855_1314395_-	phage regulatory CII family protein	U3PIJ8	Vibrio_phage	2.3e-65	66.5
WP_017821157.1\|1314505_1314718_-	hypothetical protein	U3PFJ1	Vibrio_phage	3.0e-21	68.6
WP_017821156.1\|1314866_1315505_+	phage repressor protein CI	A0A166YHA0	Vibrio_phage	4.6e-73	63.8

DBSCAN-SWA_3

1760835 : 1778010

uncultured_Mediterranean_phage(18.18%)

tRNA

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_005380872.1\|1760835_1763418_-\|tRNA	alanine--tRNA ligase	A0A1V0SK38	Klosneuvirus	5.9e-79	38.1
WP_005383799.1\|1763560_1764028_-	recombination regulator RecX	NA	NA	NA	NA
WP_005380874.1\|1764155_1765199_-	recombinase RecA	A0A2D1GPX2	Mycobacterium_phage	8.1e-112	61.0
WP_017821622.1\|1765399_1765882_-	nicotinamide-nucleotide amidase	B5TK85	Pseudomonas_phage	3.2e-26	48.1
WP_017821623.1\|1765966_1768528_+	DNA mismatch repair protein MutS	A0A1V0SC35	Catovirus	2.0e-31	22.9
WP_005380887.1\|1768610_1769597_-	RNA polymerase sigma factor RpoS	F4YCU2	Synechococcus_phage	6.9e-36	35.2
WP_017633546.1\|1769677_1770601_-	peptidoglycan DD-metalloendopeptidase family protein	D7RWE0	Brochothrix_phage	4.1e-06	35.2
WP_005380892.1\|1770614_1771241_-	protein-L-isoaspartate(D-aspartate) O-methyltransferase	A0A1B1IU40	uncultured_Mediterranean_phage	2.3e-37	54.5
WP_005380894.1\|1771240_1772017_-	5'/3'-nucleotidase SurE	A0A1B1ITZ2	uncultured_Mediterranean_phage	2.3e-66	49.4
WP_017821624.1\|1772016_1773060_-\|tRNA	tRNA pseudouridine(13) synthase TruD	NA	NA	NA	NA
WP_005380896.1\|1773105_1773582_-	2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase	NA	NA	NA	NA
WP_017821625.1\|1773596_1774304_-	2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase	A0A2H4UTB4	Bodo_saltans_virus	9.1e-06	23.6
WP_017821626.1\|1774305_1774587_-	cell division protein FtsB	NA	NA	NA	NA
WP_005383785.1\|1774989_1776291_-	phosphopyruvate hydratase	A0A1X9I5Z8	Streptococcus_phage	4.1e-137	60.6
WP_021034029.1\|1776369_1778010_-	CTP synthase	A0A1J0FA14	Only_Syngen_Nebraska_virus	2.1e-154	52.1

DBSCAN-SWA_4

3065086 : 3071870

Staphylococcus_phage(50.0%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_017820604.1\|3065086_3066226_+	glutamate 5-kinase	A0A1X9I5D0	Streptococcus_phage	5.8e-63	42.0
WP_017820605.1\|3066243_3067494_+	glutamate-5-semialdehyde dehydrogenase	A0A1X9I5D4	Streptococcus_phage	4.3e-99	48.5
WP_005381578.1\|3067700_3068150_+	transcriptional regulator NrdR	NA	NA	NA	NA
WP_017635684.1\|3068157_3069285_+	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A1V0SE20	Indivirus	5.4e-45	34.8
WP_005383626.1\|3069293_3069947_+	riboflavin synthase	A0A2H4PQS5	Staphylococcus_phage	1.1e-32	37.0
WP_005381573.1\|3070120_3071230_+	bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	A0A2H4PQS2	Staphylococcus_phage	1.2e-65	39.8
WP_005381572.1\|3071399_3071870_+	6,7-dimethyl-8-ribityllumazine synthase	A0A2H4PQS3	Staphylococcus_phage	1.7e-32	48.7

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NC_022359

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. NC_022349

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