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_CP017258	Campylobacter pinnipediorum subsp. caledonicus strain RM18021 chromosome, complete genome	1 crisprs	DEDDh	0	1	3	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NZ_CP017258_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP017258_1

284391-284465

Orphan

Consensus_repeat	Method
TTCATTATTTAGCGCTGTTATTTG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NZ_CP017258_1

>merge|NZ_CP017258|1|284391-284465|CRISPRCasFinder
TTCATTATTTAGCGCTGTTATTTGCTTTGCTTGTTGTTTTAAATTATTTATTTCATTATTTAGTGCTGTTATTTG

>NZ_CP017258|1|1|284391-284465|CRISPRCasFinder
TTCATTATTTAGCGCTGTTATTTG	CTTTGCTTGTTGTTTTAAATTATTTAT
TTCATTATTTAGTGCTGTTATTTG

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP017258.1\|WP_078422868.1\|286241_286742_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP017258.1\|WP_078424243.1\|278600_278813_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP017258.1\|WP_078422870.1\|289004_289388_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP017258.1\|WP_078424249.1\|282010_283564_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP017258.1\|WP_078422863.1\|284841_285114_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|374352
NZ_CP017258.1\|WP_078424244.1\|278815_279067_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP017258.1\|WP_078424247.1\|280284_280461_+\|helix-turn-helix-domain-containing-protein	unknown	unknown	gnl\|CDD\|378935
NZ_CP017258.1\|WP_078422860.1\|283566_284223_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP017258.1\|WP_078424250.1\|286751_288878_-\|BspA-family-leucine-rich-repeat-surface-protein	unknown	unknown	gnl\|CDD\|308794
NZ_CP017258.1\|WP_078424245.1\|279069_279525_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP017258.1\|WP_078422866.1\|285501_285861_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP017258.1\|WP_078424241.1\|277918_278113_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP017258.1\|WP_078422864.1\|285116_285302_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP017258.1\|WP_078422862.1\|284493_284838_-\|M15-family-peptidase	unknown	unknown	gnl\|CDD\|350620
NZ_CP017258.1\|WP_157886648.1\|288874_289012_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP017258.1\|WP_078422865.1\|285298_285505_-\|hypothetical-protein	unknown	unknown	unknown
NZ_CP017258.1\|WP_078424246.1\|279529_280033_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP017258.1\|WP_078422867.1\|285857_286226_-\|DUF1353-domain-containing-protein	unknown	unknown	gnl\|CDD\|377774
NZ_CP017258.1\|WP_078424248.1\|280457_281657_-\|tyrosine-type-recombinase/integrase	unknown	unknown	gnl\|CDD\|170049
NZ_CP017258.1\|WP_078424242.1\|278123_278579_+\|DUF736-family-protein	unknown	unknown	gnl\|CDD\|368371

Protein	Function_ID	Function_description	E-value
NZ_CP017258.1\|WP_078424250.1\|286751_288878_-\|BspA-family-leucine-rich-repeat-surface-protein	gnl\|CDD\|308794	pfam03382, DUF285, Mycoplasma protein of unknown function, DUF285. This region appears distantly related to leucine rich repeats.	1.82106e-32
NZ_CP017258.1\|WP_078422862.1\|284493_284838_-\|M15-family-peptidase	gnl\|CDD\|350620	cd14845, L-Ala-D-Glu_peptidase_like, L-Ala-D-Glu peptidase, also known as L-alanyl-D-glutamate endopeptidase. This L-Ala-D-Glu peptidase family includes L-alanyl-D-glutamate peptidase (bacteriophage T5) (also known as L-alanoyl-D-glutamate endopeptidase), and Ply118 and Ply500 L-Ala-D-Glu peptidase. Bacteriophage endolysin degrades the peptidoglycan of the bacterial host from within, leading to cell lysis and release of progeny virions. The bacteriophage endolysin Ply118 cleaves between L-Ala and D-Glu residues of Listeria cell wall peptidoglycan. This family belongs to the MEROPS peptidase M15 subfamily C.	3.83904e-12
NZ_CP017258.1\|WP_078422863.1\|284841_285114_-\|hypothetical-protein	gnl\|CDD\|374352	pfam16083, Phage_holin_3_3, LydA holin phage, holin superfamily III. Phage_holin_3_3 is a family of small hydrophobic holin proteins with one or more transmembrane domains. Holins are encoded within the genomes of Gram-positive and Gram-negative bacteria as well as those of the bacteriophages of these organisms. Their primary function appears to be transport of murein hydrolases across the cytoplasmic membrane to the cell wall where these enzymes hydrolyze the cell wall polymer as a prelude to cell lysis. When chromosomally encoded, these enzymes are therefore autolysins. Holins may also facilitate leakage of electrolytes and nutrients from the cell cytoplasm, thereby promoting cell death. Some may catalyze export of nucleases. LydA and lydB are encoded on the dar operon. The phenotype of a rapid lysis in the absence of active LydB suggests that this protein might be an antagonist of the holin LydA.	0.00559651
NZ_CP017258.1\|WP_078424247.1\|280284_280461_+\|helix-turn-helix-domain-containing-protein	gnl\|CDD\|378935	pfam12728, HTH_17, Helix-turn-helix domain. This domain is a DNA-binding helix-turn-helix domain.	4.29946e-08
NZ_CP017258.1\|WP_078422867.1\|285857_286226_-\|DUF1353-domain-containing-protein	gnl\|CDD\|377774	pfam07087, DUF1353, Protein of unknown function (DUF1353). This family consists of several hypothetical bacterial proteins of around 100 residues in length. The function of this family is unknown.	5.00483e-21
NZ_CP017258.1\|WP_078424248.1\|280457_281657_-\|tyrosine-type-recombinase/integrase	gnl\|CDD\|170049	PRK09692, PRK09692, integrase; Provisional.	2.12966e-70
NZ_CP017258.1\|WP_078424242.1\|278123_278579_+\|DUF736-family-protein	gnl\|CDD\|368371	pfam05284, DUF736, Protein of unknown function (DUF736). This family consists of several uncharacterized bacterial proteins of unknown function.	2.49216e-11

>NZ_CP017258.1|WP_078422860.1|283566_284223_-|hypothetical-protein
MSTYSEEYKKILKEVLALSVEENSPYNKTIAFFEEKFNEYQLSANERIRVFAEMLPVMTTSFTTTAMQISIELANQSLSFDTNLDNLKKQGESLTANIEGIKEQTKGTQIKNEEAQEQRPDKLANLHKQGLMLDAQIAKLAQEQTLAEEQHKAIKEQVKDNKLIKGANIIENLITGNQQGGLVVPTDMSRYLFDLVGKLVEAGATPNKPSTYTMTKRS
>NZ_CP017258.1|WP_078424249.1|282010_283564_-|hypothetical-protein
MYIAFENSLNATFNAENTLESDVFSYMAGGAMDSTLAGGFGYSAFNETGADYRAIFLNKSGNLSGAITSLNEDFAEFALMSIQMSVMNDDIDTTIEIMQDIEGVIKDVILPLKRQFTNKGQGYNAIFGEDRATLQANGYTNSLEAFVKEKQFDGIIENKLEYVGNTIMPGIGGTVLGTIYDGLTTGKLNLSANAVENLSDTLLSKATNVAVKKTMSAIGTSIAPIGGMFVAEIVKMAVTEAFEVMTKLDRHYGFGGELMGFAEVDGKRMALYQQPKTIGEFLKDLVGSVNSLFGDEVESKLEMLTDWDGNMAGFGVDGRVSATYGTDGTITSTMTGNTFKGSLVDMRAYNLITTGRSDGDWLRNGKSSLYGGIIKNKSVEDIANNYGYNTTINSPFTNAINDNLSSNWASSSGNSRRSRSRDRWHTNGSGGFYRENDKTKKSEYKSGLEMTIDKSFKDKFGSSFGSSWASSSGSSRDKDSSKSSNRRSGMSDGKPGGRSRASRERSRNRERGGSSWG
>NZ_CP017258.1|WP_078424248.1|280457_281657_-|tyrosine-type-recombinase/integrase
MPKISTPLSDTKIKNLKPKDKEYKLSDGDKLYLFIKPNGRKHFALEYKSPVTQKIRRIALGDYPTLTLANARKKRAELLEALQEGNDPLMHKGKMINTLNKIGLEWLEIKNATNTQSYAKKQLLVFNKHVSKYLGDRDINAISTVDIINTLKIIEDSGSLETLKRIFSLLNQIYKYAVSYGYTKHNIIADISFRYTFKQAKTKNYPTLTKTNDIRGLILSIDEYNGDYKTKVALKLLMNTAVRPFNIRACEWNEIDFKNKLWVIPAEKMKMKQEFILPLSTQAMDLLKDYRLVADKSSNYLFASLRSADRCMSDNTLNAALRRLGYSKDEIVSHGFRAMFSTLANELRDDHQCGIDIIEKCLAHADKDKIRDAYNRASNLKQMRVLMQWWGDYLSGLIS
>NZ_CP017258.1|WP_078424247.1|280284_280461_+|helix-turn-helix-domain-containing-protein
MNDELLTAKEVMQLLKISATTLWKYVKAGKINKHSLTKRTIRYSKNEILQLVKSQTVA
>NZ_CP017258.1|WP_078424246.1|279529_280033_+|hypothetical-protein
MTKTQFNDIKEKLLEYCKDKGLSIVNQRAGYAANLSKEITEYLRANNDDDKVDALCDMIVFTLNATYKLEYRTGDSHFDNKVPVIAFAFLSMYCDKLANITDVAYFVANIIRNIEIMGYDSYKCMLETIKKISSRTGHYDEKAKNLSKILQMKPKPNGTKLIMLVAS
>NZ_CP017258.1|WP_078424245.1|279069_279525_+|hypothetical-protein
MPYVNLYLDDEVAYQLLEELEVEEYLSLLESKLLTDNDITAGGVVYLAEILEKIDTRSIGELIYMLSDDRAKEIKDFLSAYKKIKGGQELNTRIQRAIEDLSHYFNEYEEYAELDYEDWNKDDAEFILINMSYLLDKLRTYVDDTLDELME
>NZ_CP017258.1|WP_078424244.1|278815_279067_+|hypothetical-protein
MEVKEILEQREQTHGTFEEQSSISQTLKHTLGKYSYKLTPQQREAMQMIMHKQARILAGDPNVKDHWVDIAGYATLVAKELKE
>NZ_CP017258.1|WP_078424243.1|278600_278813_+|hypothetical-protein
MNDYKDILVTWYSPKYNNGYKVVIRVKDEFLKENYMYYKEPDILKKYREVLNDDSAVVLFVEDEVYFIEV
>NZ_CP017258.1|WP_078424242.1|278123_278579_+|DUF736-family-protein
MNIGYFKNVIYTNEQGQELSYIGGIINIPFARPLEVALLKASAEDKKNNANLPDFKIVLQRPKGYQGQRQIIGALWKRQSQRGLEYISGSIQSPILPGGQMYIALFEPTQDDSQLLYEISWSVPKSNNTQSSIPDVNTDDIAYEINNEIPF
>NZ_CP017258.1|WP_078424241.1|277918_278113_+|hypothetical-protein
MKTSMYLYGGENSHLISINNGADDRIAKAKILIKELLKEPLKSRDFKRIDDICKAIKHWENLKN
>NZ_CP017258.1|WP_078422862.1|284493_284838_-|M15-family-peptidase
MSLGKEQELFMKDVEKLLHYIHTNGYSVRGGELLRTKEQQEIYLKTGKSKTNNSNHLIKCAIDLFIFKEGNWLTNKDDLKEIGAFWESLTPINKWGGNYKNFTDCPHFERRVNG
>NZ_CP017258.1|WP_078422863.1|284841_285114_-|hypothetical-protein
MLETYIIYILIVGIVGSFVSWSKAENHNLRNIFFRVIDGCFSAYVVYEIAYYFTTNEKLSLAICGVGAFSGSDMLVSLKEFALNFFQRKI
>NZ_CP017258.1|WP_078422864.1|285116_285302_-|hypothetical-protein
MKKVLALFIGGIISIAVSIGAFYFFDVMFEDENTTFIAWLVSVGTYSAVLSPAKWLMIFKI
>NZ_CP017258.1|WP_078422865.1|285298_285505_-|hypothetical-protein
MKSILIIALMLFSGCASATKQIVYKDVLVPTKCIAEIPNKPKYESIEDAKGLMEYYLKVEALLLECVK
>NZ_CP017258.1|WP_078422866.1|285501_285861_-|hypothetical-protein
MISIIFNLLKNSKLNYAIIGLILTLCMLLYKTYTINNELLNSKNELSNLKLDNALLGVKIREKDEIIYKQNEAVKKLKVDNHNIQKALNKKIKVESVSKNASCEKKLAYFEALFKEVSR
>NZ_CP017258.1|WP_078422867.1|285857_286226_-|DUF1353-domain-containing-protein
MKDINCVVVKPFNKDRFEVVEDFIFEGIKVPKGYKSNGANVPRLLWPIFPPNSPEYLSATILHDYLCDVADSTIKYDTLKNVSFKYADDMLLKALLALGVNKFKTRLFYYSCRLYHKIKYRQ
>NZ_CP017258.1|WP_078422868.1|286241_286742_-|hypothetical-protein
MKKYFDKKEKRFVFDSYVTTDDGIFYLDRLSKEELNKIGLLPVVEVQINPDYQTVEYKEVDGEYVAQIIETKSIQEYTKEKLIQEFKDRAGEYLDKKAQEHGYDNILSASSYAGYENDFQEEGKAFGVWKSKVWKTGYMFLAEKGDQDPSTINLDELLEGLPELEI
>NZ_CP017258.1|WP_078424250.1|286751_288878_-|BspA-family-leucine-rich-repeat-surface-protein
MISMHELKLADETLEALKFLLTQTTELESAIKTINLTEIKGINESITQAKDRVETIEQGINEVKNTFENEKGDFDSKYSLFNEFHNTLDTLKSTLESLKQSALTAERNAISKADESKRYANDIKQKHDEITNATNDFRKNAEKVNQTLTSVDSAKRHIDLKTDELRAYTDDKHTKFTQIEKHLENIQQEKSDEVLQIVKSAKAETNELKEQIQDFMQNVNSANDELDQKKAELKELGSSLSEIKEQINQVISGGVINDNVVSQTQTYSSNKIEQKLADINVDEKLTNLINDNSSAINKVYSSNKINELLGDVYTKAQSDGKYALSSALANYLTTVNANNTYATKNELNSVRSAIPSTSGFLTQSSADSRYIRSENANYTTVTDNLASSSPKEALSANQGKVLKELIDKKIDKTSAEFLYLKKAGQTAFDKREQTSLSADLRQSNNFVITPSTKETLSLNNAIAGQTGMIVVMDGSKISGFGSMCKFKVVPKNLYGYELFIYFAVSPTDIKMSHITVNNSNSVESKVQRFKGTYFPLTHTTKDPVYPKYVERGGTPYTFKPNDGLYFSKPPTSFKYLFKNDSNANNSLYFNDPDISLWDTTQITNMADMFYGCKKFNQSLNNLNTENVTDMNSMFWDCYEFNQTLEHFKTDKVIDMSFMFHDCKKFNKNITNWSVGRVAIYQYFAQGSALSKSNVPSKFRNKNANTAWR
>NZ_CP017258.1|WP_157886648.1|288874_289012_-|hypothetical-protein
MINEKDKIHLIDNVKSIADIDLLKFLKNMAKHFIECKETIKKAKL
>NZ_CP017258.1|WP_078422870.1|289004_289388_-|hypothetical-protein
MIASEFKKLLSLRGKSGINLPSDELLNELVKEAIVFVATKCVPSELVVKDTTNIRLLRRLSNGFGLRIPDKVDINSTEKHIQIDEVLTYAVMYEVLFLLNKDMGFRQLAMDIINQFNANDGIEVYYD

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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_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	MN693273	Marine virus AFVG_25M382, complete genome	15295-15321	4	0.852
NZ_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	MN693503	Marine virus AFVG_25M343, complete genome	15302-15328	4	0.852
NZ_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	MN694088	Marine virus AFVG_250M454, complete genome	24357-24383	4	0.852
NZ_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	MN694007	Marine virus AFVG_250M456, complete genome	24402-24428	4	0.852
NZ_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	MN694027	Marine virus AFVG_250M455, complete genome	27738-27764	4	0.852
NZ_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	NZ_LR214986	Mycoplasma cynos strain NCTC10142 plasmid 13	427341-427367	5	0.815
NZ_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	NC_012547	Staphylococcus aureus plasmid pGO1, complete sequence	49256-49282	6	0.778
NZ_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	NZ_CP026963	Staphylococcus aureus strain FDAARGOS_6 plasmid unnamed1	52588-52614	6	0.778
NZ_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	NC_005566	Staphylococcus epidermidis SK398 plasmid pSK639, complete sequence	147-173	6	0.778
NZ_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	NC_013387	Staphylococcus sp. CDC25 plasmid SAP018A, complete sequence	31965-31991	6	0.778
NZ_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	MN694519	Marine virus AFVG_250M726, complete genome	43046-43072	6	0.778
NZ_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	NZ_CP019365	Borrelia turicatae 91E135 isolate Oz1 plasmid lpE43, complete sequence	30810-30836	7	0.741
NZ_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	NZ_CP019366	Borrelia turicatae 91E135 isolate Oz1 plasmid lpF33.5, complete sequence	33119-33145	7	0.741
NZ_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	NC_015712	Clostridium perfringens plasmid pCPPB-1, complete sequence	60600-60626	7	0.741
NZ_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	NZ_CP019369	Borrelia turicatae 91E135 isolate Oz1 plasmid lpU43, complete sequence	3237-3263	7	0.741
NZ_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	MN694645	Marine virus AFVG_250M761, complete genome	5577-5603	7	0.741
NZ_CP017258_1	1.1\|284415\|27\|NZ_CP017258\|CRISPRCasFinder	284415-284441	27	KC465899	Pelagibacter phage HTVC008M, complete genome	44081-44107	7	0.741

1. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to MN693273 (Marine virus AFVG_25M382, complete genome) position: , mismatch: 4, identity: 0.852

ctttgcttgttgttttaaattatttat	CRISPR spacer
ttctgcttgtttttttaaattattaat	Protospacer
.*.******** ************ **

2. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to MN693503 (Marine virus AFVG_25M343, complete genome) position: , mismatch: 4, identity: 0.852

ctttgcttgttgttttaaattatttat	CRISPR spacer
ttctgcttgtttttttaaattattaat	Protospacer
.*.******** ************ **

3. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to MN694088 (Marine virus AFVG_250M454, complete genome) position: , mismatch: 4, identity: 0.852

ctttgcttgttgttttaaattatttat	CRISPR spacer
ctttgcttgttgaattaaattatcaat	Protospacer
************  *********. **

4. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to MN694007 (Marine virus AFVG_250M456, complete genome) position: , mismatch: 4, identity: 0.852

ctttgcttgttgttttaaattatttat	CRISPR spacer
ctttgcttgttgaattaaattatcaat	Protospacer
************  *********. **

5. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to MN694027 (Marine virus AFVG_250M455, complete genome) position: , mismatch: 4, identity: 0.852

ctttgcttgttgttttaaattatttat	CRISPR spacer
ctttgcttgttgaattaaattatcaat	Protospacer
************  *********. **

6. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to NZ_LR214986 (Mycoplasma cynos strain NCTC10142 plasmid 13) position: , mismatch: 5, identity: 0.815

ctttgcttgttgttttaaattatttat	CRISPR spacer
gttagcttgttgtattaaattattatt	Protospacer
 ** ********* **********  *

7. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to NC_012547 (Staphylococcus aureus plasmid pGO1, complete sequence) position: , mismatch: 6, identity: 0.778

ctttgcttgttgttttaaattatttat	CRISPR spacer
aaacgcttgttattttaaattattaat	Protospacer
   .*******.************ **

8. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to NZ_CP026963 (Staphylococcus aureus strain FDAARGOS_6 plasmid unnamed1) position: , mismatch: 6, identity: 0.778

ctttgcttgttgttttaaattatttat	CRISPR spacer
aaacgcttgttattttaaattattaat	Protospacer
   .*******.************ **

9. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to NC_005566 (Staphylococcus epidermidis SK398 plasmid pSK639, complete sequence) position: , mismatch: 6, identity: 0.778

ctttgcttgttgttttaaattatttat	CRISPR spacer
aaacgcttgttattttaaattattaat	Protospacer
   .*******.************ **

10. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to NC_013387 (Staphylococcus sp. CDC25 plasmid SAP018A, complete sequence) position: , mismatch: 6, identity: 0.778

ctttgcttgttgttttaaattatttat	CRISPR spacer
aaacgcttgttattttaaattattaat	Protospacer
   .*******.************ **

11. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to MN694519 (Marine virus AFVG_250M726, complete genome) position: , mismatch: 6, identity: 0.778

ctttgcttgttgttttaaattatttat	CRISPR spacer
attaatttgttgttttaaattatttgg	Protospacer
 ** ..*******************.

12. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to NZ_CP019365 (Borrelia turicatae 91E135 isolate Oz1 plasmid lpE43, complete sequence) position: , mismatch: 7, identity: 0.741

ctttgcttgttgttttaaattatttat	CRISPR spacer
tagagattgttgttttaaattatttta	Protospacer
.   * *******************

13. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to NZ_CP019366 (Borrelia turicatae 91E135 isolate Oz1 plasmid lpF33.5, complete sequence) position: , mismatch: 7, identity: 0.741

ctttgcttgttgttttaaattatttat	CRISPR spacer
tagagattgttgttttaaattatttta	Protospacer
.   * *******************

14. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to NC_015712 (Clostridium perfringens plasmid pCPPB-1, complete sequence) position: , mismatch: 7, identity: 0.741

ctttgcttgttgttttaaattatttat	CRISPR spacer
aaagattagttgttttaaattatttat	Protospacer
    ..* *******************

15. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to NZ_CP019369 (Borrelia turicatae 91E135 isolate Oz1 plasmid lpU43, complete sequence) position: , mismatch: 7, identity: 0.741

ctttgcttgttgttttaaattatttat	CRISPR spacer
tagagattgttgttttaaattatttta	Protospacer
.   * *******************

16. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to MN694645 (Marine virus AFVG_250M761, complete genome) position: , mismatch: 7, identity: 0.741

ctttgcttgttgttttaaattatttat	CRISPR spacer
aaagtattgttgttttaaattttttat	Protospacer
      *************** *****

17. spacer 1.1|284415|27|NZ_CP017258|CRISPRCasFinder matches to KC465899 (Pelagibacter phage HTVC008M, complete genome) position: , mismatch: 7, identity: 0.741

ctttgcttgttgttttaaattatttat	CRISPR spacer
agacatttcttgttttaaattatttat	Protospacer
   ...** ******************

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

319890 : 333024

Campylobacter_phage(21.43%)

integrase

attL 326598:326613|attR 331708:331723

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_078422892.1\|319890_320685_+	hypothetical protein	M4SQR8	Cyanophage	2.0e-38	40.3
WP_078424269.1\|320746_321706_+	RelA/SpoT domain-containing protein	A0A1B0VBT5	Salmonella_phage	3.6e-21	29.7
WP_078422894.1\|321698_321944_+	hypothetical protein	NA	NA	NA	NA
WP_078422895.1\|322074_322452_+	type II toxin-antitoxin system death-on-curing family toxin	A0A1X9I6C0	Streptococcus_phage	2.1e-09	34.4
WP_078422896.1\|322461_322653_+	hypothetical protein	NA	NA	NA	NA
WP_078422897.1\|322694_322964_-	hypothetical protein	NA	NA	NA	NA
WP_078422898.1\|323050_323290_+	hypothetical protein	NA	NA	NA	NA
WP_078424270.1\|323304_323529_+	helix-turn-helix transcriptional regulator	M5A9C2	Nitratiruptor_phage	2.5e-10	52.9
WP_078415577.1\|323567_323723_+	toxin-antitoxin system HicB family antitoxin	NA	NA	NA	NA
WP_078424271.1\|323857_324592_+	Rha family transcriptional regulator	A0A192Y918	Salmonella_phage	1.2e-08	30.1
WP_157886652.1\|324566_324707_+	hypothetical protein	NA	NA	NA	NA
WP_089503398.1\|324732_325545_+	phage recombination protein Bet	A0A1P8BKG8	Lactococcus_phage	8.8e-13	32.8
WP_078422902.1\|325544_325796_+	hypothetical protein	X2CY11	Brucella_phage	1.1e-09	44.4
WP_078422903.1\|325807_326026_+	hypothetical protein	NA	NA	NA	NA
WP_078422904.1\|326018_326534_+	single-stranded DNA-binding protein	Q4ZC22	Staphylococcus_virus	3.5e-15	46.2
326598:326613	attL	NA	NA	NA	NA
WP_078422905.1\|326647_327064_+	type II toxin-antitoxin system PemK/MazF family toxin	X2KLV2	Campylobacter_phage	2.8e-39	57.8
WP_078424272.1\|327308_328304_+	virulence RhuM family protein	Q9JMN3	Wolbachia_phage	7.6e-75	46.3
WP_078422907.1\|328305_328536_+	hypothetical protein	X2KQ78	Campylobacter_phage	7.0e-08	47.1
WP_078424273.1\|328962_329679_+	Rha family transcriptional regulator	X2KM03	Campylobacter_phage	1.2e-32	45.9
WP_078422909.1\|329786_329993_+	helix-turn-helix domain-containing protein	NA	NA	NA	NA
WP_078424274.1\|329943_331128_-\|integrase	site-specific integrase	B7SYF8	Stenotrophomonas_phage	2.2e-44	31.0
WP_078422911.1\|331724_332129_-	phosphorelay protein	NA	NA	NA	NA
331708:331723	attR	NA	NA	NA	NA
WP_078424275.1\|332226_333024_+	3-methyl-2-oxobutanoate hydroxymethyltransferase	A0A0N7HVJ8	Ostreococcus_lucimarinus_virus	1.6e-43	38.2

DBSCAN-SWA_2

1063540 : 1123459

Campylobacter_phage(19.05%)

terminase,tail,capsid,transposase,plate,tRNA,integrase

attL 1059284:1059299|attR 1073721:1073736

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
1059284:1059299	attL	NA	NA	NA	NA
WP_078422781.1\|1063540_1065559_+\|integrase,transposase	DDE-type integrase/transposase/recombinase	A0A0M4U788	Ralstonia_phage	2.3e-17	26.9
WP_078422782.1\|1065632_1066553_+	AAA family ATPase	F6MII7	Haemophilus_phage	3.2e-27	32.6
WP_078422783.1\|1066567_1066813_+	hypothetical protein	NA	NA	NA	NA
WP_078422784.1\|1066879_1067257_+	DUF1937 family protein	NA	NA	NA	NA
WP_078424590.1\|1067446_1067866_+	hypothetical protein	NA	NA	NA	NA
WP_078422786.1\|1067944_1068577_+	hypothetical protein	NA	NA	NA	NA
WP_078422787.1\|1068573_1068981_+	DUF1018 domain-containing protein	NA	NA	NA	NA
WP_078422788.1\|1068973_1069252_+	hypothetical protein	NA	NA	NA	NA
WP_157886643.1\|1069281_1069458_+	hypothetical protein	NA	NA	NA	NA
WP_078422789.1\|1069454_1070141_+	hypothetical protein	NA	NA	NA	NA
WP_078424591.1\|1070162_1070600_+	hypothetical protein	NA	NA	NA	NA
WP_078424592.1\|1070664_1071126_-	phage virion morphogenesis protein	A7YGZ0	Campylobacter_phage	3.8e-21	42.6
WP_078422795.1\|1071249_1072464_-\|capsid	minor capsid protein	A0A0M4UTA3	Ralstonia_phage	1.1e-32	35.1
WP_078424593.1\|1072456_1073815_-	DUF935 family protein	A0A2H4JHL1	uncultured_Caudovirales_phage	3.6e-19	27.6
1073721:1073736	attR	NA	NA	NA	NA
WP_078424594.1\|1073818_1075462_-\|terminase	phage terminase large subunit	Q6TM76	Pseudomonas_phage	1.6e-93	39.8
WP_078422798.1\|1075461_1075959_-	DUF1804 family protein	NA	NA	NA	NA
WP_078422799.1\|1075968_1076364_-	DUF1320 family protein	NA	NA	NA	NA
WP_078422800.1\|1076495_1077467_-	hypothetical protein	NA	NA	NA	NA
WP_078424595.1\|1077470_1077800_-	hypothetical protein	NA	NA	NA	NA
WP_078422802.1\|1077802_1078618_-	hypothetical protein	A0A2K9VH54	Faecalibacterium_phage	1.4e-26	31.1
WP_078422803.1\|1078614_1079103_-	hypothetical protein	NA	NA	NA	NA
WP_078422804.1\|1079261_1079681_+	hypothetical protein	A0A1S5RFB5	Helicobacter_phage	2.3e-12	39.0
WP_078422805.1\|1079680_1080034_+	hypothetical protein	NA	NA	NA	NA
WP_078422806.1\|1080026_1080266_+	hypothetical protein	NA	NA	NA	NA
WP_078422807.1\|1080262_1080448_+	hypothetical protein	NA	NA	NA	NA
WP_078422808.1\|1080449_1080722_+	hypothetical protein	NA	NA	NA	NA
WP_078424880.1\|1080734_1081268_+\|plate	phage baseplate assembly protein V	V5YUM9	Pseudomonas_phage	3.2e-11	32.7
WP_078422809.1\|1081368_1081653_+\|plate	baseplate assembly protein	Q75QM0	Wolbachia_phage	4.1e-10	42.5
WP_078422810.1\|1081649_1082735_+\|plate	baseplate assembly protein	V5YTH6	Pseudomonas_phage	9.9e-20	28.4
WP_078422811.1\|1082731_1083352_+	hypothetical protein	A0A2K9V471	Faecalibacterium_phage	1.3e-11	34.3
WP_078424596.1\|1083348_1084788_+	hypothetical protein	A0A1W6JT73	Escherichia_phage	5.5e-34	28.7
WP_078424597.1\|1084797_1085409_+	hypothetical protein	A0A0F6WBI7	Sinorhizobium_phage	6.4e-08	51.7
WP_078424598.1\|1085795_1086956_+\|tail	phage tail protein	A7YGH4	Campylobacter_phage	1.4e-83	46.9
WP_078422815.1\|1087130_1087646_+\|tail	phage tail protein	A7YGZ4	Campylobacter_phage	2.7e-31	44.6
WP_078424599.1\|1087866_1088109_+\|tail	phage tail assembly protein	NA	NA	NA	NA
WP_078424600.1\|1088420_1088714_-	hypothetical protein	NA	NA	NA	NA
WP_078424601.1\|1088744_1091030_+\|tail	phage tail tape measure protein	A0A097I4X9	Vibrio_phage	1.2e-78	38.3
WP_078422819.1\|1091034_1091406_+\|tail	phage tail protein	NA	NA	NA	NA
WP_078422820.1\|1091402_1091594_+\|tail	phage tail protein	NA	NA	NA	NA
WP_078424602.1\|1091587_1092562_+\|tail	phage tail protein	A0A088FRU7	Escherichia_phage	1.1e-17	29.6
WP_078424603.1\|1092655_1093411_+	DNA adenine methylase	A7YGI9	Campylobacter_phage	2.8e-85	62.9
WP_078424604.1\|1093489_1094149_+	S24 family peptidase	E8ZDN4	Streptococcus_phage	2.6e-07	30.3
WP_078424605.1\|1094218_1095028_-	hypothetical protein	NA	NA	NA	NA
WP_078424606.1\|1095163_1097851_-	autotransporter outer membrane beta-barrel domain-containing protein	NA	NA	NA	NA
WP_078424607.1\|1098049_1099783_-	autotransporter domain-containing protein	NA	NA	NA	NA
WP_078424608.1\|1099951_1102711_-	autotransporter domain-containing protein	NA	NA	NA	NA
WP_078424881.1\|1102856_1103909_+	flagellar basal body P-ring protein FlgI	NA	NA	NA	NA
WP_078387845.1\|1103908_1104205_+	rod-binding protein	NA	NA	NA	NA
WP_078423488.1\|1104260_1104467_+	flagellar biosynthesis anti-sigma factor FlgM	NA	NA	NA	NA
WP_078424609.1\|1104482_1104902_+	flagellar biosynthesis protein FlgN	NA	NA	NA	NA
WP_078424610.1\|1104904_1106779_+	flagellar hook-associated protein FlgK	NA	NA	NA	NA
WP_078424611.1\|1106775_1107543_+	TIGR02757 family protein	NA	NA	NA	NA
WP_078424612.1\|1107828_1108653_-	pirin family protein	NA	NA	NA	NA
WP_078423493.1\|1108934_1110383_-	pyruvate kinase	NA	NA	NA	NA
WP_078423494.1\|1110662_1111379_+	molecular chaperone TorD family protein	NA	NA	NA	NA
WP_141080429.1\|1111399_1111570_+	Tat pathway signal protein	NA	NA	NA	NA
WP_078423495.1\|1111588_1112134_+	molybdopterin-dependent oxidoreductase	NA	NA	NA	NA
WP_078424613.1\|1112182_1114405_+	formate dehydrogenase subunit alpha	NA	NA	NA	NA
WP_078423497.1\|1114415_1115042_+	4Fe-4S dicluster domain-containing protein	NA	NA	NA	NA
WP_078423498.1\|1115038_1115980_+	formate dehydrogenase subunit gamma	NA	NA	NA	NA
WP_078424614.1\|1116028_1116811_+	formate dehydrogenase accessory sulfurtransferase FdhD	NA	NA	NA	NA
WP_078423500.1\|1116803_1117550_+	LysR family transcriptional regulator	NA	NA	NA	NA
WP_078423501.1\|1117564_1117753_+	sodium-dependent tyrosine transporter	NA	NA	NA	NA
WP_078423502.1\|1117838_1118966_+\|tRNA	tRNA guanosine(34) transglycosylase Tgt	A0A1B1IVQ4	uncultured_Mediterranean_phage	9.5e-74	40.2
WP_078424882.1\|1119134_1120232_-	peptide chain release factor 2	NA	NA	NA	NA
WP_078424615.1\|1120325_1121147_+	pantoate--beta-alanine ligase	NA	NA	NA	NA
WP_078424616.1\|1121149_1122457_+	30S ribosomal protein S12 methylthiotransferase RimO	NA	NA	NA	NA
WP_078424051.1\|1122463_1123459_+\|tRNA	tRNA lysidine(34) synthetase TilS	NA	NA	NA	NA

DBSCAN-SWA_3

1625416 : 1634556

Bacillus_phage(33.33%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_078423902.1\|1625416_1626499_+	diguanylate cyclase	A0A127AWB9	Bacillus_phage	4.5e-12	27.2
WP_078423903.1\|1626495_1627557_+	GGDEF domain-containing protein	A0A127AWB9	Bacillus_phage	2.2e-16	35.6
WP_078424809.1\|1627639_1628257_+	superoxide dismutase [Fe]	Q56AR7	Bacillus_thuringiensis_phage	6.4e-24	35.2
WP_141080396.1\|1628797_1629106_+	hypothetical protein	NA	NA	NA	NA
WP_078423906.1\|1629102_1629957_+	deoxyribonuclease IV	M1PMK4	Moumouvirus	3.6e-33	33.1
WP_078424810.1\|1629949_1631212_+	transporter	NA	NA	NA	NA
WP_078423908.1\|1631221_1632838_+	long-chain-fatty-acid--CoA ligase	A0A1V0SBX8	Catovirus	1.9e-35	28.5
WP_078424811.1\|1632837_1634556_+	ATP-binding protein	A0A0R6PCP6	Moraxella_phage	2.4e-20	33.8

Anti-CRISPR protein detection

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