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_CP011264	Mycoplasma mycoides subsp. mycoides strain Ben468 chromosome, complete genome	1 crisprs	NA	0	1	2	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NZ_CP011264_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NZ_CP011264_1

908278-908414

Orphan

Consensus_repeat	Method
GATAATAGATATGATCAAAATCA	PILER-CR

2 spacers

The CRISPR arrays of NZ_CP011264_1

>merge|NZ_CP011264|1|908278-908414|PILER-CR
GATAGATATTATCAAAATGATAACAAAAATAACAATTATCATAATCAGTACTATGATAATAGATATGATCAAAATCAATATAGTGATTATGATGATGACAGATATTATGATCAAGATTATAGATATGATCAAAATTA

>NZ_CP011264|1|1|908278-908414|PILER-CR
GATAGATATTATCAAAATGATAA	CAAAAATAACAATTATCATAATCAGTACTATGAT
AATAGATATGATCAAAATCAATA	TAGTGATTATGATGATGACAGATATTATGATCAAGAT
TATAGATATGATCAAAATTA

Protein	Signature genes	Signature genes Name	Protein_function
NZ_CP011264.1\|WP_060954708.1\|902780_903686_-\|carbamate-kinase	unknown	unknown	gnl\|CDD\|237071
NZ_CP011264.1\|WP_011167029.1\|898701_899676_+\|serine-hydrolase	unknown	unknown	gnl\|CDD\|365903
NZ_CP011264.1\|WP_015545272.1\|913923_915501_-\|F0F1-ATP-synthase-subunit-alpha	unknown	unknown	gnl\|CDD\|236448
NZ_CP011264.1\|WP_080512646.1\|909446_911048_-\|IS1634-like-element-IS1634-family-transposase	unknown	unknown	gnl\|CDD\|227708
NZ_CP011264.1\|WP_060954707.1\|896106_896358_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP011264.1\|WP_011167042.1\|916059_916605_-\|F0F1-ATP-synthase-subunit-B	unknown	unknown	gnl\|CDD\|349951
NZ_CP011264.1\|WP_060954709.1\|911643_913071_-\|F0F1-ATP-synthase-subunit-beta	unknown	unknown	gnl\|CDD\|236447
NZ_CP011264.1\|WP_011167037.1\|911344_911644_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|213395
NZ_CP011264.1\|WP_011167030.1\|900076_900805_+\|ROK-family-protein	unknown	unknown	gnl\|CDD\|224851
NZ_CP011264.1\|WP_011167016.1\|896407_898438_+\|PTS-transporter-subunit-EIIC	unknown	unknown	gnl\|CDD\|182245
NZ_CP011264.1\|WP_011167020.1\|903698_904022_-\|membrane-arginine-transporter	unknown	unknown	gnl\|CDD\|224207
NZ_CP011264.1\|WP_039275770.1\|898415_898607_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP011264.1\|WP_011167045.1\|917849_918230_-\|MG406-family-protein	unknown	unknown	unknown
NZ_CP011264.1\|WP_011167044.1\|916968_917832_-\|F0F1-ATP-synthase-subunit-A	unknown	unknown	gnl\|CDD\|235617
NZ_CP011264.1\|WP_011167014.1\|893584_894067_+\|hypothetical-protein	unknown	unknown	unknown
NZ_CP011264.1\|WP_015545425.1\|899837_900074_+\|ROK-family-protein	unknown	unknown	gnl\|CDD\|273246
NZ_CP011264.1\|WP_011167013.1\|893138_893585_+\|SsrA-binding-protein-SmpB	unknown	unknown	gnl\|CDD\|235455
NZ_CP011264.1\|WP_011167041.1\|915512_916058_-\|F0F1-ATP-synthase-subunit-delta	unknown	unknown	gnl\|CDD\|184053
NZ_CP011264.1\|WP_011167043.1\|916633_916939_-\|ATP-synthase-subunit-C	unknown	unknown	gnl\|CDD\|235949
NZ_CP011264.1\|WP_015545588.1\|913079_913922_-\|F0F1-ATP-synthase-subunit-gamma	unknown	unknown	gnl\|CDD\|235535

Protein	Function_ID	Function_description	E-value
NZ_CP011264.1\|WP_060954708.1\|902780_903686_-\|carbamate-kinase	gnl\|CDD\|237071	PRK12353, PRK12353, putative amino acid kinase; Reviewed.	0
NZ_CP011264.1\|WP_011167029.1\|898701_899676_+\|serine-hydrolase	gnl\|CDD\|365903	pfam00144, Beta-lactamase, Beta-lactamase. This family appears to be distantly related to pfam00905 and PF00768 D-alanyl-D-alanine carboxypeptidase.	2.66384e-40
NZ_CP011264.1\|WP_015545272.1\|913923_915501_-\|F0F1-ATP-synthase-subunit-alpha	gnl\|CDD\|236448	PRK09281, PRK09281, F0F1 ATP synthase subunit alpha; Validated.	0
NZ_CP011264.1\|WP_080512646.1\|909446_911048_-\|IS1634-like-element-IS1634-family-transposase	gnl\|CDD\|227708	COG5421, COG5421, Transposase [DNA replication, recombination, and repair].	6.48484e-19
NZ_CP011264.1\|WP_060954709.1\|911643_913071_-\|F0F1-ATP-synthase-subunit-beta	gnl\|CDD\|236447	PRK09280, PRK09280, F0F1 ATP synthase subunit beta; Validated.	0
NZ_CP011264.1\|WP_011167042.1\|916059_916605_-\|F0F1-ATP-synthase-subunit-B	gnl\|CDD\|349951	cd06503, ATP-synt_Fo_b, F-type ATP synthase, membrane subunit b. Membrane subunit b is a component of the Fo complex of FoF1-ATP synthase. The F-type ATP synthases (FoF1-ATPase) consist of two structural domains: the F1 (assembly factor one) complex containing the soluble catalytic core, and the Fo (oligomycin sensitive factor) complex containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. F1 is composed of alpha (or A), beta (B), gamma (C), delta (D) and epsilon (E) subunits with a stoichiometry of 3:3:1:1:1, while Fo consists of the three subunits a, b, and c (1:2:10-14). An oligomeric ring of 10-14 c subunits (c-ring) make up the Fo rotor. The flux of protons through the ATPase channel (Fo) drives the rotation of the c-ring, which in turn is coupled to the rotation of the F1 complex gamma subunit rotor due to the permanent binding between the gamma and epsilon subunits of F1 and the c-ring of Fo. The F-ATP synthases are primarily found in the inner membranes of eukaryotic mitochondria, in the thylakoid membranes of chloroplasts or in the plasma membranes of bacteria. The F-ATP synthases are the primary producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). Alternatively, under conditions of low driving force, ATP synthases function as ATPases, thus generating a transmembrane proton or Na(+) gradient at the expense of energy derived from ATP hydrolysis. This group also includes F-ATP synthase that has also been found in the archaea Candidatus Methanoperedens.	1.64918e-24
NZ_CP011264.1\|WP_011167037.1\|911344_911644_-\|hypothetical-protein	gnl\|CDD\|213395	cd12152, F1-ATPase_delta, mitochondrial ATP synthase delta subunit. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta, and epsilon subunits with a stoichiometry of 3:3:1:1:1. Alpha and beta subunit form the globular catalytic moiety, a hexameric ring of alternating subunits. Gamma, delta and epsilon subunits form a stalk, connecting F1 to F0, the integral membrane proton translocating domain. In bacteria, which is lacking a eukaryotic epsilon subunit homolog, this subunit is called the epsilon subunit.	4.64566e-18
NZ_CP011264.1\|WP_011167030.1\|900076_900805_+\|ROK-family-protein	gnl\|CDD\|224851	COG1940, NagC, Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism].	6.76134e-40
NZ_CP011264.1\|WP_011167016.1\|896407_898438_+\|PTS-transporter-subunit-EIIC	gnl\|CDD\|182245	PRK10110, PRK10110, PTS maltose transporter subunit IICB.	5.84941e-80
NZ_CP011264.1\|WP_011167020.1\|903698_904022_-\|membrane-arginine-transporter	gnl\|CDD\|224207	COG1288, COG1288, Predicted membrane protein [Function unknown].	1.27544e-13
NZ_CP011264.1\|WP_011167044.1\|916968_917832_-\|F0F1-ATP-synthase-subunit-A	gnl\|CDD\|235617	PRK05815, PRK05815, F0F1 ATP synthase subunit A; Validated.	2.36833e-35
NZ_CP011264.1\|WP_011167041.1\|915512_916058_-\|F0F1-ATP-synthase-subunit-delta	gnl\|CDD\|184053	PRK13436, PRK13436, F0F1 ATP synthase subunit delta; Provisional.	9.93019e-59
NZ_CP011264.1\|WP_015545425.1\|899837_900074_+\|ROK-family-protein	gnl\|CDD\|273246	TIGR00744, Glucokinase_Glucose_kinase., ROK family protein (putative glucokinase). This model models one branch of the ROK superfamily of proteins. The three members of the seed alignment for this model all have experimental evidence for activity as glucokinase, but the set of related proteins is crowded with paralogs of different or unknown function. Proteins scoring above the trusted_cutoff will show strong similarity to at least one known glucokinase and may be designated as putative glucokinases. However, definitive identification of glucokinases should be done only with extreme caution. [Unknown function, General].	3.30657e-07
NZ_CP011264.1\|WP_011167013.1\|893138_893585_+\|SsrA-binding-protein-SmpB	gnl\|CDD\|235455	PRK05422, smpB, SsrA-binding protein SmpB.	1.94249e-65
NZ_CP011264.1\|WP_011167043.1\|916633_916939_-\|ATP-synthase-subunit-C	gnl\|CDD\|235949	PRK07159, PRK07159, F0F1 ATP synthase subunit C; Validated.	1.95577e-15
NZ_CP011264.1\|WP_015545588.1\|913079_913922_-\|F0F1-ATP-synthase-subunit-gamma	gnl\|CDD\|235535	PRK05621, PRK05621, F0F1 ATP synthase subunit gamma; Validated.	2.68007e-113

>NZ_CP011264.1|WP_011167020.1|903698_904022_-|membrane-arginine-transporter
MFIFFIPLSFLIASTSGFATAVFPLLGGVVIKNNIDILASGSITTFSFASGLVNLITPTSGIVMCSIAVARMDYAKFIKSMAPYMLILTTSSLALLLIGAAIRKTIV
>NZ_CP011264.1|WP_060954708.1|902780_903686_-|carbamate-kinase
MSKIVIAIGGNALGNSPTEQLEIVKKTAKSLVDFIVQGNDIVIVHGNGPQVGMINSAFDIANKNETKSPILDFPECGSMSQGYIGYHLQQAIDNELKQRNINKPTVALVTQTLVDKNDAAFLKPTKPIGSFLSETEAKKLAKENDWNIVEDAGRGWRRVIASPKPIDIIEKDAILQLVNNSFIVIAGGGGGIPVYLKDDKLVGIAAVIDKDFAAAKIAEIIDAESLIILTAIDKVMINYKKENQQALDQITLAQAQEYIDQNQFAPGSMLPKVQAVMSFVKKTNGKPAYIGSLEQAPTFPT
>NZ_CP011264.1|WP_011167030.1|900076_900805_+|ROK-family-protein
MAPNIENGWFNYDLKTEAEFLFKKPVYVINDVNAAALGEYRKGSGLVYKSGLFYWLGIGIGGAIICDGKLISGSHGFAGEFGHGGSNNHNLKCNCGLNNCIEKVCSATTIPNSLLTILKNKYSEFYNKHFSNIKDLDMKLLFEIYNNLNKPIELKNSLLEIYDELFNHISLLIHALDPEVVVIGGGGSLAGNNLLELFQLGVKNKLTDSYKDIVDFKLALLKNDAGMIGAAFYALEQSLKTN
>NZ_CP011264.1|WP_015545425.1|899837_900074_+|ROK-family-protein
MKKILGIDLGGTSAKVGVISQNGDLEHSFSITNPKTKIIENLYFEISKILKTLNVDENDIMLVGITAPGGLLIIIKEL
>NZ_CP011264.1|WP_011167029.1|898701_899676_+|serine-hydrolase
MEFVNIEKTINSFIDKKYFKNAAIRIAKDKKIIYSKQFGYNDQNNTILLKGDEIYQAYSMTKPITTLAALLLIDKKLISLDDDLSKYIPSFKNKNIKIWNLLTMTSGLTYSGNKSNTQLQIKKVLDDWKINNYTLEQLCDELSKVDLLFVPSTNWYYGLSLDVLSRVIEVVSNKSYRDFVKEEIFNKLNMNDSDYYLFDKKRKANVFRWTYKDDQNQLDQVENFDFLFQSIDKLPVCNLGGSGLFTTADDYLKFLNVLIDGKLEDSSQLISLDLLNQMKSDQLTKNNLKQFFNWNLNEDYSYGFGGRVRIKNHNDNNVIITSRT
>NZ_CP011264.1|WP_039275770.1|898415_898607_+|hypothetical-protein
MKKPKATRTKSTKAKSSVSKSTKSTSKSSSKLTKSTSSKAKSSSSKPKTTKAKSTSSKTKTTK
>NZ_CP011264.1|WP_011167016.1|896407_898438_+|PTS-transporter-subunit-EIIC
MFKSSFKDKLKAFAANIMPTLSKLSKAFLLPIALLPIAGVFLGVGAAIAANTPEQSTLWFIGKVMGNMGDVCFGNLPVLFCISVALAYTKDSGVAAITAVVGFLVFNGVQAPLFIAPATKTNDKVFEYSLLWYKHVSNSLTGSNMGILSLNTGVLGGIFVGAIAAKCYNKFHQTQLPTAISFFSGTKLVPIITFVAVIPLSFIFMMAWPVIGLGLNKFGQVSGTLPYGTDSLIFEIVERSLVPFGLHHVFYAPLWWTSAGGSIAEGFNTLNTQSEEVKKAFVDSYNKLHGTNHNNLKAIIDIVKAKDALWGAVGDQIISQRVIGHLNILNFTDVEKLGINLGRFQSGKFGFMLLGLPSAALAMWLAAPKENRQQVFGIYFSAAFTCFLTGITEPIEYTFLFVAPWLFYGVHMPLASIAFWATGALQTHITQTVSGGIIDYIVFGIIPFISGAMKPISAFGVLGVAVVLAPIYFCAFYFLIKLFNVKTPGRDGNAEAKLYTKADFKASKGLNVDGSKMSSSADDKEQARLAKAAAIIEYLGGEENIVDVDSCASRLRLTVVDAKKADIDGIKSLGGTTGALVKGNNIQIVYGGEQEAIKPRMQKLLEQQRHEKMMSHSEMKSEEMKSENMGMTCESNQACDKKDEACSCEKDCMCEEPNKVEEQPVSEMKVEKTKSN
>NZ_CP011264.1|WP_060954707.1|896106_896358_+|hypothetical-protein
MLLMLVVKTELIVNLGILGFGILFILLGLFLFWKQKNKNRYSFENQNRESKNAWEFVKKNFYLLVLTIGFLFIITAIITLITK
>NZ_CP011264.1|WP_011167014.1|893584_894067_+|hypothetical-protein
MIIFTQQSHIPTWAVYLILVLGFFGLIISLYGASTAFKYNKNLKNKNNYKKVLNLLSTRQAYSWTQIDNIDQQGYFLIGITLKDSDDNKNKPLITLLKITDLKTDISKFKSNINDYKNIINYLKQYNLTTKNLVFIIIEKVENLDELDKLLIEWNSLISA
>NZ_CP011264.1|WP_011167013.1|893138_893585_+|SsrA-binding-protein-SmpB
MSEHLIVKNKKAYFNYEIIQTYQAGIVLNGPEIKSIRNHDVSINEAFVLIRKKEIYILNMNVKKYQFANYIKGLEETRTRKLLLHKKEIIKILNKIKQENLTIIPVKLYFKNDYVKLEIALAKGKKLHDKRQTIKKRDTERKELKNYK
>NZ_CP011264.1|WP_080512646.1|909446_911048_-|IS1634-like-element-IS1634-family-transposase
MSIGVPRPDNKGFVYRLGYGYLHELKQYHDDPLAIIKAIIANFPLSWTKEQARTKLDEIFKEKKETKKEVLERFKGYEVVEKLFDYFNIFNDCSPTKSTTLKDVVLQLIYQRIKNPISVFNTYKTAKKEKIDTHSKNSFYRSLDYIAKNKDEILRNLNAKICANTNRKIDVLWFDATTTYFETFSREGYKKPGYSKDGKFKEDQIVIGMATDENGIPLHYKIFPGNVADPNTLIPFMLEIADIYEVNSVTIIADKGMSVNRNIRFLESKNWKYIISYRMKAGSKQFKEYILDEKDYINDGGLIYKTRDIASSYNKKRINGHFRRQIISFSQKRATKDKNDRDILIQNFTKKMNKDNLVSCDDLAGSKKYRFFKPINKGAFYELDIEKIQEDQKYDGYYVYETNRTDLSVKEVINLYSKQWQIESNFKTLKGKLSLRPMYLSTWNHIVGYICLCFISLVFLNYIIYILNSKLGLTGKSKITEHKVINVIKEVKEIEVFVNKQKIETIQVYNDELQESWQTYQILLELLTKEKVT
>NZ_CP011264.1|WP_011167037.1|911344_911644_-|hypothetical-protein
MGIKLKILTPNGTFVENKEVDIINLKTIDGDIGVLANMAPFVTALRNDTLNFKIKNTYTYIHVDQGLVVISKNQCKIITENLYLVDKQDRELPTPLKLT
>NZ_CP011264.1|WP_060954709.1|911643_913071_-|F0F1-ATP-synthase-subunit-beta
MVSKNTTDKKKNQSIGKVIQVLGPVVDVKFSENSIPKIYDALIVDNNGKKLVLEVEQNIGDEIVRTIAMGPTEGLKRGLDVINTNSPITAPTGMEVLGRMFNVLGDPIDEKPDLDVKREPIHKDAPKYEELVATTEILETGIKVIDLMIPFTKGGKVGLFGGAGVGKTILIQELINNIAKAHNGVSVFAGVGERTREGNDLYHEFIEAGVLNKTCLVFGQMNEPPGARMRVALTGLTIAEYFRDQKNMDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLSTEMGSLQERITSTKNGSITSVQAVYVPADDLTDPAPATTFTHLDARIVLDRSIASLGIYPAVDPLASSSRVLDPEIVGQEHYDIALRVQIALQKYQDLQSIIAILGMDELSEEDKLIVQRARKIRNFLSQSFFVGEKFTGRPGVFVKVNDTVRSFKSILDGEVDYIPETYFLYSSIIDDVIEKYNKDKDK
>NZ_CP011264.1|WP_015545588.1|913079_913922_-|F0F1-ATP-synthase-subunit-gamma
MPNLKGLKTEILSVKNISRITNAMQLVASAKLRKISKKVIDTHNYVSEVYSLFNDIISQVDKSVFLKDSNFETKKTLWIVINSNLGLCGGYNSNVNKLVLQNLKTNDEIFAIGSKAVSFFRSKKIKIKDQVTNIDINFTNEKAKIISNDLLAMYINREFDEIKIVYTKFINNVTFEPAIIRIFPIVKSELHFTHKQKIIFEPDADQILNNTISIYINAIIYGTVIESQVSEQASRRTAMENATNNGQNLEHELSLKYNRQRQGAITQEISEIVSGANAQS
>NZ_CP011264.1|WP_015545272.1|913923_915501_-|F0F1-ATP-synthase-subunit-alpha
MSFNIKEISEMIEEQIRNYNKEIVQTEQGTVVSVGDGIALIYGLDNAIMGEFLKFPNNVYGMVLNLEESAVGAVILGDETLIREGDIVKRTNKVVETPVGDALLGRVINALSKPIDNLGPINFTKTRPIERVATSVMARRSVSQPLETGILAIDSAIPIGKGQRELIIGDRQTGKTAIAIDAIINQKNKNVKCIYVAIGQKDSTIVQVVEKLKKYGAMEYTVVVNAGASQPAPLQYLSPYVGVTIAEEWMENGNDVLIIYDDLSKHAVSYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAARVNENYGGGSITALPIIETQAGDISAYIPTNVISITDGQIFLSSELFNQGVRPAVDIGPSVSRVGSAAQIKSIKQVSGTLKLELAQYYELELFAKFGSDLDEATKATLDQGAKIIQMLIQKQHNPLEQVDQAILLLTIKSHLIKWLPVESIYNFKHEILSHFKNDKHAFELRKKLDEQKTFDDQLQQQILKEAQKVVLKITKNINEYKPGTFGNISEYQNLGK
>NZ_CP011264.1|WP_011167041.1|915512_916058_-|F0F1-ATP-synthase-subunit-delta
MILKETTINNYATALFNIAVKEKLVDDYIIQVDALIKSLADKDEFNKLVTYSNKEQKKQAILIIENTFSSFGFDIYLINALKILVENQLFINTRMILKVLYKKLLAYKNIVLGEVYSTEKLTKTQLNAIKKKISNKVNKKVELVNKIDPTLIGGIKVSVEDKVFDGSIKAKLEALKKQMNT
>NZ_CP011264.1|WP_011167042.1|916059_916605_-|F0F1-ATP-synthase-subunit-B
MLFQGFNVVINATTQGVPKIVESLFPNLPNFIAHLLATIILVIVLTKLVYKPYKQMIEKQTQKITEVLSDAIEKQTQANIKIKQANTLLEDAKTESVSILKTARIDAEIQKNKIIDNANLQAKNIQSYAQNSIKQEKIKAQLEIKNTIVNLAINSAEKILNKEIDKNTNKQLIEEFIKELD
>NZ_CP011264.1|WP_011167043.1|916633_916939_-|ATP-synthase-subunit-C
MLHTAFISNILANYLGAMSIILPNILTVSGDIKYIGAGLASVGILGTGVGQGLIGQGACLAIGRNPEMASKVTSTMIVSAGISESGAIYSLVIAILLIFVV
>NZ_CP011264.1|WP_011167044.1|916968_917832_-|F0F1-ATP-synthase-subunit-A
MKLVTFASIKDNLATWNKFNGILITILLVVIIVCIISIIYNKKIRNYNIDDKMPGFLVLVNVFVASVENIVVSILGKKYQKLTPYIMYLFAYIFIGCLLSILGLEAQGTSFTVTLSMGMVTFIMIYYFGIKYQKLAFFKRFRNPVELFTQFTPLISISFRLFGNLIGGSIILGLLYGLLIGFQLSWGVNNIQVDGMTRWASYAIWNPELVENGYLKQYEYWWAGLNLFTTPIMPFLHMYFDLFSGVIQSTVFAMLTLSYWSAQIDDNEKRADLIDQVKEEITNKYQS
>NZ_CP011264.1|WP_011167045.1|917849_918230_-|MG406-family-protein
MLKQTFLDKQLKKALIFNTIWWLILIIIFIVFSVIKTLNWINLISLVIAYFCSYIAIFLLFLTKLLIIKYQNPYLIYLMFLLRIGIYVIPLFIALLLSDENIFSYLGILIGYSSNLVIPFFIHKRL

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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_CP011264_1	1.1\|908301\|34\|NZ_CP011264\|PILER-CR	908301-908334	34	KX550065	Streptococcus phage SpGS-1, complete genome	1780-1813	7	0.794
NZ_CP011264_1	1.1\|908301\|34\|NZ_CP011264\|PILER-CR	908301-908334	34	KT337348	Streptococcus phage phiARI0378, partial genome	35768-35801	7	0.794
NZ_CP011264_1	1.1\|908301\|34\|NZ_CP011264\|PILER-CR	908301-908334	34	KY065487	Streptococcus phage IPP48, complete genome	1573-1606	7	0.794
NZ_CP011264_1	1.1\|908301\|34\|NZ_CP011264\|PILER-CR	908301-908334	34	AJ400629	Streptococcus pneumoniae bacteriophage MM1 attachment site attP	78-111	7	0.794
NZ_CP011264_1	1.1\|908301\|34\|NZ_CP011264\|PILER-CR	908301-908334	34	KT337358	Streptococcus phage phiARI0468-4, complete genome	35716-35749	7	0.794
NZ_CP011264_1	1.1\|908301\|34\|NZ_CP011264\|PILER-CR	908301-908334	34	KT337347	Streptococcus phage phiARI0285-3, partial genome	37766-37799	7	0.794
NZ_CP011264_1	1.1\|908301\|34\|NZ_CP011264\|PILER-CR	908301-908334	34	KY065491	Streptococcus phage IPP53, complete genome	1572-1605	7	0.794
NZ_CP011264_1	1.1\|908301\|34\|NZ_CP011264\|PILER-CR	908301-908334	34	DQ113772	Streptococcus pneumoniae bacteriophage MM1 1998, complete genome	1660-1693	7	0.794
NZ_CP011264_1	1.1\|908301\|34\|NZ_CP011264\|PILER-CR	908301-908334	34	AJ302074	Streptococcus pneumoniae bacteriophage MM1 complete genome	1660-1693	7	0.794
NZ_CP011264_1	1.1\|908301\|34\|NZ_CP011264\|PILER-CR	908301-908334	34	NC_022791	Streptococcus phage phiBHN167 complete genome	30134-30167	7	0.794
NZ_CP011264_1	1.1\|908301\|34\|NZ_CP011264\|PILER-CR	908301-908334	34	NZ_CP009064	Borreliella afzelii K78 plasmid lp28-3, complete sequence	3129-3162	10	0.706

1. spacer 1.1|908301|34|NZ_CP011264|PILER-CR matches to KX550065 (Streptococcus phage SpGS-1, complete genome) position: , mismatch: 7, identity: 0.794

taacaaaaataacaattatcataatcagtactat	CRISPR spacer
caacaaaaataacaattatgataatagcaattat	Protospacer
.****************** ***** .  *.***

2. spacer 1.1|908301|34|NZ_CP011264|PILER-CR matches to KT337348 (Streptococcus phage phiARI0378, partial genome) position: , mismatch: 7, identity: 0.794

taacaaaaataacaattatcataatcagtactat	CRISPR spacer
caacaaaaataacaattatgataatagcaattat	Protospacer
.****************** ***** .  *.***

3. spacer 1.1|908301|34|NZ_CP011264|PILER-CR matches to KY065487 (Streptococcus phage IPP48, complete genome) position: , mismatch: 7, identity: 0.794

taacaaaaataacaattatcataatcagtactat	CRISPR spacer
caacaaaaataacaattatgataatagcaattat	Protospacer
.****************** ***** .  *.***

4. spacer 1.1|908301|34|NZ_CP011264|PILER-CR matches to AJ400629 (Streptococcus pneumoniae bacteriophage MM1 attachment site attP) position: , mismatch: 7, identity: 0.794

taacaaaaataacaattatcataatcagtactat	CRISPR spacer
caacaaaaataacaattatgataatagcaattat	Protospacer
.****************** ***** .  *.***

5. spacer 1.1|908301|34|NZ_CP011264|PILER-CR matches to KT337358 (Streptococcus phage phiARI0468-4, complete genome) position: , mismatch: 7, identity: 0.794

taacaaaaataacaattatcataatcagtactat	CRISPR spacer
caacaaaaataacaattatgataatagcaattat	Protospacer
.****************** ***** .  *.***

6. spacer 1.1|908301|34|NZ_CP011264|PILER-CR matches to KT337347 (Streptococcus phage phiARI0285-3, partial genome) position: , mismatch: 7, identity: 0.794

taacaaaaataacaattatcataatcagtactat	CRISPR spacer
caacaaaaataacaattatgataatagcaattat	Protospacer
.****************** ***** .  *.***

7. spacer 1.1|908301|34|NZ_CP011264|PILER-CR matches to KY065491 (Streptococcus phage IPP53, complete genome) position: , mismatch: 7, identity: 0.794

taacaaaaataacaattatcataatcagtactat	CRISPR spacer
caacaaaaataacaattatgataatagcaattat	Protospacer
.****************** ***** .  *.***

8. spacer 1.1|908301|34|NZ_CP011264|PILER-CR matches to DQ113772 (Streptococcus pneumoniae bacteriophage MM1 1998, complete genome) position: , mismatch: 7, identity: 0.794

taacaaaaataacaattatcataatcagtactat	CRISPR spacer
caacaaaaataacaattatgataatagcaattat	Protospacer
.****************** ***** .  *.***

9. spacer 1.1|908301|34|NZ_CP011264|PILER-CR matches to AJ302074 (Streptococcus pneumoniae bacteriophage MM1 complete genome) position: , mismatch: 7, identity: 0.794

taacaaaaataacaattatcataatcagtactat	CRISPR spacer
caacaaaaataacaattatgataatagcaattat	Protospacer
.****************** ***** .  *.***

10. spacer 1.1|908301|34|NZ_CP011264|PILER-CR matches to NC_022791 (Streptococcus phage phiBHN167 complete genome) position: , mismatch: 7, identity: 0.794

taacaaaaataacaattatcataatcagtactat	CRISPR spacer
caacaaaaataacaattatgataatagcaattat	Protospacer
.****************** ***** .  *.***

11. spacer 1.1|908301|34|NZ_CP011264|PILER-CR matches to NZ_CP009064 (Borreliella afzelii K78 plasmid lp28-3, complete sequence) position: , mismatch: 10, identity: 0.706

taacaaaaataacaattatcataatcagtactat	CRISPR spacer
aaacaagactaacaattatcataatataaaaaac	Protospacer
 *****.* ****************  . *  *.

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

882448 : 893585

Bacillus_phage(25.0%)

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_015545429.1\|882448_883747_-	adenylosuccinate lyase	A0A1B3B081	Gordonia_phage	5.5e-17	30.2
WP_011167008.1\|883739_885038_-	adenylosuccinate synthase	L7Y4J5	Megavirus	2.1e-56	34.4
WP_139552595.1\|885232_886643_+\|transposase	IS3 family transposase	A0A1B1P773	Bacillus_phage	2.7e-65	48.5
WP_015545587.1\|886742_888905_-	class 1b ribonucleoside-diphosphate reductase subunit alpha	V9VI16	Lactococcus_phage	1.2e-162	44.3
WP_011167010.1\|888891_889365_-	class Ib ribonucleoside-diphosphate reductase assembly flavoprotein NrdI	R4JF54	Bacillus_phage	7.9e-14	35.0
WP_011167011.1\|889373_890393_-	class 1b ribonucleoside-diphosphate reductase subunit beta	B5LJM6	Mycobacterium_phage	1.9e-97	53.7
WP_013729883.1\|890694_890979_+	preprotein translocase subunit SecG	NA	NA	NA	NA
WP_011167012.1\|891014_893129_+	ribonuclease R	Q0GXV6	Lactococcus_phage	1.9e-59	32.2
WP_011167013.1\|893138_893585_+	SsrA-binding protein SmpB	W5RAM5	Staphylococcus_phage	4.1e-20	37.8

DBSCAN-SWA_2

948146 : 1033525

Hokovirus(27.27%)

tRNA,transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_080512646.1\|948146_949748_-\|transposase	IS1634-like element IS1634 family transposase	NA	NA	NA	NA
WP_011167072.1\|950112_951315_+	hypothetical protein	NA	NA	NA	NA
WP_011167073.1\|951301_952132_+	membrane protein	NA	NA	NA	NA
WP_060954751.1\|952133_953021_+	hypothetical protein	NA	NA	NA	NA
WP_162465411.1\|953378_953600_+	ABC transporter permease	NA	NA	NA	NA
WP_060954715.1\|953601_954306_+	ABC transporter ATP-binding protein	A0A2H4PQG7	Staphylococcus_phage	3.8e-20	32.7
WP_011167077.1\|954283_954658_+	hypothetical protein	NA	NA	NA	NA
WP_015545264.1\|955417_955639_+	hypothetical protein	NA	NA	NA	NA
WP_080512646.1\|955893_957495_+\|transposase	IS1634-like element IS1634 family transposase	NA	NA	NA	NA
WP_011167080.1\|958264_960196_-	type I DNA topoisomerase	A0A1V0SCS0	Indivirus	5.3e-64	31.1
WP_015545649.1\|960382_961198_+	MurR/RpiR family transcriptional regulator	NA	NA	NA	NA
WP_080512665.1\|961237_961594_-	DUF2326 domain-containing protein	NA	NA	NA	NA
WP_045610429.1\|961590_961803_-	hypothetical protein	NA	NA	NA	NA
WP_011167084.1\|964054_964984_-	DNA-binding protein WhiA	NA	NA	NA	NA
WP_011167087.1\|966435_967368_-	thioredoxin-disulfide reductase	G3MA85	Bacillus_virus	3.5e-66	47.1
WP_011167088.1\|967351_968932_-	diacylglyceryl transferase	NA	NA	NA	NA
WP_060954718.1\|968942_969884_-	HPr kinase/phosphorylase	NA	NA	NA	NA
WP_015545603.1\|969962_970637_-	folate family ECF transporter S component	NA	NA	NA	NA
WP_011167091.1\|970664_971774_-	dihydrofolate synthase	NA	NA	NA	NA
WP_060954719.1\|971766_974607_-	excinuclease ABC subunit UvrA	A0A1B1IVR3	uncultured_Mediterranean_phage	3.7e-268	52.7
WP_015545642.1\|974615_976613_-	excinuclease ABC subunit UvrB	NA	NA	NA	NA
WP_015545650.1\|976899_977850_+	DNA polymerase III subunit delta	NA	NA	NA	NA
WP_060954720.1\|977852_979322_+	hypothetical protein	NA	NA	NA	NA
WP_060954721.1\|981183_981981_+	TatD family hydrolase	NA	NA	NA	NA
WP_011167097.1\|982034_982238_+	hypothetical protein	NA	NA	NA	NA
WP_080512672.1\|982251_982491_-	hypothetical protein	NA	NA	NA	NA
WP_011167098.1\|982487_983426_-	hypothetical protein	NA	NA	NA	NA
WP_015545575.1\|985424_986459_+	ribose-phosphate diphosphokinase	V5KSY5	Escherichia_phage	2.1e-19	32.3
WP_011167103.1\|986879_987440_+\|tRNA	aminoacyl-tRNA hydrolase	NA	NA	NA	NA
WP_015545494.1\|987560_988022_+	50S ribosomal protein L9	NA	NA	NA	NA
WP_060954722.1\|988006_989323_+	replicative DNA helicase	A0A1P8VVQ6	Streptococcus_phage	1.0e-71	38.3
WP_011167106.1\|989389_990691_+	hypothetical protein	NA	NA	NA	NA
WP_060954723.1\|990833_991760_+	hypothetical protein	NA	NA	NA	NA
WP_011167108.1\|991768_993094_+\|tRNA	cysteine--tRNA ligase	M1PG92	Moumouvirus	1.9e-52	34.6
WP_011167109.1\|993095_993830_+	23S rRNA (guanosine(2251)-2'-O)-methyltransferase RlmB	NA	NA	NA	NA
WP_013729926.1\|993890_994052_+	50S ribosomal protein L33	NA	NA	NA	NA
WP_060954724.1\|994051_994375_+	preprotein translocase subunit SecE	NA	NA	NA	NA
WP_015545656.1\|994391_995033_+	transcription termination/antitermination protein NusG	NA	NA	NA	NA
WP_060954725.1\|995472_1001391_+	PDxFFG protein	NA	NA	NA	NA
WP_011167113.1\|1001400_1004358_+	ABC transporter substrate-binding protein	NA	NA	NA	NA
WP_011167114.1\|1004357_1005431_+	ABC transporter permease	NA	NA	NA	NA
WP_011167115.1\|1005432_1006443_+	ABC transporter permease	NA	NA	NA	NA
WP_015545361.1\|1006450_1007896_+	ABC transporter ATP-binding protein	G3M9Y6	Bacillus_virus	1.4e-13	29.7
WP_080512646.1\|1009351_1010953_-\|transposase	IS1634-like element IS1634 family transposase	NA	NA	NA	NA
WP_080512674.1\|1011155_1011419_-	hypothetical protein	NA	NA	NA	NA
WP_060954726.1\|1011415_1012342_-	UDP-galactopyranose mutase	NA	NA	NA	NA
WP_011167120.1\|1012354_1013359_-	UDP-glucose 4-epimerase GalE	A0A1V0SG19	Hokovirus	1.2e-48	35.2
WP_060954727.1\|1015061_1015862_-	hypothetical protein	NA	NA	NA	NA
WP_080512646.1\|1017084_1018686_-\|transposase	IS1634-like element IS1634 family transposase	NA	NA	NA	NA
WP_080512674.1\|1018888_1019152_-	hypothetical protein	NA	NA	NA	NA
WP_060954726.1\|1019148_1020075_-	UDP-galactopyranose mutase	NA	NA	NA	NA
WP_011167120.1\|1020087_1021092_-	UDP-glucose 4-epimerase GalE	A0A1V0SG19	Hokovirus	1.2e-48	35.2
WP_080512646.1\|1022872_1024474_-\|transposase	IS1634-like element IS1634 family transposase	NA	NA	NA	NA
WP_060954728.1\|1024700_1025501_-	hypothetical protein	NA	NA	NA	NA
WP_080512674.1\|1026633_1026897_-	hypothetical protein	NA	NA	NA	NA
WP_060954726.1\|1026893_1027820_-	UDP-galactopyranose mutase	NA	NA	NA	NA
WP_011167120.1\|1027832_1028837_-	UDP-glucose 4-epimerase GalE	A0A1V0SG19	Hokovirus	1.2e-48	35.2
WP_060954729.1\|1030539_1031454_-	glycosyltransferase family 2 protein	NA	NA	NA	NA
WP_080512646.1\|1031923_1033525_-\|transposase	IS1634-like element IS1634 family transposase	NA	NA	NA	NA

Anti-CRISPR protein detection

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