CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Target MGE spacer number	Prophage number
NC_007794	Novosphingobium aromaticivorans DSM 12444, complete genome	1 crisprs	WYL,csa3,RT,DinG	0	3
NC_009426	Novosphingobium aromaticivorans DSM 12444 plasmid pNL1, complete sequence	0 crisprs	RT	0	0
NC_009427	Novosphingobium aromaticivorans DSM 12444 plasmid pNL2, complete sequence	1 crisprs	NA	2	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_007794_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_007794_1

985306-985405

Orphan

Consensus_repeat	Method
GGTGCGCTGCTCGGCCGCGAGGTCG	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_007794_1

>merge|NC_007794|1|985306-985405|CRISPRCasFinder
GGTGCGCTGCTCGGCCGCGAGGTCGCTGGCGATTACGGTGACCGTACCCTCGGCGCGATCCTGGGCGCCGCCGGTGGCGCGCTGCTCGGCCGCGAGGTCG

>NC_007794|1|1|985306-985405|CRISPRCasFinder
GGTGCGCTGCTCGGCCGCGAGGTCG	CTGGCGATTACGGTGACCGTACCCTCGGCGCGATCCTGGGCGCCGCCGGT
GGCGCGCTGCTCGGCCGCGAGGTCG

Protein	Signature genes	Signature genes Name	Protein_function
NC_007794.1\|WP_157042419.1\|994579_994792_+\|hypothetical-protein	unknown	unknown	unknown
NC_007794.1\|WP_011444593.1\|982011_982758_-\|folate-binding-protein-YgfZ	unknown	unknown	gnl\|CDD\|223431
NC_007794.1\|WP_143004776.1\|978280_978814_-\|hypothetical-protein	unknown	unknown	unknown
NC_007794.1\|WP_011444592.1\|981437_982028_+\|TetR/AcrR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|366102
NC_007794.1\|WP_011444600.1\|988796_989651_+\|alpha/beta-hydrolase	unknown	unknown	gnl\|CDD\|223669
NC_007794.1\|WP_011444598.1\|985780_987196_-\|succinylglutamate-semialdehyde-dehydrogenase	unknown	unknown	gnl\|CDD\|181873
NC_007794.1\|WP_011444604.1\|993109_994444_+\|protein-S-isoprenylcysteine-methyltransferase	unknown	unknown	gnl\|CDD\|367837
NC_007794.1\|WP_011444591.1\|980515_981400_-\|metal-dependent-hydrolase	unknown	unknown	gnl\|CDD\|378401
NC_007794.1\|WP_011444590.1\|979897_980467_+\|GNAT-family-N-acetyltransferase	unknown	unknown	gnl\|CDD\|379112
NC_007794.1\|WP_011444601.1\|989647_990808_+\|glycosyltransferase-family-4-protein	unknown	unknown	gnl\|CDD\|340831
NC_007794.1\|WP_011444599.1\|987314_988724_-\|YdiU-family-protein	unknown	unknown	gnl\|CDD\|234583
NC_007794.1\|WP_011444586.1\|977816_978263_+\|molybdenum-cofactor-biosynthesis-protein-MoaE	unknown	unknown	gnl\|CDD\|238385
NC_007794.1\|WP_011444597.1\|985556_985784_+\|hypothetical-protein	unknown	unknown	unknown
NC_007794.1\|WP_011444594.1\|982796_983837_+\|dihydroorotase	unknown	unknown	gnl\|CDD\|235474
NC_007794.1\|WP_011444589.1\|979394_979664_+\|50S-ribosomal-protein-L27	unknown	unknown	gnl\|CDD\|235464
NC_007794.1\|WP_041550147.1\|994817_995099_+\|hypothetical-protein	unknown	unknown	unknown
NC_007794.1\|WP_011444595.1\|983840_984728_-\|EamA-family-transporter-RarD	unknown	unknown	gnl\|CDD\|225510
NC_007794.1\|WP_011444602.1\|990937_991699_+\|tetratricopeptide-repeat-protein	unknown	unknown	gnl\|CDD\|226996
NC_007794.1\|WP_011444588.1\|979071_979368_+\|50S-ribosomal-protein-L21	unknown	unknown	gnl\|CDD\|235510
NC_007794.1\|WP_011444603.1\|991720_993067_+\|PQQ-binding-like-beta-propeller-repeat-protein	unknown	unknown	gnl\|CDD\|274511

Protein	Function_ID	Function_description	E-value
NC_007794.1\|WP_011444593.1\|982011_982758_-\|folate-binding-protein-YgfZ	gnl\|CDD\|223431	COG0354, COG0354, Predicted aminomethyltransferase related to GcvT [General function prediction only].	1.45535e-41
NC_007794.1\|WP_011444592.1\|981437_982028_+\|TetR/AcrR-family-transcriptional-regulator	gnl\|CDD\|366102	pfam00440, TetR_N, Bacterial regulatory proteins, tetR family.	0.000188369
NC_007794.1\|WP_011444600.1\|988796_989651_+\|alpha/beta-hydrolase	gnl\|CDD\|223669	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only].	5.09003e-21
NC_007794.1\|WP_011444598.1\|985780_987196_-\|succinylglutamate-semialdehyde-dehydrogenase	gnl\|CDD\|181873	PRK09457, astD, succinylglutamic semialdehyde dehydrogenase; Reviewed.	0
NC_007794.1\|WP_011444604.1\|993109_994444_+\|protein-S-isoprenylcysteine-methyltransferase	gnl\|CDD\|367837	pfam04140, ICMT, Isoprenylcysteine carboxyl methyltransferase (ICMT) family. The isoprenylcysteine o-methyltransferase (EC:2.1.1.100) family carry out carboxyl methylation of cleaved eukaryotic proteins that terminate in a CaaX motif. In Saccharomyces cerevisiae this methylation is carried out by Ste14p, an integral endoplasmic reticulum membrane protein. Ste14p is the founding member of the isoprenylcysteine carboxyl methyltransferase (ICMT) family, whose members share significant sequence homology.	0.000568722
NC_007794.1\|WP_011444591.1\|980515_981400_-\|metal-dependent-hydrolase	gnl\|CDD\|378401	pfam10118, Metal_hydrol, Predicted metal-dependent hydrolase. Members of this family of proteins comprise various bacterial transition metal-dependent hydrolases.	1.08375e-90
NC_007794.1\|WP_011444590.1\|979897_980467_+\|GNAT-family-N-acetyltransferase	gnl\|CDD\|379112	pfam13302, Acetyltransf_3, Acetyltransferase (GNAT) domain. This domain catalyzes N-acetyltransferase reactions.	1.02451e-27
NC_007794.1\|WP_011444601.1\|989647_990808_+\|glycosyltransferase-family-4-protein	gnl\|CDD\|340831	cd03801, GT4_PimA-like, phosphatidyl-myo-inositol mannosyltransferase. This family is most closely related to the GT4 family of glycosyltransferases and named after PimA in Propionibacterium freudenreichii, which is involved in the biosynthesis of phosphatidyl-myo-inositol mannosides (PIM) which are early precursors in the biosynthesis of lipomannans (LM) and lipoarabinomannans (LAM), and catalyzes the addition of a mannosyl residue from GDP-D-mannose (GDP-Man) to the position 2 of the carrier lipid phosphatidyl-myo-inositol (PI) to generate a phosphatidyl-myo-inositol bearing an alpha-1,2-linked mannose residue (PIM1). Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homology. The large cleft that separates the two domains includes the catalytic center and permits a high degree of flexibility. The members of this family are found mainly in certain bacteria and archaea.	7.37143e-45
NC_007794.1\|WP_011444599.1\|987314_988724_-\|YdiU-family-protein	gnl\|CDD\|234583	PRK00029, PRK00029, YdiU family protein.	0
NC_007794.1\|WP_011444586.1\|977816_978263_+\|molybdenum-cofactor-biosynthesis-protein-MoaE	gnl\|CDD\|238385	cd00756, MoaE, MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), which carries the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase in the second major step in Moco biosynthesis. MPT synthase is a heterotetramer consisting of two large (MoaE) and two small (MoaD) subunits.	4.16468e-46
NC_007794.1\|WP_011444594.1\|982796_983837_+\|dihydroorotase	gnl\|CDD\|235474	PRK05451, PRK05451, dihydroorotase; Provisional.	0
NC_007794.1\|WP_011444589.1\|979394_979664_+\|50S-ribosomal-protein-L27	gnl\|CDD\|235464	PRK05435, rpmA, 50S ribosomal protein L27; Validated.	5.15868e-50
NC_007794.1\|WP_011444595.1\|983840_984728_-\|EamA-family-transporter-RarD	gnl\|CDD\|225510	COG2962, RarD, Predicted permeases [General function prediction only].	2.63556e-83
NC_007794.1\|WP_011444602.1\|990937_991699_+\|tetratricopeptide-repeat-protein	gnl\|CDD\|226996	COG4649, COG4649, Uncharacterized protein conserved in bacteria [Function unknown].	7.29908e-31
NC_007794.1\|WP_011444588.1\|979071_979368_+\|50S-ribosomal-protein-L21	gnl\|CDD\|235510	PRK05573, rplU, 50S ribosomal protein L21; Validated.	1.02588e-43
NC_007794.1\|WP_011444603.1\|991720_993067_+\|PQQ-binding-like-beta-propeller-repeat-protein	gnl\|CDD\|274511	TIGR03300, assembly_YfgL, outer membrane assembly lipoprotein YfgL. Members of this protein family are YfgL, a lipoprotein component of a complex that acts protein insertion into the bacterial outer membrane. Other members of this complex are NlpB, YfiO, and YaeT. This protein contains multiple copies of a repeat that, in other contexts, are associated with binding of the coenzyme PQQ. [Protein fate, Protein and peptide secretion and trafficking].	1.95415e-62

>NC_007794.1|WP_011444595.1|983840_984728_-|EamA-family-transporter-RarD
MNHSSTFRRGLTAAVAAYVAWGLLPLYFRALHDVPPVELIGWRILFTLPVCLVIVAARRQGPDVRAAFANPRVLLQLAISAALIGANWLIFVIAINEGHVLATSLGYYINPLINVLLGTMLLGERLSRVQWTAVGLAGAGIALLLAGALDTLIVAMSLALTFAFYGYVRKKAPVGSVPGLTVETALLALPALVVVWIWAGSPAGSSMAPGSPSALLLAFSGVATAIPLLLFAVAARALPLSTLGFVQFIAPTISFTLGLTVFGESLDPARLGCFALIWSAIALYSWDMLRRARSA
>NC_007794.1|WP_011444594.1|982796_983837_+|dihydroorotase
MTETLTIRRPDDWHVHLRDRDVLRGVVPYTARQFARAIVMPNLSPPMTDVAGVAAYRDRILAALPQGSAFTPLMTLYLTDSTDIEEVARGFAEGVFVAAKLYPAHATTGSAHGVTDIRNIYPVLEKMQEIGMPLLIHGEVTDSHVDIFDREAVFIERTLTRLVADMPALRIVFEHITTEEAAQFVEGAGDSIAATITPQHLHINRNAMLVGGIRPHAFCLPVAKREKHRLALRKLATSGFSRVFLGTDTAPHAKHLKEAACGCAGIFNAPFALESYVTVFDEEGALDRFEAFASLNGPAFYRMPVNEDRIVLERAPIEVPEVIDCNGTAIVPFHAGETLGWRIAAA
>NC_007794.1|WP_011444593.1|982011_982758_-|folate-binding-protein-YgfZ
MNHVPGTRLFDRALVRLAPEDPAEDVAAFLQGLVTNDVKGVLPVWTALLTPQGKVLFDFIVWPDGKGLLLECEASAADALAKRLTLYRLRRKIAISRADDLAAHWEDHPGDGGASDPRLRALGQRWIAPVSDNDVGVDMAYREHRLKLGVPEGRAELGDGEVLWLECNAADLNGVSFTKGCYVGQENTARMNWRQKVNRRLIVVPLEQSDPARQRIAYPELGLAVDHRRVEDIPPALAPSWMDLSPPD
>NC_007794.1|WP_011444592.1|981437_982028_+|TetR/AcrR-family-transcriptional-regulator
MSIRKRLSPEESRMAALEAARGLLVETGPQAVTLKAVAGRIGRTHANLLHHFGSAAGLQKALAKHLAETICATIREAVIASRSGIGSPRDVVDLTFDAFDKEGAGALASWMLLSGNEDALDPIVDTIHDLVIDLDEYGSDTQRSTTLALTLMALGDALMGGPLSQALELPRDAARDRAEQMLVESMLRRDEVSPEG
>NC_007794.1|WP_011444591.1|980515_981400_-|metal-dependent-hydrolase
MTPTLALERSAASGKVAPTPADLSITVRDRRFGRNSPPGRWWLAGDPVATAWHNALSATFPRGEAFFIEAVKAHREGASPKLEAEIRAFVKQEINHTREHIAFNRAAENAGYDIARIDKRVEEMLALTKDRPVILNLAATMALEHYTAMMAHEFLANPAHFAGAEQEAADMWRWHAIEEIEHKGVAYDTWLHATRDWSRWKRWKVKSLMMVVVTKNFITHRVEDTLDLLAQDGLTGAKWKWRLAAYLLWKPGVIRRILPAWLGYFLPGFHPWKHDDRALIGKADSEFTDAVMPG
>NC_007794.1|WP_011444590.1|979897_980467_+|GNAT-family-N-acetyltransferase
MFMRSERLFLRPGWPEDWAELHALIDDEAVVRNLARAPWPYAPEDAKAFVGAQHGGRHPQLFVTLPGAHGSRLIGCVGLFDDRGEAQLGYWIARAHWGRGYATEAVRSLLSLARTLGHRRVMACHFVDNPASGRVMEKTGFRPTGEIRLGRSAARLQPAATVVHAIDLVPPVDCDGPEDGGFEPMRRAA
>NC_007794.1|WP_011444589.1|979394_979664_+|50S-ribosomal-protein-L27
MAHKKAGGSSRNGRDSAGRRLGVKKFGGQEVVGGNIIIRQRGTRVYPGANVGMGKDHTLFALAEGRVRFHAGKLGRKYVSVDMMAEAAE
>NC_007794.1|WP_011444588.1|979071_979368_+|50S-ribosomal-protein-L21
MFAIVRTGGKQYRVAAGDKIAVEKLAGEAGDKITLGEVLLAGEGDSLADAAKVTVSAEIIAQAKSEKVIVFKKRRRHNYRRRNGHRQQMTLLRIVSVA
>NC_007794.1|WP_143004776.1|978280_978814_-|hypothetical-protein
MVKRIIRIALVAATLAPALLAGGCADRDKFPSLARRSAEDAYRAAQLPAPVPAPSQEMTAGLTARLAALRASAREAHAGFESKRGAATRAVGAAAGAAMGTEAWSVASVALAELESARARAGLPLAELDRLEADASNRAAGGAPADLEAVHAARVEVESLVDTETKVIDGLLSQLRG
>NC_007794.1|WP_011444586.1|977816_978263_+|molybdenum-cofactor-biosynthesis-protein-MoaE
MARVRLALDAFEPADEIAAFNALHPAAGGIVTFLGQVREGGGVEALELQHYAPMTLPGMEELARVAERRWPLEGLLIVHRSGVMKPRDPIVLVCAAARHRRDAFAAADYVMDHLKSESWFWKREKTAAGWHWVEPRAQDHDDLSRWRA
>NC_007794.1|WP_011444597.1|985556_985784_+|hypothetical-protein
MYRLRLIVTALGLALSGCGSAPAEPEHPPLDPVMAEALQGQLMVDPDLTQQNLRNLAIMPGGPADPAAPLPDSPR
>NC_007794.1|WP_011444598.1|985780_987196_-|succinylglutamate-semialdehyde-dehydrogenase
MARAEIVSHEPATGAEVWRGKVGDVEEVVARARRAWPAWAAQPLATRIELVRRFANEVRKDADNLATMISRETGKPLWEARTEVDSVVNKVEISIRAYADRTSQRKLDSALQGTAALRHKPHGVLAVLGPYNFPAHLPNGHIVPALIAGNAVVFKPSEKTPATGEMLAQCFHRAGIPAAVVQVLIGGPEEGQALVAHDGIDGVLFTGSAHAGIAINRKLASNPGKIVALEMGGNNPIVVWDTPKIEDAATLIVQSAFTSAGQRCTAARRLIIKASMFDEVIDHVKRLADRIIVGAPFDDPAPFMGPVIDNRTADGLTESFVYLLSSGGRPIKHMVRLQEDRPFLSPAIIDVTAVADRPDVELFGPLLQVVRVDDFDEAIAEANNTRFGLSASLIGGDPQDYNRFWANIRAGVVNWNRPTNGASSAAPFGGVGLSGNHRPSAYYAADYCAYPVASTEVDQPRASIGVGLRSD
>NC_007794.1|WP_011444599.1|987314_988724_-|YdiU-family-protein
MKALPQDAIYRPSPRIMALADWIGDPVQAADFPETRLRWRNDRAAAEIGLATLDDAAWTRAFGRFEPLPDNMPGPLALRYHGHQFRVYNPELGDGRGFTFAQMLDGSDRLMDLGTKGSGQTPWSRRGDGRLTLKGAVREILATEMLGALGVNTSRTLSVIETGESLWRGDEPSPTRSAVLVRLSHGHIRIGTFQRLSVLELDDEMAQLVAYCLANFPGSAFADAPHPAVRFYNQVIERMADMAASYMVAGFVHGVLNSDNMNVTGESFDYGPWRWLPTWDPGFTAAYFDHAGLYAFGRQPEAIHWNCGQLAVALRSLVEAPPLVEALNRFPDLYQQAMARRWCWRLGVEPRGIEQDTALIGACEKVMVSEKLGPDAFFFTHRGGRGPFADSSDGAALREMVALYEASPDDHPYWSDEAPQSLLIDEVEAIWEPIATGDDWSALHAKVAALRRMGEALGPRPEPWGHATA
>NC_007794.1|WP_011444600.1|988796_989651_+|alpha/beta-hydrolase
MAEYEDRYWTSSDGLRLHFRAYEGDISRPPVLCLPGLTRNARDFEDLATRLAGDWRVLCPEMRGRGDSDYAKDPMTYQPMQYLQDLEALLAQEGIERFVAIGTSLGGLLTMLLAAANPARIAAAVLNDVGPEVSPEGLERIRGYVGQGRNFETWMHAARALQESSGDVYPDWDITQWLRYAKRIMVLGSSGRIAFDYDMKIAEPFEAPAGATPQVDMWPLFDALATRPLLVLRGETSDILSAQTAAKMASRPGVELVTLPRIGHAPTLDEPESIAAIGRLLERV
>NC_007794.1|WP_011444601.1|989647_990808_+|glycosyltransferase-family-4-protein
MSKAAPLRILHLHSTFDAGGKERRAVALMNRWARQGGARAIEHHIVSAQPGSMGARSLIDKRVAVFFPFGFPPLAGKLRLSRLQQLARAMRGFDLVLTYNWGAMDAAMAHAVFAPSMGLAPLVHHEDGFNADEAGGLKRGRNWYRMVALSRASALVVPSRGLEEIALGSWRQPRARVHRILNGIDTAAYARKPRPDVLPRVVKRPGEKWLGTLAGLRAVKNLPRMVRAMKALPPEWHLVILGEGPEREAILAEAMRQEVGHRVHLPGHVADPAAAIGLFDLFALSSDSEQAPLSVIEAMAAGLAVVSPAVGDVADMVSEANRPYVIPPGDDDALAAAVRALAGDAALRASIGKSNRARARAEFDEGVMADLYARLYAGALGRDSFS
>NC_007794.1|WP_011444602.1|990937_991699_+|tetratricopeptide-repeat-protein
MALRPDRPQSRSDQLAERSAGQGDAFLREVDDALREDQVFTAVQKYGKPVGAAIIAGLLGLAGWLWYENHNNAVAGEQGEVLTKALDQLETRNLKAAADELGPLAKDGNEGYRATSRMLEAGILAEQGKTAEAAKAFAAIAADGGAPQAYRDLATIREVALDFDKLAPDKVVERLKPLAVPGNAWFGNAGELVGVAYLKQGKNDLAGALFAQIAKEKTVPDSLRRRARQMAGMLGVDAVEDPGETALVQPAAQ
>NC_007794.1|WP_011444603.1|991720_993067_+|PQQ-binding-like-beta-propeller-repeat-protein
MTPNPNIRRASLASVLVLALALGGCGIFGGKDKAKTTPTLGQRVPILSKIEAGTKVDDSISLTTVVLPAPEVNADFAQGGGNASKSYGHLALGDAPRKAWTVGIAGSSSKQRLAASPVVGGGKLYVMDTDGTVHAFDAASGKSVWETPVKAEKQNANSTFGGGASYDDGVVYVTNGVGEVAALDAANGAVKWRVKPAGPLRGSPTVAFGQVMAMTQDNQIVTLNAADGVVLWNENASVGQTNVFGVASPAAGQGTIVAGYSSGELVAYRYENGRQLWADALARTSIATSVSTLTDIDADPIIERGRVFALGQGGRMAAYELVTGQRVWELNLAGISTPAIAGDWIFTLTDEAKLLCIAKSNGKVRWMTQLPRYRNEKKKKNQILWTGPVLAGNRLWIANSRGEVMHASVTDGTVSEFTKLGAAVSLAPVVANQTLYILDDNGKITAFR
>NC_007794.1|WP_011444604.1|993109_994444_+|protein-S-isoprenylcysteine-methyltransferase
MNARPSPPPSDVSAGVGLAGLVGLVLWVLACRHWPAIADALALSGPHEVMNGPLAALMALLFSGAGMVGWSLLVDKVHLRPTTGIDWSSPRPVRDVVDISMTKIAGLWATWAILGFAYCVARWYWRGQYVFAMEVLEAVAPLLFLGAVPYVLWLDRVLVNPRDASWHFGAMLIGREPWDAAEVRRHWLAWLVKGFFCAFMISILPGGFAAVVTADWAAVLHDPVALGTLLIEAMFLVDVQIAMVGYLVTMKPLDAQIRTANPHLAAWVAALICYPPFVLMGDGGVLDYHYNGAEWSYWLQGHEVLLWLWAGALVFLTGIYAWATVAFGLRFSNLTYRGVLTNGPYAFTRHPAYLAKNTYWWLASLPFLVTSGSAVDAIRNTVLLALVSAVYYWRARTEEKHLLAEDAKYREYHAWMAQHGLLTSALRRITTALAPRRPVAQPAE
>NC_007794.1|WP_157042419.1|994579_994792_+|hypothetical-protein
MTVVMFISILVAFVAGVMVMLIAANIYVVVATFTHRRRKAMEVLSHFSRAVMMLRLSDSTNLSRSYRRDG
>NC_007794.1|WP_041550147.1|994817_995099_+|hypothetical-protein
MSIFWTGFLGSIVVEVGTMARACANLDGGIPQRYKSFIYLPVRFLLALCGGAIATVFDAKTGLVAFYLGASAPVVIDKLAQGALPTLPPDSPG

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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

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

1500150 : 1551734

Escherichia_phage(38.46%)

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_041550834.1\|1500150_1501404_+\|transposase	IS21 family transposase	A0A2L1IVA1	Escherichia_phage	5.3e-41	36.3
WP_011445115.1\|1501400_1502258_+	AAA family ATPase	U5N3V8	Enterobacteria_phage	1.8e-56	49.6
WP_011445118.1\|1503406_1503913_-	nuclear transport factor 2 family protein	NA	NA	NA	NA
WP_143005043.1\|1503933_1504440_-	flavin reductase family protein	NA	NA	NA	NA
WP_011445120.1\|1504448_1505219_-	crotonase	NA	NA	NA	NA
WP_011445121.1\|1505222_1506062_-	enoyl-CoA hydratase/isomerase family protein	NA	NA	NA	NA
WP_143005044.1\|1506058_1506484_-	nuclear transport factor 2 family protein	NA	NA	NA	NA
WP_143005045.1\|1506866_1507511_+	carboxymuconolactone decarboxylase family protein	NA	NA	NA	NA
WP_041550836.1\|1507605_1508700_-	LLM class flavin-dependent oxidoreductase	NA	NA	NA	NA
WP_011445126.1\|1508742_1509897_-	LLM class flavin-dependent oxidoreductase	NA	NA	NA	NA
WP_011445127.1\|1510079_1511672_+	acyl--CoA ligase	A0A2K9L3I8	Tupanvirus	4.7e-18	22.4
WP_011445128.1\|1511677_1512337_-	TetR/AcrR family transcriptional regulator	NA	NA	NA	NA
WP_143005042.1\|1512465_1512729_+	hypothetical protein	NA	NA	NA	NA
WP_011445129.1\|1512738_1513257_+	hypothetical protein	NA	NA	NA	NA
WP_011445130.1\|1513253_1514396_+	3,4-dihydroxy-2-butanone-4-phosphate synthase	A0A2H4PQS2	Staphylococcus_phage	2.6e-55	35.9
WP_011445131.1\|1514631_1517085_+	TonB-dependent receptor plug domain-containing protein	NA	NA	NA	NA
WP_011445132.1\|1517211_1518012_+	glucose 1-dehydrogenase	Q06VL0	Trichoplusia_ni_ascovirus	2.2e-16	29.9
WP_011445133.1\|1518088_1519171_-	alcohol dehydrogenase catalytic domain-containing protein	M1PHA2	Moumouvirus	2.2e-11	25.8
WP_041550224.1\|1519204_1519522_-	2Fe-2S iron-sulfur cluster binding domain-containing protein	NA	NA	NA	NA
WP_143005046.1\|1519556_1520726_-	cytochrome P450	NA	NA	NA	NA
WP_011445136.1\|1520980_1521694_+	MerR family transcriptional regulator	NA	NA	NA	NA
WP_049759343.1\|1521726_1523382_-	NAD(P)/FAD-dependent oxidoreductase	NA	NA	NA	NA
WP_011445138.1\|1523602_1524319_+\|transposase	IS6 family transposase	A0A077SL39	Escherichia_phage	7.3e-19	31.9
WP_011445139.1\|1524527_1525274_-	helix-turn-helix transcriptional regulator	NA	NA	NA	NA
WP_011445140.1\|1525403_1526213_+	phytanoyl-CoA dioxygenase family protein	NA	NA	NA	NA
WP_083760804.1\|1526271_1526724_+	nuclear transport factor 2 family protein	NA	NA	NA	NA
WP_011445138.1\|1526793_1527510_+\|transposase	IS6 family transposase	A0A077SL39	Escherichia_phage	7.3e-19	31.9
WP_083760806.1\|1527455_1527806_-\|transposase	transposase	A0A1B0YZU7	Pseudomonas_phage	1.2e-11	53.3
WP_011445142.1\|1527909_1528980_-	Rieske 2Fe-2S domain-containing protein	NA	NA	NA	NA
WP_011445143.1\|1529170_1530226_-	aromatic ring-hydroxylating dioxygenase subunit alpha	NA	NA	NA	NA
WP_011445144.1\|1530311_1532891_-	TonB-dependent receptor	NA	NA	NA	NA
WP_011445145.1\|1532917_1534144_-	FAD-binding protein	NA	NA	NA	NA
WP_011445146.1\|1534154_1534484_-	cytochrome c	NA	NA	NA	NA
WP_011445147.1\|1534480_1536040_-	FAD-binding oxidoreductase	NA	NA	NA	NA
WP_011445148.1\|1536036_1536588_-	hypothetical protein	NA	NA	NA	NA
WP_011445149.1\|1536756_1538481_-	sigma-54-dependent Fis family transcriptional regulator	NA	NA	NA	NA
WP_011445138.1\|1538673_1539390_+\|transposase	IS6 family transposase	A0A077SL39	Escherichia_phage	7.3e-19	31.9
WP_083760808.1\|1539368_1539857_+	hypothetical protein	A0A2H4J178	uncultured_Caudovirales_phage	3.5e-17	45.0
WP_011445150.1\|1539880_1540711_-	hypothetical protein	NA	NA	NA	NA
WP_011445151.1\|1540829_1542164_+	SLC13/DASS family transporter	NA	NA	NA	NA
WP_143005039.1\|1542169_1543468_-	DUF4118 domain-containing protein	NA	NA	NA	NA
WP_011445153.1\|1543700_1545002_+	chloride channel protein	NA	NA	NA	NA
WP_011445154.1\|1545007_1545943_-	hydrogen peroxide-inducible genes activator	A0A2P0ZL89	Lactobacillus_phage	5.6e-11	32.2
WP_011445155.1\|1546357_1546900_+	hypothetical protein	NA	NA	NA	NA
WP_041550230.1\|1546987_1547737_+	trehalose-phosphatase	NA	NA	NA	NA
WP_011445157.1\|1547733_1549518_+	glycoside hydrolase family 15 protein	NA	NA	NA	NA
WP_011445158.1\|1549514_1550909_+	trehalose-6-phosphate synthase	NA	NA	NA	NA
WP_011445159.1\|1551017_1551734_+\|transposase	IS6 family transposase	A0A077SL39	Escherichia_phage	3.0e-17	31.0

DBSCAN-SWA_2

3213003 : 3223923

Ralstonia_phage(50.0%)

terminase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011446634.1\|3213003_3213561_-	hypothetical protein	U6C6G7	Ralstonia_phage	7.4e-11	30.8
WP_157042446.1\|3213729_3214251_-	hypothetical protein	NA	NA	NA	NA
WP_011446636.1\|3214234_3215596_-	hypothetical protein	A0A191ZDE3	Pseudoalteromonas_virus	2.1e-19	24.1
WP_011446637.1\|3215595_3216036_-	hypothetical protein	NA	NA	NA	NA
WP_041550463.1\|3216035_3216863_-	hypothetical protein	A0A0F6YR57	Sinorhizobium_phage	2.7e-25	34.1
WP_011446639.1\|3216864_3217158_-	hypothetical protein	NA	NA	NA	NA
WP_143004928.1\|3217157_3217361_-	hypothetical protein	NA	NA	NA	NA
WP_011446640.1\|3217436_3218699_-	hypothetical protein	U6C6F9	Ralstonia_phage	2.4e-89	45.2
WP_011446641.1\|3218728_3219550_-	hypothetical protein	U6C6Y4	Ralstonia_phage	4.4e-20	32.0
WP_011446642.1\|3219641_3221714_-	hypothetical protein	U6C855	Ralstonia_phage	3.2e-107	38.8
WP_011446643.1\|3221761_3223216_-\|terminase	phage terminase large subunit	H9C0U8	Aeromonas_phage	1.7e-107	46.6
WP_157042447.1\|3223518_3223923_-	hypothetical protein	Q775B8	Bordetella_phage	2.1e-15	38.5

DBSCAN-SWA_3

3331158 : 3340807

Dinoroseobacter_phage(16.67%)

head,tail,portal,protease,capsid

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_011446757.1\|3331158_3332481_+	DNA-packaging protein	A0A1V0DY66	Dinoroseobacter_phage	5.7e-78	43.3
WP_011446758.1\|3332559_3333729_+\|portal	phage portal protein	W8ECU7	Geobacillus_phage	8.4e-49	34.4
WP_011446759.1\|3333725_3334034_+	hypothetical protein	NA	NA	NA	NA
WP_011446760.1\|3334030_3334483_+\|head,protease	HK97 family phage prohead protease	A0A2H4JAI0	uncultured_Caudovirales_phage	8.1e-16	40.9
WP_011446761.1\|3334560_3335703_+\|capsid	phage major capsid protein	Q8W627	Enterobacteria_phage	3.8e-78	51.1
WP_011446762.1\|3335823_3336375_+	hypothetical protein	NA	NA	NA	NA
WP_157042454.1\|3336371_3336530_+	hypothetical protein	NA	NA	NA	NA
WP_011446763.1\|3336534_3336930_+	DUF3168 domain-containing protein	NA	NA	NA	NA
WP_011446764.1\|3336958_3337366_+\|tail	phage major tail protein, TP901-1 family	NA	NA	NA	NA
WP_011446765.1\|3337365_3337680_+	gene transfer agent family protein	NA	NA	NA	NA
WP_041550524.1\|3337676_3337877_+\|tail	phage tail assembly chaperone	NA	NA	NA	NA
WP_011446767.1\|3337866_3338448_+	hypothetical protein	A0A2D2W291	Sinorhizobium_phage	1.2e-08	34.2
WP_011446768.1\|3338467_3340807_+	DUF2460 domain-containing protein	A0A1D7XFG9	Escherichia_phage	2.1e-62	30.6

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_009427

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Crispr_ID: NC_009427_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_009427_1

210694-210817

Orphan

Consensus_repeat	Method
GATGTTTCCCCGGGGAAACATC	PILER-CR

2 spacers

The CRISPR arrays of NC_009427_1

>merge|NC_009427|1|210694-210817|PILER-CR
GATGTTTCCCCGGGGAAACACGGAAGGGCGAGGTGGGGGAGGGGGGCGGTCCGGACGGATGTTTCCCCGGGGAAACATCCGTTGCGACAGACCGGCGGCAAAAAAGTTTCCCCGGGGAAACATC

>NC_009427|1|1|210694-210817|PILER-CR
GATGTTTCCCCGGGGAAACACG	GAAGGGCGAGGTGGGGGAGGGGGGCGGTCCGGACG
GATGTTTCCCCGGGGAAACATC	CGTTGCGACAGACCGGCGGCAAA
AAAGTTTCCCCGGGGAAACATC

Protein	Signature genes	Signature genes Name	Protein_function
NC_009427.1\|WP_011906828.1\|199846_201334_+\|thymidine-phosphorylase-family-protein	unknown	unknown	gnl\|CDD\|235289
NC_009427.1\|WP_011906833.1\|206609_206885_+\|metal/formaldehyde-sensitive-transcriptional-repressor	unknown	unknown	gnl\|CDD\|197388
NC_009427.1\|WP_011906832.1\|205313_206483_+\|efflux-RND-transporter-periplasmic-adaptor-subunit	unknown	unknown	gnl\|CDD\|273776
NC_009427.1\|WP_011906838.1\|212039_213242_-\|AAA-family-ATPase	unknown	unknown	gnl\|CDD\|274585
NC_009427.1\|WP_011906841.1\|217424_218588_+\|LLM-class-flavin-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|225052
NC_009427.1\|WP_011906835.1\|207981_208998_+\|hypothetical-protein	unknown	unknown	unknown
NC_009427.1\|WP_143005008.1\|219838_220201_+\|steroid-delta-isomerase	unknown	unknown	gnl\|CDD\|238404
NC_009427.1\|WP_143005003.1\|215048_217316_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|366716
NC_009427.1\|WP_011906830.1\|202231_202957_+\|ABC-transporter-ATP-binding-protein	unknown	unknown	gnl\|CDD\|213222
NC_009427.1\|WP_143005007.1\|201333_202227_+\|ribose-phosphate-diphosphokinase	unknown	unknown	gnl\|CDD\|235960
NC_009427.1\|WP_011906844.1\|220197_221010_+\|sugar-phosphate-isomerase/epimerase	unknown	unknown	gnl\|CDD\|224007
NC_009427.1\|WP_011906845.1\|221143_222880_+\|acyl--CoA-ligase	unknown	unknown	gnl\|CDD\|223395
NC_009427.1\|WP_011906836.1\|209438_210644_-\|replication-initiator-protein-A	unknown	unknown	gnl\|CDD\|370826
NC_009427.1\|WP_011906834.1\|206896_207844_+\|CDF-family-Co(II)/Ni(II)-efflux-transporter-DmeF	unknown	unknown	gnl\|CDD\|224151
NC_009427.1\|WP_011906837.1\|210876_211962_-\|ParB/RepB/Spo0J-family-partition-protein	unknown	unknown	gnl\|CDD\|375543
NC_009427.1\|WP_011906827.1\|198147_199557_+\|8'-apo-carotenoid-13,14-cleaving-dioxygenase	unknown	unknown	gnl\|CDD\|226196
NC_009427.1\|WP_041551631.1\|218689_219805_+\|LuxR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|225360
NC_009427.1\|WP_011906831.1\|202953_205317_+\|FtsX-like-permease-family-protein	unknown	unknown	gnl\|CDD\|223650
NC_009427.1\|WP_011906846.1\|222881_223748_+\|amidohydrolase-family-protein	unknown	unknown	gnl\|CDD\|225070
NC_009427.1\|WP_011906839.1\|213699_215745_+\|methyl-accepting-chemotaxis-protein	unknown	unknown	gnl\|CDD\|214599

Protein	Function_ID	Function_description	E-value
NC_009427.1\|WP_011906828.1\|199846_201334_+\|thymidine-phosphorylase-family-protein	gnl\|CDD\|235289	PRK04350, PRK04350, thymidine phosphorylase; Provisional.	0
NC_009427.1\|WP_011906833.1\|206609_206885_+\|metal/formaldehyde-sensitive-transcriptional-repressor	gnl\|CDD\|197388	cd10153, RcnR-FrmR-like_DUF156, Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156. This domain family includes various transcriptional regulators that respond to different stressors. It includes Escherichia coli RncR (formally known as YohL, nickel and cobalt-sensitive), and E. coli FrmR (formally known as YaiN, formaldehyde sensitive). Escherichia coli RncR represses expression of the gene encoding the nickel and cobalt-efflux protein RcnA; RcnA may act through modulating NikR, to repress the NIkABCDE nickel transporter. In vitro, purified RncR binds to the rncA promoter DNA fragment in the absence of Ni2+ or Co2+, and the affinity of RncR for this promoter is reduced in the presence of excess nickel. Escherichia coli FrmR regulates the formaldehyde degradation frmRAB operon. This family belongs to a larger superfamily that includes CsoRs (copper-sensitive operon repressors). CsoRs form homotetramers (dimer of dimers). In Mycobacterium tuberculosis CsoR, within each dimer, two Cys residues on opposite subunits, along with a His residue, bind the Cu(I) ion (forming a triagonal S2N coordination complex, C-H-C). These residues are conserved in the majority of members of this superfamily. In this family, however, not all these residues are conserved; in E.coli RcnR and FrmR there is a His or a Thr instead of the second Cys (C-H-H or C-H-T) respectively. For E. coli FrmR, an N-terminal His residue, not conserved in all members of this family, is also involved in metal binding (H-C-H-H). A conserved Tyr and a Glu residue that facilitate allosteric regulation of DNA binding for CsoRs are poorly conserved in this family.	4.92256e-34
NC_009427.1\|WP_011906832.1\|205313_206483_+\|efflux-RND-transporter-periplasmic-adaptor-subunit	gnl\|CDD\|273776	TIGR01730, COG0845:_Membrane-fusion_protein, RND family efflux transporter, MFP subunit. This model represents the MFP (membrane fusion protein) component of the RND family of transporters. RND refers to Resistance, Nodulation, and cell Division. It is, in part, a subfamily of pfam00529 (Pfam release 7.5) but hits substantial numbers of proteins missed by that model. The related HlyD secretion protein, for which pfam00529 is named, is outside the scope of this model. Attributed functions imply outward transport. These functions include nodulation, acriflavin resistance, heavy metal efflux, and multidrug resistance proteins. Most members of this family are found in Gram-negative bacteria. The proposed function of MFP proteins is to bring the inner and outer membranes together and enable transport to the outside of the outer membrane. Note, however, that a few members of this family are found in Gram-positive bacteria, where there is no outer membrane. [Transport and binding proteins, Unknown substrate].	8.17738e-28
NC_009427.1\|WP_011906838.1\|212039_213242_-\|AAA-family-ATPase	gnl\|CDD\|274585	TIGR03453, partition_RepA, plasmid partitioning protein RepA. Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error. [Mobile and extrachromosomal element functions, Plasmid functions].	9.58039e-94
NC_009427.1\|WP_011906841.1\|217424_218588_+\|LLM-class-flavin-dependent-oxidoreductase	gnl\|CDD\|225052	COG2141, COG2141, Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion].	1.58553e-41
NC_009427.1\|WP_143005008.1\|219838_220201_+\|steroid-delta-isomerase	gnl\|CDD\|238404	cd00781, ketosteroid_isomerase, ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon. Ketosteroid isomerases are important members of this class of enzymes which are the most proficient of all enzymes known and have served as a paradigm for enzymatic enolizations since its discovery in 1954. This CD includes members of this class that calalyze the isomerization of various beta,gamma-unsaturated isomers at nearly a diffusion-controlled rate. These enzymes are widely distributed in bacteria.	2.28529e-52
NC_009427.1\|WP_143005003.1\|215048_217316_+\|hypothetical-protein	gnl\|CDD\|366716	pfam01584, CheW, CheW-like domain. CheW proteins are part of the chemotaxis signaling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and other related proteins that are involved in chemotaxis. The CheW-like regulatory domain in CheA binds to CheW, suggesting that these domains can interact with each other.	9.39164e-13
NC_009427.1\|WP_011906830.1\|202231_202957_+\|ABC-transporter-ATP-binding-protein	gnl\|CDD\|213222	cd03255, ABC_MJ0796_LolCDE_FtsE, ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein. This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of lipoproteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyzes the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.	7.3632e-103
NC_009427.1\|WP_143005007.1\|201333_202227_+\|ribose-phosphate-diphosphokinase	gnl\|CDD\|235960	PRK07199, PRK07199, ribose-phosphate diphosphokinase.	1.12845e-110
NC_009427.1\|WP_011906844.1\|220197_221010_+\|sugar-phosphate-isomerase/epimerase	gnl\|CDD\|224007	COG1082, IolE, Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism].	4.51728e-14
NC_009427.1\|WP_011906845.1\|221143_222880_+\|acyl--CoA-ligase	gnl\|CDD\|223395	COG0318, CaiC, Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism].	4.87016e-150
NC_009427.1\|WP_011906836.1\|209438_210644_-\|replication-initiator-protein-A	gnl\|CDD\|370826	pfam10134, RPA, Replication initiator protein A. Members of this family of bacterial proteins are single-stranded DNA binding proteins that are involved in DNA replication, repair and recombination.	1.57606e-81
NC_009427.1\|WP_011906831.1\|202953_205317_+\|FtsX-like-permease-family-protein	gnl\|CDD\|223650	COG0577, SalY, ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms].	1.64659e-09
NC_009427.1\|WP_011906837.1\|210876_211962_-\|ParB/RepB/Spo0J-family-partition-protein	gnl\|CDD\|375543	pfam18090, SoPB_HTH, Centromere-binding protein HTH domain. This domain is found in centromere-binding protein (SopB). SopB displays an intriguing range of DNA-binding properties essential for partition; it binds the centromere to form a partition complex, which recruits NTPase (SopA), and it also inhibits SopA polymerization. The domain has a helix-turn-helix (HTH) structure and is thought to be the specific DNA-binding domain mainly through residues from the recognition helix, alpha 3, of the HTH. The domain has show structural similarity to the DNA-binding domains of P1 ParB and KorB.	2.75479e-35
NC_009427.1\|WP_011906827.1\|198147_199557_+\|8'-apo-carotenoid-13,14-cleaving-dioxygenase	gnl\|CDD\|226196	COG3670, COG3670, Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism].	7.64476e-107
NC_009427.1\|WP_041551631.1\|218689_219805_+\|LuxR-family-transcriptional-regulator	gnl\|CDD\|225360	COG2771, CsgD, DNA-binding HTH domain-containing proteins [Transcription].	6.96267e-10
NC_009427.1\|WP_011906834.1\|206896_207844_+\|CDF-family-Co(II)/Ni(II)-efflux-transporter-DmeF	gnl\|CDD\|224151	COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism].	2.38943e-64
NC_009427.1\|WP_011906846.1\|222881_223748_+\|amidohydrolase-family-protein	gnl\|CDD\|225070	COG2159, COG2159, Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only].	4.68129e-24
NC_009427.1\|WP_011906839.1\|213699_215745_+\|methyl-accepting-chemotaxis-protein	gnl\|CDD\|214599	smart00283, MA, Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). Thought to undergo reversible methylation in response to attractants or repellants during bacterial chemotaxis.	5.60906e-40

>NC_009427.1|WP_011906836.1|209438_210644_-|replication-initiator-protein-A
MSRNRPAPSGDQFDLFLPYVADMPMRDQREMMERPFFSLAKSKRVKPIDYTSPDGKLWVHVSGNPDYGMATIWDADILIYCASVLADMARRGVNDVPRKLHLMPYDLLRAIGRPTTGRAYELLGQALDRLVATTIKTNIRAENRREATFSWLDGWTQLVDEKTERSRGMTIELSNWFWEGVMMKGGVLSIDRAYFDITGGRERWLYKVARKHAGGAGEEGFAISMPVLFEKSGAEGEYRRFKFEILKLAEKNALPGYGLSVETARGGEPMLRMRRVDGKDGADRALPEAGRQGAEARTVASTAPDVSPGKHSSGASETVDVRALIRKTVAGVSDAATRGFMTDETIRHLRETCPGWDLHALHAEFESWVNGDSARLPANWQKAFIGWVKRHHEKNGHALRR
>NC_009427.1|WP_011906835.1|207981_208998_+|hypothetical-protein
MPPLPQPLTAVPWTAVLADGLATASAALARLDARVSASPLRPAWLLRASWAGYARALHLQHAEIEEIDIIAERCGLRIAGRALPRTDDEPFAAYDPWLARLSEPDGRHWAEDLPFTFDAPLAWREAPALVRALHLLDASARADRTIAPWLAFPALLRRLGLARSPLPCVVPGDAAQRFPGEPRAVLLKRLLRQVVRSAEDGLERLERLETGARRTAAAIAAERRPGKLAVLGRVALSRPCLAARSVAPLLDLTVSGAGKLLERATGLGLLVEVSGRESWRTYVAPDVAVALGLSAPDRGRPPSLVSAPPEVEVILQSFDAEMAEIEERLRKLGISTEG
>NC_009427.1|WP_011906834.1|206896_207844_+|CDF-family-Co(II)/Ni(II)-efflux-transporter-DmeF
MSLDTELEQLTHDHVFLGEAHEANALRTLWVVLLTAGMMVVEIAAGALFNSMALLADGFHMATHAGALGVAALAYSYARRHAKSGRYSFGTGKVGDLAGFASALVLGMVALGIAVESLQRLFDPRPVAFAEATVIAIVGLMVNLASAALLGGHHHHDHGHHDHHDHHDHHDHGHGHGHGHGHHDNNLRSAYVHVLADALTSVLAIAALLGGRYLGWNWLDPVMGLVGAAVISVWSWSLMRDTAGVLLDRHEAGLEREIRELVEGPGDAHITDLHVWRVGPGAHAAIVAARGASAADIRTRLAPVHEIAHLTVEQH
>NC_009427.1|WP_011906833.1|206609_206885_+|metal/formaldehyde-sensitive-transcriptional-repressor
MSHLAANKSALLARVRRIAGQVAAIEKAIADDAACNTVLHQVAGVRGAVGGLMDELIADHARQHVASPGLSDAERAEAVEDLIAAIRRYAR
>NC_009427.1|WP_011906832.1|205313_206483_+|efflux-RND-transporter-periplasmic-adaptor-subunit
MTLRSLLRWRWAILVAGLLVAGLVFAFWPQPTAVDVTRVSKGPLEIGVTDDGVTRAEEFYVVAAPVSGYLSRIELEPGDPVARGGLITTIGSRPAAPLDPRANAELRAALAAARAAQGNASASLSQARRDLARSQALADRGFLPRAQLEAARTRVLTAEAAVAQARAEALRISAELTPPAGRGNAAAVPVRAPVAGTILSVITESEGAVAEGTTLVTIGDPRRIEVVVDLLSRQAVRVKPGDRVKITEWGGSAPLTGTVRRIEPFGRLKVSALGIEEQRVNVVIGFDEASLGAAARLGHGYQIDATIVVWSRPDAVRLPIGALVRGKDGQWQVFTATGGRAVLRPVRIGQINDEWAEVLAGLAPGDQVIANPSPSLADNTRIKPRAASQ
>NC_009427.1|WP_011906831.1|202953_205317_+|FtsX-like-permease-family-protein
MRALDLKLVRMIWRMRGQALAIAVVLAAAAATFVLSLGVHHSLTATRDAYYARNHFADVFADMTRAPRGVVDRVRAVPGVARAEGSIRQYATLDFPDRPAPVRALINSVDERGSAGLNSIVLRSGRLPRREEPAEVLLDEAFANANGLGLGAHIDAEIYGTRQRLVVVGTGLAPDFVYALAPGEFLPDDRRFGVMWMGLRALEAATDRTGAINALSLTLERGAHEDEVIRRVDAILAPYGGSGAYGRKDHVSNAFLDNELTQLSAMTRVIPPVFLLVATLLVYVVLGRMIRTERTQIGLLKAFGYADRAIAAHYLKFALAIALAGAVLGALGGIWMGRAMTALYAQYYRFPFLEYRIAPSVVLQAAGLAFGAAALGALGGMRSVSRLAPAVAMAPSPPPIYRSGIVERLGRAAGFSAIGHMIVRHIARWPGRAAVTAGGIALSMALLFATLQFIDSSWTMLDSFFFRAQRQDLTVTFTEPRNLAAIHALAQIPGVLRAEPLRSAAVRIASGPRSRRTAIETASPEARLSAHMDRDGNEVSMPPAGLMLSRQLADKLDVRAGDRVEVEQLGGRRTRVVLPVARIVDEFIGERAYAAPATMARIVREETPAGAALLRIDPAARTRILIQLKAMPLVLGVSERDAALERFEAMIDDNLYTMLGFYIAFSSAIAVGVVYNSARILFSERAHELATLRVLGYHRSEVGIVLLGELALLVAAAVPLGCIGGYWMAQLMTAMFSSDLFRLPFAPARASYGWAALVVVLAALVTAATVARRVLHLDMVRVLKAHE
>NC_009427.1|WP_011906830.1|202231_202957_+|ABC-transporter-ATP-binding-protein
MESPDSASPAAFTGTRLNKIYRTGETEVHALRDVDLSIPQGEVLVLLGPSGSGKSTLLNILGGLDRPTSGNLSWFDHDLVAADEAALTRFRRAHVGFIFQFYNLIPSLTAEENVRLVTDIAESPMPPGEALERVGLADRRNHYPAQLSGGEQQRVAVARAIAKRPAVLLCDEPTGALDSRTGVRVLETLASANRELATTVVIITHNAGIAAMAHRVFHFLDGRIARIVRNERPVDPAGITW
>NC_009427.1|WP_143005007.1|201333_202227_+|ribose-phosphate-diphosphokinase
MQAAAVYPFAECLAQGEALAAALGIPALPVEVHRFPDGESRVRLHPPARTAIVLRPLNDPNARLIELLLAAAALRDGGAARVILVAPYLGYMRQDMAFRPGEAVSQRVIGNLIAAHFDGLITVDPHLHRVSSLAEVAPGIPALSISAAPVLAAELAPGLDPRTVLVGPDSESRPWVESIASPLGLDVLVGEKVRHGDRAVRIELPGKEALHGRPAILVDDVISSGTTLIECARILRAAGATSVEAVATHGLARMQDLQRIAAAGVFRVRTTDSIAAHPGSIPLAPILAQALRRQHWF
>NC_009427.1|WP_011906828.1|199846_201334_+|thymidine-phosphorylase-family-protein
MALKIKRIAIDTHPENTAFLLRRRNGYSPEQFVALRKIEITGGDASILATLALIDDESLLEPHMIGLGEQAFRRLGLPEGAEVTFRQAPVPHSLEHVRRKIDGDELEETEIAEIIRDIAGYRYSPMEIGAFLVACAGFMSTHETLALTRAMAGVGRQMHWPSEIVVDKHCIGGIPGNRTSMIIVPIIAAHGLTMPKTSSRAITSPSGTADTMEVLASVDLPEDRLVSIVAKEHAVLAWGGRVNLSPADDVLITVERPLRIDTFDQMVASILSKKLAAGSTHLLIDIPVGPTAKVRTTREAIRLRKLFEYVGHRLGLVLDIVVTDGSQPVGRGVGPVLEARDVMAVLRNEDDAPRDLRERAVMLAGRVLEFDPALAGGKGYARAMELLGSGAALAAMERLIDAQGRCREVILPGSHVHDICAPAGGTVMSIDCHLIARIARLAGAPMDKGAGIDLLHKVGDRVRADEVLYRIHAHSPTGLEYARELAVASSGYVVG
>NC_009427.1|WP_011906827.1|198147_199557_+|8'-apo-carotenoid-13,14-cleaving-dioxygenase
MVTKGVVVVSSFRRSRQDANRPHAFLTGIHAPVKEERTIEDLAVTGTIPAELSGRYVRIGPNPFRADPRGHHWFVGDGMVHGVCMKGGKALWYRNRYVRSRNLQDAGGPAAAPGPRRSTFDTVNTNVIQHAGRTFALVEAGSFPVELTHDLESFAYSDLGGTLKGPFSAHPHLDPLTGELHAVTYDGQTLDTVWHVVVDREGRVRREEPVPVAHGPSIHDCAITAKYVLILDLPVTFSMAALVGGARFPYRWNPAHRARVGLLPREGTAADVIWCDVDAAYVFHVANAFDNPDGTVTVDLAAYETMFAHGPDGPNGKSLGMERWTVDPAARKVARKTLDAAPQEFHRPDERFFGQPYRFAWSMGLPAENAEDFLGHAPIYGYDLATGQRSAHDFGPGKIPGEFVFIPRRADAEEGDGWLMGYVIDLASETTDLAILDARNLAAPPLALIHIPCRIPPGFHGNWLPDAAD
>NC_009427.1|WP_011906837.1|210876_211962_-|ParB/RepB/Spo0J-family-partition-protein
MARKQSDYLAALLADEEAIEKKSESAEALMIDEAPAPVGTATPARSERLRGTTLLGRESALARVASGEVRQVTQLLLDPARVRVWKGNARSYEHLSEESCAELIDSIIAEGGQKVPAVVRRIEGDPDHDYEVIAGTRRHWSISWLRQHSYPDMQFVAQVAQLDDEAAFRLADLENRARKDVSDLERARNYAQALHDHYGSHMTRMAERLKLSKGWLSKMLKVATLPDVVVAAFASPADVQLKPAYPLAQALDDRIAAAAILREAKVLGRLQEDRRKAGDPAIPATEVINRLLAAPQSGKDAPEQEVYQSPFGRPAVTVRSVNRQGVTLRLHSGSGLGLEGLLDIVLDALVKLEAEGRGISR
>NC_009427.1|WP_011906838.1|212039_213242_-|AAA-family-ATPase
MAESNSIVSQIGDLASAGERMIERLRRKAFLPESRKGLNVRFGIAEAAQLLGCSTNRIRMAEDDGRLPPPPAGENGRRIGYSMEEMLRMREVLGASPARAPMDVPAIIAVQNFKGGVGKSTVTTHLAHYFAVQGYRVLVVDCDSQATTTTLFGFNPHFNITRDETLYPYLSIDPTQTDLLYAVKRTPWPNVDLIPSNLELFDVEYELAASGADGQSVLAARFRKLKAGLMDMARDYDVVILDPPPALGTISLAVMQAANALLVPLAATTPDFCSTVQFLSMMDQVIAQLIEAGIAVDYSFVRLICSKFDGGDPSHEMVRTIMEQTFGPALLPVPILESAEISHAALRMMTVYELEKPIGTPRTHKRSRANLDEALGQIEQLVRAGWGRVAPAREEDVIHA
>NC_009427.1|WP_011906839.1|213699_215745_+|methyl-accepting-chemotaxis-protein
MTIQTPPLDLVGQAAAALADASVILSFDRKTGKCVGGNDEALRLFGGSGLSDHDFASIFVADVAAWTRICNGEIARVSGGVPQPSGGFAGISGAARLGEGRSAPVLFMGVRTCDGDGDVALLVHRNDALGKALPICQYSPTGTIVAINDTYLERTGRDREAVVGKPFTALWQGANVPADPQAWWSRFSRGESEIVLRRHDAGAGKTVWLREAFVPTLDGDRLISVLCYSCDATETVDQLNEQSEQIAAISRSHAMIEFDLEGNILWANEHMLETTGYRLDEIKGRHHRLFCEPELVSSPEYASLWERLGRGEYVSGEFKRLTKAGEEIWIRASYNPIIGTDGKPTKICKIAADVTAQKVLSNEYQAKVVAINRALAVIEFDLDGNVLTANDNFLSTMGYSLREVSGQHHSMFCAPDYVRSREYAEFWLKLNRGEFHAGRFHRVGKYDRDVWIQATYNPIFDLRGKPVRVVKFAFDITDQVAMEREIEARASDLGGLVERLSSSIAAITDATTSANGLAQSTRDNAEKGMDALSKAIEAIELIQTSAAGIAEIVGIIGEIAGQTNLLAFNAEIEAARAGEHGVGFSVVAGEVRRLAERSSTAARDISRLIDESIGRIGLGTARSHEASNAFDGIVDSVRRTGSAIEAISASVSVQDQVSADAVSLINSLANVTGASARSQAS
>NC_009427.1|WP_143005003.1|215048_217316_+|hypothetical-protein
MDPGNLQSDLRLARQARARGQVRVRHHRPGGDGARDRGPRERSGRIGGTAFQLHRGDHRCHDFGQRSCPEHPRQCGEGHGRPVQGDRGDRTDPDFRRRHCRDRRHHRRNRGADQPACLQCRNRGGAGRRTWCRVQRGGRRGKAPCRTVLDRRARHQPPDRRIDRPHRPRHGALARSVERIRRDRRFGAEDRQRDRGDQRIGLGAGSGFGRCRLAHQQPRQRHRRLGPVAGVLSALFSPSPSEPAKASALHGLARIGGLHFAVPISGIREVVAHPPVLAELPPTLAGLRGALDLRGAMIPVVELGEMIGGLHGTVLGGQAECEETADPTAAGPATRGVVMVLRTERGVFGACADEICGVVDLSRDRRTALELSSSGPVETAPVIVAGFSHGGRTGVILDVEGLAAVPGLILAEDRRVAASARRTGGPPLLTFSVGPHRFGLCADVIEATMPRTAVLQSPVDDPLWIGRIVSNGSRLPLVDTLHLLGLGRQPPMREAASIVVRLEDGGRVALAIDAVLDMVAGSRDENLGLQGFEVGEGGLIAGLHAAEPPILLFDPAALKAHEHLASLASLEEKVDTTEGVGRASAGGTLATGAGKGADASAASRMPFLIFTLGDDQHAAPLDHVTEILPYDAARMIDMVEGDGRFAGMIAHRGAAVPVVDLATRLGQVGGGGDPRFILIATSTGMSTGAGASAGFLLGGLCAVERHQLRSFARTSGAATEAATATGCGGKVIRTREGRTCTVHDLVGLVESLRVA
>NC_009427.1|WP_011906841.1|217424_218588_+|LLM-class-flavin-dependent-oxidoreductase
MKFSIIYEAQMVDTSRDNEQAVFLQIVEQAKYAEEMGFDCIWCVEHTALTQYAHMSAPETVLAFIAGATSRIHVGHGVVCLPPAMNHPVKVAERIATLDILSKGRLHFGVGKGGTQQEAGTFGYDLAELQPMIDESMYLIPKIMVQDEIEHDGQYIKIPKRPIHPKPFQDPHPPMYMACTRENTLIAAGSRGIGALVLGFSGPEEIAKKNAIYREAFRTRKAEDQVGFRPTEHLAALCAATVLDDREKARKVGLRGQRFFAESIAYWYQGGPKPTVDDNLSAEDHAKVLEQGKQATIAYLSEEAIPVGDEHLSNYTVAQDAYGTPDDCIRYVQRLKDAGADEILFIFQMGGIPHDIIMESIRNIGEKVIPHFRALEAAEAAALEPAE
>NC_009427.1|WP_041551631.1|218689_219805_+|LuxR-family-transcriptional-regulator
MAGTVDLEFSDLIARLYSGIGEEQPWRGFLEALARWMDATFATLIITAPGKRQPATFLTPGGSADFASNYAESLFAEDPFQGLADGVVTSYAEFMAGLPDEAFPEYRRTMADTGFDQVLGIDLHFGGAQARRADDGRYEARFRISRHNALPDFNREDRARLQALSQHLRIAVGLFERLQFAGAQHGVFHATAQGLGLALVVLDRNRRIVSTNALADSILGEDEGLRRRGEELALADPAHQRLVVDLLAGGAVGPGLTRFRIERPGHGDLVVTARPLDVSAIHSGAGALALFLARPGPEKSTDPQALRDLLGLTMAEARLAAVLAEGHSLVEAARRLGIAHNTAKVQLRAVFAKTGVHRQAQLVALLASLGG
>NC_009427.1|WP_143005008.1|219838_220201_+|steroid-delta-isomerase
MMKATLQAYVDRINAGDAAGVTALFAPGAVIEDPIGSAPRSGDDIAQWFADTVAFATRITPVVPHRGSHGDEALVVFDVEFTPPGGERLRIRSADACRFDAEGRIVSLRAYWGPDDLGPA
>NC_009427.1|WP_011906844.1|220197_221010_+|sugar-phosphate-isomerase/epimerase
MTDLFSFNHFCRSPWYGLKVDLPAAVDAVARAGFDMLAVDCLSLGQWKGEGGSVRALARRMRDAGLAAGPLAACAMIDGSAGALAQLEAAARDGEALGTAILQVNVTGPDRQARAAAVAAACERTPGLRLALEFMPISGLSTLAETLDIVEAVGPARAGALVDVWHLSHDPDGWSTLETAPPGHIAYVEIDDALPPAGDDVLAEMMDRRTFPGEGVLDVGRFARTLRNRGFSGVVSVEILSRAHLADPLGGFAARALSTARGAWDGGNPA
>NC_009427.1|WP_011906845.1|221143_222880_+|acyl--CoA-ligase
MSDILREGHRPASEAPLQSDPVLNDPVLARVAGPGSPFEIGLRNGIRQFVSAPPDLNLMIESARRFGNRTCVVDFSSDGEERRLDYDQFFAWRDQLVPLLHVRRGDRVAIAMRNRAEWLVAFLAVMKAGGVAVLVNSRGSGPELLAMLEDVDPAVVLADTDRADAVRDAGYKGRVLDLTKPLPEDELTRRAAEPAADAGVADPEDPCAILFTSGTTGRVKGAILSHRNVITGLMSTQMSGMVVLTNMAAQMGTTVEALIGQMPQQASLLVYPLFHVSGLGAGFLSPFVSGGKVVIMRRWDADEAARLIAAEQISMFSAVPTMLWDILHRARTDGASLVSLRNIGSGGQALPVNLVEEVHALCPHAQIGTGYGMTECSGAIAQAVGPDFMRRPAAAGRVLPMVEVRIEGPEGQILAPGEAGEIVVRGAQVMKGYWNRPEETAAVLTGDGWLRTGDVGFVDEDGYVFIVDRKKDMVISGGENIYCAEVERVLGELPGLTECAAFGLPDERLGERLVAVVIAAGNDGIDEAGVIEWVAGRLARYKAPTRVAFATTTLPRNALGKVDKIALRKLWPQLSGEQ
>NC_009427.1|WP_011906846.1|222881_223748_+|amidohydrolase-family-protein
MAMPTDIGIIDCMLGIPDAEDRAEWFAPFRALIKDQQTLGQFAMPAQYMFKDIPQSGKQDDYLAWTVAQMDKHNVEKALVGWNENDTSYRAKELYPERFFFDLPINPNNGTEEVRRIKRIHAEVGLSAVSCFPSGTLPQVAINHKYMWPIYSACEELGLPILLNVGIPGPRIPMETQKVEHLDEVCWFFPELKVVMRHGAEPWEALAVKLMLKWPNLYYSTSAFAPKHYPKAIIDYANTRGADKVIYAGYFPMGLSLDRIMSDMQNVPFKDEVWPKFLRENAMKVFGL

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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
NC_009427_1	1.1\|210716\|35\|NC_009427\|PILER-CR	210716-210750	35	NC_009427	Novosphingobium aromaticivorans DSM 12444 plasmid pNL2, complete sequence	210716-210750	0	1.0
NC_009427_1	1.2\|210773\|23\|NC_009427\|PILER-CR	210773-210795	23	NC_009427	Novosphingobium aromaticivorans DSM 12444 plasmid pNL2, complete sequence	210773-210795	0	1.0
NC_009427_1	1.2\|210773\|23\|NC_009427\|PILER-CR	210773-210795	23	NZ_CP022731	Escherichia coli strain SA186 plasmid pSA186_2, complete sequence	75542-75564	3	0.87
NC_009427_1	1.1\|210716\|35\|NC_009427\|PILER-CR	210716-210750	35	NC_009806	Kineococcus radiotolerans SRS30216 = ATCC BAA-149 plasmid pKRAD01, complete sequence	117577-117611	8	0.771

1. spacer 1.1|210716|35|NC_009427|PILER-CR matches to NC_009427 (Novosphingobium aromaticivorans DSM 12444 plasmid pNL2, complete sequence) position: , mismatch: 0, identity: 1.0

gaagggcgaggtgggggaggggggcggtccggacg	CRISPR spacer
gaagggcgaggtgggggaggggggcggtccggacg	Protospacer
***********************************

2. spacer 1.2|210773|23|NC_009427|PILER-CR matches to NC_009427 (Novosphingobium aromaticivorans DSM 12444 plasmid pNL2, complete sequence) position: , mismatch: 0, identity: 1.0

cgttgcgacagaccggcggcaaa	CRISPR spacer
cgttgcgacagaccggcggcaaa	Protospacer
***********************

3. spacer 1.2|210773|23|NC_009427|PILER-CR matches to NZ_CP022731 (Escherichia coli strain SA186 plasmid pSA186_2, complete sequence) position: , mismatch: 3, identity: 0.87

cgttgcgacagaccggcggcaaa	CRISPR spacer
cgttgcgacagaccggccgcatc	Protospacer
***************** ***

4. spacer 1.1|210716|35|NC_009427|PILER-CR matches to NC_009806 (Kineococcus radiotolerans SRS30216 = ATCC BAA-149 plasmid pKRAD01, complete sequence) position: , mismatch: 8, identity: 0.771

gaagggcgaggtgggggaggggggcggtccggacg	CRISPR spacer
gaagggcgaggcgggggagggcggcgcgggggtca	Protospacer
***********.********* ****    ** *.

Prophage detection

Region	Region Position	Protein_number	Hit_taxonomy	Key_proteins	Att_site	Prophage annotation

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_007794

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CRISPR-Cas detection and classification

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Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection

2. NC_009427

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CRISPR-Cas detection and classification

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Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection