CRISPRimmunity

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Overview of predicted results

Overview of the results

Contig_ID	Contig_def	CRISPR array number	Contig Signature genes	Self targeting spacer number	Target MGE spacer number	Prophage number	Anti-CRISPR protein number
NC_018609	Riemerella anatipestifer RA-CH-1, complete sequence	1 crisprs	WYL,DEDDh,cas9,cas1,cas2,RT,cas3,csa3	0	6	3	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_018609_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_018609_1

1164086-1164901

TypeII

Consensus_repeat	Method
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	PILER-CR
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	CRISPRCasFinder

10 spacers

cas2,cas1,cas9

The CRISPR arrays of NC_018609_1

>merge|NC_018609|1|1164086-1164901|PILER-CR,CRISPRCasFinder
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAACCCTCAGTTTCTTCATCCACCCTACTGGTGGGTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAACTTTCCTGCCCTTAATAATTTTAGCGATAAAGTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAACTAACCCGCCAAATCGCCTGTTTGGAAAATAGTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAACTATTGTTGCTAAATGCTCTTAGTATAAAGAGTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAACACACGCACGAGGCGTAATTTATGTACGAAAGTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAACTCTGGCGGCGCCACCCAAAAAAAGTTGTCGGTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAACGCCTGTGCCTGTGCGTATGAGTTAGAGGCTGTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAACGTGTCGCTAAACTTTAAATTTTCGTGATATGTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAACGCTATGGGTGCGTGGCTAGACTTTGTAGAAGTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAACGCACAATTCACACTTAAAAAACAAAATAGGTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC

>NC_018609|1|1|1164086-1164901|PILER-CR
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	CCTCAGTTTCTTCATCCACCCTACTGGTGG
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	TTTCCTGCCCTTAATAATTTTAGCGATAAA
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	TAACCCGCCAAATCGCCTGTTTGGAAAATA
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	TATTGTTGCTAAATGCTCTTAGTATAAAGA
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	ACACGCACGAGGCGTAATTTATGTACGAAA
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	TCTGGCGGCGCCACCCAAAAAAAGTTGTCG
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	GCCTGTGCCTGTGCGTATGAGTTAGAGGCT
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	GTGTCGCTAAACTTTAAATTTTCGTGATAT
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	GCTATGGGTGCGTGGCTAGACTTTGTAGAA
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	GCACAATTCACACTTAAAAAACAAAATAG
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC

>NC_018609|1|1|1164086-1164901|CRISPRCasFinder
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	CCTCAGTTTCTTCATCCACCCTACTGGTGG
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	TTTCCTGCCCTTAATAATTTTAGCGATAAA
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	TAACCCGCCAAATCGCCTGTTTGGAAAATA
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	TATTGTTGCTAAATGCTCTTAGTATAAAGA
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	ACACGCACGAGGCGTAATTTATGTACGAAA
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	TCTGGCGGCGCCACCCAAAAAAAGTTGTCG
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	GCCTGTGCCTGTGCGTATGAGTTAGAGGCT
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	GTGTCGCTAAACTTTAAATTTTCGTGATAT
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	GCTATGGGTGCGTGGCTAGACTTTGTAGAA
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC	GCACAATTCACACTTAAAAAACAAAATAG
GTTGCGAACTATCACAAAGATAGTAAAAATTGAAAGCAATTCACAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_018609.1\|WP_004918211.1\|1163639_1163978_+\|CRISPR-associated-endonuclease-Cas2	cas2	COG3512_cas2_CAS-II-A:CAS-II-B:CAS-II-C	gnl\|CDD\|226043
NC_018609.1\|WP_014938038.1\|1162750_1163650_+\|type-II-CRISPR-associated-endonuclease-Cas1	cas1	cd09720_cas1_CAS-II-A:CAS-II-B:CAS-II-C	gnl\|CDD\|274694
NC_018609.1\|WP_004918194.1\|1154205_1154706_-\|DUF2480-family-protein	unknown	unknown	gnl\|CDD\|313799
NC_018609.1\|WP_014938043.1\|1171197_1172391_+\|endonuclease/exonuclease/phosphatase-family-protein	unknown	unknown	gnl\|CDD\|197338
NC_018609.1\|WP_014938049.1\|1179302_1180073_+\|succinate-dehydrogenase/fumarate-reductase-iron-sulfur-subunit	unknown	unknown	gnl\|CDD\|181038
NC_018609.1\|WP_014938040.1\|1165082_1165352_-\|hypothetical-protein	unknown	unknown	unknown
NC_018609.1\|WP_014938036.1\|1158275_1158434_+\|hypothetical-protein	unknown	unknown	unknown
NC_018609.1\|WP_014938034.1\|1156698_1157028_+\|2Fe-2S-iron-sulfur-cluster-binding-domain-containing-protein	unknown	unknown	gnl\|CDD\|185668
NC_018609.1\|WP_014938035.1\|1157073_1158009_-\|nitronate-monooxygenase	unknown	unknown	gnl\|CDD\|240081
NC_018609.1\|WP_014938047.1\|1176535_1177204_+\|succinate-dehydrogenase-cytochrome-b-subunit	unknown	unknown	gnl\|CDD\|239578
NC_018609.1\|WP_014938044.1\|1172497_1174126_+\|methylcrotonoyl-CoA-carboxylase	unknown	unknown	gnl\|CDD\|178415
NC_018609.1\|WP_038693825.1\|1167130_1169938_-\|carboxypeptidase-regulatory-like-domain-containing-protein	unknown	unknown	gnl\|CDD\|200604
NC_018609.1\|WP_014938048.1\|1177266_1179279_+\|fumarate-reductase/succinate-dehydrogenase-flavoprotein-subunit	unknown	unknown	gnl\|CDD\|236054
NC_018609.1\|WP_041320510.1\|1154735_1155503_-\|DUF3108-domain-containing-protein	unknown	unknown	gnl\|CDD\|378635
NC_018609.1\|WP_014938041.1\|1165701_1167105_-\|choice-of-anchor-J-domain-containing-protein	unknown	unknown	unknown
NC_018609.1\|WP_014938037.1\|1158520_1162738_+\|type-II-CRISPR-RNA-guided-endonuclease-Cas9	cas9	cd09643_cas9_CAS-II-A:CAS-II-B:CAS-II-C	gnl\|CDD\|375967
NC_018609.1\|WP_014938033.1\|1155640_1156693_+\|NAD(P)/FAD-dependent-oxidoreductase	unknown	unknown	gnl\|CDD\|223566
NC_018609.1\|WP_014938030.1\|1152374_1153349_-\|deoxyhypusine-synthase-family-protein	unknown	unknown	gnl\|CDD\|376661
NC_018609.1\|WP_004918508.1\|1170216_1171095_+\|IS982-like-element-ISRa1-family-transposase	unknown	unknown	gnl\|CDD\|376573
NC_018609.1\|WP_014938046.1\|1174602_1176411_+\|ComEC/Rec2-family-competence-protein	unknown	unknown	gnl\|CDD\|377126

Protein	Function_ID	Function_description	E-value
NC_018609.1\|WP_004918211.1\|1163639_1163978_+\|CRISPR-associated-endonuclease-Cas2	gnl\|CDD\|226043	COG3512, COG3512, CRISPR-associated protein, Cas2 homolog [Defense mechanisms].	2.87616e-22
NC_018609.1\|WP_014938038.1\|1162750_1163650_+\|type-II-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274694	TIGR03639, cas1_NMENI, CRISPR-associated endonuclease Cas1, subtype II/NMENI. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is a prokaryotic immunity system for foreign DNA, mostly from phage. CRISPR systems belong to different subtypes, distinguished by both nature of the repeats, the makeup of the cohort of associated Cas proteins, and by molecular phylogeny within the more universal Cas proteins such as this one. This model is of type EXCEPTION and provides more specific information than the EQUIVALOG model TIGR00287. It describes the Cas1 variant of the NMENI subtype of CRISPR/Cas system.	1.95987e-92
NC_018609.1\|WP_004918194.1\|1154205_1154706_-\|DUF2480-family-protein	gnl\|CDD\|313799	pfam10652, DUF2480, Protein of unknown function (DUF2480). All the members of this family are uncharacterized proteins, but the environment in which they are found on the bacterial genome suggests a function as a glucose-6-phosphate isomerase (EC 5.3.1.9). This could not, however, be confirmed.	2.81272e-92
NC_018609.1\|WP_014938043.1\|1171197_1172391_+\|endonuclease/exonuclease/phosphatase-family-protein	gnl\|CDD\|197338	cd10283, MnuA_DNase1-like, Mycoplasma pulmonis MnuA nuclease-like. This subfamily includes Mycoplasma pulmonis MnuA, a membrane-associated nuclease related to Deoxyribonuclease 1 (DNase1 or DNase I, EC 3.1.21.1). The in vivo role of MnuA is as yet undetermined. This subfamily belongs to the large EEP (exonuclease/endonuclease/phosphatase) superfamily that contains functionally diverse enzymes that share a common catalytic mechanism of cleaving phosphodiester bonds.	2.65668e-12
NC_018609.1\|WP_014938049.1\|1179302_1180073_+\|succinate-dehydrogenase/fumarate-reductase-iron-sulfur-subunit	gnl\|CDD\|181038	PRK07570, PRK07570, succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated.	0
NC_018609.1\|WP_014938034.1\|1156698_1157028_+\|2Fe-2S-iron-sulfur-cluster-binding-domain-containing-protein	gnl\|CDD\|185668	PTZ00490, PTZ00490, Ferredoxin superfamily; Provisional.	2.04062e-17
NC_018609.1\|WP_014938035.1\|1157073_1158009_-\|nitronate-monooxygenase	gnl\|CDD\|240081	cd04730, NPD_like, 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase family that reduce a range of alternative electron acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as electron donor. Some contain 4Fe-4S cluster to transfer electron from FAD to FMN.	9.16436e-101
NC_018609.1\|WP_014938047.1\|1176535_1177204_+\|succinate-dehydrogenase-cytochrome-b-subunit	gnl\|CDD\|239578	cd03498, SQR_TypeB_2_TM, Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. C. glutamicum SQR reduces low potential quinones such as menaquinone. SQR is also called succinate dehydrogenase (Sdh) or Complex II and is part of the citric acid cycle and the aerobic respiratory chain. SQR is composed of a flavoprotein catalytic subunit, an iron-sulfur protein and one or two hydrophobic transmembrane subunits. Members of this subfamily are classified as Type B as they contain one transmembrane subunit and two heme groups. The heme and quinone binding sites reside in the transmembrane subunit. The transmembrane subunit of members of this subfamily is also called Sdh cytochrome b558 subunit based on the Bacillus subtilis protein. The structural arrangement allows efficient electron transfer between the catalytic subunit, through iron-sulfur centers, and the transmembrane subunit containing the electron acceptor (quinone). The reversible reduction of quinone is an essential feature of respiration, allowing transfer of electrons between respiratory complexes. Proteins in this subfamily from G. metallireducens and G. sulfurreducens are bifunctional enzymes with SQR and QFR activities.	1.38468e-62
NC_018609.1\|WP_014938044.1\|1172497_1174126_+\|methylcrotonoyl-CoA-carboxylase	gnl\|CDD\|178415	PLN02820, PLN02820, 3-methylcrotonyl-CoA carboxylase, beta chain.	0
NC_018609.1\|WP_038693825.1\|1167130_1169938_-\|carboxypeptidase-regulatory-like-domain-containing-protein	gnl\|CDD\|200604	cd11308, Peptidase_M14NE-CP-C_like, Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain. This domain is found C-terminal to the M14 carboxypeptidase (CP) N/E subfamily containing zinc-binding enzymes that hydrolyze single C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. The N/E subfamily includes enzymatically active members (carboxypeptidase N, E, M, D, and Z), as well as non-active members (carboxypeptidase-like protein 1, -2, aortic CP-like protein, and adipocyte enhancer binding protein-1) which lack the critical active site and substrate-binding residues considered necessary for activity. The active N/E enzymes fulfill a variety of cellular functions, including prohormone processing, regulation of peptide hormone activity, alteration of protein-protein or protein-cell interactions and transcriptional regulation. For M14 CPs, it has been suggested that this domain may assist in folding of the CP domain, regulate enzyme activity, or be involved in interactions with other proteins or with membranes; for carboxypeptidase M, it may interact with the bradykinin 1 receptor at the cell surface. This domain may also be found in other peptidase families.	3.3669e-06
NC_018609.1\|WP_014938048.1\|1177266_1179279_+\|fumarate-reductase/succinate-dehydrogenase-flavoprotein-subunit	gnl\|CDD\|236054	PRK07573, sdhA, fumarate reductase/succinate dehydrogenase flavoprotein subunit.	0
NC_018609.1\|WP_041320510.1\|1154735_1155503_-\|DUF3108-domain-containing-protein	gnl\|CDD\|378635	pfam11306, DUF3108, Protein of unknown function (DUF3108). This is a bacterial family of putative lipoproteins. Structure 3fzx, the first structural template for this large family including several homologs in the human gut microbiome and in metagenomic datasets, folds into a beta barrel that topologically looks like a small-scale porin (such as FepA). Bacteroides fragilis glyA is a putative exported protein, and this fold is of the YmcC-like type, with a predicted signal peptide SpI cleavage site AGAMA\|QNQDC, and a Phobius server prediction of non-cytoplasmic localization for amino acids 21-236. The possibility of it being a membrane protein can be ruled out by the hydrophilic nature of the solvent exposed surface outside the barrels. Analysis of sequence conservation suggests that an area near Glu172/Trp206 is potentially interesting. These two residues are also conserved in Dali hit Structure 2in5, a hypothetical lipoprotein classified as a new YmcC-like fold in SCOP (SCOP:159271, with a 12-stranded meander beta-sheet folded into a deformed beta-barrel) despite large structural differences between the two structures, suggesting similarity in function.	2.46184e-65
NC_018609.1\|WP_014938037.1\|1158520_1162738_+\|type-II-CRISPR-RNA-guided-endonuclease-Cas9	gnl\|CDD\|375967	pfam18541, RuvC_III, RuvC endonuclease subdomain 3. Cas9 proteins are abundant across the bacterial kingdom, but vary widely in both sequence and size. All known Cas9 enzymes contain an HNH domain that cleaves the DNA strand complementary to the guide RNA sequence (target strand), and a RuvC nuclease domain required for cleaving the noncomplementary strand (non-target strand), yielding double-strand DNA breaks (DSBs). The crystal structures of type II-A and II-C Cas9 proteins highlight the features in Cas9 enzymes that support their function as RNA-guided endonucleases. Cas9 enzymes adopt a bilobed architecture composed of a nuclease lobe containing juxtaposed RuvC and HNH nuclease domains and a variable alpha-helical lobe likely to be involved in nucleic acid binding. The RuvC domain forms the structural core of the nuclease lobe, a six-stranded beta sheet surrounded by four alpha helices, with all three conserved subdomains (I, II, III) contributing catalytic residues to the active site.	5.53437e-54
NC_018609.1\|WP_014938033.1\|1155640_1156693_+\|NAD(P)/FAD-dependent-oxidoreductase	gnl\|CDD\|223566	COG0492, TrxB, Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones].	1.0645e-72
NC_018609.1\|WP_014938030.1\|1152374_1153349_-\|deoxyhypusine-synthase-family-protein	gnl\|CDD\|376661	pfam01916, DS, Deoxyhypusine synthase. Eukaryotic initiation factor 5A (eIF-5A) contains an unusual amino acid, hypusine [N epsilon-(4-aminobutyl-2-hydroxy)lysine]. The first step in the post-translational formation of hypusine is catalyzed by the enzyme deoxyhypusine synthase (DS) EC:1.1.1.249. The modified version of eIF-5A, and DS, are required for eukaryotic cell proliferation.	4.83992e-36
NC_018609.1\|WP_004918508.1\|1170216_1171095_+\|IS982-like-element-ISRa1-family-transposase	gnl\|CDD\|376573	pfam01609, DDE_Tnp_1, Transposase DDE domain. Transposase proteins are necessary for efficient DNA transposition. This domain is a member of the DDE superfamily, which contain three carboxylate residues that are believed to be responsible for coordinating metal ions needed for catalysis. The catalytic activity of this enzyme involves DNA cleavage at a specific site followed by a strand transfer reaction. This family contains transposases for IS4, IS421, IS5377, IS427, IS402, IS1355, IS5, which was original isolated in bacteriophage lambda.	6.37233e-18
NC_018609.1\|WP_014938046.1\|1174602_1176411_+\|ComEC/Rec2-family-competence-protein	gnl\|CDD\|377126	pfam03772, Competence, Competence protein. Members of this family are integral membrane proteins with 6 predicted transmembrane helices. Some members of this family have been shown to be essential for bacterial competence in uptake of extracellular DNA. These proteins may transport DNA across the cell membrane. These proteins contain a highly conserved motif in the amino terminal transmembrane region that has two histidines that may form a metal binding site.	3.21871e-54

>NC_018609.1|WP_004918211.1|1163639_1163978_+|CRISPR-associated-endonuclease-Cas2
MKFNRFNAYRVMWVMVLYDLPTETKAMRKAAQLFRKRLEDDGFSLFQFSIYIRHCPSRENAEVHIKRVKSILPKHGKVAIMSITDKQFGDIEIFFARAKEEPKPTYQQLELF
>NC_018609.1|WP_014938038.1|1162750_1163650_+|type-II-CRISPR-associated-endonuclease-Cas1
MLYRSIYIGNPAYLKLKDQQMKIICPETKAEKGSISVEDLGLLMLDHFQITISHQLIQKLMGNNVVVISCDAHHLPHGIMLPLYGHSEYSERVKYQLEASEPLKKNLWKQVVESKINNQSEVLKRLGNYYEPMLEYKEQVKSGDTTNMEGIAAQHYWKYLIAPDFLRERFGDSPNQFFNFGYSVLRSIVARAIVETGLLPVLGIFHKNKYNPYCLADDLMEPYRPFVDFLVMEWLENYPESEELTKDFKAFMLNIATLDVRIENKLRPLIVAVKTSVVSVYKCYTGEKRQLSVPEFYEV
>NC_018609.1|WP_014938037.1|1158520_1162738_+|type-II-CRISPR-RNA-guided-endonuclease-Cas9
MKTILGLDLGTNSIGWALVKEAENSNEKSEIIKLGVRVNPLTVDEKTNFEAGRPLSTNADRTAKRSARRNLQRYKLRRKNLIDLLIKNQLIDKDTPLTEIGKNTTHQTLELRAKAARERIELEDLARVFLAINKKRGYRSSRKVNNEEEGQAVDGMAVAKKLYDENLTPGQYAYELLSKGKKYVPDFYRSDLQAEFNAIWEYQKQFYADILDDELYNALKGQGQQNSRKRFLAIKGVYTAENKGKRDDVKLRHYKWRSEAISKKINIEEVAYVLVEINNDLNKSSGYLGAISDRSKELYFNKETVGENLWKQIQKNPHTSLKNQVFYRQDYLDEFEQIWETQAQFHPQLTLALKEQIRDVIIFYQRKLKSQKGLLSFCQFESWEIERKDENGNVILNKTTQLPKRQTVGRRVAPKSSPLFQEFKIWQNINNLEVTKISEGASKNKKETETLSDDERKLLFEELNLRGNLSQKEVLQILGLKDKEYKTNFSEGLEGNRTNAALFNIYQQIAENEGYGFDWSKKSAQEIKEELKAVFPQIGIQADILDFNANLDGKEFENQASYQLWHLLYSAEEDDKINEEDQIIYGNSAVSLKKKLCEKFGFTPEYAKWIANVSLQDDYGNLSTKAMRKIIPYLIDGNDYSEACALAGYNHSNSLTKEENDNRELLDKLELLPKNSLRNPVVEKILNQMVNVVNQVIETYGKPDEVRIELARELKKSAEKRAEMTKSINEATRRNEDIKKLITKDFGIPNPTKSDVVRYRLWEELAPLAYKDVFTGKQIKKEDLFSSKIDIEHIIPKALLFDDSFSNKTLVFRETNLKKADRTAYDFIESDYNATLDDYIQRVETLYNNTKGTISKGKRNKLLMAQKNLPDGFIERDLRNSQYIAKKAKAMLYQVFKDVNVTSGSITDRLREDWDLINVMKELNFPKYKALGLTEIEERYDIGQEKTKRVEVITDWTKRNDHRHHAMNALTVAFTTSSHIQYLNYLNARKNESHKEHKNIKGIENKITHKQKDKRKFIPPMPNFREEAKKHIETILVSIKNKNKVYTKNINKTKKKSGHNTKEQLTPRGQLHKETVYGKSKRPMSKPTKINKNFSLEQAQLIINVQEKELVLRHLAQFDNNPAVAFDTKTLKKMPLLKNGEPLKEVLCFEEIFTIRKDITPDLKIEKVVDEKIKAILEQRKKDFGGNAKEAFSDLDKNPIWLNKKKGICIKRVTITGVSNAEALHHQKDHLGREILDDNGNPIPADFVSTGNNHHLAVYLDSEGKLQDNIVSFYEAVVRTSQGLPVVDKGLNKDLGWKFLFSLKQNEMFVFPNDDFDINDFDLLDDKKAELISKHLYRVQKISKVSAGNSFVRDIVFRHHLETTVKEVKELKDISYIQLKSLEGLRNIKKVRINHIGKIVQVGEY
>NC_018609.1|WP_014938036.1|1158275_1158434_+|hypothetical-protein
MEIEKDYLLQDLRRSLDLLLKRSAILPNKDWSPYFYGLFSFFHQFLLQRYKE
>NC_018609.1|WP_014938035.1|1157073_1158009_-|nitronate-monooxygenase
MKNRISELFNIQYPIIQGGMVWHSGWRLASAVSNAGGLGLIGAGSMYPDVLKEHLQKCKKATNKPFGVNIPMLYPNLDEIINIIMEEQIKIVFTSAGNPKTYTETLQKEGIKVAHVVSSLKFAIKCEEAGVDAVVAEGFEAGGHNGRDETTTFCLIPNVSKHISTPLIAAGGIATGQQIKAAMMLGADGVQIGSRFAATIEASSHESFKQKIVEAKEGDTQLTLKELAPVRLLKNKFFYDLEKLYENGRDIETLKQSLGRARAKKGMFEGDLDEGELEIGQVSALIDDIISVDEVFKRLIKEFKETKEPFL
>NC_018609.1|WP_014938034.1|1156698_1157028_+|2Fe-2S-iron-sulfur-cluster-binding-domain-containing-protein
MADIQLKITDREGVQHDIVAPTDMSMNLMEVIRAYELAEEGTVGVCGGMAMCAFCQVYVLNDVPLPEKGDEEEAMLSEAFDVKENSRLGCQIHITEEIDGLEVEIAPYS
>NC_018609.1|WP_014938033.1|1155640_1156693_+|NAD(P)/FAD-dependent-oxidoreductase
MITTDLLIIGAGPTGLFTVFEAGLLKLKCHIIDALPQPGGQLAELYPKKPIFDIPGYPSVNAGELVDNLMEQIKQFQPGFTLAETAVSLEKIDDEWFEVITNKGTVHRAKAVAIAGGLGTFEPRKPLLENLEKYEENGVEYFVKDPEVFRDKKIVIAGGGDSALDWSIFLSNVAKEVTLVHRRNEFRGALDSVEKVQELKNQGKINLVTPAEVVELKGANTLESIVIEREGEKTEIETDYFIPLFGLTPKLGPIADWGLEIEKNSIKVNNALDYQTNREGIYAIGDINTYPGKLKLILCGFHEATLMCQSVYNRLNPGKKYVLKYTTVSGVDGFDGSRKEAEKAVVKKID
>NC_018609.1|WP_041320510.1|1154735_1155503_-|DUF3108-domain-containing-protein
MKKILYLMTLVISASLWSQITNIKSGETLTYRIHYGILNAGYATLNIKETTYKGEPHYYVKGTGKTTGAVRAFFKVEDLYESYINISTALPSFYVRNVQEGSYRQHLETVFNHSNQTLILTDKKTPSNGSKTLKSVKGIQDMLSAFYYLRSRDNSALKVGTSIKMNVWIDDEMFPFQLRIAGVETKRTKFGKVECLKIIPSVISGRVFKDQEGVTMWVTNDANHIPVELKAELAVGSLKASLDDYKNIKYNINFK
>NC_018609.1|WP_004918194.1|1154205_1154706_-|DUF2480-family-protein
MSEIKNKVAESGLVNFDLSSLVPKGKRLGIDLKPFLFQELVLKEKDFREKVKGLELDSYKDAYVYIYNSAEAIVPLWAYFLIASQLSGVAKKVIYGDKDELELLIMHQALNDYDFSNLKDKRVLVKGCTDENIPENAYIELVEKLKPIVKSLMFGEACSNVPIFKN
>NC_018609.1|WP_014938030.1|1152374_1153349_-|deoxyhypusine-synthase-family-protein
MSKPITEFIEKYYLHFNAAALVDASKGYVAHLKDGGKMMITLAGAMSTAEMGKILAEMIRQDKVQIISCTGANLEEDLMNLVAHSHYERVPNYRDLTPQQEWDLLERGLNRVTDTCIPEEEAFRRLQKHIVEIWKEAESKGERYFPHEYMYKMLLSGVLEQYYEIPKENSWMLAAAEKNLPIVVPGWEDSTMGNIFASYCIKGELKPSTMKSGIEYMTYLANWYTKNCGGKGVGFFQIGGGIAGDFPICVVPMLYQDMEMHDIPFWSYFCQISDSTTSYGSYSGAVPNEKITWGKLDIDTPKFIVESDATICAPLMFQYVLENS
>NC_018609.1|WP_014938040.1|1165082_1165352_-|hypothetical-protein
MSSKSVYENEKGFKFVAKLKAEMKQKIPSLLYPETKEALSPLLLKANLEIFFQMKEFIKLIKNIFSKEPFEQDITIRFSLSLEQIIFIF
>NC_018609.1|WP_014938041.1|1165701_1167105_-|choice-of-anchor-J-domain-containing-protein
MKTTTYLKTSLIALSFGALTSCVHDDKFDTPAIQCSNQFSEPTTTIKDFKTLAPTPVNFVSNYTIPNGETDAPVIFEGYVISSDEGGNFYKQLTIQDNTENPTAGIQVAINKTFLYTDYPVGSRVRVRANGLSVGLDREVVKLGYVNPTGQIPEGNMRDFITGVCGGNTMDIKAITPRVVNSIAEATKDEYINTLVTIKGVQFSEADGKITYADAVNRQTVDRTLVDREDNTAVVRNSGFARFAGKTLPTESGDITVVVNKYVSGRNVTWQLYIRDLNDVKFEQERFVSSKNVLGGNAPEYNKTMTEAFDNVSTVTNFKRIADPKYINYSVFGNRFWEQKTFSGNNYIQISAFRANADVSTYFIVPAEFTGSSKLSFQTKDGYYTGDALKVYYTTKYTPGGVVNKTDLIDITSKFTLSKGNTNGYAADWVDSGEFTIPTTGKGYIFFEYVGNTTVTTTVQIDNITLK
>NC_018609.1|WP_038693825.1|1167130_1169938_-|carboxypeptidase-regulatory-like-domain-containing-protein
MIKKLSLVSMFCLLPASYYYAQTTVYAYVKDADGKPIENAVADLREANDDVKADKIGYFQFVDLKPGHYQMVVTQPNYETKVLEFDVFENEKRKDLGIITLFSNLKNSELGVVLLDDNSSMDESSSQATLGLLQSSRDVFSNIAAFDLGFYWFRPRGIDGRRSEVMMNGISMENADNGNVDYGNWGGLNEITRYPEIAVNHSPSEYAFGGVGSVVYKNMKASEYRKGFQFTQSLTNRNYRNRTSLRYSSGMNKKGWAFTVMGARRWAQEGIQEGTFYDAYGAYLGIEKKVNDKHTLTLNLIGSPYRRSTASPNTQEVIDYNGVHYNAFWGWQDGEKRSERVRKGFQPILQLTDYWKISSRSQLWTTVSYQFGKDKASRLDWYNAQNPSPLYYRNLPSYFAGLANPSDSDIAQLEITKNRWESNDQNYTQINWDRLYLANRNREQAVYFLVNDVNDDKVWNVGTHFVHNFSDKTQLFINASYRNYLSNQYREIKDLLGAQYALNGDPFASTNQPKLSGLFNEGEENTHKKVGDKIGYDYTFRRQETKINPALKFSTGNFDIFVSALAAYITNNREGHFNHYLYKDALGKSENQDYWNFGLKGQVIYKLDGRNFLVYNSAYYSQAPYLNNLFINARVNSAIAPNIKNTIVSANDISYMVSSPFVKVRATAFLINTQNDTNVQRFFADGIKLDGVDSEGNTTSARSAFVTQVMSNVNRRNMGAELGVEVKVTPTITVNGVANYGKYIYTNNPEVYFASDAVGMFPNEKLYTSYGTSYIKNFRQGGTPQEAYSLGVKYSSPKYWWVGANWNYLGSNFLDPSPLIRSDFFVNNPVTETPYAGISEEEYKRVTAQVKLPVAYFFNINAGKSWMLGKYYVLISATVNNVLDNTKYATGGFEQTRNVNFADFRRDYDREYPNFAPRYFFTQGRNYFINLQVRF
>NC_018609.1|WP_004918508.1|1170216_1171095_+|IS982-like-element-ISRa1-family-transposase
MNNLEQIYERILEVLGLFSENQLISYQRRTPKMSDLEVISLNITAEYLSIDSELQLFRKLPNSLINKIERSVYNKRKRRLSLQTEQIRQRISMEFNEFEDIFIVDSMPMKVCENARSTRSKICKEQSYSSPTYGYCASQKLYFYGYKLHAVCSLNGVIKNFDISPASVHDIHYLKDIGEQMRNCTLIGDRGYLSAKVQIDLFNYANIKLDTPMRSNQKDYIPQFSLYKKKRKRIETFFSQLCDQFMIKRNYAKTFEGFKTRIISKITAATVIQYINKFIFQRKLNHLKISII
>NC_018609.1|WP_014938043.1|1171197_1172391_+|endonuclease/exonuclease/phosphatase-family-protein
MKMKKIFSLLTLGLFLTSFSQTGKLRRMATVGFYNVENLWDTIQSADYIDGTLPPNHPRFHRSVPIDSVKYLEREDYKGEWSDSKLIGKKVVRFQGSSEEFTPKSAKNYNTSIYNQKLINAARVISELGASVTKTAPVVVGLLEVENRQVVEDLVKQPALKRYDYGVIHYNSYDYRGIDVALIYQKRRFSSTYSTKKELKIYNEEGKREYTRDLLVVSGYLDGEKVAFFVNHWPSRRGGEAVSLPKRNAAAQLLRVQMDSVRALDANTKLIAMGDFNDDPISSSLKNYLKAVGSTKELSPEYPYLNLMYPLYKKGVASLAYRDAPNLFDQIIVSENLVSPKDASYSIFRTEVYAPAYLINKEGSFKGYPFRSWDGDKFTGGYSDHFPVFTILYKEVN
>NC_018609.1|WP_014938044.1|1172497_1174126_+|methylcrotonoyl-CoA-carboxylase
MDLQFNKNEDLNRLKLSEINQLLAKIKKGGGEKRLEKLRSEGKMTARERIDYLLDDNKDSIEIGAFAGFEMYEEHGGCPSAGVVVKIGYISGKQCIVVANDASVKAGAWFPITGKKNLRAQEIAMENRLPIIYLVDSAGVYLPMQDEIFPDKEHFGRIFRNNAKMSAMGIIQISAVMGSCVAGGAYLPIMSDEAMIVDKTGSIFLAGSYLVKAAIGESIDNETLGGATTHCSISGVTDYKAKDDKDALDRIKNIMKSIGDFEKAGFDRTESFLPKENPENIFGIIPAARSEQYDTYEIIKCLVDKSEYEEYKPDYGKSIICATARIDGWSVGIVANQRKLVKSGKGEMQFGGVIYSDSADKATRFIANCNQRKIPLVFLQDVTGFMVGSKSEHGGIIKDGAKMVNAVSNSVVPKFTIITGNSYGAGNYAMCGKAYDPRLIVAWPWADLAVMGGAQAAKVLAQIQEATLRKKGKEITEEDRNEILQEISKKYQKQTEATYAAARLWTDAIISPLDTRKWISMGIEAANHSPITEKFNLGVIQV
>NC_018609.1|WP_014938046.1|1174602_1176411_+|ComEC/Rec2-family-competence-protein
MLNLVSCISLFIKVKKQILFSLFISFSLGVFLQDLSELSWQQSNITTTLGAISLGLIWVKADWLVRIRIWLLNIFFLCFGVFTHYLNSEKSVLPSVSKKEELVFKIEQKLNSTAKNKRYEITAFYQNQPLKAVLSVPKDLEELDYMHYYQSQLSLYPLEPSKNNYQFDYAKYQARKGVYYRAYAKDLHKAPKSELTFSEKMKQWRLELLSNIDKNEKLSQQTRAFLKGIVLADRTEVDAETNTNFRRSGLTHVLAISGSHIAIIFGVIYMLLSLIVPAKFRTGVILFSLVLIWIFTWFIGWGSSVVRSCIMLTVYFGFVLLQRKPQVLDALALAGLGILMVDTQELFSVGFQLSFSAVLGIYWFNKPIIRLFPNPRNKTQKLLLYTFTVSTAAQLGTMPIVIYYFHQYSAWSILANLLVLPLMEIVIIISFLMTIIFGLGIYWSWLSFTYDWLIKALLWLIGFFGKIEMGYFQDIPLSIWEMGVWAVGLYFLREILIRFTWRGFMKLMFSVLLFFGIKMGLDVRAYHDKEARWHYHYHTKVFSVLDKGKVYFWVSDKDNLEMLESYLIKPYVISKRAESYKVKMMSKEVDEVIFNGKRYLFQ
>NC_018609.1|WP_014938047.1|1176535_1177204_+|succinate-dehydrogenase-cytochrome-b-subunit
MAGLTSSTIGRKYAMALSAIFLLVFLVMHLSVNMLSVFSESAFNQASYFMGYNPFVQFLMQPILIFAVFFHFVMGFVLEAKNNKARPVKYAVNGAKANSSWMSRNMIISGVVILAFLALHMYDFWVHEMTYKYIPGEGDPSDVARFWEELHEKFSNPIRVAFYVVSFVLLGLHLAHGFQSSFQSIGARHPKYTPCIMALGKWYSILIPLGFIFVAVFHFVTQ
>NC_018609.1|WP_014938048.1|1177266_1179279_+|fumarate-reductase/succinate-dehydrogenase-flavoprotein-subunit
MSILDSKIPAGPLADKWKNHKNHMNLVAPNNRDKIDVIVVGTGLAGGSAAATLAEQGYNVKAFCYQDSPRRAHSIAAQGGINAAKNYQGDGDSIYRLFYDTIKGGDYRAREANVYRLAEVSANIIDQCVSQGVPFGRDYGGQLDNRSFGGVQVKRTFYAKGQTGQQLLLGAYSAMSRQIGKGRIKMYNRHEMMELVIVDGKARGIIARNLVTGEIERHSAHAVVIASGGYGNVYFLSTNAMGSNCSAAWKIHKKGAYFANPCFVQIHPTCIPVHGTQQSKLTLMSESLRNSGRIWVPKKIEDAVAIREGKLRPENIKEEDRDYYLERRYPAFGNLVPRDVASRAAKERCDAGFGIENNETKEGVYLDFSTEIMKKGKEAALERNLHNPTEQQIYDLGKAWVEEKYGNLFQMYEKITADNPYKTPMKIYPAVHYSMGGVWVDYNLMSTIPGCFVIGEANFSDHGANRLGASALMQGLADGYFVLPYTIADYLSADIRTGQIPTDTPAFEQAEKEIQEKVNFFINNNGTHSVDYFHKKLGNVMWNKVGMARNEQGLKEAIQEIEEIRKDFWQNVRVPGEANGMNPELEKAFRVADFLELGQLMAMDALNRNESCGGHFREEYSTPDGEAQRDDENYKYAAVWEYKGEDINQEVLHKEELVYENIEVKTRSYK
>NC_018609.1|WP_014938049.1|1179302_1180073_+|succinate-dehydrogenase/fumarate-reductase-iron-sulfur-subunit
MSAKKGLNLTLKIWRQKNNKSKGQFETYKISDVSPDSSFLEMLDMLNENLVNEGKEPVAFDHDCREGICGMCSLYINGRAHGPDTGITTCQLHMRMFKDGETIHIEPWRSAAFPVIKDLVVDRSAFDRIMATGGFISVNTSGNTTDANSIPVPKEDADKAMDAAACIGCGACVATCKNGSAMLFVGAKVSQYALLPQGRVEAKRRVLKMVAAMDEEGFGNCSNTGACEVECPKGISLENIARMNREFLCATLSSAE

You can click texts colored in the table to view more detailed information

Click the colored protein region to show detailed information

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_018609_1	1.3\|1164287\|30\|NC_018609\|PILER-CR,CRISPRCasFinder	1164287-1164316	30	NZ_CP016375	Elizabethkingia anophelis strain F3201 plasmid unnamed, complete sequence	14824-14853	5	0.833
NC_018609_1	1.10\|1164826\|29\|NC_018609\|PILER-CR,CRISPRCasFinder	1164826-1164854	29	NC_007103	Bacillus cereus E33L plasmid pE33L466, complete sequence	92187-92215	5	0.828
NC_018609_1	1.10\|1164826\|29\|NC_018609\|PILER-CR,CRISPRCasFinder	1164826-1164854	29	NZ_CP009967	Bacillus cereus E33L plasmid pBCO_1, complete sequence	229958-229986	5	0.828
NC_018609_1	1.10\|1164826\|29\|NC_018609\|PILER-CR,CRISPRCasFinder	1164826-1164854	29	NZ_CP053657	Bacillus cereus strain CTMA_1571 plasmid p.1, complete sequence	7349-7377	5	0.828
NC_018609_1	1.1\|1164133\|30\|NC_018609\|PILER-CR,CRISPRCasFinder	1164133-1164162	30	NC_019490	Riemerella phage RAP44, complete genome	1834-1863	6	0.8
NC_018609_1	1.2\|1164210\|30\|NC_018609\|PILER-CR,CRISPRCasFinder	1164210-1164239	30	NZ_AP017561	Pseudanabaena sp. ABRG5-3 plasmid ABRG53a, complete sequence	44364-44393	6	0.8
NC_018609_1	1.2\|1164210\|30\|NC_018609\|PILER-CR,CRISPRCasFinder	1164210-1164239	30	MN695335	Synechococcus phage B23, complete genome	188974-189003	6	0.8
NC_018609_1	1.2\|1164210\|30\|NC_018609\|PILER-CR,CRISPRCasFinder	1164210-1164239	30	MN695334	Synechococcus phage B3, complete genome	190463-190492	6	0.8
NC_018609_1	1.3\|1164287\|30\|NC_018609\|PILER-CR,CRISPRCasFinder	1164287-1164316	30	CP011076	Brevibacillus laterosporus strain B9 plasmid unnamed2, complete sequence	434710-434739	6	0.8
NC_018609_1	1.4\|1164364\|30\|NC_018609\|PILER-CR,CRISPRCasFinder	1164364-1164393	30	MN592897	Vibrio phage MZH0603, complete genome	30446-30475	6	0.8
NC_018609_1	1.8\|1164672\|30\|NC_018609\|PILER-CR,CRISPRCasFinder	1164672-1164701	30	MN694345	Marine virus AFVG_250M178, complete genome	1115-1144	6	0.8
NC_018609_1	1.10\|1164826\|29\|NC_018609\|PILER-CR,CRISPRCasFinder	1164826-1164854	29	MN694608	Marine virus AFVG_250M55, complete genome	906-934	6	0.793
NC_018609_1	1.10\|1164826\|29\|NC_018609\|PILER-CR,CRISPRCasFinder	1164826-1164854	29	MN694542	Marine virus AFVG_250M54, complete genome	38140-38168	6	0.793
NC_018609_1	1.10\|1164826\|29\|NC_018609\|PILER-CR,CRISPRCasFinder	1164826-1164854	29	MN694156	Marine virus AFVG_250M53, complete genome	38400-38428	6	0.793
NC_018609_1	1.10\|1164826\|29\|NC_018609\|PILER-CR,CRISPRCasFinder	1164826-1164854	29	MN693443	Marine virus AFVG_25M490, complete genome	34252-34280	6	0.793
NC_018609_1	1.10\|1164826\|29\|NC_018609\|PILER-CR,CRISPRCasFinder	1164826-1164854	29	MN693132	Marine virus AFVG_25M489, complete genome	34016-34044	6	0.793
NC_018609_1	1.10\|1164826\|29\|NC_018609\|PILER-CR,CRISPRCasFinder	1164826-1164854	29	AP013655	Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C24-MedDCM-OCT-S28-C120, * SEQUENCING IN PROGRESS *	9197-9225	7	0.759
NC_018609_1	1.8\|1164672\|30\|NC_018609\|PILER-CR,CRISPRCasFinder	1164672-1164701	30	NZ_CP047143	Lactobacillus sp. C25 plasmid unnamed, complete sequence	1015-1044	8	0.733
NC_018609_1	1.2\|1164210\|30\|NC_018609\|PILER-CR,CRISPRCasFinder	1164210-1164239	30	NZ_KJ645709	Enterococcus faecium strain P26 plasmid pXD5, complete sequence	48966-48995	9	0.7
NC_018609_1	1.2\|1164210\|30\|NC_018609\|PILER-CR,CRISPRCasFinder	1164210-1164239	30	NZ_CP040462	Enterococcus sp. M190262 plasmid pM190262, complete sequence	98503-98532	9	0.7

1. spacer 1.3|1164287|30|NC_018609|PILER-CR,CRISPRCasFinder matches to NZ_CP016375 (Elizabethkingia anophelis strain F3201 plasmid unnamed, complete sequence) position: , mismatch: 5, identity: 0.833

--taacccgccaaatcgcctgtttggaaaata	CRISPR spacer
cttaa--caccaaattgcctatttggaaaata	Protospacer
  ***  *.******.****.***********

2. spacer 1.10|1164826|29|NC_018609|PILER-CR,CRISPRCasFinder matches to NC_007103 (Bacillus cereus E33L plasmid pE33L466, complete sequence) position: , mismatch: 5, identity: 0.828

gcacaattcacacttaaaaaacaaaatag	CRISPR spacer
tcacaattcatacataaaaaacaaaaaat	Protospacer
 *********.** ************ *

3. spacer 1.10|1164826|29|NC_018609|PILER-CR,CRISPRCasFinder matches to NZ_CP009967 (Bacillus cereus E33L plasmid pBCO_1, complete sequence) position: , mismatch: 5, identity: 0.828

gcacaattcacacttaaaaaacaaaatag	CRISPR spacer
tcacaattcatacataaaaaacaaaaaat	Protospacer
 *********.** ************ *

4. spacer 1.10|1164826|29|NC_018609|PILER-CR,CRISPRCasFinder matches to NZ_CP053657 (Bacillus cereus strain CTMA_1571 plasmid p.1, complete sequence) position: , mismatch: 5, identity: 0.828

gcacaattcacacttaaaaaacaaaatag	CRISPR spacer
gcacaattcatacataaaaaacaacaaat	Protospacer
**********.** ********** * *

5. spacer 1.1|1164133|30|NC_018609|PILER-CR,CRISPRCasFinder matches to NC_019490 (Riemerella phage RAP44, complete genome) position: , mismatch: 6, identity: 0.8

cctcagtttcttcatccaccctactggtgg	CRISPR spacer
gcgtaattttttcatccacccgactggtgg	Protospacer
 * .*.***.*********** ********

6. spacer 1.2|1164210|30|NC_018609|PILER-CR,CRISPRCasFinder matches to NZ_AP017561 (Pseudanabaena sp. ABRG5-3 plasmid ABRG53a, complete sequence) position: , mismatch: 6, identity: 0.8

tttcctgcccttaataattttagcgataaa	CRISPR spacer
gctcttgcccttaataattttaccgatcat	Protospacer
 .**.***************** **** *

7. spacer 1.2|1164210|30|NC_018609|PILER-CR,CRISPRCasFinder matches to MN695335 (Synechococcus phage B23, complete genome) position: , mismatch: 6, identity: 0.8

tttcctgcccttaataatttt-agcgataaa	CRISPR spacer
tttcctgccattaataattttgaacaattc-	Protospacer
********* *********** *.*.**

8. spacer 1.2|1164210|30|NC_018609|PILER-CR,CRISPRCasFinder matches to MN695334 (Synechococcus phage B3, complete genome) position: , mismatch: 6, identity: 0.8

tttcctgcccttaataatttt-agcgataaa	CRISPR spacer
tttcctgccattaataattttgaacaattc-	Protospacer
********* *********** *.*.**

9. spacer 1.3|1164287|30|NC_018609|PILER-CR,CRISPRCasFinder matches to CP011076 (Brevibacillus laterosporus strain B9 plasmid unnamed2, complete sequence) position: , mismatch: 6, identity: 0.8

taacccgccaaatcgcctgtttggaaaata	CRISPR spacer
caacgcgccaaatcgcctgttttgtacaaa	Protospacer
.*** ***************** * * * *

10. spacer 1.4|1164364|30|NC_018609|PILER-CR,CRISPRCasFinder matches to MN592897 (Vibrio phage MZH0603, complete genome) position: , mismatch: 6, identity: 0.8

tattgttgctaaatgctcttagtataaaga	CRISPR spacer
tgcagcggctaaatgctctttgtataaaga	Protospacer
*.. *. ************* *********

11. spacer 1.8|1164672|30|NC_018609|PILER-CR,CRISPRCasFinder matches to MN694345 (Marine virus AFVG_250M178, complete genome) position: , mismatch: 6, identity: 0.8

gtgtcgctaaactttaaattttcgtgatat	CRISPR spacer
gagtcgctaaactttaacttttcgttagtg	Protospacer
* *************** ******* *

12. spacer 1.10|1164826|29|NC_018609|PILER-CR,CRISPRCasFinder matches to MN694608 (Marine virus AFVG_250M55, complete genome) position: , mismatch: 6, identity: 0.793

gcacaattcacacttaaaaaacaaaatag	CRISPR spacer
caaaaattcacaattaaaagacaaaatat	Protospacer
  * ******** ******.********

13. spacer 1.10|1164826|29|NC_018609|PILER-CR,CRISPRCasFinder matches to MN694542 (Marine virus AFVG_250M54, complete genome) position: , mismatch: 6, identity: 0.793

gcacaattcacacttaaaaaacaaaatag	CRISPR spacer
caaaaattcacaattaaaagacaaaatat	Protospacer
  * ******** ******.********

14. spacer 1.10|1164826|29|NC_018609|PILER-CR,CRISPRCasFinder matches to MN694156 (Marine virus AFVG_250M53, complete genome) position: , mismatch: 6, identity: 0.793

gcacaattcacacttaaaaaacaaaatag	CRISPR spacer
caaaaattcacaattaaaagacaaaatat	Protospacer
  * ******** ******.********

15. spacer 1.10|1164826|29|NC_018609|PILER-CR,CRISPRCasFinder matches to MN693443 (Marine virus AFVG_25M490, complete genome) position: , mismatch: 6, identity: 0.793

gcacaattcacacttaaaaaacaaaatag	CRISPR spacer
tcaatattcacagttaaaaaacaaaagac	Protospacer
 **  ******* ************* *

16. spacer 1.10|1164826|29|NC_018609|PILER-CR,CRISPRCasFinder matches to MN693132 (Marine virus AFVG_25M489, complete genome) position: , mismatch: 6, identity: 0.793

gcacaattcacacttaaaaaacaaaatag	CRISPR spacer
tcaatattcacagttaaaaaacaaaagac	Protospacer
 **  ******* ************* *

17. spacer 1.10|1164826|29|NC_018609|PILER-CR,CRISPRCasFinder matches to AP013655 (Uncultured Mediterranean phage uvMED isolate uvMED-CGF-C24-MedDCM-OCT-S28-C120, *** SEQUENCING IN PROGRESS ***) position: , mismatch: 7, identity: 0.759

gcacaattcacacttaaaaaacaaaatag	CRISPR spacer
cttgagttcaaacttaaaaaacaaaatat	Protospacer
 .  *.**** *****************

18. spacer 1.8|1164672|30|NC_018609|PILER-CR,CRISPRCasFinder matches to NZ_CP047143 (Lactobacillus sp. C25 plasmid unnamed, complete sequence) position: , mismatch: 8, identity: 0.733

gtgtcgctaaactttaaattttcgtgatat	CRISPR spacer
aaatacttaaacttttaaatttcgtgatat	Protospacer
. .*  .******** ** ***********

19. spacer 1.2|1164210|30|NC_018609|PILER-CR,CRISPRCasFinder matches to NZ_KJ645709 (Enterococcus faecium strain P26 plasmid pXD5, complete sequence) position: , mismatch: 9, identity: 0.7

tttcctgcccttaataattttagcgataaa	CRISPR spacer
aaatccctccttaataattttatcgataag	Protospacer
   .*. .************** ******.

20. spacer 1.2|1164210|30|NC_018609|PILER-CR,CRISPRCasFinder matches to NZ_CP040462 (Enterococcus sp. M190262 plasmid pM190262, complete sequence) position: , mismatch: 9, identity: 0.7

tttcctgcccttaataattttagcgataaa	CRISPR spacer
aaatccctccttaataattttatcgataag	Protospacer
   .*. .************** ******.

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

1225355 : 1232355

Enterobacteria_phage(33.33%)

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_154474128.1\|1225355_1226489_+	aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme	A0A0P0YLZ6	Yellowstone_lake_phycodnavirus	3.1e-16	24.0
WP_004918306.1\|1226644_1227229_+	sugar transferase	NA	NA	NA	NA
WP_013446885.1\|1227261_1227807_+	dTDP-4-dehydrorhamnose 3,5-epimerase	I7HJC4	Enterobacteria_phage	6.1e-42	49.1
WP_041320522.1\|1227817_1228900_+	dTDP-glucose 4,6-dehydratase	I7HTA3	Enterobacteria_phage	1.4e-85	48.4
WP_014938085.1\|1228904_1229762_+	glucose-1-phosphate thymidylyltransferase RfbA	H9NC64	Sphingomonas_phage	6.5e-99	62.5
WP_014938086.1\|1229867_1231172_+	30S ribosomal protein S12 methylthiotransferase RimO	NA	NA	NA	NA
WP_041320524.1\|1231182_1231674_-	dihydrofolate reductase	A0A0N9S8H6	Staphylococcus_phage	1.6e-30	42.5
WP_041320526.1\|1231749_1232355_+	LemA family protein	A0A1X9IGG1	Lactococcus_phage	2.1e-11	31.0

DBSCAN-SWA_2

1386916 : 1454787

Riemerella_phage(66.67%)

integrase,portal,capsid,transposase,tRNA,tail

attL 1388956:1388971|attR 1404529:1404544

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_014938243.1\|1386916_1391317_+\|tail	phage tail tape measure protein	A0A1B0WMP0	Flavobacterium_phage	6.0e-148	30.5
1388956:1388971	attL	NA	NA	NA	NA
WP_014938244.1\|1391318_1392857_+	hypothetical protein	NA	NA	NA	NA
WP_014938245.1\|1392847_1395409_+	hypothetical protein	R9VYC9	Flavobacterium_phage	1.4e-64	31.0
WP_014938246.1\|1395405_1396578_-\|integrase	site-specific integrase	A0A1B0WMK0	Flavobacterium_phage	2.3e-38	48.2
WP_014938247.1\|1396920_1398744_-	lysophospholipid acyltransferase family protein	NA	NA	NA	NA
WP_014938248.1\|1398758_1400003_-	aspartate kinase	NA	NA	NA	NA
WP_014938249.1\|1400193_1401210_+	class 1 fructose-bisphosphatase	A0A1V0SKX4	Klosneuvirus	1.6e-67	43.8
WP_038693923.1\|1401209_1402217_+	o-succinylbenzoate synthase	NA	NA	NA	NA
WP_014938251.1\|1402270_1403482_+	HD domain-containing protein	E3T4P8	Cafeteria_roenbergensis_virus	8.5e-28	29.6
WP_014938252.1\|1403565_1404600_+	UDP-3-O-(3-hydroxymyristoyl)glucosamine N-acyltransferase	NA	NA	NA	NA
1404529:1404544	attR	NA	NA	NA	NA
WP_014938253.1\|1404592_1405987_+	bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/3-hydroxyacyl-ACP dehydratase	NA	NA	NA	NA
WP_004918668.1\|1405994_1406783_+	acyl-ACP--UDP-N-acetylglucosamine O-acyltransferase	NA	NA	NA	NA
WP_004918666.1\|1406810_1407374_+	elongation factor P	NA	NA	NA	NA
WP_014938254.1\|1407437_1408340_+	UDP-3-O-(3-hydroxymyristoyl)glucosamine N-acyltransferase	NA	NA	NA	NA
WP_004918657.1\|1408442_1409315_+	succinate--CoA ligase subunit alpha	NA	NA	NA	NA
WP_014938255.1\|1409365_1410082_+	PorT family protein	NA	NA	NA	NA
WP_014938256.1\|1410140_1412651_-	peptidase M1	NA	NA	NA	NA
WP_014938257.1\|1412696_1413491_-	thymidylate synthase	A6M9A2	Geobacillus_virus	9.6e-105	66.7
WP_014938258.1\|1413602_1414166_-	T9SS type A sorting domain-containing protein	NA	NA	NA	NA
WP_014938260.1\|1414629_1417815_+	hypothetical protein	NA	NA	NA	NA
WP_014938261.1\|1417946_1418603_-	hypothetical protein	NA	NA	NA	NA
WP_014938262.1\|1418912_1419776_+	hypothetical protein	NA	NA	NA	NA
WP_014938263.1\|1419829_1420399_-	hypothetical protein	NA	NA	NA	NA
WP_014938264.1\|1420475_1421033_-	hypothetical protein	NA	NA	NA	NA
WP_014938265.1\|1421220_1422198_+\|tRNA	tRNA dihydrouridine synthase DusB	NA	NA	NA	NA
WP_014938266.1\|1422213_1422975_+	exodeoxyribonuclease III	A0A0N9QXX6	Chrysochromulina_ericina_virus	9.7e-38	37.8
WP_038693931.1\|1423040_1423421_-	septal ring lytic transglycosylase RlpA family protein	F5B3X9	Synechococcus_phage	1.6e-20	53.4
WP_014938268.1\|1423726_1425061_-	trigger factor	NA	NA	NA	NA
WP_014938269.1\|1425235_1425886_-	PorT family protein	NA	NA	NA	NA
WP_014938270.1\|1425955_1426522_-	hypothetical protein	NA	NA	NA	NA
WP_014938271.1\|1426559_1428911_-	TonB-dependent receptor	NA	NA	NA	NA
WP_038693933.1\|1429009_1429354_-	hypothetical protein	NA	NA	NA	NA
WP_038693935.1\|1429495_1430482_+	6-phosphofructokinase	NA	NA	NA	NA
WP_004916927.1\|1430573_1431578_+	type I glyceraldehyde-3-phosphate dehydrogenase	NA	NA	NA	NA
WP_079206653.1\|1431683_1431812_-\|transposase	transposase	NA	NA	NA	NA
WP_014938274.1\|1432928_1433363_+	hypothetical protein	NA	NA	NA	NA
WP_014938275.1\|1433575_1436368_+	fibronectin type III domain-containing protein	NA	NA	NA	NA
WP_079206649.1\|1436423_1436552_-\|transposase	transposase	NA	NA	NA	NA
WP_162037648.1\|1436505_1436682_-	hypothetical protein	NA	NA	NA	NA
WP_014938277.1\|1436872_1437856_-	pyruvate dehydrogenase complex E1 component subunit beta	NA	NA	NA	NA
WP_014938278.1\|1437923_1440050_-	RNA-binding transcriptional accessory protein	NA	NA	NA	NA
WP_014938279.1\|1440122_1442270_-	DNA mismatch repair protein MutS	E3T5Q7	Cafeteria_roenbergensis_virus	1.9e-14	27.4
WP_014938281.1\|1443631_1444990_+\|portal	phage portal protein	F5A3C6	Riemerella_phage	5.2e-244	96.6
WP_014938282.1\|1444989_1446045_+	hypothetical protein	F5A3C5	Riemerella_phage	1.7e-197	97.7
WP_014614979.1\|1446049_1446271_+	hypothetical protein	F5A3C4	Riemerella_phage	7.1e-34	100.0
WP_014938283.1\|1446300_1446624_+	hypothetical protein	F5A3C3	Riemerella_phage	1.1e-48	93.3
WP_013447244.1\|1446647_1446851_-	hypothetical protein	F5A3C2	Riemerella_phage	1.0e-31	98.5
WP_173002802.1\|1447267_1447498_-	hypothetical protein	F5A3C0	Riemerella_phage	4.4e-10	90.9
WP_014938286.1\|1447511_1447778_-	hypothetical protein	F5A3B9	Riemerella_phage	7.3e-41	96.6
WP_014938287.1\|1447910_1448567_+	hypothetical protein	F5A3B8	Riemerella_phage	1.5e-79	96.7
WP_014938288.1\|1448570_1448942_+	hypothetical protein	F5A3B7	Riemerella_phage	5.7e-60	95.1
WP_014938289.1\|1448961_1450044_+\|capsid	major capsid protein	F5A3B6	Riemerella_phage	7.5e-201	99.4
WP_014938290.1\|1450043_1450367_+	hypothetical protein	F5A3B5	Riemerella_phage	4.5e-53	94.4
WP_014938291.1\|1450360_1450684_+	hypothetical protein	F5A3B4	Riemerella_phage	1.1e-56	97.2
WP_014938292.1\|1450674_1451118_+	hypothetical protein	F5A3B3	Riemerella_phage	9.2e-73	96.6
WP_014938293.1\|1451114_1451525_+	hypothetical protein	F5A3B2	Riemerella_phage	5.5e-72	99.3
WP_014938294.1\|1451553_1452057_+	hypothetical protein	F5A3B1	Riemerella_phage	6.0e-44	54.6
WP_014938295.1\|1452136_1452598_+	hypothetical protein	F5A3B0	Riemerella_phage	6.0e-75	97.4
WP_014938296.1\|1452615_1452801_+	hypothetical protein	F5A3A9	Riemerella_phage	5.8e-29	98.4
WP_014938297.1\|1453105_1453939_-	DUF3800 domain-containing protein	NA	NA	NA	NA
WP_014938298.1\|1454094_1454787_-	Ig-like domain-containing protein	F5A3A6	Riemerella_phage	3.4e-122	99.1

DBSCAN-SWA_3

1459327 : 1467226

Riemerella_phage(100.0%)

tail

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_004917838.1\|1459327_1459690_-	helix-turn-helix domain-containing protein	F5A3A3	Riemerella_phage	4.7e-59	100.0
WP_014938300.1\|1459686_1459980_-	type II toxin-antitoxin system HigB family toxin	F5A3A2	Riemerella_phage	2.2e-51	99.0
WP_038693955.1\|1460036_1460468_+	hypothetical protein	F5A3A1	Riemerella_phage	3.8e-55	94.5
WP_014938302.1\|1460464_1461454_+	hypothetical protein	F5A3A0	Riemerella_phage	3.2e-190	99.1
WP_014938303.1\|1461441_1464897_+\|tail	phage tail protein	F5A399	Riemerella_phage	0.0e+00	90.3
WP_004917828.1\|1464923_1465247_+	hypothetical protein	F5A398	Riemerella_phage	3.8e-52	100.0
WP_038693959.1\|1465230_1465563_+	hypothetical protein	F5A397	Riemerella_phage	8.4e-55	96.4
WP_014938305.1\|1465559_1466081_+	hypothetical protein	F5A396	Riemerella_phage	6.1e-92	99.4
WP_014938306.1\|1466070_1466649_+	hypothetical protein	F5A395	Riemerella_phage	9.1e-89	93.8
WP_014938307.1\|1466671_1467226_+	N-acetylmuramoyl-L-alanine amidase	E7D0G0	Riemerella_phage	1.0e-100	96.7

Anti-CRISPR protein detection

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