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_014316	Nitrosococcus watsonii C-113 plasmid pNWAT01, complete sequence	0 crisprs	NA	0	0
NC_014315	Nitrosococcus watsonii C-113, complete sequence	3 crisprs	c2c10_CAS-V-U3,DinG,cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,cas3,cas3HD,cas14j,c2c9_V-U4,cas8f,cas5f,cas7f,cas6f	11	4
NC_014317	Nitrosococcus watsonii C-113 plasmid pNWAT02, complete sequence	0 crisprs	NA	0	0

Results visualization

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CRISPR-Cas detection and classification

Crispr_ID: NC_014315_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_014315_1

1530982-1531073

TypeI-E

I-E,II-B

Consensus_repeat	Method
CTCGGTTCATCCCCACGCCTGTGGGGAACGG	CRISPRCasFinder

1 spacers

cas2,cas1,cas6e,cas5,cas7,cse2gr11,cas8e,cas3,cas3HD

The CRISPR arrays of NC_014315_1

>merge|NC_014315|1|1530982-1531073|CRISPRCasFinder
CTCGGTTCATCCCCACGCCTGTGGGGAACGGGGGGAAGTAGAAGTGATGGAAACCGATGATCTCGGTTCATCCCCACGCCTGTGGGGAACGG

>NC_014315|1|1|1530982-1531073|CRISPRCasFinder
CTCGGTTCATCCCCACGCCTGTGGGGAACGG	GGGGAAGTAGAAGTGATGGAAACCGATGAT
CTCGGTTCATCCCCACGCCTGTGGGGAACGG

Protein	Signature genes	Signature genes Name	Protein_function
NC_014315.1\|WP_049772948.1\|1535783_1536692_-\|type-I-E-CRISPR-associated-protein-Cse1/CasA	cas8e	cd09669_cas8e_CAS-I-E	gnl\|CDD\|236613
NC_014315.1\|WP_013220395.1\|1518168_1520382_+\|fatty-acid-oxidation-complex-subunit-alpha-FadJ	unknown	unknown	gnl\|CDD\|236864
NC_014315.1\|WP_157679834.1\|1538409_1538928_-\|hypothetical-protein	cas3HD	cd09641_cas3HD_CAS-I	gnl\|CDD\|182031
NC_014315.1\|WP_013220394.1\|1516879_1518172_+\|acetyl-CoA-C-acyltransferase-FadI	unknown	unknown	gnl\|CDD\|181597
NC_014315.1\|WP_013220404.1\|1528003_1530220_-\|LPS-assembly-protein-LptD	unknown	unknown	gnl\|CDD\|235297
NC_014315.1\|WP_013220407.1\|1531469_1532384_-\|type-I-E-CRISPR-associated-endonuclease-Cas1	cas1	cd09719_cas1_CAS-I-E	gnl\|CDD\|274693
NC_014315.1\|WP_013220402.1\|1525625_1526621_-\|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA	unknown	unknown	gnl\|CDD\|273137
NC_014315.1\|WP_157679832.1\|1536688_1538488_-\|CRISPR-associated-helicase/endonuclease-Cas3	cas3	cd09639_cas3_CAS-I	gnl\|CDD\|182031
NC_014315.1\|WP_157679830.1\|1535205_1535853_-\|type-I-E-CRISPR-associated-protein-Cse1/CasA	cas8e	cd09669_cas8e_CAS-I-E	gnl\|CDD\|236613
NC_014315.1\|WP_013220408.1\|1532387_1532990_-\|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE	cas6e	cd09727_cas6e_CAS-I-E	gnl\|CDD\|187858
NC_014315.1\|WP_013220399.1\|1523488_1524088_+\|septum-formation-inhibitor-Maf	unknown	unknown	gnl\|CDD\|234855
NC_014315.1\|WP_013220411.1\|1534781_1535222_-\|type-I-E-CRISPR-associated-protein-Cse2/CasB	cse2gr11	cd09670_cse2gr11_CAS-I-E	gnl\|CDD\|187862
NC_014315.1\|WP_013220400.1\|1524103_1524898_-\|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA	unknown	unknown	gnl\|CDD\|234708
NC_014315.1\|WP_013220398.1\|1521827_1523462_+\|alpha-D-glucose-phosphate-specific-phosphoglucomutase	unknown	unknown	gnl\|CDD\|100087
NC_014315.1\|WP_013220403.1\|1526642_1527923_-\|molecular-chaperone-SurA	unknown	unknown	gnl\|CDD\|236758
NC_014315.1\|WP_013220409.1\|1532970_1533639_-\|type-I-E-CRISPR-associated-protein-Cas5/CasD	cas5	cd09756_cas5_CAS-I-E	gnl\|CDD\|273842
NC_014315.1\|WP_013220392.1\|1513460_1514120_-\|SOS-response-associated-peptidase	unknown	unknown	gnl\|CDD\|376837
NC_014315.1\|WP_013220406.1\|1531189_1531489_-\|type-I-E-CRISPR-associated-endoribonuclease-Cas2	cas2	pfam09707_cas2_CAS-I-E	gnl\|CDD\|236930
NC_014315.1\|WP_013220393.1\|1514520_1516797_+\|acyl-CoA-dehydrogenase	unknown	unknown	gnl\|CDD\|236528
NC_014315.1\|WP_013220410.1\|1533648_1534752_-\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	cas7	pfam09344_cas7_CAS-I-E	gnl\|CDD\|378153

Protein	Function_ID	Function_description	E-value
NC_014315.1\|WP_049772948.1\|1535783_1536692_-\|type-I-E-CRISPR-associated-protein-Cse1/CasA	gnl\|CDD\|236613	PRK09693, PRK09693, Cascade antiviral complex protein; Validated.	7.86665e-119
NC_014315.1\|WP_013220395.1\|1518168_1520382_+\|fatty-acid-oxidation-complex-subunit-alpha-FadJ	gnl\|CDD\|236864	PRK11154, fadJ, fatty acid oxidation complex subunit alpha FadJ.	0
NC_014315.1\|WP_157679834.1\|1538409_1538928_-\|hypothetical-protein	gnl\|CDD\|182031	PRK09694, PRK09694, CRISPR-associated helicase/endonuclease Cas3.	1.18198e-35
NC_014315.1\|WP_013220394.1\|1516879_1518172_+\|acetyl-CoA-C-acyltransferase-FadI	gnl\|CDD\|181597	PRK08963, fadI, 3-ketoacyl-CoA thiolase; Reviewed.	0
NC_014315.1\|WP_013220404.1\|1528003_1530220_-\|LPS-assembly-protein-LptD	gnl\|CDD\|235297	PRK04423, PRK04423, LPS-assembly protein LptD.	8.14322e-166
NC_014315.1\|WP_013220407.1\|1531469_1532384_-\|type-I-E-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|274693	TIGR03638, cas1_ECOLI, CRISPR-associated endonuclease Cas1, subtype I-E/ECOLI. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is 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 protein particular to the ECOLI subtype of CRISPR/Cas system.	4.55471e-145
NC_014315.1\|WP_013220402.1\|1525625_1526621_-\|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA	gnl\|CDD\|273137	TIGR00557, pdxA, 4-hydroxythreonine-4-phosphate dehydrogenase. This model represents PdxA, an NAD+-dependent 4-hydroxythreonine 4-phosphate dehydrogenase (EC 1.1.1.262) active in pyridoxal phosphate biosynthesis. [Biosynthesis of cofactors, prosthetic groups, and carriers, Pyridoxine].	1.52722e-179
NC_014315.1\|WP_157679832.1\|1536688_1538488_-\|CRISPR-associated-helicase/endonuclease-Cas3	gnl\|CDD\|182031	PRK09694, PRK09694, CRISPR-associated helicase/endonuclease Cas3.	0
NC_014315.1\|WP_157679830.1\|1535205_1535853_-\|type-I-E-CRISPR-associated-protein-Cse1/CasA	gnl\|CDD\|236613	PRK09693, PRK09693, Cascade antiviral complex protein; Validated.	3.70311e-57
NC_014315.1\|WP_013220408.1\|1532387_1532990_-\|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE	gnl\|CDD\|187858	cd09727, Cas6_I-E, CRISPR/Cas system-associated RAMP superfamily protein Cas6e. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas6e is an endoribonuclease that generates crRNA; This family is specific for CRISPR/Cas system I-E subtype; Homologous to Cas6 (RAMP superfamily protein); Possesses double RRM/ferredoxin fold; also known as Cse3 family.	4.95666e-53
NC_014315.1\|WP_013220399.1\|1523488_1524088_+\|septum-formation-inhibitor-Maf	gnl\|CDD\|234855	PRK00884, PRK00884, Maf-like protein; Reviewed.	6.01526e-92
NC_014315.1\|WP_013220411.1\|1534781_1535222_-\|type-I-E-CRISPR-associated-protein-Cse2/CasB	gnl\|CDD\|187862	cd09731, Cse2_I-E, CRISPR/Cas system-associated protein Cse2. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Small alpha-helical protein; also known as Cse2/CasB/YgcK family; specific gene for I-E subtype;.	3.71154e-12
NC_014315.1\|WP_013220400.1\|1524103_1524898_-\|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA	gnl\|CDD\|234708	PRK00274, ksgA, 16S rRNA (adenine(1518)-N(6)/adenine(1519)-N(6))-dimethyltransferase RsmA.	4.17176e-130
NC_014315.1\|WP_013220398.1\|1521827_1523462_+\|alpha-D-glucose-phosphate-specific-phosphoglucomutase	gnl\|CDD\|100087	cd03085, PGM1, Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction, G-1-P produced from sucrose catabolism is converted to G-6-P, the first intermediate in glycolysis. In the other direction, conversion of G-6-P to G-1-P generates a substrate for synthesis of UDP-glucose which is required for synthesis of a variety of cellular constituents including cell wall polymers and glycoproteins. The PGM1 family also includes a non-enzymatic PGM-related protein (PGM-RP) thought to play a structural role in eukaryotes, as well as pp63/parafusin, a phosphoglycoprotein that plays an important role in calcium-regulated exocytosis in ciliated protozoans. PGM1 belongs to the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Other members of this superfamily include phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphomannomutase ManB, the bacterial phosphoglucosamine mutase GlmM, and the bifunctional phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of these enzymes has four domains with a centrally located active site formed by four loops, one from each domain. All four domains are included in this alignment model.	0
NC_014315.1\|WP_013220403.1\|1526642_1527923_-\|molecular-chaperone-SurA	gnl\|CDD\|236758	PRK10770, PRK10770, peptidyl-prolyl cis-trans isomerase SurA; Provisional.	1.99959e-111
NC_014315.1\|WP_013220409.1\|1532970_1533639_-\|type-I-E-CRISPR-associated-protein-Cas5/CasD	gnl\|CDD\|273842	TIGR01868, hypothetical_protein, CRISPR-associated protein Cas5/CasD, subtype I-E/ECOLI. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family is part of the ECOLI subtype CRISPR/Cas locus, and now characterized as part of the CASCADE complex of that system. It shares a small N-terminal homology region with members of several other CRISPR/Cas subtypes, and we view the families that share this region as being Cas5.	4.85255e-54
NC_014315.1\|WP_013220392.1\|1513460_1514120_-\|SOS-response-associated-peptidase	gnl\|CDD\|376837	pfam02586, SRAP, SOS response associated peptidase (SRAP). The SRAP family functions as a DNA-associated autoproteolytic switch that recruits diverse repair enzymes onto DNA damage. We propose that the human protein Q96FZ2:UniProtKB, the eukaryotic member of the SRAP family, which has been recently shown to bind specifically to DNA with 5-hydroxymethylcytosine, 5-formylcytosine and 5-carboxycytosine, is a sensor for these oxidized bases generated by the TET (tetrahedral aminopeptidase of the M42 family) enzymes from methylcytosine. Hence, its autoproteolytic activity might help it act as a switch that recruits DNA repair enzymes to remove these oxidized methylcytosine species as part of the DNA demethylation pathway downstream of the TET enzymes.	4.40018e-115
NC_014315.1\|WP_013220406.1\|1531189_1531489_-\|type-I-E-CRISPR-associated-endoribonuclease-Cas2	gnl\|CDD\|236930	PRK11558, PRK11558, putative ssRNA endonuclease; Provisional.	5.19217e-61
NC_014315.1\|WP_013220393.1\|1514520_1516797_+\|acyl-CoA-dehydrogenase	gnl\|CDD\|236528	PRK09463, fadE, acyl-CoA dehydrogenase; Reviewed.	0
NC_014315.1\|WP_013220410.1\|1533648_1534752_-\|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC	gnl\|CDD\|378153	pfam09344, Cas_CT1975, CT1975-like protein. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This family is represented by CT1975 of Chlorobium tepidum.	1.32677e-133

>NC_014315.1|WP_013220404.1|1528003_1530220_-|LPS-assembly-protein-LptD
MEHKKNIILFAGLFFFLSGLVPIARAQIPQWEKCGSFIEPASEELLDPEPRGPVNVEADRVESEKDGVSVFSGDVKFRRRGQWLDADEVFYDKPNDTVEAFGDVRYQDATMDVISDSAKVNLETDIGEAENARYFLRDYHARGEAGEVERESSIKTELREATFTTCDIGNHAWQLKADRVSLDHEEGVGWARGARLKLWDTTVFYVPFLRFPIDDRRKSGFLVPSAGRSSNSGIDASTPYYWNIAPNLDATLTPRYLSQRGPMMEGEVRYLNPSNFGRIRGSFLPHDAKRDDYRGAFSYRHSGSPRPRWFTNLDLNLVSDDRYFEDFGNSLSIASTTVLNNSLDIGYQGNGWNALGRFQGFQTIDRSIPASARPYQRLPQFLVDGFFPDQLLGLDVDFHGEVVRFGRDAGPPTGALRLDFWPTVSLPFRTPGTFFTPSIGVRDTRYFLEHAPAGTDSTLSRTLPIFSMDTGAIFERSLTLWGNDVRQTLEPRAYYLYVPFENQEALPVFDSAPLDFYFSRLFQPNRFTGADRLNDANQLTLAVTTRLLQSNTGAELLRASIGQIQFFRDRKVTMPGFAEETDSSSLVIGEVAARLAQAWSLRGELRFDPHTEQTALGAAELHYRGNEGGLFNINYRFRRDFLEQVDVSGRYPIADNWNVVGRWYQSITDGRLLEMLGGVEYDSCCWAIRLVGRSYITNIEGDRNNSILVQLELKGLGNVGQNVERLLERSVLGYSEQF
>NC_014315.1|WP_013220403.1|1526642_1527923_-|molecular-chaperone-SurA
MGKVLVAIVVLFWTMGSFATMSLDRIVAVVNEDIVLESELEQMVRTVQDQLAAQGTSLPPGYVLERQVLERLVMEQLQLQLAARTGIQVGDETLNEALGRIAQNNGLTLSQFRNVLEQDGYDFPNFRENIRKELIISQLHKREVNDRVSVSKAEIDNFLATQKKHGNQDAQYHLAHILITVPEAASPEQVQGAKAKAEQVLQQLREGTDFQKVAVTYSDGQQALEGGDLGWRKVGQLPTLFVDVVPQLQVGEISKLIRSPSGFHIVKLLEYRGEGGQQLVTQTQARHILLRADELASEQEVQLRLSQLRQRILSGDDFSELAQAHSDDKASALKGGDLGWVSPGQMIPRFEEAMRSLEPGEISEPFKTQFGWHVVQVLDRRQENVTEEFNRNRAKTEIHQRKVEEELENWLRQLRDEAYVEYRVDN
>NC_014315.1|WP_013220402.1|1525625_1526621_-|4-hydroxythreonine-4-phosphate-dehydrogenase-PdxA
MACLRLALTPGEPAGIGPDISIQLACQRREYELVVVADPEVLRQRAQQRGLALVFESYDPARPPEPGVSGTLKVLPLRAPVPVTAGCLSPGNTAYVLACLRRSVAGCLQGEFSALVTGPVHKGIINQSGVSFSGHTEFLAQLCNRSQVVMMLTAPGLRVALATTHLPLREVSAAITRQGLEGTLRILHGDLRRRFGISKPRILVCGLNPHAGEGGHLGREEMEIIEPVLATLRAQGMQLLGPLPADTLFVPRYLKEADAVLAMYHDQGLPVLKHVGFGQAVNITLGLPIIRTSVDHGTALDLAGNGPVESGSLQAAVEAALAMAERQQPPK
>NC_014315.1|WP_013220400.1|1524103_1524898_-|16S-rRNA-(adenine(1518)-N(6)/adenine(1519)-N(6))--dimethyltransferase-RsmA
MNLLGHRARKRFGQHFLHDQQVIERLIRAIKPKLGDLMVEIGPGQGALTLPLLHCLGQLEAIELDRDLAAYLIERCASEGNLRLHNVDSLTFDFRTLAHDNRRLRVVGNLPYNISTPLLFHLLGQVGILEDMHFMLQREVVTRLAAKPGGKDYGRLSVMVQFYCEVEPLFTVKSGAFVPPPKVDSMVVRLRPHQPSLAPNISHEALNRVVSQAFSQRRKTLANALKGLLSSAELIALGIDPRQRPETVSLEHYLALTRYWLQAQ
>NC_014315.1|WP_013220399.1|1523488_1524088_+|septum-formation-inhibitor-Maf
MALPSPALPTLVLASSSPYRAELLARLRLPFESHAPDIDETPLPQEQPEELAARLAETKAQIVGAKTSNALVIGSDQVAVLEQQMLGKPKTHERALQQLQAASGRTVFFYTGLCLLNTVTGASKTVVEPFQVRFRQLTEQQIDTYLQREQPYQCAGSFRSEGLGIALIQHLQGNDPNALVGLPLIRLTELLEQAGYPVL
>NC_014315.1|WP_013220398.1|1521827_1523462_+|alpha-D-glucose-phosphate-specific-phosphoglucomutase
MNIRTVSTTPYPDQRPGTSGLRKKVKHFQQPHYLENFVQSLFDCLKDMAGKTLVLGGDGRYYNPEAIQIILKIASANKVGRVLVGHKGLFSTPAVSCIIRRCKAFGGIILSASHNPAGPDGDFGIKYNISNGGPAPESVTNAIYTQSKQINRYLVLEAEDIPLDTLGIFTLGEMRVEVINPITDYAELMEELFDFDRIATLFDTGVFHMCFDAMHAITGPYAKDILEQRLGADPNTVLNGEPLPDFGGGHPDPNLAHAKSLVTKMYRANAPSFGAASDGDGDRNMILGKRFFVTPSDSLAILAANAHHIPGYRLGLAGIARSMPTSQAADRIAEALGIECFETPTGWKFFGNLLDAGKATLCGEESFGTGSDHLREKDGLWAVLFWLNILAVRRQSVKTIVQEHWSHCGRNFYSRHDYEDLPADLSQQLMEDLRKQLPKLKGKRLGQREVTLADDFSYTDPIDHSITTGQGIRLCFKDSARIIYRLSGTGTQGATLRVYLEAFEPNPDRHNQETQVALADLIQIADHLAQIQQRTGRAQPSVIT
>NC_014315.1|WP_013220395.1|1518168_1520382_+|fatty-acid-oxidation-complex-subunit-alpha-FadJ
MTNGTLRSLRIERREGNAAIIWLDVPDVSVNTLQADFAQDFNQVLAQLSADKELKVVVLASAKEDFIAGADIKMLTQLPDAEAARQLSRTAQKAMAQLEAFPLPVVAAIHGVCLGGGLELALACRGRVATSSDRTRLGQPEVKLGVIPGVGGTQRLPRLVGLEAALNVILTGKTMSASKARALGLVDEVVPQPVLLEAALARARELARENDDKSEASPFQWFGQLLSSVLSWRQLRSLLLEKNSLGRSLVFNQARKKVLSHTHGNLPAPLQALEAIKTGMEQGLEAGFKAEVEAFGDLAVSTKARNLMALFLAQSALKKDSGTDEKVAPRKVRKVGVLGAGLMGSGVAYVTAAKARLPVRLKDVKQEVLRQGLRVLWNAVTEQVNKRRMTAGEKDRVLALVRPTTEYTGFKQADVVIEAVVEDLEVKQQVLREVETHGSPEMIFASNTSSIPIHKIAEASDRPEAVVGMHYFSPVPKVPLLEVIVTEKSAPEVIATCVALGKQQNKTVIVVRDGAGFYTTRILAPYINEATHLLAEGVSIQDIDEALVNFGFPVGPLKLLDEVGIDVVQKIAHILEEAFGGRMKPTSVLEKLVDSHRFGKKNGQGLYRYQKSGGTFKGKGKQVDPSVYPLLGIKPDKKLEANEIAMRCLLPMLNEAVHCYRDGILRSARDGDVGAVFGLGFPPFLGGPFRFMDNRGSGKIVEELTGYQNQLGERFTPDSLLVDMARQRTSFYGEKPI
>NC_014315.1|WP_013220394.1|1516879_1518172_+|acetyl-CoA-C-acyltransferase-FadI
MNKSRQAVIVAGLRTPFAKRRTALKHFSPLDLGKLVCGELLERVDIDPKTVEQVVFGQVIPSLQAPNVAREIVLGLGMPAEIPAYTVSKACITSYQTTVNVLEAIQEGAIMCGIAGGTESASDVPIAVSKPLQEALHEAAGAKTLVQRLLAFKNLSPRDLLPRPPAIAEPTTGETMGEAGERMAKENGISRQAQDEFARRSHQRAARAWREGRFSDEVMAVPIPPQFTATLEEDNLLRPESDLADYAKLKPVFDRKYGSVTAGNSSPLTDGASALLLMNEAKAEALGMPILGRIRSYAFAALDPFDQLLLGPAYATPIALERAGMTLADMDVIDMHEAFAATTLSTIQAFESATFAREKLNRSQPIGKVDWDKLNINGGSIAMGHPFAATGAREIAQTLGELKRRGGGIGLCTACAAGGMGAAMVLEVSP
>NC_014315.1|WP_013220393.1|1514520_1516797_+|acyl-CoA-dehydrogenase
MVTFLLSLRRNLISWPVLKRVRRVLPPLSETEQQALHAGTVGWEVELFSGKPNWQYLHDLPKPRLTEEEQAFLEGPTEELCRLLDDWEINHERKDLPLDVWQFIKNNGFWGMIIPKTYGGLEFSALAHSSVIAKLASRSVTAAVTVMVPNSLGPSELLLLYGTEAQRNHYLPRLARGEELPCFAMTGPTAGSDAASMPDSGVVCHGEYQGKRTLGMRVSWNKRYITLGPVATLLGLAFHLYDPDHLLGEQEDIGITLALVPTATSGVQIGRRHYPSYQAFQNGPTTGEEVFMPLEWIIGGQERAGQGWQMLMECLGVGRSVSLPSLSTGAAKLCARTTGAYARVRTQFRLPIGKFEGVEEVLTRIAGNAYLLDALRTTTAAAVDQGDKPSTLSAIAKYHSTTRMRETINDAMDVHGGKAICEGPSNYLANSYHAIPVSITVEGANILTRGMIIFGQGAIRCHPYLLKEMQAAQNPDEKEGLVAFDQALFGHIGFLLRNFGRSWWYNLSGGRWSPAPEAGVVADYYRQLGRMSASFALVADLTSLILGGELKRREKLSARLGDCLSHLYLLSCLLKRFKDEEQPEQDFPLLHWCSQRELYLIQQTFDEILANYPSRPVGGLLRWVLFPWGRRFGKPSDDVGRQCAELLLSPSSSRDRLTAGVFMGSSEKDPLARLEEAFKMVIAADETSKKLRRAAKDRGLNSLSLEEAVSGGVISEAEAKVAEKAEKLTWEIITVDDFAPEDLSGEQALGREQILSGG
>NC_014315.1|WP_013220392.1|1513460_1514120_-|SOS-response-associated-peptidase
MCGRYTLHTSLERITAHFHLHQTQALAPRFNIAPSQAVPAVRGEPRELILLRWGLIPSWAKEEKTPYNLINARAETVAAKPAFREAFRQRRCLIPADGFYEWKAEADGKQPYYICRRDGEVFAFAGLWEHWQGETGKSIGSCTIIVTGANQLIQPIHDRMPVILEPTDYDAWLNPQNQAASTLTALLKSYPPEKMKAYPISKKVNRPTNDDSACITPLP
>NC_014315.1|WP_013220406.1|1531189_1531489_-|type-I-E-CRISPR-associated-endoribonuclease-Cas2
MLVIVVENAPPRLRGRLALWLLEARAGVYVGDLSRRVREMIWRQVEEGIEEGNAVMIWSTNTESGFDFATLGQNRRMPVELDGLKLVSFYPPEQAENAL
>NC_014315.1|WP_013220407.1|1531469_1532384_-|type-I-E-CRISPR-associated-endonuclease-Cas1
MLPPLKPIQMKERVSIIFIEYGRIDVLDGAFVVIDKTGIRTHIPVGSVACLMLEPGTRVSHAAAALAARVGTLLVWIGEAGVRLYASGQPGGARADRLLYQAKLALDDTARLKVVRKMYEIRFNEKPPERRSIEQLRGIEGARVRKMYQLLAKRYGLQWEKRQYDPHNWDSSDSLNRCVSAANACLYGVTEAAVLAAGYAPAVGFIHTGKPLSFVYDIADIFKFDTVIPAAFQVAAKKLHGGCERQVRLACRDIFRQTKLLAKIIPAIEEILAAGELALPPTPEEAVPVAIPNSKSIGDAGHRS
>NC_014315.1|WP_013220408.1|1532387_1532990_-|type-I-E-CRISPR-associated-protein-Cas6/Cse3/CasE
MYLSKIEIDWRYARDPYQWHRSLWQLFPGQGVAERSFLFRMECPRPGQNVQLLLQSEAAPGEAAAGIRVVARRDYPLSLHSGQFLRFRLIANPIKTIRDGEGRLNRKGVVKSCRVPLLQEEQQEAWLSRKLSGAAMLESVIPTLRPPLYFRKNGKAGKLVTVTFDGVFQVVNPRVLAALIQTGIGPAKAFGCGLLSLARI
>NC_014315.1|WP_013220409.1|1532970_1533639_-|type-I-E-CRISPR-associated-protein-Cas5/CasD
MQSFLMLKLAGMMQAWGSHTYEVYRPSLNFPSRSGLLGLLGACLGLRRDDEAGQLALAQSIRFSVRADERTFSPVKLADFHTVLDARKVGGKISHYPVVSRREYLCDASFTVAVKAAAAAPIPLAALIQAVQQPVFTPYLGRRSCPLQRPLFEAVVEAADSLAALSLVEPLGGVIYSEEGEAELPQLRLRDEPIIVRPRQFASRRAYIHSSSRGESHVPEQD
>NC_014315.1|WP_013220410.1|1533648_1534752_-|type-I-E-CRISPR-associated-protein-Cas7/Cse4/CasC
MKNFINFHVLISHSPSCLNRDDMNMQKSAVFGGVRRVRISSQSLKRAIRHSDYYREYLGKPSVRTRELGRFTKKCVHELEDRYSQDLVIKAIQWLSDKEGIADDTEADAVAPWVVAEVAKYCEAIKMGETEEGFDNKKLAKKIAKESAEFRAATSQGLDIALSGRMTTSGIMTPVDGALAVAHAMTTHAVDSDIDWFTAVDDLVADAGEIGAGHLNTQEFSSGVFYRYASLNIQQLQENLGGTPRERALEIAKHLAHLLATVVPSAKQQSFAAHNLADCVLVSFADIPVSLANAFEAPVQKGKAGGFKEPSVDKLLQYWQQMHRGYGLDEQAALFTLASPGTLPEKMAYHDTLAGLADWVRHGNPLS
>NC_014315.1|WP_013220411.1|1534781_1535222_-|type-I-E-CRISPR-associated-protein-Cse2/CasB
MSTSIDFAALRFRYEQLANGPRAELRRVRSPEGLASIPGFYRLLPGQRASEKWLRVAFCLPWLKHAHEALPLGAQLAKHRIHEQRLFQVIRSTSPNDLLQLRRLLQQVEPTVNWQRFGWQLYFWRPEDKRRLLEEFYLVHSGESAA
>NC_014315.1|WP_157679830.1|1535205_1535853_-|type-I-E-CRISPR-associated-protein-Cse1/CasA
MAKGEKEERYASFTTTAPAWTRLTQFLIDKTGDKEGHTPAAVVSSRRQRSMGRGRRLQLLVGGYRNKQANVIERRHELFSFSPGWEEGGEQLAQLVQVGLEIKQLLRGSLYWAVKGQKNVFKGLGVKVHEPAEARFYALSEPVVHASLRELDVSAFQAQKATFIARLVTLARQLYEEAIAPYQHDPELIHAIAAGRSKFHKELAQLKETHHVDVH
>NC_014315.1|WP_049772948.1|1535783_1536692_-|type-I-E-CRISPR-associated-protein-Cse1/CasA
MNLLTDPWIPVLDDKAFRPINLQALLCQEADGDLALSRDDMELACLQLLVSLTQVLFTPADQRTLRVRIKTPLSEAEFQQGIADYRDWFDLEHPDTPFMQTRGVQAAEVTPIQKLFIGLPEGNNQAFFNAEGEIKTVCGGCAAIGIFNQANNCPSFGGGFKGSLRGSAPITTLIDSPKLRRCIWENVLPESELCLYGGMTPDRPVWVEPIRAGQKLYGNQIGLLRGLFWQPARIELLPESGGACDHCGAKVERRYSGFNKEKFRYEFKGLWLPIAPGYLNWLKERRKNVMPPLPLPLRPGLD
>NC_014315.1|WP_157679832.1|1536688_1538488_-|CRISPR-associated-helicase/endonuclease-Cas3
MPVVFPTFIPHQVQTLVESLPTEAGLTIIEAPTGSGKTEAALAYASKLLAAGLADSIVFALPTQATANAMLKRLESIAGILFPENDSSLVLAHGKARYNPDFIALKEAVRPHTAQAREEALVQCAEWLVQSRKRVFLGQIGVCTIDQVLISVLPVKHKFVRGFGVGKSVLIVDEVHAYDSYMYGLLEAVLSQQRAGGGSAILLSATLPYPQRQQLAAAWQPKASLEEEAPYPLVTYLGANEGPQTWRPAEAEMPRPRTVGLDCLRLPGASPDAGLRYHIIAAATAGAQVAVICNLVDDAQRLAKQLRAQTQVPVDLFHARFRFRDRLAKEQQVLSQYGKEGLRDKGRILVATQVIEQSLDLDFDWMVTQLCPVDLLFQRLGRLHRHSRPRPDGYGEPRCTVLLPEAADYGPHGVIYANRRVLWRTEQRLQQANGQMTFPEAYRDWIESVYAEQAWPDEPESILEAYDGFMAERWAQAQAARSLVNTRMKPFKDEDNKIRVLTRDGEQQLNMLPVQNTADGLALLDGDLLSQLSEWEKAEVLNQQTVAVPSSWNQWLPPAEDTGLHILAMEPIEEGIWEVFLDSVRLRYSREFGLEREKI
>NC_014315.1|WP_157679834.1|1538409_1538928_-|hypothetical-protein
MPNYIGFDGEDEDAWYDYGEAWIPWLSAVTGHHGVLPEEVESPNVADIPKEIRAMDRVARREWVRSLEAWFLHPAGLSLQDQPPALSPLLAGFCAVCDWLGSNSDPRYFPYHNQQEEELLYWERRQENAARVLQDSGICRIPLTRGACLLFFQLLSPIKSRLSWSPCRPKPG

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Crispr_ID: NC_014315_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_014315_2

2056356-2056446

Orphan

Consensus_repeat	Method
GGCTGCAGTCTGCGCGCGTACGAGACAAAC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_014315_2

>merge|NC_014315|2|2056356-2056446|CRISPRCasFinder
GGCTGCAGTCTGCGCGCGTACGAGACAAACGCAACAATGTCTTTGGCTCCGGCGATATCTTGGCTGCAGTCTGCGCGCGTACGAGACAAAC

>NC_014315|2|2|2056356-2056446|CRISPRCasFinder
GGCTGCAGTCTGCGCGCGTACGAGACAAAC	GCAACAATGTCTTTGGCTCCGGCGATATCTT
GGCTGCAGTCTGCGCGCGTACGAGACAAAC

Protein	Signature genes	Signature genes Name	Protein_function
NC_014315.1\|WP_013220805.1\|2050619_2051261_-\|lysophospholipase	unknown	unknown	gnl\|CDD\|238860
NC_014315.1\|WP_013220816.1\|2060990_2062013_-\|phenylalanine--tRNA-ligase-subunit-alpha	unknown	unknown	gnl\|CDD\|234780
NC_014315.1\|WP_013220813.1\|2057947_2058304_-\|MerR-family-transcriptional-regulator	unknown	unknown	gnl\|CDD\|133393
NC_014315.1\|WP_013220814.1\|2058284_2058584_-\|integration-host-factor-subunit-alpha	unknown	unknown	gnl\|CDD\|178961
NC_014315.1\|WP_013220818.1\|2062505_2062703_-\|50S-ribosomal-protein-L35	unknown	unknown	gnl\|CDD\|234676
NC_014315.1\|WP_049773065.1\|2056455_2057259_-\|PEP-CTERM/exosortase-system-associated-acyltransferase	unknown	unknown	gnl\|CDD\|274728
NC_014315.1\|WP_013220822.1\|2067603_2068788_+\|pyridoxal-phosphate-dependent-aminotransferase	unknown	unknown	gnl\|CDD\|235596
NC_014315.1\|WP_041350648.1\|2062765_2063281_-\|translation-initiation-factor-IF-3	unknown	unknown	gnl\|CDD\|234582
NC_014315.1\|WP_013220804.1\|2049869_2050616_-\|clan-AA-aspartic-protease	unknown	unknown	gnl\|CDD\|133150
NC_014315.1\|WP_157679872.1\|2047482_2047620_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|280533
NC_014315.1\|WP_013220806.1\|2051559_2052459_+\|alpha/beta-hydrolase	unknown	unknown	gnl\|CDD\|223669
NC_014315.1\|WP_013220810.1\|2055870_2056338_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|378974
NC_014315.1\|WP_013220815.1\|2058587_2060966_-\|phenylalanine--tRNA-ligase-subunit-beta	unknown	unknown	gnl\|CDD\|234804
NC_014315.1\|WP_013220807.1\|2052445_2052865_-\|YjbQ-family-protein	unknown	unknown	gnl\|CDD\|223509
NC_014315.1\|WP_013220808.1\|2052912_2054112_-\|O-succinylhomoserine-sulfhydrylase	unknown	unknown	gnl\|CDD\|181244
NC_014315.1\|WP_013220803.1\|2047848_2049780_-\|S9-family-peptidase	unknown	unknown	gnl\|CDD\|224423
NC_014315.1\|WP_013220820.1\|2063284_2065219_-\|threonine--tRNA-ligase	unknown	unknown	gnl\|CDD\|234752
NC_014315.1\|WP_013220809.1\|2054645_2055809_-\|hypothetical-protein	unknown	unknown	unknown
NC_014315.1\|WP_041350964.1\|2044731_2046813_-\|catalase	unknown	unknown	gnl\|CDD\|236886
NC_014315.1\|WP_013220817.1\|2062133_2062493_-\|50S-ribosomal-protein-L20	unknown	unknown	gnl\|CDD\|179959

Protein	Function_ID	Function_description	E-value
NC_014315.1\|WP_013220805.1\|2050619_2051261_-\|lysophospholipase	gnl\|CDD\|238860	cd01822, Lysophospholipase_L1_like, Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity.	9.42003e-55
NC_014315.1\|WP_013220816.1\|2060990_2062013_-\|phenylalanine--tRNA-ligase-subunit-alpha	gnl\|CDD\|234780	PRK00488, pheS, phenylalanyl-tRNA synthetase subunit alpha; Validated.	0
NC_014315.1\|WP_013220813.1\|2057947_2058304_-\|MerR-family-transcriptional-regulator	gnl\|CDD\|133393	cd04765, HTH_MlrA-like_sg2, Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.	6.3964e-39
NC_014315.1\|WP_013220814.1\|2058284_2058584_-\|integration-host-factor-subunit-alpha	gnl\|CDD\|178961	PRK00285, ihfA, integration host factor subunit alpha; Reviewed.	6.90725e-64
NC_014315.1\|WP_013220818.1\|2062505_2062703_-\|50S-ribosomal-protein-L35	gnl\|CDD\|234676	PRK00172, rpmI, 50S ribosomal protein L35; Reviewed.	2.93739e-23
NC_014315.1\|WP_049773065.1\|2056455_2057259_-\|PEP-CTERM/exosortase-system-associated-acyltransferase	gnl\|CDD\|274728	TIGR03694, exosort_acyl, N-acyl amino acid synthase, PEP-CTERM/exosortase system-associated. Members of this protein family are restricted to bacterial species with the PEP-CTERM/exosortase system predicted to act in exopolysaccharide-associated protein targeting. PSI-BLAST and CDD reveal relationships to the acyltransferase family that includes N-acyl-L-homoserine lactone synthetase, and recent work shows long-chain N-acyl amino acid biosynthesis activity. Several members of this family may be found in a single genome. These acyltransferases may produce a quorum signalling molecule or may contribute to chemical modifications in exopolysaccharide and biofilm structural material production.	1.63154e-94
NC_014315.1\|WP_013220822.1\|2067603_2068788_+\|pyridoxal-phosphate-dependent-aminotransferase	gnl\|CDD\|235596	PRK05764, PRK05764, aspartate aminotransferase; Provisional.	0
NC_014315.1\|WP_041350648.1\|2062765_2063281_-\|translation-initiation-factor-IF-3	gnl\|CDD\|234582	PRK00028, infC, translation initiation factor IF-3; Reviewed.	1.46205e-94
NC_014315.1\|WP_013220804.1\|2049869_2050616_-\|clan-AA-aspartic-protease	gnl\|CDD\|133150	cd05483, retropepsin_like_bacteria, Bacterial aspartate proteases, retropepsin-like protease family. This family of bacteria aspartate proteases is a subfamily of retropepsin-like protease family, which includes enzymes from retrovirus and retrotransposons. While fungal and mammalian pepsin-like aspartate proteases are bilobal proteins with structurally related N- and C-termini, this family of bacteria aspartate proteases is half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate proteases is classified by MEROPS as the peptidase family A2 (retropepsin family, clan AA), subfamily A2A.	5.65742e-20
NC_014315.1\|WP_041350964.1\|2044731_2046813_-\|catalase	gnl\|CDD\|236886	PRK11249, katE, hydroperoxidase II; Provisional.	0
NC_014315.1\|WP_013220806.1\|2051559_2052459_+\|alpha/beta-hydrolase	gnl\|CDD\|223669	COG0596, MhpC, Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only].	1.29114e-18
NC_014315.1\|WP_013220810.1\|2055870_2056338_-\|hypothetical-protein	gnl\|CDD\|378974	pfam12849, PBP_like_2, PBP superfamily domain. This domain belongs to the periplasmic binding protein superfamily.	3.28529e-06
NC_014315.1\|WP_013220815.1\|2058587_2060966_-\|phenylalanine--tRNA-ligase-subunit-beta	gnl\|CDD\|234804	PRK00629, pheT, phenylalanyl-tRNA synthetase subunit beta; Reviewed.	0
NC_014315.1\|WP_013220807.1\|2052445_2052865_-\|YjbQ-family-protein	gnl\|CDD\|223509	COG0432, COG0432, Uncharacterized conserved protein [Function unknown].	5.00891e-57
NC_014315.1\|WP_013220808.1\|2052912_2054112_-\|O-succinylhomoserine-sulfhydrylase	gnl\|CDD\|181244	PRK08133, PRK08133, O-succinylhomoserine sulfhydrylase; Validated.	0
NC_014315.1\|WP_013220803.1\|2047848_2049780_-\|S9-family-peptidase	gnl\|CDD\|224423	COG1506, DAP2, Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism].	4.17595e-71
NC_014315.1\|WP_013220820.1\|2063284_2065219_-\|threonine--tRNA-ligase	gnl\|CDD\|234752	PRK00413, thrS, threonyl-tRNA synthetase; Reviewed.	0
NC_014315.1\|WP_157679872.1\|2047482_2047620_-\|hypothetical-protein	gnl\|CDD\|280533	pfam02384, N6_Mtase, N-6 DNA Methylase. Restriction-modification (R-M) systems protect a bacterial cell against invasion of foreign DNA by endonucleolytic cleavage of DNA that lacks a site specific modification. The R-M system is a complex containing three polypeptides: M (this family), S (pfam01420), and R. This family consists of N-6 adenine-specific DNA methylase EC:2.1.1.72 from Type I and Type IC restriction systems. These methylases have the same sequence specificity as their corresponding restriction enzymes.	2.50842e-06
NC_014315.1\|WP_013220817.1\|2062133_2062493_-\|50S-ribosomal-protein-L20	gnl\|CDD\|179959	PRK05185, rplT, 50S ribosomal protein L20; Provisional.	4.41333e-63

>NC_014315.1|WP_013220810.1|2055870_2056338_-|hypothetical-protein
MRLLVARPWKCGLVIRLIFILTIIFPVIPEVGAQEVIVNPDAPEMKLTRSTLRAIFSMRLRTWPDGSLIKVFVLSDNSPLHIQFSKKILNIFPYQLRRTWDRLVYSGTGQAPIEVDSIKEMGNKVASTPGAIGYLPGGNTDFRVRVVEKAMGAKR
>NC_014315.1|WP_013220809.1|2054645_2055809_-|hypothetical-protein
MLSLLMNPLQAEWKLPQSLQIHGFVSQAFTLTTDNNFFGDSKDNGSFDFRELGINASWRIMPKLQVAAQGVMRWAGKNDQGDPRLDYGLVDYTFLSNTENTWGLRLGRVINPLGFYNDTRDVAFTRPSIFLPESIYFDRTRDLALSSDGGQIYGERRTRMGDFLFQFNIARPRVGEQEELALLGGDFPGDLGGGTSFSGRLLYEKDGGVVRLGVSSFQVNFSFDSAGVPSNSPLGAGSIKFSPLIFSGQYNGERLSLTSEVALRHFNYSDFGPRIPDTDFTGLSWYFQATYRFTPRWSAVARFDSLCTELGDCNGEDFAAKTGQPAHRRFADDWMVGLRWDVTSSIMVRTEFHHIRGTAWITTEDNPNINDLHEDWNMFSLLVSFRF
>NC_014315.1|WP_013220808.1|2052912_2054112_-|O-succinylhomoserine-sulfhydrylase
MPNDNQGEYGFATLAVRAGQQRTGEAEHAEPIFPTSSFVFESAEAAAACFSGEKEGNIYSRFTNPTVRTFEQRLAALEGGERCVATSSGMAAILATCMALLKAGDHIVSSENIFGTTRVLFNKYLARFGVETTFVPLVRMEAWENALRPNTRLLFLETPANPLNEIADIAQLSRLAQAHDCLLVVDNCFCTPALQRPFELGADLVIHSATKYLDGQGRCVGGAVVGDGQRVGEEIFGFLRTAGPTMSPFNAWVFLKGLETLQLRMEALSRQAQTLAEWLEAEPGIARVYYAGLPSHPQHALASKQQSGFGGLVAFELKGGRAAAWKLIDSLKFISITANLGDVKTTITHPATTTHGRLTEEERLTAGISDGLVRISVGLESIEDIKRDLRRGLGGATRG
>NC_014315.1|WP_013220807.1|2052445_2052865_-|YjbQ-family-protein
MKSYRKELWFNVPSRRGFVNITPQVEECLGDSGVKEGLVLVNAMHITASVFINDDESGLHHDYEQWLEKLAPHEPIRQYRHNDTGEDNADGHMKRQIMGREVVVAVSEGRLDFGPWEQIFYGEFDGRRRKRVLVKIIGE
>NC_014315.1|WP_013220806.1|2051559_2052459_+|alpha/beta-hydrolase
MTNLSNQHVMLKDSRRLGYAEYGDLQGEPLFYCHGFPASRLEARVIDGPARKHGWHIIAVDRPGYGLSDFKPKRRILDWPDDVAELAHILNISSFSLLGMSGGGPYALACAWKIPSCLRGVSIVNSLGPVYQSWAVHEMKWPARLGFGLAKRASRLLPFIYGGIVARALYWFPRLTRSLLTISAPEADSQALKRPDMERFHLGSIQEAFRNGPKGALLDFKLYAHPWGFQLKDISLNIQLWQGEADATVPPSHARYLAKTLPAAQVHYLPNEGHFSVFVNYISNILENLKETRKKPIRQ
>NC_014315.1|WP_013220805.1|2050619_2051261_-|lysophospholipase
MNTINHTWALIKYSLLGAILIAGIACSSGDSTQLSKLSPNGIILAFGDSLTYGTGAGGSQYSYPSILAEKIERQVINEGVPGELSGEGVARLPQVLDRYQPHLVILCHGGNDLLRQRADSQIVANLQKMIELVRERGIEIVLLAVPRPTLLFMESASFYTEIAREYHIPVDNKTLVSLEKNSALKSDRVHLNREGYRLLGEAVFRLLRGSGAL
>NC_014315.1|WP_013220804.1|2049869_2050616_-|clan-AA-aspartic-protease
MVKPFNRRWFAGSILAGYLALGVLGPLQGAGDDPELLPGRTLLEALEDVSAKYGILIKGLEKTSAIPARSVHGSLREQLRQLLFDFNYVLVQSADGSVEKIFVLNQKKAAPAIPQYPEHIVLNTLRKGGHHVVQAIVQGPSGASMEVSLLVDTGASLVVLPASMLSELGFSPGELKSQEIATANGRLQAKIGRLDSFQIGSERMDAVNAAFIEDSLLGSNGLLGMNVLGRYLVTIDDQQNLITLIRQR
>NC_014315.1|WP_013220803.1|2047848_2049780_-|S9-family-peptidase
MLAPVEKPYGAWLSPITADLIVSETIGLGQIALSGDAIYWLEMRPTEGGRNVILGRARDGEVKEINPAPYNARTRVHEYGGGAYLVAGDSVFFSHFEDQRLYRRQIDDSIEPLTPEGDYRYADAIFDRFRNRLVCVREDHTDKTREPVNTLVSIPLDGNGRISVLASGADFYASPRLSPDGSQLAWLTWNHPNMPWDGTDLWLAPVEAAGSLGESKHIAGAADESIFQPEWSPTGTLYFISDRTGWWNLYRWREQKTESVTRMEAELGVPQWVFGLSTYAFESAERIICAYSRNGVSHLASMDAASGVLEELETPYTEIGSLRARAGYAVFIAASPTEFPAVVQFDLATREVEVLRRASEMSIDSGYLSIPEAIQFPTTAGAQSHAFFYPPKNKDFTGLPGERPPLLVISHGGPTAATDSTLSLKIQYWTSRGIAVLDVNYRGSSHYGREYRQQLKGQWGCADVEDCLNGALYLAQRGEVDGERLAIRGSSAGGFTTLAALTFHEVFKAGASYYGVSDLEALAKETHKFESRYLDHLIGPYPERADLYAARSPIHAVDKLSCPVIFFQGLEDKIVPPEQAEGMVEALRGKGVPVAYVPFEGEQHGFRRAENIKRALEAEFYFYSRVFGFDLAEQVEPVAIENL
>NC_014315.1|WP_157679872.1|2047482_2047620_-|hypothetical-protein
MQSSALGSAIRRVVMAPKSKGDYAFMSHMIEARVAKEGRAAVNKA
>NC_014315.1|WP_041350964.1|2044731_2046813_-|catalase
MSKSSKKGVILGQGGELHQQTVNTEETLTTQQGVPVADDQNSLRAGPRGPTLLEDQVMREKIFHFDHERIPERVVHARGYGAHGYFETYESLTDLTCADIFQRKGERTPVFVRFSTVAGNKGSADLPRDVRGFAVKFYTKEGNWDLVGNNIPVFFIQDAIKFPDLVHAAKQEPDRGFPQAQTAHDNFWDFISLTPESMNMIMWTMSDRAIPRSFRFMEGFGVHTFRFVNGGGKSTFVKFHWKPKQGLQSVVWNEALKINGADPDFHRRDLWDAITMGDYPEWELGLQVFDEIFAEKFDFDVLDATKIIPEEEIPVKVVGRLVLDRVVDNFFAETEQVAFCTQNIVPGIDHSDDPLLQGRNFSYLDTQLKRLGSPNFTHIPVNAPKCPMHHFQQDGHMAMHNPKGRANYEPNSWGKEGGPRENPVKGFISYGASVNGPKTRARSETFADHYSQARQFYISQTPIEQKHIGDALMFELSKVEREEIRERVVSHLLNIDDELAKRVARGLGLDKLPKPADAAKPTQKNLPASDKLSIIKNGPKNFKGRKIGILMTDGAAADIFSEVEKVAKSEGALVEVVAPQIGGVKNSKGKKISAGQKIDGGPSVLYDAVVILTSKEGAANLAGFPPAKDFVSDAFAHCKFIGFVEDAKMLLEAAGIAEKVDEGCVLIEDTKSANNFIKRCREVRFWEREKNFS
>NC_014315.1|WP_049773065.1|2056455_2057259_-|PEP-CTERM/exosortase-system-associated-acyltransferase
MSNLITAFEKYFKIIPANVVDSKNRFHRLRYQVYSQELQLPDFEAWRYPDGREIDEYDNRSICSLLYHRESKNLAGGVRLVLCNSDDPLQPFPIEEHAGHYFDKNLVVPNQLPRRTTAEITRLMLARNFRCRGQEALYAHGMDDSNIKDSRSDSRRQFPHPILGLLVALVRMSSECGITHWYAGMEPVLNRRLRQFGANLKPIGPLVEYHGGRRPYLDTIDNVLGRMFRENRAFWELITNHGKLYPDSVKKLSERECRVQILKQGLF
>NC_014315.1|WP_013220813.1|2057947_2058304_-|MerR-family-transcriptional-regulator
MLEASNNNELPPIPGKRYFTIGEVSELCHVKQHVLRYWEQEFPQLKPVKRRGNRRYYQRQDVIMIRQIRNLLYEQGFTIGGARQKLSGAEAREDSTQSRQIIRQLRLELEEIMSLLKT
>NC_014315.1|WP_013220814.1|2058284_2058584_-|integration-host-factor-subunit-alpha
MALTKADMTEILYQELGLNKREAKEIVEMFFEDIRCALEQGEAVKLSGFGNFELRDKGERPGRNPKTGEEIPITARRVVTFRPGQKLKARVEAYAGGKQ
>NC_014315.1|WP_013220815.1|2058587_2060966_-|phenylalanine--tRNA-ligase-subunit-beta
MKFSEAWLRTWVDPDISRENLVERLTLAGLEVESTEPVAATFKGVKAAKIVAVKPHPSAHCLQICQVDIGSDSLLTVVCGAPNARVGLWAPLAIVGAQLPAGIRIEPVTLQGVKSFGMLCSAAELGLAEQSAGLLELPEGASPGTDLHEFLQLDDISIEIDLTPNRSDCLSVAGIAREVGVLTQSPVTEPAIEPVTAQIEDIFPVTVAAPAACPRYLGRVLRGVNPQTQTPWWLRERLRRSGLRSLGLVVDVTNYVMLELGQPMHAFDLERLKGGIQVRYGQADEALTLLDGTPLRLDEETLVIADQQRALALAGIMGGEESGINNQTRHLFLESAFFNPSVIAGRARFYGLHTDSSHRFERGVDSELPRRAMERATALLLEIAGGQAGPVIEVVDSSQLPPQATIILRKARIHRVLGVEIAESRITEQLTRLGLEVERIEEGWEAKVPSFRFDLALEVDLIEELGRLYGYDRLPSTRPVGQIQPVLKTEAGVFIDRIRQVLVDRDYQEAITYSFVDQGLQQLLDPDESPLALNNPISTDMAVMRTTLWPGLIQALQYNSYRQQERIRFFEHGLTFNGQLTDLKQERTVAGLISGASYPEQWGLASRPADFFDLKGDVEAILALGGQRNCFEFVAASHPALHPGQSAQILREGQVVGWLGALHPLLESKLDLSSRAYLFSLRLEAVERGSLPVFQSLSKFPAIRRDIAFLVDTNIPVQAVFDCLKGCESDILKELQLFDVYTGKGIDPDKKSLALKFILQHPSYTLTDDKVNIFIERVVALLVAELGAIMRE
>NC_014315.1|WP_013220816.1|2060990_2062013_-|phenylalanine--tRNA-ligase-subunit-alpha
MQEALAEIVAKARRAVSAAPDLPTLDELRVRYLGKKGELTNHFKALGQVSAEERPIFGKAVNEAKQAVQNEIEARRKDLEQAALEVRLASETIDVTLPGRGLDVGGLHPVTRTLMRIEAFFRYAGFEIHEGPEVEDDYHNFEALNIPSSHPARAMHDTFYFDAHTLLRTHTSPVQIRVMEHRGPPLRIIAPGRVYRCDSDLTHTPMFHQVEGLLVDEQVSFTDLKGTLADFLRAYFEREDLEVRFRPSYFPFTEPSAEMDIQCVNCGGKGCRVCGHTGWLEVLGCGMVHPKVFEHADIDSERYLGFAFGLGVERLAMLRYGVDDLRLFFENDLRFLRQFN
>NC_014315.1|WP_013220817.1|2062133_2062493_-|50S-ribosomal-protein-L20
MPRVKRGVTAHARHKKVIAQAKGYRGRRKNVYRVANQAVTRASQYAYRDRRQRKRQFRALWIVRINAAARECGLSYSRLISGLKQAAIEIDRKVLADLAVRDKAAFTTIAEQAKAALAN
>NC_014315.1|WP_013220818.1|2062505_2062703_-|50S-ribosomal-protein-L35
MPKLKTNRGAAKRFKRTASGKFKHAQSHHNHILTKKSSKRKRKLRPLAVVSAADGPRLDRMLPYA
>NC_014315.1|WP_041350648.1|2062765_2063281_-|translation-initiation-factor-IF-3
MAVKKSTRLNEEITSPEVRLIGVDGEQIGVVSIEEALHVADEAGEDLVEIAPQADPPVCRIMDYGKYLFEENKKRQAAKKKQKQIQIKEVKFRPGTEEGDYQVKLRSLVRFLTEGDKTKVSLRFRGRELAHQELGLKLLERVRNDLEEYGVVEQHPKREGRQMVMVLAPKK
>NC_014315.1|WP_013220820.1|2063284_2065219_-|threonine--tRNA-ligase
MPVITLPDGSQRGFDHPVTVYDVAADIGPGLAKAALGGKIDGRLVDSAYPLERDTKLTIITERDTDGLEIIRHSCAHLLAQAVKALYPEAQVTIGPVIEDGFYYDFAYPEGFTPEDLEAIEAKMRELVEQDIAVHRELKSREEAISLFRRMGEEYKAEIIASIPSEEEISLYRQGDFVDLCRGPHVPSTAKLKAFKLTKVAGAYWRGDANNEMLQRIYGTAWPDKKALEAYLHRLEEAEKRDHRRIGSDLDLFSIQEEAGGGLVFWHPMGARIRRVIEDFWQERHTAASYETLYTPHIAHEELWQTSGHTDFYRESMYQPMEDDHQLYQLKPMNCPFHVLVYQGRLRSYRELPIRWAELGTVYRHEMSGALHGLMRVRGFTQDDAHIFCREEQIENEILGILDLTLEMLAAFGFDRYEIDLSTRPEKSVGPEAIWDQATQALRSALDKKGLDYAVDEGGGAFYGPKIDIKIEDAIGRKWQCSTVQLDFNLPERFAMEYVAEDGARHRPIMIHRAVLGSLERFFGVLIEHYEGKFPPWLAPIQVVVMSITDRQEGYARQVEETMKNKGFRSLLDLRNEKIGFKIREHTLRRIPYLLVIGDREVANQTVAVRTRYSQDLGVMSLDAFMEHLSVDVARLGRNISEED
>NC_014315.1|WP_013220822.1|2067603_2068788_+|pyridoxal-phosphate-dependent-aminotransferase
MDITLSNRVQKIKPSPTLAITARAKALRAEGKDIIGLGAGEPDFDTPEHIKEAAIQAIRDGFTKYTAVDGIPSLKEAIIAKFSRENGFQYELNQILVSVGGKQSFYNLAQALLNPGDEVIIPAPYWVSYPDMVLLAGGIPVVIAAPQEQAFKITPEQLEAAITPLTRLLVINSPSNPTGTAYRNDELAALGEVLRRHPQILIATDDMYEHIYWGETPFCNILNACPDLYERTLVLNGVSKAYSMTGWRIGYAAGAPTLIKAMKAIQSQSTSNPTSISQVAAQAAIAGEQACVKAMCQEFKNRHDFVLEYLNGIPGVQTLAGSGTFYTFPNFQAAIASREDIKDDVELAENMLNAAGVAVVPGSAFGARGHLRLSFATSMENLEQALERIAAFLS

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Crispr_ID: NC_014315_3

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_014315_3

3072312-3072820

TypeI-F

I-F:NA

Consensus_repeat	Method
GGTTCACCGCCGCACAGGCGGTTTAGAAA	CRISPRCasFinder
GTTCACCGCCGCACAGGCGG	PILER-CR
GTTCACNGCCGCACAGGCNGNTTAGAAA	CRT

8 spacers

cas6f,cas7f,cas5f,cas8f,cas1,c2c9_V-U4

The CRISPR arrays of NC_014315_3

>merge|NC_014315|3|3072312-3072820|CRISPRCasFinder,PILER-CR,CRT
TGTTCACCGCCGCACAGGCGGTTTAGAAATTTGGGCGAGATGTTGTGGGCCGGTTGCCAAGGTTCACCGCCGCACAGGCGGTTTAGAAAAGTAAGCAGAAGTCGAACGGGTCATTGCACTGGTTCACCGCCGCACAGGCGGTTTAGAAACCTATCTTGACGTTAGAGAGTATGTCTGGACGGTTCACCGCCGCACAGGCGGTTTAGAAAACGATGGGCAGGTTACAAGCAATGCGGTTAAAGTTCACCGCCGCACAGGCAGCTTAGAAAAGTATGTTTAATTAACTGCTTTTACATTAGATGTTCACTGCCGCACAGGCAGCTTAGAAACTTAGGACAGCAGCGAATGGACGCAAAACAGAGTTCACTGCCGCACAGGCAGCTTAGAAACATCAGTTGCCGGAGTTATTTCATGTATTTCTGTTCACCGCCGCACAGGCGGTTTAGAAATAGATTTCTTTCCGTTGCAGCCATTTTACGGAGTTCACTGCCGCACAGGCAGTAAAGTTA

>NC_014315|3|3|3072312-3072820|CRISPRCasFinder
TGTTCACCGCCGCACAGGCGGTTTAGAAA	TTTGGGCGAGATGTTGTGGGCCGGTTGCCAA
GGTTCACCGCCGCACAGGCGGTTTAGAAA	AGTAAGCAGAAGTCGAACGGGTCATTGCACT
GGTTCACCGCCGCACAGGCGGTTTAGAAA	CCTATCTTGACGTTAGAGAGTATGTCTGGAC
GGTTCACCGCCGCACAGGCGGTTTAGAAA	ACGATGGGCAGGTTACAAGCAATGCGGTTAA
AGTTCACCGCCGCACAGGCAGCTTAGAAA	AGTATGTTTAATTAACTGCTTTTACATTAGA
TGTTCACTGCCGCACAGGCAGCTTAGAAA	CTTAGGACAGCAGCGAATGGACGCAAAACAG
AGTTCACTGCCGCACAGGCAGCTTAGAAA	CATCAGTTGCCGGAGTTATTTCATGTATTTC
TGTTCACCGCCGCACAGGCGGTTTAGAAA	TAGATTTCTTTCCGTTGCAGCCATTTTACGG
AGTTCACTGCCGCACAGGCAGTAAAGTTA

>NC_014315|3|1|3072313-3072812|PILER-CR
GTTCACCGCCGCACAGGCGG	TTTAGAAATTTGGGCGAGATGTTGTGGGCCGGTTGCCAAG
GTTCACCGCCGCACAGGCGG	TTTAGAAAAGTAAGCAGAAGTCGAACGGGTCATTGCACTG
GTTCACCGCCGCACAGGCGG	TTTAGAAACCTATCTTGACGTTAGAGAGTATGTCTGGACG
GTTCACCGCCGCACAGGCGG	TTTAGAAAACGATGGGCAGGTTACAAGCAATGCGGTTAAA
GTTCACCGCCGCACAGGCAG	CTTAGAAAAGTATGTTTAATTAACTGCTTTTACATTAGAT
GTTCACTGCCGCACAGGCAG	CTTAGAAACTTAGGACAGCAGCGAATGGACGCAAAACAGA
GTTCACTGCCGCACAGGCAG	CTTAGAAACATCAGTTGCCGGAGTTATTTCATGTATTTCT
GTTCACCGCCGCACAGGCGG	TTTAGAAATAGATTTCTTTCCGTTGCAGCCATTTTACGGA
GTTCACTGCCGCACAGGCAG

>NC_014315|3|1|3072313-3072820|CRT
GTTCACCGCCGCACAGGCGGTTTAGAAA	TTTGGGCGAGATGTTGTGGGCCGGTTGCCAAG
GTTCACCGCCGCACAGGCGGTTTAGAAA	AGTAAGCAGAAGTCGAACGGGTCATTGCACTG
GTTCACCGCCGCACAGGCGGTTTAGAAA	CCTATCTTGACGTTAGAGAGTATGTCTGGACG
GTTCACCGCCGCACAGGCGGTTTAGAAA	ACGATGGGCAGGTTACAAGCAATGCGGTTAAA
GTTCACCGCCGCACAGGCAGCTTAGAAA	AGTATGTTTAATTAACTGCTTTTACATTAGAT
GTTCACTGCCGCACAGGCAGCTTAGAAA	CTTAGGACAGCAGCGAATGGACGCAAAACAGA
GTTCACTGCCGCACAGGCAGCTTAGAAA	CATCAGTTGCCGGAGTTATTTCATGTATTTCT
GTTCACCGCCGCACAGGCGGTTTAGAAA	TAGATTTCTTTCCGTTGCAGCCATTTTACGGA
GTTCACTGCCGCACAGGCAGTAAAGTTA

Protein	Signature genes	Signature genes Name	Protein_function
NC_014315.1\|WP_013221697.1\|3073966_3074362_+\|IS200/IS605-family-transposase	unknown	unknown	gnl\|CDD\|376616
NC_014315.1\|WP_013221691.1\|3067009_3067897_-\|type-I-F-CRISPR-associated-endonuclease-Cas1	cas1	cd09718_cas1_CAS-I-F	gnl\|CDD\|187849
NC_014315.1\|WP_013221687.1\|3061046_3061301_+\|Txe/YoeB-family-addiction-module-toxin	unknown	unknown	gnl\|CDD\|284238
NC_014315.1\|WP_013221688.1\|3061605_3062295_-\|DUF1294-domain-containing-protein	unknown	unknown	gnl\|CDD\|377743
NC_014315.1\|WP_013221699.1\|3075586_3076006_-\|protoporphyrinogen-oxidase-HemJ	unknown	unknown	gnl\|CDD\|367596
NC_014315.1\|WP_002813110.1\|3084715_3084940_-\|30S-ribosomal-protein-S18	unknown	unknown	gnl\|CDD\|178997
NC_014315.1\|WP_013221705.1\|3084179_3084635_-\|50S-ribosomal-protein-L9	unknown	unknown	gnl\|CDD\|234659
NC_014315.1\|WP_013221689.1\|3062291_3062504_-\|plasmid-maintenance-system-killer-protein	unknown	unknown	gnl\|CDD\|282822
NC_014315.1\|WP_013221693.1\|3069544_3070474_+\|CRISPR-associated-protein-Csy2	cas5f	cd09736_cas5f_CAS-I-F	gnl\|CDD\|187867
NC_014315.1\|WP_013221695.1\|3071575_3072181_+\|type-I-F-CRISPR-associated-endoribonuclease-Cas6/Csy4	cas6f	cd09739_cas6f_CAS-I-F:CAS-IV	gnl\|CDD\|187870
NC_014315.1\|WP_013221690.1\|3062624_3063482_+\|DUF4743-domain-containing-protein	unknown	unknown	gnl\|CDD\|178432
NC_014315.1\|WP_013221703.1\|3081577_3082648_-\|alanine-racemase	unknown	unknown	gnl\|CDD\|143500
NC_014315.1\|WP_013221686.1\|3060798_3061050_+\|type-II-toxin-antitoxin-system-prevent-host-death-family-antitoxin	unknown	unknown	gnl\|CDD\|171099
NC_014315.1\|WP_013221702.1\|3080201_3081572_-\|DNA-repair-protein-RadA	unknown	unknown	gnl\|CDD\|236994
NC_014315.1\|WP_013221692.1\|3068198_3069548_+\|hypothetical-protein	cas8f	cls000148_cas8f_CAS-I-F	gnl\|CDD\|378220
NC_014315.1\|WP_013221694.1\|3070496_3071561_+\|type-I-F-CRISPR-associated-protein-Csy3	cas7f	cd09737_cas7f_CAS-I-F	gnl\|CDD\|187868
NC_014315.1\|WP_013221701.1\|3077154_3080148_+\|EAL-domain-containing-protein	unknown	unknown	gnl\|CDD\|182070
NC_014315.1\|WP_013221704.1\|3082677_3084099_-\|replicative-DNA-helicase	unknown	unknown	gnl\|CDD\|273206
NC_014315.1\|WP_013221698.1\|3074362_3075484_+\|IS200/IS605-family-element-transposase-accessory-protein-TnpB	c2c9_V-U4	-	gnl\|CDD\|223747
NC_014315.1\|WP_041350793.1\|3076353_3077034_+\|IS200/IS605-family-element-transposase-accessory-protein-TnpB	c2c9_V-U4	-	gnl\|CDD\|223747

Protein	Function_ID	Function_description	E-value
NC_014315.1\|WP_013221697.1\|3073966_3074362_+\|IS200/IS605-family-transposase	gnl\|CDD\|376616	pfam01797, Y1_Tnp, Transposase IS200 like. Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS200 from E. coli.	2.08866e-52
NC_014315.1\|WP_013221691.1\|3067009_3067897_-\|type-I-F-CRISPR-associated-endonuclease-Cas1	gnl\|CDD\|187849	cd09718, Cas1_I-F, CRISPR/Cas system-associated protein Cas1. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas1 is the most universal CRISPR system protein thought to be involved in spacer integration; Cas1 is metal-dependent deoxyribonuclease, also binds RNA; Shown to possess a unique fold consisting of a N-terminal beta-strand domain and a C-terminal alpha-helical domain.	1.07309e-175
NC_014315.1\|WP_013221687.1\|3061046_3061301_+\|Txe/YoeB-family-addiction-module-toxin	gnl\|CDD\|284238	pfam06769, YoeB_toxin, YoeB-like toxin of bacterial type II toxin-antitoxin system. YoeB_toxin is a family of bacterial toxins that forms one component of the type II toxin-antitoxin system in E. coli whose antitoxin is represented by YefM, found in pfam02604. The plasmid encoded Axe-Txe proteins in Enterococcus faecium act as an antitoxin-toxin pair. When the plasmid is lost, the antitoxin is degraded relatively quickly by host enzymes. This allows the toxin to interact with its intracellular target, thus killing the cell or impeding cell growth. These toxins are highly potent protein synthesis inhibitors, specifically blocking the initiation of translation. In the case of YoeB, it binds to the 50 S ribosomal subunit in 70 S ribosomes and interacts with the A site leading to mRNA cleavage at this site. As a result, the 3'-end portion of the mRNA is released from ribosomes, and translation initiation is effectively inhibited.	1.00302e-41
NC_014315.1\|WP_013221688.1\|3061605_3062295_-\|DUF1294-domain-containing-protein	gnl\|CDD\|377743	pfam06961, DUF1294, Protein of unknown function (DUF1294). This family includes a number of hypothetical bacterial and archaeal proteins of unknown function.	3.98627e-25
NC_014315.1\|WP_013221699.1\|3075586_3076006_-\|protoporphyrinogen-oxidase-HemJ	gnl\|CDD\|367596	pfam03653, UPF0093, Uncharacterized protein family (UPF0093).	2.20035e-57
NC_014315.1\|WP_002813110.1\|3084715_3084940_-\|30S-ribosomal-protein-S18	gnl\|CDD\|178997	PRK00391, rpsR, 30S ribosomal protein S18; Reviewed.	1.11263e-37
NC_014315.1\|WP_013221705.1\|3084179_3084635_-\|50S-ribosomal-protein-L9	gnl\|CDD\|234659	PRK00137, rplI, 50S ribosomal protein L9; Reviewed.	2.97153e-58
NC_014315.1\|WP_013221689.1\|3062291_3062504_-\|plasmid-maintenance-system-killer-protein	gnl\|CDD\|282822	pfam05015, HigB-like_toxin, RelE-like toxin of type II toxin-antitoxin system HigB. This family carries several different examples of type II bacterial toxins of toxin-antitoxin systems including many HigB-like ones. The fold is referred to as the RelE/YoeB/Txe/Yeeu fold suggesting all examples of these are present in this family. Several plasmids with proteic killer gene-systems have been reported. All of them encode a stable toxin and an unstable antidote. Upon loss of the plasmid, the less stable inhibitor is inactivated more rapidly than the toxin, allowing the toxin to be activated. The activation of these systems results in cell filamentation and cessation of viable cell production. It has been verified that both the stable killer and the unstable inhibitor of the systems are short polypeptides. This family corresponds to the toxin.	0.00206225
NC_014315.1\|WP_013221693.1\|3069544_3070474_+\|CRISPR-associated-protein-Csy2	gnl\|CDD\|187867	cd09736, Csy2_I-F, CRISPR/Cas system-associated RAMP superfamily protein Csy2. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein; predicted Cas5 ortholog.	3.63727e-72
NC_014315.1\|WP_013221695.1\|3071575_3072181_+\|type-I-F-CRISPR-associated-endoribonuclease-Cas6/Csy4	gnl\|CDD\|187870	cd09739, Cas6_I-F, CRISPR/Cas system-associated RAMP superfamily protein Cas6f. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Cas6f is an endoribonuclease that generates crRNA; This family is specific for CRISPR/Cas system I-F subtype; Possesses RRM fold; also known as Csy4 family.	4.25317e-43
NC_014315.1\|WP_013221690.1\|3062624_3063482_+\|DUF4743-domain-containing-protein	gnl\|CDD\|178432	PLN02839, PLN02839, nudix hydrolase.	3.2287e-85
NC_014315.1\|WP_013221703.1\|3081577_3082648_-\|alanine-racemase	gnl\|CDD\|143500	cd06827, PLPDE_III_AR_proteobact, Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases. This subfamily is composed mainly of proteobacterial alanine racemases (EC 5.1.1.1), fold type III PLP-dependent enzymes that catalyze the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. hese proteins are similar to other bacterial ARs and are fold type III PLP-dependent enzymes containing contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity.	0
NC_014315.1\|WP_013221686.1\|3060798_3061050_+\|type-II-toxin-antitoxin-system-prevent-host-death-family-antitoxin	gnl\|CDD\|171099	PRK11409, PRK11409, YoeB-YefM toxin-antitoxin system antitoxin YefM.	1.91087e-25
NC_014315.1\|WP_013221702.1\|3080201_3081572_-\|DNA-repair-protein-RadA	gnl\|CDD\|236994	PRK11823, PRK11823, DNA repair protein RadA; Provisional.	0
NC_014315.1\|WP_013221692.1\|3068198_3069548_+\|hypothetical-protein	gnl\|CDD\|378220	pfam09611, Cas_Csy1, CRISPR-associated protein (Cas_Csy1). CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) is a widespread family of prokaryotic direct repeats with spacers of unique sequence between consecutive repeats. This entry, typified by YPO2465 of Yersinia pestis, is a CRISPR-associated (Cas) entry strictly associated with the Ypest subtype of CRISPR/Cas locus. It is designated Csy1, for CRISPR/Cas Subtype Ypest protein 1.	4.87648e-07
NC_014315.1\|WP_013221694.1\|3070496_3071561_+\|type-I-F-CRISPR-associated-protein-Csy3	gnl\|CDD\|187868	cd09737, Csy3_I-F, CRISPR/Cas system-associated RAMP superfamily protein Csy3. CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; RAMP superfamily protein; predicted Cas7 ortholog.	4.97744e-146
NC_014315.1\|WP_013221701.1\|3077154_3080148_+\|EAL-domain-containing-protein	gnl\|CDD\|182070	PRK09776, PRK09776, putative diguanylate cyclase; Provisional.	0
NC_014315.1\|WP_013221704.1\|3082677_3084099_-\|replicative-DNA-helicase	gnl\|CDD\|273206	TIGR00665, DnaB, replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of > 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites. [DNA metabolism, DNA replication, recombination, and repair].	0
NC_014315.1\|WP_013221698.1\|3074362_3075484_+\|IS200/IS605-family-element-transposase-accessory-protein-TnpB	gnl\|CDD\|223747	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	3.17797e-43
NC_014315.1\|WP_041350793.1\|3076353_3077034_+\|IS200/IS605-family-element-transposase-accessory-protein-TnpB	gnl\|CDD\|223747	COG0675, COG0675, Transposase and inactivated derivatives [DNA replication, recombination, and repair].	5.57667e-21

>NC_014315.1|WP_013221695.1|3071575_3072181_+|type-I-F-CRISPR-associated-endoribonuclease-Cas6/Csy4
MFSDYFEIQSIGLPEDTHFILSKLFTRIHGVLKSESLNIGLGFPELSRHSPGSIVRCFGVSRELEQLQRNNGITHLEGRGMIAIKPIATVPPDAIAIAYRRDRSAEKDLAGFRQRQMRRRVRRAEHAQNQPETSLRIEAKSRLQDNEKAERPPYLLLEREGRRLPIHINTASLQINTNICQFSSYGLARKVEDKYSAVPMF
>NC_014315.1|WP_013221694.1|3070496_3071561_+|type-I-F-CRISPR-associated-protein-Csy3
MATVQLPSLLNYTRSIVPSEGTFWVANADNRPLLIQDKTVLGTIANYSSVYKKDKQRDEDAINKEMMAGDNNIQRVDSCHLPADVDTFELRFTLKFLANANGPEACEGAEFREDLESIAQAYADKGGFTVLAERYLANLLNGRFLWRNRYGAQRQITLRAPYNEEIKETTFEIIDRSEPTLPQGRMDKLKPWIEHITQALSGKIPYFLMEISARVTIGLGQEVYPSQEFVDKDSRGQGKKSKTLFSVQVADQQVAAMHSQKIGNAIRTIDNWYPNASADRPLAVDPFTVDKRRARTVRLPDHEKSDFYSFLKNLPALKDDIECAPDAKAIPGHAHYFMAVLIRGGVFSGEKKAK
>NC_014315.1|WP_013221693.1|3069544_3070474_+|CRISPR-associated-protein-Csy2
MSSYHLLLPTLNVTGCNWESSHLTRSLPLTAMAGFVDYLMSFELADNAAEAGANLEGFAICLHGGQIYEGLSKNPLALCKGNGLSQARDDLLNPPLTPEVKGSVSLSLVVALELEDKSALNEWLKNRATAFLQTCRLAGGDIIGIGQPKVYIERSKLAQEIRRLPPGWFIGNGAELISNAPDPFAALLNAVAWFPVKDKEPQTTSAHPSPSRQRPYPGHWLYATCVGYQLLESPQPRRNRSHASSDADSATNHAYAEPVHSLAELVWARNLLRPQDDSTADDWLTENNLLWRWESDAPSRTVYLSTQAL
>NC_014315.1|WP_013221692.1|3068198_3069548_+|hypothetical-protein
MLIDNLTQALSASEGSSAEQLKQIKSQFLGHCRAPVKVADEDVSPLLIAAINFAYGSPTSSEQLLSGESAKAALTAKVIDKTIAGTFIWAALASHMGTHHPKSRNDKVSSGPIVARSLTPPPAGLVTSANLRTRQFSGSGNGANTAHYQWLAFTYEDSAGVFSVIERAASQDERLGETVLTLGIQESQWQAFQEAAKAHLETTNLAPLDRQLKQVFIPDPGQNNDFIVITPLAATAVIGAFEQHRSKLREQDANLNFHRIGVGGAKPQNAGSLMNELGGNLRQLTMTIPRLDLTQRQRRLWHLQQGRLFQPLPKKEARRFQQWLALEWTQRYGNRQDHLQRLEQRIDEWLSPELEEQDQLFAWLSSDALDANNERQKFETGNVPNWILTLAGISKNPETGHSVYEARQEAAYDALIFHLNSPGDEINKLIRDALESLLATRHSVGEAVA
>NC_014315.1|WP_013221691.1|3067009_3067897_-|type-I-F-CRISPR-associated-endonuclease-Cas1
MPILPSHRQGLYYLEHCRVMAKDERVVYARQEGAFTKFFAIPPANTNVILLGSGTSLTQAAARLLASEQVMVAFVGGGGSPLFLASQNEYRPTEYCQAWMRLWQDNDQRLRVAKTFQRNRAEFLMQQWPKLAEPKPHKASLEKLAERYLADIELAGDNGTILVQEAKFAKELYGLWKICPGAENFTRDPGKRDFNDPFNSYLDHGNYLAYGIAAAVLWVLGIPHSLPVIHGTTRRGALVFDVADIIKDTCVMPIAFQYAAAGRSDQEMRQACIAWLDESHAMTFLFQSIKRVARL
>NC_014315.1|WP_013221690.1|3062624_3063482_+|DUF4743-domain-containing-protein
MSYLHQIKACNGYTLKDFRPFYVDEVQVGHIRSSFAEKLQSWPAVFRVTPAAVYLAPDLRSFATRTEKVKDVLKALLEKGILPRWHGEEYPVTASSREAALFAIDRGAAPYFGIRAFGQHLNGFVYDGGQLKIWIGRRSPTKWNAPDKLDNLVAGGVPHGVPLGENLAKECWEEAAIPSDLAAQAIPVGYISYRMETAQGFKPDVMYCYDLELPSDFMPQCQDGEVEEFYLWPMEKVAALVRETHSFKKNCNLVVIDFLIRRGFITPEHPDYLEMVAGLRVPLEA
>NC_014315.1|WP_013221689.1|3062291_3062504_-|plasmid-maintenance-system-killer-protein
MMTGKSLWRKGLKKFYKFGSASGAQPQYARRLKIRLVALDIAHVIEDIDILGFSLPSLQGWDKGREETRL
>NC_014315.1|WP_013221688.1|3061605_3062295_-|DUF1294-domain-containing-protein
MRMKGEIASWNDEKGYGFISPMRGGDRVFAHIKAFVNRGRRPAVGDAVTFSMSTDARGRHCAKEAIIAGVPKTEKSKRSSALPNVLAAGFLLIVVSAVSVSAIPMQILLLYLVVSTAAFGAYALDKSAAKRGAWRTSESTLHLLALVGGWPGALIAQSRLRHKSRKQPFRAVFWATVVMNCAAFVWLFTPEGAKAWQSVVSLVINCAEFIWLLIPEAAKAWQFVVSMIA
>NC_014315.1|WP_013221687.1|3061046_3061301_+|Txe/YoeB-family-addiction-module-toxin
MKLVFAENAWDDYLYWQKTDKRILKRINTLIKHIAHEPFEGIGKPEPLKHALSGYWSRRINEEHRIVYKIQEDSLFIAQLRYHY
>NC_014315.1|WP_013221686.1|3060798_3061050_+|type-II-toxin-antitoxin-system-prevent-host-death-family-antitoxin
MESISYTAARSNLAKTMEQVCNDHAPIAITRKGESAVVMISMEDYQALEETAYLLRSPKNTRRLIESIAELEMGKGREKELLE
>NC_014315.1|WP_013221697.1|3073966_3074362_+|IS200/IS605-family-transposase
MSRYAKNAGAVFSLKLHLVWCPKYRRGVLVGEIAERLCALLHKKADELEMTLHALEVMPDHVHLFVEFDPRWGVAEIVNRFKGFTSKELRKEFPILRSRLPTLWSRSYYAVTVGHVSESTVRAYIENQKGK
>NC_014315.1|WP_013221698.1|3074362_3075484_+|IS200/IS605-family-element-transposase-accessory-protein-TnpB
MIKAFKYRLYPNAHQARELEIALETHRRLYNARLEQRKAAYELEKKSVKYAEQSSWFKHERSTNPYFARLNFSSAQATMRRLDKAFQAFFRRIKAGEKPGYPRFKARGRFDSWTYPAHGDGARLLHDQLRFQHVGLVKVRQHRPVEGAVKIVQVKNEAGRWFVIASCDIGDGPAPRAEDTSVGLDVGLEYFLSTDQGERVNNPRYQKEALRRLRIAGRAVSRKRKGGRNRAKAVARLRAIQARVANKRRDHHHKVARDLVSRYAFIAAESLTVRNRVRNRRLSRSISDAGWRQFLNILRAKAESAGSVLVEVPPQGISQACSGCGAVVRKALSVRTHKCPACSLRLQRDVNAARNILARGQARLESVRLNVAQ
>NC_014315.1|WP_013221699.1|3075586_3076006_-|protoporphyrinogen-oxidase-HemJ
MLWIKAFHIIFVVTWFAGLFYLPRLFVYHAQCQDKPGRERFKVMERKLYRGIMHPSAILAVGLGVWLIYLTPAWMEAGWLHVKLSLVLLLIAYHLYCGWLLIAFREERNRHSHVYYRWFNEFPVLILIGAVILVVVKPF
>NC_014315.1|WP_041350793.1|3076353_3077034_+|IS200/IS605-family-element-transposase-accessory-protein-TnpB
MKAYQLRLYPTLKQRRQLEKEFSACRYVWNWALDRRTRAYKEKGESLNAIALSRELTALKLAKAARGGHNRRKQRSRVARLHQRIASKRANFLHGLSTSIVRENQAIAIEDLNVRGMMANGKLARSVGDCGWYELRRQLTYKAKWYGRQLNVVPRFQRTTGVCPDCGTVGEKLPLRVRSWTCGHCGSAHDRDIAAARVIDLMGNTARSVGIDACGLAHKPEEAVTP
>NC_014315.1|WP_013221701.1|3077154_3080148_+|EAL-domain-containing-protein
MGGKPLTRAQGIRFLAVGLAYFLTALLEITLTSQGDNIAVLWPPNAILIGVLLRAKSCYRPVYFGICLLADLVASKVMGEATSIALGFMLANGLAVAVTVAFMQRLIPLPVTLHEPWQLLALVGAGLLGTAVGAAFIGVTYGTFYWAAWPTWWLADVVSIALITPVLLSASWPVAKTLLTKRTAETAAALLIAAAVTVGVFHSSSYALVYLTAPVMLWFSFRLGLFACGVLGLVITIIVVALTLQGVGPIASQVGGISLTTIQTLQIYLSLVILPALMISIERENRLRAEAEIIQSQARYRSLYHDTPAMLHSIDRQGRLLSVSAYWLTIMGYERDEVIGRRSTDFMTDASRRYAIEVVLPAFMRSGVCRDIPYQMVKKNGEVFDVLLSATAEHNPDGSVAHSLTVMHDVTARKRAETALVAEKERAQVTLESIGDGVITTDANGRINYLNPIAEAMTGWLLAAAQDKALQEVFQIINESTCEPAADPLAPCLTGNPIVRSTHSTVLINRHGTEYSIEISAAPIRDSNRQVLGAVLVFHDVSEQRRLQREIAHQAQHDALTGLVNRREFEQRLQRVIEAAQTQNSEHALCYLDLDQFKVVNDTCGHTAGDSLLQQLATLFEKNIRRHDTLARLGGDEFGLLLEHCPLDSALRIVNTLRQTVEDFRFCWNGQYFRIGVSIGLVPINSANSSVASVLRAADSACYVAKDSGRNRIHIYREHDVDLARRHGEMQWVARIQQALEEDRFQLYAQPIVPFKKLPSGGIHCELLLRLVENDGKISPPGAFMPAAERYNLAVAIDRWVVSQALRWLATHPALLDRIMLCTINLSGRSIGDRFFHAYVLRQFDDTGLSAKKICFEITETAAVANLADATRFMQALKKRGCRFSLDDFGSGLSSFAYLKALPVDFLKIDGLFVKDIVHDPIDLAMVRSINEIGHLLGKKTVAEYVENNAILDKLRNLGIDYGQGYGLGRPQPLSALLKINPRSANSIKTGADAHFI
>NC_014315.1|WP_013221702.1|3080201_3081572_-|DNA-repair-protein-RadA
MGKPKTVYQCTQCGAESVRWAGQCAGCGAWNSLEEQLSVELPKRTGRYAHYAGALSTVQPLAEVQVTGEVRLSTGLSELDRVLGGGLVTGSVVLIGGAPGIGKSTLLLQALANMGALQEGKVLYLTGEESLAQISLRAQRLGLGTAPVRLLADTLVERALAVARQERPQVMVVDSIQTLYTEQLQSAPGTVTQVRESAGQLLRFAKQSGTGVILVGHVTKEGALAGPRVLEHMVDTVLYFEGDGGERLRVLRAAKNRFGAVNELGVFAMTEQGLRGVTNPSAIFLSRGKEAVPGSAVTVIREGSRPLLVEVQALVDDSHLANPRRVTVGLEPNRLAMLLAILHRHGAVMPGAQDVFINVVGGVRVNETGADLAVLAAIVSSLRDRPLDQELVLFGEVGLTGEIRPVPGGEERLAAAAKHGFKKAILPRGNTPRRPIEHIAIVPVTRLAEVLEALKE
>NC_014315.1|WP_013221703.1|3081577_3082648_-|alanine-racemase
MNFPQAIIDASALRHNLQRVRELAPRSRIMAVVKADGYGHGLTSVAGALVAADAFAVARLEEAMALRQAGHRCPVVLLGGIADKEQLQLAAAHRLTLVVHEFAQLELLERVPIISPLPVWLKADTGMHRLGFSPEVAAEAVARLRGCPAVASVVGVMTHLASADESEDSLTPIQLQVFEEIAAPGLLRSMANSAAVIIYPHVHFDWVRPGLMLYGASPFAHGTGAAVGLKSVMTLKTRLIATHHLRPGDSIGYGATWVCPEAMMVGVAALGYGDGYPRHARSGTPVLVNGRPVSLVGRVSMDMITLDLRTQPEAKVGDPVIAWGPDLPVEEVARHATTIPYELLCQVTARVPRTME
>NC_014315.1|WP_013221704.1|3082677_3084099_-|replicative-DNA-helicase
MPELAYQEKKDQFVEGLKIPPHSMEAEQSVLGGLLLDNQAWEQIADILDSKDFYRQDHRLLFLSIGEMLEQSRPCDVVTLSEWLKNKRLLEETGGLAYLTNLARNTPTAANIKAYAEVVRERSVLRQLIRVGTDIAGSAYQPEGRESGELLDEAEKRVFEIAEQGARGQRSFVNIKNLLGKVVDRIDHLFEQDSPITGLSSGFADFDLLTSGLQPSDLIIAAGRPSMGKTTFAMNIAEHVAIKRRVPVAVFSMEMPGEQLAMRMMSSLGHIDQHRVRTGRLEDDDWPRLTSAISLLTEAPLFIDDTPALSPTELRARARRLMREQDGLGLILIDYLQLMQVPGHRENRATEISEISRNLKAVAKELKVPVLALSQLNRSLEQRPNKRPVMSDLRESGAIEQDADVIVFIYRDEVYNEESPDRGTAEIIVGKQRNGPIGTVRLTFRGQYTRFENYVQDAYGAGSGFPAAGNKMN
>NC_014315.1|WP_013221705.1|3084179_3084635_-|50S-ribosomal-protein-L9
MEVILLEQVVNLGKLGDKVTVKSGYARNYLIPQGRAVSATKENEAYFESRKAELEKAAGDKVAVAERRKQALADLGSVTIAAKVGTEGKLFGSVGVADIAEALTNAGVEVNKKEVRLPEGALRQVGEYELAIHLHPTVEAPIKVVVTGEEG
>NC_014315.1|WP_002813110.1|3084715_3084940_-|30S-ribosomal-protein-S18
MARFFRRRKFCRFTAEGVKEIDYKDLATLKDYITETGKIVPSRITGTKAKYQRQLSRAVKRARYLALLPYCDRH

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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_014315_1	1.1\|1531013\|30\|NC_014315\|CRISPRCasFinder	1531013-1531042	30	MF459647	Erwinia phage vB_EamM_Joad, complete genome	87647-87676	5	0.833
NC_014315_1	1.1\|1531013\|30\|NC_014315\|CRISPRCasFinder	1531013-1531042	30	MF459646	Erwinia phage vB_EamM_RisingSun, complete genome	87721-87750	5	0.833
NC_014315_1	1.1\|1531013\|30\|NC_014315\|CRISPRCasFinder	1531013-1531042	30	NC_012923	Streptococcus suis BM407 plasmid pBM407, complete sequence	10457-10486	7	0.767
NC_014315_1	1.1\|1531013\|30\|NC_014315\|CRISPRCasFinder	1531013-1531042	30	NZ_KX785328	Streptococcus suis strain 3366 plasmid unnamed3, complete sequence	20450-20479	7	0.767
NC_014315_3	3.6\|3072641\|31\|NC_014315\|CRISPRCasFinder	3072641-3072671	31	NZ_CP028348	Novosphingobium sp. THN1 plasmid pTHN, complete sequence	470892-470922	7	0.774
NC_014315_1	1.1\|1531013\|30\|NC_014315\|CRISPRCasFinder	1531013-1531042	30	MK448703	Streptococcus phage Javan207, complete genome	14294-14323	8	0.733
NC_014315_3	3.1\|3072341\|31\|NC_014315\|CRISPRCasFinder	3072341-3072371	31	NZ_CP013104	Paraburkholderia caribensis strain MWAP64 plasmid 1, complete sequence	473273-473303	8	0.742
NC_014315_3	3.2\|3072401\|31\|NC_014315\|CRISPRCasFinder	3072401-3072431	31	NC_015963	UNVERIFIED_ORG: Enterobacter soli plasmid pENTAS01, complete sequence	49356-49386	8	0.742
NC_014315_3	3.8\|3072761\|31\|NC_014315\|CRISPRCasFinder	3072761-3072791	31	NC_002700	Acinetobacter phage AP205, complete genome	1169-1199	8	0.742
NC_014315_3	3.8\|3072761\|31\|NC_014315\|CRISPRCasFinder	3072761-3072791	31	AF334111	Bacteriophage AP205, complete genome	1169-1199	8	0.742
NC_014315_3	3.17\|3072341\|32\|NC_014315\|CRT	3072341-3072372	32	NZ_CP013104	Paraburkholderia caribensis strain MWAP64 plasmid 1, complete sequence	473273-473304	8	0.75
NC_014315_3	3.18\|3072401\|32\|NC_014315\|CRT	3072401-3072432	32	NC_015963	UNVERIFIED_ORG: Enterobacter soli plasmid pENTAS01, complete sequence	49355-49386	8	0.75
NC_014315_3	3.22\|3072641\|32\|NC_014315\|CRT	3072641-3072672	32	NZ_CP028348	Novosphingobium sp. THN1 plasmid pTHN, complete sequence	470891-470922	8	0.75
NC_014315_3	3.5\|3072581\|31\|NC_014315\|CRISPRCasFinder	3072581-3072611	31	MN693954	Marine virus AFVG_250M569, complete genome	3305-3335	9	0.71
NC_014315_3	3.6\|3072641\|31\|NC_014315\|CRISPRCasFinder	3072641-3072671	31	NZ_CP054841	Acidovorax sp. 16-35-5 plasmid unnamed1, complete sequence	401615-401645	9	0.71
NC_014315_3	3.24\|3072761\|32\|NC_014315\|CRT	3072761-3072792	32	NC_002700	Acinetobacter phage AP205, complete genome	1168-1199	9	0.719
NC_014315_3	3.24\|3072761\|32\|NC_014315\|CRT	3072761-3072792	32	AF334111	Bacteriophage AP205, complete genome	1168-1199	9	0.719
NC_014315_3	3.2\|3072401\|31\|NC_014315\|CRISPRCasFinder	3072401-3072431	31	NZ_CP018225	Tardibacter chloracetimidivorans strain JJ-A5 plasmid pHSL4, complete sequence	39155-39185	10	0.677
NC_014315_3	3.2\|3072401\|31\|NC_014315\|CRISPRCasFinder	3072401-3072431	31	NZ_CP023450	Rhizorhabdus dicambivorans strain Ndbn-20 plasmid p1, complete sequence	26210-26240	10	0.677
NC_014315_3	3.21\|3072581\|32\|NC_014315\|CRT	3072581-3072612	32	MN693954	Marine virus AFVG_250M569, complete genome	3304-3335	10	0.688
NC_014315_3	3.22\|3072641\|32\|NC_014315\|CRT	3072641-3072672	32	NZ_CP054841	Acidovorax sp. 16-35-5 plasmid unnamed1, complete sequence	401615-401646	10	0.688
NC_014315_3	3.18\|3072401\|32\|NC_014315\|CRT	3072401-3072432	32	NZ_CP023450	Rhizorhabdus dicambivorans strain Ndbn-20 plasmid p1, complete sequence	26210-26241	11	0.656
NC_014315_3	3.18\|3072401\|32\|NC_014315\|CRT	3072401-3072432	32	NZ_CP018225	Tardibacter chloracetimidivorans strain JJ-A5 plasmid pHSL4, complete sequence	39154-39185	11	0.656

1. spacer 1.1|1531013|30|NC_014315|CRISPRCasFinder matches to MF459647 (Erwinia phage vB_EamM_Joad, complete genome) position: , mismatch: 5, identity: 0.833

ggggaagtagaagtgatggaaaccgatgat	CRISPR spacer
gaagaagtggaagtgatcgaaaccgatgaa	Protospacer
*..*****.******** ***********

2. spacer 1.1|1531013|30|NC_014315|CRISPRCasFinder matches to MF459646 (Erwinia phage vB_EamM_RisingSun, complete genome) position: , mismatch: 5, identity: 0.833

ggggaagtagaagtgatggaaaccgatgat	CRISPR spacer
gaagaagtggaagtgatcgaaaccgatgaa	Protospacer
*..*****.******** ***********

3. spacer 1.1|1531013|30|NC_014315|CRISPRCasFinder matches to NC_012923 (Streptococcus suis BM407 plasmid pBM407, complete sequence) position: , mismatch: 7, identity: 0.767

ggggaagtagaagtgatggaaaccgatgat	CRISPR spacer
tctgaagtagaaatgatggaaacagaaggt	Protospacer
   *********.********** ** *.*

4. spacer 1.1|1531013|30|NC_014315|CRISPRCasFinder matches to NZ_KX785328 (Streptococcus suis strain 3366 plasmid unnamed3, complete sequence) position: , mismatch: 7, identity: 0.767

ggggaagtagaagtgatggaaaccgatgat	CRISPR spacer
tctgaagtagaaatgatggaaacagaaggt	Protospacer
   *********.********** ** *.*

5. spacer 3.6|3072641|31|NC_014315|CRISPRCasFinder matches to NZ_CP028348 (Novosphingobium sp. THN1 plasmid pTHN, complete sequence) position: , mismatch: 7, identity: 0.774

cttaggacagcagcgaatggacgcaaaacag	CRISPR spacer
catcggacagcagcgaataggcgcaaaggat	Protospacer
* * **************.*.******. *

6. spacer 1.1|1531013|30|NC_014315|CRISPRCasFinder matches to MK448703 (Streptococcus phage Javan207, complete genome) position: , mismatch: 8, identity: 0.733

ggggaagtagaagtgatggaaaccgatgat	CRISPR spacer
ttttacatagaagtgacggaaaccgataat	Protospacer
    * .*********.**********.**

7. spacer 3.1|3072341|31|NC_014315|CRISPRCasFinder matches to NZ_CP013104 (Paraburkholderia caribensis strain MWAP64 plasmid 1, complete sequence) position: , mismatch: 8, identity: 0.742

tttgggcgagatgttgtgggccggttgccaa	CRISPR spacer
ggcgggcgagatgctgtgggacggttgcatc	Protospacer
  .**********.****** *******

8. spacer 3.2|3072401|31|NC_014315|CRISPRCasFinder matches to NC_015963 (UNVERIFIED_ORG: Enterobacter soli plasmid pENTAS01, complete sequence) position: , mismatch: 8, identity: 0.742

agtaagcagaagtcgaacgggtcattgcact	CRISPR spacer
aaactgtggaaggcgaacggctcattgcact	Protospacer
*.   *..**** ******* **********

9. spacer 3.8|3072761|31|NC_014315|CRISPRCasFinder matches to NC_002700 (Acinetobacter phage AP205, complete genome) position: , mismatch: 8, identity: 0.742

tagatttctttccgttgcagccattttacgg	CRISPR spacer
gccttttctttccgttgccgcaattttacaa	Protospacer
    ************** ** *******..

10. spacer 3.8|3072761|31|NC_014315|CRISPRCasFinder matches to AF334111 (Bacteriophage AP205, complete genome) position: , mismatch: 8, identity: 0.742

tagatttctttccgttgcagccattttacgg	CRISPR spacer
gccttttctttccgttgccgcaattttacaa	Protospacer
    ************** ** *******..

11. spacer 3.17|3072341|32|NC_014315|CRT matches to NZ_CP013104 (Paraburkholderia caribensis strain MWAP64 plasmid 1, complete sequence) position: , mismatch: 8, identity: 0.75

tttgggcgagatgttgtgggccggttgccaag	CRISPR spacer
ggcgggcgagatgctgtgggacggttgcatcg	Protospacer
  .**********.****** *******   *

12. spacer 3.18|3072401|32|NC_014315|CRT matches to NC_015963 (UNVERIFIED_ORG: Enterobacter soli plasmid pENTAS01, complete sequence) position: , mismatch: 8, identity: 0.75

agtaagcagaagtcgaacgggtcattgcactg	CRISPR spacer
aaactgtggaaggcgaacggctcattgcactg	Protospacer
*.   *..**** ******* ***********

13. spacer 3.22|3072641|32|NC_014315|CRT matches to NZ_CP028348 (Novosphingobium sp. THN1 plasmid pTHN, complete sequence) position: , mismatch: 8, identity: 0.75

cttaggacagcagcgaatggacgcaaaacaga	CRISPR spacer
catcggacagcagcgaataggcgcaaaggatc	Protospacer
* * **************.*.******. *

14. spacer 3.5|3072581|31|NC_014315|CRISPRCasFinder matches to MN693954 (Marine virus AFVG_250M569, complete genome) position: , mismatch: 9, identity: 0.71

agtatgtttaattaactgcttttacattaga	CRISPR spacer
cctcattttaattaactgctttttctttaac	Protospacer
  *   ***************** * ***.

15. spacer 3.6|3072641|31|NC_014315|CRISPRCasFinder matches to NZ_CP054841 (Acidovorax sp. 16-35-5 plasmid unnamed1, complete sequence) position: , mismatch: 9, identity: 0.71

cttaggacagcagcgaatggacgcaaaacag	CRISPR spacer
cgcccaccagcagcgaatggaaggaaaacac	Protospacer
* .  . ************** * ******

16. spacer 3.24|3072761|32|NC_014315|CRT matches to NC_002700 (Acinetobacter phage AP205, complete genome) position: , mismatch: 9, identity: 0.719

tagatttctttccgttgcagccattttacgga	CRISPR spacer
gccttttctttccgttgccgcaattttacaat	Protospacer
    ************** ** *******..

17. spacer 3.24|3072761|32|NC_014315|CRT matches to AF334111 (Bacteriophage AP205, complete genome) position: , mismatch: 9, identity: 0.719

tagatttctttccgttgcagccattttacgga	CRISPR spacer
gccttttctttccgttgccgcaattttacaat	Protospacer
    ************** ** *******..

18. spacer 3.2|3072401|31|NC_014315|CRISPRCasFinder matches to NZ_CP018225 (Tardibacter chloracetimidivorans strain JJ-A5 plasmid pHSL4, complete sequence) position: , mismatch: 10, identity: 0.677

agtaagcagaagtcgaacgggtcattgcact	CRISPR spacer
gtcttgccgaagccgaacgggtcattgctga	Protospacer
. .  ** ****.***************

19. spacer 3.2|3072401|31|NC_014315|CRISPRCasFinder matches to NZ_CP023450 (Rhizorhabdus dicambivorans strain Ndbn-20 plasmid p1, complete sequence) position: , mismatch: 10, identity: 0.677

agtaagcagaagtcgaacgggtcattgcact	CRISPR spacer
gtcttgccgaagccgaacgggtcattgctga	Protospacer
. .  ** ****.***************

20. spacer 3.21|3072581|32|NC_014315|CRT matches to MN693954 (Marine virus AFVG_250M569, complete genome) position: , mismatch: 10, identity: 0.688

agtatgtttaattaactgcttttacattagat	CRISPR spacer
cctcattttaattaactgctttttctttaaca	Protospacer
  *   ***************** * ***.

21. spacer 3.22|3072641|32|NC_014315|CRT matches to NZ_CP054841 (Acidovorax sp. 16-35-5 plasmid unnamed1, complete sequence) position: , mismatch: 10, identity: 0.688

cttaggacagcagcgaatggacgcaaaacaga	CRISPR spacer
cgcccaccagcagcgaatggaaggaaaacacc	Protospacer
* .  . ************** * ******

22. spacer 3.18|3072401|32|NC_014315|CRT matches to NZ_CP023450 (Rhizorhabdus dicambivorans strain Ndbn-20 plasmid p1, complete sequence) position: , mismatch: 11, identity: 0.656

agtaagcagaagtcgaacgggtcattgcactg	CRISPR spacer
gtcttgccgaagccgaacgggtcattgctgat	Protospacer
. .  ** ****.***************

23. spacer 3.18|3072401|32|NC_014315|CRT matches to NZ_CP018225 (Tardibacter chloracetimidivorans strain JJ-A5 plasmid pHSL4, complete sequence) position: , mismatch: 11, identity: 0.656

agtaagcagaagtcgaacgggtcattgcactg	CRISPR spacer
gtcttgccgaagccgaacgggtcattgctgat	Protospacer
. .  ** ****.***************

Prophage detection

Region

Region Position

Protein_number

Hit_taxonomy

Key_proteins

Att_site

Prophage annotation

DBSCAN-SWA_1

1128806 : 1139366

Aeromonas_phage(14.29%)

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_013220109.1\|1128806_1130060_+	serine hydroxymethyltransferase	A0A219Y950	Aeromonas_phage	1.8e-97	50.6
WP_013220110.1\|1130076_1130601_+	transcriptional regulator NrdR	NA	NA	NA	NA
WP_041350500.1\|1130763_1131861_+	bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD	A0A1V0SE20	Indivirus	2.7e-49	36.8
WP_013220112.1\|1131919_1132576_+	riboflavin synthase	A0A2H4PQS5	Staphylococcus_phage	3.5e-28	37.6
WP_013220113.1\|1132582_1133689_+	bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II	A0A2I2L4Y7	Orpheovirus	7.5e-39	32.2
WP_041350900.1\|1133678_1134287_+	ribonuclease HII	G4YAY0	Emiliania_huxleyi_virus	1.5e-25	39.5
WP_013220115.1\|1134321_1136775_-	EAL domain-containing protein	A0A127AWB9	Bacillus_phage	1.0e-16	38.7
WP_013220116.1\|1136867_1137428_-	Uma2 family endonuclease	NA	NA	NA	NA
WP_013220117.1\|1137737_1139366_+	peptide chain release factor 3	A0A2K9L6L3	Tupanvirus	2.6e-11	32.6

DBSCAN-SWA_2

1668365 : 1746026

Phage_Gifsy-1(20.0%)

tRNA,holin,transposase,protease

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_041350577.1\|1668365_1669535_-\|transposase	IS200/IS605 family element transposase accessory protein TnpB	A0A0R8V9X2	Thermobifida_phage	1.8e-75	42.8
WP_013220520.1\|1669907_1674569_+	glutamate synthase large subunit	NA	NA	NA	NA
WP_013220521.1\|1674561_1676004_+	glutamate synthase subunit beta	NA	NA	NA	NA
WP_013220522.1\|1676173_1676530_+	hypothetical protein	NA	NA	NA	NA
WP_013220523.1\|1676755_1680457_+	response regulator	Q8QNA2	Ectocarpus_siliculosus_virus	6.4e-10	36.4
WP_013220524.1\|1680552_1681617_+	23S rRNA (cytidine(2498)-2'-O)-methyltransferase RlmM	NA	NA	NA	NA
WP_013220525.1\|1681728_1682613_+\|tRNA	tRNA 2-thiocytidine(32) synthetase TtcA	A0A0U2S5Z2	Escherichia_phage	2.0e-111	76.0
WP_041350936.1\|1682657_1683188_-	DUF2141 domain-containing protein	NA	NA	NA	NA
WP_013220527.1\|1683529_1684873_-	YihY/virulence factor BrkB family protein	NA	NA	NA	NA
WP_041350581.1\|1684993_1686175_-\|transposase	IS200/IS605 family element transposase accessory protein TnpB	Q9G0F2	Phage_Gifsy-1	5.5e-80	44.1
WP_013220528.1\|1686388_1687372_-	DUF3618 domain-containing protein	NA	NA	NA	NA
WP_013220529.1\|1687358_1687814_-\|holin	phage holin family protein	NA	NA	NA	NA
WP_013220530.1\|1687813_1688449_-	hypothetical protein	NA	NA	NA	NA
WP_013220531.1\|1688807_1689353_-	DUF421 domain-containing protein	NA	NA	NA	NA
WP_013220532.1\|1689547_1690849_-	DUF389 domain-containing protein	NA	NA	NA	NA
WP_013220534.1\|1691399_1692065_+	flavodoxin reductase	NA	NA	NA	NA
WP_013220535.1\|1692137_1693781_-	DNA mismatch repair protein MutS	NA	NA	NA	NA
WP_013220536.1\|1693814_1694624_+	hypothetical protein	NA	NA	NA	NA
WP_013220537.1\|1694688_1698201_-	pyridine nucleotide-disulfide oxidoreductase	NA	NA	NA	NA
WP_013220538.1\|1698805_1699753_+	hypothetical protein	NA	NA	NA	NA
WP_041350937.1\|1699844_1700033_+	hypothetical protein	NA	NA	NA	NA
WP_041350583.1\|1700029_1700215_+	type II toxin-antitoxin system HicA family toxin	NA	NA	NA	NA
WP_013220540.1\|1700695_1701406_+	hypothetical protein	NA	NA	NA	NA
WP_013220541.1\|1701472_1701715_+	type II toxin-antitoxin system Phd/YefM family antitoxin	NA	NA	NA	NA
WP_013220543.1\|1702413_1704765_+	NADP-dependent malic enzyme	NA	NA	NA	NA
WP_013220545.1\|1705121_1705700_-	hypothetical protein	NA	NA	NA	NA
WP_013220546.1\|1705696_1706416_-	PD-(D/E)XK nuclease family protein	NA	NA	NA	NA
WP_013220547.1\|1706916_1708047_-\|transposase	ISAs1 family transposase	NA	NA	NA	NA
WP_013220548.1\|1708462_1709932_-	L-lactate permease	NA	NA	NA	NA
WP_013220549.1\|1710403_1710946_-	DUF488 domain-containing protein	NA	NA	NA	NA
WP_041350584.1\|1711084_1712476_+	hypothetical protein	NA	NA	NA	NA
WP_013220551.1\|1712465_1713239_+	hypothetical protein	NA	NA	NA	NA
WP_157679838.1\|1713655_1713883_-	hypothetical protein	NA	NA	NA	NA
WP_013220552.1\|1714280_1715768_+	sodium/proline symporter PutP	NA	NA	NA	NA
WP_013220554.1\|1716239_1716758_-	Hsp20/alpha crystallin family protein	NA	NA	NA	NA
WP_157679840.1\|1716985_1717438_+	hypothetical protein	NA	NA	NA	NA
WP_157679842.1\|1717377_1717896_+\|protease	M48 family metalloprotease	NA	NA	NA	NA
WP_013220555.1\|1718596_1719088_+	diaminobutyrate acetyltransferase	NA	NA	NA	NA
WP_013220556.1\|1719183_1720485_+	diaminobutyrate--2-oxoglutarate transaminase	NA	NA	NA	NA
WP_013220557.1\|1720713_1721622_+	ectoine hydroxylase	NA	NA	NA	NA
WP_013220558.1\|1721782_1723153_+	MFS transporter	Q6JIH2	Burkholderia_virus	1.4e-63	36.1
WP_013220559.1\|1723392_1723791_+	conjugal transfer protein TraR	NA	NA	NA	NA
WP_013220560.1\|1725316_1726366_+	glycosyltransferase family 4 protein	NA	NA	NA	NA
WP_013220561.1\|1726573_1728745_+	amylo-alpha-1,6-glucosidase	NA	NA	NA	NA
WP_013220562.1\|1728802_1730389_-	glucan biosynthesis protein D	NA	NA	NA	NA
WP_013220563.1\|1730720_1732301_-	hypothetical protein	NA	NA	NA	NA
WP_013220564.1\|1732976_1733714_+	hypothetical protein	NA	NA	NA	NA
WP_049773060.1\|1733785_1736110_-	phosphoenolpyruvate--protein phosphotransferase	A0A1V0SGR7	Hokovirus	2.4e-15	29.5
WP_083781433.1\|1736496_1736670_+	helix-turn-helix domain-containing protein	Q9G0F2	Phage_Gifsy-1	7.8e-12	64.0
WP_013220566.1\|1736929_1737424_+	hypothetical protein	NA	NA	NA	NA
WP_013220567.1\|1737440_1738346_+	30S ribosomal protein S6--L-glutamate ligase	A0A1D7SR78	Cyanophage	9.4e-40	33.8
WP_013220568.1\|1738349_1739399_+	succinylglutamate desuccinylase/aspartoacylase family protein	NA	NA	NA	NA
WP_013220569.1\|1739436_1740774_-	MFS transporter	NA	NA	NA	NA
WP_013220570.1\|1740842_1741502_-	protein-L-isoaspartate(D-aspartate) O-methyltransferase	A0A1B1IU40	uncultured_Mediterranean_phage	1.3e-30	48.7
WP_013220571.1\|1741699_1742809_-	ferrochelatase	NA	NA	NA	NA
WP_013220572.1\|1743066_1743558_+	hypothetical protein	NA	NA	NA	NA
WP_013220573.1\|1743666_1744446_+	CAP domain-containing protein	NA	NA	NA	NA
WP_157679844.1\|1745153_1745579_-	hypothetical protein	NA	NA	NA	NA
WP_157679847.1\|1745594_1746026_+\|transposase	IS200/IS605 family element transposase accessory protein TnpB	M4I0N8	Staphylococcus_phage	2.2e-23	52.3

DBSCAN-SWA_3

2533708 : 2541947

Escherichia_phage(28.57%)

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_013221230.1\|2533708_2534791_+	aspartate carbamoyltransferase	Q84489	Paramecium_bursaria_Chlorella_virus	2.7e-33	31.6
WP_013221231.1\|2534926_2536939_+	asparagine synthase (glutamine-hydrolyzing)	F2Y1H0	Organic_Lake_phycodnavirus	2.8e-28	27.6
WP_013221232.1\|2537068_2537953_-	dTDP-4-dehydrorhamnose reductase	A0A1D7XFA3	Escherichia_phage	1.6e-28	32.8
WP_013221233.1\|2537949_2538495_-	dTDP-4-dehydrorhamnose 3,5-epimerase	I7HJC4	Enterobacteria_phage	3.1e-46	51.4
WP_013221234.1\|2538513_2539392_-	glucose-1-phosphate thymidylyltransferase RfbA	K7QKA7	Escherichia_phage	1.9e-93	59.8
WP_013221235.1\|2539384_2540461_-	dTDP-glucose 4,6-dehydratase	I7HTA3	Enterobacteria_phage	4.8e-91	49.8
WP_013221236.1\|2540474_2541947_-	glucose-6-phosphate dehydrogenase	A0A1D8KIX9	Synechococcus_phage	1.0e-83	39.0

DBSCAN-SWA_4

3070496 : 3084099

Vibrio_phage(16.67%)

transposase

Protein_ID	Protein_Def	Hit_ID	Hit_Def	E-value	Identity
WP_013221694.1\|3070496_3071561_+	type I-F CRISPR-associated protein Csy3	A0A2I7RCY7	Vibrio_phage	2.0e-33	32.5
WP_013221695.1\|3071575_3072181_+	type I-F CRISPR-associated endoribonuclease Cas6/Csy4	NA	NA	NA	NA
WP_013221697.1\|3073966_3074362_+\|transposase	IS200/IS605 family transposase	A0A0H3UZM0	Geobacillus_virus	5.4e-32	48.8
WP_013221698.1\|3074362_3075484_+\|transposase	IS200/IS605 family element transposase accessory protein TnpB	A0A191SB13	Nostoc_phage	3.5e-36	35.2
WP_013221699.1\|3075586_3076006_-	protoporphyrinogen oxidase HemJ	NA	NA	NA	NA
WP_041350793.1\|3076353_3077034_+\|transposase	IS200/IS605 family element transposase accessory protein TnpB	A0A0R8V9X2	Thermobifida_phage	5.7e-05	42.4
WP_013221701.1\|3077154_3080148_+	EAL domain-containing protein	A0A127AWB9	Bacillus_phage	1.0e-18	31.3
WP_013221702.1\|3080201_3081572_-	DNA repair protein RadA	NA	NA	NA	NA
WP_013221703.1\|3081577_3082648_-	alanine racemase	NA	NA	NA	NA
WP_013221704.1\|3082677_3084099_-	replicative DNA helicase	O80281	Escherichia_phage	5.3e-138	56.6

Anti-CRISPR protein detection

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

Overview of predicted results

Overview of the results

Cas Category Instructions

Results visualization

1. NC_014315

Click the left colored region to show detailed information

CRISPR-Cas detection and classification

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Click the colored protein region to show detailed information

Self-targeting detection

MGE targeting detection<

Prophage detection

Anti-CRISPR protein detection