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_017377	Helicobacter pylori Puno120 plasmid pHPPN120, complete sequence	0 crisprs	NA	0	0	0	0
NC_017378	Helicobacter pylori Puno120, complete genome	2 crisprs	cas2,csx1,RT,DEDDh	0	1	0	0

Cas Category Instructions

Results visualization

1. NC_017378

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CRISPR-Cas detection and classification

Crispr_ID: NC_017378_1

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_017378_1

339193-339305

Orphan

Consensus_repeat	Method
AGGCTCTCTAGCGTTACTGAAGAAATCAT	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_017378_1

>merge|NC_017378|1|339193-339305|CRISPRCasFinder
AGGCTCTCTAGCGTTACTGAAGAAATCATCGCCAAAAAGCAAGAAGAAACCCAACGCCAAGAAACCCCAGAGGATACGCATGAGAGGCTCTCTAGCGTTACTGAAGAAATCAT

>NC_017378|1|1|339193-339305|CRISPRCasFinder
AGGCTCTCTAGCGTTACTGAAGAAATCAT	CGCCAAAAAGCAAGAAGAAACCCAACGCCAAGAAACCCCAGAGGATACGCATGAG
AGGCTCTCTAGCGTTACTGAAGAAATCAT

Protein	Signature genes	Signature genes Name	Protein_function
NC_017378.1\|WP_000742642.1\|331866_332409_+\|UDP-4-amino-4,-6-dideoxy-N-acetyl-beta-L-altrosamine-N-acetyltransferase	unknown	unknown	gnl\|CDD\|274661
NC_017378.1\|WP_001168227.1\|333276_334059_-\|NAD+-synthase	unknown	unknown	gnl\|CDD\|184435
NC_017378.1\|WP_000056251.1\|350416_351193_+\|flagellar-assembly-protein-FliH	unknown	unknown	gnl\|CDD\|235850
NC_017378.1\|WP_000201852.1\|349398_350430_+\|flagellar-motor-switch-protein-FliG	unknown	unknown	gnl\|CDD\|272961
NC_017378.1\|WP_000840154.1\|337702_338278_+\|sel1-repeat-family-protein	unknown	unknown	gnl\|CDD\|276807
NC_017378.1\|WP_000810726.1\|343539_345090_-\|single-stranded-DNA-specific-exonuclease-RecJ	unknown	unknown	gnl\|CDD\|273193
NC_017378.1\|WP_000599259.1\|337166_337571_+\|Holliday-junction-resolvase-RuvX	unknown	unknown	gnl\|CDD\|234639
NC_017378.1\|WP_000841125.1\|336369_337170_+\|DNA-protecting-protein-DprA	unknown	unknown	gnl\|CDD\|273238
NC_017378.1\|WP_000051412.1\|336124_336358_+\|cell-division-topological-specificity-factor-MinE	unknown	unknown	gnl\|CDD\|188120
NC_017378.1\|WP_000373243.1\|345098_346715_-\|CTP-synthase-(glutamine-hydrolyzing)	unknown	unknown	gnl\|CDD\|235437
NC_017378.1\|WP_001117127.1\|342658_343540_-\|RluA-family-pseudouridine-synthase	unknown	unknown	gnl\|CDD\|223638
NC_017378.1\|WP_000699916.1\|338471_338810_+\|hypothetical-protein	unknown	unknown	unknown
NC_017378.1\|WP_000833954.1\|332341_333280_-\|tetraacyldisaccharide-4'-kinase	unknown	unknown	gnl\|CDD\|224577
NC_017378.1\|WP_001207781.1\|334305_335298_+\|ketol-acid-reductoisomerase	unknown	unknown	gnl\|CDD\|235491
NC_017378.1\|WP_000364764.1\|347676_349380_+\|flagellar-basal-body-M-ring-protein-FliF	unknown	unknown	gnl\|CDD\|129310
NC_017378.1\|WP_000426635.1\|341508_342603_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|227365
NC_017378.1\|WP_041200296.1\|339365_339692_+\|lysozyme	unknown	unknown	gnl\|CDD\|381597
NC_017378.1\|WP_001019076.1\|335321_336128_+\|septum-site-determining-protein-MinD	unknown	unknown	gnl\|CDD\|225447
NC_017378.1\|WP_014536872.1\|340733_341519_+\|hypothetical-protein	unknown	unknown	unknown
NC_017378.1\|WP_000829950.1\|346970_347633_+\|hypothetical-protein	unknown	unknown	gnl\|CDD\|239486

Protein	Function_ID	Function_description	E-value
NC_017378.1\|WP_000051412.1\|336124_336358_+\|cell-division-topological-specificity-factor-MinE	gnl\|CDD\|188120	TIGR01215, Cell_division_topological_specificity_factor, cell division topological specificity factor MinE. This protein is involved in the process of cell division. This protein prevents the proteins MinC and MinD to inhibit cell division at internal sites, but allows inhibiton at polar sites. This allows for correct cell division at the proper sites. [Cellular processes, Cell division].	1.39865e-25
NC_017378.1\|WP_001168227.1\|333276_334059_-\|NAD+-synthase	gnl\|CDD\|184435	PRK13980, PRK13980, NAD synthetase; Provisional.	1.6858e-122
NC_017378.1\|WP_000201852.1\|349398_350430_+\|flagellar-motor-switch-protein-FliG	gnl\|CDD\|272961	TIGR00207, Flagellar_motor_switch_protein_FliG, flagellar motor switch protein FliG. The fliG protein along with fliM and fliN interact to form the switch complex of the bacterial flagellar motor located at the base of the basal body. This complex interacts with chemotaxis proteins (eg CHEY). In addition the complex interacts with other components of the motor that determine the direction of flagellar rotation. The model contains putative members of the fliG family at scores of less than 100 from Agrobacterium radiobacter and Sinorhizobium meliloti as well as fliG-like genes from treponema pallidum and Borrelia burgdorferi. That is why the suggested cutoff is set at 20 but was set at 100 to construct the family. [Cellular processes, Chemotaxis and motility].	6.69256e-165
NC_017378.1\|WP_000840154.1\|337702_338278_+\|sel1-repeat-family-protein	gnl\|CDD\|276807	sd00010, SLR, Sel1-like repeat. Sel1-like repeats (SLRs) share similar alpha-helical conformations with Tetratricopeptide repeats (TPRs), but with different consensus sequence lengths and superhelical topologies. SLRs contain 36 to 44 amino acids and are present in bacteria and eukaryotes but not in archaea. SLR proteins are involved in a variety of functions, and many serve as adaptor proteins for the assembly of macromolecular complexes. The SLR family was named after the Caenorhabditis elegans Sel1 protein which is predicted to fold into 11 SLRs, a transmembrane domain, and an N-terminal signal sequence. The human Sel1L protein contains an additional fibronectin type-II domain and an N-terminal PEST sequence. Its downregulation is associated with the development of breast and pancreatic carcinomas.	3.6447e-37
NC_017378.1\|WP_000810726.1\|343539_345090_-\|single-stranded-DNA-specific-exonuclease-RecJ	gnl\|CDD\|273193	TIGR00644, recJ, single-stranded-DNA-specific exonuclease RecJ. All proteins in this family are 5'-3' single-strand DNA exonucleases. These proteins are used in some aspects of mismatch repair, recombination, and recombinational repair. [DNA metabolism, DNA replication, recombination, and repair].	0
NC_017378.1\|WP_000426635.1\|341508_342603_+\|hypothetical-protein	gnl\|CDD\|227365	COG5032, TEL1, Phosphatidylinositol kinase and protein kinases of the PI-3 kinase family [Signal transduction mechanisms / Cell division and chromosome partitioning / Chromatin structure and dynamics / DNA replication, recombination, and repair / Intracellular trafficking and secretion].	0.00647707
NC_017378.1\|WP_000841125.1\|336369_337170_+\|DNA-protecting-protein-DprA	gnl\|CDD\|273238	TIGR00732, Protein_smf, DNA protecting protein DprA. Disruption of this gene in both Haemophilus influenzae and Helicobacter pylori drastically reduces the efficiency of transformation with exogenous DNA, but with different levels of effect on chromosomal (linear) and plasmid (circular) DNA. This difference suggests the DprA is not active in recombination, and it has been shown not to affect DNA binding, leaving the intermediate step in natural transformation, DNA processing. In Strep. pneumoniae, inactivation of dprA had no effect on the uptake of DNA. All of these data indicated that DprA is required at a later stage in transformation. Subsequently DprA and RecA were both shown in S. pneumoniae to be required to protect incoming ssDNA from immediate degradation. Role of DprA in non-transformable species is not known. The gene symbol smf was assigned in E. coli, but without assignment of function. [Cellular processes, DNA transformation].	4.15706e-94
NC_017378.1\|WP_000742642.1\|331866_332409_+\|UDP-4-amino-4,-6-dideoxy-N-acetyl-beta-L-altrosamine-N-acetyltransferase	gnl\|CDD\|274661	TIGR03585, PseH, UDP-4-amino-4,6-dideoxy-N-acetyl-beta-L-altrosamine N-acetyltransferase. Sequences in this family are members of the pfam00583 (GNAT) superfamily of acetyltransferases and are proposed to perform a N-acetylation step in the process of pseudaminic acid biosynthesis in Campylobacter species. This gene is commonly observed in apparent operons with other genes responsible for the biosynthesis of pseudaminic acid and as a component of flagellar and exopolysaccharide biosynthesis loci. Significantly, many genomes containing other components of this pathway lack this gene, indicating that some other N-acetyl transferases may be incolved and/or the step is optional, resulting in a non-acetylated pseudaminic acid variant sugar.	5.13262e-59
NC_017378.1\|WP_000373243.1\|345098_346715_-\|CTP-synthase-(glutamine-hydrolyzing)	gnl\|CDD\|235437	PRK05380, pyrG, CTP synthetase; Validated.	0
NC_017378.1\|WP_001117127.1\|342658_343540_-\|RluA-family-pseudouridine-synthase	gnl\|CDD\|223638	COG0564, RluA, Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis].	7.03901e-66
NC_017378.1\|WP_000056251.1\|350416_351193_+\|flagellar-assembly-protein-FliH	gnl\|CDD\|235850	PRK06669, fliH, flagellar assembly protein H; Validated.	4.37841e-65
NC_017378.1\|WP_000833954.1\|332341_333280_-\|tetraacyldisaccharide-4'-kinase	gnl\|CDD\|224577	COG1663, LpxK, Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane].	7.75727e-89
NC_017378.1\|WP_001207781.1\|334305_335298_+\|ketol-acid-reductoisomerase	gnl\|CDD\|235491	PRK05479, PRK05479, ketol-acid reductoisomerase; Provisional.	2.42109e-178
NC_017378.1\|WP_000364764.1\|347676_349380_+\|flagellar-basal-body-M-ring-protein-FliF	gnl\|CDD\|129310	TIGR00206, Flagellar_M-ring_protein, flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF). Component of the M (cytoplasmic associated) ring, one of four rings (L,P,S,M) which make up the flagellar hook-basal body which is a major portion of the flagellar organelle. Although the basic structure of the flagella appears to be similar for all bacteria, additional rings and structures surrounding the basal body have been observed for some bacteria (eg Vibrio cholerae and Treponema pallidum). [Cellular processes, Chemotaxis and motility].	0
NC_017378.1\|WP_041200296.1\|339365_339692_+\|lysozyme	gnl\|CDD\|381597	cd00735, T4-like_lys, bacteriophage T4-like lysozymes. Bacteriophage T4-like lysozymes hydrolyze the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc) in peptidoglycan heteropolymers of prokaryotic cell walls. Members include a variety of bacteriophages (T4, RB49, RB69, Aeh1), as well as Dictyostelium.	9.52086e-14
NC_017378.1\|WP_001019076.1\|335321_336128_+\|septum-site-determining-protein-MinD	gnl\|CDD\|225447	COG2894, MinD, Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning].	1.62163e-149
NC_017378.1\|WP_000599259.1\|337166_337571_+\|Holliday-junction-resolvase-RuvX	gnl\|CDD\|234639	PRK00109, PRK00109, Holliday junction resolvase RuvX.	8.95929e-38
NC_017378.1\|WP_000829950.1\|346970_347633_+\|hypothetical-protein	gnl\|CDD\|239486	cd03392, PAP2_like_2, PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase.	1.41598e-15

>NC_017378.1|WP_000699916.1|338471_338810_+|hypothetical-protein
MKIMHQVMDFLDSCKQTIQKNSNEALQKTKRALFKEKSQKIREQAVKIVEKRLKKEGMKLSDFNEEELKIMFEAEEKRLLEQIHAKESEENQEKSAKHFKEVWERGDNEQER
>NC_017378.1|WP_000840154.1|337702_338278_+|sel1-repeat-family-protein
MAEPNPEELFDLGMLSYHKQDFSKARKYFEKACDLNIGGGCAALGRLYNDYDKGVEKNSKKAAQFYSKACELKDGWGCGFLGFLYEYGQGVEKNLTKAAQFYSKACDLNIGLGCGALGRLYYTGEGVEKNLIKAAYFYSKACDLNNSEGCKDLGSLYYNGEGVKQDSKKAATLFEKACELGDQEACEALKE
>NC_017378.1|WP_000599259.1|337166_337571_+|Holliday-junction-resolvase-RuvX
MILACDVGLKRIGIAVLLNGVILPLEAILRQNRNQASRDLSDLLREKNIQVLVVGKPNESYADTNARIEHFIKLLDFKGEIVFINEDRSSIEAYENLEHLGKKNKRLAIKDGRLDSLSACRILERYCQQVLKNR
>NC_017378.1|WP_000841125.1|336369_337170_+|DNA-protecting-protein-DprA
MKSNFQYSALENTPKAFDILKDPPKKLYCVGDIKLLDAPLKVAIIGTRRPTPYSKQHTITLARELAKNGAVIVSGGALGVDIIAQENALPKTIMLSPCSLDFIYPTNNHKVIQEIAQNGLILSEYEKDFMPVKGSFLARNRLVIALSDAVIIPQADLKSGSMSSARLAQKYQKPLFVLPQRLNESDGTNELLEKGQAQGIFNIQNFINTLLKDHHLKEMPEMKDEFLEYCAKNPSYEEAYLKFGDKLLEYELLGKIKRINHIVVLA
>NC_017378.1|WP_000051412.1|336124_336358_+|cell-division-topological-specificity-factor-MinE
MSLFDFFKNKGSAATATDRLKLILAKERTLNLPYMEEMRKEIIAVIQKYTKSSDIHFKTLDGNQSVETIEVEIILPK
>NC_017378.1|WP_001019076.1|335321_336128_+|septum-site-determining-protein-MinD
MAIVVTITSGKGGVGKSTTTANLAIGLAESGKKVVAVDFDIGLRNLDMILGLENRIVYDVVDVMEKNCNLSQALITDKKTKNLSFLAASQSKDKNILDKEKVAILINALRVDFDYILIDSPAGIESGFEHAILHADMALVVVTPEVSSLRDSDRVIGIIDAKSNRAKKGMEVHKHLIINRLKPELVANGEMISIEEVLKILCLPLIGIIPEDSHIISATNKGEPVIRTDCESAKAYQRITRRILGEEVEYVEFKAKKGFFSALKGIFS
>NC_017378.1|WP_001207781.1|334305_335298_+|ketol-acid-reductoisomerase
MALPVYYDKDIDLGVIQSLQVGIIGYGAQGEAQALNLRDSKVRVRIGLYQGSLSVPKAKAEGFEVLEVKELVQQSDVIVALLPDELHKEVLEKEVIPFLKEGQIVGFAHGFSVHFNQVALPKGVGAILVAPKGPGSALREEYLKNRGLYHLIAIEQESSKNNAKAVALSYAKAMGGGRMGVLETSFKEECESDLFGEQAVLCGGLEAIVRMGFETLIKAGYPEELAYFECVHEVKLVADLLHYKGVEGLRKHISNTAEFGAIKAREPMGNLLEKRMQKILKKIQNGSFAKDFLLEKSLNYPRLNTERKALKETKIEQIGEILRAPFNHKK
>NC_017378.1|WP_001168227.1|333276_334059_-|NAD+-synthase
MQKDYQKLIAYLCDFLEKEAQKRGFKKVVYGLSGGLDSAVVGVLCQKVFKKNAHALLMPSSASMPESKTDALDLCETFSIPYTEYSIAPYDAIFDSHFKDATLTRKGNFCARLRMAFLYDYSLKSDSLVIGTSNKSERMLGYGTLFGDLACAINPIGELFKTEVYELACHLNIPKKILNKPPSADLFVGQSDEKDLGYPYSVIDPLLKDIEALFQNKPIDAETLTQLGYDEILVKNIISRIQKNAFKLELPTIAKRFNPK
>NC_017378.1|WP_000833954.1|332341_333280_-|tetraacyldisaccharide-4'-kinase
MKSDKPFLERYFYDPTLLQKGLIFALYPFSLIYQGIATLKRKTAKKHDFKIPLISVGNLIAGGSGKTPFILETAPRYQEVAVISRGYQRDSKGLVVVSVKGNILVSQQTAGDEAYLLALNLKQASVIVSEKRELGVLKALELGAKIVFLDDGFRFNFNQFNLLLKPKVPPYYPFCLPSGLYRESIKSYKEAHLVITEDKDYKRITSISHPTKRMLLVTAIANPSRLDAFLPKEVVKKWYFRDHAPFDLKLLEKEFYQNNATSLLVTSKDLVKLQDCNLPLSVLDLKLEICPKILEQIDRYIFSYPCNTKEHL
>NC_017378.1|WP_000742642.1|331866_332409_+|UDP-4-amino-4,-6-dideoxy-N-acetyl-beta-L-altrosamine-N-acetyltransferase
MKKNYSYGNIQAIDFAHLNDEEKLLVLEFRNHPNTALWMYSAFISLKTHLQFIEDLKNSPNHRYFLFKEEGVYLGVGSITKINFFHKHGYLGIYKNPFLKNGGETILKALEYIAFEEFQLNSLHLEVMENNFKAIAFYEKNHYELEGRLKGFVSKEKEFIDVLLYYKDKKRYNDRSVLKF
>NC_017378.1|WP_041200296.1|339365_339692_+|lysozyme
MLCLSKLILAASFLIVDSEGFSPSIYTDKTGHPTIGYGYNLSVYSYEGKRITKPQAYGLLTDILKENHKALLSYGWYKNLDAMRRMVILDLSYNLGLSGLFKFKQFRP
>NC_017378.1|WP_014536872.1|340733_341519_+|hypothetical-protein
MFRCFKTILYASVIVGVLLGLWRWTYDKSCFSLFFVLLILGIVACSYISLKMHQRKCFAKCYVDKESRLFKMLHSPIMVSCFYFIFSIFTSVSIACSVLDYNWMMWGLVFCTILVCTAVFGVFEEMLKGIIKEDYLMLMSREASSFIGALFFVVLSCYVIYTNNIPGYLKPALIDTIKTASDSIYSSCDYMDYFLKVGKMLEGFAWWGMFKAESMGMNKGFMFAGWVVFIFYNAFSGIAISRLSAQIIYCLSKYFRGECGK
>NC_017378.1|WP_000426635.1|341508_342603_+|hypothetical-protein
MENDVKEDLEQARPKQEPEKQKQELEKLTQEKEQEIEKKEGRKYIYIFLGIIIVLFISYPIVSSIRYNEPSQAIKTAHTKTILETLPDLISDLIKNNLDSHQQEISDLLNSSKDKMYSKVDAQIDNLFDPIENNVDKFLDWHYSLKGNYSELALLAAKTIGSSAEDALFNKLQEKLLGADYKQRLKTMTDNISDAFISLLHQHKKDTEKIATQGVAGIPQVAESLKNINDRTERDLKLKMGFAAAIGATAGVGAGKLMERLVPKLIKKLGTKLGAKFLAKFGIAVGGILPALGADVAFNYIDEWLHRDDFKKEILNNINEAKKNLKESYKTGFDNSITKFSEKIQKDLKNIETISVQAHMEKLK
>NC_017378.1|WP_001117127.1|342658_343540_-|RluA-family-pseudouridine-synthase
MPFVEEEFEILKPTKALFFVRDVLKCSLKEAQRHLDKQRLKQNQQAVRKSQMIQGIVSLIHFKPNEKTQALVFETKDFGVFDKPPQVYTHPKGYFYHESLLDCIQSHFGKNAHPAHRLDYETSGLVLAGKTLQSAKDLKTLFMQKKVKKTYLALAHGLVDKNIVIDKPILTPQNIQKDLRIRSKISPLGKPSSTLIEPLSYNPFLDISLLKITPLTGRTHQIRLHLSSVGHRIVGEGLYGVIDENAREYLQLKRENNAPLLMLHASSLEFEFKGAIHEITSQMPKRFMPFLKD
>NC_017378.1|WP_000810726.1|343539_345090_-|single-stranded-DNA-specific-exonuclease-RecJ
MKQKLKAQIKERVASIAYKEKGFPSPFLFKDLKKAALKIIEAMRANTEILVVGDYDADGVISSTIMAKFFESLNYKHVRIVIPNRFIDGYGISKKFLEKHHAPLIITVDNGISAFEAARFCKEKNYTLIITDHHCLHHDEVPDAYAVINPKQPDCDFIQKEVCGALVAFYLCYGIHQLLGKEKSHSSELLCLAGVATIADMMPLTFFNRFLVSKALYFLQKESLGAMGFLRQREVFRKRSLKASDISFSIAPLINSAGRMQDAKMALDFLSANNFQDGYFLYERLKACNMKRKMIQQQVFEEAFKHAMVGEKIIVAFKDDWHEGVLGIVASKLVEATQKPSLVFTFKEGVYKGSGRSSSNIDLIDALNGVSSLLLGYGGHRQACGLSVGKNNIISLFETLENFDFKILPFCEKEPPLTLTLKDIDRELLEIIEAGEPYGQENPEPLFQAQNLEVIEEKIIKESHQVLRFKDKECVKEAIYFNTERFLKAGEKVSAIFSVELDECSNEPKMFVKSLL
>NC_017378.1|WP_000373243.1|345098_346715_-|CTP-synthase-(glutamine-hydrolyzing)
MDRAKFIFVTGGVLSSLGKGISSSSIATLLQHCNYQVSILKIDPYINIDPGTMSPLEHGEVFVTSDGAETDLDIGHYERFLNRNLTRLNNFTTGQIFSSVIENERKGEYLGKTIQIVPHVTDEIKRRIKSAANGLDFLIVEVGGTVGDMEGMFYLEAIRQLKLELGNEKVINVHVTLIPYIQTTNELKTKPTQHSVQELRRLGVTPQIILARSPKPLDKELKNKIALSCDVEQDSVIVATDTKSIYACPILFLQEGILTPIARRFNLNKLHPKMAAWNTLVEKIIAPKHKVKIGFVGKYLSLKESYKSLIEALIHAGAHLDTQVNIEWLDSENFNEKTDLEGVDALLVPGGFGERGIEGKICAIQRARLEKLPFLGICLGMQLAIVEFCRNVLGLKGANSTEFNQRCEYPVVYLIEDFIDQNHQKQVRTYNSPLGGTMRLGEYECEIVPNSLLEKAYKKPSIKERHRHRYEINPKYRQEWENKGLKVVGFGANHLIEAIELEDHPFFVGVQFHPEFTSRLQSPNPIILDFIKSALHKS
>NC_017378.1|WP_000829950.1|346970_347633_+|hypothetical-protein
MAENSFKNVTIQSKPFFLSQVKTLFLLGGVFSAFFILMVGLVFFDCTNSMDNAIFSLMRSNSSNPILDQTLQRIVFLGSSQFVLPLSLLVGVFLSLYRRNLALGVWFVLSVVLFEALLESLKHLLAHSIQWFSHSANFPNATALSLALFYGLLVLLIPHLITHQTLKNILFYSLFGLILLIGLALIVLGVSFSSVLGGFCLGALGACFSIGIYLSVFQKI
>NC_017378.1|WP_000364764.1|347676_349380_+|flagellar-basal-body-M-ring-protein-FliF
MDLKVLLQRIVDFFIKLNKKQKIALIAAGVLITALLVFLLLYPFKEKDYTQGGYGVLFERLDSSDNALILQHLQQNQIPYKVLKDDTILIPKDKVYEERITLASQGIPKTSKVGFEIFDTKDFGATDFDQNIKLIRAIEGELSRTIESLNPILKANVHIAIPKDSVFVAKEVPPSASVMLKLKPDMKLSPTQILGIKNLIAAAVPKLTTENVKIVNENGESIGEGDILENSKELALEQLRYKQNFENILENKIVNILAPIVGGKNKVVARVNAEFDFSQKKSTKETFDPNNVVRSEQNLEEKKEGAPKKQVGGVPGVVSNIGPVQGLKDNKEPEKYEKSQNTTNYEVGKTISEIKGEFGTLVRLNAAVVVDGKYKIALKDGANTLEYEPLSDESLKKINALVKQAIGYNQNRGDDVAVSNFEFNPITPMLDNATLSEKIMHKTQKILGSFTPLIKYILVFIVLFIFYKKVIVPFSERMLEVVPDEDKEVKSMFEEMDEEEDELNKLGDLRKKVEDQLGLNATFSEEEVRYEIVLEKIRGTLKERPDEIAMLFKLLIKDEISSDSAKG
>NC_017378.1|WP_000201852.1|349398_350430_+|flagellar-motor-switch-protein-FliG
MATKLTPKQKAQLDELSMSEKIAILLIQVGEDTTGEILRHLDIDSITEISKQIVQLNGTDKQIGAAVLEEFFAIFQSNQYINTGGLEYARELLTRTLGSEEAKKVMDKLTKSLQTQKNFAYLGKIKPQQLADFIINEHPQTIALILAHMEAPNAAETLSYFPDEMKAEISIRMANLGEISPQVVKRVSTVLENKLESLTSYKIEVGGLRAVAEIFNRLGQKSAKTTLARIESVDNKLAGAIKEMMFTFEDISKLDNFAIREILKVADKKDLSLALKTSTQDLTDKFLNNMSSRAAEQFVEEMQYLGAVKIKDVDVAQRKIIEIVQSLQEKGVIQTGEEEDVIE
>NC_017378.1|WP_000056251.1|350416_351193_+|flagellar-assembly-protein-FliH
MSLNSRKNLIQKDHLNKHDIQKYEFKSMANLPPKTNPNGASLETPNPEEPLEKKAIENDLIDCLLKKTDELSSHLVKLQMQFEKAQEESKALIENAKNDGYKIGFKEGEEKMRNELTHSVNEEKNQLLHAITALDEKMKKSQDHLMALEKELSAIAIDIAKEVILKEVEDNSQKVALALAEELLKNVLDATDIHLKVNPLDYPYLNERLQNASKIKLESNEAISKGGVMITSSNGSLDGNLMERFKTLKESVLENFKV

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Crispr_ID: NC_017378_2

CRISPR_ID

CRISPR_location

CRISPR_type

Repeat_type

Spacer_info

Cas_protein_info

CRISPR-Cas_info

NC_017378_2

922696-922784

Orphan

Consensus_repeat	Method
CAAGGGACTTACAACTTTAATAGCGCTCAATC	CRISPRCasFinder

1 spacers

The CRISPR arrays of NC_017378_2

>merge|NC_017378|2|922696-922784|CRISPRCasFinder
CAAGGGACTTACAACTTTAATAGCGCTCAATCTGTTTTTAACAACAGCAATTTCAACCAAGGGACTTACAACTTTAATAGCACTCAATC

>NC_017378|2|2|922696-922784|CRISPRCasFinder
CAAGGGACTTACAACTTTAATAGCGCTCAATC	TGTTTTTAACAACAGCAATTTCAAC
CAAGGGACTTACAACTTTAATAGCACTCAATC

Protein	Signature genes	Signature genes Name	Protein_function
NC_017378.1\|WP_000722415.1\|934749_935553_+\|5'/3'-nucleotidase-SurE	unknown	unknown	gnl\|CDD\|234732
NC_017378.1\|WP_000688621.1\|920775_921771_+\|type-I-glyceraldehyde-3-phosphate-dehydrogenase	unknown	unknown	gnl\|CDD\|273675
NC_017378.1\|WP_001240230.1\|919938_920631_-\|Bax-inhibitor-1/YccA-family-protein	unknown	unknown	gnl\|CDD\|198414
NC_017378.1\|WP_000426955.1\|933283_933826_+\|GTP-cyclohydrolase-I-FolE	unknown	unknown	gnl\|CDD\|129173
NC_017378.1\|WP_001126536.1\|916586_919844_-\|carbamoyl-phosphate-synthase-large-subunit	unknown	unknown	gnl\|CDD\|235393
NC_017378.1\|WP_080004525.1\|913535_915224_-\|TonB-dependent-receptor	unknown	unknown	gnl\|CDD\|366183
NC_017378.1\|WP_000592485.1\|908037_909591_+\|Hop-family-adhesin-AlpA	unknown	unknown	gnl\|CDD\|280099
NC_017378.1\|WP_001115881.1\|930288_930495_-\|4-oxalocrotonate-tautomerase-family-protein	unknown	unknown	gnl\|CDD\|129125
NC_017378.1\|WP_001248479.1\|911754_913299_-\|outer-membrane-beta-barrel-protein-HofG	unknown	unknown	gnl\|CDD\|334957
NC_017378.1\|WP_001099624.1\|930640_931222_+\|recombination-protein-RecR	unknown	unknown	gnl\|CDD\|273176
NC_017378.1\|WP_001172979.1\|929136_930234_+\|Hop-family-outer-membrane-protein-HopJ/HopK	unknown	unknown	gnl\|CDD\|280099
NC_017378.1\|WP_001064315.1\|933841_934753_+\|polyprenyl-synthetase-family-protein	unknown	unknown	gnl\|CDD\|223220
NC_017378.1\|WP_080004561.1\|904063_905212_+\|class-I-SAM-dependent-methyltransferase	unknown	unknown	gnl\|CDD\|223897
NC_017378.1\|WP_000894537.1\|905205_907236_+\|ATP-dependent-helicase	unknown	unknown	gnl\|CDD\|223288
NC_017378.1\|WP_001229982.1\|916150_916582_-\|hypothetical-protein	unknown	unknown	gnl\|CDD\|376519
NC_017378.1\|WP_000236822.1\|936212_936815_+\|6-pyruvoyl-tetrahydropterin-synthase-family-protein	unknown	unknown	gnl\|CDD\|223792
NC_017378.1\|WP_001052330.1\|931218_932364_+\|tRNA-pseudouridine(13)-synthase-TruD	unknown	unknown	gnl\|CDD\|272903
NC_017378.1\|WP_000042189.1\|935549_936209_+\|hypothetical-protein	unknown	unknown	unknown
NC_017378.1\|WP_080004526.1\|932302_933283_+\|zinc-metalloprotease-HtpX	unknown	unknown	gnl\|CDD\|235081
NC_017378.1\|WP_000812614.1\|909612_911208_+\|Hop-family-adhesin-AlpB	unknown	unknown	gnl\|CDD\|280099

Protein	Function_ID	Function_description	E-value
NC_017378.1\|WP_000722415.1\|934749_935553_+\|5'/3'-nucleotidase-SurE	gnl\|CDD\|234732	PRK00346, surE, 5'(3')-nucleotidase/polyphosphatase; Provisional.	3.91729e-126
NC_017378.1\|WP_000688621.1\|920775_921771_+\|type-I-glyceraldehyde-3-phosphate-dehydrogenase	gnl\|CDD\|273675	TIGR01534, Glyceraldehyde-3-phosphate_dehydrogenase, glyceraldehyde-3-phosphate dehydrogenase, type I. This model represents glyceraldehyde-3-phosphate dehydrogenase (GAPDH), the enzyme responsible for the interconversion of 1,3-diphosphoglycerate and glyceraldehyde-3-phosphate, a central step in glycolysis and gluconeogenesis. Forms exist which utilize NAD (EC 1.2.1.12), NADP (EC 1.2.1.13) or either (1.2.1.59). In some species, NAD- and NADP- utilizing forms exist, generally being responsible for reactions in the anabolic and catabolic directions respectively. Two Pfam models cover the two functional domains of this protein; pfam00044 represents the N-terminal NAD(P)-binding domain and pfam02800 represents the C-terminal catalytic domain. An additional form of gap gene is found in gamma proteobacteria and is responsible for the conversion of erythrose-4-phosphate (E4P) to 4-phospho-erythronate in the biosynthesis of pyridoxine. This pathway of pyridoxine biosynthesis appears to be limited, however, to a relatively small number of bacterial species although it is prevalent among the gamma-proteobacteria. This enzyme is described by TIGR001532. These sequences generally score between trusted and noise to this GAPDH model due to the close evolutionary relationship. There exists the possiblity that some forms of GAPDH may be bifunctional and act on E4P in species which make pyridoxine and via hydroxythreonine and lack a separate E4PDH enzyme (for instance, the GAPDH from Bacillus stearothermophilus has been shown to posess a limited E4PD activity as well as a robust GAPDH activity). There are a great number of sequences in the databases which score between trusted and noise to this model, nearly all of them due to fragmentary sequences. It seems that study of this gene has been carried out in many species utilizing PCR probes which exclude the extreme ends of the consenses used to define this model. The noise level is set relative not to E4PD, but the next closest outliers, the class II GAPDH's (found in archaea, TIGR01546) and aspartate semialdehyde dehydrogenase (ASADH, TIGR01296) both of which have highest-scoring hits around -225 to the prior model. [Energy metabolism, Glycolysis/gluconeogenesis].	2.73774e-159
NC_017378.1\|WP_001240230.1\|919938_920631_-\|Bax-inhibitor-1/YccA-family-protein	gnl\|CDD\|198414	cd10432, BI-1-like_bacterial, Bacterial BAX inhibitor (BI)-1/YccA-like proteins. This family is comprised of bacterial relatives of the mammalian members of the BAX inhibitor (BI)-1 like family of small transmembrane proteins, which have been shown to have an antiapoptotic effect either by stimulating the antiapoptotic function of Bcl-2, a well-characterized oncogene, or by inhibiting the proapoptotic effect of Bax, another member of the Bcl-2 family. In plants, BI-1 like proteins play a role in pathogen resistance. A characterized prokaryotic member, Escherichia coli YccA, has been shown to interact with ATP-dependent protease FtsH, which degrades abnormal membrane proteins as part of a quality control mechanism to keep the integrity of biological membranes.	1.36782e-52
NC_017378.1\|WP_000426955.1\|933283_933826_+\|GTP-cyclohydrolase-I-FolE	gnl\|CDD\|129173	TIGR00063, GTP_cyclohydrolase_1, GTP cyclohydrolase I. alternate names: Punch (Drosophila),GTP cyclohydrolase I (EC 3.5.4.16) catalyzes the biosynthesis of formic acid and dihydroneopterin triphosphate from GTP. This reaction is the first step in the biosynthesis of tetrahydrofolate in prokaryotes, of tetrahydrobiopterin in vertebrates, and of pteridine-containing pigments in insects. [Biosynthesis of cofactors, prosthetic groups, and carriers, Folic acid].	1.10164e-104
NC_017378.1\|WP_001126536.1\|916586_919844_-\|carbamoyl-phosphate-synthase-large-subunit	gnl\|CDD\|235393	PRK05294, carB, carbamoyl-phosphate synthase large subunit.	0
NC_017378.1\|WP_080004525.1\|913535_915224_-\|TonB-dependent-receptor	gnl\|CDD\|366183	pfam00593, TonB_dep_Rec, TonB dependent receptor. This model now only covers the conserved part of the barrel structure.	8.34943e-24
NC_017378.1\|WP_000592485.1\|908037_909591_+\|Hop-family-adhesin-AlpA	gnl\|CDD\|280099	pfam01856, HP_OMP, Helicobacter outer membrane protein. This family seems confined to Helicobacter. It is predicted to be an outer membrane protein based on its pattern of alternating hydrophobic amino acids similar to porins.	8.41657e-54
NC_017378.1\|WP_001115881.1\|930288_930495_-\|4-oxalocrotonate-tautomerase-family-protein	gnl\|CDD\|129125	TIGR00013, Probable_tautomerase_K2, 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function. [Energy metabolism, Other].	2.46126e-26
NC_017378.1\|WP_001248479.1\|911754_913299_-\|outer-membrane-beta-barrel-protein-HofG	gnl\|CDD\|334957	pfam02521, HP_OMP_2, Putative outer membrane protein. This family consists of putative outer membrane proteins from Helicobacter pylori (campylobacter pylori).	1.22245e-177
NC_017378.1\|WP_001099624.1\|930640_931222_+\|recombination-protein-RecR	gnl\|CDD\|273176	TIGR00615, Recombination_protein_RecR, recombination protein RecR. All proteins in this family for which functions are known are involved in the initiation of recombination and recombinational repair. RecF is also required. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair].	9.68647e-98
NC_017378.1\|WP_001172979.1\|929136_930234_+\|Hop-family-outer-membrane-protein-HopJ/HopK	gnl\|CDD\|280099	pfam01856, HP_OMP, Helicobacter outer membrane protein. This family seems confined to Helicobacter. It is predicted to be an outer membrane protein based on its pattern of alternating hydrophobic amino acids similar to porins.	2.54785e-47
NC_017378.1\|WP_001064315.1\|933841_934753_+\|polyprenyl-synthetase-family-protein	gnl\|CDD\|223220	COG0142, IspA, Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism].	1.20992e-77
NC_017378.1\|WP_080004561.1\|904063_905212_+\|class-I-SAM-dependent-methyltransferase	gnl\|CDD\|223897	COG0827, COG0827, Adenine-specific DNA methylase [DNA replication, recombination, and repair].	2.54364e-51
NC_017378.1\|WP_000894537.1\|905205_907236_+\|ATP-dependent-helicase	gnl\|CDD\|223288	COG0210, UvrD, Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair].	2.21836e-136
NC_017378.1\|WP_001229982.1\|916150_916582_-\|hypothetical-protein	gnl\|CDD\|376519	pfam01300, Sua5_yciO_yrdC, Telomere recombination. This domain has been shown to bind preferentially to dsRNA. The domain is found in SUA5 as well as HypF and YrdC. It has also been shown to be required for telomere recombniation in yeast.	2.87398e-05
NC_017378.1\|WP_001052330.1\|931218_932364_+\|tRNA-pseudouridine(13)-synthase-TruD	gnl\|CDD\|272903	TIGR00094, tRNA_pseudouridine_synthase_D, tRNA pseudouridine synthase, TruD family. an EGAD loading error caused one member to be called surE, but that's an adjacent gene. MJ11364 is a strong partial match from 50 to 230 aa. [Protein synthesis, tRNA and rRNA base modification].	9.3774e-141
NC_017378.1\|WP_000236822.1\|936212_936815_+\|6-pyruvoyl-tetrahydropterin-synthase-family-protein	gnl\|CDD\|223792	COG0720, COG0720, 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism].	4.89033e-21
NC_017378.1\|WP_080004526.1\|932302_933283_+\|zinc-metalloprotease-HtpX	gnl\|CDD\|235081	PRK02870, PRK02870, heat shock protein HtpX; Provisional.	0
NC_017378.1\|WP_000812614.1\|909612_911208_+\|Hop-family-adhesin-AlpB	gnl\|CDD\|280099	pfam01856, HP_OMP, Helicobacter outer membrane protein. This family seems confined to Helicobacter. It is predicted to be an outer membrane protein based on its pattern of alternating hydrophobic amino acids similar to porins.	3.52689e-53

>NC_017378.1|WP_000688621.1|920775_921771_+|type-I-glyceraldehyde-3-phosphate-dehydrogenase
MKIFINGFGRIGRCVLRAILERSDNPHLEVIGINDPANWEILAYLLEHDSAHGLLFKEVRYSNYKLIIGSLEIPVFNSIKDLKGVDVILECSGKFLEPKTLENYLLLGAKKVLLSAPFIGEYDEKQYPTLVYGVNHSLYQNQAIVSNASCTTNAIAPICAILDKAFGIKEGMLTTIHSYTSDQKLIDLAHPLDKRRSRAAASNIIPTTTKAALALHKVLPNLKNKMHGHSVRVPSLDVSMIDLSLFLEKKAPKDPINDLLIEASKGVLKGVLEIDLKERVSSDFISNPSSVIIAPDLTFTLENMVKIMGWYDNEWGYSHRLVDMAQFVYHY
>NC_017378.1|WP_001240230.1|919938_920631_-|Bax-inhibitor-1/YccA-family-protein
MALYDRADSRNAYAENSLLHESELVSFVKTTYKFFAGSLLLATIGALLGLMNFQAVVQYKWVFFIAEIAAFFGLMFSKSKPGLNLFMLFAFTSLSGVTLVPLLGMVIAKAGLGAIWQALGMTTIVFGLMSVYALKTKNDLANMGKMLFIALIVVVVCSLINLFLGSPMFQVVIAGASAILFSLYIAYDTQNIVKGMYDSPIDAAVSLYLDFLNVFISILQIIGIFSDRDK
>NC_017378.1|WP_001126536.1|916586_919844_-|carbamoyl-phosphate-synthase-large-subunit
MPKRTDISNILLIGSGPIVIGQACEFDYSGTQSCKTLKSLGYRVILINSNPATVMTDPEFSHQTYIQPITPENIAAIIKKEKIDAILPTMGGQTALNAVMQMHQKGMLEGVELLGAKIEAIKKGEDRQAFKEAMLKIGMDLPKGRYAYSELEALEAINEIGFPAIIRASFTLAGGGSGVAYNIEEFQELAKNALDASPINEILIEESLLGWKEYEMEVIRDNKDNCIIVCCIENIDPMGVHTGDSITIAPSLTLTDKEYQRMRDASFAILREIGVDTGGSNVQFAIHPETLRMVVIEMNPRVSRSSALASKATGFPIAKVATMLAVGFSLDEIQNDITNTPASFEPSLDYIVVKIPRFAFEKFAGVSSTLGTSMKSIGEVMAIGGNFLEALQKALCSLENNWLGFESLSKDLEMIKKEIRRPNFKRLLYIADAFRLGVCVDEVFELCQIDRWFLSQIQKLVKAEESINSSVLTDAKKLRGLKNLGFSDARIAAKIKENENLEVSPFEVELARMNLQIAPHFEEVDTCAAEFVSLTPYLYSTYAPNPLPPIENKQEKQEKKILIIGSGPNRIGQGIEFDYCCVHASFALKDLNIKSVMLNCNPETVSTDYDTSDTLYFEPIHFECVKSIIQRERVDGIIVHFGGQTPLKLAKDLAKMQAPIIGTPFKVIDIAEDREKFSLFLKELDIKQPENGMAKSVDEAYSIANVIGFPIIVRPSYVLGGQHMQILENIEELHHYLESVTHALEVSPKNPLLIDKFLEKAVELDVDAICDKKEVYIAGILQHIEEAGIHSGDSACFIPSTLSPKILDEIERVSAKIALHLGVVGLLNIQFAVHDNTLYLIEVNPRASRTVPFLSKALGVPLAKVATRVMVLEDLKEALKFYDKKNIVGYSKGVYKPKMPHFVALKEAVFPFNKLYGSDLILGPEMKSTGEVMGIARSLGLAFFKAQTACFNPIKNKGLIFVSIKDKDKEEACVLMKRLVQLGFELCATEGTHKALEKAGVESLKVLKISEGRPNVMDLMMNGEISMAINTSDHKSQDDAKLIRASVLKNHVSYFTTLSAIEVLILALEESSKEDELLALQDYLK
>NC_017378.1|WP_001229982.1|916150_916582_-|hypothetical-protein
MALVYLAQSDTTIGLLSKDSEKLNALKNRPKNQSVLIESADFTTLKSLVRAPNAFKNLIRRSAKTTFIYPNSKAVRVVRGRHGDFLKRFKTLYSTSANLTQCVYDKEIASKLADVVVSDERGLFESSSSKIFRLYKNKKVRIR
>NC_017378.1|WP_080004525.1|913535_915224_-|TonB-dependent-receptor
MAKINGYLSERDTLTLSYNMTRDNANRPLRANFTGTFLPYSCGDFNAFPNDKNPSDCLFENDASLFKTYSVNLVHNVSLNYEREGGSRFGDPKLKINGYTSIRNVQIDPLFRPNDIAAIIPFTPNPELGEENECVAQGGIYDATKQTCSITFKSLGGGSVVANKNLFIINSGFNANVIHTIDHKNDNLFEYGLNYQNLTTFDKAIPNSELVKPGDAPNACLRVTSPNDPNMNGRCQRNGATANVVGVYAQANYTLHPMVTLGAGTRYDVYTLVDKDWQLHITQGFSPSAALNVSPLENLNFRLSYAYVTRGPMPGGLVWMRQDNLRYNRNLKPEIGQNVEFNTEYSSKYFDFRAAGFVQLISNYINQFSSTLFVTNLPAQDIIYVPGYEVSGTAKYKGFSLGLSVARSWPSLKGRLIADVYELAATTGNVFILTASYTIPRTGLSITWLSRFVTDLSYCSYSPYRNGPTDIDRRPSNCPKTPGIFYVHKPGYGVSSFFVTYKPTYKKLEGLSLNAVFNNVFNQQYIDQASPVMSPDEPNQDKYARGMAEPGFNARFEISYKF
>NC_017378.1|WP_001248479.1|911754_913299_-|outer-membrane-beta-barrel-protein-HofG
MRQEKYFLASSLSLLSFLLCPVEAFDYRFSGRVENFSKIGFNNSQINTKKGIYPTESFIDIVTLVQVKVNLLPKGTENHRLSVSLGGAIAAIPYDKTKYYINQANGKVFGSIVENFIGGYHGYFFNKYLGPAYAGTSQSASYHARPYVVDTAFLKYDYKDVFGFKAGRYEANIDFMSGSNQGWEVYYQPYKTETQRLRFWWWSSFGRGLAFNSWIYEFFATVPYLKKGGNPSNSNDFINYGWHGITTTYSYKGLDAQFFYYFAPKTYNAPGFKLVYDTNRNFENVGFRSQSMIMTTFPLYYRGWYNPETNTYSLEDSTPHGSLLGRNGVTLNIRQVFWWDIFNWSIGFYNTFGNSDAFLGSHTMPRGNNTSYISNEISVTTRHAGMIGYDFWDNTAYDGLADAITNANTFTFYTSVGGIHKRFAWHVFGRISHANKNALGQVGRANEYSLQLNTSYAFTESIFLNFRITYYGARINKGYQVGYFGAPKFNNPDGDFSANYQDRSYMMTNLTLKF
>NC_017378.1|WP_000812614.1|909612_911208_+|Hop-family-adhesin-AlpB
MKQNLKPFKMIKENLMTQSQKVRFLAPLSLALSLSFNQVGAEEDGGFMTFGYELGQVVQQVKNPGKIKAEELAGLLNSTTTNNTNINIAGTGGNVAGTLGNLFMNQLGNLIDLYPTLNTSNIHQCGATNNGSGGATTAATTSGSSTSPCFQGNLALYNEMVSSIKTLSQDLKNNTFQGNNNTTSANLSNQLSNLNTASVYLAYMNSFLNANNQAGGIFQNNTNQAYGNGVTAQQIAYVLKQASITMGPSGNGGAAGAFLDAALAQHVFNSANAGNDLSAKEFTSLVQNIVNTSQNALTLANNANISNSTGYQVSYGGNIDQARSTQLLNNTTNTLAKVTALNNELKANPWLGNFAAGNSSQVNAFNGFITKIGYKQFFGENKNVGLRYYGFFSYNGAGVGNGPTYNQVNLLTYGVGTDVLYNVFSRSFGSRSLNAGFFGGIQLAGDTYISTLRNSPQLASRPTATKFQFLFDVGLRMNFGILKKDLKSHNQHSIEIGVQIPTIYNTYYKAGGAEVKYFRPYSVYWVYGYAF
>NC_017378.1|WP_000592485.1|908037_909591_+|Hop-family-adhesin-AlpA
MIKKNRTLFLSLALCASISYAEDDGGFFTVGYQLGQVMQDVQNPGGTKRDELARELNADTTNNILNNNTGGNVAGALSNAFSQYLYSLLGAYPEKLNGNDVSANALLGGAVGSGTCAAAGTAGGNSLNTQSACTAAGYYWLPSLSDRVLSTIGSQTNYGTNTNFPNMQQQLTYLNAANVFFNAMNKALAAKNGTNGASGATGQNGQTYSQQAIQYLQGQQNILNNAANLLKQDELLLEAFNSAVAANIGNKEFNSAVFTGLVQGIIDQSQSVYNELSKNPISGSAFDSATGGQLTNQANAVQGRANQLSNALYNAQVTLDKINALNNQVKSMPYLPQFRAGNSRATNILNGFYTKVGYKQFFGKKRNIGLRYYGFFSYNGASVGFRSTQNNVGLYTYGVGTDVLYNIFSRSYQNRSVDMGFFSGIQLAGETVQSTLRDDPNVKLHGKVNNTHFQFLFDFGMRMNFGKLDGKSNRHNQHTVEFGVVVPTIYNTYYKSAGTTVKYFRPYSVYWSYGYSF
>NC_017378.1|WP_000894537.1|905205_907236_+|ATP-dependent-helicase
MLETLQLNPEQLKAAKALKGYNLVIASAGTGKTSTIVGRILYLLDNGIKPEEILLLTFTNKASNEMIARVAKYSKLSSKIEAGTFHAVAYRYLKEHYPNLSLKQPKELKKLLESIVDTKNALTDDDKKPYTSQHLYALYSLYTNALKQEDFSAWLSHKNPEHTPYAAFYENILDEFENTKKKHNYIDYNDLLLLFKQAMLERPSPYKEVLCDEFQDTNPLQESILDAINPPSLFCVGDYDQSIYAFNGADISIISNFTQKYKNAQVFTLTKNYRSSKEILDLANQVIQHNERIYPKNLEVVKSGHFNKPALLNYNDNIAQCQDIAKRIVMRKNFKEVAVIFRNNASADQLEAALRSHNVPSKRKGSASFFESKEVALALDICALIFNPKDIMAAIHVLSYISDIGSNTAKDIHEALMLLGNGDLKLALTHPNKEAKIYTKKKEITSMGLFEEIFALENSSRFNSVIDKAFHSHPVLMHPKISLNGAKMLSDFFILYTKAPTHSPSALIKHILESAFFQTFKTRLLKERSKNKDGSYNEFKKLQAQKRFNEKMDLLSSLAKNYQNLGRFLNGTLIGSSEATQGEGVNLLSVHASKGLEFKDVYIIDLMEGRFPNHKLMNTGGGIEEERRLFYVAITRAKENLWLSYAKNELRENAKPKEHKPSVFLYEAGLLKPDLK
>NC_017378.1|WP_080004561.1|904063_905212_+|class-I-SAM-dependent-methyltransferase
MYQLDIKTLGQVFTPKNIVDFMLTLKHNHGSVLEPSAGDGSFLKRLKKAVGIEIDPKICPKNALCMDFFDYPLENQFDTIIGNPPYVKHKDIAPSAKEKLNYSLFDERSNLYLFFIEKAIKHLKPKGELIFITPRDFLKSTSSVKLNELIYKEGTITHFFELGDQKVFPNAMPNCVIFRFCKGNFSRITNDCLQFVCKKGILYFLNQSYTQKLSEVFKVKVGAVSGCDKIFKNEKYGNLEFVTSITKRTNVLEKMVFVNKPNDYLLQHKDSLMQRKIKKFNEANWFEWGRMHHISPKKRIYVNTKTRQKNPFFIHQCPNYDGSILALFPYNQNLNLQNLCDKLNAINWQELGFVCDGRFLFSQRSLENALLPKDFLNEDKTC
>NC_017378.1|WP_001172979.1|929136_930234_+|Hop-family-outer-membrane-protein-HopJ/HopK
MQKTLFSLSFSLFLSFCIAEENGAYASVGFEYSISHAIQHNNPFLNQERIQTISNAQNKIYKLNQVKNEITSMPKTFAYINNALKNNSQLTPTEIQAEKYYLQSTLKNIEKIVMLSGGAASNPQLVQALEKIQEPTNSPLELAENLKNLEAQFIQSQNRMLSSLSSQIAQISNSLNALDPNSYSKNVSSMYGVALNVGYKHFFTKKKNQGFRYYLFYDYGYTNFGFVGNGFDGLGKMNNHLYGLGIDYLYNFIDNAKKHSSVGFYAGFALAGSSWVGSGLSMWVSETDFINNYLINYQAKMHTSFFQIPLNFGVRVNMNRHNGFEMGLKIPLAINSFYETHGKGLNTSLFFKRLVVFNVSYVYSF
>NC_017378.1|WP_001115881.1|930288_930495_-|4-oxalocrotonate-tautomerase-family-protein
MPFINIKLVPENGGPTNEQKQQLIEGVSDLMVKVLNKNKASIVVIIDEVDSNNYGLGGESVHHLRQKN
>NC_017378.1|WP_001099624.1|930640_931222_+|recombination-protein-RecR
MNTYKNSLNHFLNLVDCLEKIPNVGKKSAFKMAYHLGLENPYLALKITHALENALENLKTCTSCNALSESEVCEICSDESRQNSQLCMVLHPRDVFILEDLKDFLGRYYVLNSIEEVDFNALEKRLIEENIKEIIFAFPPTLANDSLMLYIEDKLQHFHLTFTKIAQGVPTGVNFENIDSVSLSRAFNSRIKA
>NC_017378.1|WP_001052330.1|931218_932364_+|tRNA-pseudouridine(13)-synthase-TruD
MNLNFMPLLHAYNHANIDFYFNSSARDFCVHEVPLYEFSNTGEHAVIQVRKSGLNTLEMLQIFSQILGVRIAELGYAGLKDKNALTTQFISLPKKYAPLLEKNTSNFQERNLKILSLNYHHNKIKLGHLKGNRFFMRFKKMTPLNAQKTEQVLEQIAQFGMPNYFGAQRFGKFNDNHQEGLKILQNQTKFAHQKLNAFLISSYQSYLFNALLSKRLEISKIISAFSVKENLEFFKQKNLNINPNTLKALKNQAHPFKILEGDVMCHYPYGKFFDALELEKESERFLKKEAAPTGLLDGKKALYAKNLSLEIEKEFQNNLLSSHAKTLGSRRFFWVFVENVTSQYVKEKAQFELGFYLPKGSYASALLKEIKHEKGENNDEF
>NC_017378.1|WP_080004526.1|932302_933283_+|zinc-metalloprotease-HtpX
MRARCSKKSSMRKEKIMTNFEKIIAQNRIKTNAVLATYCVIFAFIGLLVDVIRINANDLGTALFKLMTFQIFPTITMIMFLVAFVIIVVCIQNFSSIMLSGDEYKLIDKSKVLSSKENQIHRLLLELLEEAKLHFEPKLYIIKAPYMNAFASGWNESNSLIALTSALIERLDRDELKAVIAHELSHIRHNDIRLTMCVGILSNIMLLVANFSVYFFMGNRKNSGANLARMILLVLQIILPFLTLLLQMYLSRTREYMADSGAAFLMHDNKPMIRALQKISNDYANNDYKGVDQNSTRSAAYLFSAEMFSTHPSIKNRIQSLSRRVI
>NC_017378.1|WP_000426955.1|933283_933826_+|GTP-cyclohydrolase-I-FolE
MENFFNQFFENIGEDKNREGLKETPKRVQELWKFLYKGYKEDPKVALKSAYFQGVCDEMIVAQNIEFYSTCEHHLLPFLGNISLGYIPKEKIVGISAIAKLIEIYSRRLQIQERLTTQIAETFDEIIEPRGVIVVCEAKHLCMSMQGVQKQNAIIKTSVLKGLFKKNPKTRAEFMQLLRS
>NC_017378.1|WP_001064315.1|933841_934753_+|polyprenyl-synthetase-family-protein
MNNPNLSFYYNECERFESFLNHHHLHLESFHPYLEKAFFEMVLNGGKRFRPKLFLAVLCALVGQKDYSNQQTEYFKIALSIECLHTYSLIHDDLPCMDNAALRRNHPTLHAKYDETTAVLIGDALNTYSFELLSNSLLESHIIVELIKILSANGGIKGMVLGQALDCYFENTPLNLEQLTFLHEHKTAKLISASLMMGLVASGIKDEELFKWLQDFGLKMGLCFQVLDDIIDVTQDEEESGKTTHLDSAKNSFVNLLGLEEANDYAQTLKTEVLDDLNLLKPAYPLLQENLNALLNTLFKGKT
>NC_017378.1|WP_000722415.1|934749_935553_+|5'/3'-nucleotidase-SurE
MKKILLTNDDGYHAKGIKALEEALEEVAEIYVVAPKHEKSACSQCITITAPLRAEKIKGKEGRHYRVDDGTPSDCVYLAINELFKHVCFDLVISGINLGSNMGEDTIYSGTVAGAIEGTIQGVPSIAISQILSNKNKNTPLNFDLAQKIIQDLVQNIFTNGYPLKGRKLLNVNVPNCSLQEYKGECITPKGYRLYKKEVHKRTDPKNESYFWLGLHPLEWQKRENEDRLSDFDAIASNHASITPLNLDLTSYDDLKNLESWHKGMLK
>NC_017378.1|WP_000042189.1|935549_936209_+|hypothetical-protein
MSKNRRLAFLGLIVGVLFFFSACEHRLHMGYYSEVTGDYLFNYNSTIVVAYDRSDAMTSYYINVIVYELQKLGFYNVFTQAEFPLDKAKNVIYARIVRNISAVPFYQYNYQLIDQVNKPCYFLGGQFYCSQTPTDYYAINGFSEQILMSANSHFILDWYDVVLQKRVLYVDGSVSGRTCGYQMLYRDLIKSTIKRIDFNRPERYYYNLRLPLYQPCYRQ
>NC_017378.1|WP_000236822.1|936212_936815_+|6-pyruvoyl-tetrahydropterin-synthase-family-protein
MVIRRLYKFCASHVVRNCSSLKCAQNIHGHNYEVEVFIETNRLDSANMALDFGLMQQEMQVFIESFDHAHHFWDKESDEFQRFIENHCVRYVKCSFNLSAESYALMFLYYLTRILQKSVFSNNEGELKISSVRVHETKNGYAESFLKDLENPHFKSLVHNRCVSFSQGIQNLWHDKDFFNKIISDEKQCFFHAKPLHQIP

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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_017378_2	2.1\|922728\|25\|NC_017378\|CRISPRCasFinder	922728-922752	25	NC_031922	Synechococcus phage S-CAM9 isolate 1109NB16, complete genome	27227-27251	3	0.88
NC_017378_2	2.1\|922728\|25\|NC_017378\|CRISPRCasFinder	922728-922752	25	KU686204	Synechococcus phage S-CAM9 isolate 0808SB05, complete genome	27227-27251	3	0.88
NC_017378_2	2.1\|922728\|25\|NC_017378\|CRISPRCasFinder	922728-922752	25	KU686205	Synechococcus phage S-CAM9 isolate 0908SB82, complete genome	27227-27251	3	0.88

1. spacer 2.1|922728|25|NC_017378|CRISPRCasFinder matches to NC_031922 (Synechococcus phage S-CAM9 isolate 1109NB16, complete genome) position: , mismatch: 3, identity: 0.88

tgtttttaacaacagcaatttcaac	CRISPR spacer
tgttatttacaacagcaatttcacc	Protospacer
**** ** *************** *

2. spacer 2.1|922728|25|NC_017378|CRISPRCasFinder matches to KU686204 (Synechococcus phage S-CAM9 isolate 0808SB05, complete genome) position: , mismatch: 3, identity: 0.88

tgtttttaacaacagcaatttcaac	CRISPR spacer
tgttatttacaacagcaatttcacc	Protospacer
**** ** *************** *

3. spacer 2.1|922728|25|NC_017378|CRISPRCasFinder matches to KU686205 (Synechococcus phage S-CAM9 isolate 0908SB82, complete genome) position: , mismatch: 3, identity: 0.88

tgtttttaacaacagcaatttcaac	CRISPR spacer
tgttatttacaacagcaatttcacc	Protospacer
**** ** *************** *

Prophage detection

Region	Region Position	Protein_number	Hit_taxonomy	Key_proteins	Att_site	Prophage annotation

Anti-CRISPR protein detection

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